4M8A | pdb_00004m8a

Crystal Structure of Thermotoga maritima FtsH Periplasmic Domain

PDB DOI: https://doi.org/10.2210/pdb4M8A/pdb

Classification: HYDROLASE
Organism(s): Thermotoga maritima MSB8
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2013-08-13 Released: 2014-09-17
Deposition Author(s): An, J.Y., Sharif, H., Barrera, F.N., Karabadzhak, A., Kang, G.B., Park, K.J., Sakkiah, S., Lee, K.W., Lee, S., Engelman, D.M., Wang, J., Eom, S.H.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.50 Å
R-Value Free:
0.202 (Depositor), 0.206 (DCC)
R-Value Work:
0.161 (Depositor), 0.163 (DCC)
R-Value Observed:
0.165 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 4M8A

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

Literature

Structural roles of periplasmic and transmembrane domains of FtsH in ATP-dependent proteolysis

An, J.Y., Sharif, H., Barrera, F.N., Karabadzhak, A., Kang, G.B., Park, K.J., Sakkiah, S., Lee, K.W., Lee, S., Engelman, D.M., Wang, J., Eom, S.H.

To be published.

Macromolecule Content

Total Structure Weight: 24.13 kDa
Atom Count: 1,936
Modeled Residue Count: 203
Deposited Residue Count: 216
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ATP-dependent zinc metalloprotease FtsH	A, B, C	72	Thermotoga maritima MSB8	Mutation(s): 0 Gene Names: ftsH, TM_0580 EC: 3.4.24
UniProt
Find proteins for Q9WZ49 (Thermotoga maritima (strain ATCC 43589 / DSM 3109 / JCM 10099 / NBRC 100826 / MSB8)) Explore Q9WZ49 Go to UniProtKB: Q9WZ49
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9WZ49
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
TRS Query on TRS Download:Ideal Coordinates CCD File SDF format, chain D [auth A] MOL2 format, chain D [auth A] mmCIF format, chain D [auth A]	D [auth A]	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C₄ H₁₂ N O₃ LENZDBCJOHFCAS-UHFFFAOYSA-O		Interactions Focus chain D [auth A] Interactions & Density Focus chain D [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.50 Å
R-Value Free: 0.202 (Depositor), 0.206 (DCC)
R-Value Work: 0.161 (Depositor), 0.163 (DCC)
R-Value Observed: 0.165 (Depositor)

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 41.809	α = 90
b = 65.837	β = 90
c = 71.834	γ = 90

Software Package:

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

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2014-09-17

Deposition Author(s):

Karabadzhak, A.

Revision History (Full details and data files)

Version 1.0: 2014-09-17
Type: Initial release
Version 1.1: 2024-03-20
Changes: Data collection, Database references, Derived calculations

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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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.