7F0K | pdb_00007f0k

Crystal structure of Kmp11

PDB DOI: https://doi.org/10.2210/pdb7F0K/pdb

Classification: LIPID BINDING PROTEIN
Organism(s): Trypanosoma brucei gambiense DAL972
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2021-06-05 Released: 2021-08-11
Deposition Author(s): Mo, X.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.50 Å
R-Value Free:
0.298 (Depositor), 0.300 (DCC)
R-Value Work:
0.257 (Depositor), 0.260 (DCC)
R-Value Observed:
0.259 (Depositor)

wwPDB Validation 3D Report Full Report

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

Literature

Structural insight into dynamic characteristic of the polymerized forms of kinetoplastid membrane protein-11

Mo, X.

To be published.

Macromolecule Content

Total Structure Weight: 22.67 kDa
Atom Count: 1,394
Modeled Residue Count: 163
Deposited Residue Count: 184
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Kinetoplastid membrane protein KMP-11	A, B	92	Trypanosoma brucei gambiense DAL972	Mutation(s): 0 Gene Names: TbgDal_IX8640, TbgDal_IX8650, TbgDal_IX8660, TbgDal_IX8670
UniProt
Find proteins for C9ZZD9 (Trypanosoma brucei gambiense (strain MHOM/CI/86/DAL972)) Explore C9ZZD9 Go to UniProtKB: C9ZZD9
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	C9ZZD9
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE Query on MSE	A, B	L-PEPTIDE LINKING	C₅ H₁₁ N O₂ Se		MET

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.50 Å
R-Value Free: 0.298 (Depositor), 0.300 (DCC)
R-Value Work: 0.257 (Depositor), 0.260 (DCC)
R-Value Observed: 0.259 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 34.899	α = 90
b = 38.544	β = 90
c = 142.095	γ = 90

Software Package:

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

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2021-08-11

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	32071476

Revision History (Full details and data files)

Version 1.0: 2021-08-11
Type: Initial release
Version 1.1: 2024-11-06
Changes: Data collection, Refinement description, Structure summary

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.