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= 0022.0195.p (298 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313785|ref|YP_003777877.1| autotransporter adhesin protein... 479 e-136 gi|300312345|ref|YP_003776437.1| cell wall surface anchor protei... 102 5e-23 gi|300310420|ref|YP_003774512.1| inner membrane protein [Herbasp... 76 4e-15 gi|300310421|ref|YP_003774513.1| hypothetical protein Hsero_1088... 55 8e-09 >gi|300313785|ref|YP_003777877.1| autotransporter adhesin protein [Herbaspirillum seropedicae SmR1] Length = 3631 Score = 479 bits (1232), Expect = e-136, Method: Compositional matrix adjust. Identities = 244/251 (97%), Positives = 245/251 (97%) Query: 1 VISRKNDSSEWFREAPSSQPAQTPDTVGAWVALNRGASQVADDLLRNNGVSAHQSRLDGV 60 VISRKNDSSEWFREAPSSQPAQTP+TVGAWVALNRGASQVADDLLRNNGVS HQSRLDGV Sbjct: 2525 VISRKNDSSEWFREAPSSQPAQTPETVGAWVALNRGASQVADDLLRNNGVSTHQSRLDGV 2584 Query: 61 NVLNANGARDAAWRYQLKQVDAQGRISEATDLKLRMVTTAPSLLDLDAFTDGVQASRSIV 120 NVLNANGARDAAWRYQLKQVDAQGRISEA DLKLRMVTTAPSLLDLDAFTDGVQASRSIV Sbjct: 2585 NVLNANGARDAAWRYQLKQVDAQGRISEAADLKLRMVTTAPSLLDLDAFTDGVQASRSIV 2644 Query: 121 VSNADVSSASGVALMPQVATPKASDIRFIELVSDNAGASPVDSLLLDRAVGINNNLAQVD 180 VSNADVSSASGVALMPQVATPKASDIRFIELVSDNAGASPVDSLLLDRAVGINNNLAQVD Sbjct: 2645 VSNADVSSASGVALMPQVATPKASDIRFIELVSDNAGASPVDSLLLDRAVGINNNLAQVD 2704 Query: 181 NRSIGGVTGLSYKVSTVANKSTVTLTKTDGSAFTGDEARNVLQSLRLQNLSLDTGKKSRS 240 NRSIGGVTGLSYKVSTVA KSTVTLTKTDGSAFTGDEARNVLQSLRLQNL DTGKKSRS Sbjct: 2705 NRSIGGVTGLSYKVSTVAKKSTVTLTKTDGSAFTGDEARNVLQSLRLQNLGFDTGKKSRS 2764 Query: 241 VDISLGDGSGQ 251 VDISLGDGSG Sbjct: 2765 VDISLGDGSGH 2775 >gi|300312345|ref|YP_003776437.1| cell wall surface anchor protein [Herbaspirillum seropedicae SmR1] Length = 7175 Score = 102 bits (253), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 80/253 (31%), Positives = 132/253 (52%), Gaps = 16/253 (6%) Query: 1 VISRKNDSSEWFREAPSSQP-AQTPDTVGAWVALNRGASQVADDLLRNNGVSAHQSRLDG 59 +I+++ ++ EW+ + P Q P+ V +W SQ+ + +N G S+ Q+ G Sbjct: 6080 MIAQQGNAKEWYFQWNVGAPQIQQPEDVSSWGLATMSFSQIQIEAQQNGGQSSGQTLQPG 6139 Query: 60 VNVLNANGARDAAWRYQLKQVDAQGRISEATDLKLRMVTTAPSLLDLDAFTDGVQASRSI 119 V+N+NG R W Y ++Q D G +S + + T AP LDLDA Q + Sbjct: 6140 ATVINSNGTRTRTWTYWVEQTDLAGNLSPRATFNVLVETAAPPTLDLDAAVARTQTTALR 6199 Query: 120 VVSNADVSSASGVALMPQVATPKASDIRFIELVSDNAGASPVDSLLLDR-----AVGINN 174 SN+++ +G A + VA P + I++V P + DR V ++ Sbjct: 6200 QSSNSELR--AGTAFLADVAAPLKNSTTTIKVVF----GGPELRVADDRLLLDALVALDQ 6253 Query: 175 NLAQVDNRSIGGVTGLSYKVSTVANKSTVTLTKTDGSAFTGDEARNVLQSLRLQNLSLDT 234 NLA V +++GGV +SY V T A + T++LTKT G FTG E ++++++LQN++ Sbjct: 6254 NLAPVKGKTVGGVNDVSY-VYTAATR-TLSLTKTLGGTFTGQEVEAIVENIKLQNVAPTP 6311 Query: 235 GKKSRSVDISLGD 247 G+ R++DISL D Sbjct: 6312 GR--RTIDISLVD 6322 Score = 73.6 bits (179), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 49/139 (35%), Positives = 81/139 (58%), Gaps = 4/139 (2%) Query: 103 LLDLDAFTDGVQASRSIVVSNADVSSASGVALMPQVATPKASDIRFIELVSDNAGASP-V 161 L+DLD T G Q + + +V++A V +A GVA V P A+ R + + AG +P Sbjct: 6343 LIDLDPKTTGAQLAATQIVTDAAVLAA-GVAFDANVGAPSATTARLLRVSLGGAGLNPKS 6401 Query: 162 DSLLLDRAVGINNNLAQVDNRSIGGVTGLSYKVSTVANKSTVTLTKTDGSAFTGDEARNV 221 D L+LD + ++ +LA V R++ G+TGLSY A T+ + KTDGS +G + +++ Sbjct: 6402 DKLMLDTPLDLSASLATVSGRTVAGITGLSYTYD--AASRTLDIAKTDGSTLSGSQVQSL 6459 Query: 222 LQSLRLQNLSLDTGKKSRS 240 +QS++L +L G ++ S Sbjct: 6460 VQSIKLGGAALGDGVRTAS 6478 Score = 65.5 bits (158), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 49/151 (32%), Positives = 83/151 (54%), Gaps = 6/151 (3%) Query: 96 MVTTAPSLLDLDAFTDGVQASRSIVVSNADVSSASGVALMPQ-VATPKASDIRFIELVSD 154 MV T L+DLD GVQ S S +S A + +G +L PQ +A+DI I+L Sbjct: 6497 MVDTRAPLVDLDGALPGVQNSASKSISAA--RATAGESLFPQETVVQQANDIVSIKLAMS 6554 Query: 155 NAGASPV-DSLLLDRAVGINNNLAQVDNRSIGGVTGLSYKVSTVANKSTVTLTKTDGSAF 213 A D L+LD+ + +N + + NR +GGV GLSY + T++++KT G+A Sbjct: 6555 GAALDLARDKLVLDQPLDLNTSATTIGNRVVGGVAGLSYGYDDASR--TLSISKTAGTAM 6612 Query: 214 TGDEARNVLQSLRLQNLSLDTGKKSRSVDIS 244 T DE +++++++ +N + G + S+ ++ Sbjct: 6613 TSDEVSSIVKAIQFKNAAPQAGDRLASLTLT 6643 >gi|300310420|ref|YP_003774512.1| inner membrane protein [Herbaspirillum seropedicae SmR1] Length = 1882 Score = 75.9 bits (185), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 70/241 (29%), Positives = 123/241 (51%), Gaps = 17/241 (7%) Query: 2 ISRKNDSSEWFREAPSSQPAQTPDTVG--AWVALNRGASQVADDLLRNNGVSAHQSRLDG 59 IS+ + + EW+R A S+ P Q+ G +W A++ A Q+A + L++ +H +LD Sbjct: 267 ISKLSGTEEWYR-ADSAYPGQSSPRYGQQSWSAVDISAKQLALEELKSETERSHLKKLDK 325 Query: 60 VNVLNANGARDAA-WRYQLKQVDAQGRISEATDLKLRMVTTAPSLLDLDAFTDGVQASRS 118 V +L G D + + + Q D G I++ L + TTAP +D++ DGV RS Sbjct: 326 V-LLEDTGFEDVSRVIFDITQEDIAGNINQNGSAHLYVKTTAPIQIDMNGNDDGV--GRS 382 Query: 119 IVVSNADVSSASGVALMPQVATPKASDIRFI-ELVSDNAGAS---PVDSLLLDRAVGINN 174 V++A + + GVA P V+ P +D I E+ G S P D ++LD N Sbjct: 383 TKVTSAMLRN--GVAFAPDVSFPSNADHHAIDEIWVSFRGRSQDLPGDQIVLDGEWSRNQ 440 Query: 175 NLAQVDNRSIGGVTGLSYKVSTVANKSTVTLTKTDGSA----FTGDEARNVLQSLRLQNL 230 ++A V+ ++IG V+ ++Y + + LTK D F+ EA ++++++ ++ Sbjct: 441 DIAPVNGKTIGSVSWVNYSYNKGFYDGQLRLTKNDLETGRKYFSKAEAEEIIENIKFKST 500 Query: 231 S 231 S Sbjct: 501 S 501 Score = 62.0 bits (149), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 66/253 (26%), Positives = 116/253 (45%), Gaps = 25/253 (9%) Query: 2 ISRKNDSSEWF-REAPSSQPAQTPDTVGAWVALNRGASQVADDLLRNNGVSAHQSRLDGV 60 ISR S EWF RE + + G+W + + A Q+ + + +G +H+ + G Sbjct: 779 ISRTQGSDEWFLREGSNDYWPR----WGSWYSSDLTALQLQAEPVLEDGTRSHRQKQKGG 834 Query: 61 NVLNANGARDAAWRYQLKQVDAQGRISEATD--LKLRMVTTAPSLLDLDAFTDGVQASRS 118 DA R +++Q+D SE + L TT+ LD+D T G Q++ + Sbjct: 835 FGEEHGFPADAEGRVRVQQIDIADNFSEVAESPYYLEAKTTSRRPLDIDLSTPGFQSTVA 894 Query: 119 IVVSNADVSSASGVALMP--------QVATPKASDIRFIELVSDNAGASPVDSLLLDRAV 170 + +D+ G A +P + P+A +F D A D LLLD + Sbjct: 895 HYATVSDL--ILGAAFVPDADKLFINTYSYPRALLFQFSGSGLDIAK----DRLLLDEGI 948 Query: 171 GINNNLAQVDNRSIGGVTGLSYKVSTVANKSTVTLTKTDGSAFTGD--EARNVLQSLRLQ 228 ++ ++A R+IGGVTG+ Y A+ T+T+ F + E ++++++LQ Sbjct: 949 SLDKDIAMRFGRTIGGVTGVDYSFD--ADSKTLTIEGYSSRVFPPELKELGAIIKAIKLQ 1006 Query: 229 NLSLDTGKKSRSV 241 N TG+++ +V Sbjct: 1007 NPESQTGERTMTV 1019 >gi|300310421|ref|YP_003774513.1| hypothetical protein Hsero_1088 [Herbaspirillum seropedicae SmR1] Length = 8016 Score = 54.7 bits (130), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 46/142 (32%), Positives = 71/142 (50%), Gaps = 8/142 (5%) Query: 1 VISRKNDSSEWFRE--APSSQPAQTPDTVGAWVALNRGASQVADDLLRNNGVSAHQSRLD 58 +ISR + S EW+++ A Q + V +W A + A+Q+ L NG S + L Sbjct: 6892 IISRDSGSDEWYQQPIAHGDYGTQAANRVTSWHANSATANQLQVQQLLGNGSSPNSRLLG 6951 Query: 59 GVNVLNANGARDAAWRYQLKQVDAQGRIS-EATDLKL-----RMVTTAPSLLDLDAFTDG 112 GV +++A+ +RY L+Q D G ++ + T L L T AP DLD T G Sbjct: 6952 GVEIISAHANASPDFRYYLQQTDVAGNVTIDRTGLGLINTGRSQTTIAPLAADLDRNTKG 7011 Query: 113 VQASRSIVVSNADVSSASGVAL 134 VQ S+ V S A++ + GV + Sbjct: 7012 VQTSQLHVKSYAELLARGGVTI 7033 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 0.312 0.129 0.362 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: 870,666 Number of extensions: 31860 Number of successful extensions: 135 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 127 Number of HSP's successfully gapped: 8 Length of query: 298 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 213 Effective length of database: 1,217,395 Effective search space: 259305135 Effective search space used: 259305135 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: 130 (54.7 bits)