3P6Y | pdb_00003p6y

CF Im25-CF Im68-UGUAA complex

• PDB DOI: https://doi.org/10.2210/pdb3P6Y/pdb
• NAKB: 3P6Y

• Classification: RNA BINDING PROTEIN/RNA
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2010-10-11 Released: 2010-11-03 
• Deposition Author(s): Li, H., Tong, S., Li, X., Shi, H., Gao, Y., Ge, H., Niu, L., Teng, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 
  0.275 (Depositor), 0.275 (DCC) 
• R-Value Work: 
  0.226 (Depositor), 0.226 (DCC) 
• R-Value Observed: 
  0.229 (Depositor) 

Starting Model: experimental

Literature

Structural basis of pre-mRNA recognition by the human cleavage factor Im complex

Li, H., Tong, S., Li, X., Shi, H., Gao, Y., Ge, H., Niu, L., Teng, M.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 

Biological assembly 2 assigned by authors.

Biological Assembly 3  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 

Biological assembly 3 assigned by authors.

Biological Assembly 4  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 

Biological assembly 4 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 281.11 kDa 
• Atom Count: 17,567 
• Modeled Residue Count: 2,219 
• Deposited Residue Count: 2,371 
• Unique protein chains: 2
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cleavage and polyadenylation specificity factor subunit 5	A, B, E, F, I, J, M, N	202	Homo sapiens	Mutation(s): 0  Gene Names: NUDT21, CFIM25, CPSF25, CPSF5
UniProt & NIH Common Fund Data Resources
Find proteins for O43809 (Homo sapiens) Explore O43809  Go to UniProtKB:  O43809
PHAROS:  O43809 GTEx:  ENSG00000167005

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Cleavage and polyadenylation specificity factor subunit 6	C, D, G, H, K, L, O, P	90	Homo sapiens	Mutation(s): 1  Gene Names: CPSF6, CFIM68
UniProt & NIH Common Fund Data Resources
Find proteins for Q16630 (Homo sapiens) Explore Q16630  Go to UniProtKB:  Q16630
PHAROS:  Q16630 GTEx:  ENSG00000111605

Entity ID: 3
Molecule	Chains	Length	Organism	Image
5'-R(*UP*GP*UP*AP*A)-3'	Q, R, S, T, U, V, W	5	N/A

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free:  0.275 (Depositor), 0.275 (DCC) 
• R-Value Work:  0.226 (Depositor), 0.226 (DCC) 
• R-Value Observed: 0.229 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 104.783	α = 90
b = 129.419	β = 94.01
c = 111.159	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
PHASES	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-11-03 
Deposition Author(s): Li, H., Tong, S., Li, X., Shi, H., Gao, Y., Ge, H., Niu, L., Teng, M.

Revision History  

• Version 1.0: 2010-11-03
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2023-11-01
  Changes: Data collection, Database references, Refinement description