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= 0007.0076.p (385 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... 689 0.0 gi|300309358|ref|YP_003773450.1| amidase family protein [Herbasp... 173 2e-44 gi|300312309|ref|YP_003776401.1| 6-aminohexanoate-cyclic-dimer h... 130 2e-31 gi|300311728|ref|YP_003775820.1| indole acetamide hydrolase [Her... 117 2e-27 gi|300313942|ref|YP_003778034.1| Asp-tRNAAsn/Glu-tRNAGln amidotr... 95 9e-21 >gi|300313659|ref|YP_003777751.1| amidase family protein [Herbaspirillum seropedicae SmR1] Length = 506 Score = 689 bits (1777), Expect = 0.0, Method: Compositional matrix adjust. Identities = 346/385 (89%), Positives = 365/385 (94%) Query: 1 MSDSLVEKTAVELRQLIGSKQVSPVELLDACIARIEDLNPHINAVTATCFERARKEARAA 60 M D LVEK+AVELRQLIGSKQ+SPVELL+ACIARIED+NPHINAVTATCFERAR EARAA Sbjct: 1 MQDKLVEKSAVELRQLIGSKQLSPVELLEACIARIEDINPHINAVTATCFERARGEARAA 60 Query: 61 EQAVMDGTELGLLHGLPIGIKDLEETEGLLTTYGSPIYRGNVPAHDNALVARLRAAGAIV 120 EQAV+DG LGLLHGLPIGIKDLEETEGLLTTYGSP+YRGN+PA DNALVARLRAAGAIV Sbjct: 61 EQAVIDGKPLGLLHGLPIGIKDLEETEGLLTTYGSPLYRGNIPARDNALVARLRAAGAIV 120 Query: 121 AGKTNVPEMGAGANSRNTVWGATGNPFNPLLNAGGSSGGSAAALAVDLLPLCSGSDTGGS 180 AGKTNVPEMGAGANSRN VWGATGNPFNPLLNAGGSSGGSAAALA DLLPLCSGSDTGGS Sbjct: 121 AGKTNVPEMGAGANSRNAVWGATGNPFNPLLNAGGSSGGSAAALATDLLPLCSGSDTGGS 180 Query: 181 LRIPAAKCGVVGFRPSPGLVPSERKLLGWTPISVVGPMGRNVADTVLQLRATIGLHASDP 240 LRIPAAKCGVVGFRPSPGLVPSERKLLGWTPISVVGPMGR+VADTVLQLRAT+GLHASDP Sbjct: 181 LRIPAAKCGVVGFRPSPGLVPSERKLLGWTPISVVGPMGRDVADTVLQLRATLGLHASDP 240 Query: 241 LSYAVDDAAFAALPPVDLSRLRIGYTEDFGVCAVDEGIREVFRQKMAAIGRFVQVCEPVE 300 L YAV D+ FA+LP VDLS+LRIGYTEDFGVC VD GIR+VFR KMAAI +V++CEPV+ Sbjct: 241 LGYAVSDSEFASLPQVDLSQLRIGYTEDFGVCDVDNGIRQVFRDKMAAIAPYVKLCEPVD 300 Query: 301 VDMGEAHRAFDVIRAEAFVAGFEAAYRRDPASLGPNTRANYEMGAAMSLSDCAWAQGEQT 360 VDMGEAHRAFDVIRAEAFVAGF+AAYRRDPASLGPNTRANYEMGAAMSL DCAWAQ EQT Sbjct: 301 VDMGEAHRAFDVIRAEAFVAGFDAAYRRDPASLGPNTRANYEMGAAMSLLDCAWAQSEQT 360 Query: 361 RLFRRFQQLYARYDLILSPTTPVSP 385 R+FRRFQQLY RYDLILSPTTPVSP Sbjct: 361 RIFRRFQQLYERYDLILSPTTPVSP 385 >gi|300309358|ref|YP_003773450.1| amidase family protein [Herbaspirillum seropedicae SmR1] Length = 482 Score = 173 bits (439), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 143/391 (36%), Positives = 198/391 (50%), Gaps = 11/391 (2%) Query: 4 SLVEKTAVELRQLIGSKQVSPVELLDACIARIEDLNPHINAVTAT-CFERARKEARAAEQ 62 LV A+ L I SK+VS E++ A + IE +NPH+NA+ + E EA+ A+Q Sbjct: 3 QLVTLDALALSAAIRSKEVSCREVMQAYLEHIEKMNPHVNAIVSLRPPEELLDEAKRADQ 62 Query: 63 AVMDGTELGLLHGLPIGIKDLEETEGLLTTYGSPIYRGNVPAHDNALVARLRAAGAIVAG 122 + G LG +HG+P KDL +GL T+ GSP+ D VAR+R AGAI G Sbjct: 63 LLAQGRYLGWMHGMPQAPKDLASCKGLPTSKGSPLSSMAPDQSDATCVARVRDAGAIFIG 122 Query: 123 KTNVPEMGAGANSRNTVWGATGNPFNPLLNAGGSSGGSAAALAVDLLPLCSGSDTGGSLR 182 KTNV E G G+NS N ++G T N ++ AGGSSGG+ AALA+ +LP+ GSD GSLR Sbjct: 123 KTNVSEFGLGSNSYNPLFGVTRNAYDFSRIAGGSSGGAGAALAMRMLPVADGSDMMGSLR 182 Query: 183 IPAAKCGVVGFRPSPGLVP-SERKLLGWTPISVVGPMGRNVADTVLQLRATIGLHASDPL 241 PAA V GFRP+ G VP L +S GPMGR VAD G PL Sbjct: 183 NPAAFNNVYGFRPTQGRVPYGSGGELFLQQLSTEGPMGRTVADVARLFATQAGYDPQCPL 242 Query: 242 SYAVDDAAFAALPPVDLSRLRIGYTEDF-GVCAVDEGIR---EVFRQKMAAIGRFVQVCE 297 S D AA D RIG+ ++ G ++E + E A IG V+ C Sbjct: 243 SSDTDVTGDAAQLKRDFKGARIGWLGNYDGYLPIEEEVMVLCEAALSDFADIGCTVEQCR 302 Query: 298 PVEVDMGEAHRAFDVIRAEAFVAGFEAAYRRDPASLG---PNTRANYEMGAAMSLSDCAW 354 P + M + + V R + V G + Y DPA G P + E G ++ +D Sbjct: 303 P-DYPMEKLWETWLVHR-QWLVGGNLSVYFADPARRGLLKPEAQWEVESGQYLTAADVFR 360 Query: 355 AQGEQTRLFRRFQQLYARYDLILSPTTPVSP 385 A ++ +R +L+ ++D +L P+ + P Sbjct: 361 ASMARSDWYRAIHKLFEQFDYLLLPSAQMFP 391 >gi|300312309|ref|YP_003776401.1| 6-aminohexanoate-cyclic-dimer hydrolase [Herbaspirillum seropedicae SmR1] Length = 482 Score = 130 bits (326), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 127/396 (32%), Positives = 179/396 (45%), Gaps = 20/396 (5%) Query: 2 SDSLVE-KTAVELRQLIGSKQVSPVELLDACIARIEDLNPHINAVTATCFERARKEARAA 60 S SLV + ++L Q IG ++SP E L I R+E +NP +NAV A K Sbjct: 6 SSSLVRPQDGLDLAQRIGQGELSPGEALAQAIERLEQVNPALNAV-------AEKLYHLG 58 Query: 61 EQAVMDGTELGLLHGLPIGIKDL-EETEGLLTTYGSPIYRGNVPAHDNALVARLRAAGAI 119 EQ+V G G G+P+ KDL G + GS + + NV D LV RL+ AG Sbjct: 59 EQSVAQGLPDGPFRGVPLLTKDLFTPLAGARMSNGSLLLKDNVMPVDAELVTRLKKAGFT 118 Query: 120 VAGKTNVPEMGAGANSRNTVWGATGNPFNPLLNAGGSSGGSAAALAVDLLPLCSGSDTGG 179 + G T PE G + + ++GAT NP++ + GGSSG +AA +A +LP+ G+D GG Sbjct: 119 IFGTTTSPEFGTSYTTESRLFGATRNPWSLDHSCGGSSGAAAALVAARVLPIAHGNDGGG 178 Query: 180 SLRIPAAKCGVVGFRPSPGLVP-SERKLLGWTPISVVGPMGRNVADTVLQLRATIGLHAS 238 SLR+PA+ CGV G +PS GL+P GW +S M +V D+ L G Sbjct: 179 SLRVPASACGVFGLKPSRGLMPMGPLAGEGWAGMSTSHVMSLSVRDSAAVLDQLAGADLG 238 Query: 239 DPLSYAVDDAAF-AALPPVDLSRLRIGYTEDFGVCAVDEGIREVFRQKMA---AIGRFV- 293 P + +F AA LRIG E ++ A +G V Sbjct: 239 APYAAPHYRQSFLAAATGAAPQGLRIGLVTHLPPWPTHPDCSEAVQRTAALCQQLGHHVE 298 Query: 294 QVCEPVEVDMGEAHRAFDVIRAEA----FVAGFEAAYRRDPASLGPNTRANYEMGAAMSL 349 + C PV+ + F +I ++ + A D +L R +S Sbjct: 299 ETCLPVD-GLEFYDTVFTIIGSQTRNLMNLLARMAGQPLDEQALEARHRVILRDKGQLSG 357 Query: 350 SDCAWAQGEQTRLFRRFQQLYARYDLILSPTTPVSP 385 +D A A RR +L RYDLIL+PT P Sbjct: 358 ADYAAAVDYLHAFGRRMAELMQRYDLILTPTMAQPP 393 >gi|300311728|ref|YP_003775820.1| indole acetamide hydrolase [Herbaspirillum seropedicae SmR1] Length = 468 Score = 117 bits (292), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 116/309 (37%), Positives = 160/309 (51%), Gaps = 39/309 (12%) Query: 5 LVEKTAVELRQLIGSKQVSPVELLDACIARIE---DLNPHINAVTATCF-ERARKEARAA 60 LV+ T +E+RQ + ++ S +E +DA IA E DLN C+ +R ++ R+ Sbjct: 3 LVDMTLIEVRQGLSDRRFSCLEYVDALIAETEAQWDLN---------CYLQRDPEQLRSQ 53 Query: 61 EQAVMDGTELGLLHGLPIGIKDLEETEGLLTTYGSPIYRGNVPAHDNALVARLRAAGAIV 120 + + + G L G+PI IKD + G+ +T G+ R NVP +V L AGA+ Sbjct: 54 ARMLDEQGGHGPLSGIPIAIKDNIDVAGIASTAGTAALRNNVPQRHATVVEYLFGAGALH 113 Query: 121 AGKTNVPEMGAGANSRNTVWGATGNPFNPLLNAGGSSGGSAAALAVDLLPLCSGSDTGGS 180 AGK N+ E+ G + N V+G NP++ L AGGSSGG A LA L P G+DTGGS Sbjct: 114 AGKANMHELAFGITNNNGVFGPCRNPYDAELIAGGSSGGCGALLAARLAPAAVGTDTGGS 173 Query: 181 LRIPAAKCGVVGFRPSPGLVPSER-KLLGWTPISVV----GPMGRNVADTVLQLRATIGL 235 +RIPAA CGVVG RP+ S R G PIS GPM R+VAD L + G Sbjct: 174 VRIPAALCGVVGLRPT-----SRRYSQHGVVPISHTRDTPGPMARSVADVALLDQIMAGS 228 Query: 236 HASDPLSYAVDDAAFAALPPVDLSRLRIGYTEDFGVCAVDEGIREVFRQKMAAIGRFVQV 295 S PL ALPP S+LR+G + ++E EV AA+ + + Sbjct: 229 RDSAPL---------LALPP---SQLRLGVLRNPSWQGLEE---EVEANANAALMQLREA 273 Query: 296 -CEPVEVDM 303 E V+VD+ Sbjct: 274 GVELVDVDL 282 >gi|300313942|ref|YP_003778034.1| Asp-tRNAAsn/Glu-tRNAGln amidotransferase subunit A [Herbaspirillum seropedicae SmR1] Length = 488 Score = 95.1 bits (235), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 87/261 (33%), Positives = 125/261 (47%), Gaps = 3/261 (1%) Query: 9 TAVELRQLIGSKQVSPVELLDACIARIEDLNPHINAVTATCFERARKEARAAEQAVMDGT 68 T EL + ++++S EL + RI+ +NA E +A+ A+ + D Sbjct: 5 TLKELSAQLQARKISATELATLFLDRID--ASDLNAFLHVDRELTLAQAKVADSRLSDNN 62 Query: 69 ELGLLHGLPIGIKDLEETEGLLTTYGSPIYRGNVPAHDNALVARLRAAGAIVAGKTNVPE 128 G L G+PI KD+ T G TT GS + V D +V + AAG + GK N E Sbjct: 63 A-GQLTGVPIAHKDIFVTRGWRTTAGSRMLDNYVSPFDATVVEQFNAAGMVTLGKLNCDE 121 Query: 129 MGAGANSRNTVWGATGNPFNPLLNAGGSSGGSAAALAVDLLPLCSGSDTGGSLRIPAAKC 188 G+ + N+ +G T NP++ GGSSGGSAAA+A L P + +DTGGS+R PA+ C Sbjct: 122 FAMGSGNENSYFGPTLNPWDKRAVPGGSSGGSAAAVAARLAPAATATDTGGSIRQPASLC 181 Query: 189 GVVGFRPSPGLVPSERKLLGWTPISVVGPMGRNVADTVLQLRATIGLHASDPLSYAVDDA 248 GV G +P+ G V + + + GP+ + D L L A G D S Sbjct: 182 GVTGIKPTYGSVSRYGMIAFASSLDQGGPIAKTAEDCGLLLNAMTGFDERDSTSLQRPKE 241 Query: 249 AFAALPPVDLSRLRIGYTEDF 269 F L LRIG ++F Sbjct: 242 DFTRSLNDSLQGLRIGVPKEF 262 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 0.135 0.399 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: 1,213,096 Number of extensions: 51191 Number of successful extensions: 186 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 170 Number of HSP's successfully gapped: 11 Length of query: 385 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 298 Effective length of database: 1,207,925 Effective search space: 359961650 Effective search space used: 359961650 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 (21.7 bits) S2: 131 (55.1 bits)