Structure of PDB 6qs8 Chain D

Receptor sequence

>6qs8D (length=625) Species: 562 (Escherichia coli)

QALKKYTIDLTERAEQGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEP
GVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFEER
LKGVLNDLAKQEGNVILFIDALHTMVGAGMDAGNMLKPALARGELHCVGA
TTLDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAILRGLKERYELHHHV
QITDPAIVAAATLSHRYIADRQLPDKAIDLIDEAASSIRMQIDSKPEELD
RLDRRIIQLKLEQQALMLDMLNEELSDKERQYSELEEEWKAEKLRNKVTD
AEIAEVLARWTGIPVSRMMESEREKLLRMEQELHHRVIGQNEAVDAVSNA
IRRSRAGLADPNRPIGSFLFLGPTGVGKTELCKALANFMFDSDEAMVRID
MSEFMEKHSVSRLVGAPPGYVGYEEGGYLTEAVRRRPYSVILLDAVEKAH
PDVFNILLQVLDDGRLTDGQGRTVDFRNTVVIMTSNLGSDLIQERFGELD
YAHMKELVLGVVSHNFRPEFINRIDEVVVFHPLGEQHIASIAQIQLKRLY
KRLEERGYEIHISDEALKLLSENGYDPVYGARPLKRAIQQQIENPLAQQI
LSGELVPGKVIRLEVNEDRIVAVQH

3D structure

• PDB: 6qs8 Two-Step Activation Mechanism of the ClpB Disaggregase for Sequential Substrate Threading by the Main ATPase Motor.
• Chain: D
• Resolution: 3.9 Å

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	peptide	D	K250 R252 G652 Y653 V654	K92 R94 G419 Y420 V421
BS02	AGS	D	V180 I181 G211 K212 T213 I349 I391	V22 I23 G53 K54 T55 I186 I228
BS03	AGS	D	R569 I571 T607 G608 V609 G610 K611 T612 E613 I774 R815	R336 I338 T374 G375 V376 G377 K378 T379 E380 I541 R582
BS04	MG	D	T612 D677	T379 D444
BS05	AGS	D	R331 R332	R168 R169

Gene Ontology

Molecular Function

• GO:0005515 protein binding
• GO:0005524 ATP binding
• GO:0016887 ATP hydrolysis activity
• GO:0042802 identical protein binding

Biological Process

• GO:0009408 response to heat
• GO:0034605 cellular response to heat
• GO:0042026 protein refolding

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0016020 membrane

External links

• PDB: RCSB:6qs8, PDBe:6qs8, PDBj:6qs8
• PDBsum: 6qs8
• PubMed: 31216466
• UniProt: P63284|CLPB_ECOLI Chaperone protein ClpB (Gene Name=clpB)