We are deeply saddened by the passing of Amos Bairoch (1957–2025), the creator of PROSITE. We wish to dedicate our latest paper, published shortly before his death, to him. He will always be a source of inspiration to us.
Our deepest condolences go out to his family and friends, and to all those who had the privilege of working with him. Rest in peace, Amos. Your work will live on long after you are gone.

PROSITE entry PS51702

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PURL: https://purl.expasy.org/prosite/signature/PS51702

Direct ScanProsite submission

General information about the entry

Entry name [info]	HTH_MU
Accession [info]	PS51702
Entry type [info]	MATRIX
Date [info]	01-JAN-2014 CREATED; 10-MAY-2017 DATA UPDATE; 29-MAY-2024 INFO UPDATE.
PROSITE Doc. [info]	PDOC51702
Associated ProRule [info]	PRU01039

Name and characterization of the entry

Description [info]

Mu-type HTH domain profile.

Matrix / Profile [info]

/GENERAL_SPEC: ALPHABET='ACDEFGHIKLMNPQRSTVWY'; LENGTH=67;
/DISJOINT: DEFINITION=PROTECT; N1=6; N2=62;
/NORMALIZATION: MODE=1; FUNCTION=LINEAR; R1=2.2966406; R2=0.0093798; TEXT='-LogE';
/NORMALIZATION: MODE=-1; FUNCTION=LINEAR; R1=10213.0000000; R2=0.0000000; PRIORITY=1; TEXT='Heuristic 5.0%';
/CUT_OFF: LEVEL=0; SCORE=662; H_SCORE=10213; N_SCORE=8.5; MODE=1; TEXT='!';
/CUT_OFF: LEVEL=-1; SCORE=449; H_SCORE=10213; N_SCORE=6.5; MODE=1; TEXT='?';
/DEFAULT: M0=-87; D=-100; I=-100; B1=-1000; E1=-1000; MI=-255; MD=-255; IM=-255; DM=-255;

...

                A    C    D    E    F    G    H    I    K    L    M    N    P    Q    R    S    T    V    W    Y
/I:         B1=0; BI=-255; BD=-255;
/M: SY='M';  M= -19, -61,  -8,  44, -13,-106, -72, -15,  -2, -49,  99,   8, -43, -23, -36,  -4,  25,  -7,-255,-236;
/M: SY='W';  M= -61,-256, -42, -36, -77, -39,  61,-248,  58, -26, -19,   0, -85,  18,   5,  11, -38,-249, 115,  16;
/M: SY='E';  M= -49, -22,  22,  69,  45, -64, -39,  -3,-235,  -8,  22,-239, -71,   1,-103, -85, -27, -57,  42,  53;
/M: SY='W';  M=   7,-255, -80, -68, -73,-110,-254,-246, -82, -66,-245, -43, -61,-239, -64,  47,  46,-247, 154, -60;
/M: SY='Y';  M=  38, -39,-255,-250,  58,-251, -78,  21,-249,  24, -39,-250, -16,-247,-249, -74,-108,  35,-235,  63;
/M: SY='T';  M=  35,-243,-236, -42,-247, -94,-241,-104, -14, -39, -40, -51, -12,  13, -56,  49,  85, -43,-259,-243;
/M: SY='E';  M=  69, -31, -43,  74,-252,-239,-241, -79, -69, -85,-240,-236,   4,-227,-239, -32,  23,  -3,-257,-248;
/M: SY='Q';  M= -22,-251, -69, -58, -59, -89,-237,   7,  60,  47, -21, -29,-248,  65, -16,   3, -64,-110,-250,-237;
/M: SY='E';  M=  45,-251,  34,  86,-252, -96,-236,-243, -58,  -1,-239,-234,-240,  23, -76, -89,-235, -16,-257,-246;
/M: SY='L';  M=  12,  57,  -2,  24, -60, -30,-244,  22, -25,  60, -71, -73,-251,  -6,-244, -40,-236, -43,-253,-238;
/M: SY='A';  M=  61,-244,-250, -19,  -3,-245, -63,  -4, -91,  42,  57,-246,-249,-240, -46, -48,  -8,  18,-251,-235;
/M: SY='G';  M= -11, -63,  18,  20, -89,  71,  20,-258,  15,-256,-246,  10, -32,  26,   2, -35, -53, -76,-256,-246;
/M: SY='L';  M=  -8, -14,-257,-250, -66,-257,-246,  16, -39,  80,  13,-253, -55, -52, -55, -47, -74,   5,-250, -51;
/M: SY='P';  M= -10,-257,  14,  -9, -69, -10, -39, -33, -63,   6,  -3, -87, 100,  -8, -64, -10, -26, -69,-256,-247;
/M: SY='G';  M=-230,  26,  16,   0,-256,  91, -57, -87, -11,-256, -32,   2,-245,-238,-245, -12, -50, -47,-255, -61;
/M: SY='M';  M=-241,-247,-261,-253,  43,-260,-245,   3, -76,  68,  87,-254,-257, -50,-249,-250, -74,  28,-245,-225;
/M: SY='P';  M= -51,-261,-242,-233,-259, -60, -34,-250,-239,-102,-246,-243, 125,-240,-250,  32, -10,-252,-257,-255;
/M: SY='T';  M= -21, -55,   1, -15,-249,  20, -20, -68,  20, -58, -39,  32,-244, -23,  15,  44,  51, -20,  -5,-243;
/I:         I=-28; MD=-71;
/M: SY='T';  M= -10,-250,  -5, -63,-254, -57, -17,-250, -25, -62,-247, -66,-247, -79, -51,  59,  82,-243,-266, -33; D=-28;
/I:         I=-28; MD=-71;
/M: SY='P';  M=  13,-261,   2,  26,-256, -79, -14,  -8,  26, -62, -45, -73,  37,   0,  -4, -58, -54,  16,-264, -54; D=-28;
/I:         I=-28; MI=-71; IM=-71; DM=-71;
/M: SY='Q';  M= -27,-254, -52,-225, -66,-106, -49, -90,  30,-249, -22, -19,  -3,  78,  77,  25,   6, -83,-254,-240;
/M: SY='G';  M=  31,-248,-236,-243, -56,  80,-240,-255, -57,-255, -43,  55,-246,-236,  11,  -6,  -3,-249, -21,-248;
/M: SY='I';  M= -43,  -6,-260,-256,-228,-261,-258,  81,-253,   5,  12,-253,-254,-251,-255,-246, -40,  72, -12, -59;
/M: SY='R';  M= -46,-252, -29,   5,-246, -87,  58,  -7, -88,  -9, -43,  44,-247,  38,  67,   3,  25, -70,-258, -61;
/M: SY='R';  M= -10,-254,   7,   3, -47, -96,   0, -15,  55,   1, -42,   0,-247,  29,  57, -43, -93, -99,-248,  25;
/M: SY='R';  M= -76, -67,-240, -83,  -4,-251,  49, -57,  58, -27,  47, -61,-249,  13,  84,-109,-239, -38,-250, -18;
/M: SY='A';  M=  99,-240,-248,-241, -64, -87,-247,  -9,-243,  21,-230,-243,-246,-239,-246,-224,-231, -82,-252,-243;
/M: SY='K';  M=  -6,-252,   8,  32,-254, -39, -29,-251,  74, -68,-242,  30,-242,  19,  35, -31,  -5, -50,-256,-244;
/M: SY='R';  M=  -6,-253, -65,  10,-252,-247, -47,-101,  65, -64,-240,  12,-245, -10,  84, -36, -19, -30,-254,-242;
/M: SY='E';  M= -52,-254,   6,  92, -46, -85, -10,-248, -66,   3,-239,  25,-240,  40,-232,  -8,-235, -94, -17,  -1;
/M: SY='G';  M=  19, -78, -43, -50, -69,  72, -21,-255, -30,-256,-247,  68,-246,  -7, -87,  30,-232, -78, -14, -72;
/M: SY='W';  M= -62,-271,-267, -18,-222, -47, -48,-248,-246, -99,-249,-263,-254,-245, -73, -23, -71, -51, 179,-209;
/M: SY='Q';  M=  -9,-253, -25,  20,-251, -14,-234, -62,  18, -18, -34,  29,  40,  73,  18, -55,  13, -50,-254, -64;
/M: SY='K';  M= -13,  37, -29, -33,  44, -48,  23,-245,  51, -86, -13,  29,-248, -62,  12,  27,   0,-243,  23,  27;
/I:         I=-14; MI=0; MD=-35; IM=0; DM=-35;
/M: SY='R';  M= -56,-259,-238,  -5,-253,-252, -45, -86, -25, -95,-240,-233,-250,  32, 116, -76,-241, -60,-253,-240;
/M: SY='K';  M= -48, -37, -38,  28,-254,-247, -56, -44,  75, -58, -32, -19,  28,  51,  50, -49,-103, -83,-253,-243;
/M: SY='R';  M= -43, -43, -62, -29,-249,-252,-235, -40,  20, -93,-236, -91, -82, -10, 104, -76, -51,  31,-255,-240;
/I:         I=-20; MD=-50;
/M: SY='E';  M=  26,-252, -13,  38, -35, -46, -37, -79,  21,-114, -36, -86,  36,  33,   3,  16,  18, -19,-256, -62; D=-20;
/I:         I=-20; MD=-50;
/M: SY='G';  M=  -9,  20,-244,-251,-260,  99,-249,-265, -21,-262,-252,-231,-248, -74, -35, -40, -74,-106,-255,-255; D=-20;
/I:         I=-20; MD=-50;
/M: SY='R';  M= -71,-264,-252,-242,-257, -48, -40, -32,  34, -89, -64, -85, -17,  -2,  78, -49, -37,  28,-265,-251; D=-20;
/I:         I=-20; MI=0; MD=-50; IM=0; DM=-50;
/M: SY='G';  M= -88, -27,-240,-248, -56,  99, -34,-259, -38, -96,-248,-227,-245,-241,-249,  15,  16, -87,-252,-250;
/M: SY='G';  M=-233,-254,-238, -30,-254,  74,  -6, -40,  68,-252,-243, -45,  -8,-230,  24,-100, -67,  -5,-253,-246;
/M: SY='G';  M=  53,-247,-242,-242,-253,  74,-244, -85, -51, -74,-242, -80,-245,  -5,  15,  -2,  -7, -12,-253,-248;
/M: SY='F';  M=-242, -43, -72, -57,  61,-254, -15,  -2,  26,  -6,  -2,   7,-253,-237,  40, -87, -28,  24,  55,  47;
/M: SY='E';  M= -46,-256,-213, 115, -83,-253,-232,-252, -54,  -6,-243,-236,-235,-214, -36,-235,-238,-107,-255, -52;
/M: SY='Y';  M=-249,-258,-252,-252,  46,-255,-220,-233,-245, -85,-228,-251,-261,-242,-242,-245,-244, -87,  75, 135;
/I:         I=-24; MD=-61;
/M: SY='H';  M=  16, -76, -42, -48,-243,-247, 132, -52,-101,  -4,-232, -19, -22, -74, -26, -24, -87, -83,-266,  -8; D=-24;
/I:         I=-24; MI=0; MD=-61; IM=0; DM=-61;
/M: SY='I';  M= -35,-252,-260,-256,  30,-261, -44,  71,-251,  23, -23, -52, -79,-250, -46, -84, -81,  44,  31,  24; D=-24;
/I:         I=-24; DM=-61;
/M: SY='S';  M=  18, -55,  25, -41,-252, -63, -38,-250, -44,-115, -42,  33, -62, -10, -24,  80,  20, -86, -33, -40; D=-24;
/I:         I=-24; DM=-61;
/M: SY='S';  M=   5,  24,  -2,-238,-241,-105,-240, -18,-239,  10, -18,   5,-247,-234,-243,  89,-222,  20,-258, -56;
/M: SY='L';  M= -83,-247,-262,-254,  52,-261,-244, -42,-253,  86,  63,-257, -32,-248,-251,-252,-240,-219,-242,-223;
/M: SY='P';  M=-242,-267, -80,-232,-263, -81, -40,-251, -67,-261,-247,-248, 133,-242,-251, -35,-235,-256,-257,-259;
/M: SY='E';  M=  28,-251, -17,  56,-247, -71, -21, -20,   7, -16,  -4,  -9,  34,  30, -52, -18,  -3,  -7,-255, -37;
/M: SY='E';  M=  19,-251,  28,  71,-250, -59,  -2, -37, -21, -65, -39, -16,  -2, -22,  -9,  20, -13,  -4,-257, -34;
/M: SY='T';  M=  54,-243, -80, -78,-238,-244,-249,  35,-242, -24,  -3,-239,-245, -15,-246, -58,  67,  40,  -5, -46;
/M: SY='Q';  M= -90,-258, -80, -92, -36, -86, -44, -51,  14, -43, -39, -84,-248, 101,  86, -87,-239, -47,-251,-237;
/M: SY='A';  M=  57,-247,  -3,  23,-249,-104, -30,-106, -10,  -5, -27, -15,-244,  49,   1,  17,  13, -27,-256,-243;
/M: SY='A';  M=  68,-248, -57,  41, -35, -88,  -3, -24,  -5, -62, -40, -84, -80,  31,  19, -20, -66, -49,-249,   9;
/M: SY='L';  M=-243,-249,-261,-255, -12,-264,-248,  66,-253,  75, -36,-257,-257,-249, -66,-251, -88,  -4,-245,  13;
/M: SY='R';  M=  27,-249, -80,  -8,-238,   1,-241,  18, -38,  33,  30, -17,-249, -28,  44, -19,  -5, -10, -20, -66;
/M: SY='E';  M=  24,-250, -29,  38,  -4,   1, -45, -36,  34,  11,   0, -14, -50,  -8,   4, -14, -61,  -4, -35, -58;
/M: SY='R';  M=  16, -76, -30, -29, -85, -35,  47, -32,  37, -49, -11,   9, -36,  30,  62,   9,  -9,-107,-255, -70;
/M: SY='Q';  M=  13,-251, -20,  45,   9, -48,  32, -58, -23,  -5,  22,  -9, -54,  53,  -4, -27,  -1, -31,-248,  17;
/M: SY='A';  M=  31,-248, -28,  18,-240,  23, -51,  -2,  -9,  13,  -7, -34, -26,  -8, -24,  10, -11,   3,-251,   5;
/M: SY='Q';  M=  34,-249, -12,   1,-249, -27,-238, -20,  26,  -5,-235, -38,  12,  49,  21,   9,  24, -43,-255,-243;
/M: SY='Q';  M=  29,-250, -37,  32, -98, -41, -11,   8,  -7, -62, -23,   1,  13,  55, -27,  -1,  15,  11, -54, -73;
/M: SY='A';  M=  49,-248, -21,  26,-244, -61,   2, -16,  -6,  11, -40,  -3,  34,  -3, -94, -14, -12,  11,-256, -91;
/I:         E1=0; IE=-255; DE=-255;

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Numerical results [info]

Numerical results for UniProtKB/Swiss-Prot release 2025_04 which contains 573'661 sequence entries.

Total number of hits	4 in 4 different sequences
Number of true positive hits	4 in 4 different sequences
Number of 'unknown' hits	0
Number of false positive hits	0
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]

Taxonomic range [info]	Bacteriophages, Prokaryotes (Bacteria)
Maximum number of repetitions [info]	1
Matrix type [info]	protein_domain
Scaling database [info]	reversed
Author [info]	CJA_Sigrist
Feature key [info]	DOMAIN
Feature description [info]	HTH Mu-type
Version [info]	3

Cross-references [info]

UniProtKB/Swiss-Prot
True positive sequences

4 sequences

REPC_BPD10  (P07040), REPC_BPMU   (P06019), TNPA_BPMU   (P07636),

TRA_HAEIN   (O05069)

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Retrieve an alignment of UniProtKB/Swiss-Prot true positive hits:
[Clustal format, color, condensed view] [Clustal format, color]
[Clustal format, plain text] [Fasta format]
Retrieve the sequence logo from the alignment

PDB
[Detailed view]

4 PDB

pdb_00001g4d; pdb_00001qpm; pdb_00001tns; pdb_00001tnt