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3l7z

Crystal structure of the S. solfataricus archaeal exosome

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

Probable exosome complex exonuclease 2

Sulfolobus solfataricus

UniProt Q9UXC0

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 9 Probable exosome complex exonuclease 1 × 3 （Q9UXC2） Probable exosome complex RNA-binding protein 1 × 3 （Q9UXC4） SULFATE ION × 3 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
2br2 2br2 2br2 2br2 2c37 2c37 2c37 2c37 2c38 2c38 2c38 2c38

22 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name ECX2_SULSO
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–271； UniProt 1–275 Author chain D； PDBConstruct 1–271； UniProt 1–275 Author chain G； PDBConstruct 1–271； UniProt 1–275

Probable exosome complex exonuclease 1

Sulfolobus solfataricus

UniProt Q9UXC2

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 9 Probable exosome complex exonuclease 2 × 3 （Q9UXC0） Probable exosome complex RNA-binding protein 1 × 3 （Q9UXC4） SULFATE ION × 3 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
2br2 2br2 2br2 2br2 2c37 2c37 2c37 2c37 2c38 2c38 2c38 2c38

22 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name ECX1_SULSO
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B； PDBConstruct 1–245； UniProt 4–248 Author chain E； PDBConstruct 1–245； UniProt 4–248 Author chain H； PDBConstruct 1–245； UniProt 4–248

Probable exosome complex RNA-binding protein 1

Sulfolobus solfataricus

UniProt Q9UXC4

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 9 Probable exosome complex exonuclease 2 × 3 （Q9UXC0） Probable exosome complex exonuclease 1 × 3 （Q9UXC2） SULFATE ION × 3 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
2je6 2jea 2jeb 3l7z 4ba1 4ba2

6 assemblies

View Construct and Data Evidence
UniProt name ECR1_SULSO
Isoform —
PDB entities 3
Chains and sequence ranges Author chain C； PDBConstruct 1–249； UniProt 1–249 Author chain F； PDBConstruct 1–249； UniProt 1–249 Author chain I； PDBConstruct 1–249； UniProt 1–249

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_id3l7z
Deposition date deposition_date2009-12-29
Structure title titleCrystal structure of the S. solfataricus archaeal exosome
Keywords keywords;Exosome, asymmetry, RNA processing, RNA degradation, conformation flexibility, thermal motion, hydrolase-RNA binding protein complex ;; hydrolase/RNA binding protein
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.

3l7z__assembly_1__model_1

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

Download this curve (.dat)

3l7z__assembly_1__model_1 | I(q)

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

3l7z__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）38.92 Å
Rg (electron density)38.04 Å
Total Rg38.62 Å
Atom count16393
Residues2128
Excluded volume295270 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 3l7z__assembly_1__model_1 nonameric （9） 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) 27 domains

SCOP 2.08 (12 domains)

Domain ID domain_idd3l7za1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.14 — Ribosomal protein S5 domain 2-like
Superfamily Superfamily superfamilyd.14.1 — Ribosomal protein S5 domain 2-like
Family Family familyd.14.1.4 — Ribonuclease PH domain 1-like
Domain ID domain_idd3l7za2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.101 — Ribonuclease PH domain 2-like
Superfamily Superfamily superfamilyd.101.1 — Ribonuclease PH domain 2-like
Family Family familyd.101.1.0 — automated matches
Domain ID domain_idd3l7zc1
Class classb — All beta proteins
Fold Fold foldb.84 — Barrel-sandwich hybrid
Superfamily Superfamily superfamilyb.84.4 — Ribosomal L27 protein-like
Family Family familyb.84.4.0 — automated matches
Domain ID domain_idd3l7zc2
Class classb — All beta proteins
Fold Fold foldb.40 — OB-fold
Superfamily Superfamily superfamilyb.40.4 — Nucleic acid-binding proteins
Family Family familyb.40.4.11 — DNA replication initiator (cdc21/cdc54) N-terminal domain
Domain ID domain_idd3l7zc3
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.51 — Eukaryotic type KH-domain (KH-domain type I)
Superfamily Superfamily superfamilyd.51.1 — Eukaryotic type KH-domain (KH-domain type I)
Family Family familyd.51.1.0 — automated matches
Domain ID domain_idd3l7zd1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.14 — Ribosomal protein S5 domain 2-like
Superfamily Superfamily superfamilyd.14.1 — Ribosomal protein S5 domain 2-like
Family Family familyd.14.1.4 — Ribonuclease PH domain 1-like
Domain ID domain_idd3l7zd2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.101 — Ribonuclease PH domain 2-like
Superfamily Superfamily superfamilyd.101.1 — Ribonuclease PH domain 2-like
Family Family familyd.101.1.0 — automated matches
Domain ID domain_idd3l7zg1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.14 — Ribosomal protein S5 domain 2-like
Superfamily Superfamily superfamilyd.14.1 — Ribosomal protein S5 domain 2-like
Family Family familyd.14.1.4 — Ribonuclease PH domain 1-like
Domain ID domain_idd3l7zg2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.101 — Ribonuclease PH domain 2-like
Superfamily Superfamily superfamilyd.101.1 — Ribonuclease PH domain 2-like
Family Family familyd.101.1.0 — automated matches
Domain ID domain_idd3l7zi1
Class classb — All beta proteins
Fold Fold foldb.84 — Barrel-sandwich hybrid
Superfamily Superfamily superfamilyb.84.4 — Ribosomal L27 protein-like
Family Family familyb.84.4.0 — automated matches
Domain ID domain_idd3l7zi2
Class classb — All beta proteins
Fold Fold foldb.40 — OB-fold
Superfamily Superfamily superfamilyb.40.4 — Nucleic acid-binding proteins
Family Family familyb.40.4.11 — DNA replication initiator (cdc21/cdc54) N-terminal domain
Domain ID domain_idd3l7zi3
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.51 — Eukaryotic type KH-domain (KH-domain type I)
Superfamily Superfamily superfamilyd.51.1 — Eukaryotic type KH-domain (KH-domain type I)
Family Family familyd.51.1.0 — automated matches

CATH v4.4 (15 domains)

Domain ID domain_id3l7zA01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology230 — Ribosomal Protein S5; domain 2
Homologous superfamily homologous superfamily70 — GHMP Kinase, N-terminal domain
Domain ID domain_id3l7zB01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology230 — Ribosomal Protein S5; domain 2
Homologous superfamily homologous superfamily70 — GHMP Kinase, N-terminal domain
Domain ID domain_id3l7zC01
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology50 — OB fold (Dihydrolipoamide Acetyltransferase, E2P)
Homologous superfamily homologous superfamily100 — RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain
Domain ID domain_id3l7zC02
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology50 — OB fold (Dihydrolipoamide Acetyltransferase, E2P)
Homologous superfamily homologous superfamily140 — Nucleic acid-binding proteins
Domain ID domain_id3l7zC03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1370 — Ribosomal Protein S8; Chain: A, domain 1
Homologous superfamily homologous superfamily10 — K Homology domain, type 1
Domain ID domain_id3l7zD01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology230 — Ribosomal Protein S5; domain 2
Homologous superfamily homologous superfamily70 — GHMP Kinase, N-terminal domain
Domain ID domain_id3l7zE01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology230 — Ribosomal Protein S5; domain 2
Homologous superfamily homologous superfamily70 — GHMP Kinase, N-terminal domain
Domain ID domain_id3l7zF01
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology50 — OB fold (Dihydrolipoamide Acetyltransferase, E2P)
Homologous superfamily homologous superfamily100 — RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain
Domain ID domain_id3l7zF02
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology50 — OB fold (Dihydrolipoamide Acetyltransferase, E2P)
Homologous superfamily homologous superfamily140 — Nucleic acid-binding proteins
Domain ID domain_id3l7zF03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1370 — Ribosomal Protein S8; Chain: A, domain 1
Homologous superfamily homologous superfamily10 — K Homology domain, type 1
Domain ID domain_id3l7zG01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology230 — Ribosomal Protein S5; domain 2
Homologous superfamily homologous superfamily70 — GHMP Kinase, N-terminal domain
Domain ID domain_id3l7zH01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology230 — Ribosomal Protein S5; domain 2
Homologous superfamily homologous superfamily70 — GHMP Kinase, N-terminal domain
Domain ID domain_id3l7zI01
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology50 — OB fold (Dihydrolipoamide Acetyltransferase, E2P)
Homologous superfamily homologous superfamily100 — RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain
Domain ID domain_id3l7zI02
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology50 — OB fold (Dihydrolipoamide Acetyltransferase, E2P)
Homologous superfamily homologous superfamily140 — Nucleic acid-binding proteins
Domain ID domain_id3l7zI03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1370 — Ribosomal Protein S8; Chain: A, domain 1
Homologous superfamily homologous superfamily10 — K Homology domain, type 1
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7. Citations (1)