1Z7Z

Cryo-em structure of human coxsackievirus A21 complexed with five domain icam-1kilifi

PDB DOI: https://doi.org/10.2210/pdb1Z7Z/pdb
EM Map EMD-1114: EMDB EMDataResource

Classification: Virus/Receptor
Organism(s): Coxsackievirus A21, Homo sapiens
Mutation(s): Yes

Deposited: 2005-03-28 Released: 2005-08-02
Deposition Author(s): Xiao, C., Bator-Kelly, C.M., Rieder, E., Chipman, P.R., Craig, A., Kuhn, R.J., Wimmer, E., Rossmann, M.G.

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 8.00 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 2.1 of the entry. See complete history.

Macromolecule Content

Total Structure Weight: 140.66 kDa
Atom Count: 8,824
Modelled Residue Count: 1,120
Deposited Residue Count: 1,260
Unique protein chains: 6

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
human coxsackievirus A21	A [auth 1]	286	Coxsackievirus A21	Mutation(s): 0
UniProt
Find proteins for Q7T7N6 (Coxsackievirus A21) Explore Q7T7N6 Go to UniProtKB: Q7T7N6
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q7T7N6
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
human coxsackievirus A21	B [auth 2]	272	Coxsackievirus A21	Mutation(s): 0
UniProt
Find proteins for Q7T7N6 (Coxsackievirus A21) Explore Q7T7N6 Go to UniProtKB: Q7T7N6
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q7T7N6
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
human coxsackievirus A21	C [auth 3]	234	Coxsackievirus A21	Mutation(s): 0
UniProt
Find proteins for Q7T7N6 (Coxsackievirus A21) Explore Q7T7N6 Go to UniProtKB: Q7T7N6
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q7T7N6
Sequence Annotations Expand
Reference Sequence

Find similar proteins by: Sequence | 3D Structure

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
human coxsackievirus A21	D [auth 4]	12	Coxsackievirus A21	Mutation(s): 0
UniProt
Find proteins for P22055 (Coxsackievirus A21 (strain Coe)) Explore P22055 Go to UniProtKB: P22055
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P22055
Sequence Annotations Expand
Reference Sequence

Find similar proteins by: Sequence | 3D Structure

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
human coxsackievirus A21	E [auth 5]	6	Coxsackievirus A21	Mutation(s): 0
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
Intercellular adhesion molecule-1	F [auth I]	450	Homo sapiens	Mutation(s): 1
UniProt & NIH Common Fund Data Resources
Find proteins for P05362 (Homo sapiens) Explore P05362 Go to UniProtKB: P05362
PHAROS: P05362 GTEx: ENSG00000090339
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P05362
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAG Query on NAG Download Ideal Coordinates CCD File SDF format, chain G [auth I] SDF format, chain H [auth I] SDF format, chain I SDF format, chain J [auth I] SDF format, chain K [auth I] SDF format, chain L [auth I] SDF format, chain M [auth I] SDF format, chain N [auth I] MOL2 format, chain G [auth I] MOL2 format, chain H [auth I] MOL2 format, chain I MOL2 format, chain J [auth I] MOL2 format, chain K [auth I] MOL2 format, chain L [auth I] MOL2 format, chain M [auth I] MOL2 format, chain N [auth I]	G [auth I] H [auth I] I J [auth I] K [auth I] G [auth I], H [auth I], I, J [auth I], K [auth I], L [auth I], M [auth I], N [auth I]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain G [auth I] Focus chain H [auth I] Focus chain I Focus chain J [auth I] Focus chain K [auth I] Focus chain L [auth I] Focus chain M [auth I] Focus chain N [auth I] Interactions & Density Focus chain G [auth I] Focus chain H [auth I] Focus chain I Focus chain J [auth I] Focus chain K [auth I] Focus chain L [auth I] Focus chain M [auth I] Focus chain N [auth I]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 8.00 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	EM3DR
RECONSTRUCTION	PFT

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2005-08-02

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2005-08-02
Type: Initial release
Version 1.1: 2008-04-30
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Non-polymer description, Version format compliance
Version 1.3: 2018-07-18
Changes: Data collection
Version 1.4: 2019-12-18
Changes: Derived calculations, Other
Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Atomic model, Data collection, Derived calculations, Non-polymer description, Structure summary
Version 2.1: 2021-10-20
Changes: Database references, Structure summary