← Back to search
1tfy

How CCA is added to the 3' end of immature tRNA without the use of an oligonucleotide template

Method: X-RAY DIFFRACTION
▼

1. Protein Identity and Related Structures Protein Identity & Related Structures

tRNA nucleotidyltransferase

Archaeoglobus fulgidus

UniProt O28126

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–RNA Homooligomer Protein 2 RNA 4 5'-R(*GP*CP*GP*GP*AP*UP*AP*UP*CP*CP*GP*CP*G)-3' × 1 5'-R(*GP*CP*GP*GP*AP*UP*AP*UP*CP*CP*GP*CP*AP*C)-3' × 1 5'-R(*CP*GP*GP*AP*UP*CP*CP*GP*CP*AP*C)-3' × 1 5'-R(*CP*GP*CP*GP*GP*AP*UP*C)-3' × 1 MAGNESIUM ION × 2 CYTIDINE-5'-TRIPHOSPHATE × 2 Consistent with all polymers
2 Protein–RNA Homooligomer Protein 2 RNA 2 5'-R(*GP*CP*GP*GP*AP*UP*AP*UP*CP*CP*GP*CP*G)-3' × 1 5'-R(*GP*CP*GP*GP*AP*UP*AP*UP*CP*CP*GP*CP*AP*C)-3' × 1 MAGNESIUM ION × 2 CYTIDINE-5'-TRIPHOSPHATE × 2 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer
1uet 1ueu 1uev

3 assemblies

Homodimer
1r89 1r8a 1r8b 1r8c 1uet 1ueu

6 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1sz1 1tfw 1tfw 1tfy 1tfy 2dr5 2dr7 2dr8 2dr9 2dra 2drb 2dvi

49 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name CCA_ARCFU
Isoform —
PDB entities 5
Chains and sequence ranges Author chain A； PDBConstruct 1–437； UniProt 1–437 Author chain B； PDBConstruct 1–437； UniProt 1–437 Author chain C； PDBConstruct 1–437； UniProt 1–437 Author chain D； PDBConstruct 1–437； UniProt 1–437

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.

▼

2. Structure Basics 2. Structure Basics

Entry ID entry_id1tfy
Deposition date deposition_date2004-05-27
Structure title titleHow CCA is added to the 3' end of immature tRNA without the use of an oligonucleotide template
Keywords keywordsCCA-adding Complex, CTP, TRANSFERASE-RNA COMPLEX; TRANSFERASE/RNA
Experimental Method methodX-RAY DIFFRACTION
▼

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.

1tfy__assembly_2__model_1

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

Download this curve (.dat)

1tfy__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.

1tfy__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）38.82 Å
Rg (electron density)39.78 Å
Total Rg39.94 Å
Atom count7891
Residues901
Excluded volume138670 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1tfy__assembly_1__model_1 hexameric （6） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 1tfy__assembly_2__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
▶

4. Crystallography and Experiment 4. Crystallography & Experiment

▶

5. Entities and Polymers Entities & Polymers (7)

▼

6. Fold Classification (SCOP + CATH) 28 domains

SCOP 2.08 (12 domains)

Domain ID domain_idd1tfya1
Class classa — All alpha proteins
Fold Fold folda.160 — PAP/OAS1 substrate-binding domain
Superfamily Superfamily superfamilya.160.1 — PAP/OAS1 substrate-binding domain
Family Family familya.160.1.3 — Archaeal tRNA CCA-adding enzyme substrate-binding domain
Domain ID domain_idd1tfya2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.218 — Nucleotidyltransferase
Superfamily Superfamily superfamilyd.218.1 — Nucleotidyltransferase
Family Family familyd.218.1.7 — Archaeal tRNA CCA-adding enzyme catalytic domain
Domain ID domain_idd1tfya3
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.16 — PAP/Archaeal CCA-adding enzyme, C-terminal domain
Family Family familyd.58.16.2 — Archaeal tRNA CCA-adding enzyme
Domain ID domain_idd1tfyb1
Class classa — All alpha proteins
Fold Fold folda.160 — PAP/OAS1 substrate-binding domain
Superfamily Superfamily superfamilya.160.1 — PAP/OAS1 substrate-binding domain
Family Family familya.160.1.3 — Archaeal tRNA CCA-adding enzyme substrate-binding domain
Domain ID domain_idd1tfyb2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.218 — Nucleotidyltransferase
Superfamily Superfamily superfamilyd.218.1 — Nucleotidyltransferase
Family Family familyd.218.1.7 — Archaeal tRNA CCA-adding enzyme catalytic domain
Domain ID domain_idd1tfyb3
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.16 — PAP/Archaeal CCA-adding enzyme, C-terminal domain
Family Family familyd.58.16.2 — Archaeal tRNA CCA-adding enzyme
Domain ID domain_idd1tfyc1
Class classa — All alpha proteins
Fold Fold folda.160 — PAP/OAS1 substrate-binding domain
Superfamily Superfamily superfamilya.160.1 — PAP/OAS1 substrate-binding domain
Family Family familya.160.1.3 — Archaeal tRNA CCA-adding enzyme substrate-binding domain
Domain ID domain_idd1tfyc2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.218 — Nucleotidyltransferase
Superfamily Superfamily superfamilyd.218.1 — Nucleotidyltransferase
Family Family familyd.218.1.7 — Archaeal tRNA CCA-adding enzyme catalytic domain
Domain ID domain_idd1tfyc3
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.16 — PAP/Archaeal CCA-adding enzyme, C-terminal domain
Family Family familyd.58.16.2 — Archaeal tRNA CCA-adding enzyme
Domain ID domain_idd1tfyd1
Class classa — All alpha proteins
Fold Fold folda.160 — PAP/OAS1 substrate-binding domain
Superfamily Superfamily superfamilya.160.1 — PAP/OAS1 substrate-binding domain
Family Family familya.160.1.3 — Archaeal tRNA CCA-adding enzyme substrate-binding domain
Domain ID domain_idd1tfyd2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.218 — Nucleotidyltransferase
Superfamily Superfamily superfamilyd.218.1 — Nucleotidyltransferase
Family Family familyd.218.1.7 — Archaeal tRNA CCA-adding enzyme catalytic domain
Domain ID domain_idd1tfyd3
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.58 — Ferredoxin-like
Superfamily Superfamily superfamilyd.58.16 — PAP/Archaeal CCA-adding enzyme, C-terminal domain
Family Family familyd.58.16.2 — Archaeal tRNA CCA-adding enzyme

CATH v4.4 (16 domains)

Domain ID domain_id1tfyA01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology1410 — Poly(a)-polymerase, middle domain
Homologous superfamily homologous superfamily30 — CCA tRNA nucleotidyltransferase, domain 2
Domain ID domain_id1tfyA02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology460 — Beta Polymerase; domain 2
Homologous superfamily homologous superfamily10 — Beta Polymerase, domain 2
Domain ID domain_id1tfyA03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily590 — Poly(A) polymerase predicted RNA binding domain
Domain ID domain_id1tfyA04
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily1550 — Archaeal tRNA CCA-adding enzyme catalytic domain
Domain ID domain_id1tfyB01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology1410 — Poly(a)-polymerase, middle domain
Homologous superfamily homologous superfamily30 — CCA tRNA nucleotidyltransferase, domain 2
Domain ID domain_id1tfyB02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology460 — Beta Polymerase; domain 2
Homologous superfamily homologous superfamily10 — Beta Polymerase, domain 2
Domain ID domain_id1tfyB03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily590 — Poly(A) polymerase predicted RNA binding domain
Domain ID domain_id1tfyB04
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily1550 — Archaeal tRNA CCA-adding enzyme catalytic domain
Domain ID domain_id1tfyC01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology1410 — Poly(a)-polymerase, middle domain
Homologous superfamily homologous superfamily30 — CCA tRNA nucleotidyltransferase, domain 2
Domain ID domain_id1tfyC02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology460 — Beta Polymerase; domain 2
Homologous superfamily homologous superfamily10 — Beta Polymerase, domain 2
Domain ID domain_id1tfyC03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily590 — Poly(A) polymerase predicted RNA binding domain
Domain ID domain_id1tfyC04
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily1550 — Archaeal tRNA CCA-adding enzyme catalytic domain
Domain ID domain_id1tfyD01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology1410 — Poly(a)-polymerase, middle domain
Homologous superfamily homologous superfamily30 — CCA tRNA nucleotidyltransferase, domain 2
Domain ID domain_id1tfyD02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology460 — Beta Polymerase; domain 2
Homologous superfamily homologous superfamily10 — Beta Polymerase, domain 2
Domain ID domain_id1tfyD03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily590 — Poly(A) polymerase predicted RNA binding domain
Domain ID domain_id1tfyD04
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily1550 — Archaeal tRNA CCA-adding enzyme catalytic domain
▶

7. Citations (1)