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6byr

Structures of the PKA RI alpha holoenzyme with the FLHCC driver J-PKAc alpha or native PKAc alpha

Method: X-RAY DIFFRACTION
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1. Protein Identity and Related Structures Protein Identity & Related Structures

DnaJ homolog subfamily B member 1,cAMP-dependent protein kinase catalytic subunit alpha chimera

Homo sapiens

UniProt P17612

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Insufficient information Heteromer Protein 4 cAMP-dependent protein kinase type I-alpha regulatory subunit × 2 （P00514） ADENOSINE-5'-TRIPHOSPHATE × 2 MAGNESIUM ION × 4 Consistent with protein count
2 Insufficient information Heteromer Protein 2 cAMP-dependent protein kinase type I-alpha regulatory subunit × 1 （P00514） ADENOSINE-5'-TRIPHOSPHATE × 1 MAGNESIUM ION × 2 Consistent with protein count
3 Insufficient information Heteromer Protein 2 cAMP-dependent protein kinase type I-alpha regulatory subunit × 1 （P00514） ADENOSINE-5'-TRIPHOSPHATE × 1 MAGNESIUM ION × 2 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
3agl 3agl 4ae6 4ae6 4ae9 4ae9 6c0u 7y1g 7y1g 8x5l 8x5l

11 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
2gu8 3agm 3ama 3amb 3l9l 3l9l 3l9m 3l9m 3l9n 3mvj 3mvj 3mvj

68 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name KAPCA_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 70–405； UniProt 16–351 Author chain C； PDBConstruct 70–405； UniProt 16–351

DnaJ homolog subfamily B member 1,cAMP-dependent protein kinase catalytic subunit alpha chimera

Homo sapiens

UniProt P25685

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Insufficient information Heteromer Protein 4 cAMP-dependent protein kinase type I-alpha regulatory subunit × 2 （P00514） ADENOSINE-5'-TRIPHOSPHATE × 2 MAGNESIUM ION × 4 Consistent with protein count
2 Insufficient information Heteromer Protein 2 cAMP-dependent protein kinase type I-alpha regulatory subunit × 1 （P00514） ADENOSINE-5'-TRIPHOSPHATE × 1 MAGNESIUM ION × 2 Consistent with protein count
3 Insufficient information Heteromer Protein 2 cAMP-dependent protein kinase type I-alpha regulatory subunit × 1 （P00514） ADENOSINE-5'-TRIPHOSPHATE × 1 MAGNESIUM ION × 2 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
1hdj 6z5n

2 assemblies

Homodimer
2qld 3agx

2 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
3agy 3agz 4wb7 4wb7 6byr 6byr 6byr 6wjf 6wjg 7ndx 8fe2 8fe2

18 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name DNJB1_HUMAN
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–69； UniProt 2–70 Author chain C； PDBConstruct 1–69； UniProt 2–70

cAMP-dependent protein kinase type I-alpha regulatory subunit

Bos taurus

UniProt P00514

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Insufficient information Heteromer Protein 4 DnaJ homolog subfamily B member 1,cAMP-dependent protein kinase catalytic subunit alpha chimera × 2 （P17612,P25685） ADENOSINE-5'-TRIPHOSPHATE × 2 MAGNESIUM ION × 4 Consistent with protein count
2 Insufficient information Heteromer Protein 2 DnaJ homolog subfamily B member 1,cAMP-dependent protein kinase catalytic subunit alpha chimera × 1 （P17612,P25685） ADENOSINE-5'-TRIPHOSPHATE × 1 MAGNESIUM ION × 2 Consistent with protein count
3 Insufficient information Heteromer Protein 2 DnaJ homolog subfamily B member 1,cAMP-dependent protein kinase catalytic subunit alpha chimera × 1 （P17612,P25685） ADENOSINE-5'-TRIPHOSPHATE × 1 MAGNESIUM ION × 2 Consistent with protein count

Other States of the Same Protein in the Database

Monomer
1ne4 1ne6 1rgs 1rl3 1rl3 3iia 3plq 3pna 3pna 4jv4 4mx3 4mx3

20 assemblies; showing the first 12

Homodimer
2ezw 3im3 4mx3

3 assemblies

Homotetramer
3pna

1 assemblies

Other homooligomers

None

Heteromeric or nucleic-acid complex
2qcs 3fhi 3im4 3pvb 4x6r 5hvz 5jr7 5jr7 6byr 6byr 6byr 6bys

23 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name KAP0_BOVIN
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B； PDBConstruct 1–379； UniProt 2–380 Author chain D； PDBConstruct 1–379； UniProt 2–380

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_id6byr
Deposition date deposition_date2017-12-21
Structure title titleStructures of the PKA RI alpha holoenzyme with the FLHCC driver J-PKAc alpha or native PKAc alpha
Keywords keywordsProtein complex, PKA holoenzyme, Fibrolamellar Hepatocellular Carcinoma, SIGNALING PROTEIN; SIGNALING PROTEIN
Experimental Method methodX-RAY DIFFRACTION
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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.

6byr__assembly_1__model_1

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

Download this curve (.dat)

6byr__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.

6byr__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）43.77 Å
Rg (electron density)43.45 Å
Total Rg43.64 Å
Atom count11358
Residues1380
Excluded volume202020 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 6byr__assembly_1__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 6byr__assembly_2__model_1 dimeric （2） Success 4.1.3-1-20251215 (887e7ef) View Download
3 1 6byr__assembly_3__model_1 dimeric （2） 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 (4)

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6. Fold Classification (SCOP + CATH) 10 domains

CATH v4.4 (10 domains)

Domain ID domain_id6byrA01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology287 — Helix Hairpins
Homologous superfamily homologous superfamily110 — DnaJ domain
Domain ID domain_id6byrA02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology200 — Phosphorylase Kinase; domain 1
Homologous superfamily homologous superfamily20 — Phosphorylase Kinase; domain 1
Domain ID domain_id6byrA03
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology510 — Transferase(Phosphotransferase); domain 1
Homologous superfamily homologous superfamily10 — Transferase(Phosphotransferase) domain 1
Domain ID domain_id6byrB01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily10 — Jelly Rolls
Domain ID domain_id6byrB02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily10 — Jelly Rolls
Domain ID domain_id6byrC01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology287 — Helix Hairpins
Homologous superfamily homologous superfamily110 — DnaJ domain
Domain ID domain_id6byrC02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology200 — Phosphorylase Kinase; domain 1
Homologous superfamily homologous superfamily20 — Phosphorylase Kinase; domain 1
Domain ID domain_id6byrC03
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology510 — Transferase(Phosphotransferase); domain 1
Homologous superfamily homologous superfamily10 — Transferase(Phosphotransferase) domain 1
Domain ID domain_id6byrD01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily10 — Jelly Rolls
Domain ID domain_id6byrD02
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily10 — Jelly Rolls
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7. Citations (1)