6JKL | pdb_00006jkl

Structure of a triple-helix region of human collagen type II

PDB DOI: https://doi.org/10.2210/pdb6JKL/pdb

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

Deposited: 2019-03-01 Released: 2020-03-04
Deposition Author(s): Yang, X., Zhu, Y., Ye, S., Zhang, R.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.15 Å
R-Value Free:
0.242 (Depositor), 0.241 (DCC)
R-Value Work:
0.196 (Depositor), 0.197 (DCC)
R-Value Observed:
0.198 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 6JKL

This is version 1.1 of the entry. See complete history.

Literature

Structure of a triple-helix region of human collagen type II.

Yang, X., Zhu, Y., Ye, S., Zhang, R., Lu, L.

To be published.

Macromolecule Content

Total Structure Weight: 7.29 kDa
Atom Count: 608
Modeled Residue Count: 85
Deposited Residue Count: 87
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
A triple-helix region of human collagen type II	A, B, C	29	Homo sapiens	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Modified Residue	Modification Type	Formula	2D Diagram
HYP Query on HYP	A, B, C	PRO	Hydroxylation	C₅ H₉ N O₃

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.15 Å
R-Value Free: 0.242 (Depositor), 0.241 (DCC)
R-Value Work: 0.196 (Depositor), 0.197 (DCC)
R-Value Observed: 0.198 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.541	α = 90
b = 17.424	β = 114.39
c = 51.637	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2020-03-04

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2020-03-04
Type: Initial release
Version 1.1: 2025-04-09
Changes: Data collection, Database references, Structure summary