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(-)Theoretical Model
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Theoretical Model  (Jmol Viewer)

(-) Description

Authors :  K. Rakhshan, A. Salim, A. Abbasi
Date :  06 Jun 02  (Deposition) - 26 Jun 02  (Release) - 20 Nov 02  (Revision)
Resolution :  NOT APPLICABLE
Chains :  Theor. Model :  A
Keywords :  Human Granzyme H, Homology Modeling (Keyword Search: [Gene Ontology, PubMed, Web (Google))
Reference :  K. Rakhshan, A. Salim, A. Abbasi
Prediction Of Trhee-Dimensional Structure Of Human Granzyme H By Homology Modeling.
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - GRANZYME H
    EC Number3.4.21.-
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS

 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 1LXV)

(-) Sites  (0, 0)

(no "Site" information available for 1LXV)

(-) SS Bonds  (3, 3)

Theoretical Model
1A:49 -A:65
2A:142 -A:208
3A:172 -A:187

(-) Cis Peptide Bonds  (2, 2)

Theoretical Model
1Gln A:42 -Glu A:43
2Pro A:225 -Pro A:226

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 1)

Theoretical Model (1, 1)
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant

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

(-) PROSITE Motifs  (3, 3)

Theoretical Model (3, 3)
1TRYPSIN_DOMPS50240 Serine proteases, trypsin domain profile.GRAH_HUMAN21-244  1A:21-244
2TRYPSIN_HISPS00134 Serine proteases, trypsin family, histidine active site.GRAH_HUMAN60-65  1A:60-65
3TRYPSIN_SERPS00135 Serine proteases, trypsin family, serine active site.GRAH_HUMAN196-207  1A:196-207

(-) Exons   (4, 4)

Theoretical Model (4, 4)
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength

(-) 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:224
 aligned with GRAH_HUMAN | P20718 from UniProtKB/Swiss-Prot  Length:246

    Alignment length:224
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------Q---------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) TRYPSIN_DOM  PDB: A:21-244 UniProt: 21-244                                                                                                                                                                                       PROSITE (1)
                PROSITE (2) ---------------------------------------TRYPSI----------------------------------------------------------------------------------------------------------------------------------TRYPSIN_SER ------------------------------------- PROSITE (2)
           Transcript 1 (1) Exon 1.2a  PDB: A:21-68 UniProt: 19-68          ---------------------------------------------Exon 1.4  PDB: A:114-199 UniProt: 114-199                                             Exon 1.5b  PDB: A:200-244 UniProt: 200-246    Transcript 1 (1)
           Transcript 1 (2) -----------------------------------------------Exon 1.3  PDB: A:68-113 UniProt: 68-113       ----------------------------------------------------------------------------------------------------------------------------------- Transcript 1 (2)
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240    

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  - → Gap (green background, '-', border residues have a numbering label)
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  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 1LXV)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (12, 12)

Theoretical Model(hide GO term definitions)
Chain A   (GRAH_HUMAN | P20718)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0008233    peptidase activity    Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid.
    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).
    GO:0008236    serine-type peptidase activity    Catalysis of the hydrolysis of 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:0006915    apoptotic process    A programmed cell death process which begins when a cell receives an internal (e.g. DNA damage) or external signal (e.g. an extracellular death ligand), and proceeds through a series of biochemical events (signaling pathway phase) which trigger an execution phase. The execution phase is the last step of an apoptotic process, and is typically characterized by rounding-up of the cell, retraction of pseudopodes, reduction of cellular volume (pyknosis), chromatin condensation, nuclear fragmentation (karyorrhexis), plasma membrane blebbing and fragmentation of the cell into apoptotic bodies. When the execution phase is completed, the cell has died.
    GO:0019835    cytolysis    The rupture of cell membranes and the loss of cytoplasm.
    GO:0006955    immune response    Any immune system process that functions in the calibrated response of an organism to a potential internal or invasive threat.
    GO:0016485    protein processing    Any protein maturation process achieved by the cleavage of a peptide bond or bonds within a protein. Protein maturation is the process leading to the attainment of the full functional capacity of a protein.
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0043231    intracellular membrane-bounded organelle    Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane and occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.


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  Ligands, Modified Residues, Ions
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  Cis Peptide Bonds
    Gln A:42 - Glu A:43   [ RasMol ]  
    Pro A:225 - Pro A:226   [ RasMol ]  

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 Related Entries

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

        GRAH_HUMAN | P207183tju 3tjv 3tk9 4gaw

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1LXV)