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= 0003.0046.p (346 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311162|ref|YP_003775254.1| amidase family protein [Herbasp... 92 7e-20 gi|300313752|ref|YP_003777844.1| Asp-tRNAAsn/Glu-tRNAGln amidotr... 83 4e-17 gi|300310745|ref|YP_003774837.1| amidase family protein [Herbasp... 80 2e-16 gi|300311728|ref|YP_003775820.1| indole acetamide hydrolase [Her... 79 4e-16 gi|300310674|ref|YP_003774766.1| amidase family protein [Herbasp... 68 1e-12 >gi|300311162|ref|YP_003775254.1| amidase family protein [Herbaspirillum seropedicae SmR1] Length = 450 Score = 91.7 bits (226), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 106/354 (29%), Positives = 156/354 (44%), Gaps = 19/354 (5%) Query: 1 LRSHPIPTRSNALVEQLLQAGATLVGKTLTDELAYSIHGDNHHYGTPVN----SAAPERV 56 LR P+ + A+V+ LL+AGA L+GKT E AYS G N HYGTP N + R+ Sbjct: 94 LRGKPVASAHAAVVQNLLKAGAILIGKTNMTEFAYSGLGINPHYGTPQNAWERNIEGGRI 153 Query: 57 PGGSSSGSAAAVAARLCDFALGTDTGGSTRVPASYCGVWGLRTSFGLLSTASMAPLCPSF 116 PGGSSSG+A +V + A+G+DTGGS R+P++ G+ G + + +S + PL Sbjct: 154 PGGSSSGAAISVTDGMAFAAVGSDTGGSVRIPSALNGLTGFKPTAARVSMQGVLPLSAYL 213 Query: 117 DTATWLAHDAGTFERVGQVLLPKTGSTQLRKVLLPFDLLELAEAEFHPVVQRVYDALRSE 176 D+ LA + VL + L L LL + V A R+ Sbjct: 214 DSIGPLAVSVQCCAIMDAVLAGEDYVAVLAHPLRGLRLLAPTNVVLDGMDDTVGQAYRTA 273 Query: 177 LPGEHMRLSGD-EGELERWRQ-AYIHA----SAFDAWQCHGAWISSARPVFGPAVQARWD 230 L + E E+ + A I+A +A +A+ H A I+ + V +R Sbjct: 274 LGKLAAAGAMIVEAEVPAFNALAAINAKGGFTAAEAYAWHRALIAENAAGYDQRVVSRIL 333 Query: 231 MAQNIS-ADAARAAREKQDLVRHRVRSLLGADGVAVMPSASSVAPLRDATAAEIDQVRAR 289 +++S AD + + L G D + VMP+ VAP A D Sbjct: 334 RGKDMSAADLLDVLHARPRWIAQVEAQLAGYDAL-VMPTVPIVAPRIAELQASDDAYYGA 392 Query: 290 TFRL----TCVAGLAGLPQVSMPFTTPAGLPIGVSLLGPAGSDLAL--IGLATR 337 ++ T + L G +S+P P P+G+SL G D L IGLA Sbjct: 393 NGKMLRNPTLINFLDGC-ALSLPCHAPGSAPVGLSLAACGGQDKRLLSIGLAVE 445 >gi|300313752|ref|YP_003777844.1| Asp-tRNAAsn/Glu-tRNAGln amidotransferase subunit A [Herbaspirillum seropedicae SmR1] Length = 471 Score = 82.8 bits (203), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 106/361 (29%), Positives = 152/361 (42%), Gaps = 30/361 (8%) Query: 6 IPTRSNALVEQLLQAGATLVGKTLTDELAYSIHGDNHHYGTPVNSAAPERVPGGSSSGSA 65 +P S LV QL+ GA VGK D+ A ++G YG NS P+ GGSSSGS+ Sbjct: 98 VPRESATLVAQLIALGAIPVGKCNLDQFATGLNGTRSPYGACRNSVHPDYPSGGSSSGSS 157 Query: 66 AAVAARLCDFALGTDTGGSTRVPASYCGVWGLRTSFGLLSTASMAPLCPSFDTATWLAHD 125 AVA L FALGTDT GS RVPA+ + GL+ + GLLSTA + P C + D T+ Sbjct: 158 LAVALGLSSFALGTDTAGSGRVPAALNNLVGLKATKGLLSTAGVVPACRTLDCVTFFTAT 217 Query: 126 AGTFERVGQVLLPKTGSTQLRKVLLPFDLLELAEAEFHPVVQRVYDALRSELPGEHMRLS 185 A + L ++G R +L + F P Q LR +P + L Sbjct: 218 AAEASHL-LALCTQSGQPDERDEYSRANLPHNDASAFQPPPQ----GLRFGVPRQLEFLG 272 Query: 186 GDEGE---LERWRQAY--------IHASAFDA---WQCHGAWISSARPVFGPAVQARWDM 231 E +E Q I S F A G W++ +Q R D Sbjct: 273 CSESPSLFVEALAQMEAIGGVAVPIDFSPFLAAARLLYEGPWVAERYSTIEALLQERPDD 332 Query: 232 AQNISADAARAAREKQ--DLVRHRVR-SLLGADGVAVMPSASSVAPLRDATAAEIDQVRA 288 + D R A + D R + R L A+ ++ + V ++++R Sbjct: 333 ILPVIRDVLRKAPQYSAVDTFRAQYRLQQLKAECDRILATVDCVVTPAYPRPVTLEELRE 392 Query: 289 RTFR-------LTCVAGLAGLPQVSMPFT-TPAGLPIGVSLLGPAGSDLALIGLATRLWR 340 + + T + V+ P GLP G+++ G A SD AL+G+A L R Sbjct: 393 QPVQRNSDLGWYTNFMNMLDYAAVATPMNFMKNGLPWGITVFGRAFSDQALLGVADALQR 452 Query: 341 S 341 + Sbjct: 453 A 453 >gi|300310745|ref|YP_003774837.1| amidase family protein [Herbaspirillum seropedicae SmR1] Length = 611 Score = 80.1 bits (196), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 107/351 (30%), Positives = 154/351 (43%), Gaps = 24/351 (6%) Query: 10 SNALVEQLLQAGATLVGKTLTDELAYSIHGDNHHYGTPVNSAAPERVPGGSSSGSAAAVA 69 S +V++L AGA LVGKT D+ A + G YG N+ AP+ V GGSSSGSA AVA Sbjct: 115 SATVVQRLQAAGALLVGKTNLDQFATGLVGVRSPYGAVRNAIAPDYVSGGSSSGSAVAVA 174 Query: 70 ARLCDFALGTDTGGSTRVPASYCGVWGLRTSFGLLSTASMAPLCPSFDTATWLAHDAGTF 129 FALGTDT GS R+PA++ + GL+ S GL+S + P C + D + AHD Sbjct: 175 LGQVMFALGTDTAGSGRIPAAFNHLVGLKPSRGLISAQGLVPACRTLDCISIFAHDVADA 234 Query: 130 ERVGQVLLPKTGSTQLRKVLLPFDLLELAEAEFHPVVQRVYDALRSELPGEHMRLSGDEG 189 V + + L L P Y L ++ + R Sbjct: 235 WHVLHSAAGYDAADAYARKLPMLGLKRRGYRIAIPAATEFYGDLAAQDAWD--RTLARIA 292 Query: 190 ELERWRQAYIHASAF-DAWQC--HGAWISSARPVFG-----------PAVQARWDMAQNI 235 EL A I + F DA + G W++ R G P V+ A + Sbjct: 293 ELPGVTLARIPFAPFADAARLLYQGPWVAERRAALGDFFVKQPQAVHPVVREITAQAADY 352 Query: 236 SADAARAAREKQDLVRHRVRSLLGADGVAVMPSASSVAPLRDATAAEIDQVRARTFRL-- 293 A AA + + +R + LL + ++P+ + + + + A D VR R +L Sbjct: 353 DAVAAFQGQYRLAELRRQAEQLLEGADLMLVPTTTGMPTIAEVQA---DPVR-RNSQLGY 408 Query: 294 -TCVAGLAGLPQVSMP-FTTPAGLPIGVSLLGPAGSDLALIGLATRLWRSL 342 T L + +++P GLP GV+L+GPAG+D L RL L Sbjct: 409 YTNFVNLMDMSALAIPGLWRNDGLPAGVTLIGPAGADHLLAEAGARLQHQL 459 >gi|300311728|ref|YP_003775820.1| indole acetamide hydrolase [Herbaspirillum seropedicae SmR1] Length = 468 Score = 79.3 bits (194), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 121/374 (32%), Positives = 169/374 (45%), Gaps = 39/374 (10%) Query: 1 LRSHPIPTRSNALVEQLLQAGATLVGKTLTDELAYSIHGDNHHYGTPVNSAAPERVPGGS 60 LR++ +P R +VE L AGA GK ELA+ I +N +G N E + GGS Sbjct: 91 LRNN-VPQRHATVVEYLFGAGALHAGKANMHELAFGITNNNGVFGPCRNPYDAELIAGGS 149 Query: 61 SSGSAAAVAARLCDFALGTDTGGSTRVPASYCGVWGLRTSFGLLSTASMAPLCPSFDTAT 120 S G A +AARL A+GTDTGGS R+PA+ CGV GLR + S + P+ + DT Sbjct: 150 SGGCGALLAARLAPAAVGTDTGGSVRIPAALCGVVGLRPTSRRYSQHGVVPISHTRDTPG 209 Query: 121 WLAHDAGTFERVGQVLLPKTGS--------TQLRKVLLPF----DLLELAEAEFHPVVQR 168 +A + Q++ S +QLR +L L E EA + + + Sbjct: 210 PMARSVADVALLDQIMAGSRDSAPLLALPPSQLRLGVLRNPSWQGLEEEVEANANAALMQ 269 Query: 169 VYDA----LRSELPGEHMRLSGDEG------ELERWRQAYIHAS-AFDAWQCHGAWISSA 217 + +A + +LP LS G E AY+ AS A D + A + S Sbjct: 270 LREAGVELVDVDLP-TLAPLSHAAGFAIVLHEFLIDLPAYLQASDARDVIKRVLAEVGS- 327 Query: 218 RPVFGPAVQARWDMAQNISADAARAAREK----QDLVRHRVRSLLGADGVAVMPSASSVA 273 P +QA D Q + A R A E+ Q L R RS G D + +A + Sbjct: 328 -PDVARIIQATLD--QPVPEHAYRLALEQRRTMQALYRDCFRS-QGVDALIFPTTALTAR 383 Query: 274 PLRDATAAEIDQVRARTF----RLTCVAGLAGLPQVSMPF-TTPAGLPIGVSLLGPAGSD 328 PL + + R TF R A +AGLP +S+P + GLP+G+ L GP GSD Sbjct: 384 PLGEDDTVALRGERVPTFPAFARNADGASIAGLPSISIPVGLSEYGLPVGLELDGPEGSD 443 Query: 329 LALIGLATRLWRSL 342 L+ +A L L Sbjct: 444 RRLLQVAASLETVL 457 >gi|300310674|ref|YP_003774766.1| amidase family protein [Herbaspirillum seropedicae SmR1] Length = 388 Score = 68.2 bits (165), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 50/105 (47%), Positives = 65/105 (61%) Query: 13 LVEQLLQAGATLVGKTLTDELAYSIHGDNHHYGTPVNSAAPERVPGGSSSGSAAAVAARL 72 +V +LL+AG + + ELAY + G N GT VN P + GGSSSGSA+AV A L Sbjct: 61 VVARLLEAGWQITARANMHELAYGMTGINEWNGTAVNPQDPACMTGGSSSGSASAVGAGL 120 Query: 73 CDFALGTDTGGSTRVPASYCGVWGLRTSFGLLSTASMAPLCPSFD 117 D ++G+DTGGS R+PA+ CGV G + SFG +S A P S D Sbjct: 121 VDVSIGSDTGGSIRLPAACCGVIGFKPSFGRVSRAGAYPALSSLD 165 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 0.132 0.403 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: 1,158,827 Number of extensions: 49143 Number of successful extensions: 226 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 223 Number of HSP's successfully gapped: 11 Length of query: 346 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 260 Effective length of database: 1,212,660 Effective search space: 315291600 Effective search space used: 315291600 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: 131 (55.1 bits)