8QLN | pdb_00008qln

Crystal structure of an N-terminal fragment of HCMV UL47

PDB DOI: https://doi.org/10.2210/pdb8QLN/pdb

Classification: VIRAL PROTEIN
Organism(s): Human herpesvirus 5 strain AD169
Expression System: Spodoptera frugiperda
Mutation(s): Yes

Deposited: 2023-09-20 Released: 2024-10-02
Deposition Author(s): Rehfeld, C.L., Reubold, T.F., Eschenburg, S.
Funding Organization(s): German Research Foundation (DFG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.51 Å
R-Value Free:
0.251 (Depositor), 0.250 (DCC)
R-Value Work:
0.214 (Depositor), 0.213 (DCC)
R-Value Observed:
0.216 (Depositor)

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Ligand Structure Quality Assessment

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Literature

Crystal structure of an N-terminal fragment of HCMV UL47

Rehfeld, C.L., Reubold, T.F., Eschenburg, S.

To be published.

Macromolecule Content

Total Structure Weight: 63.8 kDa
Atom Count: 3,870
Modeled Residue Count: 466
Deposited Residue Count: 546
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Inner tegument protein	A	546	Human herpesvirus 5 strain AD169	Mutation(s): 7 Gene Names: UL47
UniProt
Find proteins for P16784 (Human cytomegalovirus (strain AD169)) Explore P16784 Go to UniProtKB: P16784
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P16784
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
TEW Query on TEW Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	6-tungstotellurate(VI) O₂₄ Te W₆ JDLYBIMRCSJRQJ-UHFFFAOYSA-M		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.51 Å
R-Value Free: 0.251 (Depositor), 0.250 (DCC)
R-Value Work: 0.214 (Depositor), 0.213 (DCC)
R-Value Observed: 0.216 (Depositor)

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.96	α = 90
b = 64.96	β = 90
c = 265.67	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
CRANK2	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2024-10-02

Deposition Author(s):

Funding Organization	Location	Grant Number
German Research Foundation (DFG)	Germany	EXC 2155 RESIST Project ID 390874280

Revision History (Full details and data files)

Version 1.0: 2024-10-02
Type: Initial release

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.