Research workbench

Human DDAH-1, apo form

Analyse Human DDAH-1, apo form in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7UT0
Type: protein
Length: 566 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v2 / PDB Bank
Contract: 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner: 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution: 1.68
Source: Homo sapiens
Molecule: N(G),N(G)-dimethylarginine dimethylaminohydrolase 1
EC: 3.5.3.18
UniProt: O94760
Pockets: 7 · best druggability 0.83

Structure

x-ray diffraction · resolution 1.68 · 2 distinct chains · 33% helix, 24% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	N(G),N(G)-dimethylarginine dimethylaminohydrolase 1 (EC 3.5.3.18)	protein	284	32% helix, 24% strand	O94760
B	N(G),N(G)-dimethylarginine dimethylaminohydrolase 1 (EC 3.5.3.18)	protein	282	33% helix, 24% strand	O94760

Ligands and binding sites

EDO · 1,2-ethanediol · additive · 2 copies · chains A, B

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

Pockets

7 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	376	0.83	0.91	35	empty
2	381	0.82	0.91	34	empty
3	365	0.66	0.80	54	empty
4	155	0.57	0.82	32	empty
5	169	0.46	0.76	22	empty

Interfaces

1 interface between chains.

A–B · 555 Å² buried · 11 hydrogen bonds · protein-protein

Compared structures

7UT0 · Human ddah-1, apo form · the same entry in another collection · chain A against A, TM-score 1.00
O94760 · AlphaFold monomer V2.0 prediction for N(G),N(G)-dimethylarginine dimethylaminohydrolase 1… · a predicted model of the same protein · chain B against A, TM-score 0.97

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 O94760
Elsewhere: RCSB PDB 7UT0 · PDBe 7UT0 · UniProt O94760

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