-- dump date   	20140620_074218
-- class       	Genbank::CDS
-- table       	cds_note
-- id	note
YP_039478.1	binds to the dnaA-box as an ATP-bound complex at the origin of replication during the initiation of chromosomal replication; can also affect transcription of multiple genes including itself.
YP_039479.1	binds the polymerase to DNA and acts as a sliding clamp
YP_039480.1	Similar to Bacillus subtilis hypothetical protein YaaA SW:YAAA_BACSU (P05650) (71 aa) fasta scores: E(): 3.8e-07, 48.438% id in 64 aa, and to Bacillus halodurans hypothetical protein YyaA TR:Q9RCA0 (EMBL:AB013492) (73 aa) fasta scores: E(): 6.4e-07, 46.667% id in 60 aa
YP_039481.1	Required for DNA replication; binds preferentially to single-stranded, linear DNA
YP_039482.1	Previously sequenced as Staphylococcus aureus DNA gyrase subunit B GyrB SW:GYRB_STAAU (P20832) (643 aa) fasta scores: E(): 0, 99.844% id in 643 aa, Similar to Bacillus subtilis DNA gyrase subunit B GyrB SW:GYRB_BACSU (P05652) (638 aa) fasta scores: E(): 1.8e-166, 69.194% id in 633 aa. Similar to SAR0621, 23.973% identity (26.718% ungapped) in 146 aa overlap
YP_039483.1	Previously sequenced as Staphylococcus aureus DNA gyrase subunit A GyrA SW:GYRA_STAAU (P20831) (889 aa) fasta scores: E(): 0, 98.875% id in 889 aa, Similar to and to Bacillus subtilis DNA gyrase subunit A GyrA SW:GYRA_BACSU (P05653) (821 aa) fasta scores: E(): 5e-194, 64.485% id in 825 aa
YP_039484.1	Similar to Lactococcus lactis hypothetical protein YcfG TR:Q9CIU7 (EMBL:AE006263) (275 aa) fasta scores: E(): 5.6e-41, 47.445% id in 274 aa, and to Streptococcus thermophilus hypothetical protein YfoL SW:YFOL_STRTR (P96051) (278 aa) fasta scores: E(): 1.8e-40, 46.241% id in 266 aa
YP_039485.1	catalyzes the degradation of histidine to urocanate and ammmonia
YP_039486.1	catalyzes a two-step reaction, first charging a serine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA
YP_039487.1	Similar to Bacillus subtilis probable branched-chain amino acid transport protein AzlC SW:AZLC_BACSU (O07942) (254 aa) fasta scores: E(): 3.5e-12, 28.182% id in 220 aa, and to Lactococcus lactis possible amino acid permease YqfD TR:Q9CF68 (EMBL:AE006391) (235 aa) fasta scores: E(): 1.6e-31, 40.773% id in 233 aa
YP_039488.1	Similar to Lactococcus lactis hypothteical protein YqfC TR:Q9CF69 (EMBL:AE006391) (108 aa) fasta scores: E(): 2.5e-09, 35.294% id in 102 aa, and to Leishmania major hypothetical protein LM12.1384 TR:Q9GVH4 (EMBL:AL390114) (109 aa) fasta scores: E(): 0.35, 26.804% id in 97 aa
YP_039489.1	Similar to Corynebacterium glutamicum homoserine O-acetyltransferase MetA SW:METX_CORGL (O68640) (379 aa) fasta scores: E(): 1.4e-05, 28.412% id in 359 aa, and to Thermus aquaticus homoserine O-acetyltransferase Met2 SW:METX_THETH (Q9RA51) (380 aa) fasta scores: E(): 2.7e-12, 34.783% id in 345 aa. Possible alternative translational start site
YP_039490.1	Weak similarity to Bacillus halodurans hypothetical protein BH4032 TR:Q9K5Q6 (EMBL:AP001520) (312 aa) fasta scores: E(): 9.9e-12, 22.295% id in 305 aa, and to Bacillus subtilis hypothetical protein YybS SW:YYBS_BACSU (P37485) (309 aa) fasta scores: E(): 5e-10, 22.006% id in 309 aa. Possible alternative translational start site
YP_039491.1	Similar to Bacillus subtilis hypothetical protein YybT SW:YYBT_BACSU (P37484) (659 aa) fasta scores: E(): 1.4e-114, 50.779% id in 642 aa, and to Bacillus halodurans hypothetical protein BH4031 TR:Q9K5Q7 (EMBL:AP001520) (654 aa) fasta scores: E(): 1.6e-110, 45.912% id in 636 aa
YP_039492.1	in Escherichia coli this protein is wrapped around the base of the L1 stalk
YP_039493.1	Similar to Salmonella typhimurium replicative DNA helicase DnaB SW:DNAB_SALTY (P10338) (471 aa) fasta scores: E(): 1.8e-61, 44.812% id in 453 aa. Previously sequenced as Staphylococcus aureus helicase DnaC TR:Q9AQH7 (EMBL:AB054590) (466 aa) fasta scores: E(): 7.9e-176, 99.785% id in 466 aa
YP_039494.1	catalyzes the formation of N6-(1,2,-dicarboxyethyl)-AMP from L-aspartate, inosine monophosphate and GTP in AMP biosynthesis
YP_039495.1	Two-component regulatory system-family, response regulator protein. Previously sequenced as Staphylococcus aureus response regulator YycF TR:Q9XCM7 (EMBL:AF136709) (233 aa) fasta scores: E(): 1.5e-91, 100.000% id in 233 aa. Similar to Lactococcus lactis probable transcriptional regulatory protein ArcA TR:O86269 (EMBL:AJ001103) (233 aa) fasta scores: E(): 1.9e-57, 62.555% id in 227 aa. Similar to SAR1772, 52.155% identity (52.838% ungapped) in 232 aa overlap
YP_039496.1	Two-component regulatory system family, sensor kinase. Previously sequenced as Staphylococcus aureus two-component sensor histidine kinase YycG TR:Q9XCM6 (EMBL:AF136709) (608 aa) fasta scores: E(): 5.5e-214, 99.836% id in 608 aa. Similar to Bacillus subtilis probable two-component sensor histidine kinase YycG TR:Q45614 (EMBL:D78193) (611 aa) fasta scores: E(): 2e-98, 46.217% id in 608 aa
YP_039497.1	Similar to Bacillus subtilis hypothetical protein YycH TR:Q45613 (EMBL:D78193) (458 aa) fasta scores: E(): 2.7e-11, 19.697% id in 462 aa. Previously sequenced as Staphylococcus aureus hypothetical protein YycH TR:Q9RDT2 (EMBL:AJ012052) (465 aa) fasta scores: E(): 7.4e-166, 98.658% id in 447 aa. Possible alternative translational start site
YP_039498.1	Similar to Bacillus halodurans hypothetical protein BH4024 TR:Q9K5R4 (EMBL:AP001520) (262 aa) fasta scores: E(): 4.3e-11, 25.735% id in 272 aa. Previously sequenced as Staphylococcus aureus hypothetical protein YycI TR:Q9RDT1 (EMBL:AJ012052) (262 aa) fasta scores: E(): 4.1e-87, 97.710% id in 262 aa.
YP_039499.1	Similar to Bacillus subtilis hypothetical protein YycJ TR:Q45611 (EMBL:D78193) (268 aa) fasta scores: E(): 3e-60, 62.069% id in 261 aa. Previously sequenced as Staphylococcus aureus hypothetical protein YycJ TR:Q9RDT0 (EMBL:AJ012052) (269 aa) fasta scores: E(): 2.4e-103, 99.624% id in 266 aa
YP_039500.1	Internal region is similar to Discopyge ommata 5'-nucleotidase precursor protein SW:5NTD_DISOM (P29240) (577 aa) fasta scores: E(): 3.9e-19, 28.866% id in 582 aa, and to Rhizobium loti possible 5'-nucleotidase MLR3017 TR:BAB50004 (EMBL:AP003001) (706 aa) fasta scores: E(): 5.7e-22, 28.852% id in 610 aa. Probable LPXTG-sorted surface protein
YP_039501.1	SPOUT methyltransferase; crystal structure shows homodimer; in Escherichia coli this protein methylates pseudouridine at position 1915 of the 23S ribosomal RNA
YP_039502.1	Poor database matches. Previously sequenced as Staphylococcus aureus hypothetical protein TR:Q9KJC5 (EMBL:AF181950) (419 aa) fasta scores: E(): 2.6e-140, 99.752% id in 403 aa
YP_039503.1	No significant database matches. Doubtful CDS
YP_039504.1	Identical to Staphylococcus aureus IS431 transposase TR:BAB47631 (EMBL:AB037671) (224 aa) fasta scores: E(): 1.8e-88, 100.000% id in 224 aa, and similar to Staphylococcus epidermidis IS257 transposase Tnp TR:BAB39484 (EMBL:AB049452) (224 aa) fasta scores: E(): 1.4e-87, 99.107% id in 224 aa
YP_039505.1	No significant database matches. Doubtful CDS
YP_039506.1	Identical to Staphylococcus aureus plasmid (pUB110) recombination enzyme Pre SW:PRE2_STAAU (P22490) (420 aa) fasta scores: E(): 3e-135, 100.000% id in 420 aa, and highly similar to Staphylococcus cohnii plasmid (pIP1714) recombination/mobilization protein Pre TR:O87277 (EMBL:AF015628) (420 aa) fasta scores: E(): 1.1e-134, 99.762% id in 420 aa. Contains coiled-coiled domain, residues 189 to 213
YP_039507.1	Doubtful CDS. No significant database hits
YP_039508.1	Doubtful CDS. No significant database hits
YP_039509.1	Previously sequenced as Staphylococcus aureus bleomycin resistance protein Ble TR:BAA82230 (EMBL:D86934) (134 aa) fasta scores: E(): 3.6e-57, 99.254% id in 134 aa. Similar to Bacillus subtilis hypothetical protein YraH TR:O07918 (EMBL:X92868) (128 aa) fasta scores: E(): 0.0082, 26.357% id in 129 aa
YP_039510.1	Highly similar to Staphylococcus aureus plasmid (pUB110) kanamycin nucleotidyltransferase Knt SW:KANU_STAAU (P05057) (253 aa) fasta scores: E(): 2.4e-104, 99.605% id in 253 aa, and to Bacillus sp plasmid (pRBH1 and pTB913) kanamycin nucleotidyltransferase Knt SW:KANU_BACSP (P05058) (253 aa) fasta scores: E(): 5.9e-104, 99.209% id in 253 aa
YP_039511.1	Identical to Staphylococcus aureus IS431 transposase TR:BAB47631 (EMBL:AB037671) (224 aa) fasta scores: E(): 1.8e-88, 100.000% id in 224 aa, and similar to Staphylococcus epidermidis IS257 transposase Tnp TR:BAB39484 (EMBL:AB049452) (224 aa) fasta scores: E(): 1.4e-87, 99.107% id in 224 aa
YP_039512.1	Poor database matches. Previously sequenced as Staphylococcus aureus hypothetical protein TR:Q9XB76 (EMBL:D86934) (76 aa) fasta scores: E(): 2.7e-26, 100.000% id in 69 aa. CDS is 7 amino acids shorter at the C-terminus
YP_039513.1	Similar to Escherichia coli glycerophosphoryl diester phosphodiesterase UgpQ SW:UGPQ_ECOLI (P10908) (247 aa) fasta scores: E(): 1.6e-22, 35.443% id in 237 aa. Previously sequenced as Staphylococcus aureus glycerophosphoryldiester phosphodiesterase UgpQ TR:Q9S3K5 (EMBL:D86934) (247 aa) fasta scores: E(): 2e-93, 100.000% id in 247 aa
YP_039514.1	Previously sequenced as Staphylococcus aureus hypothetical protein TR:BAB47625 (EMBL:AB037671) (142 aa) fasta scores: E(): 2e-52, 100.000% id in 142 aa. Similar to Bacillus subtilis YdeM protein ydeM TR:P96670 (EMBL:AB001488) (141 aa) fasta scores: E(): 1.5e-30, 56.115% id in 139 aa
YP_039515.1	Identical to Staphylococcus epidermidis, and Staphylococcus aureus penicillin-binding protein 2 prime MecA TR:Q54113 (EMBL:X52592) (668 aa) fasta scores: E(): 0, 100.000% id in 668 aa, and to Staphylococcus sciuri methicillin resistanc protein MecA2 TR:O54283 (EMBL:Y13095) (668 aa) fasta scores: E(): 0, 99.102% id in 668 aa
YP_039516.1	Highly similar to Staphylococcus epidermidis, and Staphylococcus aureus methicillin resistance protein MecR1 SW:MECR_STAEP (P26597) (585 aa) fasta scores: E(): 0, 99.829% id in 585 aa, and to Staphylococcus sciuri methicillin resistance protein MecR1 TR:CAA73546 (EMBL:Y13096) (585 aa) fasta scores: E(): 0, 99.829% id in 585 aa
YP_039517.1	Previously sequenced as Staphylococcus epidermidis, and Staphylococcus aureus methicillin resistance regulatory protein MecI SW:MECI_STAEP (P26598) (123 aa) fasta scores: E(): 2.5e-41, 100.000% id in 114 aa. Similar to and to Staphylococcus haemolyticus beta-lactamase repressor BlaI TR:Q9K4N1 (EMBL:AJ400722) (126 aa) fasta scores: E(): 9e-20, 59.649% id in 114 aa. Similar to SAR1829, 59.649% identity (59.649% ungapped) in 114 aa overlap
YP_039518.1	Poor database matches. Previously sequenced as Staphylococcus aureus hypothetical protein TR:BAB47620 (EMBL:AB037671) (70 aa) fasta scores: E(): 6.3e-26, 100.000% id in 67 aa
YP_039519.1	Previously sequenced as Staphylococcus aureus hypothetical protein TR:BAB47615 (EMBL:AB037671) (354 aa) fasta scores: E(): 3.9e-133, 100.000% id in 354 aa. C-terminus is similar to Bacillus subtilis hypothetical protein YrkE SW:YRKE_BACSU (P54432) (160 aa) fasta scores: E(): 7.3e-25, 52.941% id in 153 aa
YP_039520.1	Previously sequenced as Staphylococcus aureus hypothetical protein TR:BAB47614 (EMBL:AB037671) (88 aa) fasta scores: E(): 2.8e-29, 100.000% id in 88 aa. Similar to Lactococcus lactis hypothetical protein YhjE TR:Q9CHE5 (EMBL:AE006312) (84 aa) fasta scores: E(): 3.2e-09, 42.683% id in 82 aa
YP_039521.1	Highly similar to Staphylococcus aureus transposon Tn554 hypothetical protein TR:Q48363 (EMBL:X03216) (220 aa) fasta scores: E(): 2.8e-82, 99.545% id in 220 aa, and to Lactococcus lactis hypothetical protein YljG TR:Q9CGB7 (EMBL:AE006350) (206 aa) fasta scores: E(): 3.2e-06, 25.837% id in 209 aa
YP_039522.1	Previously sequenced as Staphylococcus aureus macrolide-lincosamide-streptogramin B resistance protein, rRNA adenine N-6-methyltransferase ErmA SW:ERM1_STAAU (P06699) (243 aa) fasta scores: E(): 1.7e-90, 100.000% id in 243 aa. Similar to Streptococcus pyogenes erythromycin resistance methylase ErmTR TR:O07480 (EMBL:AF002716) (243 aa) fasta scores: E(): 7.2e-74, 81.070% id in 243 aa
YP_039523.1	Previously sequenced as Staphylococcus aureus streptomycin and spectomycin resistance protein, streptomycin 3''-adenylyltransferase Spc SW:S3AD_STAAU (P04827) (260 aa) fasta scores: E(): 4e-100, 100.000% id in 260 aa. Similar to Streptomyces coelicolor nucleotidyltransferase SCD19.10 TR:Q9F2Z2 (EMBL:AL392149) (257 aa) fasta scores: E(): 4.6e-34, 44.493% id in 227 aa
YP_039524.1	Previously sequenced as Staphylococcus aureus transposase C TnpC TR:BAB47665 (EMBL:AB037671) (125 aa) fasta scores: E(): 1.1e-36, 100.000% id in 125 aa. Similar to Clostridium butyricum similar hypothetical protein TR:Q45924 (EMBL:Z29084) (124 aa) fasta scores: E(): 2.1e-09, 41.818% id in 110 aa
YP_039525.1	Previously sequenced as Staphylococcus aureus transposon Tn554 transposase B TnpB SW:TNPB_STAAU (P06697) (630 aa) fasta scores: E(): 0, 100.000% id in 630 aa. Similar to Clostridium butyricum hypothetical protein TR:Q45923 (EMBL:Z29084) (660 aa) fasta scores: E(): 1.7e-14, 24.734% id in 659 aa
YP_039526.1	Previously sequenced as Staphylococcus aureus transposon Tn554 transposase A TnpA SW:TNPA_STAAU (P06696) (361 aa) fasta scores: E(): 6.8e-137, 99.723% id in 361 aa. Similar to Clostridium butyricum hypothetical protein TR:Q45922 (EMBL:Z29084) (364 aa) fasta scores: E(): 2.6e-28, 37.752% id in 347 aa
YP_039527.1	Previously sequenced as Staphylococcus aureus hypothetical protein Orf N043 TR:Q9KX75 (EMBL:D86934) (168 aa) fasta scores: E(): 2.5e-62, 100.000% id in 168 aa. Similar to Escherichia coli O157:H7 hypothetical protein ECS5248 TR:BAB38671 (EMBL:AP002569) (155 aa) fasta scores: E(): 7e-07, 31.333% id in 150 aa
YP_039528.1	Previously sequenced as Staphylococcus aureus hypothetical protein Orf N042 TR:Q9KX76 (EMBL:D86934) (103 aa) fasta scores: E(): 3.4e-41, 100.000% id in 103 aa
YP_039529.1	Previously sequenced as Staphylococcus aureus hypothetical protein Orf N041 TR:Q9KX77 (EMBL:D86934) (116 aa) fasta scores: E(): 2.5e-47, 100.000% id in 116 aa
YP_039530.1	Similar to Staphylococcus aureus site-specific recombinase CcrB TR:Q9XB94 (EMBL:D86934) (542 aa) fasta scores: E(): 5.6e-194, 99.815% id in 542 aa, and to lactococcal bacteriophage TP901-1 integrase Int TR:Q38184 (EMBL:X85213) (485 aa) fasta scores: E(): 2.6e-24, 28.880% id in 509 aa
YP_039531.1	Similar to Staphylococcus aureus, and site-specific recombinase CcrA TR:Q9XB96 (EMBL:D86934) (449 aa) fasta scores: E(): 4.4e-165, 95.323% id in 449 aa, and to Enterococcus faecalis bacteriophage phi-FC1 site-specific integrase TR:Q9XJF6 (EMBL:AF124258) (464 aa) fasta scores: E(): 8.9e-18, 26.154% id in 455 aa
YP_039532.1	Similar to Staphylococcus aureus hypothetical protein Orf N031TR:Q9KX82 (EMBL:D86934) (597 aa) fasta scores: E(): 0, 97.822% id in 597 aa. N-terminus is similar to SAR0075, 60.068% identity (60.690% ungapped) in 293 aa overlap and C-terminus is similar to SAR0074, 50.530% identity (51.254% ungapped) in 283 aa overlap
YP_039533.1	Previously sequenced as Staphylococcus aureus hypothetical protein Orf N030 TR:Q9KX83 (EMBL:D86934) (98 aa) fasta scores: E(): 3e-41, 100.000% id in 98 aa
YP_039534.1	Poor database matches. Similar to an internal region of Plasmodium falciparum exported serine/threonine protein kinase FesT TR:Q94658 (EMBL:U40232) (2510 aa) fasta scores: E(): 0.021, 23.416% id in 363 aa. Previously sequenced as Staphylococcus aureus hypothetical protein Orf N029 TR:Q9KX84 (EMBL:D86934) (348 aa) fasta scores: E(): 2.5e-118, 100.000% id in 348 aa
YP_039535.1	Similar to Bacillus anthracis similar IS1627s1 element OrfA TR:Q57266 (EMBL:U30714) (106 aa) fasta scores: E(): 3.2e-18, 51.456% id in 103 aa, and to Marinococcus halophilus  transposase TR:O06062 (EMBL:U66614) (110 aa) fasta scores: E(): 9.3e-13, 42.000% id in 100 aa
YP_039536.1	Two-component regulatory system family, response regulator protein. Similar to Escherichia coli kdp operon transcriptional regulatory protein KdpE SW:KDPE_ECOLI (P21866) (225 aa) fasta scores: E(): 2.7e-28, 41.593% id in 226 aa. Previously sequenced as Staphylococcus aureus kdp operon transcriptional regulatory protein KdpE TR:Q9XBA2 (EMBL:D86934) (231 aa) fasta scores: E(): 5.5e-88, 100.000% id in 231 aa. Similar to SAR2167, 61.233% identity (61.778% ungapped) in 227 aa overlap
YP_039537.1	Two-component regulatory system family, sensor kinase. Similar to Clostridium acetobutylicum histidine kinase sensor protein KdpD SW:KDPD_CLOAB (P94608) (900 aa) fasta scores: E(): 1.2e-75, 29.538% id in 887 aa, and to Rhizobium loti two-component sensor KdpD TR:BAB50088 (EMBL:AP003001) (907 aa) fasta scores: E(): 3.5e-70, 28.699% id in 899 aa. Similar to SAR2166, 58.142% identity (58.613% ungapped) in 872 aa overlap
YP_039538.1	catalyzes the hydrolysis of ATP coupled with the exchange of hydrogen and potassium ions
YP_039539.1	one of the components of the high-affinity ATP-driven potassium transport (or KDP) system, which catalyzes the hydrolysis of ATP coupled with the exchange of hydrogen and potassium ions
YP_039540.1	Poor database matches. Similar to the C-terminal region of Staphylococcus aureus hypothetical protein Orf N031 TR:Q9KX82 (EMBL:D86934) (597 aa) fasta scores: E(): 4.4e-48, 49.823% id in 283 aa. Similar to C-terminal region of SAR0061, 50.530% identity (51.254% ungapped) in 283 aa overlap. Possible C-terminal region of a nonsense mutated protein
YP_039541.1	Poor database matches. Similar to the N-terminal region of Staphylococcus aureus hypothetical protein Orf N031 sa0059 TR:Q9KX82 (EMBL:D86934) (597 aa) fasta scores: E(): 2.1e-70, 60.068% id in 293 aa. Similar to N-terminal region of SAR0061, 60.068% identity (60.690% ungapped) in 293 aa overlap. Possible N-terminal region of a nonsense mutated protein
YP_039542.1	Doubtful CDS. No significant database hits
YP_039543.1	Poor database matches. Previously sequenced as Staphylococcus aureus hypothetical protein Orf N009 TR:Q9KX87 (EMBL:D86934) (124 aa) fasta scores: E(): 3.8e-45, 100.000% id in 124 aa CDS is extended at the N-terminus in comparison to the previously sequenced protein. Possible alternative translational start site
YP_039544.1	Poor database matches. Previously sequenced as Staphylococcus aureus hypothetical protein Orf N008 TR:Q9KX88 (EMBL:D86934) (95 aa) fasta scores: E(): 2.8e-37, 98.947% id in 95 aa
YP_039545.1	Poor database matches. Previously sequenced as Staphylococcus aureus hypothetical protein Orf N007 TR:Q9KX89 (EMBL:D86934) (208 aa) fasta scores: E(): 1.1e-78, 100.000% id in 208 aa
YP_039546.1	Previously sequenced as Staphylococcus aureus hypothetical protein TR:Q9XBB4 (EMBL:D86934) (502 aa) fasta scores: E(): 9e-192, 99.801% id in 502 aa. Similar to Lactococcus lactis serine/threonine protein kinase PknB TR:Q9CEF5 (EMBL:AE006418) (627 aa) fasta scores: E(): 2.1e-13, 28.527% id in 319 aa. C-terminus is similar to SAR0083, 50.000% identity (50.000% ungapped) in 52 aa overlap
YP_039547.1	No significant database matches to the full length CDS. Similar to internal regions of Saccharomyces cerevisiae intracellular protein transport protein Uso1 SW:USO1_YEAST (P25386) (1790 aa) fasta scores: E(): 6.7e-06, 21.105% id in 706 aa, and to Plasmodium chabaudi repeat organellar protein TR:Q25662 (EMBL:U43145) (1939 aa) fasta scores: E(): 0.00059, 23.381% id in 556 aa
YP_039548.1	Similar to Bacillus halodurans transposase TR:Q9JWP9 (EMBL:AP001518) (94 aa) fasta scores: E(): 7e-19, 62.637% id in 91 aa, and to Enterococcus faecium transposase TR:O69430 (EMBL:AJ223633) (96 aa) fasta scores: E(): 4.2e-18, 63.736% id in 91 aa
YP_039549.1	Similar to Bacillus halodurans transposase TR:Q9JWR5 (EMBL:AP001518) (261 aa) fasta scores: E(): 2e-49, 52.453% id in 265 aa, and to Enterococcus faecium transposase TR:O69429 (EMBL:AJ223633) (282 aa) fasta scores: E(): 1.9e-45, 53.252% id in 246 aa
YP_039550.1	Poor database matches. Previously sequenced as Staphylococcus aureus hypothetical protein TR:BAB47138 (EMBL:AB047239) (171 aa) fasta scores: E(): 4.7e-63, 100.000% id in 171 aa
YP_039551.1	Identical to Staphylococcus aureus transposase TR:O87114 (EMBL:AB010124) (328 aa) fasta scores: E(): 2.6e-127, 100.000% id in 315 aa, and similar to Bacillus halodurans transposase BH3950 TR:Q9JWR3 (EMBL:AP001520) (314 aa) fasta scores: E(): 2.9e-71, 58.413% id in 315 aa
YP_039552.1	Poor database matches. N-terminal region is identical to Staphylococcus aureus hypothetical protein TR:BAB47137 (EMBL:AB047239) (82 aa) fasta scores: E(): 8.8e-27, 100.000% id in 82 aa. Similar to internal region of Saccharomyces cerevisiae hypothetical protein O5254 SW:YO7T_YEAST (Q08647) (676 aa) fasta scores: E(): 7, 31.000% id in 100 aa
YP_039553.1	C-terminal region is similar to the C-terminus of Escherichia coli 5-methylcytosine-specific restriction enzyme B McrB SW:MCRB_ECOLI (P15005) (459 aa) fasta scores: E(): 6.8e-41, 47.284% id in 313 aa, and to an internal region of Campylobacter jejuni  endonuclease CJ0139 TR:Q9PIY8 (EMBL:AL139074) (783 aa) fasta scores: E(): 7.2e-13, 26.962% id in 586 aa
YP_039554.1	McrC protein together with McrB forms the McrBC restriction system; recognizes N4- and C5-methylcytosine (and 5-hydroxy-methylcytosines); appears to act against 5-methylcytosine preceded by a purine residue; MrcC modulates the specificty of McrB and has DNA cleavage activity
YP_039557.1	Similar to C-terminal regions of Mycobacterium tuberculosis insertion sequence IS1534 protein IstB TR:AAK48099 (EMBL:AE007172) (248 aa) fasta scores: E(): 0.0017, 46.875% id in 32 aa, and to Escherichia coli insertion sequence IS21  ATP-binding protein IstB SW:ISTB_ECOLI (P15026) (265 aa) fasta scores: E(): 0.0062, 44.118% id in 34 aa. Probable gene remnant
YP_039558.1	Similar to Arthrobacter keyseri oxalomesaconate hydratase PcmD TR:Q9AGL5 (EMBL:AF331043) (342 aa) fasta scores: E(): 5e-05, 23.607% id in 305 aa, and to Synechocystis sp hypothetical protein SLR0619 TR:Q55861 (EMBL:D64004) (348 aa) fasta scores: E(): 5.6e-12, 25.157% id in 318 aa
YP_039559.1	Poor database matches. N-terminal region is similar to Staphylococcus carnosus hypothetical protein TR:O54485 (EMBL:U96107) (61 aa) fasta scores: E(): 0.005, 36.066% id in 61 aa
YP_039560.1	Similar to Bacillus subtilis homologue of possible multidrug resistance protein YcnB TR:P94422 (EMBL:D50453) (472 aa) fasta scores: E(): 2.7e-75, 48.444% id in 450 aa, and to Corynebacterium glutamicum possible lincomycin resistance protein LmrB TR:Q9L6D2 (EMBL:AF237667) (481 aa) fasta scores: E(): 1.1e-52, 36.564% id in 454 aa
YP_039561.1	Similar to Vibrio cholerae hemagglutinin/protease regulatory protein HapR TR:O30343 (EMBL:AF000716) (203 aa) fasta scores: E(): 0.24, 23.858% id in 197 aa, and to Pasteurella multocida hypothetical protein PM1155 TR:Q9CLQ9 (EMBL:AE006156) (199 aa) fasta scores: E(): 0.028, 23.280% id in 189 aa
YP_039562.1	Similar to Bacillus subtilis hypothetical protein YxbD SW:YXBD_BACSU (P46328) (159 aa) fasta scores: E(): 4.6e-16, 43.046% id in 151 aa, and to Bacillus subtilis hypothetical protein YdhI SW:YDHI_BACSU (O05501) (160 aa) fasta scores: E(): 4e-16, 40.132% id in 152 aa
YP_039563.1	Similar to Bacillus subtilis hypothetical protein YfjN TR:O31546 (EMBL:Z99108) (325 aa) fasta scores: E(): 1.2e-101, 75.385% id in 325 aa, and to Borrelia burgdorferi  histidine phosphokinase/phophatase BB0737 TR:O51679 (EMBL:AE001173) (335 aa) fasta scores: E(): 1.2e-31, 36.677% id in 319 aa
YP_039564.1	Similar to internal regions of Sulfolobus solfataricus cobalamin biosynthesis protein B CbiB TR:AAK43329 (EMBL:AE006912) (305 aa) fasta scores: E(): 1.9, 30.612% id in 49 aa, and Methanococcus jannaschii hypothetical protein MJ0139 SW:Y139_METJA (Q57603) (209 aa) fasta scores: E(): 2.4, 35.417% id in 48 aa
YP_039565.1	Poor database matches. N-terminal region is similar to the N-terminus of Spirochaeta aurantia hypothetical protein SW:YTR3_SPIAU (P22043) (115 aa) fasta scores: E(): 1.5e-05, 35.366% id in 82 aa
YP_039566.1	Poor database matches. Similar to internal region of Sulfolobus solfataricus multidrug resistance related protein SSO0548 TR:AAK40865 (EMBL:AE006685) (393 aa) fasta scores: E(): 1.8, 26.066% id in 211 aa, and to C-terminus of Coxiella burnetii cell division protein FtsW TR:Q9XCY0 (EMBL:AF123260) (372 aa) fasta scores: E(): 4.5, 22.872% id in 188 aa
YP_039567.1	Internal region is similar to an internal region of Plasmodium falciparum hypothetical protein PFB0765W TR:O96246 (EMBL:AE001417) (980 aa) fasta scores: E(): 0.052, 23.104% id in 567 aa, and to N-terminal region of Sulfolobus solfataricus purine NTPase SSO2249 TR:AAK42417 (EMBL:AE006829) (864 aa) fasta scores: E(): 0.068, 23.700% id in 654 aa. Contains coiled-coiled domain, residues 621 to 644
YP_039569.1	Similar to Staphylococcus aureus 1-phosphatidylinositol phosphodiesterase precursor Plc SW:PLC_STAAU (P45723) (311 aa) fasta scores: E(): 4.6e-114, 95.833% id in 312 aa, and to Bacillus cereus 1-phosphatidylinositol phosphodiesterase precursor SW:PLC_BACCE (P14262) (329 aa) fasta scores: E(): 5.4e-22, 38.650% id in 326 aa
YP_039570.1	No database matches. Similar to several Staphylococcus aureus CDSs, SAR2570, 63.320% identity (64.314% ungapped) in 259 aa overlap, SAR0444, 63.118% identity (65.613% ungapped) in 263 aa overlap, SAR2573, 59.846% identity (61.265% ungapped) in 259 aa overlap and SAR0445, 50.000% identity (53.571% ungapped) in 270 aa overlap
YP_039571.1	No significant database matches to the full length CDS. N-terminal region is similar to Erwinia chrysanthemi arabinose operon regulatory protein AraC SW:ARAC_ERWCH (P07642) (310 aa) fasta scores: E(): 1.4e-07, 23.755% id in 261 aa, and Bacillus subtilis hypothetical protein YbfI TR:O31449 (EMBL:Z99105) (275 aa) fasta scores: E(): 1.6e-12, 29.707% id in 239 aa
YP_039572.1	Similar to Lactococcus lactis aminoacylase Amd1 TR:Q9L9P4 (EMBL:AF168363) (398 aa) fasta scores: E(): 8.3e-79, 53.368% id in 386 aa, and to Bacillus halodurans N-acyl-L-amino acid amidohydrolase BH1613 TR:Q9KCF8 (EMBL:AP001512) (404 aa) fasta scores: E(): 3.7e-62, 45.153% id in 392 aa
YP_039573.1	Similar to Streptomyces virginiae virginiamycin S resistance protein VarS TR:Q9XE01 (EMBL:AB019519) (518 aa) fasta scores: E(): 3.6e-23, 26.957% id in 460 aa, and to Streptomyces coelicolor  transmembrane efflux protein SCH10.26C TR:Q9X8R5 (EMBL:AL049754) (484 aa) fasta scores: E(): 5.6e-24, 27.115% id in 461 aa. Similar to SAR1448, 71.082% identity (71.082% ungapped) in 453 aa overlap and SAR2534, 59.913% identity (60.706% ungapped) in 459 aa overlap
YP_039574.1	Similar to Bacillus halodurans hypothetical protein BH1407 TR:Q9KD12 (EMBL:AP001511) (543 aa) fasta scores: E(): 6.4e-87, 48.339% id in 542 aa, and to Streptococcus pyogenes hypothetical protein SPY1695 TR:Q99YH9 (EMBL:AE006599) (543 aa) fasta scores: E(): 1.2e-74, 43.438% id in 541 aa
YP_039575.1	in group A Streptococci this protein was found to cross react with anti myosin antibodies and may play a role in rheumatic fever
YP_039576.1	Poor database matches. Similar to Archaeoglobus fulgidus hypothetical protein AF0163 TR:O30074 (EMBL:AE001095) (183 aa) fasta scores: E(): 0.16, 27.333% id in 150 aa, and to Mycoplasma pulmonis hypothetical protein TR:CAC13365 (EMBL:AL445563) (167 aa) fasta scores: E(): 3.5, 27.481% id in 131 aa
YP_039577.1	Similar to Escherichia coli L-lactate permease LldP SW:LLDP_ECOLI (P33231) (551 aa) fasta scores: E(): 1.2e-49, 43.414% id in 539 aa, and to Bacillus halodurans L-lactate permease LctP TR:Q9K5Z9 (EMBL:AP001520) (524 aa) fasta scores: E(): 2.3e-115, 59.322% id in 531 aa. Similar to SAR2455, 65.977% identity (66.352% ungapped) in 532 aa overlap
YP_039578.1	Previously sequenced as Staphylococcus aureus immunoglobulin G binding protein A precursor Spa SW:SPA2_STAAU (P38507) (508 aa) fasta scores: E(): 1.6e-150, 98.062% id in 516 aa. Similar to Staphylococcus carnosus human serum albumin-binding cell surface precursor PPMABPXM TR:Q53833 (EMBL:U15516) (666 aa) fasta scores: E(): 2.6e-53, 50.484% id in 517 aa. Probable LPXTG-sorted surface protein
YP_039579.1	C-terminus is similar to Staphylococcus aureus staphylococcal accessory regulator A SarA TR:Q53777 (EMBL:U46541) (113 aa) fasta scores: E(): 1.1e-07, 35.849% id in 106 aa. Full length CDS is similar to Staphylococcus aureus Rot-like protein, agr locus activator, Rlp TR:Q9EZK4 (EMBL:AF288788) (247 aa) fasta scores: E(): 1.9e-29, 38.683% id in 243 aa
YP_039580.1	Similar to Erwinia chrysanthemi achromobactin ABC transporter permease CbrC SW:CBRC_ERWCH (Q47086) (349 aa) fasta scores: E(): 3.1e-36, 37.309% id in 327 aa. Previously sequenced as Staphylococcus aureus  siderophore transport protein SirC TR:O87493 (EMBL:AF079518) (332 aa) fasta scores: E(): 7.1e-108, 97.289% id in 332 aa
YP_039581.1	Similar to Erwinia chrysanthemi achromobactin ABC transporter permease CbrB SW:CBRB_ERWCH (Q47085) (340 aa) fasta scores: E(): 1.5e-44, 43.077% id in 325 aa. Previously sequenced as Staphylococcus aureus  siderophore transport protein SirB TR:O87492 (EMBL:AF079518) (331 aa) fasta scores: E(): 5.9e-109, 99.396% id in 331 aa
YP_039582.1	Previously sequenced as Staphylococcus aureus iron-regulated lipoprotein SirA TR:O87491 (EMBL:AF079518) (330 aa) fasta scores: E(): 6.5e-114, 99.697% id in 330 aa. Similar to Erwinia chrysanthemi achromobactin-binding periplasmic protein precursor CbrA SW:CBRA_ERWCH (Q47084) (305 aa) fasta scores: E(): 3.2e-28, 36.431% id in 269 aa
YP_039583.1	Similar to Alcaligenes eutrophus  cysteine synthase CysM SW:CYSM_ALCEU (Q44004) (339 aa) fasta scores: E(): 2.3e-48, 45.231% id in 325 aa, and to Helicobacter pylori J99  cysteine synthase CysM SW:CYSM_HELPJ (Q9ZMW6) (305 aa) fasta scores: E(): 4e-30, 34.098% id in 305 aa
YP_039584.1	Similar to Rhizobium meliloti ornithine cyclodeaminase Ocd SW:OCD_RHIME (P33728) (320 aa) fasta scores: E(): 3e-14, 22.727% id in 330 aa, and to Archaeoglobus fulgidus ornithine cyclodeaminase AF1665 TR:O28608 (EMBL:AE000988) (322 aa) fasta scores: E(): 2.5e-25, 31.953% id in 338 aa
YP_039585.1	C-terminal region is similar to C-terminus of Escherichia coli aerobactin siderophore biosynthesis protein IucC SW:IUCC_ECOLI (Q47318) (580 aa) fasta scores: E(): 6.1e-10, 25.926% id in 459 aa. Full length CDS is similar to Bacillus halodurans hypothetical protein BH2618 TR:Q9K9M7 (EMBL:AP001516) (601 aa) fasta scores: E(): 3.1e-13, 22.165% id in 582 aa
YP_039586.1	Similar to Streptococcus pneumoniae multi-drug resistance efflux pump PmrA TR:Q9ZEX9 (EMBL:AJ007367) (399 aa) fasta scores: E(): 3.4e-23, 25.123% id in 406 aa, and to Lactococcus lactis multidrug resistance efflux pump PmrB TR:Q9CJ75 (EMBL:AE006250) (398 aa) fasta scores: E(): 6e-29, 26.873% id in 387 aa
YP_039587.1	Similar to Rhizobium meliloti rhizobactin siderophore biosynthesis protein RhsC SW:RHSC_RHIME (Q9Z3R0) (585 aa) fasta scores: E(): 2.6e-31, 26.723% id in 595 aa, and to Escherichia coli aerobactin siderophore biosynthesis protein IucA SW:IUCA_ECOLI (Q47316) (575 aa) fasta scores: E(): 3.4e-23, 23.639% id in 588 aa
YP_039588.1	Similar to Rhizobium meliloti rhizobactin siderophore biosynthesis protein RhsF SW:RHSF_RHIME (Q9Z3Q7) (601 aa) fasta scores: E(): 3.5e-43, 28.571% id in 560 aa, and to Escherichia coli aerobactin siderophore biosynthesis protein IucC SW:IUCC_ECOLI (Q47318) (580 aa) fasta scores: E(): 1.1e-28, 24.912% id in 566 aa
YP_039589.1	Similar to Escherichia coli 5-keto-4-deoxy-D-glucarate aldolase GarL SW:GARL_ECOLI (P23522) (256 aa) fasta scores: E(): 3.2e-17, 29.832% id in 238 aa, and to Rhizobium loti 4-hydroxy-2-oxovalerate aldolase MLL5426 TR:BAB51880 (EMBL:AP003006) (264 aa) fasta scores: E(): 1.5e-21, 34.956% id in 226 aa
YP_039590.1	Similar to Pseudomonas fluorescens diaminopimelate decarboxylase LysA SW:DCDA_PSEFL (O05321) (416 aa) fasta scores: E(): 5.1e-16, 27.671% id in 365 aa, and to Bacillus circulans butirosin-biosynthetic gene cluster protein BtrK TR:Q9F1Z3 (EMBL:AB033991) (428 aa) fasta scores: E(): 4.8e-30, 31.152% id in 382 aa
YP_039593.1	Similar to Lactococcus lactis diacetyl-acetoin reductase Dar TR:Q9RLV7 (EMBL:AJ012388) (256 aa) fasta scores: E(): 2.4e-38, 48.221% id in 253 aa, and to Klebsiella pneumoniae acetoin BudC SW:BUDC_KLEPN (Q48436) (256 aa) fasta scores: E(): 4e-53, 58.893% id in 253 aa
YP_039594.1	Doubtful CDS. No significant database hits
YP_039595.1	Similar to Salmonella typhi Vi antigen polysaccharide biosynthesis protein VipB SW:VIPB_SALTI (Q04973) (348 aa) fasta scores: E(): 1.3e-27, 34.756% id in 328 aa, and to Lactococcus lactis  UDP-glucose 4-epimerase YcbD TR:Q9CIZ5 (EMBL:AE006259) (313 aa) fasta scores: E(): 9.7e-48, 41.967% id in 305 aa
YP_039596.1	Similar to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap5M TR:P95706 (EMBL:U81973) (185 aa) fasta scores: E(): 1.7e-21, 41.622% id in 185 aa, and to Bacillus halodurans teichuronic acid biosynthesis protein TuaA TR:Q9K6S6 (EMBL:AP001519) (205 aa) fasta scores: E(): 1.2e-24, 47.531% id in 162 aa
YP_039597.1	Similar to Streptococcus pneumoniae galactosyl transferase Cap8H TR:Q9X9A5 (EMBL:AJ239004) (354 aa) fasta scores: E(): 3.2e-08, 24.510% id in 306 aa, and to Thermotoga maritima  lipopolysaccharide biosynthesis protein TM0622 TR:Q9WZ90 (EMBL:AE001736) (388 aa) fasta scores: E(): 1.9e-10, 25.000% id in 396 aa
YP_039598.1	Similar to Streptococcus pneumoniae type 2 capsular polysaccharide biosynthesis protein Cps2H TR:Q9ZII1 (EMBL:AF026471) (387 aa) fasta scores: E(): 0.00016, 23.558% id in 416 aa, and to Actinobacillus actinomycetemcomitans (Haemophilus actinomycetemcomitans) serotype d-specific polysaccharide biosynthetesis protein TR:Q9JRS0 (EMBL:AB041266) (431 aa) fasta scores: E(): 0.0017, 21.362% id in 426 aa
YP_039599.1	Similar to Yersinia enterocolitica lipopolysaccharide O-unit flippase TrsA TR:Q56913 (EMBL:Z47767) (418 aa) fasta scores: E(): 7.6e-18, 24.257% id in 404 aa, and to Streptococcus thermophilus hypothetical protein EpsI TR:AAK61904 (EMBL:AF373595) (471 aa) fasta scores: E(): 5.2e-46, 30.917% id in 469 aa
YP_039600.1	Previously sequenced as Staphylococcus aureus superoxide dismutase SodM TR:Q9EZZ2 (EMBL:AF273269) (187 aa) fasta scores: E(): 6.2e-77, 100.000% id in 187 aa. Similar to Staphylococcus xylosus superoxide dismutase Sod TR:Q9K4V3 (EMBL:AJ276960) (199 aa) fasta scores: E(): 2.5e-65, 76.382% id in 199 aa. Similar to SAR1630, 74.874% identity (74.874% ungapped) in 199 aa overlap
YP_039601.1	No significant database matches. Possible LPXAG-sorted surface protein
YP_039602.1	Similar to Pseudomonas fluorescens transcriptional repressor of the trehalose operon TreR TR:Q9F8X4 (EMBL:AF229829) (234 aa) fasta scores: E(): 7.1e-05, 26.267% id in 217 aa, and to Streptococcus pyogenes transcriptional regulator SPY1870 TR:Q99Y48 (EMBL:AE006612) (247 aa) fasta scores: E(): 8.3e-19, 28.879% id in 232 aa
YP_039603.1	catalyzes the reversible phosphorolysis of ribonucleosides and 2'- deoxyribonucleosides to the free base and (2'-deoxy)ribose-1- phosphate
YP_039604.1	Similar to Bacillus subtilis tetracycline resistance protein TetB SW:TCRB_BACSU (P23054) (458 aa) fasta scores: E(): 2.2e-28, 26.201% id in 458 aa, and to Staphylococcus hyicus tetracycline resistance protein Tet SW:TCR_STAHY (P36890) (458 aa) fasta scores: E(): 6.8e-28, 25.764% id in 458 aa
YP_039605.1	catalyzes the formation of D-glyceraldehyde 3-phosphate and acetaldehyde from 2-deoxy-D-ribose-5-phosphate
YP_039606.1	catalyzes the transfer of phosphate between the C1 and C5 carbons of pentose
YP_039607.1	Similar to Escherichia coli phosphonates ABC transporter permease PhnE SW:PHNE_ECOLI (P16683) (276 aa) fasta scores: E(): 5.6e-26, 35.341% id in 249 aa, and to Bacillus halodurans phosphonates transporter BH0442 TR:Q9KFN7 (EMBL:AP001508) (267 aa) fasta scores: E(): 8.5e-49, 52.896% id in 259 aa
YP_039608.1	Similar to Escherichia coli phosphonates ABC transporter permease PhnE SW:PHNE_ECOLI (P16683) (276 aa) fasta scores: E(): 2.3e-27, 36.032% id in 247 aa, and to Bacillus halodurans phosphonates transport system BH0441 TR:Q9KFN8 (EMBL:AP001508) (263 aa) fasta scores: E(): 1.6e-44, 49.615% id in 260 aa
YP_039609.1	Similar to Escherichia coli phosphonates transport ATP-binding protein PhnC SW:PHNC_ECOLI (P16677) (262 aa) fasta scores: E(): 2e-30, 43.750% id in 256 aa, and to Bacillus halodurans transporter BH0440 TR:Q9KFN9 (EMBL:AP001508) (257 aa) fasta scores: E(): 4.2e-57, 69.841% id in 252 aa
YP_039610.1	Similar to an internal region of Escherichia coli phosphonates-binding periplasmic protein precursor PhnD SW:PHND_ECOLI (P16682) (338 aa) fasta scores: E(): 7.5e-10, 24.101% id in 278 aa. Full length CDS is similar to Bacillus halodurans hypothetical protein BH0439 TR:Q9KFP0 (EMBL:AP001508) (317 aa) fasta scores: E(): 1.4e-55, 54.693% id in 309 aa
YP_039611.1	No significant database matches to the full length CDS. Internal region of CDS is similar to an internal region Arabidopsis thaliana hypothetical protein F4P12_240 TR:Q9LFG5 (EMBL:AL132966) (932 aa) fasta scores: E(): 1, 24.390% id in 328 aa
YP_039612.1	Similar to Escherichia coli 2',3'-cyclic-nucleotide 2'-phosphodiesterase CpdB SW:CN16_ECOLI (P08331) (647 aa) fasta scores: E(): 5.4e-09, 25.279% id in 538 aa, and to Lactococcus lactis  phosphatase YcjM TR:Q9CIQ3 (EMBL:AE006267) (519 aa) fasta scores: E(): 7.5e-74, 38.477% id in 512 aa
YP_039613.1	Poor database matches. Similar to Borrelia burgdorferi plasmid hypothetical protein TR:Q44710 (EMBL:U03641) (371 aa) fasta scores: E(): 0.89, 22.222% id in 234 aa
YP_039614.1	Poor database matches. Similar to Neisseria meningitidis transcriptional regulator NMB2012 TR:Q9JXJ6 (EMBL:AE002551) (363 aa) fasta scores: E(): 3e-09, 25.714% id in 350 aa, and to Mycobacterium tuberculosis DNA-binding protein MT2073 TR:AAK46351 (EMBL:AE007058) (346 aa) fasta scores: E(): 0.0001, 28.012% id in 332 aa
YP_039615.1	Similar to Escherichia coli aldehyde-alcohol dehydrogenase [includes: alcohol dehydrogenase, acetaldehyde dehydrogenase and pyruvate-formate-lyase-deactivase] AdhE SW:ADHE_ECOLI (P17547) (890 aa) fasta scores: E(): 3.4e-140, 48.601% id in 858 aa, and to Entamoeba histolytica aldehyde-alcohol dehydrogenase 2 [includes: alcohol dehydrogenase, acetaldehyde dehydrogenase, and pyruvate-formate-lyase-deactivase] Adh2 SW:ADH2_ENTHI (Q24803) (870 aa) fasta scores: E(): 4.8e-170, 52.887% id in 866 aa
YP_039616.1	Highly similar to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap5A TR:P95695 (EMBL:U81973) (222 aa) fasta scores: E(): 1.3e-72, 99.550% id in 222 aa, and to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap8A TR:P72367 (EMBL:U73374) (222 aa) fasta scores: E(): 5.2e-72, 98.649% id in 222 aa, Similar to SAR2745, 52.489% identity (52.727% ungapped) in 221 aa overlap
YP_039617.1	Highly imilar to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap8B TR:P72368 (EMBL:U73374) (228 aa) fasta scores: E(): 3.8e-77, 96.491% id in 228 aa, and to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap5B TR:P95696 (EMBL:U81973) (228 aa) fasta scores: E(): 1e-76, 95.614% id in 228 aa. Similar to SAR2744, 5.895% identity (56.140% ungapped) in 229 aa overlap
YP_039618.1	Highly imilar to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap8C TR:P72369 (EMBL:U73374) (254 aa) fasta scores: E(): 1.5e-96, 99.213% id in 254 aa, and to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap5C TR:P95697 (EMBL:U81973) (254 aa) fasta scores: E(): 4.2e-96, 98.425% id in 254 aa. Similar to SAR2743, 52.549% identity (53.175% ungapped) in 255 aa overlap
YP_039619.1	Highly similar to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap5D TR:P95698 (EMBL:U81973) (607 aa) fasta scores: E(): 1.5e-214, 99.012% id in 607 aa, and to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap8D TR:P72370 (EMBL:U73374) (607 aa) fasta scores: E(): 8.4e-214, 98.682% id in 607 aa
YP_039620.1	Identical to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap8E TR:P72371 (EMBL:U73374) (342 aa) fasta scores: E(): 4.3e-127, 100.000% id in 342 aa Highly similar to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap5E TR:P95699 (EMBL:U81973) (342 aa) fasta scores: E(): 1e-126, 99.708% id in 342 aa
YP_039621.1	Highly similar to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap5F TR:P95700 (EMBL:U81973) (371 aa) fasta scores: E(): 3.6e-143, 99.187% id in 369 aa, and to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap8F TR:P72372 (EMBL:U73374) (371 aa) fasta scores: E(): 4.6e-141, 97.832% id in 369 aa
YP_039622.1	Highly similar to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap8G TR:P72373 (EMBL:U73374) (374 aa) fasta scores: E(): 2.2e-139, 99.465% id in 374 aa, and to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap5G TR:P95701 (EMBL:U81973) (374 aa) fasta scores: E(): 9.9e-139, 99.198% id in 374 aa
YP_039623.1	Similar to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap8H TR:P72374 (EMBL:U73374) (359 aa) fasta scores: E(): 2.4e-129, 93.872% id in 359 aa, and to Streptococcus pneumoniae capsular polysaccharide synthesis enzyme O-antigen translocase WciK TR:Q9AHC9 (EMBL:AF316639) (358 aa) fasta scores: E(): 5.2e-26, 31.319% id in 364 aa
YP_039624.1	Poor database matches. Similar to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap8I TR:P72375 (EMBL:U73374) (464 aa) fasta scores: E(): 2e-161, 98.060% id in 464 aa
YP_039625.1	Identical to aureus capsular polysaccharide synthesis enzyme Cap8J TR:P72376 (EMBL:U73374) (185 aa) fasta scores: E(): 7.2e-73, 100.000% id in 185 aa. C_terminal region is similar to the C-terminus of Vibrio cholerae probable galactoside-O-acetyl transferase WblB TR:O87158 (EMBL:AB012957) (161 aa) fasta scores: E(): 4.6e-10, 38.333% id in 120 aa
YP_039626.1	Similar to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap8K TR:P72377 (EMBL:U73374) (412 aa) fasta scores: E(): 2.9e-128, 97.573% id in 412 aa, and to Pseudomonas aeruginosa protein O-antigen translocase WbpF TR:P72137 (EMBL:U50396) (411 aa) fasta scores: E(): 3.5e-19, 22.850% id in 407 aa
YP_039627.1	Highly similar to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap5L TR:P95705 (EMBL:U81973) (401 aa) fasta scores: E(): 1.5e-152, 99.501% id in 401 aa, and to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap8L TR:P72378 (EMBL:U73374) (401 aa) fasta scores: E(): 8.6e-151, 98.005% id in 401 aa
YP_039628.1	Similar to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap5M TR:P95706 (EMBL:U81973) (185 aa) fasta scores: E(): 4.5e-69, 99.459% id in 185 aa, and to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap8M TR:P72379 (EMBL:U73374) (185 aa) fasta scores: E(): 6.1e-69, 98.378% id in 185 aa
YP_039629.1	Highly similar to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap5N TR:P95707 (EMBL:U81973) (295 aa) fasta scores: E(): 1.7e-110, 98.644% id in 295 aa, and to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap8N TR:P72380 (EMBL:U73374) (295 aa) fasta scores: E(): 1.4e-109, 97.966% id in 295 aa
YP_039630.1	Highly imilar to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap5O TR:P95708 (EMBL:U81973) (420 aa) fasta scores: E(): 3.9e-157, 99.048% id in 420 aa, and to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap8O TR:P72381 (EMBL:U73374) (420 aa) fasta scores: E(): 1.6e-156, 99.048% id in 420 aa
YP_039631.1	Highly similar to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap8P TR:P72382 (EMBL:U73374) (391 aa) fasta scores: E(): 2.4e-146, 98.721% id in 391 aa, and to Staphylococcus aureus capsular polysaccharide synthesis enzyme Cap5P TR:P95709 (EMBL:U81973) (391 aa) fasta scores: E(): 2.8e-146, 98.465% id in 391 aa. Similar to SAR2199, 60.372% identity (60.372% ungapped) in 376 aa overlap
YP_039632.1	iron regulated; catalyzes the release of heme from hemoglobin allowing bacterial pathogens to use the host heme as an iron source
YP_039633.1	Similar to Staphylococcus carnosus hypothetical protein TR:Q9F328 (EMBL:AJ279090) (129 aa) fasta scores: E(): 4.4e-25, 55.118% id in 127 aa, and to Pasteurella multocida hypothetical protein PM0679 TR:Q9CMX2 (EMBL:AE006104) (120 aa) fasta scores: E(): 1.2e-11, 33.333% id in 120 aa
YP_039634.1	Similar to Vibrio cholerae aldehyde dehydrogenase AldA SW:DHAL_VIBCH (P23240) (506 aa) fasta scores: E(): 7.5e-81, 44.490% id in 490 aa, and to Alteromonas sp aldehyde dehydrogenase OlgA TR:O50609 (EMBL:AB009654) (505 aa) fasta scores: E(): 8.8e-78, 43.035% id in 481 aa
YP_039635.1	Similar to Alcaligenes sp cation efflux system protein CzcD SW:CZCD_ALCSP (P94178) (316 aa) fasta scores: E(): 6.7e-32, 36.458% id in 288 aa, and to Staphylococcus aureus zinc resistance protein CzrB TR:Q9ZNF5 (EMBL:AB016431) (325 aa) fasta scores: E(): 6.9e-38, 41.237% id in 291 aa
YP_039637.1	Poor database matches. Similar to Synechococcus sp alpha-helical coiled-coil protein SrpF TR:Q9R6V4 (EMBL:AF176824) (175 aa) fasta scores: E(): 1.8e-21, 42.515% id in 167 aa
YP_039638.1	Similar to Synechococcus sp nitrate transport ATP-binding protein NrtD SW:NRTD_SYNP7 (P38046) (274 aa) fasta scores: E(): 9.7e-28, 40.343% id in 233 aa, and to Phormidium laminosum ATP binding protein NrtC-Phl TR:Q51882 (EMBL:Z19598) (625 aa) fasta scores: E(): 7.4e-29, 43.154% id in 241 aa
YP_039639.1	Internal region of CDS is similar to internal regions of Escherichia coli taurine-binding periplasmic protein precursor TauA SW:TAUA_ECOLI (Q47537) (320 aa) fasta scores: E(): 0.2, 25.410% id in 244 aa, and Escherichia coli  aliphatic sulfonates binding protein precursor SsuA SW:SSUA_ECOLI (P75853) (319 aa) fasta scores: E(): 0.00019, 22.509% id in 271 aa
YP_039640.1	Similar to Escherichia coli taurine ABC transporter permease TauC SW:TAUC_ECOLI (Q47539) (275 aa) fasta scores: E(): 5.2e-22, 29.084% id in 251 aa, and to Pseudomonas aeruginosa probable permease of ABC transporter PA3443 TR:Q9HYG3 (EMBL:AE004765) (262 aa) fasta scores: E(): 6.8e-28, 34.034% id in 238 aa
YP_039641.1	Similar to Solanum tuberosum isovaleryl-CoA dehydrogenase precursor Ivd1 TR:Q9FS88 (EMBL:AJ278987) (412 aa) fasta scores: E(): 0.14, 19.805% id in 308 aa, and to Neisseria meningitidis acyl-CoA dehydrogenase NMB0994 TR:Q9JZL9 (EMBL:AE002450) (363 aa) fasta scores: E(): 1.2e-22, 30.636% id in 346 aa
YP_039642.1	Similar to Bacillus subtilis hypothetical protein YrhF SW:YRHF_BACSU (O05398) (122 aa) fasta scores: E(): 2.4e-11, 36.937% id in 111 aa. C-terminal region is similar to Bacillus halodurans hypothetical protein BH2529 TR:Q9K9W6 (EMBL:AP001515) (82 aa) fasta scores: E(): 2.1e-06, 44.000% id in 75 aa
YP_039643.1	Catalyzes the reversible two-electron oxidation of formate to carbon dioxide. It allows the assimilation of carbon dioxide and provides energy for growth through oxidative phosphorylation coupled to the reduction of oxygen, nitrate, sulphate or fumarate
YP_039644.1	Similar to Lactococcus lactis proton motive force-dependent drug transporter LmrP TR:Q48658 (EMBL:X89779) (408 aa) fasta scores: E(): 2.4e-09, 24.096% id in 415 aa, and to Deinococcus radiodurans integral membrane protein LmrP TR:Q9RZS1 (EMBL:AE001826) (432 aa) fasta scores: E(): 2.2e-27, 27.094% id in 406 aa
YP_039645.1	Similar to the N-terminal region of Bacillus licheniformis bacitracin synthetase 3 BacC SW:BACC_BACLI (O68008) (6359 aa) fasta scores: E(): 2.8e-147, 32.871% id in 2093 aa, and to Bacillus subtilis peptide synthetase PpsD TR:P94459 (EMBL:Z34883) (3603 aa) fasta scores: E(): 4.2e-166, 31.103% id in 2122 aa
YP_039646.1	N-terminus is similar to N-terminal regions of Bacillus subtilis lipopeptide antibiotics iturin A and surfactin biosynthesis protein Lpa-14 SW:LP14_BACSU (P39144) (224 aa) fasta scores: E(): 3e-07, 30.682% id in 176 aa, and Bacillus pumilus surfactin synthesis regulator Psf-1 SW:PSF1_BACPU (P55810) (233 aa) fasta scores: E(): 3.6e-07, 30.508% id in 177 aa
YP_039647.1	Similar to Lactococcus lactis hypothetical protein YreD TR:Q9CEZ2 (EMBL:AE006399) (178 aa) fasta scores: E(): 6.7e-30, 47.771% id in 157 aa, and to Campylobacter jejuni integral membrane protein CJ0014C TR:Q9PJ97 (EMBL:AL139074) (174 aa) fasta scores: E(): 8.7e-24, 42.424% id in 165 aa
YP_039648.1	Similar to Bacillus stearothermophilus acetylglutamate kinase ArgB SW:ARGB_BACST (Q07905) (258 aa) fasta scores: E(): 1.8e-24, 35.294% id in 255 aa, and to Bacillus halodurans N-acetylglutamate 5-phosphotransferase ArgB TR:Q9K8V4 (EMBL:AP001517) (260 aa) fasta scores: E(): 3.7e-27, 36.328% id in 256 aa
YP_039649.1	bifunctional arginine biosynthesis protein ArgJ; functions at the 1st and 5th steps in arginine biosynthesis; involved in synthesis of acetylglutamate from glutamate and acetyl-CoA and ornithine by transacetylation between acetylornithine and glutmate
YP_039650.1	catalyzes the reduction of N-acetyl-5-glutamyl phosphate to N-acetyl-L-glutamate 5-semialdehyde in arginine biosynthesis and the reduction of N-acetyl-gamma-aminoadipyl-phosphate to N-acetyl-L-aminoadipate-semialdehyde in lysine biosynthesis; involved in both the arginine and lysine biosynthetic pathways; lysine is produced via the AAA pathway, lysine from alpha-aminoadipate
YP_039651.1	Similar to the C-terminal region of Rattus norvegicus ornithine aminotransferase precursor protein Oat SW:OAT_RAT (P04182) (439 aa) fasta scores: E(): 1e-68, 46.770% id in 387 aa, and to Bacillus subtilis ornithine aminotransferase RocD SW:OAT_BACSU (P38021) (401 aa) fasta scores: E(): 4.6e-84, 51.151% id in 391 aa. Similar to SAR0919, 57.179% identity (57.179% ungapped) in 390 aa overlap
YP_039652.1	Similar to Lactobacillus delbrueckii branched-chain amino acid transport system carrier protein BrnQ SW:BRNQ_LACDL (P54104) (446 aa) fasta scores: E(): 1.5e-65, 46.347% id in 438 aa, and to Bacillus subtilis branched-chain amino acid transport system carrier protein BrnQ SW:BRNQ_BACSU (P94499) (440 aa) fasta scores: E(): 4.7e-62, 44.196% id in 448 aa
YP_039653.1	Similar to Bacillus subtilis hypothetical protein YwoC TR:P94573 (EMBL:Z82987) (189 aa) fasta scores: E(): 1.5e-29, 48.649% id in 185 aa, and to Escherichia coli hypothetical protein YecD SW:YECD_ECOLI (P37347) (199 aa) fasta scores: E(): 1.5e-20, 40.541% id in 185 aa
YP_039654.1	Similar to Enterobacter cloacae indole-3-pyruvate decarboxylase IpdC SW:DCIP_ENTCL (P23234) (552 aa) fasta scores: E(): 1.6e-73, 39.060% id in 553 aa, and to Pseudomonas putida indolepyruvate decarboxylase IpdC TR:Q9FDC2 (EMBL:AF285632) (546 aa) fasta scores: E(): 2.6e-74, 39.241% id in 553 aa
YP_039655.1	Similar to Staphylococcus carnosus PTS system, glucose-specific IIABC component GlcA TR:Q57071 (EMBL:X93360) (675 aa) fasta scores: E(): 1.8e-187, 75.695% id in 683 aa, and to Bacillus halodurans PTS system, glucose-specific enzyme II, A component BH0844 TR:Q9KEK8 (EMBL:AP001510) (675 aa) fasta scores: E(): 1.8e-144, 59.647% id in 679 aa. Similar to SAR2618, 59.584% identity (61.692% ungapped) in 673 aa overlap
YP_039656.1	Similar to Lactococcus lactis hypothetical protein YleB TR:Q9CGG7 (EMBL:AE006345) (353 aa) fasta scores: E(): 1.3e-32, 33.239% id in 355 aa, and to Bacillus halodurans hypothetical protein BH3573 TR:Q9K701 (EMBL:AP001519) (351 aa) fasta scores: E(): 2.9e-27, 31.534% id in 352 aa
YP_039657.1	catalyzes the cleavage of the lactyl ether moiety of N-acetylmuramic acid-6-phosphate (MurNAc-6-P) to form N-acetylglucosamine-6-phosphate (GlcNAc-6-P) and lactate; involved in MurNAc dissimilation pathway
YP_039658.1	Similar to Salmonella typhimurium PTS system, sucrose-specific IIBC component ScrA SW:PTSB_SALTY (P08470) (456 aa) fasta scores: E(): 1e-28, 31.092% id in 476 aa, and to Lactococcus lactis sucrose-specific PTS system IIBC component YleD TR:Q9CGG5 (EMBL:AE006345) (454 aa) fasta scores: E(): 5.1e-88, 56.710% id in 462 aa
YP_039659.1	Similar to Lactococcus lactis transcription regulator YleF TR:Q9CGG3 (EMBL:AE006345) (283 aa) fasta scores: E(): 1.5e-26, 32.971% id in 276 aa, and to Thermotoga maritima hypothetical protein RpiR family transcriptional regulator TM0326 SW:Y326_THEMA (Q9WYG1) (280 aa) fasta scores: E(): 2.8e-19, 29.720% id in 286 aa. Similar to SAR2399, 54.639% identity (54.828% ungapped) in 291 aa overlap
YP_039660.1	Poor database matches, similar to an internal region of Schizolachnus pineti ATP synthase A chain subunit 6 Atp6 TR:Q9B6H4 (EMBL:AJ298678) (217 aa) fasta scores: E(): 2.1, 30.208% id in 96 aa. Doubtful CDS
YP_039661.1	Similar to Escherichia coli type I restriction enzyme EcoR124II R protein HsdR SW:T1R1_ECOLI (P10486) (1033 aa) fasta scores: E(): 3.2e-17, 35.119% id in 1008 aa, and to Helicobacter pylori type I restriction enzyme R protein HP0846 TR:O25517 (EMBL:AE000595) (866 aa) fasta scores: E(): 6.6e-77, 37.355% id in 862 aa
YP_039662.1	Previously sequenced as Staphylococcus aureus hypothetical 33.2 kDa protein TR:Q9RL83 (EMBL:Y18638) (280 aa) fasta scores: E(): 3.8e-98, 96.774% id in 279 aa. Internal region of the CDS is similar internal region of bacteriophage P4 cII protein SW:RCII_BPP4 (P13059) (264 aa) fasta scores: E(): 0.00028, 26.222% id in 225 aa
YP_039663.1	Similar to Rhizobium meliloti probable ABC transporter ATP-binding protein SMA1434 TR:AAK65441 (EMBL:AE007265) (550 aa) fasta scores: E(): 3.9e-76, 44.318% id in 528 aa, and to Rhizobium loti peptide ABC transporter ATP-binding protein MLL5490 TR:BAB51933 (EMBL:AP003006) (543 aa) fasta scores: E(): 6.8e-72, 43.289% id in 529 aa. Similar to SAR0951, 50.763% identity (50.763% ungapped) in 262 aa overlap
YP_039664.1	Possible alternative translational start sites. C-terminal region is similar to Bacillus subtilis dipeptide ABC transporter permease DppB SW:DPPB_BACSU (P26903) (308 aa) fasta scores: E(): 8.1e-31, 32.993% id in 294 aa, and Bacillus halodurans oligopeptide ABC transporter BH0029 TR:Q9KGM9 (EMBL:AP001507) (314 aa) fasta scores: E(): 1.4e-36, 39.799% id in 299 aa
YP_039665.1	C-terminal region is similar to Bacillus firmus dipeptide ABC transporter permease DppC SW:DPPC_BACFI (P94312) (304 aa) fasta scores: E(): 9.3e-41, 40.071% id in 282 aa, and Bacillus halodurans oligopeptide ABC transporter BH0030 TR:Q9KGM8 (EMBL:AP001507) (301 aa) fasta scores: E(): 1.1e-42, 41.971% id in 274 aa. Possible alternative translational start sites
YP_039666.1	Previously sequenced as Staphylococcus aureus RGD-containing lipoprotein Rlp TR:Q9EY53 (EMBL:AY007316) (591 aa) fasta scores: E(): 2.8e-213, 99.831% id in 591 aa
YP_039667.1	Similar to Bacillus subtilis gamma-glutamyltranspeptidase precursor Ggt SW:GGT_BACSU (P54422) (587 aa) fasta scores: E(): 8.5e-75, 38.532% id in 545 aa, and to Escherichia coli gamma-glutamyltranspeptidase precursor Ggt SW:GGT_ECOLI (P18956) (580 aa) fasta scores: E(): 1.6e-57, 34.615% id in 546 aa. CDS is truncated at the N-terminus and extended at the C-terminus in comparison to the B. subtilis and E. coli proteins
YP_039668.1	FMN-dependent; requires NADH; catalyzes the cleavage of azo bond in aromatic azo compounds
YP_039669.1	No significant database matches to the full length CDS. C-terminus is similar to the C-terminal regions of Staphylococcus aureus peptidoglycan hydrolase LytM TR:O33599 (EMBL:L77194) (322 aa) fasta scores: E(): 1.3e-17, 41.791% id in 134 aa, and to Staphylococcus simulans lysostaphin precursor Lss SW:LSTP_STASI (P10547) (493 aa) fasta scores: E(): 4e-17, 40.789% id in 152 aa
YP_039670.1	Similar to Thermococcus litoralis maltose transport protein MalK TR:Q9YGA6 (EMBL:AF121946) (372 aa) fasta scores: E(): 1.4e-60, 52.279% id in 373 aa, and to Bacillus subtilis probable multiple sugar-binding transport ATP-binding protein MsmX SW:MSMX_BACSU (P94360) (365 aa) fasta scores: E(): 1.8e-82, 65.479% id in 365 aa
YP_039671.1	Similar to Streptococcus pneumoniae maltose/maltodextrin-binding protein precursor MalX SW:MALX_STRPN (P29850) (423 aa) fasta scores: E(): 1.8e-28, 29.535% id in 430 aa, and to Bacillus halodurans maltose/maltodextrin-binding protein BH2926 TR:Q9K8S7 (EMBL:AP001517) (429 aa) fasta scores: E(): 4e-61, 40.610% id in 426 aa
YP_039672.1	Similar to Streptococcus pneumoniae maltodextrin ABC transporter permease MalC SW:MALC_STRPN (Q04698) (430 aa) fasta scores: E(): 3.1e-69, 44.860% id in 428 aa, and to Bacillus halodurans maltose/maltodextrin ABC transporter permease BH2925 TR:Q9K8S8 (EMBL:AP001517) (430 aa) fasta scores: E(): 2.4e-113, 66.986% id in 418 aa
YP_039673.1	Similar to Streptococcus pneumoniae maltodextrin ABC transporter permease MalD SW:MALD_STRPN (Q04699) (277 aa) fasta scores: E(): 1.9e-37, 44.569% id in 267 aa, and to Bacillus halodurans maltose/maltodextrin ABC transporter permease BH2924 TR:Q9K8S9 (EMBL:AP001517) (280 aa) fasta scores: E(): 3.6e-76, 72.857% id in 280 aa
YP_039674.1	Similar to an internal region of Zymomonas mobilis glucose--fructose oxidoreductase Gfo SW:GFO_ZYMMO (Q07982) (439 aa) fasta scores: E(): 5.2e-17, 28.652% id in 356 aa. Full CDS is similar to Listeria monocytogenes NADH-dependent dehydrogenase homologue LapC TR:O52495 (EMBL:AF039207) (358 aa) fasta scores: E(): 7.8e-100, 67.507% id in 357 aa
YP_039675.1	Similar to Bacillus halodurans hypothetical protein BH2165 TR:Q9KAX1 (EMBL:AP001514) (348 aa) fasta scores: E(): 2.1e-51, 41.040% id in 346 aa, and to Listeria monocytogenes NADH-dependent dehydrogenase homologue LapC TR:O52495 (EMBL:AF039207) (358 aa) fasta scores: E(): 1.2e-38, 38.873% id in 355 aa
YP_039676.1	Similar to Bacillus halodurans hypothetical protein BH1249 TR:Q9KDG4 (EMBL:AP001511) (322 aa) fasta scores: E(): 1.2e-81, 58.385% id in 322 aa, and to Bacillus subtilis hypothetical protein YfiH SW:YFIH_BACSU (P54724) (313 aa) fasta scores: E(): 1.7e-36, 39.130% id in 299 aa
YP_039677.1	Similar to Pasteurella multocida hypothetical protein PM0984 TR:Q9CM58 (EMBL:AE006137) (172 aa) fasta scores: E(): 2.3e-24, 51.515% id in 165 aa, and to Haemophilus influenzae hypothetical protein HI0318 SW:Y318_HAEIN (P43984) (172 aa) fasta scores: E(): 4.1e-24, 52.381% id in 168 aa
YP_039678.1	cytoplasmic membrane protein that functions as a monomer; catalyzes the active transport of sugar-phosphates such as glucose-6-phosphate with the obligatory exchange of inorganic phosphate or organophosphate
YP_039679.1	Probable two-component regulatory system family, response regulator protein. Similar to Streptococcus pyogenes  two-component response regulator SPY1062 TR:Q99ZU9 (EMBL:AE006550) (262 aa) fasta scores: E(): 1.2e-21, 34.568% id in 243 aa, and to Bacillus halodurans two-component response regulator BH3679 TR:Q9K6P9 (EMBL:AP001519) (257 aa) fasta scores: E(): 3.6e-13, 28.346% id in 254 aa
YP_039680.1	Probable two-component regulatory system family, sensor kinase. No significant database matches to the full length CDS. C-terminus is similar to the C-terminal regions of Streptococcus pyogenes  two-component sensor histidine kinase SPY1061 TR:Q99ZV0 (EMBL:AE006550) (549 aa) fasta scores: E(): 2.2e-15, 25.978% id in 358 aa, and Bacillus halodurans two-component sensor histidine kinase BH3678 TR:Q9K6Q0 (EMBL:AP001519) (605 aa) fasta scores: E(): 4.2e-13, 25.915% id in 328 aa
YP_039681.1	Similar to Treponema hyodysenteriae periplasmic-iron-binding protein BitA TR:Q9Z4R9 (EMBL:U75349) (336 aa) fasta scores: E(): 7.2e-24, 29.897% id in 291 aa, and to Streptococcus pyogenes periplasmic-iron-binding protein SPY1063 TR:Q99ZU8 (EMBL:AE006550) (323 aa) fasta scores: E(): 1.2e-20, 26.885% id in 305 aa
YP_039682.1	Similar to Escherichia coli formate acetyltransferase 1 PflB SW:PFLB_ECOLI (P09373) (759 aa) fasta scores: E(): 1.4e-204, 66.227% id in 758 aa, and to Clostridium pasteurianum formate acetyltransferase Pfl SW:PFL_CLOPA (Q46266) (740 aa) fasta scores: E(): 3.5e-196, 65.041% id in 738 aa
YP_039683.1	Similar to Streptococcus mutans pyruvate formate-lyase activating enzyme Act SW:PFLA_STRMU (O68575) (263 aa) fasta scores: E(): 5.3e-45, 50.000% id in 240 aa, and to Listeria monocytogenes pyruvate-formate lyase activating enzyme PflC TR:Q9X767 (EMBL:AJ009627) (248 aa) fasta scores: E(): 6.9e-51, 53.814% id in 236 aa
YP_039685.1	Similar to Streptococcus pyogenes glycerophosphodiester phosphodiesterase SPY0839 TR:Q9A0C2 (EMBL:AE006534) (577 aa) fasta scores: E(): 1.2e-39, 35.233% id in 579 aa, and to Lactococcus lactis hypothetical protein YuhH TR:Q9CE50 (EMBL:AE006429) (617 aa) fasta scores: E(): 5.4e-37, 27.005% id in 611 aa
YP_039687.1	Similar to Staphylococcus aureus staphylocoagulase precursor SW:STC1_STAAU (P07767) (658 aa) fasta scores: E(): 2.3e-144, 73.520% id in 608 aa, and to Staphylococcus aureus staphylocoagulase precursor SW:STC2_STAAU (P17855) (715 aa) fasta scores: E(): 2.3e-141, 72.250% id in 609 aa. Contains a C-terminal imperfect repeat (ARPTQNKPSETNAYNVTTHANGQVSYG x4). CDS contains less amino acid residues at the C-terminus in comparison to other orthologues
YP_039688.1	Similar to Brassica napus glyoxysomal beta-ketoacyl-thiolase TR:Q43742 (EMBL:X93015) (462 aa) fasta scores: E(): 2.8e-56, 46.173% id in 392 aa. Previously sequenced as Staphylococcus aureus 3-ketoacyl-CoA transferase FadA TR:AAK51158 (EMBL:AY033081) (397 aa) fasta scores: E(): 4.6e-142, 99.239% id in 394 aa
YP_039689.1	N-terminal region is similar to Mus musculus short chain 3-hydroxyacyl-CoA dehydrogenase precursor HadH SW:HCDH_MOUSE (Q61425) (314 aa) fasta scores: E(): 3e-21, 33.333% id in 294 aa. Previously sequenced as Staphylococcus aureus  3-hydroxyacyl-CoA dehydrogenase FadB TR:AAK51157 (EMBL:AY033081) (753 aa) fasta scores: E(): 0, 98.672% id in 753 aa
YP_039690.1	Similar to Mus musculus mitochondrial glutaryl-CoA dehydrogenase GcdH SW:GCDH_MOUSE (Q60759) (438 aa) fasta scores: E(): 1e-29, 32.659% id in 346 aa. Previously sequenced as Staphylococcus aureus  acyl-CoA dehydrogenase FadD TR:AAK51156 (EMBL:AY033081) (418 aa) fasta scores: E(): 1e-154, 100.000% id in 403 aa
YP_039691.1	Similar to Rhizobium leguminosarum malonyl CoA synthetase MatB TR:Q9ZIP5 (EMBL:AF117694) (504 aa) fasta scores: E(): 3.1e-38, 27.866% id in 506 aa. Previously sequenced as Staphylococcus aureus  acyl-CoA synthetase FadE TR:AAK51155 (EMBL:AY033081) (501 aa) fasta scores: E(): 8.5e-198, 99.401% id in 501 aa
YP_039692.1	Weakly similar to Homo sapiens mitochondrial succinyl-CoA:3-ketoacid-coenzyme A transferase SCOT SW:SCOT_HUMAN (P55809) (520 aa) fasta scores: E(): 2e-05, 21.681% id in 452 aa. Previously sequenced as Staphylococcus aureus  acetyl-CoA/acetoacetyl-CoA transferase FadX TR:AAK51154 (EMBL:AY033081) (525 aa) fasta scores: E(): 2.2e-208, 98.654% id in 520 aa
YP_039693.1	Similar to Synechocystis sp hypothetical protein SLR0541 TR:Q55488 (EMBL:D64006) (236 aa) fasta scores: E(): 6.7e-21, 34.615% id in 208 aa, and to Pseudomonas aeruginosa probable glutamine amidotransferase PA0531 TR:Q9I605 (EMBL:AE004489) (238 aa) fasta scores: E(): 1.7e-20, 33.476% id in 233 aa
YP_039694.1	No significant database matches to the full length CDS. C-terminal region is similar to similar to Pyrococcus abyssi hypothetical protein PAB0037 TR:Q9V2K2 (EMBL:AJ248283) (249 aa) fasta scores: E(): 5.7e-07, 28.384% id in 229 aa, and to Streptococcus pyogenes hypothetical protein SPY1366 TR:Q99Z72 (EMBL:AE006574) (269 aa) fasta scores: E(): 0.0023, 23.675% id in 283 aa. Possible alternative translational start sites
YP_039695.1	Similar to Bacillus halodurans nickel ABC transporter BH1796 TR:Q9KBX8 (EMBL:AP001513) (528 aa) fasta scores: E(): 4.7e-23, 31.653% id in 496 aa, and to Agrobacterium radiobacter agropinic acid permease AgaA TR:O50260 (EMBL:AF242881) (509 aa) fasta scores: E(): 5.6e-16, 26.261% id in 476 aa
YP_039696.1	Similar to Streptomyces coelicolor hypothetical protein SC2H2.18 TR:Q9F3D7 (EMBL:AL450289) (119 aa) fasta scores: E(): 1.5e-16, 42.857% id in 119 aa, and to Rhizobium loti hypothetical protein MLL7394 TR:BAB53507 (EMBL:AP003011) (120 aa) fasta scores: E(): 1.5e-16, 48.305% id in 118 aa
YP_039698.1	Similar to Bacillus subtilis flavohemoprotein Hmp SW:HMPA_BACSU (P49852) (399 aa) fasta scores: E(): 7.5e-41, 38.653% id in 401 aa, and to Vibrio parahaemolyticus flavohemoprotein Hmp SW:HMPA_VIBPA (P40609) (394 aa) fasta scores: E(): 2.3e-35, 34.596% id in 396 aa
YP_039699.1	Similar to Bacillus subtilis L-lactate dehydrogenase Ldh SW:LDH_BACSU (P13714) (320 aa) fasta scores: E(): 1.5e-73, 64.630% id in 311 aa, and to Bacillus stearothermophilus L-lactate dehydrogenase Ldh TR:Q9S0N0 (EMBL:AB033627) (317 aa) fasta scores: E(): 1.4e-77, 67.101% id in 307 aa. Similar to SAR2680, 59.223% identity (59.609% ungapped) in 309 aa overlap
YP_039700.1	Similar to the N-terminal region of Bacillus subtilis PTS system, glucose-specific IIABC component PtsG SW:PTGA_BACSU (P20166) (699 aa) fasta scores: E(): 6.6e-88, 47.500% id in 520 aa. Full length CDS is similar to Borrelia burgdorferi PTS system, glucose-specific IIBC component BB0645 TR:O51590 (EMBL:AE001166) (514 aa) fasta scores: E(): 6.5e-124, 61.961% id in 510 aa
YP_039701.1	Similar to Crithidia fasciculata inosine-uridine preferring nucleoside hydrolase IunH SW:IUNH_CRIFA (Q27546) (314 aa) fasta scores: E(): 4.5e-38, 37.954% id in 303 aa, and to Escherichia coli hypothetical protein YbeK SW:YBEK_ECOLI (P41409) (311 aa) fasta scores: E(): 1.7e-45, 45.367% id in 313 aa
YP_039703.1	Similar to Escherichia coli PTS system, galactitol-specific IIA component GatA SW:PTKA_ECOLI (P37187) (150 aa) fasta scores: E(): 3.9e-05, 28.986% id in 138 aa, and to Bacillus halodurans phosphotransferase system FruA TR:Q9Z9U3 (EMBL:AB011837) (160 aa) fasta scores: E(): 1.9e-17, 43.421% id in 152 aa
YP_039704.1	Similar to Escherichia coli PTS system, galactitol-specific IIB component GatB SW:PTKB_ECOLI (P37188) (94 aa) fasta scores: E(): 3.7e-09, 37.363% id in 91 aa, and to Bacillus halodurans PTS system, galactitol-specific enzyme IIB component GatB TR:Q9KGB5 (EMBL:AP001507) (94 aa) fasta scores: E(): 1.5e-24, 81.319% id in 91 aa
YP_039705.1	Similar to Escherichia coli PTS system, galactitol-specific IIC component GatC SW:PTKC_ECOLI (P37189) (451 aa) fasta scores: E(): 5.1e-68, 44.337% id in 415 aa, and to Bacillus halodurans PTS system galactitol-specific enzyme IIC component GatC TR:Q9Z9U2 (EMBL:AB011837) (419 aa) fasta scores: E(): 4.6e-121, 78.043% id in 419 aa
YP_039706.1	Similar to Bacillus subtilis sorbitol dehydrogenase GutB SW:DHSO_BACSU (Q06004) (352 aa) fasta scores: E(): 2.9e-30, 35.077% id in 325 aa, and to Bacillus halodurans sorbitol dehydrogenase GutB SW:DHSO_BACHD (Q9Z9U1) (343 aa) fasta scores: E(): 1.6e-83, 62.974% id in 343 aa
YP_039707.1	Poor database matches. Similar to the C-terminal region of Bacillus halodurans hypothetical protein TR:Q9Z9U0 (EMBL:AB011837) (100 aa) fasta scores: E(): 5e-05, 47.727% id in 44 aa
YP_039708.1	Similar to Escherichia coli galactitol-1-phosphate 5-dehydrogenase GatD SW:GATD_ECOLI (P37190) (346 aa) fasta scores: E(): 3.7e-37, 36.452% id in 310 aa, and to Bacillus halodurans sorbitol dehydrogenase GutB TR:Q9KGB7 (EMBL:AP001507) (354 aa) fasta scores: E(): 4.1e-78, 56.936% id in 346 aa
YP_039709.1	4-diphosphocytidyl-2C-methyl-D-erythritol synthase; MEP cytidylyltransferase; MCT; catalyzes the formation of 4-diphosphocytidyl-2-C-methyl-D-erythritol from CTP and 2-C-methyl-D-erythritol 4-phosphate; involved in isoprenoid and isopentenyl-PP biosynthesis; forms homodimers
YP_039710.1	Similar to Escherichia coli L-idonate 5-dehydrogenase IdnD SW:IDND_ECOLI (P39346) (343 aa) fasta scores: E(): 4.8e-05, 25.000% id in 308 aa, and to Thermoplasma volcanium alcohol dehydrogenase TVG0995648 TR:BAB60114 (EMBL:AP000994) (335 aa) fasta scores: E(): 1.2e-07, 25.581% id in 344 aa. Similar to SAR0253, 80.645% identity (80.645% ungapped) in 341 aa overlap
YP_039711.1	No significant database matches to the full length CDS. C-terminus is similar to the C-terminal regions of Staphylococcus epidermidis CDP-glycerol:poly(glycerolphosphate) glycerophosphotransferase TagF TR:Q9RPD1 (EMBL:AF162863) (721 aa) fasta scores: E(): 1.2e-21, 26.873% id in 387 aa, and Haemophilus influenzae hypothetical protein TR:Q48156 (EMBL:Z37516) (789 aa) fasta scores: E(): 2e-33, 30.900% id in 411 aa. Similar to SAR0254, 79.211% identity (79.211% ungapped) in 558 aa overlap
YP_039712.1	No significant database matches. Doubtful CDS
YP_039713.1	No significant database matches. Doubtful CDS
YP_039714.1	Similar to the C-terminal regions of Bacillus subtilis teichoic acid biosynthesis protein F TagF SW:TAGF_BACSU (P13485) (746 aa) fasta scores: E(): 5.6e-77, 48.139% id in 403 aa, and to Staphylococcus epidermidis CDP-glycerol:poly(glycerolphosphate) glycerophosphotransferase TagF TR:Q9RPD1 (EMBL:AF162863) (721 aa) fasta scores: E(): 7e-72, 46.650% id in 403 aa
YP_039715.1	4-diphosphocytidyl-2C-methyl-D-erythritol synthase; MEP cytidylyltransferase; MCT; catalyzes the formation of 4-diphosphocytidyl-2-C-methyl-D-erythritol from CTP and 2-C-methyl-D-erythritol 4-phosphate; involved in isoprenoid and isopentenyl-PP biosynthesis; forms homodimers
YP_039716.1	Similar to Escherichia coli L-idonate 5-dehydrogenase IdnD SW:IDND_ECOLI (P39346) (343 aa) fasta scores: E(): 6.7e-06, 23.006% id in 326 aa, and to Candida sp HA167 xylitol dehydrogenase Xdh TR:O74230 (EMBL:AF072541) (353 aa) fasta scores: E(): 5.1e-06, 24.425% id in 348 aa. Similar to SAR0247, 80.645% identity (80.645% ungapped) in 341 aa overlap
YP_039717.1	C-terminus is similar to Staphylococcus epidermidis epidermidis CDP-glycerol:poly(glycerolphosphate) glycerophosphotransferase TagF TR:Q9RPD1 (EMBL:AF162863) (721 aa) fasta scores: E(): 6.3e-19, 24.067% id in 536 aa. Full length CDS is similar to Haemophilus influenzae hypothetical protein TR:Q48156 (EMBL:Z37516) (789 aa) fasta scores: E(): 2.7e-32, 27.563% id in 595 aa. Similar to SAR0248, 79.211% identity (79.211% ungapped) in 558 aa overlap
YP_039718.1	No significant database matches to the full length CDS. C-terminus is similar to the C-terminal regions of Streptococcus thermophilus exopolysaccharide biosynthesis protein EpsI TR:Q56046 (EMBL:U40830) (324 aa) fasta scores: E(): 1e-11, 31.522% id in 276 aa, and Lactobacillus delbrueckii  glycosyltransferase EpsJ TR:Q9F0B8 (EMBL:AF267127) (327 aa) fasta scores: E(): 6.7e-13, 29.851% id in 268 aa
YP_039719.1	involved in peptidoglycan cross-linking
YP_039720.1	Two-component regulatory system family, sensor kinase. Previously sequenced as Staphylococcus aureus autolysin sensor kinase LytS TR:Q53705 (EMBL:L42945) (584 aa) fasta scores: E(): 3.6e-213, 98.288% id in 584 aa. Similar to Bacillus subtilis autolysin sensor kinase lytS TR:P94513 (EMBL:Z75208) (593 aa) fasta scores: E(): 1.7e-102, 46.918% id in 584 aa
YP_039721.1	Two-component regulatory system family, response regulator protein. Previously sequenced as Staphylococcus aureus autolysin response regulator LytR TR:P96456 (EMBL:L42945) (246 aa) fasta scores: E(): 9.6e-90, 98.780% id in 246 aa. Similar to Bacillus subtilis autolysin response regulator LytT TR:P94514 (EMBL:Z75208) (241 aa) fasta scores: E(): 4.4e-34, 40.664% id in 241 aa
YP_039722.1	negatively regulates murein hydrolase activity
YP_039723.1	in conjunction with LrgA this protein inhibits the expression or activity of extracellular murein hydrolases
YP_039724.1	C-terminal region is similar to Pseudomonas aeruginosa nitric-oxide reductase subunit B NorB SW:NORB_PSEAE (Q59647) (466 aa) fasta scores: E(): 6e-24, 29.400% id in 483 aa. Full length CDS is similar to Alcaligenes eutrophus nitric oxide reductase TR:O30368 (EMBL:AF002217) (762 aa) fasta scores: E(): 1e-96, 35.894% id in 755 aa.
YP_039725.1	Similar to Escherichia coli fatty acyl responsive regulator FarR SW:FARR_ECOLI (P13669) (240 aa) fasta scores: E(): 5.7e-11, 25.424% id in 236 aa, and to Bacillus subtilis hypothetical protein YydK TR:Q45591 (EMBL:D78193) (238 aa) fasta scores: E(): 7.3e-32, 40.870% id in 230 aa
YP_039726.1	Poor database matches to the full length CDS. Similar to the C-terminal regions of Staphylococcus carnosus PTS system, glucose-specific IIABC component GlcA TR:Q57071 (EMBL:X93360) (675 aa) fasta scores: E(): 1.1e-21, 33.065% id in 248 aa, and to Bacillus subtilis PTS system IIABC component YbfS SW:YBFS_BACSU (P39816) (631 aa) fasta scores: E(): 6.3e-18, 31.276% id in 243 aa
YP_039727.1	Similar to Bacillus subtilis 6-phospho-beta-glucosidase BglA SW:BGLA_BACSU (P42973) (479 aa) fasta scores: E(): 1.3e-145, 70.146% id in 479 aa, and to Escherichia coli 6-phospho-beta-glucosidase BglA SW:BGLA_ECOLI (Q46829) (479 aa) fasta scores: E(): 1.6e-122, 60.714% id in 476 aa
YP_039728.1	Similar to Haemophilus influenzae hypothetical protein HI0095 SW:Y095_HAEIN (Q57060) (251 aa) fasta scores: E(): 6e-57, 58.333% id in 252 aa, and to Pasteurella multocida hypothetical protein PM1158 TR:Q9CLQ7 (EMBL:AE006156) (251 aa) fasta scores: E(): 4.3e-55, 57.540% id in 252 aa
YP_039729.1	Similar to Escherichia coli ribokinase RbsK SW:RBSK_ECOLI (P05054) (309 aa) fasta scores: E(): 9.4e-39, 40.604% id in 298 aa, and to Lactobacillus bavaricus ribokinase RbsK rbsK TR:Q9X4M5 (EMBL:AF115391) (302 aa) fasta scores: E(): 2.7e-56, 54.181% id in 299 aa
YP_039730.1	cytoplasmic mutarotase that catalyzes the conversion between beta-pyran and beta-furan forms of D-ribose; RbsD is required for efficient ribose utilization in E. coli; rbsD-mutant E. coli strains are unable to use ribose as a sole carbon source
YP_039731.1	Similar to Staphylococcus xylosus glucose uptake protein GlcU TR:O07881 (EMBL:Y14043) (288 aa) fasta scores: E(): 1.6e-26, 34.256% id in 289 aa, and to Lactobacillus bavaricus  ribose transporter RbsU TR:Q9X4M3 (EMBL:AF115391) (294 aa) fasta scores: E(): 2.6e-60, 55.442% id in 294 aa
YP_039732.1	Similar to Escherichia coli ribose operon repressor RbsR SW:RBSR_ECOLI (P25551) (329 aa) fasta scores: E(): 8.6e-27, 29.697% id in 330 aa, and to Lactobacillus bavaricus rbs operon repressor RbsR TR:Q9X4M6 (EMBL:AF115391) (335 aa) fasta scores: E(): 2.3e-39, 39.228% id in 311 aa
YP_039733.1	No significant database matches. Doubtful CDS
YP_039735.1	Similar to Streptomyces lavendulae mitomycin export system protein Mct TR:Q9WVV3 (EMBL:AF127374) (484 aa) fasta scores: E(): 6e-22, 25.114% id in 438 aa, and to Pseudomonas aeruginosa probable MFS transporter PA2055 TR:Q9I260 (EMBL:AE004632) (471 aa) fasta scores: E(): 3.4e-24, 28.019% id in 414 aa
YP_039736.1	Similar to Bacillus sphaericus penicillin acylase SW:PAC_BACSH (P12256) (338 aa) fasta scores: E(): 8.1e-35, 29.483% id in 329 aa, and to Bacillus subtilis hypothetical protein YxeI SW:YXEI_BACSU (P54948) (328 aa) fasta scores: E(): 1.6e-35, 32.622% id in 328 aa
YP_039737.1	Previously sequenced as Staphylococcus aureus peptidoglycan hydrolase LytM TR:O33599 (EMBL:L77194) (322 aa) fasta scores: E(): 3.4e-113, 98.418% id in 316 aa. C-terminus is similar to an internal region of Staphylococcus staphylolyticus lysostaphin precursor Lss SW:LSTP_STAST (P10548) (480 aa) fasta scores: E(): 4.8e-19, 48.905% id in 137 aa
YP_039738.1	Similar to the N-terminal regions of Streptococcus pyogenes  ABC transporter SPY0744 TR:Q9A0K0 (EMBL:AE006526) (307 aa) fasta scores: E(): 4.9e-17, 38.278% id in 209 aa, and Bacillus halodurans hypothetical protein YfiL TR:Q9RC44 (EMBL:AB024563) (310 aa) fasta scores: E(): 1.7e-16, 36.408% id in 206 aa
YP_039739.1	Poor database matches. Similar to N-terminal regions of Streptococcus pyogenes  ABC transporter SPY0746 TR:Q9A0J8 (EMBL:AE006526) (372 aa) fasta scores: E(): 0.0045, 24.542% id in 273 aa, and Pyrococcus horikoshii hypothetical protein PH1531 TR:O59200 (EMBL:AP000006) (420 aa) fasta scores: E(): 0.058, 21.683% id in 309 aa
YP_039740.1	Poor database matches. C-terminus is similar to internal regions of Borrelia burgdorferi conserved hypothetical integral membrane protein BB0584 TR:O51531 (EMBL:AE001160) (448 aa) fasta scores: E(): 0.48, 17.695% id in 243 aa, and to Buchnera aphidicola (subsp. Acyrthosiphon pisum) hypothetical transport protein BU466 SW:Y466_BUCAI (P57538) (390 aa) fasta scores: E(): 0.57, 22.778% id in 180 aa
YP_039741.1	Poor database matches. Similar to N-terminal region of Homo sapiens cylicin I CYLC1 or cyl1 or cyL SW:CYL1_HUMAN (P35663) (598 aa) fasta scores: E(): 6.7e-05, 25.462% id in 487 aa
YP_039742.1	Similar to Staphylococcus carnosus major secreted protein SceB TR:O54487 (EMBL:U96107) (263 aa) fasta scores: E(): 4.1e-16, 32.932% id in 249 aa, and to Staphylococcus epidermidis secretory antigen precursor SsaA TR:Q9KJT6 (EMBL:AF162275) (257 aa) fasta scores: E(): 8e-17, 31.457% id in 302 aa. C-terminus is similar to SAR2388, 59.821% identity (62.037% ungapped) in 112 aa overlap
YP_039743.1	Similar to Clostridium acetobutylicum hypothetical protein SW:YHS1_CLOAB (P34159) (96 aa) fasta scores: E(): 2.6e-09, 40.625% id in 96 aa, and to Bacillus halodurans hypothetical protein BH0972 TR:Q9KE84 (EMBL:AP001510) (96 aa) fasta scores: E(): 0.00013, 30.526% id in 95 aa
YP_039744.1	Poor database matches. Internal region of the CDS is similar to an internal region of Entamoeba histolytica myosin heavy chain protein MhcA TR:Q07569 (EMBL:L03534) (2139 aa) fasta scores: E(): 0.00025, 21.216% id in 806 aa. Full length CDS is similar to Bacillus subtilis hypothetical protein YueB TR:O32101 (EMBL:Z99120) (1076 aa) fasta scores: E(): 2.8e-08, 20.631% id in 1110 aa
YP_039746.1	Similar to Bacillus subtilis hypothetical protein YukD TR:P71071 (EMBL:Z82015) (79 aa) fasta scores: E(): 0.034, 26.923% id in 78 aa
YP_039747.1	Similar to Bacillus subtilis hypothetical protein YukC TR:P71070 (EMBL:Z82015) (451 aa) fasta scores: E(): 2.6e-13, 24.088% id in 411 aa, and to Bacillus halodurans hypothetical protein BH0974 protein bh0974 TR:Q9KE82 (EMBL:AP001510) (440 aa) fasta scores: E(): 5.5e-12, 21.114% id in 431 aa. CDS contains C-terminal hydrophilic domain
YP_039748.1	Internal region is similar to Bacillus cereus diarrhoeal toxin BceT TR:P70871 (EMBL:D17312) (366 aa) fasta scores: E(): 2.1e-71, 57.746% id in 355 aa. C-terminal region is similar to Bacillus subtilis hypothetical protein YukA TR:P71068 (EMBL:Z99120) (1207 aa) fasta scores: E(): 2.1e-119, 38.767% id in 1233 aa
YP_039749.1	No database matches
YP_039750.1	Hydrophilic protein. No significant database matches
YP_039751.1	Poor database matches. C-terminal region is similar to the N-terminus of Streptococcus thermophilus bacteriophage Sfi11  minor tail protein TR:O80179 (EMBL:AF158600) (1510 aa) fasta scores: E(): 1.1, 20.200% id in 500 aa
YP_039752.1	No significant database matches to the full length CDS. Weakly similar to the N-terminal region of Thermoplasma volcanium hypothetical protein TVG0160586 TR:BAB59293 (EMBL:AP000991) (469 aa) fasta scores: E(): 0.76, 26.154% id in 195 aa
YP_039755.1	Poor database matches. Similar to internal regions of Archaeoglobus fulgidus  quinone oxidoreductase subunit AF1831 TR:O28444 (EMBL:AE000976) (369 aa) fasta scores: E(): 1.3, 24.725% id in 182 aa, and to Enterococcus faecalis peptide antibiotic AS-48 maturation and biosynthesis protein AS-48B TR:O53024 (EMBL:Y12234) (563 aa) fasta scores: E(): 2.3, 26.738% id in 187 aa
YP_039757.1	Similar to Bacillus halodurans hypothetical protein BH3703 TR:Q9K6M5 (EMBL:AP001519) (169 aa) fasta scores: E(): 7.3e-09, 28.659% id in 164 aa, and to C-terminal region of Bacillus subtilis hypothetical protein YeeF TR:O31506 (EMBL:Z99107) (827 aa) fasta scores: E(): 2.9e-10, 27.397% id in 146 aa. Similar to SAR0294, 66.061% identity (66.061% ungapped) in 165 aa overlap and to SAR0295, 72% identity in 157 aa overlap
YP_039758.1	Similar to Bacillus halodurans hypothetical protein BH3703 TR:Q9K6M5 (EMBL:AP001519) (169 aa) fasta scores: E(): 3.2e-08, 28.834% id in 163 aa, and to C-terminal region of Bacillus subtilis YeeF hypothetical protein TR:O31506 (EMBL:Z99107) (827 aa) fasta scores: E(): 1e-12, 32.000% id in 150 aa. Similar to SAR0293, 66.061% identity (66.061% ungapped) in 165 aa overlap
YP_039759.1	No significant database matches. Truncated at the N-terminus in comparison to N315 and Mu50 orthologues. Possible pseudogene
YP_039761.1	Similar to Staphylococcus carnosus  nitrite transporter NirC TR:Q9X2M6 (EMBL:AF029224) (276 aa) fasta scores: E(): 2.3e-42, 43.542% id in 271 aa, and to Bacillus subtilis hypothetical protein Ywcj SW:YWCJ_BACSU (P39608) (256 aa) fasta scores: E(): 6.7e-13, 28.571% id in 245 aa
YP_039762.1	Similar to Corynebacterium glutamicum branched-chain amino acid transport system carrier protein BrnQ SW:BRNQ_CORGL (O06754) (426 aa) fasta scores: E(): 1.3e-45, 38.642% id in 427 aa, and to Bacillus subtilis branched-chain amino acid transport system carrier protein BrnQ SW:BRNQ_BACSU (P94499) (440 aa) fasta scores: E(): 1.7e-55, 38.928% id in 429 aa
YP_039763.1	Similar to Haemophilus influenzae lipoprotein e precursor Hel SW:HEL_HAEIN (P26093) (274 aa) fasta scores: E(): 3e-24, 33.942% id in 274 aa, and to Streptococcus equisimilis cytoplasmic membrane lipoprotein precursor LppC TR:O05471 (EMBL:Y12602) (285 aa) fasta scores: E(): 2.4e-38, 43.448% id in 290 aa
YP_039764.1	Similar to Lactococcus lactis hypothetical protein YxeA TR:Q9CDG5 (EMBL:AE006454) (357 aa) fasta scores: E(): 2.3e-47, 44.077% id in 363 aa, and to Deinococcus radiodurans hypothetical protein DRA0279 TR:Q9RYN1 (EMBL:AE001863) (353 aa) fasta scores: E(): 3.6e-29, 31.818% id in 352 aa
YP_039765.1	Similar to Escherichia coli lipoprotein releasing system ATP-binding protein LolD SW:LOLD_ECOLI (P75957) (233 aa) fasta scores: E(): 3.8e-22, 37.387% id in 222 aa, and to Lactococcus lactis ABC transporter ATP-binding protein YxeB TR:Q9CDG4 (EMBL:AE006454) (223 aa) fasta scores: E(): 5.5e-38, 58.525% id in 217 aa
YP_039766.1	Similar to Bacillus amyloliquefaciens PTS system, fructose-specific IIBC component FruA SW:PTFB_BACAM (P41029) (304 aa) fasta scores: E(): 1.4e-05, 27.304% id in 293 aa, and to Streptococcus pyogenes  regulatory protein SPY0146 TR:Q9A1Q9 (EMBL:AE006484) (339 aa) fasta scores: E(): 8.5e-68, 59.467% id in 338 aa
YP_039767.1	Internal region is similar to Exiguobacterium acetylicum guanosine kinase Gsk TR:O24767 (EMBL:AB005149) (303 aa) fasta scores: E(): 4e-09, 26.000% id in 300 aa, Full length CDS is similar to Deinococcus radiodurans PfkB family carbohydrate kinase DR2312 TR:Q9RS15 (EMBL:AE002063) (383 aa) fasta scores: E(): 1.6e-25, 31.389% id in 360 aa. CDS contains an N-terminal helix-turn-helix domain, probable regulatory protein
YP_039768.1	Similar to Escherichia coli hypothetical protein YeiN SW:YEIN_ECOLI (P33025) (312 aa) fasta scores: E(): 5.8e-59, 57.667% id in 300 aa, and to Erwinia chrysanthemi indigoidine systhesis protein IndA TR:Q9L393 (EMBL:AJ277403) (316 aa) fasta scores: E(): 6e-46, 43.478% id in 299 aa
YP_039769.1	Similar to Escherichia coli nucleoside permease NupC SW:NUPC_ECOLI (P33031) (400 aa) fasta scores: E(): 7.9e-56, 43.415% id in 410 aa, and to Bacillus halodurans nucleoside transporter BH1446 TR:Q9KCX3 (EMBL:AP001512) (406 aa) fasta scores: E(): 1.6e-38, 32.775% id in 418 aa
YP_039770.1	Similar to the N-terminal regions of Rattus norvegicus sodium-dependent multivitamin transporter SMVT SW:SL56_RAT (O70247) (634 aa) fasta scores: E(): 5.9e-33, 27.613% id in 507 aa, and to Homo sapiens sodium-dependent multivitamin transporter SMVT SW:SL56_HUMAN (Q9Y289) (635 aa) fasta scores: E(): 7.8e-32, 26.531% id in 490 aa
YP_039771.1	catalyzes the formation of pyruvate and N-acetylmannosamine from N-acetylneuraminic acid
YP_039772.1	Similar to Streptomyces coelicolor glucokinase Glk SW:GLK_STRCO (P40184) (317 aa) fasta scores: E(): 8.2e-10, 28.571% id in 287 aa, and to Streptococcus pyogenes glucose kinase SPY0258 TR:Q9A1I4 (EMBL:AE006492) (312 aa) fasta scores: E(): 3.2e-21, 32.986% id in 288 aa
YP_039773.1	Similar to Escherichia coli transcriptional repressor of rpiB expression, RpiR SW:RPIR_ECOLI (P39266) (296 aa) fasta scores: E(): 9.1e-07, 21.923% id in 260 aa, and to Lactococcus lactis transcriptional regulator YljC TR:Q9CGC1 (EMBL:AE006350) (273 aa) fasta scores: E(): 1.2e-13, 25.092% id in 271 aa
YP_039774.1	Converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate
YP_039775.1	Similar to Vibrio cholerae hypothetical protein VCA0076 TR:Q9KN89 (EMBL:AE004350) (458 aa) fasta scores: E(): 9.5e-32, 29.345% id in 443 aa, and to Bacillus firmus hypothetical protein YkaA SW:YKAA_BACFI (P30267) (463 aa) fasta scores: E(): 1.6e-32, 29.318% id in 440 aa
YP_039776.1	Similar to Staphylococcus aureus lipase (glycerol ester hydrolase) precursor Geh SW:LIP_STAAU (P10335) (690 aa) fasta scores: E(): 0, 97.829% id in 691 aa, and to Staphylococcus epidermidis lipase precursor GehD TR:Q9Z4M7 (EMBL:AF090142) (643 aa) fasta scores: E(): 1.1e-83, 44.250% id in 687 aa
YP_039777.1	Poor database matches. Similar to Rhodococcus sp hydroxymuconic-semialdehyde hydrolase OhpC TR:Q9KH20 (EMBL:AF274045) (289 aa) fasta scores: E(): 0.51, 23.507% id in 268 aa
YP_039778.1	N-terminus is similar to the N-terminal region of Thermoanaerobacter brockii NADH oxidase SW:NADO_THEBR (P32382) (651 aa) fasta scores: E(): 7.8e-17, 26.554% id in 354 aa. Full length CDS is similar to Streptococcus pyogenes  trimethylamine dehydrogenase SPY1219 TR:Q99ZI3 (EMBL:AE006562) (399 aa) fasta scores: E(): 1.1e-92, 56.853% id in 394 aa
YP_039779.1	Similar to Streptococcus pyogenes hypothetical protein SPY1218 TR:Q99ZI4 (EMBL:AE006562) (332 aa) fasta scores: E(): 1.6e-50, 42.470% id in 332 aa, and to Bacillus subtilis hypothetical protein YwcH SW:YWCH_BACSU (P39606) (333 aa) fasta scores: E(): 6e-39, 38.690% id in 336 aa
YP_039780.1	Similar to an internal region of Drosophila melanogaster mitochondrial glycine cleavage system H protein Ppl SW:GCSH_DROME (Q9U616) (165 aa) fasta scores: E(): 4.6e-07, 34.653% id in 101 aa. Full length CDS is similar to Streptococcus pyogenes  glycine cleavage system H protein SPY1217 TR:Q99ZI5 (EMBL:AE006562) (110 aa) fasta scores: E(): 4.2e-22, 60.000% id in 110 aa
YP_039781.1	Poor database matches. Similar to Streptococcus pyogenes hypothetical protein SPY1216 TR:Q99ZI6 (EMBL:AE006562) (270 aa) fasta scores: E(): 6.5e-39, 47.280% id in 239 aa. C-terminal region of the CDS is similar to Escherichia coli hypothetical protein TR:P75918 (EMBL:AE000206) (177 aa) fasta scores: E(): 1.9e-15, 37.569% id in 181 aa
YP_039782.1	Similar to Streptococcus pyogenes hypothetical protein SPY1215 TR:Q99ZI7 (EMBL:AE006562) (293 aa) fasta scores: E(): 1.6e-70, 63.838% id in 271 aa, and to Mycoplasma pulmonis hypothetical protein MYPU_4420 TR:CAC13615 (EMBL:AL445564) (282 aa) fasta scores: E(): 3.8e-55, 50.379% id in 264 aa
YP_039783.1	Similar to Escherichia coli lipoate-protein ligase A LplA SW:LPLA_ECOLI (P32099) (337 aa) fasta scores: E(): 6.6e-17, 28.896% id in 308 aa, and to Streptococcus pyogenes  lipoate-protein ligase LplA TR:Q99ZI8 (EMBL:AE006562) (339 aa) fasta scores: E(): 2.9e-84, 62.059% id in 340 aa
YP_039784.1	Similar to Gerbera hybrida dihydroflavonol-4-reductase Dfr SW:DFRA_GERHY (P51105) (366 aa) fasta scores: E(): 1.1e-20, 32.931% id in 331 aa, and to Rhizobium loti probable cinnamoyl-CoA reductase MLL1975 TR:BAB49218 (EMBL:AP002998) (355 aa) fasta scores: E(): 1e-40, 37.681% id in 345 aa
YP_039785.1	membrane component; functions with enzymes IIB (sgaB; ulaB) and IIA (sgaA; ulaC) enzyme I and HPr for anaerobic utilization and uptake of L-ascorbate; sgaTBA are regulated by yifQ as well as Crp and Fnr
YP_039786.1	Similar to Escherichia coli unknown pentitol phosphotransferase enzyme IIB component SgaB SW:PTXB_ECOLI (P39302) (101 aa) fasta scores: E(): 0.18, 29.787% id in 94 aa, and to Escherichia coli hypothetical protein TR:Q9AI23 (EMBL:AF286670) (95 aa) fasta scores: E(): 4.6e-08, 36.082% id in 97 aa
YP_039787.1	Similar to Escherichia coli cryptic mannitol PTS transporter CmtB SW:PTYA_ECOLI (P32058) (147 aa) fasta scores: E(): 4.1e-14, 35.714% id in 140 aa, and to Escherichia coli unknown pentitol phosphotransferase enzyme IIA component SgaA SW:PTXA_ECOLI (P39303) (154 aa) fasta scores: E(): 1.6e-10, 27.273% id in 143 aa
YP_039788.1	Similar to Bacillus subtilis  cel operon regulator CelR SW:CELR_BACSU (P46321) (641 aa) fasta scores: E(): 3.3e-35, 28.063% id in 506 aa, and to Streptococcus pyogenes  transcriptional antiterminator SPY1325 TR:Q99Z99 (EMBL:AE006571) (664 aa) fasta scores: E(): 3.2e-23, 22.430% id in 642 aa
YP_039789.1	Similar to Erwinia carotovora antibiotic production and exoenzyme virulence determinants regulatory protein, Hor SW:HOR_ERWCA (Q9RB09) (145 aa) fasta scores: E(): 0.0022, 26.357% id in 129 aa, and to Lactococcus lactis transcriptional regulator RmaE TR:Q9CFJ4 (EMBL:AE006378) (139 aa) fasta scores: E(): 2.7e-10, 29.851% id in 134 aa
YP_039790.1	Similar to Lactococcus lactis hypothetical protein YpbC TR:Q9CFJ2 (EMBL:AE006378) (459 aa) fasta scores: E(): 9.6e-53, 38.636% id in 440 aa, and to Thermotoga maritima conserved hypothetical protein TM1701 TR:Q9X227 (EMBL:AE001810) (458 aa) fasta scores: E(): 1.4e-27, 29.787% id in 423 aa
YP_039791.1	Poor database matches. Similar to an internal region of Borrelia burgdorferi lipoprotein TR:Q44816 (EMBL:U45424) (203 aa) fasta scores: E(): 9.9, 28.571% id in 133 aa
YP_039792.1	Similar to Bacillus subtilis glycerol-3-phosphate transporter GlpT SW:GLPT_BACSU (P37948) (444 aa) fasta scores: E(): 1.2e-112, 61.863% id in 451 aa, and to Pseudomonas aeruginosa glycerol-3-phosphate transporter GlpT TR:Q9HTV5 (EMBL:AE004936) (448 aa) fasta scores: E(): 1.3e-103, 60.091% id in 441 aa
YP_039793.1	Similar to Sphingomonas chlorophenolica 2,6-dichloro-p-hydroxyquinone chlorohydrolase PcpA TR:Q9ZBB0 (EMBL:M55159) (320 aa) fasta scores: E(): 9.2e-13, 26.625% id in 323 aa, and to Bacillus subtilis dioxygenase YkcA TR:O34689 (EMBL:Z99110) (316 aa) fasta scores: E(): 3.5e-40, 37.812% id in 320 aa
YP_039794.1	Similar to Vibrio fischeri alkanal monooxygenase alpha chain protein LuxA TR:Q9S3Z1 (EMBL:AF170104) (354 aa) fasta scores: E(): 7.1e-07, 22.515% id in 342 aa, and to Bacillus amyloliquefaciens hypothetical protein TR:Q9F9Q6 (EMBL:AF181997) (356 aa) fasta scores: E(): 1.8e-55, 45.115% id in 348 aa
YP_039795.1	Similar to Escherichia coli hypothetical protein YeiH SW:YEIH_ECOLI (P33019) (349 aa) fasta scores: E(): 1.6e-28, 32.381% id in 315 aa, and to Rhizobium loti hypothetical protein MlR2225 TR:BAB49407 (EMBL:AP002999) (325 aa) fasta scores: E(): 9.1e-28, 28.616% id in 318 aa
YP_039796.1	Similar to Escherichia coli ribosomal-protein-serine acetyltransferase RimL SW:RIML_ECOLI (P13857) (179 aa) fasta scores: E(): 1.2e-13, 29.586% id in 169 aa, and to Bacillus subtilis probable acetyltransferase YdaF TR:P96579 (EMBL:AB001488) (183 aa) fasta scores: E(): 1.2e-26, 45.405% id in 185 aaSimilar to SAR0718, 68.085% identity (68.085% ungapped) in 329 aa overlap
YP_039797.1	Similar to the C-terminal regions of Streptomyces coelicolor  lipoprotein SCC75A.21 TR:Q9RKQ3 (EMBL:AL133220) (384 aa) fasta scores: E(): 2.1e-32, 44.361% id in 266 aa, and Bacillus subtilis hypothetical protein YwbM SW:YWBM_BACSU (P39596) (385 aa) fasta scores: E(): 1.9e-28, 42.353% id in 255 aa
YP_039798.1	Similar to Bacillus subtilis hypothetical protein SW:YWBN_BACSU (P39597) (416 aa) fasta scores: E(): 1.6e-40, 40.338% id in 414 aa, and to Streptomyces coelicolor  membrane protein SCC75A.22 TR:Q9RKQ2 (EMBL:AL133220) (420 aa) fasta scores: E(): 4.4e-40, 40.793% id in 429 aa
YP_039799.1	Similar to the C-terminal regions of Pasteurella multocida hypothetical protein PM0453 TR:Q9CNH8 (EMBL:AE006081) (634 aa) fasta scores: E(): 3.3e-18, 23.304% id in 575 aa, and Campylobacter jejuni  integral membrane protein CJ1658 TR:Q9PM19 (EMBL:AL139079) (696 aa) fasta scores: E(): 2.1e-16, 25.497% id in 604 aa
YP_039800.1	Similar to Escherichia coli Sec-independent protein translocase TatC or MttB SWALL:TATC_ECOLI (SWALL:P27857) (258 aa) fasta scores: E(): 2e-15, 30.17% id in 232 aa, and to Bacillus halodurans hypothetical protein BH0553 SW:YDIJ_BACHD (Q9Z9P4) (253 aa) fasta scores: E(): 2.2e-27, 37.229% id in 231 aa
YP_039801.1	Similar to the N-terminal region of Escherichia coli Sec-independent protein translocase TatA or MttA1 SWALL:TATA_ECOLI (SWALL:O65938) (89 aa) fasta scores: E(): 0.048, 36% id in 50 aa. Full length CDS is similar to Bacillus halodurans hypothetical protein BH3905 TR:Q9K627 (EMBL:AP001520) (68 aa) fasta scores: E(): 1.3e-07, 56.250% id in 64 aa
YP_039802.1	Poor database matches. Similar to Lactococcus lactis hypothetical protein YcfH TR:Q9CIU6 (EMBL:AE006263) (137 aa) fasta scores: E(): 0.19, 26.400% id in 125 aa
YP_039803.1	Similar to Streptococcus pyogenes  transcriptional regulator protein SPY1386 TR:Q99Z58 (EMBL:AE006576) (71 aa) fasta scores: E(): 1.3e-14, 65.672% id in 67 aa, and to Archaeoglobus fulgidus hypothetical transcriptional regulator AF1627 SW:YG27_ARCFU (O28646) (71 aa) fasta scores: E(): 1.2e-09, 47.761% id in 67 aa
YP_039804.1	Similar to Streptococcus pyogenes hypothetical protein SPY1385 TR:Q99Z59 (EMBL:AE006576) (253 aa) fasta scores: E(): 1, 23.016% id in 252 aa, and to an internal region of Bacillus halodurans hypothetical protein BH1986 TR:Q9KBE2 (EMBL:AP001513) (439 aa) fasta scores: E(): 3.5, 27.556% id in 225 aa
YP_039805.1	Similar to Bacillus subtilis ATP-binding transport protein NatA SW:NATA_BACSU (P46903) (246 aa) fasta scores: E(): 1.6e-11, 28.854% id in 253 aa, and to Bacillus halodurans ABC transporter BH0652 TR:Q9KF34 (EMBL:AP001509) (288 aa) fasta scores: E(): 4.6e-20, 33.083% id in 266 aa
YP_039806.1	Similar to Staphylococcus xylosus hypothetical protein TR:O33816 (EMBL:Y14599) (209 aa) fasta scores: E(): 8.7e-32, 48.357% id in 213 aa, and to Butyrivibrio fibrisolvens butyrivibriocin AR10 operon protein BviB TR:Q9ZGP7 (EMBL:AF076529) (216 aa) fasta scores: E(): 0.033, 22.667% id in 225 aa
YP_039807.1	Poor database matches. C-terminus is similar to Listeria monocytogenes low temperature requirement protein A LtrA TR:Q9ZIM4 (EMBL:AF023180) (324 aa) fasta scores: E(): 2.9e-11, 25.387% id in 323 aa. Full length CDS is similar to C-terminal region of Rhizobium meliloti hypothetical protein SW:YSY3_RHIME (O33683) (451 aa) fasta scores: E(): 0.00015, 21.180% id in 373 aa
YP_039808.1	Similar to Clostridium acetobutylicum acetyl-CoA acetyltransferase Thl SW:THL_CLOAB (P45359) (392 aa) fasta scores: E(): 5e-81, 57.653% id in 392 aa, and to Clostridium thermosaccharolyticum acetyl coenzyme A acetyltransferase ThlA TR:P77852 (EMBL:Z82038) (392 aa) fasta scores: E(): 1.1e-82, 58.929% id in 392 aa
YP_039809.1	Similar to Pasteurella multocida hypothetical protein PM0097 TR:Q9CPE7 (EMBL:AE006045) (247 aa) fasta scores: E(): 7.6e-50, 51.867% id in 241 aa, and to Rhizobium loti hypothetical protein MLR5444 TR:BAB51895 (EMBL:AP003006) (263 aa) fasta scores: E(): 3.3e-19, 32.500% id in 240 aa
YP_039810.1	catalyzes the transfer of a methyl group from 5-methyltetrahydrofolate to homocysteine to form methionine
YP_039811.1	catalyzes the formation of 5,10-methylenetetrahydrofolate from 5-methyltetrahydrofolate and S-adenosyl-L-homocysteine and methionine from S-adenosyl-L-methionine and L-homocysteine; expressed in B. subtilis under methionine starvation conditions
YP_039812.1	Similar to Lactococcus lactis (subsp. cremoris) (Streptococcus cremoris) cystathionine beta-lyase MetC TR:Q9RAS9 (EMBL:AF131880) (380 aa) fasta scores: E(): 8e-61, 47.887% id in 355 aa, and to Lactobacillus reuteri cystathionine beta-lyase TR:Q9FCU8 (EMBL:AJ293860) (380 aa) fasta scores: E(): 8.2e-66, 49.304% id in 359 aa
YP_039813.1	Similar to Lactococcus lactis (subsp. cremoris) (Streptococcus cremoris) cystathionine beta-lyase MetC TR:Q9RAS9 (EMBL:AF131880) (380 aa) fasta scores: E(): 3.6e-39, 41.096% id in 365 aa, and to Bacillus subtilis hypothetical protein YjcI TR:O31631 (EMBL:Z99110) (373 aa) fasta scores: E(): 2e-66, 49.863% id in 365 aa
YP_039814.1	Similar to Bacillus subtilis stage 0 sporulation protein T Spo0J SW:SP0J_BACSU (P26497) (282 aa) fasta scores: E(): 1.3e-37, 45.802% id in 262 aa, and to Listeria monocytogenes hypothetical protein ParB TR:Q9FCV8 (EMBL:AJ010494) (283 aa) fasta scores: E(): 1.3e-40, 49.811% id in 265 aa
YP_039815.1	Similar to Bacillus halodurans hypothetical protein BH2666 TR:Q9K9I1 (EMBL:AP001516) (276 aa) fasta scores: E(): 9.8e-26, 34.815% id in 270 aa, and to Bacillus subtilis hypothetical protein YkuT TR:O34897 (EMBL:AJ222587) (267 aa) fasta scores: E(): 2.4e-22, 35.772% id in 246 aa
YP_039816.1	Similar to Bacillus halodurans hypothetical protein BH4052 TR:Q9K5N6 (EMBL:AP001520) (65 aa) fasta scores: E(): 6.3e-13, 54.237% id in 59 aa, and to Streptococcus pyogenes hypothetical protein SPY0004 TR:Q9A208 (EMBL:AE006472) (65 aa) fasta scores: E(): 4.4e-09, 50.000% id in 62 aa
YP_039817.1	translation-associated GTPase; the crystal structure of the Haemophilus influenzae YchF protein showed similarity to the yeast structure (PDB: 1NI3); fluorescence spectroscopy revealed nucleic acid binding; the yeast protein YBR025c interacts with the translation elongation factor eEF1
YP_039819.1	binds cooperatively with S18 to the S15-16S complex, allowing platform assembly to continue with S11 and S21
YP_039820.1	Similar to Bacillus subtilis single-strand binding protein Ssb SW:SSB_BACSU (P37455) (172 aa) fasta scores: E(): 7.6e-40, 67.429% id in 175 aa, and to bacteriophage A118  single-strand binding protein Ssb protein TR:Q9T160 (EMBL:AJ242593) (160 aa) fasta scores: E(): 8.1e-35, 59.281% id in 167 aa. Similar to SAR2083, 68.862% identity (73.718% ungapped) in 167 aa overlap
YP_039821.1	binds as a heterodimer with protein S6 to the central domain of the 16S rRNA; helps stabilize the platform of the 30S subunit
YP_039822.1	Poor database matches. Similar to the C-terminal regions of Streptococcus pyogenes conserved hypothetical protein-phage associated protein SPY0938 TR:Q9A043 (EMBL:AE006542) (269 aa) fasta scores: E(): 4.1e-09, 30.638% id in 235 aa, and to Cryptosporidium parvum hypothetical protein TR:Q9GRY1 (EMBL:AJ293269) (483 aa) fasta scores: E(): 7.5, 25.941% id in 239 aa
YP_039823.1	Similar to bacteriophage phi PVL, and Staphylococcus aureus temperate phage phiSLT, integrase TR:O80068 (EMBL:AB009866) (401 aa) fasta scores: E(): 2e-52, 38.765% id in 405 aa, and to bacteriophage bIL312 integrase Int TR:Q9AZF9 (EMBL:AF323673) (382 aa) fasta scores: E(): 1e-15, 35.468% id in 406 aa
YP_039824.1	Similar to bacteriophage bIL311 cI-like repressor TR:Q9AZH9 (EMBL:AF323672) (235 aa) fasta scores: E(): 1.9, 25.822% id in 213 aa, and to Staphylococcus aureus pathogenicity island protein Orf20 TR:Q9F0J8 (EMBL:AF217235) (267 aa) fasta scores: E(): 1.4, 26.961% id in 204 aa
YP_039825.1	Similar to bacteriophage SPP1 hypothetical protein Orf37.3 TR:Q38149 (EMBL:X67865) (57 aa) fasta scores: E(): 2.7, 27.660% id in 47 aa, and to Streptomyces coelicolor hypothetical protein SCE68.26C TR:Q9WX06 (EMBL:AL079345) (70 aa) fasta scores: E(): 0.5, 29.091% id in 55 aa
YP_039826.1	Similar to bacteriophage phi PVL hypothetical protein Orf37 TR:O80076 (EMBL:AB009866) (87 aa) fasta scores: E(): 2.3e-07, 37.079% id in 89 aa, and to Staphylococcus aureus temperate phage phiSLT hypothetical protein TR:Q9B0G8 (EMBL:AB045978) (87 aa) fasta scores: E(): 2.6e-06, 33.708% id in 89 aa
YP_039829.1	Poor database matches. Similar to Staphylococcus aureus  pathogenicity island protein Orf17 TR:Q9F0K1 (EMBL:AF217235) (127 aa) fasta scores: E(): 4.9e-47, 98.425% id in 127 aa
YP_039830.1	Poor database matches. Similar to Staphylococcus aureus  pathogenicity island protein Orf16 TR:Q9F0K2 (EMBL:AF217235) (105 aa) fasta scores: E(): 3.2e-14, 45.370% id in 108 aa
YP_039831.1	Similar to Lactococcus bacteriophage phi31 hypothetical protein TR:Q9G0E4 (EMBL:AJ292531) (268 aa) fasta scores: E(): 0.0017, 21.961% id in 255 aa, and to Staphylococcus aureus  pathogenicity island protein Orf15 TR:Q9F0K3 (EMBL:AF217235) (289 aa) fasta scores: E(): 1.3e-116, 95.502% id in 289 aa
YP_039832.1	Poor database matches. N-terminus is similar to Staphylococcus aureus  pathogenicity island protein Orf14 TR:Q9F0K4 (EMBL:AF217235) (278 aa) fasta scores: E(): 4.9e-95, 98.545% id in 275 aa. and C-terminus is similar to Staphylococcus aureus  pathogenicity island protein Orf13 TR:Q9F0K5 (EMBL:AF217235) (293 aa) fasta scores: E(): 4.5e-94, 89.273% id in 289 aa
YP_039833.1	Poor database matches. Similar to Staphylococcus aureus  pathogenicity island protein Orf12 TR:Q9F0K6 (EMBL:AF217235) (126 aa) fasta scores: E(): 1.3e-49, 96.825% id in 126 aa
YP_039834.1	Poor database matches. Similar to Staphylococcus aureus  pathogenicity island protein Orf11 TR:Q9F0K7 (EMBL:AF217235) (213 aa) fasta scores: E(): 8.4e-76, 93.897% id in 213 aa
YP_039835.1	Poor database matches. Similar to Staphylococcus aureus  pathogenicity island protein Orf10 TR:Q9F0K8 (EMBL:AF217235) (113 aa) fasta scores: E(): 8.4e-38, 91.667% id in 108 aa
YP_039836.1	Poor database matches. Similar to Plasmodium falciparum hypothetical protein PFC0075c TR:O97331 (EMBL:AL034560) (284 aa) fasta scores: E(): 1.7, 26.154% id in 195 aa
YP_039837.1	Poor database matches. Similar to Staphylococcus aureus  pathogenicity island protein Orf7 TR:Q9F0L1 (EMBL:AF217235) (191 aa) fasta scores: E(): 7.7e-61, 96.000% id in 175 aa. CDS is truncated at the C-terminus in comparison to the pathogenicity island protein
YP_039838.1	Poor database matches. Similar to Staphylococcus aureus  pathogenicity island protein Orf6 TR:Q9F0L2 (EMBL:AF217235) (113 aa) fasta scores: E(): 2.4e-40, 93.805% id in 113 aa
YP_039839.1	Similar to bacteriophage SF6, and bacteriophage rho-15 terminase small subunit SW:TERS_BPSF6 (Q38627) (151 aa) fasta scores: E(): 8.6e-06, 34.568% id in 162 aa, and to Staphylococcus aureus  pathogenicity island protein Orf5 TR:Q9F0L3 (EMBL:AF217235) (189 aa) fasta scores: E(): 6.2e-67, 97.884% id in 189 aa
YP_039840.2	No significant database matches to the full length CDS. C-terminus is similar to C-terminal region of Lactococcus lactis plasmid (pNP40) abortive bacteriophage infection protein AbiF TR:Q48618 (EMBL:U36837) (342 aa) fasta scores: E(): 0.00068, 22.857% id in 280 aa. N-terminus is similar to N-terminal region of Pasteurella multocida hypothetical protein PM1540 TR:Q9CKR6 (EMBL:AE006190) (309 aa) fasta scores: E(): 1.3e-08, 24.731% id in 279 aa
YP_039841.1	Poor database matches. Similar to an internal region of Streptococcus thermophilus bacteriophage 7201 hypothetical protein Orf2 TR:Q9MCM9 (EMBL:AF145054) (175 aa) fasta scores: E(): 1.8e-08, 36.290% id in 124 aa
YP_039842.1	Poor database matches. Similar to Staphylococcus aureus  pathogenicity island protein Orf3 TR:Q9F0L5 (EMBL:AF217235) (170 aa) fasta scores: E(): 1.3e-50, 99.412% id in 170 aa
YP_039843.1	Poor database matches. Weakly similar to Pasteurella multocida hypothetical protein PM1540 TR:Q9CKR6 (EMBL:AE006190) (309 aa) fasta scores: E(): 9.9, 22.101% id in 276 aa
YP_039844.1	Similar to Bacillus subtilis hypothetical protein YxeA SW:YXEA_BACSU (P54940) (115 aa) fasta scores: E(): 2.7e-06, 29.091% id in 110 aa, and to Lactococcus lactis hypothetical protein YpaG TR:Q9CFJ9 (EMBL:AE006378) (115 aa) fasta scores: E(): 9e-05, 31.405% id in 121 aa
YP_039845.1	Similar to Campylobacter jejuni  acidic periplasmic protein CJ0424 TR:Q9PI81 (EMBL:AL139075) (210 aa) fasta scores: E(): 0.93, 25.500% id in 200 aa. C-terminus is similar to the C-terminal region of Bacillus subtilis hypothetical protein YkoI TR:O34551 (EMBL:AJ002571) (226 aa) fasta scores: E(): 0.29, 24.138% id in 145 aa
YP_039846.1	Poor database matches. Similar to the N-terminal region of Lactococcus lactis  transcriptional regulator YnaB TR:Q9CG39 (EMBL:AE006359) (252 aa) fasta scores: E(): 4.3, 27.273% id in 77 aa
YP_039847.1	Similar to Bacillus subtilis hypothetical protein YdaS TR:P96594 (EMBL:AB001488) (85 aa) fasta scores: E(): 9.2e-11, 46.429% id in 84 aa, and to Lactococcus lactis hypothetical protein YmgJ TR:Q9CG68 (EMBL:AE006356) (80 aa) fasta scores: E(): 6.6e-08, 46.479% id in 71 aa
YP_039848.1	No significant database matches. Doubtful CDS
YP_039849.1	Similar to Schizosaccharomyces pombe phosphoglycerate mutase SPAC26F1.06 SW:PMGY_SCHPO (P36623) (211 aa) fasta scores: E(): 3.7e-05, 25.000% id in 196 aa, and to Rhizobium loti phosphoglycerate mutase MLR4643 TR:BAB51251 (EMBL:AP003004) (206 aa) fasta scores: E(): 3.2e-07, 29.146% id in 199 aa
YP_039850.1	Similar to Bacillus subtilis hypothetical protein YdeH TR:P96665 (EMBL:AB001488) (148 aa) fasta scores: E(): 0.00021, 27.344% id in 128 aa. CDS is truncated at the N-terminus in comparison to B. subtilis protein
YP_039851.1	No significant database matches. Doubtful CDS
YP_039852.1	Similar to Bacillus subtilis hypothetical protein YkyA SW:YKYA_BACSU (P21884) (237 aa) fasta scores: E(): 0.71, 23.077% id in 221 aa, and to Bacillus subtilis hypothetical protein YkyA TR:Q45496 (EMBL:AF012285) (205 aa) fasta scores: E(): 4.1, 22.927% id in 205 aa
YP_039853.1	Similar to an internal region of Amsacta moorei entomopoxvirus hypothetical protein AMV156 TR:Q9EMP3 (EMBL:AF250284) (1238 aa) fasta scores: E(): 0.81, 19.540% id in 522 aa. Internal region of the CDS is similar to N-terminal region of bacteriophage SPBc2 hypothetical protein YolJ TR:O64036 (EMBL:AF020713) (422 aa) fasta scores: E(): 0.98, 20.323% id in 310 aa
YP_039854.1	Similar to Xanthomonas campestris alkyl hydroperoxide reductase subunit F AhpF SW:AHPF_XANCH (O06465) (530 aa) fasta scores: E(): 1.8e-95, 53.876% id in 516 aa. Previously sequenced as Staphylococcus aureus alkyl hydroperoxide reductase subunit F AhpF SW:AHPF_STAAU (O05204) (507 aa) fasta scores: E(): 2.9e-181, 98.817% id in 507 aa
YP_039855.1	Similar to Salmonella typhimurium alkyl hydroperoxide reductase, C22 protein, AhpC SW:AHPC_SALTY (P19479) (186 aa) fasta scores: E(): 5.2e-47, 65.426% id in 188 aa. Previously sequenced as Staphylococcus aureus, and alkyl hydroperoxide reductase subunit C AhpC TR:Q53647 (EMBL:U92441) (189 aa) fasta scores: E(): 5.1e-74, 100.000% id in 189 aa
YP_039856.1	Similar to Vibrio harveyi NADPH-flavin oxidoreductase Frp SW:FRP_VIBHA (Q56691) (240 aa) fasta scores: E(): 2.8e-28, 36.400% id in 250 aa, and to Bacillus subtilis nitro/flavin reductase NfrA SW:NFRA_BACSU (P39605) (249 aa) fasta scores: E(): 8e-37, 42.105% id in 247 aa
YP_039857.1	Similar to Escherichia coli proton glutamate symport protein GltP SW:GLTP_ECOLI (P21345) (437 aa) fasta scores: E(): 2.4e-22, 25.459% id in 436 aa, and to Bacillus subtilis hypothetical symporter YhcL SW:YHCL_BACSU (P54596) (463 aa) fasta scores: E(): 1.8e-102, 61.283% id in 452 aa
YP_039858.1	No significant database matches. Doubtful CDS
YP_039859.1	No significant database matches. Doubtful CDS
YP_039863.1	Catalyzes the transfer of the phosphoribosyl moiety from 5-phospho--D-ribosyl-1-pyrophosphate (PRib-PP) to the 6-oxo-guanine and -xanthine
YP_039864.1	Similar to Bacillus subtilis xanthine permease PbuX SW:PBUX_BACSU (P42086) (438 aa) fasta scores: E(): 4.8e-82, 56.532% id in 421 aa, and to Lactococcus lactis xanthine permease PbuX TR:Q9CGE9 (EMBL:AE006347) (434 aa) fasta scores: E(): 9.8e-71, 48.471% id in 425 aa
YP_039865.1	Similar to Bacillus subtilis inosine-5'-monophosphate dehydrogenase GuaB SW:IMDH_BACSU (P21879) (513 aa) fasta scores: E(): 1.1e-130, 76.923% id in 481 aa, and to Bacillus halodurans inositol-monophosphate dehydrogenase GuaB TR:Q9KGN8 (EMBL:AP001507) (485 aa) fasta scores: E(): 8.1e-130, 74.029% id in 489 aa
YP_039866.1	contains glutamine-hydrolyzing domain and glutamine amidotransferase; GMP-binding domain; functions to produce GMP from XMP in the IMP pathway
YP_039869.1	Internal region is similar to Escherichia coli sequence element IS911b transposase InsN SW:INN2_ECOLI (P39212) (100 aa) fasta scores: E(): 0.022, 29.885% id in 87 aa, and to Bacillus halodurans transposase TR:Q9JWP9 (EMBL:AP001518) (94 aa) fasta scores: E(): 1.4e-14, 54.839% id in 93 aa. CDS does not contain a conventional translational start codon
YP_039872.1	Similar to Lactococcus lactis hypothetical protein YtrP SW:YTRP_LACLA (Q02009) (119 aa) fasta scores: E(): 4e-19, 54.310% id in 116 aa, and to Neisseria meningitidis hypothetical protein NMB0528 TR:Q9K0Q6 (EMBL:AE002408) (123 aa) fasta scores: E(): 2.8e-08, 32.231% id in 121 aa
YP_039873.1	Similar to Rhizobium loti hypothetical protein MLR1414 TR:BAB48794 (EMBL:AP002997) (297 aa) fasta scores: E(): 1e-15, 29.655% id in 290 aa, and to Escherichia coli hypothetical protein YtfG SW:YTFG_ECOLI (P39315) (286 aa) fasta scores: E(): 2e-15, 30.714% id in 280 aa
YP_039874.1	these proteins share structural homology to known superantigen proteins but do not exhibit any of the properties expected such as histocompatibility complex class II binding or broad T-cell activation
YP_039875.1	these proteins share structural homology to known superantigen proteins but do not exhibit any of the properties expected such as histocompatibility complex class II binding or broad T-cell activation
YP_039876.1	these proteins share structural homology to known superantigen proteins but do not exhibit any of the properties expected such as histocompatibility complex class II binding or broad T-cell activation
YP_039877.1	these proteins share structural homology to known superantigen proteins but do not exhibit any of the properties expected such as histocompatibility complex class II binding or broad T-cell activation
YP_039879.1	SSL5, SET3, SET10; bind P-selectin glycoprotein ligand-1 and inhibit P-selectin-mediated neutrophil rolling along the endothelium; these proteins share structural homology to known superantigens but do not exhibit any of the properties expected such as histocompatibility complex class II binding or broad T-cell activation
YP_039880.1	SSL7, SET1; blocks IgA-FcR interactions and inhibits complement, leading to increased survival of a sensitive bacterium in blood
YP_039881.1	these proteins share structural homology to known superantigen proteins but do not exhibit any of the properties expected such as histocompatibility complex class II binding or broad T-cell activation
YP_039882.1	these proteins share structural homology to known superantigen proteins but do not exhibit any of the properties expected such as histocompatibility complex class II binding or broad T-cell activation
YP_039884.1	Similar to Escherichia coli type I restriction enzyme EcoR124II modification protein HsdM SW:T1M1_ECOLI (P10484) (520 aa) fasta scores: E(): 1.8e-74, 42.578% id in 512 aa, and to Streptococcus thermophilus type I modification subunit HsdM TR:Q9RNW1 (EMBL:AF177167) (531 aa) fasta scores: E(): 1.1e-85, 49.031% id in 516 aa. Similar to SAR1899, 98.456% identity (98.456% ungapped) in 518 aa overlap
YP_039885.1	Similar to Lactococcus lactis  type I restriction and modification system specificity subunit HsdS TR:Q9AJ85 (EMBL:AF142640) (410 aa) fasta scores: E(): 1.7e-20, 26.545% id in 437 aa, and to Streptococcus thermophilus restriction modification system specificity subunit HsdS TR:Q9RNW6 (EMBL:AF177166) (419 aa) fasta scores: E(): 2.6e-09, 24.775% id in 444 aa
YP_039886.1	these proteins share structural homology to known superantigen proteins but do not exhibit any of the properties expected such as histocompatibility complex class II binding or broad T-cell activation
YP_039887.1	Poor database matches. Similar to Campylobacter jejuni hypothetical protein CJ0849c TR:Q9PP74 (EMBL:AL139076) (719 aa) fasta scores: E(): 0.28, 22.388% id in 402 aa, and to Saccharomyces cerevisiae intracellular protein transport protein Uso1 SW:USO1_YEAST (P25386) (1790 aa) fasta scores: E(): 2.2, 22.609% id in 460 aa
YP_039889.1	No significant database matches. Similar to SAR0439, 63.672% identity (63.922% ungapped) in 256 aa overlap, SAR0442, 63.118% identity (63.602% ungapped) in 263 aa overlap, SAR0443, 60.902% identity (62.548% ungapped) in 266 aa overlap, and SAR0444, 52.107% identity (52.918% ungapped) in 261 aa overlap
YP_039890.1	No significant database matches. Similar to SAR0442, 78.210% identity (78.516% ungapped) in 257 aa overlap, SAR0443, 77.692% identity (78.906% ungapped) in 260 aa overlap, and SAR0438, 63.672% identity (63.922% ungapped) in 256 aa overlap
YP_039891.1	No significant database matches. Similar to SAR0439, 78.210% identity (78.516% ungapped) in 257 aa overlap, SAR0443, 76.154% identity (77.647% ungapped) in 260 aa overlap, SAR0438, 63.118% identity (63.602% ungapped) in 263 aa overlap, and SAR0444, 56.757% identity (57.647% ungapped) in 259 aa overlap. Appears to have an uncleavable N-terminal signal sequence
YP_039892.1	No significant database matches. Similar to SAR0439, 77.692% identity (78.906% ungapped) in 260 aa overlap, SAR0442, 76.154% identity (77.647% ungapped) in 260 aa overlap, and SAR0438, 60.902% identity (62.548% ungapped) in 266 aa overlap
YP_039893.1	No significant database matches. Similar to SAR2573, 64.314% identity (64.822% ungapped) in 255 aa overlap, SAR0106, 63.118% identity (65.613% ungapped) in 263 aa overlap, SAR2570, 61.923% identity (62.403% ungapped) in 260 aa overlap, SAR0445, 55.351% identity (57.034% ungapped) in 271 aa overlap, SAR0442, 56.757% identity (57.647% ungapped) in 259 aa overlap, SAR0438, 52.107% identity (52.918% ungapped) in 261 aa overlap, and SAR0443, 50.951% identity (52.344% ungapped) in 263 aa overlap
YP_039894.1	No significant database matches. Similar to SAR0444, 55.351% identity (57.034% ungapped) in 271 aa overlap, SAR2573, 50.373% identity (52.326% ungapped) in 268 aa overlap, and SAR0106, 50.000% identity (53.571% ungapped) in 270 aa overlap
YP_039898.1	Similar to Pseudomonas chlororaphis hypothetical protein, needed for nitrile hydratase expression SW:P47K_PSECL (P31521) (419 aa) fasta scores: E(): 1.2e-55, 43.142% id in 401 aa, and to Bacillus subtilis hypothetical protein YciC TR:P94400 (EMBL:D50453) (397 aa) fasta scores: E(): 1.9e-100, 67.424% id in 396 aa
YP_039900.1	Catalyzes the transfer of electrons from NADH to ubiquinone
YP_039901.1	Similar to Aquifex aeolicus hypothetical protein AG_863 TR:O67026 (EMBL:AE000711) (1007 aa) fasta scores: E(): 2.9e-42, 27.685% id in 1015 aa, and an internal region of Bacillus subtilis hypothetical protein YbcD TR:O87092 (EMBL:AB006424) (686 aa) fasta scores: E(): 7.8e-94, 46.501% id in 686 aa
YP_039902.1	Similar to Bacillus subtilis hypothetical protein YbcI TR:O34380 (EMBL:Z99104) (124 aa) fasta scores: E(): 7.6e-32, 70.000% id in 120 aa, and to Bacillus halodurans hypothetical protein BH3870 TR:Q9K662 (EMBL:AP001520) (121 aa) fasta scores: E(): 3.8e-30, 66.387% id in 119 aa
YP_039903.1	Poor database matches. C-terminal region is similar to Staphylococcus aureus hypothetical protein SAV0455 or SA0414 SWALL:Q99WE7 (EMBL:AP003359) (80 aa) fasta scores: E(): 1.7e-29, 98.75% id in 80 aa. Possible alternative translational start site
YP_039904.1	Similar to Helicobacter pylori J99 hypothetical protein JHP0787 TR:Q9ZKZ5 (EMBL:AE001509) (228 aa) fasta scores: E(): 6.9e-13, 29.767% id in 215 aa, and to Bacillus megaterium hypothetical protein TR:Q06074 (EMBL:Z21972) (216 aa) fasta scores: E(): 2.1e-10, 26.244% id in 221 aa
YP_039905.1	Similar to Bacillus stearothermophilus carboxylesterase precursor Est SW:EST_BACST (Q06174) (247 aa) fasta scores: E(): 1.3e-22, 31.020% id in 245 aa, and to Bacillus subtilis hypothetical protein YvaK TR:O32232 (EMBL:Z99121) (248 aa) fasta scores: E(): 2e-24, 31.837% id in 245 aa
YP_039906.1	Doubtful CDS. No database matches
YP_039907.1	Similar to Bacillus subtilis  transporter YocR TR:O34383 (EMBL:AF027868) (445 aa) fasta scores: E(): 1.8e-73, 49.103% id in 446 aa, and to Bacillus halodurans sodium-dependent transporter BH0217 TR:Q9KG95 (EMBL:AP001507) (457 aa) fasta scores: E(): 1.1e-67, 46.727% id in 443 aa
YP_039908.1	Similar to Bacillus subtilis  cysteine synthase YrhA TR:O05393 (EMBL:U93874) (307 aa) fasta scores: E(): 2.4e-51, 51.864% id in 295 aa, and to Helicobacter pylori cysteine synthase HP0107 SW:CYSM_HELPY (P56067) (306 aa) fasta scores: E(): 4.7e-47, 48.993% id in 298 aa
YP_039909.1	Similar to Bacillus subtilis  cystathionine gamma-lyase YrhB TR:O05394 (EMBL:U93874) (379 aa) fasta scores: E(): 7.2e-82, 57.632% id in 380 aa, and to Helicobacter pylori  cystathionine gamma-synthase HP0106 SW:METB_HELPY (P56069) (380 aa) fasta scores: E(): 2.3e-76, 53.846% id in 377 aa
YP_039910.1	Similar to Escherichia coli probable ATP-binding component of a transporter system Abc SW:ABC_ECOLI (P30750) (343 aa) fasta scores: E(): 1.7e-48, 46.313% id in 339 aa, and to Vibrio cholerae ABC transporter ATP-binding protein VC0907 TR:Q9KTJ5 (EMBL:AE004174) (344 aa) fasta scores: E(): 6.8e-49, 46.313% id in 339 aa
YP_039911.1	Similar to Salmonella enteritidis pathogenicity islet encoded integral membrane protein SfbC TR:Q9S4Y9 (EMBL:AF102556) (202 aa) fasta scores: E(): 2e-30, 48.969% id in 194 aa, and to Vibrio cholerae ABC transporter, permease VC0906 TR:Q9KTJ6 (EMBL:AE004174) (225 aa) fasta scores: E(): 5.7e-38, 51.659% id in 211 aa. CDS contains extra residues at the N-terminus in comparison to the S. enteritidis protein
YP_039912.1	Similar to Pasteurella haemolytica outer membrane lipoprotein 3 precursor PlpC SW:PLPC_PASHA (Q08870) (263 aa) fasta scores: E(): 1.8e-25, 38.846% id in 260 aa, and to Lactococcus lactis outer membrane lipoprotein precursor PlpB TR:Q9CIN7 (EMBL:AE006269) (286 aa) fasta scores: E(): 7.2e-31, 42.751% id in 269 aa
YP_039913.1	Similar to an internal region of Enterococcus faecalis autolysin precursor SW:ALYS_ENTFA (P37710) (671 aa) fasta scores: E(): 2.5e-18, 31.970% id in 269 aa, and to the C-terminal region of Bacillus subtilis endopeptidase precursor LytF TR:O07532 (EMBL:Y14079) (488 aa) fasta scores: E(): 1.4e-20, 34.591% id in 318 aa
YP_039915.1	Poor database matches. Similar to the N-terminal regions of Pseudomonas aeruginosa hypothetical protein PA3470 TR:Q9HYD6 (EMBL:AE004768) (152 aa) fasta scores: E(): 0.00013, 29.524% id in 105 aa, and to Streptococcus pneumoniae hypothetical protein TR:Q9K2H0 (EMBL:AF154045) (212 aa) fasta scores: E(): 0.0026, 30.275% id in 109 aa
YP_039916.1	Similar to Bacillus subtilis spermine/spermidine acetyltransferase BltD SW:BLTD_BACSU (P39909) (152 aa) fasta scores: E(): 0.0021, 21.154% id in 156 aa, and to Bacillus halodurans hypothetical protein BH3804 TR:Q9K6C5 (EMBL:AP001520) (167 aa) fasta scores: E(): 2.1e-10, 31.159% id in 138 aa. Possible alternative translational start site
YP_039917.1	Similar to Lactococcus lactis hypothetical protein YibF TR:Q9CHC4 (EMBL:AE006314) (253 aa) fasta scores: E(): 4.4e-18, 26.172% id in 256 aa, and to an internal region of Streptomyces coelicolor  membrane protein SCQ11.10c TR:Q9X9U1 (EMBL:AL096823) (513 aa) fasta scores: E(): 4.7e-14, 25.200% id in 250 aa
YP_039918.1	Similar to Lactococcus lactis hypothetical protein YibE TR:Q9CHC5 (EMBL:AE006314) (393 aa) fasta scores: E(): 3.1e-24, 30.303% id in 363 aa, and to an internal region of Streptomyces coelicolor  membrane protein SCQ11.10c TR:Q9X9U1 (EMBL:AL096823) (513 aa) fasta scores: E(): 8.5e-12, 26.102% id in 295 aa
YP_039919.1	Similar to Bacillus subtilis glutamate biosynthesis transcriptional regulatory protein GltC SW:GLTC_BACSU (P20668) (300 aa) fasta scores: E(): 1.3e-14, 29.900% id in 301 aa. N-terminus is similar to the N-terminal region of Acinetobacter calcoaceticus cat operon transcriptional regulator CatM SW:CATM_ACICA (P07774) (303 aa) fasta scores: E(): 5.1e-12, 30.364% id in 247 aa
YP_039920.1	Similar to Bacillus subtilis glutamate synthase [NADPH], large subunit protein GltB SW:GLTB_BACSU (P39812) (1520 aa) fasta scores: E(): 0, 53.329% id in 1517 aa, and to Campylobacter jejuni glutamate synthase GltB TR:Q9PJA4 (EMBL:AL139074) (1496 aa) fasta scores: E(): 0, 47.641% id in 1505 aa
YP_039921.1	glutamate synthase is composed of subunits alpha and beta; beta subunit is a flavin adenine dinucleotide-NADPH dependent oxidoreductase; provides electrons to the alpha subunit, which binds L-glutamine and 2-oxoglutarate and forms L-glutamate
YP_039922.1	Similar to Staphylococcus xylosus PTS system, sucrose-specific IIBC component ScrA SW:PTSB_STAXY (P51184) (480 aa) fasta scores: E(): 1.5e-74, 46.653% id in 478 aa, and to Bacillus halodurans PTS system, trehalose-specific enzyme IIBC component BH2216 TR:Q9KAS1 (EMBL:AP001514) (470 aa) fasta scores: E(): 8.2e-91, 54.873% id in 472 aa
YP_039923.1	Similar to Bacillus subtilis trehalose-6-phosphate hydrolase TreA SW:TREC_BACSU (P39795) (561 aa) fasta scores: E(): 1.8e-132, 59.538% id in 519 aa, and to Escherichia coli trehalose-6-phosphate hydrolase TreC SW:TREC_ECOLI (P28904) (551 aa) fasta scores: E(): 1.5e-119, 56.660% id in 503 aa
YP_039924.1	Similar to Bacillus subtilis trehalose operon transcriptional repressor TreR SW:TRER_BACSU (P39796) (238 aa) fasta scores: E(): 4e-26, 39.076% id in 238 aa, and to Bacillus halodurans trehalose operon transcriptional repressor TreR TR:Q9KEH9 (EMBL:AP001510) (237 aa) fasta scores: E(): 2e-26, 38.889% id in 234 aa
YP_039926.1	Similar to Lactococcus lactis hypothetical protein YafC TR:Q9CJE1 (EMBL:AE006244) (173 aa) fasta scores: E(): 9.5e-11, 28.902% id in 173 aa, and to Escherichia coli hypothetical protein YhbS SW:YHBS_ECOLI (P45473) (167 aa) fasta scores: E(): 4.1e-05, 27.972% id in 143 aa
YP_039927.1	N-terminus is similar to the N-terminal region of Escherichia coli DNA polymerase III, tau subunit protein DnaX SW:DP3X_ECOLI (P06710) (643 aa) fasta scores: E(): 8.3e-40, 36.404% id in 456 aa. Full length CDS is similar to Bacillus subtilis DNA polymerase III subunit gamma/tau DnaX SW:DP3X_BACSU (P09122) (563 aa) fasta scores: E(): 4e-80, 46.034% id in 580 aa
YP_039928.1	Similar to Bacillus subtilis hypothetical protein YaaK SW:YAAK_BACSU (P24281) (107 aa) fasta scores: E(): 1.9e-22, 66.981% id in 106 aa, and to Bacillus halodurans hypothetical protein BH0035 SW:Y035_BACHD (Q9JWQ5) (103 aa) fasta scores: E(): 1.2e-20, 64.000% id in 100 aa
YP_039929.1	involved in a recombinational process of DNA repair, independent of the recBC complex
YP_039930.1	Similar to C-terminal region of Enterococcus faecium transposase TR:Q47815 (EMBL:L40841) (310 aa) fasta scores: E(): 1.9e-39, 46.183% id in 262 aa, and to the full length Neisseria gonorrhoeae hypothetical protein TR:Q50996 (EMBL:L36381) (267 aa) fasta scores: E(): 1.1e-27, 39.689% id in 257 aa
YP_039931.1	C-terminal is similar to Lactobacillus johnsonii insertion element IS1223 hypothetical protein SW:YI3A_LACJO (Q48585) (177 aa) fasta scores: E(): 2.7e-08, 33.140% id in 172 aa, and Lactococcus lactis hypothetical protein YgcE TR:O32786 (EMBL:X92946) (185 aa) fasta scores: E(): 7.2e-06, 26.404% id in 178 aa. Possible alternative translational start site
YP_039932.1	Similar to Bacillus subtilis hypothetical protein YaaO SW:YAAO_BACSU (P37536) (480 aa) fasta scores: E(): 3.4e-27, 35.908% id in 479 aa, and to Bacillus halodurans lysine decarboxylase BH0041 TR:Q9KGM0 (EMBL:AP001507) (482 aa) fasta scores: E(): 2.4e-21, 33.766% id in 462 aa
YP_039933.1	catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to thymidine monophosphate (dTMP) to form thymidine diphosphate (dTDP)
YP_039934.1	Similar to Bacillus halodurans hypothetical protein BH0043 TR:Q9KGL8 (EMBL:AP001507) (109 aa) fasta scores: E(): 8e-29, 66.055% id in 109 aa, and to Bacillus subtilis hypothetical protein YaaQ SW:YAAQ_BACSU (P37538) (109 aa) fasta scores: E(): 9.7e-28, 65.138% id in 109 aa
YP_039935.1	Similar to Bacillus subtilis DNA polymerase III, delta' subunit protein HolB SW:HOLB_BACSU (P37540) (329 aa) fasta scores: E(): 3.3e-25, 31.699% id in 306 aa, and to Bacillus halodurans DNA polymerase III delta' subunit HolB TR:Q9KGL7 (EMBL:AP001507) (328 aa) fasta scores: E(): 9.1e-23, 30.421% id in 309 aa
YP_039936.1	Similar to Bacillus subtilis hypothetical protein YaaT SW:YAAT_BACSU (P37541) (275 aa) fasta scores: E(): 1.7e-62, 63.019% id in 265 aa, and to Bacillus halodurans signal peptidase-like protein BH0045 TR:Q9KGL6 (EMBL:AP001507) (275 aa) fasta scores: E(): 7.6e-60, 59.696% id in 263 aa
YP_039937.1	in Bacillus subtilis this protein is involved in the negative regulation of DNA replication initiation; interacts with DnaN and DnaA
YP_039938.1	Similar to Bacillus subtilis hypothetical protein YabB SW:YABB_BACSU (P37543) (247 aa) fasta scores: E(): 2.1e-42, 46.281% id in 242 aa, and to Streptococcus pyogenes hypothetical protein SPY1411 TR:Q99Z41 (EMBL:AE006578) (258 aa) fasta scores: E(): 4.2e-37, 41.803% id in 244 aa
YP_039939.1	Similar to Halobacterium sp hypothetical protein VNG2274C TR:Q9HN31 (EMBL:AE005112) (77 aa) fasta scores: E(): 1.5e-13, 54.167% id in 72 aa, and to Bacillus subtilis hypothetical protein YazA TR:O31414 (EMBL:Z99104) (99 aa) fasta scores: E(): 4.3e-15, 53.086% id in 81 aa
YP_039940.1	Similar to Bacillus halodurans BH0049 TR:Q9KGL2 (EMBL:AP001507) (289 aa) fasta scores: E(): 2.1e-45, 49.638% id in 276 aa, and to Bacillus subtilis hypothetical protein YabC SW:YABC_BACSU (P37544) (292 aa) fasta scores: E(): 3.3e-43, 46.595% id in 279 aa
YP_039941.1	methionine--tRNA ligase; MetRS; adds methionine to tRNA(Met) with cleavage of ATP to AMP and diphosphate; some MetRS enzymes form dimers depending on a C-terminal domain that is also found in other proteins such as Trbp111 in Aquifex aeolicus and the cold-shock protein CsaA from Bacillus subtilis while others do not; four subfamilies exist based on sequence motifs and zinc content
YP_039942.1	Similar to Bacillus subtilis  deoxyribonuclease YabD SW:YABD_BACSU (P37545) (255 aa) fasta scores: E(): 1.4e-65, 65.625% id in 256 aa, and to Vibrio cholerae hypothetical protein VC2014 TR:Q9KQI4 (EMBL:AE004276) (255 aa) fasta scores: E(): 4.8e-36, 42.802% id in 257 aa
YP_039943.1	Similar to Bacillus subtilis hypothetical protein YabF SW:YABF_BACSU (P37547) (186 aa) fasta scores: E(): 2.8e-27, 52.809% id in 178 aa, and to Streptococcus pyogenes hypothetical protein SPY0261 TR:Q9A1I1 (EMBL:AE006492) (189 aa) fasta scores: E(): 1.5e-26, 48.619% id in 181 aa
YP_039944.1	catalyzes the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases A1518 and A1519 in 16S rRNA; mutations in ksgA causes resistance to the translation initiation inhibitor kasugamycin
YP_039945.1	Similar to Bacillus subtilis hypothetical protein Veg SW:VEG_BACSU (P37466) (86 aa) fasta scores: E(): 2.3e-18, 62.025% id in 79 aa, and to Bacillus halodurans hypothetical protein BH0059 TR:Q9KGK2 (EMBL:AP001507) (88 aa) fasta scores: E(): 1.4e-17, 58.750% id in 80 aa
YP_039946.1	An essential enzyme in the nonmevalonate pathway of isopentenyl diphosphate and dimethylallyl diphosphate biosynthesis
YP_039947.1	Similar to Bacillus subtilis pur operon repressor PurR SW:PURR_BACSU (P37551) (285 aa) fasta scores: E(): 1.5e-54, 54.212% id in 273 aa, and to Bacillus halodurans purine operon repressor PurR TR:Q9KGJ9 (EMBL:AP001507) (282 aa) fasta scores: E(): 1.4e-49, 49.814% id in 269 aa
YP_039948.1	Similar to Bacillus subtilis  regulator of purine biosynthesis YabJ SW:YABJ_BACSU (P37552) (124 aa) fasta scores: E(): 3.8e-25, 58.537% id in 123 aa, and to Bacillus halodurans translation initiation inhibitor BH0063 TR:Q9KGJ8 (EMBL:AP001507) (124 aa) fasta scores: E(): 2.1e-27, 62.097% id in 124 aa
YP_039949.1	stage V sporulation protein G; essential for spore formation and a negative regulator of asymmetric septation in Bacillus; involved in methicillin-resistance, biofilm formation and capsular polysaccharide synthesis in Staphylococcus
YP_039950.1	forms a homotrimer; catalyzes the acetylation of glucosamine-1-phosphate and uridylation of N-acetylglucosamine-1-phosphate to produce UDP-GlcNAc; function in cell wall synthesis
YP_039951.1	catalyzes the formation of 5-phospho-alpha-D-ribose 1-phosphate from D-ribose 5-phosphate and ATP
YP_039952.1	the Ctc family of proteins consists of two types, one that contains the N-terminal ribosomal protein L25 domain only which in Escherichia coli binds the 5S rRNA while a subset of proteins contain a C-terminal extension that is involved in the stress response
YP_039953.1	Enables the recycling of peptidyl-tRNAs produced at termination of translation
YP_039954.1	Similar to Escherichia coli transcription-repair coupling factor Mfd SW:MFD_ECOLI (P30958) (1148 aa) fasta scores: E(): 2.1e-119, 37.169% id in 1095 aa, and to Bacillus subtilis transcription-repair coupling factor Mfd SW:MFD_BACSU (P37474) (1177 aa) fasta scores: E(): 1.2e-211, 49.490% id in 1176 aa
YP_039955.1	Similar to Bacillus subtilis stage V sporulation protein B SpoVB SW:SP5B_BACSU (Q00758) (518 aa) fasta scores: E(): 4.8e-14, 23.819% id in 529 aa, and to Bacillus halodurans hypothetical protein BH0071 TR:Q9KGJ0 (EMBL:AP001507) (533 aa) fasta scores: E(): 3.2e-33, 30.906% id in 508 aa
YP_039956.1	N-terminus is similar to N-terminal regions of Bacillus halodurans hypothetical protein BH0072 TR:Q9KGI9 (EMBL:AP001507) (491 aa) fasta scores: E(): 3.8e-63, 49.435% id in 354 aa, and Bacillus subtilis hypothetical protein YabN SW:YABN_BACSU (P37556) (489 aa) fasta scores: E(): 2e-62, 50.282% id in 354 aa
YP_039957.1	Similar to Bacillus subtilis hypothetical protein YabO SW:YABO_BACSU (P37557) (86 aa) fasta scores: E(): 1.8e-18, 68.605% id in 86 aa, and to Bacillus halodurans hypothetical protein BH0073 TR:Q9KGI8 (EMBL:AP001507) (88 aa) fasta scores: E(): 5.9e-17, 67.901% id in 81 aa
YP_039958.1	Similar to Bacillus subtilis cell division protein DivIC SW:DIVC_BACSU (P37471) (125 aa) fasta scores: E(): 5.8e-06, 32.743% id in 113 aa, and to Listeria monocytogenes DivIC homolog DivL TR:Q9ZIM0 (EMBL:AF023181) (128 aa) fasta scores: E(): 2.5e-07, 37.097% id in 124 aa
YP_039959.1	Similar to Bacillus subtilis hypothetical protein YabR SW:YABR_BACSU (P37560) (128 aa) fasta scores: E(): 3.4e-26, 63.433% id in 134 aa. N-terminal region is similar to the C-terminus of Escherichia coli polyribonucleotide nucleotidyltransferase Pnp SW:PNP_ECOLI (P05055) (711 aa) fasta scores: E(): 8.1e-08, 48.485% id in 99 aa
YP_039960.1	Similar to Bacillus subtilis hypothetical protein YacA SW:YACA_BACSU (P37563) (472 aa) fasta scores: E(): 1e-15, 27.740% id in 447 aa, and to Buchnera aphidicola (subsp. Acyrthosiphon pisum)  cell cycle protein BU110 SW:MESJ_BUCAI (P57211) (440 aa) fasta scores: E(): 2.5e-16, 25.120% id in 418 aa
YP_039961.1	Similar to Vibrio harveyi hypoxanthine phosphoribosyltransferase Hpt SW:HPRT_VIBHA (P18134) (176 aa) fasta scores: E(): 4e-28, 50.000% id in 170 aa, and to Bacillus subtilis hypoxanthine-guanine phosphoribosyltransferase HprT SW:HPRT_BACSU (P37472) (180 aa) fasta scores: E(): 1.6e-37, 60.452% id in 177 aa
YP_039962.1	Similar to Bacillus firmus cell division protein FtsH homologue FtsH SW:FTSH_BACFI (P94304) (679 aa) fasta scores: E(): 8.4e-133, 61.437% id in 682 aa, and to Bacillus subtilis cell division protein FtsH homologue FtsH SW:FTSH_BACSU (P37476) (637 aa) fasta scores: E(): 4.1e-135, 66.984% id in 630 aa
YP_039963.1	becomes active under oxidative stress; four conserved cysteines bind a zinc atom when they are in the reduced state and the enzyme is inactive; oxidative stress results in oxidized cysteines, release of zinc, and binding of Hsp33 to aggregation-prone proteins; forms dimers and higher order oligomers
YP_039964.1	Similar to Methanosarcina barkeri O-acetylserine CysK TR:Q9UWP0 (EMBL:AF174138) (308 aa) fasta scores: E(): 2.4e-61, 60.927% id in 302 aa, and to Bacillus subtilis cysteine synthase CysK SW:CYSK_BACSU (P37887) (307 aa) fasta scores: E(): 1.1e-76, 69.307% id in 303 aa
YP_039965.1	Previously sequenced as Staphylococcus aureus dihydropteroate synthase FolP SW:DHPS_STAAU (O05701) (267 aa) fasta scores: E(): 9.5e-100, 100.000% id in 267 aa. Similar to Staphylococcus haemolyticus dihydropteroate synthase FolP SW:DHPS_STAHA (Q59919) (267 aa) fasta scores: E(): 3.5e-76, 74.157% id in 267 aa
YP_039966.1	Previously sequenced as Staphylococcus aureus dihydroneopterin aldolase FolB SW:FOLB_STAAU (P56740) (121 aa) fasta scores: E(): 7.2e-44, 100.000% id in 121 aa. Similar to Bacillus subtilis dihydroneopterin aldolase FolB SW:FOLB_BACSU (P28823) (120 aa) fasta scores: E(): 1.8e-19, 47.863% id in 117 aa
YP_039967.1	Similar to Escherichia coli 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase FolK SW:HPPK_ECOLI (P26281) (158 aa) fasta scores: E(): 2e-18, 41.429% id in 140 aa, and to Bacillus subtilis 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase FolK SW:HPPK_BACSU (P29252) (167 aa) fasta scores: E(): 9.9e-25, 53.030% id in 132 aa
YP_039968.1	class II; LysRS2; catalyzes a two-step reaction, first charging a lysine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; in Methanosarcina barkeri, LysRS2 charges both tRNA molecules for lysine that exist in this organism and in addition can charge the tRNAPyl with lysine in the presence of LysRS1
YP_039969.1	Similar to C-terminal region of Enterococcus faecium transposase TR:Q47815 (EMBL:L40841) (310 aa) fasta scores: E(): 1.9e-39, 46.183% id in 262 aa, and to the full length Neisseria gonorrhoeae hypothetical protein TR:Q50996 (EMBL:L36381) (267 aa) fasta scores: E(): 1.1e-27, 39.689% id in 257 aa
YP_039970.1	C-terminal region is similar to Lactobacillus johnsonii insertion element IS1223 hypothetical protein SW:YI3A_LACJO (Q48585) (177 aa) fasta scores: E(): 2.9e-08, 33.526% id in 173 aa, and Lactococcus lactis hypothetical protein YgcE TR:O32786 (EMBL:X92946) (185 aa) fasta scores: E(): 4.8e-06, 26.404% id in 178 aa. Possible alternative translational start site
YP_039971.1	Similar to Rhizobium leguminosarum  regulatory protein MocR TR:O85775 (EMBL:AF076240) (488 aa) fasta scores: E(): 2.7e-35, 30.297% id in 472 aa, and to Bacillus subtilis  regulatory protein YdeL TR:P96669 (EMBL:AB001488) (463 aa) fasta scores: E(): 8.7e-54, 36.364% id in 451 aa
YP_039972.1	with PdxT forms pyridoxal 5'-phosphate from glutamine, either ribose 5-phosphate or ribulose 5-phosphate, and either glyceraldehyde 3-phosphate or dihydroxyacetone phosphate
YP_039973.1	with PdxST is involved in the biosynthesis of pyridoxal 5'-phosphate; PdxT catalyzes the hydrolysis of glutamine to glutamate and ammonia; PdxS utilizes the ammonia to synthesize pyridoxal 5'-phosphate
YP_039974.1	Similar to Escherichia coli nucleoside permease NupC SW:NUPC_ECOLI (P33031) (400 aa) fasta scores: E(): 8.4e-72, 54.208% id in 404 aa, and to Bacillus subtilis pyrimidine nucleoside transport protein NupC SW:NUPC_BACSU (P39141) (393 aa) fasta scores: E(): 3.2e-59, 63.275% id in 403 aa
YP_039975.1	Similar to Bacillus subtilis  transcriptional regulator CtsR SW:CTSR_BACSU (P37568) (154 aa) fasta scores: E(): 4.6e-25, 50.685% id in 146 aa, and to Bacillus halodurans  transcriptional regulator CtsR TR:Q9JWR8 (EMBL:AP001507) (156 aa) fasta scores: E(): 2.7e-24, 48.026% id in 152 aa
YP_039976.1	Similar to Bacillus halodurans hypothetical protein YacH TR:Q9JWP8 (EMBL:AP001507) (177 aa) fasta scores: E(): 1.5e-10, 32.203% id in 177 aa, and to Bacillus subtilis hypothetical protein YacH SW:YACH_BACSU (P37569) (185 aa) fasta scores: E(): 3.7e-11, 27.222% id in 180 aa
YP_039977.1	N-terminus is similar to the C-terminal region of Penaeus japonicus arginine kinase SW:KARG_PENJP (P51545) (355 aa) fasta scores: E(): 1.5e-12, 26.66% id in 255 aa. Similar to Bacillus subtilis hypothetical ATP:guanido phosphotransferase YacI SW:YACI_BACSU (P37570) (363 aa) fasta scores: E(): 9.6e-48, 42.81% id in 341 aa
YP_039978.1	Similar to Bacillus subtilis negative regulator of genetic competence ClpC SW:CLPC_BACSU (P37571) (810 aa) fasta scores: E(): 2.7e-189, 69.753% id in 810 aa, and to Bacillus halodurans class III stress response-related ATPase ClpC TR:Q9KGG2 (EMBL:AP001507) (813 aa) fasta scores: E(): 1.3e-189, 70.237% id in 803 aa
YP_039979.1	Sms; stabilizes the strand-invasion intermediate during the DNA repair; involved in recombination of donor DNA and plays an important role in DNA damage repair after exposure to mutagenic agents
YP_039980.1	Similar to Bacillus halodurans hypothetical protein BH0106 TR:Q9KGF9 (EMBL:AP001507) (362 aa) fasta scores: E(): 5.3e-47, 39.718% id in 355 aa, and to Listeria monocytogenes hypothetical protein SW:YOR6_LISMO (Q48762) (357 aa) fasta scores: E(): 2.8e-42, 36.752% id in 351 aa
YP_039981.1	Charges one glutamine molecule and pairs it to its corresponding RNA trinucleotide during protein translation
YP_039982.1	Similar to Staphylococcus xylosus serine acetyltransferase CysE SW:CYSE_STAXY (P77985) (216 aa) fasta scores: E(): 1.1e-71, 87.324% id in 213 aa, and to Bacillus halodurans serine O-acetyltransferase CysE TR:Q9KGF5 (EMBL:AP001507) (229 aa) fasta scores: E(): 1.3e-49, 64.115% id in 209 aa. Possible alternative translational start site
YP_039983.1	catalyzes a two-step reaction; charges a cysteine by linking its carboxyl group to the alpha-phosphate of ATP then transfers the aminoacyl-adenylate to its tRNA
YP_039984.1	Similar to Bacillus subtilis hypothetical protein YazC TR:O31418 (EMBL:Z99104) (143 aa) fasta scores: E(): 1.6e-21, 55.118% id in 127 aa, and to Streptococcus pyogenes hypothetical protein SPY1940 TR:Q99Y00 (EMBL:AE006617) (137 aa) fasta scores: E(): 6.5e-19, 44.444% id in 126 aa
YP_039985.1	Previously sequenced as Staphylococcus aureus  rRNA methylase YacO TR:Q9AGT0 (EMBL:AF327733) (248 aa) fasta scores: E(): 6.7e-90, 99.194% id in 248 aa. Similar to Bacillus halodurans  tRNA/rRNA methyltransferase BH0113 TR:Q9KGF2 (EMBL:AP001507) (249 aa) fasta scores: E(): 4.5e-51, 58.678% id in 242 aa
YP_039986.1	Similar to Bacillus subtilis hypothetical protein YacP SW:YACP_BACSU (P37574) (170 aa) fasta scores: E(): 1.3e-19, 44.242% id in 165 aa, and to Bacillus halodurans hypothetical protein BH0114 TR:Q9KGF1 (EMBL:AP001507) (170 aa) fasta scores: E(): 1.5e-18, 42.941% id in 170 aa
YP_039987.1	Previously sequenced as Staphylococcus aureus hypothetical protein SigH TR:Q9AGS8 (EMBL:AF327733) (162 aa) fasta scores: E(): 4.1e-59, 98.148% id in 162 aa. Similar to Clostridium difficile hypothetical protein TcdD TR:Q9EXR1 (EMBL:AJ011301) (184 aa) fasta scores: E(): 0.027, 21.547% id in 181 aa
YP_039988.1	in Escherichia coli BM108, a mutation that results in lack of L33 synthesis had no effect on ribosome synthesis or function; there are paralogous genes in several bacterial genomes, and a CXXC motif for zinc binding and an upstream regulation region of the paralog lacking this motif that are regulated by zinc similar to other ribosomal proteins like L31; the proteins in this group have the CXXC motif
YP_039989.1	forms a complex with SecY and SecG; SecYEG forms a protein-conducting channel to which secA binds and translocates targeted polypeptides across the cytoplasmic membrane, a process driven by ATP and a proton-motive force
YP_039990.1	Similar to Escherichia coli transcription antitermination protein NusG SW:NUSG_ECOLI (P16921) (181 aa) fasta scores: E(): 7.9e-25, 40.884% id in 181 aa. Previously sequenced as Staphylococcus aureus transcription antitermination protein NusG SW:NUSG_STAAU (O08386) (182 aa) fasta scores: E(): 3.7e-67, 100.000% id in 182 aa
YP_039991.1	binds directly to 23S ribosomal RNA
YP_039992.1	in Escherichia coli and Methanococcus, this protein autoregulates expression; the binding site in the mRNA mimics the binding site in the 23S rRNA
YP_039993.1	binds the two ribosomal protein L7/L12 dimers and anchors them to the large ribosomal subunit
YP_039994.1	present in two forms; L12 is normal, while L7 is aminoacylated at the N-terminal serine; the only multicopy ribosomal protein; 4:1 ratio of L7/L12 per ribosome; two L12 dimers bind L10; critically important for translation efficiency and fidelity; stimulates GTPase activity of translation factors
YP_039995.1	Similar to the C-terminal region of Escherichia coli ribosomal RNA small subunit methyltransferase C RsmC SW:RSMC_ECOLI (P39406) (342 aa) fasta scores: E(): 1.6e-09, 31.579% id in 171 aa. Full length CDS is similar to Bacillus subtilis hypothetical protein YbxB SW:YBXB_BACSU (P37872) (201 aa) fasta scores: E(): 2.7e-31, 49.500% id in 200 aa
YP_039996.1	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates; beta subunit is part of the catalytic core which binds with a sigma factor to produce the holoenzyme
YP_039997.1	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Subunit beta' binds to sigma factor allowing it to bind to the -10 region of the promoter
YP_039998.1	in Bacillus subtilis this non-essential protein associates with the ribosome
YP_039999.1	interacts with and stabilizes bases of the 16S rRNA that are involved in tRNA selection in the A site and with the mRNA backbone; located at the interface of the 30S and 50S subunits, it traverses the body of the 30S subunit contacting proteins on the other side; mutations in the S12 gene confer streptomycin resistance
YP_040000.1	binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit
YP_040001.1	EF-G; promotes GTP-dependent translocation of the ribosome during translation; many organisms have multiple copies of this gene
YP_040002.1	EF-Tu; promotes GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis; when the tRNA anticodon matches the mRNA codon, GTP hydrolysis results; the inactive EF-Tu-GDP leaves the ribosome and release of GDP is promoted by elongation factor Ts; many prokaryotes have two copies of the gene encoding EF-Tu
YP_040003.1	Similar to Arabidopsis thaliana indole-3-acetic acid-amino acid hydrolase 3 precursor protein IAR3 SW:ILR3_ARATH (P54969) (438 aa) fasta scores: E(): 3.8e-46, 37.435% id in 382 aa, and to Bacillus halodurans N-acyl-L-amino acid amidohydrolase BH1613 TR:Q9KCF8 (EMBL:AP001512) (404 aa) fasta scores: E(): 2.6e-68, 48.518% id in 371 aa
YP_040004.1	catalyzes the formation of 2-amino-3-oxobutanoate from acetyl-CoA and glycine
YP_040005.1	Hsp31 stabilizes early unfolding protein intermediates under severe heat stress
YP_040006.1	catalyzes the phosphorylation of ribulose to ribulose 5-phosphate
YP_040007.1	Similar to Staphylococcus carnosus hypothetical protein TR:Q9F331 (EMBL:AJ279090) (248 aa) fasta scores: E(): 4.6e-70, 74.486% id in 243 aa, and to Thermoplasma acidophilum UDP-glucose 4-epimerase related protein TA1111 TR:Q9HJ61 (EMBL:AL445066) (317 aa) fasta scores: E(): 1.3e-50, 48.077% id in 312 aa
YP_040008.1	catalyzes the transamination of the branched-chain amino acids to their respective alpha-keto acids
YP_040009.1	Similar to Escherichia coli phosphoglycolate phosphatase Gph SW:GPH_ECOLI (P32662) (252 aa) fasta scores: E(): 3.3e-05, 25.957% id in 235 aa, and to Staphylococcus carnosus hypothetical protein TR:Q9F327 (EMBL:AJ279090) (239 aa) fasta scores: E(): 4.2e-37, 50.216% id in 231 aa
YP_040010.1	Similar to Lactobacillus acidophilus deoxyadenosine kinase subunit protein SW:DGK1_LACAC (Q59483) (214 aa) fasta scores: E(): 1e-17, 34.314% id in 204 aa, and to Bacillus subtilis hypothetical protein YaaF SW:YAAF_BACSU (P37529) (217 aa) fasta scores: E(): 7.8e-52, 64.151% id in 212 aa
YP_040011.1	Similar to Lactobacillus acidophilus deoxyadenosine kinase subunit protein SW:DGK1_LACAC (Q59483) (214 aa) fasta scores: E(): 0.00015, 30.986% id in 213 aa, and to Bacillus subtilis hypothetical protein YaaG SW:YAAG_BACSU (P37530) (207 aa) fasta scores: E(): 1.6e-27, 48.990% id in 198 aa
YP_040012.1	Similar to Bacillus subtilis hypothetical protein YaaJ SW:YAAJ_BACSU (P21335) (161 aa) fasta scores: E(): 1.2e-36, 61.039% id in 154 aa, and to Lactococcus lactis hypothetical protein YhcI TR:Q9CHK8 (EMBL:AE006305) (155 aa) fasta scores: E(): 4.5e-27, 50.694% id in 144 aa
YP_040013.1	Similar to Bacillus halodurans hypothetical protein BH1746 TR:Q9KC28 (EMBL:AP001513) (282 aa) fasta scores: E(): 1.9e-38, 45.423% id in 284 aa, and to Bacillus subtilis hypothetical protein YwtE TR:P96741 (EMBL:Z92954) (286 aa) fasta scores: E(): 1.9e-23, 34.146% id in 287 aa
YP_040014.1	Similar to Bacillus sp OY1-2  azoreductase Azr TR:Q9FAW5 (EMBL:AB032601) (178 aa) fasta scores: E(): 1.4e-06, 32.778% id in 180 aa, and to Amycolatopsis mediterranei hypothtetical protein UrdO TR:CAC42480 (EMBL:AJ318385) (196 aa) fasta scores: E(): 3.1e-06, 29.379% id in 177 aa
YP_040015.1	Similar to Staphylococcus aureus serine-aspartate repeat protein multigene family protein SdrC TR:O86487 (EMBL:AJ005645) (947 aa) fasta scores: E(): 7.4e-214, 87.751% id in 947 aa, and to Staphylococcus aureus bone sialoprotein-binding protein Bbp TR:Q9KWX6 (EMBL:Y18653) (1171 aa) fasta scores: E(): 3e-96, 47.355% id in 1172 aa. CDS contains dipetide repeat (SD x71) between residues 708 and 847. In comparison to the SdrC protein, the CDS contains extra copies of the SD repeat. Probable LPXTG-sorted surface protein
YP_040016.1	Similar to Staphylococcus aureus bone sialoprotein-binding protein Bbp TR:Q9KWX6 (EMBL:Y18653) (1171 aa) fasta scores: E(): 0, 95.559% id in 1171 aa, and to Staphylococcus aureus serine-aspartate repeat protein multigene family protein SdrE TR:O86489 (EMBL:AJ005647) (1166 aa) fasta scores: E(): 0, 84.991% id in 1166 aa. CDS contains dipetide repeat (SD x74) between residues 935 and 1078. In comparison to the Bpp protein, the CDS contains less copies of the SD repeat. Probable LPXTG-sorted surface protein
YP_040017.1	Similar to Lactococcus lactis  lipopolysaccharide biosynthesis protein YohJ TR:Q9CFL4 (EMBL:AE006375) (506 aa) fasta scores: E(): 1.4e-30, 26.969% id in 508 aa. Internal region of the CDS is similar to an internal region of Bacillus subtilis probable UDP-glucose:polyglycerol phosphate glucosyltransferase TagE SW:TAGE_BACSU (P13484) (673 aa) fasta scores: E(): 6.9e-23, 25.798% id in 376 aa
YP_040018.1	Similar to Lactococcus lactis lipopolysaccharide biosynthesis protein YohJ TR:Q9CFL4 (EMBL:AE006375) (506 aa) fasta scores: E(): 2.3e-28, 26.600% id in 500 aa. Internal region of the CDS is similar to an internal region of Bacillus subtilis probable UDP-glucose:polyglycerol phosphate glucosyltransferase TagE SW:TAGE_BACSU (P13484) (673 aa) fasta scores: E(): 2e-22, 23.633% id in 512 aa
YP_040019.1	similar protein in Methanocaldococcus converts GTP to 7,8-dihydro-D-neopterin 2',3'-cyclic phosphate as the first step in methanopterin biosynthesis
YP_040020.1	Similar to Bacillus halodurans hypothetical protein BH3320 TR:Q9K7P1 (EMBL:AP001518) (227 aa) fasta scores: E(): 3.5e-44, 54.709% id in 223 aa. C-terminal region is similar to Bacillus subtilis hypothetical protein YojG TR:O31857 (EMBL:Z99114) (142 aa) fasta scores: E(): 5.4e-18, 41.727% id in 139 aa
YP_040021.1	Similar to Bacillus halodurans hypothetical protein BH3319 TR:Q9K7P2 (EMBL:AP001518) (115 aa) fasta scores: E(): 3.1e-23, 52.542% id in 118 aa, and to Bacillus subtilis hypothetical protein YojF TR:O31858 (EMBL:Z99114) (116 aa) fasta scores: E(): 1.7e-16, 39.496% id in 119 aa
YP_040022.1	Similar to Giardia lamblia glucosamine-6-phosphate isomerase 1 GPI1 SW:GNP1_GIALA (O97439) (266 aa) fasta scores: E(): 5e-31, 44.076% id in 211 aa, and to Bacillus subtilis glucosamine-6-phosphate isomerase NagB SW:NAGB_BACSU (O35000) (242 aa) fasta scores: E(): 1.5e-35, 45.188% id in 239 aa
YP_040023.1	Similar to Methylomonas aminofaciens hexulose-6-phosphate synthase Hps SW:HUMS_METAM (Q48907) (208 aa) fasta scores: E(): 1.4e-21, 40.704% id in 199 aa, and to Bacillus subtilis probable hexulose-6-phosphate synthase YckG SW:HUMS_BACSU (P42405) (210 aa) fasta scores: E(): 6.8e-38, 56.039% id in 207 aa
YP_040024.1	Similar to Methylomonas aminofaciens 6-phospho-3-hexuloisomerase RmpB TR:Q9S0X3 (EMBL:AB026428) (181 aa) fasta scores: E(): 2.4e-16, 36.364% id in 187 aa, and to Bacillus subtilis hypothetical protein YckF SW:YCKF_BACSU (P42404) (185 aa) fasta scores: E(): 5.6e-21, 43.182% id in 176 aa
YP_040025.1	Similar to Erwinia chrysanthemi probable indigoidine systhesis protein IdgB TR:Q9KHB5 (EMBL:AF265211) (230 aa) fasta scores: E(): 9.7e-14, 28.910% id in 211 aa, and to Bacillus halodurans phosphoglycolate phosphatase BH3587 TR:Q9K6Y7 (EMBL:AP001519) (215 aa) fasta scores: E(): 1.5e-11, 23.256% id in 215 aa
YP_040026.1	Similar to Escherichia coli proline/betaine transporter ProP SW:PROP_ECOLI (P30848) (500 aa) fasta scores: E(): 2e-63, 38.158% id in 456 aa, and to Streptomyces coelicolor  integral membrane transport protein SCC53.27 TR:Q9KXI4 (EMBL:AL357591) (462 aa) fasta scores: E(): 2.2e-72, 45.767% id in 437 aa
YP_040027.1	No significant database matches. Doubtful CDS, poor translational start site
YP_040028.1	Similar to Staphylococcus aureus  menaquinone biosynthesis protein, O-succinylbenzoic acid--CoA ligase MenE SW:MENE_STAAU (Q53634) (492 aa) fasta scores: E(): 3.2e-16, 23.974% id in 463 aa. Previously sequenced as Staphylococcus aureus  long chain fatty acid CoA ligase VraA TR:Q9KWK5 (EMBL:AB035449) (458 aa) fasta scores: E(): 1.1e-174, 97.817% id in 458 aa
YP_040029.1	Similar to Escherichia coli 3-ketoacyl-CoA thiolase FadA SW:THIK_ECOLI (P21151) (387 aa) fasta scores: E(): 1.4e-34, 34.091% id in 396 aa. Previously sequenced as Staphylococcus aureus acetyl-CoA c-acetyltransferase VraB TR:Q9KWK4 (EMBL:AB035449) (379 aa) fasta scores: E(): 8.9e-143, 98.681% id in 379 aa
YP_040030.1	Poor database matches. Similar to an internal region of Guillardia theta hypothetical protein chromosome 1 Orf183 TR:AAK39951 (EMBL:AF165818) (183 aa) fasta scores: E(): 2.5, 29.167% id in 120 aa
YP_040031.1	Poor database matches. Similar to Lactococcus lactis hypothetical protein YseD TR:Q9CEQ1 (EMBL:AE006408) (97 aa) fasta scores: E(): 1.1, 27.586% id in 87 aa
YP_040033.1	Similar to Staphylococcus carnosus  thiamin biosynthesis protein ThiD TR:Q9RGS7 (EMBL:AF109218) (273 aa) fasta scores: E(): 2.8e-28, 38.095% id in 273 aa, and to Bacillus subtilis phosphomethylpyrimidine kinase ThiD SW:THID_BACSU (P39610) (271 aa) fasta scores: E(): 1.8e-47, 51.136% id in 264 aa
YP_040034.1	Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine
YP_040036.1	Similar to Bacillus subtilis hypothetical protein YywK SW:YWDK_BACSU (P39619) (113 aa) fasta scores: E(): 3.4e-20, 60.577% id in 104 aa, and to Bacillus halodurans hypothetical protein BH3828 TR:Q9K6A1 (EMBL:AP001520) (121 aa) fasta scores: E(): 7.1e-17, 45.455% id in 121 aa
YP_040037.1	C-terminal region is similar to Bacillus halodurans hypothetical protein BH0994 TR:Q9KE64 (EMBL:AP001510) (395 aa) fasta scores: E(): 8.9e-35, 31.156% id in 398 aa. Full length CDS is weakly similar to Streptomyces coelicolor amino acid transporter protein SCM10.26 TR:Q9RCX2 (EMBL:AL133469) (468 aa) fasta scores: E(): 5.6e-16, 26.509% id in 464 aa
YP_040038.1	Similar to Bacillus halodurans hypothetical protein BH0082 TR:Q9KGH9 (EMBL:AP001507) (150 aa) fasta scores: E(): 3.2e-10, 34.109% id in 129 aa, and to Pasteurella multocida hypothetical protein PM1894 TR:Q9CJU7 (EMBL:AE006227) (153 aa) fasta scores: E(): 0.00055, 25.000% id in 132 aa
YP_040039.1	Similar to Streptococcus pneumoniae conserved hypothetical protein SP1731 TR:AAK75807 (EMBL:AE007466) (252 aa) fasta scores: E(): 1.9e-20, 35.547% id in 256 aa, and to Bacillus halodurans hypothetical protein BH0081 TR:Q9KGI0 (EMBL:AP001507) (251 aa) fasta scores: E(): 5.1e-20, 34.156% id in 243 aa
YP_040040.1	No significant database matches. Doubtful CDS, poor translational start site
YP_040041.1	Similar to Bacillus subtilis hypothetical protein YwfI SW:YWFI_BACSU (P39645) (254 aa) fasta scores: E(): 2e-67, 63.710% id in 248 aa, and to Bacillus halodurans hypothetical protein BH3825 TR:Q9K6A4 (EMBL:AP001520) (261 aa) fasta scores: E(): 2.6e-65, 59.036% id in 249 aa
YP_040042.1	in Salmonella this enzyme is required for ethanolamine catabolism; has higher affinity for CoA than Pta
YP_040043.1	Similar to Bacillus halodurans hypothetical protein BH3822 TR:Q9K6A7 (EMBL:AP001520) (278 aa) fasta scores: E(): 1.6e-53, 51.321% id in 265 aa, and to Bacillus subtilis hypothetical protein YwfL SW:YWFL_BACSU (P39648) (281 aa) fasta scores: E(): 2.4e-51, 53.358% id in 268 aa
YP_040044.1	Previously sequenced as Staphylococcus aureus mevalonate kinase MvaK1 TR:Q9FD85 (EMBL:AF290087) (306 aa) fasta scores: E(): 7e-112, 99.346% id in 306 aa. Similar to Staphylococcus epidermidis mevalonate kinase MvaK1 TR:Q9FD74 (EMBL:AF290091) (306 aa) fasta scores: E(): 1e-88, 77.451% id in 306 aa
YP_040045.1	Previously sequenced as Staphylococcus aureus mevalonate diphosphate decarboxylase MvaD TR:Q9FD84 (EMBL:AF290087) (327 aa) fasta scores: E(): 4.3e-124, 99.388% id in 327 aa. Similar to Staphylococcus haemolyticus mevalonate diphosphate decarboxylase MvaD TR:Q9FD78 (EMBL:AF290089) (327 aa) fasta scores: E(): 5.1e-91, 73.538% id in 325 aa
YP_040046.1	Previously sequenced as Staphylococcus aureus phosphomevalonate kinase MvaK2 TR:Q9FD83 (EMBL:AF290087) (358 aa) fasta scores: E(): 4.2e-144, 99.721% id in 358 aa. Similar to Staphylococcus haemolyticus phosphomevalonate kinase MvaK2 TR:Q9FD77 (EMBL:AF290089) (358 aa) fasta scores: E(): 7.4e-118, 79.609% id in 358 aa
YP_040047.1	No significant database matches to the full length CDS. N-terminal region is similar to Bacillus subtilis hypothetical protein YwzC TR:O32280 (EMBL:Z99123) (74 aa) fasta scores: E(): 1.6e-13, 63.514% id in 74 aa, and to Bacillus halodurans hypothetical protein BH3821 TR:Q9K6A8 (EMBL:AP001520) (74 aa) fasta scores: E(): 6.5e-13, 67.568% id in 74 aa. CDS contains N-terminal hydrophilic region
YP_040048.1	Similar to Burkholderia cepacia glutathione reductase Gor SW:GSHR_BURCE (P48639) (449 aa) fasta scores: E(): 6.1e-35, 30.853% id in 457 aa, and to Escherichia coli probable pyridine nucleotide-disulfide oxidoreductase YkgC SW:YKGC_ECOLI (P77212) (450 aa) fasta scores: E(): 1.1e-79, 49.433% id in 441 aa
YP_040049.1	Poor database matches. Weak similarity to Bacillus halodurans hypothetical protein BH0656 TR:Q9Z9W2 (EMBL:AB011836) (132 aa) fasta scores: E(): 0.042, 25.373% id in 134 aa, and Pseudomonas aeruginosa probable transcriptional regulator PA2692 TR:Q9I0F0 (EMBL:AE004697) (174 aa) fasta scores: E(): 9.8, 25.714% id in 140 aa
YP_040050.1	N-terminal region is similar to Staphylococcus haemolyticus hypothetical protein TR:Q9F2H7 (EMBL:AJ302698) (373 aa) fasta scores: E(): 4.1e-43, 46.076% id in 395 aa. Full length CDS is similar to Bacillus halodurans transposase BH0978 TR:Q9KE78 (EMBL:AP001510) (503 aa) fasta scores: E(): 9e-14, 24.540% id in 489 aa
YP_040051.1	Poor database matches. Similar to Staphylococcus haemolyticus hypothetical protein TR:Q9F2H5 (EMBL:AJ302698) (220 aa) fasta scores: E(): 3.5e-06, 24.645% id in 211 aa. Similar to SAR0607, 52.451% identity (52.709% ungapped) in 204 aa overlap
YP_040052.1	No significant database matches. Doubtful CDS, poor translational start site. Similar to the C-terminal region of SAR0602, 65.789% identity (69.444% ungapped) in 76 aa overlap
YP_040053.1	Similar to Staphylococcus haemolyticus hypothetical protein TR:Q9F2H5 (EMBL:AJ302698) (220 aa) fasta scores: E(): 8.6e-06, 25.000% id in 192 aa. Similar to SAR0603, 52.451% identity (52.709% ungapped) in 204 aa overlap, and to the N-terminal region of SAR0605, 66.667% identity (66.667% ungapped) in 66 aa overlap
YP_040054.1	Similar to Bacillus subtilis possible inositol catabolism protein IolS SW:IOLS_BACSU (P46336) (310 aa) fasta scores: E(): 3.1e-65, 60.450% id in 311 aa, and to Thermotoga maritima aldo/keto reductase oxidoreductase TM1006 TR:Q9X0A1 (EMBL:AE001762) (333 aa) fasta scores: E(): 1.3e-25, 35.783% id in 313 aa
YP_040055.1	Similar to Bacillus subtilis hypothetical protein YwqN TR:P96726 (EMBL:Z92952) (181 aa) fasta scores: E(): 5.9e-27, 42.353% id in 170 aa, and to Streptomyces coelicolor hypothetical protein SCD20.05c TR:Q9F2X4 (EMBL:AL392148) (200 aa) fasta scores: E(): 2.8e-16, 33.140% id in 172 aa
YP_040056.1	Similar to Sus scrofa (Pig) diamine acetyltransferase Sat SW:ATDA_PIG (Q28999) (171 aa) fasta scores: E(): 0.01, 28.477% id in 151 aa, and to Rhizobium loti hypothetical protein MLR0192 TR:BAB47829 (EMBL:AP002994) (163 aa) fasta scores: E(): 1.3e-09, 37.419% id in 155 aa
YP_040057.1	Similar to Bacillus subtilis hypothetical protein YwfO SW:YWFO_BACSU (P39651) (433 aa) fasta scores: E(): 4.1e-108, 64.320% id in 412 aa, and to Bacillus halodurans hypothetical protein BH3818 TR:Q9K6B1 (EMBL:AP001520) (432 aa) fasta scores: E(): 1.8e-101, 59.028% id in 432 aa
YP_040058.1	Similar to Bacillus subtilis hypothetical protein YwhD TR:P70996 (EMBL:Z80360) (172 aa) fasta scores: E(): 9e-40, 57.576% id in 165 aa, and to Bacillus halodurans hypothetical protein BH3813 TR:Q9K6B6 (EMBL:AP001520) (179 aa) fasta scores: E(): 7.2e-30, 46.626% id in 163 aa
YP_040059.1	similar to zinc-dependent eukaryotic ADH enzymes and distinct from fermentative ADHs
YP_040060.1	Similar to Bacillus subtilis hypothetical protein YwiB TR:O07624 (EMBL:Z97024) (142 aa) fasta scores: E(): 3.9e-07, 26.471% id in 136 aa, and to Bacillus halodurans hypothetical protein BH3809 TR:Q9K6C0 (EMBL:AP001520) (144 aa) fasta scores: E(): 0.0088, 24.088% id in 137 aa
YP_040061.1	catalyzes a two-step reaction, first charging an arginine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; class-I aminoacyl-tRNA synthetase
YP_040062.1	Similar to Methanococcus jannaschii hypothetical protein MJ1434 TR:Q58829 (EMBL:U67584) (220 aa) fasta scores: E(): 4.4e-23, 37.198% id in 207 aa, and to Thermotoga maritima  repair endonuclease TM0382 TR:Q9WYL3 (EMBL:AE001718) (232 aa) fasta scores: E(): 4.8e-17, 35.417% id in 192 aa
YP_040063.1	Similar to Salmonella typhimurium cobalamin transport periplasmic binding protein BtuF TR:Q9ZFP9 (EMBL:AF096877) (266 aa) fasta scores: E(): 2.8e-09, 26.482% id in 253 aa, and to Bacillus subtilis  metal binding protein YvrC TR:O34805 (EMBL:Z99120) (314 aa) fasta scores: E(): 2.2e-33, 41.667% id in 312 aa
YP_040064.1	Similar to Bacillus subtilis  hemin permease YvrB TR:O34451 (EMBL:Z99120) (353 aa) fasta scores: E(): 2.1e-23, 32.143% id in 308 aa, and to Pyrococcus abyssi iron (III) ABC transporter, permease PAB1535 TR:Q9UZ79 (EMBL:AJ248287) (331 aa) fasta scores: E(): 2.7e-21, 30.744% id in 309 aa
YP_040065.1	Similar to Burkholderia cepacia 2-haloalkanoic acid dehalogenase IVa Hdl IVa SW:HAD4_BURCE (Q51645) (230 aa) fasta scores: E(): 5e-06, 24.771% id in 218 aa, and to Pyrococcus horikoshii hypothetical protein PH0459 TR:O58216 (EMBL:AP000002) (232 aa) fasta scores: E(): 3e-11, 27.706% id in 231 aa
YP_040066.1	Similar to Pseudomonas sp esterase V Est5 TR:Q9Z3U8 (EMBL:D14529) (262 aa) fasta scores: E(): 3e-08, 23.755% id in 261 aa, and to Archaeoglobus fulgidus putataive 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoic acid hydrolase AF1706 TR:O28567 (EMBL:AE000986) (238 aa) fasta scores: E(): 3.8e-13, 28.139% id in 231 aa
YP_040067.1	No significant database matches to the full length CDS. N-terminus is weakly similar to the N-terminal region of Clostridium acetobutylicum  regulatory protein TR:Q45805 (EMBL:U15277) (148 aa) fasta scores: E(): 9.7, 22.018% id in 109 aa
YP_040068.1	No significant database matches to the full length CDS. C-terminus is weakly similar to the N-terminal region of Phytophthora infestans mitochondrial SecY-independent transporter protein Ymf16 TR:Q9T238 (EMBL:U17009) (248 aa) fasta scores: E(): 0.78, 25.806% id in 186 aa
YP_040069.1	Similar to Pseudomonas sp esterase V Est5 TR:Q9Z3U8 (EMBL:D14529) (262 aa) fasta scores: E(): 1.1e-08, 24.904% id in 261 aa, and to Vibrio cholerae  esterase/lipase YbfF TR:Q9KQA3 (EMBL:AE004283) (257 aa) fasta scores: E(): 8.7e-12, 24.615% id in 260 aa
YP_040070.1	Previously sequenced as Staphylococcus aureus agr regulon and exoprotein expression regulator, staphylococcal accessory regulator A, SarA TR:Q53777 (EMBL:U46541) (113 aa) fasta scores: E(): 4.5e-36, 99.115% id in 113 aa. Similar to Staphylococcus epidermidis staphylococcal accessory regulator A homologue SarA TR:O85233 (EMBL:AF054173) (124 aa) fasta scores: E(): 9e-35, 85.484% id in 124 aa
YP_040071.1	Similar to Lactococcus lactis hypothetical protein YsbC TR:Q9CES9 (EMBL:AE006405) (307 aa) fasta scores: E(): 2.6e-26, 33.974% id in 312 aa. N-terminal region is similar to Pasteurella multocida hypothetical protein PM1890 TR:Q9CJV1 (EMBL:AE006226) (156 aa) fasta scores: E(): 9.6e-09, 33.333% id in 147 aa
YP_040074.1	Similar to Escherichia coli type 1 fimbriae regulatory protein FimE SW:FIME_ECOLI (P04741) (198 aa) fasta scores: E(): 2.3e-06, 30.488% id in 164 aa, and to Bacillus halodurans hypothetical protein BH4039 TR:Q9K5P9 (EMBL:AP001520) (182 aa) fasta scores: E(): 3.7e-14, 32.934% id in 167 aa
YP_040075.1	subunit A of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali
YP_040076.1	subunit B of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali
YP_040077.1	subunit C of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali
YP_040078.1	subunit D of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali; contains an oxidoreductase domain; catalyzes the transfer of electrons from NADH to ubiquinone; in S. meliloti it is known to be involved specifically with K+ transport
YP_040079.1	subunit E of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali; in S. meliloti it is known to be involved specifically with K+ transport
YP_040080.1	subunit F of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali
YP_040081.1	Similar to Bacillus subtilis hypothetical protein YvgP TR:O32212 (EMBL:Z99121) (670 aa) fasta scores: E(): 1.5e-47, 32.562% id in 691 aa, and to Bifidobacterium longum  Na+/H+ antiporter protein NhaB TR:Q9F9W8 (EMBL:AF160969) (690 aa) fasta scores: E(): 2.2e-35, 30.183% id in 709 aa
YP_040082.1	Similar to Bacillus subtilis hypothetical protein YbcL TR:O34663 (EMBL:Z99104) (390 aa) fasta scores: E(): 2.3e-23, 25.594% id in 379 aa, and to Pseudomonas aeruginosa probable MFS transporter PA3303 TR:Q9HYU1 (EMBL:AE004752) (391 aa) fasta scores: E(): 9.2e-21, 25.956% id in 366 aa
YP_040083.1	Similar to Staphylococcus epidermidis iron repressible ABC transport system lipoprotein TR:P72415 (EMBL:X99127) (309 aa) fasta scores: E(): 3e-85, 77.023% id in 309 aa, and to Streptococcus pneumoniae surface adhesin A precursor PsaA TR:P72538 (EMBL:U53509) (309 aa) fasta scores: E(): 4.4e-52, 50.489% id in 307 aa
YP_040084.1	Similar to Yersinia pestis chelated iron transport system membrane protein YfeD SW:YFED_YERPE (Q56955) (297 aa) fasta scores: E(): 7.8e-33, 36.496% id in 274 aa, and to Staphylococcus epidermidis iron repressible ABC transport system membrane protein TR:P72414 (EMBL:X99127) (248 aa) fasta scores: E(): 1.4e-64, 83.468% id in 248 aa
YP_040085.1	Similar to Treponema pallidum zinc transport system ATP-binding protein TroB SW:TROB_TREPA (P96117) (266 aa) fasta scores: E(): 1e-25, 41.346% id in 208 aa, and to Staphylococcus epidermidis iron repressible ABC transport system ATP binding protein TR:P72413 (EMBL:X99127) (248 aa) fasta scores: E(): 1.2e-51, 67.089% id in 237 aa
YP_040086.1	Similar to Streptococcus gordonii metalloregulator RmtA TR:Q9RFN3 (EMBL:AF182402) (215 aa) fasta scores: E(): 2.6e-24, 37.209% id in 215 aa, and to Staphylococcus epidermidis  iron dependant repressor SirR TR:P72424 (EMBL:X99128) (214 aa) fasta scores: E(): 8.5e-66, 82.243% id in 214 aa
YP_040087.1	Poor database matches. Similar to an internal region of Saccharomyces cerevisiae chromosome XII hypothetical protein YLL031c TR:Q07830 (EMBL:Z73136) (1017 aa) fasta scores: E(): 0.98, 21.992% id in 241 aa
YP_040088.1	Similar to Bacillus subtilis teichoic acid biosynthesis protein A TagA SW:TAGA_BACSU (P27620) (256 aa) fasta scores: E(): 1.6e-23, 32.083% id in 240 aa, and to Thermoanaerobacter thermohydrosulfuricus (Clostridium thermohydrosulfuricum) hypothetical protein Lta1 TR:Q9JRP3 (EMBL:AJ401026) (245 aa) fasta scores: E(): 6.6e-31, 37.603% id in 242 aa
YP_040089.1	with TagG is involved in the export of teichoic acids
YP_040090.1	Similar to Bacillus subtilis teichoic acid translocation permease TagG SW:TAGG_BACSU (P42953) (275 aa) fasta scores: E(): 7.2e-39, 37.276% id in 279 aa, and to Enterococcus faecalis  ABC transporter permease TR:O88086 (EMBL:AF071085) (264 aa) fasta scores: E(): 8.5e-25, 29.963% id in 267 aa. Possible alternative translational start site at codon 8
YP_040091.1	Similar to Bacillus subtilis teichoic acid biosynthesis protein B TagB SW:TAGB_BACSU (P27621) (381 aa) fasta scores: E(): 4.3e-26, 31.302% id in 361 aa, and to Lactococcus lactis teichoic acid biosynthesis protein B TagB TR:Q9CH14 (EMBL:AE006327) (371 aa) fasta scores: E(): 2.8e-06, 24.834% id in 302 aa. Lack of similarity at the N-terminus in comparison to other orthologues
YP_040092.1	No significant database matches to the full length CDS. N-terminus is similar to the N-terminal regions of Rhizobium meliloti succinoglycan biosynthesis protein ExoW SW:EXOW_RHIME (P33702) (319 aa) fasta scores: E(): 0.22, 25.000% id in 188 aa, and Streptococcus agalactiae N-acetylglucosaminyltransferase CpsH TR:O87182 (EMBL:AB017355) (333 aa) fasta scores: E(): 0.032, 23.207% id in 237 aa
YP_040093.1	Similar to Bacillus subtilis glycerol-3-phosphate cytidylyltransferase tagD SW:TAGD_BACSU (P27623) (129 aa) fasta scores: E(): 7.1e-36, 69.531% id in 128 aa. Previously sequenced as Staphylococcus aureus glycerol-3-phosphate cytidyltransferase TaqD TR:Q57197 (EMBL:X87105) (132 aa) fasta scores: E(): 6.1e-52, 99.242% id in 132 aa
YP_040094.1	Previously sequenced as Staphylococcus aureus penicillin-binding protein 4 Pbp4 TR:P72355 (EMBL:X91786) (431 aa) fasta scores: E(): 7.3e-162, 99.072% id in 431 aa, Similar to Bacillus subtilis D-alanyl-D-alanine carboxypeptidase DacA SW:DACA_BACSU (P08750) (443 aa) fasta scores: E(): 2e-23, 30.789% id in 380 aa
YP_040095.1	Similar to Staphylococcus epidermidis lantibiotic Pep5 biosynthetic gene cluster protein PepT TR:Q54121 (EMBL:Z49865) (571 aa) fasta scores: E(): 1.2e-109, 56.348% id in 575 aa. Previously sequenced as Staphylococcus aureus ATP-binding cassette transporter A AbcA TR:P72354 (EMBL:X91786) (575 aa) fasta scores: E(): 1.5e-188, 99.826% id in 575 aa
YP_040097.1	Similar to Escherichia coli nucleoside permease NupC SW:NUPC_ECOLI (P33031) (400 aa) fasta scores: E(): 2.8e-39, 36.000% id in 400 aa, and to Bacillus subtilis hypothetical protein YxjA SW:YXJA_BACSU (P42312) (397 aa) fasta scores: E(): 7.7e-42, 46.229% id in 411 aa
YP_040098.1	Similar to Bacillus subtilis hypothetical protein YxkD TR:P94357 (EMBL:D83026) (278 aa) fasta scores: E(): 3.5e-49, 51.460% id in 274 aa, and to Bacillus halodurans hypothetical protein BH1678 TR:Q9KC95 (EMBL:AP001512) (290 aa) fasta scores: E(): 3.5e-32, 35.507% id in 276 aa
YP_040099.1	Previously sequenced as Staphylococcus aureus ferrichrome transport ATP-binding protein FhuA TR:Q9X665 (EMBL:AF132117) (265 aa) fasta scores: E(): 1.2e-89, 100.000% id in 265 aa. Similar to Bacillus subtilis ferrichrome transport ATP-binding protein FhuC SW:FHUC_BACSU (P49938) (269 aa) fasta scores: E(): 3.4e-52, 58.238% id in 261 aa
YP_040100.1	Previously sequenced as Staphylococcus aureus ferrichrome transport permease FhuB TR:Q9X664 (EMBL:AF132117) (341 aa) fasta scores: E(): 7.1e-110, 98.802% id in 334 aa. Similar to Bacillus halodurans ferrichrome ABC transporter FhuB TR:Q9KDX8 (EMBL:AP001510) (338 aa) fasta scores: E(): 1.3e-46, 40.615% id in 325 aa. CDS is 6 amino acids shorter at the N-termimus than the previously sequenced protein
YP_040101.1	Similar to Staphylococcus aureus ferrichrome transport permease FhuD TR:Q9X662 (EMBL:AF132117) (338 aa) fasta scores: E(): 6.7e-123, 99.112% id in 338 aa, and to Bacillus halodurans ferrichrome ABC transporter FhuG TR:Q9KDX9 (EMBL:AP001510) (334 aa) fasta scores: E(): 1e-52, 43.114% id in 334 aa
YP_040102.1	with DhaL and DhaM forms dihydroxyacetone kinase, which is responsible for phosphorylating dihydroxyacetone; DhaK is the dihydroxyacetone binding subunit of the dihydroxyacetone kinase
YP_040103.1	Similar to the C-terminus of Citrobacter freundii dihydroxyacetone kinase DhaK SW:DAK_CITFR (P45510) (552 aa) fasta scores: E(): 0.00012, 28.000% id in 200 aa, and to Bacillus halodurans BH3396 TR:Q9K7G5 (EMBL:AP001518) (196 aa) fasta scores: E(): 1.7e-21, 42.857% id in 189 aa. Possible subunit of a larger protein
YP_040104.1	Similar to Lactococcus lactis hypothetical protein YceJ TR:Q9CIV6 (EMBL:AE006262) (123 aa) fasta scores: E(): 5.3e-12, 40.741% id in 108 aa, and to Bacillus halodurans hypothetical protein BH3395 TR:Q9K7G6 (EMBL:AP001518) (128 aa) fasta scores: E(): 1.8e-09, 35.652% id in 115 aa
YP_040106.1	Similar to Bacillus subtilis hypothetical protein YkvI TR:O31674 (EMBL:Z99111) (347 aa) fasta scores: E(): 7.7e-23, 27.246% id in 345 aa, and to Bacillus halodurans hypothetical protein BH4053 TR:Q9K5N5 (EMBL:AP001520) (341 aa) fasta scores: E(): 3.6e-06, 20.420% id in 333 aa
YP_040107.1	Internal region of the CDS is similar to an internal region of Rhodococcus sp heroin esterase Her TR:O06441 (EMBL:U70619) (322 aa) fasta scores: E(): 1.3e-12, 28.017% id in 232 aa, and the C-terminal region of Clostridium perfringens lipase LipA TR:Q9XDU5 (EMBL:AB028629) (311 aa) fasta scores: E(): 6e-34, 39.163% id in 263 aa
YP_040108.1	Poor database matches. Similar to the N-terminal region of Ureaplasma parvum pseudouridine synthase (uracil hydrolase) SfhB TR:Q9PR31 (EMBL:AE002111) (315 aa) fasta scores: E(): 5.7, 29.545% id in 132 aa
YP_040109.1	Similar to Vibrio cholerae  acetyltransferase VCA0436 TR:Q9KMC6 (EMBL:AE004377) (171 aa) fasta scores: E(): 1.8e-12, 26.829% id in 164 aa, and to Lactococcus lactis hypothetical protein YlaG TR:Q9CGJ5 (EMBL:AE006342) (162 aa) fasta scores: E(): 4.7e-12, 30.723% id in 166 aa
YP_040110.1	Poor database matches. N-terminal region is similar to Staphylococcus epidermidis oxidoreductase EciO TR:O54218 (EMBL:Y14023) (247 aa) fasta scores: E(): 1.1, 21.116% id in 251 aa, and to N-terminal region of Rhizobium loti UDP-glucose 4-epimerase MLR8551 TR:BAB54411 (EMBL:AP003014) (310 aa) fasta scores: E(): 6.5, 21.875% id in 256 aa
YP_040111.1	Probable two-component regulatory system family, response regulator protein. Similar to Bacillus halodurans two-component response regulator BH3911 TR:Q9K621 (EMBL:AP001520) (231 aa) fasta scores: E(): 9.9e-52, 56.951% id in 223 aa, and to Bacillus subtilis signal transduction regulator YtsA TR:O34951 (EMBL:AF008220) (231 aa) fasta scores: E(): 1.6e-49, 55.605% id in 223 aa
YP_040112.1	Probable two-component regulatory system family, sensor kinase. Similar to Bacillus halodurans two-component sensor histidine kinase BH3912 TR:Q9K620 (EMBL:AP001520) (334 aa) fasta scores: E(): 4.2e-38, 37.879% id in 330 aa, and to Bacillus subtilis signal transduction protein kinase YtsB TR:O35044 (EMBL:AF008220) (334 aa) fasta scores: E(): 3.1e-34, 34.848% id in 330 aa
YP_040113.1	Similar to Staphylococcus aureus ABC transporter, up-regulated in vancomycin-resistant strains, VraF TR:Q9KWJ5 (EMBL:AB035453) (253 aa) fasta scores: E(): 4.3e-73, 92.885% id in 253 aa, and to Streptococcus salivarius  salivaricin A ABC transporter SalX TR:Q9F444 (EMBL:AY005472) (245 aa) fasta scores: E(): 4e-29, 45.902% id in 244 aa. Similar to SAR2781, 63.200% identity (63.454% ungapped) in 250 aa overlap
YP_040114.1	Similar to Staphylococcus aureus ABC transporter, up-regulated in vancomycin-resistant strains, VraE TR:Q9KWJ6 (EMBL:AB035452) (626 aa) fasta scores: E(): 6.2e-80, 38.959% id in 634 aa, and to Bacillus subtilis ABC transporter permease YtsD TR:O34741 (EMBL:AF008220) (646 aa) fasta scores: E(): 8.5e-32, 31.846% id in 650 aa
YP_040115.1	Similar to Bacillus subtilis hypothetical protein YkaA SW:YKAA_BACSU (O34454) (205 aa) fasta scores: E(): 3.2e-31, 46.829% id in 205 aa, and to Deinococcus radiodurans conserved hypothetical protein DR0924 TR:Q9RVU8 (EMBL:AE001945) (212 aa) fasta scores: E(): 5.8e-10, 25.481% id in 208 aa
YP_040116.1	Similar to Bacillus subtilis probable low-affinity inorganic phosphate transporter Pit SW:PIT_BACSU (O34436) (328 aa) fasta scores: E(): 5.6e-79, 68.932% id in 309 aa, and to Streptomyces coelicolor phosphate transport protein PitH TR:Q9KZW3 (EMBL:AL353816) (332 aa) fasta scores: E(): 3.3e-55, 45.045% id in 333 aa
YP_040117.1	Similar to Staphylococcus carnosus secreted protein precursor SceB TR:O54487 (EMBL:U96107) (263 aa) fasta scores: E(): 1.2e-19, 35.816% id in 282 aa, and to Staphylococcus epidermidis secretory antigen precursor SsaA TR:Q9KJT6 (EMBL:AF162275) (257 aa) fasta scores: E(): 2.4e-18, 36.330% id in 267 aa
YP_040118.1	Similar to Bacillus subtilis hypothetical protein YetJ TR:O31539 (EMBL:Z99107) (214 aa) fasta scores: E(): 1.3e-07, 22.886% id in 201 aa, and to Helicobacter pylori J99 hypothetical protein JHP0854 TR:Q9ZKT1 (EMBL:AE001515) (230 aa) fasta scores: E(): 1.3e-07, 22.488% id in 209 aa
YP_040119.1	Poor database matches. Similar to Staphylococcus aureus staphylococcal accessory regulator A homologue SarR TR:Q9F0R1 (EMBL:AF207701) (115 aa) fasta scores: E(): 3.3, 21.359% id in 103 aa
YP_040120.1	Similar to Bacillus halodurans BH3259 TR:Q9K7V0 (EMBL:AP001518) (239 aa) fasta scores: E(): 3.6e-63, 74.262% id in 237 aa, and to Bacillus subtilis hypothetical protein YeeI SW:YEEI_BACSU (O31509) (240 aa) fasta scores: E(): 9.9e-61, 72.689% id in 238 aa
YP_040121.1	Similar to Synechocystis sp hypothetical protein SLL1188 TR:P72845 (EMBL:D90901) (164 aa) fasta scores: E(): 6.5e-24, 42.405% id in 158 aa, and to Streptococcus pneumoniae conserved hypothetical protein SP2081 TR:AAK76141 (EMBL:AE007497) (153 aa) fasta scores: E(): 2e-25, 48.000% id in 150 aa
YP_040122.1	N-terminal region is similar to Pyrococcus horikoshii hypothetical protein PH1613 ph1613 TR:O59236 (EMBL:AP000006) (166 aa) fasta scores: E(): 4.9e-06, 29.070% id in 172 aa, and to Pyrococcus abyssi hypothetical protein PAB0381 TR:Q9V175 (EMBL:AJ248284) (171 aa) fasta scores: E(): 3.5e-05, 29.609% id in 179 aa
YP_040123.1	N-terminus is similar to the N-terminal region of Erwinia carotovora hydrogen peroxide-inducible genes activator OxyR SW:OXYR_ERWCA (P71318) (302 aa) fasta scores: E(): 2.5e-09, 23.577% id in 246 aa. Full length CDS is similar to Bacillus halodurans transcriptional regulator BH1787 TR:Q9KBY7 (EMBL:AP001513) (280 aa) fasta scores: E(): 1.7e-33, 35.125% id in 279 aa
YP_040124.1	Similar to Escherichia coli sugar efflux transporter C SetC SW:SETC_ECOLI (P31436) (394 aa) fasta scores: E(): 7.1e-26, 27.559% id in 381 aa, and to Erwinia chrysanthemi sugar efflux transporter SotA SW:SOTA_ERWCH (Q9S3K0) (393 aa) fasta scores: E(): 1.4e-25, 29.759% id in 373 aa
YP_040125.1	Similar to Staphylococcus aureus plasmid (pSK41) transposase TnpG TR:Q53697 (EMBL:X53951) (224 aa) fasta scores: E(): 4.8e-79, 88.839% id in 224 aa, and to Staphylococcus epidermidis plasmid (pSK818) insertion sequence IS257(818C)  transposase Tnp TR:P97218 (EMBL:U40386) (224 aa) fasta scores: E(): 1.8e-78, 88.839% id in 224 aa
YP_040127.1	Highly similar to Staphylococcus aureus plasmid pI258 arsenical resistance operon repressor ArsR SW:ARSR_STAAU (P30338) (104 aa) fasta scores: E(): 2.9e-40, 99.038% id in 104 aa, and to Staphylococcus xylosus plasmid pSX267 arsenical resistance operon repressor ArsR SW:ARSR_STAXY (Q01256) (104 aa) fasta scores: E(): 5.9e-34, 85.577% id in 104 aa. Similar to SAR1855, 75.000% identity (75.000% ungapped) in 104 aa overlap
YP_040128.1	Highly similar to Staphylococcus aureus arsenical pump membrane protein ArsB SW:ARSB_STAAU (P30329) (429 aa) fasta scores: E(): 2e-142, 99.301% id in 429 aa, and to Staphylococcus xylosus arsenical pump membrane protein ArsB SW:ARSB_STAXY (Q01255) (429 aa) fasta scores: E(): 1.5e-139, 96.737% id in 429 aa. Similar to SAR1856, 79.254% identity (79.254% ungapped) in 429 aa overlap
YP_040129.1	catalyzes the reduction of arsenate to arsenite; also can dephosphorylate tyrosine phosphorylated proteins, aryl phosphates, and acyl phosphates
YP_040130.1	Similar to Mycoplasma pulmonis hypothetical protein MYPU_3400 TR:CAC13513 (EMBL:AL445564) (49 aa) fasta scores: E(): 1.6, 36.957% id in 46 aa
YP_040131.1	Similar to Lactococcus lactis lactococcin 972 precursor LclA TR:O86283 (EMBL:AJ002203) (91 aa) fasta scores: E(): 0.019, 30.769% id in 78 aa, and to the N-terminal region of Bacillus subtilis endopeptidase precursor LytF TR:O07532 (EMBL:Y14079) (488 aa) fasta scores: E(): 3.1, 36.471% id in 85 aa
YP_040132.1	Similar to Lactococcus lactis plasmid pBL1 hypothetical lactococcin 972 immunity protein LclB TR:Q9L651 (EMBL:AF242367) (648 aa) fasta scores: E(): 1.4e-14, 22.356% id in 662 aa, and to Lactococcus lactis hypothetical protein YujE TR:Q9CE29 (EMBL:AE006431) (660 aa) fasta scores: E(): 5.4e-08, 19.288% id in 674 aa
YP_040133.1	Poor database matches. Similar to Bacillus subtilis hypothetical protein YxeA SW:YXEA_BACSU (P54940) (115 aa) fasta scores: E(): 0.0026, 30.841% id in 107 aa
YP_040134.1	Similar to Lactococcus lactis hypothetical ATP binding protein TR:Q9L650 (EMBL:AF242367) (207 aa) fasta scores: E(): 1e-26, 49.758% id in 207 aa, and to Streptococcus pneumoniae hypothetical protein TR:Q9ZHB1 (EMBL:AF068902) (213 aa) fasta scores: E(): 4.3e-25, 45.238% id in 210 aa
YP_040135.1	Similar to Staphylococcus aureus prophage phiPV83 transposase TR:Q9MBP7 (EMBL:AB044554) (548 aa) fasta scores: E(): 6.9e-199, 99.270% id in 548 aa, and to Bacillus halodurans cassette chromosome recombinase B1 BH0682 TR:Q9KF15 (EMBL:AP001509) (522 aa) fasta scores: E(): 2.8e-99, 52.115% id in 520 aa
YP_040136.1	No significant database matches. Doubtful CDS
YP_040137.1	Similar to Staphylococcus epidermidis plasmid pSK639  replication initiation protein Orf287 TR:P95741 (EMBL:U40259) (287 aa) fasta scores: E(): 5.7e-76, 76.224% id in 286 aa, and to Lactobacillus acidophilus plasmid pLA103  replication protein RepA TR:Q52180 (EMBL:D55703) (282 aa) fasta scores: E(): 1.2e-28, 36.842% id in 285 aa
YP_040138.1	Similar to Lactococcus lactis transcriptional regulator YabB TR:Q9CJI6 (EMBL:AE006240) (107 aa) fasta scores: E(): 6.2e-09, 35.714% id in 112 aa, and to the N-terminal region of Streptococcus pyogenes hypothetical protein SPY1834 TR:Q99Y76 (EMBL:AE006610) (195 aa) fasta scores: E(): 3.2e-07, 34.259% id in 108 aa
YP_040139.1	No significant database matches. Doubtful CDS, poor translational start site
YP_040140.1	No significant database matches. Similar to SAR1888, 50.000% identity (50.000% ungapped) in 28 aa overlap, and to SAR0716, 55.556% identity (55.556% ungapped) in 27 aa overlap
YP_040142.1	Poor database matches. Similar to internal region of Campylobacter jejuni  arsenical pump membrane protein ArsB TR:Q9PNA8 (EMBL:AL139077) (428 aa) fasta scores: E(): 7.1, 33.333% id in 66 aa
YP_040143.1	Poor database matches Similar to the C-terminal regions of Streptomyces coelicolor hypothetical protein SC5G9.13c TR:Q9RL13 (EMBL:AL117385) (122 aa) fasta scores: E(): 0.97, 28.571% id in 91 aa, and Rhizobium loti hypothetical protein MLR1105 TR:BAB48553 (EMBL:AP002996) (210 aa) fasta scores: E(): 1.6, 29.885% id in 87 aa
YP_040144.1	Nosignificant database matches. Similar to SAR1888, 72.414% identity (72.414% ungapped) in 29 aa overlap, and to SAR0706, 55.556% identity (55.556% ungapped) in 27 aa overlap
YP_040145.1	Similar to Rhodospirillum rubrum rubisco operon transcriptional regulator CbbR SW:CBBR_RHORU (P52595) (298 aa) fasta scores: E(): 1.2e-07, 26.087% id in 276 aa, and to Staphylococcus xylosus hypothetical transcriptional regulator SW:YLAC_STAXY (O33812) (270 aa) fasta scores: E(): 8.9e-68, 70.943% id in 265 aa
YP_040146.1	Similar to Escherichia coli hypothetical protein YeiH SW:YEIH_ECOLI (P33019) (349 aa) fasta scores: E(): 5.7e-28, 31.429% id in 315 aa, and to Rhizobium loti hypothetical protein MLR2225 TR:BAB49407 (EMBL:AP002999) (325 aa) fasta scores: E(): 1.1e-26, 27.900% id in 319 aa. Similar to SAR0338, 68.085% identity (68.085% ungapped) in 329 aa overlap
YP_040147.1	Similar to Staphylococcus aureus plasmid pI9789 transposon Tn552 resolvase TnpR SW:BINL_STAAU (P18358) (197 aa) fasta scores: E(): 1e-66, 93.194% id in 191 aa, and to Staphylococcus epidermidis plasmid pST6 resolvase/integrase BinR TR:AAK38454 (EMBL:AY028779) (192 aa) fasta scores: E(): 2.5e-66, 92.708% id in 192 aa. Similar to SAR1828, 94.764% identity (94.764% ungapped) in 191 aa overlap
YP_040148.1	Similar to Streptococcus mutans copper exporting P-type ATPase CopA TR:Q9F682 (EMBL:AF296446) (742 aa) fasta scores: E(): 1.2e-66, 34.431% id in 668 aa, and to Enterococcus hirae probable copper exporting ATPase B CopB SW:COPB_ENTHR (P05425) (745 aa) fasta scores: E(): 2.2e-135, 57.122% id in 681 aa
YP_040149.1	Similar to Campylobacter jejuni  periplasmic oxidoreductase CJ1516 TR:Q9PME8 (EMBL:AL139078) (513 aa) fasta scores: E(): 9.6e-22, 31.673% id in 502 aa, and to Escherichia coli probable blue-copper protein precursor YacK SW:YACK_ECOLI (P36649) (516 aa) fasta scores: E(): 2.8e-30, 35.931% id in 462 aa
YP_040150.1	Similar to Staphylococcus aureus prophage phiPV83 transposase TR:Q9MBP7 (EMBL:AB044554) (548 aa) fasta scores: E(): 8.5e-195, 97.810% id in 548 aa, and to Bacillus halodurans cassette chromosome recombinase B1 BH0682 TR:Q9KF15 (EMBL:AP001509) (522 aa) fasta scores: E(): 8.1e-99, 52.115% id in 520 aa
YP_040151.1	Similar to Staphylococcus aureus plasmid pI258 probable cadmium-transporting ATPase CadA SW:CADA_STAAU (P20021) (727 aa) fasta scores: E(): 0, 91.586% id in 725 aa, and to Bacillus firmus probable cadmium-transporting ATPase CadA SW:CADA_BACFI (P30336) (723 aa) fasta scores: E(): 1.5e-213, 81.354% id in 724 aa
YP_040152.1	Similar to Staphylococcus aureus cadmium resistance protein CadC SW:CADF_STAAU (P37374) (121 aa) fasta scores: E(): 1.6e-43, 98.347% id in 121 aa, and to Listeria monocytogenes plasmid pLm74 cadmium efflux system accessory protein CadC SW:CADC_LISMO (Q56405) (119 aa) fasta scores: E(): 1.1e-19, 53.571% id in 112 aa
YP_040153.1	Similar to Staphylococcus aureus transposase C of transposon Tn554 TR:BAB47607 (EMBL:AB037671) (125 aa) fasta scores: E(): 2e-36, 98.400% id in 125 aa
YP_040154.1	Similar to Staphylococcus aureus transposase for insertion sequence-like element IS431mec TR:BAA82238 (EMBL:D86934) (224 aa) fasta scores: E(): 2.4e-78, 88.393% id in 224 aa, and to Staphylococcus epidermidis plasmid pSK818 transposase Tnp TR:P97218 (EMBL:U40386) (224 aa) fasta scores: E(): 1.8e-78, 88.839% id in 224 aa
YP_040155.1	Poor database matches. Similar to Bacillus halodurans BH0407 TR:Q9KFS0 (EMBL:AP001508) (228 aa) fasta scores: E(): 4.5e-05, 23.445% id in 209 aa
YP_040156.1	C-terminus is similar to the C-terminal regions of Acinetobacter sp aminoglycoside resistance protein Aac(6')-Ik TR:Q44246 (EMBL:L29510) (145 aa) fasta scores: E(): 0.021, 31.373% id in 102 aa, and to Vibrio cholerae acetyltransferase VC1341 TR:Q9KSB7 (EMBL:AE004214) (158 aa) fasta scores: E(): 0.042, 26.357% id in 129 aa
YP_040157.1	No significant database matches. Lysine and aspartic acid rich protein, 27.1% and 15.5% of the total amino acid content respectively. Contains coiled-coiled domain, residues 29 to 57
YP_040159.1	Similar to Proteus mirabilis  acetyl transferase Pat TR:O86434 (EMBL:AJ000084) (185 aa) fasta scores: E(): 6.4e-19, 42.529% id in 174 aa, and to Streptomyces coelicolor  acetyltranferase SC5C11.04c TR:Q9L168 (EMBL:AL158060) (183 aa) fasta scores: E(): 3.7e-16, 37.853% id in 177 aa
YP_040160.1	Similar to Bacillus halodurans hypothetical protein BH3084 TR:Q9K8C2 (EMBL:AP001517) (187 aa) fasta scores: E(): 1e-33, 49.189% id in 185 aa, and to Bacillus subtilis hypothetical protein YvdD TR:O06986 (EMBL:Z94043) (191 aa) fasta scores: E(): 2.1e-31, 48.603% id in 179 aa
YP_040161.1	Similar to Listeria monocytogenes hypothetical protein SW:YP17_LISMO (P52309) (149 aa) fasta scores: E(): 9.4e-14, 34.752% id in 141 aa, and to Bacillus halodurans hypothetical protein BH1374 TR:Q9KD45 (EMBL:AP001511) (157 aa) fasta scores: E(): 2.2e-11, 32.192% id in 146 aa
YP_040162.1	No significant database matches. CDS is lysine rich, 23.3% of the total amino acid content
YP_040163.1	BacA; phosphatase activity in Escherichia coli not kinase; involved in bacitracin resistance as bacitracin supposedly sequesters UDP disphosphate which reduces the pool of lipid carrier available to the cell
YP_040164.1	Similar to Escherichia coli transport ATP-binding protein CydD SW:CYDD_ECOLI (P29018) (588 aa) fasta scores: E(): 3.6e-22, 28.799% id in 566 aa, and to Bacillus subtilis transport ATP-binding protein CydC SW:CYDC_BACSU (P94366) (567 aa) fasta scores: E(): 2.4e-28, 27.839% id in 546 aa
YP_040165.1	Similar to Escherichia coli transport ATP-binding protein CydC SW:CYDC_ECOLI (P23886) (573 aa) fasta scores: E(): 3.4e-33, 30.195% id in 563 aa, and to Bacillus halodurans ABC transporter ATP-binding protein BH3972 TR:Q9K5W5 (EMBL:AP001520) (575 aa) fasta scores: E(): 6.1e-48, 32.491% id in 554 aa
YP_040166.1	Similar to Bacillus subtilis hypothetical protein YkmA TR:O34777 (EMBL:AJ002571) (147 aa) fasta scores: E(): 2e-14, 36.879% id in 141 aa, and to Streptomyces coelicolor  regulatory protein SCE50.15 TR:Q9L048 (EMBL:AL163672) (168 aa) fasta scores: E(): 3.5e-14, 39.007% id in 141 aa
YP_040167.1	Similar to Bacillus halodurans hypothetical protein BH0366 TR:Q9KFV5 (EMBL:AP001508) (311 aa) fasta scores: E(): 4.7e-27, 31.190% id in 311 aa, and to Aquifex aeolicus cobalamin synthesis related protein CobW TR:O66539 (EMBL:AE000675) (292 aa) fasta scores: E(): 1.6e-16, 29.682% id in 283 aa
YP_040168.1	Similar to Bacillus subtilis hypothetical oxidoreductase YcsN SW:YCSN_BACSU (P42972) (300 aa) fasta scores: E(): 4e-51, 47.195% id in 303 aa, and to Escherichia coli hypothetical oxidoreductase YdhF SW:YDHF_ECOLI (P76187) (298 aa) fasta scores: E(): 1.1e-44, 43.151% id in 292 aa
YP_040169.1	Poor database matches. Similar to an internal region of Methanococcus jannaschii hypothetical protein MJ0420 SW:Y420_METJA (Q57863) (380 aa) fasta scores: E(): 0.11, 32.143% id in 84 aa
YP_040170.1	Similar to Escherichia coli citrate carrier protein CitT SW:CITT_ECOLI (P77405) (487 aa) fasta scores: E(): 1.1e-26, 23.400% id in 500 aa, and to Alcaligenes eutrophus membrane protein SW:MEMP_ALCEU (Q07252) (513 aa) fasta scores: E(): 7.1e-75, 47.561% id in 492 aa
YP_040171.1	Similar to Escherichia coli deoxyribodipyrimidine photolyase PhrB SW:PHR_ECOLI (P00914) (472 aa) fasta scores: E(): 8.3e-37, 33.408% id in 449 aa, and to Streptococcus pyogenes  deoxyribodipyrimidine photolyase Phr TR:Q99YX0 (EMBL:AE006584) (469 aa) fasta scores: E(): 1.8e-52, 34.402% id in 468 aa
YP_040172.1	Poor database matches. Similar to an internal region of Bacillus halodurans hypothetical protein BH0447 TR:Q9KFN2 (EMBL:AP001508) (247 aa) fasta scores: E(): 4.7, 20.225% id in 89 aa
YP_040173.1	Similar to Synechocystis sp hypothetical protein SLL0397 TR:Q55732 (EMBL:D64002) (217 aa) fasta scores: E(): 7.3e-07, 30.055% id in 183 aa, and to Treponema pallidum conserved hypothetical integral membrane protein TP0033 TR:O83076 (EMBL:AE001188) (203 aa) fasta scores: E(): 5.2e-05, 30.286% id in 175 aa
YP_040174.1	Similar to Archaeoglobus fulgidus hypothetical protein AF0104 TR:O30132 (EMBL:AE001099) (138 aa) fasta scores: E(): 9.2e-11, 34.127% id in 126 aa, and to Halobacterium sp hypothetical protein VNG2339C TR:Q9HMX7 (EMBL:AE005116) (139 aa) fasta scores: E(): 2.8e-08, 31.967% id in 122 aa
YP_040175.1	Highly similar to Staphylococcus aureus fluoroquinolone resistance protein NorA1199 TR:Q03325 (EMBL:M80252) (388 aa) fasta scores: E(): 6.4e-132, 96.134% id in 388 aa. Similar to Bacillus subtilis multidrug resistance protein 1 Bmr SW:BMR1_BACSU (P33449) (389 aa) fasta scores: E(): 1.7e-61, 44.125% id in 383 aa
YP_040176.1	Poor database matches. Similar to Legionella pneumophila immunogenic protein TR:O32829 (EMBL:Z97066) (136 aa) fasta scores: E(): 3.6, 22.069% id in 145 aa
YP_040177.1	Similar to Enterococcus faecalis  regulatory protein EbsC SW:EBSC_ENTFA (P36922) (164 aa) fasta scores: E(): 7.2e-21, 44.375% id in 160 aa, and to Bacillus subtilis hypothetical protein YjdI TR:O31650 (EMBL:Z99110) (159 aa) fasta scores: E(): 1.3e-21, 46.939% id in 147 aa
YP_040178.1	Similar to Escherichia coli  aga operon transcriptional repressor AgaR SW:AGAR_ECOLI (P42902) (269 aa) fasta scores: E(): 1.2e-17, 28.571% id in 245 aa, and to Bacillus halodurans transcriptional repressor BH0826 TR:Q9KEM6 (EMBL:AP001510) (251 aa) fasta scores: E(): 5.3e-38, 45.082% id in 244 aa
YP_040179.1	Similar to Streptococcus mutans tagatose-6-phosphate kinase LacC SW:LACC_STRMU (P26421) (310 aa) fasta scores: E(): 1.8e-25, 35.789% id in 285 aa, and to Bacillus subtilis 1-phosphofructokinase FruK SW:K1PF_BACSU (O31714) (303 aa) fasta scores: E(): 7.7e-47, 46.865% id in 303 aa
YP_040180.1	Similar to Rhodobacter capsulatus PTS system, fructose-specific IIBC component FruA SW:PTFB_RHOCA (P23387) (578 aa) fasta scores: E(): 7.7e-66, 40.709% id in 592 aa. Previously sequenced as Staphylococcus aureus fructose specific permease FruA TR:Q9KWK0 (EMBL:AB035450) (646 aa) fasta scores: E(): 8.9e-218, 98.762% id in 646 aa
YP_040181.1	Similar to Vibrio furnissii N-acetylglucosamine-6-phosphate deacetylase ManD SW:NAGA_VIBFU (P96166) (399 aa) fasta scores: E(): 3.9e-37, 36.000% id in 375 aa, and to Bacillus subtilis N-acetylglucosamine-6-phosphate deacetylase NagA SW:NAGA_BACSU (O34450) (396 aa) fasta scores: E(): 1.7e-56, 45.547% id in 393 aa
YP_040182.1	Similar to Bacillus subtilis hypothetical protein YhdP SW:YHDP_BACSU (O07585) (444 aa) fasta scores: E(): 1.3e-74, 47.529% id in 425 aa, and to Bacillus subtilis hypothetical protein YrkA SW:YRKA_BACSU (P54428) (434 aa) fasta scores: E(): 6.4e-69, 47.382% id in 401 aa
YP_040183.1	Similar to Trypanosoma brucei prostaglandin F synthase TR:Q9GV41 (EMBL:AB034727) (276 aa) fasta scores: E(): 3.9e-43, 47.547% id in 265 aa, and to Streptomyces coelicolor  oxidoreductase SC4B5.01C TR:Q9ZBW7 (EMBL:AL034443) (277 aa) fasta scores: E(): 2.7e-50, 50.562% id in 267 aa
YP_040184.1	Similar to bacteriophage SfII bactoprenol glucosyl transferase GtrB SW:GTRB_BPSF2 (O21943) (309 aa) fasta scores: E(): 2.4e-42, 44.695% id in 311 aa, and to Bacillus subtilis hypothetical protein CsbB SW:CSBB_BACSU (Q45539) (329 aa) fasta scores: E(): 3.8e-61, 50.467% id in 321 aa
YP_040185.1	Two-component regulatory system family, sensor kinase. Similar to Staphylococcus aureus exoproteins regulating histidine protein kinase SaeS TR:Q9S4L8 (EMBL:AF129010) (353 aa) fasta scores: E(): 1.6e-100, 88.952% id in 353 aa, and to Streptococcus pneumoniae histidine kinase Hk08 TR:Q9S1J1 (EMBL:AJ006397) (350 aa) fasta scores: E(): 2.6e-28, 34.097% id in 349 aa
YP_040186.1	Two-component regulatory system family, response regulator protein. Similar to Staphylococcus aureus exoproteins controlling response regulator SaeR TR:Q9S4L9 (EMBL:AF129010) (228 aa) fasta scores: E(): 2.1e-86, 98.246% id in 228 aa, and to Streptococcus pneumoniae response regulator Rr08 TR:Q9S1J2 (EMBL:AJ006397) (232 aa) fasta scores: E(): 4.9e-37, 46.256% id in 227 aa
YP_040187.1	Poor database matches. N-terminus is similar to the N-terminal region of Bacillus halodurans hypothetical protein BH2253 TR:Q9KAN4 (EMBL:AP001514) (173 aa) fasta scores: E(): 3.3e-05, 32.479% id in 117 aa
YP_040188.1	Poor database matches Similar to the N-terminal region of Staphylococcus aureus  pathogenicity island hypothetical protein Orf3 TR:Q9F0L5 (EMBL:AF217235) (170 aa) fasta scores: E(): 0.59, 28.276% id in 145 aa, and to an internal region of Drosophila melanogaster hypothetical protein CG5175 TR:Q9VEN4 (EMBL:AE003716) (566 aa) fasta scores: E(): 1.3, 30.986% id in 142 aa
YP_040189.1	Poor database matches. Similar to N-terminal regions of Campylobacter jejuni enterochelin uptake permease CeuC TR:Q9PMU6 (EMBL:AL139078) (312 aa) fasta scores: E(): 7.3, 26.042% id in 192 aa, and Thermoplasma volcanium hypothetical protein TVG0355256 TR:BAB59507 (EMBL:AP000992) (486 aa) fasta scores: E(): 8.8, 21.693% id in 189 aa
YP_040190.1	Similar to Bacillus subtilis hypothetical protein YkvL TR:O31677 (EMBL:Z99111) (243 aa) fasta scores: E(): 4.6e-55, 62.551% id in 243 aa, and to Bacillus halodurans hypothetical protein BH2242 TR:Q9KAP5 (EMBL:AP001514) (236 aa) fasta scores: E(): 9.8e-53, 59.664% id in 238 aa
YP_040191.1	Similar to Bacillus subtilis hypothetical protein YkvK TR:O31676 (EMBL:Z99111) (149 aa) fasta scores: E(): 5.9e-33, 60.284% id in 141 aa, and to Bacillus halodurans 6-pyruvoyl tetrahydrobiopterin synthase BH2243 TR:Q9KAP4 (EMBL:AP001514) (140 aa) fasta scores: E(): 1.2e-32, 58.394% id in 137 aa
YP_040192.1	Similar to Bacillus subtilis hypothetical protein YkvJ TR:O31675 (EMBL:Z99111) (219 aa) fasta scores: E(): 2.1e-62, 70.833% id in 216 aa, and to Bacillus halodurans aluminium resistance protein BH2244 TR:Q9KAP3 (EMBL:AP001514) (223 aa) fasta scores: E(): 5.1e-58, 68.545% id in 213 aa
YP_040193.1	Similar to the N-terminal region of Pichia angusta anthranilate synthase component II SW:TRPG_PICAN (P09575) (367 aa) fasta scores: E(): 3.6e-30, 42.784% id in 194 aa, and to Acinetobacter calcoaceticus anthranilate synthase component II TrpG SW:TRPG_ACICA (P00902) (194 aa) fasta scores: E(): 5.4e-29, 44.503% id in 191 aa
YP_040194.1	C-terminus is similar to the C-terminal region of Bacillus subtilis para-aminobenzoate synthase component I PabB SW:PABB_BACSU (P28820) (470 aa) fasta scores: E(): 1.2e-29, 39.216% id in 255 aa. Full length CDS is similar to the N-terminal region of Streptococcus pyogenes para-aminobenzoate synthetase PabB TR:Q99XW6 (EMBL:AE006622) (585 aa) fasta scores: E(): 3.1e-48, 43.626% id in 353 aa. Possible para-aminobenzoate synthetase pseudogene
YP_040195.1	Similar to C-terminal region of Streptococcus pyogenes  para-aminobenzoate synthetase PabB TR:Q99XW6 (EMBL:AE006622) (585 aa) fasta scores: E(): 3.8e-06, 26.667% id in 180 aa, and to Haemophilus influenzae hypothetical protein HI1169 SW:YB69_HAEIN (P44118) (188 aa) fasta scores: E(): 0.0013, 26.154% id in 195 aa. Possible para-aminobenzoate synthetase pseudogene
YP_040196.1	Poor database matches. Similar to N-terminus of Lactococcus lactis hypothetical protein YdbD TR:Q9CIP2 (EMBL:AE006268) (118 aa) fasta scores: E(): 2.4, 32.432% id in 74 aa
YP_040197.1	Similar to Bacillus halodurans hypothetical protein BH1817 TR:Q9KBV7 (EMBL:AP001513) (225 aa) fasta scores: E(): 1.1e-22, 32.420% id in 219 aa, and to Pyrococcus abyssi hypothetical protein PAB1713 TR:Q9V006 (EMBL:AJ248286) (225 aa) fasta scores: E(): 2.4e-15, 30.088% id in 226 aa
YP_040198.1	Similar to Bacillus halodurans hypothetical protein BH1818 TR:Q9KBV6 (EMBL:AP001513) (331 aa) fasta scores: E(): 5.3e-32, 34.783% id in 322 aa, and to Pseudomonas aeruginosa hypothetical protein PA0496 TR:Q9I622 (EMBL:AE004486) (325 aa) fasta scores: E(): 8.2e-15, 29.394% id in 330 aa
YP_040199.1	Similar to Bacillus subtilis hypothetical protein YfnI TR:O06487 (EMBL:D86418) (653 aa) fasta scores: E(): 1.2e-132, 57.075% id in 636 aa, and to Lactococcus lactis hypothetical protein YibC TR:Q9CHC7 (EMBL:AE006314) (722 aa) fasta scores: E(): 3.3e-63, 37.705% id in 671 aa
YP_040200.1	Similar to Bacillus subtilis hypothetical protein YfmR TR:O06476 (EMBL:D86418) (629 aa) fasta scores: E(): 4.2e-80, 43.879% id in 629 aa, and to Streptococcus pyogenes  ABC transporter spy0867 TR:Q9A0A4 (EMBL:AE006536) (625 aa) fasta scores: E(): 2.7e-76, 44.608% id in 612 aa
YP_040201.1	Similar to Escherichia coli ATP-dependent DNA helicase RecQ SW:RECQ_ECOLI (P15043) (607 aa) fasta scores: E(): 8.3e-74, 37.186% id in 597 aa, and to Lactococcus lactis ATP-dependent DNA helicase RecQ TR:Q9CEM9 (EMBL:AE006411) (592 aa) fasta scores: E(): 8.5e-90, 44.370% id in 595 aa
YP_040202.1	Similar to Bacillus subtilis choline transport ATP-binding protein ProV SW:OPBA_BACSU (Q45460) (381 aa) fasta scores: E(): 1.7e-40, 45.687% id in 313 aa, and to Lactococcus lactis choline ABC transporter ATP binding protein ChoQ TR:Q9CH91 (EMBL:AE006318) (305 aa) fasta scores: E(): 5.9e-41, 43.671% id in 316 aa
YP_040203.1	N-terminal region is similar to Bacillus subtilis choline ABC transporter permease ProW SW:OPBB_BACSU (Q45461) (217 aa) fasta scores: E(): 7.2e-30, 48.990% id in 198 aa. Full length CDS is similar to Streptococcus pyogenes  ABC transporter SPY1134 TR:Q99ZQ2 (EMBL:AE006555) (510 aa) fasta scores: E(): 1.5e-91, 53.242% id in 509 aa
YP_040204.1	catalyzes the formation of L-histidinol phosphate from imidazole-acetol phosphate and glutamate in histidine biosynthesis
YP_040205.1	Similar to Homo sapiens mitochondrial 5'(3')-deoxyribonucleotidase DNT-2 TR:Q9NPB1 (EMBL:AJ277557) (228 aa) fasta scores: E(): 0.00049, 30.052% id in 193 aa, and to Similar to Bacillus subtilis hypothetical protein YorS TR:O31895 (EMBL:Z99114) (172 aa) fasta scores: E(): 5.6e-21, 39.306% id in 173 aa
YP_040206.1	Poor database matches. Similar to C-terminal region of Streptococcus thermophilus hypothetical protein EpsB TR:O87929 (EMBL:AF053347) (243 aa) fasta scores: E(): 9.2, 35.135% id in 37 aa
YP_040207.1	Similar to Bacillus subtilis multidrug transporter regulatory protein BmrU SW:BMRU_BACSU (P39074) (297 aa) fasta scores: E(): 3.5e-28, 31.757% id in 296 aa, and to Bacillus halodurans multidrug resistance protein BmrU TR:Q9KC00 (EMBL:AP001513) (311 aa) fasta scores: E(): 3.6e-21, 27.891% id in 294 aa
YP_040208.1	Similar to Lactococcus lactis di-/tripeptide transporter DtpT SW:DTPT_LACLA (P36574) (463 aa) fasta scores: E(): 1.3e-68, 39.355% id in 465 aa, and to Bacillus subtilis hypothetical protein YclF SW:YCLF_BACSU (P94408) (492 aa) fasta scores: E(): 8.9e-90, 48.780% id in 492 aa. CDS is extended at the N-terminus in comparison to the Lactococcus lactis protein. Possible alternative translational start site
YP_040209.1	NADPH-dependent; catalyzes the reduction of 7-cyano-7-deazaguanine to 7-aminomethyl-7-deazaguanine in queuosine biosynthesis
YP_040210.1	Similar to Treponema pallidum conserved hypothetical integral membrane protein TP0986 TR:O83951 (EMBL:AE001266) (294 aa) fasta scores: E(): 1.5e-32, 37.979% id in 287 aa, and to Pseudomonas aeruginosa hypothetical protein PA4834 TR:Q9HUX6 (EMBL:AE004896) (284 aa) fasta scores: E(): 1e-20, 31.481% id in 270 aa
YP_040211.1	in Salmonella NrdI has a stimulatory effect on the ribonucleotide reductase activity of NrdH with NrdEF
YP_040212.1	Catalyzes the rate-limiting step in dNTP synthesis
YP_040213.1	B2 or R2 protein; type 1b enzyme; catalyzes the rate-limiting step in dNTP synthesis; converts nucleotides to deoxynucleotides; forms a homodimer and then a multimeric complex with NrdE
YP_040214.1	Similar to Vibrio anguillarum ferric anguibactin ABC transporter permease FatD SW:FATD_VIBAN (P37738) (314 aa) fasta scores: E(): 4.6e-40, 35.599% id in 309 aa. Previously sequenced as Staphylococcus aureus  iron transport membrane protein SstA TR:O87825 (EMBL:AJ005352) (323 aa) fasta scores: E(): 1.6e-104, 97.214% id in 323 aa
YP_040215.1	Similar to Vibrio anguillarum ferric anguibactin ABC transporter permease FatC SW:FATC_VIBAN (P37737) (317 aa) fasta scores: E(): 9.6e-26, 28.797% id in 316 aa, and to Staphylococcus aureus  iron transport membrane protein SstB TR:O87826 (EMBL:AJ005352) (226 aa) fasta scores: E(): 1.1e-70, 99.107% id in 224 aa
YP_040216.1	Similar to Escherichia coli citrate-dependent iron(III) transport system, ATP-binding protein FecE SW:FECE_ECOLI (P15031) (255 aa) fasta scores: E(): 2.5e-24, 37.903% id in 248 aa, and to Staphylococcus aureus  iron transport ATP-binding protein SstC TR:O87827 (EMBL:AJ005352) (253 aa) fasta scores: E(): 1.9e-78, 96.047% id in 253 aa
YP_040217.1	Similar to Vibrio anguillarum ferric anguibactin-binding protein precursor FatB SW:FATB_VIBAN (P11460) (322 aa) fasta scores: E(): 9.7e-18, 30.45% id in 266 aa, and to Staphylococcus aureus  iron transporter lipoprotein SstD TR:O87828 (EMBL:AJ005352) (342 aa) fasta scores: E(): 2.2e-110, 97.07% id in 342 aa
YP_040218.1	Similar to Saccharomyces cerevisiae hypothetical protein YKl084W SW:YKI4_YEAST (P36078) (116 aa) fasta scores: E(): 1.2e-19, 45.192% id in 104 aa, and to Schizosaccharomyces pombe hypothetical protein SPAC29B12.12 TR:O14033 (EMBL:Z99164) (113 aa) fasta scores: E(): 6.7e-17, 41.000% id in 100 aa
YP_040219.1	catalyzes the reduction of UDP-N-acetylglucosamine enolpyruvate to form UDP-N-acetylmuramate in peptidoglycan biosynthesis
YP_040220.1	Poor database matches. C-terminus is similar to the C-terminal region of Bacillus firmus glutamate-rich protein GrpB SW:GRPB_BACFI (Q45133) (174 aa) fasta scores: E(): 2.3e-06, 25.517% id in 145 aa
YP_040221.1	N-terminal region is similar to Borrelia burgdorferi lipoprotein Bbk2.11 TR:Q44739 (EMBL:U30617) (233 aa) fasta scores: E(): 0.15, 21.702% id in 235 aa. Full length CDS is similar to N-terminal region of Ureaplasma parvum hypothetical lipoprotein UU125 TR:Q9PR19 (EMBL:AE002113) (394 aa) fasta scores: E(): 0.18, 25.085% id in 295 aa
YP_040222.1	Similar to Bacillus subtilis hypothetical protein YtxJ SW:YTXJ_BACSU (P39914) (108 aa) fasta scores: E(): 4.3e-12, 43.564% id in 101 aa, and to Bacillus halodurans general stress protein BH3013 TR:Q9K8J3 (EMBL:AP001517) (112 aa) fasta scores: E(): 1.2e-09, 36.792% id in 106 aa
YP_040223.1	Similar to Escherichia coli glycerate kinase 1 GlxK SW:GRK1_ECOLI (P77364) (381 aa) fasta scores: E(): 7.1e-18, 23.699% id in 346 aa, and to Bacillus halodurans glycerate kinase GlxK SW:GRK_BACHD (Q9Z9P2) (380 aa) fasta scores: E(): 2.9e-21, 25.656% id in 343 aa
YP_040224.1	catalyzes the release of the N-terminal amino acid from a tripeptide
YP_040225.1	Similar to Bacillus halodurans hypothetical protein BH0082 TR:Q9KGH9 (EMBL:AP001507) (150 aa) fasta scores: E(): 7.4e-12, 37.500% id in 136 aa, and to Pasteurella multocida hypothetical protein PM1894 TR:Q9CJU7 (EMBL:AE006227) (153 aa) fasta scores: E(): 5.8e-07, 29.655% id in 145 aa
YP_040226.1	Similar to Bacillus halodurans hypothetical protein BH0081 TR:Q9KGI0 (EMBL:AP001507) (251 aa) fasta scores: E(): 1.9e-30, 36.800% id in 250 aa, and to Campylobacter jejuni  integral membrane protein CJ1166C TR:Q9PNC9 (EMBL:AL139077) (258 aa) fasta scores: E(): 1.5e-08, 22.619% id in 252 aa
YP_040227.1	Similar to Bacillus subtilis hypothetical protein YhcK SW:YHCK_BACSU (P54595) (359 aa) fasta scores: E(): 1.8e-19, 27.901% id in 362 aa, and to Deinococcus radiodurans GGDEF family protein DR1090 TR:Q9RVD9 (EMBL:AE001959) (356 aa) fasta scores: E(): 1.7e-13, 26.158% id in 367 aa
YP_040228.1	Previously sequenced as Staphylococcus aureus lipophilic protein that affects bacterial lysis and methicillin resistance levels Llm TR:Q53761 (EMBL:D21131) (351 aa) fasta scores: E(): 4.5e-118, 99.715% id in 351 aa. Similar to Escherichia coli  UDP-phosphate alpha-N-acetylglucosaminyltransferase Rfe SW:RFE_ECOLI (P24235) (367 aa) fasta scores: E(): 5e-19, 26.647% id in 334 aa
YP_040229.1	Similar to Bacillus halodurans hypothetical protein BH3630 TR:Q9K6U5 (EMBL:AP001519) (213 aa) fasta scores: E(): 2.7e-32, 45.972% id in 211 aa, and to Bacillus subtilis hypothetical protein YvhK SW:YVYE_BACSU (P32437) (217 aa) fasta scores: E(): 2.2e-31, 48.000% id in 200 aa
YP_040230.1	Similar to Bacillus halodurans hypothetical protein BH3627 TR:Q9K6U8 (EMBL:AP001519) (283 aa) fasta scores: E(): 3e-35, 38.869% id in 283 aa, and to Bacillus subtilis hypothetical protein DegV SW:DEGV_BACSU (P32436) (281 aa) fasta scores: E(): 4.9e-33, 37.276% id in 279 aa
YP_040231.1	Similar to the C-terminal regions of Bacillus halodurans late competence protein ComFA TR:Q9K6U9 (EMBL:AP001519) (441 aa) fasta scores: E(): 5.6e-33, 34.835% id in 333 aa, and to Bacillus subtilis comF operon protein 1 ComFA SW:CMF1_BACSU (P39145) (463 aa) fasta scores: E(): 2.4e-31, 37.808% id in 365 aa. Similarity to the N-terminal region of the Bacillus subtilis comF operon protein 1 upstream of the predicted translational start. No alternative upstream translational start site. Possible truncated protein
YP_040232.1	Similar to Bacillus subtilis comF operon protein 3 ComFC SW:CMF3_BACSU (P39147) (229 aa) fasta scores: E(): 4e-09, 27.966% id in 236 aa, and to Lactococcus lactis competence protein ComFC TR:Q9CGK7 (EMBL:AE006341) (216 aa) fasta scores: E(): 7.3e-14, 33.624% id in 229 aa
YP_040233.1	Similar to Spinacia oleracea plastid-specific 30S ribosomal protein 1 S22 SW:RR30_SPIOL (P19954) (302 aa) fasta scores: E(): 2.2e-05, 29.064% id in 203 aa, and to Lactococcus lactis hypothetical protein TR:Q9L474 (EMBL:AJ249134) (185 aa) fasta scores: E(): 2.6e-34, 53.191% id in 188 aa
YP_040234.1	functions in protein export; can interact with acidic membrane phospholipids and the SecYEG protein complex; binds to preproteins; binds to ATP and undergoes a conformational change to promote membrane insertion of SecA/bound preprotein; ATP hydrolysis appears to drive release of the preprotein from SecA and deinsertion of SecA from the membrane; additional proteins SecD/F/YajC aid SecA recycling; exists in an equilibrium between monomers and dimers; may possibly form higher order oligomers; proteins in this cluster correspond SecA1; SecA2 is not essential and seems to play a role in secretion of a subset of proteins
YP_040235.1	recognizes the termination signals UGA and UAA during protein translation a specificity which is dependent on amino acid residues residing in loops of the L-shaped tRNA-like molecule of RF2; in some organisms control of PrfB protein levels is maintained through a +1 ribosomal frameshifting mechanism; this protein is similar to release factor 1
YP_040236.1	Poor database matches. C-terminal region is similar to C-terminus of Staphylococcus epidermidis secretory antigen precursor SsaA TR:Q9KJT6 (EMBL:AF162275) (257 aa) fasta scores: E(): 6.6e-16, 49.624% id in 133 aa. Full length CDS is similar to the C-terminus of Streptococcus agalactiae cell wall separation protein PcsB TR:Q9AKA4 (EMBL:AJ277292) (447 aa) fasta scores: E(): 4.8e-09, 30.515% id in 272 aa
YP_040237.1	Similar to Escherichia coli hypothetical protein B2291 TR:P76491 (EMBL:AE000318) (199 aa) fasta scores: E(): 1.2e-06, 24.468% id in 188 aa, and to Vibrio cholerae hypothetical protein VC1978 TR:Q9KQM0 (EMBL:AE004273) (233 aa) fasta scores: E(): 2.7e-06, 25.532% id in 188 aa
YP_040238.1	Poor database matches. Similar to Bacillus subtilis membrane protein CsbA SW:CSBA_BACSU (P37953) (76 aa) fasta scores: E(): 0.00017, 40.580% id in 69 aa
YP_040239.1	The UvrABC repair system catalyzes the recognition and processing of DNA lesions. The beta-hairpin of the Uvr-B subunit is inserted between the strands, where it probes for the presence of a lesion
YP_040240.1	The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrA is an ATPase and a DNA-binding protein. A damage recognition complex composed of 2 uvrA and 2 uvrB subunits scans DNA for abnormalities. When the presence of a lesion has been verified by uvrB, the uvrA molecules dissociate
YP_040241.1	catalyzes the phosphorylation of the phosphocarrier protein HPr of the bacterial phosphotransferase system
YP_040242.1	transfers the N-acyl diglyceride moiety to the prospective N-terminal cysteine in prolipoprotein
YP_040243.1	Similar to Escherichia coli maltose O-acetyltransferase Maa SW:MAA_ECOLI (P77791) (182 aa) fasta scores: E(): 6e-09, 35.185% id in 162 aa, and to Staphylococcus xylosus  acetyltransferase YvoF TR:Q9S1H3 (EMBL:AJ243915) (158 aa) fasta scores: E(): 3.8e-34, 59.236% id in 157 aa
YP_040244.1	Similar to Staphylococcus xylosus hypothetical protein YvcD TR:Q9S1H2 (EMBL:AJ243915) (478 aa) fasta scores: E(): 6.8e-124, 62.213% id in 479 aa, and to Bacillus subtilis hypothetical protein YvcD TR:O06968 (EMBL:Z94043) (484 aa) fasta scores: E(): 1.7e-13, 21.224% id in 490 aa
YP_040245.1	Similar to Streptomyces clavuligerus thioredoxin reductase TrxB SW:TRXB_STRCL (Q05741) (321 aa) fasta scores: E(): 1.7e-44, 45.928% id in 307 aa, and to Bacillus subtilis thioredoxin reductase TrxB SW:TRXB_BACSU (P80880) (315 aa) fasta scores: E(): 9.7e-81, 72.368% id in 304 aa
YP_040246.1	Similar to Bacillus subtilis hypothetical protein YvcJ SW:YVCJ_BACSU (O06973) (295 aa) fasta scores: E(): 2.5e-58, 52.862% id in 297 aa, and to Bacillus halodurans hypothetical protein BH3569 TR:Q9K705 (EMBL:AP001519) (295 aa) fasta scores: E(): 8.9e-56, 51.678% id in 298 aa
YP_040247.1	Similar to Bacillus halodurans hypothetical protein BH3568 TR:Q9K706 (EMBL:AP001519) (322 aa) fasta scores: E(): 9.1e-56, 50.955% id in 314 aa, and to Bacillus subtilis hypothetical protein YvcK SW:YVCK_BACSU (O06974) (317 aa) fasta scores: E(): 5.3e-55, 47.771% id in 314 aa
YP_040248.1	Similar to Bacillus subtilis hypothetical protein YvcL TR:O06975 (EMBL:Z94043) (316 aa) fasta scores: E(): 1.2e-68, 62.222% id in 315 aa, and to Bacillus halodurans hypothetical protein BH3567 protein bh3567 TR:Q9K707 (EMBL:AP001519) (320 aa) fasta scores: E(): 3.5e-67, 62.540% id in 315 aa
YP_040249.1	hydrolyzes proteins to small peptides; with the ATPase subunits ClpA or ClpX, ClpP degrades specific substrates
YP_040250.1	malic enzyme; oxaloacetate-decarboxylating; NAD-dependent; catalyzes the formation of pyruvate form malate
YP_040251.1	Similar to Bacillus subtilis hypothetical protein YfhF SW:YFHF_BACSU (O31574) (303 aa) fasta scores: E(): 1.4e-43, 40.878% id in 296 aa, and to Pseudomonas aeruginosa hypothetical protein PA4656 TR:Q9HVD6 (EMBL:AE004879) (305 aa) fasta scores: E(): 1e-35, 36.700% id in 297 aa
YP_040252.1	No significant database matches. CDS is Lys and Gln rich (17.7% and 15.3% of total amino acid content, respectively). Contains coiled-coiled domain, residues 58 to 87
YP_040253.1	Previously sequenced as Staphylococcus aureus glycolytic operon regulator GapR TR:Q9Z5C6 (EMBL:AJ133520) (337 aa) fasta scores: E(): 2.8e-118, 99.407% id in 337 aa. Similar to Bacillus megaterium central glycolytic genes regulator CggR SW:CGGR_BACME (P35168) (342 aa) fasta scores: E(): 6.4e-52, 47.024% id in 336 aa
YP_040254.1	Similar to Streptococcus pyogenes glyceraldehyde 3-phosphate dehydrogenase, and  human plasmin receptor, Plr SW:G3P_STRPY (P50467) (335 aa) fasta scores: E(): 4.4e-83, 68.060% id in 335 aa. Previously sequenced as Staphylococcus aureus glyceraldehyde-3-phosphate dehydrogenase Gap TR:Q9Z5C5 (EMBL:AJ133520) (336 aa) fasta scores: E(): 2.7e-122, 100.000% id in 336 aa
YP_040255.1	Converts 3-phospho-D-glycerate to 3-phospho-D-glyceroyl phosphate during the glycolysis pathway
YP_040256.1	Reversibly isomerizes the ketone sugar dihydroxyacetone phosphate to the aldehyde sugar glyceraldehyde-3-phosphate
YP_040257.1	catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate
YP_040258.1	enolase; catalyzes the formation of phosphoenolpyruvate from 2-phospho-D-glycerate in glycolysis
YP_040259.1	Poor database matches. Similar to an internal region of Helicobacter pylori J99 hypothetical protein JHP0324 TR:Q9ZM98 (EMBL:AE001468) (220 aa) fasta scores: E(): 0.72, 25.874% id in 143 aa
YP_040260.1	Similar to Escherichia coli protein-export membrane protein SecG SW:SECG_ECOLI (P33582) (110 aa) fasta scores: E(): 0.0082, 31.507% id in 73 aa, and to Bacillus subtilis probable protein-export membrane protein SecG SW:SECG_BACSU (O32233) (76 aa) fasta scores: E(): 1.1e-15, 66.667% id in 75 aa
YP_040261.1	Similar to Bacillus stearothermophilus carboxylesterase precursor Est SW:EST_BACST (Q06174) (247 aa) fasta scores: E(): 3.1e-53, 58.130% id in 246 aa, and to Bacillus halodurans carboxylesterase BH3554 TR:Q9K719 (EMBL:AP001519) (248 aa) fasta scores: E(): 6.8e-51, 56.048% id in 248 aa
YP_040262.1	Similar to Escherichia coli ribonuclease R Rnr SW:RNR_ECOLI (P21499) (813 aa) fasta scores: E(): 1.9e-79, 34.875% id in 800 aa, and to Bacillus subtilis ribonuclease R Rnr SW:RNR_BACSU (O32231) (779 aa) fasta scores: E(): 9.8e-148, 53.169% id in 773 aa. Rnr is required for expression of virulence in Shigella and enteroinvasive Escherichia coli
YP_040263.1	binds to ssrA RNA (tmRNA) and is required for its successful binding to ribosomes; also appears to function in the trans-translation step by promoting accommodation of tmRNA into the ribosomal A site; SmpB protects the tmRNA from RNase R degradation in Caulobacter crescentus; both the tmRNA and SmpB are regulated in cell cycle-dependent manner; functions in release of stalled ribosomes from damaged mRNAs and targeting proteins for degradation
YP_040264.1	Poor database matches. Similar to Lactococcus lactis plasmid pCD4 hypothetical protein Orf1 TR:Q9AC96 (EMBL:AF306799) (193 aa) fasta scores: E(): 3.3e-09, 27.895% id in 190 aa, and to Methanococcus jannaschii hypothetical protein MJ0793 SW:Y793_METJA (Q58203) (178 aa) fasta scores: E(): 0.014, 26.203% id in 187 aa
YP_040265.1	Poor database matches. N-terminus is similar to N-terminal region of Bacillus subtilis  lipoprotein YjhA TR:O34725 (EMBL:AF015825) (213 aa) fasta scores: E(): 0.55, 32.639% id in 144 aa. CDS contains a C-terminal hydrophilic domain
YP_040266.1	No significant database matches to the full length CDS. N-terminus is similar to N-terminal region of Helicobacter pylori J99 hypothetical protein JHP0535 TR:Q9ZLP3 (EMBL:AE001486) (329 aa) fasta scores: E(): 6.2, 25.926% id in 135 aa
YP_040267.1	Similar to Lactococcus lactis hypothetical protein YafC TR:Q9CJE1 (EMBL:AE006244) (173 aa) fasta scores: E(): 7.7e-27, 47.399% id in 173 aa, and to Pseudomonas aeruginosa hypothetical protein PA0711 TR:Q9I5L7 (EMBL:AE004506) (168 aa) fasta scores: E(): 1e-07, 31.250% id in 176 aa
YP_040268.1	Previously sequenced as Staphylococcus aureus clumping factor ClfA TR:Q53653 (EMBL:Z18852) (933 aa) fasta scores: E(): 2.3e-215, 86.297% id in 1029 aa. Similar to the C-terminal region of Staphylococcus epidermidis  cell-surface adhesin SdrF TR:Q9KI14 (EMBL:AF245041) (1733 aa) fasta scores: E(): 1.5e-94, 46.230% id in 1008 aa. Contains an inperfect dipetide repeat (SD x181), residues 599 to 960. CDS contains extra copies of the dipeptide repeat compared to the previously sequenced clumping factor ClfA. Probable LPXTG-sorted surface protein
YP_040269.1	Poor database matches. Similar to Staphylococcus aureus extracellular matrix and plasma binding protein precursor Ssp TR:Q9L3L5 (EMBL:AJ272084) (340 aa) fasta scores: E(): 1.6e-106, 86.550% id in 342 aa
YP_040270.1	Poor database matches. Similar to C-terminal region of Staphylococcus aureus secreted von Willebrand factor-binding protein precursor Vwb TR:AAK52333 (EMBL:AY032850) (508 aa) fasta scores: E(): 6e-15, 38.889% id in 162 aa. N-terminus is similar to the N-terminal region of Staphylococcus aureus extracellular matrix and plasma binding protein precursor Ssp TR:Q9K2Q1 (EMBL:AJ272083) (340 aa) fasta scores: E(): 1.2, 36.000% id in 100 aa
YP_040271.1	Similar to Staphylococcus aureus thermonuclease precursor Nuc SW:NUC_STAAU (P00644) (231 aa) fasta scores: E(): 4.9e-80, 98.246% id in 228 aa. C-terminal region is similar to Bacillus subtilis hypothetical protein YncB TR:P94492 (EMBL:U66480) (211 aa) fasta scores: E(): 1e-22, 45.745% id in 188 aa
YP_040272.1	Similar to Bacillus cereus cold shock-like protein CspC SW:CSPC_BACCE (Q45098) (65 aa) fasta scores: E(): 3.2e-20, 85.714% id in 63 aa, and to Bacillus subtilis cold shock protein CspC SW:CSPC_BACSU (P39158) (66 aa) fasta scores: E(): 2.8e-18, 76.923% id in 65 aa. Similar to SAR1414, 80.303% identity (80.303% ungapped) in 66 aa overlap, and to SAR2790, 80.952% identity (80.952% ungapped) in 63 aa overlap
YP_040274.1	Poor database matches. Similar to N-terminal region of Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf121 TR:Q9B0H0 (EMBL:AB045978) (121 aa) fasta scores: E(): 3.6e-06, 32.258% id in 93 aa
YP_040275.1	Poor database matches. N-terminus is similar to N-terminal region of Bacillus thuringiensis hypothetical protein SW:YGI2_BACTU (P10023) (270 aa) fasta scores: E(): 9.1e-11, 33.125% id in 160 aa
YP_040276.1	Poor database matches. Similar to an internal region of Corynebacterium glutamicum lincomycin resistance protein LmrB TR:Q9L6D2 (EMBL:AF237667) (481 aa) fasta scores: E(): 1.7, 38.095% id in 63 aa. Doubtful CDS
YP_040277.1	Poor database matches. Weakly similar to Sulfolobus solfataricus hypothetical protein SSO0816 TR:Q9UXK1 (EMBL:Y18930) (110 aa) fasta scores: E(): 2, 24.138% id in 87 aa
YP_040278.1	Poor database matches. N-terminus is similar to N-terminal region of Streptococcus pyogenes hypothetical protein SPY0467 TR:Q9A148 (EMBL:AE006506) (71 aa) fasta scores: E(): 3.7, 33.333% id in 45 aa
YP_040280.1	Similar to an internal region of Salmonella typhimurium alpha-ribazole-5'-phosphate phosphatase CobC SW:COBC_SALTY (P39701) (234 aa) fasta scores: E(): 0.00019, 28.402% id in 169 aa, and to Thermotoga maritima phosphoglycerate mutase TM1374 TR:Q9X194 (EMBL:AE001791) (201 aa) fasta scores: E(): 3e-07, 29.949% id in 197 aa
YP_040281.1	Similar to Bacillus halodurans hypothetical protein BH0431 TR:Q9KFP7 (EMBL:AP001508) (200 aa) fasta scores: E(): 1.7e-29, 43.939% id in 198 aa, and to Escherichia coli hypothetical protein YggA SW:YGGA_ECOLI (P11667) (211 aa) fasta scores: E(): 2.3e-13, 32.394% id in 213 aa. Similar to SAR2591, 63.415% identity (63.415% ungapped) in 205 aa overlap
YP_040282.1	Poor database matches. Similar to bacteriophage bIL311 hypothetical protein Orf17 TR:Q9AZG4 (EMBL:AF323672) (168 aa) fasta scores: E(): 9.2e-06, 26.380% id in 163 aa
YP_040284.1	Similar to Xanthomonas campestris organic hydroperoxide resistance protein Ohr SW:OHR_XANCH (O68390) (142 aa) fasta scores: E(): 1e-11, 35.507% id in 138 aa, and to Bacillus subtilis general stress protein YkzA SW:G17O_BACSU (P80242) (135 aa) fasta scores: E(): 2.3e-17, 43.284% id in 134 aa
YP_040285.1	catalyzes the dehydration of 3-dehydroquinate to form 3-dehydroshikimate in aromatic amino acid biosynthesis
YP_040286.1	Similar to Bacillus halodurans hypothetical protein BH0303 TR:Q9KG12 (EMBL:AP001508) (184 aa) fasta scores: E(): 2.6e-18, 34.637% id in 179 aa, and to Bacillus subtilis hypothetical protein YfhC TR:O31571 (EMBL:Z99108) (194 aa) fasta scores: E(): 2.7e-14, 31.034% id in 174 aa
YP_040287.1	Similar to Saccharomyces cerevisiae thioredoxin II TRX2 SW:TRX2_YEAST (P22217) (102 aa) fasta scores: E(): 4.2e-09, 39.130% id in 92 aa, and to Bacillus subtilis probable thioredoxin YdbP TR:P96611 (EMBL:AB001488) (106 aa) fasta scores: E(): 9.9e-23, 57.282% id in 103 aa
YP_040288.1	Similar to Bacillus halodurans  arsenate reductase BH3485 TR:Q9K785 (EMBL:AP001518) (119 aa) fasta scores: E(): 2.1e-21, 51.304% id in 115 aa, and to Bacillus subtilis hypothetical protein YusI SW:YUSI_BACSU (O32175) (118 aa) fasta scores: E(): 2.4e-21, 51.304% id in 115 aa
YP_040289.1	part of multienzyme complex composed of H, L, P, and T proteins which catalyzes oxidation of glycine to yield carbon dioxide, ammonia, 5,10-CH2-H4folate and a reduced pyridine nucleotide; protein H is involved in transfer of methylamine group from the P to T protein; covalently bound to a lipoyl cofactor
YP_040290.1	C-terminus is similar to C-terminal regions of Bacillus subtilis hypothetical protein YwqG TR:P96719 (EMBL:Z92952) (261 aa) fasta scores: E(): 4.1e-07, 31.405% id in 242 aa, and Clostridium acetobutylicum hypothetical protein CAC0820 TR:AAK78796 (EMBL:AE007597) (249 aa) fasta scores: E(): 0.00095, 30.769% id in 247 aa
YP_040291.1	Poor database matches. Similar to Bacillus subtilis hypothetical protein YusF TR:O32172 (EMBL:Z99120) (146 aa) fasta scores: E(): 2.4e-14, 42.574% id in 101 aa, and to Vibrio cholerae toxin-coregulated pilus biosynthesis protein H TcpH TR:Q9AGW7 (EMBL:AF325734) (136 aa) fasta scores: E(): 3.4, 25.253% id in 99 aa. CDS is truncated at the N-terminus in comparison to the Bacillus subtilis protein
YP_040292.1	Similar to Mycobacterium tuberculosis thioredoxin TrxA SW:THIO_MYCTU (P52229) (115 aa) fasta scores: E(): 0.029, 30.556% id in 72 aa, and to Bacillus subtilis hypothetical protein YusE TR:O32171 (EMBL:Z99120) (106 aa) fasta scores: E(): 2.1e-08, 41.176% id in 85 aa. Lack of similarity at the N-terminus in comparison to Mycobacterium tuberculosis thioredoxin
YP_040293.1	Similar to Bacillus halodurans ABC transporter ATP-binding protein BH3481 TR:Q9K789 (EMBL:AP001518) (338 aa) fasta scores: E(): 3.2e-62, 54.734% id in 338 aa, and to Bacillus subtilis hypothetical protein YusC TR:O32169 (EMBL:Z99120) (341 aa) fasta scores: E(): 1.3e-61, 53.824% id in 340 aa
YP_040294.1	Similar to Bacillus subtilis hypothetical protein YusB TR:O32168 (EMBL:Z99120) (222 aa) fasta scores: E(): 5.4e-46, 64.352% id in 216 aa, and to Bacillus halodurans hypothetical protein BH3480 TR:Q9K790 (EMBL:AP001518) (218 aa) fasta scores: E(): 1.2e-41, 59.447% id in 217 aa
YP_040295.1	Similar to Bacillus subtilis hypothetical protein YusA TR:O32167 (EMBL:Z99120) (274 aa) fasta scores: E(): 2.5e-48, 55.839% id in 274 aa, and to Campylobacter jejuni periplasmic protein CJ0772C TR:Q9PPE7 (EMBL:AL139076) (257 aa) fasta scores: E(): 2e-37, 50.207% id in 241 aa
YP_040296.1	Similar to Bacillus subtilis sigmaB regulated hypothetical protein CsbD SW:CSBD_BACSU (P70964) (62 aa) fasta scores: E(): 0.0038, 42.553% id in 47 aa, and to Streptococcus pyogenes hypothetical protein SPY1261 TR:Q99ZE6 (EMBL:AE006565) (66 aa) fasta scores: E(): 0.00068, 44.776% id in 67 aa. Similar to SAR1705, 79.661% identity (79.661% ungapped) in 59 aa overlap
YP_040297.1	Similar to an internal region of Staphylococcus carnosus PTS system, glucose-specific IIABC component GlcB TR:Q53922 (EMBL:X93360) (692 aa) fasta scores: E(): 0.74, 25.163% id in 306 aa, and to Bacillus halodurans BH2069 TR:Q9KB62 (EMBL:AP001514) (278 aa) fasta scores: E(): 9.6e-35, 44.528% id in 265 aa
YP_040298.1	Similar to Bacillus subtilis hypothetical protein YurI SW:V296_BACSU (P80866) (260 aa) fasta scores: E(): 3.5e-65, 80.321% id in 249 aa, and to Cyanophora paradoxa probable ATP-dependent transporter Ycf16 SW:ABCX_CYAPA (P48255) (259 aa) fasta scores: E(): 6.5e-44, 56.327% id in 245 aa
YP_040299.1	Similar to Bacillus subtilis hypothetical protein YurX TR:O32165 (EMBL:Z99120) (437 aa) fasta scores: E(): 7.8e-89, 56.977% id in 430 aa, and to Bacillus halodurans hypothetical protein BH3470 TR:Q9K799 (EMBL:AP001518) (435 aa) fasta scores: E(): 4.3e-83, 53.613% id in 429 aa
YP_040300.1	Similar to Escherichia coli selenocysteine lyase CsdB SW:CSDB_ECOLI (P77444) (406 aa) fasta scores: E(): 4.9e-73, 48.148% id in 405 aa, and to Bacillus halodurans probable cysteine desulfurase Csd SW:CSD_BACHD (Q9K7A0) (406 aa) fasta scores: E(): 2.8e-108, 66.585% id in 407 aa
YP_040301.1	Similar to Bacillus subtilis NifU-like protein NifU SW:NIFU_BACSU (O32163) (147 aa) fasta scores: E(): 3.5e-37, 70.548% id in 146 aa, and to Bacillus halodurans nitrogen fixation protein BH3468 TR:Q9K7A1 (EMBL:AP001518) (146 aa) fasta scores: E(): 1.3e-34, 64.626% id in 147 aa
YP_040302.1	Similar to Bacillus subtilis hypothetical protein YurU TR:O32162 (EMBL:Z99120) (465 aa) fasta scores: E(): 1.2e-157, 84.516% id in 465 aa, and to Bacillus halodurans hypothetical protein BH3467 TR:Q9K7A2 (EMBL:AP001518) (465 aa) fasta scores: E(): 2.5e-154, 82.366% id in 465 aa
YP_040304.1	Similar to the N-terminal regions of Vibrio cholerae  hemolysin VC0558 TR:Q9KUG3 (EMBL:AE004141) (426 aa) fasta scores: E(): 7.1e-26, 28.446% id in 341 aa, and Thermotoga maritima hemolysin-related protein TM0845 TR:Q9WZU9 (EMBL:AE001751) (455 aa) fasta scores: E(): 7.9e-27, 34.024% id in 338 aa
YP_040305.1	Similar to Williopsis mrakii 2-nitropropane dioxygenase SW:2NPD_WILMR (Q12723) (374 aa) fasta scores: E(): 2e-13, 30.240% id in 334 aa, and to Bacillus halodurans hypothetical protein BH1205 TR:Q9KDK7 (EMBL:AP001511) (365 aa) fasta scores: E(): 1.7e-46, 44.857% id in 350 aa
YP_040306.1	Similar to Bacillus subtilis hypothetical protein YunF TR:O32135 (EMBL:Z99120) (284 aa) fasta scores: E(): 9.7e-60, 53.004% id in 283 aa, and to Bacillus halodurans hypothetical protein BH3455 TR:Q9K7B1 (EMBL:AP001518) (282 aa) fasta scores: E(): 2.6e-56, 50.177% id in 283 aa
YP_040307.1	Similar to Bacillus subtilis hypothetical protein YunE TR:O32134 (EMBL:Z99120) (273 aa) fasta scores: E(): 7.3e-42, 41.544% id in 272 aa, and to Bacillus halodurans hypothetical protein BH3454 TR:Q9K7B2 (EMBL:AP001518) (273 aa) fasta scores: E(): 1.9e-41, 43.939% id in 264 aa
YP_040308.1	N-terminus is similar to the N-terminal region of Boophilus microplus 5'-nucleotidase precursor protein SW:5NTD_BOOMI (P52307) (580 aa) fasta scores: E(): 2.8e-05, 22.302% id in 417 aa. Full length CDS is similar to Lactococcus lactis hypothetical protein YbiB TR:Q9CJ29 (EMBL:AE006255) (447 aa) fasta scores: E(): 2.6e-50, 36.585% id in 451 aa
YP_040309.1	catalyzes the radical-mediated insertion of two sulfur atoms into an acyl carrier protein (ACP) bound to an octanoyl group to produce a lipoyl group
YP_040310.1	N-terminus is similar to Bacillus halodurans hypothetical protein BH3433 TR:Q9K7D1 (EMBL:AP001518) (93 aa) fasta scores: E(): 4.5e-19, 53.261% id in 92 aa, and to Bacillus subtilis hypothetical protein YutD TR:O32127 (EMBL:Z99120) (102 aa) fasta scores: E(): 1.4e-18, 58.242% id in 91 aa
YP_040311.1	Poor database matches. Similar to Bacillus halodurans hypothetical protein BH3432 TR:Q9K7D2 (EMBL:AP001518) (88 aa) fasta scores: E(): 4.3e-15, 50.602% id in 83 aa
YP_040312.1	Similar to Bacillus halodurans hypothetical protein BH3430 TR:Q9K7D4 (EMBL:AP001518) (151 aa) fasta scores: E(): 6.2e-15, 37.762% id in 143 aa, and to Bacillus subtilis hypothetical protein YutE TR:O32126 (EMBL:Z99120) (144 aa) fasta scores: E(): 7.4e-11, 33.566% id in 143 aa
YP_040313.1	Similar to Bacillus subtilis hypothetical protein YutF TR:O32125 (EMBL:Z99120) (256 aa) fasta scores: E(): 2.4e-45, 53.543% id in 254 aa, and to Streptococcus pyogenes hypothetical protein SPY1043 TR:Q99ZW4 (EMBL:AE006549) (254 aa) fasta scores: E(): 3e-38, 48.000% id in 250 aa
YP_040314.1	Similar to Bacillus halodurans glycerate dehydrogenase BH3314 TR:Q9K7P7 (EMBL:AP001518) (324 aa) fasta scores: E(): 4.6e-52, 45.066% id in 304 aa, and to Pyrococcus abyssi  glycerate dehydrogenase PAB2374 TR:Q9UYR1 (EMBL:AJ248287) (335 aa) fasta scores: E(): 5e-49, 41.745% id in 321 aa
YP_040316.1	transfers D-alanine to the D-alanyl carrier protein during the incorporation of D-alanine into lipoteichoic acid
YP_040317.1	Similar to Bacillus subtilis  activated D-alanine transport protein DltB SW:DLTB_BACSU (P39580) (395 aa) fasta scores: E(): 3.1e-68, 52.334% id in 407 aa. Previously sequenced as Staphylococcus aureus hypothetical membrane transporter DltB TR:Q53662 (EMBL:D86240) (404 aa) fasta scores: E(): 1e-158, 100.000% id in 404 aa
YP_040318.1	D-alanyl carrier protein subunit; involved in the incorporation of D-alanine into membrane-associated D-alanyl-lipoteichoic acid; D-alanyl carrier protein is the acceptor of activated D-alanine which it donates to a membrane acceptor(D-alanyl transferase) for incorporation into membrane lipoteichoic acid
YP_040319.1	Similar to Bacillus subtilis lipoteichoic acid biosynthesis protein DltD SW:DLTD_BACSU (P39578) (392 aa) fasta scores: E(): 1.2e-40, 32.216% id in 388 aa. Previously sequenced as Staphylococcus aureus  exoprotein DltD TR:Q9S674 (EMBL:AF101234) (391 aa) fasta scores: E(): 3.5e-147, 100.000% id in 391 aa
YP_040320.1	Similar to Bacillus halodurans  nitrogen fixation protein BH3419 TR:Q9K7E5 (EMBL:AP001518) (79 aa) fasta scores: E(): 1.1e-20, 77.333% id in 75 aa, and to Synechocystis sp hypothetical protein SSL2667 TR:P74558 (EMBL:D90916) (76 aa) fasta scores: E(): 1.6e-12, 51.389% id in 72 aa
YP_040321.1	Similar to Bacillus subtilis hypothetical protein YuzD TR:O32118 (EMBL:Z99120) (108 aa) fasta scores: E(): 1.9e-14, 43.925% id in 107 aa, and to Bacillus halodurans hypothetical protein BH3416 TR:Q9K7E6 (EMBL:AP001518) (101 aa) fasta scores: E(): 1.3e-10, 37.755% id in 98 aa
YP_040322.1	Similar to Bacillus subtilis YutJ TR:O32117 (EMBL:Z99120) (330 aa) fasta scores: E(): 6.1e-70, 54.799% id in 323 aa, and to Sulfolobus solfataricus  NADH oxidase SSO3148 TR:AAK43249 (EMBL:AE006905) (350 aa) fasta scores: E(): 3.2e-12, 26.087% id in 345 aa
YP_040323.1	Similar to Bacillus subtilis hypothetical protein YuzB TR:O32116 (EMBL:Z99120) (78 aa) fasta scores: E(): 1.5e-16, 53.846% id in 78 aa, and to Bacillus halodurans hypothetical protein BH3414 TR:Q9K7E8 (EMBL:AP001518) (78 aa) fasta scores: E(): 1.8e-15, 50.000% id in 78 aa
YP_040324.1	Similar to Bacillus subtilis hypothetical protein YutM SW:YUTM_BACSU (O32113) (120 aa) fasta scores: E(): 5.7e-26, 59.483% id in 116 aa, and to Bacillus halodurans hypothetical protein BH3410 TR:Q9K7F2 (EMBL:AP001518) (117 aa) fasta scores: E(): 1.1e-21, 52.137% id in 117 aa
YP_040325.1	Similar to Bacillus subtilis hypothetical protein YumB TR:O05267 (EMBL:Z93939) (406 aa) fasta scores: E(): 1.5e-77, 52.723% id in 404 aa, and to Bacillus halodurans NADH dehydrogenase BH3407 TR:Q9K7F4 (EMBL:AP001518) (400 aa) fasta scores: E(): 1.7e-65, 47.750% id in 400 aa
YP_040326.1	Similar to Pseudomonas aeruginosa  cytosol aminopeptidase PepA SW:AMPA_PSEAE (O68822) (495 aa) fasta scores: E(): 3.9e-46, 36.504% id in 452 aa, and to Bacillus subtilis probable cytosol aminopeptidase pepA SW:AMPA_BACSU (O32106) (500 aa) fasta scores: E(): 8e-51, 35.185% id in 486 aa
YP_040327.1	Similar to Escherichia coli high-affinity gluconate transporter GntT SW:GNTT_ECOLI (P39835) (437 aa) fasta scores: E(): 1.3e-05, 20.844% id in 403 aa, and to Bacillus halodurans hypothetical protein BH3359 TR:Q9K7K2 (EMBL:AP001518) (440 aa) fasta scores: E(): 2.3e-78, 49.091% id in 440 aa
YP_040328.1	Similar to Bacillus subtilis hypothetical protein YuxO TR:Q9FAE9 (EMBL:AB039951) (127 aa) fasta scores: E(): 2.8e-16, 47.863% id in 117 aa, and to C-terminal region of Pseudomonas aeruginosa hypothetical protein PA1618 SW:YG18_PSEAE (Q9I3A4) (145 aa) fasta scores: E(): 3.2e-16, 44.444% id in 108 aa
YP_040329.1	Poor database matches. N-terminus is similar to the N-terminal regions of Bacillus subtilis hypothetical protein YrdP TR:O07085 (EMBL:U93876) (345 aa) fasta scores: E(): 5, 22.508% id in 311 aa, and Mycobacterium tuberculosis  monooxygenase Rv1393c TR:P71662 (EMBL:Z80108) (492 aa) fasta scores: E(): 8, 22.843% id in 197 aa
YP_040330.1	subunit G of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali
YP_040331.1	subunit F of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali
YP_040332.1	subunit E of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali
YP_040333.1	subunit D of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali; contains an oxidoreductase domain; catalyzes the transfer of electrons from NADH to ubiquinone
YP_040334.1	subunit C of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali
YP_040335.1	subunit B of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali; in the case of S. meliloti it was proved to be involved specifically with K+ transport
YP_040336.1	subunit A of antiporter complex involved in resistance to high concentrations of Na+, K+, Li+ and/or alkali
YP_040337.1	Poor database matches. Similar to Bacillus subtilis kinase-associated protein B KapB SW:KAPB_BACSU (Q08429) (128 aa) fasta scores: E(): 3.2e-08, 36.036% id in 111 aa. Previously sequenced as Staphylococcus aureus hypothetical protein OrfA TR:Q9ZNG7 (EMBL:AB015981) (127 aa) fasta scores: E(): 7.5e-45, 99.213% id in 127 aa
YP_040338.1	Similar to Caenorhabditis elegans  cyclophilin isoform 10, peptidyl-prolyl cis-trans isomerase 10, CYP-10 SW:CYPA_CAEEL (P52017) (147 aa) fasta scores: E(): 8.2e-17, 42.105% id in 171 aa, and to Lactococcus lactis peptidyl-prolyl cis-trans isomerase PpiB TR:Q9CH46 (EMBL:AE006323) (196 aa) fasta scores: E(): 7.7e-43, 60.204% id in 196 aa
YP_040339.1	Similar to Bacillus subtilis general stress protein 13 YugI SW:GS13_BACSU (P80870) (129 aa) fasta scores: E(): 2.7e-09, 35.000% id in 120 aa, and to Bacillus halodurans polyribonucleotide nucleotidyltransferase BH3347 TR:Q9K7L4 (EMBL:AP001518) (138 aa) fasta scores: E(): 1.3e-09, 36.364% id in 132 aa
YP_040340.1	Similar to the N-terminal region of Thermoanaerobacter brockii NADH oxidase SW:NADO_THEBR (P32382) (651 aa) fasta scores: E(): 2.2e-25, 32.670% id in 352 aa, and to Bacillus subtilis probable NADH-dependent flavin oxidoreductase YqiG SW:YQIG_BACSU (P54524) (372 aa) fasta scores: E(): 3.3e-62, 47.354% id in 378 aa
YP_040341.1	Similar to Bacillus subtilis ornithine aminotransferase RocD SW:OAT_BACSU (P38021) (401 aa) fasta scores: E(): 3.6e-115, 73.990% id in 396 aa, and to Bacillus halodurans  ornithine aminotransferase RocD TR:Q9K5Z2 (EMBL:AP001520) (400 aa) fasta scores: E(): 2.4e-109, 71.646% id in 395 aa. Similar to SAR0186, 57.179% identity (57.179% ungapped) in 390 aa overlap
YP_040342.1	Similar to Bacillus subtilis NAD-specific glutamate dehydrogenase RocG SW:DHE2_BACSU (P39633) (424 aa) fasta scores: E(): 6.7e-124, 73.479% id in 411 aa, and to Bacillus halodurans  glutamate dehydrogenase BH1622 TR:Q9KCE9 (EMBL:AP001512) (421 aa) fasta scores: E(): 1.2e-126, 75.669% id in 411 aa
YP_040343.1	Similar to Bacillus subtilis glycerophosphoryl diester phosphodiesterase GlpQ SW:GLPQ_BACSU (P37965) (293 aa) fasta scores: E(): 6.5e-52, 54.023% id in 261 aa, and to Bacillus halodurans  glycerophosphoryl diester phosphodiesterase GlpQ TR:Q9K6M8 (EMBL:AP001519) (284 aa) fasta scores: E(): 1.8e-19, 39.041% id in 292 aa
YP_040344.1	catalyzes the formation of arginine from (N-L-arginino)succinate
YP_040345.1	catalyzes the formation of 2-N(omega)-(L-arginino)succinate from L-citrulline and L-aspartate in arginine biosynthesis, AMP-forming
YP_040346.1	functions in sugar metabolism in glycolysis and the Embden-Meyerhof pathways (EMP) and in gluconeogenesis; catalyzes reversible isomerization of glucose-6-phosphate to fructose-6-phosphate; member of PGI family
YP_040347.1	Similar to Bacillus subtilis hypothetical protein YhjE TR:O07559 (EMBL:Y14081) (207 aa) fasta scores: E(): 9e-22, 33.161% id in 193 aa, and to Staphylococcus carnosus hypothetical protein TR:Q9ZG07 (EMBL:AF089862) (225 aa) fasta scores: E(): 2.5e-31, 41.398% id in 186 aa. CDS is truncated at the N-terminus in comparison to other orthologues
YP_040348.1	Similar to Bacillus subtilis signal peptidase I SipS SW:LEPS_BACSU (P28628) (184 aa) fasta scores: E(): 1.9e-12, 28.655% id in 171 aa. Previously sequenced as Staphylococcus aureus inactive signal peptidase Ia SpsA SW:LEPH_STAAU (P72364) (174 aa) fasta scores: E(): 2.5e-64, 98.851% id in 174 aa. The Staphylococcus aureus signal peptidase I is thought to be inactive as it lacks essential catalytic residues
YP_040349.1	Previously sequenced as Staphylococcus aureus signal peptidase Ib SpsB SW:LEP_STAAU (P72365) (191 aa) fasta scores: E(): 6.3e-72, 98.953% id in 191 aa. Similar to Staphylococcus carnosus type-I signal peptidase SipB TR:Q9ZG05 (EMBL:AF089862) (189 aa) fasta scores: E(): 6.8e-51, 70.588% id in 187 aa
YP_040350.1	Similar to Bacillus subtilis ATP-dependent nuclease subunit B AddB SW:ADDB_BACSU (P23477) (1166 aa) fasta scores: E(): 2.5e-21, 31.014% id in 1164 aa, and to Lactococcus lactis subunit B of ATP-dependent exonuclease RexB TR:Q9CJJ0 (EMBL:AE006239) (1099 aa) fasta scores: E(): 1e-15, 21.303% id in 1136 aa
YP_040351.1	Similar to Bacillus subtilis ATP-dependent nuclease subunit A AddA SW:ADDA_BACSU (P23478) (1232 aa) fasta scores: E(): 2.3e-94, 37.070% id in 1249 aa, and to Lactococcus lactis subunit A of ATP-dependent exonuclease RexA TR:Q9CJI9 (EMBL:AE006239) (1203 aa) fasta scores: E(): 1e-72, 29.841% id in 1260 aa
YP_040352.1	Similar to Bacillus subtilis hypothetical protein YisK TR:O06724 (EMBL:Y09476) (301 aa) fasta scores: E(): 4e-39, 40.924% id in 303 aa, and to Bacillus halodurans 2-hydroxyhepta-2,4-diene-1,7-dioate isomerase BH2000 TR:Q9KBC8 (EMBL:AP001514) (319 aa) fasta scores: E(): 1.5e-29, 34.936% id in 312 aa
YP_040353.1	Similar to Bacillus subtilis hypothetical protein YisL TR:O06725 (EMBL:Y09476) (118 aa) fasta scores: E(): 4.4e-09, 34.711% id in 121 aa, and to Bacillus halodurans hypothetical protein BH2983 TR:Q9K8M3 (EMBL:AP001517) (124 aa) fasta scores: E(): 0.0033, 27.193% id in 114 aa
YP_040354.1	Similar to Staphylococcus aureus prophage phiPV83 transposase TR:Q9MBP7 (EMBL:AB044554) (548 aa) fasta scores: E(): 5e-197, 98.540% id in 548 aa, and to Bacillus halodurans cassette chromosome recombinase B1 BH0682 TR:Q9KF15 (EMBL:AP001509) (522 aa) fasta scores: E(): 2.3e-97, 51.346% id in 520 aa
YP_040355.1	NADPH-dependent; catalyzes the reduction of coenzyme A disulfide
YP_040356.1	Similar to Bacillus subtilis hypothetical protein YitU TR:P70947 (EMBL:Z79580) (270 aa) fasta scores: E(): 1.1e-48, 47.191% id in 267 aa, and to Bacillus halodurans BH2906 TR:Q9K8U6 (EMBL:AP001517) (269 aa) fasta scores: E(): 8.2e-48, 49.064% id in 267 aa
YP_040357.1	Similar to Bacillus subtilis hypothetical protein YitW TR:P70949 (EMBL:Z79580) (102 aa) fasta scores: E(): 1.1e-27, 68.317% id in 101 aa, and to Bacillus halodurans hypothetical protein BH2173 TR:Q9KAW3 (EMBL:AP001514) (111 aa) fasta scores: E(): 2.7e-21, 66.000% id in 100 aa
YP_040358.1	No significant database matches. Doubtful CDS
YP_040359.1	Similar to Bacillus subtilis hypothetical protein YrhL TR:O05402 (EMBL:U93874) (634 aa) fasta scores: E(): 8.8e-52, 38.328% id in 634 aa, and to Lactococcus lactis hypothetical protein YvhB TR:Q9CDV4 (EMBL:AE006439) (605 aa) fasta scores: E(): 5.4e-42, 33.223% id in 605 aa. Simililar to SAR2649, 57.475% identity (58.545% ungapped) in 602 aa overlap
YP_040360.1	Similar to Escherichia coli ATPase subunit of an ATP-dependent protease, and heat shock protein, ClpB SW:CLPB_ECOLI (P03815) (857 aa) fasta scores: E(): 1.5e-128, 52.723% id in 863 aa, and to Lactococcus lactis ClpB homologue TR:Q9CFF3 (EMBL:AE006383) (867 aa) fasta scores: E(): 2.4e-156, 60.596% id in 873 aa. Contains coiled-coiled domain, residues 440 to 485
YP_040361.1	N-terminus is similar the N-terminal region of Bacillus subtilis citrate synthase I repressor CitR SW:CITR_BACSU (P39127) (308 aa) fasta scores: E(): 1.9e-15, 26.016% id in 246 aa. Full length CDS is similar to Bacillus subtilis hypothetical transcriptional regulator YxjO SW:YXJO_BACSU (P55181) (291 aa) fasta scores: E(): 2.2e-27, 29.010% id in 293 aa
YP_040362.1	Similar to the N-terminal regions of Lactococcus lactis 2-isopropylmalate synthase LeuA SW:LEU1_LACLA (Q02141) (513 aa) fasta scores: E(): 2.2e-29, 33.777% id in 376 aa, and Bacillus subtilis 2-isopropylmalate synthase LeuA SW:LEU1_BACSU (P94565) (518 aa) fasta scores: E(): 2.6e-28, 33.422% id in 377 aa
YP_040363.1	Similar to the N-terminal regions of Archaeoglobus fulgidus conserved hypothetical protein AF0781 TR:O29477 (EMBL:AE001051) (309 aa) fasta scores: E(): 8.5e-10, 25.962% id in 208 aa, and Pyrococcus horikoshii hypothetical protein PH0435 TR:O73972 (EMBL:AP000002) (340 aa) fasta scores: E(): 4.5e-09, 32.812% id in 192 aa
YP_040364.1	Poor database matches. Similar to Helicobacter pylori hypothetical protein TR:Q9F7U3 (EMBL:AF275307) (387 aa) fasta scores: E(): 0.078, 25.575% id in 348 aa
YP_040365.1	Similar to Bacillus subtilis hypothetical protein YxkA TR:P94355 (EMBL:D83026) (168 aa) fasta scores: E(): 4.5e-26, 46.875% id in 160 aa, and to Pasteurella multocida hypothetical protein PM1470 TR:Q9CKY1 (EMBL:AE006183) (170 aa) fasta scores: E(): 2e-17, 44.286% id in 140 aa
YP_040366.1	Poor database matches. Similar to N-terminal region of Staphylococcus aureus MHC class II analogue TR:Q53599 (EMBL:U20503) (689 aa) fasta scores: E(): 9.7e-11, 45.946% id in 148 aa
YP_040367.1	Poor database matches. Similar to Bacillus subtilis YjzD TR:O34713 (EMBL:Z99109) (61 aa) fasta scores: E(): 0.3, 22.951% id in 61 aa
YP_040368.1	FabH; beta-ketoacyl-acyl carrier protein synthase III; catalyzes the condensation of acetyl-CoA with malonyl-ACP to initiate cycles of fatty acid elongation; differs from 3-oxoacyl-(acyl carrier protein) synthase I and II in that it utilizes CoA thioesters as primers rather than acyl-ACPs
YP_040369.1	Similar to Vibrio harveyi 3-oxoacyl-[acyl-carrier-protein] synthase II FabF SW:FABF_VIBHA (P55338) (414 aa) fasta scores: E(): 4.9e-78, 52.206% id in 408 aa, and to Bacillus subtilis hypothetical protein YjaY TR:O34340 (EMBL:Z99109) (413 aa) fasta scores: E(): 4.7e-106, 67.971% id in 409 aa
YP_040370.1	No significant database matches. Doubtful CDS
YP_040371.1	Similar to Bacillus subtilis oligopeptide ABC transporter permease OppB SW:OPPB_BACSU (P24138) (311 aa) fasta scores: E(): 1.9e-55, 49.515% id in 309 aa, and to Bacillus thuringiensis hypothetical protein OppB TR:Q9F5U5 (EMBL:AF305387) (309 aa) fasta scores: E(): 4.5e-69, 60.194% id in 309 aa
YP_040372.1	Similar to Bacillus subtilis oligopeptide ABC transporter permease OppC SW:OPPC_BACSU (P24139) (305 aa) fasta scores: E(): 2.4e-48, 46.815% id in 314 aa, and to Bacillus thuringiensis hypothetical protein OppC TR:Q9F5U4 (EMBL:AF305387) (337 aa) fasta scores: E(): 2.7e-72, 56.869% id in 313 aa
YP_040373.1	Similar to Bacillus subtilis oligopeptide transport ATP-binding protein OppD SW:OPPD_BACSU (P24136) (358 aa) fasta scores: E(): 1.4e-80, 67.045% id in 352 aa, and to Listeria monocytogenes oligopeptide transport system ATPase OppD TR:Q9LAT4 (EMBL:AF103793) (358 aa) fasta scores: E(): 4.5e-78, 67.456% id in 338 aa. Similar to SAR0198, 50.763% identity (50.763% ungapped) in 262 aa overlap
YP_040374.1	Similar to Bacillus subtilis oligopeptide transport ATP-binding protein OppF SW:OPPF_BACSU (P24137) (308 aa) fasta scores: E(): 2e-69, 66.890% id in 299 aa, and to Listeria monocytogenes oligopeptide transport system ATPase OppF TR:Q9LAT3 (EMBL:AF103793) (325 aa) fasta scores: E(): 6e-66, 63.407% id in 317 aa. Similar to SAR0958, 54.198% identity (55.686% ungapped) in 262 aa overlap
YP_040375.1	Similar to Listeria monocytogenes peptide binding protein OppA TR:Q9LAT7 (EMBL:AF103793) (558 aa) fasta scores: E(): 1.3e-72, 40.182% id in 550 aa, and to Bacillus thuringiensis hypothetical protein OppA TR:Q9F5U6 (EMBL:AF305387) (551 aa) fasta scores: E(): 4.9e-68, 37.658% id in 555 aa
YP_040376.1	Identical to Staphylococcus aureus transposase TR:O87114 (EMBL:AB010124) (328 aa) fasta scores: E(): 2.7e-127, 100.000% id in 315 aa, and similar to Bacillus halodurans transposase BH3503 TR:Q9JWR3 (EMBL:AP001520) (314 aa) fasta scores: E(): 2.9e-71, 58.413% id in 315 aa
YP_040377.1	Similar to Bacillus subtilis oligopeptide transport ATP-binding protein AppD SW:APPD_BACSU (P42064) (328 aa) fasta scores: E(): 5.4e-48, 47.546% id in 326 aa, and to Bacillus halodurans  oligopeptide ABC transporter BH3646 TR:Q9K6T0 (EMBL:AP001519) (329 aa) fasta scores: E(): 3.8e-57, 52.280% id in 329 aa
YP_040378.1	Similar to Bacillus subtilis oligopeptide transport ATP-binding protein AppF SW:APPF_BACSU (P42065) (329 aa) fasta scores: E(): 3e-61, 57.994% id in 319 aa, and to Bacillus halodurans  oligopeptide ABC transporter BH3645 TR:Q9K6T1 (EMBL:AP001519) (322 aa) fasta scores: E(): 4.6e-57, 54.777% id in 314 aa. SAR0952, 54.198% identity (55.686% ungapped) in 262 aa overlap
YP_040379.1	Similar to Bacillus subtilis oligopeptide ABC transporter permease AppC SW:APPC_BACSU (P42063) (303 aa) fasta scores: E(): 1.7e-42, 44.218% id in 294 aa, and to Pasteurella multocida hypothetical protein PM1908 TR:Q9CJT3 (EMBL:AE006228) (303 aa) fasta scores: E(): 8.6e-38, 38.014% id in 292 aa
YP_040380.1	Similar to the C-terminal region of Enterococcus faecium transposase TR:Q47815 (EMBL:L40841) (310 aa) fasta scores: E(): 1.9e-39, 46.183% id in 262 aa, and to the full length Neisseria gonorrhoeae hypothetical protein TR:Q50996 (EMBL:L36381) (267 aa) fasta scores: E(): 1.1e-27, 39.689% id in 257 aa
YP_040381.1	Similar to the C-terminal regions of Mycoplasma mycoides insertion element IS1296 hypothetical protein SW:YI6A_MYCMY (Q50239) (180 aa) fasta scores: E(): 0.0016, 26.812% id in 138 aa, and Bacillus thuringiensis hypothetical protein TR:P94596 (EMBL:Y09946) (185 aa) fasta scores: E(): 0.011, 32.075% id in 106 aa
YP_040382.1	Similar to Staphylococcus aureus prophage phiPV83 transposase TR:Q9MBP7 (EMBL:AB044554) (548 aa) fasta scores: E(): 1.5e-195, 97.993% id in 548 aa, and to Bacillus halodurans cassette chromosome recombinase B1 BH0682 TR:Q9KF15 (EMBL:AP001509) (522 aa) fasta scores: E(): 2.5e-97, 51.346% id in 520 aa
YP_040383.1	catalyzes a two-step reaction, first charging a tryptophan molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA
YP_040384.1	the anti-alpha factor Spx interacts with RNA polymerase alpha subunit C-terminal domain in a region that interacts with the sigma 70 subunit and may interfere with activation of promoters; in Bacillus subtilis this protein is a substrate for ClpXP protease; blocks transcription of the competence regulatory gene encoded by the srf operon; regulates a number of genes involved in thiol homeostasis including trxA and trxB; monomeric member of ArsC family of proteins; does not bind DNA; contains a disulfide bond between C10 and C13 which may sense disulfide stress
YP_040385.1	enables recognition and targeting of proteins for proteolysis, involved in negative regulation of competence
YP_040386.1	N-terminus is similar to the N-terminal regions of Lactococcus lactis transcription factor TR:P94875 (EMBL:X99710) (327 aa) fasta scores: E(): 1.1e-10, 29.675% id in 246 aa, and Streptococcus pyogenes  transcription factor SPY1395 TR:Q99Z52 (EMBL:AE006576) (320 aa) fasta scores: E(): 9.6e-09, 27.876% id in 226 aa
YP_040387.1	Similar to Streptococcus agalactiae group B oligopeptidase PepB SW:PEPB_STRAG (Q53778) (601 aa) fasta scores: E(): 1.9e-93, 44.974% id in 587 aa, and to Bacillus licheniformis Pz-peptidase TR:P70922 (EMBL:D88209) (628 aa) fasta scores: E(): 1.7e-126, 56.314% id in 586 aa
YP_040388.1	Similar to Bacillus halodurans hypothetical protein BH2855 TR:Q9K8Z7 (EMBL:AP001516) (306 aa) fasta scores: E(): 4.4e-20, 32.103% id in 271 aa, and to Bacillus subtilis hypothetical protein YjbH TR:O31606 (EMBL:Z99110) (275 aa) fasta scores: E(): 9.7e-20, 33.206% id in 262 aa. Possible alternative translational start sites
YP_040389.1	Similar to Tetrahymena pyriformis myoglobin SW:GLB_TETPY (P17724) (121 aa) fasta scores: E(): 0.00028, 31.373% id in 102 aa, and to Bacillus subtilis hypothetical protein YjbI TR:O31607 (EMBL:Z99110) (132 aa) fasta scores: E(): 3e-23, 53.448% id in 116 aa
YP_040390.1	Weakly similar to Oryctolagus cuniculus (rabbit) glutathione S-transferase SW:GTC_RABIT (Q08862) (220 aa) fasta scores: E(): 8.5, 27.381% id in 168 aa. Similar to Lactococcus lactis hypothetical protein YdgF TR:Q9CIJ7 (EMBL:AE006273) (197 aa) fasta scores: E(): 2e-16, 37.500% id in 192 aa
YP_040391.1	Similar to Bacillus halodurans hypothetical protein BH2850 TR:Q9K902 (EMBL:AP001516) (126 aa) fasta scores: E(): 1.1e-09, 36.134% id in 119 aa, and to Bacillus subtilis hypothetical protein YjbL TR:O31610 (EMBL:Z99110) (122 aa) fasta scores: E(): 1.4e-09, 36.441% id in 118 aa
YP_040392.1	Similar to an internal region of Vibrio sp GTP pyrophosphokinase RelA SW:RELA_VIBSS (P55133) (744 aa) fasta scores: E(): 0.0063, 27.545% id in 167 aa, and to full length Bacillus halodurans GTP pyrophosphokinase BH2849 TR:Q9K903 (EMBL:AP001516) (211 aa) fasta scores: E(): 2.2e-49, 62.621% id in 206 aa
YP_040393.1	catalyzes the phosphorylation of NAD to NADP
YP_040394.1	Similar to Bacillus subtilis hypothetical protein YjbO SW:YJBO_BACSU (O31613) (283 aa) fasta scores: E(): 6e-32, 36.525% id in 282 aa, and to Bacillus halodurans hypothetical protein BH2847 TR:Q9K905 (EMBL:AP001516) (302 aa) fasta scores: E(): 1.1e-30, 35.836% id in 293 aa
YP_040395.1	Similar to Bacillus halodurans magnesium transporter BH0511 TR:Q9KFG8 (EMBL:AP001508) (452 aa) fasta scores: E(): 9.9e-61, 39.367% id in 442 aa, and to Bacillus subtilis hypothetical protein YkoK TR:O34442 (EMBL:AJ002571) (451 aa) fasta scores: E(): 1.6e-57, 38.462% id in 455 aa
YP_040396.1	N-terminal region is similar to Enterococcus hirae Na+/H+ antiporter protein NapA SW:NAPA_ENTHR (P26235) (383 aa) fasta scores: E(): 3.8e-10, 26.368% id in 402 aa. Full length CDS is similar to and to Bacillus subtilis hypothetical protein YjbQ TR:O31615 (EMBL:Z99110) (614 aa) fasta scores: E(): 2.9e-108, 52.545% id in 609 aa
YP_040397.1	Catalyzes a key regulatory step in fatty acid biosynthesis
YP_040398.1	Similar to Bacillus halodurans hypothetical protein BH2921 TR:Q9K8T1 (EMBL:AP001517) (361 aa) fasta scores: E(): 4.4e-33, 34.795% id in 365 aa, and to Bacillus subtilis hypothetical protein YueF SW:YUEF_BACSU (O32095) (369 aa) fasta scores: E(): 5.1e-33, 35.556% id in 360 aa
YP_040399.1	Similar to thermophilic Bacillus sp PS3 sodium/proton-dependent alanine carrier protein Acp SW:ALCP_BACP3 (P30145) (445 aa) fasta scores: E(): 3.9e-51, 48.017% id in 479 aa, and to Bacillus subtilis hypothetical protein YrbD TR:O32060 (EMBL:Z99118) (484 aa) fasta scores: E(): 1.8e-70, 54.617% id in 509 aa. Possible alternative translational start site
YP_040400.1	Similar to Bacillus halodurans hypothetical protein BH1440 TR:Q9KCX9 (EMBL:AP001512) (242 aa) fasta scores: E(): 2e-35, 41.975% id in 243 aa, and to Bacillus subtilis hypothetical protein YjcH TR:O31630 (EMBL:Z99110) (240 aa) fasta scores: E(): 5.8e-35, 39.316% id in 234 aa
YP_040401.1	Poor database matches. Similar an internal region of Lactococcus lactis  restriction-modification system protein AbiM TR:P71445 (EMBL:X97263) (580 aa) fasta scores: E(): 4, 24.255% id in 235 aa
YP_040402.1	Poor database matches. Similar to Bacillus cereus DNA alkylation repair enzyme Alk1 TR:Q9XBJ4 (EMBL:AJ010139) (287 aa) fasta scores: E(): 0.00011, 22.868% id in 258 aa
YP_040403.1	similar to 2'-5' RNA ligase
YP_040404.1	Similar to Bacillus halodurans hypothetical protein BH2311 TR:Q9KAH6 (EMBL:AP001515) (391 aa) fasta scores: E(): 1.4e-08, 25.000% id in 400 aa, and to Escherichia coli hypothetical protein YceE SW:YCEE_ECOLI (P25744) (408 aa) fasta scores: E(): 1.1e-07, 24.422% id in 389 aa
YP_040405.1	processive; catalyzes the formation of mono-, di- and tri-glucosyldiacylglycerol by the progressive transfer of glucosyl residues to diacylglycerol; involved in the formation of membrane glycolipids
YP_040406.1	involved in cell wall formation; peptidoglycan synthesis; cytoplasmic enzyme; catalyzes the addition of lysine to UDP-N-acetylmuramoyl-L-alanyl-D-glutamate forming UDP-N-acetylmuramoyl-L-alanyl-D-glutamyl-L-lysine
YP_040407.1	Poor database matches. Similar to Bacillus subtilis hypothetical protein YueH TR:O32093 (EMBL:Z99120) (82 aa) fasta scores: E(): 1.5, 26.866% id in 67 aa
YP_040408.1	stimulates the release of release factors 1 and 2 from the ribosome after hydrolysis of the ester bond in peptidyl-tRNA has occurred; GDP/GTP-binding protein
YP_040409.1	Similar to Bacillus halodurans hypothetical protein BH2553 TR:Q9K9U2 (EMBL:AP001515) (265 aa) fasta scores: E(): 2.4e-48, 53.640% id in 261 aa, and to Bacillus megaterium hypothetical protein YkoY TR:Q9ZF98 (EMBL:AF109909) (271 aa) fasta scores: E(): 5.2e-31, 57.414% id in 263 aa
YP_040410.1	C-terminus is similar to Bacillus subtilis hypothetical protease YyxA SW:YYXA_BACSU (P39668) (400 aa) fasta scores: E(): 1.2e-29, 34.332% id in 367 aa, and to Streptococcus pneumoniae  serine protease TR:O06670 (EMBL:AF000658) (397 aa) fasta scores: E(): 5.6e-27, 35.143% id in 350 aa
YP_040411.1	Similar to Enterococcus hirae vacuolar-type sodium ATP synthase subunit J NtpJ SW:NTPJ_ENTHR (P43440) (451 aa) fasta scores: E(): 1.4e-40, 31.858% id in 452 aa, and to Bacillus subtilis hypothetical protein YkrM TR:O31658 (EMBL:Z99111) (449 aa) fasta scores: E(): 2.3e-83, 50.222% id in 450 aa
YP_040412.1	Poor database matches. Similar to Lactococcus lactis  phosphatase YcjM TR:Q9CIQ3 (EMBL:AE006267) (519 aa) fasta scores: E(): 8.6e-16, 22.960% id in 527 aa, and to Helicobacter pylori  2',3'-cyclic-nucleotide 2'-phosphodiesterase HP0104 TR:O24930 (EMBL:AE000532) (581 aa) fasta scores: E(): 7.6e-14, 22.701% id in 511 aa
YP_040413.1	Similar to Bacillus subtilis competence transcription factor ComK SW:COMK_BACSU (P40396) (192 aa) fasta scores: E(): 5.4e-10, 29.487% id in 156 aa, and to Listeria monocytogenes  competence transcription factor ComK TR:Q9RP24 (EMBL:AF174588) (190 aa) fasta scores: E(): 1.8e-09, 27.439% id in 164 aa
YP_040414.1	Poor database matches. Similar to Bacillus subtilis hypothetical protein YhzC TR:O31594 (EMBL:Z99109) (77 aa) fasta scores: E(): 1.3, 32.836% id in 67 aa
YP_040415.1	Similar to Escherichia coli lipoate-protein ligase A LplA SW:LPLA_ECOLI (P32099) (337 aa) fasta scores: E(): 3.4e-30, 34.323% id in 303 aa, and to Bacillus subtilis hypothetical protein YhfJ TR:O07608 (EMBL:Y14083) (331 aa) fasta scores: E(): 4.8e-70, 56.970% id in 330 aa
YP_040416.1	Poor database matches. Similar to C-terminal region of Bacillus subtilis hypothetical protein YkvS TR:O31684 (EMBL:Z99111) (143 aa) fasta scores: E(): 1.6e-11, 61.818% id in 55 aa. Possible gene remnant
YP_040417.1	Poor database matches. Similar to Thermotoga maritima hypothetical protein TT1529 TR:Q9X1L5 (EMBL:AE001800) (208 aa) fasta scores: E(): 0.018, 23.858% id in 197 aa
YP_040418.1	Poor database matches. Similar to Centruroides noxius toxin Cn10 precursor CngTIX TR:Q94435 (EMBL:Y08270) (81 aa) fasta scores: E(): 3.2, 34.043% id in 47 aa. Doubtful CDS
YP_040419.1	Poor database matches. Similar to Lactococcus lactis lactococcin 972 precursor LclA TR:O86283 (EMBL:AJ002203) (91 aa) fasta scores: E(): 0.003, 34.884% id in 86 aa
YP_040420.1	Poor database matches. Similar to Lactococcus lactis hypothetical protein YujE TR:Q9CE29 (EMBL:AE006431) (660 aa) fasta scores: E(): 3.8e-11, 19.062% id in 661 aa
YP_040421.1	Poor database matches. Similar to Bacillus subtilis hypothetical protein YxeA SW:YXEA_BACSU (P54940) (115 aa) fasta scores: E(): 0.0055, 28.448% id in 116 aa
YP_040422.1	Similar to Streptococcus pneumoniae hypothetical protein TR:Q9ZHB1 (EMBL:AF068902) (213 aa) fasta scores: E(): 1.6e-25, 47.317% id in 205 aa, and to Lactococcus lactis hypothetical ATP binding protein TR:Q9L650 (EMBL:AF242367) (207 aa) fasta scores: E(): 7e-24, 42.995% id in 207 aa
YP_040423.1	Poor database matches. Similar to the N-terminal region of Campylobacter jejuni flagellar biosynthesis protein CJ0882 TR:Q9PP48 (EMBL:AL139076) (724 aa) fasta scores: E(): 9.7, 28.395% id in 81 aa. Doubtful CDS
YP_040424.1	No significant database matches. Doubtful CDS, poor translational start site
YP_040426.1	Similar to Bacillus halodurans hypothetical protein BH3304 TR:Q9RC47 (EMBL:AB024562) (129 aa) fasta scores: E(): 1.1e-10, 36.893% id in 103 aa, and to Bacillus subtilis hypothetical protein YfiD SW:YFID_BACSU (P54720) (134 aa) fasta scores: E(): 1.5e-08, 33.333% id in 102 aa
YP_040427.1	Similar to Escherichia coli citrate-dependent iron transport, periplasmic protein FecB SW:FECB_ECOLI (P15028) (300 aa) fasta scores: E(): 2e-22, 38.652% id in 282 aa, and to Bacillus subtilis hypothetical protein YfmC TR:O34348 (EMBL:Z99108) (315 aa) fasta scores: E(): 3.3e-24, 38.390% id in 323 aa
YP_040429.1	Poor database matches. Similar to Lactococcus lactis hypothetical protein YafF TR:Q9CJE6 (EMBL:AE006243) (80 aa) fasta scores: E(): 0.031, 32.812% id in 64 aa. C-terminus is similar to the C-terminal region of SAR1190, 58.209% identity (59.091% ungapped) in 67 aa overlap
YP_040430.1	Poor database matches. Similar to Bacillus halodurans hypothetical protein BH2104 TR:Q9KB31 (EMBL:AP001514) (203 aa) fasta scores: E(): 0.005, 26.087% id in 184 aa, and to Deinococcus radiodurans hypothetical protein DR0797 TR:Q9RW72 (EMBL:AE001934) (158 aa) fasta scores: E(): 0.00012, 28.358% id in 134 aa
YP_040431.1	catalyzes the formation of dimethylmenaquinone from 1,4-dihydroxy-2-naphthoate and octaprenyl diphosphate
YP_040432.1	C-terminus is similar to the C-terminal regions of Escherichia coli isochorismate synthase EntC SW:ENTC_ECOLI (P10377) (391 aa) fasta scores: E(): 2.7e-18, 29.391% id in 279 aa, and Bacillus subtilis menaquinone-specific isochorismate synthase MenF SW:MENF_BACSU (P23973) (471 aa) fasta scores: E(): 5.4e-38, 34.562% id in 434 aa. Possible alternative translational start site
YP_040433.1	Similar to Escherichia coli menaquinone biosynthesis bifunctional protein [includes: 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylic acid synthase and alpha-ketoglutarate decarboxylase] MenD SW:MEND_ECOLI (P17109) (556 aa) fasta scores: E(): 4.5e-38, 29.107% id in 560 aa, and to Bacillus subtilis menaquinone biosynthesis bifunctional protein [includes: 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylic acid synthase and alpha-ketoglutarate decarboxylase] MenD SW:MEND_BACSU (P23970) (580 aa) fasta scores: E(): 7.8e-34, 39.478% id in 575 aa
YP_040434.1	Similar to Rhodococcus sp 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase BpdF TR:Q52897 (EMBL:U44891) (297 aa) fasta scores: E(): 2.5e-08, 25.806% id in 279 aa, and to Bacillus subtilis hypothetical protein YtxM TR:O34312 (EMBL:AF008220) (274 aa) fasta scores: E(): 1.9e-27, 34.749% id in 259 aa. CDS is truncated at the N-terminus in comparison to the Rhodococcus sp protein
YP_040435.1	catalyzes the formation of 1,4-dihydroxy-2-naphthoate from O-succinylbenzoyl-CoA
YP_040436.1	Similar to an internal region of Clostridium botulinum main hemagglutinin component HA-33 SW:HA33_CLOBO (P46084) (285 aa) fasta scores: E(): 2.3, 25.743% id in 101 aa. Previously sequenced as Staphylococcus aureus serine protease (ssp) operon hypothetical protein SspC TR:Q9EYW6 (EMBL:AF309515) (109 aa) fasta scores: E(): 2.8e-44, 99.083% id in 109 aa
YP_040437.1	Previously sequenced as Staphylococcus aureus cysteine protease preproprotein SspB TR:Q9EYW7 (EMBL:AF309515) (393 aa) fasta scores: E(): 6.4e-137, 97.710% id in 393 aa
YP_040438.1	Almost identical to Staphylococcus aureus glutamyl endopeptidase precursor TR:Q04186 (EMBL:D00730) (357 aa) fasta scores: E(): 5e-126, 99.440% id in 357 aa. Highly similar to Staphylococcus aureus serine protease (ssp) operon V8 protease SspA TR:AAG45843 (EMBL:AF309515) (336 aa) fasta scores: E(): 1.2e-110, 91.317% id in 357 aa. CDS contains a C-terminus repeat region (D/NNP x19), residues 287 to 343. CDS contains extra residues (21) in this repeat region relative to the SspA V8 protease. N-terminus is similar to Staphylococcus warneri glutamyl endopeptidase ProM TR:Q9FBG1 (EMBL:AJ293885) (316 aa) fasta scores: E(): 2.8e-75, 71.069% id in 318 aa
YP_040439.1	Similar to Bacillus stearothermophilus aspartate aminotransferase AspC SW:AAT_BACST (Q59228) (393 aa) fasta scores: E(): 1.8e-40, 35.967% id in 367 aa, and to Bacillus subtilis  aminotransferase A PatA SW:PATA_BACSU (P16524) (392 aa) fasta scores: E(): 3.5e-62, 45.195% id in 385 aa
YP_040440.1	Similar to Escherichia coli transcriptional regulator SlyA SW:SLYA_ECOLI (P55740) (146 aa) fasta scores: E(): 0.058, 31.724% id in 145 aa, and to Staphylococcus epidermidis  transcriptional regulator AtlR TR:O33636 (EMBL:U71377) (139 aa) fasta scores: E(): 2.6e-41, 87.591% id in 137 aa
YP_040441.1	Highly similar to Staphylococcus aureus bifunctional autolysin precursor [includes: N-acetylmuramoyl-L-alanine amidase and endo-beta-N-acetylglucosaminidase] Atl SW:ATL_STAAU (P52081) (1256 aa) fasta scores: E(): 0, 97.538% id in 1259 aa. Similar to Staphylococcus epidermidis autolysin AtlE TR:O33635 (EMBL:U71377) (1335 aa) fasta scores: E(): 5.7e-102, 59.808% id in 1356 aa
YP_040442.1	Similar to Staphylococcus epidermidis hypothetical protein TR:O33634 (EMBL:U71377) (140 aa) fasta scores: E(): 3.2e-25, 55.000% id in 140 aa, and to Bacillus halodurans hypothetical protein BH1438 TR:Q9KCY1 (EMBL:AP001512) (144 aa) fasta scores: E(): 8.8e-21, 46.667% id in 135 aa
YP_040443.1	Poor database matches. Similar to Staphylococcus epidermidis autolysin hypothetical protein TR:O33633 (EMBL:U71377) (156 aa) fasta scores: E(): 4e-57, 87.179% id in 156 aa
YP_040444.1	N-terminal region is similar to Bacillus subtilis membrane-bound attenuator of the expression of both lytABC and lytR operons, LytR SW:LYTR_BACSU (Q02115) (306 aa) fasta scores: E(): 3.3e-22, 32.484% id in 314 aa, and to Bacillus halodurans  transcriptional regulator BH3647 TR:Q9K6S9 (EMBL:AP001519) (359 aa) fasta scores: E(): 4e-32, 37.730% id in 326 aa
YP_040445.1	Similar to Staphylococcus aureus autolysis and methicillin resistant-related protein Fmt TR:O50608 (EMBL:AB009635) (397 aa) fasta scores: E(): 5.6e-140, 93.451% id in 397 aa, and to Bacillus subtilis penicillin-binding protein PbpX TR:O31773 (EMBL:Z99112) (391 aa) fasta scores: E(): 8.6e-25, 29.381% id in 388 aa
YP_040446.1	Similar to Bacillus subtilis quinol oxidase polypeptide IV QoxD SW:QOX4_BACSU (P34959) (123 aa) fasta scores: E(): 8.2e-15, 52.688% id in 93 aa, and to Bacillus halodurans cytochrome aa3 quinol oxidase subunit IV BH2067 TR:Q9KB64 (EMBL:AP001514) (136 aa) fasta scores: E(): 2.8e-11, 47.674% id in 86 aa
YP_040447.1	Similar to Bacillus subtilis quinol oxidase polypeptide III QoxC SW:QOX3_BACSU (P34958) (204 aa) fasta scores: E(): 1.3e-38, 54.211% id in 190 aa, and to Bacillus halodurans cytochrome aa3 quinol oxidase subunit III BH2066 TR:Q9KB65 (EMBL:AP001514) (204 aa) fasta scores: E(): 3e-39, 56.316% id in 190 aa
YP_040448.1	Similar to Bacillus subtilis quinol oxidase polypeptide I QoxB SW:QOX1_BACSU (P34956) (649 aa) fasta scores: E(): 1.7e-163, 62.154% id in 650 aa, and to Bacillus halodurans cytochrome aa3 quinol oxidase subunit I BH2065 TR:Q9KB66 (EMBL:AP001514) (647 aa) fasta scores: E(): 5.2e-160, 63.060% id in 647 aa
YP_040449.1	Similar to Bacillus subtilis quinol oxidase polypeptide II precursor QoxA SW:QOX2_BACSU (P34957) (322 aa) fasta scores: E(): 1.5e-47, 45.333% id in 300 aa, and to Bacillus halodurans cytochrome aa3 quinol oxidase subunit II BH2064 TR:Q9RC66 (EMBL:AB024557) (329 aa) fasta scores: E(): 5.5e-35, 38.871% id in 319 aa. CDS is extended at the C-terminus in comparison to Bacillus subtilis and Bacillus halodurans othologues
YP_040451.1	catalyzes the formation of 5,10-methenyltetrahydrofolate from 5,10-methylenetetrahydrofolate and subsequent formation of 10-formyltetrahydrofolate from 5,10-methenyltetrahydrofolate
YP_040452.1	Similar to Bacillus subtilis phosphoribosylaminoimidazole carboxylase catalytic subunit PurE SW:PUR6_BACSU (P12044) (162 aa) fasta scores: E(): 6.1e-32, 60.510% id in 157 aa, and to Aquifex aeolicus phosphoribosylaminoimidazole carboxylase catalytic subunit PurE SW:PUR6_AQUAE (O67239) (167 aa) fasta scores: E(): 7.5e-31, 62.025% id in 158 aa
YP_040453.1	With PurE catalyzes the conversion of aminoimidazole ribonucleotide to carboxyaminoimidazole ribonucleotide in the de novo purine nucleotide biosynthetic pathway
YP_040454.1	catalyzes the formation of (S)-2-(5-amino-1-(5-phospho-D-ribosyl)imidazole-4- carboxamido)succinate from 5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxylate and L-aspartate in purine biosynthesis; SAICAR synthase
YP_040455.1	Similar to Bacillus subtilis hypothetical protein YexA SW:YEXA_BACSU (P12049) (84 aa) fasta scores: E(): 5.6e-09, 38.272% id in 81 aa, and to Bacillus halodurans hypothetical protein BH0627 TR:Q9KF59 (EMBL:AP001509) (84 aa) fasta scores: E(): 3.8e-08, 36.905% id in 84 aa
YP_040456.1	catalyzes the formation of 2-(formamido)-N1-(5-phospho-D-ribosyl)acetamidine from N2-formyl-N1-(5-phospho-D-ribosyl)glycinamide and L-glutamine in purine biosynthesis
YP_040457.1	catalyzes the formation of 2-(formamido)-N1-(5-phospho-D-ribosyl)acetamidine from N2-formyl-N1-(5-phospho-D-ribosyl)glycinamide and L-glutamine in purine biosynthesis
YP_040458.1	Catalyzes first step of the de novo purine nucleotide biosynthetic pathway
YP_040459.1	catalyzes the formation of 1-(5-phosphoribosyl)-5-aminoimidazole from 2-(formamido)-N1-(5-phosphoribosyl)acetamidine and ATP in purine biosynthesis
YP_040460.1	Similar to Bacillus subtilis phosphoribosylglycinamide formyltransferase PurN SW:PUR3_BACSU (P12040) (195 aa) fasta scores: E(): 1.5e-29, 49.735% id in 189 aa, and to Bacillus halodurans phosphoribosylglycinamide formyltransferase BH0632 TR:Q9KF54 (EMBL:AP001509) (188 aa) fasta scores: E(): 1.1e-29, 47.059% id in 187 aa
YP_040461.1	involved in de novo purine biosynthesis
YP_040462.1	catalyzes the formation of N(1)-(5-phospho-D-ribosyl)glycinamide from 5-phospho-D-ribosylamine and glycine in purine biosynthesis
YP_040463.1	Similar to Lactobacillus helveticus  proline iminopeptidase PepI TR:Q48561 (EMBL:Z56283) (217 aa) fasta scores: E(): 0.00045, 25.751% id in 233 aa, and to Bacillus subtilis hypothetical protein YkoC TR:O34572 (EMBL:AJ002571) (254 aa) fasta scores: E(): 4.5e-10, 24.336% id in 226 aa
YP_040464.1	Similar to Methanobacterium thermoautotrophicum methyl coenzyme M reductase system, component A2 homologue MTH454 TR:O26554 (EMBL:AE000829) (480 aa) fasta scores: E(): 3.7e-16, 27.696% id in 473 aa, and to Streptococcus pyogenes  ABC transporter SPY1787 TR:Q99YA9 (EMBL:AE006606) (464 aa) fasta scores: E(): 2.9e-14, 25.747% id in 435 aa
YP_040465.1	Poor database matches. Similar to Bacillus subtilis hypothetical protein YkoE TR:O34738 (EMBL:AJ002571) (199 aa) fasta scores: E(): 1.4e-13, 36.313% id in 179 aa
YP_040467.1	Poor database matches. N-terminal region is similar to Methanococcus jannaschii hypothetical protein MJ0923 SW:Y923_METJA (Q58333) (297 aa) fasta scores: E(): 3.4, 20.328% id in 305 aa, and C-terminal region is similar to Staphylococcus xylosus hypothetical protein fragment TR:Q9EYR2 (EMBL:AF316496) (199 aa) fasta scores: E(): 9.7e-46, 69.231% id in 195 aa
YP_040468.1	Similar to Staphylococcus xylosus hypothetical protein TR:Q9EYR1 (EMBL:AF316496) (389 aa) fasta scores: E(): 4.8e-114, 72.564% id in 390 aa, and to Bacillus subtilis hypothetical protein YwbD SW:YWBD_BACSU (P39587) (396 aa) fasta scores: E(): 6.1e-67, 48.346% id in 393 aa
YP_040469.1	Poor database matches. Similar to Staphylococcus xylosus hypothetical protein TR:Q9EYR0 (EMBL:AF316496) (180 aa) fasta scores: E(): 2e-48, 70.000% id in 180 aa
YP_040470.1	Previously sequenced as Staphylococcus aureus histidine-containing phosphocarrier protein (HPr) PtsH SW:PTHP_STAAU (P02907) (88 aa) fasta scores: E(): 8.1e-31, 100.000% id in 88 aa. Similar to Staphylococcus carnosus histidine-containing phosphocarrier protein PtsH SW:PTHP_STACA (P23534) (88 aa) fasta scores: E(): 3.5e-29, 94.318% id in 88 aa
YP_040471.1	Similar to Staphylococcus carnosus phosphoenolpyruvate-protein phosphotransferase PtsI SW:PT1_STACA (P23533) (574 aa) fasta scores: E(): 4e-170, 80.628% id in 573 aa. Previously sequenced as Staphylococcus aureus phosphoenolpyruvate-protein phosphotransferase PtsI SW:PT1_STAAU (P51183) (572 aa) fasta scores: E(): 7.4e-207, 99.301% id in 572 aa
YP_040472.1	Similar to Escherichia coli glutaredoxin 3 GrxC SW:GLR3_ECOLI (P37687) (82 aa) fasta scores: E(): 1.6, 28.788% id in 66 aa, and to Clostridium pasteurianum hypothetical glutaredoxin-like protein in rubredoxin operon SW:YRUB_CLOPA (P23171) (75 aa) fasta scores: E(): 0.018, 31.944% id in 72 aa
YP_040473.1	Similar to Rhodobacter sphaeroides quinol oxidase subunit I QxtA TR:O86080 (EMBL:AF084032) (465 aa) fasta scores: E(): 6.9e-42, 32.237% id in 456 aa, and to Bacillus stearothermophilus cytochrome bd-type quinol oxidase subunit I CbaB TR:Q9Z9N1 (EMBL:AB016894) (448 aa) fasta scores: E(): 8.9e-94, 55.531% id in 452 aa
YP_040474.1	Similar to Pseudomonas aeruginosa cyanide insensitive terminal oxidase CioB TR:O07441 (EMBL:Y10528) (335 aa) fasta scores: E(): 2.4e-06, 21.951% id in 328 aa, and to Bacillus halodurans cytochrome D ubiquinol oxidase subunit II BH3974 TR:Q9K5W3 (EMBL:AP001520) (338 aa) fasta scores: E(): 4.3e-66, 53.550% id in 338 aa
YP_040475.1	Similar to Bacillus subtilis hypothetical protein YkqB SW:YKQB_BACSU (P39760) (221 aa) fasta scores: E(): 5.6e-51, 64.516% id in 217 aa, and to Bacillus halodurans potassium uptake protein BH2663 TR:Q9K9I4 (EMBL:AP001516) (220 aa) fasta scores: E(): 3.8e-48, 62.212% id in 217 aa
YP_040476.1	Similar to Bacillus halodurans hypothetical protein BH2662 TR:Q9K9I5 (EMBL:AP001516) (555 aa) fasta scores: E(): 1e-154, 67.446% id in 556 aa, and to Bacillus subtilis hypothetical protein YkqC SW:YKQC_BACSU (Q45493) (555 aa) fasta scores: E(): 2e-152, 67.086% id in 556 aa
YP_040477.1	Similar to Bacillus halodurans hypothetical protein BH2661 TR:Q9K9I6 (EMBL:AP001516) (69 aa) fasta scores: E(): 8.6e-11, 53.731% id in 67 aa, and to Bacillus subtilis hypothetical protein YkzG R:O31718 (EMBL:Z99111) (69 aa) fasta scores: E(): 3.7e-10, 56.061% id in 66 aa
YP_040478.1	cleaves off formyl group from N-terminal methionine residues of newly synthesized proteins; binds iron(2+)
YP_040479.1	Poor database matches. Similar to Bacillus subtilis hypothetical protein in YkyA SW:YKYA_BACSU (P21884) (237 aa) fasta scores: E(): 7.1e-05, 24.880% id in 209 aa, and to Bacillus subtilis hypothetical protein YkyA TR:Q45496 (EMBL:AF012285) (205 aa) fasta scores: E(): 0.00011, 23.077% id in 195 aa
YP_040480.1	Similar to Bacillus stearothermophilus pyruvate dehydrogenase E1 component, alpha subunit PdhA SW:ODPA_BACST (P21873) (368 aa) fasta scores: E(): 2.6e-102, 74.931% id in 363 aa, and to Bacillus subtilis pyruvate dehydrogenase E1 component, alpha subunit PdhA SW:ODPA_BACSU (P21881) (370 aa) fasta scores: E(): 2.2e-103, 75.342% id in 365 aa
YP_040481.1	Similar to Bacillus stearothermophilus pyruvate dehydrogenase E1 component, beta subunit PdhB SW:ODPB_BACST (P21874) (324 aa) fasta scores: E(): 4e-94, 75.926% id in 324 aa, and to Bacillus subtilis pyruvate dehydrogenase E1 component, beta subunit PdhB SW:ODPB_BACSU (P21882) (324 aa) fasta scores: E(): 8.2e-98, 77.469% id in 324 aa
YP_040482.1	Similar to Bacillus stearothermophilus dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex PdhC SW:ODP2_BACST (P11961) (427 aa) fasta scores: E(): 1.6e-102, 70.208% id in 433 aa. Previously sequenced as Staphylococcus aureus dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex PdhC SW:ODP2_STAAU (Q59821) (430 aa) fasta scores: E(): 3.7e-148, 99.535% id in 430 aa
YP_040483.1	E3 component of pyruvate complex; catalyzes the oxidation of dihydrolipoamide to lipoamide
YP_040484.1	Similar to Lactococcus lactis hypothetical protein YfdD TR:Q9CI19 (EMBL:AE006288) (93 aa) fasta scores: E(): 2.8e-13, 51.685% id in 89 aa, and to Bacillus subtilis hypothetical protein YktA TR:Q45497 (EMBL:AF012285) (88 aa) fasta scores: E(): 2.8e-12, 44.828% id in 87 aa
YP_040485.1	Similar to Thermotoga maritima conserved hypothetical protein TM0656 TR:Q9WZC4 (EMBL:AE001739) (176 aa) fasta scores: E(): 3.8e-20, 40.805% id in 174 aa, and to Pseudomonas aeruginosa probable transcriptional regulator PA5301 TR:Q9HTQ3 (EMBL:AE004943) (182 aa) fasta scores: E(): 3e-07, 28.177% id in 181 aa
YP_040486.1	N-terminus is similar to N-terminal region of Escherichia coli spermidine/putrescine transport ATP-binding protein PotA SW:POTA_ECOLI (P23858) (378 aa) fasta scores: E(): 5.7e-50, 51.736% id in 288 aa. Full length CDS is similar to N-terminal region of Lactococcus lactis spermidine/putrescine ABC transporter ATP-binding protein PotA TR:Q9CGD4 (EMBL:AE006348) (428 aa) fasta scores: E(): 2.3e-78, 62.396% id in 359 aa
YP_040487.1	Similar to Escherichia coli spermidine/putrescine ABC transporter permease PotB SW:POTB_ECOLI (P23860) (275 aa) fasta scores: E(): 9.8e-21, 29.885% id in 261 aa, and to Lactococcus lactis spermidine/putrescine ABC transporter permease PotB TR:Q9CGD3 (EMBL:AE006348) (262 aa) fasta scores: E(): 7.7e-47, 53.307% id in 257 aa
YP_040488.1	Similar to Escherichia coli spermidine/putrescine ABC transporter permease PotC SW:POTC_ECOLI (P23859) (264 aa) fasta scores: E(): 9.1e-28, 36.948% id in 249 aa, and to Streptococcus pyogenes  spermidine/putrescine ABC transporter PotC TR:Q99ZS6 (EMBL:AE006553) (258 aa) fasta scores: E(): 7.2e-46, 52.756% id in 254 aa
YP_040489.1	Similar to Escherichia coli spermidine/putrescine-binding periplasmic protein precursor PotD SW:POTD_ECOLI (P23861) (348 aa) fasta scores: E(): 4.6e-43, 38.375% id in 357 aa, and to Streptococcus pyogenes  spermidine/putrescine ABC transporter PotD TR:Q99ZS5 (EMBL:AE006553) (357 aa) fasta scores: E(): 3.3e-61, 44.972% id in 358 aa
YP_040492.1	NRAMP (natural resistance-associated macrophage proteins) family protein. Similar to Pseudomonas aeruginosa manganese transport protein MntH1 SW:MNT1_PSEAE (Q9RPF3) (439 aa) fasta scores: E(): 1.7e-63, 44.235% id in 425 aa, and to Lactobacillus brevis  manganese transporter HitA TR:BAB47552 (EMBL:AB035808) (464 aa) fasta scores: E(): 3.4e-92, 55.708% id in 438 aa
YP_040493.1	Similar to Bacillus subtilis hypothetical protein YktB TR:Q45498 (EMBL:AF012285) (212 aa) fasta scores: E(): 3.9e-28, 41.379% id in 203 aa, and to Bacillus halodurans hypothetical protein BH2637 TR:Q9K9K8 (EMBL:AP001516) (213 aa) fasta scores: E(): 6.9e-27, 38.916% id in 203 aa
YP_040494.1	Similar to Lycopersicon esculentum myo-inositol-1 IMP1 SW:MYO1_LYCES (P54926) (273 aa) fasta scores: E(): 6.9e-20, 36.000% id in 225 aa, and to Bacillus subtilis extragenic suppressor protein homologue SuhB SW:SUHB_BACSU (Q45499) (265 aa) fasta scores: E(): 1.6e-46, 49.804% id in 255 aa
YP_040495.1	Similar to Bacillus halodurans hypothetical protein BH2633 TR:Q9K9L2 (EMBL:AP001516) (61 aa) fasta scores: E(): 0.03, 31.034% id in 58 aa, and to Bacillus subtilis hypothetical protein YlaF SW:YLAF_BACSU (O07630) (62 aa) fasta scores: E(): 0.66, 31.667% id in 60 aa
YP_040496.1	Similar to Escherichia coli GTPase BipA TR:Q9EXN7 (EMBL:AJ278218) (607 aa) fasta scores: E(): 1.6e-118, 53.897% id in 603 aa, and to Bacillus subtilis GTP-binding protein BipA homologue SW:TYPA_BACSU (O07631) (612 aa) fasta scores: E(): 1.6e-171, 77.318% id in 604 aa. In enteropathogenic E. coli (EPEC) BipA undergoes tyrosine phosphorylation and mediates interactions with epithelial cells
YP_040497.1	Poor database matches. Similar to Bacillus subtilis hypothetical protein YlaI SW:YLAI_BACSU (O07633) (69 aa) fasta scores: E(): 4.2e-05, 45.238% id in 42 aa
YP_040498.1	Similar to Bacillus subtilis hypothetical protein YlaL SW:YLAL_BACSU (O07636) (161 aa) fasta scores: E(): 1.4e-10, 31.098% id in 164 aa, and to Bacillus halodurans hypothetical protein BH2628 TR:Q9K9L7 (EMBL:AP001516) (169 aa) fasta scores: E(): 6.5e-10, 33.793% id in 145 aa
YP_040499.1	depletion of this protein in Bacillus subtilis results in defects in cell morphology; crystal structure of Staphylococcus protein shows homodimer; ligand binding protein
YP_040500.1	Similar to Escherichia coli, Escherichia coli O6, and Escherichia coli O157:H7 cell division protein FtsW or b0089 SWALL:FTSW_ECOLI (SWALL:P16457) (414 aa) fasta scores: E(): 2.5e-31, 32.62% id in 377 aa, and to Enterococcus hirae probable cell division protein FtsW SWALL:FTSW_ENTHR (SWALL:Q47866) (397 aa) fasta scores: E(): 2.8e-40, 36.34% id in 399 aa
YP_040501.1	biotin-containing enzyme that catalyzes a two step carboxylation of pyruvate to oxaloacetate
YP_040502.1	Similar to Bacillus subtilis cytochrome aa3 controlling protein CtaA SW:CTAA_BACSU (P12946) (306 aa) fasta scores: E(): 2.9e-43, 41.883% id in 308 aa. Previously sequenced as Staphylococcus aureus  heme A synthase, involved in long-term starvation survival and recovery, CtaA TR:O85704 (EMBL:AF072726) (303 aa) fasta scores: E(): 7.4e-117, 99.670% id in 303 aa
YP_040503.1	converts protoheme IX and farnesyl diphosphate to heme O
YP_040504.1	Poor database matches. Similar to the C-terminal regions of Bacillus subtilis hypothetical protein YozB TR:O31845 (EMBL:Z99114) (178 aa) fasta scores: E(): 1.5e-06, 27.941% id in 136 aa, and to Bradyrhizobium japonicum cytochrome-c oxidase CoxP TR:Q45236 (EMBL:X68547) (240 aa) fasta scores: E(): 1.3, 26.230% id in 122 aa
YP_040505.1	Similar to Bacillus subtilis hypothetical protein YlbC TR:O34586 (EMBL:Z99111) (346 aa) fasta scores: E(): 2.7e-24, 28.691% id in 359 aa, and to Bacillus halodurans hypothetical protein BH2604 TR:Q9K9P1 (EMBL:AP001516) (363 aa) fasta scores: E(): 3.6e-16, 25.620% id in 363 aa
YP_040506.1	Similar to Bacillus subtilis hypothetical protein YlbF TR:O34412 (EMBL:Z99111) (149 aa) fasta scores: E(): 1.2e-17, 40.845% id in 142 aa, and to Bacillus halodurans hypothetical protein BH2596 TR:Q9K9P9 (EMBL:AP001516) (147 aa) fasta scores: E(): 6.4e-16, 40.876% id in 137 aa
YP_040507.1	Similar to Bacillus subtilis glycerophosphoryl diester phosphodiesterase GlpQ SW:GLPQ_BACSU (P37965) (293 aa) fasta scores: E(): 4.4e-13, 27.036% id in 307 aa, and to Bacillus halodurans glycerophosphodiester phosphodiesterase BH1080 TR:Q9KDY1 (EMBL:AP001510) (250 aa) fasta scores: E(): 1.8e-12, 33.984% id in 256 aa
YP_040508.1	Similar to Bacillus halodurans hypothetical protein BH2594 TR:Q9K9Q1 (EMBL:AP001516) (92 aa) fasta scores: E(): 8e-05, 27.027% id in 74 aa, and to Bacillus subtilis hypothetical protein YlbG TR:O34658 (EMBL:Z99111) (90 aa) fasta scores: E(): 0.0004, 24.658% id in 73 aa
YP_040509.1	Poor database matches. Similar to Bacillus halodurans hypothetical protein BH2591 TR:Q9K9Q4 (EMBL:AP001516) (129 aa) fasta scores: E(): 9.5e-15, 33.594% id in 128 aa
YP_040510.1	Similar to Bacillus halodurans hypothetical protein BH2590 TR:Q9K9Q5 (EMBL:AP001516) (189 aa) fasta scores: E(): 3.1e-26, 47.312% id in 186 aa, and to Bacillus subtilis hypothetical protein YlbH TR:O34331 (EMBL:Z99111) (164 aa) fasta scores: E(): 4.7e-25, 52.229% id in 157 aa
YP_040511.1	Catalyzes the conversion of ATP and pantetheine 4'-phosphate to diphosphate and 3'-dephospho-coA
YP_040512.1	Similar to Streptococcus pyogenes hypothetical protein SPY0314 TR:Q9A1E8 (EMBL:AE006497) (368 aa) fasta scores: E(): 5.3e-30, 34.341% id in 364 aa, and to Bacillus subtilis hypothetical protein YlbM TR:O34513 (EMBL:Z99111) (415 aa) fasta scores: E(): 7.6e-17, 32.836% id in 402 aa
YP_040513.1	Similar to Bacillus subtilis hypothetical protein YlbN TR:O34445 (EMBL:Z99111) (172 aa) fasta scores: E(): 3.8e-14, 33.511% id in 188 aa, and to Bacillus halodurans hypothetical protein BH2584 TR:Q9K9R1 (EMBL:AP001516) (169 aa) fasta scores: E(): 2.3e-13, 34.225% id in 187 aa
YP_040514.1	some L32 proteins have zinc finger motifs consisting of CXXC while others do not
YP_040515.1	Poor database matches. N-terminal region is similar to the C-terminus of Homo sapiens neurofilament triplet H protein NF-H SW:NFH_HUMAN (P12036) (1020 aa) fasta scores: E(): 1.9e-05, 24.107% id in 560 aa. Probable LPXTG-sorted surface protein
YP_040516.1	N-terminus is similar to N-terminal region of Staphylococcus epidermidis lipase precursor GehD TR:Q9Z4M7 (EMBL:AF090142) (643 aa) fasta scores: E(): 0.0092, 23.827% id in 277 aa. Previously sequenced as Staphylococcus aureus 29-kDa cell surface protein precursor TR:Q9KW67 (EMBL:AB042826) (354 aa) fasta scores: E(): 1.9e-103, 100.000% id in 354 aa. Probable LPXTG-sorted surface protein
YP_040517.1	Poor database matches. Similar to Bacillus halodurans hypothetical protein BH3299 TR:Q9K7R0 (EMBL:AP001518) (221 aa) fasta scores: E(): 7e-11, 28.037% id in 214 aa. Probable NPQTN-sorted surface protein
YP_040518.1	Poor database matches. Similar to an internal region of Bacillus anthracis virulence plasmid pX01 hypothetical protein pXO1-90 TR:Q9X360 (EMBL:AF065404) (652 aa) fasta scores: E(): 0.28, 22.034% id in 295 aa CDS contains lysine-rich region, residues 155 to 297
YP_040519.1	Similar to Bacillus subtilis iron-uptake system binding protein precursor FeuA SW:FEUA_BACSU (P40409) (317 aa) fasta scores: E(): 6.7e-06, 25.820% id in 244 aa, and to Listeria monocytogenes lipoprotein FufA TR:Q9EXG4 (EMBL:AJ012345) (290 aa) fasta scores: E(): 2e-44, 48.789% id in 289 aa
YP_040520.1	Similar to Escherichia coli iron citrate-dependent iron transport, membrane bound protein FecD SW:FECD_ECOLI (P15029) (318 aa) fasta scores: E(): 5e-29, 35.127% id in 316 aa, and to Bacillus halodurans  ferrichrome ABC transporter BH3296 TR:Q9K7R3 (EMBL:AP001518) (328 aa) fasta scores: E(): 5.9e-43, 43.614% id in 321 aa
YP_040521.1	Poor database matches. Similar to Bacillus halodurans hypothetical protein BH3294 TR:Q9K7R5 (EMBL:AP001518) (254 aa) fasta scores: E(): 1e-27, 38.462% id in 234 aa. C-terminus is similar to the C-terminal region of Streptococcus pyogenes hypothetical protein SPY0129 TR:Q9A1S1 (EMBL:AE006482) (237 aa) fasta scores: E(): 3.2e-17, 33.333% id in 183 aa
YP_040522.1	iron regulated; catalyzes the release of heme from hemoglobin allowing bacterial pathogens to use the host heme as an iron source
YP_040523.1	Doubtful CDS. No database matches
YP_040524.1	Similar to Bacillus subtilis hypothetical protein YsgA TR:P94538 (EMBL:Z75208) (248 aa) fasta scores: E(): 2.1e-39, 45.783% id in 249 aa, and to Bacillus halodurans rRNA methylase BH3112 TR:Q9K894 (EMBL:AP001517) (251 aa) fasta scores: E(): 5.8e-39, 50.000% id in 252 aa
YP_040525.1	catalyzes a two-step reaction, first charging a phenylalanine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; forms a heterotetramer of alpha(2)beta(2); binds two magnesium ions per tetramer; type 1 subfamily
YP_040526.1	catalyzes a two-step reaction, first charging a phenylalanine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; forms a tetramer of alpha(2)beta(2); binds two magnesium ions per tetramer; type 2 subfamily
YP_040527.1	An endonuclease that specifically degrades the RNA strand of RNA-DNA hybrids
YP_040528.1	Similar to Bacillus subtilis hypothetical protein YshA TR:P94542 (EMBL:Z75208) (85 aa) fasta scores: E(): 1e-08, 46.154% id in 78 aa, and to Bacillus halodurans hypothetical protein BH3109 TR:Q9K897 (EMBL:AP001517) (91 aa) fasta scores: E(): 1.5e-06, 45.333% id in 75 aa
YP_040529.1	Similar to Bacillus subtilis hypothetical protein YshB TR:P94543 (EMBL:Z75208) (177 aa) fasta scores: E(): 1.4e-10, 29.885% id in 174 aa, and to Bacillus halodurans hypothetical protein BH3108 TR:Q9K898 (EMBL:AP001517) (179 aa) fasta scores: E(): 5.1e-09, 25.731% id in 171 aa
YP_040530.1	Similar to Bacillus halodurans DNA-dependent DNA polymerase beta chain BH3107 TR:Q9K899 (EMBL:AP001517) (571 aa) fasta scores: E(): 5e-104, 53.439% id in 567 aa, and to Bacillus subtilis hypothetical protein YshC TR:P94544 (EMBL:Z75208) (570 aa) fasta scores: E(): 1.3e-101, 52.807% id in 570 aa
YP_040531.1	MutS2; MutS-II; involved in blocking homologous and homeologous recombination; has ATPase activity stimulated by recombination intermediates; inhibits DNA strand exchange
YP_040532.1	Similar to Anabaena sp thioredoxin 1 TrxA SW:THI1_ANASO (P06544) (106 aa) fasta scores: E(): 9.4e-21, 54.286% id in 105 aa. Previously sequenced as Staphylococcus aureus thioredoxin TrxA TR:Q9ZEH4 (EMBL:AJ223480) (104 aa) fasta scores: E(): 9.6e-41, 100.000% id in 104 aa
YP_040533.1	The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrC both incises the 5' and 3' sides of the lesion. The N-terminal half is responsible for the 3' incision and the C-terminal half is responsible for the 5' incision
YP_040534.1	Similar to Bacillus halodurans succinate dehydrogenase cytochrome b558 SdhC TR:Q9K8B3 (EMBL:AP001517) (209 aa) fasta scores: E(): 6.7e-44, 52.941% id in 204 aa, and to Bacillus subtilis succinate dehydrogenase cytochrome b558 subunit SdhC SW:DHSC_BACSU (P08064) (202 aa) fasta scores: E(): 1.5e-42, 54.040% id in 198 aa
YP_040535.1	part of four member succinate dehydrogenase enzyme complex that forms a trimeric complex (trimer of tetramers); SdhA/B are the catalytic subcomplex and can exhibit succinate dehydrogenase activity in the absence of SdhC/D which are the membrane components and form cytochrome b556; SdhC binds ubiquinone; oxidizes succinate to fumarate while reducing ubiquinone to ubiquinol
YP_040536.1	part of four member succinate dehydrogenase enzyme complex that forms a trimeric complex (trimer of tetramers); SdhA/B are the catalytic subcomplex and can exhibit succinate dehydrogenase activity in the absence of SdhC/D which are the membrane components and form cytochrome b556; SdhC binds ubiquinone; oxidizes succinate to fumarate while reducing ubiquinone to ubiquinol; the catalytic subunits are similar to fumarate reductase
YP_040537.1	converts L-glutamate to D-glutamate, a component of peptidoglycan
YP_040538.1	hydrolyzes non-standard nucleotides such as xanthine and inosine
YP_040539.1	Similar to Bacillus halodurans hypothetical protein BH3066 TR:Q9K8E0 (EMBL:AP001517) (169 aa) fasta scores: E(): 3.4e-15, 34.375% id in 160 aa, and to Bacillus subtilis hypothetical protein YsnB SW:YSNB_BACSU (P94559) (171 aa) fasta scores: E(): 1.4e-13, 33.962% id in 159 aa
YP_040540.1	No significant database matches. Doubtful CDS, poor translational start sites
YP_040541.1	No significant database matches to the full length CDS. C-terminus is similar to the C-terminal region of Staphylococcus aureus fibrinogen-binding protein precursor Fib TR:Q08691 (EMBL:X72013) (165 aa) fasta scores: E(): 0.00011, 40.909% id in 66 aa
YP_040542.1	Poor database matches. Similar to the N-terminal region of Mycoplasma pulmonis hypothetical protein MYPU_2270 TR:CAC13400 (EMBL:AL445563) (245 aa) fasta scores: E(): 0.028, 23.871% id in 155 aa
YP_040543.1	Highly similar to Staphylococcus aureus fibrinogen-binding protein precursor Fib TR:Q08691 (EMBL:X72013) (165 aa) fasta scores: E(): 8.7e-57, 94.545% id in 165 aa. Internal region of the CDS is similar internal regions of Staphylococcus aureus staphylocoagulase precursor SW:STC2_STAAU (P17855) (715 aa) fasta scores: E(): 6.9e-05, 40.541% id in 74 aa
YP_040544.1	No significant database matches. Similar to SAR2035, 50.000% identity (50.893% ungapped) in 114 aa overlap
YP_040545.1	No significant database matches. Doubtful CDS, poor translational start sites
YP_040549.1	Doubtful CDS. No database matches
YP_040550.1	Poor database matches. Similar to an internal region of bacteriophage APSE-1 hypothetical protein P2 SW:VP02_BPAPS (Q9T1U6) (94 aa) fasta scores: E(): 9.9, 29.508% id in 61 aa. Similar to SAR1303, 54.545% identity (54.545% ungapped) in 66 aa overlap
YP_040551.1	Similar to Staphylococcus aureus prophage phiPV83 transposase TR:Q9MBP7 (EMBL:AB044554) (548 aa) fasta scores: E(): 7.6e-199, 99.270% id in 548 aa, and to Bacillus halodurans cassette chromosome recombinase B1 BH0682 TR:Q9KF15 (EMBL:AP001509) (522 aa) fasta scores: E(): 4e-99, 51.923% id in 520 aa
YP_040552.1	these proteins share structural homology to known superantigen proteins but do not exhibit any of the properties expected such as histocompatibility complex class II binding or broad T-cell activation
YP_040553.1	these proteins share structural homology to known superantigen proteins but do not exhibit any of the properties expected such as histocompatibility complex class II binding or broad T-cell activation
YP_040554.1	these proteins share structural homology to known superantigen proteins but do not exhibit any of the properties expected such as histocompatibility complex class II binding or broad T-cell activation
YP_040555.1	catalyzes the formation of L-citrulline from carbamoyl phosphate and L-ornithine in arginine biosynthesis and degradation
YP_040556.1	catalyzes the reversible synthesis of carbamate and ATP from carbamoyl phosphate and ADP
YP_040557.1	Similar to Haemophilus influenzae hypothetical protein HI0594 SW:YFCC_HAEIN (P44023) (509 aa) fasta scores: E(): 2.8e-109, 58.527% id in 516 aa, and to Escherichia coli hypothetical protein YfcC SW:YFCC_ECOLI (P39263) (506 aa) fasta scores: E(): 1.3e-34, 28.977% id in 528 aa. C-terminal region is similar to SAR0067, 94.333% identity (94.333% ungapped) in 300 aa overlap
YP_040558.1	Poor database matches. Similar to Escherichia coli O157:H7 hypothetical membrane protein ECS4748 TR:BAB38171 (EMBL:AP002567) (99 aa) fasta scores: E(): 4.1, 30.357% id in 56 aa
YP_040559.1	Similar to Staphylococcus hyicus exfoliative toxin A SHETA TR:Q9FDT4 (EMBL:AB036768) (306 aa) fasta scores: E(): 4.2e-87, 80.132% id in 302 aa, and to Streptococcus pyogenes  exfoliative toxin SPY0918 TR:Q9A061 (EMBL:AE006541) (302 aa) fasta scores: E(): 1.7e-37, 41.584% id in 303 aa
YP_040561.1	Similar to Staphylococcus haemolyticus antibacterial protein 3 SW:GGI3_STAHA (P11699) (44 aa) fasta scores: E(): 2.1e-08, 70.455% id in 44 aa, and to Staphylococcus lugdunensis hemolysin SLUSH-C TR:P95771 (EMBL:U73444) (43 aa) fasta scores: E(): 0.032, 40.476% id in 42 aa
YP_040562.1	Similar to Bacillus subtilis hypothetical protein YfnB TR:O06480 (EMBL:D86418) (235 aa) fasta scores: E(): 5.2e-29, 41.333% id in 225 aa, and to Streptococcus pyogenes hypothetical protein SPY1066 TR:Q99ZU5 (EMBL:AE006551) (233 aa) fasta scores: E(): 1.2e-20, 31.111% id in 225 aa
YP_040563.1	Similar to Bacillus subtilis hypothetical protein YlbP TR:O34468 (EMBL:Z99111) (160 aa) fasta scores: E(): 2.7e-22, 46.309% id in 149 aa, and to Bacillus halodurans hypothetical protein BH2580 TR:Q9K9R5 (EMBL:AP001516) (169 aa) fasta scores: E(): 1.4e-20, 43.836% id in 146 aa
YP_040564.1	Similar to Bacillus subtilis hypothetical protein YllA SW:YLLA_BACSU (P55342) (539 aa) fasta scores: E(): 1.5e-49, 32.103% id in 542 aa, and to Bacillus halodurans hypothetical protein BH2577 TR:Q9K9R8 (EMBL:AP001516) (538 aa) fasta scores: E(): 3e-44, 31.610% id in 503 aa
YP_040565.1	MraZ; UPF0040; crystal structure shows similarity to AbrB
YP_040566.1	Similar to Bacillus subtilis hypothetical protein YllC SW:YLXA_BACSU (Q07876) (311 aa) fasta scores: E(): 9.9e-77, 64.610% id in 308 aa, and to Enterococcus hirae hypothetical protein MraW TR:O07665 (EMBL:Y13922) (319 aa) fasta scores: E(): 8.5e-74, 64.423% id in 312 aa
YP_040567.1	Similar to Bacillus subtilis cell division protein FtsL homologue SW:FTSL_BACSU (Q07867) (117 aa) fasta scores: E(): 0.0016, 26.786% id in 112 aa, and to Staphylococcus aureus. Previously sequenced as  cell division protein YllD TR:O07321 (EMBL:U94706) (133 aa) fasta scores: E(): 2.6e-44, 100.000% id in 133 aa
YP_040568.1	Similar to Bacillus subtilis penicillin-binding protein 2B PbpB SW:PBPB_BACSU (Q07868) (716 aa) fasta scores: E(): 2.2e-98, 40.503% id in 716 aa. Previously sequenced as Staphylococcus aureus penicillin-binding protein 1 PbpA TR:Q53725 (EMBL:U94706) (744 aa) fasta scores: E(): 0, 99.866% id in 744 aa
YP_040569.1	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
YP_040570.1	UDP-N-acetylmuramoylalanine--D-glutamate ligase; involved in peptidoglycan biosynthesis; cytoplasmic; catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine during cell wall formation
YP_040571.1	Similar to Bacillus subtilis division initiation protein Dds SW:DIVB_BACSU (P16655) (263 aa) fasta scores: E(): 3.3e-15, 28.897% id in 263 aa. Previously sequenced as Staphylococcus aureus cell division protein Div1B TR:O07324 (EMBL:U94706) (439 aa) fasta scores: E(): 8.7e-133, 96.811% id in 439 aa
YP_040572.1	Similar to Bacillus subtilis cell division protein FtsA SW:FTSA_BACSU (P28264) (440 aa) fasta scores: E(): 1.7e-37, 30.687% id in 466 aa. Previously sequenced as Staphylococcus aureus cell division protein FtsA SW:FTSA_STAAU (O07325) (471 aa) fasta scores: E(): 9.5e-141, 89.451% id in 474 aa
YP_040573.1	GTPase; similar structure to tubulin; forms ring-shaped polymers at the site of cell division; other proteins such as FtsA, ZipA, and ZapA, interact with and regulate FtsZ function
YP_040574.1	Similar to Bacillus subtilis hypothetical protein YlmD SW:YLMD_BACSU (O31726) (278 aa) fasta scores: E(): 2.1e-27, 31.984% id in 247 aa, and to Bacillus halodurans hypothetical protein BH2551 TR:Q9K9U4 (EMBL:AP001515) (273 aa) fasta scores: E(): 3.6e-24, 34.274% id in 248 aa
YP_040575.1	Similar to Bacillus halodurans hypothetical protein BH2550 TR:Q9K9U5 (EMBL:AP001515) (228 aa) fasta scores: E(): 5e-42, 53.982% id in 226 aa, and to Bacillus subtilis hypothetical protein YlmE SW:YLME_BACSU (O31727) (230 aa) fasta scores: E(): 5.1e-42, 55.357% id in 224 aa
YP_040576.1	Similar to Streptococcus pyogenes hypothetical protein SPY1518 TR:Q99YV9 (EMBL:AE006585) (218 aa) fasta scores: E(): 1.1e-05, 25.234% id in 214 aa. C-terminus is similar to the C-terminal region of Bacillus subtilis hypothetical protein YlmF TR:O31728 (EMBL:Z99112) (149 aa) fasta scores: E(): 1.3e-18, 56.198% id in 121 aa
YP_040577.1	Similar to Bacillus subtilis hypothetical protein YlmG TR:O31729 (EMBL:Z99112) (90 aa) fasta scores: E(): 2.4e-14, 51.724% id in 87 aa, and to Bacillus halodurans hypothetical protein BH2548 TR:Q9K9U7 (EMBL:AP001515) (84 aa) fasta scores: E(): 8.2e-12, 46.988% id in 83 aa
YP_040578.1	Similar to Bacillus halodurans hypothetical protein BH2547 TR:Q9K9U8 (EMBL:AP001515) (258 aa) fasta scores: E(): 7.5e-40, 48.193% id in 249 aa, and to Bacillus subtilis hypothetical protein YlmH TR:P71020 (EMBL:U60901) (257 aa) fasta scores: E(): 4.6e-33, 40.079% id in 252 aa
YP_040579.1	Similar to Bacillus subtilis minicell-associated protein DivIVA TR:P71021 (EMBL:U60901) (164 aa) fasta scores: E(): 1.9e-17, 41.139% id in 158 aa, and to Bacillus halodurans cell-division initiation protein BH2546 TR:Q9K9U9 (EMBL:AP001515) (165 aa) fasta scores: E(): 2.8e-14, 35.570% id in 149 aa. Contains coiled-coiled domain, residues 36 to 53
YP_040580.1	IleRS; catalyzes the formation of isoleucyl-tRNA(Ile) from isoleucine and tRNA(Ile); since isoleucine and other amino acids such as valine are similar, there are additional editing function in this enzyme; one is involved in hydrolysis of activated valine-AMP and the other is involved in deacylation of mischarged Val-tRNA(Ile); there are two active sites, one for aminoacylation and one for editing; class-I aminoacyl-tRNA synthetase type 1 subfamily; some organisms carry two different copies of this enzyme
YP_040581.1	Identical to Staphylococcus aureus transposase TR:O87114 (EMBL:AB010124) (328 aa) fasta scores: E(): 2.7e-127, 100.000% id in 315 aa, and similar to Bacillus halodurans transposase BH3503 TR:Q9JWR3 (EMBL:AP001520) (314 aa) fasta scores: E(): 2.9e-71, 58.413% id in 315 aa
YP_040582.1	N-terminal region is similar to Rhodococcus globerulus  biphenyl-2,3-diol 1,2-dioxygenase III bphC3 SW:BHC3_RHOGO (P47233) (189 aa) fasta scores: E(): 0.011, 23.837% id in 172 aa. Full length CDS is similar to Rhizobium loti hypothetical protein MLR0078 TR:BAB47738 (EMBL:AP002994) (270 aa) fasta scores: E(): 2.6e-15, 27.273% id in 253 aa
YP_040583.1	lipoprotein signal peptidase; integral membrane protein that removes signal peptides from prolipoproteins during lipoprotein biosynthesis
YP_040584.1	Similar to Bacillus subtilis hypothetical protein YlyB SW:YLYB_BACSU (Q45480) (303 aa) fasta scores: E(): 5.9e-76, 65.217% id in 299 aa, and to Bacillus halodurans hypothetical protein BH2542 TR:Q9K9V3 (EMBL:AP001515) (305 aa) fasta scores: E(): 1.6e-69, 61.538% id in 299 aa
YP_040585.1	regulates pyrimidine biosynthesis by binding to the mRNA of the pyr genes, also has been shown to have uracil phosphoribosyltransferase activity
YP_040586.1	Similar to Bacillus subtilis uracil permease PyrP SW:PYRP_BACSU (P39766) (434 aa) fasta scores: E(): 3.9e-74, 55.504% id in 427 aa, and to Bacillus caldolyticus uracil permease PyrP SW:PYRP_BACCL (P41006) (432 aa) fasta scores: E(): 4.8e-82, 58.993% id in 417 aa
YP_040587.1	catalyzes the transfer of the carbamoyl moiety from carbamoyl phosphate to L- aspartate in pyrimidine biosynthesis
YP_040588.1	catalyzes the formation of N-carbamoyl-L-aspartate from (S)-dihydroorotate in pyrimidine biosynthesis
YP_040589.1	catalyzes production of carbamoyl phosphate from bicarbonate and glutamine in pyrimidine and arginine biosynthesis pathways; forms an octamer composed of four CarAB dimers
YP_040590.1	four CarB-CarA dimers form the carbamoyl phosphate synthetase holoenzyme that catalyzes the production of carbamoyl phosphate; CarB is responsible for the amidotransferase activity
YP_040591.1	type 1 subfamily; involved in last step of pyrimidine biosynthesis; converts orotidine 5'-phosphate to UMP and carbon dioxide; OMP decarboxylase; OMPDCase; OMPdecase
YP_040592.1	involved in fifth step of pyrimidine biosynthesis; converts orotidine 5'-phosphate and diphosphate to orotate and 5-phospho-alpha-D-ribose 1-diphosphate
YP_040594.1	Similar to Pseudomonas aeruginosa hypothetical protein PA1358 TR:Q9I3Y6 (EMBL:AE004565) (132 aa) fasta scores: E(): 1.9e-15, 40.625% id in 128 aa, and to the N-terminal region of Rhizobium loti hypothetical protein MLL5357 TR:BAB51820 (EMBL:AP003006) (156 aa) fasta scores: E(): 9e-06, 35.115% id in 131 aa
YP_040595.1	Similar to Bacillus subtilis  fibronectin-binding protein YloA TR:O34693 (EMBL:AJ000974) (572 aa) fasta scores: E(): 2.2e-91, 46.410% id in 571 aa, and to Bacillus halodurans possible fibronectin/fibrinogen-binding protein BH2516 TR:Q9K9X8 (EMBL:AP001515) (570 aa) fasta scores: E(): 8.1e-88, 44.386% id in 570 aa. Contains coiled-coiled domain, residues 296 to 312
YP_040596.1	Essential for recycling GMP and indirectly, cGMP
YP_040597.1	Promotes RNA polymerase assembly; latches the N- and C-terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits
YP_040598.1	Similar to Bacillus halodurans flavoprotein BH2510 TR:Q9K9Y4 (EMBL:AP001515) (404 aa) fasta scores: E(): 6.3e-76, 53.083% id in 373 aa, and to Bacillus subtilis hypothetical protein YloI TR:O35033 (EMBL:Z99112) (406 aa) fasta scores: E(): 1.4e-75, 54.315% id in 394 aa
YP_040599.1	Similar to Escherichia coli primosomal protein n' PriA SW:PRIA_ECOLI (P17888) (732 aa) fasta scores: E(): 8.6e-76, 35.115% id in 786 aa, and to Bacillus subtilis primosomal protein n' PriA SW:PRIA_BACSU (P94461) (805 aa) fasta scores: E(): 1.3e-151, 50.619% id in 808 aa
YP_040600.1	Poor database matches. C-terminus is similar to internal region of Bacillus subtilis hypothetical protein YkvD protein ykvD TR:O31671 (EMBL:Z99111) (506 aa) fasta scores: E(): 6.4, 23.194% id in 263 aa
YP_040601.1	Poor database matches. Similar to Borrelia burgdorferi conserved hypothetical protein BBQ01 TR:Q9S015 (EMBL:AE001584) (89 aa) fasta scores: E(): 0.0016, 31.818% id in 88 aa. C-terminus is similar to the N-terminal region of Synechocystis sp hypothetical protein SLL0498 TR:Q55491 (EMBL:D64006) (150 aa) fasta scores: E(): 2.3e-06, 52.000% id in 50 aa. C-terminus is similar to the C-terminal region of SAR1013, 58.209% identity (59.091% ungapped) in 67 aa overlap
YP_040602.1	cleaves off formyl group from N-terminal methionine residues of newly synthesized proteins; binds iron(2+)
YP_040603.1	Similar to Escherichia coli methionyl-tRNA formyltransferase Fmt SW:FMT_ECOLI (P23882) (314 aa) fasta scores: E(): 9.7e-41, 39.228% id in 311 aa, and to Bacillus halodurans methionyl-tRNA formyltransferase BH2508 TR:Q9K9Y6 (EMBL:AP001515) (317 aa) fasta scores: E(): 7.4e-66, 59.355% id in 310 aa
YP_040604.1	Similar to Escherichia coli protein hypothetical protein Sun SW:SUN_ECOLI (P36929) (429 aa) fasta scores: E(): 7.7e-31, 29.306% id in 447 aa, and to Bacillus subtilis hypothetical protein Sun SW:SUN_BACSU (P94464) (447 aa) fasta scores: E(): 1.4e-58, 40.724% id in 442 aa
YP_040605.1	23S rRNA m2A2503 methyltransferase; methylates the C2 position of the A2530 nucleotide in 23S rRNA; may be involved in antibiotic resistance
YP_040606.1	Similar to Bacillus halodurans hypothetical protein BH2505 TR:Q9K9Y9 (EMBL:AP001515) (249 aa) fasta scores: E(): 3.2e-33, 42.917% id in 240 aa, and to Bacillus subtilis hypothetical protein YloO TR:O34779 (EMBL:Z99112) (254 aa) fasta scores: E(): 1.6e-30, 42.324% id in 241 aa
YP_040607.1	N-terminus is similar to N-terminal region of Myxococcus xanthus serine/threonine-protein kinase Pkn1 SW:PKN1_MYXXA (P33973) (693 aa) fasta scores: E(): 8.5e-23, 34.317% id in 271 aa. Previously sequenced as Staphylococcus aureus protein kinase PknB TR:Q9KX10 (EMBL:Y13639) (388 aa) fasta scores: E(): 7e-131, 100.000% id in 388 aa
YP_040608.1	Similar to Bacillus subtilis hypothetical protein YloQ TR:O34530 (EMBL:Z99112) (298 aa) fasta scores: E(): 9.8e-44, 44.667% id in 300 aa, and to Lactococcus lactis hypothetical protein YuaD TR:Q9CEB7 (EMBL:AE006423) (307 aa) fasta scores: E(): 4e-43, 45.302% id in 298 aa
YP_040609.1	Similar to Spinacia oleracea ribulose-phosphate 3-epimerase precursor Rpe SW:RPE_SPIOL (Q43157) (285 aa) fasta scores: E(): 6.6e-36, 51.905% id in 210 aa, and to Bacillus halodurans ribulose-phosphate 3-epimerase BH2502 TR:Q9K9Z2 (EMBL:AP001515) (216 aa) fasta scores: E(): 3.2e-41, 54.673% id in 214 aa. The S. oleracea protein is extented by 60 residues at the N-terminus
YP_040610.1	Similar to Bacillus subtilis hypothetical protein YloS TR:O34664 (EMBL:Z99112) (214 aa) fasta scores: E(): 4.4e-27, 43.192% id in 213 aa. Internal region of the CDS is similar to an internal region of Mus musculus thiamin pyrophosphokinase TPK1 TR:Q9R0M5 (EMBL:AB027568) (243 aa) fasta scores: E(): 4.9e-05, 26.087% id in 161 aa
YP_040611.1	required for 70S ribosome assembly
YP_040612.1	Similar to Bacillus subtilis hypothetical protein YloU TR:O34318 (EMBL:Z99112) (120 aa) fasta scores: E(): 8.7e-26, 60.504% id in 119 aa, and to Bacillus halodurans hypothetical protein BH2499 TR:Q9K9Z5 (EMBL:AP001515) (120 aa) fasta scores: E(): 1.7e-24, 55.462% id in 119 aa
YP_040613.1	Similar to Bacillus subtilis hypothetical protein YloV TR:O34751 (EMBL:Z99112) (553 aa) fasta scores: E(): 1.6e-111, 55.354% id in 551 aa, and to Bacillus halodurans hypothetical protein BH2498 TR:Q9K9Z6 (EMBL:AP001515) (557 aa) fasta scores: E(): 7.4e-105, 52.338% id in 556 aa
YP_040614.1	catalyzes branch migration in Holliday junction intermediates
YP_040615.1	negative regulator of genes involved in fatty acid and phospholipid biosynthesis for gram positive bacteria
YP_040616.1	involved in acylation of glycerol-3-phosphate to form 1-acyl-glycerol-3 phosphate for use in phospholipid biosynthesis; functions with PlsY
YP_040617.1	Similar to Escherichia coli malonyl CoA-acyl carrier protein transacylase FabD SW:FABD_ECOLI (P25715) (308 aa) fasta scores: E(): 9e-38, 39.931% id in 288 aa, and to Bacillus subtilis malonyl CoA-acyl carrier protein transacylase FabD SW:FABD_BACSU (P71019) (317 aa) fasta scores: E(): 6.3e-47, 46.711% id in 304 aa
YP_040618.1	Similar to Bacillus subtilis 3-oxoacyl-[acyl-carrier protein] reductase FabG SW:FABG_BACSU (P51831) (246 aa) fasta scores: E(): 1.2e-54, 64.228% id in 246 aa, and to Bacillus halodurans 3-oxoacyl-[acyl-carrier protein] reductase BH2491 TR:Q9KA03 (EMBL:AP001515) (246 aa) fasta scores: E(): 1.8e-55, 67.886% id in 246 aa
YP_040619.1	carries the fatty acid chain in fatty acid biosynthesis
YP_040620.1	cytoplasmic enzyme involved in processing rRNA and some mRNAs; substrates typically have dsRNA regions; forms a homodimer; have N-terminal nuclease and C-terminal RNA-binding domains; requires magnesium as preferred ion for activity
YP_040621.1	Similar to Bacillus subtilis chromosome partition protein Smc SW:SMC_BACSU (P51834) (1186 aa) fasta scores: E(): 5.6e-123, 42.366% id in 1192 aa, and to Gallus gallus chromosome scaffold protein SciI SW:SCII_CHICK (Q90988) (1189 aa) fasta scores: E(): 7.6e-41, 23.977% id in 1197 aa. CDS contains several coiled-coiled domains, between residues 246 to 470 and 687 to 903
YP_040622.1	Internal region is similar to Bacillus subtilis cell division protein FtsY homologue Srb SW:FTSY_BACSU (P51835) (329 aa) fasta scores: E(): 8e-71, 69.470% id in 321 aa. Similar to the C-terminal region of Escherichia coli cell division protein FtsY SW:FTSY_ECOLI (P10121) (497 aa) fasta scores: E(): 6.7e-45, 44.063% id in 379 aa
YP_040623.1	Similar to Bacillus halodurans hypothetical protein BH2485 TR:Q9KA09 (EMBL:AP001515) (109 aa) fasta scores: E(): 2e-16, 57.143% id in 105 aa, and to Bacillus subtilis hypothetical protein YlxM SW:YLXM_BACSU (P37104) (110 aa) fasta scores: E(): 5.2e-16, 54.630% id in 108 aa
YP_040624.1	Similar to Bacillus subtilis signal recognition particle protein Ffh SW:SR54_BACSU (P37105) (446 aa) fasta scores: E(): 8.5e-105, 70.110% id in 455 aa, and to Escherichia coli, and signal recognition particle protein Ffh TR:AAG57721 (EMBL:X01818) (453 aa) fasta scores: E(): 9.5e-74, 51.214% id in 453 aa
YP_040625.1	binds to lower part of 30S body where it stabilizes two domains; required for efficient assembly of 30S; in Escherichia coli this protein has nuclease activity
YP_040626.1	Essential for efficient processing of 16S rRNA
YP_040627.1	methylates guanosine-37 in various tRNAs; uses S-adenosyl-L-methionine to transfer methyl group to tRNA
YP_040628.1	this protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site
YP_040629.1	Similar to Bacillus subtilis hypothetical protein YfhO TR:O31582 (EMBL:Z99108) (819 aa) fasta scores: E(): 1.7e-57, 28.193% id in 830 aa, and to Streptococcus pyogenes hypothetical protein SPY2211 TR:Q99XH1 (EMBL:AE006638) (858 aa) fasta scores: E(): 7.2e-05, 20.465% id in 904 aa. CDS extended at the N-terminus in comparison to the B. subtilis protein
YP_040630.1	essential GTPase; functions in ribosome assembly; binds a unique part of the 23S rRNA; interacts with ribosomal protein L25(Ctc)
YP_040631.1	RNH2; RNase HII; binds manganese; endonuclease which specifically degrades the RNA of RNA-DNA hybrids
YP_040632.1	catalyzes the interconversion of succinyl-CoA and succinate
YP_040633.1	Catalyzes the only substrate-level phosphorylation in the TCA cycle
YP_040634.1	Similar to Staphylococcus aureus  cell wall hydrolase LytN TR:Q9ZNI1 (EMBL:AB015195) (383 aa) fasta scores: E(): 7.4e-138, 96.345% id in 383 aa. C-terminus is similar to the N-terminal region of bacteriophage phi ETA Orf65 TR:Q9FZY0 (EMBL:AP001553) (470 aa) fasta scores: E(): 1.4e-19, 45.714% id in 140 aa
YP_040635.1	Similar to Staphylococcus simulans lysostaphin immunity factor Lif TR:O05989 (EMBL:U66883) (413 aa) fasta scores: E(): 1.3e-89, 56.174% id in 413 aa, and to Staphylococcus aureus hypothetical protein FmhC TR:Q9S685 (EMBL:AF106851) (414 aa) fasta scores: E(): 1.3e-153, 99.275% id in 414 aa. Similar to SAR2501, 60.934% identity (60.934% ungapped) in 407 aa overlap
YP_040636.1	Similar to Bacillus halodurans  DNA processing protein BH2468 TR:Q9KA22 (EMBL:AP001515) (302 aa) fasta scores: E(): 4.1e-29, 41.880% id in 234 aa, and to Bacillus subtilis DNA processing Smf protein homologue SW:SMF_BACSU (P39813) (297 aa) fasta scores: E(): 8.5e-29, 40.455% id in 220 aa
YP_040637.1	catalyzes the ATP-dependent breakage of single-stranded DNA followed by passage and rejoining, maintains net negative superhelicity
YP_040638.1	TrmFO; Gid; glucose-inhibited division protein; similar to GidA; the gene from Bacillus subtilis encodes a tRNA-methyltransferase that utilizes folate as the carbon donor and bound flavin as reductant; modifies tRNA at position 54 (uridine) of the T-psi loop to form a C5-methyluridine
YP_040639.1	Similar to Escherichia coli integrase/recombinase XerD SW:XERD_ECOLI (P21891) (298 aa) fasta scores: E(): 8.1e-32, 39.175% id in 291 aa, and to Bacillus subtilis probable integrase/recombinase CodV SW:CODV_BACSU (P39776) (304 aa) fasta scores: E(): 4.4e-47, 45.485% id in 299 aa
YP_040640.1	heat shock protein involved in degradation of misfolded proteins
YP_040641.1	heat shock protein involved in degradation of misfolded proteins
YP_040642.1	CodY; DNA-binding protein that represses the expression of many genes that are induced as cells make the transition from rapid exponential growth to stationary phase (By similarity). It is a GTP-binding protein that senses the intracellular GTP concentration as an indicator of nutritional limitations. At low GTP concentration it no longer binds GTP and stop to act as a transcriptional repressor
YP_040643.1	one of the last subunits in the assembly of the 30S subunit; absence of S2 does not inhibit assembly but results in an inactive subunit
YP_040644.1	EF-Ts; functions during elongation stage of protein translation; forms a dimer; associates with EF-Tu-GDP complex and promotes exchange of GDP to GTP resulting in regeneration of the active form of EF-Tu
YP_040645.1	Catalyzes the phosphorylation of UMP to UDP
YP_040646.1	Rrf; Frr; ribosome-recycling factor; release factor 4; RF4; recycles ribosomes upon translation termination along with release factor RF-3 and elongation factor EF-G; A GTPase-dependent process results in release of 50S from 70S; inhibited by release factor RF-1; essential for viability; structurally similar to tRNAs
YP_040647.1	catalyzes the formation of UDP pyrophosphate from isopentenyl pyrophosphate
YP_040648.1	Similar to Escherichia coli phosphatidate cytidylyltransferase CdsA SW:CDSA_ECOLI (P06466) (249 aa) fasta scores: E(): 2.7e-18, 35.455% id in 220 aa, and to Bacillus subtilis phosphatidate cytidylyltransferase CdsA SW:CDSA_BACSU (O31752) (269 aa) fasta scores: E(): 3.7e-40, 46.565% id in 262 aa
YP_040649.1	Similar to Bacillus subtilis hypothetical protein YluC TR:O31754 (EMBL:Z99112) (422 aa) fasta scores: E(): 1.4e-64, 42.494% id in 433 aa, and to Bacillus halodurans hypothetical protein BH2420 TR:Q9KA70 (EMBL:AP001515) (420 aa) fasta scores: E(): 1.7e-58, 40.326% id in 429 aa
YP_040650.1	catalyzes the formation of prolyl-tRNA(Pro) from proline and tRNA(Pro)
YP_040651.1	catalyzes DNA-template-directed extension of the 3'- end of a DNA strand by one nucleotide at a time; required for leading strand synthesis; PolC exhibits 3' to 5' exonuclease activity
YP_040652.1	in Streptococcus pneumoniae this gene was found to be essential; structure determination of the Streptococcus protein shows that it is similar to a number of other proteins
YP_040653.1	modifies transcription through interactions with RNA polymerase affecting elongation, readthrough, termination, and antitermination
YP_040654.1	Similar to Bacillus halodurans hypothetical protein BH2415 TR:Q9KA75 (EMBL:AP001515) (91 aa) fasta scores: E(): 7.4e-11, 46.988% id in 83 aa, and to Bacillus subtilis hypothetical protein YlxR SW:YLXR_BACSU (P32728) (91 aa) fasta scores: E(): 7.4e-11, 45.161% id in 93 aa
YP_040655.1	Similar to Gallus gallus 60S ribosomal protein L30 SW:RL30_CHICK (P47833) (114 aa) fasta scores: E(): 0.0062, 33.333% id in 102 aa, and to Bacillus subtilis probable ribosomal protein YlxQ SW:YLXQ_BACSU (P32729) (100 aa) fasta scores: E(): 5.6e-15, 50.000% id in 100 aa
YP_040656.1	Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits during initiation of protein synthesis. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex
YP_040657.1	associates with free 30S ribosomal subunits; essential for efficient processing of 16S rRNA; in Escherichia coli rbfA is induced by cold shock
YP_040658.1	catalyzes isomerization of specific uridines in RNA to pseudouridine; responsible for residues in T loops of many tRNAs
YP_040659.1	Similar to Bacillus subtilis riboflavin biosynthesis protein RibC [includes: riboflavin kinase, FMN adenylyltransferase] RibC SW:RIBC_BACSU (P54575) (316 aa) fasta scores: E(): 8.9e-46, 44.660% id in 309 aa, and to Bacillus halodurans  riboflavin biosynthesis protein BH2409 TR:Q9KA81 (EMBL:AP001515) (313 aa) fasta scores: E(): 3.4e-43, 42.903% id in 310 aa
YP_040660.1	primary rRNA binding protein; helps nucleate assembly of 30S; binds directly to the 16S rRNA and an intersubunit bridge to the 23S rRNA; autoregulates translation through interactions with the mRNA leader sequence
YP_040661.1	Similar to Bacillus subtilis polyribonucleotide nucleotidyltransferase PnpA SW:PNP_BACSU (P50849) (704 aa) fasta scores: E(): 4.3e-165, 68.012% id in 694 aa, and to Bacillus halodurans polynucleotide phosphorylase BH2407 TR:Q9KA83 (EMBL:AP001515) (704 aa) fasta scores: E(): 4.1e-163, 66.523% id in 696 aa
YP_040662.1	Similar to Bacillus halodurans hypothetical protein BH2398 TR:Q9KA92 (EMBL:AP001515) (555 aa) fasta scores: E(): 1.1e-106, 50.090% id in 555 aa, and to Bacillus subtilis hypothetical protein YmfA TR:O31760 (EMBL:Z99112) (515 aa) fasta scores: E(): 7.4e-100, 49.320% id in 515 aa
YP_040663.1	Similar to Bacillus subtilis stage III sporulation protein E SpoIIIE SW:SP3E_BACSU (P21458) (787 aa) fasta scores: E(): 4.6e-110, 48.111% id in 794 aa, and to Bacillus halodurans SpoIIIE protein BH2395 TR:Q9KA95 (EMBL:AP001515) (789 aa) fasta scores: E(): 2.1e-110, 47.975% id in 790 aa
YP_040664.1	Similar to Bacillus subtilis hypothetical transcriptional regulator YmfC SW:YMFC_BACSU (O31761) (241 aa) fasta scores: E(): 2.9e-21, 34.335% id in 233 aa, and to Bacillus halodurans transcriptional regulator BH2394 TR:Q9KA96 (EMBL:AP001515) (242 aa) fasta scores: E(): 6.5e-20, 35.681% id in 213 aa
YP_040665.1	Similar to Bacillus halodurans hypothetical protein BH2393 TR:Q9KA97 (EMBL:AP001515) (431 aa) fasta scores: E(): 2.3e-44, 34.211% id in 418 aa, and to Lactococcus lactis protease YueF TR:Q9CE72 (EMBL:AE006427) (418 aa) fasta scores: E(): 1.5e-32, 30.542% id in 406 aa
YP_040666.1	Similar to Bacillus subtilis hypothetical protein YmfH TR:O31766 (EMBL:Z99112) (415 aa) fasta scores: E(): 1.1e-67, 46.530% id in 389 aa, and to Bacillus halodurans hypothetical protein BH2392 TR:Q9KA98 (EMBL:AP001515) (432 aa) fasta scores: E(): 2.5e-64, 42.298% id in 409 aa
YP_040667.1	Similar to Alcaligenes eutrophus acetoacetyl-CoA reductase PhbB SW:PHBB_ALCEU (P14697) (246 aa) fasta scores: E(): 1.9e-16, 31.120% id in 241 aa, and to Bacillus halodurans 3-oxoacyl-[acyl carrier protein] reductase BH2391 TR:Q9KA99 (EMBL:AP001515) (242 aa) fasta scores: E(): 8.1e-24, 35.021% id in 237 aa
YP_040668.1	Similar to Bacillus halodurans hypothetical protein BH2389 TR:Q9KAA1 (EMBL:AP001515) (257 aa) fasta scores: E(): 9.6e-57, 61.983% id in 242 aa. Internal region is similar to Bacillus subtilis hypothetical protein TR:P94509 (EMBL:U87792) (158 aa) fasta scores: E(): 5.8e-35, 70.290% id in 138 aa
YP_040669.1	Similar to the N-terminal regions of Bacillus subtilis hypothetical protein TR:P94510 (EMBL:U87792) (307 aa) fasta scores: E(): 2e-05, 31.200% id in 125 aa, and Bacillus halodurans hypothetical protein BH2388 TR:Q9KAA2 (EMBL:AP001515) (283 aa) fasta scores: E(): 0.0014, 29.825% id in 114 aa
YP_040670.1	Similar to Bacillus subtilis CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase PgsA SW:PGSA_BACSU (P46322) (193 aa) fasta scores: E(): 5.4e-28, 48.677% id in 189 aa, and to Bacillus halodurans phosphatidylglycerophosphate synthase BH2386 TR:Q9KAA4 (EMBL:AP001515) (192 aa) fasta scores: E(): 1.7e-28, 50.000% id in 194 aa
YP_040671.1	Similar to Bacillus subtilis CinA-like protein CinA SW:CINA_BACSU (P46323) (416 aa) fasta scores: E(): 2e-44, 41.133% id in 406 aa, and to Bacillus halodurans competence-damage inducible protein BH2385 TR:Q9KAA5 (EMBL:AP001515) (420 aa) fasta scores: E(): 3.5e-43, 39.518% id in 415 aa
YP_040672.1	catalyzes the hydrolysis of ATP in the presence of single-stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs
YP_040673.1	protein from Staphylococcus aureus has phosphodiesterase activity against 2'-3'-cAMP and 2'-3'-cGMP
YP_040675.1	Similar to Bacillus subtilis hypothetical protein YmdB TR:O31775 (EMBL:Z99112) (264 aa) fasta scores: E(): 5.4e-66, 65.019% id in 263 aa, and to Bacillus halodurans hypothetical protein BH2376 TR:Q9KAB3 (EMBL:AP001515) (264 aa) fasta scores: E(): 4.2e-59, 58.555% id in 263 aa
YP_040676.1	Similar to Bacillus halodurans pyruvate synthase alpha subunit BH2374 TR:Q9KAB5 (EMBL:AP001515) (579 aa) fasta scores: E(): 1.4e-137, 63.903% id in 579 aa, and to Halobacterium sp pyruvate ferredoxin oxidoreductase alpha subunit VNG0474G TR:Q9HRZ5 (EMBL:AE005001) (582 aa) fasta scores: E(): 9.2e-80, 39.619% id in 578 aa
YP_040677.1	catalyzes the coenzyme A dependent formation of succinyl-CoA from 2-oxoglutarate and ferredoxin
YP_040678.1	Similar to Bacillus halodurans hypothetical protein BH3874 TR:Q9K658 (EMBL:AP001520) (92 aa) fasta scores: E(): 6.3e-07, 30.769% id in 91 aa, and to Clostridium perfringens hypothetical protein SW:YVI2_CLOPE (Q46213) (95 aa) fasta scores: E(): 1.1e-05, 32.222% id in 90 aa
YP_040679.1	catalyzes the formation of 2-methylthio-N6-(dimethylallyl)adenosine (ms(2)i(6)A) at position 37 in tRNAs that read codons beginning with uridine from N6-(dimethylallyl)adenosine (i(6)A)
YP_040680.1	Similar to Bacillus subtilis hypothetical protein YmcA TR:O31779 (EMBL:Z99112) (143 aa) fasta scores: E(): 6.3e-10, 33.628% id in 113 aa, and to Bacillus halodurans hypothetical protein BH2371 TR:Q9KAB8 (EMBL:AP001515) (146 aa) fasta scores: E(): 3.2e-09, 32.743% id in 113 aa
YP_040681.1	Similar to Pyrococcus horikoshii hypothetical protein PH0159 SW:Y159_PYRHO (O57898) (162 aa) fasta scores: E(): 0.21, 29.114% id in 158 aa, and to Aeropyrum pernix hypothetical protein APE2411 TR:Q9Y974 (EMBL:AP000064) (197 aa) fasta scores: E(): 1.7e-09, 33.537% id in 164 aa
YP_040682.1	This protein performs the mismatch recognition step during the DNA repair process
YP_040683.1	This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. Promotes the formation of a stable complex between two or more DNA-binding proteins in an ATP-dependent manner without itself being part of a final effector complex
YP_040684.1	Similar to Bacillus subtilis glycerol uptake operon antiterminator regulatory protein GlpP SW:GLPP_BACSU (P30300) (192 aa) fasta scores: E(): 3.1e-26, 42.614% id in 176 aa, and to Bacillus halodurans transcriptional antiterminator of glycerol uptake operon BH1091 TR:Q9KDX0 (EMBL:AP001510) (183 aa) fasta scores: E(): 7e-26, 43.503% id in 177 aa
YP_040685.1	Doubtful CDS. No significant database hits
YP_040686.1	Similar to Bacillus subtilis glycerol uptake facilitator protein GlpF SW:GLPF_BACSU (P18156) (274 aa) fasta scores: E(): 3.2e-55, 59.542% id in 262 aa, and to Bacillus halodurans glycerol uptake facilitator BH1092 TR:Q9KDW9 (EMBL:AP001510) (276 aa) fasta scores: E(): 1.9e-54, 60.967% id in 269 aa
YP_040687.1	Converts glycerol and ADP to glycerol-3-phosphate and ADP
YP_040688.1	Similar to Bacillus subtilis aerobic glycerol-3-phosphate dehydrogenase GlpD SW:GLPD_BACSU (P18158) (555 aa) fasta scores: E(): 6.8e-126, 61.538% id in 546 aa, and to Bacillus halodurans glycerol-3-phosphate dehydrogenase BH1095 TR:Q9KDW6 (EMBL:AP001510) (553 aa) fasta scores: E(): 1.2e-114, 56.960% id in 546 aa. Possible alternative translational start site
YP_040689.1	Similar to Pseudomonas aeruginosa hypothetical protein PA3301 TR:Q9HYU2 (EMBL:AE004752) (316 aa) fasta scores: E(): 1.6e-25, 30.519% id in 308 aa, and to Rhizobium loti hypothetical protein MLR1612 TR:BAB48946 (EMBL:AP002997) (309 aa) fasta scores: E(): 6.4e-19, 26.871% id in 294 aa
YP_040690.1	IPP transferase; isopentenyltransferase; involved in tRNA modification; in Escherichia coli this enzyme catalyzes the addition of a delta2-isopentenyl group from dimethylallyl diphosphate to the N6-nitrogen of adenosine adjacent to the anticodon of tRNA species that read codons starting with uracil; further tRNA modifications may occur; mutations in miaA result in defects in translation efficiency and fidelity
YP_040691.1	Similar to Escherichia coli host factor-I for bacteriophage Q beta replication, Hfq TR:BAB38571 (EMBL:D00743) (102 aa) fasta scores: E(): 0.00013, 33.871% id in 62 aa, and to Bacillus halodurans host factor-1 protein BH2365 TR:Q9KAC4 (EMBL:AP001515) (78 aa) fasta scores: E(): 9.6e-11, 44.737% id in 76 aa
YP_040692.1	Similar to Hordeum vulgare glutathione peroxidase TR:Q9SME4 (EMBL:AJ238745) (165 aa) fasta scores: E(): 2.8e-31, 50.955% id in 157 aa, and to Bacillus halodurans glutathione peroxidase homologue BH2830 SW:BSAA_BACHD (Q9Z9N7) (157 aa) fasta scores: E(): 5.1e-34, 57.051% id in 156 aa. Similar to SAR2699, 50.323% identity (50.323% ungapped) in 155 aa overlap
YP_040693.1	Similar to Bacillus halodurans hypothetical protein BH2362 TR:Q9KAC7 (EMBL:AP001515) (418 aa) fasta scores: E(): 2.6e-62, 46.287% id in 404 aa, and to Streptococcus pyogenes  GTP-binding protein SPY0922 TR:Q9A058 (EMBL:AE006541) (412 aa) fasta scores: E(): 6.1e-60, 44.975% id in 398 aa
YP_040694.1	Similar to Arthrobacter viscosus aluminum resistance protein Alu-2 TR:O52647 (EMBL:AF043609) (422 aa) fasta scores: E(): 8.9e-93, 59.512% id in 410 aa, and to Bacillus subtilis hypothetical protein YnbB TR:P94479 (EMBL:U66480) (421 aa) fasta scores: E(): 7.2e-92, 60.827% id in 411 aa
YP_040695.1	Previously sequenced as Staphylococcus aureus glutamine synthetase repressor GlnR TR:Q53687 (EMBL:X76490) (122 aa) fasta scores: E(): 5.8e-42, 100.000% id in 122 aa. Similar to Streptococcus pyogenes transcriptional regulator SPY1878 TR:Q99Y40 (EMBL:AE006613) (123 aa) fasta scores: E(): 2.3e-12, 50.000% id in 100 aa
YP_040696.1	Previously sequenced as Staphylococcus aureus glutamine synthetase GlnA SW:GLNA_STAAU (Q59812) (446 aa) fasta scores: E(): 1.8e-181, 99.776% id in 446 aa. Similar to Bacillus subtilis glutamine synthetase GlnA SW:GLNA_BACSU (P12425) (443 aa) fasta scores: E(): 4.2e-141, 76.190% id in 441 aa
YP_040697.1	Similar to the N-terminal region of Streptococcus thermophilus temperate bacteriophage phi O1205 hypothetical protein Orf57 TR:O34088 (EMBL:U88974) (140 aa) fasta scores: E(): 3.4, 37.500% id in 48 aa. Probable gene remnant. Similar to SAR1302, 51.562% identity (51.562% ungapped) in 64 aa overlap
YP_040698.1	Poor database matches. Similar to hypothetical protein Bacillus subtilis YddJ TR:P96647 (EMBL:AB001488) (126 aa) fasta scores: E(): 0.027, 28.689% id in 122 aa
YP_040700.1	Poor database matches. Similar to Staphylococcus aureus conjugative plasmid pSK41  membrane protein TraG TR:Q52271 (EMBL:AF051917) (358 aa) fasta scores: E(): 3.7e-50, 44.828% id in 348 aa
YP_040701.1	Similar to Enterococcus faecalis hypothetical protein EP0024 TR:Q9F1H1 (EMBL:AE002565) (781 aa) fasta scores: E(): 1.7e-08, 22.727% id in 660 aa, and to Bacillus subtilis hypothetical protein YddG TR:P96644 (EMBL:AB001488) (815 aa) fasta scores: E(): 1.3e-06, 23.680% id in 663 aa
YP_040702.1	Similar to Bacillus subtilis hypothetical protein YdcQ TR:P96634 (EMBL:AB001488) (480 aa) fasta scores: E(): 2.3e-38, 32.379% id in 454 aa, and to Enterococcus faecalis conjugative transposon Tn916 hypothetical protein Orf21 TR:Q47727 (EMBL:U09422) (461 aa) fasta scores: E(): 1.2e-32, 30.283% id in 459 aa
YP_040703.1	Similar to Bacillus subtilis hypothetical protein YddE TR:P96642 (EMBL:AB001488) (831 aa) fasta scores: E(): 1.7e-121, 39.136% id in 833 aa, and to Enterococcus faecalis conjugative transposon Tn916 hypothetical protein Orf16 TR:Q47732 (EMBL:U09422) (815 aa) fasta scores: E(): 2e-17, 23.967% id in 847 aa
YP_040704.1	Similar to Enterococcus faecalis conjugative transposon Tn916 hypothetical protein Orf17 TR:Q47731 (EMBL:U09422) (168 aa) fasta scores: E(): 2, 29.703% id in 101 aa, and to the N-terminus of Bacillus subtilis hypothetical protein YddD TR:P96641 (EMBL:AB001488) (174 aa) fasta scores: E(): 0.0018, 20.000% id in 130 aa
YP_040705.1	Poor database matches. Similar to Bacillus subtilis hypothetical protein YddC TR:P96640 (EMBL:AB001488) (82 aa) fasta scores: E(): 0.013, 34.375% id in 64 aa
YP_040706.1	Poor database matches. Similar to Bacillus subtilis YddB protein yddB TR:O31491 (EMBL:Z99106) (354 aa) fasta scores: E(): 2.5e-18, 29.480% id in 346 aa
YP_040707.1	Similar to Bacillus subtilis hypothetical protein YdcR TR:P96635 (EMBL:AB001488) (352 aa) fasta scores: E(): 5.4e-42, 36.810% id in 326 aa, and to Enterococcus faecalis conjugative transposon Tn916 hypothetical protein Orf20 TR:Q47728 (EMBL:U09422) (329 aa) fasta scores: E(): 1.8e-31, 31.563% id in 339 aa
YP_040709.1	Similar to Bacillus subtilis hypothetical protein YdcP TR:P96633 (EMBL:AB001488) (126 aa) fasta scores: E(): 0.0019, 32.710% id in 107 aa, and to Enterococcus faecalis conjugative transposon Tn916 hypothetical protein Orf22 TR:Q47726 (EMBL:U09422) (128 aa) fasta scores: E(): 0.057, 28.440% id in 109 aa
YP_040710.1	Poor database matches. Similar to Yersinia pestis plasmid pMT-1 hypothetical protein Y1103 TR:Q9ZGY2 (EMBL:AF074611) (89 aa) fasta scores: E(): 1.8, 29.730% id in 74 aa
YP_040711.1	Poor database matches. Similar to Streptococcus pyogenes hypothetical protein SPY0544 TR:Q9A0Z3 (EMBL:AE006512) (69 aa) fasta scores: E(): 3.9, 33.333% id in 45 aa, and to the N-terminal region of Streptococcus thermophilus bacteriophage Sfi21 hypothetical protein Orf140b TR:O21989 (EMBL:X95646) (140 aa) fasta scores: E(): 0.48, 32.000% id in 50 aa. Similar to SAR1285, 51.562% identity (51.562% ungapped) in 64 aa overlap
YP_040712.1	Similar to the N-terminal regions of Streptococcus thermophilus bacteriophage Sfi21 hypothetical protein Orf140b protein TR:O21989 (EMBL:X95646) (140 aa) fasta scores: E(): 1.3, 29.310% id in 58 aa, and to bacteriophage PM2 hypothetical protein TR:Q9XJS6 (EMBL:AF155037) (92 aa) fasta scores: E(): 2.9, 34.483% id in 29 aa. Similar to SAR1137, 54.545% identity (54.545% ungapped) in 66 aa overlap
YP_040713.1	Similar to Escherichia coli O157:H7  DNA transposition protein ECS4946 TR:BAB38369 (EMBL:AP002567) (310 aa) fasta scores: E(): 0.64, 36.066% id in 61 aa, and to bacteriophage APSE-1 hypothetical protein p2 SW:VP02_BPAPS (Q9T1U6) (94 aa) fasta scores: E(): 4.9, 35.714% id in 56 aa
YP_040714.1	Similar to Staphylococcus aureus transposase TR:O87114 (EMBL:AB010124) (328 aa) fasta scores: E(): 1.4e-126, 99.683% id in 315 aa, and to Bacillus halodurans transposase BH3503 TR:Q9JWR3 (EMBL:AP001520) (314 aa) fasta scores: E(): 1.5e-70, 58.095% id in 315 aa
YP_040717.1	Poor database matches. Similar to Bacillus anthracis plasmid pXO2 hypothetical protein pXO2-07 TR:Q9RN25 (EMBL:AF188935) (202 aa) fasta scores: E(): 5.5, 28.467% id in 137 aa. N-terminal region is similar to SAR1315, 98.462% identity (98.462% ungapped) in 65 aa overlap, SAR1318, 92.500% identity (92.500% ungapped) in 40 aa overlap, and SAR1324, 81.633% identity (83.333% ungapped) in 49 aa overlap
YP_040718.1	Poor database matches. Similar to the N-terminal region of Schizosaccharomyces pombe hypothetical protein SPBC23G7.01c TR:O94752 (EMBL:AL035077) (454 aa) fasta scores: E(): 1.4, 35.938% id in 64 aa. Similar to SAR1317, 50.820% identity (50.820% ungapped) in 61 aa overlap
YP_040719.1	No significant database matches. C-terminal region is similar to SAR1322, 53.125% identity (54.255% ungapped) in 96 aa overlap. N-terminus is similar to C-terminal region of SAR1321, 92.453% identity (92.453% ungapped) in 53 aa overlap. Possible alternative translational start
YP_040720.1	Poor database matches. Similar to internal region of bacteriophage TP901-1 hypothetical protein Orf33 TR:Q9AZ64 (EMBL:AF304433) (564 aa) fasta scores: E(): 0.0027, 35.821% id in 67 aa. Similar to SAR1312, 98.462% identity (98.462% ungapped) in 65 aa overlap, SAR1318, 92.500% identity (92.500% ungapped) in 40 aa overlap, and SAR1324, 81.633% identity (83.333% ungapped) in 49 aa overlap
YP_040722.1	No significant database matches. Similar to SAR1313, 50.820% identity (50.820% ungapped) in 61 aa overlap
YP_040723.1	Poor database matches. Similar to an internal region of bacteriophage hypothetical protein TP901-1 Orf33 TR:Q9AZ64 (EMBL:AF304433) (564 aa) fasta scores: E(): 0.017, 35.526% id in 76 aa. Similar to SAR1315, 92.500% identity (92.500% ungapped) in 40 aa overlap, SAR1312, 92.500% identity (92.500% ungapped) in 40 aa overlap, and SAR1324, 83.333% identity (83.333% ungapped) in 42 aa overlap
YP_040726.1	Poor database matches. Similar to the N-terminal region of Mycobacteriophage TM4 hypothetical protein gp8 TR:Q9ZX69 (EMBL:AF068845) (186 aa) fasta scores: E(): 3, 36.250% id in 80 aa
YP_040727.1	Poor database matches. Similar to internal region of Human rotavirus hypothetical protein VP3 TR:Q9IPG6 (EMBL:AB045215) (162 aa) fasta scores: E(): 4.9, 30.667% id in 75 aa. C-terminus is similar to the N-terminal region of SAR1314, 92.453% identity (92.453% ungapped) in 53 aa overlap
YP_040729.1	Poor database matches. Similar to C-terminal region of Lactococcus lactis bacteriophage Tuc2009 hypothetical protein TR:Q9AYW9 (EMBL:AF109874) (346 aa) fasta scores: E(): 0.39, 39.216% id in 51 aa. Similar to SAR1315, 81.633% identity (83.333% ungapped) in 49 aa overlap, SAR1318, 83.333% identity (83.333% ungapped) in 42 aa overlap, and to the N-terminal region of SAR1312, 81.633% identity (83.333% ungapped) in 49 aa overlap
YP_040730.1	Poor database matches. Similar to internal region of Ureaplasma parvum hypothetical protein UU376 SW:Y376_UREPA (Q9PQB5) (242 aa) fasta scores: E(): 3.4, 38.095% id in 63 aa
YP_040732.1	C-terminal region is similar to an internal region of Ashbya gossypii threonine aldolase Gly1 SW:GLY1_ASHGO (O74267) (382 aa) fasta scores: E(): 0.001, 23.183% id in 289 aa. Similar to Leishmania major hypothetical protein L4171.5 l4171.5 TR:O15839 (EMBL:AE001274) (359 aa) fasta scores: E(): 8e-48, 41.888% id in 339 aa
YP_040734.1	Similar to Lactococcus lactis cardiolipin synthase ClsB TR:Q9CGC3 (EMBL:AE006349) (487 aa) fasta scores: E(): 4.4e-67, 42.169% id in 498 aa, and to Bacillus subtilis probable cardiolipin synthetase 2 YwnE SW:CLS2_BACSU (P71040) (482 aa) fasta scores: E(): 9.6e-94, 50.000% id in 484 aa. Similar to SAR2177, 55.556% identity (56.144% ungapped) in 477 aa overlap
YP_040735.1	Similar to Bacillus subtilis hypothetical protein YvfR TR:O07016 (EMBL:Z94043) (301 aa) fasta scores: E(): 3.5e-21, 33.217% id in 286 aa, and to Bacillus licheniformis ABC transporter ATP binding subunit YvfR TR:Q9F5X5 (EMBL:AF302051) (299 aa) fasta scores: E(): 3.2e-17, 28.767% id in 292 aa
YP_040736.1	Similar to Bacillus cereus hypothetical protein YvfS TR:Q9L4F5 (EMBL:AJ243712) (239 aa) fasta scores: E(): 3.6e-20, 30.802% id in 237 aa, and to Bacillus subtilis hypothetical protein YvfS TR:O07017 (EMBL:Z94043) (245 aa) fasta scores: E(): 3.1e-17, 25.114% id in 219 aa
YP_040737.1	Two-component regulatory system family, sensor kinase. Similar to Salmonella typhimurium sensor protein UhpB SW:UHPB_SALTY (P27668) (500 aa) fasta scores: E(): 7.9e-06, 21.607% id in 361 aa, and to Bacillus cereus two-component sensor histidine kinase YvfT TR:Q9L4F4 (EMBL:AJ243712) (376 aa) fasta scores: E(): 1.5e-21, 29.178% id in 353 aa
YP_040738.1	Possible pseudogene. Two-component regulatory system family, response regulator protein. Similar to Streptococcus pneumoniae response regulator SP2000 TR:Q9S1I7 (EMBL:AJ006400) (199 aa) fasta scores: E(): 1.1e-20, 42.714% id in 199 aa, and to Bacillus halodurans two-component response regulator BH0581 TR:Q9KFA4 (EMBL:AP001509) (201 aa) fasta scores: E(): 7.5e-18, 42.289% id in 201 aa. CDS is smaller than other homologues, contains and internal deletion of approximately 30 amino acids.
YP_040740.1	Similar to Staphylococcus intermedius thermonuclease precursor NucI SW:NUC_STAIN (P43269) (168 aa) fasta scores: E(): 7.2e-32, 54.070% id in 172 aa, and to Staphylococcus hyicus thermonuclease precursor NucH SW:NUC_STAHY (P43270) (169 aa) fasta scores: E(): 1.9e-30, 53.672% id in 177 aa
YP_040743.1	catalyzes the formation of 4-phospho-L-aspartate from L-aspartate and ATP; lysine and threonine sensitive
YP_040744.1	catalyzes the formation of L-aspartate 4-semialdehyde from L-homoserine
YP_040745.1	catalyzes the formation of L-threonine from O-phospho-L-homoserine
YP_040746.1	catalyzes the formation of O-phospho-L-homoserine from L-homoserine in threonine biosynthesis from asparate
YP_040747.1	Similar to Vibrio cholerae hypothetical protein VC1364 TR:Q9KS95 (EMBL:AE004216) (273 aa) fasta scores: E(): 6.4e-22, 33.459% id in 266 aa, and to Lactococcus lactis hypothetical protein YkiF TR:Q9CGM1 (EMBL:AE006340) (271 aa) fasta scores: E(): 1.1e-20, 31.461% id in 267 aa
YP_040749.1	Similar to Escherichia coli lysine-specific permease LysP SW:LYSP_ECOLI (P25737) (488 aa) fasta scores: E(): 2.3e-76, 45.720% id in 479 aa, and to Lactococcus lactis lysine specific permease LysP TR:Q9CDM6 (EMBL:AE006448) (506 aa) fasta scores: E(): 1.4e-74, 44.650% id in 486 aa
YP_040750.1	Previously sequenced as Staphylococcus aureus subsp. anaerobius catalase TR:Q9L4S1 (EMBL:AJ000472) (505 aa) fasta scores: E(): 8.4e-210, 99.208% id in 505 aa. Similar to Staphylococcus warneri catalase TR:Q9KW19 (EMBL:AB045340) (505 aa) fasta scores: E(): 4.1e-195, 90.476% id in 504 aa
YP_040751.1	in Escherichia coli BM108, a mutation that results in lack of L33 synthesis had no effect on ribosome synthesis or function; there are paralogous genes in several bacterial genomes, and a CXXC motif for zinc binding and an upstream regulation region of the paralog lacking this motif that are regulated by zinc similar to other ribosomal proteins like L31; the proteins in this group lack the CXXC motif
YP_040752.1	located in the peptidyl transferase center and involved in assembly of 30S ribosome subunit; similar to what is observed with proteins L31 and L33, some proteins in this family contain CXXC motifs that are involved in zinc binding; if two copies are present in a genome, then the duplicated copy appears to have lost the zinc-binding motif and is instead regulated by zinc; the proteins in this group do not appear to have the zinc-binding motif
YP_040753.1	Similar to Ascaris suum GMP reductase SW:GUAC_ASCSU (P27442) (356 aa) fasta scores: E(): 2.8e-26, 33.846% id in 325 aa, and to Bacillus subtilis hypothetical protein YumD TR:O05269 (EMBL:Z93939) (326 aa) fasta scores: E(): 2.6e-94, 77.019% id in 322 aa
YP_040754.1	Poor database matches. Similar to Bacillus subtilis hypothetical protein YlbC TR:O34586 (EMBL:Z99111) (346 aa) fasta scores: E(): 5.7e-11, 29.474% id in 285 aa, and to Bacillus halodurans hypothetical protein BH2604 TR:Q9K9P1 (EMBL:AP001516) (363 aa) fasta scores: E(): 1.3e-08, 27.632% id in 304 aa
YP_040755.1	Represses a number of genes involved in the response to DNA damage
YP_040757.1	Similar to Lactococcus lactis hypothetical protein YlaC TR:Q9CGJ9 (EMBL:AE006342) (80 aa) fasta scores: E(): 2.4e-09, 48.750% id in 80 aa, and to Streptococcus pyogenes hypothetical protein SPY1687 TR:Q99YI5 (EMBL:AE006599) (85 aa) fasta scores: E(): 2.6e-09, 54.412% id in 68 aa
YP_040758.1	Similar to Craterostigma plantagineum transketolase 10 TKT10 SW:TKTA_CRAPL (Q42675) (679 aa) fasta scores: E(): 6.6e-118, 48.402% id in 657 aa, and to Bacillus subtilis transketolase Tkt SW:TKT_BACSU (P45694) (667 aa) fasta scores: E(): 3.2e-159, 61.061% id in 660 aa
YP_040759.1	Similar to Bacillus subtilis hypothetical protein YneF SW:YNEF_BACSU (P45708) (72 aa) fasta scores: E(): 6.2e-15, 70.588% id in 68 aa, and to Bacillus halodurans hypothetical protein BH2350 SW:YN50_BACHD (Q9KAD9) (72 aa) fasta scores: E(): 3.3e-13, 58.571% id in 70 aa
YP_040760.1	Similar to Bacillus subtilis hypothetical protein required for cytochrome c synthesis, CcdC SW:CCDC_BACSU (P45710) (160 aa) fasta scores: E(): 1e-30, 56.579% id in 152 aa, and to Bacillus halodurans hypothetical protein BH2333 TR:Q9KAF4 (EMBL:AP001515) (169 aa) fasta scores: E(): 4e-29, 53.642% id in 151 aa
YP_040761.1	Similar to Escherichia coli ATP-dependent dsDNA exonuclease SbcD SW:SBCD_ECOLI (P13457) (400 aa) fasta scores: E(): 0.00012, 23.929% id in 397 aa, and to Vibrio cholerae  exonuclease VCA520 TR:Q9KM68 (EMBL:AE004382) (379 aa) fasta scores: E(): 8e-39, 33.780% id in 373 aa
YP_040762.1	Similar to Escherichia coli ATP-dependent dsDNA exonuclease SbcC SW:SBCC_ECOLI (P13458) (1048 aa) fasta scores: E(): 1.1e-10, 22.120% id in 1085 aa, and to Vibrio cholerae  exonuclease VCA0521 TR:Q9KM67 (EMBL:AE004382) (1013 aa) fasta scores: E(): 1e-38, 26.839% id in 1047 aa. Contains coiled-coiled domains
YP_040763.1	C-terminal region is similar to Lactobacillus johnsonii insertion element IS1223 hypothetical protein SW:YI3A_LACJO (Q48585) (177 aa) fasta scores: E(): 2.7e-08, 33.140% id in 172 aa, and Lactococcus lactis hypothetical protein YgcE TR:O32786 (EMBL:X92946) (185 aa) fasta scores: E(): 7.2e-06, 26.404% id in 178 aa
YP_040764.1	Similar to the C-terminal region of Enterococcus faecium transposase TR:Q47815 (EMBL:L40841) (310 aa) fasta scores: E(): 1.9e-39, 46.183% id in 262 aa, and to the full length Klebsiella pneumoniae hypothetical protein TR:Q9AG21 (EMBL:AF345899) (281 aa) fasta scores: E(): 3e-27, 37.308% id in 260 aa
YP_040765.1	forms homopentamer; channel that opens in response to pressure or hypoosmotic shock
YP_040766.1	Similar to Bacillus subtilis glycine betaine transporter OpuD SW:OPUD_BACSU (P54417) (512 aa) fasta scores: E(): 2.3e-109, 56.048% id in 496 aa, and to Listeria monocytogenes glycine betaine transporter BetL TR:Q9X4A5 (EMBL:AF102174) (507 aa) fasta scores: E(): 1.7e-106, 56.126% id in 506 aa
YP_040767.1	Catalyzes the conversion of citrate to isocitrate
YP_040768.1	Similar to Bacillus halodurans hypothetical protein BH2288 TR:Q9KAJ9 (EMBL:AP001515) (143 aa) fasta scores: E(): 1.3e-27, 51.128% id in 133 aa, and to Bacillus subtilis hypothetical protein YneP TR:Q45061 (EMBL:Z73234) (121 aa) fasta scores: E(): 4.2e-23, 47.500% id in 120 aa
YP_040769.1	Similar to Bacillus halodurans hypothetical protein BH2252 TR:Q9KAN5 (EMBL:AP001514) (95 aa) fasta scores: E(): 1.5e-07, 37.500% id in 96 aa, and to Bacillus subtilis hypothetical protein YneR TR:Q45063 (EMBL:Z73234) (95 aa) fasta scores: E(): 4.6e-07, 34.409% id in 93 aa
YP_040770.1	Similar to Lactococcus lactis hypothetical protein YkaC TR:Q9CGW4 (EMBL:AE006332) (213 aa) fasta scores: E(): 4.6e-25, 42.500% id in 200 aa, and to Streptococcus pyogenes hypothetical protein SPY0908 TR:Q9A070 (EMBL:AE006539) (213 aa) fasta scores: E(): 6.8e-22, 40.952% id in 210 aa
YP_040771.1	decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling
YP_040772.1	decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling
YP_040773.1	Similar to Bacillus halodurans amino acid carrier protein BH1772 TR:Q9KC02 (EMBL:AP001513) (481 aa) fasta scores: E(): 1.1e-90, 53.347% id in 478 aa, and to Bacillus subtilis amino acid carrier protein AlsT SW:ALST_BACSU (Q45068) (465 aa) fasta scores: E(): 4e-90, 53.277% id in 473 aa
YP_040774.1	Similar to Bacillus subtilis transcription antiterminator LicT SW:LICT_BACSU (P39805) (277 aa) fasta scores: E(): 1.4e-22, 31.502% id in 273 aa, and to Staphylococcus carnosus antiterminator GlcT TR:O33618 (EMBL:Y14029) (287 aa) fasta scores: E(): 1.3e-59, 58.363% id in 281 aa
YP_040775.1	Doubtful CDS. No significant database matches
YP_040776.1	Similar to Bacillus subtilis hypothetical protein YubA SW:YUBA_BACSU (O32086) (388 aa) fasta scores: E(): 1.6e-59, 45.119% id in 379 aa, and to Bacillus subtilis hypothetical protein YueF SW:YUEF_BACSU (O32095) (369 aa) fasta scores: E(): 1.4e-41, 33.520% id in 358 aa
YP_040777.1	Similar to Staphylococcus aureus  membrane protein MprF TR:AAK58115 (EMBL:AF145699) (840 aa) fasta scores: E(): 0, 96.190% id in 840 aa. Similar to Staphylococcus xylosus  membrane protein MprF TR:AAK58113 (EMBL:AF145698) (841 aa) fasta scores: E(): 5.4e-208, 62.530% id in 838 aa. Mutations in the CDS have reduced resistance to human defensins and evasion of neutrophil killing
YP_040778.1	this stereospecific enzymes reduces the S isomer of methionine sulfoxide while MsrB reduces the R form; provides protection against oxidative stress
YP_040779.1	Similar to Enterococcus faecalis hypothetical protein Psr TR:Q9K2N9 (EMBL:AJ276232) (390 aa) fasta scores: E(): 5.5e-42, 41.801% id in 311 aa, and to Enterococcus hirae hypothetical protein Psr TR:Q47828 (EMBL:U42211) (293 aa) fasta scores: E(): 2.8e-37, 39.274% id in 303 aa
YP_040780.1	Similar to Staphylococcus aureus prophage phiPV83 transposase TR:Q9MBP7 (EMBL:AB044554) (548 aa) fasta scores: E(): 9.8e-199, 99.453% id in 548 aa, and to Bacillus halodurans cassette chromosome recombinase B1 BH0682 TR:Q9KF15 (EMBL:AP001509) (522 aa) fasta scores: E(): 3.5e-99, 52.115% id in 520 aa
YP_040781.1	Similar to Pseudomonas putida 4-oxalocrotonate tautomerase XylH SW:XYLH_PSEPU (Q01468) (62 aa) fasta scores: E(): 6.6e-06, 40.741% id in 54 aa, and to Bacillus halodurans 4-oxalocrotonate tautomerase BH3814 TR:Q9K6B5 (EMBL:AP001520) (61 aa) fasta scores: E(): 9e-12, 65.574% id in 61 aa
YP_040782.1	Similar to Bacillus anthracis plasmid pXO2 hypothetical protein pXO2-69 TR:Q9RMW5 (EMBL:AF188935) (421 aa) fasta scores: E(): 1.1e-87, 50.594% id in 421 aa, and to bacteriophage SPBc2 ImpB/MucB/SamB family protein YolE TR:O64031 (EMBL:AF020713) (416 aa) fasta scores: E(): 2.1e-68, 44.787% id in 422 aa
YP_040783.1	catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate
YP_040784.1	Similar to Lactococcus lactis glutamyl-aminopeptidase PepA SW:PEPA_LACLC (Q48677) (355 aa) fasta scores: E(): 6.1e-10, 24.294% id in 354 aa, and to Bacillus subtilis hypothetical protein YhfE TR:O07603 (EMBL:Y14083) (346 aa) fasta scores: E(): 3.2e-79, 60.947% id in 338 aa
YP_040785.1	with component II, the glutamine amidotransferase, catalyzes the formation of anthranilate from chorismate and glutamine
YP_040786.1	Similar to Lactococcus lactis anthranilate synthase component II TrpG SW:TRPG_LACLA (Q02003) (198 aa) fasta scores: E(): 3.7e-23, 42.188% id in 192 aa, and to Streptococcus pyogenes anthranilate synthase component II SPY1991 TR:Q99XW5 (EMBL:AE006622) (188 aa) fasta scores: E(): 4.1e-24, 38.542% id in 192 aa
YP_040787.1	involved in tryptophan biosynthesis; amino acid biosynthesis; converts 1-(2-carboxyphenylamino)-1-deoxy-D-ribulose 5-phosphate to C(1)-(3-indolyl)-glycerol 3-phosphate and carbon dioxide and water
YP_040788.1	catalyzes the formation of 1-(2-carboxyphenylamino)-1-deoxy-D-ribulose 5-phosphate from N-(5-phospho-beta-D-ribosyl)-anthranilate in tryptophan biosynthesis
YP_040789.1	catalyzes the formation of L-tryptophan from L-serine and 1-(indol-3-yl)glycerol 3-phosphate
YP_040790.1	catalyzes the formation of indole and glyceraldehyde 3-phosphate from indoleglycerol phosphate in tryptophan biosynthesis
YP_040791.1	Previously sequenced as Staphylococcus aureus factor essential for expression of methicillin resistance FemA SW:FEMA_STAAU (P14304) (433 aa) fasta scores: E(): 2e-155, 99.524% id in 420 aa. Similar to Staphylococcus epidermidis FemA TR:P95734 (EMBL:U23713) (422 aa) fasta scores: E(): 6.5e-130, 81.490% id in 416 aa
YP_040792.1	Similar to Staphylococcus aureus possible protein FemB SW:FEMB_STAAU (P14305) (419 aa) fasta scores: E(): 1.5e-161, 100.000% id in 419 aa, and to Staphylococcus epidermidis FemB TR:P95735 (EMBL:U23714) (417 aa) fasta scores: E(): 2.9e-141, 86.158% id in 419 aa
YP_040794.1	Previously sequenced as Staphylococcus aureus oligopeptide transporter  ATPase Opp-2F TR:Q9ZGN3 (EMBL:AF076684) (233 aa) fasta scores: E(): 1.3e-77, 99.142% id in 233 aa. Similar to Chlamydia trachomatis oligopeptide transport ATPase CT202 TR:O84205 (EMBL:AE001293) (247 aa) fasta scores: E(): 3.9e-16, 30.833% id in 240 aa
YP_040795.1	Previously sequenced as Staphylococcus aureus oligopeptide transporter  ATPase Opp-2D TR:Q9ZGN4 (EMBL:AF076684) (258 aa) fasta scores: E(): 4.5e-88, 96.887% id in 257 aa. Similar to Chlamydia pneumoniae oligopeptide transport ATPase CPN0201 TR:Q9Z8Y3 (EMBL:AE001606) (284 aa) fasta scores: E(): 1e-23, 35.547% id in 256 aa
YP_040796.1	Similar to Escherichia coli dipeptide ABC transporter permease DppC SW:DPPC_ECOLI (P37315) (300 aa) fasta scores: E(): 2e-28, 33.333% id in 273 aa. Previously sequenced as Staphylococcus aureus oligopeptide transporter  membrane permease Opp-2C TR:Q9ZGN5 (EMBL:AF076684) (276 aa) fasta scores: E(): 4.9e-102, 98.188% id in 276 aa
YP_040797.1	Similar to Escherichia coli nickel ABC transporter permease NikB SW:NIKB_ECOLI (P33591) (314 aa) fasta scores: E(): 2.4e-30, 32.797% id in 311 aa. Previously sequenced as Staphylococcus aureus oligopeptide transporter  membrane permease Opp-2B TR:Q9ZGN6 (EMBL:AF076684) (328 aa) fasta scores: E(): 1.2e-115, 97.256% id in 328 aa
YP_040798.1	Poor database matches. Weakly similar to the C-terminal region of Vibrio cholerae hypothetical protein VC2101 TR:Q9KQ99 (EMBL:AE004284) (146 aa) fasta scores: E(): 4.4, 26.214% id in 103 aa
YP_040799.1	Similar to Lactococcus lactis plasmid pLP763 oligoendopeptidase F PepF SW:PEF1_LACLC (P54124) (601 aa) fasta scores: E(): 5.7e-39, 23.786% id in 597 aa, and to Streptococcus pyogenes  oligopeptidase SPY0606 TR:Q9A0U8 (EMBL:AE006515) (599 aa) fasta scores: E(): 3.7e-91, 42.070% id in 599 aa
YP_040800.1	Similar to Escherichia coli phosphate transporter PhoU SW:PHOU_ECOLI (P07656) (241 aa) fasta scores: E(): 8.9e-14, 28.241% id in 216 aa, and to Rhizobium meliloti phosphate transporter SMC02141 SW:PHOU_RHIME (Q52989) (237 aa) fasta scores: E(): 5e-15, 30.233% id in 215 aa
YP_040801.1	ATP-binding protein; PstABCS is an ATP dependent phosphate uptake system which is responsible for inorganic phosphate uptake during phosphate starvation
YP_040802.1	Similar to Escherichia coli phosphate ABC transporter permease PstA SW:PSTA_ECOLI (P07654) (296 aa) fasta scores: E(): 7.7e-23, 31.707% id in 287 aa, and to Bacillus halodurans phosphate ABC transporter BH2992 TR:Q9K8L4 (EMBL:AP001517) (294 aa) fasta scores: E(): 1e-55, 52.703% id in 296 aa
YP_040803.1	Similar to Bacillus halodurans phosphate ABC transporter BH2993 TR:Q9K8L3 (EMBL:AP001517) (318 aa) fasta scores: E(): 2.1e-64, 61.564% id in 307 aa, and to Archaeoglobus fulgidus phosphate ABC transporter, permease AF1357 TR:O28914 (EMBL:AE001010) (297 aa) fasta scores: E(): 5.2e-47, 47.959% id in 294 aa
YP_040804.1	Previously sequenced as Staphylococcus aureus thioredoxine reductase TR:Q9RL86 (EMBL:Y18637) (327 aa) fasta scores: E(): 4.6e-107, 99.694% id in 327 aa. Similar to Synechococcus sp  phosphate assimilation protein SphX SW:SPHX_SYNP7 (P39665) (337 aa) fasta scores: E(): 2.6e-28, 37.363% id in 273 aa
YP_040805.1	Similar to Bacillus subtilis hypothetical protein YitL TR:O06747 (EMBL:Z99109) (298 aa) fasta scores: E(): 5.8e-30, 37.354% id in 257 aa, and to Bacillus halodurans hypothetical protein BH1329 TR:Q9KD88 (EMBL:AP001511) (290 aa) fasta scores: E(): 2.6e-25, 33.579% id in 271 aa
YP_040806.1	Similar to Bacillus subtilis hypothetical protein YkpA TR:O31716 (EMBL:Z99111) (540 aa) fasta scores: E(): 5.8e-131, 73.921% id in 533 aa, and to Streptococcus pyogenes ABC transporter ATP-binding protein SPY2210 TR:Q99XH2 (EMBL:AE006638) (539 aa) fasta scores: E(): 1e-115, 66.034% id in 527 aa
YP_040807.1	catalyzes the formation of 4-phospho-L-aspartate from L-aspartate and ATP, in Bacillus, lysine sensitive; regulated by response to starvation.
YP_040808.1	Previously sequenced as Staphylococcus aureus aspartate semialdehyde dehydrogenase Asd TR:Q9EZ13 (EMBL:AF306669) (329 aa) fasta scores: E(): 1.3e-120, 98.784% id in 329 aa. Similar to Deinococcus radiodurans aspartate-semialdehyde dehydrogenase DR2008 TR:Q9RSW3 (EMBL:AE002038) (338 aa) fasta scores: E(): 1.5e-44, 43.844% id in 333 aa
YP_040809.1	catalyzes the formation of dihydrodipicolinate from L-aspartate 4-semialdehyde and pyruvate in lysine and diaminopimelate biosynthesis
YP_040810.1	catalyzes the reduction of 2,3-dihydrodipicolinate to 2,3,4,5-tetrahydrodipicolinate in lysine and diaminopimelate biosynthesis
YP_040811.1	Similar to Escherichia coli 2,3,4,5-tetrahydropyridine-2-carboxylate N-succinyltransferase DapD or b0166 SW:DAPD_ECOLI (P03948) (274 aa) fasta scores: E(): 6.4e-11, 40.288% id in 139 aa. Previously sequenced as Staphylococcus aureus tetrahydrodipicolinate acetyltransferase DapD TR:Q9EZ10 (EMBL:AF306669) (239 aa) fasta scores: E(): 1.2e-81, 99.582% id in 239 aa
YP_040812.1	Similar to Pyrococcus horikoshii hypothetical amidohydrolase PH1043 TR:O58754 (EMBL:AP000004) (387 aa) fasta scores: E(): 9.4e-39, 35.753% id in 372 aa. Previously sequenced as Staphylococcus aureus hippurate hydrolase HipO TR:Q9EZ09 (EMBL:AF306669) (383 aa) fasta scores: E(): 1.4e-158, 99.217% id in 383 aa
YP_040813.1	Similar to Staphylococcus aureus alanine racemase Alr SW:ALR_STAAU (Q9ZAH5) (382 aa) fasta scores: E(): 2.4e-18, 28.660% id in 321 aa. Previously sequenced as Staphylococcus aureus alanine racemase Dal TR:Q9EZ08 (EMBL:AF306669) (336 aa) fasta scores: E(): 8.7e-137, 99.405% id in 336 aa
YP_040814.1	Similar to Bacillus subtilis diaminopimelate decarboxylase LysA SW:DCDA_BACSU (P23630) (441 aa) fasta scores: E(): 3e-75, 49.296% id in 426 aa. Previously sequenced as Staphylococcus aureus diaminopimelate decarboxylase LysA TR:Q9KWX7 (EMBL:Y18632) (283 aa) fasta scores: E(): 2.9e-100, 98.233% id in 283 aa
YP_040815.1	Poor database matches. Similar to the N-terminal region of Escherichia coli O157:H7 EDL933  endonuclease YihG TR:AAG59051 (EMBL:AE005616) (310 aa) fasta scores: E(): 1.1, 25.954% id in 131 aa
YP_040816.1	Similar to Bacillus subtilis cold shock protein CspD SW:CSPD_BACSU (P51777) (66 aa) fasta scores: E(): 4.6e-20, 78.788% id in 66 aa. Previously sequenced as Staphylococcus aureus major cold shock protein CspA TR:Q9L534 (EMBL:AF259960) (66 aa) fasta scores: E(): 5.9e-26, 100.000% id in 66 aa. Similar to SAR0848, 80.303% identity (80.303% ungapped) in 66 aa overlap, and to SAR2790, 73.016% identity (73.016% ungapped) in 63 aa overlap
YP_040817.1	Poor database matches. Similar to Streptococcus pyogenes  DNA binding protein SPY0100 TR:Q9A1U0 (EMBL:AE006481) (121 aa) fasta scores: E(): 2.7e-10, 31.915% id in 94 aa, and to Lactococcus lactis hypothetical protein YtbD TR:Q9CEJ2 (EMBL:AE006415) (122 aa) fasta scores: E(): 1.2e-05, 27.000% id in 100 aa
YP_040818.1	catalyzes the hydrolysis of acylphosphate
YP_040819.1	Poor database matches. Similar to Bacillus subtilis hypothetical protein XpaC SW:XPAC_BACSU (P37467) (204 aa) fasta scores: E(): 5.1e-11, 30.688% id in 189 aa
YP_040820.1	Similar to Bacillus subtilis hypothetical protein YaaN SW:YAAN_BACSU (P37535) (386 aa) fasta scores: E(): 1.5e-51, 52.802% id in 339 aa, and to Lactococcus lactis hypothetical protein YnhC TR:Q9CFX8 (EMBL:AE006366) (392 aa) fasta scores: E(): 4.8e-47, 43.717% id in 382 aa
YP_040821.1	Similar to Lactobacillus delbrueckii branched-chain amino acid transport system carrier protein BrnQ SW:BRNQ_LACDL (P54104) (446 aa) fasta scores: E(): 4.5e-44, 35.440% id in 443 aa, and to Staphylococcus aureus branched-chain amino acid carrier protein TR:O34007 (EMBL:U87144) (441 aa) fasta scores: E(): 8.8e-116, 82.517% id in 429 aa
YP_040822.1	Similar to Bacillus subtilis hypothetical protein YojO TR:O31849 (EMBL:Z99114) (661 aa) fasta scores: E(): 1.4e-49, 37.364% id in 645 aa. C-terminus is similar to the C-terminal region of Rhizobium loti hypothetical protein MLL3561 TR:BAB50427 (EMBL:AP003002) (632 aa) fasta scores: E(): 0.065, 21.028% id in 428 aa
YP_040823.1	Similar to Pseudomonas stutzeri denitrification regulatory protein NirQ SW:NIRQ_PSEST (Q02441) (275 aa) fasta scores: E(): 4.2e-14, 30.417% id in 240 aa, and to Bacillus subtilis hypothetical protein YojN TR:O31850 (EMBL:Z99114) (304 aa) fasta scores: E(): 4.7e-51, 62.403% id in 258 aa
YP_040824.1	Similar to Bacillus halodurans hypothetical protein BH2203 TR:Q9KAT3 (EMBL:AP001514) (67 aa) fasta scores: E(): 2.3e-12, 57.812% id in 64 aa, and to Bacillus subtilis hypothetical protein YozC TR:O31848 (EMBL:Z99114) (67 aa) fasta scores: E(): 4.6e-12, 52.239% id in 67 aa
YP_040825.1	Similar to Rhizobium loti hypothetical protein MLL3759 TR:BAB50580 (EMBL:AP003002) (317 aa) fasta scores: E(): 7.7e-13, 26.087% id in 276 aa, and to Bacillus halodurans hypothetical protein BH2175 TR:Q9KAW1 (EMBL:AP001514) (327 aa) fasta scores: E(): 2.9e-12, 25.362% id in 276 aa
YP_040826.1	component of 2-oxoglutarate dehydrogenase complex; catalyzes the transfer of succinyl coenzyme A to form succinyl CoA as part of the conversion of 2-oxoglutarate to succinyl-CoA
YP_040827.1	SucA; E1 component of the oxoglutarate dehydrogenase complex which catalyzes the formation of succinyl-CoA from 2-oxoglutarate; SucA catalyzes the reaction of 2-oxoglutarate with dihydrolipoamide succinyltransferase-lipoate to form dihydrolipoamide succinyltransferase-succinyldihydrolipoate and carbon dioxide
YP_040828.1	Two-component regulatory system family, sensor kinase. Previously sequenced as Staphylococcus aureus protein histidine kinase ArlS TR:Q9KJN3 (EMBL:AF165314) (451 aa) fasta scores: E(): 1.6e-154, 99.778% id in 451 aa. Similar to Listeria monocytogenes histidine kinase homologue LisK TR:Q9RPY9 (EMBL:AF139908) (483 aa) fasta scores: E(): 9.4e-43, 35.118% id in 467 aa
YP_040829.1	Two-component regulatory system family, response regulator protein. Previously sequenced as Staphylococcus aureus  response regulator ArlR TR:Q9KJN4 (EMBL:AF165314) (219 aa) fasta scores: E(): 8e-82, 100.000% id in 219 aa. Similar to Listeria monocytogenes LisR TR:Q9RPZ0 (EMBL:AF139908) (226 aa) fasta scores: E(): 2.9e-39, 53.744% id in 227 aa
YP_040830.1	No significant database matches. Doubtful CDS, poor translational start site
YP_040831.1	Similar to Bacillus megaterium hypothetical protein TR:Q06074 (EMBL:Z21972) (216 aa) fasta scores: E(): 3.9e-18, 38.220% id in 191 aa, and to Streptococcus pyogenes  phosphatase TR:Q9AGC2 (EMBL:AF336821) (200 aa) fasta scores: E(): 2.3e-16, 36.313% id in 179 aa
YP_040832.1	UDP-N-acetylglucosamine--N-acetylmuramyl- (pentapeptide) pyrophosphoryl-undecaprenol N-acetylglucosamine transferase; involved in cell wall formation; inner membrane-associated; last step of peptidoglycan synthesis
YP_040833.1	Similar to Campylobacter jejuni  acetyltransferase CJ1715 TR:Q9PLW3 (EMBL:AL139079) (176 aa) fasta scores: E(): 1.3e-11, 33.939% id in 165 aa, and to Lactococcus lactis hypothetical protein YwfD TR:Q9CDP2 (EMBL:AE006446) (169 aa) fasta scores: E(): 1.4e-09, 32.237% id in 152 aa
YP_040834.1	Similar to Bartonella bacilliformis carboxy-terminal processing protease precursor CtpA SW:CTPA_BARBA (Q44879) (434 aa) fasta scores: E(): 4.2e-34, 32.767% id in 412 aa, and to Bacillus subtilis carboxy-terminal processing protease YzbD TR:O34666 (EMBL:AF006665) (466 aa) fasta scores: E(): 5.6e-57, 42.325% id in 456 aa. CDS contains an extended N-terminus in comparison to other orthologues
YP_040835.1	Identical to Staphylococcus aureus transposase TR:O87114 (EMBL:AB010124) (328 aa) fasta scores: E(): 2.6e-127, 100.000% id in 315 aa, and similar to Bacillus halodurans transposase BH3503 TR:Q9JWR3 (EMBL:AP001520) (314 aa) fasta scores: E(): 2.9e-71, 58.413% id in 315 aa
YP_040836.1	Similar to Streptococcus pyogenes hypothetical protein SPY0467 TR:Q9A148 (EMBL:AE006506) (71 aa) fasta scores: E(): 2.5e-06, 38.462% id in 65 aa, and to Lactococcus lactis hypothetical protein YuiB TR:Q9CE43 (EMBL:AE006430) (69 aa) fasta scores: E(): 4e-06, 38.806% id in 67 aa
YP_040837.1	Similar to Escherichia coli PTS system, glucose-specific IIA component Crr SW:PTGA_ECOLI (P08837) (168 aa) fasta scores: E(): 8.6e-22, 41.975% id in 162 aa, and to Bacillus halodurans PTS system, glucose-specific enzyme IIA component BH1515 TR:Q9KCQ4 (EMBL:AP001512) (173 aa) fasta scores: E(): 1.1e-29, 50.888% id in 169 aa. N-terminus is similar to the C-terminal regions of SAR0190, 58.333% identity (58.333% ungapped) in 120 aa overlap, and SAR2618, 50.407% identity (50.407% ungapped) in 123 aa overlap
YP_040838.1	this stereospecific enzymes reduces the R isomer of methionine sulfoxide while MsrA reduces the S form; provides protection against oxidative stress
YP_040839.1	this stereospecific enzymes reduces the S isomer of methionine sulfoxide while MsrB reduces the R form; provides protection against oxidative stress
YP_040840.1	Similar to Lactococcus lactis hypothetical protein YejH TR:Q9CI68 (EMBL:AE006285) (285 aa) fasta scores: E(): 2.1e-25, 35.401% id in 274 aa, and to Bacillus subtilis hypothetical protein DegV SW:DEGV_BACSU (P32436) (281 aa) fasta scores: E(): 2.8e-24, 34.066% id in 273 aa
YP_040841.1	Previously sequenced as Staphylococcus aureus trimethoprim-sensitive dihydrofolate reductase type I DfrB SW:DYRB_STAAU (P10167) (158 aa) fasta scores: E(): 3.1e-62, 100.000% id in 158 aa. Similar to Staphylococcus epidermidis dihydrofolate reductase DfrC SW:DYR_STAEP (Q59908) (161 aa) fasta scores: E(): 4.1e-52, 81.761% id in 159 aa
YP_040842.1	ThyA; catalyzes formation of dTMP and 7,8-dihydrofolate from 5,10-methylenetetrahydrofolate and dUMP; involved in deoxyribonucleotide biosynthesis; there are 2 copies in some Bacilli, one of which appears to be phage-derived
YP_040843.1	Similar to Bacillus subtilis hypothetical protein YphP SW:YPHP_BACSU (P54170) (144 aa) fasta scores: E(): 3.6e-27, 57.343% id in 143 aa, and to Bacillus halodurans hypothetical protein BH1716 TR:Q9KC58 (EMBL:AP001512) (144 aa) fasta scores: E(): 1.2e-24, 54.545% id in 143 aa
YP_040844.1	Similar to Bacillus subtilis hypothetical protein YpgR SW:YPGR_BACSU (P54169) (377 aa) fasta scores: E(): 4.4e-58, 45.067% id in 375 aa, and to Bacillus halodurans hypothetical protein BH1718 TR:Q9KC56 (EMBL:AP001512) (380 aa) fasta scores: E(): 7.8e-58, 43.968% id in 373 aa
YP_040845.1	Similar to the N-terminal regions of Bacillus halodurans hypothetical protein BH1718 TR:Q9KC56 (EMBL:AP001512) (380 aa) fasta scores: E(): 6.3e-10, 42.169% id in 83 aa, and Bacillus subtilis hypothetical protein YpgR SW:YPGR_BACSU (P54169) (377 aa) fasta scores: E(): 3.5e-08, 38.554% id in 83 aa. Similar to N-terminal region SAR1442, 51.220% identity (51.220% ungapped) in 82 aa overlap. Possible gene remnant
YP_040846.1	Similar to the C-terminal region of Escherichia coli dnaK suppressor protein DksA SW:DKSA_ECOLI (P18274) (151 aa) fasta scores: E(): 1.3, 28.333% id in 60 aa, and to the full length Bacillus subtilis hypothetical protein YpeQ SW:YPEQ_BACSU (P54165) (60 aa) fasta scores: E(): 5.8e-07, 46.939% id in 49 aa
YP_040847.1	Similar to Bacillus subtilis hypothetical protein YpdP SW:YPDP_BACSU (P54163) (229 aa) fasta scores: E(): 3.3e-37, 46.575% id in 219 aa, and to Archaeoglobus fulgidus conserved hypothetical protein AF2110 TR:O28170 (EMBL:AE000958) (241 aa) fasta scores: E(): 3.4e-29, 38.559% id in 236 aa
YP_040848.1	Similar to Enterococcus faecalis possible cell wall metabolism enzyme EbsB SW:EBSB_ENTFA (P36921) (135 aa) fasta scores: E(): 9.2e-17, 41.481% id in 135 aa, and to Bacillus halodurans hypothetical protein BH1770 TR:Q9KC04 (EMBL:AP001513) (135 aa) fasta scores: E(): 4.1e-11, 32.540% id in 126 aa
YP_040849.1	Very large protein. No significant database matches to the full length CDS. CDS contains 3 regions containing repeats, residues 2515 to 3120, 3120 to 9780, 9780 to 10480. Internal repeat region similar to Abiotrophia defectiva extracellular matrix binding protein Emb TR:O85472 (EMBL:AF067776) (2055 aa) fasta scores: E(): 1.1e-34, 23.420% id in 2105 aa. C-terminal region contains a hydrophobic domain, residues 10552 to 10573, followed by charged carboxyl-terminal tail
YP_040850.1	Similar to Mycobacterium tuberculosis hypothetical protein MTCY98.02c TR:P71879 (EMBL:Z79702) (537 aa) fasta scores: E(): 2.6e-25, 28.883% id in 412 aa, and to Rhizobium loti transmembrane efflux protein MLL5686 TR:BAB52087 (EMBL:AP003007) (502 aa) fasta scores: E(): 1.6e-24, 27.470% id in 415 aa. Similar to SAR0109, 71.082% identity (71.082% ungapped) in 453 aa overlap, and to SAR2534, 57.204% identity (58.079% ungapped) in 465 aa overlap
YP_040851.1	Similar to an internal region of Mus musculus large neutral amino acids transporter small subunit 2 LAT2 SW:LAT2_MOUSE (Q9QXW9) (531 aa) fasta scores: E(): 4.8e-33, 31.027% id in 448 aa, and to the full length Bacillus subtilis hypothetical protein YkbA TR:O34739 (EMBL:Z99110) (438 aa) fasta scores: E(): 3.6e-63, 42.955% id in 440 aa
YP_040852.1	catalyzes the formation of 2-oxobutanoate from L-threonine; catabolic
YP_040853.1	Similar to Bacillus subtilis alanine dehydrogenase Ald SW:DHA_BACSU (Q08352) (378 aa) fasta scores: E(): 1.2e-56, 46.612% id in 369 aa, and to Enterobacter aerogenes alanine dehydrogenase AlaDH TR:Q9WX54 (EMBL:AB013821) (377 aa) fasta scores: E(): 2.2e-57, 47.568% id in 370 aa
YP_040854.1	Similar to Bacillus subtilis  5'-3' exonuclease YpcP SW:YPCP_BACSU (P54161) (296 aa) fasta scores: E(): 1.9e-54, 54.023% id in 261 aa. N-terminus is similar to the N-terminal region of Bacillus subtilis DNA polymerase I PolA SW:DPO1_BACSU (O34996) (880 aa) fasta scores: E(): 8.7e-32, 39.370% id in 254 aa
YP_040855.1	Similar to Bacillus halodurans hypothetical protein BH1700 TR:Q9KC74 (EMBL:AP001512) (1205 aa) fasta scores: E(): 2.1e-28, 24.816% id in 1225 aa, and to Bacillus subtilis hypothetical protein YpbR SW:YPBR_BACSU (P54159) (1193 aa) fasta scores: E(): 1.3e-24, 25.333% id in 1125 aa
YP_040857.1	Similar to Bacillus subtilis hypothetical protein YpsC SW:YPSC_BACSU (P50840) (385 aa) fasta scores: E(): 3.7e-84, 56.806% id in 382 aa, and to Bacillus halodurans hypothetical protein BH1771 TR:Q9KC03 (EMBL:AP001513) (385 aa) fasta scores: E(): 1.3e-78, 56.000% id in 375 aa
YP_040858.1	Similar to Streptococcus pyogenes hypothetical protein SPY1646 TR:Q99YL4 (EMBL:AE006595) (108 aa) fasta scores: E(): 1.4e-07, 41.818% id in 110 aa, and to Lactococcus lactis hypothetical protein YraB TR:Q9CF28 (EMBL:AE006396) (128 aa) fasta scores: E(): 2.9e-06, 43.089% id in 123 aa
YP_040859.1	Similar to Bacillus subtilis hypothetical protein YpsA SW:YPSA_BACSU (P50838) (180 aa) fasta scores: E(): 5.2e-27, 42.938% id in 177 aa, and to Bacillus halodurans hypothetical protein BH1768 TR:Q9KC06 (EMBL:AP001513) (189 aa) fasta scores: E(): 2.8e-22, 36.022% id in 186 aa
YP_040860.1	Similar to Bacillus halodurans hypothetical protein BH1707 TR:Q9KC67 (EMBL:AP001512) (131 aa) fasta scores: E(): 0.024, 28.723% id in 94 aa, and to Bacillus subtilis hypothetical protein YppE SW:YPPE_BACSU (P50833) (123 aa) fasta scores: E(): 0.097, 22.609% id in 115 aa
YP_040861.1	No significant database matches. Doubtful CDS
YP_040862.1	functions in homologous recombination, DNA repair, and chromosome segregation; binds preferentially to three- and four-stranded DNA intermediates; introduces specific nick sites in four-stranded DNA substrates; functions similarly to Escherichia coli RuvC
YP_040863.1	Similar to Staphylococcus aureus penicillin-binding protein 2 Pbp2 TR:Q53729 (EMBL:X62288) (716 aa) fasta scores: E(): 0, 99.860% id in 716 aa, and to Bacillus halodurans penicillin-binding proteins 1A/1B BH1702 TR:Q9KC72 (EMBL:AP001512) (886 aa) fasta scores: E(): 2.5e-69, 35.970% id in 670 aa
YP_040865.1	Similar to Escherichia coli endonuclease III Nth SW:END3_ECOLI (P20625) (211 aa) fasta scores: E(): 8.1e-30, 46.667% id in 210 aa. Previously sequenced as Staphylococcus aureus endonuclease-like protein TR:Q9EUT1 (EMBL:AJ132191) (220 aa) fasta scores: E(): 2e-77, 92.273% id in 220 aa
YP_040866.1	Similar to Bacillus subtilis DNA replication protein DnaD SW:DNAD_BACSU (P39787) (232 aa) fasta scores: E(): 1e-20, 36.792% id in 212 aa. Previously sequenced as Staphylococcus aureus DNA replication-like protein TR:Q9EUT0 (EMBL:AJ132191) (228 aa) fasta scores: E(): 6.9e-79, 99.123% id in 228 aa
YP_040867.1	catalyzes a two-step reaction, first charging an asparagine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA
YP_040868.1	Similar to Bacillus subtilis probable ATP-dependent helicase DinG homologue DinG SW:DING_BACSU (P54394) (931 aa) fasta scores: E(): 3.3e-39, 29.642% id in 921 aa, and to Lactococcus lactis ATP-dependent helicase DinG TR:Q9CEK5 (EMBL:AE006413) (794 aa) fasta scores: E(): 1e-29, 26.705% id in 880 aa
YP_040869.1	Similar to Bacillus subtilis BirA bifunctional protein [includes: biotin operon repressor; biotin--[acetyl-CoA-carboxylase] synthetase] BirA SW:BIRA_BACSU (P42975) (325 aa) fasta scores: E(): 1.1e-30, 33.435% id in 329 aa, and to Methanosarcina barkeri bifunctional biotin ligase/biotin operon repressor BirA TR:Q9HH16 (EMBL:AF317651) (326 aa) fasta scores: E(): 3.3e-30, 30.503% id in 318 aa
YP_040870.1	catalyzes the addition and repair of the 3'-terminal CCA sequence in tRNA; these proteins belong to the CCA-adding enzyme subfamily 2 which does not have phosphohydrolase activity
YP_040871.1	Similar to Bacillus subtilis  glycosyl transferase YpjH SW:YPJH_BACSU (P42982) (377 aa) fasta scores: E(): 1.4e-74, 55.676% id in 370 aa, and to Bacillus halodurans hypothetical protein BH1683 TR:Q9KC90 (EMBL:AP001512) (375 aa) fasta scores: E(): 2.1e-74, 54.839% id in 372 aa
YP_040872.1	Similar to Bacillus halodurans hypothetical protein JBH1679 TR:Q9KC94 (EMBL:AP001512) (114 aa) fasta scores: E(): 2.7e-23, 66.019% id in 103 aa, and to Bacillus subtilis hypothetical protein JojD SW:YPJD_BACSU (P42979) (111 aa) fasta scores: E(): 1.8e-22, 62.500% id in 104 aa
YP_040873.1	Similar to Bacillus halodurans hypothetical protein BH1677 TR:Q9KC96 (EMBL:AP001512) (224 aa) fasta scores: E(): 3.3e-41, 55.455% id in 220 aa, and to Thermotoga maritima conserved hypothetical protein TM1511 TR:Q9X1J9 (EMBL:AE001799) (230 aa) fasta scores: E(): 4.9e-32, 46.606% id in 221 aa
YP_040874.1	Similar to Bacillus subtilis hypothetical protein YpjA SW:YPJA_BACSU (P54392) (185 aa) fasta scores: E(): 1.2e-22, 41.071% id in 168 aa, and to Bacillus halodurans hypothetical protein BH1675 TR:Q9KC98 (EMBL:AP001512) (202 aa) fasta scores: E(): 4.6e-21, 43.017% id in 179 aa
YP_040875.1	Similar to Bacillus halodurans hypothetical protein BH1670 TR:Q9KCA3 (EMBL:AP001512) (183 aa) fasta scores: E(): 0.00015, 23.256% id in 172 aa, and to Bacillus subtilis hypothetical protein YpiB SW:YPIB_BACSU (P54390) (179 aa) fasta scores: E(): 0.0015, 24.855% id in 173 aa
YP_040876.1	Similar to Bacillus subtilis hypothetical protein YpiA SW:YPIA_BACSU (P54389) (423 aa) fasta scores: E(): 5.4e-36, 31.100% id in 418 aa, and to Lactococcus lactis hypothetical protein YljJ TR:Q9CGB4 (EMBL:AE006350) (418 aa) fasta scores: E(): 5e-27, 29.639% id in 415 aa
YP_040877.1	catalyzes the formation of 5-O-(1-carboxyvinyl)-3-phosphoshikimate from phosphoenolpyruvate and 3-phosphoshikimate in tryptophan biosynthesis
YP_040878.1	catalyzes the formation of 3-dehydroquinate from 3-deoxy-arabino-heptulonate 7-phosphate; functions in aromatic amino acid biosynthesis
YP_040879.1	catalyzes the formation of chorismate from 5-O-(1-carboxyvinyl)-3-phosphoshikimate in aromatic amino acid biosynthesis
YP_040880.1	catalyzes the formation of nucleoside triphosphate from ATP and nucleoside diphosphate
YP_040881.1	Similar to Bacillus stearothermophilus heptaprenyl diphosphate synthase component II HepT SW:HEP2_BACST (P55785) (320 aa) fasta scores: E(): 4.4e-49, 44.728% id in 313 aa, and to Bacillus subtilis heptaprenyl diphosphate synthase component II HepT SW:HEP2_BACSU (P31114) (348 aa) fasta scores: E(): 8.3e-52, 46.474% id in 312 aa
YP_040882.1	Catalyzes the carbon methylation reaction in the biosynthesis of ubiquinone
YP_040883.1	Poor database matches. N-terminal region is similar to Micrococcus luteus component A of hexaprenyl diphosphate synthase HexS-A TR:O66127 (EMBL:AB003188) (143 aa) fasta scores: E(): 0.16, 27.407% id in 135 aa. Full length CDS is similar to internal region of Bacillus subtilis primosomal protein DnaI SW:DNAI_BACSU (P06567) (311 aa) fasta scores: E(): 0.28, 23.656% id in 186 aa
YP_040884.1	Similar to Bacillus stearothermophilus DNA-binding protein HU Hup SW:DBH_BACST (P02346) (90 aa) fasta scores: E(): 3.2e-24, 80.000% id in 90 aa, and to Bacillus halodurans DNA-binding protein HU-1 BH1309 SW:DBH1_BACHD (Q9KDA5) (90 aa) fasta scores: E(): 2.4e-23, 77.528% id in 89 aa
YP_040885.1	catalyzes the NAD(P)H-dependent reduction of glycerol 3-phosphate to glycerone phosphate
YP_040886.1	EngA; essential Neisserial GTPase; synchronizes cellular events by interacting with multiple targets with tandem G-domains; overexpression in Escherichia coli suppresses rrmJ mutation; structural analysis of the Thermotoga maritima ortholog shows different nucleotide binding affinities in the two binding domains
YP_040887.1	in Escherichia coli this protein is involved in binding to the leader sequence of mRNAs and is itself bound to the 30S subunit; autoregulates expression via a C-terminal domain; in most gram negative organisms this protein is composed of 6 repeats of the S1 domain while in gram positive there are 4 repeats; the S1 nucleic acid-binding domain is found associated with other proteins
YP_040888.1	Catalyzes the formation of (d)CDP from ATP and (d)CMP
YP_040889.1	Similar to Escherichia coli L-asparaginase II precursor AnsB SW:ASG2_ECOLI (P00805) (348 aa) fasta scores: E(): 1.4e-25, 30.120% id in 332 aa, and to Bacillus halodurans L-asparaginase BH1624 TR:Q9KCE7 (EMBL:AP001512) (322 aa) fasta scores: E(): 2.4e-61, 53.750% id in 320 aa. E. coli orthologue contains extra amino acids at the C-terminus in comparison to the CDS
YP_040890.1	Similar to Bacillus halodurans hypothetical protein BH1623 TR:Q9KCE8 (EMBL:AP001512) (322 aa) fasta scores: E(): 6.2e-75, 61.199% id in 317 aa, and to Bacillus subtilis hypothetical protein YpdA SW:YPDA_BACSU (P50736) (324 aa) fasta scores: E(): 7.2e-75, 63.804% id in 326 aa
YP_040891.1	Previously sequenced as Staphylococcus aureus cell surface elastin binding protein EbpS TR:Q53630 (EMBL:U48826) (486 aa) fasta scores: E(): 3.5e-143, 100.000% id in 486 aa. CDS contains a polar amino acid rich region, residues 403 to 433
YP_040892.1	Similar to the N-terminal region of Escherichia coli ATP-dependent DNA helicase RecG SW:RECQ_ECOLI (P15043) (607 aa) fasta scores: E(): 9.6e-42, 34.186% id in 430 aa, and full length Bacillus subtilis ATP-dependent DNA helicase RecQ SW:RECQ_BACSU (P50729) (496 aa) fasta scores: E(): 3.1e-53, 37.528% id in 453 aa
YP_040893.1	Similar to Bacillus subtilis hypothetical protein YpbB SW:YPBB_BACSU (P50728) (352 aa) fasta scores: E(): 3.6e-08, 22.154% id in 325 aa, and to Bacillus halodurans hypothetical protein BH1606 TR:Q9KCG5 (EMBL:AP001512) (359 aa) fasta scores: E(): 0.05, 21.813% id in 353 aa
YP_040894.1	Similar to Bacillus thermoproteolyticus ferredoxin SW:FER_BACTH (P10245) (81 aa) fasta scores: E(): 2.7e-22, 76.250% id in 80 aa, and to Bacillus halodurans ferredoxin BH1605 TR:Q9KCG6 (EMBL:AP001512) (82 aa) fasta scores: E(): 2.3e-25, 84.146% id in 82 aa
YP_040895.1	Similar to Bacillus subtilis hypothetical protein YpaA SW:YPAA_BACSU (P50726) (190 aa) fasta scores: E(): 1.6e-24, 46.111% id in 180 aa, and to Thermotoga maritima conserved hypothetical protein TM1455 TR:Q9X1G6 (EMBL:AE001797) (183 aa) fasta scores: E(): 3.3e-12, 34.078% id in 179 aa
YP_040896.1	No significant database matches. Similar to SAR1495, 73.630% identity (74.138% ungapped) in 292 aa overlap, and to SAR1566, 75.556% identity (76.923% ungapped) in 225 aa overlap
YP_040897.1	No significant database matches. Similar to SAR1494, 73.196% identity (73.196% ungapped) in 291 aa overlap, and to SAR1566, 74.222% identity (76.256% ungapped) in 225 aa overlap
YP_040898.1	Similar to Staphylococcus aureus temperate phage phiSLT amidase TR:Q9B0C3 (EMBL:AB045978) (484 aa) fasta scores: E(): 3.4e-188, 97.107% id in 484 aa, and to bacteriophage phi PVL amidase TR:O80064 (EMBL:AB009866) (484 aa) fasta scores: E(): 8.7e-186, 95.248% id in 484 aa. C-terminal region is similar to SAR2037, 93.878% identity (93.878% ungapped) in 98 aa overlap
YP_040899.1	Highly similar to bacteriophage phi PVL holin TR:O80063 (EMBL:AB009866) (100 aa) fasta scores: E(): 1.7e-36, 99.000% id in 100 aa, and to Staphylococcus aureus temperate phage phiSLT holin TR:Q9B0C4 (EMBL:AB045978) (100 aa) fasta scores: E(): 4.3e-36, 97.000% id in 100 aa
YP_040900.1	Identical to bacteriophage phi ETA hypothetical protein Orf60 TR:Q9FZY5 (EMBL:AP001553) (99 aa) fasta scores: E(): 3.8e-31, 100.000% id in 99 aa, and similar to Staphylococcus aureus prophage phiPV83 phi PVL Orf17 homologue TR:Q9MBN6 (EMBL:AB044554) (98 aa) fasta scores: E(): 5.2e-15, 50.515% id in 97 aa
YP_040901.1	Similar to bacteriophage phi ETA hypothetical protein Orf59 TR:Q9FZY6 (EMBL:AP001553) (57 aa) fasta scores: E(): 2.9e-10, 65.306% id in 49 aa, and to bacteriophage phi-105 hypothetical protein Orf44 TR:Q9ZXD9 (EMBL:AB016282) (62 aa) fasta scores: E(): 1.4, 39.535% id in 43 aa
YP_040902.1	Similar to bacteriophage phi ETA hypothetical protein Orf58 TR:Q9FZY7 (EMBL:AP001553) (125 aa) fasta scores: E(): 4.6e-11, 37.008% id in 127 aa
YP_040903.1	Similar to bacteriophage phi ETA hypothetical protein Orf57 TR:Q9FZY8 (EMBL:AP001553) (607 aa) fasta scores: E(): 4.1e-14, 26.711% id in 599 aa
YP_040904.1	Similar to bacteriophage phi ETA hypothetical protein Orf56 TR:Q9FZY9 (EMBL:AP001553) (632 aa) fasta scores: E(): 2.9e-105, 44.620% id in 632 aa
YP_040905.1	Similar to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf96 TR:Q9B0C8 (EMBL:AB045978) (96 aa) fasta scores: E(): 3e-35, 97.917% id in 96 aa
YP_040906.1	Highly similar to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf527 TR:Q9B0C9 (EMBL:AB045978) (527 aa) fasta scores: E(): 2.1e-200, 99.810% id in 527 aa. N-terminus is similar to the N-terminal region of bacteriophage A118 hypothetical protein gp18 TR:Q9T1A5 (EMBL:AJ242593) (341 aa) fasta scores: E(): 9.5e-05, 28.814% id in 236 aa
YP_040907.1	Similar to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf191 TR:Q9B0D0 (EMBL:AB045978) (191 aa) fasta scores: E(): 7.7e-70, 95.767% id in 189 aa, and to bacteriophage A118 hypothetical protein gp17 TR:Q9T1A6 (EMBL:AJ242593) (272 aa) fasta scores: E(): 5.8e-18, 29.603% id in 277 aa
YP_040908.1	N-terminal region is similar to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf1374 TR:Q9B0D2 (EMBL:AB045978) (1374 aa) fasta scores: E(): 0, 98.819% id in 1355 aa. C-terminal region is similar to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf588 TR:Q9B0D1 (EMBL:AB045978) (588 aa) fasta scores: E(): 5.6e-165, 96.758% id in 586 aa. Possible fusion protein. Contains coiled-coiled domain, residues 54 to 274
YP_040909.1	No significant database matches. Doubtful CDS, poor translational start site
YP_040910.1	Identical to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf116b TR:Q9B0D3 (EMBL:AB045978) (116 aa) fasta scores: E(): 9.4e-37, 100.000% id in 116 aa
YP_040911.1	Similar to Staphylococcus aureus temperate phage phiSLT major tail protein TR:Q9B0D4 (EMBL:AB045978) (151 aa) fasta scores: E(): 5.9e-51, 96.026% id in 151 aa
YP_040912.1	Highly similar to Staphylococcus aureus temperate phage phiSLT major tail protein TR:Q9B0D5 (EMBL:AB045978) (213 aa) fasta scores: E(): 8.6e-83, 99.531% id in 213 aa
YP_040913.1	Identical to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf131b TR:Q9B0D6 (EMBL:AB045978) (131 aa) fasta scores: E(): 3.3e-47, 100.000% id in 131 aa. Similar to Staphylococcus aureus prophage phiPV83 phi PVL Orf 12 homologue TR:Q9MBP5 (EMBL:AB044554) (126 aa) fasta scores: E(): 0.56, 24.762% id in 105 aa
YP_040914.1	Similar to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf123 TR:Q9B0D7 (EMBL:AB045978) (123 aa) fasta scores: E(): 4.6e-42, 95.935% id in 123 aa
YP_040915.1	Similar to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf110 TR:Q9B0D8 (EMBL:AB045978) (110 aa) fasta scores: E(): 2e-41, 97.273% id in 110 aa, and to bacteriophage phi PVL hypothetical protein Orf 10 TR:O80049 (EMBL:AB009866) (111 aa) fasta scores: E(): 0.044, 30.189% id in 106 aa
YP_040916.1	Identical to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf92 TR:Q9B0D9 (EMBL:AB045978) (92 aa) fasta scores: E(): 4e-37, 100.000% id in 92 aa
YP_040917.1	Identical to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf387 TR:Q9B0E0 (EMBL:AB045978) (387 aa) fasta scores: E(): 4.6e-132, 100.000% id in 387 aa
YP_040918.1	Highly similar to Staphylococcus aureus temperate phage phiSLT protease TR:Q9B0E1 (EMBL:AB045978) (257 aa) fasta scores: E(): 7.3e-88, 99.611% id in 257 aa. Similar to Lactococcus phage BK5-T  ATP-dependent ClpP protein TR:AAK56806 (EMBL:AF176025) (237 aa) fasta scores: E(): 4.4e-10, 31.250% id in 224 aa
YP_040919.1	Similar to Staphylococcus aureus temperate phage phiSLT portal protein TR:Q9B0E2 (EMBL:AB045978) (412 aa) fasta scores: E(): 9.3e-154, 99.515% id in 412 aa. Similar to bacteriophage phi-105 hypothetical protein Orf25 TR:Q9ZXF8 (EMBL:AB016282) (416 aa) fasta scores: E(): 6.3e-19, 26.247% id in 381 aa
YP_040920.1	Similar to Staphylococcus aureus temperate phage phiSLT terminase large subunit TR:Q9B0E3 (EMBL:AB045978) (563 aa) fasta scores: E(): 0, 96.092% id in 563 aa, and to Staphylococcus aureus prophage phiPV83 phi PVL Orf 2 homologue TR:Q9MBQ2 (EMBL:AB044554) (564 aa) fasta scores: E(): 5.9e-28, 26.740% id in 546 aa
YP_040921.1	Similar to Staphylococcus aureus temperate phage phiSLT terminase small subunit TR:Q9B0E4 (EMBL:AB045978) (101 aa) fasta scores: E(): 1.1e-35, 98.020% id in 101 aa
YP_040922.1	Similar to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf104b TR:Q9B0E5 (EMBL:AB045978) (104 aa) fasta scores: E(): 4.2e-34, 78.846% id in 104 aa, and to bacteriophage bIL285 hypothetical protein Orf39 TR:Q9AZZ0 (EMBL:AF323668) (150 aa) fasta scores: E(): 8.3e-08, 44.444% id in 72 aa
YP_040923.1	Similar to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf145 TR:Q9B0E6 (EMBL:AB045978) (145 aa) fasta scores: E(): 1.1e-48, 93.793% id in 145 aa, and to bacteriophage phi-11 transcriptional activator RinA SW:RINA_BPPHA (Q03182) (140 aa) fasta scores: E(): 1, 24.476% id in 143 aa
YP_040924.1	Similar to bacteriophage APSE-1 hypothetical protein P41 SW:VP41_BPAPS (Q9T1Q7) (460 aa) fasta scores: E(): 2.9e-54, 38.126% id in 459 aa. C-terminal region is similar to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf116a TR:Q9B0E7 (EMBL:AB045978) (116 aa) fasta scores: E(): 1.2e-32, 94.393% id in 107 aa
YP_040925.1	Similar to bacteriophage APSE-1 hypothetical protein P44 SW:VP44_BPAPS (Q9T1Q4) (93 aa) fasta scores: E(): 1.5e-08, 42.857% id in 77 aa, and to Xylella fastidiosa phage-related protein XF2526 TR:Q9P9P9 (EMBL:AE004059) (92 aa) fasta scores: E(): 0.0013, 35.897% id in 78 aa
YP_040926.1	No significant database matches to the full length CDS. Internal region is similar to Staphylococcus aureus mobile pathogenicity island hypothetical protein Orf11 TR:O54471 (EMBL:U93688) (257 aa) fasta scores: E(): 4.2e-37, 44.758% id in 248 aa. N-terminus is similar to the N-terminal region of bacteriophage APSE-1 hypothetical protein P3 TR:Q9T1U5 (EMBL:AF157835) (752 aa) fasta scores: E(): 1.7e-20, 25.852% id in 704 aa
YP_040927.1	Similar to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf66 TR:Q9B0E8 (EMBL:AB045978) (66 aa) fasta scores: E(): 1.3e-21, 98.485% id in 66 aa, and to bacteriophage phi PVL hypothetical protein Orf 60 TR:O80098 (EMBL:AB009866) (67 aa) fasta scores: E(): 6.6e-07, 44.615% id in 65 aa
YP_040929.1	Similar to Staphylococcus aureus temperate phage phiSLT phi PVL Orf 57 homologue TR:Q9B0E9 (EMBL:AB045978) (51 aa) fasta scores: E(): 2.2e-20, 98.039% id in 51 aa, and to bacteriophage phi ETA hypothetical protein Orf37 TR:Q9G008 (EMBL:AP001553) (57 aa) fasta scores: E(): 2.6e-15, 80.357% id in 56 aa. Similar to SAR2069, 87.755% identity (89.583% ungapped) in 49 aa overlap
YP_040930.1	Identical to Staphylococcus aureus prophage phiPV83 and temperate phage phiSLT hypothetical protein Orf 30 (Orf78) TR:Q9MBQ9 (EMBL:AB044554) (78 aa) fasta scores: E(): 1.3e-29, 100.000% id in 78 aa
YP_040931.1	Similar to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf77 TR:Q9B0F0 (EMBL:AB045978) (77 aa) fasta scores: E(): 1.3e-24, 88.158% id in 76 aa, and to bacteriophage phi PVL hypothetical protein Orf 55 TR:O80093 (EMBL:AB009866) (62 aa) fasta scores: E(): 4.6e-13, 85.106% id in 47 aa. Similar to SAR2071, 78.723% identity (78.723% ungapped) in 47 aa overlap
YP_040933.1	Similar to Staphylococcus aureus prophage phiPV83 hypothetical protein Orf 29 TR:Q9MBR0 (EMBL:AB044554) (178 aa) fasta scores: E(): 4.9e-65, 96.629% id in 178 aa, and to bacteriophage phi ETA hypothetical protein Orf34 TR:Q9G011 (EMBL:AP001553) (178 aa) fasta scores: E(): 5.4e-31, 55.191% id in 183 aa
YP_040934.1	Similar to Staphylococcus aureus temperate phage phiSLT phi PVL Orf 52 homologue TR:Q9B0F3 (EMBL:AB045978) (82 aa) fasta scores: E(): 5.8e-27, 96.341% id in 82 aa, and to bacteriophage phi PVL hypothetical protein Orf 52 TR:O80090 (EMBL:AB009866) (82 aa) fasta scores: E(): 1.4e-25, 93.902% id in 82 aa. Similar to SAR2074, 82.927% identity (82.927% ungapped) in 82 aa overlap
YP_040935.1	Similar to Staphylococcus aureus prophage phiPV83 hypothetical protein Orf 27 TR:Q9MBR2 (EMBL:AB044554) (96 aa) fasta scores: E(): 0.013, 48.214% id in 56 aa, and to bacteriophage phi ETA hypothetical protein Orf31 TR:Q9G014 (EMBL:AP001553) (94 aa) fasta scores: E(): 0.028, 46.429% id in 56 aa. Contains coiled-coiled domain, residues 48 to 68
YP_040937.1	No significant database matches to the full length CDS. C-terminus is similar to the C-terminal region of bacteriophage phi ETA hypothetical protein Orf30 TR:Q9G015 (EMBL:AP001553) (50 aa) fasta scores: E(): 0.027, 82.609% id in 23 aa
YP_040938.1	Similar to Staphylococcus aureus temperate phage phiSLT phi PVL Orf 51 homologue TR:Q9B0F4 (EMBL:AB045978) (80 aa) fasta scores: E(): 7e-25, 83.750% id in 80 aa, and to Staphylococcus aureus prophage phiPV83 phi PVL Orf 51 homologue TR:Q9MBR3 (EMBL:AB044554) (82 aa) fasta scores: E(): 2.6e-24, 84.810% id in 79 aa. Similar to SAR2076, 82.500% identity (82.500% ungapped) in 80 aa overlap
YP_040939.1	Similar to bacteriophage phi ETA hypothetical protein Orf28 TR:Q9G017 (EMBL:AP001553) (56 aa) fasta scores: E(): 1.5e-19, 96.429% id in 56 aa. CDS is extended at the N-terminus in comparison to the bacteriophage phi ETA orthologue. Possible alternative translational start site
YP_040940.1	Similar to the C-terminal regions of bacteriophage T7 1.7 protein SW:V17_BPT7 (P03781) (196 aa) fasta scores: E(): 0.73, 37.143% id in 70 aa, and bacteriophage phiYeO3-12 1.7 protein TR:Q9T137 (EMBL:AJ251805) (156 aa) fasta scores: E(): 1.3, 29.412% id in 85 aa
YP_040941.1	Similar to Staphylococcus aureus prophage phiPV83 phi PVL Orf 50 TR:Q9MBR4 (EMBL:AB044554) (123 aa) fasta scores: E(): 1.7e-07, 36.029% id in 136 aa
YP_040942.1	Similar to bacteriophage phi ETA hypothetical protein Orf26 TR:Q9G019 (EMBL:AP001553) (61 aa) fasta scores: E(): 4.4e-13, 60.656% id in 61 aa, and to Staphylococcus aureus prophage phiPV83 hypothetical protein Orf 23 TR:Q9MBR6 (EMBL:AB044554) (61 aa) fasta scores: E(): 2.5e-09, 55.738% id in 61 aa
YP_040943.1	Similar to bacteriophage SP02 DNA polymerase L SW:DPOL_BPSP2 (P06225) (648 aa) fasta scores: E(): 6.5e-134, 54.103% id in 658 aa, and to the N-terminal region of bacteriophage APSE-1 probable DNA polymerase 45 SW:DPOL_BPAPS (Q9T1Q3) (993 aa) fasta scores: E(): 1e-34, 29.363% id in 722 aa
YP_040944.1	Similar to bacteriophage APSE-1 hypothetical protein P50 SW:VP50_BPAPS (Q9T1P8) (184 aa) fasta scores: E(): 3.2e-10, 30.055% id in 183 aa. CDS is extended at the N-terminus in comparison to the bacteriophage APSE-1 protein. Possible alternative translational start site
YP_040945.1	Similar to bacteriophage APSE-1 hypothetical protein P51 SW:VP51_BPAPS (Q9T1P7) (439 aa) fasta scores: E(): 1.2e-16, 31.925% id in 426 aa, and to Xylella fastidiosa phage-related protein XF2522 TR:Q9PAJ4 (EMBL:AE004059) (425 aa) fasta scores: E(): 1.8e-06, 29.594% id in 419 aa
YP_040948.1	Similar to Staphylococcus aureus temperate phage phiSLT phi PVL Orf 38 homologue TR:Q9B0G7 (EMBL:AB045978) (53 aa) fasta scores: E(): 3.3e-20, 96.226% id in 53 aa, and to bacteriophage phi PVL hypothetical protein Orf 38 TR:O80077 (EMBL:AB009866) (53 aa) fasta scores: E(): 6.9e-20, 96.226% id in 53 aa. Similar to SAR2091, 92.453% identity (92.453% ungapped) in 53 aa overlap
YP_040949.1	Similar to bacteriophage phi PVL hypothetical protein Orf 37 TR:O80076 (EMBL:AB009866) (87 aa) fasta scores: E(): 2.9e-34, 96.552% id in 87 aa, and to Staphylococcus aureus temperate phage phiSLT phi PVL Orf 37 homologue TR:Q9B0G8 (EMBL:AB045978) (87 aa) fasta scores: E(): 7.7e-33, 93.103% id in 87 aa
YP_040950.1	Identical to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf71 TR:Q9B0G9 (EMBL:AB045978) (71 aa) fasta scores: E(): 1.3e-25, 100.000% id in 71 aa
YP_040951.1	Identical to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf121 TR:Q9B0H0 (EMBL:AB045978) (121 aa) fasta scores: E(): 2.1e-43, 100.000% id in 121 aa
YP_040953.1	Similar to bacteriophage phi PVL hypothetical protein Orf 36 TR:Q9T1Z5 (EMBL:AB009866) (126 aa) fasta scores: E(): 7.1e-35, 69.841% id in 126 aa
YP_040954.1	Similar to bacteriophage phi PVL hypothetical protein Orf 35 TR:O80075 (EMBL:AB009866) (65 aa) fasta scores: E(): 7.6e-17, 67.692% id in 65 aa. Similar to SAR2095, 67.692% identity (67.692% ungapped) in 65 aa overlap
YP_040956.1	Similar to Staphylococcus aureus prophage phiPV83 hypothetical protein Orf 7 TR:Q9MBT2 (EMBL:AB044554) (147 aa) fasta scores: E(): 2.6e-50, 97.959% id in 147 aa
YP_040957.1	Similar to Lactococcus bacteriophage phi31  Cro repressor TR:Q9G0E7 (EMBL:AJ292531) (74 aa) fasta scores: E(): 1.3e-12, 58.333% id in 72 aa, and to bacteriophage TP901-1, and bacteriophage bIL285, modulator of repressor protein Mor TR:O48504 (EMBL:Y14232) (72 aa) fasta scores: E(): 1.4e-13, 55.556% id in 72 aa
YP_040958.1	N-terminus is similar to the N-terminal regions of bacteriophage phi PVL repressor TR:O80070 (EMBL:AB009866) (256 aa) fasta scores: E(): 1.8e-14, 47.368% id in 114 aa, and to bacteriophage bIL285 repressor Orf4 TR:Q9B013 (EMBL:AF323668) (180 aa) fasta scores: E(): 4.5e-11, 51.724% id in 87 aa
YP_040959.1	Similar to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf153 TR:Q9B0H5 (EMBL:AB045978) (153 aa) fasta scores: E(): 1.4e-41, 75.817% id in 153 aa, and to bacteriophage A118 gp35 TR:Q9T189 (EMBL:AJ242593) (163 aa) fasta scores: E(): 6e-08, 31.008% id in 129 aa
YP_040960.1	Similar to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf144 TR:Q9B0H6 (EMBL:AB045978) (144 aa) fasta scores: E(): 1.2e-42, 98.611% id in 144 aa
YP_040961.1	Highly similar to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf131a TR:Q9B0H7 (EMBL:AB045978) (131 aa) fasta scores: E(): 7.6e-51, 99.237% id in 131 aa, and to the C-terminal region of Staphylococcus aureus prophage phiPV83 hypothetical protein Orf 3 TR:Q9MBT6 (EMBL:AB044554) (149 aa) fasta scores: E(): 7.7e-48, 94.656% id in 131 aa
YP_040963.1	Similar to bacteriophage phi PVL hypothetical protein Orf 30 TR:O80069 (EMBL:AB009866) (204 aa) fasta scores: E(): 3.1e-05, 28.986% id in 207 aa, and to Staphylococcus aureus temperate phage phiSLT phi PVL orf 30 homologue TR:Q9B0H8 (EMBL:AB045978) (204 aa) fasta scores: E(): 2.7e-05, 28.986% id in 207 aa
YP_040964.1	Similar to bacteriophage phi PVL and temperate phage phiSLT integrase TR:O80068 (EMBL:AB009866) (401 aa) fasta scores: E(): 7.8e-138, 99.751% id in 401 aa, and to the C-terminal region of bacteriophage L54a excisionase Xis SW:VINT_BPL54 (P20709) (354 aa) fasta scores: E(): 9.5e-89, 73.580% id in 352 aa
YP_040965.1	Two-component regulatory system family, sensor kinase. Previously sequenced as Staphylococcus aureus staphylococcal respiratory response protein (histidine kinase) SrrB TR:Q9L523 (EMBL:AF260326) (583 aa) fasta scores: E(): 2.7e-205, 99.828% id in 583 aa. Similar to Bacillus subtilis sensor protein ResE SW:RESE_BACSU (P35164) (589 aa) fasta scores: E(): 1.4e-59, 33.893% id in 596 aa. Possible alternative translational start site
YP_040966.1	Two-component regulatory system family, response regulator protein. Previously sequenced as Staphylococcus aureus staphylococcal respiratory response protein SrrA TR:Q9L524 (EMBL:AF260326) (241 aa) fasta scores: E(): 3.1e-92, 100.000% id in 241 aa. Similar to Bacillus halodurans two-component response regulator BH1580 TR:Q9KCJ1 (EMBL:AP001512) (238 aa) fasta scores: E(): 1.7e-64, 73.043% id in 230 aa
YP_040967.1	Similar to Bacillus subtilis ribosomal large subunit pseudouridine synthase B RluB SW:RLUB_BACSU (P35159) (229 aa) fasta scores: E(): 1.6e-47, 60.444% id in 225 aa, and to Bacillus halodurans pseudouridylate synthase BH1576 TR:Q9KCJ5 (EMBL:AP001512) (242 aa) fasta scores: E(): 2e-48, 60.084% id in 238 aa
YP_040968.1	Similar to Bacillus subtilis hypothetical protein YpuH SW:YPUH_BACSU (P35155) (197 aa) fasta scores: E(): 4.4e-16, 38.503% id in 187 aa, and to Bacillus halodurans hypothetical protein BH1561 TR:Q9KCL0 (EMBL:AP001512) (197 aa) fasta scores: E(): 1.5e-12, 34.078% id in 179 aa
YP_040969.1	Similar to Bacillus subtilis hypothetical protein YpuG SW:YPUG_BACSU (P35154) (251 aa) fasta scores: E(): 1.4e-32, 43.145% id in 248 aa, and to Bacillus halodurans hypothetical protein BH1560 TR:Q9KCL1 (EMBL:AP001512) (260 aa) fasta scores: E(): 1.6e-28, 42.683% id in 246 aa. Possible alternative translation start site
YP_040970.1	Similar to Bacillus subtilis hypothetical protein YpuF SW:YPUF_BACSU (P17617) (174 aa) fasta scores: E(): 1e-12, 31.977% id in 172 aa, and to Bacillus halodurans hypothetical protein BH1559 TR:Q9KCL2 (EMBL:AP001512) (178 aa) fasta scores: E(): 7.7e-09, 27.647% id in 170 aa
YP_040971.1	Similar to Escherichia coli integrase/recombinase XerD SW:XERD_ECOLI (P21891) (298 aa) fasta scores: E(): 4.3e-44, 44.178% id in 292 aa. Previously sequenced as Staphylococcus aureus  site-specific recombinase XerD TR:Q9KJF7 (EMBL:AF173869) (295 aa) fasta scores: E(): 1.6e-109, 98.299% id in 294 aa
YP_040972.1	Previously sequenced as Staphylococcus aureus iron uptake regulatory protein Fur TR:Q9R303 (EMBL:AF118839) (149 aa) fasta scores: E(): 2.1e-56, 99.329% id in 149 aa. Similar to Bacillus subtilis ferric uptake regulation protein fur SW:FUR_BACSU (P54574) (149 aa) fasta scores: E(): 2.2e-41, 75.342% id in 146 aa
YP_040973.1	Similar to Bacillus subtilis ADP-ribose pyrophosphatase NudF SW:ADPP_BACSU (P54570) (185 aa) fasta scores: E(): 5.4e-26, 48.851% id in 174 aa, and to Bacillus halodurans BH1524 TR:Q9KCP5 (EMBL:AP001512) (183 aa) fasta scores: E(): 3.1e-28, 52.907% id in 172 aa
YP_040974.1	Similar to Bacillus subtilis hypothetical oxidoreductase YqkF SW:YQKF_BACSU (P54569) (306 aa) fasta scores: E(): 1.3e-45, 48.852% id in 305 aa, and to Bacillus halodurans oxidoreductase BH1011 TR:Q9KE47 (EMBL:AP001510) (297 aa) fasta scores: E(): 1.5e-44, 49.342% id in 304 aa
YP_040976.1	Similar to Bacillus subtilis hypothetical oxidoreductase YqjQ SW:YQJQ_BACSU (P54554) (259 aa) fasta scores: E(): 2.1e-17, 29.839% id in 248 aa, and to Bacillus halodurans oxidoreductase BH1506 TR:Q9KCR3 (EMBL:AP001512) (259 aa) fasta scores: E(): 7.1e-16, 30.000% id in 260 aa
YP_040977.1	Similar to Bacillus subtilis pyrroline-5-carboxylate reductase 2 proI SW:PROI_BACSU (P54552) (278 aa) fasta scores: E(): 4.2e-23, 35.294% id in 255 aa, and to Bacillus subtilis pyrroline-5-carboxylate reductase 1 ProH SW:PROH_BACSU (P14383) (270 aa) fasta scores: E(): 3.1e-20, 32.636% id in 239 aa
YP_040978.1	Similar to Bacillus subtilis hypothetical protein YqjK SW:YQJK_BACSU (P54548) (307 aa) fasta scores: E(): 6.8e-47, 43.046% id in 302 aa, and to Bacillus halodurans hypothetical protein BH1713 TR:Q9KC61 (EMBL:AP001512) (309 aa) fasta scores: E(): 4.4e-45, 42.532% id in 308 aa
YP_040979.1	catalyzes the formation of D-glucono-1,5-lactone 6-phosphate from D-glucose 6-phosphate
YP_040980.1	Similar to Bacillus subtilis probable transcriptional regulator (AraC/XylS family) YdeE TR:P96662 (EMBL:AB001488) (290 aa) fasta scores: E(): 4.7e-16, 26.117% id in 291 aa, and to Lactococcus lactis hypothetical protein TR:O32788 (EMBL:X92946) (281 aa) fasta scores: E(): 1.4e-13, 27.211% id in 294 aa
YP_040981.1	Similar to Staphylococcus xylosus alpha-D-1,4-glucosidase MalA TR:Q60015 (EMBL:X78853) (549 aa) fasta scores: E(): 1.2e-181, 79.342% id in 547 aa, and to Bacillus halodurans exo-alpha-1,4-glucosidase BH3868 TR:Q9K664 (EMBL:AP001520) (553 aa) fasta scores: E(): 2.5e-141, 62.774% id in 548 aa
YP_040982.1	Similar to Staphylococcus xylosus maltose operon transcriptional repressor MalR SW:MALR_STAXY (Q56201) (337 aa) fasta scores: E(): 1.5e-46, 44.083% id in 338 aa, and to Streptococcus pyogenes  maltose operon transcriptional repressor SPY1293 TR:Q99ZC1 (EMBL:AE006568) (339 aa) fasta scores: E(): 1.3e-30, 32.059% id in 340 aa
YP_040983.1	Similar to Lactococcus lactis hypothetical protein YfhJ TR:Q9CHY4 (EMBL:AE006292) (122 aa) fasta scores: E(): 4.8e-09, 38.596% id in 114 aa, and to Bacillus subtilis hypothetical protein YetH TR:O31535 (EMBL:Z99107) (120 aa) fasta scores: E(): 0.00015, 30.400% id in 125 aa
YP_040984.1	Similar to Exiguobacterium acetylicum guanosine kinase Gsk TR:O24767 (EMBL:AB005149) (303 aa) fasta scores: E(): 2.5e-09, 22.449% id in 294 aa, and to Escherichia coli hypothetical sugar kinase YeiC SW:YEIC_ECOLI (P30235) (313 aa) fasta scores: E(): 5.7e-19, 29.352% id in 293 aa
YP_040985.1	catalyzes the formation of D-ribulose 5-phosphate from 6-phospho-D-gluconate
YP_040986.1	Similar to Salmonella typhimurium peptidase T PepT SW:PEPT_SALTY (P26311) (409 aa) fasta scores: E(): 3.9e-14, 24.757% id in 412 aa, and to Bacillus halodurans hypothetical protein BH1469 TR:Q9KCV0 (EMBL:AP001512) (372 aa) fasta scores: E(): 4.8e-72, 56.604% id in 371 aa
YP_040987.1	Similar to Bacillus subtilis hypothetical protein YqjA SW:YQJA_BACSU (P54538) (322 aa) fasta scores: E(): 1.3e-39, 39.683% id in 315 aa, and to Bacillus halodurans hypothetical protein BH1464 TR:Q9KCV5 (EMBL:AP001512) (326 aa) fasta scores: E(): 6.3e-34, 36.156% id in 307 aa
YP_040988.1	Similar to Bacillus subtilis hypothetical protein YqiW SW:YQIW_BACSU (P54534) (145 aa) fasta scores: E(): 4.7e-38, 68.056% id in 144 aa, and to Bacillus halodurans hypothetical protein BH2759 TR:Q9K991 (EMBL:AP001516) (145 aa) fasta scores: E(): 3.8e-35, 65.714% id in 140 aa
YP_040989.1	Similar to Bacillus subtilis lipoamide acyltransferase component of branched-chain alpha-keto acid dehydrogenase complex BfmB SW:ODB2_BACSU (P37942) (424 aa) fasta scores: E(): 4.5e-80, 55.220% id in 431 aa, and to Bacillus halodurans branched-chain alpha-keto acid dehydrogenase E2 BH2761 TR:Q9K989 (EMBL:AP001516) (426 aa) fasta scores: E(): 3.4e-80, 55.172% id in 435 aa
YP_040990.1	Similar to Bacillus subtilis 2-oxoisovalerate dehydrogenase beta subunit BfmBAB SW:ODBB_BACSU (P37941) (327 aa) fasta scores: E(): 4e-89, 66.972% id in 327 aa, and to Bacillus halodurans branched-chain alpha-keto acid dehydrogenase E1 BH2762 TR:Q9K988 (EMBL:AP001516) (327 aa) fasta scores: E(): 7.8e-91, 67.278% id in 327 aa
YP_040991.1	Similar to Bacillus subtilis 2-oxoisovalerate dehydrogenase alpha subunit BfmBAA SW:ODBA_BACSU (P37940) (330 aa) fasta scores: E(): 1.4e-60, 53.251% id in 323 aa, and to Bacillus halodurans branched-chain alpha-keto acid dehydrogenase E1 BH2763 TR:Q9K987 (EMBL:AP001516) (330 aa) fasta scores: E(): 1.8e-63, 56.000% id in 325 aa
YP_040992.1	Similar to Bacillus subtilis dihydrolipoamide dehydrogenase BfmBC SW:DLD2_BACSU (P54533) (474 aa) fasta scores: E(): 3.4e-80, 48.842% id in 475 aa, and to Bacillus halodurans dihydrolipoamide dehydrogenase BH2764 TR:Q9K986 (EMBL:AP001516) (474 aa) fasta scores: E(): 4.5e-80, 48.745% id in 478 aa
YP_040993.1	Similar to Escherichia coli DNA repair protein RecN SW:RECN_ECOLI (P05824) (553 aa) fasta scores: E(): 2.7e-41, 33.989% id in 559 aa, and to Bacillus halodurans DNA repair protein BH2776 SW:RECN_BACHD (Q9K974) (565 aa) fasta scores: E(): 3.3e-62, 41.547% id in 556 aa
YP_040994.1	regulates arginine biosynthesis when complexed with arginine by binding at site that overlap the promotors of the arginine biosynthesis genes
YP_040995.1	Similar to Bacillus stearothermophilus geranyltranstransferase SW:ISPA_BACST (Q08291) (297 aa) fasta scores: E(): 1e-46, 47.492% id in 299 aa, and to Bacillus halodurans geranyltranstransferase BH2781 TR:Q9K969 (EMBL:AP001516) (294 aa) fasta scores: E(): 3.2e-46, 47.222% id in 288 aa
YP_040996.1	catalyzes the bidirectional exonucleolytic cleavage of DNA
YP_040997.1	bidirectionally degrades single-stranded DNA into large acid-insoluble oligonucleotides
YP_040998.1	Regulates rRNA biosynthesis by transcriptional antitermination
YP_040999.1	Similar to Bacillus subtilis hypothetical protein YqhY SW:YQHY_BACSU (P54519) (135 aa) fasta scores: E(): 6.7e-13, 42.342% id in 111 aa, and to Bacillus halodurans hypothetical protein BH2786 TR:Q9K964 (EMBL:AP001516) (132 aa) fasta scores: E(): 2.9e-11, 40.000% id in 110 aa
YP_041000.1	an AccC homodimer forms the biotin carboxylase subunit of the acetyl CoA carboxylase, an enzyme that catalyzes the formation of malonyl-CoA, which in turn controls the rate of fatty acid metabolism
YP_041001.1	Similar to Bacillus subtilis biotin carboxyl carrier protein of acetyl-CoA carboxylase AccB SW:BCCP_BACSU (P49786) (159 aa) fasta scores: E(): 6.7e-20, 50.318% id in 157 aa, and to Synechocystis sp biotin carboxyl carrier protein of acetyl-CoA carboxylase SLR0435 TR:Q55120 (EMBL:D64001) (154 aa) fasta scores: E(): 4.5e-18, 41.935% id in 155 aa
YP_041002.1	Involved in peptide bond synthesis; alters the affinity of the ribosome for aminoacyl-tRNA
YP_041003.1	Similar to Bacillus halodurans Xaa-Pro dipeptidase BH2800 TR:Q9K950 (EMBL:AP001516) (355 aa) fasta scores: E(): 2.8e-62, 48.148% id in 351 aa, and to Bacillus subtilis  peptidase YqhT SW:YQHT_BACSU (P54518) (353 aa) fasta scores: E(): 3.4e-59, 46.307% id in 352 aa
YP_041004.1	No significant database matches. Contains coiled-coiled domain, residues 38 to 59
YP_041005.1	Poor database matches. Similar to the N-terminal region of Bacillus halodurans hypothetical protein BH2804 TR:Q9K946 (EMBL:AP001516) (136 aa) fasta scores: E(): 9.2, 29.032% id in 62 aa, and to the C-terminal region of Anabaena sp strain pcc 7120 hypothetical protein TR:Q44229 (EMBL:U13768) (108 aa) fasta scores: E(): 2.7, 30.000% id in 50 aa
YP_041006.1	Similar to Bacillus halodurans lipoate protein ligase BH2812 TR:Q9K938 (EMBL:AP001516) (276 aa) fasta scores: E(): 1.9e-70, 64.364% id in 275 aa, and to Bacillus subtilis hypothetical protein YqhM TR:O32018 (EMBL:Z99116) (278 aa) fasta scores: E(): 5.4e-68, 62.182% id in 275 aa
YP_041007.1	Similar to Bacillus subtilis hypothetical protein YqhL SW:YQHL_BACSU (P54510) (126 aa) fasta scores: E(): 6.1e-21, 51.200% id in 125 aa, and to Bacillus halodurans hypothetical protein BH2813 TR:Q9K937 (EMBL:AP001516) (125 aa) fasta scores: E(): 1.7e-19, 48.387% id in 124 aa
YP_041008.1	acts in conjunction with GvcH to form H-protein-S-aminomethyldihydrolipoyllysine from glycine; forms a heterodimer with subunit 1 to form the P protein
YP_041009.1	acts in conjunction with GvcH to form H-protein-S-aminomethyldihydrolipoyllysine from glycine; forms a heterodimer with subunit 2 to form the P protein
YP_041010.1	catalyzes the transfer of a methylene carbon from the methylamine-loaded GcvH protein to tetrahydrofolate, causing the release of ammonia and the generation of reduced GcvH protein
YP_041011.1	Similar to Bacillus subtilis shikimate kinase AroK SW:AROK_BACSU (P37944) (186 aa) fasta scores: E(): 2.9e-09, 32.164% id in 171 aa, and to Aquifex aeolicus shikimate kinase AQ_2177 SW:AROK_AQUAE (O67925) (168 aa) fasta scores: E(): 2.2e-12, 34.507% id in 142 aa
YP_041012.1	Poor database matches. Similar to Streptococcus pyogenes  competence protein SPY0106 TR:Q9A1T4 (EMBL:AE006481) (144 aa) fasta scores: E(): 0.054, 27.068% id in 133 aa. Possible alternative translational start site
YP_041013.1	Poor database matches. Similar to Streptococcus gordonii challis hypothetical protein ComYC TR:O06668 (EMBL:U81957) (105 aa) fasta scores: E(): 7.9, 18.367% id in 98 aa
YP_041014.1	Similar to Bacillus subtilis comG operon protein 4 precursor ComG4 SW:CMGD_BACSU (P25956) (143 aa) fasta scores: E(): 0.92, 21.233% id in 146 aa, and to Burkholderia cepacia  type II secretion pathway protein GspH TR:Q9LAN3 (EMBL:AF127982) (157 aa) fasta scores: E(): 3.6, 26.174% id in 149 aa
YP_041015.1	Similar to Bacillus subtilis comG operon protein 3 precursor ComG3 SW:CMGC_BACSU (P25955) (98 aa) fasta scores: E(): 1.5e-10, 41.758% id in 91 aa, and to Bacillus halodurans comG operon protein 3 homologue precursor BH2827 SW:CMGC_BACHD (Q9K923) (102 aa) fasta scores: E(): 7e-10, 35.714% id in 98 aa
YP_041016.1	Similar to Bacillus subtilis comG operon protein 2 ComG2 SW:CMGB_BACSU (P25954) (323 aa) fasta scores: E(): 6.2e-21, 24.138% id in 319 aa, and to Pseudomonas putida type 4 fimbrial assembly protein PilC SW:PILC_PSEPU (P36641) (401 aa) fasta scores: E(): 1.7e-11, 23.907% id in 343 aa
YP_041017.1	Poor database matches. N-terminus is similar to the N-terminal region of Bacillus subtilis comG operon protein 1 ComG1 SW:CMGA_BACSU (P25953) (356 aa) fasta scores: E(): 4.6e-32, 39.405% id in 269 aa
YP_041018.1	Similar to Bacillus halodurans hypothetical protein BH2820 TR:Q9K930 (EMBL:AP001516) (211 aa) fasta scores: E(): 3.6e-28, 49.038% id in 208 aa, and to Bacillus subtilis hypothetical protein YqgX SW:YQGX_BACSU (P54501) (211 aa) fasta scores: E(): 4.9e-26, 41.232% id in 211 aa
YP_041019.1	Similar to Staphylococcus xylosus hypothetical protein DglA SW:DGLA_STAXY (Q56200) (107 aa) fasta scores: E(): 1.8e-30, 80.189% id in 106 aa, and to the C-terminal region of Bacillus halodurans hypothetical protein BH1437 TR:Q9KCY2 (EMBL:AP001512) (358 aa) fasta scores: E(): 4.8e-19, 57.407% id in 108 aa
YP_041020.1	Similar to Staphylococcus xylosus glucokinase GlkA SW:GLK_STAXY (Q56198) (328 aa) fasta scores: E(): 1.3e-109, 83.537% id in 328 aa, and to Bacillus megaterium glucose kinase Glk TR:O31392 (EMBL:AJ000005) (324 aa) fasta scores: E(): 1.6e-46, 42.947% id in 319 aa
YP_041021.1	Similar to Bacillus subtilis hypothetical protein YqgQ SW:YQGQ_BACSU (P54494) (71 aa) fasta scores: E(): 9.1e-05, 33.333% id in 63 aa, and to Streptococcus pyogenes hypothetical protein SPY1530 TR:Q99YU8 (EMBL:AE006586) (67 aa) fasta scores: E(): 0.0011, 41.270% id in 63 aa. Doubtful CDS, poor translational start site
YP_041022.1	Similar to Bacillus halodurans hypothetical protein BH1421 TR:Q9KCZ8 (EMBL:AP001512) (514 aa) fasta scores: E(): 4.9e-19, 24.376% id in 521 aa, and to Bacillus subtilis hypothetical protein YqgP SW:YQGP_BACSU (P54493) (507 aa) fasta scores: E(): 5e-15, 23.450% id in 516 aa
YP_041023.1	Similar to Homo sapiens 5-formyltetrahydrofolate cyclo-ligase MthFS SW:FTHC_HUMAN (P49914) (202 aa) fasta scores: E(): 1.8e-08, 27.083% id in 192 aa, and to Streptococcus mutans hypothetical protein TR:O66124 (EMBL:AB001562) (178 aa) fasta scores: E(): 3.7e-20, 39.080% id in 174 aa
YP_041024.1	in Escherichia coli BM108, a mutation that results in lack of L33 synthesis had no effect on ribosome synthesis or function; there are paralogous genes in several bacterial genomes, and a CXXC motif for zinc binding and an upstream regulation region of the paralog lacking this motif that are regulated by zinc similar to other ribosomal proteins like L31; the proteins in this group lack the CXXC motif
YP_041025.1	Previously sequenced as Staphylococcus aureus penicillin-binding protein PbpF TR:Q9XDB3 (EMBL:AF098801) (691 aa) fasta scores: E(): 0, 99.421% id in 691 aa. Similar to Streptococcus pneumoniae penicillin-binding protein 2b Pbp2B TR:Q9R8Q9 (EMBL:AF068901) (680 aa) fasta scores: E(): 1.9e-65, 33.333% id in 672 aa
YP_041026.1	Similar to Staphylococcus aureus superoxide dismutase SodA TR:Q9Z5W5 (EMBL:AF121672) (199 aa) fasta scores: E(): 5.8e-82, 100.000% id in 199 aa, and to Staphylococcus xylosus superoxide dismutase Sod TR:Q9K4V3 (EMBL:AJ276960) (199 aa) fasta scores: E(): 6.6e-76, 91.457% id in 199 aa. Similar to SAR0135, 74.874% identity (74.874% ungapped) in 199 aa overlap
YP_041027.1	Similar to Bacillus subtilis zinc-specific metalloregulatory protein Zur SW:ZUR_BACSU (P54479) (145 aa) fasta scores: E(): 1.6e-26, 51.852% id in 135 aa. Previously sequenced as Staphylococcus aureus ferric uptake regulation protein homologue Zur TR:Q9R3G5 (EMBL:AF121672) (136 aa) fasta scores: E(): 6.4e-52, 100.000% id in 136 aa
YP_041028.1	Previously sequenced as Staphylococcus aureus ABC transporter MreB TR:Q9LAP5 (EMBL:AF121672) (277 aa) fasta scores: E(): 2e-87, 100.000% id in 277 aa. Similar to Staphylococcus xylosus  ABC transporter ZurM TR:Q9K4V5 (EMBL:AJ276960) (286 aa) fasta scores: E(): 7.2e-77, 82.807% id in 285 aa
YP_041029.1	Similar to Staphylococcus aureus ABC transporter MreA TR:Q9RGL9 (EMBL:AF121672) (261 aa) fasta scores: E(): 7.3e-85, 99.617% id in 261 aa, and to Staphylococcus xylosus  ABC transporter ZurA TR:Q9K4V6 (EMBL:AJ276960) (257 aa) fasta scores: E(): 4.4e-67, 78.740% id in 254 aa. Possible alternative translational start sites
YP_041030.1	Assists in DNA repair by cleaving phosphodiester bonds at apurinic or apyrimidinic sties to produce new 5' ends that are base-free deoxyribose 5-phosphate residues
YP_041031.1	Similar to N-terminal region of Escherichia coli cold-shock deaD-box protein A DeaD SW:DEAD_ECOLI (P23304) (628 aa) fasta scores: E(): 2.3e-38, 29.806% id in 463 aa, and to the full length Bacillus subtilis probable RNA helicase YqfR SW:YQFR_BACSU (P54475) (438 aa) fasta scores: E(): 3e-72, 47.153% id in 439 aa
YP_041032.1	Similar to Bacillus halodurans hypothetical protein BH1380 SW:YD80_BACHD (Q9KD39) (372 aa) fasta scores: E(): 7.9e-48, 37.903% id in 372 aa, and to Bacillus subtilis hypothetical protein YqfO SW:YQFO_BACSU (P54472) (373 aa) fasta scores: E(): 5.6e-43, 36.438% id in 365 aa
YP_041033.1	Similar to Lactococcus lactis hypothetical protein YkiC TR:Q9CGM4 (EMBL:AE006340) (230 aa) fasta scores: E(): 7e-29, 45.815% id in 227 aa, and to Streptococcus pyogenes hypothetical protein SPY0930 TR:Q9A050 (EMBL:AE006542) (228 aa) fasta scores: E(): 1.1e-26, 42.788% id in 208 aa
YP_041034.1	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; primary sigma factor of bacterium
YP_041035.1	Similar to Bacillus subtilis DNA primase DnaG SW:PRIM_BACSU (P05096) (603 aa) fasta scores: E(): 7.4e-70, 36.529% id in 605 aa. Previously sequenced as Staphylococcus aureus DNA primase DnaG SW:PRIM_STAAU (O05338) (572 aa) fasta scores: E(): 4.3e-208, 97.898% id in 571 aa
YP_041036.1	Similar to Bacillus subtilis hypothetical protein YqfL SW:YQFL_BACSU (P54470) (270 aa) fasta scores: E(): 1.3e-52, 58.015% id in 262 aa, and to Bacillus halodurans hypothetical protein BH1373 TR:Q9KD46 (EMBL:AP001511) (270 aa) fasta scores: E(): 1.7e-52, 59.144% id in 257 aa
YP_041037.1	Catalyzes a two-step reaction, first charging a glycine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA
YP_041038.1	Similar to Bacillus subtilis DNA repair protein RecO SW:RECO_BACSU (P42095) (255 aa) fasta scores: E(): 3.6e-23, 28.287% id in 251 aa, and to Bacillus halodurans hypothetical protein BH1369 TR:Q9KD50 (EMBL:AP001511) (254 aa) fasta scores: E(): 3e-22, 28.629% id in 248 aa
YP_041039.1	Era; Escherichia coli Ras-like protein; Bex; Bacillus Era-complementing segment; essential protein in Escherichia coli that is involved in many cellular processes; GTPase; binds the cell membrane through apparent C-terminal domain; mutants are arrested during the cell cycle; Streptococcus pneumoniae Era binds to RNA and Escherichia coli Era binds 16S rRNA and 30S ribosome
YP_041040.1	Similar to Homo sapiens cytidine deaminase CDA SW:CDD_HUMAN (P32320) (146 aa) fasta scores: E(): 4.2e-21, 47.101% id in 138 aa, and to Bacillus subtilis cytidine deaminase Cdd SW:CDD_BACSU (P19079) (136 aa) fasta scores: E(): 7.3e-21, 50.000% id in 124 aa
YP_041041.1	Similar to Escherichia coli diacylglycerol kinase DgkA SW:KDGL_ECOLI (P00556) (121 aa) fasta scores: E(): 4.3e-07, 34.545% id in 110 aa, and to Bacillus halodurans diacylglycerol kinase BH1364 TR:Q9KD55 (EMBL:AP001511) (130 aa) fasta scores: E(): 5.4e-14, 42.857% id in 112 aa
YP_041042.1	Similar to Bacillus subtilis hypothetical protein YqfG SW:YQFG_BACSU (P46347) (157 aa) fasta scores: E(): 6e-29, 56.579% id in 152 aa, and to Bacillus halodurans hypothetical protein BH1363 TR:Q9KD56 (EMBL:AP001511) (159 aa) fasta scores: E(): 4.5e-25, 55.128% id in 156 aa
YP_041043.1	Similar to Bacillus megaterium hypothetical protein TR:Q9ZEF6 (EMBL:AJ224829) (324 aa) fasta scores: E(): 9.3e-66, 65.372% id in 309 aa, and to Bacillus subtilis PhoH-like protein PhoH SW:PHOL_BACSU (P46343) (319 aa) fasta scores: E(): 2.5e-64, 62.903% id in 310 aa
YP_041045.1	Similar to Bacillus subtilis hypothetical protein YqfA SW:YQFA_BACSU (P54466) (331 aa) fasta scores: E(): 4.4e-80, 78.019% id in 323 aa, and to Bacillus halodurans hypothetical protein BH1357 TR:Q9KD62 (EMBL:AP001511) (331 aa) fasta scores: E(): 8.3e-79, 76.161% id in 323 aa
YP_041046.1	Similar to C-terminal regions of Bacillus subtilis hypothetical protein YqeZ SW:YQEZ_BACSU (P54465) (437 aa) fasta scores: E(): 2e-24, 35.000% id in 220 aa, and Bacillus halodurans hypothetical protein BH1356 TR:Q9KD63 (EMBL:AP001511) (445 aa) fasta scores: E(): 1.4e-18, 32.766% id in 235 aa
YP_041047.1	a small basic protein that is one of the last in the subunit assembly; omission does not prevent assembly but the subunit is inactive; binds central domain of 16S rRNA
YP_041048.1	Similar to Bacillus subtilis hypothetical protein YqeV SW:YQEV_BACSU (P54462) (451 aa) fasta scores: E(): 3.3e-131, 77.273% id in 440 aa, and to Bacillus halodurans hypothetical protein BH1351 TR:Q9KD68 (EMBL:AP001511) (448 aa) fasta scores: E(): 3.7e-131, 77.677% id in 439 aa
YP_041049.1	in Escherichia coli RsmE methylates the N3 position of the U1498 base in 16S rRNA; cells lacking this function can grow, but are outcompeted by wild-type; SAM-dependent m(3)U1498 methyltransferase
YP_041050.1	methylates ribosomal protein L11 at multiple amino acid positions; mutations of these genes in Escherichia coli or Thermus thermophilus has no apparent phenotype
YP_041051.1	chaperone Hsp40; co-chaperone with DnaK; Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins and by disaggregating proteins, also in an autonomous, dnaK-independent fashion
YP_041052.1	heat shock protein 70; assists in folding of nascent polypeptide chains; refolding of misfolded proteins; utilizes ATPase activity to help fold; co-chaperones are DnaJ and GrpE; multiple copies in some bacteria
YP_041053.1	with DnaK and DnaJ acts in response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins; may act as a thermosensor
YP_041054.1	Similar to Bacillus subtilis heat-inducible transcription repressor HrcA SW:HRCA_BACSU (P25499) (343 aa) fasta scores: E(): 5.1e-30, 31.138% id in 334 aa. Previously sequenced as Staphylococcus aureus heat-inducible transcription repressor HrcA SW:HRCA_STAAU (P45556) (325 aa) fasta scores: E(): 9.8e-112, 99.692% id in 325 aa
YP_041055.1	catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III
YP_041056.1	binds to the ribosome on the universally-conserved alpha-sarcin loop
YP_041057.1	binds directly to the 16S rRNA and is involved in post-translational inhibition of arginine and ornithine decarboxylase
YP_041058.1	required for the assembly and function of the DNAX complex which is required for the assembly of the beta subunit onto primed DNA
YP_041059.1	Similar to Lactococcus lactis competence protein ComEC TR:Q9CER4 (EMBL:AE006407) (736 aa) fasta scores: E(): 3.9e-30, 26.139% id in 746 aa, and to Bacillus subtilis comE operon protein 3 ComE3 SW:CME3_BACSU (P39695) (776 aa) fasta scores: E(): 1.4e-23, 26.057% id in 733 aa
YP_041060.1	Similar to Streptococcus pyogenes  late competence protein required for DNA binding SPY1823 TR:Q99Y86 (EMBL:AE006609) (153 aa) fasta scores: E(): 2.3e-31, 56.716% id in 134 aa, and to the C-terminal region of to Saccharomyces cerevisiae deoxycytidylate deaminase DCD1 SW:DCTD_YEAST (P06773) (312 aa) fasta scores: E(): 4.9e-16, 38.000% id in 150 aa
YP_041061.1	Similar to Listeria monocytogenes competence protein 1 TR:Q9EYL7 (EMBL:AF320589) (211 aa) fasta scores: E(): 1.6e-17, 36.744% id in 215 aa, and to Bacillus subtilis comE operon protein 1 ComE1 SW:CME1_BACSU (P39694) (205 aa) fasta scores: E(): 8.9e-18, 39.779% id in 181 aa
YP_041062.1	Similar to Bacillus subtilis hypothetical protein YqeM SW:YQEM_BACSU (P54458) (247 aa) fasta scores: E(): 6.8e-31, 40.909% id in 242 aa, and to Streptococcus pyogenes hypothetical protein SPY0312 TR:Q9A1E9 (EMBL:AE006496) (263 aa) fasta scores: E(): 1.3e-29, 37.037% id in 243 aa
YP_041063.1	Similar to Bacillus halodurans hypothetical protein BH1328 TR:Q9KD89 (EMBL:AP001511) (117 aa) fasta scores: E(): 2.4e-26, 64.815% id in 108 aa, and to Bacillus subtilis hypothetical protein YqeL SW:YQEL_BACSU (P54457) (118 aa) fasta scores: E(): 5.7e-25, 60.550% id in 109 aa
YP_041064.1	Similar to Bacillus halodurans hypothetical protein BH1327 TR:Q9KD90 (EMBL:AP001511) (187 aa) fasta scores: E(): 1.5e-24, 43.407% id in 182 aa, and to Bacillus subtilis hypothetical protein YqeK SW:YQEK_BACSU (P54456) (186 aa) fasta scores: E(): 2.4e-23, 39.891% id in 183 aa
YP_041065.1	Similar to Bacillus subtilis probable nicotinate-nucleotide adenylyltransferase NadD SW:NADD_BACSU (P54455) (189 aa) fasta scores: E(): 2.2e-22, 33.511% id in 188 aa, and to Bacillus halodurans probable nicotinate-nucleotide adenylyltransferase BH1326 SW:NADD_BACHD (Q9KD91) (207 aa) fasta scores: E(): 2.9e-21, 37.500% id in 192 aa
YP_041066.1	Similar to Bacillus subtilis hypothetical protein YqeI SW:YQEI_BACSU (P54454) (96 aa) fasta scores: E(): 3.8e-21, 66.667% id in 96 aa, and to Bacillus halodurans hypothetical protein BH1325 TR:Q9KD92 (EMBL:AP001511) (96 aa) fasta scores: E(): 5.2e-21, 65.625% id in 96 aa
YP_041067.1	Similar to Escherichia coli shikimate 5-dehydrogenase AroE SW:AROE_ECOLI (P15770) (272 aa) fasta scores: E(): 5.7e-21, 34.409% id in 279 aa, and to Bacillus subtilis shikimate 5-dehydrogenase AroD SW:AROE_BACSU (P54374) (280 aa) fasta scores: E(): 1.5e-31, 37.956% id in 274 aa
YP_041068.1	in Bacillus subtilis this enzyme appears to be involved in 30S ribosomal RNA subunit biogenesis
YP_041069.1	Similar to Bacillus subtilis hypothetical protein YqeG SW:YQEG_BACSU (P54452) (172 aa) fasta scores: E(): 4.1e-37, 58.140% id in 172 aa, and to Bacillus halodurans hypothetical protein BH1322 TR:Q9KD95 (EMBL:AP001511) (171 aa) fasta scores: E(): 3.4e-31, 52.663% id in 169 aa
YP_041070.1	Similar to Escherichia coli 5'-methylthioadenosine (MTA) and S-adenosylhomocysteine (SAH) nucleosidase Pfs SW:MTN_ECOLI (P24247) (232 aa) fasta scores: E(): 1.2e-40, 54.185% id in 227 aa, and to Vibrio cholerae MTA/SAH nucleosidase VC2379 TR:Q9KPI8 (EMBL:AE004308) (231 aa) fasta scores: E(): 1.8e-40, 53.509% id in 228 aa
YP_041071.1	No significant database matches. Doubtful CDS
YP_041072.1	Doubtful CDS. No significant database matches
YP_041073.1	Similar to Bacillus halodurans hypothetical protein BH1820 TR:Q9KBV4 (EMBL:AP001513) (385 aa) fasta scores: E(): 2.1e-74, 55.670% id in 388 aa, and to Bacillus subtilis hypothetical protein YcsG SW:YCSG_BACSU (P42964) (386 aa) fasta scores: E(): 5e-71, 54.617% id in 379 aa
YP_041074.1	Similar to Bacillus halodurans lactam utilization protein BH1821 TR:Q9KBV3 (EMBL:AP001513) (257 aa) fasta scores: E(): 7.3e-54, 54.472% id in 246 aa, and to Campylobacter jejuni hypothetical protein CJ1541 TR:Q9PMC8 (EMBL:AL139078) (255 aa) fasta scores: E(): 2.4e-49, 55.422% id in 249 aa
YP_041075.1	Similar to Anabaena sp biotin carboxylase AccC SW:ACCC_ANASP (Q06862) (447 aa) fasta scores: E(): 2.6e-78, 48.081% id in 443 aa, and to Lactococcus lactis biotin carboxylase AccC TR:Q9CHF3 (EMBL:AE006311) (455 aa) fasta scores: E(): 3.7e-82, 51.242% id in 443 aa
YP_041076.1	Similar to Bacillus subtilis biotin carboxyl carrier protein of acetyl-CoA carboxylase AccB SW:BCCP_BACSU (P49786) (159 aa) fasta scores: E(): 7.2e-08, 30.573% id in 157 aa, and to Aquifex aeolicus biotin carboxyl carrier protein AQ_1363 TR:O67375 (EMBL:AE000736) (154 aa) fasta scores: E(): 1e-07, 31.333% id in 150 aa
YP_041077.1	Similar to Pyrococcus horikoshii hypothetical protein PH0988 TR:O58716 (EMBL:AP000004) (331 aa) fasta scores: E(): 3.2e-34, 38.014% id in 292 aa, and to Pyrococcus abyssi hypothetical protein PAB1714 TR:Q9V007 (EMBL:AJ248286) (331 aa) fasta scores: E(): 5.7e-34, 37.500% id in 304 aa
YP_041078.1	Similar to Bacillus halodurans hypothetical protein BH1817 TR:Q9KBV7 (EMBL:AP001513) (225 aa) fasta scores: E(): 1.5e-34, 43.243% id in 222 aa, and to Campylobacter jejuni hypothetical protein CJ1542 TR:Q9PMC7 (EMBL:AL139078) (246 aa) fasta scores: E(): 1.5e-31, 42.672% id in 232 aa
YP_041079.1	necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites; arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by cleavage factors such as GreA or GreB allows the resumption of elongation from the new 3'terminus
YP_041080.1	functions in pyrimidine salvage; pyrimidine ribonucleoside kinase; phosphorylates nucleosides or dinucleosides to make UMP or CMP using ATP or GTP as the donor
YP_041081.1	Similar to Bacillus subtilis hypothetical protein YrrO TR:O32034 (EMBL:Z99117) (422 aa) fasta scores: E(): 2.5e-125, 75.481% id in 416 aa, and to Bacillus halodurans protease BH1274 TR:Q9KDD9 (EMBL:AP001511) (420 aa) fasta scores: E(): 9.9e-121, 72.195% id in 410 aa
YP_041082.1	Similar to Bacillus subtilis hypothetical protein YrrN TR:O32035 (EMBL:Z99117) (309 aa) fasta scores: E(): 3.9e-66, 54.754% id in 305 aa, and to Bacillus halodurans protease BH1273 TR:Q9KDE0 (EMBL:AP001511) (309 aa) fasta scores: E(): 9.6e-65, 53.770% id in 305 aa
YP_041083.1	Similar to Bacillus subtilis hypothetical protein YrrM TR:O32036 (EMBL:Z99117) (217 aa) fasta scores: E(): 7.1e-23, 37.561% id in 205 aa, and to Bacillus halodurans O-methyltransferase BH1272 TR:Q9KDE1 (EMBL:AP001511) (223 aa) fasta scores: E(): 2e-22, 35.577% id in 208 aa
YP_041084.1	Similar to Streptococcus pyogenes hypothetical protein SPY2112 TR:Q99XP5 (EMBL:AE006631) (101 aa) fasta scores: E(): 1.8e-08, 40.196% id in 102 aa, and to Lactococcus lactis hypothetical protein YbeC TR:Q9CJ62 (EMBL:AE006252) (107 aa) fasta scores: E(): 5.5e-08, 38.235% id in 102 aa
YP_041085.1	similar to RuvC resolvase with substantial differences; NMR structural information suggests this protein is monomeric; unknown cellular function
YP_041086.1	Similar to Bacillus halodurans hypothetical protein BH1268 TR:Q9KDE5 (EMBL:AP001511) (90 aa) fasta scores: E(): 2.6e-15, 56.322% id in 87 aa, and to Streptococcus pyogenes hypothetical protein SPY2114 TR:Q99XP3 (EMBL:AE006631) (89 aa) fasta scores: E(): 1.2e-14, 56.410% id in 78 aa
YP_041087.1	Catalyzes a two-step reaction, first charging an alanyl molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA
YP_041088.1	Similar to Bacillus subtilis hypothetical protein YrrC TR:O34481 (EMBL:Z99117) (798 aa) fasta scores: E(): 1.9e-137, 52.646% id in 756 aa, and to Streptococcus pyogenes  exodeoxyribonuclease V SPY1844 TR:Q99Y68 (EMBL:AE006610) (817 aa) fasta scores: E(): 2.2e-105, 39.753% id in 810 aa
YP_041089.1	Similar to Bacillus subtilis hypothetical protein YrrB TR:O34452 (EMBL:Z99117) (206 aa) fasta scores: E(): 9.8e-21, 36.946% id in 203 aa, and to Bacillus halodurans hypothetical protein BH1262 TR:Q9KDF1 (EMBL:AP001511) (214 aa) fasta scores: E(): 4.9e-20, 34.848% id in 198 aa
YP_041090.1	catalyzes a sulfuration reaction to synthesize 2-thiouridine at the U34 position of tRNAs
YP_041091.1	Similar to Escherichia coli Fe-S cluster formation protein, cysteine desulfurase IscS SW:ISCS_ECOLI (P39171) (404 aa) fasta scores: E(): 3.1e-50, 42.746% id in 386 aa, and to Bacillus halodurans Fe-S cluster formation protein BH1260 TR:Q9KDF3 (EMBL:AP001511) (386 aa) fasta scores: E(): 2.1e-62, 46.719% id in 381 aa
YP_041092.1	Similar to Bacillus subtilis hypothetical protein YddN SW:YDDN_BACSU (P96651) (339 aa) fasta scores: E(): 7.4e-57, 45.593% id in 329 aa, and to Caulobacter crescentus hypothetical protein CC1957 cc1957 TR:Q9A6W9 (EMBL:AE005869) (337 aa) fasta scores: E(): 1.5e-50, 45.886% id in 316 aa
YP_041094.1	Similar to Streptococcus pyogenes hypothetical protein SPY1261 TR:Q99ZE6 (EMBL:AE006565) (66 aa) fasta scores: E(): 0.0004, 46.296% id in 54 aa, and to Lactococcus lactis hypothetical protein YhjA TR:Q9CHE9 (EMBL:AE006312) (79 aa) fasta scores: E(): 0.0032, 47.059% id in 51 aa. Similar to SAR0874, 79.661% identity (79.661% ungapped) in 59 aa overlap
YP_041095.1	Similar to Bacillus halodurans hypothetical protein BH1259 TR:Q9KDF4 (EMBL:AP001511) (139 aa) fasta scores: E(): 3.3e-31, 65.714% id in 140 aa. N-terminus is similar to the N-terminal region of Bacillus subtilis hypothetical protein YrzC SW:YRZC_BACSU (O34527) (111 aa) fasta scores: E(): 2.8e-19, 68.132% id in 91 aa
YP_041096.1	Similar to Bacillus subtilis hypothetical protein YrvN TR:O34528 (EMBL:Z99117) (421 aa) fasta scores: E(): 1.3e-98, 69.286% id in 420 aa, and to Bacillus halodurans hypothetical protein BH1257 TR:Q9KDF6 (EMBL:AP001511) (428 aa) fasta scores: E(): 3e-95, 66.507% id in 418 aa
YP_041097.1	Similar to Bacillus halodurans hypothetical protein BH1255 TR:Q9KDF8 (EMBL:AP001511) (259 aa) fasta scores: E(): 1.8e-57, 64.173% id in 254 aa. C-terminal region is similar to Bacillus subtilis hypothetical protein YrvM TR:O32037 (EMBL:Z99118) (161 aa) fasta scores: E(): 1.4e-38, 70.440% id in 159 aa
YP_041098.1	Doubtful CDS. No database matches
YP_041099.1	catalyzes a two-step reaction, first charging an aspartate molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; contains discriminating and non-discriminating subtypes
YP_041100.1	catalyzes a two-step reaction, first charging a histidine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; class II aminoacyl-tRNA synthetase; forms homodimers; some organisms have a paralogous gene, hisZ, that is similar to hisS and produces a protein that performs the first step in histidine biosynthesis along with HisG
YP_041101.1	hydrolyzes D-tyrosyl-tRNA(Tyr) into D-tyrosine and free tRNA(Tyr); possible defense mechanism against a harmful effect of D-tyrosine
YP_041102.1	Similar to Bacillus subtilis GTP pyrophosphokinase RelA SW:RELA_BACSU (O54408) (734 aa) fasta scores: E(): 4.2e-176, 61.111% id in 738 aa. Previously sequenced as Staphylococcus aureus GTP pyrophosphokinase RelA SW:RELA_STAAU (O32419) (736 aa) fasta scores: E(): 0, 99.864% id in 736 aa. CDS is extended at the N-terminus in comparison to the B. subtilis protein and other orthologoues. Probable alternative translational start site
YP_041103.1	catalyzes a salvage reaction resulting in the formation of AMP which is metabolically less costly than a de novo synthesis
YP_041104.1	N-terminal region is similar to Escherichia coli single-stranded-DNA-specific exonuclease RecJ SW:RECJ_ECOLI (P21893) (577 aa) fasta scores: E(): 1.4e-18, 31.930% id in 570 aa. Full length CDS is similar to Bacillus halodurans single-strand DNA-specific exonuclease bh1240 TR:Q9KDH3 (EMBL:AP001511) (784 aa) fasta scores: E(): 1.8e-86, 38.831% id in 770 aa
YP_041105.1	part of the preprotein secretory system; forms a complex with protein YajC; SecDFyajC stimulates the proton motive force-driven protein translocation, seems to modulate the cycling of SecA by stabilizing its membrane-inserted state and appears to be required for the release of mature proteins from the extracytoplasmic side of the membrane; in some organisms, such as Bacillus subtilis, SecD is fused to SecF
YP_041106.1	Similar to Bacillus halodurans hypothetical protein BH1229 SW:YC29_BACHD (Q9KDI4) (88 aa) fasta scores: E(): 5.4e-13, 53.165% id in 79 aa, and to Bacillus subtilis hypothetical protein YrbF SW:YRBF_BACSU (O32052) (89 aa) fasta scores: E(): 1e-10, 47.436% id in 78 aa
YP_041107.1	Exchanges the guanine residue with 7-aminomethyl-7-deazaguanine in tRNAs with GU(N) anticodons (tRNA-Asp, -Asn, -His and -Tyr)
YP_041108.1	Synthesizes oQ from preQ1 in a single S-adenosylmethionine-requiring step
YP_041109.1	promotes strand exchange during homologous recombination; RuvAB complex promotes branch migration; RuvABC complex scans the DNA during branch migration and resolves Holliday junctions at consensus sequences; forms hexameric rings around opposite DNA arms; requires ATP for branch migration and orientation of RuvAB complex determines direction of migration
YP_041110.1	plays an essential role in ATP-dependent branch migration of the Holliday junction
YP_041111.1	Similar to Bacillus subtilis possible chorismate mutase PheB SW:PHEB_BACSU (P21204) (147 aa) fasta scores: E(): 4e-17, 41.007% id in 139 aa, and to Bacillus halodurans chorismate mutase BH1214 TR:Q9KDJ9 (EMBL:AP001511) (147 aa) fasta scores: E(): 2.2e-14, 39.007% id in 141 aa
YP_041112.1	essential GTPase; exhibits high exchange rate for GTP/GDP; associates with 50S ribosomal subunit; involved in regulation of chromosomal replication
YP_041113.1	involved in the peptidyltransferase reaction during translation
YP_041114.1	Similar to Bacillus subtilis hypothetical protein YsxB SW:YSXB_BACSU (P26942) (112 aa) fasta scores: E(): 3.4e-11, 38.318% id in 107 aa, and to Bacillus halodurans hypothetical protein BH3010 TR:Q9K8J6 (EMBL:AP001517) (113 aa) fasta scores: E(): 1.6e-10, 40.000% id in 110 aa
YP_041115.1	Similar to Escherichia coli 50S ribosomal protein L21 RplU SW:RL21_ECOLI (P02422) (103 aa) fasta scores: E(): 6.6e-14, 41.748% id in 103 aa. Previously sequenced as Staphylococcus aureus  50S ribosomal protein L21 TR:AAK52740 (EMBL:AF349567) (102 aa) fasta scores: E(): 2e-35, 99.020% id in 102 aa
YP_041116.1	Similar to Lactococcus lactis cell shape determining protein MreD TR:Q9CDJ0 (EMBL:AE006452) (175 aa) fasta scores: E(): 1.5e-06, 31.977% id in 172 aa, and to Bacillus subtilis rod shape-determining protein MreD SW:MRED_BACSU (Q01467) (172 aa) fasta scores: E(): 2.2e-05, 25.989% id in 177 aa
YP_041117.1	in some organisms this protein is a transmembrane protein while in others it is periplasmic; involved in some organisms with other components of the MreBCD complex and with penicillin binding proteins in the periplasm or cell wall
YP_041118.1	Doubtful CDS. No database matches
YP_041120.1	Doubtful CDS. No significant database matches
YP_041122.1	Highly similar to Staphylococcus aureus transposon Tn554 hypothetical protein TR:Q48363 (EMBL:X03216) (220 aa) fasta scores: E(): 2.8e-82, 99.545% id in 220 aa
YP_041123.1	Identical to Staphylococcus aureus macrolide-lincosamide-streptogramin B resistance protein, rRNA adenine N-6-methyltransferase ErmA SW:ERM1_STAAU (P06699) (243 aa) fasta scores: E(): 1.7e-90, 100.000% id in 243 aa. Similar to Lactobacillus reuteri rRNA adenine N-6-methyltransferase ErmGT SW:ERMG_LACRE (Q00014) (244 aa) fasta scores: E(): 2.6e-54, 61.728% id in 243 aa
YP_041124.1	Identical to Staphylococcus aureus streptomycin 3''-adenylyltransferase Spc SW:S3AD_STAAU (P04827) (260 aa) fasta scores: E(): 3.5e-100, 100.000% id in 260 aa. Similar to Streptomyces coelicolor  nucleotidyltransferase SCD19.10 TR:Q9F2Z2 (EMBL:AL392149) (257 aa) fasta scores: E(): 4.4e-34, 44.493% id in 227 aa
YP_041125.1	Identical to Staphylococcus aureus transposase C from transposon Tn554 TnpC SW:TRAC_STAAU (P06698) (125 aa) fasta scores: E(): 1.1e-36, 100.000% id in 125 aa. Similar to Staphylococcus aureus transposase C from transposon psiTn554 TnpC SW:TNPF_STAAU (P37376) (125 aa) fasta scores: E(): 8e-34, 93.600% id in 125 aa
YP_041126.1	Identical to Staphylococcus aureus transposase B from transposon Tn554 TnpB SW:TNPB_STAAU (P06697) (630 aa) fasta scores: E(): 0, 100.000% id in 630 aa. Similar to Staphylococcus aureus transposase B from transposon psiTn554 TnpB SW:TNPE_STAAU (P37375) (630 aa) fasta scores: E(): 0, 96.032% id in 630 aa
YP_041127.1	Highly similar to Staphylococcus aureus transposase A from transposon Tn554 TnpA SW:TNPA_STAAU (P06696) (361 aa) fasta scores: E(): 6.1e-137, 99.723% id in 361 aa
YP_041128.1	Similar to Vibrio cholerae leader peptidase TcpJ TR:AAK20796 (EMBL:AF325734) (253 aa) fasta scores: E(): 4.1e-07, 27.311% id in 238 aa, and to Thermotoga maritima type IV prepilin peptidase TM1696 TR:Q9X222 (EMBL:AE001810) (240 aa) fasta scores: E(): 3.2e-08, 27.727% id in 220 aa
YP_041129.1	Similar to Lactobacillus casei folylpolyglutamate synthase Fgs SW:FOLC_LACCA (P15925) (428 aa) fasta scores: E(): 4.5e-36, 32.634% id in 429 aa, and to Bacillus subtilis folylpolyglutamate synthase FolC SW:FOLC_BACSU (Q05865) (430 aa) fasta scores: E(): 3.3e-59, 43.091% id in 427 aa
YP_041130.1	valine--tRNA ligase; ValRS; converts valine ATP and tRNA(Val) to AMP PPi and valyl-tRNA(Val); class-I aminoacyl-tRNA synthetase type 1 subfamily; has a posttransfer editing process to hydrolyze mischarged Thr-tRNA(Val) which is done by the editing domain
YP_041131.1	Similar to Escherichia coli DNA-3-methyladenine glycosylase I Tag SW:3MG1_ECOLI (P05100) (187 aa) fasta scores: E(): 9.8e-30, 43.169% id in 183 aa, and to Haemophilus influenzae DNA-3-methyladenine glycosylase Tag SW:3MGA_HAEIN (P44321) (185 aa) fasta scores: E(): 1.6e-31, 46.369% id in 179 aa
YP_041132.1	Similar to Escherichia coli, regulator of aidB, transport protein AbrB SW:ABRB_ECOLI (P75747) (348 aa) fasta scores: E(): 3.2e-15, 24.571% id in 350 aa, and to Bacillus subtilis hypothetical protein YhjN TR:O07568 (EMBL:Y14081) (384 aa) fasta scores: E(): 3.5e-08, 22.977% id in 309 aa
YP_041134.1	Converts (S)-4-amino-5-oxopentanoate to 5-aminolevulinate during the porphyrin biosynthesis pathway
YP_041135.1	catalyzes the formation of porphobilinogen from 5-aminolevulinate
YP_041136.1	Previously sequenced as Staphylococcus aureus uroporphyrinogen III synthase HemD TR:O34091 (EMBL:U89396) (222 aa) fasta scores: E(): 2.7e-79, 98.649% id in 222 aa. Similar to Bacillus halodurans uroporphyrinogen III cosynthase BH3045 TR:Q9K8G1 (EMBL:AP001517) (253 aa) fasta scores: E(): 2.6e-08, 27.731% id in 238 aa
YP_041137.1	transformation of porphobilinogen to hydroxymethylbilane in porphyrin biosynthesis
YP_041138.1	Similar to Bacillus subtilis protein membrane-bound protein HemX SW:HEMX_BACSU (P16645) (276 aa) fasta scores: E(): 4.3e-27, 33.585% id in 265 aa, and to Bacillus stearothermophilus hypothetical protein HemX TR:O69100 (EMBL:AF064058) (273 aa) fasta scores: E(): 5.2e-26, 33.588% id in 262 aa
YP_041139.1	catalyzes the formation of glutamate-1-semialdehyde from glutamyl-tRNA(Glu) and NADPH; the second step of the pathway is catalyzed by glutamate-1-semialdehyde aminomutase which results in the formation of 5-aminolevulinic acid; functions in porphyrin (tetrapyrroles) biosynthesis; the crystal structure showed a C-terminal dimerization domain that appears to be absent in Chlamydial proteins
YP_041140.1	binds guanine nucleotides; in Escherichia coli depletion results in defective cell division and filamentation; in Bacillus subtilis this gene is essential
YP_041141.1	binds and unfolds substrates as part of the ClpXP protease
YP_041142.1	Tig; RopA; peptidyl-prolyl cis/trans isomerase; promotes folding of newly synthesized proteins; binds ribosomal 50S subunit; forms a homodimer
YP_041144.1	Similar to Bacillus subtilis hypothetical protein YmaB SW:YMAB_BACSU (P50619) (206 aa) fasta scores: E(): 1.8e-28, 42.23% id in 206 aa, and to Thermotoga maritima conserved hypothetical protein TM1382 TR:Q9X1A2 (EMBL:AE001791) (199 aa) fasta scores: E(): 5.5e-10, 30.05% id in 193 aa
YP_041145.1	binds directly to 23S ribosomal RNA prior to in vitro assembly of the 50S ribosomal subunit
YP_041146.1	Similar to Bacillus stearothermophilus 50S ribosomal protein L35 RpmI SW:RL35_BACST (P13069) (65 aa) fasta scores: E(): 1.8e-15, 72.13% id in 61 aa, and to Bacillus subtilis 50S ribosomal protein L35 RpmI SW:RL35_BACSU (P55874) (65 aa) fasta scores: E(): 9.1e-16, 70.76% id in 65 aa
YP_041147.1	IF-3 has several functions that are required and promote translation initiation including; preventing association of 70S by binding to 30S; monitoring codon-anticodon interactions by promoting disassociation of fMet-tRNA(fMet) from initiation complexes formed on leaderless mRNAs or incorrectly bound noninitiatior tRNAs and complexes with noncanonical start sites; stimulates codon-anticodon interactions at P-site; involved in moving mRNA to the P-site; and in recycling subunits
YP_041148.1	Similar to Escherichia coli lysine-specific permease LysP SW:LYSP_ECOLI (P25737) (488 aa) fasta scores: E(): 2.4e-89, 51.77% id in 479 aa, and to Lactococcus lactis lysine specific permease LysP TR:Q9CDM6 (EMBL:AE006448) (506 aa) fasta scores: E(): 9.8e-99, 55.19% id in 491 aa
YP_041149.1	catalyzes a two-step reaction, first charging a threonine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; catalyzes the formation of threonyl-tRNA(Thr) from threonine and tRNA(Thr)
YP_041150.1	Primosomal protein that may act to load helicase DnaC during DNA replication
YP_041151.1	Similar to Bacillus subtilis replication initiation and membrane attachment protein DnaB SW:DNAB_BACSU (P07908) (472 aa) fasta scores: E(): 1.7e-18, 29% id in 462 aa, and to Bacillus halodurans chromosome replication initiation/membrane attachment protein BH3145 TR:Q9K862 (EMBL:AP001517) (485 aa) fasta scores: E(): 9e-08, 26.81% id in 481 aa
YP_041152.1	Similar to Bacillus halodurans hypothetical protein BH3146 TR:Q9K861 (EMBL:AP001517) (153 aa) fasta scores: E(): 5.3e-30, 54.9% id in 153 aa, and to Streptococcus pyogenes hypothetical protein SPY0338 TR:Q9A1D3 (EMBL:AE006498) (164 aa) fasta scores: E(): 6.4e-30, 57.14% id in 147 aa
YP_041153.1	Similar to Bacillus stearothermophilus glyceraldehyde 3-phosphate dehydrogenase Gap SW:G3P_BACST (P00362) (334 aa) fasta scores: E(): 1.6e-63, 54.21% id in 332 aa, and to Bacillus subtilis glyceraldehyde 3-phosphate dehydrogenase 2 GapB SW:G3P2_BACSU (O34425) (340 aa) fasta scores: E(): 3e-77, 62.17% id in 341 aa
YP_041154.1	catalyzes the phosphorylation of the 3'-hydroxyl group of dephosphocoenzyme A to form coenzyme A; involved in coenzyme A biosynthesis
YP_041155.1	Similar to Escherichia coli formamidopyrimidine-DNA glycosylase MutM SW:FPG_ECOLI (P05523) (269 aa) fasta scores: E(): 7.9e-21, 34.81% id in 293 aa, and to Caulobacter crescentus formamidopyrimidine-DNA glycosylase CC3707 TR:Q9A259 (EMBL:AE006028) (315 aa) fasta scores: E(): 9.2e-23, 31.02% id in 303 aa
YP_041156.1	Similar to Bacillus stearothermophilus DNA polymerase I PolA SW:DPO1_BACST (P52026) (876 aa) fasta scores: E(): 5.7e-169, 55.79% id in 880 aa, and to Bacillus subtilis DNA polymerase I PolA SW:DPO1_BACSU (O34996) (880 aa) fasta scores: E(): 2.2e-179, 59.68% id in 878 aa
YP_041158.1	Two-component regulatory system family, sensor kinase. Similar to Bacillus subtilis alkaline phosphatase synthesis sensor protein PhoR SW:PHOR_BACSU (P23545) (579 aa) fasta scores: E(): 6.3e-53, 35.06% id in 579 aa, and to Bacillus halodurans two-component sensor histidine kinase involved in phosphate regulation BH3156 TR:Q9K851 (EMBL:AP001517) (589 aa) fasta scores: E(): 6.4e-53, 34.63% id in 589 aa
YP_041159.1	Two-component regulatory system family, response regulator protein. Similar to Bacillus subtilis alkaline phosphatase synthesis transcriptional regulatory protein PhoP SW:PHOP_BACSU (P13792) (240 aa) fasta scores: E(): 1.9e-59, 67.51% id in 237 aa, and to Bacillus halodurans two-component response regulator involved in phosphate regulation BH3157 TR:Q9K850 (EMBL:AP001517) (239 aa) fasta scores: E(): 5.8e-56, 63.98% id in 236 aa. Similar to SAR0018, 52.155% identity (52.838% ungapped) in 232 aa overlap
YP_041160.1	Converts isocitrate to alpha ketoglutarate
YP_041161.1	catalyzes the formation of citrate from acetyl-CoA and oxaloacetate
YP_041162.1	Similar to Escherichia coli D-serine/D-alanine/glycine transporter CycA SW:CYCA_ECOLI (P39312) (470 aa) fasta scores: E(): 9.9e-92, 52.22% id in 450 aa, and to Bacillus subtilis hypothetical transport protein YdgF SW:YDGF_BACSU (P96704) (458 aa) fasta scores: E(): 1.3e-86, 50.22% id in 440 aa. Smilar to SAR2528, 65.410% identity (65.556% ungapped) in 451 aa overlap
YP_041163.1	Similar to Bacillus licheniformis pyruvate kinase Pyk SW:KPYK_BACLI (P51181) (585 aa) fasta scores: E(): 2.9e-125, 62.28% id in 586 aa, and to Escherichia coli, and pyruvate kinase I PykF SW:KPY1_ECOLI (P14178) (470 aa) fasta scores: E(): 9.9e-72, 48.53% id in 478 aa
YP_041164.1	catalyzes the formation of D-fructose 1,6-bisphosphate from D-fructose 6-phosphate in glycolysis
YP_041165.1	catalyzes the carboxylation of acetyl-CoA to malonyl-CoA; forms a tetramer composed of two alpha (AccA) and two beta (AccD) subunits; one of the two catalytic subunits that can form the acetyl CoA carboxylase enzyme together with a carrier protein
YP_041166.1	catalyzes the carboxylation of acetyl-CoA to malonyl-CoA; forms a tetramer of AccA2D2 subunits
YP_041167.1	Similar to the C-terminal region of Bacillus stearothermophilus NAD-dependent malic enzyme SW:MAOX_BACST (P16468) (478 aa) fasta scores: E(): 2.8e-76, 56.64% id in 399 aa, and to the full length Bacillus subtilis hypothetical protein YtsJ TR:O34962 (EMBL:AF008220) (410 aa) fasta scores: E(): 8.1e-111, 74.38% id in 406 aa
YP_041168.1	Previously sequenced as Staphylococcus aureus DNA polymerase III alpha subunit DnaE SW:DP3A_STAAU (Q9F1K0) (1065 aa) fasta scores: E(): 0, 96.71% id in 1065 aa. Similar to Bacillus subtilis DNA polymerase III alpha subunit DnaE SW:DP3A_BACSU (O34623) (1115 aa) fasta scores: E(): 2.1e-131, 40.62% id in 1083 aa
YP_041169.1	Similar to Bacillus subtilis hypothetical protein YtqI TR:O34600 (EMBL:AF008220) (313 aa) fasta scores: E(): 2.7e-56, 49.5% id in 305 aa, and to Bacillus halodurans hypothetical protein BH3173 TR:Q9K834 (EMBL:AP001518) (314 aa) fasta scores: E(): 1.7e-52, 45.57% id in 305 aa
YP_041170.1	Similar to Bacillus halodurans BH3175 TR:Q9K832 (EMBL:AP001518) (435 aa) fasta scores: E(): 1.5e-76, 47.11% id in 433 aa, and to Bacillus subtilis YtoI TR:O34921 (EMBL:AF008220) (439 aa) fasta scores: E(): 5.7e-72, 45.74% id in 435 aa
YP_041171.1	Similar to Bacillus halodurans hypothetical protein BH0415 TR:Q9KFR2 (EMBL:AP001508) (137 aa) fasta scores: E(): 6.7e-08, 32.35% id in 136 aa, and to Sulfolobus solfataricus hypothetical protein SSO2778 TR:AAK42888 (EMBL:AE006871) (139 aa) fasta scores: E(): 0.0003, 26.42% id in 140 aa
YP_041172.1	catalyzes the opening and hydrolysis of the beta-lactam ring of beta-lactam antibiotics such as penicillins and cephalosporins
YP_041173.1	Similar to Lactobacillus delbrueckii Xaa-Pro dipeptidase PepQ SW:PEPQ_LACDE (Q9S6S1) (368 aa) fasta scores: E(): 7.1e-40, 43.13% id in 357 aa, and to Bacillus halodurans prolidase BH3179 TR:Q9K828 (EMBL:AP001518) (364 aa) fasta scores: E(): 3.5e-58, 43.01% id in 358 aa
YP_041174.1	Similar to Bacillus subtilis alanine dehydrogenase Ald SW:DHA_BACSU (Q08352) (378 aa) fasta scores: E(): 4.4e-83, 66.3% id in 371 aa, and to Enterobacter aerogenes alanine dehydrogenase AlaDH TR:Q9WX54 (EMBL:AB013821) (377 aa) fasta scores: E(): 1.1e-84, 65.76% id in 371 aa
YP_041175.1	Similar to Lactococcus lactis hypothetical protein YtaA TR:Q9CEK4 (EMBL:AE006413) (145 aa) fasta scores: E(): 9.2e-22, 48.57% id in 140 aa, and to Bacillus halodurans hypothetical protein BH3184 TR:Q9K823 (EMBL:AP001518) (147 aa) fasta scores: E(): 3.6e-21, 48.95% id in 143 aa
YP_041176.1	AckA utilizes acetate and can acetylate CheY which increases signal strength during flagellar rotation; utilizes magnesium and ATP; also involved in conversion of acetate to aceyl-CoA
YP_041177.1	Similar to the C-terminal region of Escherichia coli type I restriction enzyme EcoEI M protein HsdM SW:T1ME_ECOLI (Q47282) (490 aa) fasta scores: E(): 0.002, 23.94% id in 309 aa, and to the full length Bacillus subtilis hypothetical protein YtxK SW:YTXK_BACSU (P37876) (329 aa) fasta scores: E(): 3.4e-33, 35.09% id in 322 aa
YP_041178.1	antioxidant activity; thioredoxin-dependent thiol peroxidase; forms homodimers in solution; shows substrate specificity to alkyl hydroperoxides; periplasmic protein
YP_041179.1	Similar to Bacillus halodurans hypothetical protein BH2122 TR:Q9KB14 (EMBL:AP001514) (259 aa) fasta scores: E(): 1.4e-41, 49.21% id in 256 aa, and to Pasteurella multocida hypothetical protein PM0361 TR:Q9CNR5 (EMBL:AE006072) (254 aa) fasta scores: E(): 1.1e-26, 33.98% id in 256 aa
YP_041180.1	Required for the synthesis of the thiazole moiety
YP_041181.1	Similar to Escherichia coli cysteine desulfurase IscS SW:ISCS_ECOLI (P39171) (404 aa) fasta scores: E(): 3.5e-36, 38.14% id in 367 aa, and to Bacillus halodurans L-cysteine sulfurtransferase BZ3204 TR:Q9K803 (EMBL:AP001518) (380 aa) fasta scores: E(): 2.8e-46, 37.69% id in 382 aa
YP_041182.1	acts to negatively regulates ftsZ ring formation by modulating the frequency and position of the ftsZ ring formation
YP_041183.1	Similar to Bacillus halodurans hypothetical protein BH3208 TR:Q9K7Z9 (EMBL:AP001518) (160 aa) fasta scores: E(): 1.6e-31, 56.55% id in 145 aa, and to Xylella fastidiosa hypothetical protein XF1230 TR:Q9PDZ8 (EMBL:AE003957) (162 aa) fasta scores: E(): 2e-28, 48.36% id in 153 aa
YP_041184.1	primary rRNA binding protein; nucleates 30S assembly; involved in translational accuracy with proteins S5 and S12; interacts with protein S5; involved in autogeneously regulating ribosomal proteins by binding to pseudoknot structures in the polycistronic mRNA; interacts with transcription complex and functions similar to protein NusA in antitermination
YP_041185.1	Similar to Bacillus subtilis glycerophosphoryl diester phosphodiesterase GlpQ SW:GLPQ_BACSU (P37965) (293 aa) fasta scores: E(): 1.1e-14, 33.59% id in 256 aa, and to Bacillus subtilis hypothetical protein YhdW TR:O07592 (EMBL:Y14082) (243 aa) fasta scores: E(): 3.7e-25, 35.41% id in 240 aa
YP_041186.1	Similar to Xanthomonas campestris organic hydroperoxide resistance protein Ohr SW:OHR_XANCH (O68390) (142 aa) fasta scores: E(): 0.00011, 27.85% id in 140 aa, and to Bacillus subtilis hypothetical protein YmaD TR:O31790 (EMBL:Z99113) (150 aa) fasta scores: E(): 2.6e-17, 38.29% id in 141 aa
YP_041187.1	Similar to Synechococcus sp soluble hydrogenase, small subunit SW:DHSS_SYNP1 (P14776) (384 aa) fasta scores: E(): 2.2e-50, 39.68% id in 383 aa, and to Anabaena cylindrica soluble hydrogenase subunit SW:DHSS_ANACY (P16421) (383 aa) fasta scores: E(): 1.6e-49, 38.25% id in 379 aa
YP_041188.1	catalyzes the formation of 3-phosphonooxypyruvate from 3-phospho-D-glycerate in serine biosynthesis; can also reduce alpha ketoglutarate to form 2-hydroxyglutarate
YP_041190.1	Similar to N-terminal region of Escherichia coli PTS system, N-acetylglucosamine-specific IIABC component NagE SW:PTAA_ECOLI (P09323) (648 aa) fasta scores: E(): 6.8e-53, 41.58% id in 493 aa, and to full length Pasteurella multocida hypothetical protein PM0876 TR:Q9CMF3 (EMBL:AE006126) (485 aa) fasta scores: E(): 2.1e-77, 48.58% id in 496 aa
YP_041191.1	Similar to Bacillus subtilis hypothetical protein YhdO TR:O07584 (EMBL:Y14082) (199 aa) fasta scores: E(): 3.4e-31, 47.03% id in 202 aa, and to Lactococcus lactis hypothetical protein YbbE TR:Q9CJ88 (EMBL:AE006249) (213 aa) fasta scores: E(): 5.1e-18, 37.81% id in 201 aa
YP_041192.1	Similar to Lactobacillus helveticus trypsin-like serine protease HtrA TR:Q9Z4H7 (EMBL:AJ005672) (412 aa) fasta scores: E(): 1.7e-40, 41.88% id in 413 aa, and to Bacillus subtilis hypothetical protein YkdA TR:O34358 (EMBL:AJ002571) (449 aa) fasta scores: E(): 6.2e-39, 39.37% id in 419 aa
YP_041193.1	Similar to Bacillus stearothermophilus tyrosyl-tRNA synthetase TyrS SW:SYY_BACST (P00952) (419 aa) fasta scores: E(): 4.8e-101, 61.05% id in 416 aa, and to Bacillus caldotenax tyrosyl-tRNA synthetase TyrS SW:SYY_BACCA (P04077) (419 aa) fasta scores: E(): 2.6e-100, 60.81% id in 416 aa
YP_041194.1	Possible gene remnant. Similar to the N-terminal regions of Bacillus subtilis penicillin-binding protein 1A/1B PonA SW:PBPA_BACSU (P39793) (914 aa) fasta scores: E(): 3.6e-15, 32.23% id in 273 aa, and Streptococcus pyogenes  penicillin-binding protein 1B SPY0097 TR:Q9A1U2 (EMBL:AE006480) (770 aa) fasta scores: E(): 4.5e-32, 37.73% id in 265 aa. Full length CDS is similar to Staphylococcus epidermidis SgtA protein SE1407 SWALL:Q8CNW0 (EMBL:AE016748) (301 aa) fasta scores: E(): 2.1e-70, 63.63% id in 297 aa
YP_041195.1	Doubtful CDS
YP_041196.1	catalyzes the formation of 10-formyltetrahydrofolate from formate and tetrahydrofolate
YP_041197.1	Acs; catalyzes the conversion of acetate and CoA to acetyl-CoA
YP_041198.1	Similar to Bacillus subtilis acetoin utilization protein AcuA SW:ACUA_BACSU (P39065) (210 aa) fasta scores: E(): 1.4e-43, 51.9% id in 210 aa, and to Bacillus halodurans acetoin dehydrogenase BH3235 TR:Q9K7X3 (EMBL:AP001518) (210 aa) fasta scores: E(): 1.2e-44, 52.85% id in 210 aa
YP_041199.1	Similar to Bacillus subtilis acetoin utilization protein AcuC SW:ACUC_BACSU (P39067) (387 aa) fasta scores: E(): 5.6e-74, 48.38% id in 372 aa, and to Staphylococcus xylosus acetoin utilization protein AcuC SW:ACUC_STAXY (Q56195) (385 aa) fasta scores: E(): 2.2e-113, 68.05% id in 385 aa
YP_041200.1	Similar to Bacillus subtilis catabolite control protein A CcpA SW:CCPA_BACSU (P25144) (334 aa) fasta scores: E(): 1.7e-56, 53.93% id in 330 aa, and to Staphylococcus xylosus probable catabolite control protein A CcpA SW:CCPA_STAXY (Q56194) (329 aa) fasta scores: E(): 4e-92, 80.85% id in 329 aa
YP_041201.1	catalyzes the formation of 3-deoxy-D-aribino-hept-2-ulosonate 7-phosphate from phosphoenolpyruvate and D-erythrose 4-phosphate and the formation of prephenate from chorismate
YP_041202.1	No significant database matches. CDS contains an imperfect 54 amino repeat region, residues 99 to 206
YP_041203.1	Similar to Bacillus subtilis hypothetical protein YtxG SW:YTXG_BACSU (P40779) (143 aa) fasta scores: E(): 2.7e-17, 48.148% id in 135 aa, and to Bacillus halodurans general stress protein BH3245 TR:Q9K7W3 (EMBL:AP001518) (148 aa) fasta scores: E(): 7.3e-15, 42.222% id in 135 aa
YP_041204.1	Catalyzes the formation of UDP-N-acetylmuramoyl-L-alanine from UDP-N-acetylmuramate and L-alanine in peptidoglycan synthesis
YP_041205.1	C-terminus is similar to the C-terminal regions of Bacillus subtilis stage III sporulation protein E SpoIIIE SW:SP3E_BACSU (P21458) (787 aa) fasta scores: E(): 8.8e-56, 47.784% id in 519 aa, and Bacillus halodurans DNA translocase BH3250 TR:Q9K7V9 (EMBL:AP001518) (960 aa) fasta scores: E(): 5.4e-80, 42.638% id in 849 aa
YP_041206.1	C-terminus is similar to the N-terminal region of Bacillus subtilis phenylalanyl-tRNA synthetase beta chain hypothetical protein PheT SW:SYFB_BACSU (P17922) (804 aa) fasta scores: E(): 4.8e-12, 41.985% id in 131 aa, and to full length Bacillus subtilis YtpR TR:O34943 (EMBL:AF008220) (201 aa) fasta scores: E(): 1.3e-33, 57.346% id in 211 aa. CDS contain additional amino acids, residues 51 to 64, compared to orthologues; the effect on the function of protein is not known
YP_041207.1	Similar to Bacillus subtilis hypothetical protein YtpQ TR:O34496 (EMBL:AF008220) (269 aa) fasta scores: E(): 3e-50, 52.239% id in 268 aa, and to Bacillus halodurans hypothetical protein BH3252 TR:Q9K7V7 (EMBL:AP001518) (265 aa) fasta scores: E(): 3.8e-41, 44.528% id in 265 aa
YP_041208.1	Similar to Schizosaccharomyces pombe thioredoxin II TRX2 SW:TRX2_SCHPO (O14463) (102 aa) fasta scores: E(): 2.1e-07, 31.579% id in 95 aa, and to Bacillus subtilis thioredoxin YtpP TR:O34357 (EMBL:AF008220) (107 aa) fasta scores: E(): 1.3e-18, 51.000% id in 100 aa
YP_041209.1	Similar to Lactococcus lactis glutamyl-aminopeptidase PepA SW:PEPA_LACLC (Q48677) (355 aa) fasta scores: E(): 2.2e-51, 41.690% id in 355 aa, and to Bacillus subtilis hypothetical protein YtoP TR:O34924 (EMBL:AF008220) (357 aa) fasta scores: E(): 8e-61, 44.957% id in 347 aa
YP_041210.1	Similar to Bacillus subtilis hypothetical protein YtzB TR:O32065 (EMBL:Z99119) (105 aa) fasta scores: E(): 0.032, 25.243% id in 103 aa, and to Bacillus halodurans hypothetical protein BH3258 TR:Q9K7V1 (EMBL:AP001518) (102 aa) fasta scores: E(): 0.078, 25.532% id in 94 aa
YP_041211.1	Similar to Bacillus halodurans hypothetical protein BH3260 TR:Q9K7U9 (EMBL:AP001518) (284 aa) fasta scores: E(): 1.3e-56, 51.481% id in 270 aa, and to Bacillus subtilis hypothetical protein YtnP TR:O34760 (EMBL:AF008220) (256 aa) fasta scores: E(): 7.7e-50, 51.181% id in 254 aa
YP_041212.1	Highly similar to Staphylococcus aureus potential ATP-binding protein SW:ATBP_STAAU (P18179) (271 aa) fasta scores: E(): 5.9e-103, 99.631% id in 271 aa
YP_041213.1	Identical to Staphylococcus aureus transposase for transposon Tn552 SW:TRA3_STAAU (P18416) (480 aa) fasta scores: E(): 1.2e-189, 100.000% id in 480 aa. Similar to Rhizobium loti transposase MLR6273 TR:BAB52595 (EMBL:AP003008) (535 aa) fasta scores: E(): 3.6e-12, 24.486% id in 486 aa
YP_041214.1	Similar to Staphylococcus aureus transposon Tn552 resolvase TnpR SW:BINL_STAAU (P18358) (197 aa) fasta scores: E(): 2.1e-72, 98.477% id in 197 aa, and to Lactococcus lactis resolvase TnpR TR:Q9R778 (EMBL:X92946) (183 aa) fasta scores: E(): 2.5e-55, 79.781% id in 183 aa
YP_041215.1	Identical to Staphylococcus aureus penicillinase repressor BlaI SW:BLAI_STAAU (P18415) (126 aa) fasta scores: E(): 1.6e-40, 100.000% id in 126 aa. Similar to Bacillus licheniformis penicillinase repressor blaI SW:BLAI_BACLI (P06555) (128 aa) fasta scores: E(): 1.1e-11, 41.026% id in 117 aa
YP_041216.1	Highly similar to Staphylococcus aureus beta-lactamase regulatory protein BlaR1 SW:BLAR_STAAU (P18357) (585 aa) fasta scores: E(): 0, 99.145% id in 585 aa. Similar to Bacillus licheniformis regulatory protein BlaR1 SW:BLAR_BACLI (P12287) (601 aa) fasta scores: E(): 4.7e-45, 27.703% id in 592 aa
YP_041217.1	Similar to Staphylococcus aureus beta-lactamase precursor BlaZ SW:BLAC_STAAU (P00807) (281 aa) fasta scores: E(): 2.6e-94, 99.644% id in 281 aa, and to Bacillus licheniformis beta-lactamase precursor PenP SW:BLAC_BACLI (P00808) (307 aa) fasta scores: E(): 8.9e-36, 40.956% id in 293 aa
YP_041218.1	No significant database matches. Doubtful CDS
YP_041219.1	tRNA (guanine-N(7)-)-methyltransferase; catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA by transferring the methyl residue from S-adenosyl-L-methionine
YP_041220.1	Similar to Bacillus halodurans hypothetical protein BH3263 TR:Q9K7U6 (EMBL:AP001518) (261 aa) fasta scores: E(): 2e-50, 47.308% id in 260 aa, and to Bacillus subtilis hypothetical protein YtmP TR:O34935 (EMBL:AF008220) (269 aa) fasta scores: E(): 9.4e-48, 46.693% id in 257 aa
YP_041221.1	Similar to Listeria monocytogenes D-alanine aminotransferase Dat SW:DAAA_LISMO (O85046) (289 aa) fasta scores: E(): 1.8e-48, 51.986% id in 277 aa, and to Staphylococcus haemolyticus D-alanine aminotransferase Dat SW:DAAA_STAHA (P54694) (282 aa) fasta scores: E(): 2e-88, 80.071% id in 281 aa
YP_041222.1	divalent metal ion-dependent extracellular dipeptidase; able to hydrolyze a broad range of dipeptides but no tri-, tetra-, or larger oligopeptides; differences in the amino acid specificity of the cleavage site varies between species; similar to succinyl-diaminopimelate desuccinylases
YP_041223.1	Similar to the N-terminal region of Neisseria meningitidis hypothetical protein NMA2141 TR:Q9JST6 (EMBL:AL162758) (239 aa) fasta scores: E(): 1.8, 23.387% id in 124 aa. N-terminus is similar to the N-terminal region of Streptococcus pyogenes hypothetical protein SPY0588 TR:Q9A0W2 (EMBL:AE006514) (142 aa) fasta scores: E(): 2, 28.302% id in 106 aa
YP_041224.1	Similar to Escherichia coli ribosomal small subunit pseudouridine synthase A RsuA SW:RSUA_ECOLI (P33918) (231 aa) fasta scores: E(): 2.1e-23, 37.004% id in 227 aa, and to Bacillus halodurans 16S pseudouridylate synthase BH3273 TR:Q9K7T6 (EMBL:AP001518) (238 aa) fasta scores: E(): 6.2e-41, 56.332% id in 229 aa
YP_041225.1	Similar to Bacillus subtilis hypothetical protein YtgP TR:O34674 (EMBL:AF008220) (544 aa) fasta scores: E(): 7.6e-68, 36.015% id in 547 aa, and to Bacillus subtilis stage V sporulation protein B SpoVB SW:SP5B_BACSU (Q00758) (518 aa) fasta scores: E(): 6.4e-05, 21.124% id in 516 aa
YP_041226.1	Similar to Bacillus subtilis hypothetical protein YtfP TR:O30505 (EMBL:AF008220) (405 aa) fasta scores: E(): 3.1e-85, 58.231% id in 407 aa, and to Bacillus halodurans hypothetical protein BH3279 TR:Q9K7T0 (EMBL:AP001518) (422 aa) fasta scores: E(): 1e-83, 54.893% id in 419 aa
YP_041227.1	Similar to Staphylococcus aureus hypothetical protein affecting the methicillin resistance Mrp TR:Q9RL69 (EMBL:Y09927) (2478 aa) fasta scores: E(): 2e-139, 32.553% id in 2178 aa, and to Abiotrophia defectiva extracellular matrix binding protein Emb TR:O85472 (EMBL:AF067776) (2055 aa) fasta scores: E(): 1.8e-62, 25.954% id in 2096 aa. Probable LPXTG-sorted surface protein
YP_041228.1	Similar to Lactococcus lactis hypothetical protein YhjC TR:Q9CHE7 (EMBL:AE006312) (102 aa) fasta scores: E(): 6.9e-08, 38.710% id in 93 aa, and to Neisseria meningitidis hypothetical protein NMB1884 TR:Q9JXU1 (EMBL:AE002538) (107 aa) fasta scores: E(): 1.8e-07, 38.889% id in 90 aa
YP_041229.1	leucine--tRNA ligase; LeuRS; class-I aminoacyl-tRNA synthetase; charges leucine by linking carboxyl group to alpha-phosphate of ATP and then transfers aminoacyl-adenylate to its tRNA; due to the large number of codons that tRNA(Leu) recognizes, the leucyl-tRNA synthetase does not recognize the anticodon loop of the tRNA, but instead recognition is dependent on a conserved discriminator base A37 and a long arm; an editing domain hydrolyzes misformed products; in Methanothermobacter thermautotrophicus this enzyme associates with prolyl-tRNA synthetase
YP_041230.1	Similar to Bacillus subtilis hypothetical protein YttB TR:O34546 (EMBL:AF008220) (397 aa) fasta scores: E(): 5.6e-71, 51.918% id in 391 aa, and to Bacillus halodurans multidrug resistance protein BH3282 TR:Q9K7S7 (EMBL:AP001518) (401 aa) fasta scores: E(): 2.1e-68, 51.459% id in 377 aa
YP_041231.1	Similar to Bacillus subtilis hypothetical protein YtqA TR:O35008 (EMBL:AF008220) (322 aa) fasta scores: E(): 2.5e-94, 75.490% id in 306 aa, and to Bacillus halodurans hypothetical protein BH3284 TR:Q9K7S5 (EMBL:AP001518) (325 aa) fasta scores: E(): 7.4e-90, 69.805% id in 308 aa
YP_041232.1	Similar to Bacillus halodurans hypothetical protein BH3285 TR:Q9K7S4 (EMBL:AP001518) (190 aa) fasta scores: E(): 2.1e-31, 52.381% id in 189 aa, and to Bacillus subtilis hypothetical protein YtqB TR:O34614 (EMBL:AF008220) (194 aa) fasta scores: E(): 1.2e-30, 51.596% id in 188 aa
YP_041233.1	Previously sequenced as Staphylococcus aureus repressor of toxins Rot TR:Q9RFJ6 (EMBL:AF189239) (166 aa) fasta scores: E(): 5.7e-60, 97.590% id in 166 aa. Similar to Staphylococcus aureus SarR TR:Q9F0R1 (EMBL:AF207701) (115 aa) fasta scores: E(): 0.0043, 28.814% id in 118 aa. Probable alternative translational start sites
YP_041234.1	Similar to Bacillus halodurans lysophospholipase BH3288 TR:Q9K7S1 (EMBL:AP001518) (260 aa) fasta scores: E(): 1e-28, 34.091% id in 264 aa, and to Bacillus subtilis probable lysophospholipase YtpA TR:O34705 (EMBL:AF008220) (259 aa) fasta scores: E(): 2e-27, 32.184% id in 261 aa
YP_041235.1	Similar to Bacillus halodurans proline oxidase BH2740 TR:Q9K9A9 (EMBL:AP001516) (306 aa) fasta scores: E(): 2e-44, 45.638% id in 298 aa, and to Bacillus subtilis hypothetical protein YusM TR:O32179 (EMBL:Z99120) (302 aa) fasta scores: E(): 1.1e-40, 42.244% id in 303 aa
YP_041236.1	RibE; 6,7-diimethyl-8-ribityllumazine synthase; DMRL synthase; lumazine synthase; beta subunit of riboflavin synthase; condenses 5-amino-6-(1'-D)-ribityl-amino-2,4(1H,3H)-pyrimidinedione with L-3,4-dihydrohy-2-butanone-4-phosphate to generate 6,6-dimethyl-8-lumazine (DMRL); riboflavin synthase then uses 2 molecules of DMRL to produce riboflavin (vitamin B12); involved in the last steps of riboflavin biosynthesis; forms a 60mer (icosahedral shell) in both Bacillus subtilis and Escherichia coli; in Bacillus subtilis this 60mer is associated with the riboflavin synthase subunit (alpha) while in Escherichia coli it is not
YP_041237.1	Similar to Actinobacillus pleuropneumoniae riboflavin biosynthesis protein RibA [includes: GTP cyclohydrolase II/3,4-dihydroxy-2-butanone-4-phosphate synthase] RibA SW:GCH2_ACTPL (P50855) (401 aa) fasta scores: E(): 1.8e-77, 51.777% id in 394 aa, and to Bacillus halodurans GTP cyclohydrolase II/ 3, 4-dihydroxy-2-butanone 4-phosphate synthase BH1556 TR:Q9KCL5 (EMBL:AP001512) (404 aa) fasta scores: E(): 3.4e-79, 52.284% id in 394 aa
YP_041238.1	catalyzes the formation of riboflavin from 6,7-dimethyl-8-(1-D-ribityl)lumazine
YP_041239.1	Similar to Escherichia coli riboflavin biosynthesis protein RibD [includes: diaminohydroxyphosphoribosylaminopyrimidine deaminase; 5-amino-6-(5- phosphoribosylamino)uracil reductase] RibD SW:RIBD_ECOLI (P25539) (367 aa) fasta scores: E(): 1.4e-25, 34.444% id in 360 aa, and to Aquifex aeolicus riboflavin biosynthesis protein ribd [includes: diaminohydroxyphosphoribosylaminopyrimidine deaminase; 5-amino-6-(5- phosphoribosylamino)uracil reductase] AQ_138 SW:RIBD_AQUAE (O66534) (356 aa) fasta scores: E(): 5.3e-41, 40.323% id in 310 aa
YP_041240.1	Similar to Rhizobium loti hypothetical protein MLR5217 TR:BAB51703 (EMBL:AP003006) (486 aa) fasta scores: E(): 9.5e-05, 19.141% id in 512 aa, and to Rhizobium loti hypothetical protein MLL4514 TR:BAB51151 (EMBL:AP003004) (450 aa) fasta scores: E(): 0.0097, 19.798% id in 495 aa
YP_041241.1	Similar to Staphylococcus aureus arsenical resistance operon repressor ArsR SW:ARSR_STAAU (P30338) (104 aa) fasta scores: E(): 5.4e-32, 75.962% id in 104 aa, and to Bacillus subtilis arsenical resistance operon repressor ArsR SW:ARSR_BACSU (P45949) (105 aa) fasta scores: E(): 2.1e-06, 38.542% id in 96 aa. Similar to SAR0690, 75.000% identity (75.000% ungapped) in 104 aa overlap
YP_041242.1	Similar to Staphylococcus aureus arsenical pump membrane protein ArsB SW:ARSB_STAAU (P30329) (429 aa) fasta scores: E(): 1.1e-119, 79.953% id in 429 aa, and to Escherichia coli arsenical pump membrane protein ArsB SW:ARSB_ECOLI (P37310) (429 aa) fasta scores: E(): 1.1e-82, 55.556% id in 423 aa. Similar to SAR0691, 79.254% identity (79.254% ungapped) in 429 aa overlap
YP_041243.1	Possible gene remnant. C-terminus is similar to C-terminal regions of Staphylococcus aureus bifunctional autolysin precursor [includes: N-acetylmuramoyl-L-alanine amidase; mannosyl-glycoprotein endo-beta-N-acetylglucosamidase] Atl SW:ATL_STAAU (P52081) (1256 aa) fasta scores: E(): 7.5e-30, 42.857% id in 245 aa, and to Staphylococcus saprophyticus surface protein Aas TR:O86919 (EMBL:AJ000007) (1463 aa) fasta scores: E(): 8e-34, 48.163% id in 245 aa
YP_041244.1	Poor database matches. Similar to C-terminal region of Arabidopsis thaliana floral homeotic protein PI SW:PIST_ARATH (P48007) (208 aa) fasta scores: E(): 3.8, 30.556% id in 72 aa
YP_041245.1	Poor database matches. Similar to Clostridium botulinum phage 1C hypothetical protein Orf22 TR:Q38195 (EMBL:X72793) (179 aa) fasta scores: E(): 0.00077, 27.389% id in 157 aa, and to Escherichia coli probable RNA polymerase sigma factor FecI SW:FECI_ECOLI (P23484) (173 aa) fasta scores: E(): 0.097, 25.610% id in 164 aa
YP_041248.1	Poor database matches. Similar to Streptococcus pneumoniae ABC transporter ATP binding domain SP0547 TR:Q9EW58 (EMBL:AJ278419) (203 aa) fasta scores: E(): 2.2e-07, 27.778% id in 198 aa. Similar to SAR1863, 52.000% identity (52.000% ungapped) in 200 aa overlap
YP_041249.1	Poor database matches. Similar to Streptococcus pneumoniae ABC transporter ATP binding domain SP0547 TR:Q9EW58 (EMBL:AJ278419) (203 aa) fasta scores: E(): 3.8e-07, 23.858% id in 197 aa. Similar to SAR1862, 52.000% identity (52.000% ungapped) in 200 aa overlap
YP_041250.1	similar to novel fructose-6-phosphate aldolase from Escherichia coli; enzyme from Methanocaldococcus janaschii shows transaldolase activity
YP_041251.1	Poor database matches. Similar to the C-terminal region of Escherichia coli hypothetical protein EscT TR:Q9AJ27 (EMBL:AF200363) (258 aa) fasta scores: E(): 2.3, 33.333% id in 93 aa
YP_041252.1	may be involved in chromosome condensation; overexpression in Escherichia coli protects against decondensation by camphor; overexpressing the protein results in an increase in supercoiling
YP_041253.1	Similar to Escherichia coli camphor resistance and chromosome condensation protein CrcB SW:CRCB_ECOLI (P37002) (127 aa) fasta scores: E(): 6.9e-06, 34.959% id in 123 aa, and to Bacillus halodurans protein CrcB homologue 1 BH2986 TR:Q9K8M0 (EMBL:AP001517) (127 aa) fasta scores: E(): 2.6e-06, 36.800% id in 125 aa
YP_041254.1	Similar to Bacillus subtilis  morphine dehydrogenase YtbE TR:O34678 (EMBL:AF008220) (280 aa) fasta scores: E(): 8.8e-57, 54.779% id in 272 aa, and to Bacillus subtilis hypothetical protein YvgN TR:O32210 (EMBL:Z99121) (276 aa) fasta scores: E(): 3.7e-56, 56.554% id in 267 aa
YP_041255.1	Poor database matches. N-terminus is similar to N-terminal region of Physarum polycephalum plasmodial specific LAV1-2 protein SW:LAV1_PHYPO (P14725) (355 aa) fasta scores: E(): 3.2, 25.82% id in 213 aa
YP_041256.1	methionine adenosyltransferase; catalyzes the formation of S-adenosylmethionine from methionine and ATP; methionine adenosyltransferase
YP_041257.1	PEP carboxykinase; PEP carboxylase; PEPCK; catalyzes the phosphorylation and decarboxylation of oxaloacetate to form phosphoenolpyruvate using ATP
YP_041258.1	Similar to Bacillus subtilis  peptidase YtmA TR:O34493 (EMBL:AF008220) (257 aa) fasta scores: E(): 2.9e-28, 39.74% id in 239 aa, and to Bacillus halodurans hypothetical protein BH3306 TR:Q9K7Q5 (EMBL:AP001518) (265 aa) fasta scores: E(): 1.4e-23, 37.54% id in 253 aa
YP_041259.1	Similar to Bacillus subtilis hypothetical protein YtkD TR:O35013 (EMBL:AF008220) (158 aa) fasta scores: E(): 1.1e-15, 37.34% id in 158 aa, and to Bacillus halodurans hypothetical protein BH3308 TR:Q9K7Q3 (EMBL:AP001518) (157 aa) fasta scores: E(): 2.3e-12, 36% id in 150 aa
YP_041260.1	Similar to Bacillus subtilis hypothetical protein YtjA SW:YTJA_BACSU (O34601) (75 aa) fasta scores: E(): 2.7e-20, 70.27% id in 74 aa, and to Bacillus halodurans hypothetical protein BH2828 SW:YS28_BACHD (Q9K921) (75 aa) fasta scores: E(): 1.1e-18, 64.86% id in 74 aa
YP_041261.1	Similar to Amycolatopsis sp N-acylamino acid racemase AaaR TR:Q44244 (EMBL:D30738) (368 aa) fasta scores: E(): 1.8e-09, 24.92% id in 341 aa, and to Thermoplasma acidophilum probable N-acylamino acid racemase TA0249 TR:Q9HLH9 (EMBL:AL445063) (361 aa) fasta scores: E(): 1.4e-10, 25.14% id in 342 aa
YP_041262.1	Similar to Bacillus subtilis O-succinylbenzoic CoA synthase MenE TR:O34837 (EMBL:AF008220) (486 aa) fasta scores: E(): 9.5e-47, 32.86% id in 496 aa, and to Lactococcus lactis O-succinylbenzoic acid-CoA ligase MenE TR:Q9CHK3 (EMBL:AE006306) (420 aa) fasta scores: E(): 4.9e-34, 35.26% id in 448 aa
YP_041264.1	No significant database matches. Possible alternative translational start sites
YP_041265.1	Internal region is similar to N-terminus of Bacillus halodurans hypothetical protein BH3064 TR:Q9K8E2 (EMBL:AP001517) (215 aa) fasta scores: E(): 7.7e-10, 37.58% id in 141 aa
YP_041267.1	Poor database matches. Similar to Chrysodidymus synuroideus ribosomal protein S10 Rps10 TR:Q9MGA1 (EMBL:AF222718) (103 aa) fasta scores: E(): 9.2, 26.66% id in 90 aa
YP_041268.1	Poor database matches. Similar to N-terminal region of Mycoplasma pulmonis hypothetical protein MYPU_3700 TR:CAC13543 (EMBL:AL445564) (292 aa) fasta scores: E(): 3.5e-08, 37.25% id in 153 aa. Possible gene remnant
YP_041269.1	C-terminus is similar to an internal region of Bacillus anthracis virulence plasmid pX01 hypothetical protein pX01-90 TR:Q9X360 (EMBL:AF065404) (652 aa) fasta scores: E(): 0.017, 29.9% id in 214 aa
YP_041270.1	Poor database matches. Similar to N-terminal region of Borrelia burgdorferi hypothetical protein BBB26 TR:O50997 (EMBL:AE000792) (231 aa) fasta scores: E(): 1.4e-05, 31.05% id in 161 aa. N-terminus is similar to the N-terminal region of Bacillus subtilis phage-like element PBSX protein XkdA SW:XKDA_BACSU (P39780) (198 aa) fasta scores: E(): 0.41, 25.64% id in 117 aa
YP_041271.1	No significant database matches. Similar to SAR1889, 65.541% identity (65.986% ungapped) in 148 aa overlap, SAR1894, 59.864% identity (60.274% ungapped) in 147 aa overlap, an to SAR1890, 56.081% identity (56.463% ungapped) in 148 aa overlap. C-terminal region is similar to SAR1891, 68.224% identity (68.868% ungapped) in 107 aa overlap
YP_041272.1	No significant database matches. Similar to SAR1886, 65.541% identity (65.986% ungapped) in 148 aa overlap, SAR1890, 62.838% identity (62.838% ungapped) in 148 aa overlap, SAR1894, 55.405% identity (55.405% ungapped) in 148 aa overlap, and to SAR1891, 62.264% identity (62.264% ungapped) in 106 aa overlap
YP_041273.1	No significant database matches. Similar to SAR1889, 62.838% identity (62.838% ungapped) in 148 aa overlap, SAR1886, 56.081% identity (56.463% ungapped) in 148 aa overlap, SAR1894, 55.034% identity (55.405% ungapped) in 149 aa overlap, and to SAR1891, 61.321% identity (61.321% ungapped) in 106 aa overlap
YP_041274.1	Similar to Staphylococcus aureus hyaluronate lyase precursor HysA SW:HYSA_STAAU (Q59801) (807 aa) fasta scores: E(): 0, 75.8% id in 810 aa, and to Streptococcus pneumoniae hyaluronate lyase precursor SP0314 SW:HYSA_STRPN (Q54873) (949 aa) fasta scores: E(): 6.5e-74, 35.34% id in 795 aa. Similar to SAR2292, 74.969% identity (75.716% ungapped) in 811 aa overlap
YP_041275.1	No significant database matches. Possible alternative translational start sites
YP_041276.1	No significant database matches. Similar to SAR1891, 90.566% identity (90.566% ungapped) in 106 aa overlap, SAR1886, 59.864% identity (60.274% ungapped) in 147 aa overlap, SAR1889, 55.405% identity (55.405% ungapped) in 148 aa overlap, and to SAR1890, 55.034% identity (55.405% ungapped) in 149 aa overlap. Similar to SAR1891, 90.566% identity (90.566% ungapped) in 106 aa overlap, SAR1886, 59.864% identity (60.274% ungapped) in 147 aa overlap, SAR1889, 55.405% identity (55.405% ungapped) in 148 aa overlap, and to SAR1890, 55.034% identity (55.405% ungapped) in 149 aa overlap
YP_041277.1	Poor database matches. Similar to internal region of Clostridium botulinum botulinum neurotoxin type C1 precursor SW:BXC1_CLOBO (P18640) (1290 aa) fasta scores: E(): 0.41, 20.46% id in 557 aa
YP_041278.1	Poor database matches. Similar to internal region of Campylobacter jejuni  periplasmic protein CJ0162C TR:Q9PIW5 (EMBL:AL139074) (171 aa) fasta scores: E(): 1, 29.16% id in 96 aa
YP_041279.1	Poor database matches. Similar to N-terminal region of Synechocystis sp hypothetical protein SLR1135 TR:P73259 (EMBL:D90905) (715 aa) fasta scores: E(): 4.7e-05, 24.76% id in 626 aa
YP_041280.1	Similar to Streptococcus thermophilus  type I restriction modification S-subunit protein TR:O52188 (EMBL:AF027167) (412 aa) fasta scores: E(): 3.1e-26, 32.54% id in 421 aa, and to Lactococcus lactis plasmid pSRQ900 type I restriction modification specificity subunit protein HsdS TR:AAC98712 (EMBL:AF001314) (396 aa) fasta scores: E(): 2.1e-20, 27.88% id in 416 aa
YP_041281.1	Similar to Escherichia coli type I restriction enzyme EcoR124II M protein HsdM SW:T1M1_ECOLI (P10484) (520 aa) fasta scores: E(): 6.4e-73, 42.18% id in 512 aa, and to Streptococcus thermophilus type IC modification subunit HsdM TR:Q9RNW1 (EMBL:AF177167) (531 aa) fasta scores: E(): 2.4e-84, 49.13% id in 517 aa. Similar to SAR0433, 98.456% identity (98.456% ungapped) in 518 aa overlap
YP_041282.1	Similar to Staphylococcus aureus serine protease SplE TR:Q9KH47 (EMBL:AF271715) (238 aa) fasta scores: E(): 1.9e-85, 97.05% id in 238 aa. Simlar to SAR1905, 63.445% identity (63.445% ungapped) in 238 aa overlap, SAR1900, 64.481% identity (64.835% ungapped) in 183 aa overlap, and to SAR1903, 56.757% identity (56.757% ungapped) in 74 aa overlap
YP_041283.1	Similar to Staphylococcus aureus serine protease SplE TR:Q9KH47 (EMBL:AF271715) (238 aa) fasta scores: E(): 3.9e-56, 62.6% id in 238 aa. Similar to SAR1902, 63.445% identity (63.445% ungapped) in 238 aa overlap
YP_041284.1	Similar to Staphylococcus aureus serine protease SplC TR:Q9KH49 (EMBL:AF271715) (239 aa) fasta scores: E(): 7.6e-83, 94.56% id in 239 aa
YP_041288.1	Poor database matches. C-terminus is similar to the C-terminal region of bacteriophage P27 hypothetical protein TR:Q9MC01 (EMBL:AJ249351) (409 aa) fasta scores: E(): 8.6e-21, 32.19% id in 323 aa. Contains coiled-coiled domains, residues 66 to 90, 248 to 278, 299 to 318
YP_041290.1	Similar to Staphylococcus aureus extracellular enterotoxin type G precursor Seg TR:O85382 (EMBL:AF064773) (258 aa) fasta scores: E(): 4.5e-101, 97.28% id in 258 aa, and to Staphylococcus aureus enterotoxin type B precursor EntB SW:ETXB_STAAU (P01552) (266 aa) fasta scores: E(): 8.1e-35, 44.65% id in 262 aa
YP_041291.1	Similar to Staphylococcus aureus enterotoxin SEN TR:Q9EZM4 (EMBL:AF285760) (258 aa) fasta scores: E(): 8.3e-90, 95.21% id in 251 aa, and to Staphylococcus aureus enterotoxin type A precursor EntA SW:ETXA_STAAU (P13163) (257 aa) fasta scores: E(): 8.8e-30, 37.84% id in 251 aa. CDS is truncated at the N-terminus in comparison to orthologues
YP_041292.1	Similar to Staphylococcus aureus enterotoxin type B precursor EntB SW:ETXB_STAAU (P01552) (266 aa) fasta scores: E(): 4.6e-51, 54.23% id in 260 aa, and to Staphylococcus aureus enterotoxin type C-3 precursor EntC3 SW:ETC3_STAAU (P23313) (266 aa) fasta scores: E(): 1.2e-50, 52.3% id in 260 aa
YP_041293.1	Similar to Staphylococcus aureus extracellular enterotoxin type I precursor SEI TR:O85383 (EMBL:AF064774) (242 aa) fasta scores: E(): 1.2e-91, 95.86% id in 242 aa, and to Staphylococcus aureus enterotoxin Ent TR:O54476 (EMBL:U93688) (242 aa) fasta scores: E(): 8.6e-64, 67.35% id in 242 aa. Similar to SAR1920, 56.017% identity (57.203% ungapped) in 241 aa overlap
YP_041294.1	Similar to Staphylococcus aureus enterotoxin SEM TR:Q9EZM7 (EMBL:AF285760) (239 aa) fasta scores: E(): 1.1e-83, 92.05% id in 239 aa, and to Staphylococcus aureus, and extracellular enterotoxin type I precursor SEI TR:O85383 (EMBL:AF064774) (242 aa) fasta scores: E(): 5.6e-49, 57.08% id in 233 aa. Similar to SAR1919, 56.017% identity (57.203% ungapped) in 241 aa overlap
YP_041295.1	Similar to Staphylococcus aureus enterotoxin SEL TR:Q9EZM8 (EMBL:AF285760) (261 aa) fasta scores: E(): 1.1e-87, 90.55% id in 254 aa, and to Staphylococcus aureus enterotoxin SEK TR:Q9EZM4 (EMBL:AF285760) (258 aa) fasta scores: E(): 1.3e-38, 43.87% id in 253 aa
YP_041296.1	Similar to Bacillus subtilis hypothetical protein YdeN TR:P96671 (EMBL:AB001488) (190 aa) fasta scores: E(): 3.2e-13, 24.04% id in 183 aa, and to Homo sapiens retinoblastoma-binding protein Bog TR:Q9H1D8 (EMBL:AF039564) (186 aa) fasta scores: E(): 0.00069, 21.22% id in 179 aa
YP_041297.1	catalyzes the formation of protoporphyrin IX from protoporphyrinogen IX
YP_041298.1	protoheme ferro-lyase; catalyzes the insertion of a ferrous ion into protoporphyrin IX to form protoheme; involved in protoheme biosynthesis; in some organisms this protein is membrane-associated while in others it is cytosolic
YP_041299.1	catalyzes the formation of coproporphyrinogen from uroporphyrinogen III
YP_041300.1	Similar to Staphylococcus aureus signal transduction protein, target of RNAIII-activating protein, TRAP TR:Q9F949 (EMBL:AF202641) (167 aa) fasta scores: E(): 8.2e-60, 88.02% id in 167 aa, and to Bacillus subtilis hypothetical protein YhgC SW:YHGC_BACSU (P38049) (166 aa) fasta scores: E(): 1e-08, 26.54% id in 162 aa
YP_041301.1	Similar to Bacillus subtilis novel ABC transporter EcsB SW:ECSB_BACSU (P55340) (408 aa) fasta scores: E(): 4e-26, 27.97% id in 404 aa, and to Bacillus halodurans ABC transporter BH1192 TR:Q9KDM0 (EMBL:AP001511) (405 aa) fasta scores: E(): 1.7e-21, 24.48% id in 388 aa
YP_041302.1	Similar to Bacillus subtilis ABC-type transporter ATP-binding protein EcsA SW:ECSA_BACSU (P55339) (247 aa) fasta scores: E(): 7.8e-49, 58.82% id in 238 aa, and to Lactococcus lactis ABC transporter ATP binding protein EcsA TR:Q9CE51 (EMBL:AE006429) (256 aa) fasta scores: E(): 7.3e-51, 59.83% id in 239 aa
YP_041303.1	Similar to Schizosaccharomyces pombe hypothetical HIT-family protein SPCC1442.14C TR:O94586 (EMBL:AL031966) (133 aa) fasta scores: E(): 5.7e-13, 37.03% id in 135 aa, and to Bacillus halodurans HIT-like protein involved in cell-cycle regulation BH1189 TR:Q9KDM3 (EMBL:AP001511) (142 aa) fasta scores: E(): 9.8e-25, 53.67% id in 136 aa
YP_041304.1	Poor database matches. Similar to Bacillus halodurans hypothetical protein BH1186 TR:Q9KDM6 (EMBL:AP001511) (114 aa) fasta scores: E(): 0.18, 31.06% id in 103 aa
YP_041305.1	No significant database matches. Doubtful CDS
YP_041306.1	oor database matches. Similar to Bacillus halodurans hypothetical protein BH1182 TR:Q9KDM9 (EMBL:AP001511) (180 aa) fasta scores: E(): 4.4e-09, 26.85% id in 175 aa
YP_041307.1	Similar to Bacillus subtilis protein export protein PrsA SW:PRSA_BACSU (P24327) (292 aa) fasta scores: E(): 1.8e-10, 35.43% id in 302 aa, and to Bacillus halodurans protein export protein BH1177 TR:Q9KDN4 (EMBL:AP001511) (333 aa) fasta scores: E(): 1.5e-08, 25.24% id in 301 aa
YP_041308.1	catalyzes the exonucleic cleavage of mRNA yielding nucleioside 5'-phosphates
YP_041309.1	Poor database matches. Similar to Bacillus subtilis hypothetical protein YhaN TR:O08455 (EMBL:Y14078) (963 aa) fasta scores: E(): 2.7e-17, 24.42% id in 991 aa
YP_041310.1	Similar to Bacillus subtilis hypothetical protein YhaO TR:O07522 (EMBL:Y14078) (408 aa) fasta scores: E(): 1.1e-38, 34.91% id in 401 aa, and to Methanococcus jannaschii hypothetical protein MJ1323 mj1323 TR:Q58719 (EMBL:U67572) (366 aa) fasta scores: E(): 1e-08, 24.67% id in 385 aa
YP_041311.1	Similar to Bacillus subtilis hypothetical protein YheA TR:O07542 (EMBL:Y14080) (117 aa) fasta scores: E(): 1.1e-13, 49.1% id in 112 aa, and to Bacillus firmus hypothetical protein TR:O87558 (EMBL:AF084104) (118 aa) fasta scores: E(): 1e-12, 46.84% id in 111 aa
YP_041312.1	Similar to Bacillus firmus hypothetical protein TR:O87557 (EMBL:AF084104) (370 aa) fasta scores: E(): 6.8e-32, 31.09% id in 373 aa, and to Bacillus subtilis hypothetical protein YheB TR:O07543 (EMBL:Y14080) (377 aa) fasta scores: E(): 2.7e-31, 30.35% id in 369 aa
YP_041313.1	No significant database matches to the full length CDS. N-terminal region is similar to Streptococcus pneumoniae  transcription regulator SP0333 TR:P72494 (EMBL:Z79691) (64 aa) fasta scores: E(): 2.3, 30.5% id in 59 aa, and Streptococcus pyogenes  transcription regulator SPY1934 TR:Q99Y06 (EMBL:AE006617) (68 aa) fasta scores: E(): 0.97, 28.81% id in 59 aa
YP_041314.1	Two-component regulatory system family, response regulator protein. Similar to Bacillus halodurans two-component response regulator BH2213 TR:Q9KAS4 (EMBL:AP001514) (217 aa) fasta scores: E(): 1.6e-28, 47.08% id in 206 aa, and to Bacillus subtilis hypothetical protein YhcZ TR:O07528 (EMBL:Y14079) (214 aa) fasta scores: E(): 6.6e-27, 44.49% id in 209 aa
YP_041315.1	Similar to Bacillus subtilis hypothetical protein YhcY TR:O07527 (EMBL:Y14079) (379 aa) fasta scores: E(): 2.4e-47, 40% id in 365 aa, and to the Bacillus halodurans two-component sensor histidine kinase BH2214 TR:Q9KAS3 (EMBL:AP001514) (478 aa) fasta scores: E(): 2.3e-18, 28.72% id in 470 aa. B. halodurans protein is larger in comparison to the CDS and contains extra internal amino acids.
YP_041316.1	Similar to Bacillus subtilis hypothetical protein YhcT SW:YHCT_BACSU (P54604) (302 aa) fasta scores: E(): 3.5e-29, 39.6% id in 255 aa, and to Lactococcus lactis possible pseudouridine synthase RluA TR:Q9CDU9 (EMBL:AE006439) (288 aa) fasta scores: E(): 3.9e-29, 38.18% id in 275 aa
YP_041317.1	class II family (does not require metal); tetrameric enzyme; fumarase C; reversibly converts (S)-malate to fumarate and water; functions in the TCA cycle
YP_041321.1	Similar to Bacillus subtilis methylase homologue CspR TR:Q45512 (EMBL:U58864) (157 aa) fasta scores: E(): 3.5e-42, 64.74% id in 156 aa, and to Bacillus stearothermophilus hypothetical protein SW:YGL3_BACST (P32813) (157 aa) fasta scores: E(): 5.5e-42, 66.24% id in 157 aa
YP_041322.1	Similar to Bacillus halodurans hypothetical protein BH1020 TR:Q9KE38 (EMBL:AP001510) (391 aa) fasta scores: E(): 6.5e-86, 57.45% id in 369 aa, and to Streptococcus pyogenes hypothetical protein SPY0642 TR:Q9A0S6 (EMBL:AE006518) (391 aa) fasta scores: E(): 3.6e-57, 42.81% id in 369 aa
YP_041323.1	Similar to Bacillus stearothermophilus glutamine transport ATP-binding protein GlnQ SW:GLNQ_BACST (P27675) (242 aa) fasta scores: E(): 7e-43, 55.83% id in 240 aa, and to Streptococcus pyogenes  amino acid ABC transporter SPY1506 TR:Q99YW9 (EMBL:AE006584) (244 aa) fasta scores: E(): 8.5e-49, 65% id in 240 aa. Similar to SAR2502, 54.622% identity (55.319% ungapped) in 238 aa overlap
YP_041324.1	Similar to Streptococcus pyogenes glutamine-binding periplasmic protein SPY0277 TR:Q9A1H0 (EMBL:AE006494) (522 aa) fasta scores: E(): 1.8e-23, 32.61% id in 512 aa, and to Synechocystis sp glutamine-binding periplasmic protein SLL1270 TR:P73544 (EMBL:D90907) (530 aa) fasta scores: E(): 3e-23, 30.3% id in 518 aa. Possible alternative translational start sites
YP_041325.1	Similar to Treponema pallidum regulatory protein TP0038 TR:Q56343 (EMBL:AE001189) (350 aa) fasta scores: E(): 1.3e-45, 39.82% id in 344 aa, and to Streptococcus pyogenes probable regulatory protein SPY0851 TR:Q9A0B4 (EMBL:AE006535) (352 aa) fasta scores: E(): 5e-40, 39.65% id in 353 aa
YP_041326.1	Similar to Bacillus subtilis peroxide operon regulator PerR SW:PERR_BACSU (P71086) (145 aa) fasta scores: E(): 2.4e-37, 67.62% id in 139 aa, and to Bacillus halodurans transcriptional regulator BH0951 TR:Q9JWQ8 (EMBL:AP001510) (145 aa) fasta scores: E(): 9.7e-36, 67.62% id in 139 aa
YP_041327.1	Similar to Bacillus halodurans D-3-phosphoglycerate dehydrogenase BH0949 TR:Q9KEA4 (EMBL:AP001510) (316 aa) fasta scores: E(): 7.6e-38, 36.59% id in 317 aa, and to Lactococcus lactis dehydrogenase YugC TR:Q9CE59 (EMBL:AE006429) (325 aa) fasta scores: E(): 2.6e-23, 31.15% id in 321 aa
YP_041328.1	Similar to Bacillus halodurans bacterioferritin comigratory protein BH0948 TR:Q9KEA5 (EMBL:AP001510) (154 aa) fasta scores: E(): 6.5e-24, 49.3% id in 144 aa, and to Aquifex aeolicus hypothetical protein AQ_495 TR:O66785 (EMBL:AE000692) (161 aa) fasta scores: E(): 6.6e-23, 47.71% id in 153 aa
YP_041329.1	converts (S)-4-amino-5-oxopentanoate to 5-aminolevulinate
YP_041330.1	Similar to Bacillus subtilis hypothetical protein YgaE TR:P71083 (EMBL:Z82044) (353 aa) fasta scores: E(): 1.9e-38, 38.01% id in 363 aa, and to Bacillus halodurans hypothetical protein BH0942 TR:Q9KEB1 (EMBL:AP001510) (360 aa) fasta scores: E(): 2.1e-34, 33.6% id in 363 aa
YP_041331.1	Similar to Bacillus halodurans ABC transporter BH0941 TR:Q9KEB2 (EMBL:AP001510) (584 aa) fasta scores: E(): 1.8e-132, 64.12% id in 577 aa, and to Bacillus subtilis  ABC transporter ATP-binding protein YgaD TR:P71082 (EMBL:Z82044) (589 aa) fasta scores: E(): 3.6e-130, 61.24% id in 578 aa
YP_041332.1	Similar to Bacillus halodurans hypothetical protein BH0940 TR:Q9KEB3 (EMBL:AP001510) (175 aa) fasta scores: E(): 1.3e-44, 63.79% id in 174 aa, and to Lactococcus lactis hypothetical protein YjjG TR:Q9CGX3 (EMBL:AE006331) (176 aa) fasta scores: E(): 3.8e-44, 59.19% id in 174 aa
YP_041333.1	Similar to Salmonella typhimurium A/G-specific adenine glycosylase MutY SW:MUTY_SALTY (Q05869) (350 aa) fasta scores: E(): 1.1e-34, 33.72% id in 344 aa, and to Bacillus subtilis hypothetical protein YfhQ TR:O31584 (EMBL:Z99108) (369 aa) fasta scores: E(): 1.5e-53, 44.98% id in 349 aa
YP_041334.1	Similar to Bacillus subtilis hypothetical protein YfhP TR:O31583 (EMBL:Z99108) (327 aa) fasta scores: E(): 1.1e-52, 42.76% id in 325 aa, and to Bacillus halodurans hypothetical protein BH0929 TR:Q9KEC4 (EMBL:AP001510) (327 aa) fasta scores: E(): 1.5e-50, 43.29% id in 328 aa
YP_041335.1	Similar to Bacillus subtilis teichoic acid translocation permease TagG SW:TAGG_BACSU (P42953) (275 aa) fasta scores: E(): 0.00014, 24.61% id in 195 aa, and to Archaeoglobus fulgidus polysaccharide ABC transporter permease AF0289 TR:O29952 (EMBL:AE001085) (252 aa) fasta scores: E(): 0.12, 22.3% id in 260 aa
YP_041336.1	Similar to Bacillus subtilis teichoic acid translocation ATP-binding protein TagH SW:TAGH_BACSU (P42954) (527 aa) fasta scores: E(): 2.4e-12, 24.04% id in 445 aa, and to Lactococcus lactis teichoic acid ABC transporter ATP binding protein TagH TR:Q9CH26 (EMBL:AE006326) (466 aa) fasta scores: E(): 1.4e-07, 22.22% id in 396 aa
YP_041337.1	Similar to Bacillus subtilis hypothetical protein YfhH TR:O31576 (EMBL:Z99108) (104 aa) fasta scores: E(): 2.5e-11, 40.59% id in 101 aa, and to Bacillus halodurans hypothetical protein BH0925 TR:Q9KEC8 (EMBL:AP001510) (108 aa) fasta scores: E(): 1.4e-10, 42.15% id in 102 aa
YP_041338.1	binds RecA and inhibits RecA-mediated DNA strand exchange and ATP hydrolysis and coprotease activities
YP_041339.1	monofunctional; catalyzes the elongation of glycan strands in cell wall biosynthesis
YP_041340.1	Similar to Bacillus subtilis hypothetical protein YraA SW:YRAA_BACSU (O06006) (154 aa) fasta scores: E(): 5.5e-29, 56.95% id in 151 aa, and to Escherichia coli hypothetical protein YhbO SW:YHBO_ECOLI (P45470) (172 aa) fasta scores: E(): 5.4e-28, 49.41% id in 172 aa
YP_041341.1	Poor database matches. Similar to Bacillus subtilis hypothetical protein YfjT TR:O35041 (EMBL:Z99108) (61 aa) fasta scores: E(): 0.0017, 42.3% id in 52 aa
YP_041342.1	Similar to Bacillus halodurans hypothetical protein BH0889 TR:Q9KEG3 (EMBL:AP001510) (374 aa) fasta scores: E(): 2.2e-89, 56.38% id in 376 aa. N-terminus is similar to Bacillus subtilis hypothetical protein YfkA TR:O34400 (EMBL:Z99108) (154 aa) fasta scores: E(): 1.9e-35, 61.58% id in 151 aa. C-terminus is similar to Bacillus subtilis hypothetical protein YfkB TR:O34868 (EMBL:Z99108) (153 aa) fasta scores: E(): 1.9e-35, 63.94% id in 147 aa
YP_041343.1	Similar to Bacillus halodurans acyl-CoA thioester hydrolase BH2302 TR:Q9KAI5 (EMBL:AP001515) (162 aa) fasta scores: E(): 5.2e-23, 46.1% id in 154 aa, and to Bacillus subtilis  acyl-CoA thioester hydrolase YkhA SW:YKHA_BACSU (P49851) (179 aa) fasta scores: E(): 1e-22, 50% id in 150 aa
YP_041344.1	Similar to Streptococcus thermophilus aminopeptidase PepS SW:PEPS_STRTR (Q9X4A7) (413 aa) fasta scores: E(): 9.9e-71, 46.48% id in 413 aa, and to Bacillus subtilis aminopeptidase AmpS SW:AMPS_BACSU (P39762) (410 aa) fasta scores: E(): 3.1e-73, 47.33% id in 412 aa
YP_041345.1	Similar to Bacillus subtilis hypothetical protein YfkK TR:O35019 (EMBL:Z99108) (71 aa) fasta scores: E(): 0.0036, 40% id in 55 aa, and to Bacillus halodurans hypothetical protein BH2488 TR:Q9KA06 (EMBL:AP001515) (73 aa) fasta scores: E(): 0.0002, 39.7% id in 68 aa
YP_041346.1	Similar to Rattus norvegicus low molecular weight phosphotyrosine protein phosphatase AcP1 SW:PPAC_RAT (P41498) (159 aa) fasta scores: E(): 8.6e-13, 36.05% id in 147 aa, and to Bacillus subtilis hypothetical protein YfkJ TR:O35016 (EMBL:Z99108) (156 aa) fasta scores: E(): 5.2e-23, 45.57% id in 158 aa
YP_041348.1	C-terminal region is similar to Bacillus cereus hypothetical protein YfkH TR:Q9XBK8 (EMBL:AJ010131) (289 aa) fasta scores: E(): 1.2e-34, 37.18% id in 277 aa, and Bacillus subtilis hypothetical protein YfkH TR:O34437 (EMBL:Z99108) (275 aa) fasta scores: E(): 3.7e-33, 39.33% id in 272 aa. CDS contains extra residues at the N-terminus in comparison to orthologues
YP_041349.1	Two-component regulatory system family, response regulator protein. Similar to Bacillus halodurans two-component response regulator BH1200 TR:Q9KDL2 (EMBL:AP001511) (209 aa) fasta scores: E(): 3e-36, 55.28% id in 208 aa, and to Lactococcus lactis two-component system regulator LlrD TR:Q9CH48 (EMBL:AE006323) (209 aa) fasta scores: E(): 5.3e-35, 53.88% id in 206 aa
YP_041350.1	Previously sequenced as Staphylococcus aureus histidine kinase sensor, up-regulated in vancomycin-resistant strains, VraS TR:Q9KWK8 (EMBL:AB035448) (347 aa) fasta scores: E(): 3e-115, 99.71% id in 347 aa. Similar to Bacillus subtilis hypothetical protein YvqE TR:O32198 (EMBL:Z99120) (360 aa) fasta scores: E(): 8.9e-32, 40.47% id in 336 aa
YP_041351.1	Similar to Streptococcus pyogenes hypothetical protein SPY1623 TR:Q99YN1 (EMBL:AE006593) (228 aa) fasta scores: E(): 3.7e-05, 21.22% id in 212 aa, and to Bacillus subtilis hypothetical protein YvqF TR:O32199 (EMBL:Z99120) (241 aa) fasta scores: E(): 0.00046, 26.27% id in 236 aa
YP_041353.1	catalyzes the removal of N-terminal amino acids from peptides and arylamides; generally Co(II) however activity has been shown for some methionine aminopeptidases with Zn, Fe, or Mn
YP_041354.1	N-terminus is similar to the N-terminal regions of Bacillus halodurans hypothetical protein BH2644 TR:Q9K9K2 (EMBL:AP001516) (354 aa) fasta scores: E(): 7.7e-26, 34.04% id in 279 aa, and Bacillus subtilis hypothetical protein YgaE TR:P71083 (EMBL:Z82044) (353 aa) fasta scores: E(): 3.1e-12, 29.79% id in 292 aa
YP_041355.1	No significant database matches. Possible alternative translational start sites
YP_041356.1	Similar to the C-terminal region of Pyrococcus kodakaraensis probable cobyric acid synthase CobQ SW:COBQ_PYRKO (O33475) (472 aa) fasta scores: E(): 0.00014, 26.88% id in 186 aa, and to the full length Heliobacillus mobilis cobyric acid synthase CobQ TR:Q9ZGG8 (EMBL:AF080002) (252 aa) fasta scores: E(): 5e-35, 48.61% id in 216 aa
YP_041357.1	Similar to Lactococcus lactis hypothetical protein YlbD TR:Q9CGJ0 (EMBL:AE006342) (449 aa) fasta scores: E(): 9.5e-42, 35.57% id in 447 aa, and to Heliobacillus mobilis UDP-N-acetylmuramyl tripeptide synthetase MurC TR:Q9ZGG7 (EMBL:AF080002) (455 aa) fasta scores: E(): 8.7e-27, 35.79% id in 447 aa
YP_041358.1	Similar to Escherichia coli ferritin 1 FtnA SW:FTNA_ECOLI (P23887) (165 aa) fasta scores: E(): 1e-18, 35.62% id in 160 aa, and to Bacillus halodurans ferritin BH1124 TR:Q9KDT7 (EMBL:AP001511) (169 aa) fasta scores: E(): 2.5e-33, 54.21% id in 166 aa
YP_041359.1	Similar to Caulobacter crescentus exonuclease CC1523 TR:Q9A841 (EMBL:AE005827) (202 aa) fasta scores: E(): 1.3e-13, 31.41% id in 156 aa, and to an internal region of Staphylococcus aureus DNA polymerase III PolC-type PolC SW:DPO3_STAAU (Q53665) (1436 aa) fasta scores: E(): 7.3e-08, 25.78% id in 190 aa
YP_041360.1	involved in translesion DNA polymerization with beta clamp of polymerase III; belongs to Y family of polymerases; does not contain proofreading function
YP_041361.1	Similar to Streptococcus downei surface protein antigen gene repressor protein Par TR:Q06370 (EMBL:D13323) (203 aa) fasta scores: E(): 0.0071, 30.07% id in 143 aa, and to Streptococcus criceti probable surface antigen negative regulator Par TR:BAB59133 (EMBL:AB042239) (183 aa) fasta scores: E(): 0.01, 26.7% id in 161 aa
YP_041362.1	Similar to Bacillus halodurans RNA methyltransferase BH0687 TR:Q9KF10 (EMBL:AP001509) (458 aa) fasta scores: E(): 7.7e-89, 48.11% id in 451 aa, and to Bacillus subtilis hypothetical protein YefA TR:O31503 (EMBL:Z99107) (459 aa) fasta scores: E(): 4.8e-88, 49.66% id in 453 aa
YP_041363.1	similar to YegS from E. coli
YP_041364.1	allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp-tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases; reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA
YP_041365.1	allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp-tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases; reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA
YP_041366.1	allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp-tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases; reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA; some Mycoplasma proteins contain an N-terminal fusion to an unknown domain
YP_041367.1	Similar to Staphylococcus aureus high affinity proline permease PutP TR:O30986 (EMBL:AF024571) (497 aa) fasta scores: E(): 5.5e-176, 97.97% id in 494 aa, and to Bacillus subtilis osmoregulated proline transporter OpuE SW:OPUE_BACSU (O06493) (492 aa) fasta scores: E(): 4.3e-100, 55.25% id in 476 aa
YP_041368.1	Similar to Bacillus subtilis hypothetical protein YerH TR:O34629 (EMBL:Z99107) (396 aa) fasta scores: E(): 2.5e-43, 35.55% id in 405 aa, and to Bacillus halodurans hypothetical protein BH0650 TR:Q9KF36 (EMBL:AP001509) (392 aa) fasta scores: E(): 2.8e-21, 27.98% id in 411 aa
YP_041369.1	Previously sequenced as Staphylococcus aureus DNA ligase Lig TR:Q9AIU7 (EMBL:AF234833) (667 aa) fasta scores: E(): 0, 99.55% id in 667 aa. Similar to Bacillus subtilis DNA ligase LigA SW:DNLJ_BACSU (O31498) (668 aa) fasta scores: E(): 4.1e-153, 61.79% id in 657 aa
YP_041370.1	Similar to Bacillus subtilis ATP-dependent DNA helicase PcrA SW:PCRA_BACSU (O34580) (739 aa) fasta scores: E(): 6.1e-157, 59.73% id in 740 aa. Previously sequenced as Staphylococcus aureus ATP-dependent DNA helicase PcrA SW:PCRA_STAAU (Q53727) (675 aa) fasta scores: E(): 0, 99.85% id in 665 aa
YP_041371.1	PcrB-like protein; GGGP synthase; member of prenyltransferases that transfer isoprenoid groups to nonisoprenoid acceptors; functions in form GGGP from glycerol-1-phosphate (G-1-P) and geranylgeranyl pyrophosphate (GGPP); important in lipid metabolism and especially important as the ether linkages in archaea are different than those in bacteria; GGGP synthase lies at the branch point for membrane lipid biosynthesis; cytosolic; T acidophilum protein acts as a homodimer while M thermoautotrophicum protein has been reported to function as a pentamer
YP_041372.1	Similar to Bacillus subtilis hypothetical protein YerC TR:O34975 (EMBL:Z99107) (104 aa) fasta scores: E(): 1.3e-24, 69.14% id in 94 aa, and to Bacillus halodurans hypothetical protein BH0639 TR:Q9KF47 (EMBL:AP001509) (100 aa) fasta scores: E(): 5.4e-24, 68.08% id in 94 aa
YP_041373.1	Catalyzes two discrete reactions in the de novo synthesis of purines: the cleavage of adenylosuccinate and succinylaminoimidazole carboxamide ribotide
YP_041374.1	Similar to Staphylococcus aureus cysteine protease (V8 protease) precursor BspB TR:Q9EYW7 (EMBL:AF309515) (393 aa) fasta scores: E(): 2.4e-47, 40.2% id in 398 aa. C-terminal region is identical to Staphylococcus aureus staphopain protease SW:STPA_STAAU (P81297) (174 aa) fasta scores: E(): 5.4e-64, 100% id in 174 aa
YP_041375.1	Poor database matches. Similar to Staphylococcus aureus Ssp serine protease (V8 protease) operon hypothetical protein SspC TR:Q9EYW6 (EMBL:AF309515) (109 aa) fasta scores: E(): 9.6, 22.68% id in 97 aa
YP_041376.1	Similar to Bacillus halodurans hypothetical protein BH0622 TR:Q9KF64 (EMBL:AP001509) (65 aa) fasta scores: E(): 2.2e-07, 49.12% id in 57 aa, and to Bacillus subtilis hypothetical protein YebG TR:O34700 (EMBL:Z99107) (65 aa) fasta scores: E(): 2.1e-06, 43.1% id in 58 aa
YP_041377.1	Similar to Bacillus halodurans hypothetical protein BH0621 TR:Q9KF65 (EMBL:AP001509) (179 aa) fasta scores: E(): 1.3e-39, 60.11% id in 178 aa. N-terminal region is similar to Bacillus subtilis hypothetical protein YebE TR:O34695 (EMBL:Z99107) (80 aa) fasta scores: E(): 4.2e-11, 58.33% id in 72 aa. C-terminal region is similar to Bacillus subtilis hypothetical protein YebF TR:O34624 (EMBL:Z99107) (88 aa) fasta scores: E(): 2.3e-17, 59.09% id in 88 aa
YP_041378.1	catalyzes the formation of nicotinamide adenine dinucleotide (NAD) from nicotinic acid adenine dinucleotide (NAAD) using either ammonia or glutamine as the amide donor and ATP; ammonia-utilizing enzymes include the ones from Bacillus and Escherichia coli while glutamine-utilizing enzymes include the Mycobacterial one; forms homodimers
YP_041379.1	catalyzes the formation of 5-phospho-alpha-D-ribose 1-diphosphate and nicotinate from nicotinate D-ribonucleotide and diphosphate
YP_041380.1	Similar to an internal region of Homo sapiens inducible nitric oxide synthase NOS2 SW:NS2A_HUMAN (P35228) (1153 aa) fasta scores: E(): 4.5e-38, 42.13% id in 356 aa, and to the full length Bacillus halodurans nitric oxide synthase BH0823 TR:Q9KEM9 (EMBL:AP001509) (366 aa) fasta scores: E(): 3.4e-69, 50.43% id in 349 aa
YP_041381.1	Similar to the C-terminal region of Pseudomonas stutzeri bifunctional P-protein [includes: chorismate mutase, chorismate mutase/prephenate dehydratase] PheA SW:PHEA_PSEST (P27603) (365 aa) fasta scores: E(): 3.6e-18, 30.25% id in 271 aa, and to Methanococcus jannaschii probable prephenate dehydratase MJ0637 SW:PHEA_METJA (Q58054) (272 aa) fasta scores: E(): 7.6e-22, 33.33% id in 270 aa
YP_041382.1	Similar to Oryctolagus cuniculus renal sodium/dicarboxylate cotransporter NaDC-1 SW:NDC1_RABIT (Q28615) (593 aa) fasta scores: E(): 2.3e-21, 35.54% id in 543 aa, and to Arabidopsis thaliana sodium sulfate or dicarboxylate transporter TR:Q9MAW4 (EMBL:AB043024) (540 aa) fasta scores: E(): 1.2e-31, 33.19% id in 482 aa
YP_041383.1	Poor database matches. Similar to bacteriophage B103 pre-neck appendage protein (late protein gp12) SW:VG12_BPB03 (Q37893) (860 aa) fasta scores: E(): 0.012, 24.39% id in 373 aa
YP_041384.1	Similar to Mycobacterium smegmatis nicotinamidase/pyrazinamidase PncA TR:Q9ZF59 (EMBL:AF117900) (187 aa) fasta scores: E(): 1.1e-05, 30.67% id in 163 aa, and to Bacillus halodurans pyrazinamidase/nicotinamidase BH3777 TR:Q9K6F2 (EMBL:AP001520) (183 aa) fasta scores: E(): 6.2e-40, 54.74% id in 179 aa
YP_041385.1	catalyzes the hydrolysis of pyrophosphate to phosphate
YP_041386.1	Similar to Homo sapiens fatty aldehyde dehydrogenase ALDH10 SW:DHA4_HUMAN (P51648) (485 aa) fasta scores: E(): 1.4e-78, 45.35% id in 452 aa, and to Bacillus subtilis probable aldehyde dehydrogenase ywdh ywdh or ipa-58R SW:DHA2_BACSU (P39616) (457 aa) fasta scores: E(): 8.3e-92, 50.78% id in 447 aa
YP_041387.1	Similar to Bacillus subtilis hypothetical protein YkgB SW:YKGB_BACSU (O34499) (349 aa) fasta scores: E(): 3.4e-41, 37.79% id in 344 aa, and to Lactococcus lactis hypothetical protein SW:YADB_LACLC (O86281) (341 aa) fasta scores: E(): 2.1e-36, 34.6% id in 341 aa
YP_041388.1	C-terminal region is similar to Bacillus anthracis plasmid pXO2 hypothetical protein pXO2-70 TR:Q9RMW4 (EMBL:AF188935) (113 aa) fasta scores: E(): 8.7e-10, 35.13% id in 111 aa, and bacteriophage SPBc2 hypothetical protein YolD TR:O64030 (EMBL:AF020713) (110 aa) fasta scores: E(): 8.1e-07, 39.02% id in 82 aa
YP_041390.1	Poor database matches. N-terminus is weakly similar to the N-terminal region of Rhizobium loti acyl-CoA-6-aminopenicillanic acid acyltransferase MLL9373 TR:BAB54980 (EMBL:AP003016) (334 aa) fasta scores: E(): 0.017, 21.56% id in 269 aa
YP_041391.1	Poor database matches. Similar to the N-terminal regions of Staphylococcus sciuri penicillin-binding protein 2' MecA TR:O54286 (EMBL:Y13096) (668 aa) fasta scores: E(): 3.8, 22.93% id in 279 aa, and to Staphylococcus epidermidis penicillin binding protein 2' MecA TR:Q54113 (EMBL:X52592) (668 aa) fasta scores: E(): 4.4, 23.29% id in 279 aa
YP_041392.1	Similar to Streptococcus pyogenes hypothetical protein SPY2173 TR:Q99XJ8 (EMBL:AE006634) (195 aa) fasta scores: E(): 0.0068, 27% id in 200 aa, and to Caulobacter crescentus hypothetical protein CC3409 TR:Q9A2Z7 (EMBL:AE006001) (187 aa) fasta scores: E(): 0.011, 22.77% id in 180 aa
YP_041393.1	Poor database matches. Weakly similar to Candidatus Carsonella ruddii alkyl hydroperoxide reductase small subunit AhpC TR:Q9AIZ1 (EMBL:AF211134) (177 aa) fasta scores: E(): 10, 21.89% id in 169 aa
YP_041394.1	Poor database matches. Weakly similar to Arabidopsis thaliana thioredoxin-like protein TR:Q9LVI2 (EMBL:AB019230) (175 aa) fasta scores: E(): 0.8, 25.82% id in 151 aa
YP_041395.1	Weakly similar to Staphylococcus epidermidis membrane spanning protein SmpA TR:Q54139 (EMBL:Z30586) (256 aa) fasta scores: E(): 0.00053, 23.75% id in 261 aa, and to Staphylococcus hominis potential membrane spanning protein SmpB TR:Q54315 (EMBL:Z30587) (256 aa) fasta scores: E(): 0.00068, 24.52% id in 261 aa
YP_041396.1	Similar to Streptococcus pyogenes  ABC transporter SPY1784 TR:Q99YB1 (EMBL:AE006605) (300 aa) fasta scores: E(): 1.3e-19, 33.21% id in 286 aa, and to Staphylococcus aureus potential ABC transporter StpC TR:Q53763 (EMBL:Z30588) (231 aa) fasta scores: E(): 1.9e-19, 41.9% id in 210 aa
YP_041397.1	Similar to Phytophthora infestans mitochondrial SecY-independent transporter protein YMF16 TR:Q9T238 (EMBL:U17009) (248 aa) fasta scores: E(): 0.079, 26.57% id in 207 aa, and to Pyrococcus horikoshii hypothetical protein PH1493 TR:O59162 (EMBL:AP000006) (232 aa) fasta scores: E(): 0.2, 24.87% id in 205 aa
YP_041398.1	Similar to Bacillus halodurans ABC transporter BH0652 TR:Q9KF34 (EMBL:AP001509) (288 aa) fasta scores: E(): 6.4e-37, 42.85% id in 280 aa, and to Thermotoga maritima ABC transporter ATP-binding protein TM1028 TR:Q9X0B8 (EMBL:AE001764) (293 aa) fasta scores: E(): 1.8e-18, 31.46% id in 286 aa
YP_041399.1	Similar to Bacillus halodurans transcriptional regulator BH0651 TR:Q9KF35 (EMBL:AP001509) (123 aa) fasta scores: E(): 1.3e-18, 52.03% id in 123 aa, and to Bacillus firmus hypothetical protein TR:O87562 (EMBL:AF084104) (119 aa) fasta scores: E(): 5.3e-11, 40.17% id in 117 aa
YP_041401.1	Doubtful CDS. No database matches
YP_041402.1	Similar to Bacillus circulans aspartate aminotransferase TR:Q59197 (EMBL:X94433) (432 aa) fasta scores: E(): 4e-70, 46.65% id in 433 aa. N-terminus is similar to the N-terminal region of Escherichia coli aspartate aminotransferase AspC SW:AAT_ECOLI (P00509) (396 aa) fasta scores: E(): 3.5e-07, 23.19% id in 332 aa
YP_041403.1	Similar to Staphylococcus aureus prophage phiPV83 transposase TR:Q9MBP7 (EMBL:AB044554) (548 aa) fasta scores: E(): 1e-198, 99.270% id in 548 aa, and to Bacillus halodurans cassette chromosome recombinase B1 BH0682 TR:Q9KF15 (EMBL:AP001509) (522 aa) fasta scores: E(): 4.7e-99, 51.923% id in 520 aa
YP_041404.1	Similar to Staphylococcus aureus mammalian extracellular protein-binding protein, major histocompatibility complex (MHC) class III analog TR:Q53599 (EMBL:U20503) (689 aa) fasta scores: E(): 0, 94.77% id in 689 aa
YP_041408.1	No significant database matches. Similar to SAR1131, 50.000% identity (50.893% ungapped) in 114 aa overlap
YP_041409.1	secreted protein that specifically inhibits the activation of neutrophils and monocytes by binding to the formylated peptide receptor and the C5a receptor; blocks neutrophil migration towards the infection site and hinders the establishment of the initial defense against the infection
YP_041410.1	Highly similar to Staphylococcus aureus plasminogen activator staphylokinase precursor Sak SW:SAK_STAAU (P00802) (163 aa) fasta scores: E(): 9.5e-61, 98.77% id in 163 aa, and to bacteriophage P42D staphylokinase precursor Sak SW:SAK_BPP42 (P15240) (163 aa) fasta scores: E(): 2.2e-59, 97.54% id in 163 aa
YP_041411.1	Similar to the N-terminal region of Staphylococcus aureus autolysin, peptidoglycan hydrolase (N-acetylmuramyl-L-alanine amidase) LytA SW:ALYS_STAAU (P24556) (481 aa) fasta scores: E(): 6.3e-08, 29.61% id in 260 aa, and to the full length Staphylococcus aureus prophage phiPV83 lytic enzyme (N-acetylmuramyl-L-alanine amidase) TR:Q9MBN4 (EMBL:AB044554) (251 aa) fasta scores: E(): 1.6e-108, 98.8% id in 251 aa. Possible gene remnant
YP_041412.1	Similar to Staphylococcus aureus prophage phiPV83 holin TR:Q9MBN5 (EMBL:AB044554) (84 aa) fasta scores: E(): 3.8e-32, 98.81% id in 84 aa, and to bacteriophage TP901-1 Hol TR:Q9AZ53 (EMBL:AF304433) (88 aa) fasta scores: E(): 5.9e-11, 43.75% id in 80 aa
YP_041413.1	No significant database matches. Doubtful CDS, poor translational start site
YP_041414.1	Similar to Staphylococcus aureus enterotoxin type A precursor EntA SW:ETXA_STAAU (P13163) (257 aa) fasta scores: E(): 1.7e-98, 98.05% id in 257 aa, and to Staphylococcus aureus enterotoxin type E precursor EntE SW:ETXE_STAAU (P12993) (257 aa) fasta scores: E(): 1.2e-82, 82.87% id in 257 aa
YP_041415.1	Doubtful CDS. No significant database hits
YP_041416.1	Poor database matches. Similar to the C-terminal region of Borrelia hermsii hypothetical protein BdrC1 TR:Q9RG81 (EMBL:AF143476) (238 aa) fasta scores: E(): 3, 24.4% id in 127 aa
YP_041417.1	Identical to bacteriophage phi PVL hypothetical protein Orf 22 TR:O80061 (EMBL:AB009866) (95 aa) fasta scores: E(): 2.6e-31, 100% id in 95 aa. Similar to Staphylococcus aureus prophage phiPV83 phi PVL Orf 22 homologue TR:Q9MBN7 (EMBL:AB044554) (95 aa) fasta scores: E(): 2.1e-28, 91.57% id in 95 aa
YP_041418.1	Identical to Staphylococcus aureus prophage phiPV83 hypothetical protein Orf 55 TR:Q9MBN8 (EMBL:AB044554) (50 aa) fasta scores: E(): 2e-19, 100% id in 50 aa
YP_041419.1	Similar to Staphylococcus aureus prophage phiPV83 phi PVL Orf 20 and 21 homologues TR:Q9MBN9 (EMBL:AB044554) (1261 aa) fasta scores: E(): 0, 97.78% id in 1261 aa. N-terminal region is similar to bacteriophage phi PVL hypothetical protein Orf 20 TR:O80059 (EMBL:AB009866) (759 aa) fasta scores: E(): 0, 99.46% id in 752 aa. C-terminal region is similar to bacteriophage phi PVL hypothetical protein Orf 21 TR:O80060 (EMBL:AB009866) (418 aa) fasta scores: E(): 5.2e-131, 99.76% id in 418 aa. Contains coiled-coiled domain, residues 714 to 735
YP_041420.1	Similar to Staphylococcus aureus prophage phiPV83 phi PVL Orf 18 and 19 homologues TR:Q9MBP0 (EMBL:AB044554) (496 aa) fasta scores: E(): 1.4e-180, 88.91% id in 496 aa. N-terminal region is similar to bacteriophage phi PVL hypothetical protein Orf 18 TR:O80057 (EMBL:AB009866) (119 aa) fasta scores: E(): 3.7e-23, 60.52% id in 114 aa. C-terminal region is similar to bacteriophage phi PVL hypothetical protein Orf 19 TR:O80058 (EMBL:AB009866) (377 aa) fasta scores: E(): 3.7e-152, 99.46% id in 377 aa
YP_041421.1	No significant database matches to the full length CDS. N-terminal region is similar to similar to bacteriophage phi PVL hypothetical protein Orf 15 TR:O80054 (EMBL:AB009866) (694 aa) fasta scores: E(): 5.7e-22, 28.4% id in 704 aa. Internal region is similar to bacteriophage phi PVL hypothetical protein Orf 16 TR:O80055 (EMBL:AB009866) (539 aa) fasta scores: E(): 2.2e-150, 82.97% id in 517 aa. C-terminal region is similar to bacteriophage phi PVL hypothetical protein Orf 17 TR:O80056 (EMBL:AB009866) (223 aa) fasta scores: E(): 2.5e-36, 55.55% id in 225 aa
YP_041422.1	No significant database matches. Possible alternative translational start sites
YP_041423.1	Poor database matches. C-terminus is similar to the C-terminal regions of bacteriophage phi PVL hypothetical protein Orf 14 TR:O80053 (EMBL:AB009866) (148 aa) fasta scores: E(): 2.4, 28.76% id in 73 aa, and to Staphylococcus aureus prophage phiPV83 phi PVL Orf 14 homologue TR:Q9MBP3 (EMBL:AB044554) (148 aa) fasta scores: E(): 1.3, 28.76% id in 73 aa
YP_041424.1	Similar to bacteriophage A118 gp13 TR:Q9T1B0 (EMBL:AJ242593) (110 aa) fasta scores: E(): 0.36, 28.23% id in 85 aa, and to the C-terminal region of bacteriophage phi PVL hypothetical protein Orf 13 TR:O80052 (EMBL:AB009866) (317 aa) fasta scores: E(): 0.00058, 38.09% id in 84 aa
YP_041425.1	Poor database matches. Similar to the N-terminal region of bacteriophage phi PVL hypothetical protein Orf 13 TR:O80052 (EMBL:AB009866) (317 aa) fasta scores: E(): 0.12, 23.83% id in 193 aa
YP_041426.1	Similar to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf131b TR:Q9B0D6 (EMBL:AB045978) (131 aa) fasta scores: E(): 0.015, 28.46% id in 137 aa
YP_041427.1	Similar to bacteriophage phi PVL hypothetical protein Orf 10 TR:O80049 (EMBL:AB009866) (111 aa) fasta scores: E(): 3.8e-06, 30.27% id in 109 aa, and to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf110 TR:Q9B0D8 (EMBL:AB045978) (110 aa) fasta scores: E(): 0.00034, 26% id in 100 aa
YP_041429.1	Similar to Bacillus halodurans hypothetical protein BH3526 TR:Q9K747 (EMBL:AP001519) (80 aa) fasta scores: E(): 0.03, 32.92% id in 82 aa, and to bacteriophage phi ETA hypothetical protein Orf45 TR:Q9G000 (EMBL:AP001553) (108 aa) fasta scores: E(): 0.67, 26.66% id in 105 aa
YP_041431.1	Similar to Streptococcus thermophilus bacteriophage DT1  scaffolding protein TR:Q9XJA0 (EMBL:AF085222) (222 aa) fasta scores: E(): 6.5e-25, 43.33% id in 210 aa, and to Streptococcus thermophilus bacteriophage Sfi21 clp-protease Orf221 TR:Q9XJ78 (EMBL:AF115103) (224 aa) fasta scores: E(): 1.8e-23, 40.48% id in 205 aa
YP_041432.1	Similar to bacteriophage bIL285 portal protein Orf42 TR:Q9AZY7 (EMBL:AF323668) (413 aa) fasta scores: E(): 0.0016, 23.96% id in 388 aa, and to bacteriophage phi-105 hypothetical protein Orf25 TR:Q9ZXF8 (EMBL:AB016282) (416 aa) fasta scores: E(): 0.027, 22.08% id in 403 aa
YP_041433.1	Similar to Staphylococcus aureus temperate phage phiSLT terminase large subunit TR:Q9B0E3 (EMBL:AB045978) (563 aa) fasta scores: E(): 1.7e-27, 27.55% id in 548 aa, and to bacteriophage phi PVL hypothetical protein Orf 2 TR:O80041 (EMBL:AB009866) (564 aa) fasta scores: E(): 4.1e-19, 22.6% id in 553 aa
YP_041436.1	Similar to the C-terminal regions of Streptococcus thermophilus bacteriophage Sfi21 hypothetical protein TR:Q9XJW4 (EMBL:AF112470) (175 aa) fasta scores: E(): 4e-06, 38.37% id in 86 aa, and bacteriophage bIL285 hypothetical protein Orf39 TR:Q9AZZ0 (EMBL:AF323668) (150 aa) fasta scores: E(): 4.7e-06, 42.1% id in 76 aa
YP_041437.1	Similar to bacteriophage r1t hypothetical protein Orf25 TR:Q38111 (EMBL:U38906) (143 aa) fasta scores: E(): 0.0027, 26.35% id in 129 aa, and to Lactococcus bacteriophage phi31 transcriptional activator of phage 31 late promoter TR:O64272 (EMBL:AF022773) (143 aa) fasta scores: E(): 0.0027, 26.35% id in 129 aa
YP_041438.1	Similar to bacteriophage phi PVL hypothetical protein Orf 60 TR:O80098 (EMBL:AB009866) (67 aa) fasta scores: E(): 7.2e-24, 95.52% id in 67 aa, and to Staphylococcus aureus prophage phiPV83 phi PVL orf 60 homologue TR:Q9MBQ6 (EMBL:AB044554) (66 aa) fasta scores: E(): 1.6e-24, 100% id in 66 aa
YP_041439.1	Similar to bacteriophage phi PVL hypothetical protein Orf 57 TR:O80095 (EMBL:AB009866) (54 aa) fasta scores: E(): 3.9e-19, 93.87% id in 49 aa, and to Staphylococcus aureus prophage phiPV83 phi PVL Orf 57 / phi 11 RinB homologue TR:Q9MBQ7 (EMBL:AB044554) (49 aa) fasta scores: E(): 4.4e-19, 95.91% id in 49 aa. Similar to SAR1527, 87.755% identity (89.583% ungapped) in 49 aa overlap
YP_041440.1	Identical to bacteriophage phi ETA hypothetical protein Orf36 TR:Q9G009 (EMBL:AP001553) (128 aa) fasta scores: E(): 4.5e-45, 100% id in 128 aa. Similar to Staphylococcus aureus prophage phiPV83 hypothetical protein Orf31 TR:Q9MBQ8 (EMBL:AB044554) (130 aa) fasta scores: E(): 2.2e-40, 91.33% id in 127 aa
YP_041441.1	Similar to bacteriophage phi ETA hypothetical protein Orf35 TR:Q9G010 (EMBL:AP001553) (68 aa) fasta scores: E(): 2.7e-23, 98.52% id in 68 aa, and to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf77 TR:Q9B0F0 (EMBL:AB045978) (77 aa) fasta scores: E(): 1.4e-12, 95.55% id in 45 aa. Similar to SAR1529, 78.723% identity (78.723% ungapped) in 47 aa overlap
YP_041442.1	Similar to bacteriophage phi PVL dUTP pyrophosphatase (dUTPase) TR:O80091 (EMBL:AB009866) (175 aa) fasta scores: E(): 2.5e-30, 78.26% id in 184 aa, and to Staphylococcus aureus temperate phage phiSLT phi PVL Orf 53 homologue TR:Q9B0F2 (EMBL:AB045978) (175 aa) fasta scores: E(): 1.2e-46, 77.17% id in 184 aa
YP_041444.1	Similar to bacteriophage phi ETA hypothetical protein Orf32 TR:Q9G013 (EMBL:AP001553) (80 aa) fasta scores: E(): 5.8e-25, 95% id in 80 aa, and to bacteriophage phi PVL hypothetical protein Orf 52 TR:O80090 (EMBL:AB009866) (82 aa) fasta scores: E(): 9.7e-23, 85.36% id in 82 aa. Similar to SAR1532, 82.927% identity (82.927% ungapped) in 82 aa overlap
YP_041445.1	Identical to the C-terminal region of bacteriophage phi ETA hypothetical protein Orf29 TR:Q9G016 (EMBL:AP001553) (139 aa) fasta scores: E(): 8.2e-23, 100% id in 56 aa. Possible C-terminal region of a pseudogene
YP_041446.1	Similar to bacteriophage phi PVL hypothetical protein Orf 51 TR:O80089 (EMBL:AB009866) (80 aa) fasta scores: E(): 1.2e-29, 92.5% id in 80 aa. Similar to the N-terminus of bacteriophage phi ETA hypothetical protein Orf29 TR:Q9G016 (EMBL:AP001553) (139 aa) fasta scores: E(): 2e-21, 90.47% id in 63 aa. Possible N-terminal region of a pseudogene. Similar to SAR1536, 82.500% identity (82.500% ungapped) in 80 aa overlap
YP_041447.1	Similar to bacteriophage phi PVL hypothetical protein Orf 50 TR:O80088 (EMBL:AB009866) (122 aa) fasta scores: E(): 5e-41, 97.54% id in 122 aa, and to Staphylococcus aureus temperate phage phiSLT phi PVL Orf 50 homologue TR:Q9B0F5 (EMBL:AB045978) (122 aa) fasta scores: E(): 1.2e-39, 92.62% id in 122 aa
YP_041448.1	Similar to bacteriophage phi PVL hypothetical protein Orf 47 TR:O80086 (EMBL:AB009866) (72 aa) fasta scores: E(): 1.2e-29, 98.61% id in 72 aa
YP_041449.1	Similar to bacteriophage phi PVL single-strand DNA-binding protein TR:O80084 (EMBL:AB009866) (156 aa) fasta scores: E(): 1.9e-55, 96.15% id in 156 aa, and to bacteriophage A118  ssDNA binding protein Ssb TR:Q9T160 (EMBL:AJ242593) (160 aa) fasta scores: E(): 6.2e-31, 56.87% id in 160 aa. Similar to SAR0363, 68.862% identity (73.718% ungapped) in 167 aa overlap
YP_041450.1	Similar to bacteriophage phi PVL hypothetical protein Orf 44 TR:O80083 (EMBL:AB009866) (161 aa) fasta scores: E(): 2.1e-60, 97.51% id in 161 aa
YP_041451.1	Similar to bacteriophage phi PVL hypothetical protein Orf 43 TR:O80082 (EMBL:AB009866) (306 aa) fasta scores: E(): 7.5e-105, 99.67% id in 306 aa, and to Legionella pneumophila hypothetical protein TR:Q9AKZ0 (EMBL:AJ277755) (294 aa) fasta scores: E(): 0.36, 23.85% id in 306 aa
YP_041452.1	Similar to N-terminal region of Thermoplasma volcanium purine NTPase TVG0235331 TR:BAB59370 (EMBL:AP000991) (895 aa) fasta scores: E(): 1.9e-05, 22.72% id in 691 aa. C-terminal region is similar to bacteriophage phi PVL hypothetical protein Orf 41 TR:O80080 (EMBL:AB009866) (332 aa) fasta scores: E(): 2.1e-85, 98.11% id in 318 aa. N-terminal region is similar to bacteriophage phi PVL hypothetical protein Orf 42 TR:O80081 (EMBL:AB009866) (273 aa) fasta scores: E(): 2.2e-69, 98.16% id in 273 aa
YP_041453.1	Similar to bacteriophage phi PVL hypothetical protein Orf 40 TR:O80079 (EMBL:AB009866) (92 aa) fasta scores: E(): 2e-34, 98.91% id in 92 aa
YP_041454.1	Similar to bacteriophage phi PVL hypothetical protein Orf 39 TR:O80078 (EMBL:AB009866) (86 aa) fasta scores: E(): 2.6e-13, 51.16% id in 86 aa, and to bacteriophage phi ETA hypothetical protein Orf15 TR:Q9G030 (EMBL:AP001553) (86 aa) fasta scores: E(): 6.8e-13, 48.83% id in 86 aa
YP_041455.1	Similar to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf100a TR:Q9B0G6 (EMBL:AB045978) (100 aa) fasta scores: E(): 1.9e-17, 52% id in 100 aa
YP_041456.1	No significant database matches. Doubtful CDS, poor translational start site
YP_041457.1	Similar to bacteriophage phi ETA hypothetical protein Orf14 TR:Q9G031 (EMBL:AP001553) (53 aa) fasta scores: E(): 2.2e-18, 94.34% id in 53 aa, and to bacteriophage phi PVL hypothetical protein Orf 38 TR:O80077 (EMBL:AB009866) (53 aa) fasta scores: E(): 7.7e-18, 92.45% id in 53 aa. Similar to SAR1546, 92.453% identity (92.453% ungapped) in 53 aa overlap
YP_041458.1	Similar to Lactococcus lactis prophage pi1 protein 09 TR:Q9CIC0 (EMBL:AE006281) (109 aa) fasta scores: E(): 0.003, 32.99% id in 97 aa, and to bacteriophage bIL309 hypothetical protein Orf9 TR:Q9AZQ3 (EMBL:AF323670) (109 aa) fasta scores: E(): 0.003, 32.99% id in 97 aa
YP_041459.1	Poor database matches. C-terminus is similar to the C-terminal region of bacteriophage phi ETA hypothetical protein Orf12 TR:Q9G033 (EMBL:AP001553) (221 aa) fasta scores: E(): 0.014, 25% id in 124 aa
YP_041460.1	Similar to Staphylococcus aureus prophage phiPV83 hypothetical protein Orf 8 TR:Q9MBT1 (EMBL:AB044554) (46 aa) fasta scores: E(): 3.2e-16, 95.65% id in 46 aa
YP_041461.1	Similar to bacteriophage phi PVL hypothetical protein Orf 35 TR:O80075 (EMBL:AB009866) (65 aa) fasta scores: E(): 8.1e-25, 95.38% id in 65 aa. Similar to SAR1552, 67.692% identity (67.692% ungapped) in 65 aa overlap
YP_041462.1	Similar to bacteriophage phi PVL anti repressor TR:O80074 (EMBL:AB009866) (249 aa) fasta scores: E(): 1.3e-70, 80.95% id in 252 aa, and to bacteriophage phi ETA hypothetical protein Orf11 TR:Q9G034 (EMBL:AP001553) (250 aa) fasta scores: E(): 1.6e-80, 89.6% id in 250 aa
YP_041463.1	Similar to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf121 TR:Q9B0H0 (EMBL:AB045978) (121 aa) fasta scores: E(): 0.0053, 24.07% id in 108 aa
YP_041464.1	Poor database matches. Similar to N-terminal region of Schizosaccharomyces pombe 60S ribosomal protein L43 RPL43 SW:RL43_SCHPO (O94686) (94 aa) fasta scores: E(): 5.5, 37.5% id in 56 aa
YP_041465.1	Similar to bacteriophage A118  repressor protein TR:Q9T188 (EMBL:AJ242593) (101 aa) fasta scores: E(): 0.096, 37.87% id in 66 aa, and to Pyrococcus abyssi repressor protein PAB7155 TR:Q9V101 (EMBL:AJ248284) (73 aa) fasta scores: E(): 0.047, 39.06% id in 64 aa
YP_041466.1	Similar to bacteriophage phi ETA bacteriophage phi ETA repressor TR:Q9G039 (EMBL:AP001553) (238 aa) fasta scores: E(): 6.1e-57, 72.29% id in 231 aa, and to Staphylococcus aureus prophage phiPV83 repressor TR:Q9MBT4 (EMBL:AB044554) (236 aa) fasta scores: E(): 1.2e-42, 55.17% id in 232 aa
YP_041467.1	Similar to Caulobacter crescentus exonuclease CC1523 TR:Q9A841 (EMBL:AE005827) (202 aa) fasta scores: E(): 1.6e-13, 30.57% id in 193 aa, and to Chlamydia pneumoniae DNA polymerase III epsilon chain CP0344 TR:Q9Z8D3 (EMBL:AE001624) (237 aa) fasta scores: E(): 1.2e-05, 25.5% id in 200 aa
YP_041470.1	Poor database matches. Similar to Staphylococcus aureus temperate phage phiSLT hypothetical protein Orf144 TR:Q9B0H6 (EMBL:AB045978) (144 aa) fasta scores: E(): 0.0021, 31.61% id in 136 aa
YP_041471.1	Similar to Staphylococcus aureus bacteriophage phi-42 integrase Int TR:Q38086 (EMBL:U01872) (345 aa) fasta scores: E(): 2.3e-125, 99.13% id in 345 aa, and to bacteriophage phi-13 integrase Int TR:Q38460 (EMBL:X82312) (345 aa) fasta scores: E(): 9.1e-125, 98.55% id in 345 aa
YP_041472.1	Similar to Staphylococcus aureus leukocidin F subunit precursor LukF SW:LUKF_STAAU (P31715) (323 aa) fasta scores: E(): 2.5e-34, 40.97% id in 327 aa, and to Staphylococcus aureus prophage phiPV83 leukocidin F precursor LukF-PV TR:Q9MBN2 (EMBL:AB044554) (322 aa) fasta scores: E(): 4.2e-40, 39.45% id in 327 aa
YP_041473.1	Similar to Staphylococcus aureus leukocidin S subunit precursor LukS SW:LUKS_STAAU (P31716) (315 aa) fasta scores: E(): 1.8e-25, 33.44% id in 290 aa, and to bacteriophage phi PVL leukocidin S component LukS-PV TR:O80066 (EMBL:AB009866) (312 aa) fasta scores: E(): 6.1e-27, 34.64% id in 280 aa
YP_041474.1	dapE-encoded N-succinyl-L,L-diaminopimelic acid desuccinylase (DapE), catalyzes the hydrolysis of N-succinyl-L,Ldiaminopimelate L,L-SDAP to L,L-diaminopimelate and succinate. It is a metalloprotease containing dinuclear active sites. Its structure is similar to the carboxypeptidase G2 from Pseudomonas sp. strain RS-16 and the aminopeptidase from Aeromonas proteolytica.
YP_041475.1	Similar to Bacillus subtilis YubG TR:O32081 (EMBL:Z99119) (445 aa) fasta scores: E(): 1.1e-58, 43.02% id in 423 aa, and to Aquifex aeolicus K+ transport protein homologue AQ_1504 TR:O67474 (EMBL:AE000743) (443 aa) fasta scores: E(): 3.4e-54, 38.82% id in 443 aa
YP_041476.1	Doubtful CDS, poor translational start site. No significant database matches
YP_041477.1	Doubtful CDS, poor translational start site. No significant database matches
YP_041478.1	Poor database matches. Similar to the N-terminal region of Mycoplasma capricolum DNA repair protein RecM TR:Q49026 (EMBL:Z33128) (107 aa) fasta scores: E(): 9.9, 30.18% id in 53 aa
YP_041479.1	60 kDa chaperone family; promotes refolding of misfolded polypeptides especially under stressful conditions; forms two stacked rings of heptamers to form a barrel-shaped 14mer; ends can be capped by GroES; misfolded proteins enter the barrel where they are refolded when GroES binds; many bacteria have multiple copies of the groEL gene which are active under different environmental conditions; the B.japonicum protein in this cluster is expressed constitutively; in Rhodobacter, Corynebacterium and Rhizobium this protein is essential for growth
YP_041480.1	10 kDa chaperonin; Cpn10; GroES; forms homoheptameric ring; binds to one or both ends of the GroEL double barrel in the presence of adenine nucleotides capping it; folding of unfolded substrates initiates in a GroEL-substrate bound and capped by GroES; release of the folded substrate is dependent on ATP binding and hydrolysis in the trans ring
YP_041481.1	Similar to Bacillus subtilis hypothetical protein YdiL TR:O05525 (EMBL:D88802) (244 aa) fasta scores: E(): 2.4e-18, 33.33% id in 240 aa, and to Bacillus halodurans hypothetical protein BH0560 TR:Q9KFC4 (EMBL:AP001508) (237 aa) fasta scores: E(): 1.8e-16, 32.74% id in 226 aa
YP_041482.1	Poor database matches. Similar to Staphylococcus epidermidis cell-surface-associated protein SdrH TR:Q9KI12 (EMBL:AF245043) (487 aa) fasta scores: E(): 1.1e-20, 32.51% id in 366 aa. Contains a proline rich region, residues 106 to 182
YP_041483.1	Similar to Neisseria meningitidis (serogroup A) hypothetical protein NMA2195 TR:Q9JQW5 (EMBL:AL162758) (201 aa) fasta scores: E(): 1.6e-34, 49.74% id in 195 aa, and to Pseudomonas aeruginosa hypothetical protein PA2575 TR:Q9I0R1 (EMBL:AE004686) (200 aa) fasta scores: E(): 4.4e-32, 46.9% id in 194 aa
YP_041484.1	Previously sequenced as Staphylococcus aureus hypothetical protein in agr operon SW:YAG5_STAAU (P55177) (261 aa) fasta scores: E(): 3.9e-101, 98.85% id in 261 aa. Similar to Staphylococcus epidermidis hypothetical protein TR:O68163 (EMBL:AF012132) (264 aa) fasta scores: E(): 3.5e-61, 61.3% id in 261 aa
YP_041485.1	Lyses erythrocytes and other mammalian cells
YP_041486.1	Signal generating component of the agr autoinducer peptide-quorum sensing system. Similar to Staphylococcus aureus probable autoinducer processing protein, accessory gene regulator protein B, AgrB SW:AGRB_STAAU (P21545) (189 aa) fasta scores: E(): 8.9e-56, 77.54% id in 187 aa, and to Staphylococcus epidermidis accessory gene regulator protein AgrB TR:O86859 (EMBL:Z49220) (194 aa) fasta scores: E(): 9.9e-36, 51.87% id in 187 aa
YP_041487.1	Signal generating component of the agr autoinducer peptide-quorum sensing system. Similar to Staphylococcus aureus group III autoinducer peptide precursor AgrD TR:O33589 (EMBL:AF001783) (46 aa) fasta scores: E(): 6.7e-19, 100% id in 46 aa. Similar to Staphylococcus aureus group IV autoinducer peptide precursor AgrD TR:Q9L561 (EMBL:AF255950) (46 aa) fasta scores: E(): 1.7e-06, 47.82% id in 46 aa
YP_041488.1	Signal dectecting component of the agr autoinducer peptide-quorum sensing system. Two-component regulatory system family, sensor kinase. Similar to Staphylococcus aureus accessory gene regulator C AgrC TR:Q53644 (EMBL:X52543) (423 aa) fasta scores: E(): 1.7e-101, 75.23% id in 424 aa, and to Staphylococcus epidermidis histidine kinase AgrC TR:O68159 (EMBL:AF012132) (429 aa) fasta scores: E(): 6.3e-76, 54.93% id in 426 aa
YP_041489.1	Signal dectecting component of the agr autoinducer peptide-quorum sensing system. Two-component regulatory system family, response regulator protein. Identical to Staphylococcus aureus accessory gene regulator protein A AgrA SW:AGRA_STAAU (P13131) (238 aa) fasta scores: E(): 2.5e-94, 100% id in 238 aa. Similar to Staphylococcus epidermidis response regulator AgrA TR:O68158 (EMBL:AF012132) (238 aa) fasta scores: E(): 2.2e-84, 87.39% id in 238 aa
YP_041490.1	Similar to Lycopersicon esculentum fructokinase FRK2 TR:Q42896 (EMBL:U62329) (328 aa) fasta scores: E(): 2.5e-39, 39.49% id in 314 aa, and to Beta vulgaris fructokinase TR:Q42645 (EMBL:U37838) (331 aa) fasta scores: E(): 3.3e-39, 40.38% id in 312 aa
YP_041491.1	Similar to Staphylococcus xylosus sucrose-6-phosphate hydrolase ScrB SW:SCRB_STAXY (Q05936) (494 aa) fasta scores: E(): 9e-151, 70.12% id in 492 aa, and to Vibrio alginolyticus sucrose-6-phosphate hydrolase ScrB SW:SCRB_VIBAL (P13394) (484 aa) fasta scores: E(): 1.8e-65, 39.87% id in 469 aa
YP_041492.1	Similar to Staphylococcus xylosus sucrose operon repressor ScrR SW:SCRR_STAXY (P74892) (320 aa) fasta scores: E(): 1.6e-67, 59.23% id in 314 aa, and to Bacillus halodurans transcriptional regulator BH1855 TR:Q9KBS0 (EMBL:AP001513) (326 aa) fasta scores: E(): 1.2e-38, 37.1% id in 318 aa
YP_041493.1	Similar to Bacillus subtilis probable ammonium transporter NrgA SW:NRGA_BACSU (Q07429) (404 aa) fasta scores: E(): 2.8e-79, 51.49% id in 402 aa, and to Lactococcus lactis ammonium transporter AmtB TR:Q9CF89 (EMBL:AE006389) (413 aa) fasta scores: E(): 7.4e-60, 42.01% id in 407 aa
YP_041494.1	Similar to Escherichia coli hypothetical protein YeeD SW:YEED_ECOLI (P33014) (75 aa) fasta scores: E(): 3.3e-17, 63.01% id in 73 aa, and to Escherichia coli, hypothetical protein YedF SW:YEDF_ECOLI (P31065) (77 aa) fasta scores: E(): 0.00059, 32.39% id in 71 aa
YP_041495.1	Similar to Escherichia coli hypothetical protein YeeE SW:YEEE_ECOLI (P33015) (352 aa) fasta scores: E(): 1.2e-78, 58.62% id in 348 aa, and to Thermotoga maritima conserved hypothetical protein YM0982 TR:Q9X077 (EMBL:AE001760) (332 aa) fasta scores: E(): 3.3e-28, 35.65% id in 345 aa
YP_041496.1	modulates transcription in response to the NADH/NAD(+) redox state
YP_041497.1	Similar to Bacillus subtilis hypothetical ABC transporter ATP-binding protein YdiF SW:YDIF_BACSU (O05519) (642 aa) fasta scores: E(): 4.3e-84, 48.36% id in 641 aa, and to Bacillus halodurans ABC transporter BH0550 TR:Q9KFD1 (EMBL:AP001508) (642 aa) fasta scores: E(): 1.3e-80, 45.25% id in 643 aa
YP_041498.1	No significant database matches to the full length CDS. C-terminal region is similar to internal regions of Thermus aquaticus DNA mismatch repair protein MutS SW:MUTS_THEAQ (Q56215) (811 aa) fasta scores: E(): 6.8e-13, 25.96% id in 312 aa, and Streptococcus pyogenes DNA mismatch repair protein SPY2148 TR:Q99XL8 (EMBL:AE006633) (851 aa) fasta scores: E(): 1e-14, 28.83% id in 274 aa
YP_041499.1	in most organisms, only the N-terminal domain is present in a single polypeptide; in some archaea this domain is fused to a kinase domain; this gene is essential for growth in Escherichia coli and Bacillus subtilis; the secreted glycoprotease from Pasteurella haemolytica showed specificity for O-sialoglycosylated proteins; the Pyrococcus structure shows DNA-binding properties, iron-binding, ATP-binding, and AP endonuclease activity
YP_041500.1	Similar to Escherichia coli ribosomal-protein-alanine acetyltransferase RimI SW:RIMI_ECOLI (P09453) (148 aa) fasta scores: E(): 2e-07, 29.86% id in 144 aa, and to Bacillus subtilis hypothetical protein YdiD TR:O05517 (EMBL:D88802) (151 aa) fasta scores: E(): 6.2e-24, 45.69% id in 151 aa
YP_041501.1	Similar to Bacillus subtilis hypothetical protein YdiC TR:O05516 (EMBL:D88802) (229 aa) fasta scores: E(): 2.6e-25, 43.91% id in 230 aa, and to Enterococcus faecalis hypothetical protein YdiC TR:O86212 (EMBL:Y17797) (204 aa) fasta scores: E(): 1.2e-23, 44.11% id in 204 aa. Possible alternative translational start site
YP_041502.1	Similar to Bacillus halodurans hypothetical protein BH0545 TR:Q9KFD6 (EMBL:AP001508) (157 aa) fasta scores: E(): 7.7e-21, 47.82% id in 138 aa, and to Bacillus subtilis hypothetical protein YdiB SW:YDIB_BACSU (O05515) (158 aa) fasta scores: E(): 2.6e-18, 43.26% id in 141 aa
YP_041503.1	catalyzes the dehydration of 2,3-dihydroxy-3-methylbutanoate to 3-methyl-2-oxobutanoate in valine and isoleucine biosynthesis
YP_041504.1	Similar to Lactococcus lactis acetolactate synthase large subunit IlvB SW:ILVB_LACLA (Q02137) (575 aa) fasta scores: E(): 5e-115, 53.95% id in 556 aa, and to Bacillus subtilis acetolactate synthase large subunit IlvB SW:ILVB_BACSU (P37251) (573 aa) fasta scores: E(): 1.5e-119, 54.15% id in 554 aa
YP_041505.1	catalyzes the formation of (R)-2,3-dihydroxy-3-methylbutanoate from (S)-2-hydroxy-2-methyl-3-oxobutanoate in valine and isoleucine biosynthesis
YP_041506.1	catalyzes the formation of 2-isopropylmalate from acetyl-CoA and 2-oxoisovalerate in leucine biosynthesis
YP_041507.1	catalyzes the oxidation of 3-isopropylmalate to 3-carboxy-4-methyl-2-oxopentanoate in leucine biosynthesis
YP_041508.1	dehydratase component, catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate
YP_041509.1	catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate in leucine biosynthesis; forms a heterodimer of LeuC/D
YP_041510.1	catalyzes the formation of 2-oxobutanoate from L-threonine; biosynthetic
YP_041512.1	Similar to Bacillus halodurans hypothetical protein BH0532 TR:Q9JWQ2 (EMBL:AP001508) (151 aa) fasta scores: E(): 3.5e-30, 53.06% id in 147 aa, and to Bacillus subtilis hypothetical protein YdcK TR:P96628 (EMBL:AB001488) (150 aa) fasta scores: E(): 2.1e-29, 50% id in 146 aa
YP_041513.1	Similar to Bacillus halodurans hypotetical protein BH0531 TR:Q9KFE8 (EMBL:AP001508) (728 aa) fasta scores: E(): 8.4e-135, 55.29% id in 718 aa, and to Lactococcus lactis hypotetical protein YciC TR:Q9CIS1 (EMBL:AE006266) (712 aa) fasta scores: E(): 2.4e-123, 51.87% id in 719 aa
YP_041514.1	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; sigma B is not essential for sporulation; rather it is required for maximal expression of ctc and csbA which are transcribed in the early stationary phase under conditions inimical to sporulation; induced by heat shock, salt stress, oxidative stress, glucose limitation, oxygen limitation and entry into stationary phase
YP_041515.1	binds to sigma-B preventing the formation of an RNA polymerase holoenzyme
YP_041516.1	Similar to Bacillus subtilis anti-sigma B factor antagonist RsbV SW:RSBV_BACSU (P17903) (109 aa) fasta scores: E(): 4.7e-14, 42.45% id in 106 aa. Previously sequenced as Staphylococcus aureus anti-sigma B factor antagonist RsbV SW:RSBV_STAAU (P95842) (108 aa) fasta scores: E(): 2.1e-39, 99.07% id in 108 aa
YP_041517.1	Similar to Bacillus subtilis sigma factor SigB regulation protein, required for full glucose induction of sigma B-dependent genes, RsbU SW:RSBU_BACSU (P40399) (335 aa) fasta scores: E(): 1.5e-41, 38.85% id in 332 aa, and to Bacillus halodurans indirect positive regulator of sigma-B activity BH0526 TR:Q9KFF3 (EMBL:AP001508) (337 aa) fasta scores: E(): 5.1e-45, 39.58% id in 336 aa
YP_041518.1	Similar to Escherichia coli protein responsible for the stable inheritance of plasmids during cell division, PemK SW:PEMK_ECOLI (P13976) (133 aa) fasta scores: E(): 0.019, 28.43% id in 102 aa, and to Staphylococcus epidermidis hypothetical protein TR:Q9F7V5 (EMBL:AF274004) (120 aa) fasta scores: E(): 3.3e-35, 90% id in 120 aa
YP_041519.1	Similar to the C-terminal regions of Lactobacillus reuteri hypothetical protein TR:Q9FCV1 (EMBL:AJ278312) (82 aa) fasta scores: E(): 4.5, 33.84% id in 65 aa, and Bacillus subtilis hypothetical protein YdcD TR:P96621 (EMBL:AB001488) (93 aa) fasta scores: E(): 2.1, 40% id in 35 aa
YP_041520.1	Similar to Bacillus stearothermophilus alanine racemase Alr SW:ALR_BACST (P10724) (388 aa) fasta scores: E(): 4.4e-53, 43.66% id in 371 aa. Previously sequenced as Staphylococcus aureus alanine racemase Alr SW:ALR_STAAU (Q9ZAH5) (382 aa) fasta scores: E(): 1e-147, 99.47% id in 382 aa
YP_041521.1	Catalyzes the formation of holo-ACP, which mediates the essential transfer of acyl fatty acid intermediates during the biosynthesis of fatty acids and lipids
YP_041522.1	Similar to Bacillus subtilis hypothetical protein YdbS TR:P96615 (EMBL:AB001488) (159 aa) fasta scores: E(): 1.2e-08, 30.98% id in 142 aa, and to Bacillus halodurans hypothetical protein BH1720 TR:Q9KC54 (EMBL:AP001512) (159 aa) fasta scores: E(): 3.6e-05, 25% id in 148 aa
YP_041523.1	Similar to Bacillus subtilis hypothetical protein YdbT TR:P96616 (EMBL:AB001488) (493 aa) fasta scores: E(): 7.6e-12, 22.64% id in 530 aa, and to Bacillus halodurans hypothetical protein BH1721 TR:Q9KC53 (EMBL:AP001512) (496 aa) fasta scores: E(): 2e-08, 21.46% id in 531 aa
YP_041524.1	Similar to Bacillus halodurans Bhypothetical protein H1720 TR:Q9KC54 (EMBL:AP001512) (159 aa) fasta scores: E(): 0.14, 23.3% id in 133 aa, and to Bacillus subtilis hypothetical protein YdbS TR:P96615 (EMBL:AB001488) (159 aa) fasta scores: E(): 0.3, 20.98% id in 162 aa
YP_041525.1	one of the components of the high-affinity ATP-driven potassium transport (or KDP)system, which catalyzes the hydrolysis of ATP coupled with the exchange of hydrogen and potassium ions; the C subunit may be involved in assembly of the KDP complex
YP_041526.1	One of the components of the high-affinity ATP-driven potassium transport (or KDP) system, which catalyzes the hydrolysis of ATP coupled with the exchange of hydrogen and potassium ions
YP_041527.1	catalyzes the hydrolysis of ATP coupled with the exchange of hydrogen and potassium ions
YP_041528.1	Two-component regulatory system family, sensor kinase. Similar to Escherichia coli sensor for high-affinity potassium transport system KdpD SW:KDPD_ECOLI (P21865) (894 aa) fasta scores: E(): 4.1e-61, 26.59% id in 876 aa, and to Rhizobium loti two-component sensor MLL3127 TR:BAB50088 (EMBL:AP003001) (907 aa) fasta scores: E(): 2.4e-67, 27.54% id in 875 aa
YP_041529.1	Two-component regulatory system family, response regulator protein. Similar to Escherichia coli kdp operon transcriptional regulatory protein KdpE SW:KDPE_ECOLI (P21866) (225 aa) fasta scores: E(): 5.9e-26, 40.26% id in 226 aa, and to Clostridium acetobutylicum CAC3677 TR:P94609 (EMBL:U39673) (232 aa) fasta scores: E(): 1.1e-26, 39.11% id in 225 aa
YP_041530.1	Similar to the N-terminal region of Escherichia coli cold-shock DEAD-box protein A CsdA SW:DEAD_ECOLI (P23304) (628 aa) fasta scores: E(): 1.2e-55, 40.8% id in 473 aa, and to Bacillus subtilis  ATP-dependent RNA helicase YdbR TR:P96614 (EMBL:AB001488) (511 aa) fasta scores: E(): 3.3e-79, 47.35% id in 492 aa
YP_041531.1	Similar to Escherichia coli UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diaminopimelate --D-alanyl-D- alanyl ligase MurF SW:MURF_ECOLI (P11880) (452 aa) fasta scores: E(): 4.4e-38, 32.23% id in 456 aa, and to Bacillus subtilis UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diaminopimelate --D-alanyl-D- alanyl ligase MurF SW:MURF_BACSU (P96613) (457 aa) fasta scores: E(): 1e-68, 45.51% id in 457 aa
YP_041532.1	D-alanine--D-alanine ligase; DdlA; DdlB; cytoplasmic; catalyzes the formation of D-alanyl-D-alanine from two D-alanines in peptidoglycan synthesis; there are two forms of this enzyme in Escherichia coli
YP_041533.1	Similar to Escherichia coli rod shape-determining protein RodA SW:RODA_ECOLI (P15035) (370 aa) fasta scores: E(): 4.6e-25, 33.59% id in 387 aa, and to Bacillus subtilis hypothetical protein YwcF SW:YWCF_BACSU (P39604) (393 aa) fasta scores: E(): 9e-46, 37.78% id in 397 aa
YP_041535.1	Similar to Helicobacter felis  divalent cation binding protein CopP SW:COPP_HELFE (O32620) (66 aa) fasta scores: E(): 1, 24.59% id in 61 aa, and to Bacillus halodurans mercuric transporter BH0556 TR:Q9KFC8 (EMBL:AP001508) (67 aa) fasta scores: E(): 0.17, 26.15% id in 65 aa
YP_041536.1	Similar to Bacillus firmus cardiolipin synthetase Cls SW:CLS_BACFI (O66043) (503 aa) fasta scores: E(): 3.7e-71, 42.77% id in 498 aa, and to Bacillus subtilis probable cardiolipin synthetase 2 YwnE SW:CLS2_BACSU (P71040) (482 aa) fasta scores: E(): 3.9e-108, 58% id in 481 aa
YP_041537.1	Similar to Bacillus halodurans hypothetical protein BH2835 TR:Q9K916 (EMBL:AP001516) (215 aa) fasta scores: E(): 8.6e-28, 37.5% id in 216 aa, and to Lactococcus lactis hypothetical protein YagB TR:Q9CJD2 (EMBL:AE006245) (216 aa) fasta scores: E(): 5.7e-20, 36.09% id in 205 aa
YP_041538.1	Similar to Bacillus subtilis stage III sporulation protein J precursor SpoIIIJ SW:SP3J_BACSU (Q01625) (261 aa) fasta scores: E(): 3.6e-15, 34.12% id in 252 aa, and to Bacillus halodurans stage III sporulation protein J BH1169 TR:Q9KDP2 (EMBL:AP001511) (280 aa) fasta scores: E(): 1.6e-26, 36.33% id in 289 aa
YP_041539.1	Condenses 4-methyl-5-(beta-hydroxyethyl)-thiazole monophosphate and 4-amino-5-hydroxymethyl pyrimidine pyrophosphate to form thiamine monophosphate
YP_041540.1	catalyzes the formation of 4-methyl-5-(2-phosphoethyl)-thiazole and ADP from 4-methyl-5-(2-hydroxyethyl)-thiazole and ATP
YP_041541.1	catalyzes the formation of 4-amino-2-methyl-5-diphosphomethylpyrimidine
YP_041542.1	Similar to Bacillus subtilis transcriptional activator of extracellular enzyme genes TenA SW:TENA_BACSU (P25052) (236 aa) fasta scores: E(): 3.9e-07, 23.11% id in 225 aa, and to Staphylococcus carnosus possible transcriptional activator TenA TR:O54496 (EMBL:AF109218) (228 aa) fasta scores: E(): 3.2e-51, 55.75% id in 226 aa
YP_041543.1	Doubtful CDS. No database matches
YP_041544.1	Similar to Staphylococcus carnosus hypothetical protein SceD TR:O54493 (EMBL:AF109218) (232 aa) fasta scores: E(): 2.4e-32, 50.82% id in 242 aa, and to Staphylococcus aureus immunodominant antigen A protein IsaA TR:Q9LAB6 (EMBL:AF144681) (233 aa) fasta scores: E(): 7.3e-13, 34.41% id in 247 aa
YP_041545.1	Similar to Staphylococcus aureus prophage phiPV83 single strand DNA binding protein TR:Q9MBS1 (EMBL:AB044554) (142 aa) fasta scores: E(): 5.1e-13, 38.73% id in 111 aa, and to Staphylococcus carnosus single-strand binding protein Ssb TR:O54492 (EMBL:AF109218) (145 aa) fasta scores: E(): 1.6e-22, 54.41% id in 136 aa
YP_041546.1	Similar to Staphylococcus carnosus hypothetical protein TR:O54491 (EMBL:AF109218) (149 aa) fasta scores: E(): 2.4e-39, 71.81% id in 149 aa, and to Bacillus subtilis hypothetical protein YwpF TR:P94588 (EMBL:Z83337) (136 aa) fasta scores: E(): 8.1e-11, 32.35% id in 136 aa
YP_041547.1	in Pseudomonas aeruginosa this enzyme is a trimer of dimers; essential for membrane formation; performs third step of type II fatty acid biosynthesis; catalyzes dehydration of (3R)-hydroxyacyl-ACP to trans-2-acyl-ACP
YP_041548.1	adds enolpyruvyl to UDP-N-acetylglucosamine as a component of cell wall formation; gram-positive bacteria have 2 copies of MurA which are active
YP_041549.1	Similar to Bacillus subtilis hypothetical protein YwzB TR:O32278 (EMBL:Z99122) (76 aa) fasta scores: E(): 2.7e-11, 44% id in 75 aa, and to Bacillus halodurans hypothetical protein BH3751 TR:Q9K6H8 (EMBL:AP001519) (77 aa) fasta scores: E(): 2.5e-08, 40% id in 75 aa
YP_041550.1	part of catalytic core of ATP synthase; alpha(3)beta(3)gamma(1)delta(1)epsilon(1); involved in producing ATP from ADP in the presence of the proton motive force across the membrane
YP_041551.1	Produces ATP from ADP in the presence of a proton gradient across the membrane. The beta chain is a regulatory subunit
YP_041552.1	Produces ATP from ADP in the presence of a proton gradient across the membrane. The gamma chain is a regulatory subunit
YP_041553.1	produces ATP from ADP in the presence of a proton gradient across the membrane; the alpha chain is a catalytic subunit
YP_041554.1	Produces ATP from ADP in the presence of a proton gradient across the membrane; the delta subunit is part of the catalytic core of the ATP synthase complex
YP_041555.1	produces ATP from ADP in the presence of a proton gradient across the membrane; subunit B is part of the membrane proton channel
YP_041556.1	Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit C is part of the membrane proton channel F0
YP_041557.1	Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit A is part of the membrane proton channel F0
YP_041558.1	Similar to Bacillus subtilis ATP synthase I AtpI SW:ATPZ_BACSU (P37816) (127 aa) fasta scores: E(): 0.047, 24.34% id in 115 aa, and to Bacillus megaterium ATP synthase I AtpI SW:ATPZ_BACME (P20598) (123 aa) fasta scores: E(): 0.0046, 29.91% id in 117 aa
YP_041559.1	Similar to Staphylococcus aureus UDP-GlcNAc 2-epimerase MnaA TR:Q9REV4 (EMBL:AF209197) (375 aa) fasta scores: E(): 2.9e-135, 96.53% id in 375 aa, and to Bacillus subtilis  UDP-N-acetylglucosamine 2-epimerase YvyH SW:YVYH_BACSU (P39131) (380 aa) fasta scores: E(): 2.5e-87, 61.39% id in 373 aa
YP_041560.1	Catalyzes the formation of uracil and 5-phospho-alpha-D-ribosy 1-diphosphate from UMP and diphosphate
YP_041561.1	catalyzes the reaction of glycine with 5,10-methylenetetrahydrofolate to form L-serine and tetrahydrofolate
YP_041562.1	Similar to Bacillus subtilis hypothetical protein YwlG SW:YWLG_BACSU (P39157) (180 aa) fasta scores: E(): 6.3e-28, 47.61% id in 168 aa, and to Bacillus halodurans hypothetical protein BH3766 TR:Q9K6G3 (EMBL:AP001519) (188 aa) fasta scores: E(): 1.4e-27, 47.39% id in 173 aa
YP_041563.1	Similar to Bacillus subtilis  low molecular weight protein-tyrosine-phosphatase YwlE SW:YWLE_BACSU (P39155) (150 aa) fasta scores: E(): 2.1e-15, 39.71% id in 141 aa, and to Bacillus halodurans protein-tyrosine-phosphatase BH3769 TR:Q9K6G0 (EMBL:AP001519) (161 aa) fasta scores: E(): 6.2e-09, 34.5% id in 142 aa
YP_041564.1	Similar to Bacillus subtilis hypothetical protein YwlC SW:YWLC_BACSU (P39153) (346 aa) fasta scores: E(): 2.5e-44, 40.22% id in 348 aa, and to Bacillus halodurans hypothetical protein BH3771 TR:Q9K6F8 (EMBL:AP001519) (348 aa) fasta scores: E(): 1.2e-43, 43.93% id in 330 aa
YP_041565.1	Similar to Escherichia coli heme biosynthesis protein HemK SW:HEMK_ECOLI (P37186) (277 aa) fasta scores: E(): 3.5e-19, 32.36% id in 275 aa, and to Bacillus subtilis HemK protein homologue SW:HEMK_BACSU (P45873) (288 aa) fasta scores: E(): 1.7e-34, 40.36% id in 275 aa
YP_041566.1	recognizes the termination signals UAG and UAA during protein translation a specificity which is dependent on amino acid residues residing in loops of the L-shaped tRNA-like molecule of RF1; this protein is similar to release factor 2
YP_041567.1	catalyzes the formation of thymidine 5'-phosphate from thymidine
YP_041568.1	RpmE2; there appears to be two types of ribosomal proteins L31 in bacterial genomes; some contain a CxxC motif while others do not; Bacillus subtilis has both types; the proteins in this cluster do not have the CXXC motif; RpmE is found in exponentially growing Bacilli while YtiA was found after exponential growth; expression of ytiA is controlled by a zinc-specific transcriptional repressor; RpmE contains one zinc ion and a CxxC motif is responsible for this binding; forms an RNP particle along with proteins L5, L18, and L25 and 5S rRNA; found crosslinked to L2 and L25 and EF-G; may be near the peptidyltransferase site of the 50S ribosome
YP_041569.1	An RNA-DNA helicase that actively releases nascent mRNAs from paused transcription complexes
YP_041570.1	Similar to Bacillus subtilis betaine aldehyde dehydrogenase GbsA SW:DHAB_BACSU (P71016) (490 aa) fasta scores: E(): 1.2e-59, 40.33% id in 476 aa, and to Caulobacter crescentus aldehyde dehydrogenase CC0419 TR:Q9AB15 (EMBL:AE005714) (479 aa) fasta scores: E(): 2.4e-87, 50.94% id in 475 aa
YP_041571.1	Similar to Bacillus subtilis hypothetical protein YodB SW:YODB_BACSU (O34844) (112 aa) fasta scores: E(): 1.5e-12, 38.46% id in 104 aa, and to Bacillus halodurans hypothetical protein BH3303 TR:Q9RC48 (EMBL:AB024562) (107 aa) fasta scores: E(): 2.2e-08, 36.53% id in 104 aa
YP_041572.1	adds enolpyruvyl to UDP-N-acetylglucosamine as a component of cell wall formation; gram-positive bacteria have 2 copies of MurA which are active
YP_041573.1	catalyzes the formation of glycerone phosphate and glyceraldehyde 3-phosphate from fructose 1,6, bisphosphate; induced by anaerobic conditions in Bacillus subtilis
YP_041574.1	Similar to Bacillus halodurans hypothetical protein BH3788 TR:Q9K6E1 (EMBL:AP001520) (178 aa) fasta scores: E(): 7.4e-06, 25.69% id in 179 aa, and to Bacillus subtilis hypothetical protein YwjG SW:YWJG_BACSU (P06629) (173 aa) fasta scores: E(): 5e-05, 29.54% id in 176 aa
YP_041575.1	CTP synthase; CTP synthase; cytidine triphosphate synthetase; catalyzes the ATP-dependent amination of UTP to CTP with either L-glutamine or ammonia as the source of nitrogen; in Escherichia coli this enzyme forms a homotetramer
YP_041576.1	participates in both the initiation and recycling phases of transcription; in the presence of the delta subunit, RNAP displays an increased specificity of transcription, a decreased affinity for nucleic acids, and an increased efficiency of RNA synthesis because of enhanced recycling
YP_041577.1	Similar to Bacillus subtilis spermine/spermidine acetyltransferase BltD SW:BLTD_BACSU (P39909) (152 aa) fasta scores: E(): 0.0005, 27.4% id in 135 aa, and to Bacillus halodurans hypothetical protein BH3804 TR:Q9K6C5 (EMBL:AP001520) (167 aa) fasta scores: E(): 1.4e-15, 39.1% id in 156 aa
YP_041578.1	catalyzes the formation of (R)-4'-phosphopantothenate from (R)-pantothenate in coenzyme A biosynthesis; type II pantothenate kinases are not regulated by feedback inhibition by coenzyme A
YP_041579.1	No significant database matches to the full length CDS. N-terminus is weakly similar to N-terminal region of Caenorhabditis elegans hypothetical protein Y71F9AL.1 TR:Q9N4H1 (EMBL:AC024200) (323 aa) fasta scores: E(): 9, 24.82% id in 141 aa
YP_041580.1	No significant database matches to the full length CDS. N-terminus is weakly similar to N-terminal region of Pasteurella haemolytica probable phosphoribosylglycinamide formyltransferase 2 PurT SW:PURT_PASHA (P46927) (392 aa) fasta scores: E(): 4.2, 22.83% id in 289 aa
YP_041581.1	N-terminus is similar to N-terminal region of Escherichia coli aminobenzoyl-glutamate utilization protein B AbgB SW:ABGB_ECOLI (P76052) (481 aa) fasta scores: E(): 2.9e-14, 32.98% id in 285 aa. Similar to full length Mycobacterium tuberculosis  aminohydrolase RV3306c TR:O53358 (EMBL:AL021841) (394 aa) fasta scores: E(): 1.4e-36, 33.59% id in 381 aa
YP_041582.1	catalyzes the hydrolysis of S-ribosylhomocysteine to homocysteine and autoinducer-2
YP_041583.1	Similar to Deinococcus radiodurans hypothetical protein DR2024 TR:Q9RSU8 (EMBL:AE002039) (120 aa) fasta scores: E(): 2e-10, 41.74% id in 103 aa, and to Pseudomonas aeruginosa hypothetical protein PA0806 TR:Q9I5D2 (EMBL:AE004515) (131 aa) fasta scores: E(): 0.00064, 34.25% id in 108 aa
YP_041584.1	Catalyzes the reversible phosphorolysis of pyrimidines in the nucleotide synthesis salvage pathway
YP_041585.1	catalyzes the formation of D-glyceraldehyde 3-phosphate and acetaldehyde from 2-deoxy-D-ribose-5-phosphate
YP_041586.1	catalyzes the reversible phosphorolysis of ribonucleosides and 2'- deoxyribonucleosides to the free base and (2'-deoxy)ribose-1- phosphate
YP_041587.1	Similar to Listeria innocua non-heme iron-containing ferritin SW:FRI_LISIN (P80725) (156 aa) fasta scores: E(): 9.5e-21, 43.83% id in 146 aa, and to Bacillus subtilis general stress protein 20U SW:G20U_BACSU (P80879) (144 aa) fasta scores: E(): 1.2e-28, 52.11% id in 142 aa
YP_041588.1	Similar to Bacillus halodurans hypothetical protein BH0852 TR:Q9KEK0 (EMBL:AP001510) (134 aa) fasta scores: E(): 1.3e-08, 31.57% id in 133 aa, and to Bacillus subtilis hypothetical protein YuxK SW:YUXK_BACSU (P40761) (137 aa) fasta scores: E(): 5.3e-06, 30.23% id in 129 aa
YP_041590.1	Doubtful CDS. No significant database matches
YP_041591.1	Similar to Streptococcus mutans mannose-6-phosphate isomerase Pmi SW:MANA_STRMU (Q59935) (316 aa) fasta scores: E(): 3e-56, 46.62% id in 311 aa, and to Bacillus halodurans mannnose-6 phosphate isomerase BH3916 TR:Q9Z9T1 (EMBL:AB011838) (315 aa) fasta scores: E(): 3.7e-57, 43.59% id in 312 aa
YP_041592.1	Similar to Bacillus subtilis hypothetical protein YhfK TR:O07609 (EMBL:Y14083) (214 aa) fasta scores: E(): 2.6e-23, 41.81% id in 220 aa, and to Bacillus halodurans hypothetical protein BH1520 TR:Q9KCP9 (EMBL:AP001512) (213 aa) fasta scores: E(): 3.9e-21, 36.81% id in 220 aa
YP_041593.1	Previously sequenced as Staphylococcus aureus zinc and cobalt transport repressor protein CzrA TR:O85142 (EMBL:AF044951) (106 aa) fasta scores: E(): 4e-38, 100% id in 106 aa. Similar to Bacillus subtilis hypothetical protein YozA TR:O31844 (EMBL:Z99114) (107 aa) fasta scores: E(): 2e-13, 49% id in 100 aa
YP_041594.1	Previously sequenced as Staphylococcus aureus zinc resistance protein CzrB TR:Q9ZNF5 (EMBL:AB016431) (325 aa) fasta scores: E(): 3.2e-116, 98.46% id in 326 aa. Similar to Bacillus subtilis cation transport protein YrdO TR:O07084 (EMBL:U93876) (311 aa) fasta scores: E(): 4.1e-62, 56.95% id in 309 aa
YP_041595.1	No significant database matches. Previously sequenced as Staphylococcus aureus lytic regulatory protein TR:Q9ZB00 (EMBL:U67965) (370 aa) fasta scores: E(): 4.1e-113, 97.5% id in 360 aa
YP_041597.1	Doubtful CDS. No database matches
YP_041598.1	Similar to Bacillus halodurans hypothetical protein BH1746 TR:Q9KC28 (EMBL:AP001513) (282 aa) fasta scores: E(): 8.6e-14, 28.47% id in 288 aa, and to Bacillus subtilis hypothetical protein YwpJ TR:P94592 (EMBL:Z83337) (285 aa) fasta scores: E(): 6.1e-13, 24.74% id in 291 aa
YP_041599.1	Similar to Thermoactinomyces vulgaris ATP-binding protein-homologue Orf-4 TR:Q9AJF6 (EMBL:AB047926) (266 aa) fasta scores: E(): 5.8e-34, 47.12% id in 261 aa, and to the C-terminal region Escherichia coli  molybdenum transport ATP-binding protein ModF SW:MODF_ECOLI (P31060) (490 aa) fasta scores: E(): 1.3e-17, 35.71% id in 224 aa
YP_041600.1	Catalyzes the first step in hexosamine metabolism, converting fructose-6P into glucosamine-6P using glutamine as a nitrogen source
YP_041601.1	Poor database matches. Doubtful CDS
YP_041602.1	Similar to Staphylococcus carnosus PTS system, mannitol-specific IIBC component MtlA SW:PTMB_STACA (P28008) (518 aa) fasta scores: E(): 2.5e-163, 84.01% id in 513 aa, and to Bacillus halodurans PTS system, mannitol-specific IIBC component BH3854 SW:PTMB_BACHD (Q9K678) (468 aa) fasta scores: E(): 1.1e-80, 55.35% id in 495 aa
YP_041603.1	Similar to Bacillus subtilis  cel operon transcriptional regulator (antiterminator) CelR SW:CELR_BACSU (P46321) (641 aa) fasta scores: E(): 4.9e-13, 24.24% id in 532 aa, and to Bacillus subtilis probable LysR family transcriptional regulator YdaA TR:P96574 (EMBL:AB001488) (694 aa) fasta scores: E(): 7e-50, 29.89% id in 726 aa
YP_041604.1	Previously sequenced as Staphylococcus aureus PTS system, mannitol-specific IIA component MtlF SW:PTMA_STAAU (P17875) (143 aa) fasta scores: E(): 5.1e-49, 99.3% id in 143 aa. Similar to Staphylococcus carnosus PTS system, mannitol-specific IIA component MtlF SW:PTMA_STACA (P17876) (143 aa) fasta scores: E(): 4.7e-39, 81.69% id in 142 aa
YP_041605.1	Similar to Streptococcus mutans mannitol-1-phosphate 5-dehydrogenase MtlD SW:MTLD_STRMU (Q02418) (382 aa) fasta scores: E(): 8.5e-30, 41.68% id in 379 aa. Previously sequenced as Staphylococcus aureus mannitol-1-phosphate 5-dehydrogenase TR:Q9RL68 (EMBL:Y09927) (368 aa) fasta scores: E(): 2.6e-131, 98.09% id in 368 aa
YP_041606.1	Similar to Staphylococcus aureus prophage phiPV83 transposase TR:Q9MBP7 (EMBL:AB044554) (548 aa) fasta scores: E(): 7e-199, 99.453% id in 548 aa, and to Bacillus halodurans cassette chromosome recombinase B1 BH0682 TR:Q9KF15 (EMBL:AP001509) (522 aa) fasta scores: E(): 3e-99, 52.115% id in 520 aa
YP_041607.1	catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
YP_041608.1	Similar to Streptococcus pyogenes hypothetical protein SPY1037 TR:Q99ZW9 (EMBL:AE006548) (318 aa) fasta scores: E(): 6.5e-10, 24.83% id in 310 aa, and to the N-terminal region of Bacillus subtilis hypothetical protein YbbR TR:O34659 (EMBL:Z99104) (483 aa) fasta scores: E(): 2.2e-20, 28.25% id in 315 aa
YP_041609.1	Similar to Bacillus subtilis hypothetical protein YbbQ TR:Q45589 (EMBL:Z99104) (273 aa) fasta scores: E(): 2.5e-52, 56.42% id in 257 aa, and to Bacillus halodurans hypothetical protein BH0265 TR:Q9KG48 (EMBL:AP001507) (274 aa) fasta scores: E(): 3.6e-48, 56.22% id in 249 aa
YP_041610.1	Similar to Bacillus caldovelox arginase RocF SW:ARGI_BACCD (P53608) (299 aa) fasta scores: E(): 3.1e-57, 53% id in 300 aa, and to Bacillus subtilis arginase RocF SW:ARGI_BACSU (P39138) (296 aa) fasta scores: E(): 4e-55, 51.66% id in 300 aa
YP_041611.1	Similar to Bacillus subtilis Mrp protein homologue YbaL SW:MRP_BACSU (P50863) (352 aa) fasta scores: E(): 1.9e-84, 63.53% id in 351 aa, and to Bacillus halodurans ATP-binding Mrp protein BH0240 TR:Q9KG72 (EMBL:AP001507) (350 aa) fasta scores: E(): 7.9e-76, 60.84% id in 355 aa
YP_041612.1	Poor database matches. Similar to Borrelia burgdorferi conserved hypothetical integral membrane protein BB0717 TR:O51659 (EMBL:AE001171) (160 aa) fasta scores: E(): 0.24, 30.08% id in 123 aa
YP_041613.1	Similar to Vibrio cholerae  multidrug transporter VC1597 TR:Q9KRN9 (EMBL:AE004237) (477 aa) fasta scores: E(): 2.2e-29, 28.81% id in 413 aa, and to Deinococcus radiodurans multidrug-efflux transporter DR1327 TR:Q9RUQ5 (EMBL:AE001979) (477 aa) fasta scores: E(): 1.4e-27, 26.83% id in 436 aa
YP_041614.1	Similar to Bacillus cereus hemolysin III SW:HLY3_BACCE (P54176) (219 aa) fasta scores: E(): 2.5e-20, 34.8% id in 204 aa, and to Streptococcus pyogenes hemolysin III SPY1159 TR:Q99ZM9 (EMBL:AE006557) (216 aa) fasta scores: E(): 1e-42, 55.14% id in 214 aa
YP_041615.1	Similar to Saccharomyces cerevisiae UDP-N-acetylglucosamine pyrophosphorylase UAP1 SW:UAP1_YEAST (P43123) (477 aa) fasta scores: E(): 3.5e-28, 33.41% id in 407 aa, and to Chlamydia trachomatis AgX-1 homolog-UDP-glucose pyrophosphorylase CT715 TR:O84720 (EMBL:AE001342) (455 aa) fasta scores: E(): 2.6e-26, 30.92% id in 401 aa
YP_041616.1	Similar to Bacillus subtilis hypothetical protein YvsG SW:YVSG_BACSU (O32205) (160 aa) fasta scores: E(): 7.1e-18, 37.97% id in 158 aa, and to Bacillus halodurans hypothetical protein BH2138 TR:Q9KAZ8 (EMBL:AP001514) (159 aa) fasta scores: E(): 1e-14, 34.61% id in 156 aa
YP_041617.1	Similar to Bacillus subtilis hypothetical protein YnzG TR:O31800 (EMBL:Z99113) (83 aa) fasta scores: E(): 7.9e-05, 29.76% id in 84 aa, and to Bacillus halodurans hypothetical protein BH3607 TR:Q9K6W7 (EMBL:AP001519) (83 aa) fasta scores: E(): 0.049, 34.21% id in 76 aa
YP_041618.1	Similar to Bacillus halodurans hypothetical protein BH3947 TR:Q9K5Y8 (EMBL:AP001520) (460 aa) fasta scores: E(): 3.2e-76, 47.31% id in 465 aa, and to Vibrio cholerae hypothetical protein VCA0076 TR:Q9KN89 (EMBL:AE004350) (458 aa) fasta scores: E(): 1.3e-73, 46.48% id in 441 aa
YP_041619.1	Similar to Escherichia coli citrate-dependent iron transport protein FecD SW:FECD_ECOLI (P15029) (318 aa) fasta scores: E(): 1.1e-38, 39.8% id in 314 aa, and to Bacillus subtilis hypothetical protein YfmE TR:O34832 (EMBL:Z99108) (333 aa) fasta scores: E(): 8.6e-50, 46.3% id in 311 aa
YP_041620.1	Similar to Bacillus subtilis ferrichrome ABC transporter permease FhuB SW:FHUB_BACSU (P49936) (384 aa) fasta scores: E(): 2.7e-39, 37.03% id in 324 aa, and to Bacillus subtilis hypothetical protein YfmD TR:O34933 (EMBL:Z99108) (333 aa) fasta scores: E(): 3.2e-54, 46.97% id in 330 aa
YP_041621.1	Similar to Escherichia coli iron citrate-dependent iron transport, periplasmic protein FecB SW:FECB_ECOLI (P15028) (300 aa) fasta scores: E(): 2.9e-20, 37.23% id in 282 aa, and to Bacillus subtilis hypothetical protein YhfQ TR:O07616 (EMBL:Y14084) (348 aa) fasta scores: E(): 2e-32, 38.6% id in 316 aa
YP_041622.1	Similar to Thermotoga maritima hypothetical protein TM1597 TR:Q9X1T3 (EMBL:AE001804) (354 aa) fasta scores: E(): 2.3e-17, 28.32% id in 346 aa. N-terminus is weakly similar to the N-terminal region of Staphylococcus aureus alanine racemase Alr SW:ALR_STAAU (Q9ZAH5) (382 aa) fasta scores: E(): 0.018, 22.65% id in 256 aa
YP_041623.1	Similar to Rhizobium sp hypothetical protein Y4xN SW:Y4XN_RHISN (P55706) (628 aa) fasta scores: E(): 4.9e-10, 22.36% id in 617 aa, and to Escherichia coli aerobactin siderophore biosynthesis protein IucA SW:IUCA_ECOLI (Q47316) (575 aa) fasta scores: E(): 2.1e-05, 21.64% id in 596 aa
YP_041624.1	Similar to Zymomonas mobilis  transporter DitE TR:Q9XBR9 (EMBL:AF157493) (431 aa) fasta scores: E(): 5.6e-22, 26.3% id in 403 aa, and to Mycobacterium smegmatis hypothetical membrane protein TR:Q50396 (EMBL:U46844) (412 aa) fasta scores: E(): 1.2e-17, 24.73% id in 376 aa
YP_041625.1	Internal region of the CDS is similar to the internal regions of Escherichia coli aerobactin siderophore biosynthesis protein IucC SW:IUCC_ECOLI (Q47318) (580 aa) fasta scores: E(): 2e-07, 22.91% id in 384 aa, and Rhizobium sp hypothetical protein Y4xN SW:Y4XN_RHISN (P55706) (628 aa) fasta scores: E(): 3.2e-10, 24.02% id in 412 aa
YP_041626.1	Previously sequenced as Staphylococcus aureus alkaline shock protein 23 Asp23 TR:Q53485 (EMBL:S76213) (169 aa) fasta scores: E(): 6.8e-55, 100% id in 169 aa. Similar to Lactococcus lactis hypothetical protein YmgG TR:Q9CG71 (EMBL:AE006356) (183 aa) fasta scores: E(): 1.3e-13, 40.94% id in 127 aa
YP_041627.1	Similar to Streptococcus pyogenes hypothetical protein SPY1263 TR:Q99ZE4 (EMBL:AE006565) (62 aa) fasta scores: E(): 0.012, 36.06% id in 61 aa, and to Lactococcus lactis hypothetical protein YmgH TR:Q9CG70 (EMBL:AE006356) (62 aa) fasta scores: E(): 0.041, 34.42% id in 61 aa
YP_041628.1	Poor database matches. Similar to Lactococcus lactis unknown protein YtgA TR:Q9CEF1 (EMBL:AE006418) (186 aa) fasta scores: E(): 0.053, 24.13% id in 174 aa
YP_041629.1	Similar to Bacillus subtilis glycine betaine transporter OpuD SW:OPUD_BACSU (P54417) (512 aa) fasta scores: E(): 5.6e-102, 53.15% id in 508 aa, and to Listeria monocytogenes glycine betaine transporter BetL TR:Q9X4A5 (EMBL:AF102174) (507 aa) fasta scores: E(): 3.7e-99, 52.43% id in 492 aa
YP_041630.1	Similar to Bacillus halodurans alginate lyase BH0738 TR:Q9KEW1 (EMBL:AP001509) (339 aa) fasta scores: E(): 5.7e-47, 43.75% id in 336 aa, and to Lactococcus lactis quinone oxidoreductase Qor TR:Q9CHL2 (EMBL:AE006305) (328 aa) fasta scores: E(): 3e-40, 40.47% id in 336 aa
YP_041631.1	Similar to Bacillus subtilis hypothetical protein YfmJ TR:O34812 (EMBL:Z99108) (339 aa) fasta scores: E(): 5.4e-62, 52.55% id in 333 aa, and to Escherichia coli NADP-dependent oxidoreductase YncB SW:YNCB_ECOLI (P76113) (353 aa) fasta scores: E(): 2.6e-52, 45.85% id in 338 aa
YP_041632.1	C-terminus region is similar to the C-terminal regions of Lactococcus lactis hypothetical protein YriC TR:Q9CEV4 (EMBL:AE006403) (282 aa) fasta scores: E(): 4.4e-09, 24% id in 250 aa, and Lactococcus lactis hypothetical protein TR:Q9ZB16 (EMBL:U60828) (307 aa) fasta scores: E(): 7.2e-08, 22.98% id in 248 aa
YP_041633.1	catalyzes the formation of 6-phospho-galactose from a 6-phospho-beta-galactoside
YP_041634.1	Previously sequenced as Staphylococcus aureus PTS system, lactose-specific IIBC component LacE SW:PTLB_STAAU (P11162) (572 aa) fasta scores: E(): 1.3e-216, 99.82% id in 570 aa. Similar to Streptococcus mutans PTS system, lactose-specific IIBC component LacE SW:PTLB_STRMU (P50976) (568 aa) fasta scores: E(): 1.1e-168, 76.27% id in 569 aa
YP_041635.1	Previously sequenced as Staphylococcus aureus PTS system, lactose-specific IIA component LacF SW:PTLA_STAAU (P02909) (103 aa) fasta scores: E(): 8.2e-39, 100% id in 103 aa. Similar to Streptococcus pyogenes  pts system, lactose-specific component iia lacf or spy1918 TR:Q99Y16 (EMBL:AE006616) (105 aa) fasta scores: E(): 6e-30, 76.69% id in 103 aa
YP_041636.1	catalyzes the reversible reaction of dihydroxyacetone phosphate with glyceraldehyde 3-phosphate to produce tagatose 1,6-bisphosphate; in Streptococcus pyogenes there are two paralogs of tagatose-bisphosphate aldolase, encoded by lacD1 and lacD2; expression of lacD1 is highly regulated by environmental conditions while lacD2 specializes in an efficient utilization of carbohydrate sources
YP_041637.1	catalyzes the formation of tagatose 1,6-bisphosphate from tagatose 6-phosphate and ATP
YP_041638.1	catalyzes the interconversion of galactose 6-phosphate to tagatose 6-phosphate
YP_041639.1	catalyzes the interconversion of galactose 6-phosphate to tagatose 6-phosphate; tagatose pathway for galactose utilization
YP_041640.1	Previously sequenced as Staphylococcus aureus lactose phosphotransferase system repressor LacR SW:LACR_STAAU (P16644) (251 aa) fasta scores: E(): 4.7e-93, 99.2% id in 251 aa. Similar to Streptococcus mutans lactose phosphotransferase system repressor LacR SW:LACR_STRMU (P26422) (251 aa) fasta scores: E(): 4.2e-62, 62.94% id in 251 aa
YP_041641.1	Modulates the activities of several enzymes which are inactive in their acetylated form
YP_041642.1	Poor database matches. Similar to Bacillus subtilis hypothetical protein YnaE TR:P94483 (EMBL:U66480) (213 aa) fasta scores: E(): 3.2e-08, 26.13% id in 199 aa
YP_041643.1	Doubtful CDS. No database matches
YP_041644.1	Similar to Thermotoga maritima aldo/keto reductase oxidoreductase TM1009 TR:Q9X0A2 (EMBL:AE001762) (286 aa) fasta scores: E(): 3.6e-55, 53.95% id in 278 aa, and to Lactococcus lactis oxidoreductase YddB TR:Q9CIM3 (EMBL:AE006270) (272 aa) fasta scores: E(): 6.2e-40, 46.15% id in 273 aa
YP_041645.1	Similar to Escherichia coli zinc (II) responsive transcriptional activator ZntR SW:ZNTR_ECOLI (P36676) (141 aa) fasta scores: E(): 0.00023, 27.77% id in 108 aa, and to Bacillus subtilis mercuric resistance operon regulatory protein YraB TR:O06008 (EMBL:X92868) (140 aa) fasta scores: E(): 3.7e-10, 36.56% id in 134 aa. Contains coiled-coiled domain, residues 88 to 105
YP_041646.1	Similar to Staphylococcus aureus hyaluronate lyase precursor HysA SW:HYSA_STAAU (Q59801) (807 aa) fasta scores: E(): 0, 87.5% id in 808 aa, and to Streptococcus pneumoniae hyaluronate lyase precursor SP0314 SW:HYSA_STRPN (Q54873) (949 aa) fasta scores: E(): 5.3e-78, 36.75% id in 770 aa. Similar to SAR1892, 74.969% identity (75.716% ungapped) in 811 aa overlap
YP_041647.1	Poor database matches. C-terminus is similar to the C-terminal region of Borrelia burgdorferi conserved hypothetical protein BB0761 TR:O51702 (EMBL:AE001176) (295 aa) fasta scores: E(): 4.6e-06, 24.46% id in 233 aa
YP_041648.1	Similar to Bacillus subtilis hypothetical protein YhjK TR:O07565 (EMBL:Y14081) (286 aa) fasta scores: E(): 3.7e-25, 30.03% id in 263 aa, and to Pasteurella multocida hypothetical protein PM1047 pm1047 TR:Q9CM01 (EMBL:AE006146) (276 aa) fasta scores: E(): 1.3e-15, 26.56% id in 256 aa
YP_041649.1	Poor database matches. Similar to the N-terminal region of Staphylococcus aureus cell surface protein Map-W precursor protein TR:Q9S2Z4 (EMBL:AJ245439) (687 aa) fasta scores: E(): 9.1e-06, 34.02% id in 144 aa. Possible gene remnant
YP_041650.1	Similar to Bacillus subtilis alpha-acetolactate decarboxylase AlsD SW:ALDC_BACSU (Q04777) (255 aa) fasta scores: E(): 4.1e-25, 34.33% id in 233 aa, and to Enterobacter aerogenes alpha-acetolactate decarboxylase BudA SW:ALDC_ENTAE (P05361) (260 aa) fasta scores: E(): 5.5e-22, 33.33% id in 234 aa. Similar to SAR2679, 74.359% identity (74.359% ungapped) in 234 aa overlap
YP_041651.1	catalyzes the formation of 2-acetolactate from pyruvate in stationary phase
YP_041652.1	Doubtful CDS
YP_041653.1	Doubtful CDS
YP_041654.1	Similar to Campylobacter jejuni hypothetical protein CJ1552c TR:Q9PMB7 (EMBL:AL139079) (488 aa) fasta scores: E(): 0.00033, 21.5% id in 479 aa, and to Pyrococcus abyssi hypothetical protein PAB1002 TR:Q9UYK0 (EMBL:AJ248287) (428 aa) fasta scores: E(): 0.015, 25.05% id in 467 aa
YP_041655.1	forms a direct contact with the tRNA during translation
YP_041656.1	in Escherichia coli this protein is one of the earliest assembly proteins in the large subunit
YP_041657.1	mediates pseudouridylation (positions 38, 39, 40) at the tRNA anticodon region which contributes to the structural stability
YP_041658.1	Similar to Bacillus subtilis hypothetical protein YbaF TR:P70972 (EMBL:Z99104) (265 aa) fasta scores: E(): 8.6e-45, 45.83% id in 264 aa, and to Streptococcus pyogenes hypothetical protein SPY2193 TR:Q99XI3 (EMBL:AE006636) (266 aa) fasta scores: E(): 1.5e-42, 42.04% id in 264 aa
YP_041659.1	with CbiNQ forms the ABC transporter for cobalt import; Staphylococcus has two adjacent copies of this gene
YP_041660.1	with CbiNQ forms the ABC transporter for cobalt import; Staphylococcus has two adjacent copies of this gene
YP_041661.1	C-terminal region is similar to Lactobacillus johnsonii insertion element IS1223 hypothetical protein SW:YI3A_LACJO (Q48585) (177 aa) fasta scores: E(): 2.7e-08, 33.140% id in 172 aa, and Mycoplasma mycoides insertion element IS1296 hypothetical protein SW:YI6A_MYCMY (Q50239) (180 aa) fasta scores: E(): 0.0092, 30.526% id in 190 aa
YP_041662.1	Similar to the C-terminal region of Enterococcus faecium transposase TR:Q47815 (EMBL:L40841) (310 aa) fasta scores: E(): 1.9e-39, 46.183% id in 262 aa, and to the full length Neisseria gonorrhoeae hypothetical protein TR:Q50996 (EMBL:L36381) (267 aa) fasta scores: E(): 1.1e-27, 39.689% id in 257 aa
YP_041663.1	is a component of the macrolide binding site in the peptidyl transferase center
YP_041664.1	catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Dimerization of the alpha subunit is the first step in the sequential assembly of subunits to form the holoenzyme
YP_041665.1	located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA; forms part of the Shine-Dalgarno cleft in the 70S ribosome; interacts with S7 and S18 and IF-3
YP_041666.1	located at the top of the head of the 30S subunit, it contacts several helices of the 16S rRNA; makes contact with the large subunit via RNA-protein interactions and via protein-protein interactions with L5; contacts P-site tRNA
YP_041667.1	smallest protein in the large subunit; similar to what is found with protein L31 and L33 several bacterial genomes contain paralogs which may be regulated by zinc; the protein from Thermus thermophilus has a zinc-binding motif and contains a bound zinc ion; the proteins in this group have the motif
YP_041668.1	stimulates the activities of the other two initiation factors, IF-2 and IF-3
YP_041669.1	essential enzyme that recycles AMP in active cells; converts ATP and AMP to two molecules of ADP
YP_041670.1	forms heterotrimeric complex in the membrane; in bacteria the complex consists of SecY which forms the channel pore and SecE and SecG; the SecG subunit is not essential; in bacteria translocation is driven via the SecA ATPase
YP_041671.1	late assembly protein
YP_041672.1	L30 binds domain II of the 23S rRNA and the 5S rRNA; similar to eukaryotic protein L7
YP_041673.1	located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body; contacts S4 and S8; with S4 and S12 plays a role in translational accuracy; mutations in this gene result in spectinomycin resistance
YP_041674.1	binds 5S rRNA along with protein L5 and L25
YP_041675.1	ribosomal protein L6 appears to have arisen as a result of an ancient gene duplication as based on structural comparison of the Bacillus stearothermophilus protein; RNA-binding appears to be in the C-terminal domain; mutations in the L6 gene confer resistance to aminoglycoside antibiotics such as gentamicin and these occur in truncations of the C-terminal domain; it has been localized to a region between the base of the L7/L12 stalk and the central protuberance
YP_041676.1	binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit
YP_041677.1	located in the peptidyl transferase center and involved in assembly of 30S ribosome subunit; similar to what is observed with proteins L31 and L33, some proteins in this family contain CXXC motifs that are involved in zinc binding; if two copies are present in a genome, then the duplicated copy appears to have lost the zinc-binding motif and is instead regulated by zinc; the proteins in this group appear to contain the zinc-binding motif
YP_041678.1	part of 50S and 5S/L5/L18/L25 subcomplex; contacts 5S rRNA and P site tRNA; forms a bridge to the 30S subunit in the ribosome by binding to S13
YP_041679.1	assembly initiator protein; binds to 5' end of 23S rRNA and nucleates assembly of the 50S; surrounds polypeptide exit tunnel
YP_041680.1	binds to the 23S rRNA between the centers for peptidyl transferase and GTPase
YP_041681.1	primary binding protein; helps mediate assembly; involved in translation fidelity
YP_041682.1	one of the stabilizing components for the large ribosomal subunit
YP_041683.1	located in the peptidyl transferase center and may be involved in peptidyl transferase activity; similar to archaeal L10e
YP_041684.1	forms a complex with S10 and S14; binds the lower part of the 30S subunit head and the mRNA in the complete ribosome to position it for translation
YP_041685.1	binds specifically to 23S rRNA during the early stages of 50S assembly; makes contact with all 6 domains of the 23S rRNA in the assembled 50S subunit and ribosome; mutations in this gene result in erythromycin resistance; located near peptidyl-transferase center
YP_041686.1	protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
YP_041687.1	one of the primary rRNA-binding proteins; required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation
YP_041688.1	binds third domain of 23S rRNA and protein L29; part of exit tunnel
YP_041689.1	L4 is important during the early stages of 50S assembly; it initially binds near the 5' end of the 23S rRNA
YP_041690.1	binds directly near the 3' end of the 23S rRNA, where it nucleates assembly of the 50S subunit; essential for peptidyltransferase activity; mutations in this gene confer resistance to tiamulin
YP_041691.1	NusE; involved in assembly of the 30S subunit; in the ribosome, this protein is involved in the binding of tRNA; in Escherichia coli this protein was also found to be involved in transcription antitermination; NusB/S10 heterodimers bind boxA sequences in the leader RNA of rrn operons which is required for antitermination; binding of NusB/S10 to boxA nucleates assembly of the antitermination complex
YP_041692.1	Poor database matches. Weakly similar to the C-terminal region of Lactococcus lactis hypothetical protein YkaC TR:Q9CGW4 (EMBL:AE006332) (213 aa) fasta scores: E(): 6.6, 28.28% id in 99 aa
YP_041693.1	Similar to Bacillus subtilis hypothetical protein YebB TR:O34987 (EMBL:Z99107) (440 aa) fasta scores: E(): 2e-100, 64.48% id in 442 aa, and to Bacillus halodurans hypothetical protein BH0608 TR:Q9KF77 (EMBL:AP001509) (434 aa) fasta scores: E(): 5.3e-82, 58.4% id in 440 aa
YP_041694.1	decatenates replicating daughter chromosomes
YP_041695.1	Poor database matches. Weakly similar to Bacillus halodurans hypothetical protein BH0299 TR:Q9KG16 (EMBL:AP001508) (305 aa) fasta scores: E(): 1.5e-05, 19.72% id in 294 aa
YP_041696.1	Similar to Staphylococcus xylosus glucose uptake protein GlcU TR:O07881 (EMBL:Y14043) (288 aa) fasta scores: E(): 4.6e-72, 72.53% id in 284 aa, and to Bacillus megaterium hypothetical protein SW:YCXE_BACME (P40419) (286 aa) fasta scores: E(): 2.1e-53, 54.06% id in 283 aa
YP_041697.1	Poor database matches. Similar to Methanococcus jannaschii hypothetical protein MJ1031 SW:YA31_METJA (Q58437) (308 aa) fasta scores: E(): 8.2e-09, 21.45% id in 317 aa, and to Clostridium cellulovorans malate permease Mln TR:Q9LAI9 (EMBL:AF132735) (290 aa) fasta scores: E(): 4.4e-06, 25.08% id in 287 aa
YP_041698.1	Poor database matches. Similar to Bacillus halodurans hypothetical protein BH0180 TR:Q9KGC4 (EMBL:AP001507) (59 aa) fasta scores: E(): 7e-05, 46.15% id in 52 aa
YP_041699.1	Poor database matches. Similar to the N-terminal region of Drosophila yakuba NADH-ubiquinone oxidoreductase chain 6 ND6 SW:NU6M_DROYA (P07709) (174 aa) fasta scores: E(): 2.3, 24.24% id in 99 aa
YP_041700.1	Similar to Bacillus subtilis hypothetical protein YerP TR:O31501 (EMBL:Z99107) (1065 aa) fasta scores: E(): 1.2e-160, 46.03% id in 1058 aa, and to Bacillus halodurans cation efflux system protein BH3816 TR:Q9K6B3 (EMBL:AP001520) (1093 aa) fasta scores: E(): 2.4e-57, 26.52% id in 1063 aa
YP_041701.1	Similar to Staphylococcus sciuri,  peptidoglycan pentaglycine interpeptide biosynthesis protein, essential for methicillin resistance FemA TR:Q9ZFG3 (EMBL:AF099966) (417 aa) fasta scores: E(): 6.4e-20, 25.82% id in 426 aa. Previously sequenced as Staphylococcus aureus peptidoglycan pentaglycine interpeptide biosynthesis protein FmhB TR:Q9X4D7 (EMBL:AF106850) (421 aa) fasta scores: E(): 5.3e-150, 99.28% id in 421 aa
YP_041702.1	No significant database matches. Doubtful CDS
YP_041703.1	Poor database matches. Similar to an internal region of Legionella pneumophila hypothetical protein TR:Q9AKW5 (EMBL:AJ277755) (402 aa) fasta scores: E(): 4.1, 20.07% id in 254 aa
YP_041704.1	Similar to Escherichia coli homoprotocatechuate degradative operon repressor HpcR SW:HPCR_ECOLI (Q07095) (148 aa) fasta scores: E(): 0.0022, 21.42% id in 112 aa, and to Staphylococcus sciuri Orf141 protein TR:O54273 (EMBL:Y13094) (141 aa) fasta scores: E(): 0.00089, 23.94% id in 142 aa
YP_041705.1	Similar to Lactococcus lactis transporter YbfD TR:Q9CJ52 (EMBL:AE006253) (393 aa) fasta scores: E(): 1.3e-48, 37.08% id in 391 aa, and to Bacillus subtilis hypothetical protein YwoG TR:P94577 (EMBL:Z82987) (396 aa) fasta scores: E(): 6.8e-38, 32.19% id in 379 aa
YP_041706.1	Similar to Staphylococcus aureus staphylococcal accessory regulator A SarA TR:Q53600 (EMBL:U20782) (124 aa) fasta scores: E(): 0.27, 27.83% id in 97 aa, and to Staphylococcus epidermidis staphylococcal accessory regulator A homologue SarA TR:O85233 (EMBL:AF054173) (124 aa) fasta scores: E(): 0.11, 26.88% id in 93 aa
YP_041707.1	Similar to Bacillus subtilis molybdenum cofactor biosynthesis protein A MoaA SW:MOAA_BACSU (P39757) (341 aa) fasta scores: E(): 4e-64, 49.85% id in 339 aa, and to Staphylococcus carnosus molybdenum cofactor biosynthesis protein A MoaA SW:MOAA_STACA (Q9ZIM6) (340 aa) fasta scores: E(): 7.7e-111, 83.82% id in 340 aa
YP_041708.1	in Escherichia coli MobA links a guanosine 5'-phosphate to molydopterin to form molybdopterin guanine dinucleotide during molybdenum cofactor biosynthesis
YP_041709.1	Similar to Homo sapiens molybdopterin-synthase small subunit MOCO1-B TR:O96033 (EMBL:AF091871) (88 aa) fasta scores: E(): 0.00015, 34.14% id in 82 aa, and to Staphylococcus carnosus MoaD protein TR:Q9ZIM8 (EMBL:AF109295) (77 aa) fasta scores: E(): 5.4e-15, 59.74% id in 77 aa
YP_041710.1	Similar to Homo sapiens molybdopterin-synthase large subunit MOCO1-A TR:O96007 (EMBL:AF091871) (188 aa) fasta scores: E(): 1.2e-16, 40% id in 130 aa, and to Staphylococcus carnosus MoaE protein TR:Q9ZIM9 (EMBL:AF109295) (150 aa) fasta scores: E(): 4.1e-49, 84.72% id in 144 aa
YP_041711.1	Similar to Escherichia coli molybdopterin-guanine dinucleotide biosynthesis protein B MobB SW:MOBB_ECOLI (P32125) (174 aa) fasta scores: E(): 0.00063, 27.96% id in 118 aa, and to Staphylococcus carnosus MobB protein TR:Q9ZIN0 (EMBL:AF109295) (160 aa) fasta scores: E(): 1.1e-29, 57.96% id in 157 aa
YP_041712.1	Similar to Clostridium perfringens molybdenum cofactor biosynthesis protein MoeA TR:Q9WX93 (EMBL:AB017192) (406 aa) fasta scores: E(): 9.7e-44, 36.25% id in 400 aa, and to Staphylococcus carnosus MoeA protein TR:Q9ZIN1 (EMBL:AF109295) (419 aa) fasta scores: E(): 1.5e-112, 74.7% id in 419 aa
YP_041713.1	MoaC; along with MoaA is involved in conversion of a guanosine derivative into molybdopterin precursor Z; involved in molybdenum cofactor biosynthesis
YP_041714.1	Similar to Escherichia coli molybdenum cofactor biosynthesis protein B MoaB SW:MOAB_ECOLI (P30746) (169 aa) fasta scores: E(): 4.4e-18, 44.59% id in 148 aa, and to Staphylococcus carnosus MoaB protein TR:Q9ZIN3 (EMBL:AF109295) (170 aa) fasta scores: E(): 9.2e-45, 77.1% id in 166 aa
YP_041715.1	Similar to Staphylococcus carnosus  molybdopterin synthase sulfurylase MoeB TR:Q9ZIN4 (EMBL:AF109295) (333 aa) fasta scores: E(): 3.9e-92, 68.58% id in 331 aa. N-terminal region to Escherichia coli adenylyltransferase ThiF SW:THIF_ECOLI (P30138) (251 aa) fasta scores: E(): 8e-18, 33.73% id in 249 aa
YP_041716.1	Similar to the N-terminal region of Escherichia coli molybdenum transport ATP-binding protein ModC SW:MODC_ECOLI (P09833) (352 aa) fasta scores: E(): 2e-19, 38.61% id in 202 aa, and to the full length Staphylococcus carnosus ModC protein TR:Q9ZIN5 (EMBL:AF109295) (202 aa) fasta scores: E(): 2.9e-48, 74.62% id in 201 aa
YP_041717.1	Similar to Escherichia coli molybdenum ABC transporter permease ModB SW:MODB_ECOLI (P09834) (229 aa) fasta scores: E(): 6.7e-21, 35.26% id in 207 aa, and to Staphylococcus carnosus ModB protein TR:Q9ZIN6 (EMBL:AF109295) (223 aa) fasta scores: E(): 7.9e-69, 81.16% id in 223 aa
YP_041718.1	Similar to Rhodobacter capsulatus molybdate-binding periplasmic protein precursor ModA SW:MODA_RHOCA (Q08383) (252 aa) fasta scores: E(): 1.4e-08, 26.99% id in 226 aa, and to Staphylococcus carnosus ModA protein TR:Q9ZIN7 (EMBL:AF109295) (261 aa) fasta scores: E(): 4.4e-60, 69.61% id in 260 aa
YP_041719.1	involved in the production or activity of formate dehydrogenase-H which is active when nitrate is not present during anaerobic growth
YP_041720.1	Poor database matches. Weakly similar to Bacillus subtilis hypothetical protein that possibly influences maturation of the outermost layer of the spore, CgeE SW:CGEE_BACSU (P42093) (259 aa) fasta scores: E(): 0.65, 20.96% id in 229 aa
YP_041721.1	Similar to Bacillus sphaericus  biotin synthase BioY SW:BIOY_BACSH (P22819) (196 aa) fasta scores: E(): 1.2e-07, 30% id in 180 aa, and to Lactococcus lactis hypothetical protein YseA TR:Q9CEQ5 (EMBL:AE006408) (189 aa) fasta scores: E(): 8.6e-21, 43.75% id in 176 aa
YP_041722.1	Similar to Trypanosoma brucei brucei inosine-adenosine-guanosine-nucleoside hydrolase TR:O15727 (EMBL:AF017231) (327 aa) fasta scores: E(): 2.8e-16, 31.28% id in 326 aa, and to Trypanosoma vivax iag-nucleoside hydrolase TR:Q9GPQ4 (EMBL:AF311701) (327 aa) fasta scores: E(): 7.3e-18, 31.9% id in 326 aa
YP_041723.1	Similar to Bacillus subtilis ferrichrome-binding protein precursor FhuD SW:FHUD_BACSU (P37580) (315 aa) fasta scores: E(): 1.1e-31, 37.82% id in 312 aa, and to Streptococcus pyogenes ferrichrome ABC transporter SPY0385 TR:Q9A198 (EMBL:AE006501) (310 aa) fasta scores: E(): 8.4e-34, 37.74% id in 310 aa
YP_041724.1	Similar to Clostridium acetobutylicum short-chain specific acyl-CoA dehydrogenase Bcd SW:ACDS_CLOAB (P52042) (379 aa) fasta scores: E(): 7.5e-14, 22.4% id in 366 aa, and to Bacillus subtilis hypothetical protein YdbM TR:P96608 (EMBL:AB001488) (381 aa) fasta scores: E(): 9.4e-71, 48.93% id in 374 aa
YP_041725.1	Doubtful CDS. No significant database matches
YP_041726.1	Similar to internal regions of Homo sapiens erythrocyte urea transporter UT1 SW:UT1_HUMAN (Q13336) (389 aa) fasta scores: E(): 7.2e-17, 27.15% id in 302 aa, and Oryctolagus cuniculus kidney urea transporter UT2 SW:UT2_RABIT (Q28614) (397 aa) fasta scores: E(): 1.2e-15, 26.78% id in 295 aa
YP_041727.1	UreA, with UreB and UreC catalyzes the hydrolysis of urea into ammonia and carbon dioxide; nickel metalloenzyme; accessory proteins UreD, UreE, UreF, and UreG are necessary for assembly of the metallocenter
YP_041728.1	ureases catalyze the hydrolysis of urea into ammonia and carbon dioxide; in Helicobacter pylori and Yersinia enterocolitica the ammonia released plays a key role in bacterial survival by neutralizing acids when colonizing the gastric mucosa; the holoenzyme is composed of 3 UreC (alpha) and 3 UreAB (gamma/beta); in Staphylococcus saprophyticus plays a role in bladder invasiveness and may induce the formation of kidney and bladder stones due to the alkalization of urine
YP_041729.1	ureases catalyze the hydrolysis of urea into ammonia and carbon dioxide; in Helicobacter pylori the ammonia released plays a key role in bacterial survival by neutralizing acids when colonizing the gastric mucosa; the holoenzyme is composed of 3 ureC (alpha) and 3 ureAB (gamma/beta) subunits
YP_041730.1	involved in the assembly of the urease metallocenter; possible nickel donor
YP_041731.1	Similar to Bacillus sp urease accessory protein UreF SW:UREF_BACSB (Q07402) (227 aa) fasta scores: E(): 3.5e-39, 44.39% id in 223 aa. N-terminus is similar to Staphylococcus xylosus urease accessory protein UreF SW:UREF_STAXY (P42876) (189 aa) fasta scores: E(): 3.9e-61, 78.19% id in 188 aa
YP_041732.1	Similar to Staphylococcus xylosus urease accessory protein UreG SW:UREG_STAXY (P42877) (204 aa) fasta scores: E(): 2.1e-63, 89.7% id in 204 aa, and to Bacillus sp urease accessory protein UreG SW:UREG_BACSB (Q07403) (204 aa) fasta scores: E(): 8.1e-52, 75% id in 200 aa
YP_041733.1	Similar to Bacillus sp urease accessory protein UreD SW:URED_BACSB (Q07400) (271 aa) fasta scores: E(): 1.8e-32, 34.19% id in 272 aa, and to Ureaplasma urealyticum urease complex component UreD TR:Q9FA29 (EMBL:AF085731) (287 aa) fasta scores: E(): 2.4e-26, 29.13% id in 278 aa
YP_041734.1	Similar to Staphylococcus aureus staphylococcal accessory regulator A SarA TR:Q53600 (EMBL:U20782) (124 aa) fasta scores: E(): 1.9e-05, 30.08% id in 113 aa. Previously sequenced as Staphylococcus aureus taphylococcal accessory regulator A homologue SarR TR:Q9F0R1 (EMBL:AF207701) (115 aa) fasta scores: E(): 2.5e-37, 100% id in 115 aa
YP_041735.1	Poor database matches. Similar to Staphylococcus xylosus hypothetical protein TR:Q9EV51 (EMBL:AJ295151) (108 aa) fasta scores: E(): 2.2e-22, 55.76% id in 104 aa
YP_041736.1	Poor database matches. N-terminal region is similar to Staphylococcus aureus staphylococcal accessory regulator A homologue SarR TR:Q9F0R1 (EMBL:AF207701) (115 aa) fasta scores: E(): 3, 24.57% id in 118 aa. Similar to the full length Staphylococcus aureus rot-like protein Rlp TR:Q9EZK4 (EMBL:AF288788) (247 aa) fasta scores: E(): 0.41, 25.84% id in 236 aa
YP_041737.1	No significant database matches to the full length CDS. N-terminus is similar to Bacillus halodurans transcriptional regulator BH0711 TR:Q9KEY8 (EMBL:AP001509) (263 aa) fasta scores: E(): 0.018, 22.43% id in 263 aa, and Lactococcus lactis xylose regulatory protein XylR TR:Q9RAV4 (EMBL:AF092040) (316 aa) fasta scores: E(): 0.024, 20.35% id in 285 aa
YP_041738.1	Similar to Staphylococcus carnosus major secreted protein SceB TR:O54487 (EMBL:U96107) (263 aa) fasta scores: E(): 2.3e-57, 65.81% id in 275 aa, and to Staphylococcus epidermidis secretory antigen precursor SsaA TR:Q9KJT6 (EMBL:AF162275) (257 aa) fasta scores: E(): 6.3e-48, 72.89% id in 273 aa. Similar to SAR2648, 75.093% identity (79.216% ungapped) in 269 aa overlap. C-terminal region is similar to SAR2388, 63.077% identity (65.079% ungapped) in 130 aa overlap
YP_041739.1	Doubtful CDS. No significant database matches
YP_041740.1	Similar to Bacillus firmus Na+/H+ antiporter NhaC SW:NHAC_BACFI (P27611) (462 aa) fasta scores: E(): 4.8e-47, 31.25% id in 464 aa, and to Haemophilus influenzae hypothetical Na+/H+ antiporter HI1107 SW:YB07_HAEIN (Q57007) (468 aa) fasta scores: E(): 1.5e-63, 36.16% id in 459 aa
YP_041741.1	Similar to Arthrobacter sp opine dehydrogenase Odh SW:ODH_ARTSP (Q44297) (359 aa) fasta scores: E(): 1.4e-22, 26.68% id in 356 aa, and to Agrobacterium vitis vitopine synthase Vis SW:VIS_AGRVI (Q04554) (360 aa) fasta scores: E(): 4.6e-10, 24.15% id in 356 aa
YP_041742.1	Poor database matches. Weak similarity to Pseudomonas aeruginosa hypothetical protein PA5333 TR:Q9HTM4 (EMBL:AE004946) (123 aa) fasta scores: E(): 0.0059, 30.28% id in 142 aa, and to Synechocystis sp hypothetical protein SLR0686 TR:P72954 (EMBL:D90902) (119 aa) fasta scores: E(): 7e-05, 35.29% id in 136 aa
YP_041743.1	Similar to the C-terminal regions of Staphylococcus epidermidis secretory antigen precursor SsaA TR:Q9KJT6 (EMBL:AF162275) (257 aa) fasta scores: E(): 1.5e-27, 59.12% id in 137 aa, andStaphylococcus carnosus major secreted protein SceB TR:O54487 (EMBL:U96107) (263 aa) fasta scores: E(): 1.8e-27, 58.08% id in 136 aa. Similar to the C-terminal regions of SAR2383, 63.077% identity (65.079% ungapped) in 130 aa overlap, and SAR2648, 60.769% identity (62.698% ungapped) in 130 aa overlap
YP_041744.1	Catalyzes the reduction of hydroxypyruvate to form D-glycerate, using NADH as an electron donor
YP_041745.1	Similar to Streptomyces coelicolor  monooxygenase 2SCG61.20c TR:Q9K3Z5 (EMBL:AL359949) (396 aa) fasta scores: E(): 1.9e-22, 29.58% id in 365 aa, and to Pseudomonas aeruginosa probable FAD-dependent monooxygenase PA3328 TR:Q9HYR7 (EMBL:AE004755) (388 aa) fasta scores: E(): 2.4e-20, 25.72% id in 381 aa
YP_041746.1	Similar to the C-terminal regions of Staphylococcus aureus bifunctional autolysin precursor [includes: N-acetylmuramoyl-L-alanine amidase; mannosyl-glycoprotein endo-beta-N-acetylglucosamidase] Atl SW:ATL_STAAU (P52081) (1256 aa) fasta scores: E(): 1.8e-24, 39.55% id in 225 aa, and Bacillus subtilis beta-N-acetylglucosaminidase precursor LytD SW:LYTD_BACSU (P39848) (880 aa) fasta scores: E(): 8.3e-22, 43.24% id in 185 aa
YP_041748.1	Similar to Bacillus subtilis hypothetical protein YrhD SW:YRHD_BACSU (O05396) (160 aa) fasta scores: E(): 2.9e-07, 28.66% id in 157 aa, and to Bacillus subtilis hypothetical protein YjgD TR:O34681 (EMBL:AF015825) (186 aa) fasta scores: E(): 3.5e-06, 26.11% id in 157 aa
YP_041749.1	C-terminal region is similar to Escherichia coli formate dehydrogenase H FdhF SW:FDHF_ECOLI (P07658) (715 aa) fasta scores: E(): 2.7e-78, 35.15% id in 697 aa. Full length CDS similar to Bacillus subtilis formate dehydrogenase alpha subunit homologue YjgC TR:O34720 (EMBL:AF015825) (985 aa) fasta scores: E(): 0, 59.34% id in 979 aa
YP_041750.1	Similar to Bacillus subtilis membrane-bound attenuator of lytABC and lytR expression LytR SW:LYTR_BACSU (Q02115) (306 aa) fasta scores: E(): 1.5e-40, 40% id in 315 aa, and to Bacillus halodurans attenuator of lytABC and lytR expression BH3670 TR:Q9K6Q8 (EMBL:AP001519) (304 aa) fasta scores: E(): 3.3e-38, 37.91% id in 298 aa
YP_041751.1	Similar to Escherichia coli extragenic suppressor protein SuhB SW:SUHB_ECOLI (P22783) (267 aa) fasta scores: E(): 1.8e-13, 28.19% id in 227 aa, and to Bacillus subtilis extragenic suppressor protein SuhB homologue SW:SUHB_BACSU (Q45499) (265 aa) fasta scores: E(): 8.2e-21, 30.76% id in 260 aa
YP_041752.1	Similar to the N-terminal regions of Bacillus halodurans BH1889 TR:Q9KBN6 (EMBL:AP001513) (325 aa) fasta scores: E(): 5.9e-11, 23.47% id in 230 aa, and to Bacillus subtilis transcription regulator YobV TR:O34920 (EMBL:AF027868) (313 aa) fasta scores: E(): 0.0019, 22.76% id in 224 aa
YP_041753.1	Poor database matches. Similar to Bacillus anthracis plasmid pXO2 hypothetical protein pXO2-46 TR:Q9RMY6 (EMBL:AF188935) (221 aa) fasta scores: E(): 2.7e-07, 28.11% id in 217 aa, and to Bacillus halodurans hypothetical protein BH0560 TR:Q9KFC4 (EMBL:AP001508) (237 aa) fasta scores: E(): 1.9e-06, 26% id in 223 aa
YP_041754.1	Poor database matches. Similar to an internal region of Mycoplasma mycoides subsp. mycoides glycerol transporter subunit A GtsA TR:Q9F0F4 (EMBL:AF251037) (406 aa) fasta scores: E(): 4, 29.09% id in 110 aa
YP_041755.1	Similar to Lactococcus lactis transcription regulator YleF TR:Q9CGG3 (EMBL:AE006345) (283 aa) fasta scores: E(): 3.6e-25, 31.15% id in 276 aa, and to Thermotoga maritima hypothetical protein TM0326 SW:Y326_THEMA (Q9WYG1) (280 aa) fasta scores: E(): 3.8e-19, 27.85% id in 280 aa. Similar to SAR0194, 54.639% identity (54.828% ungapped) in 291 aa overlap
YP_041756.1	Similar to Salmonella typhimurium proline-specific permease ProY SW:PROY_SALTY (P37460) (456 aa) fasta scores: E(): 4.9e-75, 46.05% id in 456 aa, and to Bacillus subtilis hypothetical transport protein YbxG SW:YBXG_BACSU (P54425) (462 aa) fasta scores: E(): 8.1e-113, 68.81% id in 449 aa
YP_041757.1	Poor database matches
YP_041758.1	Poor database matches. Similar to Streptococcus pneumoniae hypothetical protein Orf24 TR:Q9EZG8 (EMBL:AF295925) (77 aa) fasta scores: E(): 9.8, 35.59% id in 59 aa
YP_041759.1	Poor database matches
YP_041760.1	Similar to Bacillus subtilis hypothetical protein YhcW SW:YHCW_BACSU (P54607) (220 aa) fasta scores: E(): 6.1e-15, 33.83% id in 201 aa, and to Deinococcus radiodurans CbbY/CbbZ/GpH/YieH family hydrolase DR2613 TR:Q9RR83 (EMBL:AE002090) (238 aa) fasta scores: E(): 4.3e-15, 34.73% id in 190 aa
YP_041762.1	Similar to Bacillus subtilis PTS system, arbutin-like IIBC component GlvC SW:PTIB_BACSU (P54715) (527 aa) fasta scores: E(): 2.4e-119, 56.43% id in 528 aa, and to Escherichia coli PTS system, arbutin-like IIC component GlvC SW:PTIC_ECOLI (P31452) (368 aa) fasta scores: E(): 2e-77, 55.31% id in 367 aa
YP_041763.1	Similar to Bacillus subtilis hypothetical protein YfiA SW:YFIA_BACSU (P54717) (254 aa) fasta scores: E(): 1e-26, 35.77% id in 246 aa, and to Bacillus halodurans hypothetical protein BH0181 TR:Q9KGC3 (EMBL:AP001507) (241 aa) fasta scores: E(): 2.3e-09, 28.34% id in 247 aa
YP_041765.1	Similar to Bacillus firmus Na+/H+ antiporter NhaC SW:NHAC_BACFI (P27611) (462 aa) fasta scores: E(): 3.9e-07, 25.39% id in 449 aa, and to Vibrio cholerae Na+/H+ antiporter VCA0193 TR:Q9KMX3 (EMBL:AE004359) (447 aa) fasta scores: E(): 5.4e-60, 43.54% id in 434 aa. Possible alternative translational start site
YP_041767.1	Similar to Bacillus subtilis hypothetical oxidoreductase YhxD SW:YHXD_BACSU (P40398) (299 aa) fasta scores: E(): 1.1e-63, 60.9% id in 289 aa, and to Escherichia coli hypothetical oxidoreductase YghA TR:AAG58139 (EMBL:U28377) (294 aa) fasta scores: E(): 5.5e-63, 59.79% id in 286 aa
YP_041768.1	catalyzing the hydrolysis of 4-imidazolone-5-propionate to N-formimidoyl-L-glutamate, the third step in the histidine degradation pathway
YP_041769.1	catalyzes the formation of 4-imidazolone-5-propanoate from urocanate during histidine metabolism
YP_041770.1	Similar to Bacillus subtilis als operon regulatory protein AlsR SW:ALSR_BACSU (Q04778) (302 aa) fasta scores: E(): 9.3e-14, 24.15% id in 294 aa, and to Bacillus halodurans transcriptional regulator BH3925 TR:Q9K610 (EMBL:AP001520) (289 aa) fasta scores: E(): 2.5e-14, 25.51% id in 290 aa
YP_041771.1	catalyzes resistance to fosfomycin by the addition of a thiol cofactor
YP_041772.1	catalyzes the formation of glutamate and formamide from N-formimidoyl-L-glutamate
YP_041774.1	catalyzes D-ribose 5-phosphate --> D-ribulose 5-phosphate in the nonoxidative branch of the pentose phosphate pathway
YP_041775.1	Similar to Bacillus subtilis hypothetical protein YflK TR:O34542 (EMBL:Z99108) (221 aa) fasta scores: E(): 3.9e-22, 35.81% id in 215 aa, and to Escherichia coli hypothetical protein YiiM SW:YIIM_ECOLI (P32157) (234 aa) fasta scores: E(): 8e-19, 34.13% id in 208 aa
YP_041776.1	Similar to Haemophilus influenzae aldose 1-epimerase GalM SW:GALM_HAEIN (P31765) (340 aa) fasta scores: E(): 1.8e-17, 29.76% id in 336 aa, and to Lactococcus lactis aldose 1-epimerase GalM TR:Q9CE62 (EMBL:AE006428) (339 aa) fasta scores: E(): 5.1e-32, 34.09% id in 349 aa
YP_041777.1	Similar to Bacillus halodurans hypothetical protein BH2744 TR:Q9K9A5 (EMBL:AP001516) (108 aa) fasta scores: E(): 7.1e-23, 61.68% id in 107 aa, and to Bacillus subtilis hypothetical protein YfjF SW:YFJF_BACSU (O31553) (109 aa) fasta scores: E(): 1.1e-22, 57.94% id in 107 aa
YP_041778.1	Similar to Bacillus subtilis hypothetical protein YhaP SW:YHAP_BACSU (O07523) (419 aa) fasta scores: E(): 3.9e-36, 32.93% id in 419 aa, and to Bacillus firmus hypothetical protein NatB TR:O87565 (EMBL:AF084104) (420 aa) fasta scores: E(): 3.3e-27, 27.99% id in 418 aa
YP_041779.1	Similar to Bacillus firmus hypothetical protein NatA TR:O87564 (EMBL:AF084104) (299 aa) fasta scores: E(): 2.5e-53, 58.3% id in 295 aa, and to Bacillus halodurans ABC transporter BH1166 TR:Q9KDP5 (EMBL:AP001511) (299 aa) fasta scores: E(): 1.8e-52, 55.89% id in 297 aa
YP_041780.1	Poor database matches. N-terminus is weakly similar to Streptococcus thermophilus cysteine aminopeptidase PepC TR:Q56116 (EMBL:Z30315) (146 aa) fasta scores: E(): 0.0053, 27.06% id in 133 aa
YP_041781.1	Doubtful CDS
YP_041782.1	Doubtful CDS
YP_041783.1	Similar to Arabidopsis thaliana DNA-3-methyladenine glycosylase MAG SW:3MG_ARATH (Q39147) (254 aa) fasta scores: E(): 5.8e-08, 29.31% id in 191 aa, and to Bacillus subtilis  3-methyladenine DNA glycosylase YxlJ SW:3MGH_BACSU (P94378) (196 aa) fasta scores: E(): 1.3e-22, 39.68% id in 189 aa
YP_041784.1	Similar to Escherichia coli sodium/glutamate symport carrier protein GltS SW:GLTS_ECOLI (P19933) (401 aa) fasta scores: E(): 1.9e-48, 39.14% id in 396 aa, and to Pseudomonas aeruginosa sodium/glutamate symporter PA3176 TR:Q9HZ58 (EMBL:AE004741) (404 aa) fasta scores: E(): 3.2e-55, 41.19% id in 403 aa
YP_041785.1	catalyzes the isomerization of isopentenyl pyrophosphate to dimethylallyl diphosphate
YP_041786.1	Similar to Bacillus subtilis hypothetical protein YfjQ TR:O31543 (EMBL:Z99108) (319 aa) fasta scores: E(): 1.1e-29, 33.1% id in 296 aa, and to Rhizobium loti divalent cation transport-related protein MLR5559 TR:BAB51987 (EMBL:AP003006) (364 aa) fasta scores: E(): 1e-18, 28.88% id in 322 aa
YP_041787.1	Similar to Rhizobium loti hypothetical protein MLR1489 TR:BAB48851 (EMBL:AP002997) (159 aa) fasta scores: E(): 2.3e-09, 25.15% id in 159 aa, and to Pseudomonas aeruginosa hypothetical protein PA5385 TR:Q9HTH9 (EMBL:AE004951) (159 aa) fasta scores: E(): 2.4e-08, 27.56% id in 156 aa
YP_041788.1	Poor database matches. C-terminal region is similar to Bacillus subtilis plasmid pLS32 hypothetical protein TR:O52943 (EMBL:D49467) (98 aa) fasta scores: E(): 0.31, 30% id in 90 aa
YP_041789.1	Similar to Streptomyces hygroscopicus acetyl-hydrolase Bah SW:BAH_STRHY (Q01109) (299 aa) fasta scores: E(): 4.3e-08, 26.99% id in 226 aa, and to Rhizobium loti esterase MLR1247 TR:BAB48665 (EMBL:AP002997) (317 aa) fasta scores: E(): 6.1e-21, 27.05% id in 292 aa
YP_041791.1	C-terminal region is similar to Escherichia coli multidrug resistance protein B EmrB SW:EMRB_ECOLI (P27304) (512 aa) fasta scores: E(): 1e-33, 29.5% id in 488 aa, and Bacillus subtilis hypothetical transport protein YhcA SW:YHCA_BACSU (P54585) (532 aa) fasta scores: E(): 1e-73, 46.81% id in 502 aa. CDS appears to have an extended N-terminus in comparsion to orthologues
YP_041792.1	Similar to Bacillus subtilis hypothetical protein YhbJ TR:O31593 (EMBL:Z99108) (221 aa) fasta scores: E(): 7.9e-27, 45.02% id in 211 aa, and to the C-terminal region of Rhizobium etli  transport protein RmrA TR:Q9KIH4 (EMBL:AF233286) (396 aa) fasta scores: E(): 9e-08, 30.5% id in 200 aa
YP_041793.1	Similar to Bacillus halodurans transcriptional regulator BH0719 TR:Q9KEY0 (EMBL:AP001509) (188 aa) fasta scores: E(): 1.1e-08, 28.8% id in 184 aa, and to Streptococcus pyogenes  transcriptional regulator SPY2177 TR:Q99XJ5 (EMBL:AE006635) (177 aa) fasta scores: E(): 7e-05, 26.4% id in 178 aa
YP_041794.1	Previously sequenced as Staphylococcus aureus teicoplanin resistance associated membrane protein TcaB TR:Q9F4G1 (EMBL:AY008833) (402 aa) fasta scores: E(): 9.9e-140, 99.75% id in 402 aa. Similar to Bacillus subtilis bicyclomycin resistance protein YdgK TR:P96709 (EMBL:AB001488) (402 aa) fasta scores: E(): 8.8e-42, 38.17% id in 372 aa
YP_041795.1	No significant database matches. Previously sequenced as Staphylococcus aureus teicoplanin resistance associated hypothetical transmembrane protein TcaA TR:Q9F4G2 (EMBL:AY008833) (460 aa) fasta scores: E(): 5.2e-158, 98.69% id in 460 aa
YP_041796.1	Previously sequenced as Staphylococcus aureus teicoplanin resistance associated transcription regulator TcaR TR:Q9F4G3 (EMBL:AY008833) (151 aa) fasta scores: E(): 4.4e-47, 100% id in 151 aa. Similar to Bacillus subtilis YdgG TR:P96705 (EMBL:AB001488) (152 aa) fasta scores: E(): 0.00029, 25% id in 136 aa
YP_041797.1	Similar to Staphylococcus epidermidis  membrane protein EpiH TR:O07859 (EMBL:U77778) (330 aa) fasta scores: E(): 5.5e-18, 30.12% id in 312 aa, and to Staphylococcus gallinarum  membrane protein GdmH TR:O07474 (EMBL:U61158) (330 aa) fasta scores: E(): 1.3e-16, 30.89% id in 314 aa
YP_041798.1	Similar to Lactococcus lactis ABC transporter ATP-binding protein YxeB TR:Q9CDG4 (EMBL:AE006454) (223 aa) fasta scores: E(): 2.5e-30, 46.6% id in 221 aa, and to Streptococcus pyogenes  ABC transporter SPY0773 TR:Q9A0H6 (EMBL:AE006528) (222 aa) fasta scores: E(): 1.3e-26, 42% id in 219 aa
YP_041799.1	Similar to Deinococcus radiodurans hypothetical protein DRA0279 TR:Q9RYN1 (EMBL:AE001863) (353 aa) fasta scores: E(): 2.3e-22, 29.94% id in 354 aa, and to Lactococcus lactis ABC transporter permease YgfB TR:Q9CHR2 (EMBL:AE006299) (357 aa) fasta scores: E(): 6.3e-22, 29.36% id in 361 aa
YP_041800.1	Two-component regulatory system family, response regulator protein. Similar to Mycobacterium tuberculosis sensory transduction protein RegX3 SW:RGX3_MYCTU (Q11156) (227 aa) fasta scores: E(): 2.3e-28, 40.96% id in 227 aa, and to Mycobacterium bovis sensory transduction protein RegX3 SW:RGX3_MYCBO (O07130) (227 aa) fasta scores: E(): 4.9e-28, 40.52% id in 227 aa
YP_041801.1	Two-component regulatory system family, sensor kinase. Similar to Escherichia coli copper-responsive sensor kinase CusS SW:CUSS_ECOLI (P77485) (480 aa) fasta scores: E(): 7.4e-17, 27.44% id in 481 aa, and to Bacillus subtilis hypothetical protein YvqB TR:O32193 (EMBL:Z99120) (451 aa) fasta scores: E(): 3.2e-16, 25.32% id in 458 aa
YP_041802.1	Similar to Lactococcus lactis hypothetical protein YfcC TR:Q9CI31 (EMBL:AE006287) (152 aa) fasta scores: E(): 0.19, 24.32% id in 148 aa. C-terminus is similar to the C-terminal region of Pseudomonas aeruginosa positive alginate biosynthesis regulatory protein AlgR SW:ALGR_PSEAE (P26275) (248 aa) fasta scores: E(): 0.16, 29.52% id in 105 aa
YP_041803.1	Poor database matches. Weak similarity to Ochromonas danica hypothetical protein Orf154 TR:Q9G294 (EMBL:AF287134) (154 aa) fasta scores: E(): 0.38, 25.85% id in 147 aa
YP_041804.1	Similar to Streptococcus pyogenes  transcriptional regulator SPY2177 TR:Q99XJ5 (EMBL:AE006635) (177 aa) fasta scores: E(): 1.8e-11, 29.88% id in 174 aa, and to Bacillus halodurans transcriptional regulator BH0719 TR:Q9KEY0 (EMBL:AP001509) (188 aa) fasta scores: E(): 5.4e-09, 26.66% id in 180 aa
YP_041805.1	Similar to Bacillus subtilis hypothetical protein YfiL TR:P94440 (EMBL:D78508) (311 aa) fasta scores: E(): 4.7e-24, 41.07% id in 224 aa. Similar to an internal region of Rhizobium sp nodulation ATP-binding protein I NodI SW:NODI_RHISN (P55476) (343 aa) fasta scores: E(): 1.1e-22, 38.59% id in 228 aa
YP_041806.1	Similar to Lactococcus lactis ABC transporter permease YcfC TR:Q9CIV1 (EMBL:AE006262) (380 aa) fasta scores: E(): 1.7e-30, 37.46% id in 379 aa, and to Archaeoglobus fulgidus  ABC transporter ATP-binding protein AF1005 TR:O29257 (EMBL:AE001034) (366 aa) fasta scores: E(): 1.4e-17, 22.06% id in 358 aa
YP_041807.2	malate dehydrogenase; catalyzes the oxidation of malate to oxaloacetate
YP_041808.1	Similar to Escherichia coli L-lactate permease LldP SW:LLDP_ECOLI (P33231) (551 aa) fasta scores: E(): 6.2e-49, 45.1% id in 541 aa, and to Bacillus subtilis L-lactate permease LctP TR:O31470 (EMBL:Z99105) (541 aa) fasta scores: E(): 1.4e-95, 50.73% id in 542 aa. Similar to SAR0113, 65.977% identity (66.352% ungapped) in 532 aa overlap
YP_041809.1	No significant database matches to the full length CDS. Internal region of the CDS is similar to an internal region of Staphylococcus epidermidis CDP-glycerol:poly(glycerophosphate) glycerophosphotransferase TagF TR:Q9RPD1 (EMBL:AF162863) (721 aa) fasta scores: E(): 0.0032, 23.76% id in 324 aa, and to Lactococcus lactis teichoic acid biosynthesis protein B TagB TR:Q9CH14 (EMBL:AE006327) (371 aa) fasta scores: E(): 0.041, 22.22% id in 234 aa
YP_041810.1	No significant database matches. Contains hydrophobic region, residues 18 to 107
YP_041811.1	Similar to Bacillus subtilis protease synthase and sporulation negative regulatory protein Pai 1 PaiA SW:PAIA_BACSU (P21340) (171 aa) fasta scores: E(): 1.5e-21, 41.31% id in 167 aa, and to Lactobacillus delbrueckii hypothetical protein SW:YPIP_LACDL (P46543) (173 aa) fasta scores: E(): 5.7e-21, 38.95% id in 172 aa
YP_041812.1	Similar to Homo sapiens quinone oxidoreductase CRYZ SW:QOR_HUMAN (Q08257) (329 aa) fasta scores: E(): 1.6e-10, 28.23% id in 301 aa, and to Bacillus subtilis hypothetical protein YhfP TR:O07615 (EMBL:Y14084) (330 aa) fasta scores: E(): 4.2e-54, 47.41% id in 329 aa
YP_041813.1	Similar to Lactococcus lactis hypothetical protein YfiL TR:Q9CHW9 (EMBL:AE006293) (154 aa) fasta scores: E(): 0.0048, 29.46% id in 112 aa, and to Streptococcus pyogenes ribosomal-protein-alanine acetyltransferase SPY1873 TR:Q99Y45 (EMBL:AE006612) (141 aa) fasta scores: E(): 0.02, 30.43% id in 115 aa
YP_041814.1	Similar to Bacillus subtilis hypothetical protein YcgT TR:O31475 (EMBL:Z99105) (336 aa) fasta scores: E(): 1.4e-37, 36.58% id in 328 aa, and to Bacillus halodurans thioredoxin reductase BH3408 TR:Q9K7F3 (EMBL:AP001518) (330 aa) fasta scores: E(): 1.4e-34, 34.45% id in 328 aa
YP_041815.1	Poor database matches. Weak similarity to Rhizobium loti hypothetical protein MLR0532 TR:BAB48098 (EMBL:AP002995) (160 aa) fasta scores: E(): 1.1, 25.33% id in 150 aa
YP_041816.1	No significant database matches to the full length CDS. N-terminus is weakly similar to the N-terminal region of Lactococcus lactis phage infection protein Pip SW:PIP_LACLA (P49022) (901 aa) fasta scores: E(): 0.00046, 27.12% id in 317 aa
YP_041817.1	Similar to Lactococcus lactis transcriptional regulator YxcB TR:Q9CDI1 (EMBL:AE006453) (204 aa) fasta scores: E(): 3e-10, 26.86% id in 201 aa, and to Bacillus halodurans transcriptional regulator BH0719 TR:Q9KEY0 (EMBL:AP001509) (188 aa) fasta scores: E(): 1.5e-08, 29.67% id in 182 aa
YP_041818.1	Similar to Streptococcus pyogenes  divalent cation transport protein SPY1827 TR:Q99Y83 (EMBL:AE006609) (314 aa) fasta scores: E(): 2.3e-31, 37.28% id in 295 aa, and to Lactococcus lactis cationic transporter ypbB TR:Q9CFJ3 (EMBL:AE006378) (301 aa) fasta scores: E(): 5e-32, 36.64% id in 292 aa
YP_041819.1	Similar to Staphylococcus xylosus PTS system, sucrose-specific IIBC component ScrA SW:PTSB_STAXY (P51184) (480 aa) fasta scores: E(): 5.9e-145, 82.21% id in 478 aa, and to Vibrio cholerae PTS system, sucrose-specific IIBC component VCA0653 TR:Q9KLT8 (EMBL:AE004395) (479 aa) fasta scores: E(): 8.3e-104, 59.16% id in 480 aa
YP_041820.1	Poor database matches. Similar to Streptococcus pyogenes hypothetical protein SPY0771 TR:Q9A0H8 (EMBL:AE006528) (128 aa) fasta scores: E(): 1.8e-09, 35.59% id in 118 aa
YP_041821.1	No significant database matches to the full length CDS. N-terminal region is weakly similar to Streptococcus mutans msm operon regulatory protein MsmR SW:MSMR_STRMU (Q00753) (278 aa) fasta scores: E(): 4.3e-06, 25.71% id in 245 aa
YP_041822.1	Similar to Bacillus subtilis general stress protein 26 YdaG SW:GS26_BACSU (P80238) (140 aa) fasta scores: E(): 3.1e-16, 38.57% id in 140 aa
YP_041823.1	Poor database matches. Weakly similar to Fowlpox virus hypothetical protein FPV145 TR:Q9J585 (EMBL:AF198100) (103 aa) fasta scores: E(): 1.2, 27.27% id in 99 aa
YP_041824.1	Similar to Staphylococcus aureus prophage phiPV83 transposase TR:Q9MBP7 (EMBL:AB044554) (548 aa) fasta scores: E(): 7.9e-199, 99.453% id in 548 aa, and to Bacillus halodurans cassette chromosome recombinase B1 BH0682 TR:Q9KF15 (EMBL:AP001509) (522 aa) fasta scores: E(): 3.2e-99, 52.115% id in 520 aa
YP_041825.1	Similar to Bacillus stearothermophilus proton/sodium-glutamate symport protein GltT SW:GLTT_BACST (P24943) (421 aa) fasta scores: E(): 1.7e-88, 55.23% id in 420 aa, and to Bacillus caldotenax proton/sodium-glutamate symport protein GltT SW:GLTT_BACCA (P24944) (421 aa) fasta scores: E(): 3.3e-88, 55.63% id in 417 aa
YP_041826.1	Poor database matches. Similar to the N-terminal region of Bacillus halodurans D-alanyl-D-alanine carboxypeptidase BH1810 TR:Q9KBW4 (EMBL:AP001513) (290 aa) fasta scores: E(): 1.5, 28.88% id in 90 aa
YP_041827.1	N-terminus is similar to the N-terminal regions of Lactococcus lactis transcriptional regulator RmaJ TR:Q9CHX7 (EMBL:AE006292) (143 aa) fasta scores: E(): 4e-18, 55.35% id in 112 aa, and Bacillus subtilis hypothetical protein YkmA TR:O34777 (EMBL:AJ002571) (147 aa) fasta scores: E(): 3.2e-13, 45.71% id in 105 aa
YP_041828.1	Similar to Clostridium acetobutylicum 18 kDa heat shock protein Hsp18 SW:HS18_CLOAB (Q03928) (151 aa) fasta scores: E(): 1e-06, 31.74% id in 126 aa, and to Streptococcus thermophilus second small heat shock protein Hsp2 TR:O52192 (EMBL:AF027167) (142 aa) fasta scores: E(): 5.4e-13, 40.84% id in 142 aa
YP_041829.1	Similar to Staphylococcus carnosus nitrate transporter NarT TR:O33854 (EMBL:U40014) (388 aa) fasta scores: E(): 6.1e-106, 74.54% id in 381 aa, and to Bacillus subtilis nitrite extrusion protein NarK SW:NARK_BACSU (P46907) (395 aa) fasta scores: E(): 3.8e-72, 53.47% id in 374 aa
YP_041830.1	Poor database matches. Similar to Bacillus subtilis hypothetical protein YjfC TR:O34458 (EMBL:AF015825) (309 aa) fasta scores: E(): 1e-22, 30.2% id in 298 aa
YP_041831.1	Two-component regulatory system family, response regulator protein. Similar to Vibrio vulnificus transcriptional regulator TR:Q9AEP5 (EMBL:AY029275) (212 aa) fasta scores: E(): 4.1e-26, 42.13% id in 216 aa. C-terminal region is similar to Staphylococcus carnosus response regulator-like protein TR:Q9ZB65 (EMBL:U40158) (185 aa) fasta scores: E(): 1.1e-58, 85.4% id in 185 aa
YP_041832.1	C-terminus is similar to the C-terminal regions of Bacillus subtilis sensor protein two-component sensor histidine kinase DegS SW:DEGS_BACSU (P13799) (385 aa) fasta scores: E(): 1.7e-16, 29.56% id in 274 aa, and Bacillus halodurans two-component sensor histidine kinase BH3629 TR:Q9K6U6 (EMBL:AP001519) (377 aa) fasta scores: E(): 1.1e-18, 30.11% id in 269 aa
YP_041833.1	Poor database matches. Similar to an internal region of Streptomyces coelicolor hypothetical protein 2SCG2.24c TR:Q9EX29 (EMBL:AL445963) (634 aa) fasta scores: E(): 1.1, 23.3% id in 133 aa
YP_041834.1	Similar to Bacillus subtilis nitrate reductase gamma chain NarI SW:NARI_BACSU (P42177) (223 aa) fasta scores: E(): 1.3e-41, 49.09% id in 222 aa, and to Staphylococcus carnosus  nitrate reductase gamma chain NarI TR:Q9ZIF5 (EMBL:AF029224) (227 aa) fasta scores: E(): 1.1e-64, 70.53% id in 224 aa
YP_041835.1	Similar to Escherichia coli respiratory nitrate reductase 2 delta chain NarW SW:NARW_ECOLI (P19317) (231 aa) fasta scores: E(): 0.00098, 24.71% id in 174 aa, and to Staphylococcus carnosus  nitrate reductase delta chain NarJ TR:Q9ZIF6 (EMBL:AF029224) (191 aa) fasta scores: E(): 7.8e-52, 68.06% id in 191 aa
YP_041836.1	Similar to Bacillus subtilis nitrate reductase beta chain NarH SW:NARH_BACSU (P42176) (487 aa) fasta scores: E(): 5.3e-142, 66.94% id in 484 aa, and to Staphylococcus carnosus  nitrate reductase beta chain NarH TR:Q9ZIF7 (EMBL:AF029224) (525 aa) fasta scores: E(): 1.5e-187, 83.61% id in 525 aa
YP_041837.1	Similar to Bacillus subtilis nitrate reductase alpha chain NarG SW:NARG_BACSU (P42175) (1228 aa) fasta scores: E(): 0, 59.21% id in 1226 aa, and to Staphylococcus carnosus  nitrate reductase alpha chainNarG TR:Q9ZIF8 (EMBL:AF029224) (1224 aa) fasta scores: E(): 0, 80.55% id in 1229 aa
YP_041838.1	N-terminal region is similar to Bacillus megaterium uroporphyrin-III C-methyltransferase CobA SW:SUMT_BACME (P29928) (238 aa) fasta scores: E(): 2.8e-31, 43.69% id in 238 aa. Full length CDS is similar to Staphylococcus carnosus hypothetical protein SirB TR:Q9X2N1 (EMBL:AF029224) (317 aa) fasta scores: E(): 2.6e-57, 52.05% id in 317 aa
YP_041839.1	Similar to Bacillus subtilis assimilatory nitrite reductase [NAD(P)H] small subunit NasE SW:NASE_BACSU (P42436) (106 aa) fasta scores: E(): 1.3e-17, 50.51% id in 97 aa, and to Staphylococcus carnosus  assimilatory nitrite reductase small subunit NirD TR:Q9X2N0 (EMBL:AF029224) (104 aa) fasta scores: E(): 1.3e-29, 69.23% id in 104 aa
YP_041840.1	Similar to Bacillus subtilis nitrite reductase [NAD(P)H] large subunit NasD SW:NASD_BACSU (P42435) (805 aa) fasta scores: E(): 2.6e-168, 53.18% id in 801 aa, and to Staphylococcus carnosus  nitrite reductase [NAD(P)H] large subunit NirB TR:Q9X2M9 (EMBL:AF029224) (801 aa) fasta scores: E(): 0, 77.77% id in 801 aa
YP_041841.1	Similar to Staphylococcus carnosus hypothetical protein NirR TR:Q9X2M7 (EMBL:AF029224) (240 aa) fasta scores: E(): 3e-26, 35.16% id in 236 aa, and to Bacillus subtilis hypothetical protein YlnE TR:O34632 (EMBL:AJ000974) (261 aa) fasta scores: E(): 4.9e-09, 22.67% id in 247 aa
YP_041842.1	Similar to Bacillus subtilis hypothetical protein YtmI TR:O34350 (EMBL:AF008220) (178 aa) fasta scores: E(): 7.9e-40, 57.95% id in 176 aa, and to Bacillus subtilis hypothetical protein YxeL SW:YXEL_BACSU (P54951) (165 aa) fasta scores: E(): 1.7e-24, 45.86% id in 157 aa
YP_041843.1	Similar to Escherichia coli potential nitrite transporter NirC SW:NIRC_ECOLI (P11097) (268 aa) fasta scores: E(): 6.3e-12, 30.57% id in 242 aa, and to Staphylococcus carnosus potential nitrite transporter NirC TR:Q9X2M6 (EMBL:AF029224) (276 aa) fasta scores: E(): 5.3e-63, 63.63% id in 275 aa
YP_041845.1	Similar to Bacillus halodurans hypothetical protein BH0695 TR:Q9KF04 (EMBL:AP001509) (169 aa) fasta scores: E(): 7e-09, 28.22% id in 163 aa, and to Caulobacter crescentus hypothetical protein CC3077 TR:Q9A3X4 (EMBL:AE005971) (158 aa) fasta scores: E(): 1.9e-05, 26.49% id in 151 aa
YP_041846.1	Similar to Streptococcus pyogenes zinc-binding protein AdcA precursor SPY0714 TR:Q9A0L9 (EMBL:AE006523) (515 aa) fasta scores: E(): 1.9e-53, 37.02% id in 524 aa. N-terminal region is similar to Bacillus subtilis hypothetical protein YcdH TR:O34966 (EMBL:AB000617) (319 aa) fasta scores: E(): 1.7e-15, 33.84% id in 325 aa
YP_041847.1	Similar to Escherichia coli hypothetical protein YoeB SW:YOEB_ECOLI (P56605) (84 aa) fasta scores: E(): 6.8e-14, 52.94% id in 85 aa, and to Streptomyces coelicolor hypothetical protein SCBAC17D6.03 TR:Q9Z4V8 (EMBL:Y17736) (84 aa) fasta scores: E(): 1.1e-11, 47.05% id in 85 aa
YP_041848.1	Similar to Escherichia coli hypothetical protein YefM SW:YEFM_ECOLI (P46147) (83 aa) fasta scores: E(): 3.7e-07, 44.15% id in 77 aa, and to Streptomyces coelicolor hypothetical protein SCBAC17D6.02 SW:YU1E_STRCO (Q9Z4V7) (87 aa) fasta scores: E(): 1.4e-05, 42.66% id in 75 aa
YP_041849.1	Similar to Caulobacter crescentus hypothetical protein CC0375 TR:Q9AB57 (EMBL:AE005710) (204 aa) fasta scores: E(): 0.00026, 28.27% id in 191 aa. C-terminus is similar to the C-terminal region of Bacillus subtilis hypothetical protein YvgV TR:O32218 (EMBL:Z99121) (222 aa) fasta scores: E(): 7e-14, 36.41% id in 173 aa
YP_041850.1	Similar to Bacillus subtilis hypothetical protein YddJ TR:P96647 (EMBL:AB001488) (126 aa) fasta scores: E(): 0.12, 29.34% id in 92 aa
YP_041851.1	Similar to Staphylococcus aureus factor essential for expression of methicillin resistance FemA SW:FEMA_STAAU (P14304) (433 aa) fasta scores: E(): 7.3e-63, 43.82% id in 413 aa. Previously sequenced as Staphylococcus aureus FemA-like protein FmhA TR:Q9X4D6 (EMBL:AF106849) (416 aa) fasta scores: E(): 1.1e-152, 98.31% id in 416 aa. Similar to SAR1224, 60.934% identity (60.934% ungapped) in 407 aa overlap
YP_041852.1	Similar to Bacillus subtilis hypothetical protein YckI TR:Q9F4F9 (EMBL:AY009114) (247 aa) fasta scores: E(): 1.8e-44, 58.43% id in 243 aa, and to Bacillus halodurans amino acid ABC transporter (ATP-binding protein) BH0172 TR:Q9KGD1 (EMBL:AP001507) (247 aa) fasta scores: E(): 2.7e-44, 58.6% id in 244 aa. Similar to SAR1948, 54.622% identity (55.319% ungapped) in 238 aa overlap
YP_041853.1	Similar to Lactobacillus fermentum integral membrane protein homologue TR:O06528 (EMBL:U97348) (233 aa) fasta scores: E(): 2.3e-31, 45.74% id in 223 aa, and to Lactobacillus reuteri  transmembrane protein TR:Q9FCU7 (EMBL:AJ293860) (233 aa) fasta scores: E(): 3.1e-31, 46.18% id in 223 aa
YP_041854.1	Similar to Escherichia coli cystine-binding periplasmic protein precursor FliY SW:FLIY_ECOLI (P39174) (266 aa) fasta scores: E(): 1e-22, 37.22% id in 231 aa, and to Haemophilus influenzae probable amino-acid ABC transporter binding protein HI1080 SW:YA80_HAEIN (P45024) (257 aa) fasta scores: E(): 6.6e-39, 45.73% id in 258 aa
YP_041855.1	Similar to Bacillus subtilis hypothetical protein YcnB TR:P94422 (EMBL:D50453) (472 aa) fasta scores: E(): 2e-68, 41.7% id in 470 aa, and to Bacillus subtilis lincomycin-resistance protein LmrB TR:O35018 (EMBL:AB000617) (479 aa) fasta scores: E(): 1.2e-62, 37.44% id in 478 aa
YP_041856.1	2,3-bisphosphoglycerate-dependent; catalyzes the interconversion of 2-phosphoglycerate to 3-phosphoglycerate
YP_041857.1	Similar to Bacillus subtilis hypothetical protein YdbO TR:P96610 (EMBL:AB001488) (290 aa) fasta scores: E(): 2.8e-42, 42.9% id in 289 aa, and to the N-terminal region of Streptococcus pyogenes  cation efflux system protein SPY1272 TR:Q99ZD9 (EMBL:AE006566) (411 aa) fasta scores: E(): 9.5e-40, 40.92% id in 281 aa
YP_041858.1	Similar to Staphylococcus aureus IgG-binding protein Sbi TR:O52187 (EMBL:AF027155) (436 aa) fasta scores: E(): 2.2e-121, 93.13% id in 437 aa. N-terminus is similar to the N-terminal region of Staphylococcus aureus immunoglobulin G binding protein A precursor Spa SW:SPA1_STAAU (P02976) (524 aa) fasta scores: E(): 1.4e-07, 28.77% id in 351 aa
YP_041859.1	Highly similar to Staphylococcus aureus gamma-hemolysin component A precursor HlgA SW:HLGA_STAAU (P31714) (309 aa) fasta scores: E(): 3.1e-115, 99.35% id in 309 aa. Similar to Staphylococcus aureus leukocidin S subunit precursor LukS SW:LUKS_STAAU (P31716) (315 aa) fasta scores: E(): 1.4e-76, 68.26% id in 312 aa. Similar to SAR2510, 68.910% identity (70.724% ungapped) in 312 aa overlap
YP_041860.1	Highly similar to Staphylococcus aureus leukocidin S subunit precursor LukS SW:LUKS_STAAU (P31716) (315 aa) fasta scores: E(): 8.6e-118, 97.77% id in 315 aa. Similar to Staphylococcus aureus gamma-hemolysin component A precursor HlgA SW:HLGA_STAAU (P31714) (309 aa) fasta scores: E(): 1.3e-77, 68.59% id in 312 aa. Similar to SAR2509, 68.910% identity (70.724% ungapped) in 312 aa overlap
YP_041861.1	Identical to Staphylococcus aureus HlgB-like precursor Luk F-R TR:Q57227 (EMBL:X81586) (325 aa) fasta scores: E(): 1.4e-125, 100% id in 325 aa. Similar to Staphylococcus aureus leukocidin F subunit precursor LukF SW:LUKF_STAAU (P31715) (323 aa) fasta scores: E(): 1.5e-119, 96.3% id in 325 aa
YP_041862.1	Similar to Bacillus sphaericus hypothetical protein BioX SW:BIOX_BACSH (P22821) (166 aa) fasta scores: E(): 2.6e-15, 40% id in 145 aa, and to Streptococcus pyogenes hypothetical protein SPY0373 TR:Q9A1A8 (EMBL:AE006500) (187 aa) fasta scores: E(): 1.2, 27.95% id in 161 aa
YP_041863.1	catalyzes the formation of pimeloyl-CoA from pimelate and coenzyme A
YP_041864.1	Similar to Bacillus subtilis 8-amino-7-oxononanoate synthase BioF SW:BIOF_BACSU (P53556) (389 aa) fasta scores: E(): 2.6e-29, 29.63% id in 378 aa, and to Bacillus sphaericus 8-amino-7-oxononanoate synthase BioF SW:BIOF_BACSH (P22806) (389 aa) fasta scores: E(): 2.5e-27, 29.45% id in 370 aa
YP_041865.1	catalyzes the formation of biotin from dethiobiotin and sulfur 2 S-adenosyl-L-methionine
YP_041866.1	Similar to Bacillus subtilis adenosylmethionine-8-amino-7-oxononanoate aminotransferase BioA SW:BIOA_BACSU (P53555) (448 aa) fasta scores: E(): 3.6e-83, 48.43% id in 446 aa, and to Bacillus sphaericus adenosylmethionine-8-amino-7-oxononanoate aminotransferase BioA SW:BIOA_BACSH (P22805) (455 aa) fasta scores: E(): 2.2e-63, 36.44% id in 450 aa
YP_041867.1	Similar to Bacillus sphaericus dethiobiotin synthetase BioD SW:BIOD_BACSH (P22818) (234 aa) fasta scores: E(): 7.1e-11, 29.3% id in 215 aa, and to Bacillus subtilis dethiobiotin synthetase BioD SW:BIOD_BACSU (P53558) (231 aa) fasta scores: E(): 4.5e-07, 28.42% id in 197 aa
YP_041868.1	Similar to Proteus mirabilis NrpA hypothetical protein TR:Q9ZB58 (EMBL:U46488) (588 aa) fasta scores: E(): 1.2e-51, 33.79% id in 577 aa, and to Thermotoga maritima hypothetical ABC transporter ATP-binding protein TM0288 SW:Y288_THEMA (Q9WYC4) (598 aa) fasta scores: E(): 5.7e-45, 31.87% id in 571 aa
YP_041869.1	Similar to Zymomonas mobilis lipoprotein inner membrane ABC-transporter TR:Q9REN6 (EMBL:AF213822) (599 aa) fasta scores: E(): 1.2e-53, 33.91% id in 575 aa, and to Streptomyces coelicolor  ABC transporter ATP-binding protein SC4C2.24 TR:Q9EWN8 (EMBL:AL450432) (608 aa) fasta scores: E(): 2.6e-52, 34.04% id in 564 aa
YP_041870.1	Doubtful CDS
YP_041871.1	Doubtful CDS. No significant database matches
YP_041872.1	Similar to Listeria monocytogenes cell wall teichoic acid glycosylation protein GtcA SW:GTCA_LISMO (Q9ZH29) (123 aa) fasta scores: E(): 0.00074, 28.92% id in 121 aa, and to Streptomyces coelicolor  sugar translocase 2SCK8.02 TR:Q9AK50 (EMBL:AL589164) (148 aa) fasta scores: E(): 1.5e-14, 41.37% id in 116 aa
YP_041873.1	Similar to Escherichia coli glycerate kinase 1 GlxK SW:GRK1_ECOLI (P77364) (381 aa) fasta scores: E(): 4.9e-61, 46.93% id in 375 aa, and to Bacillus halodurans glycerate kinase BH0555 SW:GRK_BACHD (Q9Z9P2) (380 aa) fasta scores: E(): 1.1e-68, 50.26% id in 374 aa
YP_041875.1	Similar to Staphylococcus aureus teicoplanin resistance associated membrane protein TcaB TR:Q9F4G1 (EMBL:AY008833) (402 aa) fasta scores: E(): 1.7e-62, 47.46% id in 394 aa, and to Escherichia coli bicyclomycin resistance protein Bcr SW:BCR_ECOLI (P28246) (396 aa) fasta scores: E(): 7.1e-30, 28.98% id in 376 aa
YP_041876.1	Similar to the C-terminal regions of Lactococcus lactis positive transcriptional activator TR:O87252 (EMBL:AE001272) (265 aa) fasta scores: E(): 1.7e-12, 33.12% id in 157 aa, and Bacillus subtilis probable AraC family transcriptional regulator YdeE TR:P96662 (EMBL:AB001488) (290 aa) fasta scores: E(): 0.35, 21.34% id in 164 aa. Possible gene remnant
YP_041877.1	Similar to the C-terminal regions of Bacillus subtilis hypothetical protein YvpB TR:O34735 (EMBL:AF017113) (250 aa) fasta scores: E(): 0.0011, 26.59% id in 173 aa, and Lactococcus lactis hypothetical protein YxaF TR:Q9CDJ5 (EMBL:AE006451) (225 aa) fasta scores: E(): 0.053, 25.3% id in 166 aa. Possible gene remnant
YP_041878.1	Similar to Lactococcus lactis hypothetical protein YjjH TR:Q9CGX2 (EMBL:AE006331) (243 aa) fasta scores: E(): 9.5e-06, 26.27% id in 255 aa, and to Bacillus subtilis hypothetical protein YotB TR:O34642 (EMBL:Z99114) (275 aa) fasta scores: E(): 0.0094, 23.55% id in 276 aa
YP_041879.1	Similar to Escherichia coli D-serine/D-alanine/glycine transporter CycA SW:CYCA_ECOLI (P39312) (470 aa) fasta scores: E(): 8.3e-88, 50.44% id in 454 aa, and to Bacillus subtilis hypothetical transport protein YdgF SW:YDGF_BACSU (P96704) (458 aa) fasta scores: E(): 5.1e-87, 51.58% id in 442 aa. Similar to SAR1775, 65.410% identity (65.556% ungapped) in 451 aa overlap
YP_041880.1	Similar to Bacillus subtilis hypothetical protein YvgP TR:O32212 (EMBL:Z99121) (670 aa) fasta scores: E(): 3.4e-48, 31.06% id in 692 aa, and to Lactococcus lactis Na+/H+ antiporter YdiF TR:Q9CIH7 (EMBL:AE006275) (680 aa) fasta scores: E(): 5.5e-36, 27.32% id in 688 aa
YP_041881.1	Similar to Bacillus subtilis hypothetical protein YdaO TR:P96589 (EMBL:AB001488) (607 aa) fasta scores: E(): 3.9e-126, 56.55% id in 610 aa, and to Mycobacterium tuberculosis hypothetical protein MTCY05A6.11c TR:O07192 (EMBL:Z96072) (657 aa) fasta scores: E(): 5.7e-32, 35.33% id in 634 aa
YP_041882.1	Highly similar to Staphylococcus aureus FmtA-like protein Flp TR:Q9KJ74 (EMBL:AF210139) (498 aa) fasta scores: E(): 1.3e-171, 94.76% id in 497 aa. Similar to Bacillus halodurans hypothetical protein BH0715 TR:Q9KEY4 (EMBL:AP001509) (478 aa) fasta scores: E(): 2.2e-21, 26.84% id in 462 aa
YP_041883.1	Similar to Vibrio cholerae hypothetical protein VC1697 TR:Q9KRE5 (EMBL:AE004247) (276 aa) fasta scores: E(): 0.001, 22.82% id in 276 aa, and to Halobacterium sp hypothetical protein VNG0267H TR:Q9HSE7 (EMBL:AE004989) (297 aa) fasta scores: E(): 2e-06, 25.09% id in 255 aa
YP_041884.1	ketopantoate reductase; catalyzes the NADPH reduction of ketopantoate to pantoate; functions in pantothenate (vitamin B5) biosynthesis
YP_041885.1	Similar to Pseudomonas aeruginosa probable MFS transporter PA1316 TR:Q9I428 (EMBL:AE004561) (513 aa) fasta scores: E(): 6e-26, 31.45% id in 426 aa, and to Rhizobium loti transmembrane efflux protein MLL5686 TR:BAB52087 (EMBL:AP003007) (502 aa) fasta scores: E(): 1.5e-24, 26.1% id in 429 aa. Similar to SAR0109, 59.913% identity (60.706% ungapped) in 459 aa overlap, and to SAR1448, 57.204% identity (58.079% ungapped) in 465 aa overlap
YP_041886.1	Similar to Bacillus subtilis glycine betaine/carnitine/choline ABC transporter permease OpuCD SW:OPCD_BACSU (O34742) (229 aa) fasta scores: E(): 1.8e-46, 59.25% id in 216 aa, and to Listeria monocytogenes membrane permease OpuCD TR:Q9KHT6 (EMBL:AF249729) (223 aa) fasta scores: E(): 5.1e-46, 61.11% id in 216 aa
YP_041887.1	Similar to Bacillus subtilis glycine betaine/carnitine/choline-binding protein precursor OpuCC SW:OPCC_BACSU (O32243) (303 aa) fasta scores: E(): 3e-65, 56.2% id in 306 aa, and to Listeria monocytogenes substrate binding protein OpuCC TR:Q9KHT7 (EMBL:AF249729) (308 aa) fasta scores: E(): 1e-70, 60.51% id in 309 aa
YP_041888.1	Similar to Bacillus subtilis glycine betaine/carnitine/choline ABC transporter permease OpuCB SW:OPCB_BACSU (O34878) (217 aa) fasta scores: E(): 2.6e-39, 51.92% id in 208 aa, and to Listeria monocytogenes membrane permease OpuCB TR:Q9KHT8 (EMBL:AF249729) (218 aa) fasta scores: E(): 1.1e-38, 53.36% id in 208 aa
YP_041889.1	Similar to Bacillus subtilis glycine betaine/carnitine/choline transport ATP-binding protein OpuCA SW:OPCA_BACSU (O34992) (380 aa) fasta scores: E(): 5.9e-76, 59.2% id in 375 aa, and to Listeria monocytogenes ATPase OpuCA TR:Q9KHT9 (EMBL:AF249729) (397 aa) fasta scores: E(): 4.5e-81, 60.56% id in 393 aa
YP_041890.1	Similar to Bacillus halodurans hypothetical protein BH2088 TR:Q9Z9R5 (EMBL:AB013367) (197 aa) fasta scores: E(): 4.4e-37, 55.05% id in 198 aa, and to Bacillus subtilis hypothetical protein YdeI TR:P96666 (EMBL:AB001488) (197 aa) fasta scores: E(): 1.2e-35, 54.54% id in 198 aa
YP_041891.1	Similar to Bacillus subtilis YbeC TR:Q45577 (EMBL:Z99105) (539 aa) fasta scores: E(): 5.7e-102, 48.23% id in 539 aa, and to Thermoplasma acidophilum L-asparagine permease related protein TA0427 TR:Q9HL13 (EMBL:AL445064) (557 aa) fasta scores: E(): 2.6e-56, 32.38% id in 525 aa
YP_041892.1	Similar to Bacillus subtilis para-nitrobenzyl esterase PnbA SW:PNBA_BACSU (P37967) (489 aa) fasta scores: E(): 6.2e-31, 32.54% id in 464 aa, and to Bacillus sp BP-7 type B carboxylesterase EstA1 TR:Q9L378 (EMBL:AJ278066) (486 aa) fasta scores: E(): 1.1e-31, 31.6% id in 462 aa
YP_041893.1	Similar to Pseudomonas aeruginosa probable MFS transporter PA3303 TR:Q9HYU1 (EMBL:AE004752) (391 aa) fasta scores: E(): 1.8e-29, 33.05% id in 363 aa, and to Bacillus subtilis hypothetical protein YdhL TR:O05504 (EMBL:D88802) (425 aa) fasta scores: E(): 1e-28, 30.76% id in 377 aa
YP_041894.1	Similar to Escherichia coli hypothetical protein YbbM SW:YBBM_ECOLI (P77307) (259 aa) fasta scores: E(): 5.2e-38, 45.96% id in 248 aa, and to Bacillus subtilis hypothetical protein YjkA TR:O34684 (EMBL:AF015825) (250 aa) fasta scores: E(): 6.3e-21, 32.12% id in 249 aa
YP_041895.1	Similar to Escherichia coli hypothetical ABC transporter ATP-binding protein YbbL SW:YBBL_ECOLI (P77279) (225 aa) fasta scores: E(): 3.5e-23, 42.92% id in 205 aa, and to Methanococcus jannaschii hypothetical ABC transporter ATP-binding protein MJ1508 SW:YF08_METJA (Q58903) (224 aa) fasta scores: E(): 1e-15, 36.63% id in 202 aa
YP_041896.1	Similar to Lactococcus lactis glutamyl-aminopeptidase PepA SW:PEPA_LACLC (Q48677) (355 aa) fasta scores: E(): 2.7e-39, 37.39% id in 353 aa, and to Bacillus subtilis hypothetical protein YsdC TR:P94521 (EMBL:Z75208) (361 aa) fasta scores: E(): 2.7e-71, 52.08% id in 359 aa
YP_041897.1	Similar to Listeria monocytogenes hypothetical lipoprotein precursor SW:YORZ_LISMO (P33385) (153 aa) fasta scores: E(): 7.9e-12, 40.39% id in 151 aa, and to Escherichia coli hypothetical lipoprotein precursor YehR SW:YEHR_ECOLI (P33354) (153 aa) fasta scores: E(): 1.8e-08, 34.89% id in 149 aa
YP_041898.1	Similar to Bacillus subtilis YerD TR:O34849 (EMBL:Z99107) (525 aa) fasta scores: E(): 4.4e-112, 56.27% id in 526 aa, and to Pseudomonas aeruginosa hypothetical protein PA3602 TR:Q9HY24 (EMBL:AE004780) (536 aa) fasta scores: E(): 5.4e-45, 35.52% id in 518 aa
YP_041899.1	Similar to Bacillus anthracis plasmid pXO2 hypothetical protein pXO2-46 TR:Q9RMY6 (EMBL:AF188935) (221 aa) fasta scores: E(): 0.29, 22.17% id in 230 aa, and to Bacillus subtilis hypothetical protein YybL SW:YYBL_BACSU (P37492) (236 aa) fasta scores: E(): 0.31, 21.88% id in 233 aa
YP_041900.1	Similar to Bacillus subtilis multidrug resistance protein 2 Bmr2 SW:BMR2_BACSU (P39843) (400 aa) fasta scores: E(): 2.7e-07, 22.82% id in 390 aa, and to Bacillus halodurans hypothetical protein BH2079 TR:Q9KB52 (EMBL:AP001514) (392 aa) fasta scores: E(): 1.1e-76, 55.46% id in 384 aa
YP_041901.1	Previously sequenced as Staphylococcus aureus oligopeptide transporter  ATPase domain Opp-1F TR:Q9ZGN8 (EMBL:AF076683) (251 aa) fasta scores: E(): 8.5e-88, 100% id in 249 aa. Similar to Escherichia coli peptide transport system ATP-binding protein SapF SW:SAPF_ECOLI (P36637) (268 aa) fasta scores: E(): 4.6e-24, 34.67% id in 248 aa
YP_041902.1	Previously sequenced as Staphylococcus aureus oligopeptide transporter  ATPase domain Opp-1D TR:Q9ZGN9 (EMBL:AF076683) (271 aa) fasta scores: E(): 8.5e-90, 97.41% id in 271 aa. Similar to Bacillus subtilis oligopeptide transport ATP-binding protein OppD SW:OPPD_BACSU (P24136) (358 aa) fasta scores: E(): 6e-32, 42.35% id in 255 aa
YP_041903.1	Previously sequenced as Staphylococcus aureus oligopeptide transporter  membrane permease domain Opp-1C TR:Q9ZGP0 (EMBL:AF076683) (289 aa) fasta scores: E(): 6.6e-107, 100% id in 289 aa. Similar to Escherichia coli nickel ABC transporter permease NikC SW:NIKC_ECOLI (P33592) (277 aa) fasta scores: E(): 6.6e-34, 36.64% id in 262 aa
YP_041904.1	Previously sequenced as Staphylococcus aureus oligopeptide transporter  membrane permease domain Opp-1B TR:Q9ZGP1 (EMBL:AF076683) (311 aa) fasta scores: E(): 7.1e-116, 99.67% id in 311 aa. Similar to Escherichia coli nickel ABC transporter permease NikB SW:NIKB_ECOLI (P33591) (314 aa) fasta scores: E(): 1.2e-37, 34.82% id in 313 aa
YP_041905.1	Previously sequenced as Staphylococcus aureus oligopeptide transporter  substrate binding domain Opp-1A TR:Q9ZGP2 (EMBL:AF076683) (486 aa) fasta scores: E(): 1.4e-175, 99.58% id in 486 aa. Similar to Bacillus halodurans nickel transport system BH0567 TR:Q9KFB8 (EMBL:AP001509) (539 aa) fasta scores: E(): 3.1e-62, 38.1% id in 538 aa, and to Escherichia coli nickel-binding periplasmic protein precursor NikA SW:NIKA_ECOLI (P33590) (524 aa) fasta scores: E(): 1.7e-56, 34.82% id in 491 aa. CDS is extended at the N-terminus in comparison previously sequenced protein
YP_041906.1	Similar to Bacillus halodurans hypothetical protein BH2073 TR:Q9KB58 (EMBL:AP001514) (436 aa) fasta scores: E(): 2.6e-76, 47.75% id in 423 aa, and to Pseudomonas aeruginosa hypothetical protein PA4835 TR:Q9HUX5 (EMBL:AE004896) (433 aa) fasta scores: E(): 6.2e-41, 31.34% id in 418 aa
YP_041907.1	Similar to Bacillus halodurans hypothetical protein BH2072 TR:Q9KB59 (EMBL:AP001514) (264 aa) fasta scores: E(): 7.1e-33, 43.19% id in 257 aa, and to Thermotoga neapolitana hypothetical protein TR:O86951 (EMBL:AJ007446) (258 aa) fasta scores: E(): 0.051, 21.79% id in 257 aa
YP_041908.1	Poor database matches. Similar to Bacillus halodurans BH2071 TR:Q9KB60 (EMBL:AP001514) (277 aa) fasta scores: E(): 1.5e-26, 32.73% id in 278 aa
YP_041909.1	Similar to Bacillus subtilis hypothetical protein YddR TR:P96655 (EMBL:AB001488) (254 aa) fasta scores: E(): 1.1e-48, 50.39% id in 254 aa, and to Escherichia coli O157:H7 hypothetical protein ECS0400 TR:BAB33823 (EMBL:AP002551) (262 aa) fasta scores: E(): 3.2e-38, 44.01% id in 259 aa
YP_041910.1	Similar to Escherichia coli oxidoreductase UcpA SW:UCPA_ECOLI (P37440) (285 aa) fasta scores: E(): 4.9e-25, 35.17% id in 253 aa, and to Bacillus subtilis hypothetical oxidoreductase YxbG SW:YXBG_BACSU (P46331) (262 aa) fasta scores: E(): 7.4e-43, 57.14% id in 210 aa. CDS appears to be truncated at the N-terminus in comparison to the E. coli protein
YP_041911.1	Similar to Escherichia coli aminobenzoyl-glutamate transport protein AbgT SW:ABGT_ECOLI (P46133) (510 aa) fasta scores: E(): 4.9e-63, 34.64% id in 508 aa, and to Bacillus halodurans hypothetical protein BH0866 TR:Q9KEI6 (EMBL:AP001510) (513 aa) fasta scores: E(): 2e-91, 46.33% id in 505 aa
YP_041912.1	Similar to Bacillus subtilis hypothetical protein YdfG TR:P96684 (EMBL:AB001488) (147 aa) fasta scores: E(): 2.2e-14, 35.82% id in 134 aa, and to Streptomyces coelicolor hypothetical protein SCE6.22c TR:Q9KZR6 (EMBL:AL353832) (157 aa) fasta scores: E(): 3.2e-09, 31.57% id in 133 aa
YP_041913.1	No significant database matches. Similar to SAR2566, 78.102% identity (79.259% ungapped) in 137 aa overlap, SAR2565, 75.000% identity (76.119% ungapped) in 136 aa overlap, and to SAR2563, 70.290% identity (71.324% ungapped) in 138 aa overlap
YP_041914.1	Poor database matches. Similar to an internal region of Oxytricha fallax hypothetical protein TR:P90560 (EMBL:L39908) (193 aa) fasta scores: E(): 4.5, 25% id in 132 aa. Similar to SAR2565, 86.029% identity (86.029% ungapped) in 136 aa overlap, SAR2566, 70.073% identity (70.073% ungapped) in 137 aa overlap, and to SAR2562, 70.290% identity (71.324% ungapped) in 138 aa overlap
YP_041915.1	Poor database matches. Weakly similar to the C-terminal region of Enterococcus faecium hypothetical protein TR:Q47816 (EMBL:U01917) (105 aa) fasta scores: E(): 7.1, 25% id in 76 aa. Similar to SAR2563, 86.029% identity (86.029% ungapped) in 136 aa overlap , SAR2562, 75.000% identity (76.119% ungapped) in 136 aa overlap, and to SAR2566, 72.059% identity (72.059% ungapped) in 136 aa overlap
YP_041916.1	Poor database matches. Weakly similar to the C-terminal region of Enterococcus faecium hypothetical protein TR:Q47816 (EMBL:U01917) (105 aa) fasta scores: E(): 6.2, 25.97% id in 77 aa. Similar to SAR2562, 78.102% identity (79.259% ungapped) in 137 aa overlap, SAR2563, 70.073% identity (70.073% ungapped) in 137 aa overlap, and to SAR2565, 72.059% identity (72.059% ungapped) in 136 aa overlap
YP_041917.1	Similar to Rhizobium meliloti D-beta-hydroxybutyrate dehydrogenase BdhA SW:BDHA_RHIME (O86034) (258 aa) fasta scores: E(): 5.5e-19, 35.68% id in 227 aa, and to Synechocystis sp hypothetical protein SLR0315 TR:Q55922 (EMBL:D64005) (244 aa) fasta scores: E(): 1.8e-25, 41.49% id in 241 aa
YP_041920.1	No significant database matches. Similar to SAR2573, 68.992% identity (68.992% ungapped) in 258 aa overlap, SAR0106, 63.320% identity (64.314% ungapped) in 259 aa overlap, SAR0444, 61.923% identity (62.403% ungapped) in 260 aa overlap
YP_041921.1	No significant database matches. Similar to SAR2570, 69.884% identity (70.428% ungapped) in 259 aa overlap, SAR0444, 63.922% identity (64.427% ungapped) in 255 aa overlap, SAR0106, 59.846% identity (61.265% ungapped) in 259 aa overlap, and to SAR0445, 50.373% identity (52.326% ungapped) in 268 aa overlap
YP_041922.1	Similar to Streptomyces coelicolor  helicase SCE20.37 TR:Q9RD88 (EMBL:AL136058) (945 aa) fasta scores: E(): 2.1e-34, 27.06% id in 968 aa. N-terminus is similar to the N-terminal region of Vibrio cholerae helicase-related protein VC0812 TR:Q9KTS6 (EMBL:AE004166) (979 aa) fasta scores: E(): 1.5e-51, 31.74% id in 712 aa
YP_041923.1	Similar to Escherichia coli CTP pyrophosphohydrolase NudG SW:NUDG_ECOLI (P77788) (135 aa) fasta scores: E(): 5.4e-12, 38.4% id in 125 aa, and to Clostridium acetobutylicum NUDIX (MutT) family hydrolase/pyrophosphatase CAC2828 TR:Q97FB2 (EMBL:AE007780) (128 aa) fasta scores: E(): 2.6e-10, 33.07% id in 127 aa
YP_041924.1	Similar to Mycoplasma pirum phosphomannomutase ManB SW:MANB_MYCPI (P47723) (544 aa) fasta scores: E(): 2.5e-35, 28.64% id in 555 aa, and to Bacillus halodurans phosphomannomutase BH1106 TR:Q9KDV5 (EMBL:AP001510) (578 aa) fasta scores: E(): 1.1e-56, 38.4% id in 539 aa
YP_041926.1	Poor database matches. Weakly similar to the C-terminal region of Lysiphlebus testaceipes NADH dehydrogenase 1 TR:O79074 (EMBL:AF069177) (155 aa) fasta scores: E(): 1.7, 24.27% id in 103 aa. Doubtful CDS
YP_041927.1	Similar to Bacillus subtilis UTP--glucose-1-phosphate uridylyltransferase GtaB SW:GTAB_BACSU (Q05852) (292 aa) fasta scores: E(): 2.8e-74, 70.62% id in 286 aa, and to Bacillus halodurans UTP-glucose-1-phosphate uridylyltransferase BH3717 TR:Q9K6L2 (EMBL:AP001519) (293 aa) fasta scores: E(): 4e-72, 70.28% id in 286 aa
YP_041928.1	Similar to Staphylococcus aureus fibronectin-binding protein precursor FnbA SW:FNBA_STAAU (P14738) (1018 aa) fasta scores: E(): 3.6e-172, 79.15% id in 1022 aa, and to Staphylococcus aureus fibronectin binding protein B FnbB TR:Q53682 (EMBL:X62992) (940 aa) fasta scores: E(): 1.4e-55, 61.77% id in 1015 aa. Probable LPXTG-sorted surface protein. CDS contains two internal deletions relative to the previously sequenced fibronectin-binding protein precursor FnbA (after residues 786 and 840). Deletions occur in regions containing imperfect repeats
YP_041929.1	No significant database matches. Possible alternative translational start sites
YP_041930.1	Similar to Bacillus licheniformis gluconate permease GntP SW:GNTP_BACLI (P46832) (448 aa) fasta scores: E(): 1.3e-99, 62.19% id in 447 aa, and to Bacillus subtilis gluconate permease GntP SW:GNTP_BACSU (P12012) (448 aa) fasta scores: E(): 4.7e-99, 62.64% id in 447 aa
YP_041931.1	Similar to Bacillus subtilis gluconokinase GntK SW:GNTK_BACSU (P12011) (513 aa) fasta scores: E(): 1.1e-129, 62.45% id in 506 aa, and to Bacillus licheniformis gluconokinase GntK SW:GNTK_BACLI (P46834) (513 aa) fasta scores: E(): 5.3e-129, 61.85% id in 506 aa
YP_041932.1	Similar to Bacillus subtilis gluconate operon transcriptional repressor GntR SW:GNTR_BACSU (P10585) (243 aa) fasta scores: E(): 2.5e-37, 46.39% id in 222 aa, and to Bacillus licheniformis gluconate operon transcriptional repressor GntR SW:GNTR_BACLI (P46833) (243 aa) fasta scores: E(): 8.8e-37, 45.49% id in 222 aa
YP_041933.1	Possible pseudogene. Similar to Streptococcus pyogenes  transcriptional activator regulator protein SPY1863 TR:Q99Y55 (EMBL:AE006612) (245 aa) fasta scores: E(): 3.4e-20, 32.91% id in 237 aa. N-terminus is similar to the N-terminal region of Bacillus subtilis multidrug-efflux transporter 2 regulator BltR SW:BLTR_BACSU (P39842) (273 aa) fasta scores: E(): 7e-06, 30.57% id in 157 aa. CDS is truncated in comparison to S. aureus orthologues, e.g. SAS2393, due to a possible nonsense mutation after codon 243
YP_041934.1	Similar to Bacillus subtilis hypothetical protein YwaC SW:YWAC_BACSU (P39583) (210 aa) fasta scores: E(): 6.6e-29, 47.84% id in 186 aa, and to Lactococcus lactis hypothetical protein YijE TR:Q9CH66 (EMBL:AE006321) (224 aa) fasta scores: E(): 5.2e-21, 38.37% id in 185 aa
YP_041935.1	No significant database matches. Possible alternative translational start sites
YP_041936.1	Poor database matches. Weakly similar to Bacillus subtilis hypothetical protein YvaC TR:O32225 (EMBL:Z99121) (631 aa) fasta scores: E(): 1.6e-27, 25.08% id in 614 aa, and to Escherichia coli hypothetical protein YhfK SW:YHFK_ECOLI (P45537) (696 aa) fasta scores: E(): 2e-07, 24.67% id in 620 aa
YP_041937.1	Similar to Mycobacterium smegmatis  transporter protein TR:Q9RPH4 (EMBL:AF157643) (413 aa) fasta scores: E(): 3.7e-28, 30.38% id in 418 aa, and to Bacillus subtilis hypothetical transport protein YybO SW:YYBO_BACSU (P37489) (435 aa) fasta scores: E(): 4.2e-27, 25.72% id in 412 aa
YP_041938.1	Similar to Lactococcus lactis alkaline phosphatase Apl TR:Q9CHL6 (EMBL:AE006305) (214 aa) fasta scores: E(): 1.2e-28, 42% id in 200 aa, and to Synechocystis sp alkaline phosphatase-like protein SLR0509 TR:Q55829 (EMBL:D64004) (205 aa) fasta scores: E(): 3.8e-23, 35.78% id in 204 aa
YP_041939.1	Similar to Bacillus subtilis hypothetical protein YisU TR:O06730 (EMBL:Y09476) (220 aa) fasta scores: E(): 9e-35, 52.85% id in 193 aa, and to Bacillus halodurans hypothetical protein BH0431 TR:Q9KFP7 (EMBL:AP001508) (200 aa) fasta scores: E(): 9.2e-29, 43.75% id in 192 aa. SAR0857, 63.415% identity (63.415% ungapped) in 205 aa overlap
YP_041940.1	Poor database matches. Similar to Bradyrhizobium japonicum hypothetical protein ID867 TR:Q9AMU2 (EMBL:AF322013) (352 aa) fasta scores: E(): 1.4e-22, 30.96% id in 323 aa, and to Caulobacter crescentus hypothetical protein CC3422 TR:Q9A2Y4 (EMBL:AE006002) (329 aa) fasta scores: E(): 1.2e-14, 26.15% id in 302 aa
YP_041941.1	Similar to Bacillus halodurans transcriptional regulator BH0432 TR:Q9KFP6 (EMBL:AP001508) (482 aa) fasta scores: E(): 2.2e-66, 39.4% id in 467 aa, and to Bacillus subtilis hypothetical protein YdfD TR:P96681 (EMBL:AB001488) (482 aa) fasta scores: E(): 1.1e-56, 35.88% id in 471 aa
YP_041942.1	Similar to Staphylococcus epidermidis ABC transporter StpA TR:Q54138 (EMBL:Z30586) (231 aa) fasta scores: E(): 8.6e-59, 85.71% id in 231 aa, and to Staphylococcus hominis potential ABC transporter StpB TR:Q54314 (EMBL:Z30587) (231 aa) fasta scores: E(): 8.6e-59, 85.71% id in 231 aa
YP_041943.1	Similar to Staphylococcus hominis potential membrane spanning protein SmpB TR:Q54315 (EMBL:Z30587) (256 aa) fasta scores: E(): 4.1e-60, 67.57% id in 256 aa, and to Staphylococcus epidermidis membrane spanning protein SmpA TR:Q54139 (EMBL:Z30586) (256 aa) fasta scores: E(): 6.2e-60, 66.4% id in 256 aa
YP_041944.1	Similar to Bacillus subtilis hypothetical protein YydE TR:Q45597 (EMBL:D78193) (671 aa) fasta scores: E(): 8.8e-178, 69.45% id in 645 aa, and to Lactobacillus rhamnosus hypothetical protein TR:AAK64293 (EMBL:AF323526) (656 aa) fasta scores: E(): 6.1e-131, 53.39% id in 633 aa
YP_041945.1	Similar to Bacillus subtilis hypothetical protein YkvI TR:O31674 (EMBL:Z99111) (347 aa) fasta scores: E(): 1.5e-17, 25% id in 348 aa, and to the N-terminal region of Corynebacterium glutamicum branched-chain amino acid transport system carrier protein BrnQ SW:BRNQ_CORGL (O06754) (426 aa) fasta scores: E(): 0.12, 22.35% id in 349 aa
YP_041946.1	Similar to Bacillus halodurans hypothetical protein BH2174 TR:Q9KAW2 (EMBL:AP001514) (204 aa) fasta scores: E(): 7.4e-29, 41.93% id in 186 aa, and to Bacillus subtilis hypothetical protein YolF TR:O34842 (EMBL:AF006665) (200 aa) fasta scores: E(): 1.2e-25, 41.93% id in 186 aa
YP_041947.1	Similar to Flavobacterium sp 2,6-dichloro-p-hydroquinone 1,2-dioxygenase PcpA TR:Q9ZBB0 (EMBL:M55159) (320 aa) fasta scores: E(): 5.6e-19, 29.46% id in 319 aa, and to Bacillus halodurans hypothetical protein BH2175 TR:Q9KAW1 (EMBL:AP001514) (327 aa) fasta scores: E(): 1.7e-58, 48.75% id in 320 aa
YP_041948.1	Similar to Bacillus subtilis hypothetical protein YkvE TR:O31672 (EMBL:Z99111) (145 aa) fasta scores: E(): 1.2e-16, 41.79% id in 134 aa, and to Streptococcus pyogenes  transcriptional regulator SPY1960 TR:Q99XY5 (EMBL:AE006619) (142 aa) fasta scores: E(): 1.6e-11, 35.76% id in 137 aa
YP_041949.1	Similar to Escherichia coli hypothetical protein YjdJ SW:YJDJ_ECOLI (P39274) (90 aa) fasta scores: E(): 3.7e-11, 45.45% id in 88 aa, and to Lactococcus lactis YjdJ-like protein TR:O69438 (EMBL:Y13384) (105 aa) fasta scores: E(): 4.3e-06, 39.32% id in 89 aa
YP_041950.1	Similar to Bacillus halodurans hypothetical protein BH3305 TR:Q9K7Q6 (EMBL:AP001518) (286 aa) fasta scores: E(): 5.3e-34, 41.15% id in 243 aa, and to Rhizobium loti hypothetical protein MLR0078 TR:BAB47738 (EMBL:AP002994) (270 aa) fasta scores: E(): 1.5e-29, 35.45% id in 251 aa
YP_041951.1	catalyzes the formation of pyruvate from lactate
YP_041952.1	Similar to Escherichia coli hypothetical protein YbjI SW:YBJI_ECOLI (P75809) (271 aa) fasta scores: E(): 6.3e-28, 36.7% id in 267 aa, and to Escherichia coli hypothetical protein YbiV SW:YBIV_ECOLI (P75792) (271 aa) fasta scores: E(): 1.3e-26, 36.84% id in 266 aa
YP_041953.1	Previously sequenced as Staphylococcus aureus, peptidoglycan-anchored surface protein processing enzyme, sortase SrtA TR:Q9S446 (EMBL:AF162687) (206 aa) fasta scores: E(): 4e-71, 99.02% id in 206 aa. Similar to Bacillus halodurans hypothetical protein BH2015 TR:Q9KBB3 (EMBL:AP001514) (193 aa) fasta scores: E(): 5.4e-07, 29.83% id in 181 aa
YP_041954.1	Similar to Streptomyces coelicolor phosphinothricin N-acetyltransferase Bar SW:PAT_STRCO (P21861) (171 aa) fasta scores: E(): 5.6e-14, 33.74% id in 163 aa, and to Pseudomonas aeruginosa hypothetical protein PA4866 TR:Q9HUU7 (EMBL:AE004900) (172 aa) fasta scores: E(): 3.1e-26, 46.58% id in 161 aa
YP_041955.1	Similar to Peptostreptococcus asaccharolyticus L-serine dehydratase, alpha chain SdhA SW:SDHA_PEPAS (P33073) (292 aa) fasta scores: E(): 1.7e-38, 44.4% id in 286 aa, and to Bacillus subtilis probable L-serine dehydratase, alpha chain YlpA SW:SDHA_BACSU (O34607) (300 aa) fasta scores: E(): 3.1e-58, 58.56% id in 292 aa
YP_041956.1	N-terminus is similar to the N-terminal region of Peptostreptococcus asaccharolyticus L-serine dehydratase, beta chain SdhB SW:SDHB_PEPAS (P33074) (222 aa) fasta scores: E(): 2.6e-17, 44.89% id in 147 aaSimilar to the full length Bacillus subtilis probable L-serine dehydratase, beta chain YloW SW:SDHB_BACSU (O34635) (220 aa) fasta scores: E(): 7.5e-23, 42.03% id in 226 aa
YP_041957.1	Similar to Streptococcus pyogenes  regulatory protein SPY0146 TR:Q9A1Q9 (EMBL:AE006484) (339 aa) fasta scores: E(): 5.5e-45, 43.5% id in 331 aa, and to an internal region of Streptococcus pyogenes sucrose-specific PTS permease, enzyme II SPY1815 TR:Q99Y91 (EMBL:AE006608) (620 aa) fasta scores: E(): 0.0098, 25.51% id in 341 aa
YP_041959.1	Similar to Bacillus halodurans hypothetical protein BH0725 TR:Q9KEX4 (EMBL:AP001509) (312 aa) fasta scores: E(): 2.2e-47, 45.94% id in 296 aa, and to Bacillus subtilis hypothetical protein YdeD SW:YDED_BACSU (P96661) (319 aa) fasta scores: E(): 9.1e-46, 44.26% id in 305 aa
YP_041960.1	Similar to Streptococcus pyogenes  esterase SPY1718 TR:Q99YG3 (EMBL:AE006601) (328 aa) fasta scores: E(): 7.6e-30, 33.66% id in 300 aa, and to Streptococcus pyogenes  esterase SPY1308 TR:Q99ZB0 (EMBL:AE006570) (327 aa) fasta scores: E(): 2.7e-24, 29.28% id in 321 aa
YP_041961.1	Similar to Schizosaccharomyces pombe thioredoxin II TRX2 SW:TRX2_SCHPO (O14463) (102 aa) fasta scores: E(): 0.0049, 25.3% id in 83 aa, and to Bacillus subtilis hypothetical protein YdfQ TR:P96695 (EMBL:AB001488) (112 aa) fasta scores: E(): 2.8e-12, 38.38% id in 99 aa
YP_041962.1	Similar to Bacillus halodurans hypothetical protein BH2288 TR:Q9KAJ9 (EMBL:AP001515) (143 aa) fasta scores: E(): 0.0003, 29.5% id in 122 aa, and to Vibrio cholerae hypothetical protein VC1938 TR:Q9KQR0 (EMBL:AE004269) (149 aa) fasta scores: E(): 0.00043, 26.98% id in 126 aa
YP_041963.1	Similar to Bacillus subtilis PTS system, glucose-specific IIABC component PtsG SW:PTGA_BACSU (P20166) (699 aa) fasta scores: E(): 3.4e-121, 59.29% id in 683 aa, and to Staphylococcus carnosus PTS system, glucose-specific IIABC component GlcB TR:Q53922 (EMBL:X93360) (692 aa) fasta scores: E(): 2e-193, 74.09% id in 687 aa. Similar to SAR0190, 59.584% identity (61.692% ungapped) in 673 aa overlap
YP_041964.1	catalyzes the formation of acetyl phosphate from pyruvate
YP_041965.1	Similar to Bacillus halodurans hypothetical protein BH3268 TR:Q9K7U1 (EMBL:AP001518) (227 aa) fasta scores: E(): 5e-24, 36.23% id in 218 aa, and to Escherichia coli hypothetical protein YohK SW:YOHK_ECOLI (P33373) (231 aa) fasta scores: E(): 3.7e-23, 35.29% id in 221 aa
YP_041966.1	Similar to Bacillus subtilis hypothetical protein YwbH SW:YWBH_BACSU (P39591) (128 aa) fasta scores: E(): 1.9e-09, 31.25% id in 128 aa, and to Lactococcus lactis hypothetical protein YhhD TR:Q9CHG9 (EMBL:AE006310) (134 aa) fasta scores: E(): 8.4e-09, 35.39% id in 113 aa
YP_041967.1	Similar to Bacillus subtilis transcriptional regulatory protein GltC SW:GLTC_BACSU (P20668) (300 aa) fasta scores: E(): 4.2e-20, 26.89% id in 290 aa, and to Bacillus subtilis hypothetical transcriptional regulator YwbI SW:YWBI_BACSU (P39592) (301 aa) fasta scores: E(): 8.5e-40, 38.01% id in 292 aa
YP_041969.1	Similar to the C-terminal regions of Staphylococcus epidermidis secretory antigen precursor SsaA TR:Q9KJT6 (EMBL:AF162275) (257 aa) fasta scores: E(): 5.7e-13, 39.83% id in 118 aa, and Staphylococcus carnosus hypothetical protein SceB TR:O54487 (EMBL:U96107) (263 aa) fasta scores: E(): 1.4e-13, 40.67% id in 118 aa
YP_041970.1	Previously sequenced as Staphylococcus aureus 3-hydroxy-3-methylglutaryl coenzyme A (HMG-CoA) reductase MvaA TR:Q9FD86 (EMBL:AF290086) (425 aa) fasta scores: E(): 1.2e-148, 97.64% id in 425 aa. Similar to Pseudomonas mevalonii 3-hydroxy-3-methylglutaryl-coenzyme A reductase MvaA SW:MVAA_PSEMV (P13702) (428 aa) fasta scores: E(): 3.2e-51, 40.41% id in 433 aa
YP_041971.1	Previously sequenced as Staphylococcus aureus 3-hydroxy-3-methylglutaryl coenzyme A (HMG-CoA) synthase MvaS TR:Q9FD87 (EMBL:AF290086) (388 aa) fasta scores: E(): 5.2e-149, 98.45% id in 388 aa. Similar to Staphylococcus haemolyticus HMG-CoA synthase MvaS TR:Q9FD82 (EMBL:AF290088) (388 aa) fasta scores: E(): 6.5e-127, 81.95% id in 388 aa
YP_041972.1	Similar to Bacillus subtilis methylated-DNA--protein-cysteine methyltransferase Ogt SW:OGT_BACSU (P11742) (165 aa) fasta scores: E(): 6.2e-14, 36.99% id in 173 aa, and to Haemophilus influenzae methylated-DNA--protein-cysteine methyltransferase HI0402 SW:OGT_HAEIN (P44687) (190 aa) fasta scores: E(): 9.7e-25, 45.19% id in 177 aa
YP_041973.1	Similar to Lactococcus lactis ATP-dependent protease ATP-binding subunit ClpL SW:CLPL_LACLA (Q06716) (763 aa) fasta scores: E(): 3.3e-125, 54.81% id in 706 aa, and to Streptococcus pyogenes  ATP-dependent Clp proteinase SPY0888 TR:Q9A086 (EMBL:AE006538) (699 aa) fasta scores: E(): 1.4e-144, 63.15% id in 692 aa. CDS contains fewer amino acids at the N-terminus in comparison to the Lactococcus lactis orthologue
YP_041975.1	Similar to Escherichia coli ferrous iron transport protein B FeoB SW:FEOB_ECOLI (P33650) (773 aa) fasta scores: E(): 4.1e-69, 34.81% id in 718 aa, and to Methanococcus jannaschii ferrous iron transport protein B homologue MJ0566 SW:FEOB_METJA (Q57986) (668 aa) fasta scores: E(): 7.5e-89, 40.05% id in 679 aa
YP_041977.1	Similar to Bacillus subtilis YdfJ TR:P96687 (EMBL:AB001488) (724 aa) fasta scores: E(): 6.9e-108, 45.46% id in 717 aa, and to Streptomyces coelicolor integral membrane protein SC8G12.12 TR:Q9KYZ3 (EMBL:AL355753) (739 aa) fasta scores: E(): 2.9e-88, 39.2% id in 727 aa
YP_041978.1	Similar to Streptococcus pyogenes  transcriptional regulator SPY1258 TR:Q99ZE9 (EMBL:AE006565) (180 aa) fasta scores: E(): 7.2e-06, 25.69% id in 179 aa, and to Lactococcus lactis transcriptional regulator YxcB TR:Q9CDI1 (EMBL:AE006453) (204 aa) fasta scores: E(): 2.5e-05, 23.4% id in 188 aa
YP_041979.1	catalyzes the conversion of 1-proline-5-carboxylate dehydrogenase to L-glutamate
YP_041980.1	Similar to Escherichia coli galactoside O-acetyltransferase LacA SW:THGA_ECOLI (P07464) (203 aa) fasta scores: E(): 9.1e-28, 43.01% id in 186 aa, and to Streptococcus pyogenes  acetyltransferase SPY1065 TR:Q99ZU6 (EMBL:AE006551) (188 aa) fasta scores: E(): 1.5e-42, 56.45% id in 186 aa
YP_041981.1	Poor database matches. Similar to the N-terminal regions of Streptomyces coelicolor hypothetical protein SCP8.13 TR:Q9FBK8 (EMBL:AL390975) (161 aa) fasta scores: E(): 8.9, 31.74% id in 63 aa
YP_041982.1	Similar to Enterococcus hirae probable copper importing ATPase A CopA SW:COPA_ENTHR (P32113) (727 aa) fasta scores: E(): 9.8e-120, 50.34% id in 725 aa, and to Bacillus halodurans copper-transporting ATPase BH0557 TR:Q9KFC7 (EMBL:AP001508) (806 aa) fasta scores: E(): 5.6e-154, 55.15% id in 805 aa. CDS contains extra amino acids at the N-terminus in comparison to the Enterococcus hirae orthologue
YP_041983.1	Similar to Enterococcus hirae activator of copYZAB CopZ SW:COPZ_ENTHR (Q47840) (69 aa) fasta scores: E(): 4.4e-05, 36.92% id in 65 aa, and to Bacillus subtilis hypothetical protein YvgY TR:O32221 (EMBL:Z99121) (69 aa) fasta scores: E(): 4.5e-12, 56.71% id in 67 aa
YP_041984.1	catalyzes the formation of pyruvate from lactate
YP_041985.1	Similar to Bacillus subtilis probable aspartate aminotransferase YwfG SW:AAT2_BACSU (P39643) (399 aa) fasta scores: E(): 5.2e-52, 39.52% id in 382 aa, and to Bacillus halodurans aspartate aminotransferase BH1060 TR:Q9KE01 (EMBL:AP001510) (395 aa) fasta scores: E(): 5.9e-52, 39.48% id in 385 aa
YP_041986.1	Previously sequenced as Staphylococcus aureus squalene synthase CrtN TR:O07855 (EMBL:X73889) (506 aa) fasta scores: E(): 1.1e-184, 97% id in 500 aa. Similar to Erwinia herbicola phytoene dehydrogenase CrtI SW:CRTI_ERWHE (P22871) (492 aa) fasta scores: E(): 2.1e-47, 32.47% id in 502 aa
YP_041987.1	Similar to Deinococcus radiodurans conserved hypothetical protein DR0089 TR:Q9RY61 (EMBL:AE001872) (358 aa) fasta scores: E(): 6.6e-09, 24.85% id in 334 aa, and to Pyrococcus abyssi hyaluronan synthase related protein PAB1314 TR:Q9UYC7 (EMBL:AJ248288) (350 aa) fasta scores: E(): 0.00076, 22.28% id in 332 aa
YP_041988.1	Similar to Myxococcus xanthus phytoene dehydrogenase CarA2 SW:CRTJ_MYXXA (P54979) (517 aa) fasta scores: E(): 2.8e-42, 29.96% id in 494 aa, and to Erwinia herbicola phytoene dehydrogenase CrtI SW:CRTI_ERWHE (P22871) (492 aa) fasta scores: E(): 5.3e-38, 27.55% id in 490 aa
YP_041989.1	Poor database matches. Weakly similar to Pyrococcus abyssi hypothetical protein PAB1170 TR:Q9UXS9 (EMBL:AJ248288) (220 aa) fasta scores: E(): 8.3, 24.34% id in 152 aa
YP_041990.1	Similar to Staphylococcus epidermidis secretory antigen precursor SsaA TR:Q9KJT6 (EMBL:AF162275) (257 aa) fasta scores: E(): 2.4e-65, 75.19% id in 258 aa, and to Staphylococcus carnosus SceB precursor SceB TR:O54487 (EMBL:U96107) (263 aa) fasta scores: E(): 2.5e-54, 63.49% id in 263 aa. Similar to SAR2383, 75.093% identity (79.216% ungapped) in 269 aa overlap
YP_041991.1	Similar to Bacillus subtilis hypothetical protein YrhL TR:O05402 (EMBL:U93874) (634 aa) fasta scores: E(): 6.9e-54, 38.86% id in 633 aa, and to Lactococcus lactis hypothetical protein YvhB TR:Q9CDV4 (EMBL:AE006439) (605 aa) fasta scores: E(): 6.5e-42, 31.78% id in 604 aa. Similar to SAR0937, 57.475% identity (58.545% ungapped) in 602 aa overlap
YP_041992.1	Similar to Staphylococcus aureus immunodominant antigen A IsaA TR:Q9LAB6 (EMBL:AF144681) (233 aa) fasta scores: E(): 4.7e-78, 99.57% id in 233 aa, and to Staphylococcus carnosus SceA precursor SceA TR:O54494 (EMBL:AF109218) (237 aa) fasta scores: E(): 2.5e-14, 34.8% id in 227 aa
YP_041993.1	Similar to Treponema pallidum regulatory protein TP0038 TR:Q56343 (EMBL:AE001189) (350 aa) fasta scores: E(): 1.4e-52, 44.89% id in 343 aa, and to Streptococcus pyogenes probable regulatory protein SPY0851 TR:Q9A0B4 (EMBL:AE006535) (352 aa) fasta scores: E(): 4.9e-45, 42.61% id in 359 aa
YP_041994.1	Similar to Lactococcus lactis transcriptional regulator YxcB TR:Q9CDI1 (EMBL:AE006453) (204 aa) fasta scores: E(): 2.3e-09, 29.5% id in 183 aa, and to Bacillus subtilis hypothetical protein YxbF SW:YXBF_BACSU (P46330) (380 aa) fasta scores: E(): 5.2e-06, 30.6% id in 183 aa
YP_041995.1	No significant database matches. Possible alternative translational start sites
YP_041996.1	Similar to Bacillus subtilis hypothetical protein YnzC TR:O31818 (EMBL:Z99113) (77 aa) fasta scores: E(): 7.1e-07, 49.15% id in 59 aa, and to Lactococcus lactis hypothetical protein YlaC TR:Q9CGJ9 (EMBL:AE006342) (80 aa) fasta scores: E(): 2.3e-06, 42.85% id in 70 aa
YP_041997.1	Similar to Escherichia coli, and lactoylglutathione lyase GloA SW:LGUL_ECOLI (Q59384) (135 aa) fasta scores: E(): 0.52, 27.86% id in 122 aa, and to Bacillus halodurans hypothetical protein BH3119 TR:Q9K887 (EMBL:AP001517) (134 aa) fasta scores: E(): 1.6e-07, 33.6% id in 125 aa
YP_041998.1	Similar to Streptomyces coelicolor  actinorhodin biosynthetic protein ActVA 4 TR:Q53906 (EMBL:X58833) (294 aa) fasta scores: E(): 4.6e-20, 34.15% id in 284 aa, and to Rhizobium loti hypothetical protein MLL7605 protein mll7605 TR:BAB54033 (EMBL:AP003012) (294 aa) fasta scores: E(): 9.6e-12, 25.79% id in 283 aa
YP_041999.1	Poor database matches. Similar to the C-terminal region of Deinococcus radiodurans hypothetical protein DR1049 TR:Q9RVI0 (EMBL:AE001956) (124 aa) fasta scores: E(): 1.7, 32% id in 100 aa
YP_042000.1	No significant database matches to the full length CDS. Similar to Bacillus halodurans transcriptional regulator BH2145 TR:Q9KAZ1 (EMBL:AP001514) (193 aa) fasta scores: E(): 0.00041, 30.76% id in 130 aa, and to Mycobacterium tuberculosis  transcriptional regulator MTV030.10c TR:O53612 (EMBL:AL021428) (189 aa) fasta scores: E(): 0.0013, 28.7% id in 108 aa
YP_042001.1	Similar to Rhizobium meliloti acetoacetyl-CoA reductase PhbB SW:PHBB_RHIME (P50205) (241 aa) fasta scores: E(): 8.8e-10, 29.71% id in 249 aa, and to Streptomyces coelicolor  short chain oxidoreductase SCM1.23c TR:Q9RD20 (EMBL:AL133422) (235 aa) fasta scores: E(): 1.1e-31, 44.87% id in 234 aa
YP_042002.1	Similar to Synechocystis sp hypothetical protein SLR0619 TR:Q55861 (EMBL:D64004) (348 aa) fasta scores: E(): 1.1e-31, 35.34% id in 348 aa. Weakly similar to Rhizobium loti hypothetical protein MLR9221 TR:BAB54605 (EMBL:AP003015) (357 aa) fasta scores: E(): 0.0003, 20.51% id in 312 aa
YP_042003.1	Similar to Bacillus subtilis hypothetical protein YraK TR:O07937 (EMBL:X92868) (229 aa) fasta scores: E(): 3.7e-09, 28.21% id in 241 aa, and to Streptomyces rishiriensis  hydrolase CouN7 TR:Q9F8U0 (EMBL:AF235050) (281 aa) fasta scores: E(): 2.8e-08, 26.25% id in 278 aa
YP_042004.1	Similar to Bacillus halodurans BH0366 TR:Q9KFV5 (EMBL:AP001508) (311 aa) fasta scores: E(): 2e-23, 29.77% id in 309 aa, and to Deinococcus radiodurans  CobW protein DR2408 TR:Q9RRS7 (EMBL:AE002071) (320 aa) fasta scores: E(): 1.9e-18, 28.28% id in 304 aa
YP_042005.1	No significant database matches to the full length CDS. C-terminus is weakly similar to the C-terminal region of Archaeoglobus fulgidus iron (II) transporter (FeoB-1) AF0246 TR:O29993 (EMBL:AE001089) (639 aa) fasta scores: E(): 4.1e-11, 19.89% id in 372 aa. Internal region is weakly similar to an internal region of Escherichia coli ferrous iron transport protein B FeoB SW:FEOB_ECOLI (P33650) (773 aa) fasta scores: E(): 2e-07, 20.71% id in 280 aa
YP_042006.1	Similar to Bacillus subtilis hypothetical protein YpdA SW:YPDA_BACSU (P50736) (324 aa) fasta scores: E(): 7.2e-08, 25.56% id in 352 aa. N-terminus is similar to the N-terminal region of Onchocerca volvulus glutathione reductase TR:O01412 (EMBL:Y11830) (462 aa) fasta scores: E(): 0.32, 23.38% id in 201 aa
YP_042007.1	Similar to Bacillus halodurans BH0980 TR:Q9KE76 (EMBL:AP001510) (102 aa) fasta scores: E(): 4.7e-18, 56.25% id in 96 aa, and to Bacillus pseudofirmus hypothetical protein TR:O50571 (EMBL:U89914) (93 aa) fasta scores: E(): 0.038, 32.43% id in 74 aa
YP_042010.1	Similar to Mus musculus fructosamine-3-kinase FN3K SW:FN3K_MOUSE (Q9ER35) (309 aa) fasta scores: E(): 8.9e-18, 30% id in 310 aa, and to Vibrio cholerae hypothetical protein VC1539 SW:YF39_VIBCH (Q9KRU5) (288 aa) fasta scores: E(): 9.7e-24, 32.63% id in 288 aa
YP_042011.1	catalyzes the conversion of dihydroorotate to orotate in the pyrimidine biosynthesis pathway; uses a flavin nucleotide as an essential cofactor; class 2 enzymes are monomeric and compared to the class 1 class 2 possess an extended N terminus, which plays a role in the membrane association of the enzyme and provides the binding site for the respiratory quinones that serve as physiological electron acceptors
YP_042013.1	Similar to Lactococcus lactis hypothetical protein YoaD TR:Q9CFU8 (EMBL:AE006369) (241 aa) fasta scores: E(): 4.7e-67, 67.79% id in 236 aa, and to Streptococcus pyogenes hypothetical protein SPY0233 TR:Q9A1K3 (EMBL:AE006490) (255 aa) fasta scores: E(): 2.2e-59, 59.74% id in 236 aa
YP_042014.1	Similar to Lactococcus lactis hypothetical protein YldC TR:Q9CGH3 (EMBL:AE006345) (152 aa) fasta scores: E(): 1.2e-26, 44.96% id in 149 aa, and to Pseudomonas aeruginosa hypothetical protein PA1353 TR:Q9I3Z1 (EMBL:AE004565) (137 aa) fasta scores: E(): 1.5e-05, 26.61% id in 139 aa
YP_042015.1	Similar to Clostridium acetobutylicum TetR family transcriptional regulator CAP0046 TR:Q97TQ2 (EMBL:AE001438) (188 aa) fasta scores: E(): 4e-10, 26.82% id in 164 aa, and to Lactococcus lactis transcriptional regulator YxcB TR:Q9CDI1 (EMBL:AE006453) (204 aa) fasta scores: E(): 2e-09, 23.46% id in 196 aa
YP_042016.1	SLactococcus lactis hypothetical protein YmgC TR:Q9CG75 (EMBL:AE006355) (572 aa) fasta scores: E(): 6.6e-53, 32.67% id in 554 aa. Weakly similar to Rhodococcus sp MB1 cocaine esterase CocE TR:Q9L9D7 (EMBL:AF173165) (574 aa) fasta scores: E(): 8.1e-06, 25.12% id in 613 aa
YP_042017.1	Converts L-aspartate to beta-alanine and provides the major route of beta-alanine production in bacteria. Beta-alanine is essential for the biosynthesis of pantothenate (vitamin B5)
YP_042018.1	catalyzes the formation of (R)-pantothenate from pantoate and beta-alanine
YP_042019.1	catalyzes the formation of tetrahydrofolate and 2-dehydropantoate from 5,10-methylenetetrahydrofolate and 3-methyl-2-oxobutanoate
YP_042020.1	catalyzes the formation of 2-dehydropantoate from (R)-pantoate
YP_042021.1	Similar to Klebsiella terrigena alpha-acetolactate decarboxylase BudA SW:ALDC_KLETE (Q04518) (259 aa) fasta scores: E(): 1.2e-23, 33.47% id in 236 aa, and to Lactococcus lactis alpha-acetolactate decarboxylase AldB TR:P95676 (EMBL:S82499) (236 aa) fasta scores: E(): 5.2e-36, 44.72% id in 237 aa. CDS is truncated at the N-terminus in comparison to the Klebsiella terrigena protein. Similar to SAR2296, 74.359% identity (74.359% ungapped) in 234 aa overlap
YP_042022.1	Similar to Bacillus caldotenax L-lactate dehydrogenase Ldh SW:LDH_BACCA (P10655) (317 aa) fasta scores: E(): 2.7e-60, 54.75% id in 305 aa, and to Bacillus caldolyticus L-lactate dehydrogenase TR:Q59244 (EMBL:M19394) (317 aa) fasta scores: E(): 2.3e-60, 54.87% id in 308 aa. Similar to SAR0234, 59.223% identity (59.609% ungapped) in 309 aa overlap
YP_042023.1	Similar to Lactococcus lactis cationic amino acid transporter CtrA TR:Q9CJ89 (EMBL:AE006249) (469 aa) fasta scores: E(): 1.9e-111, 64.51% id in 465 aa, and to Xylella fastidiosa cationic amino acid transporter XF2207 TR:Q9PBD7 (EMBL:AE004033) (483 aa) fasta scores: E(): 3.1e-51, 35.72% id in 459 aa
YP_042024.1	catalyzes the formation of succinate semialdehyde and glutamate from 4-aminobutanoate and 2-oxoglutarate
YP_042026.1	catalyzes the formation of glycerone phosphate and D-glyceraldehyde 3-phosphate from D-fructose 1,6-bisphosphate in glycolysis
YP_042027.1	malate dehydrogenase; catalyzes the oxidation of malate to oxaloacetate
YP_042028.1	No significant database matches. Doubtful CDS
YP_042029.1	Similar to Homo sapiens hypothetical protein associated with susceptibility to essential hypertension, SA TR:Q13732 (EMBL:D16350) (578 aa) fasta scores: E(): 3.6e-69, 37.68% id in 544 aa, and to Bacillus subtilis hypothetical protein YtcI TR:O34613 (EMBL:AF008220) (531 aa) fasta scores: E(): 1.8e-122, 57.17% id in 530 aa. CDS is truncated at the N-terminus in comparison to the Homo sapiens protein
YP_042030.1	Poor database matches. Similar to the C-terminal region of Bacillus subtilis hypothetical protein YhgC SW:YHGC_BACSU (P38049) (166 aa) fasta scores: E(): 2.7e-11, 35.53% id in 121 aa
YP_042031.1	Poor database matches. Weakly similar to Bacillus subtilis hypothetical protein YozE TR:O31864 (EMBL:Z99114) (74 aa) fasta scores: E(): 7.9, 28.16% id in 71 aa
YP_042032.1	catalyzes the oxidation of choline to betaine aldehyde and betain aldehyde to glycine betaine
YP_042033.1	Similar to Staphylococcus xylosus glycine betaine aldehyde dehydrogenase CudA TR:Q9X2M1 (EMBL:AF009415) (497 aa) fasta scores: E(): 3.2e-161, 82.05% id in 496 aa, and to Bacillus subtilis betaine aldehyde dehydrogenase GbsA SW:DHAB_BACSU (P71016) (490 aa) fasta scores: E(): 2.2e-129, 66.87% id in 489 aa
YP_042034.1	Similar to Staphylococcus xylosus  regulatory protein CudC TR:Q9X2M0 (EMBL:AF009415) (186 aa) fasta scores: E(): 1.2e-45, 70.33% id in 182 aa, and to Bacillus subtilis hypothetical protein YuaC SW:YUAC_BACSU (P71015) (180 aa) fasta scores: E(): 6.5e-33, 55.35% id in 168 aa
YP_042035.1	Similar to Staphylococcus xylosus choline transporter CudT TR:Q9X2L9 (EMBL:AF009415) (540 aa) fasta scores: E(): 2.8e-171, 77.4% id in 540 aa, and to Corynebacterium glutamicum glycine betaine transporter BetP SW:BETP_CORGL (P54582) (595 aa) fasta scores: E(): 9e-49, 30.63% id in 519 aa. CDS is truncated at the N-terminus in comparison to the Corynebacterium glutamicum protein
YP_042036.1	Similar to Escherichia coli anaerobic ribonucleoside-triphosphate reductase activating protein NrdG SW:NRDG_ECOLI (P39329) (154 aa) fasta scores: E(): 4.7e-15, 38.46% id in 143 aa, and to Lactococcus lactis anaerobic ribonucleotide reductase activator protein NrdG TR:Q9ZAX5 (EMBL:U73336) (199 aa) fasta scores: E(): 2.9e-26, 46.98% id in 166 aa
YP_042037.1	Catalyzes the reduction of nucleoside 5'-triphosphates to 2'-deoxynucleoside 5'-triphosphates
YP_042038.1	Similar to Bacillus subtilis citrate transporter CitN SW:CITN_BACSU (P42308) (426 aa) fasta scores: E(): 5.1e-21, 32.81% id in 448 aa, and to Bacillus halodurans magnesium citrate secondary transporter BH0745 TR:Q9KEV4 (EMBL:AP001509) (442 aa) fasta scores: E(): 2e-83, 50.55% id in 449 aa
YP_042039.1	catalyzes the formation of siroheme from precorrin-2
YP_042040.1	C-terminus is similar to the C-terminal region of Escherichia coli sulfite reductase [NADPH] flavoprotein alpha-component CysJ SW:CYSJ_ECOLI (P38038) (598 aa) fasta scores: E(): 3.3e-75, 39.41% id in 548 aa. Similar to the full length Bacillus subtilis sulfite reductase [NADPH] flavoprotein alpha-component-like protein YvgR TR:O32214 (EMBL:Z99121) (605 aa) fasta scores: E(): 6.8e-110, 48.08% id in 628 aa
YP_042041.1	Similar to Citrus sinensis glutathione peroxidase homologue CSA SW:GSHZ_CITSI (Q06652) (167 aa) fasta scores: E(): 2.7e-25, 41.13% id in 158 aa, and to Schizosaccharomyces pombe glutathione peroxidase GPX1 SW:GSHJ_SCHPO (O59858) (158 aa) fasta scores: E(): 6.6e-27, 46.1% id in 154 aa. Similar to SAR1280, 50.323% identity (50.323% ungapped) in 155 aa overlap
YP_042042.1	Similar to Lactococcus lactis ABC transporter permease and substrate binding protein YsaB TR:Q9CET5 (EMBL:AE006405) (667 aa) fasta scores: E(): 2.2e-23, 22.79% id in 693 aa, and to Bacillus halodurans ABC transporter BH0752 TR:Q9KEU7 (EMBL:AP001509) (642 aa) fasta scores: E(): 5.5e-10, 21.57% id in 672 aa
YP_042043.1	Similar to Lactococcus lactis ABC transporter ATP-binding protein YsaC TR:Q9CET4 (EMBL:AE006405) (259 aa) fasta scores: E(): 7e-38, 48% id in 250 aa, and to Bacillus subtilis hypothetical ABC transporter ATP-binding protein YxdL SW:YXDL_BACSU (P42423) (257 aa) fasta scores: E(): 3.9e-37, 49.2% id in 250 aa
YP_042044.1	Two-component regulatory system family, sensor kinase. Similar to Streptococcus pneumoniae histidine kinase SP1632 TR:Q9S1K1 (EMBL:AJ006391) (324 aa) fasta scores: E(): 7e-27, 32.77% id in 299 aa, and to Lactococcus lactis sensor protein kinase KinG TR:Q9CET8 (EMBL:AE006404) (291 aa) fasta scores: E(): 1.3e-24, 31.61% id in 291 aa
YP_042045.1	Two-component regulatory system family, response regulator protein. Similar to Streptococcus thermophilus response regulator Rr1 TR:Q9AGS2 (EMBL:AF327738) (226 aa) fasta scores: E(): 2.5e-42, 51.83% id in 218 aa, and to Streptococcus pneumoniae response regulator SP1633 TR:Q9S1K2 (EMBL:AJ006391) (225 aa) fasta scores: E(): 1.6e-39, 48.62% id in 218 aa
YP_042047.1	Identical to Staphylococcus aureus transposase TR:O87114 (EMBL:AB010124) (328 aa) fasta scores: E(): 2.8e-127, 100.000% id in 315 aa, and similar to Bacillus halodurans transposase BH3503 TR:Q9JWR3 (EMBL:AP001520) (314 aa) fasta scores: E(): 3e-71, 58.413% id in 315 aa
YP_042048.1	Doubtful CDS
YP_042049.1	Similar to Lactococcus lactis transcriptional regulator RmaF TR:Q9CG06 (EMBL:AE006362) (156 aa) fasta scores: E(): 1.7e-13, 37.68% id in 138 aa. Weakly similar to Escherichia coli haemolysin transcriptional regulator SlyA SW:SLYA_ECOLI (P55740) (146 aa) fasta scores: E(): 0.33, 26.61% id in 124 aa
YP_042050.1	Similar to Lactococcus lactis tributyrin esterase EstA TR:Q9L9W2 (EMBL:AF157601) (258 aa) fasta scores: E(): 1.1e-27, 36.36% id in 253 aa, and to Streptococcus pyogenes  tributyrin esterase SPY1022 TR:Q99ZY1 (EMBL:AE006547) (261 aa) fasta scores: E(): 1.7e-22, 30.58% id in 255 aa
YP_042051.1	Similar to Staphylococcus aureus clumping factor B precursor ClfB TR:O86476 (EMBL:AJ224764) (913 aa) fasta scores: E(): 4.6e-184, 89.48% id in 913 aa, and to Staphylococcus epidermidis fibrinogen-binding protein precursor TR:O70022 (EMBL:Y17116) (1092 aa) fasta scores: E(): 4.8e-44, 36.53% id in 1103 aa. CDS contains imperfect dipetide repeat (DS x321) between residues 587 and 800. In comparison to the ClfB protein, the CDS contains extra copies of the DS repeat. Probable LPXTG-sorted surface protein
YP_042052.1	Similar to Anabaena sp global nitrogen regulator NtcA SW:NTCA_ANASP (Q05061) (223 aa) fasta scores: E(): 0.0051, 18.94% id in 190 aa, and to Bacillus licheniformis Crp/Fnr family protein ArcR TR:Q9K5F3 (EMBL:Y17554) (225 aa) fasta scores: E(): 2.2e-10, 21.91% id in 219 aa
YP_042053.2	catalyzes the reversible synthesis of carbamate and ATP from carbamoyl phosphate and ADP
YP_042054.1	Similar to Pseudomonas aeruginosa arginine/ornithine antiporter ArcD SW:ARCD_PSEAE (P18275) (482 aa) fasta scores: E(): 7.8e-77, 46.2% id in 487 aa, and to Bacillus licheniformis permease ArcD TR:O86133 (EMBL:Y17554) (468 aa) fasta scores: E(): 1.2e-99, 59.23% id in 471 aa
YP_042055.1	catalyzes the formation of ornithine and carbamylphosphate from citrulline in the arginine catabolic pathway
YP_042056.1	catalyzes the degradation of arginine to citruline and ammonia
YP_042057.1	Similar to Bacillus stearothermophilus regulator of arginine biosynthesis genes, arginine repressor ArgR SW:ARGR_BACST (O31408) (149 aa) fasta scores: E(): 1.3e-06, 25% id in 148 aa, and to Thermotoga maritima arginine repressor TM0371 SW:ARGR_THEMA (Q9WW19) (152 aa) fasta scores: E(): 1.1e-10, 30.46% id in 151 aa
YP_042058.1	Previously sequenced as Staphylococcus aureus zinc metalloproteinase aureolysin precursor Aur SW:AURE_STAAU (P81177) (509 aa) fasta scores: E(): 7.1e-185, 99.8% id in 509 aa. Similar to Staphylococcus epidermidis extracellular elastase precursor SepA SW:SEPA_STAEP (P43148) (507 aa) fasta scores: E(): 2.3e-136, 72.29% id in 509 aa
YP_042059.1	Poor database matches. Similar to Staphylococcus aureus immunodominant antigen B IsaB TR:Q9LAB5 (EMBL:AF144682) (175 aa) fasta scores: E(): 2.3e-53, 82.85% id in 175 aa
YP_042061.1	Similar to Bacillus subtilis  cel operon regulator CelR SW:CELR_BACSU (P46321) (641 aa) fasta scores: E(): 1e-14, 21.6% id in 648 aa, and to Streptococcus pyogenes hypothetical protein SPY1952 TR:Q99XZ1 (EMBL:AE006618) (686 aa) fasta scores: E(): 1.1e-09, 22.78% id in 689 aa
YP_042062.1	N-terminus is similar to the N-terminal region of Escherichia coli PTS system, fructose-like-1 IIBC component FrvB SW:PTVB_ECOLI (P32154) (483 aa) fasta scores: E(): 7.3e-48, 35.18% id in 469 aa, and to the C-terminal region of Xanthomonas campestris PTS system, fructose-specific IIBC component fruA SW:PTFB_XANCP (P23355) (580 aa) fasta scores: E(): 5.6e-65, 43.93% id in 478 aa
YP_042063.1	Similar to Streptococcus mutans mannose-6-phosphate isomerase Pmi SW:MANA_STRMU (Q59935) (316 aa) fasta scores: E(): 2.4e-64, 53.72% id in 309 aa, and to Lactococcus lactis mannose-6-phosphate isomerase Pmi TR:Q9CHG2 (EMBL:AE006310) (315 aa) fasta scores: E(): 1.1e-67, 52.58% id in 310 aa
YP_042064.1	Similar to Lactococcus lactis phage infection protein pip SW:PIP_LACLA (P49022) (901 aa) fasta scores: E(): 3.3e-34, 28.14% id in 995 aa, and to Bacillus subtilis hypothetical protein YhgE SW:YHGE_BACSU (P32399) (775 aa) fasta scores: E(): 9e-19, 22.61% id in 964 aa
YP_042065.1	No significant database matches to the full length CDS. C-terminal region is similar to Lactococcus lactis N-acetylmuramidase AcmB TR:Q9CED5 (EMBL:AE006420) (475 aa) fasta scores: E(): 7.4e-29, 33.4% id in 482 aa, and to Streptococcus pyogenes immunogenic secreted protein precursor Isp TR:Q54707 (EMBL:U31811) (534 aa) fasta scores: E(): 1.2e-13, 26.7% id in 543 aa
YP_042066.1	Similar to an internal region of Escherichia coli isochorismatase EntB SW:ENTB_ECOLI (P15048) (285 aa) fasta scores: E(): 8.9e-08, 27.84% id in 176 aa, and to the full length Thermoplasma acidophilum N-carbamoylsarcosine amidase related protein TA1053 TR:Q9HJB7 (EMBL:AL445066) (192 aa) fasta scores: E(): 3e-08, 23.83% id in 193 aa
YP_042067.1	Poor database matches. Similar to Mycoplasma hominis Lmp1 TR:Q49525 (EMBL:U21962) (1365 aa) fasta scores: E(): 0.0062, 21.78% id in 606 aa. Possible LPXAG-sorted surface protein
YP_042068.1	Poor database matches. Similar to Streptococcus cristatus hypothetical protein TR:Q9KX32 (EMBL:U96166) (442 aa) fasta scores: E(): 1.3e-54, 38.83% id in 448 aa
YP_042069.1	Weakly similar to Lactococcus lactis lipopolysaccharide biosynthesis protein YohH TR:Q9CFL5 (EMBL:AE006375) (541 aa) fasta scores: E(): 2.9e-17, 24.01% id in 533 aa. C-terminal region is similar to Homo sapiens N-acetylglucosaminyl-phosphatidylinositol biosynthetic protein PIGA SW:PIGA_HUMAN (P37287) (484 aa) fasta scores: E(): 2.2e-06, 20.44% id in 406 aa
YP_042070.1	functions in protein export; can interact with acidic membrane phospholipids and the SecYEG protein complex; binds to preproteins; binds to ATP and undergoes a conformational change to promote membrane insertion of SecA/bound preprotein; ATP hydrolysis appears to drive release of the preprotein from SecA and deinsertion of SecA from the membrane; additional proteins SecD/F/YajC aid SecA recycling; exists in an equilibrium between monomers and dimers; may possibly form higher order oligomers; in some organisms, especially gram positive pathogens, have paralogs that have been found to be nonessential but do function in secretion of a subset of exported proteins
YP_042071.1	Poor database matches. N-terminal region is similar to Streptococcus gordonii hypothetical protein TR:Q9AET7 (EMBL:AY028381) (159 aa) fasta scores: E(): 7.7e-15, 37.12% id in 132 aa
YP_042072.1	Poor database matches. Similar to Streptococcus gordonii hypothetical protein TR:Q9AET8 (EMBL:AY028381) (510 aa) fasta scores: E(): 2.7e-76, 39.02% id in 515 aa
YP_042073.1	forms heterotrimeric complex in the membrane; in bacteria the complex consists of SecY which forms the channel pore and SecE and SecG; the SecG subunit is not essential; in bacteria translocation is driven via the SecA ATPase
YP_042074.1	Similar to the N-terminal region of Streptococcus gordonii streptococcal hemagglutinin Hsa TR:Q9KWR3 (EMBL:AB029393) (2178 aa) fasta scores: E(): 1.2e-52, 33.82% id in 1369 aa, and the C-terminal of Staphylococcus epidermidis  cell-surface adhesin SdrF TR:Q9KI14 (EMBL:AF245041) (1733 aa) fasta scores: E(): 9.2e-35, 32.35% id in 1332 aa. CDS contains a serine rich region, residues 752 to 1287. Probable LPXTG-sorted surface protein
YP_042075.1	Similar to Rhizobium loti hypothetical protein MLL0910 TR:BAB48397 (EMBL:AP002996) (202 aa) fasta scores: E(): 4.7e-24, 40.84% id in 213 aa, and to Aquifex aeolicus hypothetical protein AQ_928 TR:O67071 (EMBL:AE000714) (196 aa) fasta scores: E(): 3e-18, 36.78% id in 174 aa
YP_042077.1	No significant database matches. N-terminal region is similar to Staphylococcus carnosus N5,N10-methylenetetrahydromethanopterin reductase homologue SceB TR:O54485 (EMBL:U96107) (61 aa) fasta scores: E(): 3.2e-06, 50% id in 58 aa
YP_042078.1	Similar to Bacillus subtilis hypothetical protein YwrF TR:O05220 (EMBL:Z93767) (205 aa) fasta scores: E(): 1.4e-36, 50% id in 204 aa, and to Bacillus halodurans hypothetical protein BH2278 TR:Q9KAK9 (EMBL:AP001515) (209 aa) fasta scores: E(): 3.7e-30, 42.78% id in 201 aa
YP_042079.1	this stereospecific enzymes reduces the S isomer of methionine sulfoxide while MsrB reduces the R form; a fusion protein of this enzyme with MsrB provides protection against oxidative stress in Neisseria gonorrhoeae
YP_042080.1	Similar to Lactococcus lactis hypothetical protein YveC TR:Q9CDZ4 (EMBL:AE006436) (164 aa) fasta scores: E(): 1.3e-22, 43.22% id in 155 aa. Weak similarity to Saccharomyces cerevisiae glucosamine-phosphate N-acetyltransferase GNA1 SW:GNA1_YEAST (P43577) (159 aa) fasta scores: E(): 0.03, 26.49% id in 151 aa
YP_042081.1	Similar to Staphylococcus aureus type 1 capsule synthesis protein CapC SW:CAPC_STAAU (P39852) (255 aa) fasta scores: E(): 6.5e-57, 56.47% id in 255 aa, and to Staphylococcus aureus type 5 capsule synthesis protein Cap5C TR:P95697 (EMBL:U81973) (254 aa) fasta scores: E(): 3.2e-51, 53.33% id in 255 aa, and to Staphylococcus aureus type 8 capsule synthesis protein Cap8C TR:P72369 (EMBL:U73374) (254 aa) fasta scores: E(): 3.7e-51, 53.33% id in 255 aa. Similar to SAR0153, 52.549% identity (53.175% ungapped) in 255 aa overlap
YP_042082.1	Similar to Staphylococcus aureus type 1 capsule synthesis protein CapB SW:CAPB_STAAU (P39851) (228 aa) fasta scores: E(): 5.1e-51, 60.08% id in 228 aa, and to Staphylococcus aureus type 5 capsule synthesis protein Cap5B TR:P95696 (EMBL:U81973) (228 aa) fasta scores: E(): 2.2e-48, 58.07% id in 229 aa, and to Staphylococcus aureus type 8 capsule synthesis protein Cap8B TR:P72368 (EMBL:U73374) (228 aa) fasta scores: E(): 1.8e-47, 57.2% id in 229 aa. Similar to SAR0152, 55.895% identity (56.140% ungapped) in 229 aa overlap
YP_042083.1	Similar to Staphylococcus aureus type 1 capsule synthesis protein CapA SW:CAPA_STAAU (P39850) (221 aa) fasta scores: E(): 3e-39, 53.18% id in 220 aa, and to Staphylococcus aureus type 5 capsule synthesis protein Cap5A TR:P95695 (EMBL:U81973) (222 aa) fasta scores: E(): 3.5e-38, 52.48% id in 221 aa, and to Staphylococcus aureus type 8 capsule synthesis protein Cap8A TR:P72367 (EMBL:U73374) (222 aa) fasta scores: E(): 5.3e-38, 52.03% id in 221 aa. Similar to SAR0151, 52.489% identity (52.727% ungapped) in 221 aa overlap
YP_042084.1	Previously sequenced as Staphylococcus aureus intercellular adhesion (ica) operon transcriptional regulator IcaR TR:Q9RQQ0 (EMBL:AF086783) (186 aa) fasta scores: E(): 1.1e-64, 99.46% id in 186 aa. Similar to Staphylococcus caprae  ica operon transcriptional regulator IcaR TR:Q9AIQ9 (EMBL:AF246926) (190 aa) fasta scores: E(): 2.5e-44, 67.02% id in 185 aa
YP_042085.1	predicted polysaccharide polymerase involved in biofilm formation; required for the synthesis of the beta-1,6-N-acetylglucosamine polysaccharide; PgaC; in Yersinia the HmsR protein is an inner membrane protein
YP_042086.1	Previously sequenced as Staphylococcus aureus intercellular adhesion protein D IcaD TR:Q9RQP8 (EMBL:AF086783) (101 aa) fasta scores: E(): 5.7e-38, 98.02% id in 101 aa. Similar to Staphylococcus caprae intercellular adhesion protein D IcaD TR:Q9AIQ7 (EMBL:AF246926) (101 aa) fasta scores: E(): 2.8e-25, 65.34% id in 101 aa
YP_042087.1	Previously sequenced as Staphylococcus aureus intercellular adhesion protein B IcaB TR:Q9RQP7 (EMBL:AF086783) (290 aa) fasta scores: E(): 9.7e-109, 97.58% id in 290 aa. Similar to Staphylococcus caprae intercellular adhesion protein B IcaB TR:Q9AIQ6 (EMBL:AF246926) (289 aa) fasta scores: E(): 3.7e-73, 65.39% id in 289 aa
YP_042088.1	Previously sequenced as Staphylococcus aureus intercellular adhesion protein C IcaC TR:Q9RQP6 (EMBL:AF086783) (350 aa) fasta scores: E(): 1.4e-121, 99.14% id in 350 aa. Similar to Staphylococcus caprae intercellular adhesion protein C IcaC TR:Q9AIQ5 (EMBL:AF246927) (357 aa) fasta scores: E(): 3.5e-100, 78.28% id in 350 aa
YP_042089.1	No significant database matches. Doubtful CDS
YP_042090.1	Similar to Staphylococcus epidermidis lipase precursor GehC SW:LIP_STAEP (Q02510) (688 aa) fasta scores: E(): 5.1e-123, 60.91% id in 701 aa. Previously sequenced as Staphylococcus aureus glycerol ester hydrolase lip TR:Q59811 (EMBL:M90693) (682 aa) fasta scores: E(): 0, 97.5% id in 682 aa
YP_042091.1	catalyzes the formation of 1-(5-phosphoribosyl)-AMP from 1-(5-phosphoribosyl)-ATP and the subsequent formation of 1-(5-phosphoribosyl)-5-((5- phosphoribosylamino)methylideneamino)imidazole-4- carboxamide from 1-(5-phosphoribosyl)-AMP in histidine biosynthesis
YP_042092.1	catalyzes the conversion of 5-[(5-phospho-1-deoxyribulos-1-ylamino)methylideneamino]- 1-(5-phosphoribosyl)imidazole-4-carboxamideand glutamine to imidazole-glycerol phosphate, 5-aminoimidazol-4-carboxamideribonucleotide and glutamate; the HisF subunit acts as a cyclase
YP_042093.1	catalyzes the formation of 5-(5-phospho-1-deoxyribulos-1-ylamino)methylideneamino-l- (5-hosphoribosyl)imidazole-4-carboxamide from 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide
YP_042094.1	with HisF IGPS catalyzes the conversion of phosphoribulosyl-formimino-5-aminoimidazole-4-carboxamide ribonucleotide phosphate and glutamine to imidazole-glycerol phosphate, 5-aminoimidazol-4-carboxamide ribonucleotide, and glutamate in histidine biosynthesis; the HisH subunit provides the glutamine amidotransferase activity that produces the ammonia necessary to HisF for the synthesis of imidazole-glycerol phosphate and 5-aminoimidazol-4-carboxamide ribonucleotide
YP_042095.1	catalyzes the dehydration of D-erythro-1-(imidazol-4-yl)glycerol 3-phosphate to 3-(imidazol-4-yl)-2-oxopropyl phosphate in histidine biosynthesis
YP_042096.1	Similar to Escherichia coli histidinol-phosphate aminotransferase HisC SW:HIS8_ECOLI (P06986) (356 aa) fasta scores: E(): 3.2e-16, 27% id in 337 aa, and to Deinococcus radiodurans histidinol-phosphate aminotransferase DR2461 TR:Q9RRM7 (EMBL:AE002075) (361 aa) fasta scores: E(): 1.4e-18, 28.03% id in 321 aa. CDS is truncated at the N-terminus in comparison to orthologues
YP_042097.1	catalyzes the oxidation of L-histidinol to L-histidinaldehyde and then to L-histidine in histidine biosynthesis; functions as a dimer
YP_042098.1	short form of enzyme; requires HisZ for function; catalyzes the formation of N'-5'-phosphoribosyl-ATP from phosphoribosyl pyrophosphate; crucial role in histidine biosynthesis; forms heteromultimer of HisG and HisZ
YP_042099.1	May allow the feedback regulation of ATP phosphoribosyltransferase activity by histidine
YP_042101.1	Similar to Bacillus halodurans hypothetical protein BH1868 TR:Q9KBQ7 (EMBL:AP001513) (163 aa) fasta scores: E(): 0.004, 24.67% id in 154 aa, and to Streptomyces coelicolor  acetyltransferase SCJ9A.01 TR:Q9S1R9 (EMBL:AL109972) (177 aa) fasta scores: E(): 0.005, 26.71% id in 146 aa
YP_042102.1	Similar to Lactococcus lactis ABC transporter permease YdcF TR:Q9CIN0 (EMBL:AE006269) (273 aa) fasta scores: E(): 3.5e-56, 55.07% id in 276 aa, and to Mycoplasma pulmonis ABC transporter permease MYPU_3880 TR:CAC13561 (EMBL:AL445564) (296 aa) fasta scores: E(): 4.3e-12, 26.76% id in 284 aa
YP_042103.1	Similar to Lactococcus lactis ABC transporter ATP binding protein YdcE TR:Q9CIN1 (EMBL:AE006269) (565 aa) fasta scores: E(): 1.9e-93, 47.79% id in 567 aa, and to Pyrococcus horikoshii 284aa long hypothetical cobalt transport ATP-binding protein PH1815 TR:O59479 (EMBL:AP000007) (284 aa) fasta scores: E(): 9.5e-24, 34.95% id in 246 aa
YP_042104.1	Similar to Lactococcus lactis hypothetical protein YdcD TR:Q9CIN2 (EMBL:AE006269) (182 aa) fasta scores: E(): 8.5e-34, 51.64% id in 182 aa, and to Streptococcus pyogenes hypothetical protein SPY1899 TR:Q99Y30 (EMBL:AE006614) (156 aa) fasta scores: E(): 0.23, 28.97% id in 107 aa
YP_042105.1	Similar to Helicobacter pylori conserved hypothetical protein HP0709 TR:O25413 (EMBL:AE000584) (300 aa) fasta scores: E(): 2.1e-53, 50.54% id in 277 aa, and to Methanococcus jannaschii hypothetical protein MJ1651 SW:YG51_METJA (Q59045) (263 aa) fasta scores: E(): 4.3e-17, 30.51% id in 272 aa
YP_042106.1	Similar to Thermoplasma volcanium hypothetical protein TVG0219791 TR:BAB59353 (EMBL:AP000991) (177 aa) fasta scores: E(): 1.8e-20, 40% id in 170 aa, and to Thermoplasma acidophilum hypothetical protein TA0132 TR:Q9HLU3 (EMBL:AL445063) (180 aa) fasta scores: E(): 4.7e-19, 40.6% id in 165 aa
YP_042107.1	Highly similar to Staphylococcus aureus beta-lactam induced protein Drp35 TR:Q9S0S3 (EMBL:AB030228) (323 aa) fasta scores: E(): 1.5e-130, 96.59% id in 323 aa. Similar to Xylella fastidiosa hypothetical protein XF1742 TR:Q9PCN6 (EMBL:AE003997) (356 aa) fasta scores: E(): 2.6e-50, 46.45% id in 310 aa. CDS is truncated at the N-terminus in comparison to Xylella fastidiosa protein
YP_042108.1	Similar to Lactococcus lactis hypothetical protein YmdE TR:Q9CG88 (EMBL:U92974) (319 aa) fasta scores: E(): 3.9e-86, 67.42% id in 307 aa, and to Bacillus subtilis hypothetical protein YbfQ TR:O31457 (EMBL:AB006424) (322 aa) fasta scores: E(): 1.5e-83, 62.65% id in 316 aa
YP_042109.1	catalyzes the removal of 5-oxoproline from various penultimate amino acid residues except L-proline
YP_042110.1	Poor database matches. Similar to Bacillus halodurans hypothetical protein BH0999 TR:Q9KE59 (EMBL:AP001510) (155 aa) fasta scores: E(): 0.031, 21.62% id in 148 aa
YP_042111.1	Previously sequenced as Staphylococcus aureus collagen adhesin precursor Cna SW:CNA_STAAU (Q53654) (1183 aa) fasta scores: E(): 0, 97.97% id in 1183 aa. N-terminal region is similar to Enterococcus faecalis collagen adhesin precursor Ace TR:Q9F866 (EMBL:AF260873) (721 aa) fasta scores: E(): 1.8e-14, 25.78% id in 698 aa. CDS contains a repeat region (187 amino acids x3), residues 533 to 1094. Probable LPXTG-sorted surface protein
YP_042112.1	Similar to the C-terminal region of Spinacia oleracea 2-oxoglutarate/malate translocator, chloroplast precursor SODiT1 SW:SOT1_SPIOL (Q41364) (569 aa) fasta scores: E(): 4.1e-81, 46.03% id in 467 aa, and to the full length Bacillus subtilis hypothetical protein YflS TR:O34726 (EMBL:Z99108) (478 aa) fasta scores: E(): 3.4e-100, 54.77% id in 471 aa
YP_042113.1	Similar to Bacillus halodurans hypothetical protein BH3866 TR:Q9K666 (EMBL:AP001520) (308 aa) fasta scores: E(): 1.1e-46, 46.4% id in 306 aa, and to Vibrio cholerae RarD protein VC0195 TR:Q9KVF1 (EMBL:AE004110) (302 aa) fasta scores: E(): 6.2e-38, 39.78% id in 284 aa
YP_042114.1	Poor database matches. Weakly similar to the C-terminal region of Mycobacterium tuberculosis  RNA polymerase sigma factor sigg or rv0182c or mtci28.22C TR:O07426 (EMBL:Z97050) (370 aa) fasta scores: E(): 4, 24.71% id in 178 aa
YP_042115.1	Similar to Alcaligenes eutrophus high-affinity nickel transport protein HoxN SW:HOXN_ALCEU (P23516) (351 aa) fasta scores: E(): 4e-52, 44.2% id in 328 aa, and to Helicobacter pylori J99 high-affinity nickel-transport protein JHP0348 SW:NIXA_HELPJ (Q9ZM74) (331 aa) fasta scores: E(): 1.5e-63, 53.15% id in 333 aa
YP_042116.1	Similar to Salmonella typhimurium N-hydroxyarylamine O-acetyltransferase NhoA SW:NHOA_SALTY (Q00267) (281 aa) fasta scores: E(): 1.2e-13, 27.38% id in 241 aa, and to Caulobacter crescentus N-hydroxyarylamine O-acetyltransferase CC1563 TR:Q9A803 (EMBL:AE005831) (275 aa) fasta scores: E(): 1.4e-13, 30.64% id in 248 aa
YP_042117.1	Similar to Pseudomonas aeruginosa hypothetical protein PA5409 TR:Q9HTF5 (EMBL:AE004953) (186 aa) fasta scores: E(): 0.0044, 22.48% id in 169 aa, and to Methanothermobacter thermautotrophicus hypothetical protein MTH881 TR:O26967 (EMBL:AE000864) (168 aa) fasta scores: E(): 0.05, 25.15% id in 159 aa
YP_042118.1	Previously sequenced as Staphylococcus aureus ABC transporter ATP-binding protein, up-regulated in vancomycin-resistant strains, VraD TR:Q9RL74 (EMBL:Y18641) (252 aa) fasta scores: E(): 4e-80, 99.6% id in 252 aa. Similar to Bacillus halodurans ABC transporter BH3913 TR:Q9K619 (EMBL:AP001520) (253 aa) fasta scores: E(): 1.1e-48, 59.92% id in 252 aa. Similar to SAR0671, 63.200% identity (63.454% ungapped) in 250 aa overlap
YP_042119.1	Previously sequenced as Staphylococcus aureus ABC transporter permease, up-regulated in vancomycin-resistant strains, VraE TR:Q9KWJ6 (EMBL:AB035452) (626 aa) fasta scores: E(): 3.1e-195, 95.36% id in 626 aa. Similar to Bacillus subtilis YtsD TR:O34741 (EMBL:AF008220) (646 aa) fasta scores: E(): 9.7e-40, 31.89% id in 649 aa
YP_042120.1	No significant database matches. Doubtful CDS
YP_042122.1	No significant database matches to the full length CDS. C-terminus is similar to the C-terminal region of Neisseria meningitidis hypothetical protein NMB0372 TR:Q9K122 (EMBL:AE002393) (225 aa) fasta scores: E(): 2.7e-05, 52% id in 75 aa
YP_042123.1	Poor database matches. Similar to internal regions of Bacillus subtilis minor extracellular protease precursor Epr SW:SUBE_BACSU (P16396) (645 aa) fasta scores: E(): 8.8e-17, 32.35% id in 204 aa, and Bacillus licheniformis subtilisin carlsberg precursor Apr SW:SUBT_BACLI (P00780) (379 aa) fasta scores: E(): 4e-16, 33.81% id in 207 aa
YP_042124.1	Similar to Bacillus subtilis cold shock protein CspC SW:CSPC_BACSU (P39158) (66 aa) fasta scores: E(): 1.8e-17, 73.43% id in 64 aa. Previously sequenced as Staphylococcus aureus cold shock protein CspB TR:O33591 (EMBL:AF003592) (66 aa) fasta scores: E(): 6.4e-25, 100% id in 66 aa. Similar to SAR0848, 80.952% identity (80.952% ungapped) in 63 aa overlap SAR1414, 73.016% identity (73.016% ungapped) in 63 aa overlap
YP_042125.1	Similar to Streptococcus pyogenes hypothetical protein SPY1834 TR:Q99Y76 (EMBL:AE006610) (195 aa) fasta scores: E(): 2.1e-17, 37.3% id in 193 aa, and to Bacillus pumilus plasmid pSH1452 similar hypothetical protein TR:O33867 (EMBL:U53767) (211 aa) fasta scores: E(): 0.0009, 30.19% id in 202 aa
YP_042126.1	Poor database matches. Similar to Bacillus halodurans hypothetical protein BH0644 TR:Q9KF42 (EMBL:AP001509) (112 aa) fasta scores: E(): 0.1, 22.44% id in 98 aa
YP_042127.1	Similar to Bacillus halodurans hypothetical protein BH0644 TR:Q9KF42 (EMBL:AP001509) (112 aa) fasta scores: E(): 7.1, 22.43% id in 107 aa, and to Rhizobium loti hypothetical protein MLR8402 TR:BAB54292 (EMBL:AP003014) (109 aa) fasta scores: E(): 8.1, 26.92% id in 104 aa
YP_042128.1	Similar to Bacillus halodurans DNA-binding protein Spo0J-like homologue BH4059 TR:Q9K5M9 (EMBL:AP001520) (283 aa) fasta scores: E(): 5.7e-39, 47.36% id in 285 aa, and to Bacillus subtilis hypothetical protein YyaA SW:YYAA_BACSU (P37524) (283 aa) fasta scores: E(): 6.7e-38, 48.23% id in 284 aa
YP_042129.1	glucose-inhibited division protein B; SAM-dependent methyltransferase; methylates the N7 position of guanosine in position 527 of 16S rRNA
YP_042130.1	GidA; glucose-inhibited cell division protein A; involved in the 5-carboxymethylaminomethyl modification (mnm(5)s(2)U) of the wobble uridine base in some tRNAs
YP_042131.1	in Escherichia coli this protein is involved in the biosynthesis of the hypermodified nucleoside 5-methylaminomethyl-2-thiouridine, which is found in the wobble position of some tRNAs and affects ribosomal frameshifting; shows potassium-dependent dimerization and GTP hydrolysis; also involved in regulation of glutamate-dependent acid resistance and activation of gadE
YP_042132.1	protein component of RNaseP which catalyzes the removal of the 5'-leader sequence from pre-tRNA to produce the mature 5'terminus; this enzyme also cleaves other RNA substrates
YP_042133.1	in Escherichia coli transcription of this gene is enhanced by polyamines