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(-) Description

Title :  C-TERMINAL DOMAIN OF INSULIN-LIKE GROWTH FACTOR BINDING PROTEIN-1 ISOLATED FROM HUMAN AMNIOTIC FLUID
 
Authors :  A. Sala, S. Capaldi, M. Campagnoli, B. Faggion, S. Labo, M. Perduca, A. Romano, M. E. Carrizo, M. Valli, L. Visai, L. Minchiotti, M. Galliano, H. L. Monaco
Date :  26 May 05  (Deposition) - 28 Jun 05  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A
Keywords :  Insulin-Like Growth Factor Binding Protein-1, Igfbp-1, Amniotic Fluid, C-Terminal Domain, Metal-Binding, Peptide Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  A. Sala, S. Capaldi, M. Campagnoli, B. Faggion, S. Labo, M. Perduca, A. Romano, M. E. Carrizo, M. Valli, L. Visai, L. Minchiotti, M. Galliano, H. L. Monaco
Structure And Properties Of The C-Terminal Domain Of Insulin-Like Growth Factor-Binding Protein-1 Isolated From Human Amniotic Fluid
J. Biol. Chem. V. 280 29812 2005
PubMed-ID: 15972819  |  Reference-DOI: 10.1074/JBC.M504304200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - INSULIN-LIKE GROWTH FACTOR BINDING PROTEIN 1
    ChainsA
    FragmentC-TERMINAL DOMAIN
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    Other DetailsAMNIOTIC FLUID
    SynonymIGFBP-1, IBP- 1, IGF-BINDING PROTEIN 1, PLACENTAL PROTEIN 12, PP12

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1DIO1Ligand/Ion1,4-DIETHYLENE DIOXIDE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH A:7 , HOH A:40 , VAL A:183 , SER A:186 , LEU A:187 , PRO A:233 , TRP A:234BINDING SITE FOR RESIDUE DIO A 400

(-) SS Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1A:176 -A:206
2A:217 -A:228
3A:230 -A:251

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1ZT3)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 1)

Asymmetric/Biological Unit (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_011905V183IIBP1_HUMANPolymorphism1065782AV183I

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (2, 2)

Asymmetric/Biological Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1THYROGLOBULIN_1_2PS51162 Thyroglobulin type-1 domain profile.IBP1_HUMAN173-251  1A:173-251
2THYROGLOBULIN_1_1PS00484 Thyroglobulin type-1 repeat signature.IBP1_HUMAN202-236  1A:202-236

(-) Exons   (3, 3)

Asymmetric/Biological Unit (3, 3)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1aENST000002755251aENSE00001856462chr7:45927956-45928600645IBP1_HUMAN1-1171170--
1.2ENST000002755252ENSE00000976757chr7:45930147-45930316170IBP1_HUMAN117-173571A:172-1732
1.3aENST000002755253aENSE00000976758chr7:45931531-45931659129IBP1_HUMAN174-216431A:174-21643
1.4cENST000002755254cENSE00001907318chr7:45932559-45933267709IBP1_HUMAN217-259431A:217-25135

(-) Sequences/Alignments

Asymmetric/Biological Unit
   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:80
 aligned with IBP1_HUMAN | P08833 from UniProtKB/Swiss-Prot  Length:259

    Alignment length:80
                                   181       191       201       211       221       231       241       251
           IBP1_HUMAN   172 WKEPCRIELYRVVESLAKAQETSGEEISKFYLPNCNKNGFYHSRQCETSMDGEAGLCWCVYPWNGKRIPGSPEIRGDPNC 251
               SCOP domains d1zt3a_ A: automated matches                                                     SCOP domains
               CATH domains -------------------------------------------------------------------------------- CATH domains
               Pfam domains ----Thyroglobulin_1-1zt3A01 A:176-251                                            Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhh.....ee.............eee.ee.......eee..................... Sec.struct. author
                 SAPs(SNPs) -----------I-------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -THYROGLOBULIN_1_2  PDB: A:173-251 UniProt: 173-251                              PROSITE (1)
                PROSITE (2) ------------------------------THYROGLOBULIN_1_1  PDB: A:202-236  --------------- PROSITE (2)
               Transcript 1 1.Exon 1.3a  PDB: A:174-216 UniProt: 174-216 Exon 1.4c  PDB: A:217-251           Transcript 1
                 1zt3 A 172 WKEPCRIELYRVVESLAKAQETSGEEISKFYLPNCNKNGFYHSRQCETSMDGEAGLCWCVYPWNGKRIPGSPEIRGDPNC 251
                                   181       191       201       211       221       231       241       251

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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric/Biological Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1ZT3)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit

(-) Gene Ontology  (16, 16)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (IBP1_HUMAN | P08833)
molecular function
    GO:0019838    growth factor binding    Interacting selectively and non-covalently with any growth factor, proteins or polypeptides that stimulate a cell or organism to grow or proliferate.
    GO:0031994    insulin-like growth factor I binding    Interacting selectively and non-covalently with insulin-like growth factor I.
    GO:0031995    insulin-like growth factor II binding    Interacting selectively and non-covalently with insulin-like growth factor II.
    GO:0005520    insulin-like growth factor binding    Interacting selectively and non-covalently with an insulin-like growth factor, any member of a group of polypeptides that are structurally homologous to insulin and share many of its biological activities, but are immunologically distinct from it.
    GO:0005102    receptor binding    Interacting selectively and non-covalently with one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function.
biological process
    GO:0036499    PERK-mediated unfolded protein response    A series of molecular signals mediated by the endoplasmic reticulum membrane stress sensor PERK (PKR-like ER kinase). Begins with activation of PERK in response to endoplasmic reticulum (ER) stress and ends with regulation of a downstream cellular process, e.g. transcription. The main substrate of PERK is the translation initiation factor eIF2alpha. Serine-phosphorylation of eIF2alpha by PERK inactivates eIF2alpha and inhibits general protein translation. In addition, eIF2alpha phosphorylation preferentially increases the translation of selective mRNAs such as ATF4 (activating transcription factor 4), which up regulates a subset of UPR genes required to restore folding capacity.
    GO:0044267    cellular protein metabolic process    The chemical reactions and pathways involving a specific protein, rather than of proteins in general, occurring at the level of an individual cell. Includes cellular protein modification.
    GO:0008286    insulin receptor signaling pathway    The series of molecular signals generated as a consequence of the insulin receptor binding to insulin.
    GO:0090090    negative regulation of canonical Wnt signaling pathway    Any process that decreases the rate, frequency, or extent of the Wnt signaling pathway through beta-catenin, the series of molecular signals initiated by binding of a Wnt protein to a frizzled family receptor on the surface of the target cell, followed by propagation of the signal via beta-catenin, and ending with a change in transcription of target genes.
    GO:0030307    positive regulation of cell growth    Any process that activates or increases the frequency, rate, extent or direction of cell growth.
    GO:0001558    regulation of cell growth    Any process that modulates the frequency, rate, extent or direction of cell growth.
    GO:0043567    regulation of insulin-like growth factor receptor signaling pathway    Any process that modulates the frequency, rate or extent of insulin-like growth factor receptor signaling.
    GO:0007165    signal transduction    The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell.
    GO:0042246    tissue regeneration    The regrowth of lost or destroyed tissues.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
    GO:0005615    extracellular space    That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.

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 Related Entries

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

UniProtKB/Swiss-Prot
        IBP1_HUMAN | P088331zt5 2dsq

(-) Related Entries Specified in the PDB File

1zt5 SAME PROTEIN ISOLATED FROM HUMAN AMNIOTIC FLUID COMPLEXED WITH IRON(II)