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  The Berkeley Structural Genomics Center pursues an integrated structural genomics program designed to obtain a near-complete structural complement of two minimal genomes, Mycoplasma genitalium and Mycoplasma pneumoniae, two related human and animal pathogens. Our targets are mainly selected from the complete set of soluble Mycoplasma proteins and their prokaryotic homologs that have no significant sequence similarity to proteins of known structure.

STATISTICS (Complete stats here).

Full Length ORF Targets Cloned:324
Purified:204
Clones De-selected (*):154
Net Full Length ORF Targets Cloned:170 (324-154)
Structures Solved:84, from 58 targets (more info)
New Folds:30 (36%)
Function Annotated using Structure:24

Success rate from initial clones to structures: 18% (58/324)
Success rate from net clones to structures: 34% (58/170)
(*) - Targets are de-selected if the structure or a homolog is solved at the BSGC or elsewhere.

(new!) NEW PAGES

  • BSGC Plasmids may be ordered through Addgene by following this link.
  • Descriptions of New Technologies developed at the BSGC
  • Our Protocols and Methods
  • Overview of the Structural Proteome of Mycoplasma

    • (new!) STRUCTURE-BASED FUNCTIONAL INFERENCES FOR BSGC TARGETS
        More info on BSGC structures
    A. Hypothetical proteins (unknown structure and function)
        1. New Folds
            a. Function inferred from an active site
    BSGCAIR30348 BSGCAIR30513
    BSGCAIR30348:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      Peroxiredoxin    		 BSGCAIR30513:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      Oxidoredox protein
            b. Function inferred from a bound substrate
    BSGCAIR30507 BSGCAIR30424 BSGCAIR30341
    BSGCAIR30507:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      ATP binding protein
    Experimental annotation:
      ATP binding protein (ATP dependent
      molecular switch)    		 BSGCAIR30424:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      NAD kinase, NAD bound    		 BSGCAIR30341:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      Binds or metabolize fatty acid
    BSGCAIR30585
    BSGCAIR30585:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      NAD Kinase
            c. Function still unknown
    BSGCAIR30529 BSGCAIR30390 BSGCAIR30373
    BSGCAIR30529:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      Unknown function    		 BSGCAIR30390:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      Unknown function, DNA binding?
    Experimental annotation:
      Cell division regulator?
    Gene cluster analysis:
      Cell division regulator    		 BSGCAIR30373:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      Unknown function
    BSGCAIR30477 BSGCAIR30548
    BSGCAIR30477:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      Unknown function    		 BSGCAIR30548:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      Hypothetical protein
        2. Multidomain: some new, others with homolog of known structure
            a. Function inferred from remote homolog
    BSGCAIR30381 BSGCAIR30636 BSGCAIR30332
    BSGCAIR30381:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      Phosphatase
    Experimental annotation:
      Phosphatase    		 BSGCAIR30636:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      Type II phosphoribosyltransferase, Hexamer    		 BSGCAIR30332:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      Intracellular proteinase
    Experimental annotation:
      Protease
    BSGCAIR30511 BSGCAIR30418 BSGCAIR30594
    BSGCAIR30511:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      ATP binding protein
    Experimental annotation:
      Novel nucleotide triphosphatase    		 BSGCAIR30418:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      Matrix metalloprotease-like    		 BSGCAIR30594:
    Sequence annotation:
      Putative DNA-binding protein
    Structural implication:
      DNA binding, translation
    BSGCAIR31221 BSGCAIR30619 BSGCAIR30544
    BSGCAIR31221:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      GDP binding protein, circularly
      permuted GTPase    		 BSGCAIR30619:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      Nicotinate phosphoribosyltransferase    		 BSGCAIR30544:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      Phosphodiesterase
        3. Remote homolog folds
            a. Function inferred from the remote homolog fold
    BSGCAIR30314 BSGCAIR30640 BSGCAIR30509
    BSGCAIR30314:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      Phosphodiesterase, Ni bound
    Experimental annotation:
      Phosphodiesterase    		 BSGCAIR30640:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      DNA binding protein
    Experimental annotation:
      Weak binding to Z-DNA or B-DNA    		 BSGCAIR30509:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      Isomerase
    Experimental annotation:
      3-Hexulose 6 phosphate isomerase
    BSGCAIR30429 BSGCAIR30482 BSGCAIR30460
    BSGCAIR30429:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      Phosphatase
    Experimental annotation:
      CTP, CDP, UTP, and
      UDP phosphatase    		 BSGCAIR30482:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      NusB-like    		 BSGCAIR30460:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      Phosphatase
    BSGCAIR30656
    BSGCAIR30656:
    Sequence annotation:
      Hypothetical protein
    Structural implication:
      Zn binding protein, lipocalin-like
    B. Proteins with an annotated function (unknown structure but sequence-annotated function)
        1. New Folds
    BSGCAIR30339 BSGCAIR30461 BSGCAIR30592
    BSGCAIR30339:
    Sequence annotation:
      Osmotically inducible protein C
    Structural implication:
      Peroxiredoxin
    Experimental annotation:
      Peroxiredoxin    		 BSGCAIR30461:
    Sequence annotation:
      5-formyl tetrahydrofolate cyclo-ligase
      (HI0858) homolog
    Structural implication:
      5-formyl tetrahydrofolate
      cyclo-ligase, ADP,Mg complex
    Experimental annotation:
      5-formyl tetrahydrofolate cyclo-ligase    		 BSGCAIR30592:
    Sequence annotation:
      NifU or ISCU protein family
    Structural implication:
      Iron-Sulfur cluster
      assembly protein
    BSGCAIR30505
    BSGCAIR30505:
    Sequence annotation:
      Small Heat Shock Protein
    Structural implication:
      Small Heat Shock Protein
    Experimental annotation:
      Small Heat Shock Protein
        2. Multidomain: some new, others with homolog of known structure
    BSGCAIR30318 BSGCAIR30419 BSGCAIR30508
    BSGCAIR30318:
    Sequence annotation:
      Heat shock operon repressor HrcA
    Structural implication:
      Heat shock operon repressor HrcA    		 BSGCAIR30419:
    Sequence annotation:
      TRNA guanine-N1
      methyltransferase
    Structural implication:
      Methyltransferase    		 BSGCAIR30508:
    Sequence annotation:
      Translation Initiation Factor 5A
    Structural implication:
      Translation Initiation Factor 5A
    BSGCAIR30365 BSGCAIR30412
    BSGCAIR30365:
    Sequence annotation:
      Fibrillarin Homolog
    Structural implication:
      RNA methyltransferase    		 BSGCAIR30412:
    Sequence annotation:
      N utilization substance protein A
    Structural implication:
      N utilization substance protein A
        3. Remote homolog of known structure
    BSGCAIR30616 BSGCAIR30410 BSGCAIR30480
    BSGCAIR30616:
    Sequence annotation:
      Phosphotransacetylase
    Structural implication:
      Phosphotransacetylase
    Experimental annotation:
      Phosphotransacetylase    		 BSGCAIR30410:
    Sequence annotation:
      Ribosome binding factor A
    Structural implication:
      Ribosome binding factor A    		 BSGCAIR30480:
    Sequence annotation:
      PhoU protein family
    Structural implication:
      Iron cluster binding protein
    BSGCAIR30591 BSGCAIR30321 BSGCAIR30380
    BSGCAIR30591:
    Sequence annotation:
      Type I restriction-modification
      enzyme, S subunit
    Structural implication:
      DNA binding protein
    Structural inference:
      methyltransferase    		 BSGCAIR30321:
    Sequence annotation:
      Ribonuclease HII (rnhB)
    Structural implication:
      Ribonuclease HII (rnhB)
    Structural inference:
      Ribonuclease HII    		 BSGCAIR30380:
    Sequence annotation:
      Phosphoserine phosphatase
    Structural implication:
      Phosphoserine phosphatase
    Experimental annotation:
      Phosphoserine phosphatase
    BSGCAIR30415 BSGCAIR30510 BSGCAIR30512
    BSGCAIR30415:
    Sequence annotation:
      PhoU protein family
    Structural implication:
      PhoU protein family    		 BSGCAIR30510:
    Sequence annotation:
      Pyrazinamidase/Nicotinamidase
    Structural implication:
      Pyrazinamidase/Nicotinamidase
    Experimental annotation:
      Pyrazinamidase/Nicotinamidase    		 BSGCAIR30512:
    Sequence annotation:
      Ribonuclease P
    Structural implication:
      Ancestral (A)-type Ribonuclease P,
      similar to B-type
    Experimental annotation:
      Protein component
      of Ribonuclease P
    BSGCAIR30593 BSGCAIR30655
    BSGCAIR30593:
    Sequence annotation:
      Phosphotransacetylase
    Structural implication:
      Phosphotransacetylase
    Experimental annotation:
      Phosphotransacetylase    		 BSGCAIR30655:
    Sequence annotation:
      Fibrillarin homolog
    Structural implication:
      RNA methyltransferase
    C. Proteins with an annotated function and homologs of known structure
    BSGCAIR30409 BSGCAIR30383 BSGCAIR31213
    BSGCAIR30409:
    Sequence annotation:
      Riboflavin kinase/FMN
      adenylyltransferase
    Structural implication:
      Riboflavin kinase/FMN
      adenylyltransferase    		 BSGCAIR30383:
    Sequence annotation:
      Peptide releasing factor 1
    Structural implication:
      Peptide releasing factor 1    		 BSGCAIR31213:
    Sequence annotation:
      Beta-carbonic anhydrase
    Structural implication:
      Carbonic anhydrase
    Experimental annotation:
      Carbonic anhydrase
    BSGCAIR30560 BSGCAIR30506 BSGCAIR30561
    BSGCAIR30560:
    Sequence annotation:
      Glyceraldehyde-3-phosphate
      dehydrogenase A
    Structural implication:
      Glyceraldehyde-3-phosphate
      dehydrogenase A
    Experimental annotation:
      Glyceraldehyde-3-phosphate
      dehydrogenase A    		 BSGCAIR30506:
    Sequence annotation:
      Thioredoxin (trx)
    Structural implication:
      Thioredoxin (trx)    		 BSGCAIR30561:
    Sequence annotation:
      MutT/nudix family protein
    Structural implication:
      GTPase and Ap4Aase
      Nudix type hydrolase
    Experimental annotation:
      Mg++ activated nucleoside triphosphatase, dinucleoside polyphosphate
      pyrophosphatase

    PARTNERS

    Working closely with related centers across the country, we strive to present a global view of protein families in nature and to advance new resources for large-scale biological research.

    Lawrence Berkeley National Laboratory administers the BSGC, in partnership with the University of California, Berkeley, Stanford University and the University of North Carolina, Chapel Hill. We are sponsored by the National Institute for General Medical Sciences of the National Institutes of Health.

    		 
     
     
    Lawrence Berkeley National Laboratory Stanford University
    University of California, Berkeley University of North Carolina, Chapel Hill