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= 0037.0191.p (343 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310441|ref|YP_003774533.1| TRAP-type C4-dicarboxylate tran... 147 1e-36 gi|300313112|ref|YP_003777204.1| TRAP-type C4-dicarboxylate tran... 141 8e-35 gi|300309847|ref|YP_003773939.1| TRAP-type C4-dicarboxylate tran... 138 6e-34 gi|300310178|ref|YP_003774270.1| TRAP-type C4-dicarboxylate tran... 97 1e-21 gi|300312105|ref|YP_003776197.1| TRAP-type C4-dicarboxylate-bind... 94 2e-20 >gi|300310441|ref|YP_003774533.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 348 Score = 147 bits (372), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 90/320 (28%), Positives = 167/320 (52%), Gaps = 15/320 (4%) Query: 4 TNASKRQFLKTGLAIGGAAAAGLSGNLAFAQDKPLVTLRMSSTLPLDANSAHYVWYSRFA 63 T+ S+RQ LK G A+G A L +P + + +H V ++ A Sbjct: 11 TSVSRRQLLKAG-AVGAALP------LFSIMSRPANAAEFNYKFATGQDPSHPV--NKRA 61 Query: 64 QN----LKAAVGNKIVVNYFPSDQLGKESDVVNQVRIGSVDMMISGSSIWSTTVPEIGVL 119 Q ++ A G ++ + FP++QLG ++D+++Q+R G V+ S + ST VP G++ Sbjct: 62 QQAIDRIREATGGRLDIKLFPANQLGSDTDLMSQIRNGGVEFFNQASVVLSTLVPAAGIV 121 Query: 120 DMGYLFANLDHSGRALDGKAGAILSKMMYDRVGVQVLGWAYSLGARNVFTK-NPVRSVAE 178 + G+ F + +A+DG GA + + ++VG+ + + G R + T P+++ A+ Sbjct: 122 NTGFAFHDYKEVWQAMDGPLGAYV-RAQIEKVGLLTMSKPWDNGFRQITTSTKPIKTAAD 180 Query: 179 LKGIKLRVLPVKNFIGTLRYMGAVPTPIPFGEIYTSLQTGVVDGFEHDAPTALAGKFFEV 238 LKG+KLRV +GA PTPI F E+Y+SLQT +V+G E+ + +EV Sbjct: 181 LKGLKLRVPAAPMLTSLFSALGASPTPINFNEVYSSLQTKLVEGQENPLAIISTARLYEV 240 Query: 239 AKYCALTQHIYNPQTPVISKRSFARIPADLQKAFLDAAAEATNYQRQRAADMERDAFEKL 298 K+C ++ H+++ + ++R+F ++P D+Q+ +A +R A + A L Sbjct: 241 QKFCTISNHVWDAYWILGNRRAFEKLPKDIQEIVRRELDKAATDERADIASLSGFARNDL 300 Query: 299 KGLGLTVSTVDREALRKDVA 318 +G G+ + D+ + ++ +A Sbjct: 301 QGKGVQIIEADKNSFKEALA 320 >gi|300313112|ref|YP_003777204.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 141 bits (355), Expect = 8e-35, Method: Compositional matrix adjust. Identities = 94/318 (29%), Positives = 161/318 (50%), Gaps = 14/318 (4%) Query: 2 NTTNASKRQFLKTGLAIGGAAAAGLSGNLAFAQDKPLVTLRMSSTLPLDANSAHYVWYSR 61 +T ++R FLKT AAA GL A A + T + ++ LP+ H + + Sbjct: 4 STGKITRRNFLKTASVASAAAATGLVSTSAHAAE---FTFKYANNLPV----THPM--NA 54 Query: 62 FAQNLKAAVGN----KIVVNYFPSDQLGKESDVVNQVRIGSVDMMISGSSIWSTTVPEIG 117 A+ + AA+ +I + +P++QLG ++D+++QVR G++D I T VP Sbjct: 55 RAKEMAAAIAEQSKGRIELQLYPNNQLGTDTDMLSQVRAGAIDFFTLSPLILGTLVPAAQ 114 Query: 118 VLDMGYLFANLDHSGRALDGKAGAILSKMMYDRVGVQVLGWAYSLGARNVF-TKNPVRSV 176 + +G+ F + A+DG+ GA + K + R + + G R + + P++ Sbjct: 115 ISGIGFAFKDYSQVWPAMDGELGAHVRKQIEARSTLFAFEKIWDNGYRQITNSTKPIKVA 174 Query: 177 AELKGIKLRVLPVKNFIGTLRYMGAVPTPIPFGEIYTSLQTGVVDGFEHDAPTALAGKFF 236 +LKG+KLRV P + + A PT I F E+Y++LQT +V+G E+ K + Sbjct: 175 EDLKGMKLRVPPSPLWTSMFKAFDAAPTSINFAEVYSALQTKIVEGQENPMAIISTAKLY 234 Query: 237 EVAKYCALTQHIYNPQTPVISKRSFARIPADLQKAFLDAAAEATNYQRQRAADMERDAFE 296 EV KYC++T H+++ + +K+SF R+P DLQ+ EA QR + + Sbjct: 235 EVQKYCSITNHMWDGFWFLGNKKSFERLPKDLQELMTRIINEAGVNQRADVRKLNDSLVD 294 Query: 297 KLKGLGLTVSTVDREALR 314 ++KG GL + D ++ R Sbjct: 295 EMKGKGLAFNNADADSFR 312 >gi|300309847|ref|YP_003773939.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 345 Score = 138 bits (348), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 89/323 (27%), Positives = 164/323 (50%), Gaps = 11/323 (3%) Query: 1 MNTTNASKRQFLKTGLAIGGAAAAGLSGNLAFAQDKPLVTLRMSSTLPLDANSAHYVWYS 60 MN A K+Q + + GA A L L +P S + +H V + Sbjct: 1 MNDERA-KKQVTRRNMLKAGAVGAALP--LFSILSRPASAAEFSYKFATGQDPSHPV--N 55 Query: 61 RFAQN----LKAAVGNKIVVNYFPSDQLGKESDVVNQVRIGSVDMMISGSSIWSTTVPEI 116 + AQ ++ A ++ + FP++QLG ++D+++QVR G V+ +++ ST VP Sbjct: 56 KRAQEAIDRIRNATNGRLEIKLFPANQLGSDTDLMSQVRNGGVEFFNQANTVLSTLVPAA 115 Query: 117 GVLDMGYLFANLDHSGRALDGKAGAILSKMMYDRVGVQVLGWAYSLGARNVFTK-NPVRS 175 G+++ G+ F + +A+DG GA + + ++VG+ + + G R + T PVR+ Sbjct: 116 GIVNTGFAFHDYGAVWKAMDGPLGAHV-RAQIEKVGLLTMSKPWDNGFRQITTSTKPVRN 174 Query: 176 VAELKGIKLRVLPVKNFIGTLRYMGAVPTPIPFGEIYTSLQTGVVDGFEHDAPTALAGKF 235 ++KG+KLRV +GA PTPI F E+Y+SLQT +V+G E+ + Sbjct: 175 AGDVKGLKLRVPAAPMLTSLFSALGASPTPINFNEVYSSLQTKLVEGQENPLAIISTARL 234 Query: 236 FEVAKYCALTQHIYNPQTPVISKRSFARIPADLQKAFLDAAAEATNYQRQRAADMERDAF 295 +EV K+C ++ H+++ + ++R+F ++P D+Q+ +A + +R A A Sbjct: 235 YEVQKFCTISNHVWDAYWILGNRRAFEKLPKDIQEIVRRELDKAASDERADIAAFSGFAR 294 Query: 296 EKLKGLGLTVSTVDREALRKDVA 318 L GL + D+++ ++ +A Sbjct: 295 NDLASKGLQIVEADKDSFKEALA 317 >gi|300310178|ref|YP_003774270.1| TRAP-type C4-dicarboxylate transport system periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 334 Score = 97.4 bits (241), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 81/312 (25%), Positives = 147/312 (47%), Gaps = 14/312 (4%) Query: 22 AAAGLSGNLAFAQDKPLVTLRMSSTLPLDANSAHYVWYSRFAQNLKAAVGNKIVVNYFPS 81 AAA +S N AFAQ +P+V ++ S + D RF + + A ++ + +P+ Sbjct: 12 AAAIVSTN-AFAQ-QPIV-IKFSHVVANDTPKGKAA--ERFKELAEKATKGRVKIEVYPN 66 Query: 82 DQLGKESDVVNQVRIGSVDMMI-SGSSIWSTTVPEIGVLDMGYLFANLDHSGRALDGKAG 140 L K+ + + +++G+V M+ S + V E V D+ Y+F + R +G G Sbjct: 67 STLYKDKEELEALQLGAVQMLAPSLAKFGPLGVKEFEVFDLPYIFPTKEVLYRVTEGPIG 126 Query: 141 AILSKMMYDRVGVQVLGWAYSLGARNVFTKN-PVRSVAELKGIKLRVLPVKNFIGTLRYM 199 L K + + + G AY V + N P+ A+ +G+K+R+ K +R + Sbjct: 127 KDLFKKLEPK---GITGLAYWDNGFKVMSANKPLHHPADFRGLKMRIQSSKVLDAQMRAL 183 Query: 200 GAVPTPIPFGEIYTSLQTGVVDGFEHDAPTALAGKFFEVAKYCALTQHIYNPQTPVISKR 259 GA P + F E+Y +LQTGVVDG E+ K EV K+ ++ H Y +++K+ Sbjct: 184 GANPQVLAFSEVYQALQTGVVDGTENPPSNLYTQKMHEVQKHVTVSNHGYLGYAVIVNKK 243 Query: 260 SFARIPADLQKAFLDAAAEATNYQRQRAADMERDAFEKLKGLGLT----VSTVDREALRK 315 + +P+D++ A +AT Y A A ++ G T ++ ++ RK Sbjct: 244 FWDGLPSDIRTQLEGAMKDATKYANAIAQQENDAALAAVEKTGKTTVYRLTDAEKAEWRK 303 Query: 316 DVAPLWSEFTTQ 327 + P+ + ++ Sbjct: 304 ALLPVQQQMASR 315 >gi|300312105|ref|YP_003776197.1| TRAP-type C4-dicarboxylate-binding periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 94.0 bits (232), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 82/317 (25%), Positives = 140/317 (44%), Gaps = 14/317 (4%) Query: 12 LKTGLAIGGAAAAGLSGNLAFAQD--KPLVTLRMSSTLPLDANSAHYVWYSRFAQNLKAA 69 L+T LA GL A AQ +P++ ++ S + D RF + + A Sbjct: 6 LRTALAACAFVTLGLPQPAALAQQPQQPII-IKFSHVVANDTPKGKGA--ERFKELAEKA 62 Query: 70 VGNKIVVNYFPSDQLGKESDVVNQVRIGSVDMMI-SGSSIWSTTVPEIGVLDMGYLFANL 128 ++ V +P+ L K+ + + +++GSV M+ S + E V D+ Y+F + Sbjct: 63 TQGRVKVEVYPNSTLYKDKEELEALQLGSVQMLAPSLAKFGPLGAREFEVFDLPYIFPDK 122 Query: 129 DHSGRALDGKAGAILSKMMYDRVGVQVLGWAYSLGARNVFTKN-PVRSVAELKGIKLRVL 187 R +G G L + + G + G AY V T N P+ VA+ + +K+R+ Sbjct: 123 AVLKRVTEGPIGQGLFQKLE---GKGIKGLAYWDNGMKVMTANRPLHKVADFRALKMRIQ 179 Query: 188 PVKNFIGTLRYMGAVPTPIPFGEIYTSLQTGVVDGFEHDAPTALAGKFFEVAKYCALTQH 247 K R + A P + F E+Y ++QTGVVDG E+ K EV ++ H Sbjct: 180 SSKVLDEQFRALKANPQVLAFSEVYQAMQTGVVDGSENTPSNVYTQKMHEVQSNLTVSDH 239 Query: 248 IYNPQTPVISKRSFARIPADLQKAFLDAAAEATNYQRQRAADMERDAFEKLKGLG----L 303 Y +++K+ + +PAD++ A +AT Y A DA +K G Sbjct: 240 GYIGYAVIVNKKFWEALPADIRSQLEAAMKQATLYANTIAQKENDDALAAIKASGKTRVY 299 Query: 304 TVSTVDREALRKDVAPL 320 T+S ++ R+ + P+ Sbjct: 300 TLSEQEKAEWRRALLPV 316 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 0.319 0.134 0.387 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: 976,017 Number of extensions: 39826 Number of successful extensions: 120 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 112 Number of HSP's successfully gapped: 6 Length of query: 343 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 257 Effective length of database: 1,212,660 Effective search space: 311653620 Effective search space used: 311653620 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 131 (55.1 bits)