We are deeply saddened by the passing of Amos Bairoch (1957–2025), the creator of PROSITE. We wish to dedicate our latest paper, published shortly before his death, to him. He will always be a source of inspiration to us.
Our deepest condolences go out to his family and friends, and to all those who had the privilege of working with him. Rest in peace, Amos. Your work will live on long after you are gone.

PROSITE entry PS51957

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PURL: https://purl.expasy.org/prosite/signature/PS51957

Direct ScanProsite submission

General information about the entry

Entry name [info]	LID
Accession [info]	PS51957
Entry type [info]	MATRIX
Date [info]	10-FEB-2021 CREATED; 10-FEB-2021 DATA UPDATE; 29-MAY-2024 INFO UPDATE.
PROSITE Doc. [info]	PDOC51957
Associated ProRule [info]	PRU01302

Name and characterization of the entry

Description [info]

LIM interaction domain (LID) domain profile.

Matrix / Profile [info]

/GENERAL_SPEC: ALPHABET='ABCDEFGHIKLMNPQRSTVWYZ'; LENGTH=40;
/DISJOINT: DEFINITION=PROTECT; N1=5; N2=36;
/NORMALIZATION: MODE=1; FUNCTION=LINEAR; R1=1.6648701; R2=0.0148688; TEXT='-LogE';
/CUT_OFF: LEVEL=0; SCORE=527; N_SCORE=9.5; MODE=1; TEXT='!';
/CUT_OFF: LEVEL=-1; SCORE=326; N_SCORE=6.5; MODE=1; TEXT='?';
/DEFAULT: M0=-8; D=-50; I=-50; B1=-500; E1=-500; MI=-105; MD=-105; IM=-105; DM=-105;

...

                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='D';  M=-12, 20,-30, 32, 31,-34,  1, -4,-35,  1,-25,-24,  7, -7,  5, -7,  0,-12,-30,-32,-22, 18;
/M: SY='V';  M= -6,-29,-16,-33,-28, 11,-31,-25, 28,-23, 15, 15,-26,-28,-27,-21,-15, -4, 34,-22, -2,-28;
/M: SY='M';  M=-11,-19,-22,-23,-10,  1,-24, -4, 12,-13, 22, 33,-20,-21, -4,-12,-20,-10,  3,-17,  4, -7;
/M: SY='V';  M= -1,-25,-11,-27,-26, -1,-28,-26, 23,-19, 11, 11,-25,-27,-25,-18, -8,  5, 37,-29, -9,-25;
/M: SY='V';  M=  2,-27,-14,-27,-25, -5,-27,-28, 21,-18,  3,  5,-27,-13,-26,-20, -9, -1, 36,-29,-13,-26;
/M: SY='G';  M=  2,  2,-24,  5, -4,-30, 27,-11,-31,-10,-27,-18,  4,-14, -2,-13,  9, -8,-24,-27,-23, -3;
/M: SY='E';  M=-10, 10,-30, 20, 60,-30,-20,  0,-30, 10,-20,-20,  0,  0, 20,  0,  0,-10,-30,-30,-20, 40;
/M: SY='P';  M=-10,-20,-40,-10,  0,-30,-20,-20,-20,-10,-30,-20,-20, 90,-10,-20,-10,-10,-30,-30,-30,-10;
/M: SY='S';  M=  6, -4,-14, -8, -5,-17,-11,-15,-12, -4,-19,-12,  2,-11, -4, -7, 21, 19, -4,-31,-14, -5;
/M: SY='M';  M= -8,-23,-20,-29,-21,  2,-27,-16, 21,-20, 25, 29,-21,-23,-13,-17,-17, -2, 14,-22, -2,-18;
/M: SY='M';  M=-10,-22,-20,-30,-20,  2,-22, -3, 20,-13, 25, 53,-22,-22, -3,-12,-22,-10, 10,-20,  0,-12;
/M: SY='G';  M= -3, -2,-30,  1, -6,-31, 52,-16,-39,-14,-29,-21,  2,-17,-13,-17,  0,-18,-30,-23,-28,-10;
/M: SY='G';  M= -3, -6,-10, -6, -5,-28, 27,-16,-34, -6,-27,-19, -2,-18,-10,-10,  0,-13,-25,-26,-25, -7;
/M: SY='E';  M=-10, 14,-25, 17, 26,-19,-10, -3,-26,  0,-21,-19,  9, -9,  4, -6,  3, -4,-24,-29,-16, 15;
/I:         I=-14; MD=-29;
/M: SY='F';  M=-16,-22,-21,-26,-21, 40,-27, -4,  2,-19,  9,  2,-18,-26,-21,-14,-17, -5, -2, 10, 38,-21; D=-14;
/I:         I=-14; MD=-29;
/M: SY='G';  M= -3, -3,-10, -7,-13,-19, 30,-11,-23,-13,-18, -9,  5,-17,-12,-13, -1,-11,-18,-20,-19,-13; D=-14;
/I:         I=-14; MI=-29; IM=-29; DM=-29;
/M: SY='D';  M= -9, 19,-25, 25, 14,-30, -4, -3,-30,  3,-27,-21, 13,-11,  6,  1,  7, -4,-25,-33,-19, 10;
/M: SY='E';  M=-11, 18,-29, 24, 38,-31,-10,  1,-30,  5,-24,-20, 11, -6, 14, -2,  1, -9,-30,-32,-20, 26;
/M: SY='D';  M=-19, 49,-29, 64, 17,-37, -9,  1,-37,  0,-30,-29, 25,-11,  0, -9,  1, -9,-30,-40,-20,  9;
/M: SY='E';  M=-10, 10,-30, 20, 60,-30,-20,  0,-30, 10,-20,-20,  0,  0, 20,  0,  0,-10,-30,-30,-20, 40;
/M: SY='R';  M=-19, -9,-30, -9,  2,-22,-20,  1,-29, 28,-20, -9,  0,-19, 15, 64, -9,-10,-21,-20,-10,  4;
/M: SY='K';  M= -6, -4,-26, -8, -1,-20,-19, -3,-10,  7,-12, -1, -1, -8,  6,  2, -6, -4,-12,-24, -9,  2;
/M: SY='I';  M=-10,-22,-28,-33,-26, -2,-34,-22, 39,-25, 15, 21,-12,-20,-15,-25,-17, -9, 22,-22, -2,-25;
/M: SY='T';  M=  0, -4,-16, -8, -6,-13,-16,-11, -6,-10, -3,  3, -5,-14, -1,-10,  6, 15, -4,-28,-10, -4;
/M: SY='R';  M=-19,-10,-30,-10, -1,-16,-21,  1,-27, 28,-19, -9, -2,-20,  8, 59,-11,-10,-19,-15, -1, -1;
/M: SY='I';  M= -8,-22,-21,-23,-22, -1,-31,-24, 26,-24, 21, 12,-22,-25,-21,-22,-18, -7, 24,-25, -5,-23;
/M: SY='E';  M= -9,  6,-29, 15, 49,-28,-20, -3,-28,  7,-20,-19, -2,  8, 15, -3,  1, -5,-28,-30,-20, 31;
/M: SY='N';  M=-10, 32,-21, 16,  0,-20, -3, 20,-21, -2,-29,-17, 50,-19,  1, -1, 10, -1,-28,-39,-15,  0;
/M: SY='S';  M=  3, -2,-21, -3,  0,-21,  0,-12,-19,-10,-20,-15,  4,  4, -5,-12, 10,  3,-17,-31,-21, -4;
/M: SY='Q';  M= -7,  1,-28,  2,  5,-25, -8,  3,-22, -4,-22,-12,  1,  7,  8, -7, -1, -5,-24,-24,-11,  5;
/M: SY='F';  M= -4,-15,-20,-22,-17, 24,-19,-11, -4,-18, -5, -6, -8,-16,-19,-16, -4, -3, -5, -7, 14,-18;
/M: SY='D';  M= -8, 21,-25, 22,  3,-28, -3, -3,-24, -4,-22,-13, 15, -8,  1, -8,  2, -4,-22,-32,-18,  2;
/M: SY='N';  M= -8, -7,-28,-11,-10,-19, -4, -7, -8,-14,-12, -6,  1, -1, -6,-14, -4, -5,-13,-26,-14,-10;
/M: SY='N';  M= -5,  5,-21, -1, -3,-16, -7, -4,-11, -7,-20,-12, 15,-11, -2, -9,  7,  0,-13,-29,-11, -3;
/M: SY='E';  M=  3,  2,-25,  5, 14,-29,  6, -9,-28,  1,-23,-17,  1, -9,  6, -6,  5, -7,-22,-26,-20, 10;
/M: SY='N';  M= -1, -2,-19, -7, -8, -8,-12, -9, -9,-11,-13,-11,  6, -5, -9,-12,  6,  5,-10,-27, -9, -9;
/M: SY='N';  M= -2, -1,-23, -5,  0,-21,  3, -7,-17, -5,-12, -5,  4,-16,  3, -7, -1, -8,-17,-26,-16,  1;
/M: SY='H';  M= -7,  2,-23,  2,  0,-22, -9,  8,-18, -4,-16, -8,  5,-17,  8,  0,  4, -4,-16,-30,-11,  3;
/M: SY='Q';  M= -3,  1,-25, -3,  3,-21,-11,  3,-17, -4,-20, -8,  7, -7, 10, -5,  2, -5,-21,-15,-11,  6;
/M: SY='Q';  M=-10,  5,-28,  5, 10,-27,-12, 11,-24,  6,-21, -9,  6,-14, 22, 10, -2,-10,-25,-22, -7, 15;
/I:         E1=0; IE=-105; DE=-105;

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Numerical results [info]

Numerical results for UniProtKB/Swiss-Prot release 2025_04 which contains 573'661 sequence entries.

Total number of hits	11 in 11 different sequences
Number of true positive hits	11 in 11 different sequences
Number of 'unknown' hits	0
Number of false positive hits	0
Number of false negative sequences	0
Number of 'partial' sequences	0

Precision (true positives / (true positives + false positives))	100.00 %
Recall (true positives / (true positives + false negatives))	100.00 %

Comments [info]

Taxonomic range [info]	Eukaryotes
Maximum number of repetitions [info]	1
Matrix type [info]	protein_domain
Scaling database [info]	reversed
Author [info]	CJA_Sigrist
Feature key [info]	DOMAIN
Feature description [info]	LIM interaction domain (LID)
Version [info]	1

Cross-references [info]

UniProtKB/Swiss-Prot
True positive sequences

11 sequences

LDB1A_DANRE (O73715), LDB1_CHICK  (O42252), LDB1_HUMAN  (Q86U70),

LDB1_MOUSE  (P70662), LDB1_XENLA  (P70060), LDB1_XENTR  (Q6NVL6), 
LDB2_CHICK  (Q9W676), LDB2_HUMAN  (O43679), LDB2_MOUSE  (O55203), 
LDB2_XENLA  (Q1EQW7), LIDB1_CAEEL (G5EEL0)

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Retrieve an alignment of UniProtKB/Swiss-Prot true positive hits:
[Clustal format, color, condensed view] [Clustal format, color]
[Clustal format, plain text] [Fasta format]
Retrieve the sequence logo from the alignment

PDB
[Detailed view]

12 PDB

pdb_00001j2o; pdb_00001m3v; pdb_00001rut; pdb_00002jtn; pdb_00002l6y; pdb_00002l6z; pdb_00002lxd; pdb_00002xjy; pdb_00002xjz; pdb_00002ypa; pdb_00004jcj; pdb_00009f5b