BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0001.0310.p (475 letters) Database: BlastDatabases/707/707 3697 sequences; 1,221,021 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|152980186|ref|YP_001354704.1| UDP-N-acetylmuramate--L-alanine... 749 0.0 gi|152980991|ref|YP_001354657.1| UDP-N-acetylmuramate: L-alanyl-... 112 7e-26 >gi|152980186|ref|YP_001354704.1| UDP-N-acetylmuramate--L-alanine ligase [Janthinobacterium sp. Marseille] Length = 465 Score = 749 bits (1935), Expect = 0.0, Method: Compositional matrix adjust. Identities = 387/463 (83%), Positives = 418/463 (90%) Query: 1 MKHRVKNIHFVGIGGSGMSGIAEVLFNLGYGVSGSDLGSNAATQRLAQLGACIRYGHAAE 60 MKH+VKNIHFVGIGGSGMSGIAEVL NLGY VSGSDLGSNAAT+RL +LGA + GHAAE Sbjct: 1 MKHKVKNIHFVGIGGSGMSGIAEVLLNLGYTVSGSDLGSNAATRRLIELGAKVTLGHAAE 60 Query: 61 NIEGADAIVTSTAVKGDNPEVLAARKKHIPIVPRAVMLGELMRLKKGIAIAGTHGKTTTT 120 NIE ADAIVTSTAVK DNPEV+AAR+KHIPIVPRAVML ELMRL++GIAIAGTHGKTTTT Sbjct: 61 NIEKADAIVTSTAVKEDNPEVIAAREKHIPIVPRAVMLAELMRLRRGIAIAGTHGKTTTT 120 Query: 121 SLVASVLAQGGLDPTFVIGGRLTSAGANAKLGTGEFIVAEADESDASFLNLTPVIEVITN 180 SLVASVLA+GGLDPTFVIGG L SAGANAKLGTGEFIVAEADESDASFLNL+PVIEVITN Sbjct: 121 SLVASVLAEGGLDPTFVIGGLLNSAGANAKLGTGEFIVAEADESDASFLNLSPVIEVITN 180 Query: 181 IDADHMETYNHDFARLKQAFVEFTQRLPFYGVAVLCLDDPHVREIMPMVSKPILTYGFHA 240 IDADHMETY HDF +LKQAF+EFTQRLPFYGVAVLC+DD VREIMP +SK I TYGFH Sbjct: 181 IDADHMETYGHDFEKLKQAFIEFTQRLPFYGVAVLCIDDATVREIMPRISKLITTYGFHE 240 Query: 241 DADVRAIEASAVDGKMEFTVIQDGYAPMKVSLNQPGMHNVQNACAAIAIARELDVDDAAT 300 DA VRAI+A A+DG M FTV+Q+GYAPM+VSLNQPGMHNVQNACAAIAIAREL V D AT Sbjct: 241 DAQVRAIDAKAIDGHMHFTVLQEGYAPMQVSLNQPGMHNVQNACAAIAIARELGVADHAT 300 Query: 301 QKALTEFNGVGRRFTRYGEVPITDAQGNPAGHFTLVDDYGHHPVETAATIAAARGAYPGR 360 QKALTEFNGVGRRFTRYGE+ + PAG F LVDDYGHHPVETAATIAAARGAYPGR Sbjct: 301 QKALTEFNGVGRRFTRYGEISLPAVNDKPAGTFALVDDYGHHPVETAATIAAARGAYPGR 360 Query: 361 RLVLAFQPHRYTRTRDLFEDFVKVLSSPDVLVLGEVYAAGEAPIVAADGRSLAHALRAAG 420 RLVLAFQPHRYTRTRDLFEDFVKVLS+ D+LVL EVYAAGE PIVAADGR+LAHALR AG Sbjct: 361 RLVLAFQPHRYTRTRDLFEDFVKVLSTTDMLVLAEVYAAGEQPIVAADGRTLAHALRVAG 420 Query: 421 KVEPVFVDDIGDMPETIRNVVRDGDVVMTMGAGSISAVPGRLV 463 KV+PVFV+ I DMP TI N+++DGDVV+TMGAGSIS VP +LV Sbjct: 421 KVDPVFVEKIADMPATIMNIIKDGDVVITMGAGSISGVPAKLV 463 >gi|152980991|ref|YP_001354657.1| UDP-N-acetylmuramate: L-alanyl-gamma-D-glutamyl-meso-diaminopimelate ligase [Janthinobacterium sp. Marseille] Length = 457 Score = 112 bits (279), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 132/476 (27%), Positives = 210/476 (44%), Gaps = 44/476 (9%) Query: 7 NIHFVGIGGSGMSGIAEVLFNLGYGVSGSD--LGSNAATQRLAQLGACIRYGHAAENIEG 64 +IH +G+ G+ M G+A + G+ V+G D + +TQ AQ G + G+ E I Sbjct: 2 HIHILGVCGTFMGGLAVLAKAAGHTVTGCDANVYPPMSTQLEAQ-GIKLIEGYGPEQISL 60 Query: 65 A-DAIVTSTAVKGDNPEVLAARKKHIPIVPRAVMLGE-LMRLKKGIAIAGTHGKTTTTSL 122 A D V V NP + + +P +GE +++ K +A+AGTHGKTTT+S+ Sbjct: 61 APDLYVIGNVVSRGNPLMEEILNRGLPYTSGPQWIGEHILQGKWVLAVAGTHGKTTTSSM 120 Query: 123 VASVLAQGGLDPTFVIGGRLTSAGANAKL-GTGE---FIVAEADESDASFLNLTPVI--- 175 +A +L G DP F+IGG + G +A+L G+G+ F V EADE D +F + Sbjct: 121 LAWILEDAGYDPGFLIGGVPMNFGISARLSGSGKESSFFVIEADEYDTAFFDKRSKFVHY 180 Query: 176 ----EVITNIDADHMETYNHDFARLKQAFVEFTQRLPFYGVAVLCLDDPHVREIMPMVSK 231 ++ N++ DH + + D ++ F + +P G + + ++ Sbjct: 181 HAKTAILNNLEYDHADIFP-DLHAIETQFHHLVRTVPGVGRVIANGREASLQR------- 232 Query: 232 PILTYGFHADADV---RAIEASAVDGKMEFTVIQDGYAPMKVSLNQPGMHNVQNACAAIA 288 +L G ++++ + + A F VI +G V + G HN NA AAIA Sbjct: 233 -VLQRGCWSESEWFGGKEGWSLATHDDGNFDVIFNGELQGTVQWSLTGEHNRMNALAAIA 291 Query: 289 IARELDVDDAATQKALTEFNGVGRRFTRYGEVPITDAQGNPAGHFTLVDDYGHHPVETAA 348 AR + V A AL +F V RR G V + DD+ HHP A Sbjct: 292 AARHVGVLPAQAIAALGQFENVKRRMELRGTVK----------DIAVYDDFAHHPTAIAT 341 Query: 349 TIAAARGAYPGRRLVLAFQPHRYT-RTRDLFEDFVKVLSSPDVLVLGEVYAAGEAPIVAA 407 T+ R R++ +P T + + E L D L+ G A+G A Sbjct: 342 TVEGLRKKVGKARILAVLEPRSNTMKLGTMKEALPGSLVDAD-LIFG-YGASGNGK--DA 397 Query: 408 DGRSLAHALRAAGKVEPVFVDDIGDMPETIRNVVRDGDVVMTMGAGSISAVPGRLV 463 G LA AL G+ F +D+ + + I + GD V+ M G V +++ Sbjct: 398 LGWDLAEALAPLGEKARSF-NDLPTLVQAIAQSAQAGDQVLVMSNGGFGGVHQKIL 452 Database: BlastDatabases/707/707 Posted date: Apr 13, 2011 12:58 PM Number of letters in database: 1,221,021 Number of sequences in database: 3697 Lambda K H 0.319 0.135 0.390 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 3697 Number of Hits to DB: 1,140,036 Number of extensions: 49247 Number of successful extensions: 230 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 227 Number of HSP's successfully gapped: 3 Length of query: 475 Length of database: 1,221,021 Length adjustment: 87 Effective length of query: 388 Effective length of database: 899,382 Effective search space: 348960216 Effective search space used: 348960216 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 131 (55.1 bits)