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= 0001.0200.p (391 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) ... 651 0.0 gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspir... 516 e-147 gi|300310328|ref|YP_003774420.1| porin signal peptide protein [H... 293 2e-80 gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspir... 251 7e-68 gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) ... 189 4e-49 >gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 390 Score = 651 bits (1680), Expect = 0.0, Method: Compositional matrix adjust. Identities = 340/391 (86%), Positives = 361/391 (92%), Gaps = 1/391 (0%) Query: 1 MKKSLLALAVLGAFAGAAHAQSSVTIYGIVDTGVVYQSKVATATGGTGTKFSLNSGIIQG 60 MKKSLLALAVLGAFAGAA AQSSVTIYGIVDTGVVYQSKVAT TGGTG+KFSLNSG+IQG Sbjct: 1 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTGVVYQSKVATPTGGTGSKFSLNSGVIQG 60 Query: 61 SRIGFKGVEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGLTGGFGSVLLG 120 SRIGFKG EDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGL G FGSVLLG Sbjct: 61 SRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGLAGNFGSVLLG 120 Query: 121 RQTDFADTISAYTAVNDFGGWVSNSGSGLDRLQGTRTNNSISYTTANLNGFTGNLMYGFG 180 RQTDFADTIS+YT+V DFGGW +G LDRL+GTRTNNSISYTTANLNGFTGNLMYGFG Sbjct: 121 RQTDFADTISSYTSVQDFGGWTGAAGHNLDRLEGTRTNNSISYTTANLNGFTGNLMYGFG 180 Query: 181 ETAGQTSAGQSFGIGGKYDNGPLGLGINYYQSKAGSTASDTSLLGASGASSVGTTSTLAG 240 ETAGQTSAGQ+FG+GGKYDNGPLGLGINYYQSKAGST +D SLL A+G + T T G Sbjct: 181 ETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSKAGSTPADASLLAATGTNQF-TNGTNNG 239 Query: 241 DTAQKVLNVAASYQFGPARVYGNYSRVKQDLNTQANLTAIGVGSLTSLTNRTLARSNKAD 300 TAQKVLNVAASYQFGPARVYGN+SRVKQDLNTQANLTA GVGSL +++NRTLA SNKAD Sbjct: 240 STAQKVLNVAASYQFGPARVYGNWSRVKQDLNTQANLTAAGVGSLATISNRTLAASNKAD 299 Query: 301 IYEIGTAYSLSPSLKLLAAVDHTRANFDGVTNKTKLTQVSLGTDYWLSKRTDLYAFLAYT 360 IYEIGTAYSLSPSLKLLAAVDHTRA FDGV+ K KLTQVSLGTDYWLSKRTDLYAFLAY+ Sbjct: 300 IYEIGTAYSLSPSLKLLAAVDHTRAQFDGVSGKAKLTQVSLGTDYWLSKRTDLYAFLAYS 359 Query: 361 KASDMANPGVSDSTGTDGNQGAVAVGIRHKF 391 KA+D+ NPGV+DS+GTDGNQGAVAVGIRHKF Sbjct: 360 KATDLNNPGVADSSGTDGNQGAVAVGIRHKF 390 >gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 387 Score = 516 bits (1329), Expect = e-147, Method: Compositional matrix adjust. Identities = 290/398 (72%), Positives = 329/398 (82%), Gaps = 18/398 (4%) Query: 1 MKKSLLALAVLGAFAGAAHAQSSVTIYGIVDTGVVYQSKV----ATATGGTGTKFSLNSG 56 MKKSLLALAVLGAFAGAA AQSSVTIYGIVDTG+ Y SKV A TG+KF +NSG Sbjct: 1 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTGIAYSSKVGYTDANGNAATGSKFGINSG 60 Query: 57 IIQGSRIGFKGVEDLGGGLSAVFNLEAGFSNDTGALD--DSKTSNTLFRRKSVVGLTGGF 114 +IQGSRIGFKGVEDLGGGLSAVFNLE GF++D G L D+ TS+ LFRRKSVVGL+GGF Sbjct: 61 VIQGSRIGFKGVEDLGGGLSAVFNLETGFTSDDGGLQGSDAVTSSNLFRRKSVVGLSGGF 120 Query: 115 GSVLLGRQTDFADTISAYTAVNDFGGWVSNSGSGLDRLQGTRTNNSISYTTANLNGFTGN 174 G+VLLGRQTDFADTISAYTAV DFGG V+NSGS L+RLQGTRTNNS+SYTTANL+GFTGN Sbjct: 121 GTVLLGRQTDFADTISAYTAVADFGGVVANSGSSLNRLQGTRTNNSVSYTTANLSGFTGN 180 Query: 175 LMYGFGETAGQTSAGQSFGIGGKYDNGPLGLGINYYQSKAGSTASDTSLLGASGASSVGT 234 L+YGFGE AG+TSAGQ++GIGGKYDNGPLGLGINYYQSKAGST SDTSL+ A+GA++ T Sbjct: 181 LIYGFGEQAGKTSAGQAYGIGGKYDNGPLGLGINYYQSKAGSTPSDTSLIPAAGATNANT 240 Query: 235 TSTLAGDTAQKVLNVAASYQFGPARVYGNYSRVKQDLNTQANLTAIGVGSLTSLTNRTLA 294 +AG+TA K LNV ASYQFGPARVY NYSRVKQDL G+ T T TLA Sbjct: 241 ALGVAGNTALKSLNVVASYQFGPARVYANYSRVKQDLK----------GTPTVAT-ATLA 289 Query: 295 RSNKADIYEIGTAYSLSPSLKLLAAVDHTRANFDGVTNKTKLTQVSLGTDYWLSKRTDLY 354 + KAD YEIGTAYSLSPSLKLLAAVDH+RA F+GV K KLTQ+SLG DY+LSKRTDLY Sbjct: 290 NAQKADTYEIGTAYSLSPSLKLLAAVDHSRATFNGVNTKGKLTQISLGADYFLSKRTDLY 349 Query: 355 AFLAYTKASDMANPGVS-DSTGTDGNQGAVAVGIRHKF 391 AF++ +ASD+ NPGV+ +TG+D +Q A+ GIRHKF Sbjct: 350 AFVSNMRASDIQNPGVTGGATGSDASQTAIITGIRHKF 387 >gi|300310328|ref|YP_003774420.1| porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 405 Score = 293 bits (749), Expect = 2e-80, Method: Compositional matrix adjust. Identities = 180/418 (43%), Positives = 247/418 (59%), Gaps = 40/418 (9%) Query: 1 MKKSLLALAVLGAFAGAAHAQSS-VTIYGIVDTGVVYQSKVATATGGTGTKFSLNSGIIQ 59 MKKSLLALAVLGAFAGAAHAQSS +TIYG +D + Y +K+AT TG+ ++ SG+++ Sbjct: 1 MKKSLLALAVLGAFAGAAHAQSSSITIYGAIDASLTYTNKIATDGKNTGSLTAVESGLVK 60 Query: 60 GSRIGFKGVEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGLTGGFGSVLL 119 GSR+G KG EDLGGGL AVF LE GF+ DTG K ++ R++ VGL+G FG+VL+ Sbjct: 61 GSRLGIKGSEDLGGGLKAVFTLENGFNVDTGEAGQGKL---MWGRQTTVGLSGNFGTVLV 117 Query: 120 GRQTDFADTISAYTAVNDFGGWVSNSGSGLDRLQGTRTNNSISYTTANLNGFTGNLMYGF 179 GRQ D + I + FG + GLDR G R NNSI Y + N NG + + +YGF Sbjct: 118 GRQNDPLNDIGGIASAGGFGVPGTVHSKGLDRTDGQRLNNSIRYNSPNFNGLSFSGIYGF 177 Query: 180 GETAGQTSAGQSFGIGGKYDNGPLGLGINYYQSKAGSTASDTSLLGASGASSVGTTSTLA 239 GE G+ G+S G+G +Y NGPL LG+ Y+QSK G + +S + A A + A Sbjct: 178 GEQVGRAVGGRSIGLGSQYVNGPLSLGLGYFQSKMGGGSDGSSDVNAKAACNGAGEKDHA 237 Query: 240 GDTAQKVLNVAASYQFGPARVYGNYS-----------RVKQDLN-------------TQA 275 GDT K +AA+YQFGPA+VYG +S +V++D N + Sbjct: 238 GDTCLKTWTLAAAYQFGPAKVYGAFSHVRLPLAKLHTKVRKDNNFGAMYDAKTGTGYNPS 297 Query: 276 NLTAIGVGSLTSLTNRTLARSNKADIYEIGTAYSLSPSLKLLAAVDHTRANFDGVTNKTK 335 + TA +G +++T ++IG +Y L PSL L++AV HTRA F G + + Sbjct: 298 DATAFSIGGANHKSSQT---------FDIGMSYQLMPSLTLMSAVQHTRAKFVGAASG-R 347 Query: 336 LTQVSLGTDYWLSKRTDLYAFLAYTKASDMANPGVS--DSTGTDGNQGAVAVGIRHKF 391 L Q++LG Y LSKRT YA + ++SDM N G+S G D +Q A++ G+ H F Sbjct: 348 LLQLNLGAKYDLSKRTSAYALVRNLRSSDMYNVGLSKDQEPGIDRSQTAISTGLIHTF 405 >gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 372 Score = 251 bits (641), Expect = 7e-68, Method: Compositional matrix adjust. Identities = 154/379 (40%), Positives = 218/379 (57%), Gaps = 43/379 (11%) Query: 24 VTIYGIVDTGVVYQSKVATATGGTGTKFSLNSGIIQGSRIGFKGVEDLGGGLSAVFNLEA 83 VT+YG++D +VY SKV G++ SL+SG SRIG +G E+LG GL+A+F LE Sbjct: 26 VTVYGVIDMSLVYTSKVGP---DNGSRASLDSGDAMASRIGLRGREELGDGLAAIFQLET 82 Query: 84 GFSNDTGALDDSKTSNTLFRRKSVVGLTGGFGSVLLGRQTDFADTI-SAYTAVNDFGGWV 142 GF+ D GA+ T TLF RKSVVGL G FG++ +GRQTD+ + I YT+ FGG Sbjct: 83 GFAGDDGAM---ATPGTLFDRKSVVGLAGRFGTLTVGRQTDYLEEIGQQYTSFQIFGGGG 139 Query: 143 SNSG--SGLDRLQGTRTNNSISYTTANLNGFTGNLMYGFGETAGQTSAGQSFGIGGKYDN 200 + + LDR+ G R+NNS+ + TA G G+ YG GE AG T +GQS G+GG + Sbjct: 140 VRAAHFNSLDRITGARSNNSLRFDTAEYGGLRGSFYYGAGEVAGSTRSGQSLGVGGNFRR 199 Query: 201 GPLGLGINYYQSKAGSTASDTSLLGASGASSVGTTSTLAGDTAQKVLNVAASYQFGPARV 260 G +G+G Y+QSK S A AGDT K + ASYQ GPA++ Sbjct: 200 GNVGVGAAYFQSKLASDA----------------LPARAGDTELKTFTLGASYQAGPAKL 243 Query: 261 YGNYSRVKQDLNTQANLTAIGVGSLTSLTNRTLARSNKADIYEIGTAYSLSPSLKLLAAV 320 + +S++++ TQ L + G+ ++TS T +A++ ++G Y+L L LLA+V Sbjct: 244 FAAWSQIRRP--TQQPLASSGLVAITSAT--------RANVLDVGVDYALDSKLHLLASV 293 Query: 321 DHTRANFD---GVTNKTKLTQVSLGTDYWLSKRTDLYAFLAYTKASDMANPGV-----SD 372 H RA+ G + TQV+LG D LSKRTD+YA + +A D+ NPG+ S Sbjct: 294 IHDRADLSRAAGGATRGSTTQVNLGVDLLLSKRTDVYAMASRQQARDVLNPGIISAAYSS 353 Query: 373 STGTDGNQGAVAVGIRHKF 391 + D +Q + VG+RHKF Sbjct: 354 APADDSSQNVLRVGLRHKF 372 >gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 189 bits (479), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 151/408 (37%), Positives = 200/408 (49%), Gaps = 73/408 (17%) Query: 1 MKKSLLALAVLGAFAGAAHAQSSVTIYGIVDTGVVYQSKVATATGGTGTKFSLNSGIIQG 60 MKK+LL A+L A AHAQSSV+IYG++D G+ Y S + GG ++SGI QG Sbjct: 1 MKKTLLVAAMLAGGATTAHAQSSVSIYGLIDLGLTYYSSAPKSGGGGARLLRMDSGIAQG 60 Query: 61 SRIGFKGVEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGL-TGGFGSVLL 119 SRIGFKG EDLGGG++A F LE GF D G+L LF R+S VGL + +GS+ + Sbjct: 61 SRIGFKGTEDLGGGMNAFFTLETGFGADDGSLGQG---GLLFGRQSFVGLGSTQWGSLSV 117 Query: 120 GRQTDFADTISAYTAVNDFG-----GWVSNS----GSGLDR--LQGTRTNNSISYTTANL 168 GRQ DF I A+ GW ++ G+ L+ G RTNNSI Y +A Sbjct: 118 GRQYDFMANIGGQYAMGALSPAGSFGWGLHADAAHGTALNNHIYAGDRTNNSIKYNSAKF 177 Query: 169 NGFTGNLMYGFGETAGQTSAGQSFGIGGKYDNGPLGLGINYYQSKAGSTASDTSLLGASG 228 GF+ M G GETAG +AG++ G+YDNGP + Y K Sbjct: 178 GGFSFGAMVGLGETAGNNNAGRTVSATGQYDNGPFSGALAYTDIK--------------- 222 Query: 229 ASSVGTTSTLAGDTAQKVLNVAASYQFGPARVYGNYSRVKQDLNTQANLTAIGVGSLTSL 288 S G+ ST ++ A YQ G +G ++VK + NT A Sbjct: 223 -DSTGSFST-------RIYGGGARYQIGAFTPFGVVTQVK-NTNTSA------------- 260 Query: 289 TNRTLARSNKADIYEIGTAYSLSPSLKLLAAVDHTRANFDGVTNKTKLTQVSLGTDYWLS 348 KA YE+GT Y+L+P L AA + N GV N L DY +S Sbjct: 261 ---------KATTYELGTVYALTPLWDLAAAYQFQKRN-QGVGNAQALVAT---VDYKIS 307 Query: 349 KRTDLYAFLAYTK-----ASDMANPGVSDSTGTDGNQGAVAVGIRHKF 391 KRTDLY Y + A + G+ +T GNQ A+ +G+RH+F Sbjct: 308 KRTDLYVGAVYDRDKGYNAYPVFGGGIQSAT---GNQTALRLGMRHRF 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 0.130 0.362 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: 1,061,617 Number of extensions: 43677 Number of successful extensions: 171 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 116 Number of HSP's successfully gapped: 14 Length of query: 391 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 304 Effective length of database: 1,207,925 Effective search space: 367209200 Effective search space used: 367209200 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)