*/
package jalview.fts.service.pdb;
+import java.io.File;
+import java.io.FileInputStream;
+import java.io.FileReader;
import java.net.URI;
+import java.nio.CharBuffer;
import java.util.ArrayList;
import java.util.Collection;
import java.util.Iterator;
*
* @author tcnofoegbu
*/
-public class PDBFTSRestClient extends FTSRestClient implements StructureFTSRestClientI
+public class PDBFTSRestClient extends FTSRestClient
+ implements StructureFTSRestClientI
{
private static FTSRestClientI instance = null;
// Build request parameters for the REST Request
- // BH 2018 the trick here is to coerce the classes in Javascript to be
- // different from the ones in Java yet still allow this to be correct for Java
+ // BH 2018 the trick here is to coerce the classes in Javascript to be
+ // different from the ones in Java yet still allow this to be correct for
+ // Java
Client client;
Class<ClientResponse> clientResponseClass;
if (Platform.isJS())
URI uri = webResource.getURI();
System.out.println(uri);
- ClientResponse clientResponse =null;
- int responseStatus = -1;
+ ClientResponse clientResponse = null;
+ int responseStatus = -1;
// Get the JSON string from the response object or directly from the
// client (JavaScript)
Map<String, Object> jsonObj = null;
else
{
// mock response
- if (uri.toString().equals(mockQuery))
+ if (mockQueries.containsKey(uri.toString()))
{
responseStatus = 200;
}
if (isMocked())
{
- responseString = mockResponse;
+ responseString = mockQueries.get(uri.toString());
}
else
{
}
break;
case 400:
- throw new Exception(isMocked() ? "400 response (Mocked)" : parseJsonExceptionString(responseString));
+ throw new Exception(isMocked() ? "400 response (Mocked)"
+ : parseJsonExceptionString(responseString));
default:
throw new Exception(
getMessageByHTTPStatusCode(responseStatus, "PDB"));
return parsePDBJsonResponse(responseString, jsonObj, pdbRestRequest);
} catch (Exception e)
{
- if (e.getMessage()==null)
+ if (e.getMessage() == null)
{
- throw(e);
+ throw (e);
}
String exceptionMsg = e.getMessage();
if (exceptionMsg.contains("SocketException"))
* @return the processed error message from the JSON string
*/
@SuppressWarnings("unchecked")
-public static String parseJsonExceptionString(String jsonErrorResponse)
+ public static String parseJsonExceptionString(String jsonErrorResponse)
{
StringBuilder errorMessage = new StringBuilder(
"\n============= PDB Rest Client RunTime error =============\n");
-
-// {
-// "responseHeader":{
-// "status":0,
-// "QTime":0,
-// "params":{
-// "q":"(text:q93xj9_soltu) AND molecule_sequence:['' TO *] AND status:REL",
-// "fl":"pdb_id,title,experimental_method,resolution",
-// "start":"0",
-// "sort":"overall_quality desc",
-// "rows":"500",
-// "wt":"json"}},
-// "response":{"numFound":1,"start":0,"docs":[
-// {
-// "experimental_method":["X-ray diffraction"],
-// "pdb_id":"4zhp",
-// "resolution":2.46,
-// "title":"The crystal structure of Potato ferredoxin I with 2Fe-2S cluster"}]
-// }}
-//
+ // {
+ // "responseHeader":{
+ // "status":0,
+ // "QTime":0,
+ // "params":{
+ // "q":"(text:q93xj9_soltu) AND molecule_sequence:['' TO *] AND status:REL",
+ // "fl":"pdb_id,title,experimental_method,resolution",
+ // "start":"0",
+ // "sort":"overall_quality desc",
+ // "rows":"500",
+ // "wt":"json"}},
+ // "response":{"numFound":1,"start":0,"docs":[
+ // {
+ // "experimental_method":["X-ray diffraction"],
+ // "pdb_id":"4zhp",
+ // "resolution":2.46,
+ // "title":"The crystal structure of Potato ferredoxin I with 2Fe-2S
+ // cluster"}]
+ // }}
+ //
try
{
- Map<String, Object> jsonObj = (Map<String, Object>) JSONUtils.parse(jsonErrorResponse);
- Map<String, Object> errorResponse = (Map<String, Object>) jsonObj.get("error");
+ Map<String, Object> jsonObj = (Map<String, Object>) JSONUtils
+ .parse(jsonErrorResponse);
+ Map<String, Object> errorResponse = (Map<String, Object>) jsonObj
+ .get("error");
Map<String, Object> responseHeader = (Map<String, Object>) jsonObj
.get("responseHeader");
- Map<String, Object> paramsObj = (Map<String, Object>) responseHeader.get("params");
+ Map<String, Object> paramsObj = (Map<String, Object>) responseHeader
+ .get("params");
String status = responseHeader.get("status").toString();
String message = errorResponse.get("msg").toString();
String query = paramsObj.get("q").toString();
{
if (jsonObj == null)
{
- jsonObj = (Map<String, Object>) JSONUtils.parse(pdbJsonResponseString);
+ jsonObj = (Map<String, Object>) JSONUtils
+ .parse(pdbJsonResponseString);
}
- Map<String, Object> pdbResponse = (Map<String, Object>) jsonObj.get("response");
- String queryTime = ((Map<String, Object>) jsonObj.get("responseHeader"))
- .get("QTime").toString();
+ Map<String, Object> pdbResponse = (Map<String, Object>) jsonObj
+ .get("response");
+ String queryTime = ((Map<String, Object>) jsonObj
+ .get("responseHeader")).get("QTime").toString();
int numFound = Integer
.valueOf(pdbResponse.get("numFound").toString());
List<Object> docs = (List<Object>) pdbResponse.get("docs");
- result = new ArrayList<FTSData>();
+ result = new ArrayList<FTSData>();
if (numFound > 0)
{
- for (Iterator<Object> docIter = docs.iterator(); docIter
- .hasNext();)
+ for (Iterator<Object> docIter = docs.iterator(); docIter.hasNext();)
{
Map<String, Object> doc = (Map<String, Object>) docIter.next();
result.add(getFTSData(doc, pdbRestRequest));
}
}
- searchResult.setNumberOfItemsFound(result.size());
+ // this is the total number found by the query,
+ // rather than the set returned in SearchSummary
+ searchResult.setNumberOfItemsFound(numFound);
searchResult.setResponseTime(queryTime);
searchResult.setSearchSummary(result);
for (FTSDataColumnI field : diplayFields)
{
- //System.out.println("Field " + field);
+ // System.out.println("Field " + field);
String fieldData = (pdbJsonDoc.get(field.getCode()) == null) ? ""
: pdbJsonDoc.get(field.getCode()).toString();
- //System.out.println("Field Data : " + fieldData);
+ // System.out.println("Field Data : " + fieldData);
if (field.isPrimaryKeyColumn())
{
primaryKey = fieldData;
}
private Collection<FTSDataColumnI> allDefaultDisplayedStructureDataColumns;
+
@Override
public Collection<FTSDataColumnI> getAllDefaultDisplayedStructureDataColumns()
{
}
return allDefaultDisplayedStructureDataColumns;
}
+
@Override
- public String[] getPreferencesColumnsFor(PreferenceSource source) {
+ public String[] getPreferencesColumnsFor(PreferenceSource source)
+ {
String[] columnNames = null;
switch (source)
{
}
return columnNames;
}
-
- public static void setMock()
- {
- String mockReq = "https://www.ebi.ac.uk/pdbe/search/pdb/select?wt=json&fl=pdb_id,title,experimental_method,resolution&rows=500&start=0&q=(4igk+OR+1t15+OR+4ifi+OR+1t29+OR+3pxb+OR+4y2g+OR+1y98+OR+1jnx+OR+3pxa+OR+3k0h+OR+3k0k+OR+1n5o+OR+3pxc+OR+3pxd+OR+1t2u+OR+3k15+OR+3pxe+OR+3k16+OR+4ofb+OR+3coj+OR+7lyb+OR+1t2v+OR+4y18+OR+4jlu+OR+4u4a+OR+2ing+OR+7jzv+OR+6g2i+OR+1jm7+OR+1oqa)+AND+molecule_sequence:%5B''+TO+*%5D+AND+status:REL&sort=";
- String mockResp = "{\n"
- + " \"responseHeader\":{\n"
- + " \"status\":0,\n"
- + " \"QTime\":0,\n"
- + " \"params\":{\n"
- + " \"q\":\"(4igk OR 1t15 OR 4ifi OR 1t29 OR 3pxb OR 4y2g OR 1y98 OR 1jnx OR 3pxa OR 3k0h OR 3k0k OR 1n5o OR 3pxc OR 3pxd OR 1t2u OR 3k15 OR 3pxe OR 3k16 OR 4ofb OR 3coj OR 7lyb OR 1t2v OR 4y18 OR 4jlu OR 4u4a OR 2ing OR 7jzv OR 6g2i OR 1jm7 OR 1oqa) AND molecule_sequence:['' TO *] AND status:REL\",\n"
- + " \"fl\":\"pdb_id,title,experimental_method,resolution\",\n"
- + " \"start\":\"0\",\n"
- + " \"sort\":\"\",\n"
- + " \"rows\":\"500\",\n"
- + " \"wt\":\"json\"}},\n"
- + " \"response\":{\"numFound\":64,\"start\":0,\"docs\":[\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"4ofb\",\n"
- + " \"resolution\":3.05,\n"
- + " \"title\":\"Crystal structure of human BRCA1 BRCT in complex with nonphosphopeptide inhibitor\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"3pxe\",\n"
- + " \"resolution\":2.85,\n"
- + " \"title\":\"Impact of BRCA1 BRCT domain missense substitutions on phospho-peptide recognition: E1836K\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"4jlu\",\n"
- + " \"resolution\":3.5,\n"
- + " \"title\":\"Crystal structure of BRCA1 BRCT with doubly phosphorylated Abraxas\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"4y2g\",\n"
- + " \"resolution\":2.5,\n"
- + " \"title\":\"Structure of BRCA1 BRCT domains in complex with Abraxas single phosphorylated peptide\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"Solution NMR\"],\n"
- + " \"pdb_id\":\"1oqa\",\n"
- + " \"title\":\"Solution structure of the BRCT-c domain from human BRCA1\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"4u4a\",\n"
- + " \"resolution\":3.51,\n"
- + " \"title\":\"Complex Structure of BRCA1 BRCT with singly phospho Abraxas\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"1t2v\",\n"
- + " \"resolution\":3.3,\n"
- + " \"title\":\"Structural basis of phospho-peptide recognition by the BRCT domain of BRCA1, structure with phosphopeptide\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"3k15\",\n"
- + " \"resolution\":2.8,\n"
- + " \"title\":\"Crystal Structure of BRCA1 BRCT D1840T in complex with a minimal recognition tetrapeptide with an amidated C-terminus\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"1t15\",\n"
- + " \"resolution\":1.85,\n"
- + " \"title\":\"Crystal Structure of the Brca1 BRCT Domains in Complex with the Phosphorylated Interacting Region from Bach1 Helicase\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"3k16\",\n"
- + " \"resolution\":3.0,\n"
- + " \"title\":\"Crystal Structure of BRCA1 BRCT D1840T in complex with a minimal recognition tetrapeptide with a free carboxy C-terminus\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"1t29\",\n"
- + " \"resolution\":2.3,\n"
- + " \"title\":\"Crystal structure of the BRCA1 BRCT repeats bound to a phosphorylated BACH1 peptide\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"1y98\",\n"
- + " \"resolution\":2.5,\n"
- + " \"title\":\"Structure of the BRCT repeats of BRCA1 bound to a CtIP phosphopeptide.\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"4ifi\",\n"
- + " \"resolution\":2.2,\n"
- + " \"title\":\"Structure of human BRCA1 BRCT in complex with BAAT peptide\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"3k0k\",\n"
- + " \"resolution\":2.7,\n"
- + " \"title\":\"Crystal Structure of BRCA1 BRCT in complex with a minimal recognition tetrapeptide with a free carboxy C-terminus.\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"3k0h\",\n"
- + " \"resolution\":2.7,\n"
- + " \"title\":\"The crystal structure of BRCA1 BRCT in complex with a minimal recognition tetrapeptide with an amidated C-terminus\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"3pxd\",\n"
- + " \"resolution\":2.8,\n"
- + " \"title\":\"Impact of BRCA1 BRCT domain missense substitutions on phospho-peptide recognition: R1835P\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"3pxc\",\n"
- + " \"resolution\":2.8,\n"
- + " \"title\":\"Impact of BRCA1 BRCT domain missense substitutions on phospho-peptide recognition: R1699Q\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"3pxa\",\n"
- + " \"resolution\":2.55,\n"
- + " \"title\":\"Impact of BRCA1 BRCT domain missense substitutions on phospho-peptide recognition: G1656D\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"1jnx\",\n"
- + " \"resolution\":2.5,\n"
- + " \"title\":\"Crystal structure of the BRCT repeat region from the breast cancer associated protein, BRCA1\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"4igk\",\n"
- + " \"resolution\":1.75,\n"
- + " \"title\":\"Structure of human BRCA1 BRCT in complex with ATRIP peptide\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"Solution NMR\"],\n"
- + " \"pdb_id\":\"1jm7\",\n"
- + " \"title\":\"Solution structure of the BRCA1/BARD1 RING-domain heterodimer\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"4jlu\",\n"
- + " \"resolution\":3.5,\n"
- + " \"title\":\"Crystal structure of BRCA1 BRCT with doubly phosphorylated Abraxas\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"Electron Microscopy\"],\n"
- + " \"pdb_id\":\"6g2i\",\n"
- + " \"resolution\":5.9,\n"
- + " \"title\":\"Filament of acetyl-CoA carboxylase and BRCT domains of BRCA1 (ACC-BRCT) at 5.9 A resolution\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"3coj\",\n"
- + " \"resolution\":3.21,\n"
- + " \"title\":\"Crystal Structure of the BRCT Domains of Human BRCA1 in Complex with a Phosphorylated Peptide from Human Acetyl-CoA Carboxylase 1\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"3pxb\",\n"
- + " \"resolution\":2.5,\n"
- + " \"title\":\"Impact of BRCA1 BRCT domain missense substitutions on phospho-peptide recognition: T1700A\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"1t2u\",\n"
- + " \"resolution\":2.8,\n"
- + " \"title\":\"Structural basis of phosphopeptide recognition by the BRCT domain of BRCA1: structure of BRCA1 missense variant V1809F\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"1n5o\",\n"
- + " \"resolution\":2.8,\n"
- + " \"title\":\"Structural consequences of a cancer-causing BRCA1-BRCT missense mutation\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"4u4a\",\n"
- + " \"resolution\":3.51,\n"
- + " \"title\":\"Complex Structure of BRCA1 BRCT with singly phospho Abraxas\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"4y2g\",\n"
- + " \"resolution\":2.5,\n"
- + " \"title\":\"Structure of BRCA1 BRCT domains in complex with Abraxas single phosphorylated peptide\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"3pxe\",\n"
- + " \"resolution\":2.85,\n"
- + " \"title\":\"Impact of BRCA1 BRCT domain missense substitutions on phospho-peptide recognition: E1836K\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"4ofb\",\n"
- + " \"resolution\":3.05,\n"
- + " \"title\":\"Crystal structure of human BRCA1 BRCT in complex with nonphosphopeptide inhibitor\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"4y18\",\n"
- + " \"resolution\":3.5,\n"
- + " \"title\":\"Structure of BRCA1 BRCT domains in complex with Abraxas double phosphorylated peptide\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"2ing\",\n"
- + " \"resolution\":3.6,\n"
- + " \"title\":\"X-ray Structure of the BRCA1 BRCT mutant M1775K\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"1t29\",\n"
- + " \"resolution\":2.3,\n"
- + " \"title\":\"Crystal structure of the BRCA1 BRCT repeats bound to a phosphorylated BACH1 peptide\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"1t2v\",\n"
- + " \"resolution\":3.3,\n"
- + " \"title\":\"Structural basis of phospho-peptide recognition by the BRCT domain of BRCA1, structure with phosphopeptide\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"1t15\",\n"
- + " \"resolution\":1.85,\n"
- + " \"title\":\"Crystal Structure of the Brca1 BRCT Domains in Complex with the Phosphorylated Interacting Region from Bach1 Helicase\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"Solution NMR\"],\n"
- + " \"pdb_id\":\"1jm7\",\n"
- + " \"title\":\"Solution structure of the BRCA1/BARD1 RING-domain heterodimer\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"4ifi\",\n"
- + " \"resolution\":2.2,\n"
- + " \"title\":\"Structure of human BRCA1 BRCT in complex with BAAT peptide\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"4igk\",\n"
- + " \"resolution\":1.75,\n"
- + " \"title\":\"Structure of human BRCA1 BRCT in complex with ATRIP peptide\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"1y98\",\n"
- + " \"resolution\":2.5,\n"
- + " \"title\":\"Structure of the BRCT repeats of BRCA1 bound to a CtIP phosphopeptide.\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"3k15\",\n"
- + " \"resolution\":2.8,\n"
- + " \"title\":\"Crystal Structure of BRCA1 BRCT D1840T in complex with a minimal recognition tetrapeptide with an amidated C-terminus\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"3k0k\",\n"
- + " \"resolution\":2.7,\n"
- + " \"title\":\"Crystal Structure of BRCA1 BRCT in complex with a minimal recognition tetrapeptide with a free carboxy C-terminus.\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"3k16\",\n"
- + " \"resolution\":3.0,\n"
- + " \"title\":\"Crystal Structure of BRCA1 BRCT D1840T in complex with a minimal recognition tetrapeptide with a free carboxy C-terminus\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"3k0h\",\n"
- + " \"resolution\":2.7,\n"
- + " \"title\":\"The crystal structure of BRCA1 BRCT in complex with a minimal recognition tetrapeptide with an amidated C-terminus\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"4y18\",\n"
- + " \"resolution\":3.5,\n"
- + " \"title\":\"Structure of BRCA1 BRCT domains in complex with Abraxas double phosphorylated peptide\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"X-ray diffraction\"],\n"
- + " \"pdb_id\":\"3coj\",\n"
- + " \"resolution\":3.21,\n"
- + " \"title\":\"Crystal Structure of the BRCT Domains of Human BRCA1 in Complex with a Phosphorylated Peptide from Human Acetyl-CoA Carboxylase 1\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"Electron Microscopy\"],\n"
- + " \"pdb_id\":\"7jzv\",\n"
- + " \"resolution\":3.9,\n"
- + " \"title\":\"Cryo-EM structure of the BRCA1-UbcH5c/BARD1 E3-E2 module bound to a nucleosome\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"Electron Microscopy\"],\n"
- + " \"pdb_id\":\"7jzv\",\n"
- + " \"resolution\":3.9,\n"
- + " \"title\":\"Cryo-EM structure of the BRCA1-UbcH5c/BARD1 E3-E2 module bound to a nucleosome\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"Electron Microscopy\"],\n"
- + " \"pdb_id\":\"7lyb\",\n"
- + " \"resolution\":3.28,\n"
- + " \"title\":\"Cryo-EM structure of the human nucleosome core particle in complex with BRCA1-BARD1-UbcH5c\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"Electron Microscopy\"],\n"
- + " \"pdb_id\":\"7lyb\",\n"
- + " \"resolution\":3.28,\n"
- + " \"title\":\"Cryo-EM structure of the human nucleosome core particle in complex with BRCA1-BARD1-UbcH5c\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"Electron Microscopy\"],\n"
- + " \"pdb_id\":\"7lyb\",\n"
- + " \"resolution\":3.28,\n"
- + " \"title\":\"Cryo-EM structure of the human nucleosome core particle in complex with BRCA1-BARD1-UbcH5c\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"Electron Microscopy\"],\n"
- + " \"pdb_id\":\"7jzv\",\n"
- + " \"resolution\":3.9,\n"
- + " \"title\":\"Cryo-EM structure of the BRCA1-UbcH5c/BARD1 E3-E2 module bound to a nucleosome\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"Electron Microscopy\"],\n"
- + " \"pdb_id\":\"7lyb\",\n"
- + " \"resolution\":3.28,\n"
- + " \"title\":\"Cryo-EM structure of the human nucleosome core particle in complex with BRCA1-BARD1-UbcH5c\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"Electron Microscopy\"],\n"
- + " \"pdb_id\":\"7jzv\",\n"
- + " \"resolution\":3.9,\n"
- + " \"title\":\"Cryo-EM structure of the BRCA1-UbcH5c/BARD1 E3-E2 module bound to a nucleosome\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"Electron Microscopy\"],\n"
- + " \"pdb_id\":\"7lyb\",\n"
- + " \"resolution\":3.28,\n"
- + " \"title\":\"Cryo-EM structure of the human nucleosome core particle in complex with BRCA1-BARD1-UbcH5c\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"Electron Microscopy\"],\n"
- + " \"pdb_id\":\"7jzv\",\n"
- + " \"resolution\":3.9,\n"
- + " \"title\":\"Cryo-EM structure of the BRCA1-UbcH5c/BARD1 E3-E2 module bound to a nucleosome\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"Electron Microscopy\"],\n"
- + " \"pdb_id\":\"7lyb\",\n"
- + " \"resolution\":3.28,\n"
- + " \"title\":\"Cryo-EM structure of the human nucleosome core particle in complex with BRCA1-BARD1-UbcH5c\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"Electron Microscopy\"],\n"
- + " \"pdb_id\":\"7lyb\",\n"
- + " \"resolution\":3.28,\n"
- + " \"title\":\"Cryo-EM structure of the human nucleosome core particle in complex with BRCA1-BARD1-UbcH5c\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"Electron Microscopy\"],\n"
- + " \"pdb_id\":\"7lyb\",\n"
- + " \"resolution\":3.28,\n"
- + " \"title\":\"Cryo-EM structure of the human nucleosome core particle in complex with BRCA1-BARD1-UbcH5c\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"Electron Microscopy\"],\n"
- + " \"pdb_id\":\"7jzv\",\n"
- + " \"resolution\":3.9,\n"
- + " \"title\":\"Cryo-EM structure of the BRCA1-UbcH5c/BARD1 E3-E2 module bound to a nucleosome\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"Electron Microscopy\"],\n"
- + " \"pdb_id\":\"6g2i\",\n"
- + " \"resolution\":5.9,\n"
- + " \"title\":\"Filament of acetyl-CoA carboxylase and BRCT domains of BRCA1 (ACC-BRCT) at 5.9 A resolution\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"Electron Microscopy\"],\n"
- + " \"pdb_id\":\"7jzv\",\n"
- + " \"resolution\":3.9,\n"
- + " \"title\":\"Cryo-EM structure of the BRCA1-UbcH5c/BARD1 E3-E2 module bound to a nucleosome\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"Electron Microscopy\"],\n"
- + " \"pdb_id\":\"7lyb\",\n"
- + " \"resolution\":3.28,\n"
- + " \"title\":\"Cryo-EM structure of the human nucleosome core particle in complex with BRCA1-BARD1-UbcH5c\"},\n"
- + " {\n"
- + " \"experimental_method\":[\"Electron Microscopy\"],\n"
- + " \"pdb_id\":\"7jzv\",\n"
- + " \"resolution\":3.9,\n"
- + " \"title\":\"Cryo-EM structure of the BRCA1-UbcH5c/BARD1 E3-E2 module bound to a nucleosome\"}]\n"
- + " }}";
- createMockFTSRestClient((FTSRestClient)getInstance(), mockReq, mockResp);
- }
}
git://source.jalview.org / jalview.git / blobdiff