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(-) Description

Title :  CRYSTAL STRUCTURE OF A RMLC-LIKE CUPIN (SFRI_3105) FROM SHEWANELLA FRIGIDIMARINA NCIMB 400 AT 1.90 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  05 Apr 07  (Deposition) - 17 Apr 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Cupin Domain, Cupin 2 Conserved Barrel Domain Protein, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Cupin 2 Conserved Barrel Domain Protei (Yp_751781. 1) From Shewanella Frigidimarina Ncimb 400 At 1. 90 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - CUPIN 2, CONSERVED BARREL DOMAIN PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: SPEEDET
    Expression System Strain: HK100
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: YP_751781.1, SFRI_3105
    Organism Scientific: SHEWANELLA FRIGIDIMARINA
    Organism Taxid: 318167
    Strain: NCIMB 400

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 11)

Asymmetric/Biological Unit (2, 11)
No.NameCountTypeFull Name
1EDO5Ligand/Ion1,2-ETHANEDIOL
2MSE6Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA B:50 , HIS B:51 , HIS B:53 , VAL B:83 , PRO B:84 , PRO B:85 , HIS B:86 , VAL B:87 , HIS B:89BINDING SITE FOR RESIDUE EDO B 116
2AC2SOFTWAREGLN B:55 , PHE B:81 , LEU B:99 , ASP B:101BINDING SITE FOR RESIDUE EDO B 117
3AC3SOFTWAREHOH A:145 , GLU B:5 , HIS B:6BINDING SITE FOR RESIDUE EDO B 118
4AC4SOFTWAREPHE A:40 , GLN A:55 , SER A:57 , PHE A:81 , LEU A:99 , ASP A:101BINDING SITE FOR RESIDUE EDO A 116
5AC5SOFTWARELYS B:37 , TRP B:39 , ILE B:98BINDING SITE FOR RESIDUE EDO B 119

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2PFW)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Ser A:104 -Pro A:105
2Ser B:104 -Pro B:105

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) Exons   (0, 0)

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(-) Sequences/Alignments

Asymmetric/Biological 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    
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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:112
 aligned with Q07YH2_SHEFN | Q07YH2 from UniProtKB/TrEMBL  Length:115

    Alignment length:112
                                    10        20        30        40        50        60        70        80        90       100       110  
         Q07YH2_SHEFN     1 MQQSEHFSFGEQTEIEDIGGGLKRQMLGFNHELMAVKIWFDKGAEGYVHAHRHSQVSYVVEGEFHVNVDGVIKVLTAGDSFFVPPHVDHGAVCPTGGILIDTFSPAREDFVE 112
               SCOP domains ---------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -2pfwA00 A:2-112 Jelly Rolls                                                                                     CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......ee.......ee....eeeeeeeee..eeeeeeee...eeeeee....eeeeeeeee.eeeee..eeeee....eeee.....eeeee...eeeeeeee..hhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------- Transcript
                 2pfw A   1 mQQSEHFSFGEQTEIEDIGGGLKRQmLGFNHELmAVKIWFDKGAEGYVHAHRHSQVSYVVEGEFHVNVDGVIKVLTAGDSFFVPPHVDHGAVCPTGGILIDTFSPAREDFVE 112
                            |       10        20     |  30   |    40        50        60        70        80        90       100       110  
                            |                       26-MSE  34-MSE                                                                          
                            1-MSE                                                                                                           


Chain B from PDB  Type:PROTEIN  Length:111
 aligned with Q07YH2_SHEFN | Q07YH2 from UniProtKB/TrEMBL  Length:115

    Alignment length:111
                                    10        20        30        40        50        60        70        80        90       100       110 
         Q07YH2_SHEFN     1 MQQSEHFSFGEQTEIEDIGGGLKRQMLGFNHELMAVKIWFDKGAEGYVHAHRHSQVSYVVEGEFHVNVDGVIKVLTAGDSFFVPPHVDHGAVCPTGGILIDTFSPAREDFV 111
               SCOP domains --------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -2pfwB00 B:2-111 Jelly Rolls                                                                                    CATH domains
           Pfam domains (1) -------------------------------------Cupin_2-2pfwB01 B:38-100                                       ----------- Pfam domains (1)
           Pfam domains (2) -------------------------------------Cupin_2-2pfwB02 B:38-100                                       ----------- Pfam domains (2)
         Sec.struct. author ......ee......eee....eeeeeeeee..eeeeeeee.....eeee....eeeeeeeee.eeeee..eeeee....eeee.....eeee....eeeeeeee..hhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------- Transcript
                 2pfw B   1 mQQSEHFSFGEQTEIEDIGGGLKRQmLGFNHELmAVKIWFDKGAEGYVHAHRHSQVSYVVEGEFHVNVDGVIKVLTAGDSFFVPPHVDHGAVCPTGGILIDTFSPAREDFV 111
                            |       10        20     |  30   |    40        50        60        70        80        90       100       110 
                            1-MSE                   26-MSE  34-MSE
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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 2PFW)

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: Cupin (179)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
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