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= 0007.0047.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) ... 649 0.0 gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) ... 176 2e-45 gi|300310328|ref|YP_003774420.1| porin signal peptide protein [H... 166 4e-42 gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspir... 164 1e-41 gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspir... 150 2e-37 >gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 649 bits (1674), Expect = 0.0, Method: Compositional matrix adjust. Identities = 323/352 (91%), Positives = 338/352 (96%) Query: 1 MKKKLLAAALLAAGTGMAHAQSSVSIYGLIDLGLTYYSNAAKTGGGGASLLRMDSGIAQG 60 MKK LL AA+LA G AHAQSSVSIYGLIDLGLTYYS+A K+GGGGA LLRMDSGIAQG Sbjct: 1 MKKTLLVAAMLAGGATTAHAQSSVSIYGLIDLGLTYYSSAPKSGGGGARLLRMDSGIAQG 60 Query: 61 SRIGFKGTEDLGGGLNAFFTLETGFGADDGSLGQGGLLFGRQSFVGLGSKDWGALSVGRQ 120 SRIGFKGTEDLGGG+NAFFTLETGFGADDGSLGQGGLLFGRQSFVGLGS WG+LSVGRQ Sbjct: 61 SRIGFKGTEDLGGGMNAFFTLETGFGADDGSLGQGGLLFGRQSFVGLGSTQWGSLSVGRQ 120 Query: 121 YDFMANIGGQYAMGALSPAGSFGWGLHADAAHGTALNNHIYAGDRTNNSIKYNSAKFGGF 180 YDFMANIGGQYAMGALSPAGSFGWGLHADAAHGTALNNHIYAGDRTNNSIKYNSAKFGGF Sbjct: 121 YDFMANIGGQYAMGALSPAGSFGWGLHADAAHGTALNNHIYAGDRTNNSIKYNSAKFGGF 180 Query: 181 SFGAMLGLGEVAGNNNAGRTVSATGQYDSGAFSGALAYTDIKSSSGASATRIYGGGARYQ 240 SFGAM+GLGE AGNNNAGRTVSATGQYD+G FSGALAYTDIK S+G+ +TRIYGGGARYQ Sbjct: 181 SFGAMVGLGETAGNNNAGRTVSATGQYDNGPFSGALAYTDIKDSTGSFSTRIYGGGARYQ 240 Query: 241 IGAFTPFGVITQVKNTDTNAKATTYELGTVYALTPLWDLAAAYQFQKRNQGVGNAQALVA 300 IGAFTPFGV+TQVKNT+T+AKATTYELGTVYALTPLWDLAAAYQFQKRNQGVGNAQALVA Sbjct: 241 IGAFTPFGVVTQVKNTNTSAKATTYELGTVYALTPLWDLAAAYQFQKRNQGVGNAQALVA 300 Query: 301 TVDYKISKRTDLYVGAVYDRDKGYNAYPVFGGGIQSSTGNQSALRLGMRHRF 352 TVDYKISKRTDLYVGAVYDRDKGYNAYPVFGGGIQS+TGNQ+ALRLGMRHRF Sbjct: 301 TVDYKISKRTDLYVGAVYDRDKGYNAYPVFGGGIQSATGNQTALRLGMRHRF 352 >gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 390 Score = 176 bits (446), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 149/407 (36%), Positives = 195/407 (47%), Gaps = 72/407 (17%) Query: 1 MKKKLLAAALLAAGTGMAHAQSSVSIYGLIDLGLTYYSNAAKTGGGGASLLRMDSGIAQG 60 MKK LLA A+L A G A AQSSV+IYG++D G+ Y S A GG S ++SG+ QG Sbjct: 1 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTGVVYQSKVATPTGGTGSKFSLNSGVIQG 60 Query: 61 SRIGFKGTEDLGGGLNAFFTLETGFGADDGSLGQ---GGLLFGRQSFVGLGSKDWGALSV 117 SRIGFKGTEDLGGGL+A F LE GF D G+L LF R+S VGL + ++G++ + Sbjct: 61 SRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGL-AGNFGSVLL 119 Query: 118 GRQYDFMANIGGQYAMGALSPAGSFGWGLHADAAHGTALNNHIYAGDRTNNSIKYNSAKF 177 GRQ DF I + + FG G A H N G RTNNSI Y +A Sbjct: 120 GRQTDFADTI------SSYTSVQDFG-GWTGAAGH----NLDRLEGTRTNNSISYTTANL 168 Query: 178 GGFSFGAMLGLGEVAGNNNAGRTVSATGQYDSGAFSGALAYTDIKSSS------------ 225 GF+ M G GE AG +AG+ G+YD+G + Y K+ S Sbjct: 169 NGFTGNLMYGFGETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSKAGSTPADASLLAATG 228 Query: 226 ----------GASATRIYGGGARYQIGAFTPFGVITQVK---NTDTNA------------ 260 G++A ++ A YQ G +G ++VK NT N Sbjct: 229 TNQFTNGTNNGSTAQKVLNVAASYQFGPARVYGNWSRVKQDLNTQANLTAAGVGSLATIS 288 Query: 261 --------KATTYELGTVYALTPLWDLAAAYQFQKRN-QGVGNAQALVAT---VDYKISK 308 KA YE+GT Y+L+P L AA + GV L DY +SK Sbjct: 289 NRTLAASNKADIYEIGTAYSLSPSLKLLAAVDHTRAQFDGVSGKAKLTQVSLGTDYWLSK 348 Query: 309 RTDLYVGAVYDRDKGYNAYPVFGGGIQSST---GNQSALRLGMRHRF 352 RTDLY Y + N G+ S+ GNQ A+ +G+RH+F Sbjct: 349 RTDLYAFLAYSKATDLN-----NPGVADSSGTDGNQGAVAVGIRHKF 390 >gi|300310328|ref|YP_003774420.1| porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 405 Score = 166 bits (419), Expect = 4e-42, Method: Compositional matrix adjust. Identities = 130/335 (38%), Positives = 165/335 (49%), Gaps = 46/335 (13%) Query: 1 MKKKLLAAALLAAGTGMAHAQSS-VSIYGLIDLGLTYYSNAAKTGGGGASLLRMDSGIAQ 59 MKK LLA A+L A G AHAQSS ++IYG ID LTY + A G SL ++SG+ + Sbjct: 1 MKKSLLALAVLGAFAGAAHAQSSSITIYGAIDASLTYTNKIATDGKNTGSLTAVESGLVK 60 Query: 60 GSRIGFKGTEDLGGGLNAFFTLETGFGADDGSLGQGGLLFGRQSFVGLGSKDWGALSVGR 119 GSR+G KG+EDLGGGL A FTLE GF D G GQG L++GRQ+ VGL S ++G + VGR Sbjct: 61 GSRLGIKGSEDLGGGLKAVFTLENGFNVDTGEAGQGKLMWGRQTTVGL-SGNFGTVLVGR 119 Query: 120 QYDFMANIGGQYAMGALSPAGSFGWGLHADAAHGTALNNHIYAGDRTNNSIKYNSAKFGG 179 Q D + +IGG ++ AG FG H L+ G R NNSI+YNS F G Sbjct: 120 QNDPLNDIGG------IASAGGFGV---PGTVHSKGLDR--TDGQRLNNSIRYNSPNFNG 168 Query: 180 FSFGAMLGLGEVAGNNNAGRTVSATGQYDSGAFSGALAYTDIKSSSGASATRIYGGGARY 239 SF + G GE G GR++ QY +G S L Y K G+ + Sbjct: 169 LSFSGIYGFGEQVGRAVGGRSIGLGSQYVNGPLSLGLGYFQSKMGGGSDGS--------- 219 Query: 240 QIGAFTPFGVITQVKNTDTNAKATTYELGTV----YALTPLWDLAAAYQF--QKRNQGVG 293 +D NAKA G W LAAAYQF K Sbjct: 220 ----------------SDVNAKAACNGAGEKDHAGDTCLKTWTLAAAYQFGPAKVYGAFS 263 Query: 294 NAQALVATVDYKISKRTDLYVGAVYDRDKGYNAYP 328 + + +A + K+ R D GA+YD G P Sbjct: 264 HVRLPLAKLHTKV--RKDNNFGAMYDAKTGTGYNP 296 >gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 387 Score = 164 bits (414), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 151/401 (37%), Positives = 195/401 (48%), Gaps = 63/401 (15%) Query: 1 MKKKLLAAALLAAGTGMAHAQSSVSIYGLIDLGLTYYSNAAKTGGGG----ASLLRMDSG 56 MKK LLA A+L A G A AQSSV+IYG++D G+ Y S T G S ++SG Sbjct: 1 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTGIAYSSKVGYTDANGNAATGSKFGINSG 60 Query: 57 IAQGSRIGFKGTEDLGGGLNAFFTLETGFGADDGSLGQG------GLLFGRQSFVGLGSK 110 + QGSRIGFKG EDLGGGL+A F LETGF +DDG L QG LF R+S VGL S Sbjct: 61 VIQGSRIGFKGVEDLGGGLSAVFNLETGFTSDDGGL-QGSDAVTSSNLFRRKSVVGL-SG 118 Query: 111 DWGALSVGRQYDFMANIGGQYAMGALSPAGSFGWGLHADAAHGTALNNHIYAGDRTNNSI 170 +G + +GRQ DF I A + FG G+ A++ G++LN G RTNNS+ Sbjct: 119 GFGTVLLGRQTDFADTI------SAYTAVADFG-GVVANS--GSSLNR--LQGTRTNNSV 167 Query: 171 KYNSAKFGGFSFGAMLGLGEVAGNNNAGRTVSATGQYDSGAFSGALAYTDIKSSSGASAT 230 Y +A GF+ + G GE AG +AG+ G+YD+G + Y K+ S S T Sbjct: 168 SYTTANLSGFTGNLIYGFGEQAGKTSAGQAYGIGGKYDNGPLGLGINYYQSKAGSTPSDT 227 Query: 231 RIYGGG-----------------------ARYQIGAFTPFGVITQVKN-----------T 256 + A YQ G + ++VK T Sbjct: 228 SLIPAAGATNANTALGVAGNTALKSLNVVASYQFGPARVYANYSRVKQDLKGTPTVATAT 287 Query: 257 DTNA-KATTYELGTVYALTPLWDLAAAYQFQKRN-QGVGNAQALVAT---VDYKISKRTD 311 NA KA TYE+GT Y+L+P L AA + GV L DY +SKRTD Sbjct: 288 LANAQKADTYEIGTAYSLSPSLKLLAAVDHSRATFNGVNTKGKLTQISLGADYFLSKRTD 347 Query: 312 LYVGAVYDRDKGYNAYPVFGGGIQSSTGNQSALRLGMRHRF 352 LY R P GG S +Q+A+ G+RH+F Sbjct: 348 LYAFVSNMRASDIQN-PGVTGGATGSDASQTAIITGIRHKF 387 >gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 372 Score = 150 bits (379), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 120/364 (32%), Positives = 178/364 (48%), Gaps = 52/364 (14%) Query: 24 VSIYGLIDLGLTYYSNAAKTGGGGASLLRMDSGIAQGSRIGFKGTEDLGGGLNAFFTLET 83 V++YG+ID+ L Y S G ASL DSG A SRIG +G E+LG GL A F LET Sbjct: 26 VTVYGVIDMSLVYTSKVGPDNGSRASL---DSGDAMASRIGLRGREELGDGLAAIFQLET 82 Query: 84 GFGADDGSLGQGGLLFGRQSFVGLGSKDWGALSVGRQYDFMANIGGQYAMGALSPAGSFG 143 GF DDG++ G LF R+S VGL + +G L+VGRQ D++ IG QY + FG Sbjct: 83 GFAGDDGAMATPGTLFDRKSVVGLAGR-FGTLTVGRQTDYLEEIGQQYTSFQI-----FG 136 Query: 144 WGLHADAAHGTALNNHIYAGDRTNNSIKYNSAKFGGFSFGAMLGLGEVAGNNNAGRTVSA 203 G AAH +L+ G R+NNS+++++A++GG G GEVAG+ +G+++ Sbjct: 137 GG-GVRAAHFNSLDR--ITGARSNNSLRFDTAEYGGLRGSFYYGAGEVAGSTRSGQSLGV 193 Query: 204 TGQYDSGA-------FSGALAYTDIKSSSGASATRIYGGGARYQIGAFTPFGVITQVKNT 256 G + G F LA + + +G + + + GA YQ G F +Q++ Sbjct: 194 GGNFRRGNVGVGAAYFQSKLASDALPARAGDTELKTFTLGASYQAGPAKLFAAWSQIRRP 253 Query: 257 DTNA-------------KATTYELGTVYALTPLWDLAAAYQFQKRNQG-------VGNAQ 296 +A ++G YAL L A+ + + G+ Sbjct: 254 TQQPLASSGLVAITSATRANVLDVGVDYALDSKLHLLASVIHDRADLSRAAGGATRGSTT 313 Query: 297 ALVATVDYKISKRTDLYVGAVYDRDKGYNAYPVFGGGIQSST--------GNQSALRLGM 348 + VD +SKRTD+Y A+ R + A V GI S+ +Q+ LR+G+ Sbjct: 314 QVNLGVDLLLSKRTDVY--AMASRQQ---ARDVLNPGIISAAYSSAPADDSSQNVLRVGL 368 Query: 349 RHRF 352 RH+F Sbjct: 369 RHKF 372 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 0.316 0.134 0.394 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: 1,184,510 Number of extensions: 57792 Number of successful extensions: 235 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 190 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 (21.6 bits) S2: 131 (55.1 bits)