9AAN | pdb_00009aan

Integrated Structure of pRN1 DNA Primase in Complex with the First Base Pair

Integrative structure models are generated using different types of input information, including varied experimental data, physical principles, statistical preferences, and other prior information.

PDB DOI: https://doi.org/10.2210/pdb9AAN/pdb

Organism(s): Saccharolobus islandicus
Mutation(s): No

Deposited: 2025-07-22 Released: 2026-03-25
Deposition Author(s): Wu, P., Allain, F.H.-T.

Integrative Structure Snapshot

Multi-Scale: No
Multi-State: No
Ordered-State: No
Deposited Models: 20
Representative Model: 1

wwPDB ValidationFull ReportSummary Report

This is version 1.0 of the entry. See complete history.

Literature

To be provided

Wu, P., Allain, F.H.-T.

To be published.

Macromolecule Content

Total Structure Weight: 48.88 kDa
Atom Count: 2,975
Modeled Residue Count: 341
Deposited Residue Count: 341
Unique protein chains: 1
Unique nucleic acid chains: 1

Macromolecules

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(by identity cutoff)

| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
SF3 helicase domain-containing protein	A [auth B]	331	N/A	Mutation(s): 0
UniProt
Find proteins for Q54324 (Saccharolobus islandicus) Explore Q54324 Go to UniProtKB: Q54324
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q54324
Sequence Annotations Expand
Reference Sequence

Find similar nucleic acids by: Sequence

Entity ID: 2
Molecule	Chains	Length	Organism	Image
DNA (5'-D(APCPTPGPTPGPCPTPCPA)-3')	B [auth A]	10	N/A
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ATP Query on ATP Download Ideal Coordinates CCD File SDF format, chain D [auth C] MOL2 format, chain D [auth C] mmCIF format, chain D [auth C]	D [auth C]	ADENOSINE-5'-TRIPHOSPHATE C₁₀ H₁₆ N₅ O₁₃ P₃ ZKHQWZAMYRWXGA-KQYNXXCUSA-N		Interactions Focus chain D [auth C]
DGT Query on DGT Download Ideal Coordinates CCD File SDF format, chain C MOL2 format, chain C mmCIF format, chain C	C	2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE C₁₀ H₁₆ N₅ O₁₃ P₃ HAAZLUGHYHWQIW-KVQBGUIXSA-N		Interactions Focus chain C
ZN Query on ZN Download Ideal Coordinates CCD File SDF format, chain H [auth C] MOL2 format, chain H [auth C] mmCIF format, chain H [auth C]	H [auth C]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain H [auth C]
MG Query on MG Download Ideal Coordinates CCD File SDF format, chain E [auth C] SDF format, chain F [auth C] SDF format, chain G [auth C] MOL2 format, chain E [auth C] MOL2 format, chain F [auth C] MOL2 format, chain G [auth C] mmCIF format, chain E [auth C] mmCIF format, chain F [auth C] mmCIF format, chain G [auth C]	E [auth C], F [auth C], G [auth C]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain E [auth C] Focus chain F [auth C] Focus chain G [auth C]