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-2015 (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=-1.475; R2=.0125; TEXT='NScore';
/NORMALIZATION: MODE=-1; FUNCTION=LINEAR; R1=-69.67580; R2=13.28311; TEXT='HScore';
/CUT_OFF: LEVEL=0; SCORE=797; N_SCORE=8.5; H_SCORE=9468; MODE=1; TEXT='!';
/CUT_OFF: LEVEL=-1; SCORE=637; N_SCORE=6.5; H_SCORE=8405; 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;
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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 824 in 154 different sequences
Number of true positive hits 823 in 153 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)) 99.04 %

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] 2

Cross-references [info]

UniProtKB/Swiss-Prot
True positive sequences
153 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), 
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), RSVR_COTJA  (P98162), 
RXFP1_HUMAN (Q9HBX9), RXFP1_MOUSE (Q6R6I7), RXFP1_PONAB (Q5R5V8), 
RXFP1_RAT   (Q6R6I6), RXFP2_CANFA (Q5XM32), RXFP2_HUMAN (Q8WXD0), 
RXFP2_MOUSE (Q91ZZ5), 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]
35 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
» More

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View entry in raw text format (no links)
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