1J1D Contractile Protein date Dec 03, 2002
title Crystal Structure Of The 46kda Domain Of Human Cardiac Troponin In The Ca2+ Saturated Form
authors S.Takeda, A.Yamashita, K.Maeda, Y.Maeda
compound source
Molecule: Troponin C
Chain: A, D
Synonym: Tnc
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Tissue: Cardiac Muscle
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet3d

Molecule: Troponin T
Chain: B, E
Fragment: Cnbr Fragment, Residues 183-288
Synonym: Tnt
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Tissue: Cardiac Muscle
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet3d

Molecule: Troponin I
Chain: C, F
Fragment: Residues 31-163
Synonym: Tni
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Tissue: Cardiac Muscle
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet3d
symmetry Space Group: P 1 21 1
R_factor 0.264 R_Free 0.298
crystal
cell
length a length b length c angle alpha angle beta angle gamma
42.346 167.860 69.707 90.00 101.35 90.00
method X-Ray Diffractionresolution 2.61 Å
ligand CA enzyme
related structures by homologous chain: 1A2X, 1YTZ
Gene
Ontology
ChainFunctionProcessComponent
A, D


Primary referenceStructure of the core domain of human cardiac troponin in the Ca(2+)-saturated form., Takeda S, Yamashita A, Maeda K, Maeda Y, Nature 2003 Jul 3;424(6944):35-41. PMID:12840750
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (125 Kb) [Save to disk]
  • Biological Unit Coordinates (1j1d.pdb1.gz) 60 Kb
  • Biological Unit Coordinates (1j1d.pdb2.gz) 61 Kb
  • LPC: Ligand-Protein Contacts for 1J1D
  • CSU: Contacts of Structural Units for 1J1D
  • Likely Quarternary Molecular Structure file(s) for 1J1D
  • Structure Factors (215 Kb)
  • Retrieve 1J1D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1J1D from S2C, [Save to disk]
  • Re-refined 1j1d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1J1D in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 1J1D
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1J1D, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1j1da_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1j1db_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1j1dc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1j1dd_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1j1de_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1j1df_, region F [Jmol] [rasmolscript] [script source]
  • Fold representative 1j1d from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1j1d_A] [1j1d_C] [1j1d] [1j1d_E] [1j1d_D] [1j1d_F] [1j1d_B]
  • SWISS-PROT database: [P63316] [P19429] [P45379]
  • Domain organization of [TNNC1_HUMAN] [TNNI3_HUMAN] [TNNT2_HUMAN] by SWISSPFAM
  • Domain found in 1J1D: [EFh ] by SMART
  • Alignments of the sequence of 1J1D with the sequences similar proteins can be viewed for 1J1D's classification [TNNC1_HUMAN] [TNNI3_HUMAN] [TNNT2_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [TNNC1_HUMAN] [TNNI3_HUMAN] [TNNT2_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 1J1D
  • Community annotation for 1J1D at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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