Entry: PS50035

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); JUN-2016 (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=-1.4560000; R2=0.0316000; TEXT='NScore';
/NORMALIZATION: MODE=-1; FUNCTION=LINEAR; R1=975.8386230; R2=0.5719298; TEXT='Heuristic 5.0%';
/CUT_OFF: LEVEL=0; SCORE=316; H_SCORE=1157; N_SCORE=8.5; MODE=1; TEXT='!';
/CUT_OFF: LEVEL=-1; SCORE=252; H_SCORE=1120; N_SCORE=6.5; 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;
» more

Numerical results [info]

Numerical results for UniProtKB/Swiss-Prot release 2016_08 which contains 551'987 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 0
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] 4

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_CANLF  (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    ), PLDA3_ARATH (P58766    ), PLDA4_ARATH (Q9C888    ), 
PLDA_DICDI  (Q54UK0    ), PLDB1_ARATH (P93733    ), PLDB2_ARATH (O23078    ), 
PLDB_DICDI  (Q54WR4    ), PLDC_DICDI  (Q54Z25    ), PLDD1_ARATH (Q9C5Y0    ), 
PLDG1_ARATH (Q9T053    ), PLDG2_ARATH (Q9T051    ), PLDG3_ARATH (Q9T052    ), 
PLDL_CAEEL  (O17405    ), PLDY_DICDI  (Q54K50    ), PLDZ1_ARATH (Q9LRZ5    ), 
PLDZ2_ARATH (Q9M9W8    ), 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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