MolNFT v1 · #159035 · protein

HMP42 Fab in complex with protein G

6OC7 · Heavy chain of HMP42 Fab: “HMP42 Fab in complex with protein G”. X-ray diffraction, 5 pockets (best druggability 0.51). MolNFT v1 #159035 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6OC7
Type: protein
Length: 489 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Heavy chain of HMP42 Fab; Light chain for HMP42 Fab; Immunoglobulin G-binding protein G
UniProt: P19909
Pockets: 5 · best druggability 0.51

Structure

x-ray diffraction · 3 distinct chains · 11% helix, 50% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
H	Heavy chain of HMP42 Fab	protein	219	10% helix, 52% strand	—
L	Light chain for HMP42 Fab	protein	212	8% helix, 49% strand	—
C	Immunoglobulin G-binding protein G	protein	58	24% helix, 47% strand	P19909

Pockets

5 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	138	0.51	0.80	36	empty
2	291	0.50	0.74	40	empty
3	103	0.37	0.75	18	empty
4	94	0.34	0.74	17	empty
5	105	0.34	0.73	18	empty

Interfaces

3 interfaces between chains.

H–L · 1725 Å² buried · 14 hydrogen bonds · protein-protein
H–C · 534 Å² buried · 14 hydrogen bonds · protein-protein
L–C · 170 Å² buried · 0 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 5 disulfide (disulfide).

Compared structures

6OC7 · HMP42 Fab in complex with Protein G · the same entry in another collection · chain H against H, TM-score 1.00
P19909 · AlphaFold monomer V2.0 prediction for immunoglobulin G-binding protein G (P19909) · a predicted model of the same protein · chain C against A, TM-score 0.95

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 P19909
Elsewhere: RCSB PDB 6OC7 · PDBe 6OC7 · UniProt P19909

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