4NHU | pdb_00004nhu

The M33 TCR p3M33l/H-2 Ld Complex

PDB DOI: https://doi.org/10.2210/pdb4NHU/pdb

Classification: IMMUNE SYSTEM
Organism(s): Mus musculus, Homo sapiens
Expression System: Trichoplusia ni, Escherichia coli
Mutation(s): Yes

Deposited: 2013-11-05 Released: 2015-05-06
Deposition Author(s): Birnbaum, M.E., Adams, J.J., Garcia, K.C.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.90 Å
R-Value Free:
0.260 (Depositor), 0.261 (DCC)
R-Value Work:
0.229 (Depositor), 0.230 (DCC)
R-Value Observed:
0.231 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 4NHU

This is version 1.1 of the entry. See complete history.

Literature

Interrogating TCR Signal Strength and Cross-Reactivity by Yeast Display of pMHC

Birnbaum, M.E., Adams, J.J., Garcia, K.C.

To be published.

Macromolecule Content

Total Structure Weight: 150.89 kDa
Atom Count: 9,829
Modeled Residue Count: 1,243
Deposited Residue Count: 1,354
Unique protein chains: 3

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
2C m33 alpha VmCh chimera	A, D [auth C]	219	Mus musculus, Homo sapiens This entity is chimeric	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for P01738 (Mus musculus) Explore P01738 Go to UniProtKB: P01738
Find proteins for P01848 (Homo sapiens) Explore P01848 Go to UniProtKB: P01848
PHAROS: P01848
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Groups	P01738 P01848
Sequence Annotations Expand
Reference Sequence

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Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
2C m33 beta VmCh chimera	B, E [auth D]	254	Mus musculus, Homo sapiens This entity is chimeric	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for A0A5B9 (Homo sapiens) Explore A0A5B9 Go to UniProtKB: A0A5B9
PHAROS: A0A5B9
Find proteins for P04213 (Mus musculus) Explore P04213 Go to UniProtKB: P04213
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Groups	P04213 A0A5B9
Sequence Annotations Expand
Reference Sequence

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Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
H-2 class I histocompatibility antigen, L-D alpha chain	C [auth E], F [auth G]	204	Mus musculus	Mutation(s): 6 Gene Names: H2-L
UniProt
Find proteins for P01897 (Mus musculus) Explore P01897 Go to UniProtKB: P01897
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P01897
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.90 Å
R-Value Free: 0.260 (Depositor), 0.261 (DCC)
R-Value Work: 0.229 (Depositor), 0.230 (DCC)
R-Value Observed: 0.231 (Depositor)

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.76	α = 112.29
b = 92.8	β = 103.57
c = 94.95	γ = 102.37

Software Package:

Software Name	Purpose
Blu-Ice	data collection
PHASER	phasing
PHENIX	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2015-05-06

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2015-05-06
Type: Initial release
Version 1.1: 2024-11-20
Changes: Data collection, Database references, Structure summary

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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.