MolNFT v1 · #168264 · protein

Structure of acinetobacter baumannii CAP4 SAVED/CARF-domain containing receptor

6WAM · Saved domain-containing protein: “Structure of acinetobacter baumannii CAP4 SAVED/CARF-domain containing receptor”. X-ray diffraction, 1 ligand (SO4), 20 pockets (best druggability 0.86). MolNFT v1 #168264 on GenesisL1: 3D…

PDB: 6WAM
Type: protein
Length: 2,589 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Saved domain-containing protein
UniProt: C0VHC9
Ligands: SO4
Pockets: 20 · best druggability 0.86

Structure

x-ray diffraction · 5 distinct chains · 45% helix, 21% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, D	Saved domain-containing protein	protein	437	44% helix, 21% strand	C0VHC9
B	Saved domain-containing protein	protein	436	45% helix, 22% strand	C0VHC9
C	Saved domain-containing protein	protein	438	44% helix, 21% strand	C0VHC9
E	Saved domain-containing protein	protein	420	46% helix, 20% strand	C0VHC9
F	Saved domain-containing protein	protein	421	45% helix, 22% strand	C0VHC9

Ligands and binding sites

SO4 · Sulfate ion · ion · 6 copies · chains A, B, C, D, E, F

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

20 pockets found on a 1 Å grid, 19 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1129	0.86	0.88	142	empty
2	516	0.83	0.89	54	empty
3	952	0.83	0.84	94	empty
4	564	0.78	0.84	61	empty
5	658	0.77	0.82	65	empty

Interfaces

12 interfaces between chains.

E–F · 921 Å² buried · 14 hydrogen bonds · protein-protein
D–E · 904 Å² buried · 11 hydrogen bonds · protein-protein
B–F · 902 Å² buried · 16 hydrogen bonds · protein-protein
B–E · 893 Å² buried · 13 hydrogen bonds · protein-protein
A–C · 892 Å² buried · 16 hydrogen bonds · protein-protein

Compared structures

6WAM · Structure of Acinetobacter baumannii Cap4 SAVED/CARF-domain containing receptor · the same entry in another collection · chain F against F, TM-score 1.00
C0VHC9 · AlphaFold monomer V2.0 prediction for CD-ntase-associated protein 4 (C0VHC9) · a predicted model of the same protein · chain D against A, TM-score 0.96

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt C0VHC9
Elsewhere: RCSB PDB 6WAM · PDBe 6WAM · UniProt C0VHC9

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