9KFL | pdb_00009kfl

KRAS G12V and peptide complex

PDB DOI: https://doi.org/10.2210/pdb9KFL/pdb

Classification: ONCOPROTEIN
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2024-11-06 Released: 2025-11-12
Deposition Author(s): Ha, M.S., Jang, S.B., Han, C.W.
Funding Organization(s): National Research Foundation (NRF, Korea)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.45 Å
R-Value Free:
0.233 (Depositor), 0.238 (DCC)
R-Value Work:
0.189 (Depositor), 0.198 (DCC)
R-Value Observed:
0.191 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

KRAS G12V and TIG3 peptide complex

Ha, M.S., Jang, S.B., Han, C.W.

To be published.

Macromolecule Content

Total Structure Weight: 99.82 kDa
Atom Count: 6,932
Modeled Residue Count: 856
Deposited Residue Count: 856
Unique protein chains: 2

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Isoform 2B of GTPase KRas	A, B [auth D], C [auth E], D [auth H], E [auth K]	168	Homo sapiens	Mutation(s): 1 Gene Names: KRAS, KRAS2, RASK2 EC: 3.6.5.2
UniProt & NIH Common Fund Data Resources
Find proteins for P01116 (Homo sapiens) Explore P01116 Go to UniProtKB: P01116
PHAROS: P01116 GTEx: ENSG00000133703
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P01116
Sequence Annotations Expand
Reference Sequence

Find similar proteins by: Sequence | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
TIG3 peptide	F [auth P], G [auth Y]	8	Homo sapiens	Mutation(s): 0 EC: 2.3.1 (UniProt), 3.1.1.4 (UniProt), 3.1.1.32 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UL19 (Homo sapiens) Explore Q9UL19 Go to UniProtKB: Q9UL19
PHAROS: Q9UL19 GTEx: ENSG00000133321
Entity Groups
UniProt Group	Q9UL19
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GDP (Subject of Investigation/LOI) Query on GDP Download Ideal Coordinates CCD File SDF format, chain Q [auth K] SDF format, chain O [auth H] SDF format, chain M [auth E] SDF format, chain K [auth D] SDF format, chain I [auth A] MOL2 format, chain Q [auth K] MOL2 format, chain O [auth H] MOL2 format, chain M [auth E] MOL2 format, chain K [auth D] MOL2 format, chain I [auth A] mmCIF format, chain Q [auth K] mmCIF format, chain O [auth H] mmCIF format, chain M [auth E] mmCIF format, chain K [auth D] mmCIF format, chain I [auth A]	I [auth A], K [auth D], M [auth E], O [auth H], Q [auth K]	GUANOSINE-5'-DIPHOSPHATE C₁₀ H₁₅ N₅ O₁₁ P₂ QGWNDRXFNXRZMB-UUOKFMHZSA-N		Interactions Focus chain I [auth A] Focus chain K [auth D] Focus chain M [auth E] Focus chain O [auth H] Focus chain Q [auth K] Interactions & Density Focus chain I [auth A] Focus chain K [auth D] Focus chain M [auth E] Focus chain O [auth H] Focus chain Q [auth K]
MG (Subject of Investigation/LOI) Query on MG Download Ideal Coordinates CCD File SDF format, chain P [auth K] SDF format, chain N [auth H] SDF format, chain L [auth E] SDF format, chain J [auth D] SDF format, chain H [auth A] MOL2 format, chain P [auth K] MOL2 format, chain N [auth H] MOL2 format, chain L [auth E] MOL2 format, chain J [auth D] MOL2 format, chain H [auth A] mmCIF format, chain P [auth K] mmCIF format, chain N [auth H] mmCIF format, chain L [auth E] mmCIF format, chain J [auth D] mmCIF format, chain H [auth A]	H [auth A], J [auth D], L [auth E], N [auth H], P [auth K]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain H [auth A] Focus chain J [auth D] Focus chain L [auth E] Focus chain N [auth H] Focus chain P [auth K] Interactions & Density Focus chain H [auth A] Focus chain J [auth D] Focus chain L [auth E] Focus chain N [auth H] Focus chain P [auth K]