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= 0265.0004.p (337 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|NP_979143.1| uvrD/Rep helicase family protein [Bacillus cere... 335 9e-91 ref|NP_845161.1| uvrD/Rep helicase family protein [Bacillus anth... 333 3e-90 ref|NP_656696.1| UvrD-helicase, UvrD/REP helicase [Bacillus anth... 327 3e-88 ref|NP_979814.1| conserved hypothetical protein [Bacillus cereus... 197 3e-49 ref|NP_347662.1| Superfamily I DNA helicase [Clostridium acetobu... 197 4e-49 >ref|NP_979143.1| uvrD/Rep helicase family protein [Bacillus cereus ATCC 10987] gb|AAS41751.1| uvrD/Rep helicase family protein [Bacillus cereus ATCC 10987] Length = 689 Score = 335 bits (859), Expect = 9e-91, Method: Compositional matrix adjust. Identities = 162/271 (59%), Positives = 210/271 (77%), Gaps = 1/271 (0%) Query: 5 FQSAYQEEEDRLNSALTEIDTVLERLRGIPVYTGHDYTEQALEVSREQRRKDLAKLRQEP 64 + ++EE R+ L +D L +L IPVY G D+ EQ LE RE R++L QEP Sbjct: 1 MNNIFEEELQRMKDTLRTMDDQLXQLENIPVYYGDDFKEQXLESMRESNRQNLRIGVQEP 60 Query: 65 YFGRLDFQGKDEDGRKALYIGKIGVDREQVSDRPLVIDWRAPVASLFYSFTGGTEPASYE 124 YFGRLDF+ ++ +YIGK+GV ++ + +P+VIDWRAPVAS+FYSFTGG E A Y+ Sbjct: 61 YFGRLDFREDGKEDVMPIYIGKVGVS-DKDTMKPIVIDWRAPVASMFYSFTGGDELAFYQ 119 Query: 125 APEGLIEGLVYLKRNVVIRKQILERVADTYNRDSDGPAVSDEFLVYRLGENKDNRLRDIV 184 +P+GL+EG VYLKRN+ IRK+ LERV DTY + ++ + +D+FL+YRLGENKDN+L+DIV Sbjct: 120 SPDGLVEGDVYLKRNISIRKRELERVVDTYVKGNEDVSHADDFLLYRLGENKDNKLKDIV 179 Query: 185 STIQEEQDKIIRAAKNTALIIQGVAGSGKTTVALHRLAFLLYQYKEQVSAEKMIIFAPNR 244 STIQ EQ+ IIRA +N L+IQGVAGSGKTT+ALHRLAFL+Y+Y+EQ+ AE+MI+FAPN Sbjct: 180 STIQSEQNDIIRAERNLPLLIQGVAGSGKTTIALHRLAFLIYEYREQLEAERMIVFAPNS 239 Query: 245 MFLDYISDVLPELGVGNIAQSTFPDWAADVL 275 +FLDYIS VLPELGVGNI+Q+TFPDWA L Sbjct: 240 LFLDYISSVLPELGVGNISQTTFPDWALRTL 270 >ref|NP_845161.1| uvrD/Rep helicase family protein [Bacillus anthracis str. Ames] gb|AAP26647.1| uvrD/Rep helicase family protein [Bacillus anthracis str. Ames] Length = 689 Score = 333 bits (854), Expect = 3e-90, Method: Compositional matrix adjust. Identities = 165/274 (60%), Positives = 213/274 (77%), Gaps = 7/274 (2%) Query: 5 FQSAYQEEEDRLNSALTEIDTVLERLRGIPVYTGHDYTEQALEVSREQRRKDLAKLRQEP 64 + ++EE ++ L +D LE+L IPVY G D+ EQ LE RE R++L QEP Sbjct: 1 MNNIFEEELQKMKDTLRTMDDQLEQLEKIPVYYGDDFKEQILESMRESNRQNLRIGVQEP 60 Query: 65 YFGRLDFQGKDEDGRK---ALYIGKIGVDREQVSDRPLVIDWRAPVASLFYSFTGGTEPA 121 YFGRLDFQ EDG++ +YIGK+GV ++ + +P+VIDWRAPVAS+FYSFTGG E A Sbjct: 61 YFGRLDFQ---EDGKEEVMPIYIGKVGVS-DKDTMKPIVIDWRAPVASMFYSFTGGDELA 116 Query: 122 SYEAPEGLIEGLVYLKRNVVIRKQILERVADTYNRDSDGPAVSDEFLVYRLGENKDNRLR 181 Y++P+GL+EG VYLKRN+ IRK+ LERV DTY + ++ + +D+FL+YRLGENKDN+L+ Sbjct: 117 FYQSPDGLVEGDVYLKRNISIRKRELERVVDTYVKGNEDVSHADDFLLYRLGENKDNKLK 176 Query: 182 DIVSTIQEEQDKIIRAAKNTALIIQGVAGSGKTTVALHRLAFLLYQYKEQVSAEKMIIFA 241 DIVSTIQ EQ+ IIRA +N L+IQGVAGSGKTT+ALHRLAFL+Y+Y+EQ+ AE+MI+FA Sbjct: 177 DIVSTIQSEQNDIIRAERNLPLLIQGVAGSGKTTIALHRLAFLIYEYREQLEAERMIVFA 236 Query: 242 PNRMFLDYISDVLPELGVGNIAQSTFPDWAADVL 275 PN +FLDYIS VLPELGVGNI+Q+TF DWA L Sbjct: 237 PNSLFLDYISSVLPELGVGNISQTTFLDWALRTL 270 >ref|NP_656696.1| UvrD-helicase, UvrD/REP helicase [Bacillus anthracis A2012] Length = 429 Score = 327 bits (837), Expect = 3e-88, Method: Compositional matrix adjust. Identities = 162/263 (61%), Positives = 206/263 (78%), Gaps = 7/263 (2%) Query: 16 LNSALTEIDTVLERLRGIPVYTGHDYTEQALEVSREQRRKDLAKLRQEPYFGRLDFQGKD 75 + L +D LE+L IPVY G D+ EQ LE RE R++L QEPYFGRLDFQ Sbjct: 1 MKDTLRTMDDQLEQLEKIPVYYGDDFKEQILESMRESNRQNLRIGVQEPYFGRLDFQ--- 57 Query: 76 EDGRK---ALYIGKIGVDREQVSDRPLVIDWRAPVASLFYSFTGGTEPASYEAPEGLIEG 132 EDG++ +YIGK+GV ++ + +P+VIDWRAPVAS+FYSFTGG E A Y++P+GL+EG Sbjct: 58 EDGKEEVMPIYIGKVGVS-DKDTMKPIVIDWRAPVASMFYSFTGGDELAFYQSPDGLVEG 116 Query: 133 LVYLKRNVVIRKQILERVADTYNRDSDGPAVSDEFLVYRLGENKDNRLRDIVSTIQEEQD 192 VYLKRN+ IRK+ LERV D Y + ++ + +D+FL+YRLGENKDN+L+DIVSTIQ EQ+ Sbjct: 117 DVYLKRNISIRKRELERVVDXYVKGNEDVSHADDFLLYRLGENKDNKLKDIVSTIQSEQN 176 Query: 193 KIIRAAKNTALIIQGVAGSGKTTVALHRLAFLLYQYKEQVSAEKMIIFAPNRMFLDYISD 252 IIRA +N L+IQGVAGSGKTT+ALHRLAFL+Y+Y+EQ+ AE+MI+FAPN +FLDYIS Sbjct: 177 DIIRAERNLPLLIQGVAGSGKTTIALHRLAFLIYEYREQLEAERMIVFAPNSLFLDYISS 236 Query: 253 VLPELGVGNIAQSTFPDWAADVL 275 VLPELGVGNI+Q+TF DWA L Sbjct: 237 VLPELGVGNISQTTFLDWALRTL 259 >ref|NP_979814.1| conserved hypothetical protein [Bacillus cereus ATCC 10987] gb|AAS42422.1| conserved hypothetical protein [Bacillus cereus ATCC 10987] Length = 768 Score = 197 bits (501), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 106/261 (40%), Positives = 158/261 (60%), Gaps = 9/261 (3%) Query: 57 LAKLRQEPYFGRLDFQGKDEDGRKALYIGKIGVDREQVSDRPLVIDWRAPVASLFYSFTG 116 L K+++ PYFGR+DF+ DE +YIG IG ++ +D LV DWRAP++SL+Y +T Sbjct: 88 LMKIKETPYFGRIDFKEDDEADADEMYIG-IGSFYDKENDEFLVYDWRAPISSLYYDYTL 146 Query: 117 GTEPASYEAPEGLIEGLVYLKRNVVIRKQILERVADTYNRDSDGPAVSDEFLVYRLGENK 176 G A Y+AP G I G + LKR +IR ++ + DT G + DE L LG N Sbjct: 147 GR--AQYKAPIGTISGDLLLKRQYMIRNGTIQSMFDT------GVTIGDELLQEALGRNA 198 Query: 177 DNRLRDIVSTIQEEQDKIIRAAKNTALIIQGVAGSGKTTVALHRLAFLLYQYKEQVSAEK 236 +++ IV+TIQ EQ++IIR K+ LI+QG AGSGKT+ AL R+A+LLY Y+ V A++ Sbjct: 199 SEQMKSIVTTIQREQNQIIRNDKSDVLIVQGTAGSGKTSAALQRVAYLLYHYRGTVYADQ 258 Query: 237 MIIFAPNRMFLDYISDVLPELGVGNIAQSTFPDWAADVLGVVLPEQNAAETMSYWFEREG 296 M++F+PN +F YI++VLPELG N+ Q+TF + V+G +++ + Y ++ Sbjct: 259 MLLFSPNELFNSYIANVLPELGEENMQQTTFQAYVEHVIGKSFTVEDSFAQLEYVLTKKH 318 Query: 297 GMPEITEETPGRFKGSTALMG 317 T ++K S MG Sbjct: 319 ESTYETRVKGIQYKSSVEFMG 339 >ref|NP_347662.1| Superfamily I DNA helicase [Clostridium acetobutylicum] pir||G97026 superfamily I DNA helicase [imported] - Clostridium acetobutylicum gb|AAK79002.1| Superfamily I DNA helicase [Clostridium acetobutylicum] Length = 763 Score = 197 bits (500), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 107/256 (41%), Positives = 160/256 (62%), Gaps = 10/256 (3%) Query: 64 PYFGRLDFQGKDEDGRKALYIGKIGVDREQVSDRPLVIDWRAPVASLFYSFTGGTEPASY 123 PYF R+DF+ + ++ YIGK G+ + + +IDWRAP+A L+YS T G +Y Sbjct: 79 PYFARIDFRERKRTEVESYYIGKFGLGDSRNGEEK-IIDWRAPIADLYYSGTAG--KVAY 135 Query: 124 EAPEGLIEGLVYLKRNVVIR-KQILERVADTYNR---DSDGPA---VSDEFLVYRLGENK 176 + G ++G +YLKR +I+ K++ + D N + G + + DEFL L +N Sbjct: 136 KIYSGYVDGELYLKRKFLIQDKKLKDAFDDAINEIILKAQGGSENNLVDEFLRINLEKNV 195 Query: 177 DNRLRDIVSTIQEEQDKIIRAAKNTALIIQGVAGSGKTTVALHRLAFLLYQYKEQVSAEK 236 ++L+D+V+TIQ+EQ+ IIR+ KN+AL++QG AGSGKTTVALHRLA+L+Y+Y + +S + Sbjct: 196 SSKLKDVVATIQKEQNDIIRSEKNSALVVQGSAGSGKTTVALHRLAYLIYKYNKSLSGKD 255 Query: 237 MIIFAPNRMFLDYISDVLPELGVGNIAQSTFPDWAADVLGVVLPEQNAAETMSYWFEREG 296 +++ APNR+FLDYISDVLP LG + Q TF D A VLG+ + ++Y FE + Sbjct: 256 VLVVAPNRIFLDYISDVLPSLGANTVVQETFEDIALKVLGIKSKVYTKDKKLAYIFEDKN 315 Query: 297 GMPEITEETPGRFKGS 312 + FKGS Sbjct: 316 EEDKKLVIKTSNFKGS 331 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.317 0.137 0.394 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 509,296,588 Number of extensions: 22206719 Number of successful extensions: 69761 Number of sequences better than 1.0e-05: 50 Number of HSP's gapped: 69678 Number of HSP's successfully gapped: 50 Length of query: 337 Length of database: 757,237,578 Length adjustment: 126 Effective length of query: 211 Effective length of database: 415,135,104 Effective search space: 87593506944 Effective search space used: 87593506944 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: 126 (53.1 bits)