BLASTP 2.2.17 [Aug-26-2007] 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 composition-based statistics: Schaffer, Alejandro A., L. Aravind, Thomas L. Madden, Sergei Shavirin, John L. Spouge, Yuri I. Wolf, Eugene V. Koonin, and Stephen F. Altschul (2001), "Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements", Nucleic Acids Res. 29:2994-3005. Query= 0001.2514.p (343 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF excluding environmental samples from WGS projects 15,459,386 sequences; 5,307,515,862 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|YP_003774154.1| sugar ABC transporter periplasmic protein [H... 464 e-129 ref|YP_004154958.1| periplasmic binding protein/laci transcripti... 370 e-100 ref|YP_004846475.1| ribose ABC transporter periplasmic ribose-bi... 333 2e-89 ref|ZP_03699691.1| periplasmic binding protein/LacI transcriptio... 333 3e-89 ref|YP_405531.1| putative periplasmic ribose-binding protein of ... 315 9e-84 >ref|YP_003774154.1| sugar ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] gb|ADJ62246.1| ABC-type sugar transport system, periplasmic component protein [Herbaspirillum seropedicae SmR1] Length = 316 Score = 464 bits (1194), Expect = e-129, Method: Composition-based stats. Identities = 291/315 (92%), Positives = 302/315 (95%) Query: 28 MIQKTLAIACATLALGAATATAQAADKPLKSVGVTLGDLANPFFVAIAKGAESGAHKINP 87 MI+ T+AIAC+TL L AA A AADKPLKSVGVT+GDLANPFFVAIAKGAESGAHKINP Sbjct: 1 MIKNTIAIACSTLLLAAAAQPAMAADKPLKSVGVTVGDLANPFFVAIAKGAESGAHKINP 60 Query: 88 DAKVTVVSSKYDLNTQVGQIENFIANKVDLIVLNAADSKGVGPAVKKARKAGIVVVAVDV 147 DAKVTVVSSKYDLNTQVGQIENFIANKVDLIVLNAADSKGVGPAVKKA+KAGIVVVAVDV Sbjct: 61 DAKVTVVSSKYDLNTQVGQIENFIANKVDLIVLNAADSKGVGPAVKKAQKAGIVVVAVDV 120 Query: 148 AAEGADVTVMSDNTMAGAESCKFIADKLQGKGNVVIVNGPPVSAVMDRVTGCKAEFKKSP 207 AA GADVTVMSDNTMAGAESCKF+A+KLQGKGNVVIVNGPPVSAVMDRVTGCKAEFKKSP Sbjct: 121 AAAGADVTVMSDNTMAGAESCKFLAEKLQGKGNVVIVNGPPVSAVMDRVTGCKAEFKKSP 180 Query: 208 GIKILSDNQNAGGSRDGGMTTMSNLLAAQGKIDGVFAINDPTAIGAELAIRQAKRSDIKV 267 GIKILSDNQNAGGSRDGGMTTMSNLLAAQ KID VFAINDPTAIGAELAIRQAKRSDIK Sbjct: 181 GIKILSDNQNAGGSRDGGMTTMSNLLAAQPKIDAVFAINDPTAIGAELAIRQAKRSDIKW 240 Query: 268 ITGVDGAPDAERALKDSKSLFAASPAQDPYGMAAESVAIGYQVMNGRAPEKAVKLLPVKL 327 I+GVDGAPDAERALKDSKSLFAASPAQDPYGMAAESVAIGY VMNGRAP++ VKLLPVKL Sbjct: 241 ISGVDGAPDAERALKDSKSLFAASPAQDPYGMAAESVAIGYAVMNGRAPQQKVKLLPVKL 300 Query: 328 ITRDNVADYKGWVPA 342 ITRDNVADY+GWVPA Sbjct: 301 ITRDNVADYQGWVPA 315 >ref|YP_004154958.1| periplasmic binding protein/laci transcriptional regulator [Variovorax paradoxus EPS] gb|ADU36847.1| periplasmic binding protein/LacI transcriptional regulator [Variovorax paradoxus EPS] Length = 313 Score = 370 bits (951), Expect = e-100, Method: Composition-based stats. Identities = 205/288 (71%), Positives = 238/288 (82%) Query: 53 DKPLKSVGVTLGDLANPFFVAIAKGAESGAHKINPDAKVTVVSSKYDLNTQVGQIENFIA 112 DKPLKS+G+TLGD+ANPFFVAI + AE+ A KINP KVT VSSKYDLNTQV QI+NFIA Sbjct: 25 DKPLKSIGITLGDMANPFFVAIGRSAEAEAKKINPAVKVTTVSSKYDLNTQVDQIDNFIA 84 Query: 113 NKVDLIVLNAADSKGVGPAVKKARKAGIVVVAVDVAAEGADVTVMSDNTMAGAESCKFIA 172 NKVD+IVL AADSKG+ PAV+KAR AG++VVAVDV AEGAD TVMSDNTMAGAESCKF+A Sbjct: 85 NKVDVIVLGAADSKGIAPAVRKARAAGVIVVAVDVTAEGADATVMSDNTMAGAESCKFLA 144 Query: 173 DKLQGKGNVVIVNGPPVSAVMDRVTGCKAEFKKSPGIKILSDNQNAGGSRDGGMTTMSNL 232 +++ GKGN VIVNGPPVS++MDRV GCKA K PGIK++SDNQ+A GSRDGG+ M+N+ Sbjct: 145 ERIGGKGNFVIVNGPPVSSIMDRVKGCKATLAKYPGIKLVSDNQDAKGSRDGGLAAMANI 204 Query: 233 LAAQGKIDGVFAINDPTAIGAELAIRQAKRSDIKVITGVDGAPDAERALKDSKSLFAASP 292 L AQ KID VF INDPTAIGAELAIRQA+R+DIKV GVDG+PD E ALK SLF +P Sbjct: 205 LTAQPKIDAVFGINDPTAIGAELAIRQARRTDIKVTGGVDGSPDGEAALKAKDSLFVVTP 264 Query: 293 AQDPYGMAAESVAIGYQVMNGRAPEKAVKLLPVKLITRDNVADYKGWV 340 AQDP MAAESV + Y ++NGR P K + L+ L TRDN+A YKGWV Sbjct: 265 AQDPNEMAAESVRVAYGLLNGRKPAKTMNLMATPLTTRDNIAGYKGWV 312 >ref|YP_004846475.1| ribose ABC transporter periplasmic ribose-binding protein [Pseudogulbenkiania sp. NH8B] dbj|BAK76061.1| ribose ABC transporter, periplasmic ribose-binding protein [Pseudogulbenkiania sp. NH8B] Length = 313 Score = 333 bits (855), Expect = 2e-89, Method: Composition-based stats. Identities = 206/302 (68%), Positives = 234/302 (77%), Gaps = 1/302 (0%) Query: 39 TLALGAATATAQAADKPLKSVGVTLGDLANPFFVAIAKGAESGAHKIN-PDAKVTVVSSK 97 T A+ A A A +PLKSVGV +GDLANPFFVAI KGAE A KI P KVT VSSK Sbjct: 9 TAAVLAGLAAPSFAARPLKSVGVAVGDLANPFFVAIGKGAEDAAKKIGGPGVKVTTVSSK 68 Query: 98 YDLNTQVGQIENFIANKVDLIVLNAADSKGVGPAVKKARKAGIVVVAVDVAAEGADVTVM 157 YDLNTQVGQIENFIANKVD+I++NA+D G+ P +KKAR AGI VVAVDV A GAD TVM Sbjct: 69 YDLNTQVGQIENFIANKVDVILVNASDPMGIEPVLKKARAAGIAVVAVDVGAVGADATVM 128 Query: 158 SDNTMAGAESCKFIADKLQGKGNVVIVNGPPVSAVMDRVTGCKAEFKKSPGIKILSDNQN 217 SDN MAGAESCKF+A +L GKGNVVIVNGPPV+AV RV GCK PGIK+LSDNQ+ Sbjct: 129 SDNAMAGAESCKFMAQQLGGKGNVVIVNGPPVTAVSARVAGCKKVLGNYPGIKLLSDNQD 188 Query: 218 AGGSRDGGMTTMSNLLAAQGKIDGVFAINDPTAIGAELAIRQAKRSDIKVITGVDGAPDA 277 A GSRDGGM TM+NLL A KID VFAINDPT IGAELA++QA RSD+K+I VDGAPDA Sbjct: 189 AHGSRDGGMETMANLLTAHKKIDAVFAINDPTGIGAELAVKQAGRSDVKLIAAVDGAPDA 248 Query: 278 ERALKDSKSLFAASPAQDPYGMAAESVAIGYQVMNGRAPEKAVKLLPVKLITRDNVADYK 337 E+ALKD KSLFA S AQ+PY MA +V IGY ++NG+ P K+ LLP +T+ NVA Y Sbjct: 249 EKALKDKKSLFAVSAAQNPYTMATMAVQIGYDILNGKRPAKSQVLLPTPAVTKANVASYT 308 Query: 338 GW 339 GW Sbjct: 309 GW 310 >ref|ZP_03699691.1| periplasmic binding protein/LacI transcriptional regulator [Lutiella nitroferrum 2002] gb|EEG07373.1| periplasmic binding protein/LacI transcriptional regulator [Lutiella nitroferrum 2002] Length = 313 Score = 333 bits (853), Expect = 3e-89, Method: Composition-based stats. Identities = 205/302 (67%), Positives = 234/302 (77%), Gaps = 1/302 (0%) Query: 39 TLALGAATATAQAADKPLKSVGVTLGDLANPFFVAIAKGAESGAHKIN-PDAKVTVVSSK 97 T A+ A A A +PLKSVGV +GDLANPFFVAI KGAE A KI P KVT VSSK Sbjct: 9 TAAVLAGLAAPSFAARPLKSVGVAVGDLANPFFVAIGKGAEDAAKKIGGPGVKVTTVSSK 68 Query: 98 YDLNTQVGQIENFIANKVDLIVLNAADSKGVGPAVKKARKAGIVVVAVDVAAEGADVTVM 157 YDLNTQVGQIENFIANKVD+I++NA+D G+ P +KKAR AGI VVAVDV A GAD TVM Sbjct: 69 YDLNTQVGQIENFIANKVDVILVNASDPMGIEPVLKKARAAGIAVVAVDVGAVGADATVM 128 Query: 158 SDNTMAGAESCKFIADKLQGKGNVVIVNGPPVSAVMDRVTGCKAEFKKSPGIKILSDNQN 217 SDN MAGAESCKF+A +L G+GNVVIVNGPPV+AV RV GCK PGIK+LSDNQ+ Sbjct: 129 SDNAMAGAESCKFMAQQLGGRGNVVIVNGPPVTAVSARVAGCKKVLGNYPGIKLLSDNQD 188 Query: 218 AGGSRDGGMTTMSNLLAAQGKIDGVFAINDPTAIGAELAIRQAKRSDIKVITGVDGAPDA 277 A GSRDGGM TM+NLL A KID VFAINDPT IGAELA++QA RSD+K+I VDGAPDA Sbjct: 189 AHGSRDGGMETMANLLTAHKKIDAVFAINDPTGIGAELAVKQAGRSDVKLIAAVDGAPDA 248 Query: 278 ERALKDSKSLFAASPAQDPYGMAAESVAIGYQVMNGRAPEKAVKLLPVKLITRDNVADYK 337 E+ALKD KSLFA S AQ+PY MA +V IGY ++NG+ P K+ LLP +T+ NVA Y Sbjct: 249 EKALKDKKSLFAVSAAQNPYTMATMAVQIGYDILNGKRPAKSQVLLPTPAVTKANVASYT 308 Query: 338 GW 339 GW Sbjct: 309 GW 310 >ref|YP_405531.1| putative periplasmic ribose-binding protein of ABC transport system [Shigella dysenteriae Sd197] gb|ABB64040.1| putative periplasmic ribose-binding protein of ABC transport system [Shigella dysenteriae Sd197] Length = 313 Score = 315 bits (806), Expect = 9e-84, Method: Composition-based stats. Identities = 189/287 (65%), Positives = 229/287 (79%), Gaps = 2/287 (0%) Query: 54 KPLKSVGVTLGDLANPFFVAIAKGAESGAHKINPD-AKVTVVSSKYDLNTQVGQIENFIA 112 K LKS+GVT+GDLANPFFV I KGAE A K+ D KVT+VSS YDL QV QI+NFIA Sbjct: 25 KELKSIGVTVGDLANPFFVQITKGAELEARKLAGDNVKVTLVSSGYDLGQQVSQIDNFIA 84 Query: 113 NKVDLIVLNAADSKGVGPAVKKARKAGIVVVAVDVAAEGADVTVMSDNTMAGAESCKFIA 172 VD+I+LNAADSKG+GPAVK+A+ AGIVVVAVDVAAEGAD T+ SDNT AG +CK+I Sbjct: 85 ANVDMIILNAADSKGIGPAVKRAKDAGIVVVAVDVAAEGADATITSDNTQAGEMACKYIT 144 Query: 173 DKLQGKGNVVIVNGPPVSAVMDRVTGCKAEFKKSPGIKILSDNQNAGGSRDGGMTTMSNL 232 D+L+GKGNVVI+NGPPVSAV +RV GC+ EFK+ P IK+LSDNQNA GSR+GG+ M+ L Sbjct: 145 DRLKGKGNVVIINGPPVSAVQNRVEGCQTEFKRHPDIKVLSDNQNAKGSREGGLEVMTRL 204 Query: 233 LAAQGKIDGVFAINDPTAIGAELAIRQAKRSDIKVITGVDGAPDAERALKDSKSLFAASP 292 LAA KIDGVFAINDPTAIGA+LA +QA+R++ I GVDG+PDAE ALK SLF A+P Sbjct: 205 LAANPKIDGVFAINDPTAIGADLAAKQAQRNEF-FIVGVDGSPDAEEALKRENSLFVATP 263 Query: 293 AQDPYGMAAESVAIGYQVMNGRAPEKAVKLLPVKLITRDNVADYKGW 339 AQDP MAA++V IGY ++ G+ K L+PV +I ++NV +YKGW Sbjct: 264 AQDPQVMAAKAVEIGYDILQGKPAPKEPVLIPVTMIDKNNVGNYKGW 310