1T2J | pdb_00001t2j

Crystal structure of a Human VH domain

PDB DOI: https://doi.org/10.2210/pdb1T2J/pdb

Classification: IMMUNE SYSTEM
Organism(s): Homo sapiens
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2004-04-21 Released: 2005-05-03
Deposition Author(s): Gaur, R.K., Fischer, R., Hoffmann, K.M.V.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.50 Å
R-Value Free:
0.197 (Depositor), 0.193 (DCC)
R-Value Work:
0.158 (Depositor), 0.163 (DCC)
R-Value Observed:
0.160 (Depositor)

Starting Model: in silico
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 1T2J

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

Literature

Crystal structure of a human VH domain at 1.5 angstrom

Gaur, R.K., Fischer, R., Hoffmann, K.M.V.

To be published.

Macromolecule Content

Total Structure Weight: 12.48 kDa
Atom Count: 1,023
Modeled Residue Count: 116
Deposited Residue Count: 116
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
M12-Variable Heavy domain	A	116	Homo sapiens	Mutation(s): 0
UniProt
Find proteins for Q9HCC1 (Homo sapiens) Explore Q9HCC1 Go to UniProtKB: Q9HCC1
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9HCC1
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PEG Query on PEG 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]	DI(HYDROXYETHYL)ETHER C₄ H₁₀ O₃ MTHSVFCYNBDYFN-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.50 Å
R-Value Free: 0.197 (Depositor), 0.193 (DCC)
R-Value Work: 0.158 (Depositor), 0.163 (DCC)
R-Value Observed: 0.160 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 71.336	α = 90
b = 37.965	β = 109.67
c = 37.187	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2005-05-03

Deposition Author(s):

Hoffmann, K.M.V.

Revision History (Full details and data files)

Version 1.0: 2005-05-03
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: 2024-04-03
Changes: Data collection, Database references, Derived calculations, Refinement description
Version 1.4: 2024-11-20
Changes: Structure summary

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

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.