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1q3q

Crystal structure of the chaperonin from Thermococcus strain KS-1 (two-point mutant complexed with AMP-PNP)

Method: X-RAY DIFFRACTION
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1. Protein Identity and Related Structures Protein Identity & Related Structures

Thermosome alpha subunit

Thermococcus sp.

UniProt O24729

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein homooligomer Homooligomer Protein 16 MAGNESIUM ION × 16 PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER × 16 water × 16 Consistent with protein count
2 Protein homooligomer Homooligomer Protein 8 MAGNESIUM ION × 8 PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER × 8 water × 8 Consistent with protein count
3 Protein homooligomer Homooligomer Protein 8 MAGNESIUM ION × 8 PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER × 8 water × 8 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers
1q2v 1q2v 1q2v 1q3q 1q3q 1q3q 1q3r 1q3r 1q3r 1q3s

10 assemblies

Heteromeric or nucleic-acid complex

None

View Construct and Data Evidence
UniProt name THSA_PYRKOX
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–548； UniProt 1–548 Author chain B； PDBConstruct 1–548； UniProt 1–548 Author chain C； PDBConstruct 1–548； UniProt 1–548 Author chain D； PDBConstruct 1–548； UniProt 1–548

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id1q3q
Deposition date deposition_date2003-07-31
Structure title titleCrystal structure of the chaperonin from Thermococcus strain KS-1 (two-point mutant complexed with AMP-PNP)
Keywords keywordschaperone, chaperonin, thermosome; CHAPERONE
Experimental Method methodX-RAY DIFFRACTION
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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

1q3q__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

1q3q__assembly_1__model_1 | I(q)

10-2 10-1 106 107 108 109 1010 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

1q3q__assembly_1__model_1 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg（Guinier）65.27 Å
Rg (electron density)64.23 Å
Total Rg64.34 Å
Atom count63664
Residues8288
Excluded volume1146300 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1q3q__assembly_1__model_1 hexadecameric （16） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 1q3q__assembly_2__model_1 octameric （8） Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 1q3q__assembly_3__model_1 octameric （8） Success 4.1.3-1-20251215 (887e7ef) View Download
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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (4)

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6. Fold Classification (SCOP + CATH) 24 domains

SCOP 2.08 (12 domains)

Domain ID domain_idd1q3qa1
Class classa — All alpha proteins
Fold Fold folda.129 — GroEL equatorial domain-like
Superfamily Superfamily superfamilya.129.1 — GroEL equatorial domain-like
Family Family familya.129.1.2 — Group II chaperonin (CCT, TRIC), ATPase domain
Domain ID domain_idd1q3qa2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.8 — The 'swivelling' beta/beta/alpha domain
Superfamily Superfamily superfamilyc.8.5 — GroEL apical domain-like
Family Family familyc.8.5.2 — Group II chaperonin (CCT, TRIC), apical domain
Domain ID domain_idd1q3qa3
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.56 — GroEL-intermediate domain like
Superfamily Superfamily superfamilyd.56.1 — GroEL-intermediate domain like
Family Family familyd.56.1.2 — Group II chaperonin (CCT, TRIC), intermediate domain
Domain ID domain_idd1q3qb1
Class classa — All alpha proteins
Fold Fold folda.129 — GroEL equatorial domain-like
Superfamily Superfamily superfamilya.129.1 — GroEL equatorial domain-like
Family Family familya.129.1.2 — Group II chaperonin (CCT, TRIC), ATPase domain
Domain ID domain_idd1q3qb2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.8 — The 'swivelling' beta/beta/alpha domain
Superfamily Superfamily superfamilyc.8.5 — GroEL apical domain-like
Family Family familyc.8.5.2 — Group II chaperonin (CCT, TRIC), apical domain
Domain ID domain_idd1q3qb3
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.56 — GroEL-intermediate domain like
Superfamily Superfamily superfamilyd.56.1 — GroEL-intermediate domain like
Family Family familyd.56.1.2 — Group II chaperonin (CCT, TRIC), intermediate domain
Domain ID domain_idd1q3qc1
Class classa — All alpha proteins
Fold Fold folda.129 — GroEL equatorial domain-like
Superfamily Superfamily superfamilya.129.1 — GroEL equatorial domain-like
Family Family familya.129.1.2 — Group II chaperonin (CCT, TRIC), ATPase domain
Domain ID domain_idd1q3qc2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.8 — The 'swivelling' beta/beta/alpha domain
Superfamily Superfamily superfamilyc.8.5 — GroEL apical domain-like
Family Family familyc.8.5.2 — Group II chaperonin (CCT, TRIC), apical domain
Domain ID domain_idd1q3qc3
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.56 — GroEL-intermediate domain like
Superfamily Superfamily superfamilyd.56.1 — GroEL-intermediate domain like
Family Family familyd.56.1.2 — Group II chaperonin (CCT, TRIC), intermediate domain
Domain ID domain_idd1q3qd1
Class classa — All alpha proteins
Fold Fold folda.129 — GroEL equatorial domain-like
Superfamily Superfamily superfamilya.129.1 — GroEL equatorial domain-like
Family Family familya.129.1.2 — Group II chaperonin (CCT, TRIC), ATPase domain
Domain ID domain_idd1q3qd2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.8 — The 'swivelling' beta/beta/alpha domain
Superfamily Superfamily superfamilyc.8.5 — GroEL apical domain-like
Family Family familyc.8.5.2 — Group II chaperonin (CCT, TRIC), apical domain
Domain ID domain_idd1q3qd3
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.56 — GroEL-intermediate domain like
Superfamily Superfamily superfamilyd.56.1 — GroEL-intermediate domain like
Family Family familyd.56.1.2 — Group II chaperonin (CCT, TRIC), intermediate domain

CATH v4.4 (12 domains)

Domain ID domain_id1q3qA01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology560 — GROEL; domain 1
Homologous superfamily homologous superfamily10 — GroEL-like equatorial domain
Domain ID domain_id1q3qA02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology260 — GROEL; domain 2
Homologous superfamily homologous superfamily10 — TCP-1-like chaperonin intermediate domain
Domain ID domain_id1q3qA03
Class class3 — Alpha Beta
Architecture architecture50 — 3-Layer(bba) Sandwich
Topology topology7 — GroEL
Homologous superfamily homologous superfamily10 — GroEL
Domain ID domain_id1q3qB01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology560 — GROEL; domain 1
Homologous superfamily homologous superfamily10 — GroEL-like equatorial domain
Domain ID domain_id1q3qB02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology260 — GROEL; domain 2
Homologous superfamily homologous superfamily10 — TCP-1-like chaperonin intermediate domain
Domain ID domain_id1q3qB03
Class class3 — Alpha Beta
Architecture architecture50 — 3-Layer(bba) Sandwich
Topology topology7 — GroEL
Homologous superfamily homologous superfamily10 — GroEL
Domain ID domain_id1q3qC01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology560 — GROEL; domain 1
Homologous superfamily homologous superfamily10 — GroEL-like equatorial domain
Domain ID domain_id1q3qC02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology260 — GROEL; domain 2
Homologous superfamily homologous superfamily10 — TCP-1-like chaperonin intermediate domain
Domain ID domain_id1q3qC03
Class class3 — Alpha Beta
Architecture architecture50 — 3-Layer(bba) Sandwich
Topology topology7 — GroEL
Homologous superfamily homologous superfamily10 — GroEL
Domain ID domain_id1q3qD01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology560 — GROEL; domain 1
Homologous superfamily homologous superfamily10 — GroEL-like equatorial domain
Domain ID domain_id1q3qD02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology260 — GROEL; domain 2
Homologous superfamily homologous superfamily10 — TCP-1-like chaperonin intermediate domain
Domain ID domain_id1q3qD03
Class class3 — Alpha Beta
Architecture architecture50 — 3-Layer(bba) Sandwich
Topology topology7 — GroEL
Homologous superfamily homologous superfamily10 — GroEL
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7. Citations (2)