4G3O | pdb_00004g3o

Crystal structure of the CUE domain of the E3 ubiquitin ligase AMFR (gp78)

PDB DOI: https://doi.org/10.2210/pdb4G3O/pdb

Classification: LIGASE
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21
Mutation(s): No

Deposited: 2012-07-15 Released: 2012-07-25
Deposition Author(s): Kozlov, G., LePage, K., Gehring, K.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.60 Å
R-Value Free:
0.186 (Depositor), 0.194 (DCC)
R-Value Work:
0.159 (Depositor), 0.163 (DCC)
R-Value Observed:
0.160 (Depositor)

Starting Model: experimental
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This is version 1.1 of the entry. See complete history.

Literature

Crystal structure of the CUE domain of the E3 ubiquitin ligase AMFR (gp78)

Kozlov, G., LePage, K., Gehring, K.

To be published.

Macromolecule Content

Total Structure Weight: 6.66 kDa
Atom Count: 485
Modeled Residue Count: 53
Deposited Residue Count: 58
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
E3 ubiquitin-protein ligase AMFR	A	58	Homo sapiens	Mutation(s): 0 Gene Names: AMFR, RNF45 EC: 6.3.2 (PDB Primary Data), 2.3.2.36 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UKV5 (Homo sapiens) Explore Q9UKV5 Go to UniProtKB: Q9UKV5
PHAROS: Q9UKV5 GTEx: ENSG00000159461
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9UKV5
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.60 Å
R-Value Free: 0.186 (Depositor), 0.194 (DCC)
R-Value Work: 0.159 (Depositor), 0.163 (DCC)
R-Value Observed: 0.160 (Depositor)

Space Group: P 6₅

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 55.396	α = 90
b = 55.396	β = 90
c = 30.993	γ = 120

Software Package:

Software Name	Purpose
ADSC	data collection
PHASER	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2012-07-25

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2012-07-25
Type: Initial release
Version 1.1: 2023-09-13
Changes: Data collection, Database references, Refinement description

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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.