1NFI Complex (Transcription Reg Ank Repeat) date Aug 25, 1998
title I-Kappa-B-Alphanf-Kappa-B Complex
authors M.D.Jacobs, S.C.Harrison
compound source
Molecule: Nf-Kappa-B P65
Chain: A, C
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Nf-Kappa-B P50
Chain: B, D
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: I-Kappa-B-Alpha
Chain: E, F
Fragment: Ankyrin
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1 21 1
R_factor 0.223 R_Free 0.265
crystal
cell
length a length b length c angle alpha angle beta angle gamma
49.094 91.080 190.980 90.00 96.32 90.00
method X-Ray Diffractionresolution 2.70 Å
related structures by homologous chain: 1IKN, 1LEI, 1RAM, 1SVC
Primary referenceStructure of an IkappaBalpha/NF-kappaB complex., Jacobs MD, Harrison SC, Cell 1998 Dec 11;95(6):749-58. PMID:9865693
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (204 Kb) [Save to disk]
  • Biological Unit Coordinates (1nfi.pdb1.gz) 102 Kb
  • Biological Unit Coordinates (1nfi.pdb2.gz) 100 Kb
  • CSU: Contacts of Structural Units for 1NFI
  • Likely Quarternary Molecular Structure file(s) for 1NFI
  • Retrieve 1NFI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1NFI from S2C, [Save to disk]
  • View 1NFI 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 1NFI
  • 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 1NFI, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1nfia1, region A:190-314 [Jmol] [rasmolscript] [script source]
        - Domain d1nfia2, region A:20-189 [Jmol] [rasmolscript] [script source]
        - Domain d1nfib_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1nfic1, region C:190-320 [Jmol] [rasmolscript] [script source]
        - Domain d1nfic2, region C:20-189 [Jmol] [rasmolscript] [script source]
        - Domain d1nfid_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1nfie_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1nfif_, region F [Jmol] [rasmolscript] [script source]
  • Fold representative 1nfi 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: [1nfi_F] [1nfi_E] [1nfi_C] [1nfi_B] [1nfi] [1nfi_A] [1nfi_D]
  • SWISS-PROT database: [P25963] [P19838] [Q04206]
  • Domain organization of [IKBA_HUMAN] [NFKB1_HUMAN] [TF65_HUMAN] by SWISSPFAM
  • Domains found in 1NFI: [ANK] [IPT ] by SMART
  • Alignments of the sequence of 1NFI with the sequences similar proteins can be viewed for 1NFI's classification [IKBA_HUMAN] [NFKB1_HUMAN] [TF65_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 [IKBA_HUMAN] [NFKB1_HUMAN] [TF65_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 1NFI
  • Community annotation for 1NFI 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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