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= 0557.0004.p (341 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K7N9.1 B3K7N9_9BACI Periplasmic binding protein/LacI transcrip... 491 e-137 Q2B3S3.1 Q2B3S3_9BACI LacI-family regulatory protein 403 e-110 B3KFE4.1 B3KFE4_9BACI Periplasmic binding protein/LacI transcrip... 387 e-106 A7CMJ6.1 A7CMJ6_BURPI Periplasmic binding protein/LacI transcrip... 233 1e-59 A9R1L6.1 A9R1L6_YERPG Sugar-binding transcriptional regulator, L... 230 2e-58 >B3K7N9.1 B3K7N9_9BACI Periplasmic binding protein/LacI transcriptional regulator Length = 333 Score = 491 bits (1263), Expect = e-137, Method: Compositional matrix adjust. Identities = 234/328 (71%), Positives = 280/328 (85%), Gaps = 3/328 (0%) Query: 9 MATIKDVAKLAGVALSTASYAMSGDSKVSAKTREKVLEAARQLNYQKNGFAMDLKRSRTN 68 MATIKDVAKLAGVALSTASYA+SGDS+VS+KTR KVLEAARQLNY+KNGFAMDLKRSRT Sbjct: 1 MATIKDVAKLAGVALSTASYALSGDSRVSSKTRSKVLEAARQLNYRKNGFAMDLKRSRTK 60 Query: 69 TIALILTDLSGPYYSELIRSIQDVALSNSYDLIACSSMGGKDSTAVRFLLEKRVDGAIVL 128 TIALILTDLSGPYYSELIRS+Q+VAL+N YDLIACSSMGG+DSTAV+FL EKR DGAI+L Sbjct: 61 TIALILTDLSGPYYSELIRSVQEVALTNGYDLIACSSMGGRDSTAVKFLREKRADGAIIL 120 Query: 129 AHNITDEILQAAGSSRFPIVVMDRLIAGEGLINVVVDGELGGYSATRYLIDKGHQHIAYI 188 A NI DE+L +FPIVVMDR + E L+NV+VDGE GGY+ATRYL++ GH+H+AYI Sbjct: 121 APNIRDEVLIETSGPQFPIVVMDRPLCSEFLVNVLVDGEQGGYTATRYLLENGHRHVAYI 180 Query: 189 SGPANSYDNALRYKGFMRAMHEAGLEEKAKWKLNGGGFXXXXGYKSTKMMLMQGELPSAI 248 SG ++SYDN LRY+G++RA+ EAGLEE++KW+L+ G F GY +TKMM+MQG LP+A+ Sbjct: 181 SGSSDSYDNHLRYQGYLRALAEAGLEEQSKWRLS-GNFVREGGYNATKMMIMQGSLPTAV 239 Query: 249 FYANDEMAVGGMKALEEGGISVPEDISVIGFDDIQLAEYIQPPLTTIRQXXXXXXSGSLA 308 FY NDEMA+GG+KA EE GISVP+D+SVIGFDDIQLAEY+ PPLTTIRQ +GSLA Sbjct: 240 FYGNDEMAIGGLKAFEESGISVPDDVSVIGFDDIQLAEYVNPPLTTIRQ--PKSEAGSLA 297 Query: 309 SHLLFQMLNGDTVNDFYKLKIELVERQS 336 +HLLFQ+L G++V Y L E++ER S Sbjct: 298 AHLLFQILGGESVKQSYMLTTEMMERAS 325 >Q2B3S3.1 Q2B3S3_9BACI LacI-family regulatory protein Length = 331 Score = 403 bits (1036), Expect = e-110, Method: Compositional matrix adjust. Identities = 193/329 (58%), Positives = 257/329 (78%), Gaps = 3/329 (0%) Query: 9 MATIKDVAKLAGVALSTASYAMSGDSKVSAKTREKVLEAARQLNYQKNGFAMDLKRSRTN 68 MATIKDVAKLAGVA+STASYA++ +K+S +T+ +V +AAR+LNYQKNG A DLK+ +TN Sbjct: 1 MATIKDVAKLAGVAVSTASYALNNSTKISMETKLRVEKAARELNYQKNGLASDLKKDKTN 60 Query: 69 TIALILTDLSGPYYSELIRSIQDVALSNSYDLIACSSMGGKDSTAVRFLLEKRVDGAIVL 128 TIALIL+DLSGPYYSELI+ +QD A SN YDLIACSS+GG +STAV+FL EKRVDGAI+L Sbjct: 61 TIALILSDLSGPYYSELIKGVQDFATSNGYDLIACSSIGGANSTAVKFLKEKRVDGAIIL 120 Query: 129 AHNITDEILQAAGSSRFPIVVMDRLIAGEGLINVVVDGELGGYSATRYLIDKGHQHIAYI 188 AHNI+D+I + FP+VV+DR + + + +V VD E GG+ AT++LID+GH+ IAY+ Sbjct: 121 AHNISDQIALESARDCFPLVVLDRKLPNDNIFHVEVDNEQGGFMATKHLIDRGHKTIAYV 180 Query: 189 SGPANSYDNALRYKGFMRAMHEAGLEEKAKWKLNGGGFXXXXGYKSTKMMLMQGELPSAI 248 SGP+NS DN R+ G+MRA+ E G+ ++KWK+ G F GY++TK+++ Q +LP I Sbjct: 181 SGPSNSLDNNKRFAGYMRALKENGIGFQSKWKI-PGDFTREGGYRATKLLIAQQDLPQGI 239 Query: 249 FYANDEMAVGGMKALEEGGISVPEDISVIGFDDIQLAEYIQPPLTTIRQXXXXXXSGSLA 308 FYANDEMA+GG++AL+E + VP+DISVIGFDDIQ++EY+ PPLTTI Q +G+LA Sbjct: 240 FYANDEMAIGGLQALQENQLQVPDDISVIGFDDIQISEYVSPPLTTIAQ--PKYEAGALA 297 Query: 309 SHLLFQMLNGDTVNDFYKLKIELVERQSV 337 L+ Q+L G V+ + L +LVERQSV Sbjct: 298 VQLILQVLEGGKVSPSFSLPTKLVERQSV 326 >B3KFE4.1 B3KFE4_9BACI Periplasmic binding protein/LacI transcriptional regulator Length = 330 Score = 387 bits (995), Expect = e-106, Method: Compositional matrix adjust. Identities = 194/329 (58%), Positives = 245/329 (74%), Gaps = 3/329 (0%) Query: 9 MATIKDVAKLAGVALSTASYAMSGDSKVSAKTREKVLEAARQLNYQKNGFAMDLKRSRTN 68 MAT+KDVAK AGV+LSTASYA++G SK+S TR KV+EAA+QLNYQKNG A DLKRS T Sbjct: 1 MATMKDVAKAAGVSLSTASYAINGSSKISEATRAKVIEAAKQLNYQKNGLATDLKRSSTK 60 Query: 69 TIALILTDLSGPYYSELIRSIQDVALSNSYDLIACSSMGGKDSTAVRFLLEKRVDGAIVL 128 TIALIL+D+SGPYYSELIR +Q+VAL N YDLIACSS GG +STA++FL EKRVDG I+ Sbjct: 61 TIALILSDMSGPYYSELIRGVQEVALENGYDLIACSSFGGNESTAIKFLREKRVDGVIIS 120 Query: 129 AHNITDEILQAAGSSRFPIVVMDRLIAGEGLINVVVDGELGGYSATRYLIDKGHQHIAYI 188 HN+ DE + + FPIVV+DR + G+ + NV+VD E GGY AT LI G + IAYI Sbjct: 121 EHNLHDEAILQSARKGFPIVVLDRYLKGDYIYNVLVDNEKGGYMATELLIKNGCKQIAYI 180 Query: 189 SGPANSYDNALRYKGFMRAMHEAGLEEKAKWKLNGGGFXXXXGYKSTKMMLMQGELPSAI 248 S +NSYD+ LRYKG+++A+ + LE + +N G F GY +TK+++ Q +LP AI Sbjct: 181 SSSSNSYDHKLRYKGYLQALSDYNLECTSNLNIN-GRFTIDGGYMATKLLIGQRQLPDAI 239 Query: 249 FYANDEMAVGGMKALEEGGISVPEDISVIGFDDIQLAEYIQPPLTTIRQXXXXXXSGSLA 308 FYANDEMA GG+KA +E GI VP+DIS++GFDDI LAE++ PPLTTIRQ GSLA Sbjct: 240 FYANDEMAAGGIKAFQEAGIRVPDDISIVGFDDIFLAEHMNPPLTTIRQPKYEI--GSLA 297 Query: 309 SHLLFQMLNGDTVNDFYKLKIELVERQSV 337 +HL+ Q+L+G + Y L ELV R+S Sbjct: 298 AHLIVQLLDGLELEHEYVLSTELVVRRSC 326 >A7CMJ6.1 A7CMJ6_BURPI Periplasmic binding protein/LacI transcriptional regulator Length = 346 Score = 233 bits (595), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 136/335 (40%), Positives = 195/335 (58%), Gaps = 8/335 (2%) Query: 9 MATIKDVAKLAGVALSTASYAMSGDSKVSAKTREKVLEAARQLNYQKNGFAMDLKRSRTN 68 MATIKDVA LAGV+ +T S+ ++ V+A+TR++V EA R Y + A LK T Sbjct: 1 MATIKDVAALAGVSFTTVSHVINNTRPVNAETRKRVEEAIRATRYVPSAVARSLKHRTTR 60 Query: 69 TIALILTDLSGPYYSELIRSIQDVALSNSYDLIACSSMGG--KDSTAVRFLLEKRVDGAI 126 TI +++ + PY++EL R I+DV + Y +I C+S K +R L+EKRVDG I Sbjct: 61 TIGVLVPTATNPYFAELARGIEDVCAAAGYSVILCNSDDDPRKQRDYLRVLMEKRVDGII 120 Query: 127 VLAHNITDEILQAAGSSRFPIVVMDRLIAGEGLINVVVDGELGGYSATRYLIDKGHQHIA 186 V + +++A G S PIV++DR G V VD E G Y AT++L+D GH+ IA Sbjct: 121 VSSAGPDTALIEALGESALPIVMVDRPTEGIQADQVQVDHEEGAYMATKHLLDLGHRRIA 180 Query: 187 YISGPANSYDNALRYKGFMRAMHEAGLEEKAKWKLNGGGFXXXXGYKSTKMMLMQGELPS 246 ISGP++ A R GF RA+ EAG+ E A ++ G F GY++ + +L +GE+P+ Sbjct: 181 CISGPSSLSVTAERLAGFHRALREAGVPE-ATVRIAEGDFTSPGGYRAARQLLTEGEMPT 239 Query: 247 AIFYANDEMAVGGMKALEEGGISVPEDISVIGFDDIQLAEYIQPPLTTIRQXXXXXXSGS 306 AIF ND M +G ++A E GI VP+ +SVIGFDDI+L+ Y+ P L+T+ Q G Sbjct: 240 AIFAGNDLMGIGALRAAAELGIPVPKALSVIGFDDIELSRYVYPALSTVGQSIRQL--GE 297 Query: 307 LASHLLFQMLNGDTVNDFYKLKIELVERQSVLPQK 341 + L + L GD N E R+ VLP + Sbjct: 298 TTAQTLLEHL-GD--NALRHPVEEPRARRIVLPPR 329 >A9R1L6.1 A9R1L6_YERPG Sugar-binding transcriptional regulator, LacI family Length = 328 Score = 230 bits (586), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 124/328 (37%), Positives = 193/328 (58%), Gaps = 4/328 (1%) Query: 11 TIKDVAKLAGVALSTASYAMSGDSKVSAKTREKVLEAARQLNYQKNGFAMDLKRSRTNTI 70 TIKDVAK A V++ST SYA++G K++ +TR +VL+ A+++NY N A LK ++ I Sbjct: 4 TIKDVAKRAKVSISTVSYAINGSPKITEETRLRVLKIAQEMNYTANNNAKMLKAKKSGAI 63 Query: 71 ALILTDLSGPYYSELIRSIQDVALSNSYDLIACSSMGGKDSTAVRFLLEKRVDGAIVLAH 130 L GP YSEL+R I++ YDL+ACS GG+ STA ++L ++ VDGAI+L Sbjct: 64 GLFFNSWFGPVYSELVRGIEEKVHREHYDLVACSLYGGEQSTAHKYLRDRSVDGAIILTS 123 Query: 131 NITDEILQAAGSSRFPIVVMDRLIAGEGLINVVVDGELGGYSATRYLIDKGHQHIAYISG 190 + D LQ+ S PIVV+DR + + NV++D G + A L+ KG + I + SG Sbjct: 124 SFDDRFLQSVASDVLPIVVLDRELKSPHIYNVLIDNFGGAFKAVNALLAKGCRDIYFFSG 183 Query: 191 PANSYDNALRYKGFMRAMHEAGLEEKAKWKLNGGGFXXXXGYKSTKMMLMQGELPSAIFY 250 P SYDN R GF+ A+ ++ + ++ F Y + ++ G +PSAIF Sbjct: 184 PEQSYDNQKRLDGFIAALGYHNIQLNRDFIIH-SNFTEADAYLKMQALIAAGRVPSAIFS 242 Query: 251 ANDEMAVGGMKALEEGGISVPEDISVIGFDDIQLAEYIQPPLTTIRQXXXXXXSGSLASH 310 ANDEMA+G ++A +E I VP+D+ V+GFD+I + + P LTTI G ++++ Sbjct: 243 ANDEMAIGILRAAKEHNIRVPDDLKVVGFDNIYASSVLTPSLTTINHHKYEM--GVISAN 300 Query: 311 LLFQMLNGDT-VNDFYKLKIELVERQSV 337 L + + +T ++ L EL+ER+++ Sbjct: 301 TLLRAIKEETNIDAVTLLPTELIERETL 328 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.317 0.134 0.369 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 1,874,910,633 Number of extensions: 74283027 Number of successful extensions: 216594 Number of sequences better than 1.0e-05: 9434 Number of HSP's gapped: 198521 Number of HSP's successfully gapped: 9448 Length of query: 341 Length of database: 3,060,696,203 Length adjustment: 136 Effective length of query: 205 Effective length of database: 1,779,438,163 Effective search space: 364784823415 Effective search space used: 364784823415 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: 131 (55.1 bits)