6HG7: Collagen alpha-1 chain

Crystal structure of a collagen II fragment containing the binding site of PEDF and COMP, (POG)4-LKG HRG FTG LQG-POG(4). Determined by X-ray diffraction at 1.0 Å resolution. Released 5 Dec 2018.

Method: X-ray diffraction
Resolution: 1.0 Å
Organism: Homo sapiens
Chains: 3
Atoms: 919
Mol. weight: 10.4 kDa
Released: 5 Dec 2018

Explore 6HG7 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6HG7 contains 8 α-helices and 0 β-strands across 3 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 3 helices, 0 β-strands

Element	Residues	Length
α-helix	2-5	4
α-helix	7-26	20
α-helix	31-34	4

Chain B: 2 helices, 0 β-strands

Element	Residues	Length	Sheet
α-helix	2-8	7
α-helix	10-32	23

Chain C: 3 helices, 0 β-strands

Element	Residues	Length
α-helix	2-5	4
α-helix	10-26	17
α-helix	31-35	5

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Collagen alpha-1(II) chain	A, B, C	protein	38	Homo sapiens	P02458 (AlphaFold model)

Sequence of entity 1 (A, B, C), FASTA

>6HG7_1 Collagen alpha-1(II) chain (chains A, B, C)
XPPGPPGPPGPPGLKGHRGFTGLQGPPGPPGPPGPPGX

Primary citation

COMP and TSP-4 interact specifically with the novel GXKGHR motif only found in fibrillar collagens. Gebauer, J.M., Kohler, A., Dietmar, H. et al. Sci Rep (2018) 8:17187-17187. DOI 10.1038/s41598-018-35447-8 · PubMed

Other PDB entries of the same protein (UniProt P02458 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5NIR 1.74 Å, Crystal structure of collagen 2A vWC domain
5OCX 1.75 Å, Crystal structure of ACPA E4 in complex with CII-C-13-CIT
7NZE 2.05 Å, Crystal structure of HLA-DR4 in complex with a human collagen type II peptide
6NIX 2.1 Å, Crystal structure of Immune Receptor
2SEB 2.5 Å, X-ray crystal structure of HLA-DR4 complexed with a peptide from human collagen II
6BIN 2.5 Å, HLA-DRB1 in complex with Type II collagen peptide
5OCY 2.6 Å, Crystal structure of ACPA E4 in complex with CII-C-48-CIT
5MV4 2.9 Å, ACC1 Fab fragment in complex with citrullinated CII616-639 epitope of collagen type II…
2FSE 3.1 Å, Crystallographic structure of a rheumatoid arthritis MHC susceptibility allele, HLA-DR1…
1U5M Structure of a Chordin-like Cysteine-rich Repeat (VWC module) from Collagen IIA

Browse structure collections

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