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= 0002.0692.p (163 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) ... 204 3e-54 gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspir... 200 6e-53 gi|300310328|ref|YP_003774420.1| porin signal peptide protein [H... 108 2e-25 gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspir... 98 3e-22 gi|300311557|ref|YP_003775649.1| outer membrane porin [Herbaspir... 65 4e-12 >gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 390 Score = 204 bits (520), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 100/154 (64%), Positives = 122/154 (79%), Gaps = 1/154 (0%) Query: 10 QGSTAAKVLNLVASYQFGPARVYGNWSRVKQDLNTAANIAPTLPSTATRATTATLALARK 69 GSTA KVLN+ ASYQFGPARVYGNWSRVKQDLNT AN+ + + TLA + K Sbjct: 238 NGSTAQKVLNVAASYQFGPARVYGNWSRVKQDLNTQANLTAAGVGSLATISNRTLAASNK 297 Query: 70 ADMFELGTAYSLTPSLKLLAAVEYTTASFDTLNGKGKLTQYNLGADYWLSKRTDLYAFVS 129 AD++E+GTAYSL+PSLKLLAAV++T A FD ++GK KLTQ +LG DYWLSKRTDLYAF++ Sbjct: 298 ADIYEIGTAYSLSPSLKLLAAVDHTRAQFDGVSGKAKLTQVSLGTDYWLSKRTDLYAFLA 357 Query: 130 NLRAKDMKNPGVAADTTGTDSSQTALTVGIRHKF 163 +A D+ NPGV AD++GTD +Q A+ VGIRHKF Sbjct: 358 YSKATDLNNPGV-ADSSGTDGNQGAVAVGIRHKF 390 >gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 387 Score = 200 bits (508), Expect = 6e-53, Method: Compositional matrix adjust. Identities = 100/155 (64%), Positives = 122/155 (78%), Gaps = 11/155 (7%) Query: 9 VQGSTAAKVLNLVASYQFGPARVYGNWSRVKQDLNTAANIAPTLPSTATRATTATLALAR 68 V G+TA K LN+VASYQFGPARVY N+SRVKQDL +A TATLA A+ Sbjct: 244 VAGNTALKSLNVVASYQFGPARVYANYSRVKQDLKGTPTVA-----------TATLANAQ 292 Query: 69 KADMFELGTAYSLTPSLKLLAAVEYTTASFDTLNGKGKLTQYNLGADYWLSKRTDLYAFV 128 KAD +E+GTAYSL+PSLKLLAAV+++ A+F+ +N KGKLTQ +LGADY+LSKRTDLYAFV Sbjct: 293 KADTYEIGTAYSLSPSLKLLAAVDHSRATFNGVNTKGKLTQISLGADYFLSKRTDLYAFV 352 Query: 129 SNLRAKDMKNPGVAADTTGTDSSQTALTVGIRHKF 163 SN+RA D++NPGV TG+D+SQTA+ GIRHKF Sbjct: 353 SNMRASDIQNPGVTGGATGSDASQTAIITGIRHKF 387 >gi|300310328|ref|YP_003774420.1| porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 405 Score = 108 bits (270), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 73/176 (41%), Positives = 96/176 (54%), Gaps = 19/176 (10%) Query: 5 GTTDVQGSTAAKVLNLVASYQFGPARVYGNWS-----------RVKQDLNTAANIAPTL- 52 G D G T K L A+YQFGPA+VYG +S +V++D N A Sbjct: 232 GEKDHAGDTCLKTWTLAAAYQFGPAKVYGAFSHVRLPLAKLHTKVRKDNNFGAMYDAKTG 291 Query: 53 ----PSTATRATTATLALARKADMFELGTAYSLTPSLKLLAAVEYTTASFDTLNGKGKLT 108 PS AT A + A + + F++G +Y L PSL L++AV++T A F G+L Sbjct: 292 TGYNPSDAT-AFSIGGANHKSSQTFDIGMSYQLMPSLTLMSAVQHTRAKF-VGAASGRLL 349 Query: 109 QYNLGADYWLSKRTDLYAFVSNLRAKDMKNPGVAADTT-GTDSSQTALTVGIRHKF 163 Q NLGA Y LSKRT YA V NLR+ DM N G++ D G D SQTA++ G+ H F Sbjct: 350 QLNLGAKYDLSKRTSAYALVRNLRSSDMYNVGLSKDQEPGIDRSQTAISTGLIHTF 405 >gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 372 Score = 98.2 bits (243), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 61/160 (38%), Positives = 86/160 (53%), Gaps = 17/160 (10%) Query: 11 GSTAAKVLNLVASYQFGPARVYGNWSRVKQDLNTAANIAPTLPSTATRATTATLALARKA 70 G T K L ASYQ GPA+++ WS++++ PT A+ A + A +A Sbjct: 223 GDTELKTFTLGASYQAGPAKLFAAWSQIRR---------PTQQPLASSGLVA-ITSATRA 272 Query: 71 DMFELGTAYSLTPSLKLLAAVEYTTASFDTLNG---KGKLTQYNLGADYWLSKRTDLYAF 127 ++ ++G Y+L L LLA+V + A G +G TQ NLG D LSKRTD+YA Sbjct: 273 NVLDVGVDYALDSKLHLLASVIHDRADLSRAAGGATRGSTTQVNLGVDLLLSKRTDVYAM 332 Query: 128 VSNLRAKDMKNPGVA----ADTTGTDSSQTALTVGIRHKF 163 S +A+D+ NPG+ + DSSQ L VG+RHKF Sbjct: 333 ASRQQARDVLNPGIISAAYSSAPADDSSQNVLRVGLRHKF 372 >gi|300311557|ref|YP_003775649.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 374 Score = 64.7 bits (156), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 53/156 (33%), Positives = 73/156 (46%), Gaps = 12/156 (7%) Query: 19 NLVASYQFGPARVYGNWSRVKQDLNTAANI------APTLPSTATRATTATLALARKADM 72 NL ASY FG A+V+G W +K D ++ +TA A + + RK + Sbjct: 220 NLSASYDFGVAKVFGGWLNIKDDSGLTGSVMAADGDVSNGWTTAGAANNGSTGVKRKDNG 279 Query: 73 FELGTAYSLTPSLKLLAAVEY---TTASFDTLNGKGKLTQYNL--GADYWLSKRTDLYAF 127 F LG++Y T +L L A Y S+ + G +Y L ADY LSKRT LY Sbjct: 280 FFLGSSYKATNALTLTGAFYYDRSKNVSYVSTGNVGDGKRYTLVGWADYALSKRTQLYTT 339 Query: 128 VSNLRAKDMKNPGVAADTTGTDSSQTALTVGIRHKF 163 + +AKD + G + S T + VGIRH F Sbjct: 340 IDYNKAKDAAVYELTNSANGKN-SLTTVGVGIRHIF 374 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 0.314 0.126 0.355 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: 400,340 Number of extensions: 12256 Number of successful extensions: 82 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 74 Number of HSP's successfully gapped: 7 Length of query: 163 Length of database: 1,619,870 Length adjustment: 78 Effective length of query: 85 Effective length of database: 1,250,540 Effective search space: 106295900 Effective search space used: 106295900 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: 41 (21.6 bits) S2: 127 (53.5 bits)