1JBI Structural Genomics, Unknown Function date Jun 05, 2001
title Nmr Structure Of The Lccl Domain
authors E.Liepinsh, M.Trexler, A.Kaikkonen, J.Weigelt, L.Banyai, L.Patthy, G.Otting
compound source
Molecule: Cochlin
Chain: A
Fragment: Lccl Module
Synonym: Coch-5b2
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: M13mp18
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Jm 109
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmed23
methodSolution NMR
Primary referenceNMR structure of the LCCL domain and implications for DFNA9 deafness disorder., Liepinsh E, Trexler M, Kaikkonen A, Weigelt J, Banyai L, Patthy L, Otting G, EMBO J 2001 Oct 1;20(19):5347-53. PMID:11574466
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (494 Kb) [Save to disk]
  • CSU: Contacts of Structural Units for 1JBI
  • Experimental data, such as chemical shifts, at BioMagResBank (BMRB)
  • NMR Restraints Grid from BioMagResBank (BMRB)
  • Retrieve 1JBI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1JBI from S2C, [Save to disk]
  • View 1JBI 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 1JBI
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1JBI, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1jbia_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1jbi 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: [1jbi] [1jbi_A]
  • SWISS-PROT database: [O43405]
  • Domain organization of [COCH_HUMAN] by SWISSPFAM
  • Domain found in 1JBI: [LCCL ] by SMART
  • Alignments of the sequence of 1JBI with the sequences similar proteins can be viewed for 1JBI's classification [COCH_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 [COCH_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 1JBI
  • Community annotation for 1JBI at PDBWiki (http://pdbwiki.org)
  • NMR Ensemble (OLDERADO: core, domain and representative structure database)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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