7MPP

Bartonella henselae NrnC cleaving pGG in the presence of Mg2+


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.187 
  • R-Value Work: 0.158 
  • R-Value Observed: 0.158 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.0 of the entry. See complete history


Literature

Structural characterization of NrnC identifies unifying features of dinucleotidases

Lormand, J.D.Sondermann, H.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
NanoRNase CA, B [auth C], C [auth E], D [auth G], E [auth I], F [auth K], G [auth M], H [auth O]207Bartonella henselaeMutation(s): 0 
Gene Names: BM1374165_00260
UniProt
Find proteins for X5MEI1 (Bartonella henselae)
Explore X5MEI1 
Go to UniProtKB:  X5MEI1
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
5GP (Subject of Investigation/LOI)
Query on 5GP

Download Ideal Coordinates CCD File 
BA [auth I] , CA [auth K] , DA [auth K] , GA [auth M] , HA [auth M] , I [auth A] , KA [auth O] , L [auth A] , 
BA [auth I],  CA [auth K],  DA [auth K],  GA [auth M],  HA [auth M],  I [auth A],  KA [auth O],  L [auth A],  LA [auth O],  M [auth C],  P [auth C],  Q [auth E],  T [auth E],  U [auth G],  V [auth G],  Y [auth I]
GUANOSINE-5'-MONOPHOSPHATE
C10 H14 N5 O8 P
RQFCJASXJCIDSX-UUOKFMHZSA-N
 Ligand Interaction
MG
Query on MG

Download Ideal Coordinates CCD File 
AA [auth I] , EA [auth K] , FA [auth K] , IA [auth M] , J [auth A] , JA [auth M] , K [auth A] , MA [auth O] , 
AA [auth I],  EA [auth K],  FA [auth K],  IA [auth M],  J [auth A],  JA [auth M],  K [auth A],  MA [auth O],  N [auth C],  NA [auth O],  O [auth C],  R [auth E],  S [auth E],  W [auth G],  X [auth G],  Z [auth I]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.187 
  • R-Value Work: 0.158 
  • R-Value Observed: 0.158 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 70.929α = 90
b = 126.734β = 94.278
c = 127.145γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
PHENIXrefinement
pointlessdata scaling
Aimlessdata scaling
PHENIXphasing

Structure Validation

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Ligand Structure Quality Assessment  



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesR01AI142400

Revision History  (Full details and data files)

  • Version 1.0: 2021-09-15
    Type: Initial release