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= 0001.1168.p (506 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313659|ref|YP_003777751.1| amidase family protein [Herbasp... 897 0.0 gi|300309358|ref|YP_003773450.1| amidase family protein [Herbasp... 203 2e-53 gi|300312309|ref|YP_003776401.1| 6-aminohexanoate-cyclic-dimer h... 162 4e-41 gi|300311728|ref|YP_003775820.1| indole acetamide hydrolase [Her... 141 2e-34 gi|300313942|ref|YP_003778034.1| Asp-tRNAAsn/Glu-tRNAGln amidotr... 117 2e-27 >gi|300313659|ref|YP_003777751.1| amidase family protein [Herbaspirillum seropedicae SmR1] Length = 506 Score = 897 bits (2318), Expect = 0.0, Method: Compositional matrix adjust. Identities = 453/506 (89%), Positives = 474/506 (93%) Query: 1 MQDSIVEKSAVELRQLIGSKQLSPVELLDACIARIEDINPHINAVTATCFERARQEARAA 60 MQD +VEKSAVELRQLIGSKQLSPVELL+ACIARIEDINPHINAVTATCFERAR EARAA Sbjct: 1 MQDKLVEKSAVELRQLIGSKQLSPVELLEACIARIEDINPHINAVTATCFERARGEARAA 60 Query: 61 EQAVLAGGPLGLLHGLPIGIKDLEETEGLLTTYGSPIYRGNVPTHDNALVARLRAAGAIV 120 EQAV+ G PLGLLHGLPIGIKDLEETEGLLTTYGSP+YRGN+P DNALVARLRAAGAIV Sbjct: 61 EQAVIDGKPLGLLHGLPIGIKDLEETEGLLTTYGSPLYRGNIPARDNALVARLRAAGAIV 120 Query: 121 AGKTNVPEMGAGANSRNTVWGATGNPFNPLLNAGGSSGGSAAALAADLLPLCSGSDTGGS 180 AGKTNVPEMGAGANSRN VWGATGNPFNPLLNAGGSSGGSAAALA DLLPLCSGSDTGGS Sbjct: 121 AGKTNVPEMGAGANSRNAVWGATGNPFNPLLNAGGSSGGSAAALATDLLPLCSGSDTGGS 180 Query: 181 LRIPAAKCGVVGLRPSPGLVPSQRKPLGWTPISVVGPMGRDVADTVLQLRATIGLHDSDP 240 LRIPAAKCGVVG RPSPGLVPS+RK LGWTPISVVGPMGRDVADTVLQLRAT+GLH SDP Sbjct: 181 LRIPAAKCGVVGFRPSPGLVPSERKLLGWTPISVVGPMGRDVADTVLQLRATLGLHASDP 240 Query: 241 LSYPVSASEFATLPPVDLSQLRIGYTEDFGVCDVDDGIRQVFRNKIAAISRFVQVCEPVQ 300 L Y VS SEFA+LP VDLSQLRIGYTEDFGVCDVD+GIRQVFR+K+AAI+ +V++CEPV Sbjct: 241 LGYAVSDSEFASLPQVDLSQLRIGYTEDFGVCDVDNGIRQVFRDKMAAIAPYVKLCEPVD 300 Query: 301 VDMGEAHRAFDVIRAEAFVAGFEAAYRRDPASLGPNTRANYEMGAAMSLQDCAWAQGEQT 360 VDMGEAHRAFDVIRAEAFVAGF+AAYRRDPASLGPNTRANYEMGAAMSL DCAWAQ EQT Sbjct: 301 VDMGEAHRAFDVIRAEAFVAGFDAAYRRDPASLGPNTRANYEMGAAMSLLDCAWAQSEQT 360 Query: 361 RIFRRFQQLYERYDLILSPTTPVSPFPWSELYLKEVNGVALENYYRWLALTYVVTLATNP 420 RIFRRFQQLYERYDLILSPTTPVSPFPWSELYLKEVNGVALENYYRWLALTYVVTLATNP Sbjct: 361 RIFRRFQQLYERYDLILSPTTPVSPFPWSELYLKEVNGVALENYYRWLALTYVVTLATNP 420 Query: 421 AISLPCGRDHRGMPFGLQVTGAFRRDARLLAWAAALEQAFAGDDALRRPRPDLAQLKTVQ 480 AISLPCGRDHRGMPFGLQVTG FR DAR+LA AAALEQAFAG++ LRRPRPDL +LKTV Sbjct: 421 AISLPCGRDHRGMPFGLQVTGPFRGDARVLACAAALEQAFAGNETLRRPRPDLTKLKTVH 480 Query: 481 APLTSIVTHPPILDGQVVGVVGGPAV 506 APLTSIVT PP+L GQ GGPAV Sbjct: 481 APLTSIVTDPPLLQGQGTEQSGGPAV 506 >gi|300309358|ref|YP_003773450.1| amidase family protein [Herbaspirillum seropedicae SmR1] Length = 482 Score = 203 bits (517), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 162/462 (35%), Positives = 234/462 (50%), Gaps = 11/462 (2%) Query: 5 IVEKSAVELRQLIGSKQLSPVELLDACIARIEDINPHINAVTATC-FERARQEARAAEQA 63 +V A+ L I SK++S E++ A + IE +NPH+NA+ + E EA+ A+Q Sbjct: 4 LVTLDALALSAAIRSKEVSCREVMQAYLEHIEKMNPHVNAIVSLRPPEELLDEAKRADQL 63 Query: 64 VLAGGPLGLLHGLPIGIKDLEETEGLLTTYGSPIYRGNVPTHDNALVARLRAAGAIVAGK 123 + G LG +HG+P KDL +GL T+ GSP+ D VAR+R AGAI GK Sbjct: 64 LAQGRYLGWMHGMPQAPKDLASCKGLPTSKGSPLSSMAPDQSDATCVARVRDAGAIFIGK 123 Query: 124 TNVPEMGAGANSRNTVWGATGNPFNPLLNAGGSSGGSAAALAADLLPLCSGSDTGGSLRI 183 TNV E G G+NS N ++G T N ++ AGGSSGG+ AALA +LP+ GSD GSLR Sbjct: 124 TNVSEFGLGSNSYNPLFGVTRNAYDFSRIAGGSSGGAGAALAMRMLPVADGSDMMGSLRN 183 Query: 184 PAAKCGVVGLRPSPGLVP-SQRKPLGWTPISVVGPMGRDVADTVLQLRATIGLHDSDPLS 242 PAA V G RP+ G VP L +S GPMGR VAD G PLS Sbjct: 184 PAAFNNVYGFRPTQGRVPYGSGGELFLQQLSTEGPMGRTVADVARLFATQAGYDPQCPLS 243 Query: 243 YPVSASEFATLPPVDLSQLRIGYTEDF-GVCDVDDGIR---QVFRNKIAAISRFVQVCEP 298 + A D RIG+ ++ G +++ + + + A I V+ C P Sbjct: 244 SDTDVTGDAAQLKRDFKGARIGWLGNYDGYLPIEEEVMVLCEAALSDFADIGCTVEQCRP 303 Query: 299 VQVDMGEAHRAFDVIRAEAFVAGFEAAYRRDPASLG---PNTRANYEMGAAMSLQDCAWA 355 M + + V R + V G + Y DPA G P + E G ++ D A Sbjct: 304 -DYPMEKLWETWLVHR-QWLVGGNLSVYFADPARRGLLKPEAQWEVESGQYLTAADVFRA 361 Query: 356 QGEQTRIFRRFQQLYERYDLILSPTTPVSPFPWSELYLKEVNGVALENYYRWLALTYVVT 415 ++ +R +L+E++D +L P+ + PF + + + V G ++ Y+RW+ + T Sbjct: 362 SMARSDWYRAIHKLFEQFDYLLLPSAQMFPFDVATKWPRNVAGREMDTYHRWMEVVIGPT 421 Query: 416 LATNPAISLPCGRDHRGMPFGLQVTGAFRRDARLLAWAAALE 457 LA PA+S+P G G+P G+Q+ G R D +L A ALE Sbjct: 422 LAGLPAMSVPVGFGANGLPMGMQIIGPSRDDRGVLQLAYALE 463 >gi|300312309|ref|YP_003776401.1| 6-aminohexanoate-cyclic-dimer hydrolase [Herbaspirillum seropedicae SmR1] Length = 482 Score = 162 bits (411), Expect = 4e-41, Method: Compositional matrix adjust. Identities = 148/467 (31%), Positives = 208/467 (44%), Gaps = 25/467 (5%) Query: 8 KSAVELRQLIGSKQLSPVELLDACIARIEDINPHINAVTATCFERARQEARAAEQAVLAG 67 + ++L Q IG +LSP E L I R+E +NP +NAV + EQ+V G Sbjct: 13 QDGLDLAQRIGQGELSPGEALAQAIERLEQVNPALNAVAEKLYH-------LGEQSVAQG 65 Query: 68 GPLGLLHGLPIGIKDL-EETEGLLTTYGSPIYRGNVPTHDNALVARLRAAGAIVAGKTNV 126 P G G+P+ KDL G + GS + + NV D LV RL+ AG + G T Sbjct: 66 LPDGPFRGVPLLTKDLFTPLAGARMSNGSLLLKDNVMPVDAELVTRLKKAGFTIFGTTTS 125 Query: 127 PEMGAGANSRNTVWGATGNPFNPLLNAGGSSGGSAAALAADLLPLCSGSDTGGSLRIPAA 186 PE G + + ++GAT NP++ + GGSSG +AA +AA +LP+ G+D GGSLR+PA+ Sbjct: 126 PEFGTSYTTESRLFGATRNPWSLDHSCGGSSGAAAALVAARVLPIAHGNDGGGSLRVPAS 185 Query: 187 KCGVVGLRPSPGLVPSQRKPL---GWTPISVVGPMGRDVADTVLQLRATIGLHDSDPLSY 243 CGV GL+PS GL+P PL GW +S M V D+ L G P + Sbjct: 186 ACGVFGLKPSRGLMP--MGPLAGEGWAGMSTSHVMSLSVRDSAAVLDQLAGADLGAPYAA 243 Query: 244 PVSASEFATLPPVDLSQ-LRIGYTEDFGVCDVDDGIRQVFRNKIAAISRF----VQVCEP 298 P F Q LRIG + + A + + C P Sbjct: 244 PHYRQSFLAAATGAAPQGLRIGLVTHLPPWPTHPDCSEAVQRTAALCQQLGHHVEETCLP 303 Query: 299 VQVDMGEAHRAFDVI----RAEAFVAGFEAAYRRDPASLGPNTRANYEMGAAMSLQDCAW 354 V + F +I R + A D +L R +S D A Sbjct: 304 VD-GLEFYDTVFTIIGSQTRNLMNLLARMAGQPLDEQALEARHRVILRDKGQLSGADYAA 362 Query: 355 AQGEQTRIFRRFQQLYERYDLILSPTTPVSPFPWSELYLKEVNGVA--LENYYRWLALTY 412 A RR +L +RYDLIL+PT P L ++E VA + ++ + T Sbjct: 363 AVDYLHAFGRRMAELMQRYDLILTPTMAQPPARIGALTVREEQSVAELIHTFHGFSPFTA 422 Query: 413 VVTLATNPAISLPCGRDHRGMPFGLQVTGAFRRDARLLAWAAALEQA 459 + + PA+S+P + +G+P G F D LLA AA LEQA Sbjct: 423 LCNASGQPAMSVPLHWNDQGLPIGSHFCAGFGDDTLLLAVAAQLEQA 469 >gi|300311728|ref|YP_003775820.1| indole acetamide hydrolase [Herbaspirillum seropedicae SmR1] Length = 468 Score = 141 bits (355), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 160/482 (33%), Positives = 235/482 (48%), Gaps = 59/482 (12%) Query: 5 IVEKSAVELRQLIGSKQLSPVELLDACIARIE---DINPHINAVTATCFERARQEARAAE 61 +V+ + +E+RQ + ++ S +E +DA IA E D+N ++ E+ R +AR + Sbjct: 3 LVDMTLIEVRQGLSDRRFSCLEYVDALIAETEAQWDLNCYLQRDP----EQLRSQARMLD 58 Query: 62 QAVLAGGPLGLLHGLPIGIKDLEETEGLLTTYGSPIYRGNVPTHDNALVARLRAAGAIVA 121 + G G L G+PI IKD + G+ +T G+ R NVP +V L AGA+ A Sbjct: 59 EQ----GGHGPLSGIPIAIKDNIDVAGIASTAGTAALRNNVPQRHATVVEYLFGAGALHA 114 Query: 122 GKTNVPEMGAGANSRNTVWGATGNPFNPLLNAGGSSGGSAAALAADLLPLCSGSDTGGSL 181 GK N+ E+ G + N V+G NP++ L AGGSSGG A LAA L P G+DTGGS+ Sbjct: 115 GKANMHELAFGITNNNGVFGPCRNPYDAELIAGGSSGGCGALLAARLAPAAVGTDTGGSV 174 Query: 182 RIPAAKCGVVGLRPSPGLVPSQR-KPLGWTPISVV----GPMGRDVADTVLQLRATIGLH 236 RIPAA CGVVGLRP+ S+R G PIS GPM R VAD L + G Sbjct: 175 RIPAALCGVVGLRPT-----SRRYSQHGVVPISHTRDTPGPMARSVADVALLDQIMAGSR 229 Query: 237 DSDPLSYPVSASEFATLPPVDLSQLRIGYTEDFGVCDVDDGIRQVFRNKIAAISRFVQV- 295 DS PL LPP SQLR+G + +++ +V N AA+ + + Sbjct: 230 DSAPL---------LALPP---SQLRLGVLRNPSWQGLEE---EVEANANAALMQLREAG 274 Query: 296 CEPVQVDMGE----AHRA-FDVIRAEAFV---AGFEAAYRRDP-----ASLG-PNTRANY 341 E V VD+ +H A F ++ E + A +A+ RD A +G P+ Sbjct: 275 VELVDVDLPTLAPLSHAAGFAIVLHEFLIDLPAYLQASDARDVIKRVLAEVGSPDVARII 334 Query: 342 EMGAAMSLQDCAWAQGEQTRIFRRFQQLY------ERYDLILSPTTPVSPFPWSELYLKE 395 + + + A+ + R R Q LY + D ++ PTT ++ P E Sbjct: 335 QATLDQPVPEHAYRLALEQR--RTMQALYRDCFRSQGVDALIFPTTALTARPLGEDDTVA 392 Query: 396 VNGVALENYYRWLALTYVVTLATNPAISLPCGRDHRGMPFGLQVTGAFRRDARLLAWAAA 455 + G + + + ++A P+IS+P G G+P GL++ G D RLL AA+ Sbjct: 393 LRGERVPTFPAFARNADGASIAGLPSISIPVGLSEYGLPVGLELDGPEGSDRRLLQVAAS 452 Query: 456 LE 457 LE Sbjct: 453 LE 454 >gi|300313942|ref|YP_003778034.1| Asp-tRNAAsn/Glu-tRNAGln amidotransferase subunit A [Herbaspirillum seropedicae SmR1] Length = 488 Score = 117 bits (293), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 146/498 (29%), Positives = 220/498 (44%), Gaps = 58/498 (11%) Query: 12 ELRQLIGSKQLSPVELLDACIARIEDINPHINAVTATCFERARQEARAAEQAVLAGGPLG 71 EL + ++++S EL + RI+ +NA E +A+ A+ + L+ G Sbjct: 8 ELSAQLQARKISATELATLFLDRID--ASDLNAFLHVDRELTLAQAKVAD-SRLSDNNAG 64 Query: 72 LLHGLPIGIKDLEETEGLLTTYGSPIYRGNVPTHDNALVARLRAAGAIVAGKTNVPEMGA 131 L G+PI KD+ T G TT GS + V D +V + AAG + GK N E Sbjct: 65 QLTGVPIAHKDIFVTRGWRTTAGSRMLDNYVSPFDATVVEQFNAAGMVTLGKLNCDEFAM 124 Query: 132 GANSRNTVWGATGNPFNPLLNAGGSSGGSAAALAADLLPLCSGSDTGGSLRIPAAKCGVV 191 G+ + N+ +G T NP++ GGSSGGSAAA+AA L P + +DTGGS+R PA+ CGV Sbjct: 125 GSGNENSYFGPTLNPWDKRAVPGGSSGGSAAAVAARLAPAATATDTGGSIRQPASLCGVT 184 Query: 192 GLRPSPGLVPSQRKPLGWTPISVVGPMGRDVADTVLQLRATIGLHDSDPLSYPVSASEFA 251 G++P+ G V + + GP+ + D L L A G + D S +F Sbjct: 185 GIKPTYGSVSRYGMIAFASSLDQGGPIAKTAEDCGLLLNAMTGFDERDSTSLQRPKEDFT 244 Query: 252 TLPPVDLSQLRIGYTEDFG----VCDVDDGIRQVFRNKIAAISRF----VQVCE------ 297 L LRIG ++F DV+ +R AA+S F Q+ E Sbjct: 245 RSLNDSLQGLRIGVPKEFFGAGLAADVEAAVR-------AALSEFEKLGAQLVEISLPKT 297 Query: 298 ----PVQVDMGEAHRAFDVIRAEAFVAGFEAA--------YRRDPAS-LGPNTRANYEMG 344 PV + A + ++ R + G AA YR+ A G + +G Sbjct: 298 ELSIPVYYVIAPAEASSNLSRFDGVRYGHRAADYGNLDDMYRKSRAEGFGEEVKRRILVG 357 Query: 345 A---AMSLQDCAWAQGEQTR--IFRRFQQLY----ERYDLILSPTTPVSPFPWSELYLKE 395 + + D + Q ++ R I + FQ + D+I+ P +P W L + Sbjct: 358 SYVLSHGYYDAYYLQAQKIRRLIAQDFQNALAGANRQCDVIMGPVSPT--VAWD---LGD 412 Query: 396 VNGVALENYYRWLALTYVVTLATNPAISLPC----GRDHRGMPFGLQVTGAFRRDARLLA 451 + NY + T +LA P +S+PC G + P GLQ+ G + +ARLL Sbjct: 413 KTNDPVANYLADI-FTLSTSLAGLPGMSIPCGFGQGEKNGKRPVGLQIIGNYFDEARLLN 471 Query: 452 WAAALEQAFAGDDALRRP 469 A +Q A D LR P Sbjct: 472 VAHQFQQ--ATDWHLREP 487 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 0.319 0.136 0.410 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: 1,389,076 Number of extensions: 53019 Number of successful extensions: 186 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 174 Number of HSP's successfully gapped: 12 Length of query: 506 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 417 Effective length of database: 1,198,455 Effective search space: 499755735 Effective search space used: 499755735 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: 133 (55.8 bits)