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= 0246.0008.p (601 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... 376 e-105 gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) ... 304 1e-83 gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspir... 283 2e-77 gi|300314057|ref|YP_003778149.1| methyl-accepting chemotaxis pro... 279 4e-76 gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspir... 232 6e-62 >gi|300310328|ref|YP_003774420.1| porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 405 Score = 376 bits (966), Expect = e-105, Method: Compositional matrix adjust. Identities = 199/369 (53%), Positives = 254/369 (68%), Gaps = 14/369 (3%) Query: 13 MRKSLLALAVIGSFASVAHAQSS-VTIYGIIDASVAYNSKVATGVGSATGSRAGVDSGAI 71 M+KSLLALAV+G+FA AHAQSS +TIYG IDAS+ Y +K+AT G TGS V+SG + Sbjct: 1 MKKSLLALAVLGAFAGAAHAQSSSITIYGAIDASLTYTNKIATD-GKNTGSLTAVESGLV 59 Query: 72 KGSRLGFKGSEDLGGGLKALFNLENGFNVDTGAAAQNGTLFGRTATVGLSGNFGAVLLGR 131 KGSRLG KGSEDLGGGLKA+F LENGFNVDTG A Q ++GR TVGLSGNFG VL+GR Sbjct: 60 KGSRLGIKGSEDLGGGLKAVFTLENGFNVDTGEAGQGKLMWGRQTTVGLSGNFGTVLVGR 119 Query: 132 QKDFLDDIAAFTTVDDLGGMVSNVHAKDLDRTNGERVNNSIRYNTPNVNGFYGSVIYGFG 191 Q D L+DI + G+ VH+K LDRT+G+R+NNSIRYN+PN NG S IYGFG Sbjct: 120 QNDPLNDIGGIASAGGF-GVPGTVHSKGLDRTDGQRLNNSIRYNSPNFNGLSFSGIYGFG 178 Query: 192 ENAGSASTGQSYGIGGAYANGPFGVGLAYFQAKKAGTAAGSIAGSDVNSSAATTCSTGAA 251 E G A G+S G+G Y NGP +GL YFQ+K G + GS SDVN+ AA + Sbjct: 179 EQVGRAVGGRSIGLGSQYVNGPLSLGLGYFQSKMGGGSDGS---SDVNAKAACNGAGEKD 235 Query: 252 NIGSTCLKTWTLAASYQLGAAKLHGSWSQVKLPLAQASSAVS--------FSAASAASFT 303 + G TCLKTWTLAA+YQ G AK++G++S V+LPLA+ + V + A + + Sbjct: 236 HAGDTCLKTWTLAAAYQFGPAKVYGAFSHVRLPLAKLHTKVRKDNNFGAMYDAKTGTGYN 295 Query: 304 ADSTAQFAVGGVNNDKTNIFDVGVNYALTPALSLLASVQYARVGFVNAGDGKMTQLNLGA 363 F++GG N+ + FD+G++Y L P+L+L+++VQ+ R FV A G++ QLNLGA Sbjct: 296 PSDATAFSIGGANHKSSQTFDIGMSYQLMPSLTLMSAVQHTRAKFVGAASGRLLQLNLGA 355 Query: 364 KYALSKRTS 372 KY LSKRTS Sbjct: 356 KYDLSKRTS 364 >gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 390 Score = 304 bits (779), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 183/367 (49%), Positives = 244/367 (66%), Gaps = 21/367 (5%) Query: 13 MRKSLLALAVIGSFASVAHAQSSVTIYGIIDASVAYNSKVATGVGSATGSRAGVDSGAIK 72 M+KSLLALAV+G+FA A AQSSVTIYGI+D V Y SKVAT G TGS+ ++SG I+ Sbjct: 1 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTGVVYQSKVATPTG-GTGSKFSLNSGVIQ 59 Query: 73 GSRLGFKGSEDLGGGLKALFNLENGFNVDTGA---AAQNGTLFGRTATVGLSGNFGAVLL 129 GSR+GFKG+EDLGGGL A+FNLE GF+ DTGA + + TLF R + VGL+GNFG+VLL Sbjct: 60 GSRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGLAGNFGSVLL 119 Query: 130 GRQKDFLDDIAAFTTVDDLGGMVSNVHAKDLDRTNGERVNNSIRYNTPNVNGFYGSVIYG 189 GRQ DF D I+++T+V D GG + +LDR G R NNSI Y T N+NGF G+++YG Sbjct: 120 GRQTDFADTISSYTSVQDFGGW-TGAAGHNLDRLEGTRTNNSISYTTANLNGFTGNLMYG 178 Query: 190 FGENAGSASTGQSYGIGGAYANGPFGVGLAYFQAKKAGTAAGSIAGSDVNSSAATTCS-- 247 FGE AG S GQ++G+GG Y NGP G+G+ Y+Q+K T A D + AAT + Sbjct: 179 FGETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSKAGSTPA------DASLLAATGTNQF 232 Query: 248 TGAANIGSTCLKTWTLAASYQLGAAKLHGSWSQVKLPLAQASSAVSFSAASAASFTADST 307 T N GST K +AASYQ G A+++G+WS+VK L ++ + +AA S S Sbjct: 233 TNGTNNGSTAQKVLNVAASYQFGPARVYGNWSRVKQDL---NTQANLTAAGVGSLATISN 289 Query: 308 AQFAVGGVNNDKTNIFDVGVNYALTPALSLLASVQYARVGFVN-AGDGKMTQLNLGAKYA 366 A ++K +I+++G Y+L+P+L LLA+V + R F +G K+TQ++LG Y Sbjct: 290 RTLAA----SNKADIYEIGTAYSLSPSLKLLAAVDHTRAQFDGVSGKAKLTQVSLGTDYW 345 Query: 367 LSKRTSL 373 LSKRT L Sbjct: 346 LSKRTDL 352 >gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 387 Score = 283 bits (725), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 180/372 (48%), Positives = 240/372 (64%), Gaps = 35/372 (9%) Query: 13 MRKSLLALAVIGSFASVAHAQSSVTIYGIIDASVAYNSKV----ATGVGSATGSRAGVDS 68 M+KSLLALAV+G+FA A AQSSVTIYGI+D +AY+SKV A G +ATGS+ G++S Sbjct: 1 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTGIAYSSKVGYTDANG-NAATGSKFGINS 59 Query: 69 GAIKGSRLGFKGSEDLGGGLKALFNLENGFNVDTGA-----AAQNGTLFGRTATVGLSGN 123 G I+GSR+GFKG EDLGGGL A+FNLE GF D G A + LF R + VGLSG Sbjct: 60 GVIQGSRIGFKGVEDLGGGLSAVFNLETGFTSDDGGLQGSDAVTSSNLFRRKSVVGLSGG 119 Query: 124 FGAVLLGRQKDFLDDIAAFTTVDDLGGMVSNVHAKDLDRTNGERVNNSIRYNTPNVNGFY 183 FG VLLGRQ DF D I+A+T V D GG+V+N L+R G R NNS+ Y T N++GF Sbjct: 120 FGTVLLGRQTDFADTISAYTAVADFGGVVAN-SGSSLNRLQGTRTNNSVSYTTANLSGFT 178 Query: 184 GSVIYGFGENAGSASTGQSYGIGGAYANGPFGVGLAYFQAKKAGTAAGSIAGSDVNSSAA 243 G++IYGFGE AG S GQ+YGIGG Y NGP G+G+ Y+Q+K T + + S + ++ A Sbjct: 179 GNLIYGFGEQAGKTSAGQAYGIGGKYDNGPLGLGINYYQSKAGSTPSDT---SLIPAAGA 235 Query: 244 TTCSTGAANIGSTCLKTWTLAASYQLGAAKLHGSWSQVKLPLAQASSAVSFSAASAASFT 303 T +T G+T LK+ + ASYQ G A+++ ++S+VK L + Sbjct: 236 TNANTALGVAGNTALKSLNVVASYQFGPARVYANYSRVKQDLKGTPTV------------ 283 Query: 304 ADSTAQFAVGGVNNDKTNIFDVGVNYALTPALSLLASVQYARVGF--VNAGDGKMTQLNL 361 +TA A N K + +++G Y+L+P+L LLA+V ++R F VN GK+TQ++L Sbjct: 284 --ATATLA----NAQKADTYEIGTAYSLSPSLKLLAAVDHSRATFNGVNT-KGKLTQISL 336 Query: 362 GAKYALSKRTSL 373 GA Y LSKRT L Sbjct: 337 GADYFLSKRTDL 348 >gi|300314057|ref|YP_003778149.1| methyl-accepting chemotaxis protein I [Herbaspirillum seropedicae SmR1] Length = 554 Score = 279 bits (714), Expect = 4e-76, Method: Compositional matrix adjust. Identities = 134/197 (68%), Positives = 165/197 (83%), Gaps = 4/197 (2%) Query: 397 RPA-ISVAARLGISFAIVLAMMVALTALSIMKVNAIEGSLSTISDDNNVKQRYAINFRGS 455 +PA +SVA RL +SFA+VLAMM+ LT +SI +VNAI SL+T+SDDNNVKQRYAINFRGS Sbjct: 7 KPASLSVATRLALSFALVLAMMLVLTVVSISRVNAINDSLTTVSDDNNVKQRYAINFRGS 66 Query: 456 VHDRAIALRDLTLVGDTEVKDVIGLISKLDSDYQQSAQPLDAIFSGEKGKNIRAEERTDL 515 VHDRAIALRDLTLVGDTE+KDV LISKLD+DYQ+SA+ LD +F+G + +R EER L Sbjct: 67 VHDRAIALRDLTLVGDTELKDVSALISKLDADYQRSAKLLDEMFAGMQ---VRPEERASL 123 Query: 516 AAIKAIEARTMPLVQRVIAARTSGDTDGARQIMLQQGKPAFVEWLASINKFIDLQEQMTQ 575 +IKA+EAR MPL +VIAAR+SGD +GARQ+ML Q KPAFV+WLA+IN FID++E M+Q Sbjct: 124 DSIKAVEARAMPLAAKVIAARSSGDVEGARQLMLSQAKPAFVDWLAAINHFIDMEESMSQ 183 Query: 576 AESAHARSLAHGFQALM 592 AESA AR++A F+A M Sbjct: 184 AESAKARTVAREFKAFM 200 >gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 372 Score = 232 bits (592), Expect = 6e-62, Method: Compositional matrix adjust. Identities = 149/354 (42%), Positives = 187/354 (52%), Gaps = 46/354 (12%) Query: 36 VTIYGIIDASVAYNSKVATGVGSATGSRAGVDSGAIKGSRLGFKGSEDLGGGLKALFNLE 95 VT+YG+ID S+ Y SKV G GSRA +DSG SR+G +G E+LG GL A+F LE Sbjct: 26 VTVYGVIDMSLVYTSKV----GPDNGSRASLDSGDAMASRIGLRGREELGDGLAAIFQLE 81 Query: 96 NGFNVDTGAAAQNGTLFGRTATVGLSGNFGAVLLGRQKDFLDDIAAFTTVDDL--GGMVS 153 GF D GA A GTLF R + VGL+G FG + +GRQ D+L++I T + GG V Sbjct: 82 TGFAGDDGAMATPGTLFDRKSVVGLAGRFGTLTVGRQTDYLEEIGQQYTSFQIFGGGGVR 141 Query: 154 NVHAKDLDRTNGERVNNSIRYNTPNVNGFYGSVIYGFGENAGSASTGQSYGIGGAYANGP 213 H LDR G R NNS+R++T G GS YG GE AGS +GQS G+GG + G Sbjct: 142 AAHFNSLDRITGARSNNSLRFDTAEYGGLRGSFYYGAGEVAGSTRSGQSLGVGGNFRRGN 201 Query: 214 FGVGLAYFQAKKAGTAAGSIAGSDVNSSAATTCSTGAANIGSTCLKTWTLAASYQLGAAK 273 GVG AYFQ+K A A A G T LKT+TL ASYQ G AK Sbjct: 202 VGVGAAYFQSKLASDAL-------------------PARAGDTELKTFTLGASYQAGPAK 242 Query: 274 LHGSWSQVKLPLAQASSAVSFSAASAASFTADSTAQFAVGGVNNDKTNIFDVGVNYALTP 333 L +WSQ++ P Q ++ A ++A+ + N+ DVGV+YAL Sbjct: 243 LFAAWSQIRRPTQQPLASSGLVAITSAT-----------------RANVLDVGVDYALDS 285 Query: 334 ALSLLASVQYARVGFVNAG----DGKMTQLNLGAKYALSKRTSLTKTTSADSGR 383 L LLASV + R A G TQ+NLG LSKRT + S R Sbjct: 286 KLHLLASVIHDRADLSRAAGGATRGSTTQVNLGVDLLLSKRTDVYAMASRQQAR 339 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 0.315 0.130 0.357 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: 1,678,414 Number of extensions: 69426 Number of successful extensions: 366 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 313 Number of HSP's successfully gapped: 18 Length of query: 601 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 510 Effective length of database: 1,188,985 Effective search space: 606382350 Effective search space used: 606382350 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: 133 (55.8 bits)