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Crystal structure of moad related protein from thermus thermophilus HB8

Analyse Crystal structure of moad related protein from thermus thermophilus HB8 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1V8C
Type: protein
Length: 655 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Moad related protein
UniProt: P83826
Ligands: CL
Pockets: 7 · best druggability 0.85

Structure

x-ray diffraction · 2 distinct chains · 32% helix, 39% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, C, D	Moad related protein	protein	165	32% helix, 39% strand	P83826
B	Moad related protein	protein	160	33% helix, 39% strand	P83826

Ligands and binding sites

CL · Chloride ion · ion · 2 copies · chains A, C, B, D
EDO · 1,2-ethanediol · additive · chains A, C

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1054	0.85	0.86	85	empty
2	625	0.74	0.81	80	empty
3	384	0.62	0.78	43	empty
4	132	0.57	0.83	24	CL, EDO
5	89	0.48	0.82	16	CL

Interfaces

5 interfaces between chains.

A–B · 860 Å² buried · 4 hydrogen bonds · protein-protein
C–D · 841 Å² buried · 4 hydrogen bonds · protein-protein
A–C · 683 Å² buried · 11 hydrogen bonds · protein-protein
B–D · 658 Å² buried · 10 hydrogen bonds · protein-protein
B–C · 87 Å² buried · 0 hydrogen bonds · protein-protein

Compared structures

1V8C · Crystal Structure of MoaD related protein from Thermus thermophilus HB8 · 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 P83826
Elsewhere: RCSB PDB 1V8C · PDBe 1V8C · UniProt P83826

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