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= 0057.0019.p (317 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value A8W027.1 A8W027_9BACI Regulatory protein GntR, HTH 173 2e-41 B8CYA6.1 B8CYA6_HALOH Helix-turn-helix type 11 domain protein 142 4e-32 C4CMJ5.1 C4CMJ5_9CHLR Predicted transcriptional regulator, COG2378 134 1e-29 C0UVQ0.1 C0UVQ0_9BACT Predicted transcriptional regulator, COG2378 132 3e-29 B9E679.1 B9E679_CLOK1 Putative uncharacterized protein 131 7e-29 >A8W027.1 A8W027_9BACI Regulatory protein GntR, HTH Length = 328 Score = 173 bits (438), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 104/317 (32%), Positives = 163/317 (51%), Gaps = 13/317 (4%) Query: 7 RIFKIINAIQSNPGITASALAIRCDVNIRTVYRDLEII-SHFAPVTNEGRGTGYKFLGKF 65 R+F I+ + ++ + A LA C RT+YRD+ + S + +GR GYK L Sbjct: 11 RLFYIMQFLSNHDTVNAGELADHCQATKRTIYRDIHFLQSQGHEIQTQGR-EGYKLLIPN 69 Query: 66 FLYPLDFSEQEALAFSLLP---SFLNQDKIPPGFH--TAYDKVMGTHLKEKSKQNGILEN 120 +E E L+ +L P S + P H T +KVM L N Sbjct: 70 MQVRSKLTEDEWLSLTLYPLLSSGIASSDHPYHRHYKTGLEKVM--RLASGGAPNPAF-- 125 Query: 121 IADIIQMGKPAYRKKSRNFLQPIIGAILEQRSIRAIYHSQSRNALTQREIDPYYLIPRDQ 180 A+ I++ + II AI + R I Y++ R+ ++R ++PYYL+PR+ Sbjct: 126 -AERIRLHARTQDTFQAKVMPAIITAISDNRCIDVRYYAMHRSEWSERRLEPYYLVPREG 184 Query: 181 RFYLIGYCHLKQAIRTFRISRFQEVEVTDRSFD-KGNFNIKKYLKNTWSIDRGNKNIKFR 239 YL+ +C L+ IR FR++RF++V VTD F +F+I +LK WSI + + Sbjct: 185 HLYLVAFCRLRNDIRVFRLNRFEDVHVTDAPFTIPQDFSIDAFLKKRWSIMEEEEPVDIT 244 Query: 240 VRFHPEIARYIKEEELFVHPWMSDENDGSLLFEVTVNNEKEFTKWILQYGPNAEILEPAS 299 VRF P+ ARY+ EE+ +V +E DG+L VTV + KEF +W+ +GP+AE+L PAS Sbjct: 245 VRFSPDAARYVDEEDFYVETKKYNETDGTLTLTVTVGSRKEFLRWMRSFGPDAEVLSPAS 304 Query: 300 AREGLKVQLEQWMRLYQ 316 R+ L + + +Y+ Sbjct: 305 LRQALAAEYRHMLGMYE 321 >B8CYA6.1 B8CYA6_HALOH Helix-turn-helix type 11 domain protein Length = 327 Score = 142 bits (358), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 92/324 (28%), Positives = 169/324 (52%), Gaps = 16/324 (4%) Query: 4 KVIRIFKIINAIQSNPGIT---ASALAIRCDVNIRTVYRDLEIISHF-APVTNEGRGTGY 59 K+ RI K+IN + S G+ A LA V+ RT+YRD++ + PV + Y Sbjct: 7 KLYRILKMINLLSS--GVKRWRARDLAELFGVSPRTIYRDIQYMEQMHIPVIKDEEKNTY 64 Query: 60 KFLGKFFLYPLDFSEQEALAFSLLPSFLNQDKIPP---GFHTAYDKVMGTHLKEKSKQNG 116 + F+ P + +EA+A LL + +D++ P + A K++ + S Sbjct: 65 AIMEDFYFKPPRMTREEAMAL-LLVAHAFEDEVYPYREELNNAVSKIINSL---PSSVKK 120 Query: 117 ILENIAD--IIQMGKPAYRKKSRNFLQPIIGAILEQRSIRAIYHSQSRNALTQREIDPYY 174 +L ++ D + G K R+ + I +I +S+ Y+S S + L +R++DPY Sbjct: 121 VLLDLEDRILFHQGAVVDMTKHRDTINIINDSIASNQSVIINYYSLSSDMLRERKVDPYK 180 Query: 175 LIPRDQRFYLIGYCHLKQAIRTFRISRFQEVEVT-DRSFDKGNFNIKKYLKNTWSIDRGN 233 + +D +YLI YCHL+ + FR+ R + ++VT D+ +F+++KY++N W ++RG+ Sbjct: 181 IFVQDGAYYLIAYCHLRCNVLLFRVDRIRNIKVTSDKYIIPDDFDVEKYMQNAWGVERGD 240 Query: 234 KNIKFRVRFHPEIARYIKEEELFVHPWMSDENDGSLLFEVTVNNEKEFTKWILQYGPNAE 293 K + + F A+ +KE + V + + D + FEVT + +E WILQ+G E Sbjct: 241 KEERVVLLFKGTSAKLVKERKWQVKHQIVELGDDKIRFEVTTGSMQEIMGWILQHGSEVE 300 Query: 294 ILEPASAREGLKVQLEQWMRLYQK 317 ++ P S +E + ++++ +Y+K Sbjct: 301 VVRPESLKENVINEIKKMSNIYKK 324 >C4CMJ5.1 C4CMJ5_9CHLR Predicted transcriptional regulator, COG2378 Length = 354 Score = 134 bits (336), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 101/334 (30%), Positives = 160/334 (47%), Gaps = 33/334 (9%) Query: 2 TDKVIRIFKIINAIQSNPG-ITASALAIRCDVNIRTVYRDLEIISHFAPVTNEGRGT-GY 59 T + RI +II+ I + P T +LA +++ R + +DL++I H + E + + GY Sbjct: 17 TQRASRILEIISKISAAPNQWTRRSLAEHYEISERQITKDLQVIRHGLRLELERQPSGGY 76 Query: 60 KFLGKFFLYPLDFSEQEALAFSLLPSFLNQDKIPPGFHTAYDKVMGTHLKEKSKQNGILE 119 F L + +S EALA FL A ++ G +E S L Sbjct: 77 YFKTLPRLPAVSYSLAEALAI-----FLAAQ--------AGRRLAGIPHEELSAAIARLR 123 Query: 120 NIA---------DIIQMGKPAYRKKSRN-FLQPIIGAILEQRSIRAIYHSQSRNA-LTQR 168 +I D P R + R L+ + AI ++S+ +YH SR TQR Sbjct: 124 SIMPRELQPLLQDDGAAVPPVPRNRHRERILEVLTRAIAARKSVDLVYHPASRPGERTQR 183 Query: 169 EIDPYYLIPRDQRFYLIGYCHLKQAIRTFRISRFQEVEVTDRSFDKG-NFNIKKYLKNTW 227 +DPY ++P Q ++LIG+CHL+ A+R F++ R ++V VTD F F++ ++L W Sbjct: 184 RVDPYAVVPNAQSWHLIGWCHLRCAVRIFKVDRVEDVTVTDIRFTPDPEFDLNEFLTAGW 243 Query: 228 SIDRGNKNI--KFRVRFHPEIARYIKEEELFVHPWMSDE--NDGSLLFEVTVNNEKEFTK 283 + RG + +RF P R++ EE+ HP E DGSL F VTV +EF + Sbjct: 244 GVTRGTDQPPEEIVLRFTPTAGRWVAEEQW--HPTQRSEWLPDGSLEFRVTVPVTEEFAR 301 Query: 284 WILQYGPNAEILEPASAREGLKVQLEQWMRLYQK 317 W+L YG + +++ P R L Q + Y + Sbjct: 302 WVLHYGADCDVVAPVHLRTWLAEQARALVERYSR 335 >C0UVQ0.1 C0UVQ0_9BACT Predicted transcriptional regulator, COG2378 Length = 347 Score = 132 bits (333), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 102/323 (31%), Positives = 171/323 (52%), Gaps = 22/323 (6%) Query: 4 KVIRIFKIINAIQSNP-GITASALAIRCDVNIRTVYRDLEIISHF--APVTNE-GRGTGY 59 K+ R+ +I + NP G+T LA CDV+IRT+YRD++ + P+T E GR + Sbjct: 6 KLGRLQRIERILYQNPQGLTIQRLAELCDVSIRTIYRDIKDLEQIFEVPLTRENGR---W 62 Query: 60 KFLGKFFLYPLDFSEQEALAF--SLLPSFLNQDKIPPGFHTAYDKVMGTHLKEKSKQNGI 117 K + +L P+ FS EA+ S + DK P A+ K+ G+ + E + Sbjct: 63 KVVRTSYLPPVRFSLHEAMGLFLSYRLALRYMDKQNPDLEEAWSKI-GSVMPEPISR-FF 120 Query: 118 LENIADIIQMGKPAYRKKSRNFLQPIIGAILEQRSIRAIYHSQSRNALTQREIDPYYLIP 177 E + +I KP R+ +R ++ + A E R +R Y S R+ +R I+PY++ P Sbjct: 121 PETLREI--KNKPLDREYNRT-VRTLTSAWAEGRRVRIQYLSSRRSTPKERLIEPYFMQP 177 Query: 178 R--DQRFYLIGYCHLKQAIRTFRISRFQEVEVTDRSFD-KGNFNIKKYLKNTWSIDRGNK 234 Y+I IRTF++ R +++E+TD ++ G+F+ ++LKN+W+I ++ Sbjct: 178 SGISHALYVIARDVEIDEIRTFKVQRIKDIELTDEKYEIPGDFDALEFLKNSWTI-WSDE 236 Query: 235 NIKFRVRFHPEIARYIKEEELFVHPW--MSDENDGSLLFEVTVNNEKEFTKWILQYGPNA 292 ++ +VRF P +A +KE HP + +E DGS+++ V+ E + WI +G A Sbjct: 237 PVEVKVRFSPRVASAVKE--AIWHPTQELKEEPDGSVIWTGRVSGILEISAWIRSWGAEA 294 Query: 293 EILEPASAREGLKVQLEQWMRLY 315 E+LEP S RE L ++ +LY Sbjct: 295 EVLEPKSLRESLVNDVQSLAKLY 317 >B9E679.1 B9E679_CLOK1 Putative uncharacterized protein Length = 329 Score = 131 bits (330), Expect = 7e-29, Method: Compositional matrix adjust. Identities = 92/326 (28%), Positives = 173/326 (53%), Gaps = 25/326 (7%) Query: 4 KVIRIFKIINAIQSNPGITASALAIRCDVNIRTVYRDLEIISHF-APV-TNEGRGTGYKF 61 K+ + ++I +Q TAS L+ V+ +T+YR + ++ PV T +GR G+ Sbjct: 12 KISNLLEMIIILQYKELTTASELSEMLKVDKKTIYRYINSLNKANIPVHTRKGRYGGFYI 71 Query: 62 LGKFFLYPLDFSEQEALAFSLLPSFLNQDKI----PPGFHTAYDKVMGTHLKEKSKQNGI 117 F++ D +E+E A L+ S +KI +A K+ H+ + + I Sbjct: 72 DKSFYMKSADLNEEELKAL-LMASQTFTEKIGFIYEKDLKSAVHKIKSLHINKNMNLDRI 130 Query: 118 -------LENIADIIQMGKPAYRKKSRNFLQPIIGAILEQRSIRAIYHSQSRNALTQREI 170 +++I ++ + Y NF ++ RS+ Y S ++N LT R++ Sbjct: 131 DNTGGFSIDSIGNVENLEHKIYE---INF------SMSRGRSLNINYFSINKNDLTMRKV 181 Query: 171 DPYYLIPRDQRFYLIGYCHLKQAIRTFRISRFQEVEVTDRSFDK-GNFNIKKYLKNTWSI 229 DPY LI ++ +++IGYCH+K + F+++R + ++V++ + + F++K YL N W + Sbjct: 182 DPYDLIFKEGAWHIIGYCHMKDNVENFQLNRIKSLKVSNNIYMRPRTFSLKDYLDNHWGL 241 Query: 230 DRGNKNIKFRVRFHPEIARYIKEEELFVHPWMSDENDGSLLFEVTVNNEKEFTKWILQYG 289 G+K IK +RF EIA +I+ + + + + GS+LF + V++ K+ +WIL +G Sbjct: 242 FVGDK-IKIVIRFDKEIASFIQHTKWHANQIIDELQGGSILFSLYVDDIKDVKQWILGFG 300 Query: 290 PNAEILEPASAREGLKVQLEQWMRLY 315 NAE++EP RE +K+++E+ + Y Sbjct: 301 KNAEVIEPKVLRENIKLEVEELYKKY 326 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 0.322 0.139 0.413 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: 1,937,178,174 Number of extensions: 83841808 Number of successful extensions: 161486 Number of sequences better than 1.0e-05: 670 Number of HSP's gapped: 160924 Number of HSP's successfully gapped: 670 Length of query: 317 Length of database: 3,060,696,203 Length adjustment: 135 Effective length of query: 182 Effective length of database: 1,788,859,178 Effective search space: 325572370396 Effective search space used: 325572370396 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 131 (55.1 bits)