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(-) Description

Title :  X-RAY STRUCTURE OF CELLULOMONAS PARAHOMINIS L-RIBOSE ISOMERASE WITH L-RIBOSE
 
Authors :  Y. Terami, H. Yoshida, G. Takata, S. Kamitori
Date :  13 Jun 14  (Deposition) - 29 Apr 15  (Release) - 29 Apr 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.95
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Cupin-Type Beta-Barrel, Isomerase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Terami, H. Yoshida, K. Uechi, K. Morimoto, G. Takata, S. Kamitori
Essentiality Of Tetramer Formation Of Cellulomonas Parahominis L-Ribose Isomerase Involved In Novel L-Ribose Metabolic Pathway.
Appl. Microbiol. Biotechnol. 2015
PubMed-ID: 25661811  |  Reference-DOI: 10.1007/S00253-015-6417-4

(-) Compounds

Molecule 1 - L-RIBOSE ISOMERASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PQE30
    Expression System Strain: JM109
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Scientific: CELLULOMONAS PARAHOMINIS
    Organism Taxid: 285079

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 6)

Asymmetric Unit (3, 6)
No.NameCountTypeFull Name
10MK3Ligand/IonL-RIBOPYRANOSE
2MN2Ligand/IonMANGANESE (II) ION
3ROR1Ligand/IonL-RIBOSE
Biological Unit 1 (2, 8)
No.NameCountTypeFull Name
10MK6Ligand/IonL-RIBOPYRANOSE
2MN-1Ligand/IonMANGANESE (II) ION
3ROR2Ligand/IonL-RIBOSE

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:106 , HIS A:108 , GLU A:113 , HIS A:188 , 0MK A:402BINDING SITE FOR RESIDUE MN A 401
2AC2SOFTWAREILE A:65 , LYS A:93 , CYS A:103 , HIS A:106 , LYS A:111 , GLU A:113 , GLU A:204 , GLU A:211 , ARG A:243 , MN A:401BINDING SITE FOR RESIDUE 0MK A 402
3AC3SOFTWAREHIS A:52 , SER A:56 , HOH A:507 , ASP B:12BINDING SITE FOR RESIDUE 0MK A 403
4AC4SOFTWAREHIS B:106 , HIS B:108 , GLU B:113 , HIS B:188 , ROR B:402BINDING SITE FOR RESIDUE MN B 401
5AC5SOFTWAREPHE B:42 , LYS B:93 , CYS B:103 , HIS B:106 , HIS B:108 , LYS B:111 , GLU B:113 , PHE B:190 , GLU B:204 , GLU B:211 , ARG B:243 , MN B:401BINDING SITE FOR RESIDUE ROR B 402
6AC6SOFTWAREASP A:136 , TRP B:150 , TYR B:164 , ALA B:165 , THR B:168BINDING SITE FOR RESIDUE 0MK B 403

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3WW1)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3WW1)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3WW1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3WW1)

(-) Exons   (0, 0)

(no "Exon" information available for 3WW1)

(-) 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:242
                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eehhhhhhhhhhhhhhhhhh....hhhhh....eee.hhhhhhhhhhh........eeeeeeeeee......hhhhhhhhhhh.eeeeeeee....eeeeee.....eeeeeee.eeeeee.................................hhhhhh...eeeeee.....eee.....eeee........eeeeeee..........hhhhh.....ee...hhhhhh....ee Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ww1 A   2 TRTAISRREYDEWLSEAASLARALRYPVTPEMVNDSAGIVFGDDQYEAFAHGLWSREPYEVMVILESLNEPAVDGLPAAGAAHAEYSGLCDKLMIVHPGKFCPPHFHQRKTESYEVVLGEMEVFYAPEPVTVGDDDVLSFSPMPEGSPWPEGVALPAGREDSYAGLTSYVRLRAGDPKFVMHRKHLHAFRCPADSPVPLVVREVSTYSHEPTEAPLPQWRGLHDNTFVAEAANSGRLATAIA 249
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211  ||   227       237       247  
                                                                                                                                                                                                                                              214|                            
                                                                                                                                                                                                                                               221                            


Chain B from PDB  Type:PROTEIN  Length:242
                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eehhhhhhhhhhhhhhhhhh....hhhhh....eee.hhhhhhhhhhh........eeeeeeeeee......hhhhhhhhhhh.eeeeeeee....eeeeee.....eeeeeee.eeeeee.................................hhhhhh...eeeeee.....eee.....eeee........eeeeeee..........hhhhh.....ee.hhhhhhh.....ee Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ww1 B   2 TRTAISRREYDEWLSEAASLARALRYPVTPEMVNDSAGIVFGDDQYEAFAHGLWSREPYEVMVILESLNEPAVDGLPAAGAAHAEYSGLCDKLMIVHPGKFCPPHFHQRKTESYEVVLGEMEVFYAPEPVTVGDDDVLSFSPMPEGSPWPEGVALPAGREDSYAGLTSYVRLRAGDPKFVMHRKHLHAFRCPADSPVPLVVREVSTYSHEPTEAPLPQWRGLHDNTFVAEAANSGRLATAIA 249
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211  ||   227       237       247  
                                                                                                                                                                                                                                              214|                            
                                                                                                                                                                                                                                               221
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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 3WW1)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3WW1)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3WW1)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/TrEMBL
        L0N3Y0_9CELL | L0N3Y0: 3ww2 3ww3 3ww4

(-) Related Entries Specified in the PDB File

3ww2 3ww3 3ww4