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= 0001.0351.p (321 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309715|ref|YP_003773807.1| nitrate/sulfonate/bicarbonate A... 618 e-178 gi|300312620|ref|YP_003776712.1| ABC transporter periplasmic pro... 69 6e-13 gi|300313870|ref|YP_003777962.1| nitrate/sulfonate/bicarbonate A... 65 8e-12 gi|300310977|ref|YP_003775069.1| alkanesulfonates ABC transporte... 60 2e-10 gi|300309986|ref|YP_003774078.1| nitrate/sulfonate/bicarbonate A... 57 3e-09 >gi|300309715|ref|YP_003773807.1| nitrate/sulfonate/bicarbonate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 319 Score = 618 bits (1593), Expect = e-178, Method: Compositional matrix adjust. Identities = 300/305 (98%), Positives = 303/305 (99%) Query: 17 GFSAPSHAADDVIRLGNLKFAHYGAVSYIKEIAPKCGIKVDEKVFAKGPDVMQGILAGEL 76 GFSA SHAADDVIRLGNLKFAHYGAVSYIKEIAPKCGIKVDEKVFAKGPDVMQGILAGEL Sbjct: 15 GFSAASHAADDVIRLGNLKFAHYGAVSYIKEIAPKCGIKVDEKVFAKGPDVMQGILAGEL 74 Query: 77 DVGTTASEAAISGRANGAPIYVVAGFAKGGARLVAGKDSGIKSVKDLKGKKVGVTRGGIH 136 DVGTTASEAAISGRANGAPIYVVAGFAKGGARLVAGKDSGIKSVKDLKGKKVGVTRGGIH Sbjct: 75 DVGTTASEAAISGRANGAPIYVVAGFAKGGARLVAGKDSGIKSVKDLKGKKVGVTRGGIH 134 Query: 137 EVLLDAELGQNGLSAKDVTIVYLAFADLNQALLGKNIDAMMQSEPQSSQAINKGFGVEVM 196 EVLLDAELGQNGLSAKDVTIVYLAFADLNQALLGKNIDAMMQSEPQSSQAINKGFGVEVM Sbjct: 135 EVLLDAELGQNGLSAKDVTIVYLAFADLNQALLGKNIDAMMQSEPQSSQAINKGFGVEVM 194 Query: 197 KPYDTPIGEPYRTMVMTEKFYTEKRPLAEKFMRCFLEATKTFIDKPEVAEKYVREVIFKN 256 KPYDTPIGEPYRTMVMTEKFY EKRPLAEKFMRCFLEATKTFIDKPEVAEKYVREVIFKN Sbjct: 195 KPYDTPIGEPYRTMVMTEKFYNEKRPLAEKFMRCFLEATKTFIDKPEVAEKYVREVIFKN 254 Query: 257 QITKEDFYDAIGNSPYAYDITAEHIQVTTDTMAKYGTGKMAKPPLAKDWVKTDLLEQAKK 316 QI+KEDFYDAIGNSPYAYDITAEHIQ+TTDTMAKYGTGKMAKPP+AKDWVKTDLLEQAKK Sbjct: 255 QISKEDFYDAIGNSPYAYDITAEHIQITTDTMAKYGTGKMAKPPVAKDWVKTDLLEQAKK 314 Query: 317 SMNLK 321 SMNLK Sbjct: 315 SMNLK 319 >gi|300312620|ref|YP_003776712.1| ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 333 Score = 68.6 bits (166), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 77/266 (28%), Positives = 119/266 (44%), Gaps = 28/266 (10%) Query: 51 KCGIKVDEKVFAKGPDVMQGILAGELDVGTTASEAAISGRANGAPIYVVAGFAKGGARLV 110 K G+ V+ F G D+++ I+ G+LD G A++ + GA + VV G G LV Sbjct: 52 KYGLDVELIEFKSGTDLVKAIVGGQLDSGVFGFSNAVAWASKGADLKVVGGAQLGYHALV 111 Query: 111 AGKDSGIKSVKDLKGKKVGVTRGG--IHEVLLDAELGQNGLSAKDVTIVYLAFADLNQAL 168 A +DSGI V DLKGK + G VL L G+ A DV ++ ++ Q+L Sbjct: 112 AREDSGINKVADLKGKTLASQAEGSTADTVLKGVVLRDAGIKADDVNVMGVSPQVAVQSL 171 Query: 169 LGKNIDAMMQSEPQSSQAINKGFGVEVMKPYDT--PIGE--PYRTMVMTEKFYT--EKRP 222 +GK +DA EPQ+ A +++ P IGE P+ MV+ T +KR Sbjct: 172 VGKRVDAAFLFEPQARIA-------QLIAPVKQVYEIGEVWPFPCMVVITSGETLKKKRE 224 Query: 223 LAEKFMRCFLEATKTFIDKPEVAEK-----YVREVIFKN----QITKED-FYDAIGNSPY 272 K + +A KP A K ++ E K ++ +ED DAI + + Sbjct: 225 AVWKSLDAQRDAITLLQKKPAEASKLIAGYFIAEPTLKTLKHGEMLREDVIRDAIKSQTF 284 Query: 273 AYDIT---AEHIQVTTDTMAKYGTGK 295 I+ + +Q D + G+ K Sbjct: 285 TPKISKKDQDRMQEIADILQSQGSLK 310 >gi|300313870|ref|YP_003777962.1| nitrate/sulfonate/bicarbonate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 323 Score = 65.1 bits (157), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 57/166 (34%), Positives = 85/166 (51%), Gaps = 10/166 (6%) Query: 24 AADDVIRLGNLKFAHY----GAVSYIKEIAPKCGIKVDEKVFAKGPDVMQGILAGELDVG 79 AAD V+R+G KF G+ + + P+ G V FA GP + + + A +D+G Sbjct: 32 AADKVLRIGYQKFNTLNILKGSGKLEQALQPQ-GWSVKWFEFAAGPQLTEALNANAIDLG 90 Query: 80 TTASEAAISGRANGA-PIYVVA--GFAKGGARLVAGKDSGIKSVKDLKGKKVGVTRGGIH 136 A ++ A+G +Y+ A + KG VA ++S I+SV DLKGKKV RG Sbjct: 91 HAADTPSVFANASGVNAVYLGAEQPYPKGIGIFVA-QESPIRSVADLKGKKVATGRGWNV 149 Query: 137 EVLLDAELGQNGLSAKDVTIVYLA-FADLNQALLGKNIDAMMQSEP 181 + LL L + GLS +D+ VY+ AD+ A N+DA +P Sbjct: 150 QFLLLKALEEVGLSYRDIEPVYVTNAADVRAAFQSGNVDAATLWDP 195 >gi|300310977|ref|YP_003775069.1| alkanesulfonates ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 327 Score = 60.5 bits (145), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 56/183 (30%), Positives = 82/183 (44%), Gaps = 12/183 (6%) Query: 46 KEIAPKCGIKVDEKVFAKGPDVMQGILAGELDVGTTASEAAISGRANGAP-IYVVAGFAK 104 K + P G++V FA GP +++ + G +D G + +A GA +Y Sbjct: 67 KRLQP-LGVEVKWAEFAAGPQLLEALNVGSVDFGYVGEAPPVFAQAAGADFVYTAYEIPT 125 Query: 105 GGAR-LVAGKDSGIKSVKDLKGKKVGVTRGGIHEVLLDAELGQNGLSAKDVTIVYLAFAD 163 A L+ K+S IKSV +LKGKK+ +G L+ A L + GL D+ VYLA AD Sbjct: 126 PDAEGLLVQKNSPIKSVAELKGKKIAFNKGSDVHWLVVALLKKAGLQYSDIQPVYLAPAD 185 Query: 164 LNQALLGKNIDAMMQSEPQSSQAINKGFGVEVMKPYDTPIGEPYRTMVMTEKFYTEKRPL 223 A +DA +P + A K G + T +G V +F+ RP Sbjct: 186 ARAAFERGAVDAWAIWDPFQA-AAEKQVGARRLA---TGVG-----AVNHHQFFLSARPF 236 Query: 224 AEK 226 A K Sbjct: 237 AAK 239 >gi|300309986|ref|YP_003774078.1| nitrate/sulfonate/bicarbonate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 328 Score = 56.6 bits (135), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 53/164 (32%), Positives = 85/164 (51%), Gaps = 13/164 (7%) Query: 28 VIRLGNLKFAHYGAVS-------YIKEIAPKCGIKVDEKVFAKGPD-VMQGILAGELDVG 79 VIRL +A+Y S +++E G +V + V ++G + ++ + + +D G Sbjct: 34 VIRL---DYAYYSPPSLVLRKFGWLEEDLKAQGTEV-KWVLSQGSNRALEYLNSDSVDFG 89 Query: 80 TTASEAAISGRANGAPIYVVAGFAKG-GARLVAGKDSGIKSVKDLKGKKVGVTRGGIHEV 138 +TA AA+ RANG P+ V +++ L GK+S +KS+ +LKGKK+ T+G + Sbjct: 90 STAGLAALLARANGNPVKAVYIYSRPEWTALAVGKESPVKSINELKGKKIAATKGTDPYL 149 Query: 139 LLDAELGQNGLSAKDVTIVYLAFADLNQALLGKNIDAMMQSEPQ 182 L L +NGL DV IV+L AD AL + A +P Sbjct: 150 FLLRALHENGLKKSDVEIVHLQHADGRAALEQGRVAAWAGLDPH 193 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 0.316 0.133 0.379 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: 980,165 Number of extensions: 40361 Number of successful extensions: 162 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 158 Number of HSP's successfully gapped: 8 Length of query: 321 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 236 Effective length of database: 1,217,395 Effective search space: 287305220 Effective search space used: 287305220 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.6 bits) S2: 130 (54.7 bits)