Psyllid ID: psy12714

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------
Protein Sequence
MSFFVPATSSKIAVKIILNQPEAPSNGTGNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRGNYDEGFGSDQHKRKWQPVATAN
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccEEEEcEEEEccccccccccccccccccccccccccccccEEEcccHHHHHHcccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccHHHHHccccccHHHHcccEEEEcEEEEEcccEEEcccEEEcccccEEEccccHHcccEEEEcccHHHHHHccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
msffvpatssKIAVKIILnqpeapsngtgnpsslcfacnkkvyplekietdgklfhracfrctqcctvlrmesytmnnghlyclphfkqlfisrgnydegfgsdqhkrkwqpvatan
Flexible Loop (DISEMBL)
msffvpatSSKIAVKIILNQPEAPSNGTGNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRGNYDEGFgsdqhkrkwqpvatan
Low Complexity Region (SEG)
MSFFVPATSSKIAVKIILNQPEAPSNGTGNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRGNYDEGFGSDQHKRKWQPVATAN
Disordered region (IsUnstruct)
***********IAVKIIL**************SLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRGNYDE******************
Disordered Region (DISOPRED)
************************************ACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQ****************************
Disordered Region (DISEMBL)
********SSKIAVKIILNQPEAPSNGTGNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRGNYDEGF****************
Disordered Region (DISPRO)
****************************GNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISR***********************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSFFVPATSSKIAVKIILNQPEAPSNGTGNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRGNYDEGFGSDQHKRKWQPVATAN
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	117	2.2.26 [Sep-21-2011]
Q4U4S6	3784	Xin actin-binding repeat-	yes	N/A	0.658	0.020	0.519	1e-21
Q8BGB5	128	LIM domain-containing pro	no	N/A	0.649	0.593	0.539	7e-20
Q4KM31	128	LIM domain-containing pro	yes	N/A	0.649	0.593	0.539	8e-20
Q1LZA7	128	LIM domain-containing pro	no	N/A	0.649	0.593	0.539	1e-19
Q9BT23	127	LIM domain-containing pro	no	N/A	0.649	0.598	0.539	1e-19
Q9ERG0	753	LIM domain and actin-bind	no	N/A	0.649	0.100	0.5	3e-19
Q9UHB6	759	LIM domain and actin-bind	no	N/A	0.769	0.118	0.433	1e-18
B0KYV5	756	LIM domain and actin-bind	no	N/A	0.649	0.100	0.486	2e-18
F1QH17	1994	Protein-methionine sulfox	no	N/A	0.547	0.032	0.455	4e-13
G3MWR8	1960	Protein-methionine sulfox	no	N/A	0.564	0.033	0.414	7e-13

>sp|Q4U4S6|XIRP2_MOUSE Xin actin-binding repeat-containing protein 2 OS=Mus musculus GN=Xirp2 PE=1 SV=1

 Score =  101 bits (252), Expect = 1e-21,   Method: Composition-based stats.
 Identities = 40/77 (51%), Positives = 53/77 (68%)

Query: 34   LCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFIS 93
            +C  C K VYP+E +  D + FH++CFRC  C + L + +Y   +G +YC PHFKQLF S
Sbjct: 3256 ICIICQKTVYPMECLIADKQNFHKSCFRCHHCSSKLSLGNYASLHGRIYCKPHFKQLFKS 3315

Query: 94   RGNYDEGFGSDQHKRKW 110
            +GNYDEGFG  QHK +W
Sbjct: 3316 KGNYDEGFGHKQHKDRW 3332

Protects actin filaments from depolymerization.
Mus musculus (taxid: 10090)

>sp|Q8BGB5|LIMD2_MOUSE LIM domain-containing protein 2 OS=Mus musculus GN=Limd2 PE=2 SV=1

 Score = 95.9 bits (237), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 41/76 (53%), Positives = 50/76 (65%)

Query: 35  CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISR 94
           C AC K VYP+E++  D  +FH +CF C  C T L + SY   +G  YC PHF+QLF S+
Sbjct: 41  CAACQKTVYPMERLVADKLIFHNSCFCCKHCHTKLSLGSYAAMHGEFYCRPHFQQLFKSK 100

Query: 95  GNYDEGFGSDQHKRKW 110
           GNYDEGFG  QHK  W
Sbjct: 101 GNYDEGFGRKQHKELW 116

Mus musculus (taxid: 10090)

>sp|Q4KM31|LIMD2_RAT LIM domain-containing protein 2 OS=Rattus norvegicus GN=Limd2 PE=2 SV=1

 Score = 95.5 bits (236), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 41/76 (53%), Positives = 50/76 (65%)

Query: 35  CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISR 94
           C AC K VYP+E++  D  +FH +CF C  C T L + SY   +G  YC PHF+QLF S+
Sbjct: 41  CAACQKTVYPMERLVADKLIFHNSCFCCKHCHTKLSLGSYAAMHGEFYCKPHFQQLFKSK 100

Query: 95  GNYDEGFGSDQHKRKW 110
           GNYDEGFG  QHK  W
Sbjct: 101 GNYDEGFGRKQHKELW 116

Rattus norvegicus (taxid: 10116)

>sp|Q1LZA7|LIMD2_BOVIN LIM domain-containing protein 2 OS=Bos taurus GN=LIMD2 PE=2 SV=1

 Score = 95.1 bits (235), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 41/76 (53%), Positives = 50/76 (65%)

Query: 35  CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISR 94
           C AC K VYP+E++  D  +FH +CF C  C T L + SY   +G  YC PHF+QLF S+
Sbjct: 41  CAACQKTVYPMERLVADKLIFHSSCFCCKHCHTKLSLGSYAALHGEFYCKPHFQQLFKSK 100

Query: 95  GNYDEGFGSDQHKRKW 110
           GNYDEGFG  QHK  W
Sbjct: 101 GNYDEGFGRKQHKELW 116

Bos taurus (taxid: 9913)

>sp|Q9BT23|LIMD2_HUMAN LIM domain-containing protein 2 OS=Homo sapiens GN=LIMD2 PE=1 SV=1

 Score = 94.7 bits (234), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 41/76 (53%), Positives = 50/76 (65%)

Query: 35  CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISR 94
           C AC K VYP+E++  D  +FH +CF C  C T L + SY   +G  YC PHF+QLF S+
Sbjct: 40  CAACQKTVYPMERLVADKLIFHNSCFCCKHCHTKLSLGSYAALHGEFYCKPHFQQLFKSK 99

Query: 95  GNYDEGFGSDQHKRKW 110
           GNYDEGFG  QHK  W
Sbjct: 100 GNYDEGFGRKQHKELW 115

Homo sapiens (taxid: 9606)

>sp|Q9ERG0|LIMA1_MOUSE LIM domain and actin-binding protein 1 OS=Mus musculus GN=Lima1 PE=1 SV=3

 Score = 93.6 bits (231), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 38/76 (50%), Positives = 51/76 (67%)

Query: 35  CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISR 94
           C  C K VYP+E++  + ++FH +CFRC+ C   L + +Y   +G +YC PHF QLF S+
Sbjct: 388 CVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSK 447

Query: 95  GNYDEGFGSDQHKRKW 110
           GNYDEGFG  QHK  W
Sbjct: 448 GNYDEGFGHKQHKDLW 463

Binds to actin monomers and filaments. Increases the number and size of actin stress fibers and inhibits membrane ruffling. Inhibits actin filament depolymerization. Bundles actin filaments, delays filament nucleation and reduces formation of branched filaments.

Mus musculus (taxid: 10090)

>sp|Q9UHB6|LIMA1_HUMAN LIM domain and actin-binding protein 1 OS=Homo sapiens GN=LIMA1 PE=1 SV=1

 Score = 92.0 bits (227), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 39/90 (43%), Positives = 53/90 (58%)

Query: 21  PEAPSNGTGNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGH 80
           P+A           C  C K VYP+E++  + ++FH +CFRC+ C   L + +Y   +G 
Sbjct: 376 PKAMKKFQAPARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGR 435

Query: 81  LYCLPHFKQLFISRGNYDEGFGSDQHKRKW 110
           +YC PHF QLF S+GNYDEGFG   HK  W
Sbjct: 436 IYCKPHFNQLFKSKGNYDEGFGHRPHKDLW 465

Binds to actin monomers and filaments. Increases the number and size of actin stress fibers and inhibits membrane ruffling. Inhibits actin filament depolymerization. Bundles actin filaments, delays filament nucleation and reduces formation of branched filaments.

Homo sapiens (taxid: 9606)

>sp|B0KYV5|LIMA1_PIG LIM domain and actin-binding protein 1 OS=Sus scrofa GN=LIMA1 PE=2 SV=1

 Score = 90.9 bits (224), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 37/76 (48%), Positives = 50/76 (65%)

Query: 35  CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISR 94
           C  C K VYP+E++  + ++FH +CFRC+ C   L + +Y   +G +YC PHF QLF S+
Sbjct: 386 CVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSK 445

Query: 95  GNYDEGFGSDQHKRKW 110
           GNYDEGFG   HK  W
Sbjct: 446 GNYDEGFGHRPHKDLW 461

Binds to actin monomers and filaments. Increases the number and size of actin stress fibers and inhibits membrane ruffling. Inhibits actin filament depolymerization. Bundles actin filaments, delays filament nucleation and reduces formation of branched filaments.

Sus scrofa (taxid: 9823)

>sp|F1QH17|MCA3A_DANRE Protein-methionine sulfoxide oxidase mical3a OS=Danio rerio GN=mical3a PE=2 SV=2

 Score = 73.6 bits (179), Expect = 4e-13,   Method: Composition-based stats.
 Identities = 31/68 (45%), Positives = 43/68 (63%), Gaps = 4/68 (5%)

Query: 22  EAPSNGTGNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMN--NG 79
           E P N  G  S +CF C K+VY +E++  +GK FHR+CF+C  C T LR+ SY  +  +G
Sbjct: 763 EFPQNIGG--SDVCFFCRKRVYVMERLSAEGKFFHRSCFKCDYCGTTLRLSSYAFDVEDG 820

Query: 80  HLYCLPHF 87
             YC PH+
Sbjct: 821 KFYCKPHY 828

Monooxygenase that promotes depolymerization of F-actin by mediating oxidation of specific methionine residues on actin. Acts by modifying actin subunits through the addition of oxygen to form methionine-sulfoxide, leading to promote actin filament severing and prevent repolymerization. Involved in exocytic vesicles tethering and fusion: the monooxygenase activity is required for this process.

Danio rerio (taxid: 7955)

EC: 1

EC: .

EC: 1

EC: 4

EC: .

EC: 1

EC: 3

EC: .

EC: -

>sp|G3MWR8|MICA3_BOVIN Protein-methionine sulfoxide oxidase MICAL3 OS=Bos taurus GN=MICAL3 PE=3 SV=1

 Score = 72.4 bits (176), Expect = 7e-13,   Method: Composition-based stats.
 Identities = 29/70 (41%), Positives = 43/70 (61%), Gaps = 4/70 (5%)

Query: 20  QPEAPSNGTGNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRME--SYTMN 77
           + E P N  G  S  C+ C K+VY +E++  +GK FHR+CF+C  C T LR+   +Y + 
Sbjct: 751 KKEFPQNLGG--SDTCYFCQKRVYVMERLSAEGKFFHRSCFKCEHCATTLRLSAYAYALE 808

Query: 78  NGHLYCLPHF 87
           +G  YC PH+
Sbjct: 809 DGKFYCKPHY 818

Monooxygenase that promotes depolymerization of F-actin by mediating oxidation of specific methionine residues on actin. Acts by modifying actin subunits through the addition of oxygen to form methionine-sulfoxide, leading to promote actin filament severing and prevent repolymerization. Involved in exocytic vesicles tethering and fusion: the monooxygenase activity is required for this process.

Bos taurus (taxid: 9913)

EC: 1

EC: .

EC: 1

EC: 4

EC: .

EC: 1

EC: 3

EC: .

EC: -

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	117
328720278	1024	PREDICTED: hypothetical protein LOC10016	0.589	0.067	0.708	8e-32
328720276	1000	PREDICTED: hypothetical protein LOC10016	0.589	0.069	0.708	8e-32
328720274	1112	PREDICTED: hypothetical protein LOC10016	0.589	0.062	0.708	9e-32
307196731	1522	LIM domain and actin-binding protein 1 [	0.700	0.053	0.654	4e-31
307187333	1479	LIM domain and actin-binding protein 1 [	0.735	0.058	0.639	5e-31
332027459	1516	LIM domain and actin-binding protein 1 [	0.675	0.052	0.683	6e-31
340725866	1486	PREDICTED: hypothetical protein LOC10064	0.658	0.051	0.683	1e-30
350397017	1498	PREDICTED: hypothetical protein LOC10074	0.658	0.051	0.683	1e-30
383851826	1459	PREDICTED: uncharacterized protein LOC10	0.658	0.052	0.683	1e-30
328783606	1501	PREDICTED: hypothetical protein LOC40966	0.658	0.051	0.683	2e-30

>gi|328720278|ref|XP_003246991.1| PREDICTED: hypothetical protein LOC100161216 isoform 3 [Acyrthosiphon pisum]

 Score =  140 bits (354), Expect = 8e-32,   Method: Composition-based stats.
 Identities = 56/79 (70%), Positives = 69/79 (87%)

Query: 33   SLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFI 92
            +LC +C KKVYPLEK+E +G+ FHR+CFRCTQC  VLRM+++T NN  LYCLPHFK+LFI
Sbjct: 923  TLCESCEKKVYPLEKVEIEGRPFHRSCFRCTQCQCVLRMDTFTWNNNRLYCLPHFKRLFI 982

Query: 93   SRGNYDEGFGSDQHKRKWQ 111
            S+GNYDEGFG DQHK+KW+
Sbjct: 983  SKGNYDEGFGGDQHKKKWE 1001

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328720276|ref|XP_003246990.1| PREDICTED: hypothetical protein LOC100161216 isoform 2 [Acyrthosiphon pisum]

 Score =  140 bits (354), Expect = 8e-32,   Method: Composition-based stats.
 Identities = 56/79 (70%), Positives = 69/79 (87%)

Query: 33  SLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFI 92
           +LC +C KKVYPLEK+E +G+ FHR+CFRCTQC  VLRM+++T NN  LYCLPHFK+LFI
Sbjct: 899 TLCESCEKKVYPLEKVEIEGRPFHRSCFRCTQCQCVLRMDTFTWNNNRLYCLPHFKRLFI 958

Query: 93  SRGNYDEGFGSDQHKRKWQ 111
           S+GNYDEGFG DQHK+KW+
Sbjct: 959 SKGNYDEGFGGDQHKKKWE 977

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328720274|ref|XP_001947503.2| PREDICTED: hypothetical protein LOC100161216 isoform 1 [Acyrthosiphon pisum]

 Score =  140 bits (353), Expect = 9e-32,   Method: Composition-based stats.
 Identities = 56/79 (70%), Positives = 69/79 (87%)

Query: 33   SLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFI 92
            +LC +C KKVYPLEK+E +G+ FHR+CFRCTQC  VLRM+++T NN  LYCLPHFK+LFI
Sbjct: 1011 TLCESCEKKVYPLEKVEIEGRPFHRSCFRCTQCQCVLRMDTFTWNNNRLYCLPHFKRLFI 1070

Query: 93   SRGNYDEGFGSDQHKRKWQ 111
            S+GNYDEGFG DQHK+KW+
Sbjct: 1071 SKGNYDEGFGGDQHKKKWE 1089

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307196731|gb|EFN78190.1| LIM domain and actin-binding protein 1 [Harpegnathos saltator]

 Score =  138 bits (347), Expect = 4e-31,   Method: Composition-based stats.
 Identities = 55/84 (65%), Positives = 68/84 (80%)

Query: 34   LCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFIS 93
            +C +C KKVYPLEK+ET+ K+FH+ CFRC QC  +LRM+S+T+NNG LYC+PHFKQLFI+
Sbjct: 1425 VCESCQKKVYPLEKVETNNKIFHKQCFRCLQCNCILRMDSFTLNNGKLYCIPHFKQLFIT 1484

Query: 94   RGNYDEGFGSDQHKRKWQPVATAN 117
            RGNYDEGFG D HK KW    + N
Sbjct: 1485 RGNYDEGFGVDPHKNKWAATNSNN 1508

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307187333|gb|EFN72461.1| LIM domain and actin-binding protein 1 [Camponotus floridanus]

 Score =  138 bits (347), Expect = 5e-31,   Method: Composition-based stats.
 Identities = 55/86 (63%), Positives = 69/86 (80%)

Query: 32   SSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF 91
            + +C +C KKVYPLEK+ET+ K+FH+ CFRC QC  +LRM+S+T+NNG LYC+PHFKQLF
Sbjct: 1380 TDVCESCQKKVYPLEKVETNNKIFHKQCFRCLQCNCILRMDSFTLNNGKLYCIPHFKQLF 1439

Query: 92   ISRGNYDEGFGSDQHKRKWQPVATAN 117
            I+RGNYDEGFG D HK KW    + N
Sbjct: 1440 ITRGNYDEGFGVDPHKNKWATTNSNN 1465

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332027459|gb|EGI67542.1| LIM domain and actin-binding protein 1 [Acromyrmex echinatior]

 Score =  137 bits (346), Expect = 6e-31,   Method: Composition-based stats.
 Identities = 54/79 (68%), Positives = 67/79 (84%)

Query: 32   SSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF 91
            + +C +C KKVYPLEK+ET+ K+FH+ CFRC QC  +LRM+S+T+NNG LYC+PHFKQLF
Sbjct: 1417 TEVCESCEKKVYPLEKVETNNKIFHKQCFRCLQCNCILRMDSFTLNNGKLYCIPHFKQLF 1476

Query: 92   ISRGNYDEGFGSDQHKRKW 110
            I+RGNYDEGFG D HK KW
Sbjct: 1477 ITRGNYDEGFGVDPHKNKW 1495

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340725866|ref|XP_003401286.1| PREDICTED: hypothetical protein LOC100649516 [Bombus terrestris]

 Score =  137 bits (344), Expect = 1e-30,   Method: Composition-based stats.
 Identities = 54/79 (68%), Positives = 67/79 (84%)

Query: 32   SSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF 91
            + +C +C KKVYPLEK+ET+ K+FH+ CFRC QC  VLRM+++T+NNG LYC+PHFKQLF
Sbjct: 1388 TDVCESCEKKVYPLEKVETNNKIFHKQCFRCQQCNCVLRMDTFTLNNGKLYCIPHFKQLF 1447

Query: 92   ISRGNYDEGFGSDQHKRKW 110
            I+RGNYDEGFG D HK KW
Sbjct: 1448 ITRGNYDEGFGVDPHKNKW 1466

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350397017|ref|XP_003484741.1| PREDICTED: hypothetical protein LOC100742929 [Bombus impatiens]

 Score =  136 bits (343), Expect = 1e-30,   Method: Composition-based stats.
 Identities = 54/79 (68%), Positives = 67/79 (84%)

Query: 32   SSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF 91
            + +C +C KKVYPLEK+ET+ K+FH+ CFRC QC  VLRM+++T+NNG LYC+PHFKQLF
Sbjct: 1400 TDVCESCEKKVYPLEKVETNNKIFHKQCFRCQQCNCVLRMDTFTLNNGKLYCIPHFKQLF 1459

Query: 92   ISRGNYDEGFGSDQHKRKW 110
            I+RGNYDEGFG D HK KW
Sbjct: 1460 ITRGNYDEGFGVDPHKNKW 1478

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383851826|ref|XP_003701432.1| PREDICTED: uncharacterized protein LOC100877689 [Megachile rotundata]

 Score =  136 bits (343), Expect = 1e-30,   Method: Composition-based stats.
 Identities = 54/79 (68%), Positives = 67/79 (84%)

Query: 32   SSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF 91
            + +C +C KKVYPLEK+ET+ K+FH+ CFRC QC  VLRM+++T+NNG LYC+PHFKQLF
Sbjct: 1361 TDVCESCEKKVYPLEKVETNNKIFHKQCFRCQQCNCVLRMDTFTLNNGKLYCIPHFKQLF 1420

Query: 92   ISRGNYDEGFGSDQHKRKW 110
            I+RGNYDEGFG D HK KW
Sbjct: 1421 ITRGNYDEGFGVDPHKNKW 1439

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328783606|ref|XP_393163.4| PREDICTED: hypothetical protein LOC409665 [Apis mellifera]

 Score =  136 bits (342), Expect = 2e-30,   Method: Composition-based stats.
 Identities = 54/79 (68%), Positives = 67/79 (84%)

Query: 32   SSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF 91
            + +C +C KKVYPLEK+ET+ K+FH+ CFRC QC  VLRM+++T+NNG LYC+PHFKQLF
Sbjct: 1403 ADVCESCEKKVYPLEKVETNNKIFHKQCFRCLQCNCVLRMDTFTLNNGKLYCIPHFKQLF 1462

Query: 92   ISRGNYDEGFGSDQHKRKW 110
            I+RGNYDEGFG D HK KW
Sbjct: 1463 ITRGNYDEGFGVDPHKNKW 1481

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	117
UNIPROTKB|F1NSM0	688	F1NSM0 "Uncharacterized protei	0.692	0.117	0.493	1.6e-21
MGI|MGI:1915053	128	Limd2 "LIM domain containing 2	0.649	0.593	0.539	1e-20
RGD|1309967	128	Limd2 "LIM domain containing 2	0.649	0.593	0.539	1e-20
UNIPROTKB|E2RGH6	128	LIMD2 "Uncharacterized protein	0.649	0.593	0.539	1.3e-20
UNIPROTKB|Q9BT23	127	LIMD2 "LIM domain-containing p	0.649	0.598	0.539	1.3e-20
UNIPROTKB|F1RSI5	128	LIMD2 "Uncharacterized protein	0.649	0.593	0.539	1.3e-20
UNIPROTKB|Q1LZA7	128	LIMD2 "LIM domain-containing p	0.649	0.593	0.539	1.7e-20
UNIPROTKB|E1C059	128	LIMD2 "Uncharacterized protein	0.658	0.601	0.519	4.4e-20
UNIPROTKB|F1NLB6	146	LIMD2 "Uncharacterized protein	0.658	0.527	0.519	4.4e-20
DICTYBASE|DDB_G0290575	472	DDB_G0290575 "LIM-type zinc fi	0.743	0.184	0.494	5.6e-20

UNIPROTKB|F1NSM0 F1NSM0 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 253 (94.1 bits), Expect = 1.6e-21, Sum P(2) = 1.6e-21
 Identities = 40/81 (49%), Positives = 57/81 (70%)

Query:    32 SSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF 91
             + +C  C ++VYP+E++  D + FH++CFRC  C + L + +Y   +G +YC PHFKQLF
Sbjct:   214 NEICTLCQQRVYPMERLVADKQSFHKSCFRCHHCGSQLSLGNYASLHGQIYCKPHFKQLF 273

Query:    92 ISRGNYDEGFGSDQHKRKWQP 112
              S+GNYDEGFG  QHK  W+P
Sbjct:   274 KSKGNYDEGFGHKQHKDLWKP 294

GO:0008270 "zinc ion binding" evidence=IEA

MGI|MGI:1915053 Limd2 "LIM domain containing 2" [Mus musculus (taxid:10090)]

 Score = 244 (91.0 bits), Expect = 1.0e-20, P = 1.0e-20
 Identities = 41/76 (53%), Positives = 50/76 (65%)

Query:    35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISR 94
             C AC K VYP+E++  D  +FH +CF C  C T L + SY   +G  YC PHF+QLF S+
Sbjct:    41 CAACQKTVYPMERLVADKLIFHNSCFCCKHCHTKLSLGSYAAMHGEFYCRPHFQQLFKSK 100

Query:    95 GNYDEGFGSDQHKRKW 110
             GNYDEGFG  QHK  W
Sbjct:   101 GNYDEGFGRKQHKELW 116

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

RGD|1309967 Limd2 "LIM domain containing 2" [Rattus norvegicus (taxid:10116)]

 Score = 244 (91.0 bits), Expect = 1.0e-20, P = 1.0e-20
 Identities = 41/76 (53%), Positives = 50/76 (65%)

Query:    35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISR 94
             C AC K VYP+E++  D  +FH +CF C  C T L + SY   +G  YC PHF+QLF S+
Sbjct:    41 CAACQKTVYPMERLVADKLIFHNSCFCCKHCHTKLSLGSYAAMHGEFYCKPHFQQLFKSK 100

Query:    95 GNYDEGFGSDQHKRKW 110
             GNYDEGFG  QHK  W
Sbjct:   101 GNYDEGFGRKQHKELW 116

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|E2RGH6 LIMD2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 243 (90.6 bits), Expect = 1.3e-20, P = 1.3e-20
 Identities = 41/76 (53%), Positives = 50/76 (65%)

Query:    35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISR 94
             C AC K VYP+E++  D  +FH +CF C  C T L + SY   +G  YC PHF+QLF S+
Sbjct:    41 CAACQKTVYPMERLVADKLIFHNSCFCCKHCHTKLSLGSYAALHGEFYCKPHFQQLFKSK 100

Query:    95 GNYDEGFGSDQHKRKW 110
             GNYDEGFG  QHK  W
Sbjct:   101 GNYDEGFGRKQHKELW 116

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q9BT23 LIMD2 "LIM domain-containing protein 2" [Homo sapiens (taxid:9606)]

 Score = 243 (90.6 bits), Expect = 1.3e-20, P = 1.3e-20
 Identities = 41/76 (53%), Positives = 50/76 (65%)

Query:    35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISR 94
             C AC K VYP+E++  D  +FH +CF C  C T L + SY   +G  YC PHF+QLF S+
Sbjct:    40 CAACQKTVYPMERLVADKLIFHNSCFCCKHCHTKLSLGSYAALHGEFYCKPHFQQLFKSK 99

Query:    95 GNYDEGFGSDQHKRKW 110
             GNYDEGFG  QHK  W
Sbjct:   100 GNYDEGFGRKQHKELW 115

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1RSI5 LIMD2 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 243 (90.6 bits), Expect = 1.3e-20, P = 1.3e-20
 Identities = 41/76 (53%), Positives = 50/76 (65%)

Query:    35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISR 94
             C AC K VYP+E++  D  +FH +CF C  C T L + SY   +G  YC PHF+QLF S+
Sbjct:    41 CTACQKTVYPMERLVADKLIFHNSCFCCKHCHTKLSLGSYAALHGEFYCKPHFQQLFKSK 100

Query:    95 GNYDEGFGSDQHKRKW 110
             GNYDEGFG  QHK  W
Sbjct:   101 GNYDEGFGRKQHKELW 116

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q1LZA7 LIMD2 "LIM domain-containing protein 2" [Bos taurus (taxid:9913)]

 Score = 242 (90.2 bits), Expect = 1.7e-20, P = 1.7e-20
 Identities = 41/76 (53%), Positives = 50/76 (65%)

Query:    35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISR 94
             C AC K VYP+E++  D  +FH +CF C  C T L + SY   +G  YC PHF+QLF S+
Sbjct:    41 CAACQKTVYPMERLVADKLIFHSSCFCCKHCHTKLSLGSYAALHGEFYCKPHFQQLFKSK 100

Query:    95 GNYDEGFGSDQHKRKW 110
             GNYDEGFG  QHK  W
Sbjct:   101 GNYDEGFGRKQHKELW 116

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|E1C059 LIMD2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 238 (88.8 bits), Expect = 4.4e-20, P = 4.4e-20
 Identities = 40/77 (51%), Positives = 50/77 (64%)

Query:    34 LCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFIS 93
             +C AC K VYP+E++  D  +FH +CF C  C   L + SY   +G  YC PHF+QLF S
Sbjct:    40 MCTACQKTVYPMERLVADKFVFHNSCFCCKHCHAKLSLGSYAALHGEFYCKPHFQQLFKS 99

Query:    94 RGNYDEGFGSDQHKRKW 110
             +GNYDEGFG  QHK  W
Sbjct:   100 KGNYDEGFGRKQHKELW 116

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1NLB6 LIMD2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 238 (88.8 bits), Expect = 4.4e-20, P = 4.4e-20
 Identities = 40/77 (51%), Positives = 50/77 (64%)

Query:    34 LCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFIS 93
             +C AC K VYP+E++  D  +FH +CF C  C   L + SY   +G  YC PHF+QLF S
Sbjct:    40 MCTACQKTVYPMERLVADKFVFHNSCFCCKHCHAKLSLGSYAALHGEFYCKPHFQQLFKS 99

Query:    94 RGNYDEGFGSDQHKRKW 110
             +GNYDEGFG  QHK  W
Sbjct:   100 KGNYDEGFGRKQHKELW 116

GO:0008270 "zinc ion binding" evidence=IEA

DICTYBASE|DDB_G0290575 DDB_G0290575 "LIM-type zinc finger-containing protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 243 (90.6 bits), Expect = 5.6e-20, P = 5.6e-20
 Identities = 45/91 (49%), Positives = 53/91 (58%)

Query:    29 GNPSSLCFACNKKVYPLEKI----ETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCL 84
             G     C AC K VY  EKI    + D K FH+ C +CT C   L + +Y   NG  YC 
Sbjct:     5 GGTQEKCTACAKTVYLTEKIVVEDKEDKKTFHKLCLKCTHCKLTLSLGNYASLNGVFYCK 64

Query:    85 PHFKQLFISRGNYDEGFGSDQHKRKWQPVAT 115
             PHFKQLF ++GNYDEGFG  +H  KW P AT
Sbjct:    65 PHFKQLFATKGNYDEGFGKSKHSEKWTPQAT 95

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0046872 "metal ion binding" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q4KM31	LIMD2_RAT	No assigned EC number	0.5394	0.6495	0.5937	yes	N/A
Q4U4S6	XIRP2_MOUSE	No assigned EC number	0.5194	0.6581	0.0203	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	117
cd09358	53	cd09358, LIM_Mical_like, The LIM domain of Mical (	5e-23
cd09440	63	cd09440, LIM1_SF3, The first Lim domain of pollen	6e-19
cd09441	61	cd09441, LIM2_SF3, The second Lim domain of pollen	2e-17
cd09439	55	cd09439, LIM_Mical, The LIM domain of Mical (molec	3e-15
cd09445	53	cd09445, LIM_Mical_like_2, This domain belongs to	2e-14
cd09442	53	cd09442, LIM_Eplin_like, The Lim domain of Epithel	5e-13
cd09443	55	cd09443, LIM_Ltd-1, The LIM domain of LIM and tran	1e-12
cd09485	53	cd09485, LIM_Eplin_alpha_beta, The Lim domain of E	2e-12
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	5e-12
cd09486	53	cd09486, LIM_Eplin_like_1, a LIM domain subfamily	4e-11
pfam00412	58	pfam00412, LIM, LIM domain	6e-10
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	6e-10
cd09447	53	cd09447, LIM_LASP, The LIM domain of LIM and SH3 P	7e-10
cd09444	55	cd09444, LIM_Mical_like_1, This domain belongs to	2e-09
cd09326	53	cd09326, LIM_CRP_like, The LIM domains of Cysteine	3e-08
cd09403	54	cd09403, LIM2_CRP, The second LIM domain of Cystei	8e-08
cd09840	54	cd09840, LIM2_CRP2, The second LIM domain of Cyste	2e-07
cd09482	54	cd09482, LIM2_CRP3, The second LIM domain of Cyste	2e-07
cd09400	61	cd09400, LIM_like_1, LIM domain in proteins of unk	4e-07
cd09359	53	cd09359, LIM_LASP_like, The LIM domain of LIM and	1e-06
cd09480	55	cd09480, LIM1_CRP2, The first LIM domain of Cystei	2e-06
cd09401	53	cd09401, LIM_TLP_like, The LIM domains of thymus L	2e-06
cd09402	53	cd09402, LIM1_CRP, The first LIM domain of Cystein	4e-06
cd09427	58	cd09427, LIM2_FHL3, The second LIM domain of Four	5e-06
cd09481	54	cd09481, LIM1_CRP3, The first LIM domain of Cystei	1e-05
cd09478	54	cd09478, LIM_CRIP, The LIM domain of Cysteine-Rich	2e-05
cd09446	53	cd09446, LIM_N_RAP, The LIM domain of N-RAP	2e-05
cd09404	54	cd09404, LIM1_MLP84B_like, The LIM domain of Mlp84	3e-05
cd09476	54	cd09476, LIM1_TLP, The first LIM domain of thymus	6e-05
cd09477	54	cd09477, LIM2_TLP, The second LIM domain of thymus	6e-05
cd09479	56	cd09479, LIM1_CRP1, The first LIM domain of Cystei	9e-05
cd09424	58	cd09424, LIM2_FHL1, The second LIM domain of Four	2e-04
cd09461	54	cd09461, LIM3_Enigma_like_1, The third LIM domain	5e-04
cd09418	56	cd09418, LIM2_Prickle, The second LIM domain of Pr	6e-04
cd09414	58	cd09414, LIM1_LIMPETin, The first LIM domain of pr	7e-04
cd09345	54	cd09345, LIM2_FHL, The second LIM domain of Four a	7e-04
cd09413	58	cd09413, LIM1_Testin, The first LIM domain of Test	7e-04
cd09352	54	cd09352, LIM1_Ajuba_like, The first LIM domain of	8e-04
cd09364	53	cd09364, LIM1_LIMK, The first LIM domain of LIMK (	0.001
cd09377	59	cd09377, LIM2_Lhx2_Lhx9, The second LIM domain of	0.001
cd09327	52	cd09327, LIM1_abLIM, The first LIM domain of actin	0.001
cd09341	56	cd09341, LIM2_Testin_like, The second LIM domain o	0.002
cd09426	57	cd09426, LIM2_FHL2, The second LIM domain of Four	0.003
cd09462	74	cd09462, LIM1_LIMK1, The first LIM domain of LIMK1	0.003

>gnl|CDD|188744 cd09358, LIM_Mical_like, The LIM domain of Mical (molecule interacting with CasL) like family

 Score = 83.9 bits (208), Expect = 5e-23
 Identities = 28/53 (52%), Positives = 36/53 (67%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHF 87
          C  C K VYP+E++  DGKLFH++CFRC+ C   LR+ +Y    G LYC PHF
Sbjct: 1  CAVCGKTVYPMERLVADGKLFHKSCFRCSHCNKTLRLGNYASLEGKLYCKPHF 53

The LIM domain of Mical (molecule interacting with CasL) like family: Known members of this family includes LIM domain containing proteins; Mical (molecule interacting with CasL), pollen specific protein SF3, Eplin, xin actin-binding repeat-containing protein 2 (XIRP2) and Ltd-1. The members of this family function mainly at the cytoskeleton and focal adhesions. They interact with transcription factors or other signaling molecules to play roles in muscle development, neuronal differentiation, cell growth and mobility. Eplin has also found to be tumor suppressor. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs.. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 53

>gnl|CDD|188824 cd09440, LIM1_SF3, The first Lim domain of pollen specific protein SF3

 Score = 74.0 bits (182), Expect = 6e-19
 Identities = 26/57 (45%), Positives = 41/57 (71%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF 91
          C AC+K VY ++++  DG ++H++CFRC+ C   L++ +Y+   G LYC PHF+QLF
Sbjct: 5  CKACDKTVYLVDQLSADGVVYHKSCFRCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 61

The first Lim domain of pollen specific protein SF3: SF3 is a Lim protein that is found exclusively in mature plant pollen grains. It contains two LIM domains. The exact function of SF3 is unknown. It may be a transcription factor required for the expression of late pollen genes. It is possible that SF3 protein is involved in controlling pollen-specific processes such as male gamete maturation, pollen tube formation, or even fertilization. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 63

>gnl|CDD|188825 cd09441, LIM2_SF3, The second Lim domain of pollen specific protein SF3

 Score = 69.8 bits (171), Expect = 2e-17
 Identities = 24/61 (39%), Positives = 36/61 (59%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISR 94
          C AC K VYP+EK+  +G  +H++CF+C+     +   +Y  + G LYC  H  QLF  +
Sbjct: 1  CVACGKTVYPIEKVTVEGTSYHKSCFKCSHGGCTISPSNYAAHEGRLYCKHHHSQLFKEK 60

Query: 95 G 95
          G
Sbjct: 61 G 61

The second Lim domain of pollen specific protein SF3: SF3 is a Lim protein that is found exclusively in mature plant pollen grains. It contains two LIM domains. The exact function of SF3 is unknown. It may be a transcription factor required for the expression of late pollen genes. It is possible that SF3 protein is involved in controlling pollen-specific processes such as male gamete maturation, pollen tube formation, or even fertilization. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 61

>gnl|CDD|188823 cd09439, LIM_Mical, The LIM domain of Mical (molecule interacting with CasL)

 Score = 64.2 bits (157), Expect = 3e-15
 Identities = 24/55 (43%), Positives = 37/55 (67%), Gaps = 2/55 (3%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMN--NGHLYCLPHF 87
          C+ C K+VY +E++  +G  FHR+CF+C+ C T LR+ +Y  +  +G  YC PHF
Sbjct: 1  CYFCKKRVYVMERLSAEGLFFHRSCFKCSYCGTTLRLGAYAFDRDDGKFYCKPHF 55

The LIM domain of Mical (molecule interacting with CasL): MICAL is a large, multidomain, cytosolic protein with a single LIM domain, a calponin homology (CH) domain and a flavoprotein monooxygenase domain. In Drosophila, MICAL is expressed in axons, interacts with the neuronal A (PlexA) receptor and is required for Semapho-rin 1a (Sema-1a)-PlexA-mediated repulsive axon guidance. The LIM domain and calporin homology domain are known for interactions with the cytoskeleton, cytoskeletal adaptor proteins, and other signaling proteins. The flavoprotein monooxygenase (MO) is required for semaphorin-plexin repulsive axon guidance during axonal pathfinding in the Drosophila neuromuscular system. In addition, MICAL was characterized to interact with Rab13 and Rab8 to coordinate the assembly of tight junctions and adherens junctions in epithelial cells. Thus, MICAL was also named junctional Rab13-binding protein (JRAB). As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 55

>gnl|CDD|188829 cd09445, LIM_Mical_like_2, This domain belongs to the LIM domain family which are found on Mical (molecule interacting with CasL) like proteins

 Score = 62.1 bits (151), Expect = 2e-14
 Identities = 21/53 (39%), Positives = 34/53 (64%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHF 87
          C +C K VY +E+I  +  ++H+ CFRC  C   L++++Y  + G+LYC  HF
Sbjct: 1  CRSCGKPVYKMEEIIAEKHIYHKNCFRCKDCNKQLKVDNYQSHEGNLYCKVHF 53

The LIM domain on proteins of unknown function: This domain belongs to the LIM domain family which are found on Mical (molecule interacting with CasL)-like proteins. Known members of the Mical-like family includes single LIM domain containing proteins, Mical (molecule interacting with CasL), pollen specific protein SF3, Eplin, xin actin-binding repeat-containing protein 2 (XIRP2), and Ltd-1. The members of this family function mainly at the cytoskeleton and focal adhesions. They interact with transcription factors or other signaling molecules to play roles in muscle development, neuronal differentiation, cell growth, and mobility. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 53

>gnl|CDD|188826 cd09442, LIM_Eplin_like, The Lim domain of Epithelial Protein Lost in Neoplasm (Eplin) like proteins

 Score = 58.3 bits (141), Expect = 5e-13
 Identities = 23/53 (43%), Positives = 35/53 (66%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHF 87
          C  C K+VYP+E++  D + FH++CFRC  C + L + +Y   +G +YC PHF
Sbjct: 1  CTVCQKRVYPMERLIADKQNFHKSCFRCEHCNSKLSLGNYASLHGRIYCKPHF 53

The Lim domain of Epithelial Protein Lost in Neoplasm (Eplin) like proteins: This family contains Epithelial Protein Lost in Neoplasm in Neoplasm (Eplin), xin actin-binding repeat-containing protein 2 (XIRP2) and a group of protein with unknown function. The members of this family all contain a single LIM domain. Epithelial Protein Lost in Neoplasm is a cytoskeleton-associated tumor suppressor whose expression inversely correlates with cell growth, motility, invasion and cancer mortality. Eplin interacts and stabilizes F-actin filaments and stress fibers, which correlates with its ability to suppress anchorage independent growth. In epithelial cells, Eplin is required for formation of the F-actin adhesion belt by binding to the E-cadherin-catenin complex through alpha-catenin. Eplin is expressed in two isoforms, a longer Eplin-beta and a shorter Eplin-alpha. Eplin-alpha mRNA is detected in various tissues and cell lines, but is absent or down regulated in cancer cells. Xirp2 contains a LIM domain and Xin re peats for binding to and stabilising F-actin. Xirp2 is expressed in muscles and is significantly induced in the heart in response to systemic administration of angiotensin II. Xirp2 is an important effector of the Ang II signaling pathway in the heart. The expression of Xirp2 is activated by myocyte enhancer factor (MEF)2A, whose transcriptional activity is stimulated by angiotersin II. Thus, Xirp2 plays important pathological roles in the angiotensin II induced hypertension. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 53

>gnl|CDD|188827 cd09443, LIM_Ltd-1, The LIM domain of LIM and transglutaminase domains protein (Ltd-1)

 Score = 57.8 bits (140), Expect = 1e-12
 Identities = 20/54 (37%), Positives = 32/54 (59%), Gaps = 2/54 (3%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTM--NNGHLYCLPH 86
          C  C K  YP E ++ DG  +H+ CF+C +C T L ++++T    +G +YC  H
Sbjct: 1  CPRCGKTAYPAESVDKDGTFYHKGCFKCRECGTRLSLKTFTFVQGDGEVYCARH 54

The LIM domain of LIM and transglutaminase domains protein (Ltd-1): This family includes mouse Ky protein and Caenorhabditis elegans Ltd-1 protein. The members of this family consists a N-terminal Lim domain and a C-terminal transglutaminase domain. The mouse Ky protein has putative function in muscle development. The mouse with ky mutant exhibits combined posterior and lateral curvature of the spine. The Ltd-1 gene in C. elegans is expressed in developing hypodermal cells from the twofold stage embryo through adulthood. These data define the ltd-1 gene as a novel marker for C. elegans epithelial cell development. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 55

>gnl|CDD|188869 cd09485, LIM_Eplin_alpha_beta, The Lim domain of Epithelial Protein Lost in Neoplasm (Eplin)

 Score = 57.2 bits (138), Expect = 2e-12
 Identities = 23/53 (43%), Positives = 37/53 (69%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHF 87
          C +C K VYPLE++  + +++H +CFRC+ C T L + +Y   +G++YC PHF
Sbjct: 1  CVSCQKTVYPLERLVANQQIYHNSCFRCSYCNTKLSLGTYASLHGNIYCKPHF 53

The Lim domain of Epithelial Protein Lost in Neoplasm (Eplin): Epithelial Protein Lost in Neoplasm is a cytoskeleton-associated tumor suppressor whose expression inversely correlates with cell growth, motility, invasion and cancer mortality. Eplin interacts and stabilizes F-actin filaments and stress fibers, which correlates with its ability to suppress anchorage independent growth. In epithelial cells, Eplin is required for formation of the F-actin adhesion belt by binding to the E-cadherin-catenin complex through alpha-catenin. Eplin is expressed in two isoforms, a longer Eplin-beta and a shorter Eplin-alpha. Eplin-alpha mRNA is detected in various tissues and cell lines, but is absent or down regulated in cancer cells. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 53

>gnl|CDD|188711 cd08368, LIM, LIM is a small protein-protein interaction domain, containing two zinc fingers

 Score = 55.8 bits (135), Expect = 5e-12
 Identities = 16/53 (30%), Positives = 25/53 (47%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHF 87
          C  C K +   E +   GK +H  CF+C+ C   L  +S+   +G  YC   +
Sbjct: 1  CAGCGKPIEGRELLRALGKKWHPECFKCSVCGKPLGGDSFYEKDGKPYCEKCY 53

LIM domains are identified in a diverse group of proteins with wide variety of biological functions, including gene expression regulation, cell fate determination, cytoskeleton organization, tumor formation and development. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. They perform their functions through interactions with other protein partners. LIM domains are 50-60 amino acids in size and share two characteristic highly conserved zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. The consensus sequence of LIM domain has been defined as C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16, 21)-C-x(2,3)-[CHD] (where X denotes any amino acid). Length = 53

>gnl|CDD|188870 cd09486, LIM_Eplin_like_1, a LIM domain subfamily on a group of proteins with unknown function

 Score = 53.8 bits (129), Expect = 4e-11
 Identities = 23/53 (43%), Positives = 31/53 (58%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHF 87
          C +C K VYP+E++  D  +FH +CF C  C   L + SY   +G  YC PHF
Sbjct: 1  CSSCQKTVYPMERLVADKLVFHNSCFCCKHCNAKLSLGSYAALHGEFYCKPHF 53

This model represents a LIM domain subfamily of Eplin-like family. This family shows highest homology to the LIM domains on Eplin and XIRP2 protein families. Epithelial Protein Lost in Neoplasm is a cytoskeleton-associated tumor suppressor whose expression inversely correlates with cell growth, motility, invasion and cancer mortality. Xirp2 is expressed in muscles and is an important effector of the Ang II signaling pathway in the heart. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 53

>gnl|CDD|215907 pfam00412, LIM, LIM domain

 Score = 50.8 bits (122), Expect = 6e-10
 Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 1/58 (1%)

Query: 35 CFACNKKVYPLEKIETD-GKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF 91
          C  C K +Y  E +    GK++H  CFRC  C   L    +   +G LYC   + +LF
Sbjct: 1  CAGCGKPIYDRELVRRALGKVWHPECFRCAVCGKPLGPGDFFEKDGKLYCKHDYFKLF 58

This family represents two copies of the LIM structural domain. Length = 58

>gnl|CDD|214528 smart00132, LIM, Zinc-binding domain present in Lin-11, Isl-1, Mec-3

 Score = 50.5 bits (121), Expect = 6e-10
 Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 35 CFACNKKVYPLEKIET-DGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPH 86
          C  C K +Y  E++    GK++H  CF+C  C   L  +++   +G LYC   
Sbjct: 2  CAGCGKPIYGTERVLRALGKVWHPECFKCATCGKPLSGDTFFEKDGKLYCKDC 54

Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways. Length = 54

>gnl|CDD|188831 cd09447, LIM_LASP, The LIM domain of LIM and SH3 Protein (LASP)

 Score = 50.5 bits (121), Expect = 7e-10
 Identities = 21/53 (39%), Positives = 29/53 (54%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHF 87
          C  C K VYP EK+    K++H+ CF+C  C   L M++Y   N   YC  H+
Sbjct: 1  CARCGKTVYPTEKLNCLDKIWHKGCFKCEVCGMTLNMKNYKGYNKKPYCNAHY 53

The LIM domain of LIM and SH3 Protein (LASP): LASP family contains two highly homologous members, LASP-1 and LASP-2. LASP contains a LIM motif at its amino terminus, a src homology 3 (SH3) domains at its C-terminal part, and a nebulin-like region in the middle. LASP-1 and -2 are highly conserved in their LIM, nebulin-like, and SH3 domains ,but differ significantly at their linker regions. Both proteins are ubiquitously expressed and involved in cytoskeletal architecture, especially in the organization of focal adhesions. LASP-1 and LASP-2, are important during early embryo- and fetogenesis and are highly expressed in the central nervous system of the adult. However, only LASP-1 seems to participate significantly in neuronal differentiation and plays an important functional role in migration and proliferation of certain cancer cells while the role of LASP-2 is more structural. The expression of LASP-1 in breast tumors is increased significantly. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 53

>gnl|CDD|188828 cd09444, LIM_Mical_like_1, This domain belongs to the LIM domain family which are found on Mical (molecule interacting with CasL) like proteins

 Score = 49.3 bits (118), Expect = 2e-09
 Identities = 21/55 (38%), Positives = 29/55 (52%), Gaps = 2/55 (3%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESY--TMNNGHLYCLPHF 87
          C AC + V+ +++   DGKL+HR CFRC +C + L   SY      G   C  H 
Sbjct: 1  CAACGQHVHLVQRHLVDGKLYHRNCFRCKECSSTLLPGSYKAGPEPGTFVCTHHH 55

The LIM domain on proteins of unknown function: This domain belongs to the LIM domain family which are found on Mical (molecule interacting with CasL) like proteins. Known members of the Mical-like family includes single LIM domain containing proteins, Mical (molecule interacting with CasL), pollen specific protein SF3, Eplin, xin actin-binding repeat-containing protein 2 (XIRP2), and Ltd-1. The members of this family function mainly at the cytoskeleton and focal adhesions. They interact with transcription factors or other signaling molecules to play roles in muscle development, neuronal differentiation, cell growth, and mobility. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 55

>gnl|CDD|188712 cd09326, LIM_CRP_like, The LIM domains of Cysteine Rich Protein (CRP) family

 Score = 46.0 bits (110), Expect = 3e-08
 Identities = 19/51 (37%), Positives = 30/51 (58%), Gaps = 4/51 (7%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTM--NNGHLYC 83
          C  C K VY  E++   GK +H++CF C  C    R++S T+  ++G +YC
Sbjct: 1  CPRCGKSVYAAEEVIAAGKSWHKSCFTCAVCNK--RLDSTTLAEHDGEIYC 49

The LIM domains of Cysteine Rich Protein (CRP) family: Cysteine-rich proteins (CRPs) are characterized by the presence of two LIM domains linked to a short glycine-rich repeats (GRRs). The known CRP family members include CRP1, CRP2, and CRP3/MLP. CRP1, CRP2 and CRP3 share a conserved nuclear targeting signal (K/R-K/R-Y-G-P-K), which supports the fact that these proteins function not only in the cytoplasm but also in the nucleus. CRPs control regulatory pathways during cellular differentiation, and involve in complex transcription control, and the organization as well as the arrangement of the myofibrillar/cytoskeletal network. CRP1, CRP2, and CRP3/MLP are involved in promoting protein assembly along the actin-based cytoskeleton. All LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 53

>gnl|CDD|188787 cd09403, LIM2_CRP, The second LIM domain of Cysteine Rich Protein (CRP)

 Score = 45.3 bits (107), Expect = 8e-08
 Identities = 20/49 (40%), Positives = 26/49 (53%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYC 83
          C  C K VY  EKI   GK +H+ CFRC +C   L   +    +G +YC
Sbjct: 1  CPRCGKSVYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLADKDGEIYC 49

The second LIM domain of Cysteine Rich Protein (CRP): Cysteine-rich proteins (CRPs) are characterized by the presence of two LIM domains linked to a short glycine-rich repeats (GRRs). The CRP family members include CRP1, CRP2, CRP3/MLP. CRP1, CRP2 and CRP3 share a conserved nuclear targeting signal (K/R-K/R-Y-G-P-K), which supports the fact that these proteins function not only in the cytoplasm but also in the nucleus. CRPs control regulatory pathways during cellular differentiation, and involve in complex transcription control, and the organization as well as the arrangement of the myofibrillar/cytoskeletal network. It is evident that CRP1, CRP2, and CRP3/MLP are involved in promoting protein assembly along the actin-based cytoskeleton. Although members of the CRP family share common binding partners, they are also capable of recognizing different and specific targets. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residu es, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 54

>gnl|CDD|188871 cd09840, LIM2_CRP2, The second LIM domain of Cysteine Rich Protein 2 (CRP2)

 Score = 44.3 bits (104), Expect = 2e-07
 Identities = 20/49 (40%), Positives = 25/49 (51%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYC 83
          C  C   VY  EKI   GK +H+ CFRC +C   L   + T   G +YC
Sbjct: 1  CSRCGDSVYAAEKIMGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYC 49

The second LIM domain of Cysteine Rich Protein 2 (CRP2): Cysteine-rich proteins (CRPs) are characterized by the presence of two LIM domains linked to short glycine-rich repeats (GRRs). The CRP family members include CRP1, CRP2, CRP3/MLP and TLPCRP1, CRP2 and CRP3 share a conserved nuclear targeting signal (K/R-K/R-Y-G-P-K), which supports the fact that these proteins function not only in the cytoplasm but also in the nucleus. CRPs control regulatory pathways during cellular differentiation, and involve in complex transcription circuits, and the organization as well as the arrangement of the myofibrillar/cytoskeletal network.CRP3 also called Muscle LIM Protein (MLP), which is a striated muscle-specific factor that enhances myogenic differentiation. The second LIM domain of CRP3/MLP interacts with cytoskeletal protein beta-spectrin. CRP3/MLP also interacts with the basic helix-loop-helix myogenic transcription factors MyoD, myogenin, and MRF4 thereby increasing their affinity for specific DNA regulatory elements. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 54

>gnl|CDD|188866 cd09482, LIM2_CRP3, The second LIM domain of Cysteine Rich Protein 3 (CRP3/MLP)

 Score = 44.2 bits (104), Expect = 2e-07
 Identities = 21/49 (42%), Positives = 26/49 (53%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYC 83
          C  C K VY  EK+   GK +H+ CFRC  C   L   + T  +G LYC
Sbjct: 1  CPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTTVTDKDGELYC 49

The second LIM domain of Cysteine Rich Protein 3 (CRP3/MLP): Cysteine-rich proteins (CRPs) are characterized by the presence of two LIM domains linked to short glycine-rich repeats (GRRs). The CRP family members include CRP1, CRP2, CRP3/MLP and TLPCRP1, CRP2 and CRP3 share a conserved nuclear targeting signal (K/R-K/R-Y-G-P-K), which supports the fact that these proteins function not only in the cytoplasm but also in the nucleus. CRPs control regulatory pathways during cellular differentiation, and involve in complex transcription circuits, and the organization as well as the arrangement of the myofibrillar/cytoskeletal network.CRP3 also called Muscle LIM Protein (MLP), which is a striated muscle-specific factor that enhances myogenic differentiation. The second LIM domain of CRP3/MLP interacts with cytoskeletal protein beta-spectrin. CRP3/MLP also interacts with the basic helix-loop-helix myogenic transcription factors MyoD, myogenin, and MRF4 thereby increasing their affinity for specific DNA regulatory elements. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 54

>gnl|CDD|188784 cd09400, LIM_like_1, LIM domain in proteins of unknown function

 Score = 43.6 bits (103), Expect = 4e-07
 Identities = 14/42 (33%), Positives = 24/42 (57%)

Query: 33 SLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESY 74
            C +C   V+  E++  +GK++HR CF+C +C   L   S+
Sbjct: 3  EPCASCGLPVFLAERLLIEGKVYHRTCFKCARCGVQLTPGSF 44

LIM domain in proteins of unknown function: LIM domains are identified in a diverse group of proteins with wide variety of biological functions, including gene expression regulation, cell fate determination, cytoskeleton organization, tumor formation, and development. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. They perform their functions through interactions with other protein partners. The LIM domains are 50-60 amino acids in size and share two characteristic highly conserved zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. The consensus sequence of LIM domain has been defined as C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16, 21)-C-x(2,3)-[CHD] (where X denotes any amino acid). Length = 61

>gnl|CDD|188745 cd09359, LIM_LASP_like, The LIM domain of LIM and SH3 Protein (LASP)-like proteins

 Score = 41.9 bits (98), Expect = 1e-06
 Identities = 21/53 (39%), Positives = 26/53 (49%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHF 87
          C  C K VYP EK+    K +H+ACF C  C   L M +Y       YC  H+
Sbjct: 1  CARCGKIVYPTEKVNCLDKTWHKACFHCEVCKMTLNMNNYKGYQKKPYCNAHY 53

The LIM domain of LIM and SH3 Protein (LASP) like proteins: This family contains two types of LIM containing proteins; LASP and N-RAP. LASP family contains two highly homologous members, LASP-1 and LASP-2. LASP contains a LIM motif at its amino terminus, a src homology 3 (SH3) domains at its C-terminal part, and a nebulin-like region in the middle. LASP-1 and -2 are highly conserved in their LIM, nebulin-like, and SH3 domains, but differ significantly at their linker regions. Both proteins are ubiquitously expressed and involved in cytoskeletal architecture, especially in the organization of focal adhesions. LASP-1 and LASP-2, are important during early embryo- and fetogenesis and are highly expressed in the central nervous system of the adult. However, only LASP-1 seems to participate significantly in neuronal differentiation and plays an important functional role in migration and proliferation of certain cancer cells while the role of LASP-2 is more structural. The expression of LASP-1 in breast tumors is increased significantly. N-RAP is a muscle-specific protein concentrated at myotendinous junctions in skeletal muscle and intercalated disks in cardiac muscle. LIM domain is found at the N-terminus of N-RAP and the C-terminal of N-RAP contains a region with multiple of nebulin repeats. N-RAP functions as a scaffolding protein that organizes alpha-actinin and actin into symmetrical I-Z-I structures in developing myofibrils. Nebulin repeat is known as actin binding domain. The N-RAP is hypothesized to form antiparallel dimerization via its LIM domain. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 53

>gnl|CDD|188864 cd09480, LIM1_CRP2, The first LIM domain of Cysteine Rich Protein 2 (CRP2)

 Score = 41.9 bits (98), Expect = 2e-06
 Identities = 17/49 (34%), Positives = 28/49 (57%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYC 83
          C AC + VY  E+++ DG+ FH+ CF C  C   L   +  +++  +YC
Sbjct: 2  CGACGRTVYHAEEVQCDGRSFHKCCFLCMVCRKNLDSTTVAIHDQEIYC 50

The first LIM domain of Cysteine Rich Protein 2 (CRP2): The CRP family members include CRP1, CRP2, CRP3/MLP and TLP. CRP1, CRP2 and CRP3 share a conserved nuclear targeting signal (K/R-K/R-Y-G-P-K), which supports the fact that these proteins function not only in the cytoplasm but also in the nucleus. CRPs control regulatory pathways during cellular differentiation, and involve in complex transcription circuits, and the organization as well as the arrangement of the myofibrillar/cytoskeletal network. CRP2 specifically binds to protein inhibitor of activated STAT-1 (PIAS1) and a novel human protein designed CRP2BP (for CRP2 binding partner). PIAS1 specifically inhibits the STAT-1 pathway and CRP2BP is homologous to members of the histone acetyltransferase family raising the possibility that CRP2 is a modulator of cytokine-controlled pathways or is functionally active in the transcriptional regulatory network. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 55

>gnl|CDD|188785 cd09401, LIM_TLP_like, The LIM domains of thymus LIM protein (TLP)

 Score = 41.6 bits (98), Expect = 2e-06
 Identities = 17/49 (34%), Positives = 25/49 (51%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYC 83
          C  C K VY  EK  + G+ +H+ C RC +C   L    ++ + G  YC
Sbjct: 1  CPKCGKPVYFAEKKTSLGRDWHKPCLRCEKCKKTLTPGQHSEHEGKPYC 49

The LIM domain of thymus LIM protein (TLP) like proteins: This family includes the LIM domains of TLP and CRIP (Cysteine-Rich Intestinal Protein). TLP is the distant member of the CRP family of proteins. TLP has two isomers (TLP-A and TLP-B) and sharing approximately 30% with each of the three other CRPs. Like CRP1, CRP2 and CRP3/MLP, TLP has two LIM domains, connected by a flexible linker region. Unlike the CRPs, TLP lacks the nuclear targeting signal (K/R-K/R-Y-G-P-K) and is localized solely in the cytoplasm. TLP is specifically expressed in the thymus in a subset of cortical epithelial cells. TLP has a role in development of normal thymus and in controlling the development and differentiation of thymic epithelial cells. CRIP is a short LIM protein with only one LIM domain. CRIP gene is developmentally regulated and can be induced by glucocorticoid hormones during the first three postnatal weeks. The domain shows close sequence homology to LIM domain of thymus LIM protein. However, unlike the TLP proteins which have two LIM domains, the members of this family have only one LIM domain. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 53

>gnl|CDD|188786 cd09402, LIM1_CRP, The first LIM domain of Cysteine Rich Protein (CRP)

 Score = 40.7 bits (95), Expect = 4e-06
 Identities = 17/49 (34%), Positives = 27/49 (55%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYC 83
          C AC K VY  E+++ +G+ FH++CF C  C   L   +   +   +YC
Sbjct: 1  CGACEKTVYHAEEVQCEGRSFHKSCFLCMVCRKNLDSTTVAAHEDEIYC 49

The first LIM domain of Cysteine Rich Protein (CRP): Cysteine-rich proteins (CRPs) are characterized by the presence of two LIM domains linked to a short glycine-rich repeats (GRRs). The CRP family members include CRP1, CRP2, CRP3/MLP. CRP1, CRP2 and CRP3 share a conserved nuclear targeting signal (K/R-K/R-Y-G-P-K), which supports the fact that these proteins function not only in the cytoplasm but also in the nucleus. CRPs control regulatory pathways during cellular differentiation, and involve in complex transcription control, and the organization as well as the arrangement of the myofibrillar/cytoskeletal network. It is evident that CRP1, CRP2, and CRP3/MLP are involved in promoting protein assembly along the actin-based cytoskeleton. Although members of the CRP family share common binding partners, they are also capable of recognizing different and specific targets. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 53

>gnl|CDD|188811 cd09427, LIM2_FHL3, The second LIM domain of Four and a half LIM domains protein 3 (FHL3)

 Score = 40.6 bits (95), Expect = 5e-06
 Identities = 20/55 (36%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 32 SSLCFACNKKVYP-LEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLP 85
          SS C AC K V P   K+E +G+ +H  CF C  C   +   S+  +    YC+P
Sbjct: 1  SSKCVACGKTVMPGSRKLEYEGQTWHEHCFICHGCEQPIGSRSFIPDKDEHYCVP 55

The second LIM domain of Four and a half LIM domains protein 3 (FHL3): FHL3 is highly expressed in the skeleton and cardiac muscles and possesses the transactivation and repression activities. FHL3 interacts with many transcription factors, such as CREB, BKLF/KLF3, CtBP2, MyoD, and MZF_1. Moreover, FHL3 interacts with alpha- and beta-subunits of the muscle alpha7beta1 integrin receptor. FHL3 was also proved to possess the auto-activation ability and was confirmed that the second zinc finger motif in fourth LIM domain was responsible for the auto-activation of FHL3. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 58

>gnl|CDD|188865 cd09481, LIM1_CRP3, The first LIM domain of Cysteine Rich Protein 3 (CRP3/MLP)

 Score = 39.7 bits (92), Expect = 1e-05
 Identities = 18/49 (36%), Positives = 26/49 (53%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYC 83
          C AC K VY  E+I+ +G+ FH+ CF C  C   L   +   +   +YC
Sbjct: 2  CGACEKTVYHAEEIQCNGRSFHKTCFICMACRKALDSTTVAAHESEIYC 50

The first LIM domain of Cysteine Rich Protein 3 (CRP3/MLP): Cysteine-rich proteins (CRPs) are characterized by the presence of two LIM domains linked to short glycine-rich repeats (GRRs). The CRP family members include CRP1, CRP2, CRP3/MLP and TLPCRP1, CRP2 and CRP3 share a conserved nuclear targeting signal (K/R-K/R-Y-G-P-K), which supports the fact that these proteins function not only in the cytoplasm but also in the nucleus. CRPs control regulatory pathways during cellular differentiation, and involve in complex transcription circuits, and the organization as well as the arrangement of the myofibrillar/cytoskeletal network.CRP3 also called Muscle LIM Protein (MLP), which is a striated muscle-specific factor that enhances myogenic differentiation. CRP3/MLP interacts with cytoskeletal protein beta-spectrin. CRP3/MLP also interacts with the basic helix-loop-helix myogenic transcriptio n factors MyoD, myogenin, and MRF4 thereby increasing their affinity for specific DNA regulatory elements. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 54

>gnl|CDD|188862 cd09478, LIM_CRIP, The LIM domain of Cysteine-Rich Intestinal Protein (CRIP)

 Score = 38.7 bits (90), Expect = 2e-05
 Identities = 18/49 (36%), Positives = 29/49 (59%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYC 83
          C  C+K+VY  E++ + GK +HR C +C +C   L   S+  ++G  YC
Sbjct: 1  CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTPGSHAEHDGKPYC 49

The LIM domain of Cysteine-Rich Intestinal Protein (CRIP): CRIP is a short protein with only one LIM domain. CRIP gene is developmentally regulated and can be induced by glucocorticoid hormones during the first three postnatal weeks. The domain shows close sequence homology to LIM domain of thymus LIM protein. However, unlike the TLP proteins which have two LIM domains, the members of this family have only one LIM domain. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 54

>gnl|CDD|188830 cd09446, LIM_N_RAP, The LIM domain of N-RAP

 Score = 38.7 bits (90), Expect = 2e-05
 Identities = 18/52 (34%), Positives = 26/52 (50%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPH 86
          C  C   VYP EKI    + +H+ACF C  C  +L + ++  +    YC  H
Sbjct: 1  CARCGYGVYPAEKINCIDQTWHKACFHCEVCKMMLTVNNFVSHQKKPYCQAH 52

The LIM domain of N-RAP: N-RAP is a muscle-specific protein concentrated at myotendinous junctions in skeletal muscle and intercalated disks in cardiac muscle. LIM domain is found at the N-terminus of N-RAP and the C-terminal of N-RAP contains a region with multiple of nebulin repeats. N-RAP functions as a scaffolding protein that organizes alpha-actinin and actin into symmetrical I-Z-I structures in developing myofibrils. Nebulin repeat is known as actin binding domain. The N-RAP is hypothesized to form antiparallel dimerization via its LIM domain. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 53

>gnl|CDD|188788 cd09404, LIM1_MLP84B_like, The LIM domain of Mlp84B and Mlp60A

 Score = 38.2 bits (89), Expect = 3e-05
 Identities = 17/49 (34%), Positives = 24/49 (48%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYC 83
          C  C K VY  E+    G  +H+ CF+C  C  +L   +   + G LYC
Sbjct: 2  CPKCGKSVYAAEERLAGGYKWHKMCFKCGMCNKLLDSTNCAEHEGELYC 50

The LIM domain of Mlp84B and Mlp60A: Mlp84B and Mlp60A belong to the CRP LIM domain protein family. The Mlp84B protein contains five copies of the LIM domains, each followed by a Glycin Rich Region (GRR). However, only the first LIM domain of Mlp84B is in this family. Mlp60A exhibits only one LIM domain linked to a glycin-rich region. Mlp84B and Mlp60A are muscle specific proteins and have been implicated in muscle differentiation. While Mlp84B transcripts are enriched at the terminal ends of muscle fibers, Mlp60A transcripts are found throughout the muscle fibers. All LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 54

>gnl|CDD|188860 cd09476, LIM1_TLP, The first LIM domain of thymus LIM protein (TLP)

 Score = 37.6 bits (87), Expect = 6e-05
 Identities = 18/49 (36%), Positives = 28/49 (57%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYC 83
          C  C+K VY  EK+ + GK +HR C +C +C  +L    +  ++G  YC
Sbjct: 1  CPRCDKTVYFAEKVSSLGKNWHRFCLKCERCSKILSPGGHAEHDGKPYC 49

The first LIM domain of thymus LIM protein (TLP): TLP is the distant member of the CRP family of proteins. TLP has two isomers (TLP-A and TLP-B) and sharing approximately 30% with each of the three other CRPs. Like CRP1, CRP2 and CRP3/MLP, TLP has two LIM domains, connected by a flexible linker region. Unlike the CRPs, TLP lacks the nuclear targeting signal (K/R-K/R-Y-G-P-K) and is localized solely in the cytoplasm. TLP is specifically expressed in the thymus in a subset of cortical epithelial cells. TLP has a role in development of normal thymus and in controlling the development and differentiation of thymic epithelial cells. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 54

>gnl|CDD|188861 cd09477, LIM2_TLP, The second LIM domain of thymus LIM protein (TLP)

 Score = 37.7 bits (87), Expect = 6e-05
 Identities = 18/49 (36%), Positives = 26/49 (53%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYC 83
          C  C K VY  EK+ + G+ +HR C RC +C   L    +  ++G  YC
Sbjct: 1  CPGCGKPVYFAEKVMSLGRNWHRPCLRCQRCKKTLTAGGHAEHDGSPYC 49

The second LIM domain of thymus LIM protein (TLP): TLP is the distant member of the CRP family of proteins. TLP has two isomers (TLP-A and TLP-B) and sharing approximately 30% with each of the three other CRPs. Like CRP1, CRP2 and CRP3/MLP, TLP has two LIM domains, connected by a flexible linker region. Unlike the CRPs, TLP lacks the nuclear targeting signal (K/R-K/R-Y-G-P-K) and is localized solely in the cytoplasm. TLP is specifically expressed in the thymus in a subset of cortical epithelial cells. TLP has a role in development of normal thymus and in controlling the development and differentiation of thymic epithelial cells. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 54

>gnl|CDD|188863 cd09479, LIM1_CRP1, The first LIM domain of Cysteine Rich Protein 1 (CRP1)

 Score = 37.3 bits (86), Expect = 9e-05
 Identities = 16/49 (32%), Positives = 27/49 (55%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYC 83
          C  C K VY  E+++ +G+ FH++CF C  C   L   +  ++   +YC
Sbjct: 3  CGVCQKTVYFAEEVQCEGRSFHKSCFLCMVCKKNLDSTTVAVHGEEIYC 51

The first LIM domain of Cysteine Rich Protein 1 (CRP1): Cysteine-rich proteins (CRPs) are characterized by the presence of two LIM domains linked to a short glycine-rich repeats (GRRs). The CRP family members include CRP1, CRP2, CRP3/MLP and TLP. CRP1, CRP2 and CRP3 share a conserved nuclear targeting signal (K/R-K/R-Y-G-P-K), which supports the fact that these proteins function not only in the cytoplasm but also in the nucleus. CRPs control regulatory pathways during cellular differentiation, and involve in complex transcription circuits, and the organization as well as the arrangement of the myofibrillar/cytoskeletal network. CRP1 can associate with the actin cytoskeleton and are capable of interacting with alpha-actinin and zyxin. CRP1 was shown to regulate actin filament bundling by interaction with alpha-actinin and direct binding to actin filaments. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 56

>gnl|CDD|188808 cd09424, LIM2_FHL1, The second LIM domain of Four and a half LIM domains protein 1 (FHL1)

 Score = 36.7 bits (85), Expect = 2e-04
 Identities = 15/58 (25%), Positives = 28/58 (48%), Gaps = 1/58 (1%)

Query: 35 CFACNKKVYP-LEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF 91
          C  C K +    + +E  G ++H+ CF C+ C   +  +S+       YC+P  ++ F
Sbjct: 1  CKGCYKDILAGDQNVEYKGNVWHKDCFTCSNCKQPIGTKSFFPKGEDFYCVPCHEKKF 58

The second LIM domain of Four and a half LIM domains protein 1 (FHL1): FHL1 is heavily expressed in skeletal and cardiac muscles. It plays important roles in muscle growth, differentiation, and sarcomere assembly by acting as a modulator of transcription factors. Defects in FHL1 gene are responsible for a number of Muscular dystrophy-like muscle disorders. It has been detected that FHL1 binds to Myosin-binding protein C, regulating myosin filament formation and sarcomere assembly. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 58

>gnl|CDD|188845 cd09461, LIM3_Enigma_like_1, The third LIM domain of an Enigma subfamily with unknown function

 Score = 35.2 bits (81), Expect = 5e-04
 Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 7/56 (12%)

Query: 35 CFACNKKVYPLEK----IETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPH 86
          C +C    +P+E     +E     +H  CF CT+C   L  +S+    G  +C  H
Sbjct: 1  CVSCG---FPIEAGDRWVEALNNNYHSQCFNCTRCNVNLEGQSFYAKGGRPFCKLH 53

The third LIM domain of an Enigma subfamily with unknown function: The Enigma LIM domain family is comprised of three characterized members: Enigma, ENH, and Cypher (mouse)/ZASP (human). These subfamily members contain a single PDZ domain at the N-terminus and three LIM domains at the C-terminus. They serve as adaptor proteins, where the PDZ domain tethers the protein to the cytoskeleton and the LIM domains, recruit signaling proteins to implement corresponding functions. The members of the enigma family have been implicated in regulating or organizing cytoskeletal structure, as well as involving multiple signaling pathways. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 54

>gnl|CDD|188802 cd09418, LIM2_Prickle, The second LIM domain of Prickle

 Score = 35.1 bits (81), Expect = 6e-04
 Identities = 17/53 (32%), Positives = 26/53 (49%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHF 87
          C AC++ ++  E  E +G+ +H   F C +C   L  + Y M  G  YC   F
Sbjct: 3  CSACDEIIFADECTEAEGRHWHMKHFCCFECECQLGGQRYIMREGRPYCCHCF 55

The second LIM domain of Prickle: Prickle contains three C-terminal LIM domains and a N-terminal PET domain. Prickles have been implicated in roles of regulating tissue polarity or planar cell polarity (PCP). PCP establishment requires the conserved Frizzled/Dishevelled PCP pathway. Prickle interacts with Dishevelled, thereby modulating Frizzled/Dishevelled activity and PCP signaling. Two forms of prickles have been identified; namely prickle 1 and prickle 2. Prickle 1 and prickle 2 are differentially expressed. While prickle 1 is expressed in fetal heart and hematological malignancies, prickle 2 is found in fetal brain, adult cartilage, pancreatic islet, and some types of timorous cells. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 56

>gnl|CDD|188798 cd09414, LIM1_LIMPETin, The first LIM domain of protein LIMPETin

 Score = 35.1 bits (81), Expect = 7e-04
 Identities = 13/37 (35%), Positives = 23/37 (62%)

Query: 51 DGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHF 87
          +  L+H ACFRC+ C  +L   +Y +++  +YC  H+
Sbjct: 22 ESLLWHPACFRCSTCEELLVDLTYCVHDDQIYCERHY 58

The first LIM domain of protein LIMPETin: LIMPETin contains 6 LIM domains at the C-terminal and an N-terminal PET domain. Four of the six LIM domains are highly homologous to the four and half LIM domain protein family and two of them show sequence similarity to the LIM domains of the Testin family. Thus, LIMPETin may be the recombinant product of genes coding testin and FHL proteins. In Schistosoma mansoni, where LIMPETin was first identified, LIMPETin is down regulated in sexually mature adult Schistosoma females compared to sexually immature adult females and adult male. Its differential expression indicates that it is a transcription regulator. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 58

>gnl|CDD|188731 cd09345, LIM2_FHL, The second LIM domain of Four and a half LIM domains protein (FHL)

 Score = 35.0 bits (81), Expect = 7e-04
 Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 1/54 (1%)

Query: 35 CFACNKKVYPLEKI-ETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHF 87
          C AC K + P  K  E  GK +H  CF C++C   +  +S+   +  +YC+P +
Sbjct: 1  CKACGKAIMPGSKKMEYKGKFWHEKCFTCSECKKPIGTKSFIPKDDKIYCVPCY 54

The second LIM domain of Four and a half LIM domains protein (FHL): LIM-only protein family consists of five members, designated FHL1, FHL2, FHL3, FHL5 and LIMPETin. The first four members are composed of four complete LIM domains arranged in tandem and an N-terminal single zinc finger domain with a consensus sequence equivalent to the C-terminal half of a LIM domain. LIMPETin is an exception, containing six LIM domains. FHL1, 2 and 3 are predominantly expressed in muscle tissues, and FHL5 is highly expressed in male germ cells. FHL proteins exert their roles as transcription co-activators or co-repressors through a wide array of interaction partners. For example, FHL1 binds to Myosin-binding protein C, regulating myosin filament formation and sarcomere assembly. FHL2 has shown to interact with more than 50 different proteins, including receptors, structural proteins, transcription factors and cofactors, signal transducers, splicing factors, DNA replication and repair enzymes, and metabolic enzymes. FHL3 int eracts with many transcription factors, such as CREB, BKLF/KLF3, CtBP2, MyoD, and MZF_1. FHL5 is a tissue-specific coactivator of CREB/CREM family transcription factors. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 54

>gnl|CDD|188797 cd09413, LIM1_Testin, The first LIM domain of Testin

 Score = 35.1 bits (81), Expect = 7e-04
 Identities = 16/35 (45%), Positives = 20/35 (57%)

Query: 53 KLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHF 87
          KL+H ACF C+ C  +L    Y   NG LYC  H+
Sbjct: 24 KLWHPACFVCSTCGELLVDMIYFWKNGKLYCGRHY 58

The first LIM domain of Testin: Testin contains three C-terminal LIM domains and a PET protein-protein interaction domain at the N-terminal. Testin is a cytoskeleton associated focal adhesion protein that localizes along actin stress fibers, at cell-cell-contact areas, and at focal adhesion plaques. Testin interacts with a variety of cytoskeletal proteins, including zyxin, mena, VASP, talin, and actin and it is involved in cell motility and adhesion events. Knockout mice experiments reveal that tumor repressor function of Testin. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 58

>gnl|CDD|188738 cd09352, LIM1_Ajuba_like, The first LIM domain of Ajuba-like proteins

 Score = 34.7 bits (80), Expect = 8e-04
 Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 1/50 (2%)

Query: 35 CFACNKKVYPLEK-IETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYC 83
          C  C K VY   +  +  G L+H  CF C  C   LR +++   NG +YC
Sbjct: 1  CVKCGKGVYGASQACQAMGNLYHTNCFTCCSCGRTLRGKAFYNVNGKVYC 50

The first LIM domain of Ajuba-like proteins: Ajuba like LIM protein family includes three highly homologous proteins Ajuba, Limd1, and WTIP. Members of the family contain three tandem C-terminal LIM domains and a proline-rich N-terminal region. This family of proteins functions as scaffolds, participating in the assembly of numerous protein complexes. In the cytoplasm, Ajuba binds Grb2 to modulate serum-stimulated ERK activation. Ajuba also recruits the TNF receptor-associated factor 6 (TRAF6) to p62 and activates PKCKappa activity. Ajuba interacts with alpha-catenin and F-actin to contribute to the formation or stabilization of adheren junctions by linking adhesive receptors to the actin cytoskeleton. Although Ajuba is a cytoplasmic protein, it can shuttle into the nucleus. In nucleus, Ajuba functions as a corepressor for the zinc finger-protein Snail. It binds to the SNAG repression domain of Snail through its LIM region. Arginine methyltransferase-5 (Prmt5), a protein in the complex, is recruited to Snai l through an interaction with Ajuba. This ternary complex functions to repress E-cadherin, a Snail target gene. In addition, Ajuba contains functional nuclear-receptor interacting motifs and selectively interacts with retinoic acid receptors (RARs) and rexinoid receptor (RXRs) to negatively regulate retinoic acid signaling. Wtip, the Wt1-interacting protein, was originally identified as an interaction partner of the Wilms tumour protein 1 (WT1). Wtip is involved in kidney and neural crest development. Wtip interacts with the receptor tyrosine kinase Ror2 and inhibits canonical Wnt signaling. LIMD1 was reported to inhibit cell growth and metastases. The inhibition may be mediated through an interaction with the protein barrier-to-autointegration (BAF), a component of SWI/SNF chromatin-remodeling protein; or through the interaction with retinoblastoma protein (pRB), resulting in inhibition of E2F-mediated transcription, and expression of the majority of genes with E2F1- responsive elements. Recently, Limd1 was shown to interact with the p62/sequestosome protein and influence IL-1 and RANKL signaling by facilitating the assembly of a p62/TRAF6/a-PKC multi-protein complex. The Limd1-p62 interaction affects both NF-kappaB and AP-1 activity in epithelial cells and osteoclasts. Moreover, LIMD1 functions as tumor repressor to block lung tumor cell line in vitro and in vivo. Recent studies revealed that LIM proteins Wtip, LIMD1 and Ajuba interact with components of RNA induced silencing complexes (RISC) as well as eIF4E and the mRNA m7GTP cap-protein complex and are required for microRNA-mediated gene silencing. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 54

>gnl|CDD|188750 cd09364, LIM1_LIMK, The first LIM domain of LIMK (LIM domain Kinase )

 Score = 34.0 bits (78), Expect = 0.001
 Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHF 87
          C  C  K+   + ++   + +H  CFRC+ C   L    Y   +G LYC   +
Sbjct: 1  CAGCRGKILDSQYVQALNQDWHCDCFRCSVCSDSLS-NWYFEKDGKLYCRKDY 52

The first LIM domain of LIMK (LIM domain Kinase ): LIMK protein family is comprised of two members LIMK1 and LIMK2. LIMK contains two LIM domains, a PDZ domain and a kinase domain. LIMK is involved in the regulation of actin polymerization and microtubule disassembly. LIMK influences architecture of the actin cytoskeleton by regulating the activity of the cofilin family proteins cofilin1, cofilin2, and destrin. The mechanism of the activation is to phosphorylates cofilin on serine 3 and inactivates its actin-severing activity, and altering the rate of actin depolymerisation. LIMKs can function in both cytoplasm and nucleus and are expressed in all tissues. Both LIMK1 and LIMK2 can act in the nucleus to suppress Rac/Cdc42-dependent cyclin D1 expression. However, LIMK1 and LIMk2 have different cellular locations. While LIMK1 localizes mainly at focal adhesions, LIMK2 is found in cytoplasmic punctae, suggesting that they may have different cellular functions. The LIM domains of LIMK have been shown to play an important role in regulating kinase activity and likely also contribute to LIMK function by acting as sites of protein-to-protein interactions. All LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 53

>gnl|CDD|188763 cd09377, LIM2_Lhx2_Lhx9, The second LIM domain of Lhx2 and Lhx9 family

 Score = 34.2 bits (79), Expect = 0.001
 Identities = 12/34 (35%), Positives = 17/34 (50%), Gaps = 1/34 (2%)

Query: 55 FHRACFRCTQCCTVLRM-ESYTMNNGHLYCLPHF 87
          FH  CF C  C   L   + + M +G +YC  H+
Sbjct: 26 FHLNCFTCATCNKPLTKGDHFGMRDGLVYCRLHY 59

The second LIM domain of Lhx2 and Lhx9 family: Lhx2 and Lhx9 are highly homologous LHX regulatory proteins. They belong to the LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs, such as the pituitary gland and the pancreas. Although Lhx2 and Lhx9 are highly homologous, they seems to play regulatory roles in different organs. In animals, Lhx2 plays important roles in eye, cerebral cortex, limb, the olfactory organs, and erythrocyte development. Lhx2 gene knockout mice exhibit impaired patterning of the cortical hem and the telencephalon of the developing brain, and a lack of development in olfactory structures. Lhx9 is expressed in several regions of the developing mouse brain, the spinal cord, the pancreas, in limb mesenchyme, and in the urogenital region. Lhx9 plays critical roles in gonad development. Homozygous mice lacking functional Lhx9 alleles exhibit numerous urogenital defects, such as gonadal agenesis, infertility, and undetectable levels of testosterone and estradiol coupled with high FSH levels. Lhx9 null mice are phenotypically female, even those that are genotypically male. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 59

>gnl|CDD|188713 cd09327, LIM1_abLIM, The first LIM domain of actin binding LIM (abLIM) proteins

 Score = 34.2 bits (79), Expect = 0.001
 Identities = 11/32 (34%), Positives = 13/32 (40%)

Query: 52 GKLFHRACFRCTQCCTVLRMESYTMNNGHLYC 83
           K FH  CF C  C   L    + +  G  YC
Sbjct: 17 DKYFHIKCFTCKVCGCDLAQGGFFVKEGEYYC 48

The first LIM domain of actin binding LIM (abLIM) proteins: Three homologous members of the abLIM protein family have been identified; abLIM-1, abLIM-2 and abLIM-3. The N-terminal of abLIM consists of four tandem repeats of LIM domains and the C-terminal of acting binding LIM protein is a villin headpiece domain, which has strong actin binding activity. The abLIM-1, which is expressed in retina, brain, and muscle tissue, has been indicated to function as a tumor suppressor. AbLIM-2 and -3, mainly expressed in muscle and neuronal tissue, bind to F-actin strongly. They may serve as a scaffold for signaling modules of the actin cytoskeleton and thereby modulate transcription. It has shown that LIM domains of abLIMs interact with STARS (striated muscle activator of Rho signaling), which directly binds actin and stimulates serum-response factor (SRF)-dependent transcription. All LIM domains are 50-60 amino acids in size and share two characteristic highly conserved zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

>gnl|CDD|188727 cd09341, LIM2_Testin_like, The second LIM domain of Testin-like family

 Score = 33.7 bits (78), Expect = 0.002
 Identities = 17/53 (32%), Positives = 27/53 (50%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHF 87
          C AC++ ++  E  + +GK +H   F C QC   L  + Y +  G  YCL  +
Sbjct: 3  CAACDELIFSGEYTQAEGKNWHLKHFCCFQCDEPLGGQRYVLREGKPYCLDCY 55

The second LIM domain of Testin-like family: This family includes testin, prickle, dyxin and LIMPETin. Structurally, testin and prickle proteins contain three LIM domains at C-terminal; LIMPETin has six LIM domains; and dyxin presents only two LIM domains. However, all members of the family contain a PET protein-protein interaction domain. Testin is a cytoskeleton associated focal adhesion protein that localizes along actin stress fibers, at cell-cell-contact areas, and at focal adhesion plaques. Testin interacts with a variety of cytoskeletal proteins, including zyxin, mena, VASP, talin, and actin and it is involved in cell motility and adhesion events. Prickles have been implicated in roles of regulating tissue polarity or planar cell polarity (PCP). Dyxin involves in lung and heart development by interaction with GATA6 and blocking GATA6 activated target genes. LIMPETin might be the recombinant product of genes coding testin and four and half LIM proteins and its function is not well understood. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 56

>gnl|CDD|188810 cd09426, LIM2_FHL2, The second LIM domain of Four and a half LIM domains protein 2 (FHL2)

 Score = 33.5 bits (76), Expect = 0.003
 Identities = 15/56 (26%), Positives = 28/56 (50%), Gaps = 1/56 (1%)

Query: 35 CFACNKKVYP-LEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQ 89
          C  C K + P   K+E  G  +H  CF C +C   +  +S+   +   +C+P +++
Sbjct: 1  CSECKKTIMPGTRKMEYKGNSWHETCFICQRCQQPIGTKSFIPKDNQNFCVPCYEK 56

The second LIM domain of Four and a half LIM domains protein 2 (FHL2): FHL2 is one of the best studied FHL proteins. FHL2 expression is most abundant in the heart, and in brain, liver and lung to a lesser extent. FHL2 participates in a wide range of cellular processes, such as transcriptional regulation, signal transduction, and cell survival by binding to various protein partners. FHL2 has shown to interact with more than 50 different proteins, including receptors, structural proteins, transcription factors and cofactors, signal transducers, splicing factors, DNA replication and repair enzymes, and metabolic enzymes. Although FHL2 is abundantly expressed in heart, the fhl2 null mice are viable and had no detectable abnormal cardiac phenotype. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to s upport the assembly of multimeric protein complexes. Length = 57

>gnl|CDD|188846 cd09462, LIM1_LIMK1, The first LIM domain of LIMK1 (LIM domain Kinase 1)

 Score = 33.7 bits (77), Expect = 0.003
 Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 1/59 (1%)

Query: 29 GNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHF 87
          GN   +C +C + +Y  + ++     +H  CFRC +C   L    Y   +G L+C   +
Sbjct: 16 GNVLPVCASCGQSIYDGQYLQALNSDWHADCFRCCECGASLSHWYYE-KDGRLFCKKDY 73

The first LIM domain of LIMK1 (LIM domain Kinase 1): LIMK1 belongs to the LIMK protein family, which comprises LIMK1 and LIMK2. LIMK contains two LIM domains, a PDZ domain, and a kinase domain. LIMK is involved in the regulation of actin polymerization and microtubule disassembly. LIMK influences architecture of the actin cytoskeleton by regulating the activity of the cofilin family proteins cofilin1, cofilin2, and destrin. The mechanism of the activation is to phosphorylates cofilin on serine 3 and inactivates its actin-severing activity, and altering the rate of actin depolymerization. LIMKs can function in both cytoplasm and nucleus. Both LIMK1 and LIMK2 can act in the nucleus to suppress Rac/Cdc42-dependent cyclin D1 expression. LIMK1 is expressed in all tissues and is localized to focal adhesions in the cell. LIMK1 can form homodimers upon binding of HSP90 and is activated by Rho effector Rho kinase and MAPKAPK2. LIMK1 is important for normal central nervous system development, and its deletion has been implicated in the development of the human genetic disorder Williams syndrome. Moreover, LIMK1 up-regulates the promoter activity of urokinase type plasminogen activator and induces its mRNA and protein expression in breast cancer cells. The LIM domains have been shown to play an important role in regulating kinase activity and likely also contribute to LIMK function by acting as sites of protein-to-protein interactions. All LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 74

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	117
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.58
KOG1701|consensus	468		99.4
KOG1044|consensus	670		99.39
KOG1701|consensus	468		99.28
KOG2272|consensus	332		99.25
KOG1703|consensus	479		99.24
KOG4577|consensus	383		99.2
KOG2272|consensus	332		98.91
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.74
KOG1700|consensus	200		98.71
KOG1703|consensus	479		98.65
KOG1700|consensus	200		98.61
KOG4577|consensus	383		98.43
KOG1702|consensus	264		98.41
KOG1044|consensus	670		98.16
KOG0490|consensus	235		95.14
PF09943	101	DUF2175: Uncharacterized protein conserved in arch	90.27
COG4357	105	Zinc finger domain containing protein (CHY type) [	86.45
PF08394	37	Arc_trans_TRASH: Archaeal TRASH domain; InterPro:	81.61
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	80.79

>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=99.58  E-value=2e-15  Score=84.75  Aligned_cols=57  Identities=30%  Similarity=0.799  Sum_probs=52.2

Q ss_pred             ccccccccccCccE-EeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhh
Q psy12714         35 CFACNKKVYPLEKI-ETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF   91 (117)
Q Consensus        35 C~~C~~~i~~~~~~-~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~   91 (117)
                      |.+|+++|...+.+ .+.++.||..||+|..|+..|....++..++++||..||.++|
T Consensus         1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~f   58 (58)
T PF00412_consen    1 CARCGKPIYGTEIVIKAMGKFWHPECFKCSKCGKPLNDGDFYEKDGKPYCKDCYQKRF   58 (58)
T ss_dssp             BTTTSSBESSSSEEEEETTEEEETTTSBETTTTCBTTTSSEEEETTEEEEHHHHHHHT
T ss_pred             CCCCCCCccCcEEEEEeCCcEEEccccccCCCCCccCCCeeEeECCEEECHHHHhhhC
Confidence            78999999877765 6999999999999999999999888888999999999998876

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....

>KOG1701|consensus

Probab=99.40  E-value=1.6e-14  Score=107.31  Aligned_cols=84  Identities=23%  Similarity=0.514  Sum_probs=72.1

Q ss_pred             CCcccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccc-cCCeeccHHHHHhhhCCCC-----------
Q psy12714         28 TGNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTM-NNGHLYCLPHFKQLFISRG-----------   95 (117)
Q Consensus        28 ~~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~-~~g~~~C~~~y~~~~~~kc-----------   95 (117)
                      +++...+|..|++.|. ..++.+.++.||..||+|..|.+.|....|.. .++.+||-.||.++|+|||           
T Consensus       330 yq~tlekC~~Cg~~I~-d~iLrA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfAPrCs~C~~PI~P~~  408 (468)
T KOG1701|consen  330 YQDTLEKCNKCGEPIM-DRILRALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFAPRCSVCGNPILPRD  408 (468)
T ss_pred             HHHHHHHHhhhhhHHH-HHHHHhcccccCCCceEEEEeccccCCccccccCCCceeeehhhhhhcCcchhhccCCccCCC
Confidence            5666789999999995 45578999999999999999999999888887 5899999999999999998           


Q ss_pred             -----ccccccCccccccCCcc
Q psy12714         96 -----NYDEGFGSDQHKRKWQP  112 (117)
Q Consensus        96 -----~~~~~~~~~~~~~~~~~  112 (117)
                           ..+.++++.||-+-||=
T Consensus       409 G~~etvRvvamdr~fHv~CY~C  430 (468)
T KOG1701|consen  409 GKDETVRVVAMDRDFHVNCYKC  430 (468)
T ss_pred             CCcceEEEEEccccccccceeh
Confidence                 34567778888777763

>KOG1044|consensus

Probab=99.39  E-value=1.7e-13  Score=105.06  Aligned_cols=83  Identities=22%  Similarity=0.502  Sum_probs=68.7

Q ss_pred             CcccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC----ccccccCcc
Q psy12714         29 GNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG----NYDEGFGSD  104 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc----~~~~~~~~~  104 (117)
                      ..+...|++|++.|..++.+.++++.||..||+|..|+..| .+.|..++|.+||+.||.+.|+-||    .||.|..-.
T Consensus       130 ~~~ps~cagc~~~lk~gq~llald~qwhv~cfkc~~c~~vL-~gey~skdg~pyce~dy~~~fgvkc~~c~~fisgkvLq  208 (670)
T KOG1044|consen  130 SYGPSTCAGCGEELKNGQALLALDKQWHVSCFKCKSCSAVL-NGEYMSKDGVPYCEKDYQAKFGVKCEECEKFISGKVLQ  208 (670)
T ss_pred             ccCCccccchhhhhhccceeeeeccceeeeeeehhhhcccc-cceeeccCCCcchhhhhhhhcCeehHHhhhhhhhhhhh
Confidence            35667899999999888889999999999999999999999 4579999999999999999999998    455544443


Q ss_pred             ccccCCcc
Q psy12714        105 QHKRKWQP  112 (117)
Q Consensus       105 ~~~~~~~~  112 (117)
                      .-..||||
T Consensus       209 ag~kh~HP  216 (670)
T KOG1044|consen  209 AGDKHFHP  216 (670)
T ss_pred             ccCcccCc
Confidence            33355554

>KOG1701|consensus

Probab=99.28  E-value=3.7e-13  Score=100.16  Aligned_cols=81  Identities=23%  Similarity=0.485  Sum_probs=68.6

Q ss_pred             cccccccccccccccCcc-EEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC---------cccc
Q psy12714         30 NPSSLCFACNKKVYPLEK-IETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG---------NYDE   99 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~-~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc---------~~~~   99 (117)
                      .....|.+|+|.|+..+. +.++++.||..||.|..|.+.|..+.||..++++||+.||++.+ .||         ..+.
T Consensus       272 ~~~~iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~v~~k~~CE~cyq~tl-ekC~~Cg~~I~d~iLr  350 (468)
T KOG1701|consen  272 DYFGICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQVDGKPYCEGCYQDTL-EKCNKCGEPIMDRILR  350 (468)
T ss_pred             hhhhhhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccccccCCcccchHHHHHHH-HHHhhhhhHHHHHHHH
Confidence            334599999999976554 57999999999999999999999999999999999999998765 344         4567


Q ss_pred             ccCccccccCCc
Q psy12714        100 GFGSDQHKRKWQ  111 (117)
Q Consensus       100 ~~~~~~~~~~~~  111 (117)
                      ++|++||..-|.
T Consensus       351 A~GkayHp~CF~  362 (468)
T KOG1701|consen  351 ALGKAYHPGCFT  362 (468)
T ss_pred             hcccccCCCceE
Confidence            889999987664

>KOG2272|consensus

Probab=99.25  E-value=5e-13  Score=93.89  Aligned_cols=84  Identities=26%  Similarity=0.579  Sum_probs=74.4

Q ss_pred             cccccccccccccccCcc-EEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC----ccccccCcc
Q psy12714         30 NPSSLCFACNKKVYPLEK-IETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG----NYDEGFGSD  104 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~-~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc----~~~~~~~~~  104 (117)
                      .....|.+|.......+. +...+..||..||.|..|-.++.++.|+..+|+.||+.+|..+|+|.|    .|+.|....
T Consensus        10 ~~~~~C~RC~~gF~~~e~~vns~ge~wH~~CFvCAQCf~pf~~g~~~efEgRkYCEhDF~~LfaPcC~kC~EFiiGrVik   89 (332)
T KOG2272|consen   10 LANMVCERCRDGFEPAEKIVNSNGELWHEQCFVCAQCFRPFPDGIFYEFEGRKYCEHDFHVLFAPCCGKCGEFIIGRVIK   89 (332)
T ss_pred             HHHHHHHHHhccCCchhhhhccCchhhHHHHHHHHHhcCcCCCceeEEecCcccccccchhhhchhhcccccchhhHHHH
Confidence            345689999998877665 468899999999999999999999999999999999999999999987    688888888


Q ss_pred             ccccCCccc
Q psy12714        105 QHKRKWQPV  113 (117)
Q Consensus       105 ~~~~~~~~~  113 (117)
                      ..++.|||.
T Consensus        90 amnnSwHp~   98 (332)
T KOG2272|consen   90 AMNNSWHPA   98 (332)
T ss_pred             hhccccCcc
Confidence            888899885

>KOG1703|consensus

Probab=99.24  E-value=2.4e-12  Score=99.11  Aligned_cols=82  Identities=28%  Similarity=0.536  Sum_probs=71.7

Q ss_pred             CcccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC-----------cc
Q psy12714         29 GNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG-----------NY   97 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc-----------~~   97 (117)
                      ....+.|.+|+++|. .+.|.+.+..||+.||.|..|.+.|....|+..++.+||+.||..+++++|           ..
T Consensus       360 ~~~~p~C~~C~~~i~-~~~v~a~~~~wH~~cf~C~~C~~~~~~~~~~~~~~~pyce~~~~~~~~~~~~~~~~p~~~~~~~  438 (479)
T KOG1703|consen  360 APFRPNCKRCLLPIL-EEGVCALGRLWHPECFVCADCGKPLKNSSFFESDGEPYCEDHYKKLFTTKCDYCKKPVEFGSRQ  438 (479)
T ss_pred             HhhCccccccCCchH-HhHhhhccCeechhceeeecccCCCCCCcccccCCccchhhhHhhhccccchhccchhHhhhhH
Confidence            566789999999995 566778899999999999999999999999999999999999999998776           34


Q ss_pred             ccccCccccccCCc
Q psy12714         98 DEGFGSDQHKRKWQ  111 (117)
Q Consensus        98 ~~~~~~~~~~~~~~  111 (117)
                      +++.+..||...|.
T Consensus       439 ie~~~~~~h~~~F~  452 (479)
T KOG1703|consen  439 IEADGSPFHGDCFR  452 (479)
T ss_pred             hhccCcccccccee
Confidence            56778888888875

>KOG4577|consensus

Probab=99.20  E-value=6.6e-13  Score=94.78  Aligned_cols=64  Identities=19%  Similarity=0.527  Sum_probs=58.8

Q ss_pred             ccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC
Q psy12714         31 PSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        31 ~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      ..+.|++|.+.|.+..++.++++.||-.|++|+.|..+|.. ..+.+++.+||+.+|.++|++||
T Consensus        32 eip~CagC~q~IlDrFilKvl~R~wHs~CLkCs~C~~qL~d-rCFsR~~s~yCkedFfKrfGTKC   95 (383)
T KOG4577|consen   32 EIPICAGCDQHILDRFILKVLDRHWHSSCLKCSDCHDQLAD-RCFSREGSVYCKEDFFKRFGTKC   95 (383)
T ss_pred             ccccccchHHHHHHHHHHHHHhhhhhhhhcchhhhhhHHHH-HHhhcCCceeehHHHHHHhCCcc
Confidence            57899999999976666789999999999999999999965 58889999999999999999999

>KOG2272|consensus

Probab=98.91  E-value=1.6e-10  Score=81.35  Aligned_cols=80  Identities=21%  Similarity=0.316  Sum_probs=65.1

Q ss_pred             CcccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC---------cccc
Q psy12714         29 GNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG---------NYDE   99 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc---------~~~~   99 (117)
                      ..+.+.|..|.++|. ...+.++++.||.+.|+|.+|-+++-+-..|.+.|..||+.+|.++|+--|         ..++
T Consensus       192 ~mgipiCgaC~rpIe-ervi~amgKhWHveHFvCa~CekPFlGHrHYEkkGlaYCe~h~~qLfG~~CF~C~~~i~G~vv~  270 (332)
T KOG2272|consen  192 KMGIPICGACRRPIE-ERVIFAMGKHWHVEHFVCAKCEKPFLGHRHYEKKGLAYCETHYHQLFGNLCFICNRVIGGDVVS  270 (332)
T ss_pred             ccCCcccccccCchH-HHHHHHhccccchhheeehhcCCcccchhhhhhcCchhHHHHHHHHhhhhheecCCccCccHHH
Confidence            456788999999994 344679999999999999999999877788999999999999999999876         3445


Q ss_pred             ccCccccccC
Q psy12714        100 GFGSDQHKRK  109 (117)
Q Consensus       100 ~~~~~~~~~~  109 (117)
                      +++.+|=.+.
T Consensus       271 al~KawCv~c  280 (332)
T KOG2272|consen  271 ALNKAWCVEC  280 (332)
T ss_pred             Hhhhhhcccc
Confidence            5555554443

>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3

Probab=98.74  E-value=7.8e-09  Score=52.84  Aligned_cols=37  Identities=30%  Similarity=0.716  Sum_probs=32.4

Q ss_pred             cccccccccccC-ccEEeCCCcccccCcccccCCcccc
Q psy12714         34 LCFACNKKVYPL-EKIETDGKLFHRACFRCTQCCTVLR   70 (117)
Q Consensus        34 ~C~~C~~~i~~~-~~~~~~~~~~H~~Cf~C~~C~~~L~   70 (117)
                      +|.+|++.|... ..+...++.||..||.|..|+.+|.
T Consensus         1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L~   38 (39)
T smart00132        1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPLG   38 (39)
T ss_pred             CccccCCcccCCcEEEEeCCccccccCCCCcccCCcCc
Confidence            589999999776 5567899999999999999999884

Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.

>KOG1700|consensus

Probab=98.71  E-value=2.5e-09  Score=73.99  Aligned_cols=85  Identities=44%  Similarity=0.892  Sum_probs=73.7

Q ss_pred             CCcccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCCccccccCccccc
Q psy12714         28 TGNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRGNYDEGFGSDQHK  107 (117)
Q Consensus        28 ~~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc~~~~~~~~~~~~  107 (117)
                      .......|..|.+.+++.+.+...+..||+.||+|..|+..|....+...++.+||..++.+++-.+..|..+.+...+.
T Consensus       104 ~~g~~~~c~~c~k~vy~~Ek~~~~~~~~hk~cfrc~~~~~~ls~~~~~~~~g~l~~~~~~~~~~~~~~~~~~~~~~~~~~  183 (200)
T KOG1700|consen  104 FAGEKEKCARCQKTVYPLEKVTGNGLEFHKSCFRCTHCGKKLSPKNYAALEGVLYCKHHFAQLFKGKGNYNEGFGARENK  183 (200)
T ss_pred             hhccccccccccceeeehHHHhhhhhhhhhhheeecccccccCCcchhhcCCccccchhhheeecCCCcccccchhhhhh
Confidence            45556789999999999999999999999999999999999999999999999999998888888888888887776666


Q ss_pred             cCCcc
Q psy12714        108 RKWQP  112 (117)
Q Consensus       108 ~~~~~  112 (117)
                      +.|-.
T Consensus       184 ~~~~~  188 (200)
T KOG1700|consen  184 EAAAA  188 (200)
T ss_pred             hhhhh
Confidence            65543

>KOG1703|consensus

Probab=98.65  E-value=2.4e-08  Score=77.21  Aligned_cols=81  Identities=23%  Similarity=0.418  Sum_probs=67.1

Q ss_pred             cccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC---------ccccc
Q psy12714         30 NPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG---------NYDEG  100 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc---------~~~~~  100 (117)
                      ...+.|..|+..|.....+..+++.||+.+|.|..|...+....+...+|.+||..||.+.+.++|         ..+.+
T Consensus       301 ~~~p~c~~c~~~i~~~~~i~~~~~~~h~~~~~c~~~~~~~~~~~~~~~~g~~~c~~~~~~~~~p~C~~C~~~i~~~~v~a  380 (479)
T KOG1703|consen  301 VTRPLCLSCNQKIRSVKVIVALGKEWHPEHFSCEVCAIVILDGGPRELDGKILCHECFHAPFRPNCKRCLLPILEEGVCA  380 (479)
T ss_pred             cccccccccccCcccceeEeeccccccccceeeccccccccCCCccccCCCccHHHHHHHhhCccccccCCchHHhHhhh
Confidence            456899999999965466789999999999999999999998888888999999999999999998         34444


Q ss_pred             cCccccccCC
Q psy12714        101 FGSDQHKRKW  110 (117)
Q Consensus       101 ~~~~~~~~~~  110 (117)
                      ++..||.+.|
T Consensus       381 ~~~~wH~~cf  390 (479)
T KOG1703|consen  381 LGRLWHPECF  390 (479)
T ss_pred             ccCeechhce
Confidence            4555555544

>KOG1700|consensus

Probab=98.61  E-value=1.4e-08  Score=70.23  Aligned_cols=66  Identities=35%  Similarity=0.778  Sum_probs=60.2

Q ss_pred             cccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC
Q psy12714         30 NPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      .....|..|++.++..+++...+..||+.||+|..|...|....+...++.+||..+|...++|+.
T Consensus         5 ~~~~kc~~c~k~vy~~e~~~~~g~~~hk~c~~c~~~~k~l~~~~~~~~e~~~yc~~~~~~~~~~~~   70 (200)
T KOG1700|consen    5 GTTDKCNACGKTVYFVEKVQKDGVDFHKECFKCEKCKKTLTLSGYSEHEGVPYCKNCHVAQFGPKG   70 (200)
T ss_pred             cccchhhhccCcchHHHHHhccCcchhhhHHhccccccccccccccccccccccccchHhhhCccc
Confidence            345699999999998888888899999999999999999999899999999999998889999987

>KOG4577|consensus

Probab=98.43  E-value=5.1e-08  Score=70.06  Aligned_cols=68  Identities=19%  Similarity=0.452  Sum_probs=55.9

Q ss_pred             CCcccccccccccccccCccE-EeCCCcccccCcccccCCccccCC-Ccc-ccCCeeccHHHHHhhhCCCC
Q psy12714         28 TGNPSSLCFACNKKVYPLEKI-ETDGKLFHRACFRCTQCCTVLRME-SYT-MNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        28 ~~~~~~~C~~C~~~i~~~~~~-~~~~~~~H~~Cf~C~~C~~~L~~~-~~~-~~~g~~~C~~~y~~~~~~kc   95 (117)
                      +..+..+|..|...|.....+ .+.+..||..||.|..|..+|..+ .|| +.|+++.|+.+|+.--...|
T Consensus        88 fKrfGTKCsaC~~GIpPtqVVRkAqd~VYHl~CF~C~iC~R~L~TGdEFYLmeD~rLvCK~DYE~Ak~k~~  158 (383)
T KOG4577|consen   88 FKRFGTKCSACQEGIPPTQVVRKAQDFVYHLHCFACFICKRQLATGDEFYLMEDARLVCKDDYETAKQKHC  158 (383)
T ss_pred             HHHhCCcchhhcCCCChHHHHHHhhcceeehhhhhhHhhhcccccCCeeEEeccceeehhhhHHHHHhccc
Confidence            456677999999999777766 489999999999999999999855 344 47999999999987655555

>KOG1702|consensus

Probab=98.41  E-value=1.1e-08  Score=70.39  Aligned_cols=58  Identities=33%  Similarity=0.780  Sum_probs=53.2

Q ss_pred             ccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhh
Q psy12714         33 SLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQL   90 (117)
Q Consensus        33 ~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~   90 (117)
                      ..|..|++.++..+.+..+++.||..||.|..|+..|....|.+-+.++||..+|...
T Consensus         5 ~n~~~cgk~vYPvE~v~cldk~whk~cfkce~c~mtlnmKnyKgy~kkpycn~hYpkq   62 (264)
T KOG1702|consen    5 CNREDCGKTVYPVEEVKCLDKVWHKQCFKCEVCGMTLNMKNYKGYDKKPYCNPHYPKQ   62 (264)
T ss_pred             chhhhhccccccHHHHhhHHHHHHHHhheeeeccCChhhhhccccccCCCcCcccccc
Confidence            4678899999999999999999999999999999999999999999999999999543

>KOG1044|consensus

Probab=98.16  E-value=2.3e-06  Score=66.63  Aligned_cols=80  Identities=24%  Similarity=0.510  Sum_probs=62.6

Q ss_pred             CcccccccccccccccCccEEeCCCcccccCcccccCCccccCCCcccc-CCeeccHHHHHhhhCCCCccccccCccccc
Q psy12714         29 GNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMN-NGHLYCLPHFKQLFISRGNYDEGFGSDQHK  107 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~-~g~~~C~~~y~~~~~~kc~~~~~~~~~~~~  107 (117)
                      ....-.|..|++.- .++.+.+.++.||..||.|..|+..|..+.|+.+ +.++|+.....+ | ..|..+.++|+.+|+
T Consensus        13 ~~~~i~c~~c~~kc-~gevlrv~d~~fhi~cf~c~~cg~~la~~gff~k~~~~~ygt~~c~~-~-~~gevvsa~gktyh~   89 (670)
T KOG1044|consen   13 GKQGIKCDKCRKKC-SGEVLRVNDNHFHINCFQCKKCGRNLAEGGFFTKPENRLYGTDDCRA-F-VEGEVVSTLGKTYHP   89 (670)
T ss_pred             cccceehhhhCCcc-ccceeEeeccccceeeeeccccCCCcccccceecccceeecccchhh-h-ccceeEecccceecc
Confidence            34456899999988 5788999999999999999999999999888886 467777633222 1 246678888888888


Q ss_pred             cCCc
Q psy12714        108 RKWQ  111 (117)
Q Consensus       108 ~~~~  111 (117)
                      +.+.
T Consensus        90 ~cf~   93 (670)
T KOG1044|consen   90 KCFS   93 (670)
T ss_pred             ccce
Confidence            7654

>KOG0490|consensus

Probab=95.14  E-value=0.0026  Score=44.35  Aligned_cols=57  Identities=19%  Similarity=0.631  Sum_probs=44.1

Q ss_pred             cccccccCccEEeCCCcccccCcccccCCcccc--CCCccccCCeeccHHHHHh--hhCCCC
Q psy12714         38 CNKKVYPLEKIETDGKLFHRACFRCTQCCTVLR--MESYTMNNGHLYCLPHFKQ--LFISRG   95 (117)
Q Consensus        38 C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~--~~~~~~~~g~~~C~~~y~~--~~~~kc   95 (117)
                      |+..|.+...+...+..||..|..|..|...|.  ...+.. +|..||..+|..  .+..+|
T Consensus         2 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~~d~~~~~~~~~rr   62 (235)
T KOG0490|consen    2 CGRQILDRYLLRVLDRYWHASCLKCAECDNPLGVGDTCFSK-DGSIYCKRDYQREFKFSKRC   62 (235)
T ss_pred             CCccccchHHhhcccHHHHHHHHhhhhhcchhccCCCcccC-CCcccccccchhhhhccccc
Confidence            555665444455668999999999999999997  444555 999999999987  666666

>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function

Probab=90.27  E-value=0.089  Score=32.59  Aligned_cols=33  Identities=24%  Similarity=0.508  Sum_probs=25.4

Q ss_pred             cccccccccccCccEEe-CCCcccccCcccccCC
Q psy12714         34 LCFACNKKVYPLEKIET-DGKLFHRACFRCTQCC   66 (117)
Q Consensus        34 ~C~~C~~~i~~~~~~~~-~~~~~H~~Cf~C~~C~   66 (117)
                      +|..|++.|+.++.+.+ .+...|..||.=..-.
T Consensus         4 kC~iCg~~I~~gqlFTF~~kG~VH~~C~~~~~~~   37 (101)
T PF09943_consen    4 KCYICGKPIYEGQLFTFTKKGPVHYECFREKASK   37 (101)
T ss_pred             EEEecCCeeeecceEEEecCCcEeHHHHHHHHhh
Confidence            69999999999998874 3456799998755443

>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]

Probab=86.45  E-value=0.087  Score=32.29  Aligned_cols=58  Identities=19%  Similarity=0.383  Sum_probs=36.9

Q ss_pred             ccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCCc
Q psy12714         35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRGN   96 (117)
Q Consensus        35 C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc~   96 (117)
                      |..|+..+..--.....-..++..+..|..|...|+-..|..-..-+||    +..|.|+|.
T Consensus        38 Cy~CHdel~~Hpf~p~~~~~~~~~~iiCGvC~~~LT~~EY~~~~~Cp~C----~spFNp~Ck   95 (105)
T COG4357          38 CYHCHDELEDHPFEPWGLQEFNPKAIICGVCRKLLTRAEYGMCGSCPYC----QSPFNPGCK   95 (105)
T ss_pred             HHHHHhHHhcCCCccCChhhcCCccEEhhhhhhhhhHHHHhhcCCCCCc----CCCCCcccc
Confidence            4455555532222233445678888999999999987777766665555    355677774

>PF08394 Arc_trans_TRASH: Archaeal TRASH domain; InterPro: IPR013603 This region is found in the C terminus of a number of archaeal transcriptional regulators

Probab=81.61  E-value=0.58  Score=23.65  Aligned_cols=31  Identities=19%  Similarity=0.533  Sum_probs=19.7

Q ss_pred             ccccccccccCcc-EEeCCCcccccCcccccCCcc
Q psy12714         35 CFACNKKVYPLEK-IETDGKLFHRACFRCTQCCTV   68 (117)
Q Consensus        35 C~~C~~~i~~~~~-~~~~~~~~H~~Cf~C~~C~~~   68 (117)
                      |..||..|.+.-. +...++.|+   |.|..|...
T Consensus         1 Cd~CG~~I~~eP~~~k~~~~~y~---fCC~tC~~~   32 (37)
T PF08394_consen    1 CDYCGGEITGEPIVVKIGNKVYY---FCCPTCLSQ   32 (37)
T ss_pred             CCccCCcccCCEEEEEECCeEEE---EECHHHHHH
Confidence            6778998864332 467888887   444455443

It is thought to function as a metal-sensing regulatory module [].

>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1

Probab=80.79  E-value=1.2  Score=27.07  Aligned_cols=30  Identities=23%  Similarity=0.412  Sum_probs=18.9

Q ss_pred             ccccccccccccccCccE-EeCCCcccccCc
Q psy12714         31 PSSLCFACNKKVYPLEKI-ETDGKLFHRACF   60 (117)
Q Consensus        31 ~~~~C~~C~~~i~~~~~~-~~~~~~~H~~Cf   60 (117)
                      ....|..|++.|.....+ -..+..+|..|+
T Consensus        77 ~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~  107 (109)
T PF10367_consen   77 ESTKCSVCGKPLGNSVFVVFPCGHVVHYSCI  107 (109)
T ss_pred             CCCCccCcCCcCCCceEEEeCCCeEEecccc
Confidence            345788888888543322 244566787775

Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	117
2d8y_A	91	Solution Structure Of The Lim Domain Of Epithelial		4e-17
2co8_A	82	Solution Structures Of The Lim Domain Of Human Nedd		8e-08
1cxx_A	113	Mutant R122a Of Quail Cysteine And Glycine-Rich Pro		8e-08
1qli_A	113	Quail Cysteine And Glycine-Rich Protein, Nmr, 15 Mi		4e-07
1a7i_A	81	Amino-Terminal Lim Domain From Quail Cysteine And G		1e-06
1ctl_A	85	Structure Of The Carboxy-Terminal Lim Domain From T		1e-05
1b8t_A	192	Solution Structure Of The Chicken Crp1 Length = 192		2e-05
2o13_A	58	Solution Structure Of The C-Terminal Lim Domain Of		2e-05
1iml_A	76	Cysteine Rich Intestinal Protein, Nmr, 48 Structure		2e-04
2o10_A	60	Solution Structure Of The N-Terminal Lim Domain Of		2e-04
2cu8_A	76	Solution Structure Of The Lim Domain Of Human Cyste		6e-04

>pdb|2D8Y|A Chain A, Solution Structure Of The Lim Domain Of Epithelial Protein Lost In Neoplasm Length = 91

Iteration: 1
 Score = 83.2 bits (204), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 35/69 (50%), Positives = 48/69 (69%)
Query: 35  CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISR 94
           C  C K VYP+E++  + ++FH +CFRC+ C   L + +Y   +G +YC PHF QLF S+
Sbjct: 18  CVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSK 77
Query: 95  GNYDEGFGS 103
           GNYDEGFGS
Sbjct: 78  GNYDEGFGS 86

>pdb|2CO8|A Chain A, Solution Structures Of The Lim Domain Of Human Nedd9 Interacting Protein With Calponin Homology And Lim Domains Length = 82

Iteration: 1
 Score = 52.0 bits (123), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 24/60 (40%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 32 SSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMN--NGHLYCLPHFKQ 89
            LC  C + +Y LE++  +G  FHR+CFRC  C   L    Y  +  +GH YCL H  Q
Sbjct: 15 GDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQ 74

>pdb|1CXX|A Chain A, Mutant R122a Of Quail Cysteine And Glycine-Rich Protein, Nmr, Minimized Structure Length = 113

Iteration: 1
 Score = 52.0 bits (123), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 26/73 (35%), Positives = 37/73 (50%), Gaps = 1/73 (1%)
Query: 35  CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISR 94
           C AC   VY  EK+   GK +H+ CFRC +C   L   + T   G +YC   + + F  +
Sbjct: 39  CSACGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFGPK 98
Query: 95  G-NYDEGFGSDQH 106
           G  Y +G G+  H
Sbjct: 99  GFGYGQGAGALVH 111

>pdb|1QLI|A Chain A, Quail Cysteine And Glycine-Rich Protein, Nmr, Minimized Average Structure Length = 113

Iteration: 1
 Score = 49.7 bits (117), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 36/73 (49%), Gaps = 1/73 (1%)
Query: 35  CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISR 94
           C  C   VY  EK+   GK +H+ CFRC +C   L   + T   G +YC   + + F  +
Sbjct: 39  CSRCGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFGPK 98
Query: 95  G-NYDEGFGSDQH 106
           G  Y +G G+  H
Sbjct: 99  GFGYGQGAGALVH 111

>pdb|1A7I|A Chain A, Amino-Terminal Lim Domain From Quail Cysteine And Glycine- Rich Protein, Nmr, Minimized Average Structure Length = 81

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 26/81 (32%), Positives = 43/81 (53%), Gaps = 4/81 (4%)
Query: 24  PSNGTGNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYC 83
           P+ G GN    C AC + VY  E+++ DG+ FHR CF C  C   L   +  +++  +YC
Sbjct: 2   PNWGGGNK---CGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYC 58
Query: 84  LPHFKQLFISRG-NYDEGFGS 103
              + + +  +G  Y +G G+
Sbjct: 59  KSCYGKKYGPKGYGYGQGAGT 79

>pdb|1CTL|A Chain A, Structure Of The Carboxy-Terminal Lim Domain From The Cysteine Rich Protein Crp Length = 85

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 20/60 (33%), Positives = 31/60 (51%)
Query: 32 SSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF 91
          S  C  C + VY  EK+   GK +H++CFRC +C   L   +    +G +YC   + + F
Sbjct: 8  SDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNF 67

>pdb|1B8T|A Chain A, Solution Structure Of The Chicken Crp1 Length = 192

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 20/60 (33%), Positives = 31/60 (51%)
Query: 32  SSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF 91
           S  C  C + VY  EK+   GK +H++CFRC +C   L   +    +G +YC   + + F
Sbjct: 115 SDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNF 174

>pdb|2O13|A Chain A, Solution Structure Of The C-Terminal Lim Domain Of MlpCRP3 Length = 58

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/57 (38%), Positives = 29/57 (50%)
Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF 91
          C  C K VY  EK+   GK +H+ CFRC  C   L   + T  +G LYC   + + F
Sbjct: 2  CPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCKVCYAKNF 58

>pdb|1IML|A Chain A, Cysteine Rich Intestinal Protein, Nmr, 48 Structures Length = 76

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 33/62 (53%), Gaps = 1/62 (1%)
Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYC-LPHFKQLFIS 93
          C  C+K+VY  E++ + GK +HR C +C +C   L    +  + G  YC  P +  +F  
Sbjct: 3  CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGP 62
Query: 94 RG 95
          +G
Sbjct: 63 KG 64

>pdb|2O10|A Chain A, Solution Structure Of The N-Terminal Lim Domain Of MlpCRP3 Length = 60

Iteration: 1
 Score = 40.4 bits (93), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 18/49 (36%), Positives = 26/49 (53%)
Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYC 83
          C AC K VY  E+I+ +G+ FH+ CF C  C   L   +   +   +YC
Sbjct: 4  CGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYC 52

>pdb|2CU8|A Chain A, Solution Structure Of The Lim Domain Of Human Cysteine-Rich Protein 2 Length = 76

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 21/63 (33%), Positives = 34/63 (53%), Gaps = 1/63 (1%)
Query: 32 SSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYC-LPHFKQL 90
          +S C  C+K VY  EK+ + GK +H+ C +C +C   L    +  ++G  +C  P +  L
Sbjct: 9  ASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATL 68
Query: 91 FIS 93
          F S
Sbjct: 69 FGS 71

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	117
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	3e-28
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	2e-24
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	1e-21
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	2e-21
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	2e-16
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	1e-20
2co8_A	82	NEDD9 interacting protein with calponin homology a	1e-19
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	2e-17
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	1e-16
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	6e-14
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	8e-14
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	3e-13
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	4e-12
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	5e-12
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	9e-12
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	1e-11
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	6e-08
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	1e-11
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	1e-11
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	1e-11
2cuq_A	80	Four and A half LIM domains 3; structural genomics	3e-11
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	4e-11
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	5e-11
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	8e-11
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	1e-10
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	2e-10
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	5e-10
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	1e-09
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	5e-07
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	2e-09
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	6e-07
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	2e-09
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	2e-09
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	4e-09
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	1e-08
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	2e-04
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	1e-08
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	1e-06
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	2e-08
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	2e-08
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	1e-07
2cor_A	79	Pinch protein; LIM domain, particularly interestin	1e-07
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	1e-07
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	4e-07
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	4e-06
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	6e-05
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	2e-04

>2d8y_A Eplin protein; LIM domain, epithelial protein LOST in neoplasm, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 91

 Score = 98.0 bits (244), Expect = 3e-28
 Identities = 35/88 (39%), Positives = 50/88 (56%)

Query: 19  NQPEAPSNGTGNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNN 78
           +   +           C  C K VYP+E++  + ++FH +CFRC+ C   L + +Y   +
Sbjct: 2   SSGSSGMKFQAPARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLH 61

Query: 79  GHLYCLPHFKQLFISRGNYDEGFGSDQH 106
           G +YC PHF QLF S+GNYDEGFGS   
Sbjct: 62  GRIYCKPHFNQLFKSKGNYDEGFGSGPS 89

>1a7i_A QCRP2 (LIM1); LIM domain containing proteins, metal-binding protein, zinc finger; NMR {Coturnix japonica} SCOP: g.39.1.3 g.39.1.3 PDB: 2o10_A Length = 81

 Score = 87.5 bits (217), Expect = 2e-24
 Identities = 22/73 (30%), Positives = 39/73 (53%), Gaps = 1/73 (1%)

Query: 32  SSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF 91
            + C AC + VY  E+++ DG+ FHR CF C  C   L   +  +++  +YC   + + +
Sbjct: 7   GNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKY 66

Query: 92  ISRG-NYDEGFGS 103
             +G  Y +G G+
Sbjct: 67  GPKGYGYGQGAGT 79

>2cu8_A Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein, zinc-binding, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 76

 Score = 80.5 bits (199), Expect = 1e-21
 Identities = 23/73 (31%), Positives = 39/73 (53%), Gaps = 1/73 (1%)

Query: 25 SNGTGNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCL 84
          S+G+   +S C  C+K VY  EK+ + GK +H+ C +C +C   L    +  ++G  +C 
Sbjct: 2  SSGSSGMASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCH 61

Query: 85 -PHFKQLFISRGN 96
           P +  LF S  +
Sbjct: 62 KPCYATLFGSGPS 74

>1b8t_A Protein (CRP1); LIM domain, muscle differentiation, contractIle; NMR {Gallus gallus} SCOP: g.39.1.3 g.39.1.3 g.39.1.3 g.39.1.3 PDB: 1ibi_A 1qli_A 1cxx_A 1ctl_A 2o13_A Length = 192

 Score = 83.1 bits (205), Expect = 2e-21
 Identities = 24/78 (30%), Positives = 40/78 (51%), Gaps = 1/78 (1%)

Query: 32  SSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF 91
           S  C  C + VY  EK+   GK +H++CFRC +C   L   +    +G +YC   + + F
Sbjct: 115 SDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNF 174

Query: 92  ISRG-NYDEGFGSDQHKR 108
             +G  + +G G+  H +
Sbjct: 175 GPKGFGFGQGAGALIHSQ 192

>1b8t_A Protein (CRP1); LIM domain, muscle differentiation, contractIle; NMR {Gallus gallus} SCOP: g.39.1.3 g.39.1.3 g.39.1.3 g.39.1.3 PDB: 1ibi_A 1qli_A 1cxx_A 1ctl_A 2o13_A Length = 192

 Score = 70.4 bits (172), Expect = 2e-16
 Identities = 21/88 (23%), Positives = 37/88 (42%), Gaps = 3/88 (3%)

Query: 24  PSNGTGNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYC 83
           P+ G G     C  C K VY  E+++ +G  FH++CF C  C   L   +  ++   +YC
Sbjct: 2   PNWGGGKK---CGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYC 58

Query: 84  LPHFKQLFISRGNYDEGFGSDQHKRKWQ 111
              + + +  +G             K +
Sbjct: 59  KSCYGKKYGPKGKGKGMGAGTLSTDKGE 86

>1iml_A CRIP, cysteine rich intestinal protein; metal-binding protein, LIM domain protein; NMR {Rattus rattus} SCOP: g.39.1.3 g.39.1.3 Length = 76

 Score = 77.8 bits (192), Expect = 1e-20
 Identities = 22/69 (31%), Positives = 35/69 (50%), Gaps = 4/69 (5%)

Query: 35  CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYC-LPHFKQLFIS 93
           C  C+K+VY  E++ + GK +HR C +C +C   L    +  + G  YC  P +  +F  
Sbjct: 3   CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGP 62

Query: 94  RGNYDEGFG 102
           +G    G G
Sbjct: 63  KGF---GRG 68

>2co8_A NEDD9 interacting protein with calponin homology and LIM domains; zinc finger protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 82

 Score = 75.8 bits (186), Expect = 1e-19
 Identities = 24/63 (38%), Positives = 31/63 (49%), Gaps = 2/63 (3%)

Query: 31 PSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESY--TMNNGHLYCLPHFK 88
             LC  C + +Y LE++  +G  FHR+CFRC  C   L    Y     +GH YCL H  
Sbjct: 14 AGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLP 73

Query: 89 QLF 91
          Q  
Sbjct: 74 QTD 76

>3f6q_B LIM and senescent cell antigen-like-containing domain protein 1; ILK, integrin-linked kinase, pinch, ankyrin repeat, ANK, IPP; 1.60A {Homo sapiens} PDB: 2kbx_B 3ixe_B Length = 72

 Score = 69.3 bits (170), Expect = 2e-17
 Identities = 20/61 (32%), Positives = 28/61 (45%), Gaps = 1/61 (1%)

Query: 32 SSLCFACNKKVYPLEK-IETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQL 90
          S+ C  C     P EK + ++G+L+H  CF C QC        +    G  YC   F+ L
Sbjct: 11 SATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQML 70

Query: 91 F 91
          F
Sbjct: 71 F 71

>1g47_A Pinch protein; LIM domain, Zn finger, cell adhesion; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 77

 Score = 67.8 bits (166), Expect = 1e-16
 Identities = 20/61 (32%), Positives = 28/61 (45%), Gaps = 1/61 (1%)

Query: 32 SSLCFACNKKVYPLEK-IETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQL 90
          S+ C  C     P EK + ++G+L+H  CF C QC        +    G  YC   F+ L
Sbjct: 11 SATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQML 70

Query: 91 F 91
          F
Sbjct: 71 F 71

>1x4k_A Skeletal muscle LIM-protein 3; LIM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 72

 Score = 60.9 bits (148), Expect = 6e-14
 Identities = 17/64 (26%), Positives = 31/64 (48%), Gaps = 1/64 (1%)

Query: 32 SSLCFACNKKVYPLEK-IETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQL 90
          SS C  C K + P  + +E  G  +H  CF C +C   +  +S+   +   +C+P +++ 
Sbjct: 5  SSGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQ 64

Query: 91 FISR 94
            S 
Sbjct: 65 HASG 68

>1wyh_A SLIM 2, skeletal muscle LIM-protein 2; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 72

 Score = 60.5 bits (147), Expect = 8e-14
 Identities = 21/61 (34%), Positives = 32/61 (52%), Gaps = 1/61 (1%)

Query: 32 SSLCFACNKKVYPLEK-IETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQL 90
          SS C AC + V P  + +E  G+ +H  CF C+ C   L   S+  + G  YC+P ++  
Sbjct: 5  SSGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENK 64

Query: 91 F 91
          F
Sbjct: 65 F 65

>1x63_A Skeletal muscle LIM-protein 1; LIM domain, four and A half LIM domains protein 1, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 82

 Score = 59.3 bits (144), Expect = 3e-13
 Identities = 16/61 (26%), Positives = 28/61 (45%), Gaps = 1/61 (1%)

Query: 35 CFACNKKVYPLEK-IETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFIS 93
          C  C K +   ++ +E  G ++H+ CF C+ C  V+   S+       YC+   +  F S
Sbjct: 18 CKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKFAS 77

Query: 94 R 94
           
Sbjct: 78 G 78

>1x64_A Alpha-actinin-2 associated LIM protein; LIM domain, PDZ and LIM domain 3, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: g.39.1.3 g.39.1.3 Length = 89

 Score = 56.3 bits (136), Expect = 4e-12
 Identities = 17/75 (22%), Positives = 24/75 (32%), Gaps = 1/75 (1%)

Query: 20 QPEAPSNGTGNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNG 79
                 G+     LC  C   +     ++   K  H  CF C  C   L+ + Y    G
Sbjct: 13 TKVHGGAGSAQRMPLCDKCGSGIVG-AVVKARDKYRHPECFVCADCNLNLKQKGYFFVEG 71

Query: 80 HLYCLPHFKQLFISR 94
           LYC  H +      
Sbjct: 72 ELYCETHARARTSGP 86

>1nyp_A Pinch protein; LIM domain, protein recognition, cell adhesion; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 PDB: 1u5s_B Length = 66

 Score = 55.8 bits (135), Expect = 5e-12
 Identities = 16/60 (26%), Positives = 24/60 (40%), Gaps = 1/60 (1%)

Query: 32 SSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF 91
            +C AC + +     +   GK +H   F C +C        +    G  YC  H+ QLF
Sbjct: 5  VPICGACRRPIEG-RVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLF 63

>2d8z_A Four and A half LIM domains 2; skeletal muscle LIM-protein 3, LIM-domain protein DRAL, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 70

 Score = 55.0 bits (133), Expect = 9e-12
 Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 1/60 (1%)

Query: 32 SSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF 91
          SS C  C K +     +    + +H+ CF CT C   L  + +T  +   YCL  F  L+
Sbjct: 5  SSGCVQCKKPITT-GGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLY 63

>2xqn_T Testin, TESS; metal-binding protein, cytoskeleton, focal adhesion, acrosom; 2.62A {Homo sapiens} Length = 126

 Score = 56.3 bits (136), Expect = 1e-11
 Identities = 14/60 (23%), Positives = 26/60 (43%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISR 94
          C  C++ ++  E  + + + +H   F C  C ++L  E Y M N    C P + +     
Sbjct: 6  CAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVV 65

>2xqn_T Testin, TESS; metal-binding protein, cytoskeleton, focal adhesion, acrosom; 2.62A {Homo sapiens} Length = 126

 Score = 46.6 bits (111), Expect = 6e-08
 Identities = 12/63 (19%), Positives = 26/63 (41%), Gaps = 3/63 (4%)

Query: 32  SSLCFACNKKVYPLEK-IETDGKLFH--RACFRCTQCCTVLRMESYTMNNGHLYCLPHFK 88
           + +C  C+  + P  + +  +   +H    CF C+ C   L  + +    G ++C    K
Sbjct: 63  AVVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECK 122

Query: 89  QLF 91
           +  
Sbjct: 123 KRM 125

>2dar_A PDZ and LIM domain protein 5; enigma homolog protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 90

 Score = 55.5 bits (134), Expect = 1e-11
 Identities = 16/66 (24%), Positives = 27/66 (40%), Gaps = 1/66 (1%)

Query: 29 GNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFK 88
          G  + +C  CN+ +     +   GK +H   F C  C   +    +    G LYC   ++
Sbjct: 22 GKRTPMCAHCNQVIRG-PFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYE 80

Query: 89 QLFISR 94
          + F S 
Sbjct: 81 KFFASG 86

>1x61_A Thyroid receptor interacting protein 6; LIM domain, OPA-interacting protein 1, zyxin related protein 1 (ZRP-1), structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 72

 Score = 54.8 bits (132), Expect = 1e-11
 Identities = 15/61 (24%), Positives = 23/61 (37%), Gaps = 1/61 (1%)

Query: 32 SSLCFACNKKVYPLEK-IETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQL 90
          SS C  C + V      +    ++FH  CF C+ C   LR + +       YC   +   
Sbjct: 5  SSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVAT 64

Query: 91 F 91
           
Sbjct: 65 L 65

>2cur_A Skeletal muscle LIM-protein 1; four and A half LIM domains protein 1, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 69

 Score = 54.7 bits (132), Expect = 1e-11
 Identities = 17/60 (28%), Positives = 24/60 (40%), Gaps = 1/60 (1%)

Query: 32 SSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF 91
          SS C  CNK +     I    + +H  CF C  C   L  + +T      YC+  +K   
Sbjct: 5  SSGCVKCNKAITS-GGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFV 63

>2cuq_A Four and A half LIM domains 3; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 80

 Score = 53.9 bits (130), Expect = 3e-11
 Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 1/57 (1%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF 91
          C  C+K +     +    + +HR C  CT C T L  + +T  +   YC+  F +LF
Sbjct: 18 CARCSKTLTQ-GGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELF 73

>2ehe_A Four and A half LIM domains 3; FHL-3, skeletal muscle LIM- protein 2, SLIM 2, FHL3, SLIM2, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 82

 Score = 54.0 bits (130), Expect = 4e-11
 Identities = 16/61 (26%), Positives = 26/61 (42%), Gaps = 1/61 (1%)

Query: 35 CFACNKKVYPLEK-IETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFIS 93
          C  C + +    + +  + + FH  CFRC +C   L  E +T  +  L C   +   F S
Sbjct: 18 CAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELLCNDCYCSAFSS 77

Query: 94 R 94
           
Sbjct: 78 G 78

>1x62_A C-terminal LIM domain protein 1; PDZ and LIM domain protein 1, LIM domain protein CLP-36, contractIle protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 79

 Score = 53.6 bits (129), Expect = 5e-11
 Identities = 14/74 (18%), Positives = 27/74 (36%), Gaps = 1/74 (1%)

Query: 21 PEAPSNGTGNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGH 80
            + S G      +C  C   +     ++   +  H  C+ CT C T L+ + +      
Sbjct: 4  GSSGSIGNAQKLPMCDKCGTGIVG-VFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQ 62

Query: 81 LYCLPHFKQLFISR 94
          +YC  H ++     
Sbjct: 63 IYCEKHARERVSGP 76

>2d8x_A Protein pinch; LIM domain, pinch protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 70

 Score = 52.8 bits (127), Expect = 8e-11
 Identities = 17/62 (27%), Positives = 24/62 (38%), Gaps = 1/62 (1%)

Query: 30 NPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQ 89
          + SS C  C + +     I+     +H  CFRC  C  VL    +  N G   C P   +
Sbjct: 3  SGSSGCHQCGEFIIG-RVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNR 61

Query: 90 LF 91
            
Sbjct: 62 EK 63

>1x3h_A Leupaxin; paxillin family, protein-protein interaction, LIM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 80

 Score = 52.3 bits (126), Expect = 2e-10
 Identities = 16/63 (25%), Positives = 24/63 (38%), Gaps = 1/63 (1%)

Query: 32 SSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF 91
          S  C  CN+ V     +     ++H  CF C  C T     S+   +G  +C  H+    
Sbjct: 15 SPKCGGCNRPVLE-NYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHHRR 73

Query: 92 ISR 94
           S 
Sbjct: 74 GSG 76

>2cup_A Skeletal muscle LIM-protein 1; four and half LIM domains protein 1, LIM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 g.39.1.3 Length = 101

 Score = 51.6 bits (124), Expect = 5e-10
 Identities = 15/64 (23%), Positives = 26/64 (40%), Gaps = 1/64 (1%)

Query: 32 SSLCFACNKKVYPLEK-IETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQL 90
          SS C  C K +    K +    + +H  CFRC +C   L  E++   +  + C     + 
Sbjct: 5  SSGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTRE 64

Query: 91 FISR 94
             +
Sbjct: 65 DSPK 68

>2rgt_A Fusion of LIM/homeobox protein LHX3, linker, INSU enhancer protein ISL-1; protein-protein complex, LIM domain, Zn finger, activator, D binding; 2.05A {Mus musculus} PDB: 3mmk_A Length = 169

 Score = 52.2 bits (125), Expect = 1e-09
 Identities = 15/66 (22%), Positives = 23/66 (34%), Gaps = 3/66 (4%)

Query: 32  SSLCFACNKKVYPLEK-IETDGKLFHRACFRCTQCCTVLRM--ESYTMNNGHLYCLPHFK 88
            + C AC   + P +        ++H  CF C  C   L    E Y M +  L C   ++
Sbjct: 65  GTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYE 124

Query: 89  QLFISR 94
                 
Sbjct: 125 TAKQGG 130

>2rgt_A Fusion of LIM/homeobox protein LHX3, linker, INSU enhancer protein ISL-1; protein-protein complex, LIM domain, Zn finger, activator, D binding; 2.05A {Mus musculus} PDB: 3mmk_A Length = 169

 Score = 44.8 bits (106), Expect = 5e-07
 Identities = 12/65 (18%), Positives = 27/65 (41%), Gaps = 1/65 (1%)

Query: 27 GTGNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPH 86
          G+     +C  C++ +     ++   + +H  C +C+ C   L    ++     +YC   
Sbjct: 1  GSTPEIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFS-RGESVYCKDD 59

Query: 87 FKQLF 91
          F + F
Sbjct: 60 FFKRF 64

>2xjy_A Rhombotin-2; oncoprotein, T-cell leukemia, proto-oncogene, transcription, developmental protein; 2.40A {Homo sapiens} PDB: 2xjz_A Length = 131

 Score = 50.9 bits (122), Expect = 2e-09
 Identities = 15/67 (22%), Positives = 27/67 (40%), Gaps = 2/67 (2%)

Query: 31  PSSLCFACNKKVYPLEKI-ETDGKLFHRACFRCTQCCTVLRM-ESYTMNNGHLYCLPHFK 88
              LC +C+K++   E       K++H  CF+C  C     + + Y + N  + C     
Sbjct: 65  QDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIY 124

Query: 89  QLFISRG 95
           +     G
Sbjct: 125 EWTKING 131

>2xjy_A Rhombotin-2; oncoprotein, T-cell leukemia, proto-oncogene, transcription, developmental protein; 2.40A {Homo sapiens} PDB: 2xjz_A Length = 131

 Score = 44.0 bits (104), Expect = 6e-07
 Identities = 11/60 (18%), Positives = 19/60 (31%), Gaps = 2/60 (3%)

Query: 34 LCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRME--SYTMNNGHLYCLPHFKQLF 91
           C  C + +     ++   + +H  C  C  C   L           G   C   + +LF
Sbjct: 4  TCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLF 63

>1x4l_A Skeletal muscle LIM-protein 3; LIM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 72

 Score = 49.0 bits (117), Expect = 2e-09
 Identities = 12/60 (20%), Positives = 20/60 (33%), Gaps = 3/60 (5%)

Query: 35 CFACNKKVYPLEK---IETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF 91
          C  C   +  L     I  + + +H  CF C +C   L    +      + C    K + 
Sbjct: 8  CAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGKDIS 67

>2egq_A FHL1 protein; LIM domain, four and A half LIM domains protein 1, skeletal muscle LIM- protein 1, SLIM 1, structural genomics NPPSFA; NMR {Homo sapiens} Length = 77

 Score = 49.0 bits (117), Expect = 2e-09
 Identities = 14/60 (23%), Positives = 25/60 (41%), Gaps = 4/60 (6%)

Query: 35 CFACNKKVYPLEK----IETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQL 90
          C  C   +    K    +  +G+ +H  CF C +C   L  + +  +   +YC    K+L
Sbjct: 18 CAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYCPDCAKKL 77

>2dj7_A Actin-binding LIM protein 3; LIM domain, Zn binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 80

 Score = 48.6 bits (116), Expect = 4e-09
 Identities = 15/60 (25%), Positives = 26/60 (43%), Gaps = 1/60 (1%)

Query: 32 SSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF 91
           S C  C +++   + +    K +H +CF+C  C  +L    Y   +G  YC   +   F
Sbjct: 15 PSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVIL-TGEYISKDGVPYCESDYHAQF 73

>1rut_X Flinc4, fusion protein of LMO4 protein and LIM domain- binding protein 1; B-tandem zipper, protein binding; 1.30A {Mus musculus} SCOP: g.39.1.3 g.39.1.3 g.39.1.3 g.39.1.3 PDB: 2dfy_X 2xjz_I 2xjy_B Length = 188

 Score = 49.6 bits (118), Expect = 1e-08
 Identities = 17/65 (26%), Positives = 27/65 (41%), Gaps = 2/65 (3%)

Query: 32  SSLCFACNKKVYPLEK-IETDGKLFHRACFRCTQCCTVLRM-ESYTMNNGHLYCLPHFKQ 89
           S  C AC + +   E  +   G ++H  CF C+ C   L   + +   NG L+C      
Sbjct: 69  SGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPT 128

Query: 90  LFISR 94
             I+ 
Sbjct: 129 ALING 133

>1rut_X Flinc4, fusion protein of LMO4 protein and LIM domain- binding protein 1; B-tandem zipper, protein binding; 1.30A {Mus musculus} SCOP: g.39.1.3 g.39.1.3 g.39.1.3 g.39.1.3 PDB: 2dfy_X 2xjz_I 2xjy_B Length = 188

 Score = 38.1 bits (88), Expect = 2e-04
 Identities = 13/63 (20%), Positives = 24/63 (38%), Gaps = 2/63 (3%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYT--MNNGHLYCLPHFKQLFI 92
          C  C  K+     +      +H  C +C+ C   L     +    +G + C   + +LF 
Sbjct: 8  CAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG 67

Query: 93 SRG 95
          + G
Sbjct: 68 NSG 70

>2jtn_A LIM domain-binding protein 1, LIM/homeobox protein LHX3; intramolecular (fusion) protein-protein complex, protein binding/transcription complex; NMR {Mus musculus} Length = 182

 Score = 49.1 bits (117), Expect = 1e-08
 Identities = 15/61 (24%), Positives = 23/61 (37%), Gaps = 3/61 (4%)

Query: 32  SSLCFACNKKVYPLEK-IETDGKLFHRACFRCTQCCTVLRM--ESYTMNNGHLYCLPHFK 88
            + C AC   + P +        ++H  CF C  C   L    E Y M +  L C   ++
Sbjct: 119 GTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYE 178

Query: 89  Q 89
            
Sbjct: 179 T 179

>2jtn_A LIM domain-binding protein 1, LIM/homeobox protein LHX3; intramolecular (fusion) protein-protein complex, protein binding/transcription complex; NMR {Mus musculus} Length = 182

 Score = 43.8 bits (103), Expect = 1e-06
 Identities = 12/73 (16%), Positives = 27/73 (36%), Gaps = 1/73 (1%)

Query: 19  NQPEAPSNGTGNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNN 78
                  +G      +C  C++ +     ++   + +H  C +C+ C   L    ++   
Sbjct: 47  GSGGHMGSGGTPEIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFS-RG 105

Query: 79  GHLYCLPHFKQLF 91
             +YC   F + F
Sbjct: 106 ESVYCKDDFFKRF 118

>2dlo_A Thyroid receptor-interacting protein 6; LIM domain, OPA-interacting protein 1, zyxin related protein 1 (ZRP-1), structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 81

 Score = 47.0 bits (112), Expect = 2e-08
 Identities = 14/58 (24%), Positives = 25/58 (43%), Gaps = 2/58 (3%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTM-NNGHLYCLPHFKQLF 91
          C  C++ +     +   GK +H  CF C  C   L    +T+     ++C+  F + F
Sbjct: 18 CATCSQPILD-RILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKF 74

>2l4z_A DNA endonuclease RBBP8, LIM domain transcription LMO4; protein-protein interaction, LIM-interaction DOM LMO4, RBBP8/CTIP, LIM-only protein; HET: DNA; NMR {Homo sapiens} Length = 123

 Score = 47.8 bits (113), Expect = 2e-08
 Identities = 14/75 (18%), Positives = 23/75 (30%), Gaps = 2/75 (2%)

Query: 19  NQPEAPSNGTGNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRME--SYTM 76
                     G     C  C  K+     +      +H  C +C+ C   L     S   
Sbjct: 48  GGSGGHMGSGGLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYT 107

Query: 77  NNGHLYCLPHFKQLF 91
            +G + C   + +LF
Sbjct: 108 KSGMILCRNDYIRLF 122

>1x6a_A LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 81

 Score = 44.8 bits (106), Expect = 1e-07
 Identities = 10/65 (15%), Positives = 20/65 (30%), Gaps = 3/65 (4%)

Query: 32 SSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRM--ESYTMNNGHLYCLPHFKQ 89
             C  C+  +     +      +H  CF C  C  ++        + +  LYC     +
Sbjct: 15 GEFCHGCSLLMTGPF-MVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNE 73

Query: 90 LFISR 94
          +    
Sbjct: 74 VVSGP 78

>2cor_A Pinch protein; LIM domain, particularly interesting NEW Cys- His protein, LIM and senescent cell antigen-like domains 1, structural genomics; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 79

 Score = 44.8 bits (106), Expect = 1e-07
 Identities = 15/66 (22%), Positives = 27/66 (40%), Gaps = 2/66 (3%)

Query: 29 GNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFK 88
          G    +C  C+  +   + +      +H   F C  C   L  ++  +  G LYCLP   
Sbjct: 12 GLGKYICQKCHAIIDE-QPLIFKNDPYHPDHFNCANCGKELTADAREL-KGELYCLPCHD 69

Query: 89 QLFISR 94
          ++ +S 
Sbjct: 70 KMGVSG 75

>1x68_A FHL5 protein; four-and-A-half LIM protein 5, zinc finger domain, AN actin- interacting protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 76

 Score = 44.5 bits (105), Expect = 1e-07
 Identities = 14/62 (22%), Positives = 24/62 (38%), Gaps = 3/62 (4%)

Query: 35 CFACNKKVYPL---EKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF 91
          C AC+K +  L   + I      +H  CF C +C   L  + +   N  ++C      + 
Sbjct: 8  CVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCGSGMD 67

Query: 92 IS 93
            
Sbjct: 68 TD 69

>1m3v_A FLIN4, fusion of the LIM interacting domain of LDB1 and the N-terminal LIM domain of LMO4...; fusion protein, LMO proteins, metal binding protein; NMR {Mus musculus} SCOP: g.39.1.3 g.39.1.3 Length = 122

 Score = 44.6 bits (105), Expect = 4e-07
 Identities = 14/78 (17%), Positives = 25/78 (32%), Gaps = 2/78 (2%)

Query: 35  CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYT--MNNGHLYCLPHFKQLFI 92
           C  C  K+     +      +H  C +C+ C   L     +    +G + C   + +LF 
Sbjct: 8   CAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG 67

Query: 93  SRGNYDEGFGSDQHKRKW 110
           + G    G          
Sbjct: 68  NSGAGGSGGHMGSGGDVM 85

>1v6g_A Actin binding LIM protein 2; LIM domain, zinc binding domain, ablim2, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 81

 Score = 40.9 bits (96), Expect = 4e-06
 Identities = 15/61 (24%), Positives = 24/61 (39%), Gaps = 2/61 (3%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRM-ESYTMNNGHLYCLPHFKQLFIS 93
          CF+C++ +   E +   GK +H  CF C  C       +  T N     C      + +S
Sbjct: 18 CFSCDQFIEG-EVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCSLPVSVS 76

Query: 94 R 94
           
Sbjct: 77 G 77

>1j2o_A FLIN2, fusion of rhombotin-2 and LIM domain-binding protein 1; LIM-interaction-domain (LID), metal binding protein; NMR {Mus musculus} SCOP: g.39.1.3 g.39.1.3 Length = 114

 Score = 38.5 bits (89), Expect = 6e-05
 Identities = 12/65 (18%), Positives = 21/65 (32%), Gaps = 2/65 (3%)

Query: 34 LCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVL--RMESYTMNNGHLYCLPHFKQLF 91
           C  C + +     ++   + +H  C  C  C   L           G   C   + +L 
Sbjct: 5  TCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLG 64

Query: 92 ISRGN 96
           S G+
Sbjct: 65 GSGGH 69

>1zfo_A LAsp-1; LIM domain, zinc-finger, metal-binding protein; NMR {Sus scrofa} SCOP: g.39.1.4 Length = 31

 Score = 35.4 bits (81), Expect = 2e-04
 Identities = 13/26 (50%), Positives = 16/26 (61%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACF 60
          C  C K VYP EK+    K +H+ACF
Sbjct: 6  CARCGKIVYPTEKVNCLDKFWHKACF 31

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	117
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	99.84
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	99.77
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	99.77
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	99.77
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.76
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	99.75
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.74
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	99.74
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.74
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	99.73
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.73
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	99.73
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	99.73
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	99.73
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	99.72
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.72
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.72
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.71
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	99.71
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.69
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	99.69
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.69
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	99.69
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.68
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.67
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.67
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.67
2co8_A	82	NEDD9 interacting protein with calponin homology a	99.67
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.66
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.66
2cor_A	79	Pinch protein; LIM domain, particularly interestin	99.65
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	99.65
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.65
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.64
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	99.64
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.64
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	99.61
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.59
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.58
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.57
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	99.56
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	99.55
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	99.42
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.35
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.28
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.23
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.15
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.08
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	98.46
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	98.17
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	97.23
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	97.03
2cuq_A	80	Four and A half LIM domains 3; structural genomics	96.93
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	96.92
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	96.78
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	96.74
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	96.5
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	96.38
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	96.1
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	95.23

>2d8y_A Eplin protein; LIM domain, epithelial protein LOST in neoplasm, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.84  E-value=8.6e-21  Score=115.10  Aligned_cols=78  Identities=45%  Similarity=1.021  Sum_probs=72.4

Q ss_pred             cccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCCccccccCccccc
Q psy12714         30 NPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRGNYDEGFGSDQHK  107 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc~~~~~~~~~~~~  107 (117)
                      ....+|..|++.|...+.+.+.++.||..||+|..|..+|....|+.+++.+||+.||.++|+++|.|.+++|..+|.
T Consensus        13 ~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~kc~~~~g~g~~~~~   90 (91)
T 2d8y_A           13 PARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNYDEGFGSGPSS   90 (91)
T ss_dssp             SSSCBCTTTCCBCCTTSEEECSSSEEETTTCBCTTTCCBCCTTTCCCSSSCCCCHHHHHHHSCCCSCCCSCCCCCCCC
T ss_pred             CCCCcCccCCCccCCceeEEECCCEECCCCCeeCCCCCCCCCCCcEeECCEEECHHHHHHHhCCCcCccCCcCCCCCC
Confidence            346799999999987788899999999999999999999998889999999999999999999999999999998774

>2cu8_A Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein, zinc-binding, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.77  E-value=4.7e-19  Score=103.97  Aligned_cols=68  Identities=31%  Similarity=0.654  Sum_probs=63.3

Q ss_pred             CCcccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccH-HHHHhhhCCCC
Q psy12714         28 TGNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCL-PHFKQLFISRG   95 (117)
Q Consensus        28 ~~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~-~~y~~~~~~kc   95 (117)
                      +....++|..|+++|..++.+.+.++.||+.||+|..|+++|....|+.+++.+||. .||.++|+|+|
T Consensus         5 ~~~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~~kc   73 (76)
T 2cu8_A            5 SSGMASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFGSGP   73 (76)
T ss_dssp             CCCCCCBCTTTCCBCCTTTEEEETTEEEETTTCBCSSSCCBCCTTSCEEETTEEECTTTHHHHHSCSSC
T ss_pred             cCCCCCCCcCCCCEeECCeEEEECCeEeeCCCCCCCCCCCccCCCceEeECCEEecchHHHHHhccccc
Confidence            456678999999999878889999999999999999999999988899999999999 79999999998

>1x64_A Alpha-actinin-2 associated LIM protein; LIM domain, PDZ and LIM domain 3, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: g.39.1.3 g.39.1.3

Probab=99.77  E-value=1.2e-18  Score=105.13  Aligned_cols=66  Identities=24%  Similarity=0.535  Sum_probs=60.7

Q ss_pred             CcccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC
Q psy12714         29 GNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      .....+|..|++.|.. +.+.+.++.||..||+|..|++.|....|+.+++.+||+.||.++|++|+
T Consensus        22 ~~~~~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~p~~   87 (89)
T 1x64_A           22 AQRMPLCDKCGSGIVG-AVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETHARARTSGPS   87 (89)
T ss_dssp             CCSCCBCTTTCCBCCS-CCEESSSCEECTTTCCCSSSCCCTTTSCCEEETTEEECHHHHHHHSSSCC
T ss_pred             CCcCCCcccCCCEecc-cEEEECCceECccCCEecCCCCCCCCCCeEeECCEEECHHHHHHHhCCCC
Confidence            4556799999999975 66889999999999999999999998889999999999999999999997

>2dar_A PDZ and LIM domain protein 5; enigma homolog protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.77  E-value=5.8e-19  Score=106.76  Aligned_cols=66  Identities=24%  Similarity=0.563  Sum_probs=61.2

Q ss_pred             CcccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC
Q psy12714         29 GNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      ....++|..|++.|. ++.+.+.++.||+.||+|..|++.|....|+.+++.+||..||.++|+|+|
T Consensus        22 ~~~~~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~c   87 (90)
T 2dar_A           22 GKRTPMCAHCNQVIR-GPFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFFASGP   87 (90)
T ss_dssp             TTCCCBBSSSCCBCC-SCEEEETTEEECTTTCBCSSSCCBCSSSCBEESSSCEECHHHHHHHTSCCC
T ss_pred             CCCCCCCccCCCEec-ceEEEECCccccccCCccCCCCCCCCCCEeEeECCEEECHHHHHHHcCCCC
Confidence            456789999999995 677889999999999999999999998888889999999999999999999

>2cup_A Skeletal muscle LIM-protein 1; four and half LIM domains protein 1, LIM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 g.39.1.3

Probab=99.76  E-value=7.1e-19  Score=108.24  Aligned_cols=66  Identities=21%  Similarity=0.517  Sum_probs=60.7

Q ss_pred             ccccccccccccccc-CccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC
Q psy12714         30 NPSSLCFACNKKVYP-LEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~-~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      ...++|..|+++|.. ++.+.++++.||..||+|..|+++|....|+.+++++||+.||.++|+++|
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~C   69 (101)
T 2cup_A            3 SGSSGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSPKC   69 (101)
T ss_dssp             SCCCBCSSSCCBCCSSSCEEEETTEEEETTTCCCSSSCCCTTSSCCEEETTEEECHHHHTTCCCCBC
T ss_pred             CCCCcCcccCCcccCCceEEEECccChhhcCCcccccCCCCCcCeeECcCCEEEChhHhhhhcCCcc
Confidence            456799999999974 677889999999999999999999988889999999999999999999998

>2dj7_A Actin-binding LIM protein 3; LIM domain, Zn binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.75  E-value=1.8e-18  Score=102.62  Aligned_cols=65  Identities=25%  Similarity=0.567  Sum_probs=60.2

Q ss_pred             cccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC
Q psy12714         30 NPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      ...++|..|++.|+.++.+.++++.||+.||+|..|+.+|.. .|+.+++++||+.||.++|+++|
T Consensus        13 ~~~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~-~~~~~~g~~yC~~~y~~~fg~~C   77 (80)
T 2dj7_A           13 RGPSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTG-EYISKDGVPYCESDYHAQFGSGP   77 (80)
T ss_dssp             SSCSCCTTTCCCCSSSCCEEETTEEECTTTCBCSSSCCBCSS-CCEEETTEEECTTHHHHHTTCCS
T ss_pred             CCCCCCcCcCCeeCCCeEEEECCcccccccCCcCcCCCCcCC-CeEEECCEEECHHHHHHHcCCCC
Confidence            346799999999987888999999999999999999999975 68889999999999999999999

>1a7i_A QCRP2 (LIM1); LIM domain containing proteins, metal-binding protein, zinc finger; NMR {Coturnix japonica} SCOP: g.39.1.3 g.39.1.3 PDB: 2o10_A

Probab=99.74  E-value=8.3e-19  Score=104.08  Aligned_cols=67  Identities=28%  Similarity=0.698  Sum_probs=57.5

Q ss_pred             CcccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC
Q psy12714         29 GNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      ....++|..|+++|...+.+.+.++.||+.||+|..|+++|....|+.+++.+||..||.++|+++|
T Consensus         4 ~~~~~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c   70 (81)
T 1a7i_A            4 WGGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYGPKG   70 (81)
T ss_dssp             ----CBCSSSCCBCSSTTEEEETTEEEESSSEECSSSCCEECSSCCEEETTEEECSHHHHHHCC---
T ss_pred             CCCCCcCcCcCccccCceeEEeCCcccccccCccCCCCCCCCCCCeEeeCCEEECHHHHHHHhCCcc
Confidence            3456899999999987888899999999999999999999998889999999999999999999999

>1nyp_A Pinch protein; LIM domain, protein recognition, cell adhesion; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 PDB: 1u5s_B

Probab=99.74  E-value=2.1e-18  Score=98.58  Aligned_cols=64  Identities=25%  Similarity=0.461  Sum_probs=59.1

Q ss_pred             cccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCC
Q psy12714         30 NPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISR   94 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~k   94 (117)
                      ...++|.+|+++|. ++.+.+.++.||..||+|..|+.+|....|+.+++.+||+.||.++|+||
T Consensus         3 ~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~k   66 (66)
T 1nyp_A            3 MGVPICGACRRPIE-GRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLFGDV   66 (66)
T ss_dssp             CCCCEETTTTEECC-SCEECCTTSBEETTTCBCTTTCCBCSSSCCEEETTEEECHHHHHHHCSCC
T ss_pred             cCCCCCcccCCEec-ceEEEECccccccCcCEECCCCCCCCCCceEeECCcEECHHHHHHHhCCC
Confidence            45679999999997 67788999999999999999999999888999999999999999999986

>2xqn_T Testin, TESS; metal-binding protein, cytoskeleton, focal adhesion, acrosom; 2.62A {Homo sapiens}

Probab=99.74  E-value=2.2e-18  Score=109.98  Aligned_cols=65  Identities=22%  Similarity=0.456  Sum_probs=60.8

Q ss_pred             ccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC
Q psy12714         31 PSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        31 ~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      ..++|.+|++.|..++.+.++++.||+.||+|..|+++|....|+.++|.+||..||.++|+++|
T Consensus         2 ~~~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C   66 (126)
T 2xqn_T            2 EKPRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVVC   66 (126)
T ss_dssp             CCCBBTTTSSBCCSSCEEEETTEEECGGGSBCTTTCCBCTTSEEEEETTEEEEHHHHHHHSCCBC
T ss_pred             cCCCCccCCCEeCCceEEeeCCCCccCCCCCcCCCCCCCCcCEEEeECCEEechHHhCcCcCccC
Confidence            45799999999987777899999999999999999999998888899999999999999999998

>1wyh_A SLIM 2, skeletal muscle LIM-protein 2; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.73  E-value=3.6e-18  Score=99.01  Aligned_cols=66  Identities=35%  Similarity=0.713  Sum_probs=60.6

Q ss_pred             cccccccccccccccC-ccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC
Q psy12714         30 NPSSLCFACNKKVYPL-EKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~-~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      ...++|..|+++|... +.+.+.++.||..||+|..|+++|....|+.+++.+||..||.++|+++|
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C   69 (72)
T 1wyh_A            3 SGSSGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFASGP   69 (72)
T ss_dssp             CCCCBCSSSCCBCCSSSCEECSTTCCEETTTCBCTTTCCBTTTSCEEEETTEEEEHHHHHHHTSCCC
T ss_pred             ccCCCCccCCCccccCccEEEECccccCcccCeECCCCCcCCCCccCCcCCeEECHHHHHHHccCcC
Confidence            4567999999999874 66789999999999999999999998888899999999999999999999

>1x4k_A Skeletal muscle LIM-protein 3; LIM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.73  E-value=4.5e-18  Score=98.61  Aligned_cols=66  Identities=27%  Similarity=0.644  Sum_probs=60.7

Q ss_pred             cccccccccccccccC-ccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC
Q psy12714         30 NPSSLCFACNKKVYPL-EKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~-~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      ...++|..|++.|... ..+.+.++.||..||+|..|+++|....|+.+++.+||..||.++|+++|
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C   69 (72)
T 1x4k_A            3 SGSSGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQHASGP   69 (72)
T ss_dssp             SCCCCBSSSCCCCCSSSCEEEETTEEEETTTTCCSSSCCCCCSSSEEEETTEEEEHHHHHHHTSSCC
T ss_pred             ccCCCCccCCCcccCCceEEEECcCeecccCCcccccCCccCCCccCccCCeEECHHHHhHHhCCCC
Confidence            4567999999999875 46789999999999999999999998889999999999999999999999

>2d8z_A Four and A half LIM domains 2; skeletal muscle LIM-protein 3, LIM-domain protein DRAL, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.73  E-value=4.9e-18  Score=98.01  Aligned_cols=65  Identities=29%  Similarity=0.602  Sum_probs=60.0

Q ss_pred             cccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC
Q psy12714         30 NPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      ...++|..|+++|. ++.+.+.++.||+.||+|..|+++|....|+.+++.+||..||.++|+++|
T Consensus         3 ~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c   67 (70)
T 2d8z_A            3 SGSSGCVQCKKPIT-TGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLYASGP   67 (70)
T ss_dssp             CCCCBCSSSCCBCC-SSEEESSSSEEETTTSBCSSSCCBCTTSCCEESSSSEECHHHHHHHTCCCC
T ss_pred             CCCCCCcccCCeec-cceEEECccccCCCCCccCCCCCcCCcCceEeeCCeEECHHHHHHHhcccc
Confidence            45679999999996 466899999999999999999999988889899999999999999999998

>2cur_A Skeletal muscle LIM-protein 1; four and A half LIM domains protein 1, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.73  E-value=4.7e-18  Score=97.86  Aligned_cols=65  Identities=26%  Similarity=0.571  Sum_probs=60.1

Q ss_pred             cccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC
Q psy12714         30 NPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      ...++|..|+++|. ++.+.+.++.||..||+|..|+++|....|+.+++.+||..||.++|+++|
T Consensus         3 ~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C   67 (69)
T 2cur_A            3 SGSSGCVKCNKAIT-SGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFVSGPS   67 (69)
T ss_dssp             CCCCCCSSSCCCCC-TTCEEETTEEECTTTTBCTTTCCBCTTSCEEECSSCEEEHHHHHHHHTCSC
T ss_pred             CCcCCCcccCCEeC-cceEEECccccccCcCEECCCCCCCCCCccEeECCEEECHHHhHHHhcCCC
Confidence            45679999999996 467899999999999999999999998888899999999999999999998

>1x62_A C-terminal LIM domain protein 1; PDZ and LIM domain protein 1, LIM domain protein CLP-36, contractIle protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.73  E-value=4.2e-18  Score=100.63  Aligned_cols=65  Identities=18%  Similarity=0.442  Sum_probs=59.8

Q ss_pred             cccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC
Q psy12714         30 NPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      ....+|..|++.|.. +.+.+.++.||..||+|..|++.|....|+.+++.+||+.||.++|+|++
T Consensus        13 ~~~~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~p~g   77 (79)
T 1x62_A           13 QKLPMCDKCGTGIVG-VFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEKHARERVSGPS   77 (79)
T ss_dssp             CCCCCCSSSCCCCCS-SCEECSSCEECTTTTSCSSSCCCHHHHCCEESSSCEECHHHHHHHHSSCC
T ss_pred             CCCCccccCCCCccC-cEEEECcceeCcCcCeeCCCCCCCCCCCeEeECCEEECHHHHHHHhCCCC
Confidence            456799999999975 67899999999999999999999988789999999999999999999987

>1g47_A Pinch protein; LIM domain, Zn finger, cell adhesion; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.72  E-value=7.1e-18  Score=98.97  Aligned_cols=68  Identities=29%  Similarity=0.611  Sum_probs=59.8

Q ss_pred             CcccccccccccccccCcc-EEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCCc
Q psy12714         29 GNPSSLCFACNKKVYPLEK-IETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRGN   96 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~~~~-~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc~   96 (117)
                      .....+|.+|+++|...+. +.+.++.||..||+|..|+++|..+.|+.++|.+||+.||.++|+++|.
T Consensus         8 ~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~~C~   76 (77)
T 1g47_A            8 ALASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAPCWI   76 (77)
T ss_dssp             CCCCCBCSSSCCBCCSTTTCEEETTEEECTTTCCCTTTCCCCGGGCSEEETTEEECHHHHHHHCCCC--
T ss_pred             CCCCCCchhcCCccCCCceEEEeCccEeccccCeECCCCCCCCCCCeEeECCeEeCHHHHHHHhhcccC
Confidence            3456799999999986554 5799999999999999999999988899999999999999999999994

>1iml_A CRIP, cysteine rich intestinal protein; metal-binding protein, LIM domain protein; NMR {Rattus rattus} SCOP: g.39.1.3 g.39.1.3

Probab=99.72  E-value=5.1e-18  Score=99.52  Aligned_cols=63  Identities=32%  Similarity=0.761  Sum_probs=59.4

Q ss_pred             ccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccH-HHHHhhhCCCC
Q psy12714         33 SLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCL-PHFKQLFISRG   95 (117)
Q Consensus        33 ~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~-~~y~~~~~~kc   95 (117)
                      ++|..|+++|..++.+.+.++.||..||+|..|+.+|....|+.+++.+||. .||.++|+++|
T Consensus         1 p~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~~~C   64 (76)
T 1iml_A            1 PKCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKG   64 (76)
T ss_dssp             CBCTTTSSBCCGGGEEEETTEEEETTTCBCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCCC
T ss_pred             CcCCCCCCEEECceEEEECCccccCCCCCccccCccCCCCceECcCCeEeeCHHHHHHHhCccC
Confidence            4799999999878889999999999999999999999988899999999999 69999999999

>1x68_A FHL5 protein; four-and-A-half LIM protein 5, zinc finger domain, AN actin- interacting protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.72  E-value=2.3e-18  Score=101.01  Aligned_cols=70  Identities=21%  Similarity=0.404  Sum_probs=62.6

Q ss_pred             ccccccccccccccc---CccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCCcccc
Q psy12714         30 NPSSLCFACNKKVYP---LEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRGNYDE   99 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~---~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc~~~~   99 (117)
                      ...++|..|+++|..   .+.+.+.++.||..||+|..|+++|....|+.+++.+||..||.++|+++|....
T Consensus         3 ~~~~~C~~C~~~I~~~g~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~C~~~s   75 (76)
T 1x68_A            3 SGSSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCGSGMDTDISGPSS   75 (76)
T ss_dssp             TCCCCCTTTCCCCCTTTTCCEEEETTEEEEGGGCBCTTTCCBCSSSCEEEETTEEEETTTTCCCCCCSSSSSC
T ss_pred             ccCCCCccCCCcccCCCCceeEEECCcccCcccCChhhCCCcCCCCceEeECCEEECHHHhhhhhCCcCCCCC
Confidence            456899999999973   3678899999999999999999999988899999999999999999999995443

>1x4l_A Skeletal muscle LIM-protein 3; LIM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.71  E-value=1.2e-17  Score=96.87  Aligned_cols=66  Identities=20%  Similarity=0.423  Sum_probs=59.5

Q ss_pred             ccccccccccccccc---CccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC
Q psy12714         30 NPSSLCFACNKKVYP---LEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~---~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      ...++|..|+++|..   .+.+.+.++.||..||+|..|+++|....|+.+++.+||..||.++|+|++
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~p~~   71 (72)
T 1x4l_A            3 SGSSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGKDISGPSS   71 (72)
T ss_dssp             SCSCSBTTTTBCCCCSSSCSCEECSSCEECTTTCBCSSSCCBCTTSCCEECSSSEECHHHHHTCCCSSC
T ss_pred             CCCCCCcCCCccccCCCCcceEEECCcccCcccCEeccCCCcCCCCccEeECCEEEChhHcCcccCCCC
Confidence            456799999999974   366789999999999999999999998888889999999999999999976

>1j2o_A FLIN2, fusion of rhombotin-2 and LIM domain-binding protein 1; LIM-interaction-domain (LID), metal binding protein; NMR {Mus musculus} SCOP: g.39.1.3 g.39.1.3

Probab=99.71  E-value=2.7e-17  Score=103.43  Aligned_cols=65  Identities=18%  Similarity=0.340  Sum_probs=59.5

Q ss_pred             ccccccccccccccCccEEeCCCcccccCcccccCCccccC--CCccccCCeeccHHHHHhhhCCCC
Q psy12714         31 PSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRM--ESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        31 ~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~--~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      ..++|.+|+++|...+.+.+.++.||+.||+|..|+.+|..  ..|+.+++.+||+.||.++|+++|
T Consensus         2 ~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~~y~~~f~~~c   68 (114)
T 1j2o_A            2 SLLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGGSGG   68 (114)
T ss_dssp             CCBCBSSSCSCBCSSEEEECSSSEECTTTCCCSSSCSCCCCSSSCCCCBTTBCCCHHHHHHHHTSCC
T ss_pred             cCCCCcCCCCeeCCcEEEEECchhHHHhcCcccccCCchhcCCCeeEEECCeeechHHHHHHhCccc
Confidence            35789999999987767899999999999999999999975  578899999999999999999997

>1x3h_A Leupaxin; paxillin family, protein-protein interaction, LIM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.69  E-value=3e-17  Score=96.97  Aligned_cols=65  Identities=25%  Similarity=0.480  Sum_probs=60.2

Q ss_pred             cccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC
Q psy12714         30 NPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      ...++|..|+++|.. +.+.+.++.||..||+|..|+++|....++.+++.+||+.||.++|+++|
T Consensus        13 ~~~~~C~~C~~~I~~-~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~~y~~~f~~~C   77 (80)
T 1x3h_A           13 MFSPKCGGCNRPVLE-NYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHHRRGSGP   77 (80)
T ss_dssp             CCSCBCTTTCCBCCS-SCEEETTEEECTTTCBCSSSCCBSCSSCCEESSSCEECHHHHHHHHSSSC
T ss_pred             hcCCccccCCCeecc-eeEEECCCeEecCcCChhhCCCCCCCCcEEeECCEEECHHHHHHHcCCCC
Confidence            446799999999975 67899999999999999999999998889999999999999999999999

>2d8x_A Protein pinch; LIM domain, pinch protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.69  E-value=3.8e-17  Score=94.26  Aligned_cols=65  Identities=28%  Similarity=0.484  Sum_probs=59.4

Q ss_pred             cccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC
Q psy12714         30 NPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      .+..+|..|++.|. ++.+.+.++.||+.||+|..|+.+|....|+.+++.+||..||.++|+++.
T Consensus         3 ~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~   67 (70)
T 2d8x_A            3 SGSSGCHQCGEFII-GRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNREKASGP   67 (70)
T ss_dssp             CCSSBCSSSCCBCC-SCCEEETTEEECTTTSBCSSSCCBCSSSCCEEETTEEECHHHHHHHHCCCS
T ss_pred             CCCCcCccCCCEec-ceEEEECcccccccCCEeCCCCCcCCCCccEeECCeEECHHHhhhhcCCCC
Confidence            45679999999997 567899999999999999999999998888889999999999999999875

>1x63_A Skeletal muscle LIM-protein 1; LIM domain, four and A half LIM domains protein 1, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.69  E-value=3.6e-17  Score=97.03  Aligned_cols=67  Identities=25%  Similarity=0.618  Sum_probs=60.8

Q ss_pred             cccccccccccccccCcc-EEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCCc
Q psy12714         30 NPSSLCFACNKKVYPLEK-IETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRGN   96 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~-~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc~   96 (117)
                      ...++|..|++.|..++. +.+.++.||..||+|..|+++|....|+.+++.+||..||.++|++++.
T Consensus        13 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~~~   80 (82)
T 1x63_A           13 EDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKFASGPS   80 (82)
T ss_dssp             CCSCBCSSSCCBCCSSSCEEECSSCEEETTTCCCSSSCCCCTTSCEEEETTEEEEHHHHHHHTSCCCS
T ss_pred             ccCCcCccCCcccccCceEEEECccccccccCchhhCCCccCCCccEeeCCEEECHHHHHHHhCCCCC
Confidence            446799999999986554 7899999999999999999999988899999999999999999999984

>2l4z_A DNA endonuclease RBBP8, LIM domain transcription LMO4; protein-protein interaction, LIM-interaction DOM LMO4, RBBP8/CTIP, LIM-only protein; HET: DNA; NMR {Homo sapiens}

Probab=99.69  E-value=5.3e-17  Score=103.50  Aligned_cols=64  Identities=22%  Similarity=0.446  Sum_probs=57.4

Q ss_pred             CcccccccccccccccCccEEeCCCcccccCcccccCCcccc--CCCccccCCeeccHHHHHhhhC
Q psy12714         29 GNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLR--MESYTMNNGHLYCLPHFKQLFI   92 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~--~~~~~~~~g~~~C~~~y~~~~~   92 (117)
                      ....++|.+|+++|+..+.+.+.++.||..||+|..|+..|.  ...|+.+++.+||+.||.++|+
T Consensus        58 ~~~~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~~g~~f~~~dg~~yC~~cy~~~Fg  123 (123)
T 2l4z_A           58 GLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG  123 (123)
T ss_dssp             CSSCSBBSSSSSBCCSSSEEEETTEEEETTTSBCTTTCCBGGGTTCCCBCSSSCCBCHHHHHHHCC
T ss_pred             CccCCcCcCCCCCcCCcEEEEeCCcEEcccccCcCcCCCcccccCCceEEECCEEeCHHHhhhhcC
Confidence            445789999999998776789999999999999999999997  3578899999999999999986

>2xjy_A Rhombotin-2; oncoprotein, T-cell leukemia, proto-oncogene, transcription, developmental protein; 2.40A {Homo sapiens} PDB: 2xjz_A

Probab=99.68  E-value=3.3e-17  Score=105.03  Aligned_cols=64  Identities=17%  Similarity=0.346  Sum_probs=57.9

Q ss_pred             cccccccccccccCccEEeCCCcccccCcccccCCccccC--CCccccCCeeccHHHHHhhhCC--CC
Q psy12714         32 SSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRM--ESYTMNNGHLYCLPHFKQLFIS--RG   95 (117)
Q Consensus        32 ~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~--~~~~~~~g~~~C~~~y~~~~~~--kc   95 (117)
                      .++|..|+++|...+.+.++++.||+.||+|..|+.+|..  ..|+.++|++||+.||.++|++  +|
T Consensus         2 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~~~~C   69 (131)
T 2xjy_A            2 LLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLC   69 (131)
T ss_dssp             CCBBTTTCCBCCSSEEEEETTEEEETTTCBCTTTCCBCSSTTCCEEEETTEEECHHHHHHHHCCCEEC
T ss_pred             cccCcCCCCEeCCcEEEEECCCcccHHHcccCcCCCccccCCCeEEEECCEEeecCchhhhCCCccCh
Confidence            4689999999987666889999999999999999999963  5788999999999999999999  76

>2dlo_A Thyroid receptor-interacting protein 6; LIM domain, OPA-interacting protein 1, zyxin related protein 1 (ZRP-1), structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.67  E-value=6.3e-17  Score=95.87  Aligned_cols=65  Identities=23%  Similarity=0.567  Sum_probs=58.6

Q ss_pred             cccccccccccccccCccEEeCCCcccccCcccccCCccccCCCcccc-CCeeccHHHHHhhhCCCC
Q psy12714         30 NPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMN-NGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~-~g~~~C~~~y~~~~~~kc   95 (117)
                      ....+|..|+++|. ++.+.+.++.||+.||+|..|+++|....|+.. ++.+||..||.++|+++|
T Consensus        13 ~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~g~~yC~~cy~~~f~~~C   78 (81)
T 2dlo_A           13 ATLEKCATCSQPIL-DRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFASGP   78 (81)
T ss_dssp             SSCCBCTTTCCBCC-SCCEEETTEEECTTTCBCSSSCCBCTTSCEECCTTCCCEEHHHHHHHTTSSS
T ss_pred             cCCCccccCCCeec-ceeEEECCccccHHhcCcccCCCccCCCeeEECCCCEEECHHHHHHHhcCcC
Confidence            46789999999997 467899999999999999999999987767665 789999999999999999

>2cuq_A Four and A half LIM domains 3; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.67  E-value=7.1e-17  Score=95.34  Aligned_cols=66  Identities=27%  Similarity=0.573  Sum_probs=60.3

Q ss_pred             cccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCCc
Q psy12714         30 NPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRGN   96 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc~   96 (117)
                      ...++|..|+++|.. +.+.+.++.||..||+|..|+++|....|+.+++.+||..||.++|+++|.
T Consensus        13 ~~~~~C~~C~~~I~~-~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~   78 (80)
T 2cuq_A           13 KFAPRCARCSKTLTQ-GGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELFASGPS   78 (80)
T ss_dssp             CSSCCCTTTCCCCCS-CCEESSSSEECTTTCBCSSSCCBCTTCCEEECSSSEEEHHHHHHHTTCSTT
T ss_pred             ccCCcCCCCCCEecC-cEEEECCchhhhhhCCcccCCCcCCCCeeEeECCEEECHHHHHHHcCCCCC
Confidence            456799999999964 578999999999999999999999887888999999999999999999983

>2jtn_A LIM domain-binding protein 1, LIM/homeobox protein LHX3; intramolecular (fusion) protein-protein complex, protein binding/transcription complex; NMR {Mus musculus}

Probab=99.67  E-value=9.1e-17  Score=108.40  Aligned_cols=66  Identities=17%  Similarity=0.466  Sum_probs=59.5

Q ss_pred             CcccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC
Q psy12714         29 GNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      ....++|..|+++|...+.+.+.++.||+.||+|..|+++|.... +.++|.+||..||.++|+++|
T Consensus        57 ~~~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~-f~~~g~~yC~~~y~~~f~~kC  122 (182)
T 2jtn_A           57 TPEIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERC-FSRGESVYCKDDFFKRFGTKC  122 (182)
T ss_dssp             CCSCCBCBTSSSBCCCSEEEEETTEEECSSTTSCTTTCCCCSSCC-EEETTEEECHHHHHHTTSCCC
T ss_pred             CCCCCcCccCCCCccCceeEEecCCeEccccCccCCCCCccCCCc-eeECCEeeecCcccccccccc
Confidence            455689999999998766678999999999999999999998765 578999999999999999998

>2co8_A NEDD9 interacting protein with calponin homology and LIM domains; zinc finger protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.67  E-value=2.8e-17  Score=97.84  Aligned_cols=66  Identities=36%  Similarity=0.841  Sum_probs=58.6

Q ss_pred             CcccccccccccccccCccEEeCCCcccccCcccccCCccccCCCcc--ccCCeeccHHHHHhhhCCC
Q psy12714         29 GNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYT--MNNGHLYCLPHFKQLFISR   94 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~--~~~g~~~C~~~y~~~~~~k   94 (117)
                      .....+|.+|++.|+..+.+.++++.||..||+|..|++.|....|+  .+++++||+.||.++|++-
T Consensus        12 ~~~~~~C~~C~~~I~~~e~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~~   79 (82)
T 2co8_A           12 AGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQTDSGP   79 (82)
T ss_dssp             CCSSCBCSSSCCBCCTTTBCCBTTBCCBTTTCBCSSSCCBCCTTSEECCTTTCCCEETTTCCCCCCCC
T ss_pred             CCCCCCCcccCCCcccceEEEECCCeeCCCcCEEcCCCCCcCCCceeEeCcCCEEEChHHHHhhhcCC
Confidence            44567999999999888888899999999999999999999988877  4799999999999888763

>2ehe_A Four and A half LIM domains 3; FHL-3, skeletal muscle LIM- protein 2, SLIM 2, FHL3, SLIM2, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.66  E-value=3e-17  Score=97.44  Aligned_cols=67  Identities=24%  Similarity=0.526  Sum_probs=60.1

Q ss_pred             Cccccccccccccccc-CccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC
Q psy12714         29 GNPSSLCFACNKKVYP-LEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~-~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      ....++|..|+++|.. ...+.+.++.||..||+|..|+++|....|+.+++.+||..||.++|+++|
T Consensus        12 ~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~~~~C~~c~~~~~~~~C   79 (82)
T 2ehe_A           12 NTFANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELLCNDCYCSAFSSGP   79 (82)
T ss_dssp             CCCSCBCTTTCCBCCSSCCBCCCSSCCCBTTTSBCTTTCCBCSSCCEEEETTEEEETTTSSCCGGGSS
T ss_pred             cccCCcCccCCCccccCcEEEEeCCccccccCCeecCCCCccCCCccEeeCCEEECHHHHhhhcCCCC
Confidence            3456799999999974 455678999999999999999999998888899999999999999999998

>2rgt_A Fusion of LIM/homeobox protein LHX3, linker, INSU enhancer protein ISL-1; protein-protein complex, LIM domain, Zn finger, activator, D binding; 2.05A {Mus musculus} PDB: 3mmk_A

Probab=99.66  E-value=1e-16  Score=106.97  Aligned_cols=64  Identities=17%  Similarity=0.490  Sum_probs=57.4

Q ss_pred             ccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC
Q psy12714         31 PSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        31 ~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      ..++|..|+++|...+.+.++++.||..||+|..|+.+|.... +.++|.+||+.||.++|+++|
T Consensus         5 ~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~-f~~~g~~yC~~~y~~~f~~~C   68 (169)
T 2rgt_A            5 EIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERC-FSRGESVYCKDDFFKRFGTKC   68 (169)
T ss_dssp             --CBBSSSSSBCCSSSCEECSSCEECTTTSBCTTTCCBCCSCC-EESSSCEECHHHHHHHHSCBC
T ss_pred             CCCccccCCCccCCcEEEEECCcEEccccCccCCCCCcCCCCC-cccCCeeeecccccccccccc
Confidence            3579999999998776788999999999999999999998765 578999999999999999998

>2cor_A Pinch protein; LIM domain, particularly interesting NEW Cys- His protein, LIM and senescent cell antigen-like domains 1, structural genomics; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.65  E-value=1.8e-16  Score=93.67  Aligned_cols=65  Identities=23%  Similarity=0.492  Sum_probs=58.2

Q ss_pred             CcccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCC
Q psy12714         29 GNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      ....++|..|++.|. ++.+.+.++.||..||+|..|+.+|... ++.+++.+||..||.++|+|++
T Consensus        12 ~~~~~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~-~f~~~g~~yC~~cy~~~f~p~~   76 (79)
T 2cor_A           12 GLGKYICQKCHAIID-EQPLIFKNDPYHPDHFNCANCGKELTAD-ARELKGELYCLPCHDKMGVSGP   76 (79)
T ss_dssp             CCCCCBCTTTCCBCC-SCCCCCSSSCCCTTTSBCSSSCCBCCTT-CEEETTEEECHHHHHTTSCCSS
T ss_pred             ccCCCCCccCCCEec-ceEEEECcceeCCCCCEeCCCCCccCCC-CEeECCEEeCHHHHHHhCCCCC
Confidence            445689999999997 6678899999999999999999999876 5588999999999999999976

>1x61_A Thyroid receptor interacting protein 6; LIM domain, OPA-interacting protein 1, zyxin related protein 1 (ZRP-1), structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.65  E-value=1.5e-16  Score=92.15  Aligned_cols=64  Identities=25%  Similarity=0.472  Sum_probs=57.3

Q ss_pred             cccccccccccccccC-ccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCC
Q psy12714         30 NPSSLCFACNKKVYPL-EKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFIS   93 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~-~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~   93 (117)
                      ...++|.+|+++|... ..+.+.++.||..||+|..|+++|....|+.+++.+||..||.++|+.
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~~~~   67 (72)
T 1x61_A            3 SGSSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVATLES   67 (72)
T ss_dssp             SCCCCCSSSCSCCCSSSCCEECSSSEECTTTCBCSSSCCBCTTSCEEESSSCEEEHHHHHHHHHT
T ss_pred             CCCCCCccCCCccCCCceEEEECCCeEcccCCcccccCCcCCcCcCEeeCCeEECHHHHHHHHcc
Confidence            4567999999999864 468899999999999999999999887899999999999999999853

>1rut_X Flinc4, fusion protein of LMO4 protein and LIM domain- binding protein 1; B-tandem zipper, protein binding; 1.30A {Mus musculus} SCOP: g.39.1.3 g.39.1.3 g.39.1.3 g.39.1.3 PDB: 2dfy_X 2xjz_I 2xjy_B

Probab=99.65  E-value=6.4e-17  Score=109.72  Aligned_cols=81  Identities=19%  Similarity=0.342  Sum_probs=66.2

Q ss_pred             cccccccccccccccCccEEeCCCcccccCcccccCCccccC--CCccccCCeeccHHHHHhhhCC--CC----c-----
Q psy12714         30 NPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRM--ESYTMNNGHLYCLPHFKQLFIS--RG----N-----   96 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~--~~~~~~~g~~~C~~~y~~~~~~--kc----~-----   96 (117)
                      ...++|..|++.|...+.+.++++.||..||+|..|+.+|..  ..|+.+++.+||+.||.++|++  +|    .     
T Consensus         3 l~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~cy~~~~~~~~~C~~C~~~I~~~   82 (188)
T 1rut_X            3 LSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPAS   82 (188)
T ss_dssp             -CCCBBTTTCCBCCCSEEEEETTEEECGGGCBCTTTCCBHHHHCSEEEEETTEEECHHHHHHHHSCCEECTTTCCEECTT
T ss_pred             CCCCcCccCCCEeCCceeEEecCcEecccCcccCCCCcccccCCceEEEeCCccccccccccccccCCccccCCCccccC
Confidence            346799999999986666889999999999999999999985  5788999999999999999999  56    2     


Q ss_pred             --cccccCccccccCC
Q psy12714         97 --YDEGFGSDQHKRKW  110 (117)
Q Consensus        97 --~~~~~~~~~~~~~~  110 (117)
                        ++.+.+..||.+.|
T Consensus        83 e~~i~a~~~~~H~~CF   98 (188)
T 1rut_X           83 ELVMRAQGNVYHLKCF   98 (188)
T ss_dssp             SEEEEETTEEECGGGC
T ss_pred             cEEEEcCCCEEeCCCC
Confidence              23344556665554

>1m3v_A FLIN4, fusion of the LIM interacting domain of LDB1 and the N-terminal LIM domain of LMO4...; fusion protein, LMO proteins, metal binding protein; NMR {Mus musculus} SCOP: g.39.1.3 g.39.1.3

Probab=99.64  E-value=1e-16  Score=101.93  Aligned_cols=66  Identities=21%  Similarity=0.434  Sum_probs=60.1

Q ss_pred             cccccccccccccccCccEEeCCCcccccCcccccCCcccc--CCCccccCCeeccHHHHHhhhCC--CC
Q psy12714         30 NPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLR--MESYTMNNGHLYCLPHFKQLFIS--RG   95 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~--~~~~~~~~g~~~C~~~y~~~~~~--kc   95 (117)
                      ...++|..|++.|...+.+.+.++.||+.||+|..|+.+|.  ...|+.+++.+||..||.++|++  +|
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~cy~~~f~~~~~C   72 (122)
T 1m3v_A            3 LSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAG   72 (122)
T ss_dssp             SCCCCBSSSSSCCCSSCCEEETTEEECHHHHCCSSSCCCTTTSEECCEEETTEEECHHHHHHHHCCCCSS
T ss_pred             CCCCCCcccCCEeCCcEEEEECCceeHhhCCCcCCCCCcccccCCeEEEECCeeecHHHHHHHcCCCCcc
Confidence            45679999999998777789999999999999999999997  35788899999999999999999  87

>3f6q_B LIM and senescent cell antigen-like-containing domain protein 1; ILK, integrin-linked kinase, pinch, ankyrin repeat, ANK, IPP; 1.60A {Homo sapiens} PDB: 2kbx_B 3ixe_B

Probab=99.64  E-value=1.8e-16  Score=91.52  Aligned_cols=63  Identities=32%  Similarity=0.722  Sum_probs=56.9

Q ss_pred             cccccccccccccccCcc-EEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhC
Q psy12714         30 NPSSLCFACNKKVYPLEK-IETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFI   92 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~-~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~   92 (117)
                      ....+|.+|+++|...+. +.+.++.||..||+|..|+++|..+.|+.++|++||+.||.++|+
T Consensus         9 ~~~~~C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~lf~   72 (72)
T 3f6q_B            9 SASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA   72 (72)
T ss_dssp             CTTCBCTTTCCBCCTTCEEEEETTEEEETTTSSCTTTCCCCGGGCCEEETTEEECHHHHHHHTC
T ss_pred             cCCccchhcCccccCCceEEEeCcCeeCcCCCcccCCCCCCCCCCeEeECCeEeCHHHHHHhhC
Confidence            456799999999987775 479999999999999999999988888899999999999999885

>1b8t_A Protein (CRP1); LIM domain, muscle differentiation, contractIle; NMR {Gallus gallus} SCOP: g.39.1.3 g.39.1.3 g.39.1.3 g.39.1.3 PDB: 1ibi_A 1qli_A 1cxx_A 1ctl_A 2o13_A

Probab=99.64  E-value=3.7e-16  Score=106.24  Aligned_cols=81  Identities=23%  Similarity=0.547  Sum_probs=67.2

Q ss_pred             ccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCCc-cccccCccccccC
Q psy12714         31 PSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRGN-YDEGFGSDQHKRK  109 (117)
Q Consensus        31 ~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc~-~~~~~~~~~~~~~  109 (117)
                      ..++|..|+++|..++.+.+.++.||+.||+|..|+.+|....|+.+++++||+.||.++|+++|. +..+.|.-..++.
T Consensus         6 ~~~~C~~C~~~I~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~f~~~c~~c~~~~g~~~~~~~   85 (192)
T 1b8t_A            6 GGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTDKG   85 (192)
T ss_dssp             CCEECTTTCCEECSSCCEEETTEEECTTTCBCTTTCCBCCSSSEEEETTEEEEHHHHHHHHSCCCCCCCCCCCCCCCCCC
T ss_pred             CCCcCccCCCeecceeEEEeCCceecCCCCcCcccCCcCCCCeeEecCCEeeChhhhHhhcCccccccccccccEecCCC
Confidence            467999999999878888999999999999999999999988899999999999999999999983 2222333333444


Q ss_pred             Cc
Q psy12714        110 WQ  111 (117)
Q Consensus       110 ~~  111 (117)
                      ||
T Consensus        86 ~~   87 (192)
T 1b8t_A           86 ES   87 (192)
T ss_dssp             CC
T ss_pred             cc
Confidence            44

>1wig_A KIAA1808 protein; LIM domain, zinc finger, metal-binding protein, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.61  E-value=4.4e-16  Score=90.65  Aligned_cols=65  Identities=18%  Similarity=0.353  Sum_probs=57.2

Q ss_pred             cccccccccccccccCccEEeCCCcccccCcccccCCcccc-CCCccccCCeeccHHHHHhhhCCCC
Q psy12714         30 NPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLR-MESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~-~~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      .+.++|..|+++|.. +.+.++++.||+.||+|..|+.+|. ...|+.+++.+||..||.++++.+-
T Consensus         3 ~~~~~C~~C~~~I~~-~~v~a~~~~wH~~CF~C~~C~~~L~~~~~f~~~~~~~yC~~C~~~~~~~~~   68 (73)
T 1wig_A            3 SGSSGCDSCEKYITG-RVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWHPACRQAARTEDS   68 (73)
T ss_dssp             CSCCSCSSSCCCCSS-CCBCCSSCCBCTTTSCCSSSCCCCCSSCCCEEETTEEECTTHHHHTSSSSC
T ss_pred             cCcCCcccCCCEecC-eeEEeCCCCCCCCcCEeCCCCCCCCCCCeeEeeCCEEEChHHChHhhcccc
Confidence            457799999999975 6688999999999999999999998 6678889999999999998887643

>1x6a_A LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.59  E-value=1.4e-15  Score=89.92  Aligned_cols=66  Identities=18%  Similarity=0.503  Sum_probs=57.6

Q ss_pred             CcccccccccccccccCccEEeCCCcccccCcccccCCccccC-CCcc-ccCCeeccHHHHHhhhCCCC
Q psy12714         29 GNPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRM-ESYT-MNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~-~~~~-~~~g~~~C~~~y~~~~~~kc   95 (117)
                      ....++|..|+++|. ++.+.+.++.||..||+|..|++.|.. ..|. .+++.+||..||.++|++++
T Consensus        12 ~~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~~C~~c~~~~~~~~~   79 (81)
T 1x6a_A           12 GKFGEFCHGCSLLMT-GPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVVSGPS   79 (81)
T ss_dssp             CCSSCBCTTTCCBCC-SCCBCCTTCCBCTTSCBCTTTCCBCCTTSCEEECSSSCEEEHHHHHHHHCTTS
T ss_pred             hhcCCcCccCCCCcC-ceEEEECCceeccccCCccCCCCccCCCCcEEEeeCCEEECHHHHHHHhcCCC
Confidence            345679999999997 667889999999999999999999975 4555 47999999999999999987

>1b8t_A Protein (CRP1); LIM domain, muscle differentiation, contractIle; NMR {Gallus gallus} SCOP: g.39.1.3 g.39.1.3 g.39.1.3 g.39.1.3 PDB: 1ibi_A 1qli_A 1cxx_A 1ctl_A 2o13_A

Probab=99.58  E-value=2.2e-15  Score=102.40  Aligned_cols=65  Identities=32%  Similarity=0.730  Sum_probs=61.0

Q ss_pred             cccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHhhhCCCCc
Q psy12714         32 SSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRGN   96 (117)
Q Consensus        32 ~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc~   96 (117)
                      ..+|..|+++|...+.+.+.++.||..||+|..|+.+|....|+.+++++||+.||.++|+++|.
T Consensus       115 ~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~f~~kc~  179 (192)
T 1b8t_A          115 SDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKGF  179 (192)
T ss_dssp             CEECTTTSCEECSSSCEEETTEEECTTTCBCTTTCCBCCSSSEEEETTEEEEHHHHHHHTCCCCC
T ss_pred             CCcCCCCCCEecCcEEEecCCCccchhcCCccccCCCCCCCcccccCCEEeCHHHHHHhcCCcCC
Confidence            56899999999877888999999999999999999999888899999999999999999999993

>2egq_A FHL1 protein; LIM domain, four and A half LIM domains protein 1, skeletal muscle LIM- protein 1, SLIM 1, structural genomics NPPSFA; NMR {Homo sapiens}

Probab=99.57  E-value=2.7e-15  Score=87.90  Aligned_cols=60  Identities=20%  Similarity=0.564  Sum_probs=54.0

Q ss_pred             ccccccccccccccc----CccEEeCCCcccccCcccccCCccccCCCccccCCeeccHHHHHh
Q psy12714         30 NPSSLCFACNKKVYP----LEKIETDGKLFHRACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQ   89 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~----~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~   89 (117)
                      ...++|.+|+++|..    .+.+.+.++.||..||+|..|+++|....|+.+++.+||..||.+
T Consensus        13 ~~~~~C~~C~~~I~~~g~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~~~yC~~cy~~   76 (77)
T 2egq_A           13 FVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYCPDCAKK   76 (77)
T ss_dssp             CCCCCCSSSCCCCCCCSSCCCEEEETTEEEETTTCBCSSSCCBCTTSCCCEETTEECCHHHHHH
T ss_pred             hhCccCcccCCcccCCCCCceeEEECcceeCcccCEehhcCCCCCCCccEeECCEEEChHHhcc
Confidence            456799999999983    467889999999999999999999998889999999999999965

>2iyb_E Testin, TESS, TES; LIM domain, SH3-binding, tumour supressor LIM domain EVH1 DO cell motility, phosphorylation, cytoskeleton; 2.35A {Homo sapiens}

Probab=99.55  E-value=3.3e-15  Score=84.99  Aligned_cols=59  Identities=20%  Similarity=0.641  Sum_probs=53.2

Q ss_pred             ccccccccccccc-CccEEeCCCccc--ccCcccccCCccccCCCccccCCeecc-HHHHHhh
Q psy12714         32 SSLCFACNKKVYP-LEKIETDGKLFH--RACFRCTQCCTVLRMESYTMNNGHLYC-LPHFKQL   90 (117)
Q Consensus        32 ~~~C~~C~~~i~~-~~~~~~~~~~~H--~~Cf~C~~C~~~L~~~~~~~~~g~~~C-~~~y~~~   90 (117)
                      .++|.+|+++|.. ++.+.++++.||  ..||+|..|+.+|....|+.+++++|| ..||.++
T Consensus         2 a~~C~~C~~~I~~~~~~v~a~~~~wH~~~~CF~C~~C~~~L~~~~f~~~~g~~yC~~~C~~k~   64 (65)
T 2iyb_E            2 AVVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKRM   64 (65)
T ss_dssp             CEECTTTSSEECTTSCEEEETTEEEETTTTTSBCTTTCCBCTTSCCEEETTEEESSHHHHHTT
T ss_pred             cCCCcCCCCeeccCceEEEECCCccCCCCCCEECCCCCCcCCCCceEEECCEEecCHHHhhhh
Confidence            5689999999986 367899999999  999999999999998889999999999 8998654

>1v6g_A Actin binding LIM protein 2; LIM domain, zinc binding domain, ablim2, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.42  E-value=1.1e-13  Score=81.78  Aligned_cols=65  Identities=22%  Similarity=0.378  Sum_probs=54.4

Q ss_pred             cccccccccccccccCccEEeCCCcccccCcccccCCccccCCCccccC-CeeccHHHHHhhhCCCC
Q psy12714         30 NPSSLCFACNKKVYPLEKIETDGKLFHRACFRCTQCCTVLRMESYTMNN-GHLYCLPHFKQLFISRG   95 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~-g~~~C~~~y~~~~~~kc   95 (117)
                      ...++|..|++.|. ++.+.+.++.||..||+|..|+++|..+.++..+ +.+||..||.++++...
T Consensus        13 ~~~~~C~~C~~~I~-~~~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~~~~C~~C~~~~~~~~~   78 (81)
T 1v6g_A           13 LYGTRCFSCDQFIE-GEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCSLPVSVSGP   78 (81)
T ss_dssp             SCCCBCTTTCCBCC-SCCEEETTEEECTTTSSCSSSCCCCCSSSCEEEETTEEEEHHHHSCCSSCCC
T ss_pred             HhCCcCccccCEec-cceEEECCceeCccCCccccCCCCCCCCCEEEeCCCCEEChhhhcccCCCCC
Confidence            34579999999997 5778999999999999999999999877766654 56799999987776543

>2xjy_A Rhombotin-2; oncoprotein, T-cell leukemia, proto-oncogene, transcription, developmental protein; 2.40A {Homo sapiens} PDB: 2xjz_A

Probab=99.35  E-value=2.2e-13  Score=87.04  Aligned_cols=61  Identities=23%  Similarity=0.610  Sum_probs=54.1

Q ss_pred             cccccccccccCc-cEEeCCCcccccCcccccCCcccc-CCCccccCCeeccHHHHHhhhCCC
Q psy12714         34 LCFACNKKVYPLE-KIETDGKLFHRACFRCTQCCTVLR-MESYTMNNGHLYCLPHFKQLFISR   94 (117)
Q Consensus        34 ~C~~C~~~i~~~~-~~~~~~~~~H~~Cf~C~~C~~~L~-~~~~~~~~g~~~C~~~y~~~~~~k   94 (117)
                      +|..|+++|...+ .+.+.++.||..||.|..|+++|. ...|+..++++||..||.++|+++
T Consensus        68 ~C~~C~~~I~~~e~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~C~~c~~~~~~~~  130 (131)
T 2xjy_A           68 LCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIYEWTKIN  130 (131)
T ss_dssp             ECTTTCCEECTTSEEEEETTEEEEGGGCBCTTTCCBCCTTCEEEEETTEEEEGGGHHHHHHHH
T ss_pred             ChhhcCCccCccceeEeeCCceECccCcccCCCCCCCCCCCEEEEECCEEEcHHHHHHHhhcc
Confidence            8999999997655 467999999999999999999995 556888999999999999998764

>1rut_X Flinc4, fusion protein of LMO4 protein and LIM domain- binding protein 1; B-tandem zipper, protein binding; 1.30A {Mus musculus} SCOP: g.39.1.3 g.39.1.3 g.39.1.3 g.39.1.3 PDB: 2dfy_X 2xjz_I 2xjy_B

Probab=99.28  E-value=9.9e-13  Score=89.00  Aligned_cols=62  Identities=26%  Similarity=0.619  Sum_probs=53.0

Q ss_pred             cccccccccccCcc-EEeCCCcccccCcccccCCccccC-CCccccCCeeccHHHHHhhhCCCC
Q psy12714         34 LCFACNKKVYPLEK-IETDGKLFHRACFRCTQCCTVLRM-ESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        34 ~C~~C~~~i~~~~~-~~~~~~~~H~~Cf~C~~C~~~L~~-~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      +|..|++.|...+. +.+.++.||..||+|..|++.|.. ..|+..++++||..||.++|+++|
T Consensus        71 ~C~~C~~~I~~~e~~i~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~g~~yC~~c~~~~~~~~~  134 (188)
T 1rut_X           71 ACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGH  134 (188)
T ss_dssp             ECTTTCCEECTTSEEEEETTEEECGGGCBCTTTCCBCCTTCEEEEETTEEEEGGGCCTTTC---
T ss_pred             ccccCCCccccCcEEEEcCCCEEeCCCCeECCCCCCCCCCCeEEEECCeEECHHHHHHHhcccc
Confidence            79999999986554 579999999999999999999964 468888999999999999999998

>2xqn_T Testin, TESS; metal-binding protein, cytoskeleton, focal adhesion, acrosom; 2.62A {Homo sapiens}

Probab=99.23  E-value=4.9e-12  Score=80.30  Aligned_cols=61  Identities=20%  Similarity=0.565  Sum_probs=53.6

Q ss_pred             ccccccccccccccC-ccEEeCCCccc--ccCcccccCCccccCCCccccCCeeccHHHHHhhh
Q psy12714         31 PSSLCFACNKKVYPL-EKIETDGKLFH--RACFRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF   91 (117)
Q Consensus        31 ~~~~C~~C~~~i~~~-~~~~~~~~~~H--~~Cf~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~   91 (117)
                      ..++|..|+++|... ..+.+.++.||  ..||.|..|+++|....|+.+++++||..+|.++|
T Consensus        62 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~~~CF~C~~C~~~l~~~~f~~~~~~~yC~~~~~~~f  125 (126)
T 2xqn_T           62 HAVVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKRM  125 (126)
T ss_dssp             SCCBCTTTCSBCCTTSCEEEETTEEEESSTTTSBCTTTCCBCTTSEEEEETTEEESSHHHHHSC
T ss_pred             cCccCcccCCcCCcCceEEECCCCEeeCCCCCcCcCCCCCccCCCeeEeECCEEcchHHhhhhc
Confidence            467999999999764 45789999999  99999999999998777888999999998887765

>2rgt_A Fusion of LIM/homeobox protein LHX3, linker, INSU enhancer protein ISL-1; protein-protein complex, LIM domain, Zn finger, activator, D binding; 2.05A {Mus musculus} PDB: 3mmk_A

Probab=99.15  E-value=2.4e-11  Score=80.82  Aligned_cols=65  Identities=18%  Similarity=0.485  Sum_probs=53.8

Q ss_pred             cccccccccccccccCccE-EeCCCcccccCcccccCCccccCC-Cccc-cCCeeccHHHHHhhhCCC
Q psy12714         30 NPSSLCFACNKKVYPLEKI-ETDGKLFHRACFRCTQCCTVLRME-SYTM-NNGHLYCLPHFKQLFISR   94 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~~-~~~~~~~H~~Cf~C~~C~~~L~~~-~~~~-~~g~~~C~~~y~~~~~~k   94 (117)
                      ...++|..|++.|...+.+ .+.++.||..||+|..|++.|..+ .|+. .++++||..||.+++...
T Consensus        63 ~f~~~C~~C~~~I~~~~~v~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~~C~~c~~~~~~~~  130 (169)
T 2rgt_A           63 RFGTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAKQGG  130 (169)
T ss_dssp             HHSCBCTTTCCBCCTTSEEEEETTEEEEGGGCBCTTTCCBCCTTCEEEECTTSCEEEHHHHHHHHHCC
T ss_pred             cccccccccccccCCCcEEEEcCCceEeeCCCcCCCCCCCCCCCCceEEccCCeEECHHHHHHHhhcc
Confidence            3457999999999876654 799999999999999999999744 4544 689999999998887654

>2jtn_A LIM domain-binding protein 1, LIM/homeobox protein LHX3; intramolecular (fusion) protein-protein complex, protein binding/transcription complex; NMR {Mus musculus}

Probab=99.08  E-value=8.8e-11  Score=78.94  Aligned_cols=61  Identities=20%  Similarity=0.518  Sum_probs=50.6

Q ss_pred             cccccccccccccccCcc-EEeCCCcccccCcccccCCccccCC-Cccc-cCCeeccHHHHHhh
Q psy12714         30 NPSSLCFACNKKVYPLEK-IETDGKLFHRACFRCTQCCTVLRME-SYTM-NNGHLYCLPHFKQL   90 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~-~~~~~~~~H~~Cf~C~~C~~~L~~~-~~~~-~~g~~~C~~~y~~~   90 (117)
                      ...++|..|+++|...+. +.+.++.||..||+|..|++.|..+ .|+. .++++||..||.++
T Consensus       117 ~f~~kC~~C~~~I~~~~~v~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~yC~~cy~~~  180 (182)
T 2jtn_A          117 RFGTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETA  180 (182)
T ss_dssp             TTSCCCTTTCCCCCSSCCCCEETTEECCTTTCCCTTTCCCCCTTCEEEECTTSCEECHHHHHHH
T ss_pred             ccccccccCCCccCCCceEEecCCCCEEeCCCcCCCCCCCCCCCCceEEccCCEEECHHHHHHh
Confidence            346799999999976554 4789999999999999999999754 4544 68999999999764

>1zfo_A LAsp-1; LIM domain, zinc-finger, metal-binding protein; NMR {Sus scrofa} SCOP: g.39.1.4

Probab=98.46  E-value=3.4e-08  Score=47.86  Aligned_cols=29  Identities=45%  Similarity=0.944  Sum_probs=27.1

Q ss_pred             cccccccccccccCccEEeCCCcccccCc
Q psy12714         32 SSLCFACNKKVYPLEKIETDGKLFHRACF   60 (117)
Q Consensus        32 ~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf   60 (117)
                      .++|..|++.|+..|++.+.++.||+.||
T Consensus         3 ~~~C~~C~k~Vy~~Ek~~~~g~~~Hk~CF   31 (31)
T 1zfo_A            3 NPNCARCGKIVYPTEKVNCLDKFWHKACF   31 (31)
T ss_dssp             CCBCSSSCSBCCGGGCCCSSSSCCCGGGC
T ss_pred             CCcCCccCCEEecceeEEECCeEecccCC
Confidence            46899999999999999999999999997

>2cup_A Skeletal muscle LIM-protein 1; four and half LIM domains protein 1, LIM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 g.39.1.3

Probab=98.17  E-value=9.8e-07  Score=53.40  Aligned_cols=38  Identities=24%  Similarity=0.540  Sum_probs=32.2

Q ss_pred             CcccccccccccccccCc-cEEeCCCcccccCcccccCC
Q psy12714         29 GNPSSLCFACNKKVYPLE-KIETDGKLFHRACFRCTQCC   66 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~~~-~~~~~~~~~H~~Cf~C~~C~   66 (117)
                      ....++|..|+++|..++ .+.+.++.||+.||.|..|+
T Consensus        63 ~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~  101 (101)
T 2cup_A           63 REDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFSGPSSG  101 (101)
T ss_dssp             TCCCCBCSSSCCBCCSSSCEEESSSCEEETTTCCCTTCC
T ss_pred             hhcCCccccCCCccccCCeEEEeCCcchHHhCCCCCCCC
Confidence            345679999999997554 57899999999999999985

>1m3v_A FLIN4, fusion of the LIM interacting domain of LDB1 and the N-terminal LIM domain of LMO4...; fusion protein, LMO proteins, metal binding protein; NMR {Mus musculus} SCOP: g.39.1.3 g.39.1.3

Probab=97.23  E-value=6.9e-05  Score=46.87  Aligned_cols=62  Identities=11%  Similarity=0.131  Sum_probs=41.7

Q ss_pred             ccccccccccc--CccEEeCCCcccccCc--------ccccCCcccc-------------CCCccccCCeeccHHHHHhh
Q psy12714         34 LCFACNKKVYP--LEKIETDGKLFHRACF--------RCTQCCTVLR-------------MESYTMNNGHLYCLPHFKQL   90 (117)
Q Consensus        34 ~C~~C~~~i~~--~~~~~~~~~~~H~~Cf--------~C~~C~~~L~-------------~~~~~~~~g~~~C~~~y~~~   90 (117)
                      +|..|++.+..  ...+...++.|...|+        +|..|+..+.             ...|+.+++++||..||.++
T Consensus        34 ~C~~C~~~L~~~~~~~~~~~g~~yC~~cy~~~f~~~~~C~~C~~~I~~~~~~~~g~~~l~g~~f~~~~~~~yC~~~~~~~  113 (122)
T 1m3v_A           34 KCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAGGSGGHMGSGGDVMVVGEPTLMGGEFGDEDERLITRLENTQF  113 (122)
T ss_dssp             CCSSSCCCTTTSEECCEEETTEEECHHHHHHHHCCCCSSSCSSCCSCCEESSSSSSSSCCSCTTCCTTCCCCEECTTTTT
T ss_pred             CcCCCCCcccccCCeEEEECCeeecHHHHHHHcCCCCccccCCCCcCchheEEcCCcCCCCCccEecCCEeEccCcchhc
Confidence            57777777742  2234566666665554        5666655543             44577789999999999988


Q ss_pred             hCCCC
Q psy12714         91 FISRG   95 (117)
Q Consensus        91 ~~~kc   95 (117)
                      +.+++
T Consensus       114 ~~~~g  118 (122)
T 1m3v_A          114 DAANG  118 (122)
T ss_dssp             TCCSC
T ss_pred             hhhcC
Confidence            87755

>2ehe_A Four and A half LIM domains 3; FHL-3, skeletal muscle LIM- protein 2, SLIM 2, FHL3, SLIM2, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.03  E-value=9.4e-05  Score=42.87  Aligned_cols=18  Identities=11%  Similarity=0.117  Sum_probs=12.6

Q ss_pred             CCeeccHHHHHhhhCCCC
Q psy12714         78 NGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        78 ~g~~~C~~~y~~~~~~kc   95 (117)
                      +|.+||+.||.++|+++|
T Consensus         1 ~g~~yC~~~y~~~~~~~C   18 (82)
T 2ehe_A            1 GSSGSSGPCYDNTFANTC   18 (82)
T ss_dssp             CCCCCCCCCCCCCCSCBC
T ss_pred             CCceechhHhCcccCCcC
Confidence            466777777777777766

>2cuq_A Four and A half LIM domains 3; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=96.93  E-value=0.00012  Score=42.08  Aligned_cols=18  Identities=17%  Similarity=0.196  Sum_probs=12.9

Q ss_pred             CCeeccHHHHHhhhCCCC
Q psy12714         78 NGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        78 ~g~~~C~~~y~~~~~~kc   95 (117)
                      +|++||+.||.++|+++|
T Consensus         1 gg~~yC~~cy~~~~~~~C   18 (80)
T 2cuq_A            1 GSSGSSGPCYENKFAPRC   18 (80)
T ss_dssp             CCCCSCCCCCCCCSSCCC
T ss_pred             CCcEEcHHHHccccCCcC
Confidence            366777777777777776

>1x6a_A LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=96.92  E-value=0.00014  Score=42.02  Aligned_cols=17  Identities=6%  Similarity=-0.283  Sum_probs=12.5

Q ss_pred             CeeccHHHHHhhhCCCC
Q psy12714         79 GHLYCLPHFKQLFISRG   95 (117)
Q Consensus        79 g~~~C~~~y~~~~~~kc   95 (117)
                      +.+||+.||.++|+++|
T Consensus         2 ~~~yC~~~y~~~~~~~C   18 (81)
T 1x6a_A            2 SSGSSGKDYWGKFGEFC   18 (81)
T ss_dssp             CCCCCCCCSSCCSSCBC
T ss_pred             CCccchhHHhhhcCCcC
Confidence            46777777777777776

>1x3h_A Leupaxin; paxillin family, protein-protein interaction, LIM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=96.78  E-value=0.00015  Score=41.71  Aligned_cols=17  Identities=12%  Similarity=0.065  Sum_probs=11.6

Q ss_pred             CeeccHHHHHhhhCCCC
Q psy12714         79 GHLYCLPHFKQLFISRG   95 (117)
Q Consensus        79 g~~~C~~~y~~~~~~kc   95 (117)
                      +++||+.||.++|+++|
T Consensus         2 g~~yC~~~y~~~~~~~C   18 (80)
T 1x3h_A            2 SSGSSGKDFLAMFSPKC   18 (80)
T ss_dssp             CCCCCCCCCCCCCSCBC
T ss_pred             CCccchhHHhhhcCCcc
Confidence            56677777777776666

>1v6g_A Actin binding LIM protein 2; LIM domain, zinc binding domain, ablim2, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=96.74  E-value=0.00028  Score=40.70  Aligned_cols=17  Identities=12%  Similarity=0.092  Sum_probs=13.0

Q ss_pred             CeeccHHHHHhhhCCCC
Q psy12714         79 GHLYCLPHFKQLFISRG   95 (117)
Q Consensus        79 g~~~C~~~y~~~~~~kc   95 (117)
                      +.+||+.||.++|+++|
T Consensus         2 ~~~yC~~dy~~~~~~~C   18 (81)
T 1v6g_A            2 SSGSSGLDYQRLYGTRC   18 (81)
T ss_dssp             CCCCCCSCGGGSCCCBC
T ss_pred             CCCcchHHHHhHhCCcC
Confidence            45788888888888876

>2egq_A FHL1 protein; LIM domain, four and A half LIM domains protein 1, skeletal muscle LIM- protein 1, SLIM 1, structural genomics NPPSFA; NMR {Homo sapiens}

Probab=96.50  E-value=0.00026  Score=40.42  Aligned_cols=17  Identities=6%  Similarity=-0.023  Sum_probs=12.4

Q ss_pred             CeeccHHHHHhhhCCCC
Q psy12714         79 GHLYCLPHFKQLFISRG   95 (117)
Q Consensus        79 g~~~C~~~y~~~~~~kc   95 (117)
                      +.+||+.||.++|+++|
T Consensus         2 ~~~yC~~cy~~~~~~~C   18 (77)
T 2egq_A            2 SSGSSGDCYKNFVAKKC   18 (77)
T ss_dssp             CSSCCTTCCCSCCCCCC
T ss_pred             CCeEchhHhchhhCccC
Confidence            56777777777777776

>1x63_A Skeletal muscle LIM-protein 1; LIM domain, four and A half LIM domains protein 1, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=96.38  E-value=0.00042  Score=39.99  Aligned_cols=17  Identities=0%  Similarity=-0.406  Sum_probs=9.4

Q ss_pred             CeeccHHHHHhhhCCCC
Q psy12714         79 GHLYCLPHFKQLFISRG   95 (117)
Q Consensus        79 g~~~C~~~y~~~~~~kc   95 (117)
                      +.+||+.||.++|+++|
T Consensus         2 ~~~yC~~cy~~~~~~~C   18 (82)
T 1x63_A            2 SSGSSGKCTTREDSPKC   18 (82)
T ss_dssp             CSCCCCCCCSCCCSCBC
T ss_pred             CCcCchhHHccccCCcC
Confidence            34555555555555554

>2dlo_A Thyroid receptor-interacting protein 6; LIM domain, OPA-interacting protein 1, zyxin related protein 1 (ZRP-1), structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=96.10  E-value=0.00076  Score=38.85  Aligned_cols=26  Identities=19%  Similarity=0.387  Sum_probs=11.0

Q ss_pred             ccccCCccccCCCccccCCeeccHHHH
Q psy12714         61 RCTQCCTVLRMESYTMNNGHLYCLPHF   87 (117)
Q Consensus        61 ~C~~C~~~L~~~~~~~~~g~~~C~~~y   87 (117)
                      +|..|+..+.. .+....++.|...||
T Consensus        17 ~C~~C~~~I~~-~~~~a~~~~~H~~CF   42 (81)
T 2dlo_A           17 KCATCSQPILD-RILRAMGKAYHPGCF   42 (81)
T ss_dssp             BCTTTCCBCCS-CCEEETTEEECTTTC
T ss_pred             ccccCCCeecc-eeEEECCccccHHhc
Confidence            35555555542 222233444444444

>1j2o_A FLIN2, fusion of rhombotin-2 and LIM domain-binding protein 1; LIM-interaction-domain (LID), metal binding protein; NMR {Mus musculus} SCOP: g.39.1.3 g.39.1.3

Probab=95.23  E-value=0.0029  Score=38.85  Aligned_cols=63  Identities=13%  Similarity=0.028  Sum_probs=39.4

Q ss_pred             cccccccccccc-C-ccEEeCCCccccc---------Ccccc-----cCCcc-ccCCCccccCCeeccHHHHHhhhCCCC
Q psy12714         33 SLCFACNKKVYP-L-EKIETDGKLFHRA---------CFRCT-----QCCTV-LRMESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        33 ~~C~~C~~~i~~-~-~~~~~~~~~~H~~---------Cf~C~-----~C~~~-L~~~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      -+|..|++.|.. + ..+...++.|...         |..|.     .|... |....|+.+++++||..||.++.++.+
T Consensus        31 F~C~~C~~~L~~~g~~~~~~~g~~yC~~~y~~~f~~~c~~c~~~~~~~~~~~~~~g~~f~~~~~~~~C~~~~~~~~~~~g  110 (114)
T 1j2o_A           31 LSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGGSGGHMGSGGDVMVVGEPTLMGGEFGDEDERLITRLENTQFDAANG  110 (114)
T ss_dssp             CCCSSSCSCCCCSSSCCCCBTTBCCCHHHHHHHHTSCCSSCBSCSCCCSSCSSTTSSBCCCSSSCCCEEEECTTCCCTTS
T ss_pred             CcccccCCchhcCCCeeEEECCeeechHHHHHHhCcccCcCCCCceeEcCCccCCCCeeEEcCCEeecchhhhccccccC
Confidence            468888888853 2 3334555655433         33332     23333 445567788999999999988776644

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	117
d2d8ya2	42	g.39.1.3 (A:44-85) Eplin, LIMA1 {Human (Homo sapie	2e-16
d2d8ya1	35	g.39.1.3 (A:9-43) Eplin, LIMA1 {Human (Homo sapien	1e-09
d2co8a2	36	g.39.1.3 (A:8-43) Nedd9 interacting protein with c	2e-09
d1b8ta3	43	g.39.1.3 (A:101-143) Cysteine-rich (intestinal) pr	4e-08
d2cu8a1	30	g.39.1.3 (A:8-37) Cysteine-rich (intestinal) prote	2e-04
d1b8ta1	35	g.39.1.3 (A:1-35) Cysteine-rich (intestinal) prote	4e-04
d1a7ia1	28	g.39.1.3 (A:8-35) Cysteine-rich (intestinal) prote	0.002
d1zfoa_	30	g.39.1.4 (A:) LASP-1 {Pig (Sus scrofa) [TaxId: 982	0.002
d1g47a2	35	g.39.1.3 (A:36-70) Pinch (particularly interesting	0.003

>d2d8ya2 g.39.1.3 (A:44-85) Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]} Length = 42

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Eplin, LIMA1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 65.1 bits (159), Expect = 2e-16
 Identities = 23/42 (54%), Positives = 29/42 (69%)

Query: 61  RCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRGNYDEGFG 102
           RC+ C   L + +Y   +G +YC PHF QLF S+GNYDEGFG
Sbjct: 1   RCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNYDEGFG 42

>d2d8ya1 g.39.1.3 (A:9-43) Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]} Length = 35

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Eplin, LIMA1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.4 bits (113), Expect = 1e-09
 Identities = 11/30 (36%), Positives = 18/30 (60%)

Query: 31 PSSLCFACNKKVYPLEKIETDGKLFHRACF 60
              C  C K VYP+E++  + ++FH +CF
Sbjct: 6  ARETCVECQKTVYPMERLLANQQVFHISCF 35

>d2co8a2 g.39.1.3 (A:8-43) Nedd9 interacting protein with calponin homology, NICAL (MICAL1) {Human (Homo sapiens) [TaxId: 9606]} Length = 36

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Nedd9 interacting protein with calponin homology, NICAL (MICAL1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.5 bits (113), Expect = 2e-09
 Identities = 12/29 (41%), Positives = 18/29 (62%)

Query: 32 SSLCFACNKKVYPLEKIETDGKLFHRACF 60
            LC  C + +Y LE++  +G  FHR+CF
Sbjct: 8  GDLCALCGEHLYVLERLCVNGHFFHRSCF 36

>d1b8ta3 g.39.1.3 (A:101-143) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]} Length = 43

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Chicken (Gallus gallus) [TaxId: 9031]

 Score = 44.1 bits (104), Expect = 4e-08
 Identities = 12/29 (41%), Positives = 17/29 (58%)

Query: 32 SSLCFACNKKVYPLEKIETDGKLFHRACF 60
          S  C  C + VY  EK+   GK +H++CF
Sbjct: 15 SDGCPRCGQAVYAAEKVIGAGKSWHKSCF 43

>d2cu8a1 g.39.1.3 (A:8-37) Cysteine-rich (intestinal) protein, CRP, CRIP {Human (Homo sapiens) [TaxId: 9606]} Length = 30

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.0 bits (78), Expect = 2e-04
 Identities = 12/28 (42%), Positives = 18/28 (64%)

Query: 32 SSLCFACNKKVYPLEKIETDGKLFHRAC 59
          +S C  C+K VY  EK+ + GK +H+ C
Sbjct: 2  ASKCPKCDKTVYFAEKVSSLGKDWHKFC 29

>d1b8ta1 g.39.1.3 (A:1-35) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]} Length = 35

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Chicken (Gallus gallus) [TaxId: 9031]

 Score = 33.4 bits (76), Expect = 4e-04
 Identities = 14/37 (37%), Positives = 21/37 (56%), Gaps = 3/37 (8%)

Query: 24 PSNGTGNPSSLCFACNKKVYPLEKIETDGKLFHRACF 60
          P+ G G     C  C K VY  E+++ +G  FH++CF
Sbjct: 2  PNWGGGKK---CGVCQKAVYFAEEVQCEGSSFHKSCF 35

>d1a7ia1 g.39.1.3 (A:8-35) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]} Length = 28

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]

 Score = 31.9 bits (72), Expect = 0.002
 Identities = 13/26 (50%), Positives = 18/26 (69%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACF 60
          C AC + VY  E+++ DG+ FHR CF
Sbjct: 3  CGACGRTVYHAEEVQCDGRSFHRCCF 28

>d1zfoa_ g.39.1.4 (A:) LASP-1 {Pig (Sus scrofa) [TaxId: 9823]} Length = 30

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LASP-1
domain: LASP-1
species: Pig (Sus scrofa) [TaxId: 9823]

 Score = 31.4 bits (71), Expect = 0.002
 Identities = 13/26 (50%), Positives = 16/26 (61%)

Query: 35 CFACNKKVYPLEKIETDGKLFHRACF 60
          C  C K VYP EK+    K +H+ACF
Sbjct: 5  CARCGKIVYPTEKVNCLDKFWHKACF 30

>d1g47a2 g.39.1.3 (A:36-70) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]} Length = 35

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 31.2 bits (71), Expect = 0.003
 Identities = 10/32 (31%), Positives = 12/32 (37%)

Query: 60 FRCTQCCTVLRMESYTMNNGHLYCLPHFKQLF 91
          F C QC        +    G  YC   F+ LF
Sbjct: 1  FVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 32

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	117
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	99.28
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	99.03
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.9
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	98.72
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.68
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.62
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	98.61
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	98.6
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.58
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	98.53
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.52
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	98.5
d2co8a2	36	Nedd9 interacting protein with calponin homology,	98.49
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	98.45
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.37
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	98.33
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	98.29
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	98.27
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.27
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.26
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.26
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.22
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	98.21
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.19
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	98.16
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	98.15
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	98.08
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	98.03
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	98.02
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	98.0
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	97.99
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.95
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.85
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	97.84
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	97.74
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.7
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	97.7
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.68
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	97.63
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.62
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	97.56
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	97.45
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	97.41
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	97.36
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.35
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.35
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	97.22
d1rutx2	34	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.15
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	97.14
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	97.1
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	97.04
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	96.78
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	96.7
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	96.69
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	96.17
d1x61a1	27	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.05
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	95.98
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	95.98
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	95.31
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	95.01
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	94.91
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	94.85
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	94.57
d2cora1	31	Pinch (particularly interesting new Cys-His) prote	93.82
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	93.68
d1j2oa2	33	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	93.31
d1rutx4	33	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	93.22
d2co8a1	33	Nedd9 interacting protein with calponin homology,	92.13
d1x68a2	34	Four and a half LIM domains protein 5, FHL-5 {Huma	92.12
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	91.57
d1x4la2	30	Four and a half LIM domains protein 2, FHL2 {Human	90.33

>d2d8ya2 g.39.1.3 (A:44-85) Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Eplin, LIMA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.28  E-value=1.5e-12  Score=65.74  Aligned_cols=42  Identities=55%  Similarity=1.179  Sum_probs=40.2

Q ss_pred             ccccCCccccCCCccccCCeeccHHHHHhhhCCCCccccccC
Q psy12714         61 RCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRGNYDEGFG  102 (117)
Q Consensus        61 ~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc~~~~~~~  102 (117)
                      +|..|++.|..+.|...+|.+||++||.++|++|+.|++++|
T Consensus         1 rC~~C~~~Ls~~~yas~~G~lYCkpHf~qLF~~kGny~~gfg   42 (42)
T d2d8ya2           1 RCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNYDEGFG   42 (42)
T ss_dssp             BCTTTCCBCCTTTCCCSSSCCCCHHHHHHHSCCCSCCCSCCC
T ss_pred             CcCcCCCCccCCcchhhCCEeccHHHHHHHHHhhcCCCCCCC
Confidence            589999999999999999999999999999999999999986

>d1g47a2 g.39.1.3 (A:36-70) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.03  E-value=6.8e-11  Score=57.67  Aligned_cols=34  Identities=29%  Similarity=0.620  Sum_probs=32.8

Q ss_pred             cccccCCccccCCCccccCCeeccHHHHHhhhCC
Q psy12714         60 FRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFIS   93 (117)
Q Consensus        60 f~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~   93 (117)
                      |.|..|+++|....++.++|++||+.||.++|+|
T Consensus         1 F~C~~C~~~f~~~~F~e~~G~pYCe~~Y~~lFAP   34 (35)
T d1g47a2           1 FVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAP   34 (35)
T ss_dssp             CCCTTTCCCCGGGCSEEETTEEECHHHHHHHCCC
T ss_pred             CCCCCCcCCCCCCCeEEECCEecChHhHHhhcCC
Confidence            7899999999999999999999999999999998

>d1b8ta4 g.39.1.3 (A:144-192) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=98.90  E-value=9.6e-10  Score=56.98  Aligned_cols=35  Identities=26%  Similarity=0.680  Sum_probs=33.2

Q ss_pred             ccccCCccccCCCccccCCeeccHHHHHhhhCCCC
Q psy12714         61 RCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        61 ~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      +|..|.+.|.+.....+|+++||+.||.++|+||+
T Consensus         1 KC~~C~k~Lds~t~~ehdg~~YCk~CY~k~fGPKG   35 (49)
T d1b8ta4           1 RCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKG   35 (49)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHTCCCC
T ss_pred             ChhhcCCccCCCcccccCCcccchhhhhhccCCCc
Confidence            58899999999888899999999999999999999

>d1imla2 g.39.1.3 (A:29-76) Cysteine-rich (intestinal) protein, CRP, CRIP {Rat (Rattus rattus) [TaxId: 10117]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Rat (Rattus rattus) [TaxId: 10117]

Probab=98.72  E-value=4.1e-09  Score=53.97  Aligned_cols=35  Identities=26%  Similarity=0.708  Sum_probs=33.0

Q ss_pred             ccccCCccccCCCccccCCeecc-HHHHHhhhCCCC
Q psy12714         61 RCTQCCTVLRMESYTMNNGHLYC-LPHFKQLFISRG   95 (117)
Q Consensus        61 ~C~~C~~~L~~~~~~~~~g~~~C-~~~y~~~~~~kc   95 (117)
                      +|..|.+.|..+....+++++|| +.||..+|+||+
T Consensus         1 kC~~C~K~L~sg~~aeHdg~pYC~k~CY~~~FGPkG   36 (48)
T d1imla2           1 KCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKG   36 (48)
T ss_dssp             BCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCCC
T ss_pred             CchhcCcCcCCCChhhcCCcccccccchhhccCCCc
Confidence            58899999999999999999999 779999999998

>d1b8ta3 g.39.1.3 (A:101-143) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=98.68  E-value=8.6e-09  Score=52.22  Aligned_cols=31  Identities=39%  Similarity=0.784  Sum_probs=28.8

Q ss_pred             cccccccccccccccCccEEeCCCcccccCc
Q psy12714         30 NPSSLCFACNKKVYPLEKIETDGKLFHRACF   60 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf   60 (117)
                      ...++|..|++.|+..|++.+.++.||+.||
T Consensus        13 g~~~kC~~C~k~VY~~E~~~~~g~~~Hk~CF   43 (43)
T d1b8ta3          13 GGSDGCPRCGQAVYAAEKVIGAGKSWHKSCF   43 (43)
T ss_dssp             CCCEECTTTSCEECSSSCEEETTEEECTTTC
T ss_pred             CCCCcCccCCCEeeHHHHhhcCCCccccCCC
Confidence            4468999999999999999999999999998

>d1b8ta2 g.39.1.3 (A:36-100) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=98.62  E-value=1.7e-08  Score=54.99  Aligned_cols=35  Identities=17%  Similarity=0.510  Sum_probs=33.0

Q ss_pred             ccccCCccccCCCccccCCeeccHHHHHhhhCCCC
Q psy12714         61 RCTQCCTVLRMESYTMNNGHLYCLPHFKQLFISRG   95 (117)
Q Consensus        61 ~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~kc   95 (117)
                      .|..|.+.|.+.....+++++||+.||.++|+||+
T Consensus         1 ~C~~C~K~LdS~~~~eh~~e~YCk~CY~k~fGPkG   35 (65)
T d1b8ta2           1 LCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKG   35 (65)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHHSCCC
T ss_pred             CchhcCCccCCCccccCCCcccchhhhccccCCCc
Confidence            48899999999999999999999999999999998

>d1zfoa_ g.39.1.4 (A:) LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LASP-1
domain: LASP-1
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=98.61  E-value=3.6e-09  Score=48.28  Aligned_cols=28  Identities=46%  Similarity=0.967  Sum_probs=26.6

Q ss_pred             ccccccccccccCccEEeCCCcccccCc
Q psy12714         33 SLCFACNKKVYPLEKIETDGKLFHRACF   60 (117)
Q Consensus        33 ~~C~~C~~~i~~~~~~~~~~~~~H~~Cf   60 (117)
                      +.|++|++.++..|.+..+++.||+.||
T Consensus         3 ~~CaRC~k~VYp~Ekl~ClDk~WHK~CF   30 (30)
T d1zfoa_           3 PNCARCGKIVYPTEKVNCLDKFWHKACF   30 (30)
T ss_dssp             CBCSSSCSBCCGGGCCCSSSSCCCGGGC
T ss_pred             CcccccCCccccHHHhhhhHHHHhhccC
Confidence            5799999999999999999999999998

>d2cu8a1 g.39.1.3 (A:8-37) Cysteine-rich (intestinal) protein, CRP, CRIP {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.60  E-value=7.7e-09  Score=47.75  Aligned_cols=29  Identities=41%  Similarity=0.788  Sum_probs=27.0

Q ss_pred             cccccccccccccCccEEeCCCcccccCc
Q psy12714         32 SSLCFACNKKVYPLEKIETDGKLFHRACF   60 (117)
Q Consensus        32 ~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf   60 (117)
                      +++|.+|++.++..|++..+|+.||+.|+
T Consensus         2 ~~~CprC~K~VYfaEk~~~lgk~WHk~Cl   30 (30)
T d2cu8a1           2 ASKCPKCDKTVYFAEKVSSLGKDWHKFCL   30 (30)
T ss_dssp             CCBCTTTCCBCCTTTEEEETTEEEETTTC
T ss_pred             CCcCCCCCCceeeHHhhccCCcccccccC
Confidence            46899999999999999999999999985

>d1x3ha1 g.39.1.3 (A:8-42) Leupaxin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Leupaxin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.58  E-value=1.4e-08  Score=49.31  Aligned_cols=31  Identities=26%  Similarity=0.521  Sum_probs=27.6

Q ss_pred             CcccccccccccccccCccEEeCCCcccccCc
Q psy12714         29 GNPSSLCFACNKKVYPLEKIETDGKLFHRACF   60 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf   60 (117)
                      ...+++|..|+++|. ++.|.++++.||++||
T Consensus         5 ~~fapkC~~C~~~I~-g~~v~Al~~~wHpeCF   35 (35)
T d1x3ha1           5 AMFSPKCGGCNRPVL-ENYLSAMDTVWHPECF   35 (35)
T ss_dssp             CCCSCBCTTTCCBCC-SSCEEETTEEECTTTC
T ss_pred             HHhChhhhhcCCccc-chheeecCCccCcccC
Confidence            456789999999995 6789999999999998

>d2d8za2 g.39.1.3 (A:33-64) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.53  E-value=3.2e-08  Score=46.31  Aligned_cols=32  Identities=31%  Similarity=0.669  Sum_probs=29.5

Q ss_pred             ccccCCccccCCCccccCCeeccHHHHHhhhC
Q psy12714         61 RCTQCCTVLRMESYTMNNGHLYCLPHFKQLFI   92 (117)
Q Consensus        61 ~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~   92 (117)
                      .|..|.++|.++.|..+|+++||-.||..+|+
T Consensus         1 ~C~~C~~~L~GQry~~rd~~PyC~~Cf~~lfA   32 (32)
T d2d8za2           1 VCTACRKQLSGQRFTARDDFAYCLNCFCDLYA   32 (32)
T ss_dssp             BCSSSCCBCTTSCCEESSSSEECHHHHHHHTC
T ss_pred             CcccCCccccCceeeecCCCeehHHhhHhhcC
Confidence            37889999999999999999999999999985

>d2dj7a1 g.39.1.3 (A:44-74) Actin-binding LIM protein 3, abLIM-3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 3, abLIM-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.52  E-value=2.9e-08  Score=45.83  Aligned_cols=31  Identities=26%  Similarity=0.715  Sum_probs=27.4

Q ss_pred             ccccCCccccCCCccccCCeeccHHHHHhhhC
Q psy12714         61 RCTQCCTVLRMESYTMNNGHLYCLPHFKQLFI   92 (117)
Q Consensus        61 ~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~   92 (117)
                      +|..|++.| .+.|..+||.+||+.||+..|+
T Consensus         1 kC~~C~~vL-~gEYm~kdG~PyCe~DY~~~FG   31 (31)
T d2dj7a1           1 KCQTCSVIL-TGEYISKDGVPYCESDYHAQFG   31 (31)
T ss_dssp             BCSSSCCBC-SSCCEEETTEEECTTHHHHHTT
T ss_pred             CccccCccc-cceeecCCCCcccHHHHHHhcC
Confidence            588999999 4578899999999999999885

>d2d8ya1 g.39.1.3 (A:9-43) Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Eplin, LIMA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.50  E-value=3e-08  Score=47.86  Aligned_cols=31  Identities=35%  Similarity=0.950  Sum_probs=28.6

Q ss_pred             cccccccccccccccCccEEeCCCcccccCc
Q psy12714         30 NPSSLCFACNKKVYPLEKIETDGKLFHRACF   60 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf   60 (117)
                      ....+|..|++.++..|++.+.++.||+.||
T Consensus         5 p~~~kC~~C~K~VY~~E~~~a~g~~~Hk~CF   35 (35)
T d2d8ya1           5 PARETCVECQKTVYPMERLLANQQVFHISCF   35 (35)
T ss_dssp             SSSCBCTTTCCBCCTTSEEECSSSEEETTTC
T ss_pred             CCCcccccCCCEEeeeeeEecCCeehhhccC
Confidence            3467999999999999999999999999998

>d2co8a2 g.39.1.3 (A:8-43) Nedd9 interacting protein with calponin homology, NICAL (MICAL1) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Nedd9 interacting protein with calponin homology, NICAL (MICAL1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.49  E-value=2.3e-08  Score=48.44  Aligned_cols=32  Identities=38%  Similarity=0.982  Sum_probs=29.4

Q ss_pred             CcccccccccccccccCccEEeCCCcccccCc
Q psy12714         29 GNPSSLCFACNKKVYPLEKIETDGKLFHRACF   60 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf   60 (117)
                      .....+|..|++.++..|++.+.++.||+.||
T Consensus         5 ~g~~~~C~~C~K~VY~~Erl~a~g~~yHk~CF   36 (36)
T d2co8a2           5 AGAGDLCALCGEHLYVLERLCVNGHFFHRSCF   36 (36)
T ss_dssp             CCSSCBCSSSCCBCCTTTBCCBTTBCCBTTTC
T ss_pred             CCCCCcccccCCEEeeeeEEEecCcEeccccC
Confidence            44567999999999999999999999999998

>d1ibia2 g.39.1.3 (A:145-175) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]

Probab=98.45  E-value=5.1e-08  Score=44.21  Aligned_cols=30  Identities=30%  Similarity=0.787  Sum_probs=27.7

Q ss_pred             cccccCCccccCCCccccCCeeccHHHHHh
Q psy12714         60 FRCTQCCTVLRMESYTMNNGHLYCLPHFKQ   89 (117)
Q Consensus        60 f~C~~C~~~L~~~~~~~~~g~~~C~~~y~~   89 (117)
                      |+|..|++.|.+.....+||.+||+.||.+
T Consensus         1 frca~cgk~lestt~adkdgeiyck~cyak   30 (31)
T d1ibia2           1 FRCAKCGKSLESTTLTEKEGEIYCKGCYAK   30 (31)
T ss_dssp             EECSSSCCEECSSCSEEETTEEECHHHHHH
T ss_pred             CccccccCccccceeeccCCcEEEeeeeec
Confidence            789999999999889999999999999964

>d2dj7a2 g.39.1.3 (A:8-43) Actin-binding LIM protein 3, abLIM-3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 3, abLIM-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.37  E-value=8.7e-08  Score=45.43  Aligned_cols=32  Identities=22%  Similarity=0.440  Sum_probs=28.6

Q ss_pred             CcccccccccccccccCccEEeCCCcccccCc
Q psy12714         29 GNPSSLCFACNKKVYPLEKIETDGKLFHRACF   60 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf   60 (117)
                      ..+...|++|++.|..++.+.++++.||.+||
T Consensus         5 ~~g~~~CagCg~eik~gQaL~ALdkqWH~~CF   36 (36)
T d2dj7a2           5 IRGPSHCAGCKEEIKHGQSLLALDKQWHVSCF   36 (36)
T ss_dssp             CSSCSCCTTTCCCCSSSCCEEETTEEECTTTC
T ss_pred             ccCCccccccchhhhCCceeeeeecceeeeeC
Confidence            34567899999999989999999999999998

>d1u5sb2 g.39.1.3 (B:103-137) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.33  E-value=2.3e-07  Score=43.43  Aligned_cols=34  Identities=29%  Similarity=0.575  Sum_probs=31.2

Q ss_pred             cccccCCccccCCCccccCCeeccHHHHHhhhCC
Q psy12714         60 FRCTQCCTVLRMESYTMNNGHLYCLPHFKQLFIS   93 (117)
Q Consensus        60 f~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~~   93 (117)
                      |.|..|.+++.....+.+.|..||+.+|.++|+.
T Consensus         1 FvCA~CekPF~G~rhyE~~g~ayCe~Hy~qLfg~   34 (35)
T d1u5sb2           1 FVCAKCEKPFLGHRHYERKGLAYCETHYNQLFGD   34 (35)
T ss_dssp             CBCTTTCCBCSSSCCEEETTEEECHHHHHHHCSC
T ss_pred             CcccccCCccCCchhhhhcCchHHHHHHHHHhcc
Confidence            7899999999888899999999999999999874

>d2cu8a2 g.39.1.3 (A:38-70) Cysteine-rich (intestinal) protein, CRP, CRIP {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.29  E-value=2.2e-07  Score=43.16  Aligned_cols=32  Identities=25%  Similarity=0.679  Sum_probs=28.9

Q ss_pred             ccccCCccccCCCccccCCeeccH-HHHHhhhC
Q psy12714         61 RCTQCCTVLRMESYTMNNGHLYCL-PHFKQLFI   92 (117)
Q Consensus        61 ~C~~C~~~L~~~~~~~~~g~~~C~-~~y~~~~~   92 (117)
                      +|..|.+.|..+....++|++||. +||..+|+
T Consensus         1 kCekC~ktL~~G~HaEH~gkPYC~~PCY~aLFG   33 (33)
T d2cu8a2           1 KCERCSKTLTPGGHAEHDGKPFCHKPCYATLFG   33 (33)
T ss_dssp             BCSSSCCBCCTTSCEEETTEEECTTTHHHHHSC
T ss_pred             CchhcccccCCCCccccCCCcCcCcchHHhhcC
Confidence            588999999999999999999995 69998885

>d2dloa1 g.39.1.3 (A:8-42) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.27  E-value=2.4e-07  Score=44.14  Aligned_cols=32  Identities=22%  Similarity=0.518  Sum_probs=27.2

Q ss_pred             CCcccccccccccccccCccEEeCCCcccccCc
Q psy12714         28 TGNPSSLCFACNKKVYPLEKIETDGKLFHRACF   60 (117)
Q Consensus        28 ~~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf   60 (117)
                      +.....+|..|+++|. ..++.+.++.||+.||
T Consensus         4 y~~tlEkC~~C~~~I~-driLrA~Gk~yHP~CF   35 (35)
T d2dloa1           4 YVATLEKCATCSQPIL-DRILRAMGKAYHPGCF   35 (35)
T ss_dssp             CCSSCCBCTTTCCBCC-SCCEEETTEEECTTTC
T ss_pred             HHHHHHHHHHhchHHH-HHHHHHhCCCCCCCCC
Confidence            4566789999999995 4557899999999998

>d1x3ha2 g.39.1.3 (A:43-74) Leupaxin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Leupaxin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.27  E-value=3.5e-07  Score=42.88  Aligned_cols=31  Identities=23%  Similarity=0.518  Sum_probs=28.2

Q ss_pred             ccccCCccccCCCccccCCeeccHHHHHhhh
Q psy12714         61 RCTQCCTVLRMESYTMNNGHLYCLPHFKQLF   91 (117)
Q Consensus        61 ~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~   91 (117)
                      +|..|.+++..+.|+..+|++||+.||.++-
T Consensus         1 VC~~C~~PF~~~~Fy~~~g~PyCe~HyH~~~   31 (32)
T d1x3ha2           1 VCGDCFTSFSTGSFFELDGRPFCELHYHHRR   31 (32)
T ss_dssp             BCSSSCCBSCSSCCEESSSCEECHHHHHHHH
T ss_pred             CcCccCCcCCCCCeEeECCccchHHhhhhhc
Confidence            4889999999999999999999999998764

>d2cuqa2 g.39.1.3 (A:8-42) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.26  E-value=2.5e-07  Score=43.90  Aligned_cols=31  Identities=19%  Similarity=0.464  Sum_probs=27.0

Q ss_pred             CcccccccccccccccCccEEeCCCcccccCc
Q psy12714         29 GNPSSLCFACNKKVYPLEKIETDGKLFHRACF   60 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf   60 (117)
                      .+++.+|..|+++|..+ .+...++.||.+||
T Consensus         5 ~kfa~~C~~Ckk~It~G-GvtY~dqpWHkeCF   35 (35)
T d2cuqa2           5 NKFAPRCARCSKTLTQG-GVTYRDQPWHRECL   35 (35)
T ss_dssp             CCSSCCCTTTCCCCCSC-CEESSSSEECTTTC
T ss_pred             HHHHHHHhhcCCccccC-ceeecCCcchhhhC
Confidence            46788999999999754 48999999999998

>d2dara2 g.39.1.3 (A:8-52) PDZ and LIM domain protein 5, Enigma {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 5, Enigma
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.26  E-value=2.3e-07  Score=46.69  Aligned_cols=31  Identities=26%  Similarity=0.492  Sum_probs=27.0

Q ss_pred             CcccccccccccccccCccEEeCCCcccccCc
Q psy12714         29 GNPSSLCFACNKKVYPLEKIETDGKLFHRACF   60 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf   60 (117)
                      +...+.|..|+++|. +..+.++++.||+++|
T Consensus        15 ~~r~P~C~~C~~pI~-g~~vtAlgk~WHPEhF   45 (45)
T d2dara2          15 GKRTPMCAHCNQVIR-GPFLVALGKSWHPEEF   45 (45)
T ss_dssp             TTCCCBBSSSCCBCC-SCEEEETTEEECTTTC
T ss_pred             CCCCeeccccCCccc-CceeeecCCccCcCCC
Confidence            456789999999994 6778999999999998

>d2cuqa1 g.39.1.3 (A:43-74) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.22  E-value=4.6e-07  Score=41.79  Aligned_cols=32  Identities=34%  Similarity=0.693  Sum_probs=29.4

Q ss_pred             ccccCCccccCCCccccCCeeccHHHHHhhhC
Q psy12714         61 RCTQCCTVLRMESYTMNNGHLYCLPHFKQLFI   92 (117)
Q Consensus        61 ~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~   92 (117)
                      .|..|.++|..+.|..+|..+||-.||.++|+
T Consensus         1 vCt~Ck~~LaGqrFTSrde~pYC~~Cfg~LfA   32 (32)
T d2cuqa1           1 VCTGCQTPLAGQQFTSRDEDPYCVACFGELFA   32 (32)
T ss_dssp             BCSSSCCBCTTCCEEECSSSEEEHHHHHHHTT
T ss_pred             CccccCccccCCccccCCCCccHHHHhHhhcC
Confidence            47889999999999999999999999999885

>d1ibia1 g.39.1.3 (A:117-144) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]

Probab=98.21  E-value=2.6e-07  Score=41.28  Aligned_cols=27  Identities=37%  Similarity=0.812  Sum_probs=25.4

Q ss_pred             ccccccccccccCccEEeCCCcccccC
Q psy12714         33 SLCFACNKKVYPLEKIETDGKLFHRAC   59 (117)
Q Consensus        33 ~~C~~C~~~i~~~~~~~~~~~~~H~~C   59 (117)
                      .+|.+|++.++..|++...++.||+.|
T Consensus         2 d~CpRC~~~VyaAEkviGaG~~WHk~C   28 (28)
T d1ibia1           2 EKCSRCGDSVYAAEKVIGAGKPWHKNC   28 (28)
T ss_dssp             EECTTTSSEESSSSCEESSSSEECSSC
T ss_pred             CcCcccchhHHHHHHHhcCCCccccCC
Confidence            589999999999999999999999987

>d2dara1 g.39.1.3 (A:53-84) PDZ and LIM domain protein 5, Enigma {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 5, Enigma
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.19  E-value=6.7e-07  Score=41.37  Aligned_cols=32  Identities=22%  Similarity=0.688  Sum_probs=28.7

Q ss_pred             ccccCCccccCCCccccCCeeccHHHHHhhhC
Q psy12714         61 RCTQCCTVLRMESYTMNNGHLYCLPHFKQLFI   92 (117)
Q Consensus        61 ~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~   92 (117)
                      .|..|..+|....|....|.+||+.||.+.|+
T Consensus         1 nCa~C~~sL~d~gFVEE~g~lYCe~Cye~ffA   32 (32)
T d2dara1           1 NCAHCKNTMAYIGFVEEKGALYCELCYEKFFA   32 (32)
T ss_dssp             BCSSSCCBCSSSCBEESSSCEECHHHHHHHTS
T ss_pred             CcccccccHhhcceeeecCcEeHHHHHHHhcC
Confidence            37899999999999999999999999988764

>d1x63a1 g.39.1.3 (A:8-44) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.16  E-value=4.9e-07  Score=43.95  Aligned_cols=32  Identities=28%  Similarity=0.688  Sum_probs=27.3

Q ss_pred             CcccccccccccccccCcc-EEeCCCcccccCc
Q psy12714         29 GNPSSLCFACNKKVYPLEK-IETDGKLFHRACF   60 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~~~~-~~~~~~~~H~~Cf   60 (117)
                      ...+++|.+|+++|..+.+ +.+.++.||..||
T Consensus         5 ~~~a~~C~~C~k~I~~G~k~veykg~~WHe~CF   37 (37)
T d1x63a1           5 REDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCF   37 (37)
T ss_dssp             CCCSCBCSSSCCBCCSSSCEEECSSCEEETTTC
T ss_pred             cccCcccccCCCccCCCCeEeEeCCccchhccC
Confidence            3467899999999987654 7899999999998

>d1a7ia2 g.39.1.3 (A:36-67) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]

Probab=98.15  E-value=5.6e-07  Score=41.26  Aligned_cols=31  Identities=16%  Similarity=0.524  Sum_probs=28.5

Q ss_pred             cccCCccccCCCccccCCeeccHHHHHhhhC
Q psy12714         62 CTQCCTVLRMESYTMNNGHLYCLPHFKQLFI   92 (117)
Q Consensus        62 C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~   92 (117)
                      |..|.+.|.+.....+++++||+.||.++|+
T Consensus         2 C~~C~K~LdStTva~h~~eiYCKsCygkkyg   32 (32)
T d1a7ia2           2 CMVCRKNLDSTTVAIHDAEVYCKSCYGKKYG   32 (32)
T ss_dssp             CSSSCCEECSSCCEEETTEEECSHHHHHHCC
T ss_pred             chhhhhccCcceeeeecceEEehhhccccCC
Confidence            7789999999999999999999999998875

>d1rutx1 g.39.1.3 (X:19-48) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.08  E-value=6.3e-07  Score=41.34  Aligned_cols=28  Identities=18%  Similarity=0.403  Sum_probs=24.8

Q ss_pred             ccccccccccccCccEEeCCCcccccCc
Q psy12714         33 SLCFACNKKVYPLEKIETDGKLFHRACF   60 (117)
Q Consensus        33 ~~C~~C~~~i~~~~~~~~~~~~~H~~Cf   60 (117)
                      ..|++|+++|.+...+.+.++.||..|+
T Consensus         3 ~~CaGC~~~I~DRflL~v~dr~WH~~CL   30 (30)
T d1rutx1           3 KRCAGCGGKIADRFLLYAMDSYWHSRCL   30 (30)
T ss_dssp             CBBTTTCCBCCCSEEEEETTEEECGGGC
T ss_pred             cccCCCCCccchhhhhccchhhhhhhhC
Confidence            4799999999877778899999999985

>d1x4ka1 g.39.1.3 (A:35-66) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.03  E-value=2.2e-06  Score=39.64  Aligned_cols=32  Identities=16%  Similarity=0.583  Sum_probs=29.0

Q ss_pred             ccccCCccccCCCccccCCeeccHHHHHhhhC
Q psy12714         61 RCTQCCTVLRMESYTMNNGHLYCLPHFKQLFI   92 (117)
Q Consensus        61 ~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~   92 (117)
                      .|..|..+|+...|..+++..||-.||++.|+
T Consensus         1 ~C~~C~qPIGtksfipk~~~~yCvpCyE~kfA   32 (32)
T d1x4ka1           1 ICHRCQQPIGTKSFIPKDNQNFCVPCYEKQHA   32 (32)
T ss_dssp             CCSSSCCCCCSSSEEEETTEEEEHHHHHHHTS
T ss_pred             CcccccCcccccccccCCCCceEeecchhhcC
Confidence            37889999999888899999999999999885

>d1j2oa1 g.39.1.3 (A:1-30) Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Rhombotin-2 (Lmo2)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.00  E-value=1.7e-06  Score=39.74  Aligned_cols=28  Identities=14%  Similarity=0.354  Sum_probs=24.4

Q ss_pred             cccccccccccccCccEEeCCCcccccC
Q psy12714         32 SSLCFACNKKVYPLEKIETDGKLFHRAC   59 (117)
Q Consensus        32 ~~~C~~C~~~i~~~~~~~~~~~~~H~~C   59 (117)
                      ...|++|+++|.+...+.+.++.||..|
T Consensus         3 ~~~CaGC~~~I~DRflL~a~Dr~WH~~C   30 (30)
T d1j2oa1           3 LLTCGGCQQNIGDRYFLKAIDQYWHEDC   30 (30)
T ss_dssp             CBCBSSSCSCBCSSEEEECSSSEECTTT
T ss_pred             CcccCCCCCcchHHHHHHHHHHHHhcCC
Confidence            3579999999987777889999999887

>d1wyha1 g.39.1.3 (A:35-66) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.95  E-value=4e-06  Score=38.70  Aligned_cols=32  Identities=28%  Similarity=0.717  Sum_probs=28.8

Q ss_pred             ccccCCccccCCCccccCCeeccHHHHHhhhC
Q psy12714         61 RCTQCCTVLRMESYTMNNGHLYCLPHFKQLFI   92 (117)
Q Consensus        61 ~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~   92 (117)
                      .|..|..+++...|..+++..||-.||+.+|+
T Consensus         1 ~C~~C~qPIGtkSFip~~~~~yCvpCYE~kfA   32 (32)
T d1wyha1           1 LCSGCEQPLGSRSFVPDKGAHYCVPCYENKFA   32 (32)
T ss_dssp             BCTTTCCBTTTSCEEEETTEEEEHHHHHHHTS
T ss_pred             CcccccCcccccccccCCCcEEEEeccccccC
Confidence            37889999999888889999999999999885

>d1rutx3 g.39.1.3 (X:83-113) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.85  E-value=2.7e-06  Score=39.40  Aligned_cols=29  Identities=31%  Similarity=0.769  Sum_probs=25.5

Q ss_pred             cccccccccccccCccE-EeCCCcccccCc
Q psy12714         32 SSLCFACNKKVYPLEKI-ETDGKLFHRACF   60 (117)
Q Consensus        32 ~~~C~~C~~~i~~~~~~-~~~~~~~H~~Cf   60 (117)
                      +..|.+|++.|...+.+ ++.+..||..||
T Consensus         2 ~g~Ca~C~~~I~~~e~VmRA~~~VyHl~CF   31 (31)
T d1rutx3           2 SGACSACGQSIPASELVMRAQGNVYHLKCF   31 (31)
T ss_dssp             CEECTTTCCEECTTSEEEEETTEEECGGGC
T ss_pred             CcccccccCcCChhHhheecccceeeeccC
Confidence            45799999999888876 699999999998

>d1u5sb1 g.39.1.3 (B:72-102) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.74  E-value=5.2e-06  Score=38.20  Aligned_cols=28  Identities=21%  Similarity=0.395  Sum_probs=24.0

Q ss_pred             cccccccccccccccCccEEeCCCccccc
Q psy12714         30 NPSSLCFACNKKVYPLEKIETDGKLFHRA   58 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~~~~~~~~~H~~   58 (117)
                      .+.++|+.|+++|. +..+.++++.||++
T Consensus         3 mg~p~C~~C~~PI~-~~~vtAlgk~WHpE   30 (31)
T d1u5sb1           3 MGVPICGACRRPIE-GRVVNAMGKQWHVE   30 (31)
T ss_dssp             CCCCEETTTTEECC-SCEECCTTSBEETT
T ss_pred             cCCcchhhcCCchh-hhHhhhhccccCCC
Confidence            46789999999994 57788999999986

>d1x61a2 g.39.1.3 (A:35-66) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.70  E-value=1.5e-05  Score=36.27  Aligned_cols=30  Identities=20%  Similarity=0.459  Sum_probs=27.0

Q ss_pred             ccccCCccccCCCccccCCeeccHHHHHhh
Q psy12714         61 RCTQCCTVLRMESYTMNNGHLYCLPHFKQL   90 (117)
Q Consensus        61 ~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~   90 (117)
                      .|.+|+..|.++.|+..+.+.||+.||-..
T Consensus         1 vC~tC~~kLRGqpFYAvekkayCE~CYi~t   30 (32)
T d1x61a2           1 VCSTCRAQLRGQHFYAVERRAYCEGCYVAT   30 (32)
T ss_dssp             BCSSSCCBCTTSCEEESSSCEEEHHHHHHH
T ss_pred             CeeEeCceecCCcceEeeccccccceeeee
Confidence            488999999999999999999999999653

>d1x4la1 g.39.1.3 (A:8-36) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.70  E-value=9.5e-06  Score=36.47  Aligned_cols=26  Identities=23%  Similarity=0.672  Sum_probs=22.0

Q ss_pred             cccccccccc---CccEEeCCCcccccCc
Q psy12714         35 CFACNKKVYP---LEKIETDGKLFHRACF   60 (117)
Q Consensus        35 C~~C~~~i~~---~~~~~~~~~~~H~~Cf   60 (117)
                      |..|.++|..   +..+...++.||..||
T Consensus         1 C~~C~kPItg~gg~kyisFE~R~WH~~CF   29 (29)
T d1x4la1           1 CAGCTNPISGLGGTKYISFEERQWHNDCF   29 (29)
T ss_dssp             BTTTTBCCCCSSSCSCEECSSCEECTTTC
T ss_pred             CCccCCcccccCCceEEEeecccccccCC
Confidence            7899999965   3458899999999997

>d1b8ta1 g.39.1.3 (A:1-35) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=97.68  E-value=9.7e-06  Score=37.58  Aligned_cols=31  Identities=35%  Similarity=0.822  Sum_probs=28.0

Q ss_pred             cccccccccccccccCccEEeCCCcccccCc
Q psy12714         30 NPSSLCFACNKKVYPLEKIETDGKLFHRACF   60 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf   60 (117)
                      .+.++|..|.+.++.++-+...++.||+.||
T Consensus         5 ggg~kcg~c~ktvy~aeevqc~g~sfhk~cf   35 (35)
T d1b8ta1           5 GGGKKCGVCQKAVYFAEEVQCEGSSFHKSCF   35 (35)
T ss_dssp             CCCEECTTTCCEECSSCCEEETTEEECTTTC
T ss_pred             CCCceeccccceEeeeeeeeecCcccccccC
Confidence            3467999999999999989999999999997

>d2cura1 g.39.1.3 (A:33-63) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.63  E-value=1.9e-05  Score=35.84  Aligned_cols=29  Identities=24%  Similarity=0.643  Sum_probs=26.3

Q ss_pred             ccccCCccccCCCccccCCeeccHHHHHh
Q psy12714         61 RCTQCCTVLRMESYTMNNGHLYCLPHFKQ   89 (117)
Q Consensus        61 ~C~~C~~~L~~~~~~~~~g~~~C~~~y~~   89 (117)
                      .|..|++.|....|...++++||-.||..
T Consensus         1 vC~~C~K~Lag~rFTa~eDq~yCVdCYK~   29 (31)
T d2cura1           1 VCVTCSKKLAGQRFTAVEDQYYCVDCYKN   29 (31)
T ss_dssp             BCTTTCCBCTTSCEEECSSCEEEHHHHHH
T ss_pred             CcccccchhcCceeEEecceEEEeeeecc
Confidence            48899999999999999999999999964

>d1a7ia1 g.39.1.3 (A:8-35) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]

Probab=97.62  E-value=1.1e-05  Score=35.46  Aligned_cols=28  Identities=46%  Similarity=1.056  Sum_probs=25.8

Q ss_pred             ccccccccccccCccEEeCCCcccccCc
Q psy12714         33 SLCFACNKKVYPLEKIETDGKLFHRACF   60 (117)
Q Consensus        33 ~~C~~C~~~i~~~~~~~~~~~~~H~~Cf   60 (117)
                      ++|+.|.+.++..+-+...++.||+.||
T Consensus         1 nkcg~c~ktvy~aeevqc~grsfhk~cf   28 (28)
T d1a7ia1           1 NKCGACGRTVYHAEEVQCDGRSFHRCCF   28 (28)
T ss_dssp             CBCSSSCCBCSSTTEEEETTEEEESSSE
T ss_pred             CccccccceEeeeeeeeecCceeccccC
Confidence            4799999999999989999999999997

>d1x64a1 g.39.1.3 (A:8-52) PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 3, PDLIM3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.56  E-value=6.1e-05  Score=37.28  Aligned_cols=32  Identities=22%  Similarity=0.485  Sum_probs=27.3

Q ss_pred             CCcccccccccccccccCccEEeCCCcccccCc
Q psy12714         28 TGNPSSLCFACNKKVYPLEKIETDGKLFHRACF   60 (117)
Q Consensus        28 ~~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf   60 (117)
                      ..+..+.|..|+-.|. +-.+.++++.+|++||
T Consensus        14 ~~QkLP~CdkCg~GIV-G~~VK~rDK~rHPeCf   45 (45)
T d1x64a1          14 SAQRMPLCDKCGSGIV-GAVVKARDKYRHPECF   45 (45)
T ss_dssp             CCCSCCBCTTTCCBCC-SCCEESSSCEECTTTC
T ss_pred             ccccCccccccCCCcE-EEEEEeccccCCCCCC
Confidence            4556789999999995 5568999999999998

>d1x4ka2 g.39.1.3 (A:8-34) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.45  E-value=2.5e-05  Score=34.27  Aligned_cols=26  Identities=38%  Similarity=0.924  Sum_probs=22.5

Q ss_pred             ccccccccccCc-cEEeCCCcccccCc
Q psy12714         35 CFACNKKVYPLE-KIETDGKLFHRACF   60 (117)
Q Consensus        35 C~~C~~~i~~~~-~~~~~~~~~H~~Cf   60 (117)
                      |..|.+.|..+. ++...+..||..||
T Consensus         1 C~~C~ktiMPGsrKme~kG~~WHEtCF   27 (27)
T d1x4ka2           1 CQECKKTIMPGTRKMEYKGSSWHETCF   27 (27)
T ss_dssp             BSSSCCCCCSSSCEEEETTEEEETTTT
T ss_pred             CccccccccCCceeecccCCccccccC
Confidence            788999998765 47899999999998

>d1x68a1 g.39.1.3 (A:8-36) Four and a half LIM domains protein 5, FHL-5 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 5, FHL-5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.41  E-value=2.5e-05  Score=34.96  Aligned_cols=26  Identities=31%  Similarity=0.660  Sum_probs=21.4

Q ss_pred             cccccccccc---CccEEeCCCcccccCc
Q psy12714         35 CFACNKKVYP---LEKIETDGKLFHRACF   60 (117)
Q Consensus        35 C~~C~~~i~~---~~~~~~~~~~~H~~Cf   60 (117)
                      |..|.++|..   ...+...++.||..||
T Consensus         1 C~~C~kPItg~gG~k~isFedR~WH~~CF   29 (29)
T d1x68a1           1 CVACSKPISGLTGAKFICFQDSQWHSECF   29 (29)
T ss_dssp             CTTTCCCCCTTTTCCEEEETTEEEEGGGC
T ss_pred             CccccccccccCCceEEEeehhhcccccC
Confidence            7889999865   3347899999999997

>d1x62a2 g.39.1.3 (A:8-42) PDZ and LIM domain protein 1 Elfin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 1 Elfin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.36  E-value=8.5e-05  Score=34.52  Aligned_cols=31  Identities=13%  Similarity=0.364  Sum_probs=26.1

Q ss_pred             CcccccccccccccccCccEEeCCCcccccCc
Q psy12714         29 GNPSSLCFACNKKVYPLEKIETDGKLFHRACF   60 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf   60 (117)
                      .+-.+.|..|+..|. +..+.++++.+|++||
T Consensus         5 ~qklp~CdkCg~GIV-G~~VK~rDk~rHPeCf   35 (35)
T d1x62a2           5 AQKLPMCDKCGTGIV-GVFVKLRDRHRHPECY   35 (35)
T ss_dssp             CCCCCCCSSSCCCCC-SSCEECSSCEECTTTT
T ss_pred             cccCccccccCCCcE-eEEEEeccccCCCCCC
Confidence            344678999999995 5568999999999997

>d2dloa2 g.39.1.3 (A:43-75) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.35  E-value=8.2e-05  Score=34.62  Aligned_cols=32  Identities=22%  Similarity=0.557  Sum_probs=27.6

Q ss_pred             ccccCCccccCCCccc-cCCeeccHHHHHhhhC
Q psy12714         61 RCTQCCTVLRMESYTM-NNGHLYCLPHFKQLFI   92 (117)
Q Consensus        61 ~C~~C~~~L~~~~~~~-~~g~~~C~~~y~~~~~   92 (117)
                      .|..|+..|.+..|.. .++++||-.+|.++|+
T Consensus         1 tCvvC~~~LDGvPFtvD~~n~i~Cv~DyHrkfA   33 (33)
T d2dloa2           1 TCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFA   33 (33)
T ss_dssp             BCSSSCCBCTTSCEECCTTCCCEEHHHHHHHTT
T ss_pred             CeeEcCcccCCCcEEEcCCCCEeehhhhhhhcC
Confidence            3788999998888887 4799999999999885

>d1wyha2 g.39.1.3 (A:8-34) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.35  E-value=3.2e-05  Score=33.88  Aligned_cols=26  Identities=42%  Similarity=0.938  Sum_probs=22.1

Q ss_pred             ccccccccccCc-cEEeCCCcccccCc
Q psy12714         35 CFACNKKVYPLE-KIETDGKLFHRACF   60 (117)
Q Consensus        35 C~~C~~~i~~~~-~~~~~~~~~H~~Cf   60 (117)
                      |..|.+.|..+. ++...+..||..||
T Consensus         1 C~~C~ktiMPGsrKmey~G~sWHE~CF   27 (27)
T d1wyha2           1 CSACGETVMPGSRKLEYGGQTWHEHCF   27 (27)
T ss_dssp             CSSSCCBCCSSSCEECSTTCCEETTTC
T ss_pred             CccccceecCCcccccccCcccccccC
Confidence            778999998765 47789999999998

>d1x3ha1 g.39.1.3 (A:8-42) Leupaxin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Leupaxin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.22  E-value=1.7e-05  Score=37.99  Aligned_cols=25  Identities=20%  Similarity=0.357  Sum_probs=17.9

Q ss_pred             HHHhhhCCCC---------ccccccCccccccCC
Q psy12714         86 HFKQLFISRG---------NYDEGFGSDQHKRKW  110 (117)
Q Consensus        86 ~y~~~~~~kc---------~~~~~~~~~~~~~~~  110 (117)
                      ||.++|+|+|         .++.+++..||++.|
T Consensus         2 DY~~~fapkC~~C~~~I~g~~v~Al~~~wHpeCF   35 (35)
T d1x3ha1           2 DFLAMFSPKCGGCNRPVLENYLSAMDTVWHPECF   35 (35)
T ss_dssp             CCCCCCSCBCTTTCCBCCSSCEEETTEEECTTTC
T ss_pred             cHHHHhChhhhhcCCcccchheeecCCccCcccC
Confidence            5777788887         566777777777654

>d1rutx2 g.39.1.3 (X:49-82) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.15  E-value=0.00012  Score=33.88  Aligned_cols=32  Identities=25%  Similarity=0.531  Sum_probs=26.3

Q ss_pred             ccccCCcccc--CCCccccCCeeccHHHHHhhhC
Q psy12714         61 RCTQCCTVLR--MESYTMNNGHLYCLPHFKQLFI   92 (117)
Q Consensus        61 ~C~~C~~~L~--~~~~~~~~g~~~C~~~y~~~~~   92 (117)
                      +|..|+..|.  ....+.+.+.++|+.+|.++|+
T Consensus         1 KCscC~~~LgeiG~s~ytk~~mILCk~DY~rlFG   34 (34)
T d1rutx2           1 KCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG   34 (34)
T ss_dssp             BCTTTCCBHHHHCSEEEEETTEEECHHHHHHHHS
T ss_pred             CCcchhcChhhccchheecCCEEEEchhHHHhcC
Confidence            4777888876  4457778999999999999986

>d1x64a2 g.39.1.3 (A:53-83) PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 3, PDLIM3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.14  E-value=0.00022  Score=32.23  Aligned_cols=29  Identities=31%  Similarity=0.738  Sum_probs=25.5

Q ss_pred             ccccCCccccCCCccccCCeeccHHHHHh
Q psy12714         61 RCTQCCTVLRMESYTMNNGHLYCLPHFKQ   89 (117)
Q Consensus        61 ~C~~C~~~L~~~~~~~~~g~~~C~~~y~~   89 (117)
                      .|..|+..|....++..++++||+.|-..
T Consensus         1 vC~dCg~NLKqrG~Ffv~~~lyCE~HAr~   29 (31)
T d1x64a2           1 VCADCNLNLKQKGYFFVEGELYCETHARA   29 (31)
T ss_dssp             CCSSSCCCTTTSCCEEETTEEECHHHHHH
T ss_pred             CccccccChhhcceEEeccEEeehhhhhc
Confidence            48899999999999999999999988643

>d1x63a2 g.39.1.3 (A:45-76) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.10  E-value=0.00027  Score=31.66  Aligned_cols=32  Identities=22%  Similarity=0.590  Sum_probs=28.5

Q ss_pred             ccccCCccccCCCccccCCeeccHHHHHhhhC
Q psy12714         61 RCTQCCTVLRMESYTMNNGHLYCLPHFKQLFI   92 (117)
Q Consensus        61 ~C~~C~~~L~~~~~~~~~g~~~C~~~y~~~~~   92 (117)
                      .|+.|...++.+.|+.+...+||-.|.+.+|+
T Consensus         1 tcs~ckq~igsgsffpkg~d~ycvtche~kfa   32 (32)
T d1x63a2           1 TCSNCKQVIGTGSFFPKGEDFYCVTCHETKFA   32 (32)
T ss_dssp             CCSSSCCCCTTSCEEEETTEEEEHHHHHHHTS
T ss_pred             CcchhhhhcccccccCCCCcEEEEEeeccccC
Confidence            37889999999999999999999999988874

>d1v6ga1 g.39.1.3 (A:1-41) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.04  E-value=0.00016  Score=35.37  Aligned_cols=30  Identities=27%  Similarity=0.600  Sum_probs=26.1

Q ss_pred             CcccccccccccccccCccEEeCCCcccccC
Q psy12714         29 GNPSSLCFACNKKVYPLEKIETDGKLFHRAC   59 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~C   59 (117)
                      ..+..+|..|++.| .++.+.+.++.||+.|
T Consensus        12 ~~fG~~C~~C~~~I-tG~V~~Ag~~~yHP~C   41 (41)
T d1v6ga1          12 RLYGTRCFSCDQFI-EGEVVSALGKTYHPDC   41 (41)
T ss_dssp             GSCCCBCTTTCCBC-CSCCEEETTEEECTTT
T ss_pred             HHhCcccccccCEe-eeeeeEecCcccCCCC
Confidence            45567999999999 5788999999999987

>d2cupa3 g.39.1.3 (A:8-34) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.78  E-value=0.00029  Score=30.61  Aligned_cols=26  Identities=27%  Similarity=0.774  Sum_probs=20.7

Q ss_pred             ccccccccccCcc-EEeCCCcccccCc
Q psy12714         35 CFACNKKVYPLEK-IETDGKLFHRACF   60 (117)
Q Consensus        35 C~~C~~~i~~~~~-~~~~~~~~H~~Cf   60 (117)
                      |..|.++|....+ +...++.||..||
T Consensus         1 c~ecrkpigad~ke~h~knr~wh~~cf   27 (27)
T d2cupa3           1 CVECRKPIGADSKEVHYKNRFWHDTCF   27 (27)
T ss_dssp             CSSSCCBCCSSSCEEEETTEEEETTTC
T ss_pred             CccccCCcCcchHHhhccccccccccC
Confidence            6789999965433 6788999999997

>d1x62a1 g.39.1.3 (A:43-73) PDZ and LIM domain protein 1 Elfin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 1 Elfin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.70  E-value=0.00024  Score=32.14  Aligned_cols=29  Identities=28%  Similarity=0.621  Sum_probs=25.3

Q ss_pred             ccccCCccccCCCccccCCeeccHHHHHh
Q psy12714         61 RCTQCCTVLRMESYTMNNGHLYCLPHFKQ   89 (117)
Q Consensus        61 ~C~~C~~~L~~~~~~~~~g~~~C~~~y~~   89 (117)
                      .|..|+..|....|+..++++||+.|-..
T Consensus         1 vC~dCg~NLKqrG~Ffve~~lyCE~HAr~   29 (31)
T d1x62a1           1 VCTDCGTNLKQKGHFFVEDQIYCEKHARE   29 (31)
T ss_dssp             SCSSSCCCHHHHCCEESSSCEECHHHHHH
T ss_pred             CccccccChhhcceEEeccEEehhhhhhh
Confidence            48899999998889999999999998654

>d2cuqa2 g.39.1.3 (A:8-42) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.69  E-value=8.3e-05  Score=34.97  Aligned_cols=29  Identities=17%  Similarity=0.319  Sum_probs=24.1

Q ss_pred             HHHHhhhCCCC----ccccccCccccccCCccc
Q psy12714         85 PHFKQLFISRG----NYDEGFGSDQHKRKWQPV  113 (117)
Q Consensus        85 ~~y~~~~~~kc----~~~~~~~~~~~~~~~~~~  113 (117)
                      +||+++|+++|    +.|...|.+|.++.||..
T Consensus         1 PCyE~kfa~~C~~Ckk~It~GGvtY~dqpWHke   33 (35)
T d2cuqa2           1 PCYENKFAPRCARCSKTLTQGGVTYRDQPWHRE   33 (35)
T ss_dssp             CCCCCCSSCCCTTTCCCCCSCCEESSSSEECTT
T ss_pred             CchHHHHHHHHhhcCCccccCceeecCCcchhh
Confidence            37888999988    577788889999999964

>d1x6aa2 g.39.1.3 (A:42-75) Lim domain kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Lim domain kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.17  E-value=0.0025  Score=29.34  Aligned_cols=31  Identities=19%  Similarity=0.551  Sum_probs=24.3

Q ss_pred             cccccCCccccCCCcc-c-cCCeeccHHHHHhh
Q psy12714         60 FRCTQCCTVLRMESYT-M-NNGHLYCLPHFKQL   90 (117)
Q Consensus        60 f~C~~C~~~L~~~~~~-~-~~g~~~C~~~y~~~   90 (117)
                      |.|..|+.-++++..+ . ....+||..||.+.
T Consensus         1 F~C~~C~~fIgdgdsyaLVerskLYCG~Cy~~~   33 (34)
T d1x6aa2           1 FACMSCKVIIEDGDAYALVQHATLYCGKCHNEV   33 (34)
T ss_dssp             CBCTTTCCBCCTTSCEEECSSSCEEEHHHHHHH
T ss_pred             CcccccccEEecCceEEEEeeceeeeecchhcc
Confidence            6789999999866544 4 45899999999764

>d1x61a1 g.39.1.3 (A:8-34) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.05  E-value=0.0018  Score=27.61  Aligned_cols=26  Identities=27%  Similarity=0.616  Sum_probs=20.8

Q ss_pred             cccccccccc-CccEEeCCCcccccCc
Q psy12714         35 CFACNKKVYP-LEKIETDGKLFHRACF   60 (117)
Q Consensus        35 C~~C~~~i~~-~~~~~~~~~~~H~~Cf   60 (117)
                      |.+|++.+.. +..+.++++.||..||
T Consensus         1 cggcgedvvgdgagvvaldrvfhvgcf   27 (27)
T d1x61a1           1 CGGCGEDVVGDGAGVVALDRVFHVGCF   27 (27)
T ss_dssp             CSSSCSCCCSSSCCEECSSSEECTTTC
T ss_pred             CCCcccccccCCcceEEEeeeEEeccC
Confidence            7889998754 3447899999999987

>d1g47a1 g.39.1.3 (A:1-35) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.98  E-value=0.0017  Score=30.12  Aligned_cols=29  Identities=34%  Similarity=0.836  Sum_probs=24.1

Q ss_pred             ccccccccccccccCcc-EEeCCCcccccC
Q psy12714         31 PSSLCFACNKKVYPLEK-IETDGKLFHRAC   59 (117)
Q Consensus        31 ~~~~C~~C~~~i~~~~~-~~~~~~~~H~~C   59 (117)
                      ....|.+|+....+.++ +...+..||..|
T Consensus         6 ~~~~C~RC~~gF~p~EkiVNSnGEl~H~qC   35 (35)
T d1g47a1           6 ASATCERCKGGFAPAEKIVNSNGELYHEQC   35 (35)
T ss_dssp             CCCBCSSSCCBCCSTTTCEEETTEEECTTT
T ss_pred             HHHHHHHHccCCCchHHhhcCCCccccccC
Confidence            45689999999877776 579999999987

>d1wiga1 g.39.1.3 (A:1-32) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.98  E-value=0.0018  Score=29.14  Aligned_cols=29  Identities=31%  Similarity=0.539  Sum_probs=23.5

Q ss_pred             cccccccccccccccCccEEeCCCcccccC
Q psy12714         30 NPSSLCFACNKKVYPLEKIETDGKLFHRAC   59 (117)
Q Consensus        30 ~~~~~C~~C~~~i~~~~~~~~~~~~~H~~C   59 (117)
                      ....-|..|.+-|. +..+.+.++.||+.|
T Consensus         3 sgssgC~~C~~~It-GkVLEAG~khYHP~C   31 (32)
T d1wiga1           3 SGSSGCDSCEKYIT-GRVLEAGEKHYHPSC   31 (32)
T ss_dssp             CSCCSCSSSCCCCS-SCCBCCSSCCBCTTT
T ss_pred             Cccchhhhhhhhhh-hhhhhccccccCCCC
Confidence            34567999999994 566789999999988

>d1v6ga1 g.39.1.3 (A:1-41) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.31  E-value=0.0015  Score=31.73  Aligned_cols=29  Identities=17%  Similarity=0.336  Sum_probs=22.0

Q ss_pred             HHHHhhhCCCC----ccccccCccccccCCccc
Q psy12714         85 PHFKQLFISRG----NYDEGFGSDQHKRKWQPV  113 (117)
Q Consensus        85 ~~y~~~~~~kc----~~~~~~~~~~~~~~~~~~  113 (117)
                      .||+++|+.+|    .||.|.....-.++|||.
T Consensus         8 ~DYq~~fG~~C~~C~~~ItG~V~~Ag~~~yHP~   40 (41)
T d1v6ga1           8 LDYQRLYGTRCFSCDQFIEGEVVSALGKTYHPD   40 (41)
T ss_dssp             SCGGGSCCCBCTTTCCBCCSCCEEETTEEECTT
T ss_pred             ccHHHHhCcccccccCEeeeeeeEecCcccCCC
Confidence            46999999998    677777666666777764

>d2dara2 g.39.1.3 (A:8-52) PDZ and LIM domain protein 5, Enigma {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 5, Enigma
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.01  E-value=0.0059  Score=30.14  Aligned_cols=17  Identities=24%  Similarity=0.534  Sum_probs=14.2

Q ss_pred             CCccccccCccccccCC
Q psy12714         94 RGNYDEGFGSDQHKRKW  110 (117)
Q Consensus        94 kc~~~~~~~~~~~~~~~  110 (117)
                      .+.++.++|+.||++||
T Consensus        29 ~g~~vtAlgk~WHPEhF   45 (45)
T d2dara2          29 RGPFLVALGKSWHPEEF   45 (45)
T ss_dssp             CSCEEEETTEEECTTTC
T ss_pred             cCceeeecCCccCcCCC
Confidence            45688999999999986

>d2cupa2 g.39.1.3 (A:35-65) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.91  E-value=0.011  Score=26.32  Aligned_cols=27  Identities=22%  Similarity=0.594  Sum_probs=23.7

Q ss_pred             ccccCCccccCCCccccCCeeccHHHH
Q psy12714         61 RCTQCCTVLRMESYTMNNGHLYCLPHF   87 (117)
Q Consensus        61 ~C~~C~~~L~~~~~~~~~g~~~C~~~y   87 (117)
                      +|..|-.+|....|..+|++++|..|-
T Consensus         1 RCaKC~hpLA~E~F~aKd~kI~C~Kc~   27 (31)
T d2cupa2           1 RCAKCLHPLANETFVAKDNKILCNKCT   27 (31)
T ss_dssp             CCSSSCCCTTSSCCEEETTEEECHHHH
T ss_pred             CchhhccccccCcccccCCeEeecccc
Confidence            578888899988899999999998885

>d2d8xa1 g.39.1.3 (A:33-64) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.85  E-value=0.016  Score=26.00  Aligned_cols=29  Identities=31%  Similarity=0.637  Sum_probs=25.5

Q ss_pred             ccccCCccccCCCccccCCeeccHHHHHh
Q psy12714         61 RCTQCCTVLRMESYTMNNGHLYCLPHFKQ   89 (117)
Q Consensus        61 ~C~~C~~~L~~~~~~~~~g~~~C~~~y~~   89 (117)
                      +|..|...|.+..|....|+.+|.+|..+
T Consensus         1 rC~~C~~~LAD~GFvKnagR~LCrpch~r   29 (32)
T d2d8xa1           1 RCDLCQEVLADIGFVKNAGRHLCRPCHNR   29 (32)
T ss_dssp             BCSSSCCBCSSSCCEEETTEEECHHHHHH
T ss_pred             CchHHHhHHHHhhhhhcccccccchhhhh
Confidence            58889999999888888999999999864

>d1x6aa1 g.39.1.3 (A:8-41) Lim domain kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Lim domain kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.57  E-value=0.0093  Score=27.37  Aligned_cols=30  Identities=17%  Similarity=0.386  Sum_probs=23.2

Q ss_pred             CcccccccccccccccCccEEeCCCcccccC
Q psy12714         29 GNPSSLCFACNKKVYPLEKIETDGKLFHRAC   59 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~C   59 (117)
                      ..+...|..|.+.|. +-.+.+.+..||++|
T Consensus         5 ~kfge~C~~C~~~it-GpvMvAG~~K~HPEC   34 (34)
T d1x6aa1           5 GKFGEFCHGCSLLMT-GPFMVAGEFKYHPEC   34 (34)
T ss_dssp             CCSSCBCTTTCCBCC-SCCBCCTTCCBCTTS
T ss_pred             HHHHHHhhhhHhhcc-cceeeecccccCCCC
Confidence            456678999999875 555567777899987

>d2cora1 g.39.1.3 (A:43-73) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.82  E-value=0.028  Score=24.90  Aligned_cols=26  Identities=35%  Similarity=0.750  Sum_probs=20.0

Q ss_pred             cccCCccccCCCccccCCeeccHHHHH
Q psy12714         62 CTQCCTVLRMESYTMNNGHLYCLPHFK   88 (117)
Q Consensus        62 C~~C~~~L~~~~~~~~~g~~~C~~~y~   88 (117)
                      |..|++.|.. .-....|.+||.+|..
T Consensus         2 C~~Cgkelta-dArEl~geLyCLpChd   27 (31)
T d2cora1           2 CANCGKELTA-DARELKGELYCLPCHD   27 (31)
T ss_dssp             CSSSCCBCCT-TCEEETTEEECHHHHH
T ss_pred             ccccccccch-hHHHhcCCEEEEeccc
Confidence            7788888854 3456689999999974

>d1wiga2 g.39.1.3 (A:33-73) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.68  E-value=0.0086  Score=28.62  Aligned_cols=27  Identities=26%  Similarity=0.545  Sum_probs=20.1

Q ss_pred             cccccccccccCcc-EEeCCCcccccCc
Q psy12714         34 LCFACNKKVYPLEK-IETDGKLFHRACF   60 (117)
Q Consensus        34 ~C~~C~~~i~~~~~-~~~~~~~~H~~Cf   60 (117)
                      .|.+|++....++- ....+.+||+.|-
T Consensus         1 ~C~rC~~mF~EGEEMYLQGs~IWHP~C~   28 (41)
T d1wiga2           1 LCVRCGQMFAEGEEMYLQGSSIWHPACR   28 (41)
T ss_dssp             CCSSSCCCCCSSCCCEEETTEEECTTHH
T ss_pred             CcchhhccccccceeeecCCceeCCccc
Confidence            48899988876654 4567788998873

>d1j2oa2 g.39.1.3 (A:31-63) Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Rhombotin-2 (Lmo2)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.31  E-value=0.052  Score=24.29  Aligned_cols=30  Identities=20%  Similarity=0.385  Sum_probs=22.0

Q ss_pred             ccccCCcccc--CCCccccCCeeccHHHHHhh
Q psy12714         61 RCTQCCTVLR--MESYTMNNGHLYCLPHFKQL   90 (117)
Q Consensus        61 ~C~~C~~~L~--~~~~~~~~g~~~C~~~y~~~   90 (117)
                      .|.-|+..|+  ....+.+.+.++|+.+|.++
T Consensus         2 kC~cC~cRLGEVG~tlytk~nliLCkrDYlRl   33 (33)
T d1j2oa2           2 SCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRL   33 (33)
T ss_dssp             CCSSSCSCCCCSSSCCCCBTTBCCCHHHHHHH
T ss_pred             ccccccccccchhhHHHhhcceeeehhhhhcC
Confidence            5677777776  33455678999999999653

>d1rutx4 g.39.1.3 (X:114-146) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.22  E-value=0.027  Score=25.25  Aligned_cols=27  Identities=26%  Similarity=0.566  Sum_probs=20.9

Q ss_pred             ccccCCccccCCC-ccccCCeeccHHHH
Q psy12714         61 RCTQCCTVLRMES-YTMNNGHLYCLPHF   87 (117)
Q Consensus        61 ~C~~C~~~L~~~~-~~~~~g~~~C~~~y   87 (117)
                      .|.+|...|..+. |....|.+||+.+-
T Consensus         1 tC~tC~n~LVPGDRFHyvNG~lfCE~D~   28 (33)
T d1rutx4           1 TCSTCRNRLVPGDRFHYINGSLFCEHDR   28 (33)
T ss_dssp             BCTTTCCBCCTTCEEEEETTEEEEGGGC
T ss_pred             CcccccccccCCceeEEecCEEEEecCC
Confidence            3788999887654 45579999998774

>d2co8a1 g.39.1.3 (A:44-76) Nedd9 interacting protein with calponin homology, NICAL (MICAL1) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Nedd9 interacting protein with calponin homology, NICAL (MICAL1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.13  E-value=0.018  Score=26.03  Aligned_cols=27  Identities=41%  Similarity=0.982  Sum_probs=21.9

Q ss_pred             ccccCCccccCCCccc--cCCeeccHHHH
Q psy12714         61 RCTQCCTVLRMESYTM--NNGHLYCLPHF   87 (117)
Q Consensus        61 ~C~~C~~~L~~~~~~~--~~g~~~C~~~y   87 (117)
                      +|..|...|..+.|..  .||.+||..++
T Consensus         1 rC~~CeatL~pG~Y~qhp~dghfyc~~hl   29 (33)
T d2co8a1           1 RCHTCEATLWPGGYEQHPGDGHFYCLQHL   29 (33)
T ss_dssp             BCSSSCCBCCTTSEECCTTTCCCEETTTC
T ss_pred             CceeeeeEEccCcccCCCCCceEeeeecc
Confidence            4788889998888776  48999998765

>d1x68a2 g.39.1.3 (A:37-70) Four and a half LIM domains protein 5, FHL-5 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 5, FHL-5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.12  E-value=0.033  Score=25.01  Aligned_cols=26  Identities=19%  Similarity=0.517  Sum_probs=21.1

Q ss_pred             cccCCccccCCCccccCCeeccHHHH
Q psy12714         62 CTQCCTVLRMESYTMNNGHLYCLPHF   87 (117)
Q Consensus        62 C~~C~~~L~~~~~~~~~g~~~C~~~y   87 (117)
                      |.+|+..|....|......++|..|-
T Consensus         2 cgkcsvslvg~gfltq~~~i~c~~cg   27 (34)
T d1x68a2           2 CGKCSVSLVGKGFLTQNKEIFCQKCG   27 (34)
T ss_dssp             CTTTCCBCSSSCEEEETTEEEETTTT
T ss_pred             CccceEEEEeeeeeeccCcEEehhcC
Confidence            67888888888888888889997763

>d2cora2 g.39.1.3 (A:8-42) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.57  E-value=0.049  Score=25.02  Aligned_cols=31  Identities=16%  Similarity=0.378  Sum_probs=24.1

Q ss_pred             CcccccccccccccccCccEEeCCCcccccCc
Q psy12714         29 GNPSSLCFACNKKVYPLEKIETDGKLFHRACF   60 (117)
Q Consensus        29 ~~~~~~C~~C~~~i~~~~~~~~~~~~~H~~Cf   60 (117)
                      +.+..+|..|...| +.+.+...+..||+..|
T Consensus         5 glGk~vC~KCh~iI-dd~pL~Fr~d~YHp~HF   35 (35)
T d2cora2           5 GLGKYICQKCHAII-DEQPLIFKNDPYHPDHF   35 (35)
T ss_dssp             CCCCCBCTTTCCBC-CSCCCCCSSSCCCTTTS
T ss_pred             chhhHHHHHHHhhh-hcCcceecCCCCCCCCC
Confidence            45667899999888 44667888899998654

>d1x4la2 g.39.1.3 (A:37-66) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.33  E-value=0.11  Score=22.53  Aligned_cols=27  Identities=19%  Similarity=0.428  Sum_probs=21.6

Q ss_pred             cccCCccccCCCccccCCeeccHHHHH
Q psy12714         62 CTQCCTVLRMESYTMNNGHLYCLPHFK   88 (117)
Q Consensus        62 C~~C~~~L~~~~~~~~~g~~~C~~~y~   88 (117)
                      |..|+..|....|....+.++|..|-.
T Consensus         2 c~kcsvslvgrgflterddilc~dcgk   28 (30)
T d1x4la2           2 CKKCSLSLVGRGFLTERDDILCPDCGK   28 (30)
T ss_dssp             CSSSCCBCTTSCCEECSSSEECHHHHH
T ss_pred             cceeeEEEEeeeccccccceeccccCc
Confidence            778888888777877777889988853