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= 0007.0189.p (273 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310395|ref|YP_003774487.1| sugar ABC transporter periplasm... 308 4e-85 gi|300310062|ref|YP_003774154.1| sugar ABC transporter periplasm... 136 2e-33 gi|300311608|ref|YP_003775700.1| sugar ABC transporter periplasm... 92 4e-20 gi|300310366|ref|YP_003774458.1| sugar ABC transporter periplasm... 74 2e-14 gi|300313776|ref|YP_003777868.1| D-xylose ABC transporter peripl... 57 2e-09 >gi|300310395|ref|YP_003774487.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 308 bits (788), Expect = 4e-85, Method: Compositional matrix adjust. Identities = 163/281 (58%), Positives = 206/281 (73%), Gaps = 9/281 (3%) Query: 1 VSLLCIAFGFTGMSF-------SASAAXAASIGATLIVTDARHDIAKQTSDVEDLIQKKI 53 VS L I F M+ A A S+GA +I TDA H++AKQ +D+ED++Q+ I Sbjct: 23 VSKLKIGMSFQEMNNPYFVSMKKALDEAAKSLGAKVIATDAAHNVAKQIADIEDMLQQNI 82 Query: 54 DILLLNPTDSVGIQSAVKSAKKAGIVVVTVDANAQGPVDSFVGSKNFDAGQAACTYLANT 113 DILL+NPTDS G+++AVK+AK ++VV VDANA GPVD FVGSKN DAG +C LA+ Sbjct: 83 DILLINPTDSAGVEAAVKAAKARNVIVVAVDANASGPVDMFVGSKNKDAGYQSCRALADA 142 Query: 114 LKGKGDVAILDGIPVVPILERVRGCKAAFANFPGIKLVATQNGKQERDQALSVTENILQS 173 + GKG+VAILDGIPVVPIL+RV GCK A A + IKLVATQNG+Q+R AL V EN++QS Sbjct: 143 IGGKGEVAILDGIPVVPILQRVEGCKQALAEYKDIKLVATQNGRQDRSVALGVVENMIQS 202 Query: 174 HPKLQGMFSVNDIGALGALSAIESSGKDVKLVSVDGAPDAIKAILKSNAKFIATAAQYPR 233 P L+G+FSVND GA+GAL+AI+ SGKD+KL SVDGAP+A+KAI F+ T AQ+PR Sbjct: 203 RPNLKGIFSVNDGGAMGALAAIQGSGKDIKLTSVDGAPEAVKAI-ADGGPFVETTAQFPR 261 Query: 234 DQIRLALGVALAKKWGA-ATPAAVPVDIKLIDKAQAAGFSW 273 DQ+R+ L +ALAKKWGA P VP+D+ + K AAGFSW Sbjct: 262 DQVRVGLAMALAKKWGARVVPKEVPIDVMPVTKKNAAGFSW 302 >gi|300310062|ref|YP_003774154.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 316 Score = 136 bits (343), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 98/252 (38%), Positives = 148/252 (58%), Gaps = 6/252 (2%) Query: 27 ATLIVTDARHDIAKQTSDVEDLIQKKIDILLLNPTDSVGIQSAVKSAKKAGIVVVTVDAN 86 A + V +++D+ Q +E+ I K+D+++LN DS G+ AVK A+KAGIVVV VD Sbjct: 62 AKVTVVSSKYDLNTQVGQIENFIANKVDLIVLNAADSKGVGPAVKKAQKAGIVVVAVDVA 121 Query: 87 AQGPVDSFVGSKNFDAGQAACTYLANTLKGKGDVAILDGIPVVPILERVRGCKAAFANFP 146 A G + V S N AG +C +LA L+GKG+V I++G PV +++RV GCKA F P Sbjct: 122 AAGADVT-VMSDNTMAGAESCKFLAEKLQGKGNVVIVNGPPVSAVMDRVTGCKAEFKKSP 180 Query: 147 GIKLVA-TQNGKQERDQALSVTENILQSHPKLQGMFSVNDIGALGALSAIESSGK-DVKL 204 GIK+++ QN RD ++ N+L + PK+ +F++ND A+GA AI + + D+K Sbjct: 181 GIKILSDNQNAGGSRDGGMTTMSNLLAAQPKIDAVFAINDPTAIGAELAIRQAKRSDIKW 240 Query: 205 VS-VDGAPDAIKAILKSNAKFIATAAQYPRDQIRLALGVALAKKWGAATPAAVP-VDIKL 262 +S VDGAPDA +A+ S + F A+ AQ P ++ + A G A V + +KL Sbjct: 241 ISGVDGAPDAERALKDSKSLFAASPAQDPYGMAAESVAIGYAVMNGRAPQQKVKLLPVKL 300 Query: 263 IDKAQAAGFS-W 273 I + A + W Sbjct: 301 ITRDNVADYQGW 312 >gi|300311608|ref|YP_003775700.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 92.0 bits (227), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 80/245 (32%), Positives = 121/245 (49%), Gaps = 17/245 (6%) Query: 35 RHDIAKQTSDVEDLIQKKIDILLLNPTDSVGIQSAVKSAKKAGIVVVTVDAN-------A 87 D A Q VE +I K++ L++ P DS + VK A AGI+VV +D Sbjct: 73 EQDTANQIKIVEQMIVSKVNALVIAPADSKALVPVVKKAIDAGIIVVNIDNKLDDAALKE 132 Query: 88 QGPVDSFVGSKNFDAGQAACTYLANTLKGKGDVAILDGIPVV-PILERVRGCKAAFANFP 146 +G FVG N + A YL L+ VAI++G+ +R G + A + Sbjct: 133 KGITVPFVGPDNRKGAKLAGDYLGKQLQKGDKVAIIEGVSTTFNAQQRTLGFQDAMKDV- 191 Query: 147 GIKLVATQNGKQERDQALSVTENILQSHPKLQGMFSVNDIGALGALSAIESSGK--DVKL 204 G +V Q+G+ E DQ V +IL +HP ++ + + ND ALGA++AI ++GK V+L Sbjct: 192 GANVVTVQSGQWEIDQGNKVAASILNAHPDIKAILAGNDNMALGAVAAIRAAGKTGKVQL 251 Query: 205 VSVDGAPDAIKAILKSNAKFIATAAQYPRDQ----IRLALGVALAKKWGAATPAAVPVDI 260 V D +AIK +LK + + +AT Q+ + Q I AL KK +A V + Sbjct: 252 VGYDNI-NAIKPMLK-DGRVLATVDQFAQQQAVFGIETALKALSEKKPQSALGGVVETKV 309 Query: 261 KLIDK 265 L+ K Sbjct: 310 SLVTK 314 >gi|300310366|ref|YP_003774458.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 73.6 bits (179), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 55/211 (26%), Positives = 103/211 (48%), Gaps = 14/211 (6%) Query: 22 AASIGATLIVTDARHDIAKQTSDVEDLIQKKIDILLLNPTDSVGIQSAVKSAKKAGIVVV 81 A G L DA+ Q + I +K+D++ +P G ++ ++ AK A I V+ Sbjct: 58 AKQAGVNLKFADAQQKQENQVKAIRSFIAQKVDVIAFSPVVESGWETVLREAKAAKIPVI 117 Query: 82 ----TVDANAQGPVDSFVGSKNFDAGQAACTYLANTLKGK--GDVAILD---GIPVVPIL 132 V+ + + +F+GS + G+ A +L K GD+ I++ + P + Sbjct: 118 LTDRAVNVSDKSLYVTFIGSDFVEEGRRAGRWLLEKAKSMPAGDINIVELQGTVGSAPAI 177 Query: 133 ERVRGCKAAFANFPGIKLVATQNGKQERDQALSVTENILQSH-PKLQGMFSVNDIGALGA 191 +R G + P +K++ +Q G R + V E L++ K+ +++ ND A+GA Sbjct: 178 DRKAGFEEVIKGEPRLKIIRSQTGDFTRAKGKEVMEAFLKAEGKKINVLYAHNDDMAIGA 237 Query: 192 LSAIESS----GKDVKLVSVDGAPDAIKAIL 218 + AIE + GKD+ ++S+DG A +A++ Sbjct: 238 IQAIEEAGMKPGKDIIIISIDGVKGAFEAMM 268 >gi|300313776|ref|YP_003777868.1| D-xylose ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 338 Score = 57.0 bits (136), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 58/206 (28%), Positives = 102/206 (49%), Gaps = 21/206 (10%) Query: 20 AXAASIGATLIVTDARHDIAKQTSDVEDLIQKKIDILLLNPTDSVGIQSAVKSAKKAGIV 79 A A +GA + V A +Q S +E+LI + +D++++ P ++ + + +K AKKAGI Sbjct: 55 AAAEKLGAKVYVQSADASEQRQISQIENLISRGVDVIVIVPFNATVLTNTIKEAKKAGIK 114 Query: 80 VVTVDA---NAQGPVDSFVGSKNFDAGQAACTYLANTLKGKGDVAILDGIPVVPILERVR 136 V++ D NA VD+++ N G+ + +K KG+ +L G P + R Sbjct: 115 VLSYDRLILNAD--VDAYISFDNEKVGEMQAEGILK-VKNKGNFFLLGGSPTDNNAKMFR 171 Query: 137 GCKAA----FANFPGIKLVATQNGKQER-DQALSVTENILQ-SHPKLQGMFSVNDIGALG 190 + + + IK+V Q K+ +ALS+ EN L ++ K+ + + ND A G Sbjct: 172 EGQMKALKPYIDKGDIKIVGQQWVKEWNPTEALSIVENALTANNNKIDAIVASNDGTAGG 231 Query: 191 ALSAIES---------SGKDVKLVSV 207 A+ A+ + SG+D L +V Sbjct: 232 AIQALAAQKLAGKVPVSGQDADLAAV 257 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 0.317 0.132 0.367 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: 695,992 Number of extensions: 26420 Number of successful extensions: 132 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 123 Number of HSP's successfully gapped: 7 Length of query: 273 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 189 Effective length of database: 1,222,130 Effective search space: 230982570 Effective search space used: 230982570 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 (21.7 bits) S2: 130 (54.7 bits)