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= 0020.0034.p (324 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309782|ref|YP_003773874.1| sugar ABC transporter permease ... 647 0.0 gi|300313088|ref|YP_003777180.1| sn-glycerol-3-phosphate ABC tra... 112 4e-26 gi|300309613|ref|YP_003773705.1| sugar ABC transporter permease ... 92 6e-20 gi|300310302|ref|YP_003774394.1| sugar ABC transporter permease ... 89 6e-19 gi|300311926|ref|YP_003776018.1| glycerol-3-phosphate ABC transp... 87 2e-18 >gi|300309782|ref|YP_003773874.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 647 bits (1670), Expect = 0.0, Method: Compositional matrix adjust. Identities = 323/324 (99%), Positives = 323/324 (99%) Query: 1 MSTLHSTQVSSTSSMMQSTSQPASRRQQTSPPRKERFNPIRLMQTPSVLILLAWMIVPLA 60 MSTLHSTQVSSTS MMQSTSQPASRRQQTSPPRKERFNPIRLMQTPSVLILLAWMIVPLA Sbjct: 1 MSTLHSTQVSSTSPMMQSTSQPASRRQQTSPPRKERFNPIRLMQTPSVLILLAWMIVPLA 60 Query: 61 MTIYFSVNRYNLMAPDQTGFVGLENYAFLLQDPAFWPSIGNTALLIGSVLAISVIGGTLL 120 MTIYFSVNRYNLMAPDQTGFVGLENYAFLLQDPAFWPSIGNTALLIGSVLAISVIGGTLL Sbjct: 61 MTIYFSVNRYNLMAPDQTGFVGLENYAFLLQDPAFWPSIGNTALLIGSVLAISVIGGTLL 120 Query: 121 AVLFDQPFRGRGIARLLVIGPFFVMPTVAALIWKNMIMHPVYGILAYVMRHLGLEPIDWL 180 AVLFDQPFRGRGIARLLVIGPFFVMPTVAALIWKNMIMHPVYGILAYVMRHLGLEPIDWL Sbjct: 121 AVLFDQPFRGRGIARLLVIGPFFVMPTVAALIWKNMIMHPVYGILAYVMRHLGLEPIDWL 180 Query: 181 AEYPMLSVIIIVAWQWIPFAFLILLTALQSLDTDQKEAAQLDGAGPVRIFFYIVLPHLKR 240 AEYPMLSVIIIVAWQWIPFAFLILLTALQSLDTDQKEAAQLDGAGPVRIFFYIVLPHLKR Sbjct: 181 AEYPMLSVIIIVAWQWIPFAFLILLTALQSLDTDQKEAAQLDGAGPVRIFFYIVLPHLKR 240 Query: 241 AITVVIMIETIFLLSVFAEIFTTTAGGPGTATTNLTFLVYSIGLQQFDIGIASAGGIFAV 300 AITVVIMIETIFLLSVFAEIFTTTAGGPGTATTNLTFLVYSIGLQQFDIGIASAGGIFAV Sbjct: 241 AITVVIMIETIFLLSVFAEIFTTTAGGPGTATTNLTFLVYSIGLQQFDIGIASAGGIFAV 300 Query: 301 VLANIVSFFLVRMLARNLKGVNEK 324 VLANIVSFFLVRMLARNLKGVNEK Sbjct: 301 VLANIVSFFLVRMLARNLKGVNEK 324 >gi|300313088|ref|YP_003777180.1| sn-glycerol-3-phosphate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 294 Score = 112 bits (280), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 86/285 (30%), Positives = 139/285 (48%), Gaps = 12/285 (4%) Query: 33 RKERFNPI---RLMQTPSVLILLAWMIVPLAMTIYFSVNRYNLMAPDQTGFVGLENYAFL 89 ++ RF L+ P ++I L + P +Y S+ + + FV +N+ L Sbjct: 3 KRARFTSKWLPYLLVAPQIIITLLFFFWPAVQALYQSMLLQDAFG-GYSEFVWFDNFKTL 61 Query: 90 LQDPAFWPSIGNTALLIGSVLAISVIGGTLLAVLFDQPFRGRGIARLLVIGPFFVMPTVA 149 DP + S TA+ V + LLAV D+ RG I + +I P+ V P V Sbjct: 62 FGDPTYLESFRTTAIFSALVAFFGLALSLLLAVFADRVRRGASIYKTFLIWPYAVSPVVV 121 Query: 150 ALIWKNMIMHPVYGILAYVMRHLGLEPIDWL--AEYPMLSVIIIVAWQWIPFAFLILLTA 207 ++W ++ P GIL++V+ LGL P D++ + M+ ++I W+ I + FL L Sbjct: 122 GVLWM-FLLSPSLGILSHVLSWLGL-PWDYMINGTHAMILIVIAAIWKQISYNFLFFLAG 179 Query: 208 LQSLDTDQKEAAQLDGAGPVRIFFYIVLPHLKRAITVVIMIETIF-LLSVFAEIFTTTAG 266 LQS+ EAA +DGAGPV+ FF IV P + + ++ ++ F + TT G Sbjct: 180 LQSIPKSLIEAAAIDGAGPVKRFFTIVFPLISPTTFFLFVVNVVYAFFDTFVIVDATTHG 239 Query: 267 GPGTATTNLTFLVYSIGLQQFDIGIASAGGIF---AVVLANIVSF 308 GPG T L + V+S G + D+G ++A + V+L +V F Sbjct: 240 GPGKDTEILVYKVFSDGFKGGDLGGSAAQSVVLMALVILLTVVQF 284 >gi|300309613|ref|YP_003773705.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 311 Score = 92.0 bits (227), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 77/272 (28%), Positives = 137/272 (50%), Gaps = 11/272 (4%) Query: 46 PSVLILLAWMIVPLAMTIYFSVNRYNLMAPDQTGFVGLENYAFLLQDPAFWPSIGNTAL- 104 P+ ++ L +++ P+ TIY S ++ M + FVGL NY L P F+ ++ N L Sbjct: 44 PACVMTLVYVLYPILYTIYLSFFSWDGMTEPR--FVGLANYVELFHAPTFYTALKNNVLW 101 Query: 105 LIGSVLAISVIGGTLLAVLFDQPFRGRGIARLLVIGPFFVMPTVAALIWKNMIMHPVYGI 164 L+ +LA + G +A+ +Q G + + L PF + V L++ + P +G+ Sbjct: 102 LLMFLLAPPM--GLAIALYLNQKVIGMRVVKSLFFAPFVLSGVVVGLMY-SWFYDPSFGL 158 Query: 165 LAYVMRHLGLEPIDWLAEYPMLSVIIIVAWQWIPFAFLILLTALQSLDTDQKEAAQLDGA 224 L+ + G+ P+ A Y +I W + ++ LT L +L+ DQ EAA+++GA Sbjct: 159 LSLLFGQ-GV-PVLGDARYATFGIIFAALWPQTAYCMILFLTGLTALNHDQVEAARMEGA 216 Query: 225 GPVRIFFYIVLPHLKRAITVVIMIETIFLLSVFAEIFTTTAGGPGTATTNLTFLVYSIGL 284 + Y++LP L+ + ++ I L F I T+GGP ++T L + Y + Sbjct: 217 KGWTMLRYVILPQLRSTTFMAFVVSIIGALRSFDLISVMTSGGPYESSTVLAYYAYDQAI 276 Query: 285 QQFDIGIASAGGI--FAVVLANIVSFFLVRML 314 + + G ++A + FA++L IV + L RML Sbjct: 277 KYYRQGYSAAVAVTLFAIMLVYIV-YQLRRML 307 >gi|300310302|ref|YP_003774394.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 296 Score = 88.6 bits (218), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 68/247 (27%), Positives = 123/247 (49%), Gaps = 18/247 (7%) Query: 56 IVPLAMTIYFSVNRYNLMAPDQTGFVGLENYAFLLQDPAFWPSIGNTALLIGSVLAISVI 115 I+PL + +SV ++++P+Q FVGL+ + +++D ++ + VL + + Sbjct: 25 IIPLMTVVNYSVQ--DIISPEQKVFVGLDWFREVMRDGELHAALLRQLIFSFCVLLVQIP 82 Query: 116 GGTLLAVLFDQPFRGRGIARLLVI--GPFFVMPTVAALIWKNMIMHPVYGILAYVMRHLG 173 G LA+ P +G + LVI P + V IW+ + G+ YV+ LG Sbjct: 83 LGIGLAL--AMPHKGWKSSATLVILAMPLLIPWNVVGTIWQ-IFGRADIGLGGYVLNLLG 139 Query: 174 LE------PIDWLAEYPMLSVIIIVAWQWIPFAFLILLTALQSLDTDQKEAAQLDGAGPV 227 ++ P+D L+V+++ W W P L+ L+S+ +AAQ+DGA Sbjct: 140 IDYNYASNPLD-----AWLTVLLMDVWHWTPLVALLAFAGLRSIPDAYYQAAQIDGASRW 194 Query: 228 RIFFYIVLPHLKRAITVVIMIETIFLLSVFAEIFTTTAGGPGTATTNLTFLVYSIGLQQF 287 +F YI LP ++ + + +++ + ++ E F T GGPG +TT L+ + + QF Sbjct: 195 AVFRYIQLPKMRGVLVIAVLLRFMDSFMIYTEPFVLTGGGPGNSTTFLSQYLTQKAVGQF 254 Query: 288 DIGIASA 294 D+G A+A Sbjct: 255 DLGPAAA 261 >gi|300311926|ref|YP_003776018.1| glycerol-3-phosphate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 294 Score = 87.0 bits (214), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 84/276 (30%), Positives = 137/276 (49%), Gaps = 19/276 (6%) Query: 28 QTSPPRKERFNPIRLMQTPSVLILLAWMIVPLAMTIYFSVNRYNLMAPDQTG--FVGLEN 85 P R+ P+ L+ TP +LI+ + + P I +S + L+ P G FVGL+N Sbjct: 2 DARPAFPTRWFPL-LLATPQMLIVFLFFLWPAVKAIAWS---FYLVRPFGNGSRFVGLDN 57 Query: 86 YAFLLQDPAFWPSIGNTALLIG--SVLAISVIGGTLLAVLFDQPFRGRGIARLLVIGPFF 143 Y +L D +F+ S+ T + ++LA+++ + D R + + R + I P+ Sbjct: 58 YLRILTDDSFYASLRATLVFTAGSTLLAVTIALALAACLELD--VRAKRLLRSIFIWPYA 115 Query: 144 VMPTVAALIWKNMIMHPVYGILAYVMRHLGLEPIDW----LAEYPMLSVIIIVAWQWIPF 199 V V ++ K +I +PV G+LA++ + L P W + ML++I AW +P Sbjct: 116 VAGVVVGIVLKVLI-NPVTGLLAFLNQ---LWPGVWAPHLIGAQAMLALIAAFAWTQVPL 171 Query: 200 AFLILLTALQSLDTDQKEAAQLDGAGPVRIFFYIVLPHLKRAITVVIMIETIFLLSV-FA 258 F++ ALQ + D AA +DGAGP R F I LP + A+ + +I I + F Sbjct: 172 NFILFSAALQRIPADLMGAAAIDGAGPWRRFIDIQLPMIAPALLLAGVINVIEAFTHGFG 231 Query: 259 EIFTTTAGGPGTATTNLTFLVYSIGLQQFDIGIASA 294 + T GGPG +T L + +YS G D+ +SA Sbjct: 232 LVDALTQGGPGRSTAILAYQIYSDGFIGLDLSGSSA 267 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 0.328 0.140 0.420 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: 913,643 Number of extensions: 37476 Number of successful extensions: 210 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 192 Number of HSP's successfully gapped: 11 Length of query: 324 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 239 Effective length of database: 1,217,395 Effective search space: 290957405 Effective search space used: 290957405 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 (21.7 bits) S2: 131 (55.1 bits)