2D8U | pdb_00002d8u

Solution structure of the B-box domain of the human tripartite motif-containing 63 protein

PDB DOI: https://doi.org/10.2210/pdb2D8U/pdb
BMRB: 11327

Classification: LIGASE
Organism(s): Homo sapiens
Mutation(s): No

Deposited: 2005-12-08 Released: 2006-06-08
Deposition Author(s): Miyamoto, K., Kigawa, T., Tomizawa, T., Koshiba, S., Inoue, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Experimental Data Snapshot

Method: SOLUTION NMR
Conformers Calculated: 100
Conformers Submitted: 20
Selection Criteria: target function, structures with the least restraint violations

wwPDB Validation 3D Report Full Report

Validation slider image for 2D8U

This is version 1.4 of the entry. See complete history.

Literature

Solution structure of the B-box domain of the human tripartite motif-containing 63 protein

Miyamoto, K., Kigawa, T., Tomizawa, T., Koshiba, S., Inoue, M., Yokoyama, S.

To be published.

Macromolecule Content

Total Structure Weight: 6.92 kDa
Atom Count: 469
Modeled Residue Count: 64
Deposited Residue Count: 64
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ubiquitin ligase TRIM63	A	64	Homo sapiens	Mutation(s): 0 Gene Names: TRIM63 EC: 6.3.2 (PDB Primary Data), 2.3.2.27 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for Q969Q1 (Homo sapiens) Explore Q969Q1 Go to UniProtKB: Q969Q1
PHAROS: Q969Q1 GTEx: ENSG00000158022
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q969Q1
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ZN Query on ZN Download:Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain B [auth A] MOL2 format, chain C [auth A] MOL2 format, chain B [auth A] mmCIF format, chain C [auth A] mmCIF format, chain B [auth A]	B [auth A], C [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Focus chain C [auth A]

Experimental Data & Validation

Experimental Data

Method: SOLUTION NMR
Conformers Calculated: 100
Conformers Submitted: 20
Selection Criteria: target function, structures with the least restraint violations

Structure Validation

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Entry History

Deposition Data

Released Date: 2006-06-08

Deposition Author(s):

RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History (Full details and data files)

Version 1.0: 2006-06-08
Type: Initial release
Version 1.1: 2008-04-30
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2022-03-09
Changes: Data collection, Database references, Derived calculations
Version 1.4: 2024-05-29
Changes: Data collection

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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.