SMTL ID : 5ko9.1

Crystal Structure of the SRAP Domain of Human HMCES Protein

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

44 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.1: 4 residues within 4Å: Chain A: C.2, T.199, P.214 Ligands: UNX.16 Ligand excluded by PLIP UNX.2: 6 residues within 4Å: Chain A: R.130, C.131, T.134, N.135, Q.136, R.137 Ligand excluded by PLIP UNX.3: 5 residues within 4Å: Chain A: P.10, R.11, Y.38, P.40 Ligands: UNX.8 Ligand excluded by PLIP UNX.4: 4 residues within 4Å: Chain A: K.239, H.242 Ligands: UNX.5, UNX.6 Ligand excluded by PLIP UNX.5: 3 residues within 4Å: Chain A: A.222, L.240 Ligands: UNX.4 Ligand excluded by PLIP UNX.6: 4 residues within 4Å: Chain A: K.239 Ligands: UNX.4, UNX.7, UNX.23 Ligand excluded by PLIP UNX.7: 2 residues within 4Å: Ligands: UNX.6, UNX.31 Ligand excluded by PLIP UNX.8: 3 residues within 4Å: Chain A: P.10, P.40 Ligands: UNX.3 Ligand excluded by PLIP UNX.9: 5 residues within 4Å: Chain A: C.39, S.41, K.44, S.48 Ligands: UNX.10 Ligand excluded by PLIP UNX.10: 5 residues within 4Å: Chain A: N.43, K.44, S.45, S.48 Ligands: UNX.9 Ligand excluded by PLIP UNX.11: 4 residues within 4Å: Chain A: R.11, D.12, T.15, W.32 Ligand excluded by PLIP UNX.12: 3 residues within 4Å: Chain A: P.139, S.254 Ligands: UNX.13 Ligand excluded by PLIP UNX.13: 4 residues within 4Å: Chain A: R.137, P.139, N.257 Ligands: UNX.12 Ligand excluded by PLIP UNX.14: 3 residues within 4Å: Chain A: D.62 Ligands: UNX.15, UNX.39 Ligand excluded by PLIP UNX.15: 2 residues within 4Å: Ligands: UNX.14, UNX.39 Ligand excluded by PLIP UNX.16: 6 residues within 4Å: Chain A: C.2, T.199, R.212, M.213, P.214 Ligands: UNX.1 Ligand excluded by PLIP UNX.17: 5 residues within 4Å: Chain A: N.257, N.258, S.259 Ligands: UNX.19, UNX.20 Ligand excluded by PLIP UNX.18: 3 residues within 4Å: Chain A: S.259 Ligands: UNX.19, UNX.20 Ligand excluded by PLIP UNX.19: 3 residues within 4Å: Ligands: UNX.17, UNX.18, UNX.20 Ligand excluded by PLIP UNX.20: 4 residues within 4Å: Chain A: S.259 Ligands: UNX.17, UNX.18, UNX.19 Ligand excluded by PLIP UNX.21: 1 residues within 4Å: Chain A: V.270 Ligand excluded by PLIP UNX.22: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP UNX.23: 3 residues within 4Å: Chain A: K.239, H.242 Ligands: UNX.6 Ligand excluded by PLIP UNX.24: 3 residues within 4Å: Chain A: M.103, T.234 Ligands: UNX.26 Ligand excluded by PLIP UNX.25: 4 residues within 4Å: Chain A: M.103, K.109, G.113 Ligands: UNX.26 Ligand excluded by PLIP UNX.26: 4 residues within 4Å: Chain A: G.113, T.234 Ligands: UNX.24, UNX.25 Ligand excluded by PLIP UNX.27: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP UNX.28: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP UNX.29: 1 residues within 4Å: Chain A: V.13 Ligand excluded by PLIP UNX.30: 2 residues within 4Å: Chain A: R.11, D.12 Ligand excluded by PLIP UNX.31: 3 residues within 4Å: Chain A: E.236, L.240 Ligands: UNX.7 Ligand excluded by PLIP UNX.32: 2 residues within 4Å: Chain A: T.199, R.212 Ligand excluded by PLIP UNX.33: 4 residues within 4Å: Chain A: R.98, D.201, R.212 Ligands: UNX.34 Ligand excluded by PLIP UNX.34: 4 residues within 4Å: Chain A: R.98, H.211, R.212 Ligands: UNX.33 Ligand excluded by PLIP UNX.35: 4 residues within 4Å: Chain A: S.202, S.207 Ligands: UNX.36, UNX.38 Ligand excluded by PLIP UNX.36: 3 residues within 4Å: Chain A: D.201 Ligands: UNX.35, UNX.38 Ligand excluded by PLIP UNX.37: 4 residues within 4Å: Chain A: S.207, H.210, H.211 Ligands: UNX.38 Ligand excluded by PLIP UNX.38: 4 residues within 4Å: Chain A: H.211 Ligands: UNX.35, UNX.36, UNX.37 Ligand excluded by PLIP UNX.39: 2 residues within 4Å: Ligands: UNX.14, UNX.15 Ligand excluded by PLIP UNX.40: 3 residues within 4Å: Chain A: Q.235, E.236 Ligands: UNX.41 Ligand excluded by PLIP UNX.41: 3 residues within 4Å: Chain A: S.233, E.236 Ligands: UNX.40 Ligand excluded by PLIP UNX.42: 4 residues within 4Å: Chain A: E.231, V.232, S.233, E.236 Ligand excluded by PLIP UNX.43: 3 residues within 4Å: Chain A: S.85, E.187 Ligands: UNX.44 Ligand excluded by PLIP UNX.44: 3 residues within 4Å: Chain A: E.187, G.188 Ligands: UNX.43 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Halabelian, L. et al., Structural basis of HMCES interactions with abasic DNA and multivalent substrate recognition. Nat.Struct.Mol.Biol. (2019)

Release Date

2016-08-24

Peptides

Embryonic stem cell-specific 5-hydroxymethylcytosine-binding protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Embryonic stem cell-specific 5-hydroxymethylcytosine-binding protein