5D2L Immune System date Aug 05, 2015
title Crystal Structure Of Tcr C7 In Complex With Hcmv Nlv Epitope By Hla-A2
authors M.Gao, R.A.Mariuzza
compound source
Molecule: Hla Class I Histocompatibility Antigen, A-2 Alpha
Chain: A, G, M, C
Fragment: Unp Residues 25-299
Synonym: Mhc Class I Antigen A2
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hla-A, Hlaa
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21 (De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet26b

Molecule: Beta-2-Microglobulin
Chain: B, H, N, D
Fragment: Unp Residues 21-119
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: B2m, Cdabp0092, Hdcma22p
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21 (De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet26b

Molecule: C7 Tcr Alpha Chain
Chain: I, K, O, E
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21 (De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet26b

Molecule: C7 Tcr Beta Chain
Chain: J, L, P, F
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21 (De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet26b

Molecule: Asn-Leu-Val-Pro-Met-Val-Ala-Thr-Val
Chain: Q, U, T, R
Engineered: Yes

Synthetic: Yes
Organism_scientific: Cytomegalovirus
Organism_taxid: 10358
symmetry Space Group: C 2 2 21
R_factor 0.270 R_Free 0.355
crystal
cell
length a length b length c angle alpha angle beta angle gamma
151.760 366.643 151.948 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.51 Å
Gene
Ontology
ChainFunctionProcessComponent
H, N, D, B
  • cellular response to iron io...

  • Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (525 Kb) [Save to disk]
  • Biological Unit Coordinates (5d2l.pdb1.gz) 135 Kb
  • Biological Unit Coordinates (5d2l.pdb2.gz) 133 Kb
  • Biological Unit Coordinates (5d2l.pdb3.gz) 136 Kb
  • Biological Unit Coordinates (5d2l.pdb4.gz) 138 Kb
  • CSU: Contacts of Structural Units for 5D2L
  • Structure Factors (760 Kb)
  • Retrieve 5D2L in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5D2L from S2C, [Save to disk]
  • Re-refined 5d2l structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5D2L in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 5D2L
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5d2l from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5d2l_A] [5d2l_Q] [5d2l_E] [5d2l_I] [5d2l_F] [5d2l_J] [5d2l_U] [5d2l_M] [5d2l_B] [5d2l_R] [5d2l_O] [5d2l_N] [5d2l_G] [5d2l_K] [5d2l_P] [5d2l_D] [5d2l_T] [5d2l_C] [5d2l_H] [5d2l] [5d2l_L]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5D2L: [IG] [IG_like] [IGc1] [IGv ] by SMART
  • Other resources with information on 5D2L
  • Community annotation for 5D2L at PDBWiki (http://pdbwiki.org)

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