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= 0001.2083.p (639 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... 1122 0.0 gi|300311558|ref|YP_003775650.1| peptidyl-prolyl cis-trans isome... 91 3e-19 gi|300310041|ref|YP_003774133.1| parvulin-like peptidyl-prolyl c... 70 5e-13 >gi|300311549|ref|YP_003775641.1| peptidyl-prolyl cis-trans isomerase D [Herbaspirillum seropedicae SmR1] Length = 639 Score = 1122 bits (2901), Expect = 0.0, Method: Compositional matrix adjust. Identities = 573/628 (91%), Positives = 606/628 (96%) Query: 1 MFDFIRTHQRLMQFLLLLFIFPSFAFFGLEGYSRLTDDSGVAKVAGQTITKEEWDAAHRQ 60 MFDFIRTHQRLMQFLLLLFIFPSFAFFGLEGYSRLTDD+GVAKVAGQTITKEEWDAAHRQ Sbjct: 1 MFDFIRTHQRLMQFLLLLFIFPSFAFFGLEGYSRLTDDNGVAKVAGQTITKEEWDAAHRQ 60 Query: 61 QLERMRQVYGNQFDAKIFDSPQARRAILDNLIAQRALGAEVVANKLVVPDQVLQQSILQI 120 QLERMRQVYGNQFD+KIFDSPQARRAILDNLIAQRALGAEVVA+KLVVPDQVLQQSILQI Sbjct: 61 QLERMRQVYGNQFDSKIFDSPQARRAILDNLIAQRALGAEVVASKLVVPDQVLQQSILQI 120 Query: 121 PGLTKPDGSFDNEQYRVLLAAQGLTPKSYEASLRREMAVQQLNAAIQSTAFAPKTVAENL 180 PGLTK DG FDNEQYRVLLAAQG+TPKSYEA LRREMAVQQLNAAIQ+TAFAPKTVAENL Sbjct: 121 PGLTKADGKFDNEQYRVLLAAQGMTPKSYEAGLRREMAVQQLNAAIQTTAFAPKTVAENL 180 Query: 181 SNLNDQERTVQMLNFKPESYAAQVKISDDMLKAYYDKNGARFETPEQADIEYVVLDAAAV 240 S LNDQERTVQMLNFKP+SYA+QVK+SD+MLK YYDKN ARFETPEQADIEYVVLDAAAV Sbjct: 181 SALNDQERTVQMLNFKPDSYASQVKLSDEMLKDYYDKNSARFETPEQADIEYVVLDAAAV 240 Query: 241 AAQASVTDDDIKSYYEQNQKQYTTEEQRRASHILIAVKKDASAADKAAAKSKAEALVAQL 300 AAQA+VTDDDIK+YYEQN+K Y TEEQRRASHILIAVKKDASAAD+AAAKSKAE LVAQL Sbjct: 241 AAQAAVTDDDIKAYYEQNKKLYATEEQRRASHILIAVKKDASAADQAAAKSKAEGLVAQL 300 Query: 301 RKNPGDFAKLAKADSQDPGSAENGGDLGYFGKGAMVKPFEDAAFSLKQGQISDPVESDFG 360 RKNPG+FAKLAKA+SQDPGSAENGGDLGYFGKGAMVKPFEDAAFSLKQG+ISDPV+SDFG Sbjct: 301 RKNPGEFAKLAKANSQDPGSAENGGDLGYFGKGAMVKPFEDAAFSLKQGEISDPVQSDFG 360 Query: 361 YHIIEVTGIKPAAVKPLDAVKAEIGAEIKKQIAAKKYSEMADQFNNLVYENGDSLKAVSD 420 YHIIEVTGIKPAAVKPL++VKAEIG+EIKKQIAAKKYSEMADQFNNLVYENGDSLKAVSD Sbjct: 361 YHIIEVTGIKPAAVKPLESVKAEIGSEIKKQIAAKKYSEMADQFNNLVYENGDSLKAVSD 420 Query: 421 KLKLKIQTASGVTRTPNPAAGAAPYNNAKFLTALFTDDVIKGKHNSEAVQTAPNTLVAGR 480 KLKLKIQTA+GVTRTPNPAAG PYNNAKFLTALFTDDVIK KHN+EAVQTAPNTLVAGR Sbjct: 421 KLKLKIQTATGVTRTPNPAAGPLPYNNAKFLTALFTDDVIKAKHNTEAVQTAPNTLVAGR 480 Query: 481 MTSYKPVTKRPFDEVKAEVQKDVLAAEEQALAVKAGQERLAQLQAKDDATGFSDPKVVSR 540 +TSYKPVTKRPFDEVKA+VQK VLA +EQ LAVKAGQERLAQLQAKDDA GFS+ KVVSR Sbjct: 481 VTSYKPVTKRPFDEVKADVQKAVLAQQEQLLAVKAGQERLAQLQAKDDAAGFSEAKVVSR 540 Query: 541 VKSEGWTQEAFNAVMKADTAKLPAYAGAETTGLGYQIYRITKVEQPKTVDTARRKAEQEQ 600 VK++GWTQEAFNAVMKADTAKLPAY GAET G+GYQIYRI+KVEQPKTVD ARR+AE+EQ Sbjct: 541 VKADGWTQEAFNAVMKADTAKLPAYVGAETPGMGYQIYRISKVEQPKTVDAARRQAEREQ 600 Query: 601 ITAALSQQEALGYLDYLREKAKTKLLKG 628 I +ALSQQEAL YLDYLREKAKTKLLKG Sbjct: 601 IASALSQQEALSYLDYLREKAKTKLLKG 628 >gi|300311558|ref|YP_003775650.1| peptidyl-prolyl cis-trans isomerase [Herbaspirillum seropedicae SmR1] Length = 258 Score = 90.9 bits (224), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 60/155 (38%), Positives = 93/155 (60%), Gaps = 17/155 (10%) Query: 246 VTDDDIKSYYEQNQKQYTTEEQRRASHILIAVKKDASAADKAAAKSKAEALVAQLRKNPG 305 V+D DIK+ Y++ + Q +++ A HIL+ K+DA EA++A+L+ Sbjct: 111 VSDADIKAEYDKFKAQ-AGDKEYHARHILVDKKEDA------------EAIIAKLKAG-T 156 Query: 306 DFAKLAKADSQDPGSAENGGDLGYFGKGAMVKPFEDAAFSLKQGQIS-DPVESDFGYHII 364 F LAK S+D GSA NGGDL + + VKPF DA +LK+G+++ PV++ FG+H+I Sbjct: 157 KFEDLAK-QSKDTGSAANGGDLDWATPASFVKPFSDAMVALKKGEVTPTPVQTQFGWHVI 215 Query: 365 EVTGIKPAAVKPLDAVKAEIGAEIKKQIAAKKYSE 399 ++ ++PA V LD VK +I AE +Q + Y E Sbjct: 216 KLEDVRPAKVPTLDEVKPQI-AEALQQKKLQAYQE 249 >gi|300310041|ref|YP_003774133.1| parvulin-like peptidyl-prolyl cis-trans isomerase [Herbaspirillum seropedicae SmR1] Length = 496 Score = 70.1 bits (170), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 42/96 (43%), Positives = 54/96 (56%), Gaps = 4/96 (4%) Query: 272 HILIAVKKDASAADKAAAKSKAEALVAQLRKNPGDFAKLAKADSQDPGSAENGGDLGYFG 331 HILI V + +AA+ AK K L +L F +LAK S D SA GGDLG+ Sbjct: 357 HILIKVNQVVTAAE---AKRKLTELKERLDHGSATFEELAKLYSNDL-SASKGGDLGWVY 412 Query: 332 KGAMVKPFEDAAFSLKQGQISDPVESDFGYHIIEVT 367 G V FE A LK G++S P+E+ FGYH+I+V 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 0.128 0.347 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: 1,607,266 Number of extensions: 59164 Number of successful extensions: 217 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 209 Number of HSP's successfully gapped: 4 Length of query: 639 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 548 Effective length of database: 1,188,985 Effective search space: 651563780 Effective search space used: 651563780 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)