Entry: PS50809

General information about the entry
Entry name DM_2
Accession number PS50809
Entry type MATRIX
Date DEC-2001 (CREATED); DEC-2001 (DATA UPDATE); MAR-2013 (INFO UPDATE).
PROSITE Documentation PDOC50809
Associated ProRule PRU00070
Name and characterization of the entry
DescriptionDM DNA-binding domain profile.
Matrix / Profile 
/GENERAL_SPEC: ALPHABET='ABCDEFGHIKLMNPQRSTVWYZ'; LENGTH=48;
/DISJOINT: DEFINITION=PROTECT; N1=5; N2=44;
/NORMALIZATION: MODE=1; FUNCTION=LINEAR; R1=2.1237; R2=0.00668182; TEXT='-LogE';
/CUT_OFF: LEVEL=0; SCORE=954; N_SCORE=8.5; MODE=1; TEXT='!';
/CUT_OFF: LEVEL=-1; SCORE=654; 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;
Numerical results
  • UniProtKB/Swiss-Prot release number: 2013_05, total number of sequence entries in that release: 540052.
  • Total number of hits in UniProtKB/Swiss-Prot: 40 hits in 39 different sequences
  • Number of hits on proteins that are known to belong to the set under consideration: 40 hits in 39 different sequences
  • Number of hits on proteins that could potentially belong to the set under consideration: 0 hits in 0 different sequences
  • Number of false hits (on unrelated proteins): 0 hits in 0 different sequences
  • Number of known missed hits: 0
  • Number of partial sequences which belong to the set under consideration, but which are not hit by the pattern or profile because they are partial (fragment) sequences: 1
  • Precision (true hits / (true hits + false positives)): 100.00 %
  • Recall (true hits / (true hits + false negatives)): 100.00 %
Comments
  • MATRIX_TYPE: protein_domain
  • Scaling database: UniProtKB/Swiss-Prot: window20
  • Matrix author: N_Hulo
  • Taxonomic range: Eukaryotes
  • Maximum known number of repetitions of the pattern in a single protein: 2
  • FT_KEY: DNA_BIND
  • FT_DESC: DM
  • VERSION: 1
Cross-references
UniProtKB/Swiss-Prot True positive hits:
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), DMRT3_HUMAN (Q9NQL9), DMRT3_MOUSE (Q80WT2), 
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), MAB3_CAEEL  (O18214)
`Potential' hits (partial sequences which belong to the set under consideration, but which are not hit by the pattern or profile because they are partial (fragment) sequences):
DMRT1_ALLMI (Q9PUE0)
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]		 1LPV;

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