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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.
Amos Bairoch

PROSITE entry PS00478


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PURL: https://purl.expasy.org/prosite/signature/PS00478

Direct ScanProsite submission
General information about the entry

Entry name [info] LIM_DOMAIN_1
Accession [info] PS00478
Entry type [info] PATTERN
Date [info] 01-MAY-1991 CREATED;
01-DEC-2004 DATA UPDATE;
29-MAY-2024 INFO UPDATE.
PROSITE Doc. [info] PDOC00382

Name and characterization of the entry

Description [info] LIM zinc-binding domain signature.
Pattern [info] 
C-x(2)-C-x(15,21)-[FYWHPCR]-H-x(2)-[CH]-x(2)-C-x(2)-C-x(3)-[LIVMF].

Numerical results [info]

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


Total number of hits 792 in 400 different sequences
Number of true positive hits 790 in 398 different sequences
Number of 'unknown' hits 0
Number of false positive hits 2 in 2 different sequences
Number of false negative sequences 7
Number of 'partial' sequences 1
Precision (true positives / (true positives + false positives)) 99.75 %
Recall (true positives / (true positives + false negatives)) 99.12 %

Comments [info]

Taxonomic range [info] Eukaryotes
Maximum number of repetitions [info] 5
Site [info] zinc at position 1
Site [info] zinc at position 3
Site [info] zinc at position 6
Site [info] zinc at position 8
Site [info] zinc at position 10
Site [info] zinc at position 12
Version [info] 1

Cross-references [info]

UniProtKB/Swiss-Prot
True positive sequences		 398 sequences 

ABLM1_HUMAN (O14639), ABLM1_MOUSE (Q8K4G5), ABLM2_HUMAN (Q6H8Q1), 

ABLM2_MOUSE (Q8BL65), ABLM2_RAT   (Q6KC51), ABLM3_HUMAN (O94929), 
ABLM3_MOUSE (Q69ZX8), AJUBA_BOVIN (E1BKA3), AJUBA_DROME (Q9VY77), 
AJUBA_HUMAN (Q96IF1), AJUBA_MOUSE (Q91XC0), AJUBA_RAT   (Q5U2Z2), 
APTE_DROME  (P29673), AWH_DROME   (Q8IRC7), CRIP1_BOVIN (Q56K04), 
CRIP1_HUMAN (P50238), CRIP1_MOUSE (P63254), CRIP1_RAT   (P63255), 
CRIP2_BOVIN (Q0VFX8), CRIP2_HUMAN (P52943), CRIP2_MOUSE (Q9DCT8), 
CRIP2_PONAB (Q5R7Y1), CRIP2_RAT   (P36201), CRIP3_HUMAN (Q6Q6R5), 
CRIP3_MOUSE (Q6Q6R3), CSRP1_BOVIN (Q3MHY1), CSRP1_CHICK (P67966), 
CSRP1_COTJA (P67967), CSRP1_HUMAN (P21291), CSRP1_MOUSE (P97315), 
CSRP1_PONAB (Q5RCT4), CSRP1_RAT   (P47875), CSRP2_BOVIN (Q32LE9), 
CSRP2_CHICK (P50460), CSRP2_COTJA (Q05158), CSRP2_HUMAN (Q16527), 
CSRP2_MOUSE (P97314), CSRP2_RAT   (Q62908), CSRP3_BOVIN (Q4U0T9), 
CSRP3_HUMAN (P50461), CSRP3_MOUSE (P50462), CSRP3_RAT   (P50463), 
DA1_ARATH   (P0C7Q8), DAR1_ARATH  (Q8W4F0), DAR2_ARATH  (Q0WSN2), 
DAR4_ARATH  (Q9FKN7), DAR5_ARATH  (Q84WJ0), DAR6_ARATH  (Q9FJX8), 
DAR7_ARATH  (Q9FJX9), ESN_DROME   (Q9U1I1), ESN_DROPS   (Q292U5), 
FBLI1_BOVIN (Q1JQB5), FBLI1_HUMAN (Q8WUP2), FBLI1_MOUSE (Q71FD7), 
FBLI1_PONAB (Q5REN1), FHL1_HUMAN  (Q13642), FHL1_MOUSE  (P97447), 
FHL1_RAT(Q9WUH4), FHL2_BOVIN  (Q2KI95), FHL2_HUMAN  (Q14192), 
FHL2_MOUSE  (O70433), FHL2_RAT(O35115), FHL3_BOVIN  (Q3ZBI6), 
FHL3_HUMAN  (Q13643), FHL3_MOUSE  (Q9R059), FHL5_BOVIN  (Q2YDK0), 
FHL5_HUMAN  (Q5TD97), FHL5_MACFA  (Q4R7A4), FHL5_MOUSE  (Q9WTX7), 
FHL5_RAT(Q6AXT1), HDR3_ORYSJ  (Q10NJ6), HIL_DROME   (Q0E908), 
HM14_CAEEL  (P20271), ISL1_CHICK  (P50211), ISL1_DANRE  (P53405), 
ISL1_HUMAN  (P61371), ISL1_MESAU  (P61373), ISL1_MOUSE  (P61372), 
ISL1_RAT(P61374), ISL2A_DANRE (P53406), ISL2A_ONCTS (P53408), 
ISL2B_DANRE (P53407), ISL2B_ONCTS (P50212), ISL2_CHICK  (P53410), 
ISL2_HUMAN  (Q96A47), ISL2_MOUSE  (Q9CXV0), ISL2_RAT(P50480), 
ISL3_ONCTS  (P53409), KY_CAEEL(G5EF51), LASP1_BOVIN (Q3B7M5), 
LASP1_DROME (Q8I7C3), LASP1_HUMAN (Q14847), LASP1_MOUSE (Q61792), 
LASP1_PONAB (Q5R5W0), LASP1_RABIT (O77506), LASP1_RAT   (Q99MZ8), 
LDB3_HUMAN  (O75112), LDB3_MOUSE  (Q9JKS4), LHX1_CHICK  (P53411), 
LHX1_DANRE  (Q90476), LHX1_HUMAN  (P48742), LHX1_MESAU  (P63008), 
LHX1_MOUSE  (P63006), LHX1_PANTR  (Q5IS44), LHX1_RAT(P63007), 
LHX1_SAIBB  (Q5IS89), LHX1_XENLA  (P29674), LHX2_HUMAN  (P50458), 
LHX2_MOUSE  (Q9Z0S2), LHX2_RAT(P36198), LHX3_CHICK  (P53412), 
LHX3_DANRE  (Q90421), LHX3_HUMAN  (Q9UBR4), LHX3_MOUSE  (P50481), 
LHX3_PIG(O97581), LHX3_XENLA  (P36200), LHX4_HUMAN  (Q969G2), 
LHX4_MOUSE  (P53776), LHX5_DANRE  (P52889), LHX5_HUMAN  (Q9H2C1), 
LHX5_MOUSE  (P61375), LHX5_RAT(P61376), LHX5_XENLA  (P37137), 
LHX6_HUMAN  (Q9UPM6), LHX6_MOUSE  (Q9R1R0), LHX8_HUMAN  (Q68G74), 
LHX8_MOUSE  (O35652), LHX9_BOVIN  (A0JNI8), LHX9_CHICK  (Q90881), 
LHX9_DANRE  (Q1LWV4), LHX9_GLARU  (A2PZF9), LHX9_HUMAN  (Q9NQ69), 
LHX9_MOUSE  (Q9WUH2), LHX9_PSAFA  (A2I8Z7), LHX9_RAT(Q80W90), 
LHX9_XENLA  (Q68EY3), LIM4_CAEEL  (G5EEA1), LIM6_CAEEL  (Q21192), 
LIM7_CAEEL  (G5EC36), LIMA1_HUMAN (Q9UHB6), LIMA1_MOUSE (Q9ERG0), 
LIMA1_PIG   (B0KYV5), LIMA1_RAT   (F1LR10), LIMA_DICDI  (Q54QR1), 
LIMB_DICDI  (Q54NW4), LIMC1_HUMAN (Q9UPQ0), LIMC1_MOUSE (Q3UH68), 
LIMC1_XENLA (Q3KQW7), LIMCH_DICDI (Q55GV9), LIMC_DICDI  (Q9BIW5), 
LIMD1_BOVIN (G5E5X0), LIMD1_HUMAN (Q9UGP4), LIMD1_MOUSE (Q9QXD8), 
LIMD1_RAT   (B5DEH0), LIMD1_XENLA (Q06BR1), LIMD1_XENTR (B7ZUL2), 
LIMD2_BOVIN (Q1LZA7), LIMD2_HUMAN (Q9BT23), LIMD2_MOUSE (Q8BGB5), 
LIMD2_RAT   (Q4KM31), LIMD_DICDI  (Q9BIW4), LIME_DICDI  (O60952), 
LIMF_DICDI  (Q86I44), LIMG_DICDI  (Q55DS4), LIMK1_CHICK (Q8QFP8), 
LIMK1_DROME (Q8IR79), LIMK1_HUMAN (P53667), LIMK1_MOUSE (P53668), 
LIMK1_RAT   (P53669), LIMK1_XENLA (O42565), LIMK2_BOVIN (Q32L23), 
LIMK2_CHICK (P53666), LIMK2_HUMAN (P53671), LIMK2_MOUSE (O54785), 
LIMK2_RAT   (P53670), LIMKA_DICDI (Q54L00), LIMKB_DICDI (P0CD62), 
LIMS1_HUMAN (P48059), LIMS1_MOUSE (Q99JW4), LIMS2_BOVIN (Q2KJ33), 
LIMS2_HUMAN (Q7Z4I7), LIMS2_MOUSE (Q91XD2), LIMS3_HUMAN (P0CW19), 
LIMS4_HUMAN (P0CW20), LIN11_CAEEL (P20154), LMCD1_BOVIN (Q17QE2), 
LMCD1_HUMAN (Q9NZU5), LMCD1_MOUSE (Q8VEE1), LMCD1_PIG   (Q5PXT2), 
LMO3_BOVIN  (Q2KIA3), LMO3_DANRE  (Q503U0), LMO3_HUMAN  (Q8TAP4), 
LMO3_MOUSE  (Q8BZL8), LMO3_PONAB  (Q5RBW7), LMO3_RAT(Q99MB5), 
LMO3_XENLA  (Q9YH16), LMO41_XENTR (Q5FVB2), LMO42_XENTR (Q6DJ06), 
LMO4A_XENLA (Q8AW92), LMO4B_XENLA (Q801P0), LMO4_BOVIN  (Q3SWZ8), 
LMO4_HUMAN  (P61968), LMO4_MOUSE  (P61969), LMO7_HUMAN  (Q8WWI1), 
LMX1A_HUMAN (Q8TE12), LMX1A_MESAU (Q04650), LMX1A_MOUSE (Q9JKU8), 
LMX1B_CHICK (P53413), LMX1B_HUMAN (O60663), LMX1B_MESAU (Q60564), 
LMX1B_MOUSE (O88609), LMX1B_XENLA (Q8UVR3), LNEBL_MOUSE (Q9DC07), 
LPP_CHICK   (Q5F464), LPP_HUMAN   (Q93052), LPP_MOUSE   (Q8BFW7), 
LPP_RAT (Q5XI07), LPXN_HUMAN  (O60711), LPXN_MOUSE  (Q99N69), 
LPXN_RABIT  (Q9N261), LRG1_YEAST  (P35688), MCA2B_DANRE (F1RA39), 
MCA3A_DANRE (F1QH17), MCA3B_DANRE (F1QWK4), MEC3_CAEBR  (P34764), 
MEC3_CAEEL  (P09088), MEC3_CAERE  (P34765), MICA1_BOVIN (F1MH07), 
MICA1_DANRE (E7F9T0), MICA1_HUMAN (Q8TDZ2), MICA1_MOUSE (Q8VDP3), 
MICA1_RAT   (D3ZBP4), MICA2_BOVIN (F1MF74), MICA2_HUMAN (O94851), 
MICA2_MOUSE (Q8BML1), MICA2_RAT   (D4A1F2), MICA2_XENTR (F6QZ15), 
MICA3_BOVIN (G3MWR8), MICA3_HUMAN (Q7RTP6), MICA3_MOUSE (Q8CJ19), 
MILK1_BOVIN (E1BBG2), MILK1_HUMAN (Q8N3F8), MILK1_MOUSE (Q8BGT6), 
MILK1_RAT   (D3ZQL6), MILK2_HUMAN (Q8IY33), MILK2_MOUSE (Q3TN34), 
MILK2_RAT   (D3ZEN0), MLP1_DROME  (P53777), MLP2_DROME  (Q24400), 
NRAP_HUMAN  (Q86VF7), NRAP_MOUSE  (Q80XB4), PAXB_DICDI  (Q8MML5), 
PAXI_CHICK  (P49024), PAXI_HUMAN  (P49023), PAXI_MOUSE  (Q8VI36), 
PAXI_PONAB  (Q5R7I1), PAXI_RAT(Q66H76), PDLI1_BOVIN (Q5E9E1), 
PDLI1_HUMAN (O00151), PDLI1_MOUSE (O70400), PDLI1_RAT   (P52944), 
PDLI2_BOVIN (Q3T0C8), PDLI2_HUMAN (Q96JY6), PDLI2_MACFA (Q9GKU1), 
PDLI2_MOUSE (Q8R1G6), PDLI2_RAT   (Q6AYD6), PDLI3_BOVIN (Q3SYZ8), 
PDLI3_CHICK (Q9PU47), PDLI3_HUMAN (Q53GG5), PDLI3_MOUSE (O70209), 
PDLI3_PIG   (Q6QGC0), PDLI3_RAT   (Q66HS7), PDLI3_XENLA (Q6GLJ6), 
PDLI4_BOVIN (Q3T005), PDLI4_CHICK (Q9PW72), PDLI4_HUMAN (P50479), 
PDLI4_MOUSE (P70271), PDLI4_RAT   (P36202), PDLI5_HUMAN (Q96HC4), 
PDLI5_MOUSE (Q8CI51), PDLI5_RAT   (Q62920), PDLI7_BOVIN (Q3SX40), 
PDLI7_CHICK (Q679P3), PDLI7_DANRE (Q6P7E4), PDLI7_HUMAN (Q9NR12), 
PDLI7_MOUSE (Q3TJD7), PDLI7_RAT   (Q9Z1Z9), PDLI7_XENLA (Q6INU3), 
PIN2_CAEEL  (Q19157), PLI2A_ARATH (O80839), PLI2B_ARATH (Q1ECF5), 
PLI2B_ORYSJ (Q7F9R9), PLI2C_ARATH (Q500W4), PRC3A_XENLA (A8WH69), 
PRC3B_XENLA (A0A1L8F1M4), PRI1A_XENLA (Q90Z06), PRI1B_XENLA (Q90WV2), 
PRIC1_AEDAE (Q174I2), PRIC1_ANOGA (Q7QJT4), PRIC1_DROME (A1Z6W3), 
PRIC1_DROPS (Q292U2), PRIC1_HUMAN (Q96MT3), PRIC1_MOUSE (Q3U5C7), 
PRIC1_RAT   (Q71QF9), PRIC1_XENTR (Q28FG2), PRIC2_HUMAN (Q7Z3G6), 
PRIC2_MOUSE (Q80Y24), PRIC3_HUMAN (O43900), PRIC3_MOUSE (Q80VL3), 
PRIC4_HUMAN (Q2TBC4), PXL1_CAEEL  (Q09476), PXL1_YEAST  (P36166), 
PZF1_CAEEL  (G5EGQ2), RBTN1_BOVIN (Q0P5B3), RBTN1_DANRE (Q8JFQ2), 
RBTN1_HUMAN (P25800), RBTN1_MOUSE (Q924W9), RBTN1_XENLA (Q3B8H4), 
RBTN2_BOVIN (Q1LZ94), RBTN2_DANRE (Q9PTJ3), RBTN2_HUMAN (P25791), 
RBTN2_MOUSE (P25801), RBTN2_XENLA (Q90XH3), RBTN2_XENTR (Q5M8V8), 
RGA1_SCHPO  (O43052), RGA1_YEAST  (P39083), RGA2_YEAST  (Q06407), 
RGA3_SCHPO  (O14014), RGA4_SCHPO  (O74360), SCEL_HUMAN  (O95171), 
SCEL_MOUSE  (Q9EQG3), SF3_HELAN   (P29675), TES_AOTNA   (Q07DW1), 
TES_ATEAB   (Q00PK1), TES_ATEGE   (Q09YL5), TES_BOVIN   (Q2YDE9), 
TES_CALJA   (Q2QLG8), TES_CANLF   (A0M8U6), TES_CHICK   (Q90YH9), 
TES_CHLAE   (Q2IBA3), TES_COLGU   (Q07DZ4), TES_DASNO   (Q07E51), 
TES_EULMM   (Q2IBH0), TES_FELCA   (A0M8S5), TES_HORSE   (Q2QLB2), 
TES_HUMAN   (Q9UGI8), TES_LOXAF   (Q108U9), TES_MICMU   (Q2QL92), 
TES_MONDO   (Q2QLA1), TES_MOUSE   (P47226), TES_MUNMU   (Q09YK3), 
TES_MUNRE   (Q07DX3), TES_MUSPF   (Q07E27), TES_NEONE   (Q07E40), 
TES_NOMLE   (Q07DY3), TES_OTOGA   (Q2QLH9), TES_PANTR   (Q2QLF4), 
TES_PAPAN   (A0M8R4), TES_PIG (Q2QLE3), TES_PLEMO   (Q2QLC3), 
TES_PONAB   (Q5RC52), TES_RABIT   (Q09YN8), TES_RAT (Q2LAP6), 
TES_RHIFE   (Q2IBC3), TES_SAIBB   (Q09YI0), TES_SHEEP   (Q09YJ2), 
TES_XENLA   (Q7ZXE9), TES_XENTR   (Q6DIR5), TGFI1_BOVIN (Q3MHZ4), 
TGFI1_HUMAN (O43294), TGFI1_MOUSE (Q62219), TGFI1_RAT   (Q99PD6), 
TGFI1_XENLA (Q2TCH4), TRIP6_BOVIN (Q3SX26), TRIP6_HUMAN (Q15654), 
TRIP6_MOUSE (Q9Z1Y4), TTX3_CAEEL  (G5EE86), UNC95_CAEEL (Q9NEZ5), 
UNC97_CAEEL (P50464), WLI2A_ARATH (O04193), WLI2B_ARATH (Q9M047), 
WLIM1_ARATH (Q94JX5), WTIP_DANRE  (A8DZE6), WTIP_HUMAN  (A6NIX2), 
WTIP_MOUSE  (Q7TQJ8), WTIP_XENLA  (A9LS46), XIRP2_MOUSE (Q4U4S6), 
Y6787_DICDI (Q55BI0), YOCC_SCHPO  (O74398), ZASP_DROME  (A1ZA47), 
ZN185_HUMAN (O15231), ZN185_MOUSE (Q62394), ZYX_CAEEL   (Q9U3F4), 
ZYX_CHICK   (Q04584), ZYX_HUMAN   (Q15942), ZYX_MOUSE   (Q62523), 
ZYX_XENLA   (A5H447), ZYX_XENTR   (Q0VA45)
» more

UniProtKB/Swiss-Prot
False negative sequences		 7 sequences 

ADCE_DICDI  (Q55GN8), HEL2_SCHPO  (Q76PD2), HEL2_YEAST  (Q05580), 

LASP1_CAEEL (P34416), LHX3_HALRO  (Q25132), MICAL_DROME (Q86BA1), 
Y2098_DICDI (Q55A66)
» more

UniProtKB/Swiss-Prot
'Partial' sequences		 1 sequence 

LASP1_PIG   (P80171)


				
	

	

		UniProtKB/Swiss-Prot
False positive sequences		
		
			2 sequences
			


			
SIR7_DROME  (Q9VAQ1), YEMC_SCHPO  (O14033)


				
	

	

		PDB
[Detailed view]		
		
			72 PDB
			


			pdb_00001a7i; pdb_00001b8t; pdb_00001ctl; pdb_00001cxx; pdb_00001g47; pdb_00001ibi; pdb_00001iml; pdb_00001j2o; pdb_00001m3v; pdb_00001nyp; pdb_00001qli; pdb_00001rut; 
			
				pdb_00001u5s; pdb_00001v6g; pdb_00001wig; pdb_00001wyh; pdb_00001x3h; pdb_00001x4k; pdb_00001x4l; pdb_00001x61; pdb_00001x62; pdb_00001x63; pdb_00001x64; pdb_00001x68; 
				pdb_00001x6a; pdb_00002co8; pdb_00002cor; pdb_00002cu8; pdb_00002cup; pdb_00002cuq; pdb_00002cur; pdb_00002d8x; pdb_00002d8y; pdb_00002d8z; pdb_00002dfy; pdb_00002dj7; 
				pdb_00002dlo; pdb_00002egq; pdb_00002ehe; pdb_00002jtn; pdb_00002kbx; pdb_00002l4z; pdb_00002l6y; pdb_00002l6z; pdb_00002lxd; pdb_00002lzu; pdb_00002mbv; pdb_00002miu; 
				pdb_00002o10; pdb_00002o13; pdb_00002rgt; pdb_00002xjy; pdb_00002xjz; pdb_00002xqn; pdb_00002ypa; pdb_00003f6q; pdb_00003ixe; pdb_00003mmk; pdb_00004hi8; pdb_00004hi9; 
				pdb_00004jcj; pdb_00004kfz; pdb_00006cme; pdb_00006u4m; pdb_00006u4n; pdb_00007d2t; pdb_00007d2u; pdb_00007lt9; pdb_00007qb0; pdb_00008y6k; pdb_00009ewy; pdb_00009f5b
			
			

			» more