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5fi0

Crystal Structure of the P-Rex1 DH/PH tandem in complex with Rac1

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

;Phosphatidylinositol 3,4,5-trisphosphate-dependent Rac exchanger 1 protein,Phosphatidylinositol 3,4,5-trisphosphate-dependent Rac exchanger 1 protein ;

Homo sapiens

UniProt Q8TCU6

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 2 Ras-related C3 botulinum toxin substrate 1 × 1 （P63000） PHOSPHATE ION × 1 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 2 Ras-related C3 botulinum toxin substrate 1 × 1 （P63000） PHOSPHATE ION × 1 Consistent with protein count
3 Protein heterocomplex Heteromer Protein 2 Ras-related C3 botulinum toxin substrate 1 × 1 （P63000） PHOSPHATE ION × 1 Consistent with protein count
4 Protein heterocomplex Heteromer Protein 2 Ras-related C3 botulinum toxin substrate 1 × 1 （P63000） PHOSPHATE ION × 1 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
5d27 5d3v 5d3v 5d3w 5d3w 5d3x 5d3x 5d3y 5d3y 8tua

10 assemblies

Homodimer
3qik

1 assemblies

Homotetramer

None

Other homooligomers
6vsk

1 assemblies

Heteromeric or nucleic-acid complex
4yon 5fi0 5fi0 5fi0 5fi0 5fi1 7rx9 7syf

8 assemblies

View Construct and Data Evidence
UniProt name PREX1_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 4–167； UniProt 38–201 Author chain A； PDBConstruct 168–374； UniProt 202–408 Author chain C； PDBConstruct 4–167； UniProt 38–201 Author chain C； PDBConstruct 168–374； UniProt 202–408 Author chain E； PDBConstruct 4–167； UniProt 38–201 Author chain E； PDBConstruct 168–374； UniProt 202–408 Author chain G； PDBConstruct 4–167； UniProt 38–201 Author chain G； PDBConstruct 168–374； UniProt 202–408

Ras-related C3 botulinum toxin substrate 1

Homo sapiens

UniProt P63000

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 2 ;Phosphatidylinositol 3,4,5-trisphosphate-dependent Rac exchanger 1 protein,Phosphatidylinositol 3,4,5-trisphosphate-dependent Rac exchanger 1 protein ; × 1 （Q8TCU6） PHOSPHATE ION × 1 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 2 ;Phosphatidylinositol 3,4,5-trisphosphate-dependent Rac exchanger 1 protein,Phosphatidylinositol 3,4,5-trisphosphate-dependent Rac exchanger 1 protein ; × 1 （Q8TCU6） PHOSPHATE ION × 1 Consistent with protein count
3 Protein heterocomplex Heteromer Protein 2 ;Phosphatidylinositol 3,4,5-trisphosphate-dependent Rac exchanger 1 protein,Phosphatidylinositol 3,4,5-trisphosphate-dependent Rac exchanger 1 protein ; × 1 （Q8TCU6） PHOSPHATE ION × 1 Consistent with protein count
4 Protein heterocomplex Heteromer Protein 2 ;Phosphatidylinositol 3,4,5-trisphosphate-dependent Rac exchanger 1 protein,Phosphatidylinositol 3,4,5-trisphosphate-dependent Rac exchanger 1 protein ; × 1 （Q8TCU6） PHOSPHATE ION × 1 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
1mh1 1ryf 1ryf 1ryh 1ryh 3sbd 3sbd 3sbe 3th5 3th5 4gzl 4gzl

19 assemblies; showing the first 12

Homodimer

None

Homotetramer

None

Other homooligomers
2p2l 2p2l

2 assemblies

Heteromeric or nucleic-acid complex
1foe 1foe 1foe 1foe 1foe 1foe 1foe 1g4u 1i4d 1i4l 1i4l 1i4t

82 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RAC1_HUMAN
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B； PDBConstruct 4–195； UniProt 1–192 Author chain D； PDBConstruct 4–195； UniProt 1–192 Author chain F； PDBConstruct 4–195； UniProt 1–192 Author chain H； PDBConstruct 4–195； UniProt 1–192

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_id5fi0
Deposition date deposition_date2015-12-22
Structure title titleCrystal Structure of the P-Rex1 DH/PH tandem in complex with Rac1
Keywords keywordsdbl homology domain, pleckstrin homology domain, beta sandwich, small GTPase, PROTEIN BINDING; PROTEIN BINDING
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.

5fi0__assembly_1__model_1

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

Download this curve (.dat)

5fi0__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.

5fi0__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）29.06 Å
Rg (electron density)28.29 Å
Total Rg28.89 Å
Atom count4169
Residues520
Excluded volume74735 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 5fi0__assembly_1__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 5fi0__assembly_2__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 5fi0__assembly_3__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
4 1 5fi0__assembly_4__model_1 dimeric （2） 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) 12 domains

CATH v4.4 (12 domains)

Domain ID domain_id5fi0A01
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology900 — Dbl Homology Domain; Chain A
Homologous superfamily homologous superfamily10 — Dbl homology (DH) domain
Domain ID domain_id5fi0A02
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology29 — PH-domain like
Homologous superfamily homologous superfamily30 — Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)
Domain ID domain_id5fi0B00
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_id5fi0C01
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology900 — Dbl Homology Domain; Chain A
Homologous superfamily homologous superfamily10 — Dbl homology (DH) domain
Domain ID domain_id5fi0C02
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology29 — PH-domain like
Homologous superfamily homologous superfamily30 — Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)
Domain ID domain_id5fi0D00
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_id5fi0E01
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology900 — Dbl Homology Domain; Chain A
Homologous superfamily homologous superfamily10 — Dbl homology (DH) domain
Domain ID domain_id5fi0E02
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology29 — PH-domain like
Homologous superfamily homologous superfamily30 — Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)
Domain ID domain_id5fi0F00
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_id5fi0G01
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology900 — Dbl Homology Domain; Chain A
Homologous superfamily homologous superfamily10 — Dbl homology (DH) domain
Domain ID domain_id5fi0G02
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology29 — PH-domain like
Homologous superfamily homologous superfamily30 — Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)
Domain ID domain_id5fi0H00
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases
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7. Citations (1)