topo European Bioinformatics Institute http://www.ebi.ac.uk/ EBI http://www.ebi.ac.uk/soaplab/emboss4/services/protein_2d_structure.topo http://www.ebi.ac.uk/soaplab/emboss4/services/protein_2d_structure.topo?wsdl Draws an image of a transmembrane protein. User must give the transmembrane regions for the sequence as it does not calculate these. Detailed info about this operation can be found at the following link: http://www.es.embnet.org/Doc/EMBOSS/EMBASSY/TOPO/topo.html topo Draws an image of a transmembrane protein. User must give the transmembrane regions for the sequence as it does not calculate these. Detailed info about this operation can be found at the following link: http://www.es.embnet.org/Doc/EMBOSS/EMBASSY/TOPO/topo.html sequence_usa Type: string. Protein sequence. The Uniform Sequence Address, or USA, is a standard way of specifying a sequence to be read into a program in EMBOSS. The most common ways of specifying a sequence is to type (database:entry), where database can be embl, uniprot or swissprot and entry is either the sequence`s entry or ID name, or its Accession number in that database. For example:database:accession -->embl:X65923 or swissprot:Q7M4G0 | database:entry_name -->swissprot:AMIC_PSEAE |database:ID_name -->embl:paamir. Choose either this parameter or the sequence_direct_data parameter but not both together. Parameter mandatory if the sequence_direct_data parameter has not been chosen. String sequence_direct_data Type: string. Protein sequence. Choose this parameter if you want to provide the 'sequence' value as string. Parameter mandatory if the sequence_usa parameter hasn't been chosen. http://www.mygrid.org.uk/ontology#protein_sequence String sformat Type: string. Specifies the format of the input sequence. This is an optional parameter. The allowed values for this parameter are: gcg, gcg8, embl, swiss, fasta, ncbi, genbank, nbrf, pir, codata, strider, clustal, phylip, acedb, msf, jackknifer, jackknifernon, nexus, nexusnon, treecon, mega, meganon, ig, staden, text, raw. String sbegin Type: long. The first position to be used in the sequence, for example: sbegin=1 (default value) means start with the first base in the sequence. This is an optional parameter. String send Type: long. The last position to be used in the sequence. This is an optional parameter. By default it is the end of the sequence. String sprotein Type: boolean. Is the sequence a protein? This is an optional parameter. By default the service can autodetect if a sequence is a nucleotide or protein sequence. String snucleotide Type: boolean. Is the sequence a nucleotide? This is an optional parameter. By default the service can autodetect if a sequence is a nucleotide or protein sequence. String sreverse Type: boolean. Use reverse complement of the nucleic acid sequence. This is an optional parameter. False by default. String slower Type: boolean. Convert the sequence to lower case. This is an optional parameter. False by default. String supper Type: boolean. Convert the sequence to UPPER case. This is an optional parameter. False by default. String sections Type: string. Transmembrane region range. Examples of region specifications are: 24-45, 56-78 1:45, 67=99 |765..888,1,5,8,10,23,45,57,99. This is a mandatory parameter. String membrane Type: boolean(true/false). First membrane from the outside. This is an optional parameter. The default is 'true'. true String signature Type: boolean(Yes/No). Are there any signature areas to be marked? This is an optional parameter. The default is 'No'. N String graph_format Type: string. Format of the graphical output. This is an optional parameter. The allowed values for this parameter are: png, postscript, colourps, hpgl. The default is 'png'. png String sigrange Type: string. Signature range. Examples of ranges specifications are: 10-10 CF, 56-78 SY 1:45 SR, 67=99 HY | 765..888 SF 1,5,HG,8,10,HY,23,45,SR,57,99,UG. This is an optional parameter. String cyssymbol Type: string. Code representing shape and colour for cysteine. This is an optional parameter. The allowed values for this parameter are: N(None)| CF(circle)| SF(square)| HF(hexagon)| UF(up arrpw) | DF(down arrow) | C(black circle) | CG(green circle)| CR(red circle)| CB(blue circle)| CA(aqua circle)| CM(magenta circle)| CY(yellow circle)| S(black square)| SG(green square)| SR(red square)|SB(blue square)| SA(aqua square)| SM(magenta square)| SY(yellow square)| H(black hexagon)| HG(green hexagon)| HR(red hexagon)| HB(blue hexagon)| HA(aqua hexagon)| HM(magenta hexagon)| HY(yellow hexagon)| U(black up arrow)| UG(green up arrow)| UR(red up arrow)| UB(blue up arrow)| UA(aqua up arrow)| UM(magenta up arrow)| UY(yellow up arrow)| D(black down arrow)| DG(green down arrow)| DR(red down arrow)| DB(blue down arrow)| DA(aqua down arrow)| DM(magenta down arrow)| DY(yellow down arrow)|. The default is 'CF'. CF String glysymbol Type: string. Symbol to display N-glycosylation sites outside of membrane. This is an optional parameter. The allowed values for this parameter are: N(None)| CF(circle)| SF(square)| HF(hexagon)| UF(up arrpw) | DF(down arrow) | C(black circle) | CG(green circle)| CR(red circle)| CB(blue circle)| CA(aqua circle)| CM(magenta circle)| CY(yellow circle)| S(black square)| SG(green square)| SR(red square)|SB(blue square)| SA(aqua square)| SM(magenta square)| SY(yellow square)| H(black hexagon)| HG(green hexagon)| HR(red hexagon)| HB(blue hexagon)| HA(aqua hexagon)| HM(magenta hexagon)| HY(yellow hexagon)| U(black up arrow)| UG(green up arrow)| UR(red up arrow)| UB(blue up arrow)| UA(aqua up arrow)| UM(magenta up arrow)| UY(yellow up arrow)| D(black down arrow)| DG(green down arrow)| DR(red down arrow)| DB(blue down arrow)| DA(aqua down arrow)| DM(magenta down arrow)| DY(yellow down arrow)|. The default is 'CF'. CF String acidicaa Type: string. Acidic amino acid Symbol type. This is an optional parameter. The allowed values for this parameter are: N(None)| CF(circle)| SF(square)| HF(hexagon)| UF(up arrpw) | DF(down arrow) | C(black circle) | CG(green circle)| CR(red circle)| CB(blue circle)| CA(aqua circle)| CM(magenta circle)| CY(yellow circle)| S(black square)| SG(green square)| SR(red square)|SB(blue square)| SA(aqua square)| SM(magenta square)| SY(yellow square)| H(black hexagon)| HG(green hexagon)| HR(red hexagon)| HB(blue hexagon)| HA(aqua hexagon)| HM(magenta hexagon)| HY(yellow hexagon)| U(black up arrow)| UG(green up arrow)| UR(red up arrow)| UB(blue up arrow)| UA(aqua up arrow)| UM(magenta up arrow)| UY(yellow up arrow)| D(black down arrow)| DG(green down arrow)| DR(red down arrow)| DB(blue down arrow)| DA(aqua down arrow)| DM(magenta down arrow)| DY(yellow down arrow)|. The default is 'CF'. CF String basicaa Type: string. Basic amino acid Symbol type. This is an optional parameter. The allowed values for this parameter are: N(None)| CF(circle)| SF(square)| HF(hexagon)| UF(up arrpw) | DF(down arrow) | C(black circle) | CG(green circle)| CR(red circle)| CB(blue circle)| CA(aqua circle)| CM(magenta circle)| CY(yellow circle)| S(black square)| SG(green square)| SR(red square)|SB(blue square)| SA(aqua square)| SM(magenta square)| SY(yellow square)| H(black hexagon)| HG(green hexagon)| HR(red hexagon)| HB(blue hexagon)| HA(aqua hexagon)| HM(magenta hexagon)| HY(yellow hexagon)| U(black up arrow)| UG(green up arrow)| UR(red up arrow)| UB(blue up arrow)| UA(aqua up arrow)| UM(magenta up arrow)| UY(yellow up arrow)| D(black down arrow)| DG(green down arrow)| DR(red down arrow)| DB(blue down arrow)| DA(aqua down arrow)| DM(magenta down arrow)| DY(yellow down arrow)|. The default is 'CF'. CF String amineaa Type: string. Amine amino acid Symbol type. This is an optional parameter. The allowed values for this parameter are: N(None)| CF(circle)| SF(square)| HF(hexagon)| UF(up arrpw) | DF(down arrow) | C(black circle) | CG(green circle)| CR(red circle)| CB(blue circle)| CA(aqua circle)| CM(magenta circle)| CY(yellow circle)| S(black square)| SG(green square)| SR(red square)|SB(blue square)| SA(aqua square)| SM(magenta square)| SY(yellow square)| H(black hexagon)| HG(green hexagon)| HR(red hexagon)| HB(blue hexagon)| HA(aqua hexagon)| HM(magenta hexagon)| HY(yellow hexagon)| U(black up arrow)| UG(green up arrow)| UR(red up arrow)| UB(blue up arrow)| UA(aqua up arrow)| UM(magenta up arrow)| UY(yellow up arrow)| D(black down arrow)| DG(green down arrow)| DR(red down arrow)| DB(blue down arrow)| DA(aqua down arrow)| DM(magenta down arrow)| DY(yellow down arrow)|. The default is 'CF'. CF String ohaa Type: string. OH- amino acid Symbol type. This is an optional parameter. The allowed values for this parameter are: N(None)| CF(circle)| SF(square)| HF(hexagon)| UF(up arrpw) | DF(down arrow) | C(black circle) | CG(green circle)| CR(red circle)| CB(blue circle)| CA(aqua circle)| CM(magenta circle)| CY(yellow circle)| S(black square)| SG(green square)| SR(red square)|SB(blue square)| SA(aqua square)| SM(magenta square)| SY(yellow square)| H(black hexagon)| HG(green hexagon)| HR(red hexagon)| HB(blue hexagon)| HA(aqua hexagon)| HM(magenta hexagon)| HY(yellow hexagon)| U(black up arrow)| UG(green up arrow)| UR(red up arrow)| UB(blue up arrow)| UA(aqua up arrow)| UM(magenta up arrow)| UY(yellow up arrow)| D(black down arrow)| DG(green down arrow)| DR(red down arrow)| DB(blue down arrow)| DA(aqua down arrow)| DM(magenta down arrow)| DY(yellow down arrow)|. The default is 'CF'. CF String araa Type: string. Aromatic amino acid Symbol type. This is an optional parameter. The allowed values for this parameter are: N(None)| CF(circle)| SF(square)| HF(hexagon)| UF(up arrpw) | DF(down arrow) | C(black circle) | CG(green circle)| CR(red circle)| CB(blue circle)| CA(aqua circle)| CM(magenta circle)| CY(yellow circle)| S(black square)| SG(green square)| SR(red square)|SB(blue square)| SA(aqua square)| SM(magenta square)| SY(yellow square)| H(black hexagon)| HG(green hexagon)| HR(red hexagon)| HB(blue hexagon)| HA(aqua hexagon)| HM(magenta hexagon)| HY(yellow hexagon)| U(black up arrow)| UG(green up arrow)| UR(red up arrow)| UB(blue up arrow)| UA(aqua up arrow)| UM(magenta up arrow)| UY(yellow up arrow)| D(black down arrow)| DG(green down arrow)| DR(red down arrow)| DB(blue down arrow)| DA(aqua down arrow)| DM(magenta down arrow)| DY(yellow down arrow)|. The default is 'CF'. CF String proline Type: string. Prolines Symbol type. This is an optional parameter. The allowed values for this parameter are: N(None)| CF(circle)| SF(square)| HF(hexagon)| UF(up arrpw) | DF(down arrow) | C(black circle) | CG(green circle)| CR(red circle)| CB(blue circle)| CA(aqua circle)| CM(magenta circle)| CY(yellow circle)| S(black square)| SG(green square)| SR(red square)|SB(blue square)| SA(aqua square)| SM(magenta square)| SY(yellow square)| H(black hexagon)| HG(green hexagon)| HR(red hexagon)| HB(blue hexagon)| HA(aqua hexagon)| HM(magenta hexagon)| HY(yellow hexagon)| U(black up arrow)| UG(green up arrow)| UR(red up arrow)| UB(blue up arrow)| UA(aqua up arrow)| UM(magenta up arrow)| UY(yellow up arrow)| D(black down arrow)| DG(green down arrow)| DR(red down arrow)| DB(blue down arrow)| DA(aqua down arrow)| DM(magenta down arrow)| DY(yellow down arrow)|. The default is 'CF'. CF String draft Type: boolean(true/false). Is this a draft plot? This is an optional parameter. The default is 'false'. false String report Type: string. A general report for the underlying analysis job. String detailed_status Type: long. The exit code of the underlying analysis job, 0 means the job returned normally. String Graphics_in_Postscript Returns an image of transmembrane protein in postscript format. String Graphics byte[] Graphics_in_PNG Returns an image of a transmembrane protein in png format. http://www.mygrid.org.uk/ontology#protein_structure byte[][] http://www.mygrid.org.uk/ontology#displaying http://www.mygrid.org.uk/ontology#protein_composition Soaplab service