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= 0564.0056.p (231 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1D5N1.1 B1D5N1_9BACL Two component transcriptional regulator, w... 266 1e-69 B3KH49.1 B3KH49_9BACI Response regulator receiver 259 1e-67 B1DEU6.1 B1DEU6_9BACL Two component transcriptional regulator, w... 236 9e-61 A9KHN7.1 A9KHN7_CLOPH Two component transcriptional regulator, w... 196 1e-48 C2ULQ0.1 C2ULQ0_BACCE DNA-binding response regulator 195 3e-48 >B1D5N1.1 B1D5N1_9BACL Two component transcriptional regulator, winged helix family Length = 230 Score = 266 bits (679), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 137/224 (61%), Positives = 166/224 (74%), Gaps = 4/224 (1%) Query: 4 KVLVVDDEPGIVNAIAYALRREGYEVDTAGDGEEALAKAQVFHPNVMVLDVMMPKLNGYD 63 KVLVVDDE I +AIAYAL+REG+ V+TAGDG EAL K F P+VMVLDVMMPK+NGY+ Sbjct: 3 KVLVVDDEVSISSAIAYALQREGFTVETAGDGMEALEKVAAFKPDVMVLDVMMPKMNGYE 62 Query: 64 VCRKLEDRDDIGIILLTVKNDIVDKIVGLELGADDYMTKPFEIXXXXXXXXXXXXXXDKN 123 VCRKLE + I+LLTVKNDIVDK++GLELGADDYMTKPF+I Sbjct: 63 VCRKLEAGNKPAIMLLTVKNDIVDKVLGLELGADDYMTKPFDIREVVARVKALHRRRQIE 122 Query: 124 TAEVKSE---LIEYGALRVHAERRSVQLGEEQLELTPKEFDLLLLLLSHPQRVYMREELL 180 + E S+ +E G + + R+V++ E +LTPKEFDLL LL HP RVY RE LL Sbjct: 123 SPEQDSDKEGRLELGGIVIELLSRTVRVDGEICDLTPKEFDLLALLAKHPDRVYSREALL 182 Query: 181 DQVWEMDYAGGTRTVDIHIQRLRKKLGEPYQNILQTVYGVGYKA 224 +QVWEMD+AGGTRTVDIH+QRLRKKLGE +Q ++QTVYG+GYK+ Sbjct: 183 EQVWEMDFAGGTRTVDIHVQRLRKKLGE-WQGLIQTVYGIGYKS 225 >B3KH49.1 B3KH49_9BACI Response regulator receiver Length = 231 Score = 259 bits (663), Expect = 1e-67, Method: Compositional matrix adjust. Identities = 132/226 (58%), Positives = 165/226 (73%), Gaps = 5/226 (2%) Query: 4 KVLVVDDEPGIVNAIAYALRREGYEVDTAGDGEEALAKAQVFHPNVMVLDVMMPKLNGYD 63 KVLVVDDE I +A+AYALRREGY V+TAGDG+EAL + + F P+VMVLDVMMPKL+GYD Sbjct: 3 KVLVVDDEISISSAVAYALRREGYTVETAGDGQEALERVESFDPDVMVLDVMMPKLSGYD 62 Query: 64 VCRKLEDRDDIGIILLTVKNDIVDKIVGLELGADDYMTKPFEIXXXXXXXXXXXXXXDKN 123 VCR+L DR I+LLTVK+DIVDK++GLELGADDYMTKPF++ Sbjct: 63 VCRRLGDRQRPAILLLTVKDDIVDKVLGLELGADDYMTKPFDMREIIARVKALSRRSRTP 122 Query: 124 TAEVKSEL----IEYGALRVHAERRSVQLGEEQLELTPKEFDLLLLLLSHPQRVYMREEL 179 A K L I L ++ R++ + LELTPKEFDL+ LL +P+RVY RE L Sbjct: 123 EAAGKQALETHVIRIAGLTINLLNRTIHAEGKPLELTPKEFDLMALLARNPERVYSREAL 182 Query: 180 LDQVWEMDYAGGTRTVDIHIQRLRKKLGEPYQNILQTVYGVGYKAV 225 L+QVW+MD+AGGTRTVDIH+QRLRKKLG ++ ++QTVYG+GYK+ Sbjct: 183 LEQVWDMDFAGGTRTVDIHVQRLRKKLGNQHE-VIQTVYGIGYKST 227 >B1DEU6.1 B1DEU6_9BACL Two component transcriptional regulator, winged helix family Length = 232 Score = 236 bits (603), Expect = 9e-61, Method: Compositional matrix adjust. Identities = 121/225 (53%), Positives = 162/225 (72%), Gaps = 4/225 (1%) Query: 4 KVLVVDDEPGIVNAIAYALRREGYEVDTAGDGEEALAKAQVFHPNVMVLDVMMPKLNGYD 63 KVLVV+D+ I +AI YAL REGY V TA DGE+AL KA+VF P+V++LD+MMPK+NGY+ Sbjct: 2 KVLVVEDDFSISSAITYALEREGYTVRTAADGEKALEKAEVFKPDVIILDIMMPKMNGYE 61 Query: 64 VCRKLEDRDDIGIILLTVKNDIVDKIVGLELGADDYMTKPFEIXXXXXXXXXXXXXXDKN 123 V RKL ++ G++LLTVKNDIVDK++GLELGADDYMTKPF+I Sbjct: 62 VFRKLNQKERPGVLLLTVKNDIVDKVLGLELGADDYMTKPFDIREVLARVKVLYRRSHFT 121 Query: 124 T---AEVKSELIEYGALRVHAERRSVQLGEEQLELTPKEFDLLLLLLSHPQRVYMREELL 180 T +E++ E G L + R+V++ ++L+LT KEFDLL+ L +P +VY R+ LL Sbjct: 122 TFKNSEIEKVTTEMGGLSIEPYSRTVRMDGQELDLTLKEFDLLVELACNPDQVYSRKVLL 181 Query: 181 DQVWEMDYAGGTRTVDIHIQRLRKKLGEPYQNILQTVYGVGYKAV 225 +VW++ YAGGTRTVDIHIQRLRKKLG + ++QT+ G+GYK + Sbjct: 182 KKVWDIHYAGGTRTVDIHIQRLRKKLGR-WHGLIQTINGIGYKFI 225 >A9KHN7.1 A9KHN7_CLOPH Two component transcriptional regulator, winged helix family Length = 229 Score = 196 bits (498), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 104/225 (46%), Positives = 153/225 (68%), Gaps = 3/225 (1%) Query: 1 MTKKVLVVDDEPGIVNAIAYALRREGYEVDTAGDGEEALAKAQVFHPNVMVLDVMMPKLN 60 M+KKVLVVDDE IV I ++L ++G EVD A DGEEAL A+ +V++LDVM+P++N Sbjct: 1 MSKKVLVVDDEKLIVKGIRFSLEQDGMEVDCAYDGEEALVFAKQKEYDVILLDVMLPRMN 60 Query: 61 GYDVCRKLEDRDDIGIILLTVKNDIVDKIVGLELGADDYMTKPFEIXXXXXXXXXXXXXX 120 G++VC+++ + ++ +I+LT K D +DKI+GLE GADDY+TKPF I Sbjct: 61 GFEVCQQIREFSNMPVIMLTAKGDDMDKILGLEYGADDYITKPFNILEVKARIKAIMRRN 120 Query: 121 DKNTAEVK-SELIEYGALRVHAERRSVQLGEEQLELTPKEFDLLLLLLSHPQRVYMREEL 179 + +E + S+ I +G L++ +E R V + E+++ LT KEFD+L LL+ +P +VY RE L Sbjct: 121 TRKASEAEASKTIVFGDLKIDSESRRVFISEKEINLTAKEFDVLELLVLNPNKVYSRENL 180 Query: 180 LDQVWEMDYAGGTRTVDIHIQRLRKKLGE-PYQ-NILQTVYGVGY 222 L+ VW DY G RTVD+HI+RLR+K+ E P + + T +GVGY Sbjct: 181 LNIVWGYDYPGDVRTVDVHIRRLREKIEENPSEPKYVHTKWGVGY 225 >C2ULQ0.1 C2ULQ0_BACCE DNA-binding response regulator Length = 224 Score = 195 bits (495), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 105/221 (47%), Positives = 145/221 (65%), Gaps = 3/221 (1%) Query: 4 KVLVVDDEPGIVNAIAYALRREGYEVDTAGDGEEALAKAQVFHPNVMVLDVMMPKLNGYD 63 K+LVVDDE I N I L EGYEV A DG EAL K P+V++LDVM+P +GY+ Sbjct: 3 KILVVDDESSIRNLIRMQLEMEGYEVLAAADGREALEKWNE-GPDVLILDVMLPDTDGYE 61 Query: 64 VCRKLEDRD-DIGIILLTVKNDIVDKIVGLELGADDYMTKPFEIXXXXXXXXXXXXXXDK 122 + R +RD DI +++LT K+ + DK++GL+LGADDY+TKPF K Sbjct: 62 LLRLFRERDRDIPVLMLTAKSQMNDKLLGLQLGADDYVTKPFNYAELILRVKNMARRVKK 121 Query: 123 NTAEVKSELIEYGALRVHAERRSVQLGEEQLELTPKEFDLLLLLLSHPQRVYMREELLDQ 182 A V E+IE G + + + R V +G ++++LT +EF+L L +S+PQRV+MR+ELL++ Sbjct: 122 TEAAVSHEVIEAGEIVICPKERKVHVGGQEIQLTYREFNLCQLFVSNPQRVFMRDELLEK 181 Query: 183 VWEMDYAGGTRTVDIHIQRLRKKLGEPYQNILQTVYGVGYK 223 VW +Y G TR VDI +QRLRKKLG + I +T+YGVGYK Sbjct: 182 VWGFEYIGNTRAVDIMVQRLRKKLGTSGEYI-KTIYGVGYK 221 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 0.319 0.139 0.394 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: 1,303,858,717 Number of extensions: 50683203 Number of successful extensions: 225793 Number of sequences better than 1.0e-05: 25309 Number of HSP's gapped: 200670 Number of HSP's successfully gapped: 25458 Length of query: 231 Length of database: 3,060,696,203 Length adjustment: 131 Effective length of query: 100 Effective length of database: 1,826,543,238 Effective search space: 182654323800 Effective search space used: 182654323800 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 (21.7 bits) S2: 129 (54.3 bits)