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= 0020.0496.p (302 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... 600 e-173 gi|300310062|ref|YP_003774154.1| sugar ABC transporter periplasm... 118 5e-28 gi|300311608|ref|YP_003775700.1| sugar ABC transporter periplasm... 80 1e-16 gi|300313776|ref|YP_003777868.1| D-xylose ABC transporter peripl... 70 2e-13 gi|300310366|ref|YP_003774458.1| sugar ABC transporter periplasm... 62 6e-11 >gi|300310395|ref|YP_003774487.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 600 bits (1548), Expect = e-173, Method: Compositional matrix adjust. Identities = 301/302 (99%), Positives = 302/302 (100%) Query: 1 MKKALIALALTTLAAAPAMAQEVSKLKIGMSFQEMNNPYFVSMKKALDEAAKSLGAKVIA 60 MKKALIALALTTLAAAPAMAQEVSKLKIGMSFQEMNNPYFVSMKKALDEAAKSLGAKVIA Sbjct: 1 MKKALIALALTTLAAAPAMAQEVSKLKIGMSFQEMNNPYFVSMKKALDEAAKSLGAKVIA 60 Query: 61 TDAAHNVAKQIADIEDMLQQNIDILLINPTDSAGVEAAVKAAKARNVIVVAVDANASGPV 120 TDAAHNVAKQIADIEDMLQQNIDILLINPTDSAGVEAAVKAAKARNVIVVAVDANASGPV Sbjct: 61 TDAAHNVAKQIADIEDMLQQNIDILLINPTDSAGVEAAVKAAKARNVIVVAVDANASGPV 120 Query: 121 DMFVGSKNKDAGYQSCRALADAIGGKGEVAILDGIPVVPILQRVEGCRQALAEYKDIKLV 180 DMFVGSKNKDAGYQSCRALADAIGGKGEVAILDGIPVVPILQRVEGC+QALAEYKDIKLV Sbjct: 121 DMFVGSKNKDAGYQSCRALADAIGGKGEVAILDGIPVVPILQRVEGCKQALAEYKDIKLV 180 Query: 181 ATQNGRQDRSVALGVVENMIQSRPNLKGIFSVNDGGAMGALAAIQGSGKDIKLTSVDGAP 240 ATQNGRQDRSVALGVVENMIQSRPNLKGIFSVNDGGAMGALAAIQGSGKDIKLTSVDGAP Sbjct: 181 ATQNGRQDRSVALGVVENMIQSRPNLKGIFSVNDGGAMGALAAIQGSGKDIKLTSVDGAP 240 Query: 241 EAVKAIADGGPFVETTAQFPRDQVRVGLAMALAKKWGARVVPKEVPIDVMPVTKKNAAGF 300 EAVKAIADGGPFVETTAQFPRDQVRVGLAMALAKKWGARVVPKEVPIDVMPVTKKNAAGF Sbjct: 241 EAVKAIADGGPFVETTAQFPRDQVRVGLAMALAKKWGARVVPKEVPIDVMPVTKKNAAGF 300 Query: 301 SW 302 SW Sbjct: 301 SW 302 >gi|300310062|ref|YP_003774154.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 316 Score = 118 bits (296), Expect = 5e-28, Method: Compositional matrix adjust. Identities = 90/286 (31%), Positives = 157/286 (54%), Gaps = 16/286 (5%) Query: 28 IGMSFQEMNNPYFVSMKKALDEAAKSLG--AKVIATDAAHNVAKQIADIEDMLQQNIDIL 85 +G++ ++ NP+FV++ K + A + AKV + +++ Q+ IE+ + +D++ Sbjct: 32 VGVTVGDLANPFFVAIAKGAESGAHKINPDAKVTVVSSKYDLNTQVGQIENFIANKVDLI 91 Query: 86 LINPTDSAGVEAAVKAAKARNVIVVAVDANASGPVDMFVGSKNKDAGYQSCRALADAIGG 145 ++N DS GV AVK A+ + IVV A+ D+ V S N AG +SC+ LA+ + G Sbjct: 92 VLNAADSKGVGPAVKKAQ-KAGIVVVAVDVAAAGADVTVMSDNTMAGAESCKFLAEKLQG 150 Query: 146 KGEVAILDGIPVVPILQRVEGCRQALAEYKDIKLVA-TQNGRQDRSVALGVVENMIQSRP 204 KG V I++G PV ++ RV GC+ + IK+++ QN R + + N++ ++P Sbjct: 151 KGNVVIVNGPPVSAVMDRVTGCKAEFKKSPGIKILSDNQNAGGSRDGGMTTMSNLLAAQP 210 Query: 205 NLKGIFSVNDGGAMGALAAI-QGSGKDIK-LTSVDGAPEAVKAIADGGP-FVETTAQFPR 261 + +F++ND A+GA AI Q DIK ++ VDGAP+A +A+ D F + AQ P Sbjct: 211 KIDAVFAINDPTAIGAELAIRQAKRSDIKWISGVDGAPDAERALKDSKSLFAASPAQDPY 270 Query: 262 ----DQVRVGLAMALAKKWGARVVPKEVPIDVMPVTKKNAAGFS-W 302 + V +G A+ + +V K +P+ + +T+ N A + W Sbjct: 271 GMAAESVAIGYAVMNGRAPQQKV--KLLPVKL--ITRDNVADYQGW 312 >gi|300311608|ref|YP_003775700.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 80.5 bits (197), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 82/285 (28%), Positives = 136/285 (47%), Gaps = 21/285 (7%) Query: 4 ALIALALTTLAAAPAMAQEVSKLKIGMSFQEMNNPYFVSMKKALDEAAKSLGAK--VIAT 61 A+ ALA L A AMAQ +K K+ + + + N +F++M+ E K+ +K +IA Sbjct: 10 AIAALACAVLPGA-AMAQTPAKPKVALVMKSLANEFFLNMENGAREYQKANASKFDLIAN 68 Query: 62 --DAAHNVAKQIADIEDMLQQNIDILLINPTDSAGVEAAVKAAKARNVIVVAVD------ 113 + A QI +E M+ ++ L+I P DS + VK A +IVV +D Sbjct: 69 GIKDEQDTANQIKIVEQMIVSKVNALVIAPADSKALVPVVKKAIDAGIIVVNIDNKLDDA 128 Query: 114 -ANASGPVDMFVGSKNKDAGYQSCRALADAIGGKGEVAILDGIPVV-PILQRVEGCRQAL 171 G FVG N+ + L + +VAI++G+ QR G + A+ Sbjct: 129 ALKEKGITVPFVGPDNRKGAKLAGDYLGKQLQKGDKVAIIEGVSTTFNAQQRTLGFQDAM 188 Query: 172 AEYKDI--KLVATQNGRQDRSVALGVVENMIQSRPNLKGIFSVNDGGAMGALAAIQGSGK 229 KD+ +V Q+G+ + V +++ + P++K I + ND A+GA+AAI+ +GK Sbjct: 189 ---KDVGANVVTVQSGQWEIDQGNKVAASILNAHPDIKAILAGNDNMALGAVAAIRAAGK 245 Query: 230 --DIKLTSVDGAPEAVKAIADGGPFVETTAQFPRDQVRVGLAMAL 272 ++L D A+K + G + T QF + Q G+ AL Sbjct: 246 TGKVQLVGYDNI-NAIKPMLKDGRVLATVDQFAQQQAVFGIETAL 289 >gi|300313776|ref|YP_003777868.1| D-xylose ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 338 Score = 70.1 bits (170), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 79/264 (29%), Positives = 133/264 (50%), Gaps = 20/264 (7%) Query: 1 MKKALIAL-ALTTLA--AAPAMAQEVSKLKIGMSFQEMNNPYFVSMKKALDEAAKSLGAK 57 +KK ++AL +TTL+ A AMA + KIG S ++ + + AA+ LGAK Sbjct: 5 LKKTVLALMTVTTLSMVAGSAMA-DAKNPKIGFSIDDLRVERWARDRDFFTAAAEKLGAK 63 Query: 58 VIATDAAHNVAKQIADIEDMLQQNIDILLINPTDSAGVEAAVKAAKARNVIVVAVDA--- 114 V A + +QI+ IE+++ + +D+++I P ++ + +K AK + V++ D Sbjct: 64 VYVQSADASEQRQISQIENLISRGVDVIVIVPFNATVLTNTIKEAKKAGIKVLSYDRLIL 123 Query: 115 NASGPVDMFVGSKNKDAGYQSCRALADAIGGKGEVAILDGIPVVPILQRV-EGCRQALAE 173 NA VD ++ N+ G + + KG +L G P + EG +AL Sbjct: 124 NAD--VDAYISFDNEKVGEMQAEGIL-KVKNKGNFFLLGGSPTDNNAKMFREGQMKALKP 180 Query: 174 Y---KDIKLVATQNGRQ-DRSVALGVVENMIQSRPN-LKGIFSVND---GGAMGALAAIQ 225 Y DIK+V Q ++ + + AL +VEN + + N + I + ND GGA+ ALAA + Sbjct: 181 YIDKGDIKIVGQQWVKEWNPTEALSIVENALTANNNKIDAIVASNDGTAGGAIQALAAQK 240 Query: 226 GSGKDIKLTSVDGAPEAVKAIADG 249 +GK + ++ D AVK + G Sbjct: 241 LAGK-VPVSGQDADLAAVKRVVAG 263 >gi|300310366|ref|YP_003774458.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 62.0 bits (149), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 64/261 (24%), Positives = 123/261 (47%), Gaps = 16/261 (6%) Query: 4 ALIALALTTLAAA-PAMAQEVSKLKIGMSFQEMNNPYFVSMKKALDEAAKSLGAKVIATD 62 A I L+L + A + PA A + L +G S + + + ++ +AAK G + D Sbjct: 11 AAICLSLGSSAMSLPAFAAD-KPLTMGFSQVGAESEWRTANTVSIKDAAKQAGVNLKFAD 69 Query: 63 AAHNVAKQIADIEDMLQQNIDILLINPTDSAGVEAAVKAAKARNVIVV----AVDANASG 118 A Q+ I + Q +D++ +P +G E ++ AKA + V+ AV+ + Sbjct: 70 AQQKQENQVKAIRSFIAQKVDVIAFSPVVESGWETVLREAKAAKIPVILTDRAVNVSDKS 129 Query: 119 PVDMFVGSKNKDAGYQSCRALADAIGG--KGEVAILD---GIPVVPILQRVEGCRQALAE 173 F+GS + G ++ R L + G++ I++ + P + R G + + Sbjct: 130 LYVTFIGSDFVEEGRRAGRWLLEKAKSMPAGDINIVELQGTVGSAPAIDRKAGFEEVIKG 189 Query: 174 YKDIKLVATQNGRQDRSVALGVVENMIQSR-PNLKGIFSVNDGGAMGALAAIQGS----G 228 +K++ +Q G R+ V+E +++ + +++ ND A+GA+ AI+ + G Sbjct: 190 EPRLKIIRSQTGDFTRAKGKEVMEAFLKAEGKKINVLYAHNDDMAIGAIQAIEEAGMKPG 249 Query: 229 KDIKLTSVDGAPEAVKAIADG 249 KDI + S+DG A +A+ G Sbjct: 250 KDIIIISIDGVKGAFEAMMAG 270 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 0.131 0.362 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: 798,116 Number of extensions: 32481 Number of successful extensions: 144 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 136 Number of HSP's successfully gapped: 7 Length of query: 302 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 217 Effective length of database: 1,217,395 Effective search space: 264174715 Effective search space used: 264174715 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)