Psyllid ID: psy7480

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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-------160-------170-------180-------190-------200----
Protein Sequence
MPTRRMWYIDICDYRSYFDSLRLATHYQVDLTTDASSVTQGALAGGASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPSSLAHLRRQVTLQVLWIRE
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEccccccccccccccccccccccccEEEEEccccccHHHHHHHHccccccccccccccccccEEEEcccEEccccccccccccccccccEEEEEccEEEEHHcHHHHHHHcccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccHEEEEHHcHHHHHHHHcccHHcccccccccEEEEccccEEEHHHHHHHHcccccHHHccccccHHHHHHHHHccEEEEEHEEHHHHHcccccccEEEEEccEEEEcccHHHHHHHHccccccccccccccHcHHHHHHHcc
Coil and Loop (DISEMBL)
MPTRRMWYIDICDYRSYFDSLRLATHYQvdlttdassvtqgalaggasgglkecascgKRITERFLLKALDlfwhedclkcgccdcrlgevgstLYQKANLILCKRDYLRlfgttgycaacTKVIPAFEMVMRAKNnvyhlecfacqqcnhrfcvgdrfylcdnkilceydyEERQVFAniaynpsslaHLRRQVTLQVLWIRE
Flexible Loop (DISEMBL)
MPTRRMWYIDICDYRSYFDSLRLATHYQVDLTTDASSVTQGALAGGASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFANIAynpsslahlrrQVTLQVLWIRE
Low Complexity Region (SEG)
MPTRRMWYIDICDYRSYFDSLRLATHYQVDLTTDASSVTQgalaggasgglKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPSSLAHLRRQVTLQVLWIRE
Disordered region (IsUnstruct)
****RMWYIDICDYRSYFDSLRLATHYQVDLTTDASSVTQGALAGGASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPSSLAHLRRQVTLQVLWI**
Disordered Region (DISOPRED)
********************************************************CGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY********************************
Disordered Region (DISEMBL)
MPTRRMWYIDICDYRSYFDSLRLATHYQVDLTTDASSVTQGALAGGASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPSSLAHLRRQVTLQVLWIRE
Disordered Region (DISPRO)
*PTRRMWYIDICDYRSYFDSLR****************************LKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFAN**************V*L*******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MPTRRMWYIDICDYRSYFDSLRLATHYQVDLTTDASSVTQGALAGGASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPSSLAHLRRQVTLQVLWIRE
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	204	2.2.26 [Sep-21-2011]
Q3B8H4	156	Rhombotin-1 OS=Xenopus la	N/A	N/A	0.661	0.865	0.725	2e-54
P25800	156	Rhombotin-1 OS=Homo sapie	yes	N/A	0.661	0.865	0.725	3e-54
Q0P5B3	156	Rhombotin-1 OS=Bos taurus	yes	N/A	0.661	0.865	0.725	3e-54
Q8JFQ2	155	Rhombotin-1 OS=Danio reri	yes	N/A	0.661	0.870	0.725	3e-54
Q924W9	156	Rhombotin-1 OS=Mus muscul	yes	N/A	0.647	0.846	0.734	1e-53
Q99MB5	145	LIM domain only protein 3	no	N/A	0.637	0.896	0.734	2e-53
Q9YH16	156	LIM domain only protein 3	N/A	N/A	0.593	0.775	0.772	9e-53
Q5RBW7	145	LIM domain only protein 3	no	N/A	0.593	0.834	0.772	9e-53
Q8BZL8	145	LIM domain only protein 3	no	N/A	0.593	0.834	0.772	9e-53
Q8TAP4	145	LIM domain only protein 3	no	N/A	0.593	0.834	0.772	9e-53

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

 Score =  211 bits (537), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 98/135 (72%), Positives = 115/135 (85%)

Query: 43  LAGGASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLI 102
           L+    G  K CA C ++I +R+LLKALD +WHEDCLKC CCDCRLGEVGSTLY KANLI
Sbjct: 13  LSVQPKGKQKGCAGCNRKIKDRYLLKALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLI 72

Query: 103 LCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC 162
           LC+RDYLRLFGTTG CAAC+K+IPAFEMVMRA++NVYHL+CFACQ CN RFCVGD+F+L 
Sbjct: 73  LCRRDYLRLFGTTGNCAACSKLIPAFEMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLK 132

Query: 163 DNKILCEYDYEERQV 177
           +N ILC+ DYEE Q+
Sbjct: 133 NNMILCQMDYEEGQL 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 =  211 bits (537), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 98/135 (72%), Positives = 115/135 (85%)

Query: 43  LAGGASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLI 102
           L+    G  K CA C ++I +R+LLKALD +WHEDCLKC CCDCRLGEVGSTLY KANLI
Sbjct: 13  LSVQPKGKQKGCAGCNRKIKDRYLLKALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLI 72

Query: 103 LCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC 162
           LC+RDYLRLFGTTG CAAC+K+IPAFEMVMRA++NVYHL+CFACQ CN RFCVGD+F+L 
Sbjct: 73  LCRRDYLRLFGTTGNCAACSKLIPAFEMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLK 132

Query: 163 DNKILCEYDYEERQV 177
           +N ILC+ DYEE Q+
Sbjct: 133 NNMILCQMDYEEGQL 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|Q0P5B3|RBTN1_BOVIN Rhombotin-1 OS=Bos taurus GN=LMO1 PE=2 SV=1

 Score =  211 bits (537), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 98/135 (72%), Positives = 115/135 (85%)

Query: 43  LAGGASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLI 102
           L+    G  K CA C ++I +R+LLKALD +WHEDCLKC CCDCRLGEVGSTLY KANLI
Sbjct: 13  LSVQPKGKQKGCAGCNRKIKDRYLLKALDQYWHEDCLKCACCDCRLGEVGSTLYTKANLI 72

Query: 103 LCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC 162
           LC+RDYLRLFGTTG CAAC+K+IPAFEMVMRA++NVYHL+CFACQ CN RFCVGD+F+L 
Sbjct: 73  LCRRDYLRLFGTTGNCAACSKLIPAFEMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLK 132

Query: 163 DNKILCEYDYEERQV 177
           +N ILC+ DYEE Q+
Sbjct: 133 NNMILCQMDYEEGQL 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|Q8JFQ2|RBTN1_DANRE Rhombotin-1 OS=Danio rerio GN=lmo1 PE=2 SV=1

 Score =  211 bits (536), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 98/135 (72%), Positives = 115/135 (85%)

Query: 43  LAGGASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLI 102
           L+    G  K CA C ++I +R+LLKALD +WHEDCLKC CCDCRLGEVGSTLY KANLI
Sbjct: 12  LSVQPKGKQKGCAGCNRKIKDRYLLKALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLI 71

Query: 103 LCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC 162
           LC+RDYLRLFGTTG CAAC+K+IPAFEMVMRA++NVYHL+CFACQ CN RFCVGD+F+L 
Sbjct: 72  LCRRDYLRLFGTTGNCAACSKLIPAFEMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLK 131

Query: 163 DNKILCEYDYEERQV 177
           +N ILC+ DYEE Q+
Sbjct: 132 NNMILCQMDYEEGQL 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|Q924W9|RBTN1_MOUSE Rhombotin-1 OS=Mus musculus GN=Lmo1 PE=2 SV=1

 Score =  209 bits (531), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 97/132 (73%), Positives = 113/132 (85%)

Query: 43  LAGGASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLI 102
           L+    G  K CA C ++I +R+LLKALD +WHEDCLKC CCDCRLGEVGSTLY KANLI
Sbjct: 13  LSVQPKGKQKGCAGCNRKIKDRYLLKALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLI 72

Query: 103 LCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC 162
           LC+RDYLRLFGTTG CAAC+K+IPAFEMVMRA++NVYHL+CFACQ CN RFCVGD+F+L 
Sbjct: 73  LCRRDYLRLFGTTGNCAACSKLIPAFEMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLK 132

Query: 163 DNKILCEYDYEE 174
           +N ILC+ DYEE
Sbjct: 133 NNMILCQVDYEE 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 =  208 bits (529), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 97/132 (73%), Positives = 113/132 (85%)

Query: 43  LAGGASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLI 102
           L+    G  K CA C ++I +R+LLKALD +WHEDCLKC CCDCRLGEVGSTLY KANLI
Sbjct: 2   LSVQPKGKQKGCAGCNRKIKDRYLLKALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLI 61

Query: 103 LCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC 162
           LC+RDYLRLFGTTG CAAC+K+IPAFEMVMRA++NVYHL+CFACQ CN RFCVGD+F+L 
Sbjct: 62  LCRRDYLRLFGTTGNCAACSKLIPAFEMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLK 121

Query: 163 DNKILCEYDYEE 174
           +N ILC+ DYEE
Sbjct: 122 NNMILCQTDYEE 133

Rattus norvegicus (taxid: 10116)

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

 Score =  206 bits (524), Expect = 9e-53,   Method: Compositional matrix adjust.
 Identities = 95/123 (77%), Positives = 108/123 (87%)

Query: 52  KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 111
           K CA C ++I +R+LLKALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRL
Sbjct: 22  KGCAGCNRKIKDRYLLKALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRL 81

Query: 112 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 171
           FG TG CAAC+K+IPAFEMVMRAK NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ D
Sbjct: 82  FGVTGNCAACSKLIPAFEMVMRAKENVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQTD 141

Query: 172 YEE 174
           YEE
Sbjct: 142 YEE 144

Xenopus laevis (taxid: 8355)

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

 Score =  206 bits (524), Expect = 9e-53,   Method: Compositional matrix adjust.
 Identities = 95/123 (77%), Positives = 109/123 (88%)

Query: 52  KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 111
           K CA C ++I +R+LLKALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRL
Sbjct: 11  KGCAGCNRKIKDRYLLKALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRL 70

Query: 112 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 171
           FG TG CAAC+K+IPAFEMVMRAK+NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ D
Sbjct: 71  FGVTGNCAACSKLIPAFEMVMRAKDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQTD 130

Query: 172 YEE 174
           YEE
Sbjct: 131 YEE 133

Pongo abelii (taxid: 9601)

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

 Score =  206 bits (524), Expect = 9e-53,   Method: Compositional matrix adjust.
 Identities = 95/123 (77%), Positives = 109/123 (88%)

Query: 52  KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 111
           K CA C ++I +R+LLKALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRL
Sbjct: 11  KGCAGCNRKIKDRYLLKALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRL 70

Query: 112 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 171
           FG TG CAAC+K+IPAFEMVMRAK+NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ D
Sbjct: 71  FGVTGNCAACSKLIPAFEMVMRAKDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQTD 130

Query: 172 YEE 174
           YEE
Sbjct: 131 YEE 133

Mus musculus (taxid: 10090)

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

 Score =  206 bits (524), Expect = 9e-53,   Method: Compositional matrix adjust.
 Identities = 95/123 (77%), Positives = 109/123 (88%)

Query: 52  KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 111
           K CA C ++I +R+LLKALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRL
Sbjct: 11  KGCAGCNRKIKDRYLLKALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRL 70

Query: 112 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 171
           FG TG CAAC+K+IPAFEMVMRAK+NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ D
Sbjct: 71  FGVTGNCAACSKLIPAFEMVMRAKDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQTD 130

Query: 172 YEE 174
           YEE
Sbjct: 131 YEE 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	204
158289946	204	AGAP010391-PA [Anopheles gambiae str. PE	0.823	0.823	0.857	7e-79
270005132	254	hypothetical protein TcasGA2_TC007141 [T	0.803	0.645	0.824	7e-79
157116702	218	rhombotin [Aedes aegypti] gi|108876328|g	0.803	0.752	0.866	2e-78
242005244	284	LIM-only protein, putative [Pediculus hu	0.730	0.524	0.919	3e-78
189236731	231	PREDICTED: similar to AGAP010391-PA [Tri	0.725	0.640	0.912	1e-76
170031972	255	rhombotin [Culex quinquefasciatus] gi|16	0.813	0.650	0.846	3e-76
328712778	388	PREDICTED: hypothetical protein LOC10016	0.838	0.440	0.796	6e-76
91080717	241	PREDICTED: similar to beadex/dLMO protei	0.808	0.684	0.795	9e-75
357622819	359	beadex/dLMO protein [Danaus plexippus]	0.867	0.493	0.724	3e-73
114052529	267	beadex/dLMO protein [Bombyx mori] gi|872	0.857	0.655	0.720	2e-71

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

 Score =  298 bits (764), Expect = 7e-79,   Method: Compositional matrix adjust.
 Identities = 145/169 (85%), Positives = 153/169 (90%), Gaps = 1/169 (0%)

Query: 32  TTDASSVTQGALAGGASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEV 91
           TT  SSV+  A    A+G  K+CA CGKRITERFLLKALD+FWHEDCLKCGCCDCRLGEV
Sbjct: 31  TTIQSSVSATANQVAATGLAKDCAGCGKRITERFLLKALDIFWHEDCLKCGCCDCRLGEV 90

Query: 92  GSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNH 151
           GSTLY KANLILCKRDYLRLFGTTGYCAAC KVIPAFEMVMRAKNNVYHLECFACQQCNH
Sbjct: 91  GSTLYTKANLILCKRDYLRLFGTTGYCAACNKVIPAFEMVMRAKNNVYHLECFACQQCNH 150

Query: 152 RFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPSSLAHLRRQVT-LQV 199
           RFCVGDRFYLCDNKILCEYDYEER VFA++A NPSSLAH+RRQV+ LQV
Sbjct: 151 RFCVGDRFYLCDNKILCEYDYEERLVFASMACNPSSLAHIRRQVSNLQV 199

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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

 Score =  298 bits (764), Expect = 7e-79,   Method: Compositional matrix adjust.
 Identities = 141/171 (82%), Positives = 150/171 (87%), Gaps = 7/171 (4%)

Query: 24  ATHYQVDLTTDASSVTQGALAGGASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGC 83
            T   V ++T A+S   GA       G++ECA CGKRITERFLLKALDL+WHEDCLKCGC
Sbjct: 25  PTPVPVSVSTAANSTATGA-------GVRECAGCGKRITERFLLKALDLYWHEDCLKCGC 77

Query: 84  CDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLEC 143
           CDCRLGEVGSTLY KANLILCKRDYLRLFGTTGYCAAC KVIPAFEMVMRAK+NVYHLEC
Sbjct: 78  CDCRLGEVGSTLYTKANLILCKRDYLRLFGTTGYCAACNKVIPAFEMVMRAKSNVYHLEC 137

Query: 144 FACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPSSLAHLRRQ 194
           FACQQCNHRFCVGDRFYLCDNKILCEYDYEER VFAN+ YNPSSLAH+RRQ
Sbjct: 138 FACQQCNHRFCVGDRFYLCDNKILCEYDYEERLVFANMTYNPSSLAHIRRQ 188

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

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 =  297 bits (760), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 143/165 (86%), Positives = 151/165 (91%), Gaps = 1/165 (0%)

Query: 36  SSVTQGALAGGASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTL 95
           SSV+      G++G  K+CA CGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTL
Sbjct: 49  SSVSSTPNLIGSNGMAKDCAGCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTL 108

Query: 96  YQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCV 155
           Y KANLILCKRDYLRLFGTTGYCAAC KVIPAFEMVMRAKNNVYHLECFACQQCNHRFCV
Sbjct: 109 YTKANLILCKRDYLRLFGTTGYCAACNKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCV 168

Query: 156 GDRFYLCDNKILCEYDYEERQVFANIAYNPSSLAHLRRQVT-LQV 199
           GDRFYLCDNKILCEYDYEER VFA++A NPSSLAH+RRQV+ LQV
Sbjct: 169 GDRFYLCDNKILCEYDYEERLVFASMACNPSSLAHIRRQVSNLQV 213

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>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 =  296 bits (758), Expect = 3e-78,   Method: Compositional matrix adjust.
 Identities = 137/149 (91%), Positives = 142/149 (95%)

Query: 47  ASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKR 106
            S G +ECA CGKRITERFLLKA+DLFWHEDCLKCGCCDCRLGEVGSTLY KANLILCKR
Sbjct: 42  PSSGPRECAGCGKRITERFLLKAIDLFWHEDCLKCGCCDCRLGEVGSTLYTKANLILCKR 101

Query: 107 DYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKI 166
           DYLRLFGTTGYCAAC KVIPAFEMVMRAK+NVYHLECFACQQCNHRFCVGDRFYLCDNKI
Sbjct: 102 DYLRLFGTTGYCAACNKVIPAFEMVMRAKSNVYHLECFACQQCNHRFCVGDRFYLCDNKI 161

Query: 167 LCEYDYEERQVFANIAYNPSSLAHLRRQV 195
           LCEYDYEER VFAN+AYNPSSLAH+RRQV
Sbjct: 162 LCEYDYEERLVFANMAYNPSSLAHIRRQV 190

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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

 Score =  291 bits (745), Expect = 1e-76,   Method: Compositional matrix adjust.
 Identities = 135/148 (91%), Positives = 142/148 (95%)

Query: 49  GGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDY 108
           G ++ECA CGKRITERFLLKALDL+WHEDCLKCGCCDCRLGEVGSTLY KANLILCKRDY
Sbjct: 15  GRVRECAGCGKRITERFLLKALDLYWHEDCLKCGCCDCRLGEVGSTLYTKANLILCKRDY 74

Query: 109 LRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILC 168
           LRLFGTTGYCAAC KVIPAFEMVMRAK+NVYHLECFACQQCNHRFCVGDRFYLCDNKILC
Sbjct: 75  LRLFGTTGYCAACNKVIPAFEMVMRAKSNVYHLECFACQQCNHRFCVGDRFYLCDNKILC 134

Query: 169 EYDYEERQVFANIAYNPSSLAHLRRQVT 196
           EYDYEER VFAN+ YNPSSLAH+RRQV+
Sbjct: 135 EYDYEERLVFANMTYNPSSLAHIRRQVS 162

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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

 Score =  290 bits (742), Expect = 3e-76,   Method: Compositional matrix adjust.
 Identities = 143/169 (84%), Positives = 148/169 (87%), Gaps = 3/169 (1%)

Query: 36  SSVTQGALAGGASGGL--KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGS 93
           SS+      G  S GL  K+CA CGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGS
Sbjct: 62  SSIQSAPNLGLGSTGLANKDCAGCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGS 121

Query: 94  TLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRF 153
           TLY KANLILCKRDYLRLFGTTGYCAAC KVIPAFEMVMRAKNNVYHLECFACQQCNHRF
Sbjct: 122 TLYTKANLILCKRDYLRLFGTTGYCAACNKVIPAFEMVMRAKNNVYHLECFACQQCNHRF 181

Query: 154 CVGDRFYLCDNKILCEYDYEERQVFANIAYNPSSLAHLRRQVTLQV-LW 201
           CVGDRFYLCDNKILCEYDYEER VFA++A NPSSLAH+RRQ    V LW
Sbjct: 182 CVGDRFYLCDNKILCEYDYEERLVFASMACNPSSLAHIRRQRKYIVELW 230

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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

 Score =  289 bits (739), Expect = 6e-76,   Method: Compositional matrix adjust.
 Identities = 141/177 (79%), Positives = 154/177 (87%), Gaps = 6/177 (3%)

Query: 26  HYQVD--LTTDASSVTQGALAG--GASGGL-KECASCGKRITERFLLKALDLFWHEDCLK 80
           H Q +  + T+  +VT   L G  G++  + +ECA+CGKRITERFLLKALDLFWHEDCLK
Sbjct: 26  HQQTNGGVVTNGGTVTATTLTGLNGSTAMIARECANCGKRITERFLLKALDLFWHEDCLK 85

Query: 81  CGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYH 140
           CGCCDCRLGEVGSTLY KANLILCKRDYLRLFG TG CAAC KVIPAFEMVMRAKNNVYH
Sbjct: 86  CGCCDCRLGEVGSTLYTKANLILCKRDYLRLFGATGNCAACNKVIPAFEMVMRAKNNVYH 145

Query: 141 LECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFANIA-YNPSSLAHLRRQVT 196
           LECFACQQCNHRFCVGDRFYLC+NKILCEYDYEER VFAN+A YN SSLAH+RRQV+
Sbjct: 146 LECFACQQCNHRFCVGDRFYLCENKILCEYDYEERLVFANMATYNSSSLAHIRRQVS 202

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

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 =  285 bits (728), Expect = 9e-75,   Method: Compositional matrix adjust.
 Identities = 132/166 (79%), Positives = 147/166 (88%), Gaps = 1/166 (0%)

Query: 38  VTQGALAGGASG-GLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLY 96
           V++G  A  +SG G +ECA C K ITER+LLKALDL+WHEDCLKCGCCDCRLGEVGSTLY
Sbjct: 19  VSKGEAAKPSSGQGPQECAGCCKTITERYLLKALDLYWHEDCLKCGCCDCRLGEVGSTLY 78

Query: 97  QKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVG 156
            KANLILCKRDYLRLFG TGYCAAC+KVIPAFEMVMRA++NVYHLECFACQQCNHRFCVG
Sbjct: 79  TKANLILCKRDYLRLFGNTGYCAACSKVIPAFEMVMRARSNVYHLECFACQQCNHRFCVG 138

Query: 157 DRFYLCDNKILCEYDYEERQVFANIAYNPSSLAHLRRQVTLQVLWI 202
           DRFYLC+NKILCEYDYEER VFAN+AYNP  L+HL+RQ ++    I
Sbjct: 139 DRFYLCENKILCEYDYEERLVFANMAYNPPPLSHLKRQTSIPPPNI 184

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 =  280 bits (715), Expect = 3e-73,   Method: Compositional matrix adjust.
 Identities = 129/178 (72%), Positives = 144/178 (80%), Gaps = 1/178 (0%)

Query: 20  SLRLATHYQVDLTTDASSVTQGALAGGASGGLKE-CASCGKRITERFLLKALDLFWHEDC 78
           S +L     +D+T +A +    +  G  +    + CA C K ITER+LLKALD  WHEDC
Sbjct: 132 SSQLGHMLAMDVTKEARASPLPSTTGAPAQPQPQICAGCSKVITERYLLKALDQLWHEDC 191

Query: 79  LKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNV 138
           LKCGCCDCRLGEVG TLY +ANLILCKRDYLRLFG TGYCAAC KVIPAFEMVMRA++NV
Sbjct: 192 LKCGCCDCRLGEVGHTLYTRANLILCKRDYLRLFGNTGYCAACNKVIPAFEMVMRARSNV 251

Query: 139 YHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPSSLAHLRRQVT 196
           YHLECFACQQCNHRFCVGDRFYLC+NKILCEYDYEER VFAN+AYNP  LAHL+RQ T
Sbjct: 252 YHLECFACQQCNHRFCVGDRFYLCENKILCEYDYEERLVFANMAYNPPPLAHLKRQTT 309

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

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 =  274 bits (700), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 129/179 (72%), Positives = 143/179 (79%), Gaps = 4/179 (2%)

Query: 18  FDSLRLATHYQVDLTTDASSVTQGALAGGASGGLKECASCGKRITERFLLKALDLFWHED 77
            D  + A    +  T+ A++VT    +       + CA C K ITER+LLKALD  WHED
Sbjct: 24  MDVTKEARSSPLPATSQATTVT----SAQNPPQPQICAGCSKVITERYLLKALDQLWHED 79

Query: 78  CLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNN 137
           CLKCGCCDCRLGEVG TLY +ANLILCKRDYLRLFG TGYCAAC KVIPAFEMVMRA++N
Sbjct: 80  CLKCGCCDCRLGEVGHTLYTRANLILCKRDYLRLFGNTGYCAACNKVIPAFEMVMRARSN 139

Query: 138 VYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPSSLAHLRRQVT 196
           VYHLECFACQQCNHRFCVGDRFYLC+NKILCEYDYEER VFAN+AYNP  LAHL+RQ T
Sbjct: 140 VYHLECFACQQCNHRFCVGDRFYLCENKILCEYDYEERLVFANMAYNPPPLAHLKRQTT 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	204
UNIPROTKB|P91608	266	Bx "Dttg protein" [Drosophila	0.676	0.518	0.811	1.4e-64
UNIPROTKB|A9ED79	156	LMO1 "Uncharacterized protein"	0.656	0.858	0.720	6.1e-55
UNIPROTKB|F1NBH5	156	LOC100858792 "Uncharacterized	0.617	0.807	0.761	9.9e-55
UNIPROTKB|Q0P5B3	156	LMO1 "Rhombotin-1" [Bos taurus	0.617	0.807	0.761	9.9e-55
UNIPROTKB|E2RLZ2	156	LMO1 "Uncharacterized protein"	0.617	0.807	0.761	9.9e-55
UNIPROTKB|E9PK83	145	LMO1 "Rhombotin-1" [Homo sapie	0.617	0.868	0.761	9.9e-55
UNIPROTKB|E9PSF5	155	LMO1 "Rhombotin-1" [Homo sapie	0.617	0.812	0.761	9.9e-55
UNIPROTKB|P25800	156	LMO1 "Rhombotin-1" [Homo sapie	0.617	0.807	0.761	9.9e-55
UNIPROTKB|Q3B8H4	156	lmo1 "Rhombotin-1" [Xenopus la	0.617	0.807	0.761	9.9e-55
ZFIN|ZDB-GENE-021115-6	155	lmo1 "LIM domain only 1" [Dani	0.617	0.812	0.761	9.9e-55

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

 Score = 658 (236.7 bits), Expect = 1.4e-64, P = 1.4e-64
 Identities = 112/138 (81%), Positives = 124/138 (89%)

Query:    54 CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 113
             CA CGK I +R+LL+ALD+ WHEDCLKCGCCDCRLGEVGSTLY K NL+LCKRDYLRLFG
Sbjct:    45 CAGCGKHIQDRYLLRALDMLWHEDCLKCGCCDCRLGEVGSTLYTKGNLMLCKRDYLRLFG 104

Query:   114 TTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYE 173
              TGYCAAC+KVIPAFEMVMRA+ NVYHLECFACQQCNHRFCVGDRFYLC+NKILCEYDYE
Sbjct:   105 NTGYCAACSKVIPAFEMVMRARTNVYHLECFACQQCNHRFCVGDRFYLCENKILCEYDYE 164

Query:   174 ERQVFANIAYNPSSLAHL 191
             ER VFA++A +P    H+
Sbjct:   165 ERLVFASMANHPMLKRHV 182

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 = 567 (204.7 bits), Expect = 6.1e-55, P = 6.1e-55
 Identities = 98/136 (72%), Positives = 116/136 (85%)

Query:    52 KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 111
             K CA C ++I +R+LLKALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRL
Sbjct:    22 KGCAGCNRKIKDRYLLKALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRL 81

Query:   112 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 171
             FGTTG CAAC+K+IPAFEMVMRA++NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ D
Sbjct:    82 FGTTGNCAACSKLIPAFEMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQLD 141

Query:   172 YEERQVFANIAYNPSS 187
             YEE Q+    A+ P +
Sbjct:   142 YEEGQLTG--AFEPQA 155

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 = 565 (203.9 bits), Expect = 9.9e-55, P = 9.9e-55
 Identities = 96/126 (76%), Positives = 112/126 (88%)

Query:    52 KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 111
             K CA C ++I +R+LLKALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRL
Sbjct:    22 KGCAGCNRKIKDRYLLKALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRL 81

Query:   112 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 171
             FGTTG CAAC+K+IPAFEMVMRA++NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ D
Sbjct:    82 FGTTGNCAACSKLIPAFEMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQMD 141

Query:   172 YEERQV 177
             YEE Q+
Sbjct:   142 YEEGQL 147

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 565 (203.9 bits), Expect = 9.9e-55, P = 9.9e-55
 Identities = 96/126 (76%), Positives = 112/126 (88%)

Query:    52 KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 111
             K CA C ++I +R+LLKALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRL
Sbjct:    22 KGCAGCNRKIKDRYLLKALDQYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRL 81

Query:   112 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 171
             FGTTG CAAC+K+IPAFEMVMRA++NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ D
Sbjct:    82 FGTTGNCAACSKLIPAFEMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQMD 141

Query:   172 YEERQV 177
             YEE Q+
Sbjct:   142 YEEGQL 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 = 565 (203.9 bits), Expect = 9.9e-55, P = 9.9e-55
 Identities = 96/126 (76%), Positives = 112/126 (88%)

Query:    52 KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 111
             K CA C ++I +R+LLKALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRL
Sbjct:    22 KGCAGCNRKIKDRYLLKALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRL 81

Query:   112 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 171
             FGTTG CAAC+K+IPAFEMVMRA++NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ D
Sbjct:    82 FGTTGNCAACSKLIPAFEMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQMD 141

Query:   172 YEERQV 177
             YEE Q+
Sbjct:   142 YEEGQL 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 = 565 (203.9 bits), Expect = 9.9e-55, P = 9.9e-55
 Identities = 96/126 (76%), Positives = 112/126 (88%)

Query:    52 KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 111
             K CA C ++I +R+LLKALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRL
Sbjct:    11 KGCAGCNRKIKDRYLLKALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRL 70

Query:   112 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 171
             FGTTG CAAC+K+IPAFEMVMRA++NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ D
Sbjct:    71 FGTTGNCAACSKLIPAFEMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQMD 130

Query:   172 YEERQV 177
             YEE Q+
Sbjct:   131 YEEGQL 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 = 565 (203.9 bits), Expect = 9.9e-55, P = 9.9e-55
 Identities = 96/126 (76%), Positives = 112/126 (88%)

Query:    52 KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 111
             K CA C ++I +R+LLKALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRL
Sbjct:    21 KGCAGCNRKIKDRYLLKALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRL 80

Query:   112 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 171
             FGTTG CAAC+K+IPAFEMVMRA++NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ D
Sbjct:    81 FGTTGNCAACSKLIPAFEMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQMD 140

Query:   172 YEERQV 177
             YEE Q+
Sbjct:   141 YEEGQL 146

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 565 (203.9 bits), Expect = 9.9e-55, P = 9.9e-55
 Identities = 96/126 (76%), Positives = 112/126 (88%)

Query:    52 KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 111
             K CA C ++I +R+LLKALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRL
Sbjct:    22 KGCAGCNRKIKDRYLLKALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRL 81

Query:   112 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 171
             FGTTG CAAC+K+IPAFEMVMRA++NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ D
Sbjct:    82 FGTTGNCAACSKLIPAFEMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQMD 141

Query:   172 YEERQV 177
             YEE Q+
Sbjct:   142 YEEGQL 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 = 565 (203.9 bits), Expect = 9.9e-55, P = 9.9e-55
 Identities = 96/126 (76%), Positives = 112/126 (88%)

Query:    52 KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 111
             K CA C ++I +R+LLKALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRL
Sbjct:    22 KGCAGCNRKIKDRYLLKALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRL 81

Query:   112 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 171
             FGTTG CAAC+K+IPAFEMVMRA++NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ D
Sbjct:    82 FGTTGNCAACSKLIPAFEMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQMD 141

Query:   172 YEERQV 177
             YEE Q+
Sbjct:   142 YEEGQL 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 = 565 (203.9 bits), Expect = 9.9e-55, P = 9.9e-55
 Identities = 96/126 (76%), Positives = 112/126 (88%)

Query:    52 KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 111
             K CA C ++I +R+LLKALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDYLRL
Sbjct:    21 KGCAGCNRKIKDRYLLKALDKYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDYLRL 80

Query:   112 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 171
             FGTTG CAAC+K+IPAFEMVMRA++NVYHL+CFACQ CN RFCVGD+F+L +N ILC+ D
Sbjct:    81 FGTTGNCAACSKLIPAFEMVMRARDNVYHLDCFACQLCNQRFCVGDKFFLKNNMILCQMD 140

Query:   172 YEERQV 177
             YEE Q+
Sbjct:   141 YEEGQL 146

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA;ISS

GO:0046872 "metal ion binding" evidence=IEA

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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)
Q6DJ06	LMO42_XENTR	No assigned EC number	0.4748	0.6813	0.8424	yes	N/A
Q3B8H4	RBTN1_XENLA	No assigned EC number	0.7259	0.6617	0.8653	N/A	N/A
Q924W9	RBTN1_MOUSE	No assigned EC number	0.7348	0.6470	0.8461	yes	N/A
Q8JFQ2	RBTN1_DANRE	No assigned EC number	0.7259	0.6617	0.8709	yes	N/A
Q99MB5	LMO3_RAT	No assigned EC number	0.7348	0.6372	0.8965	no	N/A
P25800	RBTN1_HUMAN	No assigned EC number	0.7259	0.6617	0.8653	yes	N/A
Q0P5B3	RBTN1_BOVIN	No assigned EC number	0.7259	0.6617	0.8653	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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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	204
cd09390	55	cd09390, LIM2_dLMO, The second LIM domain of dLMO	8e-31
cd09388	55	cd09388, LIM1_LMO1_LMO3, The first LIM domain of L	4e-27
cd09389	55	cd09389, LIM2_LMO1_LMO3, The second LIM domain of	2e-23
cd09386	55	cd09386, LIM1_LMO4, The first LIM domain of LMO4 (	5e-19
cd09387	55	cd09387, LIM2_LMO4, The second LIM domain of LMO4	2e-17
cd09384	56	cd09384, LIM1_LMO2, The first LIM domain of LMO2 (	1e-15
cd09385	56	cd09385, LIM2_LMO2, The second LIM domain of LMO2	8e-15
cd09376	56	cd09376, LIM2_Lhx3_Lhx4, The second LIM domain of	7e-14
cd09378	55	cd09378, LIM2_Lmx1a_Lmx1b, The second LIM domain o	4e-12
cd09377	59	cd09377, LIM2_Lhx2_Lhx9, The second LIM domain of	4e-12
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	1e-11
cd09379	55	cd09379, LIM2_AWH, The second LIM domain of Arrowh	2e-11
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	6e-11
pfam00412	58	pfam00412, LIM, LIM domain	6e-11
cd09473	56	cd09473, LIM2_Lhx4, The second LIM domain of Lhx4	1e-10
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	2e-10
cd09472	57	cd09472, LIM2_Lhx3b, The second LIM domain of Lhx3	4e-10
cd09475	59	cd09475, LIM2_Lhx9, The second LIM domain of Lhx9	6e-10
cd09375	56	cd09375, LIM2_Lhx1_Lhx5, The second LIM domain of	1e-09
pfam00412	58	pfam00412, LIM, LIM domain	2e-09
cd09374	55	cd09374, LIM2_Isl, The second LIM domain of Isl, a	2e-09
cd09471	55	cd09471, LIM2_Isl2, The second LIM domain of Isl2	3e-09
cd09383	55	cd09383, LIM2_Lhx7_Lhx8, The second LIM domain of	6e-09
cd09474	59	cd09474, LIM2_Lhx2, The second LIM domain of Lhx2	1e-08
cd09382	55	cd09382, LIM2_Lhx6, The second LIM domain of Lhx6	3e-08
cd09466	56	cd09466, LIM1_Lhx3a, The first LIM domain of Lhx3a	5e-08
cd09467	55	cd09467, LIM1_Lhx3b, The first LIM domain of Lhx3b	1e-07
cd09369	54	cd09369, LIM1_Lhx2_Lhx9, The first LIM domain of L	4e-07
cd09373	54	cd09373, LIM1_AWH, The first LIM domain of Arrowhe	6e-07
cd09380	54	cd09380, LIM1_Lhx6, The first LIM domain of Lhx6	6e-07
cd09469	64	cd09469, LIM1_Lhx2, The first LIM domain of Lhx2	7e-07
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	8e-07
cd09381	56	cd09381, LIM1_Lhx7_Lhx8, The first LIM domain of L	8e-07
cd09462	74	cd09462, LIM1_LIMK1, The first LIM domain of LIMK1	9e-07
cd09371	53	cd09371, LIM1_Lmx1b, The first LIM domain of Lmx1b	2e-06
cd09468	52	cd09468, LIM1_Lhx4, The first LIM domain of Lhx4	3e-06
cd09367	52	cd09367, LIM1_Lhx1_Lhx5, The first LIM domain of L	4e-06
cd09366	55	cd09366, LIM1_Isl, The first LIM domain of Isl, a	5e-06
cd09470	54	cd09470, LIM1_Lhx9, The first LIM domain of Lhx9	7e-06
cd09364	53	cd09364, LIM1_LIMK, The first LIM domain of LIMK (	9e-06
cd09370	52	cd09370, LIM1_Lmx1a, The first LIM domain of Lmx1a	1e-05
cd09392	53	cd09392, LIM2_Lrg1p_like, The second LIM domain of	2e-05
cd09368	52	cd09368, LIM1_Lhx3_Lhx4, The first LIM domain of L	4e-05
cd09349	87	cd09349, LIM1_Zyxin, The first LIM domain of Zyxin	1e-04
cd09353	60	cd09353, LIM2_Zyxin, The second LIM domain of Zyxi	2e-04
cd09391	57	cd09391, LIM1_Lrg1p_like, The first LIM domain of	4e-04
cd09351	54	cd09351, LIM1_LPP, The first LIM domain of lipoma	7e-04
cd09389	55	cd09389, LIM2_LMO1_LMO3, The second LIM domain of	8e-04
cd09329	52	cd09329, LIM3_abLIM, The third LIM domain of actin	8e-04
cd09338	53	cd09338, LIM3_Paxillin_like, The third LIM domain	0.001
cd09344	54	cd09344, LIM1_FHL1, The first LIM domain of Four a	0.002

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

 Score =  106 bits (267), Expect = 8e-31
 Identities = 49/55 (89%), Positives = 53/55 (96%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 172
           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|188774 cd09388, LIM1_LMO1_LMO3, The first LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)

 Score = 97.2 bits (242), Expect = 4e-27
 Identities = 43/55 (78%), Positives = 49/55 (89%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDY 108
           CA C ++I +R+LLKALD +WHEDCLKC CCDCRLGEVGSTLY KANLILC+RDY
Sbjct: 1   CAGCNRKIKDRYLLKALDQYWHEDCLKCACCDCRLGEVGSTLYTKANLILCRRDY 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|188775 cd09389, LIM2_LMO1_LMO3, The second LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)

 Score = 88.2 bits (218), Expect = 2e-23
 Identities = 42/55 (76%), Positives = 50/55 (90%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 172
           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|188772 cd09386, LIM1_LMO4, The first LIM domain of LMO4 (LIM domain only protein 4)

 Score = 76.7 bits (189), Expect = 5e-19
 Identities = 33/55 (60%), Positives = 40/55 (72%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDY 108
           CA CG +I +RFLL ALD +WH  CLKC CC  +LGE+GS+ Y K  +ILCK DY
Sbjct: 1   CAGCGGKIVDRFLLHALDRYWHNGCLKCSCCQAQLGEIGSSCYTKGGMILCKNDY 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|188773 cd09387, LIM2_LMO4, The second LIM domain of LMO4 (LIM domain only protein 4)

 Score = 72.1 bits (177), Expect = 2e-17
 Identities = 27/54 (50%), Positives = 39/54 (72%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 171
           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|188770 cd09384, LIM1_LMO2, The first LIM domain of LMO2 (LIM domain only protein 2)

 Score = 68.0 bits (166), Expect = 1e-15
 Identities = 32/56 (57%), Positives = 38/56 (67%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYL 109
           C  C + I +R+ LKA+D +WHEDCL C  C CRLGEVG  LY K    LC+RDYL
Sbjct: 1   CGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYL 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|188771 cd09385, LIM2_LMO2, The second LIM domain of LMO2 (LIM domain only protein 2)

 Score = 65.8 bits (160), Expect = 8e-15
 Identities = 31/54 (57%), Positives = 38/54 (70%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 171
           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 = 63.1 bits (154), Expect = 7e-14
 Identities = 28/56 (50%), Positives = 39/56 (69%), Gaps = 1/56 (1%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEYDY 172
           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|188764 cd09378, LIM2_Lmx1a_Lmx1b, The second LIM domain of Lmx1a and Lmx1b

 Score = 58.6 bits (142), Expect = 4e-12
 Identities = 25/55 (45%), Positives = 33/55 (60%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 172
           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|188763 cd09377, LIM2_Lhx2_Lhx9, The second LIM domain of Lhx2 and Lhx9 family

 Score = 58.4 bits (142), Expect = 4e-12
 Identities = 24/55 (43%), Positives = 30/55 (54%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 172
           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|188711 cd08368, LIM, LIM is a small protein-protein interaction domain, containing two zinc fingers

 Score = 56.9 bits (138), Expect = 1e-11
 Identities = 24/55 (43%), Positives = 30/55 (54%), Gaps = 2/55 (3%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDY 108
           CA CGK I  R LL+AL   WH +C KC  C   LG  G + Y+K     C++ Y
Sbjct: 1   CAGCGKPIEGRELLRALGKKWHPECFKCSVCGKPLG--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|188765 cd09379, LIM2_AWH, The second LIM domain of Arrowhead (AWH)

 Score = 56.7 bits (137), Expect = 2e-11
 Identities = 23/55 (41%), Positives = 36/55 (65%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 172
           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|214528 smart00132, LIM, Zinc-binding domain present in Lin-11, Isl-1, Mec-3

 Score = 55.5 bits (134), Expect = 6e-11
 Identities = 22/54 (40%), Positives = 27/54 (50%), Gaps = 1/54 (1%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 171
           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 = 55.4 bits (134), Expect = 6e-11
 Identities = 24/58 (41%), Positives = 31/58 (53%), Gaps = 1/58 (1%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER 175
           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|188857 cd09473, LIM2_Lhx4, The second LIM domain of Lhx4

 Score = 54.6 bits (131), Expect = 1e-10
 Identities = 25/56 (44%), Positives = 37/56 (66%), Gaps = 1/56 (1%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEYDY 172
           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|188711 cd08368, LIM, LIM is a small protein-protein interaction domain, containing two zinc fingers

 Score = 53.9 bits (130), Expect = 2e-10
 Identities = 22/55 (40%), Positives = 25/55 (45%), Gaps = 2/55 (3%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 172
           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|188856 cd09472, LIM2_Lhx3b, The second LIM domain of Lhx3b

 Score = 53.2 bits (127), Expect = 4e-10
 Identities = 27/56 (48%), Positives = 38/56 (67%), Gaps = 1/56 (1%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEYDY 172
           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|188859 cd09475, LIM2_Lhx9, The second LIM domain of Lhx9

 Score = 53.2 bits (127), Expect = 6e-10
 Identities = 26/55 (47%), Positives = 31/55 (56%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 172
           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|188761 cd09375, LIM2_Lhx1_Lhx5, The second LIM domain of Lhx1 (also known as Lim1) and Lhx5

 Score = 52.0 bits (125), Expect = 1e-09
 Identities = 22/56 (39%), Positives = 33/56 (58%), Gaps = 1/56 (1%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCD-NKILCEYDY 172
           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|215907 pfam00412, LIM, LIM domain

 Score = 51.2 bits (123), Expect = 2e-09
 Identities = 24/60 (40%), Positives = 33/60 (55%), Gaps = 3/60 (5%)

Query: 54  CASCGKRITERFLLK-ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLF 112
           CA CGK I +R L++ AL   WH +C +C  C   LG      ++K   + CK DY +LF
Sbjct: 1   CAGCGKPIYDRELVRRALGKVWHPECFRCAVCGKPLGP--GDFFEKDGKLYCKHDYFKLF 58

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

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

 Score = 51.7 bits (124), Expect = 2e-09
 Identities = 21/55 (38%), Positives = 32/55 (58%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 172
           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|188855 cd09471, LIM2_Isl2, The second LIM domain of Isl2

 Score = 51.1 bits (122), Expect = 3e-09
 Identities = 22/55 (40%), Positives = 36/55 (65%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 172
           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|188769 cd09383, LIM2_Lhx7_Lhx8, The second LIM domain of Lhx7 and Lhx8

 Score = 50.0 bits (119), Expect = 6e-09
 Identities = 24/55 (43%), Positives = 32/55 (58%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 172
           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 = 49.3 bits (117), Expect = 1e-08
 Identities = 26/55 (47%), Positives = 31/55 (56%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 172
           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 = 48.2 bits (114), Expect = 3e-08
 Identities = 24/55 (43%), Positives = 31/55 (56%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 172
           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|188850 cd09466, LIM1_Lhx3a, The first LIM domain of Lhx3a

 Score = 47.9 bits (114), Expect = 5e-08
 Identities = 20/55 (36%), Positives = 28/55 (50%), Gaps = 3/55 (5%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDY 108
           CA C   I +RF+LK  D  WH  CLKC  C  +L +     + +   + CK D+
Sbjct: 4   CAGCDHPIFDRFILKVQDKPWHSKCLKCVDCQAQLTD---KCFSRGGQVYCKEDF 55

The first LIM domain of Lhx3a: Lhx3a 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. Lhx3a 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 = 56

>gnl|CDD|188851 cd09467, LIM1_Lhx3b, The first LIM domain of Lhx3b

 Score = 46.5 bits (110), Expect = 1e-07
 Identities = 22/55 (40%), Positives = 31/55 (56%), Gaps = 3/55 (5%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDY 108
           CA C + I +RF+LK LD  WH  CLKC  C  +L E     + + + + CK D+
Sbjct: 4   CAGCNQHIVDRFILKVLDRHWHSKCLKCSDCQTQLAE---KCFSRGDSVYCKDDF 55

The first 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 = 55

>gnl|CDD|188755 cd09369, LIM1_Lhx2_Lhx9, The first LIM domain of Lhx2 and Lhx9 family

 Score = 45.0 bits (107), Expect = 4e-07
 Identities = 23/55 (41%), Positives = 31/55 (56%), Gaps = 1/55 (1%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDY 108
           CA CG++I +RF L A+D  WH  CLKC  C   L +   + + +   I CK DY
Sbjct: 1   CAGCGEKIQDRFYLLAVDRQWHASCLKCCECRLPL-DSELSCFSRDGNIYCKEDY 54

The first 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 = 54

>gnl|CDD|188759 cd09373, LIM1_AWH, The first LIM domain of Arrowhead (AWH)

 Score = 44.7 bits (106), Expect = 6e-07
 Identities = 23/55 (41%), Positives = 28/55 (50%), Gaps = 1/55 (1%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDY 108
           C  CG+ IT+RFLLK     WH  CL+C  C   L    S  + +   I CK DY
Sbjct: 1   CTGCGEPITDRFLLKVSGRSWHVSCLRCCVCQTPLERQPSC-FTRDRQIYCKADY 54

The first 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 = 54

>gnl|CDD|188766 cd09380, LIM1_Lhx6, The first LIM domain of Lhx6

 Score = 44.6 bits (105), Expect = 6e-07
 Identities = 24/55 (43%), Positives = 32/55 (58%), Gaps = 1/55 (1%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDY 108
           C+SCG  I +R+LLK  +L WH  CL+C  C   L +  ++ Y K   I CK DY
Sbjct: 1   CSSCGLEILDRYLLKVNNLIWHVRCLECSVCRTSLRQ-HNSCYIKNKEIFCKMDY 54

The first 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 the 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 = 54

>gnl|CDD|188853 cd09469, LIM1_Lhx2, The first LIM domain of Lhx2

 Score = 44.6 bits (105), Expect = 7e-07
 Identities = 26/56 (46%), Positives = 34/56 (60%), Gaps = 3/56 (5%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLG-EVGSTLYQKANLILCKRDY 108
           CA CG +I++R+ L A+D  WH  CLK  CC+C+L  E   T + K   I CK DY
Sbjct: 11  CAGCGGKISDRYYLLAVDKQWHMRCLK--CCECKLNLESELTCFSKDGSIYCKEDY 64

The first 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 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. Length = 64

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

 Score = 44.3 bits (105), Expect = 8e-07
 Identities = 21/55 (38%), Positives = 27/55 (49%), Gaps = 3/55 (5%)

Query: 54  CASCGKRITER-FLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRD 107
           CA CGK I     +L+AL   WH +C KC  C   L   G T ++K   + CK  
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|188767 cd09381, LIM1_Lhx7_Lhx8, The first LIM domain of Lhx7 and Lhx8

 Score = 44.2 bits (104), Expect = 8e-07
 Identities = 25/56 (44%), Positives = 31/56 (55%), Gaps = 1/56 (1%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYL 109
           C+SCG  I +++LLK  DL WH  CL C  C   LG   ++ Y K   I CK DY 
Sbjct: 2   CSSCGLEIVDKYLLKVNDLCWHVRCLSCSVCRTSLGR-HTSCYIKDKDIFCKLDYF 56

The first 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 = 56

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

 Score = 44.9 bits (106), Expect = 9e-07
 Identities = 23/61 (37%), Positives = 31/61 (50%), Gaps = 3/61 (4%)

Query: 48  SGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRD 107
              L  CASCG+ I +   L+AL+  WH DC +C  C   L       Y+K   + CK+D
Sbjct: 16  GNVLPVCASCGQSIYDGQYLQALNSDWHADCFRCCECGASLSH---WYYEKDGRLFCKKD 72

Query: 108 Y 108
           Y
Sbjct: 73  Y 73

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

>gnl|CDD|188757 cd09371, LIM1_Lmx1b, The first LIM domain of Lmx1b

 Score = 43.1 bits (102), Expect = 2e-06
 Identities = 20/55 (36%), Positives = 32/55 (58%), Gaps = 3/55 (5%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDY 108
           CA C + I++R+LL+  +  WHE+CL+C  C   L     + Y +   + CK+DY
Sbjct: 1   CAGCQRPISDRYLLRVNERSWHEECLQCSVCQQPLTT---SCYFRDRKLYCKQDY 52

The first LIM domain of Lmx1b: Lmx1b 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 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 = 53

>gnl|CDD|188852 cd09468, LIM1_Lhx4, The first LIM domain of Lhx4

 Score = 42.7 bits (100), Expect = 3e-06
 Identities = 22/55 (40%), Positives = 31/55 (56%), Gaps = 3/55 (5%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDY 108
           CA C + I ++F+LK LD  WH  CLKC  C  +L E     + +A  + CK D+
Sbjct: 1   CAGCNQHILDKFILKVLDRHWHSSCLKCADCQMQLAE---RCFSRAGNVYCKEDF 52

The first 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 = 52

>gnl|CDD|188753 cd09367, LIM1_Lhx1_Lhx5, The first LIM domain of Lhx1 (also known as Lim1) and Lhx5

 Score = 42.0 bits (99), Expect = 4e-06
 Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 3/55 (5%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDY 108
           CA C + I ++FLL  LD  WH  C++C  C C L E     + +   + C+ D+
Sbjct: 1   CAGCDRPILDKFLLNVLDRAWHAKCVQCCDCKCPLTE---KCFSREGKLYCRNDF 52

The first 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 = 52

>gnl|CDD|188752 cd09366, LIM1_Isl, The first LIM domain of Isl, a member of LHX protein family

 Score = 41.9 bits (99), Expect = 5e-06
 Identities = 23/56 (41%), Positives = 31/56 (55%), Gaps = 2/56 (3%)

Query: 54  CASCGKRITERFLLK-ALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDY 108
           C  CG +I ++++L+ A DL WH  CLKC  C   L E   T + +     CKRDY
Sbjct: 1   CVGCGGKIHDQYILRVAPDLEWHAACLKCAECGQYLDE-TCTCFVRDGKTYCKRDY 55

The first 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 Is l2 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|188854 cd09470, LIM1_Lhx9, The first LIM domain of Lhx9

 Score = 41.6 bits (97), Expect = 7e-06
 Identities = 26/56 (46%), Positives = 34/56 (60%), Gaps = 3/56 (5%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLG-EVGSTLYQKANLILCKRDY 108
           CA CG +I++R+ L A+D  WH  CLK  CC+C+L  E   T + K   I CK DY
Sbjct: 1   CAGCGGKISDRYYLLAVDKQWHLRCLK--CCECKLALESELTCFAKDGSIYCKEDY 54

The first 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 = 54

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

 Score = 41.3 bits (97), Expect = 9e-06
 Identities = 17/55 (30%), Positives = 29/55 (52%), Gaps = 3/55 (5%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDY 108
           CA C  +I +   ++AL+  WH DC +C  C   L    +  ++K   + C++DY
Sbjct: 1   CAGCRGKILDSQYVQALNQDWHCDCFRCSVCSDSL---SNWYFEKDGKLYCRKDY 52

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

>gnl|CDD|188756 cd09370, LIM1_Lmx1a, The first LIM domain of Lmx1a

 Score = 41.3 bits (97), Expect = 1e-05
 Identities = 21/55 (38%), Positives = 29/55 (52%), Gaps = 3/55 (5%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDY 108
           C  C + I +RFLL+  D  WHE CL+C  C   L    +T + +   + CK DY
Sbjct: 1   CEGCNRVIQDRFLLRVNDSLWHERCLQCASCKEPL---ETTCFYRDKKLYCKEDY 52

The first LIM domain of Lmx1a: Lmx1a 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. 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. Human Lmx1a can be found in pancreas, skeletal muscle, adipose tissue, developing brain, mammary glands, and pituitary. The functions of Lmx1a in the developing nervous system were revealed by studies of mutant mouse. 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, Bmp 6, 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. Within pancreatic cells, the Lmx1a protein interacts synergistically with the bHLH transcription factor E47 to activate the insulin gene enhancer/promoter. 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 = 52

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

 Score = 40.4 bits (95), Expect = 2e-05
 Identities = 15/39 (38%), Positives = 18/39 (46%)

Query: 134 AKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 172
           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|188754 cd09368, LIM1_Lhx3_Lhx4, The first LIM domain of Lhx3 and Lhx4 family

 Score = 39.7 bits (93), Expect = 4e-05
 Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 3/55 (5%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDY 108
           C  C + I +RF+LK LD  WH  CLKC  C  +L +     + +   + CK D+
Sbjct: 1   CGGCQEHILDRFILKVLDRTWHAKCLKCNDCGAQLTD---KCFARNGHVYCKDDF 52

The first 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 = 52

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

 Score = 39.5 bits (92), Expect = 1e-04
 Identities = 18/59 (30%), Positives = 29/59 (49%), Gaps = 1/59 (1%)

Query: 114 TTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 172
           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|188739 cd09353, LIM2_Zyxin, The second LIM domain of Zyxin

 Score = 38.0 bits (88), Expect = 2e-04
 Identities = 23/59 (38%), Positives = 31/59 (52%), Gaps = 2/59 (3%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLF 112
           CA C ++IT+R +LKA    +H  C  C  C C L E  S +  +AN   C  DY R +
Sbjct: 1   CAVCDQKITDR-MLKATGKSYHPQCFTCVVCKCPL-EGESFIVDQANQPHCVNDYHRRY 57

The second 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 cellsubstratum 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 o r scaffolds to support the assembly of multimeric protein. Length = 60

>gnl|CDD|188777 cd09391, LIM1_Lrg1p_like, The first LIM domain of Lrg1p, a LIM and RhoGap domain containing protein

 Score = 36.9 bits (86), Expect = 4e-04
 Identities = 22/60 (36%), Positives = 27/60 (45%), Gaps = 8/60 (13%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNK-----ILCEYDY 172
           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

>gnl|CDD|188737 cd09351, LIM1_LPP, The first LIM domain of lipoma preferred partner (LPP)

 Score = 36.2 bits (84), Expect = 7e-04
 Identities = 20/55 (36%), Positives = 24/55 (43%), Gaps = 1/55 (1%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 172
           C  C + +        A + VYH+ CF C QC      G  FY  D K  CE DY
Sbjct: 1   CVKCGEKVLGEGSGCTAMDQVYHISCFTCHQCQINL-QGKPFYALDGKPYCEEDY 54

The first LIM domain of lipoma preferred partner (LPP): LPP is a member of the zyxin LIM protein family and contains three LIM zinc-binding domains at the C-terminal and proline-rich region at the N-terminal. LPP initially identified as the most frequent translocation partner of HMGA2 (High Mobility Group A2) in a subgroup of benign tumors of adipose tissue (lipomas). It was also shown to be rearranged in a number of other soft tissues, as well as in a case of acute monoblastic leukemia. In addition to its involvement in tumors, LPP was inedited as a smooth muscle restricted LIM protein that plays an important role in SMC migration. LPP is localized at sites of cell adhesion, cell-cell contacts and transiently in the nucleus. In nucleus, it acts as a coactivator for the ETS domain transcription factor PEA3. In addition to PEA3, it interacts with alpha-actinin,vasodilator stimulated phosphoprotein (VASP),Palladin, and Scrib. The LIM domains are the main focal adhesion targeting elements and that the proline- rich region, which harbors binding sites for alpha-actinin and vasodilator- stimulated phosphoprotein (VASP), has a weak targeting capacity. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 54

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

 Score = 36.2 bits (83), Expect = 8e-04
 Identities = 22/56 (39%), Positives = 31/56 (55%), Gaps = 2/56 (3%)

Query: 54  CASCGKRITE-RFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDY 108
           CA+C K I     +++A D  +H DC  C  C+ R   VG   + K N+ILC+ DY
Sbjct: 1   CAACSKLIPAFEMVMRAKDNVYHLDCFACQLCNQRFC-VGDKFFLKNNMILCQMDY 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|188715 cd09329, LIM3_abLIM, The third LIM domain of actin binding LIM (abLIM) proteins

 Score = 35.8 bits (83), Expect = 8e-04
 Identities = 23/56 (41%), Positives = 25/56 (44%), Gaps = 5/56 (8%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRL-GEVGSTLYQKANLILCKRDY 108
           CA CG+ I     L ALD  WH  C KC  C   L GE       K     C+RDY
Sbjct: 1   CAGCGQEIKNGQALLALDKQWHVWCFKCKECGKVLTGEYMG----KDGKPYCERDY 52

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

>gnl|CDD|188724 cd09338, LIM3_Paxillin_like, The third LIM domain of the paxillin like protein family

 Score = 35.4 bits (82), Expect = 0.001
 Identities = 15/55 (27%), Positives = 25/55 (45%), Gaps = 3/55 (5%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDY 108
           C  C K I E ++  AL+  WH +C  C   +C    +  + ++   L  C+  Y
Sbjct: 1   CGGCNKPILENYI-SALNTQWHPECFVCR--ECHKPFINGSFFEHEGLPYCETHY 52

The third LIM domain of the paxillin like protein family: This family consists of paxillin, leupaxin, Hic-5 (ARA55), and other related proteins. There are four LIM domains in the C-terminal of the proteins and leucine-rich LD-motifs in the N-terminal region. Members of this family are adaptor proteins to recruit key components of signal-transduction machinery to specific sub-cellular locations. Paxillin is found at the interface between the plasma membrane and the actin cytoskeleton. Paxillin serves as a platform for the recruitment of numerous regulatory and structural proteins that together control the dynamic changes in cell adhesion, cytoskeletal reorganization and gene expression that are necessary for cell migration and survival. Leupaxin is a cytoskeleton adaptor protein, which is preferentially expressed in hematopoietic cells. It associates with focal adhesion kinases PYK2 and pp125FAK and identified to be a component of the osteoclast pososomal signaling complex. Hic-5 controls cell proliferation, migration and senescence by functioning as coactivator for steroid receptors such as androgen receptor, glucocorticoid receptor and progesterone receptor. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 53

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

 Score = 35.1 bits (81), Expect = 0.002
 Identities = 20/52 (38%), Positives = 24/52 (46%), Gaps = 1/52 (1%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCE 169
           CA C K I A    +  KN  +H  CF C +C       + F   DNKILC 
Sbjct: 1   CAECRKPIGADSKELHHKNRYWHETCFRCAKCYKPL-ANEPFVAKDNKILCG 51

The first LIM domain of Four and a half LIM domains protein 1 (FHL1): FHL1 is heavily expressed in skeletal and cardiac muscles. It plays important roles in muscle growth, differentiation, and sarcomere assembly by acting as a modulator of transcription factors. Defects in FHL1 gene are responsible for a number of Muscular dystrophy-like muscle disorders. It has been detected that FHL1 binds to Myosin-binding protein C, regulating myosin filament formation and sarcomere assembly. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. . Length = 54

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	204
KOG4577|consensus	383		99.93
KOG1701|consensus	468		99.92
KOG1701|consensus	468		99.9
KOG2272|consensus	332		99.82
KOG1044|consensus	670		99.81
KOG2272|consensus	332		99.77
KOG1703|consensus	479		99.74
KOG1703|consensus	479		99.73
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.6
KOG1044|consensus	670		99.56
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.44
KOG1700|consensus	200		99.36
KOG4577|consensus	383		98.92
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.76
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.58
KOG1702|consensus	264		98.35
KOG0490|consensus	235		98.27
KOG1700|consensus	200		97.48
KOG1702|consensus	264		97.29
PF08394	37	Arc_trans_TRASH: Archaeal TRASH domain; InterPro:	91.6
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	88.82
PF08394	37	Arc_trans_TRASH: Archaeal TRASH domain; InterPro:	87.79
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	87.06
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	86.92
KOG0490|consensus	235		86.51
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	85.02
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	84.51
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	83.12
KOG2462|consensus	279		82.37
PF14471	51	DUF4428: Domain of unknown function (DUF4428)	82.18
PF09943	101	DUF2175: Uncharacterized protein conserved in arch	80.92

>KOG4577|consensus

Probab=99.93  E-value=3e-28  Score=192.68  Aligned_cols=145  Identities=39%  Similarity=0.880  Sum_probs=129.8

Q ss_pred             CCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccccCCccCCCc
Q psy7480          50 GLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFE  129 (204)
Q Consensus        50 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C~~~I~~~~  129 (204)
                      ..++|++|.+.|.+.++++++++.||..|++|+.|..+|.   ...|.++|.+||+++|.++|++  +|..|+..|.+..
T Consensus        32 eip~CagC~q~IlDrFilKvl~R~wHs~CLkCs~C~~qL~---drCFsR~~s~yCkedFfKrfGT--KCsaC~~GIpPtq  106 (383)
T KOG4577|consen   32 EIPICAGCDQHILDRFILKVLDRHWHSSCLKCSDCHDQLA---DRCFSREGSVYCKEDFFKRFGT--KCSACQEGIPPTQ  106 (383)
T ss_pred             ccccccchHHHHHHHHHHHHHhhhhhhhhcchhhhhhHHH---HHHhhcCCceeehHHHHHHhCC--cchhhcCCCChHH
Confidence            6789999999999999999999999999999999999997   5689999999999999999999  9999999999865


Q ss_pred             eEEecCCcccccCccccccCCccccCCCeEEE-eCCeeecHHHHHHHhh-------------------------hhcccC
Q psy7480         130 MVMRAKNNVYHLECFACQQCNHRFCVGDRFYL-CDNKILCEYDYEERQV-------------------------FANIAY  183 (204)
Q Consensus       130 ~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~-~~~~~~C~~c~~~~~~-------------------------~~~~~~  183 (204)
                      .+-.|.+.+||.+||.|..|++.|..|++||+ .|+++.|+.+|+..-.                         +...+|
T Consensus       107 VVRkAqd~VYHl~CF~C~iC~R~L~TGdEFYLmeD~rLvCK~DYE~Ak~k~~~~l~gd~~nKRPRTTItAKqLETLK~AY  186 (383)
T KOG4577|consen  107 VVRKAQDFVYHLHCFACFICKRQLATGDEFYLMEDARLVCKDDYETAKQKHCNELEGDASNKRPRTTITAKQLETLKQAY  186 (383)
T ss_pred             HHHHhhcceeehhhhhhHhhhcccccCCeeEEeccceeehhhhHHHHHhccccccccccccCCCcceeeHHHHHHHHHHh
Confidence            56678999999999999999999988999997 4799999999975421                         223444


Q ss_pred             C--CCchHHhhhccCccc
Q psy7480         184 N--PSSLAHLRRQVTLQV  199 (204)
Q Consensus       184 ~--~~~~~~~~~~~~~~~  199 (204)
                      +  |+|++|||+||++.+
T Consensus       187 n~SpKPARHVREQLsseT  204 (383)
T KOG4577|consen  187 NTSPKPARHVREQLSSET  204 (383)
T ss_pred             cCCCchhHHHHHHhhhcc
Confidence            4  999999999999875

>KOG1701|consensus

Probab=99.92  E-value=3.5e-27  Score=195.60  Aligned_cols=130  Identities=25%  Similarity=0.570  Sum_probs=117.3

Q ss_pred             CCCCCccccccccccccc-eeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccccCCcc
Q psy7480          47 ASGGLKECASCGKRITER-FLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVI  125 (204)
Q Consensus        47 ~~~~~~~C~~C~~~I~~~-~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C~~~I  125 (204)
                      ....+.+|.+|++.|++. ..+.||++.||..||+|..|++.|.  ++.||..++++||+.||.....   +|..|+++|
T Consensus       270 ~~~~~~iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~--Gq~FY~v~~k~~CE~cyq~tle---kC~~Cg~~I  344 (468)
T KOG1701|consen  270 VEDYFGICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLA--GQSFYQVDGKPYCEGCYQDTLE---KCNKCGEPI  344 (468)
T ss_pred             hhhhhhhhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhc--cccccccCCcccchHHHHHHHH---HHhhhhhHH
Confidence            344566999999999988 5689999999999999999999998  6889999999999999998776   899999999


Q ss_pred             CCCceEEecCCcccccCccccccCCccccCCCeEEE-eCCeeecHHHHHHHhhhhcccCC
Q psy7480         126 PAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYL-CDNKILCEYDYEERQVFANIAYN  184 (204)
Q Consensus       126 ~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~-~~~~~~C~~c~~~~~~~~~~~~~  184 (204)
                      .  |+++.|.|+.||+.||+|..|++.| +|..|++ .++++||..||.++|......+.
T Consensus       345 ~--d~iLrA~GkayHp~CF~Cv~C~r~l-dgipFtvd~~n~v~Cv~dfh~kfAPrCs~C~  401 (468)
T KOG1701|consen  345 M--DRILRALGKAYHPGCFTCVVCARCL-DGIPFTVDSQNNVYCVPDFHKKFAPRCSVCG  401 (468)
T ss_pred             H--HHHHHhcccccCCCceEEEEecccc-CCccccccCCCceeeehhhhhhcCcchhhcc
Confidence            5  5999999999999999999999999 8999987 47999999999999876665555

>KOG1701|consensus

Probab=99.90  E-value=3.2e-25  Score=184.04  Aligned_cols=124  Identities=26%  Similarity=0.621  Sum_probs=109.9

Q ss_pred             CCCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeE-EeeCCeecccccccccccCcccccccCCccC
Q psy7480          48 SGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTL-YQKANLILCKRDYLRLFGTTGYCAACTKVIP  126 (204)
Q Consensus        48 ~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~-~~~~g~~~C~~cy~~~~~~~~~C~~C~~~I~  126 (204)
                      +..+.+|..|+++|.+. ++.++|+.||+.||+|..|.+.|+.  -.| ...++.+||..||+++|++  +|+.|+++|+
T Consensus       331 q~tlekC~~Cg~~I~d~-iLrA~GkayHp~CF~Cv~C~r~ldg--ipFtvd~~n~v~Cv~dfh~kfAP--rCs~C~~PI~  405 (468)
T KOG1701|consen  331 QDTLEKCNKCGEPIMDR-ILRALGKAYHPGCFTCVVCARCLDG--IPFTVDSQNNVYCVPDFHKKFAP--RCSVCGNPIL  405 (468)
T ss_pred             HHHHHHHhhhhhHHHHH-HHHhcccccCCCceEEEEeccccCC--ccccccCCCceeeehhhhhhcCc--chhhccCCcc
Confidence            34577899999999999 7999999999999999999999983  344 5788999999999999999  9999999998


Q ss_pred             CCc-----eEEecCCcccccCccccccCCcccc---CCCeEEEeCCeeecHHHHHHHh
Q psy7480         127 AFE-----MVMRAKNNVYHLECFACQQCNHRFC---VGDRFYLCDNKILCEYDYEERQ  176 (204)
Q Consensus       127 ~~~-----~~~~~~~~~~H~~Cf~C~~C~~~l~---~~~~~~~~~~~~~C~~c~~~~~  176 (204)
                      +.+     ..|+++++.||.+|++|..|+..|+   ++...|..||+++|+.|+.++.
T Consensus       406 P~~G~~etvRvvamdr~fHv~CY~CEDCg~~LS~e~e~qgCyPld~HllCk~Ch~~Rl  463 (468)
T KOG1701|consen  406 PRDGKDETVRVVAMDRDFHVNCYKCEDCGLLLSSEEEGQGCYPLDGHLLCKTCHLKRL  463 (468)
T ss_pred             CCCCCcceEEEEEccccccccceehhhcCccccccCCCCcceeccCceeechhhhhhh
Confidence            732     2578999999999999999999996   4667999999999999998774

>KOG2272|consensus

Probab=99.82  E-value=8.8e-22  Score=153.56  Aligned_cols=126  Identities=31%  Similarity=0.719  Sum_probs=115.6

Q ss_pred             CCCCCCCCCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCccccccc
Q psy7480          42 ALAGGASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAAC  121 (204)
Q Consensus        42 ~~~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C  121 (204)
                      .++....-+.++|+.|.++|.+. ++.++|+.||.+.|+|+.|.+++-  |...|++.|..||+++|.++||.  .|..|
T Consensus       186 ClrChD~mgipiCgaC~rpIeer-vi~amgKhWHveHFvCa~CekPFl--GHrHYEkkGlaYCe~h~~qLfG~--~CF~C  260 (332)
T KOG2272|consen  186 CLRCHDKMGIPICGACRRPIEER-VIFAMGKHWHVEHFVCAKCEKPFL--GHRHYEKKGLAYCETHYHQLFGN--LCFIC  260 (332)
T ss_pred             ccccccccCCcccccccCchHHH-HHHHhccccchhheeehhcCCccc--chhhhhhcCchhHHHHHHHHhhh--hheec
Confidence            45556777899999999999987 789999999999999999999975  56789999999999999999998  99999


Q ss_pred             CCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHH
Q psy7480         122 TKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE  174 (204)
Q Consensus       122 ~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~  174 (204)
                      +.+|.|  .++.|.++.|-++||.|+.|++.|.....|++.|-.|.|+.||.+
T Consensus       261 ~~~i~G--~vv~al~KawCv~cf~Cs~Cdkkl~~K~Kf~E~DmkP~CKkCy~r  311 (332)
T KOG2272|consen  261 NRVIGG--DVVSALNKAWCVECFSCSTCDKKLTQKNKFYEFDMKPVCKKCYDR  311 (332)
T ss_pred             CCccCc--cHHHHhhhhhccccccccccccccccccceeeeccchHHHHHHhh
Confidence            999976  789999999999999999999999777889999999999999984

>KOG1044|consensus

Probab=99.81  E-value=6.2e-21  Score=163.58  Aligned_cols=118  Identities=31%  Similarity=0.687  Sum_probs=110.3

Q ss_pred             CCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccccCCccCCC
Q psy7480          49 GGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF  128 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C~~~I~~~  128 (204)
                      .+...|++|++.|..+.++.++++.||..||+|..|+..|.   ..|..++|.+||+.||.+.|+.  +|..|.+.|.| 
T Consensus       131 ~~ps~cagc~~~lk~gq~llald~qwhv~cfkc~~c~~vL~---gey~skdg~pyce~dy~~~fgv--kc~~c~~fisg-  204 (670)
T KOG1044|consen  131 YGPSTCAGCGEELKNGQALLALDKQWHVSCFKCKSCSAVLN---GEYMSKDGVPYCEKDYQAKFGV--KCEECEKFISG-  204 (670)
T ss_pred             cCCccccchhhhhhccceeeeeccceeeeeeehhhhccccc---ceeeccCCCcchhhhhhhhcCe--ehHHhhhhhhh-
Confidence            46778999999999988899999999999999999999997   5699999999999999999999  99999999987 


Q ss_pred             ceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHH
Q psy7480         129 EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYE  173 (204)
Q Consensus       129 ~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~  173 (204)
                       .++.|+|+.||+.|-+|+.|+.++.+|++.|+....++-..|-.
T Consensus       205 -kvLqag~kh~HPtCARCsRCgqmF~eGEEMYlQGs~iWHP~C~q  248 (670)
T KOG1044|consen  205 -KVLQAGDKHFHPTCARCSRCGQMFGEGEEMYLQGSEIWHPDCKQ  248 (670)
T ss_pred             -hhhhccCcccCcchhhhhhhccccccchheeeccccccCCcccc
Confidence             89999999999999999999999999999999999988777753

>KOG2272|consensus

Probab=99.77  E-value=4.6e-20  Score=143.98  Aligned_cols=129  Identities=26%  Similarity=0.430  Sum_probs=113.0

Q ss_pred             CCCCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccccCCccC
Q psy7480          47 ASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIP  126 (204)
Q Consensus        47 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C~~~I~  126 (204)
                      ...+.-+|.+|+..|.+. .+...+..||+..|+|..|++.|.   +.-....|.+||..|+.++--+  .|..|.++|.
T Consensus       133 ~~~g~YvC~KCh~~iD~~-~l~fr~d~yH~yHFkCt~C~keL~---sdaRevk~eLyClrChD~mgip--iCgaC~rpIe  206 (332)
T KOG2272|consen  133 KGRGRYVCQKCHAHIDEQ-PLTFRGDPYHPYHFKCTTCGKELT---SDAREVKGELYCLRCHDKMGIP--ICGACRRPIE  206 (332)
T ss_pred             cccceeehhhhhhhcccc-cccccCCCCCccceeccccccccc---chhhhhccceeccccccccCCc--ccccccCchH
Confidence            344567899999999885 688999999999999999999997   3446778899999999988777  9999999995


Q ss_pred             CCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhhhhcccCC
Q psy7480         127 AFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFANIAYN  184 (204)
Q Consensus       127 ~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~~  184 (204)
                        +++|.++|+.||.++|+|+.|.+|+ .|.+.|+..|.+||+.+|.++|.......+
T Consensus       207 --ervi~amgKhWHveHFvCa~CekPF-lGHrHYEkkGlaYCe~h~~qLfG~~CF~C~  261 (332)
T KOG2272|consen  207 --ERVIFAMGKHWHVEHFVCAKCEKPF-LGHRHYEKKGLAYCETHYHQLFGNLCFICN  261 (332)
T ss_pred             --HHHHHHhccccchhheeehhcCCcc-cchhhhhhcCchhHHHHHHHHhhhhheecC
Confidence              5899999999999999999999999 888999999999999999999865554444

>KOG1703|consensus

Probab=99.74  E-value=8e-19  Score=153.96  Aligned_cols=122  Identities=24%  Similarity=0.493  Sum_probs=111.5

Q ss_pred             CCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccccCCccCCC
Q psy7480          49 GGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF  128 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C~~~I~~~  128 (204)
                      ...+.|..|+..|.+..++.++++.||+.+|.|..|+..+..  ..+...+|++||..||...+.+  .|.+|+++|.+ 
T Consensus       301 ~~~p~c~~c~~~i~~~~~i~~~~~~~h~~~~~c~~~~~~~~~--~~~~~~~g~~~c~~~~~~~~~p--~C~~C~~~i~~-  375 (479)
T KOG1703|consen  301 VTRPLCLSCNQKIRSVKVIVALGKEWHPEHFSCEVCAIVILD--GGPRELDGKILCHECFHAPFRP--NCKRCLLPILE-  375 (479)
T ss_pred             cccccccccccCcccceeEeeccccccccceeeccccccccC--CCccccCCCccHHHHHHHhhCc--cccccCCchHH-
Confidence            355899999999999447999999999999999999999875  3468899999999999999998  99999999976 


Q ss_pred             ceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhh
Q psy7480         129 EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV  177 (204)
Q Consensus       129 ~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~  177 (204)
                       .+|.|.++.||++||.|..|++.| .+..|+..++.+||..||.+++.
T Consensus       376 -~~v~a~~~~wH~~cf~C~~C~~~~-~~~~~~~~~~~pyce~~~~~~~~  422 (479)
T KOG1703|consen  376 -EGVCALGRLWHPECFVCADCGKPL-KNSSFFESDGEPYCEDHYKKLFT  422 (479)
T ss_pred             -hHhhhccCeechhceeeecccCCC-CCCcccccCCccchhhhHhhhcc
Confidence             789999999999999999999999 78889999999999999999865

>KOG1703|consensus

Probab=99.73  E-value=2.8e-19  Score=156.82  Aligned_cols=119  Identities=26%  Similarity=0.585  Sum_probs=109.2

Q ss_pred             CCCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccccCCccCC
Q psy7480          48 SGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPA  127 (204)
Q Consensus        48 ~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C~~~I~~  127 (204)
                      ....+.|.+|+++|.+. .|.+++..||++||.|..|++.|.  ...|+..++.+||+.||.+++.+  +|..|.++|..
T Consensus       360 ~~~~p~C~~C~~~i~~~-~v~a~~~~wH~~cf~C~~C~~~~~--~~~~~~~~~~pyce~~~~~~~~~--~~~~~~~p~~~  434 (479)
T KOG1703|consen  360 APFRPNCKRCLLPILEE-GVCALGRLWHPECFVCADCGKPLK--NSSFFESDGEPYCEDHYKKLFTT--KCDYCKKPVEF  434 (479)
T ss_pred             HhhCccccccCCchHHh-HhhhccCeechhceeeecccCCCC--CCcccccCCccchhhhHhhhccc--cchhccchhHh
Confidence            46788999999999999 577889999999999999999997  46799999999999999999998  99999999875


Q ss_pred             CceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHH
Q psy7480         128 FEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY  172 (204)
Q Consensus       128 ~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~  172 (204)
                      .+..+.+++..||..||+|..|.+.| .+..|+...+.++|..|+
T Consensus       435 ~~~~ie~~~~~~h~~~F~c~~c~~~l-~~~~~~~~~~~p~c~~~~  478 (479)
T KOG1703|consen  435 GSRQIEADGSPFHGDCFRCANCMKKL-TKKTFFETLDKPLCQKHF  478 (479)
T ss_pred             hhhHhhccCccccccceehhhhhccc-cCCceeecCCccccccCC
Confidence            56889999999999999999999999 788999999999999885

>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=99.60  E-value=1.9e-15  Score=95.20  Aligned_cols=58  Identities=36%  Similarity=0.745  Sum_probs=52.4

Q ss_pred             ccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHh
Q psy7480         118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  176 (204)
Q Consensus       118 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  176 (204)
                      |.+|+++|.+.+.++.+.|+.||++||+|..|+++| .+..|+..+|++||..||.++|
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 ....

>KOG1044|consensus

Probab=99.56  E-value=4.7e-15  Score=127.78  Aligned_cols=126  Identities=23%  Similarity=0.528  Sum_probs=97.9

Q ss_pred             CCCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEee-CCeecccccccc----------------
Q psy7480          48 SGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQK-ANLILCKRDYLR----------------  110 (204)
Q Consensus        48 ~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~-~g~~~C~~cy~~----------------  110 (204)
                      ......|.+|.+.-.+. ++.+.++.||..||+|..|+..|++. . ||.+ +..+|+......                
T Consensus        13 ~~~~i~c~~c~~kc~ge-vlrv~d~~fhi~cf~c~~cg~~la~~-g-ff~k~~~~~ygt~~c~~~~~gevvsa~gktyh~   89 (670)
T KOG1044|consen   13 GKQGIKCDKCRKKCSGE-VLRVNDNHFHINCFQCKKCGRNLAEG-G-FFTKPENRLYGTDDCRAFVEGEVVSTLGKTYHP   89 (670)
T ss_pred             cccceehhhhCCccccc-eeEeeccccceeeeeccccCCCcccc-c-ceecccceeecccchhhhccceeEecccceecc
Confidence            34456799999998887 89999999999999999999999963 3 5544 445666432211                


Q ss_pred             ----------------------------------------cccCcccccccCCccCCCceEEecCCcccccCccccccCC
Q psy7480         111 ----------------------------------------LFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCN  150 (204)
Q Consensus       111 ----------------------------------------~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~  150 (204)
                                                              ..++ ..|++|+..|.. +..+.|+++.||..||+|..|+
T Consensus        90 ~cf~cs~ck~pf~~g~~vt~~gk~~~c~~c~~~~~~~p~~~~~p-s~cagc~~~lk~-gq~llald~qwhv~cfkc~~c~  167 (670)
T KOG1044|consen   90 KCFSCSTCKSPFKSGDKVTFSGKECLCQTCSQPMPVSPAESYGP-STCAGCGEELKN-GQALLALDKQWHVSCFKCKSCS  167 (670)
T ss_pred             ccceecccCCCCCCCCeeeecchhhhhhhhcCcccCCcccccCC-ccccchhhhhhc-cceeeeeccceeeeeeehhhhc
Confidence                                                    0000 138899988864 4788899999999999999999


Q ss_pred             ccccCCCeEEEeCCeeecHHHHHHHhhhhc
Q psy7480         151 HRFCVGDRFYLCDNKILCEYDYEERQVFAN  180 (204)
Q Consensus       151 ~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~  180 (204)
                      ..| . .+|..++|.+||..||.++|...+
T Consensus       168 ~vL-~-gey~skdg~pyce~dy~~~fgvkc  195 (670)
T KOG1044|consen  168 AVL-N-GEYMSKDGVPYCEKDYQAKFGVKC  195 (670)
T ss_pred             ccc-c-ceeeccCCCcchhhhhhhhcCeeh
Confidence            999 4 479999999999999999885443

>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=99.44  E-value=7.8e-14  Score=87.71  Aligned_cols=57  Identities=39%  Similarity=0.864  Sum_probs=50.8

Q ss_pred             ccccccccccceeE-eecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccc
Q psy7480          54 CASCGKRITERFLL-KALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLF  112 (204)
Q Consensus        54 C~~C~~~I~~~~~~-~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~  112 (204)
                      |.+|+++|.+..++ .++|+.||++||+|..|+..|..  ..++..+|++||..||.++|
T Consensus         1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~--~~~~~~~~~~~C~~c~~~~f   58 (58)
T PF00412_consen    1 CARCGKPIYGTEIVIKAMGKFWHPECFKCSKCGKPLND--GDFYEKDGKPYCKDCYQKRF   58 (58)
T ss_dssp             BTTTSSBESSSSEEEEETTEEEETTTSBETTTTCBTTT--SSEEEETTEEEEHHHHHHHT
T ss_pred             CCCCCCCccCcEEEEEeCCcEEEccccccCCCCCccCC--CeeEeECCEEECHHHHhhhC
Confidence            78999999988544 79999999999999999999984  44899999999999998765

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=99.36  E-value=8.1e-14  Score=108.85  Aligned_cols=124  Identities=22%  Similarity=0.528  Sum_probs=102.5

Q ss_pred             CCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCc-------------
Q psy7480          49 GGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTT-------------  115 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~-------------  115 (204)
                      .....|..|++.++-.+.+...|..||+.||+|..|.+.|..  ..+..+++.+||+.||...+++.             
T Consensus         5 ~~~~kc~~c~k~vy~~e~~~~~g~~~hk~c~~c~~~~k~l~~--~~~~~~e~~~yc~~~~~~~~~~~~~~~~~~~~~~~~   82 (200)
T KOG1700|consen    5 GTTDKCNACGKTVYFVEKVQKDGVDFHKECFKCEKCKKTLTL--SGYSEHEGVPYCKNCHVAQFGPKGGGFGKGFQKAGG   82 (200)
T ss_pred             cccchhhhccCcchHHHHHhccCcchhhhHHhcccccccccc--ccccccccccccccchHhhhCcccccccccccccCC
Confidence            445689999999998866778899999999999999999984  55778999999999765543321             


Q ss_pred             --------------------------ccccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecH
Q psy7480         116 --------------------------GYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCE  169 (204)
Q Consensus       116 --------------------------~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~  169 (204)
                                                ..|..|++.+.+.+ -+...+..||..||+|+.|+..| ....+....+.+||.
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~c~~c~k~vy~~E-k~~~~~~~~hk~cfrc~~~~~~l-s~~~~~~~~g~l~~~  160 (200)
T KOG1700|consen   83 LGKDGKSLNESKPNQSAKFQVFAGEKEKCARCQKTVYPLE-KVTGNGLEFHKSCFRCTHCGKKL-SPKNYAALEGVLYCK  160 (200)
T ss_pred             CCcccccccccccccchhHHhhhccccccccccceeeehH-HHhhhhhhhhhhheeeccccccc-CCcchhhcCCccccc
Confidence                                      13999999998754 45677999999999999999999 667888889999999


Q ss_pred             HHHHHHh
Q psy7480         170 YDYEERQ  176 (204)
Q Consensus       170 ~c~~~~~  176 (204)
                      .++..++
T Consensus       161 ~~~~~~~  167 (200)
T KOG1700|consen  161 HHFAQLF  167 (200)
T ss_pred             hhhheee
Confidence            9887764

>KOG4577|consensus

Probab=98.92  E-value=5.7e-11  Score=94.97  Aligned_cols=74  Identities=20%  Similarity=0.533  Sum_probs=64.8

Q ss_pred             cccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhhhhcccCC--CCchHHhhh
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFANIAYN--PSSLAHLRR  193 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~~--~~~~~~~~~  193 (204)
                      .|++|.+.|.. ..++.+.++.||..|.+|+.|..+|  ++..+.++|.+||+++|.++|.++..+++  ..|...||+
T Consensus        35 ~CagC~q~IlD-rFilKvl~R~wHs~CLkCs~C~~qL--~drCFsR~~s~yCkedFfKrfGTKCsaC~~GIpPtqVVRk  110 (383)
T KOG4577|consen   35 ICAGCDQHILD-RFILKVLDRHWHSSCLKCSDCHDQL--ADRCFSREGSVYCKEDFFKRFGTKCSACQEGIPPTQVVRK  110 (383)
T ss_pred             cccchHHHHHH-HHHHHHHhhhhhhhhcchhhhhhHH--HHHHhhcCCceeehHHHHHHhCCcchhhcCCCChHHHHHH
Confidence            89999999964 4578899999999999999999999  66788899999999999999999999999  445555554

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

Probab=98.76  E-value=5.5e-09  Score=59.77  Aligned_cols=37  Identities=43%  Similarity=0.909  Sum_probs=33.7

Q ss_pred             cccccCCccCCCceEEecCCcccccCccccccCCccc
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRF  153 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l  153 (204)
                      +|.+|+++|.+.+..+.+.++.||++||+|..|+++|
T Consensus         1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L   37 (39)
T smart00132        1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPL   37 (39)
T ss_pred             CccccCCcccCCcEEEEeCCccccccCCCCcccCCcC
Confidence            5899999998765788899999999999999999998

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

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

Probab=98.58  E-value=3.8e-08  Score=56.21  Aligned_cols=37  Identities=46%  Similarity=1.076  Sum_probs=33.5

Q ss_pred             cccccccccccc-eeEeecCccccccCccccCCCcccC
Q psy7480          53 ECASCGKRITER-FLLKALDLFWHEDCLKCGCCDCRLG   89 (204)
Q Consensus        53 ~C~~C~~~I~~~-~~~~~~~~~~H~~Cf~C~~C~~~L~   89 (204)
                      +|.+|+++|.+. ..+.+.+..||+.||+|..|+.+|.
T Consensus         1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L~   38 (39)
T smart00132        1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPLG   38 (39)
T ss_pred             CccccCCcccCCcEEEEeCCccccccCCCCcccCCcCc
Confidence            489999999987 6788899999999999999999885

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=98.35  E-value=1.7e-08  Score=77.30  Aligned_cols=85  Identities=21%  Similarity=0.381  Sum_probs=72.2

Q ss_pred             cccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhhhhcccCCCCchHH-hhhcc
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFANIAYNPSSLAH-LRRQV  195 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~~~~~~~~-~~~~~  195 (204)
                      .|..|++.+.+.+ -+.-.++.||..||+|..|+..| .-.+|-..+.++||..+|.+. +++.++.+|+.++. ...++
T Consensus         6 n~~~cgk~vYPvE-~v~cldk~whk~cfkce~c~mtl-nmKnyKgy~kkpycn~hYpkq-~at~~adTPEm~Rik~n~en   82 (264)
T KOG1702|consen    6 NREDCGKTVYPVE-EVKCLDKVWHKQCFKCEVCGMTL-NMKNYKGYDKKPYCNPHYPKQ-VATVMADTPEMRRIKENTEN   82 (264)
T ss_pred             hhhhhccccccHH-HHhhHHHHHHHHhheeeeccCCh-hhhhccccccCCCcCcccccc-eeeeecCCHHHHHHHhhhcc
Confidence            5788999888754 45778999999999999999999 666787789999999999877 48888899999866 66788


Q ss_pred             CcccccccC
Q psy7480         196 TLQVLWIRE  204 (204)
Q Consensus       196 ~~~~~~~~~  204 (204)
                      .+||.|.+|
T Consensus        83 qS~vkY~~e   91 (264)
T KOG1702|consen   83 QSNVKYHAE   91 (264)
T ss_pred             chhhhhHHH
Confidence            999998775

>KOG0490|consensus

Probab=98.27  E-value=1.1e-07  Score=75.94  Aligned_cols=116  Identities=41%  Similarity=0.823  Sum_probs=96.9

Q ss_pred             ccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccc--cccCcccccccCCccCCCceEEe
Q psy7480          56 SCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLR--LFGTTGYCAACTKVIPAFEMVMR  133 (204)
Q Consensus        56 ~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~--~~~~~~~C~~C~~~I~~~~~~~~  133 (204)
                      .|+..|.+...+.+.+..||..|..|..|...+.. ....+..+|..||..+|..  .+..  +|.+|...|...+.+..
T Consensus         1 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~g~~~~~~d~~~~~~~~~--rr~rt~~~~~ql~~ler   77 (235)
T KOG0490|consen    1 GCGRQILDRYLLRVLDRYWHASCLKCAECDNPLGV-GDTCFSKDGSIYCKRDYQREFKFSK--RCARCKFTISQLDELER   77 (235)
T ss_pred             CCCccccchHHhhcccHHHHHHHHhhhhhcchhcc-CCCcccCCCcccccccchhhhhccc--cccCCCCCcCHHHHHHH
Confidence            36778888866777799999999999999999873 2344555999999999998  6665  99999999977777888


Q ss_pred             cCCcccccCccccccCCccccCCCeEEEeCC-eeecHHHHHHH
Q psy7480         134 AKNNVYHLECFACQQCNHRFCVGDRFYLCDN-KILCEYDYEER  175 (204)
Q Consensus       134 ~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~-~~~C~~c~~~~  175 (204)
                      +..+. |..||.|..|...+..+..+.+... +.+|.+.+.+.
T Consensus        78 ~f~~~-h~Pd~~~r~~la~~~~~~e~rVqvwFqnrrak~r~~~  119 (235)
T KOG0490|consen   78 AFEKV-HLPCFACRECLALLLTGDEFRVQVWFQNRRAKDRKEE  119 (235)
T ss_pred             hhcCC-CcCccchHHHHhhcCCCCeeeeehhhhhhcHhhhhhh
Confidence            88888 9999999999998878888888765 89999888654

>KOG1700|consensus

Probab=97.48  E-value=2.7e-05  Score=60.98  Aligned_cols=65  Identities=23%  Similarity=0.556  Sum_probs=55.0

Q ss_pred             CCCCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeeccccccccccc
Q psy7480          47 ASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG  113 (204)
Q Consensus        47 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~  113 (204)
                      .......|..|++.++..+.+...+..||..||+|..|+..|..  ..+....+.+||...+..++-
T Consensus       104 ~~g~~~~c~~c~k~vy~~Ek~~~~~~~~hk~cfrc~~~~~~ls~--~~~~~~~g~l~~~~~~~~~~~  168 (200)
T KOG1700|consen  104 FAGEKEKCARCQKTVYPLEKVTGNGLEFHKSCFRCTHCGKKLSP--KNYAALEGVLYCKHHFAQLFK  168 (200)
T ss_pred             hhccccccccccceeeehHHHhhhhhhhhhhheeecccccccCC--cchhhcCCccccchhhheeec
Confidence            44567789999999998877888999999999999999999984  567888999999877766543

>KOG1702|consensus

Probab=97.29  E-value=2.9e-05  Score=59.83  Aligned_cols=61  Identities=25%  Similarity=0.506  Sum_probs=51.7

Q ss_pred             CccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeeccccccccccc
Q psy7480          51 LKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG  113 (204)
Q Consensus        51 ~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~  113 (204)
                      ...|..|++.++..+.+.-+++.||..||+|..|+..|..  ..+-..+.++||..+|.+..+
T Consensus         4 k~n~~~cgk~vYPvE~v~cldk~whk~cfkce~c~mtlnm--KnyKgy~kkpycn~hYpkq~a   64 (264)
T KOG1702|consen    4 KCNREDCGKTVYPVEEVKCLDKVWHKQCFKCEVCGMTLNM--KNYKGYDKKPYCNPHYPKQVA   64 (264)
T ss_pred             cchhhhhccccccHHHHhhHHHHHHHHhheeeeccCChhh--hhccccccCCCcCccccccee
Confidence            4567889999998777888999999999999999999974  556678999999999987544

>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=91.60  E-value=0.12  Score=29.03  Aligned_cols=33  Identities=33%  Similarity=0.748  Sum_probs=24.7

Q ss_pred             ccccCCccCCCceEEecCCcccccCccccccCCccc
Q psy7480         118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRF  153 (204)
Q Consensus       118 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l  153 (204)
                      |..|++.|.+...++...++.||   |.|..|.+.|
T Consensus         1 Cd~CG~~I~~eP~~~k~~~~~y~---fCC~tC~~~f   33 (37)
T PF08394_consen    1 CDYCGGEITGEPIVVKIGNKVYY---FCCPTCLSQF   33 (37)
T ss_pred             CCccCCcccCCEEEEEECCeEEE---EECHHHHHHH
Confidence            77899999876667888888888   5556665554

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

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=88.82  E-value=0.32  Score=29.66  Aligned_cols=37  Identities=24%  Similarity=0.652  Sum_probs=25.1

Q ss_pred             cccccCCccCCCceEEe--cCCcccccCcc----cccc--CCccc
Q psy7480         117 YCAACTKVIPAFEMVMR--AKNNVYHLECF----ACQQ--CNHRF  153 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~--~~~~~~H~~Cf----~C~~--C~~~l  153 (204)
                      +|..|+++|...+.++.  .-+..||.+|+    .|..  |+..+
T Consensus         7 ~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~g~C~~~~c~~~~   51 (54)
T PF14446_consen    7 KCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKAGGCINYSCGTGF   51 (54)
T ss_pred             cChhhCCcccCCCCEEECCCCCCcccHHHHhhCCceEeccCCCCc
Confidence            89999999975444444  34667888887    3655  55543

>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=87.79  E-value=0.37  Score=27.04  Aligned_cols=32  Identities=25%  Similarity=0.596  Sum_probs=23.3

Q ss_pred             ccccccccccc-eeEeecCccccccCccccCCCccc
Q psy7480          54 CASCGKRITER-FLLKALDLFWHEDCLKCGCCDCRL   88 (204)
Q Consensus        54 C~~C~~~I~~~-~~~~~~~~~~H~~Cf~C~~C~~~L   88 (204)
                      |..|+.+|.+. .++...++.||   |-|..|...+
T Consensus         1 Cd~CG~~I~~eP~~~k~~~~~y~---fCC~tC~~~f   33 (37)
T PF08394_consen    1 CDYCGGEITGEPIVVKIGNKVYY---FCCPTCLSQF   33 (37)
T ss_pred             CCccCCcccCCEEEEEECCeEEE---EECHHHHHHH
Confidence            77899999988 56778888898   4445554443

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

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

Probab=87.06  E-value=0.45  Score=32.84  Aligned_cols=32  Identities=25%  Similarity=0.571  Sum_probs=22.7

Q ss_pred             CCCccccccccccccc-eeEeecCccccccCcc
Q psy7480          49 GGLKECASCGKRITER-FLLKALDLFWHEDCLK   80 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~-~~~~~~~~~~H~~Cf~   80 (204)
                      .....|..|+++|... .++...|..+|..|++
T Consensus        76 ~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   76 TESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence            3355699999999876 4455567778888763

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 [].

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

Probab=86.92  E-value=0.51  Score=28.06  Aligned_cols=44  Identities=18%  Similarity=0.392  Sum_probs=31.2

Q ss_pred             cccCCCcccCcCCCeEEeeCCee-cccccccccccCcccccccCCccC
Q psy7480          80 KCGCCDCRLGEVGSTLYQKANLI-LCKRDYLRLFGTTGYCAACTKVIP  126 (204)
Q Consensus        80 ~C~~C~~~L~~~~~~~~~~~g~~-~C~~cy~~~~~~~~~C~~C~~~I~  126 (204)
                      .|..|.....   ...+..-|.. +|..|..+......+|..|.++|.
T Consensus         4 ~C~iC~~~~~---~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    4 ECPICFENPR---DVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             B-TTTSSSBS---SEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             CCccCCccCC---ceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            4666766654   4567778888 999999887543348999999984

...

>KOG0490|consensus

Probab=86.51  E-value=0.13  Score=40.67  Aligned_cols=52  Identities=27%  Similarity=0.706  Sum_probs=40.2

Q ss_pred             cCCccCCCceEEecCCcccccCccccccCCccccC-CCeEEEeCCeeecHHHHHH
Q psy7480         121 CTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCV-GDRFYLCDNKILCEYDYEE  174 (204)
Q Consensus       121 C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~-~~~~~~~~~~~~C~~c~~~  174 (204)
                      |+..|.+ ...+.+.+..||..|..|..|...+.. ...|.. +|..||...+..
T Consensus         2 ~~~~~~~-~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~~d~~~   54 (235)
T KOG0490|consen    2 CGRQILD-RYLLRVLDRYWHASCLKCAECDNPLGVGDTCFSK-DGSIYCKRDYQR   54 (235)
T ss_pred             CCccccc-hHHhhcccHHHHHHHHhhhhhcchhccCCCcccC-CCcccccccchh
Confidence            5666654 235566689999999999999999942 334555 999999999987

>smart00504 Ubox Modified RING finger domain

Probab=85.02  E-value=0.48  Score=29.33  Aligned_cols=46  Identities=7%  Similarity=0.030  Sum_probs=32.8

Q ss_pred             ccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccccCCccCC
Q psy7480          79 LKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPA  127 (204)
Q Consensus        79 f~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C~~~I~~  127 (204)
                      |.|..|+..+.   .......|..||..|..+.+...+.|..|++++..
T Consensus         2 ~~Cpi~~~~~~---~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~   47 (63)
T smart00504        2 FLCPISLEVMK---DPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTH   47 (63)
T ss_pred             cCCcCCCCcCC---CCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence            56788888876   34667788999988887654333378888887743

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

>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=84.51  E-value=0.79  Score=31.60  Aligned_cols=28  Identities=25%  Similarity=0.502  Sum_probs=18.1

Q ss_pred             cccccCCccCCCceEEecCCcccccCcc
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECF  144 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  144 (204)
                      .|..|+++|.....++.-.|..+|..|+
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            6888888886533344444666777775

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 [].

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

Probab=83.12  E-value=1.3  Score=28.06  Aligned_cols=46  Identities=22%  Similarity=0.403  Sum_probs=24.6

Q ss_pred             ccccCCCcccCcCCCeE-EeeCCeecccccccccccCcccccccCCccCCCc
Q psy7480          79 LKCGCCDCRLGEVGSTL-YQKANLILCKRDYLRLFGTTGYCAACTKVIPAFE  129 (204)
Q Consensus        79 f~C~~C~~~L~~~~~~~-~~~~g~~~C~~cy~~~~~~~~~C~~C~~~I~~~~  129 (204)
                      ++|+.|...|..   .+ ...-+.+||..|-...++.  .|..|+.|.+..|
T Consensus         8 LrCs~C~~~l~~---pv~l~~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~qD   54 (65)
T PF14835_consen    8 LRCSICFDILKE---PVCLGGCEHIFCSSCIRDCIGS--ECPVCHTPAWIQD   54 (65)
T ss_dssp             TS-SSS-S--SS----B---SSS--B-TTTGGGGTTT--B-SSS--B-S-SS
T ss_pred             cCCcHHHHHhcC---CceeccCccHHHHHHhHHhcCC--CCCCcCChHHHHH
Confidence            578888888862   32 4566789999999988887  8999999887644

>KOG2462|consensus

Probab=82.37  E-value=0.41  Score=39.02  Aligned_cols=16  Identities=25%  Similarity=0.472  Sum_probs=7.7

Q ss_pred             ccccCccccCCCcccC
Q psy7480          74 WHEDCLKCGCCDCRLG   89 (204)
Q Consensus        74 ~H~~Cf~C~~C~~~L~   89 (204)
                      -|.-=+.|..||+.+.
T Consensus       183 TH~l~c~C~iCGKaFS  198 (279)
T KOG2462|consen  183 THTLPCECGICGKAFS  198 (279)
T ss_pred             ccCCCccccccccccc
Confidence            3443445555555543

>PF14471 DUF4428: Domain of unknown function (DUF4428)

Probab=82.18  E-value=1.2  Score=26.81  Aligned_cols=30  Identities=20%  Similarity=0.490  Sum_probs=23.4

Q ss_pred             ccccCCccccCCCeEEEeCCeeecHHHHHHH
Q psy7480         145 ACQQCNHRFCVGDRFYLCDNKILCEYDYEER  175 (204)
Q Consensus       145 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~  175 (204)
                      .|..|+..++.-..+-+.|| ..|..|+.+.
T Consensus         1 ~C~iCg~kigl~~~~k~~DG-~iC~~C~~Kl   30 (51)
T PF14471_consen    1 KCAICGKKIGLFKRFKIKDG-YICKDCLKKL   30 (51)
T ss_pred             CCCccccccccccceeccCc-cchHHHHHHh
Confidence            48889999854445667788 6999999876

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

Probab=80.92  E-value=0.57  Score=32.39  Aligned_cols=31  Identities=29%  Similarity=0.401  Sum_probs=22.5

Q ss_pred             ccccccccccccceeEee-cCccccccCcccc
Q psy7480          52 KECASCGKRITERFLLKA-LDLFWHEDCLKCG   82 (204)
Q Consensus        52 ~~C~~C~~~I~~~~~~~~-~~~~~H~~Cf~C~   82 (204)
                      -.|..|+++|+.++.+++ .+..-|..||+=.
T Consensus         3 WkC~iCg~~I~~gqlFTF~~kG~VH~~C~~~~   34 (101)
T PF09943_consen    3 WKCYICGKPIYEGQLFTFTKKGPVHYECFREK   34 (101)
T ss_pred             eEEEecCCeeeecceEEEecCCcEeHHHHHHH
Confidence            368889999888865555 4467788888744

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	204
2dfy_X	195	Crystal Structure Of A Cyclized Protein Fusion Of L		1e-36
1rut_X	188	Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 L		1e-36
2xjy_A	131	Crystal Structure Of The Lmo2:ldb1-Lid Complex, P21		2e-35
3mmk_A	169	The Structural Basis For Partial Redundancy In A Cl		4e-23
2rgt_A	169	Crystal Structure Of Lhx3 Lim Domains 1 And 2 With		9e-23
2jtn_A	182	Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Compl		1e-22
2l4z_A	123	Nmr Structure Of Fusion Of Ctip (641-685) To Lmo4-L		1e-16
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
1m3v_A	122	Flin4: Fusion Of The Lim Binding Domain Of Ldb1 And		1e-15
1j2o_A	114	Structure Of Flin2, A Complex Containing The N-Term		3e-14
1x3h_A	80	Solution Structure Of The Lim Domain Of Human Leupa		5e-05

>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 =  149 bits (376), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 62/120 (51%), Positives = 86/120 (71%)
Query: 52  KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 111
           K CA CG +I +RFLL A+D +WH  CLKC  C  +LG++G++ Y K+ +ILC+ DY+RL
Sbjct: 4   KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 63
Query: 112 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 171
           FG +G C+AC + IPA E+VMRA+ NVYHL+CF C  C +R   GDRF+  +  + CE+D
Sbjct: 64  FGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHD 123

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

Iteration: 1
 Score =  149 bits (376), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 62/120 (51%), Positives = 86/120 (71%)
Query: 52  KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 111
           K CA CG +I +RFLL A+D +WH  CLKC  C  +LG++G++ Y K+ +ILC+ DY+RL
Sbjct: 6   KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 65
Query: 112 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 171
           FG +G C+AC + IPA E+VMRA+ NVYHL+CF C  C +R   GDRF+  +  + CE+D
Sbjct: 66  FGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHD 125

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

Iteration: 1
 Score =  145 bits (365), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 69/121 (57%), Positives = 82/121 (67%)
Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 113
           C  C + I +R+ LKA+D +WHEDCL C  C CRLGEVG  LY K    LC+RDYLRLFG
Sbjct: 5   CGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFG 64
Query: 114 TTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYE 173
             G CA+C K I A+EM MR K+ VYHLECF C  C   FCVGDR+ L ++ I+CE D  
Sbjct: 65  QDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIY 124
Query: 174 E 174
           E
Sbjct: 125 E 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 =  104 bits (259), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 51/123 (41%), Positives = 76/123 (61%), Gaps = 6/123 (4%)
Query: 52  KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 111
            +CA C + I ++F+LK LD  WH  CLKC   DC++ ++    + +A  + CK D+ + 
Sbjct: 7   PQCAGCNQHILDKFILKVLDRHWHSSCLKCA--DCQM-QLADRCFSRAGSVYCKEDFFKR 63
Query: 112 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEY 170
           FGT   C AC + IP  ++V +A++ VYHL CFAC  CN +   GD FYL  D +++C+ 
Sbjct: 64  FGTK--CTACQQGIPPTQVVRKAQDFVYHLHCFACIICNRQLATGDEFYLMEDGRLVCKE 121
Query: 171 DYE 173
           DYE
Sbjct: 122 DYE 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 =  103 bits (256), Expect = 9e-23,   Method: Compositional matrix adjust.
 Identities = 54/121 (44%), Positives = 72/121 (59%), Gaps = 6/121 (4%)
Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 113
           CA C + I +RF+LKALD  WH  CLKC  C   L E     + +   + CK D+ + FG
Sbjct: 9   CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAE---RCFSRGESVYCKDDFFKRFG 65
Query: 114 TTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEYDY 172
           T   CAAC   IP  ++V RA++ VYHL CFAC  C  +   GD FYL  D++++C+ DY
Sbjct: 66  TK--CAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADY 123
Query: 173 E 173
           E
Sbjct: 124 E 124

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

Iteration: 1
 Score =  102 bits (255), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 54/121 (44%), Positives = 72/121 (59%), Gaps = 6/121 (4%)
Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 113
           CA C + I +RF+LKALD  WH  CLKC  C   L E     + +   + CK D+ + FG
Sbjct: 63  CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAE---RCFSRGESVYCKDDFFKRFG 119
Query: 114 TTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEYDY 172
           T   CAAC   IP  ++V RA++ VYHL CFAC  C  +   GD FYL  D++++C+ DY
Sbjct: 120 TK--CAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADY 177
Query: 173 E 173
           E
Sbjct: 178 E 178

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

Iteration: 1
 Score = 82.4 bits (202), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 33/62 (53%), Positives = 46/62 (74%)
Query: 52  KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 111
           K CA CG +I +RFLL A+D +WH  CLKC  C  +LG++G++ Y K+ +ILC+ DY+RL
Sbjct: 62  KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 121
Query: 112 FG 113
           FG
Sbjct: 122 FG 123

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

Iteration: 1
 Score = 82.4 bits (202), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 38/67 (56%), Positives = 45/67 (67%)
Query: 108 YLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKIL 167
           YLRLFG  G CA+C K I A+EM MR K+ VYHLECF C  C   F VGDR+ L ++ I+
Sbjct: 3   YLRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDRYLLINSDIV 62
Query: 168 CEYDYEE 174
           CE D  E
Sbjct: 63  CEQDIYE 69

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

Iteration: 1
 Score = 81.6 bits (200), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 38/67 (56%), Positives = 45/67 (67%)
Query: 108 YLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKIL 167
           YLRLFG  G CA+C K I A+EM MR K+ VYHLECF C  C   F VGDR+ L ++ I+
Sbjct: 1   YLRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFSVGDRYLLINSDIV 60
Query: 168 CEYDYEE 174
           CE D  E
Sbjct: 61  CEQDIYE 67

>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 = 79.3 bits (194), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 32/61 (52%), Positives = 45/61 (73%)
Query: 52  KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 111
           K CA CG +I +RFLL A+D +WH  CLKC  C  +LG++G++ Y K+ +ILC+ DY+RL
Sbjct: 6   KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 65
Query: 112 F 112
           F
Sbjct: 66  F 66

>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 = 74.7 bits (182), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 34/58 (58%), Positives = 40/58 (68%)
Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 111
           C  C + I +R+ LKA+D +WHEDCL C  C CRLGEVG  LY K    LC+RDYLRL
Sbjct: 6   CGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRL 63

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 33/71 (46%), Gaps = 5/71 (7%)
Query: 106 RDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNK 165
           +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: 166 ILCEYDYEERQ 176
             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	204
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	6e-53
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	5e-07
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	8e-07
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	3e-50
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	1e-46
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	6e-45
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	1e-12
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	1e-30
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	7e-30
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	5e-08
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	1e-29
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	1e-06
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	2e-28
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	5e-09
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	4e-28
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	8e-11
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	3e-24
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	1e-08
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	4e-18
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	3e-07
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	2e-17
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	6e-07
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	4e-15
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	3e-06
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	5e-15
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	7e-10
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	3e-13
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	5e-08
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	3e-13
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	1e-07
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	6e-13
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	3e-07
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	1e-12
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	5e-07
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	1e-12
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	2e-09
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	4e-12
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	3e-09
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	9e-12
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	8e-09
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	1e-11
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	5e-06
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	1e-11
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	4e-05
2cuq_A	80	Four and A half LIM domains 3; structural genomics	1e-11
2cuq_A	80	Four and A half LIM domains 3; structural genomics	7e-09
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	4e-11
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	3e-09
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	5e-11
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	2e-09
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	7e-11
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	1e-08
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	1e-10
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	5e-09
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	1e-10
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	6e-10
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	3e-10
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	4e-10
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	6e-10
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	3e-09
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	7e-10
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	8e-09
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	6e-07
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	9e-10
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	1e-06
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	2e-09
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	4e-09
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	5e-09
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	9e-06
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	1e-08
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	3e-08
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	3e-08
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	3e-04
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	1e-07
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	1e-06
2co8_A	82	NEDD9 interacting protein with calponin homology a	9e-07
2co8_A	82	NEDD9 interacting protein with calponin homology a	1e-04
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	1e-06
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	2e-04
2cor_A	79	Pinch protein; LIM domain, particularly interestin	1e-05
2cor_A	79	Pinch protein; LIM domain, particularly interestin	2e-05

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

 Score =  165 bits (419), Expect = 6e-53
 Identities = 70/124 (56%), Positives = 83/124 (66%)

Query: 51  LKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLR 110
           L  C  C + I +R+ LKA+D +WHEDCL C  C CRLGEVG  LY K    LC+RDYLR
Sbjct: 2   LLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLR 61

Query: 111 LFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEY 170
           LFG  G CA+C K I A+EM MR K+ VYHLECF C  C   FCVGDR+ L ++ I+CE 
Sbjct: 62  LFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQ 121

Query: 171 DYEE 174
           D  E
Sbjct: 122 DIYE 125

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

 Score = 46.3 bits (110), Expect = 5e-07
 Identities = 17/59 (28%), Positives = 25/59 (42%), Gaps = 2/59 (3%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFC-VGDRFYLCDNKILCEYDYEER 175
           C  C + I      ++A +  +H +C +C  C  R   VG R Y    + LC  DY   
Sbjct: 5   CGGCQQNIGD-RYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRL 62

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

 Score = 45.5 bits (108), Expect = 8e-07
 Identities = 19/69 (27%), Positives = 28/69 (40%), Gaps = 2/69 (2%)

Query: 49  GGLKECASCGKRITERFL-LKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRD 107
           G    CASC KRI    + ++  D  +H +C KC  C       G       + I+C++D
Sbjct: 64  GQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCV-GDRYLLINSDIVCEQD 122

Query: 108 YLRLFGTTG 116
                   G
Sbjct: 123 IYEWTKING 131

>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 =  160 bits (405), Expect = 3e-50
 Identities = 64/141 (45%), Positives = 91/141 (64%)

Query: 47  ASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKR 106
            S   K CA CG +I +RFLL A+D +WH  CLKC  C  +LG++G++ Y K+ +ILC+ 
Sbjct: 1   GSLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRN 60

Query: 107 DYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKI 166
           DY+RLFG +G C+AC + IPA E+VMRA+ NVYHL+CF C  C +R   GDRF+  +  +
Sbjct: 61  DYIRLFGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSL 120

Query: 167 LCEYDYEERQVFANIAYNPSS 187
            CE+D     +  ++    S 
Sbjct: 121 FCEHDRPTALINGHLNSGGSG 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 =  150 bits (381), Expect = 1e-46
 Identities = 55/131 (41%), Positives = 75/131 (57%), Gaps = 6/131 (4%)

Query: 46  GASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCK 105
           G +  +  CA C + I +RF+LKALD  WH  CLKC  C   L E     + +   + CK
Sbjct: 55  GGTPEIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAE---RCFSRGESVYCK 111

Query: 106 RDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DN 164
            D+ + FGT   CAAC   IP  ++V RA++ VYHL CFAC  C  +   GD FYL  D+
Sbjct: 112 DDFFKRFGTK--CAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDS 169

Query: 165 KILCEYDYEER 175
           +++C+ DYE  
Sbjct: 170 RLVCKADYETA 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 =  146 bits (369), Expect = 6e-45
 Identities = 55/131 (41%), Positives = 76/131 (58%), Gaps = 6/131 (4%)

Query: 46  GASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCK 105
           G++  +  CA C + I +RF+LKALD  WH  CLKC  C   L E     + +   + CK
Sbjct: 1   GSTPEIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAE---RCFSRGESVYCK 57

Query: 106 RDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DN 164
            D+ + FGT   CAAC   IP  ++V RA++ VYHL CFAC  C  +   GD FYL  D+
Sbjct: 58  DDFFKRFGTK--CAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDS 115

Query: 165 KILCEYDYEER 175
           +++C+ DYE  
Sbjct: 116 RLVCKADYETA 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 = 62.6 bits (152), Expect = 1e-12
 Identities = 18/100 (18%), Positives = 30/100 (30%), Gaps = 5/100 (5%)

Query: 54  CASCGKRIT-ERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLF 112
           CA+C   I   + + +A D  +H  C  C  C  +L         + + ++CK DY    
Sbjct: 68  CAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAK 127

Query: 113 GTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHR 152
                              M A +   H           +
Sbjct: 128 QGG--SGGSGGSGG--GTPMVAASPERHDGGLQANPVEVQ 163

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

 Score =  107 bits (270), Expect = 1e-30
 Identities = 29/124 (23%), Positives = 46/124 (37%), Gaps = 7/124 (5%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 113
           CA C + I      +A +  WH     C  CD  L   G       +  +CK  Y++   
Sbjct: 6   CAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILA--GEIYVMVNDKPVCKPCYVKNHA 63

Query: 114 TTGYCAACTKVIPAFEMVMRAKNNVYHL--ECFACQQCNHRFCVGDRFYLCDNKILCEYD 171
               C  C   I      +   N  +H   ECF C  C+    +G +F   +  + C  +
Sbjct: 64  V--VCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCL-IGQKFMPVEGMVFCSVE 120

Query: 172 YEER 175
            ++R
Sbjct: 121 CKKR 124

>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 =  105 bits (264), Expect = 7e-30
 Identities = 38/128 (29%), Positives = 64/128 (50%), Gaps = 16/128 (12%)

Query: 47  ASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKR 106
            S   K CA CG +I +RFLL A+D +WH  CLKC  C  +LG++G++ Y K+ +ILC+ 
Sbjct: 1   GSLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRN 60

Query: 107 DYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKI 166
           DY+RLFG +G   +   +    ++++                      +G  F   D ++
Sbjct: 61  DYIRLFGNSGAGGSGGHMGSGGDVMV----------------VGEPTLMGGEFGDEDERL 104

Query: 167 LCEYDYEE 174
           +   +  +
Sbjct: 105 ITRLENTQ 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 = 48.8 bits (116), Expect = 5e-08
 Identities = 16/59 (27%), Positives = 23/59 (38%), Gaps = 2/59 (3%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFC-VGDRFYLCDNKILCEYDYEER 175
           CA C   I     ++ A ++ +H  C  C  C  +   +G   Y     ILC  DY   
Sbjct: 8   CAGCGGKIAD-RFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 65

>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 =  105 bits (262), Expect = 1e-29
 Identities = 43/105 (40%), Positives = 56/105 (53%)

Query: 49  GGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDY 108
           G L  C  C + I +R+ LKA+D +WHEDCL C  C CRLGEVG  LY K    LC+RDY
Sbjct: 1   GSLLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDY 60

Query: 109 LRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRF 153
           LRL G+ G+  +   V+   E  +         E    +  N +F
Sbjct: 61  LRLGGSGGHMGSGGDVMVVGEPTLMGGEFGDEDERLITRLENTQF 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 = 44.7 bits (105), Expect = 1e-06
 Identities = 18/65 (27%), Positives = 27/65 (41%), Gaps = 2/65 (3%)

Query: 113 GTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFC-VGDRFYLCDNKILCEYD 171
           G+   C  C + I      ++A +  +H +C +C  C  R   VG R Y    + LC  D
Sbjct: 1   GSLLTCGGCQQNIGD-RYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRD 59

Query: 172 YEERQ 176
           Y    
Sbjct: 60  YLRLG 64

>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 =  101 bits (254), Expect = 2e-28
 Identities = 30/104 (28%), Positives = 41/104 (39%), Gaps = 5/104 (4%)

Query: 47  ASGGLKECASCGKRIT-ERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCK 105
            S G   C  C K I  +   +   + FWH+ C +C  C   L     T   K N ILC 
Sbjct: 1   GSSGSSGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLA--NETFVAKDNKILCN 58

Query: 106 RDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQC 149
           +   R       C  C K I A +  +  K  V+H +CF+    
Sbjct: 59  KCTTREDSPK--CKGCFKAIVAGDQNVEYKGTVWHKDCFSGPSS 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 = 50.9 bits (122), Expect = 5e-09
 Identities = 20/58 (34%), Positives = 24/58 (41%), Gaps = 1/58 (1%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER 175
           C  C K I A    +  KN  +H  CF C +C H     + F   DNKILC       
Sbjct: 8   CVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPL-ANETFVAKDNKILCNKCTTRE 64

>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 = 91.7 bits (227), Expect = 3e-24
 Identities = 35/82 (42%), Positives = 49/82 (59%)

Query: 32  TTDASSVTQGALAGGASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEV 91
            +       G   G      K CA CG +I +RFLL A+D +WH  CLKC  C  +LG++
Sbjct: 42  QSKLGGGGSGGHMGSGGLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDI 101

Query: 92  GSTLYQKANLILCKRDYLRLFG 113
           G++ Y K+ +ILC+ DY+RLFG
Sbjct: 102 GTSSYTKSGMILCRNDYIRLFG 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 = 50.5 bits (120), Expect = 1e-08
 Identities = 16/59 (27%), Positives = 23/59 (38%), Gaps = 2/59 (3%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFC-VGDRFYLCDNKILCEYDYEER 175
           CA C   I     ++ A ++ +H  C  C  C  +   +G   Y     ILC  DY   
Sbjct: 64  CAGCGGKIAD-RFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 121

>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 = 74.4 bits (183), Expect = 4e-18
 Identities = 22/73 (30%), Positives = 28/73 (38%), Gaps = 5/73 (6%)

Query: 48  SGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRD 107
             G   CA C + I     L ALD  WH  C KC  C   L         K  +  C+ D
Sbjct: 12  IRGPSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTG---EYISKDGVPYCESD 68

Query: 108 YLRLFGTTGYCAA 120
           Y   FG+    ++
Sbjct: 69  YHAQFGSG--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 = 45.5 bits (108), Expect = 3e-07
 Identities = 16/58 (27%), Positives = 24/58 (41%), Gaps = 3/58 (5%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER 175
           CA C + I      + A +  +H+ CF CQ C+        +   D    CE DY  +
Sbjct: 18  CAGCKEEI-KHGQSLLALDKQWHVSCFKCQTCSVIL--TGEYISKDGVPYCESDYHAQ 72

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

 Score = 72.5 bits (178), Expect = 2e-17
 Identities = 21/77 (27%), Positives = 30/77 (38%), Gaps = 5/77 (6%)

Query: 100 NLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRF 159
           +     +DY   FG    C  C+ ++      M A    YH ECFAC  C      GD +
Sbjct: 2   SSGSSGKDYWGKFGEF--CHGCSLLMT--GPFMVAGEFKYHPECFACMSCKVIIEDGDAY 57

Query: 160 YLCDN-KILCEYDYEER 175
            L  +  + C   + E 
Sbjct: 58  ALVQHATLYCGKCHNEV 74

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

 Score = 44.8 bits (106), Expect = 6e-07
 Identities = 10/61 (16%), Positives = 23/61 (37%), Gaps = 1/61 (1%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 113
           C  C   +T  F+  A +  +H +C  C  C   + +  +    +   + C + +  +  
Sbjct: 18  CHGCSLLMTGPFM-VAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVVS 76

Query: 114 T 114
            
Sbjct: 77  G 77

>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 = 66.7 bits (163), Expect = 4e-15
 Identities = 22/68 (32%), Positives = 30/68 (44%), Gaps = 4/68 (5%)

Query: 107 DYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKI 166
           DY RL+GT   C +C + I     V+ A    YH +CF C  C   F  GDR      + 
Sbjct: 9   DYQRLYGTR--CFSCDQFIE--GEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKEC 64

Query: 167 LCEYDYEE 174
           +C+     
Sbjct: 65  MCQKCSLP 72

>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 = 42.9 bits (101), Expect = 3e-06
 Identities = 14/60 (23%), Positives = 22/60 (36%), Gaps = 2/60 (3%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 113
           C SC + I    +  AL   +H DC  C  C       G  +       +C++  L +  
Sbjct: 18  CFSCDQFIEGEVV-SALGKTYHPDCFVCAVCRLPFPP-GDRVTFNGKECMCQKCSLPVSV 75

>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 = 65.9 bits (161), Expect = 5e-15
 Identities = 15/62 (24%), Positives = 25/62 (40%), Gaps = 1/62 (1%)

Query: 114 TTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYE 173
            +  C  C + +      + A + V+H+ CF C  C  +   G  FY  + +  CE  Y 
Sbjct: 4   GSSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLR-GQHFYAVERRAYCEGCYV 62

Query: 174 ER 175
             
Sbjct: 63  AT 64

>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 = 52.4 bits (126), Expect = 7e-10
 Identities = 17/74 (22%), Positives = 26/74 (35%), Gaps = 3/74 (4%)

Query: 47  ASGGLKECASCGKRIT-ERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCK 105
            S G   C  CG+ +  +   + ALD  +H  C  C  C  +L   G   Y       C+
Sbjct: 1   GSSGSSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLR--GQHFYAVERRAYCE 58

Query: 106 RDYLRLFGTTGYCA 119
             Y+    +     
Sbjct: 59  GCYVATLESGPSSG 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 = 62.0 bits (151), Expect = 3e-13
 Identities = 16/72 (22%), Positives = 24/72 (33%), Gaps = 3/72 (4%)

Query: 104 CKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCD 163
             +   R       C  C K I A +  +  K  V+H +CF C  C         F+   
Sbjct: 6   SGKCTTREDSPK--CKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVI-GTGSFFPKG 62

Query: 164 NKILCEYDYEER 175
               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 = 47.7 bits (114), Expect = 5e-08
 Identities = 14/69 (20%), Positives = 26/69 (37%), Gaps = 7/69 (10%)

Query: 54  CASCGKRIT--ERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 111
           C  C K I   ++ + +     WH+DC  C  C   +G    + + K     C   +   
Sbjct: 18  CKGCFKAIVAGDQNV-EYKGTVWHKDCFTCSNCKQVIG--TGSFFPKGEDFYCVTCHETK 74

Query: 112 FGTTGYCAA 120
           F +    ++
Sbjct: 75  FASG--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 = 61.3 bits (149), Expect = 3e-13
 Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 1/60 (1%)

Query: 115 TGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE 174
           +  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 = 46.6 bits (111), Expect = 1e-07
 Identities = 12/61 (19%), Positives = 20/61 (32%), Gaps = 3/61 (4%)

Query: 54  CASCGKRITER-FLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLF 112
           C  C         ++ +    +HE C  C  C  +        Y+      C+ D+  LF
Sbjct: 14  CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFP--EGLFYEFEGRKYCEHDFQMLF 71

Query: 113 G 113
            
Sbjct: 72  A 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 = 60.9 bits (148), Expect = 6e-13
 Identities = 17/72 (23%), Positives = 31/72 (43%), Gaps = 3/72 (4%)

Query: 103 LCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC 162
           + +     L   +  C  C       E ++ +   +YH +CF C QC  +F     FY  
Sbjct: 1   ISEFMANALA--SATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQF-PEGLFYEF 57

Query: 163 DNKILCEYDYEE 174
           + +  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 = 45.5 bits (108), Expect = 3e-07
 Identities = 12/61 (19%), Positives = 20/61 (32%), Gaps = 3/61 (4%)

Query: 54  CASCGKRITER-FLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLF 112
           C  C         ++ +    +HE C  C  C  +        Y+      C+ D+  LF
Sbjct: 14  CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFP--EGLFYEFEGRKYCEHDFQMLF 71

Query: 113 G 113
            
Sbjct: 72  A 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 = 59.7 bits (145), Expect = 1e-12
 Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 4/70 (5%)

Query: 51  LKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLR 110
           L++CA+C + I +R L +A+   +H  C  C  C   L  +  T     + I C  D+ R
Sbjct: 15  LEKCATCSQPILDRIL-RAMGKAYHPGCFTCVVCHRGLDGIPFT-VDATSQIHCIEDFHR 72

Query: 111 LFGTTGYCAA 120
            F +    ++
Sbjct: 73  KFAS--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 = 45.1 bits (107), Expect = 5e-07
 Identities = 17/59 (28%), Positives = 28/59 (47%), Gaps = 4/59 (6%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEYDYEER 175
           CA C++ I   + ++RA    YH  CF C  C+     G  F +   ++I C  D+  +
Sbjct: 18  CATCSQPI--LDRILRAMGKAYHPGCFTCVVCHRGL-DGIPFTVDATSQIHCIEDFHRK 73

>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 = 60.2 bits (146), Expect = 1e-12
 Identities = 17/88 (19%), Positives = 31/88 (35%), Gaps = 5/88 (5%)

Query: 33  TDASSVTQGALAGGASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVG 92
              + VT+     G++  +  C  CG  I    + KA D + H +C  C  C+  L + G
Sbjct: 7   GVRAPVTKVHGGAGSAQRMPLCDKCGSGIVGAVV-KARDKYRHPECFVCADCNLNLKQKG 65

Query: 93  STLYQKANLILCKRDYLRLFGTTGYCAA 120
              +     + C+             + 
Sbjct: 66  Y--FFVEGELYCETHARARTSGP--SSG 89

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

 Score = 51.7 bits (124), Expect = 2e-09
 Identities = 15/58 (25%), Positives = 24/58 (41%), Gaps = 3/58 (5%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER 175
           C  C   I     V++A++   H ECF C  CN        ++  + ++ CE     R
Sbjct: 28  CDKCGSGI--VGAVVKARDKYRHPECFVCADCNLNL-KQKGYFFVEGELYCETHARAR 82

>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 = 58.5 bits (142), Expect = 4e-12
 Identities = 21/72 (29%), Positives = 31/72 (43%), Gaps = 5/72 (6%)

Query: 104 CKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCD 163
             +D+L +F     C  C + +   E  + A + V+H ECF C  C   F     F+  D
Sbjct: 6   SGKDFLAMFSPK--CGGCNRPV--LENYLSAMDTVWHPECFVCGDCFTSF-STGSFFELD 60

Query: 164 NKILCEYDYEER 175
            +  CE  Y  R
Sbjct: 61  GRPFCELHYHHR 72

>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 = 51.2 bits (123), Expect = 3e-09
 Identities = 15/67 (22%), Positives = 27/67 (40%), Gaps = 5/67 (7%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 113
           C  C + + E +L  A+D  WH +C  CG C         + ++      C+  Y    G
Sbjct: 18  CGGCNRPVLENYL-SAMDTVWHPECFVCGDCFTSFS--TGSFFELDGRPFCELHYHHRRG 74

Query: 114 TTGYCAA 120
           +    ++
Sbjct: 75  SG--PSS 79

>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 = 57.4 bits (139), Expect = 9e-12
 Identities = 17/58 (29%), Positives = 23/58 (39%), Gaps = 1/58 (1%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER 175
           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 = 49.7 bits (119), Expect = 8e-09
 Identities = 17/75 (22%), Positives = 25/75 (33%), Gaps = 5/75 (6%)

Query: 47  ASGGLKECASCGKRIT-ERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCK 105
            S G   C  C K I      ++     WHE C  C  C   +G    +   K N   C 
Sbjct: 1   GSSGSSGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIG--TKSFIPKDNQNFCV 58

Query: 106 RDYLRLFGTTGYCAA 120
             Y +   +    ++
Sbjct: 59  PCYEKQHASG--PSS 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 = 57.4 bits (139), Expect = 1e-11
 Identities = 17/70 (24%), Positives = 29/70 (41%), Gaps = 2/70 (2%)

Query: 48  SGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRD 107
            GG  +C +CG+ +     ++     +H  C  C  C   L    +T+      + CK  
Sbjct: 4   WGGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLD--STTVAIHDAEVYCKSC 61

Query: 108 YLRLFGTTGY 117
           Y + +G  GY
Sbjct: 62  YGKKYGPKGY 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 = 42.4 bits (100), Expect = 5e-06
 Identities = 14/64 (21%), Positives = 24/64 (37%), Gaps = 2/64 (3%)

Query: 112 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 171
           +G    C AC + +   E V       +H  CF C  C           + D ++ C+  
Sbjct: 4   WGGGNKCGACGRTVYHAEEVQ-CDGRSFHRCCFLCMVCRKNL-DSTTVAIHDAEVYCKSC 61

Query: 172 YEER 175
           Y ++
Sbjct: 62  YGKK 65

>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 = 57.1 bits (138), Expect = 1e-11
 Identities = 15/76 (19%), Positives = 25/76 (32%), Gaps = 6/76 (7%)

Query: 102 ILCKRDYLRLFGTTGYCAACTKVIPAF---EMVMRAKNNVYHLECFACQQCNHRFCVGDR 158
                 Y         CA C   I  F     V+  +   +H  CF C++C+       R
Sbjct: 4   GSSGDCYKNFVAKK--CAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNL-ANKR 60

Query: 159 FYLCDNKILCEYDYEE 174
           F     ++ C    ++
Sbjct: 61  FVFHQEQVYCPDCAKK 76

>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 = 39.8 bits (93), Expect = 4e-05
 Identities = 13/62 (20%), Positives = 18/62 (29%), Gaps = 6/62 (9%)

Query: 54  CASCGKRIT----ERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYL 109
           CA C   IT       ++      WH+ C  C  C   L             + C     
Sbjct: 18  CAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLA--NKRFVFHQEQVYCPDCAK 75

Query: 110 RL 111
           +L
Sbjct: 76  KL 77

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

 Score = 57.3 bits (139), Expect = 1e-11
 Identities = 16/72 (22%), Positives = 25/72 (34%), Gaps = 5/72 (6%)

Query: 104 CKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCD 163
               Y   F     CA C+K +   +  +  ++  +H EC  C  C      G +F   D
Sbjct: 6   SGPCYENKFAPR--CARCSKTL--TQGGVTYRDQPWHRECLVCTGCQTPL-AGQQFTSRD 60

Query: 164 NKILCEYDYEER 175
               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 = 50.0 bits (120), Expect = 7e-09
 Identities = 17/67 (25%), Positives = 26/67 (38%), Gaps = 5/67 (7%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 113
           CA C K +T+  +    D  WH +CL C  C   L   G     +     C   +  LF 
Sbjct: 18  CARCSKTLTQGGV-TYRDQPWHRECLVCTGCQTPLA--GQQFTSRDEDPYCVACFGELFA 74

Query: 114 TTGYCAA 120
           +    ++
Sbjct: 75  S--GPSS 79

>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 = 56.0 bits (135), Expect = 4e-11
 Identities = 17/72 (23%), Positives = 28/72 (38%), Gaps = 3/72 (4%)

Query: 104 CKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCD 163
               Y   F  T  CA C ++I      +  ++  +H  CF C +C       + F   D
Sbjct: 6   SGPCYDNTFANT--CAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSL-ADEPFTCQD 62

Query: 164 NKILCEYDYEER 175
           +++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 = 51.0 bits (122), Expect = 3e-09
 Identities = 16/68 (23%), Positives = 26/68 (38%), Gaps = 5/68 (7%)

Query: 54  CASCGKRIT-ERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLF 112
           CA C + I  +   L   D  +HE C +C  C   L         + + +LC   Y   F
Sbjct: 18  CAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSL--ADEPFTCQDSELLCNDCYCSAF 75

Query: 113 GTTGYCAA 120
            +    ++
Sbjct: 76  SS--GPSS 81

>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 = 55.5 bits (134), Expect = 5e-11
 Identities = 12/58 (20%), Positives = 18/58 (31%), Gaps = 1/58 (1%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER 175
           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 = 51.2 bits (123), Expect = 2e-09
 Identities = 17/75 (22%), Positives = 27/75 (36%), Gaps = 5/75 (6%)

Query: 47  ASGGLKECASCGKRITE-RFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCK 105
            S G   C++CG+ +      L+     WHE C  C  C+  LG    +         C 
Sbjct: 1   GSSGSSGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLG--SRSFVPDKGAHYCV 58

Query: 106 RDYLRLFGTTGYCAA 120
             Y   F +    ++
Sbjct: 59  PCYENKFASG--PSS 71

>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 = 55.1 bits (133), Expect = 7e-11
 Identities = 17/77 (22%), Positives = 27/77 (35%), Gaps = 5/77 (6%)

Query: 44  AGGASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLIL 103
           + G +  L  C  CG  I   F+ K  D   H +C  C  C   L + G   +   + I 
Sbjct: 8   SIGNAQKLPMCDKCGTGIVGVFV-KLRDRHRHPECYVCTDCGTNLKQKGH--FFVEDQIY 64

Query: 104 CKRDYLRLFGTTGYCAA 120
           C++            + 
Sbjct: 65  CEKHARERVSGP--SSG 79

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

 Score = 49.0 bits (117), Expect = 1e-08
 Identities = 13/58 (22%), Positives = 23/58 (39%), Gaps = 3/58 (5%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER 175
           C  C   I    + ++ ++   H EC+ C  C          +  +++I CE    ER
Sbjct: 18  CDKCGTGI--VGVFVKLRDRHRHPECYVCTDCGTNL-KQKGHFFVEDQIYCEKHARER 72

>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 = 54.7 bits (132), Expect = 1e-10
 Identities = 16/74 (21%), Positives = 28/74 (37%), Gaps = 5/74 (6%)

Query: 47  ASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKR 106
            S G   C  C K IT   +    +  WH++C  C  C  +L   G     + +   C  
Sbjct: 1   GSSGSSGCVQCKKPITTGGV-TYREQPWHKECFVCTACRKQLS--GQRFTARDDFAYCLN 57

Query: 107 DYLRLFGTTGYCAA 120
            +  L+ +    ++
Sbjct: 58  CFCDLYAS--GPSS 69

>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 = 50.0 bits (120), Expect = 5e-09
 Identities = 15/61 (24%), Positives = 23/61 (37%), Gaps = 3/61 (4%)

Query: 115 TGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE 174
           +  C  C K I      +  +   +H ECF C  C  +   G RF   D+   C   + +
Sbjct: 5   SSGCVQCKKPI--TTGGVTYREQPWHKECFVCTACRKQL-SGQRFTARDDFAYCLNCFCD 61

Query: 175 R 175
            
Sbjct: 62  L 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 = 54.4 bits (131), Expect = 1e-10
 Identities = 20/72 (27%), Positives = 32/72 (44%), Gaps = 3/72 (4%)

Query: 47  ASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKR 106
            S G   C  CG+ I  R + KA++  WH +C +C  C   L ++G    + A   LC+ 
Sbjct: 1   GSSGSSGCHQCGEFIIGRVI-KAMNNSWHPECFRCDLCQEVLADIG--FVKNAGRHLCRP 57

Query: 107 DYLRLFGTTGYC 118
            + R   +    
Sbjct: 58  CHNREKASGPSS 69

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

 Score = 52.4 bits (126), Expect = 6e-10
 Identities = 16/58 (27%), Positives = 22/58 (37%), Gaps = 3/58 (5%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER 175
           C  C + I     V++A NN +H ECF C  C         F     + LC   +   
Sbjct: 8   CHQCGEFI--IGRVIKAMNNSWHPECFRCDLCQEVL-ADIGFVKNAGRHLCRPCHNRE 62

>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 = 54.0 bits (130), Expect = 3e-10
 Identities = 16/67 (23%), Positives = 28/67 (41%), Gaps = 5/67 (7%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 113
           CA C + I   FL  AL   WH +   C  C   +  +G    ++   + C+  Y + F 
Sbjct: 28  CAHCNQVIRGPFL-VALGKSWHPEEFNCAHCKNTMAYIGF--VEEKGALYCELCYEKFFA 84

Query: 114 TTGYCAA 120
           +    ++
Sbjct: 85  SG--PSS 89

>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 = 53.6 bits (129), Expect = 4e-10
 Identities = 18/83 (21%), Positives = 27/83 (32%), Gaps = 4/83 (4%)

Query: 93  STLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHR 152
            +   +  L+            T  CA C +VI      + A    +H E F C  C + 
Sbjct: 4   GSSGDQDTLVQRAEHIPA-GKRTPMCAHCNQVI--RGPFLVALGKSWHPEEFNCAHCKNT 60

Query: 153 FCVGDRFYLCDNKILCEYDYEER 175
                 F      + CE  YE+ 
Sbjct: 61  M-AYIGFVEEKGALYCELCYEKF 82

>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 = 52.3 bits (126), Expect = 6e-10
 Identities = 17/61 (27%), Positives = 27/61 (44%), Gaps = 3/61 (4%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 113
           C +C + I  R +  A+   WH +   C  C+      G   Y++  L  C+  Y +LFG
Sbjct: 8   CGACRRPIEGRVV-NAMGKQWHVEHFVCAKCEKPFL--GHRHYERKGLAYCETHYNQLFG 64

Query: 114 T 114
            
Sbjct: 65  D 65

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

 Score = 50.7 bits (122), Expect = 3e-09
 Identities = 19/64 (29%), Positives = 27/64 (42%), Gaps = 5/64 (7%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV 177
           C AC + I     V+ A    +H+E F C +C   F  G R Y       CE  Y +   
Sbjct: 8   CGACRRPI--EGRVVNAMGKQWHVEHFVCAKCEKPFL-GHRHYERKGLAYCETHYNQL-- 62

Query: 178 FANI 181
           F ++
Sbjct: 63  FGDV 66

>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 = 55.4 bits (133), Expect = 7e-10
 Identities = 19/118 (16%), Positives = 36/118 (30%), Gaps = 4/118 (3%)

Query: 48  SGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRD 107
            GG K+C  C K +     ++     +H+ C  C  C   L    +T+    + I CK  
Sbjct: 4   WGGGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNL--DSTTVAVHGDEIYCKSC 61

Query: 108 YLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNK 165
           Y + +G                        + + E  + +  N       +     + 
Sbjct: 62  YGKKYGPK--GKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDG 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 = 52.3 bits (125), Expect = 8e-09
 Identities = 18/68 (26%), Positives = 25/68 (36%), Gaps = 4/68 (5%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 113
           C  CG+ +     +      WH+ C +C  C   L    +TL  K   I CK  Y + FG
Sbjct: 118 CPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLE--STTLADKDGEIYCKGCYAKNFG 175

Query: 114 TTGYCAAC 121
                   
Sbjct: 176 PK--GFGF 181

>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 = 46.9 bits (111), Expect = 6e-07
 Identities = 14/64 (21%), Positives = 26/64 (40%), Gaps = 2/64 (3%)

Query: 112 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 171
           +G    C  C K +   E V + + + +H  CF C  C           +  ++I C+  
Sbjct: 4   WGGGKKCGVCQKAVYFAEEV-QCEGSSFHKSCFLCMVCKKNL-DSTTVAVHGDEIYCKSC 61

Query: 172 YEER 175
           Y ++
Sbjct: 62  YGKK 65

>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 = 52.5 bits (126), Expect = 9e-10
 Identities = 17/69 (24%), Positives = 27/69 (39%), Gaps = 2/69 (2%)

Query: 48  SGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRD 107
           +   + C  C K +     L A    +H  C +C  C+ +L     T       I CK  
Sbjct: 12  APARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLS--LGTYASLHGRIYCKPH 69

Query: 108 YLRLFGTTG 116
           + +LF + G
Sbjct: 70  FNQLFKSKG 78

>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 = 44.1 bits (104), Expect = 1e-06
 Identities = 15/63 (23%), Positives = 28/63 (44%), Gaps = 2/63 (3%)

Query: 112 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 171
                 C  C K +   E ++ A   V+H+ CF C  CN++  +G  +     +I C+  
Sbjct: 12  APARETCVECQKTVYPMERLL-ANQQVFHISCFRCSYCNNKLSLGT-YASLHGRIYCKPH 69

Query: 172 YEE 174
           + +
Sbjct: 70  FNQ 72

>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 = 51.2 bits (123), Expect = 2e-09
 Identities = 18/68 (26%), Positives = 21/68 (30%), Gaps = 3/68 (4%)

Query: 47  ASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKR 106
            S G   C  C K IT   +    D  WH DC  C  C  +L   G       +   C  
Sbjct: 1   GSSGSSGCVKCNKAITSGGI-TYQDQPWHADCFVCVTCSKKLA--GQRFTAVEDQYYCVD 57

Query: 107 DYLRLFGT 114
            Y      
Sbjct: 58  CYKNFVSG 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 = 50.5 bits (121), Expect = 4e-09
 Identities = 14/58 (24%), Positives = 25/58 (43%), Gaps = 3/58 (5%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER 175
           C  C K I      +  ++  +H +CF C  C+ +   G RF   +++  C   Y+  
Sbjct: 8   CVKCNKAI--TSGGITYQDQPWHADCFVCVTCSKKL-AGQRFTAVEDQYYCVDCYKNF 62

>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 = 50.5 bits (121), Expect = 5e-09
 Identities = 20/75 (26%), Positives = 30/75 (40%), Gaps = 3/75 (4%)

Query: 44  AGGASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLIL 103
           + G+SG   +C  C K +     + +L   WH+ CLKC  C   L        +      
Sbjct: 2   SSGSSGMASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLT--PGGHAEHDGKPF 59

Query: 104 CKRD-YLRLFGTTGY 117
           C +  Y  LFG+   
Sbjct: 60  CHKPCYATLFGSGPS 74

>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 = 41.2 bits (97), Expect = 9e-06
 Identities = 14/61 (22%), Positives = 20/61 (32%), Gaps = 2/61 (3%)

Query: 112 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYD 171
            G    C  C K +   E V  +    +H  C  C++C+     G      D K  C   
Sbjct: 6   SGMASKCPKCDKTVYFAEKVS-SLGKDWHKFCLKCERCSKTLTPG-GHAEHDGKPFCHKP 63

Query: 172 Y 172
            
Sbjct: 64  C 64

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

 Score = 49.0 bits (117), Expect = 1e-08
 Identities = 16/61 (26%), Positives = 26/61 (42%), Gaps = 3/61 (4%)

Query: 117 YCAACTKVIPAF--EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE 174
            CA CT  I        +  +   +H +CF C++C+    VG  F    + ILC    ++
Sbjct: 7   GCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSL-VGRGFLTERDDILCPDCGKD 65

Query: 175 R 175
            
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 = 48.3 bits (115), Expect = 3e-08
 Identities = 19/70 (27%), Positives = 25/70 (35%), Gaps = 5/70 (7%)

Query: 47  ASGGLKECASCGKRITERF---LLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLIL 103
            S G   CA C   I+       +   +  WH DC  C  C   L  VG     + + IL
Sbjct: 1   GSSGSSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSL--VGRGFLTERDDIL 58

Query: 104 CKRDYLRLFG 113
           C      + G
Sbjct: 59  CPDCGKDISG 68

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

 Score = 48.1 bits (115), Expect = 3e-08
 Identities = 17/65 (26%), Positives = 23/65 (35%), Gaps = 3/65 (4%)

Query: 54  CASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRD-YLRLF 112
           C  C K +     + +L   WH  CLKC  C   L        +      C    Y  +F
Sbjct: 3   CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLT--SGGHAEHEGKPYCNHPCYSAMF 60

Query: 113 GTTGY 117
           G  G+
Sbjct: 61  GPKGF 65

>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 = 37.3 bits (87), Expect = 3e-04
 Identities = 12/55 (21%), Positives = 19/55 (34%), Gaps = 2/55 (3%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDY 172
           C  C K +   E V  +    +H  C  C++C      G      + K  C +  
Sbjct: 3   CPKCDKEVYFAERVT-SLGKDWHRPCLKCEKCGKTLTSG-GHAEHEGKPYCNHPC 55

>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 = 46.4 bits (110), Expect = 1e-07
 Identities = 16/55 (29%), Positives = 27/55 (49%), Gaps = 3/55 (5%)

Query: 117 YCAACTKVIPAFEM--VMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCE 169
            C AC+K I        +  +++ +H ECF C +C+    VG  F   + +I C+
Sbjct: 7   GCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSL-VGKGFLTQNKEIFCQ 60

>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 = 43.7 bits (103), Expect = 1e-06
 Identities = 18/68 (26%), Positives = 26/68 (38%), Gaps = 5/68 (7%)

Query: 48  SGGLKECASCGKRITERF---LLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILC 104
           S G   C +C K I+       +   D  WH +C  CG C   L  VG     +   I C
Sbjct: 2   SSGSSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSL--VGKGFLTQNKEIFC 59

Query: 105 KRDYLRLF 112
           ++    + 
Sbjct: 60  QKCGSGMD 67

>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 = 44.2 bits (104), Expect = 9e-07
 Identities = 14/70 (20%), Positives = 23/70 (32%)

Query: 47  ASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKR 106
            +G    CA CG+ +     L     F+H  C +C  C+  L   G   +       C +
Sbjct: 11  EAGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQ 70

Query: 107 DYLRLFGTTG 116
              +      
Sbjct: 71  HLPQTDSGPS 80

>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 = 38.4 bits (89), Expect = 1e-04
 Identities = 13/64 (20%), Positives = 20/64 (31%), Gaps = 2/64 (3%)

Query: 112 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGD-RFYLCDNKILCEY 170
            G    CA C + +   E +     + +H  CF C  C      G    +  D    C  
Sbjct: 12  AGAGDLCALCGEHLYVLERLC-VNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQ 70

Query: 171 DYEE 174
              +
Sbjct: 71  HLPQ 74

>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 = 43.6 bits (102), Expect = 1e-06
 Identities = 16/51 (31%), Positives = 21/51 (41%), Gaps = 2/51 (3%)

Query: 118 CAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILC 168
           C +C K I     V+ A    YH  C  C +C   F  G+  YL  + I  
Sbjct: 8   CDSCEKYIT--GRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWH 56

>1wig_A KIAA1808 protein; LIM domain, zinc finger, metal-binding protein, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 73

 Score = 37.8 bits (87), Expect = 2e-04
 Identities = 19/60 (31%), Positives = 25/60 (41%), Gaps = 2/60 (3%)

Query: 47  ASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKR 106
            S G   C SC K IT R L +A +  +H  C  C  C     E G  +Y + + I    
Sbjct: 1   GSSGSSGCDSCEKYITGRVL-EAGEKHYHPSCALCVRCGQMFAE-GEEMYLQGSSIWHPA 58

>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 = 40.9 bits (96), Expect = 1e-05
 Identities = 12/66 (18%), Positives = 20/66 (30%), Gaps = 4/66 (6%)

Query: 47  ASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKR 106
              G   C  C   I E+ L    +  +H D   C  C   L        +    + C  
Sbjct: 11  RGLGKYICQKCHAIIDEQPL-IFKNDPYHPDHFNCANCGKELTADA---RELKGELYCLP 66

Query: 107 DYLRLF 112
            + ++ 
Sbjct: 67  CHDKMG 72

>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 = 40.2 bits (94), Expect = 2e-05
 Identities = 12/60 (20%), Positives = 21/60 (35%), Gaps = 4/60 (6%)

Query: 115 TGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE 174
              C  C  +I   E  +  KN+ YH + F C  C               ++ C   +++
Sbjct: 15  KYICQKCHAIID--EQPLIFKNDPYHPDHFNCANCGKEL--TADARELKGELYCLPCHDK 70

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	204
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.97
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.97
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.96
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.96
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.96
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.95
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.93
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.87
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.81
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	99.81
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.81
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.8
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.8
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.79
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.78
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.76
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	99.7
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.66
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	99.65
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.64
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	99.64
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.63
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	99.63
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.63
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	99.62
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	99.62
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.62
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	99.62
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	99.61
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	99.61
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	99.61
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	99.61
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.6
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	99.6
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	99.59
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	99.59
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	99.59
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	99.58
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	99.58
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	99.58
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	99.58
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	99.57
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	99.57
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	99.57
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.57
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.56
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	99.56
2co8_A	82	NEDD9 interacting protein with calponin homology a	99.55
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.55
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	99.54
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	99.54
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	99.54
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	99.53
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	99.53
2cor_A	79	Pinch protein; LIM domain, particularly interestin	99.52
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	99.52
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	99.52
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	99.52
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.5
2cor_A	79	Pinch protein; LIM domain, particularly interestin	99.5
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.5
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.5
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.5
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.5
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.49
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	99.48
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.48
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	99.48
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.47
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.46
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	99.46
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	99.44
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	99.43
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	99.43
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.42
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.41
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	99.4
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.39
2co8_A	82	NEDD9 interacting protein with calponin homology a	99.39
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.38
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.35
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.32
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.26
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	99.21
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	97.93
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	97.62
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	90.05
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	86.57
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	85.31
2ect_A	78	Ring finger protein 126; metal binding protein, st	83.92
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	83.24
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	82.04
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	81.51
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	80.99
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	80.91
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	80.09

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

Probab=99.97  E-value=4.5e-32  Score=198.15  Aligned_cols=127  Identities=55%  Similarity=1.169  Sum_probs=116.0

Q ss_pred             CccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccccCCccCCCce
Q psy7480          51 LKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEM  130 (204)
Q Consensus        51 ~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C~~~I~~~~~  130 (204)
                      .++|.+|+++|.+.+++.++++.||++||+|..|+.+|.+.+..|+.++|++||..||.++|++.++|..|+++|.+.+.
T Consensus         2 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~~~~C~~C~~~I~~~e~   81 (131)
T 2xjy_A            2 LLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIRAYEM   81 (131)
T ss_dssp             CCBBTTTCCBCCSSEEEEETTEEEETTTCBCTTTCCBCSSTTCCEEEETTEEECHHHHHHHHCCCEECTTTCCEECTTSE
T ss_pred             cccCcCCCCEeCCcEEEEECCCcccHHHcccCcCCCccccCCCeEEEECCEEeecCchhhhCCCccChhhcCCccCccce
Confidence            46899999999998778999999999999999999999743467999999999999999999864589999999988778


Q ss_pred             EEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhh
Q psy7480         131 VMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV  177 (204)
Q Consensus       131 ~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~  177 (204)
                      +|.+.++.||++||+|..|+++|..+..|++.++++||..||.+++.
T Consensus        82 ~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~C~~c~~~~~~  128 (131)
T 2xjy_A           82 TMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIYEWTK  128 (131)
T ss_dssp             EEEETTEEEEGGGCBCTTTCCBCCTTCEEEEETTEEEEGGGHHHHHH
T ss_pred             eEeeCCceECccCcccCCCCCCCCCCCEEEEECCEEEcHHHHHHHhh
Confidence            99999999999999999999999668889999999999999998864

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

Probab=99.97  E-value=2.7e-31  Score=192.79  Aligned_cols=122  Identities=24%  Similarity=0.517  Sum_probs=113.0

Q ss_pred             CCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccccCCccCCCc
Q psy7480          50 GLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFE  129 (204)
Q Consensus        50 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C~~~I~~~~  129 (204)
                      ..++|.+|+++|.+++++.++|+.||++||+|..|+++|.  +..|+.++|++||..||.++|++  +|.+|+++|.+.+
T Consensus         2 ~~~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~--~~~f~~~~g~~yC~~cy~~~~~~--~C~~C~~~I~~~~   77 (126)
T 2xqn_T            2 EKPRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILA--GEIYVMVNDKPVCKPCYVKNHAV--VCQGCHNAIDPEV   77 (126)
T ss_dssp             CCCBBTTTSSBCCSSCEEEETTEEECGGGSBCTTTCCBCT--TSEEEEETTEEEEHHHHHHHSCC--BCTTTCSBCCTTS
T ss_pred             cCCCCccCCCEeCCceEEeeCCCCccCCCCCcCCCCCCCC--cCEEEeECCEEechHHhCcCcCc--cCcccCCcCCcCc
Confidence            4578999999999877899999999999999999999997  46799999999999999999998  9999999999767


Q ss_pred             eEEecCCcccc--cCccccccCCccccCCCeEEEeCCeeecHHHHHHHh
Q psy7480         130 MVMRAKNNVYH--LECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  176 (204)
Q Consensus       130 ~~~~~~~~~~H--~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  176 (204)
                      .+|.+.++.||  ++||+|..|+++| .+..|++.+|++||+.++.++|
T Consensus        78 ~~~~a~~~~~H~~~~CF~C~~C~~~l-~~~~f~~~~~~~yC~~~~~~~f  125 (126)
T 2xqn_T           78 QRVTYNNFSWHASTECFLCSCCSKCL-IGQKFMPVEGMVFCSVECKKRM  125 (126)
T ss_dssp             CEEEETTEEEESSTTTSBCTTTCCBC-TTSEEEEETTEEESSHHHHHSC
T ss_pred             eEEECCCCEeeCCCCCcCcCCCCCcc-CCCeeEeECCEEcchHHhhhhc
Confidence            89999999999  9999999999999 6889999999999998888764

>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=99.96  E-value=8.2e-31  Score=202.69  Aligned_cols=130  Identities=48%  Similarity=1.080  Sum_probs=115.9

Q ss_pred             CCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccccCCccCCCc
Q psy7480          50 GLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFE  129 (204)
Q Consensus        50 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C~~~I~~~~  129 (204)
                      ..++|.+|+++|.+.+++.++++.||++||+|..|+.+|...+..|+.++|++||..||.++|++.++|..|+++|.+.+
T Consensus         4 ~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~cy~~~~~~~~~C~~C~~~I~~~e   83 (188)
T 1rut_X            4 SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPASE   83 (188)
T ss_dssp             CCCBBTTTCCBCCCSEEEEETTEEECGGGCBCTTTCCBHHHHCSEEEEETTEEECHHHHHHHHSCCEECTTTCCEECTTS
T ss_pred             CCCcCccCCCEeCCceeEEecCcEecccCcccCCCCcccccCCceEEEeCCccccccccccccccCCccccCCCccccCc
Confidence            46789999999998877899999999999999999999973245799999999999999999997336999999998777


Q ss_pred             eEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhhhh
Q psy7480         130 MVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFA  179 (204)
Q Consensus       130 ~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~  179 (204)
                      .+|.+.++.||++||+|..|+++|..+..|+..++++||+.||.+++...
T Consensus        84 ~~i~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~g~~yC~~c~~~~~~~~  133 (188)
T 1rut_X           84 LVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALING  133 (188)
T ss_dssp             EEEEETTEEECGGGCBCTTTCCBCCTTCEEEEETTEEEEGGGCCTTTC--
T ss_pred             EEEEcCCCEEeCCCCeECCCCCCCCCCCeEEEECCeEECHHHHHHHhccc
Confidence            88999999999999999999999965788999999999999998876433

>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=99.96  E-value=2.3e-30  Score=196.99  Aligned_cols=125  Identities=43%  Similarity=0.941  Sum_probs=110.8

Q ss_pred             CCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccccCCccCCC
Q psy7480          49 GGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF  128 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C~~~I~~~  128 (204)
                      ...++|.+|+++|.+.+++.++|+.||++||+|..|+.+|..  .. +.++|++||..||.++|++  +|.+|+++|.+.
T Consensus         4 ~~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~--~~-f~~~g~~yC~~~y~~~f~~--~C~~C~~~I~~~   78 (169)
T 2rgt_A            4 PEIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAE--RC-FSRGESVYCKDDFFKRFGT--KCAACQLGIPPT   78 (169)
T ss_dssp             ---CBBSSSSSBCCSSSCEECSSCEECTTTSBCTTTCCBCCS--CC-EESSSCEECHHHHHHHHSC--BCTTTCCBCCTT
T ss_pred             CCCCccccCCCccCCcEEEEECCcEEccccCccCCCCCcCCC--CC-cccCCeeeecccccccccc--cccccccccCCC
Confidence            346799999999999877899999999999999999999983  33 6899999999999999998  999999999887


Q ss_pred             ceEEecCCcccccCccccccCCccccCCCeEEE-eCCeeecHHHHHHHhhh
Q psy7480         129 EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYL-CDNKILCEYDYEERQVF  178 (204)
Q Consensus       129 ~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~-~~~~~~C~~c~~~~~~~  178 (204)
                      +.++.+.++.||++||+|..|+++|..|+.|+. .+|++||+.||.+++..
T Consensus        79 ~~v~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~~C~~c~~~~~~~  129 (169)
T 2rgt_A           79 QVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAKQG  129 (169)
T ss_dssp             SEEEEETTEEEEGGGCBCTTTCCBCCTTCEEEECTTSCEEEHHHHHHHHHC
T ss_pred             cEEEEcCCceEeeCCCcCCCCCCCCCCCCceEEccCCeEECHHHHHHHhhc
Confidence            778899999999999999999999965778875 58999999999988643

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

Probab=99.96  E-value=4.1e-29  Score=192.23  Aligned_cols=124  Identities=44%  Similarity=0.968  Sum_probs=111.4

Q ss_pred             CCCCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccccCCccC
Q psy7480          47 ASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIP  126 (204)
Q Consensus        47 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C~~~I~  126 (204)
                      .....++|.+|+++|.+.+++.++++.||+.||+|..|+++|..  .. |.++|++||..||.++|++  +|..|+++|.
T Consensus        56 ~~~~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~--~~-f~~~g~~yC~~~y~~~f~~--kC~~C~~~I~  130 (182)
T 2jtn_A           56 GTPEIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAE--RC-FSRGESVYCKDDFFKRFGT--KCAACQLGIP  130 (182)
T ss_dssp             CCCSCCBCBTSSSBCCCSEEEEETTEEECSSTTSCTTTCCCCSS--CC-EEETTEEECHHHHHHTTSC--CCTTTCCCCC
T ss_pred             CCCCCCcCccCCCCccCceeEEecCCeEccccCccCCCCCccCC--Cc-eeECCEeeecCcccccccc--ccccCCCccC
Confidence            45667899999999999877899999999999999999999983  33 5899999999999999998  9999999998


Q ss_pred             CCceEEecCCcccccCccccccCCccccCCCeEEE-eCCeeecHHHHHHH
Q psy7480         127 AFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYL-CDNKILCEYDYEER  175 (204)
Q Consensus       127 ~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~-~~~~~~C~~c~~~~  175 (204)
                      +.+.++.+.++.||++||+|..|+++|..+..|+. .+|++||+.||.++
T Consensus       131 ~~~~v~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~yC~~cy~~~  180 (182)
T 2jtn_A          131 PTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETA  180 (182)
T ss_dssp             SSCCCCEETTEECCTTTCCCTTTCCCCCTTCEEEECTTSCEECHHHHHHH
T ss_pred             CCceEEecCCCCEEeCCCcCCCCCCCCCCCCceEEccCCEEECHHHHHHh
Confidence            86667889999999999999999999965778875 58999999999865

>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=1.8e-28  Score=190.18  Aligned_cols=133  Identities=22%  Similarity=0.454  Sum_probs=114.7

Q ss_pred             CCCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCc------------
Q psy7480          48 SGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTT------------  115 (204)
Q Consensus        48 ~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~------------  115 (204)
                      ..+.++|.+|+++|...+.+.++++.||++||+|..|+.+|..  ..|+.++|++||+.||.++|++.            
T Consensus         4 ~~~~~~C~~C~~~I~~~~~v~a~g~~wH~~CF~C~~C~~~L~~--~~~~~~~g~~yC~~cy~~~f~~~c~~c~~~~g~~~   81 (192)
T 1b8t_A            4 WGGGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDS--TTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLS   81 (192)
T ss_dssp             CCCCEECTTTCCEECSSCCEEETTEEECTTTCBCTTTCCBCCS--SSEEEETTEEEEHHHHHHHHSCCCCCCCCCCCCCC
T ss_pred             CCCCCcCccCCCeecceeEEEeCCceecCCCCcCcccCCcCCC--CeeEecCCEeeChhhhHhhcCccccccccccccEe
Confidence            3456899999999987667889999999999999999999984  46899999999999999998761            


Q ss_pred             ----------------------------------ccccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEE
Q psy7480         116 ----------------------------------GYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYL  161 (204)
Q Consensus       116 ----------------------------------~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~  161 (204)
                                                        ++|.+|+++|.+. ..|.+.++.||++||+|..|+++| .+..|+.
T Consensus        82 ~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~C~~C~~~I~~~-~~v~a~~~~~H~~CF~C~~C~~~L-~~~~~~~  159 (192)
T 1b8t_A           82 TDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAVYAA-EKVIGAGKSWHKSCFRCAKCGKSL-ESTTLAD  159 (192)
T ss_dssp             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEECTTTSCEECSS-SCEEETTEEECTTTCBCTTTCCBC-CSSSEEE
T ss_pred             cCCCcccccccccccccCCCCcCccccccccCCCCcCCCCCCEecCc-EEEecCCCccchhcCCccccCCCC-CCCcccc
Confidence                                              1388999999864 456799999999999999999999 5567999


Q ss_pred             eCCeeecHHHHHHHhhhhcccCC
Q psy7480         162 CDNKILCEYDYEERQVFANIAYN  184 (204)
Q Consensus       162 ~~~~~~C~~c~~~~~~~~~~~~~  184 (204)
                      .+|++||+.||.++|........
T Consensus       160 ~~g~~yC~~cy~~~f~~kc~~C~  182 (192)
T 1b8t_A          160 KDGEIYCKGCYAKNFGPKGFGFG  182 (192)
T ss_dssp             ETTEEEEHHHHHHHTCCCCCCCC
T ss_pred             cCCEEeCHHHHHHhcCCcCCCCC
Confidence            99999999999999876665554

>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=99.93  E-value=4.8e-26  Score=158.85  Aligned_cols=98  Identities=30%  Similarity=0.574  Sum_probs=89.9

Q ss_pred             CCCcccccccccccc-ceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccccCCccCC
Q psy7480          49 GGLKECASCGKRITE-RFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPA  127 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~-~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C~~~I~~  127 (204)
                      .+.++|.+|+++|.. ..++.++++.||+.||+|..|+++|.  +..|+.++|++||..||.++|++  +|.+|+++|.+
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~--~~~~~~~~g~~yC~~cy~~~~~~--~C~~C~~~I~~   78 (101)
T 2cup_A            3 SGSSGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLA--NETFVAKDNKILCNKCTTREDSP--KCKGCFKAIVA   78 (101)
T ss_dssp             SCCCBCSSSCCBCCSSSCEEEETTEEEETTTCCCSSSCCCTT--SSCCEEETTEEECHHHHTTCCCC--BCSSSCCBCCS
T ss_pred             CCCCcCcccCCcccCCceEEEECccChhhcCCcccccCCCCC--cCeeECcCCEEEChhHhhhhcCC--ccccCCCcccc
Confidence            456899999999984 56899999999999999999999997  46689999999999999999998  99999999986


Q ss_pred             CceEEecCCcccccCccccccCC
Q psy7480         128 FEMVMRAKNNVYHLECFACQQCN  150 (204)
Q Consensus       128 ~~~~~~~~~~~~H~~Cf~C~~C~  150 (204)
                      .+.+|.++++.||++||+|..|+
T Consensus        79 ~~~~~~a~~~~~H~~CF~C~~C~  101 (101)
T 2cup_A           79 GDQNVEYKGTVWHKDCFSGPSSG  101 (101)
T ss_dssp             SSCEEESSSCEEETTTCCCTTCC
T ss_pred             CCeEEEeCCcchHHhCCCCCCCC
Confidence            56899999999999999999996

>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=99.87  E-value=1.1e-23  Score=151.83  Aligned_cols=112  Identities=33%  Similarity=0.743  Sum_probs=95.9

Q ss_pred             CCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccccCCccCCC
Q psy7480          49 GGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAF  128 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C~~~I~~~  128 (204)
                      ...++|.+|+++|.+.+++.++++.||++||+|..|+.+|.+.+..|+.++|++||..||.++|++.++|++|+++|.+ 
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~cy~~~f~~~~~C~~C~~~I~~-   81 (122)
T 1m3v_A            3 LSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAGGSGGHMGSG-   81 (122)
T ss_dssp             SCCCCBSSSSSCCCSSCCEEETTEEECHHHHCCSSSCCCTTTSEECCEEETTEEECHHHHHHHHCCCCSSSCSSCCSCC-
T ss_pred             CCCCCCcccCCEeCCcEEEEECCceeHhhCCCcCCCCCcccccCCeEEEECCeeecHHHHHHHcCCCCccccCCCCcCc-
Confidence            4568999999999998778999999999999999999999632356899999999999999999976689999999986 


Q ss_pred             ceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHh
Q psy7480         129 EMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  176 (204)
Q Consensus       129 ~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  176 (204)
                       ..+.+.++             ..| .|+.|+..++++||..||.+++
T Consensus        82 -~~~~~~g~-------------~~l-~g~~f~~~~~~~yC~~~~~~~~  114 (122)
T 1m3v_A           82 -GDVMVVGE-------------PTL-MGGEFGDEDERLITRLENTQFD  114 (122)
T ss_dssp             -EESSSSSS-------------SSC-CSCTTCCTTCCCCEECTTTTTT
T ss_pred             -hheEEcCC-------------cCC-CCCccEecCCEeEccCcchhch
Confidence             44555553             245 7889999999999999988764

>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=99.81  E-value=8.7e-21  Score=127.15  Aligned_cols=78  Identities=21%  Similarity=0.387  Sum_probs=71.2

Q ss_pred             CCeecccccccccccCcccccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhhh
Q psy7480          99 ANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVF  178 (204)
Q Consensus        99 ~g~~~C~~cy~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~  178 (204)
                      +|++||+.||.++|++  +|.+|+++|.+.+.+|.+.++.||++||+|+.|+++| .+..|+..++++||+.||.+++..
T Consensus         1 ~g~~yC~~~y~~~~~~--~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L-~~~~f~~~~~~~~C~~c~~~~~~~   77 (82)
T 2ehe_A            1 GSSGSSGPCYDNTFAN--TCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSL-ADEPFTCQDSELLCNDCYCSAFSS   77 (82)
T ss_dssp             CCCCCCCCCCCCCCSC--BCTTTCCBCCSSCCBCCCSSCCCBTTTSBCTTTCCBC-SSCCEEEETTEEEETTTSSCCGGG
T ss_pred             CCceechhHhCcccCC--cCccCCCccccCcEEEEeCCccccccCCeecCCCCcc-CCCccEeeCCEEECHHHHhhhcCC
Confidence            5789999999999998  9999999998656889999999999999999999999 677899999999999999887654


Q ss_pred             h
Q psy7480         179 A  179 (204)
Q Consensus       179 ~  179 (204)
                      .
T Consensus        78 ~   78 (82)
T 2ehe_A           78 G   78 (82)
T ss_dssp             S
T ss_pred             C
Confidence            3

>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=99.81  E-value=2.2e-21  Score=138.13  Aligned_cols=104  Identities=39%  Similarity=0.764  Sum_probs=88.0

Q ss_pred             CCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccccCCccCCCc
Q psy7480          50 GLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFE  129 (204)
Q Consensus        50 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C~~~I~~~~  129 (204)
                      ..++|.+|+++|.+.+++.++++.||+.||+|..|+.+|.+.+..|+.++|++||..||.++|++  +|..|..   +  
T Consensus         2 ~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~~y~~~f~~--~c~~c~~---~--   74 (114)
T 1j2o_A            2 SLLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGGS--GGHMGSG---G--   74 (114)
T ss_dssp             CCBCBSSSCSCBCSSEEEECSSSEECTTTCCCSSSCSCCCCSSSCCCCBTTBCCCHHHHHHHHTS--CCSSCBS---C--
T ss_pred             cCCCCcCCCCeeCCcEEEEECchhHHHhcCcccccCCchhcCCCeeEEECCeeechHHHHHHhCc--ccCcCCC---C--
Confidence            35789999999998878999999999999999999999974335789999999999999999999  9988862   2  


Q ss_pred             eEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHH
Q psy7480         130 MVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER  175 (204)
Q Consensus       130 ~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~  175 (204)
                      .+|.               |+.++..|+.|++.++++||..|+.++
T Consensus        75 ~~~~---------------~~~~~~~g~~f~~~~~~~~C~~~~~~~  105 (114)
T 1j2o_A           75 DVMV---------------VGEPTLMGGEFGDEDERLITRLENTQF  105 (114)
T ss_dssp             SCCC---------------SSCSSTTSSBCCCSSSCCCEEEECTTC
T ss_pred             ceeE---------------cCCccCCCCeeEEcCCEeecchhhhcc
Confidence            2332               445554788999999999999998875

>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=99.81  E-value=4.7e-20  Score=123.54  Aligned_cols=77  Identities=21%  Similarity=0.335  Sum_probs=70.0

Q ss_pred             CCeecccccccccccCcccccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhhh
Q psy7480          99 ANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVF  178 (204)
Q Consensus        99 ~g~~~C~~cy~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~  178 (204)
                      ++.+||+.||.+++++  +|.+|+++|.+.+.+|.+.++.||++||+|..|+++| .+..|+..++++||+.||.++|..
T Consensus         1 ~~~~yC~~cy~~~~~~--~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~~~~yC~~cy~~~f~~   77 (82)
T 1x63_A            1 GSSGSSGKCTTREDSP--KCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVI-GTGSFFPKGEDFYCVTCHETKFAS   77 (82)
T ss_dssp             CCSCCCCCCCSCCCSC--BCSSSCCBCCSSSCEEECSSCEEETTTCCCSSSCCCC-TTSCEEEETTEEEEHHHHHHHTSC
T ss_pred             CCCcCchhHHccccCC--cCccCCcccccCceEEEECccccccccCchhhCCCcc-CCCccEeeCCEEECHHHHHHHhCC
Confidence            3679999999999998  9999999998767889999999999999999999999 556899999999999999988543

>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=99.80  E-value=4.2e-20  Score=123.20  Aligned_cols=76  Identities=21%  Similarity=0.405  Sum_probs=69.4

Q ss_pred             CCeecccccccccccCcccccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhhh
Q psy7480          99 ANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVF  178 (204)
Q Consensus        99 ~g~~~C~~cy~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~  178 (204)
                      +|++||+.||.+++++  +|.+|+++|.+  ..|.+.++.||++||+|..|+++| .+..|+..++++||+.||.++|..
T Consensus         1 gg~~yC~~cy~~~~~~--~C~~C~~~I~~--~~v~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~~~~yC~~cy~~~f~~   75 (80)
T 2cuq_A            1 GSSGSSGPCYENKFAP--RCARCSKTLTQ--GGVTYRDQPWHRECLVCTGCQTPL-AGQQFTSRDEDPYCVACFGELFAS   75 (80)
T ss_dssp             CCCCSCCCCCCCCSSC--CCTTTCCCCCS--CCEESSSSEECTTTCBCSSSCCBC-TTCCEEECSSSEEEHHHHHHHTTC
T ss_pred             CCcEEcHHHHccccCC--cCCCCCCEecC--cEEEECCchhhhhhCCcccCCCcC-CCCeeEeECCEEECHHHHHHHcCC
Confidence            4789999999999998  99999999976  578999999999999999999999 677899999999999999998654


Q ss_pred             h
Q psy7480         179 A  179 (204)
Q Consensus       179 ~  179 (204)
                      .
T Consensus        76 ~   76 (80)
T 2cuq_A           76 G   76 (80)
T ss_dssp             S
T ss_pred             C
Confidence            3

>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=99.80  E-value=3.5e-20  Score=122.70  Aligned_cols=73  Identities=19%  Similarity=0.429  Sum_probs=67.3

Q ss_pred             CCeecccccccccccCcccccccCCccCC---CceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHH
Q psy7480          99 ANLILCKRDYLRLFGTTGYCAACTKVIPA---FEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEE  174 (204)
Q Consensus        99 ~g~~~C~~cy~~~~~~~~~C~~C~~~I~~---~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~  174 (204)
                      ++++||+.||.+++++  +|++|+++|.+   .+.+|.+.++.||++||+|..|+++| .+..|+..++++||+.||.+
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            4689999999999998  99999999986   45789999999999999999999999 67789999999999999975

>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=99.79  E-value=8.4e-20  Score=121.71  Aligned_cols=76  Identities=26%  Similarity=0.624  Sum_probs=68.9

Q ss_pred             CCeecccccccccccCcccccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhhh
Q psy7480          99 ANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVF  178 (204)
Q Consensus        99 ~g~~~C~~cy~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~  178 (204)
                      +|++||+.||.+++++  +|.+|+++|.+  .+|.+.++.||++||+|..|+++| .+..|+..++++||+.||.++|..
T Consensus         1 gg~~yC~~~y~~~~~~--~C~~C~~~I~~--~~v~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~~~~yC~~~y~~~f~~   75 (80)
T 1x3h_A            1 GSSGSSGKDFLAMFSP--KCGGCNRPVLE--NYLSAMDTVWHPECFVCGDCFTSF-STGSFFELDGRPFCELHYHHRRGS   75 (80)
T ss_dssp             CCCCCCCCCCCCCCSC--BCTTTCCBCCS--SCEEETTEEECTTTCBCSSSCCBS-CSSCCEESSSCEECHHHHHHHHSS
T ss_pred             CCCccchhHHhhhcCC--ccccCCCeecc--eeEEECCCeEecCcCChhhCCCCC-CCCcEEeECCEEECHHHHHHHcCC
Confidence            4789999999999998  99999999986  678999999999999999999999 555799999999999999998654


Q ss_pred             h
Q psy7480         179 A  179 (204)
Q Consensus       179 ~  179 (204)
                      .
T Consensus        76 ~   76 (80)
T 1x3h_A           76 G   76 (80)
T ss_dssp             S
T ss_pred             C
Confidence            4

>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=99.78  E-value=2.2e-19  Score=120.00  Aligned_cols=75  Identities=28%  Similarity=0.496  Sum_probs=67.9

Q ss_pred             CeecccccccccccCcccccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEE-eCCeeecHHHHHHHhhh
Q psy7480         100 NLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYL-CDNKILCEYDYEERQVF  178 (204)
Q Consensus       100 g~~~C~~cy~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~-~~~~~~C~~c~~~~~~~  178 (204)
                      +.+||+.||.++|++  +|.+|+++|.+  .+|.+.++.||++||+|..|+++|..+..|++ .++++||+.||.++|..
T Consensus         2 ~~~yC~~~y~~~~~~--~C~~C~~~I~~--~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~~C~~c~~~~~~~   77 (81)
T 1x6a_A            2 SSGSSGKDYWGKFGE--FCHGCSLLMTG--PFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVVSG   77 (81)
T ss_dssp             CCCCCCCCSSCCSSC--BCTTTCCBCCS--CCBCCTTCCBCTTSCBCTTTCCBCCTTSCEEECSSSCEEEHHHHHHHHCT
T ss_pred             CCccchhHHhhhcCC--cCccCCCCcCc--eEEEECCceeccccCCccCCCCccCCCCcEEEeeCCEEECHHHHHHHhcC
Confidence            578999999999998  99999999984  78999999999999999999999965678884 89999999999988643

>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=99.76  E-value=4e-19  Score=118.70  Aligned_cols=75  Identities=24%  Similarity=0.456  Sum_probs=66.9

Q ss_pred             CCeecccccccccccCcccccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEe-CCeeecHHHHHHHhh
Q psy7480          99 ANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLC-DNKILCEYDYEERQV  177 (204)
Q Consensus        99 ~g~~~C~~cy~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~-~~~~~C~~c~~~~~~  177 (204)
                      +|++||+.||. .+++  +|.+|+++|.+  .+|.+.++.||++||+|..|+++| .+..|+.. +|++||+.||.++|.
T Consensus         2 ~g~~yC~~~y~-~~~~--~C~~C~~~I~~--~~~~a~~~~~H~~CF~C~~C~~~L-~~~~f~~~~~g~~yC~~cy~~~f~   75 (81)
T 2dlo_A            2 SSGSSGEGCYV-ATLE--KCATCSQPILD--RILRAMGKAYHPGCFTCVVCHRGL-DGIPFTVDATSQIHCIEDFHRKFA   75 (81)
T ss_dssp             CCCCCCCCCCC-SSCC--BCTTTCCBCCS--CCEEETTEEECTTTCBCSSSCCBC-TTSCEECCTTCCCEEHHHHHHHTT
T ss_pred             cCCEECHHHhh-cCCC--ccccCCCeecc--eeEEECCccccHHhcCcccCCCcc-CCCeeEECCCCEEECHHHHHHHhc
Confidence            68999999999 6777  99999999975  689999999999999999999999 67788876 799999999999865


Q ss_pred             hh
Q psy7480         178 FA  179 (204)
Q Consensus       178 ~~  179 (204)
                      ..
T Consensus        76 ~~   77 (81)
T 2dlo_A           76 SG   77 (81)
T ss_dssp             SS
T ss_pred             Cc
Confidence            43

>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=99.70  E-value=1e-17  Score=111.82  Aligned_cols=72  Identities=31%  Similarity=0.581  Sum_probs=62.8

Q ss_pred             CeecccccccccccCcccccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHH
Q psy7480         100 NLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEER  175 (204)
Q Consensus       100 g~~~C~~cy~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~  175 (204)
                      +.+||..||.++|++  +|..|+++|.+  .+|.+.++.||++||+|..|+++|..+..|...++.+||..||.++
T Consensus         2 ~~~yC~~dy~~~~~~--~C~~C~~~I~~--~~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~~~~C~~C~~~~   73 (81)
T 1v6g_A            2 SSGSSGLDYQRLYGT--RCFSCDQFIEG--EVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCSLPV   73 (81)
T ss_dssp             CCCCCCSCGGGSCCC--BCTTTCCBCCS--CCEEETTEEECTTTSSCSSSCCCCCSSSCEEEETTEEEEHHHHSCC
T ss_pred             CCCcchHHHHhHhCC--cCccccCEecc--ceEEECCceeCccCCccccCCCCCCCCCEEEeCCCCEEChhhhccc
Confidence            468999999999998  99999999985  6889999999999999999999995555555566678999999765

>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=99.66  E-value=8.2e-17  Score=106.08  Aligned_cols=71  Identities=23%  Similarity=0.412  Sum_probs=64.0

Q ss_pred             ccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeeccc-ccccccccCcccccccCCccC
Q psy7480          52 KECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCK-RDYLRLFGTTGYCAACTKVIP  126 (204)
Q Consensus        52 ~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~-~cy~~~~~~~~~C~~C~~~I~  126 (204)
                      ++|.+|+++|...+.+.++++.||++||+|..|+.+|..  ..|+.++|++||. .||.++|++  +|.+|++.+.
T Consensus         1 p~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~--~~~~~~~g~~yC~~~cy~~~f~~--~C~~C~~~~~   72 (76)
T 1iml_A            1 PKCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTS--GGHAEHEGKPYCNHPCYSAMFGP--KGFGRGGAES   72 (76)
T ss_dssp             CBCTTTSSBCCGGGEEEETTEEEETTTCBCTTTCCBCCT--TTEEEETTEEEETTTHHHHHSSC--CCSSCCCSSS
T ss_pred             CcCCCCCCEEECceEEEECCccccCCCCCccccCccCCC--CceECcCCeEeeCHHHHHHHhCc--cCCCcCCcee
Confidence            579999999996657899999999999999999999984  4689999999999 699999998  9999997664

>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=99.65  E-value=1.4e-16  Score=106.00  Aligned_cols=69  Identities=33%  Similarity=0.641  Sum_probs=61.5

Q ss_pred             CCCCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccc
Q psy7480          47 ASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA  120 (204)
Q Consensus        47 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~  120 (204)
                      .....++|.+|+++|...+.+.++++.||++||+|..|+..|.  + .|+.+++++||..||.++|++  +|+.
T Consensus        11 ~~~~~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~--~-~~~~~~g~~yC~~~y~~~fg~--~C~~   79 (80)
T 2dj7_A           11 KIRGPSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILT--G-EYISKDGVPYCESDYHAQFGS--GPSS   79 (80)
T ss_dssp             CCSSCSCCTTTCCCCSSSCCEEETTEEECTTTCBCSSSCCBCS--S-CCEEETTEEECTTHHHHHTTC--CSTT
T ss_pred             CCCCCCCCcCcCCeeCCCeEEEECCcccccccCCcCcCCCCcC--C-CeEEECCEEECHHHHHHHcCC--CCCC
Confidence            3456789999999999776789999999999999999999997  2 489999999999999999998  8864

>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=99.64  E-value=2.3e-16  Score=102.74  Aligned_cols=66  Identities=26%  Similarity=0.461  Sum_probs=58.5

Q ss_pred             cccCcccccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhhhh
Q psy7480         111 LFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFA  179 (204)
Q Consensus       111 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~  179 (204)
                      +|++  +|..|+++|.+.+.+|.+.++.||++||+|..|+++| .+..|+..++.+||+.||.+++...
T Consensus         3 ~~~~--~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~~~~yC~~cy~~~f~~~   68 (72)
T 1x4k_A            3 SGSS--GCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPI-GTKSFIPKDNQNFCVPCYEKQHASG   68 (72)
T ss_dssp             SCCC--CBSSSCCCCCSSSCEEEETTEEEETTTTCCSSSCCCC-CSSSEEEETTEEEEHHHHHHHTSSC
T ss_pred             ccCC--CCccCCCcccCCceEEEECcCeecccCCcccccCCcc-CCCccCccCCeEECHHHHhHHhCCC
Confidence            5666  9999999998766799999999999999999999999 5568999999999999999886443

>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=99.64  E-value=3.4e-16  Score=101.96  Aligned_cols=66  Identities=18%  Similarity=0.355  Sum_probs=58.2

Q ss_pred             cccCcccccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhhhh
Q psy7480         111 LFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFA  179 (204)
Q Consensus       111 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~  179 (204)
                      ++++  +|..|+++|.+.+.+|.+.++.||++||+|..|+++| .+..|+..++.+||+.||.++|...
T Consensus         3 ~~~~--~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~~~~yC~~cy~~~f~~~   68 (72)
T 1wyh_A            3 SGSS--GCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPL-GSRSFVPDKGAHYCVPCYENKFASG   68 (72)
T ss_dssp             CCCC--BCSSSCCBCCSSSCEECSTTCCEETTTCBCTTTCCBT-TTSCEEEETTEEEEHHHHHHHTSCC
T ss_pred             ccCC--CCccCCCccccCccEEEECccccCcccCeECCCCCcC-CCCccCCcCCeEECHHHHHHHccCc
Confidence            4566  9999999998656899999999999999999999999 5668999999999999999886443

>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=99.63  E-value=8.8e-17  Score=107.23  Aligned_cols=73  Identities=21%  Similarity=0.421  Sum_probs=55.7

Q ss_pred             CCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccccCCcc
Q psy7480          49 GGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVI  125 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C~~~I  125 (204)
                      .+.++|.+|+++|...+.+.++++.||++||+|..|+++|..  ..|+.+++++||..||.++|++  +|.+|+...
T Consensus         5 ~~~~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~--~~~~~~~~~~yC~~cy~~~f~~--~c~gcg~g~   77 (81)
T 1a7i_A            5 GGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDS--TTVAIHDAEVYCKSCYGKKYGP--KGYGYGQGA   77 (81)
T ss_dssp             ---CBCSSSCCBCSSTTEEEETTEEEESSSEECSSSCCEECS--SCCEEETTEEECSHHHHHHCC------------
T ss_pred             CCCCcCcCcCccccCceeEEeCCcccccccCccCCCCCCCCC--CCeEeeCCEEECHHHHHHHhCC--cccccCCcc
Confidence            456789999999987667899999999999999999999974  4689999999999999999998  999998754

>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=99.63  E-value=1.8e-16  Score=103.70  Aligned_cols=63  Identities=25%  Similarity=0.497  Sum_probs=56.5

Q ss_pred             cccCcccccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhh
Q psy7480         111 LFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV  177 (204)
Q Consensus       111 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~  177 (204)
                      +|++  +|.+|+++|.+  .+|.++++.||++||+|..|+++|..+..|+..++++||..||.+++.
T Consensus         3 ~~~~--~C~~C~~~I~~--~~v~a~~~~wH~~CF~C~~C~~~L~~~~~f~~~~~~~yC~~C~~~~~~   65 (73)
T 1wig_A            3 SGSS--GCDSCEKYITG--RVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWHPACRQAART   65 (73)
T ss_dssp             CSCC--SCSSSCCCCSS--CCBCCSSCCBCTTTSCCSSSCCCCCSSCCCEEETTEEECTTHHHHTSS
T ss_pred             cCcC--CcccCCCEecC--eeEEeCCCCCCCCcCEeCCCCCCCCCCCeeEeeCCEEEChHHChHhhc
Confidence            4666  99999999986  788999999999999999999999547889999999999999988744

>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=99.63  E-value=4.2e-16  Score=102.67  Aligned_cols=70  Identities=23%  Similarity=0.536  Sum_probs=63.0

Q ss_pred             CCCcccccccccccc---ceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccccC
Q psy7480          49 GGLKECASCGKRITE---RFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACT  122 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~---~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C~  122 (204)
                      ...++|.+|+++|.+   ..++.++++.||++||+|..|+.+|.  +..|+.+++++||..||.++|++  +|+.++
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 SGSSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLV--GKGFLTQNKEIFCQKCGSGMDTD--ISGPSS   75 (76)
T ss_dssp             TCCCCCTTTCCCCCTTTTCCEEEETTEEEEGGGCBCTTTCCBCS--SSCEEEETTEEEETTTTCCCCCC--SSSSSC
T ss_pred             ccCCCCccCCCcccCCCCceeEEECCcccCcccCChhhCCCcCC--CCceEeECCEEECHHHhhhhhCC--cCCCCC
Confidence            356789999999996   35799999999999999999999997  46799999999999999999998  998875

>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=99.62  E-value=2.6e-16  Score=100.84  Aligned_cols=62  Identities=29%  Similarity=0.602  Sum_probs=55.7

Q ss_pred             cccCcccccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhh
Q psy7480         111 LFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV  177 (204)
Q Consensus       111 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~  177 (204)
                      ++++  +|.+|+++|.+  .+|.+.++.||++||+|..|+++| .+..|+..+|.+||+.||.++|.
T Consensus         3 ~~~~--~C~~C~~~I~~--~~~~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~g~~yC~~~y~~~f~   64 (66)
T 1nyp_A            3 MGVP--ICGACRRPIEG--RVVNAMGKQWHVEHFVCAKCEKPF-LGHRHYERKGLAYCETHYNQLFG   64 (66)
T ss_dssp             CCCC--EETTTTEECCS--CEECCTTSBEETTTCBCTTTCCBC-SSSCCEEETTEEECHHHHHHHCS
T ss_pred             cCCC--CCcccCCEecc--eEEEECccccccCcCEECCCCCCC-CCCceEeECCcEECHHHHHHHhC
Confidence            4555  99999999984  689999999999999999999999 67789999999999999998753

>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=99.62  E-value=4.8e-16  Score=101.26  Aligned_cols=63  Identities=24%  Similarity=0.550  Sum_probs=56.9

Q ss_pred             ccCcccccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhh
Q psy7480         112 FGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV  177 (204)
Q Consensus       112 ~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~  177 (204)
                      +++  +|.+|+++|.+.+.+|.+.++.||++||+|..|+++| .+..|+..++.+||+.||.+++.
T Consensus         4 ~~~--~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~~~~yC~~cy~~~~~   66 (72)
T 1x61_A            4 GSS--GCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQL-RGQHFYAVERRAYCEGCYVATLE   66 (72)
T ss_dssp             CCC--CCSSSCSCCCSSSCCEECSSSEECTTTCBCSSSCCBC-TTSCEEESSSCEEEHHHHHHHHH
T ss_pred             CCC--CCccCCCccCCCceEEEECCCeEcccCCcccccCCcC-CcCcCEeeCCeEECHHHHHHHHc
Confidence            445  9999999998756789999999999999999999999 78889999999999999998863

>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=99.62  E-value=1.4e-16  Score=104.91  Aligned_cols=68  Identities=24%  Similarity=0.459  Sum_probs=59.3

Q ss_pred             ccccCcccccccCCccCC--CceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhhhhc
Q psy7480         110 RLFGTTGYCAACTKVIPA--FEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFAN  180 (204)
Q Consensus       110 ~~~~~~~~C~~C~~~I~~--~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~  180 (204)
                      ++|++  +|.+|+++|.+  .+.+|.+.++.||++||+|..|+++| .+..|+..++++||+.||.++|....
T Consensus         2 ~~~~~--~C~~C~~~I~~~g~~~~~~a~~~~wH~~CF~C~~C~~~L-~~~~f~~~~g~~yC~~cy~~~f~~~C   71 (76)
T 1x68_A            2 SSGSS--GCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSL-VGKGFLTQNKEIFCQKCGSGMDTDIS   71 (76)
T ss_dssp             TTCCC--CCTTTCCCCCTTTTCCEEEETTEEEEGGGCBCTTTCCBC-SSSCEEEETTEEEETTTTCCCCCCSS
T ss_pred             CccCC--CCccCCCcccCCCCceeEEECCcccCcccCChhhCCCcC-CCCceEeECCEEECHHHhhhhhCCcC
Confidence            35666  99999999986  55789999999999999999999999 67789999999999999988764433

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

Probab=99.62  E-value=4.2e-16  Score=101.33  Aligned_cols=65  Identities=25%  Similarity=0.573  Sum_probs=57.2

Q ss_pred             cccccCcccccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHh
Q psy7480         109 LRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  176 (204)
Q Consensus       109 ~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  176 (204)
                      ...+++  +|.+|+++|.+.+.++.+.++.||++||+|..|+++|. +..|+..+|++||+.||.++|
T Consensus         7 ~~~~~~--~C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~-~~~~~~~~g~~yC~~~y~~lf   71 (72)
T 3f6q_B            7 QGSASA--TCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFP-EGLFYEFEGRKYCEHDFQMLF   71 (72)
T ss_dssp             CCCTTC--BCTTTCCBCCTTCEEEEETTEEEETTTSSCTTTCCCCG-GGCCEEETTEEECHHHHHHHT
T ss_pred             cCcCCc--cchhcCccccCCceEEEeCcCeeCcCCCcccCCCCCCC-CCCeEeECCeEeCHHHHHHhh
Confidence            345566  99999999998777889999999999999999999994 447999999999999999875

>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=99.61  E-value=5.3e-16  Score=105.52  Aligned_cols=70  Identities=21%  Similarity=0.455  Sum_probs=61.8

Q ss_pred             CCCCCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccc
Q psy7480          46 GASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA  120 (204)
Q Consensus        46 ~~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~  120 (204)
                      ......++|.+|+++|.+. .+.++++.||++||+|..|++.|..  ..|+.+++++||..||.++|++  +|+.
T Consensus        20 ~~~~~~~~C~~C~~~I~~~-~v~a~~~~~H~~CF~C~~C~~~L~~--~~f~~~~g~~yC~~cy~~~f~~--~c~s   89 (90)
T 2dar_A           20 PAGKRTPMCAHCNQVIRGP-FLVALGKSWHPEEFNCAHCKNTMAY--IGFVEEKGALYCELCYEKFFAS--GPSS   89 (90)
T ss_dssp             CTTTCCCBBSSSCCBCCSC-EEEETTEEECTTTCBCSSSCCBCSS--SCBEESSSCEECHHHHHHHTSC--CCCC
T ss_pred             CCCCCCCCCccCCCEecce-EEEECCccccccCCccCCCCCCCCC--CEeEeECCEEECHHHHHHHcCC--CCCC
Confidence            3456778999999999765 6889999999999999999999983  5689999999999999999998  8863

>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=99.61  E-value=5.6e-16  Score=105.38  Aligned_cols=74  Identities=22%  Similarity=0.320  Sum_probs=62.4

Q ss_pred             eecccccccccccCcccccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhhhh
Q psy7480         101 LILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFA  179 (204)
Q Consensus       101 ~~~C~~cy~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~  179 (204)
                      ....+..+...+.+  +|..|+++|.+  ++|.+.++.||++||+|..|+++| .+..|+..++++||+.||.++|...
T Consensus        13 ~~~~~~~~~~~~~~--~C~~C~~~I~~--~~v~a~~~~~H~~CF~C~~C~~~L-~~~~f~~~~g~~yC~~cy~~~f~~~   86 (90)
T 2dar_A           13 VQRAEHIPAGKRTP--MCAHCNQVIRG--PFLVALGKSWHPEEFNCAHCKNTM-AYIGFVEEKGALYCELCYEKFFASG   86 (90)
T ss_dssp             CBCCEEECTTTCCC--BBSSSCCBCCS--CEEEETTEEECTTTCBCSSSCCBC-SSSCBEESSSCEECHHHHHHHTSCC
T ss_pred             hhhcccCCCCCCCC--CCccCCCEecc--eEEEECCccccccCCccCCCCCCC-CCCEeEeECCEEECHHHHHHHcCCC
Confidence            33444556667777  99999999964  788999999999999999999999 6678999999999999999986443

>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=99.61  E-value=7.3e-16  Score=104.61  Aligned_cols=68  Identities=19%  Similarity=0.446  Sum_probs=60.4

Q ss_pred             CCCCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCccccc
Q psy7480          47 ASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCA  119 (204)
Q Consensus        47 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~  119 (204)
                      ......+|.+|+++|.+. ++.++++.||++||+|..|++.|..  ..|+.+++++||..||.++|++  ++.
T Consensus        21 ~~~~~~~C~~C~~~I~~~-~~~a~~~~~H~~CF~C~~C~~~L~~--~~~~~~~g~~yC~~~y~~~f~p--~~~   88 (89)
T 1x64_A           21 SAQRMPLCDKCGSGIVGA-VVKARDKYRHPECFVCADCNLNLKQ--KGYFFVEGELYCETHARARTSG--PSS   88 (89)
T ss_dssp             CCCSCCBCTTTCCBCCSC-CEESSSCEECTTTCCCSSSCCCTTT--SCCEEETTEEECHHHHHHHSSS--CCC
T ss_pred             CCCcCCCcccCCCEeccc-EEEECCceECccCCEecCCCCCCCC--CCeEeECCEEECHHHHHHHhCC--CCC
Confidence            445678999999999985 6889999999999999999999973  4688999999999999999998  664

>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=99.61  E-value=7e-16  Score=110.87  Aligned_cols=67  Identities=49%  Similarity=1.173  Sum_probs=59.4

Q ss_pred             CCCCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeeccccccccccc
Q psy7480          47 ASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG  113 (204)
Q Consensus        47 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~  113 (204)
                      .....++|.+|+++|.+.+++.++++.||+.||+|..|+..|.+.+..|+.++|++||..||.++|+
T Consensus        57 ~~~~~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~~g~~f~~~dg~~yC~~cy~~~Fg  123 (123)
T 2l4z_A           57 GGLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG  123 (123)
T ss_dssp             SCSSCSBBSSSSSBCCSSSEEEETTEEEETTTSBCTTTCCBGGGTTCCCBCSSSCCBCHHHHHHHCC
T ss_pred             cCccCCcCcCCCCCcCCcEEEEeCCcEEcccccCcCcCCCcccccCCceEEECCEEeCHHHhhhhcC
Confidence            3456789999999999987799999999999999999999997334578999999999999999885

>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=99.60  E-value=4.5e-16  Score=101.42  Aligned_cols=59  Identities=27%  Similarity=0.569  Sum_probs=54.3

Q ss_pred             cccccCCccCC--CceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHh
Q psy7480         117 YCAACTKVIPA--FEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  176 (204)
Q Consensus       117 ~C~~C~~~I~~--~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  176 (204)
                      +|.+|+++|.+  .+.+|.+.++.||++||+|..|+++| .+..|+..++++||+.||.+++
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            99999999986  45789999999999999999999999 6788999999999999998874

>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=99.60  E-value=8.2e-16  Score=101.24  Aligned_cols=68  Identities=26%  Similarity=0.491  Sum_probs=60.8

Q ss_pred             CCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeeccc-ccccccccCcccccc
Q psy7480          49 GGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCK-RDYLRLFGTTGYCAA  120 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~-~cy~~~~~~~~~C~~  120 (204)
                      ...++|.+|+++|...+.+.++++.||++||+|..|+.+|..  ..|+.+++++||. .||.++|++  +|.+
T Consensus         7 ~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~--~~~~~~~g~~yC~~~cy~~~f~~--kc~g   75 (76)
T 2cu8_A            7 GMASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTP--GGHAEHDGKPFCHKPCYATLFGS--GPSS   75 (76)
T ss_dssp             CCCCBCTTTCCBCCTTTEEEETTEEEETTTCBCSSSCCBCCT--TSCEEETTEEECTTTHHHHHSCS--SCSC
T ss_pred             CCCCCCcCCCCEeECCeEEEECCeEeeCCCCCCCCCCCccCC--CceEeECCEEecchHHHHHhccc--ccCC
Confidence            456899999999996667889999999999999999999983  5689999999999 799999998  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=99.59  E-value=1.1e-15  Score=98.97  Aligned_cols=63  Identities=24%  Similarity=0.477  Sum_probs=55.8

Q ss_pred             cccCcccccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhhh
Q psy7480         111 LFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVF  178 (204)
Q Consensus       111 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~  178 (204)
                      .+++  +|..|+++|.+  ..|.+.++.||++||+|..|+++| .+..|+..++++||+.||.++|..
T Consensus         3 ~~~~--~C~~C~~~I~~--~~~~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~~~~yC~~cy~~~f~~   65 (70)
T 2d8z_A            3 SGSS--GCVQCKKPITT--GGVTYREQPWHKECFVCTACRKQL-SGQRFTARDDFAYCLNCFCDLYAS   65 (70)
T ss_dssp             CCCC--BCSSSCCBCCS--SEEESSSSEEETTTSBCSSSCCBC-TTSCCEESSSSEECHHHHHHHTCC
T ss_pred             CCCC--CCcccCCeecc--ceEEECccccCCCCCccCCCCCcC-CcCceEeeCCeEECHHHHHHHhcc
Confidence            3455  99999999976  568999999999999999999999 677899999999999999988643

>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=99.59  E-value=1.1e-15  Score=98.66  Aligned_cols=60  Identities=23%  Similarity=0.591  Sum_probs=54.4

Q ss_pred             cccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhhhh
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFA  179 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~  179 (204)
                      +|..|+++|.+  ..|.+.++.||++||+|..|+++| .+..|++.++++||+.||.++|...
T Consensus         7 ~C~~C~~~I~~--~~~~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~~~~yC~~cy~~~f~~~   66 (69)
T 2cur_A            7 GCVKCNKAITS--GGITYQDQPWHADCFVCVTCSKKL-AGQRFTAVEDQYYCVDCYKNFVSGP   66 (69)
T ss_dssp             CCSSSCCCCCT--TCEEETTEEECTTTTBCTTTCCBC-TTSCEEECSSCEEEHHHHHHHHTCS
T ss_pred             CCcccCCEeCc--ceEEECccccccCcCEECCCCCCC-CCCccEeECCEEECHHHhHHHhcCC
Confidence            99999999976  578899999999999999999999 6778999999999999999886543

>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=99.59  E-value=7.4e-16  Score=99.53  Aligned_cols=67  Identities=25%  Similarity=0.538  Sum_probs=60.4

Q ss_pred             CCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccc
Q psy7480          49 GGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA  120 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~  120 (204)
                      .+.++|.+|+++|.+. .+.++++.||++||+|..|+.+|.  +..|+.+++++||..||.++|++  +|++
T Consensus         3 ~~~~~C~~C~~~I~~~-~~~a~~~~~H~~CF~C~~C~~~L~--~~~~~~~~~~~yC~~cy~~~f~~--~C~g   69 (69)
T 2cur_A            3 SGSSGCVKCNKAITSG-GITYQDQPWHADCFVCVTCSKKLA--GQRFTAVEDQYYCVDCYKNFVSG--PSSG   69 (69)
T ss_dssp             CCCCCCSSSCCCCCTT-CEEETTEEECTTTTBCTTTCCBCT--TSCEEECSSCEEEHHHHHHHHTC--SCCC
T ss_pred             CCcCCCcccCCEeCcc-eEEECccccccCcCEECCCCCCCC--CCccEeECCEEECHHHhHHHhcC--CCCC
Confidence            3567899999999976 688999999999999999999997  46689999999999999999998  8864

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

Probab=99.58  E-value=1.2e-15  Score=97.46  Aligned_cols=58  Identities=22%  Similarity=0.548  Sum_probs=53.1

Q ss_pred             cccccCCccCCCceEEecCCcccc--cCccccccCCccccCCCeEEEeCCeeec-HHHHHHH
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYH--LECFACQQCNHRFCVGDRFYLCDNKILC-EYDYEER  175 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H--~~Cf~C~~C~~~l~~~~~~~~~~~~~~C-~~c~~~~  175 (204)
                      +|.+|+++|.+.+..|.+.++.||  ++||+|..|+++| .+..|+..+|++|| ..||.++
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            899999999864579999999999  9999999999999 77889999999999 9998754

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

Probab=99.58  E-value=1e-15  Score=100.96  Aligned_cols=60  Identities=27%  Similarity=0.661  Sum_probs=54.5

Q ss_pred             cccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhh
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV  177 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~  177 (204)
                      +|.+|+++|.+.+.++.+.++.||++||+|..|+++| .+..|+..+|.+||+.||.++|.
T Consensus        13 ~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~g~~yC~~~y~~~f~   72 (77)
T 1g47_A           13 TCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQF-PEGLFYEFEGRKYCEHDFQMLFA   72 (77)
T ss_dssp             BCSSSCCBCCSTTTCEEETTEEECTTTCCCTTTCCCC-GGGCSEEETTEEECHHHHHHHCC
T ss_pred             CchhcCCccCCCceEEEeCccEeccccCeECCCCCCC-CCCCeEeECCeEeCHHHHHHHhh
Confidence            9999999998666788999999999999999999999 44479999999999999998854

>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=99.58  E-value=1.4e-15  Score=98.98  Aligned_cols=68  Identities=24%  Similarity=0.525  Sum_probs=60.8

Q ss_pred             CCCccccccccccccc-eeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccc
Q psy7480          49 GGLKECASCGKRITER-FLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA  120 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~-~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~  120 (204)
                      ...++|.+|+++|... .++.++++.||++||+|..|+.+|..  ..|+.+++++||..||.++|++  +|+.
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~--~~~~~~~~~~yC~~cy~~~f~~--~C~~   71 (72)
T 1wyh_A            3 SGSSGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGS--RSFVPDKGAHYCVPCYENKFAS--GPSS   71 (72)
T ss_dssp             CCCCBCSSSCCBCCSSSCEECSTTCCEETTTCBCTTTCCBTTT--SCEEEETTEEEEHHHHHHHTSC--CCCC
T ss_pred             ccCCCCccCCCccccCccEEEECccccCcccCeECCCCCcCCC--CccCCcCCeEECHHHHHHHccC--cCCC
Confidence            3567899999999974 68899999999999999999999983  5689999999999999999998  8863

>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=99.57  E-value=2e-15  Score=97.73  Aligned_cols=59  Identities=27%  Similarity=0.527  Sum_probs=53.4

Q ss_pred             cccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhhh
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVF  178 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~  178 (204)
                      +|..|+++|.+  .+|.+.++.||++||+|..|+++| .+..|+..++++||+.||.+++..
T Consensus         7 ~C~~C~~~I~~--~~~~a~~~~~H~~CF~C~~C~~~L-~~~~f~~~~g~~yC~~c~~~~~~~   65 (70)
T 2d8x_A            7 GCHQCGEFIIG--RVIKAMNNSWHPECFRCDLCQEVL-ADIGFVKNAGRHLCRPCHNREKAS   65 (70)
T ss_dssp             BCSSSCCBCCS--CCEEETTEEECTTTSBCSSSCCBC-SSSCCEEETTEEECHHHHHHHHCC
T ss_pred             cCccCCCEecc--eEEEECcccccccCCEeCCCCCcC-CCCccEeECCeEECHHHhhhhcCC
Confidence            89999999975  688999999999999999999999 555799999999999999988643

>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=99.57  E-value=1.2e-15  Score=98.77  Aligned_cols=67  Identities=22%  Similarity=0.567  Sum_probs=60.1

Q ss_pred             CCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccc
Q psy7480          49 GGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA  120 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~  120 (204)
                      .+.++|.+|+++|.+. .+.++++.||++||+|..|+++|.  +..|+.+++++||..||.++|++  +|+.
T Consensus         3 ~~~~~C~~C~~~I~~~-~~~a~~~~~H~~CF~C~~C~~~L~--~~~~~~~~~~~yC~~cy~~~f~~--~c~~   69 (70)
T 2d8z_A            3 SGSSGCVQCKKPITTG-GVTYREQPWHKECFVCTACRKQLS--GQRFTARDDFAYCLNCFCDLYAS--GPSS   69 (70)
T ss_dssp             CCCCBCSSSCCBCCSS-EEESSSSEEETTTSBCSSSCCBCT--TSCCEESSSSEECHHHHHHHTCC--CCTT
T ss_pred             CCCCCCcccCCeeccc-eEEECccccCCCCCccCCCCCcCC--cCceEeeCCeEECHHHHHHHhcc--ccCC
Confidence            4567899999999976 588999999999999999999997  35788999999999999999998  8863

>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=99.57  E-value=6.3e-16  Score=102.58  Aligned_cols=67  Identities=21%  Similarity=0.425  Sum_probs=59.6

Q ss_pred             CCCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCccccc
Q psy7480          48 SGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCA  119 (204)
Q Consensus        48 ~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~  119 (204)
                      ....++|.+|+++|.+. ++.++++.||++||+|..|++.|..  ..|+.+++++||..||.++|++  ++.
T Consensus        12 ~~~~~~C~~C~~~I~~~-~~~a~~~~~H~~CF~C~~C~~~L~~--~~~~~~~g~~yC~~cy~~~~~p--~g~   78 (79)
T 1x62_A           12 AQKLPMCDKCGTGIVGV-FVKLRDRHRHPECYVCTDCGTNLKQ--KGHFFVEDQIYCEKHARERVSG--PSS   78 (79)
T ss_dssp             CCCCCCCSSSCCCCCSS-CEECSSCEECTTTTSCSSSCCCHHH--HCCEESSSCEECHHHHHHHHSS--CCC
T ss_pred             CCCCCccccCCCCccCc-EEEECcceeCcCcCeeCCCCCCCCC--CCeEeECCEEECHHHHHHHhCC--CCC
Confidence            35578999999999986 7899999999999999999999973  4588999999999999999998  653

>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=99.57  E-value=1.9e-15  Score=98.33  Aligned_cols=67  Identities=24%  Similarity=0.486  Sum_probs=60.5

Q ss_pred             CCccccccccccccc-eeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccc
Q psy7480          50 GLKECASCGKRITER-FLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA  120 (204)
Q Consensus        50 ~~~~C~~C~~~I~~~-~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~  120 (204)
                      ..++|.+|+++|.+. .++.++++.||++||+|..|+++|..  ..|+.+++++||..||.++|++  +|+.
T Consensus         4 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~--~~~~~~~~~~yC~~cy~~~f~~--~C~~   71 (72)
T 1x4k_A            4 GSSGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGT--KSFIPKDNQNFCVPCYEKQHAS--GPSS   71 (72)
T ss_dssp             CCCCBSSSCCCCCSSSCEEEETTEEEETTTTCCSSSCCCCCS--SSEEEETTEEEEHHHHHHHTSS--CCCC
T ss_pred             cCCCCccCCCcccCCceEEEECcCeecccCCcccccCCccCC--CccCccCCeEECHHHHhHHhCC--CCCC
Confidence            467899999999975 57999999999999999999999984  5689999999999999999998  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=99.56  E-value=2.1e-15  Score=98.19  Aligned_cols=64  Identities=27%  Similarity=0.554  Sum_probs=57.8

Q ss_pred             CCCcccccccccccc---ceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccC
Q psy7480          49 GGLKECASCGKRITE---RFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT  114 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~---~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~  114 (204)
                      .+.++|.+|+++|.+   ..++.++++.||++||+|..|+.+|.  +..|+.+++++||..||.++|++
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~~~a~~~~wH~~CF~C~~C~~~L~--~~~f~~~~g~~yC~~c~~~~~~p   69 (72)
T 1x4l_A            3 SGSSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLV--GRGFLTERDDILCPDCGKDISGP   69 (72)
T ss_dssp             SCSCSBTTTTBCCCCSSSCSCEECSSCEECTTTCBCSSSCCBCT--TSCCEECSSSEECHHHHHTCCCS
T ss_pred             CCCCCCcCCCccccCCCCcceEEECCcccCcccCEeccCCCcCC--CCccEeECCEEEChhHcCcccCC
Confidence            457899999999996   36789999999999999999999997  46688999999999999999997

>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=99.56  E-value=1.8e-15  Score=103.01  Aligned_cols=69  Identities=23%  Similarity=0.424  Sum_probs=61.7

Q ss_pred             CCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCccccccc
Q psy7480          49 GGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAAC  121 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C  121 (204)
                      ....+|.+|+++|.+.+.+.++++.||+.||+|..|+..|..  ..|+.+++++||..||.++|++  +|..+
T Consensus        13 ~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~--~~~~~~~g~~yC~~~y~~~f~~--kc~~~   81 (91)
T 2d8y_A           13 PARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSL--GTYASLHGRIYCKPHFNQLFKS--KGNYD   81 (91)
T ss_dssp             SSSCBCTTTCCBCCTTSEEECSSSEEETTTCBCTTTCCBCCT--TTCCCSSSCCCCHHHHHHHSCC--CSCCC
T ss_pred             CCCCcCccCCCccCCceeEEECCCEECCCCCeeCCCCCCCCC--CCcEeECCEEECHHHHHHHhCC--CcCcc
Confidence            456799999999998767899999999999999999999984  4588999999999999999998  88743

>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=99.55  E-value=4.1e-15  Score=99.34  Aligned_cols=66  Identities=20%  Similarity=0.386  Sum_probs=57.1

Q ss_pred             CCCCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEE--eeCCeecccccccccccC
Q psy7480          47 ASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLY--QKANLILCKRDYLRLFGT  114 (204)
Q Consensus        47 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~--~~~g~~~C~~cy~~~~~~  114 (204)
                      ......+|.+|+++|+..+.+.++++.||.+||+|..|+..|..  ..|+  .+++++||+.||.++|.+
T Consensus        11 ~~~~~~~C~~C~~~I~~~e~v~a~~~~wH~~CF~C~~C~~~L~~--~~~~~~~~~g~~yC~~~y~~~~~~   78 (82)
T 2co8_A           11 EAGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWP--GGYEQHPGDGHFYCLQHLPQTDSG   78 (82)
T ss_dssp             CCCSSCBCSSSCCBCCTTTBCCBTTBCCBTTTCBCSSSCCBCCT--TSEECCTTTCCCEETTTCCCCCCC
T ss_pred             CCCCCCCCcccCCCcccceEEEECCCeeCCCcCEEcCCCCCcCC--CceeEeCcCCEEEChHHHHhhhcC
Confidence            44567899999999987767889999999999999999999984  4465  479999999999999875

>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=99.55  E-value=4.2e-15  Score=99.19  Aligned_cols=69  Identities=23%  Similarity=0.429  Sum_probs=60.8

Q ss_pred             CCCCccccccccccc-cceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccc
Q psy7480          48 SGGLKECASCGKRIT-ERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA  120 (204)
Q Consensus        48 ~~~~~~C~~C~~~I~-~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~  120 (204)
                      ....++|.+|+++|. +..++.++++.||+.||+|..|+.+|.  +..|+.+++++||..||.++|++  +|++
T Consensus        12 ~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~--~~~f~~~~~~~~C~~c~~~~~~~--~C~~   81 (82)
T 2ehe_A           12 NTFANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLA--DEPFTCQDSELLCNDCYCSAFSS--GPSS   81 (82)
T ss_dssp             CCCSCBCTTTCCBCCSSCCBCCCSSCCCBTTTSBCTTTCCBCS--SCCEEEETTEEEETTTSSCCGGG--SSCC
T ss_pred             cccCCcCccCCCccccCcEEEEeCCccccccCCeecCCCCccC--CCccEeeCCEEECHHHHhhhcCC--CCCC
Confidence            345678999999999 346788999999999999999999997  35789999999999999999998  8863

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

Probab=99.54  E-value=2.3e-15  Score=99.21  Aligned_cols=67  Identities=19%  Similarity=0.462  Sum_probs=58.3

Q ss_pred             CCCcccccccccccc-ceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCccccc
Q psy7480          49 GGLKECASCGKRITE-RFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCA  119 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~-~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~  119 (204)
                      ...++|.+|+++|.. +.++.++++.||+.||+|..|+.+|..  ..|+.++|++||..||.++|++  +|+
T Consensus         9 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~--~~~~~~~g~~yC~~~y~~~f~~--~C~   76 (77)
T 1g47_A            9 LASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPE--GLFYEFEGRKYCEHDFQMLFAP--CWI   76 (77)
T ss_dssp             CCCCBCSSSCCBCCSTTTCEEETTEEECTTTCCCTTTCCCCGG--GCSEEETTEEECHHHHHHHCCC--C--
T ss_pred             CCCCCchhcCCccCCCceEEEeCccEeccccCeECCCCCCCCC--CCeEeECCeEeCHHHHHHHhhc--ccC
Confidence            456789999999985 456889999999999999999999984  4589999999999999999998  885

>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=99.54  E-value=2.6e-15  Score=96.10  Aligned_cols=63  Identities=29%  Similarity=0.707  Sum_probs=56.8

Q ss_pred             CCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccC
Q psy7480          49 GGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT  114 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~  114 (204)
                      ...++|.+|+++|.+. .+.++++.||++||+|..|+.+|.  +..|+.++|++||..||.++|++
T Consensus         3 ~~~~~C~~C~~~I~~~-~~~a~~~~~H~~CF~C~~C~~~L~--~~~~~~~~g~~yC~~~y~~~f~~   65 (66)
T 1nyp_A            3 MGVPICGACRRPIEGR-VVNAMGKQWHVEHFVCAKCEKPFL--GHRHYERKGLAYCETHYNQLFGD   65 (66)
T ss_dssp             CCCCEETTTTEECCSC-EECCTTSBEETTTCBCTTTCCBCS--SSCCEEETTEEECHHHHHHHCSC
T ss_pred             cCCCCCcccCCEecce-EEEECccccccCcCEECCCCCCCC--CCceEeECCcEECHHHHHHHhCC
Confidence            3467899999999955 689999999999999999999997  35789999999999999999986

>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=99.54  E-value=3.7e-15  Score=96.99  Aligned_cols=68  Identities=24%  Similarity=0.559  Sum_probs=59.8

Q ss_pred             CCCccccccccccccc-eeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCccccccc
Q psy7480          49 GGLKECASCGKRITER-FLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAAC  121 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~-~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C  121 (204)
                      .+.++|.+|+++|.+. .++.++++.||+.||+|..|+.+|.  +..|+.+++++||..||.++|.   +|..+
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~--~~~~~~~~~~~yC~~cy~~~~~---~~~~~   71 (72)
T 1x61_A            3 SGSSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLR--GQHFYAVERRAYCEGCYVATLE---SGPSS   71 (72)
T ss_dssp             SCCCCCSSSCSCCCSSSCCEECSSSEECTTTCBCSSSCCBCT--TSCEEESSSCEEEHHHHHHHHH---TCSSC
T ss_pred             CCCCCCccCCCccCCCceEEEECCCeEcccCCcccccCCcCC--cCcCEeeCCeEECHHHHHHHHc---cCCCC
Confidence            4568999999999974 5789999999999999999999996  4679999999999999999987   56654

>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=99.53  E-value=2.6e-15  Score=99.62  Aligned_cols=59  Identities=22%  Similarity=0.585  Sum_probs=53.7

Q ss_pred             cccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhhh
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVF  178 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~  178 (204)
                      +|..|+++|.+  .+|.+.++.||++||+|..|+++| .+..|+..++++||+.||.++|..
T Consensus        17 ~C~~C~~~I~~--~~~~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~g~~yC~~cy~~~~~p   75 (79)
T 1x62_A           17 MCDKCGTGIVG--VFVKLRDRHRHPECYVCTDCGTNL-KQKGHFFVEDQIYCEKHARERVSG   75 (79)
T ss_dssp             CCSSSCCCCCS--SCEECSSCEECTTTTSCSSSCCCH-HHHCCEESSSCEECHHHHHHHHSS
T ss_pred             ccccCCCCccC--cEEEECcceeCcCcCeeCCCCCCC-CCCCeEeECCEEECHHHHHHHhCC
Confidence            89999999986  588999999999999999999999 566799999999999999988643

>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=99.53  E-value=7.4e-15  Score=99.58  Aligned_cols=58  Identities=26%  Similarity=0.680  Sum_probs=53.2

Q ss_pred             cccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhh
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV  177 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~  177 (204)
                      +|..|+++|.+  .+|.+.++.||++||+|..|+++| .+..|+..++.+||+.||.++|.
T Consensus        27 ~C~~C~~~I~~--~~~~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~g~~yC~~~y~~~f~   84 (89)
T 1x64_A           27 LCDKCGSGIVG--AVVKARDKYRHPECFVCADCNLNL-KQKGYFFVEGELYCETHARARTS   84 (89)
T ss_dssp             BCTTTCCBCCS--CCEESSSCEECTTTCCCSSSCCCT-TTSCCEEETTEEECHHHHHHHSS
T ss_pred             CcccCCCEecc--cEEEECCceECccCCEecCCCCCC-CCCCeEeECCEEECHHHHHHHhC
Confidence            89999999986  678999999999999999999999 56679999999999999998854

>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=99.52  E-value=7.2e-15  Score=97.46  Aligned_cols=57  Identities=23%  Similarity=0.497  Sum_probs=50.7

Q ss_pred             cccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhh
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV  177 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~  177 (204)
                      +|.+|+++|.+  .+|.+.++.||++||+|..|+++| .+.. +..+|.+||+.||.++|.
T Consensus        17 ~C~~C~~~I~~--~~v~a~~~~~H~~CF~C~~C~~~L-~~~~-f~~~g~~yC~~cy~~~f~   73 (79)
T 2cor_A           17 ICQKCHAIIDE--QPLIFKNDPYHPDHFNCANCGKEL-TADA-RELKGELYCLPCHDKMGV   73 (79)
T ss_dssp             BCTTTCCBCCS--CCCCCSSSCCCTTTSBCSSSCCBC-CTTC-EEETTEEECHHHHHTTSC
T ss_pred             CCccCCCEecc--eEEEECcceeCCCCCEeCCCCCcc-CCCC-EeECCEEeCHHHHHHhCC
Confidence            89999999984  778999999999999999999999 4544 489999999999998753

>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=8e-15  Score=94.89  Aligned_cols=63  Identities=29%  Similarity=0.632  Sum_probs=57.0

Q ss_pred             CCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccC
Q psy7480          49 GGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT  114 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~  114 (204)
                      .+.++|.+|+++|.+. ++.++++.||++||+|..|+.+|..  ..|+.+++++||..||.++|++
T Consensus         3 ~~~~~C~~C~~~I~~~-~~~a~~~~~H~~CF~C~~C~~~L~~--~~f~~~~g~~yC~~c~~~~~~~   65 (70)
T 2d8x_A            3 SGSSGCHQCGEFIIGR-VIKAMNNSWHPECFRCDLCQEVLAD--IGFVKNAGRHLCRPCHNREKAS   65 (70)
T ss_dssp             CCSSBCSSSCCBCCSC-CEEETTEEECTTTSBCSSSCCBCSS--SCCEEETTEEECHHHHHHHHCC
T ss_pred             CCCCcCccCCCEecce-EEEECcccccccCCEeCCCCCcCCC--CccEeECCeEECHHHhhhhcCC
Confidence            4578999999999975 6899999999999999999999984  4688899999999999999986

>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=99.52  E-value=7.3e-15  Score=97.68  Aligned_cols=61  Identities=28%  Similarity=0.560  Sum_probs=53.6

Q ss_pred             ccccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhhhh
Q psy7480         116 GYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFA  179 (204)
Q Consensus       116 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~  179 (204)
                      ++|..|+++|... .+|.++++.||++||+|..|+++| .+ .|+..++++||+.||.++|...
T Consensus        16 ~~C~~C~~~I~~~-~~v~a~~~~wH~~CF~C~~C~~~L-~~-~~~~~~g~~yC~~~y~~~fg~~   76 (80)
T 2dj7_A           16 SHCAGCKEEIKHG-QSLLALDKQWHVSCFKCQTCSVIL-TG-EYISKDGVPYCESDYHAQFGSG   76 (80)
T ss_dssp             SCCTTTCCCCSSS-CCEEETTEEECTTTCBCSSSCCBC-SS-CCEEETTEEECTTHHHHHTTCC
T ss_pred             CCCcCcCCeeCCC-eEEEECCcccccccCCcCcCCCCc-CC-CeEEECCEEECHHHHHHHcCCC
Confidence            3899999999753 567899999999999999999999 45 6999999999999999986544

>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=99.52  E-value=9.5e-15  Score=96.08  Aligned_cols=65  Identities=17%  Similarity=0.319  Sum_probs=55.8

Q ss_pred             cccCcccccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecH-HHHHHHhhhh
Q psy7480         111 LFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCE-YDYEERQVFA  179 (204)
Q Consensus       111 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~-~c~~~~~~~~  179 (204)
                      .+.+  +|.+|+++|.+. ..|.+.++.||++||+|..|+++| .+..|+..++++||+ .||.++|...
T Consensus         7 ~~~~--~C~~C~~~I~~~-~~v~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~g~~yC~~~cy~~~f~~k   72 (76)
T 2cu8_A            7 GMAS--KCPKCDKTVYFA-EKVSSLGKDWHKFCLKCERCSKTL-TPGGHAEHDGKPFCHKPCYATLFGSG   72 (76)
T ss_dssp             CCCC--BCTTTCCBCCTT-TEEEETTEEEETTTCBCSSSCCBC-CTTSCEEETTEEECTTTHHHHHSCSS
T ss_pred             CCCC--CCcCCCCEeECC-eEEEECCeEeeCCCCCCCCCCCcc-CCCceEeECCEEecchHHHHHhcccc
Confidence            3444  999999999853 467899999999999999999999 677899999999999 7999886443

>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=99.50  E-value=7.8e-15  Score=97.40  Aligned_cols=67  Identities=22%  Similarity=0.564  Sum_probs=60.1

Q ss_pred             CCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccc
Q psy7480          49 GGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA  120 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~  120 (204)
                      ...++|.+|+++|.+. .+.++++.||+.||+|..|+.+|..  ..|+.+++++||..||.++|++  +|++
T Consensus        13 ~~~~~C~~C~~~I~~~-~v~a~~~~~H~~CF~C~~C~~~L~~--~~~~~~~~~~yC~~~y~~~f~~--~C~~   79 (80)
T 1x3h_A           13 MFSPKCGGCNRPVLEN-YLSAMDTVWHPECFVCGDCFTSFST--GSFFELDGRPFCELHYHHRRGS--GPSS   79 (80)
T ss_dssp             CCSCBCTTTCCBCCSS-CEEETTEEECTTTCBCSSSCCBSCS--SCCEESSSCEECHHHHHHHHSS--SCCC
T ss_pred             hcCCccccCCCeecce-eEEECCCeEecCcCChhhCCCCCCC--CcEEeECCEEECHHHHHHHcCC--CCCC
Confidence            4467899999999986 6899999999999999999999974  4689999999999999999998  8864

>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=99.50  E-value=1.5e-14  Score=95.88  Aligned_cols=64  Identities=19%  Similarity=0.238  Sum_probs=56.4

Q ss_pred             CCCCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccC
Q psy7480          47 ASGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT  114 (204)
Q Consensus        47 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~  114 (204)
                      ...+.++|.+|+++|.+. .+.++++.||++||+|..|+.+|..  . ++.++|++||..||.++|++
T Consensus        11 ~~~~~~~C~~C~~~I~~~-~v~a~~~~~H~~CF~C~~C~~~L~~--~-~f~~~g~~yC~~cy~~~f~p   74 (79)
T 2cor_A           11 RGLGKYICQKCHAIIDEQ-PLIFKNDPYHPDHFNCANCGKELTA--D-ARELKGELYCLPCHDKMGVS   74 (79)
T ss_dssp             CCCCCCBCTTTCCBCCSC-CCCCSSSCCCTTTSBCSSSCCBCCT--T-CEEETTEEECHHHHHTTSCC
T ss_pred             hccCCCCCccCCCEecce-EEEECcceeCCCCCEeCCCCCccCC--C-CEeECCEEeCHHHHHHhCCC
Confidence            344578999999999965 5889999999999999999999983  3 45999999999999999997

>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=1.3e-14  Score=95.35  Aligned_cols=67  Identities=15%  Similarity=0.298  Sum_probs=57.0

Q ss_pred             ccccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecH-HHHHHHhhhhcccCC
Q psy7480         116 GYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCE-YDYEERQVFANIAYN  184 (204)
Q Consensus       116 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~-~c~~~~~~~~~~~~~  184 (204)
                      ++|.+|+++|... ..|.+.++.||++||+|..|+++| .+..|+..+|.+||+ .||.++|........
T Consensus         1 p~C~~C~~~I~~~-~~v~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~g~~yC~~~cy~~~f~~~C~~C~   68 (76)
T 1iml_A            1 PKCPKCDKEVYFA-ERVTSLGKDWHRPCLKCEKCGKTL-TSGGHAEHEGKPYCNHPCYSAMFGPKGFGRG   68 (76)
T ss_dssp             CBCTTTSSBCCGG-GEEEETTEEEETTTCBCTTTCCBC-CTTTEEEETTEEEETTTHHHHHSSCCCSSCC
T ss_pred             CcCCCCCCEEECc-eEEEECCccccCCCCCccccCccC-CCCceECcCCeEeeCHHHHHHHhCccCCCcC
Confidence            3899999999843 568899999999999999999999 555899999999999 699998766555443

>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=99.50  E-value=1.1e-14  Score=100.92  Aligned_cols=68  Identities=29%  Similarity=0.470  Sum_probs=60.4

Q ss_pred             cccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhhhhcccCCC
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFANIAYNP  185 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~~~  185 (204)
                      +|.+|+++|.+++.+|.+.++.||++||+|..|+++| .+..|+..+|++||+.||.+++.........
T Consensus         7 ~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~g~~yC~~cy~~~~~~~C~~C~~   74 (101)
T 2cup_A            7 GCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPL-ANETFVAKDNKILCNKCTTREDSPKCKGCFK   74 (101)
T ss_dssp             BCSSSCCBCCSSSCEEEETTEEEETTTCCCSSSCCCT-TSSCCEEETTEEECHHHHTTCCCCBCSSSCC
T ss_pred             cCcccCCcccCCceEEEECccChhhcCCcccccCCCC-CcCeeECcCCEEEChhHhhhhcCCccccCCC
Confidence            9999999997555789999999999999999999999 6778999999999999999987666666553

>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=99.50  E-value=1.1e-14  Score=96.62  Aligned_cols=67  Identities=25%  Similarity=0.495  Sum_probs=60.3

Q ss_pred             CCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccc
Q psy7480          49 GGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAA  120 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~  120 (204)
                      ...++|.+|+++|.+. .+.++++.||++||+|..|+++|.  +..|+.+++++||..||.++|++  +|+.
T Consensus        13 ~~~~~C~~C~~~I~~~-~v~a~~~~~H~~CF~C~~C~~~L~--~~~~~~~~~~~yC~~cy~~~f~~--~c~s   79 (80)
T 2cuq_A           13 KFAPRCARCSKTLTQG-GVTYRDQPWHRECLVCTGCQTPLA--GQQFTSRDEDPYCVACFGELFAS--GPSS   79 (80)
T ss_dssp             CSSCCCTTTCCCCCSC-CEESSSSEECTTTCBCSSSCCBCT--TCCEEECSSSEEEHHHHHHHTTC--STTC
T ss_pred             ccCCcCCCCCCEecCc-EEEECCchhhhhhCCcccCCCcCC--CCeeEeECCEEECHHHHHHHcCC--CCCC
Confidence            4568999999999886 688999999999999999999997  35789999999999999999998  8863

>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=99.50  E-value=1e-14  Score=97.05  Aligned_cols=67  Identities=28%  Similarity=0.642  Sum_probs=58.8

Q ss_pred             CCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEee-CCeecccccccccccCcccccc
Q psy7480          49 GGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQK-ANLILCKRDYLRLFGTTGYCAA  120 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~-~g~~~C~~cy~~~~~~~~~C~~  120 (204)
                      ...++|.+|+++|.+. ++.++++.||++||+|..|+++|.  +..|+.. +|++||..||.++|++  +|++
T Consensus        13 ~~~~~C~~C~~~I~~~-~~~a~~~~~H~~CF~C~~C~~~L~--~~~f~~~~~g~~yC~~cy~~~f~~--~C~~   80 (81)
T 2dlo_A           13 ATLEKCATCSQPILDR-ILRAMGKAYHPGCFTCVVCHRGLD--GIPFTVDATSQIHCIEDFHRKFAS--GPSS   80 (81)
T ss_dssp             SSCCBCTTTCCBCCSC-CEEETTEEECTTTCBCSSSCCBCT--TSCEECCTTCCCEEHHHHHHHTTS--SSCC
T ss_pred             cCCCccccCCCeecce-eEEECCccccHHhcCcccCCCccC--CCeeEECCCCEEECHHHHHHHhcC--cCCC
Confidence            3578999999999976 789999999999999999999997  3556665 7899999999999998  8864

>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=99.49  E-value=1.4e-14  Score=96.48  Aligned_cols=65  Identities=18%  Similarity=0.472  Sum_probs=53.5

Q ss_pred             cccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhhhhcccC
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFANIAY  183 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~  183 (204)
                      +|..|+++|... ..+.+.++.||++||+|..|+++| .+..|+..++++||+.||.++|.......
T Consensus         9 ~C~~C~~~I~~~-~~~~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~~~~yC~~cy~~~f~~~c~gc   73 (81)
T 1a7i_A            9 KCGACGRTVYHA-EEVQCDGRSFHRCCFLCMVCRKNL-DSTTVAIHDAEVYCKSCYGKKYGPKGYGY   73 (81)
T ss_dssp             BCSSSCCBCSST-TEEEETTEEEESSSEECSSSCCEE-CSSCCEEETTEEECSHHHHHHCC------
T ss_pred             cCcCcCccccCc-eeEEeCCcccccccCccCCCCCCC-CCCCeEeeCCEEECHHHHHHHhCCccccc
Confidence            899999999754 478999999999999999999999 56679999999999999999876554433

>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=99.48  E-value=1.7e-14  Score=103.63  Aligned_cols=59  Identities=27%  Similarity=0.600  Sum_probs=53.2

Q ss_pred             cccccCCccCCCceEEecCCcccccCccccccCCccccC-CCeEEEeCCeeecHHHHHHHh
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCV-GDRFYLCDNKILCEYDYEERQ  176 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~-~~~~~~~~~~~~C~~c~~~~~  176 (204)
                      +|.+|+++|.+ ..++.+.++.||++||+|..|+++|.. +..|+.++|++||+.||.++|
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            99999999986 347899999999999999999999952 578999999999999999875

>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=99.48  E-value=2.2e-14  Score=110.68  Aligned_cols=73  Identities=27%  Similarity=0.552  Sum_probs=66.3

Q ss_pred             CCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccccCCcc
Q psy7480          49 GGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVI  125 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C~~~I  125 (204)
                      .+.++|.+|+++|.+.+.+.++++.||++||+|..|+.+|..  ..|+.+++++||..||.++|++  +|.+|++++
T Consensus       113 ~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~--~~~~~~~g~~yC~~cy~~~f~~--kc~~C~~~~  185 (192)
T 1b8t_A          113 GGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLES--TTLADKDGEIYCKGCYAKNFGP--KGFGFGQGA  185 (192)
T ss_dssp             CCCEECTTTSCEECSSSCEEETTEEECTTTCBCTTTCCBCCS--SSEEEETTEEEEHHHHHHHTCC--CCCCCCCCC
T ss_pred             CCCCcCCCCCCEecCcEEEecCCCccchhcCCccccCCCCCC--CcccccCCEEeCHHHHHHhcCC--cCCCCCCcc
Confidence            346789999999997767889999999999999999999973  4689999999999999999998  999999986

>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=99.48  E-value=2.9e-14  Score=93.10  Aligned_cols=64  Identities=28%  Similarity=0.459  Sum_probs=56.6

Q ss_pred             CCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccC
Q psy7480          49 GGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT  114 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~  114 (204)
                      .+.++|.+|+++|.+. ++.++++.||++||+|..|+.+|.. +..|+..++++||..||.+++..
T Consensus         3 ~~~~~C~~C~~~I~~~-~v~a~~~~wH~~CF~C~~C~~~L~~-~~~f~~~~~~~yC~~C~~~~~~~   66 (73)
T 1wig_A            3 SGSSGCDSCEKYITGR-VLEAGEKHYHPSCALCVRCGQMFAE-GEEMYLQGSSIWHPACRQAARTE   66 (73)
T ss_dssp             CSCCSCSSSCCCCSSC-CBCCSSCCBCTTTSCCSSSCCCCCS-SCCCEEETTEEECTTHHHHTSSS
T ss_pred             cCcCCcccCCCEecCe-eEEeCCCCCCCCcCEeCCCCCCCCC-CCeeEeeCCEEEChHHChHhhcc
Confidence            4568999999999986 6889999999999999999999973 36789999999999999988764

>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=99.47  E-value=3.5e-14  Score=94.63  Aligned_cols=68  Identities=21%  Similarity=0.453  Sum_probs=59.6

Q ss_pred             CCCCccccccccccccc-eeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccCccccc
Q psy7480          48 SGGLKECASCGKRITER-FLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCA  119 (204)
Q Consensus        48 ~~~~~~C~~C~~~I~~~-~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~  119 (204)
                      ....++|.+|+++|... .++.++++.||++||+|..|+++|..  ..|+.+++++||..||.++|++  +|.
T Consensus        12 ~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~--~~~~~~~~~~yC~~cy~~~f~~--~~~   80 (82)
T 1x63_A           12 REDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGT--GSFFPKGEDFYCVTCHETKFAS--GPS   80 (82)
T ss_dssp             CCCSCBCSSSCCBCCSSSCEEECSSCEEETTTCCCSSSCCCCTT--SCEEEETTEEEEHHHHHHHTSC--CCS
T ss_pred             cccCCcCccCCcccccCceEEEECccccccccCchhhCCCccCC--CccEeeCCEEECHHHHHHHhCC--CCC
Confidence            34567999999999964 46899999999999999999999984  5689999999999999999998  664

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

Probab=99.46  E-value=7.7e-14  Score=100.47  Aligned_cols=66  Identities=23%  Similarity=0.540  Sum_probs=58.8

Q ss_pred             cccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhhhhcccCC
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFANIAYN  184 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~~  184 (204)
                      +|.+|+++|.+. .++.++|+.||++||+|..|+++| .+..|+..+|++||+.||.+++........
T Consensus         5 ~C~~C~~~I~~~-~~~~a~~~~~H~~CF~C~~C~~~L-~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~   70 (126)
T 2xqn_T            5 RCAGCDELIFSN-EYTQAENQNWHLKHFCCFDCDSIL-AGEIYVMVNDKPVCKPCYVKNHAVVCQGCH   70 (126)
T ss_dssp             BBTTTSSBCCSS-CEEEETTEEECGGGSBCTTTCCBC-TTSEEEEETTEEEEHHHHHHHSCCBCTTTC
T ss_pred             CCccCCCEeCCc-eEEeeCCCCccCCCCCcCCCCCCC-CcCEEEeECCEEechHHhCcCcCccCcccC
Confidence            999999999853 588999999999999999999999 677999999999999999998766665555

>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=99.46  E-value=4.2e-14  Score=100.22  Aligned_cols=67  Identities=24%  Similarity=0.497  Sum_probs=57.6

Q ss_pred             ccccccCCccCCCceEEecCCcccccCccccccCCccccC-CCeEEEeCCeeecHHHHHHHhhhhcccC
Q psy7480         116 GYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCV-GDRFYLCDNKILCEYDYEERQVFANIAY  183 (204)
Q Consensus       116 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~-~~~~~~~~~~~~C~~c~~~~~~~~~~~~  183 (204)
                      ++|.+|+++|.+ ..++.|.++.||++||+|..|+++|.. +..|+..+|++||+.||.++|.......
T Consensus         4 ~~C~~C~~~I~~-~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~~y~~~f~~~c~~c   71 (114)
T 1j2o_A            4 LTCGGCQQNIGD-RYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGGSGGHMG   71 (114)
T ss_dssp             BCBSSSCSCBCS-SEEEECSSSEECTTTCCCSSSCSCCCCSSSCCCCBTTBCCCHHHHHHHHTSCCSSC
T ss_pred             CCCcCCCCeeCC-cEEEEECchhHHHhcCcccccCCchhcCCCeeEEECCeeechHHHHHHhCcccCcC
Confidence            489999999986 348899999999999999999999943 4689999999999999999986654433

>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=99.44  E-value=5.4e-14  Score=95.68  Aligned_cols=62  Identities=23%  Similarity=0.589  Sum_probs=54.4

Q ss_pred             cccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhhhhc
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFAN  180 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~  180 (204)
                      +|..|+++|.+.+ .|.+.++.||++||+|..|+++| .+..|+..++.+||+.||.++|....
T Consensus        17 ~C~~C~~~I~~~~-~v~a~~~~~H~~CF~C~~C~~~L-~~~~~~~~~g~~yC~~~y~~~f~~kc   78 (91)
T 2d8y_A           17 TCVECQKTVYPME-RLLANQQVFHISCFRCSYCNNKL-SLGTYASLHGRIYCKPHFNQLFKSKG   78 (91)
T ss_dssp             BCTTTCCBCCTTS-EEECSSSEEETTTCBCTTTCCBC-CTTTCCCSSSCCCCHHHHHHHSCCCS
T ss_pred             cCccCCCccCCce-eEEECCCEECCCCCeeCCCCCCC-CCCCcEeECCEEECHHHHHHHhCCCc
Confidence            8999999998644 57899999999999999999999 55569999999999999999875544

>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=99.43  E-value=5.1e-14  Score=91.33  Aligned_cols=63  Identities=21%  Similarity=0.523  Sum_probs=55.4

Q ss_pred             CCCccccccccccccc-eeEeecCccccccCccccCCCcccCcCCCeEEeeCCeeccccccccccc
Q psy7480          49 GGLKECASCGKRITER-FLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG  113 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~-~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~  113 (204)
                      ...++|.+|+++|... .++.++++.||+.||+|..|+++|..  ..|+.++|++||..||.++|+
T Consensus         9 ~~~~~C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~~--~~~~~~~g~~yC~~~y~~lf~   72 (72)
T 3f6q_B            9 SASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPE--GLFYEFEGRKYCEHDFQMLFA   72 (72)
T ss_dssp             CTTCBCTTTCCBCCTTCEEEEETTEEEETTTSSCTTTCCCCGG--GCCEEETTEEECHHHHHHHTC
T ss_pred             cCCccchhcCccccCCceEEEeCcCeeCcCCCcccCCCCCCCC--CCeEeECCeEeCHHHHHHhhC
Confidence            4567899999999976 45789999999999999999999984  468899999999999998875

>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=99.42  E-value=7.5e-14  Score=100.08  Aligned_cols=67  Identities=25%  Similarity=0.458  Sum_probs=57.7

Q ss_pred             cccccCCccCCCceEEecCCcccccCccccccCCccccC-CCeEEEeCCeeecHHHHHHHhhh--hcccCC
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCV-GDRFYLCDNKILCEYDYEERQVF--ANIAYN  184 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~-~~~~~~~~~~~~C~~c~~~~~~~--~~~~~~  184 (204)
                      +|.+|+++|.+. .++.+.++.||++||+|..|+++|.. +..|+..+|++||+.||.++|..  ......
T Consensus         7 ~C~~C~~~I~~~-~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~cy~~~f~~~~~C~~C~   76 (122)
T 1m3v_A            7 RCAGCGGKIADR-FLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAGGSGG   76 (122)
T ss_dssp             CBSSSSSCCCSS-CCEEETTEEECHHHHCCSSSCCCTTTSEECCEEETTEEECHHHHHHHHCCCCSSSCSS
T ss_pred             CCcccCCEeCCc-EEEEECCceeHhhCCCcCCCCCcccccCCeEEEECCeeecHHHHHHHcCCCCccccCC
Confidence            999999999863 36889999999999999999999942 46799999999999999999876  555554

>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=99.41  E-value=9.6e-14  Score=92.30  Aligned_cols=68  Identities=15%  Similarity=0.342  Sum_probs=58.0

Q ss_pred             CCCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEE-eeCCeecccccccccccCccccc
Q psy7480          48 SGGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLY-QKANLILCKRDYLRLFGTTGYCA  119 (204)
Q Consensus        48 ~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~-~~~g~~~C~~cy~~~~~~~~~C~  119 (204)
                      ....++|.+|+++|.+. .+.++++.||++||+|..|++.|.. +..|. .+++++||..||.++|++  .|+
T Consensus        12 ~~~~~~C~~C~~~I~~~-~~~a~~~~~H~~CF~C~~C~~~L~~-g~~f~~~~~~~~~C~~c~~~~~~~--~~s   80 (81)
T 1x6a_A           12 GKFGEFCHGCSLLMTGP-FMVAGEFKYHPECFACMSCKVIIED-GDAYALVQHATLYCGKCHNEVVSG--PSS   80 (81)
T ss_dssp             CCSSCBCTTTCCBCCSC-CBCCTTCCBCTTSCBCTTTCCBCCT-TSCEEECSSSCEEEHHHHHHHHCT--TSC
T ss_pred             hhcCCcCccCCCCcCce-EEEECCceeccccCCccCCCCccCC-CCcEEEeeCCEEECHHHHHHHhcC--CCC
Confidence            44567899999999955 6889999999999999999999963 34566 589999999999999987  654

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

Probab=99.40  E-value=1.3e-13  Score=87.95  Aligned_cols=59  Identities=22%  Similarity=0.587  Sum_probs=52.4

Q ss_pred             Cccccccccccccc-eeEeecCcccc--ccCccccCCCcccCcCCCeEEeeCCeecc-ccccccc
Q psy7480          51 LKECASCGKRITER-FLLKALDLFWH--EDCLKCGCCDCRLGEVGSTLYQKANLILC-KRDYLRL  111 (204)
Q Consensus        51 ~~~C~~C~~~I~~~-~~~~~~~~~~H--~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C-~~cy~~~  111 (204)
                      .++|.+|+++|... ..+.++++.||  ++||+|..|+.+|.  +..|+.++|++|| .+||.++
T Consensus         2 a~~C~~C~~~I~~~~~~v~a~~~~wH~~~~CF~C~~C~~~L~--~~~f~~~~g~~yC~~~C~~k~   64 (65)
T 2iyb_E            2 AVVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLI--GQKFMPVEGMVFCSVECKKRM   64 (65)
T ss_dssp             CEECTTTSSEECTTSCEEEETTEEEETTTTTSBCTTTCCBCT--TSCCEEETTEEESSHHHHHTT
T ss_pred             cCCCcCCCCeeccCceEEEECCCccCCCCCCEECCCCCCcCC--CCceEEECCEEecCHHHhhhh
Confidence            56899999999963 57999999999  99999999999997  4679999999999 8888754

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

Probab=99.39  E-value=4.9e-13  Score=96.84  Aligned_cols=62  Identities=26%  Similarity=0.561  Sum_probs=55.1

Q ss_pred             ccccccCCccCCCceEEecCCcccccCccccccCCccccC-CCeEEEeCCeeecHHHHHHHhhh
Q psy7480         116 GYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCV-GDRFYLCDNKILCEYDYEERQVF  178 (204)
Q Consensus       116 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~-~~~~~~~~~~~~C~~c~~~~~~~  178 (204)
                      ++|.+|+++|.+ ..++.|.++.||++||+|..|+++|.. +..|+..+|++||+.||.+++..
T Consensus         3 ~~C~~C~~~I~~-~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~   65 (131)
T 2xjy_A            3 LTCGGCQQNIGD-RYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQ   65 (131)
T ss_dssp             CBBTTTCCBCCS-SEEEEETTEEEETTTCBCTTTCCBCSSTTCCEEEETTEEECHHHHHHHHCC
T ss_pred             ccCcCCCCEeCC-cEEEEECCCcccHHHcccCcCCCccccCCCeEEEECCEEeecCchhhhCCC
Confidence            389999999986 347899999999999999999999953 56899999999999999998765

>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=99.39  E-value=4.1e-14  Score=94.44  Aligned_cols=59  Identities=17%  Similarity=0.484  Sum_probs=50.4

Q ss_pred             ccccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEE--EeCCeeecHHHHHHHh
Q psy7480         116 GYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFY--LCDNKILCEYDYEERQ  176 (204)
Q Consensus       116 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~--~~~~~~~C~~c~~~~~  176 (204)
                      ++|.+|+++|... +.+.+.++.||++||+|..|+++| .+..|+  ..+|++||+.||.+++
T Consensus        16 ~~C~~C~~~I~~~-e~v~a~~~~wH~~CF~C~~C~~~L-~~~~~~~~~~~g~~yC~~~y~~~~   76 (82)
T 2co8_A           16 DLCALCGEHLYVL-ERLCVNGHFFHRSCFRCHTCEATL-WPGGYEQHPGDGHFYCLQHLPQTD   76 (82)
T ss_dssp             CBCSSSCCBCCTT-TBCCBTTBCCBTTTCBCSSSCCBC-CTTSEECCTTTCCCEETTTCCCCC
T ss_pred             CCCcccCCCcccc-eEEEECCCeeCCCcCEEcCCCCCc-CCCceeEeCcCCEEEChHHHHhhh
Confidence            4899999999754 356799999999999999999999 566677  4689999999998764

>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=99.38  E-value=1.9e-13  Score=89.96  Aligned_cols=60  Identities=22%  Similarity=0.455  Sum_probs=53.3

Q ss_pred             CCCcccccccccccc----ceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccc
Q psy7480          49 GGLKECASCGKRITE----RFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLR  110 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~----~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~  110 (204)
                      ...++|++|+++|.+    ..++.++++.||+.||+|..|+++|.  +..|+.+++++||..||.+
T Consensus        13 ~~~~~C~~C~~~I~~~g~~~~~~~a~~~~~H~~CF~C~~C~~~L~--~~~f~~~~~~~yC~~cy~~   76 (77)
T 2egq_A           13 FVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLA--NKRFVFHQEQVYCPDCAKK   76 (77)
T ss_dssp             CCCCCCSSSCCCCCCCSSCCCEEEETTEEEETTTCBCSSSCCBCT--TSCCCEETTEECCHHHHHH
T ss_pred             hhCccCcccCCcccCCCCCceeEEECcceeCcccCEehhcCCCCC--CCccEeECCEEEChHHhcc
Confidence            456889999999995    46799999999999999999999997  3568899999999999965

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

Probab=99.35  E-value=1.4e-12  Score=99.77  Aligned_cols=80  Identities=18%  Similarity=0.314  Sum_probs=62.7

Q ss_pred             Ceeccccccc---ccccCcccccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHh
Q psy7480         100 NLILCKRDYL---RLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  176 (204)
Q Consensus       100 g~~~C~~cy~---~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  176 (204)
                      +..+|...+.   ....+  +|.+|+++|.+ ..++.+.++.||++||+|..|+++| .+..| ..+|++||+.||.++|
T Consensus        44 ~~~~~~~~~~~~~~~~~~--~C~~C~~~I~~-~~~~~a~~~~wH~~CF~C~~C~~~L-~~~~f-~~~g~~yC~~~y~~~f  118 (182)
T 2jtn_A           44 DEGGSGGHMGSGGTPEIP--MCAGCDQHILD-RFILKALDRHWHSKCLKCSDCHVPL-AERCF-SRGESVYCKDDFFKRF  118 (182)
T ss_dssp             SSCSSSSSCCCCCCCSCC--BCBTSSSBCCC-SEEEEETTEEECSSTTSCTTTCCCC-SSCCE-EETTEEECHHHHHHTT
T ss_pred             cccccccccccCCCCCCC--cCccCCCCccC-ceeEEecCCeEccccCccCCCCCcc-CCCce-eECCEeeecCcccccc
Confidence            4456665554   22233  99999999986 3578899999999999999999999 45455 6899999999999997


Q ss_pred             hhhcccCC
Q psy7480         177 VFANIAYN  184 (204)
Q Consensus       177 ~~~~~~~~  184 (204)
                      ........
T Consensus       119 ~~kC~~C~  126 (182)
T 2jtn_A          119 GTKCAACQ  126 (182)
T ss_dssp             SCCCTTTC
T ss_pred             ccccccCC
Confidence            66665555

>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=99.32  E-value=1.5e-12  Score=99.99  Aligned_cols=61  Identities=26%  Similarity=0.545  Sum_probs=55.1

Q ss_pred             cccccCCccCCCceEEecCCcccccCccccccCCccccC-CCeEEEeCCeeecHHHHHHHhhh
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCV-GDRFYLCDNKILCEYDYEERQVF  178 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~-~~~~~~~~~~~~C~~c~~~~~~~  178 (204)
                      +|.+|+++|.+ ..++.|+++.||++||+|..|+++|.. +..|+..+|++||+.||.+++..
T Consensus         7 ~C~~C~~~I~~-~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~cy~~~~~~   68 (188)
T 1rut_X            7 RCAGCGGKIAD-RFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGN   68 (188)
T ss_dssp             BBTTTCCBCCC-SEEEEETTEEECGGGCBCTTTCCBHHHHCSEEEEETTEEECHHHHHHHHSC
T ss_pred             cCccCCCEeCC-ceeEEecCcEecccCcccCCCCcccccCCceEEEeCCcccccccccccccc
Confidence            89999999986 347899999999999999999999954 57899999999999999998765

>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=99.26  E-value=4.9e-12  Score=95.54  Aligned_cols=65  Identities=22%  Similarity=0.522  Sum_probs=55.8

Q ss_pred             cccccCCccCCCceEEecCCcccccCccccccCCccccCCCeEEEeCCeeecHHHHHHHhhhhcccCC
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFANIAYN  184 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~~  184 (204)
                      +|.+|+++|.+ ..++.|.|+.||++||+|..|+++| .+..| ..+|.+||+.||.++|........
T Consensus         8 ~C~~C~~~I~~-~~~~~a~~~~wH~~CF~C~~C~~~L-~~~~f-~~~g~~yC~~~y~~~f~~~C~~C~   72 (169)
T 2rgt_A            8 MCAGCDQHILD-RFILKALDRHWHSKCLKCSDCHVPL-AERCF-SRGESVYCKDDFFKRFGTKCAACQ   72 (169)
T ss_dssp             BBSSSSSBCCS-SSCEECSSCEECTTTSBCTTTCCBC-CSCCE-ESSSCEECHHHHHHHHSCBCTTTC
T ss_pred             ccccCCCccCC-cEEEEECCcEEccccCccCCCCCcC-CCCCc-ccCCeeeecccccccccccccccc
Confidence            89999999986 3467899999999999999999999 44444 789999999999999876666555

>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=99.21  E-value=1.1e-11  Score=82.33  Aligned_cols=64  Identities=22%  Similarity=0.424  Sum_probs=51.8

Q ss_pred             CCCccccccccccccceeEeecCccccccCccccCCCcccCcCCCeEEeeCCeecccccccccccC
Q psy7480          49 GGLKECASCGKRITERFLLKALDLFWHEDCLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT  114 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~  114 (204)
                      ...++|.+|+++|.+. ++.++++.||++||+|..|+++|.. +..+...++.+||..||.+.+..
T Consensus        13 ~~~~~C~~C~~~I~~~-~v~a~~~~wH~~CF~C~~C~~~L~~-~~~~~~~~~~~~C~~C~~~~~~~   76 (81)
T 1v6g_A           13 LYGTRCFSCDQFIEGE-VVSALGKTYHPDCFVCAVCRLPFPP-GDRVTFNGKECMCQKCSLPVSVS   76 (81)
T ss_dssp             SCCCBCTTTCCBCCSC-CEEETTEEECTTTSSCSSSCCCCCS-SSCEEEETTEEEEHHHHSCCSSC
T ss_pred             HhCCcCccccCEeccc-eEEECCceeCccCCccccCCCCCCC-CCEEEeCCCCEEChhhhcccCCC
Confidence            3457899999999965 7899999999999999999999974 23344444567999999877654

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

Probab=97.93  E-value=2.5e-06  Score=45.59  Aligned_cols=29  Identities=38%  Similarity=0.870  Sum_probs=26.5

Q ss_pred             CccccccccccccceeEeecCccccccCc
Q psy7480          51 LKECASCGKRITERFLLKALDLFWHEDCL   79 (204)
Q Consensus        51 ~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   79 (204)
                      .+.|..|++.|+..+.+.++|+.||..||
T Consensus         3 ~~~C~~C~k~Vy~~Ek~~~~g~~~Hk~CF   31 (31)
T 1zfo_A            3 NPNCARCGKIVYPTEKVNCLDKFWHKACF   31 (31)
T ss_dssp             CCBCSSSCSBCCGGGCCCSSSSCCCGGGC
T ss_pred             CCcCCccCCEEecceeEEECCeEecccCC
Confidence            46899999999998888899999999998

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

Probab=97.62  E-value=1.4e-05  Score=42.58  Aligned_cols=27  Identities=30%  Similarity=0.722  Sum_probs=23.8

Q ss_pred             cccccCCccCCCceEEecCCcccccCcc
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECF  144 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  144 (204)
                      +|..|++.+.+.+ .+.+.|+.||..||
T Consensus         5 ~C~~C~k~Vy~~E-k~~~~g~~~Hk~CF   31 (31)
T 1zfo_A            5 NCARCGKIVYPTE-KVNCLDKFWHKACF   31 (31)
T ss_dssp             BCSSSCSBCCGGG-CCCSSSSCCCGGGC
T ss_pred             cCCccCCEEecce-eEEECCeEecccCC
Confidence            8999999998764 55688999999998

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

Probab=90.05  E-value=0.21  Score=34.68  Aligned_cols=94  Identities=13%  Similarity=0.268  Sum_probs=57.3

Q ss_pred             ccccCCCcccCcC----CCeEEeeCCeecccccccccccCcccccccCCccCCCceEEecCCcccccCccccccCCcccc
Q psy7480          79 LKCGCCDCRLGEV----GSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECFACQQCNHRFC  154 (204)
Q Consensus        79 f~C~~C~~~L~~~----~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~  154 (204)
                      +.|..|...+.+.    .......-|..||..|..+.+.....|..|.+.+...+.. ..   ..-.+=+.|..|...+.
T Consensus         8 ~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~l~-~l---~i~~~~~~C~iC~~~~~   83 (133)
T 4ap4_A            8 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH-PI---YIGSGTVSCPICMDGYS   83 (133)
T ss_dssp             CBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTCEE-EC---BCSSSSCBCTTTCCBHH
T ss_pred             CCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCcccccc-cc---ccCCCCCCCCCCCCccc
Confidence            4566666555421    1124556788888888876544334899999998753322 11   12234566888887773


Q ss_pred             C----CCe-EEEeCCeeecHHHHHHHh
Q psy7480         155 V----GDR-FYLCDNKILCEYDYEERQ  176 (204)
Q Consensus       155 ~----~~~-~~~~~~~~~C~~c~~~~~  176 (204)
                      .    +.. ....=|..||..|..+-+
T Consensus        84 ~~~~~~~~~~~~~CgH~fc~~Ci~~~~  110 (133)
T 4ap4_A           84 EIVQNGRLIVSTECGHVFCSQCLRDSL  110 (133)
T ss_dssp             HHHHTTCCEEEETTSBEEEHHHHHHHH
T ss_pred             cccccCcceEeCCCCChhhHHHHHHHH
Confidence            2    111 333459999999988654

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

Probab=86.57  E-value=0.5  Score=29.63  Aligned_cols=47  Identities=4%  Similarity=0.117  Sum_probs=33.7

Q ss_pred             CccccCCCcccCcCCCeEEeeCCeecccccccccccC-cccccccCCccCC
Q psy7480          78 CLKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT-TGYCAACTKVIPA  127 (204)
Q Consensus        78 Cf~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~-~~~C~~C~~~I~~  127 (204)
                      -|.|..|...+.   ......-|..||..|..+.+.. ...|..|+..+..
T Consensus         8 ~~~C~IC~~~~~---~Pv~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~   55 (78)
T 1t1h_A            8 YFRCPISLELMK---DPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLH   55 (78)
T ss_dssp             SSSCTTTSCCCS---SEEEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSS
T ss_pred             cCCCCCcccccc---CCEEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCCh
Confidence            467888887775   4456678899999998765532 2378888888754

>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=85.31  E-value=0.63  Score=28.65  Aligned_cols=31  Identities=19%  Similarity=0.239  Sum_probs=19.1

Q ss_pred             EeeCCeecccccccccccCcccccccCCccC
Q psy7480          96 YQKANLILCKRDYLRLFGTTGYCAACTKVIP  126 (204)
Q Consensus        96 ~~~~g~~~C~~cy~~~~~~~~~C~~C~~~I~  126 (204)
                      ...-|+.||..|..+.+.....|..|...|.
T Consensus        30 ~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (71)
T 2d8t_A           30 SLPCKHVFCYLCVKGASWLGKRCALCRQEIP   60 (71)
T ss_dssp             EETTTEEEEHHHHHHCTTCSSBCSSSCCBCC
T ss_pred             EccCCCHHHHHHHHHHHHCCCcCcCcCchhC
Confidence            3345666777776554332237888888775

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

Probab=83.92  E-value=0.94  Score=28.30  Aligned_cols=28  Identities=14%  Similarity=0.357  Sum_probs=15.1

Q ss_pred             CeecccccccccccCcccccccCCccCC
Q psy7480         100 NLILCKRDYLRLFGTTGYCAACTKVIPA  127 (204)
Q Consensus       100 g~~~C~~cy~~~~~~~~~C~~C~~~I~~  127 (204)
                      +..||..|..+.+.....|..|...|..
T Consensus        37 ~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   64 (78)
T 2ect_A           37 NHLFHDSCIVPWLEQHDSCPVCRKSLTG   64 (78)
T ss_dssp             SCEEETTTTHHHHTTTCSCTTTCCCCCC
T ss_pred             CCeecHHHHHHHHHcCCcCcCcCCccCC
Confidence            3444555554333222268888877754

>4ayc_A E3 ubiquitin-protein ligase RNF8; DNA damage, K63 chains; HET: CPQ; 1.90A {Homo sapiens} PDB: 4epo_C

Probab=83.24  E-value=0.61  Score=32.96  Aligned_cols=45  Identities=18%  Similarity=0.270  Sum_probs=29.6

Q ss_pred             ccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccccCCccC
Q psy7480          79 LKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIP  126 (204)
Q Consensus        79 f~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C~~~I~  126 (204)
                      +.|..|...+.   ......-|+.||..|..+.+.....|..|..+|.
T Consensus        54 ~~C~iC~~~~~---~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   98 (138)
T 4ayc_A           54 LQCIICSEYFI---EAVTLNCAHSFCSYCINEWMKRKIECPICRKDIK   98 (138)
T ss_dssp             SBCTTTCSBCS---SEEEETTSCEEEHHHHHHHTTTCSBCTTTCCBCC
T ss_pred             CCCcccCcccC---CceECCCCCCccHHHHHHHHHcCCcCCCCCCcCC
Confidence            46777777765   3455677888888887654433236777777764

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

Probab=82.04  E-value=1.2  Score=25.64  Aligned_cols=27  Identities=11%  Similarity=0.196  Sum_probs=13.8

Q ss_pred             CCeecccccccccccCcccccccCCcc
Q psy7480          99 ANLILCKRDYLRLFGTTGYCAACTKVI  125 (204)
Q Consensus        99 ~g~~~C~~cy~~~~~~~~~C~~C~~~I  125 (204)
                      -|..||..|..+.+.....|..|...|
T Consensus        27 C~H~f~~~Ci~~w~~~~~~CP~Cr~~~   53 (55)
T 1iym_A           27 CGHGFHAECVDMWLGSHSTCPLCRLTV   53 (55)
T ss_dssp             SCCEECTTHHHHTTTTCCSCSSSCCCS
T ss_pred             CCCcccHHHHHHHHHcCCcCcCCCCEe
Confidence            344555555544332223677776655

>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=81.51  E-value=0.48  Score=30.03  Aligned_cols=45  Identities=20%  Similarity=0.423  Sum_probs=24.5

Q ss_pred             ccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccccCCccC
Q psy7480          79 LKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIP  126 (204)
Q Consensus        79 f~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C~~~I~  126 (204)
                      +.|..|...+.   ......-|+.||..|..+.+.....|..|...+.
T Consensus        16 ~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           16 FRCFICRQAFQ---NPVVTKCRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             SBCSSSCSBCC---SEEECTTSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCcCCCchhc---CeeEccCCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            34555554443   2334455666777776554432226777777764

>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=80.99  E-value=1  Score=27.65  Aligned_cols=46  Identities=13%  Similarity=0.205  Sum_probs=25.5

Q ss_pred             ccccCCCcccCcCCCeEEeeCCeeccccccccccc---CcccccccCCccCC
Q psy7480          79 LKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG---TTGYCAACTKVIPA  127 (204)
Q Consensus        79 f~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~---~~~~C~~C~~~I~~  127 (204)
                      +.|..|...+.   ......-|+.||..|..+.+.   ....|..|...|..
T Consensus        21 ~~C~IC~~~~~---~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~   69 (73)
T 2ysl_A           21 VICPICLDILQ---KPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRK   69 (73)
T ss_dssp             CBCTTTCSBCS---SEEECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCC
T ss_pred             CEeccCCcccC---CeEEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCc
Confidence            34444544443   223335566677777665442   12278888888754

>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=80.91  E-value=0.45  Score=28.84  Aligned_cols=46  Identities=22%  Similarity=0.427  Sum_probs=27.9

Q ss_pred             ccccCCCcccCcCCCeEEeeCCeecccccccccc-cCcccccccCCccCC
Q psy7480          79 LKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLF-GTTGYCAACTKVIPA  127 (204)
Q Consensus        79 f~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~-~~~~~C~~C~~~I~~  127 (204)
                      +.|..|...+..   .....-|..||..|..+.+ .....|..|...|..
T Consensus        16 ~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (66)
T 2ecy_A           16 YKCEKCHLVLCS---PKQTECGHRFCESCMAALLSSSSPKCTACQESIVK   62 (66)
T ss_dssp             EECTTTCCEESS---CCCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCT
T ss_pred             CCCCCCChHhcC---eeECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCCh
Confidence            455566555542   2234567778888877654 222379999888854

>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=80.09  E-value=0.69  Score=28.54  Aligned_cols=46  Identities=22%  Similarity=0.409  Sum_probs=27.4

Q ss_pred             ccccCCCcccCcCCCeEEe-eCCeecccccccccccCcccccccCCccCC
Q psy7480          79 LKCGCCDCRLGEVGSTLYQ-KANLILCKRDYLRLFGTTGYCAACTKVIPA  127 (204)
Q Consensus        79 f~C~~C~~~L~~~~~~~~~-~~g~~~C~~cy~~~~~~~~~C~~C~~~I~~  127 (204)
                      +.|..|...+.   ..... .-|+.||..|..+.+.....|..|.+.|..
T Consensus        16 ~~C~IC~~~~~---~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   62 (72)
T 2djb_A           16 ILCSICKGYLI---DATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQ   62 (72)
T ss_dssp             GSCTTTSSCCS---SCEECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCS
T ss_pred             CCCCCCChHHH---CcCEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCc
Confidence            45555655554   22333 566777877776544322378888888854

---

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	204
d1rutx2	34	g.39.1.3 (X:49-82) LIM only 4 (Lmo4) {Mouse (Mus m	1e-13
d1j2oa2	33	g.39.1.3 (A:31-63) Rhombotin-2 (Lmo2) {Mouse (Mus	2e-13
d1rutx3	31	g.39.1.3 (X:83-113) LIM only 4 (Lmo4) {Mouse (Mus	1e-11
d1j2oa1	30	g.39.1.3 (A:1-30) Rhombotin-2 (Lmo2) {Mouse (Mus m	1e-09
d1rutx1	30	g.39.1.3 (X:19-48) LIM only 4 (Lmo4) {Mouse (Mus m	3e-09
d1x3ha1	35	g.39.1.3 (A:8-42) Leupaxin {Human (Homo sapiens) [	5e-04
d2dara2	45	g.39.1.3 (A:8-52) PDZ and LIM domain protein 5, En	0.002

>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 = 60.2 bits (146), Expect = 1e-13
 Identities = 17/34 (50%), Positives = 26/34 (76%)

Query: 80  KCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG 113
           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 = 59.9 bits (145), Expect = 2e-13
 Identities = 21/33 (63%), Positives = 22/33 (66%)

Query: 79  LKCGCCDCRLGEVGSTLYQKANLILCKRDYLRL 111
           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 = 54.7 bits (132), Expect = 1e-11
 Identities = 19/30 (63%), Positives = 25/30 (83%)

Query: 115 TGYCAACTKVIPAFEMVMRAKNNVYHLECF 144
           +G C+AC + IPA E+VMRA+ NVYHL+CF
Sbjct: 2   SGACSACGQSIPASELVMRAQGNVYHLKCF 31

>d1j2oa1 g.39.1.3 (A:1-30) Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 10090]} Length = 30

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 = 49.8 bits (119), Expect = 1e-09
 Identities = 15/30 (50%), Positives = 20/30 (66%)

Query: 49 GGLKECASCGKRITERFLLKALDLFWHEDC 78
          G L  C  C + I +R+ LKA+D +WHEDC
Sbjct: 1  GSLLTCGGCQQNIGDRYFLKAIDQYWHEDC 30

>d1rutx1 g.39.1.3 (X:19-48) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]} Length = 30

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 = 48.6 bits (116), Expect = 3e-09
 Identities = 16/28 (57%), Positives = 20/28 (71%)

Query: 52 KECASCGKRITERFLLKALDLFWHEDCL 79
          K CA CG +I +RFLL A+D +WH  CL
Sbjct: 3  KRCAGCGGKIADRFLLYAMDSYWHSRCL 30

>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 = 34.2 bits (79), Expect = 5e-04
 Identities = 12/39 (30%), Positives = 20/39 (51%), Gaps = 4/39 (10%)

Query: 106 RDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECF 144
           +D+L +F     C  C + +   E  + A + V+H ECF
Sbjct: 1   KDFLAMFSPK--CGGCNRPVL--ENYLSAMDTVWHPECF 35

>d2dara2 g.39.1.3 (A:8-52) PDZ and LIM domain protein 5, Enigma {Human (Homo sapiens) [TaxId: 9606]} Length = 45

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]

 Score = 32.8 bits (75), Expect = 0.002
 Identities = 14/45 (31%), Positives = 19/45 (42%), Gaps = 1/45 (2%)

Query: 34 DASSVTQGALAGGASGGLKECASCGKRITERFLLKALDLFWHEDC 78
          D  ++ Q A    A      CA C + I   FL+ AL   WH + 
Sbjct: 1  DQDTLVQRAEHIPAGKRTPMCAHCNQVIRGPFLV-ALGKSWHPEE 44

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	204
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	99.21
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	98.88
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	98.86
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.76
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.72
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	98.65
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	98.64
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.63
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.59
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	98.52
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	98.52
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	98.51
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	98.46
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	98.38
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	98.37
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	98.36
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.36
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	98.34
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	98.25
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	98.24
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	98.23
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.19
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	98.19
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	98.19
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.16
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.16
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.16
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.07
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	98.06
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	98.05
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.01
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	98.01
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	98.0
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.99
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	97.98
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.97
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	97.95
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	97.94
d2co8a2	36	Nedd9 interacting protein with calponin homology,	97.94
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	97.94
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.93
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.93
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.93
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.93
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	97.9
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	97.9
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	97.85
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.84
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	97.83
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	97.83
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	97.79
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	97.79
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	97.76
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	97.74
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	97.73
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	97.72
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.7
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	97.69
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.67
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	97.66
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	97.66
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	97.65
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	97.65
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.61
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	97.6
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.58
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.57
d2co8a2	36	Nedd9 interacting protein with calponin homology,	97.56
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.53
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	97.51
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	97.51
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	97.5
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.48
d1rutx2	34	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.48
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.47
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.47
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.46
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.44
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	97.43
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.41
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.37
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.36
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.34
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.33
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.31
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.27
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	97.26
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	97.19
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	97.09
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.07
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.02
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	97.02
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.01
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	96.99
d1x61a1	27	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.95
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	96.94
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	96.86
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	96.84
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	96.82
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.79
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	96.7
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.56
d1x61a1	27	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.48
d2cora1	31	Pinch (particularly interesting new Cys-His) prote	96.47
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	96.26
d1rutx4	33	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	96.04
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	95.98
d1rutx2	34	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	95.91
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	95.79
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	95.72
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	95.71
d1j2oa2	33	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	95.61
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	95.47
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	95.38
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	95.05
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	94.4
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	94.19
d2cora1	31	Pinch (particularly interesting new Cys-His) prote	94.06
d1v6ga2	40	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	93.96
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	93.83
d1x68a2	34	Four and a half LIM domains protein 5, FHL-5 {Huma	93.77
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	93.64
d1rutx4	33	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	93.52
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	93.5
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	93.29
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	93.14
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	93.03
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	90.33
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	89.19
d2co8a1	33	Nedd9 interacting protein with calponin homology,	86.64
d1x4la2	30	Four and a half LIM domains protein 2, FHL2 {Human	86.33
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	86.11
d1x68a2	34	Four and a half LIM domains protein 5, FHL-5 {Huma	85.99
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	85.42
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	82.19

>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=99.21  E-value=1.9e-12  Score=70.07  Aligned_cols=35  Identities=31%  Similarity=0.824  Sum_probs=32.7

Q ss_pred             ccccccccCcccccccCCccCCCceEEecCCcccccCcc
Q psy7480         106 RDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECF  144 (204)
Q Consensus       106 ~cy~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  144 (204)
                      .||.++|++  +|.+|+++|.+  .+|+|+|+.||++||
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            479999999  99999999976  799999999999998

>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=98.88  E-value=3.4e-10  Score=59.67  Aligned_cols=35  Identities=31%  Similarity=0.722  Sum_probs=30.5

Q ss_pred             cccccccccCcccccccCCccCCCceEEecCCcccccCcc
Q psy7480         105 KRDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECF  144 (204)
Q Consensus       105 ~~cy~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  144 (204)
                      +.||.....   +|..|+++|.  |++++|.|+.||+.||
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            467877665   8999999995  5999999999999998

>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=98.86  E-value=7e-10  Score=59.94  Aligned_cols=37  Identities=30%  Similarity=0.467  Sum_probs=34.9

Q ss_pred             ccccccccCcccccccCCccCCCceEEecCCcccccCcc
Q psy7480         106 RDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECF  144 (204)
Q Consensus       106 ~cy~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  144 (204)
                      .||.+.|++  +|.+|.++|.+++..|.+.|+.||..||
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            489999998  9999999999888999999999999998

>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=98.76  E-value=2.7e-09  Score=59.52  Aligned_cols=42  Identities=29%  Similarity=0.390  Sum_probs=33.8

Q ss_pred             CCCcCCCCCCCCCCCccccccccccccceeEeecCccccccCc
Q psy7480          37 SVTQGALAGGASGGLKECASCGKRITERFLLKALDLFWHEDCL   79 (204)
Q Consensus        37 ~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   79 (204)
                      +..+.+...+.....++|+.|+++|.+. .+.++|+.||++||
T Consensus         4 ~~~q~a~~~p~~~r~P~C~~C~~pI~g~-~vtAlgk~WHPEhF   45 (45)
T d2dara2           4 TLVQRAEHIPAGKRTPMCAHCNQVIRGP-FLVALGKSWHPEEF   45 (45)
T ss_dssp             CSCBCCEEECTTTCCCBBSSSCCBCCSC-EEEETTEEECTTTC
T ss_pred             hhhhhccccCCCCCCeeccccCCcccCc-eeeecCCccCcCCC
Confidence            3444444445566789999999999998 69999999999998

>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=98.72  E-value=2.7e-09  Score=55.87  Aligned_cols=35  Identities=26%  Similarity=0.556  Sum_probs=31.8

Q ss_pred             ccccccccCcccccccCCccCCCceEEecCCcccccCcc
Q psy7480         106 RDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLECF  144 (204)
Q Consensus       106 ~cy~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  144 (204)
                      .||++.|++  +|..|+++|..  .-|+..++.||.+||
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            489999998  99999999976  567999999999998

>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=98.65  E-value=5.3e-09  Score=57.21  Aligned_cols=34  Identities=41%  Similarity=0.854  Sum_probs=31.9

Q ss_pred             ccccccccCcccccccCCccCCCceEEecCCcccccCc
Q psy7480         106 RDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLEC  143 (204)
Q Consensus       106 ~cy~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~C  143 (204)
                      .||+++|+.  +|..|++.|.+  .+|.|.++.||++|
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  99999999977  89999999999998

>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=98.64  E-value=4.9e-09  Score=56.19  Aligned_cols=33  Identities=30%  Similarity=0.678  Sum_probs=30.2

Q ss_pred             cccccCCccccCCCeEEEeCCeeecHHHHHHHhh
Q psy7480         144 FACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV  177 (204)
Q Consensus       144 f~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~  177 (204)
                      |+|+.|+++| .+..|++.+|++||+.||.++|+
T Consensus         1 F~C~~C~~~f-~~~~F~e~~G~pYCe~~Y~~lFA   33 (35)
T d1g47a2           1 FVCAQCFQQF-PEGLFYEFEGRKYCEHDFQMLFA   33 (35)
T ss_dssp             CCCTTTCCCC-GGGCSEEETTEEECHHHHHHHCC
T ss_pred             CCCCCCcCCC-CCCCeEEECCEecChHhHHhhcC
Confidence            7899999999 67789999999999999999853

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

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

Probab=98.63  E-value=7.4e-09  Score=55.57  Aligned_cols=31  Identities=29%  Similarity=0.768  Sum_probs=28.2

Q ss_pred             CCCCccccccccccccceeEeecCccccccCc
Q psy7480          48 SGGLKECASCGKRITERFLLKALDLFWHEDCL   79 (204)
Q Consensus        48 ~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   79 (204)
                      ....++|.+|+++|.+. ++.|+|+.||++||
T Consensus         5 ~~fapkC~~C~~~I~g~-~v~Al~~~wHpeCF   35 (35)
T d1x3ha1           5 AMFSPKCGGCNRPVLEN-YLSAMDTVWHPECF   35 (35)
T ss_dssp             CCCSCBCTTTCCBCCSS-CEEETTEEECTTTC
T ss_pred             HHhChhhhhcCCcccch-heeecCCccCcccC
Confidence            45678999999999988 79999999999998

>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=98.59  E-value=1e-08  Score=57.13  Aligned_cols=26  Identities=35%  Similarity=0.613  Sum_probs=24.9

Q ss_pred             cccccCCccCCCceEEecCCcccccCcc
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECF  144 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  144 (204)
                      .|..|+++|.+  .+++|+|+.||++||
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            89999999977  899999999999998

>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=98.52  E-value=1.7e-08  Score=51.70  Aligned_cols=29  Identities=66%  Similarity=1.255  Sum_probs=27.6

Q ss_pred             ccccccCCccCCCceEEecCCcccccCcc
Q psy7480         116 GYCAACTKVIPAFEMVMRAKNNVYHLECF  144 (204)
Q Consensus       116 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  144 (204)
                      +.|++|++.|.+.|.+++|.+..||.+||
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            37999999999999999999999999998

>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=98.52  E-value=8.8e-09  Score=55.19  Aligned_cols=34  Identities=24%  Similarity=0.538  Sum_probs=31.3

Q ss_pred             ccccCCCcccCcCCCeEEeeCCeecccccccccccC
Q psy7480          79 LKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT  114 (204)
Q Consensus        79 f~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~  114 (204)
                      |+|..|+++|..  ..|++++|++||+.||+++|+|
T Consensus         1 F~C~~C~~~f~~--~~F~e~~G~pYCe~~Y~~lFAP   34 (35)
T d1g47a2           1 FVCAQCFQQFPE--GLFYEFEGRKYCEHDFQMLFAP   34 (35)
T ss_dssp             CCCTTTCCCCGG--GCSEEETTEEECHHHHHHHCCC
T ss_pred             CCCCCCcCCCCC--CCeEEECCEecChHhHHhhcCC
Confidence            789999999984  5699999999999999999986

>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=98.51  E-value=2.5e-08  Score=52.39  Aligned_cols=31  Identities=32%  Similarity=0.821  Sum_probs=28.4

Q ss_pred             CCCCccccccccccccceeEeecCccccccCc
Q psy7480          48 SGGLKECASCGKRITERFLLKALDLFWHEDCL   79 (204)
Q Consensus        48 ~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   79 (204)
                      +..+.+|..|+++|.+. ++.|+|+.||+.||
T Consensus         5 ~~tlEkC~~C~~~I~dr-iLrA~Gk~yHP~CF   35 (35)
T d2dloa1           5 VATLEKCATCSQPILDR-ILRAMGKAYHPGCF   35 (35)
T ss_dssp             CSSCCBCTTTCCBCCSC-CEEETTEEECTTTC
T ss_pred             HHHHHHHHHhchHHHHH-HHHHhCCCCCCCCC
Confidence            45678999999999999 79999999999998

>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=98.46  E-value=4.8e-08  Score=50.24  Aligned_cols=31  Identities=23%  Similarity=0.517  Sum_probs=28.7

Q ss_pred             ccccCCccccCCCeEEEeCCeeecHHHHHHHh
Q psy7480         145 ACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  176 (204)
Q Consensus       145 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  176 (204)
                      .|..|.++| .|++|..+|++|||..||..+|
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            488999999 8999999999999999999875

>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=98.36  E-value=5.7e-08  Score=49.36  Aligned_cols=29  Identities=28%  Similarity=0.493  Sum_probs=25.0

Q ss_pred             cccCcccccccCCccCCCceEEecCCcccccCc
Q psy7480         111 LFGTTGYCAACTKVIPAFEMVMRAKNNVYHLEC  143 (204)
Q Consensus       111 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~C  143 (204)
                      ++.+  +|+.|.+||.+  .+++|+|+.||+++
T Consensus         3 mg~p--~C~~C~~PI~~--~~vtAlgk~WHpEH   31 (31)
T d1u5sb1           3 MGVP--ICGACRRPIEG--RVVNAMGKQWHVEH   31 (31)
T ss_dssp             CCCC--EETTTTEECCS--CEECCTTSBEETTT
T ss_pred             cCCc--chhhcCCchhh--hHhhhhccccCCCC
Confidence            3445  99999999976  89999999999974

>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=98.36  E-value=1.6e-07  Score=47.57  Aligned_cols=31  Identities=23%  Similarity=0.477  Sum_probs=28.8

Q ss_pred             ccccCCccccCCCeEEEeCCeeecHHHHHHHh
Q psy7480         145 ACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  176 (204)
Q Consensus       145 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  176 (204)
                      .|+.|+++| .|++|..+|..|||.+||-.+|
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            489999999 8999999999999999998875

>d1x6aa1 g.39.1.3 (A:8-41) Lim domain kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Lim domain kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.34  E-value=8.7e-08  Score=49.34  Aligned_cols=34  Identities=35%  Similarity=0.794  Sum_probs=31.2

Q ss_pred             ccccccccCcccccccCCccCCCceEEecCCcccccCc
Q psy7480         106 RDYLRLFGTTGYCAACTKVIPAFEMVMRAKNNVYHLEC  143 (204)
Q Consensus       106 ~cy~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~C  143 (204)
                      .+|..+|+.  .|..|...|+|  .+|.|.+.+||++|
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  99999999977  89999999999998

>d1rutx1 g.39.1.3 (X:19-48) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.25  E-value=1.9e-07  Score=47.43  Aligned_cols=28  Identities=57%  Similarity=1.319  Sum_probs=26.2

Q ss_pred             ccccccccccccceeEeecCccccccCc
Q psy7480          52 KECASCGKRITERFLLKALDLFWHEDCL   79 (204)
Q Consensus        52 ~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   79 (204)
                      ..|++|+++|.+++++.++++.||..|+
T Consensus         3 ~~CaGC~~~I~DRflL~v~dr~WH~~CL   30 (30)
T d1rutx1           3 KRCAGCGGKIADRFLLYAMDSYWHSRCL   30 (30)
T ss_dssp             CBBTTTCCBCCCSEEEEETTEEECGGGC
T ss_pred             cccCCCCCccchhhhhccchhhhhhhhC
Confidence            5799999999999999999999999885

>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=98.24  E-value=3.3e-07  Score=45.38  Aligned_cols=30  Identities=20%  Similarity=0.546  Sum_probs=27.6

Q ss_pred             cccccCCccccCCCeEEEeCCeeecHHHHHH
Q psy7480         144 FACQQCNHRFCVGDRFYLCDNKILCEYDYEE  174 (204)
Q Consensus       144 f~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~  174 (204)
                      |+|..|++.| ++......+|.+||+.||.+
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 78888999999999999965

>d1j2oa1 g.39.1.3 (A:1-30) Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Rhombotin-2 (Lmo2)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.23  E-value=3.3e-07  Score=46.33  Aligned_cols=28  Identities=50%  Similarity=1.242  Sum_probs=25.9

Q ss_pred             CccccccccccccceeEeecCccccccC
Q psy7480          51 LKECASCGKRITERFLLKALDLFWHEDC   78 (204)
Q Consensus        51 ~~~C~~C~~~I~~~~~~~~~~~~~H~~C   78 (204)
                      ...|++|+++|.+++.+.++++.||..|
T Consensus         3 ~~~CaGC~~~I~DRflL~a~Dr~WH~~C   30 (30)
T d1j2oa1           3 LLTCGGCQQNIGDRYFLKAIDQYWHEDC   30 (30)
T ss_dssp             CBCBSSSCSCBCSSEEEECSSSEECTTT
T ss_pred             CcccCCCCCcchHHHHHHHHHHHHhcCC
Confidence            4579999999999999999999999887

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

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

Probab=98.19  E-value=5.6e-07  Score=50.21  Aligned_cols=32  Identities=25%  Similarity=0.673  Sum_probs=28.9

Q ss_pred             CCCCccccccccccccceeEeecCccccccCc
Q psy7480          48 SGGLKECASCGKRITERFLLKALDLFWHEDCL   79 (204)
Q Consensus        48 ~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   79 (204)
                      ..+.+.|..|++.|+..+.+.+.|+.||..||
T Consensus        12 ~g~~~kC~~C~k~VY~~E~~~~~g~~~Hk~CF   43 (43)
T d1b8ta3          12 VGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCF   43 (43)
T ss_dssp             CCCCEECTTTSCEECSSSCEEETTEEECTTTC
T ss_pred             cCCCCcCccCCCEeeHHHHhhcCCCccccCCC
Confidence            34568999999999999889999999999998

>d1u5sb2 g.39.1.3 (B:103-137) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=98.19  E-value=6.7e-07  Score=45.85  Aligned_cols=33  Identities=30%  Similarity=0.698  Sum_probs=30.7

Q ss_pred             cccccCCccccCCCeEEEeCCeeecHHHHHHHhh
Q psy7480         144 FACQQCNHRFCVGDRFYLCDNKILCEYDYEERQV  177 (204)
Q Consensus       144 f~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~  177 (204)
                      |.|+.|.+++ .|.+.+++.|..||+.+|.++|.
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 89999999999999999999863

>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=98.19  E-value=2.4e-07  Score=46.97  Aligned_cols=29  Identities=28%  Similarity=0.684  Sum_probs=25.8

Q ss_pred             CCCccccccccccccceeEeecCccccccC
Q psy7480          49 GGLKECASCGKRITERFLLKALDLFWHEDC   78 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~C   78 (204)
                      .+.++|+.|++||.+. ++.++|+.||+++
T Consensus         3 mg~p~C~~C~~PI~~~-~vtAlgk~WHpEH   31 (31)
T d1u5sb1           3 MGVPICGACRRPIEGR-VVNAMGKQWHVEH   31 (31)
T ss_dssp             CCCCEETTTTEECCSC-EECCTTSBEETTT
T ss_pred             cCCcchhhcCCchhhh-HhhhhccccCCCC
Confidence            3578999999999997 8999999999874

>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=98.16  E-value=3.8e-07  Score=46.08  Aligned_cols=31  Identities=32%  Similarity=0.672  Sum_probs=27.8

Q ss_pred             cccCCCcccCcCCCeEEeeCCeeccccccccccc
Q psy7480          80 KCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG  113 (204)
Q Consensus        80 ~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~  113 (204)
                      +|..|++.|.   ..|..+||.|||+.||+..|+
T Consensus         1 kC~~C~~vL~---gEYm~kdG~PyCe~DY~~~FG   31 (31)
T d2dj7a1           1 KCQTCSVILT---GEYISKDGVPYCESDYHAQFG   31 (31)
T ss_dssp             BCSSSCCBCS---SCCEEETTEEECTTHHHHHTT
T ss_pred             CccccCcccc---ceeecCCCCcccHHHHHHhcC
Confidence            5889999997   569999999999999998875

>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=98.16  E-value=4.5e-07  Score=51.63  Aligned_cols=40  Identities=30%  Similarity=0.495  Sum_probs=34.5

Q ss_pred             cccCCCcccCcCCCeEEeeCCeecccccccccccCcccccccCC
Q psy7480          80 KCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTK  123 (204)
Q Consensus        80 ~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C~~  123 (204)
                      +|..|++.|++  ....++|+++||+.||.++|+|  +..+.+.
T Consensus         1 KC~~C~k~Lds--~t~~ehdg~~YCk~CY~k~fGP--KG~g~G~   40 (49)
T d1b8ta4           1 RCAKCGKSLES--TTLADKDGEIYCKGCYAKNFGP--KGFGFGQ   40 (49)
T ss_dssp             BCTTTCCBCCS--SSEEEETTEEEEHHHHHHHTCC--CCCCCCC
T ss_pred             ChhhcCCccCC--CcccccCCcccchhhhhhccCC--CccCccc
Confidence            58899999984  4688999999999999999999  7776653

>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=98.16  E-value=6.6e-07  Score=46.12  Aligned_cols=30  Identities=30%  Similarity=0.755  Sum_probs=27.4

Q ss_pred             ccccCCccccCCCeEEEeCCeeecHHHHHHH
Q psy7480         145 ACQQCNHRFCVGDRFYLCDNKILCEYDYEER  175 (204)
Q Consensus       145 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~  175 (204)
                      +|..|.+++ .+..|++.+|+|||..||.++
T Consensus         1 VC~~C~~PF-~~~~Fy~~~g~PyCe~HyH~~   30 (32)
T d1x3ha2           1 VCGDCFTSF-STGSFFELDGRPFCELHYHHR   30 (32)
T ss_dssp             BCSSSCCBS-CSSCCEESSSCEECHHHHHHH
T ss_pred             CcCccCCcC-CCCCeEeECCccchHHhhhhh
Confidence            589999999 778999999999999999876

>d2dj7a2 g.39.1.3 (A:8-43) Actin-binding LIM protein 3, abLIM-3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 3, abLIM-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.07  E-value=1.3e-06  Score=45.28  Aligned_cols=32  Identities=38%  Similarity=0.705  Sum_probs=28.6

Q ss_pred             CCCCccccccccccccceeEeecCccccccCc
Q psy7480          48 SGGLKECASCGKRITERFLLKALDLFWHEDCL   79 (204)
Q Consensus        48 ~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   79 (204)
                      ..+...|++|++.|.....+.++++.||..||
T Consensus         5 ~~g~~~CagCg~eik~gQaL~ALdkqWH~~CF   36 (36)
T d2dj7a2           5 IRGPSHCAGCKEEIKHGQSLLALDKQWHVSCF   36 (36)
T ss_dssp             CSSCSCCTTTCCCCSSSCCEEETTEEECTTTC
T ss_pred             ccCCccccccchhhhCCceeeeeecceeeeeC
Confidence            34567899999999999889999999999998

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

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

Probab=98.06  E-value=5.3e-07  Score=44.86  Aligned_cols=29  Identities=38%  Similarity=0.870  Sum_probs=26.6

Q ss_pred             CccccccccccccceeEeecCccccccCc
Q psy7480          51 LKECASCGKRITERFLLKALDLFWHEDCL   79 (204)
Q Consensus        51 ~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   79 (204)
                      .+.|++|++.++..+.+.-+++.||+.||
T Consensus         2 n~~CaRC~k~VYp~Ekl~ClDk~WHK~CF   30 (30)
T d1zfoa_           2 NPNCARCGKIVYPTEKVNCLDKFWHKACF   30 (30)
T ss_dssp             CCBCSSSCSBCCGGGCCCSSSSCCCGGGC
T ss_pred             CCcccccCCccccHHHhhhhHHHHhhccC
Confidence            36799999999999889999999999998

>d1x4la1 g.39.1.3 (A:8-36) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.05  E-value=8.1e-07  Score=43.92  Aligned_cols=27  Identities=30%  Similarity=0.752  Sum_probs=23.9

Q ss_pred             ccccCCccCCC--ceEEecCCcccccCcc
Q psy7480         118 CAACTKVIPAF--EMVMRAKNNVYHLECF  144 (204)
Q Consensus       118 C~~C~~~I~~~--~~~~~~~~~~~H~~Cf  144 (204)
                      |+.|.+||++.  ..+|++.++.||.+||
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            78999999763  4689999999999998

>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=98.01  E-value=2.8e-06  Score=43.09  Aligned_cols=31  Identities=19%  Similarity=0.380  Sum_probs=28.0

Q ss_pred             ccccCCccccCCCeEEEeCCeeecHHHHHHHh
Q psy7480         145 ACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  176 (204)
Q Consensus       145 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  176 (204)
                      .|..|.++| ....|...++..||..||+++|
T Consensus         1 ~C~~C~qPI-GtkSFip~~~~~yCvpCYE~kf   31 (32)
T d1wyha1           1 LCSGCEQPL-GSRSFVPDKGAHYCVPCYENKF   31 (32)
T ss_dssp             BCTTTCCBT-TTSCEEEETTEEEEHHHHHHHT
T ss_pred             CcccccCcc-cccccccCCCcEEEEecccccc
Confidence            388999999 6778999999999999999986

>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=98.01  E-value=2.6e-06  Score=43.29  Aligned_cols=31  Identities=26%  Similarity=0.558  Sum_probs=28.0

Q ss_pred             ccccCCccccCCCeEEEeCCeeecHHHHHHHh
Q psy7480         145 ACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  176 (204)
Q Consensus       145 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  176 (204)
                      .|..|..+| ....|..+++..||..||+++|
T Consensus         1 ~C~~C~qPI-Gtksfipk~~~~yCvpCyE~kf   31 (32)
T d1x4ka1           1 ICHRCQQPI-GTKSFIPKDNQNFCVPCYEKQH   31 (32)
T ss_dssp             CCSSSCCCC-CSSSEEEETTEEEEHHHHHHHT
T ss_pred             CcccccCcc-cccccccCCCCceEeecchhhc
Confidence            388999999 6778999999999999999986

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

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

Probab=98.00  E-value=1.3e-06  Score=44.10  Aligned_cols=29  Identities=28%  Similarity=0.578  Sum_probs=26.5

Q ss_pred             CccccccccccccceeEeecCccccccCc
Q psy7480          51 LKECASCGKRITERFLLKALDLFWHEDCL   79 (204)
Q Consensus        51 ~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   79 (204)
                      .+.|++|+++++..+.+..+|+.||..|+
T Consensus         2 ~~~CprC~K~VYfaEk~~~lgk~WHk~Cl   30 (30)
T d2cu8a1           2 ASKCPKCDKTVYFAEKVSSLGKDWHKFCL   30 (30)
T ss_dssp             CCBCTTTCCBCCTTTEEEETTEEEETTTC
T ss_pred             CCcCCCCCCceeeHHhhccCCcccccccC
Confidence            46899999999999889999999999985

>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=97.99  E-value=2.8e-06  Score=48.29  Aligned_cols=38  Identities=16%  Similarity=0.350  Sum_probs=31.3

Q ss_pred             ccccCCccccCCCeEEEeCCeeecHHHHHHHhhhhcccC
Q psy7480         145 ACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFANIAY  183 (204)
Q Consensus       145 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~  183 (204)
                      +|..|++.| +.....++|++|||+.||-++|....+.+
T Consensus         1 KC~~C~k~L-ds~t~~ehdg~~YCk~CY~k~fGPKG~g~   38 (49)
T d1b8ta4           1 RCAKCGKSL-ESTTLADKDGEIYCKGCYAKNFGPKGFGF   38 (49)
T ss_dssp             BCTTTCCBC-CSSSEEEETTEEEEHHHHHHHTCCCCCCC
T ss_pred             ChhhcCCcc-CCCcccccCCcccchhhhhhccCCCccCc
Confidence            589999999 55678889999999999999976554443

>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=97.97  E-value=1.9e-06  Score=43.46  Aligned_cols=30  Identities=27%  Similarity=0.552  Sum_probs=26.5

Q ss_pred             ccccCCccccCCCeEEEeCCeeecHHHHHHHh
Q psy7480         145 ACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  176 (204)
Q Consensus       145 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  176 (204)
                      +|..|++.| . .+|..+||.|||+.+|..+|
T Consensus         1 kC~~C~~vL-~-gEYm~kdG~PyCe~DY~~~F   30 (31)
T d2dj7a1           1 KCQTCSVIL-T-GEYISKDGVPYCESDYHAQF   30 (31)
T ss_dssp             BCSSSCCBC-S-SCCEEETTEEECTTHHHHHT
T ss_pred             CccccCccc-c-ceeecCCCCcccHHHHHHhc
Confidence            589999999 4 47999999999999999876

>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=97.95  E-value=1.9e-06  Score=42.46  Aligned_cols=27  Identities=33%  Similarity=0.805  Sum_probs=23.9

Q ss_pred             ccccCCccCCC--ceEEecCCcccccCcc
Q psy7480         118 CAACTKVIPAF--EMVMRAKNNVYHLECF  144 (204)
Q Consensus       118 C~~C~~~I~~~--~~~~~~~~~~~H~~Cf  144 (204)
                      |..|.+||.+.  ..+|.+.++.||.+||
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            78899999763  4699999999999998

>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=97.94  E-value=2.3e-06  Score=41.28  Aligned_cols=27  Identities=33%  Similarity=0.630  Sum_probs=25.4

Q ss_pred             ccccCCccCCCceEEecCCcccccCcc
Q psy7480         118 CAACTKVIPAFEMVMRAKNNVYHLECF  144 (204)
Q Consensus       118 C~~C~~~I~~~~~~~~~~~~~~H~~Cf  144 (204)
                      |..|.+.|.+..+.|...|..||..||
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            788999999988899999999999998

>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=97.94  E-value=2.5e-06  Score=45.29  Aligned_cols=32  Identities=28%  Similarity=0.536  Sum_probs=28.9

Q ss_pred             CCCCccccccccccccceeEeecCccccccCc
Q psy7480          48 SGGLKECASCGKRITERFLLKALDLFWHEDCL   79 (204)
Q Consensus        48 ~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   79 (204)
                      .....+|..|++.++..+.+.++|+.||..||
T Consensus         5 ~g~~~~C~~C~K~VY~~Erl~a~g~~yHk~CF   36 (36)
T d2co8a2           5 AGAGDLCALCGEHLYVLERLCVNGHFFHRSCF   36 (36)
T ss_dssp             CCSSCBCSSSCCBCCTTTBCCBTTBCCBTTTC
T ss_pred             CCCCCcccccCCEEeeeeEEEecCcEeccccC
Confidence            44568999999999999889999999999998

>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=97.94  E-value=1e-06  Score=45.13  Aligned_cols=32  Identities=19%  Similarity=0.575  Sum_probs=28.4

Q ss_pred             cccCCCcccCcCCCeEEeeCCeeccccccccccc
Q psy7480          80 KCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG  113 (204)
Q Consensus        80 ~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~  113 (204)
                      .|..|+++|+  |+.|..+|++|||..||..+|+
T Consensus         1 ~C~~C~~~L~--GQry~~rd~~PyC~~Cf~~lfA   32 (32)
T d2d8za2           1 VCTACRKQLS--GQRFTARDDFAYCLNCFCDLYA   32 (32)
T ss_dssp             BCSSSCCBCT--TSCCEESSSSEECHHHHHHHTC
T ss_pred             CcccCCcccc--CceeeecCCCeehHHhhHhhcC
Confidence            3778999998  7899999999999999998774

>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=97.93  E-value=1.2e-06  Score=43.39  Aligned_cols=30  Identities=33%  Similarity=0.648  Sum_probs=26.6

Q ss_pred             ccccCCCcccCcCCCeEEeeCCeecccccccc
Q psy7480          79 LKCGCCDCRLGEVGSTLYQKANLILCKRDYLR  110 (204)
Q Consensus        79 f~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~  110 (204)
                      |+|..|++.|.+  .....+||.+||+.||.+
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            799999999984  567899999999999964

>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=97.93  E-value=2.5e-06  Score=45.14  Aligned_cols=31  Identities=23%  Similarity=0.405  Sum_probs=28.3

Q ss_pred             CCCccccccccccccceeEeecCccccccCc
Q psy7480          49 GGLKECASCGKRITERFLLKALDLFWHEDCL   79 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   79 (204)
                      +..++|..|++.++..+.+.+.|+.||..||
T Consensus         5 p~~~kC~~C~K~VY~~E~~~a~g~~~Hk~CF   35 (35)
T d2d8ya1           5 PARETCVECQKTVYPMERLLANQQVFHISCF   35 (35)
T ss_dssp             SSSCBCTTTCCBCCTTSEEECSSSEEETTTC
T ss_pred             CCCcccccCCCEEeeeeeEecCCeehhhccC
Confidence            3467899999999999889999999999998

>d2cuqa2 g.39.1.3 (A:8-42) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.93  E-value=3.4e-06  Score=43.86  Aligned_cols=32  Identities=31%  Similarity=0.607  Sum_probs=28.3

Q ss_pred             CCCCCccccccccccccceeEeecCccccccCc
Q psy7480          47 ASGGLKECASCGKRITERFLLKALDLFWHEDCL   79 (204)
Q Consensus        47 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   79 (204)
                      ...++..|..|+++|..+. +...++.||.+||
T Consensus         4 E~kfa~~C~~Ckk~It~GG-vtY~dqpWHkeCF   35 (35)
T d2cuqa2           4 ENKFAPRCARCSKTLTQGG-VTYRDQPWHRECL   35 (35)
T ss_dssp             CCCSSCCCTTTCCCCCSCC-EESSSSEECTTTC
T ss_pred             HHHHHHHHhhcCCccccCc-eeecCCcchhhhC
Confidence            4567889999999999884 8899999999998

>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=97.93  E-value=1.4e-06  Score=47.94  Aligned_cols=35  Identities=14%  Similarity=0.385  Sum_probs=29.9

Q ss_pred             ccccCCccccCCCeEEEeCCeeecHHHHHHHhhhhc
Q psy7480         145 ACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVFAN  180 (204)
Q Consensus       145 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~~~  180 (204)
                      +|+.|++.| .-..|...+|.+||+.||.++|..+-
T Consensus         1 rC~~C~~~L-s~~~yas~~G~lYCkpHf~qLF~~kG   35 (42)
T d2d8ya2           1 RCSYCNNKL-SLGTYASLHGRIYCKPHFNQLFKSKG   35 (42)
T ss_dssp             BCTTTCCBC-CTTTCCCSSSCCCCHHHHHHHSCCCS
T ss_pred             CcCcCCCCc-cCCcchhhCCEeccHHHHHHHHHhhc
Confidence            699999999 55689999999999999999875443

>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=97.90  E-value=2.2e-06  Score=43.99  Aligned_cols=27  Identities=22%  Similarity=0.605  Sum_probs=25.1

Q ss_pred             ccccccCCccCCCceEEecCCcccccCcc
Q psy7480         116 GYCAACTKVIPAFEMVMRAKNNVYHLECF  144 (204)
Q Consensus       116 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  144 (204)
                      +.|.+|+..|.|  .++.++++.+|++||
T Consensus         9 p~CdkCg~GIVG--~~VK~rDk~rHPeCf   35 (35)
T d1x62a2           9 PMCDKCGTGIVG--VFVKLRDRHRHPECY   35 (35)
T ss_dssp             CCCSSSCCCCCS--SCEECSSCEECTTTT
T ss_pred             ccccccCCCcEe--EEEEeccccCCCCCC
Confidence            389999999988  799999999999998

>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=97.90  E-value=4.2e-06  Score=44.75  Aligned_cols=33  Identities=24%  Similarity=0.538  Sum_probs=28.5

Q ss_pred             CCCCCccccccccccccc-eeEeecCccccccCc
Q psy7480          47 ASGGLKECASCGKRITER-FLLKALDLFWHEDCL   79 (204)
Q Consensus        47 ~~~~~~~C~~C~~~I~~~-~~~~~~~~~~H~~Cf   79 (204)
                      ....+.+|.+|+++|..+ ..+++.|+.||..||
T Consensus         4 ~~~~a~~C~~C~k~I~~G~k~veykg~~WHe~CF   37 (37)
T d1x63a1           4 TREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCF   37 (37)
T ss_dssp             SCCCSCBCSSSCCBCCSSSCEEECSSCEEETTTC
T ss_pred             ccccCcccccCCCccCCCCeEeEeCCccchhccC
Confidence            345678999999999865 679999999999998

>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=97.85  E-value=6e-06  Score=41.81  Aligned_cols=31  Identities=23%  Similarity=0.436  Sum_probs=27.4

Q ss_pred             ccccCCccccCCCeEEEeCCeeecHHHHHHHh
Q psy7480         145 ACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  176 (204)
Q Consensus       145 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  176 (204)
                      .|+.|.++| ....|++.+|++||..||++-|
T Consensus         1 nCa~C~~sL-~d~gFVEE~g~lYCe~Cye~ff   31 (32)
T d2dara1           1 NCAHCKNTM-AYIGFVEEKGALYCELCYEKFF   31 (32)
T ss_dssp             BCSSSCCBC-SSSCBEESSSCEECHHHHHHHT
T ss_pred             CcccccccH-hhcceeeecCcEeHHHHHHHhc
Confidence            488999999 7778999999999999998753

>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=97.84  E-value=4.3e-06  Score=40.21  Aligned_cols=27  Identities=22%  Similarity=0.573  Sum_probs=25.3

Q ss_pred             ccccCCccCCCceEEecCCcccccCcc
Q psy7480         118 CAACTKVIPAFEMVMRAKNNVYHLECF  144 (204)
Q Consensus       118 C~~C~~~I~~~~~~~~~~~~~~H~~Cf  144 (204)
                      |..|.+.|.+..+.+...|..||..||
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            788999999988899999999999998

>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=97.83  E-value=7.3e-06  Score=40.87  Aligned_cols=29  Identities=24%  Similarity=0.726  Sum_probs=26.6

Q ss_pred             ccccCCccccCCCeEEEeCCeeecHHHHHH
Q psy7480         145 ACQQCNHRFCVGDRFYLCDNKILCEYDYEE  174 (204)
Q Consensus       145 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~  174 (204)
                      .|..|++.| .|.+|...++++||.+||..
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            489999999 89999999999999999864

>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=97.83  E-value=9.6e-06  Score=44.35  Aligned_cols=35  Identities=29%  Similarity=0.696  Sum_probs=30.6

Q ss_pred             CCCCCCCCccccccccccccceeEeecCccccccCc
Q psy7480          44 AGGASGGLKECASCGKRITERFLLKALDLFWHEDCL   79 (204)
Q Consensus        44 ~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   79 (204)
                      ..+.....+.|.+|+.-|.+. ++.+.++.+|++||
T Consensus        11 ~~~~~QkLP~CdkCg~GIVG~-~VK~rDK~rHPeCf   45 (45)
T d1x64a1          11 GAGSAQRMPLCDKCGSGIVGA-VVKARDKYRHPECF   45 (45)
T ss_dssp             CCSCCCSCCBCTTTCCBCCSC-CEESSSCEECTTTC
T ss_pred             CCCccccCccccccCCCcEEE-EEEeccccCCCCCC
Confidence            344567789999999999998 69999999999998

>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=97.79  E-value=4.2e-06  Score=45.82  Aligned_cols=27  Identities=33%  Similarity=0.705  Sum_probs=25.2

Q ss_pred             ccccccCCccCCCceEEecCCcccccCcc
Q psy7480         116 GYCAACTKVIPAFEMVMRAKNNVYHLECF  144 (204)
Q Consensus       116 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  144 (204)
                      +.|.+|+..|.|  .++.++++.+|++||
T Consensus        19 P~CdkCg~GIVG--~~VK~rDK~rHPeCf   45 (45)
T d1x64a1          19 PLCDKCGSGIVG--AVVKARDKYRHPECF   45 (45)
T ss_dssp             CBCTTTCCBCCS--CCEESSSCEECTTTC
T ss_pred             ccccccCCCcEE--EEEEeccccCCCCCC
Confidence            389999999988  899999999999998

>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=97.74  E-value=6.8e-06  Score=46.10  Aligned_cols=33  Identities=24%  Similarity=0.462  Sum_probs=29.5

Q ss_pred             cccCCCcccCcCCCeEEeeCCeecc-cccccccccC
Q psy7480          80 KCGCCDCRLGEVGSTLYQKANLILC-KRDYLRLFGT  114 (204)
Q Consensus        80 ~C~~C~~~L~~~~~~~~~~~g~~~C-~~cy~~~~~~  114 (204)
                      +|..|++.|+.  ....++++++|| +.||.++|+|
T Consensus         1 kC~~C~K~L~s--g~~aeHdg~pYC~k~CY~~~FGP   34 (48)
T d1imla2           1 KCEKCGKTLTS--GGHAEHEGKPYCNHPCYSAMFGP   34 (48)
T ss_dssp             BCTTTCCBCCT--TTEEEETTEEEETTTHHHHHSSC
T ss_pred             CchhcCcCcCC--CChhhcCCcccccccchhhccCC
Confidence            58899999984  568999999999 7799999998

>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=97.73  E-value=5.4e-06  Score=42.40  Aligned_cols=34  Identities=29%  Similarity=0.726  Sum_probs=30.5

Q ss_pred             ccccCCCcccCcCCCeEEeeCCeecccccccccccC
Q psy7480          79 LKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT  114 (204)
Q Consensus        79 f~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~  114 (204)
                      |.|+.|.+++-  +...+++.|..||+.+|.++|+.
T Consensus         1 FvCA~CekPF~--G~rhyE~~g~ayCe~Hy~qLfg~   34 (35)
T d1u5sb2           1 FVCAKCEKPFL--GHRHYERKGLAYCETHYNQLFGD   34 (35)
T ss_dssp             CBCTTTCCBCS--SSCCEEETTEEECHHHHHHHCSC
T ss_pred             CcccccCCccC--CchhhhhcCchHHHHHHHHHhcc
Confidence            78999999985  67889999999999999999873

>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=97.72  E-value=3.7e-06  Score=43.27  Aligned_cols=32  Identities=19%  Similarity=0.473  Sum_probs=27.4

Q ss_pred             cccCCCcccCcCCCeEEeeCCeeccccccccccc
Q psy7480          80 KCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG  113 (204)
Q Consensus        80 ~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~  113 (204)
                      .|..|.+++.  +..|+..+|++||+.+|+++.|
T Consensus         1 VC~~C~~PF~--~~~Fy~~~g~PyCe~HyH~~~G   32 (32)
T d1x3ha2           1 VCGDCFTSFS--TGSFFELDGRPFCELHYHHRRG   32 (32)
T ss_dssp             BCSSSCCBSC--SSCCEESSSCEECHHHHHHHHS
T ss_pred             CcCccCCcCC--CCCeEeECCccchHHhhhhhcC
Confidence            4888999997  4779999999999999987643

>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=97.70  E-value=5.5e-06  Score=41.79  Aligned_cols=32  Identities=22%  Similarity=0.465  Sum_probs=28.2

Q ss_pred             cccCCCcccCcCCCeEEeeCCeeccccccccccc
Q psy7480          80 KCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG  113 (204)
Q Consensus        80 ~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~  113 (204)
                      .|..|+++|.  ++.|..+|.++||.+||-++|+
T Consensus         1 vCt~Ck~~La--GqrFTSrde~pYC~~Cfg~LfA   32 (32)
T d2cuqa1           1 VCTGCQTPLA--GQQFTSRDEDPYCVACFGELFA   32 (32)
T ss_dssp             BCSSSCCBCT--TCCEEECSSSEEEHHHHHHHTT
T ss_pred             CccccCcccc--CCccccCCCCccHHHHhHhhcC
Confidence            4788999998  6889999999999999988764

>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=97.69  E-value=1.5e-05  Score=40.80  Aligned_cols=32  Identities=28%  Similarity=0.562  Sum_probs=28.7

Q ss_pred             CCCCCccccccccccccceeEeecCccccccCc
Q psy7480          47 ASGGLKECASCGKRITERFLLKALDLFWHEDCL   79 (204)
Q Consensus        47 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   79 (204)
                      .....+.|.+|+.-|.+. ++.+.++.+|++||
T Consensus         4 ~~qklp~CdkCg~GIVG~-~VK~rDk~rHPeCf   35 (35)
T d1x62a2           4 NAQKLPMCDKCGTGIVGV-FVKLRDRHRHPECY   35 (35)
T ss_dssp             CCCCCCCCSSSCCCCCSS-CEECSSCEECTTTT
T ss_pred             ccccCccccccCCCcEeE-EEEeccccCCCCCC
Confidence            456688999999999998 69999999999998

>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=97.67  E-value=1.2e-05  Score=42.44  Aligned_cols=28  Identities=32%  Similarity=0.813  Sum_probs=24.9

Q ss_pred             ccccccCCccCCCceEEecCCcccccCcc
Q psy7480         116 GYCAACTKVIPAFEMVMRAKNNVYHLECF  144 (204)
Q Consensus       116 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  144 (204)
                      ++|..|++.+.+.| .+.+.|+.||..||
T Consensus         8 ~kC~~C~K~VY~~E-~~~a~g~~~Hk~CF   35 (35)
T d2d8ya1           8 ETCVECQKTVYPME-RLLANQQVFHISCF   35 (35)
T ss_dssp             CBCTTTCCBCCTTS-EEECSSSEEETTTC
T ss_pred             cccccCCCEEeeee-eEecCCeehhhccC
Confidence            48999999999865 56899999999998

>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=97.66  E-value=6.4e-06  Score=41.71  Aligned_cols=32  Identities=19%  Similarity=0.643  Sum_probs=27.3

Q ss_pred             cccCCCcccCcCCCeEEeeCCeeccccccccccc
Q psy7480          80 KCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG  113 (204)
Q Consensus        80 ~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~  113 (204)
                      .|+.|..+|.+.+  |...+|.+||+.||.+.|+
T Consensus         1 nCa~C~~sL~d~g--FVEE~g~lYCe~Cye~ffA   32 (32)
T d2dara1           1 NCAHCKNTMAYIG--FVEEKGALYCELCYEKFFA   32 (32)
T ss_dssp             BCSSSCCBCSSSC--BEESSSCEECHHHHHHHTS
T ss_pred             CcccccccHhhcc--eeeecCcEeHHHHHHHhcC
Confidence            3788999998754  9999999999999988663

>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=97.66  E-value=2e-05  Score=39.62  Aligned_cols=26  Identities=23%  Similarity=0.678  Sum_probs=23.2

Q ss_pred             cccccCCccCCCceEEecCCcccccCc
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLEC  143 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~C  143 (204)
                      .|++|+++|.. ..++.+.++.||..|
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            79999999974 468999999999987

>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=97.65  E-value=1.3e-05  Score=44.96  Aligned_cols=34  Identities=15%  Similarity=0.268  Sum_probs=29.3

Q ss_pred             ccccCCccccCCCeEEEeCCeeec-HHHHHHHhhhh
Q psy7480         145 ACQQCNHRFCVGDRFYLCDNKILC-EYDYEERQVFA  179 (204)
Q Consensus       145 ~C~~C~~~l~~~~~~~~~~~~~~C-~~c~~~~~~~~  179 (204)
                      +|..|++.| +.....+++++||| +.||.++|...
T Consensus         1 kC~~C~K~L-~sg~~aeHdg~pYC~k~CY~~~FGPk   35 (48)
T d1imla2           1 KCEKCGKTL-TSGGHAEHEGKPYCNHPCYSAMFGPK   35 (48)
T ss_dssp             BCTTTCCBC-CTTTEEEETTEEEETTTHHHHHSSCC
T ss_pred             CchhcCcCc-CCCChhhcCCcccccccchhhccCCC
Confidence            589999999 66689999999999 77999996543

>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=97.61  E-value=1.8e-05  Score=39.94  Aligned_cols=27  Identities=26%  Similarity=0.666  Sum_probs=23.8

Q ss_pred             cccccCCccCCCceEEecCCcccccCcc
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECF  144 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  144 (204)
                      .|++|+++|.. ..++.+.++.||..|.
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            79999999974 4689999999999984

>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=97.60  E-value=9.2e-06  Score=40.27  Aligned_cols=27  Identities=30%  Similarity=0.722  Sum_probs=24.1

Q ss_pred             cccccCCccCCCceEEecCCcccccCcc
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECF  144 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  144 (204)
                      .|++|++.+.+.+ -+.-.++.||..||
T Consensus         4 ~CaRC~k~VYp~E-kl~ClDk~WHK~CF   30 (30)
T d1zfoa_           4 NCARCGKIVYPTE-KVNCLDKFWHKACF   30 (30)
T ss_dssp             BCSSSCSBCCGGG-CCCSSSSCCCGGGC
T ss_pred             cccccCCccccHH-HhhhhHHHHhhccC
Confidence            8999999999865 56888999999998

>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=97.58  E-value=1.5e-05  Score=44.17  Aligned_cols=28  Identities=29%  Similarity=0.591  Sum_probs=24.6

Q ss_pred             ccccccCCccCCCceEEecCCcccccCcc
Q psy7480         116 GYCAACTKVIPAFEMVMRAKNNVYHLECF  144 (204)
Q Consensus       116 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  144 (204)
                      ++|..|++.+...|++ .+.|+.||..||
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            4899999999987655 788999999998

>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=97.57  E-value=1.3e-05  Score=41.44  Aligned_cols=27  Identities=30%  Similarity=0.690  Sum_probs=24.4

Q ss_pred             cccccCCccCCCceEEecCCcccccCcc
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECF  144 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  144 (204)
                      .|++|++.|.. +..+.|.++.||..||
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            79999999975 4788999999999998

>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=97.56  E-value=2.1e-05  Score=41.64  Aligned_cols=28  Identities=25%  Similarity=0.674  Sum_probs=24.8

Q ss_pred             ccccccCCccCCCceEEecCCcccccCcc
Q psy7480         116 GYCAACTKVIPAFEMVMRAKNNVYHLECF  144 (204)
Q Consensus       116 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  144 (204)
                      ++|..|++.+.+.+ .+.|.|+.||..||
T Consensus         9 ~~C~~C~K~VY~~E-rl~a~g~~yHk~CF   36 (36)
T d2co8a2           9 DLCALCGEHLYVLE-RLCVNGHFFHRSCF   36 (36)
T ss_dssp             CBCSSSCCBCCTTT-BCCBTTBCCBTTTC
T ss_pred             CcccccCCEEeeee-EEEecCcEeccccC
Confidence            49999999999865 45899999999998

>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=2.7e-05  Score=39.99  Aligned_cols=31  Identities=23%  Similarity=0.510  Sum_probs=27.6

Q ss_pred             ccccCCccccCCCeEEEe-CCeeecHHHHHHHh
Q psy7480         145 ACQQCNHRFCVGDRFYLC-DNKILCEYDYEERQ  176 (204)
Q Consensus       145 ~C~~C~~~l~~~~~~~~~-~~~~~C~~c~~~~~  176 (204)
                      .|..|++.| +|..|.+. ++++||.++|.++|
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            488999999 89999985 69999999999885

>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=97.51  E-value=1.9e-05  Score=38.90  Aligned_cols=26  Identities=31%  Similarity=0.754  Sum_probs=22.6

Q ss_pred             ccccccccccc---eeEeecCccccccCc
Q psy7480          54 CASCGKRITER---FLLKALDLFWHEDCL   79 (204)
Q Consensus        54 C~~C~~~I~~~---~~~~~~~~~~H~~Cf   79 (204)
                      |+.|.+||.+-   ..|...++.||..||
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            78999999753   568999999999998

>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=97.51  E-value=5.1e-05  Score=38.68  Aligned_cols=32  Identities=28%  Similarity=0.520  Sum_probs=28.7

Q ss_pred             cccccCCccccCCCeEEEeC-CeeecHHHHHHH
Q psy7480         144 FACQQCNHRFCVGDRFYLCD-NKILCEYDYEER  175 (204)
Q Consensus       144 f~C~~C~~~l~~~~~~~~~~-~~~~C~~c~~~~  175 (204)
                      |.|..|+.-|++|+.|.+.+ .++||..||.+.
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            78999999999999999865 899999999864

>d1wiga1 g.39.1.3 (A:1-32) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.50  E-value=1.6e-05  Score=39.62  Aligned_cols=25  Identities=36%  Similarity=0.740  Sum_probs=23.4

Q ss_pred             cccccCCccCCCceEEecCCcccccCc
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLEC  143 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~C  143 (204)
                      -|..|.+.|.+  .++.|.++.||+.|
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            69999999987  89999999999988

>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=97.48  E-value=4.6e-05  Score=45.60  Aligned_cols=33  Identities=15%  Similarity=0.364  Sum_probs=29.0

Q ss_pred             ccccCCccccCCCeEEEeCCeeecHHHHHHHhhh
Q psy7480         145 ACQQCNHRFCVGDRFYLCDNKILCEYDYEERQVF  178 (204)
Q Consensus       145 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~~~  178 (204)
                      .|..|++.| +...+..++++|||+.||-++|..
T Consensus         1 ~C~~C~K~L-dS~~~~eh~~e~YCk~CY~k~fGP   33 (65)
T d1b8ta2           1 LCMVCKKNL-DSTTVAVHGDEIYCKSCYGKKYGP   33 (65)
T ss_dssp             BCTTTCCBC-CSSSEEEETTEEEEHHHHHHHHSC
T ss_pred             CchhcCCcc-CCCccccCCCcccchhhhccccCC
Confidence            388999999 667899999999999999999753

>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=97.48  E-value=9e-06  Score=41.56  Aligned_cols=34  Identities=50%  Similarity=1.262  Sum_probs=31.1

Q ss_pred             cccCCCcccCcCCCeEEeeCCeeccccccccccc
Q psy7480          80 KCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG  113 (204)
Q Consensus        80 ~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~  113 (204)
                      +|+.|+..|++.+...|.+.|.++|+.+|.++|+
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            5888999999888999999999999999998875

>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=97.47  E-value=1.9e-05  Score=38.39  Aligned_cols=27  Identities=22%  Similarity=0.693  Sum_probs=24.5

Q ss_pred             ccccccccccccceeEeecCccccccC
Q psy7480          52 KECASCGKRITERFLLKALDLFWHEDC   78 (204)
Q Consensus        52 ~~C~~C~~~I~~~~~~~~~~~~~H~~C   78 (204)
                      .+|.+|++.++..+.+...|+.||+.|
T Consensus         2 d~CpRC~~~VyaAEkviGaG~~WHk~C   28 (28)
T d1ibia1           2 EKCSRCGDSVYAAEKVIGAGKPWHKNC   28 (28)
T ss_dssp             EECTTTSSEESSSSCEESSSSEECSSC
T ss_pred             CcCcccchhHHHHHHHhcCCCccccCC
Confidence            579999999999987888999999987

>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=97.47  E-value=3.2e-05  Score=39.20  Aligned_cols=31  Identities=19%  Similarity=0.403  Sum_probs=26.1

Q ss_pred             ccccCCccccCCCeEEEeCCeeecHH-HHHHHh
Q psy7480         145 ACQQCNHRFCVGDRFYLCDNKILCEY-DYEERQ  176 (204)
Q Consensus       145 ~C~~C~~~l~~~~~~~~~~~~~~C~~-c~~~~~  176 (204)
                      +|..|++.| ......+++|+|||.. ||..+|
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            589999999 5557899999999966 998765

>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=97.46  E-value=3.4e-05  Score=38.73  Aligned_cols=27  Identities=22%  Similarity=0.465  Sum_probs=23.2

Q ss_pred             cccccCCccCCCceEEecCCcccccCcc
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECF  144 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  144 (204)
                      +|.+|++++...| -+...|+.||..|.
T Consensus         4 ~CprC~K~VYfaE-k~~~lgk~WHk~Cl   30 (30)
T d2cu8a1           4 KCPKCDKTVYFAE-KVSSLGKDWHKFCL   30 (30)
T ss_dssp             BCTTTCCBCCTTT-EEEETTEEEETTTC
T ss_pred             cCCCCCCceeeHH-hhccCCcccccccC
Confidence            8999999999865 55777999999884

>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=97.44  E-value=2e-05  Score=47.18  Aligned_cols=33  Identities=27%  Similarity=0.562  Sum_probs=29.6

Q ss_pred             ccCCCcccCcCCCeEEeeCCeecccccccccccCc
Q psy7480          81 CGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTT  115 (204)
Q Consensus        81 C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~  115 (204)
                      |..|++.|+.  ..+..+++.+||+.||.++|+|+
T Consensus         2 C~~C~K~LdS--~~~~eh~~e~YCk~CY~k~fGPk   34 (65)
T d1b8ta2           2 CMVCKKNLDS--TTVAVHGDEIYCKSCYGKKYGPK   34 (65)
T ss_dssp             CTTTCCBCCS--SSEEEETTEEEEHHHHHHHHSCC
T ss_pred             chhcCCccCC--CccccCCCcccchhhhccccCCC
Confidence            7889999984  56899999999999999999983

>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=97.43  E-value=3.9e-05  Score=36.68  Aligned_cols=27  Identities=37%  Similarity=0.659  Sum_probs=23.7

Q ss_pred             ccccCCccCCCceEEecCCcccccCcc
Q psy7480         118 CAACTKVIPAFEMVMRAKNNVYHLECF  144 (204)
Q Consensus       118 C~~C~~~I~~~~~~~~~~~~~~H~~Cf  144 (204)
                      |..|.+||..+..-+...++.||..||
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            778999997766778899999999998

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

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.41  E-value=2.6e-05  Score=39.57  Aligned_cols=28  Identities=25%  Similarity=0.768  Sum_probs=25.1

Q ss_pred             ccccccccccccc-eeEeecCccccccCc
Q psy7480          52 KECASCGKRITER-FLLKALDLFWHEDCL   79 (204)
Q Consensus        52 ~~C~~C~~~I~~~-~~~~~~~~~~H~~Cf   79 (204)
                      ..|++|++.|... .+..+.+..||..||
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            5699999999877 678899999999998

>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=97.37  E-value=6.5e-05  Score=37.42  Aligned_cols=29  Identities=28%  Similarity=0.744  Sum_probs=26.2

Q ss_pred             ccccCCccccCCCeEEEeCCeeecHHHHHH
Q psy7480         145 ACQQCNHRFCVGDRFYLCDNKILCEYDYEE  174 (204)
Q Consensus       145 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~  174 (204)
                      .|..|+..| .|+.||..+.+.||+.||-.
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            488899999 89999999999999999964

>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=97.36  E-value=1.4e-05  Score=43.85  Aligned_cols=33  Identities=27%  Similarity=0.603  Sum_probs=29.4

Q ss_pred             cccCCCcccCcCCCeEEeeCCeecccccccccccC
Q psy7480          80 KCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGT  114 (204)
Q Consensus        80 ~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~  114 (204)
                      +|..|++.|..  +.|...+|.+||+.||.++|.+
T Consensus         1 rC~~C~~~Ls~--~~yas~~G~lYCkpHf~qLF~~   33 (42)
T d2d8ya2           1 RCSYCNNKLSL--GTYASLHGRIYCKPHFNQLFKS   33 (42)
T ss_dssp             BCTTTCCBCCT--TTCCCSSSCCCCHHHHHHHSCC
T ss_pred             CcCcCCCCccC--CcchhhCCEeccHHHHHHHHHh
Confidence            68899999984  5688999999999999999986

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

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

Probab=97.34  E-value=5.6e-05  Score=38.33  Aligned_cols=33  Identities=24%  Similarity=0.452  Sum_probs=29.0

Q ss_pred             CCCCCccccccccccccceeEeecCccccccCc
Q psy7480          47 ASGGLKECASCGKRITERFLLKALDLFWHEDCL   79 (204)
Q Consensus        47 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   79 (204)
                      ...+..+|+.|++.++-.+-+.-.|++||+.||
T Consensus         3 n~ggg~kcg~c~ktvy~aeevqc~g~sfhk~cf   35 (35)
T d1b8ta1           3 NWGGGKKCGVCQKAVYFAEEVQCEGSSFHKSCF   35 (35)
T ss_dssp             CCCCCEECTTTCCEECSSCCEEETTEEECTTTC
T ss_pred             ccCCCceeccccceEeeeeeeeecCcccccccC
Confidence            456677899999999988778899999999998

>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=97.33  E-value=5.6e-05  Score=37.76  Aligned_cols=30  Identities=17%  Similarity=0.511  Sum_probs=26.8

Q ss_pred             cccCCccccCCCeEEEeCCeeecHHHHHHHh
Q psy7480         146 CQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  176 (204)
Q Consensus       146 C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  176 (204)
                      |-.|.+.| ++.....+++.+||+.||-+++
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            77899999 7778999999999999998874

>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=97.31  E-value=5.2e-05  Score=38.39  Aligned_cols=32  Identities=28%  Similarity=0.559  Sum_probs=26.6

Q ss_pred             cccCCCcccCcCCCeEEeeCCeecccc-ccccccc
Q psy7480          80 KCGCCDCRLGEVGSTLYQKANLILCKR-DYLRLFG  113 (204)
Q Consensus        80 ~C~~C~~~L~~~~~~~~~~~g~~~C~~-cy~~~~~  113 (204)
                      +|..|++.|..  ....+++|++||.. ||..+|+
T Consensus         1 kCekC~ktL~~--G~HaEH~gkPYC~~PCY~aLFG   33 (33)
T d2cu8a2           1 KCERCSKTLTP--GGHAEHDGKPFCHKPCYATLFG   33 (33)
T ss_dssp             BCSSSCCBCCT--TSCEEETTEEECTTTHHHHHSC
T ss_pred             CchhcccccCC--CCccccCCCcCcCcchHHhhcC
Confidence            58899999984  45789999999964 9988775

>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=97.27  E-value=5.8e-05  Score=36.63  Aligned_cols=27  Identities=30%  Similarity=0.598  Sum_probs=22.7

Q ss_pred             ccccccCCccCCCceEEecCCcccccCc
Q psy7480         116 GYCAACTKVIPAFEMVMRAKNNVYHLEC  143 (204)
Q Consensus       116 ~~C~~C~~~I~~~~~~~~~~~~~~H~~C  143 (204)
                      ++|.+|++.+...+.+|.+ |+.||..|
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            3899999999987777655 88999987

>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=97.26  E-value=4.9e-05  Score=37.29  Aligned_cols=26  Identities=31%  Similarity=0.779  Sum_probs=22.3

Q ss_pred             ccccccccccc---eeEeecCccccccCc
Q psy7480          54 CASCGKRITER---FLLKALDLFWHEDCL   79 (204)
Q Consensus        54 C~~C~~~I~~~---~~~~~~~~~~H~~Cf   79 (204)
                      |..|.+||.+-   ..|...++.||.+||
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            78899999753   568999999999998

>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=97.19  E-value=8e-05  Score=35.74  Aligned_cols=26  Identities=31%  Similarity=0.689  Sum_probs=22.8

Q ss_pred             ccccccccccc-eeEeecCccccccCc
Q psy7480          54 CASCGKRITER-FLLKALDLFWHEDCL   79 (204)
Q Consensus        54 C~~C~~~I~~~-~~~~~~~~~~H~~Cf   79 (204)
                      |..|.+.|... ..++..|..||..||
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            77899999776 578999999999998

>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=97.09  E-value=0.0001  Score=37.20  Aligned_cols=31  Identities=23%  Similarity=0.479  Sum_probs=27.1

Q ss_pred             ccCCCcccCcCCCeEEeeCCeeccccccccccc
Q psy7480          81 CGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG  113 (204)
Q Consensus        81 C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~  113 (204)
                      |..|..+|+  ...|..+++..||..||++.|+
T Consensus         2 C~~C~qPIG--tksfipk~~~~yCvpCyE~kfA   32 (32)
T d1x4ka1           2 CHRCQQPIG--TKSFIPKDNQNFCVPCYEKQHA   32 (32)
T ss_dssp             CSSSCCCCC--SSSEEEETTEEEEHHHHHHHTS
T ss_pred             cccccCccc--ccccccCCCCceEeecchhhcC
Confidence            778999998  4678999999999999998774

>d1wyha2 g.39.1.3 (A:8-34) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.07  E-value=0.00011  Score=35.22  Aligned_cols=26  Identities=31%  Similarity=0.783  Sum_probs=22.5

Q ss_pred             ccccccccccc-eeEeecCccccccCc
Q psy7480          54 CASCGKRITER-FLLKALDLFWHEDCL   79 (204)
Q Consensus        54 C~~C~~~I~~~-~~~~~~~~~~H~~Cf   79 (204)
                      |..|.+.|... ..++..|..||..||
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            77899999776 568889999999998

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

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

Probab=97.02  E-value=0.00015  Score=34.77  Aligned_cols=27  Identities=19%  Similarity=0.549  Sum_probs=24.8

Q ss_pred             cccccccccccceeEeecCccccccCc
Q psy7480          53 ECASCGKRITERFLLKALDLFWHEDCL   79 (204)
Q Consensus        53 ~C~~C~~~I~~~~~~~~~~~~~H~~Cf   79 (204)
                      +|+.|.+.++..+-+.-.|++||+.||
T Consensus         2 kcg~c~ktvy~aeevqc~grsfhk~cf   28 (28)
T d1a7ia1           2 KCGACGRTVYHAEEVQCDGRSFHRCCF   28 (28)
T ss_dssp             BCSSSCCBCSSTTEEEETTEEEESSSE
T ss_pred             ccccccceEeeeeeeeecCceeccccC
Confidence            699999999998778899999999997

>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=97.02  E-value=0.00041  Score=34.06  Aligned_cols=31  Identities=16%  Similarity=0.393  Sum_probs=26.9

Q ss_pred             ccccCCccccCCCeEEEeCCeeecHHHHHHHh
Q psy7480         145 ACQQCNHRFCVGDRFYLCDNKILCEYDYEERQ  176 (204)
Q Consensus       145 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~~  176 (204)
                      .|+.|...| ....|+.....+||..|++.+|
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            489999999 5557999999999999999875

>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=97.01  E-value=0.00014  Score=36.65  Aligned_cols=31  Identities=23%  Similarity=0.509  Sum_probs=26.9

Q ss_pred             ccCCCcccCcCCCeEEeeCCeeccccccccccc
Q psy7480          81 CGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG  113 (204)
Q Consensus        81 C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~  113 (204)
                      |..|..+|+  ...|..+++..||..||++.|+
T Consensus         2 C~~C~qPIG--tkSFip~~~~~yCvpCYE~kfA   32 (32)
T d1wyha1           2 CSGCEQPLG--SRSFVPDKGAHYCVPCYENKFA   32 (32)
T ss_dssp             CTTTCCBTT--TSCEEEETTEEEEHHHHHHHTS
T ss_pred             cccccCccc--ccccccCCCcEEEEeccccccC
Confidence            778999998  3678999999999999998874

>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=96.99  E-value=0.00018  Score=38.86  Aligned_cols=29  Identities=31%  Similarity=0.509  Sum_probs=25.5

Q ss_pred             CCCccccccccccccceeEeecCccccccC
Q psy7480          49 GGLKECASCGKRITERFLLKALDLFWHEDC   78 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~C   78 (204)
                      .+..+|..|++.|.+. ++.+.++.||+.|
T Consensus        13 ~fG~~C~~C~~~ItG~-V~~Ag~~~yHP~C   41 (41)
T d1v6ga1          13 LYGTRCFSCDQFIEGE-VVSALGKTYHPDC   41 (41)
T ss_dssp             SCCCBCTTTCCBCCSC-CEEETTEEECTTT
T ss_pred             HhCcccccccCEeeee-eeEecCcccCCCC
Confidence            4567899999999877 8999999999988

>d1x61a1 g.39.1.3 (A:8-34) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.95  E-value=0.00022  Score=33.45  Aligned_cols=27  Identities=26%  Similarity=0.619  Sum_probs=23.9

Q ss_pred             ccccCCccCCCceEEecCCcccccCcc
Q psy7480         118 CAACTKVIPAFEMVMRAKNNVYHLECF  144 (204)
Q Consensus       118 C~~C~~~I~~~~~~~~~~~~~~H~~Cf  144 (204)
                      |.+|++.+.++..-+.+.++.||..||
T Consensus         1 cggcgedvvgdgagvvaldrvfhvgcf   27 (27)
T d1x61a1           1 CGGCGEDVVGDGAGVVALDRVFHVGCF   27 (27)
T ss_dssp             CSSSCSCCCSSSCCEECSSSEECTTTC
T ss_pred             CCCcccccccCCcceEEEeeeEEeccC
Confidence            778999998877778899999999998

>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=96.94  E-value=0.00015  Score=36.02  Aligned_cols=29  Identities=21%  Similarity=0.454  Sum_probs=25.4

Q ss_pred             cccCCCcccCcCCCeEEeeCCeecccccccc
Q psy7480          80 KCGCCDCRLGEVGSTLYQKANLILCKRDYLR  110 (204)
Q Consensus        80 ~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~  110 (204)
                      .|..|.+.|+  +..|...++++||-+||..
T Consensus         1 vC~~C~K~La--g~rFTa~eDq~yCVdCYK~   29 (31)
T d2cura1           1 VCVTCSKKLA--GQRFTAVEDQYYCVDCYKN   29 (31)
T ss_dssp             BCTTTCCBCT--TSCEEECSSCEEEHHHHHH
T ss_pred             Ccccccchhc--CceeEEecceEEEeeeecc
Confidence            4888999998  6889999999999999974

>d2cupa3 g.39.1.3 (A:8-34) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.86  E-value=0.00026  Score=33.77  Aligned_cols=26  Identities=31%  Similarity=0.802  Sum_probs=21.7

Q ss_pred             ccccccccccc-eeEeecCccccccCc
Q psy7480          54 CASCGKRITER-FLLKALDLFWHEDCL   79 (204)
Q Consensus        54 C~~C~~~I~~~-~~~~~~~~~~H~~Cf   79 (204)
                      |.-|.+||... .-+...+++||..||
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            67899999765 447789999999998

>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=96.84  E-value=0.00059  Score=33.77  Aligned_cols=30  Identities=20%  Similarity=0.674  Sum_probs=25.2

Q ss_pred             ccccCCccccCCCeEEEeCCeeecHHHHHHH
Q psy7480         145 ACQQCNHRFCVGDRFYLCDNKILCEYDYEER  175 (204)
Q Consensus       145 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~  175 (204)
                      .|+.|+..| ....++..++++||+.|...+
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            489999999 777788899999999986543

>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=96.82  E-value=0.0002  Score=35.68  Aligned_cols=31  Identities=26%  Similarity=0.538  Sum_probs=26.2

Q ss_pred             ccCCCcccCcCCCeEEeeCCeeccccccccccc
Q psy7480          81 CGCCDCRLGEVGSTLYQKANLILCKRDYLRLFG  113 (204)
Q Consensus        81 C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~  113 (204)
                      |-.|.+.|++  .....+++.+||+.||-+.++
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            6678999984  668899999999999988764

>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=96.79  E-value=0.00026  Score=35.18  Aligned_cols=29  Identities=24%  Similarity=0.634  Sum_probs=25.6

Q ss_pred             cccCCCcccCcCCCeEEeeCCeecccccccc
Q psy7480          80 KCGCCDCRLGEVGSTLYQKANLILCKRDYLR  110 (204)
Q Consensus        80 ~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~  110 (204)
                      .|..|+..|.  |+.|+..+.+.||+.||..
T Consensus         1 vC~tC~~kLR--GqpFYAvekkayCE~CYi~   29 (32)
T d1x61a2           1 VCSTCRAQLR--GQHFYAVERRAYCEGCYVA   29 (32)
T ss_dssp             BCSSSCCBCT--TSCEEESSSCEEEHHHHHH
T ss_pred             CeeEeCceec--CCcceEeeccccccceeee
Confidence            3778999997  7899999999999999975

>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=96.70  E-value=0.00048  Score=34.10  Aligned_cols=29  Identities=41%  Similarity=0.772  Sum_probs=25.3

Q ss_pred             CCCccccccccccccceeEeecCccccccC
Q psy7480          49 GGLKECASCGKRITERFLLKALDLFWHEDC   78 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~C   78 (204)
                      ++..-|..|.+.|.+. ++++.++.||+.|
T Consensus         3 sgssgC~~C~~~ItGk-VLEAG~khYHP~C   31 (32)
T d1wiga1           3 SGSSGCDSCEKYITGR-VLEAGEKHYHPSC   31 (32)
T ss_dssp             CSCCSCSSSCCCCSSC-CBCCSSCCBCTTT
T ss_pred             Cccchhhhhhhhhhhh-hhhccccccCCCC
Confidence            3455699999999998 8999999999987

>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=96.56  E-value=0.00019  Score=36.66  Aligned_cols=32  Identities=28%  Similarity=0.596  Sum_probs=25.7

Q ss_pred             cccCCCcccCcCCCeE-EeeCCeeccccccccccc
Q psy7480          80 KCGCCDCRLGEVGSTL-YQKANLILCKRDYLRLFG  113 (204)
Q Consensus        80 ~C~~C~~~L~~~~~~~-~~~~g~~~C~~cy~~~~~  113 (204)
                      .|..|++.|+  |-+| ...++++||..+|+++|+
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            4788999997  4556 467889999999998874

>d1x61a1 g.39.1.3 (A:8-34) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.48  E-value=0.00064  Score=31.83  Aligned_cols=26  Identities=31%  Similarity=0.732  Sum_probs=22.1

Q ss_pred             ccccccccccc-eeEeecCccccccCc
Q psy7480          54 CASCGKRITER-FLLKALDLFWHEDCL   79 (204)
Q Consensus        54 C~~C~~~I~~~-~~~~~~~~~~H~~Cf   79 (204)
                      |.+|++.+.+. .-+.++++.||..||
T Consensus         1 cggcgedvvgdgagvvaldrvfhvgcf   27 (27)
T d1x61a1           1 CGGCGEDVVGDGAGVVALDRVFHVGCF   27 (27)
T ss_dssp             CSSSCSCCCSSSCCEECSSSEECTTTC
T ss_pred             CCCcccccccCCcceEEEeeeEEeccC
Confidence            78999988766 457889999999997

>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=96.47  E-value=0.0011  Score=32.58  Aligned_cols=29  Identities=10%  Similarity=0.297  Sum_probs=23.0

Q ss_pred             ccccCCccccCCCeEEEeCCeeecHHHHHHH
Q psy7480         145 ACQQCNHRFCVGDRFYLCDNKILCEYDYEER  175 (204)
Q Consensus       145 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~  175 (204)
                      .|..|++.| .. .-.+..|.+||..|+.++
T Consensus         1 nC~~Cgkel-ta-dArEl~geLyCLpChdKm   29 (31)
T d2cora1           1 NCANCGKEL-TA-DARELKGELYCLPCHDKM   29 (31)
T ss_dssp             BCSSSCCBC-CT-TCEEETTEEECHHHHHTT
T ss_pred             Ccccccccc-ch-hHHHhcCCEEEEeccccc
Confidence            488999999 33 445678999999998875

>d1x62a1 g.39.1.3 (A:43-73) PDZ and LIM domain protein 1 Elfin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 1 Elfin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.26  E-value=0.00053  Score=34.02  Aligned_cols=30  Identities=23%  Similarity=0.672  Sum_probs=24.7

Q ss_pred             ccccCCccccCCCeEEEeCCeeecHHHHHHH
Q psy7480         145 ACQQCNHRFCVGDRFYLCDNKILCEYDYEER  175 (204)
Q Consensus       145 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~~  175 (204)
                      .|+.|+..| ....++..++++||+.|...+
T Consensus         1 vC~dCg~NL-KqrG~Ffve~~lyCE~HAr~r   30 (31)
T d1x62a1           1 VCTDCGTNL-KQKGHFFVEDQIYCEKHARER   30 (31)
T ss_dssp             SCSSSCCCH-HHHCCEESSSCEECHHHHHHH
T ss_pred             CccccccCh-hhcceEEeccEEehhhhhhhc
Confidence            489999999 666677789999999997654

>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=96.04  E-value=0.0025  Score=31.67  Aligned_cols=27  Identities=37%  Similarity=0.925  Sum_probs=24.0

Q ss_pred             ccccCCccccCCCeEEEeCCeeecHHH
Q psy7480         145 ACQQCNHRFCVGDRFYLCDNKILCEYD  171 (204)
Q Consensus       145 ~C~~C~~~l~~~~~~~~~~~~~~C~~c  171 (204)
                      .|+.|...|-.|++|...+|.+||+.+
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            488999998789999999999999865

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

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

Probab=95.98  E-value=0.0023  Score=30.51  Aligned_cols=27  Identities=26%  Similarity=0.645  Sum_probs=22.7

Q ss_pred             cccccCCccCCCceEEecCCcccccCcc
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECF  144 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  144 (204)
                      +|..|.+.+.-.+ -+.-.|+.||..||
T Consensus         2 kcg~c~ktvy~ae-evqc~grsfhk~cf   28 (28)
T d1a7ia1           2 KCGACGRTVYHAE-EVQCDGRSFHRCCF   28 (28)
T ss_dssp             BCSSSCCBCSSTT-EEEETTEEEESSSE
T ss_pred             ccccccceEeeee-eeeecCceeccccC
Confidence            7999999997544 55788999999998

>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=95.91  E-value=0.0043  Score=31.36  Aligned_cols=32  Identities=28%  Similarity=0.607  Sum_probs=27.3

Q ss_pred             ccccCCcccc-CCCeEEEeCCeeecHHHHHHHh
Q psy7480         145 ACQQCNHRFC-VGDRFYLCDNKILCEYDYEERQ  176 (204)
Q Consensus       145 ~C~~C~~~l~-~~~~~~~~~~~~~C~~c~~~~~  176 (204)
                      +|+.|+..|. .|...|...|.++|+.+|.++|
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            5788888885 3778999999999999999876

>d1g47a1 g.39.1.3 (A:1-35) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=95.79  E-value=0.0018  Score=32.97  Aligned_cols=27  Identities=22%  Similarity=0.641  Sum_probs=24.9

Q ss_pred             cccccCCccCCCceEEecCCcccccCc
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLEC  143 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~C  143 (204)
                      .|.+|+....+.+.++...|..||..|
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            799999999998899999999999987

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

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

Probab=95.72  E-value=0.0023  Score=32.20  Aligned_cols=27  Identities=26%  Similarity=0.675  Sum_probs=22.9

Q ss_pred             cccccCCccCCCceEEecCCcccccCcc
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECF  144 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  144 (204)
                      +|..|++.+.-.+ -+.-.|+.||..||
T Consensus         9 kcg~c~ktvy~ae-evqc~g~sfhk~cf   35 (35)
T d1b8ta1           9 KCGVCQKAVYFAE-EVQCEGSSFHKSCF   35 (35)
T ss_dssp             ECTTTCCEECSSC-CEEETTEEECTTTC
T ss_pred             eeccccceEeeee-eeeecCcccccccC
Confidence            8999999997644 45788999999998

>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=95.71  E-value=0.0029  Score=32.06  Aligned_cols=29  Identities=21%  Similarity=0.402  Sum_probs=24.3

Q ss_pred             CCCccccccccccccceeEeecCccccccC
Q psy7480          49 GGLKECASCGKRITERFLLKALDLFWHEDC   78 (204)
Q Consensus        49 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~C   78 (204)
                      .+...|..|.+.|++. ++.+.+..||++|
T Consensus         6 kfge~C~~C~~~itGp-vMvAG~~K~HPEC   34 (34)
T d1x6aa1           6 KFGEFCHGCSLLMTGP-FMVAGEFKYHPEC   34 (34)
T ss_dssp             CSSCBCTTTCCBCCSC-CBCCTTCCBCTTS
T ss_pred             HHHHHhhhhHhhcccc-eeeecccccCCCC
Confidence            4567899999988866 6778889999998

>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=95.61  E-value=0.0012  Score=32.82  Aligned_cols=32  Identities=63%  Similarity=1.228  Sum_probs=28.3

Q ss_pred             ccccCCCcccCcCCCeEEeeCCeecccccccc
Q psy7480          79 LKCGCCDCRLGEVGSTLYQKANLILCKRDYLR  110 (204)
Q Consensus        79 f~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~  110 (204)
                      ++|..|+..|++.++..|.+.+.++|+.+|.+
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            36888999999888999999999999999864

>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=95.47  E-value=0.0035  Score=30.58  Aligned_cols=31  Identities=19%  Similarity=0.470  Sum_probs=25.9

Q ss_pred             cccCCCcccCcCCCeEEeeCCeecccccccccc
Q psy7480          80 KCGCCDCRLGEVGSTLYQKANLILCKRDYLRLF  112 (204)
Q Consensus        80 ~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~  112 (204)
                      .|+.|...++.  ..|+.+...+||-.|....|
T Consensus         1 tcs~ckq~igs--gsffpkg~d~ycvtche~kf   31 (32)
T d1x63a2           1 TCSNCKQVIGT--GSFFPKGEDFYCVTCHETKF   31 (32)
T ss_dssp             CCSSSCCCCTT--SCEEEETTEEEEHHHHHHHT
T ss_pred             Ccchhhhhccc--ccccCCCCcEEEEEeecccc
Confidence            47889999984  56899999999999987665

>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=95.38  E-value=0.0062  Score=29.82  Aligned_cols=28  Identities=36%  Similarity=0.685  Sum_probs=24.5

Q ss_pred             ccccCCccccCCCeEEEeCCeeecHHHHH
Q psy7480         145 ACQQCNHRFCVGDRFYLCDNKILCEYDYE  173 (204)
Q Consensus       145 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~  173 (204)
                      +|..|-.+| ..+.|...+++++|.+|-.
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            578899999 7889999999999999853

>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=95.05  E-value=0.006  Score=30.02  Aligned_cols=28  Identities=14%  Similarity=0.393  Sum_probs=22.9

Q ss_pred             cccCCCcccCcCCCeEEeeCCeeccccccc
Q psy7480          80 KCGCCDCRLGEVGSTLYQKANLILCKRDYL  109 (204)
Q Consensus        80 ~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~  109 (204)
                      .|+.|+..|..  ..+|..++++||+.+..
T Consensus         1 vC~dCg~NLKq--rG~Ffv~~~lyCE~HAr   28 (31)
T d1x64a2           1 VCADCNLNLKQ--KGYFFVEGELYCETHAR   28 (31)
T ss_dssp             CCSSSCCCTTT--SCCEEETTEEECHHHHH
T ss_pred             CccccccChhh--cceEEeccEEeehhhhh
Confidence            48899999985  44788899999998754

>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=94.40  E-value=0.0075  Score=31.79  Aligned_cols=27  Identities=26%  Similarity=0.559  Sum_probs=12.0

Q ss_pred             ccccCCccccCCCeEEEeCCeeecHHH
Q psy7480         145 ACQQCNHRFCVGDRFYLCDNKILCEYD  171 (204)
Q Consensus       145 ~C~~C~~~l~~~~~~~~~~~~~~C~~c  171 (204)
                      -|+.|+..+.+|+..|+.++.++-..|
T Consensus         1 ~C~rC~~mF~EGEEMYLQGs~IWHP~C   27 (41)
T d1wiga2           1 LCVRCGQMFAEGEEMYLQGSSIWHPAC   27 (41)
T ss_dssp             CCSSSCCCCCSSCCCEEETTEEECTTH
T ss_pred             CcchhhccccccceeeecCCceeCCcc
Confidence            034444444444444444444444444

>d2d8xa1 g.39.1.3 (A:33-64) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=94.19  E-value=0.029  Score=27.65  Aligned_cols=29  Identities=17%  Similarity=0.340  Sum_probs=25.6

Q ss_pred             ccccCCccccCCCeEEEeCCeeecHHHHHH
Q psy7480         145 ACQQCNHRFCVGDRFYLCDNKILCEYDYEE  174 (204)
Q Consensus       145 ~C~~C~~~l~~~~~~~~~~~~~~C~~c~~~  174 (204)
                      +|..|...| ....|+-..|..+|.+|..+
T Consensus         1 rC~~C~~~L-AD~GFvKnagR~LCrpch~r   29 (32)
T d2d8xa1           1 RCDLCQEVL-ADIGFVKNAGRHLCRPCHNR   29 (32)
T ss_dssp             BCSSSCCBC-SSSCCEEETTEEECHHHHHH
T ss_pred             CchHHHhHH-HHhhhhhcccccccchhhhh
Confidence            588999999 77789988999999999875

>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=94.06  E-value=0.01  Score=29.00  Aligned_cols=28  Identities=14%  Similarity=0.294  Sum_probs=22.6

Q ss_pred             ccCCCcccCcCCCeEEeeCCeeccccccccc
Q psy7480          81 CGCCDCRLGEVGSTLYQKANLILCKRDYLRL  111 (204)
Q Consensus        81 C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~  111 (204)
                      |..|++.|.   ..-....|.+||..|..++
T Consensus         2 C~~Cgkelt---adArEl~geLyCLpChdKm   29 (31)
T d2cora1           2 CANCGKELT---ADARELKGELYCLPCHDKM   29 (31)
T ss_dssp             CSSSCCBCC---TTCEEETTEEECHHHHHTT
T ss_pred             ccccccccc---hhHHHhcCCEEEEeccccc
Confidence            788999997   3457889999999997654

>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=93.96  E-value=0.027  Score=29.25  Aligned_cols=30  Identities=27%  Similarity=0.549  Sum_probs=25.7

Q ss_pred             cccccCCccccCCCeEEEeCCeeecHHHHH
Q psy7480         144 FACQQCNHRFCVGDRFYLCDNKILCEYDYE  173 (204)
Q Consensus       144 f~C~~C~~~l~~~~~~~~~~~~~~C~~c~~  173 (204)
                      |.|+.|.+++..|++.......-+|..|-.
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            789999999988888888888889988854

>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=93.83  E-value=0.015  Score=28.36  Aligned_cols=28  Identities=32%  Similarity=0.562  Sum_probs=22.9

Q ss_pred             cccCCCcccCcCCCeEEeeCCeeccccccc
Q psy7480          80 KCGCCDCRLGEVGSTLYQKANLILCKRDYL  109 (204)
Q Consensus        80 ~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~  109 (204)
                      +|..|-.+|..  ..|..+|++++|..|..
T Consensus         1 RCaKC~hpLA~--E~F~aKd~kI~C~Kc~s   28 (31)
T d2cupa2           1 RCAKCLHPLAN--ETFVAKDNKILCNKCTT   28 (31)
T ss_dssp             CCSSSCCCTTS--SCCEEETTEEECHHHHT
T ss_pred             Cchhhcccccc--CcccccCCeEeeccccc
Confidence            57888899983  66899999999988753

>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=93.77  E-value=0.017  Score=28.56  Aligned_cols=26  Identities=27%  Similarity=0.655  Sum_probs=22.5

Q ss_pred             cccCCccccCCCeEEEeCCeeecHHHH
Q psy7480         146 CQQCNHRFCVGDRFYLCDNKILCEYDY  172 (204)
Q Consensus       146 C~~C~~~l~~~~~~~~~~~~~~C~~c~  172 (204)
                      |..|+..| .|..|...+..++|.+|-
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            67788888 888999999999998884

>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=93.64  E-value=0.021  Score=28.95  Aligned_cols=31  Identities=26%  Similarity=0.304  Sum_probs=25.9

Q ss_pred             CCCCccccccccccccceeEeecCccccccCc
Q psy7480          48 SGGLKECASCGKRITERFLLKALDLFWHEDCL   79 (204)
Q Consensus        48 ~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   79 (204)
                      ..+..+|.+|...|.+. -+...+..||+..|
T Consensus         5 glGk~vC~KCh~iIdd~-pL~Fr~d~YHp~HF   35 (35)
T d2cora2           5 GLGKYICQKCHAIIDEQ-PLIFKNDPYHPDHF   35 (35)
T ss_dssp             CCCCCBCTTTCCBCCSC-CCCCSSSCCCTTTS
T ss_pred             chhhHHHHHHHhhhhcC-cceecCCCCCCCCC
Confidence            34677899999999887 47889999999876

>d1rutx4 g.39.1.3 (X:114-146) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.52  E-value=0.043  Score=27.02  Aligned_cols=28  Identities=25%  Similarity=0.553  Sum_probs=22.8

Q ss_pred             cccCCCcccCcCCCeEEeeCCeecccccc
Q psy7480          80 KCGCCDCRLGEVGSTLYQKANLILCKRDY  108 (204)
Q Consensus        80 ~C~~C~~~L~~~~~~~~~~~g~~~C~~cy  108 (204)
                      .|+.|...|- .+..|...+|.+||+.+-
T Consensus         1 tC~tC~n~LV-PGDRFHyvNG~lfCE~D~   28 (33)
T d1rutx4           1 TCSTCRNRLV-PGDRFHYINGSLFCEHDR   28 (33)
T ss_dssp             BCTTTCCBCC-TTCEEEEETTEEEEGGGC
T ss_pred             Cccccccccc-CCceeEEecCEEEEecCC
Confidence            4788888886 367888999999999764

>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=93.50  E-value=0.014  Score=29.70  Aligned_cols=26  Identities=35%  Similarity=0.639  Sum_probs=22.4

Q ss_pred             cccccCCccCCCceEEecCCcccccCcc
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLECF  144 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  144 (204)
                      .|.+|...|  +|.-+.+.+..||+..|
T Consensus        10 vC~KCh~iI--dd~pL~Fr~d~YHp~HF   35 (35)
T d2cora2          10 ICQKCHAII--DEQPLIFKNDPYHPDHF   35 (35)
T ss_dssp             BCTTTCCBC--CSCCCCCSSSCCCTTTS
T ss_pred             HHHHHHhhh--hcCcceecCCCCCCCCC
Confidence            799999988  45778899999999877

>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=93.29  E-value=0.033  Score=28.16  Aligned_cols=29  Identities=17%  Similarity=0.502  Sum_probs=22.8

Q ss_pred             CCccccccccccccc-eeEeecCccccccC
Q psy7480          50 GLKECASCGKRITER-FLLKALDLFWHEDC   78 (204)
Q Consensus        50 ~~~~C~~C~~~I~~~-~~~~~~~~~~H~~C   78 (204)
                      ....|.+|+..+... .++...|..||..|
T Consensus         6 ~~~~C~RC~~gF~p~EkiVNSnGEl~H~qC   35 (35)
T d1g47a1           6 ASATCERCKGGFAPAEKIVNSNGELYHEQC   35 (35)
T ss_dssp             CCCBCSSSCCBCCSTTTCEEETTEEECTTT
T ss_pred             HHHHHHHHccCCCchHHhhcCCCccccccC
Confidence            345799999888765 56788999999876

>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=93.14  E-value=0.018  Score=28.96  Aligned_cols=31  Identities=10%  Similarity=0.295  Sum_probs=23.8

Q ss_pred             ccccCCCcccCcCCCeE-EeeCCeecccccccc
Q psy7480          79 LKCGCCDCRLGEVGSTL-YQKANLILCKRDYLR  110 (204)
Q Consensus        79 f~C~~C~~~L~~~~~~~-~~~~g~~~C~~cy~~  110 (204)
                      |.|..|+.-+++. ..| .....++||-.||.+
T Consensus         1 F~C~~C~~fIgdg-dsyaLVerskLYCG~Cy~~   32 (34)
T d1x6aa2           1 FACMSCKVIIEDG-DAYALVQHATLYCGKCHNE   32 (34)
T ss_dssp             CBCTTTCCBCCTT-SCEEECSSSCEEEHHHHHH
T ss_pred             CcccccccEEecC-ceEEEEeeceeeeecchhc
Confidence            6788899999864 445 456679999999875

>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=93.03  E-value=0.0067  Score=29.92  Aligned_cols=28  Identities=18%  Similarity=0.423  Sum_probs=22.5

Q ss_pred             cccCCCcccCcCCCeEEeeCCeeccccccc
Q psy7480          80 KCGCCDCRLGEVGSTLYQKANLILCKRDYL  109 (204)
Q Consensus        80 ~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~  109 (204)
                      .|+.|+..|..  ..+|..++++||+.+..
T Consensus         1 vC~dCg~NLKq--rG~Ffve~~lyCE~HAr   28 (31)
T d1x62a1           1 VCTDCGTNLKQ--KGHFFVEDQIYCEKHAR   28 (31)
T ss_dssp             SCSSSCCCHHH--HCCEESSSCEECHHHHH
T ss_pred             CccccccChhh--cceEEeccEEehhhhhh
Confidence            38899999985  44788899999998754

>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=90.33  E-value=0.07  Score=27.93  Aligned_cols=27  Identities=19%  Similarity=0.547  Sum_probs=19.9

Q ss_pred             cccccCCccCCCceEEecCCcccccCc
Q psy7480         117 YCAACTKVIPAFEMVMRAKNNVYHLEC  143 (204)
Q Consensus       117 ~C~~C~~~I~~~~~~~~~~~~~~H~~C  143 (204)
                      .|++|++.....++.....+..||+.|
T Consensus         1 ~C~rC~~mF~EGEEMYLQGs~IWHP~C   27 (41)
T d1wiga2           1 LCVRCGQMFAEGEEMYLQGSSIWHPAC   27 (41)
T ss_dssp             CCSSSCCCCCSSCCCEEETTEEECTTH
T ss_pred             CcchhhccccccceeeecCCceeCCcc
Confidence            389999988654444456688999976

>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=89.19  E-value=0.13  Score=32.55  Aligned_cols=44  Identities=23%  Similarity=0.415  Sum_probs=31.9

Q ss_pred             ccccCCCcccCcCCCeEE-eeCCeecccccccccccCcccccccCCccCC
Q psy7480          79 LKCGCCDCRLGEVGSTLY-QKANLILCKRDYLRLFGTTGYCAACTKVIPA  127 (204)
Q Consensus        79 f~C~~C~~~L~~~~~~~~-~~~g~~~C~~cy~~~~~~~~~C~~C~~~I~~  127 (204)
                      +.|..|...+.   .... ..-|+.||..|..+.+..  .|..|+.++..
T Consensus        23 l~C~IC~~~~~---~pv~~~~CgH~fC~~Ci~~~~~~--~CP~Cr~~~~~   67 (97)
T d1jm7b_          23 LRCSRCTNILR---EPVCLGGCEHIFCSNCVSDCIGT--GCPVCYTPAWI   67 (97)
T ss_dssp             TSCSSSCSCCS---SCBCCCSSSCCBCTTTGGGGTTT--BCSSSCCBCSC
T ss_pred             CCCccCCchhh---cCceeCCCCCchhHHHHHHHHhc--cccccCCcCch
Confidence            57888888776   2333 356888999998777765  78888877754

>d2co8a1 g.39.1.3 (A:44-76) Nedd9 interacting protein with calponin homology, NICAL (MICAL1) {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=86.64  E-value=0.088  Score=26.00  Aligned_cols=30  Identities=17%  Similarity=0.342  Sum_probs=21.3

Q ss_pred             cccCCCcccCcCCCeEEeeCCeeccccccc
Q psy7480          80 KCGCCDCRLGEVGSTLYQKANLILCKRDYL  109 (204)
Q Consensus        80 ~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~  109 (204)
                      +|..|...|...+-.....+|.+||..+.-
T Consensus         1 rC~~CeatL~pG~Y~qhp~dghfyc~~hlp   30 (33)
T d2co8a1           1 RCHTCEATLWPGGYEQHPGDGHFYCLQHLP   30 (33)
T ss_dssp             BCSSSCCBCCTTSEECCTTTCCCEETTTCC
T ss_pred             CceeeeeEEccCcccCCCCCceEeeeeccC
Confidence            578899998754433346788999987653

>d1x4la2 g.39.1.3 (A:37-66) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.33  E-value=0.28  Score=23.25  Aligned_cols=27  Identities=30%  Similarity=0.627  Sum_probs=21.9

Q ss_pred             cccCCccccCCCeEEEeCCeeecHHHHH
Q psy7480         146 CQQCNHRFCVGDRFYLCDNKILCEYDYE  173 (204)
Q Consensus       146 C~~C~~~l~~~~~~~~~~~~~~C~~c~~  173 (204)
                      |..|...| .|..|...-+.++|.+|-.
T Consensus         2 c~kcsvsl-vgrgflterddilc~dcgk   28 (30)
T d1x4la2           2 CKKCSLSL-VGRGFLTERDDILCPDCGK   28 (30)
T ss_dssp             CSSSCCBC-TTSCCEECSSSEECHHHHH
T ss_pred             cceeeEEE-EeeeccccccceeccccCc
Confidence            66788888 7888988878899998853

>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=86.11  E-value=0.24  Score=24.17  Aligned_cols=28  Identities=25%  Similarity=0.567  Sum_probs=22.8

Q ss_pred             cccCCCcccCcCCCeEEeeCCeeccccccc
Q psy7480          80 KCGCCDCRLGEVGSTLYQKANLILCKRDYL  109 (204)
Q Consensus        80 ~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~  109 (204)
                      +|..|...|.+.|  |.-..|+.+|..|..
T Consensus         1 rC~~C~~~LAD~G--FvKnagR~LCrpch~   28 (32)
T d2d8xa1           1 RCDLCQEVLADIG--FVKNAGRHLCRPCHN   28 (32)
T ss_dssp             BCSSSCCBCSSSC--CEEETTEEECHHHHH
T ss_pred             CchHHHhHHHHhh--hhhcccccccchhhh
Confidence            5888999998644  888889999988864

>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=85.99  E-value=0.37  Score=23.56  Aligned_cols=26  Identities=27%  Similarity=0.630  Sum_probs=19.4

Q ss_pred             ccCCCcccCcCCCeEEeeCCeecccccc
Q psy7480          81 CGCCDCRLGEVGSTLYQKANLILCKRDY  108 (204)
Q Consensus        81 C~~C~~~L~~~~~~~~~~~g~~~C~~cy  108 (204)
                      |..|+.+|-  +..|......++|.+|-
T Consensus         2 cgkcsvslv--g~gfltq~~~i~c~~cg   27 (34)
T d1x68a2           2 CGKCSVSLV--GKGFLTQNKEIFCQKCG   27 (34)
T ss_dssp             CTTTCCBCS--SSCEEEETTEEEETTTT
T ss_pred             CccceEEEE--eeeeeeccCcEEehhcC
Confidence            667788875  46688888888888774

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=85.42  E-value=0.15  Score=28.88  Aligned_cols=46  Identities=13%  Similarity=0.058  Sum_probs=32.8

Q ss_pred             cccCCCcccCcCCCeEEe-eCCeecccccccccccCcccccccCCccCCC
Q psy7480          80 KCGCCDCRLGEVGSTLYQ-KANLILCKRDYLRLFGTTGYCAACTKVIPAF  128 (204)
Q Consensus        80 ~C~~C~~~L~~~~~~~~~-~~g~~~C~~cy~~~~~~~~~C~~C~~~I~~~  128 (204)
                      .|..|...+.   ..... ..|..||..|..+.+...+.|..|++++...
T Consensus         2 ~C~Ic~~~~~---~Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~   48 (56)
T d2baya1           2 LCAISGKVPR---RPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIE   48 (56)
T ss_dssp             CCTTTCSCCS---SEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGG
T ss_pred             CCccCCchHH---hcCccCCCCCcccHHHHHHHHhhccCCCccCCcCCHH
Confidence            5777877775   45555 5799999998766544334899999988653

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.19  E-value=0.29  Score=27.75  Aligned_cols=43  Identities=21%  Similarity=0.379  Sum_probs=26.6

Q ss_pred             ccccCCCcccCcCCCeEEeeCCeecccccccccccCcccccccCCccCC
Q psy7480          79 LKCGCCDCRLGEVGSTLYQKANLILCKRDYLRLFGTTGYCAACTKVIPA  127 (204)
Q Consensus        79 f~C~~C~~~L~~~~~~~~~~~g~~~C~~cy~~~~~~~~~C~~C~~~I~~  127 (204)
                      +.|..|...+.+   .....-|..||..|..+. ..  +|..|...|..
T Consensus         7 l~C~IC~~~~~~---p~~lpCgH~fC~~Ci~~~-~~--~CP~Cr~~~~~   49 (56)
T d1bora_           7 LRCQQCQAEAKC---PKLLPCLHTLCSGCLEAS-GM--QCPICQAPWPL   49 (56)
T ss_dssp             SSCSSSCSSCBC---CSCSTTSCCSBTTTCSSS-SS--SCSSCCSSSSC
T ss_pred             CCCcccCcccCC---CEEecCCCHHhHHHHHcC-CC--cCcCCCCcccC
Confidence            456666665542   233445677777776543 22  78888888754