Entry: PS50818

Forthcoming changes to the profile format
General information about the entry

Entry name [info] INTEIN_C_TER
Accession [info] PS50818
Entry type [info] MATRIX
Date [info] MAY-2002 (CREATED); OCT-2013 (DATA UPDATE); JUL-2014 (INFO UPDATE).
PROSITE Doc. [info] PDOC00687

Name and characterization of the entry

Description [info] Intein C-terminal splicing motif profile.
Matrix / Profile [info]
/GENERAL_SPEC: ALPHABET='ABCDEFGHIKLMNPQRSTVWYZ'; LENGTH=22;
/DISJOINT: DEFINITION=PROTECT; N1=3; N2=20;
/NORMALIZATION: MODE=1; FUNCTION=LINEAR; R1=0.8533; R2=0.02263959; TEXT='NScore';
/NORMALIZATION: MODE=-1; FUNCTION=LINEAR; R1=436.83784; R2=6.37838; TEXT='HScore';
/CUT_OFF: LEVEL=0; SCORE=290; N_SCORE=7.4; H_SCORE=2025; MODE=1; TEXT='!';
/CUT_OFF: LEVEL=-1; SCORE=249; N_SCORE=6.5; H_SCORE=2025; MODE=1; TEXT='?';
/DEFAULT: M0=-8; D=-20; I=-20; B0=-60; B1=-60; E0=-60; E1=-60; 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:         B0=0; B1=0; BI=-105; BD=-105;
/M: SY='Y'; M=-15,-11,-29, -9, -6,  3,-23, -5,-14, -1,-13,-10,-10, -2, -9,  0,-12, -8,-15, -5, 12, -9;
/M: SY='V'; M=  1,-25,-13,-27,-26, -1,-24,-27, 20,-18,  7,  6,-24,-26,-25,-17, -8,  1, 34,-27, -9,-26;
/M: SY='Y'; M=-19,-17,-28,-18,-17, 29,-28,  9, -2,-11, -1, -1,-16,-27,-11, -9,-18,-10, -9, 17, 55,-17;
/M: SY='D'; M=-13, 27, -1, 33,  5,-29,-12, -6,-30, -8,-25,-23, 15,-17, -6,-12,  4, -3,-22,-41,-21, -1;
/M: SY='L'; M= -6,-25,-20,-27,-22,  3,-30,-24, 23,-25, 26, 13,-24,-25,-21,-21,-18, -4, 20,-23, -3,-23;
/M: SY='T'; M= -1,  1,-18, -1,  4,-16,-10,-10,-14, -7,-16,-13,  3,-12, -3, -9, 11, 12, -9,-28,-11,  0;
/M: SY='V'; M=  3,-18, -3,-21,-22, -8,-21,-25, 10,-18,  1,  0,-17,-24,-22,-19, -4,  4, 23,-30,-13,-22;
/I:         I=-5; MD=-27;
/M: SY='E'; M=-10,  0,-25,  7, 15,-17,-19, -7,-21,  2,-19,-15, -5, 11,  0, -6, -6, -9,-21,-21, -9,  6; D=-5;
/I:         I=-5; MD=-27;
/M: SY='N'; M= -2, 10,-17,  7,  0,-18,  5, -1,-18, -2,-18,-12, 13,-11, -3, -3,  2, -3,-16,-22,-13, -2; D=-5;
/I:         I=-5; MI=-27; MD=-27; IM=-27; DM=-27;
/M: SY='H'; M=-12,  0,-26,  1,  5,-22, -6, 42,-25, -8,-18, -6,  5,-16,  7, -4, -4,-13,-24,-27,  0,  4; D=-5;
/I:         I=-5; DM=-27;
/M: SY='N'; M= -5, 14,-19,  2, -5,-10, -8, -2,-13, -4,-15,-11, 27,-20, -5, -2,  3,  0,-17,-30,-13, -5;
/M: SY='F'; M=-16,-25,-24,-30,-25, 40,-25, -8,  5,-22,  9,  3,-20,-29,-25,-17,-20,-10,  0,  8, 37,-25;
/I:         I=-6; MD=-32;
/M: SY='V'; M= -6,-27,-18,-30,-25,  7,-30,-20, 24,-24, 18, 12,-23,-26,-23,-20,-16, -4, 25,-21, -1,-25; D=-6;
/I:         I=-6; MI=-32; IM=-32; DM=-32;
/M: SY='A'; M= 15,-14,-14,-20,-15, -7,-14,-20,  1,-15, -2, -3,-12,-17,-13,-17,  4,  8,  8,-23,-11,-14;
/I:         I=-5; MD=-25;
/M: SY='N'; M= -1,  8,-22,  1, -3,-17,  1, -4,-18, -4,-20,-14, 15,-15, -5, -3,  1, -6,-17,-22,-12, -5; D=-5;
/I:         I=-5; MD=-25;
/M: SY='G'; M= -5, -1,-21, -5, -7,-13, 14, -8,-19, -9,-17,-12,  6,-16, -7, -8,  2, -5,-17,-19,-11, -7; D=-5;
/I:         I=-5; MI=0; MD=-25; IM=0; DM=-25;
/M: SY='I'; M= -6,-28,-15,-34,-27,  9,-30,-27, 27,-27, 16, 11,-22,-25,-24,-25,-17, -8, 22,-20, -1,-27;
/M: SY='V'; M= -6,-28,-20,-31,-25,  8,-30,-24, 22,-23, 16, 11,-25,-23,-24,-21,-17, -5, 23,-15,  0,-25;
/M: SY='V'; M=  5,-15, -9,-20,-18, -7,-21,-23,  7,-16,  1, -1,-14,-20,-18,-17,  3, 14, 18,-29,-11,-18;
/M: SY='H'; M=-12, -3,-28, -3, -3,-20, -5, 62,-30, -7,-21, -5,  6,-19,  3, -2, -7,-17,-27,-26,  7, -3;
/M: SY='N'; M=-10, 35,-21, 17,  3,-23, -3, 10,-20,  1,-29,-17, 52,-19,  8,  1,  9, -1,-30,-37,-19,  5;
/M: SY='C'; M= -3,-11, 63,-18,-18,-18,-20,-23,-24,-21,-21,-18, -8,-27,-18,-21,  9,  8, -8,-44,-24,-18;
/I:         E0=0; E1=0; IE=-105; DE=-105;
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Numerical results [info]

Numerical results for UniProtKB/Swiss-Prot release 2014_08 which contains 546'238 sequence entries.


Total number of hits 111 in 98 different sequences
Number of true positive hits 111 in 98 different sequences
Number of 'unknown' hits
Number of false positive hits
Number of false negative sequences 8
Number of 'partial' sequences 0
Precision (true positives / (true positives + false positives)) 100.00 %
Recall (true positives / (true positives + false negatives)) 93.28 %

Comments [info]

Matrix type [info] protein_domain
Scaling database [info] reversed
Author [info] CJA_Sigrist
Taxonomic range [info] Archaea, Bacteriophages, Eukaryotes, Prokaryotes (Bacteria), Eukaryotic viruses
Maximum number of repetitions [info] 3
Version [info] 2

Cross-references [info]

UniProtKB/Swiss-Prot
True positive sequences
98 sequences

DNAB_GUITH  (O78411), DNAB_MYCBO  (P59966), DNAB_MYCTO  (P9WMR2), 
DNAB_MYCTU  (P9WMR3), DNAB_NOSS1  (Q8YZA1), DNAB_PORPU  (P51333), 
DNAB_PYRYE  (Q1XDF3), DNAB_RHOMR  (O30477), DNAB_SYNY3  (Q55418), 
DP2L_METHJ  (Q2FSF9), DP2L_METMJ  (A3CXE7), DP2L_PYRAB  (Q9V2F4), 
DP2L_PYRHO  (O57861), DP2L_THEKO  (Q5JET0), DPO3A_SYNY3 (P74750), 
DPOL_BPAPS  (Q9T1Q3), DPOL_CEV01  (A7U6F1), DPOL_METJA  (Q58295), 
DPOL_MIMIV  (Q5UQR0), DPOL_PYRHO  (O59610), DPOL_PYRSD  (Q51334), 
DPOL_THEAG  (O33845), DPOL_THEFM  (P74918), DPOL_THEG8  (Q9HH84), 
DPOL_THEHY  (Q9HH05), DPOL_THEKO  (P77933), DPOL_THELI  (P30317), 
EF2_METKA   (Q8TXJ4), GLMS_METJA  (Q58815), GYRA_MYCFV  (Q49166), 
GYRA_MYCGO  (Q49467), GYRA_MYCKA  (Q49608), GYRA_MYCLE  (Q57532), 
GYRA_MYCMA  (O33149), GYRA_MYCXE  (P72065), GYRB_SYNY3  (P77966), 
HELS_METJA  (Q58524), HELS_THEKO  (Q5JGV6), IF2P_METJA  (Q57710), 
IF2P_PYRAB  (Q9UZK7), IF2P_PYRFU  (Q8U1R8), IF2P_PYRHO  (O58822), 
IF2P_THEKO  (Q5JGR9), LONB_PYRAB  (Q9UYC6), LONB_PYRHO  (O58221), 
NDRZ_PYRFU  (E7FHX6), NRDEB_BACSU (O31875), NRDEB_BPSPB (O64173), 
PPSA_METJA  (Q57962), RADA_PYRHO  (O58001), RADA_THEKO  (Q5JET4), 
RECA_MYCBO  (P0A5U5), RECA_MYCCI  (Q9F417), RECA_MYCFA  (Q9F416), 
RECA_MYCFV  (Q9F415), RECA_MYCGS  (Q9F414), RECA_MYCLE  (P35901), 
RECA_MYCSH  (Q9F410), RECA_MYCTH  (Q9F407), RECA_MYCTO  (P9WHJ2), 
RECA_MYCTU  (P9WHJ3), RFCS_HALWD  (Q18E75), RFCS_METJA  (Q58817), 
RFCS_METKA  (Q8TZC4), RFCS_PYRAB  (Q9V2G4), RFCS_PYRFU  (Q8U4J3), 
RFCS_PYRHO  (O57852), RFCS_THEKO  (Q5JHP2), RGYR_METJA  (Q58907), 
RGYR_PYRHO  (O58530), RGYR_THEKO  (Q6F598), RIR2_AQUAE  (O67475), 
RPC2_DICDI  (Q54IZ9), RPOA1_METJA (Q58445), RPOA2_METJA (Q58446), 
RTCB_METJA  (Q58095), RTCB_METKA  (Q8TUS2), RTCB_PYRAB  (Q9V168), 
RTCB_PYRFU  (Q8U0H4), RTCB_PYRHO  (O59245), TF2B_METJA  (Q58192), 
TOP1_PYRFU  (O73954), VATA_PYRAB  (Q9UXU7), VATA_PYRFU  (Q8U4A6), 
VATA_PYRHO  (O57728), VATA_THEAC  (Q9P997), VATA_THEVO  (Q97CQ0), 
VATA_YEAST  (P17255), VATB_METKA  (Q8TUT0), Y043_METJA  (Q60348), 
Y1054_METJA (Q58454), Y1461_MYCTO (P9WFP6), Y1461_MYCTU (P9WFP7), 
Y1496_MYCBO (P67126), Y450_MYCPN  (Q50362), Y593_MYCLE  (Q49689), 
Y781_METJA  (Q58191), Y832_METJA  (Q58242)
» More

UniProtKB/Swiss-Prot
False negative sequences
8 sequences

CLPP_CHLMO  (P42379), DNAB_MYCIT  (Q9F5P4), DNAB_MYCLE  (P46394), 
DP2L_HALMA  (Q5UZ40), DP2L_HALSA  (Q9HMX8), DP2L_HALWD  (Q18ER3), 
RIR1_IIV6   (O55716), VATA_CANTR  (P38078)
» More

PDB
[Detailed view]
13 PDB

1AM2; 1DQ3; 1MI8; 2CW7; 2CW8; 2IN0; 2IN9; 2L8L; 2LQM; 4E2T; 4E2U; 4O1S; 4OZ6
» More

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