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(-) Description

Title :  CYTOCHOME DOMAIN OF MYRICOCCUM THERMOPHILUM CELLOBIOSE DEHYDROGENASE, MTCYT
 
Authors :  T. C. Tan, R. Gandini, C. Sygmund, R. Kittl, D. Haltrich, R. Ludwig, B. M. C. Divne
Date :  30 May 14  (Deposition) - 15 Jul 15  (Release) - 15 Jul 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.40
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  A,B  (1x)
Keywords :  Immunoglobulin-Like Beta-Sandwich, Electron Transfer, Cdh Dehydrogenase Domain, Lpmo, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. C. Tan, R. Gandini, C. Sygmund, R. Kittl, D. Haltrich, R. Ludwig, B. M. Hallberg, C. Divne
Fungal Enzyme
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - CELLOBIOSE DEHYDROGENASE
    Chains: A, B
    Engineered: YES
    Expression System: PICHIA PASTORIS
    Expression System Plasmid: PPICZ B
    Expression System Strain: X33
    Expression System Taxid: 4922
    Expression System Vector Type: PLASMID
    Gene: CDH
    Organism Scientific: MYRIOCOCCUM THERMOPHILUM
    Organism Taxid: 455373
    Strain: CBS 208.89

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B
Biological Unit 3 (1x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 17)

Asymmetric Unit (5, 17)
No.NameCountTypeFull Name
1HEM2Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
2MAN8Ligand/IonALPHA-D-MANNOSE
3MG3Ligand/IonMAGNESIUM ION
4NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE
5PCA2Mod. Amino AcidPYROGLUTAMIC ACID
Biological Unit 1 (4, 7)
No.NameCountTypeFull Name
1HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
2MAN4Ligand/IonALPHA-D-MANNOSE
3MG-1Ligand/IonMAGNESIUM ION
4NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE
5PCA1Mod. Amino AcidPYROGLUTAMIC ACID
Biological Unit 2 (4, 7)
No.NameCountTypeFull Name
1HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
2MAN4Ligand/IonALPHA-D-MANNOSE
3MG-1Ligand/IonMAGNESIUM ION
4NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE
5PCA1Mod. Amino AcidPYROGLUTAMIC ACID
Biological Unit 3 (4, 14)
No.NameCountTypeFull Name
1HEM2Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
2MAN8Ligand/IonALPHA-D-MANNOSE
3MG-1Ligand/IonMAGNESIUM ION
4NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE
5PCA2Mod. Amino AcidPYROGLUTAMIC ACID

(-) Sites  (15, 15)

Asymmetric Unit (15, 15)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLY A:67 , PRO A:73 , MET A:74 , ILE A:80 , THR A:81 , TYR A:99 , MET A:101 , VAL A:156 , LEU A:173 , GLN A:175 , HIS A:176 , ILE A:182 , HOH A:1001 , HOH A:1002 , GLN B:174 , GLN B:186 , MG B:601 , HOH B:701BINDING SITE FOR RESIDUE HEM A 401
02AC2SOFTWARELYS A:56 , SER A:117 , ASN A:119 , HIS A:122 , SER A:124 , PRO B:194 , MAN B:605BINDING SITE FOR RESIDUE NAG A 402
03AC3SOFTWARESER A:195 , TRP A:199 , HOH A:1092 , HOH A:1132 , HOH A:1154 , ASP B:108 , HOH B:818BINDING SITE FOR RESIDUE MAN A 403
04AC4SOFTWAREPRO A:194 , THR A:197 , ASP A:198 , HOH A:1134BINDING SITE FOR RESIDUE MAN A 404
05AC5SOFTWARETHR A:204BINDING SITE FOR RESIDUE MAN A 405
06AC6SOFTWAREGLU A:110 , THR A:206 , HOH A:1087BINDING SITE FOR RESIDUE MAN A 406
07AC7SOFTWAREGLY A:149 , GLN A:186 , HOH A:1003 , HEM B:602 , HOH B:702 , HOH B:703BINDING SITE FOR RESIDUE MG A 407
08AC8SOFTWAREHEM A:401 , HOH A:1001 , HOH A:1002 , GLY B:149 , GLN B:186 , HOH B:701BINDING SITE FOR RESIDUE MG B 601
09AC9SOFTWAREGLN A:186 , MG A:407 , HOH A:1003 , GLY B:67 , PRO B:73 , MET B:74 , ILE B:80 , THR B:81 , TYR B:99 , MET B:101 , VAL B:156 , LEU B:173 , GLN B:174 , GLN B:175 , HIS B:176 , ILE B:182 , HOH B:702 , HOH B:703 , HOH B:809 , HOH B:858BINDING SITE FOR RESIDUE HEM B 602
10BC1SOFTWARELYS B:56 , ASN B:119BINDING SITE FOR RESIDUE NAG B 603
11BC2SOFTWARESER B:195 , ASP B:198BINDING SITE FOR RESIDUE MAN B 604
12BC3SOFTWAREPHE A:8 , TYR A:54 , LYS A:56 , NAG A:402 , THR B:197 , ASP B:198 , HOH B:834BINDING SITE FOR RESIDUE MAN B 605
13BC4SOFTWAREVAL B:114 , THR B:204BINDING SITE FOR RESIDUE MAN B 606
14BC5SOFTWAREGLU B:110 , THR B:112 , THR B:204 , THR B:206BINDING SITE FOR RESIDUE MAN B 607
15BC6SOFTWAREHOH B:737 , HOH B:770 , HOH B:796 , HOH B:818 , HOH B:864BINDING SITE FOR RESIDUE MG B 608

(-) SS Bonds  (4, 4)

Asymmetric Unit
No.Residues
1A:57 -A:66
2A:129 -A:132
3B:57 -B:66
4B:129 -B:132

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4QI3)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4QI3)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4QI3)

(-) Exons   (0, 0)

(no "Exon" information available for 4QI3)

(-) Sequences/Alignments

Asymmetric 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:208
                                                                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeee......eeeeeee..........eeeeee............eeeeeeee......eeeee.........eeeeeee..eeeeeeee.......ee.....eeeeeeeee...eeeeeeeee...eeee..eeee.hhhh.eeeeeeeee........hhhhh........eeeeeee.hhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4qi3 A   1 xNNVPNTFTDPDSGITFNTWGLDEDSPQTQGGFTFGVALPSDALTTDASEFIGYLKCARNDESGWCGISLGGPMTNSLLITAWPHEDTVYTSLRFATGYAMPDVYEGDAEITQVSSSVNSTHFSLIFRCKNCLQWSHGGSSGGASTSGGVLVLGWVQAFDDPGNPTCPEQITLQQHDNGMGIWGAQLNTDAASPSYTDWAAQATKTVT 208
                            |       10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200        
                            |                                                                                                                                                                                                               
                            1-PCA                                                                                                                                                                                                           


Chain B from PDB  Type:PROTEIN  Length:208
                                                                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeee......eeeeeee..........eeeeee............eeeeeeee.hhhh.eeeee.........eeeeeee..eeeeeeee.......ee.....eeeeeeeee...eeeeeeeee...eeee..eeee.hhhh.eeeeeeeee........hhhhh........eeeeeee.hhhhh..hhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4qi3 B   1 xNNVPNTFTDPDSGITFNTWGLDEDSPQTQGGFTFGVALPSDALTTDASEFIGYLKCARNDESGWCGISLGGPMTNSLLITAWPHEDTVYTSLRFATGYAMPDVYEGDAEITQVSSSVNSTHFSLIFRCKNCLQWSHGGSSGGASTSGGVLVLGWVQAFDDPGNPTCPEQITLQQHDNGMGIWGAQLNTDAASPSYTDWAAQATKTVT 208
                            |       10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200        
                            1-PCA
   Legend:   → Mismatch (orange background)
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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 4QI3)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4QI3)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4QI3)

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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        A9XK88_9PEZI | A9XK88: 4qi4 4qi5 4qi6

(-) Related Entries Specified in the PDB File

4qi4 4qi5 4qi6 4qi7 4qi8