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= 0586.0032.p (262 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BS_sigD [K] COG1191 DNA-directed RNA polymerase specialized sigm... 195 7e-50 BH2431 [K] COG1191 DNA-directed RNA polymerase specialized sigma... 190 2e-48 YPO1843 [K] COG1191 DNA-directed RNA polymerase specialized sigm... 142 4e-34 CAC2143 [K] COG1191 DNA-directed RNA polymerase specialized sigm... 128 7e-30 YPO0745 [K] COG1191 DNA-directed RNA polymerase specialized sigm... 97 4e-20 >BS_sigD [K] COG1191 DNA-directed RNA polymerase specialized sigma subunit Length = 254 Score = 195 bits (495), Expect = 7e-50, Method: Compositional matrix adjust. Identities = 101/241 (41%), Positives = 159/241 (65%), Gaps = 1/241 (0%) Query: 14 LWEQWKEHGNPEAKKKLIESYLHIVDYVSSRLAVGLPKNVSKDDLASNGVMGLIDAIEKF 73 LW +WKE +P+A L+ Y+ +V Y R++VGLPK+V KDDL S G++GL DA+EKF Sbjct: 11 LWTRWKEWKDPKAGDDLMRRYMPLVTYHVGRISVGLPKSVHKDDLMSLGMLGLYDALEKF 70 Query: 74 DYKRGLQFQTYASWRVRGAILDSLRQSDWVPRSVREKAKKIEDAYQQLEQKYLRSVSDEE 133 D R L+F TYAS+R+RGAI+D LR+ DW+PR+ REK KK+E A ++LEQ+YLR+VS E Sbjct: 71 DPSRDLKFDTYASFRIRGAIIDGLRKEDWLPRTSREKTKKVEAAIEKLEQRYLRNVSPAE 130 Query: 134 MSQYLNITEPEFQNMLQDVAVMSLCSLEDPIREEESETRMSILV-DDKAKNPDRKVNEFY 192 +++ L +T + + + + +L S+++ + +++ + +++ DDK P+ K+ + Sbjct: 131 IAEELGMTVQDVVSTMNEGFFANLLSIDEKLHDQDDGENIQVMIRDDKNVPPEEKIMKDE 190 Query: 193 LRDTLTKGIEKLTVKERTVVXXXXXXXXXXXXIAEVMSLSPSRISQLHSKAILRLRGTLE 252 L L + I +L+ KE+ VV I +V++LS SRISQ+HSKA+ +L+ LE Sbjct: 191 LIAQLAEKIHELSEKEQLVVSLFYKEELTLTEIGQVLNLSTSRISQIHSKALFKLKNLLE 250 Query: 253 K 253 K Sbjct: 251 K 251 >BH2431 [K] COG1191 DNA-directed RNA polymerase specialized sigma subunit Length = 256 Score = 190 bits (482), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 104/244 (42%), Positives = 160/244 (65%), Gaps = 2/244 (0%) Query: 12 DGLWEQWKEHGNPEAKKKLIESYLHIVDYVSSRLAVGLPKNVSKDDLASNGVMGLIDAIE 71 D +W +W + EA LI YL +V Y R++VGLP++VSKDDL S+G++GL+DA+E Sbjct: 10 DKIWTEWLTERSQEACDALIRQYLPLVHYHVQRISVGLPRSVSKDDLISHGMLGLLDALE 69 Query: 72 KFDYKRGLQFQTYASWRVRGAILDSLRQSDWVPRSVREKAKKIEDAYQQLEQKYLRSVSD 131 KF+ R L+F TYAS+RVRGAILD LR+ DW+PRS+REK KKIE A ++LEQK R+VS Sbjct: 70 KFNPDRDLKFDTYASFRVRGAILDGLRKEDWLPRSMREKIKKIEAATEKLEQKLGRNVSV 129 Query: 132 EEMSQYLNITEPEFQNMLQDVAVMSLCSLEDPIREEE-SETRMSILVDDKAKNPDRKVNE 190 EE+++ + I+E E + + V +L S+++ + + ET + ++D ++ +P+ K+ E Sbjct: 130 EEVAKEVGISENEVSQTMTESLVANLLSMDEKTNDSDREETYTATIIDKQSLSPEEKLLE 189 Query: 191 FYLRDTLTKGIEK-LTVKERTVVXXXXXXXXXXXXIAEVMSLSPSRISQLHSKAILRLRG 249 ++ L++ I L KE+ V+ I +++ LS SRISQ+HSKA+ RL+ Sbjct: 190 EAQKEELSQLIANILNEKEQLVIGLFYFEELTLTEIGQILKLSTSRISQIHSKALFRLQQ 249 Query: 250 TLEK 253 L+K Sbjct: 250 ALKK 253 >YPO1843 [K] COG1191 DNA-directed RNA polymerase specialized sigma subunit Length = 240 Score = 142 bits (359), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 85/225 (37%), Positives = 127/225 (56%), Gaps = 1/225 (0%) Query: 27 KKKLIESYLHIVDYVSSRLAVGLPKNVSKDDLASNGVMGLIDAIEKFDYKRGLQFQTYAS 86 K L + Y+ +V + + RL V LP +V DDL G + L++A+E++D +G F TYA Sbjct: 13 KNSLWKRYVPLVRHEALRLQVRLPASVELDDLLQAGGIDLLNAVERYDALQGTAFTTYAV 72 Query: 87 WRVRGAILDSLRQSDWVPRSVREKAKKIEDAYQQLEQKYLRSVSDEEMSQYLNITEPEFQ 146 R+RGA+LD LR DW PRSVR A+++ A QQ+EQ+ R +++E++Q L+I E++ Sbjct: 73 QRIRGAMLDELRSRDWAPRSVRRNAREVASAMQQVEQRVGRPATEQEVAQVLDIGLVEYR 132 Query: 147 NMLQDVAVMSLCSLEDPIREEESETRMSILVDDKAKNPDRKVNEFYLRDTLTKGIEKLTV 206 +L D L S D REE E+ +L + NP + + E LR + IE L Sbjct: 133 QILLDTNNSQLFSY-DEWREEHGESVEPLLEGHEDANPLKHLLEGNLRQRVIDAIEALPE 191 Query: 207 KERTVVXXXXXXXXXXXXIAEVMSLSPSRISQLHSKAILRLRGTL 251 +E+ V+ I V+ + SR+SQLHS+AI RLR L Sbjct: 192 REKMVLTLYYQEELNLKEIGAVLEVGESRVSQLHSQAIKRLRARL 236 >CAC2143 [K] COG1191 DNA-directed RNA polymerase specialized sigma subunit Length = 241 Score = 128 bits (322), Expect = 7e-30, Method: Compositional matrix adjust. Identities = 71/233 (30%), Positives = 138/233 (59%), Gaps = 1/233 (0%) Query: 22 GNPEAKKKLIESYLHIVDYVSSRLAVGLPKNVSKDDLASNGVMGLIDAIEKFDYKRGLQF 81 G + ++ LI+ Y+ +V Y++SR+ +G K + +DL G++GL+DA++KFD +G++F Sbjct: 5 GIVDDREALIKKYIPLVKYIASRVIIGKSKYIEYEDLVGYGMIGLMDALKKFDQSKGMKF 64 Query: 82 QTYASWRVRGAILDSLRQSDWVPRSVREKAKKIEDAYQQLEQKYLRSVSDEEMSQYLNIT 141 TY+S R++GA++D LR++ + + +K + ++LE++ R ++ E++ L + Sbjct: 65 STYSSIRIKGAMIDELRKNSPISKGAMDKLNRYNLVVERLEKELSREPTELEIASGLGVG 124 Query: 142 EPEFQNMLQDVAVMSLCSLEDPIREEESETRM-SILVDDKAKNPDRKVNEFYLRDTLTKG 200 E + + +S+ SLED I E+ + + + D+K+ +P++ + E + L KG Sbjct: 125 RKEVGEIEGYINYISVVSLEDLIFSEDDDMPLIGTIEDEKSPSPEKALEEKEEIEYLAKG 184 Query: 201 IEKLTVKERTVVXXXXXXXXXXXXIAEVMSLSPSRISQLHSKAILRLRGTLEK 253 IE L K+R V+ I ++++S SR+ QLH++AI+ LR +L+K Sbjct: 185 IELLNEKDRMVLSLYYYEGLTLKKIGNILNVSESRVCQLHTRAIMHLRKSLKK 237 >YPO0745 [K] COG1191 DNA-directed RNA polymerase specialized sigma subunit Length = 231 Score = 96.7 bits (239), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 64/228 (28%), Positives = 120/228 (52%), Gaps = 14/228 (6%) Query: 24 PEAKKKLIESYLHIVDYVSSRLAVGLPKNVSKDDLASNGVMGLIDAIEKFDYKRGLQFQT 83 E + K + +YL +V + +L+ + K+D+ +MGL++A+ ++ + G QF Sbjct: 14 AEEEGKYLNAYLPLVKRIVRQLSFQADSVIGKEDMQQIALMGLLEALRRYGHPDG-QFAA 72 Query: 84 YASWRVRGAILDSLRQSDWVPRSVREKAKKIEDAYQQLEQKYLRSVSDEEMSQYLNITEP 143 YA R+RG+ILD LR+ DW PR +R+K K +A +Q+ ++ + EE+S LN+T Sbjct: 73 YAVHRIRGSILDQLREHDWRPRRLRQKTHKTNEAIRQIAKRLGHEPNFEEISAELNLTAD 132 Query: 144 EFQN--MLQDVAVMSLCSLEDPIREEESETRMSILVDDKAKNPDRKVNEFYLRDTLTKGI 201 E+Q +L++ M SL++ + E +D ++ D + N + D L + I Sbjct: 133 EYQEYLLLENAGAME--SLDEILALEAH--------NDILQSRDLEEN-IIIEDNLKQAI 181 Query: 202 EKLTVKERTVVXXXXXXXXXXXXIAEVMSLSPSRISQLHSKAILRLRG 249 L +E+ ++ IA+V+ L+ +RI QL+ K + +++ Sbjct: 182 STLDEREQMILHLYYQQELSMKEIAQVLDLTEARICQLNKKLVQKIKS 229 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 0.313 0.130 0.360 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: 17,265,845 Number of extensions: 607477 Number of successful extensions: 1400 Number of sequences better than 1.0e-05: 89 Number of HSP's gapped: 1345 Number of HSP's successfully gapped: 89 Length of query: 262 Length of database: 38,378,431 Length adjustment: 104 Effective length of query: 158 Effective length of database: 26,383,695 Effective search space: 4168623810 Effective search space used: 4168623810 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.9 bits) S2: 115 (48.9 bits)