BLASTP 2.2.21 [Jun-14-2009] 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= 0029.0033.p (194 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_003523554.1| RNA polymerase, sigma-24 subunit, ECF subfam... 256 1e-66 ref|ZP_03264535.1| RNA polymerase, sigma-24 subunit, ECF subfami... 242 2e-62 ref|ZP_02883566.1| RNA polymerase, sigma-24 subunit, ECF subfami... 240 8e-62 ref|ZP_04940871.1| Sigma-70 region 2 [Burkholderia cenocepacia P... 238 5e-61 ref|YP_001765671.1| ECF subfamily RNA polymerase sigma-24 factor... 236 1e-60 >ref|YP_003523554.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Sideroxydans lithotrophicus ES-1] gb|ADE11167.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Sideroxydans lithotrophicus ES-1] Length = 191 Score = 256 bits (654), Expect = 1e-66, Method: Compositional matrix adjust. Identities = 132/192 (68%), Positives = 154/192 (80%), Gaps = 5/192 (2%) Query: 3 TMLPSTPMAEADNNNKRITDTVLRERSRLRNFIRTRVPDPSEAEDILQDVFYELVEACRL 62 T+ + MAE + KRIT+ + RER RLR+FIR RVPD +EAEDILQDVF+E VEA RL Sbjct: 4 TLTTNALMAEQE---KRITEDISRERGRLRDFIRRRVPDANEAEDILQDVFFEYVEAYRL 60 Query: 63 PEPIEQVGAWMFRVARNRIVDRFRKKREQALPVSGGEDEDEDDGWLEQLLPDTDAGPEAA 122 PEPIEQVGAW+FRVARNRI+DRFRKKRE LP G+ E+E WL+++LP +AGPEAA Sbjct: 61 PEPIEQVGAWLFRVARNRIIDRFRKKREVQLPDVSGDAEEEH--WLDEVLPSPEAGPEAA 118 Query: 123 YARSLLLAELHDALDELPAEQRDVFIAHELERRSFKELSAETGVGVNTLLARKRYAVLHL 182 YAR +LL EL+ AL ELP EQRDVFIAHELE RSFKE++AE G +NTLLARKRYAVLHL Sbjct: 119 YARGVLLEELYAALGELPKEQRDVFIAHELEGRSFKEMAAENGASMNTLLARKRYAVLHL 178 Query: 183 RSRLQTLYDELD 194 R RLQ +YDE D Sbjct: 179 RVRLQAIYDEFD 190 >ref|ZP_03264535.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Burkholderia sp. H160] gb|EEA03899.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Burkholderia sp. H160] Length = 189 Score = 242 bits (618), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 132/192 (68%), Positives = 152/192 (79%), Gaps = 10/192 (5%) Query: 6 PSTP--MAEADNNNKRITDTVLRERSRLRNFIRTRVPDPSEAEDILQDVFYELVEACRLP 63 P TP M E D++ I TV+RER+RL NFIR RV DP EAEDILQDVFYE V+A RLP Sbjct: 4 PHTPNRMNERDSD---IAATVVRERTRLGNFIRHRVRDPGEAEDILQDVFYEFVQAYRLP 60 Query: 64 EPIEQVGAWMFRVARNRIVDRFRKKREQALPVSGGEDEDEDDGW-LEQLLPDTDAGPEAA 122 EPIEQ GAW+FR ARNRI+DRFRKK++Q LP E D+D + L+ LP +DAGP AA Sbjct: 61 EPIEQAGAWLFRAARNRIIDRFRKKKDQPLP----ERVDDDGEYRLDLALPASDAGPAAA 116 Query: 123 YARSLLLAELHDALDELPAEQRDVFIAHELERRSFKELSAETGVGVNTLLARKRYAVLHL 182 YARS+LL L DALDELPA QRDVFIAHELE RSFKEL+AE+G+ VNTLLARKRYAVL L Sbjct: 117 YARSVLLEALQDALDELPANQRDVFIAHELEGRSFKELAAESGLSVNTLLARKRYAVLQL 176 Query: 183 RSRLQTLYDELD 194 R+RL+ +YDELD Sbjct: 177 RTRLRDVYDELD 188 >ref|ZP_02883566.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Burkholderia graminis C4D1M] gb|EDT10998.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Burkholderia graminis C4D1M] Length = 193 Score = 240 bits (613), Expect = 8e-62, Method: Compositional matrix adjust. Identities = 127/195 (65%), Positives = 149/195 (76%), Gaps = 4/195 (2%) Query: 1 METMLPSTPMAEADNNNKRITDTVLRERSRLRNFIRTRVPDPSEAEDILQDVFYELVEAC 60 ME S PM + D++ IT TV+RER+RL NFIR R+ DP +AEDILQDVF+E V+A Sbjct: 1 MEPPPTSQPMTDRDSD---ITATVVRERTRLVNFIRRRIRDPDDAEDILQDVFHEFVQAY 57 Query: 61 RLPEPIEQVGAWMFRVARNRIVDRFRKKREQALPVSGGEDEDEDDGW-LEQLLPDTDAGP 119 RLP PIEQ AW+FR ARNRI+DRFRKKREQ LP D+D + L+ LP DAGP Sbjct: 58 RLPAPIEQASAWLFRAARNRIIDRFRKKREQPLPDPFETDDDAGSEYRLDLALPAHDAGP 117 Query: 120 EAAYARSLLLAELHDALDELPAEQRDVFIAHELERRSFKELSAETGVGVNTLLARKRYAV 179 EA YAR+LLL L DALDELP QRDVFIAHELE RSFK++ A++GV +NTLLARKRYAV Sbjct: 118 EALYARALLLKALQDALDELPPNQRDVFIAHELEGRSFKDMVAQSGVPLNTLLARKRYAV 177 Query: 180 LHLRSRLQTLYDELD 194 LHLR+RLQ +YDELD Sbjct: 178 LHLRARLQVIYDELD 192 >ref|ZP_04940871.1| Sigma-70 region 2 [Burkholderia cenocepacia PC184] gb|EAY64042.1| Sigma-70 region 2 [Burkholderia cenocepacia PC184] Length = 193 Score = 238 bits (606), Expect = 5e-61, Method: Compositional matrix adjust. Identities = 125/195 (64%), Positives = 151/195 (77%), Gaps = 4/195 (2%) Query: 1 METMLPSTPMAEADNNNKRITDTVLRERSRLRNFIRTRVPDPSEAEDILQDVFYELVEAC 60 ME S M ++D + IT TV+RER+RL NFIR R+ DP +AED+LQDV +E V+A Sbjct: 1 MEPPPTSQTMTDSDRD---ITATVMRERTRLGNFIRRRIRDPDDAEDVLQDVLHEFVQAY 57 Query: 61 RLPEPIEQVGAWMFRVARNRIVDRFRKKREQALP-VSGGEDEDEDDGWLEQLLPDTDAGP 119 RLP PIEQ AW+FR ARNRI+DRFRKK+EQ L + G EDE + + L+ LP DAGP Sbjct: 58 RLPAPIEQASAWLFRAARNRIIDRFRKKKEQPLTDLLGVEDEADSEYRLDLALPAHDAGP 117 Query: 120 EAAYARSLLLAELHDALDELPAEQRDVFIAHELERRSFKELSAETGVGVNTLLARKRYAV 179 EA YAR+LLL L DALDELPA QR+VFIAHELE RSFKE++A++GV +NTLLARKRYAV Sbjct: 118 EALYARTLLLKALQDALDELPANQREVFIAHELEGRSFKEMAAQSGVTLNTLLARKRYAV 177 Query: 180 LHLRSRLQTLYDELD 194 LHLR+RLQ +YDELD Sbjct: 178 LHLRARLQPIYDELD 192 >ref|YP_001765671.1| ECF subfamily RNA polymerase sigma-24 factor [Burkholderia cenocepacia MC0-3] gb|ACA91549.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Burkholderia cenocepacia MC0-3] Length = 193 Score = 236 bits (602), Expect = 1e-60, Method: Compositional matrix adjust. Identities = 125/195 (64%), Positives = 150/195 (76%), Gaps = 4/195 (2%) Query: 1 METMLPSTPMAEADNNNKRITDTVLRERSRLRNFIRTRVPDPSEAEDILQDVFYELVEAC 60 ME S M + D + IT TV+RER+RL NFIR R+ DP +AED+LQDV +E V+A Sbjct: 1 MEPPPTSQTMTDPDRD---ITATVMRERTRLGNFIRRRIRDPDDAEDVLQDVLHEFVQAY 57 Query: 61 RLPEPIEQVGAWMFRVARNRIVDRFRKKREQALP-VSGGEDEDEDDGWLEQLLPDTDAGP 119 RLP PIEQ AW+FR ARNRI+DRFRKK+EQ L + G EDE + + L+ LP DAGP Sbjct: 58 RLPAPIEQASAWLFRTARNRIIDRFRKKKEQPLTDLLGVEDEADSEYRLDLALPAHDAGP 117 Query: 120 EAAYARSLLLAELHDALDELPAEQRDVFIAHELERRSFKELSAETGVGVNTLLARKRYAV 179 EA YAR+LLL L DALDELPA QR+VFIAHELE RSFKE++A++GV +NTLLARKRYAV Sbjct: 118 EALYARTLLLKALQDALDELPANQREVFIAHELEGRSFKEMAAQSGVTLNTLLARKRYAV 177 Query: 180 LHLRSRLQTLYDELD 194 LHLR+RLQ +YDELD Sbjct: 178 LHLRARLQPIYDELD 192