SMTL ID : 8w9z.1

The cryo-EM structure of the Nicotiana tabacum PEP-PAP

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-1-1-1-1-1-1-1-1-1-1-1-1-1-2-1-1-1-mer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain C: E.535, H.536, D.888, E.889, S.896 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:E.535, C:H.536, C:D.888, C:E.889, C:S.896

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain D: D.496, D.498, D.500 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:D.496, D:D.498, D:D.498, D:D.500

2 x FE: FE (III) ION(Non-covalent)

FE.3: 4 residues within 4Å: Chain I: H.77, H.130, D.214, H.218 4 PLIP interactions: 4 interactions with chain I Metal complexes: I:H.77, I:H.130, I:D.214, I:H.218 FE.4: 4 residues within 4Å: Chain O: H.73, H.125, D.224, H.228 4 PLIP interactions: 4 interactions with chain O Metal complexes: O:H.73, O:H.125, O:D.224, O:H.228

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wu, X.X. et al., Cryo-EM structures of the plant plastid-encoded RNA polymerase. Cell (2024)

Release Date

2024-03-13

Peptides

DNA-directed RNA polymerase subunit alpha: AB
DNA-directed RNA polymerase subunit beta: C
DNA-directed RNA polymerase subunit gamma: D
DNA-directed RNA polymerase subunit beta'': E
PAP1(pTAC3): F
Pentatricopeptide repeat-containing protein At1g74850, chloroplastic-like: G
Protein PLASTID TRANSCRIPTIONALLY ACTIVE 10-like: H
superoxide dismutase: I
Protein PLASTID TRANSCRIPTIONALLY ACTIVE 12-like: J
Fructokinase-like 1, chloroplastic: K
Fructokinase-like 2, chloroplastic: L
Protein PLASTID TRANSCRIPTIONALLY ACTIVE 14-like isoform X2: M
PAP8(pTAC6): N
superoxide dismutase: O
Thioredoxin-like protein CITRX1, chloroplastic: PQ
UDP-N-acetylmuramoyl-L-alanyl-D-glutamate--2, 6-diaminopimelate ligase-like: R
Protein PLASTID TRANSCRIPTIONALLY ACTIVE 7-like isoform X1: S
PAP13(pTAC18): T

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
a

C
B

D
C

E
c

F
D

G
E

H
F

I
G

J
H

K
I

L
i

M
J

N
K

O
L

P
M

Q
m

R
N

S
O

T
P

DNA-directed RNA polymerase subunit alpha

DNA-directed RNA polymerase subunit beta

DNA-directed RNA polymerase subunit gamma

DNA-directed RNA polymerase subunit beta''

PAP1(pTAC3)

Pentatricopeptide repeat-containing protein At1g74850, chloroplastic-like

Protein PLASTID TRANSCRIPTIONALLY ACTIVE 10-like

superoxide dismutase

Protein PLASTID TRANSCRIPTIONALLY ACTIVE 12-like

Fructokinase-like 1, chloroplastic

Fructokinase-like 2, chloroplastic

Protein PLASTID TRANSCRIPTIONALLY ACTIVE 14-like isoform X2

PAP8(pTAC6)

superoxide dismutase

Thioredoxin-like protein CITRX1, chloroplastic

UDP-N-acetylmuramoyl-L-alanyl-D-glutamate--2, 6-diaminopimelate ligase-like

Protein PLASTID TRANSCRIPTIONALLY ACTIVE 7-like isoform X1

PAP13(pTAC18)

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