Structural basis of tubulin and heterocyclic podophyllotoxins complex for anticancer agents with dual-binding sites
Zhao, W.To be published.
Experimental Data Snapshot
Starting Model: in silico
View more details
Entity ID: 1 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Detyrosinated tubulin alpha-1B chain | 440 | Sus scrofa | Mutation(s): 0  EC: 3.6.5 | ||
UniProt | |||||
Find proteins for Q2XVP4 (Sus scrofa) Explore Q2XVP4  Go to UniProtKB:  Q2XVP4 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q2XVP4 | ||||
Sequence AnnotationsExpand | |||||
|
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Tubulin beta chain | 431 | Sus scrofa | Mutation(s): 0  | ||
UniProt | |||||
Find proteins for A0A8D0VN39 (Sus scrofa) Explore A0A8D0VN39  Go to UniProtKB:  A0A8D0VN39 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | A0A8D0VN39 | ||||
Sequence AnnotationsExpand | |||||
|
Entity ID: 3 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Stathmin-4 | 138 | Rattus norvegicus | Mutation(s): 0  Gene Names: Stmn4 | ||
UniProt | |||||
Find proteins for P63043 (Rattus norvegicus) Explore P63043  Go to UniProtKB:  P63043 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P63043 | ||||
Sequence AnnotationsExpand | |||||
|
Entity ID: 4 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Tubulin--tyrosine ligase | 380 | Gallus gallus | Mutation(s): 0  EC: 6.3.2.25 | ||
UniProt | |||||
Find proteins for A0A8C9FGJ1 (Pavo cristatus) Explore A0A8C9FGJ1  Go to UniProtKB:  A0A8C9FGJ1 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | A0A8C9FGJ1 | ||||
Sequence AnnotationsExpand | |||||
|
Ligands 10 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
A1D55 (Subject of Investigation/LOI) Query on A1D55 | O [auth B] | (5~{S},5~{a}~{S},8~{a}~{R},9~{R})-5-(quinolin-6-ylamino)-9-(3,4,5-trimethoxyphenyl)-5~{a},6,8~{a},9-tetrahydro-5~{H}-[2]benzofuro[6,5-f][1,3]benzodioxol-8-one C31 H28 N2 O7 CKAQZFBCKGLIQY-MHTDFPPDSA-N | |||
GTP Query on GTP | G [auth A], P [auth C], T [auth D] | GUANOSINE-5'-TRIPHOSPHATE C10 H16 N5 O14 P3 XKMLYUALXHKNFT-UUOKFMHZSA-N | |||
ACP Query on ACP | U [auth F] | PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER C11 H18 N5 O12 P3 UFZTZBNSLXELAL-IOSLPCCCSA-N | |||
GDP Query on GDP | L [auth B] | GUANOSINE-5'-DIPHOSPHATE C10 H15 N5 O11 P2 QGWNDRXFNXRZMB-UUOKFMHZSA-N | |||
MES Query on MES | N [auth B] | 2-(N-MORPHOLINO)-ETHANESULFONIC ACID C6 H13 N O4 S SXGZJKUKBWWHRA-UHFFFAOYSA-N | |||
PEG Query on PEG | K [auth A] | DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N | |||
GOL Query on GOL | J [auth A] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N | |||
EDO Query on EDO | S [auth C] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N | |||
CA Query on CA | I [auth A], R [auth C] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N | |||
MG Query on MG | H [auth A], M [auth B], Q [auth C] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 104.572 | α = 90 |
b = 157.618 | β = 90 |
c = 179.348 | γ = 90 |
Software Name | Purpose |
---|---|
PHENIX | refinement |
PHENIX | refinement |
HKL-3000 | data reduction |
HKL-3000 | data scaling |
PHASER | phasing |
Funding Organization | Location | Grant Number |
---|---|---|
National Natural Science Foundation of China (NSFC) | China | -- |