Citations in PubMed

Primary Citation PubMed: 12083519 Citations in PubMed

PDB ID Mentions in PubMed Central Article count: 2

Citations in PubMed

This linkout lists citations, indexed by PubMed, to the Primary Citation for this PDB ID.

PDB ID Mentions in PubMed Central

Data mentions are occurrences of PDB IDs in the full text articles from the PubMedCentral Open Access Subset of currently about 1 million articles. For each article, the sentences containing the PDB ID are listed. Article titles can be filtered by keywords and sorted by year.

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Structural comparison of allogeneic and syngeneic T cell receptor-peptide-major histocompatibility complex complexes: a buried alloreactive mutation subtly alters peptide presentation substantially increasing V(beta) Interactions.

(2002) J Exp Med 195

PubMed: 11994422 | PubMedCentral: PMC2193710 | DOI: null

A water molecule (W1) coordinated by Asp77 and Thr80 side chains and the Val-P8 terminal carboxylate in most H-2K b structures (PDB codes 1FZJ, 1FZK, 1FZO, 1KGB, 1VAC, 1VAB, 1G7Q, 1G7P), is absent in ... he allogeneic mutant ( Fig. 2 B).

Publication Year: 2002


pDOCK: a new technique for rapid and accurate docking of peptide ligands to Major Histocompatibility Complexes.

(2010) Immunome Res 6 Suppl 1

PubMed: 20875153 | PubMedCentral: PMC2946780 | DOI: 10.1186/1745-7580-6-S1-S2

The new procedure outmatches the old protocol particularly well for complexes 1s9y, 1hhh, 1jf1, 1e27, 1jpf, 1qo3, 1wbz and 1g7p (Table 1 ) amongst the MHC-I structures and for structures 1uvq and 1aqd... (Table 1 ) amongst the MHC-II structures (highlighted in yellow in Additional File 2 – Figure S1).

MHC class Peptide PDB Allele Peptide PDB MHC Template Structure Template Allele Peptide Length Peptide Sequence Cα RMSD (Å) Previous method pDOCK I HLA-A*0201 2v2w 1qrn HLA-A*0201 9 SLYNTVATL 0.63 0.38 I HLA-A*0201 1hhh 1qrn HLA-A*0201 10 F LPSDFFPSV 0.58 0.25 I HLA-A*0201 1qse 1qrn HLA-A*0201 9 LLFGYPRYV 0.62 0.30 I HLA-A*0201 2bnq 1qrn HLA-A*0201 9 SLLMWITQV 0.97 0.77 I HLA-A*0201 2gj6 1qrn HLA-A*0201 9 LLFGKPVYV 0.56 0.24 I HLA-A*0201 1qr1 1qrn HLA-A*0201 9 IISAVVGIL 0.87 0.36 I HLA-A*0201 1qsf 1qrn HLA-A*0201 9 LLFGYPVAV 0.94 0.41 I HLA-A*0201 1bd2 1qrn HLA-A*0201 9 LLFGYPVYV 0.68 0.46 I HLA-A*0201 1hhg 1i4f HLA-A*0201 9 TLTSCNTSV 0.58 0.56 I HLA-A*0201 1hhh 1i4f HLA-A*0201 10 F LPSDFFPSV 1.48 0.57 I H2-Kb 1osz 1nam H2-Kb 8 RGYLYQGL 0.85 0.47 I H2-Kb 1fo0 1nam H2-Kb 8 INFDFNTI 0.62 0.35 I H2-Kb 1g6r 1nam H2-Kb 8 SIYRYYGL 0.66 0.11 I H2-Kb 1kbg 1nam H2-Kb 8 RGYVYXGL 0.40 0.06 I H2-Kb 1g7p 1nam H2-Kb 9 SRDHSRTPM 1.41 0.82 II HLA-DRB1*0101 1fyt 2iam HLA-DRB1*0101 13 PK YVKQNTLKL AT 0.69 0.35 II HLA-DRB1*0101 1klu 2iam HLA-DRB1*0101 15 GEL IGTLNAAKV PAD 0.85 0.59 II HLA-DRB1*0101 1t5w 2iam HLA-DRB1*0101 13 AA YSDQATPLL LS 0.99 0.65 II HLA-DRB1*0101 1pyw 2iam HLA-DRB1*0101 9 FVKQNAXAL 0.40 0.32 II HLA-DRB1*0101 1sje 2iam HLA-DRB1*0101 15 PE VIPMFSALS EGAT 0.70 0.37 II HLA-DRB1*0101 1aqd 2iam HLA-DRB1*0101 14 GSD WRFLRGYHQ YA 1.68 1.01 Cα RMSD values are calculated only for the nonamer binding core (shown in bold) for peptides with more than 9 residues in the X-ray crystal structures.

Publication Year: 2010