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= 0001.1035.p (707 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310559|ref|YP_003774651.1| TP-dependent DNA helicase RecG ... 1304 0.0 gi|300312329|ref|YP_003776421.1| transcription-repair ATP-depend... 236 6e-63 >gi|300310559|ref|YP_003774651.1| TP-dependent DNA helicase RecG protein [Herbaspirillum seropedicae SmR1] Length = 722 Score = 1304 bits (3374), Expect = 0.0, Method: Compositional matrix adjust. Identities = 665/708 (93%), Positives = 686/708 (96%), Gaps = 7/708 (0%) Query: 7 ANRMSATAKKPRQEASKKKSAPAAKP-------ENKLAKLGLHNDMDLVLHLPLRYEDET 59 A+RM ATAKK A KKK+ A ENKLAKLGLHNDMDLVLHLPLRYEDET Sbjct: 15 ADRMPATAKKTSPPAPKKKATAAKSAAKPAAKPENKLAKLGLHNDMDLVLHLPLRYEDET 74 Query: 60 TLMSIAQASLRGLQTVQVEGVVSACEVQFRPRRQLIVTIGDDSGQLTLRFLNFYGSQTKQ 119 +LMSIA+AS+RGLQTVQVEGVVS+CEVQFRPRRQLIVT+GDDSGQLTLRFLNFYGSQTKQ Sbjct: 75 SLMSIAEASMRGLQTVQVEGVVSSCEVQFRPRRQLIVTVGDDSGQLTLRFLNFYGSQTKQ 134 Query: 120 LAEGTRVRVRGELRHGFFGAEMVHPSYKVVNEGAPLPDVLTPVYPAGEGLSQAYLRKAIA 179 +AEGTR+RVRGELRHGFFGAEMVHPSYKVVNEGAPLPDVLTPVYPAGEGLSQAYLRKAIA Sbjct: 135 MAEGTRLRVRGELRHGFFGAEMVHPSYKVVNEGAPLPDVLTPVYPAGEGLSQAYLRKAIA 194 Query: 180 NAMNRLDWSDTLPPSMLETLNLAAFEPSVRLLHNPPPEVDEHALIEKSHPAWIRMKFDEL 239 NAM+RLDWSDTLPPSML TLNLAAFEPSVRLLHNPPP+VDEHALIEKSHPAWIRMKFDEL Sbjct: 195 NAMSRLDWSDTLPPSMLATLNLAAFEPSVRLLHNPPPDVDEHALIEKSHPAWIRMKFDEL 254 Query: 240 LAQQLSLKRAQAARRAKTARALPVSGRITEELTKILPFQLTGAQQRVLEEIRADLRQSFP 299 LAQQLSLKRAQAARRAK+ARALPV+GRITEELT++LPFQLTGAQQRVLEEIRADLRQSFP Sbjct: 255 LAQQLSLKRAQAARRAKSARALPVTGRITEELTRLLPFQLTGAQQRVLEEIRADLRQSFP 314 Query: 300 MQRLLQGDVGSGKTVVAALAAAQAIDSGCQAVLMAPTEILAEQHFRKIAAWMEPLDIGVA 359 MQRLLQGDVGSGKTVVAALAAAQAIDSGCQAVLMAPTEILAEQHFRKIAAWMEPLD+GVA Sbjct: 315 MQRLLQGDVGSGKTVVAALAAAQAIDSGCQAVLMAPTEILAEQHFRKIAAWMEPLDVGVA 374 Query: 360 WLSGSQKKKEKTEALAHIESGAARLVIGTHALIQDTVQFENLGLVIVDEQHRFGVGQRLA 419 WLSGSQKKKEKTEALAHIESGAARLVIGTHALIQDTVQFENLGLVIVDEQHRFGVGQRLA Sbjct: 375 WLSGSQKKKEKTEALAHIESGAARLVIGTHALIQDTVQFENLGLVIVDEQHRFGVGQRLA 434 Query: 420 LRNKSFNAADPDAAAVPHQLMMSATPIPRTLAMTYYADLEVSVIDELPPGRSPIVTRVID 479 LRNKSFN AD D+ AVPHQLMMSATPIPRTLAMTYYADLEVSVIDELPPGRSPIVTRVID Sbjct: 435 LRNKSFNPADHDSPAVPHQLMMSATPIPRTLAMTYYADLEVSVIDELPPGRSPIVTRVID 494 Query: 480 QNRRDEVIQRVHAAALEGKQIYWVCPLIEESEALQLQTATDTHAALSAALPDLKIGLVHG 539 QNRRDEVI+RVHAAALEGKQIYWVCPLIEESEALQLQTATDTHAALSAALPDL+IGLVHG Sbjct: 495 QNRRDEVIERVHAAALEGKQIYWVCPLIEESEALQLQTATDTHAALSAALPDLQIGLVHG 554 Query: 540 RMKPVEKQVVMEGFSRGAIHLLVATTVIEVGVDVPNASLMVIEHAERFGLSQLHQLRGRV 599 RMKPVEKQ+VMEGFSRGAIHLLVATTVIEVGVDVPNASLMVIEHAERFGLSQLHQLRGRV Sbjct: 555 RMKPVEKQMVMEGFSRGAIHLLVATTVIEVGVDVPNASLMVIEHAERFGLSQLHQLRGRV 614 Query: 600 GRGSAASVCLLLYQGPLGGTAKQRLATMRETTDGFEIARRDLDIRGPGEFLGARQSGEAM 659 GRGSAASVCLLLYQGPLGGTAKQRLATMRETTDGFEIARRDLDIRGPGEFLGARQSGEAM Sbjct: 615 GRGSAASVCLLLYQGPLGGTAKQRLATMRETTDGFEIARRDLDIRGPGEFLGARQSGEAM 674 Query: 660 LRFADLATDQWLVEKARDTAQALLQHAPDIVDRHLARWLGGREDFLKV 707 LRFADLATDQWLVEKARDTAQALLQHAPDIVDRHLARWLGGRED+LKV Sbjct: 675 LRFADLATDQWLVEKARDTAQALLQHAPDIVDRHLARWLGGREDYLKV 722 >gi|300312329|ref|YP_003776421.1| transcription-repair ATP-dependent coupling factor [Herbaspirillum seropedicae SmR1] Length = 1145 Score = 236 bits (601), Expect = 6e-63, Method: Compositional matrix adjust. Identities = 162/416 (38%), Positives = 219/416 (52%), Gaps = 32/416 (7%) Query: 252 ARRA-KTARALPVSGRITEELTKILPFQLTGAQQRVLEEIRADLRQSFPMQRLLQGDVGS 310 ARRA + A S E F+ T Q + + D+ PM RL+ GDVG Sbjct: 575 ARRALRQGHAFQYSAHDYEAFADSFGFEETADQAAAINAVIKDMTGGKPMDRLICGDVGF 634 Query: 311 GKTVVAALAAAQAIDSGCQAVLMAPTEILAEQHFRKIAAWMEPLDIGVAWLSGSQKKKEK 370 GKT VA AA A+ G Q ++APT +LAEQH A + +A LS + KE Sbjct: 635 GKTEVALRAAFVAVMGGKQVAILAPTTLLAEQHAATFADRFANWPVKIAELSRFRTGKEV 694 Query: 371 TEALAHIESGAARLVIGTHALIQDTVQFENLGLVIVDEQHRFGVGQRLALRNKSFNAADP 430 T+A+ + G +VIGTH L+ D V+F LGLVI+DE+HRFGV Q+ AL++ A+ Sbjct: 695 TQAIKGLGDGTIDIVIGTHKLLSDEVKFSRLGLVIIDEEHRFGVRQKEALKSLR---AEV 751 Query: 431 DAAAVPHQLMMSATPIPRTLAMTYYADLEVSVIDELPPGRSPIVTRVIDQNRRDEVIQRV 490 D L ++ATPIPRTL M + SVI P R I T V R E + Sbjct: 752 DV------LTLTATPIPRTLGMALEGLRDFSVIATAPQKRLAIKTFV-----RAEQESTI 800 Query: 491 HAAAL----EGKQIYWVCPLIEESEALQLQTATDTHAALSAALPDLKIGLVHGRMKPVEK 546 A L G Q+Y++ +E T + AAL LP+ +IG+ HG+M + Sbjct: 801 REACLRELKRGGQVYFLHNEVE--------TIANRKAALEQLLPEARIGVAHGQMHERDL 852 Query: 547 QVVMEGFSRGAIHLLVATTVIEVGVDVPNASLMVIEHAERFGLSQLHQLRGRVGRGSAAS 606 + VM F ++L+ TT+IE G+DVP A+ +++ A++FGL+QLHQLRGRVGR + Sbjct: 853 EKVMRDFVAQRFNILLCTTIIETGIDVPTANTIIMHRADKFGLAQLHQLRGRVGRSHHQA 912 Query: 607 VCLLLYQG--PLGGTAKQRLAT---MRETTDGFEIARRDLDIRGPGEFLGARQSGE 657 LL Q L A++RL M E GF +A DL+IRG GE LG QSGE Sbjct: 913 YAYLLVQDVQGLSKQAQRRLEAIQQMEELGSGFYLAMHDLEIRGAGEVLGDHQSGE 968 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.319 0.133 0.382 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 2,099,265 Number of extensions: 87085 Number of successful extensions: 333 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 329 Number of HSP's successfully gapped: 2 Length of query: 707 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 615 Effective length of database: 1,184,250 Effective search space: 728313750 Effective search space used: 728313750 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: 134 (56.2 bits)