3cb2

Crystal structure of human gamma-tubulin bound to GDP

Method: X-RAY DIFFRACTION D_max: 98.8 Å Quality: GOOD

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1. Protein Identity and Related Structures Protein Identity & Related Structures

tubulin gamma-1 chain

Homo sapiens

State in the Current Structure

Assembly	Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Associated Components	Method and Experimental Conditions	Structure Quality
1	Protein homooligomer Homooligomer Protein × 2 PDB declaration: dimeric（2） Consistent with protein copy count	Chain A； UniProt 1–451 Chain B； UniProt 1–451	Not recorded	GDP GUANOSINE-5'-DIPHOSPHATE × 2	X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION；pH 7.2；298 K；top solution: 83 mM HEPES pH 7.2, 1.2M KCl, 20% PEG6000, 1mM GDP; reservoir: 83mM HEPES pH 7.2, 0.6M KCl, 20% PEG6000, 1 mM GDP. Protein was mixed 1:1 or 1:2 with top solution, and equilibrated over the reservoir solution., VAPOR DIFFUSION, temperature 298K	Resolution 2.30 Å R-free 0.238

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB	Difference from Current Entry 3CB2	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
1Z5V Crystal structure of human gamma-tubulin bound to GTPgammaS Deposited 2005-03-20	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 1–449（449 aa）	Not recorded	MG MAGNESIUM ION × 1 GSP 5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION；pH 8.2；277 K；Tris, KCL, PEG6000, pH 8.2, VAPOR DIFFUSION, temperature 277K	Resolution 2.71 Å R-free 0.293
1Z5W Crystal Structure of gamma-tubulin bound to GTP Deposited 2005-03-20	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 1–449（449 aa）	Not recorded	MG MAGNESIUM ION × 1 GTP GUANOSINE-5'-TRIPHOSPHATE × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION；pH 8.2；277 K；Tris, KCl, PEG6000, pH 8.2, VAPOR DIFFUSION, temperature 277K	Resolution 3.00 Å R-free 0.309
6V5V Structure of gamma-tubulin in the native human gamma-tubulin ring complex Deposited 2019-12-04	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain g 1–451（451 aa）	Not recorded	GDP GUANOSINE-5'-DIPHOSPHATE × 1	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.80 Å
6V6S Structure of the native human gamma-tubulin ring complex Deposited 2019-12-05	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 38 PDB declaration: 38-meric	Chain a 1–451（451 aa） Chain b 1–451（451 aa） Chain c 1–451（451 aa） Chain d 1–451（451 aa） Chain e 1–451（451 aa） Chain f 1–451（451 aa） Chain g 1–451（451 aa） Chain h 1–451（451 aa） Chain i 1–451（451 aa） Chain j 1–451（451 aa） Chain k 1–451（451 aa） Chain l 1–451（451 aa） Chain m 1–451（451 aa） Chain t 1–451（451 aa）	Not recorded	ADP ADENOSINE-5'-DIPHOSPHATE × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 14	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 4.30 Å
7AS4 Recombinant human gTuRC Deposited 2020-10-26	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 33 PDB declaration: 33-meric	Chain 1 1–447（447 aa） Chain 2 1–447（447 aa） Chain O 1–447（447 aa） Chain P 1–447（447 aa） Chain Q 1–447（447 aa） Chain R 1–447（447 aa） Chain S 1–447（447 aa） Chain T 1–447（447 aa） Chain U 1–447（447 aa） Chain V 1–447（447 aa） Chain W 1–447（447 aa） Chain X 1–447（447 aa） Chain Y 1–447（447 aa） Chain Z 1–447（447 aa）	Not recorded	GDP GUANOSINE-5'-DIPHOSPHATE × 14	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 4.13 Å
7QJ0 Structure of recombinant human gamma-Tubulin Ring Complex 6-spoked assembly intermediate (spokes 7-12) Deposited 2021-12-16	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 16 PDB declaration: hexadecameric	Chain U 1–451（451 aa） Chain V 1–451（451 aa） Chain W 1–451（451 aa） Chain X 1–451（451 aa） Chain Y 1–451（451 aa） Chain Z 1–451（451 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 5.32 Å
7QJ1 Structure of the recombinant human gamma-Tubulin Ring Complex 6-spoked assembly intermediate (spokes 7-12, homogeneous dataset) Deposited 2021-12-16	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 16 PDB declaration: hexadecameric	Chain U 1–451（451 aa） Chain V 1–451（451 aa） Chain W 1–451（451 aa） Chain X 1–451（451 aa） Chain Y 1–451（451 aa） Chain Z 1–451（451 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 7.00 Å
7QJ2 Structure of recombinant human gamma-Tubulin Ring Complex 8-spoked assembly intermediate (spokes 5-12) Deposited 2021-12-16	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 22 PDB declaration: 22-meric	Chain S 1–451（451 aa） Chain T 1–451（451 aa） Chain U 1–451（451 aa） Chain V 1–451（451 aa） Chain W 1–451（451 aa） Chain X 1–451（451 aa） Chain Y 1–451（451 aa） Chain Z 1–451（451 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 8.60 Å
7QJ3 Structure of recombinant human gamma-Tubulin Ring Complex 8-spoked assembly intermediate (spokes 7-14) Deposited 2021-12-16	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 22 PDB declaration: 22-meric	Chain 1 1–451（451 aa） Chain 2 1–451（451 aa） Chain U 1–451（451 aa） Chain V 1–451（451 aa） Chain W 1–451（451 aa） Chain X 1–451（451 aa） Chain Y 1–451（451 aa） Chain Z 1–451（451 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 7.60 Å
7QJ4 Structure of recombinant human gamma-Tubulin Ring Complex 10-spoked assembly intermediate (spokes 5-14) Deposited 2021-12-16	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 28 PDB declaration: 28-meric	Chain 1 1–451（451 aa） Chain 2 1–451（451 aa） Chain S 1–451（451 aa） Chain T 1–451（451 aa） Chain U 1–451（451 aa） Chain V 1–451（451 aa） Chain W 1–451（451 aa） Chain X 1–451（451 aa） Chain Y 1–451（451 aa） Chain Z 1–451（451 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 9.00 Å
7QJ5 Structure of recombinant human gamma-Tubulin Ring Complex (spokes 1-14) Deposited 2021-12-16	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 41 PDB declaration: 41-meric	Chain 1 1–451（451 aa） Chain 2 1–451（451 aa） Chain O 1–451（451 aa） Chain P 1–451（451 aa） Chain Q 1–451（451 aa） Chain R 1–451（451 aa） Chain S 1–451（451 aa） Chain T 1–451（451 aa） Chain U 1–451（451 aa） Chain V 1–451（451 aa） Chain W 1–451（451 aa） Chain X 1–451（451 aa） Chain Y 1–451（451 aa） Chain Z 1–451（451 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 8.70 Å
7QJ6 Structure of recombinant human gamma-Tubulin Ring Complex 10-spoked assembly intermediate (spokes 3-12, substoichiometric spokes 13-14) Deposited 2021-12-16	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 31 PDB declaration: 31-meric	Chain Q 1–451（451 aa） Chain R 1–451（451 aa） Chain S 1–451（451 aa） Chain T 1–451（451 aa） Chain U 1–451（451 aa） Chain V 1–451（451 aa） Chain W 1–451（451 aa） Chain X 1–451（451 aa） Chain Y 1–451（451 aa） Chain Z 1–451（451 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 7.80 Å
7QJ7 Structure of recombinant human gamma-Tubulin Ring Complex 12-spoked assembly intermediate (spokes 1-12 substoichiometric spokes 13-14) Deposited 2021-12-16	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 37 PDB declaration: 37-meric	Chain O 1–451（451 aa） Chain P 1–451（451 aa） Chain Q 1–451（451 aa） Chain R 1–451（451 aa） Chain S 1–451（451 aa） Chain T 1–451（451 aa） Chain U 1–451（451 aa） Chain V 1–451（451 aa） Chain W 1–451（451 aa） Chain X 1–451（451 aa） Chain Y 1–451（451 aa） Chain Z 1–451（451 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 8.70 Å
7QJ8 Structure of recombinant human gamma-Tubulin Ring Complex 12-spoked assembly intermediate (spokes 3-14, substoichiometric spokes 1-2) Deposited 2021-12-16	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 35 PDB declaration: 35-meric	Chain 1 1–451（451 aa） Chain 2 1–451（451 aa） Chain Q 1–451（451 aa） Chain R 1–451（451 aa） Chain S 1–451（451 aa） Chain T 1–451（451 aa） Chain U 1–451（451 aa） Chain V 1–451（451 aa） Chain W 1–451（451 aa） Chain X 1–451（451 aa） Chain Y 1–451（451 aa） Chain Z 1–451（451 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 8.70 Å
7QJ9 Structure of recombinant human gamma-Tubulin Ring Complex 10-spoked assembly intermediate (spokes 3-12, homogeneous dataset) Deposited 2021-12-16	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 31 PDB declaration: 31-meric	Chain Q 1–451（451 aa） Chain R 1–451（451 aa） Chain S 1–451（451 aa） Chain T 1–451（451 aa） Chain U 1–451（451 aa） Chain V 1–451（451 aa） Chain W 1–451（451 aa） Chain X 1–451（451 aa） Chain Y 1–451（451 aa） Chain Z 1–451（451 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 8.10 Å
7QJA Structure of recombinant human gamma-Tubulin Ring Complex 12-spoked assembly intermediate (spokes 1-12, homogeneous dataset) Deposited 2021-12-16	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 37 PDB declaration: 37-meric	Chain O 1–451（451 aa） Chain P 1–451（451 aa） Chain Q 1–451（451 aa） Chain R 1–451（451 aa） Chain S 1–451（451 aa） Chain T 1–451（451 aa） Chain U 1–451（451 aa） Chain V 1–451（451 aa） Chain W 1–451（451 aa） Chain X 1–451（451 aa） Chain Y 1–451（451 aa） Chain Z 1–451（451 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 9.20 Å
7QJB Structure of recombinant human gamma-Tubulin Ring Complex 12-spoked assembly intermediate (spokes 3-14, homogeneous dataset) Deposited 2021-12-16	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 35 PDB declaration: 35-meric	Chain 1 1–451（451 aa） Chain 2 1–451（451 aa） Chain Q 1–451（451 aa） Chain R 1–451（451 aa） Chain S 1–451（451 aa） Chain T 1–451（451 aa） Chain U 1–451（451 aa） Chain V 1–451（451 aa） Chain W 1–451（451 aa） Chain X 1–451（451 aa） Chain Y 1–451（451 aa） Chain Z 1–451（451 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 9.20 Å
7QJC Structure of recombinant human gamma-Tubulin Ring Complex (spokes 1-14, homogeneous dataset) Deposited 2021-12-16	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 41 PDB declaration: 41-meric	Chain 1 1–451（451 aa） Chain 2 1–451（451 aa） Chain O 1–451（451 aa） Chain P 1–451（451 aa） Chain Q 1–451（451 aa） Chain R 1–451（451 aa） Chain S 1–451（451 aa） Chain T 1–451（451 aa） Chain U 1–451（451 aa） Chain V 1–451（451 aa） Chain W 1–451（451 aa） Chain X 1–451（451 aa） Chain Y 1–451（451 aa） Chain Z 1–451（451 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 16.10 Å
7QJD Structure of recombinant human gamma-Tubulin Ring Complex without actin Deposited 2021-12-16	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 42 PDB declaration: 42-meric	Chain 1 1–451（451 aa） Chain 2 1–451（451 aa） Chain O 1–451（451 aa） Chain P 1–451（451 aa） Chain Q 1–451（451 aa） Chain R 1–451（451 aa） Chain S 1–451（451 aa） Chain T 1–451（451 aa） Chain U 1–451（451 aa） Chain V 1–451（451 aa） Chain W 1–451（451 aa） Chain X 1–451（451 aa） Chain Y 1–451（451 aa） Chain Z 1–451（451 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 7.10 Å
7QJE Structure of recombinant human gamma-Tubulin Ring Complex 4-spoked assembly intermediate (spokes 9-12) Deposited 2021-12-16	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric	Chain W 1–451（451 aa） Chain X 1–451（451 aa） Chain Y 1–451（451 aa） Chain Z 1–451（451 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 7.80 Å
8Q62 Early closed conformation of the g-tubulin ring complex Deposited 2023-08-10	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 28 PDB declaration: 28-meric	Chain a 1–451（451 aa） Chain b 1–451（451 aa） Chain c 1–451（451 aa） Chain d 1–451（451 aa） Chain e 1–451（451 aa） Chain f 1–451（451 aa） Chain g 1–451（451 aa） Chain h 1–451（451 aa） Chain i 1–451（451 aa） Chain j 1–451（451 aa） Chain k 1–451（451 aa） Chain l 1–451（451 aa） Chain m 1–451（451 aa） Chain n 1–451（451 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 6.9 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.72 Å
8RX1 CryoEM structure of the gTuRC-CM1dim complex Deposited 2024-02-06	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 45 PDB declaration: 45-meric	Chain 1 1–451（451 aa） Chain 2 1–451（451 aa） Chain O 1–451（451 aa） Chain P 1–451（451 aa） Chain Q 1–451（451 aa） Chain R 1–451（451 aa） Chain S 1–451（451 aa） Chain T 1–451（451 aa） Chain U 1–451（451 aa） Chain V 1–451（451 aa） Chain W 1–451（451 aa） Chain X 1–451（451 aa） Chain Y 1–451（451 aa） Chain Z 1–451（451 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE-PROPANE	Resolution 3.57 Å
8VRD Rigid body fitted model for free recombinant gamma tubulin ring complex. Deposited 2024-01-21	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 34 PDB declaration: 34-meric	Chain a 1–451（451 aa） Chain b 1–451（451 aa） Chain c 1–451（451 aa） Chain d 1–451（451 aa） Chain e 1–451（451 aa） Chain f 1–451（451 aa） Chain g 1–451（451 aa） Chain h 1–451（451 aa） Chain i 1–451（451 aa） Chain j 1–451（451 aa） Chain k 1–451（451 aa） Chain l 1–451（451 aa） Chain m 1–451（451 aa） Chain n 1–451（451 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 6.8 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 7.00 Å
8VRJ Rigid body fitted model for gamma tubulin ring complex capped microtubule Deposited 2024-01-22	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 60 PDB declaration: 60-meric	Chain a 1–451（451 aa） Chain b 1–451（451 aa） Chain c 1–451（451 aa） Chain d 1–451（451 aa） Chain e 1–451（451 aa） Chain f 1–451（451 aa） Chain g 1–451（451 aa） Chain h 1–451（451 aa） Chain i 1–451（451 aa） Chain j 1–451（451 aa） Chain k 1–451（451 aa） Chain l 1–451（451 aa） Chain m 1–451（451 aa） Chain n 1–451（451 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 6.8 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 7.70 Å
8VRK Rigid body fitted model for refined density map of gamma tubulin ring complex capped microtubule Deposited 2024-01-22	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 60 PDB declaration: 60-meric	Chain a 1–451（451 aa） Chain b 1–451（451 aa） Chain c 1–451（451 aa） Chain d 1–451（451 aa） Chain e 1–451（451 aa） Chain f 1–451（451 aa） Chain g 1–451（451 aa） Chain h 1–451（451 aa） Chain i 1–451（451 aa） Chain j 1–451（451 aa） Chain k 1–451（451 aa） Chain l 1–451（451 aa） Chain m 1–451（451 aa） Chain n 1–451（451 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 6.8 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 8.50 Å
9H9P Spokes 12 and 13 of the human gamma-tubulin ring complex in complex with CDK5RAP2 and docked MZT2/GCP2-NHD module Deposited 2024-10-31	Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 7 PDB declaration: heptameric	Chain l 1–451（451 aa） Chain m 1–451（451 aa）	Not recorded	GDP GUANOSINE-5'-DIPHOSPHATE × 2	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 4.50 Å
9I8G Inwards conformation' of the human gamma-TuRC from purified centrosomes obtained by rigid body docking Deposited 2025-02-04	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 33 PDB declaration: 33-meric	Chain a 1–451（451 aa） Chain b 1–451（451 aa） Chain c 1–451（451 aa） Chain d 1–451（451 aa） Chain e 1–451（451 aa） Chain f 1–451（451 aa） Chain g 1–451（451 aa） Chain h 1–451（451 aa） Chain i 1–451（451 aa） Chain j 1–451（451 aa） Chain k 1–451（451 aa） Chain l 1–451（451 aa） Chain m 1–451（451 aa） Chain t 1–451（451 aa）	Not recorded	ADP ADENOSINE-5'-DIPHOSPHATE × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 14	ELECTRON MICROSCOPY cryo-EM buffer pH 7.2 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 22.40 Å
9I8H Outwards conformation' of the human gamma-TuRC from purified centrosomes obtained by rigid body docking Deposited 2025-02-04	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 33 PDB declaration: 33-meric	Chain a 1–451（451 aa） Chain b 1–451（451 aa） Chain c 1–451（451 aa） Chain d 1–451（451 aa） Chain e 1–451（451 aa） Chain f 1–451（451 aa） Chain g 1–451（451 aa） Chain h 1–451（451 aa） Chain i 1–451（451 aa） Chain j 1–451（451 aa） Chain k 1–451（451 aa） Chain l 1–451（451 aa） Chain m 1–451（451 aa） Chain t 1–451（451 aa）	Not recorded	ADP ADENOSINE-5'-DIPHOSPHATE × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 14	ELECTRON MICROSCOPY cryo-EM buffer pH 7.2 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 23.20 Å
9QVM Cryo-EM reconstruction of the NEDD1 anchor protein and CDK5RAP2 bound to the gamma-tubulin ring complex Deposited 2025-04-11	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 48 PDB declaration: 48-meric	Chain a 1–451（451 aa） Chain b 1–451（451 aa） Chain c 1–451（451 aa） Chain d 1–451（451 aa） Chain e 1–451（451 aa） Chain f 1–451（451 aa） Chain g 1–451（451 aa） Chain h 1–451（451 aa） Chain i 1–451（451 aa） Chain j 1–451（451 aa） Chain k 1–451（451 aa） Chain l 1–451（451 aa） Chain m 1–451（451 aa） Chain n 1–451（451 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE-PROPANE	Resolution 6.80 Å
9QVN Cryo-EM reconstruction of the NEDD1 anchor protein bound to the gamma-tubulin ring complex Deposited 2025-04-11	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 45 PDB declaration: 45-meric	Chain a 1–451（451 aa） Chain b 1–451（451 aa） Chain c 1–451（451 aa） Chain d 1–451（451 aa） Chain e 1–451（451 aa） Chain f 1–451（451 aa） Chain g 1–451（451 aa） Chain h 1–451（451 aa） Chain i 1–451（451 aa） Chain j 1–451（451 aa） Chain k 1–451（451 aa） Chain l 1–451（451 aa） Chain m 1–451（451 aa） Chain n 1–451（451 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 4.70 Å
9SMX CM1-activated gTuRC in complex with nascent alpha-E254D mutant microtubules Deposited 2025-09-09	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Heteromer；Protein × 73 PDB declaration: 73-meric	Chain a 1–451（451 aa） Chain b 1–451（451 aa） Chain c 1–451（451 aa） Chain d 1–451（451 aa） Chain e 1–451（451 aa） Chain f 1–451（451 aa） Chain g 1–451（451 aa） Chain h 1–451（451 aa） Chain i 1–451（451 aa） Chain j 1–451（451 aa） Chain k 1–451（451 aa） Chain l 1–451（451 aa） Chain m 1–451（451 aa） Chain n 1–451（451 aa）	Not recorded	GTP GUANOSINE-5'-TRIPHOSPHATE × 11	ELECTRON MICROSCOPY cryo-EM buffer pH 6.9 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.67 Å

31 other PDB entries and 31 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence

UniProt name	TBG1_HUMAN
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–451； UniProt 1–451 Author chain B； PDBConstruct 1–451； UniProt 1–451

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

SAXS scattering curve SAXS Profile

P(r) Distance Distribution P(r) Distribution

Download Download SAXS (.dat) P(r) (.pr.out) CIF

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2. Structure Basics 2. Structure Basics

Entry ID entry_id	3cb2
Deposition date deposition_date	2008-02-21
Structure title title	Crystal structure of human gamma-tubulin bound to GDP
Keywords keywords	tubulin, lattice, microtubule, nucleation, GTPase, lateral interaction, STRUCTURAL PROTEIN, HYDROLASE; STRUCTURAL PROTEIN, HYDROLASE
Experimental Method method	X-RAY DIFFRACTION

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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier	30.92 Å
Radius of gyration Rg (electron density) rg_electron	29.98 Å
Forward intensity I(0) i0	142832000.00
Molecular weight molecular_weight	94193.0 kDa
Excluded volume excluded_volume	117350 Å³
Envelope volume envelope_volume	142270 Å³
Hydration-shell volume shell_volume	39547 Å³
Envelope diameter envelope_diameter	100.0 Å
Shell Rg shell_rg	37.36 Å
Envelope Rg envelope_rg	30.06 Å
Shape Rg shape_rg	30.02 Å
Total Rg total_rg	30.46 Å
Total atoms total_atoms	6634
Residues n_residues	856
Spherical-harmonic order n_harmonics	20
q range q_range	— – 0.5000 Å⁻¹
Data points n_points	101
Shell type shell_type	directional
Solvent electron density solvent_density	0.3340 e/Å³
Shell contrast contrast_shell	0.0300 e/Å³
CRYSOL version crysol_version	4.1.3

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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax	98.8 Å
Rg (real space) rg_real	30.94 Å
Rg uncertainty (real space) rg_real_error	0.75 Å
I(0) (real space) i0_real	1.4280e+08
I(0) uncertainty (real space) i0_real_error	2.4670e+06
Rg (reciprocal space) rg_reciprocal	30.94 Å
I(0) (reciprocal space) i0_reciprocal	142800000.0000
Solution quality estimate total_estimate	0.8910
Solution quality rating solution_quality	GOOD a GOOD solution
P(r) peaks n_peaks	0
Primary peak position r_peak_primary	— Å
Skewness Skewness skewness	0.360
Kurtosis Kurtosis kurtosis	-0.484
Angular range angular_range	— – 0.2550 Å⁻¹
Current regularization parameter α current_alpha	0.0000
Highest regularization parameter α highest_alpha	37080000.0000
Real-space data points n_real_points	52
GNOM version gnom_version	4.1.3
Quality Criteria quality_criteria	AN1: 0.000; Oscil: 0.894; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.984; Smooth: 0.915

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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (3)

Entity 1 Entity 1 polymer

Description description	tubulin gamma-1 chain
Molecular weight formula_weight	54039.8 kDa
EC 编号 ec_number	3.6.5.6
Source method src_method	man
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B
Atom count atom_count	7012

MPREIITLQLGQCGNQIGFEFWKQLCAEHGISPEAIVEEFATEGTDRKDVFFYQADDEHYIPRAVLLDLEPRVIHSILNSPYAKLYNPENIYLSEHGGGAGNNWASGFSQGEKIHEDIFDIIDREADGSDSLEGFVLCHSIAGGTGSGLGSYLLERLNDRYPKKLVQTYSVFPNQDEMSDVVVQPYNSLLTLKRLTQNADCLVVLDNTALNRIATDRLHIQNPSFSQINQLVSTIMSASTTTLRYPGYMNNDLIGLIASLIPTPRLHFLMTGYTPLTTDQSVASVRKTTVLDVMRRLLQPKNVMVSTGRDRQTNHCYIAILNIIQGEVDPTQVHKSLQRIRERKLANFIPWGPASIQVALSRKSPYLPSAHRVSGLMMANHTSISSLFERTCRQYDKLRKREAFLEQFRKEDMFKDNFDEMDTSREIVQQLIDEYHAATRPDYISWGTQEQVDVDGGQKLISEEDLLLEHHHHHH

来源 Source

来源生物 organism	Homo sapiens
通用名 common_name	human
宿主生物 host_organism	Spodoptera frugiperda

Entity 2 Entity 2 non-polymer

Description description	GUANOSINE-5'-DIPHOSPHATE
Molecular weight formula_weight	443.2 kDa
Source method src_method	syn
Copy count entity_count	2

Entity 3 Entity 3 water

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	378

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7. Fold Classification (SCOP + CATH) 10 domains

SCOP 2.08 (4 domains)

Domain ID domain_id	d3cb2a1
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.32 — Tubulin nucleotide-binding domain-like
Superfamily Superfamily superfamily	c.32.1 — Tubulin nucleotide-binding domain-like
Family Family family	c.32.1.0 — automated matches

Domain ID domain_id	d3cb2a2
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.79 — Bacillus chorismate mutase-like
Superfamily Superfamily superfamily	d.79.2 — Tubulin C-terminal domain-like
Family Family family	d.79.2.0 — automated matches

Domain ID domain_id	d3cb2b1
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.32 — Tubulin nucleotide-binding domain-like
Superfamily Superfamily superfamily	c.32.1 — Tubulin nucleotide-binding domain-like
Family Family family	c.32.1.0 — automated matches

Domain ID domain_id	d3cb2b2
Class class	d — Alpha and beta proteins (a+b)
Fold Fold fold	d.79 — Bacillus chorismate mutase-like
Superfamily Superfamily superfamily	d.79.2 — Tubulin C-terminal domain-like
Family Family family	d.79.2.0 — automated matches

CATH v4.4 (6 domains)

Domain ID domain_id	3cb2A01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	1440 — Tubulin/FtsZ, GTPase domain

Domain ID domain_id	3cb2A02
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	1330 — 60s Ribosomal Protein L30; Chain: A;
Homologous superfamily homologous superfamily	20 — Tubulin/FtsZ, C-terminal domain

Domain ID domain_id	3cb2A03
Class class	1 — Mainly Alpha
Architecture architecture	10 — Orthogonal Bundle
Topology topology	287 — Helix Hairpins
Homologous superfamily homologous superfamily	600 — Helix hairpin bin

Domain ID domain_id	3cb2B01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	1440 — Tubulin/FtsZ, GTPase domain

Domain ID domain_id	3cb2B02
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	1330 — 60s Ribosomal Protein L30; Chain: A;
Homologous superfamily homologous superfamily	20 — Tubulin/FtsZ, C-terminal domain

Domain ID domain_id	3cb2B03
Class class	1 — Mainly Alpha
Architecture architecture	10 — Orthogonal Bundle
Topology topology	287 — Helix Hairpins
Homologous superfamily homologous superfamily	600 — Helix hairpin bin

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8. Citations (1)

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Unit-cell length a length_a	51.744 Å
Unit-cell length b length_b	108.755 Å
Unit-cell length c length_c	83.347 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	96.33 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	4

Space group space_group	P 1 21 1
Space-group number int_tables_number	4
Crystal system crystal_system	—

Resolution resolution	2.303 Å
Low-resolution limit resolution_low	82.760 Å
R factor r_factor	0.1891
R_work r_work	0.1865
R_free r_free	0.2379

fit	/app/data/saxs_computation/cb/3cb2/3cb2.fit
pddf	/app/data/pr_computation/cb/3cb2/3cb2.pr.out
profile	/app/data/saxs_computation/cb/3cb2/3cb2.dat