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= 0001.1229.p (606 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310745|ref|YP_003774837.1| amidase family protein [Herbasp... 934 0.0 gi|300313752|ref|YP_003777844.1| Asp-tRNAAsn/Glu-tRNAGln amidotr... 333 2e-92 gi|300311162|ref|YP_003775254.1| amidase family protein [Herbasp... 136 6e-33 gi|300309904|ref|YP_003773996.1| aspartate tRNAAsn/Glu-tRNAGln a... 105 1e-23 gi|300311728|ref|YP_003775820.1| indole acetamide hydrolase [Her... 100 6e-22 >gi|300310745|ref|YP_003774837.1| amidase family protein [Herbaspirillum seropedicae SmR1] Length = 611 Score = 934 bits (2415), Expect = 0.0, Method: Compositional matrix adjust. Identities = 491/600 (81%), Positives = 537/600 (89%), Gaps = 1/600 (0%) Query: 8 QQAATPTTIAATLAAYREGRSTPGKVVAELLARIDRAGRDEVWISRVPPKQLKQQAAALD 67 QQ A P TIA+TLAAYR G STPGK VA LLA I++A R+EVWISRVP KQLKQQAAALD Sbjct: 8 QQVAAPVTIASTLAAYRNGSSTPGKTVASLLALIEQADREEVWISRVPAKQLKQQAAALD 67 Query: 68 LMLQIKGEAVLETMPLFGIPFAVKDNIDVAEMSTTGACPEFGRLASESAAVVQRLQAAGA 127 LM QIKGE VLE+MPLFGIPFAVKDNIDVA M TT ACPEF R+A SA VVQRLQAAGA Sbjct: 68 LMWQIKGETVLESMPLFGIPFAVKDNIDVAGMPTTAACPEFSRVAETSATVVQRLQAAGA 127 Query: 128 LLVGKTNLDQFATGLVGVRSPYGAVRNAIKPDYVSGGSSSGSAVAVALGQVLFSLGTDTA 187 LLVGKTNLDQFATGLVGVRSPYGAVRNAI PDYVSGGSSSGSAVAVALGQV+F+LGTDTA Sbjct: 128 LLVGKTNLDQFATGLVGVRSPYGAVRNAIAPDYVSGGSSSGSAVAVALGQVMFALGTDTA 187 Query: 188 GSGRVPAAFNHLVGLKPTKGLISARGLVPACRTLDCISIFAHDVADAWRVLHSAAGFDTE 247 GSGR+PAAFNHLVGLKP++GLISA+GLVPACRTLDCISIFAHDVADAW VLHSAAG+D Sbjct: 188 GSGRIPAAFNHLVGLKPSRGLISAQGLVPACRTLDCISIFAHDVADAWHVLHSAAGYDAA 247 Query: 248 DGYSRRPTMLGVKRRGYRIAIPEHCEFFGDSVAQEAWERSLAQIAALPGVSLAKIPFAPF 307 D Y+R+ MLG+KRRGYRIAIP EF+GD AQ+AW+R+LA+IA LPGV+LA+IPFAPF Sbjct: 248 DAYARKLPMLGLKRRGYRIAIPAATEFYGDLAAQDAWDRTLARIAELPGVTLARIPFAPF 307 Query: 308 SAAAQLLYQGPWVAERRAALGDFFLENQEAIHPVVRQITAQADDYDAVDSFNAQYRLADL 367 + AA+LLYQGPWVAERRAALGDFF++ +A+HPVVR+ITAQA DYDAV +F QYRLA+L Sbjct: 308 ADAARLLYQGPWVAERRAALGDFFVKQPQAVHPVVREITAQAADYDAVAAFQGQYRLAEL 367 Query: 368 RRQAENLLAGSDLMLVPTTTTFPTIAEVEADPVVRNAQLGHYTNFVNLMDMSALAIPGVW 427 RRQAE LL G+DLMLVPTTT PTIAEV+ADPV RN+QLG+YTNFVNLMDMSALAIPG+W Sbjct: 368 RRQAEQLLEGADLMLVPTTTGMPTIAEVQADPVRRNSQLGYYTNFVNLMDMSALAIPGLW 427 Query: 428 RRDGLPAGVTLIGPAGADHLLAEAGACFQQQLGGAAQADAIAAAPLPFNESTIKVCVVGA 487 R DGLPAGVTLIGPAGADHLLAEAGA Q QLGGAAQADA+A+APLPF E TI++CVVGA Sbjct: 428 RNDGLPAGVTLIGPAGADHLLAEAGARLQHQLGGAAQADAVASAPLPFTEETIRLCVVGA 487 Query: 488 HLAGQPLNWQLLEAGARRVAVTCTAACYRLYALAGTTPPKPGLARTEG-DGAAIAVEVWE 546 HL+GQPLNWQLLEAGARR+A T TA YRLYALA + PPKPGLART G DGAAIAVEVWE Sbjct: 488 HLSGQPLNWQLLEAGARRLASTRTAPRYRLYALANSAPPKPGLARTAGADGAAIAVEVWE 547 Query: 547 MPLRQFGGFVAAIPAPLGIGTVELADGSSVKGFICEPAGIAGATDITHHGGWVNYLNSLN 606 MPLR G FVAAIPAPLGIGTVEL DGSSVKGFICEPAGIA ATDITHHGGW+NYLN+LN Sbjct: 548 MPLRHVGAFVAAIPAPLGIGTVELEDGSSVKGFICEPAGIADATDITHHGGWINYLNALN 607 >gi|300313752|ref|YP_003777844.1| Asp-tRNAAsn/Glu-tRNAGln amidotransferase subunit A [Herbaspirillum seropedicae SmR1] Length = 471 Score = 333 bits (854), Expect = 2e-92, Method: Compositional matrix adjust. Identities = 204/454 (44%), Positives = 276/454 (60%), Gaps = 16/454 (3%) Query: 16 IAATLAAYREGRSTPGKVVAELLARIDRAGRDEVWISRVPPKQLKQQAAALDLMLQIKGE 75 I A AAYR G P V+ L R A + + R+ L Q A + LQ + Sbjct: 9 IDALTAAYRNGSLDPRTVMQRL--RESAAALNPTY--RLYIHLLSQ--AETEPYLQALEQ 62 Query: 76 AVLETMPLFGIPFAVKDNIDVAEMSTTGACPEFGRLASESAAVVQRLQAAGALLVGKTNL 135 ++PL+G+PF++KDNID+A + TT ACP F + ESA +V +L A GA+ VGK NL Sbjct: 63 QSPHSLPLYGVPFSIKDNIDLAGVPTTAACPAFSYVPRESATLVAQLIALGAIPVGKCNL 122 Query: 136 DQFATGLVGVRSPYGAVRNAIKPDYVSGGSSSGSAVAVALGQVLFSLGTDTAGSGRVPAA 195 DQFATGL G RSPYGA RN++ PDY SGGSSSGS++AVALG F+LGTDTAGSGRVPAA Sbjct: 123 DQFATGLNGTRSPYGACRNSVHPDYPSGGSSSGSSLAVALGLSSFALGTDTAGSGRVPAA 182 Query: 196 FNHLVGLKPTKGLISARGLVPACRTLDCISIFAHDVADAWRVL---HSAAGFDTEDGYSR 252 N+LVGLK TKGL+S G+VPACRTLDC++ F A+A +L + D D YSR Sbjct: 183 LNNLVGLKATKGLLSTAGVVPACRTLDCVTFFTATAAEASHLLALCTQSGQPDERDEYSR 242 Query: 253 ------RPTMLGVKRRGYRIAIPEHCEFFGDSVAQEAWERSLAQIAALPGVSLAKIPFAP 306 + +G R +P EF G S + + +LAQ+ A+ GV++ I F+P Sbjct: 243 ANLPHNDASAFQPPPQGLRFGVPRQLEFLGCSESPSLFVEALAQMEAIGGVAV-PIDFSP 301 Query: 307 FSAAAQLLYQGPWVAERRAALGDFFLENQEAIHPVVRQITAQADDYDAVDSFNAQYRLAD 366 F AAA+LLY+GPWVAER + + E + I PV+R + +A Y AVD+F AQYRL Sbjct: 302 FLAAARLLYEGPWVAERYSTIEALLQERPDDILPVIRDVLRKAPQYSAVDTFRAQYRLQQ 361 Query: 367 LRRQAENLLAGSDLMLVPTTTTFPTIAEVEADPVVRNAQLGHYTNFVNLMDMSALAIPGV 426 L+ + + +LA D ++ P T+ E+ PV RN+ LG YTNF+N++D +A+A P Sbjct: 362 LKAECDRILATVDCVVTPAYPRPVTLEELREQPVQRNSDLGWYTNFMNMLDYAAVATPMN 421 Query: 427 WRRDGLPAGVTLIGPAGADHLLAEAGACFQQQLG 460 + ++GLP G+T+ G A +D L Q+ G Sbjct: 422 FMKNGLPWGITVFGRAFSDQALLGVADALQRAHG 455 >gi|300311162|ref|YP_003775254.1| amidase family protein [Herbaspirillum seropedicae SmR1] Length = 450 Score = 136 bits (342), Expect = 6e-33, Method: Compositional matrix adjust. Identities = 142/461 (30%), Positives = 209/461 (45%), Gaps = 28/461 (6%) Query: 13 PTTIAATLAAYREGRSTPGKVVAELLARI-DRAGRDEVWISRVPPKQLKQQAAALDLMLQ 71 P+T++ A G +T ++ + LARI D AG +RV +Q + A A D + Sbjct: 2 PSTLSRLAADLAAGHTTSLQLTEQALARIADPAGEGARVFTRVYAEQARAAARASDTLRA 61 Query: 72 IKGEAVLETMPLFGIPFAVKDNIDVA-EMSTTGACPEFGR-LASESAAVVQRLQAAGALL 129 + L PL G+P +VKD DVA E + G+ G+ +AS AAVVQ L AGA+L Sbjct: 62 AR----LCRSPLEGVPVSVKDLFDVAGETTLAGSVVLRGKPVASAHAAVVQNLLKAGAIL 117 Query: 130 VGKTNLDQFATGLVGVRSPYGAVRNA----IKPDYVSGGSSSGSAVAVALGQVLFSLGTD 185 +GKTN+ +FA +G+ YG +NA I+ + GGSSSG+A++V G ++G+D Sbjct: 118 IGKTNMTEFAYSGLGINPHYGTPQNAWERNIEGGRIPGGSSSGAAISVTDGMAFAAVGSD 177 Query: 186 TAGSGRVPAAFNHLVGLKPTKGLISARGLVPACRTLDCISIFAHDVADAWRVLHSAAGFD 245 T GS R+P+A N L G KPT +S +G++P LD I A V A D Sbjct: 178 TGGSVRIPSALNGLTGFKPTAARVSMQGVLPLSAYLDSIGPLAVSV-------QCCAIMD 230 Query: 246 TEDGYSRRPTMLGVKRRGYRIAIPEHCEFFG--DSVAQEAWERSLAQIAALPGVSLAKIP 303 +L RG R+ P + G D+V Q AA + A++P Sbjct: 231 AVLAGEDYVAVLAHPLRGLRLLAPTNVVLDGMDDTVGQAYRTALGKLAAAGAMIVEAEVP 290 Query: 304 FAPFSAAAQLLYQGPWV-AERRAALGDFFLENQEAIHPVVRQITAQADDYDAVDSFNAQY 362 F+A A + +G + AE A EN V + D A D + + Sbjct: 291 --AFNALAAINAKGGFTAAEAYAWHRALIAENAAGYDQRVVSRILRGKDMSAADLLDVLH 348 Query: 363 RLADLRRQAENLLAGSDLMLVPTTTTF-PTIAEVEADPVVR---NAQLGHYTNFVNLMDM 418 Q E LAG D +++PT P IAE++A N ++ +N +D Sbjct: 349 ARPRWIAQVEAQLAGYDALVMPTVPIVAPRIAELQASDDAYYGANGKMLRNPTLINFLDG 408 Query: 419 SALAIPGVWRRDGLPAGVTLIGPAGADHLLAEAGACFQQQL 459 AL++P P G++L G D L G + L Sbjct: 409 CALSLP-CHAPGSAPVGLSLAACGGQDKRLLSIGLAVEALL 448 >gi|300309904|ref|YP_003773996.1| aspartate tRNAAsn/Glu-tRNAGln amidotransferase subunit A-like protein [Herbaspirillum seropedicae SmR1] Length = 651 Score = 105 bits (261), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 88/238 (36%), Positives = 122/238 (51%), Gaps = 9/238 (3%) Query: 15 TIAATLAAYREGRSTPGKVVAELLARI---DRAGRDEVWISRVPPKQLKQQAAALDLMLQ 71 +I +A GR+T +V LARI D+ G I + PK L ++A LD + Sbjct: 53 SITHLQSAQDAGRATSRSLVLAYLARIRAYDQQGPSLNAIVTLNPKAL-EEADQLDRERR 111 Query: 72 IKGEAVLETMPLFGIPFAVKDNIDVAEMSTTGACPEFGRLASESAAV-VQRLQAAGALLV 130 G PL GIP VKDN D +M TTG L +++ A V+RL+ AGA+++ Sbjct: 112 QSGP----RGPLHGIPILVKDNYDTVDMPTTGGTLALATLQAQADAFQVKRLREAGAVIL 167 Query: 131 GKTNLDQFATGLVGVRSPYGAVRNAIKPDYVSGGSSSGSAVAVALGQVLFSLGTDTAGSG 190 GKT + + A G+ V S G RN P GGSS G+ AVA +G+DT GS Sbjct: 168 GKTTMHELAAGVTTVSSLTGFTRNPYDPRRAPGGSSGGTGAAVAASFAAAGMGSDTCGSI 227 Query: 191 RVPAAFNHLVGLKPTKGLISARGLVPACRTLDCISIFAHDVADAWRVLHSAAGFDTED 248 R+PAA +L GL+ T+GL S G++P T D + A V D +L + G D +D Sbjct: 228 RIPAAHQNLFGLRTTRGLASRSGVMPLSSTQDVAAPLARSVEDLAIMLDATVGSDPQD 285 >gi|300311728|ref|YP_003775820.1| indole acetamide hydrolase [Herbaspirillum seropedicae SmR1] Length = 468 Score = 99.8 bits (247), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 127/439 (28%), Positives = 183/439 (41%), Gaps = 63/439 (14%) Query: 56 PKQLKQQAAALDLMLQIKGEAVLETMPLFGIPFAVKDNIDVAEM-STTGACPEFGRLASE 114 P+QL+ QA LD + G PL GIP A+KDNIDVA + ST G + Sbjct: 47 PEQLRSQARMLD---EQGGHG-----PLSGIPIAIKDNIDVAGIASTAGTAALRNNVPQR 98 Query: 115 SAAVVQRLQAAGALLVGKTNLDQFATGLVGVRSPYGAVRNAIKPDYVSGGSSSGSAVAVA 174 A VV+ L AGAL GK N+ + A G+ +G RN + ++GGSS G +A Sbjct: 99 HATVVEYLFGAGALHAGKANMHELAFGITNNNGVFGPCRNPYDAELIAGGSSGGCGALLA 158 Query: 175 LGQVLFSLGTDTAGSGRVPAAFNHLVGLKPTKGLISARGLVPACRTLDCISIFAHDVADA 234 ++GTDT GS R+PAA +VGL+PT S G+VP T D A VAD Sbjct: 159 ARLAPAAVGTDTGGSVRIPAALCGVVGLRPTSRRYSQHGVVPISHTRDTPGPMARSVADV 218 Query: 235 WRVLHSAAGF-DTEDGYSRRPTM--LGVKRRGYRIAIPEHCEFFGDSVAQEAWERSLAQI 291 + AG D+ + P+ LGV R + E E ++ + E Sbjct: 219 ALLDQIMAGSRDSAPLLALPPSQLRLGVLRNPSWQGLEEEVEANANAALMQLRE------ 272 Query: 292 AALPGVSLAKIP---FAPFSAAAQLLYQGPWVAERRAALGDF------FLENQEAIHPVV 342 GV L + AP S AA L +F +L+ +A V+ Sbjct: 273 ---AGVELVDVDLPTLAPLSHAAGFAI----------VLHEFLIDLPAYLQASDA-RDVI 318 Query: 343 RQITAQADDYDAVDSFNAQ---------YRLA-DLRRQAENLL------AGSDLMLVPTT 386 +++ A+ D A YRLA + RR + L G D ++ PTT Sbjct: 319 KRVLAEVGSPDVARIIQATLDQPVPEHAYRLALEQRRTMQALYRDCFRSQGVDALIFPTT 378 Query: 387 TTFPTIAEVEADPVVRNAQLGHYTNFVNLMD------MSALAIPGVWRRDGLPAGVTLIG 440 + +R ++ + F D + +++IP GLP G+ L G Sbjct: 379 ALTARPLGEDDTVALRGERVPTFPAFARNADGASIAGLPSISIPVGLSEYGLPVGLELDG 438 Query: 441 PAGADHLLAEAGACFQQQL 459 P G+D L + A + L Sbjct: 439 PEGSDRRLLQVAASLETVL 457 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 0.134 0.401 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: 1,894,069 Number of extensions: 81220 Number of successful extensions: 280 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 269 Number of HSP's successfully gapped: 11 Length of query: 606 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 515 Effective length of database: 1,188,985 Effective search space: 612327275 Effective search space used: 612327275 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)