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Pedant3 Databases

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Pedant3 Databases | pedant.gsf.de Reviews

https://pedant.gsf.de

IBI, mips, Bioinformatics

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1

Pedant3 Databases

http://pedant.gsf.de/webservices.jsp

The PEDANT 3 Web Service. Attention: The Web service endpoint URL has changed to. Http:/ pedant.helmholtz-muenchen.de/webservice. The PEDANT Web Service provides programmatic access to the pre-calculated analyses of protein sequences from all PEDANT genomes. PEDANT 3 provides flexible workflows for different analysis. These work-flows can be easily adapted and expanded to meet special needs, e.g. to analyse prokaryotic genomes leaving out analysis steps only meaningful in eukaryota. The number of the gen...

2

Pedant3 Databases

http://pedant.gsf.de/genomes.jsp?category=archaeal

Genomes analysed by PEDANT. Show archaeal genomes starting with the letter:. Genome Browser; G. Gold Metadata; P. NCBI BioProject; T. Archaeoglobus fulgidus DSM 4304. Archaeoglobus profundus DSM 5631. Candidatus Methanoregula boonei 6A8. Candidatus Methanosphaerula palustris E1-9c. Candidatus Nitrosopumilus koreensis AR1. Candidatus Nitrosopumilus sp. AR2. Desulfurococcus fermentans DSM 16532. Desulfurococcus mucosus DSM 2162. Ferroglobus placidus DSM 10642. Haloarcula hispanica ATCC 33960. Natrinema pel...

3

Pedant3 Databases

http://pedant.gsf.de/index.jsp

Welcome to the PEDANT 3 database - a Protein Extraction, Description and ANalysis Tool. Protein structure analysis includes the similarity-based identification of known 3D structures and structural domains, by searching against the PDB and SCOP databases, and predictions of transmembrane regions, low similarity regions and non-globular domains. Walter et al. 2009. Riley et al. 2007. Frishman et al. 2003. A new release of PEDANT is ready to use. It is based on RefSeq v60 and InterPro v43. Genome Browser; G.

4

Pedant3 Databases

http://pedant.gsf.de/Disclaimer.jsp

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Pedant3 Databases

http://pedant.gsf.de/links.jsp

NCBI list of completely sequenced microbial genomes. NCBI list of microbial genomes in progress. NCBI list of eukaryotic genomes. NCBI list of complete virus genomes. NCBI list of complete viroid genomes.

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Linkliste

http://bionomie.mikrobiologie.uni-halle.de/MolBioLink.htm

10; . 10; . The best computers on this planet (Forget Microsoft! 10; http:/ www.apple.de. 10; http:/ www.apple.com. Memory suppliers (also for DOS-computers = Windows). 10; http:/ www.MemorySuppliers.com. Free Software Foundation; GNU project (Richard Stallman, 1984, Copyleft):. Http:/ www.fsf.org. Definition open source, several licenses (Eric S. Raymond, 1998, marketing project of GNU). Http:/ www.opensource.org. The Cathedral and the Bazaar:. Http:/ swpat.ffii.org/. Http:/ www.b...

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Mycobacterium tuberculosis molecules by Dr. PI

http://bluetb.drpi.ch/molecule/0047/index.html?structure

Contact Dr. PI. 2005 blueTB, Dr. PI Bioconsulting. Is essential for the de novo synthesis of folate in prokaryotes, lower eukaryotes and in plants. It is absent in mammals. catalizes the formation of dihydropteroate, the immediate precursor of folic acid in the following reaction . 2-amino-4-hydroxy-6-hydroxymethyl-7,8-dihydropteridine diphosphate 4-aminobenzoate = diphosphate dihydropteroate. Spin / 3D model needs Jmol. The gene is encoded in a In the M. tuberculosis. On the circular M. tuberculosis.

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Mycobacterium tuberculosis molecules by Dr. PI

http://bluetb.drpi.ch/molecule/0026/index.html?structure

Contact Dr. PI. 2005 blueTB, Dr. PI Bioconsulting. Belongs to the cytochrome P450 . These Enyzmes are involved in the oxydative degradation of various compounds. They usually contain a heme that is bound via a cysteine and function as a monooxygenase. catalyses the C14-demethylation of lanosterol . Spin / 3D model needs Jmol. The structural model was obtained from PDB entry , and the description from . Click here to search for at PDB. As the heme axial ligand. On the circular M. tuberculosis. The follow...

bluetb.drpi.ch bluetb.drpi.ch

Mycobacterium tuberculosis molecules by Dr. PI

http://bluetb.drpi.ch/molecule/0083/index.html?structure

Contact Dr. PI. 2005 blueTB, Dr. PI Bioconsulting. DTDP-L-rhamnose is an essential component of the M. tuberculosis. Cell wall. The -gene encodes which is the third enzyme in the dTDP-L-rhamnose pathway. This protein is structurally unique, highly substrate specific and does not require a cofactor, which makes a promising drug target. It catalyses the reaction:. Is a member of the . belongs to the genes responsible for metabolism of sugar nucleotides as shown below. Spin / 3D model needs Jmol. BlueTB mol...

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Mycobacterium tuberculosis molecules by Dr. PI

http://bluetb.drpi.ch/molecule/0066/index.html?structure

Contact Dr. PI. 2005 blueTB, Dr. PI Bioconsulting. Is an oxidorecuctase that catalyses the NADPH-dependent reduction of dihydrofolate to tetrahydrofolate according to the following reaction (dihydrofolatereductase and/or tetrahydrofolate dehydrogenase):. 5,6,7,8-tetrahydrofolate NADP. 7,8-dihydrofolate NADPH H. Spin / 3D model needs Jmol. The structural model was obtained from PDB entry , and the description from . Click here to search for at PDB. The gene is encoded in a In the M. tuberculosis. The foll...

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Mycobacterium tuberculosis molecules by Dr. PI

http://bluetb.drpi.ch/molecule/0015/index.html?structure

Contact Dr. PI. 2005 blueTB, Dr. PI Bioconsulting. Repairs oxidized proteins. Methionine sulfoxide in proteins is reduced to methionine. Its enzyme activity is a oxidoreductase acting on a sulfur group of donors with a disulfide as acceptors . It belongs to the Peptide methionine sulfoxide reductase and is present in most living organisms. Spin / 3D model needs Jmol. The structural model was obtained from PDB entry , and the description from . Click here to search for at PDB. The sequence contains other .

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Mycobacterium tuberculosis molecules by Dr. PI

http://bluetb.drpi.ch/molecule/0016/index.html?structure

Contact Dr. PI. 2005 blueTB, Dr. PI Bioconsulting. Is involved in detoxification. Superoxide is a by-product of aerobic respiration and is produced by oxidative phosphorylation. Superoxide dismutases are ubiquitous metalloproteins that catalyse the conversion of superoxide radicals to hydrogen peroxide and molecular oxygen. The dismutase enzymes have a very high catalytic efficiency. Spin / 3D model needs Jmol. Three conserved histidins ( 116. Are the probable zink-binding residues. Chromosome lies at .

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Mycobacterium tuberculosis molecules by Dr. PI

http://bluetb.drpi.ch/molecule/0025/index.html?structure

Contact Dr. PI. 2005 blueTB, Dr. PI Bioconsulting. Is involved in nucleotide synthesis and energy metabolism. is ubiquitous and is needed for cell maintenance and cell growth. It belongs to the adenylate kinase . The catalytic activity allows the reversible transfer of the terminal phosphate group from ATP to ADP. ATP AMP = 2 ADP. This 3D-model shows one of the 20 structures in . Spin / 3D model needs Jmol. A AMP-biniding site at position 31-59. And the solvent-exposed LID-Region at position 123-138.

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Mycobacterium tuberculosis molecules by Dr. PI

http://bluetb.drpi.ch/molecule/0056/index.html?structure

Contact Dr. PI. 2005 blueTB, Dr. PI Bioconsulting. Is a oxidoreductase that acts on paired donors and incorporates molecular oxygen . Spin / 3D model needs Jmol. The structural model was obtained from PDB entry , and the description from . Click here to search for at PDB. Is a peptide of with a and a The sequence contains several common plus a cytochrome P450 cysteine heme-iron ligand. As the iron binding heme axial ligand. A putative transmembrane region. And a cell attachment sequence. Whole-genome co...

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Mycobacterium tuberculosis molecules by Dr. PI

http://bluetb.drpi.ch/molecule/0005/index.html?structure

Contact Dr. PI. 2005 blueTB, Dr. PI Bioconsulting. Or dehydroquinase, catalyzes the conversion of 3-dehydroquinate into 3-dehydroshikimate. This is the third step in the shikimate pathway for the biosynthesis of aromatic amino acids from chorismate. The atoms shown in red are deduced from phosphoenolpyruvate that was added in the first step of the . Two classes of dehydroquinases exist, known as types I and II. They are unrelated at the sequence level and they utilize completely different mechanisms.

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Pedant3 Databases

Welcome to the PEDANT 3 database - a Protein Extraction, Description and ANalysis Tool. Protein structure analysis includes the similarity-based identification of known 3D structures and structural domains, by searching against the PDB and SCOP databases, and predictions of transmembrane regions, low similarity regions and non-globular domains. Walter et al. 2009. Riley et al. 2007. Frishman et al. 2003. A new release of PEDANT is ready to use. It is based on RefSeq v60 and InterPro v43. Genome Browser; G.

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Pedant3 Databases

Welcome to the PEDANT 3 database - a Protein Extraction, Description and ANalysis Tool. Protein structure analysis includes the similarity-based identification of known 3D structures and structural domains, by searching against the PDB and SCOP databases, and predictions of transmembrane regions, low similarity regions and non-globular domains. Walter et al. 2009. Riley et al. 2007. Frishman et al. 2003. A new release of PEDANT is ready to use. It is based on RefSeq v60 and InterPro v43. Genome Browser; G.

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