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1R3H

Mouse Non-classical MHC Class I molecule H2-T22 at 2.50Å resolution

Data provenance

Structure downloaded from PDB Europe using the Coordinate Server. Aligned to residues 1-180 of 1HHK2 using the CEALIGN3 function of PyMol4. Chain assigment using a Levenshtein distance5 method using data from the PDBe REST API6. Organism data from PDBe REST API. Data for both of these operations from the Molecules endpoint. Structure visualised with 3DMol7.

Information sections


Complex type

H2-t22

1. Beta 2 microglobulin
['B', 'D', 'F', 'H']
2. H2-T22
['A', 'C', 'E', 'G']

Species


Locus / Allele group

Non-classical MHC Class I molecule

Publication

Combined pseudo-merohedral twinning, non-crystallographic symmetry and pseudo-translation in a monoclinic crystal form of the gammadelta T-cell ligand T10.

Rudolph MG, Wingren C, Crowley MP, Chien YH, Wilson IA
Acta Crystallogr. D Biol. Crystallogr. (2004) 60, 656-64 [doi:10.1107/s0907444904002239]  [pubmed:15039553

T10 is a non-classical class Ib-like major histocompatibility complex (MHC) cell-surface antigen which binds directly to certain gammadelta T-cell receptors in the absence of any exogenous and endogenous ligands, such as peculiar lipids or glycolipids. The crystal structure at 2.5 A resolution of murine T10 was determined by molecular replacement using data from an almost perfectly twinned monoclinic crystal. The space group is P2(1), with unit-cell parameters a = 78.2, b = 70.0, c = 139.2 A, beta = 106.8 degrees. Self-rotation function analysis and various intensity statistics revealed the presence of pseudo-merohedral twinning, but these tests underestimated the true twin fraction of alpha approximately 0.46. Native Patterson analyses pointed to the presence of pseudo-translation among the four molecules present in the asymmetric unit. Data analysis, structure determination and model refinement are discussed.

Structure deposition and release

Deposited: 2003-10-02
Released: 2004-03-30
Revised: 2011-07-13

Data provenance

Publication data retrieved from PDBe REST API8 and PMCe REST API9

Other structures from this publication


Chain sequences

1. Beta 2 microglobulin
Beta 2 microglobulin
        10        20        30        40        50        60
IQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKDW
        70        80        90
SFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM

2. H2-T22
H2-T22
        10        20        30        40        50        60
GSHSLRYFYTAVSRPGLGEPWFIIVGYVDDMQVLRFSSKEETPRMAPWLEQEEADDWEQQ
        70        80        90       100       110       120
THIVTIQGQLSERNLMTLVHFYNKSMDDSHTLQWLQDCDVEPDRHLCLWYNQLAYDSEDL
       130       140       150       160       170       180
PTLSENPSSCTVGNSTVPQISQHLEGHCSDVLQKYLEKGKERLLRSDPPKAHVTRHPRPE
       190       200       210       220       230       240
GDVTLRCWALGFYPADITLTWQKDGEELTQDVEFVETRPAGDGTFQKWAAVVVPLGKVQS
       250
YTCHVDHEGLPEPLTLRWEP


Data provenance

Sequences are retrieved via the Uniprot method of the RSCB REST API. Sequences are then compared to those derived from the PDB file and matched against sequences retrieved from the IPD-IMGT/HLA database for human sequences, or the IPD-MHC database for other species. Mouse sequences are matched against FASTA files from Uniprot. Sequences for the mature extracellular protein (signal petide and cytoplasmic tail removed) are compared to identical length sequences from the datasources mentioned before using either exact matching or Levenshtein distance based matching.


Downloadable data

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Please take note of the data license. Using data from this site assumes that you have read and will comply with the license.

Complete structures

Aligned structures [cif]
  1. 1R3H assembly 1  
  2. 1R3H assembly 2  
  3. 1R3H assembly 3  
  4. 1R3H assembly 4  

Components

MHC Class I alpha chain [cif]
  1. 1R3H assembly 1  
  2. 1R3H assembly 2  
  3. 1R3H assembly 3  
  4. 1R3H assembly 4  
MHC Class I antigen binding domain (alpha1/alpha2) [cif]
  1. 1R3H assembly 1  
  2. 1R3H assembly 2  
  3. 1R3H assembly 3  
  4. 1R3H assembly 4  

Derived data

Data for this page [json]
https://api.histo.fyi/v1/structures/1r3h

Data license

The data above is made available under a Creative Commons CC-BY 4.0 license. This means you can copy, remix, transform, build upon and redistribute the material, but you must give appropriate credit, provide a link to the license, and indicate if changes were made.
If you use any data downloaded from this site in a publication, please cite 'https://www.histo.fyi/'. A preprint is in preparation.

Footnotes