5CR9 | pdb_00005cr9

Crystal structure of ABC-type Fe3+-hydroxamate transport system from Saccharomonospora viridis DSM 43017

• PDB DOI: https://doi.org/10.2210/pdb5CR9/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Saccharomonospora viridis DSM 43017
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2015-07-22 Released: 2015-08-12 
• Deposition Author(s): Nocek, B., Cuff, M., Mack, J., Endres, M., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 
  0.172 (Depositor), 0.175 (DCC) 
• R-Value Work: 
  0.146 (Depositor), 0.149 (DCC) 
• R-Value Observed: 
  0.147 (Depositor) 

Literature

Crystal structure of ABC-type Fe3+-hydroxamate transport system from Saccharomonospora viridis DSM 43017

Nocek, B., Cuff, M., Mack, J., Endres, M., Joachimiak, A.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 33.59 kDa 
• Atom Count: 2,527 
• Modeled Residue Count: 290 
• Deposited Residue Count: 311 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ABC-type Fe3+-hydroxamate transport system, periplasmic component	A	311	Saccharomonospora viridis DSM 43017	Mutation(s): 0  Gene Names: Svir_21280
UniProt
Find proteins for C7MWN7 (Saccharomonospora viridis (strain ATCC 15386 / DSM 43017 / JCM 3036 / CCUG 5913 / NBRC 12207 / NCIMB 9602 / P101)) Explore C7MWN7  Go to UniProtKB:  C7MWN7

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GLU	E [auth A]	GLUTAMIC ACID C5 H9 N O4 WHUUTDBJXJRKMK-VKHMYHEASA-N
GOL	C [auth A], D [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
MN	B [auth A]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free:  0.172 (Depositor), 0.175 (DCC) 
• R-Value Work:  0.146 (Depositor), 0.149 (DCC) 
• R-Value Observed: 0.147 (Depositor) 

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 83.69	α = 90
b = 56.855	β = 90
c = 62.457	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
HKL-3000	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2015-08-12 
Deposition Author(s): Nocek, B., Cuff, M., Mack, J., Endres, M., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM094585

Revision History  

• Version 1.0: 2015-08-12
  Type: Initial release
  
• Version 1.1: 2017-09-20
  Changes: Author supporting evidence, Derived calculations
• Version 1.2: 2019-12-25
  Changes: Author supporting evidence
• Version 1.3: 2024-10-23
  Changes: Data collection, Database references, Derived calculations, Structure summary