5C59 | pdb_00005c59

Crystal structure of the periplasmic region of MacB from E. coli

PDB DOI: https://doi.org/10.2210/pdb5C59/pdb

Classification: HYDROLASE
Organism(s): Escherichia coli 536
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2015-06-19 Released: 2016-06-22
Deposition Author(s): Ha, N.C., Kim, J.S.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.00 Å
R-Value Free:
0.306 (Depositor), 0.307 (DCC)
R-Value Work:
0.247 (Depositor), 0.252 (DCC)
R-Value Observed:
0.251 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 5C59

This is version 1.2 of the entry. See complete history.

Literature

Crystal structure of the periplasmic region of MacB from E. coli

Ha, N.C., Kim, J.S.

To be published.

Macromolecule Content

Total Structure Weight: 179.19 kDa
Atom Count: 8,632
Modeled Residue Count: 1,096
Deposited Residue Count: 1,582
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Macrolide export ATP-binding/permease protein MacB	A, B, C, D, E A, B, C, D, E, F, G	226	Escherichia coli 536	Mutation(s): 0 Gene Names: macB, ECP_0894 EC: 3.6.3 (PDB Primary Data), 7.6.2 (UniProt)
UniProt
Find proteins for Q0TJH0 (Escherichia coli O6:K15:H31 (strain 536 / UPEC)) Explore Q0TJH0 Go to UniProtKB: Q0TJH0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q0TJH0
Sequence Annotations Expand
Reference Sequence

Small Molecules

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

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.00 Å
R-Value Free: 0.306 (Depositor), 0.307 (DCC)
R-Value Work: 0.247 (Depositor), 0.252 (DCC)
R-Value Observed: 0.251 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.144	α = 90
b = 78.565	β = 99.72
c = 137.922	γ = 90

Software Package:

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

Structure Validation

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Entry History

Deposition Data

Released Date: 2016-06-22

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2016-06-22
Type: Initial release
Version 1.1: 2020-02-19
Changes: Data collection, Database references, Derived calculations
Version 1.2: 2024-11-20
Changes: Data collection, Database references, Structure summary

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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.