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= 0001.2867.p (373 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspir... 588 e-169 gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) ... 282 3e-77 gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspir... 279 3e-76 gi|300310328|ref|YP_003774420.1| porin signal peptide protein [H... 236 3e-63 gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) ... 150 2e-37 >gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 372 Score = 588 bits (1517), Expect = e-169, Method: Compositional matrix adjust. Identities = 285/347 (82%), Positives = 317/347 (91%) Query: 27 VTVYGVIDMSLVYTNKVGPNNSSRMSLDSGDAMASRIGVRGKEELGGGLAAVFQLENGFA 86 VTVYGVIDMSLVYT+KVGP+N SR SLDSGDAMASRIG+RG+EELG GLAA+FQLE GFA Sbjct: 26 VTVYGVIDMSLVYTSKVGPDNGSRASLDSGDAMASRIGLRGREELGDGLAAIFQLETGFA 85 Query: 87 ADDGAMSTPGTLFDRKSVVGLSGRYGTLTLGRQTDYLEEIGLQYSSFQIFGGGGVRAGHF 146 DDGAM+TPGTLFDRKSVVGL+GR+GTLT+GRQTDYLEEIG QY+SFQIFGGGGVRA HF Sbjct: 86 GDDGAMATPGTLFDRKSVVGLAGRFGTLTVGRQTDYLEEIGQQYTSFQIFGGGGVRAAHF 145 Query: 147 NSLDRLTGARTSNSLRFDTAEVNGFMGSLFYGFGEVAGQTSAGQAFGVGANYRNGNAGIG 206 NSLDR+TGAR++NSLRFDTAE G GS +YG GEVAG T +GQ+ GVG N+R GN G+G Sbjct: 146 NSLDRITGARSNNSLRFDTAEYGGLRGSFYYGAGEVAGSTRSGQSLGVGGNFRRGNVGVG 205 Query: 207 AAYYQSKLAADALPAHAGDSDLKTFTLGASYQAGPAKLFAAWSQVRRPTQQPLAATGLVA 266 AAY+QSKLA+DALPA AGD++LKTFTLGASYQAGPAKLFAAWSQ+RRPTQQPLA++GLVA Sbjct: 206 AAYFQSKLASDALPARAGDTELKTFTLGASYQAGPAKLFAAWSQIRRPTQQPLASSGLVA 265 Query: 267 ITSATRANVFDVGVDYALDAKLHLLASVIHDRADLARSGSGATRGHTTQFNLGVDYFLSK 326 ITSATRANV DVGVDYALD+KLHLLASVIHDRADL+R+ GATRG TTQ NLGVD LSK Sbjct: 266 ITSATRANVLDVGVDYALDSKLHLLASVIHDRADLSRAAGGATRGSTTQVNLGVDLLLSK 325 Query: 327 RTDVYAMASRQAASAVINPGVISAAYSSAPADDSSQNVLRIGVRHKF 373 RTDVYAMASRQ A V+NPG+ISAAYSSAPADDSSQNVLR+G+RHKF Sbjct: 326 RTDVYAMASRQQARDVLNPGIISAAYSSAPADDSSQNVLRVGLRHKF 372 >gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 390 Score = 282 bits (722), Expect = 3e-77, Method: Compositional matrix adjust. Identities = 181/407 (44%), Positives = 241/407 (59%), Gaps = 51/407 (12%) Query: 1 MKKLAFTLTALGLTQLTGLAYAQSSSVTVYGVIDMSLVYTNKVGP---NNSSRMSLDSGD 57 MKK +L AL + A SSVT+YG++D +VY +KV S+ SL+SG Sbjct: 1 MKK---SLLALAVLGAFAGAAQAQSSVTIYGIVDTGVVYQSKVATPTGGTGSKFSLNSGV 57 Query: 58 AMASRIGVRGKEELGGGLAAVFQLENGFAADDGAM---STPGTLFDRKSVVGLSGRYGTL 114 SRIG +G E+LGGGL+AVF LE GF+ D GA+ T TLF RKSVVGL+G +G++ Sbjct: 58 IQGSRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGLAGNFGSV 117 Query: 115 TLGRQTDYLEEIGLQYSSFQIFGGGGVRAGHFNSLDRLTGARTSNSLRFDTAEVNGFMGS 174 LGRQTD+ + I Y+S Q FGG AGH +LDRL G RT+NS+ + TA +NGF G+ Sbjct: 118 LLGRQTDFADTIS-SYTSVQDFGGWTGAAGH--NLDRLEGTRTNNSISYTTANLNGFTGN 174 Query: 175 LFYGFGEVAGQTSAGQAFGVGANYRNGNAGIGAAYYQSKLAADALPAHA----------- 223 L YGFGE AGQTSAGQAFGVG Y NG G+G YYQSK A + PA A Sbjct: 175 LMYGFGETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSK--AGSTPADASLLAATGTNQF 232 Query: 224 ------GDSDLKTFTLGASYQAGPAKLFAAWSQVRRP--TQQPLAATG---LVAITSAT- 271 G + K + ASYQ GPA+++ WS+V++ TQ L A G L I++ T Sbjct: 233 TNGTNNGSTAQKVLNVAASYQFGPARVYGNWSRVKQDLNTQANLTAAGVGSLATISNRTL 292 Query: 272 ----RANVFDVGVDYALDAKLHLLASVIHDRADL-ARSGSGATRGHTTQFNLGVDYFLSK 326 +A+++++G Y+L L LLA+V H RA SG + TQ +LG DY+LSK Sbjct: 293 AASNKADIYEIGTAYSLSPSLKLLAAVDHTRAQFDGVSG----KAKLTQVSLGTDYWLSK 348 Query: 327 RTDVYAMASRQAASAVINPGVISAAYSSAPADDSSQNVLRIGVRHKF 373 RTD+YA + A+ + NPGV + + D +Q + +G+RHKF Sbjct: 349 RTDLYAFLAYSKATDLNNPGV-----ADSSGTDGNQGAVAVGIRHKF 390 >gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 387 Score = 279 bits (713), Expect = 3e-76, Method: Compositional matrix adjust. Identities = 176/404 (43%), Positives = 242/404 (59%), Gaps = 48/404 (11%) Query: 1 MKKLAFTLTALGLTQLTGLAYAQSSSVTVYGVIDMSLVYTNKVGPNNS-------SRMSL 53 MKK +L AL + A SSVT+YG++D + Y++KVG ++ S+ + Sbjct: 1 MKK---SLLALAVLGAFAGAAQAQSSVTIYGIVDTGIAYSSKVGYTDANGNAATGSKFGI 57 Query: 54 DSGDAMASRIGVRGKEELGGGLAAVFQLENGFAADDGAMS-----TPGTLFDRKSVVGLS 108 +SG SRIG +G E+LGGGL+AVF LE GF +DDG + T LF RKSVVGLS Sbjct: 58 NSGVIQGSRIGFKGVEDLGGGLSAVFNLETGFTSDDGGLQGSDAVTSSNLFRRKSVVGLS 117 Query: 109 GRYGTLTLGRQTDYLEEIGLQYSSFQIFGGGGVRAGHFNSLDRLTGARTSNSLRFDTAEV 168 G +GT+ LGRQTD+ + I Y++ FGG V A +SL+RL G RT+NS+ + TA + Sbjct: 118 GGFGTVLLGRQTDFADTIS-AYTAVADFGG--VVANSGSSLNRLQGTRTNNSVSYTTANL 174 Query: 169 NGFMGSLFYGFGEVAGQTSAGQAFGVGANYRNGNAGIGAAYYQSKLAADALPAH------ 222 +GF G+L YGFGE AG+TSAGQA+G+G Y NG G+G YYQSK A + P+ Sbjct: 175 SGFTGNLIYGFGEQAGKTSAGQAYGIGGKYDNGPLGLGINYYQSK--AGSTPSDTSLIPA 232 Query: 223 ------------AGDSDLKTFTLGASYQAGPAKLFAAWSQVRRPTQ-QPLAATGLVAITS 269 AG++ LK+ + ASYQ GPA+++A +S+V++ + P AT +A + Sbjct: 233 AGATNANTALGVAGNTALKSLNVVASYQFGPARVYANYSRVKQDLKGTPTVATATLA--N 290 Query: 270 ATRANVFDVGVDYALDAKLHLLASVIHDRADLARSGSGATRGHTTQFNLGVDYFLSKRTD 329 A +A+ +++G Y+L L LLA+V H RA T+G TQ +LG DYFLSKRTD Sbjct: 291 AQKADTYEIGTAYSLSPSLKLLAAVDHSRATFNGVN---TKGKLTQISLGADYFLSKRTD 347 Query: 330 VYAMASRQAASAVINPGVISAAYSSAPADDSSQNVLRIGVRHKF 373 +YA S AS + NPGV A S D+SQ + G+RHKF Sbjct: 348 LYAFVSNMRASDIQNPGVTGGATGS----DASQTAIITGIRHKF 387 >gi|300310328|ref|YP_003774420.1| porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 405 Score = 236 bits (601), Expect = 3e-63, Method: Compositional matrix adjust. Identities = 160/418 (38%), Positives = 216/418 (51%), Gaps = 58/418 (13%) Query: 1 MKKLAFTLTALGLTQLTGLAYAQSSSVTVYGVIDMSLVYTNKV---GPNNSSRMSLDSGD 57 MKK L LG G A+AQSSS+T+YG ID SL YTNK+ G N S +++SG Sbjct: 1 MKKSLLALAVLG--AFAGAAHAQSSSITIYGAIDASLTYTNKIATDGKNTGSLTAVESGL 58 Query: 58 AMASRIGVRGKEELGGGLAAVFQLENGFAADDGAMSTPGTLFDRKSVVGLSGRYGTLTLG 117 SR+G++G E+LGGGL AVF LENGF D G ++ R++ VGLSG +GT+ +G Sbjct: 59 VKGSRLGIKGSEDLGGGLKAVFTLENGFNVDTGEAGQGKLMWGRQTTVGLSGNFGTVLVG 118 Query: 118 RQTDYLEEIGLQYSSFQIFGGGGVRAG-HFNSLDRLTGARTSNSLRFDTAEVNGFMGSLF 176 RQ D L +IG S+ GG GV H LDR G R +NS+R+++ NG S Sbjct: 119 RQNDPLNDIGGIASA----GGFGVPGTVHSKGLDRTDGQRLNNSIRYNSPNFNGLSFSGI 174 Query: 177 YGFGEVAGQTSAGQAFGVGANYRNGNAGIGAAYYQSKLA--------ADALPA------- 221 YGFGE G+ G++ G+G+ Y NG +G Y+QSK+ +A A Sbjct: 175 YGFGEQVGRAVGGRSIGLGSQYVNGPLSLGLGYFQSKMGGGSDGSSDVNAKAACNGAGEK 234 Query: 222 -HAGDSDLKTFTLGASYQAGPAKLFAAWSQVRRPTQQ----------------------- 257 HAGD+ LKT+TL A+YQ GPAK++ A+S VR P + Sbjct: 235 DHAGDTCLKTWTLAAAYQFGPAKVYGAFSHVRLPLAKLHTKVRKDNNFGAMYDAKTGTGY 294 Query: 258 -PLAATGL-VAITSATRANVFDVGVDYALDAKLHLLASVIHDRADLARSGSGATRGHTTQ 315 P AT + + + FD+G+ Y L L L+++V H RA GA G Q Sbjct: 295 NPSDATAFSIGGANHKSSQTFDIGMSYQLMPSLTLMSAVQHTRAKFV----GAASGRLLQ 350 Query: 316 FNLGVDYFLSKRTDVYAMASRQAASAVINPGVISAAYSSAPADDSSQNVLRIGVRHKF 373 NLG Y LSKRT YA+ +S + N G+ + P D SQ + G+ H F Sbjct: 351 LNLGAKYDLSKRTSAYALVRNLRSSDMYNVGL---SKDQEPGIDRSQTAISTGLIHTF 405 >gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 150 bits (379), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 123/371 (33%), Positives = 182/371 (49%), Gaps = 53/371 (14%) Query: 20 AYAQSSSVTVYGVIDMSLVYTN---KVGPNNSSRMSLDSGDAMASRIGVRGKEELGGGLA 76 A+AQSS V++YG+ID+ L Y + K G + + +DSG A SRIG +G E+LGGG+ Sbjct: 18 AHAQSS-VSIYGLIDLGLTYYSSAPKSGGGGARLLRMDSGIAQGSRIGFKGTEDLGGGMN 76 Query: 77 AVFQLENGFAADDGAMSTPGTLFDRKSVVGL-SGRYGTLTLGRQTDYLEEIGLQYSSFQI 135 A F LE GF ADDG++ G LF R+S VGL S ++G+L++GRQ D++ IG QY+ + Sbjct: 77 AFFTLETGFGADDGSLGQGGLLFGRQSFVGLGSTQWGSLSVGRQYDFMANIGGQYAMGAL 136 Query: 136 -----FGGG-GVRAGHFNSLDR--LTGARTSNSLRFDTAEVNGFMGSLFYGFGEVAGQTS 187 FG G A H +L+ G RT+NS+++++A+ GF G GE AG + Sbjct: 137 SPAGSFGWGLHADAAHGTALNNHIYAGDRTNNSIKYNSAKFGGFSFGAMVGLGETAGNNN 196 Query: 188 AGQAFGVGANYRNGNAGIGAAYYQSKLAADALPAHAGDSDLKTFTLGASYQAGPAKLFAA 247 AG+ Y NG + LA + G + + GA YQ G F Sbjct: 197 AGRTVSATGQYDNGP-------FSGALAYTDIKDSTGSFSTRIYGGGARYQIGAFTPFGV 249 Query: 248 WSQVRRPTQQPLAATGLVAITSATRANVFDVGVDYALDAKLHLLASVIHDRADLARSGSG 307 +QV+ ++ +A +++G YAL L A+ + + Sbjct: 250 VTQVKN-------------TNTSAKATTYELGTVYALTPLWDLAAAYQFQKRNQG----- 291 Query: 308 ATRGHTTQFNLGVDYFLSKRTDVY--AMASRQA---ASAVINPGVISAAYSSAPADDSSQ 362 G+ VDY +SKRTD+Y A+ R A V G+ SA +Q Sbjct: 292 --VGNAQALVATVDYKISKRTDLYVGAVYDRDKGYNAYPVFGGGIQSAT--------GNQ 341 Query: 363 NVLRIGVRHKF 373 LR+G+RH+F Sbjct: 342 TALRLGMRHRF 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 0.317 0.132 0.372 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: 1,090,559 Number of extensions: 48706 Number of successful extensions: 235 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 180 Number of HSP's successfully gapped: 14 Length of query: 373 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 286 Effective length of database: 1,207,925 Effective search space: 345466550 Effective search space used: 345466550 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)