SMTL ID : 6y32.1 (3 other biounits)

Structure of the GTPase heterodimer of human SRP54 and SRalpha

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-1-1-mer

Ligands

2 x GNP: PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER(Non-covalent)

GNP.1: 24 residues within 4Å: Chain A: L.117, Q.118, G.119, S.120, G.121, K.122, T.123, T.124, K.128, D.146, R.149, Q.155, G.201, K.257, D.259, G.282, T.283, G.284, E.285 Chain B: N.98, R.129, M.196 Ligands: MG.2, GNP.3 25 PLIP interactions: 23 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:G.119, A:S.120, A:G.121, A:K.122, A:K.122, A:K.122, A:T.123, A:T.123, A:T.124, A:K.128, A:R.149, A:Q.155, A:Q.155, A:G.201, A:K.257, A:K.257, A:G.284, A:E.285, B:N.98, B:N.98 Water bridges: A:T.124, A:D.146, A:E.285 Salt bridges: A:D.259, A:E.285 GNP.3: 26 residues within 4Å: Chain A: Q.118, G.119, R.149 Chain B: V.97, N.98, G.99, V.100, G.101, K.102, S.103, T.104, N.105, K.108, D.126, R.129, Q.135, G.194, K.260, D.262, T.263, G.286, T.287, G.288, Q.289 Ligands: GNP.1, MG.4 27 PLIP interactions: 20 interactions with chain B, 7 interactions with chain A Hydrogen bonds: B:N.98, B:G.99, B:V.100, B:G.101, B:K.102, B:K.102, B:K.102, B:S.103, B:T.104, B:T.104, B:T.104, B:N.105, B:K.108, B:D.126, B:R.129, B:Q.135, B:G.194, B:K.260, B:G.288, A:Q.118 Salt bridges: B:D.262, A:R.149 Water bridges: A:R.149, A:R.149, A:R.149, A:R.149 pi-Cation interactions: A:H.203

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain A: T.123 Ligands: GNP.1 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.123, H2O.1, H2O.1, H2O.1 MG.4: 4 residues within 4Å: Chain B: S.103, R.129, D.191 Ligands: GNP.3 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:S.103, H2O.3, H2O.4, H2O.4

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.5: 2 residues within 4Å: Chain B: R.295, S.296 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.296 SO4.6: 1 residues within 4Å: Chain B: R.295 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.295 SO4.7: 2 residues within 4Å: Chain B: T.138, R.141 3 PLIP interactions: 3 interactions with chain B Water bridges: B:T.138, B:T.138 Salt bridges: B:R.141

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Juaire, K.D. et al., Structural and Functional Impact of SRP54 Mutations Causing Severe Congenital Neutropenia. Structure (2021)

Release Date

2020-09-23

Peptides

Signal recognition particle 54 kDa protein: A
Signal recognition particle receptor subunit alpha: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Signal recognition particle 54 kDa protein

Signal recognition particle receptor subunit alpha

Related Entries With Identical Sequence