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= 0040.0008.p (302 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|NP_801237.1| transcriptional regulator, AraC/XylS family [Vi... 77 4e-13 ref|NP_487211.1| transcriptional regulator [Nostoc sp. PCC 7120]... 76 8e-13 gb|EAJ70669.1| unknown [environmental sequence] 75 1e-12 ref|ZP_00161050.1| hypothetical protein Avar210401 [Anabaena var... 74 4e-12 ref|NP_313127.1| regulator of melibiose operon [Escherichia coli... 72 2e-11 >ref|NP_801237.1| transcriptional regulator, AraC/XylS family [Vibrio parahaemolyticus RIMD 2210633] dbj|BAC63070.1| transcriptional regulator, AraC/XylS family [Vibrio parahaemolyticus] Length = 270 Score = 77.4 bits (189), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 40/139 (28%), Positives = 78/139 (56%), Gaps = 1/139 (0%) Query: 140 NADSYVLMRVALETILLLFQRNRVTMLLPHVLNDQFTIQEVLKEIHAGYHTQITVSELAS 199 + D +L R +T++ L QR+ ++ + +F ++ + + I +I+V++LA Sbjct: 133 HPDDLLLSRACNDTVIALMQRH-ISAFETSRKDSRFDLEAIDRYIEQHLSHKISVAQLAG 191 Query: 200 RYFLSESNLRKKFTELIGVSPKQYIINLRLREAKRLLQQTDKAVEIISHEVGFTSSSRFY 259 R FL ES F + +G++P QY++ R+ A+ L++Q ++ I+ GF+S S F Sbjct: 192 RVFLGESQFHSLFKDQMGITPHQYVLGKRIDMARELIEQGHLSLGQIAEFTGFSSQSTFT 251 Query: 260 HFFVKAAGATPLEWRKKVG 278 H F + G +P +++K+VG Sbjct: 252 HTFTRLQGLSPSQYKKQVG 270 >ref|NP_487211.1| transcriptional regulator [Nostoc sp. PCC 7120] pir||AD2202 transcription regulator all3171 [imported] - Nostoc sp. (strain PCC 7120) dbj|BAB74870.1| transcriptional regulator [Nostoc sp. PCC 7120] Length = 306 Score = 76.3 bits (186), Expect = 8e-13, Method: Compositional matrix adjust. Identities = 59/244 (24%), Positives = 117/244 (47%), Gaps = 23/244 (9%) Query: 42 ILEGEGYYSSAEQNIKVSKGDLILIPSRLHHGFVCTEPWQGISVHFYHDKLPAY-CQYLF 100 IL+G Y + ++KGD+ +IP++ HH WQ + PA+ + + Sbjct: 76 ILDGRLQYEN------IAKGDVAIIPAQTHH----ISRWQSETKFLVLSVEPAFFTRMVI 125 Query: 101 HNAEREQDRIRSAYLSEEDMRWAEISLIQLEKEWKLESYNADSYVLMRVALETILLLFQR 160 + ++ I+ + + + + + I L + +LES + S + + +L T L + Sbjct: 126 EAGDLQKIEIKPRFAAPDPL----VQQIGLALQTELESEHKGSSIYIE-SLTTTLCIHLL 180 Query: 161 NRVTMLLPHVLNDQ-------FTIQEVLKEIHAGYHTQITVSELASRYFLSESNLRKKFT 213 + +L+D + +++ + IH +T+ ++++ +S ++F Sbjct: 181 KHYCVTGGTILDDHHHKGLSHWKLRQAISYIHENLDQDLTLVDISTAVGMSMYYFSRQFK 240 Query: 214 ELIGVSPKQYIINLRLREAKRLLQQTDKAVEIISHEVGFTSSSRFYHFFVKAAGATPLEW 273 + G +P QY++N R+ AK+LL T+K +E I +VGF S S F + F K G TP + Sbjct: 241 QSTGFAPHQYVMNCRIERAKKLLGSTNKTIEQICTQVGFQSQSHFTNVFRKLMGITPRVY 300 Query: 274 RKKV 277 R++V Sbjct: 301 REQV 304 >gb|EAJ70669.1| unknown [environmental sequence] Length = 284 Score = 75.5 bits (184), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 57/257 (22%), Positives = 115/257 (44%), Gaps = 13/257 (5%) Query: 26 EGLFMSHSHEYDELTLILEGEGYYSSAEQNIKVSKGDLILIPSRLHHGFVCTEPWQGISV 85 + +F H+HE+ EL L+ G G + ++ ++++GDL I + H + +V Sbjct: 30 QNVFAEHTHEFCELVLVWRGNGLHVLNDRPWRITRGDLFYIRAEDKHSYASVNDLVLQNV 89 Query: 86 HFYHDKL------PAYCQYLFHNAEREQDRIRSAYLSEEDMRWAEISLIQLEKEWKLESY 139 + D+L + LF + RI S+ +++ + QLE+E Sbjct: 90 IYCPDRLRLNFDWATHIPGLFGTSWMPHWRIGSSGMAQ-----VRQVITQLEQESARGGA 144 Query: 140 NADSYVLMRVALETILLLFQRNRVTMLLPHVLNDQFTIQEVLKEIHAGYHTQITVSELAS 199 A++ + + ++L+ R+R + + ++L E+ + + Sbjct: 145 QANN--MAELLFAQLVLILHRHRYATDNRAATQSETLLDKLLTELAGSLNRPFILELFCE 202 Query: 200 RYFLSESNLRKKFTELIGVSPKQYIINLRLREAKRLLQQTDKAVEIISHEVGFTSSSRFY 259 R E LR++F + G++ Y+ LR+ A+ LLQ T++ + I+ + GF S+ F Sbjct: 203 REGCGERALRQQFRQQTGMTINHYLRQLRICHAQYLLQHTERLIGDIAMQCGFEDSNYFS 262 Query: 260 HFFVKAAGATPLEWRKK 276 F + G TP +WR++ Sbjct: 263 VVFNREIGMTPGQWRQR 279 >ref|ZP_00161050.1| hypothetical protein Avar210401 [Anabaena variabilis ATCC 29413] Length = 306 Score = 73.9 bits (180), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 59/244 (24%), Positives = 116/244 (47%), Gaps = 23/244 (9%) Query: 42 ILEGEGYYSSAEQNIKVSKGDLILIPSRLHHGFVCTEPWQGISVHFYHDKLPAY-CQYLF 100 IL+G Y + ++KGD+ +IP++ H WQ + PA+ + + Sbjct: 76 ILDGRLQYEN------IAKGDVAIIPAQTRH----ISRWQSEAKFLVLSMEPAFFTRMVI 125 Query: 101 HNAEREQDRIRSAYLSEEDMRWAEISLIQLEKEWKLESYNADSYVLMRVALETILLLFQR 160 + ++ I+ + + + + I I L + +LES + S + + +L T L + Sbjct: 126 EAGDLQKIEIKPRFAAPDPL----IQQIGLALQTELESEHKGSSIYIE-SLTTTLCIHLL 180 Query: 161 NRVTMLLPHVLNDQ-------FTIQEVLKEIHAGYHTQITVSELASRYFLSESNLRKKFT 213 + +L+D + +++ + IH +T+ ++++ +S ++F Sbjct: 181 KHYCVTGGTILDDHHHKGLSHWKLRQAISYIHENLDQDLTLVDISTAVGMSMYYFSRQFK 240 Query: 214 ELIGVSPKQYIINLRLREAKRLLQQTDKAVEIISHEVGFTSSSRFYHFFVKAAGATPLEW 273 + G +P QY++N R+ AK+LL T+K +E I +VGF S S F + F K G TP + Sbjct: 241 QSTGFAPHQYVMNCRIERAKKLLGSTNKTIEQICTQVGFQSQSHFTNVFRKLMGITPRVY 300 Query: 274 RKKV 277 R++V Sbjct: 301 REQV 304 >ref|NP_313127.1| regulator of melibiose operon [Escherichia coli O157:H7] pir||D91266 regulator of melibiose operon [imported] - Escherichia coli (strain O157:H7, substrain RIMD 0509952) dbj|BAB38523.1| regulator of melibiose operon [Escherichia coli O157:H7] Length = 302 Score = 71.6 bits (174), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 63/259 (24%), Positives = 120/259 (46%), Gaps = 22/259 (8%) Query: 31 SHSHEYDELTLILEGEGYYSSAEQNIKVSKGDLILIPSRLHHGFVCTEPWQGISVHFYHD 90 SH H E+ + +G+ Y + + +++G + L + + H T Q +++ Sbjct: 41 SHWHGQVEVNVPFDGDVEYLINNEKVNINQGHITLFWACIPHQLTDTGTCQSMAIF---- 96 Query: 91 KLPAYCQYLFHNAEREQDRIRSAYLSEEDMRWAEISLIQLE-KEWKLESYNADSYVLMRV 149 LP + LF + ++D I A L E + W+ E N+ + + ++ Sbjct: 97 NLPMH---LFLSWPLDKDLINHVTHGMVIKSLATQQLSPFEVRRWQQE-LNSPNEQIRQL 152 Query: 150 ALETILLLFQRNRVTMLLPHVLND-------------QFTIQEVLKEIHAGYHTQITVSE 196 A++ I L+ +R ++ P ++N QF + ++L I Y +T+++ Sbjct: 153 AIDEIGLMLKRFSLSGWEPILVNKTSRTHKNSVSRHAQFYVSQMLGFIAENYDQALTIND 212 Query: 197 LASRYFLSESNLRKKFTELIGVSPKQYIINLRLREAKRLLQQTDKAVEIISHEVGFTSSS 256 +A L+ + F ++ ++ KQYI +R+ + LL TDK++ I+ GF SSS Sbjct: 213 VAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDTDKSILDIALTAGFRSSS 272 Query: 257 RFYHFFVKAAGATPLEWRK 275 RFY F K G +P ++RK Sbjct: 273 RFYSTFGKYVGMSPQQYRK 291 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 0.321 0.136 0.399 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: 437,053,325 Number of extensions: 17020865 Number of successful extensions: 43050 Number of sequences better than 1.0e-05: 386 Number of HSP's gapped: 43186 Number of HSP's successfully gapped: 386 Length of query: 302 Length of database: 757,237,578 Length adjustment: 125 Effective length of query: 177 Effective length of database: 417,850,203 Effective search space: 73959485931 Effective search space used: 73959485931 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: 125 (52.8 bits)