Entry: PS50035

Forthcoming changes to the profile format
General information about the entry

Entry name [info] PLD
Accession [info] PS50035
Entry type [info] MATRIX
Date [info] APR-2002 (CREATED); OCT-2013 (DATA UPDATE); JUL-2014 (INFO UPDATE).
PROSITE Doc. [info] PDOC50035
Associated ProRule [info] PRU00153

Name and characterization of the entry

Description [info] Phospholipase D phosphodiesterase active site profile.
Matrix / Profile [info]
/GENERAL_SPEC: ALPHABET='ABCDEFGHIKLMNPQRSTVWYZ'; LENGTH=28;
/DISJOINT: DEFINITION=PROTECT; N1=3; N2=26;
/NORMALIZATION: MODE=1; FUNCTION=LINEAR; R1=-1.456; R2=0.0316; TEXT='NScore';
/NORMALIZATION: MODE=-1; FUNCTION=LINEAR; R1=488.16043; R2=11.44385; TEXT='HScore';
/CUT_OFF: LEVEL=0; SCORE=315; N_SCORE=8.5; H_SCORE=3727; MODE=1; TEXT='!';
/CUT_OFF: LEVEL=-1; SCORE=251; N_SCORE=6.5; H_SCORE=3372; MODE=1; TEXT='?';
/DEFAULT: D=-20; I=-20; B1=-50; E1=-50; MM=1; MI=-105; MD=-105; IM=-105; DM=-105; M0=-10;
...
                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='Y'; M= -8, -8,-23, -8,-10, -4, -9, -9,-10, -9, -8, -6, -7,-17,-10, -9, -5, -3, -8,-16,  2,-11;
/M:         M= -8,  0,-24, -1, -5, -9, -9, -7,-14, -6, -9, -6,  0,-16, -6, -4, -5, -5,-13,-22, -7, -6;
/M:         M= -8,-10,-28,-11,-12, -9, -2,-10,-16, -6,-13, -9, -6,-16,-10, -2, -9,-11,-14, -6, -2,-12;
/M: SY='V'; M= -3,-19,-21,-22,-15, -3,-22,-17,  3, -7,  1,  1,-15,-20,-12, -3, -9, -2,  6,-14, -2,-15;
/M: SY='H'; M=-12, -1,-23, -8, -7, -7,-19,  9, -1,-11,  1,  6,  5,-22, -2, -8,-10, -8, -8,-24,  1, -6;
/M: SY='H'; M=-19,  5,-29,  3,  0,-20,-17, 89,-29, -9,-21, -3, 16,-20,  9,  0, -7,-17,-30,-31, 15,  0;
/M: SY='S'; M=  0,  2,-19, -1,  1,-18,-12, -3,-17, -4,-15,-10,  3,-12,  2, -2,  6,  5,-13,-28,-12,  1;
/M: SY='K'; M=-10,  0,-30,  0, 10,-30,-20,-10,-30, 49,-30,-10,  0,-10, 10, 32,-10,-10,-20,-20,-10, 10;
/M: SY='L'; M= -7,-23,-21,-28,-22, 10,-20,-18, 13,-23, 15,  9,-18,-24,-20,-19,-14, -4,  9,-15,  4,-22;
/M: SY='M'; M= -7,-26,-20,-31,-24, 15,-27,-15, 17,-21, 18, 19,-24,-26,-19,-18,-19, -8, 14, -8,  9,-21;
/M: SY='I'; M= -4,-28,-21,-32,-27, -1,-29,-27, 30,-24, 15, 13,-23,-24,-22,-23,-15, -5, 29,-19, -5,-26;
/M: SY='V'; M= -4,-25,-17,-29,-24,  7,-29,-25, 23,-22,  9,  8,-20,-23,-23,-21, -8,  1, 27,-22, -3,-25;
/M: SY='D'; M=-18, 45,-29, 64, 23,-39,-11,  0,-39,  1,-29,-29, 18, -9,  2, -9,  1, -9,-29,-39,-20, 13;
/M: SY='D'; M=-10, 23,-27, 28,  8,-31,  3, -1,-31, -1,-27,-21, 17,-14,  2, -4,  3, -8,-27,-33,-19,  4;
/M: SY='E'; M= -3,  0,-23,  1, 11,-20,-16, -6,-20,  8,-17,-11, -1,-11,  3,  5,  0, -1,-14,-25,-12,  6;
/I:         I=-6; MI=0; MD=-21; IM=0; DM=-21;
/M: SY='Y'; M= -7,-14,-19,-18,-13,  4,-22, -4,  5,-13,  3,  2,-12,-19, -9,-11, -8,  0,  3, -7, 11,-13; D=-4;
/I:         DM=-21;
/M: SY='A'; M= 15,-16,-12,-21,-17, -8,-12,-21,  3,-16, -2, -2,-13,-18,-16,-18,  4,  4, 12,-25,-12,-17;
/M: SY='Y'; M=-15,-21,-23,-25,-19, 21,-29,  6,  4,-20,  7,  4,-16,-26,-16,-15,-17,-10, -2, -2, 27,-19;
/M: SY='I'; M= -6,-27,-20,-31,-26,  2,-32,-25, 31,-24, 18, 13,-23,-25,-22,-22,-15, -3, 29,-22, -1,-26;
/M: SY='G'; M=  2, -8,-24,-10,-16,-25, 46,-18,-31,-17,-26,-16,  0,-17,-15,-17,  7, -6,-22,-24,-25,-16;
/M: SY='S'; M=  5, -3,-17, -6, -9,-21, 17,-15,-24,-12,-26,-17,  5,-12, -9,-12, 20, 10,-14,-31,-21, -9;
/M: SY='A'; M= 16,-12,-12,-19,-13, -7,-11,-13, -5,-13, -5, -4, -8,-17,-12,-15,  2, -1,  0,-22,-10,-13;
/M: SY='N'; M=-11, 40,-22, 29,  4,-24, -2,  7,-24,  0,-30,-22, 50,-18,  0, -2,  9, -1,-29,-40,-20,  2;
/M: SY='L'; M=-12,-30,-26,-34,-25, 17,-27,-19, 14,-25, 21, 13,-26,-27,-21,-20,-26,-13,  5, 12, 12,-22;
/M: SY='B'; M= -6, 14, -9, 14, -2,-20, -6, -8,-22, -9,-20,-16, 10,-17, -7,-12,  4, -1,-17,-31,-15, -5;
/M: SY='D'; M=-10, -1,-29,  2, -1,-16, -3, -9,-23, -5,-20,-13, -3, -2, -6,-10, -6, -9,-22,-13,-10, -4;
/M: SY='R'; M= -3, -1,-23, -1,  1,-22, -3,-10,-23,  5,-20,-14,  1,-13, -2, 10,  2, -1,-15,-26,-17, -2;
/M: SY='H'; M= -5, -4,-22, -6, -7, -8,-12, 13,-17, -5,-16,-10,  2,-19, -2,  1,  3, -1,-15,-15, 10, -7;
/I:         E1=0;
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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 411 in 227 different sequences
Number of true positive hits 409 in 225 different sequences
Number of 'unknown' hits
Number of false positive hits 2 in 2 different sequences
Number of false negative sequences 10
Number of 'partial' sequences 0
Precision (true positives / (true positives + false positives)) 99.51 %
Recall (true positives / (true positives + false negatives)) 97.61 %

Comments [info]

Matrix type [info] protein_domain
Scaling database [info] reversed
Author [info] K_Hofmann
Taxonomic range [info] Eukaryotes, Prokaryotes (Bacteria), Eukaryotic viruses
Maximum number of repetitions [info] 2
Feature key [info] DOMAIN
Feature description [info] PLD phosphodiesterase
Version [info] 2

Cross-references [info]

UniProtKB/Swiss-Prot
True positive sequences
225 sequences

CLS1_BACAN  (Q81V75), CLS1_BACCR  (Q81I00), CLS1_BACSU  (P45860), 
CLS1_STAAC  (Q5HGA3), CLS1_STAAR  (Q6GH88), CLS1_STAEQ  (Q5HPM5), 
CLS1_STAES  (Q8CPD8), CLS2_BACAN  (Q81TR2), CLS2_BACCR  (Q81GK4), 
CLS2_STAAC  (Q5HEB2), CLS2_STAAR  (Q6GEY7), CLS2_STAEQ  (Q5HMD3), 
CLS2_STAES  (Q8CNK3), CLSA_BACSU  (P71040), CLSA_BUCA5  (B8D966), 
CLSA_BUCAI  (P57361), CLSA_BUCAP  (Q8K9P9), CLSA_BUCAT  (B8D7H0), 
CLSA_BUCBP  (Q89AL5), CLSA_CITK8  (A8AG50), CLSA_CROS8  (A7MNA4), 
CLSA_ECO24  (A7ZL20), CLSA_ECO27  (B7UQD9), CLSA_ECO45  (B7ML01), 
CLSA_ECO55  (B7LHJ4), CLSA_ECO57  (Q8XCC6), CLSA_ECO5E  (B5YYF4), 
CLSA_ECO7I  (B7NVL8), CLSA_ECO81  (B7MU36), CLSA_ECO8A  (B7LY04), 
CLSA_ECOBW  (C4ZTU1), CLSA_ECODH  (B1XAT9), CLSA_ECOHS  (A7ZZI5), 
CLSA_ECOK1  (A1AAH3), CLSA_ECOL5  (Q0TIC2), CLSA_ECOL6  (P0A6H9), 
CLSA_ECOLC  (B1ITK7), CLSA_ECOLI  (P0A6H8), CLSA_ECOLU  (B7N460), 
CLSA_ECOSE  (B6I9W2), CLSA_ECOSM  (B1LH51), CLSA_ECOUT  (Q1RCI7), 
CLSA_EDWI9  (C5BDA3), CLSA_ENT38  (A4WB84), CLSA_ERWT9  (B2VKV4), 
CLSA_ESCF3  (B7LS29), CLSA_KLEP3  (B5XQA9), CLSA_KLEP7  (A6TAJ7), 
CLSA_PECAS  (Q6D4S2), CLSA_PECCP  (C6DGY3), CLSA_PROMH  (B4EWI7), 
CLSA_PSEA8  (B7V5T6), CLSA_PSEAB  (Q02DW8), CLSA_PSEAE  (Q9HTH0), 
CLSA_PSEE4  (Q1I2L0), CLSA_PSEF5  (Q4K3D9), CLSA_PSEFS  (C3K1C4), 
CLSA_PSEP1  (A5WB80), CLSA_PSEPG  (B0KR91), CLSA_PSEPK  (Q88C19), 
CLSA_PSEPU  (P31048), CLSA_PSEPW  (B1JFN5), CLSA_PSESM  (Q87TY7), 
CLSA_PSEU2  (Q4ZL66), CLSA_SALA4  (B5F4L0), CLSA_SALAR  (A9MPD5), 
CLSA_SALCH  (Q57NS0), CLSA_SALDC  (B5FU52), CLSA_SALEP  (B5R3N1), 
CLSA_SALG2  (B5R6L2), CLSA_SALHS  (B4TJM2), CLSA_SALNS  (B4SUC9), 
CLSA_SALPA  (Q5PCS9), CLSA_SALPB  (A9MWP9), CLSA_SALPC  (C0Q393), 
CLSA_SALPK  (B5BIA8), CLSA_SALSV  (B4TX53), CLSA_SALTI  (P63799), 
CLSA_SALTY  (P63798), CLSA_SERP5  (A8GFA0), CLSA_SHIB3  (B2TZZ4), 
CLSA_SHIBS  (Q31ZU1), CLSA_SHIDS  (Q32GV1), CLSA_SHIFL  (Q83RM8), 
CLSA_SHISS  (Q3Z0W3), CLSA_SODGM  (Q2NT72), CLSA_WIGBR  (Q8D2I8), 
CLSA_YERE8  (A1JQ40), CLSA_YERP3  (A7FI50), CLSA_YERPA  (Q1C7R0), 
CLSA_YERPB  (B2K3U5), CLSA_YERPE  (Q8ZEI2), CLSA_YERPG  (A9R8K8), 
CLSA_YERPN  (Q1CJ46), CLSA_YERPP  (A4TJ85), CLSA_YERPS  (Q66AL9), 
CLSA_YERPY  (B1JKT9), CLSB_BACSU  (P45865), CLSB_ECO57  (P0AA85), 
CLSB_ECOL6  (Q8FJN9), CLSB_ECOLI  (P0AA84), CLSB_SALTI  (Q8Z883), 
CLSB_SALTY  (Q8ZQP4), CLSB_SHIFL  (P59715), CLSC_ECOLI  (P75919), 
CLS_BACHD   (Q9K8Z4), CLS_BACPE   (O66043), CLS_CLOP1   (Q0TQG9), 
CLS_CLOPE   (P0C2E2), CLS_CLOPS   (Q0ST20), CLS_GEOKA   (Q5L1S5), 
CLS_GEOSW   (C5D794), CLS_GEOTN   (A4IL76), CLS_LISIN   (Q927Z0), 
CLS_LISMC   (C1KYS0), CLS_LISMF   (Q71WS5), CLS_LISMH   (B8DBK8), 
CLS_LISMO   (Q8Y4E3), CLS_LISW6   (A0ALI7), CLS_OCEIH   (Q8EM16), 
CLS_STAAM   (P63800), CLS_STAAN   (P63801), CLS_STAAS   (Q6G7M2), 
CLS_STAAW   (P63802), F13_FOWPN   (P36316), F13_MCV1    (P26579), 
F13_MCV2    (P25392), F13_VACCA   (O57179), F13_VACCC   (P20638), 
F13_VACCI   (P26653), F13_VACCP   (P29885), F13_VACCW   (P04021), 
F13_VAR67   (P33815), K4_VACCC    (P20537), K4_VACCW    (P18377), 
PGPS1_BOVIN (Q2KJ28), PGPS1_CHICK (Q5ZHN9), PGPS1_CRIGR (Q9Z2Z7), 
PGPS1_DICDI (Q7KWX2), PGPS1_HUMAN (Q32NB8), PGPS1_MOUSE (Q8BHF7), 
PGPS1_PONAB (Q5R8K7), PGPS1_SACPS (P79001), PGPS1_YEAST (P25578), 
PLD1_CRIGR  (O08684), PLD1_HUMAN  (Q13393), PLD1_MOUSE  (Q9Z280), 
PLD1_RAT    (P70496), PLD1_SCHPO  (Q09706), PLD2_BOVIN  (Q0V8L6), 
PLD2_HUMAN  (O14939), PLD2_MOUSE  (P97813), PLD2_RAT    (P70498), 
PLD3_BOVIN  (Q2KJJ8), PLD3_HUMAN  (Q8IV08), PLD3_MACFA  (Q4R583), 
PLD3_MOUSE  (O35405), PLD3_PONAB  (Q5R4Y7), PLD3_RAT    (Q5FVH2), 
PLD3_XENLA  (Q6PB03), PLD3_XENTR  (Q640B3), PLD4_HUMAN  (Q96BZ4), 
PLD4_MOUSE  (Q8BG07), PLD5_MOUSE  (Q3UNN8), PLD6_BOVIN  (E1BE10), 
PLD6_CANFA  (E2RD63), PLD6_CHLRE  (A8IW99), PLD6_HUMAN  (Q8N2A8), 
PLD6_MOUSE  (Q5SWZ9), PLD6_XENLA  (A1L1C2), PLD6_XENTR  (Q28DT3), 
PLDA1_ARATH (Q38882), PLDA1_BRAOC (O82549), PLDA1_CARPA (P86387), 
PLDA1_CYNCA (Q70EW5), PLDA1_MAIZE (Q43270), PLDA1_ORYSJ (Q43007), 
PLDA1_PIMBR (O04883), PLDA1_RICCO (Q41142), PLDA1_TOBAC (P93400), 
PLDA1_VIGUN (O04865), PLDA2_ARATH (Q9SSQ9), PLDA2_BRAOC (P55939), 
PLDA2_ORYSJ (P93844), PLDA_DICDI  (Q54UK0), PLDB1_ARATH (P93733), 
PLDB2_ARATH (O23078), PLDB_DICDI  (Q54WR4), PLDC_DICDI  (Q54Z25), 
PLDD1_ARATH (Q9C5Y0), PLDE1_ARATH (Q9C888), PLDG1_ARATH (Q9T053), 
PLDG2_ARATH (Q9T051), PLDG3_ARATH (Q9T052), PLDL_CAEEL  (O17405), 
PLDP1_ARATH (Q9LRZ5), PLDP2_ARATH (Q9M9W8), PLDY_DICDI  (Q54K50), 
PLDZ1_ARATH (P58766), PLDZ_DICDI  (Q54SA1), PLD_PHYIN   (Q5BMR2), 
PLD_RICBR   (Q1RK58), PLD_RICCN   (Q92G53), PLD_RICFE   (Q4UJZ1), 
PLD_RICPR   (Q9ZCD8), PLD_RICTY   (Q68VT0), PLD_STRAT   (Q53728), 
PPK_ECO57   (P0A7B2), PPK_ECOL6   (Q8FF70), PPK_ECOLI   (P0A7B1), 
PPK_KLEPN   (Q07411), PPK_SALTI   (Q8Z4R0), PPK_SALTY   (O86090), 
PPK_VIBCH   (Q9KU07), PPK_VIBPA   (Q87S51), PPK_VIBVU   (Q8DEW2), 
PPK_VIBVY   (Q7MNJ0), PPK_YERPE   (Q8ZCX2), PSS_ECOLI   (P23830), 
PSS_HAEIN   (P44704), SPO14_YEAST (P36126), Y190_HELPJ  (Q9ZMP2), 
Y190_HELPY  (P56117), Y988_STRMU  (P34001), YJHR_ECOLI  (P39369)
» More

UniProtKB/Swiss-Prot
False negative sequences
10 sequences

PGPS1_SCHPO (Q9HDW1), PLD5_HUMAN  (Q8N7P1), PLD6_DANRE  (A3KNW0), 
PPK_PSEPK   (Q88CG4), PPK_PSESM   (Q87UP6), PPK_STAEQ   (Q5HLE0), 
PPK_STAES   (Q8CR71), PPK_STAHJ   (Q4L8X9), PPK_STAS1   (Q4A040), 
ZUC_DROME   (Q9VKD7)
» More

UniProtKB/Swiss-Prot
False positive sequences
2 sequences

DYHA_CHLRE  (Q39610), TYDP1_CAEEL (Q9TXV7)

		
PDB
[Detailed view]
7 PDB

1XDO; 1XDP; 2ZE4; 2ZE9; 3HSI; 4GGJ; 4GGK

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