MolNFT v1 · #164726 · protein

Pii-like protein cuta from nostoc sp. pcc 7120 in apo form

6T76 · Periplasmic divalent cation tolerance protein: “Pii-like protein cuta from nostoc sp. pcc 7120 in apo form”. X-ray diffraction, 1 ligand (SO4), 11 pockets (best druggability 0.89). MolNFT v1 #164726 on GenesisL1: 3D structure…

PDB: 6T76
Type: protein
Length: 618 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Periplasmic divalent cation tolerance protein
UniProt: Q8YL42
Ligands: SO4
Pockets: 11 · best druggability 0.89

Structure

x-ray diffraction · 4 distinct chains · 35% helix, 38% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, E	Periplasmic divalent cation tolerance protein	protein	104	36% helix, 38% strand	Q8YL42
C	Periplasmic divalent cation tolerance protein	protein	103	33% helix, 38% strand	Q8YL42
D	Periplasmic divalent cation tolerance protein	protein	102	36% helix, 37% strand	Q8YL42
F	Periplasmic divalent cation tolerance protein	protein	101	34% helix, 38% strand	Q8YL42

Ligands and binding sites

SO4 · Sulfate ion · ion · 7 copies · chains A, B, C, E, D, F

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

Pockets

11 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	604	0.89	0.95	63	empty
2	129	0.82	0.98	18	empty
3	97	0.79	0.97	17	empty
4	93	0.62	0.88	17	empty
5	95	0.62	0.88	17	empty

Interfaces

12 interfaces between chains.

E–F · 1139 Å² buried · 21 hydrogen bonds · protein-protein
A–D · 1112 Å² buried · 21 hydrogen bonds · protein-protein
A–B · 1111 Å² buried · 21 hydrogen bonds · protein-protein
C–F · 1107 Å² buried · 20 hydrogen bonds · protein-protein
C–E · 1105 Å² buried · 22 hydrogen bonds · protein-protein

Compared structures

6T76 · PII-like protein CutA from Nostoc sp. PCC 7120 in apo form · the same entry in another collection · chain A against A, TM-score 1.00

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 Q8YL42
Elsewhere: RCSB PDB 6T76 · PDBe 6T76 · UniProt Q8YL42

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