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(-) Description

Title :  CRYSTAL STRUCTURE OF Q9KD89 FROM BACILLUS HALODURANS. NORTHEAST STRUCTURAL GENOMICS TARGET BHR21
 
Authors :  J. Benach, M. Su, J. Seetharaman, C. H. Ho, H. Janjua, K. Cunningham, L. - C. Ma, R. Xiao, J. Liu, M. C. Baran, T. B. Acton, B. Rost, G. T. Montelione J. F. Hunt, L. Tong, Northeast Structural Genomics Consortium (Nesg)
Date :  05 Dec 06  (Deposition) - 19 Dec 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Bhr21, Nesg, Structural Genomics, Psi-2, Protein Structure Initiative, Northeast Structural Genomics Consortium, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Benach, M. Su, J. Seetharaman, C. H. Ho, H. Janjua, K. Cunningham, L. -C. Ma, R. Xiao, J. Liu, M. C. Baran, T. B. Acton, B. Rost, G. T. Montelione, J. F. Hunt, L. Tong
Crystal Structure Of Q9Kd89 From Bacillus Halodurans. Northeast Structural Genomics Target Bhr21
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - BH1328 PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21
    Expression System Strain: BL21(DE3)+ MAGIC
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: BH1328
    Organism Scientific: BACILLUS HALODURANS
    Organism Taxid: 86665

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 7)

Asymmetric/Biological Unit (3, 7)
No.NameCountTypeFull Name
1MN4Ligand/IonMANGANESE (II) ION
2MSE2Mod. Amino AcidSELENOMETHIONINE
3SO41Ligand/IonSULFATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:20 , HIS A:41 , ASN A:43 , GLU A:45BINDING SITE FOR RESIDUE MN A 126
2AC2SOFTWAREGLU B:45BINDING SITE FOR RESIDUE MN B 126
3AC3SOFTWARESER A:2 , ASP A:35 , ASP A:84BINDING SITE FOR RESIDUE MN A 127
4AC4SOFTWAREHOH A:3004BINDING SITE FOR RESIDUE MN A 128
5AC5SOFTWAREGLU B:45 , HIS B:53 , LYS B:56 , HIS B:91BINDING SITE FOR RESIDUE SO4 B 127

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2O5A)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2O5A)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2O5A)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2O5A)

(-) Exons   (0, 0)

(no "Exon" information available for 2O5A)

(-) 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:108
 aligned with IOJAP_BACHD | Q9KD89 from UniProtKB/Swiss-Prot  Length:117

    Alignment length:113
                                    11        21        31        41        51        61        71        81        91       101       111   
          IOJAP_BACHD     2 SNQELLQLAVNAVDDKKAEQVVALNMKGISLIADFFLICHGNSEKQVQAIAHELKKVAQEQGIEIKRLEGYEQARWVLIDLGDVVVHVFHKDERAYYNLEKLWGDAPTVELEG 114
               SCOP domains d2o5aa1 A:2-114 Uncharacterized   protein BH1328                                                                  SCOP domains
               CATH domains 2o5aA01 A:2-108 Beta Polymerase  , domain 2                                                                ------ CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhh..eeeeeee......--.eeeeeee.hhhhhhhhhhhhhhhhhhh.....eee......eeeee...eeeeeee..hhhhh......---....... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------- Transcript
                 2o5a A   2 SNQELLQLAVNAVDDKKAEQVVALNmKGISL--DFFLICHGNSEKQVQAIAHELKKVAQEQGIEIKRLEGYEQARWVLIDLGDVVVHVFHKDERAYYNLEKLW---PTVELEG 114
                                    11        21     |  31|  |    41        51        61        71        81        91       101  |   |111   
                                                    27-MSE2 35                                                                  104 108      


Chain B from PDB  Type:PROTEIN  Length:105
 aligned with IOJAP_BACHD | Q9KD89 from UniProtKB/Swiss-Prot  Length:117

    Alignment length:110
                                    12        22        32        42        52        62        72        82        92       102       112
          IOJAP_BACHD     3 NQELLQLAVNAVDDKKAEQVVALNMKGISLIADFFLICHGNSEKQVQAIAHELKKVAQEQGIEIKRLEGYEQARWVLIDLGDVVVHVFHKDERAYYNLEKLWGDAPTVEL 112
               SCOP domains d2o5ab_ B: Uncharacterized pro  tein BH1328                                                                    SCOP domains
               CATH domains 2o5aB01 B:3-108 Beta Polymeras  e, domain 2                                                               ---- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhh..eeeeeee......--.eeeeeee.hhhhhhhhhhhhhhhhhhh.....eee......eeeee...eeeeeee.............---.ee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------- Transcript
                 2o5a B   3 NQELLQLAVNAVDDKKAEQVVALNmKGISL--DFFLICHGNSEKQVQAIAHELKKVAQEQGIEIKRLEGYEQARWVLIDLGDVVVHVFHKDERAYYNLEKLW---PTVEL 112
                                    12        22    |   32  |     42        52        62        72        82        92       102 |   | 112
                                                   27-MSE2 35                                                                  104 108
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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/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2O5A)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (IOJAP_BACHD | Q9KD89)
biological process
    GO:0042256    mature ribosome assembly    The aggregation, arrangement and bonding together of the large and small ribosomal subunits into a functional ribosome.
    GO:0090071    negative regulation of ribosome biogenesis    Any process that decreases the rate, frequency or extent of ribosome biogenesis. Ribosome biogenesis is the cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of ribosome subunits.
    GO:0017148    negative regulation of translation    Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA or circRNA.
    GO:0006417    regulation of translation    Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA or circRNA.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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