3W12
Insulin receptor ectodomain construct comprising domains L1-CR in complex with high-affinity insulin analogue [D-PRO-B26]-DTI-NH2, alpha-CT peptide(704-719) and FAB 83-7
- PDB DOI: https://doi.org/10.2210/pdb3W12/pdb
- Classification: HORMONE RECEPTOR/HORMONE/IMMUNE SYSTEM
- Organism(s): Homo sapiens, Mus musculus
- Expression System: Cricetulus griseus, Mus musculus
- Mutation(s): No 
- Deposited: 2012-11-06 Released: 2013-01-09 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 4.30 Å
- R-Value Free: 0.349 
- R-Value Work: 0.289 
- R-Value Observed: 0.291 
This is version 2.1 of the entry. See complete history. 
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Insulin receptor domains L1-CR | A [auth E] | 310 | Homo sapiens | Mutation(s): 0  Gene Names: INSR EC: 2.7.10.1 | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P06213 (Homo sapiens) Explore P06213  Go to UniProtKB:  P06213 | |||||
PHAROS:  P06213 GTEx:  ENSG00000171105  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P06213 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
monoclonal antibody fab 83-7 fragment - heavy chain | B [auth C] | 116 | Mus musculus | Mutation(s): 0  | |
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 3 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
monoclonal antibody fab 83-7 fragment - light chain | C [auth D] | 114 | Mus musculus | Mutation(s): 0  | |
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by: Sequence | 3D Structure
Entity ID: 4 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Insulin A chain | D [auth A] | 21 | Homo sapiens | Mutation(s): 0  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P01308 (Homo sapiens) Explore P01308  Go to UniProtKB:  P01308 | |||||
PHAROS:  P01308 GTEx:  ENSG00000254647  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P01308 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 5 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Insulin B chain | E [auth B] | 26 | Homo sapiens | Mutation(s): 0  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P01308 (Homo sapiens) Explore P01308  Go to UniProtKB:  P01308 | |||||
PHAROS:  P01308 GTEx:  ENSG00000254647  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P01308 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by: Sequence | 3D Structure
Entity ID: 6 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Insulin receptor alpha-CT peptide | 16 | Homo sapiens | Mutation(s): 0  EC: 2.7.10.1 | ||
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P06213 (Homo sapiens) Explore P06213  Go to UniProtKB:  P06213 | |||||
PHAROS:  P06213 GTEx:  ENSG00000171105  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P06213 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Entity ID: 7 | |||||
---|---|---|---|---|---|
Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | G | 4 | N-Glycosylation | ||
Glycosylation Resources | |||||
GlyTouCan:  G81315DD GlyCosmos:  G81315DD GlyGen:  G81315DD |
Small Molecules
Ligands 1 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
NAG Query on NAG | I [auth E], J [auth E] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N |
Modified Residues 1 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Type | Formula | 2D Diagram | Parent |
PR9 Query on PR9 | E [auth B] | D-PEPTIDE LINKING | C5 H10 N2 O | PRO |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 4.30 Å
- R-Value Free: 0.349 
- R-Value Work: 0.289 
- R-Value Observed: 0.291 
- Space Group: P 2 3
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 169.488 | α = 90 |
b = 169.488 | β = 90 |
c = 169.488 | γ = 90 |
Software Name | Purpose |
---|---|
SCALA | data scaling |
REFMAC | refinement |
PDB_EXTRACT | data extraction |
XDS | data reduction |
MOLREP | phasing |
Entry History 
Deposition Data
- Released Date: 2013-01-09  Deposition Author(s): Lawrence, M.C., Smith, B.J., Brzozowsk, A.M.
Revision History (Full details and data files)
- Version 1.0: 2013-01-09
Type: Initial release - Version 1.1: 2013-01-16
Changes: Database references - Version 1.2: 2013-09-04
Changes: Database references - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Structure summary - Version 2.1: 2023-11-08
Changes: Data collection, Database references, Refinement description, Structure summary