MolNFT v1 · #68610 · protein

Structure of ompf porin

3K1B · Outer membrane protein F: “Structure of ompf porin”. X-ray diffraction, 13 pockets (best druggability 0.75). MolNFT v1 #68610 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 3K1B
Type: protein
Length: 1,360 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Outer membrane protein F
UniProt: P02931
Pockets: 13 · best druggability 0.75

Structure

x-ray diffraction · 1 distinct chain · 4% helix, 54% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D	Outer membrane protein F	protein	340	4% helix, 54% strand	P02931

Pockets

13 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	61	0.75	0.99	27	empty
2	989	0.70	0.74	67	empty
3	874	0.69	0.75	75	empty
4	955	0.69	0.74	67	empty
5	781	0.67	0.74	59	empty

Interfaces

5 interfaces between chains.

A–C · 1534 Å² buried · 18 hydrogen bonds · protein-protein
A–B · 1524 Å² buried · 22 hydrogen bonds · protein-protein
B–C · 1512 Å² buried · 15 hydrogen bonds · protein-protein
B–D · 328 Å² buried · 6 hydrogen bonds · protein-protein
C–D · 24 Å² buried · 0 hydrogen bonds · protein-protein

Compared structures

3K1B · Structure of OmpF porin · the same entry in another collection · chain A against A, TM-score 1.00
P02931 · AlphaFold monomer V2.0 prediction for outer membrane porin F (P02931) · a predicted model of the same protein · chain A against A, TM-score 0.99

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 P02931
Elsewhere: RCSB PDB 3K1B · PDBe 3K1B · UniProt P02931

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