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5jmv

Crystal structure of mjKae1-pfuPcc1 complex

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

Probable bifunctional tRNA threonylcarbamoyladenosine biosynthesis protein

Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440)

UniProt Q58530

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 6 Uncharacterized protein × 4 （Q8TZI1） ADENOSINE MONOPHOSPHATE × 2 MAGNESIUM ION × 2 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 4 Uncharacterized protein × 2 （Q8TZI1） ADENOSINE MONOPHOSPHATE × 2 MAGNESIUM ION × 2 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
2vwb 2vwb 3en9 3en9

4 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
3enh 3enh 5jmv 5jmv 8unk 8up5 9d85

7 assemblies

View Construct and Data Evidence
UniProt name KAE1B_METJA
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 6–340； UniProt 1–335 Author chain B； PDBConstruct 6–340； UniProt 1–335 Author chain C； PDBConstruct 6–340； UniProt 1–335

Uncharacterized protein

Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)

UniProt Q8TZI1

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 6 Probable bifunctional tRNA threonylcarbamoyladenosine biosynthesis protein × 2 （Q58530） ADENOSINE MONOPHOSPHATE × 2 MAGNESIUM ION × 2 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 4 Probable bifunctional tRNA threonylcarbamoyladenosine biosynthesis protein × 2 （Q58530） ADENOSINE MONOPHOSPHATE × 2 MAGNESIUM ION × 2 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer
3enc

1 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
3eno 3eno 5jmv 5jmv 8up5 9d85

6 assemblies

View Construct and Data Evidence
UniProt name Q8TZI1_PYRFU
Isoform —
PDB entities 2
Chains and sequence ranges Author chain D； PDBConstruct 6–87； UniProt 1–82 Author chain E； PDBConstruct 6–87； UniProt 1–82 Author chain F； PDBConstruct 6–87； UniProt 1–82 Author chain G； PDBConstruct 6–87； UniProt 1–82 Author chain H； PDBConstruct 6–87； UniProt 1–82

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_id5jmv
Deposition date deposition_date2016-04-29
Structure title titleCrystal structure of mjKae1-pfuPcc1 complex
Keywords keywordstRNA modification, TRANSFERASE; TRANSFERASE
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.

5jmv__assembly_2__model_1

Assembly 2 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

5jmv__assembly_2__model_1 | I(q)

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

5jmv__assembly_2__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）31.64 Å
Rg (electron density)30.90 Å
Total Rg31.64 Å
Atom count6016
Residues766
Excluded volume108000 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 5jmv__assembly_1__model_1 hexameric （6） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 5jmv__assembly_2__model_1 tetrameric （4） 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) 11 domains

CATH v4.4 (11 domains)

Domain ID domain_id5jmvA01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology420 — Nucleotidyltransferase; domain 5
Homologous superfamily homologous superfamily40 — ATPase, nucleotide binding domain
Domain ID domain_id5jmvA02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology420 — Nucleotidyltransferase; domain 5
Homologous superfamily homologous superfamily40 — ATPase, nucleotide binding domain
Domain ID domain_id5jmvB01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology420 — Nucleotidyltransferase; domain 5
Homologous superfamily homologous superfamily40 — ATPase, nucleotide binding domain
Domain ID domain_id5jmvB02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology420 — Nucleotidyltransferase; domain 5
Homologous superfamily homologous superfamily40 — ATPase, nucleotide binding domain
Domain ID domain_id5jmvC01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology420 — Nucleotidyltransferase; domain 5
Homologous superfamily homologous superfamily40 — ATPase, nucleotide binding domain
Domain ID domain_id5jmvC02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology420 — Nucleotidyltransferase; domain 5
Homologous superfamily homologous superfamily40 — ATPase, nucleotide binding domain
Domain ID domain_id5jmvD00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology310 — TATA-Binding Protein
Homologous superfamily homologous superfamily50 — Alpha-D-phosphohexomutase, C-terminal domain
Domain ID domain_id5jmvE00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology310 — TATA-Binding Protein
Homologous superfamily homologous superfamily50 — Alpha-D-phosphohexomutase, C-terminal domain
Domain ID domain_id5jmvF00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology310 — TATA-Binding Protein
Homologous superfamily homologous superfamily50 — Alpha-D-phosphohexomutase, C-terminal domain
Domain ID domain_id5jmvG00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology310 — TATA-Binding Protein
Homologous superfamily homologous superfamily50 — Alpha-D-phosphohexomutase, C-terminal domain
Domain ID domain_id5jmvH00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology310 — TATA-Binding Protein
Homologous superfamily homologous superfamily50 — Alpha-D-phosphohexomutase, C-terminal domain
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7. Citations (1)