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= 0028.0025.p (646 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311549|ref|YP_003775641.1| peptidyl-prolyl cis-trans isome... 887 0.0 gi|300311558|ref|YP_003775650.1| peptidyl-prolyl cis-trans isome... 86 1e-17 gi|300310041|ref|YP_003774133.1| parvulin-like peptidyl-prolyl c... 64 5e-11 >gi|300311549|ref|YP_003775641.1| peptidyl-prolyl cis-trans isomerase D [Herbaspirillum seropedicae SmR1] Length = 639 Score = 887 bits (2293), Expect = 0.0, Method: Compositional matrix adjust. Identities = 453/630 (71%), Positives = 533/630 (84%), Gaps = 2/630 (0%) Query: 1 MFEFIRNHQRLMQFLLLLFIFPSFAFFGLEGYSRLSDGDNAVAKVAGQTITKEEWDAAQR 60 MF+FIR HQRLMQFLLLLFIFPSFAFFGLEGYSRL+D DN VAKVAGQTITKEEWDAA R Sbjct: 1 MFDFIRTHQRLMQFLLLLFIFPSFAFFGLEGYSRLTD-DNGVAKVAGQTITKEEWDAAHR 59 Query: 61 QQLERMRQMSGGQIDPKVFDTPEARRAVLENLIAQRALAAEVVNDKLSVSDLTLQQSIMQ 120 QQLERMRQ+ G Q D K+FD+P+ARRA+L+NLIAQRAL AEVV KL V D LQQSI+Q Sbjct: 60 QQLERMRQVYGNQFDSKIFDSPQARRAILDNLIAQRALGAEVVASKLVVPDQVLQQSILQ 119 Query: 121 IPGLLKADGSFDSDQYRVLLAAQGLTPKGYEASLRRDMGLQQINAAVQGTAFAPKTVAAR 180 IPGL KADG FD++QYRVLLAAQG+TPK YEA LRR+M +QQ+NAA+Q TAFAPKTVA Sbjct: 120 IPGLTKADGKFDNEQYRVLLAAQGMTPKSYEAGLRREMAVQQLNAAIQTTAFAPKTVAEN 179 Query: 181 LSDLNDQERTVQELSFKAASFAGQVKVTDDMLKAYYDKNGSKFEVPEQAKIEYVVLDSAA 240 LS LNDQERTVQ L+FK S+A QVK++D+MLK YYDKN ++FE PEQA IEYVVLD+AA Sbjct: 180 LSALNDQERTVQMLNFKPDSYASQVKLSDEMLKDYYDKNSARFETPEQADIEYVVLDAAA 239 Query: 241 VAAQVSVSDADVKSYYDQNIKQYSTDEQRRASHILLEVKKGASVADKAAVKAKADGLVAQ 300 VAAQ +V+D D+K+YY+QN K Y+T+EQRRASHIL+ VKK AS AD+AA K+KA+GLVAQ Sbjct: 240 VAAQAAVTDDDIKAYYEQNKKLYATEEQRRASHILIAVKKDASAADQAAAKSKAEGLVAQ 299 Query: 301 LRKTPGDFAKLAKANSQDPGSKDQGGDLGFFGKGAMLKSFEDAAYKLKQGEISDPVESDY 360 LRK PG+FAKLAKANSQDPGS + GGDLG+FGKGAM+K FEDAA+ LKQGEISDPV+SD+ Sbjct: 300 LRKNPGEFAKLAKANSQDPGSAENGGDLGYFGKGAMVKPFEDAAFSLKQGEISDPVQSDF 359 Query: 361 GYHIIQLTGIKPGSVKPLDEVKSEISTEIKKQLAAKKYAELAETFNNTVYEQGDSLKPVA 420 GYHII++TGIKP +VKPL+ VK+EI +EIKKQ+AAKKY+E+A+ FNN VYE GDSLK V+ Sbjct: 360 GYHIIEVTGIKPAAVKPLESVKAEIGSEIKKQIAAKKYSEMADQFNNLVYENGDSLKAVS 419 Query: 421 DKLKLKIETATGVTRQANPTLPPNTVYNNPKFLKALFTDDTIKGKHNSEAVQVAPTTLIA 480 DKLKLKI+TATGVTR NP P YNN KFL ALFTDD IK KHN+EAVQ AP TL+A Sbjct: 420 DKLKLKIQTATGVTRTPNPAAGP-LPYNNAKFLTALFTDDVIKAKHNTEAVQTAPNTLVA 478 Query: 481 GHIVEYKPVTKRAFDDVKTIVRELVTQTEELALAKKAGEAKLAELKSKDDAAGFGEAKVA 540 G + YKPVTKR FD+VK V++ V +E LA KAG+ +LA+L++KDDAAGF EAKV Sbjct: 479 GRVTSYKPVTKRPFDEVKADVQKAVLAQQEQLLAVKAGQERLAQLQAKDDAAGFSEAKVV 538 Query: 541 SRVKTQGWNQDAFLAVMKADTAKLPAYTGVEVPGQGYSVFRITKVAQPATPDAARRKTEQ 600 SRVK GW Q+AF AVMKADTAKLPAY G E PG GY ++RI+KV QP T DAARR+ E+ Sbjct: 539 SRVKADGWTQEAFNAVMKADTAKLPAYVGAETPGMGYQIYRISKVEQPKTVDAARRQAER 598 Query: 601 DQIANTLAEQEMLSYINYLKEKAKTKILKG 630 +QIA+ L++QE LSY++YL+EKAKTK+LKG Sbjct: 599 EQIASALSQQEALSYLDYLREKAKTKLLKG 628 >gi|300311558|ref|YP_003775650.1| peptidyl-prolyl cis-trans isomerase [Herbaspirillum seropedicae SmR1] Length = 258 Score = 85.9 bits (211), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 53/147 (36%), Positives = 87/147 (59%), Gaps = 16/147 (10%) Query: 247 VSDADVKSYYDQNIKQYSTDEQRRASHILLEVKKGASVADKAAVKAKADGLVAQLRKTPG 306 VSDAD+K+ YD+ K + D++ A HIL++ K+ A + ++A+L K Sbjct: 111 VSDADIKAEYDK-FKAQAGDKEYHARHILVDKKEDA------------EAIIAKL-KAGT 156 Query: 307 DFAKLAKANSQDPGSKDQGGDLGFFGKGAMLKSFEDAAYKLKQGEIS-DPVESDYGYHII 365 F LAK S+D GS GGDL + + +K F DA LK+GE++ PV++ +G+H+I Sbjct: 157 KFEDLAK-QSKDTGSAANGGDLDWATPASFVKPFSDAMVALKKGEVTPTPVQTQFGWHVI 215 Query: 366 QLTGIKPGSVKPLDEVKSEISTEIKKQ 392 +L ++P V LDEVK +I+ ++++ Sbjct: 216 KLEDVRPAKVPTLDEVKPQIAEALQQK 242 >gi|300310041|ref|YP_003774133.1| parvulin-like peptidyl-prolyl cis-trans isomerase [Herbaspirillum seropedicae SmR1] Length = 496 Score = 63.5 bits (153), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 38/96 (39%), Positives = 53/96 (55%), Gaps = 4/96 (4%) Query: 273 HILLEVKKGASVADKAAVKAKADGLVAQLRKTPGDFAKLAKANSQDPGSKDQGGDLGFFG 332 HIL++V + V A K K L +L F +LAK S D S +GGDLG+ Sbjct: 357 HILIKVNQ---VVTAAEAKRKLTELKERLDHGSATFEELAKLYSNDL-SASKGGDLGWVY 412 Query: 333 KGAMLKSFEDAAYKLKQGEISDPVESDYGYHIIQLT 368 G + FE A +LK GE+S P+E+ +GYH+IQ+ Sbjct: 413 PGDTVPEFERAMDQLKPGEVSQPIETPFGYHLIQVV 448 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 0.313 0.129 0.351 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: 1,693,876 Number of extensions: 61742 Number of successful extensions: 202 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 196 Number of HSP's successfully gapped: 4 Length of query: 646 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 555 Effective length of database: 1,188,985 Effective search space: 659886675 Effective search space used: 659886675 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.9 bits) S2: 134 (56.2 bits)