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= 0541.0042.p (323 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KB55.1 B3KB55_9BACI HRDC domain protein 273 2e-71 B1D7B2.1 B1D7B2_9BACL HRDC domain protein 213 3e-53 B2TQ02.1 B2TQ02_CLOBB ATP-dependent DNA helicase RecQ EC=3.6.1.- 63 3e-08 B2UY51.1 B2UY51_CLOBA ATP-dependent DNA helicase RecQ EC=3.6.1.- 62 5e-08 B5QN93.1 B5QN93_LACRH Superfamily II DNA helicase 62 5e-08 >B3KB55.1 B3KB55_9BACI HRDC domain protein Length = 341 Score = 273 bits (697), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 150/307 (48%), Positives = 202/307 (65%), Gaps = 7/307 (2%) Query: 1 MQIVFMNRLSRMSGGDQEVF---AQLWIGEEEGVWRLGWREFSGSEDNGDSLWYEGGSWN 57 MQIVFMNR MSG D+ AQ+WIGEEEG WRLGWR + D WYEG SWN Sbjct: 1 MQIVFMNR---MSGADESGHLRSAQVWIGEEEGGWRLGWRNMEPDGEVSDDEWYEGNSWN 57 Query: 58 EMLCVYRHELAVKMGDGYRPLIDGAFHDEDSLSGSRNQEQLKLQYFSEQHANESVYEELC 117 E+LCVYRH+LA K+G+G+RPLI G FH E + S+N KLQ +SE + +E +Y ELC Sbjct: 58 ELLCVYRHQLAKKLGEGFRPLIKGVFH-EPGETVSKNLGTQKLQCYSELYGSEELYTELC 116 Query: 118 SWRRGKASSERKAPYIIASNRLLRMLSAFLPRTLEELLQIPGVGEGKASQYGEDWLSITS 177 +WRR KA+S RKAPY IASNR+LRM+SAF+P++ EELLQ+PG+G KAS++G +WL IT+ Sbjct: 117 AWRRRKAASGRKAPYFIASNRVLRMISAFVPQSEEELLQLPGIGVSKASEHGVEWLEITT 176 Query: 178 AAEREHSFPLGWVHEAVDEEHFVSWXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 237 ER +FPL WV+ + EE F+SW Sbjct: 177 KTERTTTFPLDWVYTQLPEEEFLSWLYKQKEQRYQQELERFRTRRAMLIGIAEGASLTEL 236 Query: 238 KALSGISRREVLEAVEELDKDGYSVEKLIALELAEVSSSEQASVWAAYELMGDTFLKPVL 297 +A + +SRR+++E +E L+K+GY E+L+ +EL ++++EQ +VW A+E +GDTFLKPVL Sbjct: 237 EARTSLSRRDLVEELEGLEKEGYDTEQLLQVELNTMTAAEQENVWKAFEELGDTFLKPVL 296 Query: 298 YKAYGEG 304 + YG+G Sbjct: 297 QRVYGQG 303 >B1D7B2.1 B1D7B2_9BACL HRDC domain protein Length = 327 Score = 213 bits (541), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 118/317 (37%), Positives = 177/317 (55%), Gaps = 7/317 (2%) Query: 1 MQIVFMNRLSRMSGGDQEVFAQLWIGEEEGVWRLGWREFSGSEDNGDSLWYEGGSWNEML 60 MQIVF+N + + V +L I E +G+W + W E G+E+ W+EG SW EML Sbjct: 1 MQIVFLNTFEKPAEDGIIVTGKLSICERDGIWAVLWSE--GTEEAVS--WFEGTSWEEML 56 Query: 61 CVYRHELAVKMGDGYRPLIDGAFHDEDSLSGSRNQEQLKLQYFSEQHANESVYEELCSWR 120 +RH +AVKMG+GY P++DG ++ +GS LQ + E HAN+ ++E L WR Sbjct: 57 IGFRHGVAVKMGEGYTPVVDGMLEEKRGGAGSFLS---MLQCYGELHANQELFEGLREWR 113 Query: 121 RGKASSERKAPYIIASNRLLRMLSAFLPRTLEELLQIPGVGEGKASQYGEDWLSITSAAE 180 R KA SE+++ Y++A+NR+L M+SAF+P T EEL+QIPG GE K + YG++ L IT Sbjct: 114 RKKAVSEKRSAYLVATNRMLWMISAFVPYTTEELMQIPGWGEQKHAAYGQELLEITVQHV 173 Query: 181 REHSFPLGWVHEAVDEEHFVSWXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXKAL 240 RE FPL WV E ++ + W ++ Sbjct: 174 RETEFPLKWVTEKLEPAAYTQWMYKQKEARYKSDMIRQQQKKRILSFVFEGGSMEQLQSE 233 Query: 241 SGISRREVLEAVEELDKDGYSVEKLIALELAEVSSSEQASVWAAYELMGDTFLKPVLYKA 300 + RRE+++ +E+L+ +GY E LIA ELA++ +E+ +W + GD +LKPVL + Sbjct: 234 LELPRREIMDRIEQLETEGYDFEPLIARELADMPDTERELIWETFRQAGDRYLKPVLQQV 293 Query: 301 YGEGFSPAEGLDMYYER 317 YGE + +D+ YER Sbjct: 294 YGEDSLKEKQMDVLYER 310 >B2TQ02.1 B2TQ02_CLOBB ATP-dependent DNA helicase RecQ EC=3.6.1.- Length = 587 Score = 63.2 bits (152), Expect = 3e-08, Method: Compositional matrix adjust. Identities = 38/113 (33%), Positives = 61/113 (53%), Gaps = 6/113 (5%) Query: 71 MGDGYRPLIDGAFH----DEDSLSGSRNQEQLKLQYFSEQHA--NESVYEELCSWRRGKA 124 + GY L +G + ++ S +N+E++ + +++ + N ++E L WR+ KA Sbjct: 473 LKQGYVDLKEGTYSMLKLNQRSYKVLKNKEKVIFKILNKEESILNRELFEALKKWRKEKA 532 Query: 125 SSERKAPYIIASNRLLRMLSAFLPRTLEELLQIPGVGEGKASQYGEDWLSITS 177 E K PYII S+ L + P +E+LL I GVGE K + YGE+ L I S Sbjct: 533 FKENKKPYIIFSDTTLIDICNNKPDNVEKLLDIRGVGEKKINDYGEEILKIIS 585 >B2UY51.1 B2UY51_CLOBA ATP-dependent DNA helicase RecQ EC=3.6.1.- Length = 587 Score = 62.4 bits (150), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 37/114 (32%), Positives = 61/114 (53%), Gaps = 6/114 (5%) Query: 71 MGDGYRPLIDGAFH----DEDSLSGSRNQEQLKLQYFSEQHA--NESVYEELCSWRRGKA 124 + GY L +G + ++ S +N+E++ + +++ + N ++E L WR+ KA Sbjct: 473 LNQGYVDLKEGTYSMLKLNQRSYKVLKNKEKVIFKILNKEESILNRELFEALKKWRKEKA 532 Query: 125 SSERKAPYIIASNRLLRMLSAFLPRTLEELLQIPGVGEGKASQYGEDWLSITSA 178 E K PYII S+ L + P +++LL I GVGE K + YGE+ L I S Sbjct: 533 FKENKKPYIIFSDTTLIDICNNKPDNVKKLLDIRGVGEKKINDYGEEILKIIST 586 >B5QN93.1 B5QN93_LACRH Superfamily II DNA helicase Length = 593 Score = 62.4 bits (150), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 27/77 (35%), Positives = 49/77 (63%) Query: 108 ANESVYEELCSWRRGKASSERKAPYIIASNRLLRMLSAFLPRTLEELLQIPGVGEGKASQ 167 +++V++EL S RR A + PY+I S++ L+ + +P+TL+ELL + GVG+ K + Sbjct: 517 VDDTVFQELRSTRRQLAEQQHLPPYMIFSDKTLKAIGNAMPKTLDELLAVKGVGQAKLDK 576 Query: 168 YGEDWLSITSAAEREHS 184 YG+ +L + A + E + Sbjct: 577 YGQIFLDVLQAIQTEKA 593 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.316 0.133 0.406 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 1,815,470,032 Number of extensions: 71139211 Number of successful extensions: 162551 Number of sequences better than 1.0e-05: 29 Number of HSP's gapped: 162556 Number of HSP's successfully gapped: 30 Length of query: 323 Length of database: 3,060,696,203 Length adjustment: 136 Effective length of query: 187 Effective length of database: 1,779,438,163 Effective search space: 332754936481 Effective search space used: 332754936481 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: 131 (55.1 bits)