Entry: PS50013

General information about the entry

Entry name [info] CHROMO_2
Accession [info] PS50013
Entry type [info] MATRIX
Date [info] NOV-1995 (CREATED); OCT-2013 (DATA UPDATE); MAY-2016 (INFO UPDATE).
PROSITE Doc. [info] PDOC00517
Associated ProRule [info] PRU00053

Name and characterization of the entry

Description [info] Chromo and chromo shadow domain profile.
Matrix / Profile [info]
/GENERAL_SPEC: ALPHABET='ABCDEFGHIKLMNPQRSTVWYZ'; LENGTH=59;
/DISJOINT: DEFINITION=PROTECT; N1=6; N2=54;
/NORMALIZATION: MODE=1; FUNCTION=LINEAR; R1=0.4848000; R2=0.0181000; TEXT='NScore';
/NORMALIZATION: MODE=-1; FUNCTION=LINEAR; R1=3396.3852539; R2=2.6844263; TEXT='Heuristic 5.0%';
/CUT_OFF: LEVEL=0; SCORE=443; H_SCORE=4586; N_SCORE=8.5; MODE=1; TEXT='!';
/CUT_OFF: LEVEL=-1; SCORE=333; H_SCORE=4290; N_SCORE=6.5; MODE=1; TEXT='?';
/DEFAULT: D=-20; I=-20; B1=-70; E1=-70; 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='Y'; M=-16,-17,-26,-17,-13, 19,-27,  0, -3,-13,  4,  0,-17,-25,-12,-11,-18,-11, -6,  4, 28,-13;
/M: SY='E'; M=  3, -6,-20, -4,  9,-18,-18,-15, -7, -7,-11, -9, -9, -6, -4,-12,  3,  1,  0,-30,-17,  2;
/M: SY='V'; M=  3,-24,-21,-24,-17, -9,-23,-25,  9,-16, -1, -1,-23, -1,-19,-20,-10, -6, 14,-16,-12,-19;
/M: SY='E'; M=-10,  7,-31, 17, 53,-30,-16, -2,-30,  8,-21,-20, -1,  4, 17, -2, -1,-10,-30,-30,-21, 34;
/M: SY='R'; M=-10,  1,-24,  3,  7,-26,-17, -6,-29, 28,-24,-13,  1,-14,  7, 32, -6, -8,-19,-24,-13,  5;
/M: SY='I'; M= -9,-28,-26,-35,-27,  2,-35,-28, 36,-27, 16, 14,-21,-15,-21,-26,-17, -6, 25,-21, -2,-27;
/M: SY='L'; M= -9,-26,-22,-28,-18,  2,-31,-21, 22,-21, 29, 16,-24,-25,-17,-16,-22, -9, 15,-22, -3,-19;
/I:         I=-6; MI=0; IM=0; DM=-20; MD=-20;
/M: SY='D'; M= -4, 14,-21, 21, 10,-32,  1, -7,-31, -1,-24,-20,  5,-12,  3, -6,  1,-10,-24,-30,-20,  6;
/M: SY='A'; M=  3, -8,-15,-13, -9,-17,-12,  1,-14, -4,-12, -6, -4,-17, -6, -2,  1,  2, -7,-26, -9, -9;
/M: SY='R'; M=-11, -4,-26, -6,  2,-21,-18, -6,-20, 18,-20, -9,  2,-15,  7, 29, -1, -1,-14,-25,-11,  2;
/M: SY='B'; M= -8,  5,-22,  5, -1,-20,-11, -9,-13,  2,-15, -6,  4,-17, -5, -2, -3, -5, -6,-30,-15, -3;
/M: SY='R'; M= -5, -2,-17, -4,  0,-22,-13, -9,-19,  7,-20,-12,  1,-12,  1, 10,  0, -3,-13,-28,-16, -1;
/M: SY='R'; M=-10,  5,-22,  2,  5,-27,-11, -4,-27, 21,-27,-13,  9,-15, 10, 22,  0, -6,-22,-27,-14,  7;
/I:         I=-3; MI=0; MD=-15; IM=0;
/M: SY='G'; M= -2, -4,-25, -5,-10,-23, 40,-11,-31,-12,-25,-17,  5,-17,-11,-11,  3,-12,-25,-20,-20,-11; D=-2;
/I:         DM=-15;
/M: SY='R'; M= -9,  1,-24,  1,  4,-21, -7, -6,-19,  6,-14, -8,  3,-14,  6,  8, -4, -5,-17,-23,-13,  4; D=-2;
/I:         DM=-15;
/M: SY='L'; M=-10,-23,-21,-23,-16,  6,-25,-13,  9,-17, 16,  6,-21,-14,-16,-11,-17, -7,  6,-14,  6,-17; D=-2;
/I:         DM=-15;
/M: SY='E'; M= -9,  0,-25,  3, 22,-18,-21, -5,-13,  2,-11, -4, -5, -9, 10, -4, -3, -5,-12,-25,-12, 16; D=-2;
/I:         DM=-15;
/M: SY='Y'; M=-18,-25,-25,-30,-25, 46,-31, -2,  5,-20,  8,  2,-21,-29,-23,-16,-20,-10, -1, 15, 49,-25;
/M: SY='L'; M=-13,-26,-23,-28,-20, 19,-30,-11, 12,-23, 29, 12,-24,-28,-17,-15,-25,-10,  3, -7, 18,-19;
/M: SY='V'; M= -6,-29,-10,-32,-27,  1,-31,-25, 28,-24, 20, 17,-26,-27,-23,-22,-17, -6, 31,-26, -6,-26;
/M: SY='K'; M=-10, -1,-29, -1,  9,-29,-20, -8,-28, 42,-27, -9,  0,-11, 12, 29, -7, -6,-19,-21,-10, 10;
/M: SY='W'; M=-20,-39,-48,-40,-30, 15,-21,-29,-19,-21,-18,-19,-39,-30,-21,-20,-39,-29,-28,140, 30,-21;
/M: SY='K'; M= -7, -7,-25, -8,  3,-21,-21,-11,-16, 22,-11, -4, -7,-15,  6, 15,-10, -6,-11,-21, -9,  4;
/M: SY='G'; M= -4,  3,-29,  3,-12,-29, 49,-13,-37,-13,-30,-21, 10,-19,-14,-13,  1,-16,-30,-25,-27,-13;
/M: SY='Y'; M=-13,-21,-26,-21,-17, 15,-20, -4, -2,-16,  2, -2,-19,-26,-14,-14,-15, -8, -6, 16, 32,-17;
/M: SY='D'; M= -2, 14,-22, 18,  3,-28, -1, -4,-27, -7,-27,-21, 11, -2, -3,-12, 12,  1,-21,-35,-20, -1;
/M: SY='E'; M=-11,  9,-28, 12, 15,-19,-18, 13,-19, -2,-17,-11,  5,-13,  9, -5, -3, -9,-21,-21,  2, 10;
/I:         I=-5; MI=0; MD=-20; IM=0;
/M: SY='A'; M=  5,  1,-18,  0, -1,-16, -9,-11,-14, -3,-14,-11,  0,-11, -4, -6,  4,  1,-10,-14,-11, -2; D=-5;
/I:         DM=-20;
/M: SY='E'; M=-12, 12,-26, 20, 29,-25,-16, 22,-28,  1,-20,-15,  6, -8, 10, -3,  0,-10,-26,-28, -6, 18; D=-5;
/I:         DM=-20;
/M: SY='N'; M= -9, 11, -7,  1, -7,-17,-12,  3,-14, -9,-14, -6, 19,-13, -6, -9, -3, -6,-18,-35,-15, -7;
/M: SY='T'; M=  0, -5,-11,-11,-11,-11,-18,-12, -6,-12,-11, -8, -3,-14,-10,-11, 17, 32,  5,-32,-10,-11;
/M: SY='W'; M=-17,-34,-45,-33,-24,  3,-21,-27,-17,-19,-17,-17,-34, -9,-18,-20,-32,-22,-26,101, 16,-18;
/M: SY='E'; M=  3,  5,-24, 10, 39,-27,-14, -5,-25,  4,-20,-18,  0, -3, 12, -5,  8, -3,-22,-30,-20, 26;
/M: SY='P'; M= -6, -5,-28, -2,  1,-25,-16,-15,-21,  0,-26,-17, -4, 35, -5, -8,  3,  5,-21,-31,-21, -4;
/M: SY='E'; M= -4, -5,-26, -1, 22,-19,-17, -8,-14, -1, -9,-10, -8, -7,  3, -6, -5, -9,-13,-24,-12, 12;
/M: SY='A'; M= 11, -1,-19, -2, 10,-20,-11,-12,-15, -3,-12,-12, -3,-10, -1,-10,  6,  2, -9,-27,-17,  4;
/M: SY='N'; M=-11, 25,-22, 16,  0,-18, -8,  7,-18, -4,-20,-14, 34,-19,  1, -4,  4, -1,-23,-33,-12,  0;
/M: SY='L'; M= -9,-25,-18,-29,-19,  0,-31,-21, 23,-21, 24, 17,-23,-24,-17,-18,-21, -9, 17,-23, -4,-19;
/M: SY='K'; M= -3, -2,-24,  0,  4,-22,-14,-13,-15,  6,-15, -9, -4, -9,  0, -2, -2, -4, -9,-27,-14,  1;
/I:         I=-5; MI=0; IM=0; DM=-25; MD=-25;
/M: SY='C'; M= -2, -5, 31, -8,-15,-17,-13,-14,-22,-19,-16,-15, -8,-25,-18,-22, -5,-10,-11,-34,-18,-17;
/M: SY='P'; M= -3,-14,-28,-12, -2,-21,-18,-13,-13, -6,-14, -8,-13, 28,  0,-10, -4, -4,-17,-25,-16, -3;
/M: SY='Q'; M=-10,  0,-26,  2, 15,-27,-20, -3,-19, 11,-17, -8, -2,-12, 21, 14, -2, -4,-16,-25,-12, 17;
/M: SY='M'; M= -8,-21,-14,-24,-16, -3,-26,-13,  9,-11, 16, 17,-20,-24, -9, -8,-19, -9,  6,-20, -2,-13;
/M: SY='I'; M= -8,-27,-21,-30,-22,  3,-32,-21, 28,-23, 22, 17,-25,-25,-19,-20,-19, -7, 25,-20,  1,-22;
/M: SY='D'; M= -9,  1,-27,  4,  4,-19,-21, -9,-10,  3, -9, -7, -3,-14,  0,  0, -8, -9,-10,-24, -7,  1;
/M: SY='E'; M= -1,  8,-23,  5, 13,-21,-12,  6,-19, -1,-18,-12, 10,-12,  9, -2,  2, -6,-20,-27,-12, 10;
/M: SY='F'; M=-19,-26,-24,-32,-26, 57,-30, -5,  1,-22,  6,  0,-20,-30,-28,-16,-20,-10, -2, 16, 48,-26;
/M: SY='Y'; M=-15,-11,-22,-11,  1,  1,-25,  9,-13, -3, -8, -3,-11,-20,  5, -4,-13,-12,-17, -1, 21,  2;
/M: SY='K'; M= -7,  4,-26,  3, 17,-26,-16, -3,-25, 18,-22,-13,  6,-11, 12, 16,  0, -5,-21,-26,-14, 14;
/M: SY='R'; M=-10, -3,-26, -1, 14,-23,-17, -1,-25, 16,-20,-12,  0,-12, 10, 21, -1, -5,-20,-21,-11, 11;
/M: SY='R'; M=-13,  2,-27, -1,  4,-13,-17, 11,-21,  4,-16,-10,  8,-18,  6, 13, -6,-10,-22,-15, -1,  4;
/M: SY='Q'; M= -8, -5,-27, -5, -2,-19,-14, -6,-12,  0, -5, -3, -3,-13,  4, -1,-10,-10,-14,-24,-10,  0;
/M: SY='S'; M=  0, -4,-19, -6, -4,-16, -9, -8,-10, -8,-11, -3, -3,-14, -5,-10,  7,  7, -6,-29,-12, -5;
/M: SY='W'; M=-10,-10,-28,-10, -4, -8,-17,-13,-17,  3,-16,-11,-10,-18, -6,  1, -9, -6,-13,  9,  1, -4;
/M: SY='H'; M=-12,  0,-29,  3,  9,-20,-18, 11,-21,  5,-18, -8, -2, -5,  4,  4, -6, -8,-20,-23, -3,  4;
/M: SY='E'; M= -2, -1,-21, -2,  7,-21,-11,-10,-19,  2,-18,-12,  1, -5,  2,  0,  7,  6,-14,-28,-16,  4;
/M: SY='P'; M=-11, -3,-24, -1,  0,-20,-16, -6,-21, -2,-22,-15, -2, 12,  1, -4, -5, -6,-23,-17, -9, -1;
/M: SY='E'; M= -8, -2,-26, -1,  5,-16,-18, -9,-11, -6,-14, -9, -2,  5, -2, -8, -3, -6,-14,-28,-15,  0;
/M: SY='K'; M= -5, -1,-27, -1,  9,-22,-10, -7,-23, 14,-20,-12,  1, -7,  3,  9, -4, -8,-20,-22,-11,  5;
/I:         E1=0; IE=-105; DE=-105;
» more

Numerical results [info]

Numerical results for UniProtKB/Swiss-Prot release 2016_05 which contains 551'193 sequence entries.


Total number of hits 142 in 103 different sequences
Number of true positive hits 141 in 102 different sequences
Number of 'unknown' hits 0
Number of false positive hits 1
Number of false negative sequences 19
Number of 'partial' sequences 0
Precision (true positives / (true positives + false positives)) 99.30 %
Recall (true positives / (true positives + false negatives)) 88.12 %

Comments [info]

Matrix type [info] protein_domain
Scaling database [info] reversed
Author [info] K_Hofmann
Taxonomic range [info] Eukaryotes
Maximum number of repetitions [info] 2
Feature key [info] DOMAIN
Feature description [info] Chromo
Version [info] 4

Cross-references [info]

UniProtKB/Swiss-Prot
True positive sequences
102 sequences

CBX1_HUMAN  (P83916    ), CBX1_MOUSE  (P83917    ), CBX2_HUMAN  (Q14781    ), 
CBX2_MOUSE  (P30658    ), CBX3_HUMAN  (Q13185    ), CBX3_MOUSE  (P23198    ), 
CBX3_PONAB  (Q5R6X7    ), CBX4_HUMAN  (O00257    ), CBX4_MOUSE  (O55187    ), 
CBX5_HUMAN  (P45973    ), CBX5_MOUSE  (Q61686    ), CBX6_HUMAN  (O95503    ), 
CBX6_MOUSE  (Q9DBY5    ), CBX7_HUMAN  (O95931    ), CBX7_MOUSE  (Q8VDS3    ), 
CBX7_RAT    (P60889    ), CBX8_HUMAN  (Q9HC52    ), CBX8_MOUSE  (Q9QXV1    ), 
CDY1_HUMAN  (Q9Y6F8    ), CDY2_HUMAN  (Q9Y6F7    ), CDYL1_HUMAN (Q9Y232    ), 
CDYL2_HUMAN (Q8N8U2    ), CDYL2_MOUSE (Q9D5D8    ), CDYL_MOUSE  (Q9WTK2    ), 
CDYL_RAT    (Q6AYK9    ), CEC1_CAEEL  (P34618    ), CEC3_CAEEL  (P45968    ), 
CEC4_CAEEL  (Q19972    ), CHD1_BOMMO  (A9X4T1    ), CHD1_CHICK  (B6ZLK2    ), 
CHD1_DROME  (Q7KU24    ), CHD1_HUMAN  (O14646    ), CHD1_MOUSE  (P40201    ), 
CHD1_YEAST  (P32657    ), CHD2_HUMAN  (O14647    ), CHD2_MOUSE  (E9PZM4    ), 
CHD3_CAEEL  (Q22516    ), CHD3_DROME  (O16102    ), CHD3_HUMAN  (Q12873    ), 
CHD4_HUMAN  (Q14839    ), CHD4_MOUSE  (Q6PDQ2    ), CHD5_HUMAN  (Q8TDI0    ), 
CHD5_MOUSE  (A2A8L1    ), CHD5_RAT    (D3ZD32    ), CHD6_HUMAN  (Q8TD26    ), 
CHD6_MOUSE  (A3KFM7    ), CHD6_RAT    (D3ZA12    ), CHD7_CHICK  (Q06A37    ), 
CHD7_HUMAN  (Q9P2D1    ), CHD7_MOUSE  (A2AJK6    ), CHD8_DANRE  (B0R0I6    ), 
CHD8_HUMAN  (Q9HCK8    ), CHD8_MOUSE  (Q09XV5    ), CHD8_RAT    (Q9JIX5    ), 
CHD8_XENTR  (B5DE69    ), CHD9_HUMAN  (Q3L8U1    ), CHD9_MOUSE  (Q8BYH8    ), 
CHDM_DROME  (O97159    ), CHP1_SCHPO  (Q10103    ), CHP2_SCHPO  (O42934    ), 
CHR4_ARATH  (F4KBP5    ), CHR5_ARATH  (F4IV99    ), CHR7_ARATH  (F4JTF6    ), 
CLR4_SCHPO  (O60016    ), CMT1_ARATH  (O49139    ), CMT1_MAIZE  (Q9AXT8    ), 
CMT2_ARATH  (Q94F87    ), CMT2_MAIZE  (Q9ARI6    ), CMT3_ARATH  (Q94F88    ), 
CMT3_MAIZE  (Q8LPU5    ), ELF1_SCHPO  (O14134    ), HP1_DROME   (P05205    ), 
HP1_DROVI   (P29227    ), HRP1_SCHPO  (Q9US25    ), HRP3_SCHPO  (O14139    ), 
LE418_CAEEL (G5EBZ4    ), LHP1_ARATH  (Q946J8    ), LHP1_ORYSJ  (Q339W7    ), 
LHP1_SOLLC  (Q944N1    ), MPP8_HUMAN  (Q99549    ), MPP8_MOUSE  (Q3TYA6    ), 
MPP8_RAT    (G3V8T1    ), NEW1_YEAST  (Q08972    ), PC_DROME    (P26017    ), 
PKL_ARATH   (Q9S775    ), SR43C_ARATH (O22265    ), SR43C_ORYSJ (Q8LSQ2    ), 
SUV39_DROME (P45975    ), SUV39_DROPS (Q294B9    ), SUV91_BOVIN (Q2NL30    ), 
SUV91_HUMAN (O43463    ), SUV91_MOUSE (O54864    ), SUV91_PONAB (Q5RB81    ), 
SUV91_XENLA (Q6NRE8    ), SUV92_BOVIN (Q32PH7    ), SUV92_CHICK (Q5F3W5    ), 
SUV92_HUMAN (Q9H5I1    ), SUV92_MACFA (Q4R3E0    ), SUV92_MOUSE (Q9EQQ0    ), 
SUV92_XENTR (Q28CQ7    ), SV91A_DANRE (Q6DGD3    ), SWI6_SCHPO  (P40381    )
» more

UniProtKB/Swiss-Prot
False negative sequences
19 sequences

ESA1_ASPOR  (Q2UMQ5    ), ESA1_SCHPO  (O94446    ), ESA1_YEAST  (Q08649    ), 
KAT8_HUMAN  (Q9H7Z6    ), KAT8_MOUSE  (Q9D1P2    ), KAT8_RAT    (Q5XI06    ), 
MRG1_ARATH  (Q94C32    ), MRG2_ARATH  (Q4V3E2    ), MS3L1_HUMAN (Q8N5Y2    ), 
MS3L1_MOUSE (Q9WVG9    ), MS3L1_PONAB (Q5R6Y9    ), MS3L2_HUMAN (P0C860    ), 
MSL3_DROME  (P50536    ), MSL3_DROVI  (Q9NBL2    ), MYST1_ARATH (Q9FLF7    ), 
MYST1_ORYSJ (Q8LI34    ), MYST2_ARATH (Q9LXD7    ), VPRBP_HUMAN (Q9Y4B6    ), 
VPRBP_MOUSE (Q80TR8    )
» more

UniProtKB/Swiss-Prot
False positive sequences
1 sequence

GENL2_ARATH (Q9M2Z3    )

		
PDB
[Detailed view]
80 PDB

1AP0; 1DZ1; 1E0B; 1G6Z; 1GUW; 1KNA; 1KNE; 1PDQ; 1PFB; 1Q3L; 1S4Z; 1X32; 1X3P; 2B2T; 2B2U; 2B2V; 2B2W; 2B2Y; 2D9U; 2DNT; 2DNV; 2DY7; 2DY8; 2EE1; 2EPB; 2FMM; 2H1E; 2K1B; 2K28; 2KVM; 2L11; 2L12; 2L1B; 2MJ8; 2N88; 2RSN; 2RSO; 2RVL; 2RVM; 2RVN; 3DM1; 3F2U; 3FDT; 3G7L; 3GV6; 3H91; 3I3C; 3I8Z; 3I90; 3I91; 3KUP; 3LWE; 3MTS; 3MWY; 3P7J; 3Q6S; 3QO2; 3R93; 3SVM; 3TZD; 4FSX; 4FT2; 4FT4; 4HAE; 4MN3; 4NW2; 4O42; 4O9I; 4X3K; 4X3S; 4X3T; 4X3U; 5AFW; 5E4W; 5E4X; 5EJW; 5EPJ; 5EPK; 5EPL; 5EQ0
» more

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