Structure of PDB 6chs Chain A Binding Site BS02

Receptor Information

>6chs Chain A (length=460) Species: 759272 (Thermochaetoides thermophila DSM 1495)

IKNPWEVVRQSPLDDRLDKLDGKIPRKRGAMCRHGPKGMCDYCTPLDPFN
PQYLEEKKIKYMSVHAYMRKINSATNRPELGSSFIPPLVEPYYRVKRDCP
SGHPQWPEGICTKCQPSAITLQPQPFRMVDHVEFASPQIIDRFLDAWRRT
GVQRLGILYGRYLEYDAVPLGIKAVVEAIYEPPQVDEIDGITLNPWENEQ
EVNQVAKYCGLEQVGVIWTDLLDAGKGDGSVVCKRHADSYFLAAQEIVFA
ARLQAQHPKPSKWSDTGRFGSNFVTCVVSGNEQGEISISAYQMSNDAVEM
VRADIIEPSADPTLMLVREETRYIPEVFYRKINEYGANVLENAKPAFPVE
YLFVTLTHGFPDSPSPLFTDNIFPIENREYVGEAQEVSAVAKALKVHEAD
APMNVSDFHLLCFIHQMSVLSKEEEALLCRVATLHDLAESFQLRSTTGWQ
TLHMILQSTG

Ligand information

• Ligand ID: ZN
• InChI: InChI=1S/Zn/q+2
• InChIKey: PTFCDOFLOPIGGS-UHFFFAOYSA-N
• SMILES:
  CACTVS 3.341: [Zn++]
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Zn+2]
• Formula: Zn
• Name: ZINC ION
• ChEMBL: CHEMBL1236970
• DrugBank: DB14532
• PDB chain: 6chs Chain A Residue 702

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6chs Structure of the Cdc48 ATPase with its ubiquitin-binding cofactor Ufd1-Npl4.
• Resolution: 4.3 Å
• Binding residue (original residue number in PDB): H231 K241 C242
• Binding residue (residue number reindexed from 1): H103 K113 C114
• Annotation score: 4

Gene Ontology

Molecular Function

• GO:0031625 ubiquitin protein ligase binding
• GO:0043130 ubiquitin binding
• GO:0046872 metal ion binding

Biological Process

• GO:0006511 ubiquitin-dependent protein catabolic process
• GO:0015031 protein transport
• GO:0051028 mRNA transport

Cellular Component

• GO:0005634 nucleus
• GO:0031965 nuclear membrane
• GO:0048471 perinuclear region of cytoplasm

External links

• PDB: RCSB:6chs, PDBe:6chs, PDBj:6chs
• PDBsum: 6chs
• PubMed: 29967539
• UniProt: G0S0B4