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= 0001.4343.p (463 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313752|ref|YP_003777844.1| Asp-tRNAAsn/Glu-tRNAGln amidotr... 828 0.0 gi|300310745|ref|YP_003774837.1| amidase family protein [Herbasp... 336 2e-93 gi|300311728|ref|YP_003775820.1| indole acetamide hydrolase [Her... 110 3e-25 gi|300311162|ref|YP_003775254.1| amidase family protein [Herbasp... 100 2e-22 gi|300309904|ref|YP_003773996.1| aspartate tRNAAsn/Glu-tRNAGln a... 98 1e-21 >gi|300313752|ref|YP_003777844.1| Asp-tRNAAsn/Glu-tRNAGln amidotransferase subunit A [Herbaspirillum seropedicae SmR1] Length = 471 Score = 828 bits (2139), Expect = 0.0, Method: Compositional matrix adjust. Identities = 413/464 (89%), Positives = 436/464 (93%), Gaps = 3/464 (0%) Query: 1 MIHSFDLRIDALIAAYREARLTPRQVVSRLRESASVLNAQYRLYIHLLNEQESEPYLQAL 60 MIHSFDLRIDAL AAYR L PR V+ RLRESA+ LN YRLYIHLL++ E+EPYLQAL Sbjct: 1 MIHSFDLRIDALTAAYRNGSLDPRTVMQRLRESAAALNPTYRLYIHLLSQAETEPYLQAL 60 Query: 61 EACSPHSLPLYGVPFSIKDNIDLAGIATTAACPAFSYVPRESATLVERLIALGAIPIGKC 120 E SPHSLPLYGVPFSIKDNIDLAG+ TTAACPAFSYVPRESATLV +LIALGAIP+GKC Sbjct: 61 EQQSPHSLPLYGVPFSIKDNIDLAGVPTTAACPAFSYVPRESATLVAQLIALGAIPVGKC 120 Query: 121 NLDQFATGLNGTRSPYGACRNSVHPDYPSGGSSSGSSLAVALGLSSFALGTDTAGSGRVP 180 NLDQFATGLNGTRSPYGACRNSVHPDYPSGGSSSGSSLAVALGLSSFALGTDTAGSGRVP Sbjct: 121 NLDQFATGLNGTRSPYGACRNSVHPDYPSGGSSSGSSLAVALGLSSFALGTDTAGSGRVP 180 Query: 181 AALNNLVGLKATKGLLSTAGVVPACRTLDCVTFFTATAAEASQLLALC---ARPDERDEY 237 AALNNLVGLKATKGLLSTAGVVPACRTLDCVTFFTATAAEAS LLALC +PDERDEY Sbjct: 181 AALNNLVGLKATKGLLSTAGVVPACRTLDCVTFFTATAAEASHLLALCTQSGQPDERDEY 240 Query: 238 SRANLPHNDASAFQPPRRGFRFGVPRQLEFLGCAESPVLFVEALEQMEAIGGVAVPIDFT 297 SRANLPHNDASAFQPP +G RFGVPRQLEFLGC+ESP LFVEAL QMEAIGGVAVPIDF+ Sbjct: 241 SRANLPHNDASAFQPPPQGLRFGVPRQLEFLGCSESPSLFVEALAQMEAIGGVAVPIDFS 300 Query: 298 PFLEAARLLYEGPWVAERYSTVEALLKEQPEEVLPVIRDVLRKAPQYSAVDTFRAQYRLQ 357 PFL AARLLYEGPWVAERYST+EALL+E+P+++LPVIRDVLRKAPQYSAVDTFRAQYRLQ Sbjct: 301 PFLAAARLLYEGPWVAERYSTIEALLQERPDDILPVIRDVLRKAPQYSAVDTFRAQYRLQ 360 Query: 358 QLKADCDRILAGLDCVVTPAYPRPVTLEELREQPVQRNSDLGWYTNFMNMLDYAAVATPM 417 QLKA+CDRILA +DCVVTPAYPRPVTLEELREQPVQRNSDLGWYTNFMNMLDYAAVATPM Sbjct: 361 QLKAECDRILATVDCVVTPAYPRPVTLEELREQPVQRNSDLGWYTNFMNMLDYAAVATPM 420 Query: 418 NFMKNGLPWGITVFGPAFADQALLGMADALQRAHGRPLVGRRSI 461 NFMKNGLPWGITVFG AF+DQALLG+ADALQRAHGRPLVG+R I Sbjct: 421 NFMKNGLPWGITVFGRAFSDQALLGVADALQRAHGRPLVGQRQI 464 >gi|300310745|ref|YP_003774837.1| amidase family protein [Herbaspirillum seropedicae SmR1] Length = 611 Score = 336 bits (861), Expect = 2e-93, Method: Compositional matrix adjust. Identities = 207/459 (45%), Positives = 283/459 (61%), Gaps = 29/459 (6%) Query: 9 IDALIAAYREARLTPRQVVSRL--------RESASVLNA------QYRLYIHLLNEQESE 54 I + +AAYR TP + V+ L RE + Q + L+ + + E Sbjct: 16 IASTLAAYRNGSSTPGKTVASLLALIEQADREEVWISRVPAKQLKQQAAALDLMWQIKGE 75 Query: 55 PYLQALEACSPHSLPLYGVPFSIKDNIDLAGIATTAACPAFSYVPRESATLVERLIALGA 114 L+ S+PL+G+PF++KDNID+AG+ TTAACP FS V SAT+V+RL A GA Sbjct: 76 TVLE--------SMPLFGIPFAVKDNIDVAGMPTTAACPEFSRVAETSATVVQRLQAAGA 127 Query: 115 IPIGKCNLDQFATGLNGTRSPYGACRNSVHPDYPSGGSSSGSSLAVALGLSSFALGTDTA 174 + +GK NLDQFATGL G RSPYGA RN++ PDY SGGSSSGS++AVALG FALGTDTA Sbjct: 128 LLVGKTNLDQFATGLVGVRSPYGAVRNAIAPDYVSGGSSSGSAVAVALGQVMFALGTDTA 187 Query: 175 GSGRVPAALNNLVGLKATKGLLSTAGVVPACRTLDCVTFFTATAAEASQLLALCARPDER 234 GSGR+PAA N+LVGLK ++GL+S G+VPACRTLDC++ F A+A +L A D Sbjct: 188 GSGRIPAAFNHLVGLKPSRGLISAQGLVPACRTLDCISIFAHDVADAWHVLHSAAGYDAA 247 Query: 235 DEYSRANLPHNDASAFQPPRRGFRFGVPRQLEFLGCAESPVLFVEALEQMEAIGGVAVP- 293 D Y+R LP RRG+R +P EF G + + L ++ + GV + Sbjct: 248 DAYAR-KLPM-----LGLKRRGYRIAIPAATEFYGDLAAQDAWDRTLARIAELPGVTLAR 301 Query: 294 IDFTPFLEAARLLYEGPWVAERYSTVEALLKEQPEEVLPVIRDVLRKAPQYSAVDTFRAQ 353 I F PF +AARLLY+GPWVAER + + +QP+ V PV+R++ +A Y AV F+ Q Sbjct: 302 IPFAPFADAARLLYQGPWVAERRAALGDFFVKQPQAVHPVVREITAQAADYDAVAAFQGQ 361 Query: 354 YRLQQLKADCDRILAGLDCVVTPAYPRPVTLEELREQPVQRNSDLGWYTNFMNMLDYAAV 413 YRL +L+ +++L G D ++ P T+ E++ PV+RNS LG+YTNF+N++D +A+ Sbjct: 362 YRLAELRRQAEQLLEGADLMLVPTTTGMPTIAEVQADPVRRNSQLGYYTNFVNLMDMSAL 421 Query: 414 ATPMNFMKNGLPWGITVFGPAFADQALLGMADALQRAHG 452 A P + +GLP G+T+ GPA AD L LQ G Sbjct: 422 AIPGLWRNDGLPAGVTLIGPAGADHLLAEAGARLQHQLG 460 >gi|300311728|ref|YP_003775820.1| indole acetamide hydrolase [Herbaspirillum seropedicae SmR1] Length = 468 Score = 110 bits (274), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 129/438 (29%), Positives = 199/438 (45%), Gaps = 46/438 (10%) Query: 39 AQYRLYIHLLNEQES-EPYLQALEACSPHSLPLYGVPFSIKDNIDLAGIATTAACPAF-S 96 AQ+ L +L + E + L+ H PL G+P +IKDNID+AGIA+TA A + Sbjct: 35 AQWDLNCYLQRDPEQLRSQARMLDEQGGHG-PLSGIPIAIKDNIDVAGIASTAGTAALRN 93 Query: 97 YVPRESATLVERLIALGAIPIGKCNLDQFATGLNGTRSPYGACRNSVHPDYPSGGSSSGS 156 VP+ AT+VE L GA+ GK N+ + A G+ +G CRN + +GGSS G Sbjct: 94 NVPQRHATVVEYLFGAGALHAGKANMHELAFGITNNNGVFGPCRNPYDAELIAGGSSGGC 153 Query: 157 SLAVALGLSSFALGTDTAGSGRVPAALNNLVGLKATKGLLSTAGVVPACRTLDCVTFFTA 216 +A L+ A+GTDT GS R+PAAL +VGL+ T S GVVP T D Sbjct: 154 GALLAARLAPAAVGTDTGGSVRIPAALCGVVGLRPTSRRYSQHGVVPISHTRDTPGPMAR 213 Query: 217 TAAEASQLLALCARPDERDEYSRANLPHNDASAFQPPRRGFRFGVPRQLEFLGCAESPVL 276 + A+ + L + A RD LP + R GV R + G E Sbjct: 214 SVADVALLDQIMA--GSRDSAPLLALPPSQ----------LRLGVLRNPSWQGLEEE--- 258 Query: 277 FVE-----ALEQMEAIGGVAVPID---FTPFLEAA-------RLLYEGP---WVAERYST 318 VE AL Q+ G V +D P AA L + P ++ Sbjct: 259 -VEANANAALMQLREAGVELVDVDLPTLAPLSHAAGFAIVLHEFLIDLPAYLQASDARDV 317 Query: 319 VEALLKE-QPEEVLPVIRDVLRK-APQYSAVDTFRAQYRLQQLKADCDRILAGLDCVVTP 376 ++ +L E +V +I+ L + P+++ + +Q L DC R G+D ++ P Sbjct: 318 IKRVLAEVGSPDVARIIQATLDQPVPEHAYRLALEQRRTMQALYRDCFRS-QGVDALIFP 376 Query: 377 A---YPRPVTLEE---LREQPVQRNSDLGWYTNFMNMLDYAAVATPMNFMKNGLPWGITV 430 RP+ ++ LR + V + ++ +++ P+ + GLP G+ + Sbjct: 377 TTALTARPLGEDDTVALRGERVPTFPAFARNADGASIAGLPSISIPVGLSEYGLPVGLEL 436 Query: 431 FGPAFADQALLGMADALQ 448 GP +D+ LL +A +L+ Sbjct: 437 DGPEGSDRRLLQVAASLE 454 >gi|300311162|ref|YP_003775254.1| amidase family protein [Herbaspirillum seropedicae SmR1] Length = 450 Score = 100 bits (249), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 111/392 (28%), Positives = 172/392 (43%), Gaps = 26/392 (6%) Query: 69 PLYGVPFSIKDNIDLAGIATTAACPAFSYVPRESA--TLVERLIALGAIPIGKCNLDQFA 126 PL GVP S+KD D+AG T A P SA +V+ L+ GAI IGK N+ +FA Sbjct: 68 PLEGVPVSVKDLFDVAGETTLAGSVVLRGKPVASAHAAVVQNLLKAGAILIGKTNMTEFA 127 Query: 127 TGLNGTRSPYGACRNSVHPDYPSG----GSSSGSSLAVALGLSSFALGTDTAGSGRVPAA 182 G YG +N+ + G GSSSG++++V G++ A+G+DT GS R+P+A Sbjct: 128 YSGLGINPHYGTPQNAWERNIEGGRIPGGSSSGAAISVTDGMAFAAVGSDTGGSVRIPSA 187 Query: 183 LNNLVGLKATKGLLSTAGVVPACRTLDCVTFFTATAAEASQLLALCARPDERDEYSRANL 242 LN L G K T +S GV+P LD + + + + A+ A D A L Sbjct: 188 LNGLTGFKPTAARVSMQGVLPLSAYLDSIGPLAVSVQCCAIMDAVLAGEDY-----VAVL 242 Query: 243 PHNDASAFQPPRRGFRFGVPRQLEFLGCAES-PVLFVEALEQMEAIGGVAVPIDFTPFLE 301 H P RG R P + G ++ + AL ++ A G + V + F Sbjct: 243 AH--------PLRGLRLLAPTNVVLDGMDDTVGQAYRTALGKLAAAGAMIVEAEVPAFNA 294 Query: 302 AARLLYEGPWV-AERYSTVEALLKEQPEEVLPVIRDVLRKAPQYSAVDTFRAQYRLQQLK 360 A + +G + AE Y+ AL+ E + + + SA D + + Sbjct: 295 LAAINAKGGFTAAEAYAWHRALIAENAAGYDQRVVSRILRGKDMSAADLLDVLHARPRWI 354 Query: 361 ADCDRILAGLDCVVTPAY----PRPVTLEELREQPVQRNSDLGWYTNFMNMLDYAAVATP 416 A + LAG D +V P PR L+ + N + +N LD A++ P Sbjct: 355 AQVEAQLAGYDALVMPTVPIVAPRIAELQASDDAYYGANGKMLRNPTLINFLDGCALSLP 414 Query: 417 MNFMKNGLPWGITVFGPAFADQALLGMADALQ 448 + P G+++ D+ LL + A++ Sbjct: 415 CH-APGSAPVGLSLAACGGQDKRLLSIGLAVE 445 >gi|300309904|ref|YP_003773996.1| aspartate tRNAAsn/Glu-tRNAGln amidotransferase subunit A-like protein [Herbaspirillum seropedicae SmR1] Length = 651 Score = 98.2 bits (243), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 127/473 (26%), Positives = 212/473 (44%), Gaps = 43/473 (9%) Query: 5 FDLRIDALIAAYREARLTPRQVV----SRLR---ESASVLNAQYRLYIHLLNEQESEPYL 57 F+ I L +A R T R +V +R+R + LNA L L +E++ Sbjct: 50 FEASITHLQSAQDAGRATSRSLVLAYLARIRAYDQQGPSLNAIVTLNPKAL--EEADQLD 107 Query: 58 QALEACSPHSLPLYGVPFSIKDNIDLAGIATTAACPAFSYVPRES-ATLVERLIALGAIP 116 + P PL+G+P +KDN D + TT A + + ++ A V+RL GA+ Sbjct: 108 RERRQSGPRG-PLHGIPILVKDNYDTVDMPTTGGTLALATLQAQADAFQVKRLREAGAVI 166 Query: 117 IGKCNLDQFATGLNGTRSPYGACRNSVHPDYPSGGSSSGSSLAVALGLSSFALGTDTAGS 176 +GK + + A G+ S G RN P GGSS G+ AVA ++ +G+DT GS Sbjct: 167 LGKTTMHELAAGVTTVSSLTGFTRNPYDPRRAPGGSSGGTGAAVAASFAAAGMGSDTCGS 226 Query: 177 GRVPAALNNLVGLKATKGLLSTAGVVPACRTLDCVTFFTATAAEASQLLALCARPDERDE 236 R+PAA NL GL+ T+GL S +GV+P T D + + + +L D +D Sbjct: 227 IRIPAAHQNLFGLRTTRGLASRSGVMPLSSTQDVAAPLARSVEDLAIMLDATVGSDPQDS 286 Query: 237 YS---RANLPHNDASAFQPPR-RGFRFGVPRQLEFLGC----AESPVLFVEALEQMEAIG 288 + ++P + + +G R GV R L G AE +AL+Q++ G Sbjct: 287 STVDANGHIPKSYRDGLRADSLQGARIGVLRAL--FGAAPEDAEVSAAINKALQQLKDQG 344 Query: 289 GVAVPIDFTPFLEAARLLYEGPWVA--ERYSTVEALLKEQPEEVLPVIRDVLRKAPQYSA 346 + + P L+ L G + E + A L+ P + + ++L + ++ Sbjct: 345 AIVTDVTI-PELDG---LLSGSSIIPYEFKYDLGAYLQSHPGAPVGSLGEILARGMEHEL 400 Query: 347 VDT---FRAQYRLQ--QLKADCDRIL---AGLDCVVTPAYPRPVTLEELREQPVQRNSDL 398 ++ R LQ + K + ++++ + L ++T + L+ L +QR + L Sbjct: 401 LEAGLRLRNSVDLQNPKDKEELEKVMLKRSALKSLMTDVMQKN-HLDTLVYPTIQRKAAL 459 Query: 399 -----GWYTN--FMNMLDYAAVATPMNFMKNGLPWGITVFGPAFADQALLGMA 444 G N A+A P+ F ++GLP + + P FA+ ALLG+A Sbjct: 460 IGEPQGGAMNCQLSATTGLPALALPVGFTEDGLPVSLELLAPEFAEPALLGLA 512 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 0.321 0.135 0.404 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: 1,334,594 Number of extensions: 51607 Number of successful extensions: 200 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 191 Number of HSP's successfully gapped: 11 Length of query: 463 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 374 Effective length of database: 1,198,455 Effective search space: 448222170 Effective search space used: 448222170 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: 132 (55.5 bits)