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= 0001.4595.p (396 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... 149 4e-37 gi|300311728|ref|YP_003775820.1| indole acetamide hydrolase [Her... 109 3e-25 gi|300310745|ref|YP_003774837.1| amidase family protein [Herbasp... 99 4e-22 gi|300310674|ref|YP_003774766.1| amidase family protein [Herbasp... 98 2e-21 gi|300313752|ref|YP_003777844.1| Asp-tRNAAsn/Glu-tRNAGln amidotr... 93 4e-20 >gi|300311162|ref|YP_003775254.1| amidase family protein [Herbaspirillum seropedicae SmR1] Length = 450 Score = 149 bits (376), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 127/386 (32%), Positives = 191/386 (49%), Gaps = 41/386 (10%) Query: 26 PLAGVRLAVKDIFDVAGYPTGCGNPHMLAMSGIKNSSAPAVQALLQAGAQFVGKVYTDEL 85 PL GV ++VKD+FDVAG T G+ +L + ++ A VQ LL+AGA +GK E Sbjct: 68 PLEGVPVSVKDLFDVAGETTLAGSV-VLRGKPVASAHAAVVQNLLKAGAILIGKTNMTEF 126 Query: 86 AFSMNGKNAHFGTPRNGGAPD----RIPGGSSSGSASAVSNGLAELALGTDTGGSVRVPA 141 A+S G N H+GTP+N + RIPGGSSSG+A +V++G+A A+G+DTGGSVR+P+ Sbjct: 127 AYSGLGINPHYGTPQNAWERNIEGGRIPGGSSSGAAISVTDGMAFAAVGSDTGGSVRIPS 186 Query: 142 SHCGLIGLRPTHGRVSLAGVMELAGSFDTCGWFAREMGLFSRAGDILLGQDSIELPEQPR 201 + GL G +PT RVS+ GV+ L+ D+ G A + + +L G+D + + P Sbjct: 187 ALNGLTGFKPTAARVSMQGVLPLSAYLDSIGPLAVSVQCCAIMDAVLAGEDYVAVLAHP- 245 Query: 202 VMVAADVLALLESRVQAVFSQTLDRLAGVIG-------------TPQPVKTATPSFDTLY 248 L R+ A + LD + +G V+ P+F+ L Sbjct: 246 ---------LRGLRLLAPTNVVLDGMDDTVGQAYRTALGKLAAAGAMIVEAEVPAFNALA 296 Query: 249 WAFRHIQGYEAWQAHGQH---IRRHDFQLGPGVAERFTWSATITPQQMAQ--HSAVRAIF 303 A G+ A +A+ H I + V R ++ + H+ R I Sbjct: 297 -AINAKGGFTAAEAYAWHRALIAENAAGYDQRVVSRILRGKDMSAADLLDVLHARPRWI- 354 Query: 304 AETFTRLLGRDGVLLLPSAPDVAPLLTDSEQSLENYRNQAVRML----CLAGLSGCPQIS 359 A+ +L G D L++P+ P VAP + + + S + Y +ML + L GC +S Sbjct: 355 AQVEAQLAGYDA-LVMPTVPIVAPRIAELQASDDAYYGANGKMLRNPTLINFLDGC-ALS 412 Query: 360 LPLMRLDDAPFGLSLIAPPGSDRSLI 385 LP AP GLSL A G D+ L+ Sbjct: 413 LPCHAPGSAPVGLSLAACGGQDKRLL 438 >gi|300311728|ref|YP_003775820.1| indole acetamide hydrolase [Herbaspirillum seropedicae SmR1] Length = 468 Score = 109 bits (273), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 125/393 (31%), Positives = 182/393 (46%), Gaps = 29/393 (7%) Query: 25 GPLAGVRLAVKDIFDVAGYPTGCGNPHMLAMSGIKNSSAPAVQALLQAGAQFVGKVYTDE 84 GPL+G+ +A+KD DVAG + G + + + A V+ L AGA GK E Sbjct: 64 GPLSGIPIAIKDNIDVAGIASTAGTAAL--RNNVPQRHATVVEYLFGAGALHAGKANMHE 121 Query: 85 LAFSMNGKNAHFGTPRNGGAPDRIPGGSSSGSASAVSNGLAELALGTDTGGSVRVPASHC 144 LAF + N FG RN + I GGSS G + ++ LA A+GTDTGGSVR+PA+ C Sbjct: 122 LAFGITNNNGVFGPCRNPYDAELIAGGSSGGCGALLAARLAPAAVGTDTGGSVRIPAALC 181 Query: 145 GLIGLRPTHGRVSLAGVMELAGSFDTCGWFAREMGLFSRAGDILLG-QDSIEL----PEQ 199 G++GLRPT R S GV+ ++ + DT G AR + + I+ G +DS L P Q Sbjct: 182 GVVGLRPTSRRYSQHGVVPISHTRDTPGPMARSVADVALLDQIMAGSRDSAPLLALPPSQ 241 Query: 200 PRVMVAAD-VLALLESRVQAVFSQTLDRL--AGV------IGTPQPVKTATPSFDTLYWA 250 R+ V + LE V+A + L +L AGV + T P+ A L+ Sbjct: 242 LRLGVLRNPSWQGLEEEVEANANAALMQLREAGVELVDVDLPTLAPLSHAAGFAIVLHEF 301 Query: 251 FRHIQGYEAWQAHGQHIRRHDFQLGPGVAERFTWSATITPQ-------QMAQHSAVRAIF 303 + Y I+R ++G R + P + Q ++A++ Sbjct: 302 LIDLPAYLQASDARDVIKRVLAEVGSPDVARIIQATLDQPVPEHAYRLALEQRRTMQALY 361 Query: 304 AETFTRLLGRDGVLLLPSAPDVAPLLTDSEQSLENYRNQA----VRMLCLAGLSGCPQIS 359 + F R G D ++ +A PL D +L R R A ++G P IS Sbjct: 362 RDCF-RSQGVDALIFPTTALTARPLGEDDTVALRGERVPTFPAFARNADGASIAGLPSIS 420 Query: 360 LPL-MRLDDAPFGLSLIAPPGSDRSLIRYAARL 391 +P+ + P GL L P GSDR L++ AA L Sbjct: 421 IPVGLSEYGLPVGLELDGPEGSDRRLLQVAASL 453 >gi|300310745|ref|YP_003774837.1| amidase family protein [Herbaspirillum seropedicae SmR1] Length = 611 Score = 99.4 bits (246), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 119/386 (30%), Positives = 170/386 (44%), Gaps = 26/386 (6%) Query: 26 PLAGVRLAVKDIFDVAGYPTGCGNPHMLAMSGIKNSSAPAVQALLQAGAQFVGKVYTDEL 85 PL G+ AVKD DVAG PT P S + +SA VQ L AGA VGK D+ Sbjct: 82 PLFGIPFAVKDNIDVAGMPTTAACPE---FSRVAETSATVVQRLQAAGALLVGKTNLDQF 138 Query: 86 AFSMNGKNAHFGTPRNGGAPDRIPGGSSSGSASAVSNGLAELALGTDTGGSVRVPASHCG 145 A + G + +G RN APD + GGSSSGSA AV+ G ALGTDT GS R+PA+ Sbjct: 139 ATGLVGVRSPYGAVRNAIAPDYVSGGSSSGSAVAVALGQVMFALGTDTAGSGRIPAAFNH 198 Query: 146 LIGLRPTHGRVSLAGVMELAGSFDTCGWFAREMG-----LFSRAGDILLGQDSIELP--- 197 L+GL+P+ G +S G++ + D FA ++ L S AG + +LP Sbjct: 199 LVGLKPSRGLISAQGLVPACRTLDCISIFAHDVADAWHVLHSAAGYDAADAYARKLPMLG 258 Query: 198 ---EQPRVMVAADVLALLESRVQAVFSQTLDRLAGVIGTPQPVKTATPSFDTLYWAFRHI 254 R+ + A + Q + +TL R+A + G P D ++ Sbjct: 259 LKRRGYRIAIPAATEFYGDLAAQDAWDRTLARIAELPGVTLARIPFAPFADAARLLYQGP 318 Query: 255 QGYEAWQAHGQHIRRHDFQLGPGVAERFTWSATITPQQMAQHSAVRAIFAETFTRLLGRD 314 E A G + + P V E +A Q A +LL Sbjct: 319 WVAERRAALGDFFVKQPQAVHPVVREITAQAADYDAVAAFQGQYRLAELRRQAEQLLEGA 378 Query: 315 GVLLLPSA---PDVAPLLTD--SEQSLENYRNQAVRMLCLAGLSGCPQISLP-LMRLDDA 368 ++L+P+ P +A + D S Y V ++ ++ L ++P L R D Sbjct: 379 DLMLVPTTTGMPTIAEVQADPVRRNSQLGYYTNFVNLMDMSAL------AIPGLWRNDGL 432 Query: 369 PFGLSLIAPPGSDRSLIRYAARLMHE 394 P G++LI P G+D L ARL H+ Sbjct: 433 PAGVTLIGPAGADHLLAEAGARLQHQ 458 >gi|300310674|ref|YP_003774766.1| amidase family protein [Herbaspirillum seropedicae SmR1] Length = 388 Score = 97.8 bits (242), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 71/157 (45%), Positives = 94/157 (59%), Gaps = 1/157 (0%) Query: 28 AGVRLAVKDIFDVAGYPTGCGNPHMLAMSGIKNSSAPAVQALLQAGAQFVGKVYTDELAF 87 +G +A+KD D+AG PT CG LA + ++ A V LL+AG Q + ELA+ Sbjct: 25 SGPTVAIKDCIDIAGQPT-CGGSAALADAPPASAHADVVARLLEAGWQITARANMHELAY 83 Query: 88 SMNGKNAHFGTPRNGGAPDRIPGGSSSGSASAVSNGLAELALGTDTGGSVRVPASHCGLI 147 M G N GT N P + GGSSSGSASAV GL ++++G+DTGGS+R+PA+ CG+I Sbjct: 84 GMTGINEWNGTAVNPQDPACMTGGSSSGSASAVGAGLVDVSIGSDTGGSIRLPAACCGVI 143 Query: 148 GLRPTHGRVSLAGVMELAGSFDTCGWFAREMGLFSRA 184 G +P+ GRVS AG S D G F+R M L A Sbjct: 144 GFKPSFGRVSRAGAYPALSSLDCLGPFSRSMDLIISA 180 >gi|300313752|ref|YP_003777844.1| Asp-tRNAAsn/Glu-tRNAGln amidotransferase subunit A [Herbaspirillum seropedicae SmR1] Length = 471 Score = 92.8 bits (229), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 66/149 (44%), Positives = 85/149 (57%), Gaps = 3/149 (2%) Query: 26 PLAGVRLAVKDIFDVAGYPTGCGNPHMLAMSGIKNSSAPAVQALLQAGAQFVGKVYTDEL 85 PL GV ++KD D+AG PT P A S + SA V L+ GA VGK D+ Sbjct: 69 PLYGVPFSIKDNIDLAGVPTTAACP---AFSYVPRESATLVAQLIALGAIPVGKCNLDQF 125 Query: 86 AFSMNGKNAHFGTPRNGGAPDRIPGGSSSGSASAVSNGLAELALGTDTGGSVRVPASHCG 145 A +NG + +G RN PD GGSSSGS+ AV+ GL+ ALGTDT GS RVPA+ Sbjct: 126 ATGLNGTRSPYGACRNSVHPDYPSGGSSSGSSLAVALGLSSFALGTDTAGSGRVPAALNN 185 Query: 146 LIGLRPTHGRVSLAGVMELAGSFDTCGWF 174 L+GL+ T G +S AGV+ + D +F Sbjct: 186 LVGLKATKGLLSTAGVVPACRTLDCVTFF 214 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 0.135 0.411 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: 1,312,418 Number of extensions: 57883 Number of successful extensions: 185 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: 396 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 309 Effective length of database: 1,207,925 Effective search space: 373248825 Effective search space used: 373248825 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)