>gnl|CDD|161938 TIGR00580, mfd, transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families. Length = 926

Score = 894 bits (2312), Expect = 0.0 Identities = 383/962 (39%), Positives = 551/962 (57%), Gaps = 46/962 (4%) Query: 150 LETNGFQRVNAVYKVGEYAVRGGILDVYEPTKKYPVRLDFFGNTIDSLRLFDSSTQRTIR 209 L G++RV+ V + GE++VRG ILD++ P + PVR++FFG+ I+S+R FD +QR++ Sbjct: 1 LVELGYERVDLVEEEGEFSVRGEILDIFPPGSELPVRIEFFGDEIESIREFDVDSQRSLE 60 Query: 210 EISIFEINTLSE-VMLTSQNISRFRENYLANFGTTTQEDPLYVAISQGRRYPGMEHWLPF 268 E+ I E ++L + I+R ++N A+S+G G E +LP Sbjct: 61 ELLEITILPAKEFILLEEETIARLKDNAARVEDAKHL--ETIEALSEGTLPAGEEMFLPL 118 Query: 269 FYQSMETIFPYLSEFCIITDPLVKETARKRSQLIQDYYEARLQYSSDKKQYSVYKPIAPE 328 F++ + ++F YL + I + L ++ E KK I P Sbjct: 119 FFEDLSSLFDYLPDNTPILLDDPERFHSAARFLQRELEEFYNALEEAKK------LINPP 172 Query: 329 KLYLNYQQFDALIQTTHKLVQMTAFNQQETAHNRVV--HLNAFPGKSWVPSAVQKIESQD 386 +L L+ AF + +RV + + S QK + Sbjct: 173 RLDLD--------------PSELAFEASAISLSRVQLENEHLSLKASEAIEGAQKHSRLE 218 Query: 387 NWESGGRFDKFLSHVAQQAQKGIKTIISASSQGALQHLIHLIESHGFKKIKKINTLTEIN 446 E ++ + G K ++A S+ + L L+ H + E Sbjct: 219 FGEILAFKEELFRWLKA----GFKITVAAESESQAERLKSLLAEHDIA----AQVIDESC 270 Query: 447 SLLKEEIAAVI---LPINQGFETKHMILVTETDLLGKKIARR--VVRKKNVHAQSFFDSS 501 ++ + V+ L T + ++TE++L G ++ RR R K+ +S + Sbjct: 271 -IIIPAVRYVMIGALSSGFILPTAGLAVITESELFGSRVLRRPKKSRLKSKPIESL---N 326 Query: 502 NIEEGAIIVHAEHGIGRFVRLYSIEVSGTFHDCLELHYADNAKLFVPVENIDLISRYS-T 560 + G +VH +HGIGRF+ L ++EV G D L L YA KL+VPVE + LISRY Sbjct: 327 ELNPGDYVVHLDHGIGRFLGLETLEVGGIERDYLVLEYAGEDKLYVPVEQLHLISRYVGG 386 Query: 561 EITTVTLDKLGGSAWKTRKANLKKRLEDLAQKLVDIAAKRAIHSVPPLMVSQDLYSQFIK 620 LDKLGG +W+ KA +KK + ++A KL+++ AKR + +F Sbjct: 387 SGKNPALDKLGGKSWEKTKAKVKKSVREIAAKLIELYAKRKAIKGHAFPPDLEWQQEFED 446 Query: 621 RFPHVETEDQEKAIDAVIQDLSSGRLMDRLICGDVGFGKTEIALRAAFIAVMNGLQVAVI 680 FP ET DQ KAI+ + D+ S R MDRL+CGDVGFGKTE+A+RAAF AV++G QVAV+ Sbjct: 447 SFPFEETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDGKQVAVL 506 Query: 681 APTTLLVRQHFRLFSERFQGFSVRIASISRFVQTKEAALHKKSITEGQVDIVIGTHALLN 740 PTTLL +QHF F ERF F V I +SRF KE K + G++DI+IGTH LL Sbjct: 507 VPTTLLAQQHFETFKERFANFPVTIELLSRFRSAKEQNEILKELASGKIDILIGTHKLLQ 566 Query: 741 PKITFANLGLIIIDEEQHFGVKHKEALKETHTGVHVLTLSATPIPRTLQLAITGVRELSL 800 + F +LGL+IIDEEQ FGVK KE LKE T V VLTLSATPIPRTL ++++G+R+LS+ Sbjct: 567 KDVKFKDLGLLIIDEEQRFGVKQKEKLKELRTSVDVLTLSATPIPRTLHMSMSGIRDLSI 626 Query: 801 ISMPPINRIACRTSISIFDPLVVRETLMREYYRGGQSFYVCPRLSDLEKCYTFLQSEVPE 860 I+ PP +R+ RT + +DP +VRE + RE RGGQ FYV R+ +EK T L+ VPE Sbjct: 627 IATPPEDRLPVRTFVMEYDPELVREAIRRELLRGGQVFYVHNRIESIEKLATQLRELVPE 686 Query: 861 LKIAMAHGQMSPKNLEDKMNAFYEGQYDVLLSTSIVESGLDLPKANTMIVQRADMFGLAQ 920 +IA+AHGQM+ LE+ M FY+G++ VL+ T+I+E+G+D+P ANT+I++RAD FGLAQ Sbjct: 687 ARIAIAHGQMTENELEEVMLEFYKGEFQVLVCTTIIETGIDIPNANTIIIERADKFGLAQ 746 Query: 921 LYQLRGRVGRSKIASFALFLLPENRPLTAAAQKRLRILQSLNTLGAGFQLASYDLDIRGT 980 LYQLRGRVGRSK ++A L P + LT AQKRL +Q + LGAGF++A +DL+IRG Sbjct: 747 LYQLRGRVGRSKKKAYAYLLYPHQKALTEDAQKRLEAIQEFSELGAGFKIALHDLEIRGA 806 Query: 981 GNLLGEEQSGHIREIGFELYQKMLEETVASIKGQK-DLVESDWSPQVLIEASVMIPESYV 1039 GNLLGEEQSGHI IGF+LY ++LEE + +KG K +E + + + S IP+ Y+ Sbjct: 807 GNLLGEEQSGHIESIGFDLYMELLEEAIEELKGGKPPKLEEE--TDIELPYSAFIPDDYI 864 Query: 1040 SDINLRLSLYRRLGNITDHADISHFKEEMVDRFGPLPIEVIHLLKVVFLKLLCRIANIDK 1099 +D +LRL Y+R+ + ++ ++E++DRFGPLP E LL V LKLL R I K Sbjct: 865 ADDSLRLEFYKRIASAETEEELEKIRDELIDRFGPLPEEARTLLDVARLKLLARKLGIRK 924 Query: 1100 MD 1101 + Sbjct: 925 LK 926

RPSBLAST alignment for GI: 254780947 and conserved domain: TIGR00580