7CPD | pdb_00007cpd

Crystal structure of T2R-TTL-(+)-6-Br-JP18 complex

PDB DOI: https://doi.org/10.2210/pdb7CPD/pdb

Classification: CEll CYCLE/INHIBITOR
Organism(s): Bos taurus, Homo sapiens, Gallus gallus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2020-08-06 Released: 2021-08-11
Deposition Author(s): Jiang, H., Luo, C.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.51 Å
R-Value Free:
0.240 (Depositor), 0.241 (DCC)
R-Value Work:
0.183 (Depositor), 0.187 (DCC)
R-Value Observed:
0.186 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.1 of the entry. See complete history.

Literature

Crystal structure of T2R-TTL-(+)-6-Br-JP18 complex

Jiang, H., Luo, C.

To be published.

Macromolecule Content

Total Structure Weight: 269.23 kDa
Atom Count: 17,454
Modeled Residue Count: 2,116
Deposited Residue Count: 2,359
Unique protein chains: 4

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tubulin alpha-1B chain	A, C	451	Bos taurus	Mutation(s): 0 EC: 3.6.5
UniProt
Find proteins for P81947 (Bos taurus) Explore P81947 Go to UniProtKB: P81947
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P81947
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Tubulin beta-2B chain	B, D	445	Bos taurus	Mutation(s): 0
UniProt
Find proteins for Q6B856 (Bos taurus) Explore Q6B856 Go to UniProtKB: Q6B856
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q6B856
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Stathmin-4	E	189	Homo sapiens	Mutation(s): 0 Gene Names: STMN4
UniProt & NIH Common Fund Data Resources
Find proteins for Q9H169 (Homo sapiens) Explore Q9H169 Go to UniProtKB: Q9H169
PHAROS: Q9H169 GTEx: ENSG00000015592
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9H169
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Tubulin tyrosine ligase	F	378	Gallus gallus	Mutation(s): 0 Gene Names: TTL

Small Molecules

Ligands 7 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GTP Query on GTP Download:Ideal Coordinates CCD File SDF format, chain G [auth A] SDF format, chain P [auth C] MOL2 format, chain G [auth A] MOL2 format, chain P [auth C] mmCIF format, chain G [auth A] mmCIF format, chain P [auth C]	G [auth A], P [auth C]	GUANOSINE-5'-TRIPHOSPHATE C₁₀ H₁₆ N₅ O₁₄ P₃ XKMLYUALXHKNFT-UUOKFMHZSA-N		Interactions Focus chain G [auth A] Focus chain P [auth C] Interactions & Density Focus chain G [auth A] Focus chain P [auth C]
GDP Query on GDP Download:Ideal Coordinates CCD File SDF format, chain M [auth B] SDF format, chain T [auth D] MOL2 format, chain M [auth B] MOL2 format, chain T [auth D] mmCIF format, chain M [auth B] mmCIF format, chain T [auth D]	M [auth B], T [auth D]	GUANOSINE-5'-DIPHOSPHATE C₁₀ H₁₅ N₅ O₁₁ P₂ QGWNDRXFNXRZMB-UUOKFMHZSA-N		Interactions Focus chain M [auth B] Focus chain T [auth D] Interactions & Density Focus chain M [auth B] Focus chain T [auth D]
G9U (Subject of Investigation/LOI) Query on G9U Download:Ideal Coordinates CCD File SDF format, chain J [auth B] SDF format, chain S [auth D] MOL2 format, chain J [auth B] MOL2 format, chain S [auth D] mmCIF format, chain J [auth B] mmCIF format, chain S [auth D]	J [auth B], S [auth D]	(6R)-6-[(6-bromanyl-1H-indol-3-yl)methyl]-6,7,8,9-tetrahydrobenzo[7]annulen-5-one C₂₀ H₁₈ Br N O UKUKRDMWVWUMNY-CQSZACIVSA-N		Interactions Focus chain J [auth B] Focus chain S [auth D] Interactions & Density Focus chain J [auth B] Focus chain S [auth D]
MES Query on MES Download:Ideal Coordinates CCD File SDF format, chain N [auth B] MOL2 format, chain N [auth B] mmCIF format, chain N [auth B]	N [auth B]	2-(N-MORPHOLINO)-ETHANESULFONIC ACID C₆ H₁₃ N O₄ S SXGZJKUKBWWHRA-UHFFFAOYSA-N		Interactions Focus chain N [auth B] Interactions & Density Focus chain N [auth B]
GOL Query on GOL Download:Ideal Coordinates CCD File SDF format, chain O [auth C] MOL2 format, chain O [auth C] mmCIF format, chain O [auth C]	O [auth C]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain O [auth C] Interactions & Density Focus chain O [auth C]
CA Query on CA Download:Ideal Coordinates CCD File SDF format, chain I [auth A] SDF format, chain L [auth B] SDF format, chain R [auth C] MOL2 format, chain I [auth A] MOL2 format, chain L [auth B] MOL2 format, chain R [auth C] mmCIF format, chain I [auth A] mmCIF format, chain L [auth B] mmCIF format, chain R [auth C]	I [auth A], L [auth B], R [auth C]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain I [auth A] Focus chain L [auth B] Focus chain R [auth C] Interactions & Density Focus chain I [auth A] Focus chain L [auth B] Focus chain R [auth C]
MG Query on MG Download:Ideal Coordinates CCD File SDF format, chain H [auth A] SDF format, chain K [auth B] SDF format, chain Q [auth C] MOL2 format, chain H [auth A] MOL2 format, chain K [auth B] MOL2 format, chain Q [auth C] mmCIF format, chain H [auth A] mmCIF format, chain K [auth B] mmCIF format, chain Q [auth C]	H [auth A], K [auth B], Q [auth C]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain H [auth A] Focus chain K [auth B] Focus chain Q [auth C] Interactions & Density Focus chain H [auth A] Focus chain K [auth B] Focus chain Q [auth C]