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Crystal structure of resistin-like beta

Analyse Crystal structure of resistin-like beta in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1RH7
Type: protein
Length: 486 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Resistin-like beta
UniProt: Q99P86
Ligands: PT
Pockets: 3 · best druggability 0.67

Structure

x-ray diffraction · 1 distinct chain · 12% helix, 44% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F	Resistin-like beta	protein	81	12% helix, 44% strand	Q99P86

Ligands and binding sites

PT · Platinum (II) ion · metal · 6 copies · chains A, B, C, D, E, F
P6G · Hexaethylene glycol · additive · 2 copies · chains B, A, C

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	359	0.67	0.81	42	empty
2	175	0.46	0.75	17	empty
3	132	0.39	0.73	16	empty

Interfaces

12 interfaces between chains.

A–C · 799 Å² buried · 11 hydrogen bonds · protein-protein
A–B · 793 Å² buried · 15 hydrogen bonds · protein-protein
B–C · 768 Å² buried · 12 hydrogen bonds · protein-protein
D–F · 765 Å² buried · 8 hydrogen bonds · protein-protein
E–F · 740 Å² buried · 9 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 31 disulfide (disulfide).

Compared structures

1RH7 · Crystal Structure of Resistin-like beta · the same entry in another collection · chain C against C, TM-score 1.00
Q99P86 · AlphaFold monomer V2.0 prediction for resistin-like beta (Q99P86) · a predicted model of the same protein · chain A against A, TM-score 0.90

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 Q99P86
Elsewhere: RCSB PDB 1RH7 · PDBe 1RH7 · UniProt Q99P86

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