3MZH | pdb_00003mzh

Crystal structure of cAMP receptor protein from mycobacterium tuberculosis in complex with cAMP and its DNA binding element

• PDB DOI: https://doi.org/10.2210/pdb3MZH/pdb
• NAKB: 3MZH

• Classification: TRANSCRIPTION/DNA
• Organism(s): Mycobacterium tuberculosis H37Rv
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2010-05-12 Released: 2011-06-08 
• Deposition Author(s): Akhter, Y., Wilmanns, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 
  0.279 (Depositor), 0.280 (DCC) 
• R-Value Work: 
  0.247 (Depositor), 0.260 (DCC) 
• R-Value Observed: 
  0.248 (Depositor) 

Starting Model: experimental

Literature

Crystal Structure of Camp Receptor Protein from Mycobacterium Tuberculosis in Complex with DNA and cAMP

Akhter, Y., Pogenberg, V., Hasnain, S.E., Wilmanns, M.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 63.48 kDa 
• Atom Count: 4,357 
• Modeled Residue Count: 491 
• Deposited Residue Count: 491 
• Unique protein chains: 1
• Unique nucleic acid chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROBABLE TRANSCRIPTIONAL REGULATORY PROTEIN (PROBABLY CRP/FNR-FAMILY)	A, B	225	Mycobacterium tuberculosis H37Rv	Mutation(s): 0  Gene Names: Rv3676
UniProt
Find proteins for P9WMH3 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore P9WMH3  Go to UniProtKB:  P9WMH3

Entity ID: 2
Molecule	Chains	Length	Organism	Image
5'-D(P*AP*AP*AP*TP*GP*TP*GP*AP*TP*CP*TP*AP*GP*GP*TP*CP*AP*CP*GP*TP*G)-3'	C	21	N/A

Entity ID: 3
Molecule	Chains	Length	Organism	Image
5'-D(P*CP*AP*CP*GP*TP*GP*AP*CP*CP*TP*AP*GP*AP*TP*CP*AP*CP*AP*TP*C)-3'	D	20	N/A

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CMP	E [auth A], F [auth B], G [auth B]	ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE C10 H12 N5 O6 P IVOMOUWHDPKRLL-KQYNXXCUSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free:  0.279 (Depositor), 0.280 (DCC) 
• R-Value Work:  0.247 (Depositor), 0.260 (DCC) 
• R-Value Observed: 0.248 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 66.13	α = 90
b = 61.25	β = 104.29
c = 89.94	γ = 90

Software Package:

Software Name	Purpose
DNA	data collection
Auto-Rickshaw	phasing
PHASER	phasing
PHENIX	refinement
iMOSFLM	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-06-08 
Deposition Author(s): Akhter, Y., Wilmanns, M.

Revision History  

• Version 1.0: 2011-06-08
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2011-07-20
  Changes: Other
• Version 1.3: 2023-11-01
  Changes: Data collection, Database references, Derived calculations, Refinement description