Entry: PS50113

General information about the entry

Entry name [info] PAC
Accession [info] PS50113
Entry type [info] MATRIX
Date [info] DEC-2001 (CREATED); OCT-2013 (DATA UPDATE); MAY-2016 (INFO UPDATE).
PROSITE Doc. [info] PDOC50112
Associated ProRule [info] PRU00141

Name and characterization of the entry

Description [info] PAC domain profile.
Matrix / Profile [info]
/GENERAL_SPEC: ALPHABET='ABCDEFGHIKLMNPQRSTVWYZ'; LENGTH=53;
/DISJOINT: DEFINITION=PROTECT; N1=6; N2=48;
/NORMALIZATION: MODE=1; FUNCTION=LINEAR; R1=2.4010999; R2=0.0265788; TEXT='NScore';
/NORMALIZATION: MODE=-1; FUNCTION=LINEAR; R1=1897.3623047; R2=1.3622642; TEXT='Heuristic 5.0%';
/CUT_OFF: LEVEL=0; SCORE=230; H_SCORE=2211; N_SCORE=8.5; MODE=1; TEXT='!';
/CUT_OFF: LEVEL=-1; SCORE=155; H_SCORE=2109; N_SCORE=6.5; MODE=1; TEXT='?';
/DEFAULT: 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='R'; M=-10, -8,-25,-11, -2, -8,-20,  2,-15,  1,-10, -4, -4,-16,  6,  8, -6, -4,-15,-15,  2,  1;
/M: SY='D'; M= -8,  8,-24, 10,  6,-22,-11, -7,-21, -1,-18,-13,  5, -7,  1, -4,  2,  2,-18,-28,-14,  3;
/M: SY='V'; M= -7,-17,-21,-20,-15, -1,-17,-14,  0,-14, -1, -1,-16,-22,-14,-13,-10, -4,  2, -6,  1,-15;
/M: SY='E'; M=-10, 10,-27, 17, 36,-28,-17, -3,-27,  7,-21,-18,  3, -2, 13,  1,  2, -5,-25,-31,-18, 24;
/M: SY='F'; M= -9,-21,-21,-24,-20,  9,-21,-14,  4,-16,  1,  2,-18,-19,-18,-14,-14, -8,  4, -7,  8,-20;
/M: SY='R'; M= -8, -7,-26, -8,  1,-21,-14, -5,-19, 10,-16, -7, -4,-16,  8, 21, -4, -5,-14,-18,-11,  3;
/M: SY='L'; M= -8,-24,-21,-28,-21, 11,-27,-16, 16,-21, 20, 14,-21,-25,-19,-18,-18, -8, 13,-16,  4,-20;
/M: SY='I'; M= -8,-18,-23,-20,-10, -4,-28,-16,  9,-10,  4,  4,-15,-18, -9, -8,-12, -6,  7,-19, -1,-12;
/M: SY='R'; M= -8,  3,-23, -1,  1,-20,-11,  0,-22,  6,-19,-11,  7,-14,  3, 13, -1, -3,-19,-26,-12,  1;
/I:         I=-8; MI=0; IM=0; DM=-15; MD=-15;
/M: SY='K'; M= -5, -5,-25, -5,  0,-22,-15,-11,-21, 12,-19,-11, -3, -1,  1, 12, -5, -6,-17,-24,-14, -1;
/M: SY='D'; M=-13, 28,-27, 37, 11,-32, -5,  1,-32, -1,-27,-22, 17, -8,  1, -7,  4, -5,-26,-35,-18,  6;
/M: SY='G'; M= -1, -5,-28, -5,-13,-28, 48,-16,-34,-14,-27,-18,  3,-18,-14,-14,  1,-15,-26,-23,-26,-13;
/M: SY='S'; M=  0, -1,-19, -3,  4,-22, -8,-10,-21,  0,-20,-14,  2,-10,  3,  3, 12, 10,-14,-29,-16,  3;
/M:         M= -7,-16,-20,-17, -9,-13,-21,-17, -2, -9, -4, -1,-14, -5, -9, -9, -8, -4, -2,-21,-11,-10;
/M: SY='F'; M=-10,-22,-23,-26,-19, 12,-24,-15,  5,-10,  5,  3,-16,-24,-16, -1,-15, -9,  5,-12,  6,-18;
/M: SY='W'; M=-13,-25,-33,-25,-18,  1,-22,-12,-11,-16,-12,-10,-23,-12,-14,-14,-19,-12,-16, 47, 14,-15;
/M: SY='V'; M= -1,-20, -8,-25,-21,  0,-20,-21, 11,-21, 10,  6,-17,-25,-20,-20,-12, -6, 13,-23, -7,-21;
/M: SY='E'; M=-10, -7,-26, -5,  5,-11,-22,  3, -9, -7,  0, -2, -8,-17,  1, -4,-11,-10,-10,-21, -2,  2;
/M: SY='V'; M= -1,-19,-19,-21,-16,  0,-19,-19,  6,-18,  7,  2,-17,-22,-15,-16, -8, -2,  8,-17, -5,-16;
/I:         I=-8; MI=0; MD=-16; IM=0;
/M: SY='N'; M= -6,  5,-19,  3,  1,-16,-13, -1,-18,  1,-18,-12,  7,-14,  2,  3,  6,  5,-13,-23, -8,  0; D=-3;
/I:         DM=-16;
/M: SY='A'; M=  8,-16,-18,-20,-16,-11, -4,-20,  2,-15, -2, -1,-12,-19,-16,-16, -3, -3,  7,-22,-12,-17; D=-3;
/I:         DM=-16;
/M: SY='S'; M=  0, -9,-12,-12, -6,-16,-13,-10,-11, -6,-13, -7, -5,-16, -3, -5,  5,  4, -5,-27,-11, -5;
/M: SY='P'; M= -2,-19,-27,-15, -6,-18,-17,-20,-10,-13,-13,-11,-18, 35,-13,-18, -8, -8,-12,-27,-21,-12;
/M: SY='I'; M= -9,-20,-23,-25,-17, -1,-28,-14, 17,-16,  9, 12,-16,-21,-12,-13,-12, -4, 12,-18,  2,-17;
/M: SY='R'; M=-15,-16,-23,-18,-10,  1,-23, -2,-10,  1, -4, -1,-10,-21, -5, 16,-13, -7, -8,-14,  5,-10;
/M: SY='D'; M=-13, 27,-27, 33,  7,-26, -4,  1,-30, -4,-26,-22, 19,-15, -2, -8,  2, -6,-26,-26,-12,  2;
/M: SY='E'; M=  0,  3,-24,  6, 14,-26, -7, -6,-22,  1,-20,-14,  1, -7,  8, -3,  4, -4,-18,-27,-17, 10;
/M: SY='D'; M= -4,  7,-25,  8,  5,-26, -4, -5,-25,  4,-22,-15,  6,-14,  4,  4,  2, -5,-20,-26,-16,  4;
/M: SY='G'; M= -6,  6,-29, 10, -3,-32, 35, -8,-37,-10,-28,-20,  6,-16, -6,-12,  0,-15,-30,-26,-24, -5;
/I:         I=-6; MI=-29; MD=-29; IM=-29;
/M: SY='E'; M= -6,  1,-17,  1, 10,-20,-13,  1,-20,  4,-16,-10,  2,-12, 10,  5,  0, -4,-18,-23,-11, 10; D=-6;
/I:         I=-6; MI=-29; MD=-29; IM=-29; DM=-29;
/M: SY='V'; M= -2,-20,-15,-21,-17,  2,-21,-17, 11,-15,  8,  5,-19,-13,-17,-13,-11, -3, 14,-14, -3,-17; D=-6;
/I:         I=-6; MI=-29; IM=-29; DM=-29;
/M: SY='I'; M= -6,-12,-23,-14, -7,-15,-23,-13,  1, -5, -4,  0, -9,-14, -1, -2, -6, -3,  1,-23, -9, -6;
/M: SY='G'; M= -8,-10,-27,-11, -7,-11,  4, -2,-18, -6,-12, -7, -5,-19, -6, -3, -8,-13,-16,-14,  0, -8;
/M: SY='F'; M= -9,-25,-22,-30,-22, 21,-29,-17, 13,-21, 11,  7,-21,-25,-21,-18,-16, -6, 10, -4, 15,-22;
/M: SY='I'; M= -7,-22,-16,-26,-19, -2,-28,-19, 18,-21, 16, 11,-19,-23,-14,-17,-13, -4, 15,-24, -5,-18;
/M: SY='G'; M=  2,-16,-13,-19,-20,-13, 19,-21,-15,-20, -9, -8,-11,-23,-20,-19, -5,-11, -7,-23,-18,-20;
/M: SY='V'; M= -3,-16,-17,-22,-19,  2,-21,-19, 11,-17,  3,  6,-12,-21,-16,-16, -4,  5, 14,-23, -5,-18;
/M:         M= -3,-14,-19,-18,-14, -4, -8, -8, -5,-17, -5, -1, -9,-20, -9,-15, -6, -8, -5,-18, -5,-12;
/M: SY='R'; M= -8,-10,-24,-12, -3,-16,-21, -5, -8,  3, -7, -1, -5,-17,  5, 13, -4, -3, -7,-24, -9, -1;
/M: SY='D'; M=-18, 45,-29, 62, 18,-37,-10, -1,-37, -1,-29,-28, 19, -9,  0,-10,  1, -9,-28,-39,-20,  9;
/M: SY='I'; M= -7,-27,-24,-34,-27, -1,-30,-27, 35,-26, 18, 16,-21,-23,-21,-25,-17, -6, 26,-22, -4,-27;
/M: SY='T'; M=  2,  1,-12, -6, -7,-14,-13,-16,-13, -9,-15,-12,  2,-11, -7, -9, 22, 37, -4,-32,-13, -7;
/M: SY='E'; M= -5,  9,-27, 15, 27,-30,-12, -3,-26,  4,-20,-16,  1, -4, 11, -3,  0, -9,-23,-28,-18, 19;
/M: SY='R'; M=-11,-10,-26,-12,  0,-14,-21,  2,-15,  5, -6, -2, -6,-18,  8, 19, -9, -7,-13,-21, -5,  2;
/M: SY='K'; M=-11, -4,-28, -4,  3,-21,-21, -3,-19, 25,-19, -6, -3,-14,  6, 19, -9, -8,-13,-20, -5,  3;
/M: SY='Q'; M= -7, -3,-26, -3, 16,-23,-19, -3,-16,  7,-11, -3, -3,-12, 18, 10, -3, -5,-17,-24,-12, 16;
/M: SY='A'; M= 15,-16,-17,-21,-13, -9,-13,-19, -1,-14,  0, -1,-14, -9,-12,-17, -2,  0,  2,-21,-11,-13;
/M: SY='E'; M= -8, -2,-28,  0, 22,-23,-19, -2,-15,  3,-10, -5, -4,-11, 18,  2, -5, -9,-18,-23,-10, 19;
/M: SY='E'; M= -4,  3,-25,  5, 12,-24,-15, -2,-17,  1,-13, -8,  0,-12, 12,  1, -1, -7,-17,-26,-12, 12;
/M: SY='E'; M=  1, -1,-24, -2, 11,-24,-15, -5,-19,  8,-16, -9,  0,-10,  9, 11, -1, -7,-17,-24,-15,  9;
/M: SY='L'; M= -7,-22,-21,-23,-13,  4,-26,-17,  9,-19, 28, 11,-22,-25,-13,-12,-20, -8,  4,-20, -3,-13;
/M: SY='Q'; M= -5, -1,-25, -3,  7,-24,-17,  1,-16,  6,-15, -7,  2,-13, 14, 10, -1, -4,-16,-25,-11,  9;
/M: SY='E'; M= -5,  2,-23,  2, 13,-23,-15, -4,-22,  8,-17,-12,  2,-11,  9, 12, -2, -5,-19,-25,-14, 10;
/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 139 in 112 different sequences
Number of true positive hits 139 in 112 different sequences
Number of 'unknown' hits 0
Number of false positive hits 0
Number of false negative sequences 105
Number of 'partial' sequences 0
Precision (true positives / (true positives + false positives)) 100.00 %
Recall (true positives / (true positives + false negatives)) 56.97 %

Comments [info]

Matrix type [info] protein_domain
Scaling database [info] reversed
Author [info] K_Hofmann
Taxonomic range [info] Archaea, Eukaryotes, Prokaryotes (Bacteria)
Maximum number of repetitions [info] 4
Feature key [info] DOMAIN
Feature description [info] PAC
Version [info] 4

Cross-references [info]

UniProtKB/Swiss-Prot
True positive sequences
112 sequences

ARCB_ECO57  (P58363    ), ARCB_ECOLI  (P0AEC3    ), ARCB_SHIFL  (P0AEC4    ), 
ATOS_ECOLI  (Q06067    ), BAT_HALSA   (Q9HPU8    ), BDLA_PSEAE  (Q9I3S1    ), 
BVGS_BORBR  (P26762    ), BVGS_BORPA  (P40330    ), BVGS_BORPE  (P16575    ), 
DCRA_DESVH  (P35841    ), DCTS_RHOCA  (P37739    ), DHKD_DICDI  (Q54SP4    ), 
DHKF_DICDI  (Q551X9    ), DHKI_DICDI  (Q86AT9    ), DOSP_ECOLI  (P76129    ), 
FILI_METH6  (E5KK10    ), FIXL_AZOC5  (P26489    ), FIXL_BRADU  (P23222    ), 
FIXL_RHIME  (P10955    ), KCNAE_DROME (Q02280    ), KCNH1_BOVIN (O18965    ), 
KCNH1_HUMAN (O95259    ), KCNH1_MOUSE (Q60603    ), KCNH1_RAT   (Q63472    ), 
KCNH2_CANLF (Q9TSZ3    ), KCNH2_HUMAN (Q12809    ), KCNH2_MOUSE (O35219    ), 
KCNH2_RABIT (Q8WNY2    ), KCNH2_RAT   (O08962    ), KCNH3_HUMAN (Q9ULD8    ), 
KCNH3_MOUSE (Q9WVJ0    ), KCNH3_RAT   (O89047    ), KCNH4_HUMAN (Q9UQ05    ), 
KCNH4_RAT   (Q9R1T9    ), KCNH5_HUMAN (Q8NCM2    ), KCNH5_MOUSE (Q920E3    ), 
KCNH5_RAT   (Q9EPI9    ), KCNH8_HUMAN (Q96L42    ), KCNH8_MOUSE (P59111    ), 
KCNH8_RAT   (Q9QWS8    ), KINC_BACSU  (P39764    ), LOVHK_BRUA1 (B2SB67    ), 
LOVHK_BRUA2 (Q2YKK7    ), LOVHK_BRUAB (Q577Y7    ), LOVHK_BRUC2 (A9MBM8    ), 
LOVHK_BRUME (Q8YC53    ), LOVHK_BRUO2 (A5VUS1    ), LOVHK_BRUSI (A9WYQ7    ), 
LOVHK_BRUSU (Q8FW73    ), LOVHK_OCHA4 (A6X554    ), LOVHK_PSE14 (Q48IV1    ), 
LOVHK_PSESM (Q881J7    ), LOVHK_PSEU2 (Q4ZSY3    ), LOVHK_RHIL3 (Q1M667    ), 
LVHK1_ERYLH (Q2NCA3    ), LVHK2_ERYLH (Q2NB77    ), LVHTH_ERYLH (Q2NB98    ), 
MAK1_SCHPO  (Q9P7Q7    ), MAK3_SCHPO  (O74539    ), MSMS_METAC  (Q8THF6    ), 
NIFL_AZOVI  (P30663    ), NIFL_KLEOX  (P56267    ), NIFL_KLEPN  (P06772    ), 
NODV_BRADU  (P15939    ), PHOT1_ARATH (O48963    ), PHOT2_ARATH (P93025    ), 
PHOT2_ORYSJ (Q9ST27    ), PHOT_BACSU  (O34627    ), PHOT_LISIN  (Q92DM1    ), 
PHOT_LISMO  (P58724    ), PHT1A_ORYSJ (Q2QYY8    ), PHT1B_ORYSJ (Q2RBR1    ), 
PHY1_CERPU  (P25848    ), PHY1_SELMA  (Q01549    ), PHYA1_TOBAC (P33530    ), 
PHYA_SOLTU  (P30733    ), PHYE_IPONI  (P55004    ), PHY_MOUSC   (P33529    ), 
TCSA_EMENI  (Q9P896    ), TDIS_THAAR  (O87939    ), TLOV1_ARATH (O64511    ), 
TMOS_PSEME  (Q8KIY1    ), TODS_PSEP1  (A5W4E3    ), TODS_PSEPT  (E0X9C7    ), 
WALK_STAA1  (A7WWQ7    ), WALK_STAA2  (A6TXG9    ), WALK_STAA3  (Q2FKN7    ), 
WALK_STAA8  (Q2G2U4    ), WALK_STAA9  (A5INR0    ), WALK_STAAB  (Q2YUQ2    ), 
WALK_STAAC  (Q5HJX6    ), WALK_STAAE  (A6QD58    ), WALK_STAAM  (Q7A305    ), 
WALK_STAAN  (Q7A8E0    ), WALK_STAAR  (Q6GKS6    ), WALK_STAAS  (Q6GD71    ), 
WALK_STAAT  (A8YYU2    ), WALK_STAAU  (Q9RDT3    ), WALK_STAAW  (Q7A215    ), 
WALK_STAEQ  (Q5HK19    ), WALK_STAES  (Q8CU87    ), WALK_STAHJ  (Q4LAJ8    ), 
WALK_STAS1  (Q4A159    ), Y1002_RHIME (Q52969    ), Y1364_MYCTO (P9WLZ6    ), 
Y1364_MYCTU (P9WLZ7    ), Y3085_AZOC5 (Q04855    ), Y4LL_RHISN  (P55552    ), 
YDAM_ECO57  (Q8X8Q3    ), YDAM_ECOLI  (P77302    ), YEGE_ECOLI  (P38097    ), 
YYCG_BACSU  (Q45614    )
» more

UniProtKB/Swiss-Prot
False negative sequences
105 sequences

ADO1_ARATH  (Q94BT6    ), ADO2_ARATH  (Q8W420    ), ADO3_ARATH  (Q9C9W9    ), 
AHA1_CAEEL  (O02219    ), AHR_DELLE   (Q95LD9    ), AHR_HUMAN   (P35869    ), 
AHR_MOUSE   (P30561    ), AHR_MUSCR   (Q8R4S7    ), AHR_MUSMC   (Q8R4S6    ), 
AHR_MUSMM   (Q8R4S5    ), AHR_MUSSI   (Q8R4S4    ), AHR_MUSSP   (Q8R4S2    ), 
AHR_RABIT   (O02747    ), AHR_RAT     (P41738    ), ARNT2_DANRE (Q9DG12    ), 
ARNT2_HUMAN (Q9HBZ2    ), ARNT2_MOUSE (Q61324    ), ARNT2_RAT   (Q78E60    ), 
ARNT_BOVIN  (Q9BE97    ), ARNT_DROME  (O15945    ), ARNT_HUMAN  (P27540    ), 
ARNT_MOUSE  (P53762    ), ARNT_ONCMY  (P79832    ), ARNT_RABIT  (O02748    ), 
ARNT_RAT    (P41739    ), BMAL1_CHICK (Q9I8T7    ), BMAL1_HORSE (A0MLS5    ), 
BMAL1_HUMAN (O00327    ), BMAL1_MESAU (O88529    ), BMAL1_MOUSE (Q9WTL8    ), 
BMAL1_NANGA (Q91YA9    ), BMAL1_PONAB (Q5R4T2    ), BMAL1_RAT   (Q9EPW1    ), 
BMAL1_TYTAL (Q6YGZ5    ), BMAL2_CHICK (Q8QGQ7    ), BMAL2_HUMAN (Q8WYA1    ), 
BMAL2_MOUSE (Q2VPD4    ), CLOCK_CHICK (Q8QGQ6    ), CLOCK_HUMAN (O15516    ), 
CLOCK_MOUSE (O08785    ), CLOCK_NANGA (Q91YB0    ), CLOCK_PONAB (Q5RAK8    ), 
CLOCK_RAT   (Q9WVS9    ), CLOCK_SPACA (Q91YB2    ), CLOCK_SPAJD (Q91YA8    ), 
CLOCK_TYTAL (Q6YGZ4    ), CYCL_DROME  (O61734    ), DHKA_DICDI  (Q54U87    ), 
DHKL_DICDI  (Q54RP6    ), EPAS1_HUMAN (Q99814    ), EPAS1_MOUSE (P97481    ), 
EPAS1_RAT   (Q9JHS1    ), HIF1A_BOSMU (Q0PGG7    ), HIF1A_BOVIN (Q9XTA5    ), 
HIF1A_CHICK (Q9YIB9    ), HIF1A_EOSBA (Q309Z6    ), HIF1A_HUMAN (Q16665    ), 
HIF1A_MOUSE (Q61221    ), HIF1A_ONCMY (Q98SW2    ), HIF1A_RAT   (O35800    ), 
HIF1A_XENLA (Q9I8A9    ), HIF1_CAEEL  (G5EGD2    ), KCNH6_HUMAN (Q9H252    ), 
KCNH6_RAT   (O54853    ), KCNH7_HUMAN (Q9NS40    ), KCNH7_MOUSE (Q9ER47    ), 
KCNH7_RAT   (O54852    ), KINA_BACSU  (P16497    ), KINB_PSEAI  (O34206    ), 
NPAS1_HUMAN (Q99742    ), NPAS1_MOUSE (P97459    ), NPAS2_CHICK (Q5ZQU2    ), 
NPAS2_HUMAN (Q99743    ), NPAS2_MOUSE (P97460    ), NPAS3_HUMAN (Q8IXF0    ), 
NPAS3_MOUSE (Q9QZQ0    ), NPAS4_DANRE (Q1ECW2    ), NPAS4_HUMAN (Q8IUM7    ), 
NPAS4_MOUSE (Q8BGD7    ), NPAS4_RAT   (Q8CJH6    ), PDE8A_HUMAN (O60658    ), 
PDE8A_MOUSE (O88502    ), PER1_HUMAN  (O15534    ), PER1_MOUSE  (O35973    ), 
PER1_RAT    (Q8CHI5    ), PER1_SPAJD  (Q8K3T3    ), PER2_CHICK  (Q8QGQ8    ), 
PER2_HUMAN  (O15055    ), PER2_MOUSE  (O54943    ), PER2_RAT    (Q9Z301    ), 
PER2_SPAJD  (Q8K3T2    ), PER3_HUMAN  (P56645    ), PER3_MOUSE  (O70361    ), 
PER3_RAT    (Q8CJE2    ), SIM1A_DANRE (Q98SJ5    ), SIM1_HUMAN  (P81133    ), 
SIM1_MOUSE  (Q61045    ), SIM1_PANPA  (A1YFY6    ), SIM1_PANTR  (A2T6X9    ), 
SIM2_HUMAN  (Q14190    ), SIM2_MOUSE  (Q61079    ), SIMA_DROME  (Q24167    ), 
TRH_DROME   (Q24119    ), WALK_STASR  (A5A2P0    ), WC1_NEUCR   (Q01371    )
» more

PDB
[Detailed view]
50 PDB

1BYW; 1DP6; 1DP8; 1DP9; 1DRM; 1LSV; 1LSW; 1LSX; 1LT0; 1XJ2; 1XJ3; 1Y28; 2CMN; 2GJ3; 2L0W; 2L1M; 2L4R; 2OWH; 2OWJ; 2PR5; 2PR6; 2Z6C; 2Z6D; 3K3C; 3K3D; 3KX0; 3P7N; 3T50; 4EEP; 4EER; 4EES; 4EET; 4EEU; 4GCZ; 4HHD; 4HOI; 4HP9; 4HQA; 4LLO; 4MN5; 4MN6; 4NXB; 4NXE; 4NXF; 4NXG; 4R38; 4R3A; 5HWT; 5HWV; 5HWW
» more

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