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(-) Description

Title :  SOLUTION STRUCTURE OF THE FIRST ZINC FINGER FROM THE DROSOPHILA U-SHAPED TRANSCRIPTION FACTOR
 
Authors :  C. K. Liew, K. Kowalski, A. H. Fox, A. Newton, B. K. Sharpe, M. Crossley, J. P. Mackay
Date :  18 Sep 00  (Deposition) - 04 Oct 00  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Zinc Finger, Cchc, Protein Interaction, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  C. K. Liew, K. Kowalski, A. H. Fox, A. Newton, B. K. Sharpe, M. Crossley, J. P. Mackay
Solution Structures Of Two Cchc Zinc Fingers From The Fog Family Protein U-Shaped That Mediate Protein-Protein Interactions.
Structure Fold. Des. V. 8 1157 2000
PubMed-ID: 11080638  |  Reference-DOI: 10.1016/S0969-2126(00)00527-X
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - FIRST ZINC FINGER OF U-SHAPED
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPGEX-2T
    Expression System Taxid562
    FragmentFIRST ZINC FINGER DOMAIN (RESIDUES 202-235)
    Organism CommonFRUIT FLY
    Organism ScientificDROSOPHILA MELANOGASTER
    Organism Taxid7227

 Structural Features

(-) Chains, Units

  
NMR Structure (20x)

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

NMR Structure (1, 1)
No.NameCountTypeFull Name
1ZN1Ligand/IonZINC ION

(-) Sites  (1, 1)

NMR Structure (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:11 , CYS A:14 , HIS A:27 , CYS A:32BINDING SITE FOR RESIDUE ZN A 37

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1FV5)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1FV5)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1FV5)

(-) PROSITE Motifs  (1, 1)

NMR Structure (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ZF_CCHC_FOGPS51810 Zinc finger CCHC FOG-type profile.USH_DROME202-235
335-368
720-753
791-824
1113-1146
  1A:3-36
-
-
-
-

(-) Exons   (0, 0)

(no "Exon" information available for 1FV5)

(-) Sequences/Alignments

NMR Structure
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:36
 aligned with USH_DROME | Q9VPQ6 from UniProtKB/Swiss-Prot  Length:1191

    Alignment length:36
                                   209       219       229      
            USH_DROME   200 EPLLKPARFMCLPCGIAFSSPSTLEAHQAYYCSHRI 235
               SCOP domains d1fv5a_ A:                           SCOP domains
               CATH domains ------------------------------------ CATH domains
               Pfam domains ------------------------------------ Pfam domains
         Sec.struct. author ...................hhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------ SAPs(SNPs)
                    PROSITE --ZF_CCHC_FOG  PDB: A:3-36           PROSITE
                 Transcript ------------------------------------ Transcript
                 1fv5 A   1 GSLLKPARFMCLPCGIAFSSPSTLEAHQAYYCSHRI  36
                                    10        20        30      

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

NMR Structure

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1FV5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1FV5)

(-) Gene Ontology  (29, 29)

NMR Structure(hide GO term definitions)
Chain A   (USH_DROME | Q9VPQ6)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0001102    RNA polymerase II activating transcription factor binding    Interacting selectively and non-covalently with an RNA polymerase II transcription activating factor, a protein involved in positive regulation of transcription.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0008134    transcription factor binding    Interacting selectively and non-covalently with a transcription factor, any protein required to initiate or regulate transcription.
    GO:0001078    transcriptional repressor activity, RNA polymerase II core promoter proximal region sequence-specific binding    Interacting selectively and non-covalently with a sequence of DNA that is in cis with and relatively close to a core promoter for RNA polymerase II (RNAP II) in order to stop, prevent, or reduce the frequency, rate or extent of transcription from an RNA polymerase II promoter.
biological process
    GO:0046665    amnioserosa maintenance    Maintenance of the amnioserosa, an epithelium that occupies a hole in the embryonic dorsal epidermis.
    GO:0022416    chaeta development    The process whose specific outcome is the progression of a chaeta over time, from its formation to the mature structure. A chaeta is a sensory multicellular cuticular outgrowth of a specifically differentiated cell.
    GO:0048749    compound eye development    The process whose specific outcome is the progression of the compound eye over time, from its formation to the mature structure. The compound eye is an organ of sight that contains multiple repeating units, often arranged hexagonally. Each unit has its own lens and photoreceptor cell(s) and can generate either a single pixelated image or multiple images, per eye.
    GO:0007391    dorsal closure    The process during Drosophila embryogenesis whereby the ectodermal cells of the lateral epithelium stretch in a coordinated fashion to internalize the amnioserosa cells and close the embryo dorsally.
    GO:0007393    dorsal closure, leading edge cell fate determination    The cell fate determination process in which a cell within the dorsal ectoderm becomes capable of differentiating autonomously into a leading edge cell regardless of its environment; upon determination, the cell fate cannot be reversed.
    GO:0007398    ectoderm development    The process whose specific outcome is the progression of the ectoderm over time, from its formation to the mature structure. In animal embryos, the ectoderm is the outer germ layer of the embryo, formed during gastrulation.
    GO:0007390    germ-band shortening    The spreading of the amnioserosa from its compressed state to cover the whole of the dorsal surface. Initiating in the thorax and spreading posteriorly, it is accompanied by the transition from a parasegmental to segmental division of the embryo.
    GO:0008258    head involution    Movement of the anterior ectoderm to the interior of the embryo.
    GO:0007507    heart development    The process whose specific outcome is the progression of the heart over time, from its formation to the mature structure. The heart is a hollow, muscular organ, which, by contracting rhythmically, keeps up the circulation of the blood.
    GO:0030097    hemopoiesis    The process whose specific outcome is the progression of the myeloid and lymphoid derived organ/tissue systems of the blood and other parts of the body over time, from formation to the mature structure. The site of hemopoiesis is variable during development, but occurs primarily in bone marrow or kidney in many adult vertebrates.
    GO:0035167    larval lymph gland hemopoiesis    The production of blood cells from the larval lymph gland. The lymph gland consists of three to six bilaterally paired lobes that are attached to the cardioblasts during larval stages, and it degenerates during pupal stages.
    GO:0048542    lymph gland development    The process whose specific outcome is the progression of the lymph gland over time, from its formation to the mature structure. The lymph gland is one of the sites of hemocyte differentiation. It consists of three to six bilaterally paired lobes that are attached to the cardioblasts during larval stages, and it degenerates during pupal stages.
    GO:0009996    negative regulation of cell fate specification    Any process that restricts, stops or prevents a cell from adopting a specific cell fate.
    GO:0042690    negative regulation of crystal cell differentiation    Any process that stops, prevents, or reduces the frequency, rate or extent of crystal cell differentiation.
    GO:0043433    negative regulation of sequence-specific DNA binding transcription factor activity    Any process that stops, prevents, or reduces the frequency, rate or extent of the activity of a transcription factor, any factor involved in the initiation or regulation of transcription.
    GO:0000122    negative regulation of transcription from RNA polymerase II promoter    Any process that stops, prevents, or reduces the frequency, rate or extent of transcription from an RNA polymerase II promoter.
    GO:0042440    pigment metabolic process    The chemical reactions and pathways involving pigment, any general or particular coloring matter in living organisms, e.g. melanin.
    GO:0002805    regulation of antimicrobial peptide biosynthetic process    Any process that modulates the frequency, rate, or extent of antimicrobial peptide biosynthesis.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0007362    terminal region determination    Specification of the terminal regions (the two non-segmented ends) of the embryo by the gap genes; exemplified in insects by the actions of huckebein and tailless gene products.
    GO:0008293    torso signaling pathway    A series of molecular signals initiated by the binding of an extracellular ligand to torso (a receptor tyrosine kinase) on the surface of a target cell, and ending with regulation of a downstream cellular process, e.g. transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
cellular component
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        USH_DROME | Q9VPQ61fu9 1jn7 1y0j 2l6z

(-) Related Entries Specified in the PDB File

1fu9 1FU9 CONTAINS THE NINTH ZINC FINGER OF U-SHAPED