SMTL ID : 8yqz.1

African swine fever virus RNA Polymerase--DNA complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-1-1-1-1-mer

Ligands

1 x DG- DC- DC- DG- DA- DG- DC- DA: DNA (5'-D(P*GP*CP*CP*GP*AP*GP*CP*A)-3')(Non-covalent)

DG-DC-DC-DG-DA-DG-DC-DA.1: 10 residues within 4Å: Chain A: R.305, K.306 Chain B: N.225, E.226 Ligands: DT-DC-DG-DG-DC-DT-DC.2, DT-DC-DG-DG-DC-DT-DC.2, DT-DC-DG-DG-DC-DT-DC.2, DT-DC-DG-DG-DC-DT-DC.2, DT-DC-DG-DG-DC-DT-DC.2, DT-DC-DG-DG-DC-DT-DC.2 Protein-ligand interaction information (PLIP) not available

1 x DT- DC- DG- DG- DC- DT- DC: DNA (5'-D(P*TP*CP*GP*GP*CP*TP*C)-3')(Non-covalent)

DT-DC-DG-DG-DC-DT-DC.2: 9 residues within 4Å: Chain B: R.410, E.537, R.538 Ligands: DG-DC-DC-DG-DA-DG-DC-DA.1, DG-DC-DC-DG-DA-DG-DC-DA.1, DG-DC-DC-DG-DA-DG-DC-DA.1, DG-DC-DC-DG-DA-DG-DC-DA.1, DG-DC-DC-DG-DA-DG-DC-DA.1, DG-DC-DC-DG-DA-DG-DC-DA.1 Protein-ligand interaction information (PLIP) not available

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 3 residues within 4Å: Chain A: D.457, D.459, D.461 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.457, A:D.459, A:D.461

4 x ZN: ZINC ION(Non-covalent)

ZN.4: 4 residues within 4Å: Chain A: C.59, C.62, C.69, H.72 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.59, A:C.62, A:C.69, A:H.72 ZN.5: 4 residues within 4Å: Chain B: C.1180, C.1183, C.1198, C.1201 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.1180, B:C.1183, B:C.1198, B:C.1201 ZN.6: 4 residues within 4Å: Chain G: C.73, C.76, C.96, C.98 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:C.73, G:C.76, G:C.96, G:C.98 ZN.7: 4 residues within 4Å: Chain H: C.7, C.10, C.65, C.66 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:C.7, H:C.10, H:C.65, H:C.66

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Feng, X.Y., Regulation of early transcription and late transcript processing enzymes packaging for African swine fever virus from endogenous vRNAP-M1249L supercomplex structures. To Be Published

Release Date

2024-11-06

Peptides

DNA-directed RNA polymerase subunit: A
DNA-directed RNA polymerase subunit beta: B
DNA-directed RNA polymerase RPB3-11 homolog: C
DNA-directed RNA polymerase RPB5 homolog: D
C147L: E
D339L: F
C122R: G
DNA-directed RNA polymerase RPB10 homolog: H

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

DNA-directed RNA polymerase subunit

DNA-directed RNA polymerase subunit beta

DNA-directed RNA polymerase RPB3-11 homolog

DNA-directed RNA polymerase RPB5 homolog

C147L

D339L

C122R

DNA-directed RNA polymerase RPB10 homolog

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