SMTL ID : 7ubk.1

Transcription antitermination factor Qlambda, type-II crystal

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.97 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 8 residues within 4Å: Chain A: C.58, D.60, C.61, G.65, C.84, R.86, C.87, G.91 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.58, A:C.61, A:C.84, A:C.87 ZN.4: 7 residues within 4Å: Chain B: C.58, D.60, C.61, G.65, C.84, R.86, C.87 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.58, B:C.61, B:C.84, B:C.87

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 4 residues within 4Å: Chain A: Y.9, Q.12, F.13, K.16 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.13, A:K.16

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 3 residues within 4Å: Chain A: M.11, Q.12, H.15 No protein-ligand interaction detected (PLIP) EDO.8: 7 residues within 4Å: Chain B: D.2, K.5, A.6, Y.9, E.134, S.136, I.137 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.2 Water bridges: B:E.134 EDO.9: 7 residues within 4Å: Chain B: G.55, A.56, R.57, C.58, R.59, R.86, S.93 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:A.56, B:R.59, B:S.93

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

CL.5: 2 residues within 4Å: Chain B: R.59, R.86 Ligand excluded by PLIP CL.6: 1 residues within 4Å: Chain B: R.86 Ligand excluded by PLIP

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.7: 5 residues within 4Å: Chain B: Y.9, Q.12, F.13, K.16, Q.130 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.12, B:K.16

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yin, Z. et al., In transcription antitermination by Q lambda , NusA induces refolding of Q lambda to form a nozzle that extends the RNA polymerase RNA-exit channel. Proc.Natl.Acad.Sci.USA (2022)

Release Date

2022-09-28

Peptides

Antitermination protein Q: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Antitermination protein Q

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