Entry: PS51526

Forthcoming changes to the profile format
General information about the entry

Entry name [info] RFX_DBD
Accession [info] PS51526
Entry type [info] MATRIX
Date [info] MAR-2011 (CREATED); OCT-2013 (DATA UPDATE); JUL-2014 (INFO UPDATE).
PROSITE Doc. [info] PDOC51526
Associated ProRule [info] PRU00858

Name and characterization of the entry

Description [info] RFX-type winged-helix DNA-binding domain profile.
Matrix / Profile [info]
/GENERAL_SPEC: ALPHABET='ACDEFGHIKLMNPQRSTVWY'; LENGTH=77;
/DISJOINT: DEFINITION=PROTECT; N1=6; N2=72;
/NORMALIZATION: MODE=1; FUNCTION=LINEAR; R1=2.0680783; R2=0.0061025; TEXT='NScore';
/NORMALIZATION: MODE=-1; FUNCTION=LINEAR; R1=9556.57121; R2=14.58040; TEXT='HScore';
/CUT_OFF: LEVEL=0; SCORE=1136; N_SCORE=9.0; H_SCORE=23729; MODE=1; TEXT='!';
/CUT_OFF: LEVEL=-1; SCORE=727; N_SCORE=6.5; H_SCORE=20142; MODE=1; TEXT='?';
/DEFAULT: M0=-105; D=-200; I=-200; B1=-1000; E1=-1000; MI=-380; MD=-380; IM=-380; DM=-380;
...
                A    C    D    E    F    G    H    I    K    L    M    N    P    Q    R    S    T    V    W    Y
/I:         B1=0; BI=-380; BD=-380;
/M: SY='T'; M=  59,  60, -46,-241,-247, -17,  19, -14,-240, -63,   3,  -3,-245,-239,-245,  14,  65, -43,-261,-244;
/M: SY='Y'; M=  -1, -15,-244, -11,   5, -35,  19,  20, -18,  24,   3, -46,-250,  20,  25, -21,  -5, -15,-243,  52;
/M: SY='Q'; M=  43, -49, -50, -10, -39,-243,  14,  -4,  15, -90,  -2, -45,-245,  53,  51, -14,  24, -45,-252, -18;
/M: SY='W'; M=-249,-272,-267,-248, -20,-250,-265,-250, -55,-247,-248,-261, -51,  23,   4, -46, -52,-261, 177,-209;
/I:         I=-61; MI=0; MD=-115; IM=0; DM=-115;
/M: SY='M'; M= -60,-248,-261,-254, -43,-261,  -7,  57,-252,  69,  82,-254,-255,-246,-251,-250,-237,   5,-250,-230;
/M: SY='R'; M= -20,-252,-236, -36,-249, -57,  26, -59,  42, -25,   3,  -9, -44,  34,  73,  30,   5, -78,-255,-239;
/M: SY='C'; M=  34,  82,  24,   2,-249, -72,-239, -31, -13, -22,  27,  -5, -30,  41, -28,  10,  16,-237,-259,-245;
/I:         I=-61; MI=0; MD=-115; IM=0; DM=-115;
/M: SY='N'; M= -26,  53, -43, -32, -31,-242,  71, -42,-235, -24,  47,  80,-249,-234, -25, -24,  34,   9,-264,-236;
/M: SY='F'; M=-247,  61, -18, -50,  88,-257,-235, -32,-245,  14,-226, -35,-260,-248,  -7,-246,-241, -40,-225,  86;
/M: SY='E'; M=   4, -31,   6,  97,-253,-248,-235, -14, -26,-244, -12,-234,-238,  14,-232,  -7, -63,  11,-258,-246;
/M: SY='E'; M=  19, -14, -17,  64,   5, -59, -22, -36, -18, -16, -28,-238,  31,-229,  20,-234,   6,   2,-250,   8;
/I:         I=-33; MI=0; MD=-63; IM=0; DM=-63;
/M: SY='D'; M=  22,  33,  74,  -4, -37, -80,  57,-254, -21,-253,-247,   2,  23, -67, -46,  23, -21,-249,-261,  -5; D=-33;
/I:         I=-33; DM=-63;
/M: SY='P'; M=  12,-252,   2,  34,-254, -26,-239,-247, -12, -24,   1,  -2,  72,   6,-239,  34,  22,-244,-258,-248; D=-33;
/I:         I=-33; DM=-63;
/M: SY='D'; M= -22,-253,  67,  20,-255,  58,  35, -46, -44,-255,-248,  40,-245, -38,-241, -30, -19, -66,-261, -30; D=-33;
/I:         I=-33; MI=0; MD=-63; IM=0; DM=-63;
/M: SY='G'; M=  31,  19, -36, -30, -60,  47,-247,-232,-244, -73,   2,-236,-248,-242,-249,  29,  22,  45,-255,  -1; D=-33;
/I:         I=-33; MI=0; MD=-63; IM=0; DM=-63;
/M: SY='C'; M=  -4,  66, -64,  52,  -9, -43,-238,-244, -50, -50,-240, -51, -35,  21, -12,  62, -22, -10,-254,  -7;
/M: SY='V'; M=-236, -18,-259,-254,-227, -43,-254,  52,-252,  47,  23,-254, -26,-250,-254,-246, -29,  73,-256,-236;
/M: SY='P'; M=   6,-254, -38,   1,-254, -91,-243,-245, -33, -36,-241,-238, 103, -12, -38, -32,  60,-243,-257,-251;
/M: SY='Q'; M= -45,-259,-236,-221,-257,-248,-229,-254,  25,-250,-238,-230,-247, 101,  94, -55,-239, -56,-251,-240;
/M: SY='Q'; M= -55,  31,-240, -20,-243,  17, -28,  46,-236, -27,-230,  28,-248,  66, -43,  26, -38,  29,-257,-241;
/M: SY='D'; M=  20,-251,  47,  46, -57, -10,  -7,  -8, -33, -54,  -5,-229, -22,  28, -15,  31,   1, -45,-258,-243;
/M: SY='L'; M= -54,-247,-260,-254,   6,-261,-252,  54,-253,  59,  30,-255, -26,-250,-253,-248, -48,  54,-251,-231;
/M: SY='W'; M= -52,-262,-255,-250,   4,-253,-229,-239, -33,-235,-234,-253,-258,-241, -44,-246, -49,-245, 134, 122;
/I:         I=-61; MI=0; MD=-115; IM=0; DM=-115;
/M: SY='Q'; M=  32,-249,  27, -28, -55, -29, -10, -51,  35, -42,-240,  48,-244,  53,  -7,  -3,  26,-242,-257,-242;
/M: SY='H'; M=  50,-247,  12,  35,-246,-240,  63, -30, -58,   2,  -7, -24,-244, -47, -20,  26,  13, -40,-259,-239;
/M: SY='Y'; M=-248,-259, -32,-247, -37,-254,-216,-235, -13,-232,-228,-246,-259,-236, -44,-243,-242,-240,-207, 141;
/M: SY='R'; M= -52,  -4,-240,  -9, -47,-251,  -7, -41,  16,  24,-228,  16,-250,  51,  57,-236, -10,  36,-253, -27;
/M: SY='D'; M=  31,-249,  50,  29,-251, -59,-237,   8,  13,-244,  -7,-228,-242,   6,  24,  31,  27, -67,-258,-244;
/I:         I=-61; MI=0; MD=-115; IM=0; DM=-115;
/M: SY='F'; M= -43,-249,-251,-249,  91,-253,  58, -18,-246,  11,  -7, -42, -35,-246, -65,   0,  -3, -30,-231,  54;
/M: SY='C'; M= -16, 130,-243,  12, -39,-248,-246,-246,-239, -28,-240, -31, -18,  -4,   0,   5,  29, -49,-265,-248;
/M: SY='Q'; M=  -3,-255, -13,  63, -37, -37,  22, -41,   7,-250,-242,  33,  33,  74, -59,  -1,-234,-249,-256,-243;
/M: SY='K'; M= -54,-253, -46,  21,   7,-245,  25, -46,  61, -54,-239,  14,  15,   4,  36,  26, -40, -60,-249,  11;
/M: SY='H'; M=   6,  18,-243, -10,  -5,-249,  69,-228,-239,  51,  45,  22,-252,  34, -48, -72,-238, -42,  12,  28;
/M: SY='K'; M=  21,  -8, -21, -41,-253,  31,  35, -27,  68,-250,-242,  38,-244,  -1, -65,  22,-232, -51,-256,-243;
/I:         I=-18; MD=-33;
/M: SY='C'; M=   3,  36,-256, -21,-267,-260,-256, -56, -23, -78,   6, -19,  -4,   1,  35,  22, -12, -55,-275,-262; D=-18;
/I:         I=-18; MD=-33;
/M: SY='M'; M= -54,  36, -11, -18, -28, -24,-243,  35,  -1,  17,  44, -44,-249, -25,-243,  25,  28,  -7,-252,   6; D=-18;
/I:         I=-18; MD=-33;
/M: SY='S'; M= -25,-253,   3,   3,-250,  28,  35,-247,  -1, -72,-243, -56,  38,   5,  11,  42,  -1,  -6,-256,  -1; D=-18;
/I:         I=-18; MI=0; MD=-33; IM=0; DM=-33;
/M: SY='P'; M= -30,-259,-255,-247,-243, -54, -28,  12,-249,  31,  50,-253,  90, -49,-255, -60, -24,   1,-259,-247; D=-18;
/I:         I=-18; MI=0; MD=-33; IM=0; DM=-33;
/M: SY='L'; M=  -2,-249,-260,-255, -33, -15,-251,  52,-254,  70,  14,-255,-257,-249,-254,-248,-238,  19,-251,-234; D=-18;
/I:         I=-18; DM=-33;
/M: SY='S'; M= -15,  46,  -2,-238,-254,  21,-239,-249,-237,-254,-247,  62,  36,-235,-244,  69,  12, -28,-264,-250; D=-18;
/I:         I=-18; DM=-33;
/M: SY='A'; M=  71,-245,-242,-235,-250, -59,-244, -35,-236, -54,-237, -42,  53,  31, -42,  12,  39, -10,-256,-246;
/M: SY='A'; M=  78,-241,-241, -43,-249, -62,-244,-237, -59, -38,-237,-234, -12, -14,-242,  49,  31,   2,-256,-245;
/M: SY='D'; M= -69,-250,  73,  39,-252, -41,  35,-248, -25,-249,   2,  28,-242,   3,-235,  43,  19, -22,-263, -28;
/M: SY='F'; M= -60,-247,-263,-258, 122,-259,-246,-221,-254,  -7, -26,-253,-261,-262,-252,-249, -44,  14,-224,-202;
/M: SY='G'; M= -58,-253,-246,-251,-243,  79,   4,  70,-247,-236,-234,-235,  14,-244,-253, -15,   2,-227,-251, -30;
/M: SY='K'; M=-239,-253,-232,-223,-255, -45,-233,-256, 102,-255,-243,  29,-243,-219,  55, -35, -15,-251,-252,-243;
/M: SY='N'; M= -41,  38,-244,-247, -17, -48,-241,  29,-244,  52,  -3,  65,-255, -13,-247,-239, -21,  26,-253, -18;
/M: SY='M'; M= -54,-247,-258,-254,-230,-258,-253,  69,-250, -44,  79,-250,-252,-248,-252, -13, -42,  77,-257,-235;
/I:         I=-9; MD=-17;
/M: SY='R'; M=-236,-252,-235, -43,-252,-245,  15,-253,  61,-251,  -7, -15,-245,-222,  84,  43,  28,-248,-256,-241; D=-9;
/I:         I=-9; MD=-17;
/M: SY='H'; M=  23, -26, -40,  38,-245,-243,  61,  15, -53,   2,-233,  19,-245,  25, -12,  31,   5, -48,-259,-239; D=-9;
/I:         I=-9; MD=-17;
/M: SY='V'; M=  18,  16,-256, -67, -46,-256,-257,  49, -21, -10, -26,-250,-253,-249,-250,-240,   1,  76,-259,-239; D=-9;
/I:         I=-9; MD=-17;
/M: SY='F'; M=-253,-252,-262,-259, 119,-260, -20,-229,-254, -77,-229,-254,-264,-259,-251,-251,-246,-235,-217,  79; D=-9;
/I:         I=-9; MI=0; MD=-17; IM=0; DM=-17;
/M: SY='P'; M=-240,-262,-243,-235,-260, -28,  -6,-250, -43,-256,  23, -13, 120,-241,-248,  18, -19,-253,-259,-255; D=-9;
/I:         I=-9; DM=-17;
/M: SY='N'; M= -32,-251,  49, -41,-254,  52,  12, -51, -68,-255,-247,  67,-246,  15, -28,  20,   8,-251,-260, -29; D=-9;
/I:         I=-9; DM=-17;
/M: SY='A'; M=  53,-244, -31, -13,-238,-244,-248,  26,-243,  19,  -3,-241,-247,-240,-247,  10,  38,  36,-257,-241; D=-9;
/I:         I=-9; MI=0; MD=-17; IM=0; DM=-17;
/M: SY='Q'; M= -36,-253,-237, -22,-248,  19,  23, -38,  55, -16,-237, -20,-246,  56,  41,  11, -60, -19,-252, -20; D=-9;
/I:         I=-9; MI=0; MD=-17; IM=0; DM=-17;
/M: SY='A'; M=  66,  -4, -31,-240, -24,-241,-248,  22,-242, -55,-237, -44,   9,  12,-247,  -1,  57,-230,-258,-245; D=-9;
/I:         I=-9; DM=-17;
/M: SY='R'; M=-242,-258,-242, -10,-250,-254, -12,-244,  32, -42,  53,-237,-251,  28,  92, -17,-240,  -1,-256,-241; D=-9;
/I:         I=-9; DM=-17;
/M: SY='R'; M=-241,  -4,  -6, -38,-248,-257,-242, -50, -10,-239,   2,-240, -35,-231,  92,-241,  -8,  55,-261,-243; D=-9;
/I:         I=-9; MI=0; MD=-17; IM=0; DM=-17;
/M: SY='L'; M= -64,-249,-262,-254, -33, -54,-252,  -4,-254,  70,  24,-257,-259, -14,-253,-250, -42,  53,  17,-234; D=-9;
/I:         I=-9; DM=-17;
/M: SY='G'; M= -26,-255,   6, -16,-258,  73,-243,-254, -48, -50,  -1,  -6,  32,  25, -37, -18,  -1, -65,-258,-252; D=-9;
/I:         I=-9; DM=-17;
/M: SY='T'; M=  14,-248,   6, -18,-243,  24,  11, -28,-240, -47,  23,   7,-247,  -1,-244,  -1,  49,  32,-257,   9; D=-9;
/I:         I=-9; DM=-17;
/M: SY='R'; M=   0,-255,   1, -24,-255, -31,-234,-254, -18, -63,-242, -13,  34,  28,  88,   6,   1,-249,-256,-244; D=-9;
/I:         I=-9; DM=-17;
/M: SY='G'; M= -70,-252,   3,-242,-258,  88,-242,-259, -44,-260,-250,  40,   1, -31,-246,  25, -33, -65,-257,-252; D=-9;
/I:         I=-9; DM=-17;
/M: SY='Q'; M= -14,-255,-231,  29,-256,  32,  47, -48, -23, -38,-241,  50,-246,  70,  -4, -35,   3,-250,-259,-244; D=-9;
/I:         I=-9; DM=-17;
/M: SY='S'; M= -40,   1,-239, -16,-255, -17,   2, -37, -17, -59, -10,  21,  -1,-235, -43,  82, -16, -61,-265,-249; D=-9;
/I:         I=-9; MI=0; MD=-17; IM=0; DM=-17;
/M: SY='K'; M=-243,-258,-239,  -8,-255,  -8,-239, -41,  89, -69,  32,-234,-248, -32,  54, -48,-240, -61,-255,-245; D=-9;
/I:         I=-9; DM=-17;
/M: SY='Y'; M=-251,-258,-255,-253,  78,-259,-229,   8,-247,-229,-230,-252, -21,  -9, -34,-247, -42,-235,-217, 115; D=-9;
/I:         I=-9; DM=-17;
/M: SY='H'; M=-242,  54,-244, -38, -43,-254, 105,  36,-245, -63,-230,  18,-255,-241,-245, -16, -53,  42,-260,  25; D=-9;
/I:         I=-9; DM=-17;
/M: SY='Y'; M= -47,-262,-259,-259,   8,-263,  -9,  63,-253,-228,-228,-256,-262,-249,-252,-250,-245, -26,  26, 112; D=-9;
/I:         I=-9; DM=-17;
/M: SY='Y'; M=  -1,  31, -20,   5,-245,-249,-239,-243,  12, -44,  -7,  17,-252,  27,  23,  23, -13,  10,-255,  36; D=-9;
/I:         I=-9; MI=0; MD=-17; IM=0; DM=-17;
/M: SY='G'; M= -33,-255, -25,-252,-262, 103,-248,-268,-247,-265,-254,  18,-248,-245,-254,-229,-245,-262,-256,-257; D=-9;
/I:         I=-9; DM=-17;
/M: SY='I'; M= -77,  -4, -51,-258, -59,-265,-257,  92,-255,  29,  39,-254,-255,-252,-257,-250, -44,  18,-254,-235;
/M: SY='R'; M= -64, -28, -13,  -1,-255, -58,   7,-256,  36,-252, -14,-232,-249,  40,  94,  -9,-240, -65,-255, -47;
/M: SY='W'; M= -54,-256,-251, -48,  -3,-255,   4, -14,   6,  36,  47,-248,  52,-238,  44, -45,-240,   1,  62,-234;
/M: SY='R'; M= -77,   4,-240, -48,-252,-253,-237,  -5,  60, -73,-240,   6, -25,-225,  91,-238, -16, -25,-256,-244;
/M: SY='E'; M=  17,-254,   3,  48,-256, -98,-238, -50,  29, -66,-244,  18,  37, -31,  40, -35,  28,-246,-259,-248;
/I:         E1=0; IE=-380; DE=-380;
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Numerical results [info]

Numerical results for UniProtKB/Swiss-Prot release 2014_09 which contains 546'439 sequence entries.


Total number of hits 37 in 37 different sequences
Number of true positive hits 37 in 37 different sequences
Number of 'unknown' hits
Number of false positive hits
Number of false negative sequences 0
Number of 'partial' sequences 0
Precision (true positives / (true positives + false positives)) 100.00 %
Recall (true positives / (true positives + false negatives)) 100.00 %

Comments [info]

Matrix type [info] protein_domain
Scaling database [info] reversed
Author [info] CJA_Sigrist
Taxonomic range [info] Eukaryotes
Maximum number of repetitions [info] 1
Feature key [info] DNA_BIND
Feature description [info] RFX-type winged-helix
Version [info] 1

Cross-references [info]

UniProtKB/Swiss-Prot
True positive sequences
37 sequences

ARID2_HUMAN (Q68CP9), DAF19_CAEEL (Q09555), RFX1_CANAL  (Q59V88), 
RFX1_HUMAN  (P22670), RFX1_MOUSE  (P48377), RFX1_YEAST  (P48743), 
RFX2_BOVIN  (A6QLW9), RFX2_CANAL  (Q5AMQ6), RFX2_DANRE  (Q5EAP5), 
RFX2_HUMAN  (P48378), RFX2_MACFA  (Q4R3Z4), RFX2_MOUSE  (P48379), 
RFX2_PONAB  (Q5RDR2), RFX2_RAT    (B2GV50), RFX2_XENLA  (Q32NR3), 
RFX2_XENTR  (B1WAV2), RFX3_DANRE  (A0JMF8), RFX3_HUMAN  (P48380), 
RFX3_MACFA  (Q4R3I8), RFX3_MOUSE  (P48381), RFX3_XENTR  (Q0V9K5), 
RFX4_DANRE  (A2BGA0), RFX4_HUMAN  (Q33E94), RFX4_MOUSE  (Q7TNK1), 
RFX5_HUMAN  (P48382), RFX5_MOUSE  (Q9JL61), RFX6_AILME  (D2HNW6), 
RFX6_DANRE  (Q5RJA1), RFX6_HUMAN  (Q8HWS3), RFX6_MOUSE  (Q8C7R7), 
RFX7_HUMAN  (Q2KHR2), RFX8_HUMAN  (Q6ZV50), RFX8_MOUSE  (D3YU81), 
RSC9_SCHPO  (Q9P7W8), RSC9_YEAST  (Q03124), SAK1_SCHPO  (P48383), 
SWSN7_CAEEL (Q09441)
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PDB
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1 PDB

1DP7

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