4f7c Summary

pdbe.org/4f7c
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Crystal structure of bovine CD1d with bound C12-di-sulfatide

The structure was published by Wang, J., Guillaume, J., Pauwels, N., Van Calenbergh, S., Van Rhijn, I., and Zajonc, D.M., in 2012 in a paper entitled "Crystal Structures of Bovine CD1d Reveal Altered αGalCer Presentation and a Restricted A' Pocket Unable to Bind Long-Chain Glycolipids." (abstract).

This crystal structure was determined using X-ray diffraction at a resolution of 2.864 Å and deposited in 2012.

The experimental data on which the structure is based was also deposited.

This PDB entry contains a complex of 2 biomacromolecules, namely CD1D antigen, d polypeptide and Beta-2-microglobulin.

It also contains one or more heterogenic compounds (e.g., ligands, co-factors, ions, modified amino acids, etc.); see here for a complete list.

The molecule has more than one probable quaternary state observed. For more details see the quaternary structure page.

The following tables show cross-reference information to other databases (to obtain a list of all PDB entries sharing the same property or classification, click on the magnifying glass icon):


Chain Name UniProt Name of source organism % of UniProt sequence present in the sample Residues in the sample molecules % of residues observed
A CD1D antigen, d polypeptide A1L565 (129-405) (A1L565_BOVIN)search Bos taurussearch < 90% 283 95%
C CD1D antigen, d polypeptide A1L565 (129-405) (A1L565_BOVIN)search Bos taurussearch < 90% 283 95%
B Beta-2-microglobulin P01888 (21-118) (B2MG_BOVIN)search Bos taurussearch 100% 98 98%
D Beta-2-microglobulin P01888 (21-118) (B2MG_BOVIN)search Bos taurussearch 100% 98 98%


This entry contains 2 unique UniProt proteins:

UniProt accession Name Organism PDB
A1L565 (129 - 405) CD1D antigen, d polypeptide Bos taurus
P01888 (21 - 118) Beta-2-microglobulin Bos taurus

Chain Sequence family (Pfam)
A, C Immunoglobulin C1-set domainsearch
B, D (P01888) PF07654: Immunoglobulin C1-set domainsearch

Chain ID Biological process (GO) Cellular component (GO) Molecular function (GO)
A, C (A1L565) immune responsesearch antigen processing and presentationsearch membranesearch
B, D (P01888) immune system processsearch response to molecule of bacterial originsearch antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependentsearch antigen processing and presentation of peptide antigen via MHC class Isearch positive regulation of T cell mediated cytotoxicitysearch T cell differentiation in thymussearch retina homeostasissearch protein refoldingsearch cytoplasmsearch Golgi apparatussearch plasma membranesearch extracellular regionsearch external side of plasma membranesearch extracellular vesicular exosomesearch MHC class I protein complexsearch identical protein bindingsearch

Chain InterPro annotation
A, C Immunoglobulin C1-setsearch Immunoglobulin-like domainsearch MHC class I-like antigen recognitionsearch MHC classes I/II-like antigen recognition proteinsearch Immunoglobulin-like foldsearch
B, D Immunoglobulin/major histocompatibility complex, conserved sitesearch Immunoglobulin C1-setsearch Immunoglobulin-like domainsearch Immunoglobulin-like foldsearch