3C9Q | pdb_00003c9q

Crystal structure of the uncharacterized human protein C8orf32 with bound peptide

• PDB DOI: https://doi.org/10.2210/pdb3C9Q/pdb

• Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2008-02-18 Released: 2008-02-26 
• Deposition Author(s): Bitto, E., Bingman, C.A., McCoy, J.G., Wesenberg, G.E., Phillips Jr., G.N., Center for Eukaryotic Structural Genomics (CESG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 
  0.180 (Depositor), 0.192 (DCC) 
• R-Value Work: 
  0.161 (Depositor), 0.179 (DCC) 
• R-Value Observed: 
  0.162 (Depositor) 

Re-refinement Note

A newer entry is available that reflects an alternative modeling of the original data: 4W79

Literature

Crystal structure of the uncharacterized human protein C8orf32 with bound peptide.

Bitto, E., Bingman, C.A., McCoy, J.G., Wesenberg, G.E., Phillips Jr., G.N.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 24.85 kDa 
• Atom Count: 1,968 
• Modeled Residue Count: 198 
• Deposited Residue Count: 208 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Uncharacterized protein C8orf32	A	205	Homo sapiens	Mutation(s): 4  Gene Names: C8orf32 EC: 3.5.1.122
UniProt & NIH Common Fund Data Resources
Find proteins for Q96HA8 (Homo sapiens) Explore Q96HA8  Go to UniProtKB:  Q96HA8
PHAROS:  Q96HA8 GTEx:  ENSG00000156795

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Synthetic peptide	B [auth L]	3	N/A	Mutation(s): 0

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	C [auth A], D [auth A], E [auth A], F [auth A], G [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
EDO	I [auth A], J [auth A], K [auth A], L [auth A], M [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
CO3	H [auth A]	CARBONATE ION C O3 BVKZGUZCCUSVTD-UHFFFAOYSA-L

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: 1.50 Å
• R-Value Free:  0.180 (Depositor), 0.192 (DCC) 
• R-Value Work:  0.161 (Depositor), 0.179 (DCC) 
• R-Value Observed: 0.162 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 34.322	α = 90
b = 64.039	β = 90
c = 113.66	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SHARP	phasing
DM	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing
SHELXL-97	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-02-26 
Deposition Author(s): Bitto, E., Bingman, C.A., McCoy, J.G., Wesenberg, G.E., Phillips Jr., G.N., Center for Eukaryotic Structural Genomics (CESG)

Revision History  

• Version 1.0: 2008-02-26
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2017-10-25
  Changes: Refinement description
• Version 1.3: 2024-10-16
  Changes: Data collection, Database references, Derived calculations, Structure summary