9CXN

Crystal structure of Human FN3K bound with AMPPNP and DMF

PDB DOI: https://doi.org/10.2210/pdb9CXN/pdb

Classification: TRANSFERASE
Organism(s): Homo sapiens
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2024-07-31 Released: 2024-12-18
Deposition Author(s): Garg, A., On, K.F., Joshua-Tor, L.
Funding Organization(s): Howard Hughes Medical Institute (HHMI)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.90 Å
R-Value Free: 0.221
R-Value Work: 0.176
R-Value Observed: 0.178

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Crystal structure of Human FN3K bound with AMPPNP and DMF

Garg, A., On, K.F., Joshua-Tor, L.

To be published.

Macromolecule Content

Total Structure Weight: 68.44 kDa
Atom Count: 5,253
Modelled Residue Count: 578
Deposited Residue Count: 582
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fructosamine-3-kinase	A, B	291	Homo sapiens	Mutation(s): 0 Gene Names: FN3K EC: 2.7.1.171 (PDB Primary Data), 2.7.1.172 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for Q9H479 (Homo sapiens) Explore Q9H479 Go to UniProtKB: Q9H479
PHAROS: Q9H479 GTEx: ENSG00000167363
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q9H479
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ANP (Subject of Investigation/LOI) Query on ANP Download Ideal Coordinates CCD File SDF format, chain O [auth B] SDF format, chain H [auth A] MOL2 format, chain O [auth B] MOL2 format, chain H [auth A] mmCIF format, chain O [auth B] mmCIF format, chain H [auth A]	H [auth A], O [auth B]	PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER C₁₀ H₁₇ N₆ O₁₂ P₃ PVKSNHVPLWYQGJ-KQYNXXCUSA-N		Interactions Focus chain H [auth A] Focus chain O [auth B] Interactions & Density Focus chain H [auth A] Focus chain O [auth B]
A1A0O (Subject of Investigation/LOI) Query on A1A0O Download Ideal Coordinates CCD File SDF format, chain S [auth B] SDF format, chain J [auth A] MOL2 format, chain S [auth B] MOL2 format, chain J [auth A] mmCIF format, chain S [auth B] mmCIF format, chain J [auth A]	J [auth A], S [auth B]	1-deoxy-1-(morpholin-4-yl)-D-fructose C₁₀ H₁₉ N O₆ JPANQHVKLYKLEB-OPRDCNLKSA-N		Interactions Focus chain J [auth A] Focus chain S [auth B] Interactions & Density Focus chain J [auth A] Focus chain S [auth B]
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain D [auth A] SDF format, chain M [auth B] MOL2 format, chain C [auth A] MOL2 format, chain D [auth A] MOL2 format, chain M [auth B] mmCIF format, chain C [auth A] mmCIF format, chain D [auth A] mmCIF format, chain M [auth B]	C [auth A], D [auth A], M [auth B]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain C [auth A] Focus chain D [auth A] Focus chain M [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth A] Focus chain M [auth B]
EDO Query on EDO Download Ideal Coordinates CCD File SDF format, chain G [auth A] SDF format, chain I [auth A] SDF format, chain L [auth A] SDF format, chain N [auth B] SDF format, chain Q [auth B] SDF format, chain R [auth B] SDF format, chain E [auth A] SDF format, chain F [auth A] SDF format, chain K [auth A] SDF format, chain P [auth B] MOL2 format, chain G [auth A] MOL2 format, chain I [auth A] MOL2 format, chain L [auth A] MOL2 format, chain N [auth B] MOL2 format, chain Q [auth B] MOL2 format, chain R [auth B] MOL2 format, chain E [auth A] MOL2 format, chain F [auth A] MOL2 format, chain K [auth A] MOL2 format, chain P [auth B] mmCIF format, chain G [auth A] mmCIF format, chain I [auth A] mmCIF format, chain L [auth A] mmCIF format, chain N [auth B] mmCIF format, chain Q [auth B] mmCIF format, chain R [auth B] mmCIF format, chain E [auth A] mmCIF format, chain F [auth A] mmCIF format, chain K [auth A] mmCIF format, chain P [auth B]	E [auth A] F [auth A] G [auth A] I [auth A] K [auth A] E [auth A], F [auth A], G [auth A], I [auth A], K [auth A], L [auth A], N [auth B], P [auth B], Q [auth B], R [auth B]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Focus chain F [auth A] Focus chain G [auth A] Focus chain I [auth A] Focus chain K [auth A] Focus chain L [auth A] Focus chain N [auth B] Focus chain P [auth B] Focus chain Q [auth B] Focus chain R [auth B] Interactions & Density Focus chain E [auth A] Focus chain F [auth A] Focus chain G [auth A] Focus chain I [auth A] Focus chain K [auth A] Focus chain L [auth A] Focus chain N [auth B] Focus chain P [auth B] Focus chain Q [auth B] Focus chain R [auth B]