Entry: PS51052

General information about the entry

Entry name [info] CYCLOTIDE
Accession [info] PS51052
Entry type [info] MATRIX
Date [info] DEC-2004 (CREATED); OCT-2013 (DATA UPDATE); JUN-2015 (INFO UPDATE).
PROSITE Doc. [info] PDOC51052
Associated ProRule [info] PRU00395

Name and characterization of the entry

Description [info] Cyclotides profile.
Matrix / Profile [info]
/GENERAL_SPEC: ALPHABET='ABCDEFGHIKLMNPQRSTVWYZ'; LENGTH=29;
/DISJOINT: DEFINITION=PROTECT; N1=3; N2=27;
/NORMALIZATION: MODE=1; FUNCTION=LINEAR; R1=2.1032069; R2=0.0062083; TEXT='NScore';
/NORMALIZATION: MODE=-1; FUNCTION=LINEAR; R1=30.83715; R2=12.41349; TEXT='HScore';
/CUT_OFF: LEVEL=0; SCORE=1031; N_SCORE=8.5; H_SCORE=6821; MODE=1; TEXT='!';
/CUT_OFF: LEVEL=-1; SCORE=709; N_SCORE=6.5; H_SCORE=6821; MODE=1; TEXT='?';
/DEFAULT: M0=-11; 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='G'; M=  0,-10,-30,-10,-20,-30, 70,-20,-40,-20,-30,-20,  0,-20,-20,-20,  0,-20,-30,-20,-30,-20;
/M: SY='L'; M= -5,-16,-15,-21,-15,  1,-25,-20,  6,-21, 22,  6,-16,-21,-15,-15, -7, 18,  5,-25, -5,-15;
/M: SY='P'; M=-10,-20,-40,-10,  0,-30,-20,-20,-20,-10,-30,-20,-20, 90,-10,-20,-10,-10,-30,-30,-30,-10;
/I:         I=-6; MD=-32;
/M: SY='V'; M=  0,-16, -5,-16,-16,  0,-16,-16, 16,-11,  5,  5,-16,-16,-16,-11, -5,  0, 27,-16, -5,-16; D=-6;
/I:         I=-6; MI=-32; IM=-32; DM=-32;
/M: SY='C'; M=-10,-20,120,-30,-30,-20,-30,-30,-30,-30,-20,-20,-20,-40,-30,-30,-10,-10,-10,-50,-30,-30;
/M: SY='G'; M=  0,-10,-30,-10,-20,-30, 70,-20,-40,-20,-30,-20,  0,-20,-20,-20,  0,-20,-30,-20,-30,-20;
/M: SY='E'; M=-10, 10,-30, 20, 60,-30,-20,  0,-30, 10,-20,-20,  0,  0, 20,  0,  0,-10,-30,-30,-20, 40;
/M: SY='T'; M=  5,  0,-10, -5, -5,-15,-11,-15,-15,-10,-19,-15,  5,-10, -5,-10, 29, 36, -5,-35,-15, -5;
/M: SY='C'; M=-10,-20,120,-30,-30,-20,-30,-30,-30,-30,-20,-20,-20,-40,-30,-30,-10,-10,-10,-50,-30,-30;
/M: SY='V'; M=  0,-30,-10,-30,-30,  0,-30,-30, 30,-20, 10, 10,-30,-30,-30,-20,-10,  0, 50,-30,-10,-30;
/M: SY='W'; M= -9,-24,-39,-24,-25,-12, 29,-25,-31,-20,-25,-20,-18,-25,-20,-20,-18,-25,-30, 58, -2,-20;
/M: SY='G'; M= -5,-19,-30,-24,-25,-16, 19,-25,  1,-25, -7, -2, -9,-20,-20,-25, -9,-15, -2,-20,-16,-25;
/M: SY='P'; M= -5, -9,-24,-10, -5,-19,-20,-20,-15,-10,-19,-15, -9, 36,-10,-15,  6, 22,-14,-30,-19,-10;
/M: SY='C'; M=-10,-20,120,-30,-30,-20,-30,-30,-30,-30,-20,-20,-20,-40,-30,-30,-10,-10,-10,-50,-30,-30;
/M: SY='N'; M=-10,  8,-25, -8,-14,-11,-18, -8, 12,-14, -7, -2, 23,-20, -9,-14, -4, -5, -2,-31,-11,-14;
/M: SY='T'; M=  5,  0,-10, -5, -5,-15,-11,-15,-15,-10,-19,-15,  5,-10, -5,-10, 29, 36, -5,-35,-15, -5;
/M: SY='P'; M= -1,-11,-26, -5,  0,-25,-11,-15,-20,-10,-30,-20, -6, 44, -5,-15, 13,  4,-21,-35,-25, -5;
/I:         I=-6; MI=0; MD=-29; IM=0; DM=-29;
/M: SY='G'; M=  0,-10,-30,-10,-20,-30, 70,-20,-40,-20,-30,-20,  0,-20,-20,-20,  0,-20,-30,-20,-30,-20;
/M: SY='C'; M=-10,-20,120,-30,-30,-20,-30,-30,-30,-30,-20,-20,-20,-40,-30,-30,-10,-10,-10,-50,-30,-30;
/M: SY='T'; M=  5,  0,-10, -5, -5,-15,-11,-15,-15,-10,-19,-15,  5,-10, -5,-10, 29, 36, -5,-35,-15, -5;
/M: SY='C'; M=-10,-20,120,-30,-30,-20,-30,-30,-30,-30,-20,-20,-20,-40,-30,-30,-10,-10,-10,-50,-30,-30;
/M: SY='K'; M=  1,  0,-19,  0,  5,-25, -9,-10,-25, 18,-30,-15,  5,-10,  5,  8, 17,  6,-15,-31,-15,  5;
/M: SY='W'; M=-15, -3,-36,-12,-16, -4,-11,-12,-20,-11,-25,-20,  6,-25,-11,-11,-17,-16,-30, 63,  7,-11;
/M: SY='P'; M=-10,-11,-35, -5,  5,-30,-20,-15,-25, 18,-30,-15,-11, 44, -1,  3,-10,-10,-25,-25,-21, -1;
/M: SY='V'; M=  0,-30,-10,-30,-30,  0,-30,-30, 30,-20, 10, 10,-30,-30,-30,-20,-10,  0, 50,-30,-10,-30;
/M: SY='C'; M=-10,-20,120,-30,-30,-20,-30,-30,-30,-30,-20,-20,-20,-40,-30,-30,-10,-10,-10,-50,-30,-30;
/M: SY='Y'; M= -9, -9,-19,-15,-15,  8,-25, -2, -5,-10, -5, -5, -9,-19,-10,-10,  2, 22, -5, -2, 31,-15;
/M: SY='R'; M=-15, -5,-30, -5,  5,-25,-20, -5,-30, 39,-25,-10,  0,-15, 10, 52,-10,-10,-20,-20,-10,  5;
/M: SY='N'; M=-10, 40,-20, 20,  0,-20,  0, 10,-20,  0,-30,-20, 60,-20,  0,  0, 10,  0,-30,-40,-20,  0;
/I:         E1=0; IE=-105; DE=-105;
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Numerical results [info]

Numerical results for UniProtKB/Swiss-Prot release 2015_08 which contains 320'201 sequence entries.


Total number of hits 113 in 108 different sequences
Number of true positive hits 113 in 108 different sequences
Number of 'unknown' hits 0
Number of false positive hits 0
Number of false negative sequences 10
Number of 'partial' sequences 0
Precision (true positives / (true positives + false positives)) 100.00 %
Recall (true positives / (true positives + false negatives)) 91.87 %

Comments [info]

Matrix type [info] protein_domain
Scaling database [info] reversed
Author [info] CJA_Sigrist
Taxonomic range [info] Eukaryotes
Maximum number of repetitions [info] 3
Version [info] 2

Cross-references [info]

UniProtKB/Swiss-Prot
True positive sequences
108 sequences

CIRA_CHAPA  (P56871), CIRB_CHAPA  (P56879), CIRC_CHAPA  (P84641), 
CIRD_CHAPA  (P84642), CIRE_CHAPA  (P84643), CIRF_CHAPA  (P84644), 
CYCA_CLITE  (P86841), CYCA_PETHY  (B3EWH5), CYCB_CLITE  (P86842), 
CYCC_CLITE  (P86843), CYCD_CLITE  (P86844), CYCE_CLITE  (P86845), 
CYCF_CLITE  (P86846), CYCG_CLITE  (P86847), CYCH_CLITE  (P86848), 
CYCI_CLITE  (P86849), CYCJ_CLITE  (P86850), CYCK_CLITE  (P86851), 
CYCL_CLITE  (P86852), CYCM_CLITE  (P86899), CYCN_CLITE  (P86900), 
CYCO_CLITE  (P86901), CYCP_CLITE  (P86902), CYCQ_CLITE  (P86904), 
CYCR_CLITE  (P86903), CYH1_VIOHE  (P58433), CYH2_VIOHE  (P85233), 
CYH3_VIOHE  (P85232), CYH4_VIOHE  (P85234), CYLA_PSYLO  (P56872), 
CYO10_VIOOD (P58442), CYO11_VIOOD (P58443), CYO12_VIOAR (P83835), 
CYO12_VIOOD (P83836), CYO13_VIOOD (Q5USN8), CYO14_VIOOD (P85177), 
CYO15_VIOOD (P85178), CYO16_VIOOD (P85179), CYO17_VIOOD (P85180), 
CYO18_VIOOD (P85181), CYO19_VIOOD (P85182), CYO1_VIOOD  (P82230), 
CYO20_VIOOD (P85183), CYO21_VIOOD (P85184), CYO22_VIOOD (P85185), 
CYO23_VIOOD (P85186), CYO24_VIOOD (P85187), CYO2_VIOBI  (P85526), 
CYO2_VIOOD  (P58434), CYO3_VIOOD  (P58435), CYO4_VIOOD  (P58436), 
CYO5_VIOOD  (P58437), CYO6_VIOOD  (P58438), CYO7_VIOOD  (P58439), 
CYO8_VIOOD  (P58440), CYO9_VIOBI  (B1NRR2), CYO9_VIOOD  (P58441), 
CYVA_LEOCM  (P84637), CYVA_VIOBI  (P85239), CYVA_VIOCT  (P84635), 
CYVB_LEOCM  (P84638), CYVB_VIOBI  (P85240), CYVB_VIOCT  (P84636), 
CYVC_LEOCM  (P84639), CYVC_VIOBI  (P85241), CYVD_LEOCM  (P84640), 
CYVD_VIOBI  (P85242), CYVE_VIOBI  (B1NRQ8), CYVF_VIOBI  (P85244), 
CYVG_VIOBI  (P85245), CYVH_VIOBI  (P85246), CYVI_VIOBI  (B1NRQ9), 
CYVJ_VIOBI  (B1NRR0), CYVK_VIOBI  (B1NRR1), HYFLA_HYBFL (P84647), 
HYFLB_HYBFL (P84648), HYFLC_HYBFL (P84649), HYPAA_HYBPA (P58445), 
KAB10_OLDAF (P85128), KAB11_OLDAF (P85129), KAB13_OLDAF (P85131), 
KAB14_OLDAF (P85132), KAB15_OLDAF (P85133), KAB16_OLDAF (P85134), 
KAB17_OLDAF (P85135), KAB1_OLDAF  (P56254), KAB2_OLDAF  (P58454), 
KAB3_OLDAF  (P58455), KAB4_OLDAF  (P83938), KAB5_OLDAF  (P58456), 
KAB7_OLDAF  (P58457), KABS_OLDAF  (P58458), PABR1_PALRI (B3EWF1), 
VARA_VIOAR  (P58446), VARA_VIOBI  (P85525), VARA_VIOOD  (Q5USN7), 
VARB_VIOAR  (P58447), VARC_VIOAR  (P58448), VARD_VIOAR  (P58449), 
VARF_VIOAR  (P58451), VARG_VIOAR  (P58452), VARH_VIOAR  (P58453), 
VHL2_VIOHE  (P85231), VHR1_VIOHE  (P83937), VITA_VIOAR  (P83840), 
VITA_VIOBI  (B1NRR3), VODM_VIOOD  (P83839), VODN_VIOOD  (P83838)
» More

UniProtKB/Swiss-Prot
False negative sequences
10 sequences

CYCK_PETHY  (B3EWH6), CYCM_PETHY  (B3EWH7), CYO25_VIOOD (P85188), 
KAB12_OLDAF (P85130), KAB8_OLDAF  (P85175), KAB9_OLDAF  (P85127), 
PALIC_PALCO (P84645), TRIC_VIOAR  (P0C589), VHL1_VIOHE  (P84522), 
VIOLA_VIOOD (Q2HY54)
» More

PDB
[Detailed view]
31 PDB

1BH4; 1JJZ; 1K48; 1KAL; 1N1U; 1NB1; 1NBJ; 1ORX; 1PT4; 1VB8; 1ZNU; 2ERI; 2F2I; 2F2J; 2GJ0; 2JWM; 2K7G; 2KCG; 2KCH; 2KHB; 2KNM; 2KNN; 2KUK; 2KUX; 2LAM; 2M9O; 2MH1; 3E4H; 4TTM; 4TTN; 4TTO
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