9PCT | pdb_00009pct

Structure of Porcine Trypsin Crystals Grown from PEG Complexed with Crystallization Additives III

PDB DOI: https://doi.org/10.2210/pdb9PCT/pdb

Classification: PEPTIDE BINDING PROTEIN
Organism(s): Sus scrofa
Expression System: Sus scrofa
Mutation(s): No

Deposited: 2025-06-29 Released: 2025-09-17
Deposition Author(s): McPherson, A.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.41 Å
R-Value Free:
0.170 (Depositor), 0.170 (DCC)
R-Value Work:
0.131 (Depositor), 0.131 (DCC)
R-Value Observed:
0.134 (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

Structure of Porcine Trypsin Crystals Grown from PEG Complexed with Crystallization Additives III

McPherson, A.

To be published.

Macromolecule Content

Total Structure Weight: 30.14 kDa
Atom Count: 2,252
Modeled Residue Count: 223
Deposited Residue Count: 231
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Trypsin	A	231	Sus scrofa	Mutation(s): 0 EC: 3.4.21.4
UniProt
Find proteins for P00761 (Sus scrofa) Explore P00761 Go to UniProtKB: P00761
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P00761
Sequence Annotations Expand
Reference Sequence

Oligosaccharides

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Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-fructofuranose-(2-1)-alpha-D-glucopyranose	B	2		N/A	Interactions Focus chain B Interactions & Density Focus chain B
Glycosylation Resources
GlyTouCan: G05551OP GlyCosmos: G05551OP

Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
alpha-D-glucopyranose-(1-2)-beta-D-fructofuranose	C [auth F]	2		N/A	Interactions Focus chain C [auth F] Interactions & Density Focus chain C [auth F]
Glycosylation Resources
GlyTouCan: G05551OP GlyCosmos: G05551OP

Small Molecules

Ligands 13 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PG6 Query on PG6 Download Ideal Coordinates CCD File SDF format, chain O [auth A] SDF format, chain FA [auth A] MOL2 format, chain O [auth A] MOL2 format, chain FA [auth A] mmCIF format, chain O [auth A] mmCIF format, chain FA [auth A]	FA [auth A], O [auth A]	1-(2-METHOXY-ETHOXY)-2-{2-[2-(2-METHOXY-ETHOXY]-ETHOXY}-ETHANE C₁₂ H₂₆ O₆ DMDPGPKXQDIQQG-UHFFFAOYSA-N		Interactions Focus chain FA [auth A] Focus chain O [auth A] Interactions & Density Focus chain FA [auth A] Focus chain O [auth A]
EPE (Subject of Investigation/LOI) Query on EPE Download Ideal Coordinates CCD File SDF format, chain Q [auth A] SDF format, chain P [auth A] MOL2 format, chain Q [auth A] MOL2 format, chain P [auth A] mmCIF format, chain Q [auth A] mmCIF format, chain P [auth A]	P [auth A], Q [auth A]	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID C₈ H₁₈ N₂ O₄ S JKMHFZQWWAIEOD-UHFFFAOYSA-N		Interactions Focus chain P [auth A] Focus chain Q [auth A] Interactions & Density Focus chain P [auth A] Focus chain Q [auth A]
PG4 Query on PG4 Download Ideal Coordinates CCD File SDF format, chain J [auth A] SDF format, chain G [auth A] MOL2 format, chain J [auth A] MOL2 format, chain G [auth A] mmCIF format, chain J [auth A] mmCIF format, chain G [auth A]	G [auth A], J [auth A]	TETRAETHYLENE GLYCOL C₈ H₁₈ O₅ UWHCKJMYHZGTIT-UHFFFAOYSA-N		Interactions Focus chain G [auth A] Focus chain J [auth A] Interactions & Density Focus chain G [auth A] Focus chain J [auth A]
FLC (Subject of Investigation/LOI) Query on FLC Download Ideal Coordinates CCD File SDF format, chain LA [auth A] SDF format, chain F [auth A] MOL2 format, chain LA [auth A] MOL2 format, chain F [auth A] mmCIF format, chain LA [auth A] mmCIF format, chain F [auth A]	F [auth A], LA [auth A]	CITRATE ANION C₆ H₅ O₇ KRKNYBCHXYNGOX-UHFFFAOYSA-K		Interactions Focus chain F [auth A] Focus chain LA [auth A] Interactions & Density Focus chain F [auth A] Focus chain LA [auth A]
PG5 Query on PG5 Download Ideal Coordinates CCD File SDF format, chain W [auth A] SDF format, chain L [auth A] SDF format, chain HA [auth A] SDF format, chain EA [auth A] SDF format, chain CA [auth A] MOL2 format, chain W [auth A] MOL2 format, chain L [auth A] MOL2 format, chain HA [auth A] MOL2 format, chain EA [auth A] MOL2 format, chain CA [auth A] mmCIF format, chain W [auth A] mmCIF format, chain L [auth A] mmCIF format, chain HA [auth A] mmCIF format, chain EA [auth A] mmCIF format, chain CA [auth A]	CA [auth A], EA [auth A], HA [auth A], L [auth A], W [auth A]	1-METHOXY-2-[2-(2-METHOXY-ETHOXY]-ETHANE C₈ H₁₈ O₄ YFNKIDBQEZZDLK-UHFFFAOYSA-N		Interactions Focus chain CA [auth A] Focus chain EA [auth A] Focus chain HA [auth A] Focus chain L [auth A] Focus chain W [auth A] Interactions & Density Focus chain CA [auth A] Focus chain EA [auth A] Focus chain HA [auth A] Focus chain L [auth A] Focus chain W [auth A]
TAR (Subject of Investigation/LOI) Query on TAR Download Ideal Coordinates CCD File SDF format, chain MA [auth A] MOL2 format, chain MA [auth A] mmCIF format, chain MA [auth A]	MA [auth A]	D(-)-TARTARIC ACID C₄ H₆ O₆ FEWJPZIEWOKRBE-LWMBPPNESA-N		Interactions Focus chain MA [auth A] Interactions & Density Focus chain MA [auth A]
MLT (Subject of Investigation/LOI) Query on MLT Download Ideal Coordinates CCD File SDF format, chain V [auth A] SDF format, chain N [auth A] SDF format, chain JA [auth A] MOL2 format, chain V [auth A] MOL2 format, chain N [auth A] MOL2 format, chain JA [auth A] mmCIF format, chain V [auth A] mmCIF format, chain N [auth A] mmCIF format, chain JA [auth A]	JA [auth A], N [auth A], V [auth A]	D-MALATE C₄ H₆ O₅ BJEPYKJPYRNKOW-UWTATZPHSA-N		Interactions Focus chain JA [auth A] Focus chain N [auth A] Focus chain V [auth A] Interactions & Density Focus chain JA [auth A] Focus chain N [auth A] Focus chain V [auth A]
BEN Query on BEN Download Ideal Coordinates CCD File SDF format, chain U [auth A] SDF format, chain IA [auth A] SDF format, chain E [auth A] MOL2 format, chain U [auth A] MOL2 format, chain IA [auth A] MOL2 format, chain E [auth A] mmCIF format, chain U [auth A] mmCIF format, chain IA [auth A] mmCIF format, chain E [auth A]	E [auth A], IA [auth A], U [auth A]	BENZAMIDINE C₇ H₈ N₂ PXXJHWLDUBFPOL-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Focus chain IA [auth A] Focus chain U [auth A] Interactions & Density Focus chain E [auth A] Focus chain IA [auth A] Focus chain U [auth A]
PEG Query on PEG Download Ideal Coordinates CCD File SDF format, chain Z [auth A] SDF format, chain Y [auth A] SDF format, chain M [auth A] SDF format, chain KA [auth A] SDF format, chain I [auth A] SDF format, chain H [auth A] SDF format, chain GA [auth A] SDF format, chain BA [auth A] SDF format, chain AA [auth A] MOL2 format, chain Z [auth A] MOL2 format, chain Y [auth A] MOL2 format, chain M [auth A] MOL2 format, chain KA [auth A] MOL2 format, chain I [auth A] MOL2 format, chain H [auth A] MOL2 format, chain GA [auth A] MOL2 format, chain BA [auth A] MOL2 format, chain AA [auth A] mmCIF format, chain Z [auth A] mmCIF format, chain Y [auth A] mmCIF format, chain M [auth A] mmCIF format, chain KA [auth A] mmCIF format, chain I [auth A] mmCIF format, chain H [auth A] mmCIF format, chain GA [auth A] mmCIF format, chain BA [auth A] mmCIF format, chain AA [auth A]	AA [auth A] BA [auth A] GA [auth A] H [auth A] I [auth A] AA [auth A], BA [auth A], GA [auth A], H [auth A], I [auth A], KA [auth A], M [auth A], Y [auth A], Z [auth A]	DI(HYDROXYETHYL)ETHER C₄ H₁₀ O₃ MTHSVFCYNBDYFN-UHFFFAOYSA-N		Interactions Focus chain AA [auth A] Focus chain BA [auth A] Focus chain GA [auth A] Focus chain H [auth A] Focus chain I [auth A] Focus chain KA [auth A] Focus chain M [auth A] Focus chain Y [auth A] Focus chain Z [auth A] Interactions & Density Focus chain AA [auth A] Focus chain BA [auth A] Focus chain GA [auth A] Focus chain H [auth A] Focus chain I [auth A] Focus chain KA [auth A] Focus chain M [auth A] Focus chain Y [auth A] Focus chain Z [auth A]
PO4 Query on PO4 Download Ideal Coordinates CCD File SDF format, chain S [auth A] MOL2 format, chain S [auth A] mmCIF format, chain S [auth A]	S [auth A]	PHOSPHATE ION O₄ P NBIIXXVUZAFLBC-UHFFFAOYSA-K		Interactions Focus chain S [auth A] Interactions & Density Focus chain S [auth A]
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain X [auth A] SDF format, chain K [auth A] MOL2 format, chain X [auth A] MOL2 format, chain K [auth A] mmCIF format, chain X [auth A] mmCIF format, chain K [auth A]	K [auth A], X [auth A]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain K [auth A] Focus chain X [auth A] Interactions & Density Focus chain K [auth A] Focus chain X [auth A]
ACT Query on ACT Download Ideal Coordinates CCD File SDF format, chain T [auth A] SDF format, chain R [auth A] SDF format, chain DA [auth A] MOL2 format, chain T [auth A] MOL2 format, chain R [auth A] MOL2 format, chain DA [auth A] mmCIF format, chain T [auth A] mmCIF format, chain R [auth A] mmCIF format, chain DA [auth A]	DA [auth A], R [auth A], T [auth A]	ACETATE ION C₂ H₃ O₂ QTBSBXVTEAMEQO-UHFFFAOYSA-M		Interactions Focus chain DA [auth A] Focus chain R [auth A] Focus chain T [auth A] Interactions & Density Focus chain DA [auth A] Focus chain R [auth A] Focus chain T [auth A]
CA Query on CA Download Ideal Coordinates CCD File SDF format, chain D [auth A] MOL2 format, chain D [auth A] mmCIF format, chain D [auth A]	D [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain D [auth A] Interactions & Density Focus chain D [auth A]