8K4W | pdb_00008k4w

Structure of a triple-helix region of human collagen type I from Trautec

• PDB DOI: https://doi.org/10.2210/pdb8K4W/pdb

• Classification: STRUCTURAL PROTEIN
• Organism(s): Homo sapiens
• Mutation(s): No 


• Deposited: 2023-07-20 Released: 2023-08-02 
• Deposition Author(s): Chu, Y., Zhai, Y., Fan, X., Li, J., Wang, L., Fu, S., Feng, P., Qian, S.
• Funding Organization(s): Other private

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 
  0.265 (Depositor), 0.260 (DCC) 
• R-Value Work: 
  0.193 (Depositor), 0.200 (DCC) 

Starting Model: experimental

Literature

Structure of a triple-helix region of human collagen type I from Trautec.

Chu, Y., Zhai, Y., Fan, X., Li, J., Wang, L., Fu, S., Feng, P., Qian, S.

To be published.

Biological Assembly 1  

Global Symmetry: Helical - H  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: homology

Biological Assembly 2  

Global Symmetry: Helical - H  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Helical - H  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 3 assigned by authors and generated by PISA (software)

Biological Assembly 4  

Global Symmetry: Helical - H  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 4 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 34.78 kDa 
• Atom Count: 2,601 
• Modeled Residue Count: 335 
• Deposited Residue Count: 360 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
triple-helix region of human collagen type I	A, B, C, D, E, F, G, H, I, J, K, L	30	Homo sapiens	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CL	M [auth E]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
HYP	A, B, C, D, E, F, G, H, I, J, K, L	L-PEPTIDE LINKING	C5 H9 N O3		PRO

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free:  0.265 (Depositor), 0.260 (DCC) 
• R-Value Work:  0.193 (Depositor), 0.200 (DCC) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 24.837	α = 95.535
b = 29.096	β = 90
c = 85.236	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-08-02 
Deposition Author(s): Chu, Y., Zhai, Y., Fan, X., Li, J., Wang, L., Fu, S., Feng, P., Qian, S.

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Funding Organization	Location	Grant Number
Other private	China	Jiangsu Trautec Medical Technology Co.,Ltd

Revision History  

• Version 1.0: 2023-08-02
  Type: Initial release
  
• Version 1.1: 2023-08-09
  Changes: Structure summary
• Version 1.2: 2023-10-04
  Changes: Data collection, Database references, Structure summary