SMTL ID : 2i52.1 (3 other biounits)

Crystal structure of protein PTO0218 from Picrophilus torridus, Pfam DUF372

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.08 Å

Oligo State

homo-tetramer

Ligands

7 x CA: CALCIUM ION(Non-covalent)

CA.1: 3 residues within 4Å: Chain A: H.31, T.34 Chain D: T.34 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:T.34, H2O.4, H2O.8, H2O.12, H2O.13 CA.2: 1 residues within 4Å: Chain B: E.47 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.47, H2O.5, H2O.6 CA.3: 3 residues within 4Å: Chain B: T.34 Chain C: H.31, T.34 5 PLIP interactions: 2 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:T.34, C:T.34, H2O.2, H2O.5, H2O.12 CA.4: 2 residues within 4Å: Chain B: M.55, I.56 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:M.55, H2O.6, H2O.6, H2O.12 CA.6: 1 residues within 4Å: Chain C: E.47 5 PLIP interactions: 1 interactions with chain C, 4 Ligand-Water interactions Metal complexes: C:E.47, H2O.8, H2O.8, H2O.10, H2O.10 CA.7: 1 residues within 4Å: Chain C: N.62 No protein-ligand interaction detected (PLIP) CA.8: 1 residues within 4Å: Chain D: E.51 5 PLIP interactions: 5 Ligand-Water interactions Metal complexes: H2O.12, H2O.13, H2O.14, H2O.14, H2O.15

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 4 residues within 4Å: Chain B: T.13, D.14, I.15, K.98 Ligand excluded by PLIP

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.9: 10 residues within 4Å: Chain B: P.37, Y.79, S.81 Chain C: F.30, H.31, Y.112, P.113, M.115 Chain D: A.28, Q.57 5 PLIP interactions: 3 interactions with chain D, 1 interactions with chain B, 1 interactions with chain C Water bridges: D:I.24, D:Q.57, D:Q.57 Hydrogen bonds: B:Y.79, C:P.113 GOL.10: 8 residues within 4Å: Chain A: Y.79, S.81 Chain C: A.28, Q.57 Chain D: F.30, H.31, Y.112, P.113 5 PLIP interactions: 3 interactions with chain C, 2 interactions with chain A Water bridges: C:I.24, C:Q.57, C:Q.57 Hydrogen bonds: A:Y.79, A:S.81 GOL.11: 4 residues within 4Å: Chain D: E.90, L.101, V.103, Y.116 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ramagopal, U.A. et al., Structure of hypothetical protein PTO0218 from Picrophilus torridus. To be Published

Release Date

2006-09-12

Peptides

Hypothetical protein: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Hypothetical protein

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