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NIC96 from S. cerevisiae bound by vhh-SAN12

Analyse NIC96 from S. cerevisiae bound by vhh-SAN12 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6X07
Type: protein
Length: 730 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Nucleoporin NIC96; Vhh-SAN12
UniProt: P34077
Pockets: 8 · best druggability 0.58

Structure

x-ray diffraction · 2 distinct chains · 59% helix, 9% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Nucleoporin NIC96	protein	613	68% helix, 2% strand	P34077
B	Vhh-SAN12	protein	117	8% helix, 49% strand	—

Pockets

8 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	142	0.58	0.83	33	empty
2	237	0.54	0.77	30	empty
3	75	0.44	0.81	18	empty
4	98	0.35	0.74	19	empty
5	70	0.35	0.76	14	empty

Interfaces

1 interface between chains.

A–B · 702 Å² buried · 9 hydrogen bonds · protein-protein

Compared structures

6X07 · Nic96 from S. cerevisiae bound by VHH-SAN12 · the same entry in another collection · chain A against A, TM-score 1.00
P34077 · AlphaFold monomer V2.0 prediction for nucleoporin NIC96 (P34077) · a predicted model of the same protein · chain A against A, TM-score 0.89

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 P34077
Elsewhere: RCSB PDB 6X07 · PDBe 6X07 · UniProt P34077

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