PROSITE entry PS50016

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General information about the entry

PURL [info]	https://purl.expasy.org/prosite/signature/PS50016
Entry name [info]	ZF_PHD_2
Accession [info]	PS50016
Entry type [info]	MATRIX
Date [info]	01-APR-2002 CREATED; 10-MAY-2017 DATA UPDATE; 29-MAY-2024 INFO UPDATE.
PROSITE Doc. [info]	PDOC50016
Associated ProRule [info]	PRU00146

Name and characterization of the entry

Description [info]

Zinc finger PHD-type profile.

Matrix / Profile [info]

/GENERAL_SPEC: ALPHABET='ABCDEFGHIKLMNPQRSTVWYZ'; LENGTH=54;
/DISJOINT: DEFINITION=PROTECT; N1=4; N2=51;
/NORMALIZATION: MODE=1; FUNCTION=LINEAR; R1=1.4800000; R2=0.0089000; TEXT='NScore';
/NORMALIZATION: MODE=-1; FUNCTION=LINEAR; R1=3510.1113281; R2=3.0049100; PRIORITY=1; TEXT='Heuristic 5.0%';
/CUT_OFF: LEVEL=0; SCORE=789; H_SCORE=5881; N_SCORE=8.5; MODE=1; TEXT='!';
/CUT_OFF: LEVEL=-1; SCORE=565; H_SCORE=5208; N_SCORE=6.5; MODE=1; TEXT='?';
/DEFAULT: D=-20; I=-20; B1=-100; E1=-100; 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='N';  M=  -6,  -2, -11,  -4,  -7, -14,  -8,  -8, -17,  -6, -16, -11,   1, -19,  -6,  -4,   0,  -2, -12, -25,  -8,  -7;
/M: SY='N';  M=  -4,  -7, -24, -10,  -8, -14, -15,  -8,  -7,  -2,  -9,  -4,  -4, -14,  -6,  -4,  -6,  -4,  -6, -20,  -6,  -8;
/M: SY='F';  M= -10, -19, -20, -23, -16,  17, -21, -12,   2, -16,   3,   3, -16, -23, -16, -13, -11,  -4,   2,  -9,  12, -16;
/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;
/I:         I=-6; MI=-32; MD=-32; IM=-32;
/M: SY='Y';  M=  -6,  -8, -11,  -8,  -5,  -2, -13,  -4,  -9,  -8,  -6,  -3,  -7, -10,  -6,  -7,  -5,  -5,  -9, -14,   2,  -6; D=-6;
/I:         DM=-32;
/M: SY='V';  M=  -6, -20, -21, -24, -17,   6, -27, -21,  12, -13,   7,   5, -17, -21, -17, -14, -12,  -4,  13, -18,   0, -18;
/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='G';  M=  -5,   2, -19,  -1,  -5, -17,   6,  -8, -24,  -6, -19, -14,   6, -18,  -6,  -5,   1,  -8, -19, -26, -16,  -5;
/M: SY='E';  M=  -6,   2, -24,   4,   8, -23,  -9,  -6, -23,   5, -19, -11,   2, -12,   6,   6,   3,  -1, -18, -27, -14,   6;
/I:         MD=-15;
/M: SY='S';  M=  -1,  -2, -12,  -4,   1, -19,  -8, -11, -16,  -5, -17, -11,   0,  -5,  -3,  -8,   7,   4, -11, -29, -17,  -2; D=-2;
/I:         MD=-15;
/M: SY='D';  M=  -7,   1, -22,   3,   0, -13,  -6,  -3, -13,  -6, -10,  -9,   0, -15,  -5,  -5,  -3,  -6, -12, -18,  -3,  -4; D=-2;
/I:         MD=-15;
/M: SY='D';  M=  -6,   5, -17,   6,   6, -18,  -8,  -5, -17,   2, -15, -11,   4,  -7,   2,   0,  -1,  -6, -15, -22, -13,   4; D=-2;
/I:         MD=-15;
/M:         M=  -3,  -1, -16,   0,  -2, -10,  -1,  -8, -12,  -4, -12,  -8,  -1,  -3,  -4,  -7,  -1,  -3, -10, -10,  -8,  -3; D=-2;
/I:         I=-2; MI=0; IM=0; DM=-15;
/M: SY='D';  M=  -8,   6, -25,  12,   7, -23,  -6,  -2, -25,  -5, -21, -17,   2,  -2,  -2,  -9,   4,  -1, -20, -30, -14,   2;
/M: SY='G';  M=  -2,   7, -25,   8,   4, -26,  12,  -7, -27,  -5, -22, -17,   8, -14,  -4,  -8,   2,  -9, -21, -28, -20,   0;
/M: SY='E';  M=  -6,  -1, -23,   1,   4, -18, -16, -11, -18,  -1, -15, -12,  -3,   0,  -2,  -5,  -4,  -6, -16, -24, -14,   1;
/M: SY='L';  M= -10, -25, -14, -30, -22,  10, -27, -18,  14, -21,  18,  17, -21, -25, -17, -17, -18,  -7,   9, -14,   1, -20;
/M: SY='I';  M=  -8, -27, -21, -30, -22,   3, -30, -19,  24, -22,  21,  19, -25, -25, -18, -19, -20,  -9,  20, -15,  -1, -21;
/M: SY='Q';  M=  -7,  -9, -14, -11,  -1,  -8, -19,  -7, -11,  -8,  -8,  -5,  -7, -18,   4,  -7,  -1,  -1, -11, -20,  -1,   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='D';  M=  -8,  22, -24,  28,  11, -32,  -4,  -2, -30,   0, -25, -20,  13, -12,   4,  -5,   1,  -8, -25, -32, -18,   7;
/I:         I=-8; MI=0; MD=-30; IM=0; DM=-30;
/M: SY='B';  M=  -7,   0, -21,   0,  -4, -16,  -4,  -8, -18,  -3, -13,  -9,  -1, -17,  -7,  -5,  -4,  -5, -13, -23,  -8,  -6;
/M: SY='C';  M= -10, -20, 120, -30, -30, -20, -30,-120, -30, -30, -20, -20, -20, -40, -30, -30, -10, -10, -10, -50, -30, -30;
/I:         MD=-29;
/M: SY='D';  M=  -9,   6, -20,   9,   3, -24,  -2,  -6, -26,   1, -22, -15,   4, -10,   1,  -1,  -2,  -9, -22, -25, -14,   1; D=-6;
/I:         I=-8; MI=-29; MD=-29; IM=-29; DM=-29;
/M: SY='R';  M= -12,   2, -25,   3,   6, -21, -17,   1, -22,  11, -18, -11,   3, -15,   7,  21,  -2,  -4, -17, -25,  -9,   5; D=-6;
/I:         DM=-29;
/M: SY='W';  M=  -2, -17, -30, -18, -14, -11,  -5, -17, -18,  -9, -20, -14, -14, -11, -11, -13,  -8, -10, -17,  29,  -3, -11;
/M: SY='F';  M= -14, -25, -21, -29, -23,  30, -24,  -9,   2, -19,   3,   2, -20, -28, -21, -16, -17, -10,   2,   7,  25, -21;
/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='Q';  M=  -6, -11, -24, -12,  -3, -17, -16, -10,  -7,  -4,  -8,  -1,  -8,  -7,   4,  -2,  -3,  -3,  -8, -24, -11,  -1;
/M:         M=  -7,  -2, -24,  -3,  -1, -11, -15,  -6, -13,   0, -13,  -8,  -1, -16,  -4,  -4,  -3,  -3, -10, -21,  -3,  -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='L';  M=  -3, -21, -16, -24, -16,   3, -25, -14,  10, -19,  15,   8, -20, -24, -16, -17, -13,  -3,  10, -18,   3, -17;
/M: SY='G';  M=  -5,  -3, -25,  -4,  -3, -23,   2, -10, -17,  -6, -15,  -7,   0, -11,   2,  -7,  -1,  -6, -16, -26, -16,  -1;
/M: SY='P';  M= -12, -11, -28, -10,  -7,  -6, -23,  -9,  -7,  -9,  -6,  -5, -10,   3, -11,  -9, -12,  -8,  -9, -19,  -7, -10;
/M: SY='P';  M=  -2,  -6, -25,  -6,  -1, -18, -10, -12, -17,  -5, -21, -14,  -3,   8,  -5,  -9,   3,   0, -16, -20, -14,  -4;
/M:         M=  -5,  -8, -25,  -7,  -2, -13, -14, -10, -11,  -3,  -8,  -5,  -8,  -7,  -4,  -6,  -8,  -8, -10, -21,  -7,  -4;
/M: SY='E';  M=  -8,  -4, -25,  -3,   4, -15, -20, -11, -11,   1, -10,  -8,  -3,  -7,  -3,   1,  -4,  -3,  -9, -26, -12,  -1;
/I:         I=-4; MI=0; MD=-15; IM=0;
/M: SY='S';  M=  -1,  -1, -11,   0,   1, -10,  -5,  -6,  -8,  -3,  -9,  -6,  -1,   1,  -2,  -5,   3,   1,  -7, -16,  -8,  -1; D=-1;
/I:         DM=-15;
/M:         M=  -2,  -5, -16,  -6,  -3, -10,  -7,  -9,  -6,  -4,  -5,  -4,  -4,  -6,  -2,  -5,  -4,  -4,  -7, -10,  -7,  -3; D=-1;
/I:         DM=-15;
/M: SY='A';  M=   1,  -4, -19,  -5,   0, -15, -10, -10, -10,  -3,  -7,  -5,  -5,  -8,  -3,  -5,  -3,  -4,  -8, -18, -11,  -2; D=-1;
/I:         DM=-15;
/M:         M=  -2,  -2, -22,  -2,  -2, -18, -13, -12,  -6,  -6, -11,  -7,  -2,   0,  -7, -11,  -3,  -5,  -6, -25, -15,  -6; D=-1;
/I:         DM=-15;
/M: SY='P';  M=  -6,  -9, -29,  -7,   1, -20, -12, -10, -17,  -1, -18, -11,  -7,   9,  -2,  -5,  -5,  -8, -18, -16, -13,  -2;
/M: SY='D';  M= -10,   5, -27,   9,   9, -22, -11,  -8, -23,   3, -20, -15,   3,  -1,   1,   0,   0,  -4, -21, -28, -16,   5;
/M: SY='G';  M=  -5,  -4, -24,  -3,   0, -17,   1, -10, -17,  -6, -15, -10,  -1, -16,  -5,  -5,   0,  -6, -12, -25, -14,  -3;
/M: SY='B';  M=  -6,  -2, -25,  -2,  -3, -21,  -4,  -8, -16,  -3, -15,  -8,  -2, -11,  -5,  -5,  -4,  -7, -12, -24, -14,  -4;
/M: SY='W';  M= -19, -33, -39, -35, -26,  25, -24, -20, -10, -19,  -8, -10, -30, -29, -21, -17, -31, -21, -18,  86,  32, -20;
/M: SY='L';  M=  -9, -18, -16, -21, -14,  -1, -25, -12,   2, -10,   3,   2, -14, -22,  -9,  -6,  -9,  -4,   2, -16,   3, -13;
/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=  -8,  -8, -29,  -7,  -1, -22, -13, -12, -16,  -1, -19, -12,  -6,  13,  -4,  -3,  -4,  -4, -15, -24, -17,  -5;
/M: SY='R';  M=  -7,  -6, -21,  -8,  -2, -12, -11,  -5, -15,   1, -10,  -7,  -2, -19,  -4,   5,  -7,  -8, -12, -22,  -7,  -4;
/M: SY='C';  M= -10, -19, 115, -29, -29, -20, -30, -26, -30, -29, -20, -19, -19, -39, -29, -29, -10, -10, -11, -49, -28, -29;
/M: SY='K';  M=  -5,   0, -22,   0,   1, -19, -15,  -9, -14,   2, -11,  -5,  -1, -15,   2,   1,  -1,   1, -10, -27, -12,   1;
/M: SY='K';  M=  -8,  -3, -14,  -6,   0, -15, -18,  -9, -15,   1, -17, -10,   1,  -6,  -3,   0,  -2,  -4, -14, -27, -12,  -2;
/M: SY='K';  M=  -5,  -7,  -4,  -9,  -1, -19, -17,  -6, -20,   2, -18,  -9,  -6, -12,  -2,   2,  -2,  -5, -13, -29, -13,  -3;
/I:         E1=0; IE=-105; DE=-105;

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Post-processing [info]

COMPETES_HIT_WITH

PS51805

Numerical results [info]

Numerical results for UniProtKB/Swiss-Prot release 2025_02 which contains 573'230 sequence entries.

Total number of hits	446 in 341 different sequences
Number of true positive hits	441 in 336 different sequences
Number of 'unknown' hits	0
Number of false positive hits	5 in 5 different sequences
Number of false negative sequences	139
Number of 'partial' sequences	0

Precision (true positives / (true positives + false positives))	98.88 %
Recall (true positives / (true positives + false negatives))	76.03 %

Comments [info]

Taxonomic range [info]	Eukaryotes
Maximum number of repetitions [info]	6
Matrix type [info]	protein_domain
Scaling database [info]	window20_shuffled
Author [info]	K_Hofmann
Feature key [info]	ZN_FING
Feature description [info]	PHD-type
Version [info]	6

Cross-references [info]

UniProtKB/Swiss-Prot True positive sequences	336 sequences AF10_HUMAN (P55197), AF10_MOUSE (O54826), AF17_HUMAN (P55198), » more 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 False negative sequences	139 sequences AIPP2_ARATH (F4IYH6), ARID4_ARATH (Q6NQ79), ASH1L_HUMAN (Q9NR48), » more
UniProtKB/Swiss-Prot False positive sequences	5 sequences FAP1H_SCHPO (O74853), NFX1_BOVIN (A6QLA0), NFX1_DICDI (Q54BK0), » more
PDB [Detailed view]	323 PDB 1F62; 1FP0; 1MM2; 1MM3; 1WE9; 1WEE; 1WEM; 1WEN; 1WEP; 1WES; 1WEU; 1WEV; » more