From: Annotation of protein residues based on a literature analysis: cross-validation against UniProtKb
RANGE-TO | = ("-"+ ("to" "-+")? |"to"); |
---|---|
CONVERT-TO | = ("to"|"-"+">"?); |
XAA | = ("X"|"XAA"|"xaa"); |
POS | = (1–9)(0–9)*; |
RESN1 | = [ARNDCQEGHILKMFPSTWYVOUBZX]; |
RESN3 | = ([aA]la|ALA | [aA]rg|ARG | [aA]sn|ASN | [aA]sp|ASP | [cC]ys|CYS |
 |    | [gG]ln|GLN | [gG]lu|GLU | [gG]ly|GLY | [hH]is|HIS | [iI]le|ILE |
 |    | [lL]eu|LEU | [lL]ys|LYS | [mM]et|MET | [pP]he|PHE | [pP]ro|PRO |
 |    | [sS]er|SER | [tT]hr|THR | [tT]rp|TRP | [tT]yr|TYR | [vV]al|VAL |
 |    | [pP]yl|PYL | [sS]ec|SEC | [aA]sx|ASX | [gG]lx|GLX | [xX]aa|XAA); |
RESNF | = ([aA]lanine | [aA]rginine | [aA]sparagine | [aA]spart(ate|ic acid) | [cC]ysteine |
 |    | [gG]lutamine | [gG]lutam(ate|ic acid) | [gG]lycine | [hH]istidine | [iI]soleucine |
 |    | [lL]eucine | [lL]ysine | [mM]ethionine | [pP]henylalanine | [pP]roline |
 |    | [sS]erine | [tT]hreonine | [tT]ryptophan | [tT]yrosine | [vV]aline |
 |    | [pP]yrrolysine | [sS]elenocysteine | [aA]spartic acid or [aA]sparagine |
 |    | [gG]lutamic acid or [gG]lutamine); |
SITE | = ((RESN3 | RESNF) POS "residue"? |
 |    | (RESN3 | RESNF)"-"+ POS "residue"? |
 |    | (RESN3 | RESNF)"residue"? "at position"? POS "residue"? |
 |    | (RESN3 | RESNF)"("POS")" "residue"? |
 |    |"amino acid"? "residue" "at position"? POS |
 |    |"amino acid" "residue"? "at position"? POS |
 |    | RESNF "residue" POS); |
SITES | = (RESNF"s"((","|"and"|"or") RESNF"s")* |
 |    | RESNF"s"? ("at position" "s"?)? (","|"and"|"or") (("at position" "s"?)? (","|"and |
 |    |"or") POS)+ |
 |    | RESNF "residue" "s"? |
 |    | RESN3 "residue" "s"? ("at position" "s"?)? POS (("at position" "s"?)? (","|"and" | "or") POS)+ |
 |    | RESN3 "residue" "s"? |
 |    |"residue" "s"? ("at position" "s"?)? POS (","|"and"|"or") POS)+ |
 |    | (RESN3 | RESNF)"for"(RESN3 | RESNF)"at position"POS (","|"and"|"or") POS)+ |
 |    | RESNF ("," | "and" | "or") POS)* "residue" "s"?); |
RANGE/PAIR | = ("residue" "s"? ("," | "and" | "or") RANGE-TO POS)+ |
 |    |"amino acid" "residue"? "s"? ("," | "and" | "or") RANGE-TO POS)+ |
 |    | ("resiude" "s"?)? "at position" "s"? ("," | "and" | "or") RANGE-TO POS)+ |
 |    | RESI RANGE-TO RESI); |
MUTATION | = (RESN1 POS RESN1 |
 |    | RESN1 "-" POS "-" RESN1 |
 |    | RESN1 "(" POS ")" RESN1 |
 |    | RESI CONVERT-TO (RESN3 | RESNF) |
 |    | RESI RESN3 |
 |    |"from" (RESNF | RESN3) CONVERT-TO (RESNF | RESN3)"at position"POS |
 |    | (RESN3 | RESNF) "for" (RESN3 | RESNF) "at position" POS |
 |    | RESI ("-"+ | CONVERT-TO) RESI "substitution"); |