MolNFT v1 · #7361 · protein + DNA

NMR structure of the mu bacteriophage repressor DNA-binding DOMAIN/DNA complex

1G4D · 5'-D(P*CP*CP*TP*TP*TP*TP*CP*AP*GP*TP*AP*AP*TP*CP*TP*G)-3': “NMR structure of the mu bacteriophage repressor DNA-binding DOMAIN/DNA complex”. Solution nmr, 2 pockets (best druggability 0.37). MolNFT v1 #7361 on GenesisL1: 3D…

PDB: 1G4D
Type: protein + DNA
Length: 101 residues
Chains: 3
Method: solution nmr
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 5'-D(P*CP*CP*TP*TP*TP*TP*CP*AP*GP*TP*AP*AP*TP*CP*TP*G)-3'…
UniProt: P06019
Pockets: 2 · best druggability 0.37

Structure

solution nmr · 3 distinct chains · 45% helix, 10% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
B	5'-D(PCPCPTPTPTPTPCPAPGPTPAPAPTPCPTPG)-3'	dna	16	—	—
C	5'-D(PCPAPGPAPTPTPAPCPTPGPAPAPAPAPGPG)-3'	dna	16	—	—
A	Repressor protein C	protein	69	45% helix, 10% strand	P06019

Pockets

2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	59	0.37	0.79	13	empty
2	63	0.31	0.75	14	empty

Interfaces

3 interfaces between chains.

B–C · 722 Å² buried · 58 hydrogen bonds · nucleic-nucleic
B–A · 509 Å² buried · 4 hydrogen bonds · protein-nucleic
C–A · 457 Å² buried · 5 hydrogen bonds · protein-nucleic

Compared structures

1G4D · NMR structure of the mu bacteriophage repressor DNA-binding DOMAIN/DNA complex · 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 P06019
Elsewhere: RCSB PDB 1G4D · PDBe 1G4D · UniProt P06019

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