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= 0397.0012.p (334 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BH1516 [K] COG1609 Transcriptional regulators 355 8e-98 BS_ccpA [K] COG1609 Transcriptional regulators 253 2e-67 CAC3037 [K] COG1609 Transcriptional regulators 246 3e-65 BS_degA [K] COG1609 Transcriptional regulators 226 4e-59 lin1640 [K] COG1609 Transcriptional regulators 224 1e-58 >BH1516 [K] COG1609 Transcriptional regulators Length = 343 Score = 355 bits (910), Expect = 8e-98, Method: Compositional matrix adjust. Identities = 173/333 (51%), Positives = 238/333 (71%), Gaps = 2/333 (0%) Query: 1 MN-PTIKDVAQKANVSIATVSRVLNNLTGYSDKTKQKVNQAIKELGYQPNAIARGLINKR 59 MN PTIKDVA++ANVSIATVSR+LN GYS+KTKQ V + I+++GY PNA+ARGLINK+ Sbjct: 1 MNRPTIKDVAREANVSIATVSRILNKGVGYSEKTKQHVLETIEKMGYHPNAVARGLINKK 60 Query: 60 TQTIGVMFPKVSSAFSSDLLHGIDEFAHDSNYSVVVCNTDNDGKRTMKYLQLLREKQVDG 119 T +IGV+FP VS S+ +L GI+E A SV+VCNT +D K+TM YL L+EKQVDG Sbjct: 61 TDSIGVLFPNVSGLISAQILQGIEEVAQSHGISVIVCNTASDHKKTMDYLTFLQEKQVDG 120 Query: 120 IIFSSEVLSKEYYEVLESMKIPVVLVSSQTDFAKVPYVKVDDYQAVYDAIQFLISKGHRK 179 ++F S++L+K+Y E ++ M +P++ +S+ ++ VPYVKVDD A YDA+++LI KGH Sbjct: 121 LLFISQLLTKDYREFIKKMGVPIITISAFSETNDVPYVKVDDEAASYDAVRYLIEKGHTD 180 Query: 180 IAMISGTKGDPIAGTPRVQGYRKALEANGIAFDSSRLVYGD-FSFESGSRAMEALLRKAG 238 I MISG DP+AG PR+QGY++AL + F +++ + F FE G A + LL+ Sbjct: 181 IGMISGPPTDPLAGHPRIQGYKRALREADLPFIETKMTWHKGFYFEDGQVAFQKLLKSHP 240 Query: 239 EVTAVFAASDEMAIGALSSALKHGLNVPEDISIMGYDDLKPAQMVTPPLTTVRQPLYEMG 298 +TA+FAASDE+AI A+SSA G+ VP +S++GYDD K A+M PPLTTV QP EMG Sbjct: 241 SITALFAASDELAISAVSSAYHLGIRVPHQLSVIGYDDTKLAKMSIPPLTTVSQPFEEMG 300 Query: 299 KIASEKLIGMIETGEIAANRIMAHSIVERQTVR 331 A++KLI I++ E + M H I ER++V+ Sbjct: 301 AQATKKLIDSIQSREPNTSLTMPHRIAERESVK 333 >BS_ccpA [K] COG1609 Transcriptional regulators Length = 334 Score = 253 bits (647), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 125/332 (37%), Positives = 214/332 (64%), Gaps = 1/332 (0%) Query: 2 NPTIKDVAQKANVSIATVSRVLNNLTGYSDKTKQKVNQAIKELGYQPNAIARGLINKRTQ 61 N TI DVA++ANVS+ATVSRV+N T++KV +AI+ LGY+PNA+ARGL +K+T Sbjct: 3 NITIYDVAREANVSMATVSRVVNGNPNVKPTTRKKVLEAIERLGYRPNAVARGLASKKTT 62 Query: 62 TIGVMFPKVSSAFSSDLLHGIDEFAHDSNYSVVVCNTDNDGKRTMKYLQLLREKQVDGII 121 T+GV+ P +SS F S+L GI++ A Y++++ N+D + ++ + L + KQVDGI+ Sbjct: 63 TVGVIIPDISSIFYSELARGIEDIATMYKYNIILSNSDQNMEKELHLLNTMLGKQVDGIV 122 Query: 122 FSSEVLSKEYYEVLESMKIPVVLVSSQTDFAKVPYVKVDDYQAVYDAIQFLISKGHRKIA 181 F ++ E+ + +P+VL +S + + P V +D QA+YDA++ L+ KGH IA Sbjct: 123 FMGGNITDEHVAEFKRSPVPIVLAASVEEQEETPSVAIDYEQAIYDAVKLLVDKGHTDIA 182 Query: 182 MISGTKGDPIAGTPRVQGYRKALEANGIAFDSSRLVYGDFSFESGSRAMEALLRKAGEVT 241 +SG +PI + ++QGY++ALE + F+ + GD++++SG A++ L+ + T Sbjct: 183 FVSGPMAEPINRSKKLQGYKRALEEANLPFNEQFVAEGDYTYDSGLEALQHLMSLDKKPT 242 Query: 242 AVFAASDEMAIGALSSALKHGLNVPEDISIMGYDDLKPAQMVTPPLTTVRQPLYEMGKIA 301 A+ +A+DEMA+G + +A GL++PED+ I+G+D+ + + MV P L+TV QP Y++G +A Sbjct: 243 AILSATDEMALGIIHAAQDQGLSIPEDLDIIGFDNTRLSLMVRPQLSTVVQPTYDIGAVA 302 Query: 302 SEKLIGMIETGEIAANRI-MAHSIVERQTVRT 332 L ++ + + + + H I R++ ++ Sbjct: 303 MRLLTKLMNKEPVEEHIVELPHRIELRKSTKS 334 >CAC3037 [K] COG1609 Transcriptional regulators Length = 334 Score = 246 bits (629), Expect = 3e-65, Method: Compositional matrix adjust. Identities = 127/335 (37%), Positives = 217/335 (64%), Gaps = 5/335 (1%) Query: 1 MNPTIKDVAQKANVSIATVSRVLNNLTGYSDKTKQKVNQAIKELGYQPNAIARGLINKRT 60 M +IKDVA++A VSIATVSRVLNN+ +++TK+KV +AIK+L Y+PN +AR L +RT Sbjct: 1 MAASIKDVAREARVSIATVSRVLNNVDVVNEETKKKVMEAIKKLDYRPNIVARSLKTQRT 60 Query: 61 QTIGVMFPKVSSAFSSDLLHGIDEFAHDSNYSVVVCNTDNDGKRTMKYLQLLREKQVDGI 120 +TIG++ P +SS F +++ G ++ ++ NY+V++CNTD D + Y+++L+EK VDG+ Sbjct: 61 RTIGIVIPDISSQFYPEIVRGAEDVSNIYNYNVILCNTDLDISKEKDYIRVLKEKMVDGV 120 Query: 121 IFSSEVLSKEYYEVLESMKIPVVLVSSQ--TDFAKVPYVKVDDYQAVYDAIQFLISKGHR 178 I+ S L+ E ++L +KIP VLV ++ D P V +D+ +A YDA+ +LI KG+ Sbjct: 121 IYMSNSLAPEILQLLRDLKIPTVLVETRESEDENAFPSVTIDNAKAAYDAVNYLIKKGNN 180 Query: 179 KIAMIS-GTKGDPIAGTPRVQGYRKALEANGIAFDSSRLVYGDFSFESGSRAMEALLRKA 237 KIA + K A +GY+KAL N I + + + +G G+ + +++K Sbjct: 181 KIAYVGVNPKLKNNARAIIYEGYKKALLDNNIPLNENLIQFGGLKAIDGTDGINVIIKKE 240 Query: 238 GEVTAVFAASDEMAIGALSSALKHGLNVPEDISIMGYDDLKPAQMVTPPLTTVRQPLYEM 297 ++ AVF A DE+A+GA+++ ++G++VP+D+ ++G+D++ + + P LTT+ QP Y+M Sbjct: 241 -KIDAVFCACDEIAMGAINALRENGIDVPKDVDVVGFDNIYTSSIFYPKLTTIEQPTYDM 299 Query: 298 GKIASEKLIGMIETGEIAA-NRIMAHSIVERQTVR 331 G + LI +I E + ++ ++I+ER + + Sbjct: 300 GSVGMRMLIKIINKAEPECLHYVLDYNIIERDSCK 334 >BS_degA [K] COG1609 Transcriptional regulators Length = 337 Score = 226 bits (576), Expect = 4e-59, Method: Compositional matrix adjust. Identities = 127/323 (39%), Positives = 188/323 (58%), Gaps = 5/323 (1%) Query: 1 MNPTIKDVAQKANVSIATVSRVLNNLTGYSDKTKQKVNQAIKELGYQPNAIARGLINKRT 60 M TI DVA+ A VSI TVSRV+NN SDKT+QKV + E+ Y PN A L KRT Sbjct: 1 MKTTIYDVAKAAGVSITTVSRVINNTGRISDKTRQKVMNVMNEMAYTPNVHAAALTGKRT 60 Query: 61 QTIGVMFPKVSSAFSSDLLHGIDEFAHDSNYSVVVCNTDNDGKRTMKYLQLLREKQVDGI 120 I ++ P +S+ F +L I+E A + + +++C+TD D K+ KY +L++K+VDGI Sbjct: 61 NMIALVAPDISNPFYGELAKSIEERADELGFQMLICSTDYDPKKETKYFSVLKQKKVDGI 120 Query: 121 IFSSEVLSKEYYEVLE---SMKIPVVLVSSQTDFAKVPYVKVDDYQAVYDAIQFLISKGH 177 IF++ + S + LE S +IP+ ++S + V +DD + Y+A + L+S GH Sbjct: 121 IFATGIESHDSMSALEEIASEQIPIAMISQDKPLLPMDIVVIDDVRGGYEAAKHLLSLGH 180 Query: 178 RKIAMISGTKGDPIAGTPRVQGYRKALEANGIAFDSSRLVYGDFSFESGSRAMEALLRKA 237 IA I G G R++G+R+A+E G+ D S ++ FS ESG LL + Sbjct: 181 TNIACIIG-DGSTTGEKNRIKGFRQAMEEAGVPIDESLIIQTRFSLESGKEEAGKLLDRN 239 Query: 238 GEVTAVFAASDEMAIGALSSALKHGLNVPEDISIMGYDDLKPAQMVTPPLTTVRQPLYEM 297 TA+FA +D +A A+ +A G+ VP+D+SI+G+D+ A+M PPLTTV QP+ EM Sbjct: 240 AP-TAIFAFNDVLACAAIQAARIRGIKVPDDLSIIGFDNTILAEMAAPPLTTVAQPIKEM 298 Query: 298 GKIASEKLIGMIETGEIAANRIM 320 G+ E L IE A +I+ Sbjct: 299 GRSVIELLAEAIEGKRKAKQKIV 321 >lin1640 [K] COG1609 Transcriptional regulators Length = 335 Score = 224 bits (571), Expect = 1e-58, Method: Compositional matrix adjust. Identities = 120/332 (36%), Positives = 199/332 (59%), Gaps = 1/332 (0%) Query: 1 MNPTIKDVAQKANVSIATVSRVLNNLTGYSDKTKQKVNQAIKELGYQPNAIARGLINKRT 60 MN TI DVA++ANVS+ATVSRV+N T++KV I +LGY+PNA+ARGL +KRT Sbjct: 1 MNVTIYDVAREANVSMATVSRVVNGNPNVKPVTRKKVLDVINQLGYRPNAVARGLASKRT 60 Query: 61 QTIGVMFPKVSSAFSSDLLHGIDEFAHDSNYSVVVCNTDNDGKRTMKYLQLLREKQVDGI 120 T+GV+ P +S+ F ++L GI++ A Y++++ N+D + + ++ L L KQVDGI Sbjct: 61 TTVGVIIPDISNVFYAELARGIEDIATMYKYNIILSNSDENEDKELQVLNTLLGKQVDGI 120 Query: 121 IFSSEVLSKEYYEVLESMKIPVVLVSSQTDFAKVPYVKVDDYQAVYDAIQFLISKGHRKI 180 I+ E +S++ E + PVVL + K+ V +D +A +A++ + GH++I Sbjct: 121 IYMGERISEQLQEEFDRSPAPVVLAGAVDMENKLASVNIDYKEATKEAVKRFVDNGHKQI 180 Query: 181 AMISGTKGDPIAGTPRVQGYRKALEANGIAFDSSRLVYGDFSFESGSRAMEALLRKAGEV 240 A +SG+ +P+ ++ GY++ALE GI + ++ +++ +G + E L + + Sbjct: 181 AFVSGSLNEPVNREMKLAGYKEALEEAGITYQEDYIIEAKYNYNAGVKVWEELSALSKKP 240 Query: 241 TAVFAASDEMAIGALSSALKHGLNVPEDISIMGYDDLKPAQMVTPPLTTVRQPLYEMGKI 300 AV A DE+AIG L++AL G+ VPE++ +M ++ K M P L+T+ QPLY++G + Sbjct: 241 NAVVVADDELAIGILNAALDAGIKVPEELEVMTSNNTKLTLMSRPQLSTIVQPLYDIGAV 300 Query: 301 ASEKLIGMIETGEIAANR-IMAHSIVERQTVR 331 A L ++ E+ I+ HS R T + Sbjct: 301 AMRLLTKLMTNEEVDEKTVILPHSEKLRGTTK 332 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 Lambda K H 0.316 0.132 0.359 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 115334 Number of Hits to DB: 22,526,511 Number of extensions: 942759 Number of successful extensions: 2577 Number of sequences better than 1.0e-05: 181 Number of HSP's gapped: 2293 Number of HSP's successfully gapped: 182 Length of query: 334 Length of database: 38,378,431 Length adjustment: 107 Effective length of query: 227 Effective length of database: 26,037,693 Effective search space: 5910556311 Effective search space used: 5910556311 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: 116 (49.3 bits)