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= 0001.1147.p (352 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) ... 602 e-173 gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) ... 179 4e-46 gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspir... 172 5e-44 gi|300310328|ref|YP_003774420.1| porin signal peptide protein [H... 170 2e-43 gi|300313395|ref|YP_003777487.1| porin transmembrane protein [He... 147 1e-36 >gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 602 bits (1551), Expect = e-173, Method: Compositional matrix adjust. Identities = 299/352 (84%), Positives = 316/352 (89%) Query: 1 MKKKLWVAAMLAAGTGMAHAQSSVSIYGLIDLGLTYYSNAAKSGGGGASLVRMDSGIAQG 60 MKK L VAAMLA G AHAQSSVSIYGLIDLGLTYYS+A KSGGGGA L+RMDSGIAQG Sbjct: 1 MKKTLLVAAMLAGGATTAHAQSSVSIYGLIDLGLTYYSSAPKSGGGGARLLRMDSGIAQG 60 Query: 61 SRIGFKGSEDLGGGMNAFFTLETGFGADDGSLGQGGLLFGRQSFVGLGSKDWGAISLGRQ 120 SRIGFKG+EDLGGGMNAFFTLETGFGADDGSLGQGGLLFGRQSFVGLGS WG++S+GRQ Sbjct: 61 SRIGFKGTEDLGGGMNAFFTLETGFGADDGSLGQGGLLFGRQSFVGLGSTQWGSLSVGRQ 120 Query: 121 YDFMSNIGAQYAMGALSPAGSLAWGLHADAAHGTALNDHIYGGDRTNNSIKYNSVKFSGF 180 YDFM+NIG QYAMGALSPAGS WGLHADAAHGTALN+HIY GDRTNNSIKYNS KF GF Sbjct: 121 YDFMANIGGQYAMGALSPAGSFGWGLHADAAHGTALNNHIYAGDRTNNSIKYNSAKFGGF 180 Query: 181 SFGAMYGFGEVAGNTTASRTISATGQYDNGGFSSALAYTDIKDATGSSSTRIYGIGARYQ 240 SFGAM G GE AGN A RT+SATGQYDNG FS ALAYTDIKD+TGS STRIYG GARYQ Sbjct: 181 SFGAMVGLGETAGNNNAGRTVSATGQYDNGPFSGALAYTDIKDSTGSFSTRIYGGGARYQ 240 Query: 241 IGAFTPFGVITQAKNTATSAKATTYELGTVYALTPLWDLSAAYQYQNRNLGVGKAQAFIA 300 IGAFTPFGV+TQ KNT TSAKATTYELGTVYALTPLWDL+AAYQ+Q RN GVG AQA +A Sbjct: 241 IGAFTPFGVVTQVKNTNTSAKATTYELGTVYALTPLWDLAAAYQFQKRNQGVGNAQALVA 300 Query: 301 MADYKISKRTDLYVGAVYDRDKGYNAFPVFGGGAQSSMGNQTAVRLGMRHRF 352 DYKISKRTDLYVGAVYDRDKGYNA+PVFGGG QS+ GNQTA+RLGMRHRF Sbjct: 301 TVDYKISKRTDLYVGAVYDRDKGYNAYPVFGGGIQSATGNQTALRLGMRHRF 352 >gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 390 Score = 179 bits (453), Expect = 4e-46, Method: Compositional matrix adjust. Identities = 147/404 (36%), Positives = 194/404 (48%), Gaps = 66/404 (16%) Query: 1 MKKKLWVAAMLAAGTGMAHAQSSVSIYGLIDLGLTYYSNAAKSGGGGASLVRMDSGIAQG 60 MKK L A+L A G A AQSSV+IYG++D G+ Y S A GG S ++SG+ QG Sbjct: 1 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTGVVYQSKVATPTGGTGSKFSLNSGVIQG 60 Query: 61 SRIGFKGSEDLGGGMNAFFTLETGFGADDGSLGQ---GGLLFGRQSFVGLGSKDWGAISL 117 SRIGFKG+EDLGGG++A F LE GF D G+L LF R+S VGL + ++G++ L Sbjct: 61 SRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGL-AGNFGSVLL 119 Query: 118 GRQYDFMSNIGAQYAMGALSPAGSLAWGLHADAAHGTALNDHIYGGDRTNNSIKYNSVKF 177 GRQ DF I + ++ G A H N G RTNNSI Y + Sbjct: 120 GRQTDFADTISSYTSVQDFG-------GWTGAAGH----NLDRLEGTRTNNSISYTTANL 168 Query: 178 SGFSFGAMYGFGEVAGNTTASRTISATGQYDNGGFSSALAYTDIK------DAT------ 225 +GF+ MYGFGE AG T+A + G+YDNG + Y K DA+ Sbjct: 169 NGFTGNLMYGFGETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSKAGSTPADASLLAATG 228 Query: 226 ----------GSSSTRIYGIGARYQIGAFTPFG--------VITQAKNT----------- 256 GS++ ++ + A YQ G +G + TQA T Sbjct: 229 TNQFTNGTNNGSTAQKVLNVAASYQFGPARVYGNWSRVKQDLNTQANLTAAGVGSLATIS 288 Query: 257 ----ATSAKATTYELGTVYALTPLWDLSAAYQYQNRNL----GVGKAQAFIAMADYKISK 308 A S KA YE+GT Y+L+P L AA + G K DY +SK Sbjct: 289 NRTLAASNKADIYEIGTAYSLSPSLKLLAAVDHTRAQFDGVSGKAKLTQVSLGTDYWLSK 348 Query: 309 RTDLYVGAVYDRDKGYNAFPVFGGGAQSSMGNQTAVRLGMRHRF 352 RTDLY Y + N V + + GNQ AV +G+RH+F Sbjct: 349 RTDLYAFLAYSKATDLNNPGV--ADSSGTDGNQGAVAVGIRHKF 390 >gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 387 Score = 172 bits (435), Expect = 5e-44, Method: Compositional matrix adjust. Identities = 153/401 (38%), Positives = 197/401 (49%), Gaps = 63/401 (15%) Query: 1 MKKKLWVAAMLAAGTGMAHAQSSVSIYGLIDLGLTYYSNAAKSGGGG----ASLVRMDSG 56 MKK L A+L A G A AQSSV+IYG++D G+ Y S + G S ++SG Sbjct: 1 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTGIAYSSKVGYTDANGNAATGSKFGINSG 60 Query: 57 IAQGSRIGFKGSEDLGGGMNAFFTLETGFGADDGSLGQG------GLLFGRQSFVGLGSK 110 + QGSRIGFKG EDLGGG++A F LETGF +DDG L QG LF R+S VGL S Sbjct: 61 VIQGSRIGFKGVEDLGGGLSAVFNLETGFTSDDGGL-QGSDAVTSSNLFRRKSVVGL-SG 118 Query: 111 DWGAISLGRQYDFMSNIGAQYAMGALSPAGSLAWGLHADAAHGTALNDHIYGGDRTNNSI 170 +G + LGRQ DF I A A+ G+ A++ G++LN G RTNNS+ Sbjct: 119 GFGTVLLGRQTDFADTISAYTAVADF-------GGVVANS--GSSLNR--LQGTRTNNSV 167 Query: 171 KYNSVKFSGFSFGAMYGFGEVAGNTTASRTISATGQYDNGGFSSALAYTDIKDATGSSST 230 Y + SGF+ +YGFGE AG T+A + G+YDNG + Y K + S T Sbjct: 168 SYTTANLSGFTGNLIYGFGEQAGKTSAGQAYGIGGKYDNGPLGLGINYYQSKAGSTPSDT 227 Query: 231 RI-----------------------YGIGARYQIGAFTPFGVITQAKN---------TAT 258 + + A YQ G + ++ K TAT Sbjct: 228 SLIPAAGATNANTALGVAGNTALKSLNVVASYQFGPARVYANYSRVKQDLKGTPTVATAT 287 Query: 259 SA---KATTYELGTVYALTPLWDLSAAYQYQNRNL-GV---GKAQAFIAMADYKISKRTD 311 A KA TYE+GT Y+L+P L AA + GV GK ADY +SKRTD Sbjct: 288 LANAQKADTYEIGTAYSLSPSLKLLAAVDHSRATFNGVNTKGKLTQISLGADYFLSKRTD 347 Query: 312 LYVGAVYDRDKGYNAFPVFGGGAQSSMGNQTAVRLGMRHRF 352 LY R P GGA S +QTA+ G+RH+F Sbjct: 348 LYAFVSNMRASDIQN-PGVTGGATGSDASQTAIITGIRHKF 387 >gi|300310328|ref|YP_003774420.1| porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 405 Score = 170 bits (430), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 145/431 (33%), Positives = 196/431 (45%), Gaps = 105/431 (24%) Query: 1 MKKKLWVAAMLAAGTGMAHAQSS-VSIYGLIDLGLTYYSNAAKSGGGGASLVRMDSGIAQ 59 MKK L A+L A G AHAQSS ++IYG ID LTY + A G SL ++SG+ + Sbjct: 1 MKKSLLALAVLGAFAGAAHAQSSSITIYGAIDASLTYTNKIATDGKNTGSLTAVESGLVK 60 Query: 60 GSRIGFKGSEDLGGGMNAFFTLETGFGADDGSLGQGGLLFGRQSFVGLGSKDWGAISLGR 119 GSR+G KGSEDLGGG+ A FTLE GF D G GQG L++GRQ+ VGL S ++G + +GR Sbjct: 61 GSRLGIKGSEDLGGGLKAVFTLENGFNVDTGEAGQGKLMWGRQTTVGL-SGNFGTVLVGR 119 Query: 120 QYDFMSNIGAQYAMGALSPAGSLAWGLHADAAHGTALNDHIYGGDRTNNSIKYNSVKFSG 179 Q D +++IG + G G++ H L+ G R NNSI+YNS F+G Sbjct: 120 QNDPLNDIGGIASAGGFGVPGTV---------HSKGLDR--TDGQRLNNSIRYNSPNFNG 168 Query: 180 FSFGAMYGFGEVAGNTTASRTISATGQYDNGGFSSALAY------------TDI------ 221 SF +YGFGE G R+I QY NG S L Y +D+ Sbjct: 169 LSFSGIYGFGEQVGRAVGGRSIGLGSQYVNGPLSLGLGYFQSKMGGGSDGSSDVNAKAAC 228 Query: 222 -----KDATGSSSTRIYGIGARYQI------GAFT----P-------------FGVITQA 253 KD G + + + + A YQ GAF+ P FG + A Sbjct: 229 NGAGEKDHAGDTCLKTWTLAAAYQFGPAKVYGAFSHVRLPLAKLHTKVRKDNNFGAMYDA 288 Query: 254 KN---------------TATSAKATTYELGTVYALTPLWDLSAAYQYQNRNLGVGKAQAF 298 K A + T+++G Y L P L +A Q+ VG A Sbjct: 289 KTGTGYNPSDATAFSIGGANHKSSQTFDIGMSYQLMPSLTLMSAVQHTRAKF-VGAASGR 347 Query: 299 IAM----ADYKISKRT------------DLY-VGAVYDRDKGYNAFPVFGGGAQSSMGNQ 341 + A Y +SKRT D+Y VG D++ G + +Q Sbjct: 348 LLQLNLGAKYDLSKRTSAYALVRNLRSSDMYNVGLSKDQEPGIDR-------------SQ 394 Query: 342 TAVRLGMRHRF 352 TA+ G+ H F Sbjct: 395 TAISTGLIHTF 405 >gi|300313395|ref|YP_003777487.1| porin transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 403 Score = 147 bits (371), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 136/387 (35%), Positives = 179/387 (46%), Gaps = 70/387 (18%) Query: 20 AQSSVSIYGLIDLGLTYYSNAAKSGGGGASLVRMDSGIAQGSRIGFKGSEDLGGGMNAFF 79 AQSSV++YG +DLGL Y SN GGAS M+SG S++G G+EDLGGG A F Sbjct: 33 AQSSVTLYGTVDLGLAYSSNQ-----GGASNTYMNSGALAASKLGLTGTEDLGGGNMALF 87 Query: 80 TLETGFGADDGSLGQGGLLFGRQSFVGLGSKDWGAISLGRQYDFMSNIGAQYAMGALSPA 139 LE GF AD G+ G+LF RQS+VGL SKD+G +++GRQY QY +GAL P Sbjct: 88 RLENGFNADTGAQSTAGVLFNRQSYVGLSSKDYGQVTVGRQYTPY----FQY-VGALGPT 142 Query: 140 GSLAWGLHADAAHGTALNDHIYGGDRTNNSIKYNSVKFSGFSFGAMYGFGEVAGNTTASR 199 L A AL+ + R NNSI Y G G YG GE AG+ Sbjct: 143 NVLTGATGAHPGDIDALDTTL----RMNNSITYTLPTLGGLQAGVQYGMGEQAGSAANGS 198 Query: 200 TISATGQYDNGGFSSALAYTDIKD-ATGSS------------------------STRIYG 234 ++SA +YD FS + YT +K+ A G++ ST++ Sbjct: 199 SVSAALRYDYQAFSWSAGYTRLKNLANGNTAGSFGNVGSFANNSPVNAGYASADSTQLLA 258 Query: 235 IGARYQIGAFTPFGV---ITQAKNTATSAKATTYELGTV-----YALTPLWDLSAAYQY- 285 ARY G G+ Q K A SA + T T+ Y ++P L+A Y Y Sbjct: 259 TAARYTRGDLM-LGLNYSNVQYKAGALSAFSQTAVFNTIGLIGSYNVSPALVLAAGYSYT 317 Query: 286 --QNRNLGVGKAQAF--IAMAD-YKISKRTDLYVGAVYDRDKG------------YNAFP 328 + RN G+ + +++ + Y +SKRT LY Y R G NA Sbjct: 318 AEKARN-GISSPAKYNQLSLEEVYSLSKRTALYAIQAYQRASGQTLRAGGVGSSIVNAVA 376 Query: 329 VFG---GGAQSSMGNQTAVRLGMRHRF 352 G G SS Q LG+RH F Sbjct: 377 SVGDSQNGTPSSGSGQFVAMLGIRHSF 403 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 0.317 0.134 0.393 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: 1,122,194 Number of extensions: 49428 Number of successful extensions: 251 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 194 Number of HSP's successfully gapped: 14 Length of query: 352 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 266 Effective length of database: 1,212,660 Effective search space: 322567560 Effective search space used: 322567560 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 131 (55.1 bits)