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= 0001.0733.p (482 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309358|ref|YP_003773450.1| amidase family protein [Herbasp... 873 0.0 gi|300313659|ref|YP_003777751.1| amidase family protein [Herbasp... 216 4e-57 gi|300309904|ref|YP_003773996.1| aspartate tRNAAsn/Glu-tRNAGln a... 127 3e-30 gi|300312309|ref|YP_003776401.1| 6-aminohexanoate-cyclic-dimer h... 124 2e-29 gi|300311728|ref|YP_003775820.1| indole acetamide hydrolase [Her... 114 1e-26 >gi|300309358|ref|YP_003773450.1| amidase family protein [Herbaspirillum seropedicae SmR1] Length = 482 Score = 873 bits (2256), Expect = 0.0, Method: Compositional matrix adjust. Identities = 428/482 (88%), Positives = 454/482 (94%) Query: 1 MDQLVTLDALALSDAIRRKKVSCREVMQAYLQHIEKVNPHVNAIVSLRPTEALLDEAERA 60 M QLVTLDALALS AIR K+VSCREVMQAYL+HIEK+NPHVNAIVSLRP E LLDEA+RA Sbjct: 1 MHQLVTLDALALSAAIRSKEVSCREVMQAYLEHIEKMNPHVNAIVSLRPPEELLDEAKRA 60 Query: 61 DQLLAQGRYLGWMHGMPQAPKDLASCKGLPTSKGSPLSAMEPDLSDTTCIARVREAGAIF 120 DQLLAQGRYLGWMHGMPQAPKDLASCKGLPTSKGSPLS+M PD SD TC+ARVR+AGAIF Sbjct: 61 DQLLAQGRYLGWMHGMPQAPKDLASCKGLPTSKGSPLSSMAPDQSDATCVARVRDAGAIF 120 Query: 121 IGKTNVSEFGLGSNSYNPVFGVTRNAYDFSRIAGGSSGGAAAALAMRMLPVADGSDMMGS 180 IGKTNVSEFGLGSNSYNP+FGVTRNAYDFSRIAGGSSGGA AALAMRMLPVADGSDMMGS Sbjct: 121 IGKTNVSEFGLGSNSYNPLFGVTRNAYDFSRIAGGSSGGAGAALAMRMLPVADGSDMMGS 180 Query: 181 LRNPAAFNNVYGFRPTQGRVPYGSGGELFLQQLSTEGPMGRTVADVARLFATQAGYDRRC 240 LRNPAAFNNVYGFRPTQGRVPYGSGGELFLQQLSTEGPMGRTVADVARLFATQAGYD +C Sbjct: 181 LRNPAAFNNVYGFRPTQGRVPYGSGGELFLQQLSTEGPMGRTVADVARLFATQAGYDPQC 240 Query: 241 PLSNDTDVTGEVAQLKRDFKGTRIGWLGNYDGYLPIEKEVMVLCEAALSDFTDIGCTVEQ 300 PLS+DTDVTG+ AQLKRDFKG RIGWLGNYDGYLPIE+EVMVLCEAALSDF DIGCTVEQ Sbjct: 241 PLSSDTDVTGDAAQLKRDFKGARIGWLGNYDGYLPIEEEVMVLCEAALSDFADIGCTVEQ 300 Query: 301 CQPDYPMEKLWETWLIHRHWLVGANLNAYFANPAQRGLLKPEAQWEVESGLNLKGIDIFR 360 C+PDYPMEKLWETWL+HR WLVG NL+ YFA+PA+RGLLKPEAQWEVESG L D+FR Sbjct: 301 CRPDYPMEKLWETWLVHRQWLVGGNLSVYFADPARRGLLKPEAQWEVESGQYLTAADVFR 360 Query: 361 ASVARSDWYRAIHQLFEQYDYLLLPSAQMFAFDAATTWPRNIAGREMDTYHRWMEVVIGP 420 AS+ARSDWYRAIH+LFEQ+DYLLLPSAQMF FD AT WPRN+AGREMDTYHRWMEVVIGP Sbjct: 361 ASMARSDWYRAIHKLFEQFDYLLLPSAQMFPFDVATKWPRNVAGREMDTYHRWMEVVIGP 420 Query: 421 TLAGLPAMSVPVGFGTNGLPMGMQIIGPSRDDIGVLQLAHALEALRPWVSQAPLAVVDAL 480 TLAGLPAMSVPVGFG NGLPMGMQIIGPSRDD GVLQLA+ALE LRPW +QAPLAV+DAL Sbjct: 421 TLAGLPAMSVPVGFGANGLPMGMQIIGPSRDDRGVLQLAYALEGLRPWSAQAPLAVIDAL 480 Query: 481 NR 482 +R Sbjct: 481 SR 482 >gi|300313659|ref|YP_003777751.1| amidase family protein [Herbaspirillum seropedicae SmR1] Length = 506 Score = 216 bits (549), Expect = 4e-57, Method: Compositional matrix adjust. Identities = 164/464 (35%), Positives = 237/464 (51%), Gaps = 11/464 (2%) Query: 2 DQLVTLDALALSDAIRRKKVSCREVMQAYLQHIEKVNPHVNAIVSLRPTEALLDEAERAD 61 D+LV A+ L I K++S E+++A + IE +NPH+NA+ + E EA A+ Sbjct: 3 DKLVEKSAVELRQLIGSKQLSPVELLEACIARIEDINPHINAVTATC-FERARGEARAAE 61 Query: 62 QLLAQGRYLGWMHGMPQAPKDLASCKGLPTSKGSPLSAMEPDLSDTTCIARVREAGAIFI 121 Q + G+ LG +HG+P KDL +GL T+ GSPL D +AR+R AGAI Sbjct: 62 QAVIDGKPLGLLHGLPIGIKDLEETEGLLTTYGSPLYRGNIPARDNALVARLRAAGAIVA 121 Query: 122 GKTNVSEFGLGSNSYNPVFGVTRNAYDFSRIAGGSSGGAAAALAMRMLPVADGSDMMGSL 181 GKTNV E G G+NS N V+G T N ++ AGGSSGG+AAALA +LP+ GSD GSL Sbjct: 122 GKTNVPEMGAGANSRNAVWGATGNPFNPLLNAGGSSGGSAAALATDLLPLCSGSDTGGSL 181 Query: 182 RNPAAFNNVYGFRPTQGRVPYGSGGELFLQQLSTEGPMGRTVADVARLFATQAGYDRRCP 241 R PAA V GFRP+ G VP L +S GPMGR VAD G P Sbjct: 182 RIPAAKCGVVGFRPSPGLVP-SERKLLGWTPISVVGPMGRDVADTVLQLRATLGLHASDP 240 Query: 242 LSNDTDVTGEVAQLKRDFKGTRIGWLGNYDGYLPIEKEVMVLCEAALSDFTDIGCTVEQC 301 L + + + D RIG+ ++ G ++ + + ++ I V+ C Sbjct: 241 LGYAVSDSEFASLPQVDLSQLRIGYTEDF-GVCDVDNGIRQVFRDKMA---AIAPYVKLC 296 Query: 302 QP-DYPMEKLWETW-LIHRHWLVGANLNAYFANPAQRGLLKPEAQWEVESGLNLKGIDIF 359 +P D M + + +I V AY +PA G P + E G + +D Sbjct: 297 EPVDVDMGEAHRAFDVIRAEAFVAGFDAAYRRDPASLG---PNTRANYEMGAAMSLLDCA 353 Query: 360 RASVARSDWYRAIHQLFEQYDYLLLPSAQMFAFDAATTWPRNIAGREMDTYHRWMEVVIG 419 A ++ +R QL+E+YD +L P+ + F + + + + G ++ Y+RW+ + Sbjct: 354 WAQSEQTRIFRRFQQLYERYDLILSPTTPVSPFPWSELYLKEVNGVALENYYRWLALTYV 413 Query: 420 PTLAGLPAMSVPVGFGTNGLPMGMQIIGPSRDDIGVLQLAHALE 463 TLA PA+S+P G G+P G+Q+ GP R D VL A ALE Sbjct: 414 VTLATNPAISLPCGRDHRGMPFGLQVTGPFRGDARVLACAAALE 457 >gi|300309904|ref|YP_003773996.1| aspartate tRNAAsn/Glu-tRNAGln amidotransferase subunit A-like protein [Herbaspirillum seropedicae SmR1] Length = 651 Score = 127 bits (318), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 137/474 (28%), Positives = 213/474 (44%), Gaps = 52/474 (10%) Query: 20 KVSCREVMQAYLQHI---EKVNPHVNAIVSLRPTEALLDEAERADQLLAQGRYLGWMHGM 76 + + R ++ AYL I ++ P +NAIV+L P L+EA++ D+ Q G +HG+ Sbjct: 65 RATSRSLVLAYLARIRAYDQQGPSLNAIVTLNPKA--LEEADQLDRERRQSGPRGPLHGI 122 Query: 77 PQAPKDLASCKGLPTSKGSPLSAMEPDLSDTTCIARVREAGAIFIGKTNVSEFGLGSNSY 136 P KD +PT+ G+ A +D + R+REAGA+ +GKT + E G + Sbjct: 123 PILVKDNYDTVDMPTTGGTLALATLQAQADAFQVKRLREAGAVILGKTTMHELAAGVTTV 182 Query: 137 NPVFGVTRNAYDFSRIAGGSSGGAAAALAMRMLPVADGSDMMGSLRNPAAFNNVYGFRPT 196 + + G TRN YD R GGSSGG AA+A GSD GS+R PAA N++G R T Sbjct: 183 SSLTGFTRNPYDPRRAPGGSSGGTGAAVAASFAAAGMGSDTCGSIRIPAAHQNLFGLRTT 242 Query: 197 QGRVPYGSGGELFLQQLSTEGPMGRTVADVARLFATQAGYDRRCPLSNDTDVTGEVAQLK 256 +G + SG P+ R+V D+A + G D + S+ D G + + Sbjct: 243 RG-LASRSGVMPLSSTQDVAAPLARSVEDLAIMLDATVGSDPQD--SSTVDANGHIPKSY 299 Query: 257 RD------FKGTRIGWLGNYDGYLPIEKEVMVLCEAALSDFTDIGCTVEQCQPDYPMEKL 310 RD +G RIG L G P + EV AL D G V L Sbjct: 300 RDGLRADSLQGARIGVLRALFGAAPEDAEVSAAINKALQQLKDQGAIVTDVTIPELDGLL 359 Query: 311 WETWLI--HRHWLVGANLNAYFANPA-------QRGLLKPEAQWEVESGLNLKGI----- 356 + +I + +GA L ++ P RG+ +E+GL L+ Sbjct: 360 SGSSIIPYEFKYDLGAYLQSHPGAPVGSLGEILARGM----EHELLEAGLRLRNSVDLQN 415 Query: 357 -----DIFRASVARSDWYRAIHQLFEQ--YDYLLLPSAQMFAFDAATTWPRNIAGREMDT 409 ++ + + RS + + ++ D L+ P+ Q A A P+ A Sbjct: 416 PKDKEELEKVMLKRSALKSLMTDVMQKNHLDTLVYPTIQRKA--ALIGEPQGGA------ 467 Query: 410 YHRWMEVVIGPTLAGLPAMSVPVGFGTNGLPMGMQIIGPSRDDIGVLQLAHALE 463 M + T GLPA+++PVGF +GLP+ ++++ P + +L LA+ E Sbjct: 468 ----MNCQLSAT-TGLPALALPVGFTEDGLPVSLELLAPEFAEPALLGLAYGWE 516 >gi|300312309|ref|YP_003776401.1| 6-aminohexanoate-cyclic-dimer hydrolase [Herbaspirillum seropedicae SmR1] Length = 482 Score = 124 bits (310), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 140/484 (28%), Positives = 210/484 (43%), Gaps = 38/484 (7%) Query: 8 DALALSDAIRRKKVSCREVMQAYLQHIEKVNPHVNAIVSLRPTEALLDEAERADQLLAQG 67 D L L+ I + ++S E + ++ +E+VNP +NA+ E L E Q +AQG Sbjct: 14 DGLDLAQRIGQGELSPGEALAQAIERLEQVNPALNAVA-----EKLYHLGE---QSVAQG 65 Query: 68 RYLGWMHGMPQAPKDLAS-CKGLPTSKGSPLSAMEPDLSDTTCIARVREAGAIFIGKTNV 126 G G+P KDL + G S GS L D + R+++AG G T Sbjct: 66 LPDGPFRGVPLLTKDLFTPLAGARMSNGSLLLKDNVMPVDAELVTRLKKAGFTIFGTTTS 125 Query: 127 SEFGLGSNSYNPVFGVTRNAYDFSRIAGGSSGGAAAALAMRMLPVADGSDMMGSLRNPAA 186 EFG + + +FG TRN + GGSSG AAA +A R+LP+A G+D GSLR PA+ Sbjct: 126 PEFGTSYTTESRLFGATRNPWSLDHSCGGSSGAAAALVAARVLPIAHGNDGGGSLRVPAS 185 Query: 187 FNNVYGFRPTQGRVPYGSGGELFLQQLSTEGPMGRTVADVARLFATQAGYDRRCPLSND- 245 V+G +P++G +P G +ST M +V D A + AG D P + Sbjct: 186 ACGVFGLKPSRGLMPMGPLAGEGWAGMSTSHVMSLSVRDSAAVLDQLAGADLGAPYAAPH 245 Query: 246 ------TDVTGEVAQLKRDFKGTRIGWLGNYDGYLPIEKEVMVLCEAALSDFTDIGCTVE 299 TG Q G RIG + + + P + + + +G VE Sbjct: 246 YRQSFLAAATGAAPQ------GLRIGLVTHLPPW-PTHPDCSEAVQRTAALCQQLGHHVE 298 Query: 300 Q-CQPDYPMEKLWETWLIHRHWLVGA------NLNAYFA-NPAQRGLLKPEAQWEVESGL 351 + C P +E ++T ++G+ NL A A P L+ + + Sbjct: 299 ETCLPVDGLE-FYDTVFT----IIGSQTRNLMNLLARMAGQPLDEQALEARHRVILRDKG 353 Query: 352 NLKGIDIFRASVARSDWYRAIHQLFEQYDYLLLPS-AQMFA-FDAATTWPRNIAGREMDT 409 L G D A + R + +L ++YD +L P+ AQ A A T + T Sbjct: 354 QLSGADYAAAVDYLHAFGRRMAELMQRYDLILTPTMAQPPARIGALTVREEQSVAELIHT 413 Query: 410 YHRWMEVVIGPTLAGLPAMSVPVGFGTNGLPMGMQIIGPSRDDIGVLQLAHALEALRPWV 469 +H + +G PAMSVP+ + GLP+G DD +L +A LE PW Sbjct: 414 FHGFSPFTALCNASGQPAMSVPLHWNDQGLPIGSHFCAGFGDDTLLLAVAAQLEQAAPWA 473 Query: 470 SQAP 473 + P Sbjct: 474 HRRP 477 >gi|300311728|ref|YP_003775820.1| indole acetamide hydrolase [Herbaspirillum seropedicae SmR1] Length = 468 Score = 114 bits (286), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 138/482 (28%), Positives = 217/482 (45%), Gaps = 48/482 (9%) Query: 4 LVTLDALALSDAIRRKKVSCREVMQAYLQHIE---KVNPHVNAIVSLRPTEALLDEAERA 60 LV + + + + ++ SC E + A + E +N ++ R E L +A Sbjct: 3 LVDMTLIEVRQGLSDRRFSCLEYVDALIAETEAQWDLNCYLQ-----RDPEQLRSQARML 57 Query: 61 DQLLAQGRYLGWMHGMPQAPKDLASCKGLPTSKGSPLSAMEPDLSDTTCIARVREAGAIF 120 D+ QG + G + G+P A KD G+ ++ G+ T + + AGA+ Sbjct: 58 DE---QGGH-GPLSGIPIAIKDNIDVAGIASTAGTAALRNNVPQRHATVVEYLFGAGALH 113 Query: 121 IGKTNVSEFGLGSNSYNPVFGVTRNAYDFSRIAGGSSGGAAAALAMRMLPVADGSDMMGS 180 GK N+ E G + N VFG RN YD IAGGSSGG A LA R+ P A G+D GS Sbjct: 114 AGKANMHELAFGITNNNGVFGPCRNPYDAELIAGGSSGGCGALLAARLAPAAVGTDTGGS 173 Query: 181 LRNPAAFNNVYGFRPTQGRVPYGSGGELFLQQL-STEGPMGRTVADVARLFATQAGYDRR 239 +R PAA V G RPT R Y G + + T GPM R+VADVA L AG Sbjct: 174 VRIPAALCGVVGLRPTSRR--YSQHGVVPISHTRDTPGPMARSVADVALLDQIMAGSRDS 231 Query: 240 CPLSNDTDVTGEVAQLKRDFKGTRIGWLGNYDGYLPIEKEVMVLCEAALSDFTDIGCTVE 299 PL L R+G L N + +E+EV AAL + G VE Sbjct: 232 APL------------LALPPSQLRLGVLRN-PSWQGLEEEVEANANAALMQLREAG--VE 276 Query: 300 QCQPDY----PMEKLWETWLIHRHWLVGANLNAYFANPAQRGLLK--------PEAQWEV 347 D P+ ++ +L+ +L AY R ++K P+ + Sbjct: 277 LVDVDLPTLAPLSHAAGFAIVLHEFLI--DLPAYLQASDARDVIKRVLAEVGSPDVARII 334 Query: 348 ESGLNLKGID-IFRASVARSDWYRAIHQ---LFEQYDYLLLPSAQMFAFDAATTWPRNIA 403 ++ L+ + +R ++ + +A+++ + D L+ P+ + A + Sbjct: 335 QATLDQPVPEHAYRLALEQRRTMQALYRDCFRSQGVDALIFPTTALTARPLGEDDTVALR 394 Query: 404 GREMDTYHRWMEVVIGPTLAGLPAMSVPVGFGTNGLPMGMQIIGPSRDDIGVLQLAHALE 463 G + T+ + G ++AGLP++S+PVG GLP+G+++ GP D +LQ+A +LE Sbjct: 395 GERVPTFPAFARNADGASIAGLPSISIPVGLSEYGLPVGLELDGPEGSDRRLLQVAASLE 454 Query: 464 AL 465 + Sbjct: 455 TV 456 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 0.136 0.418 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: 1,617,369 Number of extensions: 71573 Number of successful extensions: 223 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 212 Number of HSP's successfully gapped: 11 Length of query: 482 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 393 Effective length of database: 1,198,455 Effective search space: 470992815 Effective search space used: 470992815 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)