Entry: PS51008

Forthcoming changes to the profile format
General information about the entry

Entry name [info] MULTIHEME_CYTC
Accession [info] PS51008
Entry type [info] MATRIX
Date [info] AUG-2004 (CREATED); AUG-2004 (DATA UPDATE); SEP-2014 (INFO UPDATE).
PROSITE Doc. [info] PDOC00169

Name and characterization of the entry

Description [info] Multiheme cytochrome c family profile.
Matrix / Profile [info]
/GENERAL_SPEC: ALPHABET='ABCDEFGHIKLMNPQRSTVWYZ'; LENGTH=15; TOPOLOGY=CIRCULAR;
/DISJOINT: DEFINITION=PROTECT; N1=1; N2=15;
/NORMALIZATION: MODE=1; FUNCTION=LINEAR; R1=1.8475713; R2=0.0151062; TEXT='NScore';
/CUT_OFF: LEVEL=0; SCORE=375; N_SCORE=7.5; MODE=1; TEXT='R';
/CUT_OFF: LEVEL=-1; SCORE=275; N_SCORE=6.0; MODE=1; TEXT='RR';
/DEFAULT: M0=-9; D=-20; I=-20; B0=-200; B1=-200; E0=-200; E1=-200; 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; E0=0; E1=0; BI=-105; BD=-105; IE=-105; DE=-105;
/M: SY='N'; M=  -3,  -2, -70,  -4,  -1, -19, -18, -10, -15,  -2, -14,  -9,   1, -11,  -2,  -4,  -1,  -4, -12, -24, -13,  -2;
/I:         I0=0; I=-1;
/M: SY='N'; M=  -8,   0, -70,  -1,  -2, -16, -12, -80, -16,  -1, -15, -10,   0,  -7,  -2,  -1,  -1,   0, -14, -23, -10,  -3;
/M: SY='E'; M=  -4,   2, -90,   3,   5, -24,  -5, -30, -20,  -3, -20, -13,   2,  -3,   2,  -4,   2,  -5, -18, -28, -17,   2;
/M: SY='A'; M=   1,  -8, -70,  -8,  -1, -19, -17, -30,  -8,   1,  -9,  -5,  -5, -10,  -3,  -3,  -4,  -4,  -3, -25, -13,  -3;
/M: SY='S'; M=  -2,   1, -70,  -2,  -4,  -5,  -3, -30, -17,  -8, -16, -12,   3, -15,  -6,   0,   6,   6, -12, -24, -12,  -5;
/M: SY='C'; M=   *,   *, 120,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *;
/M: SY='A'; M=   6, -14, -80, -19, -14, -10, -14, -55,   1, -11,  -3,  -1, -11, -48, -10,  -9,  -1,   1,   5, -19,  -7, -13;
/M: SY='S'; M=   2,   8, -80,   7,   1, -21,   0, -58, -20,  -6, -20, -15,   7, -42,  -1,  -9,  11,   7, -15, -29, -14,   0;
/M: SY='C'; M=   *,   *, 120,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *;
/M: SY='H'; M=   *,   *,   *,   *,   *,   *,   *, 120,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *,   *;
/M: SY='N'; M=  -1,  -1, -70,  -4,  -4, -18, -25, -10, -13,  -3, -14,  -7,   3, -16, -10,  -4,   3,   0,  -4, -28, -14,  -3;
/M: SY='E'; M=  -5,  -1, -70,   0,   2, -19,  -9, -30, -16,  -4, -16, -10,  -2,  -1,  -2,  -7,  -2,  -6, -15, -25, -14,  -1;
/M: SY='E'; M=  -6,  -2, -70,  -2,   3, -19, -25, -30, -15,  -1, -15,  -9,  -2,  -5,   2,  -4,  -3,  -5, -15, -23,  -8,   1;
/M: SY='P'; M=  -3,   1, -70,   2,   1, -17,  -8, -30, -20,  -5, -20, -15,   0,   3,  -6,  -9,   2,  -2, -16, -26, -15,  -3;
/I:         I0=0; I=-1;
/M: SY='E'; M=  -1,   0,-110,   1,   6, -20, -10, -30, -19,  -1, -18, -11,  -1,  -4,   4,  -5,   0,  -5, -17, -24, -12,   4;
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Numerical results [info]

Numerical results for UniProtKB/Swiss-Prot release 2014_10 which contains 546'790 sequence entries.


Total number of hits 145 in 139 different sequences
Number of true positive hits 145 in 139 different sequences
Number of 'unknown' hits
Number of false positive hits
Number of false negative sequences 5
Number of 'partial' sequences 3
Precision (true positives / (true positives + false positives)) 100.00 %
Recall (true positives / (true positives + false negatives)) 96.67 %

Comments [info]

Matrix type [info] protein_domain
Scaling database [info] window20
Author [info] N_Hulo
Taxonomic range [info] Archaea, Prokaryotes (Bacteria)
Maximum number of repetitions [info] 3
Version [info] 2

Cross-references [info]

UniProtKB/Swiss-Prot
True positive sequences
139 sequences

C554_CHLAA  (P33325), C554_NITEU  (Q57142), CYC32_DESNO (P38554), 
CYC32_DESVH (Q727P6), CYC3A_DESAF (P94690), CYC3B_DESAF (P94691), 
CYC3_DESDE  (P00134), CYC3_DESGI  (P00133), CYC3_DESSA  (P00135), 
CYC3_DESVH  (P00131), CYC3_SHEFN  (O33731), CYC9_DESDA  (Q9RN68), 
CYCB_GEOSK  (D7ALQ0), CYCB_GEOSL  (Q749K5), CYCC_GEOSK  (D7ALP6), 
CYCC_GEOSL  (Q749L1), CYCR_ALLVD  (O82947), CYCR_BLAVI  (P07173), 
CYCR_ROSDO  (P26278), CYCR_RUBGI  (P51758), CYCX_NITEU  (Q50926), 
FRD2_SHEFN  (Q9Z4P0), FRDA_SHEFN  (Q07WU7), FRDA_SHEFR  (P0C278), 
FRDA_SHEON  (P83223), HAO_NITEU   (Q50925), HMEE_ARCFU  (O29747), 
HMWC_DESVH  (P24092), MAUG_METME  (Q50233), NAPB_AZOBR  (Q8VU46), 
NAPB_BRAJP  (Q8KY07), NAPB_CUPNH  (P39186), NAPB_ECOLI  (P0ABL3), 
NAPB_HAEIN  (P44654), NAPB_PARPN  (Q56351), NAPB_RHIGA  (Q9Z3W3), 
NAPB_RHOS4  (Q53177), NAPB_RHOSH  (O88160), NAPB_SHIFL  (P0ABL4), 
NAPB_WOLSU  (Q7M963), NAPC_ECO57  (P0ABL7), NAPC_ECOL6  (P0ABL6), 
NAPC_ECOLI  (P0ABL5), NAPC_HAEIN  (P44655), NAPC_PARPN  (Q56352), 
NAPC_RHOS4  (Q53178), NIRT_PSEST  (P24038), NRFA_ALISL  (B6EH98), 
NRFA_ARCB4  (A8ERP8), NRFA_BACFN  (Q5LI95), NRFA_BACFR  (Q64ZA7), 
NRFA_BACTN  (Q8A7V7), NRFA_CITK8  (A8AN26), NRFA_DESAD  (C6BYZ2), 
NRFA_DESPS  (Q6ARF1), NRFA_ECO24  (A7ZUU5), NRFA_ECO27  (B7UPN8), 
NRFA_ECO45  (B7MJT8), NRFA_ECO55  (B7LB19), NRFA_ECO57  (P0ABL0), 
NRFA_ECO5E  (B5Z1D1), NRFA_ECO7I  (B7NSN2), NRFA_ECO81  (B7N2T7), 
NRFA_ECO8A  (B7M7Y3), NRFA_ECOBW  (C5A163), NRFA_ECODH  (B1XCV6), 
NRFA_ECOHS  (A8A7H1), NRFA_ECOK1  (A1AIR1), NRFA_ECOL5  (Q0T9X8), 
NRFA_ECOL6  (Q8CVI1), NRFA_ECOLC  (B1IUI1), NRFA_ECOLI  (P0ABK9), 
NRFA_ECOLU  (B7NG13), NRFA_ECOSE  (B6I5T8), NRFA_ECOSM  (B1LPN5), 
NRFA_ECOUT  (Q1R3J6), NRFA_EDWI9  (C5BES4), NRFA_HAEDU  (Q7VNX8), 
NRFA_HAEI8  (Q4QLL8), NRFA_HAEIN  (P45017), NRFA_MANSM  (Q65RI4), 
NRFA_PARD8  (A6L890), NRFA_PASHA  (Q06PW6), NRFA_PASMU  (Q9CPL4), 
NRFA_PECAS  (Q6D613), NRFA_PECCP  (C6DK80), NRFA_PHOPR  (Q6LSQ7), 
NRFA_PORGI  (Q7MTW1), NRFA_SALA4  (B5F2F2), NRFA_SALAR  (A9MGK5), 
NRFA_SALCH  (Q57GV0), NRFA_SALDC  (B5FRF3), NRFA_SALEP  (B5QZA1), 
NRFA_SALG2  (B5R941), NRFA_SALHS  (B4TEB5), NRFA_SALNS  (B4T1X2), 
NRFA_SALPA  (Q5PJ02), NRFA_SALPB  (A9N1R7), NRFA_SALPC  (C0Q554), 
NRFA_SALPK  (B5BJZ8), NRFA_SALSV  (B4TRK5), NRFA_SALTI  (Q8Z1Q9), 
NRFA_SALTY  (Q8ZKF5), NRFA_SHEAM  (A1S3A0), NRFA_SHEFN  (Q087T3), 
NRFA_SHEON  (Q8EAC7), NRFA_SHEPC  (A4Y382), NRFA_SHESA  (A0KSX7), 
NRFA_SHESH  (A8FRR9), NRFA_SHESM  (Q0HMH8), NRFA_SHESR  (Q0HRB0), 
NRFA_SHESW  (A1RNQ3), NRFA_SHEWM  (B1KFU9), NRFA_SHIB3  (B2TXA4), 
NRFA_SHIBS  (Q31TS5), NRFA_SHIFL  (Q83P93), NRFA_SHISS  (Q3YUR5), 
NRFA_SULDE  (Q9Z4P4), NRFA_VIBF1  (Q5E4J7), NRFA_VIBFM  (B5FEY0), 
NRFA_VIBPA  (Q87ND9), NRFA_VIBVU  (Q8D8E5), NRFA_VIBVY  (Q7MM23), 
NRFA_WOLSU  (Q9S1E5), NRFB_ECOL6  (P0ABL2), NRFB_ECOLI  (P0ABL1), 
NRFB_HAEIN  (P45016), NRFH_WOLSU  (Q9S1E6), PCRC_DECAR  (Q47CW8), 
SOXA_PARPN  (O33434), TORC_ECO57  (P58359), TORC_ECOLI  (P33226), 
TORY_ECO57  (P58361), TORY_ECOLI  (P52005), TORY_HAEIN  (P44799), 
Y1237_ARCFU (O29031), YEBS_ECO57  (P0AD04), YEBS_ECOLI  (P0AD03), 
YFCC_ALLVD  (Q06536)
» More

UniProtKB/Swiss-Prot
False negative sequences
5 sequences

CYC31_DESNO (P00136), CYC3_DESAC  (P00137), CYC3_DESVM  (P00132), 
CYCX_DESDA  (P81040), NAPB_SHEON  (Q8EIJ4)
» More

UniProtKB/Swiss-Prot
'Partial' sequences
3 sequences

CYC31_DESVU (P81149), CYC32_DESVU (P81151), CYC35_DESAC (P81079)

		
PDB
[Detailed view]
90 PDB

19HC; 1A2I; 1AQE; 1BVB; 1CZJ; 1D4C; 1D4D; 1D4E; 1DXR; 1E39; 1FGJ; 1FS7; 1FS8; 1FS9; 1FT5; 1FT6; 1GU6; 1GWS; 1GX7; 1H29; 1JRX; 1JRY; 1JRZ; 1KSS; 1KSU; 1LJ1; 1M64; 1MDV; 1OFW; 1OFY; 1OGY; 1P2E; 1P2H; 1PRC; 1Q9I; 1QDB; 1QJD; 1QN0; 1QN1; 1QO8; 1R2C; 1VRN; 1WAD; 1Y0P; 2B7R; 2B7S; 2BPN; 2BQ4; 2C1D; 2CTH; 2CVC; 2CYM; 2E80; 2E81; 2I5N; 2JBL; 2K3V; 2OZY; 2P0B; 2PRC; 2RDZ; 2RF7; 2WJM; 2WJN; 2X5U; 2X5V; 3BNF; 3BNG; 3BNH; 3BNJ; 3CAO; 3CAR; 3D38; 3G7F; 3L1T; 3ML1; 3O5A; 3PRC; 3T6D; 3T6E; 3TOR; 3UBR; 4AC5; 4CAS; 4FAS; 4N4N; 4N4O; 5PRC; 6PRC; 7PRC
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