7CVH

Human Fructose-1,6-bisphosphatase 1 in complex with geranylgeranyl diphosphate

  • Classification: HYDROLASE
  • Organism(s): Homo sapiens
  • Expression System: Escherichia coli
  • Mutation(s): No 

  • Deposited: 2020-08-26 Released: 2021-09-08 
  • Deposition Author(s): Chen, Y., Zhang, J., Li, C., Cao, Y.
  • Funding Organization(s): Ministry of Science and Technology (MoST, China), National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.09 Å
  • R-Value Free: 0.218 
  • R-Value Work: 0.178 
  • R-Value Observed: 0.179 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history. 


Literature

The structural basis for GGPP activation on the enzymatic activities FBP1

Chen, Y., Zhang, J., Li, C., Cao, Y.

To be published.

Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Fructose-1,6-bisphosphatase 1A,
B [auth C],
C [auth B],
D		338Homo sapiensMutation(s): 0 
Gene Names: FBP1, FBP
EC: 3.1.3.11
UniProt & NIH Common Fund Data Resources
Find proteins for P09467 (Homo sapiens)
Explore P09467 
Go to UniProtKB:  P09467
PHAROS:  P09467
GTEx:  ENSG00000165140 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP09467
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
GRG (Subject of Investigation/LOI)
Query on GRG
Download Ideal Coordinates CCD File 
Q [auth D]GERANYLGERANYL DIPHOSPHATE
C20 H36 O7 P2
OINNEUNVOZHBOX-QIRCYJPOSA-N
AMP
Query on AMP
Download Ideal Coordinates CCD File 
H [auth A],
L [auth C],
P [auth B],
U [auth D]		ADENOSINE MONOPHOSPHATE
C10 H14 N5 O7 P
UDMBCSSLTHHNCD-KQYNXXCUSA-N
FBP
Query on FBP
Download Ideal Coordinates CCD File 
E [auth A],
I [auth C],
M [auth B],
R [auth D]		1,6-di-O-phosphono-beta-D-fructofuranose
C6 H14 O12 P2
RNBGYGVWRKECFJ-ARQDHWQXSA-N
MG
Query on MG
Download Ideal Coordinates CCD File 
F [auth A]
G [auth A]
J [auth C]
K [auth C]
N [auth B]
F [auth A],
G [auth A],
J [auth C],
K [auth C],
N [auth B],
O [auth B],
S [auth D],
T [auth D]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.09 Å
  • R-Value Free: 0.218 
  • R-Value Work: 0.178 
  • R-Value Observed: 0.179 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 67.392α = 90
b = 83.426β = 90
c = 277.355γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data scaling
PDB_EXTRACTdata extraction
HKL-2000data reduction
PHENIXphasing

Structure Validation

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Ligand Structure Quality Assessment 


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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Ministry of Science and Technology (MoST, China)China2018YFC1004704
Ministry of Science and Technology (MoST, China)China2018YFC1004703
National Natural Science Foundation of China (NSFC)China31670849
National Natural Science Foundation of China (NSFC)ChinaU1632132

Revision History  (Full details and data files)

  • Version 1.0: 2021-09-08
    Type: Initial release
  • Version 1.1: 2023-11-29
    Changes: Data collection, Refinement description