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(-) Description

Title :  CRYSTAL STRUCTURE OF PUTATIVE MOTB LIKE PROTEIN DVU_2228 FROM DESULFOVIBRIO VULGARIS.
 
Authors :  U. A. Ramagopal, R. Toro, S. K. Burley, S. C. Almo, New York Sgx Research Center For Structural Genomics (Nysgxrc)
Date :  30 Oct 09  (Deposition) - 01 Dec 09  (Release) - 01 Dec 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.03
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Structural Genomics, Ompa-Like Domain, Psi-2, Protein Structure Initiative, New York Sgx Research Center For Structural Genomics, Nysgxrc (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  U. A. Ramagopal, R. Toro, S. K. Burley, S. C. Almo
Crystal Structure Of Putative Motb Like Protein Dvu_2228 From Desulfovibrio Vulgaris
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MOTB PROTEIN, PUTATIVE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PSGX4(BC)
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: DVU_2228
    Organism Scientific: DESULFOVIBRIO VULGARIS STR. HILDENBOROUGH
    Organism Taxid: 882
    Strain: HILDENBOROUGH / ATCC 29579 / NCIMB 8303

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1MSE2Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 3KHN)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3KHN)

(-) 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    
   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:162
 aligned with Q729W9_DESVH | Q729W9 from UniProtKB/TrEMBL  Length:244

    Alignment length:162
                                                                                                                                                                                        241   
                                                                                                                                                                                     240  |   
                                    94       104       114       124       134       144       154       164       174       184       194       204       214       224       234     | 242  
         Q729W9_DESVH    85 RLQRELIEAQRQTYNEMRTYFTVNGVEGVIGAVFDEGVITLRVPSEVLFAPGAVELAPGADRVLATLKDLFIRRREQNINIKGFTDDVQPSANARFKDNWEVSALRSVNVLRYFLGAGIEPARLTATGLGELDPLFPNTSDENRARNRRVEFVLER--RVVR 244
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhh......eeeee..eeeeeeehhhhh.........hhhhhhhhhhhhhhhh...eeeeeee.............hhhhhhhhhhhhhhhhhhhh..hhh.eeeeeee.........hhhhhhhhheeeeeee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3khn A   7 RLQRELIEAQRQTYNEmRTYFTVNGVEGVIGAVFDEGVITLRVPSEVLFAPGAVELAPGADRVLATLKDLFIRRREQNINIKGFTDDVQPSANARFKDNWEVSALRSVNVLRYFLGAGIEPARLTATGLGELDPLFPNTSDENRARNRRVEFVLEREGHHHH 172
                                    16      | 26        36        46        56        66        76        86        96       106       116       126       136       146       156     ||170  
                                           23-MSE                                                                                                                                    162|     
                                                                                                                                                                                      167     


Chain B from PDB  Type:PROTEIN  Length:157
 aligned with Q729W9_DESVH | Q729W9 from UniProtKB/TrEMBL  Length:244

    Alignment length:157
                                    94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       
         Q729W9_DESVH    85 RLQRELIEAQRQTYNEMRTYFTVNGVEGVIGAVFDEGVITLRVPSEVLFAPGAVELAPGADRVLATLKDLFIRRREQNINIKGFTDDVQPSANARFKDNWEVSALRSVNVLRYFLGAGIEPARLTATGLGELDPLFPNTSDENRARNRRVEFVLERR 241
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -----------------------------------------------OmpA-3khnB01 B:54-154                                                                                --------- Pfam domains (1)
           Pfam domains (2) -----------------------------------------------OmpA-3khnB02 B:54-154                                                                                --------- Pfam domains (2)
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhh......eeeee..eeeeeeehhhhh.......hhhhhhhhhhhhhhhhhh..eeeeeeee.............hhhhhhhhhhhhhhhhhhhh..hhh.eeeeeee.........hhhhhhhhheeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3khn B   7 RLQRELIEAQRQTYNEmRTYFTVNGVEGVIGAVFDEGVITLRVPSEVLFAPGAVELAPGADRVLATLKDLFIRRREQNINIKGFTDDVQPSANARFKDNWEVSALRSVNVLRYFLGAGIEPARLTATGLGELDPLFPNTSDENRARNRRVEFVLERR 163
                                    16      | 26        36        46        56        66        76        86        96       106       116       126       136       146       156       
                                           23-MSE
   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 3KHN)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: OmpA] (9)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q729W9_DESVH | Q729W9)
cellular component
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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