2cfr

crystal structure of human pyridoxal 5'-phosphate phosphatase

Method: X-RAY DIFFRACTION
▼

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

PYRIDOXAL PHOSPHATE PHOSPHATASE

HOMO SAPIENS

UniProt Q96GD0

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein homooligomer Homooligomer Protein 2 MAGNESIUM ION × 2 water × 2 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name PLPP_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 3–298; UniProt 1–296

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_id2cfr
Deposition date deposition_date2006-02-23
Structure title titlecrystal structure of human pyridoxal 5'-phosphate phosphatase
Keywords keywordsPHOSPHATASE, CHRONOPHIN, HAD FAMILY, HYDROLASE, MAGNESIUM, METAL-BINDING, PYRIDOXAL PHOSPHATE; HYDROLASE
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.

2cfr__assembly_1__model_1

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

Download this curve (.dat)

2cfr__assembly_1__model_1 | I(q)

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

2cfr__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)28.79 Å
Rg (electron density)28.14 Å
Total Rg28.72 Å
Atom count4378
Residues574
Excluded volume77446 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 2cfr__assembly_1__model_1 dimeric (2) Success 4.1.3-1-20251215 (887e7ef) View Download
▶

4. Crystallography and Experiment 4. Crystallography & Experiment

▶

5. Entities and Polymers Entities & Polymers (3)

▼

6. Fold Classification (SCOP + CATH) 3 domains

SCOP 2.08 (1 domains)

Domain ID domain_idd2cfra_
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.108 — HAD-like
Superfamily Superfamily superfamilyc.108.1 — HAD-like
Family Family familyc.108.1.0 — automated matches

CATH v4.4 (2 domains)

Domain ID domain_id2cfrA01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily1000 — HAD superfamily/HAD-like
Domain ID domain_id2cfrA02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily1000 — HAD superfamily/HAD-like
▶

7. Citations (1)