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(-) Description

Title :  THEORITICAL MODEL OF HUMAN FICOLIN PRECURSOR
 
Authors :  S. C. Mallena, K. Yadugiri
Date :  28 Mar 02  (Deposition) - 17 Apr 02  (Release) - 20 Nov 02  (Revision)
Method :  THEORETICAL MODEL
Resolution :  NOT APPLICABLE
Chains :  Theor. Model :  A
Keywords :  Lectin Collagen, Repeat, Glycoprotein, Signal, Multigene Family, Antigen, Hydroxylation (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  S. C. Mallena, K. Yadugiri
In Silico Designed Structure Of Ficolin Precursor
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - FICOLIN 3
    ChainsA
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    SynonymCOLLAGEN/FIBRINOGEN DOMAIN-CONTAINING PROTEIN 3, COLLAGEN/FIBRINOGEN DOMAIN-CONTAINING LECTIN 3 P35, HAKATA ANTIGEN

 Structural Features

(-) Chains, Units

  
Theoretical Model 

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1LA5)

(-) Sites  (0, 0)

(no "Site" information available for 1LA5)

(-) SS Bonds  (1, 1)

Theoretical Model
No.Residues
1A:245 -A:258

(-) Cis Peptide Bonds  (1, 1)

Theoretical Model
No.Residues
1Ser A:257 -Cys A:258

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1LA5)

(-) PROSITE Motifs  (2, 2)

Theoretical Model (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1FIBRINOGEN_C_2PS51406 Fibrinogen C-terminal domain profile.FCN3_HUMAN84-299  1A:84-299
2FIBRINOGEN_C_1PS00514 Fibrinogen C-terminal domain signature.FCN3_HUMAN253-265  1A:253-265

(-) Exons   (8, 8)

Theoretical Model (8, 8)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1aENST000002708791aENSE00001153243chr1:27701315-2770121997FCN3_HUMAN1-31311A:1-3131
1.2aENST000002708792aENSE00000956155chr1:27700942-2770084796FCN3_HUMAN31-63331A:31-6333
1.2cENST000002708792cENSE00000956156chr1:27700500-2770045645FCN3_HUMAN63-78161A:63-7816
1.2eENST000002708792eENSE00000956157chr1:27700011-2769997933FCN3_HUMAN78-89121A:78-8912
1.2fENST000002708792fENSE00000956158chr1:27699754-27699627128FCN3_HUMAN89-131431A:89-13143
1.3ENST000002708793ENSE00000956159chr1:27697463-27697334130FCN3_HUMAN132-175441A:132-17544
1.4aENST000002708794aENSE00000956160chr1:27697221-27697087135FCN3_HUMAN175-220461A:175-22046
1.5ENST000002708795ENSE00001037666chr1:27695968-27695603366FCN3_HUMAN220-299801A:220-29980

(-) Sequences/Alignments

Theoretical Model
   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:299
 aligned with FCN3_HUMAN | O75636 from UniProtKB/Swiss-Prot  Length:299

    Alignment length:299
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290         
           FCN3_HUMAN     1 MDLLWILPSLWLLLLGGPACLKTQEHPSCPGPRELEASKVVLLPSCPGAPGSPGEKGAPGPQGPPGPPGKMGPKGEPGDPVNLLRCQEGPRNCRELLSQGATLSGWYHLCLPEGRALPVFCDMDTEGGGWLVFQRRQDGSVDFFRSWSSYRAGFGNQESEFWLGNENLHQLTLQGNWELRVELEDFNGNRTFAHYATFRLLGEVDHYQLALGKFSEGTAGDSLSLHSGRPFTTYDADHDSSNSNCAVIVHGAWWYASCYRSNLNGRYAVSEAAAHKYGIDWASGRGVGHPYRRVRMMLR 299
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............................................................................hhhhhhhhh....eeeee...hhhhhh...........eeeeee.hhhhh.eeeeeee.........hhhhhhhhee.....ee.hhhhhhhhhhhh.eeeeeeee.....eeeeeeeeeee.hhhhh..ee...ee.......hhhhh................hhhhhhh..............................hhhhhh......eeeeeee Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -----------------------------------------------------------------------------------FIBRINOGEN_C_2  PDB: A:84-299 UniProt: 84-299                                                                                                                                                                            PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------FIBRINOGEN_C_---------------------------------- PROSITE (2)
           Transcript 1 (1) Exon 1.1a  PDB: A:1-31         -------------------------------Exon 1.2c       ----------Exon 1.2f  PDB: A:89-131 UniProt: 89-131   Exon 1.3  PDB: A:132-175 UniProt: 132-175   --------------------------------------------Exon 1.5  PDB: A:220-299 UniProt: 220-299                                        Transcript 1 (1)
           Transcript 1 (2) ------------------------------Exon 1.2a  PDB: A:31-63          --------------Exon 1.2e   -------------------------------------------------------------------------------------Exon 1.4a  PDB: A:175-220 UniProt: 175-220    ------------------------------------------------------------------------------- Transcript 1 (2)
                 1la5 A   1 MDLLWILPSLWLLLLGGPACLKTQEHPSCPGPRELEASKVVLLPSCPGAPGSPGEKGAPGPQGPPGPPGKMGPKGEPGDPVNLLRCQEGPRNCRELLSQGATLSGWYHLCLPEGRALPVFCDMDTEGGGWLVFQRRQDGSVDFFRSWSSYRAGFGNQESEFWLGNENLHQLTLQGNWELRVELEDFNGNRTFAHYATFRLLGEVDHYQLALGKFSEGTAGDSLSLHSGRPFTTYDADHDSSNSNCAVIVHGAWWYASCYRSNLNGRYAVSDAAAHKYGIDWASGRGVGHPYRRVRMMLR 299
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290         

   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  (0, 0)

(no "SCOP Domain" information available for 1LA5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1LA5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1LA5)

(-) Gene Ontology  (17, 17)

Theoretical Model(hide GO term definitions)
Chain A   (FCN3_HUMAN | O75636)
molecular function
    GO:0003823    antigen binding    Interacting selectively and non-covalently with an antigen, any substance which is capable of inducing a specific immune response and of reacting with the products of that response, the specific antibody or specifically sensitized T-lymphocytes, or both. Binding may counteract the biological activity of the antigen.
    GO:0030246    carbohydrate binding    Interacting selectively and non-covalently with any carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
    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:0004252    serine-type endopeptidase activity    Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile that is activated by a proton relay involving an acidic residue (e.g. aspartate or glutamate) and a basic residue (usually histidine).
biological process
    GO:0006956    complement activation    Any process involved in the activation of any of the steps of the complement cascade, which allows for the direct killing of microbes, the disposal of immune complexes, and the regulation of other immune processes; the initial steps of complement activation involve one of three pathways, the classical pathway, the alternative pathway, and the lectin pathway, all of which lead to the terminal complement pathway.
    GO:0001867    complement activation, lectin pathway    Any process involved in the activation of any of the steps of the lectin pathway of the complement cascade which allows for the direct killing of microbes and the regulation of other immune processes.
    GO:0051607    defense response to virus    Reactions triggered in response to the presence of a virus that act to protect the cell or organism.
    GO:0002376    immune system process    Any process involved in the development or functioning of the immune system, an organismal system for calibrated responses to potential internal or invasive threats.
    GO:0045087    innate immune response    Innate immune responses are defense responses mediated by germline encoded components that directly recognize components of potential pathogens.
    GO:1902679    negative regulation of RNA biosynthetic process    Any process that stops, prevents or reduces the frequency, rate or extent of RNA biosynthetic process.
    GO:0046597    negative regulation of viral entry into host cell    Any process that stops, prevents, or reduces the frequency, rate or extent of the entry of viral entry into a host cell.
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
    GO:0043654    recognition of apoptotic cell    The process in which a cell interprets signals (in the form of specific proteins and lipids) on the surface of a dying cell which it will engulf and remove by phagocytosis.
cellular component
    GO:0072562    blood microparticle    A phospholipid microvesicle that is derived from any of several cell types, such as platelets, blood cells, endothelial cells, or others, and contains membrane receptors as well as other proteins characteristic of the parental cell. Microparticles are heterogeneous in size, and are characterized as microvesicles free of nucleic acids.
    GO:0005581    collagen trimer    A protein complex consisting of three collagen chains assembled into a left-handed triple helix. These trimers typically assemble into higher order structures.
    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.

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    Ser A:257 - Cys A:258   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        FCN3_HUMAN | O756362j5z 2j60 2j64

(-) Related Entries Specified in the PDB File

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