6z3r

Structure of SMG1-8-9 kinase complex bound to UPF1-LSQ

Method: ELECTRON MICROSCOPY
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1. Protein Identity and Related Structures Protein Identity & Related Structures

;Serine/threonine-protein kinase SMG1,Serine/threonine-protein kinase SMG1,SMG1,Serine/threonine-protein kinase SMG1,Serine/threonine-protein kinase SMG1,Serine/threonine-protein kinase SMG1 ;

Homo sapiens

UniProt Q96Q15

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 4 Protein SMG8 × 1 (Q8ND04) Protein SMG9 × 1 (Q9H0W8) Regulator of nonsense transcripts 1 × 1 (Q92900) PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER × 1 INOSITOL HEXAKISPHOSPHATE × 1 ADENOSINE-5'-TRIPHOSPHATE × 1 MAGNESIUM ION × 1 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name SMG1_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 70–1449; UniProt 259–1638 Author chain A; PDBConstruct 1492–1821; UniProt 1727–2056 Author chain A; PDBConstruct 1838–3411; UniProt 2088–3661

Protein SMG8

Homo sapiens

UniProt Q8ND04

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 4 ;Serine/threonine-protein kinase SMG1,Serine/threonine-protein kinase SMG1,SMG1,Serine/threonine-protein kinase SMG1,Serine/threonine-protein kinase SMG1,Serine/threonine-protein kinase SMG1 ; × 1 (Q96Q15) Protein SMG9 × 1 (Q9H0W8) Regulator of nonsense transcripts 1 × 1 (Q92900) PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER × 1 INOSITOL HEXAKISPHOSPHATE × 1 ADENOSINE-5'-TRIPHOSPHATE × 1 MAGNESIUM ION × 1 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name SMG8_HUMAN
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B; PDBConstruct 1–991; UniProt 1–991

Protein SMG9

Homo sapiens

UniProt Q9H0W8

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 4 ;Serine/threonine-protein kinase SMG1,Serine/threonine-protein kinase SMG1,SMG1,Serine/threonine-protein kinase SMG1,Serine/threonine-protein kinase SMG1,Serine/threonine-protein kinase SMG1 ; × 1 (Q96Q15) Protein SMG8 × 1 (Q8ND04) Regulator of nonsense transcripts 1 × 1 (Q92900) PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER × 1 INOSITOL HEXAKISPHOSPHATE × 1 ADENOSINE-5'-TRIPHOSPHATE × 1 MAGNESIUM ION × 1 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name SMG9_HUMAN
Isoform —
PDB entities 3
Chains and sequence ranges Author chain C; PDBConstruct 1–520; UniProt 1–520

Regulator of nonsense transcripts 1

OrganismNot specified

UniProt Q92900

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 4 ;Serine/threonine-protein kinase SMG1,Serine/threonine-protein kinase SMG1,SMG1,Serine/threonine-protein kinase SMG1,Serine/threonine-protein kinase SMG1,Serine/threonine-protein kinase SMG1 ; × 1 (Q96Q15) Protein SMG8 × 1 (Q8ND04) Protein SMG9 × 1 (Q9H0W8) PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER × 1 INOSITOL HEXAKISPHOSPHATE × 1 ADENOSINE-5'-TRIPHOSPHATE × 1 MAGNESIUM ION × 1 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name RENT1_HUMAN
Isoform —
PDB entities 4
Chains and sequence ranges Author chain E; PDBConstruct 1–11; UniProt 1085–1095

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.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id6z3r
Deposition date deposition_date2020-05-21
Structure title titleStructure of SMG1-8-9 kinase complex bound to UPF1-LSQ
Keywords keywordsCryo-EM, Structural Biology, Nonsense-mediated mRNA decay, RNA quality control, PIKK, NMD, Substrate, Phosphorylation, TRANSFERASE; TRANSFERASE
Experimental Method methodELECTRON MICROSCOPY
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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

6z3r__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

6z3r__assembly_1__model_1 | I(q)

10-2 10-1 106 107 108 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

6z3r__assembly_1__model_1 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg(Guinier)50.16 Å
Rg (electron density)49.44 Å
Total Rg49.28 Å
Atom count36011
Residues2636
Excluded volume338390 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 6z3r__assembly_1__model_1 tetrameric (4) Success 4.1.3-1-20251215 (887e7ef) View Download
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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (8)

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7. Citations (1)