MolNFT v1 · #20960 · protein

Fab complexed with intact human rhinovirus

1RVF · Human rhinovirus 14 coat protein: “Fab complexed with intact human rhinovirus”. X-ray diffraction, 18 pockets (best druggability 0.78). MolNFT v1 #20960 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 1RVF
Type: protein
Length: 1,033 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Human rhinovirus 14 coat protein; Fab 17-ia
UniProt: P03303
Pockets: 18 · best druggability 0.78

Structure

x-ray diffraction · 6 distinct chains · 7% helix, 28% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
1	Human rhinovirus 14 coat protein	protein	273	8% helix, 29% strand	P03303
2	Human rhinovirus 14 coat protein	protein	255	10% helix, 25% strand	P03303
3	Human rhinovirus 14 coat protein	protein	236	9% helix, 25% strand	P03303
4	Human rhinovirus 14 coat protein	protein	40	10% helix, 3% strand	P03303
L	Fab 17-ia	protein	110	0% helix, 38% strand	—
H	Fab 17-ia	protein	119	3% helix, 34% strand	—

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	141	0.78	0.95	29	empty
2	792	0.71	0.77	85	empty
3	73	0.59	0.89	21	empty
4	163	0.49	0.77	19	empty
5	127	0.46	0.78	23	empty

Interfaces

11 interfaces between chains.

1–3 · 4125 Å² buried · 64 hydrogen bonds · protein-protein
1–2 · 2085 Å² buried · 35 hydrogen bonds · protein-protein
2–3 · 1692 Å² buried · 12 hydrogen bonds · protein-protein
1–4 · 921 Å² buried · 13 hydrogen bonds · protein-protein
3–4 · 877 Å² buried · 13 hydrogen bonds · protein-protein

Compared structures

1RVF · Fab complexed with intact human rhinovirus · the same entry in another collection · chain 1 against 1, 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 P03303
Elsewhere: RCSB PDB 1RVF · PDBe 1RVF · UniProt P03303

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