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= 0020.0278.p (390 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) ... 769 0.0 gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspir... 494 e-141 gi|300310328|ref|YP_003774420.1| porin signal peptide protein [H... 281 9e-77 gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspir... 260 2e-70 gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) ... 181 1e-46 >gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 390 Score = 770 bits (1987), Expect = 0.0, Method: Compositional matrix adjust. Identities = 390/390 (100%), Positives = 390/390 (100%) Query: 1 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTGVVYQSKVATPTGGTGSKFSLNSGVIQG 60 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTGVVYQSKVATPTGGTGSKFSLNSGVIQG Sbjct: 1 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTGVVYQSKVATPTGGTGSKFSLNSGVIQG 60 Query: 61 SRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGLAGNFGSVLLG 120 SRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGLAGNFGSVLLG Sbjct: 61 SRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGLAGNFGSVLLG 120 Query: 121 RQTDFADTISSYTSVQDFGGWTGAAGHNLDRLEGTRTNNSISYTTANLNGFTGNLMYGFG 180 RQTDFADTISSYTSVQDFGGWTGAAGHNLDRLEGTRTNNSISYTTANLNGFTGNLMYGFG Sbjct: 121 RQTDFADTISSYTSVQDFGGWTGAAGHNLDRLEGTRTNNSISYTTANLNGFTGNLMYGFG 180 Query: 181 ETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSKAGSTPADASLLAATGTNQFTNGTNNGS 240 ETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSKAGSTPADASLLAATGTNQFTNGTNNGS Sbjct: 181 ETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSKAGSTPADASLLAATGTNQFTNGTNNGS 240 Query: 241 TAQKVLNVAASYQFGPARVYGNWSRVKQDLNTQANLTAAGVGSLATISNRTLAASNKADI 300 TAQKVLNVAASYQFGPARVYGNWSRVKQDLNTQANLTAAGVGSLATISNRTLAASNKADI Sbjct: 241 TAQKVLNVAASYQFGPARVYGNWSRVKQDLNTQANLTAAGVGSLATISNRTLAASNKADI 300 Query: 301 YEIGTAYSLSPSLKLLAAVDHTRAQFDGVSGKAKLTQVSLGTDYWLSKRTDLYAFLAYSK 360 YEIGTAYSLSPSLKLLAAVDHTRAQFDGVSGKAKLTQVSLGTDYWLSKRTDLYAFLAYSK Sbjct: 301 YEIGTAYSLSPSLKLLAAVDHTRAQFDGVSGKAKLTQVSLGTDYWLSKRTDLYAFLAYSK 360 Query: 361 ATDLNNPGVADSSGTDGNQGAVAVGIRHKF 390 ATDLNNPGVADSSGTDGNQGAVAVGIRHKF Sbjct: 361 ATDLNNPGVADSSGTDGNQGAVAVGIRHKF 390 >gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 387 Score = 494 bits (1272), Expect = e-141, Method: Compositional matrix adjust. Identities = 275/398 (69%), Positives = 317/398 (79%), Gaps = 19/398 (4%) Query: 1 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTGVVYQSKV----ATPTGGTGSKFSLNSG 56 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTG+ Y SKV A TGSKF +NSG Sbjct: 1 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTGIAYSSKVGYTDANGNAATGSKFGINSG 60 Query: 57 VIQGSRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALD--DSKTSNTLFRRKSVVGLAGNF 114 VIQGSRIGFKG EDLGGGLSAVFNLE GF++D G L D+ TS+ LFRRKSVVGL+G F Sbjct: 61 VIQGSRIGFKGVEDLGGGLSAVFNLETGFTSDDGGLQGSDAVTSSNLFRRKSVVGLSGGF 120 Query: 115 GSVLLGRQTDFADTISSYTSVQDFGGWTGAAGHNLDRLEGTRTNNSISYTTANLNGFTGN 174 G+VLLGRQTDFADTIS+YT+V DFGG +G +L+RL+GTRTNNS+SYTTANL+GFTGN Sbjct: 121 GTVLLGRQTDFADTISAYTAVADFGGVVANSGSSLNRLQGTRTNNSVSYTTANLSGFTGN 180 Query: 175 LMYGFGETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSKAGSTPADASLLAATGTNQFTN 234 L+YGFGE AG+TSAGQA+G+GGKYDNGPLGLGINYYQSKAGSTP+D SL+ A G Sbjct: 181 LIYGFGEQAGKTSAGQAYGIGGKYDNGPLGLGINYYQSKAGSTPSDTSLIPAAGATNANT 240 Query: 235 GTN-NGSTAQKVLNVAASYQFGPARVYGNWSRVKQDLNTQANLTAAGVGSLATISNRTLA 293 G+TA K LNV ASYQFGPARVY N+SRVKQDL T++ TLA Sbjct: 241 ALGVAGNTALKSLNVVASYQFGPARVYANYSRVKQDLK-----------GTPTVATATLA 289 Query: 294 ASNKADIYEIGTAYSLSPSLKLLAAVDHTRAQFDGVSGKAKLTQVSLGTDYWLSKRTDLY 353 + KAD YEIGTAYSLSPSLKLLAAVDH+RA F+GV+ K KLTQ+SLG DY+LSKRTDLY Sbjct: 290 NAQKADTYEIGTAYSLSPSLKLLAAVDHSRATFNGVNTKGKLTQISLGADYFLSKRTDLY 349 Query: 354 AFLAYSKATDLNNPGVA-DSSGTDGNQGAVAVGIRHKF 390 AF++ +A+D+ NPGV ++G+D +Q A+ GIRHKF Sbjct: 350 AFVSNMRASDIQNPGVTGGATGSDASQTAIITGIRHKF 387 >gi|300310328|ref|YP_003774420.1| porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 405 Score = 281 bits (718), Expect = 9e-77, Method: Compositional matrix adjust. Identities = 175/409 (42%), Positives = 242/409 (59%), Gaps = 23/409 (5%) Query: 1 MKKSLLALAVLGAFAGAAQAQSS-VTIYGIVDTGVVYQSKVATPTGGTGSKFSLNSGVIQ 59 MKKSLLALAVLGAFAGAA AQSS +TIYG +D + Y +K+AT TGS ++ SG+++ Sbjct: 1 MKKSLLALAVLGAFAGAAHAQSSSITIYGAIDASLTYTNKIATDGKNTGSLTAVESGLVK 60 Query: 60 GSRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGLAGNFGSVLL 119 GSR+G KG+EDLGGGL AVF LE GF+ DTG K ++ R++ VGL+GNFG+VL+ Sbjct: 61 GSRLGIKGSEDLGGGLKAVFTLENGFNVDTGEAGQGKL---MWGRQTTVGLSGNFGTVLV 117 Query: 120 GRQTDFADTISSYTSVQDFGGWTGAAGHNLDRLEGTRTNNSISYTTANLNGFTGNLMYGF 179 GRQ D + I S FG LDR +G R NNSI Y + N NG + + +YGF Sbjct: 118 GRQNDPLNDIGGIASAGGFGVPGTVHSKGLDRTDGQRLNNSIRYNSPNFNGLSFSGIYGF 177 Query: 180 GETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSK-AGSTPADASLLAATGTNQFTNGTNN 238 GE G+ G++ G+G +Y NGPL LG+ Y+QSK G + + + A N + Sbjct: 178 GEQVGRAVGGRSIGLGSQYVNGPLSLGLGYFQSKMGGGSDGSSDVNAKAACNGAGEKDHA 237 Query: 239 GSTAQKVLNVAASYQFGPARVYGNWSRVKQDL----------NTQANLTAAGVGSLATIS 288 G T K +AA+YQFGPA+VYG +S V+ L N + A G+ S Sbjct: 238 GDTCLKTWTLAAAYQFGPAKVYGAFSHVRLPLAKLHTKVRKDNNFGAMYDAKTGTGYNPS 297 Query: 289 NRTL-----AASNKADIYEIGTAYSLSPSLKLLAAVDHTRAQFDGVSGKAKLTQVSLGTD 343 + T A + ++IG +Y L PSL L++AV HTRA+F G + +L Q++LG Sbjct: 298 DATAFSIGGANHKSSQTFDIGMSYQLMPSLTLMSAVQHTRAKFVGAA-SGRLLQLNLGAK 356 Query: 344 YWLSKRTDLYAFLAYSKATDLNNPGVA--DSSGTDGNQGAVAVGIRHKF 390 Y LSKRT YA + +++D+ N G++ G D +Q A++ G+ H F Sbjct: 357 YDLSKRTSAYALVRNLRSSDMYNVGLSKDQEPGIDRSQTAISTGLIHTF 405 >gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 372 Score = 260 bits (664), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 160/380 (42%), Positives = 221/380 (58%), Gaps = 46/380 (12%) Query: 24 VTIYGIVDTGVVYQSKVATPTGGTGSKFSLNSGVIQGSRIGFKGTEDLGGGLSAVFNLEA 83 VT+YG++D +VY SKV G S+ SL+SG SRIG +G E+LG GL+A+F LE Sbjct: 26 VTVYGVIDMSLVYTSKVGPDNG---SRASLDSGDAMASRIGLRGREELGDGLAAIFQLET 82 Query: 84 GFSNDTGALDDSKTSNTLFRRKSVVGLAGNFGSVLLGRQTDFADTI-SSYTSVQDFGGWT 142 GF+ D GA+ T TLF RKSVVGLAG FG++ +GRQTD+ + I YTS Q FGG Sbjct: 83 GFAGDDGAM---ATPGTLFDRKSVVGLAGRFGTLTVGRQTDYLEEIGQQYTSFQIFGGGG 139 Query: 143 GAAGH--NLDRLEGTRTNNSISYTTANLNGFTGNLMYGFGETAGQTSAGQAFGVGGKYDN 200 A H +LDR+ G R+NNS+ + TA G G+ YG GE AG T +GQ+ GVGG + Sbjct: 140 VRAAHFNSLDRITGARSNNSLRFDTAEYGGLRGSFYYGAGEVAGSTRSGQSLGVGGNFRR 199 Query: 201 GPLGLGINYYQSKAGS--TPADASLLAATGTNQFTNGTNNGSTAQKVLNVAASYQFGPAR 258 G +G+G Y+QSK S PA A G T K + ASYQ GPA+ Sbjct: 200 GNVGVGAAYFQSKLASDALPARA-----------------GDTELKTFTLGASYQAGPAK 242 Query: 259 VYGNWSRVKQDLNTQANLTAAGVGSLATISNRTLAASNKADIYEIGTAYSLSPSLKLLAA 318 ++ WS++++ TQ L ++G L I++ T +A++ ++G Y+L L LLA+ Sbjct: 243 LFAAWSQIRRP--TQQPLASSG---LVAITSAT-----RANVLDVGVDYALDSKLHLLAS 292 Query: 319 VDHTRAQFDGVSG---KAKLTQVSLGTDYWLSKRTDLYAFLAYSKATDLNNPGV-----A 370 V H RA +G + TQV+LG D LSKRTD+YA + +A D+ NPG+ + Sbjct: 293 VIHDRADLSRAAGGATRGSTTQVNLGVDLLLSKRTDVYAMASRQQARDVLNPGIISAAYS 352 Query: 371 DSSGTDGNQGAVAVGIRHKF 390 + D +Q + VG+RHKF Sbjct: 353 SAPADDSSQNVLRVGLRHKF 372 >gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 181 bits (458), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 146/404 (36%), Positives = 188/404 (46%), Gaps = 66/404 (16%) Query: 1 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTGVVYQSKVATPTGGTGSKFSLNSGVIQG 60 MKK+LL A+L A A AQSSV+IYG++D G+ Y S GG ++SG+ QG Sbjct: 1 MKKTLLVAAMLAGGATTAHAQSSVSIYGLIDLGLTYYSSAPKSGGGGARLLRMDSGIAQG 60 Query: 61 SRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGLAG-NFGSVLL 119 SRIGFKGTEDLGGG++A F LE GF D G+L LF R+S VGL +GS+ + Sbjct: 61 SRIGFKGTEDLGGGMNAFFTLETGFGADDGSLGQ---GGLLFGRQSFVGLGSTQWGSLSV 117 Query: 120 GRQTDFADTI------SSYTSVQDFG-GWTGAAGH----NLDRLEGTRTNNSISYTTANL 168 GRQ DF I + + FG G A H N G RTNNSI Y +A Sbjct: 118 GRQYDFMANIGGQYAMGALSPAGSFGWGLHADAAHGTALNNHIYAGDRTNNSIKYNSAKF 177 Query: 169 NGFTGNLMYGFGETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSKAGSTPADASLLAATG 228 GF+ M G GETAG +AG+ G+YDNGP + Y K Sbjct: 178 GGFSFGAMVGLGETAGNNNAGRTVSATGQYDNGPFSGALAYTDIK--------------- 222 Query: 229 TNQFTNGTNNGSTAQKVLNVAASYQFGPARVYGNWSRVKQDLNTQANLTAAGVGSLATIS 288 + GS + ++ A YQ G +G ++VK + NT A Sbjct: 223 -------DSTGSFSTRIYGGGARYQIGAFTPFGVVTQVK-NTNTSA-------------- 260 Query: 289 NRTLAASNKADIYEIGTAYSLSPSLKLLAAVDHTRAQFDGVSGKAKLTQVSLGTDYWLSK 348 KA YE+GT Y+L+P L AA + GV L DY +SK Sbjct: 261 --------KATTYELGTVYALTPLWDLAAAYQFQKRN-QGVGNAQALVAT---VDYKISK 308 Query: 349 RTDLYAFLAYSKATDLNNPGV--ADSSGTDGNQGAVAVGIRHKF 390 RTDLY Y + N V GNQ A+ +G+RH+F Sbjct: 309 RTDLYVGAVYDRDKGYNAYPVFGGGIQSATGNQTALRLGMRHRF 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 0.365 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: 1,158,134 Number of extensions: 49747 Number of successful extensions: 187 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 134 Number of HSP's successfully gapped: 14 Length of query: 390 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 303 Effective length of database: 1,207,925 Effective search space: 366001275 Effective search space used: 366001275 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: 131 (55.1 bits)