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SMTL ID : 8ehf.1

Cryo-EM structure of his-elemental paused elongation complex with an unfolded TL (1)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-1-1-1-mer

Ligands

1 x 4QM: (3R,5S,7R,8R,9S,10S,12S,13R,14S,17R)-10,13-dimethyl-17-[(2R)-pentan-2-yl]-2,3,4,5,6,7,8,9,11,12,14,15,16,17-tetradecahydro-1H-cyclopenta[a]phenanthrene-3,7,12-triol(Non-covalent)

4QM.1:

11 residues within 4Å:

Chain F: Q.46, Y.47, Y.179, S.398, A.399, V.400, R.452, E.458, E.461, E.583, Y.584

10 PLIP interactions:

10 interactions with chain F

Hydrophobic interactions: F:Y.47, F:Y.47, F:A.399, F:V.400, F:Y.584
Hydrogen bonds: F:Q.46, F:S.398, F:S.398, F:A.399, F:V.400

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2:

4 residues within 4Å:

Chain C: U.19
Chain G: D.460, D.462, D.464

4 PLIP interactions:

4 interactions with chain G

Metal complexes: G:D.460, G:D.462, G:D.462, G:D.464

2 x ZN: ZINC ION(Non-covalent)

ZN.3:	4 residues within 4Å: Chain G: C.70, C.72, C.85, C.88 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:C.70, G:C.72, G:C.85, G:C.88
ZN.4:	5 residues within 4Å: Chain G: C.814, R.883, C.888, C.895, C.898 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:C.814, G:C.888, G:C.895, G:C.898

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Kang, J.Y. et al., An ensemble of interconverting conformations of the elemental paused transcription complex creates regulatory options. Proc.Natl.Acad.Sci.USA (2023)

Release Date

2023-03-01

Peptides

DNA-directed RNA polymerase subunit alpha: DE
DNA-directed RNA polymerase subunit beta: F
DNA-directed RNA polymerase subunit beta': G
DNA-directed RNA polymerase subunit omega: H

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

D
G

E
H

F
I

G
J

H
K

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

DNA-directed RNA polymerase subunit alpha

DNA-directed RNA polymerase subunit beta

DNA-directed RNA polymerase subunit beta'

DNA-directed RNA polymerase subunit omega

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