Entry: PS50068

Forthcoming changes to the profile format
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); FEB-2014 (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 2014_03 which contains 542'782 sequence entries.


Total number of hits 802 in 151 different sequences
Number of true positive hits 802 in 151 different sequences
Number of 'unknown' hits
Number of false positive hits
Number of false negative sequences 8
Number of 'partial' sequences 1
Precision (true positives / (true positives + false positives)) 100.00 %
Recall (true positives / (true positives + false negatives)) 99.01 %

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
151 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), 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)
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UniProtKB/Swiss-Prot
'Partial' sequences
1 sequence

LDLR_BOVIN  (P01131)

		
PDB
[Detailed view]
34 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; 2XRC; 3A7Q; 3DPR; 3M0C; 3OJY; 3P5C; 3T5O; 4A5W; 4E0S
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View entry in raw text format (no links)
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