BLASTP 2.2.17 [Aug-26-2007] 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 composition-based statistics: Schaffer, Alejandro A., L. Aravind, Thomas L. Madden, Sergei Shavirin, John L. Spouge, Yuri I. Wolf, Eugene V. Koonin, and Stephen F. Altschul (2001), "Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements", Nucleic Acids Res. 29:2994-3005. Query= 0001.1404.p (533 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF excluding environmental samples from WGS projects 15,459,386 sequences; 5,307,515,862 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|YP_004157378.1| sigma 54 interacting domain-containing prote... 699 0.0 ref|ZP_03542451.1| Sigma 54 interacting domain protein [Comamona... 692 0.0 ref|YP_001561706.1| regulator of RNA terminal phosphate cyclase ... 689 0.0 ref|YP_004491180.1| Sigma 54 interacting domain-containing prote... 689 0.0 ref|YP_002946300.1| Sigma 54 interacting domain-containing prote... 686 0.0 >ref|YP_004157378.1| sigma 54 interacting domain-containing protein [Variovorax paradoxus EPS] gb|ADU39267.1| Sigma 54 interacting domain protein [Variovorax paradoxus EPS] Length = 535 Score = 699 bits (1804), Expect = 0.0, Method: Composition-based stats. Identities = 359/534 (67%), Positives = 430/534 (80%), Gaps = 2/534 (0%) Query: 1 MAKKKVVIGFVGTQLDHGRGAARWEKWRPTIALTQYPDVVIDRLELLYIGERHLGLVGQI 60 M K VVIGF+GTQLD G+GA RW KWRPT++L Q+ D+V+ R+ELLY RH L + Sbjct: 1 MKKPIVVIGFLGTQLDAGQGAGRWNKWRPTVSLAQHEDMVVARMELLYT-LRHKALAEVV 59 Query: 61 GRDIASVSPDTVVRPHDLPIQDPWDFGEVYANLLDFARAYPFDTDNEEYWIHITTGTHVV 120 DIA+VSP+T V L ++DPWDFGEVY L D+ARAYPFDT+ E+YW HITTGTHV Sbjct: 60 KADIATVSPETTVNLVPLDLEDPWDFGEVYTRLYDWARAYPFDTEREQYWTHITTGTHVA 119 Query: 121 QICLFLMTEARYLPGVLLQTSPPRRQAAGSPGSYALIDLDLSRYDLIAQRFSSEQREALA 180 QIC+FL++E+R +PGVL QTSPP++Q G G LIDLDLSRYD+IA+RF +EQR+A+A Sbjct: 120 QICMFLLSESRVVPGVLAQTSPPKKQREGEGGKCTLIDLDLSRYDVIARRFDAEQRDAVA 179 Query: 181 LLKSGIPTRNAHFNHMIEEIERVAIRSRAPMLLMGPTGAGKSFLARRIYELKKSRHQLEG 240 LKSGI TRNA FN +I+EIERVA+RSRAP+LL+GPTGAGKSFLARR++ELK++RHQ+ G Sbjct: 180 FLKSGIATRNARFNALIDEIERVAVRSRAPILLVGPTGAGKSFLARRMFELKQARHQMTG 239 Query: 241 RFVDINCATLQGDGAASTLFGHVRGSFTGAAHDRPGLLRSAHKGLLFLDEIGELGLDEQA 300 FV++NCATL+GDGAASTLFGH +GSFTGAA DRPGLLR+A++G LFLDEIGELG DEQA Sbjct: 240 PFVEVNCATLRGDGAASTLFGHKKGSFTGAASDRPGLLRTANQGALFLDEIGELGPDEQA 299 Query: 301 MLLKAIEEKRFLPVGADVEAQSDFQLIAGTHRDLAREVAAGRFREDLFARINLWTYALPG 360 MLLKAIEEKRF PVGAD E +SDFQLIAGT+RDL +VA GRFREDLFARINLWTY LPG Sbjct: 300 MLLKAIEEKRFFPVGADKEVESDFQLIAGTNRDLRSDVAEGRFREDLFARINLWTYDLPG 359 Query: 361 LAQRREDIEPNLDYLLERFSAEHGQVVRFNKEARMRYLAFAVSSAASWPGNFRDLSASIV 420 LAQR EDIEPN+D+LL +AE+ +VVRFN EAR YL FA S A W GNFRDLSAS+ Sbjct: 360 LAQRPEDIEPNVDHLLAIHAAENHRVVRFNAEARAAYLRFAQSGEAIWSGNFRDLSASVT 419 Query: 421 RMATLADAGRIIDALVEEETARLQRQWRASAQPASGEEDVDLDALLGEQ-AQALDLFDAV 479 R+ATLAD GRI ALVE E ARL+ W+ A+ DVDLDALLGE+ ALDLFD + Sbjct: 420 RLATLADGGRIPVALVEAEIARLRWLWKRGGPAAAVSGDVDLDALLGEERVAALDLFDRL 479 Query: 480 QLRAVVAVCRRSRSLSEAGRTLFAVSRDAKAKPNDADRLKKYLARFGLAWDDVA 533 QL AVV VC+++RSLS+AGR LF SR+ ++ NDADRL+KYLA+ G+ W +A Sbjct: 480 QLEAVVRVCKQARSLSDAGRQLFQASREQRSVVNDADRLRKYLAKHGIEWGRLA 533 >ref|ZP_03542451.1| Sigma 54 interacting domain protein [Comamonas testosteroni KF-1] gb|EED66737.1| Sigma 54 interacting domain protein [Comamonas testosteroni KF-1] Length = 536 Score = 692 bits (1787), Expect = 0.0, Method: Composition-based stats. Identities = 353/531 (66%), Positives = 419/531 (78%), Gaps = 2/531 (0%) Query: 1 MAKKKVVIGFVGTQLDHGRGAARWEKWRPTIALTQYPDVVIDRLELLYIGERHLGLVGQI 60 M+KK VVIGF+GTQLD G+GA RW KWRPT++LTQ+ D VIDRLELLY R+ L + Sbjct: 1 MSKKNVVIGFMGTQLDSGQGAGRWNKWRPTVSLTQHEDQVIDRLELLY-SSRYDKLAQTL 59 Query: 61 GRDIASVSPDTVVRPHDLPIQDPWDFGEVYANLLDFARAYPFDTDNEEYWIHITTGTHVV 120 +DIA+VSP+T V + +QDPWDFGE+YA L D+AR Y FDT+ E YW+HITTGTHV Sbjct: 60 VQDIANVSPETRVNLVESEVQDPWDFGEMYAVLYDWARNYRFDTERENYWVHITTGTHVA 119 Query: 121 QICLFLMTEARYLPGVLLQTSPPRRQAAGSPGSYALIDLDLSRYDLIAQRFSSEQREALA 180 QIC+FL+ E+R +PGVLLQTSPPR+Q AGSPGS LIDLDL+RY+ +AQRF Q EAL Sbjct: 120 QICMFLLVESRQIPGVLLQTSPPRKQQAGSPGSMILIDLDLTRYEALAQRFHQAQTEALD 179 Query: 181 LLKSGIPTRNAHFNHMIEEIERVAIRSRAPMLLMGPTGAGKSFLARRIYELKKSRHQLEG 240 LK+GI TRN FN +IEEIERVAIRSRAP+L GPTGAGKS LARRI+ELKKSRHQ+ G Sbjct: 180 FLKNGIATRNPQFNQLIEEIERVAIRSRAPILFTGPTGAGKSHLARRIFELKKSRHQVAG 239 Query: 241 RFVDINCATLQGDGAASTLFGHVRGSFTGAAHDRPGLLRSAHKGLLFLDEIGELGLDEQA 300 FV++NCATL+GDGAASTLFGH +G+FTGAA DR GLLR+AH+G+LFLDEIGELGLDEQA Sbjct: 240 EFVEVNCATLRGDGAASTLFGHRKGAFTGAAADRAGLLRTAHEGVLFLDEIGELGLDEQA 299 Query: 301 MLLKAIEEKRFLPVGADVEAQSDFQLIAGTHRDLAREVAAGRFREDLFARINLWTYALPG 360 MLLKA+EEKRF P+G+D E SDFQLIAGTHRDL +VA GRFREDLFARINLW+Y LPG Sbjct: 300 MLLKAVEEKRFFPMGSDKEVSSDFQLIAGTHRDLRVDVAEGRFREDLFARINLWSYTLPG 359 Query: 361 LAQRREDIEPNLDYLLERFSAEHGQVVRFNKEARMRYLAFAVSSAASWPGNFRDLSASIV 420 LAQR ED+EPN+D+LL R AE G VRFN EAR YL FA S+ A W GNFRDL+ASI Sbjct: 360 LAQRPEDLEPNIDHLLLRAVAETGSSVRFNAEARALYLQFAKSAQALWSGNFRDLAASIT 419 Query: 421 RMATLADAGRIIDALVEEETARLQRQWRASAQPASGEEDVDLDALLGEQAQA-LDLFDAV 479 R+ATLAD+GRI A V+ E RL W+ + + +VDL L E A A +DLFD + Sbjct: 420 RLATLADSGRITTAQVQAEIKRLDWLWQHAQNHVLPKAEVDLGDYLSEDAIAQIDLFDRL 479 Query: 480 QLRAVVAVCRRSRSLSEAGRTLFAVSRDAKAKPNDADRLKKYLARFGLAWD 530 QL++V+AVCR S +LS+AGR LF SR KA NDADRL+K+L +FGL W+ Sbjct: 480 QLQSVIAVCRASTTLSDAGRKLFDQSRQQKAVVNDADRLRKFLHKFGLNWE 530 >ref|YP_001561706.1| regulator of RNA terminal phosphate cyclase [Delftia acidovorans SPH-1] gb|ABX33321.1| regulator of RNA terminal phosphate cyclase [Delftia acidovorans SPH-1] Length = 535 Score = 689 bits (1779), Expect = 0.0, Method: Composition-based stats. Identities = 363/536 (67%), Positives = 424/536 (79%), Gaps = 8/536 (1%) Query: 1 MAKKKVVIGFVGTQLDHGRGAARWEKWRPTIALTQYPDVVIDRLELLYIGERHLGLVGQI 60 M KKKVVIGF+GTQLD GRGA RWEKWRPT++L Q+ D+V++RLELLY HL L + Sbjct: 1 MEKKKVVIGFLGTQLDSGRGAGRWEKWRPTLSLMQHEDLVVERLELLYT-PPHLALAQLL 59 Query: 61 GRDIASVSPDTVVRPHDLPIQDPWDFGEVYANLLDFARAYPFDTDNEEYWIHITTGTHVV 120 DIA+ SP+T V + I DPWDFGEVYA L D+ +AY FD + EEYW HITTGTHV Sbjct: 60 QGDIATASPETQVNLVPMDIADPWDFGEVYARLFDWTQAYRFDPEREEYWTHITTGTHVA 119 Query: 121 QICLFLMTEARYLPGVLLQTSPPRRQAAGSPGSYALIDLDLSRYDLIAQRFSSEQREALA 180 QICLFL+ E+R +PGVL QTSPPRRQ G PGSYALIDLDLSRYD+IAQRF +EQ EA+ Sbjct: 120 QICLFLLVESRRIPGVLAQTSPPRRQRMGDPGSYALIDLDLSRYDVIAQRFGAEQSEAVQ 179 Query: 181 LLKSGIPTRNAHFNHMIEEIERVAIRSRAPMLLMGPTGAGKSFLARRIYELKKSRHQLEG 240 LKSGI TRNA FN +I+EIERVA+RSRAP+LL GPTGAGKS LARR+YELKK+RHQ++G Sbjct: 180 FLKSGIATRNAGFNALIDEIERVAVRSRAPILLTGPTGAGKSHLARRMYELKKARHQVQG 239 Query: 241 RFVDINCATLQGDGAASTLFGHVRGSFTGAAHDRPGLLRSAHKGLLFLDEIGELGLDEQA 300 FV++NCATL+GDGAAS LFGH +G+FTGAA DR GLLRSAH+G+LFLDEIGELGLDEQA Sbjct: 240 DFVEVNCATLRGDGAASVLFGHKKGAFTGAAADRAGLLRSAHQGVLFLDEIGELGLDEQA 299 Query: 301 MLLKAIEEKRFLPVGADVEAQSDFQLIAGTHRDLAREVAAGRFREDLFARINLWTYALPG 360 MLLKA+EE+RF P+G+D E SDFQL+AGTHRDL +VA GRFREDLFARINLW+YALPG Sbjct: 300 MLLKAVEERRFYPMGSDREVSSDFQLVAGTHRDLRIDVAQGRFREDLFARINLWSYALPG 359 Query: 361 LAQRREDIEPNLDYLLERFSAEHGQVVRFNKEARMRYLAFAVSSAASWPGNFRDLSASIV 420 LA R EDIEPN+D+LL R + E GQ+VRFN EAR RYL FA S A W GNFRDLSAS+ Sbjct: 360 LAGRPEDIEPNMDHLLARSADETGQMVRFNVEARERYLRFARSPEALWSGNFRDLSASMT 419 Query: 421 RMATLADAGRIIDALVEEETARLQRQWRA--SAQPASGEEDVDLDALL-GEQAQALDLFD 477 R+ATLAD GRI ALV+ E RL+ W+ + QPAS L +LL E + LDLFD Sbjct: 420 RLATLADGGRISTALVDAEIQRLKWLWQRGDAVQPASAS----LQSLLSAEVLEPLDLFD 475 Query: 478 AVQLRAVVAVCRRSRSLSEAGRTLFAVSRDAKAKPNDADRLKKYLARFGLAWDDVA 533 +QL AV+ VCR S SLS+AGR LF SR ++ NDADRL+KYL +FGL WD VA Sbjct: 476 RMQLEAVLRVCRESPSLSDAGRRLFDQSRTQRSVVNDADRLRKYLLKFGLKWDAVA 531 >ref|YP_004491180.1| Sigma 54 interacting domain-containing protein [Delftia sp. Cs1-4] gb|AEF92825.1| Sigma 54 interacting domain protein [Delftia sp. Cs1-4] Length = 535 Score = 689 bits (1777), Expect = 0.0, Method: Composition-based stats. Identities = 363/536 (67%), Positives = 423/536 (78%), Gaps = 8/536 (1%) Query: 1 MAKKKVVIGFVGTQLDHGRGAARWEKWRPTIALTQYPDVVIDRLELLYIGERHLGLVGQI 60 M KKKVVIGF+GTQLD GRGA RWEKWRPT++L Q+ D+V++RLELLY HL L + Sbjct: 1 MEKKKVVIGFLGTQLDSGRGAGRWEKWRPTLSLMQHEDLVVERLELLYT-PPHLALAQLL 59 Query: 61 GRDIASVSPDTVVRPHDLPIQDPWDFGEVYANLLDFARAYPFDTDNEEYWIHITTGTHVV 120 DIA+ SP+T V + I DPWDFGEVYA L D+ +AY FD + EEYW HITTGTHV Sbjct: 60 QGDIATASPETQVNLVPMDIADPWDFGEVYARLFDWTQAYRFDPEREEYWTHITTGTHVA 119 Query: 121 QICLFLMTEARYLPGVLLQTSPPRRQAAGSPGSYALIDLDLSRYDLIAQRFSSEQREALA 180 QICLFL+ E+R +PGVL QTSPPRRQ G PGSYALIDLDLSRYD+IAQRF +EQ EA+ Sbjct: 120 QICLFLLVESRRIPGVLAQTSPPRRQRMGDPGSYALIDLDLSRYDVIAQRFGAEQSEAVQ 179 Query: 181 LLKSGIPTRNAHFNHMIEEIERVAIRSRAPMLLMGPTGAGKSFLARRIYELKKSRHQLEG 240 LKSGI TRNA FN +I+EIERVA+RSRAP+LL GPTGAGKS LARR+YELKK+RHQ++G Sbjct: 180 FLKSGIATRNAGFNALIDEIERVAVRSRAPILLTGPTGAGKSHLARRMYELKKARHQVQG 239 Query: 241 RFVDINCATLQGDGAASTLFGHVRGSFTGAAHDRPGLLRSAHKGLLFLDEIGELGLDEQA 300 FV++NCATL+GDGAAS LFGH +G+FTGAA DR GLLRSAH+G+LFLDEIGELGLDEQA Sbjct: 240 DFVEVNCATLRGDGAASVLFGHKKGAFTGAAADRAGLLRSAHQGVLFLDEIGELGLDEQA 299 Query: 301 MLLKAIEEKRFLPVGADVEAQSDFQLIAGTHRDLAREVAAGRFREDLFARINLWTYALPG 360 MLLKA+EEKRF P+G+D E SDFQL+AGTHRDL +VA GRFREDLFARINLW+YALPG Sbjct: 300 MLLKAVEEKRFYPMGSDREVSSDFQLVAGTHRDLRIDVAQGRFREDLFARINLWSYALPG 359 Query: 361 LAQRREDIEPNLDYLLERFSAEHGQVVRFNKEARMRYLAFAVSSAASWPGNFRDLSASIV 420 LA R EDIEPN+D+LL R + E GQ+VRFN EAR RYL FA S A W GNFRDLSAS+ Sbjct: 360 LAGRPEDIEPNMDHLLARSADETGQMVRFNVEARERYLRFARSPEALWSGNFRDLSASMT 419 Query: 421 RMATLADAGRIIDALVEEETARLQRQWRA--SAQPASGEEDVDLDALL-GEQAQALDLFD 477 R+ATLAD GRI ALV+ E RL+ W+ + QPA L +LL E + LDLFD Sbjct: 420 RLATLADGGRISTALVDAEIQRLKWLWQRGDAVQPAGAR----LQSLLSAEVLEPLDLFD 475 Query: 478 AVQLRAVVAVCRRSRSLSEAGRTLFAVSRDAKAKPNDADRLKKYLARFGLAWDDVA 533 +QL AV+ VCR S SLS+AGR LF SR ++ NDADRL+KYL +FGL WD VA Sbjct: 476 RMQLEAVLRVCRESPSLSDAGRRLFDRSRTQRSVVNDADRLRKYLLKFGLKWDAVA 531 >ref|YP_002946300.1| Sigma 54 interacting domain-containing protein [Variovorax paradoxus S110] gb|ACS21034.1| Sigma 54 interacting domain protein [Variovorax paradoxus S110] Length = 537 Score = 686 bits (1770), Expect = 0.0, Method: Composition-based stats. Identities = 357/536 (66%), Positives = 425/536 (79%), Gaps = 4/536 (0%) Query: 1 MAKKKVVIGFVGTQLDHGRGAARWEKWRPTIALTQYPDVVIDRLELLYIGERHLGLVGQI 60 M K VVIGF+GTQLD G+GA RW KWRPT++L Q+ D+V+ R+ELLY +H L + Sbjct: 1 MKKPIVVIGFLGTQLDAGQGAGRWNKWRPTVSLAQHDDMVVSRMELLYT-LKHKALAEVV 59 Query: 61 GRDIASVSPDTVVRPHDLPIQDPWDFGEVYANLLDFARAYPFDTDNEEYWIHITTGTHVV 120 DIA+VSP+T V + DPWDFGEVY L D+ARAY FDT+ E+YW HITTGTHV Sbjct: 60 KADIAAVSPETTVNLVPFDLADPWDFGEVYTRLYDWARAYTFDTEREQYWTHITTGTHVA 119 Query: 121 QICLFLMTEARYLPGVLLQTSPPRRQAAGSPGSYALIDLDLSRYDLIAQRFSSEQREALA 180 QIC+FL++E+R +PGVL QTSPPR+Q G G LIDLDLSRYD+IA+RF +EQR+A+A Sbjct: 120 QICMFLLSESRVVPGVLAQTSPPRKQREGEAGKCTLIDLDLSRYDVIARRFDAEQRDAVA 179 Query: 181 LLKSGIPTRNAHFNHMIEEIERVAIRSRAPMLLMGPTGAGKSFLARRIYELKKSRHQLEG 240 LKSGI TRNA FN +I+EIERVA+RSRAP+LL+GPTGAGKSFLARR++ELK++RHQ+ G Sbjct: 180 FLKSGIATRNARFNALIDEIERVAVRSRAPILLVGPTGAGKSFLARRMFELKQARHQMSG 239 Query: 241 RFVDINCATLQGDGAASTLFGHVRGSFTGAAHDRPGLLRSAHKGLLFLDEIGELGLDEQA 300 FV++NCATL+GDGAASTLFGH +GSFTGAA DR GLLR+A++G LFLDEIGELGLDEQA Sbjct: 240 PFVEVNCATLRGDGAASTLFGHRKGSFTGAASDRAGLLRTANQGALFLDEIGELGLDEQA 299 Query: 301 MLLKAIEEKRFLPVGADVEAQSDFQLIAGTHRDLAREVAAGRFREDLFARINLWTYALPG 360 MLLKAIEEKRF PVGAD E +SDFQLIAGT+RDL +VA GRFREDLFARINLWTY LPG Sbjct: 300 MLLKAIEEKRFFPVGADKEVESDFQLIAGTNRDLRSDVAQGRFREDLFARINLWTYNLPG 359 Query: 361 LAQRREDIEPNLDYLLERFSAEHGQVVRFNKEARMRYLAFAVSSAASWPGNFRDLSASIV 420 LAQR EDIEPN+D+LL +AE+ +VVRFN EAR YL FA S A W GNFRDLSAS+ Sbjct: 360 LAQRPEDIEPNIDHLLVIHAAENHRVVRFNAEARAAYLRFAQSGEALWCGNFRDLSASVT 419 Query: 421 RMATLADAGRIIDALVEEETARLQRQW--RASAQPASGEEDVDLDALLGE-QAQALDLFD 477 R+ATLAD GRI ALVE E RL+ W A+ +G D+DL +LLG+ +A ALDLFD Sbjct: 420 RLATLADGGRIPVALVEAEIERLRWLWNREGPARRNAGAADIDLGSLLGDGRAAALDLFD 479 Query: 478 AVQLRAVVAVCRRSRSLSEAGRTLFAVSRDAKAKPNDADRLKKYLARFGLAWDDVA 533 +QL AVV VCR SRSLS+AGR LF SR ++ NDADRL+KYLA+ GL W +A Sbjct: 480 RLQLEAVVRVCRDSRSLSDAGRQLFQASRAQRSVVNDADRLRKYLAKHGLEWSRIA 535