PASS2.8 - Home

solvent inaccessible: UPPER CASE X
solvent accesible: lower case x
alpha helix: red x

beta strand: blue x
3 - 10 helix: maroon x
hydrogen bond to main chain amide: bold x

hydrogen bond to mainchain carbonyl: underline x
disulphide bond: cedilla
positive phi: italic x

                             10        20        30        40        50  
d2b0aa1  (   1 )      eildLtqtli--nfprp--gdpelriiekkid----gfivseiimgsh
d3krva-  (   0 )    amkvydVtapiyegMpVyknkpekqPkrttitn---g-yvtesridmdvh
d4coga-  (   3 )      tlwdISppvspatpvwp--gdtpVavervwrmeagspvnvarltlSph
                       bbb                    bbbbbb         bbbbb    

                             60        70        80        90        100 
d2b0aa1  (  41 )    LCTHIDyPkhVglenr---ipFkdgiIkgkGyCIsld---------dfpg
d3krva-  (  46 )    TGTHIdAPlhmVe---tfetIplndL-vgpCkLfdLthVndrItkddIah
d4coga-  (  49 )    TgAHCDAplhydadgapIGavpldtY-lgpCrVihcigaapvVrpadVea
                       bbb  33                 bbbbbbbb               

                             110       120       130       140       150 
d2b0aa1  (  79 )    nklpaCdILLIyTgfSkywgrdeYFekiPeIp-FlddIiksnIkCVGIDA
d3krva-  (  95 )    ldIqegdFVLFkTkNSfed-aF-hfeFIFVaedAAryLAdkqIrGVGIDa
d4coga-  (  98 )    aLdgVppRVLLrTyarAaveqw-dsnFCAVapdTVdlLaahgVkLIGIDT
                           bbbbb                      aaaaaa    bbbb  

                             160       170       180       190       200 
d2b0aa1  ( 128 )    CtIgg-----feehkrLLsnnILIIENLnenLknLvgksFyFlGlplkif
d3krva-  ( 143 )    lgIEr-aqeghpThktLfsagVIIIEgLr--LkdVpegrYfMvAaPlklv
d4coga-  ( 147 )    pSLDpqesktmdAHrrVrahrMaILEgIv--LddVppgdYeLiAlPlkfa
                               aaaaaaaa   bbb             bbbbb       

                             210   
d2b0aa1  ( 173 )    didASpIrCiAil  
d3krva-  ( 190 )    gtdAApArVlLfdr 
d4coga-  ( 195 )    tldASpVrAvLralp
                       bbb   bbb

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d2b0aa1 # Domain Specific Files ATM file: Atomic coordinates by ASTRAL ATM2ALI file: Amino acid sequences by ATM2ALI SST file: Secondary structure by SSTRUC PSA file: solvent accessibility by PSA HBD file: Hydrogen bonds by HBOND PSE file: PyMol session file for conserved interactions PDBSUM1: Topological diagram d2b0aa1 # Links to other databases and tools RCSB-PDB: Research Collaboratory for Structural Bioinformatics SCOP: Structural Classification of Proteins EBI: European Bioinformatics Institute HOMSTRAD: Homologous Structure Alignment Database DDBASE: Dial-Derived Domain Database CATH: Class Architecture Topology and Homologous sfily PALI: Phylogeny and ALIgnment of homologous protein structures MODBASE: A Database of Annotated Comparative Protein Structure Models 3Dee: A Database of Protein Domain Definition PQS: Protein Quaternary Structure Query Form at the EBI LPC/CSU: Ligand-Protein Contacts & Contacts of Structural LPFC: A Library of Protein Family Cores MMDB: Molecular Modelling DataBase,NCBI CE: Databases and Tools for 3-D Protein Structure Comparison and Alignment PDBSUM: Summaries and structural analyses of PDB data files Pfam: Protein families database of alignments and HMMs	Hypothetical protein MJ0783	Putative cyclase	Methanococcus jannaschii [TaxId: 2190]	view
d3krva- # Domain Specific Files ATM file: Atomic coordinates by ASTRAL ATM2ALI file: Amino acid sequences by ATM2ALI SST file: Secondary structure by SSTRUC PSA file: solvent accessibility by PSA HBD file: Hydrogen bonds by HBOND PSE file: PyMol session file for conserved interactions PDBSUM1: Topological diagram d3krva- # Links to other databases and tools RCSB-PDB: Research Collaboratory for Structural Bioinformatics SCOP: Structural Classification of Proteins EBI: European Bioinformatics Institute HOMSTRAD: Homologous Structure Alignment Database DDBASE: Dial-Derived Domain Database CATH: Class Architecture Topology and Homologous sfily PALI: Phylogeny and ALIgnment of homologous protein structures MODBASE: A Database of Annotated Comparative Protein Structure Models 3Dee: A Database of Protein Domain Definition PQS: Protein Quaternary Structure Query Form at the EBI LPC/CSU: Ligand-Protein Contacts & Contacts of Structural LPFC: A Library of Protein Family Cores MMDB: Molecular Modelling DataBase,NCBI CE: Databases and Tools for 3-D Protein Structure Comparison and Alignment PDBSUM: Summaries and structural analyses of PDB data files Pfam: Protein families database of alignments and HMMs	Unnamed protein	Putative cyclase	Bacillus stearothermophilus [TaxId: 1422]	view
d4coga- # Domain Specific Files ATM file: Atomic coordinates by ASTRAL ATM2ALI file: Amino acid sequences by ATM2ALI SST file: Secondary structure by SSTRUC PSA file: solvent accessibility by PSA HBD file: Hydrogen bonds by HBOND PSE file: PyMol session file for conserved interactions PDBSUM1: Topological diagram d4coga- # Links to other databases and tools RCSB-PDB: Research Collaboratory for Structural Bioinformatics SCOP: Structural Classification of Proteins EBI: European Bioinformatics Institute HOMSTRAD: Homologous Structure Alignment Database DDBASE: Dial-Derived Domain Database CATH: Class Architecture Topology and Homologous sfily PALI: Phylogeny and ALIgnment of homologous protein structures MODBASE: A Database of Annotated Comparative Protein Structure Models 3Dee: A Database of Protein Domain Definition PQS: Protein Quaternary Structure Query Form at the EBI LPC/CSU: Ligand-Protein Contacts & Contacts of Structural LPFC: A Library of Protein Family Cores MMDB: Molecular Modelling DataBase,NCBI CE: Databases and Tools for 3-D Protein Structure Comparison and Alignment PDBSUM: Summaries and structural analyses of PDB data files Pfam: Protein families database of alignments and HMMs	automated matches	automated matches	Burkholderia cenocepacia [TaxId: 216591]	view

No outliers

Feature	Download
Superfamily
Distance Matrix
Conserved Interactions
Cusp Results
Alistat - Alignment Statistics
SMotif - Conserved Structural Motifs
MeanRMS
PCSSE Details
Absolutely Conserved Residues
Highly Conserved Residues

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Member	Chain	UniProtKB	GO term
d2b0aa1	A	Q58193	GO:0004061
d2b0aa1	A	Q58193	GO:0019441

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