MolNFT v1 · #17219 · protein + DNA

Conjugative relaxase trwc in complex with orit DNA. metal-free structure.

1OMH · DNA oligonucleotide: “Conjugative relaxase trwc in complex with orit DNA. metal-free structure.”. X-ray diffraction, 1 ligand (SO4), 3 pockets (best druggability 0.57). MolNFT v1 #17219 on GenesisL1: 3D structure, binding sites and…

PDB: 1OMH
Type: protein + DNA
Length: 307 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: DNA oligonucleotide; Trwc protein
UniProt: Q47673
Ligands: SO4
Pockets: 3 · best druggability 0.57

Structure

x-ray diffraction · 2 distinct chains · 41% helix, 22% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
B	DNA oligonucleotide	dna	25	—	—
A	Trwc protein	protein	282	41% helix, 22% strand	Q47673

Ligands and binding sites

SO4 · Sulfate ion · ion · 3 copies · chains B, A

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

Pockets

3 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	298	0.57	0.77	27	empty
2	86	0.53	0.85	18	empty
3	145	0.49	0.78	28	SO4

Interfaces

1 interface between chains.

B–A · 2261 Å² buried · 61 hydrogen bonds · protein-nucleic

Modifications

Observed in the structure: 4 modified (engineered).

Compared structures

1OMH · Conjugative Relaxase TrwC in complex with OriT Dna. Metal-free structure. · the same entry in another collection · chain B against B, 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 Q47673
Elsewhere: RCSB PDB 1OMH · PDBe 1OMH · UniProt Q47673

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