4PM4 | pdb_00004pm4

Structure of a putative periplasmic iron siderophore binding protein (Rv0265c) from Mycobacterium tuberculosis H37Rv

• PDB DOI: https://doi.org/10.2210/pdb4PM4/pdb

• Classification: SOLUTE-BINDING PROTEIN
• Organism(s): Mycobacterium tuberculosis H37Rv
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2014-05-20 Released: 2014-06-11 
• Deposition Author(s): Arbing, M.A., Chan, S., Tran, N., Kuo, E., Lu, J., Harris, L.R., Zhou, T.T., Eisenberg, D., TB Structural Genomics Consortium (TBSGC)
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 
  0.252 (Depositor), 0.254 (DCC) 
• R-Value Work: 
  0.203 (Depositor), 0.210 (DCC) 
• R-Value Observed: 
  0.205 (Depositor) 

Starting Model: experimental

Literature

Structure of a putative periplasmic iron siderophore binding protein (Rv0265c) from Mycobacterium tuberculosis H37Rv

Arbing, M.A., Chan, S., Tran, N., Kuo, E., Lu, J., Harris, L.R., Zhou, T.T., Eisenberg, D.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 65.91 kDa 
• Atom Count: 4,659 
• Modeled Residue Count: 579 
• Deposited Residue Count: 602 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Iron complex transporter substrate-binding protein	A, B	301	Mycobacterium tuberculosis H37Rv	Mutation(s): 0  Gene Names: Rv0265c, RVBD_0265c
UniProt
Find proteins for L7N6B2 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore L7N6B2  Go to UniProtKB:  L7N6B2

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	C [auth A], D [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
CL	E [auth A], F [auth A], G [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free:  0.252 (Depositor), 0.254 (DCC) 
• R-Value Work:  0.203 (Depositor), 0.210 (DCC) 
• R-Value Observed: 0.205 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 69.551	α = 90
b = 65.434	β = 116.41
c = 72.33	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2014-06-11 
Deposition Author(s): Arbing, M.A., Chan, S., Tran, N., Kuo, E., Lu, J., Harris, L.R., Zhou, T.T., Eisenberg, D., TB Structural Genomics Consortium (TBSGC)

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	R01 AI068135

Revision History  

• Version 1.0: 2014-06-11
  Type: Initial release
  
• Version 1.1: 2017-09-27
  Changes: Author supporting evidence, Database references, Derived calculations, Other, Source and taxonomy, Structure summary
• Version 1.2: 2019-12-11
  Changes: Author supporting evidence
• Version 1.3: 2023-09-27
  Changes: Data collection, Database references, Refinement description