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= 0020.0277.p (334 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) ... 664 0.0 gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspir... 437 e-124 gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspir... 234 8e-63 gi|300310328|ref|YP_003774420.1| porin signal peptide protein [H... 221 5e-59 gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) ... 139 5e-34 >gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 390 Score = 664 bits (1713), Expect = 0.0, Method: Compositional matrix adjust. Identities = 334/334 (100%), Positives = 334/334 (100%) Query: 1 VIQGSRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGLAGNFGS 60 VIQGSRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGLAGNFGS Sbjct: 57 VIQGSRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGLAGNFGS 116 Query: 61 VLLGRQTDFADTISSYTSVQDFGGWTGAAGHNLDRLEGTRTNNSISYTTANLNGFTGNLM 120 VLLGRQTDFADTISSYTSVQDFGGWTGAAGHNLDRLEGTRTNNSISYTTANLNGFTGNLM Sbjct: 117 VLLGRQTDFADTISSYTSVQDFGGWTGAAGHNLDRLEGTRTNNSISYTTANLNGFTGNLM 176 Query: 121 YGFGETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSKAGSTPADASLLAATGTNQFTNGT 180 YGFGETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSKAGSTPADASLLAATGTNQFTNGT Sbjct: 177 YGFGETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSKAGSTPADASLLAATGTNQFTNGT 236 Query: 181 NNGSTAQKVLNVAASYQFGPARVYGNWSRVKQDLNTQANLTAAGVGSLATISNRTLAASN 240 NNGSTAQKVLNVAASYQFGPARVYGNWSRVKQDLNTQANLTAAGVGSLATISNRTLAASN Sbjct: 237 NNGSTAQKVLNVAASYQFGPARVYGNWSRVKQDLNTQANLTAAGVGSLATISNRTLAASN 296 Query: 241 KADIYEIGTAYSLSPSLKLLAAVDHTRAQFDGVSGKAKLTQVSLGTDYWLSKRTDLYAFL 300 KADIYEIGTAYSLSPSLKLLAAVDHTRAQFDGVSGKAKLTQVSLGTDYWLSKRTDLYAFL Sbjct: 297 KADIYEIGTAYSLSPSLKLLAAVDHTRAQFDGVSGKAKLTQVSLGTDYWLSKRTDLYAFL 356 Query: 301 AYSKATDLNNPGVADSSGTDGNQGAVAVGIRHKF 334 AYSKATDLNNPGVADSSGTDGNQGAVAVGIRHKF Sbjct: 357 AYSKATDLNNPGVADSSGTDGNQGAVAVGIRHKF 390 >gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 387 Score = 437 bits (1125), Expect = e-124, Method: Compositional matrix adjust. Identities = 229/338 (67%), Positives = 269/338 (79%), Gaps = 15/338 (4%) Query: 1 VIQGSRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALD--DSKTSNTLFRRKSVVGLAGNF 58 VIQGSRIGFKG EDLGGGLSAVFNLE GF++D G L D+ TS+ LFRRKSVVGL+G F Sbjct: 61 VIQGSRIGFKGVEDLGGGLSAVFNLETGFTSDDGGLQGSDAVTSSNLFRRKSVVGLSGGF 120 Query: 59 GSVLLGRQTDFADTISSYTSVQDFGGWTGAAGHNLDRLEGTRTNNSISYTTANLNGFTGN 118 G+VLLGRQTDFADTIS+YT+V DFGG +G +L+RL+GTRTNNS+SYTTANL+GFTGN Sbjct: 121 GTVLLGRQTDFADTISAYTAVADFGGVVANSGSSLNRLQGTRTNNSVSYTTANLSGFTGN 180 Query: 119 LMYGFGETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSKAGSTPADASLLAATGTNQFTN 178 L+YGFGE AG+TSAGQA+G+GGKYDNGPLGLGINYYQSKAGSTP+D SL+ A G Sbjct: 181 LIYGFGEQAGKTSAGQAYGIGGKYDNGPLGLGINYYQSKAGSTPSDTSLIPAAGATNANT 240 Query: 179 GTN-NGSTAQKVLNVAASYQFGPARVYGNWSRVKQDLNTQANLTAAGVGSLATISNRTLA 237 G+TA K LNV ASYQFGPARVY N+SRVKQDL T++ TLA Sbjct: 241 ALGVAGNTALKSLNVVASYQFGPARVYANYSRVKQDLK-----------GTPTVATATLA 289 Query: 238 ASNKADIYEIGTAYSLSPSLKLLAAVDHTRAQFDGVSGKAKLTQVSLGTDYWLSKRTDLY 297 + KAD YEIGTAYSLSPSLKLLAAVDH+RA F+GV+ K KLTQ+SLG DY+LSKRTDLY Sbjct: 290 NAQKADTYEIGTAYSLSPSLKLLAAVDHSRATFNGVNTKGKLTQISLGADYFLSKRTDLY 349 Query: 298 AFLAYSKATDLNNPGVA-DSSGTDGNQGAVAVGIRHKF 334 AF++ +A+D+ NPGV ++G+D +Q A+ GIRHKF Sbjct: 350 AFVSNMRASDIQNPGVTGGATGSDASQTAIITGIRHKF 387 >gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 372 Score = 234 bits (597), Expect = 8e-63, Method: Compositional matrix adjust. Identities = 144/343 (41%), Positives = 199/343 (58%), Gaps = 43/343 (12%) Query: 5 SRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGLAGNFGSVLLG 64 SRIG +G E+LG GL+A+F LE GF+ D GA+ T TLF RKSVVGLAG FG++ +G Sbjct: 60 SRIGLRGREELGDGLAAIFQLETGFAGDDGAM---ATPGTLFDRKSVVGLAGRFGTLTVG 116 Query: 65 RQTDFADTI-SSYTSVQDFGGWTGAAGH--NLDRLEGTRTNNSISYTTANLNGFTGNLMY 121 RQTD+ + I YTS Q FGG A H +LDR+ G R+NNS+ + TA G G+ Y Sbjct: 117 RQTDYLEEIGQQYTSFQIFGGGGVRAAHFNSLDRITGARSNNSLRFDTAEYGGLRGSFYY 176 Query: 122 GFGETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSKAGS--TPADASLLAATGTNQFTNG 179 G GE AG T +GQ+ GVGG + G +G+G Y+QSK S PA A Sbjct: 177 GAGEVAGSTRSGQSLGVGGNFRRGNVGVGAAYFQSKLASDALPARA-------------- 222 Query: 180 TNNGSTAQKVLNVAASYQFGPARVYGNWSRVKQDLNTQANLTAAGVGSLATISNRTLAAS 239 G T K + ASYQ GPA+++ WS++++ TQ L ++G L I++ T Sbjct: 223 ---GDTELKTFTLGASYQAGPAKLFAAWSQIRRP--TQQPLASSG---LVAITSAT---- 270 Query: 240 NKADIYEIGTAYSLSPSLKLLAAVDHTRAQFDGVSG---KAKLTQVSLGTDYWLSKRTDL 296 +A++ ++G Y+L L LLA+V H RA +G + TQV+LG D LSKRTD+ Sbjct: 271 -RANVLDVGVDYALDSKLHLLASVIHDRADLSRAAGGATRGSTTQVNLGVDLLLSKRTDV 329 Query: 297 YAFLAYSKATDLNNPGV-----ADSSGTDGNQGAVAVGIRHKF 334 YA + +A D+ NPG+ + + D +Q + VG+RHKF Sbjct: 330 YAMASRQQARDVLNPGIISAAYSSAPADDSSQNVLRVGLRHKF 372 >gi|300310328|ref|YP_003774420.1| porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 405 Score = 221 bits (564), Expect = 5e-59, Method: Compositional matrix adjust. Identities = 139/352 (39%), Positives = 199/352 (56%), Gaps = 22/352 (6%) Query: 1 VIQGSRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGLAGNFGS 60 +++GSR+G KG+EDLGGGL AVF LE GF+ DTG K ++ R++ VGL+GNFG+ Sbjct: 58 LVKGSRLGIKGSEDLGGGLKAVFTLENGFNVDTGEAGQGKL---MWGRQTTVGLSGNFGT 114 Query: 61 VLLGRQTDFADTISSYTSVQDFGGWTGAAGHNLDRLEGTRTNNSISYTTANLNGFTGNLM 120 VL+GRQ D + I S FG LDR +G R NNSI Y + N NG + + + Sbjct: 115 VLVGRQNDPLNDIGGIASAGGFGVPGTVHSKGLDRTDGQRLNNSIRYNSPNFNGLSFSGI 174 Query: 121 YGFGETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSK-AGSTPADASLLAATGTNQFTNG 179 YGFGE G+ G++ G+G +Y NGPL LG+ Y+QSK G + + + A N Sbjct: 175 YGFGEQVGRAVGGRSIGLGSQYVNGPLSLGLGYFQSKMGGGSDGSSDVNAKAACNGAGEK 234 Query: 180 TNNGSTAQKVLNVAASYQFGPARVYGNWSRVKQDL----------NTQANLTAAGVGSLA 229 + G T K +AA+YQFGPA+VYG +S V+ L N + A G+ Sbjct: 235 DHAGDTCLKTWTLAAAYQFGPAKVYGAFSHVRLPLAKLHTKVRKDNNFGAMYDAKTGTGY 294 Query: 230 TISNRTL-----AASNKADIYEIGTAYSLSPSLKLLAAVDHTRAQFDGVSGKAKLTQVSL 284 S+ T A + ++IG +Y L PSL L++AV HTRA+F G + +L Q++L Sbjct: 295 NPSDATAFSIGGANHKSSQTFDIGMSYQLMPSLTLMSAVQHTRAKFVGAA-SGRLLQLNL 353 Query: 285 GTDYWLSKRTDLYAFLAYSKATDLNNPGVA--DSSGTDGNQGAVAVGIRHKF 334 G Y LSKRT YA + +++D+ N G++ G D +Q A++ G+ H F Sbjct: 354 GAKYDLSKRTSAYALVRNLRSSDMYNVGLSKDQEPGIDRSQTAISTGLIHTF 405 >gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 139 bits (349), Expect = 5e-34, Method: Compositional matrix adjust. Identities = 121/348 (34%), Positives = 155/348 (44%), Gaps = 66/348 (18%) Query: 1 VIQGSRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGLAG-NFG 59 + QGSRIGFKGTEDLGGG++A F LE GF D G+L LF R+S VGL +G Sbjct: 57 IAQGSRIGFKGTEDLGGGMNAFFTLETGFGADDGSLGQG---GLLFGRQSFVGLGSTQWG 113 Query: 60 SVLLGRQTDFADTIS------SYTSVQDFG-GWTGAAGH----NLDRLEGTRTNNSISYT 108 S+ +GRQ DF I + + FG G A H N G RTNNSI Y Sbjct: 114 SLSVGRQYDFMANIGGQYAMGALSPAGSFGWGLHADAAHGTALNNHIYAGDRTNNSIKYN 173 Query: 109 TANLNGFTGNLMYGFGETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSKAGSTPADASLL 168 +A GF+ M G GETAG +AG+ G+YDNGP + Y K Sbjct: 174 SAKFGGFSFGAMVGLGETAGNNNAGRTVSATGQYDNGPFSGALAYTDIK----------- 222 Query: 169 AATGTNQFTNGTNNGSTAQKVLNVAASYQFGPARVYGNWSRVKQDLNTQANLTAAGVGSL 228 + GS + ++ A YQ G +G ++VK + NT A Sbjct: 223 -----------DSTGSFSTRIYGGGARYQIGAFTPFGVVTQVK-NTNTSA---------- 260 Query: 229 ATISNRTLAASNKADIYEIGTAYSLSPSLKLLAAVDHTRAQFDGVSGKAKLTQVSLGTDY 288 KA YE+GT Y+L+P L AA + GV L DY Sbjct: 261 ------------KATTYELGTVYALTPLWDLAAAYQFQKRN-QGVGNAQALVAT---VDY 304 Query: 289 WLSKRTDLYAFLAYSKATDLNNPGV--ADSSGTDGNQGAVAVGIRHKF 334 +SKRTDLY Y + N V GNQ A+ +G+RH+F Sbjct: 305 KISKRTDLYVGAVYDRDKGYNAYPVFGGGIQSATGNQTALRLGMRHRF 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 0.370 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: 1,024,824 Number of extensions: 42712 Number of successful extensions: 152 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 108 Number of HSP's successfully gapped: 14 Length of query: 334 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 248 Effective length of database: 1,212,660 Effective search space: 300739680 Effective search space used: 300739680 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)