Psyllid ID: psy8111

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-----
Protein Sequence
MESAVKHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEIFKA
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccEEccccccccccccEEEEccccccHHHHHHHHccHHHHcccccccccccEEEcccccccccccccccccccccccccccccccccHHHHHHHcccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccHHEEHccccccccccEEEHHccccccccccEccccccccHHHHHHHHcccHccccccEcccHHHHHHcccccccccEEEEHccccccccccEccccccccHHHHHHHHccccccccccccc
Coil and Loop (DISEMBL)
MESAVKHQDKSFREDYnklggkdrgsgqhfccwqcdesltgqryvlrddhpycikcyesVFANSCEECSKiigidskdlsykdkhwheacfscskcrqslvdkqfgsksekiycgncydaqfasrcdgcseifka
Flexible Loop (DISEMBL)
mesavkhqdksfrEDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEIFKA
Low Complexity Region (SEG)
MESAVKHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEIFKA
Disordered region (IsUnstruct)
**************************GQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEI***
Disordered Region (DISOPRED)
MESAVKHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEIFK*
Disordered Region (DISEMBL)
***********FREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEIFKA
Disordered Region (DISPRO)
*ESAVKHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEIF**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MESAVKHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEIFKA
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	135	2.2.26 [Sep-21-2011]
Q14192	279	Four and a half LIM domai	yes	N/A	0.748	0.362	0.537	2e-30
Q2KI95	279	Four and a half LIM domai	yes	N/A	0.718	0.347	0.558	2e-30
O35115	279	Four and a half LIM domai	yes	N/A	0.748	0.362	0.490	7e-28
O70433	279	Four and a half LIM domai	yes	N/A	0.770	0.372	0.490	7e-28
Q5TD97	284	Four and a half LIM domai	no	N/A	0.755	0.359	0.538	2e-27
Q2YDK0	284	Four and a half LIM domai	no	N/A	0.8	0.380	0.463	2e-24
Q4R7A4	284	Four and a half LIM domai	N/A	N/A	0.755	0.359	0.5	3e-24
Q6AXT1	284	Four and a half LIM domai	no	N/A	0.755	0.359	0.490	5e-24
Q3ZBI6	280	Four and a half LIM domai	no	N/A	0.748	0.360	0.456	5e-24
Q9WTX7	284	Four and a half LIM domai	no	N/A	0.755	0.359	0.480	1e-23

>sp|Q14192|FHL2_HUMAN Four and a half LIM domains protein 2 OS=Homo sapiens GN=FHL2 PE=1 SV=3

 Score =  130 bits (328), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 57/106 (53%), Positives = 81/106 (76%)

Query: 28  QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWH 87
           + F C  C+ESL G++Y+LR++ PYC+ C+E++FAN+CEEC K IG D KDLSYKD+HWH
Sbjct: 3   ERFDCHHCNESLFGKKYILREESPYCVVCFETLFANTCEECGKPIGCDCKDLSYKDRHWH 62

Query: 88  EACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEIF 133
           EACF CS+CR SLVDK F +K +++ C +CY  +++S+C  C +  
Sbjct: 63  EACFHCSQCRNSLVDKPFAAKEDQLLCTDCYSNEYSSKCQECKKTI 108

May function as a molecular transmitter linking various signaling pathways to transcriptional regulation. Negatively regulates the transcriptional repressor E4F1 and may function in cell growth. Inhibits the transcriptional activity of FOXO1 and its apoptotic function by enhancing the interaction of FOXO1 with SIRT1 and FOXO1 deacetylation.
Homo sapiens (taxid: 9606)

>sp|Q2KI95|FHL2_BOVIN Four and a half LIM domains protein 2 OS=Bos taurus GN=FHL2 PE=2 SV=1

 Score =  130 bits (328), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 57/102 (55%), Positives = 81/102 (79%)

Query: 28  QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWH 87
           + F C  C++SL G++YVLR++ PYC+ C+E++FA++CEEC K+IG D KDLSYKD+HWH
Sbjct: 3   ERFDCHHCEDSLFGRKYVLREEQPYCVACFEALFASTCEECGKLIGCDCKDLSYKDRHWH 62

Query: 88  EACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGC 129
           EACF CS+CR SLVDK F +K +++ C +CY  +++SRC  C
Sbjct: 63  EACFHCSRCRGSLVDKPFAAKEDQLLCTDCYSQEYSSRCQEC 104

May function as a molecular transmitter linking various signaling pathways to transcriptional regulation. Negatively regulates the transcriptional repressor E4F1 and may function in cell growth. Inhibits the transcriptional activity of FOXO1 and its apoptotic function by enhancing the interaction of FOXO1 with SIRT1 and FOXO1 deacetylation.

Bos taurus (taxid: 9913)

>sp|O35115|FHL2_RAT Four and a half LIM domains protein 2 OS=Rattus norvegicus GN=Fhl2 PE=1 SV=1

 Score =  122 bits (306), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 52/106 (49%), Positives = 78/106 (73%)

Query: 28  QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWH 87
           + F C  C+ESL G++Y+L++++P+C+ C+E ++AN+CEEC   IG D KDLSYKD+HWH
Sbjct: 3   ERFDCHHCNESLYGKKYILKEENPHCVACFEELYANTCEECGTPIGCDCKDLSYKDRHWH 62

Query: 88  EACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEIF 133
           E CF CS+C  SLVDK F +K E++ C +CY  +++S+C  C +  
Sbjct: 63  EGCFHCSRCGSSLVDKPFAAKEEQLLCTDCYSNEYSSKCQECKKTI 108

May function as a molecular transmitter linking various signaling pathways to transcriptional regulation. Negatively regulates the transcriptional repressor E4F1 and may function in cell growth. Inhibits the transcriptional activity of FOXO1 and its apoptotic function by enhancing the interaction of FOXO1 with SIRT1 and FOXO1 deacetylation.

Rattus norvegicus (taxid: 10116)

>sp|O70433|FHL2_MOUSE Four and a half LIM domains protein 2 OS=Mus musculus GN=Fhl2 PE=1 SV=1

 Score =  122 bits (306), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 52/106 (49%), Positives = 78/106 (73%)

Query: 28  QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWH 87
           + F C  C+ESL G++Y+L++++P+C+ C+E ++AN+CEEC   IG D KDLSYKD+HWH
Sbjct: 3   ERFDCHHCNESLYGKKYILKEENPHCVACFEELYANTCEECGTPIGCDCKDLSYKDRHWH 62

Query: 88  EACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEIF 133
           E CF CS+C  SLVDK F +K E++ C +CY  +++S+C  C +  
Sbjct: 63  EGCFHCSRCGSSLVDKPFAAKEEQLLCTDCYSNEYSSKCQECKKTI 108

May function as a molecular transmitter linking various signaling pathways to transcriptional regulation. Negatively regulates the transcriptional repressor E4F1 and may function in cell growth. Inhibits the transcriptional activity of FOXO1 and its apoptotic function by enhancing the interaction of FOXO1 with SIRT1 and FOXO1 deacetylation.

Mus musculus (taxid: 10090)

>sp|Q5TD97|FHL5_HUMAN Four and a half LIM domains protein 5 OS=Homo sapiens GN=FHL5 PE=1 SV=1

 Score =  120 bits (301), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 56/104 (53%), Positives = 72/104 (69%)

Query: 26  SGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKH 85
           +  HF C  C  SL G++YVL+DD PYC+ CY+ VF+N CEEC K I  DSKDL YKD+H
Sbjct: 2   TTAHFYCQYCTASLLGKKYVLKDDSPYCVTCYDRVFSNYCEECKKPIESDSKDLCYKDRH 61

Query: 86  WHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGC 129
           WHE CF C+KC  SLV+K F +K E++ C  CY  + +S+C  C
Sbjct: 62  WHEGCFKCTKCNHSLVEKPFAAKDERLLCTECYSNECSSKCFHC 105

May be involved in the regulation of spermatogenesis. Stimulates CREM transcriptional activity in a phosphorylation-independent manner.

Homo sapiens (taxid: 9606)

>sp|Q2YDK0|FHL5_BOVIN Four and a half LIM domains protein 5 OS=Bos taurus GN=FHL5 PE=2 SV=1

 Score =  111 bits (277), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 51/110 (46%), Positives = 71/110 (64%)

Query: 26  SGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKH 85
           +   F C  C  SL G++YVL+DD+PYC+ CY+ +F+N CEEC + I   SKDL YK  H
Sbjct: 2   TTPQFYCQYCMASLLGKKYVLKDDNPYCVSCYDRIFSNYCEECKEPIESGSKDLCYKGHH 61

Query: 86  WHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEIFKA 135
           WHE CF+C+KC  SLV+K F +K E++ C  CY  + +S+C  C +    
Sbjct: 62  WHEGCFNCTKCNHSLVEKPFAAKDERLLCSECYSNECSSKCFHCKKTIMP 111

May be involved in the regulation of spermatogenesis. Stimulates CREM transcriptional activity in a phosphorylation-independent manner.

Bos taurus (taxid: 9913)

>sp|Q4R7A4|FHL5_MACFA Four and a half LIM domains protein 5 OS=Macaca fascicularis GN=FHL5 PE=2 SV=1

 Score =  110 bits (274), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 52/104 (50%), Positives = 69/104 (66%)

Query: 26  SGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKH 85
           +   F C  C  SL G++YVL+DD  +C+ CY+ VF+N CEEC K I  DSKDL YKD+H
Sbjct: 2   TTAQFYCQYCTASLLGKKYVLKDDSLFCVTCYDRVFSNYCEECKKPIESDSKDLCYKDRH 61

Query: 86  WHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGC 129
           WH  CF C+KC  SLV+K F +K E++ C  CY  + +S+C  C
Sbjct: 62  WHGGCFKCTKCNHSLVEKPFAAKDERLLCTECYSNECSSKCFHC 105

May be involved in the regulation of spermatogenesis. Stimulates CREM transcriptional activity in a phosphorylation-independent manner.

Macaca fascicularis (taxid: 9541)

>sp|Q6AXT1|FHL5_RAT Four and a half LIM domains protein 5 OS=Rattus norvegicus GN=Fhl5 PE=2 SV=1

 Score =  109 bits (272), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 51/104 (49%), Positives = 72/104 (69%)

Query: 26  SGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKH 85
           +   F C  C  SL G++YVL+DD+ YCI CY+ +F+N CE+C + I  DSKDL YK++H
Sbjct: 2   TSTQFDCQYCTASLLGKKYVLKDDNLYCISCYDRIFSNYCEQCKEPIESDSKDLCYKNRH 61

Query: 86  WHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGC 129
           WHE CF C+KC  SLV+K F +K E++ C +CY  + +S+C  C
Sbjct: 62  WHEGCFRCNKCHHSLVEKPFVAKDERLLCTDCYSNECSSKCFHC 105

May be involved in the regulation of spermatogenesis. Stimulates CREM transcriptional activity in a phosphorylation-independent manner.

Rattus norvegicus (taxid: 10116)

>sp|Q3ZBI6|FHL3_BOVIN Four and a half LIM domains protein 3 OS=Bos taurus GN=FHL3 PE=2 SV=1

 Score =  109 bits (272), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 47/103 (45%), Positives = 73/103 (70%)

Query: 30  FCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEA 89
           F C +C ESL G++Y+  DD PYC+ CY++ FAN+C EC ++IG DS++L Y+D+H+HE 
Sbjct: 5   FDCAKCSESLYGRKYIQTDDGPYCVPCYDNTFANTCAECQQLIGHDSRELFYEDRHFHEG 64

Query: 90  CFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEI 132
           CF C +C++SL D+ F  +  ++ C +CY + F+S+C  C E 
Sbjct: 65  CFRCCRCQRSLADEPFTCQDSELLCNDCYCSAFSSQCSACGET 107

Bos taurus (taxid: 9913)

>sp|Q9WTX7|FHL5_MOUSE Four and a half LIM domains protein 5 OS=Mus musculus GN=Fhl5 PE=1 SV=1

 Score =  108 bits (269), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 50/104 (48%), Positives = 72/104 (69%)

Query: 26  SGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKH 85
           +   F C  C  SL G++YVL+DD+ YCI CY+ +F+N CE+C + I  DSKDL YK++H
Sbjct: 2   TSSQFDCQYCTSSLIGKKYVLKDDNLYCISCYDRIFSNYCEQCKEPIESDSKDLCYKNRH 61

Query: 86  WHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGC 129
           WHE CF C+KC  SLV+K F +K +++ C +CY  + +S+C  C
Sbjct: 62  WHEGCFRCNKCHHSLVEKPFVAKDDRLLCTDCYSNECSSKCFHC 105

May be involved in the regulation of spermatogenesis. Stimulates CREM transcriptional activity in a phosphorylation-independent manner.

Mus musculus (taxid: 10090)

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	135
340719742	1384	PREDICTED: hypothetical protein LOC10065	0.911	0.088	0.830	8e-55
320545982	989	limpet, isoform J [Drosophila melanogast	0.911	0.124	0.806	8e-55
350421086	1384	PREDICTED: hypothetical protein LOC10074	0.911	0.088	0.830	9e-55
312380317	300	hypothetical protein AND_07659 [Anophele	0.888	0.4	0.834	6e-54
345488106	671	PREDICTED: hypothetical protein LOC10012	0.911	0.183	0.838	6e-54
383851070	669	PREDICTED: uncharacterized protein LOC10	0.911	0.183	0.822	1e-53
332021159	176	Four and a half LIM domains protein 2 [A	0.888	0.681	0.851	2e-53
307166376	175	Four and a half LIM domains protein 2 [C	0.888	0.685	0.851	2e-53
322793841	177	hypothetical protein SINV_04723 [Solenop	0.992	0.757	0.770	2e-53
380027198	578	PREDICTED: four and a half LIM domains p	0.911	0.212	0.830	2e-53

>gi|340719742|ref|XP_003398306.1| PREDICTED: hypothetical protein LOC100650291 [Bombus terrestris]

 Score =  218 bits (554), Expect = 8e-55,   Method: Compositional matrix adjust.
 Identities = 103/124 (83%), Positives = 110/124 (88%), Gaps = 1/124 (0%)

Query: 12   FREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKI 71
            F  +Y K   KD  SG HFCCWQCDESLTGQRYVLRD+HPYCIKCYESVFAN CEEC+KI
Sbjct: 1091 FSGEYTKAMNKDWHSG-HFCCWQCDESLTGQRYVLRDEHPYCIKCYESVFANGCEECNKI 1149

Query: 72   IGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSE 131
            IGIDSKDLSYKDKHWHEACF C++CR SLVDKQFGSK +KIYCGNCYDAQFASRCDGC E
Sbjct: 1150 IGIDSKDLSYKDKHWHEACFLCNRCRVSLVDKQFGSKVDKIYCGNCYDAQFASRCDGCGE 1209

Query: 132  IFKA 135
            IF+A
Sbjct: 1210 IFRA 1213

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|320545982|ref|NP_001189122.1| limpet, isoform J [Drosophila melanogaster] gi|318069230|gb|ADV37558.1| limpet, isoform J [Drosophila melanogaster]

 Score =  218 bits (554), Expect = 8e-55,   Method: Compositional matrix adjust.
 Identities = 100/124 (80%), Positives = 110/124 (88%), Gaps = 1/124 (0%)

Query: 12  FREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKI 71
           F  +Y K   KD  SG HFCCWQCDESLTGQRYV+RDDHPYCIKCYE+VFAN+CEEC+KI
Sbjct: 696 FSGEYTKAMDKDWHSG-HFCCWQCDESLTGQRYVIRDDHPYCIKCYENVFANTCEECNKI 754

Query: 72  IGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSE 131
           IGIDSKDLSYKDKHWHEACF C KC  SLVDKQFG+K++KIYCGNCYDAQFASRCDGC E
Sbjct: 755 IGIDSKDLSYKDKHWHEACFLCFKCHLSLVDKQFGAKADKIYCGNCYDAQFASRCDGCGE 814

Query: 132 IFKA 135
           +F+A
Sbjct: 815 VFRA 818

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350421086|ref|XP_003492728.1| PREDICTED: hypothetical protein LOC100741757 [Bombus impatiens]

 Score =  218 bits (554), Expect = 9e-55,   Method: Compositional matrix adjust.
 Identities = 103/124 (83%), Positives = 110/124 (88%), Gaps = 1/124 (0%)

Query: 12   FREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKI 71
            F  +Y K   KD  SG HFCCWQCDESLTGQRYVLRD+HPYCIKCYESVFAN CEEC+KI
Sbjct: 1091 FSGEYTKAMNKDWHSG-HFCCWQCDESLTGQRYVLRDEHPYCIKCYESVFANGCEECNKI 1149

Query: 72   IGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSE 131
            IGIDSKDLSYKDKHWHEACF C++CR SLVDKQFGSK +KIYCGNCYDAQFASRCDGC E
Sbjct: 1150 IGIDSKDLSYKDKHWHEACFLCNRCRVSLVDKQFGSKVDKIYCGNCYDAQFASRCDGCGE 1209

Query: 132  IFKA 135
            IF+A
Sbjct: 1210 IFRA 1213

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|312380317|gb|EFR26348.1| hypothetical protein AND_07659 [Anopheles darlingi]

 Score =  215 bits (547), Expect = 6e-54,   Method: Compositional matrix adjust.
 Identities = 101/121 (83%), Positives = 109/121 (90%), Gaps = 1/121 (0%)

Query: 15  DYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGI 74
           +Y K   KD  SG HFCCWQCDESLTGQRYVLRD+HPYCIKCYE+VFAN CEEC+K IGI
Sbjct: 62  EYTKAMSKDWHSG-HFCCWQCDESLTGQRYVLRDEHPYCIKCYENVFANVCEECNKTIGI 120

Query: 75  DSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEIFK 134
           DSKDLSYKDKHWHEACF C+KCR SLVDKQFGSK++KIYCGNCYDAQFASRCDGC EIF+
Sbjct: 121 DSKDLSYKDKHWHEACFLCNKCRISLVDKQFGSKADKIYCGNCYDAQFASRCDGCGEIFR 180

Query: 135 A 135
           A
Sbjct: 181 A 181

Source: Anopheles darlingi

Species: Anopheles darlingi

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345488106|ref|XP_001604322.2| PREDICTED: hypothetical protein LOC100120714 [Nasonia vitripennis]

 Score =  214 bits (546), Expect = 6e-54,   Method: Compositional matrix adjust.
 Identities = 104/124 (83%), Positives = 109/124 (87%), Gaps = 1/124 (0%)

Query: 12  FREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKI 71
           F  +Y K   KD  SG HFCCWQCDESLTGQRYVLRD+HPYCIKCYESVFAN CEEC KI
Sbjct: 378 FSGEYTKAMNKDWHSG-HFCCWQCDESLTGQRYVLRDEHPYCIKCYESVFANGCEECHKI 436

Query: 72  IGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSE 131
           IGIDSKDLSYKDKHWHEACF C+KCR SLVDKQFGSK +KIYCGNCYDAQFASRCDGC E
Sbjct: 437 IGIDSKDLSYKDKHWHEACFLCNKCRVSLVDKQFGSKVDKIYCGNCYDAQFASRCDGCGE 496

Query: 132 IFKA 135
           IF+A
Sbjct: 497 IFRA 500

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383851070|ref|XP_003701076.1| PREDICTED: uncharacterized protein LOC100883879 [Megachile rotundata]

 Score =  213 bits (543), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 102/124 (82%), Positives = 110/124 (88%), Gaps = 1/124 (0%)

Query: 12  FREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKI 71
           F  +Y K   KD  SG HFCCWQCDESLTGQRYVLRD+HPYCIKCYE+VFAN CEEC+KI
Sbjct: 376 FSGEYTKAMNKDWHSG-HFCCWQCDESLTGQRYVLRDEHPYCIKCYENVFANGCEECNKI 434

Query: 72  IGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSE 131
           IGIDSKDLSYKDKHWHEACF C++CR SLVDKQFGSK +KIYCGNCYDAQFASRCDGC E
Sbjct: 435 IGIDSKDLSYKDKHWHEACFLCNRCRVSLVDKQFGSKVDKIYCGNCYDAQFASRCDGCGE 494

Query: 132 IFKA 135
           IF+A
Sbjct: 495 IFRA 498

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332021159|gb|EGI61544.1| Four and a half LIM domains protein 2 [Acromyrmex echinatior]

 Score =  213 bits (542), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 103/121 (85%), Positives = 109/121 (90%), Gaps = 1/121 (0%)

Query: 15  DYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGI 74
           +Y K   KD  SG HFCCWQCDESLTGQRYVLRD+HPYCIKCYESVFAN CEECSKIIGI
Sbjct: 55  EYTKAMNKDWHSG-HFCCWQCDESLTGQRYVLRDEHPYCIKCYESVFANGCEECSKIIGI 113

Query: 75  DSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEIFK 134
           DSKDLSYKDKHWHEACF C++CR SLVDKQFGSK +KIYCGNCYDAQFASRCDGC EIF+
Sbjct: 114 DSKDLSYKDKHWHEACFLCNRCRVSLVDKQFGSKVDKIYCGNCYDAQFASRCDGCGEIFR 173

Query: 135 A 135
           A
Sbjct: 174 A 174

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307166376|gb|EFN60513.1| Four and a half LIM domains protein 2 [Camponotus floridanus]

 Score =  213 bits (542), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 103/121 (85%), Positives = 109/121 (90%), Gaps = 1/121 (0%)

Query: 15  DYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGI 74
           +Y K   KD  SG HFCCWQCDESLTGQRYVLRD+HPYCIKCYESVFAN CEECSKIIGI
Sbjct: 54  EYTKAMNKDWHSG-HFCCWQCDESLTGQRYVLRDEHPYCIKCYESVFANGCEECSKIIGI 112

Query: 75  DSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEIFK 134
           DSKDLSYKDKHWHEACF C++CR SLVDKQFGSK +KIYCGNCYDAQFASRCDGC EIF+
Sbjct: 113 DSKDLSYKDKHWHEACFLCNRCRVSLVDKQFGSKVDKIYCGNCYDAQFASRCDGCGEIFR 172

Query: 135 A 135
           A
Sbjct: 173 A 173

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322793841|gb|EFZ17181.1| hypothetical protein SINV_04723 [Solenopsis invicta]

 Score =  213 bits (542), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 104/135 (77%), Positives = 113/135 (83%), Gaps = 1/135 (0%)

Query: 1   MESAVKHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESV 60
           ++S   H       +Y K   KD  SG HFCCWQCDESLTGQRYVLRD+HPYCIKCYESV
Sbjct: 42  VDSTQNHHAAIEDGEYTKAMNKDWHSG-HFCCWQCDESLTGQRYVLRDEHPYCIKCYESV 100

Query: 61  FANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDA 120
           FAN CEEC+KIIGIDSKDLSYKDKHWHEACF C++CR SLVDKQFGSK +KIYCGNCYDA
Sbjct: 101 FANGCEECNKIIGIDSKDLSYKDKHWHEACFLCNRCRVSLVDKQFGSKVDKIYCGNCYDA 160

Query: 121 QFASRCDGCSEIFKA 135
           QFASRCDGC EIF+A
Sbjct: 161 QFASRCDGCGEIFRA 175

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380027198|ref|XP_003697316.1| PREDICTED: four and a half LIM domains protein 2-like isoform 1 [Apis florea]

 Score =  213 bits (542), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 103/124 (83%), Positives = 110/124 (88%), Gaps = 1/124 (0%)

Query: 12  FREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKI 71
           F  +Y K   KD  SG HFCCWQCDESLTGQRYVLRD+HPYCIKCYESVFAN CEEC+KI
Sbjct: 285 FSGEYTKAMSKDWHSG-HFCCWQCDESLTGQRYVLRDEHPYCIKCYESVFANGCEECNKI 343

Query: 72  IGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSE 131
           IGIDSKDLSYKDKHWHEACF C++CR SLVDKQFGSK +KIYCGNCYDAQFASRCDGC E
Sbjct: 344 IGIDSKDLSYKDKHWHEACFLCNRCRVSLVDKQFGSKVDKIYCGNCYDAQFASRCDGCGE 403

Query: 132 IFKA 135
           IF+A
Sbjct: 404 IFRA 407

Source: Apis florea

Species: Apis florea

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	135
WB|WBGene00006407	656	lim-9 [Caenorhabditis elegans	0.911	0.187	0.685	4.1e-49
UNIPROTKB|Q2KI95	279	FHL2 "Four and a half LIM doma	0.770	0.372	0.548	6.5e-35
UNIPROTKB|F1SU18	287	FHL2 "Uncharacterized protein"	0.755	0.355	0.558	8.3e-35
UNIPROTKB|J3KNW4	389	FHL2 "Four and a half LIM doma	0.770	0.267	0.548	1.7e-34
UNIPROTKB|Q14192	279	FHL2 "Four and a half LIM doma	0.770	0.372	0.548	1.7e-34
UNIPROTKB|F1P4R3	283	FHL2 "Uncharacterized protein"	0.770	0.367	0.538	5.8e-34
ZFIN|ZDB-GENE-040808-49	279	fhl2a "four and a half LIM dom	0.770	0.372	0.538	9.5e-34
ZFIN|ZDB-GENE-041010-121	279	fhl2b "four and a half LIM dom	0.770	0.372	0.538	2e-33
UNIPROTKB|F1PU47	279	FHL2 "Uncharacterized protein"	0.770	0.372	0.509	3.2e-33
RGD|61963	279	Fhl2 "four and a half LIM doma	0.770	0.372	0.5	3.7e-32

WB|WBGene00006407 lim-9 [Caenorhabditis elegans (taxid:6239)]

 Score = 512 (185.3 bits), Expect = 4.1e-49, P = 4.1e-49
 Identities = 85/124 (68%), Positives = 101/124 (81%)

Query:    12 FREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKI 71
             F  +Y K   KD  S  HFCCWQCD++LTGQRY++RD+ PYCIKCYE VFAN C+EC+K 
Sbjct:   359 FAGEYTKAMNKDWHS-DHFCCWQCDQTLTGQRYIMRDEQPYCIKCYEDVFANQCDECAKP 417

Query:    72 IGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSE 131
             IGIDSKDLSYKDKHWHE CF CS C+ SLVD  FGSK+++I+C NCYD  FA+RCDGC+E
Sbjct:   418 IGIDSKDLSYKDKHWHEHCFLCSMCKISLVDMPFGSKNDRIFCSNCYDQAFATRCDGCNE 477

Query:   132 IFKA 135
             IF+A
Sbjct:   478 IFRA 481

GO:0008270 "zinc ion binding" evidence=IEA

GO:0071688 "striated muscle myosin thick filament assembly" evidence=IMP

GO:0031430 "M band" evidence=IDA

GO:0019904 "protein domain specific binding" evidence=IPI

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|Q2KI95 FHL2 "Four and a half LIM domains protein 2" [Bos taurus (taxid:9913)]

 Score = 378 (138.1 bits), Expect = 6.5e-35, P = 6.5e-35
 Identities = 57/104 (54%), Positives = 82/104 (78%)

Query:    28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWH 87
             + F C  C++SL G++YVLR++ PYC+ C+E++FA++CEEC K+IG D KDLSYKD+HWH
Sbjct:     3 ERFDCHHCEDSLFGRKYVLREEQPYCVACFEALFASTCEECGKLIGCDCKDLSYKDRHWH 62

Query:    88 EACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSE 131
             EACF CS+CR SLVDK F +K +++ C +CY  +++SRC  C +
Sbjct:    63 EACFHCSRCRGSLVDKPFAAKEDQLLCTDCYSQEYSSRCQECKK 106

GO:0043066 "negative regulation of apoptotic process" evidence=ISS

GO:0008134 "transcription factor binding" evidence=ISS

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=ISS

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0060347 "heart trabecula formation" evidence=IEA

GO:0055015 "ventricular cardiac muscle cell development" evidence=IEA

GO:0055014 "atrial cardiac muscle cell development" evidence=IEA

GO:0042802 "identical protein binding" evidence=IEA

GO:0015629 "actin cytoskeleton" evidence=IEA

GO:0009725 "response to hormone stimulus" evidence=IEA

GO:0005925 "focal adhesion" evidence=IEA

GO:0001649 "osteoblast differentiation" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1SU18 FHL2 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 377 (137.8 bits), Expect = 8.3e-35, P = 8.3e-35
 Identities = 57/102 (55%), Positives = 80/102 (78%)

Query:    28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWH 87
             + F C  C+ SL G++YVLR++ PYC+ C+E++FA++CEEC K+IG D KDLSYKD+HWH
Sbjct:     9 ERFDCHHCENSLFGRKYVLREEQPYCVGCFEALFASTCEECGKLIGCDCKDLSYKDRHWH 68

Query:    88 EACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGC 129
             EACF CS+CR SLVDK F +K +++ C +CY  +++SRC  C
Sbjct:    69 EACFHCSRCRSSLVDKPFAAKEDQVLCTDCYSQEYSSRCQEC 110

GO:0060347 "heart trabecula formation" evidence=IEA

GO:0055015 "ventricular cardiac muscle cell development" evidence=IEA

GO:0055014 "atrial cardiac muscle cell development" evidence=IEA

GO:0043066 "negative regulation of apoptotic process" evidence=IEA

GO:0042802 "identical protein binding" evidence=IEA

GO:0015629 "actin cytoskeleton" evidence=IEA

GO:0009725 "response to hormone stimulus" evidence=IEA

GO:0008134 "transcription factor binding" evidence=IEA

GO:0005925 "focal adhesion" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0001649 "osteoblast differentiation" evidence=IEA

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|J3KNW4 FHL2 "Four and a half LIM domains protein 2" [Homo sapiens (taxid:9606)]

 Score = 374 (136.7 bits), Expect = 1.7e-34, P = 1.7e-34
 Identities = 57/104 (54%), Positives = 81/104 (77%)

Query:    28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWH 87
             + F C  C+ESL G++Y+LR++ PYC+ C+E++FAN+CEEC K IG D KDLSYKD+HWH
Sbjct:   113 ERFDCHHCNESLFGKKYILREESPYCVVCFETLFANTCEECGKPIGCDCKDLSYKDRHWH 172

Query:    88 EACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSE 131
             EACF CS+CR SLVDK F +K +++ C +CY  +++S+C  C +
Sbjct:   173 EACFHCSQCRNSLVDKPFAAKEDQLLCTDCYSNEYSSKCQECKK 216

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q14192 FHL2 "Four and a half LIM domains protein 2" [Homo sapiens (taxid:9606)]

 Score = 374 (136.7 bits), Expect = 1.7e-34, P = 1.7e-34
 Identities = 57/104 (54%), Positives = 81/104 (77%)

Query:    28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWH 87
             + F C  C+ESL G++Y+LR++ PYC+ C+E++FAN+CEEC K IG D KDLSYKD+HWH
Sbjct:     3 ERFDCHHCNESLFGKKYILREESPYCVVCFETLFANTCEECGKPIGCDCKDLSYKDRHWH 62

Query:    88 EACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSE 131
             EACF CS+CR SLVDK F +K +++ C +CY  +++S+C  C +
Sbjct:    63 EACFHCSQCRNSLVDKPFAAKEDQLLCTDCYSNEYSSKCQECKK 106

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0001649 "osteoblast differentiation" evidence=IEA

GO:0030018 "Z disc" evidence=IEA

GO:0031430 "M band" evidence=IEA

GO:0055014 "atrial cardiac muscle cell development" evidence=IEA

GO:0055015 "ventricular cardiac muscle cell development" evidence=IEA

GO:0060347 "heart trabecula formation" evidence=IEA

GO:0003713 "transcription coactivator activity" evidence=NAS

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=NAS

GO:0050681 "androgen receptor binding" evidence=NAS

GO:0030521 "androgen receptor signaling pathway" evidence=NAS

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IDA

GO:0008134 "transcription factor binding" evidence=IPI

GO:0043066 "negative regulation of apoptotic process" evidence=IDA

GO:0005654 "nucleoplasm" evidence=TAS

GO:0044255 "cellular lipid metabolic process" evidence=TAS

GO:0044281 "small molecule metabolic process" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

GO:0042802 "identical protein binding" evidence=IPI

GO:0009725 "response to hormone stimulus" evidence=IMP

GO:0005634 "nucleus" evidence=IDA

GO:0005925 "focal adhesion" evidence=IDA

GO:0015629 "actin cytoskeleton" evidence=IDA

UNIPROTKB|F1P4R3 FHL2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 369 (135.0 bits), Expect = 5.8e-34, P = 5.8e-34
 Identities = 56/104 (53%), Positives = 79/104 (75%)

Query:    28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWH 87
             + F C  C ESL G++Y+LR+D PYC+KCYE++++N+CEEC K IG D KDLSYKD+HWH
Sbjct:     7 ERFDCHYCKESLFGKKYILREDSPYCVKCYENLYSNTCEECKKPIGADCKDLSYKDRHWH 66

Query:    88 EACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSE 131
             E CF C +C+ SLVDK F +K E + C +CY  +++S+C+ C +
Sbjct:    67 ETCFHCFQCKNSLVDKPFAAKEEHLLCTDCYSNEYSSKCNECKK 110

GO:0008270 "zinc ion binding" evidence=IEA

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0001649 "osteoblast differentiation" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005925 "focal adhesion" evidence=IEA

GO:0008134 "transcription factor binding" evidence=IEA

GO:0009725 "response to hormone stimulus" evidence=IEA

GO:0015629 "actin cytoskeleton" evidence=IEA

GO:0042802 "identical protein binding" evidence=IEA

GO:0043066 "negative regulation of apoptotic process" evidence=IEA

GO:0055014 "atrial cardiac muscle cell development" evidence=IEA

GO:0055015 "ventricular cardiac muscle cell development" evidence=IEA

GO:0060347 "heart trabecula formation" evidence=IEA

ZFIN|ZDB-GENE-040808-49 fhl2a "four and a half LIM domains 2a" [Danio rerio (taxid:7955)]

 Score = 367 (134.2 bits), Expect = 9.5e-34, P = 9.5e-34
 Identities = 56/104 (53%), Positives = 81/104 (77%)

Query:    28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWH 87
             + + C  C ESL G++YVLR+D+PYC+KCYES+++N+CEEC K IG +S+DLSYKD+HWH
Sbjct:     3 ERYDCHYCKESLFGKKYVLREDNPYCVKCYESLYSNTCEECKKPIGCNSRDLSYKDRHWH 62

Query:    88 EACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSE 131
             E CF C +C++SLVDK F +K E++ C  CY  +++S+C  C +
Sbjct:    63 EDCFHCFQCKRSLVDKPFSTKDEQLLCTECYSNEYSSKCHECKK 106

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

ZFIN|ZDB-GENE-041010-121 fhl2b "four and a half LIM domains 2b" [Danio rerio (taxid:7955)]

 Score = 364 (133.2 bits), Expect = 2.0e-33, P = 2.0e-33
 Identities = 56/104 (53%), Positives = 80/104 (76%)

Query:    28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWH 87
             + + C  C ESL G++YVLRD++PYC+KCYES+++N+CEEC K IG +S+DLSYKD+HWH
Sbjct:     3 ERYDCHYCKESLFGKKYVLRDENPYCVKCYESLYSNTCEECKKPIGCNSRDLSYKDRHWH 62

Query:    88 EACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSE 131
             + CF C KC +SLVDK F +K E++ C  CY  +++S+C  C +
Sbjct:    63 DDCFHCFKCHRSLVDKPFSTKDEQLLCTECYSNEYSSKCFECKK 106

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|F1PU47 FHL2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 362 (132.5 bits), Expect = 3.2e-33, P = 3.2e-33
 Identities = 53/104 (50%), Positives = 81/104 (77%)

Query:    28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWH 87
             + F C  C++SL G++Y+LR++ PYC+ C+E+++A++CEEC K IG D KDLSYKD+HWH
Sbjct:     3 ERFDCHHCEKSLFGKKYILREESPYCVACFEALYASTCEECGKPIGCDCKDLSYKDRHWH 62

Query:    88 EACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSE 131
             EACF CS+C+ SLVDK F +K +++ C +CY  +++S+C  C +
Sbjct:    63 EACFHCSRCKSSLVDKPFAAKEDQLLCTDCYSHEYSSKCQECKK 106

GO:0060347 "heart trabecula formation" evidence=IEA

GO:0055015 "ventricular cardiac muscle cell development" evidence=IEA

GO:0055014 "atrial cardiac muscle cell development" evidence=IEA

GO:0043066 "negative regulation of apoptotic process" evidence=IEA

GO:0042802 "identical protein binding" evidence=IEA

GO:0015629 "actin cytoskeleton" evidence=IEA

GO:0009725 "response to hormone stimulus" evidence=IEA

GO:0008134 "transcription factor binding" evidence=IEA

GO:0005925 "focal adhesion" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0001649 "osteoblast differentiation" evidence=IEA

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

RGD|61963 Fhl2 "four and a half LIM domains 2" [Rattus norvegicus (taxid:10116)]

 Score = 352 (129.0 bits), Expect = 3.7e-32, P = 3.7e-32
 Identities = 52/104 (50%), Positives = 78/104 (75%)

Query:    28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWH 87
             + F C  C+ESL G++Y+L++++P+C+ C+E ++AN+CEEC   IG D KDLSYKD+HWH
Sbjct:     3 ERFDCHHCNESLYGKKYILKEENPHCVACFEELYANTCEECGTPIGCDCKDLSYKDRHWH 62

Query:    88 EACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSE 131
             E CF CS+C  SLVDK F +K E++ C +CY  +++S+C  C +
Sbjct:    63 EGCFHCSRCGSSLVDKPFAAKEEQLLCTDCYSNEYSSKCQECKK 106

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=ISO;ISS

GO:0001649 "osteoblast differentiation" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IEA;ISO

GO:0005925 "focal adhesion" evidence=IEA;ISO

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=ISO

GO:0008134 "transcription factor binding" evidence=ISO;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0009725 "response to hormone stimulus" evidence=IEA;ISO

GO:0015629 "actin cytoskeleton" evidence=IEA;ISO

GO:0030018 "Z disc" evidence=IDA

GO:0031430 "M band" evidence=IDA

GO:0042802 "identical protein binding" evidence=IEA;ISO

GO:0043066 "negative regulation of apoptotic process" evidence=ISO;ISS

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=ISO

GO:0055014 "atrial cardiac muscle cell development" evidence=IEA

GO:0055015 "ventricular cardiac muscle cell development" evidence=IEA

GO:0060347 "heart trabecula formation" evidence=IEA

---

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)
Q14192	FHL2_HUMAN	No assigned EC number	0.5377	0.7481	0.3620	yes	N/A
Q2KI95	FHL2_BOVIN	No assigned EC number	0.5588	0.7185	0.3476	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	135
cd09421	59	cd09421, LIM3_LIMPETin, The third LIM domain of pr	5e-29
cd09343	59	cd09343, LIM1_FHL, The first LIM domain of Four an	8e-24
cd09422	62	cd09422, LIM1_FHL2, The first LIM domain of Four a	2e-18
cd09417	56	cd09417, LIM2_LIMPETin_like, The second LIM domain	2e-18
cd09344	54	cd09344, LIM1_FHL1, The first LIM domain of Four a	2e-14
cd09341	56	cd09341, LIM2_Testin_like, The second LIM domain o	1e-13
cd09423	59	cd09423, LIM1_FHL3, The first LIM domain of Four a	3e-12
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	2e-09
cd09424	58	cd09424, LIM2_FHL1, The second LIM domain of Four	4e-09
cd09426	57	cd09426, LIM2_FHL2, The second LIM domain of Four	2e-08
cd09345	54	cd09345, LIM2_FHL, The second LIM domain of Four a	3e-08
cd09418	56	cd09418, LIM2_Prickle, The second LIM domain of Pr	3e-08
cd09342	57	cd09342, LIM3_Testin_like, The third LIM domain of	3e-08
cd09430	52	cd09430, LIM5_LIMPETin, The fifth LIM domain of pr	4e-08
cd09420	59	cd09420, LIM3_Prickle, The third LIM domain of Pri	4e-08
cd09432	56	cd09432, LIM6_LIMPETin, The sixth LIM domain of pr	7e-08
cd09347	56	cd09347, LIM4_FHL, The fourth LIM domain of Four a	8e-08
cd09346	52	cd09346, LIM3_FHL, The third LIM domain of Four an	9e-08
cd09425	54	cd09425, LIM4_LIMPETin, The fourth LIM domain of p	1e-07
cd09434	56	cd09434, LIM4_FHL3, The fourth LIM domain of Four	2e-07
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	2e-07
cd09340	58	cd09340, LIM1_Testin_like, The first LIM domain of	6e-07
cd09428	54	cd09428, LIM2_FHL5, The second LIM domain of Four	1e-06
cd09348	64	cd09348, LIM4_FHL1, The fourth LIM domain of Four	2e-06
pfam00412	58	pfam00412, LIM, LIM domain	3e-06
cd09427	58	cd09427, LIM2_FHL3, The second LIM domain of Four	5e-06
cd09429	53	cd09429, LIM3_FHL1, The third LIM domain of Four a	5e-06
cd09431	57	cd09431, LIM3_Fhl2, The third LIM domain of Four a	9e-06
cd09413	58	cd09413, LIM1_Testin, The first LIM domain of Test	1e-04
cd09401	53	cd09401, LIM_TLP_like, The LIM domains of thymus L	1e-04
cd09433	58	cd09433, LIM4_FHL2, The fourth LIM domain of Four	1e-04
cd09349	87	cd09349, LIM1_Zyxin, The first LIM domain of Zyxin	2e-04
cd09415	59	cd09415, LIM1_Prickle, The first LIM domain of Pri	5e-04
cd09416	56	cd09416, LIM2_Testin, The second LIM domain of Tes	9e-04
cd09430	52	cd09430, LIM5_LIMPETin, The fifth LIM domain of pr	0.001
cd09403	54	cd09403, LIM2_CRP, The second LIM domain of Cystei	0.001
cd09414	58	cd09414, LIM1_LIMPETin, The first LIM domain of pr	0.001
cd09341	56	cd09341, LIM2_Testin_like, The second LIM domain o	0.002
cd09346	52	cd09346, LIM3_FHL, The third LIM domain of Four an	0.002
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	0.002
cd09331	59	cd09331, LIM1_PINCH, The first LIM domain of prote	0.002
cd09393	56	cd09393, LIM3_Lrg1p_like, The third LIM domain of	0.003
cd09840	54	cd09840, LIM2_CRP2, The second LIM domain of Cyste	0.003
cd09431	57	cd09431, LIM3_Fhl2, The third LIM domain of Four a	0.004
cd09326	53	cd09326, LIM_CRP_like, The LIM domains of Cysteine	0.004
cd09336	53	cd09336, LIM1_Paxillin_like, The first LIM domain	0.004

>gnl|CDD|188805 cd09421, LIM3_LIMPETin, The third LIM domain of protein LIMPETin

 Score =   99 bits (249), Expect = 5e-29
 Identities = 51/59 (86%), Positives = 55/59 (93%)

Query: 61  FANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYD 119
           FAN CEECSKIIGIDSKDLSYKDKHWHEACF CSKC+ SLVDK FGSK+++IYCGNCYD
Sbjct: 1   FANQCEECSKIIGIDSKDLSYKDKHWHEACFLCSKCKISLVDKPFGSKADRIYCGNCYD 59

The third 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 = 59

>gnl|CDD|188729 cd09343, LIM1_FHL, The first LIM domain of Four and a half LIM domains protein (FHL)

 Score = 86.7 bits (215), Expect = 8e-24
 Identities = 39/59 (66%), Positives = 45/59 (76%)

Query: 61  FANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYD 119
           FAN+CEEC K IG DSKDLSYKD+HWHE CF C KC++SLVDK F +K E + C  CY 
Sbjct: 1   FANTCEECKKKIGCDSKDLSYKDRHWHEGCFKCFKCQRSLVDKPFAAKDEDLLCTECYS 59

The first 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 = 59

>gnl|CDD|188806 cd09422, LIM1_FHL2, The first LIM domain of Four and a half LIM domains protein 2 (FHL2)

 Score = 73.4 bits (180), Expect = 2e-18
 Identities = 35/62 (56%), Positives = 46/62 (74%)

Query: 61  FANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDA 120
           ++N+CEEC K IG D KDLSYKD+HWHE+CF C +C+ SLVDK F +K E + C  CY  
Sbjct: 1   YSNTCEECKKPIGCDCKDLSYKDRHWHESCFHCFQCKNSLVDKPFAAKEEHLLCTECYSN 60

Query: 121 QF 122
           ++
Sbjct: 61  EY 62

The first 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 at 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 support the assembly of multimeric protein complexes. Length = 62

>gnl|CDD|188801 cd09417, LIM2_LIMPETin_like, The second LIM domain of protein LIMPETin and related proteins

 Score = 72.9 bits (179), Expect = 2e-18
 Identities = 36/47 (76%), Positives = 38/47 (80%), Gaps = 1/47 (2%)

Query: 12 FREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYE 58
          F  +Y K   KD  SG HFCCWQCDESLTGQRYVLRD+HPYCIKCYE
Sbjct: 11 FSGEYTKAMNKDWHSG-HFCCWQCDESLTGQRYVLRDEHPYCIKCYE 56

The second 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 = 56

>gnl|CDD|188730 cd09344, LIM1_FHL1, The first LIM domain of Four and a half LIM domains protein 1

 Score = 62.8 bits (153), Expect = 2e-14
 Identities = 27/53 (50%), Positives = 37/53 (69%)

Query: 65  CEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNC 117
           C EC K IG DSK+L +K+++WHE CF C+KC + L ++ F +K  KI CG C
Sbjct: 1   CAECRKPIGADSKELHHKNRYWHETCFRCAKCYKPLANEPFVAKDNKILCGKC 53

The first 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 = 54

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

 Score = 60.3 bits (147), Expect = 1e-13
 Identities = 22/30 (73%), Positives = 25/30 (83%)

Query: 29 HFCCWQCDESLTGQRYVLRDDHPYCIKCYE 58
          HFCC+QCDE L GQRYVLR+  PYC+ CYE
Sbjct: 27 HFCCFQCDEPLGGQRYVLREGKPYCLDCYE 56

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|188807 cd09423, LIM1_FHL3, The first LIM domain of Four and a half LIM domains protein 3 (FHL3)

 Score = 57.2 bits (138), Expect = 3e-12
 Identities = 28/58 (48%), Positives = 44/58 (75%)

Query: 61  FANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCY 118
           FAN+C+EC ++IG DS++L Y+D+H+HE CF C +C +SL D+ F  + E++ C +CY
Sbjct: 1   FANTCDECKELIGHDSRELYYEDRHYHEHCFRCFRCDRSLADEPFTCQDEELLCNDCY 58

The first 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 = 59

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

 Score = 49.7 bits (119), Expect = 2e-09
 Identities = 19/54 (35%), Positives = 24/54 (44%)

Query: 64  SCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNC 117
            C  C K I    + L    K WH  CF C+ C + L    F  K  K+YC +C
Sbjct: 1   KCAGCGKPIYGTERVLRALGKVWHPECFKCATCGKPLSGDTFFEKDGKLYCKDC 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|188808 cd09424, LIM2_FHL1, The second LIM domain of Four and a half LIM domains protein 1 (FHL1)

 Score = 49.0 bits (117), Expect = 4e-09
 Identities = 22/58 (37%), Positives = 33/58 (56%)

Query: 65  CEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQF 122
           C+ C K I    +++ YK   WH+ CF+CS C+Q +  K F  K E  YC  C++ +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|188810 cd09426, LIM2_FHL2, The second LIM domain of Four and a half LIM domains protein 2 (FHL2)

 Score = 47.4 bits (112), Expect = 2e-08
 Identities = 22/57 (38%), Positives = 31/57 (54%)

Query: 65  CEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQ 121
           C EC K I   ++ + YK   WHE CF C +C+Q +  K F  K  + +C  CY+ Q
Sbjct: 1   CSECKKTIMPGTRKMEYKGNSWHETCFICQRCQQPIGTKSFIPKDNQNFCVPCYEKQ 57

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

 Score = 46.9 bits (112), Expect = 3e-08
 Identities = 26/54 (48%), Positives = 34/54 (62%)

Query: 65  CEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCY 118
           C+ C K I   SK + YK K WHE CF+CS+C++ +  K F  K +KIYC  CY
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|188802 cd09418, LIM2_Prickle, The second LIM domain of Prickle

 Score = 46.7 bits (111), Expect = 3e-08
 Identities = 16/31 (51%), Positives = 24/31 (77%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYE 58
          +HFCC++C+  L GQRY++R+  PYC  C+E
Sbjct: 26 KHFCCFECECQLGGQRYIMREGRPYCCHCFE 56

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|188728 cd09342, LIM3_Testin_like, The third LIM domain of Testin-like family

 Score = 46.6 bits (111), Expect = 3e-08
 Identities = 20/52 (38%), Positives = 34/52 (65%), Gaps = 2/52 (3%)

Query: 65  CEECSKIIGIDSKDLSYKDKHWH--EACFSCSKCRQSLVDKQFGSKSEKIYC 114
           C+ C + IG D + +++  +HWH  E CF CS C++SL+ + F  K+ +I+C
Sbjct: 1   CDACGEPIGPDVQRVAHNGQHWHATEECFCCSNCKKSLLGQPFLPKNGQIFC 52

The third 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 = 57

>gnl|CDD|188814 cd09430, LIM5_LIMPETin, The fifth LIM domain of protein LIMPETin

 Score = 46.3 bits (110), Expect = 4e-08
 Identities = 23/54 (42%), Positives = 38/54 (70%), Gaps = 2/54 (3%)

Query: 65  CEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCY 118
           C +C+KII  +S  ++YK++ WH  CF+C+ C +SL  ++F S+ EK YC +C+
Sbjct: 1   CSKCNKII--NSGGVTYKNEPWHRECFTCTNCSKSLAGQRFTSRDEKPYCADCF 52

The fifth 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 = 52

>gnl|CDD|188804 cd09420, LIM3_Prickle, The third LIM domain of Prickle

 Score = 46.7 bits (111), Expect = 4e-08
 Identities = 21/52 (40%), Positives = 34/52 (65%), Gaps = 2/52 (3%)

Query: 65  CEECSKIIGIDSKDLSYKDKHWH--EACFSCSKCRQSLVDKQFGSKSEKIYC 114
           C+ C + IG+D   ++Y  +HWH  E CF C++C++SL+ + F  K  +IYC
Sbjct: 3   CDTCGEHIGVDQGQMTYDGQHWHATEKCFCCAQCKKSLLGRPFLPKQGQIYC 54

The third 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 = 59

>gnl|CDD|188816 cd09432, LIM6_LIMPETin, The sixth LIM domain of protein LIMPETin

 Score = 45.9 bits (109), Expect = 7e-08
 Identities = 25/55 (45%), Positives = 35/55 (63%), Gaps = 2/55 (3%)

Query: 65  CEECSK-IIGID-SKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNC 117
           C  C K I GI  +K +S++D+HWH  CF+C+ CR SLV K F +   +I C +C
Sbjct: 1   CAACGKPITGIGGTKFISFEDRHWHNDCFNCAGCRTSLVGKGFITDGGRILCPDC 55

The sixth 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 = 56

>gnl|CDD|188733 cd09347, LIM4_FHL, The fourth LIM domain of Four and a half LIM domains protein (FHL)

 Score = 45.8 bits (109), Expect = 8e-08
 Identities = 21/55 (38%), Positives = 35/55 (63%), Gaps = 2/55 (3%)

Query: 65  CEECSK-IIGI-DSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNC 117
           C  C+K I G+  +K +S++++ WH  CF+C KC  SLV + F ++ ++I C  C
Sbjct: 1   CAACTKPITGLGGAKFISFEERQWHSDCFNCGKCSVSLVGQGFLTQRDEILCPEC 55

The fourth 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 interacts 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 = 56

>gnl|CDD|188732 cd09346, LIM3_FHL, The third LIM domain of Four and a half LIM domains protein (FHL)

 Score = 45.4 bits (108), Expect = 9e-08
 Identities = 20/54 (37%), Positives = 34/54 (62%), Gaps = 2/54 (3%)

Query: 65  CEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCY 118
           C +C K I   S  ++Y+D+ WH+ CF C+ C++ L  ++F S+ E  YC +C+
Sbjct: 1   CAKCKKAI--TSGGVTYRDQPWHKECFVCTGCKKQLAGQRFTSRDEYPYCVDCF 52

The third 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 = 52

>gnl|CDD|188809 cd09425, LIM4_LIMPETin, The fourth LIM domain of protein LIMPETin

 Score = 45.1 bits (107), Expect = 1e-07
 Identities = 21/54 (38%), Positives = 30/54 (55%)

Query: 65  CEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCY 118
           C+ C +I     K + YK + WHE CF C +C+Q +  K F  K + +YC  CY
Sbjct: 1   CDGCGEIFRAGMKKMEYKGQQWHEKCFCCCECKQPIGTKSFIPKDDDVYCVPCY 54

The fourth 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 = 54

>gnl|CDD|188818 cd09434, LIM4_FHL3, The fourth LIM domain of Four and a half LIM domains protein 3 (FHL3)

 Score = 44.8 bits (106), Expect = 2e-07
 Identities = 22/55 (40%), Positives = 32/55 (58%), Gaps = 2/55 (3%)

Query: 65  CEECSK-IIGI-DSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNC 117
           C  C+K I G    K +S++D+ WH+ CF CS+C  SLV   F    ++I C +C
Sbjct: 1   CAACNKPITGFGGGKYVSFEDRQWHQPCFKCSRCSVSLVGAGFFPDGDQILCRDC 55

The fourth 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 = 56

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

 Score = 44.6 bits (106), Expect = 2e-07
 Identities = 21/54 (38%), Positives = 23/54 (42%), Gaps = 1/54 (1%)

Query: 65  CEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCY 118
           C  C K I    + L    K WH  CF CS C + L    F  K  K YC  CY
Sbjct: 1   CAGCGKPI-EGRELLRALGKKWHPECFKCSVCGKPLGGDSFYEKDGKPYCEKCY 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|188726 cd09340, LIM1_Testin_like, The first LIM domain of Testin-like family

 Score = 43.4 bits (103), Expect = 6e-07
 Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 4/55 (7%)

Query: 65  CEECSKIIGIDS----KDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCG 115
           CE+C + I         + + +D  WH  CF C  C + LVD  +     KIYCG
Sbjct: 1   CEKCKEPINPGEVAVFAERAGEDACWHPGCFVCETCNELLVDLIYFYHDGKIYCG 55

The first 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 = 58

>gnl|CDD|188812 cd09428, LIM2_FHL5, The second LIM domain of Four and a half LIM domains protein 5 (FHL5)

 Score = 42.5 bits (100), Expect = 1e-06
 Identities = 20/54 (37%), Positives = 27/54 (50%)

Query: 65  CEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCY 118
           C  C K I   S+ L ++   WHE CF C  C+Q +  K   +K  K YC  C+
Sbjct: 1   CFHCKKTIMPGSRKLEFEGNEWHETCFVCQSCQQPIGTKPLITKENKNYCVPCF 54

The second LIM domain of Four and a half LIM domains protein 5 (FHL5): FHL5 is a tissue-specific coactivator of CREB/CREM family transcription factors , which are highly expressed in male germ cells and is required for post-meiotic gene expression. FHL5 associates with CREM and confers a powerful transcriptional activation function. Activation by CREB has known to occur upon phosphorylation at an essential regulatory site and the subsequent interaction with the ubiquitous coactivator CREB-binding protein (CBP). However, the activation by FHL5 is independent of phosphorylation and CBP association. It represents a new route for transcriptional activation by CREM and CREB. 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|188734 cd09348, LIM4_FHL1, The fourth LIM domain of Four and a half LIM domains protein 1 (FHL1)

 Score = 42.4 bits (100), Expect = 2e-06
 Identities = 20/59 (33%), Positives = 32/59 (54%), Gaps = 3/59 (5%)

Query: 62  ANSCEECSKII---GIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNC 117
           A  C  C   I   G  +  ++Y+   WH+ CF+C KC  +L +K+F   + +IYC +C
Sbjct: 2   AKKCSGCQNPITGFGKGTNVVNYEGSSWHDYCFNCKKCSLNLANKRFVFHNGQIYCSDC 60

The fourth 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 = 64

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

 Score = 41.6 bits (98), Expect = 3e-06
 Identities = 15/41 (36%), Positives = 19/41 (46%)

Query: 82  KDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQF 122
             K WH  CF C+ C + L    F  K  K+YC + Y   F
Sbjct: 18  LGKVWHPECFRCAVCGKPLGPGDFFEKDGKLYCKHDYFKLF 58

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

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

 Score = 41.0 bits (96), Expect = 5e-06
 Identities = 19/58 (32%), Positives = 30/58 (51%)

Query: 62  ANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYD 119
           ++ C  C K +   S+ L Y+ + WHE CF C  C Q +  + F    ++ YC  CY+
Sbjct: 1   SSKCVACGKTVMPGSRKLEYEGQTWHEHCFICHGCEQPIGSRSFIPDKDEHYCVPCYE 58

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|188813 cd09429, LIM3_FHL1, The third LIM domain of Four and a half LIM domains protein 1 (FHL1)

 Score = 41.0 bits (96), Expect = 5e-06
 Identities = 20/54 (37%), Positives = 33/54 (61%), Gaps = 2/54 (3%)

Query: 65  CEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCY 118
           C +C+K   I S  ++Y+D+ WH  CF CS C + L  ++F +  ++ YC +CY
Sbjct: 1   CVKCNK--PITSGGVTYQDQPWHSECFVCSSCSKKLAGQRFTAVEDQYYCVDCY 52

The third 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 = 53

>gnl|CDD|188815 cd09431, LIM3_Fhl2, The third LIM domain of Four and a half LIM domains protein 2 (FHL2)

 Score = 40.4 bits (94), Expect = 9e-06
 Identities = 19/54 (35%), Positives = 34/54 (62%), Gaps = 2/54 (3%)

Query: 65  CEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCY 118
           C +C K   I +  ++Y+D+ WH+ CF C+ C++ L  ++F S+ +  YC NC+
Sbjct: 1   CVQCKK--PITTGGVTYRDQPWHKECFVCTGCKKQLSGQRFTSRDDFAYCLNCF 52

The third 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|188797 cd09413, LIM1_Testin, The first LIM domain of Testin

 Score = 37.8 bits (88), Expect = 1e-04
 Identities = 19/36 (52%), Positives = 23/36 (63%)

Query: 83  DKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCY 118
           DK WH ACF CS C + LVD  +  K+ K+YCG  Y
Sbjct: 23  DKLWHPACFVCSTCGELLVDMIYFWKNGKLYCGRHY 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|188785 cd09401, LIM_TLP_like, The LIM domains of thymus LIM protein (TLP)

 Score = 36.9 bits (86), Expect = 1e-04
 Identities = 13/35 (37%), Positives = 18/35 (51%)

Query: 84  KHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCY 118
           + WH+ C  C KC+++L   Q      K YC  CY
Sbjct: 19  RDWHKPCLRCEKCKKTLTPGQHSEHEGKPYCNKCY 53

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|188817 cd09433, LIM4_FHL2, The fourth LIM domain of Four and a half LIM domains protein 2 (FHL2)

 Score = 37.3 bits (86), Expect = 1e-04
 Identities = 16/42 (38%), Positives = 27/42 (64%)

Query: 76  SKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNC 117
           +K +S++++ WH  CF+C KC  SLV + F ++ + I C  C
Sbjct: 14  TKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPEC 55

The fourth 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 = 58

>gnl|CDD|188735 cd09349, LIM1_Zyxin, The first LIM domain of Zyxin

 Score = 37.5 bits (87), Expect = 2e-04
 Identities = 15/33 (45%), Positives = 19/33 (57%)

Query: 86  WHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCY 118
           +H  CF+C +C Q L  +QF S   K YC  CY
Sbjct: 55  FHVTCFTCHQCEQQLQGQQFYSLEGKPYCEECY 87

The first LIM domain of Zyxin: Zyxin exhibits three copies of the LIM domain, an extensive proline-rich domain and a nuclear export signal. Localized at sites of cell substratum adhesion in fibroblasts, Zyxin interacts with alpha-actinin, members of the cysteine-rich protein (CRP) family, proteins that display Src homology 3 (SH3) domains and Ena/VASP family members. Zyxin and its partners have been implicated in the spatial control of actin filament assembly as well as in pathways important for cell differentiation. In addition to its functions at focal adhesion plaques, recent work has shown that zyxin moves from the sites of cell contacts to the nucleus, where it directly participates in the regulation of gene expression. 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 = 87

>gnl|CDD|188799 cd09415, LIM1_Prickle, The first LIM domain of Prickle

 Score = 35.7 bits (83), Expect = 5e-04
 Identities = 15/30 (50%), Positives = 20/30 (66%)

Query: 86  WHEACFSCSKCRQSLVDKQFGSKSEKIYCG 115
           WH ACF CS C++ LVD  +  +  K+YCG
Sbjct: 26  WHPACFVCSTCKELLVDLIYFYQDGKVYCG 55

The first 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. Four forms of prickles have been identified: prickle 1-4. The best characterized is prickle 1 and prickle 2 which 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. Mutations in prickle 1 have been linked to progressive myoclonus epilepsy. 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 = 59

>gnl|CDD|188800 cd09416, LIM2_Testin, The second LIM domain of Testin

 Score = 35.2 bits (81), Expect = 9e-04
 Identities = 15/30 (50%), Positives = 20/30 (66%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCY 57
          +HFCC+ CD  L G+ YV+ +D P C  CY
Sbjct: 26 KHFCCFDCDNILAGEIYVMVNDKPVCKPCY 55

The second 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 = 56

>gnl|CDD|188814 cd09430, LIM5_LIMPETin, The fifth LIM domain of protein LIMPETin

 Score = 34.8 bits (80), Expect = 0.001
 Identities = 14/28 (50%), Positives = 18/28 (64%)

Query: 30 FCCWQCDESLTGQRYVLRDDHPYCIKCY 57
          F C  C +SL GQR+  RD+ PYC  C+
Sbjct: 25 FTCTNCSKSLAGQRFTSRDEKPYCADCF 52

The fifth 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 = 52

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

 Score = 34.5 bits (79), Expect = 0.001
 Identities = 25/66 (37%), Positives = 32/66 (48%), Gaps = 13/66 (19%)

Query: 53  CIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKI 112
           C +C +SV+A       KIIG          K WH+ CF C+KC +SL       K  +I
Sbjct: 1   CPRCGKSVYA-----AEKIIG--------AGKPWHKNCFRCAKCGKSLESTTLADKDGEI 47

Query: 113 YCGNCY 118
           YC  CY
Sbjct: 48  YCKGCY 53

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

 Score = 34.7 bits (80), Expect = 0.001
 Identities = 14/29 (48%), Positives = 18/29 (62%)

Query: 86  WHEACFSCSKCRQSLVDKQFGSKSEKIYC 114
           WH ACF CS C + LVD  +    ++IYC
Sbjct: 26  WHPACFRCSTCEELLVDLTYCVHDDQIYC 54

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

 Score = 34.1 bits (79), Expect = 0.002
 Identities = 17/69 (24%), Positives = 30/69 (43%), Gaps = 13/69 (18%)

Query: 51  PYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSE 110
           P C  C E +F+    +              + K+WH   F C +C + L  +++  +  
Sbjct: 1   PRCAACDELIFSGEYTQA-------------EGKNWHLKHFCCFQCDEPLGGQRYVLREG 47

Query: 111 KIYCGNCYD 119
           K YC +CY+
Sbjct: 48  KPYCLDCYE 56

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|188732 cd09346, LIM3_FHL, The third LIM domain of Four and a half LIM domains protein (FHL)

 Score = 34.2 bits (79), Expect = 0.002
 Identities = 13/28 (46%), Positives = 19/28 (67%)

Query: 30 FCCWQCDESLTGQRYVLRDDHPYCIKCY 57
          F C  C + L GQR+  RD++PYC+ C+
Sbjct: 25 FVCTGCKKQLAGQRFTSRDEYPYCVDCF 52

The third 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 = 52

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

 Score = 34.2 bits (79), Expect = 0.002
 Identities = 12/30 (40%), Positives = 16/30 (53%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCY 57
          + F C  C + L G  +  +D  PYC KCY
Sbjct: 24 ECFKCSVCGKPLGGDSFYEKDGKPYCEKCY 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|188717 cd09331, LIM1_PINCH, The first LIM domain of protein PINCH

 Score = 33.8 bits (78), Expect = 0.002
 Identities = 18/59 (30%), Positives = 28/59 (47%)

Query: 65  CEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFA 123
           CE C +    D K ++   + +HE CF C++C Q   D  F     + YC + +   FA
Sbjct: 1   CERCREGFEPDEKIVNSNGELYHEQCFVCAQCFQPFPDGLFYEFEGRKYCEHDFQVLFA 59

The first LIM domain of paxillin: Paxillin is an adaptor protein, which recruits key components of the signal-transduction machinery to specific sub-cellular locations to respond to environmental changes rapidly. The C-terminal region of paxillin contains four LIM domains which target paxillin to focal adhesions, presumably through a direct association with the cytoplasmic tail of beta-integrin. The N-terminal of paxillin is leucine-rich LD-motifs. Paxillin is found at the interface between the plasma membrane and the actin cytoskeleton. The binding partners of paxillin are diverse and include protein tyrosine kinases, such as Src and FAK, structural proteins, such as vinculin and actopaxin, and regulators of actin organization. Paxillin recruits these proteins to their function sites to control the dynamic changes in cell adhesion, cytoskeletal reorganization and gene expression. 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 = 59

>gnl|CDD|188779 cd09393, LIM3_Lrg1p_like, The third LIM domain of Lrg1p, a LIM and RhoGap domain containing protein

 Score = 33.8 bits (78), Expect = 0.003
 Identities = 17/41 (41%), Positives = 25/41 (60%), Gaps = 4/41 (9%)

Query: 81  YKDKHWHEACFSCSKCRQ----SLVDKQFGSKSEKIYCGNC 117
           ++DK WH  CF+CS+C +     L D  F +K ++I C NC
Sbjct: 15  FEDKRWHLKCFTCSRCHREISSELSDAAFNNKDQRILCSNC 55

The third LIM domain of Lrg1p, a LIM and RhoGap domain containing protein: The members of this family contain three tandem repeats of LIM domains and a Rho-type GTPase activating protein (RhoGap) domain. Lrg1p is a Rho1 GTPase-activating protein required for efficient cell fusion in yeast. Lrg1p-GAP domain strongly and specifically stimulates the GTPase activity of Rho1p, a regulator of beta (1-3)-glucan synthase in vitro. The LIM domain 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 = 56

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

 Score = 33.5 bits (76), Expect = 0.003
 Identities = 24/66 (36%), Positives = 32/66 (48%), Gaps = 13/66 (19%)

Query: 53  CIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKI 112
           C +C +SV+A       KI+G          K WH+ CF C+KC +SL       K  +I
Sbjct: 1   CSRCGDSVYA-----AEKIMG--------AGKPWHKNCFRCAKCGKSLESTTLTEKEGEI 47

Query: 113 YCGNCY 118
           YC  CY
Sbjct: 48  YCKGCY 53

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|188815 cd09431, LIM3_Fhl2, The third LIM domain of Four and a half LIM domains protein 2 (FHL2)

 Score = 33.4 bits (76), Expect = 0.004
 Identities = 14/33 (42%), Positives = 22/33 (66%)

Query: 30 FCCWQCDESLTGQRYVLRDDHPYCIKCYESVFA 62
          F C  C + L+GQR+  RDD  YC+ C+ +++A
Sbjct: 25 FVCTGCKKQLSGQRFTSRDDFAYCLNCFCNLYA 57

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

 Score = 33.3 bits (77), Expect = 0.004
 Identities = 13/35 (37%), Positives = 20/35 (57%)

Query: 84  KHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCY 118
           K WH++CF+C+ C + L          +IYC +CY
Sbjct: 19  KSWHKSCFTCAVCNKRLDSTTLAEHDGEIYCKSCY 53

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|188722 cd09336, LIM1_Paxillin_like, The first LIM domain of the paxillin like protein family

 Score = 33.5 bits (77), Expect = 0.004
 Identities = 12/30 (40%), Positives = 16/30 (53%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCY 57
          +HF C +C   L  + +  RD  PYC K Y
Sbjct: 23 EHFVCAECKTELGTKNFFERDGQPYCEKDY 52

The first LIM domain of the paxillin like protein family: This family consists of paxillin, leupaxin, Hic-5 (ARA55), and other related proteins. There are four LIM domains in the C-terminal of the proteins and leucine-rich LD-motifs in the N-terminal region. Members of this family are adaptor proteins to recruit key components of signal-transduction machinery to specific sub-cellular locations. Paxillin is found at the interface between the plasma membrane and the actin cytoskeleton. Paxillin serves as a platform for the recruitment of numerous regulatory and structural proteins that together control the dynamic changes in cell adhesion, cytoskeletal reorganization and gene expression that are necessary for cell migration and survival. Leupaxin is a cytoskeleton adaptor protein, which is preferentially expressed in hematopoietic cells. It associates with focal adhesion kinases PYK2 and pp125FAK and identified to be a component of the osteoclast pososomal signaling complex. Hic-5 controls cell proliferation, migration and senescence by functioning as coactivator for steroid receptors such as androgen receptor, glucocorticoid receptor and progesterone receptor. 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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	135
KOG1701|consensus	468		100.0
KOG1701|consensus	468		99.94
KOG2272|consensus	332		99.91
KOG2272|consensus	332		99.91
KOG1703|consensus	479		99.91
KOG4577|consensus	383		99.9
KOG1703|consensus	479		99.84
KOG1044|consensus	670		99.82
KOG1044|consensus	670		99.82
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.69
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.64
KOG1700|consensus	200		99.51
KOG4577|consensus	383		99.46
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.98
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.91
KOG0490|consensus	235		98.26
KOG1700|consensus	200		98.07
KOG1702|consensus	264		97.77
KOG1702|consensus	264		97.23
KOG0490|consensus	235		96.19
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	93.05
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	91.26
PF14634	44	zf-RING_5: zinc-RING finger domain	90.77
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	90.76
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	89.3
PF08394	37	Arc_trans_TRASH: Archaeal TRASH domain; InterPro:	88.96
PRK14890	59	putative Zn-ribbon RNA-binding protein; Provisiona	87.79
COG2888	61	Predicted Zn-ribbon RNA-binding protein with a fun	83.48
PF06677	41	Auto_anti-p27: Sjogren's syndrome/scleroderma auto	83.26
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	82.88
COG2191	206	Formylmethanofuran dehydrogenase subunit E [Energy	82.76
COG2191	206	Formylmethanofuran dehydrogenase subunit E [Energy	81.24
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	80.25
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	80.22
PF11781	36	RRN7: RNA polymerase I-specific transcription init	80.05

>KOG1701|consensus

Probab=100.00  E-value=9.6e-35  Score=216.94  Aligned_cols=129  Identities=25%  Similarity=0.552  Sum_probs=121.9

Q ss_pred             ccccccCcccccc--ceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchhhcCCccccCcccce
Q psy8111           3 SAVKHQDKSFRED--YNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLS   80 (135)
Q Consensus         3 ~~C~~C~~~i~~~--~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I~~~~~~~~   80 (135)
                      .+|.+|+|.|.++  .+.||++.||.. ||+|.+|++.|.++.||..|+++||+.||... ..+|..|+++|+  +++++
T Consensus       275 ~iC~~C~K~V~g~~~ac~Am~~~fHv~-CFtC~~C~r~L~Gq~FY~v~~k~~CE~cyq~t-lekC~~Cg~~I~--d~iLr  350 (468)
T KOG1701|consen  275 GICAFCHKTVSGQGLAVEAMDQLFHVQ-CFTCRTCRRQLAGQSFYQVDGKPYCEGCYQDT-LEKCNKCGEPIM--DRILR  350 (468)
T ss_pred             hhhhhcCCcccCcchHHHHhhhhhccc-ceehHhhhhhhccccccccCCcccchHHHHHH-HHHHhhhhhHHH--HHHHH
Confidence            4799999999964  589999999999 99999999999999999999999999999876 479999999995  88999


Q ss_pred             eCCccccccccccccccccCCCCCeeee-CCcccCHHhHhhhcCCCcccCCCCCCC
Q psy8111          81 YKDKHWHEACFSCSKCRQSLVDKQFGSK-SEKIYCGNCYDAQFASRCDGCSEIFKA  135 (135)
Q Consensus        81 ~~~~~~H~~Cf~C~~C~~~l~~~~~~~~-~~~~~C~~c~~~~~~~~C~~C~~~I~~  135 (135)
                      |.|+.||+.||+|..|.+.|++..|.+. ++++||..+|.++|++||+.|++||+|
T Consensus       351 A~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfAPrCs~C~~PI~P  406 (468)
T KOG1701|consen  351 ALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFAPRCSVCGNPILP  406 (468)
T ss_pred             hcccccCCCceEEEEeccccCCccccccCCCceeeehhhhhhcCcchhhccCCccC
Confidence            9999999999999999999999988876 799999999999999999999999987

>KOG1701|consensus

Probab=99.94  E-value=9.6e-28  Score=179.59  Aligned_cols=122  Identities=19%  Similarity=0.452  Sum_probs=111.2

Q ss_pred             cccccCccccccceeeCCCcccCCCCeeccccCCccCCCceEe-ECCeeeccCchhhhcCCchhhcCCccccC-----cc
Q psy8111           4 AVKHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVL-RDDHPYCIKCYESVFANSCEECSKIIGID-----SK   77 (135)
Q Consensus         4 ~C~~C~~~i~~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~-~~~~~~C~~c~~~~~~~~C~~C~~~I~~~-----~~   77 (135)
                      .|..|+++|.+++|.|+|+.||+. ||+|..|++.|++..|.. .++++||.+||+++|+++|+.|+++|++.     ..
T Consensus       336 kC~~Cg~~I~d~iLrA~GkayHp~-CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfAPrCs~C~~PI~P~~G~~etv  414 (468)
T KOG1701|consen  336 KCNKCGEPIMDRILRALGKAYHPG-CFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFAPRCSVCGNPILPRDGKDETV  414 (468)
T ss_pred             HHhhhhhHHHHHHHHhcccccCCC-ceEEEEeccccCCccccccCCCceeeehhhhhhcCcchhhccCCccCCCCCcceE
Confidence            599999999999999999999999 999999999999999986 78999999999999999999999999764     24


Q ss_pred             cceeCCccccccccccccccccCCC----CCeeeeCCcccCHHhHhhhcCCCc
Q psy8111          78 DLSYKDKHWHEACFSCSKCRQSLVD----KQFGSKSEKIYCGNCYDAQFASRC  126 (135)
Q Consensus        78 ~~~~~~~~~H~~Cf~C~~C~~~l~~----~~~~~~~~~~~C~~c~~~~~~~~C  126 (135)
                      .|.++++.||.+|++|..|+.+|+.    ...|..||.++|+.|..++....+
T Consensus       415 Rvvamdr~fHv~CY~CEDCg~~LS~e~e~qgCyPld~HllCk~Ch~~Rl~~~~  467 (468)
T KOG1701|consen  415 RVVAMDRDFHVNCYKCEDCGLLLSSEEEGQGCYPLDGHLLCKTCHLKRLQAGS  467 (468)
T ss_pred             EEEEccccccccceehhhcCccccccCCCCcceeccCceeechhhhhhhcccC
Confidence            4788999999999999999999972    368899999999999988876554

>KOG2272|consensus

Probab=99.91  E-value=5.2e-26  Score=160.59  Aligned_cols=127  Identities=23%  Similarity=0.513  Sum_probs=119.7

Q ss_pred             cccccCccccccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchhhcCCccccCcccceeCC
Q psy8111           4 AVKHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKD   83 (135)
Q Consensus         4 ~C~~C~~~i~~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~   83 (135)
                      .|.+|+..|+++.|+..|..||+. +|+|..|++.|++. -.+..|.+||.+|+.+.-.|.|..|.+||  ++.+|.++|
T Consensus       139 vC~KCh~~iD~~~l~fr~d~yH~y-HFkCt~C~keL~sd-aRevk~eLyClrChD~mgipiCgaC~rpI--eervi~amg  214 (332)
T KOG2272|consen  139 VCQKCHAHIDEQPLTFRGDPYHPY-HFKCTTCGKELTSD-AREVKGELYCLRCHDKMGIPICGACRRPI--EERVIFAMG  214 (332)
T ss_pred             ehhhhhhhcccccccccCCCCCcc-ceecccccccccch-hhhhccceeccccccccCCcccccccCch--HHHHHHHhc
Confidence            489999999999999999999999 99999999999875 55677899999999998889999999999  588999999


Q ss_pred             ccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCcccCCCCCC
Q psy8111          84 KHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEIFK  134 (135)
Q Consensus        84 ~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I~  134 (135)
                      +.||.++|+|+.|.+|+-+-..|++.|.+||+.+|.++|+..|..|+++|.
T Consensus       215 KhWHveHFvCa~CekPFlGHrHYEkkGlaYCe~h~~qLfG~~CF~C~~~i~  265 (332)
T KOG2272|consen  215 KHWHVEHFVCAKCEKPFLGHRHYEKKGLAYCETHYHQLFGNLCFICNRVIG  265 (332)
T ss_pred             cccchhheeehhcCCcccchhhhhhcCchhHHHHHHHHhhhhheecCCccC
Confidence            999999999999999999989999999999999999999999999999884

>KOG2272|consensus

Probab=99.91  E-value=2.6e-26  Score=162.16  Aligned_cols=115  Identities=30%  Similarity=0.603  Sum_probs=109.4

Q ss_pred             ccccccCccccccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchhhcCCccccCcccceeC
Q psy8111           3 SAVKHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYK   82 (135)
Q Consensus         3 ~~C~~C~~~i~~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I~~~~~~~~~~   82 (135)
                      ..|..|.+||++++|.|+|+.||.+ +|+|+.|.+|+-+.+.|++.|.+||+.+|.++++..|..|+.+|  .+.++.++
T Consensus       196 piCgaC~rpIeervi~amgKhWHve-HFvCa~CekPFlGHrHYEkkGlaYCe~h~~qLfG~~CF~C~~~i--~G~vv~al  272 (332)
T KOG2272|consen  196 PICGACRRPIEERVIFAMGKHWHVE-HFVCAKCEKPFLGHRHYEKKGLAYCETHYHQLFGNLCFICNRVI--GGDVVSAL  272 (332)
T ss_pred             cccccccCchHHHHHHHhccccchh-heeehhcCCcccchhhhhhcCchhHHHHHHHHhhhhheecCCcc--CccHHHHh
Confidence            4699999999999999999999999 99999999999999999999999999999999999999999999  57799999


Q ss_pred             CccccccccccccccccCCCC-CeeeeCCcccCHHhHhh
Q psy8111          83 DKHWHEACFSCSKCRQSLVDK-QFGSKSEKIYCGNCYDA  120 (135)
Q Consensus        83 ~~~~H~~Cf~C~~C~~~l~~~-~~~~~~~~~~C~~c~~~  120 (135)
                      ++.|-++||+|+.|++.|... .|++.|-+|.|+.||.+
T Consensus       273 ~KawCv~cf~Cs~Cdkkl~~K~Kf~E~DmkP~CKkCy~r  311 (332)
T KOG2272|consen  273 NKAWCVECFSCSTCDKKLTQKNKFYEFDMKPVCKKCYDR  311 (332)
T ss_pred             hhhhccccccccccccccccccceeeeccchHHHHHHhh
Confidence            999999999999999999854 79999999999999974

>KOG1703|consensus

Probab=99.91  E-value=4.2e-25  Score=172.84  Aligned_cols=129  Identities=22%  Similarity=0.520  Sum_probs=123.4

Q ss_pred             ccccccCccccc-cceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchhhcCCccccCccccee
Q psy8111           3 SAVKHQDKSFRE-DYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSY   81 (135)
Q Consensus         3 ~~C~~C~~~i~~-~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I~~~~~~~~~   81 (135)
                      ..|..|+++|.+ +++.++++.||++ +|.|+.|+..+....+...+|++||.+|+.+.+++.|.+|+++|.  +..|.+
T Consensus       304 p~c~~c~~~i~~~~~i~~~~~~~h~~-~~~c~~~~~~~~~~~~~~~~g~~~c~~~~~~~~~p~C~~C~~~i~--~~~v~a  380 (479)
T KOG1703|consen  304 PLCLSCNQKIRSVKVIVALGKEWHPE-HFSCEVCAIVILDGGPRELDGKILCHECFHAPFRPNCKRCLLPIL--EEGVCA  380 (479)
T ss_pred             ccccccccCcccceeEeecccccccc-ceeeccccccccCCCccccCCCccHHHHHHHhhCccccccCCchH--HhHhhh
Confidence            579999999999 9999999999999 999999999999888899999999999999999999999999995  778999


Q ss_pred             CCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCcccCCCCCC
Q psy8111          82 KDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEIFK  134 (135)
Q Consensus        82 ~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I~  134 (135)
                      .+..||++||+|..|+++|.+..|+..++.|||+.||.++++++|..|.++|.
T Consensus       381 ~~~~wH~~cf~C~~C~~~~~~~~~~~~~~~pyce~~~~~~~~~~~~~~~~p~~  433 (479)
T KOG1703|consen  381 LGRLWHPECFVCADCGKPLKNSSFFESDGEPYCEDHYKKLFTTKCDYCKKPVE  433 (479)
T ss_pred             ccCeechhceeeecccCCCCCCcccccCCccchhhhHhhhccccchhccchhH
Confidence            99999999999999999999999999999999999999999999999998875

>KOG4577|consensus

Probab=99.90  E-value=9e-26  Score=161.93  Aligned_cols=123  Identities=20%  Similarity=0.436  Sum_probs=109.4

Q ss_pred             cccccccCccccccc-eeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchhhcCCccccCcccce
Q psy8111           2 ESAVKHQDKSFREDY-NKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLS   80 (135)
Q Consensus         2 ~~~C~~C~~~i~~~~-i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I~~~~~~~~   80 (135)
                      +..|+.|++.|.+++ +.++++.||.. |++|+.|..+|... +|.++|.+||+++|.++|+.+|++|...|.|+..+..
T Consensus        33 ip~CagC~q~IlDrFilKvl~R~wHs~-CLkCs~C~~qL~dr-CFsR~~s~yCkedFfKrfGTKCsaC~~GIpPtqVVRk  110 (383)
T KOG4577|consen   33 IPICAGCDQHILDRFILKVLDRHWHSS-CLKCSDCHDQLADR-CFSREGSVYCKEDFFKRFGTKCSACQEGIPPTQVVRK  110 (383)
T ss_pred             cccccchHHHHHHHHHHHHHhhhhhhh-hcchhhhhhHHHHH-HhhcCCceeehHHHHHHhCCcchhhcCCCChHHHHHH
Confidence            356999999999998 57899999999 99999999999864 9999999999999999999999999999998777778


Q ss_pred             eCCccccccccccccccccCCCC-Ceee-eCCcccCHHhHhhhcCCCc
Q psy8111          81 YKDKHWHEACFSCSKCRQSLVDK-QFGS-KSEKIYCGNCYDAQFASRC  126 (135)
Q Consensus        81 ~~~~~~H~~Cf~C~~C~~~l~~~-~~~~-~~~~~~C~~c~~~~~~~~C  126 (135)
                      |.+..||..||.|..|+++|..+ .||+ .|.+++|++.|+..-+.-|
T Consensus       111 Aqd~VYHl~CF~C~iC~R~L~TGdEFYLmeD~rLvCK~DYE~Ak~k~~  158 (383)
T KOG4577|consen  111 AQDFVYHLHCFACFICKRQLATGDEFYLMEDARLVCKDDYETAKQKHC  158 (383)
T ss_pred             hhcceeehhhhhhHhhhcccccCCeeEEeccceeehhhhHHHHHhccc
Confidence            89999999999999999999743 5555 5899999999987654433

>KOG1703|consensus

Probab=99.84  E-value=3.1e-22  Score=156.78  Aligned_cols=116  Identities=23%  Similarity=0.523  Sum_probs=110.2

Q ss_pred             cccccccCccccccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchhhcCCccccCccccee
Q psy8111           2 ESAVKHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSY   81 (135)
Q Consensus         2 ~~~C~~C~~~i~~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I~~~~~~~~~   81 (135)
                      ...|.+|+++|.++.|.|+++.||++ ||.|..|+++|.+..|+..+|.+||+.||.+++.++|..|.+++...+..+.+
T Consensus       363 ~p~C~~C~~~i~~~~v~a~~~~wH~~-cf~C~~C~~~~~~~~~~~~~~~pyce~~~~~~~~~~~~~~~~p~~~~~~~ie~  441 (479)
T KOG1703|consen  363 RPNCKRCLLPILEEGVCALGRLWHPE-CFVCADCGKPLKNSSFFESDGEPYCEDHYKKLFTTKCDYCKKPVEFGSRQIEA  441 (479)
T ss_pred             CccccccCCchHHhHhhhccCeechh-ceeeecccCCCCCCcccccCCccchhhhHhhhccccchhccchhHhhhhHhhc
Confidence            35699999999999999999999999 99999999999999999999999999999999999999999998666788999


Q ss_pred             CCccccccccccccccccCCCCCeeeeCCcccCHHhH
Q psy8111          82 KDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCY  118 (135)
Q Consensus        82 ~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~  118 (135)
                      ++..||..||+|..|.+.|.++.|+...++|+|..|+
T Consensus       442 ~~~~~h~~~F~c~~c~~~l~~~~~~~~~~~p~c~~~~  478 (479)
T KOG1703|consen  442 DGSPFHGDCFRCANCMKKLTKKTFFETLDKPLCQKHF  478 (479)
T ss_pred             cCccccccceehhhhhccccCCceeecCCccccccCC
Confidence            9999999999999999999999999999999998875

>KOG1044|consensus

Probab=99.82  E-value=2.3e-21  Score=149.96  Aligned_cols=113  Identities=30%  Similarity=0.594  Sum_probs=103.6

Q ss_pred             ccccccCcccc-ccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchhhcCCccccCccccee
Q psy8111           3 SAVKHQDKSFR-EDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSY   81 (135)
Q Consensus         3 ~~C~~C~~~i~-~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I~~~~~~~~~   81 (135)
                      +.|++|++.|. |+.+.|+++.||.. ||+|..|...|.++ |+.++|.|||++||.+.|+.+|..|.+.|  .+.++.|
T Consensus       134 s~cagc~~~lk~gq~llald~qwhv~-cfkc~~c~~vL~ge-y~skdg~pyce~dy~~~fgvkc~~c~~fi--sgkvLqa  209 (670)
T KOG1044|consen  134 STCAGCGEELKNGQALLALDKQWHVS-CFKCKSCSAVLNGE-YMSKDGVPYCEKDYQAKFGVKCEECEKFI--SGKVLQA  209 (670)
T ss_pred             ccccchhhhhhccceeeeeccceeee-eeehhhhcccccce-eeccCCCcchhhhhhhhcCeehHHhhhhh--hhhhhhc
Confidence            57999999885 89999999999999 99999999999986 99999999999999999999999999999  4889999


Q ss_pred             CCccccccccccccccccCCC-CCeeeeCCcccCHHhHh
Q psy8111          82 KDKHWHEACFSCSKCRQSLVD-KQFGSKSEKIYCGNCYD  119 (135)
Q Consensus        82 ~~~~~H~~Cf~C~~C~~~l~~-~~~~~~~~~~~C~~c~~  119 (135)
                      .|++|||.|-+|+.|+..+++ +..|+.+..++-..|-+
T Consensus       210 g~kh~HPtCARCsRCgqmF~eGEEMYlQGs~iWHP~C~q  248 (670)
T KOG1044|consen  210 GDKHFHPTCARCSRCGQMFGEGEEMYLQGSEIWHPDCKQ  248 (670)
T ss_pred             cCcccCcchhhhhhhccccccchheeeccccccCCcccc
Confidence            999999999999999999985 57888888888777743

>KOG1044|consensus

Probab=99.82  E-value=3e-21  Score=149.31  Aligned_cols=126  Identities=23%  Similarity=0.552  Sum_probs=109.7

Q ss_pred             cccCccccccceeeCCCcccCCCCeeccccCCccCCCceE-eECCeeeccCchhhh--------cCCchhhcCCccccCc
Q psy8111           6 KHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYV-LRDDHPYCIKCYESV--------FANSCEECSKIIGIDS   76 (135)
Q Consensus         6 ~~C~~~i~~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~-~~~~~~~C~~c~~~~--------~~~~C~~C~~~I~~~~   76 (135)
                      ..|...|.+++|.++|++||++ ||.|+.|+.++....-+ .......|+.|..-.        ....|++|++.|. .+
T Consensus        69 ~~c~~~~~gevvsa~gktyh~~-cf~cs~ck~pf~~g~~vt~~gk~~~c~~c~~~~~~~p~~~~~ps~cagc~~~lk-~g  146 (670)
T KOG1044|consen   69 DDCRAFVEGEVVSTLGKTYHPK-CFSCSTCKSPFKSGDKVTFSGKECLCQTCSQPMPVSPAESYGPSTCAGCGEELK-NG  146 (670)
T ss_pred             cchhhhccceeEecccceeccc-cceecccCCCCCCCCeeeecchhhhhhhhcCcccCCcccccCCccccchhhhhh-cc
Confidence            5788899999999999999999 99999999999876444 445557788876531        2357999999997 67


Q ss_pred             ccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCcccCCCCCC
Q psy8111          77 KDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEIFK  134 (135)
Q Consensus        77 ~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I~  134 (135)
                      +.+.|+++.||..||+|..|+..|.++ |+..+|.|||+.+|.++|+.+|..|.+.|.
T Consensus       147 q~llald~qwhv~cfkc~~c~~vL~ge-y~skdg~pyce~dy~~~fgvkc~~c~~fis  203 (670)
T KOG1044|consen  147 QALLALDKQWHVSCFKCKSCSAVLNGE-YMSKDGVPYCEKDYQAKFGVKCEECEKFIS  203 (670)
T ss_pred             ceeeeeccceeeeeeehhhhcccccce-eeccCCCcchhhhhhhhcCeehHHhhhhhh
Confidence            889999999999999999999999876 889999999999999999999999998874

>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=99.69  E-value=2.4e-17  Score=94.14  Aligned_cols=58  Identities=40%  Similarity=0.844  Sum_probs=53.1

Q ss_pred             hhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhc
Q psy8111          65 CEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQF  122 (135)
Q Consensus        65 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~  122 (135)
                      |++|+++|.+.+.++.+.|+.||++||+|+.|+++|.++.++..+++|||+.||.++|
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            7889999986666667999999999999999999999888999999999999999876

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 ....

>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=99.64  E-value=1.3e-16  Score=91.08  Aligned_cols=56  Identities=27%  Similarity=0.504  Sum_probs=51.2

Q ss_pred             ccccCccccccce--eeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhc
Q psy8111           5 VKHQDKSFREDYN--KLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVF   61 (135)
Q Consensus         5 C~~C~~~i~~~~i--~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~   61 (135)
                      |.+|+++|.+..+  .++|+.||++ ||+|+.|+++|.+..|+..+|++||++||.++|
T Consensus         1 C~~C~~~I~~~~~~~~~~~~~~H~~-Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~f   58 (58)
T PF00412_consen    1 CARCGKPIYGTEIVIKAMGKFWHPE-CFKCSKCGKPLNDGDFYEKDGKPYCKDCYQKRF   58 (58)
T ss_dssp             BTTTSSBESSSSEEEEETTEEEETT-TSBETTTTCBTTTSSEEEETTEEEEHHHHHHHT
T ss_pred             CCCCCCCccCcEEEEEeCCcEEEcc-ccccCCCCCccCCCeeEeECCEEECHHHHhhhC
Confidence            7899999997553  5999999999 999999999999988999999999999998764

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 ....

>KOG1700|consensus

Probab=99.51  E-value=3.6e-15  Score=104.83  Aligned_cols=119  Identities=23%  Similarity=0.531  Sum_probs=102.5

Q ss_pred             cccccccCccccc-cceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcC------------------
Q psy8111           2 ESAVKHQDKSFRE-DYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFA------------------   62 (135)
Q Consensus         2 ~~~C~~C~~~i~~-~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~------------------   62 (135)
                      -..|.+|++.+.- +.+...|..||.. ||+|..|+..|+...+..+++.+||..+|...++                  
T Consensus         7 ~~kc~~c~k~vy~~e~~~~~g~~~hk~-c~~c~~~~k~l~~~~~~~~e~~~yc~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (200)
T KOG1700|consen    7 TDKCNACGKTVYFVEKVQKDGVDFHKE-CFKCEKCKKTLTLSGYSEHEGVPYCKNCHVAQFGPKGGGFGKGFQKAGGLGK   85 (200)
T ss_pred             cchhhhccCcchHHHHHhccCcchhhh-HHhccccccccccccccccccccccccchHhhhCcccccccccccccCCCCc
Confidence            3569999999984 5567899999999 9999999999999889999999999996554433                  


Q ss_pred             -----------------------CchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHh
Q psy8111          63 -----------------------NSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYD  119 (135)
Q Consensus        63 -----------------------~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~  119 (135)
                                             ..|.+|++.+++ .+.+...+..||..||+|+.|+..|....+....+.+||..++.
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~g~~~~c~~c~k~vy~-~Ek~~~~~~~~hk~cfrc~~~~~~ls~~~~~~~~g~l~~~~~~~  164 (200)
T KOG1700|consen   86 DGKSLNESKPNQSAKFQVFAGEKEKCARCQKTVYP-LEKVTGNGLEFHKSCFRCTHCGKKLSPKNYAALEGVLYCKHHFA  164 (200)
T ss_pred             ccccccccccccchhHHhhhccccccccccceeee-hHHHhhhhhhhhhhheeecccccccCCcchhhcCCccccchhhh
Confidence                                   479999999985 44577789999999999999999999999999999999988876


Q ss_pred             hhc
Q psy8111         120 AQF  122 (135)
Q Consensus       120 ~~~  122 (135)
                      .++
T Consensus       165 ~~~  167 (200)
T KOG1700|consen  165 QLF  167 (200)
T ss_pred             eee
Confidence            654

>KOG4577|consensus

Probab=99.46  E-value=2.5e-15  Score=108.44  Aligned_cols=78  Identities=29%  Similarity=0.689  Sum_probs=69.7

Q ss_pred             chhhhcCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCcccCCCCCCC
Q psy8111          56 CYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEIFKA  135 (135)
Q Consensus        56 c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I~~  135 (135)
                      ++...-.++|++|.+.|. +..++.++++.||..|++|+.|..+|.+. .+.+++.+||+++|.++|++||+.|+++|.|
T Consensus        27 df~~~eip~CagC~q~Il-DrFilKvl~R~wHs~CLkCs~C~~qL~dr-CFsR~~s~yCkedFfKrfGTKCsaC~~GIpP  104 (383)
T KOG4577|consen   27 DFSNVEIPICAGCDQHIL-DRFILKVLDRHWHSSCLKCSDCHDQLADR-CFSREGSVYCKEDFFKRFGTKCSACQEGIPP  104 (383)
T ss_pred             cccccccccccchHHHHH-HHHHHHHHhhhhhhhhcchhhhhhHHHHH-HhhcCCceeehHHHHHHhCCcchhhcCCCCh
Confidence            344445689999999997 67778999999999999999999999775 6689999999999999999999999999986

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

Probab=98.98  E-value=2.7e-10  Score=59.30  Aligned_cols=38  Identities=39%  Similarity=0.756  Sum_probs=33.5

Q ss_pred             chhhcCCccccCcccceeCCccccccccccccccccCC
Q psy8111          64 SCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLV  101 (135)
Q Consensus        64 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~  101 (135)
                      +|.+|+++|.+.+..+.+.++.||++||+|..|+++|.
T Consensus         1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L~   38 (39)
T smart00132        1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPLG   38 (39)
T ss_pred             CccccCCcccCCcEEEEeCCccccccCCCCcccCCcCc
Confidence            58899999975447788999999999999999999985

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.

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

Probab=98.91  E-value=7.6e-10  Score=57.57  Aligned_cols=36  Identities=22%  Similarity=0.235  Sum_probs=32.8

Q ss_pred             cccccCccccc--cceeeCCCcccCCCCeeccccCCccC
Q psy8111           4 AVKHQDKSFRE--DYNKLGGKDRGSGQHFCCWQCDESLT   40 (135)
Q Consensus         4 ~C~~C~~~i~~--~~i~a~~~~~H~~~cf~C~~C~~~l~   40 (135)
                      .|.+|+++|.+  ..+.++++.||++ ||+|..|+.+|.
T Consensus         1 ~C~~C~~~i~~~~~~~~~~~~~~H~~-Cf~C~~C~~~L~   38 (39)
T smart00132        1 KCAGCGKPIRGGELVLRALGKVWHPE-CFKCSKCGKPLG   38 (39)
T ss_pred             CccccCCcccCCcEEEEeCCcccccc-CCCCcccCCcCc
Confidence            48899999997  5688999999999 999999999986

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.

>KOG0490|consensus

Probab=98.26  E-value=1.5e-07  Score=67.37  Aligned_cols=112  Identities=20%  Similarity=0.385  Sum_probs=91.1

Q ss_pred             ccCccccccc-eeeCCCcccCCCCeeccccCCccC-CCceEeECCeeeccCchhh--hcCCchhhcCCccccCcccceeC
Q psy8111           7 HQDKSFREDY-NKLGGKDRGSGQHFCCWQCDESLT-GQRYVLRDDHPYCIKCYES--VFANSCEECSKIIGIDSKDLSYK   82 (135)
Q Consensus         7 ~C~~~i~~~~-i~a~~~~~H~~~cf~C~~C~~~l~-~~~~~~~~~~~~C~~c~~~--~~~~~C~~C~~~I~~~~~~~~~~   82 (135)
                      .|+..|.|++ +.+.+..||.. |..|..|...|. ....+.++|..||..+|..  .+..+|.+|...+...+++..+.
T Consensus         1 ~~~~~~~~~~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~g~~~~~~d~~~~~~~~~rr~rt~~~~~ql~~ler~f   79 (235)
T KOG0490|consen    1 GCGRQILDRYLLRVLDRYWHAS-CLKCAECDNPLGVGDTCFSKDGSIYCKRDYQREFKFSKRCARCKFTISQLDELERAF   79 (235)
T ss_pred             CCCccccchHHhhcccHHHHHH-HHhhhhhcchhccCCCcccCCCcccccccchhhhhccccccCCCCCcCHHHHHHHhh
Confidence            3778888876 67789999999 999999999997 2244444999999999998  77889999999997778888888


Q ss_pred             CccccccccccccccccCCC-CCeeeeC-CcccCHHhHhh
Q psy8111          83 DKHWHEACFSCSKCRQSLVD-KQFGSKS-EKIYCGNCYDA  120 (135)
Q Consensus        83 ~~~~H~~Cf~C~~C~~~l~~-~~~~~~~-~~~~C~~c~~~  120 (135)
                      .+. |..||.|..|...+.+ ..+.+.+ -+..+.+.+.+
T Consensus        80 ~~~-h~Pd~~~r~~la~~~~~~e~rVqvwFqnrrak~r~~  118 (235)
T KOG0490|consen   80 EKV-HLPCFACRECLALLLTGDEFRVQVWFQNRRAKDRKE  118 (235)
T ss_pred             cCC-CcCccchHHHHhhcCCCCeeeeehhhhhhcHhhhhh
Confidence            888 9999999999887754 3555554 48888877754

>KOG1700|consensus

Probab=98.07  E-value=1.2e-06  Score=61.78  Aligned_cols=63  Identities=27%  Similarity=0.704  Sum_probs=54.1

Q ss_pred             CCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCC
Q psy8111          62 ANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASR  125 (135)
Q Consensus        62 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~  125 (135)
                      ..+|.+|++.++..+ .+...|..||+.||+|..|...|....+...++.+||+.++..+++++
T Consensus         7 ~~kc~~c~k~vy~~e-~~~~~g~~~hk~c~~c~~~~k~l~~~~~~~~e~~~yc~~~~~~~~~~~   69 (200)
T KOG1700|consen    7 TDKCNACGKTVYFVE-KVQKDGVDFHKECFKCEKCKKTLTLSGYSEHEGVPYCKNCHVAQFGPK   69 (200)
T ss_pred             cchhhhccCcchHHH-HHhccCcchhhhHHhccccccccccccccccccccccccchHhhhCcc
Confidence            468999999997544 455889999999999999999999888989999999999877777653

>KOG1702|consensus

Probab=97.77  E-value=2.7e-06  Score=59.45  Aligned_cols=61  Identities=31%  Similarity=0.647  Sum_probs=52.4

Q ss_pred             CchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCC
Q psy8111          63 NSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFAS  124 (135)
Q Consensus        63 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~  124 (135)
                      +.+..|++.++|.+ .+..+++.||..||+|..|+.+|.-..+...+.+|||..+|.++.++
T Consensus         5 ~n~~~cgk~vYPvE-~v~cldk~whk~cfkce~c~mtlnmKnyKgy~kkpycn~hYpkq~at   65 (264)
T KOG1702|consen    5 CNREDCGKTVYPVE-EVKCLDKVWHKQCFKCEVCGMTLNMKNYKGYDKKPYCNPHYPKQVAT   65 (264)
T ss_pred             chhhhhccccccHH-HHhhHHHHHHHHhheeeeccCChhhhhccccccCCCcCcccccceee
Confidence            45677889888654 57788999999999999999999988888899999999999887653

>KOG1702|consensus

Probab=97.23  E-value=3e-05  Score=54.32  Aligned_cols=59  Identities=24%  Similarity=0.284  Sum_probs=50.7

Q ss_pred             ccccccCccccc-cceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcC
Q psy8111           3 SAVKHQDKSFRE-DYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFA   62 (135)
Q Consensus         3 ~~C~~C~~~i~~-~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~   62 (135)
                      -.+..|++.+.. +-+.-+++.||.. ||+|..|+.+|.-..+-..+.++||..+|.+..+
T Consensus         5 ~n~~~cgk~vYPvE~v~cldk~whk~-cfkce~c~mtlnmKnyKgy~kkpycn~hYpkq~a   64 (264)
T KOG1702|consen    5 CNREDCGKTVYPVEEVKCLDKVWHKQ-CFKCEVCGMTLNMKNYKGYDKKPYCNPHYPKQVA   64 (264)
T ss_pred             chhhhhccccccHHHHhhHHHHHHHH-hheeeeccCChhhhhccccccCCCcCccccccee
Confidence            357889999884 6688899999999 9999999999987778889999999999976543

>KOG0490|consensus

Probab=96.19  E-value=0.0016  Score=46.51  Aligned_cols=65  Identities=32%  Similarity=0.759  Sum_probs=53.1

Q ss_pred             cCCccccCcccceeCCccccccccccccccccCC--CCCeeeeCCcccCHHhHhh--hcCCCcccCCCCCC
Q psy8111          68 CSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLV--DKQFGSKSEKIYCGNCYDA--QFASRCDGCSEIFK  134 (135)
Q Consensus        68 C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~--~~~~~~~~~~~~C~~c~~~--~~~~~C~~C~~~I~  134 (135)
                      |+..|. +...+.+.+..||..|..|..|...+.  ...|.. +|..||...+.+  .+..+|.+|...|.
T Consensus         2 ~~~~~~-~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~~d~~~~~~~~~rr~rt~~~~~   70 (235)
T KOG0490|consen    2 CGRQIL-DRYLLRVLDRYWHASCLKCAECDNPLGVGDTCFSK-DGSIYCKRDYQREFKFSKRCARCKFTIS   70 (235)
T ss_pred             CCcccc-chHHhhcccHHHHHHHHhhhhhcchhccCCCcccC-CCcccccccchhhhhccccccCCCCCcC
Confidence            556664 445566779999999999999999997  445655 999999999998  88899999987763

>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B

Probab=93.05  E-value=0.067  Score=30.77  Aligned_cols=43  Identities=26%  Similarity=0.541  Sum_probs=21.6

Q ss_pred             cccccccccCCCCCeeeeCCcccCHHhHhhhcCCCcccCCCCC
Q psy8111          91 FSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEIF  133 (135)
Q Consensus        91 f~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I  133 (135)
                      .+|+.|...|...--...=+..||..|..+.++..|..|+.|-
T Consensus         8 LrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~~CPvC~~Pa   50 (65)
T PF14835_consen    8 LRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGSECPVCHTPA   50 (65)
T ss_dssp             TS-SSS-S--SS-B---SSS--B-TTTGGGGTTTB-SSS--B-
T ss_pred             cCCcHHHHHhcCCceeccCccHHHHHHhHHhcCCCCCCcCChH
Confidence            5677887776543222334788999999998899999998764

>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B

Probab=91.26  E-value=0.19  Score=28.91  Aligned_cols=47  Identities=19%  Similarity=0.438  Sum_probs=24.5

Q ss_pred             eeccccCCccCCCceEeECCeeeccCchhhhcCCchhhcCCccccCc
Q psy8111          30 FCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDS   76 (135)
Q Consensus        30 f~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I~~~~   76 (135)
                      ++|+.|...|........=+..||..|....++..|+.|..|-+..+
T Consensus         8 LrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~~CPvC~~Paw~qD   54 (65)
T PF14835_consen    8 LRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGSECPVCHTPAWIQD   54 (65)
T ss_dssp             TS-SSS-S--SS-B---SSS--B-TTTGGGGTTTB-SSS--B-S-SS
T ss_pred             cCCcHHHHHhcCCceeccCccHHHHHHhHHhcCCCCCCcCChHHHHH
Confidence            67888988887643445557889999998888889999999986433

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=90.77  E-value=0.38  Score=25.26  Aligned_cols=39  Identities=18%  Similarity=0.584  Sum_probs=28.0

Q ss_pred             cccccccCC-CCCeeee-CCcccCHHhHhhhc--CCCcccCCC
Q psy8111          93 CSKCRQSLV-DKQFGSK-SEKIYCGNCYDAQF--ASRCDGCSE  131 (135)
Q Consensus        93 C~~C~~~l~-~~~~~~~-~~~~~C~~c~~~~~--~~~C~~C~~  131 (135)
                      |..|...+. ...+.+. =|..+|..|..+..  ..+|..|++
T Consensus         2 C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    2 CNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            566777773 2334444 49999999998888  678888864

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=90.76  E-value=0.18  Score=28.03  Aligned_cols=30  Identities=17%  Similarity=0.398  Sum_probs=19.9

Q ss_pred             CCchhhcCCccccCccccee--CCcccccccc
Q psy8111          62 ANSCEECSKIIGIDSKDLSY--KDKHWHEACF   91 (135)
Q Consensus        62 ~~~C~~C~~~I~~~~~~~~~--~~~~~H~~Cf   91 (135)
                      +.+|..|+++|.+.+.+|.-  =+..||.+|+
T Consensus         5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~   36 (54)
T PF14446_consen    5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCW   36 (54)
T ss_pred             CccChhhCCcccCCCCEEECCCCCCcccHHHH
Confidence            46888888888644444442  3567777776

>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=89.30  E-value=0.2  Score=31.19  Aligned_cols=29  Identities=21%  Similarity=0.334  Sum_probs=15.8

Q ss_pred             CchhhcCCccccCcccceeCCcccccccc
Q psy8111          63 NSCEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        63 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      ..|+.|+++|.....++...|..+|..|+
T Consensus        79 ~~C~vC~k~l~~~~f~~~p~~~v~H~~C~  107 (109)
T PF10367_consen   79 TKCSVCGKPLGNSVFVVFPCGHVVHYSCI  107 (109)
T ss_pred             CCccCcCCcCCCceEEEeCCCeEEecccc
Confidence            46777777775333233334555666664

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 [].

>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=88.96  E-value=0.18  Score=25.76  Aligned_cols=26  Identities=19%  Similarity=0.381  Sum_probs=15.6

Q ss_pred             hhhcCCccccCcccceeCCccccccc
Q psy8111          65 CEECSKIIGIDSKDLSYKDKHWHEAC   90 (135)
Q Consensus        65 C~~C~~~I~~~~~~~~~~~~~~H~~C   90 (135)
                      |.-|+++|.....++...++.|+.-|
T Consensus         1 Cd~CG~~I~~eP~~~k~~~~~y~fCC   26 (37)
T PF08394_consen    1 CDYCGGEITGEPIVVKIGNKVYYFCC   26 (37)
T ss_pred             CCccCCcccCCEEEEEECCeEEEEEC
Confidence            45677777544445566777776433

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

>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional

Probab=87.79  E-value=0.53  Score=26.57  Aligned_cols=49  Identities=22%  Similarity=0.666  Sum_probs=26.3

Q ss_pred             CCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCcccCC
Q psy8111          62 ANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCS  130 (135)
Q Consensus        62 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~  130 (135)
                      .++|..|+..|.+.+..+.          |.|..|+..+...          |..|-.....-+|..|+
T Consensus         7 ~~~CtSCg~~i~~~~~~~~----------F~CPnCG~~~I~R----------C~~CRk~~~~Y~CP~CG   55 (59)
T PRK14890          7 PPKCTSCGIEIAPREKAVK----------FLCPNCGEVIIYR----------CEKCRKQSNPYTCPKCG   55 (59)
T ss_pred             CccccCCCCcccCCCccCE----------eeCCCCCCeeEee----------chhHHhcCCceECCCCC
Confidence            3567778777754332221          6677776653221          55554443344566654

>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]

Probab=83.48  E-value=0.99  Score=25.51  Aligned_cols=29  Identities=21%  Similarity=0.625  Sum_probs=18.0

Q ss_pred             CCchhhcCCccccCcccceeCCccccccccccccccccC
Q psy8111          62 ANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSL  100 (135)
Q Consensus        62 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l  100 (135)
                      .+.|.+|+..|.+.+..+.          |.|..|+..+
T Consensus         9 ~~~CtSCg~~i~p~e~~v~----------F~CPnCGe~~   37 (61)
T COG2888           9 PPVCTSCGREIAPGETAVK----------FPCPNCGEVE   37 (61)
T ss_pred             CceeccCCCEeccCCceeE----------eeCCCCCcee
Confidence            4678888888755444332          6677777443

>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27)

Probab=83.26  E-value=1  Score=23.53  Aligned_cols=22  Identities=32%  Similarity=0.832  Sum_probs=15.4

Q ss_pred             eccccCCccCCCceEeECCeeeccCc
Q psy8111          31 CCWQCDESLTGQRYVLRDDHPYCIKC   56 (135)
Q Consensus        31 ~C~~C~~~l~~~~~~~~~~~~~C~~c   56 (135)
                      .|..|+.||-    -.++|+.||..|
T Consensus        19 ~Cp~C~~PL~----~~k~g~~~Cv~C   40 (41)
T PF06677_consen   19 HCPDCGTPLM----RDKDGKIYCVSC   40 (41)
T ss_pred             ccCCCCCeeE----EecCCCEECCCC
Confidence            4667777763    357888888766

It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].

>smart00504 Ubox Modified RING finger domain

Probab=82.88  E-value=1.8  Score=24.10  Aligned_cols=43  Identities=12%  Similarity=0.102  Sum_probs=27.9

Q ss_pred             cccccccccCCCCCeeeeCCcccCHHhHhhhc--CCCcccCCCCCC
Q psy8111          91 FSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQF--ASRCDGCSEIFK  134 (135)
Q Consensus        91 f~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~--~~~C~~C~~~I~  134 (135)
                      |.|..|+..+.+ ......|..||+.+..+.+  ...|..|++++.
T Consensus         2 ~~Cpi~~~~~~~-Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~   46 (63)
T smart00504        2 FLCPISLEVMKD-PVILPSGQTYERRAIEKWLLSHGTDPVTGQPLT   46 (63)
T ss_pred             cCCcCCCCcCCC-CEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence            456777777655 3555667888888876543  356777777663

Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.

>COG2191 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]

Probab=82.76  E-value=0.6  Score=32.99  Aligned_cols=31  Identities=29%  Similarity=0.604  Sum_probs=26.6

Q ss_pred             eeccccCCccCCCceEeECCeeeccCchhhh
Q psy8111          30 FCCWQCDESLTGQRYVLRDDHPYCIKCYESV   60 (135)
Q Consensus        30 f~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~   60 (135)
                      -+|+.|+..+....-...+|+++|..|+.+.
T Consensus       173 v~C~kCGE~~~e~~~~~~ng~~vC~~C~~~~  203 (206)
T COG2191         173 VRCSKCGELFMEPRAVVLNGKPVCKPCAEKK  203 (206)
T ss_pred             eeccccCcccccchhhhcCCceecccccccc
Confidence            4789999999887777899999999998754

>COG2191 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]

Probab=81.24  E-value=0.57  Score=33.12  Aligned_cols=31  Identities=23%  Similarity=0.513  Sum_probs=27.1

Q ss_pred             cccccccccCCCCCeeeeCCcccCHHhHhhh
Q psy8111          91 FSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQ  121 (135)
Q Consensus        91 f~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~  121 (135)
                      -+|+.|+..+....-...||+++|..|+.+.
T Consensus       173 v~C~kCGE~~~e~~~~~~ng~~vC~~C~~~~  203 (206)
T COG2191         173 VRCSKCGELFMEPRAVVLNGKPVCKPCAEKK  203 (206)
T ss_pred             eeccccCcccccchhhhcCCceecccccccc
Confidence            5799999999887788889999999999754

>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)

Probab=80.25  E-value=1.6  Score=21.90  Aligned_cols=40  Identities=18%  Similarity=0.553  Sum_probs=22.0

Q ss_pred             cccccccCCCCCeeee-CCcccCHHhHhhhc---CCCcccCCCCC
Q psy8111          93 CSKCRQSLVDKQFGSK-SEKIYCGNCYDAQF---ASRCDGCSEIF  133 (135)
Q Consensus        93 C~~C~~~l~~~~~~~~-~~~~~C~~c~~~~~---~~~C~~C~~~I  133 (135)
                      |..|...+.. .+... =+..+|..|..+.+   ..+|..|+..+
T Consensus         2 C~iC~~~~~~-~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           2 CPICLEEFRE-PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCcCchhhhC-ceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            4455555522 22222 46677777775443   34688887653

>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A

Probab=80.22  E-value=1  Score=24.15  Aligned_cols=42  Identities=17%  Similarity=0.478  Sum_probs=27.5

Q ss_pred             ccccccccCCCCCeeeeCCcc-cCHHhHhhh--cCCCcccCCCCCC
Q psy8111          92 SCSKCRQSLVDKQFGSKSEKI-YCGNCYDAQ--FASRCDGCSEIFK  134 (135)
Q Consensus        92 ~C~~C~~~l~~~~~~~~~~~~-~C~~c~~~~--~~~~C~~C~~~I~  134 (135)
                      .|..|.....+ .....=|.. +|..|+.+.  ...+|..|.++|.
T Consensus         4 ~C~iC~~~~~~-~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    4 ECPICFENPRD-VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             B-TTTSSSBSS-EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             CCccCCccCCc-eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            45666665433 233334667 999999876  4689999999885

...

>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[]

Probab=80.05  E-value=1.1  Score=22.61  Aligned_cols=25  Identities=24%  Similarity=0.498  Sum_probs=18.7

Q ss_pred             eeccccCCccCCCceEeECCeeeccCchh
Q psy8111          30 FCCWQCDESLTGQRYVLRDDHPYCIKCYE   58 (135)
Q Consensus        30 f~C~~C~~~l~~~~~~~~~~~~~C~~c~~   58 (135)
                      +.|..|+..    .|...+|..||.+|..
T Consensus         9 ~~C~~C~~~----~~~~~dG~~yC~~cG~   33 (36)
T PF11781_consen    9 EPCPVCGSR----WFYSDDGFYYCDRCGH   33 (36)
T ss_pred             CcCCCCCCe----EeEccCCEEEhhhCce
Confidence            447888665    4778999999987754

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	135
2ehe_A	82	Solution Structure Of The First Lim Domain From Hum		7e-15
2cup_A	101	Solution Structure Of The Skeletal Muscle Lim-Prote		1e-11
2xqn_T	126	Complex Of The 2nd And 3rd Lim Domains Of Tes With		4e-11
2cuq_A	80	Solution Structure Of Second Lim Domain From Human		8e-10
1x4k_A	72	Solution Structure Of Lim Domain In Lim-Protein 3 L		1e-08
1x63_A	82	Solution Structure Of The Second Lim Domain Of Skel		7e-08
2egq_A	77	Solution Structure Of The Fourth Lim Domain From Hu		4e-06
2d8z_A	70	Solution Structure Of The Third Lim Domain Of Four		7e-06
1wyh_A	72	Solution Structure Of The Lim Domain From Human Ske		1e-05
1x68_A	76	Solution Structures Of The C-Terminal Lim Domain Of		1e-05
1qli_A	113	Quail Cysteine And Glycine-Rich Protein, Nmr, 15 Mi		3e-05
3mmk_A	169	The Structural Basis For Partial Redundancy In A Cl		3e-05
1b8t_A	192	Solution Structure Of The Chicken Crp1 Length = 192		4e-05
1ctl_A	85	Structure Of The Carboxy-Terminal Lim Domain From T		4e-05
2cur_A	69	Solution Structure Of Skeletal Muscle Lim-Protein 1		5e-05
1cxx_A	113	Mutant R122a Of Quail Cysteine And Glycine-Rich Pro		5e-05
2rgt_A	169	Crystal Structure Of Lhx3 Lim Domains 1 And 2 With		1e-04
2jtn_A	182	Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Compl		1e-04
1x4l_A	72	Solution Structure Of Lim Domain In Four And A Half		2e-04

>pdb|2EHE|A Chain A, Solution Structure Of The First Lim Domain From Human Four And A Half Lim Domains Protein 3 Length = 82

Iteration: 1
 Score = 75.9 bits (185), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 31/70 (44%), Positives = 51/70 (72%)
Query: 55  KCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYC 114
            CY++ FAN+C EC ++IG DS++L Y+D+H+HE CF C +C++SL D+ F  +  ++ C
Sbjct: 8   PCYDNTFANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELLC 67
Query: 115 GNCYDAQFAS 124
            +CY + F+S
Sbjct: 68  NDCYCSAFSS 77

>pdb|2CUP|A Chain A, Solution Structure Of The Skeletal Muscle Lim-Protein 1 Length = 101

Iteration: 1
 Score = 64.7 bits (156), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 29/74 (39%), Positives = 44/74 (59%)
Query: 62  ANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQ 121
           ++ C EC K IG DSK++ YK++ WH+ CF C+KC   L ++ F +K  KI C  C   +
Sbjct: 5   SSGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTRE 64
Query: 122 FASRCDGCSEIFKA 135
            + +C GC +   A
Sbjct: 65  DSPKCKGCFKAIVA 78

>pdb|2XQN|T Chain T, Complex Of The 2nd And 3rd Lim Domains Of Tes With The Evh1 Domain Of Mena And The N-Terminal Domain Of Actin-Like Protein Arp7a Length = 126

Iteration: 1
 Score = 63.5 bits (153), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 30/90 (33%), Positives = 48/90 (53%), Gaps = 2/90 (2%)
Query: 28  QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWH 87
           +HFCC+ CD  L G+ YV+ +D P C  CY    A  C+ C   I  + + ++Y +  WH
Sbjct: 29  KHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVVCQGCHNAIDPEVQRVTYNNFSWH 88
Query: 88  EA--CFSCSKCRQSLVDKQFGSKSEKIYCG 115
            +  CF CS C + L+ ++F      ++C 
Sbjct: 89  ASTECFLCSCCSKCLIGQKFMPVEGMVFCS 118

>pdb|2CUQ|A Chain A, Solution Structure Of Second Lim Domain From Human Skeletal Muscle Lim-Protein 2 Length = 80

Iteration: 1
 Score = 58.9 bits (141), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 27/70 (38%), Positives = 38/70 (54%), Gaps = 2/70 (2%)
Query: 55  KCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYC 114
            CYE+ FA  C  CSK +      ++Y+D+ WH  C  C+ C+  L  +QF S+ E  YC
Sbjct: 8   PCYENKFAPRCARCSKTL--TQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYC 65
Query: 115 GNCYDAQFAS 124
             C+   FAS
Sbjct: 66  VACFGELFAS 75

>pdb|1X4K|A Chain A, Solution Structure Of Lim Domain In Lim-Protein 3 Length = 72

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 24/63 (38%), Positives = 36/63 (57%)
Query: 62  ANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQ 121
           ++ C+EC K I   ++ + YK   WHE CF C +C+Q +  K F  K  + +C  CY+ Q
Sbjct: 5   SSGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQ 64
Query: 122 FAS 124
            AS
Sbjct: 65  HAS 67

>pdb|1X63|A Chain A, Solution Structure Of The Second Lim Domain Of Skeletal Muscle Lim Protein 1 Length = 82

Iteration: 1
 Score = 52.8 bits (125), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 25/80 (31%), Positives = 40/80 (50%), Gaps = 12/80 (15%)
Query: 45  VLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQ 104
             R+D P C  C++++ A              +++ YK   WH+ CF+CS C+Q +    
Sbjct: 10  TTREDSPKCKGCFKAIVAGD------------QNVEYKGTVWHKDCFTCSNCKQVIGTGS 57
Query: 105 FGSKSEKIYCGNCYDAQFAS 124
           F  K E  YC  C++ +FAS
Sbjct: 58  FFPKGEDFYCVTCHETKFAS 77

>pdb|2EGQ|A Chain A, Solution Structure Of The Fourth Lim Domain From Human Four And A Half Lim Domains 1 Length = 77

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 23/65 (35%), Positives = 36/65 (55%), Gaps = 3/65 (4%)
Query: 56  CYESVFANSCEECSKII---GIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKI 112
           CY++  A  C  C   I   G  S  ++Y+ + WH+ CF C KC  +L +K+F    E++
Sbjct: 9   CYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQV 68
Query: 113 YCGNC 117
           YC +C
Sbjct: 69  YCPDC 73

>pdb|2D8Z|A Chain A, Solution Structure Of The Third Lim Domain Of Four And A Half Lim Domains Protein 2 (Fhl-2) Length = 70

Iteration: 1
 Score = 45.8 bits (107), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 20/63 (31%), Positives = 39/63 (61%), Gaps = 2/63 (3%)
Query: 62  ANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQ 121
           ++ C +C K I   +  ++Y+++ WH+ CF C+ CR+ L  ++F ++ +  YC NC+   
Sbjct: 5   SSGCVQCKKPI--TTGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDL 62
Query: 122 FAS 124
           +AS
Sbjct: 63  YAS 65

>pdb|1WYH|A Chain A, Solution Structure Of The Lim Domain From Human Skeletal Muscle Lim-Protein 2 Length = 72

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 28/55 (50%)
Query: 70  KIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFAS 124
           + +   S+ L Y  + WHE CF CS C Q L  + F       YC  CY+ +FAS
Sbjct: 13  ETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFAS 67

>pdb|1X68|A Chain A, Solution Structures Of The C-Terminal Lim Domain Of Human Fhl5 Protein Length = 76

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 22/58 (37%), Positives = 35/58 (60%), Gaps = 2/58 (3%)
Query: 62  ANSCEECSKIIG--IDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNC 117
           ++ C  CSK I     +K + ++D  WH  CF+C KC  SLV K F +++++I+C  C
Sbjct: 5   SSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKC 62

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 34/73 (46%), Gaps = 13/73 (17%)
Query: 53  CIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKI 112
           C +C +SV+A       K+IG          K WH+ CF C+KC +SL       K  +I
Sbjct: 39  CSRCGDSVYA-----AEKVIGAG--------KPWHKNCFRCAKCGKSLESTTLTEKEGEI 85
Query: 113 YCGNCYDAQFASR 125
           YC  CY   F  +
Sbjct: 86  YCKGCYAKNFGPK 98

>pdb|3MMK|A Chain A, The Structural Basis For Partial Redundancy In A Class Of Transcription Factors, The Lim-Homeodomain Proteins, In Neural Cell Type Specification Length = 169

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 21/67 (31%), Positives = 37/67 (55%), Gaps = 2/67 (2%)
Query: 65  CEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFAS 124
           C  C++ I +D   L   D+HWH +C  C+ C+  L D+ F S++  +YC   +  +F +
Sbjct: 9   CAGCNQHI-LDKFILKVLDRHWHSSCLKCADCQMQLADRCF-SRAGSVYCKEDFFKRFGT 66
Query: 125 RCDGCSE 131
           +C  C +
Sbjct: 67  KCTACQQ 73

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 24/73 (32%), Positives = 35/73 (47%), Gaps = 13/73 (17%)
Query: 53  CIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKI 112
           C +C ++V+A       K+IG          K WH++CF C+KC +SL       K  +I
Sbjct: 118 CPRCGQAVYAAE-----KVIGAG--------KSWHKSCFRCAKCGKSLESTTLADKDGEI 164
Query: 113 YCGNCYDAQFASR 125
           YC  CY   F  +
Sbjct: 165 YCKGCYAKNFGPK 177

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 24/73 (32%), Positives = 35/73 (47%), Gaps = 13/73 (17%)
Query: 53  CIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKI 112
           C +C ++V+A       K+IG          K WH++CF C+KC +SL       K  +I
Sbjct: 11  CPRCGQAVYAAE-----KVIGAG--------KSWHKSCFRCAKCGKSLESTTLADKDGEI 57
Query: 113 YCGNCYDAQFASR 125
           YC  CY   F  +
Sbjct: 58  YCKGCYAKNFGPK 70

>pdb|2CUR|A Chain A, Solution Structure Of Skeletal Muscle Lim-Protein 1 Length = 69

Iteration: 1
 Score = 43.1 bits (100), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 19/57 (33%), Positives = 34/57 (59%), Gaps = 2/57 (3%)
Query: 62  ANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCY 118
           ++ C +C+K   I S  ++Y+D+ WH  CF C  C + L  ++F +  ++ YC +CY
Sbjct: 5   SSGCVKCNK--AITSGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCY 59

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 25/73 (34%), Positives = 33/73 (45%), Gaps = 13/73 (17%)
Query: 53  CIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKI 112
           C  C +SV+A       K+IG          K WH+ CF C+KC +SL       K  +I
Sbjct: 39  CSACGDSVYA-----AEKVIGAG--------KPWHKNCFRCAKCGKSLESTTLTEKEGEI 85
Query: 113 YCGNCYDAQFASR 125
           YC  CY   F  +
Sbjct: 86  YCKGCYAKNFGPK 98

>pdb|2RGT|A Chain A, Crystal Structure Of Lhx3 Lim Domains 1 And 2 With The Binding Domain Of Isl1 Length = 169

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 34/65 (52%), Gaps = 2/65 (3%)
Query: 65  CEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFAS 124
           C  C + I +D   L   D+HWH  C  CS C   L ++ F S+ E +YC + +  +F +
Sbjct: 9   CAGCDQHI-LDRFILKALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRFGT 66
Query: 125 RCDGC 129
           +C  C
Sbjct: 67  KCAAC 71

>pdb|2JTN|A Chain A, Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Complex Length = 182

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 74  IDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGC 129
           +D   L   D+HWH  C  CS C   L ++ F S+ E +YC + +  +F ++C  C
Sbjct: 71  LDRFILKALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRFGTKCAAC 125

>pdb|1X4L|A Chain A, Solution Structure Of Lim Domain In Four And A Half Lim Domains Protein 2 Length = 72

Iteration: 1
 Score = 40.8 bits (94), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 16/42 (38%), Positives = 28/42 (66%)
Query: 76  SKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNC 117
           +K +S++++ WH  CF+C KC  SLV + F ++ + I C +C
Sbjct: 21  TKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDC 62

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	135
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	4e-30
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	7e-14
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	1e-25
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	2e-05
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	8e-25
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	4e-14
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	5e-10
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	2e-23
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	1e-16
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	2e-20
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	1e-07
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	3e-19
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	1e-18
2cuq_A	80	Four and A half LIM domains 3; structural genomics	4e-18
2cuq_A	80	Four and A half LIM domains 3; structural genomics	7e-09
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	1e-17
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	8e-09
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	2e-05
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	4e-17
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	3e-08
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	5e-17
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	2e-08
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	5e-17
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	7e-05
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	6e-17
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	1e-06
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	2e-16
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	2e-15
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	3e-11
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	1e-07
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	2e-05
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	7e-15
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	2e-08
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	8e-15
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	1e-08
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	1e-14
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	2e-05
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	3e-14
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	2e-08
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	4e-14
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	6e-06
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	6e-14
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	2e-05
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	1e-13
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	2e-06
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	4e-13
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	3e-05
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	6e-12
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	7e-12
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	5e-05
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	9e-12
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	1e-04
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	2e-11
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	7e-09
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	2e-11
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	2e-04
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	2e-11
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	9e-06
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	6e-11
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	1e-08
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	2e-10
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	1e-06
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	6e-10
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	3e-04
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	2e-09
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	5e-09
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	7e-09
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	4e-04
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	4e-08
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	7e-08
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	2e-07
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	2e-05
2cor_A	79	Pinch protein; LIM domain, particularly interestin	6e-07
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	7e-07
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	8e-04
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	5e-06
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	3e-04
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	1e-04

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

 Score =  104 bits (261), Expect = 4e-30
 Identities = 30/98 (30%), Positives = 50/98 (51%), Gaps = 2/98 (2%)

Query: 28  QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWH 87
           +HFCC+ CD  L G+ YV+ +D P C  CY    A  C+ C   I  + + ++Y +  WH
Sbjct: 29  KHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVVCQGCHNAIDPEVQRVTYNNFSWH 88

Query: 88  EA--CFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFA 123
            +  CF CS C + L+ ++F      ++C      + +
Sbjct: 89  ASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKRMS 126

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

 Score = 62.8 bits (153), Expect = 7e-14
 Identities = 17/67 (25%), Positives = 29/67 (43%), Gaps = 1/67 (1%)

Query: 65  CEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFAS 124
           C  C ++I   ++    ++++WH   F C  C   L  + +   ++K  C  CY    A 
Sbjct: 6   CAGCDELI-FSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAV 64

Query: 125 RCDGCSE 131
            C GC  
Sbjct: 65  VCQGCHN 71

>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 = 91.8 bits (228), Expect = 1e-25
 Identities = 31/79 (39%), Positives = 51/79 (64%)

Query: 49  DHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSK 108
                  CY++ FAN+C EC ++IG DS++L Y+D+H+HE CF C +C++SL D+ F  +
Sbjct: 2   SSGSSGPCYDNTFANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQ 61

Query: 109 SEKIYCGNCYDAQFASRCD 127
             ++ C +CY + F+S   
Sbjct: 62  DSELLCNDCYCSAFSSGPS 80

>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 = 39.4 bits (92), Expect = 2e-05
 Identities = 11/38 (28%), Positives = 17/38 (44%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSC 65
            F C +C  SL  + +  +D    C  CY S F++  
Sbjct: 42 GCFRCCRCQRSLADEPFTCQDSELLCNDCYCSAFSSGP 79

>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 = 92.2 bits (229), Expect = 8e-25
 Identities = 21/106 (19%), Positives = 37/106 (34%), Gaps = 3/106 (2%)

Query: 28  QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWH 87
           +   C  C   L  + +  R +  YC   +   F   C  C   I         +D  +H
Sbjct: 32  KCLKCSDCHVPLAERCFS-RGESVYCKDDFFKRFGTKCAACQLGIPPTQVVRRAQDFVYH 90

Query: 88  EACFSCSKCRQSLV--DKQFGSKSEKIYCGNCYDAQFASRCDGCSE 131
             CF+C  C++ L   D+ +  +  ++ C   Y+        G   
Sbjct: 91  LHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAKQGGSGGSGG 136

>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 = 64.5 bits (157), Expect = 4e-14
 Identities = 22/71 (30%), Positives = 34/71 (47%), Gaps = 2/71 (2%)

Query: 65  CEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFAS 124
           C  C + I +D   L   D+HWH  C  CS C   L ++ F S+ E +YC + +  +F +
Sbjct: 9   CAGCDQHI-LDRFILKALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRFGT 66

Query: 125 RCDGCSEIFKA 135
           +C  C      
Sbjct: 67  KCAACQLGIPP 77

>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 = 53.3 bits (128), Expect = 5e-10
 Identities = 11/72 (15%), Positives = 18/72 (25%), Gaps = 4/72 (5%)

Query: 28  QHFCCWQCDESLTG--QRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKH 85
             F C  C   L    + Y++ D    C   YE+             G     +      
Sbjct: 92  HCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAKQGGSGGSGGSGG--GTPMVAASPE 149

Query: 86  WHEACFSCSKCR 97
            H+     +   
Sbjct: 150 RHDGGLQANPVE 161

>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 = 86.7 bits (215), Expect = 2e-23
 Identities = 30/77 (38%), Positives = 45/77 (58%)

Query: 59  SVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCY 118
           S  ++ C EC K IG DSK++ YK++ WH+ CF C+KC   L ++ F +K  KI C  C 
Sbjct: 2   SSGSSGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCT 61

Query: 119 DAQFASRCDGCSEIFKA 135
             + + +C GC +   A
Sbjct: 62  TREDSPKCKGCFKAIVA 78

>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 = 69.4 bits (170), Expect = 1e-16
 Identities = 20/69 (28%), Positives = 31/69 (44%)

Query: 28  QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWH 87
             F C +C   L  + +V +D+   C KC     +  C+ C K I    +++ YK   WH
Sbjct: 32  TCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSPKCKGCFKAIVAGDQNVEYKGTVWH 91

Query: 88  EACFSCSKC 96
           + CFS    
Sbjct: 92  KDCFSGPSS 100

>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 = 78.6 bits (194), Expect = 2e-20
 Identities = 25/77 (32%), Positives = 37/77 (48%)

Query: 50  HPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKS 109
                KC     +  C+ C K I    +++ YK   WH+ CF+CS C+Q +    F  K 
Sbjct: 3   SGSSGKCTTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKG 62

Query: 110 EKIYCGNCYDAQFASRC 126
           E  YC  C++ +FAS  
Sbjct: 63  EDFYCVTCHETKFASGP 79

>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 = 45.4 bits (108), Expect = 1e-07
 Identities = 9/38 (23%), Positives = 18/38 (47%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSC 65
            F C  C + +    +  + +  YC+ C+E+ FA+  
Sbjct: 42 DCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKFASGP 79

>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 = 78.0 bits (192), Expect = 3e-19
 Identities = 20/96 (20%), Positives = 36/96 (37%), Gaps = 3/96 (3%)

Query: 28  QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWH 87
           +   C  C   L  + +  R +  YC   +   F   C  C   I         +D  +H
Sbjct: 86  KCLKCSDCHVPLAERCFS-RGESVYCKDDFFKRFGTKCAACQLGIPPTQVVRRAQDFVYH 144

Query: 88  EACFSCSKCRQSLV--DKQFGSKSEKIYCGNCYDAQ 121
             CF+C  C++ L   D+ +  +  ++ C   Y+  
Sbjct: 145 LHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETA 180

>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 = 76.5 bits (188), Expect = 1e-18
 Identities = 22/108 (20%), Positives = 39/108 (36%), Gaps = 2/108 (1%)

Query: 28  QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWH 87
           +     +  +                +    +     C  C + I +D   L   D+HWH
Sbjct: 26  RLITRLENTQFDAANGIDDEGGSGGHMGSGGTPEIPMCAGCDQHI-LDRFILKALDRHWH 84

Query: 88  EACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEIFKA 135
             C  CS C   L ++ F S+ E +YC + +  +F ++C  C      
Sbjct: 85  SKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRFGTKCAACQLGIPP 131

>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 = 72.0 bits (177), Expect = 4e-18
 Identities = 27/78 (34%), Positives = 38/78 (48%), Gaps = 2/78 (2%)

Query: 49  DHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSK 108
                  CYE+ FA  C  CSK +      ++Y+D+ WH  C  C+ C+  L  +QF S+
Sbjct: 2   SSGSSGPCYENKFAPRCARCSKTL--TQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSR 59

Query: 109 SEKIYCGNCYDAQFASRC 126
            E  YC  C+   FAS  
Sbjct: 60  DEDPYCVACFGELFASGP 77

>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 = 48.5 bits (116), Expect = 7e-09
 Identities = 13/38 (34%), Positives = 21/38 (55%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSC 65
          +   C  C   L GQ++  RD+ PYC+ C+  +FA+  
Sbjct: 40 ECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELFASGP 77

>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 = 73.9 bits (181), Expect = 1e-17
 Identities = 23/109 (21%), Positives = 37/109 (33%), Gaps = 5/109 (4%)

Query: 28  QHFCCWQCDESLT--GQRYVLRDDHPYCIKCYESVFANS--CEECSKIIGIDSKDLSYKD 83
           +   C  C   L   G     +     C   Y  +F NS  C  C + I      +  + 
Sbjct: 31  RCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPASELVMRAQG 90

Query: 84  KHWHEACFSCSKCRQSLVD-KQFGSKSEKIYCGNCYDAQFASRCDGCSE 131
             +H  CF+CS CR  LV   +F   +  ++C +       +       
Sbjct: 91  NVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHLNSGG 139

>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 = 50.4 bits (120), Expect = 8e-09
 Identities = 25/81 (30%), Positives = 31/81 (38%), Gaps = 5/81 (6%)

Query: 59  SVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQ--FGSKSEKIYCGN 116
           S+    C  C   I  D   L   D +WH  C  CS C+  L D      +KS  I C N
Sbjct: 2   SLSWKRCAGCGGKI-ADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRN 60

Query: 117 CYDAQF--ASRCDGCSEIFKA 135
            Y   F  +  C  C +   A
Sbjct: 61  DYIRLFGNSGACSACGQSIPA 81

>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 = 41.2 bits (96), Expect = 2e-05
 Identities = 13/88 (14%), Positives = 24/88 (27%), Gaps = 12/88 (13%)

Query: 28  QHFCCWQCDESL-TGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHW 86
           + F C  C   L  G R+   +   +C     +   N         G             
Sbjct: 96  KCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHLNSGGSGGSGGSG-------- 147

Query: 87  HEACFSCSKCRQSLVDKQFGSKSEKIYC 114
                       +L+  +FG + E++  
Sbjct: 148 ---GDVMVVGEPTLMGGEFGDEDERLIT 172

>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 = 69.7 bits (171), Expect = 4e-17
 Identities = 25/68 (36%), Positives = 37/68 (54%)

Query: 59  SVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCY 118
           S  ++ C+EC K I   ++ + YK   WHE CF C +C+Q +  K F  K  + +C  CY
Sbjct: 2   SSGSSGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCY 61

Query: 119 DAQFASRC 126
           + Q AS  
Sbjct: 62  EKQHASGP 69

>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 = 46.6 bits (111), Expect = 3e-08
 Identities = 9/38 (23%), Positives = 20/38 (52%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSC 65
            F C +C + +  + ++ +D+  +C+ CYE   A+  
Sbjct: 32 TCFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQHASGP 69

>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 = 69.3 bits (170), Expect = 5e-17
 Identities = 24/68 (35%), Positives = 33/68 (48%)

Query: 59  SVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCY 118
           S  ++ C  C + +   S+ L Y  + WHE CF CS C Q L  + F       YC  CY
Sbjct: 2   SSGSSGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCY 61

Query: 119 DAQFASRC 126
           + +FAS  
Sbjct: 62  ENKFASGP 69

>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 = 47.0 bits (112), Expect = 2e-08
 Identities = 12/38 (31%), Positives = 19/38 (50%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSC 65
            F C  C++ L  + +V      YC+ CYE+ FA+  
Sbjct: 32 HCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFASGP 69

>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 = 69.4 bits (170), Expect = 5e-17
 Identities = 23/72 (31%), Positives = 36/72 (50%), Gaps = 3/72 (4%)

Query: 50  HPYCIKCYESVFANSCEECSKII---GIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFG 106
                 CY++  A  C  C   I   G  S  ++Y+ + WH+ CF C KC  +L +K+F 
Sbjct: 3   SGSSGDCYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFV 62

Query: 107 SKSEKIYCGNCY 118
              E++YC +C 
Sbjct: 63  FHQEQVYCPDCA 74

>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 = 37.8 bits (88), Expect = 7e-05
 Identities = 9/31 (29%), Positives = 15/31 (48%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYE 58
            F C +C  +L  +R+V   +  YC  C +
Sbjct: 45 YCFHCKKCSVNLANKRFVFHQEQVYCPDCAK 75

>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 = 69.3 bits (170), Expect = 6e-17
 Identities = 18/77 (23%), Positives = 28/77 (36%), Gaps = 2/77 (2%)

Query: 50  HPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKS 109
                K + ++F+  C  C++ +      LS  D  WH  CF C  C  S     F    
Sbjct: 3   SGSSGKDFLAMFSPKCGGCNRPV--LENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELD 60

Query: 110 EKIYCGNCYDAQFASRC 126
            + +C   Y  +  S  
Sbjct: 61  GRPFCELHYHHRRGSGP 77

>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 = 42.7 bits (101), Expect = 1e-06
 Identities = 8/38 (21%), Positives = 13/38 (34%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSC 65
          + F C  C  S +   +   D  P+C   Y     +  
Sbjct: 40 ECFVCGDCFTSFSTGSFFELDGRPFCELHYHHRRGSGP 77

>2iyb_E Testin, TESS, TES; LIM domain, SH3-binding, tumour supressor LIM domain EVH1 DO cell motility, phosphorylation, cytoskeleton; 2.35A {Homo sapiens} Length = 65

 Score = 68.0 bits (166), Expect = 2e-16
 Identities = 15/65 (23%), Positives = 29/65 (44%), Gaps = 2/65 (3%)

Query: 61  FANSCEECSKIIGIDSKDLSYKDKHWH--EACFSCSKCRQSLVDKQFGSKSEKIYCGNCY 118
            A  C+ C   I  + + ++Y +  WH    CF CS C + L+ ++F      ++C    
Sbjct: 1   HAVVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVEC 60

Query: 119 DAQFA 123
             + +
Sbjct: 61  KKRMS 65

>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 = 68.1 bits (166), Expect = 2e-15
 Identities = 22/111 (19%), Positives = 40/111 (36%), Gaps = 1/111 (0%)

Query: 21  GKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLS 80
           G   G+                +     +        +   ++ C  C + +   ++ + 
Sbjct: 74  GMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAV-YAAEKVI 132

Query: 81  YKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSE 131
              K WH++CF C+KC +SL       K  +IYC  CY   F  +  G  +
Sbjct: 133 GAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKGFGFGQ 183

>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 = 56.9 bits (137), Expect = 3e-11
 Identities = 15/68 (22%), Positives = 33/68 (48%), Gaps = 1/68 (1%)

Query: 62  ANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQ 121
              C  C K +   ++++  +   +H++CF C  C+++L         ++IYC +CY  +
Sbjct: 7   GKKCGVCQKAVYF-AEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGKK 65

Query: 122 FASRCDGC 129
           +  +  G 
Sbjct: 66  YGPKGKGK 73

>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 = 47.3 bits (112), Expect = 1e-07
 Identities = 16/104 (15%), Positives = 24/104 (23%), Gaps = 13/104 (12%)

Query: 28  QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWH 87
             F C  C ++L      +  D  YC  CY   +    +      G  S D        +
Sbjct: 33  SCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTDKGESLGIKY 92

Query: 88  EACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSE 131
           E   S                              +  C  C +
Sbjct: 93  EEGQSHRPTN-------------PNASRMAQKVGGSDGCPRCGQ 123

>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 = 41.2 bits (96), Expect = 2e-05
 Identities = 12/46 (26%), Positives = 16/46 (34%)

Query: 28  QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIG 73
             F C +C +SL       +D   YC  CY   F        +  G
Sbjct: 141 SCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKGFGFGQGAG 186

>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 = 63.6 bits (155), Expect = 7e-15
 Identities = 21/70 (30%), Positives = 37/70 (52%), Gaps = 2/70 (2%)

Query: 59  SVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCY 118
           S  ++ C +C+K I   S  ++Y+D+ WH  CF C  C + L  ++F +  ++ YC +CY
Sbjct: 2   SSGSSGCVKCNKAIT--SGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCY 59

Query: 119 DAQFASRCDG 128
               +    G
Sbjct: 60  KNFVSGPSSG 69

>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 = 47.0 bits (112), Expect = 2e-08
 Identities = 12/38 (31%), Positives = 19/38 (50%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSC 65
            F C  C + L GQR+   +D  YC+ CY++  +   
Sbjct: 30 DCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFVSGPS 67

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

 Score = 65.2 bits (159), Expect = 8e-15
 Identities = 22/96 (22%), Positives = 34/96 (35%), Gaps = 5/96 (5%)

Query: 28  QHFCCWQCDESLT--GQRYVLRDDHPYCIKCYESVFA--NSCEECSKIIGIDSKDLSYKD 83
               C  C   L   G+R   +     C + Y  +F     C  C K I      +  KD
Sbjct: 28  DCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIRAYEMTMRVKD 87

Query: 84  KHWHEACFSCSKCRQSLVD-KQFGSKSEKIYCGNCY 118
           K +H  CF C+ C++      ++   +  I C    
Sbjct: 88  KVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDI 123

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

 Score = 49.0 bits (117), Expect = 1e-08
 Identities = 22/75 (29%), Positives = 31/75 (41%), Gaps = 5/75 (6%)

Query: 65  CEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVD--KQFGSKSEKIYCGNCYDAQF 122
           C  C + IG D   L   D++WHE C SC  C   L +  ++   K  +  C   Y   F
Sbjct: 5   CGGCQQNIG-DRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLF 63

Query: 123 ASR--CDGCSEIFKA 135
                C  C +  +A
Sbjct: 64  GQDGLCASCDKRIRA 78

>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 = 63.3 bits (154), Expect = 1e-14
 Identities = 24/74 (32%), Positives = 37/74 (50%), Gaps = 2/74 (2%)

Query: 59  SVFANSCEECSKIIG--IDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGN 116
           S  ++ C  CSK I     +K + ++D  WH  CF+C KC  SLV K F +++++I+C  
Sbjct: 2   SSGSSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQK 61

Query: 117 CYDAQFASRCDGCS 130
           C            S
Sbjct: 62  CGSGMDTDISGPSS 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 = 39.1 bits (91), Expect = 2e-05
 Identities = 10/42 (23%), Positives = 20/42 (47%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECS 69
          + F C +C  SL G+ ++ ++   +C KC   +  +     S
Sbjct: 34 ECFNCGKCSVSLVGKGFLTQNKEIFCQKCGSGMDTDISGPSS 75

>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 = 62.4 bits (152), Expect = 3e-14
 Identities = 21/68 (30%), Positives = 40/68 (58%), Gaps = 2/68 (2%)

Query: 59  SVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCY 118
           S  ++ C +C K I   +  ++Y+++ WH+ CF C+ CR+ L  ++F ++ +  YC NC+
Sbjct: 2   SSGSSGCVQCKKPIT--TGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCF 59

Query: 119 DAQFASRC 126
              +AS  
Sbjct: 60  CDLYASGP 67

>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 = 47.3 bits (113), Expect = 2e-08
 Identities = 14/38 (36%), Positives = 23/38 (60%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSC 65
          + F C  C + L+GQR+  RDD  YC+ C+  ++A+  
Sbjct: 30 ECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLYASGP 67

>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 = 61.8 bits (150), Expect = 4e-14
 Identities = 20/70 (28%), Positives = 35/70 (50%), Gaps = 2/70 (2%)

Query: 59  SVFANSCEECSKII--GIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGN 116
           S  ++ C  C+  I     +K +S++++ WH  CF+C KC  SLV + F ++ + I C +
Sbjct: 2   SSGSSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPD 61

Query: 117 CYDAQFASRC 126
           C         
Sbjct: 62  CGKDISGPSS 71

>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 = 40.6 bits (95), Expect = 6e-06
 Identities = 10/38 (26%), Positives = 16/38 (42%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSC 65
            F C +C  SL G+ ++   D   C  C + +   S 
Sbjct: 34 DCFNCKKCSLSLVGRGFLTERDDILCPDCGKDISGPSS 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 = 61.6 bits (150), Expect = 6e-14
 Identities = 16/71 (22%), Positives = 30/71 (42%)

Query: 53  CIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKI 112
                 ++ + +CE C        K ++   + +HE CF C++C Q   +  F     + 
Sbjct: 2   SEFMANALASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRK 61

Query: 113 YCGNCYDAQFA 123
           YC + +   FA
Sbjct: 62  YCEHDFQMLFA 72

>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 = 39.3 bits (92), Expect = 2e-05
 Identities = 9/35 (25%), Positives = 15/35 (42%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFA 62
          Q F C QC +      +   +   YC   ++ +FA
Sbjct: 38 QCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA 72

>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 = 60.5 bits (147), Expect = 1e-13
 Identities = 18/68 (26%), Positives = 28/68 (41%), Gaps = 1/68 (1%)

Query: 62  ANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQ 121
           ++ C  C + +  D   +   D+ +H  CF CS CR  L  + F +   + YC  CY A 
Sbjct: 5   SSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVAT 64

Query: 122 FASRCDGC 129
                   
Sbjct: 65  LE-SGPSS 71

>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 = 41.7 bits (98), Expect = 2e-06
 Identities = 11/41 (26%), Positives = 14/41 (34%), Gaps = 1/41 (2%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEEC 68
            F C  C   L GQ +   +   YC  CY +    S    
Sbjct: 32 GCFVCSTCRAQLRGQHFYAVERRAYCEGCYVATLE-SGPSS 71

>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 = 59.3 bits (144), Expect = 4e-13
 Identities = 16/68 (23%), Positives = 30/68 (44%)

Query: 56  CYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCG 115
            ++   + +CE C        K ++   + +HE CF C++C Q   +  F     + YC 
Sbjct: 5   YFQGSASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCE 64

Query: 116 NCYDAQFA 123
           + +   FA
Sbjct: 65  HDFQMLFA 72

>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 = 38.9 bits (91), Expect = 3e-05
 Identities = 9/35 (25%), Positives = 15/35 (42%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFA 62
          Q F C QC +      +   +   YC   ++ +FA
Sbjct: 38 QCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA 72

>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 = 56.7 bits (137), Expect = 6e-12
 Identities = 17/82 (20%), Positives = 30/82 (36%), Gaps = 4/82 (4%)

Query: 49  DHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSK 108
                 K Y   F   C  CS    +    +   +  +H  CF+C  C+  + D    + 
Sbjct: 2   SSGSSGKDYWGKFGEFCHGCSL--LMTGPFMVAGEFKYHPECFACMSCKVIIEDGDAYAL 59

Query: 109 SE--KIYCGNCYDAQFASRCDG 128
            +   +YCG C++   +    G
Sbjct: 60  VQHATLYCGKCHNEVVSGPSSG 81

>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 = 56.3 bits (136), Expect = 7e-12
 Identities = 16/74 (21%), Positives = 29/74 (39%), Gaps = 2/74 (2%)

Query: 55  KCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYC 114
               +     C++C    GI    +  +D+H H  C+ C+ C  +L  K      ++IYC
Sbjct: 8   SIGNAQKLPMCDKCGT--GIVGVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYC 65

Query: 115 GNCYDAQFASRCDG 128
                 + +    G
Sbjct: 66  EKHARERVSGPSSG 79

>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 = 38.6 bits (90), Expect = 5e-05
 Identities = 7/38 (18%), Positives = 14/38 (36%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSC 65
          + + C  C  +L  + +   +D  YC K      +   
Sbjct: 40 ECYVCTDCGTNLKQKGHFFVEDQIYCEKHARERVSGPS 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 = 55.9 bits (135), Expect = 9e-12
 Identities = 23/72 (31%), Positives = 30/72 (41%), Gaps = 2/72 (2%)

Query: 55  KCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYC 114
           K  +    + C  C + I    + L   DK WH +CF C  C   L  +   SK    YC
Sbjct: 8   KPIKIRGPSHCAGCKEEIK-HGQSLLALDKQWHVSCFKCQTCSVILTGEYI-SKDGVPYC 65

Query: 115 GNCYDAQFASRC 126
            + Y AQF S  
Sbjct: 66  ESDYHAQFGSGP 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 = 37.4 bits (87), Expect = 1e-04
 Identities = 13/38 (34%), Positives = 17/38 (44%), Gaps = 1/38 (2%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSC 65
            F C  C   LTG  Y+ +D  PYC   Y + F +  
Sbjct: 41 SCFKCQTCSVILTG-EYISKDGVPYCESDYHAQFGSGP 77

>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 = 2e-11
 Identities = 19/81 (23%), Positives = 32/81 (39%), Gaps = 3/81 (3%)

Query: 47  RDDHPYCIKCY-ESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQF 105
           +D      +          C  C+++I      L    K WH   F+C+ C+ ++    F
Sbjct: 9   QDTLVQRAEHIPAGKRTPMCAHCNQVI--RGPFLVALGKSWHPEEFNCAHCKNTMAYIGF 66

Query: 106 GSKSEKIYCGNCYDAQFASRC 126
             +   +YC  CY+  FAS  
Sbjct: 67  VEEKGALYCELCYEKFFASGP 87

>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 = 48.6 bits (116), Expect = 7e-09
 Identities = 11/38 (28%), Positives = 16/38 (42%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSC 65
          + F C  C  ++    +V      YC  CYE  FA+  
Sbjct: 50 EEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFFASGP 87

>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 = 55.1 bits (133), Expect = 2e-11
 Identities = 15/70 (21%), Positives = 30/70 (42%), Gaps = 1/70 (1%)

Query: 62  ANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQ 121
            N C  C + +    + +    + +H  CF C  CR++L          ++YC +CY  +
Sbjct: 7   GNKCGACGRTVYHAEE-VQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKK 65

Query: 122 FASRCDGCSE 131
           +  +  G  +
Sbjct: 66  YGPKGYGYGQ 75

>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 = 36.6 bits (85), Expect = 2e-04
 Identities = 10/46 (21%), Positives = 15/46 (32%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIG 73
            F C  C ++L      + D   YC  CY   +        +  G
Sbjct: 33 CCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYGPKGYGYGQGAG 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 = 55.2 bits (133), Expect = 2e-11
 Identities = 17/64 (26%), Positives = 29/64 (45%), Gaps = 2/64 (3%)

Query: 65  CEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFAS 124
           C++C    GI    +  +DK+ H  CF C+ C  +L  K +     ++YC     A+ + 
Sbjct: 28  CDKCGS--GIVGAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETHARARTSG 85

Query: 125 RCDG 128
              G
Sbjct: 86  PSSG 89

>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 = 40.5 bits (95), Expect = 9e-06
 Identities = 7/38 (18%), Positives = 14/38 (36%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSC 65
          + F C  C+ +L  + Y   +   YC     +  +   
Sbjct: 50 ECFVCADCNLNLKQKGYFFVEGELYCETHARARTSGPS 87

>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 = 53.4 bits (129), Expect = 6e-11
 Identities = 15/66 (22%), Positives = 27/66 (40%), Gaps = 2/66 (3%)

Query: 59  SVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCY 118
           S+    C  C + I  + + ++   K WH   F C+KC +  +  +   +    YC   Y
Sbjct: 2   SMGVPICGACRRPI--EGRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHY 59

Query: 119 DAQFAS 124
           +  F  
Sbjct: 60  NQLFGD 65

>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 = 47.3 bits (113), Expect = 1e-08
 Identities = 11/36 (30%), Positives = 18/36 (50%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFAN 63
          +HF C +C++   G R+  R    YC   Y  +F +
Sbjct: 30 EHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLFGD 65

>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 = 52.4 bits (126), Expect = 2e-10
 Identities = 17/68 (25%), Positives = 31/68 (45%), Gaps = 2/68 (2%)

Query: 59  SVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCY 118
           S  ++ C +C + I    + +   +  WH  CF C  C++ L D  F   + +  C  C+
Sbjct: 2   SSGSSGCHQCGEFII--GRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCH 59

Query: 119 DAQFASRC 126
           + + AS  
Sbjct: 60  NREKASGP 67

>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 = 42.4 bits (100), Expect = 1e-06
 Identities = 9/40 (22%), Positives = 13/40 (32%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEE 67
          + F C  C E L    +V       C  C+    A+    
Sbjct: 30 ECFRCDLCQEVLADIGFVKNAGRHLCRPCHNREKASGPSS 69

>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 = 51.2 bits (123), Expect = 6e-10
 Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 4/72 (5%)

Query: 56  CYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFG-SKSEKIYC 114
           CY +     C  CS+ I    + L    K +H  CF+C  C + L    F    + +I+C
Sbjct: 10  CYVA-TLEKCATCSQPIL--DRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHC 66

Query: 115 GNCYDAQFASRC 126
              +  +FAS  
Sbjct: 67  IEDFHRKFASGP 78

>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 = 36.2 bits (84), Expect = 3e-04
 Identities = 9/39 (23%), Positives = 15/39 (38%), Gaps = 1/39 (2%)

Query: 28 QHFCCWQCDESLTGQRYVL-RDDHPYCIKCYESVFANSC 65
            F C  C   L G  + +      +CI+ +   FA+  
Sbjct: 40 GCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFASGP 78

>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 = 50.9 bits (121), Expect = 2e-09
 Identities = 24/98 (24%), Positives = 32/98 (32%), Gaps = 3/98 (3%)

Query: 28  QHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWH 87
           Q+       ++  G +  L             +    C  C   I  D   L   D +WH
Sbjct: 27  QYKMDVTVIDTKDGSQSKLGGGGSGGHMGSGGLSWKRCAGCGGKI-ADRFLLYAMDSYWH 85

Query: 88  EACFSCSKCRQSLVDKQFG--SKSEKIYCGNCYDAQFA 123
             C  CS C+  L D      +KS  I C N Y   F 
Sbjct: 86  SRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG 123

>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 = 49.0 bits (117), Expect = 5e-09
 Identities = 15/72 (20%), Positives = 26/72 (36%), Gaps = 3/72 (4%)

Query: 55  KCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQ-FGSKSEKIY 113
             Y+ ++   C  C + I  + + +S   K +H  CF C+ CR             ++  
Sbjct: 8   LDYQRLYGTRCFSCDQFI--EGEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECM 65

Query: 114 CGNCYDAQFASR 125
           C  C      S 
Sbjct: 66  CQKCSLPVSVSG 77

>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 = 48.5 bits (116), Expect = 7e-09
 Identities = 19/66 (28%), Positives = 27/66 (40%), Gaps = 2/66 (3%)

Query: 65  CEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYC-GNCYDAQFA 123
           C +C K +    + ++   K WH  C  C KC ++L          K YC   CY A F 
Sbjct: 3   CPKCDKEVYFAER-VTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFG 61

Query: 124 SRCDGC 129
            +  G 
Sbjct: 62  PKGFGR 67

>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 = 35.8 bits (83), Expect = 4e-04
 Identities = 10/36 (27%), Positives = 17/36 (47%), Gaps = 1/36 (2%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIK-CYESVFA 62
              C +C ++LT   +   +  PYC   CY ++F 
Sbjct: 26 PCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFG 61

>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 = 46.0 bits (109), Expect = 7e-08
 Identities = 18/66 (27%), Positives = 29/66 (43%), Gaps = 1/66 (1%)

Query: 65  CEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFAS 124
           C EC K +    + L    + +H +CF CS C   L    + S   +IYC   ++  F S
Sbjct: 18  CVECQKTVYPMER-LLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKS 76

Query: 125 RCDGCS 130
           + +   
Sbjct: 77  KGNYDE 82

>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 = 44.7 bits (106), Expect = 2e-07
 Identities = 19/66 (28%), Positives = 28/66 (42%), Gaps = 2/66 (3%)

Query: 62  ANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGN-CYDA 120
           A+ C +C K +    K +S   K WH+ C  C +C ++L          K +C   CY  
Sbjct: 9   ASKCPKCDKTVYFAEK-VSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYAT 67

Query: 121 QFASRC 126
            F S  
Sbjct: 68  LFGSGP 73

>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 = 39.3 bits (92), Expect = 2e-05
 Identities = 11/37 (29%), Positives = 19/37 (51%), Gaps = 1/37 (2%)

Query: 28 QHFCCWQCDESLTGQRYVLRDDHPYCIK-CYESVFAN 63
              C +C ++LT   +   D  P+C K CY ++F +
Sbjct: 35 FCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFGS 71

>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 = 43.2 bits (102), Expect = 6e-07
 Identities = 17/62 (27%), Positives = 29/62 (46%), Gaps = 3/62 (4%)

Query: 65  CEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFAS 124
           C++C  II  D + L +K+  +H   F+C+ C + L          ++YC  C+D    S
Sbjct: 18  CQKCHAII--DEQPLIFKNDPYHPDHFNCANCGKELTADAR-ELKGELYCLPCHDKMGVS 74

Query: 125 RC 126
             
Sbjct: 75  GP 76

>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 = 44.2 bits (104), Expect = 7e-07
 Identities = 23/73 (31%), Positives = 28/73 (38%), Gaps = 3/73 (4%)

Query: 59  SVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQ--FGSKSEKIYCGN 116
           S+    C  C   I  D   L   D +WH  C  CS C+  L D      +KS  I C N
Sbjct: 2   SLSWKRCAGCGGKI-ADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRN 60

Query: 117 CYDAQFASRCDGC 129
            Y   F +   G 
Sbjct: 61  DYIRLFGNSGAGG 73

>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 = 36.1 bits (83), Expect = 8e-04
 Identities = 14/94 (14%), Positives = 23/94 (24%), Gaps = 15/94 (15%)

Query: 28  QHFCCWQCDESLT--GQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKH 85
           +   C  C   L   G     +     C   Y  +F NS    S                
Sbjct: 31  RCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAGGSGGHMGS---------- 80

Query: 86  WHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYD 119
                        +L+  +FG + E++       
Sbjct: 81  -GGDVMVVG--EPTLMGGEFGDEDERLITRLENT 111

>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 = 41.6 bits (97), Expect = 5e-06
 Identities = 18/68 (26%), Positives = 24/68 (35%), Gaps = 3/68 (4%)

Query: 64  SCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQ--FGSKSEKIYCGNCYDAQ 121
           +C  C + I  D   L   D++WHE C SC  C   L +       K  +  C   Y   
Sbjct: 5   TCGGCQQNI-GDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRL 63

Query: 122 FASRCDGC 129
             S     
Sbjct: 64  GGSGGHMG 71

>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 = 37.0 bits (85), Expect = 3e-04
 Identities = 8/77 (10%), Positives = 18/77 (23%), Gaps = 4/77 (5%)

Query: 28  QHFCCWQCDESLT--GQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSY--KD 83
               C  C   L   G+R   +     C + Y  +  +     S    +   + +    +
Sbjct: 29  DCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGGSGGHMGSGGDVMVVGEPTLMGGE 88

Query: 84  KHWHEACFSCSKCRQSL 100
               +            
Sbjct: 89  FGDEDERLITRLENTQF 105

>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 Length = 73

 Score = 37.0 bits (85), Expect = 1e-04
 Identities = 16/63 (25%), Positives = 28/63 (44%), Gaps = 3/63 (4%)

Query: 59  SVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQ-FGSKSEKIYCGNC 117
           S  ++ C+ C K I    + L   +KH+H +C  C +C Q   + +    +   I+   C
Sbjct: 2   SSGSSGCDSCEKYI--TGRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWHPAC 59

Query: 118 YDA 120
             A
Sbjct: 60  RQA 62

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	135
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	100.0
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	100.0
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	100.0
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	100.0
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.97
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.97
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.96
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.92
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.91
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.9
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.9
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.9
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.9
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	99.88
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.87
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.87
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.86
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.84
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.83
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	99.82
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.82
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.82
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.82
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.8
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.8
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	99.8
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	99.79
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	99.79
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.79
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	99.79
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	99.79
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.78
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.78
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	99.78
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	99.77
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.77
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	99.77
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.77
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	99.77
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	99.76
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	99.76
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	99.76
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	99.75
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	99.75
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	99.75
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.75
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.74
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.74
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	99.74
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.74
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	99.74
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	99.74
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	99.74
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	99.74
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.74
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.73
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.73
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.73
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	99.73
2cor_A	79	Pinch protein; LIM domain, particularly interestin	99.73
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	99.72
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	99.72
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	99.72
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	99.72
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	99.72
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	99.71
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	99.71
2cor_A	79	Pinch protein; LIM domain, particularly interestin	99.71
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	99.71
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	99.7
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.7
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	99.67
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	99.66
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.66
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.66
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	99.65
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	99.64
2co8_A	82	NEDD9 interacting protein with calponin homology a	99.63
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.62
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	99.62
2co8_A	82	NEDD9 interacting protein with calponin homology a	99.62
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	99.61
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	99.6
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	99.51
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	98.11
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	98.07
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	90.39
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	90.03
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	87.81
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	87.43
2jrp_A	81	Putative cytoplasmic protein; two-zinc binding pro	85.89
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	84.8
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	84.52
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	83.56
1jjd_A	55	Metallothionein, SMTA; zinc finger, zinc cluster,	80.53
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	80.1

>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=100.00  E-value=1.1e-36  Score=212.25  Aligned_cols=130  Identities=24%  Similarity=0.572  Sum_probs=120.8

Q ss_pred             ccccccCcccc-ccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCc-----------------
Q psy8111           3 SAVKHQDKSFR-EDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANS-----------------   64 (135)
Q Consensus         3 ~~C~~C~~~i~-~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~-----------------   64 (135)
                      ..|.+|+++|. ++.|.|+|+.||++ ||+|+.|+++|.+..|+.++|++||+.||.++++++                 
T Consensus         8 ~~C~~C~~~I~~~~~v~a~g~~wH~~-CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~f~~~c~~c~~~~g~~~~~~~~   86 (192)
T 1b8t_A            8 KKCGVCQKAVYFAEEVQCEGSSFHKS-CFLCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTDKGE   86 (192)
T ss_dssp             EECTTTCCEECSSCCEEETTEEECTT-TCBCTTTCCBCCSSSEEEETTEEEEHHHHHHHHSCCCCCCCCCCCCCCCCCCC
T ss_pred             CcCccCCCeecceeEEEeCCceecCC-CCcCcccCCcCCCCeeEecCCEeeChhhhHhhcCccccccccccccEecCCCc
Confidence            47999999997 78899999999999 999999999999989999999999999999998876                 


Q ss_pred             -------------------------------hhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCccc
Q psy8111          65 -------------------------------CEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIY  113 (135)
Q Consensus        65 -------------------------------C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~  113 (135)
                                                     |++|+++|.+ ...|.++++.||++||+|..|+++|.++.|+..+++||
T Consensus        87 ~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~C~~C~~~I~~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~y  165 (192)
T 1b8t_A           87 SLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAVYA-AEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIY  165 (192)
T ss_dssp             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCEECTTTSCEECS-SSCEEETTEEECTTTCBCTTTCCBCCSSSEEEETTEEE
T ss_pred             ccccccccccccCCCCcCccccccccCCCCcCCCCCCEecC-cEEEecCCCccchhcCCccccCCCCCCCcccccCCEEe
Confidence                                           7899999974 45678999999999999999999999888999999999


Q ss_pred             CHHhHhhhcCCCcccCCCCCC
Q psy8111         114 CGNCYDAQFASRCDGCSEIFK  134 (135)
Q Consensus       114 C~~c~~~~~~~~C~~C~~~I~  134 (135)
                      |+.||.++|+++|.+|+++|.
T Consensus       166 C~~cy~~~f~~kc~~C~~~~g  186 (192)
T 1b8t_A          166 CKGCYAKNFGPKGFGFGQGAG  186 (192)
T ss_dssp             EHHHHHHHTCCCCCCCCCCCC
T ss_pred             CHHHHHHhcCCcCCCCCCccc
Confidence            999999999999999999864

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

Probab=100.00  E-value=1.2e-35  Score=194.35  Aligned_cols=121  Identities=26%  Similarity=0.691  Sum_probs=113.2

Q ss_pred             cccccccCcccc-ccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchhhcCCccccCcccce
Q psy8111           2 ESAVKHQDKSFR-EDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLS   80 (135)
Q Consensus         2 ~~~C~~C~~~i~-~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I~~~~~~~~   80 (135)
                      ...|.+|+++|. +++|.|+|+.||++ ||+|+.|+++|++..|+.++|++||+.||.++++++|++|+++|.+++.+|+
T Consensus         3 ~~~C~~C~~~I~~~~~~~a~~~~~H~~-CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~I~~~~~~~~   81 (126)
T 2xqn_T            3 KPRCAGCDELIFSNEYTQAENQNWHLK-HFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVVCQGCHNAIDPEVQRVT   81 (126)
T ss_dssp             CCBBTTTSSBCCSSCEEEETTEEECGG-GSBCTTTCCBCTTSEEEEETTEEEEHHHHHHHSCCBCTTTCSBCCTTSCEEE
T ss_pred             CCCCccCCCEeCCceEEeeCCCCccCC-CCCcCCCCCCCCcCEEEeECCEEechHHhCcCcCccCcccCCcCCcCceEEE
Confidence            467999999999 57899999999999 9999999999999899999999999999999999999999999986678899


Q ss_pred             eCCcccc--ccccccccccccCCCCCeeeeCCcccCHHhHhhhcC
Q psy8111          81 YKDKHWH--EACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFA  123 (135)
Q Consensus        81 ~~~~~~H--~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~  123 (135)
                      ++++.||  ++||+|..|+++|.++.|+..+++|||..++.++|.
T Consensus        82 a~~~~~H~~~~CF~C~~C~~~l~~~~f~~~~~~~yC~~~~~~~f~  126 (126)
T 2xqn_T           82 YNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKRMS  126 (126)
T ss_dssp             ETTEEEESSTTTSBCTTTCCBCTTSEEEEETTEEESSHHHHHSCC
T ss_pred             CCCCEeeCCCCCcCcCCCCCccCCCeeEeECCEEcchHHhhhhcC
Confidence            9999999  999999999999998889999999999988887763

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

Probab=100.00  E-value=5.7e-36  Score=197.00  Aligned_cols=122  Identities=19%  Similarity=0.354  Sum_probs=112.5

Q ss_pred             cccccccCcccccc-ceeeCCCcccCCCCeeccccCCccC--CCceEeECCeeeccCchhhhcCC--chhhcCCccccCc
Q psy8111           2 ESAVKHQDKSFRED-YNKLGGKDRGSGQHFCCWQCDESLT--GQRYVLRDDHPYCIKCYESVFAN--SCEECSKIIGIDS   76 (135)
Q Consensus         2 ~~~C~~C~~~i~~~-~i~a~~~~~H~~~cf~C~~C~~~l~--~~~~~~~~~~~~C~~c~~~~~~~--~C~~C~~~I~~~~   76 (135)
                      ...|.+|+++|.++ +|.|+|+.||++ ||+|+.|+.+|+  +..|+.++|++||++||.+++++  +|.+|+++|.+.+
T Consensus         2 ~~~C~~C~~~I~~~~~~~a~~~~wH~~-CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~~~~C~~C~~~I~~~e   80 (131)
T 2xjy_A            2 LLTCGGCQQNIGDRYFLKAIDQYWHED-CLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIRAYE   80 (131)
T ss_dssp             CCBBTTTCCBCCSSEEEEETTEEEETT-TCBCTTTCCBCSSTTCCEEEETTEEECHHHHHHHHCCCEECTTTCCEECTTS
T ss_pred             cccCcCCCCEeCCcEEEEECCCcccHH-HcccCcCCCccccCCCeEEEECCEEeecCchhhhCCCccChhhcCCccCccc
Confidence            36799999999987 589999999999 999999999996  35899999999999999999999  9999999998666


Q ss_pred             ccceeCCccccccccccccccccCC-CCCeeeeCCcccCHHhHhhhcCC
Q psy8111          77 KDLSYKDKHWHEACFSCSKCRQSLV-DKQFGSKSEKIYCGNCYDAQFAS  124 (135)
Q Consensus        77 ~~~~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~~~~~~C~~c~~~~~~~  124 (135)
                      .+|.++++.||++||+|..|+++|. +..|+..++++||..||.++|++
T Consensus        81 ~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~C~~c~~~~~~~  129 (131)
T 2xjy_A           81 MTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIYEWTKI  129 (131)
T ss_dssp             EEEEETTEEEEGGGCBCTTTCCBCCTTCEEEEETTEEEEGGGHHHHHHH
T ss_pred             eeEeeCCceECccCcccCCCCCCCCCCCEEEEECCEEEcHHHHHHHhhc
Confidence            7899999999999999999999995 66799999999999999998764

>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=100.00  E-value=2.3e-34  Score=199.92  Aligned_cols=128  Identities=17%  Similarity=0.330  Sum_probs=112.1

Q ss_pred             ccccccCcccccc-ceeeCCCcccCCCCeeccccCCccCC--CceEeECCeeeccCchhhhcCC--chhhcCCccccCcc
Q psy8111           3 SAVKHQDKSFRED-YNKLGGKDRGSGQHFCCWQCDESLTG--QRYVLRDDHPYCIKCYESVFAN--SCEECSKIIGIDSK   77 (135)
Q Consensus         3 ~~C~~C~~~i~~~-~i~a~~~~~H~~~cf~C~~C~~~l~~--~~~~~~~~~~~C~~c~~~~~~~--~C~~C~~~I~~~~~   77 (135)
                      ..|.+|+++|.++ +|.|+++.||++ ||+|+.|+.+|.+  ..|+.++|++||+.||.+++++  +|.+|+++|.+.+.
T Consensus         6 ~~C~~C~~~I~~~~~~~a~~~~wH~~-CF~C~~C~~~L~~~g~~~~~~~g~~yC~~cy~~~~~~~~~C~~C~~~I~~~e~   84 (188)
T 1rut_X            6 KRCAGCGGKIADRFLLYAMDSYWHSR-CLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPASEL   84 (188)
T ss_dssp             CBBTTTCCBCCCSEEEEETTEEECGG-GCBCTTTCCBHHHHCSEEEEETTEEECHHHHHHHHSCCEECTTTCCEECTTSE
T ss_pred             CcCccCCCEeCCceeEEecCcEeccc-CcccCCCCcccccCCceEEEeCCccccccccccccccCCccccCCCccccCcE
Confidence            5799999999987 589999999999 9999999999985  6899999999999999999998  79999999986677


Q ss_pred             cceeCCccccccccccccccccCC-CCCeeeeCCcccCHHhHhhhcCCCcccCCC
Q psy8111          78 DLSYKDKHWHEACFSCSKCRQSLV-DKQFGSKSEKIYCGNCYDAQFASRCDGCSE  131 (135)
Q Consensus        78 ~~~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~  131 (135)
                      +|.+.++.||++||+|..|+++|. +..|+..++++||..||.++++++|...+.
T Consensus        85 ~i~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~g~~yC~~c~~~~~~~~~~~~g~  139 (188)
T 1rut_X           85 VMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHLNSGG  139 (188)
T ss_dssp             EEEETTEEECGGGCBCTTTCCBCCTTCEEEEETTEEEEGGGCCTTTC--------
T ss_pred             EEEcCCCEEeCCCCeECCCCCCCCCCCeEEEECCeEECHHHHHHHhcccccccCC
Confidence            889999999999999999999996 567999999999999999999999987654

>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=99.97  E-value=1.7e-32  Score=187.56  Aligned_cols=122  Identities=19%  Similarity=0.357  Sum_probs=108.9

Q ss_pred             ccccccCcccccc-ceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchhhcCCccccCccccee
Q psy8111           3 SAVKHQDKSFRED-YNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSY   81 (135)
Q Consensus         3 ~~C~~C~~~i~~~-~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I~~~~~~~~~   81 (135)
                      ..|.+|+++|.++ +|.|+|+.||++ ||+|+.|+++|++.. +.++|++||+.||.++++++|.+|+++|.+.+.++.+
T Consensus         7 ~~C~~C~~~I~~~~~~~a~~~~wH~~-CF~C~~C~~~L~~~~-f~~~g~~yC~~~y~~~f~~~C~~C~~~I~~~~~v~~a   84 (169)
T 2rgt_A            7 PMCAGCDQHILDRFILKALDRHWHSK-CLKCSDCHVPLAERC-FSRGESVYCKDDFFKRFGTKCAACQLGIPPTQVVRRA   84 (169)
T ss_dssp             CBBSSSSSBCCSSSCEECSSCEECTT-TSBCTTTCCBCCSCC-EESSSCEECHHHHHHHHSCBCTTTCCBCCTTSEEEEE
T ss_pred             CccccCCCccCCcEEEEECCcEEccc-cCccCCCCCcCCCCC-cccCCeeeecccccccccccccccccccCCCcEEEEc
Confidence            5799999999987 578999999999 999999999999875 5899999999999999999999999999866667889


Q ss_pred             CCccccccccccccccccCC-CCCeee-eCCcccCHHhHhhhcCCCc
Q psy8111          82 KDKHWHEACFSCSKCRQSLV-DKQFGS-KSEKIYCGNCYDAQFASRC  126 (135)
Q Consensus        82 ~~~~~H~~Cf~C~~C~~~l~-~~~~~~-~~~~~~C~~c~~~~~~~~C  126 (135)
                      +++.||++||+|..|+++|. +..|+. .++++||+.||.++++..+
T Consensus        85 ~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~~C~~c~~~~~~~~~  131 (169)
T 2rgt_A           85 QDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAKQGGS  131 (169)
T ss_dssp             TTEEEEGGGCBCTTTCCBCCTTCEEEECTTSCEEEHHHHHHHHHCC-
T ss_pred             CCceEeeCCCcCCCCCCCCCCCCceEEccCCeEECHHHHHHHhhccC
Confidence            99999999999999999997 445654 5899999999998876543

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

Probab=99.97  E-value=5.2e-32  Score=187.14  Aligned_cols=118  Identities=19%  Similarity=0.371  Sum_probs=106.2

Q ss_pred             ccccccCcccccc-ceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchhhcCCccccCccccee
Q psy8111           3 SAVKHQDKSFRED-YNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLSY   81 (135)
Q Consensus         3 ~~C~~C~~~i~~~-~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I~~~~~~~~~   81 (135)
                      ..|.+|+++|.++ ++.|+|+.||++ ||+|+.|+++|.+.. +.++|++||+.||.++++++|.+|+++|.+.+.++.+
T Consensus        61 ~~C~~C~~~I~~~~~~~a~~~~wH~~-CF~C~~C~~~L~~~~-f~~~g~~yC~~~y~~~f~~kC~~C~~~I~~~~~v~~a  138 (182)
T 2jtn_A           61 PMCAGCDQHILDRFILKALDRHWHSK-CLKCSDCHVPLAERC-FSRGESVYCKDDFFKRFGTKCAACQLGIPPTQVVRRA  138 (182)
T ss_dssp             CBCBTSSSBCCCSEEEEETTEEECSS-TTSCTTTCCCCSSCC-EEETTEEECHHHHHHTTSCCCTTTCCCCCSSCCCCEE
T ss_pred             CcCccCCCCccCceeEEecCCeEccc-cCccCCCCCccCCCc-eeECCEeeecCccccccccccccCCCccCCCceEEec
Confidence            5799999999987 578999999999 999999999999876 5899999999999999999999999999866667889


Q ss_pred             CCccccccccccccccccCCC-CCeee-eCCcccCHHhHhhhc
Q psy8111          82 KDKHWHEACFSCSKCRQSLVD-KQFGS-KSEKIYCGNCYDAQF  122 (135)
Q Consensus        82 ~~~~~H~~Cf~C~~C~~~l~~-~~~~~-~~~~~~C~~c~~~~~  122 (135)
                      .++.||++||+|..|+++|.. ..|+. .++++||..||.++.
T Consensus       139 ~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~yC~~cy~~~~  181 (182)
T 2jtn_A          139 QDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAK  181 (182)
T ss_dssp             TTEECCTTTCCCTTTCCCCCTTCEEEECTTSCEECHHHHHHHT
T ss_pred             CCCCEEeCCCcCCCCCCCCCCCCceEEccCCEEECHHHHHHhh
Confidence            999999999999999999984 45654 589999999998753

>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=99.96  E-value=3.6e-30  Score=162.20  Aligned_cols=94  Identities=23%  Similarity=0.455  Sum_probs=89.0

Q ss_pred             ccccccCcccc--ccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchhhcCCccccCcccce
Q psy8111           3 SAVKHQDKSFR--EDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKDLS   80 (135)
Q Consensus         3 ~~C~~C~~~i~--~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I~~~~~~~~   80 (135)
                      ..|.+|+++|.  +++|.|+|+.||++ ||+|+.|+++|.+..|+.++|++||+.||.++++++|.+|+++|.+++.+|+
T Consensus         6 ~~C~~C~~~I~~~~~~~~a~~~~~H~~-CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~C~~C~~~I~~~~~~~~   84 (101)
T 2cup_A            6 SGCVECRKPIGADSKEVHYKNRFWHDT-CFRCAKCLHPLANETFVAKDNKILCNKCTTREDSPKCKGCFKAIVAGDQNVE   84 (101)
T ss_dssp             CBCSSSCCBCCSSSCEEEETTEEEETT-TCCCSSSCCCTTSSCCEEETTEEECHHHHTTCCCCBCSSSCCBCCSSSCEEE
T ss_pred             CcCcccCCcccCCceEEEECccChhhc-CCcccccCCCCCcCeeECcCCEEEChhHhhhhcCCccccCCCccccCCeEEE
Confidence            57999999997  68899999999999 9999999999998889999999999999999999999999999986678899


Q ss_pred             eCCcccccccccccccc
Q psy8111          81 YKDKHWHEACFSCSKCR   97 (135)
Q Consensus        81 ~~~~~~H~~Cf~C~~C~   97 (135)
                      ++++.||++||+|..|+
T Consensus        85 a~~~~~H~~CF~C~~C~  101 (101)
T 2cup_A           85 YKGTVWHKDCFSGPSSG  101 (101)
T ss_dssp             SSSCEEETTTCCCTTCC
T ss_pred             eCCcchHHhCCCCCCCC
Confidence            99999999999999985

>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=99.92  E-value=4e-26  Score=138.61  Aligned_cols=81  Identities=38%  Similarity=0.938  Sum_probs=77.1

Q ss_pred             CCeeeccCchhhhcCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCcc
Q psy8111          48 DDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCD  127 (135)
Q Consensus        48 ~~~~~C~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~  127 (135)
                      +|++||++||.++++++|++|+++|.+++.+|.++++.||++||+|+.|+++|.++.|+..+++|||+.||.++|+++|+
T Consensus         1 ~g~~yC~~~y~~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~~~~C~~c~~~~~~~~C~   80 (82)
T 2ehe_A            1 GSSGSSGPCYDNTFANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELLCNDCYCSAFSSGPS   80 (82)
T ss_dssp             CCCCCCCCCCCCCCSCBCTTTCCBCCSSCCBCCCSSCCCBTTTSBCTTTCCBCSSCCEEEETTEEEETTTSSCCGGGSSC
T ss_pred             CCceechhHhCcccCCcCccCCCccccCcEEEEeCCccccccCCeecCCCCccCCCccEeeCCEEECHHHHhhhcCCCCC
Confidence            68999999999999999999999998778889999999999999999999999988999999999999999999999997


Q ss_pred             c
Q psy8111         128 G  128 (135)
Q Consensus       128 ~  128 (135)
                      +
T Consensus        81 ~   81 (82)
T 2ehe_A           81 S   81 (82)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.91  E-value=5.6e-26  Score=147.66  Aligned_cols=107  Identities=14%  Similarity=0.126  Sum_probs=92.6

Q ss_pred             cccccccCcccccc-ceeeCCCcccCCCCeeccccCCccC--CCceEeECCeeeccCchhhhcCC--chhhcCCccccCc
Q psy8111           2 ESAVKHQDKSFRED-YNKLGGKDRGSGQHFCCWQCDESLT--GQRYVLRDDHPYCIKCYESVFAN--SCEECSKIIGIDS   76 (135)
Q Consensus         2 ~~~C~~C~~~i~~~-~i~a~~~~~H~~~cf~C~~C~~~l~--~~~~~~~~~~~~C~~c~~~~~~~--~C~~C~~~I~~~~   76 (135)
                      ...|.+|+++|.+. +|.|+++.||++ ||+|+.|+.+|.  +..|+.++|++||+.||.+++++  +|++|+++|.+  
T Consensus         5 ~~~C~~C~~~I~~~~~~~a~~~~wH~~-CF~C~~C~~~L~~~~~~~~~~~g~~yC~~cy~~~f~~~~~C~~C~~~I~~--   81 (122)
T 1m3v_A            5 WKRCAGCGGKIADRFLLYAMDSYWHSR-CLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAGGSGGHMGSG--   81 (122)
T ss_dssp             CCCBSSSSSCCCSSCCEEETTEEECHH-HHCCSSSCCCTTTSEECCEEETTEEECHHHHHHHHCCCCSSSCSSCCSCC--
T ss_pred             CCCCcccCCEeCCcEEEEECCceeHhh-CCCcCCCCCcccccCCeEEEECCeeecHHHHHHHcCCCCccccCCCCcCc--
Confidence            35799999999987 499999999999 999999999997  35799999999999999999999  99999999963  


Q ss_pred             ccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCC
Q psy8111          77 KDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFAS  124 (135)
Q Consensus        77 ~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~  124 (135)
                      ..+.+.++             .+|.++.|+.++++|||..|+.+++..
T Consensus        82 ~~~~~~g~-------------~~l~g~~f~~~~~~~yC~~~~~~~~~~  116 (122)
T 1m3v_A           82 GDVMVVGE-------------PTLMGGEFGDEDERLITRLENTQFDAA  116 (122)
T ss_dssp             EESSSSSS-------------SSCCSCTTCCTTCCCCEECTTTTTTCC
T ss_pred             hheEEcCC-------------cCCCCCccEecCCEeEccCcchhchhh
Confidence            33445552             367788999999999999999887653

>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=99.90  E-value=1e-24  Score=131.78  Aligned_cols=79  Identities=23%  Similarity=0.449  Sum_probs=74.4

Q ss_pred             CCeeeccCchhhhcCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCcc
Q psy8111          48 DDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCD  127 (135)
Q Consensus        48 ~~~~~C~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~  127 (135)
                      +|++||++||.++++++|++|+++|.  +..|.++++.||++||+|+.|+++|.++.|+..+++|||+.||.++|+++|+
T Consensus         1 gg~~yC~~~y~~~~~~~C~~C~~~I~--~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~~y~~~f~~~C~   78 (80)
T 1x3h_A            1 GSSGSSGKDFLAMFSPKCGGCNRPVL--ENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHHRRGSGPS   78 (80)
T ss_dssp             CCCCCCCCCCCCCCSCBCTTTCCBCC--SSCEEETTEEECTTTCBCSSSCCBSCSSCCEESSSCEECHHHHHHHHSSSCC
T ss_pred             CCCccchhHHhhhcCCccccCCCeec--ceeEEECCCeEecCcCChhhCCCCCCCCcEEeECCEEECHHHHHHHcCCCCC
Confidence            47899999999999999999999996  4678999999999999999999999988899999999999999999999997


Q ss_pred             c
Q psy8111         128 G  128 (135)
Q Consensus       128 ~  128 (135)
                      +
T Consensus        79 ~   79 (80)
T 1x3h_A           79 S   79 (80)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.90  E-value=1.2e-24  Score=131.51  Aligned_cols=79  Identities=34%  Similarity=0.798  Sum_probs=74.3

Q ss_pred             CCeeeccCchhhhcCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCcc
Q psy8111          48 DDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCD  127 (135)
Q Consensus        48 ~~~~~C~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~  127 (135)
                      +|++||++||.++++++|++|+++|.  +..|.++++.||++||+|..|+++|.++.|+..+++|||+.||.++|+++|+
T Consensus         1 gg~~yC~~cy~~~~~~~C~~C~~~I~--~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~   78 (80)
T 2cuq_A            1 GSSGSSGPCYENKFAPRCARCSKTLT--QGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELFASGPS   78 (80)
T ss_dssp             CCCCSCCCCCCCCSSCCCTTTCCCCC--SCCEESSSSEECTTTCBCSSSCCBCTTCCEEECSSSEEEHHHHHHHTTCSTT
T ss_pred             CCcEEcHHHHccccCCcCCCCCCEec--CcEEEECCchhhhhhCCcccCCCcCCCCeeEeECCEEECHHHHHHHcCCCCC
Confidence            58999999999999999999999996  3478999999999999999999999988899999999999999999999997


Q ss_pred             c
Q psy8111         128 G  128 (135)
Q Consensus       128 ~  128 (135)
                      +
T Consensus        79 s   79 (80)
T 2cuq_A           79 S   79 (80)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.90  E-value=2.2e-24  Score=130.87  Aligned_cols=81  Identities=31%  Similarity=0.648  Sum_probs=76.0

Q ss_pred             CCeeeccCchhhhcCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCcc
Q psy8111          48 DDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCD  127 (135)
Q Consensus        48 ~~~~~C~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~  127 (135)
                      ++.+||++||.++++++|++|+++|.+.+.+|.++++.||++||+|..|+++|.++.|+..+++|||+.||.++|++++.
T Consensus         1 ~~~~yC~~cy~~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~~~   80 (82)
T 1x63_A            1 GSSGSSGKCTTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKFASGPS   80 (82)
T ss_dssp             CCSCCCCCCCSCCCSCBCSSSCCBCCSSSCEEECSSCEEETTTCCCSSSCCCCTTSCEEEETTEEEEHHHHHHHTSCCCS
T ss_pred             CCCcCchhHHccccCCcCccCCcccccCceEEEECccccccccCchhhCCCccCCCccEeeCCEEECHHHHHHHhCCCCC
Confidence            47899999999999999999999998667789999999999999999999999988999999999999999999999986


Q ss_pred             c
Q psy8111         128 G  128 (135)
Q Consensus       128 ~  128 (135)
                      .
T Consensus        81 ~   81 (82)
T 1x63_A           81 S   81 (82)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.90  E-value=3.7e-24  Score=129.63  Aligned_cols=78  Identities=26%  Similarity=0.491  Sum_probs=72.3

Q ss_pred             CCeeeccCchhhhcCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeee-CCcccCHHhHhhhcCCCc
Q psy8111          48 DDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSK-SEKIYCGNCYDAQFASRC  126 (135)
Q Consensus        48 ~~~~~C~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~-~~~~~C~~c~~~~~~~~C  126 (135)
                      +|++||++||. +++++|++|+++|.  +++|.++++.||++||+|+.|+++|.+..|+.. +++|||+.||.++|+++|
T Consensus         2 ~g~~yC~~~y~-~~~~~C~~C~~~I~--~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~g~~yC~~cy~~~f~~~C   78 (81)
T 2dlo_A            2 SSGSSGEGCYV-ATLEKCATCSQPIL--DRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFASGP   78 (81)
T ss_dssp             CCCCCCCCCCC-SSCCBCTTTCCBCC--SCCEEETTEEECTTTCBCSSSCCBCTTSCEECCTTCCCEEHHHHHHHTTSSS
T ss_pred             cCCEECHHHhh-cCCCccccCCCeec--ceeEEECCccccHHhcCcccCCCccCCCeeEECCCCEEECHHHHHHHhcCcC
Confidence            68999999999 78999999999996  568999999999999999999999998888776 789999999999999999


Q ss_pred             cc
Q psy8111         127 DG  128 (135)
Q Consensus       127 ~~  128 (135)
                      ++
T Consensus        79 ~~   80 (81)
T 2dlo_A           79 SS   80 (81)
T ss_dssp             CC
T ss_pred             CC
Confidence            75

>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=99.88  E-value=1.5e-23  Score=134.65  Aligned_cols=102  Identities=13%  Similarity=0.127  Sum_probs=86.4

Q ss_pred             cccccccCcccccc-ceeeCCCcccCCCCeeccccCCccCC--CceEeECCeeeccCchhhhcCCchhhcCCccccCccc
Q psy8111           2 ESAVKHQDKSFRED-YNKLGGKDRGSGQHFCCWQCDESLTG--QRYVLRDDHPYCIKCYESVFANSCEECSKIIGIDSKD   78 (135)
Q Consensus         2 ~~~C~~C~~~i~~~-~i~a~~~~~H~~~cf~C~~C~~~l~~--~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I~~~~~~   78 (135)
                      ...|.+|+++|.++ +|.|+++.||++ ||+|+.|+++|.+  ..|+.++|++||+.||.++|+++|..|..     +.+
T Consensus         3 ~~~C~~C~~~I~~~~~~~a~~~~wH~~-CF~C~~C~~~L~~~g~~~~~~~g~~yC~~~y~~~f~~~c~~c~~-----~~~   76 (114)
T 1j2o_A            3 LLTCGGCQQNIGDRYFLKAIDQYWHED-CLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGGSGGHMGSG-----GDV   76 (114)
T ss_dssp             CBCBSSSCSCBCSSEEEECSSSEECTT-TCCCSSSCSCCCCSSSCCCCBTTBCCCHHHHHHHHTSCCSSCBS-----CSC
T ss_pred             CCCCcCCCCeeCCcEEEEECchhHHHh-cCcccccCCchhcCCCeeEEECCeeechHHHHHHhCcccCcCCC-----Cce
Confidence            35799999999987 799999999999 9999999999985  57999999999999999999999988863     223


Q ss_pred             ceeCCcccccccccccccccc-CCCCCeeeeCCcccCHHhHhhhcCC
Q psy8111          79 LSYKDKHWHEACFSCSKCRQS-LVDKQFGSKSEKIYCGNCYDAQFAS  124 (135)
Q Consensus        79 ~~~~~~~~H~~Cf~C~~C~~~-l~~~~~~~~~~~~~C~~c~~~~~~~  124 (135)
                      |.               |+++ |.++.|+..+++|||..|+.++.++
T Consensus        77 ~~---------------~~~~~~~g~~f~~~~~~~~C~~~~~~~~~~  108 (114)
T 1j2o_A           77 MV---------------VGEPTLMGGEFGDEDERLITRLENTQFDAA  108 (114)
T ss_dssp             CC---------------SSCSSTTSSBCCCSSSCCCEEEECTTCCCT
T ss_pred             eE---------------cCCccCCCCeeEEcCCEeecchhhhccccc
Confidence            32               3344 5677899999999999999877653

>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=99.87  E-value=9.3e-23  Score=122.22  Aligned_cols=74  Identities=30%  Similarity=0.733  Sum_probs=68.6

Q ss_pred             CCeeeccCchhhhcCCchhhcCCcccc---CcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhh
Q psy8111          48 DDHPYCIKCYESVFANSCEECSKIIGI---DSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQ  121 (135)
Q Consensus        48 ~~~~~C~~c~~~~~~~~C~~C~~~I~~---~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~  121 (135)
                      ++++||++||.++++++|++|+++|.+   ++..|.++++.||++||+|+.|+++|.++.|+..+++|||+.||.++
T Consensus         1 g~~~yC~~cy~~~~~~~C~~C~~~I~~~g~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~~~yC~~cy~~l   77 (77)
T 2egq_A            1 GSSGSSGDCYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYCPDCAKKL   77 (77)
T ss_dssp             CCSSCCTTCCCSCCCCCCSSSCCCCCCCSSCCCEEEETTEEEETTTCBCSSSCCBCTTSCCCEETTEECCHHHHHHC
T ss_pred             CCCeEchhHhchhhCccCcccCCcccCCCCCceeEEECcceeCcccCEehhcCCCCCCCccEeECCEEEChHHhccC
Confidence            478999999999999999999999985   45889999999999999999999999988899999999999999753

>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=99.87  E-value=1.6e-22  Score=122.37  Aligned_cols=79  Identities=22%  Similarity=0.552  Sum_probs=71.8

Q ss_pred             CCeeeccCchhhhcCCchhhcCCccccCcccceeCCccccccccccccccccCCC-CCee-eeCCcccCHHhHhhhcCCC
Q psy8111          48 DDHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVD-KQFG-SKSEKIYCGNCYDAQFASR  125 (135)
Q Consensus        48 ~~~~~C~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~-~~~~-~~~~~~~C~~c~~~~~~~~  125 (135)
                      ++.+||++||.++++++|++|+++|.  +..|.++++.||++||+|..|+++|.+ ..|+ ..+++|||+.||.++|++.
T Consensus         1 g~~~yC~~~y~~~~~~~C~~C~~~I~--~~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~~C~~c~~~~~~~~   78 (81)
T 1x6a_A            1 GSSGSSGKDYWGKFGEFCHGCSLLMT--GPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVVSGP   78 (81)
T ss_dssp             CCCCCCCCCSSCCSSCBCTTTCCBCC--SCCBCCTTCCBCTTSCBCTTTCCBCCTTSCEEECSSSCEEEHHHHHHHHCTT
T ss_pred             CCCccchhHHhhhcCCcCccCCCCcC--ceEEEECCceeccccCCccCCCCccCCCCcEEEeeCCEEECHHHHHHHhcCC
Confidence            36899999999999999999999996  678999999999999999999999974 5677 4799999999999999998


Q ss_pred             ccc
Q psy8111         126 CDG  128 (135)
Q Consensus       126 C~~  128 (135)
                      +++
T Consensus        79 ~sg   81 (81)
T 1x6a_A           79 SSG   81 (81)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            864

>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=99.86  E-value=2.2e-22  Score=126.39  Aligned_cols=76  Identities=38%  Similarity=0.905  Sum_probs=71.0

Q ss_pred             hcCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCcccCCCCCCC
Q psy8111          60 VFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEIFKA  135 (135)
Q Consensus        60 ~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I~~  135 (135)
                      .++++|++|+++|.+++.+|.++++.||++||+|..|+++|.+..|+..++++||+.||.++|+++|++|+++|.|
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~C~~C~~~I~~   78 (101)
T 2cup_A            3 SGSSGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSPKCKGCFKAIVA   78 (101)
T ss_dssp             SCCCBCSSSCCBCCSSSCEEEETTEEEETTTCCCSSSCCCTTSSCCEEETTEEECHHHHTTCCCCBCSSSCCBCCS
T ss_pred             CCCCcCcccCCcccCCceEEEECccChhhcCCcccccCCCCCcCeeECcCCEEEChhHhhhhcCCccccCCCcccc
Confidence            4578999999999766788999999999999999999999988889999999999999999999999999999974

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

Probab=99.84  E-value=1.6e-21  Score=127.00  Aligned_cols=74  Identities=23%  Similarity=0.574  Sum_probs=69.1

Q ss_pred             cCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCcccCCCCCCC
Q psy8111          61 FANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEIFKA  135 (135)
Q Consensus        61 ~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I~~  135 (135)
                      ++++|++|+++|. ++.++.++|+.||++||+|+.|+++|.++.|+..+|+|||+.||.++|+++|++|+++|.+
T Consensus         2 ~~~~C~~C~~~I~-~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~I~~   75 (126)
T 2xqn_T            2 EKPRCAGCDELIF-SNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVVCQGCHNAIDP   75 (126)
T ss_dssp             CCCBBTTTSSBCC-SSCEEEETTEEECGGGSBCTTTCCBCTTSEEEEETTEEEEHHHHHHHSCCBCTTTCSBCCT
T ss_pred             cCCCCccCCCEeC-CceEEeeCCCCccCCCCCcCCCCCCCCcCEEEeECCEEechHHhCcCcCccCcccCCcCCc
Confidence            5689999999997 3567899999999999999999999998899999999999999999999999999999974

>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=99.83  E-value=2.7e-21  Score=115.64  Aligned_cols=72  Identities=33%  Similarity=0.677  Sum_probs=66.5

Q ss_pred             hhcCCchhhcCCcccc--CcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCcccCC
Q psy8111          59 SVFANSCEECSKIIGI--DSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCS  130 (135)
Q Consensus        59 ~~~~~~C~~C~~~I~~--~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~  130 (135)
                      ++++++|++|+++|.+  ++.+|.++++.||++||+|+.|+++|.+..|+..+++|||+.||.++|+++|+.++
T Consensus         2 ~~~~~~C~~C~~~I~~~g~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~C~~~s   75 (76)
T 1x68_A            2 SSGSSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCGSGMDTDISGPSS   75 (76)
T ss_dssp             TTCCCCCTTTCCCCCTTTTCCEEEETTEEEEGGGCBCTTTCCBCSSSCEEEETTEEEETTTTCCCCCCSSSSSC
T ss_pred             CccCCCCccCCCcccCCCCceeEEECCcccCcccCChhhCCCcCCCCceEeECCEEECHHHhhhhhCCcCCCCC
Confidence            3578999999999974  45789999999999999999999999988899999999999999999999999886

>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=99.82  E-value=6.7e-21  Score=112.62  Aligned_cols=70  Identities=34%  Similarity=0.745  Sum_probs=64.7

Q ss_pred             hhcCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCccc
Q psy8111          59 SVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDG  128 (135)
Q Consensus        59 ~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~  128 (135)
                      ++++++|.+|+++|.+.+.+|.++++.||++||+|..|+++|.++.|+..+++|||+.||.++|+++|++
T Consensus         2 ~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~~   71 (72)
T 1wyh_A            2 SSGSSGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFASGPSS   71 (72)
T ss_dssp             CCCCCBCSSSCCBCCSSSCEECSTTCCEETTTCBCTTTCCBTTTSCEEEETTEEEEHHHHHHHTSCCCCC
T ss_pred             CccCCCCccCCCccccCccEEEECccccCcccCeECCCCCcCCCCccCCcCCeEECHHHHHHHccCcCCC
Confidence            3567899999999986568899999999999999999999999888999999999999999999999974

>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=99.82  E-value=6.1e-21  Score=112.81  Aligned_cols=69  Identities=35%  Similarity=0.783  Sum_probs=64.4

Q ss_pred             hcCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCccc
Q psy8111          60 VFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDG  128 (135)
Q Consensus        60 ~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~  128 (135)
                      +++++|++|+++|.+.+.+|.++++.||++||+|..|+++|.+..|+..+++|||+.||.++|+++|+.
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~~   71 (72)
T 1x4k_A            3 SGSSGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQHASGPSS   71 (72)
T ss_dssp             SCCCCBSSSCCCCCSSSCEEEETTEEEETTTTCCSSSCCCCCSSSEEEETTEEEEHHHHHHHTSSCCCC
T ss_pred             ccCCCCccCCCcccCCceEEEECcCeecccCCcccccCCccCCCccCccCCeEECHHHHhHHhCCCCCC
Confidence            578999999999986567899999999999999999999999889999999999999999999999974

>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=99.82  E-value=7.1e-21  Score=113.74  Aligned_cols=71  Identities=27%  Similarity=0.653  Sum_probs=65.2

Q ss_pred             CchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCH-HhHhhhcCCCcccCCCCCC
Q psy8111          63 NSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCG-NCYDAQFASRCDGCSEIFK  134 (135)
Q Consensus        63 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~-~c~~~~~~~~C~~C~~~I~  134 (135)
                      |+|++|+++|.+ +..|.++++.||++||+|..|+++|.++.|+..+++|||+ .||.++|+++|++|++.+.
T Consensus         1 p~C~~C~~~I~~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~~~C~~C~~~~~   72 (76)
T 1iml_A            1 PKCPKCDKEVYF-AERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGFGRGGAES   72 (76)
T ss_dssp             CBCTTTSSBCCG-GGEEEETTEEEETTTCBCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCCCSSCCCSSS
T ss_pred             CcCCCCCCEEEC-ceEEEECCccccCCCCCccccCccCCCCceECcCCeEeeCHHHHHHHhCccCCCcCCcee
Confidence            689999999974 5568899999999999999999999988999999999999 6999999999999998764

>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=99.82  E-value=4.2e-21  Score=124.56  Aligned_cols=75  Identities=28%  Similarity=0.454  Sum_probs=67.7

Q ss_pred             hcCCchhhcCCccccCcccceeCCccccccccccccccccCCC--CCeeeeCCcccCHHhHhhhcCC--CcccCCCCCCC
Q psy8111          60 VFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVD--KQFGSKSEKIYCGNCYDAQFAS--RCDGCSEIFKA  135 (135)
Q Consensus        60 ~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~--~~~~~~~~~~~C~~c~~~~~~~--~C~~C~~~I~~  135 (135)
                      +++++|++|+++|. +..+|.++++.||++||+|..|+++|.+  ..|+.++++|||..||.++|++  +|++|+++|.+
T Consensus         3 ~~~~~C~~C~~~I~-~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~cy~~~f~~~~~C~~C~~~I~~   81 (122)
T 1m3v_A            3 LSWKRCAGCGGKIA-DRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAGGSGGHMGSG   81 (122)
T ss_dssp             SCCCCBSSSSSCCC-SSCCEEETTEEECHHHHCCSSSCCCTTTSEECCEEETTEEECHHHHHHHHCCCCSSSCSSCCSCC
T ss_pred             CCCCCCcccCCEeC-CcEEEEECCceeHhhCCCcCCCCCcccccCCeEEEECCeeecHHHHHHHcCCCCccccCCCCcCc
Confidence            35689999999997 3446889999999999999999999973  5799999999999999999999  99999999974

>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=99.80  E-value=3.3e-20  Score=110.83  Aligned_cols=70  Identities=21%  Similarity=0.338  Sum_probs=65.5

Q ss_pred             ccccccCcccc-ccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeecc-CchhhhcCCchhhcCCccc
Q psy8111           3 SAVKHQDKSFR-EDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCI-KCYESVFANSCEECSKIIG   73 (135)
Q Consensus         3 ~~C~~C~~~i~-~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~-~c~~~~~~~~C~~C~~~I~   73 (135)
                      ..|.+|+++|. ++.|.|+|+.||++ ||+|..|+++|.+..|+.++|++||+ .||.++++++|.+|++.+.
T Consensus         1 p~C~~C~~~I~~~~~v~a~~~~~H~~-CF~C~~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~~~C~~C~~~~~   72 (76)
T 1iml_A            1 PKCPKCDKEVYFAERVTSLGKDWHRP-CLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGFGRGGAES   72 (76)
T ss_dssp             CBCTTTSSBCCGGGEEEETTEEEETT-TCBCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCCCSSCCCSSS
T ss_pred             CcCCCCCCEEECceEEEECCccccCC-CCCccccCccCCCCceECcCCeEeeCHHHHHHHhCccCCCcCCcee
Confidence            36999999998 88899999999999 99999999999998899999999999 6999999999999998763

>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=99.80  E-value=1.4e-20  Score=113.77  Aligned_cols=72  Identities=21%  Similarity=0.626  Sum_probs=56.3

Q ss_pred             cCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCcccCCCCC
Q psy8111          61 FANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEIF  133 (135)
Q Consensus        61 ~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I  133 (135)
                      .+++|.+|+++|.+ +..+.+.++.||++||+|..|+++|.+..|+..++++||+.||.++|+++|.+|++.+
T Consensus         6 ~~~~C~~C~~~I~~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~gcg~g~   77 (81)
T 1a7i_A            6 GGNKCGACGRTVYH-AEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYGPKGYGYGQGA   77 (81)
T ss_dssp             --CBCSSSCCBCSS-TTEEEETTEEEESSSEECSSSCCEECSSCCEEETTEEECSHHHHHHCC----------
T ss_pred             CCCcCcCcCccccC-ceeEEeCCcccccccCccCCCCCCCCCCCeEeeCCEEECHHHHHHHhCCcccccCCcc
Confidence            46899999999974 4578999999999999999999999988899999999999999999999999998765

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

Probab=99.80  E-value=3e-20  Score=111.14  Aligned_cols=68  Identities=24%  Similarity=0.500  Sum_probs=61.7

Q ss_pred             hcCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCcc
Q psy8111          60 VFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCD  127 (135)
Q Consensus        60 ~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~  127 (135)
                      .++++|++|+++|.+.+.++.++|+.||++||+|..|+++|.++.|+..+|++||+.||.++|+++|+
T Consensus         9 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~~C~   76 (77)
T 1g47_A            9 LASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAPCWI   76 (77)
T ss_dssp             CCCCBCSSSCCBCCSTTTCEEETTEEECTTTCCCTTTCCCCGGGCSEEETTEEECHHHHHHHCCCC--
T ss_pred             CCCCCchhcCCccCCCceEEEeCccEeccccCeECCCCCCCCCCCeEeECCeEeCHHHHHHHhhcccC
Confidence            45689999999998667788999999999999999999999988899999999999999999999996

>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=99.79  E-value=5.4e-20  Score=108.16  Aligned_cols=67  Identities=30%  Similarity=0.801  Sum_probs=61.6

Q ss_pred             hcCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCccc
Q psy8111          60 VFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDG  128 (135)
Q Consensus        60 ~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~  128 (135)
                      .++++|.+|+++|.  +..|.++++.||++||+|..|+++|.++.|+..+++|||+.||.++|+++|++
T Consensus         3 ~~~~~C~~C~~~I~--~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~~   69 (70)
T 2d8z_A            3 SGSSGCVQCKKPIT--TGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLYASGPSS   69 (70)
T ss_dssp             CCCCBCSSSCCBCC--SSEEESSSSEEETTTSBCSSSCCBCTTSCCEESSSSEECHHHHHHHTCCCCTT
T ss_pred             CCCCCCcccCCeec--cceEEECccccCCCCCccCCCCCcCCcCceEeeCCeEECHHHHHHHhccccCC
Confidence            45789999999996  45689999999999999999999999888999999999999999999999974

>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=99.79  E-value=4.3e-20  Score=108.31  Aligned_cols=67  Identities=30%  Similarity=0.819  Sum_probs=61.8

Q ss_pred             hcCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCccc
Q psy8111          60 VFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDG  128 (135)
Q Consensus        60 ~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~  128 (135)
                      .++++|.+|+++|.  +..|.++++.||++||+|..|+++|.+..|+..+++|||..||.++|+++|++
T Consensus         3 ~~~~~C~~C~~~I~--~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~g   69 (69)
T 2cur_A            3 SGSSGCVKCNKAIT--SGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFVSGPSSG   69 (69)
T ss_dssp             CCCCCCSSSCCCCC--TTCEEETTEEECTTTTBCTTTCCBCTTSCEEECSSCEEEHHHHHHHHTCSCCC
T ss_pred             CCcCCCcccCCEeC--cceEEECccccccCcCEECCCCCCCCCCccEeECCEEECHHHhHHHhcCCCCC
Confidence            45789999999996  45789999999999999999999999888999999999999999999999975

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

Probab=99.79  E-value=9.2e-20  Score=125.64  Aligned_cols=86  Identities=28%  Similarity=0.596  Sum_probs=75.0

Q ss_pred             CCeeeccCchh---hhcCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCC
Q psy8111          48 DDHPYCIKCYE---SVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFAS  124 (135)
Q Consensus        48 ~~~~~C~~c~~---~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~  124 (135)
                      ++..+|...+.   ....++|.+|+++|. +..++.++++.||++||+|..|+++|.+..| .++|+|||+.||.++|++
T Consensus        43 ~~~~~~~~~~~~~~~~~~~~C~~C~~~I~-~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f-~~~g~~yC~~~y~~~f~~  120 (182)
T 2jtn_A           43 DDEGGSGGHMGSGGTPEIPMCAGCDQHIL-DRFILKALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRFGT  120 (182)
T ss_dssp             SSSCSSSSSCCCCCCCSCCBCBTSSSBCC-CSEEEEETTEEECSSTTSCTTTCCCCSSCCE-EETTEEECHHHHHHTTSC
T ss_pred             ccccccccccccCCCCCCCcCccCCCCcc-CceeEEecCCeEccccCccCCCCCccCCCce-eECCEeeecCcccccccc
Confidence            45678887765   445689999999997 4556889999999999999999999988765 789999999999999999


Q ss_pred             CcccCCCCCCC
Q psy8111         125 RCDGCSEIFKA  135 (135)
Q Consensus       125 ~C~~C~~~I~~  135 (135)
                      +|.+|+++|.+
T Consensus       121 kC~~C~~~I~~  131 (182)
T 2jtn_A          121 KCAACQLGIPP  131 (182)
T ss_dssp             CCTTTCCCCCS
T ss_pred             ccccCCCccCC
Confidence            99999999964

>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=99.79  E-value=8e-20  Score=112.52  Aligned_cols=73  Identities=25%  Similarity=0.537  Sum_probs=65.9

Q ss_pred             cCchhhhcCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCccc
Q psy8111          54 IKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDG  128 (135)
Q Consensus        54 ~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~  128 (135)
                      ...+...++++|.+|+++|.  ++.|.++++.||++||+|..|+++|.+..|+..+++|||+.||.++|+++|+.
T Consensus        17 ~~~~~~~~~~~C~~C~~~I~--~~~v~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~c~s   89 (90)
T 2dar_A           17 EHIPAGKRTPMCAHCNQVIR--GPFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFFASGPSS   89 (90)
T ss_dssp             EEECTTTCCCBBSSSCCBCC--SCEEEETTEEECTTTCBCSSSCCBCSSSCBEESSSCEECHHHHHHHTSCCCCC
T ss_pred             ccCCCCCCCCCCccCCCEec--ceEEEECCccccccCCccCCCCCCCCCCEeEeECCEEECHHHHHHHcCCCCCC
Confidence            33356678899999999994  67889999999999999999999999888999999999999999999999974

>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=99.79  E-value=8.4e-20  Score=110.30  Aligned_cols=74  Identities=20%  Similarity=0.406  Sum_probs=64.9

Q ss_pred             CeeeccCchhhhcCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCC-cccCHHhHhhhcCC
Q psy8111          49 DHPYCIKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSE-KIYCGNCYDAQFAS  124 (135)
Q Consensus        49 ~~~~C~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~-~~~C~~c~~~~~~~  124 (135)
                      +.+||++||.++++++|++|+++|.  +++|.++++.||++||+|..|+++|.++.++..++ .+||..||.+++..
T Consensus         2 ~~~yC~~dy~~~~~~~C~~C~~~I~--~~~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~~~~C~~C~~~~~~~   76 (81)
T 1v6g_A            2 SSGSSGLDYQRLYGTRCFSCDQFIE--GEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCSLPVSVS   76 (81)
T ss_dssp             CCCCCCSCGGGSCCCBCTTTCCBCC--SCCEEETTEEECTTTSSCSSSCCCCCSSSCEEEETTEEEEHHHHSCCSSC
T ss_pred             CCCcchHHHHhHhCCcCccccCEec--cceEEECCceeCccCCccccCCCCCCCCCEEEeCCCCEEChhhhcccCCC
Confidence            5789999999999999999999996  56899999999999999999999998766666555 57999999887653

>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=99.78  E-value=1.1e-19  Score=108.62  Aligned_cols=67  Identities=19%  Similarity=0.358  Sum_probs=62.9

Q ss_pred             cccccccCccccc----cceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchhhcC
Q psy8111           2 ESAVKHQDKSFRE----DYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECS   69 (135)
Q Consensus         2 ~~~C~~C~~~i~~----~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~   69 (135)
                      ...|.+|+++|.+    ++|.|+++.||++ ||+|+.|+++|.+..|+.++|++||+.||.++++++|+.+.
T Consensus         5 ~~~C~~C~~~I~~~g~~~~~~a~~~~wH~~-CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~C~~~s   75 (76)
T 1x68_A            5 SSGCVACSKPISGLTGAKFICFQDSQWHSE-CFNCGKCSVSLVGKGFLTQNKEIFCQKCGSGMDTDISGPSS   75 (76)
T ss_dssp             CCCCTTTCCCCCTTTTCCEEEETTEEEEGG-GCBCTTTCCBCSSSCEEEETTEEEETTTTCCCCCCSSSSSC
T ss_pred             CCCCccCCCcccCCCCceeEEECCcccCcc-cCChhhCCCcCCCCceEeECCEEECHHHhhhhhCCcCCCCC
Confidence            3579999999997    8899999999999 99999999999988999999999999999999999998764

>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=99.78  E-value=1.6e-19  Score=106.66  Aligned_cols=67  Identities=28%  Similarity=0.708  Sum_probs=61.5

Q ss_pred             hcCCchhhcCCcccc--CcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCc
Q psy8111          60 VFANSCEECSKIIGI--DSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRC  126 (135)
Q Consensus        60 ~~~~~C~~C~~~I~~--~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C  126 (135)
                      .++++|.+|+++|..  ++.+|.++++.||++||+|..|+++|.+..|+..+++|||..||.++|+|++
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            357899999999975  4578999999999999999999999998899999999999999999999986

>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=99.78  E-value=1.6e-19  Score=107.85  Aligned_cols=69  Identities=28%  Similarity=0.677  Sum_probs=62.5

Q ss_pred             hhcCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCH-HhHhhhcCCCccc
Q psy8111          59 SVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCG-NCYDAQFASRCDG  128 (135)
Q Consensus        59 ~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~-~c~~~~~~~~C~~  128 (135)
                      ..++++|++|+++|.+ +..|.++++.||++||+|..|+++|.++.|+..+++|||. .||.++|+++|++
T Consensus         6 ~~~~~~C~~C~~~I~~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~~kc~g   75 (76)
T 2cu8_A            6 SGMASKCPKCDKTVYF-AEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFGSGPSS   75 (76)
T ss_dssp             CCCCCBCTTTCCBCCT-TTEEEETTEEEETTTCBCSSSCCBCCTTSCEEETTEEECTTTHHHHHSCSSCSC
T ss_pred             CCCCCCCcCCCCEeEC-CeEEEECCeEeeCCCCCCCCCCCccCCCceEeECCEEecchHHHHHhcccccCC
Confidence            3467899999999974 4568899999999999999999999988899999999999 7999999999974

>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=99.77  E-value=8.9e-20  Score=106.97  Aligned_cols=64  Identities=22%  Similarity=0.511  Sum_probs=60.8

Q ss_pred             ccccccCccccccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchhh
Q psy8111           3 SAVKHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEE   67 (135)
Q Consensus         3 ~~C~~C~~~i~~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~   67 (135)
                      ..|.+|+++|.+++|.++++.||++ ||+|+.|+++|.+..|+.++|++||+.||.++++++|++
T Consensus         6 ~~C~~C~~~I~~~~~~a~~~~~H~~-CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~g   69 (69)
T 2cur_A            6 SGCVKCNKAITSGGITYQDQPWHAD-CFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFVSGPSSG   69 (69)
T ss_dssp             CCCSSSCCCCCTTCEEETTEEECTT-TTBCTTTCCBCTTSCEEECSSCEEEHHHHHHHHTCSCCC
T ss_pred             CCCcccCCEeCcceEEECccccccC-cCEECCCCCCCCCCccEeECCEEECHHHhHHHhcCCCCC
Confidence            5799999999999999999999999 999999999999889999999999999999999999864

>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=99.77  E-value=1.4e-19  Score=109.36  Aligned_cols=69  Identities=14%  Similarity=0.317  Sum_probs=56.3

Q ss_pred             ccccccCcccc-ccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchhhcCCcc
Q psy8111           3 SAVKHQDKSFR-EDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKII   72 (135)
Q Consensus         3 ~~C~~C~~~i~-~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I   72 (135)
                      ..|.+|+++|. ++.|.++++.||++ ||+|+.|+++|.+..|+.+++++||+.||.++++++|.+|++..
T Consensus         8 ~~C~~C~~~I~~~~~~~a~~~~~H~~-CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~gcg~g~   77 (81)
T 1a7i_A            8 NKCGACGRTVYHAEEVQCDGRSFHRC-CFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYGPKGYGYGQGA   77 (81)
T ss_dssp             CBCSSSCCBCSSTTEEEETTEEEESS-SEECSSSCCEECSSCCEEETTEEECSHHHHHHCC----------
T ss_pred             CcCcCcCccccCceeEEeCCcccccc-cCccCCCCCCCCCCCeEeeCCEEECHHHHHHHhCCcccccCCcc
Confidence            57999999996 78899999999999 99999999999988899999999999999999999999998865

>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=99.77  E-value=2e-19  Score=104.61  Aligned_cols=64  Identities=22%  Similarity=0.566  Sum_probs=59.6

Q ss_pred             hcCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCC
Q psy8111          60 VFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASR  125 (135)
Q Consensus        60 ~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~  125 (135)
                      +++++|++|+++|.  +..|.++++.||++||+|..|+++|.++.|+..++++||+.||.++|++|
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            46789999999996  56789999999999999999999999888999999999999999999986

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

Probab=99.77  E-value=1.9e-19  Score=117.80  Aligned_cols=73  Identities=30%  Similarity=0.615  Sum_probs=66.1

Q ss_pred             CCchhhcCCccccCcccceeCCccccccccccccccccCCC--CCeeeeCCcccCHHhHhhhcCC--CcccCCCCCCC
Q psy8111          62 ANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVD--KQFGSKSEKIYCGNCYDAQFAS--RCDGCSEIFKA  135 (135)
Q Consensus        62 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~--~~~~~~~~~~~C~~c~~~~~~~--~C~~C~~~I~~  135 (135)
                      .++|++|+++|. +..++.++++.||++||+|+.|+++|..  ..|+..+|+|||+.||.++|++  +|++|+++|.+
T Consensus         2 ~~~C~~C~~~I~-~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~~~~C~~C~~~I~~   78 (131)
T 2xjy_A            2 LLTCGGCQQNIG-DRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIRA   78 (131)
T ss_dssp             CCBBTTTCCBCC-SSEEEEETTEEEETTTCBCTTTCCBCSSTTCCEEEETTEEECHHHHHHHHCCCEECTTTCCEECT
T ss_pred             cccCcCCCCEeC-CcEEEEECCCcccHHHcccCcCCCccccCCCeEEEECCEEeecCchhhhCCCccChhhcCCccCc
Confidence            368999999997 4446899999999999999999999963  5799999999999999999999  99999999964

>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=99.77  E-value=1.4e-19  Score=106.38  Aligned_cols=64  Identities=25%  Similarity=0.535  Sum_probs=60.7

Q ss_pred             ccccccCccccccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchhh
Q psy8111           3 SAVKHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEE   67 (135)
Q Consensus         3 ~~C~~C~~~i~~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~   67 (135)
                      ..|.+|+++|.++.|.++++.||++ ||+|+.|+++|.+..|+.++|++||+.||.++++++|++
T Consensus         6 ~~C~~C~~~I~~~~~~a~~~~~H~~-CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~~   69 (70)
T 2d8z_A            6 SGCVQCKKPITTGGVTYREQPWHKE-CFVCTACRKQLSGQRFTARDDFAYCLNCFCDLYASGPSS   69 (70)
T ss_dssp             CBCSSSCCBCCSSEEESSSSEEETT-TSBCSSSCCBCTTSCCEESSSSEECHHHHHHHTCCCCTT
T ss_pred             CCCcccCCeeccceEEECccccCCC-CCccCCCCCcCCcCceEeeCCeEECHHHHHHHhccccCC
Confidence            5799999999999999999999999 999999999999889999999999999999999999863

>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=99.76  E-value=4.2e-19  Score=107.08  Aligned_cols=65  Identities=34%  Similarity=0.680  Sum_probs=59.4

Q ss_pred             CCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCccc
Q psy8111          62 ANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDG  128 (135)
Q Consensus        62 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~  128 (135)
                      .++|.+|+++|.+ +..|.++++.||++||+|..|+++|.+ .|+.++++|||+.||.++|+++|++
T Consensus        15 ~~~C~~C~~~I~~-~~~v~a~~~~wH~~CF~C~~C~~~L~~-~~~~~~g~~yC~~~y~~~fg~~C~~   79 (80)
T 2dj7_A           15 PSHCAGCKEEIKH-GQSLLALDKQWHVSCFKCQTCSVILTG-EYISKDGVPYCESDYHAQFGSGPSS   79 (80)
T ss_dssp             CSCCTTTCCCCSS-SCCEEETTEEECTTTCBCSSSCCBCSS-CCEEETTEEECTTHHHHHTTCCSTT
T ss_pred             CCCCcCcCCeeCC-CeEEEECCcccccccCCcCcCCCCcCC-CeEEECCEEECHHHHHHHcCCCCCC
Confidence            4789999999973 567899999999999999999999986 5899999999999999999999974

>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=99.76  E-value=5.5e-19  Score=105.47  Aligned_cols=65  Identities=25%  Similarity=0.416  Sum_probs=60.6

Q ss_pred             cccccccCcccc-ccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeecc-CchhhhcCCchhh
Q psy8111           2 ESAVKHQDKSFR-EDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCI-KCYESVFANSCEE   67 (135)
Q Consensus         2 ~~~C~~C~~~i~-~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~-~c~~~~~~~~C~~   67 (135)
                      ...|.+|+++|. ++.|.|+++.||++ ||+|..|+++|.+..|+.++|++||+ .||.++++++|.+
T Consensus         9 ~~~C~~C~~~I~~~~~v~a~~~~~H~~-CF~C~~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~~kc~g   75 (76)
T 2cu8_A            9 ASKCPKCDKTVYFAEKVSSLGKDWHKF-CLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFGSGPSS   75 (76)
T ss_dssp             CCBCTTTCCBCCTTTEEEETTEEEETT-TCBCSSSCCBCCTTSCEEETTEEECTTTHHHHHSCSSCSC
T ss_pred             CCCCcCCCCEeECCeEEEECCeEeeCC-CCCCCCCCCccCCCceEeECCEEecchHHHHHhcccccCC
Confidence            357999999999 78899999999999 99999999999988899999999999 7999999999863

>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=99.76  E-value=3.1e-19  Score=109.85  Aligned_cols=63  Identities=24%  Similarity=0.457  Sum_probs=60.3

Q ss_pred             ccccccCccccccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchh
Q psy8111           3 SAVKHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCE   66 (135)
Q Consensus         3 ~~C~~C~~~i~~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~   66 (135)
                      ..|.+|+++|.+++|.|+++.||++ ||+|..|+++|.+..|+.++|++||+.||.++++++|+
T Consensus        26 ~~C~~C~~~I~~~~v~a~~~~~H~~-CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~c~   88 (90)
T 2dar_A           26 PMCAHCNQVIRGPFLVALGKSWHPE-EFNCAHCKNTMAYIGFVEEKGALYCELCYEKFFASGPS   88 (90)
T ss_dssp             CBBSSSCCBCCSCEEEETTEEECTT-TCBCSSSCCBCSSSCBEESSSCEECHHHHHHHTSCCCC
T ss_pred             CCCccCCCEecceEEEECCcccccc-CCccCCCCCCCCCCEeEeECCEEECHHHHHHHcCCCCC
Confidence            4699999999999999999999999 99999999999988899999999999999999999986

>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=99.75  E-value=4.5e-19  Score=104.70  Aligned_cols=64  Identities=23%  Similarity=0.501  Sum_probs=60.2

Q ss_pred             cccccccCcccc--ccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchh
Q psy8111           2 ESAVKHQDKSFR--EDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCE   66 (135)
Q Consensus         2 ~~~C~~C~~~i~--~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~   66 (135)
                      ...|.+|+++|.  +++|.|+++.||++ ||+|+.|+++|.+..|+.++|++||+.||.++++++|+
T Consensus         5 ~~~C~~C~~~I~~~~~~~~a~~~~~H~~-CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~   70 (72)
T 1wyh_A            5 SSGCSACGETVMPGSRKLEYGGQTWHEH-CFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFASGPS   70 (72)
T ss_dssp             CCBCSSSCCBCCSSSCEECSTTCCEETT-TCBCTTTCCBTTTSCEEEETTEEEEHHHHHHHTSCCCC
T ss_pred             CCCCccCCCccccCccEEEECccccCcc-cCeECCCCCcCCCCccCCcCCeEECHHHHHHHccCcCC
Confidence            357999999999  67899999999999 99999999999998999999999999999999999986

>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=99.75  E-value=4.4e-19  Score=103.12  Aligned_cols=62  Identities=21%  Similarity=0.426  Sum_probs=58.2

Q ss_pred             cccccccCccccccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCc
Q psy8111           2 ESAVKHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANS   64 (135)
Q Consensus         2 ~~~C~~C~~~i~~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~   64 (135)
                      ...|.+|+++|.+++|.|+|+.||++ ||+|+.|+++|.+..|+.++|++||+.||.++++++
T Consensus         5 ~~~C~~C~~~I~~~~~~a~~~~~H~~-CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~k   66 (66)
T 1nyp_A            5 VPICGACRRPIEGRVVNAMGKQWHVE-HFVCAKCEKPFLGHRHYERKGLAYCETHYNQLFGDV   66 (66)
T ss_dssp             CCEETTTTEECCSCEECCTTSBEETT-TCBCTTTCCBCSSSCCEEETTEEECHHHHHHHCSCC
T ss_pred             CCCCcccCCEecceEEEECccccccC-cCEECCCCCCCCCCceEeECCcEECHHHHHHHhCCC
Confidence            35799999999999999999999999 999999999999989999999999999999998764

>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=8.2e-19  Score=105.80  Aligned_cols=63  Identities=24%  Similarity=0.391  Sum_probs=58.7

Q ss_pred             ccccccCcccc-ccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchhh
Q psy8111           3 SAVKHQDKSFR-EDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEE   67 (135)
Q Consensus         3 ~~C~~C~~~i~-~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~   67 (135)
                      ..|.+|+++|. +++|.|+++.||++ ||+|..|+++|.+ .|+.++|++||+.||.++|+++|++
T Consensus        16 ~~C~~C~~~I~~~~~v~a~~~~wH~~-CF~C~~C~~~L~~-~~~~~~g~~yC~~~y~~~fg~~C~~   79 (80)
T 2dj7_A           16 SHCAGCKEEIKHGQSLLALDKQWHVS-CFKCQTCSVILTG-EYISKDGVPYCESDYHAQFGSGPSS   79 (80)
T ss_dssp             SCCTTTCCCCSSSCCEEETTEEECTT-TCBCSSSCCBCSS-CCEEETTEEECTTHHHHHTTCCSTT
T ss_pred             CCCcCcCCeeCCCeEEEECCcccccc-cCCcCcCCCCcCC-CeEEECCEEECHHHHHHHcCCCCCC
Confidence            46999999997 78899999999999 9999999999996 5999999999999999999999864

>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=99.75  E-value=7.3e-19  Score=119.81  Aligned_cols=72  Identities=31%  Similarity=0.748  Sum_probs=65.1

Q ss_pred             CCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCcccCCCCCCC
Q psy8111          62 ANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEIFKA  135 (135)
Q Consensus        62 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I~~  135 (135)
                      .++|.+|+++|. +..++.++|+.||++||+|..|+++|.+..| .++|++||+.||.++|+++|++|+++|.+
T Consensus         6 ~~~C~~C~~~I~-~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f-~~~g~~yC~~~y~~~f~~~C~~C~~~I~~   77 (169)
T 2rgt_A            6 IPMCAGCDQHIL-DRFILKALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRFGTKCAACQLGIPP   77 (169)
T ss_dssp             -CBBSSSSSBCC-SSSCEECSSCEECTTTSBCTTTCCBCCSCCE-ESSSCEECHHHHHHHHSCBCTTTCCBCCT
T ss_pred             CCccccCCCccC-CcEEEEECCcEEccccCccCCCCCcCCCCCc-ccCCeeeecccccccccccccccccccCC
Confidence            579999999997 4556889999999999999999999988764 78999999999999999999999999964

>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=99.74  E-value=5.9e-19  Score=106.23  Aligned_cols=64  Identities=16%  Similarity=0.253  Sum_probs=60.8

Q ss_pred             ccccccCccccccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchhh
Q psy8111           3 SAVKHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEE   67 (135)
Q Consensus         3 ~~C~~C~~~i~~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~   67 (135)
                      ..|.+|+++|.+++|.|+++.||++ ||+|+.|+++|.+..|+.++|++||+.||.++++++|++
T Consensus        16 ~~C~~C~~~I~~~~v~a~~~~~H~~-CF~C~~C~~~L~~~~~~~~~~~~yC~~~y~~~f~~~C~~   79 (80)
T 1x3h_A           16 PKCGGCNRPVLENYLSAMDTVWHPE-CFVCGDCFTSFSTGSFFELDGRPFCELHYHHRRGSGPSS   79 (80)
T ss_dssp             CBCTTTCCBCCSSCEEETTEEECTT-TCBCSSSCCBSCSSCCEESSSCEECHHHHHHHHSSSCCC
T ss_pred             CccccCCCeecceeEEECCCeEecC-cCChhhCCCCCCCCcEEeECCEEECHHHHHHHcCCCCCC
Confidence            5799999999999999999999999 999999999999888999999999999999999999863

>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=99.74  E-value=7.4e-19  Score=103.74  Aligned_cols=63  Identities=19%  Similarity=0.507  Sum_probs=59.4

Q ss_pred             ccccccCcccc--ccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchh
Q psy8111           3 SAVKHQDKSFR--EDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCE   66 (135)
Q Consensus         3 ~~C~~C~~~i~--~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~   66 (135)
                      ..|.+|+++|.  +.+|.|+|+.||++ ||+|..|+++|.+..|+.++|++||+.||.++++++|+
T Consensus         6 ~~C~~C~~~I~~~~~~~~a~~~~~H~~-CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~   70 (72)
T 1x4k_A            6 SGCQECKKTIMPGTRKMEYKGSSWHET-CFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQHASGPS   70 (72)
T ss_dssp             CCBSSSCCCCCSSSCEEEETTEEEETT-TTCCSSSCCCCCSSSEEEETTEEEEHHHHHHHTSSCCC
T ss_pred             CCCccCCCcccCCceEEEECcCeeccc-CCcccccCCccCCCccCccCCeEECHHHHhHHhCCCCC
Confidence            57999999999  46899999999999 99999999999998999999999999999999999986

>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=99.74  E-value=1.5e-18  Score=104.96  Aligned_cols=63  Identities=19%  Similarity=0.391  Sum_probs=59.6

Q ss_pred             ccccccCcccc--ccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchh
Q psy8111           3 SAVKHQDKSFR--EDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCE   66 (135)
Q Consensus         3 ~~C~~C~~~i~--~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~   66 (135)
                      ..|.+|+++|.  +.+|.|+++.||++ ||+|+.|+++|.+..|+.++|++||+.||.++++++|+
T Consensus        16 ~~C~~C~~~I~~~~~~~~a~~~~~H~~-CF~C~~C~~~L~~~~f~~~~~~~~C~~c~~~~~~~~C~   80 (82)
T 2ehe_A           16 NTCAECQQLIGHDSRELFYEDRHFHEG-CFRCCRCQRSLADEPFTCQDSELLCNDCYCSAFSSGPS   80 (82)
T ss_dssp             CBCTTTCCBCCSSCCBCCCSSCCCBTT-TSBCTTTCCBCSSCCEEEETTEEEETTTSSCCGGGSSC
T ss_pred             CcCccCCCccccCcEEEEeCCcccccc-CCeecCCCCccCCCccEeeCCEEECHHHHhhhcCCCCC
Confidence            57999999999  67899999999999 99999999999988999999999999999999999885

>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=99.74  E-value=1.1e-18  Score=102.97  Aligned_cols=69  Identities=26%  Similarity=0.581  Sum_probs=60.9

Q ss_pred             hcCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCcccC
Q psy8111          60 VFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGC  129 (135)
Q Consensus        60 ~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C  129 (135)
                      .++++|.+|+++|.+.+.+|.++++.||++||+|..|+++|.+..|+..+++|||+.||.++|+ +|+.+
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~~~-~~~~~   71 (72)
T 1x61_A            3 SGSSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVATLE-SGPSS   71 (72)
T ss_dssp             SCCCCCSSSCSCCCSSSCCEECSSSEECTTTCBCSSSCCBCTTSCEEESSSCEEEHHHHHHHHH-TCSSC
T ss_pred             CCCCCCccCCCccCCCceEEEECCCeEcccCCcccccCCcCCcCcCEeeCCeEECHHHHHHHHc-cCCCC
Confidence            3578999999999865678999999999999999999999988889999999999999999884 45543

>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=99.74  E-value=1.3e-18  Score=111.45  Aligned_cols=68  Identities=29%  Similarity=0.453  Sum_probs=61.6

Q ss_pred             CCchhhcCCccccCcccceeCCccccccccccccccccCCC--CCeeeeCCcccCHHhHhhhcCCCcccCC
Q psy8111          62 ANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVD--KQFGSKSEKIYCGNCYDAQFASRCDGCS  130 (135)
Q Consensus        62 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~--~~~~~~~~~~~C~~c~~~~~~~~C~~C~  130 (135)
                      .++|++|+++|. +..++.++++.||++||+|+.|+++|.+  ..|+.++++|||+.||.++|+++|..|.
T Consensus         3 ~~~C~~C~~~I~-~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~~y~~~f~~~c~~c~   72 (114)
T 1j2o_A            3 LLTCGGCQQNIG-DRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGGSGGHMGS   72 (114)
T ss_dssp             CBCBSSSCSCBC-SSEEEECSSSEECTTTCCCSSSCSCCCCSSSCCCCBTTBCCCHHHHHHHHTSCCSSCB
T ss_pred             CCCCcCCCCeeC-CcEEEEECchhHHHhcCcccccCCchhcCCCeeEEECCeeechHHHHHHhCcccCcCC
Confidence            478999999997 4457999999999999999999999985  5799999999999999999999988775

>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=99.74  E-value=2.7e-18  Score=105.86  Aligned_cols=70  Identities=26%  Similarity=0.516  Sum_probs=62.9

Q ss_pred             hcCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCcccCC
Q psy8111          60 VFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCS  130 (135)
Q Consensus        60 ~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~  130 (135)
                      ..+++|.+|+++|.+ ...|.++++.||++||+|..|+++|.+..|+..++++||+.||.++|+++|+.+.
T Consensus        13 ~~~~~C~~C~~~I~~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~kc~~~~   82 (91)
T 2d8y_A           13 PARETCVECQKTVYP-MERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNYDE   82 (91)
T ss_dssp             SSSCBCTTTCCBCCT-TSEEECSSSEEETTTCBCTTTCCBCCTTTCCCSSSCCCCHHHHHHHSCCCSCCCS
T ss_pred             CCCCcCccCCCccCC-ceeEEECCCEECCCCCeeCCCCCCCCCCCcEeECCEEECHHHHHHHhCCCcCccC
Confidence            346899999999974 3467899999999999999999999988899999999999999999999998554

>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=99.74  E-value=1.1e-18  Score=102.80  Aligned_cols=67  Identities=24%  Similarity=0.562  Sum_probs=60.6

Q ss_pred             hhhhcCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcC
Q psy8111          57 YESVFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFA  123 (135)
Q Consensus        57 ~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~  123 (135)
                      |...++++|++|+++|.+.+.++.+.++.||++||+|..|+++|.++.|+..+|+|||+.||.++|+
T Consensus         6 y~~~~~~~C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~lf~   72 (72)
T 3f6q_B            6 FQGSASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA   72 (72)
T ss_dssp             CCCCTTCBCTTTCCBCCTTCEEEEETTEEEETTTSSCTTTCCCCGGGCCEEETTEEECHHHHHHHTC
T ss_pred             ccCcCCccchhcCccccCCceEEEeCcCeeCcCCCcccCCCCCCCCCCeEeECCeEeCHHHHHHhhC
Confidence            3446788999999999866767889999999999999999999998889999999999999999886

>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=99.74  E-value=9.1e-19  Score=105.71  Aligned_cols=64  Identities=19%  Similarity=0.364  Sum_probs=59.5

Q ss_pred             ccccccCccccccceeeCCCcccCCCCeeccccCCccCCCceEeE-CCeeeccCchhhhcCCchhh
Q psy8111           3 SAVKHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLR-DDHPYCIKCYESVFANSCEE   67 (135)
Q Consensus         3 ~~C~~C~~~i~~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~-~~~~~C~~c~~~~~~~~C~~   67 (135)
                      ..|.+|+++|.+++|.|+++.||++ ||+|+.|+++|.+..|+.. +|++||+.||.++++++|++
T Consensus        16 ~~C~~C~~~I~~~~~~a~~~~~H~~-CF~C~~C~~~L~~~~f~~~~~g~~yC~~cy~~~f~~~C~~   80 (81)
T 2dlo_A           16 EKCATCSQPILDRILRAMGKAYHPG-CFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFASGPSS   80 (81)
T ss_dssp             CBCTTTCCBCCSCCEEETTEEECTT-TCBCSSSCCBCTTSCEECCTTCCCEEHHHHHHHTTSSSCC
T ss_pred             CccccCCCeecceeEEECCccccHH-hcCcccCCCccCCCeeEECCCCEEECHHHHHHHhcCcCCC
Confidence            5799999999999999999999999 9999999999998888876 78999999999999999863

>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=99.73  E-value=1.2e-18  Score=102.92  Aligned_cols=62  Identities=19%  Similarity=0.389  Sum_probs=58.0

Q ss_pred             ccccccCccccc----cceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCch
Q psy8111           3 SAVKHQDKSFRE----DYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSC   65 (135)
Q Consensus         3 ~~C~~C~~~i~~----~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C   65 (135)
                      ..|.+|+++|.+    ++|.|+++.||++ ||+|+.|+++|.+..|+.++|++||..||.++++|++
T Consensus         6 ~~C~~C~~~I~~~~~~~~~~a~~~~wH~~-CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~p~~   71 (72)
T 1x4l_A            6 SGCAGCTNPISGLGGTKYISFEERQWHND-CFNCKKCSLSLVGRGFLTERDDILCPDCGKDISGPSS   71 (72)
T ss_dssp             CSBTTTTBCCCCSSSCSCEECSSCEECTT-TCBCSSSCCBCTTSCCEECSSSEECHHHHHTCCCSSC
T ss_pred             CCCcCCCccccCCCCcceEEECCcccCcc-cCEeccCCCcCCCCccEeECCEEEChhHcCcccCCCC
Confidence            579999999996    7899999999999 9999999999998899999999999999999998764

>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=99.73  E-value=1.2e-18  Score=104.83  Aligned_cols=63  Identities=22%  Similarity=0.544  Sum_probs=60.3

Q ss_pred             ccccccCccccccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchh
Q psy8111           3 SAVKHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCE   66 (135)
Q Consensus         3 ~~C~~C~~~i~~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~   66 (135)
                      ..|.+|+++|.+++|.|+++.||++ ||+|+.|+++|.+..|+.++|++||+.||.++++++|+
T Consensus        16 ~~C~~C~~~I~~~~v~a~~~~~H~~-CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~   78 (80)
T 2cuq_A           16 PRCARCSKTLTQGGVTYRDQPWHRE-CLVCTGCQTPLAGQQFTSRDEDPYCVACFGELFASGPS   78 (80)
T ss_dssp             CCCTTTCCCCCSCCEESSSSEECTT-TCBCSSSCCBCTTCCEEECSSSEEEHHHHHHHTTCSTT
T ss_pred             CcCCCCCCEecCcEEEECCchhhhh-hCCcccCCCcCCCCeeEeECCEEECHHHHHHHcCCCCC
Confidence            5799999999999999999999999 99999999999988899999999999999999999986

>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=99.73  E-value=9.4e-19  Score=121.16  Aligned_cols=75  Identities=32%  Similarity=0.595  Sum_probs=67.2

Q ss_pred             hcCCchhhcCCccccCcccceeCCccccccccccccccccCCC--CCeeeeCCcccCHHhHhhhcCC--CcccCCCCCCC
Q psy8111          60 VFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVD--KQFGSKSEKIYCGNCYDAQFAS--RCDGCSEIFKA  135 (135)
Q Consensus        60 ~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~--~~~~~~~~~~~C~~c~~~~~~~--~C~~C~~~I~~  135 (135)
                      +..++|.+|+++|. +..++.++++.||++||+|..|+++|.+  ..|+.+++++||+.||.++|++  +|.+|+++|.+
T Consensus         3 l~~~~C~~C~~~I~-~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~cy~~~~~~~~~C~~C~~~I~~   81 (188)
T 1rut_X            3 LSWKRCAGCGGKIA-DRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPA   81 (188)
T ss_dssp             -CCCBBTTTCCBCC-CSEEEEETTEEECGGGCBCTTTCCBHHHHCSEEEEETTEEECHHHHHHHHSCCEECTTTCCEECT
T ss_pred             CCCCcCccCCCEeC-CceeEEecCcEecccCcccCCCCcccccCCceEEEeCCccccccccccccccCCccccCCCcccc
Confidence            34689999999997 4456899999999999999999999985  6899999999999999999999  79999999963

>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=99.73  E-value=2.4e-18  Score=101.10  Aligned_cols=62  Identities=18%  Similarity=0.195  Sum_probs=58.1

Q ss_pred             ccccccCccccccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCch
Q psy8111           3 SAVKHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSC   65 (135)
Q Consensus         3 ~~C~~C~~~i~~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C   65 (135)
                      ..|.+|+++|.+++|.|+++.||++ ||+|..|+++|.+..|+.++|++||+.||.++++++.
T Consensus         6 ~~C~~C~~~I~~~~~~a~~~~~H~~-CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~   67 (70)
T 2d8x_A            6 SGCHQCGEFIIGRVIKAMNNSWHPE-CFRCDLCQEVLADIGFVKNAGRHLCRPCHNREKASGP   67 (70)
T ss_dssp             SBCSSSCCBCCSCCEEETTEEECTT-TSBCSSSCCBCSSSCCEEETTEEECHHHHHHHHCCCS
T ss_pred             CcCccCCCEecceEEEECccccccc-CCEeCCCCCcCCCCccEeECCeEECHHHhhhhcCCCC
Confidence            5799999999999999999999999 9999999999999889999999999999999987643

>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=99.73  E-value=5.2e-18  Score=102.02  Aligned_cols=65  Identities=25%  Similarity=0.542  Sum_probs=58.7

Q ss_pred             hcCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCcc
Q psy8111          60 VFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCD  127 (135)
Q Consensus        60 ~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~  127 (135)
                      .+.++|.+|+++|.  +..|.++++.||++||+|..|+++|.+.. +.++++|||..||.++|+|+++
T Consensus        13 ~~~~~C~~C~~~I~--~~~v~a~~~~~H~~CF~C~~C~~~L~~~~-f~~~g~~yC~~cy~~~f~p~~s   77 (79)
T 2cor_A           13 LGKYICQKCHAIID--EQPLIFKNDPYHPDHFNCANCGKELTADA-RELKGELYCLPCHDKMGVSGPS   77 (79)
T ss_dssp             CCCCBCTTTCCBCC--SCCCCCSSSCCCTTTSBCSSSCCBCCTTC-EEETTEEECHHHHHTTSCCSSC
T ss_pred             cCCCCCccCCCEec--ceEEEECcceeCCCCCEeCCCCCccCCCC-EeECCEEeCHHHHHHhCCCCCC
Confidence            34689999999996  66789999999999999999999999875 4889999999999999999875

>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=99.72  E-value=2.7e-18  Score=105.41  Aligned_cols=63  Identities=16%  Similarity=0.260  Sum_probs=59.6

Q ss_pred             ccccccCccccccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchh
Q psy8111           3 SAVKHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCE   66 (135)
Q Consensus         3 ~~C~~C~~~i~~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~   66 (135)
                      ..|.+|+++|.+++|.|+++.||++ ||+|..|+++|.+..|+.++|++||+.||.+++++++.
T Consensus        26 ~~C~~C~~~I~~~~~~a~~~~~H~~-CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~p~~~   88 (89)
T 1x64_A           26 PLCDKCGSGIVGAVVKARDKYRHPE-CFVCADCNLNLKQKGYFFVEGELYCETHARARTSGPSS   88 (89)
T ss_dssp             CBCTTTCCBCCSCCEESSSCEECTT-TCCCSSSCCCTTTSCCEEETTEEECHHHHHHHSSSCCC
T ss_pred             CCcccCCCEecccEEEECCceECcc-CCEecCCCCCCCCCCeEeECCEEECHHHHHHHhCCCCC
Confidence            4699999999999999999999999 99999999999988899999999999999999998764

>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=99.72  E-value=4.4e-18  Score=99.94  Aligned_cols=65  Identities=25%  Similarity=0.612  Sum_probs=59.7

Q ss_pred             cCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCcc
Q psy8111          61 FANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCD  127 (135)
Q Consensus        61 ~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~  127 (135)
                      ..++|.+|+++|.  +.+|.++++.||++||+|..|+++|.+..|+..++++||+.||.++|+++..
T Consensus         4 ~~~~C~~C~~~I~--~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~~   68 (70)
T 2d8x_A            4 GSSGCHQCGEFII--GRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNREKASGPS   68 (70)
T ss_dssp             CSSBCSSSCCBCC--SCCEEETTEEECTTTSBCSSSCCBCSSSCCEEETTEEECHHHHHHHHCCCSC
T ss_pred             CCCcCccCCCEec--ceEEEECcccccccCCEeCCCCCcCCCCccEeECCeEECHHHhhhhcCCCCC
Confidence            4679999999996  5679999999999999999999999998899999999999999999998754

>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=99.72  E-value=4.5e-18  Score=100.81  Aligned_cols=64  Identities=23%  Similarity=0.528  Sum_probs=58.2

Q ss_pred             hcCCchhhcCCccccCcccceeCCccccccccccccccccCC-CCCeeeeCCcccCHHhHhhhcCCC
Q psy8111          60 VFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLV-DKQFGSKSEKIYCGNCYDAQFASR  125 (135)
Q Consensus        60 ~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~~~~~~C~~c~~~~~~~~  125 (135)
                      +++++|++|+++|.  +.+|.++++.||++||+|..|+++|. +..|+..++++||..||.++++..
T Consensus         3 ~~~~~C~~C~~~I~--~~~v~a~~~~wH~~CF~C~~C~~~L~~~~~f~~~~~~~yC~~C~~~~~~~~   67 (73)
T 1wig_A            3 SGSSGCDSCEKYIT--GRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWHPACRQAARTED   67 (73)
T ss_dssp             CSCCSCSSSCCCCS--SCCBCCSSCCBCTTTSCCSSSCCCCCSSCCCEEETTEEECTTHHHHTSSSS
T ss_pred             cCcCCcccCCCEec--CeeEEeCCCCCCCCcCEeCCCCCCCCCCCeeEeeCCEEEChHHChHhhccc
Confidence            46899999999996  47889999999999999999999998 678999999999999999988754

>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=2.4e-18  Score=102.78  Aligned_cols=63  Identities=17%  Similarity=0.306  Sum_probs=57.3

Q ss_pred             ccccccCcccc--ccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchh
Q psy8111           3 SAVKHQDKSFR--EDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCE   66 (135)
Q Consensus         3 ~~C~~C~~~i~--~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~   66 (135)
                      ..|.+|+++|.  +.++.++|+.||++ ||+|..|+++|.+..|+.++|++||+.||.++++++|+
T Consensus        12 ~~C~~C~~~I~~~~~~~~a~~~~~H~~-CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~~C~   76 (77)
T 1g47_A           12 ATCERCKGGFAPAEKIVNSNGELYHEQ-CFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAPCWI   76 (77)
T ss_dssp             CBCSSSCCBCCSTTTCEEETTEEECTT-TCCCTTTCCCCGGGCSEEETTEEECHHHHHHHCCCC--
T ss_pred             CCchhcCCccCCCceEEEeCccEeccc-cCeECCCCCCCCCCCeEeECCeEeCHHHHHHHhhcccC
Confidence            57999999996  56789999999999 99999999999988899999999999999999999885

>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=99.72  E-value=6.1e-18  Score=103.85  Aligned_cols=66  Identities=24%  Similarity=0.488  Sum_probs=60.5

Q ss_pred             cCCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCccc
Q psy8111          61 FANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDG  128 (135)
Q Consensus        61 ~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~  128 (135)
                      ..++|.+|+++|.  +++|.++++.||++||+|..|+++|.+..|+..++++||+.||.++|++++.+
T Consensus        24 ~~~~C~~C~~~I~--~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~p~~~g   89 (89)
T 1x64_A           24 RMPLCDKCGSGIV--GAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETHARARTSGPSSG   89 (89)
T ss_dssp             SCCBCTTTCCBCC--SCCEESSSCEECTTTCCCSSSCCCTTTSCCEEETTEEECHHHHHHHSSSCCCC
T ss_pred             cCCCcccCCCEec--ccEEEECCceECccCCEecCCCCCCCCCCeEeECCEEECHHHHHHHhCCCCCC
Confidence            3579999999996  46799999999999999999999999888999999999999999999999863

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

Probab=99.71  E-value=4.6e-18  Score=98.58  Aligned_cols=61  Identities=26%  Similarity=0.733  Sum_probs=55.4

Q ss_pred             cCCchhhcCCccccCcccceeCCcccc--ccccccccccccCCCCCeeeeCCcccC-HHhHhhh
Q psy8111          61 FANSCEECSKIIGIDSKDLSYKDKHWH--EACFSCSKCRQSLVDKQFGSKSEKIYC-GNCYDAQ  121 (135)
Q Consensus        61 ~~~~C~~C~~~I~~~~~~~~~~~~~~H--~~Cf~C~~C~~~l~~~~~~~~~~~~~C-~~c~~~~  121 (135)
                      |+++|++|+++|.+++..|.++++.||  ++||+|+.|+++|.+..|+..+|+||| .+||.++
T Consensus         1 fa~~C~~C~~~I~~~~~~v~a~~~~wH~~~~CF~C~~C~~~L~~~~f~~~~g~~yC~~~C~~k~   64 (65)
T 2iyb_E            1 HAVVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKRM   64 (65)
T ss_dssp             -CEECTTTSSEECTTSCEEEETTEEEETTTTTSBCTTTCCBCTTSCCEEETTEEESSHHHHHTT
T ss_pred             CcCCCcCCCCeeccCceEEEECCCccCCCCCCEECCCCCCcCCCCceEEECCEEecCHHHhhhh
Confidence            467999999999865678999999999  999999999999999899999999999 9998765

>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=99.71  E-value=7.5e-18  Score=99.85  Aligned_cols=59  Identities=15%  Similarity=0.270  Sum_probs=55.5

Q ss_pred             ccccccCccccccceeeCCCcccCCCCeeccccCCccC-CCceEeECCeeeccCchhhhcC
Q psy8111           3 SAVKHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLT-GQRYVLRDDHPYCIKCYESVFA   62 (135)
Q Consensus         3 ~~C~~C~~~i~~~~i~a~~~~~H~~~cf~C~~C~~~l~-~~~~~~~~~~~~C~~c~~~~~~   62 (135)
                      ..|.+|+++|.+++|.|+|+.||++ ||+|+.|+++|. +..|+.++|++||..||.+.++
T Consensus         6 ~~C~~C~~~I~~~~v~a~~~~wH~~-CF~C~~C~~~L~~~~~f~~~~~~~yC~~C~~~~~~   65 (73)
T 1wig_A            6 SGCDSCEKYITGRVLEAGEKHYHPS-CALCVRCGQMFAEGEEMYLQGSSIWHPACRQAART   65 (73)
T ss_dssp             CSCSSSCCCCSSCCBCCSSCCBCTT-TSCCSSSCCCCCSSCCCEEETTEEECTTHHHHTSS
T ss_pred             CCcccCCCEecCeeEEeCCCCCCCC-cCEeCCCCCCCCCCCeeEeeCCEEEChHHChHhhc
Confidence            5799999999999999999999999 999999999998 6789999999999999998765

>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=99.71  E-value=6.2e-18  Score=101.65  Aligned_cols=61  Identities=16%  Similarity=0.270  Sum_probs=56.7

Q ss_pred             ccccccCccccccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCch
Q psy8111           3 SAVKHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSC   65 (135)
Q Consensus         3 ~~C~~C~~~i~~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C   65 (135)
                      ..|.+|+++|.+++|.|+|+.||++ ||+|..|+++|.+. ++.++|++||+.||.++++|.+
T Consensus        16 ~~C~~C~~~I~~~~v~a~~~~~H~~-CF~C~~C~~~L~~~-~f~~~g~~yC~~cy~~~f~p~~   76 (79)
T 2cor_A           16 YICQKCHAIIDEQPLIFKNDPYHPD-HFNCANCGKELTAD-ARELKGELYCLPCHDKMGVSGP   76 (79)
T ss_dssp             CBCTTTCCBCCSCCCCCSSSCCCTT-TSBCSSSCCBCCTT-CEEETTEEECHHHHHTTSCCSS
T ss_pred             CCCccCCCEecceEEEECcceeCCC-CCEeCCCCCccCCC-CEeECCEEeCHHHHHHhCCCCC
Confidence            4699999999999999999999999 99999999999987 4599999999999999998754

>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=99.71  E-value=1.1e-18  Score=104.93  Aligned_cols=63  Identities=16%  Similarity=0.315  Sum_probs=59.0

Q ss_pred             ccccccCccccccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchh
Q psy8111           3 SAVKHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCE   66 (135)
Q Consensus         3 ~~C~~C~~~i~~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~   66 (135)
                      ..|.+|+++|.+++|.|+++.||++ ||+|..|+++|.+..|+.+++++||+.||.++++++..
T Consensus        16 ~~C~~C~~~I~~~~~~a~~~~~H~~-CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~p~g~   78 (79)
T 1x62_A           16 PMCDKCGTGIVGVFVKLRDRHRHPE-CYVCTDCGTNLKQKGHFFVEDQIYCEKHARERVSGPSS   78 (79)
T ss_dssp             CCCSSSCCCCCSSCEECSSCEECTT-TTSCSSSCCCHHHHCCEESSSCEECHHHHHHHHSSCCC
T ss_pred             CccccCCCCccCcEEEECcceeCcC-cCeeCCCCCCCCCCCeEeECCEEECHHHHHHHhCCCCC
Confidence            4799999999999999999999999 99999999999877899999999999999999988753

>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=99.70  E-value=2.5e-18  Score=103.35  Aligned_cols=64  Identities=22%  Similarity=0.516  Sum_probs=59.3

Q ss_pred             CCchhhcCCccccCcccceeCCccccccccccccccccCCCCCeeeeCCcccCHHhHhhhcCCCcc
Q psy8111          62 ANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCD  127 (135)
Q Consensus        62 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~  127 (135)
                      .++|.+|+++|.  +.+|.++++.||++||+|..|+++|.+..|+..++++||+.||.++|+|+..
T Consensus        15 ~~~C~~C~~~I~--~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~p~g~   78 (79)
T 1x62_A           15 LPMCDKCGTGIV--GVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEKHARERVSGPSS   78 (79)
T ss_dssp             CCCCSSSCCCCC--SSCEECSSCEECTTTTSCSSSCCCHHHHCCEESSSCEECHHHHHHHHSSCCC
T ss_pred             CCccccCCCCcc--CcEEEECcceeCcCcCeeCCCCCCCCCCCeEeECCEEECHHHHHHHhCCCCC
Confidence            579999999996  4589999999999999999999999887899999999999999999999875

>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=99.70  E-value=8.2e-18  Score=101.63  Aligned_cols=63  Identities=19%  Similarity=0.390  Sum_probs=59.0

Q ss_pred             ccccccCcccc--ccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchh
Q psy8111           3 SAVKHQDKSFR--EDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCE   66 (135)
Q Consensus         3 ~~C~~C~~~i~--~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~   66 (135)
                      ..|.+|+++|.  +++|.|+++.||++ ||+|..|+++|.+..|+.++|++||+.||.+++++++.
T Consensus        16 ~~C~~C~~~I~~~~~~~~a~~~~~H~~-CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~~~   80 (82)
T 1x63_A           16 PKCKGCFKAIVAGDQNVEYKGTVWHKD-CFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKFASGPS   80 (82)
T ss_dssp             CBCSSSCCBCCSSSCEEECSSCEEETT-TCCCSSSCCCCTTSCEEEETTEEEEHHHHHHHTSCCCS
T ss_pred             CcCccCCcccccCceEEEECccccccc-cCchhhCCCccCCCccEeeCCEEECHHHHHHHhCCCCC
Confidence            57999999999  67899999999999 99999999999988999999999999999999998764

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

Probab=99.67  E-value=2.7e-17  Score=95.27  Aligned_cols=57  Identities=14%  Similarity=0.377  Sum_probs=52.9

Q ss_pred             ccccccCcccc--ccceeeCCCccc--CCCCeeccccCCccCCCceEeECCeeec-cCchhhh
Q psy8111           3 SAVKHQDKSFR--EDYNKLGGKDRG--SGQHFCCWQCDESLTGQRYVLRDDHPYC-IKCYESV   60 (135)
Q Consensus         3 ~~C~~C~~~i~--~~~i~a~~~~~H--~~~cf~C~~C~~~l~~~~~~~~~~~~~C-~~c~~~~   60 (135)
                      ..|.+|+++|.  ++.|.++|+.||  ++ ||+|+.|+++|.+..|+.++|++|| .+||.+.
T Consensus         3 ~~C~~C~~~I~~~~~~v~a~~~~wH~~~~-CF~C~~C~~~L~~~~f~~~~g~~yC~~~C~~k~   64 (65)
T 2iyb_E            3 VVCQGCHNAIDPEVQRVTYNNFSWHASTE-CFLCSCCSKCLIGQKFMPVEGMVFCSVECKKRM   64 (65)
T ss_dssp             EECTTTSSEECTTSCEEEETTEEEETTTT-TSBCTTTCCBCTTSCCEEETTEEESSHHHHHTT
T ss_pred             CCCcCCCCeeccCceEEEECCCccCCCCC-CEECCCCCCcCCCCceEEECCEEecCHHHhhhh
Confidence            57999999999  789999999999  99 9999999999999899999999999 7888653

>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=99.66  E-value=2.5e-17  Score=101.45  Aligned_cols=63  Identities=14%  Similarity=0.232  Sum_probs=59.4

Q ss_pred             ccccccCccccc-cceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchh
Q psy8111           3 SAVKHQDKSFRE-DYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCE   66 (135)
Q Consensus         3 ~~C~~C~~~i~~-~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~   66 (135)
                      ..|.+|+++|.+ +.|.|+++.||++ ||+|..|+++|.+..|+.++|++||+.||.++++++|.
T Consensus        16 ~~C~~C~~~I~~~~~v~a~~~~~H~~-CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~kc~   79 (91)
T 2d8y_A           16 ETCVECQKTVYPMERLLANQQVFHIS-CFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGN   79 (91)
T ss_dssp             CBCTTTCCBCCTTSEEECSSSEEETT-TCBCTTTCCBCCTTTCCCSSSCCCCHHHHHHHSCCCSC
T ss_pred             CcCccCCCccCCceeEEECCCEECCC-CCeeCCCCCCCCCCCcEeECCEEECHHHHHHHhCCCcC
Confidence            469999999985 7899999999999 99999999999988899999999999999999999987

>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=99.66  E-value=4.6e-17  Score=112.98  Aligned_cols=69  Identities=20%  Similarity=0.332  Sum_probs=65.2

Q ss_pred             cccccCcccc-ccceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcCCchhhcCCccc
Q psy8111           4 AVKHQDKSFR-EDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIG   73 (135)
Q Consensus         4 ~C~~C~~~i~-~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I~   73 (135)
                      .|.+|+++|. ++.|.++++.||++ ||+|+.|+++|.+..|+.++|++||+.||.++++++|.+|++++.
T Consensus       117 ~C~~C~~~I~~~~~v~a~~~~~H~~-CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~f~~kc~~C~~~~g  186 (192)
T 1b8t_A          117 GCPRCGQAVYAAEKVIGAGKSWHKS-CFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKGFGFGQGAG  186 (192)
T ss_dssp             ECTTTSCEECSSSCEEETTEEECTT-TCBCTTTCCBCCSSSEEEETTEEEEHHHHHHHTCCCCCCCCCCCC
T ss_pred             cCCCCCCEecCcEEEecCCCccchh-cCCccccCCCCCCCcccccCCEEeCHHHHHHhcCCcCCCCCCccc
Confidence            5999999998 57899999999999 999999999999888999999999999999999999999999873

>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=99.66  E-value=3.7e-17  Score=98.55  Aligned_cols=63  Identities=16%  Similarity=0.326  Sum_probs=57.1

Q ss_pred             ccccccCccccccceeeCCCcccCCCCeeccccCCccCC-CceE-eECCeeeccCchhhhcCCchh
Q psy8111           3 SAVKHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLTG-QRYV-LRDDHPYCIKCYESVFANSCE   66 (135)
Q Consensus         3 ~~C~~C~~~i~~~~i~a~~~~~H~~~cf~C~~C~~~l~~-~~~~-~~~~~~~C~~c~~~~~~~~C~   66 (135)
                      ..|.+|+++|.+++|.|+++.||++ ||+|..|+++|.. ..|+ .++|++||+.||.+++++.++
T Consensus        16 ~~C~~C~~~I~~~~~~a~~~~~H~~-CF~C~~C~~~L~~g~~f~~~~~~~~~C~~c~~~~~~~~~s   80 (81)
T 1x6a_A           16 EFCHGCSLLMTGPFMVAGEFKYHPE-CFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVVSGPSS   80 (81)
T ss_dssp             CBCTTTCCBCCSCCBCCTTCCBCTT-SCBCTTTCCBCCTTSCEEECSSSCEEEHHHHHHHHCTTSC
T ss_pred             CcCccCCCCcCceEEEECCceeccc-cCCccCCCCccCCCCcEEEeeCCEEECHHHHHHHhcCCCC
Confidence            4699999999999999999999999 9999999999964 5677 489999999999999987764

>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=3.9e-17  Score=96.30  Aligned_cols=59  Identities=20%  Similarity=0.358  Sum_probs=54.7

Q ss_pred             ccccccCccccc--cceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcC
Q psy8111           3 SAVKHQDKSFRE--DYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFA   62 (135)
Q Consensus         3 ~~C~~C~~~i~~--~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~   62 (135)
                      ..|.+|+++|.+  .+|.|+++.||++ ||+|+.|+++|.+..|+.++|++||+.||.++++
T Consensus         6 ~~C~~C~~~I~~~~~~~~a~~~~~H~~-CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~~~   66 (72)
T 1x61_A            6 SGCGGCGEDVVGDGAGVVALDRVFHVG-CFVCSTCRAQLRGQHFYAVERRAYCEGCYVATLE   66 (72)
T ss_dssp             CCCSSSCSCCCSSSCCEECSSSEECTT-TCBCSSSCCBCTTSCEEESSSCEEEHHHHHHHHH
T ss_pred             CCCccCCCccCCCceEEEECCCeEccc-CCcccccCCcCCcCcCEeeCCeEECHHHHHHHHc
Confidence            579999999984  5899999999999 9999999999988889999999999999998874

>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=99.64  E-value=1.1e-16  Score=103.86  Aligned_cols=63  Identities=32%  Similarity=0.539  Sum_probs=56.3

Q ss_pred             hcCCchhhcCCccccCcccceeCCccccccccccccccccCC--CCCeeeeCCcccCHHhHhhhcC
Q psy8111          60 VFANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLV--DKQFGSKSEKIYCGNCYDAQFA  123 (135)
Q Consensus        60 ~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~--~~~~~~~~~~~~C~~c~~~~~~  123 (135)
                      .++++|++|+++|. +..+|.++++.||++||+|..|+++|.  +..|+.++|+|||+.||.++|+
T Consensus        59 ~~~~~C~~C~~~I~-~~~~v~a~~~~wH~~CF~C~~C~~~L~~~g~~f~~~dg~~yC~~cy~~~Fg  123 (123)
T 2l4z_A           59 LSWKRCAGCGGKIA-DRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG  123 (123)
T ss_dssp             SSCSBBSSSSSBCC-SSSEEEETTEEEETTTSBCTTTCCBGGGTTCCCBCSSSCCBCHHHHHHHCC
T ss_pred             ccCCcCcCCCCCcC-CcEEEEeCCcEEcccccCcCcCCCcccccCCceEEECCEEeCHHHhhhhcC
Confidence            45689999999997 445689999999999999999999997  4579999999999999999986

>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=99.63  E-value=1.2e-16  Score=96.67  Aligned_cols=65  Identities=17%  Similarity=0.477  Sum_probs=56.6

Q ss_pred             CCchhhcCCccccCcccceeCCccccccccccccccccCCCCCee--eeCCcccCHHhHhhhcCCCcc
Q psy8111          62 ANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSLVDKQFG--SKSEKIYCGNCYDAQFASRCD  127 (135)
Q Consensus        62 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~--~~~~~~~C~~c~~~~~~~~C~  127 (135)
                      .++|.+|+++|.. .+.|.++++.||++||+|..|+++|.+..|+  ..++++||+.||.++|++-..
T Consensus        15 ~~~C~~C~~~I~~-~e~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~~~~   81 (82)
T 2co8_A           15 GDLCALCGEHLYV-LERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQTDSGPSS   81 (82)
T ss_dssp             SCBCSSSCCBCCT-TTBCCBTTBCCBTTTCBCSSSCCBCCTTSEECCTTTCCCEETTTCCCCCCCCCC
T ss_pred             CCCCcccCCCccc-ceEEEECCCeeCCCcCEEcCCCCCcCCCceeEeCcCCEEEChHHHHhhhcCCCC
Confidence            4789999999973 4567799999999999999999999998887  469999999999999886543

>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=99.62  E-value=1.2e-16  Score=95.34  Aligned_cols=56  Identities=18%  Similarity=0.437  Sum_probs=52.7

Q ss_pred             ccccccCccccc-----cceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhh
Q psy8111           3 SAVKHQDKSFRE-----DYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYES   59 (135)
Q Consensus         3 ~~C~~C~~~i~~-----~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~   59 (135)
                      ..|.+|+++|.+     ++|.|+++.||++ ||+|+.|+++|.+..|+.++|++||++||.+
T Consensus        16 ~~C~~C~~~I~~~g~~~~~~~a~~~~~H~~-CF~C~~C~~~L~~~~f~~~~~~~yC~~cy~~   76 (77)
T 2egq_A           16 KKCAGCKNPITGFGKGSSVVAYEGQSWHDY-CFHCKKCSVNLANKRFVFHQEQVYCPDCAKK   76 (77)
T ss_dssp             CCCSSSCCCCCCCSSCCCEEEETTEEEETT-TCBCSSSCCBCTTSCCCEETTEECCHHHHHH
T ss_pred             ccCcccCCcccCCCCCceeEEECcceeCcc-cCEehhcCCCCCCCccEeECCEEEChHHhcc
Confidence            579999999997     8899999999999 9999999999998899999999999999875

>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=99.62  E-value=1.5e-16  Score=93.57  Aligned_cols=60  Identities=17%  Similarity=0.337  Sum_probs=54.3

Q ss_pred             cccccccCccccc-c-ceeeCCCcccCCCCeeccccCCccCCCceEeECCeeeccCchhhhcC
Q psy8111           2 ESAVKHQDKSFRE-D-YNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFA   62 (135)
Q Consensus         2 ~~~C~~C~~~i~~-~-~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~   62 (135)
                      ...|.+|+++|.+ + ++.+.|+.||++ ||+|+.|+++|.+..|+.++|++||+.||.++|+
T Consensus        11 ~~~C~~C~~~i~~~e~~~~~~~~~~H~~-CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~lf~   72 (72)
T 3f6q_B           11 SATCERCKGGFAPAEKIVNSNGELYHEQ-CFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA   72 (72)
T ss_dssp             TCBCTTTCCBCCTTCEEEEETTEEEETT-TSSCTTTCCCCGGGCCEEETTEEECHHHHHHHTC
T ss_pred             CccchhcCccccCCceEEEeCcCeeCcC-CCcccCCCCCCCCCCeEeECCeEeCHHHHHHhhC
Confidence            3579999999994 3 678999999999 9999999999998889999999999999998874

>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=99.62  E-value=2.3e-16  Score=95.37  Aligned_cols=61  Identities=16%  Similarity=0.245  Sum_probs=54.7

Q ss_pred             ccccccCcccc-ccceeeCCCcccCCCCeeccccCCccCCCceE--eECCeeeccCchhhhcCCc
Q psy8111           3 SAVKHQDKSFR-EDYNKLGGKDRGSGQHFCCWQCDESLTGQRYV--LRDDHPYCIKCYESVFANS   64 (135)
Q Consensus         3 ~~C~~C~~~i~-~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~--~~~~~~~C~~c~~~~~~~~   64 (135)
                      ..|.+|+++|. ++.|.++++.||++ ||+|+.|+++|.+..|+  .++|++||+.||.+++++.
T Consensus        16 ~~C~~C~~~I~~~e~v~a~~~~wH~~-CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~~   79 (82)
T 2co8_A           16 DLCALCGEHLYVLERLCVNGHFFHRS-CFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQTDSGP   79 (82)
T ss_dssp             CBCSSSCCBCCTTTBCCBTTBCCBTT-TCBCSSSCCBCCTTSEECCTTTCCCEETTTCCCCCCCC
T ss_pred             CCCcccCCCcccceEEEECCCeeCCC-cCEEcCCCCCcCCCceeEeCcCCEEEChHHHHhhhcCC
Confidence            46999999996 57888999999999 99999999999998887  4799999999999887643

>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=99.60  E-value=1.8e-16  Score=102.82  Aligned_cols=59  Identities=14%  Similarity=0.184  Sum_probs=54.2

Q ss_pred             ccccccCccccccc-eeeCCCcccCCCCeeccccCCccC--CCceEeECCeeeccCchhhhcC
Q psy8111           3 SAVKHQDKSFREDY-NKLGGKDRGSGQHFCCWQCDESLT--GQRYVLRDDHPYCIKCYESVFA   62 (135)
Q Consensus         3 ~~C~~C~~~i~~~~-i~a~~~~~H~~~cf~C~~C~~~l~--~~~~~~~~~~~~C~~c~~~~~~   62 (135)
                      ..|.+|+++|.++. |.|+++.||++ ||+|..|+.+|.  +..|+.++|++||+.||.++|+
T Consensus        62 ~~C~~C~~~I~~~~~v~a~~~~wH~~-CF~C~~C~~~L~~~g~~f~~~dg~~yC~~cy~~~Fg  123 (123)
T 2l4z_A           62 KRCAGCGGKIADRFLLYAMDSYWHSR-CLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG  123 (123)
T ss_dssp             SBBSSSSSBCCSSSEEEETTEEEETT-TSBCTTTCCBGGGTTCCCBCSSSCCBCHHHHHHHCC
T ss_pred             CcCcCCCCCcCCcEEEEeCCcEEccc-ccCcCcCCCcccccCCceEEECCEEeCHHHhhhhcC
Confidence            46999999999875 99999999999 999999999997  4679999999999999998874

>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=99.51  E-value=6.5e-15  Score=88.64  Aligned_cols=58  Identities=19%  Similarity=0.216  Sum_probs=50.8

Q ss_pred             ccccccCccccccceeeCCCcccCCCCeeccccCCccCCCceEeECC-eeeccCchhhhc
Q psy8111           3 SAVKHQDKSFREDYNKLGGKDRGSGQHFCCWQCDESLTGQRYVLRDD-HPYCIKCYESVF   61 (135)
Q Consensus         3 ~~C~~C~~~i~~~~i~a~~~~~H~~~cf~C~~C~~~l~~~~~~~~~~-~~~C~~c~~~~~   61 (135)
                      ..|.+|+++|.+++|.|+++.||++ ||+|..|+++|....++..++ .+||..||.+++
T Consensus        16 ~~C~~C~~~I~~~~v~a~~~~wH~~-CF~C~~C~~~L~~~~~~~~~~~~~~C~~C~~~~~   74 (81)
T 1v6g_A           16 TRCFSCDQFIEGEVVSALGKTYHPD-CFVCAVCRLPFPPGDRVTFNGKECMCQKCSLPVS   74 (81)
T ss_dssp             CBCTTTCCBCCSCCEEETTEEECTT-TSSCSSSCCCCCSSSCEEEETTEEEEHHHHSCCS
T ss_pred             CcCccccCEeccceEEECCceeCcc-CCccccCCCCCCCCCEEEeCCCCEEChhhhcccC
Confidence            5799999999999999999999999 999999999998766666555 579999987655

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

Probab=98.11  E-value=1.1e-06  Score=42.82  Aligned_cols=29  Identities=38%  Similarity=0.909  Sum_probs=25.1

Q ss_pred             CCchhhcCCccccCcccceeCCcccccccc
Q psy8111          62 ANSCEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        62 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      .++|..|++.+++. +.+.+.|+.||..||
T Consensus         3 ~~~C~~C~k~Vy~~-Ek~~~~g~~~Hk~CF   31 (31)
T 1zfo_A            3 NPNCARCGKIVYPT-EKVNCLDKFWHKACF   31 (31)
T ss_dssp             CCBCSSSCSBCCGG-GCCCSSSSCCCGGGC
T ss_pred             CCcCCccCCEEecc-eeEEECCeEecccCC
Confidence            46899999999875 567789999999998

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

Probab=98.07  E-value=1.4e-06  Score=42.43  Aligned_cols=29  Identities=14%  Similarity=-0.018  Sum_probs=26.1

Q ss_pred             CcccccccCcccc-ccceeeCCCcccCCCCe
Q psy8111           1 MESAVKHQDKSFR-EDYNKLGGKDRGSGQHF   30 (135)
Q Consensus         1 ~~~~C~~C~~~i~-~~~i~a~~~~~H~~~cf   30 (135)
                      |...|.+|++.+. .+.+.+.|+.||.. ||
T Consensus         2 m~~~C~~C~k~Vy~~Ek~~~~g~~~Hk~-CF   31 (31)
T 1zfo_A            2 MNPNCARCGKIVYPTEKVNCLDKFWHKA-CF   31 (31)
T ss_dssp             CCCBCSSSCSBCCGGGCCCSSSSCCCGG-GC
T ss_pred             CCCcCCccCCEEecceeEEECCeEeccc-CC
Confidence            6788999999998 47788999999999 97

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=90.39  E-value=0.078  Score=33.21  Aligned_cols=102  Identities=19%  Similarity=0.443  Sum_probs=64.5

Q ss_pred             CeeccccCCccCCC-----c-eEeECCeeeccCchhhh--cCCchhhcCCccccCcccceeCCccccccccccccccccC
Q psy8111          29 HFCCWQCDESLTGQ-----R-YVLRDDHPYCIKCYESV--FANSCEECSKIIGIDSKDLSYKDKHWHEACFSCSKCRQSL  100 (135)
Q Consensus        29 cf~C~~C~~~l~~~-----~-~~~~~~~~~C~~c~~~~--~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l  100 (135)
                      =+.|..|-..+...     . ....=|..||..|..+.  ....|..|++++.... ...   ...-.+=..|..|...+
T Consensus         7 ~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~-l~~---l~i~~~~~~C~iC~~~~   82 (133)
T 4ap4_A            7 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR-YHP---IYIGSGTVSCPICMDGY   82 (133)
T ss_dssp             SCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTC-EEE---CBCSSSSCBCTTTCCBH
T ss_pred             CCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCcccc-ccc---cccCCCCCCCCCCCCcc
Confidence            47788887766431     1 33445888998888664  3458999999985322 111   11223446688887776


Q ss_pred             CCC-----C-eeeeCCcccCHHhHhhh--cCCCcccCCCCCC
Q psy8111         101 VDK-----Q-FGSKSEKIYCGNCYDAQ--FASRCDGCSEIFK  134 (135)
Q Consensus       101 ~~~-----~-~~~~~~~~~C~~c~~~~--~~~~C~~C~~~I~  134 (135)
                      ...     . ....=|..||..|..+.  ....|..|..+|.
T Consensus        83 ~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~  124 (133)
T 4ap4_A           83 SEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN  124 (133)
T ss_dssp             HHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCC
T ss_pred             ccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCC
Confidence            431     1 23335889999998653  3468999988775

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=90.03  E-value=0.047  Score=34.27  Aligned_cols=88  Identities=17%  Similarity=0.272  Sum_probs=53.5

Q ss_pred             ccccccCcccccc-------ceeeCCCcccCCCCe--------eccccCCccCCCceEeECCeeeccCchhhhcCCchhh
Q psy8111           3 SAVKHQDKSFRED-------YNKLGGKDRGSGQHF--------CCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEE   67 (135)
Q Consensus         3 ~~C~~C~~~i~~~-------~i~a~~~~~H~~~cf--------~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~   67 (135)
                      ..|.-|...+.+.       ++..=|..||.+ |+        +|-.|++.+........         +.......|+.
T Consensus         8 ~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~-Ci~~~~~~~~~CP~Cr~~~~~~~l~~l---------~i~~~~~~C~i   77 (133)
T 4ap4_A            8 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQ-CLRDSLKNANTCPTCRKKINHKRYHPI---------YIGSGTVSCPI   77 (133)
T ss_dssp             CBCTTTCCBHHHHHHTTCCEEEETTCCEEEHH-HHHHHHTTCSBCTTTCCBCTTTCEEEC---------BCSSSSCBCTT
T ss_pred             CCCcccChhhhCccccccCeEecCCCChhhHH-HHHHHHHhCCCCCCCCCcCcccccccc---------ccCCCCCCCCC
Confidence            4688888887655       555567888877 76        78899999986644321         11122456788


Q ss_pred             cCCccccC---cc--cceeCCcccccccc--------ccccccccC
Q psy8111          68 CSKIIGID---SK--DLSYKDKHWHEACF--------SCSKCRQSL  100 (135)
Q Consensus        68 C~~~I~~~---~~--~~~~~~~~~H~~Cf--------~C~~C~~~l  100 (135)
                      |...+...   ..  ++..=|..||..|.        .|..|..++
T Consensus        78 C~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~  123 (133)
T 4ap4_A           78 CMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI  123 (133)
T ss_dssp             TCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBC
T ss_pred             CCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcC
Confidence            87776310   01  23334667777765        355565554

>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=87.81  E-value=0.59  Score=26.07  Aligned_cols=43  Identities=26%  Similarity=0.685  Sum_probs=28.3

Q ss_pred             cccccccccCCCCCeee-eCCcccCHHhHhhhc--CCCcccCCCCCC
Q psy8111          91 FSCSKCRQSLVDKQFGS-KSEKIYCGNCYDAQF--ASRCDGCSEIFK  134 (135)
Q Consensus        91 f~C~~C~~~l~~~~~~~-~~~~~~C~~c~~~~~--~~~C~~C~~~I~  134 (135)
                      +.|..|...+.+. ... .=+..||..|..+.+  ...|..|.++|.
T Consensus        16 ~~C~IC~~~~~~p-~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   61 (72)
T 2djb_A           16 ILCSICKGYLIDA-TTITECLHTFCKSCIVRHFYYSNRCPKCNIVVH   61 (72)
T ss_dssp             GSCTTTSSCCSSC-EECSSSCCEECHHHHHHHHHHCSSCTTTCCCCC
T ss_pred             CCCCCCChHHHCc-CEECCCCCHHHHHHHHHHHHcCCcCCCcCcccC
Confidence            5677776666543 333 457778888876544  567888887764

>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=87.43  E-value=0.57  Score=25.62  Aligned_cols=43  Identities=23%  Similarity=0.689  Sum_probs=31.5

Q ss_pred             cccccccccCCCCCeeeeCCcccCHHhHhhhc---CCCcccCCCCCC
Q psy8111          91 FSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQF---ASRCDGCSEIFK  134 (135)
Q Consensus        91 f~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~---~~~C~~C~~~I~  134 (135)
                      +.|..|...+.+. ....=|..||..|..+.+   ...|..|.++|.
T Consensus        16 ~~C~IC~~~~~~p-~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~   61 (66)
T 2ecy_A           16 YKCEKCHLVLCSP-KQTECGHRFCESCMAALLSSSSPKCTACQESIV   61 (66)
T ss_dssp             EECTTTCCEESSC-CCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCC
T ss_pred             CCCCCCChHhcCe-eECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCC
Confidence            6678887776543 334568889999988765   357999998875

>2jrp_A Putative cytoplasmic protein; two-zinc binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium LT2}

Probab=85.89  E-value=0.33  Score=28.46  Aligned_cols=14  Identities=14%  Similarity=0.159  Sum_probs=10.0

Q ss_pred             CcccccccCccccc
Q psy8111           1 MESAVKHQDKSFRE   14 (135)
Q Consensus         1 ~~~~C~~C~~~i~~   14 (135)
                      |+..|..|+.+|..
T Consensus         1 M~~~CP~C~~~l~~   14 (81)
T 2jrp_A            1 MEITCPVCHHALER   14 (81)
T ss_dssp             CCCCCSSSCSCCEE
T ss_pred             CCCCCCCCCCcccc
Confidence            67777777777753

>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=84.80  E-value=0.79  Score=25.41  Aligned_cols=43  Identities=16%  Similarity=0.384  Sum_probs=31.3

Q ss_pred             cccccccccCCCCCeeeeCCcccCHHhHhhhcC-----CCcccCCCCCC
Q psy8111          91 FSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFA-----SRCDGCSEIFK  134 (135)
Q Consensus        91 f~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~-----~~C~~C~~~I~  134 (135)
                      +.|..|...+.+ .....=|..||..|..+.+.     .+|..|.++|.
T Consensus        21 ~~C~IC~~~~~~-~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~   68 (73)
T 2ysl_A           21 VICPICLDILQK-PVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVR   68 (73)
T ss_dssp             CBCTTTCSBCSS-EEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCC
T ss_pred             CEeccCCcccCC-eEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCC
Confidence            667788777654 23345588899999887663     48999998875

>1jm7_B BARD1, BRCA1-associated ring domain protein 1; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=84.52  E-value=0.84  Score=28.10  Aligned_cols=24  Identities=29%  Similarity=0.713  Sum_probs=11.1

Q ss_pred             CcccCHHhHhhhcCCCcccCCCCC
Q psy8111         110 EKIYCGNCYDAQFASRCDGCSEIF  133 (135)
Q Consensus       110 ~~~~C~~c~~~~~~~~C~~C~~~I  133 (135)
                      |..||..|..+.+...|..|..++
T Consensus        42 gH~fC~~Ci~~~~~~~CP~Cr~~~   65 (117)
T 1jm7_B           42 EHIFCSNCVSDCIGTGCPVCYTPA   65 (117)
T ss_dssp             SCCBCTTTGGGGTTTBCSSSCCBC
T ss_pred             CCHHHHHHHHHHhcCCCcCCCCcC
Confidence            444444444444444454444443

>1t1h_A Gspef-atpub14, armadillo repeat containing protein; ubiquitin ligase, E3 ligase, U-BOX,; NMR {Arabidopsis thaliana} SCOP: g.44.1.2

Probab=83.56  E-value=0.78  Score=25.87  Aligned_cols=44  Identities=14%  Similarity=0.243  Sum_probs=27.1

Q ss_pred             ccccccccccCCCCCeeeeCCcccCHHhHhhhcC---CCcccCCCCCC
Q psy8111          90 CFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFA---SRCDGCSEIFK  134 (135)
Q Consensus        90 Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~---~~C~~C~~~I~  134 (135)
                      =|.|..|...+.+ .....-|..||..|..+.+.   ..|..|.+++.
T Consensus         8 ~~~C~IC~~~~~~-Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~   54 (78)
T 1t1h_A            8 YFRCPISLELMKD-PVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLL   54 (78)
T ss_dssp             SSSCTTTSCCCSS-EEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCS
T ss_pred             cCCCCCccccccC-CEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCC
Confidence            3566777666644 24445677777777765543   35777776653

>1jjd_A Metallothionein, SMTA; zinc finger, zinc cluster, metal binding PR; NMR {Synechococcus elongatus} SCOP: g.46.1.1

Probab=80.53  E-value=1.2  Score=23.99  Aligned_cols=29  Identities=21%  Similarity=0.532  Sum_probs=23.2

Q ss_pred             ccccccccCCCCCeeeeCCcccC-HHhHhh
Q psy8111          92 SCSKCRQSLVDKQFGSKSEKIYC-GNCYDA  120 (135)
Q Consensus        92 ~C~~C~~~l~~~~~~~~~~~~~C-~~c~~~  120 (135)
                      .|..|+..+..+.-...+|+.|| +.|...
T Consensus         9 aC~~C~c~Vs~~eai~~dGK~YCSe~Ca~g   38 (55)
T 1jjd_A            9 ACEPCLCNVDPSKAIDRNGLYYCSEACADG   38 (55)
T ss_dssp             SSTTCCCCBCTTTSEESSSCEESSHHHHHT
T ss_pred             cCCCCeeEechHHhhhcCCeEEehHHHHcc
Confidence            36788888887777888999998 777654

>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain, tripartite motif protein 34, interferon- responsive finger protein 1; NMR {Homo sapiens}

Probab=80.10  E-value=1.7  Score=24.37  Aligned_cols=43  Identities=19%  Similarity=0.506  Sum_probs=27.0

Q ss_pred             cccccccccCCCCCeeeeCCcccCHHhHhhhc---------CCCcccCCCCCC
Q psy8111          91 FSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQF---------ASRCDGCSEIFK  134 (135)
Q Consensus        91 f~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~---------~~~C~~C~~~I~  134 (135)
                      +.|..|...+.+. ....=|..||..|..+.+         ...|..|..++.
T Consensus        13 ~~C~IC~~~~~~p-~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~   64 (79)
T 2egp_A           13 VTCPICLELLTEP-LSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYS   64 (79)
T ss_dssp             CEETTTTEECSSC-CCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCC
T ss_pred             CCCcCCCcccCCe-eECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCC
Confidence            5566666665442 223457777888876543         357888888764

---

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	135
d2d8za2	32	g.39.1.3 (A:33-64) Four and a half LIM domains pro	6e-10
d1x63a1	37	g.39.1.3 (A:8-44) Four and a half LIM domains prot	6e-10
d2cupa3	27	g.39.1.3 (A:8-34) Four and a half LIM domains prot	3e-05
d2cuqa1	32	g.39.1.3 (A:43-74) Four and a half LIM domains 3,	5e-05
d2cuqa2	35	g.39.1.3 (A:8-42) Four and a half LIM domains 3, F	5e-04
d1g47a2	35	g.39.1.3 (A:36-70) Pinch (particularly interesting	0.003

>d2d8za2 g.39.1.3 (A:33-64) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]} Length = 32

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]

 Score = 48.9 bits (117), Expect = 6e-10
 Identities = 13/31 (41%), Positives = 20/31 (64%)

Query: 32 CWQCDESLTGQRYVLRDDHPYCIKCYESVFA 62
          C  C + L+GQR+  RDD  YC+ C+  ++A
Sbjct: 2  CTACRKQLSGQRFTARDDFAYCLNCFCDLYA 32

>d1x63a1 g.39.1.3 (A:8-44) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]} Length = 37

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]

 Score = 49.0 bits (117), Expect = 6e-10
 Identities = 12/37 (32%), Positives = 18/37 (48%)

Query: 55 KCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACF 91
          KC     +  C+ C K I    +++ YK   WH+ CF
Sbjct: 1  KCTTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCF 37

>d2cupa3 g.39.1.3 (A:8-34) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]} Length = 27

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]

 Score = 36.9 bits (85), Expect = 3e-05
 Identities = 15/27 (55%), Positives = 20/27 (74%)

Query: 65 CEECSKIIGIDSKDLSYKDKHWHEACF 91
          C EC K IG DSK++ YK++ WH+ CF
Sbjct: 1  CVECRKPIGADSKEVHYKNRFWHDTCF 27

>d2cuqa1 g.39.1.3 (A:43-74) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]} Length = 32

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]

 Score = 35.9 bits (83), Expect = 5e-05
 Identities = 13/31 (41%), Positives = 19/31 (61%)

Query: 32 CWQCDESLTGQRYVLRDDHPYCIKCYESVFA 62
          C  C   L GQ++  RD+ PYC+ C+  +FA
Sbjct: 2  CTGCQTPLAGQQFTSRDEDPYCVACFGELFA 32

>d2cuqa2 g.39.1.3 (A:8-42) Four and a half LIM domains 3, FHL3 {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: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.6 bits (77), Expect = 5e-04
 Identities = 14/36 (38%), Positives = 20/36 (55%), Gaps = 2/36 (5%)

Query: 56 CYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACF 91
          CYE+ FA  C  CSK   +    ++Y+D+ WH  C 
Sbjct: 2  CYENKFAPRCARCSKT--LTQGGVTYRDQPWHRECL 35

>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 = 8/33 (24%), Positives = 14/33 (42%)

Query: 30 FCCWQCDESLTGQRYVLRDDHPYCIKCYESVFA 62
          F C QC +      +   +   YC   ++ +FA
Sbjct: 1  FVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA 33

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	135
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	99.37
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	99.17
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	99.1
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	99.1
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	99.04
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.98
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.88
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	98.86
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	98.83
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	98.82
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	98.79
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	98.77
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	98.73
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.71
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.69
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	98.67
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.66
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.65
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.63
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.59
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	98.56
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	98.55
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	98.55
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.49
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	98.48
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.47
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	98.47
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	98.46
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.46
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	98.4
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	98.4
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	98.38
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	98.37
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	98.35
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	98.35
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	98.34
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.34
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.32
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.25
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	98.23
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.21
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	98.2
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	98.2
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	98.18
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.18
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	98.18
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	98.18
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	98.15
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	98.14
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.14
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.14
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.13
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	98.12
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	98.1
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.1
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	98.09
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	98.08
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	98.05
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	98.03
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	98.01
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	98.0
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.99
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	97.95
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	97.94
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.93
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	97.91
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	97.89
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	97.88
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	97.87
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.86
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	97.86
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.82
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.81
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.79
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	97.78
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	97.78
d2co8a2	36	Nedd9 interacting protein with calponin homology,	97.77
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	97.76
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	97.68
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.68
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	97.67
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.66
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	97.63
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	97.63
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	97.62
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	97.57
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.55
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.48
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.44
d2co8a2	36	Nedd9 interacting protein with calponin homology,	97.4
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	97.39
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.32
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	97.29
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.27
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	97.14
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.07
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.04
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	97.03
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.03
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	96.99
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	96.79
d1x61a1	27	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.78
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	96.76
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	96.67
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	96.67
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	96.55
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	96.43
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	96.38
d1rutx2	34	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	96.38
d1rutx2	34	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	96.14
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	96.13
d1rutx4	33	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	95.95
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	95.81
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	95.75
d1x61a1	27	Thyroid receptor interacting protein 6, TRIP6 {Hum	95.7
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	95.68
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	95.5
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	95.47
d2cora1	31	Pinch (particularly interesting new Cys-His) prote	95.31
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	95.25
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	95.11
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	95.05
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	94.99
d2cora1	31	Pinch (particularly interesting new Cys-His) prote	94.9
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	94.33
d1x68a2	34	Four and a half LIM domains protein 5, FHL-5 {Huma	94.28
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	94.18
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	93.43
d1x68a2	34	Four and a half LIM domains protein 5, FHL-5 {Huma	92.65
d1x4la2	30	Four and a half LIM domains protein 2, FHL2 {Human	89.24
d1j2oa2	33	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	88.85
d1v6ga2	40	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	87.77
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	85.52
d2co8a1	33	Nedd9 interacting protein with calponin homology,	85.22
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	82.41
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	81.94
d2gvia2	33	Uncharacterized protein Ta1109 {Thermoplasma acido	80.26
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	80.17

>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=99.37  E-value=7.1e-14  Score=69.24  Aligned_cols=35  Identities=31%  Similarity=0.716  Sum_probs=32.7

Q ss_pred             CchhhhcCCchhhcCCccccCcccceeCCcccccccc
Q psy8111          55 KCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        55 ~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      +||.++++++|++|+++|.  +.+|+|+|+.||++||
T Consensus         1 ~DY~~~fapkC~~C~~~I~--g~~v~Al~~~wHpeCF   35 (35)
T d1x3ha1           1 KDFLAMFSPKCGGCNRPVL--ENYLSAMDTVWHPECF   35 (35)
T ss_dssp             CCCCCCCSCBCTTTCCBCC--SSCEEETTEEECTTTC
T ss_pred             CcHHHHhChhhhhcCCccc--chheeecCCccCcccC
Confidence            4799999999999999994  7899999999999998

>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=99.17  E-value=3.9e-12  Score=63.07  Aligned_cols=37  Identities=32%  Similarity=0.760  Sum_probs=35.3

Q ss_pred             CchhhhcCCchhhcCCccccCcccceeCCcccccccc
Q psy8111          55 KCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        55 ~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      +||.+.++++|.+|+++|.+++..|.+.|+.||.+||
T Consensus         1 kCy~~~~a~~C~~C~k~I~~G~k~veykg~~WHe~CF   37 (37)
T d1x63a1           1 KCTTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCF   37 (37)
T ss_dssp             CCCSCCCSCBCSSSCCBCCSSSCEEECSSCEEETTTC
T ss_pred             CccccccCcccccCCCccCCCCeEeEeCCccchhccC
Confidence            4889999999999999999999999999999999998

>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=99.10  E-value=8.4e-12  Score=61.49  Aligned_cols=34  Identities=24%  Similarity=0.541  Sum_probs=32.6

Q ss_pred             eeccccCCccCCCceEeECCeeeccCchhhhcCC
Q psy8111          30 FCCWQCDESLTGQRYVLRDDHPYCIKCYESVFAN   63 (135)
Q Consensus        30 f~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~   63 (135)
                      |+|+.|+++|.+..|++++|+|||+.||.++++|
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            7899999999999999999999999999999986

>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=99.10  E-value=1.6e-11  Score=60.44  Aligned_cols=34  Identities=26%  Similarity=0.602  Sum_probs=32.9

Q ss_pred             cccccccccCCCCCeeeeCCcccCHHhHhhhcCC
Q psy8111          91 FSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFAS  124 (135)
Q Consensus        91 f~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~  124 (135)
                      |+|+.|+++|++..|++++|+|||+.||.++|+|
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            7899999999999999999999999999999997

>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=99.04  E-value=3.9e-11  Score=59.12  Aligned_cols=28  Identities=11%  Similarity=0.051  Sum_probs=26.3

Q ss_pred             cccccccCccccccceeeCCCcccCCCCe
Q psy8111           2 ESAVKHQDKSFREDYNKLGGKDRGSGQHF   30 (135)
Q Consensus         2 ~~~C~~C~~~i~~~~i~a~~~~~H~~~cf   30 (135)
                      ...|++|+++|.|++|+|+|+.||++ ||
T Consensus         8 apkC~~C~~~I~g~~v~Al~~~wHpe-CF   35 (35)
T d1x3ha1           8 SPKCGGCNRPVLENYLSAMDTVWHPE-CF   35 (35)
T ss_dssp             SCBCTTTCCBCCSSCEEETTEEECTT-TC
T ss_pred             ChhhhhcCCcccchheeecCCccCcc-cC
Confidence            35799999999999999999999999 98

>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=98.98  E-value=7.4e-11  Score=60.30  Aligned_cols=27  Identities=19%  Similarity=0.235  Sum_probs=25.8

Q ss_pred             ccccccCccccccceeeCCCcccCCCCe
Q psy8111           3 SAVKHQDKSFREDYNKLGGKDRGSGQHF   30 (135)
Q Consensus         3 ~~C~~C~~~i~~~~i~a~~~~~H~~~cf   30 (135)
                      ..|..|+++|.|++|+|+|+.||++ ||
T Consensus        19 P~C~~C~~pI~g~~vtAlgk~WHPE-hF   45 (45)
T d2dara2          19 PMCAHCNQVIRGPFLVALGKSWHPE-EF   45 (45)
T ss_dssp             CBBSSSCCBCCSCEEEETTEEECTT-TC
T ss_pred             eeccccCCcccCceeeecCCccCcC-CC
Confidence            4699999999999999999999999 98

>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=98.88  E-value=2.8e-10  Score=54.67  Aligned_cols=35  Identities=40%  Similarity=1.045  Sum_probs=31.3

Q ss_pred             CchhhhcCCchhhcCCccccCcccceeCCcccccccc
Q psy8111          55 KCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        55 ~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      .||++.|+++|..|+++|..  .-|+..++.||.+||
T Consensus         1 PCyE~kfa~~C~~Ckk~It~--GGvtY~dqpWHkeCF   35 (35)
T d2cuqa2           1 PCYENKFAPRCARCSKTLTQ--GGVTYRDQPWHRECL   35 (35)
T ss_dssp             CCCCCCSSCCCTTTCCCCCS--CCEESSSSEECTTTC
T ss_pred             CchHHHHHHHHhhcCCcccc--CceeecCCcchhhhC
Confidence            48999999999999999963  358999999999998

>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=98.86  E-value=3.7e-10  Score=54.52  Aligned_cols=35  Identities=31%  Similarity=0.655  Sum_probs=30.2

Q ss_pred             cCchhhhcCCchhhcCCccccCcccceeCCcccccccc
Q psy8111          54 IKCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        54 ~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      +.||... ..+|..|+++|.  +.+++|.|+.|||.||
T Consensus         1 E~Cy~~t-lEkC~~C~~~I~--driLrA~Gk~yHP~CF   35 (35)
T d2dloa1           1 EGCYVAT-LEKCATCSQPIL--DRILRAMGKAYHPGCF   35 (35)
T ss_dssp             CCCCCSS-CCBCTTTCCBCC--SCCEEETTEEECTTTC
T ss_pred             ChhHHHH-HHHHHHhchHHH--HHHHHHhCCCCCCCCC
Confidence            3567664 479999999995  8899999999999998

>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=98.82  E-value=5.1e-10  Score=52.36  Aligned_cols=26  Identities=8%  Similarity=-0.059  Sum_probs=24.4

Q ss_pred             cccccccCccccccceeeCCCcccCC
Q psy8111           2 ESAVKHQDKSFREDYNKLGGKDRGSG   27 (135)
Q Consensus         2 ~~~C~~C~~~i~~~~i~a~~~~~H~~   27 (135)
                      .+.|+.|++||.|+.|+|+|+.||++
T Consensus         5 ~p~C~~C~~PI~~~~vtAlgk~WHpE   30 (31)
T d1u5sb1           5 VPICGACRRPIEGRVVNAMGKQWHVE   30 (31)
T ss_dssp             CCEETTTTEECCSCEECCTTSBEETT
T ss_pred             CcchhhcCCchhhhHhhhhccccCCC
Confidence            36799999999999999999999998

>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=98.79  E-value=7.1e-10  Score=52.44  Aligned_cols=32  Identities=41%  Similarity=1.086  Sum_probs=29.6

Q ss_pred             eccccCCccCCCceEeECCeeeccCchhhhcC
Q psy8111          31 CCWQCDESLTGQRYVLRDDHPYCIKCYESVFA   62 (135)
Q Consensus        31 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~   62 (135)
                      .|..|+++|.+++|..+|++|||.+||..+|+
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            47899999999999999999999999998874

>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=98.77  E-value=2e-09  Score=50.84  Aligned_cols=32  Identities=31%  Similarity=0.855  Sum_probs=30.0

Q ss_pred             ccccccccCCCCCeeeeCCcccCHHhHhhhcC
Q psy8111          92 SCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFA  123 (135)
Q Consensus        92 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~  123 (135)
                      .|..|+++|+++.|..+|++|||..||..+||
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            48899999999999999999999999999986

>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=98.73  E-value=2.2e-09  Score=51.74  Aligned_cols=27  Identities=15%  Similarity=0.170  Sum_probs=25.8

Q ss_pred             ccccccCccccccceeeCCCcccCCCCe
Q psy8111           3 SAVKHQDKSFREDYNKLGGKDRGSGQHF   30 (135)
Q Consensus         3 ~~C~~C~~~i~~~~i~a~~~~~H~~~cf   30 (135)
                      ..|..|+++|.++++.|+|+.|||. ||
T Consensus         9 EkC~~C~~~I~driLrA~Gk~yHP~-CF   35 (35)
T d2dloa1           9 EKCATCSQPILDRILRAMGKAYHPG-CF   35 (35)
T ss_dssp             CBCTTTCCBCCSCCEEETTEEECTT-TC
T ss_pred             HHHHHhchHHHHHHHHHhCCCCCCC-CC
Confidence            4699999999999999999999999 98

>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=98.71  E-value=6.6e-09  Score=54.23  Aligned_cols=41  Identities=32%  Similarity=0.724  Sum_probs=37.5

Q ss_pred             ccccccccCCCCCeeeeCCcccCHHhHhhhcCCCcccCCCC
Q psy8111          92 SCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASRCDGCSEI  132 (135)
Q Consensus        92 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~  132 (135)
                      +|..|++.|.+....++|++|||+.||.++|+|+..+-++.
T Consensus         1 KC~~C~k~Lds~t~~ehdg~~YCk~CY~k~fGPKG~g~G~g   41 (49)
T d1b8ta4           1 RCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKGFGFGQG   41 (49)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHTCCCCCCCCCC
T ss_pred             ChhhcCCccCCCcccccCCcccchhhhhhccCCCccCcccC
Confidence            68999999998899999999999999999999999887643

>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=98.69  E-value=2.2e-09  Score=54.69  Aligned_cols=28  Identities=29%  Similarity=0.616  Sum_probs=26.0

Q ss_pred             CCchhhcCCccccCcccceeCCcccccccc
Q psy8111          62 ANSCEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        62 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      .|.|+.|+++|  .+..|+|+|+.|||++|
T Consensus        18 ~P~C~~C~~pI--~g~~vtAlgk~WHPEhF   45 (45)
T d2dara2          18 TPMCAHCNQVI--RGPFLVALGKSWHPEEF   45 (45)
T ss_dssp             CCBBSSSCCBC--CSCEEEETTEEECTTTC
T ss_pred             CeeccccCCcc--cCceeeecCCccCcCCC
Confidence            58999999999  48899999999999998

>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=98.67  E-value=4.5e-09  Score=52.60  Aligned_cols=34  Identities=24%  Similarity=0.617  Sum_probs=31.8

Q ss_pred             CchhhhcCCchhhcCCccccCcccceeCCccccccc
Q psy8111          55 KCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEAC   90 (135)
Q Consensus        55 ~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~C   90 (135)
                      .||.++|+.+|..|++.|  ++.+|.|.++.|||+|
T Consensus         8 ~DYq~~fG~~C~~C~~~I--tG~V~~Ag~~~yHP~C   41 (41)
T d1v6ga1           8 LDYQRLYGTRCFSCDQFI--EGEVVSALGKTYHPDC   41 (41)
T ss_dssp             SCGGGSCCCBCTTTCCBC--CSCCEEETTEEECTTT
T ss_pred             ccHHHHhCcccccccCEe--eeeeeEecCcccCCCC
Confidence            579999999999999999  5889999999999987

>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=98.66  E-value=5.8e-09  Score=54.46  Aligned_cols=41  Identities=24%  Similarity=0.469  Sum_probs=37.1

Q ss_pred             eccccCCccCCCceEeECCeeeccCchhhhcCCchhhcCCc
Q psy8111          31 CCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKI   71 (135)
Q Consensus        31 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~   71 (135)
                      +|..|++.|++....++|++|||+.||.++|+|+..+-+..
T Consensus         1 KC~~C~k~Lds~t~~ehdg~~YCk~CY~k~fGPKG~g~G~g   41 (49)
T d1b8ta4           1 RCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKGFGFGQG   41 (49)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHTCCCCCCCCCC
T ss_pred             ChhhcCCccCCCcccccCCcccchhhhhhccCCCccCcccC
Confidence            58999999999999999999999999999999988776654

>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=98.65  E-value=4.4e-09  Score=49.02  Aligned_cols=32  Identities=41%  Similarity=1.117  Sum_probs=29.4

Q ss_pred             eccccCCccCCCceEeECCeeeccCchhhhcC
Q psy8111          31 CCWQCDESLTGQRYVLRDDHPYCIKCYESVFA   62 (135)
Q Consensus        31 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~   62 (135)
                      .|..|+++|++++|..+|++|||.+||-.+|+
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            48899999999999999999999999988764

>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=98.63  E-value=1.1e-08  Score=47.57  Aligned_cols=31  Identities=39%  Similarity=0.858  Sum_probs=28.1

Q ss_pred             eccccCCccCCCceEeECCeeeccCchhhhcC
Q psy8111          31 CCWQCDESLTGQRYVLRDDHPYCIKCYESVFA   62 (135)
Q Consensus        31 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~   62 (135)
                      +|..|+..|.++ |..+||.|||++||+..|+
T Consensus         1 kC~~C~~vL~gE-Ym~kdG~PyCe~DY~~~FG   31 (31)
T d2dj7a1           1 KCQTCSVILTGE-YISKDGVPYCESDYHAQFG   31 (31)
T ss_dssp             BCSSSCCBCSSC-CEEETTEEECTTHHHHHTT
T ss_pred             CccccCccccce-eecCCCCcccHHHHHHhcC
Confidence            588999999986 9999999999999998774

>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=98.59  E-value=1.4e-08  Score=47.25  Aligned_cols=32  Identities=38%  Similarity=0.892  Sum_probs=29.9

Q ss_pred             ccccccccCCCCCeeeeCCcccCHHhHhhhcC
Q psy8111          92 SCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFA  123 (135)
Q Consensus        92 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~  123 (135)
                      .|+.|+++|.++.|..+|+.|||.+||..+|+
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            48899999999999999999999999998885

>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=98.56  E-value=1.7e-08  Score=46.95  Aligned_cols=27  Identities=7%  Similarity=-0.076  Sum_probs=24.4

Q ss_pred             cccccccCccccccc-eeeCCCcccCCCC
Q psy8111           2 ESAVKHQDKSFREDY-NKLGGKDRGSGQH   29 (135)
Q Consensus         2 ~~~C~~C~~~i~~~~-i~a~~~~~H~~~c   29 (135)
                      ...|++|+++|.+++ +.|+++.||.+ |
T Consensus         3 ~~~CaGC~~~I~DRflL~a~Dr~WH~~-C   30 (30)
T d1j2oa1           3 LLTCGGCQQNIGDRYFLKAIDQYWHED-C   30 (30)
T ss_dssp             CBCBSSSCSCBCSSEEEECSSSEECTT-T
T ss_pred             CcccCCCCCcchHHHHHHHHHHHHhcC-C
Confidence            467999999999998 78999999998 6

>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=98.55  E-value=2e-08  Score=50.67  Aligned_cols=34  Identities=29%  Similarity=0.650  Sum_probs=32.0

Q ss_pred             ccccccccCCCCCeeeeCCcccCHHhHhhhcCCC
Q psy8111          92 SCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASR  125 (135)
Q Consensus        92 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~  125 (135)
                      +|+.|++.|..+.|...+|.+||+.||.++|+++
T Consensus         1 rC~~C~~~Ls~~~yas~~G~lYCkpHf~qLF~~k   34 (42)
T d2d8ya2           1 RCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSK   34 (42)
T ss_dssp             BCTTTCCBCCTTTCCCSSSCCCCHHHHHHHSCCC
T ss_pred             CcCcCCCCccCCcchhhCCEeccHHHHHHHHHhh
Confidence            6899999999999999999999999999999875

>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=98.55  E-value=8.1e-09  Score=48.18  Aligned_cols=29  Identities=21%  Similarity=0.500  Sum_probs=25.4

Q ss_pred             hcCCchhhcCCccccCcccceeCCccccccc
Q psy8111          60 VFANSCEECSKIIGIDSKDLSYKDKHWHEAC   90 (135)
Q Consensus        60 ~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~C   90 (135)
                      ...|+|+.|++||  .+.+|+|+|+.||+++
T Consensus         3 mg~p~C~~C~~PI--~~~~vtAlgk~WHpEH   31 (31)
T d1u5sb1           3 MGVPICGACRRPI--EGRVVNAMGKQWHVEH   31 (31)
T ss_dssp             CCCCEETTTTEEC--CSCEECCTTSBEETTT
T ss_pred             cCCcchhhcCCch--hhhHhhhhccccCCCC
Confidence            3468999999999  4789999999999974

>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=98.49  E-value=3.5e-08  Score=45.81  Aligned_cols=31  Identities=35%  Similarity=0.684  Sum_probs=28.2

Q ss_pred             ccccccccCCCCCeeeeCCcccCHHhHhhhcC
Q psy8111          92 SCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFA  123 (135)
Q Consensus        92 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~  123 (135)
                      +|..|++.|.++ |..+||.|||+.+|..+|+
T Consensus         1 kC~~C~~vL~gE-Ym~kdG~PyCe~DY~~~FG   31 (31)
T d2dj7a1           1 KCQTCSVILTGE-YISKDGVPYCESDYHAQFG   31 (31)
T ss_dssp             BCSSSCCBCSSC-CEEETTEEECTTHHHHHTT
T ss_pred             CccccCccccce-eecCCCCcccHHHHHHhcC
Confidence            588999999876 8899999999999999885

>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=98.48  E-value=2.2e-08  Score=46.73  Aligned_cols=27  Identities=4%  Similarity=-0.135  Sum_probs=24.4

Q ss_pred             ccccccCccccccc-eeeCCCcccCCCCe
Q psy8111           3 SAVKHQDKSFREDY-NKLGGKDRGSGQHF   30 (135)
Q Consensus         3 ~~C~~C~~~i~~~~-i~a~~~~~H~~~cf   30 (135)
                      ..|++|+++|.|++ +.++++.||.+ |+
T Consensus         3 ~~CaGC~~~I~DRflL~v~dr~WH~~-CL   30 (30)
T d1rutx1           3 KRCAGCGGKIADRFLLYAMDSYWHSR-CL   30 (30)
T ss_dssp             CBBTTTCCBCCCSEEEEETTEEECGG-GC
T ss_pred             cccCCCCCccchhhhhccchhhhhhh-hC
Confidence            46999999999998 78999999999 74

>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=98.47  E-value=2e-08  Score=47.58  Aligned_cols=31  Identities=23%  Similarity=0.487  Sum_probs=28.5

Q ss_pred             eccccCCccCCCceEeECCeeeccCchhhhc
Q psy8111          31 CCWQCDESLTGQRYVLRDDHPYCIKCYESVF   61 (135)
Q Consensus        31 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~   61 (135)
                      +|..|.+|+.+..|++.+|+|||+.+|.++.
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            5889999999999999999999999998764

>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=98.47  E-value=4e-08  Score=50.64  Aligned_cols=34  Identities=32%  Similarity=0.793  Sum_probs=31.8

Q ss_pred             ccccccccCCCCCeeeeCCcccC-HHhHhhhcCCC
Q psy8111          92 SCSKCRQSLVDKQFGSKSEKIYC-GNCYDAQFASR  125 (135)
Q Consensus        92 ~C~~C~~~l~~~~~~~~~~~~~C-~~c~~~~~~~~  125 (135)
                      +|..|++.|.+....+++++||| +.||.++|+|+
T Consensus         1 kC~~C~K~L~sg~~aeHdg~pYC~k~CY~~~FGPk   35 (48)
T d1imla2           1 KCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPK   35 (48)
T ss_dssp             BCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCC
T ss_pred             CchhcCcCcCCCChhhcCCcccccccchhhccCCC
Confidence            68999999999999999999999 77999999986

>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=98.46  E-value=2.9e-08  Score=45.27  Aligned_cols=30  Identities=30%  Similarity=0.770  Sum_probs=28.3

Q ss_pred             eeccccCCccCCCceEeECCeeeccCchhh
Q psy8111          30 FCCWQCDESLTGQRYVLRDDHPYCIKCYES   59 (135)
Q Consensus        30 f~C~~C~~~l~~~~~~~~~~~~~C~~c~~~   59 (135)
                      |+|+.|++.|++.....+||.+||+.||.+
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            899999999999999999999999999975

>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=98.46  E-value=4.6e-08  Score=46.32  Aligned_cols=31  Identities=19%  Similarity=0.419  Sum_probs=28.3

Q ss_pred             ccccccccCCCCCeeeeCCcccCHHhHhhhc
Q psy8111          92 SCSKCRQSLVDKQFGSKSEKIYCGNCYDAQF  122 (135)
Q Consensus        92 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~  122 (135)
                      +|..|.+++.+..|++.+|+|||+.+|.++.
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            5889999999999999999999999998764

>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=98.40  E-value=3.6e-08  Score=46.25  Aligned_cols=29  Identities=21%  Similarity=0.556  Sum_probs=27.3

Q ss_pred             CchhhcCCccccCcccceeCCcccccccc
Q psy8111          63 NSCEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        63 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      ..|++|++.|.+.+.++++.+..||.+||
T Consensus         3 g~Ca~C~~~I~~~e~VmRA~~~VyHl~CF   31 (31)
T d1rutx3           3 GACSACGQSIPASELVMRAQGNVYHLKCF   31 (31)
T ss_dssp             EECTTTCCEECTTSEEEEETTEEECGGGC
T ss_pred             cccccccCcCChhHhheecccceeeeccC
Confidence            47999999999999999999999999998

>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=98.40  E-value=1.1e-07  Score=48.89  Aligned_cols=34  Identities=29%  Similarity=0.757  Sum_probs=31.4

Q ss_pred             eccccCCccCCCceEeECCeeec-cCchhhhcCCc
Q psy8111          31 CCWQCDESLTGQRYVLRDDHPYC-IKCYESVFANS   64 (135)
Q Consensus        31 ~C~~C~~~l~~~~~~~~~~~~~C-~~c~~~~~~~~   64 (135)
                      +|..|++.|++....++|++||| +.||..+|+|+
T Consensus         1 kC~~C~K~L~sg~~aeHdg~pYC~k~CY~~~FGPk   35 (48)
T d1imla2           1 KCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPK   35 (48)
T ss_dssp             BCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCC
T ss_pred             CchhcCcCcCCCChhhcCCcccccccchhhccCCC
Confidence            58999999999999999999999 67999999874

>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=98.38  E-value=5.2e-08  Score=43.35  Aligned_cols=27  Identities=44%  Similarity=1.117  Sum_probs=25.4

Q ss_pred             hhhcCCccccCcccceeCCcccccccc
Q psy8111          65 CEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        65 C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      |..|.+.|+|+...+...|.+||+.||
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            678999999999999999999999998

>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=98.37  E-value=9.7e-08  Score=44.97  Aligned_cols=34  Identities=29%  Similarity=0.772  Sum_probs=31.9

Q ss_pred             eeccccCCccCCCceEeECCeeeccCchhhhcCC
Q psy8111          30 FCCWQCDESLTGQRYVLRDDHPYCIKCYESVFAN   63 (135)
Q Consensus        30 f~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~   63 (135)
                      |+|+.|.+|+-+.+.++++|.+||+.+|.++|+.
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            7899999999999999999999999999999863

>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=98.35  E-value=1.4e-07  Score=44.08  Aligned_cols=31  Identities=35%  Similarity=0.840  Sum_probs=29.5

Q ss_pred             cccccccCCCCCeeeeCCcccCHHhHhhhcC
Q psy8111          93 CSKCRQSLVDKQFGSKSEKIYCGNCYDAQFA  123 (135)
Q Consensus        93 C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~  123 (135)
                      |..|+++|+..+|..+++..||..||+++|+
T Consensus         2 C~~C~qPIGtksfipk~~~~yCvpCyE~kfA   32 (32)
T d1x4ka1           2 CHRCQQPIGTKSFIPKDNQNFCVPCYEKQHA   32 (32)
T ss_dssp             CSSSCCCCCSSSEEEETTEEEEHHHHHHHTS
T ss_pred             cccccCcccccccccCCCCceEeecchhhcC
Confidence            7889999999999999999999999999986

>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=98.34  E-value=1.8e-07  Score=44.00  Aligned_cols=34  Identities=24%  Similarity=0.693  Sum_probs=32.0

Q ss_pred             cccccccccCCCCCeeeeCCcccCHHhHhhhcCC
Q psy8111          91 FSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFAS  124 (135)
Q Consensus        91 f~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~  124 (135)
                      |+|+.|.+|+-+...+++.|..||+.+|.++|+.
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            7899999999999999999999999999999974

>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=98.34  E-value=1.4e-07  Score=43.94  Aligned_cols=31  Identities=39%  Similarity=0.867  Sum_probs=29.4

Q ss_pred             cccccccCCCCCeeeeCCcccCHHhHhhhcC
Q psy8111          93 CSKCRQSLVDKQFGSKSEKIYCGNCYDAQFA  123 (135)
Q Consensus        93 C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~  123 (135)
                      |..|.++|+..+|..+++..||..||+++|+
T Consensus         2 C~~C~qPIGtkSFip~~~~~yCvpCYE~kfA   32 (32)
T d1wyha1           2 CSGCEQPLGSRSFVPDKGAHYCVPCYENKFA   32 (32)
T ss_dssp             CTTTCCBTTTSCEEEETTEEEEHHHHHHHTS
T ss_pred             cccccCcccccccccCCCcEEEEeccccccC
Confidence            7889999999999999999999999999986

>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=98.32  E-value=8.4e-08  Score=42.56  Aligned_cols=27  Identities=37%  Similarity=0.992  Sum_probs=25.3

Q ss_pred             hhhcCCccccCcccceeCCcccccccc
Q psy8111          65 CEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        65 C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      |..|.+.|+|+...+...|.+||+.||
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            678999999999999999999999998

>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=98.25  E-value=3.3e-07  Score=42.70  Aligned_cols=31  Identities=29%  Similarity=0.831  Sum_probs=28.8

Q ss_pred             cccccccCCCCCeeeeCCcccCHHhHhhhcC
Q psy8111          93 CSKCRQSLVDKQFGSKSEKIYCGNCYDAQFA  123 (135)
Q Consensus        93 C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~  123 (135)
                      |+.|+++|.+..|.+..|.+||+.||++-|+
T Consensus         2 Ca~C~~sL~d~gFVEE~g~lYCe~Cye~ffA   32 (32)
T d2dara1           2 CAHCKNTMAYIGFVEEKGALYCELCYEKFFA   32 (32)
T ss_dssp             CSSSCCBCSSSCBEESSSCEECHHHHHHHTS
T ss_pred             cccccccHhhcceeeecCcEeHHHHHHHhcC
Confidence            7899999999999999999999999998764

>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=98.23  E-value=2.8e-07  Score=41.91  Aligned_cols=30  Identities=40%  Similarity=0.950  Sum_probs=28.1

Q ss_pred             cccccccccCCCCCeeeeCCcccCHHhHhh
Q psy8111          91 FSCSKCRQSLVDKQFGSKSEKIYCGNCYDA  120 (135)
Q Consensus        91 f~C~~C~~~l~~~~~~~~~~~~~C~~c~~~  120 (135)
                      |+|..|++.|.+.....+||.+||+.||.+
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            799999999999999999999999999965

>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=98.21  E-value=3.5e-07  Score=50.21  Aligned_cols=33  Identities=24%  Similarity=0.843  Sum_probs=31.3

Q ss_pred             cccccccCCCCCeeeeCCcccCHHhHhhhcCCC
Q psy8111          93 CSKCRQSLVDKQFGSKSEKIYCGNCYDAQFASR  125 (135)
Q Consensus        93 C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~  125 (135)
                      |..|++.|.+.....++++|||+.||.++|+|+
T Consensus         2 C~~C~K~LdS~~~~eh~~e~YCk~CY~k~fGPk   34 (65)
T d1b8ta2           2 CMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPK   34 (65)
T ss_dssp             CTTTCCBCCSSSEEEETTEEEEHHHHHHHHSCC
T ss_pred             chhcCCccCCCccccCCCcccchhhhccccCCC
Confidence            789999999999999999999999999999986

>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=98.20  E-value=1.3e-07  Score=47.61  Aligned_cols=33  Identities=21%  Similarity=0.524  Sum_probs=30.8

Q ss_pred             eccccCCccCCCceEeECCeeeccCchhhhcCC
Q psy8111          31 CCWQCDESLTGQRYVLRDDHPYCIKCYESVFAN   63 (135)
Q Consensus        31 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~   63 (135)
                      +|+.|+..|....|.+.+|.+||+.+|.++|.+
T Consensus         1 rC~~C~~~Ls~~~yas~~G~lYCkpHf~qLF~~   33 (42)
T d2d8ya2           1 RCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKS   33 (42)
T ss_dssp             BCTTTCCBCCTTTCCCSSSCCCCHHHHHHHSCC
T ss_pred             CcCcCCCCccCCcchhhCCEeccHHHHHHHHHh
Confidence            689999999998999999999999999999875

>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=98.20  E-value=2.7e-07  Score=42.93  Aligned_cols=28  Identities=32%  Similarity=0.668  Sum_probs=24.8

Q ss_pred             CchhhcCCccccCcccceeCCcccccccc
Q psy8111          63 NSCEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        63 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      ..|++|+++|. +...+.+.++.||..|.
T Consensus         3 ~~CaGC~~~I~-DRflL~v~dr~WH~~CL   30 (30)
T d1rutx1           3 KRCAGCGGKIA-DRFLLYAMDSYWHSRCL   30 (30)
T ss_dssp             CBBTTTCCBCC-CSEEEEETTEEECGGGC
T ss_pred             cccCCCCCccc-hhhhhccchhhhhhhhC
Confidence            47999999997 67779999999999984

>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=98.18  E-value=4.4e-07  Score=42.76  Aligned_cols=34  Identities=24%  Similarity=0.498  Sum_probs=30.5

Q ss_pred             CchhhhcCCchhhcCCccccCcccceeCCccccccc
Q psy8111          55 KCYESVFANSCEECSKIIGIDSKDLSYKDKHWHEAC   90 (135)
Q Consensus        55 ~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~C   90 (135)
                      ++|..+|+..|.+|.+.|  .+.+|.|.+..|||+|
T Consensus         1 kdYw~kfge~C~~C~~~i--tGpvMvAG~~K~HPEC   34 (34)
T d1x6aa1           1 KDYWGKFGEFCHGCSLLM--TGPFMVAGEFKYHPEC   34 (34)
T ss_dssp             CCSSCCSSCBCTTTCCBC--CSCCBCCTTCCBCTTS
T ss_pred             CcHHHHHHHHhhhhHhhc--ccceeeecccccCCCC
Confidence            468889999999999988  4889999999999997

>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=98.18  E-value=3.3e-07  Score=43.64  Aligned_cols=27  Identities=11%  Similarity=-0.039  Sum_probs=24.9

Q ss_pred             ccccccCcccc-ccceeeCCCcccCCCCe
Q psy8111           3 SAVKHQDKSFR-EDYNKLGGKDRGSGQHF   30 (135)
Q Consensus         3 ~~C~~C~~~i~-~~~i~a~~~~~H~~~cf   30 (135)
                      +.|++|++.|. |+.+.|+++.||.. ||
T Consensus         9 ~~CagCg~eik~gQaL~ALdkqWH~~-CF   36 (36)
T d2dj7a2           9 SHCAGCKEEIKHGQSLLALDKQWHVS-CF   36 (36)
T ss_dssp             SCCTTTCCCCSSSCCEEETTEEECTT-TC
T ss_pred             ccccccchhhhCCceeeeeecceeee-eC
Confidence            56999999997 68999999999999 98

>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=98.18  E-value=2.8e-07  Score=42.29  Aligned_cols=29  Identities=38%  Similarity=1.062  Sum_probs=27.0

Q ss_pred             eccccCCccCCCceEeECCeeeccCchhh
Q psy8111          31 CCWQCDESLTGQRYVLRDDHPYCIKCYES   59 (135)
Q Consensus        31 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~   59 (135)
                      .|+.|+++|++.+|...+++.||.+||..
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            48899999999999999999999999974

>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=98.18  E-value=3.6e-07  Score=42.26  Aligned_cols=29  Identities=24%  Similarity=0.123  Sum_probs=26.3

Q ss_pred             CcccccccCcccc-ccceeeCCCcccCCCCe
Q psy8111           1 MESAVKHQDKSFR-EDYNKLGGKDRGSGQHF   30 (135)
Q Consensus         1 ~~~~C~~C~~~i~-~~~i~a~~~~~H~~~cf   30 (135)
                      |.+.|.+|++++. .+-+.++|+.||.. |+
T Consensus         1 M~~~CprC~K~VYfaEk~~~lgk~WHk~-Cl   30 (30)
T d2cu8a1           1 MASKCPKCDKTVYFAEKVSSLGKDWHKF-CL   30 (30)
T ss_dssp             CCCBCTTTCCBCCTTTEEEETTEEEETT-TC
T ss_pred             CCCcCCCCCCceeeHHhhccCCcccccc-cC
Confidence            7889999999998 57899999999999 75

>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=98.15  E-value=7.2e-07  Score=41.64  Aligned_cols=32  Identities=25%  Similarity=0.760  Sum_probs=28.8

Q ss_pred             ccccccccCCCCCeeeeCCcccCHH-hHhhhcC
Q psy8111          92 SCSKCRQSLVDKQFGSKSEKIYCGN-CYDAQFA  123 (135)
Q Consensus        92 ~C~~C~~~l~~~~~~~~~~~~~C~~-c~~~~~~  123 (135)
                      +|..|++.|..+...+++|+|||.. ||..+|+
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            5889999999999999999999965 9988875

>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=98.14  E-value=5.7e-07  Score=41.92  Aligned_cols=32  Identities=25%  Similarity=0.897  Sum_probs=29.3

Q ss_pred             eccccCCccCCCceEeECCeeeccCchhhhcC
Q psy8111          31 CCWQCDESLTGQRYVLRDDHPYCIKCYESVFA   62 (135)
Q Consensus        31 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~   62 (135)
                      .|..|.++|...+|..+++..||..||++.|+
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            37899999999999999999999999998874

>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=98.14  E-value=5e-07  Score=49.57  Aligned_cols=35  Identities=23%  Similarity=0.637  Sum_probs=32.2

Q ss_pred             eccccCCccCCCceEeECCeeeccCchhhhcCCch
Q psy8111          31 CCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSC   65 (135)
Q Consensus        31 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C   65 (135)
                      .|..|++.|++.....+++++||+.||.++|+|+=
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            37899999999999999999999999999999863

>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=98.14  E-value=3.7e-07  Score=43.46  Aligned_cols=28  Identities=36%  Similarity=0.854  Sum_probs=25.8

Q ss_pred             CchhhcCCccccCcccceeCCcccccccc
Q psy8111          63 NSCEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        63 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      ..|++|++.|. .++.+.|+++.||.+||
T Consensus         9 ~~CagCg~eik-~gQaL~ALdkqWH~~CF   36 (36)
T d2dj7a2           9 SHCAGCKEEIK-HGQSLLALDKQWHVSCF   36 (36)
T ss_dssp             SCCTTTCCCCS-SSCCEEETTEEECTTTC
T ss_pred             ccccccchhhh-CCceeeeeecceeeeeC
Confidence            57999999997 68889999999999998

>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=98.13  E-value=4.4e-07  Score=42.25  Aligned_cols=32  Identities=31%  Similarity=0.717  Sum_probs=28.9

Q ss_pred             eccccCCccCCCceEeECCeeeccCchhhhcC
Q psy8111          31 CCWQCDESLTGQRYVLRDDHPYCIKCYESVFA   62 (135)
Q Consensus        31 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~   62 (135)
                      .|+.|+.+|.+..|++.+|.+||+.||.+-++
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            37899999999999999999999999998653

>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=98.12  E-value=5e-07  Score=41.24  Aligned_cols=29  Identities=14%  Similarity=-0.023  Sum_probs=26.5

Q ss_pred             CcccccccCccccc-cceeeCCCcccCCCCe
Q psy8111           1 MESAVKHQDKSFRE-DYNKLGGKDRGSGQHF   30 (135)
Q Consensus         1 ~~~~C~~C~~~i~~-~~i~a~~~~~H~~~cf   30 (135)
                      |...|++|++.+.. +-|.-+++.||.. ||
T Consensus         1 Mn~~CaRC~k~VYp~Ekl~ClDk~WHK~-CF   30 (30)
T d1zfoa_           1 MNPNCARCGKIVYPTEKVNCLDKFWHKA-CF   30 (30)
T ss_dssp             CCCBCSSSCSBCCGGGCCCSSSSCCCGG-GC
T ss_pred             CCCcccccCCccccHHHhhhhHHHHhhc-cC
Confidence            78899999999985 7799999999999 98

>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=98.10  E-value=6.7e-07  Score=40.56  Aligned_cols=25  Identities=8%  Similarity=0.140  Sum_probs=22.7

Q ss_pred             ccccCccccc----cceeeCCCcccCCCCe
Q psy8111           5 VKHQDKSFRE----DYNKLGGKDRGSGQHF   30 (135)
Q Consensus         5 C~~C~~~i~~----~~i~a~~~~~H~~~cf   30 (135)
                      |..|.+||.|    ++|+..++.||.+ ||
T Consensus         1 C~~C~kPItg~gg~kyisFE~R~WH~~-CF   29 (29)
T d1x4la1           1 CAGCTNPISGLGGTKYISFEERQWHND-CF   29 (29)
T ss_dssp             BTTTTBCCCCSSSCSCEECSSCEECTT-TC
T ss_pred             CCccCCcccccCCceEEEeeccccccc-CC
Confidence            7899999983    7899999999999 98

>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=98.10  E-value=7.8e-07  Score=41.40  Aligned_cols=32  Identities=34%  Similarity=0.880  Sum_probs=29.3

Q ss_pred             eccccCCccCCCceEeECCeeeccCchhhhcC
Q psy8111          31 CCWQCDESLTGQRYVLRDDHPYCIKCYESVFA   62 (135)
Q Consensus        31 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~   62 (135)
                      .|..|.+||..++|..+++..||..||++.|+
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            37899999999999999999999999998874

>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=98.09  E-value=6.9e-07  Score=44.46  Aligned_cols=26  Identities=12%  Similarity=-0.014  Sum_probs=24.3

Q ss_pred             ccccccCccccccceeeCCCcccCCCC
Q psy8111           3 SAVKHQDKSFREDYNKLGGKDRGSGQH   29 (135)
Q Consensus         3 ~~C~~C~~~i~~~~i~a~~~~~H~~~c   29 (135)
                      ..|..|++.|+|++|.|.++.|||+ |
T Consensus        16 ~~C~~C~~~ItG~V~~Ag~~~yHP~-C   41 (41)
T d1v6ga1          16 TRCFSCDQFIEGEVVSALGKTYHPD-C   41 (41)
T ss_dssp             CBCTTTCCBCCSCCEEETTEEECTT-T
T ss_pred             cccccccCEeeeeeeEecCcccCCC-C
Confidence            3699999999999999999999999 6

>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=98.08  E-value=5.5e-07  Score=41.70  Aligned_cols=27  Identities=41%  Similarity=0.816  Sum_probs=24.1

Q ss_pred             CchhhcCCccccCcccceeCCccccccc
Q psy8111          63 NSCEECSKIIGIDSKDLSYKDKHWHEAC   90 (135)
Q Consensus        63 ~~C~~C~~~I~~~~~~~~~~~~~~H~~C   90 (135)
                      ..|++|+++|. +...+.+.++.||.+|
T Consensus         4 ~~CaGC~~~I~-DRflL~a~Dr~WH~~C   30 (30)
T d1j2oa1           4 LTCGGCQQNIG-DRYFLKAIDQYWHEDC   30 (30)
T ss_dssp             BCBSSSCSCBC-SSEEEECSSSEECTTT
T ss_pred             cccCCCCCcch-HHHHHHHHHHHHhcCC
Confidence            57999999997 6778999999999987

>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=98.05  E-value=1.9e-06  Score=40.19  Aligned_cols=32  Identities=34%  Similarity=0.832  Sum_probs=28.1

Q ss_pred             eccccCCccCCCceEeECCeeeccC-chhhhcC
Q psy8111          31 CCWQCDESLTGQRYVLRDDHPYCIK-CYESVFA   62 (135)
Q Consensus        31 ~C~~C~~~l~~~~~~~~~~~~~C~~-c~~~~~~   62 (135)
                      +|..|++.|......+++|+|||.. ||..+|+
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            5889999999999999999999974 9887763

>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=98.03  E-value=1.1e-06  Score=43.07  Aligned_cols=28  Identities=14%  Similarity=0.064  Sum_probs=25.0

Q ss_pred             cccccccCcccc--ccceeeCCCcccCCCCe
Q psy8111           2 ESAVKHQDKSFR--EDYNKLGGKDRGSGQHF   30 (135)
Q Consensus         2 ~~~C~~C~~~i~--~~~i~a~~~~~H~~~cf   30 (135)
                      .+.|..|+++|.  ++.|.+.|+.||.+ ||
T Consensus         8 a~~C~~C~k~I~~G~k~veykg~~WHe~-CF   37 (37)
T d1x63a1           8 SPKCKGCFKAIVAGDQNVEYKGTVWHKD-CF   37 (37)
T ss_dssp             SCBCSSSCCBCCSSSCEEECSSCEEETT-TC
T ss_pred             CcccccCCCccCCCCeEeEeCCccchhc-cC
Confidence            467999999997  47799999999999 98

>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=98.01  E-value=1.1e-06  Score=40.05  Aligned_cols=29  Identities=38%  Similarity=0.897  Sum_probs=25.1

Q ss_pred             CCchhhcCCccccCcccceeCCcccccccc
Q psy8111          62 ANSCEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        62 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      .+.|++|++.++|.+ .+.-+++.||+.||
T Consensus         2 n~~CaRC~k~VYp~E-kl~ClDk~WHK~CF   30 (30)
T d1zfoa_           2 NPNCARCGKIVYPTE-KVNCLDKFWHKACF   30 (30)
T ss_dssp             CCBCSSSCSBCCGGG-CCCSSSSCCCGGGC
T ss_pred             CCcccccCCccccHH-HhhhhHHHHhhccC
Confidence            378999999999754 57889999999998

>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=98.00  E-value=9.9e-07  Score=38.94  Aligned_cols=27  Identities=56%  Similarity=1.320  Sum_probs=24.2

Q ss_pred             hhhcCCccccCcccceeCCcccccccc
Q psy8111          65 CEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        65 C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      |..|.+||..+..-+...++.||..||
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            677999998888889999999999998

>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=97.99  E-value=1e-06  Score=40.47  Aligned_cols=29  Identities=31%  Similarity=0.820  Sum_probs=26.9

Q ss_pred             eccccCCccCCCceEeECCeeeccCchhh
Q psy8111          31 CCWQCDESLTGQRYVLRDDHPYCIKCYES   59 (135)
Q Consensus        31 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~   59 (135)
                      .|..|+..|.+++|+..+.+.||+.||..
T Consensus         1 vC~tC~~kLRGqpFYAvekkayCE~CYi~   29 (32)
T d1x61a2           1 VCSTCRAQLRGQHFYAVERRAYCEGCYVA   29 (32)
T ss_dssp             BCSSSCCBCTTSCEEESSSCEEEHHHHHH
T ss_pred             CeeEeCceecCCcceEeeccccccceeee
Confidence            47899999999999999999999999975

>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=97.95  E-value=1.6e-06  Score=39.30  Aligned_cols=27  Identities=33%  Similarity=0.999  Sum_probs=22.5

Q ss_pred             hhhcCCcccc--CcccceeCCcccccccc
Q psy8111          65 CEECSKIIGI--DSKDLSYKDKHWHEACF   91 (135)
Q Consensus        65 C~~C~~~I~~--~~~~~~~~~~~~H~~Cf   91 (135)
                      |++|.+||..  +...|++.++.||.+||
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            7789999942  35779999999999998

>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=97.94  E-value=1.1e-06  Score=39.72  Aligned_cols=25  Identities=12%  Similarity=0.074  Sum_probs=22.5

Q ss_pred             ccccCccccc----cceeeCCCcccCCCCe
Q psy8111           5 VKHQDKSFRE----DYNKLGGKDRGSGQHF   30 (135)
Q Consensus         5 C~~C~~~i~~----~~i~a~~~~~H~~~cf   30 (135)
                      |..|.+||.|    ++|...++.||.+ ||
T Consensus         1 C~~C~kPItg~gG~k~isFedR~WH~~-CF   29 (29)
T d1x68a1           1 CVACSKPISGLTGAKFICFQDSQWHSE-CF   29 (29)
T ss_dssp             CTTTCCCCCTTTTCCEEEETTEEEEGG-GC
T ss_pred             CccccccccccCCceEEEeehhhcccc-cC
Confidence            7899999984    6799999999999 97

>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=97.93  E-value=1.2e-06  Score=41.32  Aligned_cols=32  Identities=25%  Similarity=0.595  Sum_probs=28.2

Q ss_pred             eccccCCccCCCceEe-ECCeeeccCchhhhcC
Q psy8111          31 CCWQCDESLTGQRYVL-RDDHPYCIKCYESVFA   62 (135)
Q Consensus        31 ~C~~C~~~l~~~~~~~-~~~~~~C~~c~~~~~~   62 (135)
                      +|..|++.|+|.+|.. .++++||.++|.++|+
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            5789999999999986 6799999999998874

>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=97.89  E-value=2.9e-06  Score=38.83  Aligned_cols=26  Identities=15%  Similarity=0.078  Sum_probs=24.4

Q ss_pred             ccccccCccccccceeeCCCcccCCCC
Q psy8111           3 SAVKHQDKSFREDYNKLGGKDRGSGQH   29 (135)
Q Consensus         3 ~~C~~C~~~i~~~~i~a~~~~~H~~~c   29 (135)
                      +-|..|++.|.|++++|.++.|||. |
T Consensus         6 sgC~~C~~~ItGkVLEAG~khYHP~-C   31 (32)
T d1wiga1           6 SGCDSCEKYITGRVLEAGEKHYHPS-C   31 (32)
T ss_dssp             CSCSSSCCCCSSCCBCCSSCCBCTT-T
T ss_pred             chhhhhhhhhhhhhhhccccccCCC-C
Confidence            5699999999999999999999998 6

>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=97.88  E-value=3.2e-06  Score=42.34  Aligned_cols=28  Identities=14%  Similarity=0.017  Sum_probs=26.3

Q ss_pred             cccccccCccccccceeeCCCcccCCCCe
Q psy8111           2 ESAVKHQDKSFREDYNKLGGKDRGSGQHF   30 (135)
Q Consensus         2 ~~~C~~C~~~i~~~~i~a~~~~~H~~~cf   30 (135)
                      ...|.+|+.-|.|.++.+.++.+|++ ||
T Consensus        18 LP~CdkCg~GIVG~~VK~rDK~rHPe-Cf   45 (45)
T d1x64a1          18 MPLCDKCGSGIVGAVVKARDKYRHPE-CF   45 (45)
T ss_dssp             CCBCTTTCCBCCSCCEESSSCEECTT-TC
T ss_pred             CccccccCCCcEEEEEEeccccCCCC-CC
Confidence            45799999999999999999999999 98

>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=97.87  E-value=3e-06  Score=39.85  Aligned_cols=28  Identities=11%  Similarity=0.127  Sum_probs=26.1

Q ss_pred             cccccccCccccccceeeCCCcccCCCCe
Q psy8111           2 ESAVKHQDKSFREDYNKLGGKDRGSGQHF   30 (135)
Q Consensus         2 ~~~C~~C~~~i~~~~i~a~~~~~H~~~cf   30 (135)
                      ...|.+|+.-|.|.++.+.++.+||+ ||
T Consensus         8 lp~CdkCg~GIVG~~VK~rDk~rHPe-Cf   35 (35)
T d1x62a2           8 LPMCDKCGTGIVGVFVKLRDRHRHPE-CY   35 (35)
T ss_dssp             CCCCSSSCCCCCSSCEECSSCEECTT-TT
T ss_pred             CccccccCCCcEeEEEEeccccCCCC-CC
Confidence            35799999999999999999999999 97

>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=97.86  E-value=3.6e-06  Score=38.72  Aligned_cols=31  Identities=26%  Similarity=0.839  Sum_probs=28.4

Q ss_pred             cccccccCCCCCeeeeCCcccCHHhHhhhcC
Q psy8111          93 CSKCRQSLVDKQFGSKSEKIYCGNCYDAQFA  123 (135)
Q Consensus        93 C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~  123 (135)
                      |-.|.+.|.+.....+++.+||+.||.++|+
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            6789999999999999999999999999875

>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=97.82  E-value=3.7e-06  Score=38.77  Aligned_cols=29  Identities=31%  Similarity=0.770  Sum_probs=24.6

Q ss_pred             CCchhhcCCccccCcccceeCCcccccccc
Q psy8111          62 ANSCEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        62 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      .++|++|++++++.+ .+..+|+.||..|+
T Consensus         2 ~~~CprC~K~VYfaE-k~~~lgk~WHk~Cl   30 (30)
T d2cu8a1           2 ASKCPKCDKTVYFAE-KVSSLGKDWHKFCL   30 (30)
T ss_dssp             CCBCTTTCCBCCTTT-EEEETTEEEETTTC
T ss_pred             CCcCCCCCCceeeHH-hhccCCcccccccC
Confidence            478999999999755 57888999999884

>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=97.81  E-value=4e-06  Score=40.48  Aligned_cols=29  Identities=28%  Similarity=0.606  Sum_probs=25.5

Q ss_pred             CCchhhcCCccccCcccceeCCcccccccc
Q psy8111          62 ANSCEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        62 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      ..+|..|++.+++ -+.+.+.|+.||.+||
T Consensus         7 ~~kC~~C~K~VY~-~E~~~a~g~~~Hk~CF   35 (35)
T d2d8ya1           7 RETCVECQKTVYP-MERLLANQQVFHISCF   35 (35)
T ss_dssp             SCBCTTTCCBCCT-TSEEECSSSEEETTTC
T ss_pred             CcccccCCCEEee-eeeEecCCeehhhccC
Confidence            5799999999986 4568999999999998

>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=97.79  E-value=2.9e-06  Score=43.06  Aligned_cols=29  Identities=24%  Similarity=0.760  Sum_probs=25.0

Q ss_pred             CCchhhcCCccccCcccceeCCcccccccc
Q psy8111          62 ANSCEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        62 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      +++|..|++.+++.+ .+.+.|+.||..||
T Consensus        15 ~~kC~~C~k~VY~~E-~~~~~g~~~Hk~CF   43 (43)
T d1b8ta3          15 SDGCPRCGQAVYAAE-KVIGAGKSWHKSCF   43 (43)
T ss_dssp             CEECTTTSCEECSSS-CEEETTEEECTTTC
T ss_pred             CCcCccCCCEeeHHH-HhhcCCCccccCCC
Confidence            368999999998655 57889999999998

>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=97.78  E-value=4.1e-06  Score=37.82  Aligned_cols=27  Identities=41%  Similarity=0.963  Sum_probs=22.2

Q ss_pred             hhhcCCcccc--CcccceeCCcccccccc
Q psy8111          65 CEECSKIIGI--DSKDLSYKDKHWHEACF   91 (135)
Q Consensus        65 C~~C~~~I~~--~~~~~~~~~~~~H~~Cf   91 (135)
                      |.+|.+||..  +...|.+.++.||.+||
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            6789999842  35679999999999998

>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=97.77  E-value=6.2e-06  Score=39.96  Aligned_cols=29  Identities=21%  Similarity=0.610  Sum_probs=25.3

Q ss_pred             CCchhhcCCccccCcccceeCCcccccccc
Q psy8111          62 ANSCEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        62 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      ..+|..|++.+++- +.+.+.|+.||.+||
T Consensus         8 ~~~C~~C~K~VY~~-Erl~a~g~~yHk~CF   36 (36)
T d2co8a2           8 GDLCALCGEHLYVL-ERLCVNGHFFHRSCF   36 (36)
T ss_dssp             SCBCSSSCCBCCTT-TBCCBTTBCCBTTTC
T ss_pred             CCcccccCCEEeee-eEEEecCcEeccccC
Confidence            47999999999864 467899999999998

>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=97.68  E-value=6.7e-06  Score=38.62  Aligned_cols=28  Identities=25%  Similarity=0.629  Sum_probs=25.2

Q ss_pred             CCchhhcCCccccCcccceeCCcccccccc
Q psy8111          62 ANSCEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        62 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      .|.|..|+..|.  +.++.++++.+||+||
T Consensus         8 lp~CdkCg~GIV--G~~VK~rDk~rHPeCf   35 (35)
T d1x62a2           8 LPMCDKCGTGIV--GVFVKLRDRHRHPECY   35 (35)
T ss_dssp             CCCCSSSCCCCC--SSCEECSSCEECTTTT
T ss_pred             CccccccCCCcE--eEEEEeccccCCCCCC
Confidence            478999999995  7789999999999997

>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=97.68  E-value=1e-05  Score=38.47  Aligned_cols=27  Identities=4%  Similarity=-0.036  Sum_probs=25.2

Q ss_pred             ccccccCccccccceeeCCCcccCCCCe
Q psy8111           3 SAVKHQDKSFREDYNKLGGKDRGSGQHF   30 (135)
Q Consensus         3 ~~C~~C~~~i~~~~i~a~~~~~H~~~cf   30 (135)
                      ..|.+|+++|..--|+-.++.||.+ ||
T Consensus         9 ~~C~~Ckk~It~GGvtY~dqpWHke-CF   35 (35)
T d2cuqa2           9 PRCARCSKTLTQGGVTYRDQPWHRE-CL   35 (35)
T ss_dssp             CCCTTTCCCCCSCCEESSSSEECTT-TC
T ss_pred             HHHhhcCCccccCceeecCCcchhh-hC
Confidence            5699999999999999999999999 98

>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=97.67  E-value=1.7e-05  Score=35.90  Aligned_cols=32  Identities=38%  Similarity=0.847  Sum_probs=29.5

Q ss_pred             ccccccccCCCCCeeeeCCcccCHHhHhhhcC
Q psy8111          92 SCSKCRQSLVDKQFGSKSEKIYCGNCYDAQFA  123 (135)
Q Consensus        92 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~  123 (135)
                      +|+.|+..|+.+.|+......||-.|.+.+|+
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            48999999999999999999999999998875

>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=97.66  E-value=1.5e-05  Score=37.48  Aligned_cols=32  Identities=25%  Similarity=0.564  Sum_probs=28.6

Q ss_pred             ccccccccCCCCCeeee-CCcccCHHhHhhhcC
Q psy8111          92 SCSKCRQSLVDKQFGSK-SEKIYCGNCYDAQFA  123 (135)
Q Consensus        92 ~C~~C~~~l~~~~~~~~-~~~~~C~~c~~~~~~  123 (135)
                      +|..|++.|.+..|... ++++||-++|.++|+
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            48899999999988876 699999999999886

>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=1.6e-05  Score=36.30  Aligned_cols=29  Identities=28%  Similarity=0.878  Sum_probs=26.6

Q ss_pred             ccccccccCCCCCeeeeCCcccCHHhHhh
Q psy8111          92 SCSKCRQSLVDKQFGSKSEKIYCGNCYDA  120 (135)
Q Consensus        92 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~  120 (135)
                      .|+.|+++|++..|...+++.||-+||..
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

>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=97.63  E-value=1.6e-05  Score=36.00  Aligned_cols=32  Identities=25%  Similarity=0.730  Sum_probs=28.8

Q ss_pred             eccccCCccCCCceEeECCeeeccCchhhhcC
Q psy8111          31 CCWQCDESLTGQRYVLRDDHPYCIKCYESVFA   62 (135)
Q Consensus        31 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~   62 (135)
                      +|+.|++.+.+..|+.+....||..|.+..|+
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            58999999999999999999999999987763

>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=97.62  E-value=1e-05  Score=40.47  Aligned_cols=28  Identities=29%  Similarity=0.566  Sum_probs=25.4

Q ss_pred             CCchhhcCCccccCcccceeCCcccccccc
Q psy8111          62 ANSCEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        62 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      .|.|..|+..|.  +.++.++++.+||+||
T Consensus        18 LP~CdkCg~GIV--G~~VK~rDK~rHPeCf   45 (45)
T d1x64a1          18 MPLCDKCGSGIV--GAVVKARDKYRHPECF   45 (45)
T ss_dssp             CCBCTTTCCBCC--SCCEESSSCEECTTTC
T ss_pred             CccccccCCCcE--EEEEEeccccCCCCCC
Confidence            378999999995  7789999999999998

>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=97.57  E-value=1.9e-05  Score=36.99  Aligned_cols=26  Identities=4%  Similarity=-0.138  Sum_probs=24.3

Q ss_pred             ccccccCccccccceeeCCCcccCCCC
Q psy8111           3 SAVKHQDKSFREDYNKLGGKDRGSGQH   29 (135)
Q Consensus         3 ~~C~~C~~~i~~~~i~a~~~~~H~~~c   29 (135)
                      ..|..|.++|.|.++.|.+..|||+ |
T Consensus         9 e~C~~C~~~itGpvMvAG~~K~HPE-C   34 (34)
T d1x6aa1           9 EFCHGCSLLMTGPFMVAGEFKYHPE-C   34 (34)
T ss_dssp             CBCTTTCCBCCSCCBCCTTCCBCTT-S
T ss_pred             HHhhhhHhhcccceeeecccccCCC-C
Confidence            4699999999999999999999999 6

>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=97.55  E-value=2.1e-05  Score=36.07  Aligned_cols=31  Identities=26%  Similarity=0.771  Sum_probs=27.7

Q ss_pred             ccccCCccCCCceEeECCeeeccCchhhhcC
Q psy8111          32 CWQCDESLTGQRYVLRDDHPYCIKCYESVFA   62 (135)
Q Consensus        32 C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~   62 (135)
                      |-.|++.|++..-..+++.+||+.||-+.++
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            6689999999989999999999999988763

>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=97.48  E-value=1.4e-05  Score=35.67  Aligned_cols=27  Identities=26%  Similarity=0.684  Sum_probs=21.4

Q ss_pred             CchhhcCCccccCcccceeCCccccccc
Q psy8111          63 NSCEECSKIIGIDSKDLSYKDKHWHEAC   90 (135)
Q Consensus        63 ~~C~~C~~~I~~~~~~~~~~~~~~H~~C   90 (135)
                      .+|.+|++.++..+.+| -.|+.||+.|
T Consensus         2 d~CpRC~~~VyaAEkvi-GaG~~WHk~C   28 (28)
T d1ibia1           2 EKCSRCGDSVYAAEKVI-GAGKPWHKNC   28 (28)
T ss_dssp             EECTTTSSEESSSSCEE-SSSSEECSSC
T ss_pred             CcCcccchhHHHHHHHh-cCCCccccCC
Confidence            47999999998666554 4588999986

>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=97.44  E-value=2.8e-05  Score=37.43  Aligned_cols=27  Identities=7%  Similarity=-0.086  Sum_probs=24.6

Q ss_pred             ccccccCccccc-cceeeCCCcccCCCCe
Q psy8111           3 SAVKHQDKSFRE-DYNKLGGKDRGSGQHF   30 (135)
Q Consensus         3 ~~C~~C~~~i~~-~~i~a~~~~~H~~~cf   30 (135)
                      ..|..|++.+.- +-+.|+|+.||.. ||
T Consensus         8 ~kC~~C~K~VY~~E~~~a~g~~~Hk~-CF   35 (35)
T d2d8ya1           8 ETCVECQKTVYPMERLLANQQVFHIS-CF   35 (35)
T ss_dssp             CBCTTTCCBCCTTSEEECSSSEEETT-TC
T ss_pred             cccccCCCEEeeeeeEecCCeehhhc-cC
Confidence            579999999985 7899999999999 98

>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=97.40  E-value=3.8e-05  Score=37.09  Aligned_cols=27  Identities=7%  Similarity=-0.055  Sum_probs=24.5

Q ss_pred             ccccccCccccc-cceeeCCCcccCCCCe
Q psy8111           3 SAVKHQDKSFRE-DYNKLGGKDRGSGQHF   30 (135)
Q Consensus         3 ~~C~~C~~~i~~-~~i~a~~~~~H~~~cf   30 (135)
                      .+|..|++.+.- +-+.|.|+.||.+ ||
T Consensus         9 ~~C~~C~K~VY~~Erl~a~g~~yHk~-CF   36 (36)
T d2co8a2           9 DLCALCGEHLYVLERLCVNGHFFHRS-CF   36 (36)
T ss_dssp             CBCSSSCCBCCTTTBCCBTTBCCBTT-TC
T ss_pred             CcccccCCEEeeeeEEEecCcEeccc-cC
Confidence            579999999985 7799999999999 98

>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=97.39  E-value=3.4e-05  Score=35.18  Aligned_cols=26  Identities=35%  Similarity=0.885  Sum_probs=23.2

Q ss_pred             CchhhcCCccccCcccceeCCccccccc
Q psy8111          63 NSCEECSKIIGIDSKDLSYKDKHWHEAC   90 (135)
Q Consensus        63 ~~C~~C~~~I~~~~~~~~~~~~~~H~~C   90 (135)
                      .-|..|.+.|  .+.++++.++.|||.|
T Consensus         6 sgC~~C~~~I--tGkVLEAG~khYHP~C   31 (32)
T d1wiga1           6 SGCDSCEKYI--TGRVLEAGEKHYHPSC   31 (32)
T ss_dssp             CSCSSSCCCC--SSCCBCCSSCCBCTTT
T ss_pred             chhhhhhhhh--hhhhhhccccccCCCC
Confidence            4688999999  5889999999999987

>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=97.32  E-value=6.5e-05  Score=34.29  Aligned_cols=29  Identities=38%  Similarity=0.878  Sum_probs=26.4

Q ss_pred             ccccccccCCCCCeeeeCCcccCHHhHhh
Q psy8111          92 SCSKCRQSLVDKQFGSKSEKIYCGNCYDA  120 (135)
Q Consensus        92 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~  120 (135)
                      .|..|+..|.++.|+..+.+.||+.||-.
T Consensus         1 vC~tC~~kLRGqpFYAvekkayCE~CYi~   29 (32)
T d1x61a2           1 VCSTCRAQLRGQHFYAVERRAYCEGCYVA   29 (32)
T ss_dssp             BCSSSCCBCTTSCEEESSSCEEEHHHHHH
T ss_pred             CeeEeCceecCCcceEeeccccccceeee
Confidence            47889999999999999999999999964

>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=97.29  E-value=0.0001  Score=33.53  Aligned_cols=29  Identities=24%  Similarity=0.518  Sum_probs=26.1

Q ss_pred             ccccccccCCCCCeeeeCCcccCHHhHhh
Q psy8111          92 SCSKCRQSLVDKQFGSKSEKIYCGNCYDA  120 (135)
Q Consensus        92 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~  120 (135)
                      .|+.|+..|....++..++++||+.+...
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            48999999999999999999999999764

>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=97.27  E-value=5e-05  Score=38.29  Aligned_cols=27  Identities=11%  Similarity=0.070  Sum_probs=24.2

Q ss_pred             ccccccCccccc-cceeeCCCcccCCCCe
Q psy8111           3 SAVKHQDKSFRE-DYNKLGGKDRGSGQHF   30 (135)
Q Consensus         3 ~~C~~C~~~i~~-~~i~a~~~~~H~~~cf   30 (135)
                      ..|..|++.+.- +-+.+.|+.||.. ||
T Consensus        16 ~kC~~C~k~VY~~E~~~~~g~~~Hk~-CF   43 (43)
T d1b8ta3          16 DGCPRCGQAVYAAEKVIGAGKSWHKS-CF   43 (43)
T ss_dssp             EECTTTSCEECSSSCEEETTEEECTT-TC
T ss_pred             CcCccCCCEeeHHHHhhcCCCccccC-CC
Confidence            469999999984 7789999999999 98

>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=97.14  E-value=7.9e-05  Score=32.80  Aligned_cols=25  Identities=12%  Similarity=0.105  Sum_probs=21.8

Q ss_pred             ccccCcccc-c-cceeeCCCcccCCCCe
Q psy8111           5 VKHQDKSFR-E-DYNKLGGKDRGSGQHF   30 (135)
Q Consensus         5 C~~C~~~i~-~-~~i~a~~~~~H~~~cf   30 (135)
                      |..|++.|. | +.++..|..||.. ||
T Consensus         1 C~~C~ktiMPGsrKme~kG~~WHEt-CF   27 (27)
T d1x4ka2           1 CQECKKTIMPGTRKMEYKGSSWHET-CF   27 (27)
T ss_dssp             BSSSCCCCCSSSCEEEETTEEEETT-TT
T ss_pred             CccccccccCCceeecccCCccccc-cC
Confidence            778999997 4 6699999999999 87

>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=97.07  E-value=0.00011  Score=32.21  Aligned_cols=25  Identities=12%  Similarity=0.126  Sum_probs=21.5

Q ss_pred             ccccCcccc-c-cceeeCCCcccCCCCe
Q psy8111           5 VKHQDKSFR-E-DYNKLGGKDRGSGQHF   30 (135)
Q Consensus         5 C~~C~~~i~-~-~~i~a~~~~~H~~~cf   30 (135)
                      |..|++.|. | +.++-.|..||.. ||
T Consensus         1 C~~C~ktiMPGsrKmey~G~sWHE~-CF   27 (27)
T d1wyha2           1 CSACGETVMPGSRKLEYGGQTWHEH-CF   27 (27)
T ss_dssp             CSSSCCBCCSSSCEECSTTCCEETT-TC
T ss_pred             CccccceecCCcccccccCcccccc-cC
Confidence            678999987 4 6689999999999 98

>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=97.04  E-value=0.00012  Score=32.23  Aligned_cols=27  Identities=19%  Similarity=0.744  Sum_probs=22.8

Q ss_pred             chhhcCCccccCcccceeCCcccccccc
Q psy8111          64 SCEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        64 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      +|..|.+.++- .+-|...|++||..||
T Consensus         2 kcg~c~ktvy~-aeevqc~grsfhk~cf   28 (28)
T d1a7ia1           2 KCGACGRTVYH-AEEVQCDGRSFHRCCF   28 (28)
T ss_dssp             BCSSSCCBCSS-TTEEEETTEEEESSSE
T ss_pred             ccccccceEee-eeeeeecCceeccccC
Confidence            68899999974 4568889999999997

>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=97.03  E-value=0.00012  Score=34.41  Aligned_cols=29  Identities=24%  Similarity=0.552  Sum_probs=25.8

Q ss_pred             CCchhhcCCccccCcccceeCCccccccc
Q psy8111          62 ANSCEECSKIIGIDSKDLSYKDKHWHEAC   90 (135)
Q Consensus        62 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~C   90 (135)
                      ...|.+|+....|.+.+|..+|..||+.|
T Consensus         7 ~~~C~RC~~gF~p~EkiVNSnGEl~H~qC   35 (35)
T d1g47a1           7 SATCERCKGGFAPAEKIVNSNGELYHEQC   35 (35)
T ss_dssp             CCBCSSSCCBCCSTTTCEEETTEEECTTT
T ss_pred             HHHHHHHccCCCchHHhhcCCCccccccC
Confidence            35789999999889999999999999987

>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=97.03  E-value=8.6e-05  Score=34.42  Aligned_cols=27  Identities=15%  Similarity=0.092  Sum_probs=23.1

Q ss_pred             ccccccCccccc-c-ceeeCCCcccCCCCe
Q psy8111           3 SAVKHQDKSFRE-D-YNKLGGKDRGSGQHF   30 (135)
Q Consensus         3 ~~C~~C~~~i~~-~-~i~a~~~~~H~~~cf   30 (135)
                      ..|++|++.|.. + ++.|.++.||.+ ||
T Consensus         3 g~Ca~C~~~I~~~e~VmRA~~~VyHl~-CF   31 (31)
T d1rutx3           3 GACSACGQSIPASELVMRAQGNVYHLK-CF   31 (31)
T ss_dssp             EECTTTCCEECTTSEEEEETTEEECGG-GC
T ss_pred             cccccccCcCChhHhheecccceeeec-cC
Confidence            469999999973 4 478999999999 98

>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=96.99  E-value=0.00011  Score=34.13  Aligned_cols=29  Identities=21%  Similarity=0.718  Sum_probs=24.2

Q ss_pred             CCchhhcCCccccCcccceeCCcccccccc
Q psy8111          62 ANSCEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        62 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      +.+|..|.+.++. .+-|...|++||+.||
T Consensus         7 g~kcg~c~ktvy~-aeevqc~g~sfhk~cf   35 (35)
T d1b8ta1           7 GKKCGVCQKAVYF-AEEVQCEGSSFHKSCF   35 (35)
T ss_dssp             CEECTTTCCEECS-SCCEEETTEEECTTTC
T ss_pred             CceeccccceEee-eeeeeecCcccccccC
Confidence            4689999999974 4457889999999998

>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=96.79  E-value=0.00036  Score=31.67  Aligned_cols=29  Identities=21%  Similarity=0.549  Sum_probs=25.3

Q ss_pred             eccccCCccCCCceEeECCeeeccCchhh
Q psy8111          31 CCWQCDESLTGQRYVLRDDHPYCIKCYES   59 (135)
Q Consensus        31 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~   59 (135)
                      .|+.|+..|....+|..++++||+.+...
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            48999999998899999999999987543

>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=96.78  E-value=0.00028  Score=30.37  Aligned_cols=27  Identities=26%  Similarity=0.592  Sum_probs=22.9

Q ss_pred             hhhcCCccccCcccceeCCcccccccc
Q psy8111          65 CEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        65 C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      |.+|++.+..++.-+.++++.||..||
T Consensus         1 cggcgedvvgdgagvvaldrvfhvgcf   27 (27)
T d1x61a1           1 CGGCGEDVVGDGAGVVALDRVFHVGCF   27 (27)
T ss_dssp             CSSSCSCCCSSSCCEECSSSEECTTTC
T ss_pred             CCCcccccccCCcceEEEeeeEEeccC
Confidence            677888887677778999999999987

>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=96.76  E-value=0.00036  Score=31.53  Aligned_cols=28  Identities=29%  Similarity=0.694  Sum_probs=24.7

Q ss_pred             eccccCCccCCCceEeECCeeeccCchh
Q psy8111          31 CCWQCDESLTGQRYVLRDDHPYCIKCYE   58 (135)
Q Consensus        31 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~   58 (135)
                      +|+.|-.+|..+.|..+|++++|.+|-.
T Consensus         1 RCaKC~hpLA~E~F~aKd~kI~C~Kc~s   28 (31)
T d2cupa2           1 RCAKCLHPLANETFVAKDNKILCNKCTT   28 (31)
T ss_dssp             CCSSSCCCTTSSCCEEETTEEECHHHHT
T ss_pred             CchhhccccccCcccccCCeEeeccccc
Confidence            5888999999999999999999987743

>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=96.67  E-value=0.00041  Score=30.31  Aligned_cols=25  Identities=12%  Similarity=-0.003  Sum_probs=20.7

Q ss_pred             ccccCcccccc--ceeeCCCcccCCCCe
Q psy8111           5 VKHQDKSFRED--YNKLGGKDRGSGQHF   30 (135)
Q Consensus         5 C~~C~~~i~~~--~i~a~~~~~H~~~cf   30 (135)
                      |.-|.+||...  -+..-++.||.. ||
T Consensus         1 c~ecrkpigad~ke~h~knr~wh~~-cf   27 (27)
T d2cupa3           1 CVECRKPIGADSKEVHYKNRFWHDT-CF   27 (27)
T ss_dssp             CSSSCCBCCSSSCEEEETTEEEETT-TC
T ss_pred             CccccCCcCcchHHhhccccccccc-cC
Confidence            67899999743  377789999999 87

>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=96.67  E-value=0.00013  Score=33.23  Aligned_cols=30  Identities=23%  Similarity=0.500  Sum_probs=26.0

Q ss_pred             ccccccccCCCCCeeeeCCcccCHHhHhhh
Q psy8111          92 SCSKCRQSLVDKQFGSKSEKIYCGNCYDAQ  121 (135)
Q Consensus        92 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~  121 (135)
                      .|+.|+..|....++..++++||+.+...+
T Consensus         1 vC~dCg~NLKqrG~Ffve~~lyCE~HAr~r   30 (31)
T d1x62a1           1 VCTDCGTNLKQKGHFFVEDQIYCEKHARER   30 (31)
T ss_dssp             SCSSSCCCHHHHCCEESSSCEECHHHHHHH
T ss_pred             CccccccChhhcceEEeccEEehhhhhhhc
Confidence            488999999988899999999999997643

>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=96.55  E-value=0.00084  Score=31.18  Aligned_cols=31  Identities=26%  Similarity=0.803  Sum_probs=25.5

Q ss_pred             cccccccccCCCC-Ceeee-CCcccCHHhHhhh
Q psy8111          91 FSCSKCRQSLVDK-QFGSK-SEKIYCGNCYDAQ  121 (135)
Q Consensus        91 f~C~~C~~~l~~~-~~~~~-~~~~~C~~c~~~~  121 (135)
                      |.|..|+..|+++ .|... ..++||..||.+.
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            7899999999865 67776 5899999999764

>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=96.43  E-value=0.0012  Score=29.77  Aligned_cols=28  Identities=36%  Similarity=0.867  Sum_probs=25.2

Q ss_pred             ccccccccCCCCCeeeeCCcccCHHhHh
Q psy8111          92 SCSKCRQSLVDKQFGSKSEKIYCGNCYD  119 (135)
Q Consensus        92 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~  119 (135)
                      +|..|-.+|..+.|...|+++.|..|-.
T Consensus         1 RCaKC~hpLA~E~F~aKd~kI~C~Kc~s   28 (31)
T d2cupa2           1 RCAKCLHPLANETFVAKDNKILCNKCTT   28 (31)
T ss_dssp             CCSSSCCCTTSSCCEEETTEEECHHHHT
T ss_pred             CchhhccccccCcccccCCeEeeccccc
Confidence            5888999999999999999999999854

>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=96.38  E-value=0.00086  Score=31.39  Aligned_cols=27  Identities=11%  Similarity=0.047  Sum_probs=24.6

Q ss_pred             ccccccCccccccceeeCCCcccCCCCe
Q psy8111           3 SAVKHQDKSFREDYNKLGGKDRGSGQHF   30 (135)
Q Consensus         3 ~~C~~C~~~i~~~~i~a~~~~~H~~~cf   30 (135)
                      -.|.+|+.+|+++-+...|..||+. +|
T Consensus         9 ~vC~KCh~iIdd~pL~Fr~d~YHp~-HF   35 (35)
T d2cora2           9 YICQKCHAIIDEQPLIFKNDPYHPD-HF   35 (35)
T ss_dssp             CBCTTTCCBCCSCCCCCSSSCCCTT-TS
T ss_pred             HHHHHHHhhhhcCcceecCCCCCCC-CC
Confidence            3699999999999999999999998 87

>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=96.38  E-value=0.00049  Score=32.00  Aligned_cols=32  Identities=22%  Similarity=0.454  Sum_probs=26.8

Q ss_pred             eccccCCccC--CCceEeECCeeeccCchhhhcC
Q psy8111          31 CCWQCDESLT--GQRYVLRDDHPYCIKCYESVFA   62 (135)
Q Consensus        31 ~C~~C~~~l~--~~~~~~~~~~~~C~~c~~~~~~   62 (135)
                      +|+-|+..|.  +...|.+.|.++|+.+|.+.|+
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            4777888885  4579999999999999998774

>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=96.14  E-value=0.0011  Score=30.77  Aligned_cols=32  Identities=34%  Similarity=0.525  Sum_probs=27.5

Q ss_pred             ccccccccCC--CCCeeeeCCcccCHHhHhhhcC
Q psy8111          92 SCSKCRQSLV--DKQFGSKSEKIYCGNCYDAQFA  123 (135)
Q Consensus        92 ~C~~C~~~l~--~~~~~~~~~~~~C~~c~~~~~~  123 (135)
                      +|+.|+..|+  +...+.+.|.+.|+.+|.++|+
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            5788888886  4578899999999999999885

>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=96.13  E-value=0.0014  Score=28.99  Aligned_cols=26  Identities=12%  Similarity=-0.037  Sum_probs=21.6

Q ss_pred             ccccccCccccc-cceeeCCCcccCCCC
Q psy8111           3 SAVKHQDKSFRE-DYNKLGGKDRGSGQH   29 (135)
Q Consensus         3 ~~C~~C~~~i~~-~~i~a~~~~~H~~~c   29 (135)
                      ..|.+|++.+.. +-|.-.|+.||.. |
T Consensus         2 d~CpRC~~~VyaAEkviGaG~~WHk~-C   28 (28)
T d1ibia1           2 EKCSRCGDSVYAAEKVIGAGKPWHKN-C   28 (28)
T ss_dssp             EECTTTSSEESSSSCEESSSSEECSS-C
T ss_pred             CcCcccchhHHHHHHHhcCCCccccC-C
Confidence            469999999984 6677789999998 6

>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=95.95  E-value=0.0035  Score=28.47  Aligned_cols=27  Identities=19%  Similarity=0.442  Sum_probs=22.1

Q ss_pred             eccccCCccCCC-ceEeECCeeeccCch
Q psy8111          31 CCWQCDESLTGQ-RYVLRDDHPYCIKCY   57 (135)
Q Consensus        31 ~C~~C~~~l~~~-~~~~~~~~~~C~~c~   57 (135)
                      +|+.|.-.|... +|...+|.+||+.+-
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            478898888654 888999999999873

>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=95.81  E-value=0.0026  Score=27.79  Aligned_cols=27  Identities=7%  Similarity=0.069  Sum_probs=23.4

Q ss_pred             ccccccCcccc-ccceeeCCCcccCCCCe
Q psy8111           3 SAVKHQDKSFR-EDYNKLGGKDRGSGQHF   30 (135)
Q Consensus         3 ~~C~~C~~~i~-~~~i~a~~~~~H~~~cf   30 (135)
                      +.|..|++.+. .+-|.-.|+.||.. ||
T Consensus         1 nkcg~c~ktvy~aeevqc~grsfhk~-cf   28 (28)
T d1a7ia1           1 NKCGACGRTVYHAEEVQCDGRSFHRC-CF   28 (28)
T ss_dssp             CBCSSSCCBCSSTTEEEETTEEEESS-SE
T ss_pred             CccccccceEeeeeeeeecCceeccc-cC
Confidence            36889999987 57799999999999 87

>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=95.75  E-value=0.0023  Score=29.48  Aligned_cols=27  Identities=11%  Similarity=0.046  Sum_probs=23.6

Q ss_pred             ccccccCcccc-ccceeeCCCcccCCCCe
Q psy8111           3 SAVKHQDKSFR-EDYNKLGGKDRGSGQHF   30 (135)
Q Consensus         3 ~~C~~C~~~i~-~~~i~a~~~~~H~~~cf   30 (135)
                      ..|..|.+.+. .+-|.-.|++||.. ||
T Consensus         8 ~kcg~c~ktvy~aeevqc~g~sfhk~-cf   35 (35)
T d1b8ta1           8 KKCGVCQKAVYFAEEVQCEGSSFHKS-CF   35 (35)
T ss_dssp             EECTTTCCEECSSCCEEETTEEECTT-TC
T ss_pred             ceeccccceEeeeeeeeecCcccccc-cC
Confidence            46999999987 57799999999999 87

>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=95.70  E-value=0.0032  Score=26.92  Aligned_cols=25  Identities=8%  Similarity=-0.170  Sum_probs=21.2

Q ss_pred             ccccCccccc--cceeeCCCcccCCCCe
Q psy8111           5 VKHQDKSFRE--DYNKLGGKDRGSGQHF   30 (135)
Q Consensus         5 C~~C~~~i~~--~~i~a~~~~~H~~~cf   30 (135)
                      |..|++.+.+  .-+.|+++.||.. ||
T Consensus         1 cggcgedvvgdgagvvaldrvfhvg-cf   27 (27)
T d1x61a1           1 CGGCGEDVVGDGAGVVALDRVFHVG-CF   27 (27)
T ss_dssp             CSSSCSCCCSSSCCEECSSSEECTT-TC
T ss_pred             CCCcccccccCCcceEEEeeeEEec-cC
Confidence            6789998874  4589999999999 87

>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=95.68  E-value=0.0029  Score=29.56  Aligned_cols=27  Identities=33%  Similarity=0.776  Sum_probs=22.3

Q ss_pred             CchhhcCCccccCcccceeCCcccccccc
Q psy8111          63 NSCEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        63 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      -.|..|...|  +++.+.+.+..||+..|
T Consensus         9 ~vC~KCh~iI--dd~pL~Fr~d~YHp~HF   35 (35)
T d2cora2           9 YICQKCHAII--DEQPLIFKNDPYHPDHF   35 (35)
T ss_dssp             CBCTTTCCBC--CSCCCCCSSSCCCTTTS
T ss_pred             HHHHHHHhhh--hcCcceecCCCCCCCCC
Confidence            3677788888  57789999999999877

>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=95.50  E-value=0.00048  Score=31.31  Aligned_cols=29  Identities=24%  Similarity=0.526  Sum_probs=24.6

Q ss_pred             eccccCCccCCCceEeECCeeeccCchhh
Q psy8111          31 CCWQCDESLTGQRYVLRDDHPYCIKCYES   59 (135)
Q Consensus        31 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~   59 (135)
                      .|+.|+..|....+|..++++||+.+...
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            48899999987789999999999987543

>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=95.47  E-value=0.0022  Score=31.02  Aligned_cols=27  Identities=22%  Similarity=0.582  Sum_probs=18.6

Q ss_pred             hhhcCCccccCcccceeCCcccccccc
Q psy8111          65 CEECSKIIGIDSKDLSYKDKHWHEACF   91 (135)
Q Consensus        65 C~~C~~~I~~~~~~~~~~~~~~H~~Cf   91 (135)
                      |++|++.....+......+..|||.|-
T Consensus         2 C~rC~~mF~EGEEMYLQGs~IWHP~C~   28 (41)
T d1wiga2           2 CVRCGQMFAEGEEMYLQGSSIWHPACR   28 (41)
T ss_dssp             CSSSCCCCCSSCCCEEETTEEECTTHH
T ss_pred             cchhhccccccceeeecCCceeCCccc
Confidence            677777776555555556788998763

>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=95.31  E-value=0.0054  Score=27.51  Aligned_cols=28  Identities=25%  Similarity=0.605  Sum_probs=23.5

Q ss_pred             eccccCCccCCCceEeECCeeeccCchhh
Q psy8111          31 CCWQCDESLTGQRYVLRDDHPYCIKCYES   59 (135)
Q Consensus        31 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~   59 (135)
                      .|+.|++.|... -.+..|.+||..|..+
T Consensus         1 nC~~Cgkeltad-ArEl~geLyCLpChdK   28 (31)
T d2cora1           1 NCANCGKELTAD-ARELKGELYCLPCHDK   28 (31)
T ss_dssp             BCSSSCCBCCTT-CEEETTEEECHHHHHT
T ss_pred             Cccccccccchh-HHHhcCCEEEEecccc
Confidence            378999999875 6788999999999765

>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=95.25  E-value=0.0052  Score=28.59  Aligned_cols=25  Identities=12%  Similarity=0.069  Sum_probs=21.1

Q ss_pred             cccccCcccc--ccceeeCCCcccCCCC
Q psy8111           4 AVKHQDKSFR--EDYNKLGGKDRGSGQH   29 (135)
Q Consensus         4 ~C~~C~~~i~--~~~i~a~~~~~H~~~c   29 (135)
                      .|.+|+.-..  +++|..+|..||+. |
T Consensus         9 ~C~RC~~gF~p~EkiVNSnGEl~H~q-C   35 (35)
T d1g47a1           9 TCERCKGGFAPAEKIVNSNGELYHEQ-C   35 (35)
T ss_dssp             BCSSSCCBCCSTTTCEEETTEEECTT-T
T ss_pred             HHHHHccCCCchHHhhcCCCcccccc-C
Confidence            5899998887  56788999999988 5

>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=95.11  E-value=0.0066  Score=27.48  Aligned_cols=29  Identities=24%  Similarity=0.504  Sum_probs=26.1

Q ss_pred             eccccCCccCCCceEeECCeeeccCchhh
Q psy8111          31 CCWQCDESLTGQRYVLRDDHPYCIKCYES   59 (135)
Q Consensus        31 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~   59 (135)
                      +|..|...|.+..|+-..|+.+|..|..+
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            58899999999999999999999998765

>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=95.05  E-value=0.0042  Score=29.97  Aligned_cols=25  Identities=8%  Similarity=-0.018  Sum_probs=17.8

Q ss_pred             cccccCcccc-cc-ceeeCCCcccCCCC
Q psy8111           4 AVKHQDKSFR-ED-YNKLGGKDRGSGQH   29 (135)
Q Consensus         4 ~C~~C~~~i~-~~-~i~a~~~~~H~~~c   29 (135)
                      +|.+|++.+. |+ +..-.+..|||. |
T Consensus         1 ~C~rC~~mF~EGEEMYLQGs~IWHP~-C   27 (41)
T d1wiga2           1 LCVRCGQMFAEGEEMYLQGSSIWHPA-C   27 (41)
T ss_dssp             CCSSSCCCCCSSCCCEEETTEEECTT-H
T ss_pred             CcchhhccccccceeeecCCceeCCc-c
Confidence            4888998886 43 444456789998 6

>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=94.99  E-value=0.012  Score=26.55  Aligned_cols=29  Identities=24%  Similarity=0.633  Sum_probs=26.1

Q ss_pred             ccccccccCCCCCeeeeCCcccCHHhHhh
Q psy8111          92 SCSKCRQSLVDKQFGSKSEKIYCGNCYDA  120 (135)
Q Consensus        92 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~~  120 (135)
                      +|..|...|.+..|....|+.+|..|..+
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            58899999999999999999999999765

>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=94.90  E-value=0.013  Score=26.25  Aligned_cols=28  Identities=25%  Similarity=0.649  Sum_probs=22.9

Q ss_pred             cccccccCCCCCeeeeCCcccCHHhHhhh
Q psy8111          93 CSKCRQSLVDKQFGSKSEKIYCGNCYDAQ  121 (135)
Q Consensus        93 C~~C~~~l~~~~~~~~~~~~~C~~c~~~~  121 (135)
                      |+.|++.|... -.+..|.+||..|..++
T Consensus         2 C~~Cgkeltad-ArEl~geLyCLpChdKm   29 (31)
T d2cora1           2 CANCGKELTAD-ARELKGELYCLPCHDKM   29 (31)
T ss_dssp             CSSSCCBCCTT-CEEETTEEECHHHHHTT
T ss_pred             ccccccccchh-HHHhcCCEEEEeccccc
Confidence            78899999765 45778999999998764

>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=94.33  E-value=0.01  Score=27.38  Aligned_cols=31  Identities=32%  Similarity=0.719  Sum_probs=24.4

Q ss_pred             eeccccCCccCCC-ceEeE-CCeeeccCchhhh
Q psy8111          30 FCCWQCDESLTGQ-RYVLR-DDHPYCIKCYESV   60 (135)
Q Consensus        30 f~C~~C~~~l~~~-~~~~~-~~~~~C~~c~~~~   60 (135)
                      |.|..|+.-+.+. .|... ..++||..||.+.
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            7899999999765 67654 4789999998763

>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=94.28  E-value=0.026  Score=25.49  Aligned_cols=26  Identities=31%  Similarity=0.838  Sum_probs=23.2

Q ss_pred             ccccCCccCCCceEeECCeeeccCch
Q psy8111          32 CWQCDESLTGQRYVLRDDHPYCIKCY   57 (135)
Q Consensus        32 C~~C~~~l~~~~~~~~~~~~~C~~c~   57 (135)
                      |..|+.+|.++.|...+..++|.+|-
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            67899999999999999999999884

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.18  E-value=0.018  Score=33.31  Aligned_cols=43  Identities=26%  Similarity=0.584  Sum_probs=27.6

Q ss_pred             cccccccccCCCCCeee-eCCcccCHHhHhhhcCCCcccCCCCCC
Q psy8111          91 FSCSKCRQSLVDKQFGS-KSEKIYCGNCYDAQFASRCDGCSEIFK  134 (135)
Q Consensus        91 f~C~~C~~~l~~~~~~~-~~~~~~C~~c~~~~~~~~C~~C~~~I~  134 (135)
                      +.|..|...+.+- ... .=|..||..|..+.+..+|..|..++.
T Consensus        23 l~C~IC~~~~~~p-v~~~~CgH~fC~~Ci~~~~~~~CP~Cr~~~~   66 (97)
T d1jm7b_          23 LRCSRCTNILREP-VCLGGCEHIFCSNCVSDCIGTGCPVCYTPAW   66 (97)
T ss_dssp             TSCSSSCSCCSSC-BCCCSSSCCBCTTTGGGGTTTBCSSSCCBCS
T ss_pred             CCCccCCchhhcC-ceeCCCCCchhHHHHHHHHhccccccCCcCc
Confidence            5667776666543 322 347777777777777777777776653

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.43  E-value=0.028  Score=32.52  Aligned_cols=45  Identities=18%  Similarity=0.433  Sum_probs=33.6

Q ss_pred             CeeccccCCccCCCceEeECCeeeccCchhhhcCCchhhcCCccc
Q psy8111          29 HFCCWQCDESLTGQRYVLRDDHPYCIKCYESVFANSCEECSKIIG   73 (135)
Q Consensus        29 cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~~~~~C~~C~~~I~   73 (135)
                      -++|..|...+........=|..||..|..+.....|..|+.++.
T Consensus        22 ~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~~~CP~Cr~~~~   66 (97)
T d1jm7b_          22 LLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVCYTPAW   66 (97)
T ss_dssp             TTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTTTBCSSSCCBCS
T ss_pred             cCCCccCCchhhcCceeCCCCCchhHHHHHHHHhccccccCCcCc
Confidence            378888988886542223458899999988777778888888774

>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=92.65  E-value=0.028  Score=25.41  Aligned_cols=26  Identities=42%  Similarity=0.943  Sum_probs=22.6

Q ss_pred             cccccccCCCCCeeeeCCcccCHHhH
Q psy8111          93 CSKCRQSLVDKQFGSKSEKIYCGNCY  118 (135)
Q Consensus        93 C~~C~~~l~~~~~~~~~~~~~C~~c~  118 (135)
                      |..|+.+|-++.|...+..++|.+|-
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            67788999999999999999998873

>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=89.24  E-value=0.084  Score=23.00  Aligned_cols=26  Identities=31%  Similarity=0.732  Sum_probs=21.3

Q ss_pred             ccccCCccCCCceEeECCeeeccCch
Q psy8111          32 CWQCDESLTGQRYVLRDDHPYCIKCY   57 (135)
Q Consensus        32 C~~C~~~l~~~~~~~~~~~~~C~~c~   57 (135)
                      |..|..+|.+..|....+.++|.+|-
T Consensus         2 c~kcsvslvgrgflterddilc~dcg   27 (30)
T d1x4la2           2 CKKCSLSLVGRGFLTERDDILCPDCG   27 (30)
T ss_dssp             CSSSCCBCTTSCCEECSSSEECHHHH
T ss_pred             cceeeEEEEeeeccccccceeccccC
Confidence            67788999998888877788888774

>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=88.85  E-value=0.063  Score=24.16  Aligned_cols=29  Identities=21%  Similarity=0.376  Sum_probs=22.7

Q ss_pred             eccccCCccCC--CceEeECCeeeccCchhh
Q psy8111          31 CCWQCDESLTG--QRYVLRDDHPYCIKCYES   59 (135)
Q Consensus        31 ~C~~C~~~l~~--~~~~~~~~~~~C~~c~~~   59 (135)
                      +|.-|+..|.+  ...+.+.+.++|+++|.+
T Consensus         2 kC~cC~cRLGEVG~tlytk~nliLCkrDYlR   32 (33)
T d1j2oa2           2 SCDLCGCRLGEVGRRLYYKLGRKLCRRDYLR   32 (33)
T ss_dssp             CCSSSCSCCCCSSSCCCCBTTBCCCHHHHHH
T ss_pred             ccccccccccchhhHHHhhcceeeehhhhhc
Confidence            56677777764  477889999999999865

>d1v6ga2 g.39.1.3 (A:42-81) 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=87.77  E-value=0.16  Score=23.96  Aligned_cols=27  Identities=26%  Similarity=0.613  Sum_probs=16.5

Q ss_pred             eeccccCCccCCC-ceEeECCeeeccCc
Q psy8111          30 FCCWQCDESLTGQ-RYVLRDDHPYCIKC   56 (135)
Q Consensus        30 f~C~~C~~~l~~~-~~~~~~~~~~C~~c   56 (135)
                      |+|+.|.+++... +-........|+.|
T Consensus         1 FvC~vCr~pFP~GDRVTFnGKeC~CQ~C   28 (40)
T d1v6ga2           1 FVCAVCRLPFPPGDRVTFNGKECMCQKC   28 (40)
T ss_dssp             SSCSSSCCCCCSSSCEEEETTEEEEHHH
T ss_pred             CcccccCCCCCCCCeEEEcCceeehhhc
Confidence            6788888888655 33344445555554

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=85.52  E-value=0.13  Score=26.42  Aligned_cols=44  Identities=7%  Similarity=-0.004  Sum_probs=30.5

Q ss_pred             eeccccCCccCCCceEe-ECCeeeccCchhhh--cCCchhhcCCcccc
Q psy8111          30 FCCWQCDESLTGQRYVL-RDDHPYCIKCYESV--FANSCEECSKIIGI   74 (135)
Q Consensus        30 f~C~~C~~~l~~~~~~~-~~~~~~C~~c~~~~--~~~~C~~C~~~I~~   74 (135)
                      +.|..|...+.+ +... ..|..||.+|-.+-  ...+|..|++++..
T Consensus         1 l~C~Ic~~~~~~-Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~   47 (56)
T d2baya1           1 MLCAISGKVPRR-PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSI   47 (56)
T ss_dssp             CCCTTTCSCCSS-EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCG
T ss_pred             CCCccCCchHHh-cCccCCCCCcccHHHHHHHHhhccCCCccCCcCCH
Confidence            357888887765 3444 57999999886542  13578889888863

>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=85.22  E-value=0.16  Score=22.89  Aligned_cols=28  Identities=18%  Similarity=0.492  Sum_probs=20.4

Q ss_pred             ccccccccCCCCCeee--eCCcccCHHhHh
Q psy8111          92 SCSKCRQSLVDKQFGS--KSEKIYCGNCYD  119 (135)
Q Consensus        92 ~C~~C~~~l~~~~~~~--~~~~~~C~~c~~  119 (135)
                      +|..|...|-.+.|..  .||..||..++.
T Consensus         1 rC~~CeatL~pG~Y~qhp~dghfyc~~hlp   30 (33)
T d2co8a1           1 RCHTCEATLWPGGYEQHPGDGHFYCLQHLP   30 (33)
T ss_dssp             BCSSSCCBCCTTSEECCTTTCCCEETTTCC
T ss_pred             CceeeeeEEccCcccCCCCCceEeeeeccC
Confidence            4677888887665554  478999987764

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.41  E-value=0.41  Score=24.51  Aligned_cols=12  Identities=17%  Similarity=0.529  Sum_probs=6.7

Q ss_pred             CCCcccCCCCCC
Q psy8111         123 ASRCDGCSEIFK  134 (135)
Q Consensus       123 ~~~C~~C~~~I~  134 (135)
                      ..+|..|.++|.
T Consensus        37 ~~~CP~Cr~~~~   48 (56)
T d1bora_          37 GMQCPICQAPWP   48 (56)
T ss_dssp             SSSCSSCCSSSS
T ss_pred             CCcCcCCCCccc
Confidence            345666665554

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=81.94  E-value=0.47  Score=25.88  Aligned_cols=46  Identities=11%  Similarity=-0.013  Sum_probs=35.7

Q ss_pred             CCCCeeccccCCccCCCceEeECCeeeccCchhhh---cCCchhhcCCccc
Q psy8111          26 SGQHFCCWQCDESLTGQRYVLRDDHPYCIKCYESV---FANSCEECSKIIG   73 (135)
Q Consensus        26 ~~~cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~---~~~~C~~C~~~I~   73 (135)
                      ++ -|.|..|...+.. +....-|..||..|..+.   ....|..|+.+|.
T Consensus         5 P~-~l~CpIc~~l~~d-Pv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~   53 (80)
T d2c2la2           5 PD-YLCGKISFELMRE-PCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLT   53 (80)
T ss_dssp             CS-TTBCTTTCSBCSS-EEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCC
T ss_pred             Cc-cccCcCcCchhhh-hcccCCcCeecHHHHHHHHhcCCccCCCcccccc
Confidence            56 7999999988876 356678999999997653   3457888888885

>d2gvia2 g.39.1.18 (A:169-201) Uncharacterized protein Ta1109 {Thermoplasma acidophilum [TaxId: 2303]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: FwdE C-terminal domain-like
domain: Uncharacterized protein Ta1109
species: Thermoplasma acidophilum [TaxId: 2303]

Probab=80.26  E-value=0.3  Score=21.44  Aligned_cols=28  Identities=18%  Similarity=0.293  Sum_probs=17.6

Q ss_pred             ccccccccCCCCCeeeeCCcccCHHhHh
Q psy8111          92 SCSKCRQSLVDKQFGSKSEKIYCGNCYD  119 (135)
Q Consensus        92 ~C~~C~~~l~~~~~~~~~~~~~C~~c~~  119 (135)
                      +|..|+.---...-...+|+|.|+..|.
T Consensus         5 rcdvcgeytyeadakllngkpvckpdyy   32 (33)
T d2gvia2           5 RCDVCGEYTYEADAKLLNGKPVCKPDYY   32 (33)
T ss_dssp             ECTTTCCEEEGGGCEEETTEEECHHHHH
T ss_pred             EEeeccceeeccchhhhCCCcccCcccC
Confidence            4556655443334456789999988763

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=80.17  E-value=0.63  Score=25.34  Aligned_cols=46  Identities=4%  Similarity=-0.101  Sum_probs=32.9

Q ss_pred             ccccccccccccCCCCCeeeeCCcccCHHhHhhh---cCCCcccCCCCCC
Q psy8111          88 EACFSCSKCRQSLVDKQFGSKSEKIYCGNCYDAQ---FASRCDGCSEIFK  134 (135)
Q Consensus        88 ~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~---~~~~C~~C~~~I~  134 (135)
                      |+-|.|..|...+.+ ......|..||+.|..+.   ....|..|+++|.
T Consensus         5 P~~l~CpIc~~l~~d-Pv~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~   53 (80)
T d2c2la2           5 PDYLCGKISFELMRE-PCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLT   53 (80)
T ss_dssp             CSTTBCTTTCSBCSS-EEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCC
T ss_pred             CccccCcCcCchhhh-hcccCCcCeecHHHHHHHHhcCCccCCCcccccc
Confidence            456788888888765 355567888888887653   3457888888764