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8uc5

Apo X-ray crystal structure of Cyclophilin D with a surface entropy reduction mutation (K175I)

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

Peptidyl-prolyl cis-trans isomerase F, mitochondrial

Homo sapiens

UniProt P30405

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein monomer Monomer Protein 1 DIMETHYL SULFOXIDE × 6 SODIUM ION × 1 CHLORIDE ION × 2 water × 1 Consistent with protein count
2 Protein monomer Monomer Protein 1 DIMETHYL SULFOXIDE × 3 SODIUM ION × 1 CHLORIDE ION × 1 water × 1 Consistent with protein count
3 Protein monomer Monomer Protein 1 DIMETHYL SULFOXIDE × 2 water × 1 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
2bit 2biu 3qyu 3r49 3r4g 3r54 3r56 3r57 3r59 3rcf 3rcg 3rci

72 assemblies; showing the first 12

Homodimer

None

Homotetramer

None

Other homooligomers
6ybm

1 assemblies

Heteromeric or nucleic-acid complex
2z6w 2z6w 5a0e 5a0e

4 assemblies

View Construct and Data Evidence
UniProt name PPIF_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 4–166； UniProt 45–207 Author chain B； PDBConstruct 4–166； UniProt 45–207 Author chain X； PDBConstruct 4–166； UniProt 45–207

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_id8uc5
Deposition date deposition_date2023-09-25
Last revision last_revision2024-09-04
Structure title titleApo X-ray crystal structure of Cyclophilin D with a surface entropy reduction mutation (K175I)
Keywords keywordsPeptidyl prolyl isomerase, Cyclophilin D, mitochondria, ISOMERASE; ISOMERASE
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.

8uc5__assembly_1__model_1

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

Download this curve (.dat)

8uc5__assembly_1__model_1 | I(q)

10-2 10-1 105 106 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

8uc5__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）15.47 Å
Rg (electron density)14.33 Å
Total Rg15.55 Å
Atom count1276
Residues165
Excluded volume22858 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 8uc5__assembly_1__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 8uc5__assembly_2__model_1 monomeric （1） Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 8uc5__assembly_3__model_1 monomeric （1） 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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7. Citations (1)