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(-) Description

Title :  SEMET-LABELLED HCGC FROM METHANOCALDOCOCCUS JANNASCHII IN SPACE GROUP P212121
 
Authors :  T. Fujishiro, U. Ermler, S. Shima
Date :  09 Aug 15  (Deposition) - 20 Jul 16  (Release) - 10 Aug 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.90
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  E,F  (1x)
Biol. Unit 4:  G,H  (1x)
Keywords :  Rossmann-Like Fold, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Fujishiro, L. Bai, T. Xu, X. Xie, M. Schick, J. Kahnt, M. Rother, X. Hu U. Ermler, S. Shima
Identification Of Hcgc As A Sam-Dependent Pyridinol Methyltransferase In [Fe]-Hydrogenase Cofactor Biosynthesis
Angew. Chem. Int. Ed. Engl. V. 55 9648 2016
PubMed-ID: 27391308  |  Reference-DOI: 10.1002/ANIE.201604352

(-) Compounds

Molecule 1 - UNCHARACTERIZED PROTEIN MJ0489
    Chains: A, B, C, D, E, F, G, H
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET24B
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: ROSSMANN-LIKE DOMAIN, RESIDUES 2-268
    Gene: MJ0489
    Organism Scientific: METHANOCALDOCOCCUS JANNASCHII
    Organism Taxid: 2190
    Synonym: HCGC

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDEFGH
Biological Unit 1 (1x): AB      
Biological Unit 2 (1x):   CD    
Biological Unit 3 (1x):     EF  
Biological Unit 4 (1x):       GH

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 24)

Asymmetric Unit (1, 24)
No.NameCountTypeFull Name
1MSE24Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 6)
No.NameCountTypeFull Name
1MSE6Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (1, 6)
No.NameCountTypeFull Name
1MSE6Mod. Amino AcidSELENOMETHIONINE
Biological Unit 3 (1, 6)
No.NameCountTypeFull Name
1MSE6Mod. Amino AcidSELENOMETHIONINE
Biological Unit 4 (1, 6)
No.NameCountTypeFull Name
1MSE6Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 5D4T)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5D4T)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5D4T)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5D4T)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5D4T)

(-) Exons   (0, 0)

(no "Exon" information available for 5D4T)

(-) 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:243
                                                                                                                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...hhhhhhhhhhhhhhhhhhhhhh......eeee.hhhhhhhhhhhhh.....eeeee..eeeehhhhhhhhhh......eeee.......hhhhhh.....eeeee......hhhhhhhhhhhhhhhhhh...eeeeeeeee........hhhhhhhhhhhhhhhhhhh...eeeeee...hhhhhhhh..hhhhhhhhhh...eeeee...hhhhhhhhhhhhhhheeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5d4t A  13 mVKTIDTKTRVVDVTNEIAKKKYQAIRDFLEGEEFKEVVIFGVYLWGNYTAQmLSKYADKVYLVDIIKFLNLNEFKLKFIRGEVNPDLIVDLTGLGGIEPEFLAKFNPKVFIVEDPKGVFDVDIYEADNTYKRTAPFIEKAKVGVLKTYRKARVSKTSGTmTLTIDTIVDASREITSLDGVLYAIPNLRYYEGILFHENDIHKFLSEISQPAITISTLNDVLDEAEEILSNNINLIYSFVEEL 268
                            |       22        32        42        52        62  |     72     || 95       105       115       125       135       145       155       165       175       185|      195       205       215       225       235       245       255       265   
                            |                                                  65-MSE       78|                                                                                           186-MSE                                                                              
                           13-MSE                                                            92                                                                                                                                                                                


Chain B from PDB  Type:PROTEIN  Length:246
                                                                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeee...hhhhhhhhhhhhhhhhhhhhhh......eeee.hhhhhhhhhhhhh.....eeeee....eeeeehhhhhhhhhh......eeee.......hhhhhh.....eeeee......hhhhhhhhhhhhhhhhhh...eeeeeeeee........hhhhhhhhhhhhhhhhhhh...eeeeee...hhhhhhhh..hhhhhhhhhh...eeeee...hhhhhhhhhhhhhhheeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5d4t B  13 mVKTIDTKTRVVDVTNEIAKKKYQAIRDFLEGEEFKEVVIFGVYLWGNYTAQmLSKYADKVYLVDINNSIKFLNLNEFKLKFIRGEVNPDLIVDLTGLGGIEPEFLAKFNPKVFIVEDPKGVFDVDIYEADNTYKRTAPFIEKAKVGVLKTYRKARVSKTSGTmTLTIDTIVDASREITSLDGVLYAIPNLRYYEGILFHENDIHKFLSEISQPAITISTLNDVLDEAEEILSNNINLIYSFVEEL 268
                            |       22        32        42        52        62  |     72     || 92       102       112       122       132       142       152       162       172       182   |   192       202       212       222       232       242       252       262      
                           13-MSE                                              65-MSE       78|                                                                                              186-MSE                                                                              
                                                                                             89                                                                                                                                                                                   


Chain C from PDB  Type:PROTEIN  Length:243
                                                                                                                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...hhhhhhhhhhhhhhhhhhhhh.......eeee.hhhhhhhhhhhhhhhh..eeeee..eeeehhhhhhhhhh......eeee.......hhhhhh.....eeeee......hhhhhhhhhhhhhhhhhh...eeeeeeeee........hhhhhhhhhhhhhhhhhhh...eeeeee...hhhhhhhh..hhhhhhhhhh...eeeee...hhhhhhhhhhhhhhheeeeeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5d4t C  13 mVKTIDTKTRVVDVTNEIAKKKYQAIRDFLEGEEFKEVVIFGVYLWGNYTAQmLSKYADKVYLVDIIKFLNLNEFKLKFIRGEVNPDLIVDLTGLGGIEPEFLAKFNPKVFIVEDPKGVFDVDIYEADNTYKRTAPFIEKAKVGVLKTYRKARVSKTSGTmTLTIDTIVDASREITSLDGVLYAIPNLRYYEGILFHENDIHKFLSEISQPAITISTLNDVLDEAEEILSNNINLIYSFVEEL 268
                            |       22        32        42        52        62  |     72     || 95       105       115       125       135       145       155       165       175       185|      195       205       215       225       235       245       255       265   
                           13-MSE                                              65-MSE       78|                                                                                           186-MSE                                                                              
                                                                                             92                                                                                                                                                                                


Chain D from PDB  Type:PROTEIN  Length:244
                                                                                                                                                                                                                                                                                    
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...hhhhhhhhhhhhhhhhhhhhhh.....eeeee.hhhhhhhhhhhhhhhh.eeeeee..eeeeehhhhhhhhhh......eeee.......hhhhhh.....eeeee......hhhhhhhhhhhhhhhhhh...eeeeeeeee........hhhhhhhhhhhhhhhhhhh...eeeeee...hhhhhhhh..hhhhhhhhhh...eeeee...hhhhhhhhhhhhhhheeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5d4t D  13 mVKTIDTKTRVVDVTNEIAKKKYQAIRDFLEGEEFKEVVIFGVYLWGNYTAQmLSKYADKVYLVDISIKFLNLNEFKLKFIRGEVNPDLIVDLTGLGGIEPEFLAKFNPKVFIVEDPKGVFDVDIYEADNTYKRTAPFIEKAKVGVLKTYRKARVSKTSGTmTLTIDTIVDASREITSLDGVLYAIPNLRYYEGILFHENDIHKFLSEISQPAITISTLNDVLDEAEEILSNNINLIYSFVEEL 268
                            |       22        32        42        52        62  |     72     || 94       104       114       124       134       144       154       164       174       184 |     194       204       214       224       234       244       254       264    
                           13-MSE                                              65-MSE       78|                                                                                            186-MSE                                                                              
                                                                                             91                                                                                                                                                                                 


Chain E from PDB  Type:PROTEIN  Length:243
                                                                                                                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...hhhhhhhhhhhhhhhhhhhhh......eeeee.hhhhhhhhhhhhh....eeeeee..eeeehhhhhhhhhh......eeee.......hhhhhh.....eeeee......hhhhhhhhhhhhhhhhhh...eeeeeeeee........hhhhhhhhhhhhhhhhhhh...eeeeee...hhhhhhhh..hhhhhhhhhh...eeeee...hhhhhhhhhhhhhhheeeeeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5d4t E  13 mVKTIDTKTRVVDVTNEIAKKKYQAIRDFLEGEEFKEVVIFGVYLWGNYTAQmLSKYADKVYLVDIIKFLNLNEFKLKFIRGEVNPDLIVDLTGLGGIEPEFLAKFNPKVFIVEDPKGVFDVDIYEADNTYKRTAPFIEKAKVGVLKTYRKARVSKTSGTmTLTIDTIVDASREITSLDGVLYAIPNLRYYEGILFHENDIHKFLSEISQPAITISTLNDVLDEAEEILSNNINLIYSFVEEL 268
                            |       22        32        42        52        62  |     72     || 95       105       115       125       135       145       155       165       175       185|      195       205       215       225       235       245       255       265   
                           13-MSE                                              65-MSE       78|                                                                                           186-MSE                                                                              
                                                                                             92                                                                                                                                                                                


Chain F from PDB  Type:PROTEIN  Length:244
                                                                                                                                                                                                                                                                                    
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...hhhhhhhhhhhhhhhhhhhhhh......eeee.hhhhhhhhhhhhhhhh..eeeee..eeeeehhhhhhhhhh......eeee.......hhhhhh.....eeeee......hhhhhhhhhhhhhhhhhh...eeeeeeeee........hhhhhhhhhhhhhhhhhhh...eeeeee...hhhhhhhh..hhhhhhhhhh...eeeee...hhhhhhhhhhhhhhheeeeeeee Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5d4t F  13 mVKTIDTKTRVVDVTNEIAKKKYQAIRDFLEGEEFKEVVIFGVYLWGNYTAQmLSKYADKVYLVDISIKFLNLNEFKLKFIRGEVNPDLIVDLTGLGGIEPEFLAKFNPKVFIVEDPKGVFDVDIYEADNTYKRTAPFIEKAKVGVLKTYRKARVSKTSGTmTLTIDTIVDASREITSLDGVLYAIPNLRYYEGILFHENDIHKFLSEISQPAITISTLNDVLDEAEEILSNNINLIYSFVEEL 268
                            |       22        32        42        52        62  |     72     || 94       104       114       124       134       144       154       164       174       184 |     194       204       214       224       234       244       254       264    
                           13-MSE                                              65-MSE       78|                                                                                            186-MSE                                                                              
                                                                                             91                                                                                                                                                                                 


Chain G from PDB  Type:PROTEIN  Length:244
                                                                                                                                                                                                                                                                                    
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...hhhhhhhhhhhhhhhhhhhhhh.....eeeee.hhhhhhhhhhhhhhhh.eeeeee..eeeeehhhhhhhhhh......eeee.......hhhhhh.....eeeee......hhhhhhhhhhhhhhhhhh...eeeeeeeee........hhhhhhhhhhhhhhhhhhh...eeeeee...hhhhhhhh..hhhhhhhhhh...eeeee...hhhhhhhhhhhhhhheeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5d4t G  13 mVKTIDTKTRVVDVTNEIAKKKYQAIRDFLEGEEFKEVVIFGVYLWGNYTAQmLSKYADKVYLVDISIKFLNLNEFKLKFIRGEVNPDLIVDLTGLGGIEPEFLAKFNPKVFIVEDPKGVFDVDIYEADNTYKRTAPFIEKAKVGVLKTYRKARVSKTSGTmTLTIDTIVDASREITSLDGVLYAIPNLRYYEGILFHENDIHKFLSEISQPAITISTLNDVLDEAEEILSNNINLIYSFVEEL 268
                            |       22        32        42        52        62  |     72     || 94       104       114       124       134       144       154       164       174       184 |     194       204       214       224       234       244       254       264    
                           13-MSE                                              65-MSE       78|                                                                                            186-MSE                                                                              
                                                                                             91                                                                                                                                                                                 


Chain H from PDB  Type:PROTEIN  Length:247
                                                                                                                                                                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...hhhhhhhhhhhhhhhhhhhhh.......eeee.hhhhhhhhhhhhhhhh..eeeee.....eeeeehhhhhhhhhh......eeee.......hhhhhh.....eeeee......hhhhhhhhhhhhhhhhhh...eeeeeeeee........hhhhhhhhhhhhhhhhhhh...eeeeee...hhhhhhhh..hhhhhhhhhh...eeeee...hhhhhhhhhhhhhhheeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5d4t H  13 mVKTIDTKTRVVDVTNEIAKKKYQAIRDFLEGEEFKEVVIFGVYLWGNYTAQmLSKYADKVYLVDINNNSIKFLNLNEFKLKFIRGEVNPDLIVDLTGLGGIEPEFLAKFNPKVFIVEDPKGVFDVDIYEADNTYKRTAPFIEKAKVGVLKTYRKARVSKTSGTmTLTIDTIVDASREITSLDGVLYAIPNLRYYEGILFHENDIHKFLSEISQPAITISTLNDVLDEAEEILSNNINLIYSFVEEL 268
                            |       22        32        42        52        62  |     72     || 91       101       111       121       131       141       151       161       171       181    |  191       201       211       221       231       241       251       261       
                           13-MSE                                              65-MSE       78|                                                                                               186-MSE                                                                              
                                                                                             88
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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 5D4T)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5D4T)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5D4T)

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  5d4t
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  Y489_METJA | Q57913
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 Related Entries

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

UniProtKB/Swiss-Prot
        Y489_METJA | Q57913: 5d4u 5d4v 5d5o 5d5t

(-) Related Entries Specified in the PDB File

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