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= 0026.0050.p (274 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313115|ref|YP_003777207.1| long-chain-fatty-acid-CoA ligas... 93 2e-20 gi|300313157|ref|YP_003777249.1| long-chain-fatty-acid-CoA ligas... 74 9e-15 gi|300309365|ref|YP_003773457.1| acetyl-coenzyme A synthetase [H... 69 6e-13 gi|300312041|ref|YP_003776133.1| acyl-CoA synthetase/AMP-acid li... 59 4e-10 gi|300310928|ref|YP_003775020.1| medium-chain-fatty-acid CoA lig... 57 2e-09 >gi|300313115|ref|YP_003777207.1| long-chain-fatty-acid-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 556 Score = 92.8 bits (229), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 57/160 (35%), Positives = 81/160 (50%), Gaps = 5/160 (3%) Query: 108 APDIPGLIYVRSPMVFTDYVTLRDSDEQPALLRDGDWLSVRDVGHLDKQGRLHLLGRQQR 167 AP G I VR P VF Y ++ E A DW D+GH+D+ G L++ GR Sbjct: 394 APFETGEICVRGPAVFMGY---HNNPEANAKAFKHDWFHTGDLGHVDQDGFLYITGRSSD 450 Query: 168 MLLAQGKNLFPEEVESVLTAHPAVAAASVQGMADAVRGVQIAALL--KVTDPVSPEALVA 225 M ++ G N++P E+E L HPAV+ +V G+ D G A++ K V EAL+A Sbjct: 451 MYISGGSNVYPREIEEALLTHPAVSEVAVLGVPDPKWGESGLAVIVCKAGQQVDGEALLA 510 Query: 226 WCRERLEPYKIPRRFYTCNDWPLTPSGKTDHKQLAQRLDD 265 R+ YK PRRF + P + GK KQ+ L++ Sbjct: 511 HLESRIGKYKWPRRFIYWDSMPKSGYGKIVKKQIKALLEE 550 >gi|300313157|ref|YP_003777249.1| long-chain-fatty-acid-CoA ligase [Herbaspirillum seropedicae SmR1] Length = 566 Score = 74.3 bits (181), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 45/157 (28%), Positives = 77/157 (49%), Gaps = 6/157 (3%) Query: 112 PGLIYVRSPMVFTDYVTLRDSDEQPALLRDGDWLSVRDVGHLDKQGRLHLLGRQQRMLLA 171 PG I +R P V Y + DE ++ + D+G +D++G ++ R++ M+L Sbjct: 407 PGEIAIRGPQVMPGY--WQRPDETAKVMTPDGFFKTGDIGVMDERGYTKIVDRKKDMILV 464 Query: 172 QGKNLFPEEVESVLTAHPAVAAASVQGMADAVRGVQIAALLKVTDP-VSPEALVAWCRER 230 G N++P EVE V+ HP V + G+ D G + + D +S L+ +C+E+ Sbjct: 465 SGFNVYPNEVEGVVAQHPGVLECACVGVPDEHTGEAVKLFVVRKDKTLSAAQLMDYCKEQ 524 Query: 231 LEPYKIPRRFYTCNDWPLTPSGKTDHKQLAQRLDDPA 267 YK P+ ++ P T GK ++L D+PA Sbjct: 525 FTGYKKPKYIEFRDELPKTNVGKILRRELR---DEPA 558 >gi|300309365|ref|YP_003773457.1| acetyl-coenzyme A synthetase [Herbaspirillum seropedicae SmR1] Length = 549 Score = 68.6 bits (166), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 43/125 (34%), Positives = 65/125 (52%), Gaps = 5/125 (4%) Query: 142 GDWLSVRDVGHLDKQGRLHLLGRQQRMLLAQGKNLFPEEVESVLTAHPAVAAASVQGMAD 201 GD+L D+G +D+QG + LGR ++ + G + P +E L HPAV A+V G+ D Sbjct: 422 GDFLLTGDLGSMDEQGYIRYLGRNDDVITSAGYRIGPAAIEECLMRHPAVRIAAVVGVKD 481 Query: 202 AVRGVQIAALLKVTDPVSP-EALVA----WCRERLEPYKIPRRFYTCNDWPLTPSGKTDH 256 A+R + A + + D V+P EAL A R +L ++ PR P T +GK Sbjct: 482 ALRTEVVKAFVVLKDGVTPDEALKAELQQHVRAQLAAHEYPRLISFVAALPTTATGKIMR 541 Query: 257 KQLAQ 261 K L + Sbjct: 542 KTLKE 546 >gi|300312041|ref|YP_003776133.1| acyl-CoA synthetase/AMP-acid ligase II protein [Herbaspirillum seropedicae SmR1] Length = 539 Score = 59.3 bits (142), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 39/121 (32%), Positives = 59/121 (48%), Gaps = 1/121 (0%) Query: 149 DVGHLDKQGRLHLLGRQQRMLLAQGKNLFPEEVESVLTAHPAVAAASVQGMADAVRGVQI 208 D +D+QG L+ +GR M+ G + P EVE VL A +V G+A +G + Sbjct: 413 DSVRMDEQGYLYFVGRADDMIKVSGYRISPHEVEEVLHATGLADQFAVVGVAHPQQGQAV 472 Query: 209 AALLKVTDPVSPEALVAWCRERLEPYKIPRRFYT-CNDWPLTPSGKTDHKQLAQRLDDPA 267 A++ + S EA+ CR L Y +P + + P +P+GK D K + Q L D Sbjct: 473 VAVVPSSCTASLEAVQQACRAHLPSYMLPAALHRWPGELPRSPNGKLDRKLMQQTLADHF 532 Query: 268 M 268 M Sbjct: 533 M 533 >gi|300310928|ref|YP_003775020.1| medium-chain-fatty-acid CoA ligase [Herbaspirillum seropedicae SmR1] Length = 545 Score = 56.6 bits (135), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 45/173 (26%), Positives = 78/173 (45%), Gaps = 17/173 (9%) Query: 104 IDATAPDIP------GLIYVRSPMVFTDYVTLRDSDEQPALLRDGDWLSVRDVGHLDKQG 157 +D D P G + VR+P + Y+ ++ E+ L G WL +D+GHLD +G Sbjct: 372 VDGEMQDCPRDGSTTGEVVVRAPWLTQGYLHQAEASEE---LWRGGWLHTQDIGHLDAEG 428 Query: 158 RLHLLGRQQRMLLAQGKNLFPEEVESVLTAHPAVAAASVQGMADAV---RGVQIAALLKV 214 L + R + ++ G+ + ++E ++ HPAVA +V G+ D R V + L K Sbjct: 429 YLQVTDRIKDVIKTGGEWVSSLQIEDIIARHPAVAETAVIGIQDGKWGERPVALVVLKKD 488 Query: 215 TDPVSPEALVAWCRERLEP-----YKIPRRFYTCNDWPLTPSGKTDHKQLAQR 262 VS + + R E Y +P R + T GK + + + ++ Sbjct: 489 AAAVSEDDIREHVRAAAEAGAISRYGVPDRVRFVAELARTSVGKLNKRVMREQ 541 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.320 0.135 0.413 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 899,503 Number of extensions: 38814 Number of successful extensions: 156 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 156 Number of HSP's successfully gapped: 7 Length of query: 274 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 190 Effective length of database: 1,222,130 Effective search space: 232204700 Effective search space used: 232204700 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: 130 (54.7 bits)