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(-) Description

Title :  CRYSTAL STRUCTURE OF A PUTATIVE PERIPLASMIC PROTEIN (BACOVA_05534) FROM BACTEROIDES OVATUS ATCC 8483 AT 1.75 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  18 Feb 12  (Deposition) - 21 Mar 12  (Release) - 21 Mar 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.75
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Blip-Like Fold, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-Biology, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of A Putative Periplasmic Protein (Bacova_05534) From Bacteroides Ovatus Atcc 8483 At 1. 75 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PUTATIVE PERIPLASMIC PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: SPEEDET
    Expression System Strain: PB1
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: BACOVA_05534
    Organism Scientific: BACTEROIDES OVATUS
    Organism Taxid: 411476
    Strain: ATCC 8483

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 16)

Asymmetric Unit (2, 16)
No.NameCountTypeFull Name
1EDO8Ligand/Ion1,2-ETHANEDIOL
2MSE8Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (2, 7)
No.NameCountTypeFull Name
1EDO3Ligand/Ion1,2-ETHANEDIOL
2MSE4Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (2, 9)
No.NameCountTypeFull Name
1EDO5Ligand/Ion1,2-ETHANEDIOL
2MSE4Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:121 , ARG A:122 , HOH A:388 , ASP B:56 , LYS B:62 , EDO B:201BINDING SITE FOR RESIDUE EDO A 201
2AC2SOFTWAREGLU A:119 , ASP A:121 , LYS A:123 , GLY A:124 , TYR A:125 , GLU A:126 , HOH A:305BINDING SITE FOR RESIDUE EDO A 202
3AC3SOFTWARELEU A:105 , HOH A:311 , HOH A:318 , HOH A:383 , HOH A:391BINDING SITE FOR RESIDUE EDO A 203
4AC4SOFTWAREASP A:56 , LYS A:62 , EDO A:201 , ASP B:121 , ARG B:122 , HOH B:324BINDING SITE FOR RESIDUE EDO B 201
5AC5SOFTWARELYS B:21 , ASP B:22BINDING SITE FOR RESIDUE EDO B 202
6AC6SOFTWAREASP B:121 , GLY B:124 , LYS B:136 , HOH B:354 , HOH B:409BINDING SITE FOR RESIDUE EDO B 203
7AC7SOFTWAREHOH A:338 , HOH A:397 , VAL B:102 , LYS B:106 , EDO B:205BINDING SITE FOR RESIDUE EDO B 204
8AC8SOFTWAREGLN A:30 , VAL B:94 , VAL B:111 , EDO B:204 , HOH B:360BINDING SITE FOR RESIDUE EDO B 205

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4DSD)

(-) 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:126
 aligned with A7M5Y8_BACO1 | A7M5Y8 from UniProtKB/TrEMBL  Length:148

    Alignment length:126
                                    30        40        50        60        70        80        90       100       110       120       130       140      
         A7M5Y8_BACO1    21 KDVITKDMNQLPLPARNFINSNFTKPQVAHIKIDKDMMESTKYEVVLMDGTEIDFDSKGNWEEVSAKKGQTVPVSIVPGFAVNYLKAHNFVNEGVTKVERDRKGYEIELSTGLSFKFDKKGKFIKT 146
               SCOP domains d4dsda_ A: automated matches                                                                                                   SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eee.hhhhhhhhhhhhhhhhh....eeeeeeee.....eeeeeee....eeee.....eeeee.......hhhhhhhhhhhhhhhh......eeeeeee..eeeeee....eeee......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4dsd A  21 KDVITKDmNQLPLPARNFINSNFTKPQVAHIKIDKDmmESTKYEVVLmDGTEIDFDSKGNWEEVSAKKGQTVPVSIVPGFAVNYLKAHNFVNEGVTKVERDRKGYEIELSTGLSFKFDKKGKFIKT 146
                                   |30        40        50      ||60       |70        80        90       100       110       120       130       140      
                                  28-MSE                       57-MSE     68-MSE                                                                          
                                                                58-MSE                                                                                    


Chain B from PDB  Type:PROTEIN  Length:126
 aligned with A7M5Y8_BACO1 | A7M5Y8 from UniProtKB/TrEMBL  Length:148

    Alignment length:126
                                    30        40        50        60        70        80        90       100       110       120       130       140      
         A7M5Y8_BACO1    21 KDVITKDMNQLPLPARNFINSNFTKPQVAHIKIDKDMMESTKYEVVLMDGTEIDFDSKGNWEEVSAKKGQTVPVSIVPGFAVNYLKAHNFVNEGVTKVERDRKGYEIELSTGLSFKFDKKGKFIKT 146
               SCOP domains d4dsdb_ B: automated matches                                                                                                   SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eee.hhhhhhhhhhhhhhhhh....eeeeeeee.....eeeeeee....eeee.....eeeee.......hhhhhhhhhhhhhhhh......eeeeeee..eeeeee....eeee......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4dsd B  21 KDVITKDmNQLPLPARNFINSNFTKPQVAHIKIDKDmmESTKYEVVLmDGTEIDFDSKGNWEEVSAKKGQTVPVSIVPGFAVNYLKAHNFVNEGVTKVERDRKGYEIELSTGLSFKFDKKGKFIKT 146
                                   |30        40        50      ||60       |70        80        90       100       110       120       130       140      
                                  28-MSE                       57-MSE     68-MSE                                                                          
                                                                58-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  (1, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4DSD)

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