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(-) Description

Title :  STRUCTURE OF THE METHANOFURAN/METHANOPTERIN BIOSYNTHETIC ENZYME MJ1099 FROM METHANOCALDOCOCCUS JANNASCHII WITH PRPP
 
Authors :  T. A. Bobik, E. J. Morales, D. Cascio, M. R. Sawaya, T. O. Yeates, M. E. Ras
Date :  14 Sep 14  (Deposition) - 12 Nov 14  (Release) - 07 Jan 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H,I
Biol. Unit 1:  A,C,D  (2x)
Biol. Unit 2:  B,E,F,G,H,I  (1x)
Keywords :  Methanopterin, Dihydromethanopterin Reductase, Flavin, Protein Cage, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. A. Bobik, E. J. Morales, A. Shin, D. Cascio, M. R. Sawaya, M. Arbing, T. O. Yeates, M. E. Rasche
Structure Of The Methanofuran/Methanopterin-Biosynthetic Enzyme Mj1099 From Methanocaldococcus Jannaschii.
Acta Crystallogr F Struct V. 70 1472 2014 Biol Commun
PubMed-ID: 25372812  |  Reference-DOI: 10.1107/S2053230X1402130X

(-) Compounds

Molecule 1 - UPF0264 PROTEIN MJ1099
    Chains: A, B, C, D, E, F, G, H, I
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET41A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: MJ1099
    Organism Scientific: METHANOCALDOCOCCUS JANNASCHII DSM 2661
    Organism Taxid: 243232
    Strain: ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440

 Structural Features

(-) Chains, Units

  123456789
Asymmetric Unit : ABCDEFGHI
Biological Unit 1 (2x): A CD     
Biological Unit 2 (1x):  B  EFGHI

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 6)

Asymmetric Unit (1, 6)
No.NameCountTypeFull Name
1PO46Ligand/IonPHOSPHATE ION
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1PO44Ligand/IonPHOSPHATE ION
Biological Unit 2 (1, 4)
No.NameCountTypeFull Name
1PO44Ligand/IonPHOSPHATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS B:27 , LYS B:155 , SER B:188 , ARG B:208 , GLY B:209 , ARG B:217 , HOH B:402 , HOH B:403 , HOH B:410BINDING SITE FOR RESIDUE PO4 B 301
2AC2SOFTWARELYS C:27 , LYS C:155 , GLY C:187 , SER C:188 , VAL C:207 , ARG C:208 , GLY C:209 , ARG C:217 , HOH C:416BINDING SITE FOR RESIDUE PO4 C 301
3AC3SOFTWARELYS D:27 , LYS D:155 , SER D:188 , ARG D:208 , GLY D:209 , ARG D:217 , HOH D:402 , HOH D:416BINDING SITE FOR RESIDUE PO4 D 301
4AC4SOFTWARELYS E:27 , LYS E:155 , SER E:188 , ARG E:208 , GLY E:209 , HOH E:413BINDING SITE FOR RESIDUE PO4 E 301
5AC5SOFTWARELYS F:27 , LYS F:155 , GLY F:187 , SER F:188 , ARG F:208 , GLY F:209BINDING SITE FOR RESIDUE PO4 F 301
6AC6SOFTWARELYS I:27 , LYS I:155 , GLY I:187 , SER I:188 , ARG I:208 , GLY I:209BINDING SITE FOR RESIDUE PO4 I 301

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4RC1)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4RC1)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4RC1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4RC1)

(-) Exons   (0, 0)

(no "Exon" information available for 4RC1)

(-) 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:241
                                                                                                                                                                                                                                                                                 
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeee...hhhhhhhhhhhh..eeee.hhhhh.....hhhhhhhhhhhh....eeeeeeeee..hhhhhhhhhhhhhhh...eeeeee....hhhhhhhhhhhhhhhhhhhh...eeeeeee.hhhhh...hhhhhhhhhhhhh..eeeee.......hhhhhhhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhh...eeeehhhhh..........hhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rc1 A  -5 HHHHHHMILLVSPIDVEEAKEAIAGGADIIDVKNPKEGSLGANFPWMIKAIREVTPKDLLVSATVGDVPYKPGTISLAAVGAAISGADYIKVGLYGVKNYYQAVELMKNVVRAVKDIDENKIVVAAGYADAYRVGAVEPLIVPKIARDAGCDVAMLDTAIKDGKTLFDFQSKEILAEFVDEAHSYGLKCALAGSIKKEHIPILKEIGTDIVGVRGAACKGGDRNNGRIDRELVKELKELCK 235
                                     4        14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234 


Chain B from PDB  Type:PROTEIN  Length:242
                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeee...hhhhhhhhhhhh..eeee.hhhhh.....hhhhhhhhhhhh....eeeeeeeee..hhhhhhhhhhhhhhh...eeeeee....hhhhhhhhhhhhhhhhhhhh...eeeeeee.hhhhh...hhhhhhhhhhhhh..eeeee.......hhhhhhhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhh...eeeehhhhh..........hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rc1 B  -6 MHHHHHHMILLVSPIDVEEAKEAIAGGADIIDVKNPKEGSLGANFPWMIKAIREVTPKDLLVSATVGDVPYKPGTISLAAVGAAISGADYIKVGLYGVKNYYQAVELMKNVVRAVKDIDENKIVVAAGYADAYRVGAVEPLIVPKIARDAGCDVAMLDTAIKDGKTLFDFQSKEILAEFVDEAHSYGLKCALAGSIKKEHIPILKEIGTDIVGVRGAACKGGDRNNGRIDRELVKELKELCK 235
                                     3        13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233  


Chain C from PDB  Type:PROTEIN  Length:236
                                                                                                                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...hhhhhhhhhhhh..eeee.hhhhh.....hhhhhhhhhhhh....eeeeeeeee..hhhhhhhhhhhhhhh...eeeeee....hhhhhhhhhhhhhhhhhhhh...eeeeeee.hhhhh...hhhhhhhhhhhhh..eeeee.......hhhhhhhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhh...eeeehhhhh..........hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rc1 C   0 HMILLVSPIDVEEAKEAIAGGADIIDVKNPKEGSLGANFPWMIKAIREVTPKDLLVSATVGDVPYKPGTISLAAVGAAISGADYIKVGLYGVKNYYQAVELMKNVVRAVKDIDENKIVVAAGYADAYRVGAVEPLIVPKIARDAGCDVAMLDTAIKDGKTLFDFQSKEILAEFVDEAHSYGLKCALAGSIKKEHIPILKEIGTDIVGVRGAACKGGDRNNGRIDRELVKELKELCK 235
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229      


Chain D from PDB  Type:PROTEIN  Length:242
                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeee...hhhhhhhhhhh...eeee.hhhhh.....hhhhhhhhhhhh....eeeeeeeee..hhhhhhhhhhhhhhh...eeeeee....hhhhhhhhhhhhhhhhhh.....eeeeeee.hhhhh...hhhhhhhhhhhhh..eeeee.......hhhhhhhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhh...eeeehhhhh..........hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rc1 D  -6 MHHHHHHMILLVSPIDVEEAKEAIAGGADIIDVKNPKEGSLGANFPWMIKAIREVTPKDLLVSATVGDVPYKPGTISLAAVGAAISGADYIKVGLYGVKNYYQAVELMKNVVRAVKDIDENKIVVAAGYADAYRVGAVEPLIVPKIARDAGCDVAMLDTAIKDGKTLFDFQSKEILAEFVDEAHSYGLKCALAGSIKKEHIPILKEIGTDIVGVRGAACKGGDRNNGRIDRELVKELKELCK 235
                                     3        13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233  


Chain E from PDB  Type:PROTEIN  Length:236
                                                                                                                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...hhhhhhhhhhhh..eeee.hhhhh.....hhhhhhhhhhhh....eeeeeeeee..hhhhhhhhhhhhhhh...eeeeee....hhhhhhhhhhhhhhhhhhhh...eeeeeee.hhhhh...hhhhhhhhhhhhh..eeeee.......hhhhhhhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhh...eeeehhhhh..........hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rc1 E   0 HMILLVSPIDVEEAKEAIAGGADIIDVKNPKEGSLGANFPWMIKAIREVTPKDLLVSATVGDVPYKPGTISLAAVGAAISGADYIKVGLYGVKNYYQAVELMKNVVRAVKDIDENKIVVAAGYADAYRVGAVEPLIVPKIARDAGCDVAMLDTAIKDGKTLFDFQSKEILAEFVDEAHSYGLKCALAGSIKKEHIPILKEIGTDIVGVRGAACKGGDRNNGRIDRELVKELKELCK 235
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229      


Chain F from PDB  Type:PROTEIN  Length:238
                                                                                                                                                                                                                                                                              
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeee...hhhhhhhhhhhh..eeee.hhhhh.....hhhhhhhhhhhh....eeeeeeeee..hhhhhhhhhhhhhhh...eeeeee....hhhhhhhhhhhhhhhhhhhh...eeeeeee.hhhhh...hhhhhhhhhhhhh..eeeee.......hhhhhhhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhh...eeeehhhhh..........hhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rc1 F  -2 HHHMILLVSPIDVEEAKEAIAGGADIIDVKNPKEGSLGANFPWMIKAIREVTPKDLLVSATVGDVPYKPGTISLAAVGAAISGADYIKVGLYGVKNYYQAVELMKNVVRAVKDIDENKIVVAAGYADAYRVGAVEPLIVPKIARDAGCDVAMLDTAIKDGKTLFDFQSKEILAEFVDEAHSYGLKCALAGSIKKEHIPILKEIGTDIVGVRGAACKGGDRNNGRIDRELVKELKELCK 235
                                     7        17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227        


Chain G from PDB  Type:PROTEIN  Length:236
                                                                                                                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...hhhhhhhhhhh...eeee.hhhhh.....hhhhhhhhhhhh....eeeeeeeee..hhhhhhhhhhhhhhh...eeeeee....hhhhhhhhhhhhhhhhhhhh...eeeeeee.hhhhh...hhhhhhhhhhhhh..eeeee.......hhhhhhhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhh...eeeehhhhh..........hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rc1 G   0 HMILLVSPIDVEEAKEAIAGGADIIDVKNPKEGSLGANFPWMIKAIREVTPKDLLVSATVGDVPYKPGTISLAAVGAAISGADYIKVGLYGVKNYYQAVELMKNVVRAVKDIDENKIVVAAGYADAYRVGAVEPLIVPKIARDAGCDVAMLDTAIKDGKTLFDFQSKEILAEFVDEAHSYGLKCALAGSIKKEHIPILKEIGTDIVGVRGAACKGGDRNNGRIDRELVKELKELCK 235
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229      


Chain H from PDB  Type:PROTEIN  Length:229
                                                                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...hhhhhhhhhhhh..eeee.hhhhh.....hhhhhhhhhhhh....eeeeeeeee..hhhhhhhhhhhhhhh...eeeeee....hhhhhhhhhhhhhhhhhhhh...eeeeeee.hhhhh...hhhhhhhhhhhhh..eeeee.......hhhhhhhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhh...eeeehhhhh...hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rc1 H   0 HMILLVSPIDVEEAKEAIAGGADIIDVKNPKEGSLGANFPWMIKAIREVTPKDLLVSATVGDVPYKPGTISLAAVGAAISGADYIKVGLYGVKNYYQAVELMKNVVRAVKDIDENKIVVAAGYADAYRVGAVEPLIVPKIARDAGCDVAMLDTAIKDGKTLFDFQSKEILAEFVDEAHSYGLKCALAGSIKKEHIPILKEIGTDIVGVRGAACGRIDRELVKELKELCK 235
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209  ||   226         
                                                                                                                                                                                                                                              212|               
                                                                                                                                                                                                                                               220               


Chain I from PDB  Type:PROTEIN  Length:236
                                                                                                                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...hhhhhhhhhhh...eeee.hhhhh.....hhhhhhhhhhhh....eeeeeeeee..hhhhhhhhhhhhhhh...eeeeee....hhhhhhhhhhhhhhhhhh.....eeeeeee.hhhhh...hhhhhhhhhhhhh..eeeee.......hhhhhhhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhhh..eeee...............hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rc1 I   0 HMILLVSPIDVEEAKEAIAGGADIIDVKNPKEGSLGANFPWMIKAIREVTPKDLLVSATVGDVPYKPGTISLAAVGAAISGADYIKVGLYGVKNYYQAVELMKNVVRAVKDIDENKIVVAAGYADAYRVGAVEPLIVPKIARDAGCDVAMLDTAIKDGKTLFDFQSKEILAEFVDEAHSYGLKCALAGSIKKEHIPILKEIGTDIVGVRGAACKGGDRNNGRIDRELVKELKELCK 235
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229
   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 4RC1)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4RC1)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4RC1)

(-) Gene Ontology  (5, 5)

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 Related Entries

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

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        MFNB_METJA | Q58499: 4u9p

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