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 PS50809

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PURL: https://purl.expasy.org/prosite/signature/PS50809

Direct ScanProsite submission

General information about the entry

Entry name [info]	DM_2
Accession [info]	PS50809
Entry type [info]	MATRIX
Date [info]	01-DEC-2001 CREATED; 26-FEB-2020 DATA UPDATE; 29-MAY-2024 INFO UPDATE.
PROSITE Doc. [info]	PDOC50809
Associated ProRule [info]	PRU00070

Name and characterization of the entry

Description [info]

DM DNA-binding domain profile.

Matrix / Profile [info]

/GENERAL_SPEC: ALPHABET='ABCDEFGHIKLMNPQRSTVWYZ'; LENGTH=48;
/DISJOINT: DEFINITION=PROTECT; N1=5; N2=44;
/NORMALIZATION: MODE=1; FUNCTION=LINEAR; R1=2.1236999; R2=0.0066818; TEXT='NScore';
/NORMALIZATION: MODE=-1; FUNCTION=LINEAR; R1=2648.6804199; R2=4.3341494; PRIORITY=1; TEXT='Heuristic 5.0%';
/CUT_OFF: LEVEL=0; SCORE=955; H_SCORE=6788; N_SCORE=8.5; MODE=1; TEXT='!';
/CUT_OFF: LEVEL=-1; SCORE=655; H_SCORE=5488; N_SCORE=6.5; MODE=1; TEXT='?';
/DEFAULT: M0=-9; D=-20; I=-20; B1=*; E1=*; MI=-105; MD=-105; IM=-105; DM=-105;

...

                A   B   C   D   E   F   G   H   I   K   L   M   N   P   Q   R   S   T   V   W   Y   Z
/I:         B1=0; BI=-105; BD=-105;
/M: SY='C';  M=-10,-20,120,-30,-30,-20,-30,-30,-30,-30,-20,-20,-20,-40,-30,-30,-10,-10,-10,-50,-30,-30;
/M: SY='Q';  M= 14, -7,-21,-11,  2,-27,-11, -5,-18,  6,-16, -7, -4,-12, 18, 10,  2, -6,-15,-20,-14,  9;
/M: SY='R';  M=-17, -7,-30, -7,  3,-23,-20, -3,-30, 36,-23,-10,  0,-17, 10, 57,-10,-10,-20,-20,-10,  3;
/M: SY='C';  M=-10,-20,120,-30,-30,-20,-30,-30,-30,-30,-20,-20,-20,-40,-30,-30,-10,-10,-10,-50,-30,-30;
/M: SY='R';  M= -7, -9,-25, -7,  7,-17,-11, -8,-19,  4, -8, -8, -5,-16,  2, 17, -5, -8,-15,-24,-14,  3;
/M: SY='N';  M= -3, 18,-23,  7, -2,-25, 12,  1,-24, -4,-27,-16, 31,-18,  4, -5,  6, -6,-27,-31,-21,  1;
/M: SY='H';  M=-20,  0,-30,  0,  0,-20,-20,100,-30,-10,-20,  0, 10,-20, 10,  0,-10,-20,-30,-30, 20,  0;
/M: SY='G';  M= -2, -3,-29, -1,-15,-30, 57,-17,-39,-17,-30,-21,  3,-18,-17,-18,  2,-17,-29,-23,-28,-16;
/M: SY='V';  M= -7,-16,-21,-15, -2,-10,-26,-14,  5, -7,  2,  2,-16,-20, -4, -5, -9, -5, 10,-24, -7, -4;
/M: SY='K';  M= -6,-16,-25,-16, -7,-15,-25,-17,  1,  2, -2,  2,-15, -7, -3, -4,-12, -6,  1,-23,-10, -6;
/M: SY='S';  M= -1,-10,-16,-12,-11,-13,-16,-15, -1, -5,-13, -6, -3,-19, -9, -2,  9,  5,  8,-32,-14,-11;
/M: SY='P';  M= -7,-18,-16,-17, -8,-17,-23,-19, -8, -8,-14, -9,-15, 14,-10, -6, -8, -5, -8,-22,-16,-12;
/M: SY='L';  M=-11,-26,-21,-26,-17,  4,-28,-17, 11,-18, 35, 14,-24,-28,-15, -3,-25, -9,  6,-21, -2,-17;
/M: SY='K';  M=-12, -2,-30, -2,  8,-28,-20, -8,-30, 47,-28,-10,  0,-12, 10, 36,-10,-10,-20,-20,-10,  8;
/M: SY='G';  M= -2,  1,-28, -3,-15,-28, 54,-13,-35,-15,-30,-20, 14,-20,-15,-15,  2,-15,-30,-25,-28,-15;
/M: SY='H';  M=-20,  0,-30,  0,  0,-20,-20,100,-30,-10,-20,  0, 10,-20, 10,  0,-10,-20,-30,-30, 20,  0;
/M: SY='K';  M= -2, -1,-26, -2,  7,-28,-16,-11,-27, 37,-28,-11,  0,-10,  7, 20, -2, -5,-17,-22,-12,  7;
/M: SY='R';  M=-13,-11,-14,-10, -3,-23,-19, -9,-27, 13,-24,-14, -5,  2,  1, 30, -5, -7,-20,-27,-17, -5;
/I:         I=-6; MI=0; MD=-32; IM=0; DM=-32;
/M: SY='Q';  M= -9, -6,-24, -6,  1, -7,-19,  2,-11, -4, -5,  0, -7,-17,  4, -1, -6, -7,-13,-17,  4,  2;
/M: SY='C';  M=-10,-20,120,-30,-30,-20,-30,-30,-30,-30,-20,-20,-20,-40,-30,-30,-10,-10,-10,-50,-30,-30;
/M: SY='P';  M=-11,-12,-33, -8,  2,-27,-20,-11,-21,  7,-24,-11,-10, 36,  5,  7, -7, -6,-24,-25,-19,  0;
/M: SY='Y';  M=-20,-28,-29,-32,-26, 47,-28, -5, -3,-20,  1, -3,-23,-30,-24,-16,-23,-13, -9, 43, 51,-24;
/M: SY='R';  M= -6,-10,-24,-14, -8,-15,-20,-10, -8,  9, -8, -3, -3,-19, -3, 21, -9, -7, -4,-23,-10, -8;
/M: SY='D';  M=-13, 17,-25, 20, 13,-19,-16, -3,-21,  0,-14,-15, 10,-14,  0, -5, -3, -3,-20,-29,-10,  6;
/M: SY='C';  M=-10,-20,120,-30,-30,-20,-30,-30,-30,-30,-20,-20,-20,-40,-30,-30,-10,-10,-10,-50,-30,-30;
/M: SY='T';  M= -4, -2,-15, -6,  1,-16,-16,-11,-16, -4,-19,-11,  1,  4, -2, -8,  4,  6,-15,-29,-15, -1;
/M: SY='C';  M=-10,-20,120,-30,-30,-20,-30,-30,-30,-30,-20,-20,-20,-40,-30,-30,-10,-10,-10,-50,-30,-30;
/M: SY='K';  M=  8, -3,-23, -4, 12,-24,-14,-11,-22, 13,-19,-13, -4, -3,  3,  6,  1, -2,-15,-24,-16,  7;
/M: SY='K';  M= -7,  2,-24,  0,  7,-22,-17, -9,-22, 22,-20,-10,  4,-12,  4, 12,  0,  0,-16,-26,-12,  6;
/I:         I=-6; MI=0; MD=-32; IM=0; DM=-32;
/M: SY='C';  M=-10,-20,120,-30,-30,-20,-30,-30,-30,-30,-20,-20,-20,-40,-30,-30,-10,-10,-10,-50,-30,-30;
/M: SY='T';  M= -5, -3,-19, -7, -1,-17,-11,-12,-12, -5,-11, -8, -1,-15, -1, -3,  4, 11, -6,-27,-14, -1;
/M: SY='L';  M=-10,-19,-21,-22,-16,  7,-25,-15,  9,-15, 24, 13,-16,-26,-15,-11,-21, -8,  4,-20, -1,-15;
/M: SY='V';  M= -2,-25,-15,-28,-25, -1,-28,-26, 25,-21, 12,  9,-22,-25,-23,-20, -7,  2, 32,-28, -8,-25;
/M: SY='E';  M=  3,  1,-19, -4,  6,-11,-14, -8, -8, -5,-10, -4,  3,-15, -3, -9, -1, -4, -6,-27,-13,  2;
/M: SY='E';  M=-11,  7,-28, 12, 21,-23,-18,  9,-26, 11,-22,-13,  2,-10, 12,  3, -1, -8,-24,-22, -2, 16;
/I:         I=-4; MD=-22;
/M: SY='R';  M=-16, -8,-23, -8,  0,-16,-16,  0,-23, 23,-16, -8,  0,-16,  8, 55, -8, -8,-16,-16, -8,  0; D=-4;
/I:         I=-4; MD=-22;
/M: SY='Q';  M= -9, -3,-22, -3,  8,-24,-14,  3,-18, 12,-17, -5,  1,-11, 27, 23,  1, -5,-19,-17, -9, 16; D=-4;
/I:         I=-4; MD=-22;
/M: SY='R';  M= -9, -3,-21, -6, -1,-16,-14, -3,-12, 10,-14, -6,  4,-13,  7, 23, -2, -4,-11,-19, -9,  1; D=-4;
/I:         I=-4; MD=-22;
/M: SY='L';  M= -6,-22,-14,-22,-17,  2,-23,-17, 16,-15, 19, 10,-20,-22,-16, -8,-15, -5, 18,-18, -4,-17; D=-4;
/I:         I=-4; MD=-22;
/M: SY='M';  M= -7,-12,-16,-18,-11, -4,-14, -1,  8,  0,  8, 35,-12,-13,  1, -2,-13, -7,  4,-14, -1, -5; D=-4;
/I:         I=-4; MI=0; MD=-22; IM=0; DM=-22;
/M: SY='A';  M= 19,  0,-16, -8, -5,-20, -4, -9,-17,  1,-18,-13,  7,-14, -3,  5,  8,  0,-11,-26,-18, -5;
/M: SY='A';  M= 12, -9,-19,-14,-10,-12,-15,-15,  1,-15,  7,  1, -8,-18, -6,-16, -6, -5, -1,-23,-11, -9;
/M: SY='Q';  M=-11, -1,-28, -3, 11,-26,-21,  0,-14,  9,-13, -3,  2,-14, 25, 11, -6, -9,-19,-23,-10, 17;
/M: SY='V';  M=  3,-18,-15,-21,-16, -6,-22,-21,  9,-13,  6,  3,-16,-21,-16,-14, -4,  3, 16,-27,-10,-16;
/M: SY='A';  M= 14,-14,-18,-20,-10, -5,-15,-16, -3,-10, -3, -2,-11,-16, -6,-13, -1, -3, -1,-18, -7, -8;
/M: SY='L';  M=-11, -8,-23,-14,-11, -5,-22,-11,  4, -9, 13,  4, -1,-24, -9, -3,-15, -8, -3,-25, -7,-11;
/M: SY='R';  M=-17, -8,-30, -8,  1,-18,-21, -1,-26, 32,-21, -9, -2,-18,  8, 47,-11,-10,-19,-14,  1,  1;
/M: SY='R';  M=-15, -2,-27, -5,  1,-21,-16, -1,-28, 24,-23,-12,  8,-18,  8, 50, -3, -6,-20,-24,-12,  1;
/I:         E1=0; IE=-105; DE=-105;

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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	51 in 48 different sequences
Number of true positive hits	51 in 48 different sequences
Number of 'unknown' hits	0
Number of false positive hits	0
Number of false negative sequences	0
Number of 'partial' sequences	1

Precision (true positives / (true positives + false positives))	100.00 %
Recall (true positives / (true positives + false negatives))	100.00 %

Comments [info]

Taxonomic range [info]	Eukaryotes
Maximum number of repetitions [info]	2
Matrix type [info]	protein_domain
Scaling database [info]	window20
Author [info]	N_Hulo
Feature key [info]	DNA_BIND
Feature description [info]	DM
Version [info]	6

Cross-references [info]

UniProtKB/Swiss-Prot
True positive sequences

48 sequences

DMD10_CAEEL (G5EEJ1), DMD3_CAEEL  (Q9XWN9), DMD4_CAEEL  (Q18248),

DMD5_CAEEL  (Q19291), DMR3T_HORSE (J7FCF0), DMRT1_BOVIN (C0LZJ1), 
DMRT1_CHICK (Q9PTQ7), DMRT1_DANRE (Q71MM5), DMRT1_HUMAN (Q9Y5R6), 
DMRT1_MOUSE (Q9QZ59), DMRT1_ORYLA (Q801F8), DMRT1_PIG   (Q9TT01), 
DMRT1_TRASC (P57690), DMRT1_XENTR (P85119), DMRT2_HUMAN (Q9Y5R5), 
DMRT2_MOUSE (Q8BG36), DMRT3_HORSE (F6W2R2), DMRT3_HUMAN (Q9NQL9), 
DMRT3_MOUSE (Q80WT2), DMRT3_RAT   (D4A218), DMRT3_TAKRU (Q90WM5), 
DMRTA_HUMAN (Q5VZB9), DMRTA_MOUSE (Q8CFG4), DMRTB_HUMAN (Q96MA1), 
DMRTB_MOUSE (A2A9I7), DMRTD_BOVIN (Q32LE6), DMRTD_HUMAN (Q8IXT2), 
DMRTD_MOUSE (Q8CGW9), DMT1A_XENLA (Q3LH63), DMT1B_XENLA (B7ZS42), 
DMT1Y_ORYLA (Q8JIR6), DMT3A_DANRE (P83758), DMT3B_DANRE (Q9DFI0), 
DMTA2_BOVIN (A6QQ94), DMTA2_DANRE (Q5UU75), DMTA2_HUMAN (Q96SC8), 
DMTA2_MONAL (A8TSS9), DMTA2_MOUSE (A2A9A2), DMTA2_ORENI (Q6YHU8), 
DMTA2_ORYLA (Q76L87), DMTA2_TAKRU (Q4AE28), DMTA2_XENLA (Q2MJB4), 
DMTA2_XENTR (A4QNP7), DMTA2_XIPMA (Q2I327), DMW_XENLA   (B0I1G7), 
DSX_DROME   (P23023), MAB23_CAEEL (G5ECK3), MAB3_CAEEL  (O18214)

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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

UniProtKB/Swiss-Prot
'Partial' sequences

1 sequence

DMRT1_ALLMI (Q9PUE0)

PDB
[Detailed view]

2 PDB

pdb_00001lpv; pdb_00004yj0