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(-) Description

Title :  A THREE DIMENSIONAL STRUCTURAL MODEL OF STEM BROMELAIN: A CRITICAL COMPARATIVE ANALYSIS OF GLYCOSYLATION TOWARDS FUNCTIONAL AND STRUCTURAL STABILITY
 
Authors :  N. Banerjee, S. Das, A. Banerjee
Date :  08 Jun 04  (Deposition) - 25 Jan 06  (Release) - 25 Jan 06  (Revision)
Method :  THEORETICAL MODEL
Resolution :  NOT APPLICABLE
Chains :  Theor. Model :  B
Keywords :  Hydrolase, Thiol Protease, Glycoprotein, Stem Bromelain (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Banerjee, A. Banerjee
A Three Dimensional Structural Model Of Stem Bromelain: A Critical Comparative Analysis Of Glycosylation Towards Functional And Structural Stability
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - BROMELAIN
    Chains: B
    EC Number: 3.4.22.32
    Organism Common: PINEAPPLE
    Organism Scientific: ANANUS COMOSUS
    Other Details: BRANCHED HETERO OLIGOSACHHARIDE CHAIN (CCSD:42165) CONTAINING NAG, MANNOSE, XYLOSE AND FUCOSE IN 2:2:1:1 RATIO N-LINKED AT ASPARAGINE 117 OF STEM BROMELAIN
    Other Details - Source: THIS IS A PLANT FROM BROMELIACEAE FAMILY
    Synonym: GLYCOSYL CHAIN OF STEM BROMELAIN
    Tissue: STEM

 Structural Features

(-) Chains, Units

  
Theoretical Model : 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 6)

Theoretical Model (6, 6)
No.NameCountTypeFull Name
1AGC1Ligand/IonALPHA-D-GLUCOSE
2MAN1Ligand/IonALPHA-D-MANNOSE
3NDG1Ligand/Ion2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
4NGZ1Ligand/Ion2-(ACETYLAMINO)-2-DEOXY-ALPHA-L-GLUCOPYRANOSE
5RAM1Ligand/IonRHAMNOSE
6XYZ1Ligand/IonBETA-D-XYLOFURANOSE

(-) Sites  (4, 4)

Theoretical Model (4, 4)
No.NameEvidenceResiduesDescription
1NDGnot definedPRO B:114 , ARG B:115 , ASN B:116 , ASN B:117NDG BINDING SITE FOR CHAIN B
2NGZnot definedPRO B:114 , ARG B:115 , ASN B:116NGZ BINDING SITE FOR CHAIN B
3RAMnot definedASN B:116 , ASN B:117RAM BINDING SITE FOR CHAIN B
4XYZnot definedASN B:116XYZ BINDING SITE FOR CHAIN B

(-) SS Bonds  (3, 3)

Theoretical Model
No.Residues
1B:23 -B:63
2B:57 -B:96
3B:152 -B:199

(-) Cis Peptide Bonds  (2, 2)

Theoretical Model
No.Residues
1Ile B:107 -Thr B:108
2Gly B:150 -Pro B:151

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1W0Q)

(-) PROSITE Motifs  (2, 2)

Theoretical Model (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1THIOL_PROTEASE_CYSPS00139 Eukaryotic thiol (cysteine) proteases cysteine active site.BROM2_ANACO20-31  1B:20-31
2THIOL_PROTEASE_HISPS00639 Eukaryotic thiol (cysteine) proteases histidine active site.BROM2_ANACO156-166  1B:156-166

(-) Exons   (0, 0)

(no "Exon" information available for 1W0Q)

(-) 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 B from PDB  Type:PROTEIN  Length:210
 aligned with BROM2_ANACO | P14518 from UniProtKB/Swiss-Prot  Length:212

    Alignment length:210
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211
          BROM2_ANACO     2 VPQSIDWRDYGAVTSVKNQNPCGACWAFAAIATVESIYKIKKGILEPLSEQQVLDCAKGYGCKGGWEFRAFEFIISNKGVASGAIYPYKAAKGTCKTDGVPNSAYITGYARVPRNNESSMMYAVSKQPITVAVDANANFQYYKSGVFNGPCGTSLNHAVTAIGYGQDSIIYPKKWGAKWGEAGYIRMARDVSSSSGICGIAIDPLYPTLE 211
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....ee.................hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhh..hhh...hhhhhhhhhhhh..............................eeee....hhhhhhhhhhhh.eeeee.......................eeeee.ee...............................hhhhhhhh.eeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------THIOL_PROTEA----------------------------------------------------------------------------------------------------------------------------THIOL_PROTE--------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1w0q B   2 VPQSIDWRDYGAVTSVKNQNPCGACWAFAAIATVESIYKIKKGILEPLSEQQVLDCAKGYGCKGGWEFRAFEFIISNKGVASGAIYPYKAAKGTCKTDGVPNSAYITGYARVPRNNESSMMYAVSKQPITVAVDANANFQYYKSGVFNGPCGTSLNHAVTAIGYGQDSIIYPKKWGAKWGEAGYIRMARDVSSSSGICGIAIDPLYPTLE 211
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211
   Legend:   → Mismatch (orange background)
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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  (0, 0)

(no "SCOP Domain" information available for 1W0Q)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1W0Q)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1W0Q)

(-) Gene Ontology  (4, 4)

Theoretical Model(hide GO term definitions)
Chain B   (BROM2_ANACO | P14518)
molecular function
    GO:0008234    cysteine-type peptidase activity    Catalysis of the hydrolysis of peptide bonds in a polypeptide chain by a mechanism in which the sulfhydryl group of a cysteine residue at the active center acts as a nucleophile.
    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.
biological process
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.

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