Download MendeleyOct4/Sox2:UTF1 structure
Vahokoski, J., Pogenberg, V., Wilmanns, M.To be published.
6HT5
Oct4/Sox2:UTF1 structure
- PDB DOI: https://doi.org/10.2210/pdb6HT5/pdb
- NAKB: 6HT5
- Classification: TRANSCRIPTION
- Organism(s): Mus musculus
- Expression System: Escherichia coli
- Mutation(s): Yes
- Deposited: 2018-10-03 Released: 2019-10-23
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 3.45 Å
- R-Value Free: 0.248
- R-Value Work: 0.201
- R-Value Observed: 0.205
wwPDB Validation 3D Report Full Report
This is version 1.1 of the entry. See complete history.
Literature
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 3 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Transcription factor SOX-2 | C [auth D] | 83 | Mus musculus | Mutation(s): 0 Gene Names: Sox2, Sox-2 |  |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P48432 (Mus musculus) Explore P48432 Go to UniProtKB: P48432 | |||||
IMPC: MGI:98364 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P48432 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 4 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| POU domain, class 5, transcription factor 1 | D [auth E] | 154 | Mus musculus | Mutation(s): 5 Gene Names: Pou5f1, Oct-3, Oct-4, Otf-3, Otf3 |  |
UniProt | |||||
Find proteins for P20263 (Mus musculus) Explore P20263 Go to UniProtKB: P20263 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P20263 | ||||
Sequence AnnotationsExpand | |||||
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Find similar nucleic acids by: Sequence | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | Organism | Image | |
| DNA (5'-D(P*CP*CP*TP*CP*AP*TP*TP*GP*TP*TP*AP*TP*GP*CP*TP*AP*GP*TP*GP*AP*AP*G)-3') | 22 | Mus musculus |  | ||
Sequence AnnotationsExpand | |||||
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Find similar nucleic acids by: Sequence | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | Organism | Image | |
| DNA (5'-D(*TP*TP*CP*AP*CP*TP*AP*GP*CP*AP*TP*AP*AP*CP*AP*AP*TP*GP*AP*GP*G)-3') | 21 | Mus musculus |  | ||
Sequence AnnotationsExpand | |||||
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Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 3.45 Å
- R-Value Free: 0.248
- R-Value Work: 0.201
- R-Value Observed: 0.205
- Space Group: P 63
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 165.17 | α = 90 |
| b = 165.17 | β = 90 |
| c = 39.78 | γ = 120 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| XDS | data reduction |
| XSCALE | data scaling |
| PHASER | phasing |
Entry History
Deposition Data
- Released Date: 2019-10-23 Deposition Author(s): Vahokoski, J., Meusch, D., Groves, M., Pogenberg, V., Wilmanns, M.
Revision History (Full details and data files)
- Version 1.0: 2019-10-23
Type: Initial release - Version 1.1: 2024-01-24
Changes: Data collection, Database references, Refinement description
