8QQN | pdb_00008qqn

Portal protein of full Haloferax tailed virus 1.

PDB DOI: https://doi.org/10.2210/pdb8QQN/pdb
EM Map EMD-18599: EMDB EMDataResource

Classification: VIRUS
Organism(s): Haloferax tailed virus 1
Mutation(s): No

Deposited: 2023-10-05 Released: 2024-10-16
Deposition Author(s): Zhang, D., Daum, B., Isupov, M.N., McLaren, M.
Funding Organization(s): European Research Council (ERC)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.34 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

CryoEM structure of Haloferax tailed virus 1

Zhang, D., Daum, B., Isupov, M.N., McLaren, M., Oksanen, H., Quax, T.E.F., Schwarzer, S., Gold, V.A.M., Antson, A.

To be published.

Macromolecule Content

Total Structure Weight: 1,095.49 kDa
Atom Count: 50,328
Modelled Residue Count: 6,432
Deposited Residue Count: 9,792
Unique protein chains: 2

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HK97 gp6-like/SPP1 gp15-like head-tail connector	A [auth PX] N [auth PM] O [auth PN] P [auth PO] Q [auth PP] A [auth PX], N [auth PM], O [auth PN], P [auth PO], Q [auth PP], R [auth PQ], S [auth PR], T [auth PS], U [auth PT], V [auth PU], W [auth PV], X [auth PW]	141	Haloferax tailed virus 1	Mutation(s): 0
UniProt
Find proteins for A0A410N6S3 (Haloferax tailed virus 1) Explore A0A410N6S3 Go to UniProtKB: A0A410N6S3
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A410N6S3
Sequence Annotations Expand
Reference Sequence LOADING

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Portal protein	B [auth PA] C [auth PB] D [auth PC] E [auth PD] F [auth PE] B [auth PA], C [auth PB], D [auth PC], E [auth PD], F [auth PE], G [auth PF], H [auth PG], I [auth PH], J [auth PI], K [auth PJ], L [auth PK], M [auth PL]	675	Haloferax tailed virus 1	Mutation(s): 0
UniProt
Find proteins for A0A410N6Q2 (Haloferax tailed virus 1) Explore A0A410N6Q2 Go to UniProtKB: A0A410N6Q2
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A410N6Q2
Sequence Annotations Expand
Reference Sequence LOADING

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MG (Subject of Investigation/LOI) Query on MG Download Ideal Coordinates CCD File SDF format, chain AA [auth PN] SDF format, chain BA [auth PO] SDF format, chain CA [auth PP] SDF format, chain DA [auth PQ] SDF format, chain EA [auth PR] SDF format, chain FA [auth PS] SDF format, chain GA [auth PT] SDF format, chain HA [auth PU] SDF format, chain IA [auth PV] SDF format, chain JA [auth PW] SDF format, chain Y [auth PX] SDF format, chain Z [auth PM] MOL2 format, chain AA [auth PN] MOL2 format, chain BA [auth PO] MOL2 format, chain CA [auth PP] MOL2 format, chain DA [auth PQ] MOL2 format, chain EA [auth PR] MOL2 format, chain FA [auth PS] MOL2 format, chain GA [auth PT] MOL2 format, chain HA [auth PU] MOL2 format, chain IA [auth PV] MOL2 format, chain JA [auth PW] MOL2 format, chain Y [auth PX] MOL2 format, chain Z [auth PM] mmCIF format, chain AA [auth PN] mmCIF format, chain BA [auth PO] mmCIF format, chain CA [auth PP] mmCIF format, chain DA [auth PQ] mmCIF format, chain EA [auth PR] mmCIF format, chain FA [auth PS] mmCIF format, chain GA [auth PT] mmCIF format, chain HA [auth PU] mmCIF format, chain IA [auth PV] mmCIF format, chain JA [auth PW] mmCIF format, chain Y [auth PX] mmCIF format, chain Z [auth PM]	AA [auth PN] BA [auth PO] CA [auth PP] DA [auth PQ] EA [auth PR] AA [auth PN], BA [auth PO], CA [auth PP], DA [auth PQ], EA [auth PR], FA [auth PS], GA [auth PT], HA [auth PU], IA [auth PV], JA [auth PW], Y [auth PX], Z [auth PM]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain AA [auth PN] Focus chain BA [auth PO] Focus chain CA [auth PP] Focus chain DA [auth PQ] Focus chain EA [auth PR] Focus chain FA [auth PS] Focus chain GA [auth PT] Focus chain HA [auth PU] Focus chain IA [auth PV] Focus chain JA [auth PW] Focus chain Y [auth PX] Focus chain Z [auth PM] Interactions & Density Focus chain AA [auth PN] Focus chain BA [auth PO] Focus chain CA [auth PP] Focus chain DA [auth PQ] Focus chain EA [auth PR] Focus chain FA [auth PS] Focus chain GA [auth PT] Focus chain HA [auth PU] Focus chain IA [auth PV] Focus chain JA [auth PW] Focus chain Y [auth PX] Focus chain Z [auth PM]

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
HIP Query on HIP	B [auth PA] C [auth PB] D [auth PC] E [auth PD] F [auth PE] B [auth PA], C [auth PB], D [auth PC], E [auth PD], F [auth PE], G [auth PF], H [auth PG], I [auth PH], J [auth PI], K [auth PJ], L [auth PK], M [auth PL]	L-PEPTIDE LINKING	C₆ H₁₁ N₃ O₅ P		HIS