 Download MendeleyDesign, synthesis and biological evaluation of new peptidomimetic compounds targeting NRP-1 receptor TO BE PUBLISHED
Richard, M., Pelligrini Moise, N., Jelsch, C., Maigret, B., Didierjean, C., Manival, X., Charron, C.To be published.
5C7G
Crystal Structure of the b1 Domain of Human Neuropilin-1 in complex with a bicine molecule
- PDB DOI: https://doi.org/10.2210/pdb5C7G/pdb
- Classification: PROTEIN BINDING
- Organism(s): Homo sapiens
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2015-06-24 Released: 2016-07-06
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.45 Å
- R-Value Free: 0.172
- R-Value Work: 0.141
- R-Value Observed: 0.143
This is version 2.0 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 |
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| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Neuropilin-1 | 161 | Homo sapiens | Mutation(s): 0 Gene Names: NRP1, NRP, VEGF165R |
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UniProt & NIH Common Fund Data Resources |
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Find proteins for O14786 (Homo sapiens)
Explore O14786
Go to UniProtKB: O14786
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PHAROS: O14786
GTEx: ENSG00000099250
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Entity Groups |
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| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | O14786 | ||||
Sequence AnnotationsExpand |
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Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| BCN Query on BCN |
B [auth A] | BICINE C6 H13 N O4 FSVCELGFZIQNCK-UHFFFAOYSA-N |
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| NA Query on NA |
C [auth A] | SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N |
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Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.45 Å
- R-Value Free: 0.172
- R-Value Work: 0.141
- R-Value Observed: 0.143
- Space Group: P 41 21 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 62.28 | α = 90 |
| b = 62.28 | β = 90 |
| c = 85.96 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| XDS | data reduction |
| XSCALE | data scaling |
| Coot | model building |
Entry History
Deposition Data
- Released Date: 2016-07-06 Deposition Author(s): Didierjean, C., Jelsch, C.
Revision History (Full details and data files)
- Version 1.0: 2016-07-06
Type: Initial release - Version 2.0: 2024-01-10
Changes: Atomic model, Data collection, Database references, Derived calculations, Refinement description
