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3e9l

Crystal Structure of Human Prp8, Residues 1755-2016

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

Pre-mRNA-processing-splicing factor 8

Homo sapiens

UniProt Q6P2Q9

State in the Current Structure

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

Other States of the Same Protein in the Database

Monomer
3e9l 3enb 3enb 4jk7 4jk7 4jk8 4jk8 4jk9 4jk9 4jka 4jka 4jkb

25 assemblies; showing the first 12

Homodimer
3lru

1 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
3jcr 4kit 5mqf 5o9z 5xjc 5yzg 5z56 5z57 5z58 6ah0 6ahd 6ff4

87 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name PRP8_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–257； UniProt 1760–2016

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_id3e9l
Deposition date deposition_date2008-08-22
Structure title titleCrystal Structure of Human Prp8, Residues 1755-2016
Keywords keywords;nucleotidyl transfer, Disease mutation, mRNA processing, mRNA splicing, Nucleus, Phosphoprotein, Retinitis pigmentosa, RNA-binding, Sensory transduction, Spliceosome, Vision, RNA BINDING PROTEIN, SPLICING ;; RNA BINDING PROTEIN, SPLICING
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.

3e9l__assembly_1__model_1

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

Download this curve (.dat)

3e9l__assembly_1__model_1 | I(q)

10-2 10-1 105 106 107 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

3e9l__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）20.36 Å
Rg (electron density)19.00 Å
Total Rg20.09 Å
Atom count2086
Residues257
Excluded volume37872 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 3e9l__assembly_1__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 (4)

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6. Fold Classification (SCOP + CATH) 3 domains

SCOP 2.08 (1 domains)

Domain ID domain_idd3e9la1
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.55 — Ribonuclease H-like motif
Superfamily Superfamily superfamilyc.55.3 — Ribonuclease H-like
Family Family familyc.55.3.14 — Prp8 beta-finger domain-like

CATH v4.4 (2 domains)

Domain ID domain_id3e9lA01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology420 — Nucleotidyltransferase; domain 5
Homologous superfamily homologous superfamily230 — Prp8 RNase H domain, palm region
Domain ID domain_id3e9lA02
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology80 — Acyl-CoA Binding Protein
Homologous superfamily homologous superfamily40 — Prp8 RNase H domain, fingers region
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7. Citations (1)