3d54

Structure of PurLQS from Thermotoga maritima

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

Phosphoribosylformylglycinamidine synthase II

Thermotoga maritima

UniProt Q9X0X3

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 4 Formylglycinamide ribonucleotide amidotransferase × 2 (Q9X0X1) Phosphoribosylformylglycinamidine synthase 1 × 1 (Q9X0X2) SODIUM ION × 1 ADENOSINE-5'-DIPHOSPHATE × 1 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 4 Formylglycinamide ribonucleotide amidotransferase × 2 (Q9X0X1) Phosphoribosylformylglycinamidine synthase 1 × 1 (Q9X0X2) SODIUM ION × 1 ADENOSINE-5'-DIPHOSPHATE × 1 Consistent with protein count
3 Protein heterocomplex Heteromer Protein 4 Formylglycinamide ribonucleotide amidotransferase × 2 (Q9X0X1) Phosphoribosylformylglycinamidine synthase 1 × 1 (Q9X0X2) SODIUM ION × 1 ADENOSINE-5'-DIPHOSPHATE × 1 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name PURL_THEMA
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 27–629; UniProt 1–603 Author chain E; PDBConstruct 27–629; UniProt 1–603 Author chain I; PDBConstruct 27–629; UniProt 1–603

Formylglycinamide ribonucleotide amidotransferase

Thermotoga maritima

UniProt Q9X0X1

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 4 Phosphoribosylformylglycinamidine synthase II × 1 (Q9X0X3) Phosphoribosylformylglycinamidine synthase 1 × 1 (Q9X0X2) SODIUM ION × 1 ADENOSINE-5'-DIPHOSPHATE × 1 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 4 Phosphoribosylformylglycinamidine synthase II × 1 (Q9X0X3) Phosphoribosylformylglycinamidine synthase 1 × 1 (Q9X0X2) SODIUM ION × 1 ADENOSINE-5'-DIPHOSPHATE × 1 Consistent with protein count
3 Protein heterocomplex Heteromer Protein 4 Phosphoribosylformylglycinamidine synthase II × 1 (Q9X0X3) Phosphoribosylformylglycinamidine synthase 1 × 1 (Q9X0X2) SODIUM ION × 1 ADENOSINE-5'-DIPHOSPHATE × 1 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name Q9X0X1_THEMA
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B; PDBConstruct 1–82; UniProt 1–82 Author chain C; PDBConstruct 1–82; UniProt 1–82 Author chain F; PDBConstruct 1–82; UniProt 1–82 Author chain G; PDBConstruct 1–82; UniProt 1–82 Author chain J; PDBConstruct 1–82; UniProt 1–82 Author chain K; PDBConstruct 1–82; UniProt 1–82

Phosphoribosylformylglycinamidine synthase 1

Thermotoga maritima

UniProt Q9X0X2

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 4 Phosphoribosylformylglycinamidine synthase II × 1 (Q9X0X3) Formylglycinamide ribonucleotide amidotransferase × 2 (Q9X0X1) SODIUM ION × 1 ADENOSINE-5'-DIPHOSPHATE × 1 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 4 Phosphoribosylformylglycinamidine synthase II × 1 (Q9X0X3) Formylglycinamide ribonucleotide amidotransferase × 2 (Q9X0X1) SODIUM ION × 1 ADENOSINE-5'-DIPHOSPHATE × 1 Consistent with protein count
3 Protein heterocomplex Heteromer Protein 4 Phosphoribosylformylglycinamidine synthase II × 1 (Q9X0X3) Formylglycinamide ribonucleotide amidotransferase × 2 (Q9X0X1) SODIUM ION × 1 ADENOSINE-5'-DIPHOSPHATE × 1 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name PURQ_THEMA
Isoform —
PDB entities 3
Chains and sequence ranges Author chain D; PDBConstruct 1–213; UniProt 1–213 Author chain H; PDBConstruct 1–213; UniProt 1–213 Author chain L; PDBConstruct 1–213; UniProt 1–213

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_id3d54
Deposition date deposition_date2008-05-15
Structure title titleStructure of PurLQS from Thermotoga maritima
Keywords keywords;alpha-beta structure, ATP-binding, Ligase, Nucleotide-binding, Purine biosynthesis, Glutamine amidotransferase, LIGASE-UNKNOWN FUNCTION COMPLEX ;; LIGASE
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.

3d54__assembly_1__model_1

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

Download this curve (.dat)

3d54__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.

3d54__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)29.94 Å
Rg (electron density)29.10 Å
Total Rg29.95 Å
Atom count7528
Residues958
Excluded volume134830 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 3d54__assembly_1__model_1 tetrameric (4) Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 3d54__assembly_2__model_1 tetrameric (4) Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 3d54__assembly_3__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 (5)

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6. Fold Classification (SCOP + CATH) 33 domains

SCOP 2.08 (12 domains)

Domain ID domain_idd3d54a1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.79 — Bacillus chorismate mutase-like
Superfamily Superfamily superfamilyd.79.4 — PurM N-terminal domain-like
Family Family familyd.79.4.1 — PurM N-terminal domain-like
Domain ID domain_idd3d54a2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.79 — Bacillus chorismate mutase-like
Superfamily Superfamily superfamilyd.79.4 — PurM N-terminal domain-like
Family Family familyd.79.4.1 — PurM N-terminal domain-like
Domain ID domain_idd3d54a3
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.139 — PurM C-terminal domain-like
Superfamily Superfamily superfamilyd.139.1 — PurM C-terminal domain-like
Family Family familyd.139.1.1 — PurM C-terminal domain-like
Domain ID domain_idd3d54a4
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.139 — PurM C-terminal domain-like
Superfamily Superfamily superfamilyd.139.1 — PurM C-terminal domain-like
Family Family familyd.139.1.1 — PurM C-terminal domain-like
Domain ID domain_idd3d54e1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.79 — Bacillus chorismate mutase-like
Superfamily Superfamily superfamilyd.79.4 — PurM N-terminal domain-like
Family Family familyd.79.4.1 — PurM N-terminal domain-like
Domain ID domain_idd3d54e2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.79 — Bacillus chorismate mutase-like
Superfamily Superfamily superfamilyd.79.4 — PurM N-terminal domain-like
Family Family familyd.79.4.1 — PurM N-terminal domain-like
Domain ID domain_idd3d54e3
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.139 — PurM C-terminal domain-like
Superfamily Superfamily superfamilyd.139.1 — PurM C-terminal domain-like
Family Family familyd.139.1.1 — PurM C-terminal domain-like
Domain ID domain_idd3d54e4
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.139 — PurM C-terminal domain-like
Superfamily Superfamily superfamilyd.139.1 — PurM C-terminal domain-like
Family Family familyd.139.1.1 — PurM C-terminal domain-like
Domain ID domain_idd3d54i1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.79 — Bacillus chorismate mutase-like
Superfamily Superfamily superfamilyd.79.4 — PurM N-terminal domain-like
Family Family familyd.79.4.1 — PurM N-terminal domain-like
Domain ID domain_idd3d54i2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.79 — Bacillus chorismate mutase-like
Superfamily Superfamily superfamilyd.79.4 — PurM N-terminal domain-like
Family Family familyd.79.4.1 — PurM N-terminal domain-like
Domain ID domain_idd3d54i3
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.139 — PurM C-terminal domain-like
Superfamily Superfamily superfamilyd.139.1 — PurM C-terminal domain-like
Family Family familyd.139.1.1 — PurM C-terminal domain-like
Domain ID domain_idd3d54i4
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.139 — PurM C-terminal domain-like
Superfamily Superfamily superfamilyd.139.1 — PurM C-terminal domain-like
Family Family familyd.139.1.1 — PurM C-terminal domain-like

CATH v4.4 (21 domains)

Domain ID domain_id3d54A01
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology650 — Phosphoribosyl-aminoimidazole Synthetase; Chain A, domain 2
Homologous superfamily homologous superfamily10 — PurM-like C-terminal domain
Domain ID domain_id3d54A02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1330 — 60s Ribosomal Protein L30; Chain: A;
Homologous superfamily homologous superfamily10 — PurM-like, N-terminal domain
Domain ID domain_id3d54A03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1330 — 60s Ribosomal Protein L30; Chain: A;
Homologous superfamily homologous superfamily10 — PurM-like, N-terminal domain
Domain ID domain_id3d54A04
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily1670 — Formylglycinamide ribonucleotide amidotransferase, C-terminal domain
Domain ID domain_id3d54B00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1280 — Mth169; Chain: A ,
Homologous superfamily homologous superfamily10 — Phosphoribosylformylglycinamidine synthase subunit PurS
Domain ID domain_id3d54C00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1280 — Mth169; Chain: A ,
Homologous superfamily homologous superfamily10 — Phosphoribosylformylglycinamidine synthase subunit PurS
Domain ID domain_id3d54D00
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily880 — Class I glutamine amidotransferase (GATase) domain
Domain ID domain_id3d54E01
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology650 — Phosphoribosyl-aminoimidazole Synthetase; Chain A, domain 2
Homologous superfamily homologous superfamily10 — PurM-like C-terminal domain
Domain ID domain_id3d54E02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1330 — 60s Ribosomal Protein L30; Chain: A;
Homologous superfamily homologous superfamily10 — PurM-like, N-terminal domain
Domain ID domain_id3d54E03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1330 — 60s Ribosomal Protein L30; Chain: A;
Homologous superfamily homologous superfamily10 — PurM-like, N-terminal domain
Domain ID domain_id3d54E04
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily1670 — Formylglycinamide ribonucleotide amidotransferase, C-terminal domain
Domain ID domain_id3d54F00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1280 — Mth169; Chain: A ,
Homologous superfamily homologous superfamily10 — Phosphoribosylformylglycinamidine synthase subunit PurS
Domain ID domain_id3d54G00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1280 — Mth169; Chain: A ,
Homologous superfamily homologous superfamily10 — Phosphoribosylformylglycinamidine synthase subunit PurS
Domain ID domain_id3d54H00
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily880 — Class I glutamine amidotransferase (GATase) domain
Domain ID domain_id3d54I01
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology650 — Phosphoribosyl-aminoimidazole Synthetase; Chain A, domain 2
Homologous superfamily homologous superfamily10 — PurM-like C-terminal domain
Domain ID domain_id3d54I02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1330 — 60s Ribosomal Protein L30; Chain: A;
Homologous superfamily homologous superfamily10 — PurM-like, N-terminal domain
Domain ID domain_id3d54I03
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1330 — 60s Ribosomal Protein L30; Chain: A;
Homologous superfamily homologous superfamily10 — PurM-like, N-terminal domain
Domain ID domain_id3d54I04
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology70 — Alpha-Beta Plaits
Homologous superfamily homologous superfamily1670 — Formylglycinamide ribonucleotide amidotransferase, C-terminal domain
Domain ID domain_id3d54J00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1280 — Mth169; Chain: A ,
Homologous superfamily homologous superfamily10 — Phosphoribosylformylglycinamidine synthase subunit PurS
Domain ID domain_id3d54K00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1280 — Mth169; Chain: A ,
Homologous superfamily homologous superfamily10 — Phosphoribosylformylglycinamidine synthase subunit PurS
Domain ID domain_id3d54L00
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily880 — Class I glutamine amidotransferase (GATase) domain
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7. Citations (1)