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(-) Description

Title :  SEMET-LABELLED HCGC FROM METHANOCALDOCOCCUS JANNASCHII IN P1 SPACE GROUP
 
Authors :  T. Fujishiro, U. Ermler, S. Shima
Date :  11 Aug 15  (Deposition) - 20 Jul 16  (Release) - 10 Aug 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (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
    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: 243232
    Synonym: HCGC

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 12)

Asymmetric Unit (1, 12)
No.NameCountTypeFull Name
1MSE12Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 6)
No.NameCountTypeFull Name
1MSE6Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (1, 6)
No.NameCountTypeFull Name
1MSE6Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 5D5T)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5D5T)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5D5T)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5D5T)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5D5T)

(-) Exons   (0, 0)

(no "Exon" information available for 5D5T)

(-) 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:244
                                                                                                                                                                                                                                                                                    
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...hhhhhhhhhhhhhhhhhhhhhh.....eeeee.hhhhhhhhhhhhhhhh.eeeeee...eeeehhhhhhhhhh......eeee.......hhhhhh.....eeeee......hhhhhhhhhhhhhhhhhh...eeeeeeeee........hhhhhhhhhhhhhhhhhhh...eeeeee...hhhhhhhh..hhhhhhhhhh...eeeee...hhhhhhhhhhhhhhheeeeeeee Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5d5t A  13 mVKTIDTKTRVVDVTNEIAKKKYQAIRDFLEGEEFKEVVIFGVYLWGNYTAQmLSKYADKVYLVDIHIKFLNLNEFKLKFIRGEVNPDLIVDLTGLGGIEPEFLAKFNPKVFIVEDPKGVFDVDIYEADNTYKRTAPFIEKAKVGVLKTYRKARVSKTSGTmTLTIDTIVDASREITSLDGVLYAIPNLRYYEGILFHENDIHKFLSEISQPAITISTLNDVLDEAEEILSNNINLIYSFVEEL 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    
                            |                                                  65-MSE        79|                                                                                           186-MSE                                                                              
                           13-MSE                                                             92                                                                                                                                                                                


Chain B from PDB  Type:PROTEIN  Length:244
                                                                                                                                                                                                                                                                                    
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...hhhhhhhhhhhhhhhhhhhhhh...eeeeeee.hhhhhhhhhhhhh..eeeeeeee...eeeehhhhhhhhhh......eeee.......hhhhhh.....eeeee......hhhhhhhhhhhhhhhhhh...eeeeeeeee........hhhhhhhhhhhhhhhhhhh...eeeeee...hhhhhhhh..hhhhhhhhhh...eeeee...hhhhhhhhhhhhhhheeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5d5t B  13 mVKTIDTKTRVVDVTNEIAKKKYQAIRDFLEGEEFKEVVIFGVYLWGNYTAQmLSKYADKVYLVDIHIKFLNLNEFKLKFIRGEVNPDLIVDLTGLGGIEPEFLAKFNPKVFIVEDPKGVFDVDIYEADNTYKRTAPFIEKAKVGVLKTYRKARVSKTSGTmTLTIDTIVDASREITSLDGVLYAIPNLRYYEGILFHENDIHKFLSEISQPAITISTLNDVLDEAEEILSNNINLIYSFVEEL 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        79|                                                                                           186-MSE                                                                              
                                                                                              92                                                                                                                                                                                


Chain C from PDB  Type:PROTEIN  Length:244
                                                                                                                                                                                                                                                                                    
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...hhhhhhhhhhhhhhhhhhhhhh...eeeeeee.hhhhhhhhhhhhh..eeeeeeee...eeeehhhhhhhhhh......eeee.......hhhhhh.....eeeee......hhhhhhhhhhhhhhh......eeeeeeeee........hhhhhhhhhhhhhhhhhhh...eeeeee...hhhhhhhh..hhhhhhhhhh...eeeee...hhhhhhhhhhhhhhheeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5d5t C  13 mVKTIDTKTRVVDVTNEIAKKKYQAIRDFLEGEEFKEVVIFGVYLWGNYTAQmLSKYADKVYLVDIHIKFLNLNEFKLKFIRGEVNPDLIVDLTGLGGIEPEFLAKFNPKVFIVEDPKGVFDVDIYEADNTYKRTAPFIEKAKVGVLKTYRKARVSKTSGTmTLTIDTIVDASREITSLDGVLYAIPNLRYYEGILFHENDIHKFLSEISQPAITISTLNDVLDEAEEILSNNINLIYSFVEEL 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        79|                                                                                           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......eeee.hhhhhhhhhhhhhhhh..eeeee...eeeehhhhhhhhhh......eeee.......hhhhhh.....eeeee......hhhhhhhhhhhhhhh......eeeeeeeee........hhhhhhhhhhhhhhhhhhh...eeeeee...hhhhhhhh..hhhhhhhhhh...eeeee...hhhhhhhhhhhhhhheeeeeeee Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5d5t D  13 mVKTIDTKTRVVDVTNEIAKKKYQAIRDFLEGEEFKEVVIFGVYLWGNYTAQmLSKYADKVYLVDIHIKFLNLNEFKLKFIRGEVNPDLIVDLTGLGGIEPEFLAKFNPKVFIVEDPKGVFDVDIYEADNTYKRTAPFIEKAKVGVLKTYRKARVSKTSGTmTLTIDTIVDASREITSLDGVLYAIPNLRYYEGILFHENDIHKFLSEISQPAITISTLNDVLDEAEEILSNNINLIYSFVEEL 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        79|                                                                                           186-MSE                                                                              
                                                                                              92
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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 5D5T)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5D5T)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5D5T)

(-) Gene Ontology  (0, 0)

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 Related Entries

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

UniProtKB/Swiss-Prot
        Y489_METJA | Q57913: 5d4t 5d4u 5d4v 5d5o

(-) Related Entries Specified in the PDB File

5d4t 5d4u 5d4v 5d5o