← Back to search
4kit

Crystal structure of human Brr2 in complex with the Prp8 Jab1/MPN domain

Method: X-RAY DIFFRACTION
▼

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

U5 small nuclear ribonucleoprotein 200 kDa helicase

Homo sapiens

UniProt O75643

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 2 Pre-mRNA-processing-splicing factor 8 × 1 （Q6P2Q9） ADENOSINE-5'-DIPHOSPHATE × 2 MAGNESIUM ION × 1 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
4f91 4f92 4f93 5urj 5urk 5urm 5urm 6s8o 8bch

9 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
3jcr 4kit 5o9z 5xjc 5yzg 5z56 5z57 5z58 6ah0 6ahd 6ff7 6icz

72 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name U520_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain B； PDBConstruct 5–1739； UniProt 395–2129

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 heterocomplex Heteromer Protein 2 U5 small nuclear ribonucleoprotein 200 kDa helicase × 1 （O75643） ADENOSINE-5'-DIPHOSPHATE × 2 MAGNESIUM ION × 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 2
Chains and sequence ranges Author chain C； PDBConstruct 7–278； UniProt 2064–2335

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_id4kit
Deposition date deposition_date2013-05-02
Structure title titleCrystal structure of human Brr2 in complex with the Prp8 Jab1/MPN domain
Keywords keywords;RecA domain, winged helix domain, Sec63 unit, Jab1/MPN domain, Pre-mRNA splicing, ATP binding, RNA binding, ubiquitin binding, RNA BINDING PROTEIN ;; RNA BINDING PROTEIN
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.

4kit__assembly_1__model_1

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

Download this curve (.dat)

4kit__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.

4kit__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）44.19 Å
Rg (electron density)43.67 Å
Total Rg43.92 Å
Atom count16086
Residues1991
Excluded volume287760 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 4kit__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 (4)

▼

6. Fold Classification (SCOP + CATH) 13 domains

CATH v4.4 (13 domains)

Domain ID domain_id4kitB01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id4kitB02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id4kitB03
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily10 — Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain
Domain ID domain_id4kitB04
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology3380 — Sec63 N-terminal domain-like fold
Homologous superfamily homologous superfamily10 — Sec63 N-terminal domain-like domain
Domain ID domain_id4kitB05
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology150 — DNA polymerase; domain 1
Homologous superfamily homologous superfamily20 — 5' to 3' exonuclease, C-terminal subdomain
Domain ID domain_id4kitB06
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily150 — C2 domain
Domain ID domain_id4kitB07
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id4kitB08
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
Domain ID domain_id4kitB09
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily10 — Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain
Domain ID domain_id4kitB10
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology3380 — Sec63 N-terminal domain-like fold
Homologous superfamily homologous superfamily10 — Sec63 N-terminal domain-like domain
Domain ID domain_id4kitB11
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology150 — DNA polymerase; domain 1
Homologous superfamily homologous superfamily20 — 5' to 3' exonuclease, C-terminal subdomain
Domain ID domain_id4kitB12
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily150 — C2 domain
Domain ID domain_id4kitC00
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology140 — Cytidine Deaminase; domain 2
Homologous superfamily homologous superfamily10 — Cytidine Deaminase, domain 2
▶

7. Citations (1)