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= 0341.0038.p (439 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|NP_356402.1| AGR_L_1217p [Agrobacterium tumefaciens] >gi|179... 172 1e-41 ref|NP_242730.1| BH1864~unknown conserved protein in others [Bac... 135 2e-30 ref|NP_622452.1| Sugar-binding periplasmic proteins/domains [The... 119 1e-25 ref|NP_469565.1| similar to sugar ABC transporter, sugar-binding... 117 5e-25 ref|NP_463712.1| similar to sugar ABC transporter, sugar-binding... 112 2e-23 >ref|NP_356402.1| AGR_L_1217p [Agrobacterium tumefaciens] ref|NP_534730.1| ABC transporter, substrate binding protein [sugar] [Agrobacterium tumefaciens str. C58 (U. Washington)] pir||A99208 hypothetical protein AGR_L_1217 [imported] - Agrobacterium tumefaciens (strain C58, Cereon) pir||AH3078 hypothetical protein Atu4252 [imported] - Agrobacterium tumefaciens (strain C58, Dupont) gb|AAK89187.1| AGR_L_1217p [Agrobacterium tumefaciens str. C58 (Cereon)] gb|AAL45046.1| ABC transporter, substrate binding protein [sugar] [Agrobacterium tumefaciens str. C58 (U. Washington)] Length = 419 Score = 172 bits (437), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 115/397 (28%), Positives = 198/397 (49%), Gaps = 15/397 (3%) Query: 50 KLKFSIW-GNDAQKAMYESLIGKFEQLHPGTEVEIMTIPFADYQQKLSIMLASRTAPDAG 108 +L+ +IW N+A A++ + +FE HPG ++ ++ + Y L+ +A PD Sbjct: 27 ELRMAIWSANEAHLALFNEIADEFEASHPGVKITYDSLAYEGYATTLTTQIAGGNPPDLA 86 Query: 109 WLAERMIPQLLESGQLVDIAAEVKDDPGYNYPDIYPSTLDIFNRGGSLYGIPFSTPPVLI 168 WL + P + +G L + + GY+ D P+TL ++ G+ Y PFST P + Sbjct: 87 WLFDTTAPDFMAAGALYPLTETFANTQGYDMGDFPPATLAAWSYEGTQYLYPFSTSPFGV 146 Query: 169 YYNKDLFRSKGLKTPTELYKEGHWNYDE-FLKAARSITNPQQGIYGVKLVRD--WNNWSD 225 + N D+ R+ G KTP E+ G WN+D AA+ +QG+ ++RD + W + Sbjct: 147 FVNNDMIRAAGAKTPAEMIAAGDWNWDNAIATAAKVAATGKQGL----IIRDFEYKAWEN 202 Query: 226 ALLPLFWSHGAELFDSDGSAFALNSPEGREALQLYSDLMFKDKVHPLPGDELSFDSGQIG 285 L ++ A + D + A SPE +A++ D +F K P PG F +G Sbjct: 203 -LAEVYTGWNAYPWSKDTKSCAFASPEMVDAMRFIHDAIFVKKAMPGPGVSADFFAGDAA 261 Query: 286 MYTDRYSYTS-KARAVTDFEWDIAPMPAGIKGTGTSLGYAGVSVFET-RHPAEAAEFLKF 343 M T + S + + F+WD+ P+P G G G AG+ V + ++P AAEFL F Sbjct: 262 MTTTQISRAALLPKGDKAFDWDLVPLPTGPAGDYAVTGRAGIGVLASGKNPKLAAEFLAF 321 Query: 344 ITSAESMSVTAQYFVPSRKSVLESDVFLRAAAKP--SPESIQLAVLDQMADARIAPGHKN 401 +S +++ A++F P+R+S+L +DV AAA P S + I+ V+ +A + +N Sbjct: 322 FSSKPNVAKLARFFPPARQSLLTADVL--AAANPLLSRKQIEAVVIRGVATGQSTQQVRN 379 Query: 402 WQQIDTKIQMLLDELYTQSATANEVLGKMEVEVNRLM 438 + ++ ++ LD L+ A VL + ++ L+ Sbjct: 380 FARLQQTVRAGLDGLWRPDADVAAVLQALCGRLDPLL 416 >ref|NP_242730.1| BH1864~unknown conserved protein in others [Bacillus halodurans] pir||H83882 hypothetical protein BH1864 [imported] - Bacillus halodurans (strain C-125) dbj|BAB05583.1| BH1864~unknown conserved protein in others [Bacillus halodurans] Length = 461 Score = 135 bits (341), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 118/455 (25%), Positives = 204/455 (44%), Gaps = 47/455 (10%) Query: 8 LGLIFAVLLAGGCSTGAGNGTHGPEXXXXXXXXXXXXXQEPVKLKFSIWGNDAQKAMYES 67 L VLLA + G+ G + V + S WG + A++ Sbjct: 8 LSFFLMVLLAVSLAACGGSAQEG------GVQESKVDEEGNVHISISTWGLPDELAVFNE 61 Query: 68 LIGKFEQLHPGTEVEIMTIPFADYQQKLSIMLASRTAPDAGWLAERMIPQLLESGQLVDI 127 L+ FE +P +V ++ IP DY K++ MLA TAPD + ++ +++G ++I Sbjct: 62 LVDNFENDNPNIKVNVIHIP-DDYSGKMNTMLAGGTAPDVVFTSDGDFGGWVKAGLFLNI 120 Query: 128 AAEVKDDPGYNYPDIYPSTLDIFNRGG------SLYGIPFSTPPVLIYYNKDLFRSKGLK 181 V++ N D++ S L + G LY +P P ++YNK+LF G+ Sbjct: 121 QDMVEES-SINLEDMWESALSRYRWDGRVLGEGDLYALPKDIGPSALFYNKELFDEAGVP 179 Query: 182 TPTELYKEGHWNYDEFLKAARSITNPQQG-----IYGVKLVRDWNNWSDALLPLFWSHGA 236 P E +DE L+ A+++T + G +G+ + W + + WS+G Sbjct: 180 YPD---PEVPMTWDELLEKAKALTIDENGNGRPDQFGLGPI-----WWEGFI---WSNGG 228 Query: 237 ELFDSDGSAFALNSPEGREALQLYSDLMFKDKVHP-------LPGDELSFDSGQIGMYTD 289 ++ D + F +N PE EALQ +DL KV P + D++ F++G+I M T Sbjct: 229 DILSEDRTTFVMNEPEAVEALQFVADLTHVHKVAPDSRSLEAMDADQM-FETGRIAMMTA 287 Query: 290 RYSYTSKARAVTDFEWDIAPMPAGIKGTGTSLGYAGVSVF--ETRHPAEAAEFLKFITSA 347 R + DF+WD+AP PAG G +S + +T P EA + ++++ Sbjct: 288 GRWMVPTYRKL-DFDWDVAPPPAGATGVSSSWSGSVGYAINKDTNFPEEAFQLIEYLAGE 346 Query: 348 ESMSVTAQ--YFVPSRKSVLESDVFLRAAAKP-SPESIQLAVLDQMADARIAPGHKNWQQ 404 + + + +P+ KSV E+DVFL+ KP + E+ + Q + W Sbjct: 347 RGQEIQTELGFAIPTYKSVSETDVFLQPGEKPENAEAFIIGAETQRPGPWTLTPNNRWLD 406 Query: 405 IDTKIQMLLDELYTQSATANEVLGKMEVEVNRLMK 439 + L L+ +A E+L ++ EV +L++ Sbjct: 407 ---HVNQNLTYLWNGERSAEEILDEIADEVQQLLE 438 >ref|NP_622452.1| Sugar-binding periplasmic proteins/domains [Thermoanaerobacter tengcongensis] gb|AAM24056.1| Sugar-binding periplasmic proteins/domains [Thermoanaerobacter tengcongensis] Length = 417 Score = 119 bits (298), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 108/376 (28%), Positives = 170/376 (45%), Gaps = 54/376 (14%) Query: 7 LLGLIFAVLLAGGCSTGAGNGTHGPEXXXXXXXXXXXXXQEPVKLKFSIWGND-AQKAMY 65 L + A +LAG CS+ + P +PV +K +W + A+K + Sbjct: 11 LTVFVLATILAG-CSSSKTPESQTP----------TQETSKPVTIKLGMWSSSPAEKKIV 59 Query: 66 ESLIGKFEQLHPGTEVEIMTIPFADYQQKLSIMLASRTAPDAGWLAERMIPQLLESGQLV 125 + I KF++ +P +V+I TI DY QKL LAS TAPD +L PQL+ SG L Sbjct: 60 DDQIAKFKEKYPNIDVQIETI-VGDYMQKLQTELASNTAPDIFYLDSMPAPQLMSSGVLE 118 Query: 126 DIAAEVKDDPGYNYP--DIYPSTLDIFNRGGSLYGIPFSTPPVLIYYNKDLFRSKGLKTP 183 + +K YN D P+ L F G YG+P ++++YNKD+F+ G+ P Sbjct: 119 PLDEYIKK---YNVDVNDFEPALLSAFQWEGKTYGLPKDYNTLVLFYNKDMFKEAGINEP 175 Query: 184 TELYKEGHWNYDEFLKAARSITNPQQGIYGVKLVRDWNNWSDALLPLFWSHGAELFDSDG 243 + ++E + A+ +T + G+ G+ L D + DA + +DG Sbjct: 176 PK-------TWEELRETAKKLT--KNGVKGIVLSADLARF-DAFIN----------QNDG 215 Query: 244 SAF-----ALNSPEGREALQLYSDLMFKDKVHPLP--------GDELSFDSGQIGMYTDR 290 S + LN P+ EAL Y L+ +DKV P GD + + + Sbjct: 216 SVYKDGKVTLNLPQNAEALDFYVGLIIRDKVADTPQNMGEGWNGDAFAAKKAAMAIEGGW 275 Query: 291 YSYTSKARAVTDFEWDIAPMPAGIKGTGTSLGYAGVSVFETRHPAEAAEFLKFITSAESM 350 K +A D + IA +PAG K + + A V ++H EA + ++F+T E Sbjct: 276 MIPFLKEKA-PDLNYGIAELPAGKKKSTMAFTVAYVMNKNSKHKDEAFKLIEFLTGKEGQ 334 Query: 351 S--VTAQYFVPSRKSV 364 V + +PSRKS+ Sbjct: 335 QFVVDSGLALPSRKSM 350 >ref|NP_469565.1| similar to sugar ABC transporter, sugar-binding protein [Listeria innocua] pir||AE1460 sugar ABC transporter, sugar-binding protein homolog lin0220 [imported] - Listeria innocua (strain Clip11262) emb|CAC95453.1| lin0220 [Listeria innocua] Length = 418 Score = 117 bits (294), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 99/384 (25%), Positives = 170/384 (44%), Gaps = 27/384 (7%) Query: 66 ESLIGKFEQLHPGTEVEIMTIPFADYQQKLSIMLASRTAPDAGWLAERMIPQLLESGQLV 125 + ++ +FE+ +P +V + TI F DY KL +A APDA L Q E G L Sbjct: 48 DKMVKEFEKQNPDIKVNVQTIAFNDYFTKLQTQIAGGDAPDAFELNYETFMQYAEKGVLA 107 Query: 126 DIAAEVKDDPGYNYPDIYPSTLDIFNRGGSLYGIPFSTPPVLIYYNKDLFRSKGLKTPTE 185 D+ + ++ D ++ + D F G YG+ S V+ YNKDLF G++ PT Sbjct: 108 DLTSYIEKDKDFDPSTLNKQAYDAFKYDGKQYGMVESFSNVVTIYNKDLFDKAGVEYPT- 166 Query: 186 LYKEGHWNYDEFLKAARSITNPQQGIYGVKLVRDWNNWSDALLPLFWSHGAELFDSDGSA 245 W + + AA+ +T+ + ++G N + +G +FD D + Sbjct: 167 ----ADWTWKDEEAAAKKLTDAKNKVWGTSQPVTMNE----FFKVAAQNGGSIFDKDMTK 218 Query: 246 FALNSPEGREALQLYSDLMFKDKVHPLPGD------ELSFDSGQIGM-YTDRYSYTSKAR 298 +NSPE EAL ++ + + KV P P D E F +GQI M +T + + Sbjct: 219 TTINSPENVEALTHLTNEVTESKVAPSPSDLSGQLPEDLFMNGQIAMLHTGIWLFDMFQD 278 Query: 299 AVTDFEWDIAPMPAGIKGTGTSLGYAGVSVFETRHPAEAA-EFLKFITS---AESMSVTA 354 A F+WD+ + AG K T G+ V + EAA +F F+++ A + + Sbjct: 279 AP--FKWDVQ-VEAGNKQKATHFFANGIGVSKDSDKKEAAFKFASFMSANKEAAKIRIAN 335 Query: 355 QYFVPSRKSVLESDVFLRAAAKPSPESIQLAVLDQMADARIAPGHKNWQQIDTKIQMLLD 414 + +P+ E+ L+ +P + AV + + + P K+W +I + Sbjct: 336 NWELPA----TENKEILQPYLDATPPDNREAVFESLQYMVLPPVVKDWNKISDYTNSEFE 391 Query: 415 ELYTQSATANEVLGKMEVEVNRLM 438 ++ +T + L E +N+ M Sbjct: 392 KVLNGESTPEKALKNSEDNINKTM 415 >ref|NP_463712.1| similar to sugar ABC transporter, sugar-binding protein [Listeria monocytogenes EGD-e] pir||AF1097 sugar ABC transporter, sugar-binding protein homolog lmo0181 [imported] - Listeria monocytogenes (strain EGD-e) emb|CAC98396.1| lmo0181 [Listeria monocytogenes] Length = 418 Score = 112 bits (279), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 97/384 (25%), Positives = 168/384 (43%), Gaps = 27/384 (7%) Query: 66 ESLIGKFEQLHPGTEVEIMTIPFADYQQKLSIMLASRTAPDAGWLAERMIPQLLESGQLV 125 + ++ +FE+ +P +V + TI F DY KL +A APDA L Q E G L Sbjct: 48 DEMVKEFEKQNPDIKVNVQTIAFNDYFTKLQTQIAGGDAPDAFELNYETFMQYAEKGVLA 107 Query: 126 DIAAEVKDDPGYNYPDIYPSTLDIFNRGGSLYGIPFSTPPVLIYYNKDLFRSKGLKTPTE 185 D+ + ++ D ++ + D F G YG+ S V+ YNKDLF G++ PT Sbjct: 108 DLTSYIEKDKDFDPSTLNKQAYDAFKYDGKQYGMVESFSNVVTIYNKDLFDKAGVEYPT- 166 Query: 186 LYKEGHWNYDEFLKAARSITNPQQGIYGVKLVRDWNNWSDALLPLFWSHGAELFDSDGSA 245 W + + AA+ +T+ + ++G N + +G +F+ D + Sbjct: 167 ----ADWTWKDEEAAAKKLTDAKNKVWGTSQPVTMN----EFYKVAAQNGGSIFNEDLTE 218 Query: 246 FALNSPEGREALQLYSDLMFKDKVHPLPGD------ELSFDSGQIGM-YTDRYSYTSKAR 298 +NSPE EAL ++ + KV P P D E F +GQI M +T + + Sbjct: 219 TTINSPENVEALTHLTNEVTDSKVAPSPADLSGQLPEDLFMNGQIAMLHTGIWLFDMFQD 278 Query: 299 AVTDFEWDIAPMPAGIKGTGTSLGYAGVSVFETRHPAEAA-EFLKFITSAE---SMSVTA 354 A F+WD+ + AG T G+ V + EAA +F F+++ E + + Sbjct: 279 AP--FKWDVQ-VEAGNTQKATHFFANGIGVSKDSDKKEAAFKFASFMSANEEAAKIRIDN 335 Query: 355 QYFVPSRKSVLESDVFLRAAAKPSPESIQLAVLDQMADARIAPGHKNWQQIDTKIQMLLD 414 + +P+ E+ L+ +P + AV + + + P K+W +I + Sbjct: 336 NWELPAT----ENKEILQPYLDATPPDNREAVFESLQYMVLPPVVKDWNKISDYTNSEFE 391 Query: 415 ELYTQSATANEVLGKMEVEVNRLM 438 ++ +T + L E +N+ M Sbjct: 392 KVLNGDSTPEKALKNSEDNINKTM 415 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.317 0.134 0.403 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 658,195,536 Number of extensions: 27332429 Number of successful extensions: 63488 Number of sequences better than 1.0e-05: 233 Number of HSP's gapped: 63514 Number of HSP's successfully gapped: 233 Length of query: 439 Length of database: 757,237,578 Length adjustment: 129 Effective length of query: 310 Effective length of database: 406,989,807 Effective search space: 126166840170 Effective search space used: 126166840170 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: 127 (53.5 bits)