9CAM | pdb_00009cam

Aminopeptidase N close state

PDB DOI: https://doi.org/10.2210/pdb9CAM/pdb
EM Map EMD-45396: EMDB EMDataResource

Classification: HYDROLASE
Organism(s): Homo sapiens
Mutation(s): No

Deposited: 2024-06-17 Released: 2025-08-06
Deposition Author(s): Lyu, M., Zhang, Z.
Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.96 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

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

Literature

Aminopeptidase N close state

Lyu, M., Zhang, Z.

To be published.

Macromolecule Content

Total Structure Weight: 225.01 kDa
Atom Count: 14,945
Modeled Residue Count: 1,802
Deposited Residue Count: 1,934
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Aminopeptidase N	A [auth B], B [auth A]	967	Homo sapiens	Mutation(s): 0 EC: 3.4.11.2
UniProt & NIH Common Fund Data Resources
Find proteins for P15144 (Homo sapiens) Explore P15144 Go to UniProtKB: P15144
PHAROS: P15144 GTEx: ENSG00000166825
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P15144
Glycosylation
Glycosylation Sites: 8	Glycosylation Focus chain A [auth B] Focus chain B [auth A]	Go to GlyGen: P15144-1
Sequence Annotations Expand
Reference Sequence

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	C, D, E, I	3		N-Glycosylation	Interactions Focus chain C Focus chain D Focus chain E Focus chain I Interactions & Density Focus chain C Focus chain D Focus chain E Focus chain I
Glycosylation Resources
GlyTouCan: G15407YE GlyCosmos: G15407YE GlyGen: G15407YE

Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	F, G, H, J	2		N-Glycosylation	Interactions Focus chain F Focus chain G Focus chain H Focus chain J Interactions & Density Focus chain F Focus chain G Focus chain H Focus chain J
Glycosylation Resources
GlyTouCan: G42666HT GlyCosmos: G42666HT GlyGen: G42666HT

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAG Query on NAG Download Ideal Coordinates CCD File SDF format, chain O [auth A] SDF format, chain R [auth A] SDF format, chain S [auth A] SDF format, chain Q [auth A] SDF format, chain N [auth B] SDF format, chain M [auth B] SDF format, chain K [auth B] MOL2 format, chain O [auth A] MOL2 format, chain R [auth A] MOL2 format, chain S [auth A] MOL2 format, chain Q [auth A] MOL2 format, chain N [auth B] MOL2 format, chain M [auth B] MOL2 format, chain K [auth B] mmCIF format, chain O [auth A] mmCIF format, chain R [auth A] mmCIF format, chain S [auth A] mmCIF format, chain Q [auth A] mmCIF format, chain N [auth B] mmCIF format, chain M [auth B] mmCIF format, chain K [auth B]	K [auth B] M [auth B] N [auth B] O [auth A] Q [auth A] K [auth B], M [auth B], N [auth B], O [auth A], Q [auth A], R [auth A], S [auth A]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain K [auth B] Focus chain M [auth B] Focus chain N [auth B] Focus chain O [auth A] Focus chain Q [auth A] Focus chain R [auth A] Focus chain S [auth A] Interactions & Density Focus chain K [auth B] Focus chain M [auth B] Focus chain N [auth B] Focus chain O [auth A] Focus chain Q [auth A] Focus chain R [auth A] Focus chain S [auth A]
ZN Query on ZN Download Ideal Coordinates CCD File SDF format, chain L [auth B] SDF format, chain P [auth A] MOL2 format, chain L [auth B] MOL2 format, chain P [auth A] mmCIF format, chain L [auth B] mmCIF format, chain P [auth A]	L [auth B], P [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain L [auth B] Focus chain P [auth A] Interactions & Density Focus chain L [auth B] Focus chain P [auth A]