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= 0001.2829.p (504 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310266|ref|YP_003774358.1| amidase family protein [Herbasp... 967 0.0 gi|300313942|ref|YP_003778034.1| Asp-tRNAAsn/Glu-tRNAGln amidotr... 171 9e-44 gi|300311162|ref|YP_003775254.1| amidase family protein [Herbasp... 114 2e-26 gi|300311728|ref|YP_003775820.1| indole acetamide hydrolase [Her... 102 6e-23 gi|300309904|ref|YP_003773996.1| aspartate tRNAAsn/Glu-tRNAGln a... 102 7e-23 >gi|300310266|ref|YP_003774358.1| amidase family protein [Herbaspirillum seropedicae SmR1] Length = 504 Score = 967 bits (2499), Expect = 0.0, Method: Compositional matrix adjust. Identities = 489/504 (97%), Positives = 497/504 (98%) Query: 1 MSIVRPTPEQLKELASSLHIQLTTEQASQYLDLMQASFDAYDVIDGLPDEIPAIKYPRSA 60 MSIVRPTPEQLKELASSLHIQLTTEQASQYLDLMQASFDAYDVIDGLPDEIPA+KYPRSA Sbjct: 1 MSIVRPTPEQLKELASSLHIQLTTEQASQYLDLMQASFDAYDVIDGLPDEIPAVKYPRSA 60 Query: 61 GARPAAKDNPLNAWACKSTVKGAAAGKLAGRTVVLKDNVALAGVPMMNGSSTLEGFVPSY 120 ARPAAKDNPLNAWACKSTVKGAA GKLAGRTVVLKDNVALAGVPMMNGSSTLEGFVPSY Sbjct: 61 AARPAAKDNPLNAWACKSTVKGAAEGKLAGRTVVLKDNVALAGVPMMNGSSTLEGFVPSY 120 Query: 121 DASVVTRLLDAGATILGKATCEHFCLSGGSHTSDPAPVHNPRRQGYASGGSSSGSAALVA 180 DA++VTRLLDAGATILGKATCEHFCLSGGSHTSDPAPVHNPRR GY SGGSSSGSAALVA Sbjct: 121 DATIVTRLLDAGATILGKATCEHFCLSGGSHTSDPAPVHNPRRHGYGSGGSSSGSAALVA 180 Query: 181 AGEADMAIGGDQGGSIRIPSAFCGTYGMKATHGLVPYTGVMPIEATVDHVGPITANVRDN 240 AGEADMAIGGDQGGSIRIPSAFCGTYGMKATHGLVPYTGVMPIEATVDHVGPITANVRDN Sbjct: 181 AGEADMAIGGDQGGSIRIPSAFCGTYGMKATHGLVPYTGVMPIEATVDHVGPITANVRDN 240 Query: 241 ALMLEVIAGADGLDPRQYAPQVQPYTAALDRGVRGLKIGILTEGFALGNMDKRVADKVQE 300 ALMLEVIAGADGLDPRQYAP+VQPYTAALDRGVRGLKIGILTEGFALGNMDKRVADKVQE Sbjct: 241 ALMLEVIAGADGLDPRQYAPEVQPYTAALDRGVRGLKIGILTEGFALGNMDKRVADKVQE 300 Query: 301 AIAQLEKLGASVATVSVEEHVLAGALWQPIGCEGLTMQMMHGNGMGFNWKGLYDLGLLDR 360 AIAQLEKLGASVATVSVEEH LAGALWQPIGCEGLTMQMMHGNGMGFNWKGLYDLGLL Sbjct: 301 AIAQLEKLGASVATVSVEEHALAGALWQPIGCEGLTMQMMHGNGMGFNWKGLYDLGLLQH 360 Query: 361 HAHWRDHADDLSATLKLCMFVGQYGLTRYQGRFYAKAQNIARRARAGYDKALADFDLLVM 420 HAHWR+HADDLSATLKLCMFVGQYGLTRYQGRFYAKAQNIARRARAGYDKALADFDLLVM Sbjct: 361 HAHWREHADDLSATLKLCMFVGQYGLTRYQGRFYAKAQNIARRARAGYDKALADFDLLVM 420 Query: 421 PTVPIIAQPLPAAGCPLSDYVARAFEMIGNTAPLDITGHPAMSIPCGTVEGLPVGLMLVG 480 PTVPIIAQPLPAAGCPL++YVARAFEMIGNTAPLDITGHPAMSIPCGTV+GLPVGLMLVG Sbjct: 421 PTVPIIAQPLPAAGCPLAEYVARAFEMIGNTAPLDITGHPAMSIPCGTVDGLPVGLMLVG 480 Query: 481 KHYAEATLYQAAAAFEASMDWQQH 504 KHYAEATLYQAAAAFEASMDWQQH Sbjct: 481 KHYAEATLYQAAAAFEASMDWQQH 504 >gi|300313942|ref|YP_003778034.1| Asp-tRNAAsn/Glu-tRNAGln amidotransferase subunit A [Herbaspirillum seropedicae SmR1] Length = 488 Score = 171 bits (434), Expect = 9e-44, Method: Compositional matrix adjust. Identities = 153/506 (30%), Positives = 238/506 (47%), Gaps = 42/506 (8%) Query: 11 LKELASSLHIQLT--TEQASQYLDLMQAS-FDAYDVIDGLPDEIPAIKYPRSAGARPAAK 67 LKEL++ L + TE A+ +LD + AS +A+ +D E+ + Sbjct: 6 LKELSAQLQARKISATELATLFLDRIDASDLNAFLHVD---RELTLAQ------------ 50 Query: 68 DNPLNAWACKSTVKGAAAGKLAGRTVVLKDNVALAGVPMMNGSSTLEGFVPSYDASVVTR 127 A S + AG+L G + KD G GS L+ +V +DA+VV + Sbjct: 51 -----AKVADSRLSDNNAGQLTGVPIAHKDIFVTRGWRTTAGSRMLDNYVSPFDATVVEQ 105 Query: 128 LLDAGATILGKATCEHFCLSGGSHTSDPAPVHNPRRQGYASGGSSSGSAALVAAGEADMA 187 AG LGK C+ F + G+ S P NP + GGSS GSAA VAA A A Sbjct: 106 FNAAGMVTLGKLNCDEFAMGSGNENSYFGPTLNPWDKRAVPGGSSGGSAAAVAARLAPAA 165 Query: 188 IGGDQGGSIRIPSAFCGTYGMKATHGLVPYTGVMPIEATVDHVGPITANVRDNALMLEVI 247 D GGSIR P++ CG G+K T+G V G++ +++D GPI D L+L + Sbjct: 166 TATDTGGSIRQPASLCGVTGIKPTYGSVSRYGMIAFASSLDQGGPIAKTAEDCGLLLNAM 225 Query: 248 AGADGLDPRQYAPQVQPYTAALDRGVRGLKIGILTEGFALGNMDKRVADKVQEAIAQLEK 307 G D D + +T +L+ ++GL+IG+ E F G + V V+ A+++ EK Sbjct: 226 TGFDERDSTSLQRPKEDFTRSLNDSLQGLRIGVPKEFFGAG-LAADVEAAVRAALSEFEK 284 Query: 308 LGASVATVSVEEHVLAGALWQPIGCEGLTMQMMHGNGMGFNWKGLYDLGLLDRHAHWRDH 367 LGA + +S+ + L+ ++ I + + +G+ + + D G LD + + Sbjct: 285 LGAQLVEISLPKTELSIPVYYVIAPAEASSNLSRFDGVRYGHRAA-DYGNLD-DMYRKSR 342 Query: 368 ADDLSATLKLCMFVGQYGLTR-YQGRFYAKAQNIARRARAGYDKALA----DFDLLVMPT 422 A+ +K + VG Y L+ Y +Y +AQ I R + ALA D+++ P Sbjct: 343 AEGFGEEVKRRILVGSYVLSHGYYDAYYLQAQKIRRLIAQDFQNALAGANRQCDVIMGPV 402 Query: 423 VPIIAQPL-PAAGCPLSDYVARAFEMIGNTAPLDITGHPAMSIPCGTVEG-----LPVGL 476 P +A L P+++Y+A F T + G P MSIPCG +G PVGL Sbjct: 403 SPTVAWDLGDKTNDPVANYLADIF-----TLSTSLAGLPGMSIPCGFGQGEKNGKRPVGL 457 Query: 477 MLVGKHYAEATLYQAAAAFEASMDWQ 502 ++G ++ EA L A F+ + DW Sbjct: 458 QIIGNYFDEARLLNVAHQFQQATDWH 483 >gi|300311162|ref|YP_003775254.1| amidase family protein [Herbaspirillum seropedicae SmR1] Length = 450 Score = 114 bits (284), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 131/420 (31%), Positives = 178/420 (42%), Gaps = 52/420 (12%) Query: 88 LAGRTVVLKDNVALAGVPMMNGSSTLEGF-VPSYDASVVTRLLDAGATILGKATCEHFCL 146 L G V +KD +AG + GS L G V S A+VV LL AGA ++GK F Sbjct: 69 LEGVPVSVKDLFDVAGETTLAGSVVLRGKPVASAHAAVVQNLLKAGAILIGKTNMTEFAY 128 Query: 147 SG-GSHTSDPAPVHNPRRQ---GYASGGSSSGSAALVAAGEADMAIGGDQGGSIRIPSAF 202 SG G + P + R G GGSSSG+A V G A A+G D GGS+RIPSA Sbjct: 129 SGLGINPHYGTPQNAWERNIEGGRIPGGSSSGAAISVTDGMAFAAVGSDTGGSVRIPSAL 188 Query: 203 CGTYGMKATHGLVPYTGVMPIEATVDHVGPITANVRDNALMLEVIAGADGLDPRQYAPQV 262 G G K T V GV+P+ A +D +GP+ +V+ A+M V+AG D Sbjct: 189 NGLTGFKPTAARVSMQGVLPLSAYLDSIGPLAVSVQCCAIMDAVLAGED----------- 237 Query: 263 QPYTAALDRGVRGLKIGILTEGFALGNMDKRVADKVQEAIAQLEKLGASVATVSVEEHVL 322 Y A L +RGL++ + L MD D V +A A+ + VE V Sbjct: 238 --YVAVLAHPLRGLRL-LAPTNVVLDGMD----DTVGQAYRTALGKLAAAGAMIVEAEVP 290 Query: 323 AGALWQPIGCEG----LTMQMMHGNGMGFNWKGLYDLGLLDRHAHWRD-HADDLSATLKL 377 A I +G H + N G YD ++ R +D A DL L Sbjct: 291 AFNALAAINAKGGFTAAEAYAWHRALIAENAAG-YDQRVVSRILRGKDMSAADLLDVL-- 347 Query: 378 CMFVGQYGLTRYQGRFYAKAQNIARRARAGYDKALADFDLLVMPTVPIIAQPLPAAGCPL 437 +A+ + IA+ + LA +D LVMPTVPI+A + Sbjct: 348 ----------------HARPRWIAQ-----VEAQLAGYDALVMPTVPIVAPRIAELQASD 386 Query: 438 SDYVARAFEMIGNTAPLDITGHPAMSIPCGTVEGLPVGLMLVGKHYAEATLYQAAAAFEA 497 Y +M+ N ++ A+S+PC PVGL L + L A EA Sbjct: 387 DAYYGANGKMLRNPTLINFLDGCALSLPCHAPGSAPVGLSLAACGGQDKRLLSIGLAVEA 446 >gi|300311728|ref|YP_003775820.1| indole acetamide hydrolase [Herbaspirillum seropedicae SmR1] Length = 468 Score = 102 bits (255), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 124/427 (29%), Positives = 180/427 (42%), Gaps = 46/427 (10%) Query: 86 GKLAGRTVVLKDNVALAGVPMMNGSSTLEGFVPSYDASVVTRLLDAGATILGKATCEHFC 145 G L+G + +KDN+ +AG+ G++ L VP A+VV L AGA GKA Sbjct: 64 GPLSGIPIAIKDNIDVAGIASTAGTAALRNNVPQRHATVVEYLFGAGALHAGKANMHELA 123 Query: 146 LSGGSHTSDPAPVHNPRRQGYASGGSSSGSAALVAAGEADMAIGGDQGGSIRIPSAFCGT 205 ++ P NP +GGSS G AL+AA A A+G D GGS+RIP+A CG Sbjct: 124 FGITNNNGVFGPCRNPYDAELIAGGSSGGCGALLAARLAPAAVGTDTGGSVRIPAALCGV 183 Query: 206 YGMKATHGLVPYTGVMPIEATVDHVGPITANVRDNALMLEVIAGADGLDPRQYAPQVQPY 265 G++ T GV+PI T D GP+ +V D AL+ +++AG+ P P Q Sbjct: 184 VGLRPTSRRYSQHGVVPISHTRDTPGPMARSVADVALLDQIMAGSRDSAPLLALPPSQ-- 241 Query: 266 TAALDRGVRGLKIGILTEGFALGNMDKRVADKVQEAIAQLEKLGASVATVSVE-----EH 320 L++G+L G +++ V A+ QL + G + V + H Sbjct: 242 ----------LRLGVLRNPSWQG-LEEEVEANANAALMQLREAGVELVDVDLPTLAPLSH 290 Query: 321 VLAGALWQPIGCEGLTMQMMHGNGMGFNWKGLYDLGLLDRHAHWRDHADDLSATLKLCMF 380 A+ L + + + L ++G D A + ATL + Sbjct: 291 AAGFAIVLHEFLIDLPAYLQASDARDVIKRVLAEVG-------SPDVARIIQATLDQPVP 343 Query: 381 VGQYGLTRYQGRFYAKAQNIARRARAGYDKALADFDLLVMPTVPIIAQPLPAAGCPLSDY 440 Y L Q R R++ D L+ PT + A+PL D Sbjct: 344 EHAYRLALEQRRTMQALYRDCFRSQG--------VDALIFPTTALTARPLGE-----DDT 390 Query: 441 VARAFEMI-------GNTAPLDITGHPAMSIPCGTVE-GLPVGLMLVGKHYAEATLYQAA 492 VA E + N I G P++SIP G E GLPVGL L G ++ L Q A Sbjct: 391 VALRGERVPTFPAFARNADGASIAGLPSISIPVGLSEYGLPVGLELDGPEGSDRRLLQVA 450 Query: 493 AAFEASM 499 A+ E + Sbjct: 451 ASLETVL 457 >gi|300309904|ref|YP_003773996.1| aspartate tRNAAsn/Glu-tRNAGln amidotransferase subunit A-like protein [Herbaspirillum seropedicae SmR1] Length = 651 Score = 102 bits (254), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 127/447 (28%), Positives = 188/447 (42%), Gaps = 77/447 (17%) Query: 86 GKLAGRTVVLKDNVALAGVPMMNGSSTLEGFVPSYDASVVTRLLDAGATILGKATCEHFC 145 G L G +++KDN +P G+ L DA V RL +AGA ILGK T Sbjct: 117 GPLHGIPILVKDNYDTVDMPTTGGTLALATLQAQADAFQVKRLREAGAVILGKTTMHELA 176 Query: 146 LSGGSHTSDPAPVHNPRRQGYASGGSSSGSAALVAAGEADMAIGGDQGGSIRIPSAFCGT 205 + +S NP A GGSS G+ A VAA A +G D GSIRIP+A Sbjct: 177 AGVTTVSSLTGFTRNPYDPRRAPGGSSGGTGAAVAASFAAAGMGSDTCGSIRIPAAHQNL 236 Query: 206 YGMKATHGLVPYTGVMPIEATVDHVGPITANVRDNALMLEVIAGADGLD----------P 255 +G++ T GL +GVMP+ +T D P+ +V D A+ML+ G+D D P Sbjct: 237 FGLRTTRGLASRSGVMPLSSTQDVAAPLARSVEDLAIMLDATVGSDPQDSSTVDANGHIP 296 Query: 256 RQYAPQVQPYTAALDRGVRGLKIGILTEGFALGNMDKRVADKVQEAIAQLEKLGASVATV 315 + Y ++ + ++G +IG+L F D V+ + +A+ QL+ GA V V Sbjct: 297 KSYRDGLRADS------LQGARIGVLRALFGAAPEDAEVSAAINKALQQLKDQGAIVTDV 350 Query: 316 SVEEHVLAGALWQPIGCEGLTMQMMHGNGMGFNWKGLYDLGLLDRHAHWRDHADDLSATL 375 ++ E +GL + G+ + ++ YDLG A+ + H +L Sbjct: 351 TIPE------------LDGL----LSGSSI-IPYEFKYDLG-----AYLQSHPGAPVGSL 388 Query: 376 KLCMFVGQYGLTRYQG---RFYAKAQNIARR--------ARAGYDKALAD------FDLL 418 + G G R QN + R+ + D D L Sbjct: 389 GEILARGMEHELLEAGLRLRNSVDLQNPKDKEELEKVMLKRSALKSLMTDVMQKNHLDTL 448 Query: 419 VMPTVP----IIAQPLPAA-GCPLSDYVARAFEMIGNTAPLDITGHPAMSIPCG-TVEGL 472 V PT+ +I +P A C LS TG PA+++P G T +GL Sbjct: 449 VYPTIQRKAALIGEPQGGAMNCQLS----------------ATTGLPALALPVGFTEDGL 492 Query: 473 PVGLMLVGKHYAEATLYQAAAAFEASM 499 PV L L+ +AE L A +E + Sbjct: 493 PVSLELLAPEFAEPALLGLAYGWEQKI 519 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 0.318 0.134 0.403 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: 1,555,720 Number of extensions: 65273 Number of successful extensions: 258 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 247 Number of HSP's successfully gapped: 11 Length of query: 504 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 415 Effective length of database: 1,198,455 Effective search space: 497358825 Effective search space used: 497358825 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 133 (55.8 bits)