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(-) Description

Title :  NMR STUDY OF THE THIRD TB DOMAIN FROM LATENT TRANSFORMING GROWTH FACTOR-BETA BINDING PROTEIN-1
 
Authors :  J. Lack, J. M. O'Leary, V. Knott, X. Yuan, D. B. Rifkin, P. A. Handford, A. K. Downing
Date :  14 Jan 02  (Deposition) - 26 Aug 03  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Nmr Structure, Latent Transforming Growth Factor-Beta Binding Protein-1, Ltbp-1, Tgf-Beta, Tb Domain, Latency Associated Propeptide, Lap, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Lack, J. M. O'Leary, V. Knott, X. Yuan, D. B. Rifkin, P. A. Handford, A. K. Downing
Solution Structure Of The Third Tb Domain From Ltbp1 Provides Insight Into Assembly Of The Large Latent Complex That Sequesters Latent Tgf-Beta.
J. Mol. Biol. V. 334 281 2003
PubMed-ID: 14607119  |  Reference-DOI: 10.1016/J.JMB.2003.09.053
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - LATENT TRANSFORMING GROWTH FACTOR BETA BINDING PROTEIN 1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21
    Expression System Gene: LTBP1
    Expression System Plasmid: PQE30
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Fragment: THIRD TB DOMAIN
    Gene: LTBP1
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: TRANSFORMING GROWTH FACTOR BETA-1 BINDING PROTEIN 1,TGF-BETA1-BP-1

 Structural Features

(-) Chains, Units

  
NMR Structure (20x): 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1KSQ)

(-) Sites  (0, 0)

(no "Site" information available for 1KSQ)

(-) SS Bonds  (4, 4)

NMR Structure
No.Residues
1A:12 -A:35
2A:22 -A:47
3A:36 -A:52
4A:37 -A:64

(-) Cis Peptide Bonds  (1, 20)

NMR Structure
No.ModelResidues
11, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20Cys A:52 -Pro A:53

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 1)

NMR Structure (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TBPS51364 TGF-beta binding (TB) domain profile.LTBP1_HUMAN557-602
677-729
1347-1401
1524-1577		  1-
-
A:10-64
-

(-) Exons   (0, 0)

(no "Exon" information available for 1KSQ)

(-) 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:75
 aligned with LTBP1_HUMAN | Q14766 from UniProtKB/Swiss-Prot  Length:1721

    Alignment length:75
                                  1347      1357      1367      1377      1387      1397      1407     
         LTBP1_HUMAN   1338 DVDQPKEEKKECYYNLNDASLCDNVLAPNVTKQECCCTSGVGWGDNCEIFPCPVLGTAEFTEMCPKGKGFVPAGE 1412
               SCOP domains d1ksqa_ A: Transforming growth factor-beta binding protein-1                SCOP domains
               CATH domains 1ksqA00 A:1-75 Extracellular Matrix Fibrillin                               CATH domains
               Pfam domains -------------------TB-1ksqA01 A:20-63                          ------------ Pfam domains
         Sec.struct. author ........eeeee...............eeehhhhhhh...eeee..eeee.....hhhhhhhh........... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------TB  PDB: A:10-64 UniProt: 1347-1401                    ----------- PROSITE
                 Transcript --------------------------------------------------------------------------- Transcript
                1ksq A    1 SADQPKEEKKECYYNLNDASLCDNVLAPNVTKQECCCTSGAGWGDNCEIFPCPVLGTAEFTEMCPKGKGFVPAGE   75
                                    10        20        30        40        50        60        70
   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
(-)
Class: Small proteins (3458)

(-) CATH Domains  (1, 1)

NMR Structure
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

NMR Structure
(-)
Clan: no clan defined [family: TB] (5)

(-) Gene Ontology  (16, 16)

NMR Structure(hide GO term definitions)
Chain A   (LTBP1_HUMAN | Q14766)
molecular function
    GO:0005509    calcium ion binding    Interacting selectively and non-covalently with calcium ions (Ca2+).
    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:0050436    microfibril binding    Interacting selectively and non-covalently with a microfibril, any small fibril occurring in biological material.
    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:0050431    transforming growth factor beta binding    Interacting selectively and non-covalently with TGF-beta, transforming growth factor beta, a multifunctional peptide that controls proliferation, differentiation and other functions in many cell types.
    GO:0005024    transforming growth factor beta-activated receptor activity    Combining with a transforming growth factor beta (TGFbeta) and transmitting the signal from one side of the membrane to the other to initiate a change in cell activity by catalysis of the reaction: ATP protein serine = ADP + protein serine phosphate, and ATP + protein threonine = ADP + protein threonine phosphate.
biological process
    GO:0035904    aorta development    The progression of the aorta over time, from its initial formation to the mature structure. An aorta is an artery that carries blood from the heart to other parts of the body.
    GO:0060976    coronary vasculature development    The process whose specific outcome is the progression of the blood vessels of the heart over time, from its formation to the mature structure.
    GO:0035583    sequestering of TGFbeta in extracellular matrix    Confining TGFbeta to the extracellular matrix (ECM) such that it is separated from other components of the signaling pathway, including its cell surface receptor. TGFbeta is secreted as part of a latent complex that is targeted to the extracellular matrix through latent-TGFbeta-binding protein (LTBP)-mediated association with matrix proteins.
    GO:0007178    transmembrane receptor protein serine/threonine kinase signaling pathway    A series of molecular signals initiated by the binding of an extracellular ligand to a receptor on the surface of the target cell where the receptor possesses serine/threonine kinase activity, and ending with regulation of a downstream cellular process, e.g. transcription.
    GO:0003281    ventricular septum development    The progression of the ventricular septum over time from its formation to the mature structure.
cellular component
    GO:0031012    extracellular matrix    A structure lying external to one or more cells, which provides structural support for cells or tissues.
    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:0001527    microfibril    Extracellular matrix components occurring independently or along with elastin. Thought to have force-bearing functions in tendon. In addition to fibrillins, microfibrils may contain other associated proteins.
    GO:0043234    protein complex    A stable macromolecular complex composed (only) of two or more polypeptide subunits along with any covalently attached molecules (such as lipid anchors or oligosaccharide) or non-protein prosthetic groups (such as nucleotides or metal ions). Prosthetic group in this context refers to a tightly bound cofactor. The component polypeptide subunits may be identical.
    GO:0005578    proteinaceous extracellular matrix    A layer consisting mainly of proteins (especially collagen) and glycosaminoglycans (mostly as proteoglycans) that forms a sheet underlying or overlying cells such as endothelial and epithelial cells. The proteins are secreted by cells in the vicinity. An example of this component is found in Mus musculus.

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    Cys A:52 - Pro A:53   [ RasMol ]  
 

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  1ksq
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  LTBP1_HUMAN | Q14766
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(-) Related Entries Specified in the PDB File

1apj NMR STUDY OF THE TRANSFORMING GROWTH FACTOR-BETA BINDING PROTEIN-LIKE DOMAIN (TB MODULE/8-CYS DOMAIN), NMR STRUCTURE, 21 STRUCTURES