Entry: PS51027

General information about the entry

Entry name [info] INTEGRASE_DBD
Accession [info] PS51027
Entry type [info] MATRIX
Date [info] OCT-2004 (CREATED); OCT-2013 (DATA UPDATE); JUN-2016 (INFO UPDATE).
PROSITE Doc. [info] PDOC51027
Associated ProRule [info] PRU00506

Name and characterization of the entry

Description [info] Integrase DNA binding domain profile.
Matrix / Profile [info]
/GENERAL_SPEC: ALPHABET='ABCDEFGHIKLMNPQRSTVWYZ'; LENGTH=50;
/DISJOINT: DEFINITION=PROTECT; N1=6; N2=45;
/NORMALIZATION: MODE=1; FUNCTION=LINEAR; R1=1.8148787; R2=0.0159785; TEXT='NScore';
/NORMALIZATION: MODE=-1; FUNCTION=LINEAR; R1=2856.8085938; R2=1.9361702; TEXT='Heuristic 5.0%';
/CUT_OFF: LEVEL=0; SCORE=419; H_SCORE=3668; N_SCORE=8.5; MODE=1; TEXT='!';
/CUT_OFF: LEVEL=-1; SCORE=294; H_SCORE=3426; N_SCORE=6.5; MODE=1; TEXT='?';
/DEFAULT: M0=-9; 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='K'; M= -7, -7,-29, -7,  8,-15,-20, -4,-21, 11,-19,-10, -6,  3,  7,  6, -7,-10,-20,-19, -8,  7;
/M: SY='W'; M=-14,-25,-28,-28,-18, 13,-24,-15, -2,-14,  5,  9,-22,-17,-13, -9,-21,-11, -7, 17,  8,-15;
/M: SY='V'; M= -6,-27, 18,-32,-30,  4,-31,-27, 13,-24,  3,  2,-25,-31,-29,-23,-13, -5, 25,-27, -6,-30;
/M: SY='Y'; M=-16,-17,-29,-19,-14, 12,-26,  3, -6,  2, -4,  3,-17,-24, -7,  0,-19,-11,-11, 16, 38,-12;
/M: SY='W'; M=-18,-29,-35,-31,-26, 23,-27, -7, -2,-17, -5, -5,-28,-29,-18,-16,-27,-17,-11, 65, 48,-22;
/M: SY='R'; M=-14, -4,-30, -4,  6,-26,-20, -6,-30, 41,-26,-10,  0,-14, 10, 48,-10,-10,-20,-20,-10,  6;
/M: SY='D'; M=-13, 14,-26, 17,  3,-19,-19, -9, -7,-10, -6, -9,  7,-15, -6,-13, -6, -5,-10,-32,-12, -2;
/M: SY='P'; M= -9,-11,-29, -8, -1,-22,-11,-12,-16, -2,-18,-11, -7, 15, -3,  2, -6, -8,-16,-27,-19, -5;
/M: SY='R'; M= -9,-13,-26,-13, -8,-15, -5,-14,-16,  5, -3, -3, -9,-20, -6, 10,-12, -8,-12,-21,-11, -8;
/I:         I=-5; MD=-25;
/M: SY='D'; M=-12, 12,-22, 15,  6,-20,-15,  1,-20,  1,-13,-12,  7,-13,  3,  4, -1,  2,-16,-27,-10,  3; D=-5;
/I:         I=-5; MI=0; MD=-25; IM=0; DM=-25;
/M: SY='N'; M= -9,  5,-28,  4,  6,-28,  0,  1,-28,  8,-27,-14, 10, -7,  7,  7, -1, -9,-27,-27,-17,  6;
/M: SY='E'; M= -7, -4,-22, -2,  7,-17,-19,-10,-13,  2, -7, -7, -5,-14,  2,  3, -1,  1, -9,-27,-12,  4;
/M: SY='W'; M=-18,-37,-48,-37,-29,  7,-12,-29,-22,-20,-21,-20,-37,-29,-20,-20,-37,-29,-30,135, 25,-20;
/M: SY='K'; M=-12, -3,-29, -1, 12,-21,-22,  0,-23, 29,-20, -8, -4,-13, 10, 16,-10,-10,-20,-16,  1, 10;
/I:         I=-6; MD=-32;
/M: SY='G'; M= -2, -3,-28, -2,-13,-29, 52,-16,-37,-12,-28,-19,  2,-17,-15,-14, -1,-17,-27,-20,-26,-14; D=-6;
/I:         I=-6; MI=-32; IM=-32; DM=-32;
/M: SY='P'; M=-10,-17,-37,-11, -2,-28,-15,-13,-17,-10,-25,-15,-16, 62, -4,-17, -9,-11,-26,-28,-24, -7;
/M: SY='D'; M= -7,  3,-27,  8, -4,-19, -5,-10,-20,-10,-14,-11, -4, -7, -6,-14, -5, -5,-18,-14, -9, -5;
/M: SY='P'; M=-12, -7,-31, -5,  6,-26,-20, -8,-20, 11,-22,-11, -4, 16,  6, 14, -7, -9,-20,-26,-17,  3;
/M: SY='V'; M=  0,-26,-16,-28,-24,  2,-27,-22, 22,-21, 14,  9,-24,-26,-22,-20,-12, -3, 28,-21, -1,-24;
/M: SY='L'; M=-10,-27,-10,-29,-18,  4,-31,-21, 18,-28, 36, 14,-26,-28,-19,-21,-25,-10,  9,-23, -4,-19;
/M: SY='W'; M=-10,-25,-31,-28,-22, -3,-19,-22,  3,-18, -6, -3,-21,-23,-12,-18,-17, -9, -2, 31,  7,-17;
/M: SY='W'; M=-11,-11,-35, -9,  1,-17,-13,-14,-27, 11,-23,-16,-12,-16, -1,  8,-16,-16,-24, 29, -1,  1;
/M: SY='G'; M=  8, -9,-25,-10,-16,-27, 52,-19,-33,-17,-27,-19,  0,-17,-16,-19,  6,-12,-23,-22,-27,-16;
/M: SY='R'; M=-10,  4,-27,  8, 12,-26,-16, -3,-29, 18,-22,-15,  3,-13, 10, 29, -2, -8,-21,-26,-14,  9;
/M: SY='G'; M= -1, -8,-30, -7,-13,-30, 62,-18,-39,-17,-29,-20,  0,-18,-17,-18,  0,-19,-30,-21,-29,-15;
/M: SY='A'; M= 21,-12,-17,-17,-10, -9, -5, -9,-13,-12,-13,-10, -9, -6,-10,-17,  5, -2, -8,-16, -5,-11;
/M: SY='V'; M= 19,-22,-14,-28,-22, -8,-19,-26, 17,-18,  3,  3,-20,-20,-20,-22, -3, -2, 26,-24,-12,-22;
/M: SY='C'; M= -2,-25, 34,-30,-27, -7,-28,-27,  5,-25,  6,  0,-25,-32,-26,-24,-13, -6, 17,-34,-16,-27;
/M: SY='V'; M= -4,-30,-16,-32,-28,  2,-32,-28, 31,-24, 20, 14,-28,-28,-26,-22,-16, -4, 38,-26, -6,-28;
/M: SY='K'; M= -8, -7,-25, -9, -1,  0,-19, -8,-18, 10,-17, -9, -3,-11, -3,  3, -4, -6,-15,-14,  2, -2;
/M: SY='D'; M=-12, 11,-28, 19,  7,-25,-17, -3,-20, -6,-21,-17,  3, 10, -4,-12, -2, -5,-18,-32,-15,  0;
/I:         I=-4; MD=-18;
/M: SY='Q'; M= -9,  0,-27,  1, 11,-27, -7, -2,-20,  4,-18, -9,  2,-12, 17,  9, -1, -9,-21,-23,-14, 13; D=-4;
/I:         I=-4; MD=-18;
/M: SY='E'; M= -5,  9,-19, 13, 14,-20, -1, -4,-20,  1,-15,-11,  4, -7,  2, -4,  0, -5,-17,-21,-14,  8; D=-4;
/I:         I=-4; MD=-18;
/M: SY='S'; M=  2,  3,-10,  1,  5,-12, -7, -1,-11,  0,-11, -8,  4, -6,  1, -2,  7,  5, -8,-17, -8,  3; D=-4;
/I:         I=-4; MI=0; MD=-18; IM=0; DM=-18;
/M: SY='E'; M= -9, 16,-27, 22, 23,-32, -6, -3,-30,  6,-25,-19,  9, -9, 11, -1,  3, -6,-26,-31,-18, 17;
/M: SY='K'; M= -3,  1,-25,  1,  2,-24, -2,-11,-24,  7,-21,-14,  3, -8, -2,  3,  0, -4,-19,-26,-17,  0;
/M: SY='P'; M= -6,-17,-29,-16,-12, -9,-24,-14,  0,-14, -8, -6,-17, 19,-13,-19,-10, -5, -6,-16,  1,-16;
/M: SY='V'; M= -7,-19,-23,-22,-13, -2,-25,-16,  4, -4,  4,  4,-14,-21, -9,  2,-12, -7,  5,-20, -4,-12;
/M: SY='W'; M= -9,-34,-34,-34,-26,  4,-23,-28, -1,-20, -4, -7,-33,-23,-21,-20,-27,-17, -3, 65, 10,-22;
/M: SY='I'; M= -7,-28,-21,-31,-24,  1,-34,-25, 33,-23, 16, 13,-24,-24,-22,-23,-16, -6, 31,-22, -1,-25;
/M: SY='P'; M= -7,-18,-38,-10,  0,-29,-19,-20,-20, -7,-29,-19,-18, 80, -9,-18, -9, -9,-28,-29,-28, -9;
/M: SY='R'; M=-12, -4,-28, -3,  5,-12,-17,  0,-21,  0,-16,-13, -3,-17,  1,  6, -5, -5,-20,  0,  1,  2;
/M: SY='R'; M=-17, -8,-29, -9,  1,-21,-20, -3,-29, 31,-21,-10,  0,-18,  9, 60, -8, -7,-19,-21,-10,  1;
/M: SY='H'; M=-15, -6,-26, -4, -5, -5,-23,  6,-12, -3,  3,  0, -7,-21, -6,  0,-16,-12,-11,-22,  1, -6;
/M: SY='V'; M=  6,-20,-10,-26,-20, -4,-23,-23, 13,-19, 11,  7,-19,-22,-18,-19, -7,  5, 18,-25, -9,-20;
/M: SY='K'; M=-13, -3,-30, -3,  7,-27,-20, -7,-30, 44,-27,-10,  0,-13, 10, 42,-10,-10,-20,-20,-10,  7;
/M: SY='F'; M= -9,-19,-26,-22,-13,  7,-20,-12, -6, -9, -4, -3,-12, -8,-12, -4,-12,-10, -7,-14, -1,-14;
/M: SY='I'; M= -2,-21,-23,-27,-22,  5,-28,-21, 22,-22, 10,  7,-17,-21,-19,-23,-13, -7, 16,-16,  3,-23;
/M: SY='P'; M= -4, -7,-29, -8, -1,-23,-18,-13,-12,  0,-20,-11, -3, 20, -2, -4, -3, -4,-16,-27,-18, -4;
/M: SY='D'; M=-10,  8, -8, 11, 11,-27,-17,-10,-27, -3,-25,-20,  2,  7, -2,-10,  0, -2,-23,-35,-22,  4;
/I:         E1=0; IE=-105; DE=-105;
» more

Numerical results [info]

Numerical results for UniProtKB/Swiss-Prot release 2016_07 which contains 551'705 sequence entries.


Total number of hits 106 in 106 different sequences
Number of true positive hits 106 in 106 different sequences
Number of 'unknown' hits 0
Number of false positive hits 0
Number of false negative sequences 1
Number of 'partial' sequences 0
Precision (true positives / (true positives + false positives)) 100.00 %
Recall (true positives / (true positives + false negatives)) 99.07 %

Comments [info]

Matrix type [info] protein_domain
Scaling database [info] reversed
Author [info] N_Hulo
Taxonomic range [info] Eukaryotes, Eukaryotic viruses
Maximum number of repetitions [info] 1
Feature key [info] DNA_BIND
Feature description [info] Integrase-type
Version [info] 4

Cross-references [info]

UniProtKB/Swiss-Prot
True positive sequences
106 sequences

PO113_HUMAN (P63132    ), POK10_HUMAN (P10266    ), POK11_HUMAN (Q9UQG0    ), 
POK19_HUMAN (Q9WJR5    ), POK25_HUMAN (P63136    ), POK6_HUMAN  (Q9BXR3    ), 
POK7_HUMAN  (P63135    ), POK8_HUMAN  (P63133    ), POL_ALV     (Q7SQ98    ), 
POL_BIV29   (P19560    ), POL_BLVAU   (P25059    ), POL_BLVJ    (P03361    ), 
POL_CAEVC   (P33459    ), POL_EIAV9   (P11204    ), POL_EIAVC   (P32542    ), 
POL_EIAVY   (P03371    ), POL_FIVPE   (P16088    ), POL_FIVSD   (P19028    ), 
POL_FIVT2   (P31822    ), POL_HTL1A   (P03362    ), POL_HTL1C   (P14078    ), 
POL_HTL1L   (P0C211    ), POL_HTL32   (Q0R5R2    ), POL_HTL3P   (Q4U0X6    ), 
POL_HTLV2   (P03363    ), POL_HV190   (O93215    ), POL_HV192   (O12158    ), 
POL_HV193   (O89290    ), POL_HV196   (Q9QBY3    ), POL_HV197   (Q9QBZ9    ), 
POL_HV19N   (O41798    ), POL_HV1A2   (P03369    ), POL_HV1AN   (Q77373    ), 
POL_HV1B1   (P03366    ), POL_HV1B5   (P04587    ), POL_HV1B9   (Q73368    ), 
POL_HV1BR   (P03367    ), POL_HV1EL   (P04589    ), POL_HV1ET   (Q75002    ), 
POL_HV1H2   (P04585    ), POL_HV1JR   (P20875    ), POL_HV1LW   (P0C6F2    ), 
POL_HV1M2   (Q9QBZ1    ), POL_HV1MA   (P04588    ), POL_HV1MN   (P05961    ), 
POL_HV1MP   (Q9QBZ5    ), POL_HV1MV   (Q79666    ), POL_HV1N5   (P12497    ), 
POL_HV1ND   (P18802    ), POL_HV1OY   (P20892    ), POL_HV1RH   (P05959    ), 
POL_HV1S2   (Q9WC54    ), POL_HV1S9   (Q9WC63    ), POL_HV1SE   (O89940    ), 
POL_HV1U4   (P24740    ), POL_HV1V9   (Q9Q720    ), POL_HV1VI   (Q9QSR3    ), 
POL_HV1Y2   (P35963    ), POL_HV1YB   (Q9IDV9    ), POL_HV1YF   (O91080    ), 
POL_HV1Z2   (P12499    ), POL_HV1Z6   (P04586    ), POL_HV2BE   (P18096    ), 
POL_HV2CA   (P24107    ), POL_HV2D1   (P17757    ), POL_HV2D2   (P15833    ), 
POL_HV2EH   (Q89928    ), POL_HV2G1   (P18042    ), POL_HV2KR   (Q74120    ), 
POL_HV2NZ   (P05962    ), POL_HV2RO   (P04584    ), POL_HV2SB   (P12451    ), 
POL_HV2ST   (P20876    ), POL_HV2UC   (Q76634    ), POL_IPHA    (P04026    ), 
POL_IPMA    (P11368    ), POL_IPMAI   (P12894    ), POL_JEMBR   (Q82851    ), 
POL_JSRV    (P31623    ), POL_MMTVB   (P03365    ), POL_MMTVC   (P11283    ), 
POL_MPMV    (P07572    ), POL_OMVVS   (P16901    ), POL_RSVP    (P03354    ), 
POL_RSVSA   (Q04095    ), POL_RSVSB   (O92956    ), POL_SIVCZ   (P17283    ), 
POL_SIVEK   (Q1A249    ), POL_SIVG1   (Q02836    ), POL_SIVGB   (P22382    ), 
POL_SIVM1   (P05896    ), POL_SIVMB   (Q1A267    ), POL_SIVMK   (P05897    ), 
POL_SIVS4   (P12502    ), POL_SIVSP   (P19505    ), POL_SIVTN   (Q8AII1    ), 
POL_SIVV1   (P27973    ), POL_SIVVG   (P27980    ), POL_SIVVT   (P05895    ), 
POL_SMRVH   (P03364    ), POL_SRV1    (P04025    ), POL_SRV2    (P51517    ), 
POL_VILV    (P03370    ), POL_VILV1   (P23426    ), POL_VILV2   (P23427    ), 
POL_VILVK   (P35956    )
» more

UniProtKB/Swiss-Prot
False negative sequences
1 sequence

POL1_CHICK  (P10399    )

		
PDB
[Detailed view]
12 PDB

1C0M; 1C1A; 1C6V; 1EX4; 1IHV; 1IHW; 1QMC; 3JCA; 4FW1; 4FW2; 5D7U; 5EJK

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