← Back to search
1fyr

DIMER FORMATION THROUGH DOMAIN SWAPPING IN THE CRYSTAL STRUCTURE OF THE GRB2-SH2 AC-PYVNV COMPLEX

Method: X-RAY DIFFRACTION
▼

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

GROWTH FACTOR RECEPTOR-BOUND PROTEIN 2

Homo sapiens

UniProt P29354

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 4 HEPATOCYTE GROWTH FACTOR RECEPTOR PEPTIDE × 2 （P08581） water × 4 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 4 HEPATOCYTE GROWTH FACTOR RECEPTOR PEPTIDE × 2 （P08581） water × 4 Consistent with protein count
3 Protein heterocomplex Heteromer Protein 8 HEPATOCYTE GROWTH FACTOR RECEPTOR PEPTIDE × 4 （P08581） water × 8 Consistent with protein count
4 Protein heterocomplex Heteromer Protein 8 HEPATOCYTE GROWTH FACTOR RECEPTOR PEPTIDE × 4 （P08581） water × 8 Consistent with protein count
5 Protein heterocomplex Heteromer Protein 6 HEPATOCYTE GROWTH FACTOR RECEPTOR PEPTIDE × 3 （P08581） water × 6 Consistent with protein count
6 Protein heterocomplex Heteromer Protein 6 HEPATOCYTE GROWTH FACTOR RECEPTOR PEPTIDE × 3 （P08581） water × 6 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1fyr 1fyr 1fyr 1fyr 1fyr 1fyr 1jyq 1jyq 1tze 1tze 1tze 1tze

18 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name GRB2_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 3–114； UniProt 50–161 Author chain B； PDBConstruct 3–114； UniProt 50–161 Author chain C； PDBConstruct 3–114； UniProt 50–161 Author chain D； PDBConstruct 3–114； UniProt 50–161

HEPATOCYTE GROWTH FACTOR RECEPTOR PEPTIDE

OrganismNot specified

UniProt P08581

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 4 GROWTH FACTOR RECEPTOR-BOUND PROTEIN 2 × 2 （P29354） water × 4 Consistent with protein count
2 Protein heterocomplex Heteromer Protein 4 GROWTH FACTOR RECEPTOR-BOUND PROTEIN 2 × 2 （P29354） water × 4 Consistent with protein count
3 Protein heterocomplex Heteromer Protein 8 GROWTH FACTOR RECEPTOR-BOUND PROTEIN 2 × 4 （P29354） water × 8 Consistent with protein count
4 Protein heterocomplex Heteromer Protein 8 GROWTH FACTOR RECEPTOR-BOUND PROTEIN 2 × 4 （P29354） water × 8 Consistent with protein count
5 Protein heterocomplex Heteromer Protein 6 GROWTH FACTOR RECEPTOR-BOUND PROTEIN 2 × 3 （P29354） water × 6 Consistent with protein count
6 Protein heterocomplex Heteromer Protein 6 GROWTH FACTOR RECEPTOR-BOUND PROTEIN 2 × 3 （P29354） water × 6 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
11hq 11hq 11hq 1r0p 1r1w 1ssl 2rfn 2rfn 2rfs 2wd1 2wgj 2wkm

133 assemblies; showing the first 12

Homodimer
3efj 3efk 3u6h 3u6i 5dg5 5t3q 8vi1

7 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1fyr 1fyr 1fyr 1fyr 1fyr 1fyr 1shy 2uzx 2uzx 2uzy 2uzy 3bux

27 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name MET_HUMAN
Isoform —
PDB entities 2
Chains and sequence ranges Author chain I； PDBConstruct 2–5； UniProt 1356–1359 Author chain J； PDBConstruct 2–5； UniProt 1356–1359 Author chain K； PDBConstruct 2–5； UniProt 1356–1359 Author chain L； PDBConstruct 2–5； UniProt 1356–1359

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_id1fyr
Deposition date deposition_date2000-10-03
Structure title titleDIMER FORMATION THROUGH DOMAIN SWAPPING IN THE CRYSTAL STRUCTURE OF THE GRB2-SH2 AC-PYVNV COMPLEX
Keywords keywordsGrb2, SH2 domain, phosphopeptide, Met, domain swapping, dimerization, HORMONE-GROWTH FACTOR COMPLEX; HORMONE/GROWTH FACTOR
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.

1fyr__assembly_5__model_1

Assembly 5 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

1fyr__assembly_5__model_1 | I(q)

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

1fyr__assembly_5__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）26.29 Å
Rg (electron density)25.75 Å
Total Rg26.43 Å
Atom count2529
Residues300
Excluded volume44788 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1fyr__assembly_1__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 1fyr__assembly_2__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 1fyr__assembly_3__model_1 octameric （8） Success 4.1.3-1-20251215 (887e7ef) View Download
4 1 1fyr__assembly_4__model_1 octameric （8） Success 4.1.3-1-20251215 (887e7ef) View Download
5 1 1fyr__assembly_5__model_1 hexameric （6） Success 4.1.3-1-20251215 (887e7ef) View Download
6 1 1fyr__assembly_6__model_1 hexameric （6） 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) 8 domains

SCOP 2.08 (4 domains)

Domain ID domain_idd1fyra_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.93 — SH2-like
Superfamily Superfamily superfamilyd.93.1 — SH2 domain
Family Family familyd.93.1.1 — SH2 domain
Domain ID domain_idd1fyrb_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.93 — SH2-like
Superfamily Superfamily superfamilyd.93.1 — SH2 domain
Family Family familyd.93.1.1 — SH2 domain
Domain ID domain_idd1fyrc_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.93 — SH2-like
Superfamily Superfamily superfamilyd.93.1 — SH2 domain
Family Family familyd.93.1.1 — SH2 domain
Domain ID domain_idd1fyrd_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.93 — SH2-like
Superfamily Superfamily superfamilyd.93.1 — SH2 domain
Family Family familyd.93.1.1 — SH2 domain

CATH v4.4 (4 domains)

Domain ID domain_id1fyrA00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology505 — SHC Adaptor Protein
Homologous superfamily homologous superfamily10 — SH2 domain
Domain ID domain_id1fyrB00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology505 — SHC Adaptor Protein
Homologous superfamily homologous superfamily10 — SH2 domain
Domain ID domain_id1fyrC00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology505 — SHC Adaptor Protein
Homologous superfamily homologous superfamily10 — SH2 domain
Domain ID domain_id1fyrD00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology505 — SHC Adaptor Protein
Homologous superfamily homologous superfamily10 — SH2 domain
▶

7. Citations (1)