7CCB

Crystal structure of the SPRY domain-containing protein 7 (SPRY7)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.62 Å
  • R-Value Free: 0.190 
  • R-Value Work: 0.162 
  • R-Value Observed: 0.164 

wwPDB Validation 3D Report Full Report



Literature

Crystal structure of the SPRY domain-containing protein 7 reveals unique structural features.

Yang, J.Guan, X.Zhang, D.Zhao, P.Guo, S.Kuang, Z.

(2020) Biochem Biophys Res Commun 531: 350-356

  • DOI: 10.1016/j.bbrc.2020.07.076
  • Primary Citation of Related Structures:  
    7CCB

  • PubMed Abstract: 
  • The SPRY/B30.2 domain is one of the most abundant protein domains found in eukaryotes. Vast majority of the SPRY domain-containing proteins are multi-domain proteins. The SPRY domain-containing protein 7 (SPRY7, also named C13orf1, and named chronic ...

    The SPRY/B30.2 domain is one of the most abundant protein domains found in eukaryotes. Vast majority of the SPRY domain-containing proteins are multi-domain proteins. The SPRY domain-containing protein 7 (SPRY7, also named C13orf1, and named chronic lymphocytic leukemia deletion region gene 6 protein, CCLD6, encoded by the spryd7 gene) is the smallest SPRY domain protein in human that does not contain other accessory domains. Here we have determined the crystal structure of human SPRY7 at a resolution of 1.62 Å and found that SPRY7 has some unique structural features that are not present in other previously reported SRPY domain structures. Overall, SPRY7 may represent an evolutionary early version of the SPRY domain, and subsequent loop insertions and expansions, residue substitutions, as well as domain combinations have rendered the SPRY domain versatile binding specificities and broad biological functions. These results serve as a useful basis for a profound characterization of the molecular interactions of SPRY7.


    Organizational Affiliation

    Department of Cell Biology, College of Life Science and Technology, Jinan University, Guangzhou, 510632, China; Institute of Biomedicine, Jinan University, Guangzhou, 510632, China; Guangdong Provincial Key Laboratory of Bioengineering Medicine, Guangzhou, 510632, China. Electronic address: zhihe.kuang@jnu.edu.cn.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
SPRY domain-containing protein 7AB184Homo sapiensMutation(s): 0 
Gene Names: SPRYD7C13orf1CLLD6
Find proteins for Q5W111 (Homo sapiens)
Explore Q5W111 
Go to UniProtKB:  Q5W111
NIH Common Fund Data Resources
PHAROS  Q5W111
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.62 Å
  • R-Value Free: 0.190 
  • R-Value Work: 0.162 
  • R-Value Observed: 0.164 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 55.06α = 90
b = 75.91β = 90
c = 81.16γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
Aimlessdata scaling
PDB_EXTRACTdata extraction
MOSFLMdata reduction
MoRDaphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data

  • Deposited Date: 2020-06-16 
  • Released Date: 2020-10-14 
  • Deposition Author(s): Yang, J., Kuang, Z.

Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China81571539
National Natural Science Foundation of China (NSFC)China31270817

Revision History 

  • Version 1.0: 2020-10-14
    Type: Initial release