3LXX

Crystal structure of human GTPase IMAP family member 4

• PDB DOI: https://doi.org/10.2210/pdb3LXX/pdb

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


• Deposited: 2010-02-25 Released: 2010-03-09 
• Deposition Author(s): Shen, Y., Nedyalkova, L., Tong, Y., Tempel, W., Mackenzie, F., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Weigelt, J., Bochkarev, A., Andrews, D.W., Park, H., Structural Genomics Consortium (SGC)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free: 0.291 
• R-Value Work: 0.252 
• R-Value Observed: 0.254 

Literature

Crystal structure of human GTPase IMAP family member 4

Shen, Y., Nedyalkova, L., Tong, Y., Tempel, W., Mackenzie, F., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Weigelt, J., Bochkarev, A., Andrews, D.W., Park, H.

To be published.

Biological Assembly 1  

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

Biological assembly 1 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 27.79 kDa 
• Atom Count: 1,277 
• Modelled Residue Count: 169 
• Deposited Residue Count: 239 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GTPase IMAP family member 4	A	239	Homo sapiens	Mutation(s): 0  Gene Names: GIMAP4, IAN1, IMAP4, MSTP062
UniProt & NIH Common Fund Data Resources
Find proteins for Q9NUV9 (Homo sapiens) Explore Q9NUV9  Go to UniProtKB:  Q9NUV9
PHAROS:  Q9NUV9 GTEx:  ENSG00000133574

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GDP	B [auth A]	GUANOSINE-5'-DIPHOSPHATE C10 H15 N5 O11 P2 QGWNDRXFNXRZMB-UUOKFMHZSA-N
MG	C [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N
UNX	D [auth A], E [auth A]	UNKNOWN ATOM OR ION X

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: 2.15 Å
• R-Value Free: 0.291 
• R-Value Work: 0.252 
• R-Value Observed: 0.254 
• Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 41.266	α = 90
b = 102.663	β = 90
c = 100.555	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SHELX	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-03-09 
Deposition Author(s): Shen, Y., Nedyalkova, L., Tong, Y., Tempel, W., Mackenzie, F., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Weigelt, J., Bochkarev, A., Andrews, D.W., Park, H., Structural Genomics Consortium (SGC)

Revision History  

• Version 1.0: 2010-03-09
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-11-08
  Changes: Refinement description
• Version 1.3: 2024-10-09
  Changes: Data collection, Database references, Derived calculations, Structure summary