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2nm2

Crystal structure of dihydroneopterin aldolase from S. aureus in complex with (1S,2R)-neopterin at 1.50 Angstrom resolution

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

Dihydroneopterin aldolase

Staphylococcus aureus

UniProt P56740

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein homooligomer Homooligomer Protein 8 L-NEOPTERIN × 8 water × 8 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers
1dhn 1rri 1rrw 1rry 1rs2 1rs4 1rsd 1rsi 1u68 2dhn 2nm2 2nm3

12 assemblies

Heteromeric or nucleic-acid complex

None

View Construct and Data Evidence
UniProt name FOLB_STAAU
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–121； UniProt 1–121 Author chain B； PDBConstruct 1–121； UniProt 1–121 Author chain C； PDBConstruct 1–121； UniProt 1–121 Author chain D； PDBConstruct 1–121； UniProt 1–121

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_id2nm2
Deposition date deposition_date2006-10-20
Structure title titleCrystal structure of dihydroneopterin aldolase from S. aureus in complex with (1S,2R)-neopterin at 1.50 Angstrom resolution
Keywords keywordsDIHYDRONEOPTERIN ALDOLASE, DHNA, SUBSTRATE COMPLEX, MONAPTERIN, NEOPTERIN, 7, 8-DIHYDRONEOPTERIN, DRUG DESIGN, LYASE; LYASE
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.

2nm2__assembly_1__model_1

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

Download this curve (.dat)

2nm2__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.

2nm2__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）29.81 Å
Rg (electron density)28.31 Å
Total Rg29.22 Å
Atom count7880
Residues968
Excluded volume139440 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 2nm2__assembly_1__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 (3)

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6. Fold Classification (SCOP + CATH) 8 domains

SCOP 2.08 (4 domains)

Domain ID domain_idd2nm2a_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.96 — T-fold
Superfamily Superfamily superfamilyd.96.1 — Tetrahydrobiopterin biosynthesis enzymes-like
Family Family familyd.96.1.3 — DHN aldolase/epimerase
Domain ID domain_idd2nm2b_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.96 — T-fold
Superfamily Superfamily superfamilyd.96.1 — Tetrahydrobiopterin biosynthesis enzymes-like
Family Family familyd.96.1.3 — DHN aldolase/epimerase
Domain ID domain_idd2nm2c_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.96 — T-fold
Superfamily Superfamily superfamilyd.96.1 — Tetrahydrobiopterin biosynthesis enzymes-like
Family Family familyd.96.1.3 — DHN aldolase/epimerase
Domain ID domain_idd2nm2d_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.96 — T-fold
Superfamily Superfamily superfamilyd.96.1 — Tetrahydrobiopterin biosynthesis enzymes-like
Family Family familyd.96.1.3 — DHN aldolase/epimerase

CATH v4.4 (4 domains)

Domain ID domain_id2nm2A00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1130 — GTP Cyclohydrolase I, domain 2
Homologous superfamily homologous superfamily10 — GTP cyclohydrolase I, C-terminal domain/NADPH-dependent 7-cyano-7-deazaguanine reductase, N-terminal domain
Domain ID domain_id2nm2B00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1130 — GTP Cyclohydrolase I, domain 2
Homologous superfamily homologous superfamily10 — GTP cyclohydrolase I, C-terminal domain/NADPH-dependent 7-cyano-7-deazaguanine reductase, N-terminal domain
Domain ID domain_id2nm2C00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1130 — GTP Cyclohydrolase I, domain 2
Homologous superfamily homologous superfamily10 — GTP cyclohydrolase I, C-terminal domain/NADPH-dependent 7-cyano-7-deazaguanine reductase, N-terminal domain
Domain ID domain_id2nm2D00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1130 — GTP Cyclohydrolase I, domain 2
Homologous superfamily homologous superfamily10 — GTP cyclohydrolase I, C-terminal domain/NADPH-dependent 7-cyano-7-deazaguanine reductase, N-terminal domain
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7. Citations (1)