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= 0021.0022.p (309 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311996|ref|YP_003776088.1| TRAP-type C4-dicarboxylate tran... 575 e-165 gi|300310180|ref|YP_003774272.1| TRAP-type C4-dicarboxylate tran... 135 4e-33 gi|300310440|ref|YP_003774532.1| TrapT dctQ-M fusion permease, d... 76 3e-15 >gi|300311996|ref|YP_003776088.1| TRAP-type C4-dicarboxylate transport system large permease [Herbaspirillum seropedicae SmR1] Length = 449 Score = 575 bits (1481), Expect = e-165, Method: Compositional matrix adjust. Identities = 296/302 (98%), Positives = 302/302 (100%) Query: 8 GGTLGILLPPSITMILYAVAAEQSLGRLFLAGIGPGVLLVILFAGYAVFRARKEYKLAHA 67 GGTLGILLPPSITMILYAVAAEQSLGRLFLAGIGPGVLLV+LFAGYAV+RARKEY+LAHA Sbjct: 148 GGTLGILLPPSITMILYAVAAEQSLGRLFLAGIGPGVLLVLLFAGYAVYRARKEYRLAHA 207 Query: 68 VYTAGGAKSAYLDDEHFTLAQKVEMLPRVLPFLILLIGVMVALYGGLATPSETAGLGALL 127 VY+AGGAKSAYLDDEHFTLAQKVEMLPRVLPFLILLIGVMVALYGGLATPSETAGLGALL Sbjct: 208 VYSAGGAKSAYLDDEHFTLAQKVEMLPRVLPFLILLIGVMVALYGGLATPSETAGLGALL 267 Query: 128 ALVLIAVVYRIYKPKEIAPFLSSTIKESGMLLLIIGMSLLYSYVMSYLHISQSAAQWVVD 187 ALVLIAVVYRIYKP+EIAPFLSSTIKESGMLLLIIGMSLLYSYVMSYLHISQSAAQWVVD Sbjct: 268 ALVLIAVVYRIYKPREIAPFLSSTIKESGMLLLIIGMSLLYSYVMSYLHISQSAAQWVVD 327 Query: 188 LHLSKWLLLAVILGMVIVLGFFLPPVSIILMTAPIILPPLKAAGFDLIWFGIVMTVVMEM 247 LHLSKWLLLAVILGMVIVLGFFLPPVSIILMTAPIILPPLKAAGFDLIWFGIVMTVVMEM Sbjct: 328 LHLSKWLLLAVILGMVIVLGFFLPPVSIILMTAPIILPPLKAAGFDLIWFGIVMTVVMEM 387 Query: 248 GLIHPPVGLNLFVIKNIAPDIALGDVIKGTIPFLALMFLAVLLLCMFPGIATVLPDLLMG 307 GLIHPPVGLNLFVIKNIAPDIALGDVIKGTIPFLALMFLAVLLLCMFPGIAT+LPDLLMG Sbjct: 388 GLIHPPVGLNLFVIKNIAPDIALGDVIKGTIPFLALMFLAVLLLCMFPGIATLLPDLLMG 447 Query: 308 AK 309 AK Sbjct: 448 AK 449 >gi|300310180|ref|YP_003774272.1| TRAP-type C4-dicarboxylate transport system large permease [Herbaspirillum seropedicae SmR1] Length = 426 Score = 135 bits (340), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 98/297 (32%), Positives = 163/297 (54%), Gaps = 16/297 (5%) Query: 9 GTLGILLPPSITMILYAVAAEQSLGRLFLAGIGPGVLLVILFAGYAVFRARKEYKLAHAV 68 G LGIL+PPSI M++Y+V+ S+G+LF+AG+ PG+LL L F ARK Sbjct: 144 GALGILIPPSIVMVMYSVSTNTSVGKLFMAGVVPGLLLAFLLGVTTWFLARK-------- 195 Query: 69 YTAGGAKSAYLDDEHFTLAQKVEMLPRVLPFLILLIGVMVALYGGLATPSETAGLGALLA 128 + Y + T A++ + L L++ VM +Y G+ TP+E A + A+ A Sbjct: 196 -------NNYPRLKKATWAERAAAFRKSGWGLFLIVIVMGGIYTGVFTPTEAAAMAAVYA 248 Query: 129 LVLIAVVYRIYKPKEIAPFLSSTIKESGMLLLIIGMSLLYSYVMSYLHISQSAAQWVVDL 188 + VY+ K++ L + S MLL II ++L+S++++ +I Q+ A W+ D Sbjct: 249 FFIAVFVYKDLTLKQVPKVLLDSASMSAMLLYIITNAVLFSFLVTSENIPQAMAAWITDS 308 Query: 189 HLSKWLLLAVILGMVIVLGFFLPPVSIILMTAPIILPPLKAAGFDLIWFGIVMTVVMEMG 248 L L V+ ++++ G + P SI+L+ API+ P G D + FGI++ V ME+G Sbjct: 309 GLGPITFLLVVNILLLLAGNVMEPSSIVLILAPILFPVAMKLGIDPVHFGILIVVNMEVG 368 Query: 249 LIHPPVGLNLFVIKNIAPDIALGDVIKGTIPFLALMFLAVLLLCMFPGIATVLPDLL 305 + HPPVGLNL+V I + + ++ +P+L M + L+ +P ++ LP+L+ Sbjct: 369 MCHPPVGLNLYVASGIT-KMGITELTIAVMPWLLTMLGFLALVTYWPALSLWLPNLI 424 >gi|300310440|ref|YP_003774532.1| TrapT dctQ-M fusion permease, dicarboxylate transport protein [Herbaspirillum seropedicae SmR1] Length = 618 Score = 76.3 bits (186), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 77/290 (26%), Positives = 136/290 (46%), Gaps = 23/290 (7%) Query: 9 GTLGILLPPSITMILYAVAAEQSLGRLFLAGIGPGVLLVILFAGYAVFRARKEYKLAHAV 68 G + +PPS+ +I A S+ LF GI PG++L +L A A +R+ + + + Sbjct: 342 GAMAETIPPSLVLITIGSVAGVSIAALFTGGIMPGIVLAVLLAILARWRSAE---IMEGI 398 Query: 69 YTAGGAKSAYLDDEHFTLAQKVEMLPRVLPFLILLIGVMVALYGGLATPSETAGLGALLA 128 A G + A + +L R A+ G+AT +E + +G + Sbjct: 399 QRAPG-RVVLRTLIIALPALLLPILIRT------------AVVEGVATATEVSTIGIAYS 445 Query: 129 LVLIAVVYRIYKPKEIAPFLSSTIKESGMLLLIIGMSLLYSYVMSYLHISQSAAQWVVDL 188 +V +VYR + K + P L T SG +L IIG + S+ ++ S + A+ + + Sbjct: 446 VVAGLLVYRKFDWKRLYPMLVDTAALSGAILFIIGTATGMSWALTQSGFSHALAEAMTSV 505 Query: 189 HLSKWLLLAVILGMVIVLGFFLPPVSIILMTAPIILPPLKAAGFDLIWFGIVMTVVMEMG 248 K+ L V + IVLG L + +++ AP++ P KA G + + +V+ + M +G Sbjct: 506 PGGKYGFLLVSIAAFIVLGSVLEGIPAMVLFAPLLFPVAKAIGVHEVHYAMVIILSMGVG 565 Query: 249 LIHPPVGLNLF---VIKNIAPDIALGDVIKGTIPFLALMFLAVLLLCMFP 295 L PP GL + I + PD+A +K P+L + + +L++ P Sbjct: 566 LFAPPFGLGYYAACTIGRVHPDVA----VKRIWPYLGALVVGLLIVAFVP 611 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 0.330 0.146 0.432 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: 846,884 Number of extensions: 31568 Number of successful extensions: 208 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 205 Number of HSP's successfully gapped: 4 Length of query: 309 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 224 Effective length of database: 1,217,395 Effective search space: 272696480 Effective search space used: 272696480 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.8 bits) S2: 130 (54.7 bits)