2g50

The location of the allosteric amino acid binding site of muscle pyruvate kinase.

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

Pyruvate kinase isozymes M1/M2

OrganismNot specified

UniProt P11974

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein homooligomer Homooligomer Protein 4 MANGANESE (II) ION × 4 POTASSIUM ION × 4 SODIUM ION × 6 ALANINE × 4 PYRUVIC ACID × 4 1,2-ETHANEDIOL × 13 GLYCEROL × 12 2-{2-[2-2-(METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL × 1 water × 4 Consistent with protein count
2 Protein homooligomer Homooligomer Protein 4 MANGANESE (II) ION × 4 POTASSIUM ION × 4 SODIUM ION × 6 ALANINE × 4 PYRUVIC ACID × 4 1,2-ETHANEDIOL × 16 GLYCEROL × 16 water × 4 Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name KPYM_RABIT
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–530; UniProt 1–530 Author chain B; PDBConstruct 1–530; UniProt 1–530 Author chain C; PDBConstruct 1–530; UniProt 1–530 Author chain D; PDBConstruct 1–530; UniProt 1–530 Author chain E; PDBConstruct 1–530; UniProt 1–530 Author chain F; PDBConstruct 1–530; UniProt 1–530 Author chain G; PDBConstruct 1–530; UniProt 1–530 Author chain H; PDBConstruct 1–530; UniProt 1–530

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_id2g50
Deposition date deposition_date2006-02-22
Structure title titleThe location of the allosteric amino acid binding site of muscle pyruvate kinase.
Keywords keywordsallostery, pyruvate kinase, glycolysis, kinase, phosphoryl transfer, TRANSFERASE; TRANSFERASE
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.

2g50__assembly_1__model_1

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

Download this curve (.dat)

2g50__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.

2g50__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)40.77 Å
Rg (electron density)40.69 Å
Total Rg40.99 Å
Atom count16035
Residues2063
Excluded volume287630 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 2g50__assembly_1__model_1 tetrameric (4) Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 2g50__assembly_2__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 (10)

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6. Fold Classification (SCOP + CATH) 48 domains

SCOP 2.08 (24 domains)

Domain ID domain_idd2g50a1
Class classb — All beta proteins
Fold Fold foldb.58 — PK beta-barrel domain-like
Superfamily Superfamily superfamilyb.58.1 — PK beta-barrel domain-like
Family Family familyb.58.1.1 — Pyruvate kinase beta-barrel domain
Domain ID domain_idd2g50a2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.1 — TIM beta/alpha-barrel
Superfamily Superfamily superfamilyc.1.12 — Phosphoenolpyruvate/pyruvate domain
Family Family familyc.1.12.1 — Pyruvate kinase
Domain ID domain_idd2g50a3
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.49 — Pyruvate kinase C-terminal domain-like
Superfamily Superfamily superfamilyc.49.1 — PK C-terminal domain-like
Family Family familyc.49.1.1 — Pyruvate kinase, C-terminal domain
Domain ID domain_idd2g50b1
Class classb — All beta proteins
Fold Fold foldb.58 — PK beta-barrel domain-like
Superfamily Superfamily superfamilyb.58.1 — PK beta-barrel domain-like
Family Family familyb.58.1.1 — Pyruvate kinase beta-barrel domain
Domain ID domain_idd2g50b2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.1 — TIM beta/alpha-barrel
Superfamily Superfamily superfamilyc.1.12 — Phosphoenolpyruvate/pyruvate domain
Family Family familyc.1.12.1 — Pyruvate kinase
Domain ID domain_idd2g50b3
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.49 — Pyruvate kinase C-terminal domain-like
Superfamily Superfamily superfamilyc.49.1 — PK C-terminal domain-like
Family Family familyc.49.1.1 — Pyruvate kinase, C-terminal domain
Domain ID domain_idd2g50c1
Class classb — All beta proteins
Fold Fold foldb.58 — PK beta-barrel domain-like
Superfamily Superfamily superfamilyb.58.1 — PK beta-barrel domain-like
Family Family familyb.58.1.1 — Pyruvate kinase beta-barrel domain
Domain ID domain_idd2g50c2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.1 — TIM beta/alpha-barrel
Superfamily Superfamily superfamilyc.1.12 — Phosphoenolpyruvate/pyruvate domain
Family Family familyc.1.12.1 — Pyruvate kinase
Domain ID domain_idd2g50c3
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.49 — Pyruvate kinase C-terminal domain-like
Superfamily Superfamily superfamilyc.49.1 — PK C-terminal domain-like
Family Family familyc.49.1.1 — Pyruvate kinase, C-terminal domain
Domain ID domain_idd2g50d1
Class classb — All beta proteins
Fold Fold foldb.58 — PK beta-barrel domain-like
Superfamily Superfamily superfamilyb.58.1 — PK beta-barrel domain-like
Family Family familyb.58.1.1 — Pyruvate kinase beta-barrel domain
Domain ID domain_idd2g50d2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.1 — TIM beta/alpha-barrel
Superfamily Superfamily superfamilyc.1.12 — Phosphoenolpyruvate/pyruvate domain
Family Family familyc.1.12.1 — Pyruvate kinase
Domain ID domain_idd2g50d3
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.49 — Pyruvate kinase C-terminal domain-like
Superfamily Superfamily superfamilyc.49.1 — PK C-terminal domain-like
Family Family familyc.49.1.1 — Pyruvate kinase, C-terminal domain
Domain ID domain_idd2g50e1
Class classb — All beta proteins
Fold Fold foldb.58 — PK beta-barrel domain-like
Superfamily Superfamily superfamilyb.58.1 — PK beta-barrel domain-like
Family Family familyb.58.1.1 — Pyruvate kinase beta-barrel domain
Domain ID domain_idd2g50e2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.1 — TIM beta/alpha-barrel
Superfamily Superfamily superfamilyc.1.12 — Phosphoenolpyruvate/pyruvate domain
Family Family familyc.1.12.1 — Pyruvate kinase
Domain ID domain_idd2g50e3
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.49 — Pyruvate kinase C-terminal domain-like
Superfamily Superfamily superfamilyc.49.1 — PK C-terminal domain-like
Family Family familyc.49.1.1 — Pyruvate kinase, C-terminal domain
Domain ID domain_idd2g50f1
Class classb — All beta proteins
Fold Fold foldb.58 — PK beta-barrel domain-like
Superfamily Superfamily superfamilyb.58.1 — PK beta-barrel domain-like
Family Family familyb.58.1.1 — Pyruvate kinase beta-barrel domain
Domain ID domain_idd2g50f2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.1 — TIM beta/alpha-barrel
Superfamily Superfamily superfamilyc.1.12 — Phosphoenolpyruvate/pyruvate domain
Family Family familyc.1.12.1 — Pyruvate kinase
Domain ID domain_idd2g50f3
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.49 — Pyruvate kinase C-terminal domain-like
Superfamily Superfamily superfamilyc.49.1 — PK C-terminal domain-like
Family Family familyc.49.1.1 — Pyruvate kinase, C-terminal domain
Domain ID domain_idd2g50g1
Class classb — All beta proteins
Fold Fold foldb.58 — PK beta-barrel domain-like
Superfamily Superfamily superfamilyb.58.1 — PK beta-barrel domain-like
Family Family familyb.58.1.1 — Pyruvate kinase beta-barrel domain
Domain ID domain_idd2g50g2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.1 — TIM beta/alpha-barrel
Superfamily Superfamily superfamilyc.1.12 — Phosphoenolpyruvate/pyruvate domain
Family Family familyc.1.12.1 — Pyruvate kinase
Domain ID domain_idd2g50g3
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.49 — Pyruvate kinase C-terminal domain-like
Superfamily Superfamily superfamilyc.49.1 — PK C-terminal domain-like
Family Family familyc.49.1.1 — Pyruvate kinase, C-terminal domain
Domain ID domain_idd2g50h1
Class classb — All beta proteins
Fold Fold foldb.58 — PK beta-barrel domain-like
Superfamily Superfamily superfamilyb.58.1 — PK beta-barrel domain-like
Family Family familyb.58.1.1 — Pyruvate kinase beta-barrel domain
Domain ID domain_idd2g50h2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.1 — TIM beta/alpha-barrel
Superfamily Superfamily superfamilyc.1.12 — Phosphoenolpyruvate/pyruvate domain
Family Family familyc.1.12.1 — Pyruvate kinase
Domain ID domain_idd2g50h3
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.49 — Pyruvate kinase C-terminal domain-like
Superfamily Superfamily superfamilyc.49.1 — PK C-terminal domain-like
Family Family familyc.49.1.1 — Pyruvate kinase, C-terminal domain

CATH v4.4 (24 domains)

Domain ID domain_id2g50A01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology1380 — Pyruvate Kinase; Chain: A, domain 1
Homologous superfamily homologous superfamily20 — Pyruvate kinase, C-terminal domain
Domain ID domain_id2g50A02
Class class3 — Alpha Beta
Architecture architecture20 — Alpha-Beta Barrel
Topology topology20 — TIM Barrel
Homologous superfamily homologous superfamily60 — Phosphoenolpyruvate-binding domains
Domain ID domain_id2g50A03
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology33 — M1 Pyruvate Kinase; Domain 3
Homologous superfamily homologous superfamily10 — PK beta-barrel domain-like
Domain ID domain_id2g50B01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology1380 — Pyruvate Kinase; Chain: A, domain 1
Homologous superfamily homologous superfamily20 — Pyruvate kinase, C-terminal domain
Domain ID domain_id2g50B02
Class class3 — Alpha Beta
Architecture architecture20 — Alpha-Beta Barrel
Topology topology20 — TIM Barrel
Homologous superfamily homologous superfamily60 — Phosphoenolpyruvate-binding domains
Domain ID domain_id2g50B03
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology33 — M1 Pyruvate Kinase; Domain 3
Homologous superfamily homologous superfamily10 — PK beta-barrel domain-like
Domain ID domain_id2g50C01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology1380 — Pyruvate Kinase; Chain: A, domain 1
Homologous superfamily homologous superfamily20 — Pyruvate kinase, C-terminal domain
Domain ID domain_id2g50C02
Class class3 — Alpha Beta
Architecture architecture20 — Alpha-Beta Barrel
Topology topology20 — TIM Barrel
Homologous superfamily homologous superfamily60 — Phosphoenolpyruvate-binding domains
Domain ID domain_id2g50C03
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology33 — M1 Pyruvate Kinase; Domain 3
Homologous superfamily homologous superfamily10 — PK beta-barrel domain-like
Domain ID domain_id2g50D01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology1380 — Pyruvate Kinase; Chain: A, domain 1
Homologous superfamily homologous superfamily20 — Pyruvate kinase, C-terminal domain
Domain ID domain_id2g50D02
Class class3 — Alpha Beta
Architecture architecture20 — Alpha-Beta Barrel
Topology topology20 — TIM Barrel
Homologous superfamily homologous superfamily60 — Phosphoenolpyruvate-binding domains
Domain ID domain_id2g50D03
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology33 — M1 Pyruvate Kinase; Domain 3
Homologous superfamily homologous superfamily10 — PK beta-barrel domain-like
Domain ID domain_id2g50E01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology1380 — Pyruvate Kinase; Chain: A, domain 1
Homologous superfamily homologous superfamily20 — Pyruvate kinase, C-terminal domain
Domain ID domain_id2g50E02
Class class3 — Alpha Beta
Architecture architecture20 — Alpha-Beta Barrel
Topology topology20 — TIM Barrel
Homologous superfamily homologous superfamily60 — Phosphoenolpyruvate-binding domains
Domain ID domain_id2g50E03
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology33 — M1 Pyruvate Kinase; Domain 3
Homologous superfamily homologous superfamily10 — PK beta-barrel domain-like
Domain ID domain_id2g50F01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology1380 — Pyruvate Kinase; Chain: A, domain 1
Homologous superfamily homologous superfamily20 — Pyruvate kinase, C-terminal domain
Domain ID domain_id2g50F02
Class class3 — Alpha Beta
Architecture architecture20 — Alpha-Beta Barrel
Topology topology20 — TIM Barrel
Homologous superfamily homologous superfamily60 — Phosphoenolpyruvate-binding domains
Domain ID domain_id2g50F03
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology33 — M1 Pyruvate Kinase; Domain 3
Homologous superfamily homologous superfamily10 — PK beta-barrel domain-like
Domain ID domain_id2g50G01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology1380 — Pyruvate Kinase; Chain: A, domain 1
Homologous superfamily homologous superfamily20 — Pyruvate kinase, C-terminal domain
Domain ID domain_id2g50G02
Class class3 — Alpha Beta
Architecture architecture20 — Alpha-Beta Barrel
Topology topology20 — TIM Barrel
Homologous superfamily homologous superfamily60 — Phosphoenolpyruvate-binding domains
Domain ID domain_id2g50G03
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology33 — M1 Pyruvate Kinase; Domain 3
Homologous superfamily homologous superfamily10 — PK beta-barrel domain-like
Domain ID domain_id2g50H01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology1380 — Pyruvate Kinase; Chain: A, domain 1
Homologous superfamily homologous superfamily20 — Pyruvate kinase, C-terminal domain
Domain ID domain_id2g50H02
Class class3 — Alpha Beta
Architecture architecture20 — Alpha-Beta Barrel
Topology topology20 — TIM Barrel
Homologous superfamily homologous superfamily60 — Phosphoenolpyruvate-binding domains
Domain ID domain_id2g50H03
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology33 — M1 Pyruvate Kinase; Domain 3
Homologous superfamily homologous superfamily10 — PK beta-barrel domain-like
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7. Citations (1)