2g9j

Complex of TM1a(1-14)Zip with TM9a(251-284): a model for the polymerization domain ("overlap region") of tropomyosin, Northeast Structural Genomics Target OR9

Method: SOLUTION NMR Dmax: 86.9 Å Quality: REASONABLE

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

Tropomyosin 1 alpha chain

Rattus norvegicus

UniProt Q63609

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Insufficient information Heteromer Protein × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain A; UniProt 1–14 Chain B; UniProt 1–14 Chain C; UniProt 251–284 Chain D; UniProt 251–284 Fragment:TM9a(251-284) Mutation:N279K Fragment:TM1a(1-14)Zip No other associated polymer SOLUTION NMR NMR measurement conditions:pH 6.5;10 K;Ionic strength (raw mmCIF value) 0.14;Pressure ambient NMR sample composition:1mM complex of TM1a(1-14)Zip U-15N withTM9a(251-284)U15N, 100 mM NaCl, 10 mM sodium phospate 10% deuterium oxide pH 6.5 | 100 mM NaCl, 10 mM sodium phospate 10% deuterium oxide pH 6.5 NMR sample composition:1mM complex of TM1a(1-14)Zip U15N/U13C with TM9a(251-284) unlabled, 100 mM NaCl, 10 mM sodium phospate 10% deuterium oxide pH 6.5 | 100 mM NaCl, 10 mM sodium phospate 10% deuterium oxide pH 6.5 NMR sample composition:1mM complex of TM1a(1-14)Zip U15N/U13C with TM9a(251-284) unlabled, 100 mM NaCl, 10 mM sodium phospate 99.9% deuterium oxide pH 6.5 | 100 mM NaCl, 10 mM sodium phospate 99.9% deuterium oxide pH 6.5 NMR sample composition:1mM complex of TM1a(1-14)Zip unlabeled with TM9a(251-284)U15N/U13C, 100 mM NaCl, 10 mM sodium phospate 10% deuterium oxide pH 6.5 or in 99.9% deuterium oxide | 100 mM NaCl, 10 mM sodium phospate 10% deuterium oxide pH 6.5 or in 99.9% deuterium oxide NMR sample composition:1mM complex of TM1a(1-14)Zip unlabeled with TM9a(251-284)U15N/U13C, 100 mM NaCl, 10 mM sodium phospate 10% deuterium oxide 99.9% deuterium oxide, pH 6.5 | 100 mM NaCl, 10 mM sodium phospate 10% deuterium oxide 99.9% deuterium oxide, pH 6.5 NMR sample composition:1mM complex of TM1a(1-14), one chain labeled U15N/U13C the other chain unlabeled, with unlabeled TM9a(251-284), 100 mM NaCl, 10 mM sodium phospate 10% deuterium oxide pH 6.5 | 100 mM NaCl, 10 mM sodium phospate 10% deuterium oxide pH 6.5 NMR sample composition:1mM complex of TM9a(251-284), one chain labeled U15N/U13C the other chain unlabeled, with unlabele TM1a(1-14)Zip, 100 mM NaCl, 10 mM sodium phospate 10% deuterium oxide pH 6.5 | 100 mM NaCl, 10 mM sodium phospate 10% deuterium oxide pH 6.5 Resolution not provided

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.

No other PDB entry for the same UniProt protein was found.

View Construct and Data Evidence
UniProt name TPM1_RAT
Isoform
PDB entities 1, 2
Chains and sequence ranges Author chain C; PDBConstruct 4–37; UniProt 251–284 Author chain D; PDBConstruct 4–37; UniProt 251–284 Author chain A; PDBConstruct 2–15; UniProt 1–14 Author chain B; PDBConstruct 2–15; UniProt 1–14

Tropomyosin 1 alpha chain/General control protein GCN4

Rattus norvegicus, Saccharomyces cerevisiae

UniProt P03069

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Insufficient information Heteromer Protein × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain A; UniProt 264–281 Chain B; UniProt 264–281 Fragment:TM1a(1-14)Zip Tropomyosin 1 alpha chain × 2 (Q63609) SOLUTION NMR NMR measurement conditions:pH 6.5;10 K;Ionic strength (raw mmCIF value) 0.14;Pressure ambient NMR sample composition:1mM complex of TM1a(1-14)Zip U-15N withTM9a(251-284)U15N, 100 mM NaCl, 10 mM sodium phospate 10% deuterium oxide pH 6.5 | 100 mM NaCl, 10 mM sodium phospate 10% deuterium oxide pH 6.5 NMR sample composition:1mM complex of TM1a(1-14)Zip U15N/U13C with TM9a(251-284) unlabled, 100 mM NaCl, 10 mM sodium phospate 10% deuterium oxide pH 6.5 | 100 mM NaCl, 10 mM sodium phospate 10% deuterium oxide pH 6.5 NMR sample composition:1mM complex of TM1a(1-14)Zip U15N/U13C with TM9a(251-284) unlabled, 100 mM NaCl, 10 mM sodium phospate 99.9% deuterium oxide pH 6.5 | 100 mM NaCl, 10 mM sodium phospate 99.9% deuterium oxide pH 6.5 NMR sample composition:1mM complex of TM1a(1-14)Zip unlabeled with TM9a(251-284)U15N/U13C, 100 mM NaCl, 10 mM sodium phospate 10% deuterium oxide pH 6.5 or in 99.9% deuterium oxide | 100 mM NaCl, 10 mM sodium phospate 10% deuterium oxide pH 6.5 or in 99.9% deuterium oxide NMR sample composition:1mM complex of TM1a(1-14)Zip unlabeled with TM9a(251-284)U15N/U13C, 100 mM NaCl, 10 mM sodium phospate 10% deuterium oxide 99.9% deuterium oxide, pH 6.5 | 100 mM NaCl, 10 mM sodium phospate 10% deuterium oxide 99.9% deuterium oxide, pH 6.5 NMR sample composition:1mM complex of TM1a(1-14), one chain labeled U15N/U13C the other chain unlabeled, with unlabeled TM9a(251-284), 100 mM NaCl, 10 mM sodium phospate 10% deuterium oxide pH 6.5 | 100 mM NaCl, 10 mM sodium phospate 10% deuterium oxide pH 6.5 NMR sample composition:1mM complex of TM9a(251-284), one chain labeled U15N/U13C the other chain unlabeled, with unlabele TM1a(1-14)Zip, 100 mM NaCl, 10 mM sodium phospate 10% deuterium oxide pH 6.5 | 100 mM NaCl, 10 mM sodium phospate 10% deuterium oxide pH 6.5 Resolution not provided

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.

162 other PDB entries and 200 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name GCN4_YEAST
Isoform
PDB entities 2
Chains and sequence ranges Author chain A; PDBConstruct 16–33; UniProt 264–281 Author chain B; PDBConstruct 16–33; UniProt 264–281

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 2g9j

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 2g9j
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2. Structure Basics 2. Structure Basics

Entry ID entry_id2g9j
Deposition date deposition_date2006-03-06
Structure title titleComplex of TM1a(1-14)Zip with TM9a(251-284): a model for the polymerization domain ("overlap region") of tropomyosin, Northeast Structural Genomics Target OR9
Keywords keywords;TROPOMYOSIN, PEPTIDE COMPLEX, OVERLAP COMPLEX, INTERMOLECULAR JUNCTION, N-TERMINAL:C-TERMINAL INTERFACE, PARALLEL COILED COIL, POLYMERIZATION DOMAIN, STRUCTURAL PROTEIN, Structural Genomics, PSI-2, Protein Structure Initiative, Northeast Structural Genomics Consortium, NESG ;; STRUCTURAL PROTEIN
Experimental Method methodSOLUTION NMR

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

Radius of gyration Rg (Guinier) rg_guinier23.88
Radius of gyration Rg (electron density) rg_electron24.05
Forward intensity I(0) i0370081000.00
Molecular weight molecular_weight161430.0 kDa
Excluded volume excluded_volume202560 ų
Envelope volume envelope_volume47940 ų
Hydration-shell volume shell_volume17338 ų
Envelope diameter envelope_diameter92.1
Shell Rg shell_rg30.23
Envelope Rg envelope_rg27.74
Shape Rg shape_rg24.07
Total Rg total_rg24.15
Total atoms total_atoms22950
Residues n_residues1400
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 dmax86.9
Rg (real space) rg_real24.58
Rg uncertainty (real space) rg_real_error1.11
I(0) (real space) i0_real3.7010e+08
I(0) uncertainty (real space) i0_real_error5.6550e+06
Rg (reciprocal space) rg_reciprocal24.41
I(0) (reciprocal space) i0_reciprocal370000000.0000
Solution quality estimate total_estimate0.6617
Solution quality rating solution_quality REASONABLE a REASONABLE solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary17.6
Skewness Skewness skewness0.763
Kurtosis Kurtosis kurtosis-0.052
Angular range angular_range— – 0.3350 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha543000.0000
Real-space data points n_real_points65
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.315; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.054; Smooth: 0.600

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (2)

7. Fold Classification (SCOP + CATH) 8 domains

SCOP 2.08 (8 domains)

Domain ID domain_idd2g9ja1
Class classh — Coiled coil proteins
Fold Fold foldh.1 — Parallel coiled-coil
Superfamily Superfamily superfamilyh.1.3 — Leucine zipper domain
Family Family familyh.1.3.1 — Leucine zipper domain
Domain ID domain_idd2g9ja2
Class classl — Artifacts
Fold Fold foldl.1 — Tags
Superfamily Superfamily superfamilyl.1.1 — Tags
Family Family familyl.1.1.1 — Tags
Domain ID domain_idd2g9jb1
Class classh — Coiled coil proteins
Fold Fold foldh.1 — Parallel coiled-coil
Superfamily Superfamily superfamilyh.1.3 — Leucine zipper domain
Family Family familyh.1.3.1 — Leucine zipper domain
Domain ID domain_idd2g9jb2
Class classl — Artifacts
Fold Fold foldl.1 — Tags
Superfamily Superfamily superfamilyl.1.1 — Tags
Family Family familyl.1.1.1 — Tags
Domain ID domain_idd2g9jc1
Class classh — Coiled coil proteins
Fold Fold foldh.1 — Parallel coiled-coil
Superfamily Superfamily superfamilyh.1.5 — Tropomyosin
Family Family familyh.1.5.1 — Tropomyosin
Domain ID domain_idd2g9jc2
Class classl — Artifacts
Fold Fold foldl.1 — Tags
Superfamily Superfamily superfamilyl.1.1 — Tags
Family Family familyl.1.1.1 — Tags
Domain ID domain_idd2g9jd1
Class classh — Coiled coil proteins
Fold Fold foldh.1 — Parallel coiled-coil
Superfamily Superfamily superfamilyh.1.5 — Tropomyosin
Family Family familyh.1.5.1 — Tropomyosin
Domain ID domain_idd2g9jd2
Class classl — Artifacts
Fold Fold foldl.1 — Tags
Superfamily Superfamily superfamilyl.1.1 — Tags
Family Family familyl.1.1.1 — Tags

8. Citations (1)

9. Files and Curves (10)