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(-) Description

Title :  SCYTALONE DEHYDRATASE AND CYANOCINNOLINE INHIBITOR
 
Authors :  J. M. Chen, S. L. Xu, Z. Wawrzak, G. S. Basarab, D. B. Jordan
Date :  16 Oct 98  (Deposition) - 16 Oct 99  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.65
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Dehydratase, Fungal Melanin, Ec 4. 2. 1. 94, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. M. Chen, S. L. Xu, Z. Wawrzak, G. S. Basarab, D. B. Jordan
Structure-Based Design Of Potent Inhibitors Of Scytalone Dehydratase: Displacement Of A Water Molecule From The Active Site.
Biochemistry V. 37 17735 1998
PubMed-ID: 9922139  |  Reference-DOI: 10.1021/BI981848R
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PROTEIN (SCYTALONE DEHYDRATASE)
    ChainsA, B, C
    EC Number4.2.1.94
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Cellular LocationCYTOPLASM
    Expression System Taxid562
    Organism ScientificMAGNAPORTHE GRISEA
    Organism Taxid148305

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 5)

Asymmetric/Biological Unit (2, 5)
No.NameCountTypeFull Name
1CA2Ligand/IonCALCIUM ION
2MQ03Ligand/Ion(3-AMINOMETHYL-CINNOLIN-4-YL)-(3,3-DIPHENYL-ALLYLIDENE)-AMINE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG B:51 , ASP B:55 , GLU B:59 , HOH B:564 , HOH B:596 , HOH B:627BINDING SITE FOR RESIDUE CA B 501
2AC2SOFTWAREARG C:51 , ASP C:55 , GLU C:59 , HOH C:573 , HOH C:620BINDING SITE FOR RESIDUE CA C 502
3AC3SOFTWARETYR A:30 , TYR A:50 , PHE A:53 , VAL A:108 , ALA A:127 , ASN A:131 , LEU A:147 , PRO A:149 , ILE A:151 , GLY A:165 , HOH A:517BINDING SITE FOR RESIDUE MQ0 A 503
4AC4SOFTWARETYR C:30 , TYR C:50 , PHE C:53 , VAL C:108 , ASN C:131 , LEU C:147 , PRO C:149 , ILE C:151 , PHE C:162 , GLY C:165 , HOH C:518BINDING SITE FOR RESIDUE MQ0 C 504
5AC5SOFTWARETYR B:30 , TYR B:50 , PHE B:53 , VAL B:108 , ASN B:131 , LEU B:147 , PRO B:149 , ILE B:151 , PHE B:162 , GLY B:165 , HOH B:514BINDING SITE FOR RESIDUE MQ0 B 505

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3STD)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3STD)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3STD)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3STD)

(-) Exons   (0, 0)

(no "Exon" information available for 3STD)

(-) 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:162
 aligned with SCYD_MAGO7 | P56221 from UniProtKB/Swiss-Prot  Length:172

    Alignment length:169
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161         
           SCYD_MAGO7     2 GSQVQKSDEITFSDYLGLMTCVYEWADSYDSKDWDRLRKVIAPTLRIDYRSFLDKLWEAMPAEEFVGMVSSKQVLGDPTLRTQHFIGGTRWEKVSEDEVIGYHQLRVPHQRYKDTTMKEVTMKGHAHSANLHWYKKIDGVWKFAGLKPDIRWGEFDFDRIFEDGRETFG 170
               SCOP domains d       3stda_ A: Scytalone dehydratase                                                                                                                                   SCOP domains
               CATH domains 3       stdA00 A:2-170  [code=3.10.450.50, no name defined]                                                                                                               CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .-------...hhhhhhhhhhhhhhhhhhhh..hhhhh.......eeeehhhh.eee....hhhhhhhh..........eeeeeee..eeeeeee..eeeeeeeeeeeeeee.......eeeeeeeeeeeeeeeeee..eeeeeeee..eeeeee.hhhh.hhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3std A   2 G-------EITFSDYLGLMTCVYEWADSYDSKDWDRLRKVIAPTLRIDYRSFLDKLWEAMPAEEFVGMVSSKQVLGDPTLRTQHFIGGTRWEKVSEDEVIGYHQLRVPHQRYKDTTMKEVTMKGHAHSANLHWYKKIDGVWKFAGLKPDIRWGEFDFDRIFEDGRETFG 170
                            |       11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161         
                            |      10                                                                                                                                                                
                            2                                                                                                                                                                        

Chain B from PDB  Type:PROTEIN  Length:162
 aligned with SCYD_MAGO7 | P56221 from UniProtKB/Swiss-Prot  Length:172

    Alignment length:169
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161         
           SCYD_MAGO7     2 GSQVQKSDEITFSDYLGLMTCVYEWADSYDSKDWDRLRKVIAPTLRIDYRSFLDKLWEAMPAEEFVGMVSSKQVLGDPTLRTQHFIGGTRWEKVSEDEVIGYHQLRVPHQRYKDTTMKEVTMKGHAHSANLHWYKKIDGVWKFAGLKPDIRWGEFDFDRIFEDGRETFG 170
               SCOP domains d       3stdb_ B: Scytalone dehydratase                                                                                                                                   SCOP domains
               CATH domains 3       stdB00 B:2-170  [code=3.10.450.50, no name defined]                                                                                                               CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .-------...hhhhhhhhhhhhhhhhhhhh..hhhhh........eeehhhh.eee....hhhhhhhh..........eeeeeee..eeeeeee..eeeeeeeeeeeeeee.......eeeeeeeeeeeeeeeeee..eeee.eeeeeeeeeee.hhhh.hhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3std B   2 G-------EITFSDYLGLMTCVYEWADSYDSKDWDRLRKVIAPTLRIDYRSFLDKLWEAMPAEEFVGMVSSKQVLGDPTLRTQHFIGGTRWEKVSEDEVIGYHQLRVPHQRYKDTTMKEVTMKGHAHSANLHWYKKIDGVWKFAGLKPDIRWGEFDFDRIFEDGRETFG 170
                            |       11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161         
                            2      10                                                                                                                                                                

Chain C from PDB  Type:PROTEIN  Length:162
 aligned with SCYD_MAGO7 | P56221 from UniProtKB/Swiss-Prot  Length:172

    Alignment length:169
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161         
           SCYD_MAGO7     2 GSQVQKSDEITFSDYLGLMTCVYEWADSYDSKDWDRLRKVIAPTLRIDYRSFLDKLWEAMPAEEFVGMVSSKQVLGDPTLRTQHFIGGTRWEKVSEDEVIGYHQLRVPHQRYKDTTMKEVTMKGHAHSANLHWYKKIDGVWKFAGLKPDIRWGEFDFDRIFEDGRETFG 170
               SCOP domains d       3stdc_ C: Scytalone dehydratase                                                                                                                                   SCOP domains
               CATH domains 3       stdC00 C:2-170  [code=3.10.450.50, no name defined]                                                                                                               CATH domains
           Pfam domains (1) --------Scytalone_dh-3stdC01 C:10-169                                                                                                                                   - Pfam domains (1)
           Pfam domains (2) --------Scytalone_dh-3stdC02 C:10-169                                                                                                                                   - Pfam domains (2)
           Pfam domains (3) --------Scytalone_dh-3stdC03 C:10-169                                                                                                                                   - Pfam domains (3)
         Sec.struct. author .-------...hhhhhhhhhhhhhhhhhhhh..hhhhhhh......eeehhhh.eee....hhhhhhhh..........eeeeeee..eeeeeee..eeeeeeeeeeeeeee.......eeeeeeeeeeeeeeeeee..eeeeeeee..eeeeee.hhhh.hhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3std C   2 G-------EITFSDYLGLMTCVYEWADSYDSKDWDRLRKVIAPTLRIDYRSFLDKLWEAMPAEEFVGMVSSKQVLGDPTLRTQHFIGGTRWEKVSEDEVIGYHQLRVPHQRYKDTTMKEVTMKGHAHSANLHWYKKIDGVWKFAGLKPDIRWGEFDFDRIFEDGRETFG 170
                            |       11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161         
                            2      10                                                                                                                                                                

   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, 3)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 3)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 3)

Asymmetric/Biological Unit
(-)
Clan: NTF2 (66)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C   (SCYD_MAGO7 | P56221)
molecular function
    GO:0016829    lyase activity    Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
    GO:0030411    scytalone dehydratase activity    Catalysis of the reaction: scytalone = 1,3,8-trihydroxynaphthalene + H(2)O.
biological process
    GO:0042438    melanin biosynthetic process    The chemical reactions and pathways resulting in the formation of melanins, pigments largely of animal origin. High molecular weight polymers of indole quinone, they are irregular polymeric structures and are divided into three groups: allomelanins in the plant kingdom and eumelanins and phaeomelanins in the animal kingdom.
    GO:0006582    melanin metabolic process    The chemical reactions and pathways involving melanins, pigments largely of animal origin. High molecular weight polymers of indole quinone, they are irregular polymeric structures and are divided into three groups: allomelanins in the plant kingdom and eumelanins and phaeomelanins in the animal kingdom.
    GO:0043581    obsolete mycelium development    OBSOLETE. The process whose specific outcome is the progression of the mycelium over time, from its formation to the mature structure. A mycelium consists of a mass of branching, thread-like hyphae.
cellular component
    GO:0005575    cellular_component    The part of a cell, extracellular environment or virus in which a gene product is located. A gene product may be located in one or more parts of a cell and its location may be as specific as a particular macromolecular complex, that is, a stable, persistent association of macromolecules that function together.

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