Psyllid ID: psy12215

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-----
Protein Sequence
ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPSSLAHLRRQVTLQ
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccEEEEEccccccHHHHHHHHccccccccccccccccccEEEEcccEEccccccccccccccccccEEEEEccEEEcHHHHHHHHHHcccccccccccccccccHHHHHHHccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHccHHccccccccccEEEEccccEEEHHHHHHHcccccccccccccccHHHHHEEHccccEEHHHHHHHHHccccccccEEEEEcccEEEcHHHHHHccccccccccccccccccHHHHHHHHHHHHccccccccHHHHHHHccc
Coil and Loop (DISEMBL)
aldlfwhedclkcgccdcrlgevgstLYQKANLILCKRDYLRlfgttgycaacTKVIPAFEMVMRAKNnvyhlecfacqqcnhrfcvgdrfylcdnkilceydyeerqvfcvgdrfylcdnkilceydyEERQVFAniaynpsslAHLRRQVTLQ
Flexible Loop (DISEMBL)
aldlfwhedclkcgcCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPSSLAHLRRQVTLQ
Low Complexity Region (SEG)
ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPSSLAHLRRQVTLQ
Disordered region (IsUnstruct)
**DLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPS************
Disordered Region (DISOPRED)
ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE*************************************************
Disordered Region (DISEMBL)
ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPSSLAHLRRQVTLQ
Disordered Region (DISPRO)
*LDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV***********NKILCEYDYEERQVFANIAYNPS************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPSSLAHLRRQVTLQ
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	155	2.2.26 [Sep-21-2011]
Q3B8H4	156	Rhombotin-1 OS=Xenopus la	N/A	N/A	0.703	0.698	0.798	1e-47
P25800	156	Rhombotin-1 OS=Homo sapie	yes	N/A	0.703	0.698	0.798	1e-47
Q8JFQ2	155	Rhombotin-1 OS=Danio reri	yes	N/A	0.703	0.703	0.798	1e-47
Q0P5B3	156	Rhombotin-1 OS=Bos taurus	yes	N/A	0.703	0.698	0.798	2e-47
Q924W9	156	Rhombotin-1 OS=Mus muscul	yes	N/A	0.683	0.679	0.811	7e-47
Q99MB5	145	LIM domain only protein 3	no	N/A	0.677	0.724	0.811	9e-47
Q9YH16	156	LIM domain only protein 3	N/A	N/A	0.677	0.673	0.811	1e-46
Q5RBW7	145	LIM domain only protein 3	no	N/A	0.677	0.724	0.811	2e-46
Q8BZL8	145	LIM domain only protein 3	no	N/A	0.677	0.724	0.811	2e-46
Q8TAP4	145	LIM domain only protein 3	no	N/A	0.677	0.724	0.811	2e-46

>sp|Q3B8H4|RBTN1_XENLA Rhombotin-1 OS=Xenopus laevis GN=lmo1 PE=2 SV=1

 Score =  188 bits (477), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 87/109 (79%), Positives = 99/109 (90%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           ALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRLFGTTG CAAC+K+IPAF
Sbjct: 39  ALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRLFGTTGNCAACSKLIPAF 98

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV 109
           EMVMRA++NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ DYEE Q+
Sbjct: 99  EMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQMDYEEGQL 147

May be involved in gene regulation within neural lineage cells potentially by direct DNA binding or by binding to other transcription factors.
Xenopus laevis (taxid: 8355)

>sp|P25800|RBTN1_HUMAN Rhombotin-1 OS=Homo sapiens GN=LMO1 PE=2 SV=1

 Score =  188 bits (477), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 87/109 (79%), Positives = 99/109 (90%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           ALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRLFGTTG CAAC+K+IPAF
Sbjct: 39  ALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRLFGTTGNCAACSKLIPAF 98

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV 109
           EMVMRA++NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ DYEE Q+
Sbjct: 99  EMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQMDYEEGQL 147

May be involved in gene regulation within neural lineage cells potentially by direct DNA binding or by binding to other transcription factors.

Homo sapiens (taxid: 9606)

>sp|Q8JFQ2|RBTN1_DANRE Rhombotin-1 OS=Danio rerio GN=lmo1 PE=2 SV=1

 Score =  188 bits (477), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 87/109 (79%), Positives = 99/109 (90%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           ALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRLFGTTG CAAC+K+IPAF
Sbjct: 38  ALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRLFGTTGNCAACSKLIPAF 97

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV 109
           EMVMRA++NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ DYEE Q+
Sbjct: 98  EMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQMDYEEGQL 146

May be involved in gene regulation within neural lineage cells potentially by direct DNA binding or by binding to other transcription factors.

Danio rerio (taxid: 7955)

>sp|Q0P5B3|RBTN1_BOVIN Rhombotin-1 OS=Bos taurus GN=LMO1 PE=2 SV=1

 Score =  187 bits (476), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 87/109 (79%), Positives = 99/109 (90%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           ALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRLFGTTG CAAC+K+IPAF
Sbjct: 39  ALDQYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRLFGTTGNCAACSKLIPAF 98

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV 109
           EMVMRA++NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ DYEE Q+
Sbjct: 99  EMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQMDYEEGQL 147

May be involved in gene regulation within neural lineage cells potentially by direct DNA binding or by binding to other transcription factors.

Bos taurus (taxid: 9913)

>sp|Q924W9|RBTN1_MOUSE Rhombotin-1 OS=Mus musculus GN=Lmo1 PE=2 SV=1

 Score =  186 bits (471), Expect = 7e-47,   Method: Compositional matrix adjust.
 Identities = 86/106 (81%), Positives = 97/106 (91%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           ALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRLFGTTG CAAC+K+IPAF
Sbjct: 39  ALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRLFGTTGNCAACSKLIPAF 98

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE 106
           EMVMRA++NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ DYEE
Sbjct: 99  EMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQVDYEE 144

May be involved in gene regulation within neural lineage cells potentially by direct DNA binding or by binding to other transcription factors.

Mus musculus (taxid: 10090)

>sp|Q99MB5|LMO3_RAT LIM domain only protein 3 OS=Rattus norvegicus GN=Lmo3 PE=2 SV=2

 Score =  185 bits (470), Expect = 9e-47,   Method: Compositional matrix adjust.
 Identities = 86/106 (81%), Positives = 97/106 (91%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           ALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRLFGTTG CAAC+K+IPAF
Sbjct: 28  ALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRLFGTTGNCAACSKLIPAF 87

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE 106
           EMVMRA++NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ DYEE
Sbjct: 88  EMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQTDYEE 133

Rattus norvegicus (taxid: 10116)

>sp|Q9YH16|LMO3_XENLA LIM domain only protein 3 OS=Xenopus laevis GN=lmo3 PE=2 SV=1

 Score =  184 bits (468), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 86/106 (81%), Positives = 95/106 (89%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           ALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRLFG TG CAAC+K+IPAF
Sbjct: 39  ALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRLFGVTGNCAACSKLIPAF 98

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE 106
           EMVMRAK NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ DYEE
Sbjct: 99  EMVMRAKENVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQTDYEE 144

Xenopus laevis (taxid: 8355)

>sp|Q5RBW7|LMO3_PONAB LIM domain only protein 3 OS=Pongo abelii GN=LMO3 PE=2 SV=1

 Score =  184 bits (468), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 86/106 (81%), Positives = 96/106 (90%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           ALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRLFG TG CAAC+K+IPAF
Sbjct: 28  ALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRLFGVTGNCAACSKLIPAF 87

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE 106
           EMVMRAK+NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ DYEE
Sbjct: 88  EMVMRAKDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQTDYEE 133

Pongo abelii (taxid: 9601)

>sp|Q8BZL8|LMO3_MOUSE LIM domain only protein 3 OS=Mus musculus GN=Lmo3 PE=2 SV=1

 Score =  184 bits (468), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 86/106 (81%), Positives = 96/106 (90%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           ALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRLFG TG CAAC+K+IPAF
Sbjct: 28  ALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRLFGVTGNCAACSKLIPAF 87

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE 106
           EMVMRAK+NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ DYEE
Sbjct: 88  EMVMRAKDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQTDYEE 133

Mus musculus (taxid: 10090)

>sp|Q8TAP4|LMO3_HUMAN LIM domain only protein 3 OS=Homo sapiens GN=LMO3 PE=2 SV=1

 Score =  184 bits (468), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 86/106 (81%), Positives = 96/106 (90%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           ALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRLFG TG CAAC+K+IPAF
Sbjct: 28  ALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRLFGVTGNCAACSKLIPAF 87

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE 106
           EMVMRAK+NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ DYEE
Sbjct: 88  EMVMRAKDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQTDYEE 133

Homo sapiens (taxid: 9606)

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	155
242005244	284	LIM-only protein, putative [Pediculus hu	0.819	0.447	0.789	5e-63
157116702	218	rhombotin [Aedes aegypti] gi|108876328|g	0.825	0.587	0.784	3e-62
270005132	254	hypothetical protein TcasGA2_TC007141 [T	0.812	0.496	0.781	3e-62
189236731	231	PREDICTED: similar to AGAP010391-PA [Tri	0.825	0.554	0.777	4e-62
158289946	204	AGAP010391-PA [Anopheles gambiae str. PE	0.825	0.627	0.777	5e-62
170031972	255	rhombotin [Culex quinquefasciatus] gi|16	0.812	0.494	0.788	4e-61
91080717	241	PREDICTED: similar to beadex/dLMO protei	0.838	0.539	0.729	8e-61
357622819	359	beadex/dLMO protein [Danaus plexippus]	0.825	0.356	0.732	9e-61
328712778	388	PREDICTED: hypothetical protein LOC10016	0.825	0.329	0.766	1e-60
114052529	267	beadex/dLMO protein [Bombyx mori] gi|872	0.825	0.479	0.732	2e-59

>gi|242005244|ref|XP_002423481.1| LIM-only protein, putative [Pediculus humanus corporis] gi|212506569|gb|EEB10743.1| LIM-only protein, putative [Pediculus humanus corporis]

 Score =  245 bits (625), Expect = 5e-63,   Method: Compositional matrix adjust.
 Identities = 120/152 (78%), Positives = 124/152 (81%), Gaps = 25/152 (16%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           A+DLFWHEDCLKCGCCDCRLGEVGSTLY KANLILCKRDYLRLFGTTGYCAAC KVIPAF
Sbjct: 64  AIDLFWHEDCLKCGCCDCRLGEVGSTLYTKANLILCKRDYLRLFGTTGYCAACNKVIPAF 123

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCD 120
           EMVMRAK+NVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY                
Sbjct: 124 EMVMRAKSNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY---------------- 167

Query: 121 NKILCEYDYEERQVFANIAYNPSSLAHLRRQV 152
                    EER VFAN+AYNPSSLAH+RRQV
Sbjct: 168 ---------EERLVFANMAYNPSSLAHIRRQV 190

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157116702|ref|XP_001652842.1| rhombotin [Aedes aegypti] gi|108876328|gb|EAT40553.1| AAEL007719-PA [Aedes aegypti]

 Score =  243 bits (619), Expect = 3e-62,   Method: Compositional matrix adjust.
 Identities = 120/153 (78%), Positives = 124/153 (81%), Gaps = 25/153 (16%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           ALDLFWHEDCLKCGCCDCRLGEVGSTLY KANLILCKRDYLRLFGTTGYCAAC KVIPAF
Sbjct: 82  ALDLFWHEDCLKCGCCDCRLGEVGSTLYTKANLILCKRDYLRLFGTTGYCAACNKVIPAF 141

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCD 120
           EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY                
Sbjct: 142 EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY---------------- 185

Query: 121 NKILCEYDYEERQVFANIAYNPSSLAHLRRQVT 153
                    EER VFA++A NPSSLAH+RRQV+
Sbjct: 186 ---------EERLVFASMACNPSSLAHIRRQVS 209

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270005132|gb|EFA01580.1| hypothetical protein TcasGA2_TC007141 [Tribolium castaneum]

 Score =  242 bits (618), Expect = 3e-62,   Method: Compositional matrix adjust.
 Identities = 118/151 (78%), Positives = 122/151 (80%), Gaps = 25/151 (16%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           ALDL+WHEDCLKCGCCDCRLGEVGSTLY KANLILCKRDYLRLFGTTGYCAAC KVIPAF
Sbjct: 63  ALDLYWHEDCLKCGCCDCRLGEVGSTLYTKANLILCKRDYLRLFGTTGYCAACNKVIPAF 122

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCD 120
           EMVMRAK+NVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY                
Sbjct: 123 EMVMRAKSNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY---------------- 166

Query: 121 NKILCEYDYEERQVFANIAYNPSSLAHLRRQ 151
                    EER VFAN+ YNPSSLAH+RRQ
Sbjct: 167 ---------EERLVFANMTYNPSSLAHIRRQ 188

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|189236731|ref|XP_974987.2| PREDICTED: similar to AGAP010391-PA [Tribolium castaneum]

 Score =  242 bits (618), Expect = 4e-62,   Method: Compositional matrix adjust.
 Identities = 119/153 (77%), Positives = 124/153 (81%), Gaps = 25/153 (16%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           ALDL+WHEDCLKCGCCDCRLGEVGSTLY KANLILCKRDYLRLFGTTGYCAAC KVIPAF
Sbjct: 35  ALDLYWHEDCLKCGCCDCRLGEVGSTLYTKANLILCKRDYLRLFGTTGYCAACNKVIPAF 94

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCD 120
           EMVMRAK+NVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY                
Sbjct: 95  EMVMRAKSNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY---------------- 138

Query: 121 NKILCEYDYEERQVFANIAYNPSSLAHLRRQVT 153
                    EER VFAN+ YNPSSLAH+RRQV+
Sbjct: 139 ---------EERLVFANMTYNPSSLAHIRRQVS 162

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|158289946|ref|XP_311556.4| AGAP010391-PA [Anopheles gambiae str. PEST] gi|157018403|gb|EAA07238.4| AGAP010391-PA [Anopheles gambiae str. PEST]

 Score =  242 bits (617), Expect = 5e-62,   Method: Compositional matrix adjust.
 Identities = 119/153 (77%), Positives = 124/153 (81%), Gaps = 25/153 (16%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           ALD+FWHEDCLKCGCCDCRLGEVGSTLY KANLILCKRDYLRLFGTTGYCAAC KVIPAF
Sbjct: 68  ALDIFWHEDCLKCGCCDCRLGEVGSTLYTKANLILCKRDYLRLFGTTGYCAACNKVIPAF 127

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCD 120
           EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY                
Sbjct: 128 EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY---------------- 171

Query: 121 NKILCEYDYEERQVFANIAYNPSSLAHLRRQVT 153
                    EER VFA++A NPSSLAH+RRQV+
Sbjct: 172 ---------EERLVFASMACNPSSLAHIRRQVS 195

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170031972|ref|XP_001843857.1| rhombotin [Culex quinquefasciatus] gi|167871437|gb|EDS34820.1| rhombotin [Culex quinquefasciatus]

 Score =  239 bits (609), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 119/151 (78%), Positives = 122/151 (80%), Gaps = 25/151 (16%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           ALDLFWHEDCLKCGCCDCRLGEVGSTLY KANLILCKRDYLRLFGTTGYCAAC KVIPAF
Sbjct: 97  ALDLFWHEDCLKCGCCDCRLGEVGSTLYTKANLILCKRDYLRLFGTTGYCAACNKVIPAF 156

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCD 120
           EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY                
Sbjct: 157 EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY---------------- 200

Query: 121 NKILCEYDYEERQVFANIAYNPSSLAHLRRQ 151
                    EER VFA++A NPSSLAH+RRQ
Sbjct: 201 ---------EERLVFASMACNPSSLAHIRRQ 222

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91080717|ref|XP_975367.1| PREDICTED: similar to beadex/dLMO protein [Tribolium castaneum] gi|270005467|gb|EFA01915.1| hypothetical protein TcasGA2_TC007525 [Tribolium castaneum]

 Score =  238 bits (606), Expect = 8e-61,   Method: Compositional matrix adjust.
 Identities = 113/155 (72%), Positives = 123/155 (79%), Gaps = 25/155 (16%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           ALDL+WHEDCLKCGCCDCRLGEVGSTLY KANLILCKRDYLRLFG TGYCAAC+KVIPAF
Sbjct: 51  ALDLYWHEDCLKCGCCDCRLGEVGSTLYTKANLILCKRDYLRLFGNTGYCAACSKVIPAF 110

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCD 120
           EMVMRA++NVYHLECFACQQCNHRFCVGDRFYLC+NKILCEYDY                
Sbjct: 111 EMVMRARSNVYHLECFACQQCNHRFCVGDRFYLCENKILCEYDY---------------- 154

Query: 121 NKILCEYDYEERQVFANIAYNPSSLAHLRRQVTLQ 155
                    EER VFAN+AYNP  L+HL+RQ ++ 
Sbjct: 155 ---------EERLVFANMAYNPPPLSHLKRQTSIP 180

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357622819|gb|EHJ74198.1| beadex/dLMO protein [Danaus plexippus]

 Score =  238 bits (606), Expect = 9e-61,   Method: Compositional matrix adjust.
 Identities = 112/153 (73%), Positives = 118/153 (77%), Gaps = 25/153 (16%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           ALD  WHEDCLKCGCCDCRLGEVG TLY +ANLILCKRDYLRLFG TGYCAAC KVIPAF
Sbjct: 182 ALDQLWHEDCLKCGCCDCRLGEVGHTLYTRANLILCKRDYLRLFGNTGYCAACNKVIPAF 241

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCD 120
           EMVMRA++NVYHLECFACQQCNHRFCVGDRFYLC+NKILCEYDY                
Sbjct: 242 EMVMRARSNVYHLECFACQQCNHRFCVGDRFYLCENKILCEYDY---------------- 285

Query: 121 NKILCEYDYEERQVFANIAYNPSSLAHLRRQVT 153
                    EER VFAN+AYNP  LAHL+RQ T
Sbjct: 286 ---------EERLVFANMAYNPPPLAHLKRQTT 309

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328712778|ref|XP_001945042.2| PREDICTED: hypothetical protein LOC100161710 [Acyrthosiphon pisum]

 Score =  237 bits (604), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 118/154 (76%), Positives = 122/154 (79%), Gaps = 26/154 (16%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           ALDLFWHEDCLKCGCCDCRLGEVGSTLY KANLILCKRDYLRLFG TG CAAC KVIPAF
Sbjct: 74  ALDLFWHEDCLKCGCCDCRLGEVGSTLYTKANLILCKRDYLRLFGATGNCAACNKVIPAF 133

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCD 120
           EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC+NKILCEYDY                
Sbjct: 134 EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCENKILCEYDY---------------- 177

Query: 121 NKILCEYDYEERQVFANIA-YNPSSLAHLRRQVT 153
                    EER VFAN+A YN SSLAH+RRQV+
Sbjct: 178 ---------EERLVFANMATYNSSSLAHIRRQVS 202

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|114052529|ref|NP_001040254.1| beadex/dLMO protein [Bombyx mori] gi|87248525|gb|ABD36315.1| beadex/dLMO protein [Bombyx mori]

 Score =  233 bits (595), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 112/153 (73%), Positives = 118/153 (77%), Gaps = 25/153 (16%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           ALD  WHEDCLKCGCCDCRLGEVG TLY +ANLILCKRDYLRLFG TGYCAAC KVIPAF
Sbjct: 71  ALDQLWHEDCLKCGCCDCRLGEVGHTLYTRANLILCKRDYLRLFGNTGYCAACNKVIPAF 130

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCD 120
           EMVMRA++NVYHLECFACQQCNHRFCVGDRFYLC+NKILCEYDY                
Sbjct: 131 EMVMRARSNVYHLECFACQQCNHRFCVGDRFYLCENKILCEYDY---------------- 174

Query: 121 NKILCEYDYEERQVFANIAYNPSSLAHLRRQVT 153
                    EER VFAN+AYNP  LAHL+RQ T
Sbjct: 175 ---------EERLVFANMAYNPPPLAHLKRQTT 198

Source: Bombyx mori

Species: Bombyx mori

Genus: Bombyx

Family: Bombycidae

Order: Lepidoptera

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	155
UNIPROTKB|P91608	266	Bx "Dttg protein" [Drosophila	0.709	0.413	0.9	1.2e-56
UNIPROTKB|A9ED79	156	LMO1 "Uncharacterized protein"	0.703	0.698	0.798	6.7e-49
UNIPROTKB|F1NBH5	156	LOC100858792 "Uncharacterized	0.703	0.698	0.798	6.7e-49
UNIPROTKB|Q0P5B3	156	LMO1 "Rhombotin-1" [Bos taurus	0.703	0.698	0.798	6.7e-49
UNIPROTKB|E2RLZ2	156	LMO1 "Uncharacterized protein"	0.703	0.698	0.798	6.7e-49
UNIPROTKB|E9PK83	145	LMO1 "Rhombotin-1" [Homo sapie	0.703	0.751	0.798	6.7e-49
UNIPROTKB|E9PSF5	155	LMO1 "Rhombotin-1" [Homo sapie	0.703	0.703	0.798	6.7e-49
UNIPROTKB|P25800	156	LMO1 "Rhombotin-1" [Homo sapie	0.703	0.698	0.798	6.7e-49
UNIPROTKB|Q3B8H4	156	lmo1 "Rhombotin-1" [Xenopus la	0.703	0.698	0.798	6.7e-49
ZFIN|ZDB-GENE-021115-6	155	lmo1 "LIM domain only 1" [Dani	0.703	0.703	0.798	6.7e-49

UNIPROTKB|P91608 Bx "Dttg protein" [Drosophila sp. (taxid:7242)]

 Score = 583 (210.3 bits), Expect = 1.2e-56, P = 1.2e-56
 Identities = 99/110 (90%), Positives = 104/110 (94%)

Query:     1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
             ALD+ WHEDCLKCGCCDCRLGEVGSTLY K NL+LCKRDYLRLFG TGYCAAC+KVIPAF
Sbjct:    60 ALDMLWHEDCLKCGCCDCRLGEVGSTLYTKGNLMLCKRDYLRLFGNTGYCAACSKVIPAF 119

Query:    61 EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVF 110
             EMVMRA+ NVYHLECFACQQCNHRFCVGDRFYLC+NKILCEYDYEER VF
Sbjct:   120 EMVMRARTNVYHLECFACQQCNHRFCVGDRFYLCENKILCEYDYEERLVF 169

GO:0002121 "inter-male aggressive behavior" evidence=IMP

GO:0005634 "nucleus" evidence=NAS

GO:0006911 "phagocytosis, engulfment" evidence=IMP

GO:0007476 "imaginal disc-derived wing morphogenesis" evidence=IGI;IMP

GO:0035218 "leg disc development" evidence=IMP

GO:0036011 "imaginal disc-derived leg segmentation" evidence=IMP

GO:0042220 "response to cocaine" evidence=IMP

GO:0045475 "locomotor rhythm" evidence=IMP

UNIPROTKB|A9ED79 LMO1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 510 (184.6 bits), Expect = 6.7e-49, P = 6.7e-49
 Identities = 87/109 (79%), Positives = 99/109 (90%)

Query:     1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
             ALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRLFGTTG CAAC+K+IPAF
Sbjct:    39 ALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRLFGTTGNCAACSKLIPAF 98

Query:    61 EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV 109
             EMVMRA++NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ DYEE Q+
Sbjct:    99 EMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQLDYEEGQL 147

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1NBH5 LOC100858792 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 510 (184.6 bits), Expect = 6.7e-49, P = 6.7e-49
 Identities = 87/109 (79%), Positives = 99/109 (90%)

Query:     1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
             ALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRLFGTTG CAAC+K+IPAF
Sbjct:    39 ALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRLFGTTGNCAACSKLIPAF 98

Query:    61 EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV 109
             EMVMRA++NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ DYEE Q+
Sbjct:    99 EMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQMDYEEGQL 147

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q0P5B3 LMO1 "Rhombotin-1" [Bos taurus (taxid:9913)]

 Score = 510 (184.6 bits), Expect = 6.7e-49, P = 6.7e-49
 Identities = 87/109 (79%), Positives = 99/109 (90%)

Query:     1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
             ALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRLFGTTG CAAC+K+IPAF
Sbjct:    39 ALDQYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRLFGTTGNCAACSKLIPAF 98

Query:    61 EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV 109
             EMVMRA++NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ DYEE Q+
Sbjct:    99 EMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQMDYEEGQL 147

GO:0005634 "nucleus" evidence=IEA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA

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

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|E2RLZ2 LMO1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 510 (184.6 bits), Expect = 6.7e-49, P = 6.7e-49
 Identities = 87/109 (79%), Positives = 99/109 (90%)

Query:     1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
             ALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRLFGTTG CAAC+K+IPAF
Sbjct:    39 ALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRLFGTTGNCAACSKLIPAF 98

Query:    61 EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV 109
             EMVMRA++NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ DYEE Q+
Sbjct:    99 EMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQMDYEEGQL 147

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|E9PK83 LMO1 "Rhombotin-1" [Homo sapiens (taxid:9606)]

 Score = 510 (184.6 bits), Expect = 6.7e-49, P = 6.7e-49
 Identities = 87/109 (79%), Positives = 99/109 (90%)

Query:     1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
             ALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRLFGTTG CAAC+K+IPAF
Sbjct:    28 ALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRLFGTTGNCAACSKLIPAF 87

Query:    61 EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV 109
             EMVMRA++NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ DYEE Q+
Sbjct:    88 EMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQMDYEEGQL 136

GO:0008270 "zinc ion binding" evidence=IEA

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

GO:0005634 "nucleus" evidence=IEA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA

UNIPROTKB|E9PSF5 LMO1 "Rhombotin-1" [Homo sapiens (taxid:9606)]

 Score = 510 (184.6 bits), Expect = 6.7e-49, P = 6.7e-49
 Identities = 87/109 (79%), Positives = 99/109 (90%)

Query:     1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
             ALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRLFGTTG CAAC+K+IPAF
Sbjct:    38 ALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRLFGTTGNCAACSKLIPAF 97

Query:    61 EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV 109
             EMVMRA++NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ DYEE Q+
Sbjct:    98 EMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQMDYEEGQL 146

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|P25800 LMO1 "Rhombotin-1" [Homo sapiens (taxid:9606)]

 Score = 510 (184.6 bits), Expect = 6.7e-49, P = 6.7e-49
 Identities = 87/109 (79%), Positives = 99/109 (90%)

Query:     1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
             ALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRLFGTTG CAAC+K+IPAF
Sbjct:    39 ALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRLFGTTGNCAACSKLIPAF 98

Query:    61 EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV 109
             EMVMRA++NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ DYEE Q+
Sbjct:    99 EMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQMDYEEGQL 147

GO:0008270 "zinc ion binding" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISS

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IMP

UNIPROTKB|Q3B8H4 lmo1 "Rhombotin-1" [Xenopus laevis (taxid:8355)]

 Score = 510 (184.6 bits), Expect = 6.7e-49, P = 6.7e-49
 Identities = 87/109 (79%), Positives = 99/109 (90%)

Query:     1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
             ALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRLFGTTG CAAC+K+IPAF
Sbjct:    39 ALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRLFGTTGNCAACSKLIPAF 98

Query:    61 EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV 109
             EMVMRA++NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ DYEE Q+
Sbjct:    99 EMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQMDYEEGQL 147

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISS

GO:0008150 "biological_process" evidence=ND

ZFIN|ZDB-GENE-021115-6 lmo1 "LIM domain only 1" [Danio rerio (taxid:7955)]

 Score = 510 (184.6 bits), Expect = 6.7e-49, P = 6.7e-49
 Identities = 87/109 (79%), Positives = 99/109 (90%)

Query:     1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
             ALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRLFGTTG CAAC+K+IPAF
Sbjct:    38 ALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRLFGTTGNCAACSKLIPAF 97

Query:    61 EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV 109
             EMVMRA++NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ DYEE Q+
Sbjct:    98 EMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQMDYEEGQL 146

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA;ISS

GO:0046872 "metal ion binding" 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)
Q8BZL8	LMO3_MOUSE	No assigned EC number	0.8113	0.6774	0.7241	no	N/A
Q9YH16	LMO3_XENLA	No assigned EC number	0.8113	0.6774	0.6730	N/A	N/A
Q503U0	LMO3_DANRE	No assigned EC number	0.8113	0.6774	0.7241	no	N/A
Q5RBW7	LMO3_PONAB	No assigned EC number	0.8113	0.6774	0.7241	no	N/A
Q3B8H4	RBTN1_XENLA	No assigned EC number	0.7981	0.7032	0.6987	N/A	N/A
Q924W9	RBTN1_MOUSE	No assigned EC number	0.8113	0.6838	0.6794	yes	N/A
Q8TAP4	LMO3_HUMAN	No assigned EC number	0.8113	0.6774	0.7241	no	N/A
Q8JFQ2	RBTN1_DANRE	No assigned EC number	0.7981	0.7032	0.7032	yes	N/A
Q99MB5	LMO3_RAT	No assigned EC number	0.8113	0.6774	0.7241	no	N/A
P25800	RBTN1_HUMAN	No assigned EC number	0.7981	0.7032	0.6987	yes	N/A
Q5M8V8	RBTN2_XENTR	No assigned EC number	0.6037	0.6838	0.6708	yes	N/A
Q0P5B3	RBTN1_BOVIN	No assigned EC number	0.7981	0.7032	0.6987	yes	N/A
Q2KIA3	LMO3_BOVIN	No assigned EC number	0.8113	0.6774	0.7241	no	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	155
cd09390	55	cd09390, LIM2_dLMO, The second LIM domain of dLMO	8e-28
cd09389	55	cd09389, LIM2_LMO1_LMO3, The second LIM domain of	2e-21
cd09388	55	cd09388, LIM1_LMO1_LMO3, The first LIM domain of L	4e-18
cd09387	55	cd09387, LIM2_LMO4, The second LIM domain of LMO4	2e-16
cd09385	56	cd09385, LIM2_LMO2, The second LIM domain of LMO2	1e-13
cd09376	56	cd09376, LIM2_Lhx3_Lhx4, The second LIM domain of	8e-13
cd09377	59	cd09377, LIM2_Lhx2_Lhx9, The second LIM domain of	1e-11
cd09379	55	cd09379, LIM2_AWH, The second LIM domain of Arrowh	7e-11
cd09386	55	cd09386, LIM1_LMO4, The first LIM domain of LMO4 (	7e-11
cd09378	55	cd09378, LIM2_Lmx1a_Lmx1b, The second LIM domain o	7e-11
cd09384	56	cd09384, LIM1_LMO2, The first LIM domain of LMO2 (	9e-10
cd09473	56	cd09473, LIM2_Lhx4, The second LIM domain of Lhx4	1e-09
cd09475	59	cd09475, LIM2_Lhx9, The second LIM domain of Lhx9	1e-09
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	2e-09
pfam00412	58	pfam00412, LIM, LIM domain	2e-09
cd09472	57	cd09472, LIM2_Lhx3b, The second LIM domain of Lhx3	3e-09
cd09374	55	cd09374, LIM2_Isl, The second LIM domain of Isl, a	8e-09
cd09375	56	cd09375, LIM2_Lhx1_Lhx5, The second LIM domain of	1e-08
cd09471	55	cd09471, LIM2_Isl2, The second LIM domain of Isl2	1e-08
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	1e-08
cd09383	55	cd09383, LIM2_Lhx7_Lhx8, The second LIM domain of	2e-08
cd09474	59	cd09474, LIM2_Lhx2, The second LIM domain of Lhx2	3e-08
cd09382	55	cd09382, LIM2_Lhx6, The second LIM domain of Lhx6	7e-08
cd09392	53	cd09392, LIM2_Lrg1p_like, The second LIM domain of	1e-04
cd09349	87	cd09349, LIM1_Zyxin, The first LIM domain of Zyxin	4e-04
pfam00412	58	pfam00412, LIM, LIM domain	6e-04
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	6e-04
cd09391	57	cd09391, LIM1_Lrg1p_like, The first LIM domain of	0.004

>gnl|CDD|188776 cd09390, LIM2_dLMO, The second LIM domain of dLMO (Beaderx)

 Score = 97.6 bits (243), Expect = 8e-28
 Identities = 49/55 (89%), Positives = 53/55 (96%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 104
           CAAC+K IPAFEMVMRA+ NVYHLECFACQ+CNHRFCVGDRFYLC+NKILCEYDY
Sbjct: 1   CAACSKTIPAFEMVMRARTNVYHLECFACQRCNHRFCVGDRFYLCENKILCEYDY 55

The second LIM domain of dLMO (Beaderx): dLMO is a nuclear protein that plays important roles in transcriptional regulation and development. In Drosophila dLMO modulates the activity of LIM-homeodomain protein Apterous (Ap), which regulates the formation of the dorsal-ventral axis of the Drosophila wing. Biochemical analysis shows that dLMO protein influences the activity of Apterous by binding of its cofactor Chip. Further studies shown that dLMO proteins might function in an evolutionarily conserved mechanism involved in patterning the appendages. 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 = 55

>gnl|CDD|188775 cd09389, LIM2_LMO1_LMO3, The second LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)

 Score = 81.2 bits (200), Expect = 2e-21
 Identities = 42/55 (76%), Positives = 50/55 (90%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 104
           CAAC+K+IPAFEMVMRAK+NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ DY
Sbjct: 1   CAACSKLIPAFEMVMRAKDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQMDY 55

The second LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3): LMO1 and LMO3 are highly homologous and belong to the LMO protein family. LMO1 and LMO3 are nuclear protein that plays important roles in transcriptional regulation and development. As LIM domains lack intrinsic DNA-binding activity, nuclear LMOs are involved in transcriptional regulation by forming complexes with other transcription factors or cofactors. For example, LMO1 interacts with the the bHLH domain of bHLH transcription factor, TAL1 (T-cell acute leukemia1)/SCL (stem cell leukemia) . LMO1 inhibits the expression of TAL1/SCL target genes. LMO3 facilitates p53 binding to its response elements, which suggests that LMO3 acts as a co-repressor of p53, suppressing p53-dependent transcriptional regulation. In addition, LMO3 interacts with neuronal transcription factor, HEN2, and acts as an oncogene in neuroblastoma. Another binding partner of LMO3 is calcium- and integrin-binding protein CIB, which binds via the second LIM domain (LIM2) of LMO3. One role of the CIB/LMO3 complex is to inhibit cell proliferation. Although LMO1 and LMO3 are highly homologous proteins, they play different roles in the regulation of the pituitary glycoprotein hormone alpha-subunit (alpha GSU) gene. Alpha GSU promoter activity was markedly repressed by LMO1 but activated by LMO3. 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 = 55

>gnl|CDD|188774 cd09388, LIM1_LMO1_LMO3, The first LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)

 Score = 72.6 bits (178), Expect = 4e-18
 Identities = 35/40 (87%), Positives = 37/40 (92%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDY 40
          ALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDY
Sbjct: 16 ALDQYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDY 55

The first LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3): LMO1 and LMO3 are highly homologous and belong to the LMO protein family. LMO1 and LMO3 are nuclear protein that plays important roles in transcriptional regulation and development. As LIM domains lack intrinsic DNA-binding activity, nuclear LMOs are involved in transcriptional regulation by forming complexes with other transcription factors or cofactors. For example, LMO1 interacts with the the bHLH domain of bHLH transcription factor, TAL1 (T-cell acute leukemia1)/SCL (stem cell leukemia) . LMO1 inhibits the expression of TAL1/SCL target genes. LMO3 facilitates p53 binding to its response elements, which suggests that LMO3 acts as a co-repressor of p53, suppressing p53-dependent transcriptional regulation. In addition, LMO3 interacts with neuronal transcription factor, HEN2, and acts as an oncogene in neuroblastoma. Another binding partner of LMO3 is calcium- and integrin-binding protein CIB, which binds via the second LIM domain (LIM2) of LMO3. One role of the CIB/LMO3 complex is to inhibit cell proliferation. Although LMO1 and LMO3 are highly homologous proteins, they play different roles in the regulation of the pituitary glycoprotein hormone alpha-subunit (alpha GSU) gene. Alpha GSU promoter activity was markedly repressed by LMO1 but activated by LMO3. 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 = 55

>gnl|CDD|188773 cd09387, LIM2_LMO4, The second LIM domain of LMO4 (LIM domain only protein 4)

 Score = 68.7 bits (168), Expect = 2e-16
 Identities = 27/54 (50%), Positives = 39/54 (72%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 103
           C+AC + IPA E+VMRA+ NVYHL+CF C  C+++   GDRF+  +  + CE+D
Sbjct: 1   CSACGQSIPASELVMRAQGNVYHLKCFTCSTCHNQLVPGDRFHYVNGSLFCEHD 54

The second LIM domain of LMO4 (LIM domain only protein 4): LMO4 is a nuclear protein that plays important roles in transcriptional regulation and development. LMO4 is involved in various functions in tumorigenesis and cellular differentiation. LMO4 proteins regulate gene expression by interacting with a wide variety of transcription factors and cofactors to form large transcription complexes. It can interact with Smad proteins, and associate with the promoter of the PAI-1 (plasminogen activator inhibitor-1) gene in a TGFbeta (transforming growth factor beta)-dependent manner. LMO4 can also form a complex with transcription regulator CREB (cAMP response element-binding protein) and interact with CLIM1 and CLIM2. In breast tissue, LMO4 interacts with multiple proteins, including the cofactor CtIP [CtBP (C-terminal binding protein)-interacting protein], the breast and ovarian tumor suppressor BRCA1 (breast-cancer susceptibility gene 1) and the LIM-domain-binding protein LDB1. Functionally, LMO4 is shown to repress BRCA1-mediated transcription activation, thus invoking a potential role for LMO4 as a negative regulator of BRCA1 in sporadic breast cancer. LMO4 also forms complex to both ERa (oestrogen receptor alpha), MTA1 (metastasis tumor antigen 1), and HDACs (histone deacetylases), implying that LMO4 is also a component of the MTA1 corepressor complex. Over-expressed LMO4 represses ERa transactivation functions in an HDAC-dependent manner, and contributes to the process of breast cancer progression by allowing the development of Era-negative phenotypes. 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 = 55

>gnl|CDD|188771 cd09385, LIM2_LMO2, The second LIM domain of LMO2 (LIM domain only protein 2)

 Score = 61.2 bits (148), Expect = 1e-13
 Identities = 31/54 (57%), Positives = 38/54 (70%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 103
           CA+C K I A+EM MR K+ VYHLECF C  C   FCVGDR+ L ++ I+CE D
Sbjct: 1   CASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQD 54

The second LIM domain of LMO2 (LIM domain only protein 2): LMO2 is a nuclear protein that plays important roles in transcriptional regulation and development. The two tandem LIM domains of LMO2 support the assembly of a crucial cell-regulatory complex by interacting with both the TAL1-E47 and GATA1 transcription factors to form a DNA-binding complex that is capable of transcriptional activation. LMOs have also been shown to be involved in oncogenesis. LMO1 and LMO2 are activated in T-cell acute lymphoblastic leukemia by distinct chromosomal translocations. LMO2 was also shown to be involved in erythropoiesis and is required for the hematopoiesis in the adult animals. 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 = 56

>gnl|CDD|188762 cd09376, LIM2_Lhx3_Lhx4, The second LIM domain of Lhx3-Lhx4 family

 Score = 59.3 bits (144), Expect = 8e-13
 Identities = 28/56 (50%), Positives = 39/56 (69%), Gaps = 1/56 (1%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEYDY 104
           CA C + IP  ++V RA++NVYHLECFAC  C  +   GD FYL  D++++C+ DY
Sbjct: 1   CAGCDEGIPPTQVVRRAQDNVYHLECFACFMCKRQLETGDEFYLMEDDRLVCKKDY 56

The second LIM domain of Lhx3-Lhx4 family: Lhx3 and Lhx4 belong to the LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs, such as the pituitary gland and the pancreas. The LHX3 and LHX4 LIM-homeodomain transcription factors play essential roles in pituitary gland and nervous system development. Although LHX3 and LHX4 share marked sequence homology, the genes have different expression patterns. They play overlapping, but distinct functions during the establishment of the specialized cells of the mammalian pituitary gland and the nervous system. Lhx3 proteins have been demonstrated the ability to directly bind to the promoters/enhancers of several pituitary hormone gene promoters to cause increased transcription.Lhx3a and Lhx3b, whose mRNAs have distinct temporal expression profiles during development, are two isoforms of Lhx3. LHX4 plays essential roles in pituitary gland and nervous system development. In mice, the lhx4 gene is expressed in the developing hindbrain, cerebral cortex, pituitary gland, and spinal cord. LHX4 shows significant sequence similarity to LHX3, particularly to isoforms Lhx3a. In gene regulation experiments, the LHX4 protein exhibits regulation roles towards pituitary genes, acting on their promoters/enhancers. 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 = 56

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

 Score = 56.5 bits (137), Expect = 1e-11
 Identities = 24/55 (43%), Positives = 30/55 (54%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 104
           CA C   I A E+VMRA++ V+HL CF C  CN     GD F + D  + C   Y
Sbjct: 5   CARCHLGISASELVMRARDLVFHLNCFTCATCNKPLTKGDHFGMRDGLVYCRLHY 59

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

>gnl|CDD|188765 cd09379, LIM2_AWH, The second LIM domain of Arrowhead (AWH)

 Score = 54.0 bits (130), Expect = 7e-11
 Identities = 23/55 (41%), Positives = 36/55 (65%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 104
           CA C++ I A + V RA+++VYHL CFAC  C  +   G+ F L ++++LC+  Y
Sbjct: 1   CAKCSRNISASDWVRRARDHVYHLACFACDACKRQLSTGEEFALIEDRVLCKAHY 55

The second LIM domain of Arrowhead (AWH): Arrowhead belongs to the LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs such as the pituitary gland and the pancreas. During embryogenesis of Drosophila, Arrowhead is expressed in each abdominal segment and in the labial segment. Late in embryonic development, expression of arrowhead is refined to the abdominal histoblasts and salivary gland imaginal ring cells themselves. The Arrowhead gene required for establishment of a subset of imaginal tissues: the abdominal histoblasts and the salivary gland imaginal rings. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 55

>gnl|CDD|188772 cd09386, LIM1_LMO4, The first LIM domain of LMO4 (LIM domain only protein 4)

 Score = 54.0 bits (130), Expect = 7e-11
 Identities = 24/40 (60%), Positives = 29/40 (72%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDY 40
          ALD +WH  CLKC CC  +LGE+GS+ Y K  +ILCK DY
Sbjct: 16 ALDRYWHNGCLKCSCCQAQLGEIGSSCYTKGGMILCKNDY 55

The first LIM domain of LMO4 (LIM domain only protein 4): LMO4 is a nuclear protein that plays important roles in transcriptional regulation and development. LMO4 is involved in various functions in tumorigenesis and cellular differentiation. LMO4 proteins regulate gene expression by interacting with a wide variety of transcription factors and cofactors to form large transcription complexes. It can interact with Smad proteins, and associate with the promoter of the PAI-1 (plasminogen activator inhibitor-1) gene in a TGFbeta (transforming growth factor beta)-dependent manner. LMO4 can also form a complex with transcription regulator CREB (cAMP response element-binding protein) and interact with CLIM1 and CLIM2. In breast tissue, LMO4 interacts with multiple proteins, including the cofactor CtIP [CtBP (C-terminal binding protein)-interacting protein], the breast and ovarian tumor suppressor BRCA1 (breast-cancer susceptibility gene 1) and the LIM-domain-binding protein LDB1. Functionally, LMO4 is shown to repress BRCA1-mediated transcription activation, thus invoking a potential role for LMO4 as a negative regulator of BRCA1 in sporadic breast cancer. LMO4 also forms complex to both ERa (oestrogen receptor alpha), MTA1 (metastasis tumor antigen 1), and HDACs (histone deacetylases), implying that LMO4 is also a component of the MTA1 corepressor complex. Over-expressed LMO4 represses ERa transactivation functions in an HDAC-dependent manner, and contributes to the process of breast cancer progression by allowing the development of Era-negative phenotypes. 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 = 55

>gnl|CDD|188764 cd09378, LIM2_Lmx1a_Lmx1b, The second LIM domain of Lmx1a and Lmx1b

 Score = 54.0 bits (130), Expect = 7e-11
 Identities = 25/55 (45%), Positives = 33/55 (60%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 104
           C+ C + I   E+VMRA  NVYHL CF C  C  +   GD F L + ++LC+ DY
Sbjct: 1   CSGCLEKIAPSELVMRALENVYHLRCFCCCVCERQLQKGDEFVLKEGQLLCKSDY 55

The second LIM domain of Lmx1a and Lmx1b: Lmx1a and Lmx1b belong to the LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs such as the pituitary gland and the pancreas. Mouse Lmx1a is expressed in multiple tissues, including the roof plate of the neural tube, the developing brain, the otic vesicles, the notochord, and the pancreas. In mouse, mutations in Lmx1a result in failure of the roof plate to develop. Lmx1a may act upstream of other roof plate markers such as MafB, Gdf7, Bmp6, and Bmp7. Further characterization of these mice reveals numerous defects including disorganized cerebellum, hippocampus, and cortex; altered pigmentation; female sterility, skeletal defects, and behavioral abnormalities. In the mouse, Lmx1b functions in the developing limbs and eyes, the kidneys, the brain, and in cranial mesenchyme. The disruption of Lmx1b gene results kidney and limb defects. In the brain, Lmx1b is important for generation of mesencephalic dopamine neurons and the differentiation of serotonergic neurons. In the mouse eye, Lmx1b regulates anterior segment (cornea, iris, ciliary body, trabecular meshwork, and lens) development. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 55

>gnl|CDD|188770 cd09384, LIM1_LMO2, The first LIM domain of LMO2 (LIM domain only protein 2)

 Score = 51.4 bits (123), Expect = 9e-10
 Identities = 26/41 (63%), Positives = 29/41 (70%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYL 41
          A+D +WHEDCL C  C CRLGEVG  LY K    LC+RDYL
Sbjct: 16 AIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYL 56

The first LIM domain of LMO2 (LIM domain only protein 2): LMO2 is a nuclear protein that plays important roles in transcriptional regulation and development. The two tandem LIM domains of LMO2 support the assembly of a crucial cell-regulatory complex by interacting with both the TAL1-E47 and GATA1 transcription factors to form a DNA-binding complex that is capable of transcriptional activation. LMOs have also been shown to be involved in oncogenesis. LMO1 and LMO2 are activated in T-cell acute lymphoblastic leukemia by distinct chromosomal translocations. LMO2 was also shown to be involved in erythropoiesis and is required for the hematopoiesis in the adult animals. 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 = 56

>gnl|CDD|188857 cd09473, LIM2_Lhx4, The second LIM domain of Lhx4

 Score = 51.2 bits (122), Expect = 1e-09
 Identities = 25/56 (44%), Positives = 37/56 (66%), Gaps = 1/56 (1%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEYDY 104
           C AC + IP  ++V +A++ VYHL CFAC  C+ +   GD FYL  D +++C+ DY
Sbjct: 1   CTACQQGIPPTQVVRKAQDFVYHLHCFACIICSRQLATGDEFYLMEDGRLVCKEDY 56

The second LIM domain of Lhx4. Lhx4 belongs to the LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs, such as the pituitary gland and the pancreas. LHX4 plays essential roles in pituitary gland and nervous system development. In mice, the lhx4 gene is expressed in the developing hindbrain, cerebral cortex, pituitary gland, and spinal cord. LHX4 shows significant sequence similarity to LHX3, particularly to isoforms Lhx3a. In gene regulation experiments, the LHX4 protein exhibits regulation roles towards pituitary genes, acting on their promoters/enhancers. 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 = 56

>gnl|CDD|188859 cd09475, LIM2_Lhx9, The second LIM domain of Lhx9

 Score = 51.2 bits (122), Expect = 1e-09
 Identities = 26/55 (47%), Positives = 31/55 (56%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 104
           CA C   I A EMVMRA+ +VYHL CF C  CN     GD F + DN + C   +
Sbjct: 5   CARCHLGISASEMVMRARESVYHLSCFTCTTCNKTLTTGDHFGMKDNLVYCRAHF 59

The second LIM domain of Lhx9: Lhx9 belongs to the LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs, such as the pituitary gland and the pancreas. Lhx9 is highly homologous to Lhx2. It is expressed in several regions of the developing mouse brain, the spinal cord, the pancreas, in limb mesenchyme, and in the urogenital region. Lhx9 plays critical roles in gonad development. Homozygous mice lacking functional Lhx9 alleles exhibit numerous urogenital defects, such as gonadal agenesis, infertility, and undetectable levels of testosterone and estradiol coupled with high FSH levels. Lhx9 null mice have reduced levels of the Sf1 nuclear receptor that is required for gonadogenesis, and recent studies have shown that Lhx9 is able to activate the Sf1/FtzF1 gene. Lhx9 null mice are phenotypically female, even those that are genotypically male. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 59

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

 Score = 50.5 bits (121), Expect = 2e-09
 Identities = 22/54 (40%), Positives = 27/54 (50%), Gaps = 1/54 (1%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 103
           CA C K I   E V+RA   V+H ECF C  C      GD F+  D K+ C+  
Sbjct: 2   CAGCGKPIYGTERVLRALGKVWHPECFKCATCGKPL-SGDTFFEKDGKLYCKDC 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|215907 pfam00412, LIM, LIM domain

 Score = 50.4 bits (121), Expect = 2e-09
 Identities = 24/58 (41%), Positives = 31/58 (53%), Gaps = 1/58 (1%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER 107
           CA C K I   E+V RA   V+H ECF C  C      GD F+  D K+ C++DY + 
Sbjct: 1   CAGCGKPIYDRELVRRALGKVWHPECFRCAVCGKPLGPGD-FFEKDGKLYCKHDYFKL 57

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

>gnl|CDD|188856 cd09472, LIM2_Lhx3b, The second LIM domain of Lhx3b

 Score = 50.1 bits (119), Expect = 3e-09
 Identities = 27/56 (48%), Positives = 38/56 (67%), Gaps = 1/56 (1%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEYDY 104
           CAAC + IP  ++V RA++ VYHL CFAC  C  +   GD FYL  D++++C+ DY
Sbjct: 2   CAACQQGIPPTQVVRRAQDFVYHLHCFACIVCKRQLATGDEFYLMEDSRLVCKADY 57

The second LIM domain of Lhx3b. Lhx3b is a member of LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs, such as the pituitary gland and the pancreas. Lhx3b is one of the two isoforms of Lhx3. The Lhx3 gene is expressed in the ventral spinal cord, the pons, the medulla oblongata, and the pineal gland of the developing nervous system during mouse embryogenesis, and transcripts are found in the emergent pituitary gland. Lhx3 functions in concert with other transcription factors to specify interneuron and motor neuron fates during development. Lhx3 proteins have been demonstrated to directly bind to the promoters of several pituitary hormone gene promoters. The Lhx3 gene encodes two isoforms, LHX3a and LHX3b that differ in their amino-terminal sequences, where Lhx3a has longer N-terminal. They show differential activation of pituitary hormone genes and distinct DNA binding properties. In human, Lhx3a trans-activated the alpha-glycoprotein subunit promoter and genes containing a high-affinity Lhx3 binding site more effectively than the hLhx3b isoform. In addition, hLhx3a induce transcription of the TSHbeta-subunit gene by acting on pituitary POU domain factor, Pit-1, while hLhx3b does not. 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 = 57

>gnl|CDD|188760 cd09374, LIM2_Isl, The second LIM domain of Isl, a member of LHX protein family

 Score = 48.6 bits (116), Expect = 8e-09
 Identities = 21/55 (38%), Positives = 32/55 (58%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 104
           CA C +     + VMRA+  +YH+ECF C  C+ +   GD F L D+ + C+ D+
Sbjct: 1   CAKCQQSFSKNDFVMRARTKIYHIECFRCSACSRQLIPGDEFALRDDGLFCKADH 55

The second LIM domain of Isl: Isl is a member of LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Isl1 and Isl2 are the two conserved members of this family. Proteins in this group are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs, such as the pituitary gland and the pancreas. Isl-1 is one of the LHX proteins isolated originally by virtue of its ability to bind DNA sequences from the 5'-flanking region of the rat insulin gene in pancreatic insulin-producing cells. Mice deficient in Isl-1 fail to form the dorsal exocrine pancreas and islet cells fail to differentiate. On the other hand, Isl-1 takes part in the pituitary development by activating the gonadotropin-releasing hormone receptor gene together with LHX3 and steroidogenic factor 1. Mouse Isl2 is expressed in the retinal ganglion cells and the developing spinal cord where it plays a role in motor neuron development. Same as Isl1, Isl2 may also be able to bind to the insulin gene enhancer to promote gene activation. 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 = 55

>gnl|CDD|188761 cd09375, LIM2_Lhx1_Lhx5, The second LIM domain of Lhx1 (also known as Lim1) and Lhx5

 Score = 48.5 bits (116), Expect = 1e-08
 Identities = 22/56 (39%), Positives = 33/56 (58%), Gaps = 1/56 (1%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCD-NKILCEYDY 104
           CA C + I   ++V RA++ V+HL CF C  C  +   G+  Y+ D NK +C+ DY
Sbjct: 1   CAGCDQGISPNDLVRRARDKVFHLNCFTCMVCRKQLSTGEELYILDENKFICKEDY 56

The second LIM domain of Lhx1 (also known as Lim1) and Lhx5. Lhx1 and Lhx5 are closely related members of LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs, such as the pituitary gland and the pancreas. Lhx1 is required for regulating the vertebrate head organizer, the nervous system, and female reproductive tract development. During embryogenesis in the mouse, Lhx1 is expressed early in mesodermal tissue, then later during urogenital, kidney, liver, and nervous system development. In the adult, expression is restricted to the kidney and brain. A mouse embryos with Lhx1 gene knockout cannot grow normal anterior head structures, kidneys, and gonads, but with normally developed trunk and tail morphology. In the developing nervous system, Lhx1 is required to direct the trajectories of motor axons in the limb. Lhx1 null female mice lack the oviducts and uterus. Lhx5 protein may play complementary or overlapping roles with Lhx1. The expression of Lhx5 in the anterior portion of the mouse neural tube suggests a role in patterning of the forebrain. 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 = 56

>gnl|CDD|188855 cd09471, LIM2_Isl2, The second LIM domain of Isl2

 Score = 48.4 bits (115), Expect = 1e-08
 Identities = 22/55 (40%), Positives = 36/55 (65%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 104
           CA C     + ++VMRA+++VYH+ECF C  C+ +   GD F L ++++LC  D+
Sbjct: 1   CAQCRLGFSSSDLVMRARDSVYHIECFRCSVCSRQLLPGDEFCLREHELLCRADH 55

The second LIM domain of Isl2: Isl is a member of LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs, such as the pituitary gland and the pancreas. Isl proteins are found in the nucleus and act as transcription factors or cofactors. Isl1 and Isl2 are the two conserved members of this family. Mouse Isl2 is expressed in the retinal ganglion cells and the developing spinal cord where it plays a role in motor neuron development. Isl2 may be able to bind to the insulin gene enhancer to promote gene activation. 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 = 55

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

 Score = 48.1 bits (115), Expect = 1e-08
 Identities = 22/55 (40%), Positives = 25/55 (45%), Gaps = 2/55 (3%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 104
           CA C K I     ++RA    +H ECF C  C      GD FY  D K  CE  Y
Sbjct: 1   CAGCGKPIEG-RELLRALGKKWHPECFKCSVCGKPLG-GDSFYEKDGKPYCEKCY 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|188769 cd09383, LIM2_Lhx7_Lhx8, The second LIM domain of Lhx7 and Lhx8

 Score = 47.7 bits (113), Expect = 2e-08
 Identities = 24/55 (43%), Positives = 32/55 (58%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 104
           C+ C + I + + V RAK NVYHL CFAC  C  +   G+ F L + K+LC   Y
Sbjct: 1   CSRCGRHIHSTDWVRRAKGNVYHLACFACFSCKRQLSTGEEFALVEEKVLCRVHY 55

The second LIM domain of Lhx7 and Lhx8: Lhx7 and Lhx8 belong to the LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs such as the pituitary gland and the pancreas. Studies using mutant mice have revealed roles for Lhx7 and Lhx8 in the development of cholinergic neurons in the telencephalon and in basal forebrain development. Mice lacking alleles of the LIM-homeobox gene Lhx7 or Lhx8 display dramatically reduced number of forebrain cholinergic neurons. In addition, Lhx7 mutation affects male and female mice differently, with females appearing more affected than males. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 55

>gnl|CDD|188858 cd09474, LIM2_Lhx2, The second LIM domain of Lhx2

 Score = 47.8 bits (113), Expect = 3e-08
 Identities = 26/55 (47%), Positives = 31/55 (56%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 104
           CA C   I A EMVMRA++ VYHL CF C  CN     GD F + DN + C   +
Sbjct: 5   CARCHLGISASEMVMRARDLVYHLNCFTCTTCNKMLTTGDHFGMKDNLVYCRLHF 59

The second LIM domain of Lhx2: Lhx2 belongs to the LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs, such as the pituitary gland and the pancreas. In animals, Lhx2 plays important roles in eye, cerebral cortex, limb, the olfactory organs, and erythrocyte development. Lhx2 gene knockout mice exhibit impaired patterning of the cortical hem and the telencephalon of the developing brain, and a lack of development in olfactory structures. The Lhx2 protein has been shown to bind to the mouse M71 olfactory receptor promoter. Similar to other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 59

>gnl|CDD|188768 cd09382, LIM2_Lhx6, The second LIM domain of Lhx6

 Score = 46.2 bits (109), Expect = 7e-08
 Identities = 24/55 (43%), Positives = 31/55 (56%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 104
           CA C + I A + V RA+ N YHL CFAC  C  +   G+ F L + K+LC   Y
Sbjct: 1   CARCGRQIYASDWVRRARGNAYHLACFACFSCKRQLSTGEEFGLVEEKVLCRIHY 55

The second LIM domain of Lhx6. Lhx6 is a member of LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs such as the pituitary gland and the pancreas. Lhx6 functions in brain and nervous system. It is expressed at high levels in several regions of the embryonic mouse CNS, including the telencephalon and hypothalamus, and the first branchial arch. Lhx6 is proposed to have a role in patterning of the mandible and maxilla, and in signaling during odontogenesis. In brain sections, knockdown of Lhx6 gene blocks the normal migration of neurons to the cortex. 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 = 55

>gnl|CDD|188778 cd09392, LIM2_Lrg1p_like, The second LIM domain of Lrg1p, a LIM and RhoGap domain containing protein

 Score = 37.7 bits (88), Expect = 1e-04
 Identities = 15/39 (38%), Positives = 18/39 (46%)

Query: 66  AKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 104
           A    YH+E F C  C   F   D +Y  + KI C Y Y
Sbjct: 15  ALGRKYHVEHFTCSVCPTVFGPNDSYYEHEGKIYCHYHY 53

The second 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 = 53

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

 Score = 37.1 bits (86), Expect = 4e-04
 Identities = 18/59 (30%), Positives = 29/59 (49%), Gaps = 1/59 (1%)

Query: 46  TTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 104
           T   C  C + +   +  +RA  +++H+ CF C QC  +   G +FY  + K  CE  Y
Sbjct: 30  TNELCGICGQPLSRTQPAVRALGHLFHVTCFTCHQCEQQL-QGQQFYSLEGKPYCEECY 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|215907 pfam00412, LIM, LIM domain

 Score = 35.8 bits (83), Expect = 6e-04
 Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 2/44 (4%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLF 44
          AL   WH +C +C  C   LG      ++K   + CK DY +LF
Sbjct: 17 ALGKVWHPECFRCAVCGKPLGP--GDFFEKDGKLYCKHDYFKLF 58

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

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

 Score = 35.8 bits (83), Expect = 6e-04
 Identities = 15/40 (37%), Positives = 20/40 (50%), Gaps = 2/40 (5%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDY 40
          AL   WH +C KC  C   LG  G + Y+K     C++ Y
Sbjct: 16 ALGKKWHPECFKCSVCGKPLG--GDSFYEKDGKPYCEKCY 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|188777 cd09391, LIM1_Lrg1p_like, The first LIM domain of Lrg1p, a LIM and RhoGap domain containing protein

 Score = 33.4 bits (77), Expect = 0.004
 Identities = 22/60 (36%), Positives = 27/60 (45%), Gaps = 8/60 (13%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNK-----ILCEYDY 104
           CA C K I      +RA  +VYHL+CF C  C  +      F + D        LCE DY
Sbjct: 1   CAKCGKPITG--QFVRALGDVYHLDCFTCHDC-GKPVASKFFPVDDPDTSEQVPLCETDY 57

The first 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 = 57

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	155
KOG4577|consensus	383		99.95
KOG1701|consensus	468		99.93
KOG2272|consensus	332		99.87
KOG1701|consensus	468		99.82
KOG1044|consensus	670		99.82
KOG1703|consensus	479		99.78
KOG2272|consensus	332		99.77
KOG1044|consensus	670		99.7
KOG1703|consensus	479		99.63
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.56
KOG4577|consensus	383		99.29
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.27
KOG1700|consensus	200		99.11
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.68
KOG0490|consensus	235		97.87
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	97.76
KOG1702|consensus	264		97.42
KOG1700|consensus	200		97.26
KOG1702|consensus	264		96.13
KOG0490|consensus	235		93.48
PF06677	41	Auto_anti-p27: Sjogren's syndrome/scleroderma auto	87.8
PF11781	36	RRN7: RNA polymerase I-specific transcription init	86.75
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	86.7
PF08394	37	Arc_trans_TRASH: Archaeal TRASH domain; InterPro:	86.4
PF07191	70	zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807	84.44
PF06906	57	DUF1272: Protein of unknown function (DUF1272); In	83.39
COG1645	131	Uncharacterized Zn-finger containing protein [Gene	83.38
KOG1813|consensus	313		83.27
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	82.36
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	82.32
COG5152	259	Uncharacterized conserved protein, contains RING a	82.18
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	81.18
PF14634	44	zf-RING_5: zinc-RING finger domain	81.11
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	80.14

>KOG4577|consensus

Probab=99.95  E-value=5.1e-29  Score=184.34  Aligned_cols=146  Identities=35%  Similarity=0.729  Sum_probs=123.9

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccccccccccCceEEeccCcccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQ   80 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~   80 (155)
                      ++++.||..|++|++|..+|.+   .+|.++|.+||++++.++|+.  +|..|...|.+...+..+.+..||..||.|..
T Consensus        51 vl~R~wHs~CLkCs~C~~qL~d---rCFsR~~s~yCkedFfKrfGT--KCsaC~~GIpPtqVVRkAqd~VYHl~CF~C~i  125 (383)
T KOG4577|consen   51 VLDRHWHSSCLKCSDCHDQLAD---RCFSREGSVYCKEDFFKRFGT--KCSACQEGIPPTQVVRKAQDFVYHLHCFACFI  125 (383)
T ss_pred             HHhhhhhhhhcchhhhhhHHHH---HHhhcCCceeehHHHHHHhCC--cchhhcCCCChHHHHHHhhcceeehhhhhhHh
Confidence            4689999999999999999953   689999999999999999999  99999999999766777889999999999999


Q ss_pred             CCcccccCCeEEe-eCCeeecHHhHHhhhcccCCCeee----ecCCeecchhhHHHHHHHHhhcCC--CCchHHHhhhhh
Q psy12215         81 CNHRFCVGDRFYL-CDNKILCEYDYEERQVFCVGDRFY----LCDNKILCEYDYEERQVFANIAYN--PSSLAHLRRQVT  153 (155)
Q Consensus        81 C~~~l~~~~~~~~-~~~~~~C~~c~~~~~~~~~~~~c~----~c~~~i~c~~~~~~~~~~~~~~~h--p~~~~~~~~~~~  153 (155)
                      |++.|..+..|+. .|+++.|+.+|+...    ...|.    -=.++-+.++...++++..+.+|.  |+|+||||||||
T Consensus       126 C~R~L~TGdEFYLmeD~rLvCK~DYE~Ak----~k~~~~l~gd~~nKRPRTTItAKqLETLK~AYn~SpKPARHVREQLs  201 (383)
T KOG4577|consen  126 CKRQLATGDEFYLMEDARLVCKDDYETAK----QKHCNELEGDASNKRPRTTITAKQLETLKQAYNTSPKPARHVREQLS  201 (383)
T ss_pred             hhcccccCCeeEEeccceeehhhhHHHHH----hccccccccccccCCCcceeeHHHHHHHHHHhcCCCchhHHHHHHhh
Confidence            9999998999885 569999999999876    34432    222333334455899999999898  899999999998


Q ss_pred             cC
Q psy12215        154 LQ  155 (155)
Q Consensus       154 ~~  155 (155)
                      -+
T Consensus       202 se  203 (383)
T KOG4577|consen  202 SE  203 (383)
T ss_pred             hc
Confidence            53

>KOG1701|consensus

Probab=99.93  E-value=8.6e-29  Score=191.48  Aligned_cols=141  Identities=26%  Similarity=0.540  Sum_probs=123.5

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccccccccccCceEEeccCcccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQ   80 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~   80 (155)
                      ||++.||..||+|..|++.|  .++.||..|+++||+.||.....   +|..|++.|.  |+++.+.|+.||+.||+|..
T Consensus       293 Am~~~fHv~CFtC~~C~r~L--~Gq~FY~v~~k~~CE~cyq~tle---kC~~Cg~~I~--d~iLrA~GkayHp~CF~Cv~  365 (468)
T KOG1701|consen  293 AMDQLFHVQCFTCRTCRRQL--AGQSFYQVDGKPYCEGCYQDTLE---KCNKCGEPIM--DRILRALGKAYHPGCFTCVV  365 (468)
T ss_pred             HhhhhhcccceehHhhhhhh--ccccccccCCcccchHHHHHHHH---HHhhhhhHHH--HHHHHhcccccCCCceEEEE
Confidence            79999999999999999999  78899999999999999998765   7999999997  48999999999999999999


Q ss_pred             CCcccccCCeEEee-CCeeecHHhHHhhhcccCCCeeeecCCeecchhhHHH--HHHHHhhcCCCCc--hHHHhhhhh
Q psy12215         81 CNHRFCVGDRFYLC-DNKILCEYDYEERQVFCVGDRFYLCDNKILCEYDYEE--RQVFANIAYNPSS--LAHLRRQVT  153 (155)
Q Consensus        81 C~~~l~~~~~~~~~-~~~~~C~~c~~~~~~~~~~~~c~~c~~~i~c~~~~~~--~~~~~~~~~hp~~--~~~~~~~~~  153 (155)
                      |.+.| .+..|++. ++++||-.+|.++|    +++|.+|.++|+...--++  +|+.+++.||=++  +.-.+-+||
T Consensus       366 C~r~l-dgipFtvd~~n~v~Cv~dfh~kf----APrCs~C~~PI~P~~G~~etvRvvamdr~fHv~CY~CEDCg~~LS  438 (468)
T KOG1701|consen  366 CARCL-DGIPFTVDSQNNVYCVPDFHKKF----APRCSVCGNPILPRDGKDETVRVVAMDRDFHVNCYKCEDCGLLLS  438 (468)
T ss_pred             ecccc-CCccccccCCCceeeehhhhhhc----CcchhhccCCccCCCCCcceEEEEEccccccccceehhhcCcccc
Confidence            99999 88888764 59999999999999    9999999999986554333  3556778999764  666666666

>KOG2272|consensus

Probab=99.87  E-value=2e-24  Score=157.47  Aligned_cols=131  Identities=27%  Similarity=0.627  Sum_probs=112.8

Q ss_pred             CCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccccccccccCceEEeccCccccccccccccC
Q psy12215          2 LDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQC   81 (155)
Q Consensus         2 ~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C   81 (155)
                      .|..||.+||.|+.|-.|++  +..|+..+|+.||+.|+..+|+|  .|..|++.|.+  ++|.+.+.+||+.||+|..|
T Consensus        32 ~ge~wH~~CFvCAQCf~pf~--~g~~~efEgRkYCEhDF~~LfaP--cC~kC~EFiiG--rVikamnnSwHp~CF~Cd~C  105 (332)
T KOG2272|consen   32 NGELWHEQCFVCAQCFRPFP--DGIFYEFEGRKYCEHDFHVLFAP--CCGKCGEFIIG--RVIKAMNNSWHPACFRCDLC  105 (332)
T ss_pred             CchhhHHHHHHHHHhcCcCC--CceeEEecCcccccccchhhhch--hhcccccchhh--HHHHhhccccCcccchhHHH
Confidence            46799999999999999995  56899999999999999999999  99999999987  78899999999999999999


Q ss_pred             CcccccCCeEEeeCCeeecHHhHHhhhcccCCCeeeecCCeecchhhHHHHHHHHhhcCCCC
Q psy12215         82 NHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPS  143 (155)
Q Consensus        82 ~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~c~~c~~~i~c~~~~~~~~~~~~~~~hp~  143 (155)
                      ++.| .+..|+...|+.+|..|..+..  +.+..-+.|++... -++ ++.+.++|++|||.
T Consensus       106 n~~L-ad~gf~rnqgr~LC~~Cn~k~K--a~~~g~YvC~KCh~-~iD-~~~l~fr~d~yH~y  162 (332)
T KOG2272|consen  106 NKHL-ADQGFYRNQGRALCRECNQKEK--AKGRGRYVCQKCHA-HID-EQPLTFRGDPYHPY  162 (332)
T ss_pred             HHHH-hhhhhHhhcchHHhhhhhhhhc--ccccceeehhhhhh-hcc-cccccccCCCCCcc
Confidence            9999 6777777779999999988754  33555677777333 222 68899999999995

>KOG1701|consensus

Probab=99.82  E-value=5.1e-21  Score=148.57  Aligned_cols=104  Identities=25%  Similarity=0.560  Sum_probs=91.3

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEE-eCCeeecccchhccccccccccccccccccCce-----EEeccCcccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQ-KANLILCKRDYLRLFGTTGYCAACTKVIPAFEM-----VMRAKNNVYHLE   74 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~-~~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~-----~~~~~~~~~H~~   74 (155)
                      |+|+.||+.||+|..|++.|+  +-.|.+ .++++||-+||+++|++  +|+.|+++|++.+-     -|.+.++.||.+
T Consensus       351 A~GkayHp~CF~Cv~C~r~ld--gipFtvd~~n~v~Cv~dfh~kfAP--rCs~C~~PI~P~~G~~etvRvvamdr~fHv~  426 (468)
T KOG1701|consen  351 ALGKAYHPGCFTCVVCARCLD--GIPFTVDSQNNVYCVPDFHKKFAP--RCSVCGNPILPRDGKDETVRVVAMDRDFHVN  426 (468)
T ss_pred             hcccccCCCceEEEEeccccC--CccccccCCCceeeehhhhhhcCc--chhhccCCccCCCCCcceEEEEEcccccccc
Confidence            799999999999999999995  456774 77889999999999999  99999999986431     466889999999


Q ss_pred             ccccccCCcccc---cCCeEEeeCCeeecHHhHHhhh
Q psy12215         75 CFACQQCNHRFC---VGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        75 Cf~C~~C~~~l~---~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      |++|..|+..|+   ++..++..||.++|+.|..++.
T Consensus       427 CY~CEDCg~~LS~e~e~qgCyPld~HllCk~Ch~~Rl  463 (468)
T KOG1701|consen  427 CYKCEDCGLLLSSEEEGQGCYPLDGHLLCKTCHLKRL  463 (468)
T ss_pred             ceehhhcCccccccCCCCcceeccCceeechhhhhhh
Confidence            999999999995   4556899999999999988765

>KOG1044|consensus

Probab=99.82  E-value=5.2e-21  Score=153.08  Aligned_cols=135  Identities=20%  Similarity=0.459  Sum_probs=116.5

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccc-------cccccccccccccccCceEEeccCccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLF-------GTTGYCAACTKVIPAFEMVMRAKNNVYHL   73 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~-------~~~~~C~~C~~~I~~~~~~~~~~~~~~H~   73 (155)
                      |+|++||+.||.|+.|..++.++ ...........|+.|..-..       ++ ..|++|++.|.. ..++.++++.||.
T Consensus        82 a~gktyh~~cf~cs~ck~pf~~g-~~vt~~gk~~~c~~c~~~~~~~p~~~~~p-s~cagc~~~lk~-gq~llald~qwhv  158 (670)
T KOG1044|consen   82 TLGKTYHPKCFSCSTCKSPFKSG-DKVTFSGKECLCQTCSQPMPVSPAESYGP-STCAGCGEELKN-GQALLALDKQWHV  158 (670)
T ss_pred             cccceeccccceecccCCCCCCC-CeeeecchhhhhhhhcCcccCCcccccCC-ccccchhhhhhc-cceeeeeccceee
Confidence            68999999999999999999864 35566666788888874321       22 269999999986 4677899999999


Q ss_pred             cccccccCCcccccCCeEEeeCCeeecHHhHHhhhcccCCCeeeecCCeecchhhHHHHHHHHhhcCCCCchHHHh
Q psy12215         74 ECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPSSLAHLR  149 (155)
Q Consensus        74 ~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~c~~c~~~i~c~~~~~~~~~~~~~~~hp~~~~~~~  149 (155)
                      .||+|..|...|  ...|+..+|.+||..+|...|    |.+|..|.+-|.     ++.++..|++|||.++|.+|
T Consensus       159 ~cfkc~~c~~vL--~gey~skdg~pyce~dy~~~f----gvkc~~c~~fis-----gkvLqag~kh~HPtCARCsR  223 (670)
T KOG1044|consen  159 SCFKCKSCSAVL--NGEYMSKDGVPYCEKDYQAKF----GVKCEECEKFIS-----GKVLQAGDKHFHPTCARCSR  223 (670)
T ss_pred             eeeehhhhcccc--cceeeccCCCcchhhhhhhhc----CeehHHhhhhhh-----hhhhhccCcccCcchhhhhh
Confidence            999999999999  667999999999999999999    999999999888     88999999999999998876

>KOG1703|consensus

Probab=99.78  E-value=4e-20  Score=150.36  Aligned_cols=130  Identities=20%  Similarity=0.416  Sum_probs=116.0

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccccccccccCceEEeccCcccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQ   80 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~   80 (155)
                      |+++.||+.+|.|..|...+..  ..+...+|++||.+|+...+.+  .|.+|.++|.+  ..|.+.+..||++||.|..
T Consensus       321 ~~~~~~h~~~~~c~~~~~~~~~--~~~~~~~g~~~c~~~~~~~~~p--~C~~C~~~i~~--~~v~a~~~~wH~~cf~C~~  394 (479)
T KOG1703|consen  321 ALGKEWHPEHFSCEVCAIVILD--GGPRELDGKILCHECFHAPFRP--NCKRCLLPILE--EGVCALGRLWHPECFVCAD  394 (479)
T ss_pred             eccccccccceeeccccccccC--CCccccCCCccHHHHHHHhhCc--cccccCCchHH--hHhhhccCeechhceeeec
Confidence            6889999999999999999954  4578999999999999999999  99999999986  6778889999999999999


Q ss_pred             CCcccccCCeEEeeCCeeecHHhHHhhhcccCCCeeeecCCeecchhhHHHHHHHHhhcCCCCc
Q psy12215         81 CNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPSS  144 (155)
Q Consensus        81 C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~c~~c~~~i~c~~~~~~~~~~~~~~~hp~~  144 (155)
                      |.+++ .+..|+..++.+||..||.+++    +.+|..|..++.   ..+..+...|..||+..
T Consensus       395 C~~~~-~~~~~~~~~~~pyce~~~~~~~----~~~~~~~~~p~~---~~~~~ie~~~~~~h~~~  450 (479)
T KOG1703|consen  395 CGKPL-KNSSFFESDGEPYCEDHYKKLF----TTKCDYCKKPVE---FGSRQIEADGSPFHGDC  450 (479)
T ss_pred             ccCCC-CCCcccccCCccchhhhHhhhc----cccchhccchhH---hhhhHhhccCccccccc
Confidence            99999 8888999999999999999999    788999988654   33677888888999874

>KOG2272|consensus

Probab=99.77  E-value=3.5e-20  Score=135.43  Aligned_cols=125  Identities=25%  Similarity=0.438  Sum_probs=113.0

Q ss_pred             CccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccccccccccCceEEeccCccccccccccccCC
Q psy12215          3 DLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCN   82 (155)
Q Consensus         3 ~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~   82 (155)
                      |..||+-+|+|+.|++.|++.   -....|.+||..|+.+.--|  .|..|.++|.  ++++.+.|+.||.++|+|..|.
T Consensus       156 ~d~yH~yHFkCt~C~keL~sd---aRevk~eLyClrChD~mgip--iCgaC~rpIe--ervi~amgKhWHveHFvCa~Ce  228 (332)
T KOG2272|consen  156 GDPYHPYHFKCTTCGKELTSD---AREVKGELYCLRCHDKMGIP--ICGACRRPIE--ERVIFAMGKHWHVEHFVCAKCE  228 (332)
T ss_pred             CCCCCccceecccccccccch---hhhhccceeccccccccCCc--ccccccCchH--HHHHHHhccccchhheeehhcC
Confidence            678999999999999999643   34677899999999988777  8999999996  5788999999999999999999


Q ss_pred             cccccCCeEEeeCCeeecHHhHHhhhcccCCCeeeecCCeecchhhHHHHHHHHhhcCCCCc
Q psy12215         83 HRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPSS  144 (155)
Q Consensus        83 ~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~c~~c~~~i~c~~~~~~~~~~~~~~~hp~~  144 (155)
                      +++ -|-+-+.+.|..||+.+|.+++    |..|++|+..|-     ++.+.+.+++|-|+.
T Consensus       229 kPF-lGHrHYEkkGlaYCe~h~~qLf----G~~CF~C~~~i~-----G~vv~al~KawCv~c  280 (332)
T KOG2272|consen  229 KPF-LGHRHYEKKGLAYCETHYHQLF----GNLCFICNRVIG-----GDVVSALNKAWCVEC  280 (332)
T ss_pred             Ccc-cchhhhhhcCchhHHHHHHHHh----hhhheecCCccC-----ccHHHHhhhhhcccc
Confidence            999 8888999999999999999999    999999999998     788888888888763

>KOG1044|consensus

Probab=99.70  E-value=2e-18  Score=138.35  Aligned_cols=98  Identities=32%  Similarity=0.707  Sum_probs=91.1

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccccccccccCceEEeccCcccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQ   80 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~   80 (155)
                      |+++.||..||+|..|+..|.   ..|..+||.+||+.||...|+.  +|..|.+.|.+  .++.+.+++||+.|-+|+.
T Consensus       151 ald~qwhv~cfkc~~c~~vL~---gey~skdg~pyce~dy~~~fgv--kc~~c~~fisg--kvLqag~kh~HPtCARCsR  223 (670)
T KOG1044|consen  151 ALDKQWHVSCFKCKSCSAVLN---GEYMSKDGVPYCEKDYQAKFGV--KCEECEKFISG--KVLQAGDKHFHPTCARCSR  223 (670)
T ss_pred             eeccceeeeeeehhhhccccc---ceeeccCCCcchhhhhhhhcCe--ehHHhhhhhhh--hhhhccCcccCcchhhhhh
Confidence            789999999999999999994   3599999999999999999999  99999999987  7889999999999999999


Q ss_pred             CCcccccCCeEEeeCCeeecHHhHH
Q psy12215         81 CNHRFCVGDRFYLCDNKILCEYDYE  105 (155)
Q Consensus        81 C~~~l~~~~~~~~~~~~~~C~~c~~  105 (155)
                      |+..+..|+..++.++.++-..|-.
T Consensus       224 CgqmF~eGEEMYlQGs~iWHP~C~q  248 (670)
T KOG1044|consen  224 CGQMFGEGEEMYLQGSEIWHPDCKQ  248 (670)
T ss_pred             hccccccchheeeccccccCCcccc
Confidence            9999999999999999999777743

>KOG1703|consensus

Probab=99.63  E-value=4.3e-17  Score=132.72  Aligned_cols=99  Identities=27%  Similarity=0.672  Sum_probs=90.8

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccccccccccCceEEeccCcccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQ   80 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~   80 (155)
                      |++..||+.||+|..|.++|  ....|+..+|.+||+.||.+++.+  +|..|..++...+..+.+.+..||..||+|..
T Consensus       380 a~~~~wH~~cf~C~~C~~~~--~~~~~~~~~~~pyce~~~~~~~~~--~~~~~~~p~~~~~~~ie~~~~~~h~~~F~c~~  455 (479)
T KOG1703|consen  380 ALGRLWHPECFVCADCGKPL--KNSSFFESDGEPYCEDHYKKLFTT--KCDYCKKPVEFGSRQIEADGSPFHGDCFRCAN  455 (479)
T ss_pred             hccCeechhceeeecccCCC--CCCcccccCCccchhhhHhhhccc--cchhccchhHhhhhHhhccCccccccceehhh
Confidence            67899999999999999999  556799999999999999999997  89999999875567889999999999999999


Q ss_pred             CCcccccCCeEEeeCCeeecHHhH
Q psy12215         81 CNHRFCVGDRFYLCDNKILCEYDY  104 (155)
Q Consensus        81 C~~~l~~~~~~~~~~~~~~C~~c~  104 (155)
                      |...| .+..|+...++++|..|+
T Consensus       456 c~~~l-~~~~~~~~~~~p~c~~~~  478 (479)
T KOG1703|consen  456 CMKKL-TKKTFFETLDKPLCQKHF  478 (479)
T ss_pred             hhccc-cCCceeecCCccccccCC
Confidence            99999 888999999999998875

>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=99.56  E-value=7.3e-15  Score=86.51  Aligned_cols=58  Identities=36%  Similarity=0.745  Sum_probs=52.2

Q ss_pred             ccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         50 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        50 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      |.+|+++|.+.+.++.+.++.||++||+|..|+++| .+..++..++++||..||.++|
T Consensus         1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l-~~~~~~~~~~~~~C~~c~~~~f   58 (58)
T PF00412_consen    1 CARCGKPIYGTEIVIKAMGKFWHPECFKCSKCGKPL-NDGDFYEKDGKPYCKDCYQKRF   58 (58)
T ss_dssp             BTTTSSBESSSSEEEEETTEEEETTTSBETTTTCBT-TTSSEEEETTEEEEHHHHHHHT
T ss_pred             CCCCCCCccCcEEEEEeCCcEEEccccccCCCCCcc-CCCeeEeECCEEECHHHHhhhC
Confidence            789999999877777899999999999999999999 5555999999999999999875

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 ....

>KOG4577|consensus

Probab=99.29  E-value=1.6e-13  Score=102.36  Aligned_cols=95  Identities=20%  Similarity=0.517  Sum_probs=78.4

Q ss_pred             cccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhhcccCCCeeeecCCeecchhh
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCDNKILCEYD  128 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~c~~c~~~i~c~~~  128 (155)
                      .|++|.+.|.+ ..++.++++.||..|++|+.|..+|  +.+++.+++.+||+.+|.++|    |.+|..|+.-|...+.
T Consensus        35 ~CagC~q~IlD-rFilKvl~R~wHs~CLkCs~C~~qL--~drCFsR~~s~yCkedFfKrf----GTKCsaC~~GIpPtqV  107 (383)
T KOG4577|consen   35 ICAGCDQHILD-RFILKVLDRHWHSSCLKCSDCHDQL--ADRCFSREGSVYCKEDFFKRF----GTKCSACQEGIPPTQV  107 (383)
T ss_pred             cccchHHHHHH-HHHHHHHhhhhhhhhcchhhhhhHH--HHHHhhcCCceeehHHHHHHh----CCcchhhcCCCChHHH
Confidence            79999999986 5688899999999999999999999  788999999999999999999    9999999999984443


Q ss_pred             HHHHHHHHhhcCCCCc--hHHHhhhhh
Q psy12215        129 YEERQVFANIAYNPSS--LAHLRRQVT  153 (155)
Q Consensus       129 ~~~~~~~~~~~~hp~~--~~~~~~~~~  153 (155)
                      ..+.   ...+||=.+  +-..+++|.
T Consensus       108 VRkA---qd~VYHl~CF~C~iC~R~L~  131 (383)
T KOG4577|consen  108 VRKA---QDFVYHLHCFACFICKRQLA  131 (383)
T ss_pred             HHHh---hcceeehhhhhhHhhhcccc
Confidence            3222   223788643  555566654

>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=99.27  E-value=1.9e-12  Score=76.12  Aligned_cols=42  Identities=36%  Similarity=0.863  Sum_probs=37.5

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLF   44 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~   44 (155)
                      |+|+.||++||+|+.|+++|.+  ..|+..+|++||++||.++|
T Consensus        17 ~~~~~~H~~Cf~C~~C~~~l~~--~~~~~~~~~~~C~~c~~~~f   58 (58)
T PF00412_consen   17 AMGKFWHPECFKCSKCGKPLND--GDFYEKDGKPYCKDCYQKRF   58 (58)
T ss_dssp             ETTEEEETTTSBETTTTCBTTT--SSEEEETTEEEEHHHHHHHT
T ss_pred             eCCcEEEccccccCCCCCccCC--CeeEeECCEEECHHHHhhhC
Confidence            5789999999999999999964  44999999999999998865

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=99.11  E-value=1.3e-11  Score=89.97  Aligned_cols=103  Identities=23%  Similarity=0.564  Sum_probs=85.2

Q ss_pred             CCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccc---------------------------------
Q psy12215          2 LDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTG---------------------------------   48 (155)
Q Consensus         2 ~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~---------------------------------   48 (155)
                      .|..||..||.|..|.+.|..  ..+...++.+||+.+|...+++.+                                 
T Consensus        26 ~g~~~hk~c~~c~~~~k~l~~--~~~~~~e~~~yc~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  103 (200)
T KOG1700|consen   26 DGVDFHKECFKCEKCKKTLTL--SGYSEHEGVPYCKNCHVAQFGPKGGGFGKGFQKAGGLGKDGKSLNESKPNQSAKFQV  103 (200)
T ss_pred             cCcchhhhHHhcccccccccc--ccccccccccccccchHhhhCcccccccccccccCCCCcccccccccccccchhHHh
Confidence            478999999999999999964  457889999999998755554421                                 


Q ss_pred             ------cccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         49 ------YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        49 ------~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                            .|..|++.+++.+.+ ...+..||..||+|..|+..| ....+....+.++|..++...+
T Consensus       104 ~~g~~~~c~~c~k~vy~~Ek~-~~~~~~~hk~cfrc~~~~~~l-s~~~~~~~~g~l~~~~~~~~~~  167 (200)
T KOG1700|consen  104 FAGEKEKCARCQKTVYPLEKV-TGNGLEFHKSCFRCTHCGKKL-SPKNYAALEGVLYCKHHFAQLF  167 (200)
T ss_pred             hhccccccccccceeeehHHH-hhhhhhhhhhheeeccccccc-CCcchhhcCCccccchhhheee
Confidence                  299999999986655 677999999999999999999 6777888888999988876654

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

Probab=98.68  E-value=1.4e-08  Score=54.38  Aligned_cols=37  Identities=43%  Similarity=0.909  Sum_probs=33.3

Q ss_pred             cccccccccccCceEEeccCccccccccccccCCccc
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRF   85 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l   85 (155)
                      +|.+|+++|.+.+..+.+.+..||+.||+|..|+++|
T Consensus         1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L   37 (39)
T smart00132        1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPL   37 (39)
T ss_pred             CccccCCcccCCcEEEEeCCccccccCCCCcccCCcC
Confidence            4889999998855778889999999999999999988

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=97.87  E-value=1.9e-06  Score=63.86  Aligned_cols=101  Identities=40%  Similarity=0.738  Sum_probs=82.5

Q ss_pred             CccccccCcccccCCcccccCCCeEEEeCCeeecccchhc--cccccccccccccccccCceEEeccCcccccccccccc
Q psy12215          3 DLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLR--LFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQ   80 (155)
Q Consensus         3 ~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~--~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~   80 (155)
                      +..||..|..|..|..+|.... ..+..+|..||..+|..  .+..  +|.+|...+...+.+..+..+. |..||.|..
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~g~~~~~~d~~~~~~~~~--rr~rt~~~~~ql~~ler~f~~~-h~Pd~~~r~   91 (235)
T KOG0490|consen   16 DRYWHASCLKCAECDNPLGVGD-TCFSKDGSIYCKRDYQREFKFSK--RCARCKFTISQLDELERAFEKV-HLPCFACRE   91 (235)
T ss_pred             cHHHHHHHHhhhhhcchhccCC-CcccCCCcccccccchhhhhccc--cccCCCCCcCHHHHHHHhhcCC-CcCccchHH
Confidence            5789999999999999996333 34544999999999998  5554  8999999997667777777777 999999999


Q ss_pred             CCcccccCCeEEeeCC-eeecHHhHHhh
Q psy12215         81 CNHRFCVGDRFYLCDN-KILCEYDYEER  107 (155)
Q Consensus        81 C~~~l~~~~~~~~~~~-~~~C~~c~~~~  107 (155)
                      |...+..+..+.+... +..|...+...
T Consensus        92 ~la~~~~~~e~rVqvwFqnrrak~r~~~  119 (235)
T KOG0490|consen   92 CLALLLTGDEFRVQVWFQNRRAKDRKEE  119 (235)
T ss_pred             HHhhcCCCCeeeeehhhhhhcHhhhhhh
Confidence            9998767777877775 88898887554

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

Probab=97.76  E-value=1e-05  Score=42.93  Aligned_cols=20  Identities=45%  Similarity=1.076  Sum_probs=18.4

Q ss_pred             CCCccccccCcccccCCccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRL   20 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l   20 (155)
                      ++++.||+.||+|..|+.+|
T Consensus        18 ~~~~~~H~~Cf~C~~C~~~L   37 (39)
T smart00132       18 ALGKVWHPECFKCSKCGKPL   37 (39)
T ss_pred             eCCccccccCCCCcccCCcC
Confidence            46889999999999999998

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.

>KOG1702|consensus

Probab=97.42  E-value=9.6e-06  Score=58.52  Aligned_cols=58  Identities=24%  Similarity=0.529  Sum_probs=48.8

Q ss_pred             cccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      -|..|++.+++.+.+ ..+++.||..||+|..|+..| .-..+-..+.++||..+|.+..
T Consensus         6 n~~~cgk~vYPvE~v-~cldk~whk~cfkce~c~mtl-nmKnyKgy~kkpycn~hYpkq~   63 (264)
T KOG1702|consen    6 NREDCGKTVYPVEEV-KCLDKVWHKQCFKCEVCGMTL-NMKNYKGYDKKPYCNPHYPKQV   63 (264)
T ss_pred             hhhhhccccccHHHH-hhHHHHHHHHhheeeeccCCh-hhhhccccccCCCcCcccccce
Confidence            477889988886544 788999999999999999999 6666777889999999998654

>KOG1700|consensus

Probab=97.26  E-value=5.9e-05  Score=55.11  Aligned_cols=58  Identities=22%  Similarity=0.469  Sum_probs=48.5

Q ss_pred             cccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      +|..|++.++..+++ ...+..||..||+|..|.+.| ....+...++.+||+.++...+
T Consensus         9 kc~~c~k~vy~~e~~-~~~g~~~hk~c~~c~~~~k~l-~~~~~~~~e~~~yc~~~~~~~~   66 (200)
T KOG1700|consen    9 KCNACGKTVYFVEKV-QKDGVDFHKECFKCEKCKKTL-TLSGYSEHEGVPYCKNCHVAQF   66 (200)
T ss_pred             hhhhccCcchHHHHH-hccCcchhhhHHhcccccccc-ccccccccccccccccchHhhh
Confidence            799999999876555 477999999999999999999 6666777899999999665544

>KOG1702|consensus

Probab=96.13  E-value=0.0008  Score=48.77  Aligned_cols=42  Identities=26%  Similarity=0.631  Sum_probs=35.8

Q ss_pred             CCccccccCcccccCCcccccCCCeEEEeCCeeecccchhcccc
Q psy12215          2 LDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG   45 (155)
Q Consensus         2 ~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~   45 (155)
                      +++.||..||+|..|+-+|+.  ..|-..+.++||...|.+..+
T Consensus        23 ldk~whk~cfkce~c~mtlnm--KnyKgy~kkpycn~hYpkq~a   64 (264)
T KOG1702|consen   23 LDKVWHKQCFKCEVCGMTLNM--KNYKGYDKKPYCNPHYPKQVA   64 (264)
T ss_pred             HHHHHHHHhheeeeccCChhh--hhccccccCCCcCccccccee
Confidence            468899999999999999964  457788999999999987654

>KOG0490|consensus

Probab=93.48  E-value=0.027  Score=41.55  Aligned_cols=66  Identities=27%  Similarity=0.673  Sum_probs=48.2

Q ss_pred             cccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHh--hhcccCCCeeeecCCee
Q psy12215         53 CTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE--RQVFCVGDRFYLCDNKI  123 (155)
Q Consensus        53 C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~--~~~~~~~~~c~~c~~~i  123 (155)
                      |+..|.+ ...+.+.+..||..|..|..|...+......+..+|.++|...|.+  .+    ..+|..|...+
T Consensus         2 ~~~~~~~-~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~d~~~~~~~----~~rr~rt~~~~   69 (235)
T KOG0490|consen    2 CGRQILD-RYLLRVLDRYWHASCLKCAECDNPLGVGDTCFSKDGSIYCKRDYQREFKF----SKRCARCKFTI   69 (235)
T ss_pred             CCccccc-hHHhhcccHHHHHHHHhhhhhcchhccCCCcccCCCcccccccchhhhhc----cccccCCCCCc
Confidence            4556654 3445566899999999999999999433444444999999999987  44    66777766654

>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=87.80  E-value=0.39  Score=25.87  Aligned_cols=22  Identities=27%  Similarity=0.531  Sum_probs=16.4

Q ss_pred             ccccCCcccccCCCeEEEeCCeeecccc
Q psy12215         12 KCGCCDCRLGEVGSTLYQKANLILCKRD   39 (155)
Q Consensus        12 ~C~~C~~~l~~~~~~~~~~~~~~~C~~c   39 (155)
                      .|..|+.||      +-.++|++||..|
T Consensus        19 ~Cp~C~~PL------~~~k~g~~~Cv~C   40 (41)
T PF06677_consen   19 HCPDCGTPL------MRDKDGKIYCVSC   40 (41)
T ss_pred             ccCCCCCee------EEecCCCEECCCC
Confidence            577788888      3467888988765

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

>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=86.75  E-value=0.49  Score=24.72  Aligned_cols=24  Identities=25%  Similarity=0.580  Sum_probs=18.1

Q ss_pred             ccccCCcccccCCCeEEEeCCeeecccchh
Q psy12215         12 KCGCCDCRLGEVGSTLYQKANLILCKRDYL   41 (155)
Q Consensus        12 ~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~   41 (155)
                      .|..|+..      .|...||..||..|..
T Consensus        10 ~C~~C~~~------~~~~~dG~~yC~~cG~   33 (36)
T PF11781_consen   10 PCPVCGSR------WFYSDDGFYYCDRCGH   33 (36)
T ss_pred             cCCCCCCe------EeEccCCEEEhhhCce
Confidence            47777554      4789999999987754

>smart00504 Ubox Modified RING finger domain

Probab=86.70  E-value=0.43  Score=27.59  Aligned_cols=46  Identities=7%  Similarity=0.046  Sum_probs=35.0

Q ss_pred             cccccCCcccccCCCeEEEeCCeeecccchhcccccccccccccccccc
Q psy12215         11 LKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPA   59 (155)
Q Consensus        11 f~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~C~~~I~~   59 (155)
                      |.|..|+..+.+   ......|..||++|..+.+...+.|..|++++..
T Consensus         2 ~~Cpi~~~~~~~---Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~   47 (63)
T smart00504        2 FLCPISLEVMKD---PVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTH   47 (63)
T ss_pred             cCCcCCCCcCCC---CEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence            678899998853   4667889999999988765434479888888854

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

>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=86.40  E-value=0.42  Score=25.15  Aligned_cols=24  Identities=29%  Similarity=0.563  Sum_probs=15.6

Q ss_pred             ccccccccccCceEEeccCccccc
Q psy12215         50 CAACTKVIPAFEMVMRAKNNVYHL   73 (155)
Q Consensus        50 C~~C~~~I~~~~~~~~~~~~~~H~   73 (155)
                      |.-|+.+|.+.-.++...++.|+.
T Consensus         1 Cd~CG~~I~~eP~~~k~~~~~y~f   24 (37)
T PF08394_consen    1 CDYCGGEITGEPIVVKIGNKVYYF   24 (37)
T ss_pred             CCccCCcccCCEEEEEECCeEEEE
Confidence            566777777644455666777763

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

>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length

Probab=84.44  E-value=2.1  Score=25.82  Aligned_cols=58  Identities=19%  Similarity=0.450  Sum_probs=30.4

Q ss_pred             ccccCCcccccCCCeEEEeCCeeecccchhccccccccccccccccccCceEEeccCccccccccccccCCccc
Q psy12215         12 KCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRF   85 (155)
Q Consensus        12 ~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l   85 (155)
                      .|..|..+|..       .++..+|..|...... ...|+.|++++    .++.+-|..=    |.|..|+..+
T Consensus         3 ~CP~C~~~L~~-------~~~~~~C~~C~~~~~~-~a~CPdC~~~L----e~LkACGAvd----YFC~~c~gLi   60 (70)
T PF07191_consen    3 TCPKCQQELEW-------QGGHYHCEACQKDYKK-EAFCPDCGQPL----EVLKACGAVD----YFCNHCHGLI   60 (70)
T ss_dssp             B-SSS-SBEEE-------ETTEEEETTT--EEEE-EEE-TTT-SB-----EEEEETTEEE----EE-TTTT-EE
T ss_pred             cCCCCCCccEE-------eCCEEECcccccccee-cccCCCcccHH----HHHHHhcccc----eeeccCCcee
Confidence            57788888843       3367788887765321 22799999999    3445555321    4677777766

Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.

>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length

Probab=83.39  E-value=1  Score=25.84  Aligned_cols=46  Identities=17%  Similarity=0.410  Sum_probs=32.6

Q ss_pred             ccccCCcccccCC-CeEEEeCCeeecccchhcccccccccccccccccc
Q psy12215         12 KCGCCDCRLGEVG-STLYQKANLILCKRDYLRLFGTTGYCAACTKVIPA   59 (155)
Q Consensus        12 ~C~~C~~~l~~~~-~~~~~~~~~~~C~~c~~~~~~~~~~C~~C~~~I~~   59 (155)
                      .|..|++.|...+ ..++-.-.=.||.+|....+..  +|..|+..+..
T Consensus         7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~~--~CPNCgGelv~   53 (57)
T PF06906_consen    7 NCECCDKDLPPDSPEAYICSFECTFCADCAETMLNG--VCPNCGGELVR   53 (57)
T ss_pred             CccccCCCCCCCCCcceEEeEeCcccHHHHHHHhcC--cCcCCCCcccc
Confidence            3667888887433 3455444557899999988655  89999887753

This family contains a number of conserved cysteine residues and its function is unknown.

>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]

Probab=83.38  E-value=0.78  Score=31.18  Aligned_cols=23  Identities=22%  Similarity=0.427  Sum_probs=18.0

Q ss_pred             ccccCCcccccCCCeEEEeCCeeecccchh
Q psy12215         12 KCGCCDCRLGEVGSTLYQKANLILCKRDYL   41 (155)
Q Consensus        12 ~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~   41 (155)
                      .|..|+.||      |- ++|.+||.-|-.
T Consensus        30 hCp~Cg~PL------F~-KdG~v~CPvC~~   52 (131)
T COG1645          30 HCPKCGTPL------FR-KDGEVFCPVCGY   52 (131)
T ss_pred             hCcccCCcc------ee-eCCeEECCCCCc
Confidence            478889988      44 999999877654

>KOG1813|consensus

Probab=83.27  E-value=1.2  Score=34.41  Aligned_cols=50  Identities=18%  Similarity=0.382  Sum_probs=38.6

Q ss_pred             cccccCCcccccCCeEEeeCCeeecHHhHHhhhcccCCCeeeecCCeecchhhH
Q psy12215         76 FACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCDNKILCEYDY  129 (155)
Q Consensus        76 f~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~c~~c~~~i~c~~~~  129 (155)
                      |.|..|.+.+  -......-+..+|..|..+.+  ..++.|++|++.+......
T Consensus       242 f~c~icr~~f--~~pVvt~c~h~fc~~ca~~~~--qk~~~c~vC~~~t~g~~~~  291 (313)
T KOG1813|consen  242 FKCFICRKYF--YRPVVTKCGHYFCEVCALKPY--QKGEKCYVCSQQTHGSFNV  291 (313)
T ss_pred             cccccccccc--ccchhhcCCceeehhhhcccc--ccCCcceecccccccccch
Confidence            7788888888  445556668899999987765  5689999999988755544

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

Probab=82.36  E-value=1.5  Score=26.07  Aligned_cols=47  Identities=21%  Similarity=0.358  Sum_probs=23.4

Q ss_pred             cccccCCcccccCCCeEEEeCCeeecccchhccccccccccccccccccCc
Q psy12215         11 LKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFE   61 (155)
Q Consensus        11 f~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~   61 (155)
                      ++|+.|..-|.+.  .....=..+||..|....++.  .|+.|..+.+..|
T Consensus         8 LrCs~C~~~l~~p--v~l~~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~qD   54 (65)
T PF14835_consen    8 LRCSICFDILKEP--VCLGGCEHIFCSSCIRDCIGS--ECPVCHTPAWIQD   54 (65)
T ss_dssp             TS-SSS-S--SS---B---SSS--B-TTTGGGGTTT--B-SSS--B-S-SS
T ss_pred             cCCcHHHHHhcCC--ceeccCccHHHHHHhHHhcCC--CCCCcCChHHHHH
Confidence            6789998888532  223445578999999888887  7999999886533

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=82.32  E-value=0.72  Score=26.39  Aligned_cols=28  Identities=21%  Similarity=0.529  Sum_probs=19.7

Q ss_pred             cccccccccccCceEEec--cCcccccccc
Q psy12215         49 YCAACTKVIPAFEMVMRA--KNNVYHLECF   76 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~--~~~~~H~~Cf   76 (155)
                      +|..|++.|.+.+.++.-  -+..||.+|+
T Consensus         7 ~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~   36 (54)
T PF14446_consen    7 KCPVCGKKFKDGDDIVVCPECGAPYHRDCW   36 (54)
T ss_pred             cChhhCCcccCCCCEEECCCCCCcccHHHH
Confidence            799999999644445442  3677888887

>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]

Probab=82.18  E-value=0.88  Score=33.15  Aligned_cols=48  Identities=15%  Similarity=0.335  Sum_probs=38.2

Q ss_pred             cccccCCcccccCCeEEeeCCeeecHHhHHhhhcccCCCeeeecCCeecchh
Q psy12215         76 FACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCDNKILCEY  127 (155)
Q Consensus        76 f~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~c~~c~~~i~c~~  127 (155)
                      |.|..|.+..  ....+..-|..||..|+.+.+  ..|+.|.+|+....+..
T Consensus       197 F~C~iCKkdy--~spvvt~CGH~FC~~Cai~~y--~kg~~C~~Cgk~t~G~f  244 (259)
T COG5152         197 FLCGICKKDY--ESPVVTECGHSFCSLCAIRKY--QKGDECGVCGKATYGRF  244 (259)
T ss_pred             eeehhchhhc--cchhhhhcchhHHHHHHHHHh--ccCCcceecchhhccce
Confidence            7899999887  444555568999999998876  66999999998776544

>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=81.18  E-value=1.2  Score=28.63  Aligned_cols=28  Identities=25%  Similarity=0.502  Sum_probs=16.9

Q ss_pred             cccccccccccCceEEeccCcccccccc
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      .|..|+++|.....++-..|..+|..|+
T Consensus        80 ~C~vC~k~l~~~~f~~~p~~~v~H~~C~  107 (109)
T PF10367_consen   80 KCSVCGKPLGNSVFVVFPCGHVVHYSCI  107 (109)
T ss_pred             CccCcCCcCCCceEEEeCCCeEEecccc
Confidence            5777777776533334444566676664

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 [].

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=81.11  E-value=1.9  Score=23.25  Aligned_cols=41  Identities=20%  Similarity=0.425  Sum_probs=25.3

Q ss_pred             cccCCcccccCCeEEeeC-CeeecHHhHHhhhcccCCCeeeecC
Q psy12215         78 CQQCNHRFCVGDRFYLCD-NKILCEYDYEERQVFCVGDRFYLCD  120 (155)
Q Consensus        78 C~~C~~~l~~~~~~~~~~-~~~~C~~c~~~~~~~~~~~~c~~c~  120 (155)
                      |..|...+.....+.+.. |.++|..|..+..  .....|.+|.
T Consensus         2 C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~--~~~~~CP~C~   43 (44)
T PF14634_consen    2 CNICFEKYSEERRPRLTSCGHIFCEKCLKKLK--GKSVKCPICR   43 (44)
T ss_pred             CcCcCccccCCCCeEEcccCCHHHHHHHHhhc--CCCCCCcCCC
Confidence            455666663344455555 8899999987764  3445555554

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

Probab=80.14  E-value=1  Score=26.72  Aligned_cols=43  Identities=16%  Similarity=0.390  Sum_probs=19.5

Q ss_pred             cccccCCcccccCCeEEeeC-CeeecHHhHHhhhcccCCCeeeecCCeec
Q psy12215         76 FACQQCNHRFCVGDRFYLCD-NKILCEYDYEERQVFCVGDRFYLCDNKIL  124 (155)
Q Consensus        76 f~C~~C~~~l~~~~~~~~~~-~~~~C~~c~~~~~~~~~~~~c~~c~~~i~  124 (155)
                      .+|+.|...|  .+.+...+ +.+||..|-.+..    |..|..|..|-.
T Consensus         8 LrCs~C~~~l--~~pv~l~~CeH~fCs~Ci~~~~----~~~CPvC~~Paw   51 (65)
T PF14835_consen    8 LRCSICFDIL--KEPVCLGGCEHIFCSSCIRDCI----GSECPVCHTPAW   51 (65)
T ss_dssp             TS-SSS-S----SS-B---SSS--B-TTTGGGGT----TTB-SSS--B-S
T ss_pred             cCCcHHHHHh--cCCceeccCccHHHHHHhHHhc----CCCCCCcCChHH
Confidence            5677777776  44443333 6788888887766    777888876654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	155
2xjy_A	131	Crystal Structure Of The Lmo2:ldb1-Lid Complex, P21		3e-31
2dfy_X	195	Crystal Structure Of A Cyclized Protein Fusion Of L		1e-30
1rut_X	188	Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 L		1e-30
3mmk_A	169	The Structural Basis For Partial Redundancy In A Cl		8e-18
2rgt_A	169	Crystal Structure Of Lhx3 Lim Domains 1 And 2 With		1e-17
2jtn_A	182	Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Compl		1e-17
2lxd_A	125	Backbone 1h, 13c, And 15n Chemical Shift Assignment		1e-16
2l6y_B	96	Haddock Model Of Gata1nf:lmo2lim2-Ldb1lid Length =		2e-16
2l4z_A	123	Nmr Structure Of Fusion Of Ctip (641-685) To Lmo4-L		2e-10
1j2o_A	114	Structure Of Flin2, A Complex Containing The N-Term		4e-10
1m3v_A	122	Flin4: Fusion Of The Lim Binding Domain Of Ldb1 And		1e-09
1x3h_A	80	Solution Structure Of The Lim Domain Of Human Leupa		4e-05

>pdb|2XJY|A Chain A, Crystal Structure Of The Lmo2:ldb1-Lid Complex, P21 Crystal Form Length = 131

Iteration: 1
 Score =  130 bits (327), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 63/106 (59%), Positives = 73/106 (68%)
Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           A+D +WHEDCL C  C CRLGEVG  LY K    LC+RDYLRLFG  G CA+C K I A+
Sbjct: 20  AIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIRAY 79
Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE 106
           EM MR K+ VYHLECF C  C   FCVGDR+ L ++ I+CE D  E
Sbjct: 80  EMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIYE 125

>pdb|2DFY|X Chain X, Crystal Structure Of A Cyclized Protein Fusion Of Lmo4 Lim Domains 1 And 2 With The Lim Interacting Domain Of Ldb1 Length = 195

Iteration: 1
 Score =  128 bits (322), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 52/103 (50%), Positives = 74/103 (71%)
Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           A+D +WH  CLKC  C  +LG++G++ Y K+ +ILC+ DY+RLFG +G C+AC + IPA 
Sbjct: 21  AMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPAS 80
Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 103
           E+VMRA+ NVYHL+CF C  C +R   GDRF+  +  + CE+D
Sbjct: 81  ELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHD 123

>pdb|1RUT|X Chain X, Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 Lid Domain Length = 188

Iteration: 1
 Score =  128 bits (321), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 52/103 (50%), Positives = 74/103 (71%)
Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           A+D +WH  CLKC  C  +LG++G++ Y K+ +ILC+ DY+RLFG +G C+AC + IPA 
Sbjct: 23  AMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPAS 82
Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 103
           E+VMRA+ NVYHL+CF C  C +R   GDRF+  +  + CE+D
Sbjct: 83  ELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHD 125

>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 = 85.9 bits (211), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 44/105 (41%), Positives = 64/105 (60%), Gaps = 6/105 (5%)
Query: 2   LDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFE 61
           LD  WH  CLKC   DC++ ++    + +A  + CK D+ + FGT   C AC + IP  +
Sbjct: 25  LDRHWHSSCLKCA--DCQM-QLADRCFSRAGSVYCKEDFFKRFGTK--CTACQQGIPPTQ 79
Query: 62  MVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEYDYE 105
           +V +A++ VYHL CFAC  CN +   GD FYL  D +++C+ DYE
Sbjct: 80  VVRKAQDFVYHLHCFACIICNRQLATGDEFYLMEDGRLVCKEDYE 124

>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 = 85.5 bits (210), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 46/106 (43%), Positives = 61/106 (57%), Gaps = 6/106 (5%)
Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           ALD  WH  CLKC  C   L E     + +   + CK D+ + FGT   CAAC   IP  
Sbjct: 24  ALDRHWHSKCLKCSDCHVPLAE---RCFSRGESVYCKDDFFKRFGTK--CAACQLGIPPT 78
Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEYDYE 105
           ++V RA++ VYHL CFAC  C  +   GD FYL  D++++C+ DYE
Sbjct: 79  QVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYE 124

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

Iteration: 1
 Score = 85.1 bits (209), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 46/106 (43%), Positives = 61/106 (57%), Gaps = 6/106 (5%)
Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           ALD  WH  CLKC  C   L E     + +   + CK D+ + FGT   CAAC   IP  
Sbjct: 78  ALDRHWHSKCLKCSDCHVPLAE---RCFSRGESVYCKDDFFKRFGTK--CAACQLGIPPT 132
Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEYDYE 105
           ++V RA++ VYHL CFAC  C  +   GD FYL  D++++C+ DYE
Sbjct: 133 QVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYE 178

>pdb|2LXD|A Chain A, Backbone 1h, 13c, And 15n Chemical Shift Assignments For Lmo2(Lim2)- Ldb1(Lid) Length = 125

Iteration: 1
 Score = 82.0 bits (201), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 38/67 (56%), Positives = 45/67 (67%)
Query: 40  YLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKIL 99
           YLRLFG  G CA+C K I A+EM MR K+ VYHLECF C  C   F VGDR+ L ++ I+
Sbjct: 3   YLRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDRYLLINSDIV 62
Query: 100 CEYDYEE 106
           CE D  E
Sbjct: 63  CEQDIYE 69

>pdb|2L6Y|B Chain B, Haddock Model Of Gata1nf:lmo2lim2-Ldb1lid Length = 96

Iteration: 1
 Score = 81.3 bits (199), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 38/67 (56%), Positives = 45/67 (67%)
Query: 40  YLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKIL 99
           YLRLFG  G CA+C K I A+EM MR K+ VYHLECF C  C   F VGDR+ L ++ I+
Sbjct: 1   YLRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDRYLLINSDIV 60
Query: 100 CEYDYEE 106
           CE D  E
Sbjct: 61  CEQDIYE 67

>pdb|2L4Z|A Chain A, Nmr Structure Of Fusion Of Ctip (641-685) To Lmo4-Lim1 (18-82) Length = 123

Iteration: 1
 Score = 61.6 bits (148), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 23/45 (51%), Positives = 34/45 (75%)
Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 45
           A+D +WH  CLKC  C  +LG++G++ Y K+ +ILC+ DY+RLFG
Sbjct: 79  AMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG 123

>pdb|1J2O|A Chain A, Structure Of Flin2, A Complex Containing The N-Terminal Lim Domain Of Lmo2 And Ldb1-Lid Length = 114

Iteration: 1
 Score = 60.1 bits (144), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 28/43 (65%), Positives = 31/43 (72%)
Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 43
          A+D +WHEDCL C  C CRLGEVG  LY K    LC+RDYLRL
Sbjct: 21 AIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRL 63

>pdb|1M3V|A Chain A, Flin4: Fusion Of The Lim Binding Domain Of Ldb1 And The N- Terminal Lim Domain Of Lmo4 Length = 122

Iteration: 1
 Score = 58.9 bits (141), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 22/44 (50%), Positives = 33/44 (75%)
Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLF 44
          A+D +WH  CLKC  C  +LG++G++ Y K+ +ILC+ DY+RLF
Sbjct: 23 AMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLF 66

>pdb|1X3H|A Chain A, Solution Structure Of The Lim Domain Of Human Leupaxin Length = 80

Iteration: 1
 Score = 43.9 bits (102), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 33/71 (46%), Gaps = 5/71 (7%)
Query: 38  RDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNK 97
           +D+L +F     C  C +  P  E  + A + V+H ECF C  C   F  G  F L D +
Sbjct: 8   KDFLAMFSPK--CGGCNR--PVLENYLSAMDTVWHPECFVCGDCFTSFSTGSFFEL-DGR 62
Query: 98  ILCEYDYEERQ 108
             CE  Y  R+
Sbjct: 63  PFCELHYHHRR 73

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	155
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	4e-41
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	6e-09
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	4e-38
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	2e-08
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	3e-35
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	1e-08
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	1e-32
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	4e-09
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	3e-07
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	3e-26
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	2e-05
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	2e-21
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	6e-07
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	1e-20
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	6e-08
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	1e-18
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	4e-06
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	1e-18
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	1e-09
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	3e-15
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	4e-14
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	7e-14
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	6e-08
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	9e-14
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	1e-04
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	7e-12
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	1e-04
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	8e-12
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	6e-04
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	2e-11
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	8e-04
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	1e-10
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	2e-04
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	1e-10
2cuq_A	80	Four and A half LIM domains 3; structural genomics	4e-10
2cuq_A	80	Four and A half LIM domains 3; structural genomics	5e-04
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	5e-10
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	7e-05
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	8e-10
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	1e-09
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	3e-04
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	4e-09
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	3e-04
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	6e-09
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	2e-06
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	9e-09
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	6e-04
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	1e-08
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	6e-05
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	5e-08
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	8e-05
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	5e-08
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	2e-04
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	5e-08
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	4e-04
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	1e-07
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	1e-04
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	2e-07
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	8e-04
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	1e-06
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	4e-06
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	5e-06
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	5e-06
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	4e-05
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	7e-06
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	9e-06
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	2e-04
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	3e-04
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	2e-05
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	3e-05
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	5e-05
2cor_A	79	Pinch protein; LIM domain, particularly interestin	2e-04
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	5e-04
2co8_A	82	NEDD9 interacting protein with calponin homology a	5e-04

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

 Score =  133 bits (336), Expect = 4e-41
 Identities = 63/106 (59%), Positives = 73/106 (68%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           A+D +WHEDCL C  C CRLGEVG  LY K    LC+RDYLRLFG  G CA+C K I A+
Sbjct: 20  AIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIRAY 79

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE 106
           EM MR K+ VYHLECF C  C   FCVGDR+ L ++ I+CE D  E
Sbjct: 80  EMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIYE 125

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

 Score = 50.5 bits (121), Expect = 6e-09
 Identities = 29/122 (23%), Positives = 42/122 (34%), Gaps = 41/122 (33%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFC-VGDRFYLCDNKILCEYDYEER- 107
           C  C + I      ++A +  +H +C +C  C  R   VG R Y    + LC  DY    
Sbjct: 5   CGGCQQNIGD-RYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLF 63

Query: 108 --------------------------------------QVFCVGDRFYLCDNKILCEYDY 129
                                                 + FCVGDR+ L ++ I+CE D 
Sbjct: 64  GQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDI 123

Query: 130 EE 131
            E
Sbjct: 124 YE 125

>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 =  127 bits (320), Expect = 4e-38
 Identities = 52/107 (48%), Positives = 74/107 (69%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           A+D +WH  CLKC  C  +LG++G++ Y K+ +ILC+ DY+RLFG +G C+AC + IPA 
Sbjct: 23  AMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPAS 82

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER 107
           E+VMRA+ NVYHL+CF C  C +R   GDRF+  +  + CE+D    
Sbjct: 83  ELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTA 129

>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 = 50.0 bits (119), Expect = 2e-08
 Identities = 25/135 (18%), Positives = 39/135 (28%), Gaps = 41/135 (30%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFC-VGDRFYLCDNKILCEYDYEE-- 106
           CA C   I     ++ A ++ +H  C  C  C  +   +G   Y     ILC  DY    
Sbjct: 8   CAGCGGKIAD-RFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLF 66

Query: 107 -------------------------------------RQVFCVGDRFYLCDNKILCEYDY 129
                                                R     GDRF+  +  + CE+D 
Sbjct: 67  GNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDR 126

Query: 130 EERQVFANIAYNPSS 144
               +  ++    S 
Sbjct: 127 PTALINGHLNSGGSG 141

>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 =  120 bits (301), Expect = 3e-35
 Identities = 46/108 (42%), Positives = 61/108 (56%), Gaps = 6/108 (5%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           ALD  WH  CLKC  C   L E     + +   + CK D+ + FGT   CAAC   IP  
Sbjct: 78  ALDRHWHSKCLKCSDCHVPLAE---RCFSRGESVYCKDDFFKRFGTK--CAACQLGIPPT 132

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEYDYEER 107
           ++V RA++ VYHL CFAC  C  +   GD FYL  D++++C+ DYE  
Sbjct: 133 QVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETA 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 = 50.7 bits (121), Expect = 1e-08
 Identities = 23/156 (14%), Positives = 48/156 (30%), Gaps = 43/156 (27%)

Query: 15  CCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLE 74
             +    +  + +  +                   CA C + I     +++A +  +H +
Sbjct: 30  RLENTQFDAANGIDDEGGSGGHMGSGGTPEIPM--CAGCDQHILD-RFILKALDRHWHSK 86

Query: 75  CFACQQCNHRFCVGDRFYLCDNKILCEYDYEER--------------------------- 107
           C  C  C+      +R +     + C+ D+ +R                           
Sbjct: 87  CLKCSDCHVPL--AERCFSRGESVYCKDDFFKRFGTKCAACQLGIPPTQVVRRAQDFVYH 144

Query: 108 ----------QVFCVGDRFYLC-DNKILCEYDYEER 132
                     +    GD FYL  D++++C+ DYE  
Sbjct: 145 LHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETA 180

>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 =  113 bits (283), Expect = 1e-32
 Identities = 46/108 (42%), Positives = 61/108 (56%), Gaps = 6/108 (5%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           ALD  WH  CLKC  C   L E     + +   + CK D+ + FGT   CAAC   IP  
Sbjct: 24  ALDRHWHSKCLKCSDCHVPLAE---RCFSRGESVYCKDDFFKRFGTK--CAACQLGIPPT 78

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEYDYEER 107
           ++V RA++ VYHL CFAC  C  +   GD FYL  D++++C+ DYE  
Sbjct: 79  QVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETA 126

>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 = 51.8 bits (124), Expect = 4e-09
 Identities = 14/84 (16%), Positives = 22/84 (26%), Gaps = 4/84 (4%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           A D  +H  C  C  C  +L         + + ++CK DY                    
Sbjct: 84  AQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAKQGG--SGGSGGSGG-- 139

Query: 61  EMVMRAKNNVYHLECFACQQCNHR 84
              M A +   H           +
Sbjct: 140 GTPMVAASPERHDGGLQANPVEVQ 163

>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 = 46.4 bits (110), Expect = 3e-07
 Identities = 23/121 (19%), Positives = 43/121 (35%), Gaps = 41/121 (33%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER-- 107
           CA C + I     +++A +  +H +C  C  C+      +R +     + C+ D+ +R  
Sbjct: 9   CAGCDQHILD-RFILKALDRHWHSKCLKCSDCHVPL--AERCFSRGESVYCKDDFFKRFG 65

Query: 108 -----------------------------------QVFCVGDRFYLC-DNKILCEYDYEE 131
                                              +    GD FYL  D++++C+ DYE 
Sbjct: 66  TKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYET 125

Query: 132 R 132
            
Sbjct: 126 A 126

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

 Score = 82.8 bits (205), Expect = 2e-21
 Identities = 25/109 (22%), Positives = 40/109 (36%), Gaps = 7/109 (6%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           A +  WH     C  CD  L   G       +  +CK  Y++       C  C   I   
Sbjct: 21  AENQNWHLKHFCCFDCDSILA--GEIYVMVNDKPVCKPCYVKNHAV--VCQGCHNAIDPE 76

Query: 61  EMVMRAKNNVYHL--ECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER 107
              +   N  +H   ECF C  C+    +G +F   +  + C  + ++R
Sbjct: 77  VQRVTYNNFSWHASTECFLCSCCSKCL-IGQKFMPVEGMVFCSVECKKR 124

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

 Score = 44.7 bits (106), Expect = 6e-07
 Identities = 15/58 (25%), Positives = 31/58 (53%), Gaps = 2/58 (3%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER 107
           CA C ++I +     +A+N  +HL+ F C  C+     G+ + + ++K +C+  Y + 
Sbjct: 6   CAGCDELIFS-NEYTQAENQNWHLKHFCCFDCDSIL-AGEIYVMVNDKPVCKPCYVKN 61

>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 = 80.1 bits (198), Expect = 1e-20
 Identities = 24/81 (29%), Positives = 33/81 (40%), Gaps = 4/81 (4%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
             + FWH+ C +C  C   L     T   K N ILC +   R       C  C K I A 
Sbjct: 24  YKNRFWHDTCFRCAKCLHPLA--NETFVAKDNKILCNKCTTREDSPK--CKGCFKAIVAG 79

Query: 61  EMVMRAKNNVYHLECFACQQC 81
           +  +  K  V+H +CF+    
Sbjct: 80  DQNVEYKGTVWHKDCFSGPSS 100

>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 = 47.0 bits (112), Expect = 6e-08
 Identities = 20/58 (34%), Positives = 24/58 (41%), Gaps = 1/58 (1%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER 107
           C  C K I A    +  KN  +H  CF C +C H     + F   DNKILC       
Sbjct: 8   CVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPL-ANETFVAKDNKILCNKCTTRE 64

>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 = 75.1 bits (184), Expect = 1e-18
 Identities = 35/85 (41%), Positives = 45/85 (52%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           A+D +WHEDCL C  C CRLGEVG  LY K    LC+RDYLRL G+ G+  +   V+   
Sbjct: 21  AIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGGSGGHMGSGGDVMVVG 80

Query: 61  EMVMRAKNNVYHLECFACQQCNHRF 85
           E  +         E    +  N +F
Sbjct: 81  EPTLMGGEFGDEDERLITRLENTQF 105

>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 = 42.7 bits (100), Expect = 4e-06
 Identities = 21/105 (20%), Positives = 36/105 (34%), Gaps = 19/105 (18%)

Query: 45  GTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFC-VGDRFYLCDNKILCEYD 103
           G+   C  C + I      ++A +  +H +C +C  C  R   VG R Y    + LC  D
Sbjct: 1   GSLLTCGGCQQNIGD-RYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRD 59

Query: 104 YEERQVFC-----------------VGDRFYLCDNKILCEYDYEE 131
           Y                        +G  F   D +++   +  +
Sbjct: 60  YLRLGGSGGHMGSGGDVMVVGEPTLMGGEFGDEDERLITRLENTQ 104

>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 = 75.4 bits (185), Expect = 1e-18
 Identities = 27/106 (25%), Positives = 51/106 (48%), Gaps = 16/106 (15%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
           A+D +WH  CLKC  C  +LG++G++ Y K+ +ILC+ DY+RLFG +G   +   +    
Sbjct: 23  AMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAGGSGGHMGSGG 82

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE 106
           ++++                      +G  F   D +++   +  +
Sbjct: 83  DVMV----------------VGEPTLMGGEFGDEDERLITRLENTQ 112

>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 = 52.3 bits (125), Expect = 1e-09
 Identities = 19/106 (17%), Positives = 33/106 (31%), Gaps = 25/106 (23%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFC-VGDRFYLCDNKILCEYDYEER- 107
           CA C   I     ++ A ++ +H  C  C  C  +   +G   Y     ILC  DY    
Sbjct: 8   CAGCGGKIAD-RFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLF 66

Query: 108 ----------------------QVFCVGDRFYLCDNKILCEYDYEE 131
                                 +   +G  F   D +++   +  +
Sbjct: 67  GNSGAGGSGGHMGSGGDVMVVGEPTLMGGEFGDEDERLITRLENTQ 112

>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 = 65.6 bits (160), Expect = 3e-15
 Identities = 21/77 (27%), Positives = 30/77 (38%), Gaps = 5/77 (6%)

Query: 32  NLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRF 91
           +     +DY   FG    C  C+ ++      M A    YH ECFAC  C      GD +
Sbjct: 2   SSGSSGKDYWGKFGEF--CHGCSLLMT--GPFMVAGEFKYHPECFACMSCKVIIEDGDAY 57

Query: 92  YLCDN-KILCEYDYEER 107
            L  +  + C   + E 
Sbjct: 58  ALVQHATLYCGKCHNEV 74

>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 = 62.5 bits (152), Expect = 4e-14
 Identities = 22/68 (32%), Positives = 30/68 (44%), Gaps = 4/68 (5%)

Query: 39  DYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKI 98
           DY RL+GT   C +C + I     V+ A    YH +CF C  C   F  GDR      + 
Sbjct: 9   DYQRLYGTR--CFSCDQFIE--GEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKEC 64

Query: 99  LCEYDYEE 106
           +C+     
Sbjct: 65  MCQKCSLP 72

>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 = 63.2 bits (153), Expect = 7e-14
 Identities = 23/45 (51%), Positives = 34/45 (75%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 45
           A+D +WH  CLKC  C  +LG++G++ Y K+ +ILC+ DY+RLFG
Sbjct: 79  AMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG 123

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

 Score = 47.4 bits (112), Expect = 6e-08
 Identities = 16/59 (27%), Positives = 23/59 (38%), Gaps = 2/59 (3%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFC-VGDRFYLCDNKILCEYDYEER 107
           CA C   I     ++ A ++ +H  C  C  C  +   +G   Y     ILC  DY   
Sbjct: 64  CAGCGGKIAD-RFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 121

>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 = 61.7 bits (150), Expect = 9e-14
 Identities = 15/68 (22%), Positives = 25/68 (36%), Gaps = 1/68 (1%)

Query: 46  TTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYE 105
            +  C  C + +      + A + V+H+ CF C  C  +   G  FY  + +  CE  Y 
Sbjct: 4   GSSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLR-GQHFYAVERRAYCEGCYV 62

Query: 106 ERQVFCVG 113
                   
Sbjct: 63  ATLESGPS 70

>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 = 37.4 bits (87), Expect = 1e-04
 Identities = 12/51 (23%), Positives = 17/51 (33%), Gaps = 2/51 (3%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCA 51
          ALD  +H  C  C  C  +L   G   Y       C+  Y+    +     
Sbjct: 24 ALDRVFHVGCFVCSTCRAQLR--GQHFYAVERRAYCEGCYVATLESGPSSG 72

>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 = 57.0 bits (138), Expect = 7e-12
 Identities = 16/72 (22%), Positives = 24/72 (33%), Gaps = 3/72 (4%)

Query: 36  CKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCD 95
             +   R       C  C K I A +  +  K  V+H +CF C  C         F+   
Sbjct: 6   SGKCTTREDSPK--CKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVI-GTGSFFPKG 62

Query: 96  NKILCEYDYEER 107
               C   +E +
Sbjct: 63  EDFYCVTCHETK 74

>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 = 37.7 bits (88), Expect = 1e-04
 Identities = 10/52 (19%), Positives = 18/52 (34%), Gaps = 4/52 (7%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA 52
               WH+DC  C  C   +G    + + K     C   +   F +    ++
Sbjct: 34 YKGTVWHKDCFTCSNCKQVIG--TGSFFPKGEDFYCVTCHETKFASG--PSS 81

>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 = 56.6 bits (137), Expect = 8e-12
 Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 1/60 (1%)

Query: 47  TGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE 106
           +  C  C       E ++ +   +YH +CF C QC  +F     FY  + +  CE+D++ 
Sbjct: 11  SATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFP-EGLFYEFEGRKYCEHDFQM 69

>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 = 35.8 bits (83), Expect = 6e-04
 Identities = 10/45 (22%), Positives = 16/45 (35%), Gaps = 2/45 (4%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 45
          +    +HE C  C  C  +        Y+      C+ D+  LF 
Sbjct: 30 SNGELYHEQCFVCAQCFQQFP--EGLFYEFEGRKYCEHDFQMLFA 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 = 55.5 bits (134), Expect = 2e-11
 Identities = 17/72 (23%), Positives = 31/72 (43%), Gaps = 3/72 (4%)

Query: 35  LCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC 94
           + +     L   +  C  C       E ++ +   +YH +CF C QC  +F     FY  
Sbjct: 1   ISEFMANALA--SATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQF-PEGLFYEF 57

Query: 95  DNKILCEYDYEE 106
           + +  CE+D++ 
Sbjct: 58  EGRKYCEHDFQM 69

>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 = 35.5 bits (82), Expect = 8e-04
 Identities = 10/45 (22%), Positives = 16/45 (35%), Gaps = 2/45 (4%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 45
          +    +HE C  C  C  +        Y+      C+ D+  LF 
Sbjct: 30 SNGELYHEQCFVCAQCFQQFP--EGLFYEFEGRKYCEHDFQMLFA 72

>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 = 53.6 bits (129), Expect = 1e-10
 Identities = 17/58 (29%), Positives = 23/58 (39%), Gaps = 1/58 (1%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER 107
           C  C K I      M  K + +H  CF C +C         F   DN+  C   YE++
Sbjct: 8   CQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPI-GTKSFIPKDNQNFCVPCYEKQ 64

>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 = 37.0 bits (86), Expect = 2e-04
 Identities = 11/52 (21%), Positives = 17/52 (32%), Gaps = 4/52 (7%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA 52
               WHE C  C  C   +G    +   K N   C   Y +   +    ++
Sbjct: 24 YKGSSWHETCFICHRCQQPIG--TKSFIPKDNQNFCVPCYEKQHASG--PSS 71

>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 = 53.5 bits (129), Expect = 1e-10
 Identities = 21/72 (29%), Positives = 31/72 (43%), Gaps = 5/72 (6%)

Query: 36  CKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCD 95
             +D+L +F     C  C + +   E  + A + V+H ECF C  C   F     F+  D
Sbjct: 6   SGKDFLAMFSPK--CGGCNRPV--LENYLSAMDTVWHPECFVCGDCFTSF-STGSFFELD 60

Query: 96  NKILCEYDYEER 107
            +  CE  Y  R
Sbjct: 61  GRPFCELHYHHR 72

>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 = 52.3 bits (126), Expect = 4e-10
 Identities = 16/72 (22%), Positives = 25/72 (34%), Gaps = 5/72 (6%)

Query: 36  CKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCD 95
               Y   F     CA C+K +   +  +  ++  +H EC  C  C      G +F   D
Sbjct: 6   SGPCYENKFAPR--CARCSKTL--TQGGVTYRDQPWHRECLVCTGCQTPL-AGQQFTSRD 60

Query: 96  NKILCEYDYEER 107
               C   + E 
Sbjct: 61  EDPYCVACFGEL 72

>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 = 36.2 bits (84), Expect = 5e-04
 Identities = 12/52 (23%), Positives = 18/52 (34%), Gaps = 4/52 (7%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA 52
            D  WH +CL C  C   L   G     +     C   +  LF +    ++
Sbjct: 32 YRDQPWHRECLVCTGCQTPLA--GQQFTSRDEDPYCVACFGELFAS--GPSS 79

>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 = 51.6 bits (124), Expect = 5e-10
 Identities = 12/58 (20%), Positives = 18/58 (31%), Gaps = 1/58 (1%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER 107
           C+AC + +      +      +H  CF C  C         F        C   YE +
Sbjct: 8   CSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPL-GSRSFVPDKGAHYCVPCYENK 64

>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 = 38.1 bits (89), Expect = 7e-05
 Identities = 11/52 (21%), Positives = 16/52 (30%), Gaps = 4/52 (7%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA 52
               WHE C  C  C+  LG    +         C   Y   F +    ++
Sbjct: 24 YGGQTWHEHCFLCSGCEQPLG--SRSFVPDKGAHYCVPCYENKFASG--PSS 71

>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 = 51.3 bits (123), Expect = 8e-10
 Identities = 15/76 (19%), Positives = 25/76 (32%), Gaps = 6/76 (7%)

Query: 34  ILCKRDYLRLFGTTGYCAACTKVIPAF---EMVMRAKNNVYHLECFACQQCNHRFCVGDR 90
                 Y         CA C   I  F     V+  +   +H  CF C++C+       R
Sbjct: 4   GSSGDCYKNFVAKK--CAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNL-ANKR 60

Query: 91  FYLCDNKILCEYDYEE 106
           F     ++ C    ++
Sbjct: 61  FVFHQEQVYCPDCAKK 76

>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 = 51.0 bits (122), Expect = 1e-09
 Identities = 17/72 (23%), Positives = 28/72 (38%), Gaps = 3/72 (4%)

Query: 36  CKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCD 95
               Y   F  T  CA C ++I      +  ++  +H  CF C +C       + F   D
Sbjct: 6   SGPCYDNTFANT--CAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSL-ADEPFTCQD 62

Query: 96  NKILCEYDYEER 107
           +++LC   Y   
Sbjct: 63  SELLCNDCYCSA 74

>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 = 36.7 bits (85), Expect = 3e-04
 Identities = 11/52 (21%), Positives = 19/52 (36%), Gaps = 4/52 (7%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA 52
            D  +HE C +C  C   L         + + +LC   Y   F +    ++
Sbjct: 34 YEDRHFHEGCFRCCRCQRSL--ADEPFTCQDSELLCNDCYCSAFSS--GPSS 81

>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 = 49.7 bits (119), Expect = 4e-09
 Identities = 18/83 (21%), Positives = 27/83 (32%), Gaps = 4/83 (4%)

Query: 25  STLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHR 84
            +   +  L+            T  CA C +VI      + A    +H E F C  C + 
Sbjct: 4   GSSGDQDTLVQRAEHIPAG-KRTPMCAHCNQVI--RGPFLVALGKSWHPEEFNCAHCKNT 60

Query: 85  FCVGDRFYLCDNKILCEYDYEER 107
                 F      + CE  YE+ 
Sbjct: 61  M-AYIGFVEEKGALYCELCYEKF 82

>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 = 37.0 bits (86), Expect = 3e-04
 Identities = 10/52 (19%), Positives = 21/52 (40%), Gaps = 4/52 (7%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA 52
          AL   WH +   C  C   +  +G    ++   + C+  Y + F +    ++
Sbjct: 42 ALGKSWHPEEFNCAHCKNTMAYIGF--VEEKGALYCELCYEKFFASG--PSS 89

>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 = 49.4 bits (118), Expect = 6e-09
 Identities = 16/52 (30%), Positives = 21/52 (40%), Gaps = 5/52 (9%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA 52
          ALD  WH  C KC  C   L         K  +  C+ DY   FG+    ++
Sbjct: 33 ALDKQWHVSCFKCQTCSVILTG---EYISKDGVPYCESDYHAQFGSG--PSS 79

>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 = 42.8 bits (101), Expect = 2e-06
 Identities = 16/58 (27%), Positives = 24/58 (41%), Gaps = 3/58 (5%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER 107
           CA C + I      + A +  +H+ CF CQ C+        +   D    CE DY  +
Sbjct: 18  CAGCKEEI-KHGQSLLALDKQWHVSCFKCQTCSVIL--TGEYISKDGVPYCESDYHAQ 72

>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 = 48.6 bits (116), Expect = 9e-09
 Identities = 16/58 (27%), Positives = 22/58 (37%), Gaps = 3/58 (5%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER 107
           C  C + I     V++A NN +H ECF C  C         F     + LC   +   
Sbjct: 8   CHQCGEFI--IGRVIKAMNNSWHPECFRCDLCQEVL-ADIGFVKNAGRHLCRPCHNRE 62

>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 = 35.5 bits (82), Expect = 6e-04
 Identities = 12/50 (24%), Positives = 22/50 (44%), Gaps = 2/50 (4%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYC 50
          A++  WH +C +C  C   L ++G    + A   LC+  + R   +    
Sbjct: 22 AMNNSWHPECFRCDLCQEVLADIG--FVKNAGRHLCRPCHNREKASGPSS 69

>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 = 48.6 bits (116), Expect = 1e-08
 Identities = 15/58 (25%), Positives = 24/58 (41%), Gaps = 3/58 (5%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER 107
           C  C   I     V++A++   H ECF C  CN        ++  + ++ CE     R
Sbjct: 28  CDKCGSGI--VGAVVKARDKYRHPECFVCADCNLNL-KQKGYFFVEGELYCETHARAR 82

>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 = 39.0 bits (91), Expect = 6e-05
 Identities = 9/46 (19%), Positives = 16/46 (34%), Gaps = 2/46 (4%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT 46
          A D + H +C  C  C+  L + G   +     + C+         
Sbjct: 42 ARDKYRHPECFVCADCNLNLKQKGY--FFVEGELYCETHARARTSG 85

>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 = 46.6 bits (111), Expect = 5e-08
 Identities = 15/61 (24%), Positives = 23/61 (37%), Gaps = 3/61 (4%)

Query: 47  TGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE 106
           +  C  C K I      +  +   +H ECF C  C  +   G RF   D+   C   + +
Sbjct: 5   SSGCVQCKKPI--TTGGVTYREQPWHKECFVCTACRKQL-SGQRFTARDDFAYCLNCFCD 61

Query: 107 R 107
            
Sbjct: 62  L 62

>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 = 38.1 bits (89), Expect = 8e-05
 Identities = 9/52 (17%), Positives = 20/52 (38%), Gaps = 4/52 (7%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA 52
            +  WH++C  C  C  +L   G     + +   C   +  L+ +    ++
Sbjct: 22 YREQPWHKECFVCTACRKQLS--GQRFTARDDFAYCLNCFCDLYAS--GPSS 69

>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 = 46.5 bits (111), Expect = 5e-08
 Identities = 18/58 (31%), Positives = 24/58 (41%), Gaps = 3/58 (5%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER 107
           C AC + I     V+ A    +H+E F C +C   F  G R Y       CE  Y + 
Sbjct: 8   CGACRRPI--EGRVVNAMGKQWHVEHFVCAKCEKPFL-GHRHYERKGLAYCETHYNQL 62

>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 = 36.9 bits (86), Expect = 2e-04
 Identities = 13/46 (28%), Positives = 20/46 (43%), Gaps = 2/46 (4%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT 46
          A+   WH +   C  C+      G   Y++  L  C+  Y +LFG 
Sbjct: 22 AMGKQWHVEHFVCAKCEKPFL--GHRHYERKGLAYCETHYNQLFGD 65

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

 Score = 46.2 bits (110), Expect = 5e-08
 Identities = 14/58 (24%), Positives = 25/58 (43%), Gaps = 3/58 (5%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER 107
           C  C K I      +  ++  +H +CF C  C+ +   G RF   +++  C   Y+  
Sbjct: 8   CVKCNKAI--TSGGITYQDQPWHADCFVCVTCSKKL-AGQRFTAVEDQYYCVDCYKNF 62

>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 = 35.8 bits (83), Expect = 4e-04
 Identities = 11/46 (23%), Positives = 13/46 (28%), Gaps = 2/46 (4%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT 46
            D  WH DC  C  C  +L   G       +   C   Y      
Sbjct: 22 YQDQPWHADCFVCVTCSKKLA--GQRFTAVEDQYYCVDCYKNFVSG 65

>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 = 45.9 bits (109), Expect = 1e-07
 Identities = 13/58 (22%), Positives = 23/58 (39%), Gaps = 3/58 (5%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER 107
           C  C   I    + ++ ++   H EC+ C  C          +  +++I CE    ER
Sbjct: 18  CDKCGTGI--VGVFVKLRDRHRHPECYVCTDCGTNL-KQKGHFFVEDQIYCEKHARER 72

>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 = 37.8 bits (88), Expect = 1e-04
 Identities = 9/46 (19%), Positives = 15/46 (32%), Gaps = 2/46 (4%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT 46
            D   H +C  C  C   L + G   +   + I C++        
Sbjct: 32 LRDRHRHPECYVCTDCGTNLKQKGH--FFVEDQIYCEKHARERVSG 75

>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 = 45.2 bits (107), Expect = 2e-07
 Identities = 16/61 (26%), Positives = 26/61 (42%), Gaps = 3/61 (4%)

Query: 49  YCAACTKVIPAF--EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE 106
            CA CT  I        +  +   +H +CF C++C+    VG  F    + ILC    ++
Sbjct: 7   GCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSL-VGRGFLTERDDILCPDCGKD 65

Query: 107 R 107
            
Sbjct: 66  I 66

>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 = 35.6 bits (82), Expect = 8e-04
 Identities = 13/45 (28%), Positives = 17/45 (37%), Gaps = 2/45 (4%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 45
            +  WH DC  C  C   L  VG     + + ILC      + G
Sbjct: 26 FEERQWHNDCFNCKKCSLSL--VGRGFLTERDDILCPDCGKDISG 68

>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 = 42.9 bits (101), Expect = 1e-06
 Identities = 17/67 (25%), Positives = 28/67 (41%), Gaps = 3/67 (4%)

Query: 49  YCAACTKVIPAFEM--VMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE 106
            C AC+K I        +  +++ +H ECF C +C+    VG  F   + +I C+     
Sbjct: 7   GCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSL-VGKGFLTQNKEIFCQKCGSG 65

Query: 107 RQVFCVG 113
                 G
Sbjct: 66  MDTDISG 72

>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 = 41.6 bits (98), Expect = 4e-06
 Identities = 12/52 (23%), Positives = 20/52 (38%), Gaps = 3/52 (5%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA 52
          A+   +H  C  C  C   L  +  T     + I C  D+ R F +    ++
Sbjct: 32 AMGKAYHPGCFTCVVCHRGLDGIPFT-VDATSQIHCIEDFHRKFAS--GPSS 80

>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 = 41.6 bits (98), Expect = 5e-06
 Identities = 15/58 (25%), Positives = 25/58 (43%), Gaps = 2/58 (3%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER 107
           CA C++ I   + ++RA    YH  CF C  C+             ++I C  D+  +
Sbjct: 18  CATCSQPI--LDRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRK 73

>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 = 41.8 bits (98), Expect = 5e-06
 Identities = 15/63 (23%), Positives = 28/63 (44%), Gaps = 2/63 (3%)

Query: 44  FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 103
                 C  C K +   E ++ A   V+H+ CF C  CN++  +G  +     +I C+  
Sbjct: 12  APARETCVECQKTVYPMERLL-ANQQVFHISCFRCSYCNNKLSLGT-YASLHGRIYCKPH 69

Query: 104 YEE 106
           + +
Sbjct: 70  FNQ 72

>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 = 39.4 bits (92), Expect = 4e-05
 Identities = 13/48 (27%), Positives = 20/48 (41%), Gaps = 2/48 (4%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTG 48
          A    +H  C +C  C+ +L     T       I CK  + +LF + G
Sbjct: 33 ANQQVFHISCFRCSYCNNKLS--LGTYASLHGRIYCKPHFNQLFKSKG 78

>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 = 40.9 bits (95), Expect = 7e-06
 Identities = 16/51 (31%), Positives = 21/51 (41%), Gaps = 2/51 (3%)

Query: 50  CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILC 100
           C +C K I     V+ A    YH  C  C +C   F  G+  YL  + I  
Sbjct: 8   CDSCEKYIT--GRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWH 56

>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 = 42.7 bits (100), Expect = 9e-06
 Identities = 14/64 (21%), Positives = 26/64 (40%), Gaps = 2/64 (3%)

Query: 44  FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 103
           +G    C  C K +   E V + + + +H  CF C  C           +  ++I C+  
Sbjct: 4   WGGGKKCGVCQKAVYFAEEV-QCEGSSFHKSCFLCMVCKKNL-DSTTVAVHGDEIYCKSC 61

Query: 104 YEER 107
           Y ++
Sbjct: 62  YGKK 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 = 39.2 bits (91), Expect = 2e-04
 Identities = 13/97 (13%), Positives = 26/97 (26%), Gaps = 4/97 (4%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF 60
                +H+ C  C  C   L    +T+    + I CK  Y + +G               
Sbjct: 25  CEGSSFHKSCFLCMVCKKNL--DSTTVAVHGDEIYCKSCYGKKYGPK--GKGKGMGAGTL 80

Query: 61  EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNK 97
                    + + E  + +  N       +     + 
Sbjct: 81  STDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDG 117

>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 = 38.1 bits (88), Expect = 3e-04
 Identities = 16/49 (32%), Positives = 21/49 (42%), Gaps = 2/49 (4%)

Query: 1   ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGY 49
                WH+ C +C  C   L    +TL  K   I CK  Y + FG  G+
Sbjct: 133 GAGKSWHKSCFRCAKCGKSLE--STTLADKDGEIYCKGCYAKNFGPKGF 179

>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 = 39.7 bits (93), Expect = 2e-05
 Identities = 12/49 (24%), Positives = 18/49 (36%), Gaps = 2/49 (4%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGY 49
               +H  C  C  C   L    +T+      + CK  Y + +G  GY
Sbjct: 25 CDGRSFHRCCFLCMVCRKNLD--STTVAIHDAEVYCKSCYGKKYGPKGY 71

>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 = 39.3 bits (92), Expect = 3e-05
 Identities = 14/64 (21%), Positives = 24/64 (37%), Gaps = 2/64 (3%)

Query: 44  FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 103
           +G    C AC + +   E V       +H  CF C  C           + D ++ C+  
Sbjct: 4   WGGGNKCGACGRTVYHAEEVQ-CDGRSFHRCCFLCMVCRKNL-DSTTVAIHDAEVYCKSC 61

Query: 104 YEER 107
           Y ++
Sbjct: 62  YGKK 65

>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 = 38.9 bits (91), Expect = 5e-05
 Identities = 14/61 (22%), Positives = 20/61 (32%), Gaps = 2/61 (3%)

Query: 44  FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 103
            G    C  C K +   E V  +    +H  C  C++C+     G      D K  C   
Sbjct: 6   SGMASKCPKCDKTVYFAEKVS-SLGKDWHKFCLKCERCSKTLTPG-GHAEHDGKPFCHKP 63

Query: 104 Y 104
            
Sbjct: 64  C 64

>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 = 37.1 bits (86), Expect = 2e-04
 Identities = 12/60 (20%), Positives = 21/60 (35%), Gaps = 4/60 (6%)

Query: 47  TGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE 106
              C  C  +I   E  +  KN+ YH + F C  C               ++ C   +++
Sbjct: 15  KYICQKCHAIID--EQPLIFKNDPYHPDHFNCANCGKEL--TADARELKGELYCLPCHDK 70

>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 = 36.2 bits (84), Expect = 5e-04
 Identities = 14/50 (28%), Positives = 18/50 (36%), Gaps = 3/50 (6%)

Query: 1  ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRD-YLRLFGTTGY 49
          +L   WH  CLKC  C   L        +      C    Y  +FG  G+
Sbjct: 18 SLGKDWHRPCLKCEKCGKTLT--SGGHAEHEGKPYCNHPCYSAMFGPKGF 65

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

 Score = 36.1 bits (83), Expect = 5e-04
 Identities = 13/64 (20%), Positives = 20/64 (31%), Gaps = 2/64 (3%)

Query: 44  FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGD-RFYLCDNKILCEY 102
            G    CA C + +   E +     + +H  CF C  C      G    +  D    C  
Sbjct: 12  AGAGDLCALCGEHLYVLERLC-VNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQ 70

Query: 103 DYEE 106
              +
Sbjct: 71  HLPQ 74

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	155
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.96
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.95
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.95
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.95
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.93
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.93
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.89
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.84
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.82
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.81
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.81
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.79
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.79
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.79
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.77
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.75
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.72
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	99.7
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	99.69
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.67
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.66
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.66
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	99.66
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.65
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.63
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.63
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	99.62
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.61
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.6
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	99.6
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	99.6
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	99.6
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.59
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	99.59
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	99.59
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	99.59
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	99.58
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	99.57
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.56
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	99.55
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.54
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	99.54
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	99.53
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	99.52
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	99.51
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.5
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	99.5
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	99.49
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	99.49
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.47
2cor_A	79	Pinch protein; LIM domain, particularly interestin	99.47
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.45
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	99.44
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	99.43
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	99.43
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	99.42
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.4
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.4
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	99.4
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	99.4
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.39
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	99.39
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	99.38
2co8_A	82	NEDD9 interacting protein with calponin homology a	99.37
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	99.37
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.36
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	99.34
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.34
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.33
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	99.32
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.32
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	99.31
2cor_A	79	Pinch protein; LIM domain, particularly interestin	99.31
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	99.3
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	99.27
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	99.27
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	99.24
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	99.24
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	99.22
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.21
2co8_A	82	NEDD9 interacting protein with calponin homology a	99.2
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	99.15
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.15
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	98.88
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	97.88
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	94.1
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	86.1
2ect_A	78	Ring finger protein 126; metal binding protein, st	84.13
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	82.42

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

Probab=99.96  E-value=6.9e-30  Score=173.79  Aligned_cols=108  Identities=58%  Similarity=1.222  Sum_probs=99.2

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccccccccccCceEEeccCcccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQ   80 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~   80 (155)
                      |+|+.||++||+|+.|+++|++.+..|+.++|++||++||.+++++.++|..|+++|.+.+.++.+.++.||++||+|..
T Consensus        20 a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~~~~C~~C~~~I~~~e~~~~a~~~~~H~~CF~C~~   99 (131)
T 2xjy_A           20 AIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAA   99 (131)
T ss_dssp             ETTEEEETTTCBCTTTCCBCSSTTCCEEEETTEEECHHHHHHHHCCCEECTTTCCEECTTSEEEEETTEEEEGGGCBCTT
T ss_pred             ECCCcccHHHcccCcCCCccccCCCeEEEECCEEeecCchhhhCCCccChhhcCCccCccceeEeeCCceECccCcccCC
Confidence            68999999999999999999754568999999999999999999875579999999998778899999999999999999


Q ss_pred             CCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         81 CNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        81 C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      |+++|..+..|+..++++||..||.+++
T Consensus       100 C~~~L~~g~~f~~~~~~~~C~~c~~~~~  127 (131)
T 2xjy_A          100 CQKHFCVGDRYLLINSDIVCEQDIYEWT  127 (131)
T ss_dssp             TCCBCCTTCEEEEETTEEEEGGGHHHHH
T ss_pred             CCCCCCCCCEEEEECCEEEcHHHHHHHh
Confidence            9999966788999999999999999876

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

Probab=99.95  E-value=9.4e-29  Score=167.15  Aligned_cols=103  Identities=24%  Similarity=0.547  Sum_probs=95.7

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccccccccccCceEEeccCcccc--cccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYH--LECFAC   78 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H--~~Cf~C   78 (155)
                      |+|+.||++||+|+.|+++|+  +..|+.++|++||+.||.+++++  +|.+|+++|.+++.++.+.++.||  ++||+|
T Consensus        21 a~~~~~H~~CF~C~~C~~~L~--~~~f~~~~g~~yC~~cy~~~~~~--~C~~C~~~I~~~~~~~~a~~~~~H~~~~CF~C   96 (126)
T 2xqn_T           21 AENQNWHLKHFCCFDCDSILA--GEIYVMVNDKPVCKPCYVKNHAV--VCQGCHNAIDPEVQRVTYNNFSWHASTECFLC   96 (126)
T ss_dssp             ETTEEECGGGSBCTTTCCBCT--TSEEEEETTEEEEHHHHHHHSCC--BCTTTCSBCCTTSCEEEETTEEEESSTTTSBC
T ss_pred             eCCCCccCCCCCcCCCCCCCC--cCEEEeECCEEechHHhCcCcCc--cCcccCCcCCcCceEEECCCCEeeCCCCCcCc
Confidence            679999999999999999994  56899999999999999999999  999999999976688899999999  999999


Q ss_pred             ccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         79 QQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        79 ~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      ..|+++| .+..|+..+|++||..+|.+++
T Consensus        97 ~~C~~~l-~~~~f~~~~~~~yC~~~~~~~f  125 (126)
T 2xqn_T           97 SCCSKCL-IGQKFMPVEGMVFCSVECKKRM  125 (126)
T ss_dssp             TTTCCBC-TTSEEEEETTEEESSHHHHHSC
T ss_pred             CCCCCcc-CCCeeEeECCEEcchHHhhhhc
Confidence            9999999 6888999999999998887764

>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=99.95  E-value=8.6e-29  Score=178.01  Aligned_cols=117  Identities=44%  Similarity=1.006  Sum_probs=99.3

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccccccccccCceEEeccCcccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQ   80 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~   80 (155)
                      |+|+.||++||+|+.|+++|...+..|+.++|++||+.||.++++++++|..|+++|.+.+.++.+.++.||+.||+|..
T Consensus        23 a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~cy~~~~~~~~~C~~C~~~I~~~e~~i~a~~~~~H~~CF~C~~  102 (188)
T 1rut_X           23 AMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCST  102 (188)
T ss_dssp             ETTEEECGGGCBCTTTCCBHHHHCSEEEEETTEEECHHHHHHHHSCCEECTTTCCEECTTSEEEEETTEEECGGGCBCTT
T ss_pred             ecCcEecccCcccCCCCcccccCCceEEEeCCccccccccccccccCCccccCCCccccCcEEEEcCCCEEeCCCCeECC
Confidence            67899999999999999999642468999999999999999999874469999999998778889999999999999999


Q ss_pred             CCcccccCCeEEeeCCeeecHHhHHhhhcccCCCeeeecCC
Q psy12215         81 CNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCDN  121 (155)
Q Consensus        81 C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~c~~c~~  121 (155)
                      |+++|..+..|+..++++||..||.+++    ++++.....
T Consensus       103 C~~~L~~g~~f~~~~g~~yC~~c~~~~~----~~~~~~~g~  139 (188)
T 1rut_X          103 CRNRLVPGDRFHYINGSLFCEHDRPTAL----INGHLNSGG  139 (188)
T ss_dssp             TCCBCCTTCEEEEETTEEEEGGGCCTTT----C--------
T ss_pred             CCCCCCCCCeEEEECCeEECHHHHHHHh----cccccccCC
Confidence            9999955778999999999999999888    777765543

>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=99.95  E-value=2.1e-28  Score=176.49  Aligned_cols=115  Identities=22%  Similarity=0.468  Sum_probs=102.3

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhcccccc---------------------------------
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTT---------------------------------   47 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~---------------------------------   47 (155)
                      |+|+.||++||+|+.|+++|..  ..|+.++|++||+.||.++|++.                                 
T Consensus        25 a~g~~wH~~CF~C~~C~~~L~~--~~~~~~~g~~yC~~cy~~~f~~~c~~c~~~~g~~~~~~~~~~~~~~~~~~~~~p~~  102 (192)
T 1b8t_A           25 CEGSSFHKSCFLCMVCKKNLDS--TTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTN  102 (192)
T ss_dssp             ETTEEECTTTCBCTTTCCBCCS--SSEEEETTEEEEHHHHHHHHSCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_pred             eCCceecCCCCcCcccCCcCCC--CeeEecCCEeeChhhhHhhcCccccccccccccEecCCCcccccccccccccCCCC
Confidence            5799999999999999999954  46999999999999999998762                                 


Q ss_pred             -------------ccccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhhcccCCC
Q psy12215         48 -------------GYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGD  114 (155)
Q Consensus        48 -------------~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~  114 (155)
                                   .+|.+|+++|.+.+ .+.+.++.||++||+|..|+++| .+..|+.+++++||+.||.+++    ++
T Consensus       103 ~~~~~~~~~~~~~~~C~~C~~~I~~~~-~v~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~g~~yC~~cy~~~f----~~  176 (192)
T 1b8t_A          103 PNASRMAQKVGGSDGCPRCGQAVYAAE-KVIGAGKSWHKSCFRCAKCGKSL-ESTTLADKDGEIYCKGCYAKNF----GP  176 (192)
T ss_dssp             CCCCCCCCCCCCCEECTTTSCEECSSS-CEEETTEEECTTTCBCTTTCCBC-CSSSEEEETTEEEEHHHHHHHT----CC
T ss_pred             cCccccccccCCCCcCCCCCCEecCcE-EEecCCCccchhcCCccccCCCC-CCCcccccCCEEeCHHHHHHhc----CC
Confidence                         13889999998754 45689999999999999999999 5667999999999999999999    99


Q ss_pred             eeeecCCee
Q psy12215        115 RFYLCDNKI  123 (155)
Q Consensus       115 ~c~~c~~~i  123 (155)
                      +|..|++.+
T Consensus       177 kc~~C~~~~  185 (192)
T 1b8t_A          177 KGFGFGQGA  185 (192)
T ss_dssp             CCCCCCCCC
T ss_pred             cCCCCCCcc
Confidence            999999865

>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=99.93  E-value=8.6e-27  Score=164.94  Aligned_cols=103  Identities=45%  Similarity=0.993  Sum_probs=93.1

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccccccccccCceEEeccCcccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQ   80 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~   80 (155)
                      |+|+.||+.||+|+.|+++|..  .. +.++|++||+.||.++|++  +|.+|+++|.+.+.++.+.+..||+.||+|..
T Consensus        24 a~~~~wH~~CF~C~~C~~~L~~--~~-f~~~g~~yC~~~y~~~f~~--~C~~C~~~I~~~~~v~~a~~~~~H~~CF~C~~   98 (169)
T 2rgt_A           24 ALDRHWHSKCLKCSDCHVPLAE--RC-FSRGESVYCKDDFFKRFGT--KCAACQLGIPPTQVVRRAQDFVYHLHCFACVV   98 (169)
T ss_dssp             CSSCEECTTTSBCTTTCCBCCS--CC-EESSSCEECHHHHHHHHSC--BCTTTCCBCCTTSEEEEETTEEEEGGGCBCTT
T ss_pred             ECCcEEccccCccCCCCCcCCC--CC-cccCCeeeecccccccccc--cccccccccCCCcEEEEcCCceEeeCCCcCCC
Confidence            6899999999999999999953  33 5899999999999999999  99999999998777888999999999999999


Q ss_pred             CCcccccCCeEEe-eCCeeecHHhHHhhh
Q psy12215         81 CNHRFCVGDRFYL-CDNKILCEYDYEERQ  108 (155)
Q Consensus        81 C~~~l~~~~~~~~-~~~~~~C~~c~~~~~  108 (155)
                      |+++|..+..|+. .+|++||..||.+++
T Consensus        99 C~~~L~~g~~f~~~~~g~~~C~~c~~~~~  127 (169)
T 2rgt_A           99 CKRQLATGDEFYLMEDSRLVCKADYETAK  127 (169)
T ss_dssp             TCCBCCTTCEEEECTTSCEEEHHHHHHHH
T ss_pred             CCCCCCCCCceEEccCCeEECHHHHHHHh
Confidence            9999955777765 589999999999887

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

Probab=99.93  E-value=1.3e-26  Score=165.88  Aligned_cols=103  Identities=45%  Similarity=0.993  Sum_probs=91.5

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccccccccccCceEEeccCcccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQ   80 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~   80 (155)
                      |+|+.||+.||+|+.|+++|..  .. +.++|++||+.||.++|++  +|..|+++|.+.+.++.+.+..||+.||+|..
T Consensus        78 a~~~~wH~~CF~C~~C~~~L~~--~~-f~~~g~~yC~~~y~~~f~~--kC~~C~~~I~~~~~v~~a~~~~~H~~CF~C~~  152 (182)
T 2jtn_A           78 ALDRHWHSKCLKCSDCHVPLAE--RC-FSRGESVYCKDDFFKRFGT--KCAACQLGIPPTQVVRRAQDFVYHLHCFACVV  152 (182)
T ss_dssp             ETTEEECSSTTSCTTTCCCCSS--CC-EEETTEEECHHHHHHTTSC--CCTTTCCCCCSSCCCCEETTEECCTTTCCCTT
T ss_pred             ecCCeEccccCccCCCCCccCC--Cc-eeECCEeeecCcccccccc--ccccCCCccCCCceEEecCCCCEEeCCCcCCC
Confidence            5799999999999999999953  34 5799999999999999999  99999999998666778999999999999999


Q ss_pred             CCcccccCCeEEe-eCCeeecHHhHHhhh
Q psy12215         81 CNHRFCVGDRFYL-CDNKILCEYDYEERQ  108 (155)
Q Consensus        81 C~~~l~~~~~~~~-~~~~~~C~~c~~~~~  108 (155)
                      |+++|..+..|+. .++++||..||.++.
T Consensus       153 C~~~L~~g~~f~~~~~g~~yC~~cy~~~~  181 (182)
T 2jtn_A          153 CKRQLATGDEFYLMEDSRLVCKADYETAK  181 (182)
T ss_dssp             TCCCCCTTCEEEECTTSCEECHHHHHHHT
T ss_pred             CCCCCCCCCceEEccCCEEECHHHHHHhh
Confidence            9999955677764 579999999998753

>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=99.89  E-value=6.2e-24  Score=138.16  Aligned_cols=78  Identities=31%  Similarity=0.602  Sum_probs=72.4

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccccccccccCceEEeccCcccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQ   80 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~   80 (155)
                      |+|+.||+.||+|+.|+++|.  +..|+.++|++||+.||.+++++  +|.+|+++|.+++.++.+.++.||++||+|..
T Consensus        24 a~~~~~H~~CF~C~~C~~~L~--~~~~~~~~g~~yC~~cy~~~~~~--~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~   99 (101)
T 2cup_A           24 YKNRFWHDTCFRCAKCLHPLA--NETFVAKDNKILCNKCTTREDSP--KCKGCFKAIVAGDQNVEYKGTVWHKDCFSGPS   99 (101)
T ss_dssp             ETTEEEETTTCCCSSSCCCTT--SSCCEEETTEEECHHHHTTCCCC--BCSSSCCBCCSSSCEEESSSCEEETTTCCCTT
T ss_pred             ECccChhhcCCcccccCCCCC--cCeeECcCCEEEChhHhhhhcCC--ccccCCCccccCCeEEEeCCcchHHhCCCCCC
Confidence            578999999999999999994  45799999999999999999999  99999999986667899999999999999999


Q ss_pred             CC
Q psy12215         81 CN   82 (155)
Q Consensus        81 C~   82 (155)
                      |+
T Consensus       100 C~  101 (101)
T 2cup_A          100 SG  101 (101)
T ss_dssp             CC
T ss_pred             CC
Confidence            85

>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=99.84  E-value=6.7e-22  Score=123.88  Aligned_cols=80  Identities=20%  Similarity=0.367  Sum_probs=73.5

Q ss_pred             CCeeecccchhccccccccccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhhcc
Q psy12215         31 ANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVF  110 (155)
Q Consensus        31 ~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~  110 (155)
                      +|++||++||.+++++  +|.+|+++|.+++.++.+.++.||++||+|..|+++| .+..|+..++++||..||.+++  
T Consensus         1 ~g~~yC~~~y~~~~~~--~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L-~~~~f~~~~~~~~C~~c~~~~~--   75 (82)
T 2ehe_A            1 GSSGSSGPCYDNTFAN--TCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSL-ADEPFTCQDSELLCNDCYCSAF--   75 (82)
T ss_dssp             CCCCCCCCCCCCCCSC--BCTTTCCBCCSSCCBCCCSSCCCBTTTSBCTTTCCBC-SSCCEEEETTEEEETTTSSCCG--
T ss_pred             CCceechhHhCcccCC--cCccCCCccccCcEEEEeCCccccccCCeecCCCCcc-CCCccEeeCCEEECHHHHhhhc--
Confidence            5789999999999999  9999999999656788999999999999999999999 6778999999999999999988  


Q ss_pred             cCCCeee
Q psy12215        111 CVGDRFY  117 (155)
Q Consensus       111 ~~~~~c~  117 (155)
                        +++|.
T Consensus        76 --~~~C~   80 (82)
T 2ehe_A           76 --SSGPS   80 (82)
T ss_dssp             --GGSSC
T ss_pred             --CCCCC
Confidence              77664

>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=99.82  E-value=1.3e-20  Score=117.92  Aligned_cols=79  Identities=20%  Similarity=0.322  Sum_probs=72.0

Q ss_pred             CCeeecccchhccccccccccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhhcc
Q psy12215         31 ANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVF  110 (155)
Q Consensus        31 ~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~  110 (155)
                      ++.+||++||.+++++  +|.+|+++|.+.+.++.+.++.||++||+|..|+++| .+..|+.+++++||+.||.+++  
T Consensus         1 ~~~~yC~~cy~~~~~~--~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~~~~yC~~cy~~~f--   75 (82)
T 1x63_A            1 GSSGSSGKCTTREDSP--KCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVI-GTGSFFPKGEDFYCVTCHETKF--   75 (82)
T ss_dssp             CCSCCCCCCCSCCCSC--BCSSSCCBCCSSSCEEECSSCEEETTTCCCSSSCCCC-TTSCEEEETTEEEEHHHHHHHT--
T ss_pred             CCCcCchhHHccccCC--cCccCCcccccCceEEEECccccccccCchhhCCCcc-CCCccEeeCCEEECHHHHHHHh--
Confidence            3679999999999998  9999999999767888999999999999999999999 5668999999999999999998  


Q ss_pred             cCCCee
Q psy12215        111 CVGDRF  116 (155)
Q Consensus       111 ~~~~~c  116 (155)
                        ++++
T Consensus        76 --~~~~   79 (82)
T 1x63_A           76 --ASGP   79 (82)
T ss_dssp             --SCCC
T ss_pred             --CCCC
Confidence              6654

>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=99.81  E-value=1e-20  Score=117.92  Aligned_cols=78  Identities=21%  Similarity=0.380  Sum_probs=71.4

Q ss_pred             CCeeecccchhccccccccccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhhcc
Q psy12215         31 ANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVF  110 (155)
Q Consensus        31 ~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~  110 (155)
                      +|++||++||.+++++  +|.+|+++|.+  ..+.+.++.||++||+|..|+++| .+..|+..++++||+.||.+++  
T Consensus         1 gg~~yC~~cy~~~~~~--~C~~C~~~I~~--~~v~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~~~~yC~~cy~~~f--   73 (80)
T 2cuq_A            1 GSSGSSGPCYENKFAP--RCARCSKTLTQ--GGVTYRDQPWHRECLVCTGCQTPL-AGQQFTSRDEDPYCVACFGELF--   73 (80)
T ss_dssp             CCCCSCCCCCCCCSSC--CCTTTCCCCCS--CCEESSSSEECTTTCBCSSSCCBC-TTCCEEECSSSEEEHHHHHHHT--
T ss_pred             CCcEEcHHHHccccCC--cCCCCCCEecC--cEEEECCchhhhhhCCcccCCCcC-CCCeeEeECCEEECHHHHHHHc--
Confidence            4789999999999998  99999999986  367899999999999999999999 6778999999999999999999  


Q ss_pred             cCCCeee
Q psy12215        111 CVGDRFY  117 (155)
Q Consensus       111 ~~~~~c~  117 (155)
                        +++|.
T Consensus        74 --~~~c~   78 (80)
T 2cuq_A           74 --ASGPS   78 (80)
T ss_dssp             --TCSTT
T ss_pred             --CCCCC
Confidence              77764

>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=99.81  E-value=1.1e-20  Score=117.66  Aligned_cols=78  Identities=27%  Similarity=0.634  Sum_probs=71.2

Q ss_pred             CCeeecccchhccccccccccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhhcc
Q psy12215         31 ANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVF  110 (155)
Q Consensus        31 ~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~  110 (155)
                      +|++||++||.+++++  +|.+|+++|.+  ..+.+.++.||++||+|..|+++| .+..|+.+++++||+.||.+++  
T Consensus         1 gg~~yC~~~y~~~~~~--~C~~C~~~I~~--~~v~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~~~~yC~~~y~~~f--   73 (80)
T 1x3h_A            1 GSSGSSGKDFLAMFSP--KCGGCNRPVLE--NYLSAMDTVWHPECFVCGDCFTSF-STGSFFELDGRPFCELHYHHRR--   73 (80)
T ss_dssp             CCCCCCCCCCCCCCSC--BCTTTCCBCCS--SCEEETTEEECTTTCBCSSSCCBS-CSSCCEESSSCEECHHHHHHHH--
T ss_pred             CCCccchhHHhhhcCC--ccccCCCeecc--eeEEECCCeEecCcCChhhCCCCC-CCCcEEeECCEEECHHHHHHHc--
Confidence            4789999999999998  99999999986  467899999999999999999999 5567999999999999999999  


Q ss_pred             cCCCeee
Q psy12215        111 CVGDRFY  117 (155)
Q Consensus       111 ~~~~~c~  117 (155)
                        +++|.
T Consensus        74 --~~~C~   78 (80)
T 1x3h_A           74 --GSGPS   78 (80)
T ss_dssp             --SSSCC
T ss_pred             --CCCCC
Confidence              88775

>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=99.79  E-value=4.3e-20  Score=114.21  Aligned_cols=73  Identities=19%  Similarity=0.429  Sum_probs=66.9

Q ss_pred             CCeeecccchhcccccccccccccccccc---CceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHh
Q psy12215         31 ANLILCKRDYLRLFGTTGYCAACTKVIPA---FEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE  106 (155)
Q Consensus        31 ~~~~~C~~c~~~~~~~~~~C~~C~~~I~~---~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~  106 (155)
                      ++++||++||.+++++  +|++|+++|.+   .+.++.+.++.||++||+|..|+++| .+..|+..++++||+.||.+
T Consensus         1 g~~~yC~~cy~~~~~~--~C~~C~~~I~~~g~~~~~~~a~~~~~H~~CF~C~~C~~~L-~~~~f~~~~~~~yC~~cy~~   76 (77)
T 2egq_A            1 GSSGSSGDCYKNFVAK--KCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNL-ANKRFVFHQEQVYCPDCAKK   76 (77)
T ss_dssp             CCSSCCTTCCCSCCCC--CCSSSCCCCCCCSSCCCEEEETTEEEETTTCBCSSSCCBC-TTSCCCEETTEECCHHHHHH
T ss_pred             CCCeEchhHhchhhCc--cCcccCCcccCCCCCceeEEECcceeCcccCEehhcCCCC-CCCccEeECCEEEChHHhcc
Confidence            3689999999999998  99999999996   45788999999999999999999999 67789999999999999975

>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=99.79  E-value=4.1e-20  Score=115.44  Aligned_cols=77  Identities=23%  Similarity=0.430  Sum_probs=69.1

Q ss_pred             CCeeecccchhccccccccccccccccccCceEEeccCccccccccccccCCcccccCCeEEee-CCeeecHHhHHhhhc
Q psy12215         31 ANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEYDYEERQV  109 (155)
Q Consensus        31 ~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~-~~~~~C~~c~~~~~~  109 (155)
                      ||++||++||. ++++  +|.+|+++|.+  .++.+.++.||++||+|..|+++| .+..|+.. ++++||..||.+++ 
T Consensus         2 ~g~~yC~~~y~-~~~~--~C~~C~~~I~~--~~~~a~~~~~H~~CF~C~~C~~~L-~~~~f~~~~~g~~yC~~cy~~~f-   74 (81)
T 2dlo_A            2 SSGSSGEGCYV-ATLE--KCATCSQPILD--RILRAMGKAYHPGCFTCVVCHRGL-DGIPFTVDATSQIHCIEDFHRKF-   74 (81)
T ss_dssp             CCCCCCCCCCC-SSCC--BCTTTCCBCCS--CCEEETTEEECTTTCBCSSSCCBC-TTSCEECCTTCCCEEHHHHHHHT-
T ss_pred             cCCEECHHHhh-cCCC--ccccCCCeecc--eeEEECCccccHHhcCcccCCCcc-CCCeeEECCCCEEECHHHHHHHh-
Confidence            68999999999 6777  99999999985  578999999999999999999999 57778776 68999999999999 


Q ss_pred             ccCCCeee
Q psy12215        110 FCVGDRFY  117 (155)
Q Consensus       110 ~~~~~~c~  117 (155)
                         +++|.
T Consensus        75 ---~~~C~   79 (81)
T 2dlo_A           75 ---ASGPS   79 (81)
T ss_dssp             ---TSSSC
T ss_pred             ---cCcCC
Confidence               88775

>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=99.79  E-value=4.7e-21  Score=128.65  Aligned_cols=92  Identities=29%  Similarity=0.695  Sum_probs=77.6

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccccccccccCceEEeccCcccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQ   80 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~   80 (155)
                      |+++.||++||+|+.|+++|.+.+..|+.++|++||+.||.++|+++++|++|+++|.+  ..+.+.+.           
T Consensus        23 a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~cy~~~f~~~~~C~~C~~~I~~--~~~~~~g~-----------   89 (122)
T 1m3v_A           23 AMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAGGSGGHMGSG--GDVMVVGE-----------   89 (122)
T ss_dssp             ETTEEECHHHHCCSSSCCCTTTSEECCEEETTEEECHHHHHHHHCCCCSSSCSSCCSCC--EESSSSSS-----------
T ss_pred             ECCceeHhhCCCcCCCCCcccccCCeEEEECCeeecHHHHHHHcCCCCccccCCCCcCc--hheEEcCC-----------
Confidence            57899999999999999999532457999999999999999999987789999999986  23344442           


Q ss_pred             CCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         81 CNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        81 C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                        ..| .++.|+.+++++||..||.++.
T Consensus        90 --~~l-~g~~f~~~~~~~yC~~~~~~~~  114 (122)
T 1m3v_A           90 --PTL-MGGEFGDEDERLITRLENTQFD  114 (122)
T ss_dssp             --SSC-CSCTTCCTTCCCCEECTTTTTT
T ss_pred             --cCC-CCCccEecCCEeEccCcchhch
Confidence              245 7889999999999999998775

>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=99.77  E-value=1.8e-19  Score=112.51  Aligned_cols=73  Identities=27%  Similarity=0.528  Sum_probs=66.5

Q ss_pred             CeeecccchhccccccccccccccccccCceEEeccCccccccccccccCCcccccCCeEE-eeCCeeecHHhHHhhh
Q psy12215         32 NLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFY-LCDNKILCEYDYEERQ  108 (155)
Q Consensus        32 ~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~-~~~~~~~C~~c~~~~~  108 (155)
                      +.+||++||.+++++  +|.+|+++|.+  .++.+.++.||++||+|..|+++|..+..|. ..++++||..||.+++
T Consensus         2 ~~~yC~~~y~~~~~~--~C~~C~~~I~~--~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~~C~~c~~~~~   75 (81)
T 1x6a_A            2 SSGSSGKDYWGKFGE--FCHGCSLLMTG--PFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVV   75 (81)
T ss_dssp             CCCCCCCCSSCCSSC--BCTTTCCBCCS--CCBCCTTCCBCTTSCBCTTTCCBCCTTSCEEECSSSCEEEHHHHHHHH
T ss_pred             CCccchhHHhhhcCC--cCccCCCCcCc--eEEEECCceeccccCCccCCCCccCCCCcEEEeeCCEEECHHHHHHHh
Confidence            579999999999999  99999999984  5788999999999999999999995567787 4889999999999988

>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=99.75  E-value=8.1e-20  Score=118.55  Aligned_cols=88  Identities=25%  Similarity=0.485  Sum_probs=77.3

Q ss_pred             cccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhhcccCCCeeeecCCeecchhh
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCDNKILCEYD  128 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~c~~c~~~i~c~~~  128 (155)
                      +|.+|+++|.+++.++.+.++.||++||+|..|+++| .+..|+.++|++||+.||.+++    +++|..|+++|...  
T Consensus         7 ~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~g~~yC~~cy~~~~----~~~C~~C~~~I~~~--   79 (101)
T 2cup_A            7 GCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPL-ANETFVAKDNKILCNKCTTRED----SPKCKGCFKAIVAG--   79 (101)
T ss_dssp             BCSSSCCBCCSSSCEEEETTEEEETTTCCCSSSCCCT-TSSCCEEETTEEECHHHHTTCC----CCBCSSSCCBCCSS--
T ss_pred             cCcccCCcccCCceEEEECccChhhcCCcccccCCCC-CcCeeECcCCEEEChhHhhhhc----CCccccCCCccccC--
Confidence            8999999998645788999999999999999999999 6778999999999999999999    99999999999721  


Q ss_pred             HHHHHHHHhhcCCCCc
Q psy12215        129 YEERQVFANIAYNPSS  144 (155)
Q Consensus       129 ~~~~~~~~~~~~hp~~  144 (155)
                       +..+.++|+.|||..
T Consensus        80 -~~~~~a~~~~~H~~C   94 (101)
T 2cup_A           80 -DQNVEYKGTVWHKDC   94 (101)
T ss_dssp             -SCEEESSSCEEETTT
T ss_pred             -CeEEEeCCcchHHhC
Confidence             234567888999974

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

Probab=99.72  E-value=7.2e-19  Score=118.44  Aligned_cols=87  Identities=24%  Similarity=0.510  Sum_probs=76.6

Q ss_pred             cccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhhcccCCCeeeecCCeecchhh
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCDNKILCEYD  128 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~c~~c~~~i~c~~~  128 (155)
                      +|.+|+++|.+. .++.+.++.||++||+|..|+++| .+..|+.++|++||..||.+++    +++|..|+++|...  
T Consensus         5 ~C~~C~~~I~~~-~~~~a~~~~~H~~CF~C~~C~~~L-~~~~f~~~~g~~yC~~cy~~~~----~~~C~~C~~~I~~~--   76 (126)
T 2xqn_T            5 RCAGCDELIFSN-EYTQAENQNWHLKHFCCFDCDSIL-AGEIYVMVNDKPVCKPCYVKNH----AVVCQGCHNAIDPE--   76 (126)
T ss_dssp             BBTTTSSBCCSS-CEEEETTEEECGGGSBCTTTCCBC-TTSEEEEETTEEEEHHHHHHHS----CCBCTTTCSBCCTT--
T ss_pred             CCccCCCEeCCc-eEEeeCCCCccCCCCCcCCCCCCC-CcCEEEeECCEEechHHhCcCc----CccCcccCCcCCcC--
Confidence            899999999863 477899999999999999999999 6778999999999999999999    99999999999821  


Q ss_pred             HHHHHHHHhhcCC--CCc
Q psy12215        129 YEERQVFANIAYN--PSS  144 (155)
Q Consensus       129 ~~~~~~~~~~~~h--p~~  144 (155)
                       +..++++++.||  |..
T Consensus        77 -~~~~~a~~~~~H~~~~C   93 (126)
T 2xqn_T           77 -VQRVTYNNFSWHASTEC   93 (126)
T ss_dssp             -SCEEEETTEEEESSTTT
T ss_pred             -ceEEECCCCEeeCCCCC
Confidence             134667889999  863

>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=99.70  E-value=1.3e-18  Score=115.37  Aligned_cols=86  Identities=40%  Similarity=0.728  Sum_probs=70.5

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccccccccccCceEEeccCcccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQ   80 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~   80 (155)
                      |+++.||+.||+|+.|+++|.+.+..|+.++|++||+.||.++|++  +|..|..   +  .++.               
T Consensus        21 a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~~y~~~f~~--~c~~c~~---~--~~~~---------------   78 (114)
T 1j2o_A           21 AIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGGS--GGHMGSG---G--DVMV---------------   78 (114)
T ss_dssp             CSSSEECTTTCCCSSSCSCCCCSSSCCCCBTTBCCCHHHHHHHHTS--CCSSCBS---C--SCCC---------------
T ss_pred             ECchhHHHhcCcccccCCchhcCCCeeEEECCeeechHHHHHHhCc--ccCcCCC---C--ceeE---------------
Confidence            6899999999999999999964345799999999999999999999  8887762   1  2221               


Q ss_pred             CCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         81 CNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        81 C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      |+..+..++.|+..++++||..|+.++.
T Consensus        79 ~~~~~~~g~~f~~~~~~~~C~~~~~~~~  106 (114)
T 1j2o_A           79 VGEPTLMGGEFGDEDERLITRLENTQFD  106 (114)
T ss_dssp             SSCSSTTSSBCCCSSSCCCEEEECTTCC
T ss_pred             cCCccCCCCeeEEcCCEeecchhhhccc
Confidence            3455447889999999999999988765

>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=99.69  E-value=2e-17  Score=103.10  Aligned_cols=73  Identities=30%  Similarity=0.574  Sum_probs=63.2

Q ss_pred             CeeecccchhccccccccccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         32 NLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        32 ~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      ..+||++||.+++++  +|..|+++|.+  .++.+.++.||++||+|..|+++|..+..+...++.+||..||.+.+
T Consensus         2 ~~~yC~~dy~~~~~~--~C~~C~~~I~~--~~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~~~~C~~C~~~~~   74 (81)
T 1v6g_A            2 SSGSSGLDYQRLYGT--RCFSCDQFIEG--EVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCSLPVS   74 (81)
T ss_dssp             CCCCCCSCGGGSCCC--BCTTTCCBCCS--CCEEETTEEECTTTSSCSSSCCCCCSSSCEEEETTEEEEHHHHSCCS
T ss_pred             CCCcchHHHHhHhCC--cCccccCEecc--ceEEECCceeCccCCccccCCCCCCCCCEEEeCCCCEEChhhhcccC
Confidence            468999999999999  99999999985  57889999999999999999999954555556666789999997765

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

Probab=99.67  E-value=6.8e-18  Score=114.30  Aligned_cols=88  Identities=25%  Similarity=0.529  Sum_probs=75.1

Q ss_pred             cccccccccccCceEEeccCccccccccccccCCccccc-CCeEEeeCCeeecHHhHHhhhcccCCC--eeeecCCeecc
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCV-GDRFYLCDNKILCEYDYEERQVFCVGD--RFYLCDNKILC  125 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~-~~~~~~~~~~~~C~~c~~~~~~~~~~~--~c~~c~~~i~c  125 (155)
                      +|.+|+++|.+ ..++.+.++.||++||+|..|+.+|.. +..|+.++|++||..||.+++    ++  +|..|.++|..
T Consensus         4 ~C~~C~~~I~~-~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~----~~~~~C~~C~~~I~~   78 (131)
T 2xjy_A            4 TCGGCQQNIGD-RYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLF----GQDGLCASCDKRIRA   78 (131)
T ss_dssp             BBTTTCCBCCS-SEEEEETTEEEETTTCBCTTTCCBCSSTTCCEEEETTEEECHHHHHHHH----CCCEECTTTCCEECT
T ss_pred             cCcCCCCEeCC-cEEEEECCCcccHHHcccCcCCCccccCCCeEEEECCEEeecCchhhhC----CCccChhhcCCccCc
Confidence            79999999986 446789999999999999999999952 468999999999999999999    88  99999999972


Q ss_pred             hhhHHHHHHHHhhcCCCCc
Q psy12215        126 EYDYEERQVFANIAYNPSS  144 (155)
Q Consensus       126 ~~~~~~~~~~~~~~~hp~~  144 (155)
                      .   +..+.+.++.|||..
T Consensus        79 ~---e~~~~a~~~~~H~~C   94 (131)
T 2xjy_A           79 Y---EMTMRVKDKVYHLEC   94 (131)
T ss_dssp             T---SEEEEETTEEEEGGG
T ss_pred             c---ceeEeeCCceECccC
Confidence            1   123456788999863

>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=99.66  E-value=8.8e-17  Score=97.89  Aligned_cols=68  Identities=25%  Similarity=0.431  Sum_probs=61.2

Q ss_pred             cccccccccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhhcccCCCeee
Q psy12215         43 LFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFY  117 (155)
Q Consensus        43 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~c~  117 (155)
                      ++++  +|..|+++|.+.+.++.+.++.||++||+|..|+++| .+..|+..++++||..||.+++    +++|.
T Consensus         3 ~~~~--~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~~~~yC~~cy~~~f----~~~C~   70 (72)
T 1x4k_A            3 SGSS--GCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPI-GTKSFIPKDNQNFCVPCYEKQH----ASGPS   70 (72)
T ss_dssp             SCCC--CBSSSCCCCCSSSCEEEETTEEEETTTTCCSSSCCCC-CSSSEEEETTEEEEHHHHHHHT----SSCCC
T ss_pred             ccCC--CCccCCCcccCCceEEEECcCeecccCCcccccCCcc-CCCccCccCCeEECHHHHhHHh----CCCCC
Confidence            4566  8999999999766788999999999999999999999 5668999999999999999999    88775

>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=99.66  E-value=3.3e-17  Score=100.93  Aligned_cols=71  Identities=24%  Similarity=0.427  Sum_probs=63.5

Q ss_pred             ccccccccccccccccc--CceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhhcccCCCeeeecC
Q psy12215         43 LFGTTGYCAACTKVIPA--FEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCD  120 (155)
Q Consensus        43 ~~~~~~~C~~C~~~I~~--~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~c~~c~  120 (155)
                      ++++  +|.+|+++|.+  .+.++.+.++.||++||+|..|+++| .+..|+..++++||..||.+++    +++|..++
T Consensus         3 ~~~~--~C~~C~~~I~~~g~~~~~~a~~~~wH~~CF~C~~C~~~L-~~~~f~~~~g~~yC~~cy~~~f----~~~C~~~s   75 (76)
T 1x68_A            3 SGSS--GCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSL-VGKGFLTQNKEIFCQKCGSGMD----TDISGPSS   75 (76)
T ss_dssp             TCCC--CCTTTCCCCCTTTTCCEEEETTEEEEGGGCBCTTTCCBC-SSSCEEEETTEEEETTTTCCCC----CCSSSSSC
T ss_pred             ccCC--CCccCCCcccCCCCceeEEECCcccCcccCChhhCCCcC-CCCceEeECCEEECHHHhhhhh----CCcCCCCC
Confidence            4666  89999999986  45788999999999999999999999 6788999999999999999999    88887664

>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=99.66  E-value=1.2e-16  Score=97.27  Aligned_cols=68  Identities=18%  Similarity=0.327  Sum_probs=60.9

Q ss_pred             cccccccccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhhcccCCCeee
Q psy12215         43 LFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFY  117 (155)
Q Consensus        43 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~c~  117 (155)
                      ++++  +|.+|+++|.+.+.++.+.++.||++||+|..|+++| .+..|+..++++||..||.+++    +++|.
T Consensus         3 ~~~~--~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~~~~yC~~cy~~~f----~~~C~   70 (72)
T 1wyh_A            3 SGSS--GCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPL-GSRSFVPDKGAHYCVPCYENKF----ASGPS   70 (72)
T ss_dssp             CCCC--BCSSSCCBCCSSSCEECSTTCCEETTTCBCTTTCCBT-TTSCEEEETTEEEEHHHHHHHT----SCCCC
T ss_pred             ccCC--CCccCCCccccCccEEEECccccCcccCeECCCCCcC-CCCccCCcCCeEECHHHHHHHc----cCcCC
Confidence            4555  8999999999756788999999999999999999999 6667999999999999999999    88775

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

Probab=99.65  E-value=3.4e-17  Score=116.84  Aligned_cols=102  Identities=17%  Similarity=0.308  Sum_probs=81.7

Q ss_pred             CCeeecccchh---ccccccccccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhh
Q psy12215         31 ANLILCKRDYL---RLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER  107 (155)
Q Consensus        31 ~~~~~C~~c~~---~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~  107 (155)
                      ++..+|...+.   ....+  +|.+|+++|.+ ..++.+.++.||+.||+|..|+++| .+..| .++|++||..||.++
T Consensus        43 ~~~~~~~~~~~~~~~~~~~--~C~~C~~~I~~-~~~~~a~~~~wH~~CF~C~~C~~~L-~~~~f-~~~g~~yC~~~y~~~  117 (182)
T 2jtn_A           43 DDEGGSGGHMGSGGTPEIP--MCAGCDQHILD-RFILKALDRHWHSKCLKCSDCHVPL-AERCF-SRGESVYCKDDFFKR  117 (182)
T ss_dssp             SSSCSSSSSCCCCCCCSCC--BCBTSSSBCCC-SEEEEETTEEECSSTTSCTTTCCCC-SSCCE-EETTEEECHHHHHHT
T ss_pred             ccccccccccccCCCCCCC--cCccCCCCccC-ceeEEecCCeEccccCccCCCCCcc-CCCce-eECCEeeecCccccc
Confidence            45678887775   23334  89999999987 4567899999999999999999999 44444 789999999999999


Q ss_pred             hcccCCCeeeecCCeecchhhHHHHHHHHhhcCCCCc
Q psy12215        108 QVFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPSS  144 (155)
Q Consensus       108 ~~~~~~~~c~~c~~~i~c~~~~~~~~~~~~~~~hp~~  144 (155)
                      +    +++|..|.++|....   ..+.+.+..||+..
T Consensus       118 f----~~kC~~C~~~I~~~~---~v~~a~~~~~H~~C  147 (182)
T 2jtn_A          118 F----GTKCAACQLGIPPTQ---VVRRAQDFVYHLHC  147 (182)
T ss_dssp             T----SCCCTTTCCCCCSSC---CCCEETTEECCTTT
T ss_pred             c----ccccccCCCccCCCc---eEEecCCCCEEeCC
Confidence            9    999999999997311   12246778999864

>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=99.63  E-value=4.2e-17  Score=116.93  Aligned_cols=88  Identities=24%  Similarity=0.467  Sum_probs=75.1

Q ss_pred             cccccccccccCceEEeccCccccccccccccCCccccc-CCeEEeeCCeeecHHhHHhhhcccCCC--eeeecCCeecc
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCV-GDRFYLCDNKILCEYDYEERQVFCVGD--RFYLCDNKILC  125 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~-~~~~~~~~~~~~C~~c~~~~~~~~~~~--~c~~c~~~i~c  125 (155)
                      +|.+|+++|.+ ..++.+.++.||++||+|..|+++|.. +..|+.++|++||..||.+++    ++  +|..|.++|..
T Consensus         7 ~C~~C~~~I~~-~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~cy~~~~----~~~~~C~~C~~~I~~   81 (188)
T 1rut_X            7 RCAGCGGKIAD-RFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLF----GNSGACSACGQSIPA   81 (188)
T ss_dssp             BBTTTCCBCCC-SEEEEETTEEECGGGCBCTTTCCBHHHHCSEEEEETTEEECHHHHHHHH----SCCEECTTTCCEECT
T ss_pred             cCccCCCEeCC-ceeEEecCcEecccCcccCCCCcccccCCceEEEeCCcccccccccccc----ccCCccccCCCcccc
Confidence            89999999986 457789999999999999999999944 578999999999999999999    77  79999999972


Q ss_pred             hhhHHHHHHHHhhcCCCCc
Q psy12215        126 EYDYEERQVFANIAYNPSS  144 (155)
Q Consensus       126 ~~~~~~~~~~~~~~~hp~~  144 (155)
                      .   +..+.+.++.|||..
T Consensus        82 ~---e~~i~a~~~~~H~~C   97 (188)
T 1rut_X           82 S---ELVMRAQGNVYHLKC   97 (188)
T ss_dssp             T---SEEEEETTEEECGGG
T ss_pred             C---cEEEEcCCCEEeCCC
Confidence            1   123456788999864

>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=99.63  E-value=2.4e-16  Score=97.00  Aligned_cols=70  Identities=17%  Similarity=0.340  Sum_probs=62.4

Q ss_pred             cccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecH-HhHHhhhcccCCCeeeecCCeec
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCE-YDYEERQVFCVGDRFYLCDNKIL  124 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~-~c~~~~~~~~~~~~c~~c~~~i~  124 (155)
                      +|.+|+++|.+.+ .+.+.++.||++||+|..|+++| .+..|+..++.+||. .||.+++    +++|..|++.+.
T Consensus         2 ~C~~C~~~I~~~~-~v~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~g~~yC~~~cy~~~f----~~~C~~C~~~~~   72 (76)
T 1iml_A            2 KCPKCDKEVYFAE-RVTSLGKDWHRPCLKCEKCGKTL-TSGGHAEHEGKPYCNHPCYSAMF----GPKGFGRGGAES   72 (76)
T ss_dssp             BCTTTSSBCCGGG-EEEETTEEEETTTCBCTTTCCBC-CTTTEEEETTEEEETTTHHHHHS----SCCCSSCCCSSS
T ss_pred             cCCCCCCEEECce-EEEECCccccCCCCCccccCccC-CCCceECcCCeEeeCHHHHHHHh----CccCCCcCCcee
Confidence            7999999998644 56888999999999999999999 556799999999999 6999999    999999987654

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

Probab=99.62  E-value=2.4e-16  Score=97.18  Aligned_cols=64  Identities=25%  Similarity=0.622  Sum_probs=57.2

Q ss_pred             cccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhhcccCCCeee
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFY  117 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~c~  117 (155)
                      +|.+|+++|.+.+.++.+.++.||++||+|..|+++| .+..|+..+|++||+.||.+++    +++|.
T Consensus        13 ~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~g~~yC~~~y~~~f----~~~C~   76 (77)
T 1g47_A           13 TCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQF-PEGLFYEFEGRKYCEHDFQMLF----APCWI   76 (77)
T ss_dssp             BCSSSCCBCCSTTTCEEETTEEECTTTCCCTTTCCCC-GGGCSEEETTEEECHHHHHHHC----CCC--
T ss_pred             CchhcCCccCCCceEEEeCccEeccccCeECCCCCCC-CCCCeEeECCeEeCHHHHHHHh----hcccC
Confidence            8999999998767888999999999999999999999 5557899999999999999999    88875

>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=99.61  E-value=5.3e-16  Score=94.48  Aligned_cols=59  Identities=27%  Similarity=0.569  Sum_probs=54.7

Q ss_pred             ccccccccccc--CceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         49 YCAACTKVIPA--FEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        49 ~C~~C~~~I~~--~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      +|.+|+++|.+  ++.++.+.++.||++||+|..|+++| .+..|+.+++++||..||.+++
T Consensus         7 ~C~~C~~~I~~~~~~~~~~a~~~~wH~~CF~C~~C~~~L-~~~~f~~~~g~~yC~~c~~~~~   67 (72)
T 1x4l_A            7 GCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSL-VGRGFLTERDDILCPDCGKDIS   67 (72)
T ss_dssp             SBTTTTBCCCCSSSCSCEECSSCEECTTTCBCSSSCCBC-TTSCCEECSSSEECHHHHHTCC
T ss_pred             CCcCCCccccCCCCcceEEECCcccCcccCEeccCCCcC-CCCccEeECCEEEChhHcCccc
Confidence            89999999986  45788999999999999999999999 6788999999999999999988

>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=99.60  E-value=2e-16  Score=105.92  Aligned_cols=71  Identities=24%  Similarity=0.427  Sum_probs=64.3

Q ss_pred             cccccccccccCceEEeccCccccccccccccCCccccc-CCeEEeeCCeeecHHhHHhhhcccCCC--eeeecCCeec
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCV-GDRFYLCDNKILCEYDYEERQVFCVGD--RFYLCDNKIL  124 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~-~~~~~~~~~~~~C~~c~~~~~~~~~~~--~c~~c~~~i~  124 (155)
                      +|.+|+++|.+. .++.+.++.||++||+|..|+++|.. +..|+.++|++||..||.+++    ++  +|..|+++|.
T Consensus         7 ~C~~C~~~I~~~-~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~cy~~~f----~~~~~C~~C~~~I~   80 (122)
T 1m3v_A            7 RCAGCGGKIADR-FLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLF----GNSGAGGSGGHMGS   80 (122)
T ss_dssp             CBSSSSSCCCSS-CCEEETTEEECHHHHCCSSSCCCTTTSEECCEEETTEEECHHHHHHHH----CCCCSSSCSSCCSC
T ss_pred             CCcccCCEeCCc-EEEEECCceeHhhCCCcCCCCCcccccCCeEEEECCeeecHHHHHHHc----CCCCccccCCCCcC
Confidence            899999999873 45789999999999999999999942 467999999999999999999    88  9999999998

>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=99.60  E-value=9e-16  Score=97.45  Aligned_cols=74  Identities=22%  Similarity=0.305  Sum_probs=63.5

Q ss_pred             ecccchhccccccccccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhhcccCCC
Q psy12215         35 LCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGD  114 (155)
Q Consensus        35 ~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~  114 (155)
                      ..+..+...+.+  +|.+|+++|.+  .++.+.++.||++||+|..|+++| .+..|+..++++||..||.+++    ++
T Consensus        15 ~~~~~~~~~~~~--~C~~C~~~I~~--~~v~a~~~~~H~~CF~C~~C~~~L-~~~~f~~~~g~~yC~~cy~~~f----~~   85 (90)
T 2dar_A           15 RAEHIPAGKRTP--MCAHCNQVIRG--PFLVALGKSWHPEEFNCAHCKNTM-AYIGFVEEKGALYCELCYEKFF----AS   85 (90)
T ss_dssp             CCEEECTTTCCC--BBSSSCCBCCS--CEEEETTEEECTTTCBCSSSCCBC-SSSCBEESSSCEECHHHHHHHT----SC
T ss_pred             hcccCCCCCCCC--CCccCCCEecc--eEEEECCccccccCCccCCCCCCC-CCCEeEeECCEEECHHHHHHHc----CC
Confidence            344445666777  89999999964  577899999999999999999999 5677999999999999999999    88


Q ss_pred             eee
Q psy12215        115 RFY  117 (155)
Q Consensus       115 ~c~  117 (155)
                      +|.
T Consensus        86 ~c~   88 (90)
T 2dar_A           86 GPS   88 (90)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            775

>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=99.60  E-value=9.7e-16  Score=91.74  Aligned_cols=61  Identities=30%  Similarity=0.630  Sum_probs=55.0

Q ss_pred             cccccccccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         43 LFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        43 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      ++++  +|++|+++|.+  .++.+.++.||++||+|..|+++| .+..|+..++.+||..||.+++
T Consensus         3 ~~~~--~C~~C~~~I~~--~~~~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~g~~yC~~~y~~~f   63 (66)
T 1nyp_A            3 MGVP--ICGACRRPIEG--RVVNAMGKQWHVEHFVCAKCEKPF-LGHRHYERKGLAYCETHYNQLF   63 (66)
T ss_dssp             CCCC--EETTTTEECCS--CEECCTTSBEETTTCBCTTTCCBC-SSSCCEEETTEEECHHHHHHHC
T ss_pred             cCCC--CCcccCCEecc--eEEEECccccccCcCEECCCCCCC-CCCceEeECCcEECHHHHHHHh
Confidence            3455  89999999984  578999999999999999999999 6778999999999999999988

>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=99.60  E-value=6.7e-16  Score=93.24  Aligned_cols=62  Identities=23%  Similarity=0.591  Sum_probs=56.8

Q ss_pred             cccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhhcccCCCeee
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFY  117 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~c~  117 (155)
                      +|..|+++|.+ + .+.+.++.||++||+|..|+++| .+..|+..++++||..||.+++    +++|.
T Consensus         7 ~C~~C~~~I~~-~-~~~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~~~~yC~~cy~~~f----~~~C~   68 (69)
T 2cur_A            7 GCVKCNKAITS-G-GITYQDQPWHADCFVCVTCSKKL-AGQRFTAVEDQYYCVDCYKNFV----SGPSS   68 (69)
T ss_dssp             CCSSSCCCCCT-T-CEEETTEEECTTTTBCTTTCCBC-TTSCEEECSSCEEEHHHHHHHH----TCSCC
T ss_pred             CCcccCCEeCc-c-eEEECccccccCcCEECCCCCCC-CCCccEeECCEEECHHHhHHHh----cCCCC
Confidence            89999999986 3 57899999999999999999999 6778999999999999999999    88875

>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=99.59  E-value=5.9e-16  Score=96.40  Aligned_cols=67  Identities=21%  Similarity=0.518  Sum_probs=54.2

Q ss_pred             cccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhhcccCCCeeeecCC
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCDN  121 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~c~~c~~  121 (155)
                      +|..|+++|.+.+ .+.+.++.||++||+|..|+++| .+..|+..++++||..||.+++    +++|..|++
T Consensus         9 ~C~~C~~~I~~~~-~~~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~~~~yC~~cy~~~f----~~~c~gcg~   75 (81)
T 1a7i_A            9 KCGACGRTVYHAE-EVQCDGRSFHRCCFLCMVCRKNL-DSTTVAIHDAEVYCKSCYGKKY----GPKGYGYGQ   75 (81)
T ss_dssp             BCSSSCCBCSSTT-EEEETTEEEESSSEECSSSCCEE-CSSCCEEETTEEECSHHHHHHC----C--------
T ss_pred             cCcCcCccccCce-eEEeCCcccccccCccCCCCCCC-CCCCeEeeCCEEECHHHHHHHh----CCcccccCC
Confidence            8999999998645 67899999999999999999999 6667999999999999999999    999999875

>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=99.59  E-value=1e-15  Score=92.91  Aligned_cols=64  Identities=25%  Similarity=0.590  Sum_probs=56.9

Q ss_pred             ccccccccccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         42 RLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        42 ~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      ..+++  +|.+|+++|.+.+.++.+.++.||++||+|..|+++|. +..|+..+|++||..||.++|
T Consensus         8 ~~~~~--~C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~-~~~~~~~~g~~yC~~~y~~lf   71 (72)
T 3f6q_B            8 GSASA--TCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFP-EGLFYEFEGRKYCEHDFQMLF   71 (72)
T ss_dssp             CCTTC--BCTTTCCBCCTTCEEEEETTEEEETTTSSCTTTCCCCG-GGCCEEETTEEECHHHHHHHT
T ss_pred             CcCCc--cchhcCccccCCceEEEeCcCeeCcCCCcccCCCCCCC-CCCeEeECCeEeCHHHHHHhh
Confidence            35566  89999999998777888999999999999999999994 447889999999999999887

>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=99.59  E-value=8.2e-16  Score=93.09  Aligned_cols=65  Identities=23%  Similarity=0.458  Sum_probs=57.9

Q ss_pred             ccccccccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhhcccCCCeee
Q psy12215         44 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFY  117 (155)
Q Consensus        44 ~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~c~  117 (155)
                      +++  +|.+|+++|.+  ..+.+.++.||++||+|..|+++| .+..|+..++++||..||.+++    +++|.
T Consensus         4 ~~~--~C~~C~~~I~~--~~~~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~~~~yC~~cy~~~f----~~~c~   68 (70)
T 2d8z_A            4 GSS--GCVQCKKPITT--GGVTYREQPWHKECFVCTACRKQL-SGQRFTARDDFAYCLNCFCDLY----ASGPS   68 (70)
T ss_dssp             CCC--BCSSSCCBCCS--SEEESSSSEEETTTSBCSSSCCBC-TTSCCEESSSSEECHHHHHHHT----CCCCT
T ss_pred             CCC--CCcccCCeecc--ceEEECccccCCCCCccCCCCCcC-CcCceEeeCCeEECHHHHHHHh----ccccC
Confidence            445  89999999986  357899999999999999999999 6778999999999999999999    88764

>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=99.58  E-value=1.8e-15  Score=92.01  Aligned_cols=59  Identities=25%  Similarity=0.616  Sum_probs=55.2

Q ss_pred             cccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      +|.+|+++|.+.+.++.+.++.||+.||+|..|+++| .+..|+.+++++||..||.+++
T Consensus         7 ~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~~~~yC~~cy~~~~   65 (72)
T 1x61_A            7 GCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQL-RGQHFYAVERRAYCEGCYVATL   65 (72)
T ss_dssp             CCSSSCSCCCSSSCCEECSSSEECTTTCBCSSSCCBC-TTSCEEESSSCEEEHHHHHHHH
T ss_pred             CCccCCCccCCCceEEEECCCeEcccCCcccccCCcC-CcCcCEeeCCeEECHHHHHHHH
Confidence            8999999998766788999999999999999999999 7788999999999999999887

>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=99.57  E-value=1.7e-15  Score=93.15  Aligned_cols=67  Identities=19%  Similarity=0.367  Sum_probs=58.6

Q ss_pred             cccccccccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecH-HhHHhhhcccCCCeee
Q psy12215         43 LFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCE-YDYEERQVFCVGDRFY  117 (155)
Q Consensus        43 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~-~c~~~~~~~~~~~~c~  117 (155)
                      .+++  +|.+|+++|.+.+ .+.+.++.||++||+|..|+++| .+..|+.+++++||. .||.+++    +++|.
T Consensus         7 ~~~~--~C~~C~~~I~~~~-~v~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~g~~yC~~~cy~~~f----~~kc~   74 (76)
T 2cu8_A            7 GMAS--KCPKCDKTVYFAE-KVSSLGKDWHKFCLKCERCSKTL-TPGGHAEHDGKPFCHKPCYATLF----GSGPS   74 (76)
T ss_dssp             CCCC--BCTTTCCBCCTTT-EEEETTEEEETTTCBCSSSCCBC-CTTSCEEETTEEECTTTHHHHHS----CSSCS
T ss_pred             CCCC--CCcCCCCEeECCe-EEEECCeEeeCCCCCCCCCCCcc-CCCceEeECCEEecchHHHHHhc----ccccC
Confidence            3455  8999999999645 56799999999999999999999 677899999999999 7999999    88775

>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=99.56  E-value=2.4e-16  Score=111.16  Aligned_cols=86  Identities=19%  Similarity=0.461  Sum_probs=71.5

Q ss_pred             cccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhhcccCCCeeeecCCeecchhh
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCDNKILCEYD  128 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~c~~c~~~i~c~~~  128 (155)
                      +|.+|+++|.+ ..++.+.++.||+.||+|..|+++| .+.. +.++|++||..||.+++    +++|..|+++|.... 
T Consensus         8 ~C~~C~~~I~~-~~~~~a~~~~wH~~CF~C~~C~~~L-~~~~-f~~~g~~yC~~~y~~~f----~~~C~~C~~~I~~~~-   79 (169)
T 2rgt_A            8 MCAGCDQHILD-RFILKALDRHWHSKCLKCSDCHVPL-AERC-FSRGESVYCKDDFFKRF----GTKCAACQLGIPPTQ-   79 (169)
T ss_dssp             BBSSSSSBCCS-SSCEECSSCEECTTTSBCTTTCCBC-CSCC-EESSSCEECHHHHHHHH----SCBCTTTCCBCCTTS-
T ss_pred             ccccCCCccCC-cEEEEECCcEEccccCccCCCCCcC-CCCC-cccCCeeeecccccccc----cccccccccccCCCc-
Confidence            89999999986 4467899999999999999999999 4444 47899999999999999    999999999997211 


Q ss_pred             HHHHHHHHhhcCCCCc
Q psy12215        129 YEERQVFANIAYNPSS  144 (155)
Q Consensus       129 ~~~~~~~~~~~~hp~~  144 (155)
                        ..+.+.+..||+..
T Consensus        80 --~v~~a~~~~~H~~C   93 (169)
T 2rgt_A           80 --VVRRAQDFVYHLHC   93 (169)
T ss_dssp             --EEEEETTEEEEGGG
T ss_pred             --EEEEcCCceEeeCC
Confidence              11246678999863

>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=99.55  E-value=3.2e-15  Score=91.33  Aligned_cols=62  Identities=26%  Similarity=0.505  Sum_probs=55.7

Q ss_pred             cccccccccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         43 LFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        43 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      ++++  +|++|+++|.+  .++.+.++.||++||+|..|+++|..+..|+..++++||..||.+.+
T Consensus         3 ~~~~--~C~~C~~~I~~--~~v~a~~~~wH~~CF~C~~C~~~L~~~~~f~~~~~~~yC~~C~~~~~   64 (73)
T 1wig_A            3 SGSS--GCDSCEKYITG--RVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWHPACRQAAR   64 (73)
T ss_dssp             CSCC--SCSSSCCCCSS--CCBCCSSCCBCTTTSCCSSSCCCCCSSCCCEEETTEEECTTHHHHTS
T ss_pred             cCcC--CcccCCCEecC--eeEEeCCCCCCCCcCEeCCCCCCCCCCCeeEeeCCEEEChHHChHhh
Confidence            4566  89999999986  57789999999999999999999944788999999999999999876

>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=99.54  E-value=7.4e-16  Score=110.73  Aligned_cols=59  Identities=20%  Similarity=0.546  Sum_probs=53.0

Q ss_pred             ccccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         48 GYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        48 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      .+|..|+++|...+ .+.+.++.||++||+|..|+++| .+..|+.+++++||+.||.+++
T Consensus         8 ~~C~~C~~~I~~~~-~v~a~g~~wH~~CF~C~~C~~~L-~~~~~~~~~g~~yC~~cy~~~f   66 (192)
T 1b8t_A            8 KKCGVCQKAVYFAE-EVQCEGSSFHKSCFLCMVCKKNL-DSTTVAVHGDEIYCKSCYGKKY   66 (192)
T ss_dssp             EECTTTCCEECSSC-CEEETTEEECTTTCBCTTTCCBC-CSSSEEEETTEEEEHHHHHHHH
T ss_pred             CcCccCCCeeccee-EEEeCCceecCCCCcCcccCCcC-CCCeeEecCCEeeChhhhHhhc
Confidence            38999999998644 55789999999999999999999 5667999999999999999998

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

Probab=99.54  E-value=5.6e-15  Score=88.20  Aligned_cols=58  Identities=22%  Similarity=0.548  Sum_probs=52.8

Q ss_pred             cccccccccccCceEEeccCcccc--ccccccccCCcccccCCeEEeeCCeeec-HHhHHhh
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYH--LECFACQQCNHRFCVGDRFYLCDNKILC-EYDYEER  107 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H--~~Cf~C~~C~~~l~~~~~~~~~~~~~~C-~~c~~~~  107 (155)
                      +|.+|+++|.+++..+.+.++.||  ++||+|..|+++| .+..|+.++|++|| ..||.++
T Consensus         4 ~C~~C~~~I~~~~~~v~a~~~~wH~~~~CF~C~~C~~~L-~~~~f~~~~g~~yC~~~C~~k~   64 (65)
T 2iyb_E            4 VCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCL-IGQKFMPVEGMVFCSVECKKRM   64 (65)
T ss_dssp             ECTTTSSEECTTSCEEEETTEEEETTTTTSBCTTTCCBC-TTSCCEEETTEEESSHHHHHTT
T ss_pred             CCcCCCCeeccCceEEEECCCccCCCCCCEECCCCCCcC-CCCceEEECCEEecCHHHhhhh
Confidence            899999999975578899999999  9999999999999 78889999999999 8998754

>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=99.53  E-value=4.7e-15  Score=92.15  Aligned_cols=62  Identities=29%  Similarity=0.581  Sum_probs=55.3

Q ss_pred             cccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhhcccCCCeee
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFY  117 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~c~  117 (155)
                      +|.+|+++|.+. ..+.+.++.||++||+|..|+++| .+ .|+.+++++||..||.+++    +++|.
T Consensus        17 ~C~~C~~~I~~~-~~v~a~~~~wH~~CF~C~~C~~~L-~~-~~~~~~g~~yC~~~y~~~f----g~~C~   78 (80)
T 2dj7_A           17 HCAGCKEEIKHG-QSLLALDKQWHVSCFKCQTCSVIL-TG-EYISKDGVPYCESDYHAQF----GSGPS   78 (80)
T ss_dssp             CCTTTCCCCSSS-CCEEETTEEECTTTCBCSSSCCBC-SS-CCEEETTEEECTTHHHHHT----TCCST
T ss_pred             CCcCcCCeeCCC-eEEEECCcccccccCCcCcCCCCc-CC-CeEEECCEEECHHHHHHHc----CCCCC
Confidence            799999999864 456889999999999999999999 44 6899999999999999999    88774

>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=99.52  E-value=1.5e-14  Score=87.43  Aligned_cols=57  Identities=28%  Similarity=0.561  Sum_probs=52.4

Q ss_pred             cccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      +|..|+++|.+  .++.+.++.||++||+|..|+++| .+..|+.+++++||..||.+++
T Consensus         7 ~C~~C~~~I~~--~~~~a~~~~~H~~CF~C~~C~~~L-~~~~f~~~~g~~yC~~c~~~~~   63 (70)
T 2d8x_A            7 GCHQCGEFIIG--RVIKAMNNSWHPECFRCDLCQEVL-ADIGFVKNAGRHLCRPCHNREK   63 (70)
T ss_dssp             BCSSSCCBCCS--CCEEETTEEECTTTSBCSSSCCBC-SSSCCEEETTEEECHHHHHHHH
T ss_pred             cCccCCCEecc--eEEEECcccccccCCEeCCCCCcC-CCCccEeECCeEECHHHhhhhc
Confidence            89999999985  567899999999999999999999 5567889999999999999998

>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=99.51  E-value=1.6e-14  Score=91.41  Aligned_cols=62  Identities=24%  Similarity=0.614  Sum_probs=55.5

Q ss_pred             cccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhhcccCCCeee
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFY  117 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~c~  117 (155)
                      +|..|+++|.+  .++.+.++.||++||+|..|++.| .+..|+..++.+||..||.+++    ++++.
T Consensus        27 ~C~~C~~~I~~--~~~~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~g~~yC~~~y~~~f----~p~~~   88 (89)
T 1x64_A           27 LCDKCGSGIVG--AVVKARDKYRHPECFVCADCNLNL-KQKGYFFVEGELYCETHARART----SGPSS   88 (89)
T ss_dssp             BCTTTCCBCCS--CCEESSSCEECTTTCCCSSSCCCT-TTSCCEEETTEEECHHHHHHHS----SSCCC
T ss_pred             CcccCCCEecc--cEEEECCceECccCCEecCCCCCC-CCCCeEeECCEEECHHHHHHHh----CCCCC
Confidence            79999999986  567899999999999999999999 5667889999999999999998    66543

>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=99.50  E-value=7.5e-15  Score=90.24  Aligned_cols=54  Identities=24%  Similarity=0.417  Sum_probs=48.6

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecc-cchhccccccccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCK-RDYLRLFGTTGYCAACTKVIP   58 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~-~c~~~~~~~~~~C~~C~~~I~   58 (155)
                      |+|+.||++||+|+.|+++|..  ..|+.++|++||+ .||.++|++  +|.+|++.+.
T Consensus        18 a~~~~~H~~CF~C~~C~~~L~~--~~~~~~~g~~yC~~~cy~~~f~~--~C~~C~~~~~   72 (76)
T 1iml_A           18 SLGKDWHRPCLKCEKCGKTLTS--GGHAEHEGKPYCNHPCYSAMFGP--KGFGRGGAES   72 (76)
T ss_dssp             ETTEEEETTTCBCTTTCCBCCT--TTEEEETTEEEETTTHHHHHSSC--CCSSCCCSSS
T ss_pred             ECCccccCCCCCccccCccCCC--CceECcCCeEeeCHHHHHHHhCc--cCCCcCCcee
Confidence            5789999999999999999953  4699999999999 699999999  9999987664

>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=99.50  E-value=1.3e-14  Score=96.00  Aligned_cols=67  Identities=25%  Similarity=0.579  Sum_probs=59.1

Q ss_pred             cccccccccccCceEEeccCccccccccccccCCccccc-CCeEEeeCCeeecHHhHHhhhcccCCCeeeecC
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCV-GDRFYLCDNKILCEYDYEERQVFCVGDRFYLCD  120 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~-~~~~~~~~~~~~C~~c~~~~~~~~~~~~c~~c~  120 (155)
                      +|.+|+++|.+ ..++.+.++.||+.||+|..|+++|.. +..|+.+++++||+.||.+++    +++|..|.
T Consensus         5 ~C~~C~~~I~~-~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~~y~~~f----~~~c~~c~   72 (114)
T 1j2o_A            5 TCGGCQQNIGD-RYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLG----GSGGHMGS   72 (114)
T ss_dssp             CBSSSCSCBCS-SEEEECSSSEECTTTCCCSSSCSCCCCSSSCCCCBTTBCCCHHHHHHHH----TSCCSSCB
T ss_pred             CCcCCCCeeCC-cEEEEECchhHHHhcCcccccCCchhcCCCeeEEECCeeechHHHHHHh----CcccCcCC
Confidence            89999999986 457889999999999999999999942 368999999999999999999    88876653

>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=99.49  E-value=1.2e-14  Score=92.31  Aligned_cols=66  Identities=21%  Similarity=0.551  Sum_probs=58.4

Q ss_pred             cccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhhcccCCCeeeecC
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCD  120 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~c~~c~  120 (155)
                      +|..|+++|.+.+ .+.+.++.||++||+|..|+++| .+..|+..++++||..||.+++    +++|..+.
T Consensus        17 ~C~~C~~~I~~~~-~v~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~g~~yC~~~y~~~f----~~kc~~~~   82 (91)
T 2d8y_A           17 TCVECQKTVYPME-RLLANQQVFHISCFRCSYCNNKL-SLGTYASLHGRIYCKPHFNQLF----KSKGNYDE   82 (91)
T ss_dssp             BCTTTCCBCCTTS-EEECSSSEEETTTCBCTTTCCBC-CTTTCCCSSSCCCCHHHHHHHS----CCCSCCCS
T ss_pred             cCccCCCccCCce-eEEECCCEECCCCCeeCCCCCCC-CCCCcEeECCEEECHHHHHHHh----CCCcCccC
Confidence            8999999998755 45899999999999999999999 5556889999999999999999    88887544

>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=99.49  E-value=7.9e-15  Score=90.84  Aligned_cols=61  Identities=21%  Similarity=0.582  Sum_probs=54.9

Q ss_pred             cccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhhcccCCCee
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRF  116 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~c  116 (155)
                      +|.+|+++|.+  .++.+.++.||+.||+|..|+++| .+..|+.+++++||..||.+++    +++.
T Consensus        17 ~C~~C~~~I~~--~~~~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~g~~yC~~cy~~~~----~p~g   77 (79)
T 1x62_A           17 MCDKCGTGIVG--VFVKLRDRHRHPECYVCTDCGTNL-KQKGHFFVEDQIYCEKHARERV----SGPS   77 (79)
T ss_dssp             CCSSSCCCCCS--SCEECSSCEECTTTTSCSSSCCCH-HHHCCEESSSCEECHHHHHHHH----SSCC
T ss_pred             ccccCCCCccC--cEEEECcceeCcCcCeeCCCCCCC-CCCCeEeECCEEECHHHHHHHh----CCCC
Confidence            89999999986  478999999999999999999999 5667889999999999999998    6654

>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=99.47  E-value=1.7e-14  Score=88.67  Aligned_cols=50  Identities=22%  Similarity=0.524  Sum_probs=45.6

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACT   54 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~C~   54 (155)
                      |+++.||++||+|+.|+++|.  +..|+.+++++||+.||.++|++  +|+.++
T Consensus        26 a~~~~wH~~CF~C~~C~~~L~--~~~f~~~~g~~yC~~cy~~~f~~--~C~~~s   75 (76)
T 1x68_A           26 FQDSQWHSECFNCGKCSVSLV--GKGFLTQNKEIFCQKCGSGMDTD--ISGPSS   75 (76)
T ss_dssp             ETTEEEEGGGCBCTTTCCBCS--SSCEEEETTEEEETTTTCCCCCC--SSSSSC
T ss_pred             ECCcccCcccCChhhCCCcCC--CCceEeECCEEECHHHhhhhhCC--cCCCCC
Confidence            578999999999999999995  56799999999999999999999  898764

>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=99.47  E-value=4e-14  Score=87.70  Aligned_cols=56  Identities=21%  Similarity=0.485  Sum_probs=50.3

Q ss_pred             cccccccccccCceEEeccCccccccccccccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      +|.+|+++|.+  ..+.+.++.||++||+|..|+++| .+.. +.+++.+||..||.+++
T Consensus        17 ~C~~C~~~I~~--~~v~a~~~~~H~~CF~C~~C~~~L-~~~~-f~~~g~~yC~~cy~~~f   72 (79)
T 2cor_A           17 ICQKCHAIIDE--QPLIFKNDPYHPDHFNCANCGKEL-TADA-RELKGELYCLPCHDKMG   72 (79)
T ss_dssp             BCTTTCCBCCS--CCCCCSSSCCCTTTSBCSSSCCBC-CTTC-EEETTEEECHHHHHTTS
T ss_pred             CCccCCCEecc--eEEEECcceeCCCCCEeCCCCCcc-CCCC-EeECCEEeCHHHHHHhC
Confidence            89999999984  567899999999999999999999 4554 48899999999999988

>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=99.45  E-value=1.5e-14  Score=90.00  Aligned_cols=53  Identities=19%  Similarity=0.316  Sum_probs=39.6

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhcccccccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVI   57 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~C~~~I   57 (155)
                      |+++.||++||+|+.|+++|.  +..|+.+++++||+.||.++|++  +|.+|++..
T Consensus        25 a~~~~~H~~CF~C~~C~~~L~--~~~~~~~~~~~yC~~cy~~~f~~--~c~gcg~g~   77 (81)
T 1a7i_A           25 CDGRSFHRCCFLCMVCRKNLD--STTVAIHDAEVYCKSCYGKKYGP--KGYGYGQGA   77 (81)
T ss_dssp             ETTEEEESSSEECSSSCCEEC--SSCCEEETTEEECSHHHHHHCC------------
T ss_pred             eCCcccccccCccCCCCCCCC--CCCeEeeCCEEECHHHHHHHhCC--cccccCCcc
Confidence            578999999999999999995  34699999999999999999999  999998754

>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=99.44  E-value=5.3e-14  Score=94.22  Aligned_cols=59  Identities=27%  Similarity=0.600  Sum_probs=53.2

Q ss_pred             cccccccccccCceEEeccCccccccccccccCCccccc-CCeEEeeCCeeecHHhHHhhh
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCV-GDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~-~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      +|.+|+++|.+ ..++.+.++.||+.||+|..|+++|.. +..|+.++|++||+.||.++|
T Consensus        63 ~C~~C~~~I~~-~~~v~a~~~~wH~~CF~C~~C~~~L~~~g~~f~~~dg~~yC~~cy~~~F  122 (123)
T 2l4z_A           63 RCAGCGGKIAD-RFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLF  122 (123)
T ss_dssp             BBSSSSSBCCS-SSEEEETTEEEETTTSBCTTTCCBGGGTTCCCBCSSSCCBCHHHHHHHC
T ss_pred             cCcCCCCCcCC-cEEEEeCCcEEcccccCcCcCCCcccccCCceEEECCEEeCHHHhhhhc
Confidence            89999999986 446789999999999999999999942 578999999999999999987

>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=99.43  E-value=6.2e-14  Score=85.13  Aligned_cols=48  Identities=23%  Similarity=0.481  Sum_probs=43.4

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA   52 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~   52 (155)
                      |+|+.||++||+|+.|+++|.  +..|+.+++++||+.||.++|++  +|+.
T Consensus        24 a~~~~~H~~CF~C~~C~~~L~--~~~~~~~~~~~yC~~cy~~~f~~--~C~~   71 (72)
T 1wyh_A           24 YGGQTWHEHCFLCSGCEQPLG--SRSFVPDKGAHYCVPCYENKFAS--GPSS   71 (72)
T ss_dssp             STTCCEETTTCBCTTTCCBTT--TSCEEEETTEEEEHHHHHHHTSC--CCCC
T ss_pred             ECccccCcccCeECCCCCcCC--CCccCCcCCeEECHHHHHHHccC--cCCC
Confidence            678999999999999999995  45699999999999999999999  8863

>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=99.43  E-value=4.1e-14  Score=85.47  Aligned_cols=48  Identities=19%  Similarity=0.572  Sum_probs=43.5

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA   52 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~   52 (155)
                      |+++.||++||+|+.|+++|.  +..|+.+++++||+.||.+++++  +|++
T Consensus        22 a~~~~~H~~CF~C~~C~~~L~--~~~~~~~~~~~yC~~cy~~~f~~--~c~~   69 (70)
T 2d8z_A           22 YREQPWHKECFVCTACRKQLS--GQRFTARDDFAYCLNCFCDLYAS--GPSS   69 (70)
T ss_dssp             SSSSEEETTTSBCSSSCCBCT--TSCCEESSSSEECHHHHHHHTCC--CCTT
T ss_pred             ECccccCCCCCccCCCCCcCC--cCceEeeCCeEECHHHHHHHhcc--ccCC
Confidence            689999999999999999994  45799999999999999999999  8853

>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=99.42  E-value=4.6e-14  Score=85.07  Aligned_cols=48  Identities=23%  Similarity=0.510  Sum_probs=43.5

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA   52 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~   52 (155)
                      |+++.||++||+|+.|+++|.  +..|+.+++++||+.||.++|++  +|++
T Consensus        22 a~~~~~H~~CF~C~~C~~~L~--~~~~~~~~~~~yC~~cy~~~f~~--~C~g   69 (69)
T 2cur_A           22 YQDQPWHADCFVCVTCSKKLA--GQRFTAVEDQYYCVDCYKNFVSG--PSSG   69 (69)
T ss_dssp             ETTEEECTTTTBCTTTCCBCT--TSCEEECSSCEEEHHHHHHHHTC--SCCC
T ss_pred             ECccccccCcCEECCCCCCCC--CCccEeECCEEECHHHhHHHhcC--CCCC
Confidence            578999999999999999995  45799999999999999999999  8863

>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=99.40  E-value=7e-14  Score=84.87  Aligned_cols=48  Identities=23%  Similarity=0.468  Sum_probs=43.3

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA   52 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~   52 (155)
                      |+|+.||++||+|+.|+++|.  +..|+.+++++||+.||.+++++  +|+.
T Consensus        24 a~~~~~H~~CF~C~~C~~~L~--~~~~~~~~~~~yC~~cy~~~f~~--~C~~   71 (72)
T 1x4k_A           24 YKGSSWHETCFICHRCQQPIG--TKSFIPKDNQNFCVPCYEKQHAS--GPSS   71 (72)
T ss_dssp             ETTEEEETTTTCCSSSCCCCC--SSSEEEETTEEEEHHHHHHHTSS--CCCC
T ss_pred             ECcCeecccCCcccccCCccC--CCccCccCCeEECHHHHhHHhCC--CCCC
Confidence            578999999999999999995  45799999999999999999999  8863

>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=99.40  E-value=1.8e-13  Score=85.21  Aligned_cols=48  Identities=23%  Similarity=0.491  Sum_probs=43.7

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA   52 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~   52 (155)
                      |+|+.||+.||+|+.|+++|.  +..|+.+++++||+.||.+++++  +|++
T Consensus        34 a~~~~~H~~CF~C~~C~~~L~--~~~f~~~~~~~~C~~c~~~~~~~--~C~~   81 (82)
T 2ehe_A           34 YEDRHFHEGCFRCCRCQRSLA--DEPFTCQDSELLCNDCYCSAFSS--GPSS   81 (82)
T ss_dssp             CSSCCCBTTTSBCTTTCCBCS--SCCEEEETTEEEETTTSSCCGGG--SSCC
T ss_pred             eCCccccccCCeecCCCCccC--CCccEeeCCEEECHHHHhhhcCC--CCCC
Confidence            679999999999999999995  45799999999999999999998  8864

>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=99.40  E-value=1.1e-13  Score=82.65  Aligned_cols=44  Identities=30%  Similarity=0.715  Sum_probs=40.6

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT   46 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~   46 (155)
                      |+|+.||++||+|+.|+++|.  +..|+.++|++||+.||.++|++
T Consensus        22 a~~~~~H~~CF~C~~C~~~L~--~~~~~~~~g~~yC~~~y~~~f~~   65 (66)
T 1nyp_A           22 AMGKQWHVEHFVCAKCEKPFL--GHRHYERKGLAYCETHYNQLFGD   65 (66)
T ss_dssp             CTTSBEETTTCBCTTTCCBCS--SSCCEEETTEEECHHHHHHHCSC
T ss_pred             ECccccccCcCEECCCCCCCC--CCceEeECCcEECHHHHHHHhCC
Confidence            689999999999999999995  45799999999999999999986

>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=99.40  E-value=8e-14  Score=86.53  Aligned_cols=47  Identities=36%  Similarity=0.738  Sum_probs=42.6

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA   52 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~   52 (155)
                      |+++.||++||+|..|+++|.  + .|+.+++++||+.||.++|++  +|++
T Consensus        33 a~~~~wH~~CF~C~~C~~~L~--~-~~~~~~g~~yC~~~y~~~fg~--~C~~   79 (80)
T 2dj7_A           33 ALDKQWHVSCFKCQTCSVILT--G-EYISKDGVPYCESDYHAQFGS--GPSS   79 (80)
T ss_dssp             ETTEEECTTTCBCSSSCCBCS--S-CCEEETTEEECTTHHHHHTTC--CSTT
T ss_pred             ECCcccccccCCcCcCCCCcC--C-CeEEECCEEECHHHHHHHcCC--CCCC
Confidence            578999999999999999995  3 589999999999999999998  8863

>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=99.39  E-value=1.2e-13  Score=83.84  Aligned_cols=44  Identities=27%  Similarity=0.556  Sum_probs=40.7

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT   46 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~   46 (155)
                      |+|+.||++||+|+.|+++|.  +..|+.+++++||+.||.++++|
T Consensus        26 a~~~~wH~~CF~C~~C~~~L~--~~~f~~~~g~~yC~~c~~~~~~p   69 (72)
T 1x4l_A           26 FEERQWHNDCFNCKKCSLSLV--GRGFLTERDDILCPDCGKDISGP   69 (72)
T ss_dssp             CSSCEECTTTCBCSSSCCBCT--TSCCEECSSSEECHHHHHTCCCS
T ss_pred             ECCcccCcccCEeccCCCcCC--CCccEeECCEEEChhHcCcccCC
Confidence            679999999999999999995  56799999999999999999988

>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=99.39  E-value=8.1e-14  Score=88.33  Aligned_cols=48  Identities=19%  Similarity=0.469  Sum_probs=43.4

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA   52 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~   52 (155)
                      |+|+.||++||+|..|+++|.  +..|+.+++++||+.||.++|++  +|+.
T Consensus        42 a~~~~~H~~CF~C~~C~~~L~--~~~f~~~~g~~yC~~cy~~~f~~--~c~s   89 (90)
T 2dar_A           42 ALGKSWHPEEFNCAHCKNTMA--YIGFVEEKGALYCELCYEKFFAS--GPSS   89 (90)
T ss_dssp             ETTEEECTTTCBCSSSCCBCS--SSCBEESSSCEECHHHHHHHTSC--CCCC
T ss_pred             ECCccccccCCccCCCCCCCC--CCEeEeECCEEECHHHHHHHcCC--CCCC
Confidence            578999999999999999995  45699999999999999999999  8863

>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=99.38  E-value=1.3e-13  Score=84.56  Aligned_cols=48  Identities=29%  Similarity=0.532  Sum_probs=43.0

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecc-cchhccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCK-RDYLRLFGTTGYCAA   52 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~-~c~~~~~~~~~~C~~   52 (155)
                      |+++.||++||+|+.|+++|.  +..|+.+++++||+ +||.++|++  +|.+
T Consensus        27 a~~~~~H~~CF~C~~C~~~L~--~~~~~~~~g~~yC~~~cy~~~f~~--kc~g   75 (76)
T 2cu8_A           27 SLGKDWHKFCLKCERCSKTLT--PGGHAEHDGKPFCHKPCYATLFGS--GPSS   75 (76)
T ss_dssp             ETTEEEETTTCBCSSSCCBCC--TTSCEEETTEEECTTTHHHHHSCS--SCSC
T ss_pred             ECCeEeeCCCCCCCCCCCccC--CCceEeECCEEecchHHHHHhccc--ccCC
Confidence            578999999999999999995  45799999999999 799999999  8853

>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=99.37  E-value=1e-13  Score=86.38  Aligned_cols=58  Identities=19%  Similarity=0.525  Sum_probs=50.3

Q ss_pred             cccccccccccCceEEeccCccccccccccccCCcccccCCeEE--eeCCeeecHHhHHhhh
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFY--LCDNKILCEYDYEERQ  108 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~--~~~~~~~C~~c~~~~~  108 (155)
                      +|.+|+++|.+.+. +.+.++.||++||+|..|+++| ....|.  .+++++||+.||.+++
T Consensus        17 ~C~~C~~~I~~~e~-v~a~~~~wH~~CF~C~~C~~~L-~~~~~~~~~~~g~~yC~~~y~~~~   76 (82)
T 2co8_A           17 LCALCGEHLYVLER-LCVNGHFFHRSCFRCHTCEATL-WPGGYEQHPGDGHFYCLQHLPQTD   76 (82)
T ss_dssp             BCSSSCCBCCTTTB-CCBTTBCCBTTTCBCSSSCCBC-CTTSEECCTTTCCCEETTTCCCCC
T ss_pred             CCcccCCCcccceE-EEECCCeeCCCcCEEcCCCCCc-CCCceeEeCcCCEEEChHHHHhhh
Confidence            89999999986554 4689999999999999999999 566666  4689999999998876

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

Probab=99.37  E-value=1e-13  Score=85.25  Aligned_cols=47  Identities=23%  Similarity=0.540  Sum_probs=41.3

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhcccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCA   51 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~   51 (155)
                      |+|+.||+.||+|..|+++|..  ..|+.++|++||+.||.++|++  +|+
T Consensus        30 a~~~~~H~~CF~C~~C~~~L~~--~~~~~~~g~~yC~~~y~~~f~~--~C~   76 (77)
T 1g47_A           30 SNGELYHEQCFVCAQCFQQFPE--GLFYEFEGRKYCEHDFQMLFAP--CWI   76 (77)
T ss_dssp             ETTEEECTTTCCCTTTCCCCGG--GCSEEETTEEECHHHHHHHCCC--C--
T ss_pred             eCccEeccccCeECCCCCCCCC--CCeEeECCeEeCHHHHHHHhhc--ccC
Confidence            5789999999999999999964  4699999999999999999998  775

>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=99.36  E-value=2.8e-13  Score=83.87  Aligned_cols=48  Identities=25%  Similarity=0.521  Sum_probs=43.5

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA   52 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~   52 (155)
                      |+++.||++||+|+.|+++|.  +..|+.+++++||+.||.++|++  +|+.
T Consensus        32 a~~~~~H~~CF~C~~C~~~L~--~~~~~~~~~~~yC~~cy~~~f~~--~c~s   79 (80)
T 2cuq_A           32 YRDQPWHRECLVCTGCQTPLA--GQQFTSRDEDPYCVACFGELFAS--GPSS   79 (80)
T ss_dssp             SSSSEECTTTCBCSSSCCBCT--TCCEEECSSSEEEHHHHHHHTTC--STTC
T ss_pred             ECCchhhhhhCCcccCCCcCC--CCeeEeECCEEECHHHHHHHcCC--CCCC
Confidence            689999999999999999994  45799999999999999999998  7853

>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=99.34  E-value=3.9e-13  Score=84.96  Aligned_cols=47  Identities=17%  Similarity=0.360  Sum_probs=42.1

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhcccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCA   51 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~   51 (155)
                      |+++.||++||+|..|+++|.  +..|+.+++++||+.||.++|++  ++.
T Consensus        42 a~~~~~H~~CF~C~~C~~~L~--~~~~~~~~g~~yC~~~y~~~f~p--~~~   88 (89)
T 1x64_A           42 ARDKYRHPECFVCADCNLNLK--QKGYFFVEGELYCETHARARTSG--PSS   88 (89)
T ss_dssp             SSSCEECTTTCCCSSSCCCTT--TSCCEEETTEEECHHHHHHHSSS--CCC
T ss_pred             ECCceECccCCEecCCCCCCC--CCCeEeECCEEECHHHHHHHhCC--CCC
Confidence            688999999999999999995  34689999999999999999998  653

>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=99.34  E-value=2.2e-13  Score=84.33  Aligned_cols=48  Identities=23%  Similarity=0.608  Sum_probs=43.3

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA   52 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~   52 (155)
                      |+++.||+.||+|+.|+++|..  ..|+.+++++||+.||.++|++  +|++
T Consensus        32 a~~~~~H~~CF~C~~C~~~L~~--~~~~~~~~~~yC~~~y~~~f~~--~C~~   79 (80)
T 1x3h_A           32 AMDTVWHPECFVCGDCFTSFST--GSFFELDGRPFCELHYHHRRGS--GPSS   79 (80)
T ss_dssp             ETTEEECTTTCBCSSSCCBSCS--SCCEESSSCEECHHHHHHHHSS--SCCC
T ss_pred             ECCCeEecCcCChhhCCCCCCC--CcEEeECCEEECHHHHHHHcCC--CCCC
Confidence            5789999999999999999953  4699999999999999999999  8864

>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=99.33  E-value=2.9e-13  Score=84.07  Aligned_cols=48  Identities=25%  Similarity=0.526  Sum_probs=42.2

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEe-CCeeecccchhccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQK-ANLILCKRDYLRLFGTTGYCAA   52 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~-~~~~~C~~c~~~~~~~~~~C~~   52 (155)
                      |+++.||++||+|+.|+++|.  +..|+.. ++++||+.||.++|++  +|++
T Consensus        32 a~~~~~H~~CF~C~~C~~~L~--~~~f~~~~~g~~yC~~cy~~~f~~--~C~~   80 (81)
T 2dlo_A           32 AMGKAYHPGCFTCVVCHRGLD--GIPFTVDATSQIHCIEDFHRKFAS--GPSS   80 (81)
T ss_dssp             ETTEEECTTTCBCSSSCCBCT--TSCEECCTTCCCEEHHHHHHHTTS--SSCC
T ss_pred             ECCccccHHhcCcccCCCccC--CCeeEECCCCEEECHHHHHHHhcC--cCCC
Confidence            578999999999999999995  4567766 7899999999999999  8864

>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=99.32  E-value=5.2e-13  Score=81.02  Aligned_cols=48  Identities=25%  Similarity=0.593  Sum_probs=42.0

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhcccccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAAC   53 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~C   53 (155)
                      |+++.||+.||+|+.|+++|  .+..|+.+++++||+.||.+++..   |..+
T Consensus        24 a~~~~~H~~CF~C~~C~~~L--~~~~~~~~~~~~yC~~cy~~~~~~---~~~~   71 (72)
T 1x61_A           24 ALDRVFHVGCFVCSTCRAQL--RGQHFYAVERRAYCEGCYVATLES---GPSS   71 (72)
T ss_dssp             CSSSEECTTTCBCSSSCCBC--TTSCEEESSSCEEEHHHHHHHHHT---CSSC
T ss_pred             ECCCeEcccCCcccccCCcC--CcCcCEeeCCeEECHHHHHHHHcc---CCCC
Confidence            67899999999999999999  456799999999999999998863   6543

>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=99.32  E-value=7.6e-13  Score=82.27  Aligned_cols=47  Identities=21%  Similarity=0.517  Sum_probs=42.2

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhcccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCA   51 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~   51 (155)
                      |+++.||++||+|+.|+++|.  +..|+.+++++||+.||.+++++  ++.
T Consensus        34 a~~~~~H~~CF~C~~C~~~L~--~~~~~~~~~~~yC~~cy~~~f~~--~~~   80 (82)
T 1x63_A           34 YKGTVWHKDCFTCSNCKQVIG--TGSFFPKGEDFYCVTCHETKFAS--GPS   80 (82)
T ss_dssp             CSSCEEETTTCCCSSSCCCCT--TSCEEEETTEEEEHHHHHHHTSC--CCS
T ss_pred             ECccccccccCchhhCCCccC--CCccEeeCCEEECHHHHHHHhCC--CCC
Confidence            678999999999999999995  45799999999999999999998  553

>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=99.31  E-value=5.2e-13  Score=80.61  Aligned_cols=44  Identities=25%  Similarity=0.554  Sum_probs=40.0

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT   46 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~   46 (155)
                      |+++.||++||+|..|+++|..  ..|+.+++++||+.||.+++++
T Consensus        22 a~~~~~H~~CF~C~~C~~~L~~--~~f~~~~g~~yC~~c~~~~~~~   65 (70)
T 2d8x_A           22 AMNNSWHPECFRCDLCQEVLAD--IGFVKNAGRHLCRPCHNREKAS   65 (70)
T ss_dssp             ETTEEECTTTSBCSSSCCBCSS--SCCEEETTEEECHHHHHHHHCC
T ss_pred             ECcccccccCCEeCCCCCcCCC--CccEeECCeEECHHHhhhhcCC
Confidence            5789999999999999999954  4689999999999999999886

>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=99.31  E-value=1.2e-12  Score=80.97  Aligned_cols=43  Identities=14%  Similarity=0.179  Sum_probs=38.8

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT   46 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~   46 (155)
                      |+|+.||++||+|..|+++|..  . ++.++|++||+.||.++|+|
T Consensus        32 a~~~~~H~~CF~C~~C~~~L~~--~-~f~~~g~~yC~~cy~~~f~p   74 (79)
T 2cor_A           32 FKNDPYHPDHFNCANCGKELTA--D-ARELKGELYCLPCHDKMGVS   74 (79)
T ss_dssp             CSSSCCCTTTSBCSSSCCBCCT--T-CEEETTEEECHHHHHTTSCC
T ss_pred             ECcceeCCCCCEeCCCCCccCC--C-CEeECCEEeCHHHHHHhCCC
Confidence            6899999999999999999963  3 35999999999999999987

>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=99.30  E-value=2.6e-13  Score=83.89  Aligned_cols=44  Identities=18%  Similarity=0.360  Sum_probs=40.5

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT   46 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~   46 (155)
                      |+++.||++||+|..|+++|.  +..|+.+++++||+.||.++|++
T Consensus        32 a~~~~~H~~CF~C~~C~~~L~--~~~~~~~~g~~yC~~cy~~~~~p   75 (79)
T 1x62_A           32 LRDRHRHPECYVCTDCGTNLK--QKGHFFVEDQIYCEKHARERVSG   75 (79)
T ss_dssp             CSSCEECTTTTSCSSSCCCHH--HHCCEESSSCEECHHHHHHHHSS
T ss_pred             ECcceeCcCcCeeCCCCCCCC--CCCeEeECCEEECHHHHHHHhCC
Confidence            689999999999999999995  34689999999999999999988

>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=99.27  E-value=2.1e-12  Score=78.67  Aligned_cols=45  Identities=20%  Similarity=0.304  Sum_probs=40.0

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT   46 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~   46 (155)
                      |+|+.||++||+|+.|+++|.. +..|+..++++||+.||.+.+..
T Consensus        22 a~~~~wH~~CF~C~~C~~~L~~-~~~f~~~~~~~yC~~C~~~~~~~   66 (73)
T 1wig_A           22 AGEKHYHPSCALCVRCGQMFAE-GEEMYLQGSSIWHPACRQAARTE   66 (73)
T ss_dssp             CSSCCBCTTTSCCSSSCCCCCS-SCCCEEETTEEECTTHHHHTSSS
T ss_pred             eCCCCCCCCcCEeCCCCCCCCC-CCeeEeeCCEEEChHHChHhhcc
Confidence            7899999999999999999952 45799999999999999987754

>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=99.27  E-value=6.9e-13  Score=84.16  Aligned_cols=47  Identities=26%  Similarity=0.533  Sum_probs=42.9

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhcccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCA   51 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~   51 (155)
                      |+++.||+.||+|+.|+++|..  ..|+.+++++||+.||.+++++  +|.
T Consensus        33 a~~~~~H~~CF~C~~C~~~L~~--~~~~~~~g~~yC~~~y~~~f~~--kc~   79 (91)
T 2d8y_A           33 ANQQVFHISCFRCSYCNNKLSL--GTYASLHGRIYCKPHFNQLFKS--KGN   79 (91)
T ss_dssp             CSSSEEETTTCBCTTTCCBCCT--TTCCCSSSCCCCHHHHHHHSCC--CSC
T ss_pred             ECCCEECCCCCeeCCCCCCCCC--CCcEeECCEEECHHHHHHHhCC--CcC
Confidence            6899999999999999999964  4589999999999999999999  886

>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=99.24  E-value=9.6e-13  Score=88.05  Aligned_cols=45  Identities=51%  Similarity=1.312  Sum_probs=40.1

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhcccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG   45 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~   45 (155)
                      |+|+.||+.||+|..|+++|.+.+..|+.++|++||+.||.++|+
T Consensus        79 a~~~~wH~~CF~C~~C~~~L~~~g~~f~~~dg~~yC~~cy~~~Fg  123 (123)
T 2l4z_A           79 AMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG  123 (123)
T ss_dssp             ETTEEEETTTSBCTTTCCBGGGTTCCCBCSSSCCBCHHHHHHHCC
T ss_pred             eCCcEEcccccCcCcCCCcccccCCceEEECCEEeCHHHhhhhcC
Confidence            678999999999999999996434579999999999999999875

>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=99.22  E-value=2e-12  Score=78.21  Aligned_cols=43  Identities=26%  Similarity=0.607  Sum_probs=38.4

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhcccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG   45 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~   45 (155)
                      |+|+.||++||+|+.|+++|..  ..|+..+|++||+.||.++|+
T Consensus        30 ~~~~~~H~~CF~C~~C~~~L~~--~~~~~~~g~~yC~~~y~~lf~   72 (72)
T 3f6q_B           30 SNGELYHEQCFVCAQCFQQFPE--GLFYEFEGRKYCEHDFQMLFA   72 (72)
T ss_dssp             ETTEEEETTTSSCTTTCCCCGG--GCCEEETTEEECHHHHHHHTC
T ss_pred             eCcCeeCcCCCcccCCCCCCCC--CCeEeECCeEeCHHHHHHhhC
Confidence            5789999999999999999964  368999999999999998774

>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=99.21  E-value=5.3e-12  Score=78.25  Aligned_cols=48  Identities=15%  Similarity=0.400  Sum_probs=41.1

Q ss_pred             CCCccccccCcccccCCcccccCCCeEE-EeCCeeecccchhcccccccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLY-QKANLILCKRDYLRLFGTTGYCA   51 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~-~~~~~~~C~~c~~~~~~~~~~C~   51 (155)
                      |+++.||++||+|+.|+++|.. +..|+ ..++++||+.||.+++++  .+.
T Consensus        32 a~~~~~H~~CF~C~~C~~~L~~-g~~f~~~~~~~~~C~~c~~~~~~~--~~s   80 (81)
T 1x6a_A           32 AGEFKYHPECFACMSCKVIIED-GDAYALVQHATLYCGKCHNEVVSG--PSS   80 (81)
T ss_dssp             CTTCCBCTTSCBCTTTCCBCCT-TSCEEECSSSCEEEHHHHHHHHCT--TSC
T ss_pred             ECCceeccccCCccCCCCccCC-CCcEEEeeCCEEECHHHHHHHhcC--CCC
Confidence            6899999999999999999963 34577 489999999999999987  553

>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=99.20  E-value=5e-12  Score=78.67  Aligned_cols=44  Identities=16%  Similarity=0.388  Sum_probs=38.2

Q ss_pred             CCCccccccCcccccCCcccccCCCeEE--EeCCeeecccchhccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLY--QKANLILCKRDYLRLFGT   46 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~--~~~~~~~C~~c~~~~~~~   46 (155)
                      |+|+.||++||+|+.|+++|..  ..|+  .+++++||+.||.+++.+
T Consensus        33 a~~~~wH~~CF~C~~C~~~L~~--~~~~~~~~~g~~yC~~~y~~~~~~   78 (82)
T 2co8_A           33 VNGHFFHRSCFRCHTCEATLWP--GGYEQHPGDGHFYCLQHLPQTDSG   78 (82)
T ss_dssp             BTTBCCBTTTCBCSSSCCBCCT--TSEECCTTTCCCEETTTCCCCCCC
T ss_pred             ECCCeeCCCcCEEcCCCCCcCC--CceeEeCcCCEEEChHHHHhhhcC
Confidence            5789999999999999999954  4566  479999999999998865

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

Probab=99.15  E-value=1e-11  Score=73.87  Aligned_cols=41  Identities=24%  Similarity=0.758  Sum_probs=36.5

Q ss_pred             CCCcccc--ccCcccccCCcccccCCCeEEEeCCeeec-ccchhcc
Q psy12215          1 ALDLFWH--EDCLKCGCCDCRLGEVGSTLYQKANLILC-KRDYLRL   43 (155)
Q Consensus         1 A~~~~~H--~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C-~~c~~~~   43 (155)
                      |+|+.||  ++||+|+.|+++|  .+..|+.++|++|| .+||.++
T Consensus        21 a~~~~wH~~~~CF~C~~C~~~L--~~~~f~~~~g~~yC~~~C~~k~   64 (65)
T 2iyb_E           21 YNNFSWHASTECFLCSCCSKCL--IGQKFMPVEGMVFCSVECKKRM   64 (65)
T ss_dssp             ETTEEEETTTTTSBCTTTCCBC--TTSCCEEETTEEESSHHHHHTT
T ss_pred             ECCCccCCCCCCEECCCCCCcC--CCCceEEECCEEecCHHHhhhh
Confidence            5789999  9999999999999  45679999999999 8888754

>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=99.15  E-value=7.6e-12  Score=76.76  Aligned_cols=40  Identities=18%  Similarity=0.472  Sum_probs=36.1

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLR   42 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~   42 (155)
                      |+++.||+.||+|+.|+++|.  +..|+.+++++||++||.+
T Consensus        37 a~~~~~H~~CF~C~~C~~~L~--~~~f~~~~~~~yC~~cy~~   76 (77)
T 2egq_A           37 YEGQSWHDYCFHCKKCSVNLA--NKRFVFHQEQVYCPDCAKK   76 (77)
T ss_dssp             ETTEEEETTTCBCSSSCCBCT--TSCCCEETTEECCHHHHHH
T ss_pred             ECcceeCcccCEehhcCCCCC--CCccEeECCEEEChHHhcc
Confidence            578999999999999999995  4579999999999999965

>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=98.88  E-value=7.8e-10  Score=68.32  Aligned_cols=45  Identities=20%  Similarity=0.410  Sum_probs=34.9

Q ss_pred             CCCccccccCcccccCCcccccCCCeEEEeCCeeecccchhccccc
Q psy12215          1 ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT   46 (155)
Q Consensus         1 A~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~   46 (155)
                      |+++.||++||+|+.|+++|... ..|...++.+||+.||.+.++.
T Consensus        32 a~~~~wH~~CF~C~~C~~~L~~~-~~~~~~~~~~~C~~C~~~~~~~   76 (81)
T 1v6g_A           32 ALGKTYHPDCFVCAVCRLPFPPG-DRVTFNGKECMCQKCSLPVSVS   76 (81)
T ss_dssp             ETTEEECTTTSSCSSSCCCCCSS-SCEEEETTEEEEHHHHSCCSSC
T ss_pred             ECCceeCccCCccccCCCCCCCC-CEEEeCCCCEEChhhhcccCCC
Confidence            57899999999999999999642 2344455557999999876653

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

Probab=97.88  E-value=4.2e-06  Score=41.93  Aligned_cols=27  Identities=33%  Similarity=0.748  Sum_probs=24.0

Q ss_pred             cccccccccccCceEEeccCcccccccc
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      +|..|++.+++.|.+ .+.|+.||..||
T Consensus         5 ~C~~C~k~Vy~~Ek~-~~~g~~~Hk~CF   31 (31)
T 1zfo_A            5 NCARCGKIVYPTEKV-NCLDKFWHKACF   31 (31)
T ss_dssp             BCSSSCSBCCGGGCC-CSSSSCCCGGGC
T ss_pred             cCCccCCEEecceeE-EECCeEecccCC
Confidence            899999999987655 688999999997

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=94.10  E-value=0.048  Score=35.46  Aligned_cols=110  Identities=14%  Similarity=0.244  Sum_probs=70.9

Q ss_pred             cCcccccCCcccccC----CCeEEEeCCeeecccchhccccccccccccccccccCceEEeccCccccccccccccCCcc
Q psy12215          9 DCLKCGCCDCRLGEV----GSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHR   84 (155)
Q Consensus         9 ~Cf~C~~C~~~l~~~----~~~~~~~~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~   84 (155)
                      +=+.|..|-..+.+.    .......=|..||.+|..+.......|..|.+.+...+....    ..-..-..|..|...
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~l~~l----~i~~~~~~C~iC~~~   81 (133)
T 4ap4_A            6 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPI----YIGSGTVSCPICMDG   81 (133)
T ss_dssp             CSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTCEEEC----BCSSSSCBCTTTCCB
T ss_pred             CCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCcccccccc----ccCCCCCCCCCCCCc
Confidence            347888887777431    112456668899999998876544589999999976332211    123445678888887


Q ss_pred             ccc----CCe-EEeeCCeeecHHhHHhhhcccCCCeeeecCCeec
Q psy12215         85 FCV----GDR-FYLCDNKILCEYDYEERQVFCVGDRFYLCDNKIL  124 (155)
Q Consensus        85 l~~----~~~-~~~~~~~~~C~~c~~~~~~~~~~~~c~~c~~~i~  124 (155)
                      +..    ... ....=|..||..|..+..  .....|..|...+.
T Consensus        82 ~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~--~~~~~CP~Cr~~~~  124 (133)
T 4ap4_A           82 YSEIVQNGRLIVSTECGHVFCSQCLRDSL--KNANTCPTCRKKIN  124 (133)
T ss_dssp             HHHHHHTTCCEEEETTSBEEEHHHHHHHH--HHCSBCTTTCCBCC
T ss_pred             cccccccCcceEeCCCCChhhHHHHHHHH--HcCCCCCCCCCcCC
Confidence            732    112 333448999999987654  12457777777665

>1t1h_A Gspef-atpub14, armadillo repeat containing protein; ubiquitin ligase, E3 ligase, U-BOX,; NMR {Arabidopsis thaliana} SCOP: g.44.1.2

Probab=86.10  E-value=0.84  Score=26.61  Aligned_cols=49  Identities=4%  Similarity=0.142  Sum_probs=36.4

Q ss_pred             ccCcccccCCcccccCCCeEEEeCCeeecccchhccccc-ccccccccccccc
Q psy12215          8 EDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT-TGYCAACTKVIPA   59 (155)
Q Consensus         8 ~~Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~-~~~C~~C~~~I~~   59 (155)
                      +.-|.|..|...+.+   .....-|..||..|..+.+.. ...|..|...+..
T Consensus         6 ~~~~~C~IC~~~~~~---Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~   55 (78)
T 1t1h_A            6 PEYFRCPISLELMKD---PVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             SSSSSCTTTSCCCSS---EEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             cccCCCCCccccccC---CEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCCh
Confidence            345889999888742   456688999999998776532 3379999888864

>2ect_A Ring finger protein 126; metal binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=84.13  E-value=0.83  Score=26.64  Aligned_cols=50  Identities=16%  Similarity=0.281  Sum_probs=29.2

Q ss_pred             CcccccCCcccccCCCeEEEeCCeeecccchhcccccccccccccccccc
Q psy12215         10 CLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPA   59 (155)
Q Consensus        10 Cf~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~C~~~I~~   59 (155)
                      -+.|..|-..+..........=+..||..|..+.+.....|..|...|..
T Consensus        15 ~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   64 (78)
T 2ect_A           15 GLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTG   64 (78)
T ss_dssp             SCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCCCC
T ss_pred             CCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCccCC
Confidence            35677776666433222333456677777776654333367777777754

>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR {Oryza sativa} SCOP: g.44.1.1

Probab=82.42  E-value=1.1  Score=24.08  Aligned_cols=47  Identities=13%  Similarity=0.302  Sum_probs=25.1

Q ss_pred             cccccCCcccccCCCeEEEe-CCeeecccchhcccccccccccccccc
Q psy12215         11 LKCGCCDCRLGEVGSTLYQK-ANLILCKRDYLRLFGTTGYCAACTKVI   57 (155)
Q Consensus        11 f~C~~C~~~l~~~~~~~~~~-~~~~~C~~c~~~~~~~~~~C~~C~~~I   57 (155)
                      ..|..|-..+.+........ =+..||.+|..+.......|..|...|
T Consensus         6 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~   53 (55)
T 1iym_A            6 VECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV   53 (55)
T ss_dssp             CCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCS
T ss_pred             CcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEe
Confidence            45667766664332222222 456677777665443333566666554

---

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	155
d1rutx2	34	g.39.1.3 (X:49-82) LIM only 4 (Lmo4) {Mouse (Mus m	4e-13
d1j2oa2	33	g.39.1.3 (A:31-63) Rhombotin-2 (Lmo2) {Mouse (Mus	9e-13
d1rutx3	31	g.39.1.3 (X:83-113) LIM only 4 (Lmo4) {Mouse (Mus	4e-11
d1x3ha1	35	g.39.1.3 (A:8-42) Leupaxin {Human (Homo sapiens) [	0.003

>d1rutx2 g.39.1.3 (X:49-82) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]} Length = 34

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]

 Score = 57.5 bits (139), Expect = 4e-13
 Identities = 17/34 (50%), Positives = 26/34 (76%)

Query: 12 KCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 45
          KC  C  +LG++G++ Y K+ +ILC+ DY+RLFG
Sbjct: 1  KCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG 34

>d1j2oa2 g.39.1.3 (A:31-63) Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 10090]} Length = 33

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]

 Score = 56.8 bits (137), Expect = 9e-13
 Identities = 21/33 (63%), Positives = 22/33 (66%)

Query: 11 LKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 43
          L C  C CRLGEVG  LY K    LC+RDYLRL
Sbjct: 1  LSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRL 33

>d1rutx3 g.39.1.3 (X:83-113) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]} Length = 31

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]

 Score = 52.8 bits (127), Expect = 4e-11
 Identities = 19/30 (63%), Positives = 25/30 (83%)

Query: 47 TGYCAACTKVIPAFEMVMRAKNNVYHLECF 76
          +G C+AC + IPA E+VMRA+ NVYHL+CF
Sbjct: 2  SGACSACGQSIPASELVMRAQGNVYHLKCF 31

>d1x3ha1 g.39.1.3 (A:8-42) Leupaxin {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: Leupaxin
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 31.5 bits (72), Expect = 0.003
 Identities = 12/39 (30%), Positives = 20/39 (51%), Gaps = 4/39 (10%)

Query: 38 RDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECF 76
          +D+L +F     C  C + +   E  + A + V+H ECF
Sbjct: 1  KDFLAMFSPK--CGGCNRPVL--ENYLSAMDTVWHPECF 35

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	155
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	99.12
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	99.0
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	98.84
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	98.62
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.57
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	98.56
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.55
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	98.51
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.49
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	98.41
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.38
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	98.38
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	98.33
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.32
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	98.3
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	98.24
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.2
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	98.19
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.15
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.1
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	98.07
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	98.06
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	98.03
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	98.03
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.01
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.0
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.97
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	97.95
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.94
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.94
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	97.93
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	97.92
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	97.91
d1rutx2	34	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.89
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.89
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.87
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.86
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	97.86
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.84
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	97.83
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.8
d2co8a2	36	Nedd9 interacting protein with calponin homology,	97.79
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.79
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	97.78
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	97.78
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.73
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	97.71
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.62
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.61
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	97.6
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.59
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	97.59
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.58
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.54
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.53
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.5
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.49
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	97.46
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	97.42
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	97.42
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	97.39
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	97.33
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	97.3
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	97.28
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.22
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	97.19
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	97.13
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	97.11
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	97.01
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	96.92
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.85
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.81
d1j2oa2	33	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	96.8
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	96.76
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	96.64
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.63
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	96.6
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	96.59
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	96.58
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	96.44
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	96.44
d1rutx2	34	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	96.41
d1rutx4	33	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	96.39
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	96.2
d1rutx4	33	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	96.19
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	96.12
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	96.11
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	96.07
d1x61a1	27	Thyroid receptor interacting protein 6, TRIP6 {Hum	95.93
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	95.92
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	95.11
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	94.91
d1v6ga2	40	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	94.88
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	94.7
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	94.46
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	94.37
d2cora1	31	Pinch (particularly interesting new Cys-His) prote	94.37
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	93.62
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	92.52
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	92.27
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	91.53
d1x68a2	34	Four and a half LIM domains protein 5, FHL-5 {Huma	91.06
d1v6ga2	40	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	90.47
d1x68a2	34	Four and a half LIM domains protein 5, FHL-5 {Huma	89.1
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	87.41
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	82.66

>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=99.12  E-value=7.1e-12  Score=63.67  Aligned_cols=35  Identities=31%  Similarity=0.824  Sum_probs=32.3

Q ss_pred             cchhccccccccccccccccccCceEEeccCcccccccc
Q psy12215         38 RDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        38 ~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      +||.++|++  +|.+|+++|.+  .+++|.++.||++||
T Consensus         1 ~DY~~~fap--kC~~C~~~I~g--~~v~Al~~~wHpeCF   35 (35)
T d1x3ha1           1 KDFLAMFSP--KCGGCNRPVLE--NYLSAMDTVWHPECF   35 (35)
T ss_dssp             CCCCCCCSC--BCTTTCCBCCS--SCEEETTEEECTTTC
T ss_pred             CcHHHHhCh--hhhhcCCcccc--hheeecCCccCcccC
Confidence            489999999  99999999986  688999999999998

>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=99.00  E-value=4.2e-11  Score=60.65  Aligned_cols=34  Identities=21%  Similarity=0.495  Sum_probs=31.4

Q ss_pred             cccccCCcccccCCCeEEEeCCeeecccchhccccc
Q psy12215         11 LKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT   46 (155)
Q Consensus        11 f~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~   46 (155)
                      |+|+.|+++|.  +..|+.++|++||+.||.++|+|
T Consensus         1 F~C~~C~~~f~--~~~F~e~~G~pYCe~~Y~~lFAP   34 (35)
T d1g47a2           1 FVCAQCFQQFP--EGLFYEFEGRKYCEHDFQMLFAP   34 (35)
T ss_dssp             CCCTTTCCCCG--GGCSEEETTEEECHHHHHHHCCC
T ss_pred             CCCCCCcCCCC--CCCeEEECCEecChHhHHhhcCC
Confidence            79999999995  45799999999999999999987

>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=98.84  E-value=6.7e-10  Score=56.44  Aligned_cols=37  Identities=30%  Similarity=0.467  Sum_probs=34.6

Q ss_pred             cchhccccccccccccccccccCceEEeccCcccccccc
Q psy12215         38 RDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        38 ~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      +||.+.+++  +|.+|.++|.++++.+.+.+..||..||
T Consensus         1 kCy~~~~a~--~C~~C~k~I~~G~k~veykg~~WHe~CF   37 (37)
T d1x63a1           1 KCTTREDSP--KCKGCFKAIVAGDQNVEYKGTVWHKDCF   37 (37)
T ss_dssp             CCCSCCCSC--BCSSSCCBCCSSSCEEECSSCEEETTTC
T ss_pred             CccccccCc--ccccCCCccCCCCeEeEeCCccchhccC
Confidence            488899998  9999999999888999999999999998

>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=98.62  E-value=5.1e-09  Score=51.85  Aligned_cols=35  Identities=31%  Similarity=0.722  Sum_probs=29.3

Q ss_pred             ccchhccccccccccccccccccCceEEeccCcccccccc
Q psy12215         37 KRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        37 ~~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      ++||.....   +|..|+++|.  |+++.|.|+.|||.||
T Consensus         1 E~Cy~~tlE---kC~~C~~~I~--driLrA~Gk~yHP~CF   35 (35)
T d2dloa1           1 EGCYVATLE---KCATCSQPIL--DRILRAMGKAYHPGCF   35 (35)
T ss_dssp             CCCCCSSCC---BCTTTCCBCC--SCCEEETTEEECTTTC
T ss_pred             ChhHHHHHH---HHHHhchHHH--HHHHHHhCCCCCCCCC
Confidence            356666544   7999999996  4899999999999998

>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=98.57  E-value=9.4e-09  Score=50.63  Aligned_cols=35  Identities=26%  Similarity=0.556  Sum_probs=31.1

Q ss_pred             cchhccccccccccccccccccCceEEeccCcccccccc
Q psy12215         38 RDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        38 ~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      .||.++|++  +|..|+++|..  .-++..++.||.+||
T Consensus         1 PCyE~kfa~--~C~~Ckk~It~--GGvtY~dqpWHkeCF   35 (35)
T d2cuqa2           1 PCYENKFAP--RCARCSKTLTQ--GGVTYRDQPWHRECL   35 (35)
T ss_dssp             CCCCCCSSC--CCTTTCCCCCS--CCEESSSSEECTTTC
T ss_pred             CchHHHHHH--HHhhcCCcccc--CceeecCCcchhhhC
Confidence            489999999  99999999976  356899999999998

>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=98.56  E-value=9.7e-09  Score=49.81  Aligned_cols=32  Identities=19%  Similarity=0.561  Sum_probs=29.0

Q ss_pred             ccccCCcccccCCCeEEEeCCeeecccchhcccc
Q psy12215         12 KCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG   45 (155)
Q Consensus        12 ~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~   45 (155)
                      .|..|+++|  .++.|+++|++|||-.||..+|+
T Consensus         1 ~C~~C~~~L--~GQry~~rd~~PyC~~Cf~~lfA   32 (32)
T d2d8za2           1 VCTACRKQL--SGQRFTARDDFAYCLNCFCDLYA   32 (32)
T ss_dssp             BCSSSCCBC--TTSCCEESSSSEECHHHHHHHTC
T ss_pred             CcccCCccc--cCceeeecCCCeehHHhhHhhcC
Confidence            488999999  78999999999999999998774

>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=98.55  E-value=1.9e-08  Score=54.00  Aligned_cols=39  Identities=31%  Similarity=0.482  Sum_probs=33.4

Q ss_pred             ccccCCcccccCCCeEEEeCCeeecccchhccccccccccccc
Q psy12215         12 KCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACT   54 (155)
Q Consensus        12 ~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~C~~C~   54 (155)
                      +|..|++.|++.  +...+|++|||+.||.++|+|  +....+
T Consensus         1 KC~~C~k~Lds~--t~~ehdg~~YCk~CY~k~fGP--KG~g~G   39 (49)
T d1b8ta4           1 RCAKCGKSLEST--TLADKDGEIYCKGCYAKNFGP--KGFGFG   39 (49)
T ss_dssp             BCTTTCCBCCSS--SEEEETTEEEEHHHHHHHTCC--CCCCCC
T ss_pred             ChhhcCCccCCC--cccccCCcccchhhhhhccCC--CccCcc
Confidence            689999999864  578899999999999999999  665544

>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=98.51  E-value=3.1e-08  Score=49.81  Aligned_cols=32  Identities=31%  Similarity=0.698  Sum_probs=30.2

Q ss_pred             cccccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         76 FACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        76 f~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      |.|..|+++| .+..|++++|++||+.||.+++
T Consensus         1 F~C~~C~~~f-~~~~F~e~~G~pYCe~~Y~~lF   32 (35)
T d1g47a2           1 FVCAQCFQQF-PEGLFYEFEGRKYCEHDFQMLF   32 (35)
T ss_dssp             CCCTTTCCCC-GGGCSEEETTEEECHHHHHHHC
T ss_pred             CCCCCCcCCC-CCCCeEEECCEecChHhHHhhc
Confidence            7899999999 7888999999999999999998

>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=2.8e-08  Score=47.41  Aligned_cols=31  Identities=35%  Similarity=0.739  Sum_probs=27.2

Q ss_pred             ccccCCcccccCCCeEEEeCCeeecccchhcccc
Q psy12215         12 KCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG   45 (155)
Q Consensus        12 ~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~   45 (155)
                      +|..|++.|.  + .|..+||.|||+.||...|+
T Consensus         1 kC~~C~~vL~--g-EYm~kdG~PyCe~DY~~~FG   31 (31)
T d2dj7a1           1 KCQTCSVILT--G-EYISKDGVPYCESDYHAQFG   31 (31)
T ss_dssp             BCSSSCCBCS--S-CCEEETTEEECTTHHHHHTT
T ss_pred             CccccCcccc--c-eeecCCCCcccHHHHHHhcC
Confidence            6899999994  3 59999999999999998874

>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=98.41  E-value=5e-08  Score=47.03  Aligned_cols=29  Identities=66%  Similarity=1.255  Sum_probs=27.5

Q ss_pred             ccccccccccccCceEEeccCcccccccc
Q psy12215         48 GYCAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        48 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      +.|++|++.|.+.|.++++.+..||..||
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

>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=98.38  E-value=6.9e-08  Score=46.11  Aligned_cols=32  Identities=22%  Similarity=0.461  Sum_probs=28.6

Q ss_pred             ccccCCcccccCCCeEEEeCCeeecccchhcccc
Q psy12215         12 KCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG   45 (155)
Q Consensus        12 ~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~   45 (155)
                      .|+.|+++|  .++.|.++|++|||.+||-.+|+
T Consensus         1 vCt~Ck~~L--aGqrFTSrde~pYC~~Cfg~LfA   32 (32)
T d2cuqa1           1 VCTGCQTPL--AGQQFTSRDEDPYCVACFGELFA   32 (32)
T ss_dssp             BCSSSCCBC--TTCCEEECSSSEEEHHHHHHHTT
T ss_pred             CccccCccc--cCCccccCCCCccHHHHhHhhcC
Confidence            488999999  78899999999999999987763

>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=98.38  E-value=6.2e-08  Score=49.72  Aligned_cols=34  Identities=41%  Similarity=0.854  Sum_probs=31.3

Q ss_pred             cchhccccccccccccccccccCceEEeccCccccccc
Q psy12215         38 RDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLEC   75 (155)
Q Consensus        38 ~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~C   75 (155)
                      .||.++|+.  +|..|++.|.+  .++.+.++.|||.|
T Consensus         8 ~DYq~~fG~--~C~~C~~~ItG--~V~~Ag~~~yHP~C   41 (41)
T d1v6ga1           8 LDYQRLYGT--RCFSCDQFIEG--EVVSALGKTYHPDC   41 (41)
T ss_dssp             SCGGGSCCC--BCTTTCCBCCS--CCEEETTEEECTTT
T ss_pred             ccHHHHhCc--ccccccCEeee--eeeEecCcccCCCC
Confidence            589999999  99999999976  78899999999987

>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=98.33  E-value=9.2e-08  Score=44.72  Aligned_cols=30  Identities=33%  Similarity=0.648  Sum_probs=26.6

Q ss_pred             cccccCCcccccCCCeEEEeCCeeecccchhc
Q psy12215         11 LKCGCCDCRLGEVGSTLYQKANLILCKRDYLR   42 (155)
Q Consensus        11 f~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~   42 (155)
                      |+|+.|++.|++  .+...+||.+||+.||.+
T Consensus         1 frca~cgk~les--tt~adkdgeiyck~cyak   30 (31)
T d1ibia2           1 FRCAKCGKSLES--TTLTEKEGEIYCKGCYAK   30 (31)
T ss_dssp             EECSSSCCEECS--SCSEEETTEEECHHHHHH
T ss_pred             CccccccCcccc--ceeeccCCcEEEeeeeec
Confidence            799999999964  467899999999999975

>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=98.32  E-value=1.1e-07  Score=49.71  Aligned_cols=26  Identities=35%  Similarity=0.613  Sum_probs=24.2

Q ss_pred             cccccccccccCceEEeccCcccccccc
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      .|..|+++|.+  ..+++.|+.||+++|
T Consensus        20 ~C~~C~~pI~g--~~vtAlgk~WHPEhF   45 (45)
T d2dara2          20 MCAHCNQVIRG--PFLVALGKSWHPEEF   45 (45)
T ss_dssp             BBSSSCCBCCS--CEEEETTEEECTTTC
T ss_pred             eccccCCcccC--ceeeecCCccCcCCC
Confidence            79999999976  789999999999998

>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=98.30  E-value=2.1e-07  Score=49.25  Aligned_cols=34  Identities=24%  Similarity=0.413  Sum_probs=29.9

Q ss_pred             ccccCCcccccCCCeEEEeCCeeec-ccchhcccccc
Q psy12215         12 KCGCCDCRLGEVGSTLYQKANLILC-KRDYLRLFGTT   47 (155)
Q Consensus        12 ~C~~C~~~l~~~~~~~~~~~~~~~C-~~c~~~~~~~~   47 (155)
                      +|..|++.|++.  ....+|++||| +.||.++|+|+
T Consensus         1 kC~~C~K~L~sg--~~aeHdg~pYC~k~CY~~~FGPk   35 (48)
T d1imla2           1 KCEKCGKTLTSG--GHAEHEGKPYCNHPCYSAMFGPK   35 (48)
T ss_dssp             BCTTTCCBCCTT--TEEEETTEEEETTTHHHHHSSCC
T ss_pred             CchhcCcCcCCC--ChhhcCCcccccccchhhccCCC
Confidence            588999999764  58899999999 78999999993

>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=98.24  E-value=3.6e-07  Score=44.15  Aligned_cols=31  Identities=23%  Similarity=0.517  Sum_probs=28.6

Q ss_pred             ccccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         77 ACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        77 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      .|..|.++| .|++|..+|++|||-.||..+|
T Consensus         1 ~C~~C~~~L-~GQry~~rd~~PyC~~Cf~~lf   31 (32)
T d2d8za2           1 VCTACRKQL-SGQRFTARDDFAYCLNCFCDLY   31 (32)
T ss_dssp             BCSSSCCBC-TTSCCEESSSSEECHHHHHHHT
T ss_pred             CcccCCccc-cCceeeecCCCeehHHhhHhhc
Confidence            378899999 8999999999999999999876

>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=98.20  E-value=2.2e-07  Score=45.15  Aligned_cols=31  Identities=16%  Similarity=0.402  Sum_probs=27.1

Q ss_pred             ccccCCcccccCCCeEEEeCCeeecccchhccc
Q psy12215         12 KCGCCDCRLGEVGSTLYQKANLILCKRDYLRLF   44 (155)
Q Consensus        12 ~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~   44 (155)
                      +|.+|.+|+  .+..|++.||+|||+.+|.++.
T Consensus         1 VC~~C~~PF--~~~~Fy~~~g~PyCe~HyH~~~   31 (32)
T d1x3ha2           1 VCGDCFTSF--STGSFFELDGRPFCELHYHHRR   31 (32)
T ss_dssp             BCSSSCCBS--CSSCCEESSSCEECHHHHHHHH
T ss_pred             CcCccCCcC--CCCCeEeECCccchHHhhhhhc
Confidence            589999999  4567999999999999998764

>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=98.19  E-value=5.2e-07  Score=42.11  Aligned_cols=30  Identities=20%  Similarity=0.546  Sum_probs=27.7

Q ss_pred             cccccCCcccccCCeEEeeCCeeecHHhHHh
Q psy12215         76 FACQQCNHRFCVGDRFYLCDNKILCEYDYEE  106 (155)
Q Consensus        76 f~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~  106 (155)
                      |+|..|++.| .+.....+||.+||+.||.+
T Consensus         1 frca~cgk~l-estt~adkdgeiyck~cyak   30 (31)
T d1ibia2           1 FRCAKCGKSL-ESTTLTEKEGEIYCKGCYAK   30 (31)
T ss_dssp             EECSSSCCEE-CSSCSEEETTEEECHHHHHH
T ss_pred             CccccccCcc-ccceeeccCCcEEEeeeeec
Confidence            7899999999 88889999999999999975

>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=98.15  E-value=9.7e-07  Score=47.18  Aligned_cols=39  Identities=18%  Similarity=0.375  Sum_probs=34.0

Q ss_pred             ccccCCcccccCCeEEeeCCeeecHHhHHhhhcccCCCeeeecC
Q psy12215         77 ACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYLCD  120 (155)
Q Consensus        77 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~c~~c~  120 (155)
                      +|..|++.| .+.....+|+++||+.||-++|    |++.+.-.
T Consensus         1 KC~~C~k~L-ds~t~~ehdg~~YCk~CY~k~f----GPKG~g~G   39 (49)
T d1b8ta4           1 RCAKCGKSL-ESTTLADKDGEIYCKGCYAKNF----GPKGFGFG   39 (49)
T ss_dssp             BCTTTCCBC-CSSSEEEETTEEEEHHHHHHHT----CCCCCCCC
T ss_pred             ChhhcCCcc-CCCcccccCCcccchhhhhhcc----CCCccCcc
Confidence            588999999 5667888999999999999999    88877654

>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=98.10  E-value=6.5e-07  Score=50.57  Aligned_cols=36  Identities=28%  Similarity=0.524  Sum_probs=31.0

Q ss_pred             ccccCCcccccCCCeEEEeCCeeecccchhcccccccc
Q psy12215         12 KCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGY   49 (155)
Q Consensus        12 ~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~~~~   49 (155)
                      .|..|++.|++.  +...+++++||+.||.++|+|++.
T Consensus         1 ~C~~C~K~LdS~--~~~eh~~e~YCk~CY~k~fGPkG~   36 (65)
T d1b8ta2           1 LCMVCKKNLDST--TVAVHGDEIYCKSCYGKKYGPKGK   36 (65)
T ss_dssp             BCTTTCCBCCSS--SEEEETTEEEEHHHHHHHHSCCCC
T ss_pred             CchhcCCccCCC--ccccCCCcccchhhhccccCCCcc
Confidence            388999999764  588999999999999999999543

>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=98.07  E-value=6.3e-07  Score=42.76  Aligned_cols=25  Identities=32%  Similarity=0.646  Sum_probs=22.8

Q ss_pred             cccccccccccCceEEeccCccccccc
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLEC   75 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~C   75 (155)
                      +|+.|.++|.+  +++++.++.||+++
T Consensus         7 ~C~~C~~PI~~--~~vtAlgk~WHpEH   31 (31)
T d1u5sb1           7 ICGACRRPIEG--RVVNAMGKQWHVEH   31 (31)
T ss_dssp             EETTTTEECCS--CEECCTTSBEETTT
T ss_pred             chhhcCCchhh--hHhhhhccccCCCC
Confidence            89999999976  79999999999874

>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=98.06  E-value=1e-06  Score=42.22  Aligned_cols=31  Identities=19%  Similarity=0.373  Sum_probs=27.9

Q ss_pred             cccCCcccccCCCeEEEeCCeeecccchhcccc
Q psy12215         13 CGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG   45 (155)
Q Consensus        13 C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~   45 (155)
                      |..|.+||  +...|+.+++..||..||.++|+
T Consensus         2 C~~C~qPI--Gtksfipk~~~~yCvpCyE~kfA   32 (32)
T d1x4ka1           2 CHRCQQPI--GTKSFIPKDNQNFCVPCYEKQHA   32 (32)
T ss_dssp             CSSSCCCC--CSSSEEEETTEEEEHHHHHHHTS
T ss_pred             cccccCcc--cccccccCCCCceEeecchhhcC
Confidence            78899999  66789999999999999998874

>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=98.03  E-value=1.1e-06  Score=41.39  Aligned_cols=29  Identities=21%  Similarity=0.449  Sum_probs=26.1

Q ss_pred             ccccCCcccccCCCeEEEeCCeeecccchhc
Q psy12215         12 KCGCCDCRLGEVGSTLYQKANLILCKRDYLR   42 (155)
Q Consensus        12 ~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~   42 (155)
                      .|+.|+++|  .++.|...++++||-+||..
T Consensus         1 vC~~C~K~L--ag~rFTa~eDq~yCVdCYK~   29 (31)
T d2cura1           1 VCVTCSKKL--AGQRFTAVEDQYYCVDCYKN   29 (31)
T ss_dssp             BCTTTCCBC--TTSCEEECSSCEEEHHHHHH
T ss_pred             Ccccccchh--cCceeEEecceEEEeeeecc
Confidence            488999999  67899999999999999964

>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=98.01  E-value=2e-06  Score=41.62  Aligned_cols=31  Identities=29%  Similarity=0.747  Sum_probs=27.9

Q ss_pred             ccccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         77 ACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        77 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      .|..|.+++ .+..|++.+|+|||+.||.++.
T Consensus         1 VC~~C~~PF-~~~~Fy~~~g~PyCe~HyH~~~   31 (32)
T d1x3ha2           1 VCGDCFTSF-STGSFFELDGRPFCELHYHHRR   31 (32)
T ss_dssp             BCSSSCCBS-CSSCCEESSSCEECHHHHHHHH
T ss_pred             CcCccCCcC-CCCCeEeECCccchHHhhhhhc
Confidence            488999999 7889999999999999998764

>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=98.00  E-value=1.6e-06  Score=41.40  Aligned_cols=31  Identities=19%  Similarity=0.403  Sum_probs=27.8

Q ss_pred             cccCCcccccCCCeEEEeCCeeecccchhcccc
Q psy12215         13 CGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG   45 (155)
Q Consensus        13 C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~   45 (155)
                      |..|.+||  +...|..+++..||..||.++|+
T Consensus         2 C~~C~qPI--GtkSFip~~~~~yCvpCYE~kfA   32 (32)
T d1wyha1           2 CSGCEQPL--GSRSFVPDKGAHYCVPCYENKFA   32 (32)
T ss_dssp             CTTTCCBT--TTSCEEEETTEEEEHHHHHHHTS
T ss_pred             cccccCcc--cccccccCCCcEEEEeccccccC
Confidence            77899999  66789999999999999998874

>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=97.97  E-value=1.6e-06  Score=40.90  Aligned_cols=30  Identities=23%  Similarity=0.587  Sum_probs=26.7

Q ss_pred             ccccCCcccccCCCeEEEeCCeeecccchhcc
Q psy12215         12 KCGCCDCRLGEVGSTLYQKANLILCKRDYLRL   43 (155)
Q Consensus        12 ~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~   43 (155)
                      .|..|+..|  .++.|+..+.+.||+.||...
T Consensus         1 vC~tC~~kL--RGqpFYAvekkayCE~CYi~t   30 (32)
T d1x61a2           1 VCSTCRAQL--RGQHFYAVERRAYCEGCYVAT   30 (32)
T ss_dssp             BCSSSCCBC--TTSCEEESSSCEEEHHHHHHH
T ss_pred             CeeEeCcee--cCCcceEeeccccccceeeee
Confidence            478899999  789999999999999999753

>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=97.95  E-value=1.8e-06  Score=39.27  Aligned_cols=27  Identities=33%  Similarity=0.630  Sum_probs=25.0

Q ss_pred             ccccccccccCceEEeccCcccccccc
Q psy12215         50 CAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        50 C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      |..|.+.|.|+.+.+...|..||..||
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            778999999988899999999999998

>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=97.94  E-value=4.2e-06  Score=39.78  Aligned_cols=31  Identities=23%  Similarity=0.477  Sum_probs=28.4

Q ss_pred             ccccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         77 ACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        77 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      .|..|+++| .+++|..+|..+||..||-.+|
T Consensus         1 vCt~Ck~~L-aGqrFTSrde~pYC~~Cfg~Lf   31 (32)
T d2cuqa1           1 VCTGCQTPL-AGQQFTSRDEDPYCVACFGELF   31 (32)
T ss_dssp             BCSSSCCBC-TTCCEEECSSSEEEHHHHHHHT
T ss_pred             CccccCccc-cCCccccCCCCccHHHHhHhhc
Confidence            478999999 9999999999999999998776

>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=97.94  E-value=7.1e-07  Score=46.18  Aligned_cols=33  Identities=27%  Similarity=0.587  Sum_probs=29.5

Q ss_pred             ccccCCcccccCCCeEEEeCCeeecccchhccccc
Q psy12215         12 KCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT   46 (155)
Q Consensus        12 ~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~~   46 (155)
                      +|+.|++.|.  ...|...+|.+||+.+|.++|.+
T Consensus         1 rC~~C~~~Ls--~~~yas~~G~lYCkpHf~qLF~~   33 (42)
T d2d8ya2           1 RCSYCNNKLS--LGTYASLHGRIYCKPHFNQLFKS   33 (42)
T ss_dssp             BCTTTCCBCC--TTTCCCSSSCCCCHHHHHHHSCC
T ss_pred             CcCcCCCCcc--CCcchhhCCEeccHHHHHHHHHh
Confidence            6899999995  45699999999999999999987

>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=97.93  E-value=1.5e-06  Score=41.99  Aligned_cols=34  Identities=35%  Similarity=0.794  Sum_probs=30.3

Q ss_pred             cchhccccccccccccccccccCceEEeccCccccccc
Q psy12215         38 RDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLEC   75 (155)
Q Consensus        38 ~c~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~C   75 (155)
                      .||..+|+.  .|..|...|.+  .++.+.+..|||+|
T Consensus         1 kdYw~kfge--~C~~C~~~itG--pvMvAG~~K~HPEC   34 (34)
T d1x6aa1           1 KDYWGKFGE--FCHGCSLLMTG--PFMVAGEFKYHPEC   34 (34)
T ss_dssp             CCSSCCSSC--BCTTTCCBCCS--CCBCCTTCCBCTTS
T ss_pred             CcHHHHHHH--HhhhhHhhccc--ceeeecccccCCCC
Confidence            478899998  89999998875  78899999999987

>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=97.92  E-value=2.6e-06  Score=41.10  Aligned_cols=33  Identities=30%  Similarity=0.811  Sum_probs=30.7

Q ss_pred             cccccCCcccccCCCeEEEeCCeeecccchhcccc
Q psy12215         11 LKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG   45 (155)
Q Consensus        11 f~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~   45 (155)
                      |.|+.|.+|+  .+...+.+.|..||+.+|.++|+
T Consensus         1 FvCA~CekPF--~G~rhyE~~g~ayCe~Hy~qLfg   33 (35)
T d1u5sb2           1 FVCAKCEKPF--LGHRHYERKGLAYCETHYNQLFG   33 (35)
T ss_dssp             CBCTTTCCBC--SSSCCEEETTEEECHHHHHHHCS
T ss_pred             CcccccCCcc--CCchhhhhcCchHHHHHHHHHhc
Confidence            7899999999  67889999999999999999886

>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=97.91  E-value=6.5e-06  Score=39.64  Aligned_cols=32  Identities=31%  Similarity=0.754  Sum_probs=30.3

Q ss_pred             cccccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         76 FACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        76 f~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      |.|..|.+++ .+.+.+.+.|..||+.+|.++|
T Consensus         1 FvCA~CekPF-~G~rhyE~~g~ayCe~Hy~qLf   32 (35)
T d1u5sb2           1 FVCAKCEKPF-LGHRHYERKGLAYCETHYNQLF   32 (35)
T ss_dssp             CBCTTTCCBC-SSSCCEEETTEEECHHHHHHHC
T ss_pred             CcccccCCcc-CCchhhhhcCchHHHHHHHHHh
Confidence            7899999999 8999999999999999999988

>d1rutx2 g.39.1.3 (X:49-82) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.89  E-value=1.8e-06  Score=41.61  Aligned_cols=34  Identities=50%  Similarity=1.262  Sum_probs=31.3

Q ss_pred             ccccCCcccccCCCeEEEeCCeeecccchhcccc
Q psy12215         12 KCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG   45 (155)
Q Consensus        12 ~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~   45 (155)
                      +|+-|+..|.+.+...|.+.|.++|+.||.++|+
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            5888999999999999999999999999998874

>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=97.89  E-value=4.8e-06  Score=39.50  Aligned_cols=30  Identities=27%  Similarity=0.540  Sum_probs=26.9

Q ss_pred             ccccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         77 ACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        77 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      +|..|++.|  ...|..+||.|||+.+|..+|
T Consensus         1 kC~~C~~vL--~gEYm~kdG~PyCe~DY~~~F   30 (31)
T d2dj7a1           1 KCQTCSVIL--TGEYISKDGVPYCESDYHAQF   30 (31)
T ss_dssp             BCSSSCCBC--SSCCEEETTEEECTTHHHHHT
T ss_pred             CccccCccc--cceeecCCCCcccHHHHHHhc
Confidence            588999999  667999999999999999887

>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=97.87  E-value=3.3e-06  Score=38.30  Aligned_cols=27  Identities=22%  Similarity=0.573  Sum_probs=24.9

Q ss_pred             ccccccccccCceEEeccCcccccccc
Q psy12215         50 CAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        50 C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      |..|.+.|.|+.+.+...|..||..||
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            678999999988899999999999998

>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=97.86  E-value=3.6e-06  Score=41.84  Aligned_cols=28  Identities=32%  Similarity=0.804  Sum_probs=25.1

Q ss_pred             ccccccccccccCceEEeccCcccccccc
Q psy12215         48 GYCAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        48 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      .+|..|++.+++.|++ .+.|+.||.+||
T Consensus         8 ~kC~~C~K~VY~~E~~-~a~g~~~Hk~CF   35 (35)
T d2d8ya1           8 ETCVECQKTVYPMERL-LANQQVFHISCF   35 (35)
T ss_dssp             CBCTTTCCBCCTTSEE-ECSSSEEETTTC
T ss_pred             cccccCCCEEeeeeeE-ecCCeehhhccC
Confidence            4899999999997755 899999999998

>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=97.86  E-value=2.4e-06  Score=40.00  Aligned_cols=27  Identities=30%  Similarity=0.726  Sum_probs=24.0

Q ss_pred             cccccccccccCceEEeccCcccccccc
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      .|++|++.+++.|. +...++.||..||
T Consensus         4 ~CaRC~k~VYp~Ek-l~ClDk~WHK~CF   30 (30)
T d1zfoa_           4 NCARCGKIVYPTEK-VNCLDKFWHKACF   30 (30)
T ss_dssp             BCSSSCSBCCGGGC-CCSSSSCCCGGGC
T ss_pred             cccccCCccccHHH-hhhhHHHHhhccC
Confidence            79999999999764 4889999999998

>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=97.84  E-value=4.3e-06  Score=39.81  Aligned_cols=27  Identities=26%  Similarity=0.666  Sum_probs=24.3

Q ss_pred             cccccccccccCceEEeccCcccccccc
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      .|++|+++|.+ ..++.+.++.||..|+
T Consensus         4 ~CaGC~~~I~D-RflL~v~dr~WH~~CL   30 (30)
T d1rutx1           4 RCAGCGGKIAD-RFLLYAMDSYWHSRCL   30 (30)
T ss_dssp             BBTTTCCBCCC-SEEEEETTEEECGGGC
T ss_pred             ccCCCCCccch-hhhhccchhhhhhhhC
Confidence            69999999986 6789999999999884

>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=97.83  E-value=3.5e-06  Score=40.19  Aligned_cols=31  Identities=16%  Similarity=0.576  Sum_probs=26.6

Q ss_pred             ccccCCcccccCCCeEEEeCCeeecccchhccc
Q psy12215         12 KCGCCDCRLGEVGSTLYQKANLILCKRDYLRLF   44 (155)
Q Consensus        12 ~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~   44 (155)
                      .|+.|+.+|.+.  -|+...|++||+.||.+.+
T Consensus         1 nCa~C~~sL~d~--gFVEE~g~lYCe~Cye~ff   31 (32)
T d2dara1           1 NCAHCKNTMAYI--GFVEEKGALYCELCYEKFF   31 (32)
T ss_dssp             BCSSSCCBCSSS--CBEESSSCEECHHHHHHHT
T ss_pred             CcccccccHhhc--ceeeecCcEeHHHHHHHhc
Confidence            378999999654  4999999999999998765

>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=97.80  E-value=4.7e-06  Score=39.47  Aligned_cols=27  Identities=26%  Similarity=0.491  Sum_probs=23.7

Q ss_pred             cccccccccccCceEEeccCcccccccc
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      +|++|+++++..|.+ ...|+.||..|+
T Consensus         4 ~CprC~K~VYfaEk~-~~lgk~WHk~Cl   30 (30)
T d2cu8a1           4 KCPKCDKTVYFAEKV-SSLGKDWHKFCL   30 (30)
T ss_dssp             BCTTTCCBCCTTTEE-EETTEEEETTTC
T ss_pred             cCCCCCCceeeHHhh-ccCCcccccccC
Confidence            799999999998766 677999999885

>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=97.79  E-value=4.4e-06  Score=41.67  Aligned_cols=29  Identities=24%  Similarity=0.630  Sum_probs=25.7

Q ss_pred             cccccccccccccCceEEeccCcccccccc
Q psy12215         47 TGYCAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        47 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      +.+|..|++.+++.|++ .+.|+.||.+||
T Consensus         8 ~~~C~~C~K~VY~~Erl-~a~g~~yHk~CF   36 (36)
T d2co8a2           8 GDLCALCGEHLYVLERL-CVNGHFFHRSCF   36 (36)
T ss_dssp             SCBCSSSCCBCCTTTBC-CBTTBCCBTTTC
T ss_pred             CCcccccCCEEeeeeEE-EecCcEeccccC
Confidence            34899999999998765 899999999998

>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=3.9e-06  Score=43.80  Aligned_cols=28  Identities=29%  Similarity=0.591  Sum_probs=25.1

Q ss_pred             ccccccccccccCceEEeccCcccccccc
Q psy12215         48 GYCAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        48 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      .+|..|++.+++.|++ .+.|+.||..||
T Consensus        16 ~kC~~C~k~VY~~E~~-~~~g~~~Hk~CF   43 (43)
T d1b8ta3          16 DGCPRCGQAVYAAEKV-IGAGKSWHKSCF   43 (43)
T ss_dssp             EECTTTSCEECSSSCE-EETTEEECTTTC
T ss_pred             CcCccCCCEeeHHHHh-hcCCCccccCCC
Confidence            4899999999998866 778999999998

>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=97.78  E-value=8.7e-06  Score=42.90  Aligned_cols=37  Identities=16%  Similarity=0.351  Sum_probs=31.9

Q ss_pred             ccccCCcccccCCeEEeeCCeeec-HHhHHhhhcccCCCeeee
Q psy12215         77 ACQQCNHRFCVGDRFYLCDNKILC-EYDYEERQVFCVGDRFYL  118 (155)
Q Consensus        77 ~C~~C~~~l~~~~~~~~~~~~~~C-~~c~~~~~~~~~~~~c~~  118 (155)
                      +|..|++.| .+.....++++||| +.||.++|    |++-+.
T Consensus         1 kC~~C~K~L-~sg~~aeHdg~pYC~k~CY~~~F----GPkG~g   38 (48)
T d1imla2           1 KCEKCGKTL-TSGGHAEHEGKPYCNHPCYSAMF----GPKGFG   38 (48)
T ss_dssp             BCTTTCCBC-CTTTEEEETTEEEETTTHHHHHS----SCCCSS
T ss_pred             CchhcCcCc-CCCChhhcCCcccccccchhhcc----CCCccc
Confidence            588999999 77889999999999 78999999    776443

>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=97.78  E-value=1.3e-05  Score=38.23  Aligned_cols=30  Identities=27%  Similarity=0.585  Sum_probs=27.7

Q ss_pred             cccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         78 CQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        78 C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      |..|..+| ....|..+++..||-.||+++|
T Consensus         2 C~~C~qPI-Gtksfipk~~~~yCvpCyE~kf   31 (32)
T d1x4ka1           2 CHRCQQPI-GTKSFIPKDNQNFCVPCYEKQH   31 (32)
T ss_dssp             CSSSCCCC-CSSSEEEETTEEEEHHHHHHHT
T ss_pred             cccccCcc-cccccccCCCCceEeecchhhc
Confidence            78899999 7888999999999999999987

>d1wyha1 g.39.1.3 (A:35-66) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.73  E-value=1.8e-05  Score=37.66  Aligned_cols=30  Identities=20%  Similarity=0.405  Sum_probs=27.7

Q ss_pred             cccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         78 CQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        78 C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      |..|.+++ ....|..+++..||-.||+++|
T Consensus         2 C~~C~qPI-GtkSFip~~~~~yCvpCYE~kf   31 (32)
T d1wyha1           2 CSGCEQPL-GSRSFVPDKGAHYCVPCYENKF   31 (32)
T ss_dssp             CTTTCCBT-TTSCEEEETTEEEEHHHHHHHT
T ss_pred             cccccCcc-cccccccCCCcEEEEecccccc
Confidence            78899999 7888999999999999999987

>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=97.71  E-value=9.9e-06  Score=38.38  Aligned_cols=26  Identities=23%  Similarity=0.678  Sum_probs=23.5

Q ss_pred             cccccccccccCceEEeccCccccccc
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLEC   75 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~C   75 (155)
                      .|++|+++|.+ ..++.+.++.||..|
T Consensus         5 ~CaGC~~~I~D-RflL~a~Dr~WH~~C   30 (30)
T d1j2oa1           5 TCGGCQQNIGD-RYFLKAIDQYWHEDC   30 (30)
T ss_dssp             CBSSSCSCBCS-SEEEECSSSEECTTT
T ss_pred             ccCCCCCcchH-HHHHHHHHHHHhcCC
Confidence            69999999986 678999999999877

>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=97.62  E-value=1.3e-05  Score=37.85  Aligned_cols=31  Identities=26%  Similarity=0.538  Sum_probs=26.3

Q ss_pred             cccCCcccccCCCeEEEeCCeeecccchhcccc
Q psy12215         13 CGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG   45 (155)
Q Consensus        13 C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~~   45 (155)
                      |-.|++.|++  .+...+++.+||+.||-++++
T Consensus         2 C~~C~K~LdS--tTva~h~~eiYCKsCygkkyg   32 (32)
T d1a7ia2           2 CMVCRKNLDS--TTVAIHDAEVYCKSCYGKKYG   32 (32)
T ss_dssp             CSSSCCEECS--SCCEEETTEEECSHHHHHHCC
T ss_pred             chhhhhccCc--ceeeeecceEEehhhccccCC
Confidence            6678999975  467899999999999988764

>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=97.61  E-value=1.1e-05  Score=41.62  Aligned_cols=31  Identities=16%  Similarity=0.482  Sum_probs=27.7

Q ss_pred             ccccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         77 ACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        77 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      +|..|++.| .-..|...+|.+||+.||.++|
T Consensus         1 rC~~C~~~L-s~~~yas~~G~lYCkpHf~qLF   31 (42)
T d2d8ya2           1 RCSYCNNKL-SLGTYASLHGRIYCKPHFNQLF   31 (42)
T ss_dssp             BCTTTCCBC-CTTTCCCSSSCCCCHHHHHHHS
T ss_pred             CcCcCCCCc-cCCcchhhCCEeccHHHHHHHH
Confidence            688999999 5667888999999999999988

>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=97.59  E-value=3e-05  Score=43.58  Aligned_cols=37  Identities=16%  Similarity=0.361  Sum_probs=31.8

Q ss_pred             ccccCCcccccCCeEEeeCCeeecHHhHHhhhcccCCCeeee
Q psy12215         77 ACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFCVGDRFYL  118 (155)
Q Consensus        77 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~c~~  118 (155)
                      .|..|++.| .+.....+++++||+.||-++|    |++-+.
T Consensus         1 ~C~~C~K~L-dS~~~~eh~~e~YCk~CY~k~f----GPkG~G   37 (65)
T d1b8ta2           1 LCMVCKKNL-DSTTVAVHGDEIYCKSCYGKKY----GPKGKG   37 (65)
T ss_dssp             BCTTTCCBC-CSSSEEEETTEEEEHHHHHHHH----SCCCCC
T ss_pred             CchhcCCcc-CCCccccCCCcccchhhhcccc----CCCccc
Confidence            378999999 7777999999999999999999    776554

>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=97.59  E-value=1.4e-05  Score=37.07  Aligned_cols=27  Identities=30%  Similarity=0.752  Sum_probs=22.5

Q ss_pred             ccccccccccC--ceEEeccCcccccccc
Q psy12215         50 CAACTKVIPAF--EMVMRAKNNVYHLECF   76 (155)
Q Consensus        50 C~~C~~~I~~~--~~~~~~~~~~~H~~Cf   76 (155)
                      |+.|.+||.+.  .+.+++.++.||..||
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            78899999643  4588999999999997

>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=97.58  E-value=2.1e-05  Score=37.55  Aligned_cols=32  Identities=28%  Similarity=0.483  Sum_probs=26.3

Q ss_pred             ccccCCcccccCCCeEEEeCCeeecc-cchhcccc
Q psy12215         12 KCGCCDCRLGEVGSTLYQKANLILCK-RDYLRLFG   45 (155)
Q Consensus        12 ~C~~C~~~l~~~~~~~~~~~~~~~C~-~c~~~~~~   45 (155)
                      +|..|++.|.++  .....||+|||. .||..+|+
T Consensus         1 kCekC~ktL~~G--~HaEH~gkPYC~~PCY~aLFG   33 (33)
T d2cu8a2           1 KCERCSKTLTPG--GHAEHDGKPFCHKPCYATLFG   33 (33)
T ss_dssp             BCSSSCCBCCTT--SCEEETTEEECTTTHHHHHSC
T ss_pred             CchhcccccCCC--CccccCCCcCcCcchHHhhcC
Confidence            588999999754  478999999996 59987764

>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=97.54  E-value=1.6e-05  Score=36.42  Aligned_cols=27  Identities=30%  Similarity=0.598  Sum_probs=23.1

Q ss_pred             ccccccccccccCceEEeccCccccccc
Q psy12215         48 GYCAACTKVIPAFEMVMRAKNNVYHLEC   75 (155)
Q Consensus        48 ~~C~~C~~~I~~~~~~~~~~~~~~H~~C   75 (155)
                      ++|.+|++.++..|.++-+ |..||..|
T Consensus         2 d~CpRC~~~VyaAEkviGa-G~~WHk~C   28 (28)
T d1ibia1           2 EKCSRCGDSVYAAEKVIGA-GKPWHKNC   28 (28)
T ss_dssp             EECTTTSSEESSSSCEESS-SSEECSSC
T ss_pred             CcCcccchhHHHHHHHhcC-CCccccCC
Confidence            4799999999998888765 89999876

>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=97.53  E-value=1.3e-05  Score=38.72  Aligned_cols=32  Identities=28%  Similarity=0.563  Sum_probs=26.3

Q ss_pred             ccccCCcccccCCCeEEE-eCCeeecccchhcccc
Q psy12215         12 KCGCCDCRLGEVGSTLYQ-KANLILCKRDYLRLFG   45 (155)
Q Consensus        12 ~C~~C~~~l~~~~~~~~~-~~~~~~C~~c~~~~~~   45 (155)
                      +|..|++.|+  |.+|.+ .++++||-+||+++|+
T Consensus         1 tCvvC~~~LD--GvPFtvD~~n~i~Cv~DyHrkfA   33 (33)
T d2dloa2           1 TCVVCHRGLD--GIPFTVDATSQIHCIEDFHRKFA   33 (33)
T ss_dssp             BCSSSCCBCT--TSCEECCTTCCCEEHHHHHHHTT
T ss_pred             CeeEcCcccC--CCcEEEcCCCCEeehhhhhhhcC
Confidence            5888999994  567885 6778999999999874

>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=97.50  E-value=1.6e-05  Score=38.72  Aligned_cols=27  Identities=30%  Similarity=0.690  Sum_probs=24.0

Q ss_pred             cccccccccccCceEEeccCcccccccc
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      .|++|++.|.. ...+.+.++.||..||
T Consensus        10 ~CagCg~eik~-gQaL~ALdkqWH~~CF   36 (36)
T d2dj7a2          10 HCAGCKEEIKH-GQSLLALDKQWHVSCF   36 (36)
T ss_dssp             CCTTTCCCCSS-SCCEEETTEEECTTTC
T ss_pred             cccccchhhhC-CceeeeeecceeeeeC
Confidence            69999999986 4677899999999998

>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=97.49  E-value=3.8e-05  Score=36.17  Aligned_cols=30  Identities=17%  Similarity=0.511  Sum_probs=27.2

Q ss_pred             cccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         78 CQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        78 C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      |..|++.| .+.....+++.+||+.||-+++
T Consensus         2 C~~C~K~L-dStTva~h~~eiYCKsCygkky   31 (32)
T d1a7ia2           2 CMVCRKNL-DSTTVAIHDAEVYCKSCYGKKY   31 (32)
T ss_dssp             CSSSCCEE-CSSCCEEETTEEECSHHHHHHC
T ss_pred             chhhhhcc-CcceeeeecceEEehhhccccC
Confidence            67899999 7888999999999999998876

>d1x3ha1 g.39.1.3 (A:8-42) Leupaxin {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.46  E-value=3.8e-07  Score=45.74  Aligned_cols=33  Identities=15%  Similarity=0.288  Sum_probs=28.6

Q ss_pred             hHHhhhcccCCCeeeecCCeecchhhHHHHHHHHhhcCCCCc
Q psy12215        103 DYEERQVFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPSS  144 (155)
Q Consensus       103 c~~~~~~~~~~~~c~~c~~~i~c~~~~~~~~~~~~~~~hp~~  144 (155)
                      +|.+++    +++|..|+++|.     +..+.+.|+.|||..
T Consensus         2 DY~~~f----apkC~~C~~~I~-----g~~v~Al~~~wHpeC   34 (35)
T d1x3ha1           2 DFLAMF----SPKCGGCNRPVL-----ENYLSAMDTVWHPEC   34 (35)
T ss_dssp             CCCCCC----SCBCTTTCCBCC-----SSCEEETTEEECTTT
T ss_pred             cHHHHh----ChhhhhcCCccc-----chheeecCCccCccc
Confidence            467778    999999999999     777888999999974

>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=97.42  E-value=3e-05  Score=35.88  Aligned_cols=27  Identities=33%  Similarity=0.805  Sum_probs=22.2

Q ss_pred             ccccccccccC--ceEEeccCcccccccc
Q psy12215         50 CAACTKVIPAF--EMVMRAKNNVYHLECF   76 (155)
Q Consensus        50 C~~C~~~I~~~--~~~~~~~~~~~H~~Cf   76 (155)
                      |..|.+||.+.  .+.+.+.++.||.+||
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            67889998643  4588999999999997

>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=97.42  E-value=2.7e-05  Score=37.50  Aligned_cols=26  Identities=23%  Similarity=0.649  Sum_probs=23.9

Q ss_pred             cccccccccccCceEEeccCcccccccc
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      .|.+|+..|.+  .++.++++.+||+||
T Consensus        10 ~CdkCg~GIVG--~~VK~rDk~rHPeCf   35 (35)
T d1x62a2          10 MCDKCGTGIVG--VFVKLRDRHRHPECY   35 (35)
T ss_dssp             CCSSSCCCCCS--SCEECSSCEECTTTT
T ss_pred             cccccCCCcEe--EEEEeccccCCCCCC
Confidence            69999999987  688999999999997

>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=97.33  E-value=8.8e-05  Score=35.23  Aligned_cols=30  Identities=23%  Similarity=0.454  Sum_probs=26.5

Q ss_pred             cccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         78 CQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        78 C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      |..|+.+| ....|+...|.+||..||++-+
T Consensus         2 Ca~C~~sL-~d~gFVEE~g~lYCe~Cye~ff   31 (32)
T d2dara1           2 CAHCKNTM-AYIGFVEEKGALYCELCYEKFF   31 (32)
T ss_dssp             CSSSCCBC-SSSCBEESSSCEECHHHHHHHT
T ss_pred             cccccccH-hhcceeeecCcEeHHHHHHHhc
Confidence            77899999 7778999999999999998754

>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=97.30  E-value=1.5e-06  Score=41.98  Aligned_cols=32  Identities=22%  Similarity=0.296  Sum_probs=27.0

Q ss_pred             hHHhhhcccCCCeeeecCCeecchhhHHHHHHHHhh-cCCCCc
Q psy12215        103 DYEERQVFCVGDRFYLCDNKILCEYDYEERQVFANI-AYNPSS  144 (155)
Q Consensus       103 c~~~~~~~~~~~~c~~c~~~i~c~~~~~~~~~~~~~-~~hp~~  144 (155)
                      +|+.+|    |+.|..|..-|+      +.+|++|. +|||.+
T Consensus         2 dYw~kf----ge~C~~C~~~it------GpvMvAG~~K~HPEC   34 (34)
T d1x6aa1           2 DYWGKF----GEFCHGCSLLMT------GPFMVAGEFKYHPEC   34 (34)
T ss_dssp             CSSCCS----SCBCTTTCCBCC------SCCBCCTTCCBCTTS
T ss_pred             cHHHHH----HHHhhhhHhhcc------cceeeecccccCCCC
Confidence            577788    999999999776      88888887 999974

>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=97.28  E-value=5.1e-05  Score=38.94  Aligned_cols=26  Identities=35%  Similarity=0.752  Sum_probs=23.9

Q ss_pred             cccccccccccCceEEeccCcccccccc
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      .|.+|+..|.+  .++.++++.+|++||
T Consensus        20 ~CdkCg~GIVG--~~VK~rDK~rHPeCf   45 (45)
T d1x64a1          20 LCDKCGSGIVG--AVVKARDKYRHPECF   45 (45)
T ss_dssp             BCTTTCCBCCS--CCEESSSCEECTTTC
T ss_pred             cccccCCCcEE--EEEEeccccCCCCCC
Confidence            69999999987  688999999999998

>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=97.22  E-value=0.00014  Score=34.58  Aligned_cols=31  Identities=19%  Similarity=0.401  Sum_probs=26.1

Q ss_pred             ccccCCcccccCCeEEeeCCeeec-HHhHHhhh
Q psy12215         77 ACQQCNHRFCVGDRFYLCDNKILC-EYDYEERQ  108 (155)
Q Consensus        77 ~C~~C~~~l~~~~~~~~~~~~~~C-~~c~~~~~  108 (155)
                      +|..|++.| ........+|++|| ..||.-+|
T Consensus         1 kCekC~ktL-~~G~HaEH~gkPYC~~PCY~aLF   32 (33)
T d2cu8a2           1 KCERCSKTL-TPGGHAEHDGKPFCHKPCYATLF   32 (33)
T ss_dssp             BCSSSCCBC-CTTSCEEETTEEECTTTHHHHHS
T ss_pred             Cchhccccc-CCCCccccCCCcCcCcchHHhhc
Confidence            588999999 66678999999999 55998766

>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=97.19  E-value=9e-05  Score=33.35  Aligned_cols=27  Identities=37%  Similarity=0.659  Sum_probs=22.4

Q ss_pred             ccccccccccCceEEeccCcccccccc
Q psy12215         50 CAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        50 C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      |..|.+||..+..-+...++.||..||
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            677899997655667888999999997

>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=97.13  E-value=0.00022  Score=33.31  Aligned_cols=29  Identities=24%  Similarity=0.726  Sum_probs=26.1

Q ss_pred             ccccCCcccccCCeEEeeCCeeecHHhHHh
Q psy12215         77 ACQQCNHRFCVGDRFYLCDNKILCEYDYEE  106 (155)
Q Consensus        77 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~  106 (155)
                      .|..|.+.| .+.+|...+.+.||-.||..
T Consensus         1 vC~~C~K~L-ag~rFTa~eDq~yCVdCYK~   29 (31)
T d2cura1           1 VCVTCSKKL-AGQRFTAVEDQYYCVDCYKN   29 (31)
T ss_dssp             BCTTTCCBC-TTSCEEECSSCEEEHHHHHH
T ss_pred             Ccccccchh-cCceeEEecceEEEeeeecc
Confidence            478899999 89999999999999999864

>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=97.11  E-value=0.00016  Score=33.48  Aligned_cols=31  Identities=19%  Similarity=0.459  Sum_probs=26.6

Q ss_pred             ccccCCcccccCCCeEEEeCCeeecccchhccc
Q psy12215         12 KCGCCDCRLGEVGSTLYQKANLILCKRDYLRLF   44 (155)
Q Consensus        12 ~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~~~   44 (155)
                      +|+.|.+.+.  ...|+.+..+.||-.|...+|
T Consensus         1 tcs~ckq~ig--sgsffpkg~d~ycvtche~kf   31 (32)
T d1x63a2           1 TCSNCKQVIG--TGSFFPKGEDFYCVTCHETKF   31 (32)
T ss_dssp             CCSSSCCCCT--TSCEEEETTEEEEHHHHHHHT
T ss_pred             Ccchhhhhcc--cccccCCCCcEEEEEeecccc
Confidence            5899999995  457999999999999988766

>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=97.01  E-value=0.00037  Score=33.34  Aligned_cols=32  Identities=28%  Similarity=0.520  Sum_probs=27.9

Q ss_pred             cccccCCcccccCCeEEeeC-CeeecHHhHHhh
Q psy12215         76 FACQQCNHRFCVGDRFYLCD-NKILCEYDYEER  107 (155)
Q Consensus        76 f~C~~C~~~l~~~~~~~~~~-~~~~C~~c~~~~  107 (155)
                      |.|..|+.-++.++.|...+ .++||..||.+.
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            67999999999999998776 899999999764

>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=96.92  E-value=0.00013  Score=34.05  Aligned_cols=25  Identities=36%  Similarity=0.740  Sum_probs=22.8

Q ss_pred             cccccccccccCceEEeccCccccccc
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLEC   75 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~C   75 (155)
                      -|..|.+.|.+  +++.+.++.|||.|
T Consensus         7 gC~~C~~~ItG--kVLEAG~khYHP~C   31 (32)
T d1wiga1           7 GCDSCEKYITG--RVLEAGEKHYHPSC   31 (32)
T ss_dssp             SCSSSCCCCSS--CCBCCSSCCBCTTT
T ss_pred             hhhhhhhhhhh--hhhhccccccCCCC
Confidence            59999999987  78999999999987

>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=96.85  E-value=0.00045  Score=33.16  Aligned_cols=31  Identities=23%  Similarity=0.510  Sum_probs=26.9

Q ss_pred             ccccCCcccccCCeEEee-CCeeecHHhHHhhh
Q psy12215         77 ACQQCNHRFCVGDRFYLC-DNKILCEYDYEERQ  108 (155)
Q Consensus        77 ~C~~C~~~l~~~~~~~~~-~~~~~C~~c~~~~~  108 (155)
                      .|..|++.| .|..|.+. .+++||-.+|.+++
T Consensus         1 tCvvC~~~L-DGvPFtvD~~n~i~Cv~DyHrkf   32 (33)
T d2dloa2           1 TCVVCHRGL-DGIPFTVDATSQIHCIEDFHRKF   32 (33)
T ss_dssp             BCSSSCCBC-TTSCEECCTTCCCEEHHHHHHHT
T ss_pred             CeeEcCccc-CCCcEEEcCCCCEeehhhhhhhc
Confidence            378899999 88899875 49999999999987

>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=96.81  E-value=0.00051  Score=32.10  Aligned_cols=29  Identities=28%  Similarity=0.744  Sum_probs=25.9

Q ss_pred             ccccCCcccccCCeEEeeCCeeecHHhHHh
Q psy12215         77 ACQQCNHRFCVGDRFYLCDNKILCEYDYEE  106 (155)
Q Consensus        77 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~  106 (155)
                      .|..|+..| .++.|+..+.+.||+.||..
T Consensus         1 vC~tC~~kL-RGqpFYAvekkayCE~CYi~   29 (32)
T d1x61a2           1 VCSTCRAQL-RGQHFYAVERRAYCEGCYVA   29 (32)
T ss_dssp             BCSSSCCBC-TTSCEEESSSCEEEHHHHHH
T ss_pred             CeeEeCcee-cCCcceEeeccccccceeee
Confidence            377899999 89999999999999999964

>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=96.80  E-value=0.00015  Score=34.15  Aligned_cols=32  Identities=63%  Similarity=1.228  Sum_probs=28.9

Q ss_pred             cccccCCcccccCCCeEEEeCCeeecccchhc
Q psy12215         11 LKCGCCDCRLGEVGSTLYQKANLILCKRDYLR   42 (155)
Q Consensus        11 f~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~   42 (155)
                      ++|.-|+..|.|.+++.|.+.+.++|+.||.+
T Consensus         1 LkC~cC~cRLGEVG~tlytk~nliLCkrDYlR   32 (33)
T d1j2oa2           1 LSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLR   32 (33)
T ss_dssp             CCCSSSCSCCCCSSSCCCCBTTBCCCHHHHHH
T ss_pred             CccccccccccchhhHHHhhcceeeehhhhhc
Confidence            46888999999999999999999999999975

>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=96.76  E-value=1e-05  Score=41.24  Aligned_cols=34  Identities=29%  Similarity=0.490  Sum_probs=28.5

Q ss_pred             HhHHhhhcccCCCeeeecCCeecchhhHHHHHHHHhhcCCCCc
Q psy12215        102 YDYEERQVFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPSS  144 (155)
Q Consensus       102 ~c~~~~~~~~~~~~c~~c~~~i~c~~~~~~~~~~~~~~~hp~~  144 (155)
                      .+|+++|    |.+|..|++-|.     .+.+.+.+++|||.+
T Consensus         8 ~DYq~~f----G~~C~~C~~~It-----G~V~~Ag~~~yHP~C   41 (41)
T d1v6ga1           8 LDYQRLY----GTRCFSCDQFIE-----GEVVSALGKTYHPDC   41 (41)
T ss_dssp             SCGGGSC----CCBCTTTCCBCC-----SCCEEETTEEECTTT
T ss_pred             ccHHHHh----CcccccccCEee-----eeeeEecCcccCCCC
Confidence            5789999    999999999998     556667777999974

>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=96.64  E-value=0.00053  Score=31.97  Aligned_cols=29  Identities=14%  Similarity=0.352  Sum_probs=23.2

Q ss_pred             ccccCCcccccCCCeEEEeCCeeecccchhc
Q psy12215         12 KCGCCDCRLGEVGSTLYQKANLILCKRDYLR   42 (155)
Q Consensus        12 ~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~   42 (155)
                      .|++|+..|...  -++..++++||+.+...
T Consensus         1 vC~dCg~NLKqr--G~Ffv~~~lyCE~HAr~   29 (31)
T d1x64a2           1 VCADCNLNLKQK--GYFFVEGELYCETHARA   29 (31)
T ss_dssp             CCSSSCCCTTTS--CCEEETTEEECHHHHHH
T ss_pred             CccccccChhhc--ceEEeccEEeehhhhhc
Confidence            489999999654  47888999999987543

>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=96.63  E-value=1.7e-05  Score=38.92  Aligned_cols=28  Identities=21%  Similarity=0.343  Sum_probs=25.2

Q ss_pred             CCCeeeecCCeecchhhHHHHHHHHhhcCCCCc
Q psy12215        112 VGDRFYLCDNKILCEYDYEERQVFANIAYNPSS  144 (155)
Q Consensus       112 ~~~~c~~c~~~i~c~~~~~~~~~~~~~~~hp~~  144 (155)
                      +.++|..|+.+|+     +..+...|+.|||.+
T Consensus         7 tlEkC~~C~~~I~-----driLrA~Gk~yHP~C   34 (35)
T d2dloa1           7 TLEKCATCSQPIL-----DRILRAMGKAYHPGC   34 (35)
T ss_dssp             SCCBCTTTCCBCC-----SCCEEETTEEECTTT
T ss_pred             HHHHHHHhchHHH-----HHHHHHhCCCCCCCC
Confidence            4699999999999     888899999999964

>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=96.59  E-value=0.00052  Score=30.94  Aligned_cols=27  Identities=30%  Similarity=0.666  Sum_probs=23.2

Q ss_pred             cccccccccccCceEEeccCcccccccc
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      +|..|.+.++-.+.+ ...|+.||..||
T Consensus         2 kcg~c~ktvy~aeev-qc~grsfhk~cf   28 (28)
T d1a7ia1           2 KCGACGRTVYHAEEV-QCDGRSFHRCCF   28 (28)
T ss_dssp             BCSSSCCBCSSTTEE-EETTEEEESSSE
T ss_pred             ccccccceEeeeeee-eecCceeccccC
Confidence            799999999876655 788999999997

>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=96.58  E-value=0.00035  Score=33.64  Aligned_cols=27  Identities=22%  Similarity=0.641  Sum_probs=24.9

Q ss_pred             cccccccccccCceEEeccCccccccc
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLEC   75 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~C   75 (155)
                      .|.+|+....+.++++...|..||+.|
T Consensus         9 ~C~RC~~gF~p~EkiVNSnGEl~H~qC   35 (35)
T d1g47a1           9 TCERCKGGFAPAEKIVNSNGELYHEQC   35 (35)
T ss_dssp             BCSSSCCBCCSTTTCEEETTEEECTTT
T ss_pred             HHHHHccCCCchHHhhcCCCccccccC
Confidence            699999999999999999999999876

>d2cuqa2 g.39.1.3 (A:8-42) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.44  E-value=8.3e-06  Score=39.85  Aligned_cols=33  Identities=12%  Similarity=0.283  Sum_probs=29.3

Q ss_pred             HhHHhhhcccCCCeeeecCCeecchhhHHHHHHHHhhcCCCC
Q psy12215        102 YDYEERQVFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPS  143 (155)
Q Consensus       102 ~c~~~~~~~~~~~~c~~c~~~i~c~~~~~~~~~~~~~~~hp~  143 (155)
                      .||+++|    +.+|..|.++|+     .+.+.+++++||-.
T Consensus         1 PCyE~kf----a~~C~~Ckk~It-----~GGvtY~dqpWHke   33 (35)
T d2cuqa2           1 PCYENKF----APRCARCSKTLT-----QGGVTYRDQPWHRE   33 (35)
T ss_dssp             CCCCCCS----SCCCTTTCCCCC-----SCCEESSSSEECTT
T ss_pred             CchHHHH----HHHHhhcCCccc-----cCceeecCCcchhh
Confidence            3788899    999999999999     88889999999964

>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=96.44  E-value=0.00059  Score=32.43  Aligned_cols=28  Identities=29%  Similarity=0.659  Sum_probs=23.9

Q ss_pred             ccccccccccccCceEEeccCcccccccc
Q psy12215         48 GYCAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        48 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      .+|..|.+.++-.+.+ ...|+.||..||
T Consensus         8 ~kcg~c~ktvy~aeev-qc~g~sfhk~cf   35 (35)
T d1b8ta1           8 KKCGVCQKAVYFAEEV-QCEGSSFHKSCF   35 (35)
T ss_dssp             EECTTTCCEECSSCCE-EETTEEECTTTC
T ss_pred             ceeccccceEeeeeee-eecCcccccccC
Confidence            3899999999876655 788999999997

>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=96.41  E-value=0.002  Score=30.70  Aligned_cols=32  Identities=28%  Similarity=0.607  Sum_probs=26.9

Q ss_pred             ccccCCcccc-cCCeEEeeCCeeecHHhHHhhh
Q psy12215         77 ACQQCNHRFC-VGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        77 ~C~~C~~~l~-~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      +|+.|+..|. .+...+.+.|.++|+.+|.++|
T Consensus         1 KCscC~~~LgeiG~s~ytk~~mILCk~DY~rlF   33 (34)
T d1rutx2           1 KCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLF   33 (34)
T ss_dssp             BCTTTCCBHHHHCSEEEEETTEEECHHHHHHHH
T ss_pred             CCcchhcChhhccchheecCCEEEEchhHHHhc
Confidence            4777888874 5778999999999999999887

>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=96.39  E-value=0.0021  Score=30.03  Aligned_cols=29  Identities=21%  Similarity=0.409  Sum_probs=23.9

Q ss_pred             ccccCCcccccCCCeEEEeCCeeecccchh
Q psy12215         12 KCGCCDCRLGEVGSTLYQKANLILCKRDYL   41 (155)
Q Consensus        12 ~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~   41 (155)
                      +|+.|.-+|-++ ..|...+|.+||+.|-.
T Consensus         1 tC~tC~n~LVPG-DRFHyvNG~lfCE~D~p   29 (33)
T d1rutx4           1 TCSTCRNRLVPG-DRFHYINGSLFCEHDRP   29 (33)
T ss_dssp             BCTTTCCBCCTT-CEEEEETTEEEEGGGCC
T ss_pred             CcccccccccCC-ceeEEecCEEEEecCCc
Confidence            588898888754 58999999999998743

>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=96.20  E-value=0.0037  Score=28.73  Aligned_cols=31  Identities=16%  Similarity=0.393  Sum_probs=26.9

Q ss_pred             ccccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         77 ACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        77 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      .|+.|+..+ .+..|+..+...||-.|.+.+|
T Consensus         1 tcs~ckq~i-gsgsffpkg~d~ycvtche~kf   31 (32)
T d1x63a2           1 TCSNCKQVI-GTGSFFPKGEDFYCVTCHETKF   31 (32)
T ss_dssp             CCSSSCCCC-TTSCEEEETTEEEEHHHHHHHT
T ss_pred             Ccchhhhhc-ccccccCCCCcEEEEEeecccc
Confidence            378899999 6778999999999999998776

>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=96.19  E-value=0.0027  Score=29.66  Aligned_cols=27  Identities=37%  Similarity=0.925  Sum_probs=24.2

Q ss_pred             ccccCCcccccCCeEEeeCCeeecHHh
Q psy12215         77 ACQQCNHRFCVGDRFYLCDNKILCEYD  103 (155)
Q Consensus        77 ~C~~C~~~l~~~~~~~~~~~~~~C~~c  103 (155)
                      .|+.|...|.++.+|...+|.+||+.+
T Consensus         1 tC~tC~n~LVPGDRFHyvNG~lfCE~D   27 (33)
T d1rutx4           1 TCSTCRNRLVPGDRFHYINGSLFCEHD   27 (33)
T ss_dssp             BCTTTCCBCCTTCEEEEETTEEEEGGG
T ss_pred             CcccccccccCCceeEEecCEEEEecC
Confidence            378899999999999999999999765

>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=96.12  E-value=0.0017  Score=30.04  Aligned_cols=28  Identities=32%  Similarity=0.552  Sum_probs=23.4

Q ss_pred             ccccCCcccccCCCeEEEeCCeeecccchh
Q psy12215         12 KCGCCDCRLGEVGSTLYQKANLILCKRDYL   41 (155)
Q Consensus        12 ~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~   41 (155)
                      +|..|-.||  ...+|..+|++++|..|..
T Consensus         1 RCaKC~hpL--A~E~F~aKd~kI~C~Kc~s   28 (31)
T d2cupa2           1 RCAKCLHPL--ANETFVAKDNKILCNKCTT   28 (31)
T ss_dssp             CCSSSCCCT--TSSCCEEETTEEECHHHHT
T ss_pred             Cchhhcccc--ccCcccccCCeEeeccccc
Confidence            478889999  4568999999999988754

>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=96.11  E-value=0.0035  Score=29.09  Aligned_cols=30  Identities=20%  Similarity=0.674  Sum_probs=24.4

Q ss_pred             ccccCCcccccCCeEEeeCCeeecHHhHHhh
Q psy12215         77 ACQQCNHRFCVGDRFYLCDNKILCEYDYEER  107 (155)
Q Consensus        77 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~  107 (155)
                      .|+.|+..| ....++..++++||+.|...+
T Consensus         1 vC~dCg~NL-KqrG~Ffv~~~lyCE~HAr~R   30 (31)
T d1x64a2           1 VCADCNLNL-KQKGYFFVEGELYCETHARAR   30 (31)
T ss_dssp             CCSSSCCCT-TTSCCEEETTEEECHHHHHHH
T ss_pred             CccccccCh-hhcceEEeccEEeehhhhhcc
Confidence            488999999 666778889999999987543

>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=96.07  E-value=0.0029  Score=29.24  Aligned_cols=29  Identities=34%  Similarity=0.666  Sum_probs=25.0

Q ss_pred             ccccCCcccccCCeEEeeCCeeecHHhHHh
Q psy12215         77 ACQQCNHRFCVGDRFYLCDNKILCEYDYEE  106 (155)
Q Consensus        77 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~  106 (155)
                      +|..|-.+| ..+.|...|++++|..|-.+
T Consensus         1 RCaKC~hpL-A~E~F~aKd~kI~C~Kc~sr   29 (31)
T d2cupa2           1 RCAKCLHPL-ANETFVAKDNKILCNKCTTR   29 (31)
T ss_dssp             CCSSSCCCT-TSSCCEEETTEEECHHHHTT
T ss_pred             Cchhhcccc-ccCcccccCCeEeecccccc
Confidence            578888999 88999999999999988543

>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=95.93  E-value=0.0019  Score=28.38  Aligned_cols=27  Identities=26%  Similarity=0.619  Sum_probs=22.9

Q ss_pred             ccccccccccCceEEeccCcccccccc
Q psy12215         50 CAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        50 C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      |.+|++.+.++..-+.+.++.||..||
T Consensus         1 cggcgedvvgdgagvvaldrvfhvgcf   27 (27)
T d1x61a1           1 CGGCGEDVVGDGAGVVALDRVFHVGCF   27 (27)
T ss_dssp             CSSSCSCCCSSSCCEECSSSEECTTTC
T ss_pred             CCCcccccccCCcceEEEeeeEEeccC
Confidence            678999888766677899999999987

>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=95.92  E-value=0.00067  Score=31.67  Aligned_cols=29  Identities=21%  Similarity=0.480  Sum_probs=23.1

Q ss_pred             ccccCCcccccCCCeEEEeCCeeecccchhc
Q psy12215         12 KCGCCDCRLGEVGSTLYQKANLILCKRDYLR   42 (155)
Q Consensus        12 ~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~   42 (155)
                      .|++|+..|...+  ++..++++||+.+...
T Consensus         1 vC~dCg~NLKqrG--~Ffve~~lyCE~HAr~   29 (31)
T d1x62a1           1 VCTDCGTNLKQKG--HFFVEDQIYCEKHARE   29 (31)
T ss_dssp             SCSSSCCCHHHHC--CEESSSCEECHHHHHH
T ss_pred             CccccccChhhcc--eEEeccEEehhhhhhh
Confidence            4899999997544  7888899999987543

>d2dara2 g.39.1.3 (A:8-52) PDZ and LIM domain protein 5, Enigma {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 5, Enigma
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.11  E-value=0.00024  Score=36.74  Aligned_cols=26  Identities=15%  Similarity=0.161  Sum_probs=23.1

Q ss_pred             CCeeeecCCeecchhhHHHHHHHHhhcCCCC
Q psy12215        113 GDRFYLCDNKILCEYDYEERQVFANIAYNPS  143 (155)
Q Consensus       113 ~~~c~~c~~~i~c~~~~~~~~~~~~~~~hp~  143 (155)
                      .+.|..|+++|.     +..+...|+.|||+
T Consensus        18 ~P~C~~C~~pI~-----g~~vtAlgk~WHPE   43 (45)
T d2dara2          18 TPMCAHCNQVIR-----GPFLVALGKSWHPE   43 (45)
T ss_dssp             CCBBSSSCCBCC-----SCEEEETTEEECTT
T ss_pred             CeeccccCCccc-----CceeeecCCccCcC
Confidence            688999999999     77778999999996

>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=94.91  E-value=0.00013  Score=34.49  Aligned_cols=26  Identities=8%  Similarity=-0.095  Sum_probs=22.7

Q ss_pred             CCeeeecCCeecchhhHHHHHHHHhhcCCCC
Q psy12215        113 GDRFYLCDNKILCEYDYEERQVFANIAYNPS  143 (155)
Q Consensus       113 ~~~c~~c~~~i~c~~~~~~~~~~~~~~~hp~  143 (155)
                      .+.|+.|.+||.     ++-+...|+.|||.
T Consensus         5 ~p~C~~C~~PI~-----~~~vtAlgk~WHpE   30 (31)
T d1u5sb1           5 VPICGACRRPIE-----GRVVNAMGKQWHVE   30 (31)
T ss_dssp             CCEETTTTEECC-----SCEECCTTSBEETT
T ss_pred             CcchhhcCCchh-----hhHhhhhccccCCC
Confidence            688999999999     67777899999985

>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=94.88  E-value=0.015  Score=28.42  Aligned_cols=30  Identities=27%  Similarity=0.549  Sum_probs=26.7

Q ss_pred             cccccCCcccccCCeEEeeCCeeecHHhHH
Q psy12215         76 FACQQCNHRFCVGDRFYLCDNKILCEYDYE  105 (155)
Q Consensus        76 f~C~~C~~~l~~~~~~~~~~~~~~C~~c~~  105 (155)
                      |.|..|.+++..+.+....+...+|..|-.
T Consensus         1 FvC~vCr~pFP~GDRVTFnGKeC~CQ~Cs~   30 (40)
T d1v6ga2           1 FVCAVCRLPFPPGDRVTFNGKECMCQKCSL   30 (40)
T ss_dssp             SSCSSSCCCCCSSSCEEEETTEEEEHHHHS
T ss_pred             CcccccCCCCCCCCeEEEcCceeehhhcCC
Confidence            789999999988999999999999998864

>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=94.70  E-value=0.0043  Score=28.83  Aligned_cols=29  Identities=21%  Similarity=0.642  Sum_probs=23.2

Q ss_pred             ccccCCcccccCCeEEeeCCeeecHHhHHh
Q psy12215         77 ACQQCNHRFCVGDRFYLCDNKILCEYDYEE  106 (155)
Q Consensus        77 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~  106 (155)
                      .|+.|+..| ....++..++++||+.|...
T Consensus         1 vC~dCg~NL-KqrG~Ffve~~lyCE~HAr~   29 (31)
T d1x62a1           1 VCTDCGTNL-KQKGHFFVEDQIYCEKHARE   29 (31)
T ss_dssp             SCSSSCCCH-HHHCCEESSSCEECHHHHHH
T ss_pred             CccccccCh-hhcceEEeccEEehhhhhhh
Confidence            378899999 55567777889999998754

>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=94.46  E-value=0.0059  Score=30.28  Aligned_cols=27  Identities=19%  Similarity=0.508  Sum_probs=17.0

Q ss_pred             ccccccccccCceEEeccCcccccccc
Q psy12215         50 CAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        50 C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      |++|++.....+......+..|||.|-
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            677777765444443455677887763

>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=94.37  E-value=0.012  Score=27.93  Aligned_cols=31  Identities=10%  Similarity=0.266  Sum_probs=24.1

Q ss_pred             cccccCCcccccCCCeEEE-eCCeeecccchhc
Q psy12215         11 LKCGCCDCRLGEVGSTLYQ-KANLILCKRDYLR   42 (155)
Q Consensus        11 f~C~~C~~~l~~~~~~~~~-~~~~~~C~~c~~~   42 (155)
                      |.|..|+.-+.+++ +|.. .-.++||-.||.+
T Consensus         1 F~C~~C~~fIgdgd-syaLVerskLYCG~Cy~~   32 (34)
T d1x6aa2           1 FACMSCKVIIEDGD-AYALVQHATLYCGKCHNE   32 (34)
T ss_dssp             CBCTTTCCBCCTTS-CEEECSSSCEEEHHHHHH
T ss_pred             CcccccccEEecCc-eEEEEeeceeeeecchhc
Confidence            78999999998654 5664 5567999999875

>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=94.37  E-value=0.022  Score=26.16  Aligned_cols=28  Identities=11%  Similarity=0.288  Sum_probs=21.7

Q ss_pred             cccCCcccccCCeEEeeCCeeecHHhHHhh
Q psy12215         78 CQQCNHRFCVGDRFYLCDNKILCEYDYEER  107 (155)
Q Consensus        78 C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~  107 (155)
                      |..|++.|  ...-....|.+||..|..++
T Consensus         2 C~~Cgkel--tadArEl~geLyCLpChdKm   29 (31)
T d2cora1           2 CANCGKEL--TADARELKGELYCLPCHDKM   29 (31)
T ss_dssp             CSSSCCBC--CTTCEEETTEEECHHHHHTT
T ss_pred             cccccccc--chhHHHhcCCEEEEeccccc
Confidence            77889988  33345678999999998875

>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=93.62  E-value=0.046  Score=25.27  Aligned_cols=30  Identities=17%  Similarity=0.334  Sum_probs=25.4

Q ss_pred             ccccCCcccccCCeEEeeCCeeecHHhHHhh
Q psy12215         77 ACQQCNHRFCVGDRFYLCDNKILCEYDYEER  107 (155)
Q Consensus        77 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~  107 (155)
                      +|..|...| ....|....|+.+|..|..+.
T Consensus         1 rC~~C~~~L-AD~GFvKnagR~LCrpch~re   30 (32)
T d2d8xa1           1 RCDLCQEVL-ADIGFVKNAGRHLCRPCHNRE   30 (32)
T ss_dssp             BCSSSCCBC-SSSCCEEETTEEECHHHHHHH
T ss_pred             CchHHHhHH-HHhhhhhcccccccchhhhhc
Confidence            588899999 777788888999999998764

>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=92.52  E-value=0.023  Score=30.52  Aligned_cols=47  Identities=13%  Similarity=0.081  Sum_probs=35.6

Q ss_pred             cccccCCcccccCCCeEEE-eCCeeecccchhccccccccccccccccccC
Q psy12215         11 LKCGCCDCRLGEVGSTLYQ-KANLILCKRDYLRLFGTTGYCAACTKVIPAF   60 (155)
Q Consensus        11 f~C~~C~~~l~~~~~~~~~-~~~~~~C~~c~~~~~~~~~~C~~C~~~I~~~   60 (155)
                      +.|..|...+.+   .... ..|..||.+|..+-+...+.|..|++++...
T Consensus         1 l~C~Ic~~~~~~---Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~   48 (56)
T d2baya1           1 MLCAISGKVPRR---PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIE   48 (56)
T ss_dssp             CCCTTTCSCCSS---EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGG
T ss_pred             CCCccCCchHHh---cCccCCCCCcccHHHHHHHHhhccCCCccCCcCCHH
Confidence            368888888732   4455 5799999999877665556899999999763

>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=92.27  E-value=0.028  Score=26.81  Aligned_cols=26  Identities=35%  Similarity=0.687  Sum_probs=21.4

Q ss_pred             cccccccccccCceEEeccCcccccccc
Q psy12215         49 YCAACTKVIPAFEMVMRAKNNVYHLECF   76 (155)
Q Consensus        49 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf   76 (155)
                      .|.+|...|.  +.-+.+++..||+..|
T Consensus        10 vC~KCh~iId--d~pL~Fr~d~YHp~HF   35 (35)
T d2cora2          10 ICQKCHAIID--EQPLIFKNDPYHPDHF   35 (35)
T ss_dssp             BCTTTCCBCC--SCCCCCSSSCCCTTTS
T ss_pred             HHHHHHhhhh--cCcceecCCCCCCCCC
Confidence            6999998885  3566889999999876

>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=91.53  E-value=0.071  Score=24.62  Aligned_cols=29  Identities=24%  Similarity=0.513  Sum_probs=24.2

Q ss_pred             ccccCCcccccCCCeEEEeCCeeecccchhc
Q psy12215         12 KCGCCDCRLGEVGSTLYQKANLILCKRDYLR   42 (155)
Q Consensus        12 ~C~~C~~~l~~~~~~~~~~~~~~~C~~c~~~   42 (155)
                      +|..|...|.+.  -|+-.-|+.+|.+|..+
T Consensus         1 rC~~C~~~LAD~--GFvKnagR~LCrpch~r   29 (32)
T d2d8xa1           1 RCDLCQEVLADI--GFVKNAGRHLCRPCHNR   29 (32)
T ss_dssp             BCSSSCCBCSSS--CCEEETTEEECHHHHHH
T ss_pred             CchHHHhHHHHh--hhhhcccccccchhhhh
Confidence            588899999654  48999999999998765

>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=91.06  E-value=0.079  Score=24.50  Aligned_cols=26  Identities=27%  Similarity=0.655  Sum_probs=21.3

Q ss_pred             cccCCcccccCCeEEeeCCeeecHHhH
Q psy12215         78 CQQCNHRFCVGDRFYLCDNKILCEYDY  104 (155)
Q Consensus        78 C~~C~~~l~~~~~~~~~~~~~~C~~c~  104 (155)
                      |..|...| .++.|......++|..|-
T Consensus         2 cgkcsvsl-vg~gfltq~~~i~c~~cg   27 (34)
T d1x68a2           2 CGKCSVSL-VGKGFLTQNKEIFCQKCG   27 (34)
T ss_dssp             CTTTCCBC-SSSCEEEETTEEEETTTT
T ss_pred             CccceEEE-EeeeeeeccCcEEehhcC
Confidence            56777888 788888888899998873

>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=90.47  E-value=0.11  Score=25.22  Aligned_cols=29  Identities=10%  Similarity=0.306  Sum_probs=20.1

Q ss_pred             cccccCCcccccCCCeEEEeCCeeecccch
Q psy12215         11 LKCGCCDCRLGEVGSTLYQKANLILCKRDY   40 (155)
Q Consensus        11 f~C~~C~~~l~~~~~~~~~~~~~~~C~~c~   40 (155)
                      |.|+.|.++++.++ .......+..|..|.
T Consensus         1 FvC~vCr~pFP~GD-RVTFnGKeC~CQ~Cs   29 (40)
T d1v6ga2           1 FVCAVCRLPFPPGD-RVTFNGKECMCQKCS   29 (40)
T ss_dssp             SSCSSSCCCCCSSS-CEEEETTEEEEHHHH
T ss_pred             CcccccCCCCCCCC-eEEEcCceeehhhcC
Confidence            78999999998644 455565566555554

>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=89.10  E-value=0.2  Score=23.10  Aligned_cols=26  Identities=31%  Similarity=0.715  Sum_probs=20.3

Q ss_pred             cccCCcccccCCCeEEEeCCeeecccch
Q psy12215         13 CGCCDCRLGEVGSTLYQKANLILCKRDY   40 (155)
Q Consensus        13 C~~C~~~l~~~~~~~~~~~~~~~C~~c~   40 (155)
                      |..|+-.|  .+.-|......++|.+|-
T Consensus         2 cgkcsvsl--vg~gfltq~~~i~c~~cg   27 (34)
T d1x68a2           2 CGKCSVSL--VGKGFLTQNKEIFCQKCG   27 (34)
T ss_dssp             CTTTCCBC--SSSCEEEETTEEEETTTT
T ss_pred             CccceEEE--EeeeeeeccCcEEehhcC
Confidence            66778888  566788888899988774

>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=87.41  E-value=0.17  Score=29.93  Aligned_cols=45  Identities=24%  Similarity=0.420  Sum_probs=31.7

Q ss_pred             CcccccCCcccccCCCeEE-EeCCeeecccchhcccccccccccccccccc
Q psy12215         10 CLKCGCCDCRLGEVGSTLY-QKANLILCKRDYLRLFGTTGYCAACTKVIPA   59 (155)
Q Consensus        10 Cf~C~~C~~~l~~~~~~~~-~~~~~~~C~~c~~~~~~~~~~C~~C~~~I~~   59 (155)
                      =++|..|...+..   ... ..=|..||.+|..+....  .|+.|..++..
T Consensus        22 ~l~C~IC~~~~~~---pv~~~~CgH~fC~~Ci~~~~~~--~CP~Cr~~~~~   67 (97)
T d1jm7b_          22 LLRCSRCTNILRE---PVCLGGCEHIFCSNCVSDCIGT--GCPVCYTPAWI   67 (97)
T ss_dssp             TTSCSSSCSCCSS---CBCCCSSSCCBCTTTGGGGTTT--BCSSSCCBCSC
T ss_pred             cCCCccCCchhhc---CceeCCCCCchhHHHHHHHHhc--cccccCCcCch
Confidence            3678888888843   233 345888999998776655  68888877654

>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=82.66  E-value=0.87  Score=22.17  Aligned_cols=31  Identities=23%  Similarity=0.508  Sum_probs=26.2

Q ss_pred             cccCCcccccCCeEEeeCCeeecHHhHHhhh
Q psy12215         78 CQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  108 (155)
Q Consensus        78 C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  108 (155)
                      |+.|+..+..++.-++.++.++-..|-....
T Consensus         2 C~rC~~mF~EGEEMYLQGs~IWHP~C~~~~~   32 (41)
T d1wiga2           2 CVRCGQMFAEGEEMYLQGSSIWHPACRQAAR   32 (41)
T ss_dssp             CSSSCCCCCSSCCCEEETTEEECTTHHHHTS
T ss_pred             cchhhccccccceeeecCCceeCCcccccch
Confidence            7889999999999999999999888755443