Download MendeleyHIF-2alpha-pVHL-elongin B-elongin C complex
Chowdhury, R., Schofield, C.J.To be published.
6I7Q
Structure of pVHL-elongin B-elongin C (VCB) in complex with hydroxylated-HIF-2alpha (523-542) in the C2221 form
- PDB DOI: https://doi.org/10.2210/pdb6I7Q/pdb
- Classification: GENE REGULATION
- Organism(s): Homo sapiens, Bos taurus
- Expression System: Escherichia coli, Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2018-11-17 Released: 2019-11-27
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.80 ?
- R-Value Free: 0.237
- R-Value Work: 0.187
- R-Value Observed: 0.190
Starting Model: experimental
View more details
wwPDB Validation 3D Report Full Report
This is version 1.2 of the entry. See complete history.
Literature
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Elongin-B | A [auth B] | 118 | Homo sapiens | Mutation(s): 0 Gene Names: ELOB, TCEB2 |  |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q15370 (Homo sapiens) Explore Q15370 Go to UniProtKB: Q15370 | |||||
PHAROS: Q15370 GTEx: ENSG00000103363 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q15370 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Elongin-C | B [auth C] | 97 | Bos taurus | Mutation(s): 0 Gene Names: ELOC, TCEB1 |  |
UniProt | |||||
Find proteins for Q2KII4 (Bos taurus) Explore Q2KII4 Go to UniProtKB: Q2KII4 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q2KII4 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Find similar proteins by: Sequence | 3D Structure
Entity ID: 3 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Endothelial PAS domain-containing protein 1 | C [auth H] | 20 | Homo sapiens | Mutation(s): 0 |  |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q99814 (Homo sapiens) Explore Q99814 Go to UniProtKB: Q99814 | |||||
PHAROS: Q99814 GTEx: ENSG00000116016 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q99814 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 4 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| von Hippel-Lindau disease tumor suppressor | D [auth V] | 160 | Homo sapiens | Mutation(s): 0 Gene Names: VHL |  |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P40337 (Homo sapiens) Explore P40337 Go to UniProtKB: P40337 | |||||
PHAROS: P40337 GTEx: ENSG00000134086 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P40337 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| GOL Query on GOL | E [auth V] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
| Modified Residues 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| CSD Query on CSD | A [auth B] | L-PEPTIDE LINKING | C3 H7 N O4 S |  | CYS |
| HYP Query on HYP | C [auth H] | L-PEPTIDE LINKING | C5 H9 N O3 |  | PRO |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.80 ?
- R-Value Free: 0.237
- R-Value Work: 0.187
- R-Value Observed: 0.190
- Space Group: C 2 2 21
Unit Cell:
| Length ( ? ) | Angle ( ? ) |
|---|---|
| a = 81.827 | ¦Á = 90 |
| b = 86.758 | ¦Â = 90 |
| c = 136.376 | ¦Ă = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| DIALS | data reduction |
| DIALS | data scaling |
| PHASER | phasing |
Entry History
Deposition Data
- Released Date: 2019-11-27 Deposition Author(s): Chowdhury, R., Aguilera, L.S., Schofield, C.J.
Revision History (Full details and data files)
- Version 1.0: 2019-11-27
Type: Initial release - Version 1.1: 2021-01-20
Changes: Database references, Derived calculations, Refinement description, Source and taxonomy, Structure summary - Version 1.2: 2024-01-24
Changes: Data collection, Database references, Refinement description
