9HM8 | pdb_00009hm8

NMR solution structure of RPRD2 CTD-interacting domain and pS2,7 RNAPII CTD peptide.

• PDB DOI: https://doi.org/10.2210/pdb9HM8/pdb
• BMRB: 34969

• Classification: PROTEIN BINDING
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-12-07 Released: 2025-12-17 
• Deposition Author(s): Linhartova, K., Macosek, J., Kubicek, K., Smirakova, E., Stefl, R.
• Funding Organization(s): European Research Council (ERC), Czech Science Foundation, Ministry of Education (MoE, Czech Republic)

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 50 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Literature

NMR solution structure of RPRD2 CTD-interacting domain and pS2,7 RNAPII CTD peptide.

Linhartova, K., Macosek, J., Kubicek, K., Smirakova, E., Steel, R.

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 (software)

Macromolecule Content 

• Total Structure Weight: 18.72 kDa 
• Atom Count: 1,149 
• Modeled Residue Count: 140 
• Deposited Residue Count: 159 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Regulation of nuclear pre-mRNA domain-containing protein 2	A	148	Homo sapiens	Mutation(s): 0  Gene Names: RPRD2, KIAA0460, HSPC099
UniProt & NIH Common Fund Data Resources
Find proteins for Q5VT52 (Homo sapiens) Explore Q5VT52  Go to UniProtKB:  Q5VT52
PHAROS:  Q5VT52 GTEx:  ENSG00000163125

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA-directed RNA polymerase II subunit RPB1	B	11	Homo sapiens	Mutation(s): 0  EC: 2.7.7.6 (PDB Primary Data), 3.1.13 (PDB Primary Data), 2.7.7.48 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for P24928 (Homo sapiens) Explore P24928  Go to UniProtKB:  P24928
PHAROS:  P24928

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
SEP	B	L-PEPTIDE LINKING	C3 H8 N O6 P		SER

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 50 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-12-17 
Deposition Author(s): Linhartova, K., Macosek, J., Kubicek, K., Smirakova, E., Stefl, R.

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Funding Organization	Location	Grant Number
European Research Council (ERC)	European Union	649030
Czech Science Foundation	Czech Republic	GA22-19896S
Ministry of Education (MoE, Czech Republic)	Czech Republic	CZ.02.01.01/00/22_008/0004575

Revision History  

• Version 1.0: 2025-12-17
  Type: Initial release