Entry: PS50138

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General information about the entry

Entry name [info] BRCA2_REPEAT
Accession [info] PS50138
Entry type [info] MATRIX
Date [info] DEC-2001 (CREATED); OCT-2013 (DATA UPDATE); JUN-2014 (INFO UPDATE).
PROSITE Doc. [info] PDOC50138
Associated ProRule [info] PRU00032

Name and characterization of the entry

Description [info] BRCA2 repeat profile.
Matrix / Profile [info]
/GENERAL_SPEC: ALPHABET='ABCDEFGHIKLMNPQRSTVWYZ'; LENGTH=35;
/DISJOINT: DEFINITION=PROTECT; N1=4; N2=32;
/NORMALIZATION: MODE=1; FUNCTION=LINEAR; R1=1.7468; R2=.01762685; TEXT='NScore';
/NORMALIZATION: MODE=-1; FUNCTION=LINEAR; R1=1015.13878; R2=13.66531; TEXT='HScore';
/CUT_OFF: LEVEL=0; SCORE=383; N_SCORE=8.5; H_SCORE=5470; MODE=1; TEXT='!';
/CUT_OFF: LEVEL=-1; SCORE=269; N_SCORE=6.5; H_SCORE=4705; 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=-10,  4,-21, -8,-10,  6,-15, -8, -8, -6,-14, -9, 16,-20,-11, -6,  0, -3,-11,-23, -4,-10;
/M: SY='E'; M= -1,  5,-25, 10, 36,-26,-15,  9,-26,  3,-20,-16,  1, -5, 13, -4,  5, -6,-24,-30,-15, 24;
/M: SY='S'; M= -1,  0,-16, -5, -9,-15,-13,-13, -6,-10,-18,-11,  8, -5,-10,-11, 11, 10, -1,-35,-18,-10;
/M: SY='S'; M=  6, -8,-16,-13,-13, -8,  9,-18,-19,-15,-18,-14, -1,-15,-14,-15, 14, 11,-10,-24,-14,-13;
/M: SY='F'; M= -5,-13, -6,-14,-15,  4,-10,-19,-15,-20, -6,-10,-13,-10,-21,-20,-10,-10,-11,-20, -9,-18;
/M: SY='G'; M= -5,-14,-24,-14,-11,-15,  3,-16,-15,-13, -6, -8, -9, -6,-11, -6, -3, -1,-13,-25,-16,-13;
/M: SY='G'; M= 10,-14,-21,-19,-18, -9, 18,-20,-14,-19,-14,-10, -6,-18,-18,-20,  3, -8, -9,-19,-15,-18;
/M: SY='F'; M=-20,-30,-20,-40,-30, 80,-30,-20,  0,-30, 10,  0,-20,-30,-40,-20,-20,-10,  0, 10, 30,-30;
/M: SY='H'; M=-11, -8,-25, -8, -3,-10,-18, 16,-19,  3,-18, -8, -1,-19,  9, 14,  1, -4,-18,-14, 14,  0;
/M: SY='T'; M=  0, -4,-13,-13,-11,-10,-20,-20, -4,-13, -9, -8, -1,-11,-10,-13, 18, 39,  3,-30,-10,-11;
/M: SY='A'; M= 45, -9,-10,-18, -9,-20,  0,-19,-11,-10,-13,-11, -8,-10, -9,-19, 14,  3, -1,-23,-20, -9;
/M: SY='S'; M=  4, -3,  4, -4, -4,-20, -6,  1,-23,-13,-28,-18,  6,-15, -3,-11, 28, 11,-13,-40,-16, -4;
/M: SY='G'; M=  0, -3,-26, -5,-15,-28, 53,-15,-35,-16,-30,-20,  9,-19,-15,-16,  6,-13,-28,-25,-28,-15;
/M: SY='K'; M=-10, -1,-28, -3,  6,-26,-20,-10,-28, 40,-26,-10,  0,-11,  8, 30, -6, -3,-18,-21,-10,  6;
/M: SY='K'; M= -8,  3,-26,  0, 10,-25,-18, -6,-16, 16,-21, -9,  6,-11, 11,  8,  0, -5,-16,-26,-13, 10;
/M: SY='V'; M= -6,-24,-19,-28,-23, -3,-30,-24, 21,-16, 11,  9,-20,-24,-19,-10,-11,  1, 25,-25, -6,-23;
/M: SY='S'; M= -3,  1,-20, -1,  3,-21,-11, -6,-18,  6,-19,-10,  8,-14,  8,  3, 10,  3,-15,-30,-14,  5;
/M: SY='V'; M= -5,-29,  0,-33,-29, -1,-33,-29, 26,-25, 14, 10,-26,-29,-26,-24,-15, -5, 33,-29, -9,-29;
/M: SY='S'; M= 18, -6,-11, -9, -5,-16, -4,-14,-13,-13,-15,-13,  0,-13, -5,-14, 24, 11, -5,-33,-18, -5;
/M: SY='E'; M=-11,  9,-28, 13, 21,-29,-19,  9,-28, 14,-23,-13,  4, -9, 15,  6, -1, -4,-24,-28,-10, 18;
/M: SY='E'; M=  0,  4,-23,  6, 28,-24,-15,  6,-24,  0,-19,-15,  1, -6,  9, -5,  8,  1,-20,-30,-14, 18;
/M: SY='S'; M=  9,  0,-13, -5, -5,-15, -6,-11,-13,-11,-15,-13,  8,-14, -5,-11, 21, 15, -8,-34,-16, -5;
/M: SY='L'; M=-11,-30,-23,-34,-24, 16,-33,-23, 25,-30, 38, 18,-26,-28,-23,-23,-26,-10, 14,-16,  4,-24;
/M: SY='Q'; M=-13,  8,-28,  8,  8,-26,-18, 11,-21, 10,-16, -6,  8,-15, 16,  6, -6,-10,-23,-26, -8, 11;
/M: SY='K'; M=-10,  6,-29,  5, 15,-29,-18, -6,-29, 39,-29,-13,  8,-10, 10, 23, -6, -9,-23,-24,-13, 13;
/M: SY='V'; M= 19,-19,-13,-24,-19,-10,-16,-24, 11,-16, -1,  0,-16,-19,-18,-20,  3,  1, 21,-26,-14,-19;
/M: SY='K'; M= -9, -9,-25, -9, -1,-21,-23,-14,-15, 30,-19, -5, -8,-16,  0, 23,-10, -8, -3,-23,-10, -1;
/M: SY='N'; M=-10, 13,-26,  9,  3,-26, -3, -1,-23, 10,-23, -6, 15,-15,  8,  4, -3, -9,-23,-28,-15,  5;
/M: SY='F'; M=-11,-31,-23,-35,-28, 24,-30,-25, 16,-26, 18,  8,-28,-29,-28,-21,-23,-10, 15,  6,  9,-26;
/M: SY='F'; M=-18,-30,-20,-38,-28, 63,-30,-20,  5,-30, 20,  5,-23,-30,-35,-20,-23,-10,  3,  3, 23,-28;
/M: SY='D'; M= -8, 13,-23, 18, 13,-26,-13, -6,-28,  8,-25,-19,  8,-10,  4,  6, 10,  5,-19,-33,-16,  8;
/M: SY='E'; M=-14, 24,-30, 36, 40,-35,-16,  1,-33,  6,-24,-21,  8, -5, 18, -3,  0,-10,-30,-33,-19, 29;
/M: SY='I'; M= -9,-17,-26,-23,-14,  0,-27,-20, 10, -4, -3,  3,-10,-17,-11, -9, -9, -6,  6,-19, -1,-14;
/M: SY='E'; M=-13,  6,-30, 14, 33,-16,-20, -6,-26,  0,-19,-19, -3,  7,  4, -7, -4,-10,-26,-26,-14, 19;
/M: SY='E'; M= -9, 11,-24, 14, 20,-24,-14, -1,-20, -1,-14,-13,  9,-11, 11, -4,  3, -4,-21,-31,-16, 16;
/I:         E1=0; IE=-105; DE=-105;
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Numerical results [info]

Numerical results for UniProtKB/Swiss-Prot release 2014_07 which contains 546'000 sequence entries.


Total number of hits 31 in 7 different sequences
Number of true positive hits 31 in 7 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] K_Hofmann
Taxonomic range [info] Eukaryotes
Maximum number of repetitions [info] 8
Feature key [info] REPEAT
Feature description [info] BRCA2
Version [info] 2

Cross-references [info]

UniProtKB/Swiss-Prot
True positive sequences
7 sequences

BRCA2_DROME (Q9W157), BRCA2_DROSE (B4IH30), BRCA2_DROSI (B4QC10), 
BRCA2_FELCA (Q864S8), BRCA2_HUMAN (P51587), BRCA2_MOUSE (P97929), 
BRCA2_RAT   (O35923)
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PDB
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1 PDB

1N0W

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