8at3

Structure of the augmin holocomplex in open conformation

Method: ELECTRON MICROSCOPY Dmax: 258.8 Å Quality: GOOD

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

HAUS augmin-like complex subunit 1

Xenopus laevis

UniProt Q3B8L5

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 heterocomplex Heteromer Protein × 8 PDB declaration: octameric(8) Consistent with protein copy count Chain A; UniProt 2–287 Not recorded HAUS augmin-like complex subunit 3 × 1 (Q6DCY9) HAUS augmin like complex subunit 4 L homeolog × 1 (Q4V7I1) HAUS augmin-like complex subunit 5 × 1 (A0A1L8FPI2) HAUS augmin like complex subunit 2 L homeolog × 1 (Q6INL9) HAUS augmin like complex subunit 6 L homeolog × 1 (A0JPI0) HAUS augmin like complex subunit 7 S homeolog × 1 (B1H1T5) HAUS augmin-like complex subunit 8 × 1 (Q0IHJ3) ELECTRON MICROSCOPY cryo-EM buffer:pH 7.5 Resolution 33.00 Å

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.

2 other PDB entries and 2 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name Q3B8L5_XENLA
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–286; UniProt 2–287

HAUS augmin-like complex subunit 3

Xenopus laevis

UniProt Q6DCY9

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 heterocomplex Heteromer Protein × 8 PDB declaration: octameric(8) Consistent with protein copy count Chain B; UniProt 1–597 Not recorded HAUS augmin-like complex subunit 1 × 1 (Q3B8L5) HAUS augmin like complex subunit 4 L homeolog × 1 (Q4V7I1) HAUS augmin-like complex subunit 5 × 1 (A0A1L8FPI2) HAUS augmin like complex subunit 2 L homeolog × 1 (Q6INL9) HAUS augmin like complex subunit 6 L homeolog × 1 (A0JPI0) HAUS augmin like complex subunit 7 S homeolog × 1 (B1H1T5) HAUS augmin-like complex subunit 8 × 1 (Q0IHJ3) ELECTRON MICROSCOPY cryo-EM buffer:pH 7.5 Resolution 33.00 Å

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.

3 other PDB entries and 3 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name HAUS3_XENLA
Isoform
PDB entities 2
Chains and sequence ranges Author chain B; PDBConstruct 1–597; UniProt 1–597

HAUS augmin like complex subunit 4 L homeolog

Xenopus laevis

UniProt Q4V7I1

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 heterocomplex Heteromer Protein × 8 PDB declaration: octameric(8) Consistent with protein copy count Chain C; UniProt 1–353 Not recorded HAUS augmin-like complex subunit 1 × 1 (Q3B8L5) HAUS augmin-like complex subunit 3 × 1 (Q6DCY9) HAUS augmin-like complex subunit 5 × 1 (A0A1L8FPI2) HAUS augmin like complex subunit 2 L homeolog × 1 (Q6INL9) HAUS augmin like complex subunit 6 L homeolog × 1 (A0JPI0) HAUS augmin like complex subunit 7 S homeolog × 1 (B1H1T5) HAUS augmin-like complex subunit 8 × 1 (Q0IHJ3) ELECTRON MICROSCOPY cryo-EM buffer:pH 7.5 Resolution 33.00 Å

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.

3 other PDB entries and 3 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name Q4V7I1_XENLA
Isoform
PDB entities 3
Chains and sequence ranges Author chain C; PDBConstruct 1–353; UniProt 1–353

HAUS augmin-like complex subunit 5

Xenopus laevis

UniProt A0A1L8FPI2

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 heterocomplex Heteromer Protein × 8 PDB declaration: octameric(8) Consistent with protein copy count Chain D; UniProt 1–666 Not recorded HAUS augmin-like complex subunit 1 × 1 (Q3B8L5) HAUS augmin-like complex subunit 3 × 1 (Q6DCY9) HAUS augmin like complex subunit 4 L homeolog × 1 (Q4V7I1) HAUS augmin like complex subunit 2 L homeolog × 1 (Q6INL9) HAUS augmin like complex subunit 6 L homeolog × 1 (A0JPI0) HAUS augmin like complex subunit 7 S homeolog × 1 (B1H1T5) HAUS augmin-like complex subunit 8 × 1 (Q0IHJ3) ELECTRON MICROSCOPY cryo-EM buffer:pH 7.5 Resolution 33.00 Å

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.

3 other PDB entries and 3 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name A0A1L8FPI2_XENLA
Isoform
PDB entities 4
Chains and sequence ranges Author chain D; PDBConstruct 1–666; UniProt 1–666

HAUS augmin like complex subunit 2 L homeolog

Xenopus laevis

UniProt Q6INL9

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 heterocomplex Heteromer Protein × 8 PDB declaration: octameric(8) Consistent with protein copy count Chain E; UniProt 1–222 Not recorded HAUS augmin-like complex subunit 1 × 1 (Q3B8L5) HAUS augmin-like complex subunit 3 × 1 (Q6DCY9) HAUS augmin like complex subunit 4 L homeolog × 1 (Q4V7I1) HAUS augmin-like complex subunit 5 × 1 (A0A1L8FPI2) HAUS augmin like complex subunit 6 L homeolog × 1 (A0JPI0) HAUS augmin like complex subunit 7 S homeolog × 1 (B1H1T5) HAUS augmin-like complex subunit 8 × 1 (Q0IHJ3) ELECTRON MICROSCOPY cryo-EM buffer:pH 7.5 Resolution 33.00 Å

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.

2 other PDB entries and 2 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name Q6INL9_XENLA
Isoform
PDB entities 5
Chains and sequence ranges Author chain E; PDBConstruct 1–222; UniProt 1–222

HAUS augmin like complex subunit 6 L homeolog

Xenopus laevis

UniProt A0JPI0

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 heterocomplex Heteromer Protein × 8 PDB declaration: octameric(8) Consistent with protein copy count Chain F; UniProt 1–978 Not recorded HAUS augmin-like complex subunit 1 × 1 (Q3B8L5) HAUS augmin-like complex subunit 3 × 1 (Q6DCY9) HAUS augmin like complex subunit 4 L homeolog × 1 (Q4V7I1) HAUS augmin-like complex subunit 5 × 1 (A0A1L8FPI2) HAUS augmin like complex subunit 2 L homeolog × 1 (Q6INL9) HAUS augmin like complex subunit 7 S homeolog × 1 (B1H1T5) HAUS augmin-like complex subunit 8 × 1 (Q0IHJ3) ELECTRON MICROSCOPY cryo-EM buffer:pH 7.5 Resolution 33.00 Å

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.

3 other PDB entries and 3 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name A0JPI0_XENLA
Isoform
PDB entities 6
Chains and sequence ranges Author chain F; PDBConstruct 1–978; UniProt 1–978

HAUS augmin like complex subunit 7 S homeolog

Xenopus laevis

UniProt B1H1T5

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 heterocomplex Heteromer Protein × 8 PDB declaration: octameric(8) Consistent with protein copy count Chain G; UniProt 1–348 Not recorded HAUS augmin-like complex subunit 1 × 1 (Q3B8L5) HAUS augmin-like complex subunit 3 × 1 (Q6DCY9) HAUS augmin like complex subunit 4 L homeolog × 1 (Q4V7I1) HAUS augmin-like complex subunit 5 × 1 (A0A1L8FPI2) HAUS augmin like complex subunit 2 L homeolog × 1 (Q6INL9) HAUS augmin like complex subunit 6 L homeolog × 1 (A0JPI0) HAUS augmin-like complex subunit 8 × 1 (Q0IHJ3) ELECTRON MICROSCOPY cryo-EM buffer:pH 7.5 Resolution 33.00 Å

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.

4 other PDB entries and 4 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name B1H1T5_XENLA
Isoform
PDB entities 7
Chains and sequence ranges Author chain G; PDBConstruct 1–348; UniProt 1–348

HAUS augmin-like complex subunit 8

Xenopus laevis

UniProt Q0IHJ3

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 heterocomplex Heteromer Protein × 8 PDB declaration: octameric(8) Consistent with protein copy count Chain H; UniProt 1–367 Not recorded HAUS augmin-like complex subunit 1 × 1 (Q3B8L5) HAUS augmin-like complex subunit 3 × 1 (Q6DCY9) HAUS augmin like complex subunit 4 L homeolog × 1 (Q4V7I1) HAUS augmin-like complex subunit 5 × 1 (A0A1L8FPI2) HAUS augmin like complex subunit 2 L homeolog × 1 (Q6INL9) HAUS augmin like complex subunit 6 L homeolog × 1 (A0JPI0) HAUS augmin like complex subunit 7 S homeolog × 1 (B1H1T5) ELECTRON MICROSCOPY cryo-EM buffer:pH 7.5 Resolution 33.00 Å

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.

4 other PDB entries and 4 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name HAUS8_XENLA
Isoform
PDB entities 8
Chains and sequence ranges Author chain H; PDBConstruct 1–367; UniProt 1–367

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

SAXS profile for 8at3

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 8at3
Download Download

2. Structure Basics 2. Structure Basics

Entry ID entry_id8at3
Deposition date deposition_date2022-08-22
Structure title titleStructure of the augmin holocomplex in open conformation
Keywords keywordsMicrotubule, Branching, Nucleation, CELL CYCLE; CELL CYCLE
Experimental Method methodELECTRON MICROSCOPY

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

Radius of gyration Rg (Guinier) rg_guinier
Radius of gyration Rg (electron density) rg_electron130.10
Forward intensity I(0) i01723790000.00
Molecular weight molecular_weight350800.0 kDa
Excluded volume excluded_volume438720 ų
Envelope volume envelope_volume1196900 ų
Hydration-shell volume shell_volume85417 ų
Envelope diameter envelope_diameter459.4
Shell Rg shell_rg86.43
Envelope Rg envelope_rg128.50
Shape Rg shape_rg130.10
Total Rg total_rg129.60
Total atoms total_atoms24599
Residues n_residues3048
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 −1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3

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

Maximum dimension Dmax dmax258.8
Rg (real space) rg_real95.07
Rg uncertainty (real space) rg_real_error1.08
I(0) (real space) i0_real1.4150e+09
I(0) uncertainty (real space) i0_real_error3.1970e+07
Rg (reciprocal space) rg_reciprocal100.50
I(0) (reciprocal space) i0_reciprocal1583000000.0000
Solution quality estimate total_estimate0.7595
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary129.4
Skewness Skewness skewness0.148
Kurtosis Kurtosis kurtosis-1.013
Angular range angular_range— – 0.0600 −1
Current regularization parameter α current_alpha1.5420
Highest regularization parameter α highest_alpha56380000.0000
Real-space data points n_real_points13
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.109; Oscil: 0.863; Stabil: 0.828; Sysdev: 1.000; Positv: 1.000; Valcen: 0.800; Smooth: 0.001

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (8)

8. Citations (1)

9. Files and Curves (10)