Structure of PDB 6x4y Chain A

Receptor sequence

>6x4yA (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: 6x4y Structural basis for transcription complex disruption by the Mfd translocase.
• Chain: A
• Resolution: 3.6 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 K556 T658 S684 R685 T710 H711 K712 R733 V819 G843 Q844 T868 T869 I870 M967	A550 K553 T655 S681 R682 T707 H708 K709 R730 V816 G840 Q841 T865 T866 I867 M964
BS02	dna	A	K690 H890 G892 R929 R953 S964	K687 H887 G889 R926 R950 S961
BS03	ADP	A	F599 E600 V630 G631 G633 K634 T635 P780	F596 E597 V627 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:6x4y, PDBe:6x4y, PDBj:6x4y
• PDBsum: 6x4y
• PubMed: 33480355
• UniProt: P30958|MFD_ECOLI Transcription-repair-coupling factor (Gene Name=mfd)