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= 0523.0034.p (613 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|ZP_00042798.1| COG2202: FOG: PAS/PAC domain [Magnetococcus s... 252 2e-65 ref|NP_953363.1| sensory box histidine kinase/response regulator... 243 1e-62 ref|ZP_00060561.1| COG2202: FOG: PAS/PAC domain [Clostridium the... 236 1e-60 ref|NP_951775.1| sensory box histidine kinase/response regulator... 234 5e-60 ref|ZP_00187440.1| hypothetical protein Rxyl158501 [Rubrobacter ... 231 4e-59 >ref|ZP_00042798.1| COG2202: FOG: PAS/PAC domain [Magnetococcus sp. MC-1] Length = 707 Score = 252 bits (643), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 147/338 (43%), Positives = 203/338 (60%), Gaps = 12/338 (3%) Query: 256 NPSLRQTTGYGQEELSDYKSILFSTG--DEQALK--AAVKRAAQGQSGKLEIIVKTKSGA 311 +PS+R GY +E + + F+ + QA+ A R Q S +EI K Sbjct: 221 SPSIRTVLGYDPQEFMTHYATYFTENPINMQAVNHTEASIRGEQQASYVIEIFNKQGQAV 280 Query: 312 RLICSTTVFPLVNDKENYVYII---AEDITALAEQQQELLIAKNAAESAARMKSEFLATM 368 RL +P+ DK+ V + A D+T + ELL AK AE+A R KSEFLA M Sbjct: 281 RL--DVLEYPIF-DKDGRVIAVEGLAHDVTERHRAEFELLTAKEQAEAANRTKSEFLAMM 337 Query: 369 SHEIRTPLNGIIGINQLLAEEITAPDHQELLKLQNTSSLALLSVMNDVLDISRLEAENML 428 SHEIRTP+N I+G+ +LL+E P+ Q LK+Q + LL ++ND+LD+S+LEA + Sbjct: 338 SHEIRTPMNSILGMAELLSESPLTPEQQGYLKIQRRAGHGLLELINDILDLSKLEAGRIE 397 Query: 429 LVKAPFKLPALLRECINLFAVAAGHKGLALNLEIAPSIPEQLIGDSARIRQILVNLIGNA 488 L PF LP LL+ ++L A +GLAL LE IP GD AR+RQI+VNL+GNA Sbjct: 398 LYIQPFNLPELLQSVVDLLENLARERGLALRLERMEEIPTLCQGDRARLRQIMVNLVGNA 457 Query: 489 VKFTHEGSITVTIEPCSKEGTSLGLLFRVSDTGIGIAPDKLELLFQPFSQVDASHNRKYQ 548 +KFTH+GS+ +++E S + T+ LLF V D+GIGIA +FQ F+Q+D+S++R Y Sbjct: 458 IKFTHDGSVKISVEKSSDDATN--LLFHVIDSGIGIAEKDQSSVFQRFTQIDSSNSRFYG 515 Query: 549 GTGLGLAICKKLVELMDGSIWTEKAREGGTDFFFKIPL 586 G+GLGLAI LVELM G IW + A G+ F F +PL Sbjct: 516 GSGLGLAITHHLVELMGGKIWLKSALGEGSCFTFTLPL 553 >ref|NP_953363.1| sensory box histidine kinase/response regulator [Geobacter sulfurreducens PCA] gb|AAR35690.1| sensory box histidine kinase/response regulator [Geobacter sulfurreducens PCA] Length = 982 Score = 243 bits (619), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 140/370 (37%), Positives = 210/370 (56%), Gaps = 6/370 (1%) Query: 216 DRKQVLFTAQFNEQRYTALFEFSPDMVVCIDPVRKKVISANPSLRQTTGYGQEELSDYKS 275 +R++ + +E + LFE + + IDPV ++ AN + G+ +E+L Sbjct: 325 ERRRAEEALRQSEALFRNLFEHHAAVKLIIDPVSGAIVDANNAAVSFYGWSREQLRAMNI 384 Query: 276 ILFSTGDEQALKAAVKRAAQGQSGKLEIIVKTKSGARLICSTTVFPL---VNDKENYVYI 332 + + L + ++ + ++ + + + VF V +E Y++ Sbjct: 385 RDINMLSPEELVSELENTKNME--RIHFFFRHRRADDSVRDVEVFSSRIEVKGRE-YLHS 441 Query: 333 IAEDITALAEQQQELLIAKNAAESAARMKSEFLATMSHEIRTPLNGIIGINQLLAEEITA 392 I D+T ++ELL+AK AESA R KSEFLA MSHEIRTP+NG+IG+ LL E A Sbjct: 442 IVHDVTERKRAEEELLLAKEQAESANRAKSEFLANMSHEIRTPMNGVIGMTGLLLETGLA 501 Query: 393 PDHQELLKLQNTSSLALLSVMNDVLDISRLEAENMLLVKAPFKLPALLRECINLFAVAAG 452 + + ++ TS+ +LL V++D+LD S++EA + + F L LL + A A Sbjct: 502 DEQRRYAEIVRTSAASLLQVIDDILDFSKIEAGRLEMETIGFDLRTLLDDLAESLAFKAN 561 Query: 453 HKGLALNLEIAPSIPEQLIGDSARIRQILVNLIGNAVKFTHEGSITVTIEPCSKEGTSLG 512 KGL + P +P L+GD R++Q+LVNL GNA+KFTH+G I+V + +K G S+ Sbjct: 562 EKGLTFTCLLRPEVPRFLMGDPVRLKQVLVNLAGNALKFTHQGEISVEVGSLTKTGDSVK 621 Query: 513 LLFRVSDTGIGIAPDKLELLFQPFSQVDASHNRKYQGTGLGLAICKKLVELMDGSIWTEK 572 L F V DTGIGI P+K ELLF+ F+Q DAS RKY GTGLGLAICK+LV++M G I Sbjct: 622 LRFAVRDTGIGIPPEKTELLFEKFTQADASITRKYGGTGLGLAICKRLVQMMGGEIGVTS 681 Query: 573 AREGGTDFFF 582 G++F+F Sbjct: 682 RPGVGSEFWF 691 >ref|ZP_00060561.1| COG2202: FOG: PAS/PAC domain [Clostridium thermocellum ATCC 27405] Length = 902 Score = 236 bits (601), Expect = 1e-60, Method: Compositional matrix adjust. Identities = 147/360 (40%), Positives = 203/360 (56%), Gaps = 9/360 (2%) Query: 229 QRYTALFEFSPDMVVCIDPVRKKVISANPSLRQTTGYGQEELSDYKSILF---STGDEQA 285 Q+ + E SP ++V D R + NP + TGY +E+ KS+ F E+ Sbjct: 280 QKLSQAVEQSPGIIVMAD-TRGNIEYVNPRFTEVTGYSFDEVKG-KSLFFMELEENGEEK 337 Query: 286 LKAAVKRAAQGQSGKLEIIVKTKSGARLICSTTVFPLVNDK---ENYVYIIAEDITALAE 342 K ++ G+ + EI K+K+ P++N + NY+ + +EDIT Sbjct: 338 CKDMIQAVFSGKEWRSEIRHKSKNNVVFWEYAYYSPIINSEGVVTNYLKV-SEDITERKL 396 Query: 343 QQQELLIAKNAAESAARMKSEFLATMSHEIRTPLNGIIGINQLLAEEITAPDHQELLKLQ 402 + L AK AAE+A R KSEFLA MSHEIRTPLNGIIG+ L + + +E L + Sbjct: 397 MSENLFKAKEAAEAANRAKSEFLANMSHEIRTPLNGIIGMTNLTLQTELTDEQRENLNIV 456 Query: 403 NTSSLALLSVMNDVLDISRLEAENMLLVKAPFKLPALLRECINLFAVAAGHKGLALNLEI 462 N+ + LL V+ND+LD S++EA M L F LL + V A KGL L+ + Sbjct: 457 NSCAELLLRVINDILDYSKIEAGKMTLENVKFDFFNLLEKTYKAHIVQANEKGLRLSYTV 516 Query: 463 APSIPEQLIGDSARIRQILVNLIGNAVKFTHEGSITVTIEPCSKEGTSLGLLFRVSDTGI 522 IP L+GD R++Q+L NLI NAVKFT G + + ++ K S+ L F VSDTGI Sbjct: 517 QKGIPRILVGDPGRLQQVLNNLISNAVKFTDIGEVRIDVDIIEKRDDSVKLKFTVSDTGI 576 Query: 523 GIAPDKLELLFQPFSQVDASHNRKYQGTGLGLAICKKLVELMDGSIWTEKAREGGTDFFF 582 GI DK+ +LF+ FSQVD+S RKY GTGLGLAI K+LVE+M G IW E + G+ F+F Sbjct: 577 GIDGDKMNMLFKSFSQVDSSITRKYGGTGLGLAISKQLVEMMGGEIWVESQKGKGSTFYF 636 >ref|NP_951775.1| sensory box histidine kinase/response regulator [Geobacter sulfurreducens PCA] gb|AAR34048.1| sensory box histidine kinase/response regulator [Geobacter sulfurreducens PCA] Length = 589 Score = 234 bits (597), Expect = 5e-60, Method: Compositional matrix adjust. Identities = 143/382 (37%), Positives = 207/382 (54%), Gaps = 33/382 (8%) Query: 229 QRYTALFEFSPDMVVCIDPVRKKVISANPSLRQTTGYGQEEL-----SDY---------- 273 +RY L+ F+P ID V + AN +L G E+ SD+ Sbjct: 51 ERYANLYHFAPVGYATIDAV-GVIADANRTLAGMIGADCREMVGLLFSDFVHKDDVTSFV 109 Query: 274 KSILFSTGDEQALKAAVKRAAQGQSG-----KLEIIVKTKSGARLICSTTVFPLVNDKEN 328 + TG + + + + G++G +L + T G R+ C T + Sbjct: 110 SHLARCTGQREGVTGEFRLS--GRNGISVDVQLSSMPLTPPGGRVSCRTAI--------T 159 Query: 329 YVYIIAEDITALAEQQQELLIAKNAAESAARMKSEFLATMSHEIRTPLNGIIGINQLLAE 388 + +I L E ++EL AK AAE A+R KSEFLA MSHEIRTP+NG++G+ QL+ + Sbjct: 160 DITMIKRKERELNESREELCWAKEAAEDASRAKSEFLANMSHEIRTPINGVLGMLQLVLD 219 Query: 389 EITAPDHQELLKLQNTSSLALLSVMNDVLDISRLEAENMLLVKAPFKLPALLRECINLFA 448 + + L++ S+ ALL ++ND+LD SR+EA M+ PF L A + + + A Sbjct: 220 TELGDEQRHCLEMAKRSADALLRLVNDILDFSRIEARKMVFESRPFDLTACVNSAVEILA 279 Query: 449 VAAGHKGLALNLEIAPSIPEQLIGDSARIRQILVNLIGNAVKFTHEGSITVTIEPCSKEG 508 A KGLA+ + + P +P ++GD AR+RQ+LVNLIGNAVKFT G + VT ++ Sbjct: 280 FEARRKGLAVMVRMGPDVPAAVVGDEARLRQVLVNLIGNAVKFTDRGKVEVTAARAERQS 339 Query: 509 TSLGLLFRVS--DTGIGIAPDKLELLFQPFSQVDASHNRKYQGTGLGLAICKKLVELMDG 566 L R+S DTGIGIAP + E LF+ FSQVD + NR++ GTGLGLA+ + +VE M G Sbjct: 340 DPLRTAIRISVRDTGIGIAPQERERLFRVFSQVDGACNRRFGGTGLGLALTRDIVEAMGG 399 Query: 567 SIWTEKAREGGTDFFFKIPLQL 588 +I E G+ F IPL L Sbjct: 400 AIDVESQSGQGSTFTITIPLLL 421 >ref|ZP_00187440.1| hypothetical protein Rxyl158501 [Rubrobacter xylanophilus DSM 9941] Length = 908 Score = 231 bits (589), Expect = 4e-59, Method: Compositional matrix adjust. Identities = 138/394 (35%), Positives = 219/394 (55%), Gaps = 21/394 (5%) Query: 207 AVVLGLMYKDRKQVLFTAQFNEQRYTALFEFSPDMVVCIDPVRKKVISANPSLRQTTGYG 266 +L + ++ R+Q + +++++ LFE S D ++ D ++ N ++ GY Sbjct: 13 GTILDITWRRRQQEAL--EESQRQFRDLFERSVDALLVHDG-EGNIVDCNAEACRSLGYT 69 Query: 267 QEEL-----SDYKSILFSTGDEQALKAAV-KRAAQGQSGKLEIIV----KTKSGARLICS 316 ++EL D+ + L D + + +RA G+ G + + + + G Sbjct: 70 RQELLRMNVRDFATNLLRREDRTPGEPTLWERALSGEPGVVAGVHLGEHRRRDGTTFPVE 129 Query: 317 TTVFPLVNDKENYVYIIAEDITALAEQQQELLIAKNAAESAARMKSEFLATMSHEIRTPL 376 V P+V + A DIT ++EL AK AE+A+R KSEF+A MSHEIRTP+ Sbjct: 130 VRVGPVVYGGRRMILAAARDITERKRIEEELREAKEQAEAASRAKSEFVANMSHEIRTPM 189 Query: 377 NGIIGINQLLAEEITAPDHQELLKLQNTSSLALLSVMNDVLDISRLEAENMLLVKAPFKL 436 NG+IG+ +LL + P+ +E + +S ALL+++ND+LD S++EA + L + PF++ Sbjct: 190 NGVIGMAELLLDTPLTPEQREYARTIRSSGEALLAILNDILDFSKIEAGRLSLERIPFEI 249 Query: 437 PALLRECINLFAVAAGHKGLALNLEIAPSIPEQLIGDSARIRQILVNLIGNAVKFTHEGS 496 + E ++L A A KGL L I P +P + GD R+RQ+L NLIGNA+KFT EG Sbjct: 250 HKEVEEVVSLLAPRAHAKGLELICFIEPGVPPLIKGDPFRLRQVLTNLIGNAIKFTEEGE 309 Query: 497 ITVTIE--------PCSKEGTSLGLLFRVSDTGIGIAPDKLELLFQPFSQVDASHNRKYQ 548 + V++ P + G + L F V D+GIGI ++ + LF+ FSQ DAS R+Y Sbjct: 310 VVVSVSLSKEEKSAPAGERGGEIELRFEVKDSGIGIQEEQQKHLFEAFSQADASTTRRYG 369 Query: 549 GTGLGLAICKKLVELMDGSIWTEKAREGGTDFFF 582 GTGLGLAI ++LVE+M G I + + + G+ F F Sbjct: 370 GTGLGLAISRQLVEMMGGEIGLKSSPKEGSTFHF 403 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 0.320 0.134 0.379 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: 788,164,938 Number of extensions: 29816233 Number of successful extensions: 94080 Number of sequences better than 1.0e-05: 4624 Number of HSP's gapped: 87423 Number of HSP's successfully gapped: 4696 Length of query: 613 Length of database: 757,237,578 Length adjustment: 132 Effective length of query: 481 Effective length of database: 398,844,510 Effective search space: 191844209310 Effective search space used: 191844209310 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 (21.8 bits) S2: 129 (54.3 bits)