RPSBLAST alignment for GI: 254780945 and conserved domain: TIGR00580
>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 = 310 bits (796), Expect = 7e-85
Identities = 149/410 (36%), Positives = 232/410 (56%), Gaps = 21/410 (5%)
Query: 240 LLLMRKQFKKEIGIPINVEGKIAQKILRNIPFSPTKSQESAIKDILQDMSQKNRMLRILQ 299
L+ + + K G + + Q+ + PF T Q AI++I DM M R++
Sbjct: 419 LIELYAKRKAIKGHAFPPDLEWQQEFEDSFPFEETPDQLKAIEEIKADMESPRPMDRLVC 478
Query: 300 GDVGSGKTLVALIAMAAAVEAGGQAVIMAPIGILAQQHYEFIKKYTQNTQIIVEIITGNM 359
GDVG GKT VA+ A AV G Q ++ P +LAQQH+E K+ N + +E+++
Sbjct: 479 GDVGFGKTEVAMRAAFKAVLDGKQVAVLVPTTLLAQQHFETFKERFANFPVTIELLSRFR 538
Query: 360 PQAHRRKALERIAHGQAHIIIGTHALFQDSIQYYKLILVIVDEQHRFGVQQRLKLTQKAT 419
+ + L+ +A G+ I+IGTH L Q +++ L L+I+DE+ RFGV+Q+ KL + T
Sbjct: 539 SAKEQNEILKELASGKIDILIGTHKLLQKDVKFKDLGLLIIDEEQRFGVKQKEKLKELRT 598
Query: 420 APHVLLMTATPIPRTLVLTSLGDIDISKITEKPAGRKPIKTVIIPINR--IDEVIERLKV 477
+ VL ++ATPIPRTL ++ G D+S I P R P++T ++ + + E I R
Sbjct: 599 SVDVLTLSATPIPRTLHMSMSGIRDLSIIATPPEDRLPVRTFVMEYDPELVREAIRR--- 655
Query: 478 VLSEGKKAYWICPQIE--EKKESNFRSVVERFNSLHEHFTSSIAIIHGRMSDIDKESVMD 535
L G + +++ +IE EK + R +V + IAI HG+M++ + E VM
Sbjct: 656 ELLRGGQVFYVHNRIESIEKLATQLRELVPE---------ARIAIAHGQMTENELEEVML 706
Query: 536 SFKNGTCKLLIATTVIEVGIDVVDASIIIIENAEHFGLAQLHQLRGRVGRGEEISSCILL 595
F G ++L+ TT+IE GID+ +A+ IIIE A+ FGLAQL+QLRGRVGR ++ + LL
Sbjct: 707 EFYKGEFQVLVCTTIIETGIDIPNANTIIIERADKFGLAQLYQLRGRVGRSKKKAYAYLL 766
Query: 596 YHP--PLSKNSYTRLSVLKNTED---GFLIAEEDLKQRKEGEILGIKQSG 640
Y L++++ RL ++ + GF IA DL+ R G +LG +QSG
Sbjct: 767 YPHQKALTEDAQKRLEAIQEFSELGAGFKIALHDLEIRGAGNLLGEEQSG 816