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= 0504.0015.p (288 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1D7R8.1 B1D7R8_9BACL Two component transcriptional regulator, A... 288 4e-76 B3KA50.1 B3KA50_9BACI Response regulator receiver 145 6e-33 B1D769.1 B1D769_9BACL Two component transcriptional regulator, A... 132 4e-29 B1D5Y1.1 B1D5Y1_9BACL Two component transcriptional regulator, A... 131 6e-29 A7B0I4.1 A7B0I4_RUMGN Putative uncharacterized protein 121 9e-26 >B1D7R8.1 B1D7R8_9BACL Two component transcriptional regulator, AraC family Length = 533 Score = 288 bits (737), Expect = 4e-76, Method: Compositional matrix adjust. Identities = 133/271 (49%), Positives = 199/271 (73%), Gaps = 1/271 (0%) Query: 3 RSIRVLLADDEPVILRGLKKLISWDTLGLDIVGEARDGIELKAMIDTCAPDLVISDISMP 62 R IR+L ADDEPVI+RGL++L+ W+ +G +IVGEA DG ELK M+D C PD+VISDI+MP Sbjct: 2 RKIRILFADDEPVIIRGLRRLLPWNEMGFEIVGEAYDGNELKRMLDVCRPDVVISDINMP 61 Query: 63 GFSGIDIIRDIHESGRPVKVVFISAYQEFSYARQAIQYGALDYIVKPVNTGQLEQVVGRA 122 G +GIDIIR+I+E+GR +KVVFISAYQEFSYA+ A++YGA+DY++KPV+ +L +V+ + Sbjct: 62 GLTGIDIIREINETGRQIKVVFISAYQEFSYAQDAVKYGAIDYLLKPVDKERLHEVMRKV 121 Query: 123 VAMIRQESEEERNKEMLKSYERKHHSITVEELLERLTDGNKGAASTLARMGNIAITRYAS 182 +I ++SE R KEM+ +ER+ + T+EE+L LTD + A L + G I +R+ S Sbjct: 122 TRLIGEQSERNREKEMVVRFERQKRNNTIEEMLAGLTDEDSSAMPELKKFGVIHGSRFIS 181 Query: 183 VCVLETDEYTGQ-TSRWEERERKLVEFALSNIIKETVETAGNGYVFRKGERFAVLLQHEQ 241 VC E D++ Q RW+E+E++L++F+++NI+ E+++ + G FRKG + +QH++ Sbjct: 182 VCYCELDKWDWQEEKRWKEQEKRLIDFSIANILVESLDHSDIGIYFRKGRFHGIFIQHDE 241 Query: 242 ETEPEQIMLDLHHKINSYLKLQVSIGIGRPV 272 E ++ +LH KIN YLK+ V+IG+G PV Sbjct: 242 PVEAIELANELHSKINEYLKVSVTIGLGEPV 272 >B3KA50.1 B3KA50_9BACI Response regulator receiver Length = 532 Score = 145 bits (365), Expect = 6e-33, Method: Compositional matrix adjust. Identities = 88/280 (31%), Positives = 150/280 (53%), Gaps = 19/280 (6%) Query: 5 IRVLLADDEPVILRGLKKLISWDTLGLDIVGEARDGIELKAMIDTCAPDLVISDISMPGF 64 RV+L DDEP+ILR LK I WD L L++VGEA+ G + +P ++ISDI MPG Sbjct: 8 FRVMLVDDEPIILRSLKAAIPWDELDLEVVGEAKSGDGALKLAREVSPHIIISDIRMPGM 67 Query: 65 SGIDIIRDIHESGRPVKVVFISAYQEFSYARQAIQYGALDYIVKPVNTGQLEQVVGRAVA 124 GI +++++ ++FIS Y EF YAR+A++ GA DY++KP++ +L + + RA Sbjct: 68 DGITLMKELKADQARRIIIFISGYGEFEYAREALREGAFDYLLKPIDHDELTETIARAAR 127 Query: 125 MIRQESEEERNKEMLKSYERKHHSITVEELLER------LTDGNKGAASTLARMGNIAIT 178 + ++ ++ +ML HSI V LL R +GN+ + + + + Sbjct: 128 TLEKQIADD---QML-------HSIKVLSLLARERMLTEFIEGNRSPLQHMQWLEDSELE 177 Query: 179 RYASVCVLETDEYTGQTSRWEERERKLVEFALSNIIKE-TVETAG-NGYVFRKGERFAVL 236 ++ V++ D+Y W E++L FA+ N+++E +++ G + FR GE + +L Sbjct: 178 HGYTMAVIQLDQYLRLNELWSMDEKRLWLFAVRNVLEEWSLQHGGLTVFPFRSGE-WVLL 236 Query: 237 LQHEQETEPEQIMLDLHHKINSYLKLQVSIGIGRPVSGME 276 + + E I DL I KL S+G ++G++ Sbjct: 237 FPNLTKERQEDIGRDLVQLIKRNTKLSCSVGFSPSMAGID 276 >B1D769.1 B1D769_9BACL Two component transcriptional regulator, AraC family Length = 540 Score = 132 bits (332), Expect = 4e-29, Method: Compositional matrix adjust. Identities = 91/283 (32%), Positives = 155/283 (54%), Gaps = 27/283 (9%) Query: 6 RVLLADDEPVILRGLKKLISWDTLGLDIVGEARDGIELKAMIDTCAPDLVISDISMPGFS 65 +VLL DDEP I R L+K+I W+ LGL + G A++G+E ++++ + DLV+ DI MP Sbjct: 4 KVLLVDDEPHITRNLEKVIPWEMLGLTVGGTAKNGVEALELLESESFDLVLCDIRMPVMD 63 Query: 66 GIDIIRDIHESGRPVKVVFISAYQEFSYARQAIQYGALDYIVKPVNTGQLEQVVGRAVAM 125 G++++R I E G ++ +S YQ+F+Y R AIQYG DY++KP+ +L V+ R +A Sbjct: 64 GLELVRHIREKGTESDIIMLSGYQDFAYTRAAIQYGVKDYVLKPIPYDELTGVIARVMAN 123 Query: 126 IRQESEE--ERNKEMLKSYERKHHSITVEELLE--RLTDGN---KGAASTLARMGNIAIT 178 RQ+ ++ E +++ + + + + L++ +T GN G L + Sbjct: 124 QRQKKKQQSEEQQKIGRMIDLASEKVLYDILMDYTEVTSGNWLFTGEEQELDK------- 176 Query: 179 RYASVCVLETD---EYTGQTSRWEERERKLVEFALSNIIKETVETAGNGYV---FRKGER 232 +Y + VL+ D E T W ++ERKL FA+ N+++E ++ G + R GE Sbjct: 177 KYV-LIVLDLDVSSERTKDWREWSDKERKLWNFAVCNVLRERLQQNGLHHAVIQIRDGE- 234 Query: 233 FAVLLQHEQET--EPEQIMLD---LHHKINSYLKLQVSIGIGR 270 + VL++ E +QI L L + +++KL + GI R Sbjct: 235 WCVLIECETTLAYNLKQITLWTELLLTAVKNHVKLSLYAGIYR 277 >B1D5Y1.1 B1D5Y1_9BACL Two component transcriptional regulator, AraC family Length = 545 Score = 131 bits (330), Expect = 6e-29, Method: Compositional matrix adjust. Identities = 89/284 (31%), Positives = 156/284 (54%), Gaps = 15/284 (5%) Query: 6 RVLLADDEPVILRGLKKLISWDTLGLDIVGEARDGIELKAMIDTCAPDLVISDISMPGFS 65 ++L+ DDE + GL+ +W + G++I+GEA DG MI APDLV++D+ MP Sbjct: 3 KLLIVDDETTVRMGLQSYFNWSSFGIEIMGEADDGDVAFEMIGREAPDLVLTDVRMPNMD 62 Query: 66 GIDIIRDIHESGRPVKVVFISAYQEFSYARQAIQYGALDYIVKPVNTGQLEQVVGRAVAM 125 GI + R I+E VK++F+S + + Y + A++ A+DYI KPVN +L V+ V+ Sbjct: 63 GITLARLINEHYPHVKIIFVSGHDDADYLKSAMKLSAVDYIFKPVNLEELSSVLRHVVSD 122 Query: 126 IRQESEEERNKEMLKSYERKHHSITVEELLERLTDGNKGAASTLARMG--NIAITRYAS- 182 + ++ E++ KE L+ ++ + E+ L L R+ +++ AS Sbjct: 123 LDEQRAEQQRKEELQVRLKEGMPVLREKFLLSLMGSGVQRQDIRERVQFLELSLPEEASY 182 Query: 183 -VCVLETDEYTGQTSRWEERERKLVEFALSNIIKETVETAGNGYVF--RKGERFAVLLQH 239 V V+ D+ S ER+R+L+ ++++NI +E +++ GYVF + GE FA +L+ Sbjct: 183 WVIVISVDDLPEVMSTRSERDRQLLWYSINNICQELIDSHMGGYVFEYQTGE-FAGILRR 241 Query: 240 EQETE----PEQIMLDLHHKINS----YLKLQVSIGIGRPVSGM 275 E+E + +L+L +I +LK+ V+IGI V+G+ Sbjct: 242 GAESEVSGDAAEGLLELTSRIRDNLERWLKISVTIGISDRVTGL 285 >A7B0I4.1 A7B0I4_RUMGN Putative uncharacterized protein Length = 573 Score = 121 bits (303), Expect = 9e-26, Method: Compositional matrix adjust. Identities = 81/285 (28%), Positives = 141/285 (49%), Gaps = 13/285 (4%) Query: 6 RVLLADDEPVILRGLKKLISWDTLGLDIVGEARDGIELKAMIDTCAPDLVISDISMPGFS 65 +VLL DDE ++ + I W LG ++VG+ +G + D+V++DI MP Sbjct: 42 KVLLVDDEILVREAISAKIEWGHLGFELVGDCENGKAAIEFLKENPVDVVLTDICMPYLD 101 Query: 66 GIDIIRDIHESGRPVKVVFISAYQEFSYARQAIQYGALDYIVKPVNTGQLEQVVGRAVAM 125 G+ + + I+E+ +++ S Y +F YA+QAIQY +Y++KPV +L +V+ R Sbjct: 102 GMGLSKYIYENMPQTRIIIFSGYSDFEYAKQAIQYKVAEYLLKPVTAKELTEVLTRIREK 161 Query: 126 IRQE-SEEERNKEMLKSYE--RKHHSITVEELLERLTDGNKGAASTLARMGNIAIT---R 179 + E +EEER + K+Y K+ ++ + + L RL G + +++ + I Sbjct: 162 LDSERTEEERIDALQKAYRTYTKNEALIISKTLSRLLQGTQAIETSMEELKEFGIELGGA 221 Query: 180 YASVCVLETDEYTG--QTSRWEERERKLVEFALSNIIKETVETAGNGYVFRKGE-RFAVL 236 + V + D Y+ T+ ++E L+ F + NI E V G +R + R +L Sbjct: 222 FYRVVTTDIDVYSSLYDTNDELKKESALMSFVVENISNEIVSDYNAGIAYRDSDSRVCML 281 Query: 237 LQHEQETEPEQ----IMLDLHHKINSYLKLQVSIGIGRPVSGMEE 277 L + E Q I ++ + ++L VSIGIG V +EE Sbjct: 282 LWSDNPKEFSQEIQVICREIQKTVKEAMQLSVSIGIGFCVEKLEE 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 0.317 0.134 0.375 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: 1,613,616,907 Number of extensions: 64527959 Number of successful extensions: 329764 Number of sequences better than 1.0e-05: 11863 Number of HSP's gapped: 340267 Number of HSP's successfully gapped: 11864 Length of query: 288 Length of database: 3,060,696,203 Length adjustment: 134 Effective length of query: 154 Effective length of database: 1,798,280,193 Effective search space: 276935149722 Effective search space used: 276935149722 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: 130 (54.7 bits)