Structure of PDB 6x4w Chain A

Receptor sequence

>6x4wA (length=1144) Species: 562 (Escherichia coli)

QYRYTLPVKAGEQRLLGELTGAACATLVAEIAERHAGPVVLIAPDMQNAL
RLHDEISQFTDQMVMNLADWETLPYDSFSPHQDIISSRLSTLYQLPTMQR
GVLIVPVNTLMQRVCPHSFLHGHALVMKKGQRLSRDALRTQLDSAGYRHV
DQVMEHGEYATRGALLDLFPMGSELPYRLDFFDDEIDSLRVFDVDSQRTL
EEVEAINLLPAHEFPTDKAAIELFRSQWRDTFEVKRDPEHIYQQVSKGTL
PAGIEYWQPLFFSEPLPPLFSYFPANTLLVNTGDLETSAERFQADTLARF
ENRGVDPMRPLLPPQSLWLRVDELFSELKNWPRVQLKTEHLPTKAANANL
GFQKLPDLAVQAQQKAPLDALRKFLETFDGPVVFSVESEGRREALGELLA
RIKIAPQRIMRLDEASDRGRYLMIGAAEHGFVDTVRNLALICESDLLGER
VARRRQDSRRTINPDTLIRNLAELHIGQPVVHLEHGVGRYAGMTTLEAGG
ITGEYLMLTYANDAKLYVPVSSLHLISRYAGGAEENAPLHKLGGDAWSRA
RQKAAEKVRDVAAELLDIYAQRAAKEGFAFKHDREQYQLFCDSFPFETTP
DQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVA
VLVPTTLLAQQHYDNFRDRFANWPVRIEMISRFRSAKEQTQILAEVAEGK
IDILIGTHKLLQSDVKFKDLGLLIVDEEHRFGVRHKERIKAMRANVDILT
LTATPIPRTLNMAMSGMRDLSIIATPPARRLAVKTFVREYDSMVVREAIL
REILRGGQVYYLYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERV
MNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGLAQLHQLRGRV
GRSHHQAYAWLLTPHPKAMTTDAQKRLEAIASLEDLGAGFALATHDLEIR
GAGELLGEEQSGSMETIGFSLYMELLENAVDALKAGREPSLEDLTSQQTE
VELRMPSLLPDDFIPDVNTRLSFYKRIASAKTENELEEIKVELIDRFGLL
PDPARTLLDIARLRQQAQKLGIRKLEGNEKGGVIEFAEKNHVNPAWLIGL
LQKQPQHYRLDGPTRLKFIQDLSERKTRIEWVRQFMRELEENAI

3D structure

• PDB: 6x4w Structural basis for transcription complex disruption by the Mfd translocase.
• Chain: A
• Resolution: 3.8 Å

Enzymatic activity

• Enzyme Commision number: 3.6.4.-

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	dna	A	A553 Q555 K556 A557 T658 T659 R685 T710 H711 K712 Q715 N817 Q844 T868	A550 Q552 K553 A554 T655 T656 R682 T707 H708 K709 Q712 N814 Q841 T865
BS02	dna	A	K690 G735 H738 R846 H890 F891 G892 R929 R953 Q963	K687 G732 H735 R843 H887 F888 G889 R926 R950 Q960
BS03	ADP	A	F599 E600 Q605 G631 G633 K634 T635 P780	F596 E597 Q602 G628 G630 K631 T632 P777

Gene Ontology

Molecular Function

• GO:0003676 nucleic acid binding
• GO:0003677 DNA binding
• GO:0003684 damaged DNA binding
• GO:0004386 helicase activity
• GO:0005515 protein binding
• GO:0005524 ATP binding
• GO:0015616 DNA translocase activity
• GO:0016787 hydrolase activity
• GO:0043175 RNA polymerase core enzyme binding

Biological Process

• GO:0000716 transcription-coupled nucleotide-excision repair, DNA damage recognition
• GO:0006281 DNA repair
• GO:0006283 transcription-coupled nucleotide-excision repair
• GO:0006294 nucleotide-excision repair, preincision complex assembly
• GO:0006355 regulation of DNA-templated transcription
• GO:0006974 DNA damage response

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:1990391 DNA repair complex

External links

• PDB: RCSB:6x4w, PDBe:6x4w, PDBj:6x4w
• PDBsum: 6x4w
• PubMed: 33480355
• UniProt: P30958|MFD_ECOLI Transcription-repair-coupling factor (Gene Name=mfd)