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1lkx

MOTOR DOMAIN OF MYOE, A CLASS-I MYOSIN

Method: X-RAY DIFFRACTION Dmax: 197.2 Å Quality: GOOD
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1. Protein Identity and Related Structures Protein Identity & Related Structures

MYOSIN IE HEAVY CHAIN

Dictyostelium discoideum

UniProt Q03479

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 monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count Chain A； UniProt 1–697 Fragment：Motor Domain MG MAGNESIUM ION × 1 VO4 VANADATE ION × 1 ADP ADENOSINE-5'-DIPHOSPHATE × 1 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 7.2；289 K；11% PEG 8K, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 289K Resolution 3.00 Å R-free 0.273
2 Protein monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count Chain B； UniProt 1–697 Fragment：Motor Domain MG MAGNESIUM ION × 1 VO4 VANADATE ION × 1 ADP ADENOSINE-5'-DIPHOSPHATE × 1 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 7.2；289 K；11% PEG 8K, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 289K Resolution 3.00 Å R-free 0.273
3 Protein monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count Chain C； UniProt 1–697 Fragment：Motor Domain MG MAGNESIUM ION × 1 VO4 VANADATE ION × 1 ADP ADENOSINE-5'-DIPHOSPHATE × 1 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 7.2；289 K；11% PEG 8K, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 289K Resolution 3.00 Å R-free 0.273
4 Protein monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count Chain D； UniProt 1–697 Fragment：Motor Domain MG MAGNESIUM ION × 1 VO4 VANADATE ION × 1 ADP ADENOSINE-5'-DIPHOSPHATE × 1 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 7.2；289 K；11% PEG 8K, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 289K Resolution 3.00 Å R-free 0.273

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 1LKX Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
4A7F Structure of the Actin-Tropomyosin-Myosin Complex (rigor ATM 3) Deposited 2011-11-14 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 × 10 PDB declaration: decameric
Chain C 1–697（697 aa） Fragment：RESIDUES 1-697
Chain G 1–697（697 aa） Fragment：RESIDUES 1-697
Chain J 1–697（697 aa） Fragment：RESIDUES 1-697
Mutation：YES Mutation：YES Mutation：YES ADP ADENOSINE-5'-DIPHOSPHATE × 5 CA CALCIUM ION × 5 ELECTRON MICROSCOPY
cryo-EM buffer 5 MM HEPES-OH, 100 MM KCL, 2 MM MGCL2, 50 MM GLUTAMINE, 50 MM ARGININE；pH 7.2；5 MM HEPES-OH, 100 MM KCL, 2 MM MGCL2, 50 MM GLUTAMINE, 50 MM ARGININE
cryo-EM vitrification conditions Cryogen ETHANE；LIQUID ETHANE
Resolution 7.70 Å
4A7H Structure of the Actin-Tropomyosin-Myosin Complex (rigor ATM 2) Deposited 2011-11-14 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 × 10 PDB declaration: decameric
Chain C 1–697（697 aa） Fragment：RESIDUES 1-697
Chain I 1–697（697 aa） Fragment：RESIDUES 1-697
Chain J 1–697（697 aa） Fragment：RESIDUES 1-697
Mutation：YES Mutation：YES Mutation：YES ADP ADENOSINE-5'-DIPHOSPHATE × 5 CA CALCIUM ION × 5 ELECTRON MICROSCOPY
cryo-EM buffer 5MM TRIS, 100MM KCL, 2MM MGCL2, 50MM GLUTAMINE, 50MM ARGININ；pH 7.2；5MM TRIS, 100MM KCL, 2MM MGCL2, 50MM GLUTAMINE, 50MM ARGININ
cryo-EM vitrification conditions Cryogen ETHANE；VITRIFICATION 1 -- CRYOGEN- ETHANE, HUMIDITY- 90, TEMPERATURE- 101, INSTRUMENT- GATAN CRYOPLUNGE 3, METHOD- MANUAL BLOTTING FOR APPROXIMATELY 15 SECONDS,
Resolution 7.80 Å
4A7L Structure of the Actin-Tropomyosin-Myosin Complex (rigor ATM 1) Deposited 2011-11-14 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 × 10 PDB declaration: decameric
Chain C 1–697（697 aa） Fragment：RESIDUES 1-697
Chain G 1–697（697 aa） Fragment：RESIDUES 1-697
Chain J 1–697（697 aa） Fragment：RESIDUES 1-697
Mutation：YES Mutation：YES Mutation：YES ADP ADENOSINE-5'-DIPHOSPHATE × 5 CA CALCIUM ION × 5 ELECTRON MICROSCOPY
cryo-EM buffer 5MM TRIS, 100MM KCL, 2MM MGCL2, 50MM GLUTAMINE, 50MM ARGININ；pH 7.2；5MM TRIS, 100MM KCL, 2MM MGCL2, 50MM GLUTAMINE, 50MM ARGININ
cryo-EM vitrification conditions Cryogen ETHANE；VITRIFICATION 1 -- CRYOGEN- ETHANE, HUMIDITY- 90, TEMPERATURE- 101, INSTRUMENT- GATAN CRYOPLUNGE 3, METHOD- MANUAL BLOTTING FOR APPROXIMATELY 15 SECONDS,
Resolution 8.10 Å

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

View Construct and Data Evidence
UniProt name MYOE_DICDI
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–697； UniProt 1–697 Author chain B； PDBConstruct 1–697； UniProt 1–697 Author chain C； PDBConstruct 1–697； UniProt 1–697 Author chain D； PDBConstruct 1–697； UniProt 1–697

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 1lkx

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 1lkx
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2. Structure Basics 2. Structure Basics

Entry ID entry_id1lkx
Deposition date deposition_date2002-04-26
Structure title titleMOTOR DOMAIN OF MYOE, A CLASS-I MYOSIN
Keywords keywordsMYOSIN MOTOR DOMAIN, LEVER ARM, CONVERTER DOMAIN, CONTRACTILE PROTEIN; CONTRACTILE PROTEIN
Experimental Method methodX-RAY DIFFRACTION
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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier58.17 Å
Radius of gyration Rg (electron density) rg_electron58.73 Å
Forward intensity I(0) i01321720000.00
Molecular weight molecular_weight302150.0 kDa
Excluded volume excluded_volume377580 ų
Envelope volume envelope_volume541770 ų
Hydration-shell volume shell_volume81925 ų
Envelope diameter envelope_diameter220.5 Å
Shell Rg shell_rg55.46 Å
Envelope Rg envelope_rg57.57 Å
Shape Rg shape_rg58.73 Å
Total Rg total_rg58.63 Å
Total atoms total_atoms21201
Residues n_residues2639
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 Å−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
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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax197.2 Å
Rg (real space) rg_real58.74 Å
Rg uncertainty (real space) rg_real_error1.88 Å
I(0) (real space) i0_real1.3220e+09
I(0) uncertainty (real space) i0_real_error2.4640e+07
Rg (reciprocal space) rg_reciprocal57.67 Å
I(0) (reciprocal space) i0_reciprocal1319000000.0000
Solution quality estimate total_estimate0.8139
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary65.7 Å
Skewness Skewness skewness0.593
Kurtosis Kurtosis kurtosis-0.049
Angular range angular_range— – 0.1350 Å−1
Current regularization parameter α current_alpha0.0003
Highest regularization parameter α highest_alpha50860000.0000
Real-space data points n_real_points28
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.826; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.899; Smooth: 0.201
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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (5)

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7. Fold Classification (SCOP + CATH) 20 domains

SCOP 2.08 (4 domains)

Domain ID domain_idd1lkxa_
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.37 — P-loop containing nucleoside triphosphate hydrolases
Superfamily Superfamily superfamilyc.37.1 — P-loop containing nucleoside triphosphate hydrolases
Family Family familyc.37.1.9 — Motor proteins
Domain ID domain_idd1lkxb_
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.37 — P-loop containing nucleoside triphosphate hydrolases
Superfamily Superfamily superfamilyc.37.1 — P-loop containing nucleoside triphosphate hydrolases
Family Family familyc.37.1.9 — Motor proteins
Domain ID domain_idd1lkxc_
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.37 — P-loop containing nucleoside triphosphate hydrolases
Superfamily Superfamily superfamilyc.37.1 — P-loop containing nucleoside triphosphate hydrolases
Family Family familyc.37.1.9 — Motor proteins
Domain ID domain_idd1lkxd_
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.37 — P-loop containing nucleoside triphosphate hydrolases
Superfamily Superfamily superfamilyc.37.1 — P-loop containing nucleoside triphosphate hydrolases
Family Family familyc.37.1.9 — Motor proteins

CATH v4.4 (16 domains)

Domain ID domain_id1lkxA01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology850 — Kinesin
Homologous superfamily homologous superfamily10 — Kinesin motor domain
Domain ID domain_id1lkxA02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily820 —
Domain ID domain_id1lkxA03
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology120 — Four Helix Bundle (Hemerythrin (Met), subunit A)
Homologous superfamily homologous superfamily720 — Myosin VI head, motor domain, U50 subdomain
Domain ID domain_id1lkxA04
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology58 — Methane Monooxygenase Hydroxylase; Chain G, domain 1
Homologous superfamily homologous superfamily530 —
Domain ID domain_id1lkxB01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology850 — Kinesin
Homologous superfamily homologous superfamily10 — Kinesin motor domain
Domain ID domain_id1lkxB02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily820 —
Domain ID domain_id1lkxB03
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology120 — Four Helix Bundle (Hemerythrin (Met), subunit A)
Homologous superfamily homologous superfamily720 — Myosin VI head, motor domain, U50 subdomain
Domain ID domain_id1lkxB04
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology58 — Methane Monooxygenase Hydroxylase; Chain G, domain 1
Homologous superfamily homologous superfamily530 —
Domain ID domain_id1lkxC01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology850 — Kinesin
Homologous superfamily homologous superfamily10 — Kinesin motor domain
Domain ID domain_id1lkxC02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily820 —
Domain ID domain_id1lkxC03
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology120 — Four Helix Bundle (Hemerythrin (Met), subunit A)
Homologous superfamily homologous superfamily720 — Myosin VI head, motor domain, U50 subdomain
Domain ID domain_id1lkxC04
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology58 — Methane Monooxygenase Hydroxylase; Chain G, domain 1
Homologous superfamily homologous superfamily530 —
Domain ID domain_id1lkxD01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology850 — Kinesin
Homologous superfamily homologous superfamily10 — Kinesin motor domain
Domain ID domain_id1lkxD02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily820 —
Domain ID domain_id1lkxD03
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology120 — Four Helix Bundle (Hemerythrin (Met), subunit A)
Homologous superfamily homologous superfamily720 — Myosin VI head, motor domain, U50 subdomain
Domain ID domain_id1lkxD04
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology58 — Methane Monooxygenase Hydroxylase; Chain G, domain 1
Homologous superfamily homologous superfamily530 —
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8. Citations (1)

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9. Files and Curves (10)