Potency-enhanced peptidomimetic VHL ligands with improved oral bioavailability
Wu, H., Murray, J.M., Ishisoko, N., Frommlet, A., Fairbrother, W.J., Fuhrmann, J.To be published.
Experimental Data Snapshot
Starting Model: experimental
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wwPDB Validation   3D Report Full Report
Entity ID: 1 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Elongin-B | 104 | 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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Entity ID: 2 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Elongin-C | 96 | Homo sapiens | Mutation(s): 0  Gene Names: ELOC, TCEB1 | ||
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q15369 (Homo sapiens) Explore Q15369  Go to UniProtKB:  Q15369 | |||||
PHAROS:  Q15369 GTEx:  ENSG00000154582  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q15369 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 3 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
von Hippel-Lindau disease tumor suppressor | 176 | 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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Entity ID: 4 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
von Hippel-Lindau disease tumor suppressor | 176 | 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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Find similar proteins by: Sequence | 3D Structure
Entity ID: 5 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
3-PYRIDIN-4-YL-2,4-DIHYDRO-INDENO[1,2-.C.]PYRAZOLE | M [auth W], N [auth X], O [auth Y], P [auth Z] | 5 | synthetic construct | Mutation(s): 0  | |
Sequence AnnotationsExpand | |||||
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Ligands 5 Unique | |||||
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ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
TFA Query on TFA | Q [auth B], Z [auth K] | trifluoroacetic acid C2 H F3 O2 DTQVDTLACAAQTR-UHFFFAOYSA-N | |||
PEG Query on PEG | R [auth B] | DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N | |||
DMS Query on DMS | AA [auth L], W [auth H], X [auth I] | DIMETHYL SULFOXIDE C2 H6 O S IAZDPXIOMUYVGZ-UHFFFAOYSA-N | |||
EDO Query on EDO | S [auth C], Y [auth K] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N | |||
ACT Query on ACT | T [auth C], U [auth F], V [auth H] | ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M |
Modified Residues 3 Unique | |||||
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ID | Chains | Type | Formula | 2D Diagram | Parent |
CSX Query on CSX | C, L | L-PEPTIDE LINKING | C3 H7 N O3 S | CYS | |
HYP Query on HYP | M [auth W], N [auth X], O [auth Y], P [auth Z] | L-PEPTIDE LINKING | C5 H9 N O3 | PRO | |
TBG Query on TBG | M [auth W], N [auth X], O [auth Y], P [auth Z] | L-PEPTIDE LINKING | C6 H13 N O2 | VAL |
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 93.297 | α = 90 |
b = 93.297 | β = 90 |
c = 362.757 | γ = 90 |
Software Name | Purpose |
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REFMAC | refinement |
HKL-2000 | data scaling |
HKL-2000 | data reduction |
PHASER | phasing |
Funding Organization | Location | Grant Number |
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Not funded | -- |