Entry: PS50068

General information about the entry

Entry name [info] LDLRA_2
Accession [info] PS50068
Entry type [info] MATRIX
Date [info] NOV-1997 (CREATED); OCT-2013 (DATA UPDATE); JUN-2016 (INFO UPDATE).
PROSITE Doc. [info] PDOC00929
Associated ProRule [info] PRU00124

Name and characterization of the entry

Description [info] LDL-receptor class A (LDLRA) domain profile.
Matrix / Profile [info]
/GENERAL_SPEC: ALPHABET='ABCDEFGHIKLMNPQRSTVWYZ'; LENGTH=37;
/DISJOINT: DEFINITION=PROTECT; N1=4; N2=35;
/NORMALIZATION: MODE=1; FUNCTION=LINEAR; R1=-1.4750000; R2=0.0125000; TEXT='NScore';
/NORMALIZATION: MODE=-1; FUNCTION=LINEAR; R1=1186.5074463; R2=2.5222552; TEXT='Heuristic 5.0%';
/CUT_OFF: LEVEL=0; SCORE=798; H_SCORE=3199; N_SCORE=8.5; MODE=1; TEXT='!';
/CUT_OFF: LEVEL=-1; SCORE=638; H_SCORE=2796; N_SCORE=6.5; MODE=1; TEXT='?';
/DEFAULT: D=-20; I=-20; B1=-30; E1=-30; MI=-105; MD=-105; IM=-105; DM=-105; MM=1; M0=-1;
...
                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='T'; M= -4, -2,-21, -4,  1,-17,-13, -9,-15, -2,-14, -9, -1, -9,  0, -2,  3,  5,-11,-27,-13,  0;
/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='S'; M= -4, -1,-25,  0,  2,-22, -8, -6,-20, -2,-20,-13,  0,  1,  1, -4,  3, -2,-17,-28,-16,  0;
/I:         II=-7; MI=-7; IM=-7; MD=-15; DM=-15; I=0,0,-15,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0;
/M: SY='P'; M= -1, -5,-21, -3,  3,-22,-10,-12,-18, -4,-19,-13, -5, 11, -2, -8,  1, -3,-16,-27,-18, -1; D=-3;
/I:         DM=-17;
/M: SY='N'; M= -7,  8,-23,  8,  1,-21,  0, -3,-24, -5,-20,-15,  9,-14, -3, -5,  4, -1,-19,-28,-13, -2;
/I:         DM=-17;
/M: SY='E'; M= -9,  0,-27,  3, 19,-22,-15,  3,-22,  4,-17, -9, -1,-10, 16,  2, -2, -8,-22,-21, -9, 17;
/M: SY='F'; M=-17,-27,-22,-34,-26, 58,-29,-12,  0,-24,  7,  1,-18,-28,-31,-16,-18,-10,  0,  7, 27,-26;
/M: SY='Q'; M= -6, -3,-25, -4,  6,-24,-17,  0,-19,  9,-17, -6, -2,-10, 15, 13, -1, -3,-17,-24,-10,  9;
/M: SY='C'; M=-10,-20,119,-30,-30,-20,-30,-30,-30,-30,-20,-20,-20,-40,-30,-30,-10,-10,-10,-48,-30,-30;
/M: SY='S'; M= -2, -1,-24, -1,  0,-22, -3, -7,-22,  0,-20,-13,  0, -6, -2, -1,  2, -4,-17,-26,-15, -2;
/M: SY='N'; M= -5, 18,-20, 14,  1,-22, -2, -1,-22, -4,-24,-17, 22,-15, -2, -6, 10,  1,-20,-33,-17, -1;
/I:         II=-4; MI=-5; IM=-5; MD=-15; DM=-15; I=0,0,-20,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0;
/M: SY='G'; M= -5, -4,-26, -5, -8,-23, 25, -8,-28, -8,-22,-14,  2,-16, -8, -7,  0,-11,-23,-23,-18, -9; D=-2;
/I:         DM=-15;
/M: SY='R'; M= -8, -5,-24, -6,  4,-19,-18, -2,-16,  8,-14, -6, -2,-14,  8, 13, -1, -2,-13,-24, -8,  5;
/M: SY='C'; M=-10,-20,118,-30,-30,-20,-30,-30,-30,-30,-20,-20,-20,-40,-30,-29,-10,-10,-10,-49,-29,-30;
/M: SY='I'; M= -8,-29,-25,-36,-28,  2,-36,-27, 40,-27, 20, 17,-22,-23,-21,-26,-19, -8, 29,-20,  0,-28;
/M: SY='P'; M= -3, -4,-28, -1,  2,-24,-13, -9,-19, -5,-23,-15, -4, 27, -3,-10,  2, -3,-21,-29,-19, -3; D=-4;
/I:         II=-7; MI=-15; IM=-15; MD=-15; DM=-15; I=0,0,-20,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0;
/M: SY='R'; M= -5, -8,-24,-10, -2,-15,-14, -9,-11, -1, -9, -3, -5,-11, -1,  1, -5, -6,-10,-21,-10, -3;
/M: SY='S'; M= -3,  0,-21,  0,  2,-17, -9, -3,-18, -3,-16,-11,  2,-14,  0, -2,  6,  0,-14,-25,-10,  1;
/M: SY='W'; M=-11,-17,-30,-19,-10,  0,-20,-12,-13, -3, -8, -7,-15,-22, -5, -2,-17,-13,-15, 25,  8, -7;
/M: SY='V'; M= -8,-19,-22,-21,-14, -6,-24,-14,  2, -4,  2,  3,-16,-22, -9,  3,-13, -6,  7,-16, -5,-12;
/M: SY='C'; M=-10,-20,115,-29,-29,-20,-30,-29,-29,-29,-20,-19,-20,-39,-28,-29,-10,-10,-10,-49,-29,-29;
/M: SY='D'; M=-17, 46,-27, 56, 14,-34, -8,  2,-34,  0,-29,-27, 29,-13,  0, -8,  2, -7,-29,-40,-20,  7;
/M: SY='G'; M= -3, -5,-28, -6,-13,-25, 42,-11,-33,-13,-25,-16,  3,-19,-12,-11, -1,-15,-26,-22,-22,-13;
/M: SY='D'; M= -8,  1,-24,  3,  2,-15,-18, -3,-12, -2,-12, -8, -2,-16, -1, -4, -4, -5, -8,-25, -6,  0;
/I:         II=-7; MI=-15; IM=-15; MD=-15; DM=-15; I=0,0,-15,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0;
/M: SY='B'; M= -7,  8,-23,  7,  1,-18,-14, -6,-17, -3,-18,-13,  8, -5, -3, -5, -1, -4,-15,-27,-13, -2;
/M: SY='D'; M=-18, 44,-29, 59, 18,-37, -9,  2,-37,  0,-28,-27, 21,-11,  1, -8,  0, -9,-29,-39,-19, 10;
/M: SY='C'; M=-10,-20,119,-30,-30,-20,-30,-30,-30,-30,-20,-20,-20,-40,-30,-30,-10,-10,-10,-48,-30,-30;
/M: SY='G'; M= -3, -6,-26, -4, -1,-22,  3, -9,-21, -5,-18,-12, -4, -2, -4, -6,  0, -7,-18,-25,-16, -4;
/M: SY='D'; M=-16, 39,-28, 52, 13,-33, -6,  0,-35, -2,-28,-26, 20,-11, -1, -9,  1, -8,-28,-36,-17,  6;
/M: SY='G'; M= -3, -4,-26, -6,-11,-24, 33,-10,-30,-11,-24,-15,  4,-18,-10,-11,  0,-13,-25,-19,-19,-11;
/M: SY='S'; M=  5,  2,-15,  2,  5,-20, -4, -8,-20, -7,-24,-16,  7,-11,  1, -9, 25, 11,-13,-35,-17,  3;
/M: SY='D'; M=-18, 42,-29, 60, 18,-36,-10,  0,-37, -1,-27,-27, 16,-11, -1,-10, -1, -9,-27,-36,-18,  8;
/M: SY='E'; M=-10, 11,-29, 20, 53,-29,-18, -1,-29,  8,-20,-20,  1, -2, 17, -1,  1, -9,-28,-30,-19, 35;
/I:         II=-7; MI=-15; IM=-15; MD=-15; DM=-15; I=0,0,-15,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0;
/M: SY='E'; M= -1, -3,-22, -3,  6,-19,-16, -6,-14,  2,-11, -7, -3,-11,  3,  0, -2, -4,-12,-25,-11,  4; D=-3;
/I:         DM=-13;
/M: SY='N'; M= -8,  8,-23,  6, -1,-20, -2, -2,-19, -5,-17,-12, 10,-15, -2, -5,  0, -6,-18,-28,-12, -3;
/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='S'; M= -1, -3,-22, -3,  0,-21, -4, -9,-19, -5,-19,-13, -1, -2, -4, -6,  4, -1,-14,-28,-18, -3;
/I:         E1=0; IE=-105; DE=-105;
» more

Numerical results [info]

Numerical results for UniProtKB/Swiss-Prot release 2016_08 which contains 551'987 sequence entries.


Total number of hits 835 in 157 different sequences
Number of true positive hits 834 in 156 different sequences
Number of 'unknown' hits 0
Number of false positive hits 1
Number of false negative sequences 8
Number of 'partial' sequences 1
Precision (true positives / (true positives + false positives)) 99.88 %
Recall (true positives / (true positives + false negatives)) 99.05 %

Comments [info]

Matrix type [info] protein_domain
Scaling database [info] reversed
Author [info] K_Hofmann
Taxonomic range [info] Eukaryotes
Maximum number of repetitions [info] 36
Feature key [info] DOMAIN
Feature description [info] LDL-receptor class A
Version [info] 4

Cross-references [info]

UniProtKB/Swiss-Prot
True positive sequences
156 sequences

AEGP_HUMAN  (Q6UXC1    ), AEGP_MOUSE  (A2AJA7    ), AEGP_RAT    (Q63191    ), 
CD320_BOVIN (A6QNY1    ), CD320_HUMAN (Q9NPF0    ), CD320_MOUSE (Q9Z1P5    ), 
CD320_RAT   (Q5HZW5    ), CFAI_HUMAN  (P05156    ), CFAI_MOUSE  (Q61129    ), 
CFAI_PONAB  (Q5R5A4    ), CFAI_RAT    (Q9WUW3    ), CO6_BOVIN   (Q29RU4    ), 
CO6_HUMAN   (P13671    ), CO6_PANTR   (P61134    ), CO6_PONPY   (P61135    ), 
CO6_RAT     (Q811M5    ), CO7_BOVIN   (Q29RQ1    ), CO7_HUMAN   (P10643    ), 
CO7_PIG     (Q9TUQ3    ), CO7_PONAB   (Q5RAD0    ), CO8A_HUMAN  (P07357    ), 
CO8A_MOUSE  (Q8K182    ), CO8A_RABIT  (P98136    ), CO8B_HUMAN  (P07358    ), 
CO8B_MOUSE  (Q8BH35    ), CO8B_ONCMY  (Q90X85    ), CO8B_PAROL  (Q9PVW7    ), 
CO8B_RABIT  (P98137    ), CO8B_RAT    (P55314    ), CO9_BOVIN   (Q3MHN2    ), 
CO9_HORSE   (P48770    ), CO9_HUMAN   (P02748    ), CO9_MOUSE   (P06683    ), 
CO9_ONCMY   (P06682    ), CO9_RABIT   (P48747    ), CO9_RAT     (Q62930    ), 
CO9_TAKRU   (P79755    ), CORIN_HUMAN (Q9Y5Q5    ), CORIN_MOUSE (Q9Z319    ), 
CORIN_RAT   (Q80YN4    ), CTX_SEPES   (B2DCR8    ), ENTK_BOVIN  (P98072    ), 
ENTK_HUMAN  (P98073    ), ENTK_MOUSE  (P97435    ), ENTK_PIG    (P98074    ), 
GLBL_LAMSP  (P16222    ), GLBL_TYLHE  (P18207    ), GLBM_TYLHE  (P18208    ), 
GR101_LYMST (P46023    ), IDD_HUMAN   (P98153    ), IDD_MOUSE   (P98154    ), 
LDLR1_XENLA (Q99087    ), LDLR2_XENLA (Q99088    ), LDLR_CRIGR  (P35950    ), 
LDLR_HUMAN  (P01130    ), LDLR_MOUSE  (P35951    ), LDLR_PIG    (Q28832    ), 
LDLR_RABIT  (P20063    ), LDLR_RAT    (P35952    ), LRAD1_HUMAN (Q5T700    ), 
LRAD2_HUMAN (Q5SZI1    ), LRAD3_HUMAN (Q86YD5    ), LRAD3_MOUSE (A2AR95    ), 
LRAD3_XENTR (A4IHY6    ), LRAD4_HUMAN (O15165    ), LRAD4_MOUSE (Q8BWJ4    ), 
LRP10_HUMAN (Q7Z4F1    ), LRP10_MOUSE (Q7TQH7    ), LRP11_HUMAN (Q86VZ4    ), 
LRP11_MOUSE (Q8CB67    ), LRP12_HUMAN (Q9Y561    ), LRP12_MACFA (Q9BE74    ), 
LRP12_MOUSE (Q8BUJ9    ), LRP12_PONAB (Q5R662    ), LRP1B_HUMAN (Q9NZR2    ), 
LRP1B_MOUSE (Q9JI18    ), LRP1_CHICK  (P98157    ), LRP1_HUMAN  (Q07954    ), 
LRP1_MOUSE  (Q91ZX7    ), LRP2_HUMAN  (P98164    ), LRP2_MOUSE  (A2ARV4    ), 
LRP2_RAT    (P98158    ), LRP3_HUMAN  (O75074    ), LRP3_RAT    (O88204    ), 
LRP4_HUMAN  (O75096    ), LRP4_MOUSE  (Q8VI56    ), LRP4_RAT    (Q9QYP1    ), 
LRP5_HUMAN  (O75197    ), LRP5_MOUSE  (Q91VN0    ), LRP6_HUMAN  (O75581    ), 
LRP6_MOUSE  (O88572    ), LRP8_CHICK  (Q98931    ), LRP8_HUMAN  (Q14114    ), 
LRP8_MOUSE  (Q924X6    ), LRP_CAEEL   (Q04833    ), MALR1_HUMAN (Q5VYJ5    ), 
MALR1_MOUSE (A2AJX4    ), MFRP_HUMAN  (Q9BY79    ), MFRP_MOUSE  (Q8K480    ), 
MLRP1_ACRMI (B3EWZ5    ), MLRP2_ACRMI (B3EWZ6    ), MUA3_CAEEL  (P34576    ), 
NETO1_HUMAN (Q8TDF5    ), NETO1_MOUSE (Q8R4I7    ), NETO2_HUMAN (Q8NC67    ), 
NETO2_MOUSE (Q8BNJ6    ), NETO2_RAT   (C6K2K4    ), NUDEL_DROME (P98159    ), 
PGBM_HUMAN  (P98160    ), PGBM_MOUSE  (Q05793    ), PROH4_APIME (P85831    ), 
PROH4_CAMFO (E2AX35    ), RSVR_COTJA  (P98162    ), RXFP1_HUMAN (Q9HBX9    ), 
RXFP1_MOUSE (Q6R6I7    ), RXFP1_PONAB (Q5R5V8    ), RXFP1_RAT   (Q6R6I6    ), 
RXFP2_CANLF (Q5XM32    ), RXFP2_HUMAN (Q8WXD0    ), RXFP2_MOUSE (Q91ZZ5    ), 
SCD2_CAEEL  (O76411    ), SORL_CHICK  (Q98930    ), SORL_HUMAN  (Q92673    ), 
SORL_MOUSE  (O88307    ), SORL_RABIT  (Q95209    ), SPIT1_HUMAN (O43278    ), 
SPIT1_MOUSE (Q9R097    ), SSPO_BOVIN  (P98167    ), SSPO_CHICK  (Q2PC93    ), 
SSPO_HUMAN  (A2VEC9    ), SSPO_MOUSE  (Q8CG65    ), SSPO_RAT    (Q700K0    ), 
ST14_BOVIN  (Q0IIH7    ), ST14_HUMAN  (Q9Y5Y6    ), ST14_MOUSE  (P56677    ), 
TMPS2_HUMAN (O15393    ), TMPS2_MOUSE (Q9JIQ8    ), TMPS3_HUMAN (P57727    ), 
TMPS3_MOUSE (Q8K1T0    ), TMPS6_HUMAN (Q8IU80    ), TMPS6_MOUSE (Q9DBI0    ), 
TMPS7_HUMAN (Q7RTY8    ), TMPS7_MOUSE (Q8BIK6    ), TMPS7_RAT   (P86091    ), 
TMPS9_HUMAN (Q7Z410    ), TMPS9_MOUSE (P69525    ), TMPS9_RAT   (P69526    ), 
UNC52_CAEEL (Q06561    ), VGR_SOLIN   (Q6X0I2    ), VLDLR_CHICK (P98165    ), 
VLDLR_HUMAN (P98155    ), VLDLR_MOUSE (P98156    ), VLDLR_RABIT (P35953    ), 
VLDLR_RAT   (P98166    ), YL54_CAEEL  (P34434    ), YL_DROME    (P98163    )
» more

UniProtKB/Swiss-Prot
False negative sequences
8 sequences

ALK_HUMAN   (Q9UM73    ), ALK_MOUSE   (P97793    ), PKD1_HUMAN  (P98161    ), 
PKD1_MOUSE  (O08852    ), TMPS4_HUMAN (Q9NRS4    ), TMPS4_MOUSE (Q8VCA5    ), 
TMPSD_HUMAN (Q9BYE2    ), TMPSD_MOUSE (Q5U405    )
» more

UniProtKB/Swiss-Prot
'Partial' sequences
1 sequence

LDLR_BOVIN  (P01131    )

		
UniProtKB/Swiss-Prot
False positive sequences
1 sequence

GLU2B_ORYSJ (Q5NBP9    )

		
PDB
[Detailed view]
36 PDB

1AJJ; 1CR8; 1D2J; 1D2L; 1F5Y; 1F8Z; 1J8E; 1JRF; 1K7B; 1LDL; 1LDR; 1N7D; 1V9U; 1XFE; 2FCW; 2FYJ; 2FYL; 2I1P; 2JM4; 2KNX; 2KNY; 2KRI; 2LGP; 2M0P; 2M7P; 2M96; 2XRC; 3A7Q; 3DPR; 3M0C; 3OJY; 3P5C; 3T5O; 4A5W; 4E0S; 5FMW
» more

View entry in original PROSITE format
View entry in raw text format (no links)
Direct ScanProsite submission