SMTL ID : 8j0k.1

Crystal structure of human TFAP2A in complex with DNA

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

6 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.1: 7 residues within 4Å: Chain A: E.108, T.109, E.110, F.111, A.113, N.199, E.203 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.203 Water bridges: A:A.113, A:A.113, A:N.199 PGE.2: 7 residues within 4Å: Chain A: V.97, L.151, A.152, D.154, S.187, P.188, C.191 No protein-ligand interaction detected (PLIP) PGE.5: 6 residues within 4Å: Chain B: P.39, P.40, S.173, T.176, H.177, L.180 No protein-ligand interaction detected (PLIP) PGE.6: 7 residues within 4Å: Chain B: V.97, L.151, A.152, S.187, P.188, C.191 Ligands: PG3.7 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.101 Water bridges: B:N.179 PGE.8: 6 residues within 4Å: Chain A: M.136, A.139 Chain B: T.132, N.135, M.136, A.139 No protein-ligand interaction detected (PLIP) PGE.9: 5 residues within 4Å: Chain B: N.44, S.46, A.77, K.81 Chain C: T.2 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.44, B:S.46 Water bridges: B:S.46

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain A: P.39, P.40, S.173, H.177 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.173, A:H.177 GOL.10: 7 residues within 4Å: Chain A: V.85, T.86, L.87 Chain B: S.22, T.23, H.98, D.102 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:S.22 Water bridges: B:L.19, A:T.86

2 x PG3: GUANIDINE-3-PROPANOL(Non-covalent)

PG3.4: 6 residues within 4Å: Chain A: P.40, E.41, C.42, R.79, R.80, A.82 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:R.80 Hydrogen bonds: A:P.40, A:P.40, A:R.80 PG3.7: 7 residues within 4Å: Chain B: R.101, G.104, P.188, C.191, A.192, T.195 Ligands: PGE.6 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.101, B:R.101, B:G.104 Water bridges: B:Y.105, B:Y.105

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, K. et al., Structural basis for specific DNA sequence motif recognition by the TFAP2 transcription factors. Nucleic Acids Res. (2023)

Release Date

2023-07-05

Peptides

Transcription factor AP-2-alpha: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Transcription factor AP-2-alpha

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