private static char getOneLetter(Group g){ if (g==null) return StructureTools.UNKNOWN_GROUP_LABEL; return StructureTools.get1LetterCode(g.getPDBName()); }
private static char getOneLetter(Group g){ if (g==null) return StructureTools.UNKNOWN_GROUP_LABEL; return StructureTools.get1LetterCode(g.getPDBName()); }
private static char getOneLetter(Group g){ if (g==null) return StructureTools.UNKNOWN_GROUP_LABEL; return StructureTools.get1LetterCode(g.getPDBName()); }
private static char getOneLetter(Group g){ if (g==null) return StructureTools.UNKNOWN_GROUP_LABEL; return StructureTools.get1LetterCode(g.getPDBName()); }
private static char getOneLetter(Group g){ if (g==null) return StructureTools.UNKNOWN_GROUP_LABEL; return StructureTools.get1LetterCode(g.getPDBName()); }
private static char getOneLetter(Group g){ return StructureTools.get1LetterCode(g.getPDBName()); }
/** * Get the protein sequence of the Subunit as String. * * @return protein sequence String */ public String getProteinSequenceString() { if (sequence != null) return sequence.toString(); StringBuilder builder = new StringBuilder(); for (Atom a : reprAtoms) // This method preferred over getChemComp.getOneLetterCode because // it returns always X for Unknown residues builder.append(StructureTools.get1LetterCode(a.getGroup() .getPDBName())); return builder.toString(); }
i.append(state.getTurn()[2]); ss.append(state.getType()); aa.append(StructureTools.get1LetterCode(groups[k].getPDBName()));
Character aminoCode1 = StructureTools.get1LetterCode(residueName); if (aminoCode1 != null) { if (aminoCode1.equals(StructureTools.UNKNOWN_GROUP_LABEL)) {
char aaLetter = StructureTools.get1LetterCode(parent.getPDBName()); buf.append(aaLetter).append(" ");
Atom a = atoms.get(str)[residue]; String g = a.getGroup().getPDBName(); char aa = StructureTools.get1LetterCode(g); provisionalChar[str] = aa; Atom a = atoms.get(str)[residue]; String g = a.getGroup().getPDBName(); char aa = StructureTools.get1LetterCode(g); provisionalChar[str] = aa; } else { String g = a.getGroup().getPDBName(); char aa = StructureTools .get1LetterCode(g); alnSequences.set( s2,
aminoCode1 = StructureTools.get1LetterCode(threeLetter);
String group = a.getGroup().getPDBName(); provisionalChar[str] = StructureTools .get1LetterCode(group); Atom a = atoms.get(str)[nextPos]; String g = a.getGroup().getPDBName(); char aa = StructureTools.get1LetterCode(g); provisionalChar[str] = Character .toLowerCase(aa); String group = a.getGroup().getPDBName(); provisionalChar[str] = StructureTools .get1LetterCode(group); } else { char aa = StructureTools.get1LetterCode(group); alnSequences .set(str, Atom a = atoms.get(str)[previousPos[str] + 1]; String group = a.getGroup().getPDBName(); char letter = StructureTools.get1LetterCode(group);
Character aminoCode1 = StructureTools.get1LetterCode(groupCode3);