9C6T | pdb_00009c6t

Structure of the Human ISM1 TSR-AMOP domains

• PDB DOI: https://doi.org/10.2210/pdb9C6T/pdb

• Classification: UNKNOWN FUNCTION
• Organism(s): Homo sapiens
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2024-06-08 Released: 2025-04-23 
• Deposition Author(s): Stayrook, S., Li, T., Klein, D.E.
• Funding Organization(s): Not funded

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.41 Å
• R-Value Free: 
  0.366 (Depositor), 0.348 (DCC) 
• R-Value Work: 
  0.332 (Depositor), 0.334 (DCC) 
• R-Value Observed: 
  0.333 (Depositor) 

Starting Model: in silico

Literature

Structure of the pleiotropic factor Isthmin-1 and its inactivity on pre-adipocytes

Li, T., Stayrook, S., Klein, D.E.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content 

• Total Structure Weight: 56.84 kDa 
• Atom Count: 3,621 
• Modeled Residue Count: 448 
• Deposited Residue Count: 494 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Isthmin-1	A, B	247	Homo sapiens	Mutation(s): 0  Gene Names: ISM1, C20orf82, ISM
UniProt & NIH Common Fund Data Resources
Find proteins for B1AKI9 (Homo sapiens) Explore B1AKI9  Go to UniProtKB:  B1AKI9
PHAROS:  B1AKI9 GTEx:  ENSG00000101230
Glycosylation
Glycosylation Sites: 2		Go to GlyGen: B1AKI9-1

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MAN	C [auth A], D [auth A], E [auth B], F [auth B]	alpha-D-mannopyranose C6 H12 O6 WQZGKKKJIJFFOK-PQMKYFCFSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.41 Å
• R-Value Free:  0.366 (Depositor), 0.348 (DCC) 
• R-Value Work:  0.332 (Depositor), 0.334 (DCC) 
• R-Value Observed: 0.333 (Depositor) 

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 114.255	α = 90
b = 114.255	β = 90
c = 168.221	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PDB_EXTRACT	data extraction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-04-23 
Deposition Author(s): Stayrook, S., Li, T., Klein, D.E.

---

Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2025-04-23
  Type: Initial release