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= 0284.0029.p (256 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 emb|CAB51933.1| Putative AraC-type Regulator [Ruminococcus flave... 73 6e-12 ref|NP_695394.1| probable AraC/XylS-type transcriptional regulat... 72 2e-11 ref|ZP_00121335.1| COG2207: AraC-type DNA-binding domain-contain... 72 2e-11 gb|EAI94249.1| unknown [environmental sequence] 69 7e-11 ref|NP_290160.1| putative regulatory protein [Escherichia coli O... 69 1e-10 >emb|CAB51933.1| Putative AraC-type Regulator [Ruminococcus flavefaciens] Length = 182 Score = 72.8 bits (177), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 40/132 (30%), Positives = 68/132 (51%), Gaps = 4/132 (3%) Query: 127 DYLFRIIFNKLHEASQDKL----SPQYYKLLELRKALYNNPGHPWTVSSMAEYLHISAGY 182 D +++F K+ E + +K+ S Q+ + +R +Y+ P V S A + +S Sbjct: 32 DLFMKLMFIKIRERALNKVAGRRSTQFELISTVRNKIYSRPYEQRNVDSTAHEVRMSRSA 91 Query: 183 LQTIYKSTFGISCMEDVIHCRIRLAKEKLVFGPHKIAELASLCGYANVEHFCRQFRQHTG 242 Q YK FG++ +ED++ R+ AK L I ++++ GY + HF RQF++ TG Sbjct: 92 FQHAYKKHFGMTFIEDLVRSRVSYAKMLLSTTNMNINDISTSSGYHSYVHFARQFKEQTG 151 Query: 243 CSPRAYRDKHAS 254 +P YR K S Sbjct: 152 VTPSEYRKKAQS 163 >ref|NP_695394.1| probable AraC/XylS-type transcriptional regulator [Bifidobacterium longum NCC2705] gb|AAN24030.1| probable AraC/XylS-type transcriptional regulator [Bifidobacterium longum NCC2705] Length = 329 Score = 71.6 bits (174), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 36/105 (34%), Positives = 56/105 (53%) Query: 152 LLELRKALYNNPGHPWTVSSMAEYLHISAGYLQTIYKSTFGISCMEDVIHCRIRLAKEKL 211 +L +R + N TV+ +A H S YL +Y+ FG+ E +I RI A+E L Sbjct: 221 MLAIRSWIMANAFDDITVAKVAARFHYSPSYLTAMYRRVFGVGVAEQIIEYRIDRARELL 280 Query: 212 VFGPHKIAELASLCGYANVEHFCRQFRQHTGCSPRAYRDKHASRL 256 +A++A GYA+ ++F R F++ TG +P YRD +RL Sbjct: 281 SSTASSVADIAREVGYADPKYFMRVFKRRTGLTPGQYRDAFPARL 325 >ref|ZP_00121335.1| COG2207: AraC-type DNA-binding domain-containing proteins [Bifidobacterium longum DJO10A] Length = 321 Score = 71.6 bits (174), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 36/105 (34%), Positives = 56/105 (53%) Query: 152 LLELRKALYNNPGHPWTVSSMAEYLHISAGYLQTIYKSTFGISCMEDVIHCRIRLAKEKL 211 +L +R + N TV+ +A H S YL +Y+ FG+ E +I RI A+E L Sbjct: 213 MLAIRSWIMANAFDDITVAKVAARFHYSPSYLTAMYRRVFGVGVAEQIIEYRIDRARELL 272 Query: 212 VFGPHKIAELASLCGYANVEHFCRQFRQHTGCSPRAYRDKHASRL 256 +A++A GYA+ ++F R F++ TG +P YRD +RL Sbjct: 273 SSTASSVADIAREVGYADPKYFMRVFKRRTGLTPGQYRDAFPARL 317 >gb|EAI94249.1| unknown [environmental sequence] Length = 158 Score = 69.3 bits (168), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 49/150 (32%), Positives = 74/150 (49%), Gaps = 4/150 (2%) Query: 105 HQLFQLLTLENTFHNDYRELSI--DYLFRIIFNKLHE--ASQDKLSPQYYKLLELRKALY 160 H +LL LE N + + YL+RII L + +K Q +L L A+ Sbjct: 6 HHAMELLYLERDVENRNSAMQVVSRYLYRIIDAPLSDVHTHDEKERRQVSRLHSLFSAVE 65 Query: 161 NNPGHPWTVSSMAEYLHISAGYLQTIYKSTFGISCMEDVIHCRIRLAKEKLVFGPHKIAE 220 W + S++E H SA +L + FG S + VIH R+ AK L+ ++ Sbjct: 66 KQLQFDWDMESLSEKAHYSAPHLHRLCLQVFGRSPKQHVIHLRMTRAKSLLLSTQWPVSY 125 Query: 221 LASLCGYANVEHFCRQFRQHTGCSPRAYRD 250 +AS GYANV F ++F++ TG SP A+R+ Sbjct: 126 IASYVGYANVFTFSKRFKKSTGLSPSAFRE 155 >ref|NP_290160.1| putative regulatory protein [Escherichia coli O157:H7 EDL933] ref|NP_312484.1| putative transcriptional regulator [Escherichia coli O157:H7] pir||A98186 probable transcription regulator [imported] - Escherichia coli (strain O157:H7, substrain RIMD 0509952) pir||H86032 probable regulatory protein Z5000 [imported] - Escherichia coli (strain O157:H7, substrain EDL933) gb|AAG58724.1| putative regulatory protein [Escherichia coli O157:H7 EDL933] dbj|BAB37880.1| putative transcriptional regulator [Escherichia coli O157:H7] Length = 271 Score = 68.6 bits (166), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 55/244 (22%), Positives = 113/244 (46%), Gaps = 22/244 (9%) Query: 25 LDAWLLVLTQTAALFEVAGELKEF---PAHSAVLYPPNHAIHYRACSAKYVNDWVRF--- 78 L++W ++ + L + E + F S +L+P + A W+ F Sbjct: 31 LESWEIIFVEKGRL-TIQEEERIFLVDAGESLLLWPNRQHVGVEDFPADLKFYWLHFEVK 89 Query: 79 --DADESYITESALPTGVPFSLPDPGYCHQLFQLLTLENTFHNDYRELSIDYLFRIIFN- 135 D D ++T ++P + DP LF+ E H R +++++ +I Sbjct: 90 APDNDPRWLTHLSVPQQT--KVVDPQALVALFRQFLSEQEKHQ--RTPALEFIVLLILQQ 145 Query: 136 -----KLHEASQDKLSPQYYKLLELRKALYNNPGHPWTVSSMAEYLHISAGYLQTIYKST 190 +L E + + +K +L + Y+ P + + +A L+ +A YL +Y+ Sbjct: 146 LTRDARLDEQADGAGTTLAWKAQKLIRTQYHRP---LSTALLARELYCNADYLGRVYRRV 202 Query: 191 FGISCMEDVIHCRIRLAKEKLVFGPHKIAELASLCGYANVEHFCRQFRQHTGCSPRAYRD 250 F ++ E + R+R A++ L+ + E+A+LCG+ +V +F + FR+HTG +P A++ Sbjct: 203 FHLTLTEAIHRQRVREAEKLLISEARSLTEVAALCGFNDVGYFRQIFRKHTGLTPAAWKR 262 Query: 251 KHAS 254 +++ Sbjct: 263 RYSK 266 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 0.324 0.138 0.439 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: 411,638,172 Number of extensions: 16557761 Number of successful extensions: 44343 Number of sequences better than 1.0e-05: 77 Number of HSP's gapped: 44521 Number of HSP's successfully gapped: 77 Length of query: 256 Length of database: 757,237,578 Length adjustment: 123 Effective length of query: 133 Effective length of database: 423,280,401 Effective search space: 56296293333 Effective search space used: 56296293333 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.5 bits) S2: 124 (52.4 bits)