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(-) Description

Title :  DFER_2879 PROTEIN OF UNKNOWN FUNCTION FROM DYADOBACTER FERMENTANS
 
Authors :  J. Osipiuk, X. Xu, H. Cui, S. Chin, J. Eisen, D. Wu, C. Kerfeld, A. Savchen A. M. Edwards, A. Joachimiak, Midwest Center For Structural Geno (Mcsg)
Date :  02 Apr 10  (Deposition) - 14 Apr 10  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.02
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,C  (1x)
Biol. Unit 2:  B,D  (1x)
Keywords :  Structural Genomics, Unknown Function, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Osipiuk, X. Xu, H. Cui, S. Chin, J. Eisen, D. Wu, C. Kerfeld, A. Savchenko, A. M. Edwards, A. Joachimiak
X-Ray Crystal Structure Of Dfer_2879 Protein Of Unknown Function From Dyadobacter Fermentans.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - UNCHARACTERIZED PROTEIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET15B MODIFIED
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: DFER_2879
    Organism Scientific: DYADOBACTER FERMENTANS
    Organism Taxid: 471854
    Strain: DSM 18053

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A C 
Biological Unit 2 (1x):  B D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 9)

Asymmetric Unit (2, 9)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2MSE8Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (2, 5)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2MSE4Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (1, 4)
No.NameCountTypeFull Name
1ACT-1Ligand/IonACETATE ION
2MSE4Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:52 , ASP A:72 , VAL A:73 , TYR A:76 , HOH A:145 , TYR B:104BINDING SITE FOR RESIDUE ACT A 301

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3MFN)

(-) 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:125
 aligned with C6W4J3_DYAFD | C6W4J3 from UniProtKB/TrEMBL  Length:133

    Alignment length:125
                                    18        28        38        48        58        68        78        88        98       108       118       128     
         C6W4J3_DYAFD     9 AQEAVIEAKRYLNNAKDILRDKGGKEDGFYQDSKYVKMAGHTAYSGVLFALDHYFGKKTKGRKDVDWYKSNLAQQDKKILNTFVSVYEQLHLVMAYDGVGDAEVVKLGFQRAEIIIDWVERRLAA 133
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhh.ee..ee.hhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhh.hhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------- Transcript
                 3mfn A   9 AQEAVIEAKRYLNNAKDILRDKGGKEDGFYQDSKYVKmAGHTAYSGVLFALDHYFGKKTKGRKDVDWYKSNLAQQDKKILNTFVSVYEQLHLVmAYDGVGDAEVVKLGFQRAEIIIDWVERRLAA 133
                                    18        28        38       |48        58        68        78        88        98   |   108       118       128     
                                                                46-MSE                                                 102-MSE                           


Chain B from PDB  Type:PROTEIN  Length:126
 aligned with C6W4J3_DYAFD | C6W4J3 from UniProtKB/TrEMBL  Length:133

    Alignment length:126
                                    16        26        36        46        56        66        76        86        96       106       116       126      
         C6W4J3_DYAFD     7 LSAQEAVIEAKRYLNNAKDILRDKGGKEDGFYQDSKYVKMAGHTAYSGVLFALDHYFGKKTKGRKDVDWYKSNLAQQDKKILNTFVSVYEQLHLVMAYDGVGDAEVVKLGFQRAEIIIDWVERRLA 132
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhh.ee..ee.hhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3mfn B   7 LSAQEAVIEAKRYLNNAKDILRDKGGKEDGFYQDSKYVKmAGHTAYSGVLFALDHYFGKKTKGRKDVDWYKSNLAQQDKKILNTFVSVYEQLHLVmAYDGVGDAEVVKLGFQRAEIIIDWVERRLA 132
                                    16        26        36        46        56        66        76        86        96     | 106       116       126      
                                                                  46-MSE                                                 102-MSE                          


Chain C from PDB  Type:PROTEIN  Length:125
 aligned with C6W4J3_DYAFD | C6W4J3 from UniProtKB/TrEMBL  Length:133

    Alignment length:125
                                    16        26        36        46        56        66        76        86        96       106       116       126     
         C6W4J3_DYAFD     7 LSAQEAVIEAKRYLNNAKDILRDKGGKEDGFYQDSKYVKMAGHTAYSGVLFALDHYFGKKTKGRKDVDWYKSNLAQQDKKILNTFVSVYEQLHLVMAYDGVGDAEVVKLGFQRAEIIIDWVERRL 131
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhh.ee..ee.hhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhh.hhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------- Transcript
                 3mfn C   7 LSAQEAVIEAKRYLNNAKDILRDKGGKEDGFYQDSKYVKmAGHTAYSGVLFALDHYFGKKTKGRKDVDWYKSNLAQQDKKILNTFVSVYEQLHLVmAYDGVGDAEVVKLGFQRAEIIIDWVERRL 131
                                    16        26        36        46        56        66        76        86        96     | 106       116       126     
                                                                  46-MSE                                                 102-MSE                         


Chain D from PDB  Type:PROTEIN  Length:120
 aligned with C6W4J3_DYAFD | C6W4J3 from UniProtKB/TrEMBL  Length:133

    Alignment length:126
                                    16        26        36        46        56        66        76        86        96       106       116       126      
         C6W4J3_DYAFD     7 LSAQEAVIEAKRYLNNAKDILRDKGGKEDGFYQDSKYVKMAGHTAYSGVLFALDHYFGKKTKGRKDVDWYKSNLAQQDKKILNTFVSVYEQLHLVMAYDGVGDAEVVKLGFQRAEIIIDWVERRLA 132
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhh.ee..ee.hhhhhhhhhhhhhhhhhhhhhhhhh------.hhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3mfn D   7 LSAQEAVIEAKRYLNNAKDILRDKGGKEDGFYQDSKYVKmAGHTAYSGVLFALDHYFG------KDVDWYKSNLAQQDKKILNTFVSVYEQLHLVmAYDGVGDAEVVKLGFQRAEIIIDWVERRLA 132
                                    16        26        36        46        56       | -    |   76        86        96     | 106       116       126      
                                                                  46-MSE            64     71                            102-MSE
   Legend:   → Mismatch (orange background)
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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 3MFN)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3MFN)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3MFN)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 3MFN)

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