9UTJ | pdb_00009utj

Monoclinic crystal structure of acid-stable protracted insulin

PDB DOI: https://doi.org/10.2210/pdb9UTJ/pdb

Classification: HORMONE
Organism(s): Homo sapiens
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2025-05-04 Released: 2025-10-29
Deposition Author(s): Ayan, E., Demirci, H.
Funding Organization(s): Other government

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.95 Å
R-Value Free:
0.235 (Depositor), 0.235 (DCC)
R-Value Work:
0.189 (Depositor), 0.191 (DCC)
R-Value Observed:
0.192 (Depositor)

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

Triple Calcium Binding Stoichiometry in the Monoclinic Crystal Form of Protracted Insulin

Ayan, E., Engilberge, S., Yokoi, S., Orlans, J., de Sanctis, D., Basu, S., Rive-Mathieu, E., Kepceoglu, A., Mitsutake, A., Demirci, H.

(2025) Small Struct

DOI: https://doi.org/10.1002/sstr.202500398

Macromolecule Content

Total Structure Weight: 34.93 kDa
Atom Count: 2,542
Modeled Residue Count: 297
Deposited Residue Count: 300
Unique protein chains: 2

Macromolecules

Find similar proteins by: Sequence | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Insulin A chain	A, C, E, G, I A, C, E, G, I, K	21	Homo sapiens	Mutation(s): 1 Gene Names: INS
UniProt & NIH Common Fund Data Resources
Find proteins for P01308 (Homo sapiens) Explore P01308 Go to UniProtKB: P01308
PHAROS: P01308 GTEx: ENSG00000254647
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P01308
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Insulin B chain	B, D, F, H, J B, D, F, H, J, L	29	Homo sapiens	Mutation(s): 0 Gene Names: INS
UniProt & NIH Common Fund Data Resources
Find proteins for P01308 (Homo sapiens) Explore P01308 Go to UniProtKB: P01308
PHAROS: P01308 GTEx: ENSG00000254647
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P01308
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CRS (Subject of Investigation/LOI) Query on CRS Download:Ideal Coordinates CCD File SDF format, chain M [auth A] SDF format, chain Q [auth C] SDF format, chain S [auth E] SDF format, chain V [auth G] SDF format, chain W [auth I] SDF format, chain Y [auth K] MOL2 format, chain M [auth A] MOL2 format, chain Q [auth C] MOL2 format, chain S [auth E] MOL2 format, chain V [auth G] MOL2 format, chain W [auth I] MOL2 format, chain Y [auth K] mmCIF format, chain M [auth A] mmCIF format, chain Q [auth C] mmCIF format, chain S [auth E] mmCIF format, chain V [auth G] mmCIF format, chain W [auth I] mmCIF format, chain Y [auth K]	M [auth A] Q [auth C] S [auth E] V [auth G] W [auth I] M [auth A], Q [auth C], S [auth E], V [auth G], W [auth I], Y [auth K]	M-CRESOL C₇ H₈ O RLSSMJSEOOYNOY-UHFFFAOYSA-N		Interactions Focus chain M [auth A] Focus chain Q [auth C] Focus chain S [auth E] Focus chain V [auth G] Focus chain W [auth I] Focus chain Y [auth K] Interactions & Density Focus chain M [auth A] Focus chain Q [auth C] Focus chain S [auth E] Focus chain V [auth G] Focus chain W [auth I] Focus chain Y [auth K]
ZN (Subject of Investigation/LOI) Query on ZN Download:Ideal Coordinates CCD File SDF format, chain N [auth B] SDF format, chain R [auth D] MOL2 format, chain N [auth B] MOL2 format, chain R [auth D] mmCIF format, chain N [auth B] mmCIF format, chain R [auth D]	N [auth B], R [auth D]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain N [auth B] Focus chain R [auth D] Interactions & Density Focus chain N [auth B] Focus chain R [auth D]
CA (Subject of Investigation/LOI) Query on CA Download:Ideal Coordinates CCD File SDF format, chain P [auth B] SDF format, chain U [auth F] SDF format, chain X [auth J] MOL2 format, chain P [auth B] MOL2 format, chain U [auth F] MOL2 format, chain X [auth J] mmCIF format, chain P [auth B] mmCIF format, chain U [auth F] mmCIF format, chain X [auth J]	P [auth B], U [auth F], X [auth J]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain P [auth B] Focus chain U [auth F] Focus chain X [auth J] Interactions & Density Focus chain P [auth B] Focus chain U [auth F] Focus chain X [auth J]
CL (Subject of Investigation/LOI) Query on CL Download:Ideal Coordinates CCD File SDF format, chain O [auth B] SDF format, chain T [auth F] MOL2 format, chain O [auth B] MOL2 format, chain T [auth F] mmCIF format, chain O [auth B] mmCIF format, chain T [auth F]	O [auth B], T [auth F]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain O [auth B] Focus chain T [auth F] Interactions & Density Focus chain O [auth B] Focus chain T [auth F]