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= 0001.0403.p (351 letters) Database: BlastDatabases/707/707 3697 sequences; 1,221,021 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|152979831|ref|YP_001352001.1| Holliday junction DNA helicase ... 646 0.0 gi|152980972|ref|YP_001352846.1| recombination factor protein Ra... 60 2e-10 >gi|152979831|ref|YP_001352001.1| Holliday junction DNA helicase RuvB [Janthinobacterium sp. Marseille] Length = 352 Score = 646 bits (1666), Expect = 0.0, Method: Compositional matrix adjust. Identities = 320/350 (91%), Positives = 335/350 (95%) Query: 1 MSIQTDDFSEQRIISATPASANEEAIERALRPKQLDEYVGQEKVRAQLEIFISAARKRGE 60 MSIQTDDFSEQRII+ATPASANEEAIERALRPKQLDEYVGQEK+R QLEIFI+AAR+R E Sbjct: 1 MSIQTDDFSEQRIIAATPASANEEAIERALRPKQLDEYVGQEKIRGQLEIFITAARQRHE 60 Query: 61 PLDHTLLFGPPGLGKTTMAHIIAREMGVNLRQTSGPVLERAGDLAALLTNLEANDVLFID 120 LDHTLLFGPPGLGKTT+AHIIAREMGVNLRQTSGPVLERAGDLAALLTNLEANDVLFID Sbjct: 61 ALDHTLLFGPPGLGKTTLAHIIAREMGVNLRQTSGPVLERAGDLAALLTNLEANDVLFID 120 Query: 121 EIHRMSPVVEEILYPALEDYQIDIMIGEGPAARSVRLDLQPFTLVGATTRAGMLTNPLRD 180 EIHR+SPVVEEILYPALEDYQIDIMIGEGPAARSVRLDLQPFTLVGATTRAGMLTNPLRD Sbjct: 121 EIHRLSPVVEEILYPALEDYQIDIMIGEGPAARSVRLDLQPFTLVGATTRAGMLTNPLRD 180 Query: 181 RFGIVARLEFYTPPELARIVTRSAGLLNAPIVEEGALEIARRSRGTPRIANRLLRRVRDY 240 RFGIVARLEFYTP EL +IVTRS+ LLNAPI E+GA EIA+RSRGTPRIANRLLRRVRDY Sbjct: 181 RFGIVARLEFYTPLELTKIVTRSSALLNAPIDEDGAFEIAKRSRGTPRIANRLLRRVRDY 240 Query: 241 AEVKGEGRITREMADAALVMLDVDPVGFDLMDRKLLEAVLFKFGGGPVGLDNLAAAIGEE 300 AEVKG G+IT+ MADAALVMLDVDPVGFDLMDRKLLEAVLFKF GGPVGLDNLAAAIGEE Sbjct: 241 AEVKGNGKITKAMADAALVMLDVDPVGFDLMDRKLLEAVLFKFNGGPVGLDNLAAAIGEE 300 Query: 301 RDTIEDVLEPYLIQQGYLQRTPRGRIATGAAYQHFGVTAPRTGPNGELWG 350 RDTIEDVLEPYLIQQG+LQRTPRGRIAT AY HFGVTAP+TGPNG+LW Sbjct: 301 RDTIEDVLEPYLIQQGFLQRTPRGRIATPVAYAHFGVTAPQTGPNGDLWA 350 >gi|152980972|ref|YP_001352846.1| recombination factor protein RarA [Janthinobacterium sp. Marseille] Length = 433 Score = 60.1 bits (144), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 42/120 (35%), Positives = 62/120 (51%), Gaps = 11/120 (9%) Query: 26 IERALRPKQLDEYVGQEKVRAQLEIFISAARKRGEPLDHTLLF-GPPGLGKTTMAHIIAR 84 + ALRPK LDE VGQ + + + + A + G+P H+++F GPPG+GKTT+A + A Sbjct: 13 LAEALRPKTLDEVVGQSHLLGEGKP-LRLAFQSGKP--HSMIFWGPPGVGKTTLARLTAS 69 Query: 85 EMGVNLRQTSGPVLERAGDLAALLTNLEAN------DVLFIDEIHRMSPVVEEILYPALE 138 S V D+ A + E N +LF+DEIHR + ++ L P E Sbjct: 70 AFECEFIALSA-VFSGVKDIRAAMEQAEQNLAMGKHTILFVDEIHRFNKSQQDALLPYAE 128 Database: BlastDatabases/707/707 Posted date: Apr 13, 2011 12:58 PM Number of letters in database: 1,221,021 Number of sequences in database: 3697 Lambda K H 0.320 0.139 0.394 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 3697 Number of Hits to DB: 844,862 Number of extensions: 36750 Number of successful extensions: 188 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 186 Number of HSP's successfully gapped: 2 Length of query: 351 Length of database: 1,221,021 Length adjustment: 84 Effective length of query: 267 Effective length of database: 910,473 Effective search space: 243096291 Effective search space used: 243096291 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 130 (54.7 bits)