SMTL ID : 4r7f.1

Crystal structure of a hypothetical protein (PARMER_01801) from Parabacteroides merdae ATCC 43184 at 2.30 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 10 residues within 4Å: Chain A: V.141, V.142, N.168, N.169, K.170, N.171, F.172 Chain B: N.151, D.153, Y.212 8 PLIP interactions: 3 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:N.151, B:D.153, B:Y.212, A:V.141, A:K.170, A:N.171, A:N.171, A:F.172 GOL.8: 10 residues within 4Å: Chain A: N.151, D.153, Y.212 Chain B: V.141, V.142, N.168, N.169, K.170, N.171, F.172 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:V.141, B:K.170, B:N.171, B:N.171, B:F.172, A:N.151

4 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.2: 6 residues within 4Å: Chain A: F.6, R.191, D.192, N.316, V.317, L.318 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:L.318, A:L.318 Water bridges: A:T.7, A:R.191, A:N.315 TRS.3: 8 residues within 4Å: Chain A: P.29, W.64, C.134, S.136, Y.186, N.189, R.191, Y.377 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:W.64, A:C.134, A:S.136, A:N.189, A:R.191, A:R.191 Water bridges: A:T.7, A:Y.377 TRS.9: 6 residues within 4Å: Chain B: F.6, R.191, D.192, N.316, V.317, L.318 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:L.318, B:L.318 Water bridges: B:T.7, B:R.191, B:N.315 TRS.10: 8 residues within 4Å: Chain B: P.29, W.64, C.134, S.136, Y.186, N.189, R.191, Y.377 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:T.7, B:W.64, B:C.134, B:S.136, B:N.189, B:R.191, B:R.191 Water bridges: B:Y.377

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

CL.4: 5 residues within 4Å: Chain A: K.182, I.183, T.196, D.197, L.198 Ligand excluded by PLIP CL.5: 2 residues within 4Å: Chain A: K.335, A.336 Ligand excluded by PLIP CL.11: 5 residues within 4Å: Chain B: K.182, I.183, T.196, D.197, L.198 Ligand excluded by PLIP CL.12: 2 residues within 4Å: Chain B: K.335, A.336 Ligand excluded by PLIP

4 x MG: MAGNESIUM ION(Non-covalent)

MG.6: 4 residues within 4Å: Chain A: E.223, D.269, D.271, Q.371 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.223, A:D.269, A:D.271, A:Q.371, H2O.7 MG.7: 1 residues within 4Å: Chain A: E.205 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:E.205, H2O.9, H2O.10, H2O.10, H2O.10 MG.13: 4 residues within 4Å: Chain B: E.223, D.269, D.271, Q.371 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.223, B:D.269, B:D.271, B:Q.371, H2O.17 MG.14: 1 residues within 4Å: Chain B: E.205 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:E.205, H2O.20, H2O.21, H2O.21, H2O.21

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joint Center for Structural Genomics (JCSG), Crystal structure of a hypothetical protein (PARMER_01801) from Parabacteroides merdae ATCC 43184 at 2.30 A resolution. To be published

Release Date

2014-12-17

Peptides

Uncharacterized protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Uncharacterized protein