MolNFT v1 · #150075 · protein

Water-soluble chlorophyll protein (wscp) from lepidium virginicum (mutation L91P) with chlorophyll-B

6GIX: “Water-soluble chlorophyll protein (wscp) from lepidium virginicum (mutation L91P) with chlorophyll-B”. X-ray diffraction, 1 ligand (CHL), 4 pockets (best druggability 0.76). MolNFT v1 #150075 on GenesisL1: 3D structure, binding…

PDB: 6GIX
Type: protein
Length: 639 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Water-soluble chlorophyll protein
UniProt: O04797
Ligands: CHL
Pockets: 4 · best druggability 0.76

Structure

x-ray diffraction · 4 distinct chains · 2% helix, 41% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Water-soluble chlorophyll protein	protein	157	2% helix, 42% strand	O04797
B	Water-soluble chlorophyll protein	protein	158	2% helix, 39% strand	O04797
C	Water-soluble chlorophyll protein	protein	161	2% helix, 41% strand	O04797
D	Water-soluble chlorophyll protein	protein	163	2% helix, 40% strand	O04797

Ligands and binding sites

CHL · Chlorophyll B · ligand · 4 copies · chains A, B, C, D

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

Pockets

4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	742	0.76	0.80	50	CHL
2	762	0.76	0.80	52	CHL
3	179	0.42	0.73	33	empty
4	168	0.41	0.73	30	empty

Interfaces

6 interfaces between chains.

C–D · 601 Å² buried · 5 hydrogen bonds · protein-protein
A–B · 581 Å² buried · 4 hydrogen bonds · protein-protein
A–D · 388 Å² buried · 2 hydrogen bonds · protein-protein
B–C · 377 Å² buried · 2 hydrogen bonds · protein-protein
B–D · 151 Å² buried · 0 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

6GIX · Water-soluble Chlorophyll Protein (WSCP) from Lepidium virginicum (Mutation L91P) with… · 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 O04797
Elsewhere: RCSB PDB 6GIX · PDBe 6GIX · UniProt O04797

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