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= 0001.4150.p (422 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspir... 534 e-153 gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) ... 524 e-150 gi|300310328|ref|YP_003774420.1| porin signal peptide protein [H... 301 7e-83 gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspir... 251 5e-68 gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) ... 167 2e-42 >gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 387 Score = 534 bits (1375), Expect = e-153, Method: Compositional matrix adjust. Identities = 298/426 (69%), Positives = 334/426 (78%), Gaps = 43/426 (10%) Query: 1 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTGITYTSKA----ATGTGTNTGSKFAVNS 56 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTGI Y+SK A G TGSKF +NS Sbjct: 1 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTGIAYSSKVGYTDANGNAA-TGSKFGINS 59 Query: 57 GNIQGSRIGFKGVEDLGGGLSAVFNLETGFTNDNGGLQGSDAVTGSNLFRRKSVVGLSGG 116 G IQGSRIGFKGVEDLGGGLSAVFNLETGFT+D+GGLQGSDAVT SNLFRRKSVVGLSGG Sbjct: 60 GVIQGSRIGFKGVEDLGGGLSAVFNLETGFTSDDGGLQGSDAVTSSNLFRRKSVVGLSGG 119 Query: 117 FGTVLLGRQTDFADTISAYTSVNDFGGLTGNVGHNLNRLEGTRTNNSISYTTANLNGFTG 176 FGTVLLGRQTDFADTISAYT+V DFGG+ N G +LNRL+GTRTNNS+SYTTANL+GFTG Sbjct: 120 FGTVLLGRQTDFADTISAYTAVADFGGVVANSGSSLNRLQGTRTNNSVSYTTANLSGFTG 179 Query: 177 NLIYGFGETAGKTSAGQSFGLGAKYDNGPLGLGANYYQSKQGTTPSDTALIQGVAPAASA 236 NLIYGFGE AGKTSAGQ++G+G KYDNGPLGLG NYYQSK G+TPSDT+LI + Sbjct: 180 NLIYGFGEQAGKTSAGQAYGIGGKYDNGPLGLGINYYQSKAGSTPSDTSLIPAAGATNAN 239 Query: 237 SATALADYTIATGQNSANAGNTALKVFNLVASYQFGPARVYGNWSRVKQDLNTAANVAAL 296 +A + AGNTALK N+VASYQFGPARVY N+SRVKQDL V Sbjct: 240 TALGV-------------AGNTALKSLNVVASYQFGPARVYANYSRVKQDLKGTPTV--- 283 Query: 297 RSTVATGSTIAVASPLTAANRAAAATLGLATKADIYELGTAYSLSPSLKLLAAVEYTTAS 356 A ATL A KAD YE+GTAYSLSPSLKLLAAV+++ A+ Sbjct: 284 ----------------------ATATLANAQKADTYEIGTAYSLSPSLKLLAAVDHSRAT 321 Query: 357 FDGLNGKGKLTQYNLGADYWLSKRTDLYAFVNNLRAKDMKNPGVFGDSTGSDASQTAVTV 416 F+G+N KGKLTQ +LGADY+LSKRTDLYAFV+N+RA D++NPGV G +TGSDASQTA+ Sbjct: 322 FNGVNTKGKLTQISLGADYFLSKRTDLYAFVSNMRASDIQNPGVTGGATGSDASQTAIIT 381 Query: 417 GVRHKF 422 G+RHKF Sbjct: 382 GIRHKF 387 >gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 390 Score = 524 bits (1350), Expect = e-150, Method: Compositional matrix adjust. Identities = 294/422 (69%), Positives = 332/422 (78%), Gaps = 32/422 (7%) Query: 1 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTGITYTSKAATGTGTNTGSKFAVNSGNIQ 60 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTG+ Y SK AT TG TGSKF++NSG IQ Sbjct: 1 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTGVVYQSKVATPTG-GTGSKFSLNSGVIQ 59 Query: 61 GSRIGFKGVEDLGGGLSAVFNLETGFTNDNGGLQGSDAVTGSNLFRRKSVVGLSGGFGTV 120 GSRIGFKG EDLGGGLSAVFNLE GF+ND G L D+ T + LFRRKSVVGL+G FG+V Sbjct: 60 GSRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALD--DSKTSNTLFRRKSVVGLAGNFGSV 117 Query: 121 LLGRQTDFADTISAYTSVNDFGGLTGNVGHNLNRLEGTRTNNSISYTTANLNGFTGNLIY 180 LLGRQTDFADTIS+YTSV DFGG TG GHNL+RLEGTRTNNSISYTTANLNGFTGNL+Y Sbjct: 118 LLGRQTDFADTISSYTSVQDFGGWTGAAGHNLDRLEGTRTNNSISYTTANLNGFTGNLMY 177 Query: 181 GFGETAGKTSAGQSFGLGAKYDNGPLGLGANYYQSKQGTTPSDTALIQGVAPAASASATA 240 GFGETAG+TSAGQ+FG+G KYDNGPLGLG NYYQSK G+TP+D +L+ +AT Sbjct: 178 GFGETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSKAGSTPADASLL---------AATG 228 Query: 241 LADYTIATGQNSANAGNTALKVFNLVASYQFGPARVYGNWSRVKQDLNTAANVAALRSTV 300 +T N N G+TA KV N+ ASYQFGPARVYGNWSRVKQDLNT AN+ A Sbjct: 229 TNQFT-----NGTNNGSTAQKVLNVAASYQFGPARVYGNWSRVKQDLNTQANLTA----- 278 Query: 301 ATGSTIAVASPLTAANRAAAATLGLATKADIYELGTAYSLSPSLKLLAAVEYTTASFDGL 360 V S T +NR TL + KADIYE+GTAYSLSPSLKLLAAV++T A FDG+ Sbjct: 279 -----AGVGSLATISNR----TLAASNKADIYEIGTAYSLSPSLKLLAAVDHTRAQFDGV 329 Query: 361 NGKGKLTQYNLGADYWLSKRTDLYAFVNNLRAKDMKNPGVFGDSTGSDASQTAVTVGVRH 420 +GK KLTQ +LG DYWLSKRTDLYAF+ +A D+ NPGV DS+G+D +Q AV VG+RH Sbjct: 330 SGKAKLTQVSLGTDYWLSKRTDLYAFLAYSKATDLNNPGV-ADSSGTDGNQGAVAVGIRH 388 Query: 421 KF 422 KF Sbjct: 389 KF 390 >gi|300310328|ref|YP_003774420.1| porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 405 Score = 301 bits (771), Expect = 7e-83, Method: Compositional matrix adjust. Identities = 198/436 (45%), Positives = 255/436 (58%), Gaps = 45/436 (10%) Query: 1 MKKSLLALAVLGAFAGAAQAQSS-VTIYGIVDTGITYTSKAATGTGTNTGSKFAVNSGNI 59 MKKSLLALAVLGAFAGAA AQSS +TIYG +D +TYT+K AT G NTGS AV SG + Sbjct: 1 MKKSLLALAVLGAFAGAAHAQSSSITIYGAIDASLTYTNKIAT-DGKNTGSLTAVESGLV 59 Query: 60 QGSRIGFKGVEDLGGGLSAVFNLETGFTNDNGGLQGSDAVTGSNLFRRKSVVGLSGGFGT 119 +GSR+G KG EDLGGGL AVF LE GF D G +A G ++ R++ VGLSG FGT Sbjct: 60 KGSRLGIKGSEDLGGGLKAVFTLENGFNVDTG-----EAGQGKLMWGRQTTVGLSGNFGT 114 Query: 120 VLLGRQTDFADTISAYTSVNDFGGLTGNV-GHNLNRLEGTRTNNSISYTTANLNGFTGNL 178 VL+GRQ D + I S FG + G V L+R +G R NNSI Y + N NG + + Sbjct: 115 VLVGRQNDPLNDIGGIASAGGFG-VPGTVHSKGLDRTDGQRLNNSIRYNSPNFNGLSFSG 173 Query: 179 IYGFGETAGKTSAGQSFGLGAKYDNGPLGLGANYYQSKQGTTPSDTALIQGVAPAASASA 238 IYGFGE G+ G+S GLG++Y NGPL LG Y+QSK G ++ + A A Sbjct: 174 IYGFGEQVGRAVGGRSIGLGSQYVNGPLSLGLGYFQSKMGGGSDGSSDVNAKAACNGAG- 232 Query: 239 TALADYTIATGQNSANAGNTALKVFNLVASYQFGPARVYGNWS-----------RVKQDL 287 +AG+T LK + L A+YQFGPA+VYG +S +V++D Sbjct: 233 ------------EKDHAGDTCLKTWTLAAAYQFGPAKVYGAFSHVRLPLAKLHTKVRKDN 280 Query: 288 NTAANVAALRSTVATGSTIAVASPLTAANRAAAATLGLATKADIYELGTAYSLSPSLKLL 347 N A A ++ + A A + AN ++ T +++G +Y L PSL L+ Sbjct: 281 NFGAMYDA-KTGTGYNPSDATAFSIGGANHKSSQT---------FDIGMSYQLMPSLTLM 330 Query: 348 AAVEYTTASFDGLNGKGKLTQYNLGADYWLSKRTDLYAFVNNLRAKDMKNPGVFGD-STG 406 +AV++T A F G G+L Q NLGA Y LSKRT YA V NLR+ DM N G+ D G Sbjct: 331 SAVQHTRAKFVGA-ASGRLLQLNLGAKYDLSKRTSAYALVRNLRSSDMYNVGLSKDQEPG 389 Query: 407 SDASQTAVTVGVRHKF 422 D SQTA++ G+ H F Sbjct: 390 IDRSQTAISTGLIHTF 405 >gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 372 Score = 251 bits (642), Expect = 5e-68, Method: Compositional matrix adjust. Identities = 154/409 (37%), Positives = 223/409 (54%), Gaps = 72/409 (17%) Query: 24 VTIYGIVDTGITYTSKAATGTGTNTGSKFAVNSGNIQGSRIGFKGVEDLGGGLSAVFNLE 83 VT+YG++D + YTSK G + GS+ +++SG+ SRIG +G E+LG GL+A+F LE Sbjct: 26 VTVYGVIDMSLVYTSK----VGPDNGSRASLDSGDAMASRIGLRGREELGDGLAAIFQLE 81 Query: 84 TGFTNDNGGLQGSDAVTGSNLFRRKSVVGLSGGFGTVLLGRQTDFADTI-SAYTSVNDFG 142 TGF D+G + T LF RKSVVGL+G FGT+ +GRQTD+ + I YTS FG Sbjct: 82 TGFAGDDGAM-----ATPGTLFDRKSVVGLAGRFGTLTVGRQTDYLEEIGQQYTSFQIFG 136 Query: 143 GLTGNVGH--NLNRLEGTRTNNSISYTTANLNGFTGNLIYGFGETAGKTSAGQSFGLGAK 200 G H +L+R+ G R+NNS+ + TA G G+ YG GE AG T +GQS G+G Sbjct: 137 GGGVRAAHFNSLDRITGARSNNSLRFDTAEYGGLRGSFYYGAGEVAGSTRSGQSLGVGGN 196 Query: 201 YDNGPLGLGANYYQSKQGTTPSDTALIQGVAPAASASATALADYTIATGQNSANAGNTAL 260 + G +G+GA Y+QSK +A+ A AG+T L Sbjct: 197 FRRGNVGVGAAYFQSK-----------------------------LASDALPARAGDTEL 227 Query: 261 KVFNLVASYQFGPARVYGNWSRVKQDLNTAANVAALRSTVATGSTIAVASPLTAANRAAA 320 K F L ASYQ GPA+++ WS++++ + +A+ +A+ S Sbjct: 228 KTFTLGASYQAGPAKLFAAWSQIRR---------PTQQPLASSGLVAITS---------- 268 Query: 321 ATLGLATKADIYELGTAYSLSPSLKLLAAVEYTTASFDGLNG---KGKLTQYNLGADYWL 377 AT+A++ ++G Y+L L LLA+V + A G +G TQ NLG D L Sbjct: 269 -----ATRANVLDVGVDYALDSKLHLLASVIHDRADLSRAAGGATRGSTTQVNLGVDLLL 323 Query: 378 SKRTDLYAFVNNLRAKDMKNPGV----FGDSTGSDASQTAVTVGVRHKF 422 SKRTD+YA + +A+D+ NPG+ + + D+SQ + VG+RHKF Sbjct: 324 SKRTDVYAMASRQQARDVLNPGIISAAYSSAPADDSSQNVLRVGLRHKF 372 >gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 167 bits (423), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 151/435 (34%), Positives = 199/435 (45%), Gaps = 96/435 (22%) Query: 1 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTGITYTSKAATGTGTNTGSKFAVNSGNIQ 60 MKK+LL A+L A A AQSSV+IYG++D G+TY S A +G ++SG Q Sbjct: 1 MKKTLLVAAMLAGGATTAHAQSSVSIYGLIDLGLTYYSSAPK-SGGGGARLLRMDSGIAQ 59 Query: 61 GSRIGFKGVEDLGGGLSAVFNLETGFTNDNGGLQGSDAVTGSNLFRRKSVVGL-SGGFGT 119 GSRIGFKG EDLGGG++A F LETGF D+G L G LF R+S VGL S +G+ Sbjct: 60 GSRIGFKGTEDLGGGMNAFFTLETGFGADDGSLG-----QGGLLFGRQSFVGLGSTQWGS 114 Query: 120 VLLGRQTDFADTIS------AYTSVNDFG-GLTGNVGH----NLNRLEGTRTNNSISYTT 168 + +GRQ DF I A + FG GL + H N + G RTNNSI Y + Sbjct: 115 LSVGRQYDFMANIGGQYAMGALSPAGSFGWGLHADAAHGTALNNHIYAGDRTNNSIKYNS 174 Query: 169 ANLNGFTGNLIYGFGETAGKTSAGQSFGLGAKYDNGPLGLGANYYQSKQGTTPSDTALIQ 228 A GF+ + G GETAG +AG++ +YDNGP Sbjct: 175 AKFGGFSFGAMVGLGETAGNNNAGRTVSATGQYDNGPF---------------------- 212 Query: 229 GVAPAASASATALADYTIATGQNSANAGNTALKVFNLVASYQFGPARVYGNWSRVKQDLN 288 + A A D +TG S +++ A YQ G +G ++VK + N Sbjct: 213 -------SGALAYTDIKDSTGSFST-------RIYGGGARYQIGAFTPFGVVTQVK-NTN 257 Query: 289 TAANVAALRSTVATGSTIAVASPLTAANRAAAATLGLATKADIYELGTAYSLSPSLKLLA 348 T+A KA YELGT Y+L+P L A Sbjct: 258 TSA------------------------------------KATTYELGTVYALTPLWDLAA 281 Query: 349 AVEYTTASFDGLNGKGKLTQYNLGADYWLSKRTDLYAFVNNLRAKDMKNPGVFGDSTGS- 407 A ++ + G G DY +SKRTDLY R K VFG S Sbjct: 282 AYQFQKRN----QGVGNAQALVATVDYKISKRTDLYVGAVYDRDKGYNAYPVFGGGIQSA 337 Query: 408 DASQTAVTVGVRHKF 422 +QTA+ +G+RH+F Sbjct: 338 TGNQTALRLGMRHRF 352 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 0.360 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: 1,169,416 Number of extensions: 49436 Number of successful extensions: 249 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 193 Number of HSP's successfully gapped: 16 Length of query: 422 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 334 Effective length of database: 1,203,190 Effective search space: 401865460 Effective search space used: 401865460 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)