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= 0017.0076.p (405 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310328|ref|YP_003774420.1| porin signal peptide protein [H... 717 0.0 gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspir... 270 2e-73 gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) ... 267 9e-73 gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspir... 206 3e-54 gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) ... 158 6e-40 >gi|300310328|ref|YP_003774420.1| porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 405 Score = 717 bits (1852), Expect = 0.0, Method: Compositional matrix adjust. Identities = 354/405 (87%), Positives = 375/405 (92%) Query: 1 MKKSLLALAVLGAFAGAAHAQSSSITIYGAIDASLTYTNKIATDGKKTGSLTAVESGLVK 60 MKKSLLALAVLGAFAGAAHAQSSSITIYGAIDASLTYTNKIATDGK TGSLTAVESGLVK Sbjct: 1 MKKSLLALAVLGAFAGAAHAQSSSITIYGAIDASLTYTNKIATDGKNTGSLTAVESGLVK 60 Query: 61 GSRLGVKGSEDLGGGLKAVFTLENGFNVDTGKAGQGELMWGRQTTVGLSGNFGTVLIGRQ 120 GSRLG+KGSEDLGGGLKAVFTLENGFNVDTG+AGQG+LMWGRQTTVGLSGNFGTVL+GRQ Sbjct: 61 GSRLGIKGSEDLGGGLKAVFTLENGFNVDTGEAGQGKLMWGRQTTVGLSGNFGTVLVGRQ 120 Query: 121 NDPLNDIGGIASAGGFGVPGSVHSKGLDRTDGQRVNNSIRYNSPNFNGLSFSGIYGFGEQ 180 NDPLNDIGGIASAGGFGVPG+VHSKGLDRTDGQR+NNSIRYNSPNFNGLSFSGIYGFGEQ Sbjct: 121 NDPLNDIGGIASAGGFGVPGTVHSKGLDRTDGQRLNNSIRYNSPNFNGLSFSGIYGFGEQ 180 Query: 181 TGKAGGGRSFGLGGQYVNGPLSLGLGYFQSKMGGAKGVPSDVNGDAACNGADNTNKDGDT 240 G+A GGRS GLG QYVNGPLSLGLGYFQSKMGG SDVN AACNGA + GDT Sbjct: 181 VGRAVGGRSIGLGSQYVNGPLSLGLGYFQSKMGGGSDGSSDVNAKAACNGAGEKDHAGDT 240 Query: 241 CLKTWTLAGAYQFGPAKVYGAFSHMKLPLAKQYSKVPKFNKFAAMYNPDTGSGYKPTDSS 300 CLKTWTLA AYQFGPAKVYGAFSH++LPLAK ++KV K N F AMY+ TG+GY P+D++ Sbjct: 241 CLKTWTLAAAYQFGPAKVYGAFSHVRLPLAKLHTKVRKDNNFGAMYDAKTGTGYNPSDAT 300 Query: 301 AFSIGGTNHQSSQTFDIGASYQLMPSLALMSSVQHTRARFVGASSGRLLQFNLGAKYDLS 360 AFSIGG NH+SSQTFDIG SYQLMPSL LMS+VQHTRA+FVGA+SGRLLQ NLGAKYDLS Sbjct: 301 AFSIGGANHKSSQTFDIGMSYQLMPSLTLMSAVQHTRAKFVGAASGRLLQLNLGAKYDLS 360 Query: 361 KRTSAYALVRNLRSSDMYNVGLSKDQEPGIDRSQTAISTGLIHTF 405 KRTSAYALVRNLRSSDMYNVGLSKDQEPGIDRSQTAISTGLIHTF Sbjct: 361 KRTSAYALVRNLRSSDMYNVGLSKDQEPGIDRSQTAISTGLIHTF 405 >gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 387 Score = 270 bits (690), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 178/417 (42%), Positives = 238/417 (57%), Gaps = 42/417 (10%) Query: 1 MKKSLLALAVLGAFAGAAHAQSSSITIYGAIDASLTYTNKI----ATDGKKTGSLTAVES 56 MKKSLLALAVLGA A SS+TIYG +D + Y++K+ A TGS + S Sbjct: 1 MKKSLLALAVLGA-FAGAAQAQSSVTIYGIVDTGIAYSSKVGYTDANGNAATGSKFGINS 59 Query: 57 GLVKGSRLGVKGSEDLGGGLKAVFTLENGFNVDTG-----KAGQGELMWGRQTTVGLSGN 111 G+++GSR+G KG EDLGGGL AVF LE GF D G A ++ R++ VGLSG Sbjct: 60 GVIQGSRIGFKGVEDLGGGLSAVFNLETGFTSDDGGLQGSDAVTSSNLFRRKSVVGLSGG 119 Query: 112 FGTVLIGRQNDPLNDIGGIASAGGFGVPGSVHSKG--LDRTDGQRVNNSIRYNSPNFNGL 169 FGTVL+GRQ D + I + FG G V + G L+R G R NNS+ Y + N +G Sbjct: 120 FGTVLLGRQTDFADTISAYTAVADFG--GVVANSGSSLNRLQGTRTNNSVSYTTANLSGF 177 Query: 170 SFSGIYGFGEQTGKAGGGRSFGLGGQYVNGPLSLGLGYFQSKMGGAKGVPSDVNGDAACN 229 + + IYGFGEQ GK G+++G+GG+Y NGPL LG+ Y+QSK G S + A N Sbjct: 178 TGNLIYGFGEQAGKTSAGQAYGIGGKYDNGPLGLGINYYQSKAGSTPSDTSLIPAAGATN 237 Query: 230 GADNTNKDGDTCLKTWTLAGAYQFGPAKVYGAFSHMKLPLAKQYSKVPKFNKFAAMYNPD 289 G+T LK+ + +YQFGPA+VY +S +K L Sbjct: 238 ANTALGVAGNTALKSLNVVASYQFGPARVYANYSRVKQDLKG------------------ 279 Query: 290 TGSGYKPTDSSAFSIGGTNHQSSQTFDIGASYQLMPSLALMSSVQHTRARFVGASS-GRL 348 PT ++A N Q + T++IG +Y L PSL L+++V H+RA F G ++ G+L Sbjct: 280 -----TPTVATATL---ANAQKADTYEIGTAYSLSPSLKLLAAVDHSRATFNGVNTKGKL 331 Query: 349 LQFNLGAKYDLSKRTSAYALVRNLRSSDMYNVGLSKDQEPGIDRSQTAISTGLIHTF 405 Q +LGA Y LSKRT YA V N+R+SD+ N G++ G D SQTAI TG+ H F Sbjct: 332 TQISLGADYFLSKRTDLYAFVSNMRASDIQNPGVTGG-ATGSDASQTAIITGIRHKF 387 >gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 390 Score = 267 bits (683), Expect = 9e-73, Method: Compositional matrix adjust. Identities = 176/411 (42%), Positives = 243/411 (59%), Gaps = 27/411 (6%) Query: 1 MKKSLLALAVLGAFAGAAHAQSSSITIYGAIDASLTYTNKIATDGKKTGSLTAVESGLVK 60 MKKSLLALAVLGA A SS+TIYG +D + Y +K+AT TGS ++ SG+++ Sbjct: 1 MKKSLLALAVLGA-FAGAAQAQSSVTIYGIVDTGVVYQSKVATPTGGTGSKFSLNSGVIQ 59 Query: 61 GSRLGVKGSEDLGGGLKAVFTLENGFNVDTG---KAGQGELMWGRQTTVGLSGNFGTVLI 117 GSR+G KG+EDLGGGL AVF LE GF+ DTG + ++ R++ VGL+GNFG+VL+ Sbjct: 60 GSRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGLAGNFGSVLL 119 Query: 118 GRQNDPLNDIGGIASAGGFGVPGSVHSKGLDRTDGQRVNNSIRYNSPNFNGLSFSGIYGF 177 GRQ D + I S FG LDR +G R NNSI Y + N NG + + +YGF Sbjct: 120 GRQTDFADTISSYTSVQDFGGWTGAAGHNLDRLEGTRTNNSISYTTANLNGFTGNLMYGF 179 Query: 178 GEQTGKAGGGRSFGLGGQYVNGPLSLGLGYFQSKMGGAKGVPSDVNGDAA--CNGADNTN 235 GE G+ G++FG+GG+Y NGPL LG+ Y+QSK G P+D + AA N N Sbjct: 180 GETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSKAG---STPADASLLAATGTNQFTNGT 236 Query: 236 KDGDTCLKTWTLAGAYQFGPAKVYGAFSHMKLPLAKQYSKVPKFNKFAAMYNPDTGSGYK 295 +G T K +A +YQFGPA+VYG +S +K L Q N AA G G Sbjct: 237 NNGSTAQKVLNVAASYQFGPARVYGNWSRVKQDLNTQA------NLTAA------GVGSL 284 Query: 296 PTDSSAFSIGGTNHQSSQTFDIGASYQLMPSLALMSSVQHTRARFVGAS-SGRLLQFNLG 354 T S+ ++ +N + ++IG +Y L PSL L+++V HTRA+F G S +L Q +LG Sbjct: 285 ATISNR-TLAASNK--ADIYEIGTAYSLSPSLKLLAAVDHTRAQFDGVSGKAKLTQVSLG 341 Query: 355 AKYDLSKRTSAYALVRNLRSSDMYNVGLSKDQEPGIDRSQTAISTGLIHTF 405 Y LSKRT YA + +++D+ N G++ G D +Q A++ G+ H F Sbjct: 342 TDYWLSKRTDLYAFLAYSKATDLNNPGVA--DSSGTDGNQGAVAVGIRHKF 390 >gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 372 Score = 206 bits (524), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 139/392 (35%), Positives = 199/392 (50%), Gaps = 56/392 (14%) Query: 25 ITIYGAIDASLTYTNKIATDGKKTGSLTAVESGLVKGSRLGVKGSEDLGGGLKAVFTLEN 84 +T+YG ID SL YT+K+ D GS +++SG SR+G++G E+LG GL A+F LE Sbjct: 26 VTVYGVIDMSLVYTSKVGPD---NGSRASLDSGDAMASRIGLRGREELGDGLAAIFQLET 82 Query: 85 GFNVDTGKAGQGELMWGRQTTVGLSGNFGTVLIGRQNDPLNDIGGIASA----GGFGVPG 140 GF D G ++ R++ VGL+G FGT+ +GRQ D L +IG ++ GG GV Sbjct: 83 GFAGDDGAMATPGTLFDRKSVVGLAGRFGTLTVGRQTDYLEEIGQQYTSFQIFGGGGVR- 141 Query: 141 SVHSKGLDRTDGQRVNNSIRYNSPNFNGLSFSGIYGFGEQTGKAGGGRSFGLGGQYVNGP 200 + H LDR G R NNS+R+++ + GL S YG GE G G+S G+GG + G Sbjct: 142 AAHFNSLDRITGARSNNSLRFDTAEYGGLRGSFYYGAGEVAGSTRSGQSLGVGGNFRRGN 201 Query: 201 LSLGLGYFQSKMGGAKGVPSDVNGDAACNGADNTNKDGDTCLKTWTLAGAYQFGPAKVYG 260 + +G YFQSK+ + +P+ + GDT LKT+TL +YQ GPAK++ Sbjct: 202 VGVGAAYFQSKL-ASDALPA---------------RAGDTELKTFTLGASYQAGPAKLFA 245 Query: 261 AFSHMKLPLAKQYSKVPKFNKFAAMYNPDTGSGYKPTDSSAFSIGGTNHQSSQTFDIGAS 320 A+S ++ P +P SS + T+ + D+G Sbjct: 246 AWSQIRRPTQ------------------------QPLASSGL-VAITSATRANVLDVGVD 280 Query: 321 YQLMPSLALMSSVQHTRARFV----GASSGRLLQFNLGAKYDLSKRTSAYALVRNLRSSD 376 Y L L L++SV H RA GA+ G Q NLG LSKRT YA+ ++ D Sbjct: 281 YALDSKLHLLASVIHDRADLSRAAGGATRGSTTQVNLGVDLLLSKRTDVYAMASRQQARD 340 Query: 377 MYNVGL---SKDQEPGIDRSQTAISTGLIHTF 405 + N G+ + P D SQ + GL H F Sbjct: 341 VLNPGIISAAYSSAPADDSSQNVLRVGLRHKF 372 >gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 158 bits (400), Expect = 6e-40, Method: Compositional matrix adjust. Identities = 117/287 (40%), Positives = 153/287 (53%), Gaps = 36/287 (12%) Query: 1 MKKSLLALAVLGAFAGAAHAQSSSITIYGAIDASLTYTNKIATDGKKTGSLTAVESGLVK 60 MKK+LL A+L A AHAQSS ++IYG ID LTY + G L ++SG+ + Sbjct: 1 MKKTLLVAAMLAGGATTAHAQSS-VSIYGLIDLGLTYYSSAPKSGGGGARLLRMDSGIAQ 59 Query: 61 GSRLGVKGSEDLGGGLKAVFTLENGFNVDTGKAGQGELMWGRQTTVGL-SGNFGTVLIGR 119 GSR+G KG+EDLGGG+ A FTLE GF D G GQG L++GRQ+ VGL S +G++ +GR Sbjct: 60 GSRIGFKGTEDLGGGMNAFFTLETGFGADDGSLGQGGLLFGRQSFVGLGSTQWGSLSVGR 119 Query: 120 QNDPLNDIGG------IASAGGFGV---PGSVHSKGLDRT--DGQRVNNSIRYNSPNFNG 168 Q D + +IGG ++ AG FG + H L+ G R NNSI+YNS F G Sbjct: 120 QYDFMANIGGQYAMGALSPAGSFGWGLHADAAHGTALNNHIYAGDRTNNSIKYNSAKFGG 179 Query: 169 LSFSGIYGFGEQTGKAGGGRSFGLGGQYVNGPLSLGLGY---------FQSKM--GGAK- 216 SF + G GE G GR+ GQY NGP S L Y F +++ GGA+ Sbjct: 180 FSFGAMVGLGETAGNNNAGRTVSATGQYDNGPFSGALAYTDIKDSTGSFSTRIYGGGARY 239 Query: 217 --------GVPSDVNGDAACNGADNTNKDGDTCLKT--WTLAGAYQF 253 GV + V + + T + G T W LA AYQF Sbjct: 240 QIGAFTPFGVVTQVK-NTNTSAKATTYELGTVYALTPLWDLAAAYQF 285 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 0.314 0.133 0.385 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: 1,314,896 Number of extensions: 63654 Number of successful extensions: 191 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 149 Number of HSP's successfully gapped: 14 Length of query: 405 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 318 Effective length of database: 1,207,925 Effective search space: 384120150 Effective search space used: 384120150 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: 132 (55.5 bits)