Psyllid ID: psy11756

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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-------210-------220-------230---
Protein Sequence
MTFFSRSPAPSPLLGQGDETDVDVSEALDPPPNAASTMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSEKGREEGKNDTSSYFEEDEEED
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccccccccccccEEEccccccccccccccccccccccccEEEccccccHHHHHHcccccccccccccccccEEEcccccccccccccccccccccccEEEEccccccHHHHHHccccccccccccccccEEEEccccccccccccccccccccccccEEcccEEEcHHHHHccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccHHccccccccccHHHHcccccHHccccccccEEEEcccccccccEEEHHccccccccccEccccccccHHHHHHHcccHHHHccccccHHHHHHcccccccccEEEHHcccccccccEEccccccccHHHHHHHHcccccccccccHHHHHHHHccccccccEEEHHEccccccccccccccccccHHHHHHHHccccccccccEccccccc
Coil and Loop (DISEMBL)
mtffsrspapspllgqgdetdvdvsealdpppnaastmypkcaACQGLIQNIIVQAldktwhpehfrcthcripiatqkfhvhagspycvEDYASLFLnkcqgcrlpiKDVVVTAlnqtwhpdhfvciscgtklLYKGFYEREGNAfctacyegkfcpkcfgcgkpitetAIKVHDRKWHeacfrcgrcrrpisgptfrvcEADVVCVECsekgreegkndtssyfeedeeed
Flexible Loop (DISEMBL)
mtffsrspapspllgqgdETDVDVSEALDPPPNAASTMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRcrrpisgptfrvcEADVVCVEcsekgreegkndtssyfeedeeed
Low Complexity Region (SEG)
MTFFSRSPAPSPLLGQGDETDVDVSEALDPPPNAASTMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSEKGREEGKNDTSSYFEEDEEED
Disordered region (IsUnstruct)
*************************************MYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC***********************
Disordered Region (DISOPRED)
*****************************PPPNAASTMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSE*********************
Disordered Region (DISEMBL)
*************LGQGDETDVDVSEALDPPPNAASTMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC***********************
Disordered Region (DISPRO)
**************************ALDPPPNAASTMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSEKGREEGKNDTSSYFE******
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTFFSRSPAPSPLLGQGDETDVDVSEALDPPPNAASTMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSEKGREEGKNDTSSYFEEDEEED
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	233	2.2.26 [Sep-21-2011]
Q66H76	586	Paxillin OS=Rattus norveg	yes	N/A	0.673	0.267	0.458	1e-36
Q8VI36	591	Paxillin OS=Mus musculus	yes	N/A	0.673	0.265	0.458	1e-36
P49023	591	Paxillin OS=Homo sapiens	yes	N/A	0.673	0.265	0.452	3e-36
Q5R7I1	591	Paxillin OS=Pongo abelii	yes	N/A	0.673	0.265	0.452	3e-36
P49024	559	Paxillin OS=Gallus gallus	yes	N/A	0.673	0.280	0.452	3e-36
O60711	386	Leupaxin OS=Homo sapiens	no	N/A	0.669	0.404	0.426	4e-35
Q9N261	386	Leupaxin OS=Oryctolagus c	no	N/A	0.635	0.383	0.432	5e-34
Q99N69	386	Leupaxin OS=Mus musculus	no	N/A	0.635	0.383	0.418	1e-33
Q62219	461	Transforming growth facto	no	N/A	0.712	0.360	0.391	4e-31
Q99PD6	461	Transforming growth facto	no	N/A	0.712	0.360	0.391	9e-31

>sp|Q66H76|PAXI_RAT Paxillin OS=Rattus norvegicus GN=Pxn PE=1 SV=1

 Score =  153 bits (386), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 72/157 (45%), Positives = 91/157 (57%)

Query: 42  CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC 101
           C AC+  I   +V A+ KTWHPEHF CTHC+  I ++ F    G PYC +DY SLF  +C
Sbjct: 353 CGACKKPIAGQVVTAMGKTWHPEHFVCTHCQEEIGSRNFFERDGQPYCEKDYHSLFSPRC 412

Query: 102 QGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF 161
             C  PI D VVTAL++TWHP+HF C  CG     +GF+E++G A+C   Y   F PKC 
Sbjct: 413 YYCNGPILDKVVTALDRTWHPEHFFCAQCGAFFGPEGFHEKDGKAYCRKDYFDMFAPKCG 472

Query: 162 GCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTF 198
           GC + I E  I   +  WH  CF C  C  P    +F
Sbjct: 473 GCARAILENYISALNTLWHPECFVCRECFTPFVNGSF 509

Cytoskeletal protein involved in actin-membrane attachment at sites of cell adhesion to the extracellular matrix (focal adhesion).
Rattus norvegicus (taxid: 10116)

>sp|Q8VI36|PAXI_MOUSE Paxillin OS=Mus musculus GN=Pxn PE=1 SV=1

 Score =  153 bits (386), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 72/157 (45%), Positives = 91/157 (57%)

Query: 42  CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC 101
           C AC+  I   +V A+ KTWHPEHF CTHC+  I ++ F    G PYC +DY SLF  +C
Sbjct: 358 CGACKKPIAGQVVTAMGKTWHPEHFVCTHCQEEIGSRNFFERDGQPYCEKDYHSLFSPRC 417

Query: 102 QGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF 161
             C  PI D VVTAL++TWHP+HF C  CG     +GF+E++G A+C   Y   F PKC 
Sbjct: 418 YYCNGPILDKVVTALDRTWHPEHFFCAQCGAFFGPEGFHEKDGKAYCRKDYFDMFAPKCG 477

Query: 162 GCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTF 198
           GC + I E  I   +  WH  CF C  C  P    +F
Sbjct: 478 GCARAILENYISALNTLWHPECFVCRECFTPFVNGSF 514

Cytoskeletal protein involved in actin-membrane attachment at sites of cell adhesion to the extracellular matrix (focal adhesion).

Mus musculus (taxid: 10090)

>sp|P49023|PAXI_HUMAN Paxillin OS=Homo sapiens GN=PXN PE=1 SV=3

 Score =  152 bits (383), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 71/157 (45%), Positives = 91/157 (57%)

Query: 42  CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC 101
           C AC+  I   +V A+ KTWHPEHF CTHC+  I ++ F    G PYC +DY +LF  +C
Sbjct: 358 CGACKKPIAGQVVTAMGKTWHPEHFVCTHCQEEIGSRNFFERDGQPYCEKDYHNLFSPRC 417

Query: 102 QGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF 161
             C  PI D VVTAL++TWHP+HF C  CG     +GF+E++G A+C   Y   F PKC 
Sbjct: 418 YYCNGPILDKVVTALDRTWHPEHFFCAQCGAFFGPEGFHEKDGKAYCRKDYFDMFAPKCG 477

Query: 162 GCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTF 198
           GC + I E  I   +  WH  CF C  C  P    +F
Sbjct: 478 GCARAILENYISALNTLWHPECFVCRECFTPFVNGSF 514

Cytoskeletal protein involved in actin-membrane attachment at sites of cell adhesion to the extracellular matrix (focal adhesion).

Homo sapiens (taxid: 9606)

>sp|Q5R7I1|PAXI_PONAB Paxillin OS=Pongo abelii GN=PXN PE=2 SV=1

 Score =  151 bits (382), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 71/157 (45%), Positives = 91/157 (57%)

Query: 42  CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC 101
           C AC+  I   +V A+ KTWHPEHF CTHC+  I ++ F    G PYC +DY +LF  +C
Sbjct: 358 CGACKKPIAGQVVTAMGKTWHPEHFVCTHCQEEIGSRNFFERDGQPYCEKDYHNLFSPRC 417

Query: 102 QGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF 161
             C  PI D VVTAL++TWHP+HF C  CG     +GF+E++G A+C   Y   F PKC 
Sbjct: 418 YYCNGPILDKVVTALDRTWHPEHFFCAQCGAFFGPEGFHEKDGKAYCRKDYFDMFAPKCG 477

Query: 162 GCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTF 198
           GC + I E  I   +  WH  CF C  C  P    +F
Sbjct: 478 GCARAILENYISALNTLWHPECFVCRECFTPFVNGSF 514

Cytoskeletal protein involved in actin-membrane attachment at sites of cell adhesion to the extracellular matrix (focal adhesion).

Pongo abelii (taxid: 9601)

>sp|P49024|PAXI_CHICK Paxillin OS=Gallus gallus GN=PXN PE=1 SV=1

 Score =  151 bits (382), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 71/157 (45%), Positives = 91/157 (57%)

Query: 42  CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC 101
           C AC+  I   +V A+ KTWHPEHF CTHC+  I ++ F    G PYC +DY +LF  +C
Sbjct: 326 CGACKKPIAGQVVTAMGKTWHPEHFVCTHCQEEIGSRNFFERDGQPYCEKDYHNLFSPRC 385

Query: 102 QGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF 161
             C  PI D VVTAL++TWHP+HF C  CG     +GF+E++G A+C   Y   F PKC 
Sbjct: 386 YYCNGPILDKVVTALDRTWHPEHFFCAQCGVFFGPEGFHEKDGKAYCRKDYFDMFAPKCG 445

Query: 162 GCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTF 198
           GC + I E  I   +  WH  CF C  C  P    +F
Sbjct: 446 GCARAILENYISALNTLWHPECFVCRECFTPFINGSF 482

Cytoskeletal protein involved in actin-membrane attachment at sites of cell adhesion to the extracellular matrix (focal adhesion). Binds in vitro to vinculin as well as to the SH3 domain of c-SRC and, when tyrosine phosphorylated, to the SH2 domain of v-CRK.

Gallus gallus (taxid: 9031)

>sp|O60711|LPXN_HUMAN Leupaxin OS=Homo sapiens GN=LPXN PE=1 SV=1

 Score =  147 bits (372), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 67/157 (42%), Positives = 89/157 (56%)

Query: 42  CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC 101
           CA+CQ  I   ++ AL ++WHPEHF CTHC+  I +  F   +G  YC  DY  LF  +C
Sbjct: 152 CASCQKPIAGKVIHALGQSWHPEHFVCTHCKEEIGSSPFFERSGLAYCPNDYHQLFSPRC 211

Query: 102 QGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF 161
             C  PI D V+TA+NQTWHP+HF C  CG     +GF+E++   +C   +   F PKC 
Sbjct: 212 AYCAAPILDKVLTAMNQTWHPEHFFCSHCGEVFGAEGFHEKDKKPYCRKDFLAMFSPKCG 271

Query: 162 GCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTF 198
           GC +P+ E  +   D  WH  CF CG C    S  +F
Sbjct: 272 GCNRPVLENYLSAMDTVWHPECFVCGDCFTSFSTGSF 308

Transcriptional coactivator for androgen receptor (AR) and serum response factor (SRF). Contributes to the regulation of cell adhesion, spreading and cell migration and acts as a negative regulator in integrin-mediated cell adhesion events. Suppresses the integrin-induced tyrosine phosphorylation of paxillin (PXN). May play a critical role as an adapter protein in the formation of the adhesion zone in osteoclasts. Negatively regulates B-cell antigen receptor (BCR) signaling.

Homo sapiens (taxid: 9606)

>sp|Q9N261|LPXN_RABIT Leupaxin OS=Oryctolagus cuniculus GN=LPXN PE=2 SV=1

 Score =  144 bits (363), Expect = 5e-34,   Method: Compositional matrix adjust.
 Identities = 64/148 (43%), Positives = 87/148 (58%)

Query: 42  CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC 101
           CA+CQ  I   ++ AL ++WHPEHF CTHC+  I +  F   +G  YC +DY  LF  +C
Sbjct: 152 CASCQKPIVGKVIHALGQSWHPEHFICTHCKEEIGSSPFFERSGLAYCPKDYHHLFSPRC 211

Query: 102 QGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF 161
             C  PI D V+TA+NQTWHP+HF C  CG     +GF+E++   +C   +   F PKC 
Sbjct: 212 AYCAAPILDKVLTAMNQTWHPEHFFCSHCGEVFGTEGFHEKDKKPYCRKDFLAMFSPKCG 271

Query: 162 GCGKPITETAIKVHDRKWHEACFRCGRC 189
           GC +P+ E  +   +  WH  CF CG C
Sbjct: 272 GCNRPVLENYLSAMNTVWHPECFVCGDC 299

Transcriptional coactivator for androgen receptor (AR) and serum response factor (SRF). Contributes to the regulation of cell adhesion, spreading and cell migration and acts as a negative regulator in integrin-mediated cell adhesion events. Suppresses the integrin-induced tyrosine phosphorylation of paxillin (PXN). May play a critical role as an adapter protein in the formation of the adhesion zone in osteoclasts. Negatively regulates B-cell antigen receptor (BCR) signaling.

Oryctolagus cuniculus (taxid: 9986)

>sp|Q99N69|LPXN_MOUSE Leupaxin OS=Mus musculus GN=Lpxn PE=1 SV=2

 Score =  143 bits (360), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 62/148 (41%), Positives = 87/148 (58%)

Query: 42  CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC 101
           CA+CQ  I   ++ AL ++WHPEHF CTHC+  + +  F   +G  YC +DY  LF  +C
Sbjct: 152 CASCQKPIAGKVIHALGQSWHPEHFVCTHCKEELGSSPFFERSGLAYCSKDYHRLFSPRC 211

Query: 102 QGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF 161
             C  PI D V+TA+N+TWHP+HF C  CG     +GF+E++   +C   +   F PKC 
Sbjct: 212 AYCAAPITDKVLTAMNKTWHPEHFFCSHCGEVFGAEGFHEKDKKPYCRKDFLAMFSPKCG 271

Query: 162 GCGKPITETAIKVHDRKWHEACFRCGRC 189
           GC +P+ E  +   +  WH  CF CG C
Sbjct: 272 GCNRPVLENYLSAMNTVWHPECFVCGDC 299

Transcriptional coactivator for androgen receptor (AR) and serum response factor (SRF). Contributes to the regulation of cell adhesion, spreading and cell migration and acts as a negative regulator in integrin-mediated cell adhesion events. Suppresses the integrin-induced tyrosine phosphorylation of paxillin (PXN). May play a critical role as an adapter protein in the formation of the adhesion zone in osteoclasts. Negatively regulates B-cell antigen receptor (BCR) signaling.

Mus musculus (taxid: 10090)

>sp|Q62219|TGFI1_MOUSE Transforming growth factor beta-1-induced transcript 1 protein OS=Mus musculus GN=Tgfb1i1 PE=1 SV=2

 Score =  135 bits (339), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 65/166 (39%), Positives = 85/166 (51%)

Query: 42  CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC 101
           C +C   I   +V AL + WHPEHF C+ C   +    F    G+P+C E Y   F  +C
Sbjct: 228 CGSCNKPIAGQVVTALGRAWHPEHFLCSGCSTTLGGSSFFEKDGAPFCPECYFERFSPRC 287

Query: 102 QGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF 161
             C  PI+  +VTAL   WHP+HF C+SCG     +GF+EREG  +C   +   F P+C 
Sbjct: 288 GFCNQPIRHKMVTALGTHWHPEHFCCVSCGEPFGEEGFHEREGRPYCRRDFLQLFAPRCQ 347

Query: 162 GCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVC 207
           GC  PI +  I      WH  CF C  C  P SG +F   E   +C
Sbjct: 348 GCQGPILDNYISALSALWHPDCFVCRECLAPFSGGSFFEHEGRPLC 393

Functions as a molecular adapter coordinating multiple protein-protein interactions at the focal adhesion complex and in the nucleus. Links various intracellular signaling modules to plasma membrane receptors and regulates the Wnt and TGFB signaling pathways. May also regulate SLC6A3 and SLC6A4 targeting to the plasma membrane hence regulating their activity. In the nucleus, functions as a nuclear receptor coactivator regulating glucocorticoid, androgen, mineralocorticoid and progesterone receptor transcriptional activity. May play a role in the processes of cell growth, proliferation, migration, differentiation and senescence. May have a zinc-dependent DNA-binding activity.

Mus musculus (taxid: 10090)

>sp|Q99PD6|TGFI1_RAT Transforming growth factor beta-1-induced transcript 1 protein OS=Rattus norvegicus GN=Tgfb1i1 PE=1 SV=2

 Score =  133 bits (335), Expect = 9e-31,   Method: Compositional matrix adjust.
 Identities = 65/166 (39%), Positives = 84/166 (50%)

Query: 42  CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC 101
           C +C   I   +V AL + WHPEHF C  C   +    F    G+P+C E Y   F  +C
Sbjct: 228 CGSCNKPIAGQVVTALGRAWHPEHFLCRGCSTTLGGSSFFEKDGAPFCPECYFERFSPRC 287

Query: 102 QGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF 161
             C  PI+  +VTAL   WHP+HF C+SCG     +GF+EREG  +C   +   F P+C 
Sbjct: 288 GFCNQPIRHKMVTALGTHWHPEHFCCVSCGEPFGEEGFHEREGRPYCRRDFLQLFAPRCQ 347

Query: 162 GCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVC 207
           GC  PI +  I      WH  CF C  C  P SG +F   E   +C
Sbjct: 348 GCQGPILDNYISALSALWHPDCFVCRECLAPFSGGSFFEHEGRPLC 393

Functions as a molecular adapter coordinating multiple protein-protein interactions at the focal adhesion complex and in the nucleus. Links various intracellular signaling modules to plasma membrane receptors and regulates the Wnt and TGFB signaling pathways. May also regulate SLC6A3 and SLC6A4 targeting to the plasma membrane hence regulating their activity. In the nucleus, functions as a nuclear receptor coactivator regulating glucocorticoid, androgen, mineralocorticoid and progesterone receptor transcriptional activity. May play a role in the processes of cell growth, proliferation, migration, differentiation and senescence. May have a zinc-dependent DNA-binding activity.

Rattus norvegicus (taxid: 10116)

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	233
242006668	188	LIM domain transcription factor LMO4, pu	0.699	0.867	0.460	1e-39
307174007	610	Paxillin [Camponotus floridanus]	0.579	0.221	0.443	4e-38
383863879	607	PREDICTED: paxillin-like [Megachile rotu	0.570	0.219	0.443	4e-38
307192546	621	Paxillin [Harpegnathos saltator]	0.579	0.217	0.443	4e-38
340714019	605	PREDICTED: paxillin-like [Bombus terrest	0.575	0.221	0.443	4e-38
380025706	607	PREDICTED: paxillin-like isoform 2 [Apis	0.575	0.220	0.443	4e-38
350421197	607	PREDICTED: paxillin-like [Bombus impatie	0.575	0.220	0.443	4e-38
328709648	424	PREDICTED: paxillin-like isoform 2 [Acyr	0.725	0.398	0.431	6e-38
190343829	449	paxillin [Hirudo medicinalis]	0.798	0.414	0.432	1e-37
322801395	440	hypothetical protein SINV_03131 [Solenop	0.725	0.384	0.443	1e-37

>gi|242006668|ref|XP_002424169.1| LIM domain transcription factor LMO4, putative [Pediculus humanus corporis] gi|212507510|gb|EEB11431.1| LIM domain transcription factor LMO4, putative [Pediculus humanus corporis]

 Score =  169 bits (427), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 75/163 (46%), Positives = 103/163 (63%)

Query: 53  IVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDVV 112
           IV AL +TWHPEHF C +C+ PI   +F+   G P+C E YA++FL +C  C LPIK+ +
Sbjct: 26  IVSALGRTWHPEHFSCFNCKKPITGDRFNQDKGLPFCEECYANIFLKRCFKCNLPIKEKI 85

Query: 113 VTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITETAI 172
           + AL Q WH +HF C  CG +L    F+E++  A+C  C+  KF PKC GC +PIT+TAI
Sbjct: 86  IVALEQFWHQEHFTCNDCGIELTGLSFFEKDNLAYCQNCHMQKFAPKCKGCSRPITDTAI 145

Query: 173 KVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSEKGR 215
                KWH+ CF C +C RP++  TF V E   +C  CS + +
Sbjct: 146 MALGEKWHQNCFLCSQCNRPVTEATFEVVEDRPICSNCSRQRK 188

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307174007|gb|EFN64717.1| Paxillin [Camponotus floridanus]

 Score =  164 bits (414), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 75/169 (44%), Positives = 98/169 (57%)

Query: 42  CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC 101
           C+AC+  I   ++ AL KTWHPEHF CTHC   + T+ F    G PYC  DY +LF  +C
Sbjct: 343 CSACEKPIVGQVITALGKTWHPEHFTCTHCNQELGTRNFFEREGHPYCETDYHNLFSPRC 402

Query: 102 QGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF 161
             C  PI D  VTAL +TWH +HF C  CG +   +GF+ER+G  +C   Y   F PKC 
Sbjct: 403 AYCNGPILDKCVTALEKTWHTEHFFCAQCGKQFGEEGFHERDGKPYCREDYFDMFAPKCG 462

Query: 162 GCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
           GC + I E  I   + +WH  CF C  C++P+SG +F   E   VC +C
Sbjct: 463 GCNRAIMENYISALNSQWHPDCFVCRDCKKPVSGKSFYAMEGQPVCPKC 511

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383863879|ref|XP_003707407.1| PREDICTED: paxillin-like [Megachile rotundata]

 Score =  164 bits (414), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 75/169 (44%), Positives = 98/169 (57%)

Query: 42  CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC 101
           C+AC+  I   ++ AL KTWHPEHF CTHC   + T+ F    G PYC  DY +LF  +C
Sbjct: 338 CSACEKPIVGQVITALGKTWHPEHFTCTHCNQELGTRNFFEREGHPYCEPDYHNLFSPRC 397

Query: 102 QGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF 161
             C  PI D  VTAL +TWH +HF C  CG +   +GF+ER+G  +C   Y   F PKC 
Sbjct: 398 AYCNGPILDKCVTALEKTWHTEHFFCAQCGKQFGEEGFHERDGKPYCREDYFDMFAPKCG 457

Query: 162 GCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
           GC + I E  I   + +WH  CF C  C++P+SG +F   E   VC +C
Sbjct: 458 GCNRAIMENYISALNSQWHPDCFVCRDCKKPVSGKSFYAMEGKPVCPKC 506

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307192546|gb|EFN75734.1| Paxillin [Harpegnathos saltator]

 Score =  164 bits (414), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 75/169 (44%), Positives = 98/169 (57%)

Query: 42  CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC 101
           C+AC+  I   ++ AL KTWHPEHF CTHC   + T+ F    G PYC  DY +LF  +C
Sbjct: 354 CSACEKPIVGQVITALGKTWHPEHFTCTHCNQELGTRNFFEREGHPYCETDYHNLFSPRC 413

Query: 102 QGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF 161
             C  PI D  VTAL +TWH +HF C  CG +   +GF+ER+G  +C   Y   F PKC 
Sbjct: 414 AYCNGPILDKCVTALEKTWHTEHFFCAQCGKQFGEEGFHERDGKPYCREDYFDMFAPKCG 473

Query: 162 GCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
           GC + I E  I   + +WH  CF C  C++P+SG +F   E   VC +C
Sbjct: 474 GCNRAIMENYISALNSQWHPDCFVCRDCKKPVSGKSFYAMEGQPVCPKC 522

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340714019|ref|XP_003395530.1| PREDICTED: paxillin-like [Bombus terrestris]

 Score =  163 bits (413), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 75/169 (44%), Positives = 98/169 (57%)

Query: 42  CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC 101
           C+AC+  I   ++ AL KTWHPEHF CTHC   + T+ F    G PYC  DY +LF  +C
Sbjct: 337 CSACEKPIVGQVITALGKTWHPEHFTCTHCNQELGTRNFFEREGHPYCEPDYHNLFSPRC 396

Query: 102 QGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF 161
             C  PI D  VTAL +TWH +HF C  CG +   +GF+ER+G  +C   Y   F PKC 
Sbjct: 397 AYCNGPILDKCVTALEKTWHTEHFFCAQCGKQFGEEGFHERDGKPYCREDYFDMFAPKCG 456

Query: 162 GCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
           GC + I E  I   + +WH  CF C  C++P+SG +F   E   VC +C
Sbjct: 457 GCNRAIMENYISALNSQWHPDCFVCRDCKKPVSGKSFYAMEGKPVCPKC 505

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380025706|ref|XP_003696609.1| PREDICTED: paxillin-like isoform 2 [Apis florea]

 Score =  163 bits (413), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 75/169 (44%), Positives = 98/169 (57%)

Query: 42  CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC 101
           C+AC+  I   ++ AL KTWHPEHF CTHC   + T+ F    G PYC  DY +LF  +C
Sbjct: 339 CSACEKPIVGQVITALGKTWHPEHFTCTHCNQELGTRNFFEREGHPYCEPDYHNLFSPRC 398

Query: 102 QGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF 161
             C  PI D  VTAL +TWH +HF C  CG +   +GF+ER+G  +C   Y   F PKC 
Sbjct: 399 AYCNGPILDKCVTALEKTWHTEHFFCAQCGKQFGEEGFHERDGKPYCREDYFDMFAPKCG 458

Query: 162 GCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
           GC + I E  I   + +WH  CF C  C++P+SG +F   E   VC +C
Sbjct: 459 GCNRAIMENYISALNSQWHPDCFVCRDCKKPVSGKSFYAMEGKPVCPKC 507

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350421197|ref|XP_003492766.1| PREDICTED: paxillin-like [Bombus impatiens]

 Score =  163 bits (413), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 75/169 (44%), Positives = 98/169 (57%)

Query: 42  CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC 101
           C+AC+  I   ++ AL KTWHPEHF CTHC   + T+ F    G PYC  DY +LF  +C
Sbjct: 339 CSACEKPIVGQVITALGKTWHPEHFTCTHCNQELGTRNFFEREGHPYCEPDYHNLFSPRC 398

Query: 102 QGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF 161
             C  PI D  VTAL +TWH +HF C  CG +   +GF+ER+G  +C   Y   F PKC 
Sbjct: 399 AYCNGPILDKCVTALEKTWHTEHFFCAQCGKQFGEEGFHERDGKPYCREDYFDMFAPKCG 458

Query: 162 GCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
           GC + I E  I   + +WH  CF C  C++P+SG +F   E   VC +C
Sbjct: 459 GCNRAIMENYISALNSQWHPDCFVCRDCKKPVSGKSFYAMEGKPVCPKC 507

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328709648|ref|XP_003244023.1| PREDICTED: paxillin-like isoform 2 [Acyrthosiphon pisum]

 Score =  163 bits (412), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 73/169 (43%), Positives = 95/169 (56%)

Query: 42  CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC 101
           C AC   I   ++ AL KTWHPEHF C HC   + T+ F    G PYC  DY +LF  +C
Sbjct: 249 CTACDKAIVGQVITALGKTWHPEHFTCNHCSQELGTRNFFEREGRPYCEPDYHNLFSPRC 308

Query: 102 QGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF 161
             C  PI D  VTAL +TWH +HF C  CG +   +GF+EREG  +C   Y   F PKC 
Sbjct: 309 AYCNGPILDKCVTALEKTWHTEHFFCAQCGKQFGEEGFHEREGRPYCKDDYFDMFAPKCG 368

Query: 162 GCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
           GC +PI E  +     +WH +CF C  C++P++G +F   E    C +C
Sbjct: 369 GCTRPIMENYVSALSTQWHSSCFVCRDCKQPVTGKSFYAIEGKPACAKC 417

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|190343829|gb|ACE75737.1| paxillin [Hirudo medicinalis]

 Score =  162 bits (410), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 83/192 (43%), Positives = 106/192 (55%), Gaps = 6/192 (3%)

Query: 13  LLGQGDETDVDVSEAL-DPPPNA---ASTMYPK--CAACQGLIQNIIVQALDKTWHPEHF 66
            LG G  TDV+++  L D   N     + + P+  CA C  LI   ++ AL + WHPEHF
Sbjct: 181 FLGDGSSTDVNLNAMLEDLNKNMTVQGAGVVPRGHCAGCAKLIVGQVITALGRLWHPEHF 240

Query: 67  RCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFV 126
            C  C+  I TQ F    G PYC  DY  LF  +C  C  PI D  VTAL++TWHP+HFV
Sbjct: 241 VCAQCKEEIGTQNFFERDGMPYCENDYHILFSPQCAQCHGPILDKCVTALDKTWHPEHFV 300

Query: 127 CISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRC 186
           C SCG +L   GF+E++G  FC   Y   F PKC  C KPI E  I   +++WH  CF C
Sbjct: 301 CYSCGKELGDVGFHEKDGLVFCRTYYFQHFAPKCVMCNKPIVENFITALNQQWHPKCFAC 360

Query: 187 GRCRRPISGPTF 198
             C +P    +F
Sbjct: 361 FDCHKPFGSSSF 372

Source: Hirudo medicinalis

Species: Hirudo medicinalis

Genus: Hirudo

Family: Hirudinidae

Order: Arhynchobdellida

Class: Hirudinida

Phylum: Annelida

Superkingdom: Eukaryota

>gi|322801395|gb|EFZ22056.1| hypothetical protein SINV_03131 [Solenopsis invicta]

 Score =  162 bits (410), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 75/169 (44%), Positives = 96/169 (56%)

Query: 42  CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC 101
           C AC+  I   ++ AL KTWHPEHF CTHC   + T+ F    G PYC  DY +LF  +C
Sbjct: 258 CNACEKPIVGQVITALGKTWHPEHFTCTHCNQELGTRNFFEREGHPYCETDYHNLFSPRC 317

Query: 102 QGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF 161
             C  PI D  VTAL +TWH +HF C  CG +   +GF+ER+G  +C   Y   F PKC 
Sbjct: 318 AYCNGPILDKCVTALEKTWHTEHFFCAQCGKQFGEEGFHERDGKPYCREDYFDMFAPKCG 377

Query: 162 GCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
           GC + I E  I   + +WH  CF C  C+ P+SG +F   E   VC +C
Sbjct: 378 GCNRAIMENYISALNSQWHPDCFVCRDCKNPVSGKSFYAMEGQPVCPKC 426

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	233
MGI|MGI:108295	591	Pxn "paxillin" [Mus musculus (	0.824	0.324	0.419	1.3e-38
RGD|1305759	586	Pxn "paxillin" [Rattus norvegi	0.824	0.327	0.419	1.3e-38
UNIPROTKB|F1M1Z5	591	Pxn "Paxillin" [Rattus norvegi	0.824	0.324	0.419	1.3e-38
UNIPROTKB|Q66H76	586	Pxn "Paxillin" [Rattus norvegi	0.824	0.327	0.419	1.3e-38
UNIPROTKB|F1NB68	559	PXN "Paxillin" [Gallus gallus	0.824	0.343	0.419	2.1e-38
UNIPROTKB|P49024	559	PXN "Paxillin" [Gallus gallus	0.824	0.343	0.419	2.1e-38
UNIPROTKB|F1MFD1	586	PXN "Uncharacterized protein"	0.712	0.283	0.439	3.4e-38
UNIPROTKB|E7EMK8	403	PXN "Paxillin" [Homo sapiens (	0.673	0.389	0.455	3.4e-38
UNIPROTKB|F5GZ78	589	PXN "Paxillin" [Homo sapiens (	0.673	0.266	0.455	3.4e-38
UNIPROTKB|F1PUT6	590	PXN "Uncharacterized protein"	0.673	0.266	0.455	3.5e-38

MGI|MGI:108295 Pxn "paxillin" [Mus musculus (taxid:10090)]

 Score = 413 (150.4 bits), Expect = 1.3e-38, P = 1.3e-38
 Identities = 83/198 (41%), Positives = 107/198 (54%)

Query:     5 SRSPAPSPLLGQGDETDVDVSEALDPPPN---AASTMYPKCAACQGLIQNIIVQALDKTW 61
             S SP P  L   G + D  +  +L    N    A+     C AC+  I   +V A+ KTW
Sbjct:   320 SSSP-PGGLSKPGSQLD-SMLGSLQSDLNKLGVATVAKGVCGACKKPIAGQVVTAMGKTW 377

Query:    62 HPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWH 121
             HPEHF CTHC+  I ++ F    G PYC +DY SLF  +C  C  PI D VVTAL++TWH
Sbjct:   378 HPEHFVCTHCQEEIGSRNFFERDGQPYCEKDYHSLFSPRCYYCNGPILDKVVTALDRTWH 437

Query:   122 PDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHE 181
             P+HF C  CG     +GF+E++G A+C   Y   F PKC GC + I E  I   +  WH 
Sbjct:   438 PEHFFCAQCGAFFGPEGFHEKDGKAYCRKDYFDMFAPKCGGCARAILENYISALNTLWHP 497

Query:   182 ACFRCGRCRRP-ISGPTF 198
              CF C  C  P ++G  F
Sbjct:   498 ECFVCRECFTPFVNGSFF 515

GO:0000187 "activation of MAPK activity" evidence=IDA

GO:0005178 "integrin binding" evidence=ISO

GO:0005515 "protein binding" evidence=IPI

GO:0005737 "cytoplasm" evidence=IEA

GO:0005856 "cytoskeleton" evidence=IEA

GO:0005886 "plasma membrane" evidence=ISO

GO:0005925 "focal adhesion" evidence=ISO;IDA;TAS

GO:0006928 "cellular component movement" evidence=IMP

GO:0007010 "cytoskeleton organization" evidence=IMP

GO:0007155 "cell adhesion" evidence=IEA

GO:0007160 "cell-matrix adhesion" evidence=IEA

GO:0007229 "integrin-mediated signaling pathway" evidence=IMP;TAS

GO:0008013 "beta-catenin binding" evidence=ISO

GO:0008270 "zinc ion binding" evidence=IEA

GO:0017166 "vinculin binding" evidence=ISO

GO:0018108 "peptidyl-tyrosine phosphorylation" evidence=IDA

GO:0019901 "protein kinase binding" evidence=ISO

GO:0030027 "lamellipodium" evidence=ISO;IDA

GO:0030032 "lamellipodium assembly" evidence=IDA

GO:0030054 "cell junction" evidence=IEA

GO:0030159 "receptor signaling complex scaffold activity" evidence=TAS

GO:0031252 "cell leading edge" evidence=IDA

GO:0032403 "protein complex binding" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

GO:0048041 "focal adhesion assembly" evidence=IDA

GO:0048754 "branching morphogenesis of an epithelial tube" evidence=IDA

GO:0051435 "BH4 domain binding" evidence=IPI

GO:0060396 "growth hormone receptor signaling pathway" evidence=ISO

RGD|1305759 Pxn "paxillin" [Rattus norvegicus (taxid:10116)]

 Score = 413 (150.4 bits), Expect = 1.3e-38, P = 1.3e-38
 Identities = 83/198 (41%), Positives = 107/198 (54%)

Query:     5 SRSPAPSPLLGQGDETDVDVSEALDPPPN---AASTMYPKCAACQGLIQNIIVQALDKTW 61
             S SP P  L   G + D  +  +L    N    A+     C AC+  I   +V A+ KTW
Sbjct:   315 SSSP-PGGLSKPGSQLD-SMLGSLQSDLNKLGVATVAKGVCGACKKPIAGQVVTAMGKTW 372

Query:    62 HPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWH 121
             HPEHF CTHC+  I ++ F    G PYC +DY SLF  +C  C  PI D VVTAL++TWH
Sbjct:   373 HPEHFVCTHCQEEIGSRNFFERDGQPYCEKDYHSLFSPRCYYCNGPILDKVVTALDRTWH 432

Query:   122 PDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHE 181
             P+HF C  CG     +GF+E++G A+C   Y   F PKC GC + I E  I   +  WH 
Sbjct:   433 PEHFFCAQCGAFFGPEGFHEKDGKAYCRKDYFDMFAPKCGGCARAILENYISALNTLWHP 492

Query:   182 ACFRCGRCRRP-ISGPTF 198
              CF C  C  P ++G  F
Sbjct:   493 ECFVCRECFTPFVNGSFF 510

GO:0000187 "activation of MAPK activity" evidence=IEA;ISO

GO:0005178 "integrin binding" evidence=IPI

GO:0005856 "cytoskeleton" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA;ISO

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

GO:0005938 "cell cortex" evidence=IEA

GO:0006928 "cellular component movement" evidence=IEA;ISO

GO:0007010 "cytoskeleton organization" evidence=IEA;ISO

GO:0007160 "cell-matrix adhesion" evidence=IEA

GO:0007229 "integrin-mediated signaling pathway" evidence=IEA;ISO

GO:0008013 "beta-catenin binding" evidence=IEA;ISO

GO:0008270 "zinc ion binding" evidence=IEA

GO:0017166 "vinculin binding" evidence=IEA;ISO

GO:0018108 "peptidyl-tyrosine phosphorylation" evidence=IEA;ISO

GO:0019901 "protein kinase binding" evidence=IPI

GO:0030027 "lamellipodium" evidence=IEA;ISO

GO:0030032 "lamellipodium assembly" evidence=IEA;ISO

GO:0031252 "cell leading edge" evidence=ISO

GO:0032403 "protein complex binding" evidence=IPI

GO:0034614 "cellular response to reactive oxygen species" evidence=IEA;ISO

GO:0048041 "focal adhesion assembly" evidence=IEA;ISO

GO:0048754 "branching morphogenesis of an epithelial tube" evidence=IEA;ISO

GO:0051435 "BH4 domain binding" evidence=IEA;ISO

GO:0060396 "growth hormone receptor signaling pathway" evidence=IEA;ISO

UNIPROTKB|F1M1Z5 Pxn "Paxillin" [Rattus norvegicus (taxid:10116)]

 Score = 413 (150.4 bits), Expect = 1.3e-38, P = 1.3e-38
 Identities = 83/198 (41%), Positives = 107/198 (54%)

Query:     5 SRSPAPSPLLGQGDETDVDVSEALDPPPN---AASTMYPKCAACQGLIQNIIVQALDKTW 61
             S SP P  L   G + D  +  +L    N    A+     C AC+  I   +V A+ KTW
Sbjct:   320 SSSP-PGGLSKPGSQLD-SMLGSLQSDLNKLGVATVAKGVCGACKKPIAGQVVTAMGKTW 377

Query:    62 HPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWH 121
             HPEHF CTHC+  I ++ F    G PYC +DY SLF  +C  C  PI D VVTAL++TWH
Sbjct:   378 HPEHFVCTHCQEEIGSRNFFERDGQPYCEKDYHSLFSPRCYYCNGPILDKVVTALDRTWH 437

Query:   122 PDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHE 181
             P+HF C  CG     +GF+E++G A+C   Y   F PKC GC + I E  I   +  WH 
Sbjct:   438 PEHFFCAQCGAFFGPEGFHEKDGKAYCRKDYFDMFAPKCGGCARAILENYISALNTLWHP 497

Query:   182 ACFRCGRCRRP-ISGPTF 198
              CF C  C  P ++G  F
Sbjct:   498 ECFVCRECFTPFVNGSFF 515

GO:0005856 "cytoskeleton" evidence=IEA

GO:0007160 "cell-matrix adhesion" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q66H76 Pxn "Paxillin" [Rattus norvegicus (taxid:10116)]

 Score = 413 (150.4 bits), Expect = 1.3e-38, P = 1.3e-38
 Identities = 83/198 (41%), Positives = 107/198 (54%)

Query:     5 SRSPAPSPLLGQGDETDVDVSEALDPPPN---AASTMYPKCAACQGLIQNIIVQALDKTW 61
             S SP P  L   G + D  +  +L    N    A+     C AC+  I   +V A+ KTW
Sbjct:   315 SSSP-PGGLSKPGSQLD-SMLGSLQSDLNKLGVATVAKGVCGACKKPIAGQVVTAMGKTW 372

Query:    62 HPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWH 121
             HPEHF CTHC+  I ++ F    G PYC +DY SLF  +C  C  PI D VVTAL++TWH
Sbjct:   373 HPEHFVCTHCQEEIGSRNFFERDGQPYCEKDYHSLFSPRCYYCNGPILDKVVTALDRTWH 432

Query:   122 PDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHE 181
             P+HF C  CG     +GF+E++G A+C   Y   F PKC GC + I E  I   +  WH 
Sbjct:   433 PEHFFCAQCGAFFGPEGFHEKDGKAYCRKDYFDMFAPKCGGCARAILENYISALNTLWHP 492

Query:   182 ACFRCGRCRRP-ISGPTF 198
              CF C  C  P ++G  F
Sbjct:   493 ECFVCRECFTPFVNGSFF 510

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1NB68 PXN "Paxillin" [Gallus gallus (taxid:9031)]

 Score = 411 (149.7 bits), Expect = 2.1e-38, P = 2.1e-38
 Identities = 83/198 (41%), Positives = 107/198 (54%)

Query:     5 SRSPAPSPLLGQGDETDVDVSEALDPPPN---AASTMYPKCAACQGLIQNIIVQALDKTW 61
             S SP PS     G + D  +  +L    N    A+     C AC+  I   +V A+ KTW
Sbjct:   288 SSSP-PSTTPKPGSQLDTMLG-SLQSDLNKLGVATVAKGVCGACKKPIAGQVVTAMGKTW 345

Query:    62 HPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWH 121
             HPEHF CTHC+  I ++ F    G PYC +DY +LF  +C  C  PI D VVTAL++TWH
Sbjct:   346 HPEHFVCTHCQEEIGSRNFFERDGQPYCEKDYHNLFSPRCYYCNGPILDKVVTALDRTWH 405

Query:   122 PDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHE 181
             P+HF C  CG     +GF+E++G A+C   Y   F PKC GC + I E  I   +  WH 
Sbjct:   406 PEHFFCAQCGVFFGPEGFHEKDGKAYCRKDYFDMFAPKCGGCARAILENYISALNTLWHP 465

Query:   182 ACFRCGRCRRP-ISGPTF 198
              CF C  C  P I+G  F
Sbjct:   466 ECFVCRECFTPFINGSFF 483

GO:0005856 "cytoskeleton" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0000187 "activation of MAPK activity" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0005925 "focal adhesion" evidence=IEA

GO:0006928 "cellular component movement" evidence=IEA

GO:0007010 "cytoskeleton organization" evidence=IEA

GO:0007229 "integrin-mediated signaling pathway" evidence=IEA

GO:0008013 "beta-catenin binding" evidence=IEA

GO:0017166 "vinculin binding" evidence=IEA

GO:0018108 "peptidyl-tyrosine phosphorylation" evidence=IEA

GO:0030027 "lamellipodium" evidence=IEA

GO:0030032 "lamellipodium assembly" evidence=IEA

GO:0034614 "cellular response to reactive oxygen species" evidence=IEA

GO:0048041 "focal adhesion assembly" evidence=IEA

GO:0048754 "branching morphogenesis of an epithelial tube" evidence=IEA

GO:0051435 "BH4 domain binding" evidence=IEA

GO:0060396 "growth hormone receptor signaling pathway" evidence=IEA

UNIPROTKB|P49024 PXN "Paxillin" [Gallus gallus (taxid:9031)]

 Score = 411 (149.7 bits), Expect = 2.1e-38, P = 2.1e-38
 Identities = 83/198 (41%), Positives = 107/198 (54%)

Query:     5 SRSPAPSPLLGQGDETDVDVSEALDPPPN---AASTMYPKCAACQGLIQNIIVQALDKTW 61
             S SP PS     G + D  +  +L    N    A+     C AC+  I   +V A+ KTW
Sbjct:   288 SSSP-PSTTPKPGSQLDTMLG-SLQSDLNKLGVATVAKGVCGACKKPIAGQVVTAMGKTW 345

Query:    62 HPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWH 121
             HPEHF CTHC+  I ++ F    G PYC +DY +LF  +C  C  PI D VVTAL++TWH
Sbjct:   346 HPEHFVCTHCQEEIGSRNFFERDGQPYCEKDYHNLFSPRCYYCNGPILDKVVTALDRTWH 405

Query:   122 PDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHE 181
             P+HF C  CG     +GF+E++G A+C   Y   F PKC GC + I E  I   +  WH 
Sbjct:   406 PEHFFCAQCGVFFGPEGFHEKDGKAYCRKDYFDMFAPKCGGCARAILENYISALNTLWHP 465

Query:   182 ACFRCGRCRRP-ISGPTF 198
              CF C  C  P I+G  F
Sbjct:   466 ECFVCRECFTPFINGSFF 483

GO:0007160 "cell-matrix adhesion" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005856 "cytoskeleton" evidence=IEA

GO:0005925 "focal adhesion" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|F1MFD1 PXN "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 409 (149.0 bits), Expect = 3.4e-38, P = 3.4e-38
 Identities = 73/166 (43%), Positives = 93/166 (56%)

Query:    42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC 101
             C AC+  I   +V A+ KTWHPEHF CTHC+  I ++ F    G PYC +DY +LF  +C
Sbjct:   353 CGACKKPIAGQVVTAMGKTWHPEHFVCTHCQEEIGSRNFFERDGQPYCEKDYHNLFSPRC 412

Query:   102 QGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF 161
               C  PI D VVTAL++TWHP+HF C  CG     +GF+E++G A+C   Y   F PKC 
Sbjct:   413 YYCNGPILDKVVTALDRTWHPEHFFCAQCGAFFGPEGFHEKDGKAYCRKDYFDMFAPKCG 472

Query:   162 GCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVC 207
             GC + I E  I   +  WH  CF C  C  P    +F   E    C
Sbjct:   473 GCARAILENYISALNTLWHPECFVCRECFTPFVHGSFFEHEGQPYC 518

GO:0060396 "growth hormone receptor signaling pathway" evidence=IEA

GO:0051435 "BH4 domain binding" evidence=IEA

GO:0048754 "branching morphogenesis of an epithelial tube" evidence=IEA

GO:0048041 "focal adhesion assembly" evidence=IEA

GO:0034614 "cellular response to reactive oxygen species" evidence=IEA

GO:0030032 "lamellipodium assembly" evidence=IEA

GO:0030027 "lamellipodium" evidence=IEA

GO:0018108 "peptidyl-tyrosine phosphorylation" evidence=IEA

GO:0017166 "vinculin binding" evidence=IEA

GO:0008013 "beta-catenin binding" evidence=IEA

GO:0007229 "integrin-mediated signaling pathway" evidence=IEA

GO:0007010 "cytoskeleton organization" evidence=IEA

GO:0006928 "cellular component movement" evidence=IEA

GO:0005925 "focal adhesion" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0000187 "activation of MAPK activity" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005856 "cytoskeleton" evidence=IEA

UNIPROTKB|E7EMK8 PXN "Paxillin" [Homo sapiens (taxid:9606)]

 Score = 409 (149.0 bits), Expect = 3.4e-38, P = 3.4e-38
 Identities = 72/158 (45%), Positives = 93/158 (58%)

Query:    42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC 101
             C AC+  I   +V A+ KTWHPEHF CTHC+  I ++ F    G PYC +DY +LF  +C
Sbjct:   170 CGACKKPIAGQVVTAMGKTWHPEHFVCTHCQEEIGSRNFFERDGQPYCEKDYHNLFSPRC 229

Query:   102 QGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF 161
               C  PI D VVTAL++TWHP+HF C  CG     +GF+E++G A+C   Y   F PKC 
Sbjct:   230 YYCNGPILDKVVTALDRTWHPEHFFCAQCGAFFGPEGFHEKDGKAYCRKDYFDMFAPKCG 289

Query:   162 GCGKPITETAIKVHDRKWHEACFRCGRCRRP-ISGPTF 198
             GC + I E  I   +  WH  CF C  C  P ++G  F
Sbjct:   290 GCARAILENYISALNTLWHPECFVCRECFTPFVNGSFF 327

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F5GZ78 PXN "Paxillin" [Homo sapiens (taxid:9606)]

 Score = 409 (149.0 bits), Expect = 3.4e-38, P = 3.4e-38
 Identities = 72/158 (45%), Positives = 93/158 (58%)

Query:    42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC 101
             C AC+  I   +V A+ KTWHPEHF CTHC+  I ++ F    G PYC +DY +LF  +C
Sbjct:   356 CGACKKPIAGQVVTAMGKTWHPEHFVCTHCQEEIGSRNFFERDGQPYCEKDYHNLFSPRC 415

Query:   102 QGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF 161
               C  PI D VVTAL++TWHP+HF C  CG     +GF+E++G A+C   Y   F PKC 
Sbjct:   416 YYCNGPILDKVVTALDRTWHPEHFFCAQCGAFFGPEGFHEKDGKAYCRKDYFDMFAPKCG 475

Query:   162 GCGKPITETAIKVHDRKWHEACFRCGRCRRP-ISGPTF 198
             GC + I E  I   +  WH  CF C  C  P ++G  F
Sbjct:   476 GCARAILENYISALNTLWHPECFVCRECFTPFVNGSFF 513

GO:0005856 "cytoskeleton" evidence=IEA

GO:0007160 "cell-matrix adhesion" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1PUT6 PXN "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 409 (149.0 bits), Expect = 3.5e-38, P = 3.5e-38
 Identities = 72/158 (45%), Positives = 93/158 (58%)

Query:    42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC 101
             C AC+  I   +V A+ KTWHPEHF CTHC+  I ++ F    G PYC +DY +LF  +C
Sbjct:   357 CGACKKPIAGQVVTAMGKTWHPEHFVCTHCQEEIGSRNFFERDGQPYCEKDYHNLFSPRC 416

Query:   102 QGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF 161
               C  PI D VVTAL++TWHP+HF C  CG     +GF+E++G A+C   Y   F PKC 
Sbjct:   417 YYCNGPILDKVVTALDRTWHPEHFFCAQCGAFFGPEGFHEKDGKAYCRKDYFDMFAPKCG 476

Query:   162 GCGKPITETAIKVHDRKWHEACFRCGRCRRP-ISGPTF 198
             GC + I E  I   +  WH  CF C  C  P ++G  F
Sbjct:   477 GCARAILENYISALNTLWHPECFVCRECFTPFVNGSFF 514

GO:0060396 "growth hormone receptor signaling pathway" evidence=IEA

GO:0051435 "BH4 domain binding" evidence=IEA

GO:0048754 "branching morphogenesis of an epithelial tube" evidence=IEA

GO:0048041 "focal adhesion assembly" evidence=IEA

GO:0034614 "cellular response to reactive oxygen species" evidence=IEA

GO:0030032 "lamellipodium assembly" evidence=IEA

GO:0030027 "lamellipodium" evidence=IEA

GO:0018108 "peptidyl-tyrosine phosphorylation" evidence=IEA

GO:0017166 "vinculin binding" evidence=IEA

GO:0008013 "beta-catenin binding" evidence=IEA

GO:0007229 "integrin-mediated signaling pathway" evidence=IEA

GO:0007010 "cytoskeleton organization" evidence=IEA

GO:0006928 "cellular component movement" evidence=IEA

GO:0005925 "focal adhesion" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0000187 "activation of MAPK activity" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005856 "cytoskeleton" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	233
cd09336	53	cd09336, LIM1_Paxillin_like, The first LIM domain	9e-16
cd09336	53	cd09336, LIM1_Paxillin_like, The first LIM domain	4e-15
cd09337	52	cd09337, LIM2_Paxillin_like, The second LIM domain	2e-13
cd09337	52	cd09337, LIM2_Paxillin_like, The second LIM domain	3e-13
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	8e-12
cd09406	55	cd09406, LIM1_Leupaxin, The first LIM domain of Le	8e-12
cd09406	55	cd09406, LIM1_Leupaxin, The first LIM domain of Le	2e-11
cd09407	52	cd09407, LIM2_Paxillin, The second LIM domain of p	2e-11
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	7e-11
cd09408	52	cd09408, LIM2_Leupaxin, The second LIM domain of L	8e-11
cd09405	54	cd09405, LIM1_Paxillin, The first LIM domain of pa	8e-11
cd09334	54	cd09334, LIM4_PINCH, The fourth LIM domain of prot	2e-10
pfam00412	58	pfam00412, LIM, LIM domain	2e-10
cd09408	52	cd09408, LIM2_Leupaxin, The second LIM domain of L	3e-10
cd09334	54	cd09334, LIM4_PINCH, The fourth LIM domain of prot	3e-10
cd09455	54	cd09455, LIM1_Enigma_like_1, The first LIM domain	5e-10
cd09338	53	cd09338, LIM3_Paxillin_like, The third LIM domain	7e-10
cd09407	52	cd09407, LIM2_Paxillin, The second LIM domain of p	1e-09
cd09405	54	cd09405, LIM1_Paxillin, The first LIM domain of pa	1e-09
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	1e-09
cd09372	53	cd09372, LIM2_FBLP-1, The second LIM domain of the	2e-09
cd09361	52	cd09361, LIM1_Enigma_like, The first LIM domain of	5e-09
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	6e-09
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	7e-09
cd09341	56	cd09341, LIM2_Testin_like, The second LIM domain o	7e-09
pfam00412	58	pfam00412, LIM, LIM domain	1e-08
cd09456	52	cd09456, LIM2_Enigma, The second LIM domain of Eni	1e-08
cd09409	53	cd09409, LIM3_Paxillin, The third LIM domain of pa	3e-08
cd09362	52	cd09362, LIM2_Enigma_like, The second LIM domain o	3e-08
cd09429	53	cd09429, LIM3_FHL1, The third LIM domain of Four a	4e-08
cd09457	52	cd09457, LIM2_ENH, The second LIM domain of the En	1e-07
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	2e-07
cd09410	53	cd09410, LIM3_Leupaxin, The third LIM domain of Le	2e-07
cd09412	52	cd09412, LIM4_Leupaxin, The fourth LIM domain of L	2e-07
cd09338	53	cd09338, LIM3_Paxillin_like, The third LIM domain	3e-07
cd09396	53	cd09396, LIM_DA1, The Lim domain of DA1	3e-07
cd09393	56	cd09393, LIM3_Lrg1p_like, The third LIM domain of	3e-07
cd09452	52	cd09452, LIM1_Enigma, The first LIM domain of Enig	5e-07
cd09453	52	cd09453, LIM1_ENH, The first LIM domain of the Eni	6e-07
cd09339	52	cd09339, LIM4_Paxillin_like, The fourth LIM domain	7e-07
cd09361	52	cd09361, LIM1_Enigma_like, The first LIM domain of	2e-06
cd09453	52	cd09453, LIM1_ENH, The first LIM domain of the Eni	2e-06
cd09412	52	cd09412, LIM4_Leupaxin, The fourth LIM domain of L	3e-06
cd09335	54	cd09335, LIM5_PINCH, The fifth LIM domain of prote	3e-06
cd09411	52	cd09411, LIM4_Paxillin, The fourth LIM domain of P	4e-06
cd09432	56	cd09432, LIM6_LIMPETin, The sixth LIM domain of pr	4e-06
cd09431	57	cd09431, LIM3_Fhl2, The third LIM domain of Four a	6e-06
cd09346	52	cd09346, LIM3_FHL, The third LIM domain of Four an	6e-06
cd09409	53	cd09409, LIM3_Paxillin, The third LIM domain of pa	7e-06
cd09350	54	cd09350, LIM1_TRIP6, The first LIM domain of Thyro	8e-06
cd09429	53	cd09429, LIM3_FHL1, The third LIM domain of Four a	2e-05
cd09424	58	cd09424, LIM2_FHL1, The second LIM domain of Four	2e-05
cd09347	56	cd09347, LIM4_FHL, The fourth LIM domain of Four a	2e-05
cd09338	53	cd09338, LIM3_Paxillin_like, The third LIM domain	3e-05
cd09346	52	cd09346, LIM3_FHL, The third LIM domain of Four an	3e-05
cd09422	62	cd09422, LIM1_FHL2, The first LIM domain of Four a	3e-05
cd09328	56	cd09328, LIM2_abLIM, The second LIM domain on acti	4e-05
cd09344	54	cd09344, LIM1_FHL1, The first LIM domain of Four a	4e-05
cd09345	54	cd09345, LIM2_FHL, The second LIM domain of Four a	4e-05
pfam00412	58	pfam00412, LIM, LIM domain	5e-05
cd09392	53	cd09392, LIM2_Lrg1p_like, The second LIM domain of	5e-05
cd09355	53	cd09355, LIM2_Ajuba_like, The second LIM domain of	5e-05
cd09348	64	cd09348, LIM4_FHL1, The fourth LIM domain of Four	5e-05
cd09396	53	cd09396, LIM_DA1, The Lim domain of DA1	6e-05
cd09434	56	cd09434, LIM4_FHL3, The fourth LIM domain of Four	6e-05
cd09457	52	cd09457, LIM2_ENH, The second LIM domain of the En	1e-04
cd09396	53	cd09396, LIM_DA1, The Lim domain of DA1	1e-04
cd09339	52	cd09339, LIM4_Paxillin_like, The fourth LIM domain	1e-04
cd09454	52	cd09454, LIM1_ZASP_Cypher, The first LIM domain of	1e-04
cd09467	55	cd09467, LIM1_Lhx3b, The first LIM domain of Lhx3b	1e-04
cd09329	52	cd09329, LIM3_abLIM, The third LIM domain of actin	1e-04
cd09332	52	cd09332, LIM2_PINCH, The second LIM domain of prot	1e-04
cd09362	52	cd09362, LIM2_Enigma_like, The second LIM domain o	2e-04
cd09392	53	cd09392, LIM2_Lrg1p_like, The second LIM domain of	2e-04
cd09369	54	cd09369, LIM1_Lhx2_Lhx9, The first LIM domain of L	2e-04
cd09468	52	cd09468, LIM1_Lhx4, The first LIM domain of Lhx4	2e-04
cd09466	56	cd09466, LIM1_Lhx3a, The first LIM domain of Lhx3a	2e-04
cd09364	53	cd09364, LIM1_LIMK, The first LIM domain of LIMK (	2e-04
cd09328	56	cd09328, LIM2_abLIM, The second LIM domain on acti	3e-04
cd09363	54	cd09363, LIM3_Enigma_like, The third LIM domain of	3e-04
cd09430	52	cd09430, LIM5_LIMPETin, The fifth LIM domain of pr	3e-04
cd09394	55	cd09394, LIM1_Rga, The first LIM domain of Rga GTP	3e-04
cd09433	58	cd09433, LIM4_FHL2, The fourth LIM domain of Four	3e-04
cd09341	56	cd09341, LIM2_Testin_like, The second LIM domain o	4e-04
cd09410	53	cd09410, LIM3_Leupaxin, The third LIM domain of Le	4e-04
cd09432	56	cd09432, LIM6_LIMPETin, The sixth LIM domain of pr	4e-04
cd09334	54	cd09334, LIM4_PINCH, The fourth LIM domain of prot	5e-04
cd09343	59	cd09343, LIM1_FHL, The first LIM domain of Four an	6e-04
cd09346	52	cd09346, LIM3_FHL, The third LIM domain of Four an	7e-04
cd09353	60	cd09353, LIM2_Zyxin, The second LIM domain of Zyxi	7e-04
cd09373	54	cd09373, LIM1_AWH, The first LIM domain of Arrowhe	7e-04
cd09450	53	cd09450, LIM_ALP, This family represents the LIM d	7e-04
cd09452	52	cd09452, LIM1_Enigma, The first LIM domain of Enig	8e-04
cd09454	52	cd09454, LIM1_ZASP_Cypher, The first LIM domain of	8e-04
cd09364	53	cd09364, LIM1_LIMK, The first LIM domain of LIMK (	8e-04
cd09360	52	cd09360, LIM_ALP_like, The LIM domain of ALP (acti	8e-04
cd09424	58	cd09424, LIM2_FHL1, The second LIM domain of Four	9e-04
cd09349	87	cd09349, LIM1_Zyxin, The first LIM domain of Zyxin	9e-04
cd09429	53	cd09429, LIM3_FHL1, The third LIM domain of Four a	0.001
cd09431	57	cd09431, LIM3_Fhl2, The third LIM domain of Four a	0.001
cd09426	57	cd09426, LIM2_FHL2, The second LIM domain of Four	0.001
cd09372	53	cd09372, LIM2_FBLP-1, The second LIM domain of the	0.002
cd09456	52	cd09456, LIM2_Enigma, The second LIM domain of Eni	0.002
cd09410	53	cd09410, LIM3_Leupaxin, The third LIM domain of Le	0.002
cd09411	52	cd09411, LIM4_Paxillin, The fourth LIM domain of P	0.002
cd09328	56	cd09328, LIM2_abLIM, The second LIM domain on acti	0.002
cd09348	64	cd09348, LIM4_FHL1, The fourth LIM domain of Four	0.002
cd09369	54	cd09369, LIM1_Lhx2_Lhx9, The first LIM domain of L	0.002
cd09353	60	cd09353, LIM2_Zyxin, The second LIM domain of Zyxi	0.002
cd09371	53	cd09371, LIM1_Lmx1b, The first LIM domain of Lmx1b	0.002
cd09418	56	cd09418, LIM2_Prickle, The second LIM domain of Pr	0.002
cd09418	56	cd09418, LIM2_Prickle, The second LIM domain of Pr	0.002
cd09462	74	cd09462, LIM1_LIMK1, The first LIM domain of LIMK1	0.002
cd09427	58	cd09427, LIM2_FHL3, The second LIM domain of Four	0.002
cd09412	52	cd09412, LIM4_Leupaxin, The fourth LIM domain of L	0.003
cd09339	52	cd09339, LIM4_Paxillin_like, The fourth LIM domain	0.003
cd09431	57	cd09431, LIM3_Fhl2, The third LIM domain of Four a	0.003
cd09349	87	cd09349, LIM1_Zyxin, The first LIM domain of Zyxin	0.003
cd09425	54	cd09425, LIM4_LIMPETin, The fourth LIM domain of p	0.003
cd09368	52	cd09368, LIM1_Lhx3_Lhx4, The first LIM domain of L	0.003
cd09351	54	cd09351, LIM1_LPP, The first LIM domain of lipoma	0.003
cd09459	55	cd09459, LIM3_ENH, The third LIM domain of the Eni	0.003
cd09455	54	cd09455, LIM1_Enigma_like_1, The first LIM domain	0.004
cd09329	52	cd09329, LIM3_abLIM, The third LIM domain of actin	0.004
cd09461	54	cd09461, LIM3_Enigma_like_1, The third LIM domain	0.004
cd09401	53	cd09401, LIM_TLP_like, The LIM domains of thymus L	0.004
cd09417	56	cd09417, LIM2_LIMPETin_like, The second LIM domain	0.004
cd09367	52	cd09367, LIM1_Lhx1_Lhx5, The first LIM domain of L	0.004

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

 Score = 68.5 bits (168), Expect = 9e-16
 Identities = 27/52 (51%), Positives = 34/52 (65%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
           C  C+ PI   VVTAL +TWHP+HFVC  C T+L  K F+ER+G  +C   Y
Sbjct: 1   CAACKKPIVGQVVTALGKTWHPEHFVCAECKTELGTKNFFERDGQPYCEKDY 52

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

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

 Score = 67.0 bits (164), Expect = 4e-15
 Identities = 26/52 (50%), Positives = 32/52 (61%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          CAAC+  I   +V AL KTWHPEHF C  C+  + T+ F    G PYC +DY
Sbjct: 1  CAACKKPIVGQVVTALGKTWHPEHFVCAECKTELGTKNFFERDGQPYCEKDY 52

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

>gnl|CDD|188723 cd09337, LIM2_Paxillin_like, The second LIM domain of the paxillin like protein family

 Score = 62.4 bits (152), Expect = 2e-13
 Identities = 24/52 (46%), Positives = 32/52 (61%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
           C  C  PI D  VTAL++TWHP+HF C  CG     +GF+E++G  +C   Y
Sbjct: 1   CAYCNGPILDKCVTALDKTWHPEHFFCAQCGKPFGDEGFHEKDGKPYCREDY 52

The second 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 = 52

>gnl|CDD|188723 cd09337, LIM2_Paxillin_like, The second LIM domain of the paxillin like protein family

 Score = 62.0 bits (151), Expect = 3e-13
 Identities = 29/52 (55%), Positives = 31/52 (59%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          CA C G I +  V ALDKTWHPEHF C  C  P   + FH   G PYC EDY
Sbjct: 1  CAYCNGPILDKCVTALDKTWHPEHFFCAQCGKPFGDEGFHEKDGKPYCREDY 52

The second 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 = 52

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

 Score = 58.1 bits (141), Expect = 8e-12
 Identities = 21/53 (39%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 42 CAACQGLIQ-NIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          CA C   I+   +++AL K WHPE F+C+ C  P+    F+   G PYC + Y
Sbjct: 1  CAGCGKPIEGRELLRALGKKWHPECFKCSVCGKPLGGDSFYEKDGKPYCEKCY 53

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

>gnl|CDD|188790 cd09406, LIM1_Leupaxin, The first LIM domain of Leupaxin

 Score = 58.3 bits (141), Expect = 8e-12
 Identities = 28/52 (53%), Positives = 34/52 (65%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
           C  C+ PI   VVTAL QTWHP+HFVC  CG +L  + F+ER G A+C   Y
Sbjct: 3   CASCQKPIAGQVVTALGQTWHPEHFVCCQCGKELGSRPFFERNGQAYCEEDY 54

The first LIM domain of Leupaxin: Leupaxin is a cytoskeleton adaptor protein, which is preferentially expressed in hematopoietic cells. Leupaxin belongs to the paxillin focal adhesion protein family. Same as other members of the family, it has four leucine-rich LD-motifs in the N-terminus and four LIM domains in the C-terminus. It may function in cell type-specific signaling by associating with interaction partners PYK2, FAK, PEP and p95PKL. When expressed in human leukocytic cells, leupaxin significantly suppressed integrin-mediated cell adhesion to fibronectin and the tyrosine phosphorylation of paxillin. These findings indicate that leupaxin may negatively regulate the functions of paxillin during integrin signaling. 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|188790 cd09406, LIM1_Leupaxin, The first LIM domain of Leupaxin

 Score = 57.2 bits (138), Expect = 2e-11
 Identities = 24/52 (46%), Positives = 30/52 (57%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          CA+CQ  I   +V AL +TWHPEHF C  C   + ++ F    G  YC EDY
Sbjct: 3  CASCQKPIAGQVVTALGQTWHPEHFVCCQCGKELGSRPFFERNGQAYCEEDY 54

The first LIM domain of Leupaxin: Leupaxin is a cytoskeleton adaptor protein, which is preferentially expressed in hematopoietic cells. Leupaxin belongs to the paxillin focal adhesion protein family. Same as other members of the family, it has four leucine-rich LD-motifs in the N-terminus and four LIM domains in the C-terminus. It may function in cell type-specific signaling by associating with interaction partners PYK2, FAK, PEP and p95PKL. When expressed in human leukocytic cells, leupaxin significantly suppressed integrin-mediated cell adhesion to fibronectin and the tyrosine phosphorylation of paxillin. These findings indicate that leupaxin may negatively regulate the functions of paxillin during integrin signaling. 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|188791 cd09407, LIM2_Paxillin, The second LIM domain of paxillin

 Score = 56.9 bits (137), Expect = 2e-11
 Identities = 26/52 (50%), Positives = 34/52 (65%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
           C  C  PI D VVTAL++TWHP+HF C  CG     +GF+E++G A+C   Y
Sbjct: 1   CYYCNGPILDKVVTALDRTWHPEHFFCAQCGAFFGPEGFHEKDGKAYCRKDY 52

The second LIM domain of paxillin: Paxillin is an adaptor protein, which recruits key components of the signal-transduction machinery to specific sub-cellular locations to respond to environmental changes rapidly. The C-terminal region of paxillin contains four LIM domains which target paxillin to focal adhesions, presumably through a direct association with the cytoplasmic tail of beta-integrin. The N-terminal of paxillin is leucine-rich LD-motifs. Paxillin is found at the interface between the plasma membrane and the actin cytoskeleton. The binding partners of paxillin are diverse and include protein tyrosine kinases, such as Src and FAK, structural proteins, such as vinculin and actopaxin, and regulators of actin organization. Paxillin recruits these proteins to their function sites to control the dynamic changes in cell adhesion, cytoskeletal reorganization and gene expression. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

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

 Score = 55.8 bits (135), Expect = 7e-11
 Identities = 22/53 (41%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 101 CQGCRLPIKD-VVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
           C GC  PI+   ++ AL + WHP+ F C  CG  L    FYE++G  +C  CY
Sbjct: 1   CAGCGKPIEGRELLRALGKKWHPECFKCSVCGKPLGGDSFYEKDGKPYCEKCY 53

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

>gnl|CDD|188792 cd09408, LIM2_Leupaxin, The second LIM domain of Leupaxin

 Score = 55.6 bits (134), Expect = 8e-11
 Identities = 23/52 (44%), Positives = 30/52 (57%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          CA C G I   ++ A+D+TWHPEHF C+HC      + F    G PYC  D+
Sbjct: 1  CAYCAGPILQNVLTAMDQTWHPEHFFCSHCGELFGDEGFLERDGKPYCRRDF 52

The second LIM domain of Leupaxin: Leupaxin is a cytoskeleton adaptor protein, which is preferentially expressed in hematopoietic cells. Leupaxin belongs to the paxillin focal adhesion protein family. Same as other members of the family, it has four leucine-rich LD-motifs in the N-terminus and four LIM domains in the C-terminus. It may function in cell type-specific signaling by associating with interaction partners PYK2, FAK, PEP and p95PKL. When expressed in human leukocytic cells, leupaxin significantly suppressed integrin-mediated cell adhesion to fibronectin and the tyrosine phosphorylation of paxillin. These findings indicate that leupaxin may negatively regulate the functions of paxillin during integrin signaling. 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|188789 cd09405, LIM1_Paxillin, The first LIM domain of paxillin

 Score = 55.4 bits (133), Expect = 8e-11
 Identities = 26/52 (50%), Positives = 33/52 (63%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          C AC+  I   +V A+ KTWHPEHF CTHC+  I ++ F    G PYC +DY
Sbjct: 2  CGACKKPIAGQVVTAMGKTWHPEHFVCTHCQEEIGSRNFFERDGQPYCEKDY 53

The first LIM domain of paxillin: Paxillin is an adaptor protein, which recruits key components of the signal-transduction machinery to specific sub-cellular locations to respond to environmental changes rapidly. The C-terminal region of paxillin contains four LIM domains which target paxillin to focal adhesions, presumably through a direct association with the cytoplasmic tail of beta-integrin. The N-terminal of paxillin is leucine-rich LD-motifs. Paxillin is found at the interface between the plasma membrane and the actin cytoskeleton. The binding partners of paxillin are diverse and include protein tyrosine kinases, such as Src and FAK, structural proteins, such as vinculin and actopaxin, and regulators of actin organization. Paxillin recruits these proteins to their function sites to control the dynamic changes in cell adhesion, cytoskeletal reorganization and gene expression. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight cons erved 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|188720 cd09334, LIM4_PINCH, The fourth LIM domain of protein PINCH

 Score = 54.7 bits (132), Expect = 2e-10
 Identities = 21/54 (38%), Positives = 26/54 (48%)

Query: 40 PKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          P C AC+  I+  +V AL K WH EHF C  C  P    + +   G  YC   Y
Sbjct: 1  PICGACRRPIEGRVVTALGKHWHVEHFVCAKCEKPFLGHRHYEKKGLAYCETHY 54

The fourth LIM domain of protein PINCH: PINCH plays a pivotal role in the assembly of focal adhesions (FAs), regulating diverse functions in cell adhesion, growth, and differentiation through LIM-mediated protein-protein interactions. PINCH comprises an array of five LIM domains that interact with integrin-linked kinase (ILK), Nck2 (also called Nckbeta or Grb4) and other interaction partners. These interactions are essential for triggering the FA assembly and for relaying diverse mechanical and biochemical signals between Cell-extracellular matrix and the actin cytoskeleton. The PINCH LIM4 domain recognizes the third SH3 domain of another adaptor protein, Nck2. This step is an important component of integrin signaling event. 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 assem bly of multimeric protein complexes. Length = 54

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

 Score = 54.3 bits (131), Expect = 2e-10
 Identities = 24/58 (41%), Positives = 29/58 (50%), Gaps = 2/58 (3%)

Query: 42 CAACQGLIQN--IIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLF 97
          CA C   I +  ++ +AL K WHPE FRC  C  P+    F    G  YC  DY  LF
Sbjct: 1  CAGCGKPIYDRELVRRALGKVWHPECFRCAVCGKPLGPGDFFEKDGKLYCKHDYFKLF 58

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

>gnl|CDD|188792 cd09408, LIM2_Leupaxin, The second LIM domain of Leupaxin

 Score = 53.7 bits (129), Expect = 3e-10
 Identities = 23/48 (47%), Positives = 30/48 (62%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFC 148
           C  C  PI   V+TA++QTWHP+HF C  CG     +GF ER+G  +C
Sbjct: 1   CAYCAGPILQNVLTAMDQTWHPEHFFCSHCGELFGDEGFLERDGKPYC 48

The second LIM domain of Leupaxin: Leupaxin is a cytoskeleton adaptor protein, which is preferentially expressed in hematopoietic cells. Leupaxin belongs to the paxillin focal adhesion protein family. Same as other members of the family, it has four leucine-rich LD-motifs in the N-terminus and four LIM domains in the C-terminus. It may function in cell type-specific signaling by associating with interaction partners PYK2, FAK, PEP and p95PKL. When expressed in human leukocytic cells, leupaxin significantly suppressed integrin-mediated cell adhesion to fibronectin and the tyrosine phosphorylation of paxillin. These findings indicate that leupaxin may negatively regulate the functions of paxillin during integrin signaling. 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|188720 cd09334, LIM4_PINCH, The fourth LIM domain of protein PINCH

 Score = 53.9 bits (130), Expect = 3e-10
 Identities = 23/48 (47%), Positives = 29/48 (60%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFC 148
           C  CR PI+  VVTAL + WH +HFVC  C    L    YE++G A+C
Sbjct: 3   CGACRRPIEGRVVTALGKHWHVEHFVCAKCEKPFLGHRHYEKKGLAYC 50

The fourth LIM domain of protein PINCH: PINCH plays a pivotal role in the assembly of focal adhesions (FAs), regulating diverse functions in cell adhesion, growth, and differentiation through LIM-mediated protein-protein interactions. PINCH comprises an array of five LIM domains that interact with integrin-linked kinase (ILK), Nck2 (also called Nckbeta or Grb4) and other interaction partners. These interactions are essential for triggering the FA assembly and for relaying diverse mechanical and biochemical signals between Cell-extracellular matrix and the actin cytoskeleton. The PINCH LIM4 domain recognizes the third SH3 domain of another adaptor protein, Nck2. This step is an important component of integrin signaling event. 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 assem bly of multimeric protein complexes. Length = 54

>gnl|CDD|188839 cd09455, LIM1_Enigma_like_1, The first LIM domain of an Enigma subfamily with unknown function

 Score = 53.6 bits (129), Expect = 5e-10
 Identities = 21/54 (38%), Positives = 29/54 (53%), Gaps = 2/54 (3%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCI--SCGTKLLYKGFYEREGNAFCTACY 152
           C+ C   I+   +TAL + W PDHF+C   SC   L   GF E +G  +C  C+
Sbjct: 1   CESCNQQIRGPFITALGKIWCPDHFICANASCRRPLQDIGFVEEKGQLYCEYCF 54

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

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

 Score = 52.7 bits (127), Expect = 7e-10
 Identities = 21/52 (40%), Positives = 28/52 (53%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
           C GC  PI +  ++ALN  WHP+ FVC  C    +   F+E EG  +C   Y
Sbjct: 1   CGGCNKPILENYISALNTQWHPECFVCRECHKPFINGSFFEHEGLPYCETHY 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|188791 cd09407, LIM2_Paxillin, The second LIM domain of paxillin

 Score = 52.7 bits (126), Expect = 1e-09
 Identities = 24/52 (46%), Positives = 29/52 (55%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          C  C G I + +V ALD+TWHPEHF C  C      + FH   G  YC +DY
Sbjct: 1  CYYCNGPILDKVVTALDRTWHPEHFFCAQCGAFFGPEGFHEKDGKAYCRKDY 52

The second LIM domain of paxillin: Paxillin is an adaptor protein, which recruits key components of the signal-transduction machinery to specific sub-cellular locations to respond to environmental changes rapidly. The C-terminal region of paxillin contains four LIM domains which target paxillin to focal adhesions, presumably through a direct association with the cytoplasmic tail of beta-integrin. The N-terminal of paxillin is leucine-rich LD-motifs. Paxillin is found at the interface between the plasma membrane and the actin cytoskeleton. The binding partners of paxillin are diverse and include protein tyrosine kinases, such as Src and FAK, structural proteins, such as vinculin and actopaxin, and regulators of actin organization. Paxillin recruits these proteins to their function sites to control the dynamic changes in cell adhesion, cytoskeletal reorganization and gene expression. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

>gnl|CDD|188789 cd09405, LIM1_Paxillin, The first LIM domain of paxillin

 Score = 52.3 bits (125), Expect = 1e-09
 Identities = 23/52 (44%), Positives = 33/52 (63%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
           C  C+ PI   VVTA+ +TWHP+HFVC  C  ++  + F+ER+G  +C   Y
Sbjct: 2   CGACKKPIAGQVVTAMGKTWHPEHFVCTHCQEEIGSRNFFERDGQPYCEKDY 53

The first LIM domain of paxillin: Paxillin is an adaptor protein, which recruits key components of the signal-transduction machinery to specific sub-cellular locations to respond to environmental changes rapidly. The C-terminal region of paxillin contains four LIM domains which target paxillin to focal adhesions, presumably through a direct association with the cytoplasmic tail of beta-integrin. The N-terminal of paxillin is leucine-rich LD-motifs. Paxillin is found at the interface between the plasma membrane and the actin cytoskeleton. The binding partners of paxillin are diverse and include protein tyrosine kinases, such as Src and FAK, structural proteins, such as vinculin and actopaxin, and regulators of actin organization. Paxillin recruits these proteins to their function sites to control the dynamic changes in cell adhesion, cytoskeletal reorganization and gene expression. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight cons erved 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|214528 smart00132, LIM, Zinc-binding domain present in Lin-11, Isl-1, Mec-3

 Score = 52.4 bits (126), Expect = 1e-09
 Identities = 20/54 (37%), Positives = 27/54 (50%), Gaps = 2/54 (3%)

Query: 41 KCAACQGLIQ--NIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVED 92
          KCA C   I     +++AL K WHPE F+C  C  P++   F    G  YC + 
Sbjct: 1  KCAGCGKPIYGTERVLRALGKVWHPECFKCATCGKPLSGDTFFEKDGKLYCKDC 54

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

>gnl|CDD|188758 cd09372, LIM2_FBLP-1, The second LIM domain of the filamin-binding LIM protein-1 (FBLP-1)

 Score = 51.7 bits (124), Expect = 2e-09
 Identities = 22/53 (41%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHV-HAGSPYCVEDY 93
          CA CQG+I   I++AL K +HP  F C  C   I  + F V      YC++DY
Sbjct: 1  CAKCQGVITEHIIRALGKGYHPPCFTCVTCGRRIGDESFAVDEQNEVYCLDDY 53

The second LIM domain of the filamin-binding LIM protein-1 (FBLP-1): Fblp-1 contains a proline-rich domain near its N terminus and two LIM domains at its C terminus. FBLP-1 mRNA was detected in a variety of tissues and cells including platelets and endothelial cells. FBLP-1 binds to Filamins. The association between filamin B and FBLP-1 may play an unknown role in cytoskeletal function, cell adhesion, and cell motility. As in 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 = 53

>gnl|CDD|188747 cd09361, LIM1_Enigma_like, The first LIM domain of Enigma-like family

 Score = 50.4 bits (121), Expect = 5e-09
 Identities = 19/52 (36%), Positives = 27/52 (51%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
           C  C   I+   + AL ++WHP+ F C  C   L   GF E +G+ +C  CY
Sbjct: 1   CAHCNQVIRGPFLVALGRSWHPEEFTCSHCHCSLAEIGFVEEKGSLYCELCY 52

The first LIM domain of Enigma-like family: The Enigma LIM domain family is comprised of three members: Enigma, ENH, and Cypher (mouse)/ZASP (human). These subfamily members contain a single PDZ domain at the N-terminus and three LIM domains at the C-terminus. Enigma was initially characterized in humans and is expressed in multiple tissues, such as skeletal muscle, heart, bone, and brain. The third LIM domain specifically interacts with the insulin receptor and the second LIM domain interacts with the receptor tyrosine kinase Ret and the adaptor protein APS. Thus Enigma is implicated in signal transduction processes, such as mitogenic activity, insulin related actin organization, and glucose metabolism. The second member, ENH protein, was first identified in rat brain. It has been shown that ENH interacts with protein kinase D1 (PKD1) via its LIM domains and forms a complex with PKD1 and the alpha1C subunit of cardiac L-type voltage-gated calcium channel in rat neonatal cardiomyocytes. The N-terminal PDZ domain interacts with alpha-actinin at the Z-line. ZASP/Cypher is required for maintenance of Z-line structure during muscle contraction, but not required for Z-line assembly. In heart, Cypher/ZASP plays a structural role through its interaction with cytoskeletal Z-line proteins. In addition, there is increasing evidence that Cypher/ZASP also performs signaling functions. Studies reveal that Cypher/ZASP interacts with and directs PKC to the Z-line, where PKC phosphorylates downstream signaling targets. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

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

 Score = 50.5 bits (121), Expect = 6e-09
 Identities = 22/54 (40%), Positives = 31/54 (57%), Gaps = 2/54 (3%)

Query: 100 KCQGCRLPI--KDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTAC 151
           KC GC  PI   + V+ AL + WHP+ F C +CG  L    F+E++G  +C  C
Sbjct: 1   KCAGCGKPIYGTERVLRALGKVWHPECFKCATCGKPLSGDTFFEKDGKLYCKDC 54

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

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

 Score = 50.0 bits (120), Expect = 7e-09
 Identities = 19/52 (36%), Positives = 28/52 (53%), Gaps = 1/52 (1%)

Query: 160 CFGCGKPITETAI-KVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
           C GCGKPI    + +   +KWH  CF+C  C +P+ G +F   +    C +C
Sbjct: 1   CAGCGKPIEGRELLRALGKKWHPECFKCSVCGKPLGGDSFYEKDGKPYCEKC 52

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

 Score = 50.3 bits (121), Expect = 7e-09
 Identities = 23/55 (41%), Positives = 31/55 (56%), Gaps = 1/55 (1%)

Query: 40 PKCAACQGLI-QNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          P+CAAC  LI      QA  K WH +HF C  C  P+  Q++ +  G PYC++ Y
Sbjct: 1  PRCAACDELIFSGEYTQAEGKNWHLKHFCCFQCDEPLGGQRYVLREGKPYCLDCY 55

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

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

 Score = 49.6 bits (119), Expect = 1e-08
 Identities = 23/58 (39%), Positives = 30/58 (51%), Gaps = 2/58 (3%)

Query: 101 CQGCRLPIKD--VVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKF 156
           C GC  PI D  +V  AL + WHP+ F C  CG  L    F+E++G  +C   Y   F
Sbjct: 1   CAGCGKPIYDRELVRRALGKVWHPECFRCAVCGKPLGPGDFFEKDGKLYCKHDYFKLF 58

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

>gnl|CDD|188840 cd09456, LIM2_Enigma, The second LIM domain of Enigma

 Score = 49.2 bits (117), Expect = 1e-08
 Identities = 22/52 (42%), Positives = 29/52 (55%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          CA C+  I   I+ AL  TWH   F C  C+ PI  + F++  G+PYC  DY
Sbjct: 1  CAKCKKKITGEIMHALKMTWHVHCFTCAACKTPIRNRAFYMEEGAPYCERDY 52

The second LIM domain of Enigma: Enigma was initially characterized in humans as a protein containing three LIM domains at the C-terminus and a PDZ domain at N-terminus. The third LIM domain specifically interacts with the insulin receptor and the second LIM domain interacts with the receptor tyrosine kinase Ret and the adaptor protein APS. Thus Enigma is implicated in signal transduction processes, such as mitogenic activity, insulin related actin organization, and glucose metabolism. Enigma is expressed in multiple tissues, such as skeletal muscle, heart, bone and brain. 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|188793 cd09409, LIM3_Paxillin, The third LIM domain of paxillin

 Score = 48.7 bits (116), Expect = 3e-08
 Identities = 21/52 (40%), Positives = 29/52 (55%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
           C GC   I +  ++ALN  WHP+ FVC  C T  +   F+E +G  +C A Y
Sbjct: 1   CGGCARAILENYISALNTLWHPECFVCRECFTPFVNGSFFEHDGQPYCEAHY 52

The third LIM domain of paxillin: Paxillin is an adaptor protein, which recruits key components of the signal-transduction machinery to specific sub-cellular locations to respond to environmental changes rapidly. The C-terminal region of paxillin contains four LIM domains which target paxillin to focal adhesions, presumably through a direct association with the cytoplasmic tail of beta-integrin. The N-terminal of paxillin is leucine-rich LD-motifs. Paxillin is found at the interface between the plasma membrane and the actin cytoskeleton. The binding partners of paxillin are diverse and include protein tyrosine kinases, such as Src and FAK, structural proteins, such as vinculin and actopaxin, and regulators of actin organization. Paxillin recruits these proteins to their function sites to control the dynamic changes in cell adhesion, cytoskeletal reorganization and gene expression. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 53

>gnl|CDD|188748 cd09362, LIM2_Enigma_like, The second LIM domain of Enigma-like family

 Score = 48.2 bits (115), Expect = 3e-08
 Identities = 22/52 (42%), Positives = 28/52 (53%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          CA C   I   ++ AL +TWH   F C  C+ PI    FH+  G PYC +DY
Sbjct: 1  CARCHKKILGEVMHALKQTWHVSCFVCAACKQPIGNSLFHMEDGEPYCEKDY 52

The second LIM domain of Enigma-like family: The Enigma LIM domain family is comprised of three members: Enigma, ENH, and Cypher (mouse)/ZASP (human). These subfamily members contain a single PDZ domain at the N-terminus and three LIM domains at the C-terminus. Enigma was initially characterized in humans and is expressed in multiple tissues, such as skeletal muscle, heart, bone and brain. The third LIM domain specifically interacts with the insulin receptor and the second LIM domain interacts with the receptor tyrosine kinase Ret and the adaptor protein APS. Thus Enigma is implicated in signal transduction processes, such as mitogenic activity, insulin related actin organization, and glucose metabolism. The second member, ENH protein, was first identified in rat brain. It has been shown that ENH interacts with protein kinase D1 (PKD1) via its LIM domains and forms a complex with PKD1 and the alpha1C subunit of cardiac L-type voltage-gated calcium channel in rat neonatal cardiomyocytes. The N-terminal PDZ domain interacts with alpha-actinin at the Z-line. ZASP/Cypher is required for maintenance of Z-line structure during muscle contraction, but not required for Z-line assembly. In heart, Cypher/ZASP plays a structural role through its interaction with cytoskeletal Z-line proteins. In addition, there is increasing evidence that Cypher/ZASP also performs signaling functions. Studies reveal that Cypher/ZASP interacts with and directs PKC to the Z-line, where PKC phosphorylates downstream signaling targets. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

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

 Score = 48.3 bits (115), Expect = 4e-08
 Identities = 19/51 (37%), Positives = 25/51 (49%)

Query: 160 CFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
           C  C KPIT   +   D+ WH  CF C  C + ++G  F   E    CV+C
Sbjct: 1   CVKCNKPITSGGVTYQDQPWHSECFVCSSCSKKLAGQRFTAVEDQYYCVDC 51

The third LIM domain of Four and a half LIM domains protein 1 (FHL1): FHL1 is heavily expressed in skeletal and cardiac muscles. It plays important roles in muscle growth, differentiation, and sarcomere assembly by acting as a modulator of transcription factors. Defects in FHL1 gene are responsible for a number of Muscular dystrophy-like muscle disorders. It has been detected that FHL1 binds to Myosin-binding protein C, regulating myosin filament formation and sarcomere assembly. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 53

>gnl|CDD|188841 cd09457, LIM2_ENH, The second LIM domain of the Enigma Homolog (ENH) family

 Score = 46.9 bits (111), Expect = 1e-07
 Identities = 22/52 (42%), Positives = 26/52 (50%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          C  CQ  I   ++ AL +TWH   F C  C  PI    FH+  G PYC  DY
Sbjct: 1  CGRCQRKILGEVINALKQTWHVSCFVCVACHNPIRNNVFHLEDGEPYCETDY 52

The second LIM domain of the Enigma Homolog (ENH) family: ENH was initially identified in rat brain. Same as enigma, it contains three LIM domains at the C-terminus and a PDZ domain at N-terminus. ENH is implicated in signal transduction processes involving protein kinases. It has also been shown that ENH interacts with protein kinase D1 (PKD1) via its LIM domains and forms a complex with PKD1 and the alpha1C subunit of cardiac L-type voltage-gated calcium channel in rat neonatal cardiomyocytes. The N-terminal PDZ domain interacts with alpha-actinin at the Z-line. ENH is expressed in multiple tissues, such as skeletal muscle, heart, bone, and brain. 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|214528 smart00132, LIM, Zinc-binding domain present in Lin-11, Isl-1, Mec-3

 Score = 45.8 bits (109), Expect = 2e-07
 Identities = 22/54 (40%), Positives = 31/54 (57%), Gaps = 2/54 (3%)

Query: 159 KCFGCGKPITETA--IKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
           KC GCGKPI  T   ++   + WH  CF+C  C +P+SG TF   +  + C +C
Sbjct: 1   KCAGCGKPIYGTERVLRALGKVWHPECFKCATCGKPLSGDTFFEKDGKLYCKDC 54

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

>gnl|CDD|188794 cd09410, LIM3_Leupaxin, The third LIM domain of Leupaxin

 Score = 46.4 bits (110), Expect = 2e-07
 Identities = 19/52 (36%), Positives = 26/52 (50%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
           C GC  P+K+  ++A N  WHP+ FVC  C        F+E +G   C   Y
Sbjct: 1   CSGCGRPVKENYLSAANGVWHPECFVCSDCLKPFTDGSFFELDGRPLCELHY 52

The third LIM domain of Leupaxin: Leupaxin is a cytoskeleton adaptor protein, which is preferentially expressed in hematopoietic cells. Leupaxin belongs to the paxillin focal adhesion protein family. Same as other members of the family, it has four leucine-rich LD-motifs in the N-terminus and four LIM domains in the C-terminus. It may function in cell type-specific signaling by associating with interaction partners PYK2, FAK, PEP and p95PKL. When expressed in human leukocytic cells, leupaxin significantly suppressed integrin-mediated cell adhesion to fibronectin and the tyrosine phosphorylation of paxillin. These findings indicate that leupaxin may negatively regulate the functions of paxillin during integrin signaling. 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|188796 cd09412, LIM4_Leupaxin, The fourth LIM domain of Leupaxin

 Score = 45.9 bits (109), Expect = 2e-07
 Identities = 20/52 (38%), Positives = 29/52 (55%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
           C  C LPI    ++AL + +HP+HFVC  C   L    F E+ G  +C+ C+
Sbjct: 1   CGSCGLPITGRCISALGRKFHPEHFVCAFCLRPLTQGSFKEQSGKPYCSTCF 52

The fourth LIM domain of Leupaxin: Leupaxin is a cytoskeleton adaptor protein, which is preferentially expressed in hematopoietic cells. Leupaxin belongs to the paxillin focal adhesion protein family. Same as other members of the family, it has four leucine-rich LD-motifs in the N-terminus and four LIM domains in the C-terminus. It may function in cell type-specific signaling by associating with interaction partners PYK2, FAK, PEP and p95PKL. When expressed in human leukocytic cells, leupaxin significantly suppressed integrin-mediated cell adhesion to fibronectin and the tyrosine phosphorylation of paxillin. These findings indicate that leupaxin may negatively regulate the functions of paxillin during integrin signaling. 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|188724 cd09338, LIM3_Paxillin_like, The third LIM domain of the paxillin like protein family

 Score = 45.8 bits (109), Expect = 3e-07
 Identities = 19/48 (39%), Positives = 21/48 (43%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYC 89
          C  C   I    + AL+  WHPE F C  C  P     F  H G PYC
Sbjct: 1  CGGCNKPILENYISALNTQWHPECFVCRECHKPFINGSFFEHEGLPYC 48

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|188782 cd09396, LIM_DA1, The Lim domain of DA1

 Score = 45.7 bits (109), Expect = 3e-07
 Identities = 21/48 (43%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 42 CAACQG-LIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPY 88
          CA C+  +     + AL   WHPE FRC  CR PIA  +F V    PY
Sbjct: 1  CAGCKSEIGHGRFLSALGAVWHPECFRCHACRKPIAEHEFSVSGNDPY 48

The Lim domain of DA1: DA1 contains one copy of LIM domain and a domain of unknown function. DA1 is predicted as an ubiquitin receptor, which sets final seed and organ size by restricting the period of cell proliferation. 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|188779 cd09393, LIM3_Lrg1p_like, The third LIM domain of Lrg1p, a LIM and RhoGap domain containing protein

 Score = 45.8 bits (109), Expect = 3e-07
 Identities = 22/56 (39%), Positives = 28/56 (50%), Gaps = 4/56 (7%)

Query: 160 CFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISG----PTFRVCEADVVCVECS 211
           C  CGK I +  IK  D++WH  CF C RC R IS       F   +  ++C  CS
Sbjct: 1   CASCGKSIEDECIKFEDKRWHLKCFTCSRCHREISSELSDAAFNNKDQRILCSNCS 56

The third LIM domain of Lrg1p, a LIM and RhoGap domain containing protein: The members of this family contain three tandem repeats of LIM domains and a Rho-type GTPase activating protein (RhoGap) domain. Lrg1p is a Rho1 GTPase-activating protein required for efficient cell fusion in yeast. Lrg1p-GAP domain strongly and specifically stimulates the GTPase activity of Rho1p, a regulator of beta (1-3)-glucan synthase in vitro. The LIM domain is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 56

>gnl|CDD|188836 cd09452, LIM1_Enigma, The first LIM domain of Enigma

 Score = 45.2 bits (107), Expect = 5e-07
 Identities = 19/52 (36%), Positives = 28/52 (53%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
           C  C   I+   + AL +++HP+ F C  C   L   GF+E +G+ FC  CY
Sbjct: 1   CAQCNKIIRGRYLVALGRSYHPEEFTCSQCKKVLDEGGFFEEKGSIFCPKCY 52

The first LIM domain of Enigma: Enigma was initially characterized in humans as a protein containing three LIM domains at the C-terminus and a PDZ domain at N-terminus. The third LIM domain specifically interacts with the insulin receptor and the second LIM domain interacts with the receptor tyrosine kinase Ret and the adaptor protein APS. Thus Enigma is implicated in signal transduction processes such as mitogenic activity, insulin related actin organization, and glucose metabolism. Enigma is expressed in multiple tissues, such as skeletal muscle, heart, bone and brain. 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|188837 cd09453, LIM1_ENH, The first LIM domain of the Enigma Homolog (ENH) family

 Score = 45.0 bits (106), Expect = 6e-07
 Identities = 19/52 (36%), Positives = 28/52 (53%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
           C  C   I+   + AL ++WHP+ F C  C + + Y GF E +G  +C  CY
Sbjct: 1   CATCNQVIRGPFLVALGKSWHPEEFNCAHCKSSMAYIGFVEEKGALYCEICY 52

The first LIM domain of the Enigma Homolog (ENH) family: ENH was initially identified in rat brain. Same as enigma, it contains three LIM domains at the C-terminus and a PDZ domain at N-terminus. ENH is implicated in signal transduction processes involving protein kinases. It has also been shown that ENH interacts with protein kinase D1 (PKD1) via its LIM domains and forms a complex with PKD1 and the alpha1C subunit of cardiac L-type voltage-gated calcium channel in rat neonatal cardiomyocytes. The N-terminal PDZ domain interacts with alpha-actinin at the Z-line. ENH is expressed in multiple tissues, such as skeletal muscle, heart, bone, and brain. 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|188725 cd09339, LIM4_Paxillin_like, The fourth LIM domain of the Paxillin-like protein family

 Score = 44.6 bits (106), Expect = 7e-07
 Identities = 19/52 (36%), Positives = 29/52 (55%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
           C GC  PI    +TA+ + +HP+HFVC  C  +L    F E++   +C  C+
Sbjct: 1   CAGCGKPITGRCITAMGRKFHPEHFVCAFCLKQLSKGTFKEQDDKPYCHPCF 52

The fourth 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 = 52

>gnl|CDD|188747 cd09361, LIM1_Enigma_like, The first LIM domain of Enigma-like family

 Score = 43.5 bits (103), Expect = 2e-06
 Identities = 21/52 (40%), Positives = 28/52 (53%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          CA C  +I+   + AL ++WHPE F C+HC   +A   F    GS YC   Y
Sbjct: 1  CAHCNQVIRGPFLVALGRSWHPEEFTCSHCHCSLAEIGFVEEKGSLYCELCY 52

The first LIM domain of Enigma-like family: The Enigma LIM domain family is comprised of three members: Enigma, ENH, and Cypher (mouse)/ZASP (human). These subfamily members contain a single PDZ domain at the N-terminus and three LIM domains at the C-terminus. Enigma was initially characterized in humans and is expressed in multiple tissues, such as skeletal muscle, heart, bone, and brain. The third LIM domain specifically interacts with the insulin receptor and the second LIM domain interacts with the receptor tyrosine kinase Ret and the adaptor protein APS. Thus Enigma is implicated in signal transduction processes, such as mitogenic activity, insulin related actin organization, and glucose metabolism. The second member, ENH protein, was first identified in rat brain. It has been shown that ENH interacts with protein kinase D1 (PKD1) via its LIM domains and forms a complex with PKD1 and the alpha1C subunit of cardiac L-type voltage-gated calcium channel in rat neonatal cardiomyocytes. The N-terminal PDZ domain interacts with alpha-actinin at the Z-line. ZASP/Cypher is required for maintenance of Z-line structure during muscle contraction, but not required for Z-line assembly. In heart, Cypher/ZASP plays a structural role through its interaction with cytoskeletal Z-line proteins. In addition, there is increasing evidence that Cypher/ZASP also performs signaling functions. Studies reveal that Cypher/ZASP interacts with and directs PKC to the Z-line, where PKC phosphorylates downstream signaling targets. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

>gnl|CDD|188837 cd09453, LIM1_ENH, The first LIM domain of the Enigma Homolog (ENH) family

 Score = 43.5 bits (102), Expect = 2e-06
 Identities = 20/48 (41%), Positives = 27/48 (56%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYC 89
          CA C  +I+   + AL K+WHPE F C HC+  +A   F    G+ YC
Sbjct: 1  CATCNQVIRGPFLVALGKSWHPEEFNCAHCKSSMAYIGFVEEKGALYC 48

The first LIM domain of the Enigma Homolog (ENH) family: ENH was initially identified in rat brain. Same as enigma, it contains three LIM domains at the C-terminus and a PDZ domain at N-terminus. ENH is implicated in signal transduction processes involving protein kinases. It has also been shown that ENH interacts with protein kinase D1 (PKD1) via its LIM domains and forms a complex with PKD1 and the alpha1C subunit of cardiac L-type voltage-gated calcium channel in rat neonatal cardiomyocytes. The N-terminal PDZ domain interacts with alpha-actinin at the Z-line. ENH is expressed in multiple tissues, such as skeletal muscle, heart, bone, and brain. 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|188796 cd09412, LIM4_Leupaxin, The fourth LIM domain of Leupaxin

 Score = 43.2 bits (102), Expect = 3e-06
 Identities = 18/48 (37%), Positives = 24/48 (50%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYC 89
          C +C   I    + AL + +HPEHF C  C  P+    F   +G PYC
Sbjct: 1  CGSCGLPITGRCISALGRKFHPEHFVCAFCLRPLTQGSFKEQSGKPYC 48

The fourth LIM domain of Leupaxin: Leupaxin is a cytoskeleton adaptor protein, which is preferentially expressed in hematopoietic cells. Leupaxin belongs to the paxillin focal adhesion protein family. Same as other members of the family, it has four leucine-rich LD-motifs in the N-terminus and four LIM domains in the C-terminus. It may function in cell type-specific signaling by associating with interaction partners PYK2, FAK, PEP and p95PKL. When expressed in human leukocytic cells, leupaxin significantly suppressed integrin-mediated cell adhesion to fibronectin and the tyrosine phosphorylation of paxillin. These findings indicate that leupaxin may negatively regulate the functions of paxillin during integrin signaling. 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|188721 cd09335, LIM5_PINCH, The fifth LIM domain of protein PINCH

 Score = 43.1 bits (102), Expect = 3e-06
 Identities = 25/54 (46%), Positives = 30/54 (55%), Gaps = 1/54 (1%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKG-FYEREGNAFCTACYE 153
           C  C   I+  VV+ALN+TW  DHF C  C TKL  K  FYE +    C  CY+
Sbjct: 1   CYHCNQVIEGDVVSALNKTWCVDHFSCSFCDTKLTLKSKFYEFDMKPVCKKCYD 54

The fifth LIM domain of protein PINCH: PINCH plays pivotal roles in the assembly of focal adhesions (FAs), regulating diverse functions in cell adhesion, growth, and differentiation through LIM-mediated protein-protein interactions. PINCH comprises an array of five LIM domains that interact with integrin-linked kinase (ILK), Nck2 (also called Nckbeta or Grb4) and other interaction partners. These interactions are essential for triggering the FA assembly and for relaying diverse mechanical and biochemical signals between Cell-extracellular matrix and the actin cytoskeleton. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 54

>gnl|CDD|188795 cd09411, LIM4_Paxillin, The fourth LIM domain of Paxillin

 Score = 42.6 bits (100), Expect = 4e-06
 Identities = 19/52 (36%), Positives = 29/52 (55%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
           C GC+ PI    +TA+ + +HP+HFVC  C  +L    F E+    +C  C+
Sbjct: 1   CSGCQKPITGRCITAMGKKFHPEHFVCAFCLKQLNKGTFKEQNDKPYCHNCF 52

The fourth LIM domain of Paxillin: Paxillin is an adaptor protein, which recruits key components of the signal-transduction machinery to specific sub-cellular locations to respond to environmental changes rapidly. The C-terminal region of paxillin contains four LIM domains which target paxillin to focal adhesions, presumably through a direct association with the cytoplasmic tail of beta-integrin. The N-terminal of paxillin is leucine-rich LD-motifs. Paxillin is found at the interface between the plasma membrane and the actin cytoskeleton. The binding partners of paxillin are diverse and include protein tyrosine kinases, such as Src and FAK, structural proteins, such as vinculin and actopaxin, and regulators of actin organization. Paxillin recruits these proteins to their function sites to control the dynamic changes in cell adhesion, cytoskeletal reorganization and gene expression. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

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

 Score = 42.8 bits (101), Expect = 4e-06
 Identities = 21/56 (37%), Positives = 26/56 (46%), Gaps = 4/56 (7%)

Query: 160 CFGCGKPITETA----IKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECS 211
           C  CGKPIT       I   DR WH  CF C  CR  + G  F      ++C +C+
Sbjct: 1   CAACGKPITGIGGTKFISFEDRHWHNDCFNCAGCRTSLVGKGFITDGGRILCPDCA 56

The sixth LIM domain of protein LIMPETin: LIMPETin contains 6 LIM domains at the C-terminal and an N-terminal PET domain. Four of the six LIM domains are highly homologous to the four and half LIM domain protein family and two of them show sequence similarity to the LIM domains of the testin family. Thus, LIMPETin may be the recombinant product of genes coding testin and FHL proteins. In Schistosoma mansoni, where LIMPETin was first identified, LIMPETin is down regulated in sexually mature adult Schistosoma females compared to sexually immature adult females and adult male. Its differential expression indicates that it is a transcription regulator. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 56

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

 Score = 42.3 bits (99), Expect = 6e-06
 Identities = 18/51 (35%), Positives = 26/51 (50%)

Query: 160 CFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
           C  C KPIT   +   D+ WH+ CF C  C++ +SG  F   +    C+ C
Sbjct: 1   CVQCKKPITTGGVTYRDQPWHKECFVCTGCKKQLSGQRFTSRDDFAYCLNC 51

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

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

 Score = 42.3 bits (100), Expect = 6e-06
 Identities = 17/51 (33%), Positives = 26/51 (50%)

Query: 160 CFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
           C  C K IT   +   D+ WH+ CF C  C++ ++G  F   +    CV+C
Sbjct: 1   CAKCKKAITSGGVTYRDQPWHKECFVCTGCKKQLAGQRFTSRDEYPYCVDC 51

The third LIM domain of Four and a half LIM domains protein (FHL): LIM-only protein family consists of five members, designated FHL1, FHL2, FHL3, FHL5 and LIMPETin. The first four members are composed of four complete LIM domains arranged in tandem and an N-terminal single zinc finger domain with a consensus sequence equivalent to the C-terminal half of a LIM domain. LIMPETin is an exception, containing six LIM domains. FHL1, 2 and 3 are predominantly expressed in muscle tissues, and FHL5 is highly expressed in male germ cells. FHL proteins exert their roles as transcription co-activators or co-repressors through a wide array of interaction partners. For example, FHL1 binds to Myosin-binding protein C, regulating myosin filament formation and sarcomere assembly. FHL2 has shown to interact with more than 50 different proteins, including receptors, structural proteins, transcription factors and cofactors, signal transducers, splicing factors, DNA replication and repair enzymes, and metabolic enzymes. FHL3 int eracts with many transcription factors, such as CREB, BKLF/KLF3, CtBP2, MyoD, and MZF_1. FHL5 is a tissue-specific coactivator of CREB/CREM family transcription factors. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

>gnl|CDD|188793 cd09409, LIM3_Paxillin, The third LIM domain of paxillin

 Score = 41.8 bits (98), Expect = 7e-06
 Identities = 20/52 (38%), Positives = 22/52 (42%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          C  C   I    + AL+  WHPE F C  C  P     F  H G PYC   Y
Sbjct: 1  CGGCARAILENYISALNTLWHPECFVCRECFTPFVNGSFFEHDGQPYCEAHY 52

The third LIM domain of paxillin: Paxillin is an adaptor protein, which recruits key components of the signal-transduction machinery to specific sub-cellular locations to respond to environmental changes rapidly. The C-terminal region of paxillin contains four LIM domains which target paxillin to focal adhesions, presumably through a direct association with the cytoplasmic tail of beta-integrin. The N-terminal of paxillin is leucine-rich LD-motifs. Paxillin is found at the interface between the plasma membrane and the actin cytoskeleton. The binding partners of paxillin are diverse and include protein tyrosine kinases, such as Src and FAK, structural proteins, such as vinculin and actopaxin, and regulators of actin organization. Paxillin recruits these proteins to their function sites to control the dynamic changes in cell adhesion, cytoskeletal reorganization and gene expression. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 53

>gnl|CDD|188736 cd09350, LIM1_TRIP6, The first LIM domain of Thyroid receptor-interacting protein 6 (TRIP6)

 Score = 42.0 bits (99), Expect = 8e-06
 Identities = 17/40 (42%), Positives = 24/40 (60%)

Query: 113 VTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
            TA++Q +H D F C++C  KL  + FY  E  A+C  CY
Sbjct: 15  CTAMDQVFHVDCFTCMTCNGKLRGQPFYAVEKKAYCEPCY 54

The first LIM domain of Thyroid receptor-interacting protein 6 (TRIP6): TRIP6 is a member of the zyxin LIM protein family and contains three LIM zinc-binding domains at the C-terminal. TRIP6 protein localizes to focal adhesion sites and along actin stress fibers. Recruitment of this protein to the plasma membrane occurs in a lysophosphatidic acid (LPA)-dependent manner. TRIP6 recruits a number of molecules involved in actin assembly, cell motility, survival and transcriptional control. The function of TRIP6 in cell motility is regulated by Src-dependent phosphorylation at a Tyr residue. The phosphorylation activates the coupling to the Crk SH2 domain, which is required for the function of TRIP6 in promoting lysophosphatidic acid (LPA)-induced cell migration. TRIP6 can shuttle to the nucleus to serve as a coactivator of AP-1 and NF-kappaB transcriptional factors. Moreover, TRIP6 can form a ternary complex with the NHERF2 PDZ protein and LPA2 receptor to regulate LPA-induced activation of ERK and AKT, rendering cells resistant to chemotherapy. Recent evidence shows that TRIP6 antagonizes Fas-Induced apoptosis by enhancing the antiapoptotic effect of LPA in cells. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 54

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

 Score = 41.0 bits (96), Expect = 2e-05
 Identities = 21/53 (39%), Positives = 26/53 (49%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYE 153
           C  C  PI    VT  +Q WH + FVC SC  KL  + F   E   +C  CY+
Sbjct: 1   CVKCNKPITSGGVTYQDQPWHSECFVCSSCSKKLAGQRFTAVEDQYYCVDCYK 53

The third LIM domain of Four and a half LIM domains protein 1 (FHL1): FHL1 is heavily expressed in skeletal and cardiac muscles. It plays important roles in muscle growth, differentiation, and sarcomere assembly by acting as a modulator of transcription factors. Defects in FHL1 gene are responsible for a number of Muscular dystrophy-like muscle disorders. It has been detected that FHL1 binds to Myosin-binding protein C, regulating myosin filament formation and sarcomere assembly. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 53

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

 Score = 40.9 bits (96), Expect = 2e-05
 Identities = 21/56 (37%), Positives = 26/56 (46%), Gaps = 2/56 (3%)

Query: 160 CFGCGKPITETAIKVHDRK--WHEACFRCGRCRRPISGPTFRVCEADVVCVECSEK 213
           C GC K I      V  +   WH+ CF C  C++PI   +F     D  CV C EK
Sbjct: 1   CKGCYKDILAGDQNVEYKGNVWHKDCFTCSNCKQPIGTKSFFPKGEDFYCVPCHEK 56

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

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

 Score = 40.8 bits (96), Expect = 2e-05
 Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 4/55 (7%)

Query: 160 CFGCGKPITETA----IKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
           C  C KPIT       I   +R+WH  CF CG+C   + G  F     +++C EC
Sbjct: 1   CAACTKPITGLGGAKFISFEERQWHSDCFNCGKCSVSLVGQGFLTQRDEILCPEC 55

The fourth LIM domain of Four and a half LIM domains protein (FHL): LIM-only protein family consists of five members, designated FHL1, FHL2, FHL3, FHL5 and LIMPETin. The first four members are composed of four complete LIM domains arranged in tandem and an N-terminal single zinc finger domain with a consensus sequence equivalent to the C-terminal half of a LIM domain. LIMPETin is an exception, containing six LIM domains. FHL1, 2 and 3 are predominantly expressed in muscle tissues, and FHL5 is highly expressed in male germ cells. FHL proteins exert their roles as transcription co-activators or co-repressors through a wide array of interaction partners. For example, FHL1 binds to Myosin-binding protein C, regulating myosin filament formation and sarcomere assembly. FHL2 has shown to interact with more than 50 different proteins, including receptors, structural proteins, transcription factors and cofactors, signal transducers, splicing factors, DNA replication and repair enzymes, and metabolic enzymes. FHL3 interacts with many transcription factors, such as CREB, BKLF/KLF3, CtBP2, MyoD, and MZF_1. FHL5 is a tissue-specific coactivator of CREB/CREM family transcription factors. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 56

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

 Score = 40.4 bits (95), Expect = 3e-05
 Identities = 16/39 (41%), Positives = 20/39 (51%)

Query: 160 CFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTF 198
           C GC KPI E  I   + +WH  CF C  C +P    +F
Sbjct: 1   CGGCNKPILENYISALNTQWHPECFVCRECHKPFINGSF 39

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

 Score = 40.0 bits (94), Expect = 3e-05
 Identities = 20/52 (38%), Positives = 28/52 (53%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          CA C+  I +  V   D+ WH E F CT C+  +A Q+F      PYCV+ +
Sbjct: 1  CAKCKKAITSGGVTYRDQPWHKECFVCTGCKKQLAGQRFTSRDEYPYCVDCF 52

The third LIM domain of Four and a half LIM domains protein (FHL): LIM-only protein family consists of five members, designated FHL1, FHL2, FHL3, FHL5 and LIMPETin. The first four members are composed of four complete LIM domains arranged in tandem and an N-terminal single zinc finger domain with a consensus sequence equivalent to the C-terminal half of a LIM domain. LIMPETin is an exception, containing six LIM domains. FHL1, 2 and 3 are predominantly expressed in muscle tissues, and FHL5 is highly expressed in male germ cells. FHL proteins exert their roles as transcription co-activators or co-repressors through a wide array of interaction partners. For example, FHL1 binds to Myosin-binding protein C, regulating myosin filament formation and sarcomere assembly. FHL2 has shown to interact with more than 50 different proteins, including receptors, structural proteins, transcription factors and cofactors, signal transducers, splicing factors, DNA replication and repair enzymes, and metabolic enzymes. FHL3 int eracts with many transcription factors, such as CREB, BKLF/KLF3, CtBP2, MyoD, and MZF_1. FHL5 is a tissue-specific coactivator of CREB/CREM family transcription factors. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

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

 Score = 40.3 bits (94), Expect = 3e-05
 Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 2/53 (3%)

Query: 160 CFGCGKPITETA--IKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
           C  C KPI      +   DR WHE+CF C +C+  +    F   E  ++C EC
Sbjct: 5   CEECKKPIGCDCKDLSYKDRHWHESCFHCFQCKNSLVDKPFAAKEEHLLCTEC 57

The first LIM domain of Four and a half LIM domains protein 2 (FHL2): FHL2 is one of the best studied FHL proteins. FHL2 expression is most abundant in the heart, and in brain, liver and lung at lesser extent. FHL2 participates in a wide range of cellular processes, such as transcriptional regulation, signal transduction, and cell survival by binding to various protein partners. FHL2 has shown to interact with more than 50 different proteins, including receptors, structural proteins, transcription factors and cofactors, signal transducers, splicing factors, DNA replication and repair enzymes, and metabolic enzymes. Although FHL2 is abundantly expressed in heart, the fhl2 null mice are viable and had no detectable abnormal cardiac phenotype. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 62

>gnl|CDD|188714 cd09328, LIM2_abLIM, The second LIM domain on actin binding LIM (abLIM) proteins

 Score = 40.0 bits (94), Expect = 4e-05
 Identities = 16/34 (47%), Positives = 23/34 (67%)

Query: 41 KCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIP 74
          KC +CQ  ++  +V AL KT+HP+ F C+ CR P
Sbjct: 3  KCDSCQDFVEGEVVSALGKTYHPKCFVCSVCRQP 36

The second 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 = 56

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

 Score = 39.7 bits (93), Expect = 4e-05
 Identities = 19/54 (35%), Positives = 32/54 (59%), Gaps = 2/54 (3%)

Query: 160 CFGCGKPITETAIKVH--DRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECS 211
           C  C KPI   + ++H  +R WHE CFRC +C +P++   F   +  ++C +C+
Sbjct: 1   CAECRKPIGADSKELHHKNRYWHETCFRCAKCYKPLANEPFVAKDNKILCGKCT 54

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

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

 Score = 39.6 bits (93), Expect = 4e-05
 Identities = 19/53 (35%), Positives = 27/53 (50%), Gaps = 2/53 (3%)

Query: 160 CFGCGKPITETAIKVH--DRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
           C  CGK I   + K+    + WHE CF C  C++PI   +F   +  + CV C
Sbjct: 1   CKACGKAIMPGSKKMEYKGKFWHEKCFTCSECKKPIGTKSFIPKDDKIYCVPC 53

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

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

 Score = 39.6 bits (93), Expect = 5e-05
 Identities = 19/56 (33%), Positives = 25/56 (44%), Gaps = 2/56 (3%)

Query: 160 CFGCGKPI--TETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSEK 213
           C GCGKPI   E   +   + WH  CFRC  C +P+    F   +  + C     K
Sbjct: 1   CAGCGKPIYDRELVRRALGKVWHPECFRCAVCGKPLGPGDFFEKDGKLYCKHDYFK 56

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

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

 Score = 39.6 bits (93), Expect = 5e-05
 Identities = 16/53 (30%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQK-FHVHAGSPYCVEDY 93
          C  C G ++   + AL + +H EHF C+ C         ++ H G  YC   Y
Sbjct: 1  CFKCGGALRGSYITALGRKYHVEHFTCSVCPTVFGPNDSYYEHEGKIYCHYHY 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|188741 cd09355, LIM2_Ajuba_like, The second LIM domain of Ajuba-like proteins

 Score = 39.6 bits (93), Expect = 5e-05
 Identities = 23/53 (43%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHV-HAGSPYCVEDY 93
          CA C  LI  +I+QAL K++HP  FRC  C   +    F V    + YCV+DY
Sbjct: 1  CAVCGHLIMEMILQALGKSYHPGCFRCCVCNECLDGVPFTVDVENNIYCVKDY 53

The second LIM domain of Ajuba-like proteins: Ajuba like LIM protein family includes three highly homologous proteins Ajuba, Limd1, and WTIP. Members of the family contain three tandem C-terminal LIM domains and a proline-rich N-terminal region. This family of proteins functions as scaffolds, participating in the assembly of numerous protein complexes. In the cytoplasm, Ajuba binds Grb2 to modulate serum-stimulated ERK activation. Ajuba also recruits the TNF receptor-associated factor 6 (TRAF6) to p62 and activates PKCKappa activity. Ajuba interacts with alpha-catenin and F-actin to contribute to the formation or stabilization of adheren junctions by linking adhesive receptors to the actin cytoskeleton. Although Ajuba is a cytoplasmic protein, it can shuttle into the nucleus. In nucleus, Ajuba functions as a corepressor for the zinc finger-protein Snail. It binds to the SNAG repression domain of Snail through its LIM region. Arginine methyltransferase-5 (Prmt5), a protein in the complex, is recruited to Snai l through an interaction with Ajuba. This ternary complex functions to repress E-cadherin, a Snail target gene. In addition, Ajuba contains functional nuclear-receptor interacting motifs and selectively interacts with retinoic acid receptors (RARs) and rexinoid receptor (RXRs) to negatively regulate retinoic acid signaling. Wtip, the Wt1-interacting protein, was originally identified as an interaction partner of the Wilms tumour protein 1 (WT1). Wtip is involved in kidney and neural crest development. Wtip interacts with the receptor tyrosine kinase Ror2 and inhibits canonical Wnt signaling. LIMD1 was reported to inhibit cell growth and metastases. The inhibition may be mediated through an interaction with the protein barrier-to-autointegration (BAF), a component of SWI/SNF chromatin-remodeling protein; or through the interaction with retinoblastoma protein (pRB), resulting in inhibition of E2F-mediated transcription, and expression of the majority of genes with E2F1- responsive elements. Recently, Limd1 was shown to interact with the p62/sequestosome protein and influence IL-1 and RANKL signaling by facilitating the assembly of a p62/TRAF6/a-PKC multi-protein complex. The Limd1-p62 interaction affects both NF-kappaB and AP-1 activity in epithelial cells and osteoclasts. Moreover, LIMD1 functions as tumor repressor to block lung tumor cell line in vitro and in vivo. Recent studies revealed that LIM proteins Wtip, LIMD1 and Ajuba interact with components of RNA induced silencing complexes (RISC) as well as eIF4E and the mRNA m7GTP cap-protein complex and are required for microRNA-mediated gene silencing. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 53

>gnl|CDD|188734 cd09348, LIM4_FHL1, The fourth LIM domain of Four and a half LIM domains protein 1 (FHL1)

 Score = 39.7 bits (93), Expect = 5e-05
 Identities = 17/60 (28%), Positives = 26/60 (43%), Gaps = 5/60 (8%)

Query: 159 KCFGCGKPIT-----ETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSEK 213
           KC GC  PIT        +      WH+ CF C +C   ++   F      + C +C++K
Sbjct: 4   KCSGCQNPITGFGKGTNVVNYEGSSWHDYCFNCKKCSLNLANKRFVFHNGQIYCSDCAKK 63

The fourth LIM domain of Four and a half LIM domains protein 1 (FHL1): FHL1 is heavily expressed in skeletal and cardiac muscles. It plays important roles in muscle growth, differentiation, and sarcomere assembly by acting as a modulator of transcription factors. Defects in FHL1 gene are responsible for a number of Muscular dystrophy-like muscle disorders. It has been detected that FHL1 binds to Myosin-binding protein C, regulating myosin filament formation and sarcomere assembly. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 64

>gnl|CDD|188782 cd09396, LIM_DA1, The Lim domain of DA1

 Score = 39.5 bits (93), Expect = 6e-05
 Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 101 CQGCRLPIKDV-VVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
           C GC+  I     ++AL   WHP+ F C +C   +    F     + +  +CY
Sbjct: 1   CAGCKSEIGHGRFLSALGAVWHPECFRCHACRKPIAEHEFSVSGNDPYHKSCY 53

The Lim domain of DA1: DA1 contains one copy of LIM domain and a domain of unknown function. DA1 is predicted as an ubiquitin receptor, which sets final seed and organ size by restricting the period of cell proliferation. 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|188818 cd09434, LIM4_FHL3, The fourth LIM domain of Four and a half LIM domains protein 3 (FHL3)

 Score = 39.4 bits (92), Expect = 6e-05
 Identities = 19/56 (33%), Positives = 28/56 (50%), Gaps = 4/56 (7%)

Query: 160 CFGCGKPITETA----IKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECS 211
           C  C KPIT       +   DR+WH+ CF+C RC   + G  F      ++C +C+
Sbjct: 1   CAACNKPITGFGGGKYVSFEDRQWHQPCFKCSRCSVSLVGAGFFPDGDQILCRDCN 56

The fourth LIM domain of Four and a half LIM domains protein 3 (FHL3): FHL3 is highly expressed in the skeleton and cardiac muscles and possesses the transactivation and repression activities. FHL3 interacts with many transcription factors, such as CREB, BKLF/KLF3, CtBP2, MyoD, and MZF_1. Moreover, FHL3 interacts with alpha- and beta-subunits of the muscle alpha7beta1 integrin receptor. FHL3 was also proved to possess the auto-activation ability and was confirmed that the second zinc finger motif in fourth LIM domain was responsible for the auto-activation of FHL3. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 56

>gnl|CDD|188841 cd09457, LIM2_ENH, The second LIM domain of the Enigma Homolog (ENH) family

 Score = 38.9 bits (90), Expect = 1e-04
 Identities = 18/52 (34%), Positives = 26/52 (50%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
           C  C+  I   V+ AL QTWH   FVC++C   +    F+  +G  +C   Y
Sbjct: 1   CGRCQRKILGEVINALKQTWHVSCFVCVACHNPIRNNVFHLEDGEPYCETDY 52

The second LIM domain of the Enigma Homolog (ENH) family: ENH was initially identified in rat brain. Same as enigma, it contains three LIM domains at the C-terminus and a PDZ domain at N-terminus. ENH is implicated in signal transduction processes involving protein kinases. It has also been shown that ENH interacts with protein kinase D1 (PKD1) via its LIM domains and forms a complex with PKD1 and the alpha1C subunit of cardiac L-type voltage-gated calcium channel in rat neonatal cardiomyocytes. The N-terminal PDZ domain interacts with alpha-actinin at the Z-line. ENH is expressed in multiple tissues, such as skeletal muscle, heart, bone, and brain. 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|188782 cd09396, LIM_DA1, The Lim domain of DA1

 Score = 38.8 bits (91), Expect = 1e-04
 Identities = 16/42 (38%), Positives = 19/42 (45%), Gaps = 1/42 (2%)

Query: 160 CFGCGKPITET-AIKVHDRKWHEACFRCGRCRRPISGPTFRV 200
           C GC   I     +      WH  CFRC  CR+PI+   F V
Sbjct: 1   CAGCKSEIGHGRFLSALGAVWHPECFRCHACRKPIAEHEFSV 42

The Lim domain of DA1: DA1 contains one copy of LIM domain and a domain of unknown function. DA1 is predicted as an ubiquitin receptor, which sets final seed and organ size by restricting the period of cell proliferation. 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|188725 cd09339, LIM4_Paxillin_like, The fourth LIM domain of the Paxillin-like protein family

 Score = 38.1 bits (89), Expect = 1e-04
 Identities = 16/52 (30%), Positives = 23/52 (44%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          CA C   I    + A+ + +HPEHF C  C   ++   F      PYC   +
Sbjct: 1  CAGCGKPITGRCITAMGRKFHPEHFVCAFCLKQLSKGTFKEQDDKPYCHPCF 52

The fourth 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 = 52

>gnl|CDD|188838 cd09454, LIM1_ZASP_Cypher, The first LIM domain of ZASP/Cypher family

 Score = 38.8 bits (90), Expect = 1e-04
 Identities = 19/52 (36%), Positives = 26/52 (50%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
           C  C   I+   + AL ++WHP+ F C  C T L    F E + N +C  CY
Sbjct: 1   CGHCNNIIRGPFLVALGRSWHPEEFTCHYCHTSLADVSFVEEQNNVYCENCY 52

The first LIM domain of ZASP/Cypher family: ZASP was identified in human heart and skeletal muscle and Cypher is a mice ortholog of ZASP. ZASP/Cyppher contains three LIM domains at the C-terminus and a PDZ domain at N-terminus. ZASP/Cypher is required for maintenance of Z-line structure during muscle contraction, but not required for Z-line assembly. In heart, Cypher/ZASP plays a structural role through its interaction with cytoskeletal Z-line proteins. In addition, there is increasing evidence that Cypher/ZASP also performs signaling functions. Studies reveal that Cypher/ZASP interacts with and directs PKC to the Z-line, where PKC phosphorylates downstream signaling targets. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

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

 Score = 38.8 bits (90), Expect = 1e-04
 Identities = 18/55 (32%), Positives = 31/55 (56%), Gaps = 2/55 (3%)

Query: 40 PKCAAC-QGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          P CA C Q ++   I++ LD+ WH +  +C+ C+  +A + F     S YC +D+
Sbjct: 2  PLCAGCNQHIVDRFILKVLDRHWHSKCLKCSDCQTQLAEKCFS-RGDSVYCKDDF 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|188715 cd09329, LIM3_abLIM, The third LIM domain of actin binding LIM (abLIM) proteins

 Score = 38.5 bits (90), Expect = 1e-04
 Identities = 21/53 (39%), Positives = 27/53 (50%), Gaps = 2/53 (3%)

Query: 42 CAACQGLIQN-IIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          CA C   I+N   + ALDK WH   F+C  C   + T ++    G PYC  DY
Sbjct: 1  CAGCGQEIKNGQALLALDKQWHVWCFKCKECGKVL-TGEYMGKDGKPYCERDY 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|188718 cd09332, LIM2_PINCH, The second LIM domain of protein PINCH

 Score = 38.5 bits (90), Expect = 1e-04
 Identities = 19/51 (37%), Positives = 24/51 (47%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTAC 151
           C  C   +   V+ A+N  WHPD F C  C  +L   GF +  G A C  C
Sbjct: 1   CGKCGEFVIGRVIKAMNNNWHPDCFRCEICNKELADIGFVKNAGRALCHPC 51

The second LIM domain of protein PINCH: PINCH plays a pivotal role in the assembly of focal adhesions (FAs), regulating diverse functions in cell adhesion, growth, and differentiation through LIM-mediated protein-protein interactions. PINCH comprises an array of five LIM domains that interact with integrin-linked kinase (ILK), Nck2 (also called Nckbeta or Grb4) and other interaction partners. These interactions are essential for triggering the FA assembly and for relaying diverse mechanical and biochemical signals between Cell-extracellular matrix and the actin cytoskeleton. 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|188748 cd09362, LIM2_Enigma_like, The second LIM domain of Enigma-like family

 Score = 37.8 bits (88), Expect = 2e-04
 Identities = 18/52 (34%), Positives = 24/52 (46%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
           C  C   I   V+ AL QTWH   FVC +C   +    F+  +G  +C   Y
Sbjct: 1   CARCHKKILGEVMHALKQTWHVSCFVCAACKQPIGNSLFHMEDGEPYCEKDY 52

The second LIM domain of Enigma-like family: The Enigma LIM domain family is comprised of three members: Enigma, ENH, and Cypher (mouse)/ZASP (human). These subfamily members contain a single PDZ domain at the N-terminus and three LIM domains at the C-terminus. Enigma was initially characterized in humans and is expressed in multiple tissues, such as skeletal muscle, heart, bone and brain. The third LIM domain specifically interacts with the insulin receptor and the second LIM domain interacts with the receptor tyrosine kinase Ret and the adaptor protein APS. Thus Enigma is implicated in signal transduction processes, such as mitogenic activity, insulin related actin organization, and glucose metabolism. The second member, ENH protein, was first identified in rat brain. It has been shown that ENH interacts with protein kinase D1 (PKD1) via its LIM domains and forms a complex with PKD1 and the alpha1C subunit of cardiac L-type voltage-gated calcium channel in rat neonatal cardiomyocytes. The N-terminal PDZ domain interacts with alpha-actinin at the Z-line. ZASP/Cypher is required for maintenance of Z-line structure during muscle contraction, but not required for Z-line assembly. In heart, Cypher/ZASP plays a structural role through its interaction with cytoskeletal Z-line proteins. In addition, there is increasing evidence that Cypher/ZASP also performs signaling functions. Studies reveal that Cypher/ZASP interacts with and directs PKC to the Z-line, where PKC phosphorylates downstream signaling targets. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

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

 Score = 38.1 bits (89), Expect = 2e-04
 Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 1/49 (2%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKL-LYKGFYEREGNAFC 148
           C  C   ++   +TAL + +H +HF C  C T       +YE EG  +C
Sbjct: 1   CFKCGGALRGSYITALGRKYHVEHFTCSVCPTVFGPNDSYYEHEGKIYC 49

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

 Score = 38.1 bits (89), Expect = 2e-04
 Identities = 14/37 (37%), Positives = 21/37 (56%), Gaps = 1/37 (2%)

Query: 160 CFGCGKPITE-TAIKVHDRKWHEACFRCGRCRRPISG 195
           C GCG+ I +   +   DR+WH +C +C  CR P+  
Sbjct: 1   CAGCGEKIQDRFYLLAVDRQWHASCLKCCECRLPLDS 37

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|188852 cd09468, LIM1_Lhx4, The first LIM domain of Lhx4

 Score = 38.0 bits (88), Expect = 2e-04
 Identities = 19/53 (35%), Positives = 31/53 (58%), Gaps = 2/53 (3%)

Query: 42 CAAC-QGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          CA C Q ++   I++ LD+ WH    +C  C++ +A + F   AG+ YC ED+
Sbjct: 1  CAGCNQHILDKFILKVLDRHWHSSCLKCADCQMQLAERCFS-RAGNVYCKEDF 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|188850 cd09466, LIM1_Lhx3a, The first LIM domain of Lhx3a

 Score = 38.2 bits (89), Expect = 2e-04
 Identities = 17/42 (40%), Positives = 23/42 (54%), Gaps = 1/42 (2%)

Query: 158 PKCFGCGKPITETAI-KVHDRKWHEACFRCGRCRRPISGPTF 198
           PKC GC  PI +  I KV D+ WH  C +C  C+  ++   F
Sbjct: 2   PKCAGCDHPIFDRFILKVQDKPWHSKCLKCVDCQAQLTDKCF 43

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

 Score = 37.9 bits (88), Expect = 2e-04
 Identities = 22/53 (41%), Positives = 27/53 (50%), Gaps = 2/53 (3%)

Query: 101 CQGCRLPIKDV-VVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
           C GCR  I D   V ALNQ WH D F C  C    L   ++E++G  +C   Y
Sbjct: 1   CAGCRGKILDSQYVQALNQDWHCDCFRCSVCSDS-LSNWYFEKDGKLYCRKDY 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|188714 cd09328, LIM2_abLIM, The second LIM domain on actin binding LIM (abLIM) proteins

 Score = 37.7 bits (88), Expect = 3e-04
 Identities = 10/34 (29%), Positives = 15/34 (44%)

Query: 159 KCFGCGKPITETAIKVHDRKWHEACFRCGRCRRP 192
           KC  C   +    +    + +H  CF C  CR+P
Sbjct: 3   KCDSCQDFVEGEVVSALGKTYHPKCFVCSVCRQP 36

The second 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 = 56

>gnl|CDD|188749 cd09363, LIM3_Enigma_like, The third LIM domain of Enigma-like family

 Score = 37.4 bits (87), Expect = 3e-04
 Identities = 19/50 (38%), Positives = 24/50 (48%), Gaps = 2/50 (4%)

Query: 101 CQGCRLPIK--DVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFC 148
           C GC  PI+  D  + AL  TWH   FVC  C   L  + FY ++    C
Sbjct: 1   CHGCDFPIEAGDRFLEALGHTWHDTCFVCAVCHVNLEGQTFYSKKDKPLC 50

The third LIM domain of Enigma-like family: The Enigma LIM domain family is comprised of three members: Enigma, ENH, and Cypher (mouse)/ZASP (human). These subfamily members contain a single PDZ domain at the N-terminus and three LIM domains at the C-terminus. Enigma was initially characterized in humans and is expressed in multiple tissues, such as skeletal muscle, heart, bone, and brain. The third LIM domain specifically interacts with the insulin receptor and the second LIM domain interacts with the receptor tyrosine kinase Ret and the adaptor protein APS. Thus Enigma is implicated in signal transduction processes, such as mitogenic activity, insulin related actin organization, and glucose metabolism. The second member, ENH protein, was first identified in rat brain. It has been shown that ENH interacts with protein kinase D1 (PKD1) via its LIM domains and forms a complex with PKD1 and the alpha1C subunit of cardiac L-type voltage-gated calcium channel in rat neonatal cardiomyocytes. The N-terminal PDZ domain interacts with alpha-actinin at the Z-line. ZASP/Cypher is required for maintenance of Z-line structure during muscle contraction, but not required for Z-line assembly. In heart, Cypher/ZASP plays a structural role through its interaction with cytoskeletal Z-line proteins. In addition, there is increasing evidence that Cypher/ZASP also performs signaling functions. Studies reveal that Cypher/ZASP interacts with and directs PKC to the Z-line, where PKC phosphorylates downstream signaling targets. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 54

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

 Score = 37.5 bits (87), Expect = 3e-04
 Identities = 17/52 (32%), Positives = 27/52 (51%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          C+ C  +I +  V   ++ WH E F CT+C   +A Q+F      PYC + +
Sbjct: 1  CSKCNKIINSGGVTYKNEPWHRECFTCTNCSKSLAGQRFTSRDEKPYCADCF 52

The fifth LIM domain of protein LIMPETin: LIMPETin contains 6 LIM domains at the C-terminal and an N-terminal PET domain. Four of the six LIM domains are highly homologous to the four and half LIM domain protein family and two of them show sequence similarity to the LIM domains of the testin family. Thus, LIMPETin may be the recombinant product of genes coding testin and FHL proteins. In Schistosoma mansoni, where LIMPETin was first identified, LIMPETin is down regulated in sexually mature adult Schistosoma females compared to sexually immature adult females and adult male. Its differential expression indicates that it is a transcription regulator. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

>gnl|CDD|188780 cd09394, LIM1_Rga, The first LIM domain of Rga GTPase-Activating Proteins

 Score = 37.3 bits (87), Expect = 3e-04
 Identities = 18/55 (32%), Positives = 31/55 (56%), Gaps = 3/55 (5%)

Query: 160 CFGCGKPITE-TAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEAD--VVCVECS 211
           C GC + ITE  A ++   +WH  CF+C +C + +S  +  +   D  ++C +CS
Sbjct: 1   CVGCKESITEGHAYELGGDRWHIHCFKCYKCDKKLSCDSNFLVLGDGSLICSDCS 55

The first LIM domain of Rga GTPase-Activating Proteins: The members of this family contain two tandem repeats of LIM domains and a Rho-type GTPase activating protein (RhoGap) domain. Rga activates GTPases during polarized morphogenesis. In yeast, a known regulating target of Rga is CDC42p, a small GTPase. 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 = 55

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

 Score = 37.3 bits (86), Expect = 3e-04
 Identities = 19/57 (33%), Positives = 27/57 (47%), Gaps = 4/57 (7%)

Query: 160 CFGCGKPIT----ETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSE 212
           C GC  PI+       I   +R+WH  CF C +C   + G  F     D++C EC +
Sbjct: 1   CAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPECGK 57

The fourth LIM domain of Four and a half LIM domains protein 2 (FHL2): FHL2 is one of the best studied FHL proteins. FHL2 expression is most abundant in the heart, and in brain, liver and lung to a lesser extent. FHL2 participates in a wide range of cellular processes, such as transcriptional regulation, signal transduction, and cell survival by binding to various protein partners. FHL2 has shown to interact with more than 50 different proteins, including receptors, structural proteins, transcription factors and cofactors, signal transducers, splicing factors, DNA replication and repair enzymes, and metabolic enzymes. Although FHL2 is abundantly expressed in heart, the fhl2 null mice are viable and had no detectable abnormal cardiac phenotype. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to s upport the assembly of multimeric protein complexes. Length = 58

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

 Score = 37.2 bits (87), Expect = 4e-04
 Identities = 15/39 (38%), Positives = 19/39 (48%)

Query: 115 ALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYE 153
           A  + WH  HF C  C   L  + +  REG  +C  CYE
Sbjct: 18  AEGKNWHLKHFCCFQCDEPLGGQRYVLREGKPYCLDCYE 56

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

>gnl|CDD|188794 cd09410, LIM3_Leupaxin, The third LIM domain of Leupaxin

 Score = 37.1 bits (86), Expect = 4e-04
 Identities = 14/39 (35%), Positives = 21/39 (53%)

Query: 160 CFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTF 198
           C GCG+P+ E  +   +  WH  CF C  C +P +  +F
Sbjct: 1   CSGCGRPVKENYLSAANGVWHPECFVCSDCLKPFTDGSF 39

The third LIM domain of Leupaxin: Leupaxin is a cytoskeleton adaptor protein, which is preferentially expressed in hematopoietic cells. Leupaxin belongs to the paxillin focal adhesion protein family. Same as other members of the family, it has four leucine-rich LD-motifs in the N-terminus and four LIM domains in the C-terminus. It may function in cell type-specific signaling by associating with interaction partners PYK2, FAK, PEP and p95PKL. When expressed in human leukocytic cells, leupaxin significantly suppressed integrin-mediated cell adhesion to fibronectin and the tyrosine phosphorylation of paxillin. These findings indicate that leupaxin may negatively regulate the functions of paxillin during integrin signaling. 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|188816 cd09432, LIM6_LIMPETin, The sixth LIM domain of protein LIMPETin

 Score = 37.1 bits (86), Expect = 4e-04
 Identities = 19/55 (34%), Positives = 23/55 (41%), Gaps = 4/55 (7%)

Query: 101 CQGCRLPIKDVVVTAL----NQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTAC 151
           C  C  PI  +  T      ++ WH D F C  C T L+ KGF    G   C  C
Sbjct: 1   CAACGKPITGIGGTKFISFEDRHWHNDCFNCAGCRTSLVGKGFITDGGRILCPDC 55

The sixth LIM domain of protein LIMPETin: LIMPETin contains 6 LIM domains at the C-terminal and an N-terminal PET domain. Four of the six LIM domains are highly homologous to the four and half LIM domain protein family and two of them show sequence similarity to the LIM domains of the testin family. Thus, LIMPETin may be the recombinant product of genes coding testin and FHL proteins. In Schistosoma mansoni, where LIMPETin was first identified, LIMPETin is down regulated in sexually mature adult Schistosoma females compared to sexually immature adult females and adult male. Its differential expression indicates that it is a transcription regulator. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 56

>gnl|CDD|188720 cd09334, LIM4_PINCH, The fourth LIM domain of protein PINCH

 Score = 36.6 bits (85), Expect = 5e-04
 Identities = 12/38 (31%), Positives = 17/38 (44%)

Query: 158 PKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISG 195
           P C  C +PI    +    + WH   F C +C +P  G
Sbjct: 1   PICGACRRPIEGRVVTALGKHWHVEHFVCAKCEKPFLG 38

The fourth LIM domain of protein PINCH: PINCH plays a pivotal role in the assembly of focal adhesions (FAs), regulating diverse functions in cell adhesion, growth, and differentiation through LIM-mediated protein-protein interactions. PINCH comprises an array of five LIM domains that interact with integrin-linked kinase (ILK), Nck2 (also called Nckbeta or Grb4) and other interaction partners. These interactions are essential for triggering the FA assembly and for relaying diverse mechanical and biochemical signals between Cell-extracellular matrix and the actin cytoskeleton. The PINCH LIM4 domain recognizes the third SH3 domain of another adaptor protein, Nck2. This step is an important component of integrin signaling event. 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 assem bly of multimeric protein complexes. Length = 54

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

 Score = 36.6 bits (85), Expect = 6e-04
 Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 2/57 (3%)

Query: 156 FCPKCFGCGKPITETA--IKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
           F   C  C K I   +  +   DR WHE CF+C +C+R +    F   + D++C EC
Sbjct: 1   FANTCEECKKKIGCDSKDLSYKDRHWHEGCFKCFKCQRSLVDKPFAAKDEDLLCTEC 57

The first LIM domain of Four and a half LIM domains protein (FHL): LIM-only protein family consists of five members, designated FHL1, FHL2, FHL3, FHL5 and LIMPETin. The first four members are composed of four complete LIM domains arranged in tandem and an N-terminal single zinc finger domain with a consensus sequence equivalent to the C-terminal half of a LIM domain. LIMPETin is an exception, containing six LIM domains. FHL1, 2 and 3 are predominantly expressed in muscle tissues, and FHL5 is highly expressed in male germ cells. FHL proteins exert their roles as transcription co-activators or co-repressors through a wide array of interaction partners. For example, FHL1 binds to Myosin-binding protein C, regulating myosin filament formation and sarcomere assembly. FHL2 has shown to interact with more than 50 different proteins, including receptors, structural proteins, transcription factors and cofactors, signal transducers, splicing factors, DNA replication and repair enzymes, and metabolic enzymes. FHL3 int eracts with many transcription factors, such as CREB, BKLF/KLF3, CtBP2, MyoD, and MZF_1. FHL5 is a tissue-specific coactivator of CREB/CREM family transcription factors. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 59

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

 Score = 36.2 bits (84), Expect = 7e-04
 Identities = 17/52 (32%), Positives = 25/52 (48%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
           C  C+  I    VT  +Q WH + FVC  C  +L  + F  R+   +C  C+
Sbjct: 1   CAKCKKAITSGGVTYRDQPWHKECFVCTGCKKQLAGQRFTSRDEYPYCVDCF 52

The third LIM domain of Four and a half LIM domains protein (FHL): LIM-only protein family consists of five members, designated FHL1, FHL2, FHL3, FHL5 and LIMPETin. The first four members are composed of four complete LIM domains arranged in tandem and an N-terminal single zinc finger domain with a consensus sequence equivalent to the C-terminal half of a LIM domain. LIMPETin is an exception, containing six LIM domains. FHL1, 2 and 3 are predominantly expressed in muscle tissues, and FHL5 is highly expressed in male germ cells. FHL proteins exert their roles as transcription co-activators or co-repressors through a wide array of interaction partners. For example, FHL1 binds to Myosin-binding protein C, regulating myosin filament formation and sarcomere assembly. FHL2 has shown to interact with more than 50 different proteins, including receptors, structural proteins, transcription factors and cofactors, signal transducers, splicing factors, DNA replication and repair enzymes, and metabolic enzymes. FHL3 int eracts with many transcription factors, such as CREB, BKLF/KLF3, CtBP2, MyoD, and MZF_1. FHL5 is a tissue-specific coactivator of CREB/CREM family transcription factors. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

>gnl|CDD|188739 cd09353, LIM2_Zyxin, The second LIM domain of Zyxin

 Score = 36.4 bits (84), Expect = 7e-04
 Identities = 20/53 (37%), Positives = 31/53 (58%), Gaps = 1/53 (1%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHV-HAGSPYCVEDY 93
          CA C   I + +++A  K++HP+ F C  C+ P+  + F V  A  P+CV DY
Sbjct: 1  CAVCDQKITDRMLKATGKSYHPQCFTCVVCKCPLEGESFIVDQANQPHCVNDY 53

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

 Score = 36.6 bits (85), Expect = 7e-04
 Identities = 19/50 (38%), Positives = 28/50 (56%), Gaps = 2/50 (4%)

Query: 160 CFGCGKPITETAI-KVHDRKWHEACFRCGRCRRPISG-PTFRVCEADVVC 207
           C GCG+PIT+  + KV  R WH +C RC  C+ P+   P+    +  + C
Sbjct: 1   CTGCGEPITDRFLLKVSGRSWHVSCLRCCVCQTPLERQPSCFTRDRQIYC 50

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|188834 cd09450, LIM_ALP, This family represents the LIM domain of ALP, actinin-associated LIM protein

 Score = 36.4 bits (84), Expect = 7e-04
 Identities = 19/50 (38%), Positives = 25/50 (50%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTA 150
           C  C   I   VV A ++  HP+ FVC  C   L  KG++  EG  +C A
Sbjct: 1   CDKCGSGIVGTVVKARDKYRHPECFVCSDCNLNLKQKGYFFVEGQLYCEA 50

This family represents the LIM domain of ALP, actinin-associated LIM protein. ALP contains an N-terminal PDZ domain, a C-terminal LIM domain and an ALP-subfamily-specific 34-amino-acid motif termed ALP-like motif (AM), which contains a putative consensus protein kinase C (PKC) phosphorylation site and two alpha-helices. ALP proteins are found in heart and in skeletal muscle. ALP may act as a signaling molecule which is regulated by PKC-dependent signaling. ALP plays an essential role in the development of RV (right ventricle) chamber. 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|188836 cd09452, LIM1_Enigma, The first LIM domain of Enigma

 Score = 36.3 bits (84), Expect = 8e-04
 Identities = 17/52 (32%), Positives = 28/52 (53%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          CA C  +I+   + AL +++HPE F C+ C+  +    F    GS +C + Y
Sbjct: 1  CAQCNKIIRGRYLVALGRSYHPEEFTCSQCKKVLDEGGFFEEKGSIFCPKCY 52

The first LIM domain of Enigma: Enigma was initially characterized in humans as a protein containing three LIM domains at the C-terminus and a PDZ domain at N-terminus. The third LIM domain specifically interacts with the insulin receptor and the second LIM domain interacts with the receptor tyrosine kinase Ret and the adaptor protein APS. Thus Enigma is implicated in signal transduction processes such as mitogenic activity, insulin related actin organization, and glucose metabolism. Enigma is expressed in multiple tissues, such as skeletal muscle, heart, bone and brain. 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|188838 cd09454, LIM1_ZASP_Cypher, The first LIM domain of ZASP/Cypher family

 Score = 36.1 bits (83), Expect = 8e-04
 Identities = 17/52 (32%), Positives = 25/52 (48%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          C  C  +I+   + AL ++WHPE F C +C   +A   F     + YC   Y
Sbjct: 1  CGHCNNIIRGPFLVALGRSWHPEEFTCHYCHTSLADVSFVEEQNNVYCENCY 52

The first LIM domain of ZASP/Cypher family: ZASP was identified in human heart and skeletal muscle and Cypher is a mice ortholog of ZASP. ZASP/Cyppher contains three LIM domains at the C-terminus and a PDZ domain at N-terminus. ZASP/Cypher is required for maintenance of Z-line structure during muscle contraction, but not required for Z-line assembly. In heart, Cypher/ZASP plays a structural role through its interaction with cytoskeletal Z-line proteins. In addition, there is increasing evidence that Cypher/ZASP also performs signaling functions. Studies reveal that Cypher/ZASP interacts with and directs PKC to the Z-line, where PKC phosphorylates downstream signaling targets. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

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

 Score = 36.3 bits (84), Expect = 8e-04
 Identities = 21/53 (39%), Positives = 30/53 (56%), Gaps = 2/53 (3%)

Query: 42 CAACQGLIQN-IIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          CA C+G I +   VQAL++ WH + FRC+ C   ++   F    G  YC +DY
Sbjct: 1  CAGCRGKILDSQYVQALNQDWHCDCFRCSVCSDSLSNWYFE-KDGKLYCRKDY 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|188746 cd09360, LIM_ALP_like, The LIM domain of ALP (actinin-associated LIM protein) family

 Score = 36.2 bits (84), Expect = 8e-04
 Identities = 19/48 (39%), Positives = 25/48 (52%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFC 148
           C  C   I  VVV A ++  HP+ FVC  CG  L  KG++  E   +C
Sbjct: 1   CDKCGNGIVGVVVKARDKNRHPECFVCADCGLNLKNKGYFFIEDELYC 48

This family represents the LIM domain of ALP (actinin-associated LIM protein) family. Four proteins: ALP, CLP36, RIL, and Mystique have been classified into the ALP subfamily of LIM domain proteins. Each member of the subfamily contains an N-terminal PDZ domain and a C-terminal LIM domain. Functionally, these proteins bind to alpha-actinin through their PDZ domains and bind or other signaling molecules through their LIM domains. ALP proteins have been implicated in cardiac and skeletal muscle structure, function and disease, platelet, and epithelial cell motility. 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|188808 cd09424, LIM2_FHL1, The second LIM domain of Four and a half LIM domains protein 1 (FHL1)

 Score = 36.3 bits (84), Expect = 9e-04
 Identities = 19/58 (32%), Positives = 27/58 (46%), Gaps = 2/58 (3%)

Query: 101 CQGCRLPIK--DVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKF 156
           C+GC   I   D  V      WH D F C +C   +  K F+ +  + +C  C+E KF
Sbjct: 1   CKGCYKDILAGDQNVEYKGNVWHKDCFTCSNCKQPIGTKSFFPKGEDFYCVPCHEKKF 58

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

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

 Score = 37.1 bits (86), Expect = 9e-04
 Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 2/53 (3%)

Query: 160 CFGCGKPI--TETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
           C  CG+P+  T+ A++     +H  CF C +C + + G  F   E    C EC
Sbjct: 34  CGICGQPLSRTQPAVRALGHLFHVTCFTCHQCEQQLQGQQFYSLEGKPYCEEC 86

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

 Score = 35.9 bits (83), Expect = 0.001
 Identities = 18/52 (34%), Positives = 24/52 (46%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          C  C   I +  V   D+ WH E F C+ C   +A Q+F       YCV+ Y
Sbjct: 1  CVKCNKPITSGGVTYQDQPWHSECFVCSSCSKKLAGQRFTAVEDQYYCVDCY 52

The third LIM domain of Four and a half LIM domains protein 1 (FHL1): FHL1 is heavily expressed in skeletal and cardiac muscles. It plays important roles in muscle growth, differentiation, and sarcomere assembly by acting as a modulator of transcription factors. Defects in FHL1 gene are responsible for a number of Muscular dystrophy-like muscle disorders. It has been detected that FHL1 binds to Myosin-binding protein C, regulating myosin filament formation and sarcomere assembly. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 53

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

 Score = 35.7 bits (82), Expect = 0.001
 Identities = 19/52 (36%), Positives = 27/52 (51%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
           C  C+ PI    VT  +Q WH + FVC  C  +L  + F  R+  A+C  C+
Sbjct: 1   CVQCKKPITTGGVTYRDQPWHKECFVCTGCKKQLSGQRFTSRDDFAYCLNCF 52

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

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

 Score = 35.8 bits (82), Expect = 0.001
 Identities = 21/56 (37%), Positives = 27/56 (48%), Gaps = 2/56 (3%)

Query: 160 CFGCGKPITETAIKVHDR--KWHEACFRCGRCRRPISGPTFRVCEADVVCVECSEK 213
           C  C K I     K+  +   WHE CF C RC++PI   +F   +    CV C EK
Sbjct: 1   CSECKKTIMPGTRKMEYKGNSWHETCFICQRCQQPIGTKSFIPKDNQNFCVPCYEK 56

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

>gnl|CDD|188758 cd09372, LIM2_FBLP-1, The second LIM domain of the filamin-binding LIM protein-1 (FBLP-1)

 Score = 35.5 bits (82), Expect = 0.002
 Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 160 CFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCE-ADVVCVE 209
           C  C   ITE  I+   + +H  CF C  C R I   +F V E  +V C++
Sbjct: 1   CAKCQGVITEHIIRALGKGYHPPCFTCVTCGRRIGDESFAVDEQNEVYCLD 51

The second LIM domain of the filamin-binding LIM protein-1 (FBLP-1): Fblp-1 contains a proline-rich domain near its N terminus and two LIM domains at its C terminus. FBLP-1 mRNA was detected in a variety of tissues and cells including platelets and endothelial cells. FBLP-1 binds to Filamins. The association between filamin B and FBLP-1 may play an unknown role in cytoskeletal function, cell adhesion, and cell motility. As in 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 = 53

>gnl|CDD|188840 cd09456, LIM2_Enigma, The second LIM domain of Enigma

 Score = 35.0 bits (80), Expect = 0.002
 Identities = 18/52 (34%), Positives = 25/52 (48%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
           C  C+  I   ++ AL  TWH   F C +C T +  + FY  EG  +C   Y
Sbjct: 1   CAKCKKKITGEIMHALKMTWHVHCFTCAACKTPIRNRAFYMEEGAPYCERDY 52

The second LIM domain of Enigma: Enigma was initially characterized in humans as a protein containing three LIM domains at the C-terminus and a PDZ domain at N-terminus. The third LIM domain specifically interacts with the insulin receptor and the second LIM domain interacts with the receptor tyrosine kinase Ret and the adaptor protein APS. Thus Enigma is implicated in signal transduction processes, such as mitogenic activity, insulin related actin organization, and glucose metabolism. Enigma is expressed in multiple tissues, such as skeletal muscle, heart, bone and brain. 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|188794 cd09410, LIM3_Leupaxin, The third LIM domain of Leupaxin

 Score = 34.8 bits (80), Expect = 0.002
 Identities = 15/48 (31%), Positives = 21/48 (43%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYC 89
          C+ C   ++   + A +  WHPE F C+ C  P     F    G P C
Sbjct: 1  CSGCGRPVKENYLSAANGVWHPECFVCSDCLKPFTDGSFFELDGRPLC 48

The third LIM domain of Leupaxin: Leupaxin is a cytoskeleton adaptor protein, which is preferentially expressed in hematopoietic cells. Leupaxin belongs to the paxillin focal adhesion protein family. Same as other members of the family, it has four leucine-rich LD-motifs in the N-terminus and four LIM domains in the C-terminus. It may function in cell type-specific signaling by associating with interaction partners PYK2, FAK, PEP and p95PKL. When expressed in human leukocytic cells, leupaxin significantly suppressed integrin-mediated cell adhesion to fibronectin and the tyrosine phosphorylation of paxillin. These findings indicate that leupaxin may negatively regulate the functions of paxillin during integrin signaling. 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|188795 cd09411, LIM4_Paxillin, The fourth LIM domain of Paxillin

 Score = 34.9 bits (80), Expect = 0.002
 Identities = 17/48 (35%), Positives = 22/48 (45%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYC 89
          C+ CQ  I    + A+ K +HPEHF C  C   +    F      PYC
Sbjct: 1  CSGCQKPITGRCITAMGKKFHPEHFVCAFCLKQLNKGTFKEQNDKPYC 48

The fourth LIM domain of Paxillin: Paxillin is an adaptor protein, which recruits key components of the signal-transduction machinery to specific sub-cellular locations to respond to environmental changes rapidly. The C-terminal region of paxillin contains four LIM domains which target paxillin to focal adhesions, presumably through a direct association with the cytoplasmic tail of beta-integrin. The N-terminal of paxillin is leucine-rich LD-motifs. Paxillin is found at the interface between the plasma membrane and the actin cytoskeleton. The binding partners of paxillin are diverse and include protein tyrosine kinases, such as Src and FAK, structural proteins, such as vinculin and actopaxin, and regulators of actin organization. Paxillin recruits these proteins to their function sites to control the dynamic changes in cell adhesion, cytoskeletal reorganization and gene expression. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

>gnl|CDD|188714 cd09328, LIM2_abLIM, The second LIM domain on actin binding LIM (abLIM) proteins

 Score = 35.0 bits (81), Expect = 0.002
 Identities = 14/32 (43%), Positives = 20/32 (62%)

Query: 100 KCQGCRLPIKDVVVTALNQTWHPDHFVCISCG 131
           KC  C+  ++  VV+AL +T+HP  FVC  C 
Sbjct: 3   KCDSCQDFVEGEVVSALGKTYHPKCFVCSVCR 34

The second 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 = 56

>gnl|CDD|188734 cd09348, LIM4_FHL1, The fourth LIM domain of Four and a half LIM domains protein 1 (FHL1)

 Score = 35.5 bits (82), Expect = 0.002
 Identities = 18/61 (29%), Positives = 26/61 (42%), Gaps = 5/61 (8%)

Query: 41 KCAACQGLIQNI-----IVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYAS 95
          KC+ CQ  I        +V     +WH   F C  C + +A ++F  H G  YC +    
Sbjct: 4  KCSGCQNPITGFGKGTNVVNYEGSSWHDYCFNCKKCSLNLANKRFVFHNGQIYCSDCAKK 63

Query: 96 L 96
          L
Sbjct: 64 L 64

The fourth LIM domain of Four and a half LIM domains protein 1 (FHL1): FHL1 is heavily expressed in skeletal and cardiac muscles. It plays important roles in muscle growth, differentiation, and sarcomere assembly by acting as a modulator of transcription factors. Defects in FHL1 gene are responsible for a number of Muscular dystrophy-like muscle disorders. It has been detected that FHL1 binds to Myosin-binding protein C, regulating myosin filament formation and sarcomere assembly. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 64

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

 Score = 35.4 bits (82), Expect = 0.002
 Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 2/54 (3%)

Query: 42 CAACQGLIQN-IIVQALDKTWHPEHFRCTHCRIPIATQ-KFHVHAGSPYCVEDY 93
          CA C   IQ+   + A+D+ WH    +C  CR+P+ ++       G+ YC EDY
Sbjct: 1  CAGCGEKIQDRFYLLAVDRQWHASCLKCCECRLPLDSELSCFSRDGNIYCKEDY 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|188739 cd09353, LIM2_Zyxin, The second LIM domain of Zyxin

 Score = 35.3 bits (81), Expect = 0.002
 Identities = 15/45 (33%), Positives = 25/45 (55%)

Query: 160 CFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEAD 204
           C  C + IT+  +K   + +H  CF C  C+ P+ G +F V +A+
Sbjct: 1   CAVCDQKITDRMLKATGKSYHPQCFTCVVCKCPLEGESFIVDQAN 45

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|188757 cd09371, LIM1_Lmx1b, The first LIM domain of Lmx1b

 Score = 35.4 bits (82), Expect = 0.002
 Identities = 14/40 (35%), Positives = 27/40 (67%), Gaps = 1/40 (2%)

Query: 160 CFGCGKPITETAI-KVHDRKWHEACFRCGRCRRPISGPTF 198
           C GC +PI++  + +V++R WHE C +C  C++P++   +
Sbjct: 1   CAGCQRPISDRYLLRVNERSWHEECLQCSVCQQPLTTSCY 40

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|188802 cd09418, LIM2_Prickle, The second LIM domain of Prickle

 Score = 35.1 bits (81), Expect = 0.002
 Identities = 17/51 (33%), Positives = 28/51 (54%), Gaps = 1/51 (1%)

Query: 40 PKCAACQGLI-QNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYC 89
          P+C+AC  +I  +   +A  + WH +HF C  C   +  Q++ +  G PYC
Sbjct: 1  PRCSACDEIIFADECTEAEGRHWHMKHFCCFECECQLGGQRYIMREGRPYC 51

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

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

 Score = 35.1 bits (81), Expect = 0.002
 Identities = 17/55 (30%), Positives = 25/55 (45%), Gaps = 1/55 (1%)

Query: 100 KCQGC-RLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYE 153
           +C  C  +   D    A  + WH  HF C  C  +L  + +  REG  +C  C+E
Sbjct: 2   RCSACDEIIFADECTEAEGRHWHMKHFCCFECECQLGGQRYIMREGRPYCCHCFE 56

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

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

 Score = 35.6 bits (82), Expect = 0.002
 Identities = 21/53 (39%), Positives = 26/53 (49%), Gaps = 2/53 (3%)

Query: 101 CQGCRLPIKD-VVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACY 152
           C  C   I D   + ALN  WH D F C  CG  L +  +YE++G  FC   Y
Sbjct: 22  CASCGQSIYDGQYLQALNSDWHADCFRCCECGASLSHW-YYEKDGRLFCKKDY 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|188811 cd09427, LIM2_FHL3, The second LIM domain of Four and a half LIM domains protein 3 (FHL3)

 Score = 35.2 bits (81), Expect = 0.002
 Identities = 20/56 (35%), Positives = 28/56 (50%), Gaps = 2/56 (3%)

Query: 159 KCFGCGKPITETAIKVH--DRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSE 212
           KC  CGK +   + K+    + WHE CF C  C +PI   +F   + +  CV C E
Sbjct: 3   KCVACGKTVMPGSRKLEYEGQTWHEHCFICHGCEQPIGSRSFIPDKDEHYCVPCYE 58

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

>gnl|CDD|188796 cd09412, LIM4_Leupaxin, The fourth LIM domain of Leupaxin

 Score = 34.7 bits (80), Expect = 0.003
 Identities = 18/51 (35%), Positives = 23/51 (45%)

Query: 160 CFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
           C  CG PIT   I    RK+H   F C  C RP++  +F+       C  C
Sbjct: 1   CGSCGLPITGRCISALGRKFHPEHFVCAFCLRPLTQGSFKEQSGKPYCSTC 51

The fourth LIM domain of Leupaxin: Leupaxin is a cytoskeleton adaptor protein, which is preferentially expressed in hematopoietic cells. Leupaxin belongs to the paxillin focal adhesion protein family. Same as other members of the family, it has four leucine-rich LD-motifs in the N-terminus and four LIM domains in the C-terminus. It may function in cell type-specific signaling by associating with interaction partners PYK2, FAK, PEP and p95PKL. When expressed in human leukocytic cells, leupaxin significantly suppressed integrin-mediated cell adhesion to fibronectin and the tyrosine phosphorylation of paxillin. These findings indicate that leupaxin may negatively regulate the functions of paxillin during integrin signaling. 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|188725 cd09339, LIM4_Paxillin_like, The fourth LIM domain of the Paxillin-like protein family

 Score = 34.2 bits (79), Expect = 0.003
 Identities = 20/51 (39%), Positives = 25/51 (49%)

Query: 160 CFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
           C GCGKPIT   I    RK+H   F C  C + +S  TF+  +    C  C
Sbjct: 1   CAGCGKPITGRCITAMGRKFHPEHFVCAFCLKQLSKGTFKEQDDKPYCHPC 51

The fourth 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 = 52

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

 Score = 34.6 bits (79), Expect = 0.003
 Identities = 17/56 (30%), Positives = 27/56 (48%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLF 97
          C  C+  I    V   D+ WH E F CT C+  ++ Q+F       YC+  + +L+
Sbjct: 1  CVQCKKPITTGGVTYRDQPWHKECFVCTGCKKQLSGQRFTSRDDFAYCLNCFCNLY 56

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

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

 Score = 35.6 bits (82), Expect = 0.003
 Identities = 23/66 (34%), Positives = 30/66 (45%), Gaps = 3/66 (4%)

Query: 30 PPPNAASTMYPKCAAC-QGLIQ-NIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSP 87
          PP   A+T    C  C Q L +    V+AL   +H   F C  C   +  Q+F+   G P
Sbjct: 23 PPAAEAATN-ELCGICGQPLSRTQPAVRALGHLFHVTCFTCHQCEQQLQGQQFYSLEGKP 81

Query: 88 YCVEDY 93
          YC E Y
Sbjct: 82 YCEECY 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|188809 cd09425, LIM4_LIMPETin, The fourth LIM domain of protein LIMPETin

 Score = 34.7 bits (80), Expect = 0.003
 Identities = 20/53 (37%), Positives = 28/53 (52%), Gaps = 2/53 (3%)

Query: 160 CFGCGKPITETAIKVH--DRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
           C GCG+       K+    ++WHE CF C  C++PI   +F   + DV CV C
Sbjct: 1   CDGCGEIFRAGMKKMEYKGQQWHEKCFCCCECKQPIGTKSFIPKDDDVYCVPC 53

The fourth LIM domain of protein LIMPETin: LIMPETin contains 6 LIM domains at the C-terminal and an N-terminal PET domain. Four of the six LIM domains are highly homologous to the four and half LIM domain protein family and two of them show sequence similarity to the LIM domains of the Testin family. Thus, LIMPETin may be the recombinant product of genes coding testin and FHL proteins. In Schistosoma mansoni, where LIMPETin was first identified, LIMPETin is down regulated in sexually mature adult Schistosoma females compared to sexually immature adult females and adult male. Its differential expression indicates that it is a transcription regulator. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 54

>gnl|CDD|188754 cd09368, LIM1_Lhx3_Lhx4, The first LIM domain of Lhx3 and Lhx4 family

 Score = 34.7 bits (80), Expect = 0.003
 Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 2/53 (3%)

Query: 42 CAACQGLI-QNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          C  CQ  I    I++ LD+TWH +  +C  C   +  + F    G  YC +D+
Sbjct: 1  CGGCQEHILDRFILKVLDRTWHAKCLKCNDCGAQLTDKCFA-RNGHVYCKDDF 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|188737 cd09351, LIM1_LPP, The first LIM domain of lipoma preferred partner (LPP)

 Score = 34.7 bits (80), Expect = 0.003
 Identities = 15/38 (39%), Positives = 22/38 (57%)

Query: 56 ALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
          A+D+ +H   F C  C+I +  + F+   G PYC EDY
Sbjct: 17 AMDQVYHISCFTCHQCQINLQGKPFYALDGKPYCEEDY 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|188843 cd09459, LIM3_ENH, The third LIM domain of the Enigma Homolog (ENH) family

 Score = 34.6 bits (79), Expect = 0.003
 Identities = 18/50 (36%), Positives = 24/50 (48%), Gaps = 2/50 (4%)

Query: 101 CQGCRLPIK--DVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFC 148
           C GC  PI+  D  + AL  TWH   FVC  C   L  + F+ ++    C
Sbjct: 1   CHGCEFPIEAGDRFLEALGHTWHDTCFVCSVCCESLEGQTFFSKKDKPLC 50

The third LIM domain of the Enigma Homolog (ENH) family: ENH was initially identified in rat brain. Same as enigma, it contains three LIM domains at the C-terminus and a PDZ domain at N-terminus. ENH is implicated in signal transduction processes involving protein kinases. It has also been shown that ENH interacts with protein kinase D1 (PKD1) via its LIM domains and forms a complex with PKD1 and the alpha1C subunit of cardiac L-type voltage-gated calcium channel in rat neonatal cardiomyocytes. The N-terminal PDZ domain interacts with alpha-actinin at the Z-line. ENH is expressed in multiple tissues, such as skeletal muscle, heart, bone, and brain. 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|188839 cd09455, LIM1_Enigma_like_1, The first LIM domain of an Enigma subfamily with unknown function

 Score = 34.4 bits (79), Expect = 0.004
 Identities = 18/50 (36%), Positives = 24/50 (48%), Gaps = 2/50 (4%)

Query: 42 CAACQGLIQNIIVQALDKTWHPEHFRCTH--CRIPIATQKFHVHAGSPYC 89
          C +C   I+   + AL K W P+HF C +  CR P+    F    G  YC
Sbjct: 1  CESCNQQIRGPFITALGKIWCPDHFICANASCRRPLQDIGFVEEKGQLYC 50

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

>gnl|CDD|188715 cd09329, LIM3_abLIM, The third LIM domain of actin binding LIM (abLIM) proteins

 Score = 34.2 bits (79), Expect = 0.004
 Identities = 14/37 (37%), Positives = 22/37 (59%), Gaps = 1/37 (2%)

Query: 160 CFGCGKPITE-TAIKVHDRKWHEACFRCGRCRRPISG 195
           C GCG+ I    A+   D++WH  CF+C  C + ++G
Sbjct: 1   CAGCGQEIKNGQALLALDKQWHVWCFKCKECGKVLTG 37

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

 Score = 34.4 bits (79), Expect = 0.004
 Identities = 19/52 (36%), Positives = 23/52 (44%), Gaps = 2/52 (3%)

Query: 101 CQGCRLPIK--DVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTA 150
           C  C  PI+  D  V ALN  +H   F C  C   L  + FY + G  FC  
Sbjct: 1   CVSCGFPIEAGDRWVEALNNNYHSQCFNCTRCNVNLEGQSFYAKGGRPFCKL 52

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

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

 Score = 34.2 bits (79), Expect = 0.004
 Identities = 13/49 (26%), Positives = 19/49 (38%), Gaps = 1/49 (2%)

Query: 42 CAACQGLIQ-NIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYC 89
          C  C   +       +L + WH    RC  C+  +   +   H G PYC
Sbjct: 1  CPKCGKPVYFAEKKTSLGRDWHKPCLRCEKCKKTLTPGQHSEHEGKPYC 49

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

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

 Score = 34.4 bits (79), Expect = 0.004
 Identities = 17/54 (31%), Positives = 24/54 (44%), Gaps = 1/54 (1%)

Query: 101 CQGCRLPIKDVVVT-ALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYE 153
              C   I     T A+N+ WH  HF C  C   L  + +  R+ + +C  CYE
Sbjct: 3   SVQCDELIFSGEYTKAMNKDWHSGHFCCWQCDESLTGQRYVLRDEHPYCIKCYE 56

The second LIM domain of protein LIMPETin: LIMPETin contains 6 LIM domains at the C-terminal and an N-terminal PET domain. Four of the six LIM domains are highly homologous to the four and half LIM domain protein family and two of them show sequence similarity to the LIM domains of the testin family. Thus, LIMPETin may be the recombinant product of genes coding testin and FHL proteins. In Schistosoma mansoni, where LIMPETin was first identified, LIMPETin is down regulated in sexually mature adult Schistosoma females compared to sexually immature adult females and adult male. Its differential expression indicates that it is a transcription regulator. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 56

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

 Score = 33.9 bits (78), Expect = 0.004
 Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 1/40 (2%)

Query: 160 CFGCGKPITET-AIKVHDRKWHEACFRCGRCRRPISGPTF 198
           C GC +PI +   + V DR WH  C +C  C+ P++   F
Sbjct: 1   CAGCDRPILDKFLLNVLDRAWHAKCVQCCDCKCPLTEKCF 40

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	233
KOG1701|consensus	468		100.0
KOG2272|consensus	332		99.97
KOG2272|consensus	332		99.97
KOG1703|consensus	479		99.95
KOG1044|consensus	670		99.93
KOG1701|consensus	468		99.86
KOG1703|consensus	479		99.85
KOG4577|consensus	383		99.83
KOG4577|consensus	383		99.82
KOG1044|consensus	670		99.69
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.47
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.43
KOG1700|consensus	200		99.19
KOG1700|consensus	200		99.13
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.66
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.66
KOG1702|consensus	264		97.57
KOG0490|consensus	235		97.46
KOG0490|consensus	235		97.38
KOG1702|consensus	264		95.76
KOG2462|consensus	279		84.99
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	84.25
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	83.74
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	83.31

>KOG1701|consensus

Probab=100.00  E-value=1.4e-37  Score=265.27  Aligned_cols=181  Identities=31%  Similarity=0.719  Sum_probs=165.7

Q ss_pred             CCCCccccccccccc--cEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCCCCCCccccccEEe
Q psy11756         37 TMYPKCAACQGLIQN--IIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDVVVT  114 (233)
Q Consensus        37 ~~~~~C~~C~~~I~~--~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~~C~~~i~~~~~~  114 (233)
                      ....+|.+|++.|.+  ..+.||++.||..||+|..|++.|.++.||..++++||+.||... ..+|..|++.|.++++.
T Consensus       272 ~~~~iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~v~~k~~CE~cyq~t-lekC~~Cg~~I~d~iLr  350 (468)
T KOG1701|consen  272 DYFGICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQVDGKPYCEGCYQDT-LEKCNKCGEPIMDRILR  350 (468)
T ss_pred             hhhhhhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccccccCCcccchHHHHHH-HHHHhhhhhHHHHHHHH
Confidence            445699999999988  458999999999999999999999999999999999999999875 57999999999999999


Q ss_pred             cCCCeeecCCCCCCCCCcccccCceecc-CCceechhhhhhccCCCCCCCCCCcccc-------EEEEcCceecCCCCCc
Q psy11756        115 ALNQTWHPDHFVCISCGTKLLYKGFYER-EGNAFCTACYEGKFCPKCFGCGKPITET-------AIKVHDRKWHEACFRC  186 (233)
Q Consensus       115 ~~~~~~H~~Cf~C~~C~~~l~~~~~~~~-~g~~~C~~c~~~~~~~~C~~C~~~I~~~-------~i~~~~~~~H~~Cf~C  186 (233)
                      +.|+.||+.||+|.+|++.|.+..|.+. ++++||..+|++.|+++|+.|+++|...       .|+++++.||.+|++|
T Consensus       351 A~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfAPrCs~C~~PI~P~~G~~etvRvvamdr~fHv~CY~C  430 (468)
T KOG1701|consen  351 ALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFAPRCSVCGNPILPRDGKDETVRVVAMDRDFHVNCYKC  430 (468)
T ss_pred             hcccccCCCceEEEEeccccCCccccccCCCceeeehhhhhhcCcchhhccCCccCCCCCcceEEEEEccccccccceeh
Confidence            9999999999999999999999888865 7899999999999999999999999542       2789999999999999


Q ss_pred             CCCCCCCC----CCceEeeCCeeeChhhhhccccCC
Q psy11756        187 GRCRRPIS----GPTFRVCEADVVCVECSEKGREEG  218 (233)
Q Consensus       187 ~~C~~~l~----~~~~~~~~~~~~C~~C~~~~~~~~  218 (233)
                      -.|+..|.    +..-|.+||+++|+.|+.++...+
T Consensus       431 EDCg~~LS~e~e~qgCyPld~HllCk~Ch~~Rl~~~  466 (468)
T KOG1701|consen  431 EDCGLLLSSEEEGQGCYPLDGHLLCKTCHLKRLQAG  466 (468)
T ss_pred             hhcCccccccCCCCcceeccCceeechhhhhhhccc
Confidence            99999994    577888999999999999887654

>KOG2272|consensus

Probab=99.97  E-value=1.2e-33  Score=226.24  Aligned_cols=186  Identities=27%  Similarity=0.635  Sum_probs=173.4

Q ss_pred             CCCCCCCccccccccccccEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCCCCCCccccccEE
Q psy11756         34 AASTMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDVVV  113 (233)
Q Consensus        34 ~~~~~~~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~~C~~~i~~~~~  113 (233)
                      +.+.+.-+|.+|+..|.++.|...+..||+..|+|..|++.|.+... ..+|.+||.+|+.+...++|..|+++|.++++
T Consensus       132 a~~~g~YvC~KCh~~iD~~~l~fr~d~yH~yHFkCt~C~keL~sdaR-evk~eLyClrChD~mgipiCgaC~rpIeervi  210 (332)
T KOG2272|consen  132 AKGRGRYVCQKCHAHIDEQPLTFRGDPYHPYHFKCTTCGKELTSDAR-EVKGELYCLRCHDKMGIPICGACRRPIEERVI  210 (332)
T ss_pred             ccccceeehhhhhhhcccccccccCCCCCccceecccccccccchhh-hhccceeccccccccCCcccccccCchHHHHH
Confidence            44566789999999999999999999999999999999999986543 66789999999999989999999999999999


Q ss_pred             ecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCCCCCCCccccEEEEcCceecCCCCCcCCCCCCC
Q psy11756        114 TALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPI  193 (233)
Q Consensus       114 ~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~~C~~~I~~~~i~~~~~~~H~~Cf~C~~C~~~l  193 (233)
                      .++|+.||.++|+|+.|.+|+.|-..|++.|..||..+|.++++..|..|+++|.+.++.+.++.|.++||+|+.|.+.|
T Consensus       211 ~amgKhWHveHFvCa~CekPFlGHrHYEkkGlaYCe~h~~qLfG~~CF~C~~~i~G~vv~al~KawCv~cf~Cs~Cdkkl  290 (332)
T KOG2272|consen  211 FAMGKHWHVEHFVCAKCEKPFLGHRHYEKKGLAYCETHYHQLFGNLCFICNRVIGGDVVSALNKAWCVECFSCSTCDKKL  290 (332)
T ss_pred             HHhccccchhheeehhcCCcccchhhhhhcCchhHHHHHHHHhhhhheecCCccCccHHHHhhhhhcccccccccccccc
Confidence            99999999999999999999999899999999999999999999999999999999999999999999999999999999


Q ss_pred             C-CCceEeeCCeeeChhhhhccccCCCC
Q psy11756        194 S-GPTFRVCEADVVCVECSEKGREEGKN  220 (233)
Q Consensus       194 ~-~~~~~~~~~~~~C~~C~~~~~~~~~~  220 (233)
                      + -.+|+..|-.|.|++||++.+.+++.
T Consensus       291 ~~K~Kf~E~DmkP~CKkCy~rfp~elkk  318 (332)
T KOG2272|consen  291 TQKNKFYEFDMKPVCKKCYDRFPLELKK  318 (332)
T ss_pred             ccccceeeeccchHHHHHHhhccHHHHH
Confidence            4 58899999999999999988877654

>KOG2272|consensus

Probab=99.97  E-value=3.6e-33  Score=223.45  Aligned_cols=180  Identities=28%  Similarity=0.597  Sum_probs=165.3

Q ss_pred             CCCCccccccccccccEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCcccccccccccc-----CCCCCCCCcccccc
Q psy11756         37 TMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLF-----LNKCQGCRLPIKDV  111 (233)
Q Consensus        37 ~~~~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~-----~~~C~~C~~~i~~~  111 (233)
                      .-.|.|.+|++.|.|++|.+++.+|||.||+|..|++.|.+..|+-..|+.+|..|..+..     .-.|.+|+..|.+.
T Consensus        71 LfaPcC~kC~EFiiGrVikamnnSwHp~CF~Cd~Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~~  150 (332)
T KOG2272|consen   71 LFAPCCGKCGEFIIGRVIKAMNNSWHPACFRCDLCNKHLADQGFYRNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDEQ  150 (332)
T ss_pred             hhchhhcccccchhhHHHHhhccccCcccchhHHHHHHHhhhhhHhhcchHHhhhhhhhhcccccceeehhhhhhhcccc
Confidence            3458999999999999999999999999999999999999999999999999999987632     24799999999889


Q ss_pred             EEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCCCCCCCccccEEEEcCceecCCCCCcCCCCC
Q psy11756        112 VVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRR  191 (233)
Q Consensus       112 ~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~~C~~~I~~~~i~~~~~~~H~~Cf~C~~C~~  191 (233)
                      .+++.+..||+.+|+|..|++.|+.. -....|.+||..|++++-.|+|..|.+||++++|.++|+.||.++|+|+.|.+
T Consensus       151 ~l~fr~d~yH~yHFkCt~C~keL~sd-aRevk~eLyClrChD~mgipiCgaC~rpIeervi~amgKhWHveHFvCa~Cek  229 (332)
T KOG2272|consen  151 PLTFRGDPYHPYHFKCTTCGKELTSD-AREVKGELYCLRCHDKMGIPICGACRRPIEERVIFAMGKHWHVEHFVCAKCEK  229 (332)
T ss_pred             cccccCCCCCccceecccccccccch-hhhhccceeccccccccCCcccccccCchHHHHHHHhccccchhheeehhcCC
Confidence            99999999999999999999999754 34568899999999999999999999999999999999999999999999999


Q ss_pred             CCCCCceEeeCCeeeChhhhhccccC
Q psy11756        192 PISGPTFRVCEADVVCVECSEKGREE  217 (233)
Q Consensus       192 ~l~~~~~~~~~~~~~C~~C~~~~~~~  217 (233)
                      ++.|-+.+.+.|..||...|.++.-+
T Consensus       230 PFlGHrHYEkkGlaYCe~h~~qLfG~  255 (332)
T KOG2272|consen  230 PFLGHRHYEKKGLAYCETHYHQLFGN  255 (332)
T ss_pred             cccchhhhhhcCchhHHHHHHHHhhh
Confidence            99999999999999999999876543

>KOG1703|consensus

Probab=99.95  E-value=3.6e-29  Score=226.48  Aligned_cols=174  Identities=34%  Similarity=0.749  Sum_probs=166.6

Q ss_pred             CCCccccccccccc-cEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCCCCCCccccccEEecC
Q psy11756         38 MYPKCAACQGLIQN-IIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDVVVTAL  116 (233)
Q Consensus        38 ~~~~C~~C~~~I~~-~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~~C~~~i~~~~~~~~  116 (233)
                      ..+.|.+|++.|.+ +++.++++.||+.+|.|..|...+....+...+|++||..|+...+.+.|.+|+++|.++.|.+.
T Consensus       302 ~~p~c~~c~~~i~~~~~i~~~~~~~h~~~~~c~~~~~~~~~~~~~~~~g~~~c~~~~~~~~~p~C~~C~~~i~~~~v~a~  381 (479)
T KOG1703|consen  302 TRPLCLSCNQKIRSVKVIVALGKEWHPEHFSCEVCAIVILDGGPRELDGKILCHECFHAPFRPNCKRCLLPILEEGVCAL  381 (479)
T ss_pred             ccccccccccCcccceeEeeccccccccceeeccccccccCCCccccCCCccHHHHHHHhhCccccccCCchHHhHhhhc
Confidence            45899999999999 99999999999999999999999998888899999999999999999999999999999999999


Q ss_pred             CCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCCCCCCCcc--ccEEEEcCceecCCCCCcCCCCCCCC
Q psy11756        117 NQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPIT--ETAIKVHDRKWHEACFRCGRCRRPIS  194 (233)
Q Consensus       117 ~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~~C~~~I~--~~~i~~~~~~~H~~Cf~C~~C~~~l~  194 (233)
                      +..||+.||.|..|+++|.+..|+..+|.+||..||+.++.++|..|.++|+  +..|.+.+..||..||+|+.|.+.|.
T Consensus       382 ~~~wH~~cf~C~~C~~~~~~~~~~~~~~~pyce~~~~~~~~~~~~~~~~p~~~~~~~ie~~~~~~h~~~F~c~~c~~~l~  461 (479)
T KOG1703|consen  382 GRLWHPECFVCADCGKPLKNSSFFESDGEPYCEDHYKKLFTTKCDYCKKPVEFGSRQIEADGSPFHGDCFRCANCMKKLT  461 (479)
T ss_pred             cCeechhceeeecccCCCCCCcccccCCccchhhhHhhhccccchhccchhHhhhhHhhccCccccccceehhhhhcccc
Confidence            9999999999999999999899999999999999999999999999999987  56799999999999999999999999


Q ss_pred             CCceEeeCCeeeChhhh
Q psy11756        195 GPTFRVCEADVVCVECS  211 (233)
Q Consensus       195 ~~~~~~~~~~~~C~~C~  211 (233)
                      ++.|+...++|+|++|+
T Consensus       462 ~~~~~~~~~~p~c~~~~  478 (479)
T KOG1703|consen  462 KKTFFETLDKPLCQKHF  478 (479)
T ss_pred             CCceeecCCccccccCC
Confidence            99999999999999986

>KOG1044|consensus

Probab=99.93  E-value=5.1e-27  Score=206.91  Aligned_cols=182  Identities=24%  Similarity=0.573  Sum_probs=154.1

Q ss_pred             CCCCccccccccccccEeeecCCCcCcCCCccCCCCCCCCCCceeeeCC-cccccccccccc------------------
Q psy11756         37 TMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAG-SPYCVEDYASLF------------------   97 (233)
Q Consensus        37 ~~~~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~-~~yC~~c~~~~~------------------   97 (233)
                      .....|..|.+...++++.+.++.+|..||+|..|+..|....|+.+++ ++|+........                  
T Consensus        14 ~~~i~c~~c~~kc~gevlrv~d~~fhi~cf~c~~cg~~la~~gff~k~~~~~ygt~~c~~~~~gevvsa~gktyh~~cf~   93 (670)
T KOG1044|consen   14 KQGIKCDKCRKKCSGEVLRVNDNHFHINCFQCKKCGRNLAEGGFFTKPENRLYGTDDCRAFVEGEVVSTLGKTYHPKCFS   93 (670)
T ss_pred             ccceehhhhCCccccceeEeeccccceeeeeccccCCCcccccceecccceeecccchhhhccceeEecccceeccccce
Confidence            4456899999999999999999999999999999999999888888765 355542211110                  


Q ss_pred             ---------------------------------------CCCCCCCCccc-cccEEecCCCeeecCCCCCCCCCcccccC
Q psy11756         98 ---------------------------------------LNKCQGCRLPI-KDVVVTALNQTWHPDHFVCISCGTKLLYK  137 (233)
Q Consensus        98 ---------------------------------------~~~C~~C~~~i-~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~  137 (233)
                                                             -..|++|++.| .+..+.++++.||..||+|..|...|.+ 
T Consensus        94 cs~ck~pf~~g~~vt~~gk~~~c~~c~~~~~~~p~~~~~ps~cagc~~~lk~gq~llald~qwhv~cfkc~~c~~vL~g-  172 (670)
T KOG1044|consen   94 CSTCKSPFKSGDKVTFSGKECLCQTCSQPMPVSPAESYGPSTCAGCGEELKNGQALLALDKQWHVSCFKCKSCSAVLNG-  172 (670)
T ss_pred             ecccCCCCCCCCeeeecchhhhhhhhcCcccCCcccccCCccccchhhhhhccceeeeeccceeeeeeehhhhcccccc-
Confidence                                                   01589999988 5668899999999999999999999976 


Q ss_pred             ceeccCCceechhhhhhccCCCCCCCCCCccccEEEEcCceecCCCCCcCCCCCCCC-CCceEeeCCeeeChhhhhcccc
Q psy11756        138 GFYEREGNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPIS-GPTFRVCEADVVCVECSEKGRE  216 (233)
Q Consensus       138 ~~~~~~g~~~C~~c~~~~~~~~C~~C~~~I~~~~i~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~~~~~~C~~C~~~~~~  216 (233)
                      .|..++|.+||..+|.+.|+.+|..|.+.|.+++|.++|+.||+.|.+|.+|+.++. |++.|+....+|-..|-.....
T Consensus       173 ey~skdg~pyce~dy~~~fgvkc~~c~~fisgkvLqag~kh~HPtCARCsRCgqmF~eGEEMYlQGs~iWHP~C~qa~~t  252 (670)
T KOG1044|consen  173 EYMSKDGVPYCEKDYQAKFGVKCEECEKFISGKVLQAGDKHFHPTCARCSRCGQMFGEGEEMYLQGSEIWHPDCKQATKT  252 (670)
T ss_pred             eeeccCCCcchhhhhhhhcCeehHHhhhhhhhhhhhccCcccCcchhhhhhhccccccchheeeccccccCCccccccch
Confidence            588899999999999999999999999999999999999999999999999999995 5555555667999999876665


Q ss_pred             CCC
Q psy11756        217 EGK  219 (233)
Q Consensus       217 ~~~  219 (233)
                      |+.
T Consensus       253 E~i  255 (670)
T KOG1044|consen  253 EEI  255 (670)
T ss_pred             hhc
Confidence            443

>KOG1701|consensus

Probab=99.86  E-value=5.8e-24  Score=182.08  Aligned_cols=115  Identities=30%  Similarity=0.745  Sum_probs=107.3

Q ss_pred             CCCCCCCCcccccc--EEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCCCCCCCccccEEEEc
Q psy11756         98 LNKCQGCRLPIKDV--VVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITETAIKVH  175 (233)
Q Consensus        98 ~~~C~~C~~~i~~~--~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~~C~~~I~~~~i~~~  175 (233)
                      ..+|.+|++.|.+.  .+.|+++.||..||+|..|.+.|.+..||.+++++||+.||... ..+|..|+++|.++.|++.
T Consensus       274 ~~iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~v~~k~~CE~cyq~t-lekC~~Cg~~I~d~iLrA~  352 (468)
T KOG1701|consen  274 FGICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQVDGKPYCEGCYQDT-LEKCNKCGEPIMDRILRAL  352 (468)
T ss_pred             hhhhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccccccCCcccchHHHHHH-HHHHhhhhhHHHHHHHHhc
Confidence            34999999999765  78999999999999999999999999999999999999999654 4799999999999999999


Q ss_pred             CceecCCCCCcCCCCCCCCCCceEee-CCeeeChhhhhc
Q psy11756        176 DRKWHEACFRCGRCRRPISGPTFRVC-EADVVCVECSEK  213 (233)
Q Consensus       176 ~~~~H~~Cf~C~~C~~~l~~~~~~~~-~~~~~C~~C~~~  213 (233)
                      |+.||+.||+|..|++.|.|..|.+. ++++||..+|-+
T Consensus       353 GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~  391 (468)
T KOG1701|consen  353 GKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHK  391 (468)
T ss_pred             ccccCCCceEEEEeccccCCccccccCCCceeeehhhhh
Confidence            99999999999999999999999998 899999999844

>KOG1703|consensus

Probab=99.85  E-value=7.5e-22  Score=178.92  Aligned_cols=175  Identities=24%  Similarity=0.509  Sum_probs=163.0

Q ss_pred             cccccccccccEeeecCCCcCcCCCccC-CCCCCCCCCceeeeCCccccccccccccCCCCCCCCccccc-cEEecCCCe
Q psy11756         42 CAACQGLIQNIIVQALDKTWHPEHFRCT-HCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKD-VVVTALNQT  119 (233)
Q Consensus        42 C~~C~~~I~~~~~~~~~~~~H~~Cf~C~-~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~~C~~~i~~-~~~~~~~~~  119 (233)
                      |..+..++....+.+....||...++|. .+...+....++.+.+...+..+|.....++|..|.+.|.+ ..++++++.
T Consensus       246 ~~~~~~p~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~c~~c~~~i~~~~~i~~~~~~  325 (479)
T KOG1703|consen  246 SASMDSPECQPLVSAPRPASEGLHMKVEKELPLLLVESEALKKLREEEKPAEYHNVTRPLCLSCNQKIRSVKVIVALGKE  325 (479)
T ss_pred             CcccCCCccCcceecccccccccccccccccchhhcccccccccccccccccccccccccccccccCcccceeEeecccc
Confidence            6667777777778888999999999998 89888888888899999999999988888999999999999 899999999


Q ss_pred             eecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCCCCCCCccccEEEEcCceecCCCCCcCCCCCCCCCCceE
Q psy11756        120 WHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFR  199 (233)
Q Consensus       120 ~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~~C~~~I~~~~i~~~~~~~H~~Cf~C~~C~~~l~~~~~~  199 (233)
                      ||+.+|.|..|...+....+...+|.+||..|+...++++|.+|+++|.++.|.+.++.||++||.|+.|++.|.+..|+
T Consensus       326 ~h~~~~~c~~~~~~~~~~~~~~~~g~~~c~~~~~~~~~p~C~~C~~~i~~~~v~a~~~~wH~~cf~C~~C~~~~~~~~~~  405 (479)
T KOG1703|consen  326 WHPEHFSCEVCAIVILDGGPRELDGKILCHECFHAPFRPNCKRCLLPILEEGVCALGRLWHPECFVCADCGKPLKNSSFF  405 (479)
T ss_pred             ccccceeeccccccccCCCccccCCCccHHHHHHHhhCccccccCCchHHhHhhhccCeechhceeeecccCCCCCCccc
Confidence            99999999999999987778888999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeCCeeeChhhhhcccc
Q psy11756        200 VCEADVVCVECSEKGRE  216 (233)
Q Consensus       200 ~~~~~~~C~~C~~~~~~  216 (233)
                      ..++.+||..||.++..
T Consensus       406 ~~~~~pyce~~~~~~~~  422 (479)
T KOG1703|consen  406 ESDGEPYCEDHYKKLFT  422 (479)
T ss_pred             ccCCccchhhhHhhhcc
Confidence            99999999999998774

>KOG4577|consensus

Probab=99.83  E-value=2.4e-22  Score=164.03  Aligned_cols=137  Identities=28%  Similarity=0.610  Sum_probs=114.4

Q ss_pred             ccccCCCCCCCCCCCCCCccccccccccccE-eeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCC
Q psy11756         23 DVSEALDPPPNAASTMYPKCAACQGLIQNII-VQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC  101 (233)
Q Consensus        23 ~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~-~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C  101 (233)
                      +++..+.+.+.-.....++|++|.+.|.+++ ++++++.||..|++|+.|...|.+.. +.++|.+||+.+|.++|+.+|
T Consensus        17 ~~~~lLs~~~df~~~eip~CagC~q~IlDrFilKvl~R~wHs~CLkCs~C~~qL~drC-FsR~~s~yCkedFfKrfGTKC   95 (383)
T KOG4577|consen   17 DLPGLLSPQEDFSNVEIPICAGCDQHILDRFILKVLDRHWHSSCLKCSDCHDQLADRC-FSREGSVYCKEDFFKRFGTKC   95 (383)
T ss_pred             cChhhccccccccccccccccchHHHHHHHHHHHHHhhhhhhhhcchhhhhhHHHHHH-hhcCCceeehHHHHHHhCCcc
Confidence            3444444333333347899999999999975 78999999999999999999999754 599999999999999999999


Q ss_pred             CCCCcccccc--EEecCCCeeecCCCCCCCCCcccc-cCceec-cCCceechhhhhhccCCCC
Q psy11756        102 QGCRLPIKDV--VVTALNQTWHPDHFVCISCGTKLL-YKGFYE-REGNAFCTACYEGKFCPKC  160 (233)
Q Consensus       102 ~~C~~~i~~~--~~~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~-~~g~~~C~~c~~~~~~~~C  160 (233)
                      ..|...|...  +..+.+..||..||.|..|+++|. |..||. .+++++|+.+|.+.-..-|
T Consensus        96 saC~~GIpPtqVVRkAqd~VYHl~CF~C~iC~R~L~TGdEFYLmeD~rLvCK~DYE~Ak~k~~  158 (383)
T KOG4577|consen   96 SACQEGIPPTQVVRKAQDFVYHLHCFACFICKRQLATGDEFYLMEDARLVCKDDYETAKQKHC  158 (383)
T ss_pred             hhhcCCCChHHHHHHhhcceeehhhhhhHhhhcccccCCeeEEeccceeehhhhHHHHHhccc
Confidence            9999999654  445889999999999999999996 667775 5889999999987665555

>KOG4577|consensus

Probab=99.82  E-value=4.2e-22  Score=162.68  Aligned_cols=129  Identities=29%  Similarity=0.669  Sum_probs=113.3

Q ss_pred             ccccccCCCCCCCCcccccc-EEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCCCCCCCcccc
Q psy11756         92 DYASLFLNKCQGCRLPIKDV-VVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITET  170 (233)
Q Consensus        92 c~~~~~~~~C~~C~~~i~~~-~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~~C~~~I~~~  170 (233)
                      ++.....++|++|.+.|.++ ++.++++.||..|++|+.|..+|.. ..+.++|.+||..+|.++|+.+|..|...|.+.
T Consensus        27 df~~~eip~CagC~q~IlDrFilKvl~R~wHs~CLkCs~C~~qL~d-rCFsR~~s~yCkedFfKrfGTKCsaC~~GIpPt  105 (383)
T KOG4577|consen   27 DFSNVEIPICAGCDQHILDRFILKVLDRHWHSSCLKCSDCHDQLAD-RCFSREGSVYCKEDFFKRFGTKCSACQEGIPPT  105 (383)
T ss_pred             cccccccccccchHHHHHHHHHHHHHhhhhhhhhcchhhhhhHHHH-HHhhcCCceeehHHHHHHhCCcchhhcCCCChH
Confidence            33333468999999999998 6679999999999999999999975 466789999999999999999999999999765


Q ss_pred             E--EEEcCceecCCCCCcCCCCCCC-CCCceEee-CCeeeChhhhhccccCCCCC
Q psy11756        171 A--IKVHDRKWHEACFRCGRCRRPI-SGPTFRVC-EADVVCVECSEKGREEGKND  221 (233)
Q Consensus       171 ~--i~~~~~~~H~~Cf~C~~C~~~l-~~~~~~~~-~~~~~C~~C~~~~~~~~~~~  221 (233)
                      .  ..+.+..||..||.|..|+++| +|++||++ |++++|+.-|+.+.+..-+.
T Consensus       106 qVVRkAqd~VYHl~CF~C~iC~R~L~TGdEFYLmeD~rLvCK~DYE~Ak~k~~~~  160 (383)
T KOG4577|consen  106 QVVRKAQDFVYHLHCFACFICKRQLATGDEFYLMEDARLVCKDDYETAKQKHCNE  160 (383)
T ss_pred             HHHHHhhcceeehhhhhhHhhhcccccCCeeEEeccceeehhhhHHHHHhccccc
Confidence            4  3488999999999999999999 88999998 89999999999988766543

>KOG1044|consensus

Probab=99.69  E-value=4.8e-18  Score=150.55  Aligned_cols=116  Identities=28%  Similarity=0.600  Sum_probs=106.5

Q ss_pred             CCCCccccccccc-cccEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCCCCCCccccccEEec
Q psy11756         37 TMYPKCAACQGLI-QNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDVVVTA  115 (233)
Q Consensus        37 ~~~~~C~~C~~~I-~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~~C~~~i~~~~~~~  115 (233)
                      .....|++|++.| .|..+.|+++.||..||+|..|+..|.+ .|..++|.+||+.||...|+.+|..|.+.|.+.++.+
T Consensus       131 ~~ps~cagc~~~lk~gq~llald~qwhv~cfkc~~c~~vL~g-ey~skdg~pyce~dy~~~fgvkc~~c~~fisgkvLqa  209 (670)
T KOG1044|consen  131 YGPSTCAGCGEELKNGQALLALDKQWHVSCFKCKSCSAVLNG-EYMSKDGVPYCEKDYQAKFGVKCEECEKFISGKVLQA  209 (670)
T ss_pred             cCCccccchhhhhhccceeeeeccceeeeeeehhhhcccccc-eeeccCCCcchhhhhhhhcCeehHHhhhhhhhhhhhc
Confidence            4567899999998 5599999999999999999999999885 6889999999999999999999999999999999999


Q ss_pred             CCCeeecCCCCCCCCCcccc-cCceeccCCceechhhhh
Q psy11756        116 LNQTWHPDHFVCISCGTKLL-YKGFYEREGNAFCTACYE  153 (233)
Q Consensus       116 ~~~~~H~~Cf~C~~C~~~l~-~~~~~~~~g~~~C~~c~~  153 (233)
                      .++.||+.|-+|..|+++|. |+..|+.+..++.+.|-.
T Consensus       210 g~kh~HPtCARCsRCgqmF~eGEEMYlQGs~iWHP~C~q  248 (670)
T KOG1044|consen  210 GDKHFHPTCARCSRCGQMFGEGEEMYLQGSEIWHPDCKQ  248 (670)
T ss_pred             cCcccCcchhhhhhhccccccchheeeccccccCCcccc
Confidence            99999999999999999997 668888888888888853

>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=99.47  E-value=6.1e-14  Score=90.93  Aligned_cols=55  Identities=36%  Similarity=0.922  Sum_probs=49.6

Q ss_pred             CCCCCCCccccEE--EEcCceecCCCCCcCCCCCCCCCCceEeeCCeeeChhhhhcc
Q psy11756        160 CFGCGKPITETAI--KVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSEKG  214 (233)
Q Consensus       160 C~~C~~~I~~~~i--~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~  214 (233)
                      |.+|+++|.+..+  .+.|+.||++||+|..|+++|.++.|+..+|+|||..||.+.
T Consensus         1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~   57 (58)
T PF00412_consen    1 CARCGKPIYGTEIVIKAMGKFWHPECFKCSKCGKPLNDGDFYEKDGKPYCKDCYQKR   57 (58)
T ss_dssp             BTTTSSBESSSSEEEEETTEEEETTTSBETTTTCBTTTSSEEEETTEEEEHHHHHHH
T ss_pred             CCCCCCCccCcEEEEEeCCcEEEccccccCCCCCccCCCeeEeECCEEECHHHHhhh
Confidence            7899999987654  499999999999999999999888899999999999999763

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

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

Probab=99.43  E-value=5.1e-14  Score=91.28  Aligned_cols=56  Identities=39%  Similarity=0.915  Sum_probs=50.6

Q ss_pred             cccccccccc-cE-eeecCCCcCcCCCccCCCCCCCCCCceeeeCCcccccccccccc
Q psy11756         42 CAACQGLIQN-II-VQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLF   97 (233)
Q Consensus        42 C~~C~~~I~~-~~-~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~   97 (233)
                      |.+|+++|.+ .. +.++|+.||+.||+|..|+++|.+..|+..+|++||..||.++|
T Consensus         1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~f   58 (58)
T PF00412_consen    1 CARCGKPIYGTEIVIKAMGKFWHPECFKCSKCGKPLNDGDFYEKDGKPYCKDCYQKRF   58 (58)
T ss_dssp             BTTTSSBESSSSEEEEETTEEEETTTSBETTTTCBTTTSSEEEETTEEEEHHHHHHHT
T ss_pred             CCCCCCCccCcEEEEEeCCcEEEccccccCCCCCccCCCeeEeECCEEECHHHHhhhC
Confidence            7899999987 33 46999999999999999999999888999999999999998764

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=99.19  E-value=4.3e-12  Score=102.35  Aligned_cols=118  Identities=29%  Similarity=0.579  Sum_probs=99.7

Q ss_pred             CCccccccccccc-cEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCC------------------
Q psy11756         39 YPKCAACQGLIQN-IIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLN------------------   99 (233)
Q Consensus        39 ~~~C~~C~~~I~~-~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~------------------   99 (233)
                      ...|.+|++.|+- +.+...|..||+.||+|..|.+.|....+..+++.+||..+|...+.+                  
T Consensus         7 ~~kc~~c~k~vy~~e~~~~~g~~~hk~c~~c~~~~k~l~~~~~~~~e~~~yc~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (200)
T KOG1700|consen    7 TDKCNACGKTVYFVEKVQKDGVDFHKECFKCEKCKKTLTLSGYSEHEGVPYCKNCHVAQFGPKGGGFGKGFQKAGGLGKD   86 (200)
T ss_pred             cchhhhccCcchHHHHHhccCcchhhhHHhccccccccccccccccccccccccchHhhhCcccccccccccccCCCCcc
Confidence            3489999999977 555688999999999999999999988888899999999976555322                  


Q ss_pred             -----------------------CCCCCCcccccc-EEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhc
Q psy11756        100 -----------------------KCQGCRLPIKDV-VVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGK  155 (233)
Q Consensus       100 -----------------------~C~~C~~~i~~~-~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~  155 (233)
                                             .|..|++.+... -++..+..||..||+|..|+..|....+....|.+||..++.++
T Consensus        87 ~~~~~~~~~~~~~~~~~~~g~~~~c~~c~k~vy~~Ek~~~~~~~~hk~cfrc~~~~~~ls~~~~~~~~g~l~~~~~~~~~  166 (200)
T KOG1700|consen   87 GKSLNESKPNQSAKFQVFAGEKEKCARCQKTVYPLEKVTGNGLEFHKSCFRCTHCGKKLSPKNYAALEGVLYCKHHFAQL  166 (200)
T ss_pred             cccccccccccchhHHhhhccccccccccceeeehHHHhhhhhhhhhhheeecccccccCCcchhhcCCccccchhhhee
Confidence                                   688898888643 67788999999999999999999988888889999998776554


Q ss_pred             c
Q psy11756        156 F  156 (233)
Q Consensus       156 ~  156 (233)
                      +
T Consensus       167 ~  167 (200)
T KOG1700|consen  167 F  167 (200)
T ss_pred             e
Confidence            4

>KOG1700|consensus

Probab=99.13  E-value=1e-11  Score=100.24  Aligned_cols=119  Identities=26%  Similarity=0.600  Sum_probs=98.4

Q ss_pred             CCCCCCCCcccccc-EEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCC------------------
Q psy11756         98 LNKCQGCRLPIKDV-VVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCP------------------  158 (233)
Q Consensus        98 ~~~C~~C~~~i~~~-~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~------------------  158 (233)
                      ...|..|++.+.-. .+...+..||..||+|..|...|....+...++.+||..++...+++                  
T Consensus         7 ~~kc~~c~k~vy~~e~~~~~g~~~hk~c~~c~~~~k~l~~~~~~~~e~~~yc~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (200)
T KOG1700|consen    7 TDKCNACGKTVYFVEKVQKDGVDFHKECFKCEKCKKTLTLSGYSEHEGVPYCKNCHVAQFGPKGGGFGKGFQKAGGLGKD   86 (200)
T ss_pred             cchhhhccCcchHHHHHhccCcchhhhHHhccccccccccccccccccccccccchHhhhCcccccccccccccCCCCcc
Confidence            45899999999543 55688999999999999999999877888899999999965443332                  


Q ss_pred             -----------------------CCCCCCCCccc-cEEEEcCceecCCCCCcCCCCCCCCCCceEeeCCeeeChhhhhcc
Q psy11756        159 -----------------------KCFGCGKPITE-TAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSEKG  214 (233)
Q Consensus       159 -----------------------~C~~C~~~I~~-~~i~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~  214 (233)
                                             .|.+|.+.+.+ +.+...+..||..||+|..|++.|+.+.+....|.+||...+...
T Consensus        87 ~~~~~~~~~~~~~~~~~~~g~~~~c~~c~k~vy~~Ek~~~~~~~~hk~cfrc~~~~~~ls~~~~~~~~g~l~~~~~~~~~  166 (200)
T KOG1700|consen   87 GKSLNESKPNQSAKFQVFAGEKEKCARCQKTVYPLEKVTGNGLEFHKSCFRCTHCGKKLSPKNYAALEGVLYCKHHFAQL  166 (200)
T ss_pred             cccccccccccchhHHhhhccccccccccceeeehHHHhhhhhhhhhhheeecccccccCCcchhhcCCccccchhhhee
Confidence                                   29999998865 346677889999999999999999999999999999888877664


Q ss_pred             cc
Q psy11756        215 RE  216 (233)
Q Consensus       215 ~~  216 (233)
                      ..
T Consensus       167 ~~  168 (200)
T KOG1700|consen  167 FK  168 (200)
T ss_pred             ec
Confidence            44

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

Probab=98.66  E-value=1.9e-08  Score=59.24  Aligned_cols=36  Identities=44%  Similarity=1.130  Sum_probs=32.8

Q ss_pred             ccccccccccc--cEeeecCCCcCcCCCccCCCCCCCC
Q psy11756         41 KCAACQGLIQN--IIVQALDKTWHPEHFRCTHCRIPIA   76 (233)
Q Consensus        41 ~C~~C~~~I~~--~~~~~~~~~~H~~Cf~C~~C~~~l~   76 (233)
                      +|.+|++.|.+  ..+.++++.||+.||+|..|+++|.
T Consensus         1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L~   38 (39)
T smart00132        1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPLG   38 (39)
T ss_pred             CccccCCcccCCcEEEEeCCccccccCCCCcccCCcCc
Confidence            58899999987  6788899999999999999999985

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=98.66  E-value=2.1e-08  Score=59.03  Aligned_cols=36  Identities=42%  Similarity=1.239  Sum_probs=32.3

Q ss_pred             CCCCCCCCccc--cEEEEcCceecCCCCCcCCCCCCCC
Q psy11756        159 KCFGCGKPITE--TAIKVHDRKWHEACFRCGRCRRPIS  194 (233)
Q Consensus       159 ~C~~C~~~I~~--~~i~~~~~~~H~~Cf~C~~C~~~l~  194 (233)
                      +|.+|+++|.+  ..+.+.+..||+.||+|..|+++|.
T Consensus         1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L~   38 (39)
T smart00132        1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPLG   38 (39)
T ss_pred             CccccCCcccCCcEEEEeCCccccccCCCCcccCCcCc
Confidence            58999999987  5677899999999999999999985

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

>KOG1702|consensus

Probab=97.57  E-value=8.7e-06  Score=64.53  Aligned_cols=60  Identities=23%  Similarity=0.549  Sum_probs=53.2

Q ss_pred             CCCccccccccccc-cEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCcccccccccccc
Q psy11756         38 MYPKCAACQGLIQN-IIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLF   97 (233)
Q Consensus        38 ~~~~C~~C~~~I~~-~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~   97 (233)
                      .+..|..|++.++. +-|..+++.||..||+|..|+.+|....|-..+.++||..+|....
T Consensus         3 ~k~n~~~cgk~vYPvE~v~cldk~whk~cfkce~c~mtlnmKnyKgy~kkpycn~hYpkq~   63 (264)
T KOG1702|consen    3 KKCNREDCGKTVYPVEEVKCLDKVWHKQCFKCEVCGMTLNMKNYKGYDKKPYCNPHYPKQV   63 (264)
T ss_pred             ccchhhhhccccccHHHHhhHHHHHHHHhheeeeccCChhhhhccccccCCCcCcccccce
Confidence            45678899999988 7788899999999999999999999888888899999999997653

>KOG0490|consensus

Probab=97.46  E-value=1.4e-05  Score=65.98  Aligned_cols=109  Identities=27%  Similarity=0.551  Sum_probs=85.1

Q ss_pred             ccccccccc-EeeecCCCcCcCCCccCCCCCCCC--CCceeeeCCcccccccccc--ccCCCCCCCCcccc--ccEEecC
Q psy11756         44 ACQGLIQNI-IVQALDKTWHPEHFRCTHCRIPIA--TQKFHVHAGSPYCVEDYAS--LFLNKCQGCRLPIK--DVVVTAL  116 (233)
Q Consensus        44 ~C~~~I~~~-~~~~~~~~~H~~Cf~C~~C~~~l~--~~~~~~~~~~~yC~~c~~~--~~~~~C~~C~~~i~--~~~~~~~  116 (233)
                      .|+..|.+. .+.+.+..||..|..|..|..+|.  ...|.. +|..||..+|..  .+..+|.+|...+.  +.+..+.
T Consensus         1 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~~d~~~~~~~~~rr~rt~~~~~ql~~ler~f   79 (235)
T KOG0490|consen    1 GCGRQILDRYLLRVLDRYWHASCLKCAECDNPLGVGDTCFSK-DGSIYCKRDYQREFKFSKRCARCKFTISQLDELERAF   79 (235)
T ss_pred             CCCccccchHHhhcccHHHHHHHHhhhhhcchhccCCCcccC-CCcccccccchhhhhccccccCCCCCcCHHHHHHHhh
Confidence            367788774 466779999999999999999997  555555 999999999998  77789999999983  3455566


Q ss_pred             CCeeecCCCCCCCCCcccc-cCceecc-CCceechhhhhh
Q psy11756        117 NQTWHPDHFVCISCGTKLL-YKGFYER-EGNAFCTACYEG  154 (233)
Q Consensus       117 ~~~~H~~Cf~C~~C~~~l~-~~~~~~~-~g~~~C~~c~~~  154 (233)
                      .+. |.-||.|..|...+. +..+.+. +.+.+|...+.+
T Consensus        80 ~~~-h~Pd~~~r~~la~~~~~~e~rVqvwFqnrrak~r~~  118 (235)
T KOG0490|consen   80 EKV-HLPCFACRECLALLLTGDEFRVQVWFQNRRAKDRKE  118 (235)
T ss_pred             cCC-CcCccchHHHHhhcCCCCeeeeehhhhhhcHhhhhh
Confidence            666 999999999988664 4455554 447888777644

>KOG0490|consensus

Probab=97.38  E-value=2.9e-05  Score=64.01  Aligned_cols=109  Identities=25%  Similarity=0.563  Sum_probs=86.7

Q ss_pred             CCcccccc-EEecCCCeeecCCCCCCCCCcccc--cCceeccCCceechhhhhh--ccCCCCCCCCCCccc--cEEEEcC
Q psy11756        104 CRLPIKDV-VVTALNQTWHPDHFVCISCGTKLL--YKGFYEREGNAFCTACYEG--KFCPKCFGCGKPITE--TAIKVHD  176 (233)
Q Consensus       104 C~~~i~~~-~~~~~~~~~H~~Cf~C~~C~~~l~--~~~~~~~~g~~~C~~c~~~--~~~~~C~~C~~~I~~--~~i~~~~  176 (233)
                      |+..|.+. .+.+.+..||..|..|..|...+.  ...|.. +|..||...+..  .+..+|.+|.+.|..  ....+..
T Consensus         2 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~~d~~~~~~~~~rr~rt~~~~~ql~~ler~f~   80 (235)
T KOG0490|consen    2 CGRQILDRYLLRVLDRYWHASCLKCAECDNPLGVGDTCFSK-DGSIYCKRDYQREFKFSKRCARCKFTISQLDELERAFE   80 (235)
T ss_pred             CCccccchHHhhcccHHHHHHHHhhhhhcchhccCCCcccC-CCcccccccchhhhhccccccCCCCCcCHHHHHHHhhc
Confidence            56677665 445668999999999999999997  445555 999999999987  778899999999833  2334555


Q ss_pred             ceecCCCCCcCCCCCCC-CCCceEeeCC-eeeChhhhhcc
Q psy11756        177 RKWHEACFRCGRCRRPI-SGPTFRVCEA-DVVCVECSEKG  214 (233)
Q Consensus       177 ~~~H~~Cf~C~~C~~~l-~~~~~~~~~~-~~~C~~C~~~~  214 (233)
                      +. |-.||.|..|...+ .+..+.+.+. +..|.+.+...
T Consensus        81 ~~-h~Pd~~~r~~la~~~~~~e~rVqvwFqnrrak~r~~~  119 (235)
T KOG0490|consen   81 KV-HLPCFACRECLALLLTGDEFRVQVWFQNRRAKDRKEE  119 (235)
T ss_pred             CC-CcCccchHHHHhhcCCCCeeeeehhhhhhcHhhhhhh
Confidence            56 99999999999987 5677777665 89999999766

>KOG1702|consensus

Probab=95.76  E-value=0.00075  Score=53.74  Aligned_cols=57  Identities=23%  Similarity=0.576  Sum_probs=45.0

Q ss_pred             CCCCCCccccc-cEEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhcc
Q psy11756        100 KCQGCRLPIKD-VVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKF  156 (233)
Q Consensus       100 ~C~~C~~~i~~-~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~  156 (233)
                      .|..|++.+.. +-+.-+++.||..||+|..|+.+|.-..+-..+.++||..+|....
T Consensus         6 n~~~cgk~vYPvE~v~cldk~whk~cfkce~c~mtlnmKnyKgy~kkpycn~hYpkq~   63 (264)
T KOG1702|consen    6 NREDCGKTVYPVEEVKCLDKVWHKQCFKCEVCGMTLNMKNYKGYDKKPYCNPHYPKQV   63 (264)
T ss_pred             hhhhhccccccHHHHhhHHHHHHHHhheeeeccCChhhhhccccccCCCcCcccccce
Confidence            45566666643 2466788999999999999999998767777899999999996544

>KOG2462|consensus

Probab=84.99  E-value=0.27  Score=41.28  Aligned_cols=126  Identities=16%  Similarity=0.295  Sum_probs=73.0

Q ss_pred             CcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCCCCCCccccccEEecCCCeeecCCCCCCCCCcccccCceec
Q psy11756         62 HPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYE  141 (233)
Q Consensus        62 H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~~C~~~i~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~  141 (233)
                      -...++|..|++.+.+..=..+-.+..|..+-.  ....|..|++.-...-...+-..-|.-=++|.+|++.|... |. 
T Consensus       127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~--ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRP-WL-  202 (279)
T KOG2462|consen  127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSLDSK--KAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRP-WL-  202 (279)
T ss_pred             cCCceeccccccccccccccchhhccccccccc--ccccCCCCCceeeehHHHhhHhhccCCCcccccccccccch-HH-
Confidence            356789999999988643334555666665543  35689999876533211112223355557899999988633 22 


Q ss_pred             cCCceechhhhhhccCCCCCCCCCCccccE-EEEc-CceecCCCCCcCCCCCCCC
Q psy11756        142 REGNAFCTACYEGKFCPKCFGCGKPITETA-IKVH-DRKWHEACFRCGRCRRPIS  194 (233)
Q Consensus       142 ~~g~~~C~~c~~~~~~~~C~~C~~~I~~~~-i~~~-~~~~H~~Cf~C~~C~~~l~  194 (233)
                      ..|.+--  +. ..-.-.|+.|++...++- |++. -..-+..=|.|.+|+|.+.
T Consensus       203 LQGHiRT--HT-GEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFs  254 (279)
T KOG2462|consen  203 LQGHIRT--HT-GEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFA  254 (279)
T ss_pred             hhccccc--cc-CCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHH
Confidence            2333311  11 111125888888887753 3332 1123344688999998874

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=84.25  E-value=0.57  Score=29.44  Aligned_cols=38  Identities=29%  Similarity=0.561  Sum_probs=25.1

Q ss_pred             cCCCCCCCCCCcc-ccEEEE---cCceecCCCC----CcCC--CCCCC
Q psy11756        156 FCPKCFGCGKPIT-ETAIKV---HDRKWHEACF----RCGR--CRRPI  193 (233)
Q Consensus       156 ~~~~C~~C~~~I~-~~~i~~---~~~~~H~~Cf----~C~~--C~~~l  193 (233)
                      .+.+|..|+++|. +..|++   -+..||.+|+    .|..  |+..+
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~g~C~~~~c~~~~   51 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKAGGCINYSCGTGF   51 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHHhhCCceEeccCCCCc
Confidence            3568999999995 333433   4678999997    3655  55443

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

Probab=83.74  E-value=1.1  Score=29.13  Aligned_cols=48  Identities=21%  Similarity=0.352  Sum_probs=22.8

Q ss_pred             CCCCCCCcccccCceeccCCceechhhhhhccCCCCCCCCCCccccEE
Q psy11756        125 FVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITETAI  172 (233)
Q Consensus       125 f~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~~C~~~I~~~~i  172 (233)
                      .+|+.|..-+...-....=+..||..|....++..|+.|+.|-....+
T Consensus         8 LrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~~CPvC~~Paw~qD~   55 (65)
T PF14835_consen    8 LRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGSECPVCHTPAWIQDI   55 (65)
T ss_dssp             TS-SSS-S--SS-B---SSS--B-TTTGGGGTTTB-SSS--B-S-SS-
T ss_pred             cCCcHHHHHhcCCceeccCccHHHHHHhHHhcCCCCCCcCChHHHHHH
Confidence            477888776653322234568899999888888889999988654443

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

Probab=83.31  E-value=1.1  Score=29.22  Aligned_cols=46  Identities=15%  Similarity=0.256  Sum_probs=22.3

Q ss_pred             CccCCCCCCCCCCceeeeCCccccccccccccCCCCCCCCcccccc
Q psy11756         66 FRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDV  111 (233)
Q Consensus        66 f~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~~C~~~i~~~  111 (233)
                      ++|+.|...|........=...||..|....++..|+.|+.|....
T Consensus         8 LrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~~CPvC~~Paw~q   53 (65)
T PF14835_consen    8 LRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGSECPVCHTPAWIQ   53 (65)
T ss_dssp             TS-SSS-S--SS-B---SSS--B-TTTGGGGTTTB-SSS--B-S-S
T ss_pred             cCCcHHHHHhcCCceeccCccHHHHHHhHHhcCCCCCCcCChHHHH
Confidence            5788888877654333344567899998887778899998887543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	233
2jtn_A	182	Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Compl		2e-10
2jtn_A	182	Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Compl		5e-05
3mmk_A	169	The Structural Basis For Partial Redundancy In A Cl		2e-10
3mmk_A	169	The Structural Basis For Partial Redundancy In A Cl		9e-07
2rgt_A	169	Crystal Structure Of Lhx3 Lim Domains 1 And 2 With		4e-10
2rgt_A	169	Crystal Structure Of Lhx3 Lim Domains 1 And 2 With		7e-05
2xqn_T	126	Complex Of The 2nd And 3rd Lim Domains Of Tes With		3e-08
2xqn_T	126	Complex Of The 2nd And 3rd Lim Domains Of Tes With		2e-06
2cuq_A	80	Solution Structure Of Second Lim Domain From Human		8e-08
1x3h_A	80	Solution Structure Of The Lim Domain Of Human Leupa		2e-07
1x3h_A	80	Solution Structure Of The Lim Domain Of Human Leupa		2e-04
1rut_X	188	Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 L		2e-07
1rut_X	188	Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 L		2e-05
1nyp_A	66	4th Lim Domain Of Pinch Protein Length = 66		3e-07
2dfy_X	195	Crystal Structure Of A Cyclized Protein Fusion Of L		4e-07
2dfy_X	195	Crystal Structure Of A Cyclized Protein Fusion Of L		6e-05
2dar_A	90	Solution Structure Of First Lim Domain Of Enigma-Li		7e-07
2dar_A	90	Solution Structure Of First Lim Domain Of Enigma-Li		2e-06
2xjy_A	131	Crystal Structure Of The Lmo2:ldb1-Lid Complex, P21		9e-07
2cup_A	101	Solution Structure Of The Skeletal Muscle Lim-Prote		3e-05
1qli_A	113	Quail Cysteine And Glycine-Rich Protein, Nmr, 15 Mi		8e-05
1cxx_A	113	Mutant R122a Of Quail Cysteine And Glycine-Rich Pro		9e-05
2cur_A	69	Solution Structure Of Skeletal Muscle Lim-Protein 1		1e-04
2ehe_A	82	Solution Structure Of The First Lim Domain From Hum		3e-04
2d8z_A	70	Solution Structure Of The Third Lim Domain Of Four		4e-04
2egq_A	77	Solution Structure Of The Fourth Lim Domain From Hu		7e-04

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

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 41/119 (34%), Positives = 60/119 (50%), Gaps = 6/119 (5%)
Query: 40  PKCAAC-QGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFL 98
           P CA C Q ++   I++ALD+ WH +  +C+ C +P+A + F     S YC +D+   F 
Sbjct: 61  PMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFS-RGESVYCKDDFFKRFG 119
Query: 99  NKCQGCRL--PIKDVVVTALNQTWHPDHFVCISCGTKLLYKG-FYEREGNAF-CTACYE 153
            KC  C+L  P   VV  A +  +H   F C+ C  +L     FY  E +   C A YE
Sbjct: 120 TKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYE 178

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 32/106 (30%), Positives = 48/106 (45%), Gaps = 5/106 (4%)
Query: 101 CQGCRLPIKD-VVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPK 159
           C GC   I D  ++ AL++ WH     C  C   L  + F  R  + +C   +  +F  K
Sbjct: 63  CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRFGTK 121
Query: 160 CFGC--GKPITETAIKVHDRKWHEACFRCGRCRRPI-SGPTFRVCE 202
           C  C  G P T+   +  D  +H  CF C  C+R + +G  F + E
Sbjct: 122 CAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLME 167

>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 = 62.0 bits (149), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 42/119 (35%), Positives = 59/119 (49%), Gaps = 6/119 (5%)
Query: 40  PKCAAC-QGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFL 98
           P+CA C Q ++   I++ LD+ WH    +C  C++ +A + F   AGS YC ED+   F 
Sbjct: 7   PQCAGCNQHILDKFILKVLDRHWHSSCLKCADCQMQLADRCFS-RAGSVYCKEDFFKRFG 65
Query: 99  NKCQGCR--LPIKDVVVTALNQTWHPDHFVCISCGTKLLYKG-FYERE-GNAFCTACYE 153
            KC  C+  +P   VV  A +  +H   F CI C  +L     FY  E G   C   YE
Sbjct: 66  TKCTACQQGIPPTQVVRKAQDFVYHLHCFACIICNRQLATGDEFYLMEDGRLVCKEDYE 124

>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 = 50.4 bits (119), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 37/122 (30%), Positives = 56/122 (45%), Gaps = 6/122 (4%)
Query: 100 KCQGCRLPIKD-VVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCP 158
           +C GC   I D  ++  L++ WH     C  C  +L  + F  R G+ +C   +  +F  
Sbjct: 8   QCAGCNQHILDKFILKVLDRHWHSSCLKCADCQMQLADRCF-SRAGSVYCKEDFFKRFGT 66
Query: 159 KCFGC--GKPITETAIKVHDRKWHEACFRCGRCRRPI-SGPTFRVCE-ADVVCVECSEKG 214
           KC  C  G P T+   K  D  +H  CF C  C R + +G  F + E   +VC E  E  
Sbjct: 67  KCTACQQGIPPTQVVRKAQDFVYHLHCFACIICNRQLATGDEFYLMEDGRLVCKEDYETA 126
Query: 215 RE 216
           ++
Sbjct: 127 KQ 128

>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 = 61.6 bits (148), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 41/119 (34%), Positives = 60/119 (50%), Gaps = 6/119 (5%)
Query: 40  PKCAAC-QGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFL 98
           P CA C Q ++   I++ALD+ WH +  +C+ C +P+A + F     S YC +D+   F 
Sbjct: 7   PMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFS-RGESVYCKDDFFKRFG 65
Query: 99  NKCQGCRL--PIKDVVVTALNQTWHPDHFVCISCGTKLLYKG-FYEREGNAF-CTACYE 153
            KC  C+L  P   VV  A +  +H   F C+ C  +L     FY  E +   C A YE
Sbjct: 66  TKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYE 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 = 43.9 bits (102), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 35/121 (28%), Positives = 55/121 (45%), Gaps = 6/121 (4%)
Query: 101 CQGCRLPIKD-VVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPK 159
           C GC   I D  ++ AL++ WH     C  C   L  + F  R  + +C   +  +F  K
Sbjct: 9   CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRFGTK 67
Query: 160 CFGC--GKPITETAIKVHDRKWHEACFRCGRCRRPI-SGPTFRVCE-ADVVCVECSEKGR 215
           C  C  G P T+   +  D  +H  CF C  C+R + +G  F + E + +VC    E  +
Sbjct: 68  CAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAK 127
Query: 216 E 216
           +
Sbjct: 128 Q 128

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

Iteration: 1
 Score = 55.1 bits (131), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 39/116 (33%), Positives = 52/116 (44%), Gaps = 5/116 (4%)
Query: 40  PKCAACQGLI-QNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFL 98
           P+CA C  LI  N   QA ++ WH +HF C  C   +A + + +    P C   Y     
Sbjct: 4   PRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHA 63
Query: 99  NKCQGCRLPIKDVV--VTALNQTWHPDH--FVCISCGTKLLYKGFYEREGNAFCTA 150
             CQGC   I   V  VT  N +WH     F+C  C   L+ + F   EG  FC+ 
Sbjct: 64  VVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSV 119

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 36/120 (30%), Positives = 49/120 (40%), Gaps = 6/120 (5%)
Query: 100 KCQGC-RLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCP 158
           +C GC  L   +    A NQ WH  HF C  C + L  + +        C  CY      
Sbjct: 5   RCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAV 64
Query: 159 KCFGCGKPITETAIKV--HDRKWHEA--CFRCGRCRRPISGPTFRVCEADVVC-VECSEK 213
            C GC   I     +V  ++  WH +  CF C  C + + G  F   E  V C VEC ++
Sbjct: 65  VCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKR 124

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

Iteration: 1
 Score = 53.9 bits (128), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 23/60 (38%), Positives = 32/60 (53%)
Query: 151 CYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
           CYE KF P+C  C K +T+  +   D+ WH  C  C  C+ P++G  F   + D  CV C
Sbjct: 9   CYENKFAPRCARCSKTLTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVAC 68

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

Iteration: 1
 Score = 52.8 bits (125), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 22/63 (34%), Positives = 35/63 (55%)
Query: 91  EDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTA 150
           +D+ ++F  KC GC  P+ +  ++A++  WHP+ FVC  C T      F+E +G  FC  
Sbjct: 8   KDFLAMFSPKCGGCNRPVLENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCEL 67
Query: 151 CYE 153
            Y 
Sbjct: 68  HYH 70

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 19/52 (36%), Positives = 24/52 (46%)
Query: 156 FCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVC 207
           F PKC GC +P+ E  +   D  WH  CF CG C    S  +F   +    C
Sbjct: 14  FSPKCGGCNRPVLENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFC 65

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

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 33/122 (27%), Positives = 55/122 (45%), Gaps = 8/122 (6%)
Query: 35  ASTMYPKCAACQGLIQN-IIVQALDKTWHPEHFRCTHCRIPIAT--QKFHVHAGSPYCVE 91
            S  + +CA C G I +  ++ A+D  WH    +C+ C+  +       +  +G   C  
Sbjct: 1   GSLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRN 60
Query: 92  DYASLFLNK--CQGC--RLPIKDVVVTALNQTWHPDHFVCISCGTKLL-YKGFYEREGNA 146
           DY  LF N   C  C   +P  ++V+ A    +H   F C +C  +L+    F+   G+ 
Sbjct: 61  DYIRLFGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSL 120
Query: 147 FC 148
           FC
Sbjct: 121 FC 122

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

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 34/122 (27%), Positives = 49/122 (40%), Gaps = 8/122 (6%)
Query: 94  ASLFLNKCQGCRLPIKD-VVVTALNQTWHPDHFVCISCGTKL--LYKGFYEREGNAFCTA 150
            SL   +C GC   I D  ++ A++  WH     C SC  +L  +    Y + G   C  
Sbjct: 1   GSLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRN 60
Query: 151 CYEGKF--CPKCFGCGK--PITETAIKVHDRKWHEACFRCGRCR-RPISGPTFRVCEADV 205
            Y   F     C  CG+  P +E  ++     +H  CF C  CR R + G  F      +
Sbjct: 61  DYIRLFGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSL 120
Query: 206 VC 207
            C
Sbjct: 121 FC 122

>pdb|1NYP|A Chain A, 4th Lim Domain Of Pinch Protein Length = 66

Iteration: 1
 Score = 52.0 bits (123), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 25/63 (39%), Positives = 33/63 (52%)
Query: 94  ASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYE 153
            S+ +  C  CR PI+  VV A+ + WH +HFVC  C    L    YER+G A+C   Y 
Sbjct: 1   GSMGVPICGACRRPIEGRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYN 60
Query: 154 GKF 156
             F
Sbjct: 61  QLF 63

>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 = 51.6 bits (122), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 32/118 (27%), Positives = 54/118 (45%), Gaps = 8/118 (6%)
Query: 39  YPKCAACQGLIQN-IIVQALDKTWHPEHFRCTHCRIPIAT--QKFHVHAGSPYCVEDYAS 95
           + +CA C G I +  ++ A+D  WH    +C+ C+  +       +  +G   C  DY  
Sbjct: 3   WKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIR 62
Query: 96  LFLNK--CQGC--RLPIKDVVVTALNQTWHPDHFVCISCGTKLL-YKGFYEREGNAFC 148
           LF N   C  C   +P  ++V+ A    +H   F C +C  +L+    F+   G+ FC
Sbjct: 63  LFGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFC 120

>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 = 44.3 bits (103), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 33/120 (27%), Positives = 48/120 (40%), Gaps = 8/120 (6%)
Query: 96  LFLNKCQGCRLPIKD-VVVTALNQTWHPDHFVCISCGTKL--LYKGFYEREGNAFCTACY 152
           L   +C GC   I D  ++ A++  WH     C SC  +L  +    Y + G   C   Y
Sbjct: 1   LSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDY 60
Query: 153 EGKF--CPKCFGCGK--PITETAIKVHDRKWHEACFRCGRCR-RPISGPTFRVCEADVVC 207
              F     C  CG+  P +E  ++     +H  CF C  CR R + G  F      + C
Sbjct: 61  IRLFGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFC 120

>pdb|2DAR|A Chain A, Solution Structure Of First Lim Domain Of Enigma-Like Pdz And Lim Domains Protein Length = 90

Iteration: 1
 Score = 50.4 bits (119), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 29/83 (34%), Positives = 37/83 (44%), Gaps = 3/83 (3%)
Query: 15 GQGDETDVDVSEALDPPPNAASTMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIP 74
          G   + D  V  A   P   A    P CA C  +I+   + AL K+WHPE F C HC+  
Sbjct: 4  GSSGDQDTLVQRAEHIP---AGKRTPMCAHCNQVIRGPFLVALGKSWHPEEFNCAHCKNT 60
Query: 75 IATQKFHVHAGSPYCVEDYASLF 97
          +A   F    G+ YC   Y   F
Sbjct: 61 MAYIGFVEEKGALYCELCYEKFF 83

>pdb|2DAR|A Chain A, Solution Structure Of First Lim Domain Of Enigma-Like Pdz And Lim Domains Protein Length = 90

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 21/56 (37%), Positives = 29/56 (51%)
Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKF 156
           C  C   I+   + AL ++WHP+ F C  C   + Y GF E +G  +C  CYE  F
Sbjct: 28  CAHCNQVIRGPFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFF 83

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

Iteration: 1
 Score = 50.4 bits (119), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 36/118 (30%), Positives = 55/118 (46%), Gaps = 8/118 (6%)
Query: 98  LNKCQGCRLPIKD-VVVTALNQTWHPDHFVCISCGTKL--LYKGFYEREGNAFCTACYEG 154
           L  C GC+  I D   + A++Q WH D   C  CG +L  + +  Y + G   C   Y  
Sbjct: 2   LLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLR 61
Query: 155 KFCPK--CFGCGKPIT--ETAIKVHDRKWHEACFRCGRCRRPI-SGPTFRVCEADVVC 207
            F     C  C K I   E  ++V D+ +H  CF+C  C++    G  + +  +D+VC
Sbjct: 62  LFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVC 119

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/56 (35%), Positives = 33/56 (58%), Gaps = 2/56 (3%)
Query: 160 CFGCGKPITETAIKVH--DRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSEK 213
           C  C KPI   + +VH  +R WH+ CFRC +C  P++  TF   +  ++C +C+ +
Sbjct: 8   CVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTR 63

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 20/53 (37%), Positives = 25/53 (47%)
Query: 113 VTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGK 165
           V    + WH + F C  CG  L      E+EG  +C  CY   F PK FG G+
Sbjct: 52  VIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFGPKGFGYGQ 104

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 20/53 (37%), Positives = 25/53 (47%)
Query: 113 VTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGK 165
           V    + WH + F C  CG  L      E+EG  +C  CY   F PK FG G+
Sbjct: 52  VIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFGPKGFGYGQ 104

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 19/51 (37%), Positives = 24/51 (47%)
Query: 160 CFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
           C  C K IT   I   D+ WH  CF C  C + ++G  F   E    CV+C
Sbjct: 8   CVKCNKAITSGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDC 58

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

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 151 CYEGKFCPKCFGCGKPITETAIKV--HDRKWHEACFRCGRCRRPISGPTFRVCEADVVCV 208
           CY+  F   C  C + I   + ++   DR +HE CFRC RC+R ++   F   +++++C 
Sbjct: 9   CYDNTFANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELLCN 68
Query: 209 EC 210
           +C
Sbjct: 69  DC 70

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

Iteration: 1
 Score = 41.6 bits (96), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 18/51 (35%), Positives = 26/51 (50%)
Query: 160 CFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
           C  C KPIT   +   ++ WH+ CF C  CR+ +SG  F   +    C+ C
Sbjct: 8   CVQCKKPITTGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNC 58

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

Iteration: 1
 Score = 40.8 bits (94), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 5/68 (7%)
Query: 151 CYEGKFCPKCFGCGKPIT-----ETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADV 205
           CY+     KC GC  PIT      + +    + WH+ CF C +C   ++   F   +  V
Sbjct: 9   CYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQV 68
Query: 206 VCVECSEK 213
            C +C++K
Sbjct: 69  YCPDCAKK 76

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	233
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	2e-42
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	2e-06
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	1e-36
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	2e-29
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	4e-09
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	2e-33
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	2e-29
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	3e-31
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	5e-27
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	4e-30
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	6e-20
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	5e-14
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	1e-29
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	3e-28
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	7e-29
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	2e-27
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	3e-09
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	2e-24
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	5e-18
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	2e-16
2cuq_A	80	Four and A half LIM domains 3; structural genomics	2e-23
2cuq_A	80	Four and A half LIM domains 3; structural genomics	3e-19
2cuq_A	80	Four and A half LIM domains 3; structural genomics	3e-16
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	1e-21
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	1e-18
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	3e-13
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	2e-21
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	5e-16
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	6e-15
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	4e-20
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	1e-19
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	5e-12
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	2e-19
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	8e-17
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	1e-11
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	2e-19
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	6e-19
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	5e-12
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	2e-19
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	3e-19
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	4e-12
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	3e-19
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	2e-17
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	2e-11
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	4e-19
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	9e-19
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	7e-11
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	8e-19
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	2e-14
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	1e-12
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	1e-18
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	8e-16
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	8e-12
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	5e-18
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	5e-17
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	2e-17
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	1e-16
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	2e-11
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	3e-17
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	5e-13
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	2e-11
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	5e-17
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	1e-16
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	4e-11
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	5e-17
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	2e-16
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	2e-09
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	8e-17
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	3e-13
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	3e-13
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	9e-17
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	2e-16
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	3e-11
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	3e-15
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	3e-15
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	5e-11
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	3e-15
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	1e-13
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	1e-11
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	3e-15
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	3e-14
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	9e-11
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	3e-15
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	2e-14
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	4e-07
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	5e-15
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	2e-14
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	5e-09
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	2e-14
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	7e-13
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	2e-07
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	2e-14
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	5e-12
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	4e-11
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	6e-14
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	2e-13
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	7e-07
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	2e-13
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	7e-13
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	3e-08
2cor_A	79	Pinch protein; LIM domain, particularly interestin	9e-13
2cor_A	79	Pinch protein; LIM domain, particularly interestin	9e-12
2cor_A	79	Pinch protein; LIM domain, particularly interestin	7e-07
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	2e-12
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	3e-09
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	3e-06
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	1e-11
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	6e-11
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	2e-10
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	4e-10
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	2e-06
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	7e-08
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	9e-08
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	1e-06
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	5e-05
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	8e-05
2co8_A	82	NEDD9 interacting protein with calponin homology a	5e-05
2co8_A	82	NEDD9 interacting protein with calponin homology a	1e-04
2co8_A	82	NEDD9 interacting protein with calponin homology a	4e-04

>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 =  141 bits (356), Expect = 2e-42
 Identities = 41/168 (24%), Positives = 69/168 (41%), Gaps = 6/168 (3%)

Query: 34  AASTMYPKCAACQGLIQN-IIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVED 92
            ++   P CA C   I +  I++ALD+ WH +  +C+ C +P+A ++      S YC +D
Sbjct: 1   GSTPEIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLA-ERCFSRGESVYCKDD 59

Query: 93  YASLFLNKCQGCR--LPIKDVVVTALNQTWHPDHFVCISCGTKLLY--KGFYEREGNAFC 148
           +   F  KC  C+  +P   VV  A +  +H   F C+ C  +L    + +   +    C
Sbjct: 60  FFKRFGTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVC 119

Query: 149 TACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGP 196
            A YE        G G     T +     + H+   +          P
Sbjct: 120 KADYETAKQGGSGGSGGSGGGTPMVAASPERHDGGLQANPVEVQSYQP 167

>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 = 45.6 bits (108), Expect = 2e-06
 Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 1/42 (2%)

Query: 158 PKCFGCGKPITE-TAIKVHDRKWHEACFRCGRCRRPISGPTF 198
           P C GC + I +   +K  DR WH  C +C  C  P++   F
Sbjct: 7   PMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF 48

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

 Score =  124 bits (313), Expect = 1e-36
 Identities = 38/122 (31%), Positives = 55/122 (45%), Gaps = 5/122 (4%)

Query: 40  PKCAACQGLI-QNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFL 98
           P+CA C  LI  N   QA ++ WH +HF C  C   +A + + +    P C   Y     
Sbjct: 4   PRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHA 63

Query: 99  NKCQGCRLPI--KDVVVTALNQTWHP--DHFVCISCGTKLLYKGFYEREGNAFCTACYEG 154
             CQGC   I  +   VT  N +WH   + F+C  C   L+ + F   EG  FC+   + 
Sbjct: 64  VVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKK 123

Query: 155 KF 156
           + 
Sbjct: 124 RM 125

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

 Score =  105 bits (264), Expect = 2e-29
 Identities = 34/119 (28%), Positives = 45/119 (37%), Gaps = 5/119 (4%)

Query: 100 KCQGCRLPIKD-VVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCP 158
           +C GC   I       A NQ WH  HF C  C + L  + +        C  CY      
Sbjct: 5   RCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAV 64

Query: 159 KCFGCGKPITETAIKV--HDRKWHEA--CFRCGRCRRPISGPTFRVCEADVVCVECSEK 213
            C GC   I     +V  ++  WH +  CF C  C + + G  F   E  V C    +K
Sbjct: 65  VCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKK 123

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

 Score = 52.0 bits (125), Expect = 4e-09
 Identities = 15/57 (26%), Positives = 24/57 (42%), Gaps = 1/57 (1%)

Query: 158 PKCFGCGKPITE-TAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSEK 213
           P+C GC + I      +  ++ WH   F C  C   ++G  + +     VC  C  K
Sbjct: 4   PRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVK 60

>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 =  118 bits (296), Expect = 2e-33
 Identities = 36/159 (22%), Positives = 60/159 (37%), Gaps = 6/159 (3%)

Query: 63  PEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKD-VVVTALNQTWH 121
                        A        GS   +    +  +  C GC   I D  ++ AL++ WH
Sbjct: 25  ERLITRLENTQFDAANGIDDEGGSGGHMGSGGTPEIPMCAGCDQHILDRFILKALDRHWH 84

Query: 122 PDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPI--TETAIKVHDRKW 179
                C  C    L +  + R  + +C   +  +F  KC  C   I  T+   +  D  +
Sbjct: 85  SKCLKCSDCH-VPLAERCFSRGESVYCKDDFFKRFGTKCAACQLGIPPTQVVRRAQDFVY 143

Query: 180 HEACFRCGRCRRPIS-GPTFRVCE-ADVVCVECSEKGRE 216
           H  CF C  C+R ++ G  F + E + +VC    E  ++
Sbjct: 144 HLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAKQ 182

>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 =  107 bits (269), Expect = 2e-29
 Identities = 39/155 (25%), Positives = 66/155 (42%), Gaps = 9/155 (5%)

Query: 4   FSRSPAPSPLLGQGDETDVDVSEALDPPPNAASTMYPKCAACQGLIQN-IIVQALDKTWH 62
            +R          G + +     +     +  +   P CA C   I +  I++ALD+ WH
Sbjct: 28  ITRLENTQFDAANGIDDEGG---SGGHMGSGGTPEIPMCAGCDQHILDRFILKALDRHWH 84

Query: 63  PEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCR--LPIKDVVVTALNQTW 120
            +  +C+ C +P+A + F     S YC +D+   F  KC  C+  +P   VV  A +  +
Sbjct: 85  SKCLKCSDCHVPLAERCFS-RGESVYCKDDFFKRFGTKCAACQLGIPPTQVVRRAQDFVY 143

Query: 121 HPDHFVCISCGTKLLY--KGFYEREGNAFCTACYE 153
           H   F C+ C  +L    + +   +    C A YE
Sbjct: 144 HLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYE 178

>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 =  112 bits (282), Expect = 3e-31
 Identities = 34/167 (20%), Positives = 54/167 (32%), Gaps = 9/167 (5%)

Query: 35  ASTMYPKCAACQGLIQ-NIIVQALDKTWHPEHFRCTHCRIPIA--TQKFHVHAGSPYCVE 91
            S  + +CA C G I    ++ A+D  WH    +C+ C+  +       +  +G   C  
Sbjct: 1   GSLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRN 60

Query: 92  DYASLFLN--KCQGCRLPI--KDVVVTALNQTWHPDHFVCISCGTKLLY-KGFYEREGNA 146
           DY  LF N   C  C   I   ++V+ A    +H   F C +C  +L+    F+   G+ 
Sbjct: 61  DYIRLFGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSL 120

Query: 147 FCTACYEGKFCPKCFGCGKPITETAIKVH-DRKWHEACFRCGRCRRP 192
           FC               G                             
Sbjct: 121 FCEHDRPTALINGHLNSGGSGGSGGSGGDVMVVGEPTLMGGEFGDED 167

>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 =  101 bits (253), Expect = 5e-27
 Identities = 35/133 (26%), Positives = 49/133 (36%), Gaps = 8/133 (6%)

Query: 94  ASLFLNKCQGCRLPIKD-VVVTALNQTWHPDHFVCISCGTKLLYKG--FYEREGNAFCTA 150
            SL   +C GC   I D  ++ A++  WH     C SC  +L   G   Y + G   C  
Sbjct: 1   GSLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRN 60

Query: 151 CYEGKF--CPKCFGCGKPI--TETAIKVHDRKWHEACFRCGRCRRPIS-GPTFRVCEADV 205
            Y   F     C  CG+ I  +E  ++     +H  CF C  CR  +  G  F      +
Sbjct: 61  DYIRLFGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSL 120

Query: 206 VCVECSEKGREEG 218
            C          G
Sbjct: 121 FCEHDRPTALING 133

>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 =  109 bits (274), Expect = 4e-30
 Identities = 33/173 (19%), Positives = 56/173 (32%), Gaps = 13/173 (7%)

Query: 40  PKCAACQGLIQNI-IVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFL 98
            KC  CQ  +     VQ    ++H   F C  C+  + +    VH    YC   Y   + 
Sbjct: 8   KKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYG 67

Query: 99  NKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCP 158
            K +G  +                      S G K      +            +     
Sbjct: 68  PKGKGKGMGA-----------GTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSD 116

Query: 159 KCFGCGKPITET-AIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
            C  CG+ +     +    + WH++CFRC +C + +   T    + ++ C  C
Sbjct: 117 GCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGC 169

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

 Score = 83.1 bits (205), Expect = 6e-20
 Identities = 22/108 (20%), Positives = 33/108 (30%), Gaps = 1/108 (0%)

Query: 59  KTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKD-VVVTALN 117
                   +     I     + H                 + C  C   +     V    
Sbjct: 76  GAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAVYAAEKVIGAG 135

Query: 118 QTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGK 165
           ++WH   F C  CG  L      +++G  +C  CY   F PK FG G+
Sbjct: 136 KSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKGFGFGQ 183

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

 Score = 67.3 bits (164), Expect = 5e-14
 Identities = 24/118 (20%), Positives = 37/118 (31%), Gaps = 4/118 (3%)

Query: 99  NKCQGCRLPIKDV-VVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFC 157
            KC  C+  +     V     ++H   F+C+ C   L            +C +CY  K+ 
Sbjct: 8   KKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYG 67

Query: 158 PKCFGCGKPI--TETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSEK 213
           PK  G G       T         +E            S    +V  +D  C  C + 
Sbjct: 68  PKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSD-GCPRCGQA 124

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

 Score =  106 bits (266), Expect = 1e-29
 Identities = 24/122 (19%), Positives = 45/122 (36%), Gaps = 8/122 (6%)

Query: 40  PKCAACQGLIQN-IIVQALDKTWHPEHFRCTHCRIPIAT--QKFHVHAGSPYCVEDYASL 96
             C  CQ  I +   ++A+D+ WH +   C  C   +    ++ +   G   C  DY  L
Sbjct: 3   LTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRL 62

Query: 97  FLNK--CQGCRLPIK--DVVVTALNQTWHPDHFVCISCGTKLLY-KGFYEREGNAFCTAC 151
           F     C  C   I+  ++ +   ++ +H + F C +C         +     +  C   
Sbjct: 63  FGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQD 122

Query: 152 YE 153
             
Sbjct: 123 IY 124

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

 Score =  102 bits (257), Expect = 3e-28
 Identities = 37/127 (29%), Positives = 57/127 (44%), Gaps = 8/127 (6%)

Query: 98  LNKCQGCRLPIKD-VVVTALNQTWHPDHFVCISCGTKLLYKG--FYEREGNAFCTACYEG 154
           L  C GC+  I D   + A++Q WH D   C  CG +L   G   Y + G   C   Y  
Sbjct: 2   LLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLR 61

Query: 155 KFCPK--CFGCGKPIT--ETAIKVHDRKWHEACFRCGRCRRPIS-GPTFRVCEADVVCVE 209
            F     C  C K I   E  ++V D+ +H  CF+C  C++    G  + +  +D+VC +
Sbjct: 62  LFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQ 121

Query: 210 CSEKGRE 216
              +  +
Sbjct: 122 DIYEWTK 128

>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 =  103 bits (259), Expect = 7e-29
 Identities = 28/101 (27%), Positives = 37/101 (36%), Gaps = 4/101 (3%)

Query: 35  ASTMYPKCAACQGLIQ--NIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVED 92
            S+    C  C+  I   +  V   ++ WH   FRC  C  P+A + F        C + 
Sbjct: 1   GSSGSSGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKC 60

Query: 93  YASLFLNKCQGCRLPIK--DVVVTALNQTWHPDHFVCISCG 131
                  KC+GC   I   D  V      WH D F   S G
Sbjct: 61  TTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFSGPSSG 101

>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 = 99.8 bits (249), Expect = 2e-27
 Identities = 28/100 (28%), Positives = 38/100 (38%), Gaps = 4/100 (4%)

Query: 94  ASLFLNKCQGCRLPIK--DVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTAC 151
            S   + C  CR PI      V   N+ WH   F C  C   L  + F  ++    C  C
Sbjct: 1   GSSGSSGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKC 60

Query: 152 YEGKFCPKCFGCGKPIT--ETAIKVHDRKWHEACFRCGRC 189
              +  PKC GC K I   +  ++     WH+ CF     
Sbjct: 61  TTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFSGPSS 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 = 51.6 bits (124), Expect = 3e-09
 Identities = 18/58 (31%), Positives = 28/58 (48%), Gaps = 2/58 (3%)

Query: 155 KFCPKCFGCGKPIT--ETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
                C  C KPI      +   +R WH+ CFRC +C  P++  TF   +  ++C +C
Sbjct: 3   SGSSGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKC 60

>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 = 91.6 bits (228), Expect = 2e-24
 Identities = 23/76 (30%), Positives = 37/76 (48%)

Query: 85  GSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREG 144
            S    +D+ ++F  KC GC  P+ +  ++A++  WHP+ FVC  C T      F+E +G
Sbjct: 2   SSGSSGKDFLAMFSPKCGGCNRPVLENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDG 61

Query: 145 NAFCTACYEGKFCPKC 160
             FC   Y  +     
Sbjct: 62  RPFCELHYHHRRGSGP 77

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

 Score = 74.7 bits (184), Expect = 5e-18
 Identities = 19/62 (30%), Positives = 25/62 (40%)

Query: 40  PKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLN 99
           PKC  C   +    + A+D  WHPE F C  C    +T  F    G P+C   Y     +
Sbjct: 16  PKCGGCNRPVLENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHHRRGS 75

Query: 100 KC 101
             
Sbjct: 76  GP 77

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

 Score = 70.8 bits (174), Expect = 2e-16
 Identities = 19/70 (27%), Positives = 26/70 (37%)

Query: 144 GNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEA 203
            +      +   F PKC GC +P+ E  +   D  WH  CF CG C    S  +F   + 
Sbjct: 2   SSGSSGKDFLAMFSPKCGGCNRPVLENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDG 61

Query: 204 DVVCVECSEK 213
              C      
Sbjct: 62  RPFCELHYHH 71

>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 = 88.9 bits (221), Expect = 2e-23
 Identities = 21/76 (27%), Positives = 31/76 (40%)

Query: 85  GSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREG 144
            S      Y + F  +C  C   +    VT  +Q WH +  VC  C T L  + F  R+ 
Sbjct: 2   SSGSSGPCYENKFAPRCARCSKTLTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDE 61

Query: 145 NAFCTACYEGKFCPKC 160
           + +C AC+   F    
Sbjct: 62  DPYCVACFGELFASGP 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 = 78.1 bits (193), Expect = 3e-19
 Identities = 22/62 (35%), Positives = 30/62 (48%)

Query: 40  PKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLN 99
           P+CA C   +    V   D+ WH E   CT C+ P+A Q+F      PYCV  +  LF +
Sbjct: 16  PRCARCSKTLTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELFAS 75

Query: 100 KC 101
             
Sbjct: 76  GP 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 = 70.1 bits (172), Expect = 3e-16
 Identities = 23/67 (34%), Positives = 33/67 (49%)

Query: 144 GNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEA 203
            +     CYE KF P+C  C K +T+  +   D+ WH  C  C  C+ P++G  F   + 
Sbjct: 2   SSGSSGPCYENKFAPRCARCSKTLTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDE 61

Query: 204 DVVCVEC 210
           D  CV C
Sbjct: 62  DPYCVAC 68

>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 = 84.4 bits (209), Expect = 1e-21
 Identities = 23/82 (28%), Positives = 31/82 (37%), Gaps = 1/82 (1%)

Query: 80  FHVHAGSPYCVEDY-ASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKG 138
                      E   A      C  C   I+   + AL ++WHP+ F C  C   + Y G
Sbjct: 6   SGDQDTLVQRAEHIPAGKRTPMCAHCNQVIRGPFLVALGKSWHPEEFNCAHCKNTMAYIG 65

Query: 139 FYEREGNAFCTACYEGKFCPKC 160
           F E +G  +C  CYE  F    
Sbjct: 66  FVEEKGALYCELCYEKFFASGP 87

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

 Score = 76.7 bits (189), Expect = 1e-18
 Identities = 24/68 (35%), Positives = 32/68 (47%)

Query: 34  AASTMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
            A    P CA C  +I+   + AL K+WHPE F C HC+  +A   F    G+ YC   Y
Sbjct: 20  PAGKRTPMCAHCNQVIRGPFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCY 79

Query: 94  ASLFLNKC 101
              F +  
Sbjct: 80  EKFFASGP 87

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

 Score = 62.5 bits (152), Expect = 3e-13
 Identities = 16/76 (21%), Positives = 27/76 (35%), Gaps = 1/76 (1%)

Query: 139 FYEREGNAFCTACY-EGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPT 197
             +++           GK  P C  C + I    +    + WH   F C  C+  ++   
Sbjct: 6   SGDQDTLVQRAEHIPAGKRTPMCAHCNQVIRGPFLVALGKSWHPEEFNCAHCKNTMAYIG 65

Query: 198 FRVCEADVVCVECSEK 213
           F   +  + C  C EK
Sbjct: 66  FVEEKGALYCELCYEK 81

>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 = 84.0 bits (208), Expect = 2e-21
 Identities = 20/78 (25%), Positives = 29/78 (37%), Gaps = 2/78 (2%)

Query: 85  GSPYCVEDYASLFLNKCQGCRLPIK--DVVVTALNQTWHPDHFVCISCGTKLLYKGFYER 142
            S    +        KC+GC   I   D  V      WH D F C +C   +    F+ +
Sbjct: 2   SSGSSGKCTTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPK 61

Query: 143 EGNAFCTACYEGKFCPKC 160
             + +C  C+E KF    
Sbjct: 62  GEDFYCVTCHETKFASGP 79

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

 Score = 69.7 bits (171), Expect = 5e-16
 Identities = 18/64 (28%), Positives = 26/64 (40%), Gaps = 2/64 (3%)

Query: 40  PKCAACQGLIQNI--IVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLF 97
           PKC  C   I      V+     WH + F C++C+  I T  F       YCV  + + F
Sbjct: 16  PKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKF 75

Query: 98  LNKC 101
            +  
Sbjct: 76  ASGP 79

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

 Score = 66.6 bits (163), Expect = 6e-15
 Identities = 21/72 (29%), Positives = 30/72 (41%), Gaps = 2/72 (2%)

Query: 144 GNAFCTACYEGKFCPKCFGCGKPIT--ETAIKVHDRKWHEACFRCGRCRRPISGPTFRVC 201
            +     C   +  PKC GC K I   +  ++     WH+ CF C  C++ I   +F   
Sbjct: 2   SSGSSGKCTTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPK 61

Query: 202 EADVVCVECSEK 213
             D  CV C E 
Sbjct: 62  GEDFYCVTCHET 73

>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 = 80.1 bits (198), Expect = 4e-20
 Identities = 21/69 (30%), Positives = 29/69 (42%)

Query: 94  ASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYE 153
            S   + C  C   I    +T  +Q WH D FVC++C  KL  + F   E   +C  CY+
Sbjct: 1   GSSGSSGCVKCNKAITSGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYK 60

Query: 154 GKFCPKCFG 162
                   G
Sbjct: 61  NFVSGPSSG 69

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

 Score = 79.0 bits (195), Expect = 1e-19
 Identities = 18/69 (26%), Positives = 27/69 (39%)

Query: 35  ASTMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYA 94
            S+    C  C   I +  +   D+ WH + F C  C   +A Q+F       YCV+ Y 
Sbjct: 1   GSSGSSGCVKCNKAITSGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYK 60

Query: 95  SLFLNKCQG 103
           +       G
Sbjct: 61  NFVSGPSSG 69

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

 Score = 58.6 bits (142), Expect = 5e-12
 Identities = 19/56 (33%), Positives = 24/56 (42%)

Query: 155 KFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
                C  C K IT   I   D+ WH  CF C  C + ++G  F   E    CV+C
Sbjct: 3   SGSSGCVKCNKAITSGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDC 58

>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 = 78.6 bits (194), Expect = 2e-19
 Identities = 19/71 (26%), Positives = 27/71 (38%)

Query: 92  DYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTAC 151
              +  L  C  C   I  V V   ++  HP+ +VC  CGT L  KG +  E   +C   
Sbjct: 9   IGNAQKLPMCDKCGTGIVGVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEKH 68

Query: 152 YEGKFCPKCFG 162
              +      G
Sbjct: 69  ARERVSGPSSG 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 = 71.7 bits (176), Expect = 8e-17
 Identities = 15/74 (20%), Positives = 23/74 (31%)

Query: 30  PPPNAASTMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYC 89
                 +   P C  C   I  + V+  D+  HPE + CT C   +  +         YC
Sbjct: 6   SGSIGNAQKLPMCDKCGTGIVGVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYC 65

Query: 90  VEDYASLFLNKCQG 103
            +           G
Sbjct: 66  EKHARERVSGPSSG 79

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

 Score = 58.2 bits (141), Expect = 1e-11
 Identities = 14/61 (22%), Positives = 22/61 (36%)

Query: 150 ACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVE 209
           +    +  P C  CG  I    +K+ DR  H  C+ C  C   +        E  + C +
Sbjct: 8   SIGNAQKLPMCDKCGTGIVGVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEK 67

Query: 210 C 210
            
Sbjct: 68  H 68

>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 = 78.1 bits (193), Expect = 2e-19
 Identities = 25/63 (39%), Positives = 33/63 (52%)

Query: 94  ASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYE 153
            S+ +  C  CR PI+  VV A+ + WH +HFVC  C    L    YER+G A+C   Y 
Sbjct: 1   GSMGVPICGACRRPIEGRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYN 60

Query: 154 GKF 156
             F
Sbjct: 61  QLF 63

>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 = 76.9 bits (190), Expect = 6e-19
 Identities = 23/63 (36%), Positives = 29/63 (46%)

Query: 35 ASTMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYA 94
           S   P C AC+  I+  +V A+ K WH EHF C  C  P    + +   G  YC   Y 
Sbjct: 1  GSMGVPICGACRRPIEGRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYN 60

Query: 95 SLF 97
           LF
Sbjct: 61 QLF 63

>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 = 58.5 bits (142), Expect = 5e-12
 Identities = 13/57 (22%), Positives = 20/57 (35%)

Query: 154 GKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
               P C  C +PI    +    ++WH   F C +C +P  G      +    C   
Sbjct: 2   SMGVPICGACRRPIEGRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETH 58

>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 = 78.2 bits (193), Expect = 2e-19
 Identities = 20/67 (29%), Positives = 30/67 (44%)

Query: 94  ASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYE 153
            S   + C  C+ PI    VT   Q WH + FVC +C  +L  + F  R+  A+C  C+ 
Sbjct: 1   GSSGSSGCVQCKKPITTGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFC 60

Query: 154 GKFCPKC 160
             +    
Sbjct: 61  DLYASGP 67

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

 Score = 77.8 bits (192), Expect = 3e-19
 Identities = 18/67 (26%), Positives = 29/67 (43%)

Query: 35  ASTMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYA 94
            S+    C  C+  I    V   ++ WH E F CT CR  ++ Q+F       YC+  + 
Sbjct: 1   GSSGSSGCVQCKKPITTGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFC 60

Query: 95  SLFLNKC 101
            L+ +  
Sbjct: 61  DLYASGP 67

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

 Score = 58.9 bits (143), Expect = 4e-12
 Identities = 18/56 (32%), Positives = 26/56 (46%)

Query: 155 KFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
                C  C KPIT   +   ++ WH+ CF C  CR+ +SG  F   +    C+ C
Sbjct: 3   SGSSGCVQCKKPITTGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNC 58

>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 = 78.2 bits (193), Expect = 3e-19
 Identities = 20/77 (25%), Positives = 28/77 (36%), Gaps = 1/77 (1%)

Query: 85  GSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFY-ERE 143
            S    E      L KC  C  PI D ++ A+ + +HP  F C+ C   L    F  +  
Sbjct: 2   SSGSSGEGCYVATLEKCATCSQPILDRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDAT 61

Query: 144 GNAFCTACYEGKFCPKC 160
               C   +  KF    
Sbjct: 62  SQIHCIEDFHRKFASGP 78

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

 Score = 73.6 bits (181), Expect = 2e-17
 Identities = 19/63 (30%), Positives = 29/63 (46%), Gaps = 1/63 (1%)

Query: 40  PKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHV-HAGSPYCVEDYASLFL 98
            KCA C   I + I++A+ K +HP  F C  C   +    F V      +C+ED+   F 
Sbjct: 16  EKCATCSQPILDRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFA 75

Query: 99  NKC 101
           +  
Sbjct: 76  SGP 78

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

 Score = 57.4 bits (139), Expect = 2e-11
 Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 2/61 (3%)

Query: 151 CYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVV-CVE 209
           CY      KC  C +PI +  ++   + +H  CF C  C R + G  F V     + C+E
Sbjct: 10  CYV-ATLEKCATCSQPILDRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIE 68

Query: 210 C 210
            
Sbjct: 69  D 69

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

 Score = 78.3 bits (193), Expect = 4e-19
 Identities = 18/74 (24%), Positives = 27/74 (36%)

Query: 30  PPPNAASTMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYC 89
                ++   P C  C   I   +V+A DK  HPE F C  C + +  + +    G  YC
Sbjct: 16  HGGAGSAQRMPLCDKCGSGIVGAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYC 75

Query: 90  VEDYASLFLNKCQG 103
                +       G
Sbjct: 76  ETHARARTSGPSSG 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 = 77.1 bits (190), Expect = 9e-19
 Identities = 19/63 (30%), Positives = 26/63 (41%)

Query: 100 KCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPK 159
            C  C   I   VV A ++  HP+ FVC  C   L  KG++  EG  +C      +    
Sbjct: 27  LCDKCGSGIVGAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETHARARTSGP 86

Query: 160 CFG 162
             G
Sbjct: 87  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 = 56.0 bits (135), Expect = 7e-11
 Identities = 14/62 (22%), Positives = 21/62 (33%)

Query: 149 TACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCV 208
                 +  P C  CG  I    +K  D+  H  CF C  C   +    +   E ++ C 
Sbjct: 17  GGAGSAQRMPLCDKCGSGIVGAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCE 76

Query: 209 EC 210
             
Sbjct: 77  TH 78

>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 = 77.1 bits (190), Expect = 8e-19
 Identities = 17/78 (21%), Positives = 26/78 (33%), Gaps = 2/78 (2%)

Query: 85  GSPYCVEDYASLFLNKCQGCRLPIK--DVVVTALNQTWHPDHFVCISCGTKLLYKGFYER 142
            S      Y + F N C  C+  I      +   ++ +H   F C  C   L  + F  +
Sbjct: 2   SSGSSGPCYDNTFANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQ 61

Query: 143 EGNAFCTACYEGKFCPKC 160
           +    C  CY   F    
Sbjct: 62  DSELLCNDCYCSAFSSGP 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 = 65.6 bits (160), Expect = 2e-14
 Identities = 20/72 (27%), Positives = 34/72 (47%), Gaps = 2/72 (2%)

Query: 144 GNAFCTACYEGKFCPKCFGCGKPIT--ETAIKVHDRKWHEACFRCGRCRRPISGPTFRVC 201
            +     CY+  F   C  C + I      +   DR +HE CFRC RC+R ++   F   
Sbjct: 2   SSGSSGPCYDNTFANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQ 61

Query: 202 EADVVCVECSEK 213
           +++++C +C   
Sbjct: 62  DSELLCNDCYCS 73

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

 Score = 60.6 bits (147), Expect = 1e-12
 Identities = 18/64 (28%), Positives = 27/64 (42%), Gaps = 2/64 (3%)

Query: 40  PKCAACQGLIQN--IIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLF 97
             CA CQ LI +    +   D+ +H   FRC  C+  +A + F        C + Y S F
Sbjct: 16  NTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELLCNDCYCSAF 75

Query: 98  LNKC 101
            +  
Sbjct: 76  SSGP 79

>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 = 76.4 bits (188), Expect = 1e-18
 Identities = 21/74 (28%), Positives = 28/74 (37%), Gaps = 5/74 (6%)

Query: 85  GSPYCVEDYASLFLNKCQGCRLPIK-----DVVVTALNQTWHPDHFVCISCGTKLLYKGF 139
            S    + Y +    KC GC+ PI        VV    Q+WH   F C  C   L  K F
Sbjct: 2   SSGSSGDCYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRF 61

Query: 140 YEREGNAFCTACYE 153
              +   +C  C +
Sbjct: 62  VFHQEQVYCPDCAK 75

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

 Score = 69.0 bits (169), Expect = 8e-16
 Identities = 20/75 (26%), Positives = 33/75 (44%), Gaps = 5/75 (6%)

Query: 144 GNAFCTACYEGKFCPKCFGCGKPIT-----ETAIKVHDRKWHEACFRCGRCRRPISGPTF 198
            +     CY+     KC GC  PIT      + +    + WH+ CF C +C   ++   F
Sbjct: 2   SSGSSGDCYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRF 61

Query: 199 RVCEADVVCVECSEK 213
              +  V C +C++K
Sbjct: 62  VFHQEQVYCPDCAKK 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 = 58.3 bits (141), Expect = 8e-12
 Identities = 17/62 (27%), Positives = 26/62 (41%), Gaps = 5/62 (8%)

Query: 40 PKCAACQGLIQNI-----IVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYA 94
           KCA C+  I        +V    ++WH   F C  C + +A ++F  H    YC +   
Sbjct: 16 KKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYCPDCAK 75

Query: 95 SL 96
           L
Sbjct: 76 KL 77

>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 = 76.2 bits (187), Expect = 5e-18
 Identities = 24/123 (19%), Positives = 39/123 (31%), Gaps = 16/123 (13%)

Query: 35  ASTMYPKCAACQGLIQN-IIVQALDKTWHPEHFRCTHCRIPIA--TQKFHVHAGSPYCVE 91
            S  + +CA C G I +  ++ A+D  WH    +C+ C+  +       +  +G   C  
Sbjct: 1   GSLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRN 60

Query: 92  DYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKG-FYEREGNAFCTA 150
           DY  LF N   G                        +  G   L  G F + +       
Sbjct: 61  DYIRLFGNSGAGGSGGH------------MGSGGDVMVVGEPTLMGGEFGDEDERLITRL 108

Query: 151 CYE 153
              
Sbjct: 109 ENT 111

>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 = 73.5 bits (180), Expect = 5e-17
 Identities = 24/123 (19%), Positives = 37/123 (30%), Gaps = 14/123 (11%)

Query: 94  ASLFLNKCQGCRLPIKD-VVVTALNQTWHPDHFVCISCGTKLLYKG--FYEREGNAFCTA 150
            SL   +C GC   I D  ++ A++  WH     C SC  +L   G   Y + G   C  
Sbjct: 1   GSLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRN 60

Query: 151 CYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
            Y   F     G       +                G       G  F   +  ++    
Sbjct: 61  DYIRLFGNSGAGGSGGHMGS---------GGDVMVVGEPTLM--GGEFGDEDERLITRLE 109

Query: 211 SEK 213
           + +
Sbjct: 110 NTQ 112

>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 = 73.2 bits (180), Expect = 2e-17
 Identities = 18/67 (26%), Positives = 30/67 (44%)

Query: 35  ASTMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYA 94
            S+    C  C   I   +++A++ +WHPE FRC  C+  +A   F  +AG   C   + 
Sbjct: 1   GSSGSSGCHQCGEFIIGRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHN 60

Query: 95  SLFLNKC 101
               +  
Sbjct: 61  REKASGP 67

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

 Score = 70.9 bits (174), Expect = 1e-16
 Identities = 20/69 (28%), Positives = 28/69 (40%), Gaps = 2/69 (2%)

Query: 94  ASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYE 153
            S   + C  C   I   V+ A+N +WHP+ F C  C   L   GF +  G   C  C+ 
Sbjct: 1   GSSGSSGCHQCGEFIIGRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHN 60

Query: 154 GKF--CPKC 160
            +    P  
Sbjct: 61  REKASGPSS 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 = 57.1 bits (138), Expect = 2e-11
 Identities = 16/56 (28%), Positives = 23/56 (41%)

Query: 158 PKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSEK 213
             C  CG+ I    IK  +  WH  CFRC  C+  ++   F       +C  C  +
Sbjct: 6   SGCHQCGEFIIGRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNR 61

>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 = 72.5 bits (178), Expect = 3e-17
 Identities = 18/71 (25%), Positives = 27/71 (38%), Gaps = 4/71 (5%)

Query: 94  ASLFLNKCQGCRLPIKDV----VVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCT 149
            S   + C GC  PI  +     ++   + WH D F C  C   L+ +GF     +  C 
Sbjct: 1   GSSGSSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCP 60

Query: 150 ACYEGKFCPKC 160
            C +    P  
Sbjct: 61  DCGKDISGPSS 71

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

 Score = 61.4 bits (149), Expect = 5e-13
 Identities = 13/67 (19%), Positives = 23/67 (34%), Gaps = 4/67 (5%)

Query: 35 ASTMYPKCAACQ----GLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCV 90
           S+    CA C     GL     +   ++ WH + F C  C + +  + F        C 
Sbjct: 1  GSSGSSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCP 60

Query: 91 EDYASLF 97
          +    + 
Sbjct: 61 DCGKDIS 67

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

 Score = 57.1 bits (138), Expect = 2e-11
 Identities = 18/63 (28%), Positives = 27/63 (42%), Gaps = 4/63 (6%)

Query: 155 KFCPKCFGCGKPIT----ETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
                C GC  PI+       I   +R+WH  CF C +C   + G  F     D++C +C
Sbjct: 3   SGSSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDC 62

Query: 211 SEK 213
            + 
Sbjct: 63  GKD 65

>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 = 72.0 bits (177), Expect = 5e-17
 Identities = 18/69 (26%), Positives = 31/69 (44%), Gaps = 2/69 (2%)

Query: 35  ASTMYPKCAACQGLIQNI--IVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVED 92
            S+    C+AC   +      ++   +TWH   F C+ C  P+ ++ F    G+ YCV  
Sbjct: 1   GSSGSSGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPC 60

Query: 93  YASLFLNKC 101
           Y + F +  
Sbjct: 61  YENKFASGP 69

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

 Score = 70.9 bits (174), Expect = 1e-16
 Identities = 19/69 (27%), Positives = 26/69 (37%), Gaps = 2/69 (2%)

Query: 94  ASLFLNKCQGCRLPIK--DVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTAC 151
            S   + C  C   +      +    QTWH   F+C  C   L  + F   +G  +C  C
Sbjct: 1   GSSGSSGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPC 60

Query: 152 YEGKFCPKC 160
           YE KF    
Sbjct: 61  YENKFASGP 69

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

 Score = 56.2 bits (136), Expect = 4e-11
 Identities = 16/61 (26%), Positives = 25/61 (40%), Gaps = 2/61 (3%)

Query: 155 KFCPKCFGCGKPIT--ETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSE 212
                C  CG+ +      ++   + WHE CF C  C +P+   +F   +    CV C E
Sbjct: 3   SGSSGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYE 62

Query: 213 K 213
            
Sbjct: 63  N 63

>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 = 71.7 bits (176), Expect = 5e-17
 Identities = 17/72 (23%), Positives = 25/72 (34%), Gaps = 3/72 (4%)

Query: 35  ASTMYPKCAACQGLI--QNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVED 92
            S+    C  C   +      V ALD+ +H   F C+ CR  +  Q F+      YC   
Sbjct: 1   GSSGSSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGC 60

Query: 93  YASLFLNKCQGC 104
           Y +         
Sbjct: 61  YVATL-ESGPSS 71

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

 Score = 70.2 bits (172), Expect = 2e-16
 Identities = 21/73 (28%), Positives = 30/73 (41%), Gaps = 3/73 (4%)

Query: 94  ASLFLNKCQGCRLPI--KDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTAC 151
            S   + C GC   +      V AL++ +H   FVC +C  +L  + FY  E  A+C  C
Sbjct: 1   GSSGSSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGC 60

Query: 152 YEGKFCPKCFGCG 164
           Y           G
Sbjct: 61  YVATLE-SGPSSG 72

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

 Score = 51.7 bits (124), Expect = 2e-09
 Identities = 17/55 (30%), Positives = 22/55 (40%), Gaps = 2/55 (3%)

Query: 158 PKCFGCGKPIT--ETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
             C GCG+ +      +   DR +H  CF C  CR  + G  F   E    C  C
Sbjct: 6   SGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGC 60

>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 = 71.7 bits (176), Expect = 8e-17
 Identities = 19/80 (23%), Positives = 29/80 (36%), Gaps = 2/80 (2%)

Query: 85  GSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFY--ER 142
            S    +DY   F   C GC L +    + A    +HP+ F C+SC   +     Y   +
Sbjct: 2   SSGSSGKDYWGKFGEFCHGCSLLMTGPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQ 61

Query: 143 EGNAFCTACYEGKFCPKCFG 162
               +C  C+         G
Sbjct: 62  HATLYCGKCHNEVVSGPSSG 81

>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 = 62.1 bits (151), Expect = 3e-13
 Identities = 15/66 (22%), Positives = 25/66 (37%), Gaps = 2/66 (3%)

Query: 40  PKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQK--FHVHAGSPYCVEDYASLF 97
             C  C  L+    + A +  +HPE F C  C++ I        V   + YC + +  + 
Sbjct: 16  EFCHGCSLLMTGPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVV 75

Query: 98  LNKCQG 103
                G
Sbjct: 76  SGPSSG 81

>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 = 62.1 bits (151), Expect = 3e-13
 Identities = 19/72 (26%), Positives = 28/72 (38%), Gaps = 2/72 (2%)

Query: 144 GNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPIS--GPTFRVC 201
            +      Y GKF   C GC   +T   +   + K+H  CF C  C+  I        V 
Sbjct: 2   SSGSSGKDYWGKFGEFCHGCSLLMTGPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQ 61

Query: 202 EADVVCVECSEK 213
            A + C +C  +
Sbjct: 62  HATLYCGKCHNE 73

>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 = 71.3 bits (175), Expect = 9e-17
 Identities = 17/69 (24%), Positives = 26/69 (37%), Gaps = 2/69 (2%)

Query: 94  ASLFLNKCQGCRLPIK--DVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTAC 151
            S   + CQ C+  I      +     +WH   F+C  C   +  K F  ++   FC  C
Sbjct: 1   GSSGSSGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPC 60

Query: 152 YEGKFCPKC 160
           YE +     
Sbjct: 61  YEKQHASGP 69

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

 Score = 70.5 bits (173), Expect = 2e-16
 Identities = 16/69 (23%), Positives = 25/69 (36%), Gaps = 2/69 (2%)

Query: 35  ASTMYPKCAACQGLIQNI--IVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVED 92
            S+    C  C+  I      ++    +WH   F C  C+ PI T+ F       +CV  
Sbjct: 1   GSSGSSGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPC 60

Query: 93  YASLFLNKC 101
           Y     +  
Sbjct: 61  YEKQHASGP 69

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

 Score = 56.6 bits (137), Expect = 3e-11
 Identities = 20/61 (32%), Positives = 26/61 (42%), Gaps = 2/61 (3%)

Query: 155 KFCPKCFGCGKPIT--ETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSE 212
                C  C K I      ++     WHE CF C RC++PI   +F   +    CV C E
Sbjct: 3   SGSSGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYE 62

Query: 213 K 213
           K
Sbjct: 63  K 63

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

 Score = 67.4 bits (165), Expect = 3e-15
 Identities = 17/70 (24%), Positives = 28/70 (40%), Gaps = 2/70 (2%)

Query: 93  YASLFLNKCQGCRLPIKDV--VVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTA 150
             +L    C+ C+        +V +  + +H   FVC  C  +     FYE EG  +C  
Sbjct: 6   ANALASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEH 65

Query: 151 CYEGKFCPKC 160
            ++  F P  
Sbjct: 66  DFQMLFAPCW 75

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

 Score = 67.4 bits (165), Expect = 3e-15
 Identities = 16/60 (26%), Positives = 23/60 (38%), Gaps = 2/60 (3%)

Query: 40 PKCAACQGLIQNI--IVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLF 97
            C  C+G       IV +  + +H + F C  C        F+   G  YC  D+  LF
Sbjct: 12 ATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 71

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

 Score = 56.3 bits (136), Expect = 5e-11
 Identities = 12/65 (18%), Positives = 17/65 (26%), Gaps = 2/65 (3%)

Query: 148 CTACYEGKFCPKCFGCGKPI--TETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADV 205
                       C  C       E  +  +   +HE CF C +C +      F   E   
Sbjct: 2   SEFMANALASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRK 61

Query: 206 VCVEC 210
            C   
Sbjct: 62  YCEHD 66

>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 = 67.5 bits (165), Expect = 3e-15
 Identities = 20/63 (31%), Positives = 26/63 (41%), Gaps = 1/63 (1%)

Query: 92  DYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFY-EREGNAFCTA 150
           DY  L+  +C  C   I+  VV+AL +T+HPD FVC  C                  C  
Sbjct: 9   DYQRLYGTRCFSCDQFIEGEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQK 68

Query: 151 CYE 153
           C  
Sbjct: 69  CSL 71

>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 = 63.3 bits (154), Expect = 1e-13
 Identities = 17/69 (24%), Positives = 27/69 (39%), Gaps = 1/69 (1%)

Query: 151 CYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPI-SGPTFRVCEADVVCVE 209
            Y+  +  +CF C + I    +    + +H  CF C  CR P   G        + +C +
Sbjct: 9   DYQRLYGTRCFSCDQFIEGEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQK 68

Query: 210 CSEKGREEG 218
           CS      G
Sbjct: 69  CSLPVSVSG 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 = 57.9 bits (140), Expect = 1e-11
 Identities = 21/71 (29%), Positives = 29/71 (40%), Gaps = 11/71 (15%)

Query: 40  PKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLN 99
            +C +C   I+  +V AL KT+HP+ F C  CR+P          G              
Sbjct: 16  TRCFSCDQFIEGEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECM---------- 65

Query: 100 KCQGCRLPIKD 110
            CQ C LP+  
Sbjct: 66  -CQKCSLPVSV 75

>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 = 67.4 bits (165), Expect = 3e-15
 Identities = 16/60 (26%), Positives = 23/60 (38%), Gaps = 2/60 (3%)

Query: 40 PKCAACQGLIQNI--IVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLF 97
            C  C+G       IV +  + +H + F C  C        F+   G  YC  D+  LF
Sbjct: 12 ATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 71

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

 Score = 64.3 bits (157), Expect = 3e-14
 Identities = 15/67 (22%), Positives = 26/67 (38%), Gaps = 2/67 (2%)

Query: 92  DYASLFLNKCQGCRLPIKDV--VVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCT 149
            +       C+ C+        +V +  + +H   FVC  C  +     FYE EG  +C 
Sbjct: 5   YFQGSASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCE 64

Query: 150 ACYEGKF 156
             ++  F
Sbjct: 65  HDFQMLF 71

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

 Score = 55.1 bits (133), Expect = 9e-11
 Identities = 13/62 (20%), Positives = 20/62 (32%), Gaps = 2/62 (3%)

Query: 151 CYEGKFCPKCFGCGKPIT--ETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCV 208
            ++G     C  C       E  +  +   +HE CF C +C +      F   E    C 
Sbjct: 5   YFQGSASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCE 64

Query: 209 EC 210
             
Sbjct: 65  HD 66

>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 = 68.5 bits (167), Expect = 3e-15
 Identities = 17/111 (15%), Positives = 35/111 (31%), Gaps = 7/111 (6%)

Query: 40  PKCAACQGLIQ-NIIVQALDKTWHPEHFRCTHCRIPIAT--QKFHVHAGSPYCVEDYASL 96
             C  CQ  I     ++A+D+ WH +   C  C   +    ++ +   G   C  DY  L
Sbjct: 4   LTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRL 63

Query: 97  FLNKCQGCR----LPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYERE 143
             +          + + +  +         +  +     T+       + E
Sbjct: 64  GGSGGHMGSGGDVMVVGEPTLMGGEFGDEDERLITRLENTQFDAANGIDDE 114

>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 = 66.6 bits (162), Expect = 2e-14
 Identities = 21/108 (19%), Positives = 31/108 (28%), Gaps = 7/108 (6%)

Query: 98  LNKCQGCRLPIKD-VVVTALNQTWHPDHFVCISCGTKLLYKG--FYEREGNAFCTACYEG 154
           L  C GC+  I D   + A++Q WH D   C  CG +L   G   Y + G   C   Y  
Sbjct: 3   LLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLR 62

Query: 155 KFCPKCFGCGK----PITETAIKVHDRKWHEACFRCGRCRRPISGPTF 198
                           + E  +   +    +                 
Sbjct: 63  LGGSGGHMGSGGDVMVVGEPTLMGGEFGDEDERLITRLENTQFDAANG 110

>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 = 46.6 bits (110), Expect = 4e-07
 Identities = 14/56 (25%), Positives = 20/56 (35%), Gaps = 3/56 (5%)

Query: 158 PKCFGCGKPITE-TAIKVHDRKWHEACFRCGRCRRPIS--GPTFRVCEADVVCVEC 210
             C GC + I +   +K  D+ WHE C  C  C   +   G          +C   
Sbjct: 4   LTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRD 59

>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 = 67.1 bits (164), Expect = 5e-15
 Identities = 21/63 (33%), Positives = 32/63 (50%), Gaps = 2/63 (3%)

Query: 40  PKCAACQGLIQN-IIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFL 98
             CA C+  I++   + ALDK WH   F+C  C + + T ++    G PYC  DY + F 
Sbjct: 16  SHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVIL-TGEYISKDGVPYCESDYHAQFG 74

Query: 99  NKC 101
           +  
Sbjct: 75  SGP 77

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

 Score = 65.5 bits (160), Expect = 2e-14
 Identities = 17/70 (24%), Positives = 30/70 (42%), Gaps = 2/70 (2%)

Query: 92  DYASLFLNKCQGCRLPIKD-VVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTA 150
                  + C GC+  IK    + AL++ WH   F C +C   +L   +  ++G  +C +
Sbjct: 9   PIKIRGPSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCS-VILTGEYISKDGVPYCES 67

Query: 151 CYEGKFCPKC 160
            Y  +F    
Sbjct: 68  DYHAQFGSGP 77

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

 Score = 50.9 bits (122), Expect = 5e-09
 Identities = 12/49 (24%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 151 CYEGKFCPKCFGCGKPITET-AIKVHDRKWHEACFRCGRCRRPISGPTF 198
             + +    C GC + I    ++   D++WH +CF+C  C   ++G   
Sbjct: 9   PIKIRGPSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTGEYI 57

>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 = 65.1 bits (159), Expect = 2e-14
 Identities = 18/68 (26%), Positives = 30/68 (44%), Gaps = 1/68 (1%)

Query: 99  NKCQGCRLPIKDV-VVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFC 157
           NKC  C   +     V    +++H   F+C+ C   L        +   +C +CY  K+ 
Sbjct: 8   NKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYG 67

Query: 158 PKCFGCGK 165
           PK +G G+
Sbjct: 68  PKGYGYGQ 75

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

 Score = 61.3 bits (149), Expect = 7e-13
 Identities = 17/66 (25%), Positives = 25/66 (37%), Gaps = 1/66 (1%)

Query: 40  PKCAACQGLI-QNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFL 98
            KC AC   +     VQ   +++H   F C  CR  + +    +H    YC   Y   + 
Sbjct: 8   NKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYG 67

Query: 99  NKCQGC 104
            K  G 
Sbjct: 68  PKGYGY 73

>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 = 46.2 bits (110), Expect = 2e-07
 Identities = 16/54 (29%), Positives = 26/54 (48%), Gaps = 1/54 (1%)

Query: 158 PKCFGCGKPITET-AIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
            KC  CG+ +     ++   R +H  CF C  CR+ +   T  + +A+V C  C
Sbjct: 8   NKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSC 61

>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 = 64.9 bits (158), Expect = 2e-14
 Identities = 18/64 (28%), Positives = 25/64 (39%), Gaps = 4/64 (6%)

Query: 95  SLFLNKCQGCRLPIKDV----VVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTA 150
           S   + C  C  PI  +     +   +  WH + F C  C   L+ KGF  +    FC  
Sbjct: 2   SSGSSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQK 61

Query: 151 CYEG 154
           C  G
Sbjct: 62  CGSG 65

>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 = 58.7 bits (142), Expect = 5e-12
 Identities = 18/63 (28%), Positives = 25/63 (39%), Gaps = 4/63 (6%)

Query: 155 KFCPKCFGCGKPITETA----IKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVEC 210
                C  C KPI+       I   D +WH  CF CG+C   + G  F     ++ C +C
Sbjct: 3   SGSSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKC 62

Query: 211 SEK 213
              
Sbjct: 63  GSG 65

>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 = 56.4 bits (136), Expect = 4e-11
 Identities = 14/62 (22%), Positives = 22/62 (35%), Gaps = 4/62 (6%)

Query: 40 PKCAACQ----GLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYAS 95
            C AC     GL     +   D  WH E F C  C + +  + F       +C +  + 
Sbjct: 6  SGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCGSG 65

Query: 96 LF 97
          + 
Sbjct: 66 MD 67

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

 Score = 63.9 bits (156), Expect = 6e-14
 Identities = 26/73 (35%), Positives = 31/73 (42%), Gaps = 2/73 (2%)

Query: 100 KCQGCRLPIKDV-VVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFC-TACYEGKFC 157
           KC  C   +     VT+L + WH     C  CG  L   G  E EG  +C   CY   F 
Sbjct: 2   KCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFG 61

Query: 158 PKCFGCGKPITET 170
           PK FG G   + T
Sbjct: 62  PKGFGRGGAESHT 74

>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 = 62.4 bits (152), Expect = 2e-13
 Identities = 20/67 (29%), Positives = 28/67 (41%), Gaps = 2/67 (2%)

Query: 40  PKCAACQGLIQNI-IVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVED-YASLF 97
           PKC  C   +     V +L K WH    +C  C   + +     H G PYC    Y+++F
Sbjct: 1   PKCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMF 60

Query: 98  LNKCQGC 104
             K  G 
Sbjct: 61  GPKGFGR 67

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

 Score = 44.6 bits (106), Expect = 7e-07
 Identities = 12/51 (23%), Positives = 20/51 (39%), Gaps = 1/51 (1%)

Query: 158 PKCFGCGKPITET-AIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVC 207
           PKC  C K +     +    + WH  C +C +C + ++       E    C
Sbjct: 1   PKCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYC 51

>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 = 64.0 bits (155), Expect = 2e-13
 Identities = 17/77 (22%), Positives = 30/77 (38%), Gaps = 3/77 (3%)

Query: 24  VSEALDPPPNAASTMYPKCAACQGLIQN-IIVQALDKTWHPEHFRCTHCRIPIA--TQKF 80
                     +    + +CA C G I +  ++ A+D  WH    +C+ C+  +       
Sbjct: 46  GGGGSGGHMGSGGLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSS 105

Query: 81  HVHAGSPYCVEDYASLF 97
           +  +G   C  DY  LF
Sbjct: 106 YTKSGMILCRNDYIRLF 122

>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 = 62.4 bits (151), Expect = 7e-13
 Identities = 20/97 (20%), Positives = 31/97 (31%), Gaps = 3/97 (3%)

Query: 63  PEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKD-VVVTALNQTWH 121
            ++             +  +  G          L   +C GC   I D  ++ A++  WH
Sbjct: 26  SQYKMDVTVIDTKDGSQSKLGGGGSGGHMGSGGLSWKRCAGCGGKIADRFLLYAMDSYWH 85

Query: 122 PDHFVCISCGTKLLYKGF--YEREGNAFCTACYEGKF 156
                C SC  +L   G   Y + G   C   Y   F
Sbjct: 86  SRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLF 122

>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 = 50.1 bits (119), Expect = 3e-08
 Identities = 13/79 (16%), Positives = 24/79 (30%), Gaps = 1/79 (1%)

Query: 122 PDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITE-TAIKVHDRKWH 180
             + + ++              G +       G    +C GCG  I +   +   D  WH
Sbjct: 26  SQYKMDVTVIDTKDGSQSKLGGGGSGGHMGSGGLSWKRCAGCGGKIADRFLLYAMDSYWH 85

Query: 181 EACFRCGRCRRPISGPTFR 199
             C +C  C+  +      
Sbjct: 86  SRCLKCSSCQAQLGDIGTS 104

>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 = 61.0 bits (148), Expect = 9e-13
 Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 1/60 (1%)

Query: 101 CQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKC 160
           CQ C   I +  +   N  +HPDHF C +CG +L      E +G  +C  C++       
Sbjct: 18  CQKCHAIIDEQPLIFKNDPYHPDHFNCANCGKELTADAR-ELKGELYCLPCHDKMGVSGP 76

>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 = 58.3 bits (141), Expect = 9e-12
 Identities = 14/68 (20%), Positives = 26/68 (38%), Gaps = 1/68 (1%)

Query: 34  AASTMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDY 93
           A       C  C  +I    +   +  +HP+HF C +C   + T       G  YC+  +
Sbjct: 10  ARGLGKYICQKCHAIIDEQPLIFKNDPYHPDHFNCANCGKEL-TADARELKGELYCLPCH 68

Query: 94  ASLFLNKC 101
             + ++  
Sbjct: 69  DKMGVSGP 76

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

 Score = 44.8 bits (106), Expect = 7e-07
 Identities = 13/66 (19%), Positives = 23/66 (34%), Gaps = 1/66 (1%)

Query: 148 CTACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVC 207
                 G     C  C   I E  +   +  +H   F C  C + +     R  + ++ C
Sbjct: 6   SGEKARGLGKYICQKCHAIIDEQPLIFKNDPYHPDHFNCANCGKEL-TADARELKGELYC 64

Query: 208 VECSEK 213
           + C +K
Sbjct: 65  LPCHDK 70

>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 = 59.7 bits (145), Expect = 2e-12
 Identities = 20/72 (27%), Positives = 30/72 (41%), Gaps = 2/72 (2%)

Query: 33  NAASTMYPKCAACQGLIQNI-IVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVE 91
           + +S M  KC  C   +     V +L K WH    +C  C   +       H G P+C +
Sbjct: 3   SGSSGMASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHK 62

Query: 92  D-YASLFLNKCQ 102
             YA+LF +   
Sbjct: 63  PCYATLFGSGPS 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 = 51.2 bits (123), Expect = 3e-09
 Identities = 18/63 (28%), Positives = 23/63 (36%), Gaps = 2/63 (3%)

Query: 100 KCQGCRLPIKDV-VVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCT-ACYEGKFC 157
           KC  C   +     V++L + WH     C  C   L   G  E +G  FC   CY   F 
Sbjct: 11  KCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFG 70

Query: 158 PKC 160
              
Sbjct: 71  SGP 73

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

 Score = 43.2 bits (102), Expect = 3e-06
 Identities = 11/51 (21%), Positives = 20/51 (39%), Gaps = 1/51 (1%)

Query: 158 PKCFGCGKPITET-AIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVC 207
            KC  C K +     +    + WH+ C +C RC + ++       +    C
Sbjct: 10  SKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFC 60

>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 = 55.2 bits (133), Expect = 2e-10
 Identities = 15/67 (22%), Positives = 27/67 (40%), Gaps = 1/67 (1%)

Query: 40  PKCAACQGLIQNI-IVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFL 98
             C  CQ  +  +  + A  + +H   FRC++C   ++   +    G  YC   +  LF 
Sbjct: 16  ETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFK 75

Query: 99  NKCQGCR 105
           +K     
Sbjct: 76  SKGNYDE 82

>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 = 54.1 bits (130), Expect = 4e-10
 Identities = 14/66 (21%), Positives = 22/66 (33%), Gaps = 1/66 (1%)

Query: 100 KCQGCRLPIKDV-VVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCP 158
            C  C+  +  +  + A  Q +H   F C  C  KL    +    G  +C   +   F  
Sbjct: 17  TCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKS 76

Query: 159 KCFGCG 164
           K     
Sbjct: 77  KGNYDE 82

>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 = 2e-06
 Identities = 12/57 (21%), Positives = 22/57 (38%), Gaps = 1/57 (1%)

Query: 158 PKCFGCGKPITET-AIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSEK 213
             C  C K +     +  + + +H +CFRC  C   +S  T+      + C     +
Sbjct: 16  ETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQ 72

>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 = 47.4 bits (112), Expect = 7e-08
 Identities = 15/67 (22%), Positives = 27/67 (40%), Gaps = 1/67 (1%)

Query: 158 PKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPI-SGPTFRVCEADVVCVECSEKGRE 216
             C  C K IT   ++  ++ +H +C  C RC +    G    +  + +    C +  R 
Sbjct: 6   SGCDSCEKYITGRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWHPACRQAART 65

Query: 217 EGKNDTS 223
           E    +S
Sbjct: 66  EDSGPSS 72

>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 = 47.4 bits (112), Expect = 9e-08
 Identities = 12/56 (21%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 35 ASTMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIAT-QKFHVHAGSPYC 89
           S+    C +C+  I   +++A +K +HP    C  C    A  ++ ++   S + 
Sbjct: 1  GSSGSSGCDSCEKYITGRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWH 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 = 44.3 bits (104), Expect = 1e-06
 Identities = 14/63 (22%), Positives = 24/63 (38%), Gaps = 1/63 (1%)

Query: 94  ASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYK-GFYEREGNAFCTACY 152
            S   + C  C   I   V+ A  + +HP   +C+ CG         Y +  + +  AC 
Sbjct: 1   GSSGSSGCDSCEKYITGRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWHPACR 60

Query: 153 EGK 155
           +  
Sbjct: 61  QAA 63

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

 Score = 39.5 bits (92), Expect = 5e-05
 Identities = 20/61 (32%), Positives = 24/61 (39%), Gaps = 5/61 (8%)

Query: 97  FLNKCQGCRLPIK--DVVVTALNQTWHPDH--FVCISCGTKLLYKGFYEREGNAFC-TAC 151
               CQGC   I      VT  N +WH     F+C  C   L+ + F   EG  FC   C
Sbjct: 1   HAVVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVEC 60

Query: 152 Y 152
            
Sbjct: 61  K 61

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

 Score = 38.7 bits (90), Expect = 8e-05
 Identities = 18/63 (28%), Positives = 25/63 (39%), Gaps = 5/63 (7%)

Query: 156 FCPKCFGCGKPI--TETAIKVHDRKWH--EACFRCGRCRRPISGPTFRVCEADVVC-VEC 210
               C GC   I      +  ++  WH    CF C  C + + G  F   E  V C VEC
Sbjct: 1   HAVVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVEC 60

Query: 211 SEK 213
            ++
Sbjct: 61  KKR 63

>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 = 39.9 bits (93), Expect = 5e-05
 Identities = 12/61 (19%), Positives = 20/61 (32%), Gaps = 3/61 (4%)

Query: 40 PKCAACQGLIQNI-IVQALDKTWHPEHFRCTHCRIPIA--TQKFHVHAGSPYCVEDYASL 96
            CA C   +  +  +      +H   FRC  C   +     + H   G  YC++     
Sbjct: 16 DLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQT 75

Query: 97 F 97
           
Sbjct: 76 D 76

>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 = 11/48 (22%), Positives = 19/48 (39%), Gaps = 1/48 (2%)

Query: 158 PKCFGCGKPITET-AIKVHDRKWHEACFRCGRCRRPISGPTFRVCEAD 204
             C  CG+ +     + V+   +H +CFRC  C   +    +     D
Sbjct: 16  DLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGD 63

>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 = 37.2 bits (86), Expect = 4e-04
 Identities = 10/57 (17%), Positives = 21/57 (36%), Gaps = 3/57 (5%)

Query: 99  NKCQGCRLPIKDV-VVTALNQTWHPDHFVCISCGTKLLYKGF--YEREGNAFCTACY 152
           + C  C   +  +  +      +H   F C +C   L   G+  +  +G+ +C    
Sbjct: 16  DLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHL 72

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	233
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.96
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.95
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.95
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.95
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.95
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.95
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.95
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.94
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.93
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.93
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.93
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.93
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.91
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.91
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.85
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.85
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.8
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	99.79
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.79
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	99.79
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.79
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.78
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.77
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.76
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.75
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.74
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.74
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.73
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.73
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.72
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	99.7
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.7
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.69
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.67
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	99.67
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	99.65
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	99.65
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.64
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	99.64
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.63
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	99.63
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	99.63
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.63
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	99.63
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	99.62
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.61
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.61
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	99.61
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	99.61
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	99.6
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	99.6
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	99.6
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.59
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	99.59
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	99.59
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	99.58
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.58
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	99.57
2cor_A	79	Pinch protein; LIM domain, particularly interestin	99.57
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	99.56
2co8_A	82	NEDD9 interacting protein with calponin homology a	99.56
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	99.56
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	99.55
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	99.55
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.55
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	99.55
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	99.54
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.54
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	99.53
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	99.51
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	99.51
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	99.5
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	99.5
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	99.5
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	99.49
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	99.49
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	99.49
2cor_A	79	Pinch protein; LIM domain, particularly interestin	99.47
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	99.45
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	99.43
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	99.41
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	99.4
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	99.4
2co8_A	82	NEDD9 interacting protein with calponin homology a	99.31
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	97.75
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	97.36
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	92.22
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	90.21

>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=99.96  E-value=1.1e-29  Score=203.51  Aligned_cols=131  Identities=27%  Similarity=0.619  Sum_probs=120.5

Q ss_pred             CCCCcccccccccc-ccEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCC---------------
Q psy11756         37 TMYPKCAACQGLIQ-NIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNK---------------  100 (233)
Q Consensus        37 ~~~~~C~~C~~~I~-~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~---------------  100 (233)
                      ...++|.+|+++|. ++.|.++|+.||+.||+|..|+++|.+..|+.++|++||+.||.++++++               
T Consensus         5 ~~~~~C~~C~~~I~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~f~~~c~~c~~~~g~~~~~~   84 (192)
T 1b8t_A            5 GGGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTDK   84 (192)
T ss_dssp             CCCEECTTTCCEECSSCCEEETTEEECTTTCBCTTTCCBCCSSSEEEETTEEEEHHHHHHHHSCCCCCCCCCCCCCCCCC
T ss_pred             CCCCcCccCCCeecceeEEEeCCceecCCCCcCcccCCcCCCCeeEecCCEeeChhhhHhhcCccccccccccccEecCC
Confidence            34579999999997 57888999999999999999999999988999999999999999998776               


Q ss_pred             ---------------------------------CCCCCccccc-cEEecCCCeeecCCCCCCCCCcccccCceeccCCce
Q psy11756        101 ---------------------------------CQGCRLPIKD-VVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNA  146 (233)
Q Consensus       101 ---------------------------------C~~C~~~i~~-~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~  146 (233)
                                                       |.+|+++|.+ ..|.+.++.||++||+|..|+++|.+..|+..+|++
T Consensus        85 ~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~  164 (192)
T 1b8t_A           85 GESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEI  164 (192)
T ss_dssp             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEECTTTSCEECSSSCEEETTEEECTTTCBCTTTCCBCCSSSEEEETTEE
T ss_pred             CcccccccccccccCCCCcCccccccccCCCCcCCCCCCEecCcEEEecCCCccchhcCCccccCCCCCCCcccccCCEE
Confidence                                             7789999974 577899999999999999999999877899999999


Q ss_pred             echhhhhhccCCCCCCCCCCc
Q psy11756        147 FCTACYEGKFCPKCFGCGKPI  167 (233)
Q Consensus       147 ~C~~c~~~~~~~~C~~C~~~I  167 (233)
                      ||..||.++++++|.+|++++
T Consensus       165 yC~~cy~~~f~~kc~~C~~~~  185 (192)
T 1b8t_A          165 YCKGCYAKNFGPKGFGFGQGA  185 (192)
T ss_dssp             EEHHHHHHHTCCCCCCCCCCC
T ss_pred             eCHHHHHHhcCCcCCCCCCcc
Confidence            999999999999999999885

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

Probab=99.95  E-value=1.2e-28  Score=184.57  Aligned_cols=117  Identities=28%  Similarity=0.618  Sum_probs=109.0

Q ss_pred             cCCCCCCCCccccc-cEEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCCCCCCCcc--ccEEE
Q psy11756         97 FLNKCQGCRLPIKD-VVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPIT--ETAIK  173 (233)
Q Consensus        97 ~~~~C~~C~~~i~~-~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~~C~~~I~--~~~i~  173 (233)
                      ++++|.+|+++|.+ .++.++++.||++||+|..|+++|.+..|+..+|++||..||.++++++|.+|+++|.  +..|+
T Consensus         2 ~~~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~I~~~~~~~~   81 (126)
T 2xqn_T            2 EKPRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVVCQGCHNAIDPEVQRVT   81 (126)
T ss_dssp             CCCBBTTTSSBCCSSCEEEETTEEECGGGSBCTTTCCBCTTSEEEEETTEEEEHHHHHHHSCCBCTTTCSBCCTTSCEEE
T ss_pred             cCCCCccCCCEeCCceEEeeCCCCccCCCCCcCCCCCCCCcCEEEeECCEEechHHhCcCcCccCcccCCcCCcCceEEE
Confidence            56899999999985 5889999999999999999999999888999999999999999999999999999998  46799


Q ss_pred             EcCceec--CCCCCcCCCCCCCCCCceEeeCCeeeChhhhhc
Q psy11756        174 VHDRKWH--EACFRCGRCRRPISGPTFRVCEADVVCVECSEK  213 (233)
Q Consensus       174 ~~~~~~H--~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~  213 (233)
                      ++++.||  ++||+|..|+++|.++.|+..+|++||..++.+
T Consensus        82 a~~~~~H~~~~CF~C~~C~~~l~~~~f~~~~~~~yC~~~~~~  123 (126)
T 2xqn_T           82 YNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKK  123 (126)
T ss_dssp             ETTEEEESSTTTSBCTTTCCBCTTSEEEEETTEEESSHHHHH
T ss_pred             CCCCEeeCCCCCcCcCCCCCccCCCeeEeECCEEcchHHhhh
Confidence            9999999  999999999999999999999999999966654

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

Probab=99.95  E-value=7.1e-29  Score=185.78  Aligned_cols=118  Identities=31%  Similarity=0.640  Sum_probs=110.5

Q ss_pred             CCccccccccccc-cEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCCCCCCcccc--ccEEec
Q psy11756         39 YPKCAACQGLIQN-IIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIK--DVVVTA  115 (233)
Q Consensus        39 ~~~C~~C~~~I~~-~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~~C~~~i~--~~~~~~  115 (233)
                      .++|.+|+++|.+ +++.++|+.||+.||+|..|+++|.+..|+.++|++||+.||.++++++|.+|+++|.  +..|.+
T Consensus         3 ~~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~I~~~~~~~~a   82 (126)
T 2xqn_T            3 KPRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVVCQGCHNAIDPEVQRVTY   82 (126)
T ss_dssp             CCBBTTTSSBCCSSCEEEETTEEECGGGSBCTTTCCBCTTSEEEEETTEEEEHHHHHHHSCCBCTTTCSBCCTTSCEEEE
T ss_pred             CCCCccCCCEeCCceEEeeCCCCccCCCCCcCCCCCCCCcCEEEeECCEEechHHhCcCcCccCcccCCcCCcCceEEEC
Confidence            4799999999985 7899999999999999999999999889999999999999999999999999999998  468999


Q ss_pred             CCCeee--cCCCCCCCCCcccccCceeccCCceechhhhhhcc
Q psy11756        116 LNQTWH--PDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKF  156 (233)
Q Consensus       116 ~~~~~H--~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~  156 (233)
                      .++.||  +.||+|..|+++|.+..|+..+|++||..++.++|
T Consensus        83 ~~~~~H~~~~CF~C~~C~~~l~~~~f~~~~~~~yC~~~~~~~f  125 (126)
T 2xqn_T           83 NNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKRM  125 (126)
T ss_dssp             TTEEEESSTTTSBCTTTCCBCTTSEEEEETTEEESSHHHHHSC
T ss_pred             CCCEeeCCCCCcCcCCCCCccCCCeeEeECCEEcchHHhhhhc
Confidence            999999  99999999999999888999999999997777665

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

Probab=99.95  E-value=4.1e-29  Score=188.27  Aligned_cols=119  Identities=20%  Similarity=0.500  Sum_probs=109.7

Q ss_pred             CCcccccccccccc-EeeecCCCcCcCCCccCCCCCCCCC--CceeeeCCccccccccccccCC--CCCCCCccccc--c
Q psy11756         39 YPKCAACQGLIQNI-IVQALDKTWHPEHFRCTHCRIPIAT--QKFHVHAGSPYCVEDYASLFLN--KCQGCRLPIKD--V  111 (233)
Q Consensus        39 ~~~C~~C~~~I~~~-~~~~~~~~~H~~Cf~C~~C~~~l~~--~~~~~~~~~~yC~~c~~~~~~~--~C~~C~~~i~~--~  111 (233)
                      .++|.+|+++|.++ +|.++|+.||+.||+|..|+++|..  ..|+.++|++||+.||.+++++  +|.+|+++|.+  .
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            47899999999985 6899999999999999999999963  6899999999999999999998  99999999975  4


Q ss_pred             EEecCCCeeecCCCCCCCCCcccc-cCceeccCCceechhhhhhccC
Q psy11756        112 VVTALNQTWHPDHFVCISCGTKLL-YKGFYEREGNAFCTACYEGKFC  157 (233)
Q Consensus       112 ~~~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~~g~~~C~~c~~~~~~  157 (233)
                      ++.+.++.||+.||+|..|+++|. +..|+..+|++||..||.++++
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            789999999999999999999994 6779999999999999988764

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

Probab=99.95  E-value=4.2e-28  Score=182.73  Aligned_cols=118  Identities=30%  Similarity=0.676  Sum_probs=108.6

Q ss_pred             CCCCCCCCcccccc-EEecCCCeeecCCCCCCCCCcccc--cCceeccCCceechhhhhhccCC--CCCCCCCCccc--c
Q psy11756         98 LNKCQGCRLPIKDV-VVTALNQTWHPDHFVCISCGTKLL--YKGFYEREGNAFCTACYEGKFCP--KCFGCGKPITE--T  170 (233)
Q Consensus        98 ~~~C~~C~~~i~~~-~~~~~~~~~H~~Cf~C~~C~~~l~--~~~~~~~~g~~~C~~c~~~~~~~--~C~~C~~~I~~--~  170 (233)
                      .++|.+|+++|.+. ++.++++.||++||+|..|+.+|.  +..|+..+|++||..||.+++++  +|.+|+++|.+  .
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            36899999999887 688999999999999999999996  46799999999999999999999  99999999975  5


Q ss_pred             EEEEcCceecCCCCCcCCCCCCC-CCCceEeeCCeeeChhhhhccc
Q psy11756        171 AIKVHDRKWHEACFRCGRCRRPI-SGPTFRVCEADVVCVECSEKGR  215 (233)
Q Consensus       171 ~i~~~~~~~H~~Cf~C~~C~~~l-~~~~~~~~~~~~~C~~C~~~~~  215 (233)
                      .|.+.++.||++||+|..|+++| .+..|+..+|++||..||.++.
T Consensus        82 ~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~C~~c~~~~~  127 (131)
T 2xjy_A           82 TMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIYEWT  127 (131)
T ss_dssp             EEEETTEEEEGGGCBCTTTCCBCCTTCEEEEETTEEEEGGGHHHHH
T ss_pred             eEeeCCceECccCcccCCCCCCCCCCCEEEEECCEEEcHHHHHHHh
Confidence            68899999999999999999999 5788999999999999998754

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

Probab=99.95  E-value=7.5e-29  Score=197.99  Aligned_cols=128  Identities=26%  Similarity=0.597  Sum_probs=111.1

Q ss_pred             CCCcccccccccccc-EeeecCCCcCcCCCccCCCCCCCCC--CceeeeCCccccccccccccCC--CCCCCCccccc--
Q psy11756         38 MYPKCAACQGLIQNI-IVQALDKTWHPEHFRCTHCRIPIAT--QKFHVHAGSPYCVEDYASLFLN--KCQGCRLPIKD--  110 (233)
Q Consensus        38 ~~~~C~~C~~~I~~~-~~~~~~~~~H~~Cf~C~~C~~~l~~--~~~~~~~~~~yC~~c~~~~~~~--~C~~C~~~i~~--  110 (233)
                      ..++|.+|+++|.++ +|.++++.||+.||+|..|+++|..  ..|+.++|++||+.||.+++++  +|.+|+++|.+  
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            457999999999985 6899999999999999999999985  6899999999999999999998  79999999974  


Q ss_pred             cEEecCCCeeecCCCCCCCCCcccc-cCceeccCCceechhhhhhccCCCCCCCCC
Q psy11756        111 VVVTALNQTWHPDHFVCISCGTKLL-YKGFYEREGNAFCTACYEGKFCPKCFGCGK  165 (233)
Q Consensus       111 ~~~~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~~g~~~C~~c~~~~~~~~C~~C~~  165 (233)
                      .++.+.++.||+.||+|..|+++|. +..|+..++++||..||.++++++|...+.
T Consensus        84 ~~i~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~g~~yC~~c~~~~~~~~~~~~g~  139 (188)
T 1rut_X           84 LVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHLNSGG  139 (188)
T ss_dssp             EEEEETTEEECGGGCBCTTTCCBCCTTCEEEEETTEEEEGGGCCTTTC--------
T ss_pred             EEEEcCCCEEeCCCCeECCCCCCCCCCCeEEEECCeEECHHHHHHHhcccccccCC
Confidence            4788999999999999999999995 667999999999999999999999987765

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

Probab=99.95  E-value=1.4e-27  Score=189.61  Aligned_cols=130  Identities=25%  Similarity=0.561  Sum_probs=112.2

Q ss_pred             Cccccccccc---cccCCCCCCCCcccccc-EEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCC
Q psy11756         85 GSPYCVEDYA---SLFLNKCQGCRLPIKDV-VVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKC  160 (233)
Q Consensus        85 ~~~yC~~c~~---~~~~~~C~~C~~~i~~~-~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C  160 (233)
                      ++.||...+.   ....++|.+|+++|.+. ++.+.++.||+.||+|..|+++|.+..| .++|++||..||.++++++|
T Consensus        44 ~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f-~~~g~~yC~~~y~~~f~~kC  122 (182)
T 2jtn_A           44 DEGGSGGHMGSGGTPEIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRFGTKC  122 (182)
T ss_dssp             SSCSSSSSCCCCCCCSCCBCBTSSSBCCCSEEEEETTEEECSSTTSCTTTCCCCSSCCE-EETTEEECHHHHHHTTSCCC
T ss_pred             cccccccccccCCCCCCCcCccCCCCccCceeEEecCCeEccccCccCCCCCccCCCce-eECCEeeecCcccccccccc
Confidence            4456666554   34468999999999887 6789999999999999999999987665 68999999999999999999


Q ss_pred             CCCCCCcccc--EEEEcCceecCCCCCcCCCCCCCC-CCceEee-CCeeeChhhhhccc
Q psy11756        161 FGCGKPITET--AIKVHDRKWHEACFRCGRCRRPIS-GPTFRVC-EADVVCVECSEKGR  215 (233)
Q Consensus       161 ~~C~~~I~~~--~i~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~-~~~~~C~~C~~~~~  215 (233)
                      .+|+++|.+.  ++.+.++.||++||+|..|+++|. +..|+.. +|++||..||.+++
T Consensus       123 ~~C~~~I~~~~~v~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~yC~~cy~~~~  181 (182)
T 2jtn_A          123 AACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAK  181 (182)
T ss_dssp             TTTCCCCCSSCCCCEETTEECCTTTCCCTTTCCCCCTTCEEEECTTSCEECHHHHHHHT
T ss_pred             ccCCCccCCCceEEecCCCCEEeCCCcCCCCCCCCCCCCceEEccCCEEECHHHHHHhh
Confidence            9999999764  467999999999999999999996 5677654 89999999998764

>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=99.94  E-value=4.1e-27  Score=184.86  Aligned_cols=145  Identities=29%  Similarity=0.591  Sum_probs=116.2

Q ss_pred             CCCcccccccccccc-EeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCCCCCCcccccc--EEe
Q psy11756         38 MYPKCAACQGLIQNI-IVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDV--VVT  114 (233)
Q Consensus        38 ~~~~C~~C~~~I~~~-~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~~C~~~i~~~--~~~  114 (233)
                      ..++|.+|+++|.+. +|.++|+.||+.||+|..|+++|.+..| .++|++||+.||.++++++|.+|+++|.+.  ++.
T Consensus         5 ~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f-~~~g~~yC~~~y~~~f~~~C~~C~~~I~~~~~v~~   83 (169)
T 2rgt_A            5 EIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRFGTKCAACQLGIPPTQVVRR   83 (169)
T ss_dssp             --CBBSSSSSBCCSSSCEECSSCEECTTTSBCTTTCCBCCSCCE-ESSSCEECHHHHHHHHSCBCTTTCCBCCTTSEEEE
T ss_pred             CCCccccCCCccCCcEEEEECCcEEccccCccCCCCCcCCCCCc-ccCCeeeecccccccccccccccccccCCCcEEEE
Confidence            357999999999885 6889999999999999999999998764 899999999999999999999999999753  668


Q ss_pred             cCCCeeecCCCCCCCCCcccc-cCcee-ccCCceechhhhhhccCCCCC--CCCCCccccEEEEcCceecCCCCC
Q psy11756        115 ALNQTWHPDHFVCISCGTKLL-YKGFY-EREGNAFCTACYEGKFCPKCF--GCGKPITETAIKVHDRKWHEACFR  185 (233)
Q Consensus       115 ~~~~~~H~~Cf~C~~C~~~l~-~~~~~-~~~g~~~C~~c~~~~~~~~C~--~C~~~I~~~~i~~~~~~~H~~Cf~  185 (233)
                      +.+..||+.||+|..|+++|. +..|+ ..+|++||..||.+++...+.  +..++.+  .+++....+|...|.
T Consensus        84 a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~~C~~c~~~~~~~~~~~~~~~rprt--~~~~~q~~~l~~~f~  156 (169)
T 2rgt_A           84 AQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAKQGGSGGSGGSGGGT--PMVAASPERHDGGLQ  156 (169)
T ss_dssp             ETTEEEEGGGCBCTTTCCBCCTTCEEEECTTSCEEEHHHHHHHHHCC----------E--EEECCCCEECCSSCC
T ss_pred             cCCceEeeCCCcCCCCCCCCCCCCceEEccCCeEECHHHHHHHhhccCCCCCCcCCCC--cccHHHHHHHHHHHh
Confidence            999999999999999999997 55665 468999999999888765443  3333332  345555567766664

>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=99.93  E-value=7.2e-27  Score=186.49  Aligned_cols=123  Identities=26%  Similarity=0.610  Sum_probs=109.6

Q ss_pred             ccCCCCCCCCcccccc-EEecCCCeeecCCCCCCCCCccccc--CceeccCCceechhhhhhccCC--CCCCCCCCccc-
Q psy11756         96 LFLNKCQGCRLPIKDV-VVTALNQTWHPDHFVCISCGTKLLY--KGFYEREGNAFCTACYEGKFCP--KCFGCGKPITE-  169 (233)
Q Consensus        96 ~~~~~C~~C~~~i~~~-~~~~~~~~~H~~Cf~C~~C~~~l~~--~~~~~~~g~~~C~~c~~~~~~~--~C~~C~~~I~~-  169 (233)
                      +..++|.+|+++|.+. ++.++++.||++||+|..|+.+|..  ..|+..+|++||..||.+++++  +|.+|+++|.+ 
T Consensus         3 l~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~cy~~~~~~~~~C~~C~~~I~~~   82 (188)
T 1rut_X            3 LSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPAS   82 (188)
T ss_dssp             -CCCBBTTTCCBCCCSEEEEETTEEECGGGCBCTTTCCBHHHHCSEEEEETTEEECHHHHHHHHSCCEECTTTCCEECTT
T ss_pred             CCCCcCccCCCEeCCceeEEecCcEecccCcccCCCCcccccCCceEEEeCCccccccccccccccCCccccCCCccccC
Confidence            3467999999999887 6889999999999999999999974  6899999999999999999999  79999999975 


Q ss_pred             -cEEEEcCceecCCCCCcCCCCCCCC-CCceEeeCCeeeChhhhhccccCC
Q psy11756        170 -TAIKVHDRKWHEACFRCGRCRRPIS-GPTFRVCEADVVCVECSEKGREEG  218 (233)
Q Consensus       170 -~~i~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~~~~~~C~~C~~~~~~~~  218 (233)
                       ..|.+.++.||++||+|..|++.|. +..|+..++++||..||.++....
T Consensus        83 e~~i~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~g~~yC~~c~~~~~~~~  133 (188)
T 1rut_X           83 ELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALING  133 (188)
T ss_dssp             SEEEEETTEEECGGGCBCTTTCCBCCTTCEEEEETTEEEEGGGCCTTTC--
T ss_pred             cEEEEcCCCEEeCCCCeECCCCCCCCCCCeEEEECCeEECHHHHHHHhccc
Confidence             4688999999999999999999994 678999999999999998765443

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

Probab=99.93  E-value=2.3e-26  Score=182.69  Aligned_cols=119  Identities=33%  Similarity=0.732  Sum_probs=106.1

Q ss_pred             CCCCCcccccccccccc-EeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCCCCCCcccccc--E
Q psy11756         36 STMYPKCAACQGLIQNI-IVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDV--V  112 (233)
Q Consensus        36 ~~~~~~C~~C~~~I~~~-~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~~C~~~i~~~--~  112 (233)
                      ....++|.+|+++|.+. ++.++|+.||+.||+|..|+++|.+..| .++|++||+.||.++|+++|.+|+++|.+.  +
T Consensus        57 ~~~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f-~~~g~~yC~~~y~~~f~~kC~~C~~~I~~~~~v  135 (182)
T 2jtn_A           57 TPEIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRFGTKCAACQLGIPPTQVV  135 (182)
T ss_dssp             CCSCCBCBTSSSBCCCSEEEEETTEEECSSTTSCTTTCCCCSSCCE-EETTEEECHHHHHHTTSCCCTTTCCCCCSSCCC
T ss_pred             CCCCCcCccCCCCccCceeEEecCCeEccccCccCCCCCccCCCce-eECCEeeecCccccccccccccCCCccCCCceE
Confidence            44568999999999985 6889999999999999999999998765 799999999999999999999999999753  5


Q ss_pred             EecCCCeeecCCCCCCCCCcccc-cCcee-ccCCceechhhhhhc
Q psy11756        113 VTALNQTWHPDHFVCISCGTKLL-YKGFY-EREGNAFCTACYEGK  155 (233)
Q Consensus       113 ~~~~~~~~H~~Cf~C~~C~~~l~-~~~~~-~~~g~~~C~~c~~~~  155 (233)
                      +.+.++.||+.||+|..|+++|. +..|+ ..+|++||..||.++
T Consensus       136 ~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~yC~~cy~~~  180 (182)
T 2jtn_A          136 RRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETA  180 (182)
T ss_dssp             CEETTEECCTTTCCCTTTCCCCCTTCEEEECTTSCEECHHHHHHH
T ss_pred             EecCCCCEEeCCCcCCCCCCCCCCCCceEEccCCEEECHHHHHHh
Confidence            67999999999999999999997 55665 468999999999765

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

Probab=99.93  E-value=3.5e-26  Score=179.51  Aligned_cols=119  Identities=28%  Similarity=0.653  Sum_probs=105.9

Q ss_pred             CCCCCCCCcccccc-EEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCCCCCCCcccc--EEEE
Q psy11756         98 LNKCQGCRLPIKDV-VVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITET--AIKV  174 (233)
Q Consensus        98 ~~~C~~C~~~i~~~-~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~~C~~~I~~~--~i~~  174 (233)
                      .++|.+|+++|.+. ++.+.++.||+.||+|..|+.+|.+..| ..+|++||..||.++++++|.+|+++|.+.  ++.+
T Consensus         6 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f-~~~g~~yC~~~y~~~f~~~C~~C~~~I~~~~~v~~a   84 (169)
T 2rgt_A            6 IPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRFGTKCAACQLGIPPTQVVRRA   84 (169)
T ss_dssp             -CBBSSSSSBCCSSSCEECSSCEECTTTSBCTTTCCBCCSCCE-ESSSCEECHHHHHHHHSCBCTTTCCBCCTTSEEEEE
T ss_pred             CCccccCCCccCCcEEEEECCcEEccccCccCCCCCcCCCCCc-ccCCeeeecccccccccccccccccccCCCcEEEEc
Confidence            47899999999877 6789999999999999999999987664 789999999999999999999999999764  4679


Q ss_pred             cCceecCCCCCcCCCCCCCC-CCceEee-CCeeeChhhhhccccC
Q psy11756        175 HDRKWHEACFRCGRCRRPIS-GPTFRVC-EADVVCVECSEKGREE  217 (233)
Q Consensus       175 ~~~~~H~~Cf~C~~C~~~l~-~~~~~~~-~~~~~C~~C~~~~~~~  217 (233)
                      .++.||++||+|..|++.|. |..|+.. +|++||..||.++...
T Consensus        85 ~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~~C~~c~~~~~~~  129 (169)
T 2rgt_A           85 QDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAKQG  129 (169)
T ss_dssp             TTEEEEGGGCBCTTTCCBCCTTCEEEECTTSCEEEHHHHHHHHHC
T ss_pred             CCceEeeCCCcCCCCCCCCCCCCceEEccCCeEECHHHHHHHhhc
Confidence            99999999999999999996 6677654 8999999999887653

>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=99.93  E-value=4.5e-26  Score=182.46  Aligned_cols=119  Identities=24%  Similarity=0.655  Sum_probs=108.3

Q ss_pred             CCCCCCCCcccc-ccEEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCC-----------------
Q psy11756         98 LNKCQGCRLPIK-DVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPK-----------------  159 (233)
Q Consensus        98 ~~~C~~C~~~i~-~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~-----------------  159 (233)
                      .++|.+|+++|. +..+.+.++.||+.||+|..|+.+|.+..|+..+|++||..||.++++++                 
T Consensus         7 ~~~C~~C~~~I~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~f~~~c~~c~~~~g~~~~~~~~   86 (192)
T 1b8t_A            7 GKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTDKGE   86 (192)
T ss_dssp             CEECTTTCCEECSSCCEEETTEEECTTTCBCTTTCCBCCSSSEEEETTEEEEHHHHHHHHSCCCCCCCCCCCCCCCCCCC
T ss_pred             CCcCccCCCeecceeEEEeCCceecCCCCcCcccCCcCCCCeeEecCCEeeChhhhHhhcCccccccccccccEecCCCc
Confidence            368999999996 56788999999999999999999999888999999999999999998876                 


Q ss_pred             -------------------------------CCCCCCCccc-cEEEEcCceecCCCCCcCCCCCCCCCCceEeeCCeeeC
Q psy11756        160 -------------------------------CFGCGKPITE-TAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVC  207 (233)
Q Consensus       160 -------------------------------C~~C~~~I~~-~~i~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C  207 (233)
                                                     |.+|+++|.+ ..|.+.++.||++||+|..|+++|.++.|+..+|+|||
T Consensus        87 ~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC  166 (192)
T 1b8t_A           87 SLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYC  166 (192)
T ss_dssp             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCEECTTTSCEECSSSCEEETTEEECTTTCBCTTTCCBCCSSSEEEETTEEEE
T ss_pred             ccccccccccccCCCCcCccccccccCCCCcCCCCCCEecCcEEEecCCCccchhcCCccccCCCCCCCcccccCCEEeC
Confidence                                           7789999974 56889999999999999999999988899999999999


Q ss_pred             hhhhhcccc
Q psy11756        208 VECSEKGRE  216 (233)
Q Consensus       208 ~~C~~~~~~  216 (233)
                      +.||.++..
T Consensus       167 ~~cy~~~f~  175 (192)
T 1b8t_A          167 KGCYAKNFG  175 (192)
T ss_dssp             HHHHHHHTC
T ss_pred             HHHHHHhcC
Confidence            999987643

>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=99.91  E-value=1.3e-24  Score=156.32  Aligned_cols=95  Identities=28%  Similarity=0.610  Sum_probs=88.5

Q ss_pred             ccCCCCCCCCcccc--ccEEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCCCCCCCcc--ccE
Q psy11756         96 LFLNKCQGCRLPIK--DVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPIT--ETA  171 (233)
Q Consensus        96 ~~~~~C~~C~~~i~--~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~~C~~~I~--~~~  171 (233)
                      .+.++|.+|+++|.  +..+.+.++.||+.||+|..|+++|.+..|+..+|++||..||.++++++|.+|+++|.  +..
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~C~~C~~~I~~~~~~   82 (101)
T 2cup_A            3 SGSSGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSPKCKGCFKAIVAGDQN   82 (101)
T ss_dssp             SCCCBCSSSCCBCCSSSCEEEETTEEEETTTCCCSSSCCCTTSSCCEEETTEEECHHHHTTCCCCBCSSSCCBCCSSSCE
T ss_pred             CCCCcCcccCCcccCCceEEEECccChhhcCCcccccCCCCCcCeeECcCCEEEChhHhhhhcCCccccCCCccccCCeE
Confidence            45689999999996  56899999999999999999999998888999999999999999999999999999998  468


Q ss_pred             EEEcCceecCCCCCcCCCC
Q psy11756        172 IKVHDRKWHEACFRCGRCR  190 (233)
Q Consensus       172 i~~~~~~~H~~Cf~C~~C~  190 (233)
                      |+++++.||++||+|..|+
T Consensus        83 ~~a~~~~~H~~CF~C~~C~  101 (101)
T 2cup_A           83 VEYKGTVWHKDCFSGPSSG  101 (101)
T ss_dssp             EESSSCEEETTTCCCTTCC
T ss_pred             EEeCCcchHHhCCCCCCCC
Confidence            9999999999999999996

>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=99.91  E-value=9.3e-25  Score=157.10  Aligned_cols=95  Identities=28%  Similarity=0.518  Sum_probs=88.7

Q ss_pred             CCCCcccccccccc--ccEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCCCCCCcccc--ccE
Q psy11756         37 TMYPKCAACQGLIQ--NIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPIK--DVV  112 (233)
Q Consensus        37 ~~~~~C~~C~~~I~--~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~~C~~~i~--~~~  112 (233)
                      ...++|.+|+++|.  +++|.++++.||+.||+|..|+++|.+..|+.++|++||+.||.++++++|.+|+++|.  +.+
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~C~~C~~~I~~~~~~   82 (101)
T 2cup_A            3 SGSSGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSPKCKGCFKAIVAGDQN   82 (101)
T ss_dssp             SCCCBCSSSCCBCCSSSCEEEETTEEEETTTCCCSSSCCCTTSSCCEEETTEEECHHHHTTCCCCBCSSSCCBCCSSSCE
T ss_pred             CCCCcCcccCCcccCCceEEEECccChhhcCCcccccCCCCCcCeeECcCCEEEChhHhhhhcCCccccCCCccccCCeE
Confidence            34579999999996  58899999999999999999999999888999999999999999999999999999997  468


Q ss_pred             EecCCCeeecCCCCCCCCC
Q psy11756        113 VTALNQTWHPDHFVCISCG  131 (233)
Q Consensus       113 ~~~~~~~~H~~Cf~C~~C~  131 (233)
                      |.+.++.||++||+|..|+
T Consensus        83 ~~a~~~~~H~~CF~C~~C~  101 (101)
T 2cup_A           83 VEYKGTVWHKDCFSGPSSG  101 (101)
T ss_dssp             EESSSCEEETTTCCCTTCC
T ss_pred             EEeCCcchHHhCCCCCCCC
Confidence            9999999999999999985

>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=99.85  E-value=1.2e-22  Score=150.96  Aligned_cols=113  Identities=20%  Similarity=0.311  Sum_probs=99.8

Q ss_pred             ccCCCCCCCCcccccc-EEecCCCeeecCCCCCCCCCcccc--cCceeccCCceechhhhhhccCC--CCCCCCCCcccc
Q psy11756         96 LFLNKCQGCRLPIKDV-VVTALNQTWHPDHFVCISCGTKLL--YKGFYEREGNAFCTACYEGKFCP--KCFGCGKPITET  170 (233)
Q Consensus        96 ~~~~~C~~C~~~i~~~-~~~~~~~~~H~~Cf~C~~C~~~l~--~~~~~~~~g~~~C~~c~~~~~~~--~C~~C~~~I~~~  170 (233)
                      ++.++|.+|+++|.+. ++.+.++.||+.||+|..|+.+|.  +..|+..+|++||..||.++|++  +|++|+++|.+.
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~cy~~~f~~~~~C~~C~~~I~~~   82 (122)
T 1m3v_A            3 LSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAGGSGGHMGSGG   82 (122)
T ss_dssp             SCCCCBSSSSSCCCSSCCEEETTEEECHHHHCCSSSCCCTTTSEECCEEETTEEECHHHHHHHHCCCCSSSCSSCCSCCE
T ss_pred             CCCCCCcccCCEeCCcEEEEECCceeHhhCCCcCCCCCcccccCCeEEEECCeeecHHHHHHHcCCCCccccCCCCcCch
Confidence            3568999999999887 588999999999999999999996  46799999999999999999999  999999999987


Q ss_pred             EEEEcCceecCCCCCcCCCCCCCCCCceEeeCCeeeChhhhhccccCCCCC
Q psy11756        171 AIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSEKGREEGKND  221 (233)
Q Consensus       171 ~i~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~~~~~~~  221 (233)
                      .|++.++             ..|.|+.|+..+++|||..|+.++..++.++
T Consensus        83 ~~~~~g~-------------~~l~g~~f~~~~~~~yC~~~~~~~~~~~g~~  120 (122)
T 1m3v_A           83 DVMVVGE-------------PTLMGGEFGDEDERLITRLENTQFDAANGID  120 (122)
T ss_dssp             ESSSSSS-------------SSCCSCTTCCTTCCCCEECTTTTTTCCSCCC
T ss_pred             heEEcCC-------------cCCCCCccEecCCEeEccCcchhchhhcCCC
Confidence            7776653             3678999999999999999999887665544

>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=99.85  E-value=1.9e-22  Score=149.90  Aligned_cols=108  Identities=19%  Similarity=0.344  Sum_probs=94.8

Q ss_pred             CCCCcccccccccccc-EeeecCCCcCcCCCccCCCCCCCC--CCceeeeCCccccccccccccCC--CCCCCCcccccc
Q psy11756         37 TMYPKCAACQGLIQNI-IVQALDKTWHPEHFRCTHCRIPIA--TQKFHVHAGSPYCVEDYASLFLN--KCQGCRLPIKDV  111 (233)
Q Consensus        37 ~~~~~C~~C~~~I~~~-~~~~~~~~~H~~Cf~C~~C~~~l~--~~~~~~~~~~~yC~~c~~~~~~~--~C~~C~~~i~~~  111 (233)
                      ...++|.+|+++|.+. +|.++++.||+.||+|..|+++|.  +..|+.++|++||+.||.++|++  +|.+|+++|.+.
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~cy~~~f~~~~~C~~C~~~I~~~   82 (122)
T 1m3v_A            3 LSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAGGSGGHMGSGG   82 (122)
T ss_dssp             SCCCCBSSSSSCCCSSCCEEETTEEECHHHHCCSSSCCCTTTSEECCEEETTEEECHHHHHHHHCCCCSSSCSSCCSCCE
T ss_pred             CCCCCCcccCCEeCCcEEEEECCceeHhhCCCcCCCCCcccccCCeEEEECCeeecHHHHHHHcCCCCccccCCCCcCch
Confidence            3457999999999985 689999999999999999999997  35799999999999999999999  999999999887


Q ss_pred             EEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccC
Q psy11756        112 VVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFC  157 (233)
Q Consensus       112 ~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~  157 (233)
                      .+++.++             ..|.+..|+.+++++||..|+.+++.
T Consensus        83 ~~~~~g~-------------~~l~g~~f~~~~~~~yC~~~~~~~~~  115 (122)
T 1m3v_A           83 DVMVVGE-------------PTLMGGEFGDEDERLITRLENTQFDA  115 (122)
T ss_dssp             ESSSSSS-------------SSCCSCTTCCTTCCCCEECTTTTTTC
T ss_pred             heEEcCC-------------cCCCCCccEecCCEeEccCcchhchh
Confidence            6666553             35778899999999999999987764

>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=1e-19  Score=125.05  Aligned_cols=79  Identities=27%  Similarity=0.536  Sum_probs=75.0

Q ss_pred             CCccccccccccccCCCCCCCCccccccEEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCCC
Q psy11756         84 AGSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFG  162 (233)
Q Consensus        84 ~~~~yC~~c~~~~~~~~C~~C~~~i~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~~  162 (233)
                      +|++||+.||.++++++|.+|+++|.+..|.+.++.||++||+|..|+++|.+..|+..++++||..||.++++++|..
T Consensus         1 gg~~yC~~cy~~~~~~~C~~C~~~I~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~s   79 (80)
T 2cuq_A            1 GSSGSSGPCYENKFAPRCARCSKTLTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELFASGPSS   79 (80)
T ss_dssp             CCCCSCCCCCCCCSSCCCTTTCCCCCSCCEESSSSEECTTTCBCSSSCCBCTTCCEEECSSSEEEHHHHHHHTTCSTTC
T ss_pred             CCcEEcHHHHccccCCcCCCCCCEecCcEEEECCchhhhhhCCcccCCCcCCCCeeEeECCEEECHHHHHHHcCCCCCC
Confidence            5789999999999999999999999888899999999999999999999998888999999999999999999999864

>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=99.79  E-value=7e-20  Score=134.43  Aligned_cols=106  Identities=22%  Similarity=0.355  Sum_probs=90.2

Q ss_pred             CCCCCCCCcccccc-EEecCCCeeecCCCCCCCCCccccc--CceeccCCceechhhhhhccCCCCCCCCCCccccEEEE
Q psy11756         98 LNKCQGCRLPIKDV-VVTALNQTWHPDHFVCISCGTKLLY--KGFYEREGNAFCTACYEGKFCPKCFGCGKPITETAIKV  174 (233)
Q Consensus        98 ~~~C~~C~~~i~~~-~~~~~~~~~H~~Cf~C~~C~~~l~~--~~~~~~~g~~~C~~c~~~~~~~~C~~C~~~I~~~~i~~  174 (233)
                      .++|.+|+++|.+. ++.+.++.||+.||+|..|+.+|..  ..|+..+|++||..||.++|+++|..|..   +.+|+ 
T Consensus         3 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~~y~~~f~~~c~~c~~---~~~~~-   78 (114)
T 1j2o_A            3 LLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGGSGGHMGSG---GDVMV-   78 (114)
T ss_dssp             CBCBSSSCSCBCSSEEEECSSSEECTTTCCCSSSCSCCCCSSSCCCCBTTBCCCHHHHHHHHTSCCSSCBS---CSCCC-
T ss_pred             CCCCcCCCCeeCCcEEEEECchhHHHhcCcccccCCchhcCCCeeEEECCeeechHHHHHHhCcccCcCCC---CceeE-
Confidence            46899999999887 8899999999999999999999974  57999999999999999999999998862   22221 


Q ss_pred             cCceecCCCCCcCCCCCC-CCCCceEeeCCeeeChhhhhccccCCCCC
Q psy11756        175 HDRKWHEACFRCGRCRRP-ISGPTFRVCEADVVCVECSEKGREEGKND  221 (233)
Q Consensus       175 ~~~~~H~~Cf~C~~C~~~-l~~~~~~~~~~~~~C~~C~~~~~~~~~~~  221 (233)
                                    |+++ |.|+.|+..+++|||+.|+.+...++.++
T Consensus        79 --------------~~~~~~~g~~f~~~~~~~~C~~~~~~~~~~~g~~  112 (114)
T 1j2o_A           79 --------------VGEPTLMGGEFGDEDERLITRLENTQFDAANGID  112 (114)
T ss_dssp             --------------SSCSSTTSSBCCCSSSCCCEEEECTTCCCTTSSC
T ss_pred             --------------cCCccCCCCeeEEcCCEeecchhhhccccccCCC
Confidence                          3455 57889999999999999999887776654

>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=9e-20  Score=125.37  Aligned_cols=79  Identities=29%  Similarity=0.648  Sum_probs=75.0

Q ss_pred             CCccccccccccccCCCCCCCCccccccEEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCCC
Q psy11756         84 AGSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFG  162 (233)
Q Consensus        84 ~~~~yC~~c~~~~~~~~C~~C~~~i~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~~  162 (233)
                      +|++||+.||.++++++|.+|+++|.+..|.+.++.||+.||+|..|+++|.+..|+..++++||..||.++++++|++
T Consensus         1 gg~~yC~~~y~~~~~~~C~~C~~~I~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~~y~~~f~~~C~~   79 (80)
T 1x3h_A            1 GSSGSSGKDFLAMFSPKCGGCNRPVLENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHHRRGSGPSS   79 (80)
T ss_dssp             CCCCCCCCCCCCCCSCBCTTTCCBCCSSCEEETTEEECTTTCBCSSSCCBSCSSCCEESSSCEECHHHHHHHHSSSCCC
T ss_pred             CCCccchhHHhhhcCCccccCCCeecceeEEECCCeEecCcCChhhCCCCCCCCcEEeECCEEECHHHHHHHcCCCCCC
Confidence            4789999999999999999999999999899999999999999999999998778999999999999999999999974

>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=99.79  E-value=4.9e-20  Score=135.23  Aligned_cols=101  Identities=19%  Similarity=0.319  Sum_probs=85.8

Q ss_pred             CCcccccccccccc-EeeecCCCcCcCCCccCCCCCCCCC--CceeeeCCccccccccccccCCCCCCCCccccccEEec
Q psy11756         39 YPKCAACQGLIQNI-IVQALDKTWHPEHFRCTHCRIPIAT--QKFHVHAGSPYCVEDYASLFLNKCQGCRLPIKDVVVTA  115 (233)
Q Consensus        39 ~~~C~~C~~~I~~~-~~~~~~~~~H~~Cf~C~~C~~~l~~--~~~~~~~~~~yC~~c~~~~~~~~C~~C~~~i~~~~~~~  115 (233)
                      .++|.+|+++|.+. +|.++++.||+.||+|+.|+++|.+  ..|+.++|++||+.||.++|+++|..|..   +.+|. 
T Consensus         3 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~~y~~~f~~~c~~c~~---~~~~~-   78 (114)
T 1j2o_A            3 LLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGGSGGHMGSG---GDVMV-   78 (114)
T ss_dssp             CBCBSSSCSCBCSSEEEECSSSEECTTTCCCSSSCSCCCCSSSCCCCBTTBCCCHHHHHHHHTSCCSSCBS---CSCCC-
T ss_pred             CCCCcCCCCeeCCcEEEEECchhHHHhcCcccccCCchhcCCCeeEEECCeeechHHHHHHhCcccCcCCC---CceeE-
Confidence            47999999999985 8999999999999999999999985  58999999999999999999999998862   22221 


Q ss_pred             CCCeeecCCCCCCCCCcc-cccCceeccCCceechhhhhhccC
Q psy11756        116 LNQTWHPDHFVCISCGTK-LLYKGFYEREGNAFCTACYEGKFC  157 (233)
Q Consensus       116 ~~~~~H~~Cf~C~~C~~~-l~~~~~~~~~g~~~C~~c~~~~~~  157 (233)
                                    |+.+ +.+..|+..++++||..|+.++.+
T Consensus        79 --------------~~~~~~~g~~f~~~~~~~~C~~~~~~~~~  107 (114)
T 1j2o_A           79 --------------VGEPTLMGGEFGDEDERLITRLENTQFDA  107 (114)
T ss_dssp             --------------SSCSSTTSSBCCCSSSCCCEEEECTTCCC
T ss_pred             --------------cCCccCCCCeeEEcCCEeecchhhhcccc
Confidence                          3344 567789999999999999877654

>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=99.79  E-value=7e-20  Score=126.51  Aligned_cols=79  Identities=22%  Similarity=0.410  Sum_probs=74.3

Q ss_pred             CCccccccccccccCCCCCCCCcccc--ccEEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCC
Q psy11756         84 AGSPYCVEDYASLFLNKCQGCRLPIK--DVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF  161 (233)
Q Consensus        84 ~~~~yC~~c~~~~~~~~C~~C~~~i~--~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~  161 (233)
                      +|++||+.||.++++++|.+|+++|.  +.++.+.++.||+.||+|..|+++|.+..|+..++++||..||.++++++|+
T Consensus         1 ~g~~yC~~~y~~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~~~~C~~c~~~~~~~~C~   80 (82)
T 2ehe_A            1 GSSGSSGPCYDNTFANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELLCNDCYCSAFSSGPS   80 (82)
T ss_dssp             CCCCCCCCCCCCCCSCBCTTTCCBCCSSCCBCCCSSCCCBTTTSBCTTTCCBCSSCCEEEETTEEEETTTSSCCGGGSSC
T ss_pred             CCceechhHhCcccCCcCccCCCccccCcEEEEeCCccccccCCeecCCCCccCCCccEeeCCEEECHHHHhhhcCCCCC
Confidence            57899999999999999999999998  5688899999999999999999999988899999999999999999999987


Q ss_pred             C
Q psy11756        162 G  162 (233)
Q Consensus       162 ~  162 (233)
                      +
T Consensus        81 ~   81 (82)
T 2ehe_A           81 S   81 (82)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.78  E-value=2.8e-19  Score=123.19  Aligned_cols=78  Identities=24%  Similarity=0.460  Sum_probs=72.7

Q ss_pred             CCccccccccccccCCCCCCCCccccccEEecCCCeeecCCCCCCCCCcccccCceecc-CCceechhhhhhccCCCCCC
Q psy11756         84 AGSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYER-EGNAFCTACYEGKFCPKCFG  162 (233)
Q Consensus        84 ~~~~yC~~c~~~~~~~~C~~C~~~i~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~-~g~~~C~~c~~~~~~~~C~~  162 (233)
                      +|++||+.||. ++.++|.+|+++|.+..|.+.++.||+.||+|..|+++|.+..|+.. +|++||..||.++++++|++
T Consensus         2 ~g~~yC~~~y~-~~~~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~g~~yC~~cy~~~f~~~C~~   80 (81)
T 2dlo_A            2 SSGSSGEGCYV-ATLEKCATCSQPILDRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFASGPSS   80 (81)
T ss_dssp             CCCCCCCCCCC-SSCCBCTTTCCBCCSCCEEETTEEECTTTCBCSSSCCBCTTSCEECCTTCCCEEHHHHHHHTTSSSCC
T ss_pred             cCCEECHHHhh-cCCCccccCCCeecceeEEECCccccHHhcCcccCCCccCCCeeEECCCCEEECHHHHHHHhcCcCCC
Confidence            67899999999 78999999999999889999999999999999999999998888876 78999999999999999974

>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=99.77  E-value=2.7e-19  Score=122.08  Aligned_cols=71  Identities=28%  Similarity=0.780  Sum_probs=67.1

Q ss_pred             CCceechhhhhhccCCCCCCCCCCccc-----cEEEEcCceecCCCCCcCCCCCCCCCCceEeeCCeeeChhhhhc
Q psy11756        143 EGNAFCTACYEGKFCPKCFGCGKPITE-----TAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSEK  213 (233)
Q Consensus       143 ~g~~~C~~c~~~~~~~~C~~C~~~I~~-----~~i~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~  213 (233)
                      ++++||..||.++++++|++|+++|.+     ..|.+.++.||++||+|..|+++|.+..|+..+|+|||+.||.+
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 GSSGSSGDCYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYCPDCAKK   76 (77)
T ss_dssp             CCSSCCTTCCCSCCCCCCSSSCCCCCCCSSCCCEEEETTEEEETTTCBCSSSCCBCTTSCCCEETTEECCHHHHHH
T ss_pred             CCCeEchhHhchhhCccCcccCCcccCCCCCceeEEECcceeCcccCEehhcCCCCCCCccEeECCEEEChHHhcc
Confidence            468999999999999999999999997     77999999999999999999999998899999999999999975

>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=99.76  E-value=1.4e-18  Score=119.94  Aligned_cols=78  Identities=26%  Similarity=0.451  Sum_probs=73.2

Q ss_pred             CCccccccccccccCCCCCCCCcccc--ccEEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCC
Q psy11756         84 AGSPYCVEDYASLFLNKCQGCRLPIK--DVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF  161 (233)
Q Consensus        84 ~~~~yC~~c~~~~~~~~C~~C~~~i~--~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~  161 (233)
                      ++.+||+.||.++++++|.+|+++|.  +.+|.+.++.||++||+|..|+++|.+..|+..++++||..||.+++++++.
T Consensus         1 ~~~~yC~~cy~~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~~~   80 (82)
T 1x63_A            1 GSSGSSGKCTTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKFASGPS   80 (82)
T ss_dssp             CCSCCCCCCCSCCCSCBCSSSCCBCCSSSCEEECSSCEEETTTCCCSSSCCCCTTSCEEEETTEEEEHHHHHHHTSCCCS
T ss_pred             CCCcCchhHHccccCCcCccCCcccccCceEEEECccccccccCchhhCCCccCCCccEeeCCEEECHHHHHHHhCCCCC
Confidence            36899999999999999999999997  5689999999999999999999999888899999999999999999999875

>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=99.75  E-value=5.9e-19  Score=121.24  Aligned_cols=73  Identities=32%  Similarity=0.806  Sum_probs=69.1

Q ss_pred             CCceechhhhhhccCCCCCCCCCCccccEEEEcCceecCCCCCcCCCCCCCCCCceEeeCCeeeChhhhhccc
Q psy11756        143 EGNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSEKGR  215 (233)
Q Consensus       143 ~g~~~C~~c~~~~~~~~C~~C~~~I~~~~i~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  215 (233)
                      +|++||..||.++++++|++|+++|.++.|.+.++.||++||+|..|+++|.++.|+..+++|||+.||.++.
T Consensus         1 gg~~yC~~cy~~~~~~~C~~C~~~I~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f   73 (80)
T 2cuq_A            1 GSSGSSGPCYENKFAPRCARCSKTLTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELF   73 (80)
T ss_dssp             CCCCSCCCCCCCCSSCCCTTTCCCCCSCCEESSSSEECTTTCBCSSSCCBCTTCCEEECSSSEEEHHHHHHHT
T ss_pred             CCcEEcHHHHccccCCcCCCCCCEecCcEEEECCchhhhhhCCcccCCCcCCCCeeEeECCEEECHHHHHHHc
Confidence            5789999999999999999999999998999999999999999999999998889999999999999998754

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

Probab=99.74  E-value=1.1e-18  Score=119.94  Aligned_cols=73  Identities=27%  Similarity=0.597  Sum_probs=68.8

Q ss_pred             CCceechhhhhhccCCCCCCCCCCccccEEEEcCceecCCCCCcCCCCCCCCCCceEeeCCeeeChhhhhccc
Q psy11756        143 EGNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSEKGR  215 (233)
Q Consensus       143 ~g~~~C~~c~~~~~~~~C~~C~~~I~~~~i~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  215 (233)
                      +|++||..||.++++++|++|+++|.++.|.+.++.||++||+|..|+++|.++.|+..+++|||+.||.++.
T Consensus         1 gg~~yC~~~y~~~~~~~C~~C~~~I~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~~y~~~f   73 (80)
T 1x3h_A            1 GSSGSSGKDFLAMFSPKCGGCNRPVLENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHHRR   73 (80)
T ss_dssp             CCCCCCCCCCCCCCSCBCTTTCCBCCSSCEEETTEEECTTTCBCSSSCCBSCSSCCEESSSCEECHHHHHHHH
T ss_pred             CCCccchhHHhhhcCCccccCCCeecceeEEECCCeEecCcCChhhCCCCCCCCcEEeECCEEECHHHHHHHc
Confidence            4789999999999999999999999999999999999999999999999998888999999999999997753

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

Probab=99.74  E-value=7.1e-19  Score=121.42  Aligned_cols=73  Identities=27%  Similarity=0.730  Sum_probs=68.0

Q ss_pred             CCceechhhhhhccCCCCCCCCCCcc--ccEEEEcCceecCCCCCcCCCCCCCCCCceEeeCCeeeChhhhhccc
Q psy11756        143 EGNAFCTACYEGKFCPKCFGCGKPIT--ETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSEKGR  215 (233)
Q Consensus       143 ~g~~~C~~c~~~~~~~~C~~C~~~I~--~~~i~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  215 (233)
                      +|++||..||.++++++|++|+++|.  +..|.+.++.||++||+|..|+++|.++.|+..+|+|||+.||.++.
T Consensus         1 ~g~~yC~~~y~~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~~~~C~~c~~~~~   75 (82)
T 2ehe_A            1 GSSGSSGPCYDNTFANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELLCNDCYCSAF   75 (82)
T ss_dssp             CCCCCCCCCCCCCCSCBCTTTCCBCCSSCCBCCCSSCCCBTTTSBCTTTCCBCSSCCEEEETTEEEETTTSSCCG
T ss_pred             CCceechhHhCcccCCcCccCCCccccCcEEEEeCCccccccCCeecCCCCccCCCccEeeCCEEECHHHHhhhc
Confidence            57899999999999999999999998  56788899999999999999999999899999999999999997754

>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=99.73  E-value=3.9e-18  Score=117.42  Aligned_cols=79  Identities=23%  Similarity=0.471  Sum_probs=72.1

Q ss_pred             CCccccccccccccCCCCCCCCccccccEEecCCCeeecCCCCCCCCCcccc-cCcee-ccCCceechhhhhhccCCCCC
Q psy11756         84 AGSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLL-YKGFY-EREGNAFCTACYEGKFCPKCF  161 (233)
Q Consensus        84 ~~~~yC~~c~~~~~~~~C~~C~~~i~~~~~~~~~~~~H~~Cf~C~~C~~~l~-~~~~~-~~~g~~~C~~c~~~~~~~~C~  161 (233)
                      .+.+||+.||.++++++|.+|+++|.+..|.+.++.||++||+|..|+++|. +..|+ ..++++||..||.+++++.|.
T Consensus         1 g~~~yC~~~y~~~~~~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~~C~~c~~~~~~~~~s   80 (81)
T 1x6a_A            1 GSSGSSGKDYWGKFGEFCHGCSLLMTGPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVVSGPSS   80 (81)
T ss_dssp             CCCCCCCCCSSCCSSCBCTTTCCBCCSCCBCCTTCCBCTTSCBCTTTCCBCCTTSCEEECSSSCEEEHHHHHHHHCTTSC
T ss_pred             CCCccchhHHhhhcCCcCccCCCCcCceEEEECCceeccccCCccCCCCccCCCCcEEEeeCCEEECHHHHHHHhcCCCC
Confidence            3679999999999999999999999988999999999999999999999996 56777 589999999999999998875


Q ss_pred             C
Q psy11756        162 G  162 (233)
Q Consensus       162 ~  162 (233)
                      +
T Consensus        81 g   81 (81)
T 1x6a_A           81 G   81 (81)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.73  E-value=4.3e-18  Score=117.42  Aligned_cols=74  Identities=28%  Similarity=0.641  Sum_probs=68.2

Q ss_pred             CCceechhhhhhccCCCCCCCCCCcc--ccEEEEcCceecCCCCCcCCCCCCCCCCceEeeCCeeeChhhhhcccc
Q psy11756        143 EGNAFCTACYEGKFCPKCFGCGKPIT--ETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSEKGRE  216 (233)
Q Consensus       143 ~g~~~C~~c~~~~~~~~C~~C~~~I~--~~~i~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~~  216 (233)
                      ++.+||..||.++++++|.+|+++|.  +..|.+.++.||++||+|..|+++|.++.|+..++.+||+.||.++..
T Consensus         1 ~~~~yC~~cy~~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~   76 (82)
T 1x63_A            1 GSSGSSGKCTTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKFA   76 (82)
T ss_dssp             CCSCCCCCCCSCCCSCBCSSSCCBCCSSSCEEECSSCEEETTTCCCSSSCCCCTTSCEEEETTEEEEHHHHHHHTS
T ss_pred             CCCcCchhHHccccCCcCccCCcccccCceEEEECccccccccCchhhCCCccCCCccEeeCCEEECHHHHHHHhC
Confidence            46899999999999999999999998  567999999999999999999999988899999999999999987543

>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=99.72  E-value=7.3e-18  Score=114.89  Aligned_cols=71  Identities=30%  Similarity=0.622  Sum_probs=66.6

Q ss_pred             CCccccccccccccCCCCCCCCccccc-----cEEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhh
Q psy11756         84 AGSPYCVEDYASLFLNKCQGCRLPIKD-----VVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEG  154 (233)
Q Consensus        84 ~~~~yC~~c~~~~~~~~C~~C~~~i~~-----~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~  154 (233)
                      ++++||+.||.++++++|.+|+++|.+     ..+.+.++.||+.||+|..|+++|.+..|+..+|++||..||.+
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 GSSGSSGDCYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYCPDCAKK   76 (77)
T ss_dssp             CCSSCCTTCCCSCCCCCCSSSCCCCCCCSSCCCEEEETTEEEETTTCBCSSSCCBCTTSCCCEETTEECCHHHHHH
T ss_pred             CCCeEchhHhchhhCccCcccCCcccCCCCCceeEEECcceeCcccCEehhcCCCCCCCccEeECCEEEChHHhcc
Confidence            468999999999999999999999986     68999999999999999999999998889999999999999865

>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=1.4e-17  Score=114.60  Aligned_cols=75  Identities=21%  Similarity=0.533  Sum_probs=66.3

Q ss_pred             CceechhhhhhccCCCCCCCCCCccccEEEEcCceecCCCCCcCCCCCCCCCCceEeeCC-eeeChhhhhccccCC
Q psy11756        144 GNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEA-DVVCVECSEKGREEG  218 (233)
Q Consensus       144 g~~~C~~c~~~~~~~~C~~C~~~I~~~~i~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~-~~~C~~C~~~~~~~~  218 (233)
                      +.+||..||.++++++|++|+++|.++.|.+.++.||++||+|..|+++|..+.++..++ .+||+.|+++.....
T Consensus         2 ~~~yC~~dy~~~~~~~C~~C~~~I~~~~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~~~~C~~C~~~~~~~~   77 (81)
T 1v6g_A            2 SSGSSGLDYQRLYGTRCFSCDQFIEGEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCSLPVSVSG   77 (81)
T ss_dssp             CCCCCCSCGGGSCCCBCTTTCCBCCSCCEEETTEEECTTTSSCSSSCCCCCSSSCEEEETTEEEEHHHHSCCSSCC
T ss_pred             CCCcchHHHHhHhCCcCccccCEeccceEEECCceeCccCCccccCCCCCCCCCEEEeCCCCEEChhhhcccCCCC
Confidence            468999999999999999999999998999999999999999999999997666666655 579999998766654

>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=99.70  E-value=6.6e-18  Score=116.29  Aligned_cols=71  Identities=25%  Similarity=0.636  Sum_probs=66.2

Q ss_pred             CCceechhhhhhccCCCCCCCCCCccccEEEEcCceecCCCCCcCCCCCCCCCCceEee-CCeeeChhhhhcc
Q psy11756        143 EGNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVC-EADVVCVECSEKG  214 (233)
Q Consensus       143 ~g~~~C~~c~~~~~~~~C~~C~~~I~~~~i~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~-~~~~~C~~C~~~~  214 (233)
                      +|++||..||. +++++|++|+++|.+..|.+.++.||++||+|..|+++|.+..|+.. +|+|||+.||.++
T Consensus         2 ~g~~yC~~~y~-~~~~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~g~~yC~~cy~~~   73 (81)
T 2dlo_A            2 SSGSSGEGCYV-ATLEKCATCSQPILDRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRK   73 (81)
T ss_dssp             CCCCCCCCCCC-SSCCBCTTTCCBCCSCCEEETTEEECTTTCBCSSSCCBCTTSCEECCTTCCCEEHHHHHHH
T ss_pred             cCCEECHHHhh-cCCCccccCCCeecceeEEECCccccHHhcCcccCCCccCCCeeEECCCCEEECHHHHHHH
Confidence            68999999998 79999999999999989999999999999999999999998888876 7899999999765

>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=99.69  E-value=5.4e-18  Score=116.71  Aligned_cols=74  Identities=26%  Similarity=0.534  Sum_probs=66.8

Q ss_pred             CCceechhhhhhccCCCCCCCCCCccccEEEEcCceecCCCCCcCCCCCCCC-CCceEe-eCCeeeChhhhhcccc
Q psy11756        143 EGNAFCTACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPIS-GPTFRV-CEADVVCVECSEKGRE  216 (233)
Q Consensus       143 ~g~~~C~~c~~~~~~~~C~~C~~~I~~~~i~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~-~~~~~~C~~C~~~~~~  216 (233)
                      ++.+||..||.++++++|++|+++|.+..|.+.++.||++||+|..|+++|. +..|+. .+++|||+.||.+...
T Consensus         1 g~~~yC~~~y~~~~~~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~~C~~c~~~~~~   76 (81)
T 1x6a_A            1 GSSGSSGKDYWGKFGEFCHGCSLLMTGPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVVS   76 (81)
T ss_dssp             CCCCCCCCCSSCCSSCBCTTTCCBCCSCCBCCTTCCBCTTSCBCTTTCCBCCTTSCEEECSSSCEEEHHHHHHHHC
T ss_pred             CCCccchhHHhhhcCCcCccCCCCcCceEEEECCceeccccCCccCCCCccCCCCcEEEeeCCEEECHHHHHHHhc
Confidence            3689999999999999999999999988899999999999999999999995 577774 7999999999987543

>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=99.67  E-value=3.1e-17  Score=111.47  Aligned_cols=70  Identities=29%  Similarity=0.594  Sum_probs=65.3

Q ss_pred             Ccccccccccc-ccEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccc-cccccccCCCCCCCCcccc
Q psy11756         40 PKCAACQGLIQ-NIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCV-EDYASLFLNKCQGCRLPIK  109 (233)
Q Consensus        40 ~~C~~C~~~I~-~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~-~c~~~~~~~~C~~C~~~i~  109 (233)
                      |+|.+|+++|. ++.|.++|+.||+.||+|..|+++|.+..|+.++|++||. .||.++++++|.+|++.+.
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 PKCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGFGRGGAES   72 (76)
T ss_dssp             CBCTTTSSBCCGGGEEEETTEEEETTTCBCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCCCSSCCCSSS
T ss_pred             CcCCCCCCEEECceEEEECCccccCCCCCccccCccCCCCceECcCCeEeeCHHHHHHHhCccCCCcCCcee
Confidence            58999999998 6889999999999999999999999988899999999999 6999999999999997663

>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=99.67  E-value=8.8e-17  Score=112.85  Aligned_cols=67  Identities=34%  Similarity=0.727  Sum_probs=62.6

Q ss_pred             CCCCCccccccccccccEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCCC
Q psy11756         36 STMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQ  102 (233)
Q Consensus        36 ~~~~~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~  102 (233)
                      ....++|.+|++.|.+++|.++++.||+.||+|..|+++|.+..|+.+++++||+.||.++|+++|.
T Consensus        22 ~~~~~~C~~C~~~I~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~c~   88 (90)
T 2dar_A           22 GKRTPMCAHCNQVIRGPFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFFASGPS   88 (90)
T ss_dssp             TTCCCBBSSSCCBCCSCEEEETTEEECTTTCBCSSSCCBCSSSCBEESSSCEECHHHHHHHTSCCCC
T ss_pred             CCCCCCCccCCCEecceEEEECCccccccCCccCCCCCCCCCCEeEeECCEEECHHHHHHHcCCCCC
Confidence            3456899999999999999999999999999999999999988899999999999999999999986

>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=99.65  E-value=1.8e-16  Score=111.04  Aligned_cols=66  Identities=26%  Similarity=0.519  Sum_probs=61.5

Q ss_pred             CCCCccccccccccccEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCCC
Q psy11756         37 TMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQ  102 (233)
Q Consensus        37 ~~~~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~  102 (233)
                      ...++|.+|++.|.+++|.++++.||+.||+|..|+++|.+..|+.+++++||+.||.++|++++.
T Consensus        23 ~~~~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~p~~~   88 (89)
T 1x64_A           23 QRMPLCDKCGSGIVGAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETHARARTSGPSS   88 (89)
T ss_dssp             CSCCBCTTTCCBCCSCCEESSSCEECTTTCCCSSSCCCTTTSCCEEETTEEECHHHHHHHSSSCCC
T ss_pred             CcCCCcccCCCEecccEEEECCceECccCCEecCCCCCCCCCCeEeECCEEECHHHHHHHhCCCCC
Confidence            445799999999999999999999999999999999999988899999999999999999998875

>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=99.65  E-value=8.1e-17  Score=107.35  Aligned_cols=67  Identities=25%  Similarity=0.565  Sum_probs=62.4

Q ss_pred             CCCCccccccccccccEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCCCC
Q psy11756         37 TMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQG  103 (233)
Q Consensus        37 ~~~~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~~  103 (233)
                      ...++|.+|+++|.++.|.++++.||+.||+|..|+++|.+..|+.+++++||..||.++++++|.+
T Consensus         3 ~~~~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~g   69 (69)
T 2cur_A            3 SGSSGCVKCNKAITSGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFVSGPSSG   69 (69)
T ss_dssp             CCCCCCSSSCCCCCTTCEEETTEEECTTTTBCTTTCCBCTTSCEEECSSCEEEHHHHHHHHTCSCCC
T ss_pred             CCcCCCcccCCEeCcceEEECccccccCcCEECCCCCCCCCCccEeECCEEECHHHhHHHhcCCCCC
Confidence            3457999999999998899999999999999999999999889999999999999999999999964

>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=99.64  E-value=1.4e-16  Score=108.23  Aligned_cols=67  Identities=19%  Similarity=0.452  Sum_probs=63.3

Q ss_pred             CCccccccccccc----cEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCCCCCC
Q psy11756         39 YPKCAACQGLIQN----IIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCR  105 (233)
Q Consensus        39 ~~~C~~C~~~I~~----~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~~C~  105 (233)
                      .++|.+|+++|.+    ++|.++++.||++||+|..|+++|.+..|+.+++++||+.||.++++++|..+.
T Consensus         5 ~~~C~~C~~~I~~~g~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~C~~~s   75 (76)
T 1x68_A            5 SSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCGSGMDTDISGPSS   75 (76)
T ss_dssp             CCCCTTTCCCCCTTTTCCEEEETTEEEEGGGCBCTTTCCBCSSSCEEEETTEEEETTTTCCCCCCSSSSSC
T ss_pred             CCCCccCCCcccCCCCceeEEECCcccCcccCChhhCCCcCCCCceEeECCEEECHHHhhhhhCCcCCCCC
Confidence            4799999999996    889999999999999999999999988999999999999999999999998875

>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=99.64  E-value=2.3e-16  Score=106.38  Aligned_cols=67  Identities=21%  Similarity=0.473  Sum_probs=61.0

Q ss_pred             hccCCCCCCCCCCccccEEEEcCceecCCCCCcCCCCCCCC-CCceEeeCCeeeChhhhhccccCCCC
Q psy11756        154 GKFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPIS-GPTFRVCEADVVCVECSEKGREEGKN  220 (233)
Q Consensus       154 ~~~~~~C~~C~~~I~~~~i~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~~~~~~C~~C~~~~~~~~~~  220 (233)
                      .+++++|++|+++|.+..|.+.++.||++||+|..|+++|. +..|+..++++||..||.+...+.+.
T Consensus         2 s~~~~~C~~C~~~I~~~~v~a~~~~wH~~CF~C~~C~~~L~~~~~f~~~~~~~yC~~C~~~~~~~~~~   69 (73)
T 1wig_A            2 SSGSSGCDSCEKYITGRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWHPACRQAARTEDSG   69 (73)
T ss_dssp             CCSCCSCSSSCCCCSSCCBCCSSCCBCTTTSCCSSSCCCCCSSCCCEEETTEEECTTHHHHTSSSSCC
T ss_pred             CcCcCCcccCCCEecCeeEEeCCCCCCCCcCEeCCCCCCCCCCCeeEeeCCEEEChHHChHhhccccc
Confidence            35789999999999999999999999999999999999997 88999999999999999988776543

>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=2.6e-16  Score=106.91  Aligned_cols=70  Identities=26%  Similarity=0.507  Sum_probs=65.2

Q ss_pred             cccCCCCCCCCccccc----cEEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCCCCC
Q psy11756         95 SLFLNKCQGCRLPIKD----VVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCG  164 (233)
Q Consensus        95 ~~~~~~C~~C~~~i~~----~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~~C~  164 (233)
                      ++++++|.+|+++|.+    ..+.+.++.||++||+|..|+++|.+..|+..++++||..||.++++++|+.+.
T Consensus         2 ~~~~~~C~~C~~~I~~~g~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~C~~~s   75 (76)
T 1x68_A            2 SSGSSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCGSGMDTDISGPSS   75 (76)
T ss_dssp             TTCCCCCTTTCCCCCTTTTCCEEEETTEEEEGGGCBCTTTCCBCSSSCEEEETTEEEETTTTCCCCCCSSSSSC
T ss_pred             CccCCCCccCCCcccCCCCceeEEECCcccCcccCChhhCCCcCCCCceEeECCEEECHHHhhhhhCCcCCCCC
Confidence            3568899999999987    689999999999999999999999988899999999999999999999999875

>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=99.63  E-value=2.8e-16  Score=107.84  Aligned_cols=66  Identities=30%  Similarity=0.668  Sum_probs=60.2

Q ss_pred             CCCCcccccccccc-ccEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCCCC
Q psy11756         37 TMYPKCAACQGLIQ-NIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQG  103 (233)
Q Consensus        37 ~~~~~C~~C~~~I~-~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~~  103 (233)
                      ...++|.+|+++|. +++|.++++.||+.||+|..|+++|.+ .|+.+++++||+.||.++|+++|..
T Consensus        13 ~~~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~-~~~~~~g~~yC~~~y~~~fg~~C~~   79 (80)
T 2dj7_A           13 RGPSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTG-EYISKDGVPYCESDYHAQFGSGPSS   79 (80)
T ss_dssp             SSCSCCTTTCCCCSSSCCEEETTEEECTTTCBCSSSCCBCSS-CCEEETTEEECTTHHHHHTTCCSTT
T ss_pred             CCCCCCcCcCCeeCCCeEEEECCcccccccCCcCcCCCCcCC-CeEEECCEEECHHHHHHHcCCCCCC
Confidence            34579999999997 588999999999999999999999986 6899999999999999999999863

>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=99.63  E-value=9.2e-17  Score=109.98  Aligned_cols=66  Identities=21%  Similarity=0.444  Sum_probs=60.9

Q ss_pred             CCCCccccccccccccEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCCC
Q psy11756         37 TMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQ  102 (233)
Q Consensus        37 ~~~~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~  102 (233)
                      ...++|.+|++.|.+++|.++++.||+.||+|..|+++|.+..|+.+++++||+.||.+++++++.
T Consensus        13 ~~~~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~p~g~   78 (79)
T 1x62_A           13 QKLPMCDKCGTGIVGVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEKHARERVSGPSS   78 (79)
T ss_dssp             CCCCCCSSSCCCCCSSCEECSSCEECTTTTSCSSSCCCHHHHCCEESSSCEECHHHHHHHHSSCCC
T ss_pred             CCCCccccCCCCccCcEEEECcceeCcCcCeeCCCCCCCCCCCeEeECCEEECHHHHHHHhCCCCC
Confidence            345799999999999999999999999999999999999877899999999999999999988764

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

Probab=99.63  E-value=5e-16  Score=105.46  Aligned_cols=71  Identities=35%  Similarity=0.757  Sum_probs=65.1

Q ss_pred             CCCCCCCcccc-ccEEecCCCeeecCCCCCCCCCcccccCceeccCCceech-hhhhhccCCCCCCCCCCccc
Q psy11756         99 NKCQGCRLPIK-DVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCT-ACYEGKFCPKCFGCGKPITE  169 (233)
Q Consensus        99 ~~C~~C~~~i~-~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~-~c~~~~~~~~C~~C~~~I~~  169 (233)
                      ++|.+|+++|. +..+.+.++.||+.||+|..|+++|.+..|+..+|.+||. .||.++++++|.+|+.++..
T Consensus         1 p~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~~~C~~C~~~~~~   73 (76)
T 1iml_A            1 PKCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGFGRGGAESH   73 (76)
T ss_dssp             CBCTTTSSBCCGGGEEEETTEEEETTTCBCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCCCSSCCCSSSC
T ss_pred             CcCCCCCCEEECceEEEECCccccCCCCCccccCccCCCCceECcCCeEeeCHHHHHHHhCccCCCcCCceee
Confidence            57999999997 6788999999999999999999999987899999999999 69999999999999977643

>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=99.63  E-value=1.9e-16  Score=105.76  Aligned_cols=66  Identities=26%  Similarity=0.560  Sum_probs=61.6

Q ss_pred             CCCccccccccccccEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCCCC
Q psy11756         38 MYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQG  103 (233)
Q Consensus        38 ~~~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~~  103 (233)
                      ..++|.+|+++|.++.|.++++.||+.||+|..|+++|.+..|+.+++++||..||.++++++|..
T Consensus         4 ~~~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~~   69 (70)
T 2d8z_A            4 GSSGCVQCKKPITTGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLYASGPSS   69 (70)
T ss_dssp             CCCBCSSSCCBCCSSEEESSSSEEETTTSBCSSSCCBCTTSCCEESSSSEECHHHHHHHTCCCCTT
T ss_pred             CCCCCcccCCeeccceEEECccccCCCCCccCCCCCcCCcCceEeeCCeEECHHHHHHHhccccCC
Confidence            457999999999998899999999999999999999999889999999999999999999999863

>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=99.62  E-value=8e-16  Score=102.73  Aligned_cols=67  Identities=28%  Similarity=0.566  Sum_probs=62.6

Q ss_pred             ccCCCCCCCCccccccEEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCCC
Q psy11756         96 LFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFG  162 (233)
Q Consensus        96 ~~~~~C~~C~~~i~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~~  162 (233)
                      .+.++|.+|+++|.++.+.+.++.||++||+|..|+++|.+..|+..++++||..||.++++++|++
T Consensus         3 ~~~~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~~   69 (70)
T 2d8z_A            3 SGSSGCVQCKKPITTGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLYASGPSS   69 (70)
T ss_dssp             CCCCBCSSSCCBCCSSEEESSSSEEETTTSBCSSSCCBCTTSCCEESSSSEECHHHHHHHTCCCCTT
T ss_pred             CCCCCCcccCCeeccceEEECccccCCCCCccCCCCCcCCcCceEeeCCeEECHHHHHHHhccccCC
Confidence            4578999999999988899999999999999999999999888999999999999999999999974

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

Probab=99.61  E-value=3.3e-16  Score=105.25  Aligned_cols=65  Identities=17%  Similarity=0.436  Sum_probs=59.8

Q ss_pred             CCCCccccccccccc----cEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCC
Q psy11756         37 TMYPKCAACQGLIQN----IIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC  101 (233)
Q Consensus        37 ~~~~~C~~C~~~I~~----~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C  101 (233)
                      ...++|.+|+++|.+    ++|.++++.||++||+|..|+++|.+..|+.+++++||..||.+++++++
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~p~~   71 (72)
T 1x4l_A            3 SGSSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGKDISGPSS   71 (72)
T ss_dssp             SCSCSBTTTTBCCCCSSSCSCEECSSCEECTTTCBCSSSCCBCTTSCCEECSSSEECHHHHHTCCCSSC
T ss_pred             CCCCCCcCCCccccCCCCcceEEECCcccCcccCEeccCCCcCCCCccEeECCEEEChhHcCcccCCCC
Confidence            345799999999986    78999999999999999999999998899999999999999999998875

>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=99.61  E-value=1e-16  Score=110.21  Aligned_cols=71  Identities=24%  Similarity=0.394  Sum_probs=56.4

Q ss_pred             CCCcccccccccc-ccEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCCCCCCccc
Q psy11756         38 MYPKCAACQGLIQ-NIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPI  108 (233)
Q Consensus        38 ~~~~C~~C~~~I~-~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~~C~~~i  108 (233)
                      ..++|.+|+++|. ++.|.++++.||+.||+|..|+++|....|+.+++++||+.||.++++++|.+|++..
T Consensus         6 ~~~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~gcg~g~   77 (81)
T 1a7i_A            6 GGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYGPKGYGYGQGA   77 (81)
T ss_dssp             --CBCSSSCCBCSSTTEEEETTEEEESSSEECSSSCCEECSSCCEEETTEEECSHHHHHHCC----------
T ss_pred             CCCcCcCcCccccCceeEEeCCcccccccCccCCCCCCCCCCCeEeeCCEEECHHHHHHHhCCcccccCCcc
Confidence            3579999999996 5889999999999999999999999988899999999999999999999999998753

>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=99.61  E-value=6.1e-16  Score=103.04  Aligned_cols=67  Identities=30%  Similarity=0.598  Sum_probs=62.7

Q ss_pred             ccCCCCCCCCccccccEEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCCC
Q psy11756         96 LFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFG  162 (233)
Q Consensus        96 ~~~~~C~~C~~~i~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~~  162 (233)
                      .+.++|.+|+++|.++.+.+.++.||++||+|..|+++|.+..|+..++++||..||.++++++|.+
T Consensus         3 ~~~~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~g   69 (69)
T 2cur_A            3 SGSSGCVKCNKAITSGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFVSGPSSG   69 (69)
T ss_dssp             CCCCCCSSSCCCCCTTCEEETTEEECTTTTBCTTTCCBCTTSCEEECSSCEEEHHHHHHHHTCSCCC
T ss_pred             CCcCCCcccCCEeCcceEEECccccccCcCEECCCCCCCCCCccEeECCEEECHHHhHHHhcCCCCC
Confidence            4568999999999988899999999999999999999999888999999999999999999999975

>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=99.61  E-value=7e-16  Score=106.03  Aligned_cols=73  Identities=30%  Similarity=0.507  Sum_probs=63.8

Q ss_pred             CccccccccccccCCCCCCCCccccccEEecCCCeeecCCCCCCCCCcccccCceeccCC-ceechhhhhhccC
Q psy11756         85 GSPYCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREG-NAFCTACYEGKFC  157 (233)
Q Consensus        85 ~~~yC~~c~~~~~~~~C~~C~~~i~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g-~~~C~~c~~~~~~  157 (233)
                      ..+||+.||.++++++|.+|+++|.+..|.+.++.||++||+|..|+++|....++..++ .+||..|+.+++.
T Consensus         2 ~~~yC~~dy~~~~~~~C~~C~~~I~~~~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~~~~C~~C~~~~~~   75 (81)
T 1v6g_A            2 SSGSSGLDYQRLYGTRCFSCDQFIEGEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCSLPVSV   75 (81)
T ss_dssp             CCCCCCSCGGGSCCCBCTTTCCBCCSCCEEETTEEECTTTSSCSSSCCCCCSSSCEEEETTEEEEHHHHSCCSS
T ss_pred             CCCcchHHHHhHhCCcCccccCEeccceEEECCceeCccCCccccCCCCCCCCCEEEeCCCCEEChhhhcccCC
Confidence            468999999999999999999999988999999999999999999999997555555555 5799999976653

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

Probab=99.60  E-value=1.3e-15  Score=106.87  Aligned_cols=75  Identities=29%  Similarity=0.630  Sum_probs=67.7

Q ss_pred             ccccccccccCCCCCCCCccccccEEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCCC
Q psy11756         88 YCVEDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFG  162 (233)
Q Consensus        88 yC~~c~~~~~~~~C~~C~~~i~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~~  162 (233)
                      .....+...+.++|.+|+++|.++.|.+.++.||++||+|..|+++|.+..|+..++++||..||.++|+++|+.
T Consensus        15 ~~~~~~~~~~~~~C~~C~~~I~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~c~s   89 (90)
T 2dar_A           15 RAEHIPAGKRTPMCAHCNQVIRGPFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFFASGPSS   89 (90)
T ss_dssp             CCEEECTTTCCCBBSSSCCBCCSCEEEETTEEECTTTCBCSSSCCBCSSSCBEESSSCEECHHHHHHHTSCCCCC
T ss_pred             hcccCCCCCCCCCCccCCCEecceEEEECCccccccCCccCCCCCCCCCCEeEeECCEEECHHHHHHHcCCCCCC
Confidence            344446677789999999999988999999999999999999999999888999999999999999999999974

>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=99.60  E-value=1.2e-15  Score=102.41  Aligned_cols=68  Identities=28%  Similarity=0.574  Sum_probs=62.8

Q ss_pred             cccCCCCCCCCcccc--ccEEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCCC
Q psy11756         95 SLFLNKCQGCRLPIK--DVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFG  162 (233)
Q Consensus        95 ~~~~~~C~~C~~~i~--~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~~  162 (233)
                      +++.++|.+|+++|.  +.++.+.++.||++||+|..|+++|.+..|+..+|.+||..||.++++++|+.
T Consensus         2 ~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~~   71 (72)
T 1wyh_A            2 SSGSSGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFASGPSS   71 (72)
T ss_dssp             CCCCCBCSSSCCBCCSSSCEECSTTCCEETTTCBCTTTCCBTTTSCEEEETTEEEEHHHHHHHTSCCCCC
T ss_pred             CccCCCCccCCCccccCccEEEECccccCcccCeECCCCCcCCCCccCCcCCeEECHHHHHHHccCcCCC
Confidence            456789999999997  56899999999999999999999999888999999999999999999999974

>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=7.2e-16  Score=104.66  Aligned_cols=66  Identities=29%  Similarity=0.611  Sum_probs=61.0

Q ss_pred             CCCcccccccccc-ccEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccc-cccccccCCCCCC
Q psy11756         38 MYPKCAACQGLIQ-NIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCV-EDYASLFLNKCQG  103 (233)
Q Consensus        38 ~~~~C~~C~~~I~-~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~-~c~~~~~~~~C~~  103 (233)
                      ..++|.+|+++|. ++.|.++++.||+.||+|..|+++|.+..|+.+++++||. .||.++|+++|.+
T Consensus         8 ~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~~kc~g   75 (76)
T 2cu8_A            8 MASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFGSGPSS   75 (76)
T ss_dssp             CCCBCTTTCCBCCTTTEEEETTEEEETTTCBCSSSCCBCCTTSCEEETTEEECTTTHHHHHSCSSCSC
T ss_pred             CCCCCcCCCCEeECCeEEEECCeEeeCCCCCCCCCCCccCCCceEeECCEEecchHHHHHhcccccCC
Confidence            4579999999998 5889999999999999999999999988899999999999 7999999999864

>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=99.59  E-value=1.8e-15  Score=101.50  Aligned_cols=68  Identities=25%  Similarity=0.548  Sum_probs=62.4

Q ss_pred             cccCCCCCCCCccccc--cEEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCCC
Q psy11756         95 SLFLNKCQGCRLPIKD--VVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFG  162 (233)
Q Consensus        95 ~~~~~~C~~C~~~i~~--~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~~  162 (233)
                      ++++++|.+|+++|.+  .++.+.++.||++||+|..|+++|.+..|+..+|++||..||.++++++|+.
T Consensus         2 ~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~~   71 (72)
T 1x4k_A            2 SSGSSGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQHASGPSS   71 (72)
T ss_dssp             CSCCCCBSSSCCCCCSSSCEEEETTEEEETTTTCCSSSCCCCCSSSEEEETTEEEEHHHHHHHTSSCCCC
T ss_pred             CccCCCCccCCCcccCCceEEEECcCeecccCCcccccCCccCCCccCccCCeEECHHHHhHHhCCCCCC
Confidence            3568899999999974  5899999999999999999999999888999999999999999999999974

>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=99.59  E-value=6.7e-16  Score=103.64  Aligned_cols=65  Identities=26%  Similarity=0.586  Sum_probs=60.6

Q ss_pred             CCCcccccccccc--ccEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCCC
Q psy11756         38 MYPKCAACQGLIQ--NIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQ  102 (233)
Q Consensus        38 ~~~~C~~C~~~I~--~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~  102 (233)
                      ..++|.+|+++|.  +++|.++++.||+.||+|..|+++|.+..|+.+++++||+.||.++++++|.
T Consensus         4 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~   70 (72)
T 1wyh_A            4 GSSGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFASGPS   70 (72)
T ss_dssp             CCCBCSSSCCBCCSSSCEECSTTCCEETTTCBCTTTCCBTTTSCEEEETTEEEEHHHHHHHTSCCCC
T ss_pred             cCCCCccCCCccccCccEEEECccccCcccCeECCCCCcCCCCccCCcCCeEECHHHHHHHccCcCC
Confidence            3479999999998  5789999999999999999999999988899999999999999999999986

>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=99.59  E-value=4.8e-16  Score=102.65  Aligned_cols=63  Identities=35%  Similarity=0.759  Sum_probs=58.6

Q ss_pred             CCCccccccccccccEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCC
Q psy11756         38 MYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNK  100 (233)
Q Consensus        38 ~~~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~  100 (233)
                      ..++|.+|+++|.+++|.++++.||+.||+|..|+++|.+..|+.++|++||+.||.++|+++
T Consensus         4 ~~~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~k   66 (66)
T 1nyp_A            4 GVPICGACRRPIEGRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLFGDV   66 (66)
T ss_dssp             CCCEETTTTEECCSCEECCTTSBEETTTCBCTTTCCBCSSSCCEEETTEEECHHHHHHHCSCC
T ss_pred             CCCCCcccCCEecceEEEECccccccCcCEECCCCCCCCCCceEeECCcEECHHHHHHHhCCC
Confidence            357999999999999999999999999999999999999889999999999999999988763

>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=99.58  E-value=8.2e-16  Score=102.70  Aligned_cols=65  Identities=26%  Similarity=0.523  Sum_probs=59.8

Q ss_pred             CCCCccccccccccccEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCC
Q psy11756         37 TMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKC  101 (233)
Q Consensus        37 ~~~~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C  101 (233)
                      ...++|.+|++.|.+++|.++++.||++||+|..|+++|.+..|+.+++++||+.||.+++.+..
T Consensus         3 ~~~~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~   67 (70)
T 2d8x_A            3 SGSSGCHQCGEFIIGRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNREKASGP   67 (70)
T ss_dssp             CCSSBCSSSCCBCCSCCEEETTEEECTTTSBCSSSCCBCSSSCCEEETTEEECHHHHHHHHCCCS
T ss_pred             CCCCcCccCCCEecceEEEECcccccccCCEeCCCCCcCCCCccEeECCeEECHHHhhhhcCCCC
Confidence            34579999999999999999999999999999999999998889999999999999999887654

>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=99.58  E-value=1.2e-15  Score=102.36  Aligned_cols=64  Identities=23%  Similarity=0.526  Sum_probs=60.1

Q ss_pred             CCccccccccccc--cEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCCC
Q psy11756         39 YPKCAACQGLIQN--IIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQ  102 (233)
Q Consensus        39 ~~~C~~C~~~I~~--~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~  102 (233)
                      .++|.+|++.|.+  .+|.++++.||+.||+|..|+++|.+..|+.+++++||+.||.++++++|.
T Consensus         5 ~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~   70 (72)
T 1x4k_A            5 SSGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQHASGPS   70 (72)
T ss_dssp             CCCBSSSCCCCCSSSCEEEETTEEEETTTTCCSSSCCCCCSSSEEEETTEEEEHHHHHHHTSSCCC
T ss_pred             CCCCccCCCcccCCceEEEECcCeecccCCcccccCCccCCCccCccCCeEECHHHHhHHhCCCCC
Confidence            4799999999985  689999999999999999999999988999999999999999999999986

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

Probab=99.57  E-value=2.5e-15  Score=98.95  Aligned_cols=59  Identities=31%  Similarity=0.738  Sum_probs=54.5

Q ss_pred             cCCCCCCCCCCcc--ccEEEEcCceec--CCCCCcCCCCCCCCCCceEeeCCeeeC-hhhhhcc
Q psy11756        156 FCPKCFGCGKPIT--ETAIKVHDRKWH--EACFRCGRCRRPISGPTFRVCEADVVC-VECSEKG  214 (233)
Q Consensus       156 ~~~~C~~C~~~I~--~~~i~~~~~~~H--~~Cf~C~~C~~~l~~~~~~~~~~~~~C-~~C~~~~  214 (233)
                      |+++|++|+++|.  +..|.+.|+.||  ++||+|..|+++|.+..|+..+|+||| ..|+.++
T Consensus         1 fa~~C~~C~~~I~~~~~~v~a~~~~wH~~~~CF~C~~C~~~L~~~~f~~~~g~~yC~~~C~~k~   64 (65)
T 2iyb_E            1 HAVVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKRM   64 (65)
T ss_dssp             -CEECTTTSSEECTTSCEEEETTEEEETTTTTSBCTTTCCBCTTSCCEEETTEEESSHHHHHTT
T ss_pred             CcCCCcCCCCeeccCceEEEECCCccCCCCCCEECCCCCCcCCCCceEEECCEEecCHHHhhhh
Confidence            4679999999998  678999999999  999999999999999999999999999 9999875

>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=99.57  E-value=3.2e-15  Score=102.26  Aligned_cols=66  Identities=18%  Similarity=0.437  Sum_probs=59.3

Q ss_pred             CCCCCccccccccccccEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCCC
Q psy11756         36 STMYPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQ  102 (233)
Q Consensus        36 ~~~~~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~  102 (233)
                      ....++|.+|++.|.+++|.++++.||+.||+|..|+++|.+.. +.+++++||..||.++|++.+.
T Consensus        12 ~~~~~~C~~C~~~I~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~-f~~~g~~yC~~cy~~~f~p~~s   77 (79)
T 2cor_A           12 GLGKYICQKCHAIIDEQPLIFKNDPYHPDHFNCANCGKELTADA-RELKGELYCLPCHDKMGVSGPS   77 (79)
T ss_dssp             CCCCCBCTTTCCBCCSCCCCCSSSCCCTTTSBCSSSCCBCCTTC-EEETTEEECHHHHHTTSCCSSC
T ss_pred             ccCCCCCccCCCEecceEEEECcceeCCCCCEeCCCCCccCCCC-EeECCEEeCHHHHHHhCCCCCC
Confidence            44468999999999998999999999999999999999999775 5999999999999999987653

>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=99.56  E-value=2.4e-15  Score=99.27  Aligned_cols=64  Identities=38%  Similarity=0.802  Sum_probs=59.8

Q ss_pred             ccCCCCCCCCccccccEEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCC
Q psy11756         96 LFLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPK  159 (233)
Q Consensus        96 ~~~~~C~~C~~~i~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~  159 (233)
                      ++.++|.+|+++|.+..+.+.++.||++||+|..|+++|.+..|+..+|.+||..||.++|+++
T Consensus         3 ~~~~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~k   66 (66)
T 1nyp_A            3 MGVPICGACRRPIEGRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLFGDV   66 (66)
T ss_dssp             CCCCEETTTTEECCSCEECCTTSBEETTTCBCTTTCCBCSSSCCEEETTEEECHHHHHHHCSCC
T ss_pred             cCCCCCcccCCEecceEEEECccccccCcCEECCCCCCCCCCceEeECCcEECHHHHHHHhCCC
Confidence            4678999999999988999999999999999999999999888999999999999999999875

>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=99.56  E-value=5.5e-15  Score=101.82  Aligned_cols=66  Identities=17%  Similarity=0.303  Sum_probs=57.7

Q ss_pred             CCCCccccccccccc-cEeeecCCCcCcCCCccCCCCCCCCCCcee--eeCCccccccccccccCCCCC
Q psy11756         37 TMYPKCAACQGLIQN-IIVQALDKTWHPEHFRCTHCRIPIATQKFH--VHAGSPYCVEDYASLFLNKCQ  102 (233)
Q Consensus        37 ~~~~~C~~C~~~I~~-~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~--~~~~~~yC~~c~~~~~~~~C~  102 (233)
                      ...++|.+|++.|.. +.|.++++.||+.||+|..|+++|....|+  .+++++||+.||.+++...+.
T Consensus        13 ~~~~~C~~C~~~I~~~e~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~~~~   81 (82)
T 2co8_A           13 GAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQTDSGPSS   81 (82)
T ss_dssp             CSSCBCSSSCCBCCTTTBCCBTTBCCBTTTCBCSSSCCBCCTTSEECCTTTCCCEETTTCCCCCCCCCC
T ss_pred             CCCCCCcccCCCcccceEEEECCCeeCCCcCEEcCCCCCcCCCceeEeCcCCEEEChHHHHhhhcCCCC
Confidence            345799999999965 788899999999999999999999988887  479999999999998876543

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

Probab=99.56  E-value=1.4e-15  Score=103.44  Aligned_cols=66  Identities=24%  Similarity=0.500  Sum_probs=58.9

Q ss_pred             CCCCcccccccccc--ccEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCCC
Q psy11756         37 TMYPKCAACQGLIQ--NIIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQ  102 (233)
Q Consensus        37 ~~~~~C~~C~~~I~--~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~  102 (233)
                      ...++|.+|++.|.  +.++.++|+.||+.||+|..|+++|.+..|+.++|++||+.||.++++++|.
T Consensus         9 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~~C~   76 (77)
T 1g47_A            9 LASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAPCWI   76 (77)
T ss_dssp             CCCCBCSSSCCBCCSTTTCEEETTEEECTTTCCCTTTCCCCGGGCSEEETTEEECHHHHHHHCCCC--
T ss_pred             CCCCCchhcCCccCCCceEEEeCccEeccccCeECCCCCCCCCCCeEeECCeEeCHHHHHHHhhcccC
Confidence            34579999999996  3678899999999999999999999988899999999999999999999885

>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=99.55  E-value=5.1e-15  Score=100.44  Aligned_cols=68  Identities=28%  Similarity=0.571  Sum_probs=62.2

Q ss_pred             cccCCCCCCCCcccc-ccEEecCCCeeecCCCCCCCCCcccccCceeccCCceech-hhhhhccCCCCCC
Q psy11756         95 SLFLNKCQGCRLPIK-DVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCT-ACYEGKFCPKCFG  162 (233)
Q Consensus        95 ~~~~~~C~~C~~~i~-~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~-~c~~~~~~~~C~~  162 (233)
                      ..+.++|.+|+++|. +..+.+.++.||++||+|..|+++|.+..|+..++++||. .||.++++++|.+
T Consensus         6 ~~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~~kc~g   75 (76)
T 2cu8_A            6 SGMASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFGSGPSS   75 (76)
T ss_dssp             CCCCCBCTTTCCBCCTTTEEEETTEEEETTTCBCSSSCCBCCTTSCEEETTEEECTTTHHHHHSCSSCSC
T ss_pred             CCCCCCCcCCCCEeECCeEEEECCeEeeCCCCCCCCCCCccCCCceEeECCEEecchHHHHHhcccccCC
Confidence            345789999999997 6688999999999999999999999988899999999999 7999999999974

>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=99.55  E-value=6e-15  Score=98.44  Aligned_cols=63  Identities=25%  Similarity=0.651  Sum_probs=57.2

Q ss_pred             ccCCCCCCCCCCccccEEEEcCceecCCCCCcCCCCCCCCCCceEeeCCeeeChhhhhccccC
Q psy11756        155 KFCPKCFGCGKPITETAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSEKGREE  217 (233)
Q Consensus       155 ~~~~~C~~C~~~I~~~~i~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~~~  217 (233)
                      .+.++|.+|+++|.+..|.+.++.||++||+|..|+++|.+..|+..+|++||+.||.+....
T Consensus         3 ~~~~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~   65 (70)
T 2d8x_A            3 SGSSGCHQCGEFIIGRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNREKAS   65 (70)
T ss_dssp             CCSSBCSSSCCBCCSCCEEETTEEECTTTSBCSSSCCBCSSSCCEEETTEEECHHHHHHHHCC
T ss_pred             CCCCcCccCCCEecceEEEECcccccccCCEeCCCCCcCCCCccEeECCeEECHHHhhhhcCC
Confidence            346799999999999899999999999999999999999888899999999999999876543

>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=99.55  E-value=2.3e-15  Score=103.43  Aligned_cols=70  Identities=26%  Similarity=0.570  Sum_probs=55.8

Q ss_pred             cCCCCCCCCcccc-ccEEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCCCCCCC
Q psy11756         97 FLNKCQGCRLPIK-DVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKP  166 (233)
Q Consensus        97 ~~~~C~~C~~~i~-~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~~C~~~  166 (233)
                      ..++|.+|+++|. +..+.+.++.||++||+|..|+++|.+..|+..++++||..||.++++++|.+|+..
T Consensus         6 ~~~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~gcg~g   76 (81)
T 1a7i_A            6 GGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYGPKGYGYGQG   76 (81)
T ss_dssp             --CBCSSSCCBCSSTTEEEETTEEEESSSEECSSSCCEECSSCCEEETTEEECSHHHHHHCC---------
T ss_pred             CCCcCcCcCccccCceeEEeCCcccccccCccCCCCCCCCCCCeEeeCCEEECHHHHHHHhCCcccccCCc
Confidence            3578999999995 668899999999999999999999988889999999999999999999999999865

>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=99.55  E-value=5.2e-15  Score=103.94  Aligned_cols=67  Identities=22%  Similarity=0.438  Sum_probs=61.6

Q ss_pred             CCCccccccccccc-cEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCCCCC
Q psy11756         38 MYPKCAACQGLIQN-IIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGC  104 (233)
Q Consensus        38 ~~~~C~~C~~~I~~-~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~~C  104 (233)
                      ..++|.+|++.|.+ +.|.++++.||+.||+|..|+++|....|+.+++++||+.||.++++++|.-+
T Consensus        14 ~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~kc~~~   81 (91)
T 2d8y_A           14 ARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNYD   81 (91)
T ss_dssp             SSCBCTTTCCBCCTTSEEECSSSEEETTTCBCTTTCCBCCTTTCCCSSSCCCCHHHHHHHSCCCSCCC
T ss_pred             CCCcCccCCCccCCceeEEECCCEECCCCCeeCCCCCCCCCCCcEeECCEEECHHHHHHHhCCCcCcc
Confidence            45799999999986 78899999999999999999999998889999999999999999999999733

>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=99.54  E-value=5.6e-15  Score=99.50  Aligned_cols=61  Identities=18%  Similarity=0.354  Sum_probs=56.5

Q ss_pred             CCccccccccccccEeeecCCCcCcCCCccCCCCCCCC-CCceeeeCCccccccccccccCC
Q psy11756         39 YPKCAACQGLIQNIIVQALDKTWHPEHFRCTHCRIPIA-TQKFHVHAGSPYCVEDYASLFLN   99 (233)
Q Consensus        39 ~~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~~~~~yC~~c~~~~~~~   99 (233)
                      .+.|.+|+++|.+++|.++++.||++||+|..|+++|. +..|+.+++++||..||.+++..
T Consensus         5 ~~~C~~C~~~I~~~~v~a~~~~wH~~CF~C~~C~~~L~~~~~f~~~~~~~yC~~C~~~~~~~   66 (73)
T 1wig_A            5 SSGCDSCEKYITGRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWHPACRQAARTE   66 (73)
T ss_dssp             CCSCSSSCCCCSSCCBCCSSCCBCTTTSCCSSSCCCCCSSCCCEEETTEEECTTHHHHTSSS
T ss_pred             cCCcccCCCEecCeeEEeCCCCCCCCcCEeCCCCCCCCCCCeeEeeCCEEEChHHChHhhcc
Confidence            47999999999999999999999999999999999998 67899999999999999887654

>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=99.54  E-value=9.3e-15  Score=98.05  Aligned_cols=65  Identities=26%  Similarity=0.608  Sum_probs=59.9

Q ss_pred             ccCCCCCCCCccccc----cEEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCC
Q psy11756         96 LFLNKCQGCRLPIKD----VVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKC  160 (233)
Q Consensus        96 ~~~~~C~~C~~~i~~----~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C  160 (233)
                      .+.++|.+|+++|.+    .++.+.++.||++||+|..|+++|.+..|+..+|++||..||.+++++++
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~p~~   71 (72)
T 1x4l_A            3 SGSSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGKDISGPSS   71 (72)
T ss_dssp             SCSCSBTTTTBCCCCSSSCSCEECSSCEECTTTCBCSSSCCBCTTSCCEECSSSEECHHHHHTCCCSSC
T ss_pred             CCCCCCcCCCccccCCCCcceEEECCcccCcccCEeccCCCcCCCCccEeECCEEEChhHcCcccCCCC
Confidence            356899999999986    68899999999999999999999998889999999999999999999875

>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=99.53  E-value=9.5e-15  Score=97.97  Aligned_cols=63  Identities=29%  Similarity=0.638  Sum_probs=57.2

Q ss_pred             ccCCCCCCCCCCccc--cEEEEcCceecCCCCCcCCCCCCCCCCceEeeCCeeeChhhhhccccC
Q psy11756        155 KFCPKCFGCGKPITE--TAIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSEKGREE  217 (233)
Q Consensus       155 ~~~~~C~~C~~~I~~--~~i~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~~~  217 (233)
                      +++++|.+|+++|.+  ..|.+.++.||++||+|..|+++|.+..|+..++.|||+.||.++...
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~~~~   67 (72)
T 1x61_A            3 SGSSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVATLES   67 (72)
T ss_dssp             SCCCCCSSSCSCCCSSSCCEECSSSEECTTTCBCSSSCCBCTTSCEEESSSCEEEHHHHHHHHHT
T ss_pred             CCCCCCccCCCccCCCceEEEECCCeEcccCCcccccCCcCCcCcCEeeCCeEECHHHHHHHHcc
Confidence            467899999999975  579999999999999999999999888899999999999999887654

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

Probab=99.51  E-value=1.1e-14  Score=99.01  Aligned_cols=66  Identities=26%  Similarity=0.548  Sum_probs=58.9

Q ss_pred             ccCCCCCCCCcccc--ccEEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCC
Q psy11756         96 LFLNKCQGCRLPIK--DVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF  161 (233)
Q Consensus        96 ~~~~~C~~C~~~i~--~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~  161 (233)
                      .+.++|.+|+++|.  +.++.+.++.||+.||+|..|+++|.+..|+..+|.+||..||.++++++|.
T Consensus         9 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~~C~   76 (77)
T 1g47_A            9 LASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAPCWI   76 (77)
T ss_dssp             CCCCBCSSSCCBCCSTTTCEEETTEEECTTTCCCTTTCCCCGGGCSEEETTEEECHHHHHHHCCCC--
T ss_pred             CCCCCchhcCCccCCCceEEEeCccEeccccCeECCCCCCCCCCCeEeECCeEeCHHHHHHHhhcccC
Confidence            45689999999995  4578899999999999999999999877899999999999999999999986

>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=99.50  E-value=1.4e-14  Score=107.34  Aligned_cols=63  Identities=27%  Similarity=0.673  Sum_probs=56.2

Q ss_pred             CCCCCcccccccccccc-EeeecCCCcCcCCCccCCCCCCCC--CCceeeeCCccccccccccccC
Q psy11756         36 STMYPKCAACQGLIQNI-IVQALDKTWHPEHFRCTHCRIPIA--TQKFHVHAGSPYCVEDYASLFL   98 (233)
Q Consensus        36 ~~~~~~C~~C~~~I~~~-~~~~~~~~~H~~Cf~C~~C~~~l~--~~~~~~~~~~~yC~~c~~~~~~   98 (233)
                      ....++|.+|+++|.+. +|.++++.||+.||+|..|+++|.  +..|+.++|++||+.||.++|+
T Consensus        58 ~~~~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~~g~~f~~~dg~~yC~~cy~~~Fg  123 (123)
T 2l4z_A           58 GLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG  123 (123)
T ss_dssp             CSSCSBBSSSSSBCCSSSEEEETTEEEETTTSBCTTTCCBGGGTTCCCBCSSSCCBCHHHHHHHCC
T ss_pred             CccCCcCcCCCCCcCCcEEEEeCCcEEcccccCcCcCCCcccccCCceEEECCEEeCHHHhhhhcC
Confidence            34467999999999985 699999999999999999999997  3689999999999999998764

>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=99.50  E-value=1.9e-14  Score=98.59  Aligned_cols=64  Identities=27%  Similarity=0.642  Sum_probs=58.8

Q ss_pred             CCCCCCCCcccc-ccEEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCCC
Q psy11756         98 LNKCQGCRLPIK-DVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFG  162 (233)
Q Consensus        98 ~~~C~~C~~~i~-~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~~  162 (233)
                      .++|.+|+++|. +..+.++++.||++||+|..|+++|.+ .|+..++++||..||.++|+++|.+
T Consensus        15 ~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~-~~~~~~g~~yC~~~y~~~fg~~C~~   79 (80)
T 2dj7_A           15 PSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTG-EYISKDGVPYCESDYHAQFGSGPSS   79 (80)
T ss_dssp             CSCCTTTCCCCSSSCCEEETTEEECTTTCBCSSSCCBCSS-CCEEETTEEECTTHHHHHTTCCSTT
T ss_pred             CCCCcCcCCeeCCCeEEEECCcccccccCCcCcCCCCcCC-CeEEECCEEECHHHHHHHcCCCCCC
Confidence            468999999996 568889999999999999999999985 6899999999999999999999974

>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=99.50  E-value=1.3e-14  Score=99.16  Aligned_cols=64  Identities=28%  Similarity=0.561  Sum_probs=60.0

Q ss_pred             CCCCCCCCccccccEEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCC
Q psy11756         98 LNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF  161 (233)
Q Consensus        98 ~~~C~~C~~~i~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~  161 (233)
                      .++|.+|+++|.+.+|.+.++.||++||+|..|+++|.+..|+..++++||..||.+++++++.
T Consensus        15 ~~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~p~g~   78 (79)
T 1x62_A           15 LPMCDKCGTGIVGVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEKHARERVSGPSS   78 (79)
T ss_dssp             CCCCSSSCCCCCSSCEECSSCEECTTTTSCSSSCCCHHHHCCEESSSCEECHHHHHHHHSSCCC
T ss_pred             CCccccCCCCccCcEEEECcceeCcCcCeeCCCCCCCCCCCeEeECCEEECHHHHHHHhCCCCC
Confidence            5799999999998899999999999999999999999877899999999999999999999865

>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=99.49  E-value=2.3e-14  Score=95.91  Aligned_cols=62  Identities=19%  Similarity=0.423  Sum_probs=55.2

Q ss_pred             hhccCCCCCCCCCCcccc--EEEEcCceecCCCCCcCCCCCCCCCCceEeeCCeeeChhhhhcc
Q psy11756        153 EGKFCPKCFGCGKPITET--AIKVHDRKWHEACFRCGRCRRPISGPTFRVCEADVVCVECSEKG  214 (233)
Q Consensus       153 ~~~~~~~C~~C~~~I~~~--~i~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~  214 (233)
                      ...++++|++|+++|.+.  .|.+.++.||++||+|..|+++|.++.|+..+|++||+.||.++
T Consensus         7 ~~~~~~~C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~l   70 (72)
T 3f6q_B            7 QGSASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQML   70 (72)
T ss_dssp             CCCTTCBCTTTCCBCCTTCEEEEETTEEEETTTSSCTTTCCCCGGGCCEEETTEEECHHHHHHH
T ss_pred             cCcCCccchhcCccccCCceEEEeCcCeeCcCCCcccCCCCCCCCCCeEeECCeEeCHHHHHHh
Confidence            456788999999999854  57799999999999999999999877899999999999999764

>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=99.49  E-value=1.1e-14  Score=97.68  Aligned_cols=64  Identities=25%  Similarity=0.458  Sum_probs=57.0

Q ss_pred             CCCccccccccccc--cEeeecCCCcCcCCCccCCCCCCCCCCceeeeCCccccccccccccCCCCC
Q psy11756         38 MYPKCAACQGLIQN--IIVQALDKTWHPEHFRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQ  102 (233)
Q Consensus        38 ~~~~C~~C~~~I~~--~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~  102 (233)
                      ..++|.+|+++|.+  .+|.++++.||+.||+|..|+++|.+..|+.+++++||+.||.+++. .|.
T Consensus         4 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~~~-~~~   69 (72)
T 1x61_A            4 GSSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVATLE-SGP   69 (72)
T ss_dssp             CCCCCSSSCSCCCSSSCCEECSSSEECTTTCBCSSSCCBCTTSCEEESSSCEEEHHHHHHHHH-TCS
T ss_pred             CCCCCccCCCccCCCceEEEECCCeEcccCCcccccCCcCCcCcCEeeCCeEECHHHHHHHHc-cCC
Confidence            35799999999985  58999999999999999999999988889999999999999998763 443

>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=99.49  E-value=3.2e-14  Score=99.45  Aligned_cols=64  Identities=28%  Similarity=0.574  Sum_probs=60.1

Q ss_pred             CCCCCCCCccccccEEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCC
Q psy11756         98 LNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF  161 (233)
Q Consensus        98 ~~~C~~C~~~i~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~  161 (233)
                      .++|.+|+++|.+..+.+.++.||++||+|..|+++|.+..|+..++.+||..||.++|++++.
T Consensus        25 ~~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~p~~~   88 (89)
T 1x64_A           25 MPLCDKCGSGIVGAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETHARARTSGPSS   88 (89)
T ss_dssp             CCBCTTTCCBCCSCCEESSSCEECTTTCCCSSSCCCTTTSCCEEETTEEECHHHHHHHSSSCCC
T ss_pred             CCCcccCCCEecccEEEECCceECccCCEecCCCCCCCCCCeEeECCEEECHHHHHHHhCCCCC
Confidence            5789999999998889999999999999999999999877899999999999999999999875

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

Probab=99.47  E-value=4.2e-14  Score=96.64  Aligned_cols=64  Identities=28%  Similarity=0.533  Sum_probs=58.2

Q ss_pred             cCCCCCCCCccccccEEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCC
Q psy11756         97 FLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCF  161 (233)
Q Consensus        97 ~~~~C~~C~~~i~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~  161 (233)
                      +.++|.+|+++|.+..|.+.++.||++||+|..|+++|.+.. +..+|++||..||.+++++++.
T Consensus        14 ~~~~C~~C~~~I~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~-f~~~g~~yC~~cy~~~f~p~~s   77 (79)
T 2cor_A           14 GKYICQKCHAIIDEQPLIFKNDPYHPDHFNCANCGKELTADA-RELKGELYCLPCHDKMGVSGPS   77 (79)
T ss_dssp             CCCBCTTTCCBCCSCCCCCSSSCCCTTTSBCSSSCCBCCTTC-EEETTEEECHHHHHTTSCCSSC
T ss_pred             CCCCCccCCCEecceEEEECcceeCCCCCEeCCCCCccCCCC-EeECCEEeCHHHHHHhCCCCCC
Confidence            467999999999988899999999999999999999998764 5889999999999999998754

>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=99.45  E-value=9.4e-14  Score=97.44  Aligned_cols=67  Identities=21%  Similarity=0.360  Sum_probs=61.2

Q ss_pred             cCCCCCCCCccccc-cEEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccCCCCCCC
Q psy11756         97 FLNKCQGCRLPIKD-VVVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGC  163 (233)
Q Consensus        97 ~~~~C~~C~~~i~~-~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~~C  163 (233)
                      ..++|.+|+++|.+ ..+.+.++.||+.||+|..|+++|....|+..++.+||..||.++++++|.-+
T Consensus        14 ~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~kc~~~   81 (91)
T 2d8y_A           14 ARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNYD   81 (91)
T ss_dssp             SSCBCTTTCCBCCTTSEEECSSSEEETTTCBCTTTCCBCCTTTCCCSSSCCCCHHHHHHHSCCCSCCC
T ss_pred             CCCcCccCCCccCCceeEEECCCEECCCCCeeCCCCCCCCCCCcEeECCEEECHHHHHHHhCCCcCcc
Confidence            46799999999975 57899999999999999999999987779999999999999999999999844

>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=1.3e-13  Score=92.10  Aligned_cols=64  Identities=23%  Similarity=0.501  Sum_probs=56.9

Q ss_pred             ccccCCCCCCCCcccccc--EEecCCCeeecCCCCCCCCCcccccCceeccCCceechhhhhhccC
Q psy11756         94 ASLFLNKCQGCRLPIKDV--VVTALNQTWHPDHFVCISCGTKLLYKGFYEREGNAFCTACYEGKFC  157 (233)
Q Consensus        94 ~~~~~~~C~~C~~~i~~~--~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~  157 (233)
                      ...+.++|.+|+++|...  ++.+.++.||+.||+|..|+++|.+..|+..+|++||..||.++|+
T Consensus         7 ~~~~~~~C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~lf~   72 (72)
T 3f6q_B            7 QGSASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA   72 (72)
T ss_dssp             CCCTTCBCTTTCCBCCTTCEEEEETTEEEETTTSSCTTTCCCCGGGCCEEETTEEECHHHHHHHTC
T ss_pred             cCcCCccchhcCccccCCceEEEeCcCeeCcCCCcccCCCCCCCCCCeEeECCeEeCHHHHHHhhC
Confidence            346678999999999743  6789999999999999999999987789999999999999998875

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

Probab=99.41  E-value=1.6e-13  Score=90.09  Aligned_cols=59  Identities=34%  Similarity=0.669  Sum_probs=53.4

Q ss_pred             cCCCCCCCCcccc--ccEEecCCCeee--cCCCCCCCCCcccccCceeccCCceec-hhhhhhc
Q psy11756         97 FLNKCQGCRLPIK--DVVVTALNQTWH--PDHFVCISCGTKLLYKGFYEREGNAFC-TACYEGK  155 (233)
Q Consensus        97 ~~~~C~~C~~~i~--~~~~~~~~~~~H--~~Cf~C~~C~~~l~~~~~~~~~g~~~C-~~c~~~~  155 (233)
                      |+++|.+|+++|.  +..|.+.++.||  ++||+|..|+++|.+..|+..+|++|| ..||.++
T Consensus         1 fa~~C~~C~~~I~~~~~~v~a~~~~wH~~~~CF~C~~C~~~L~~~~f~~~~g~~yC~~~C~~k~   64 (65)
T 2iyb_E            1 HAVVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKRM   64 (65)
T ss_dssp             -CEECTTTSSEECTTSCEEEETTEEEETTTTTSBCTTTCCBCTTSCCEEETTEEESSHHHHHTT
T ss_pred             CcCCCcCCCCeeccCceEEEECCCccCCCCCCEECCCCCCcCCCCceEEECCEEecCHHHhhhh
Confidence            3578999999998  679999999999  999999999999998889999999999 8998654

>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=99.40  E-value=1e-13  Score=102.70  Aligned_cols=61  Identities=23%  Similarity=0.603  Sum_probs=54.8

Q ss_pred             hccCCCCCCCCCCcccc-EEEEcCceecCCCCCcCCCCCCCC--CCceEeeCCeeeChhhhhcc
Q psy11756        154 GKFCPKCFGCGKPITET-AIKVHDRKWHEACFRCGRCRRPIS--GPTFRVCEADVVCVECSEKG  214 (233)
Q Consensus       154 ~~~~~~C~~C~~~I~~~-~i~~~~~~~H~~Cf~C~~C~~~l~--~~~~~~~~~~~~C~~C~~~~  214 (233)
                      ..++++|++|+++|.+. .|.+.++.||+.||+|..|++.|.  +..|+..+|.|||+.||.++
T Consensus        58 ~~~~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~~g~~f~~~dg~~yC~~cy~~~  121 (123)
T 2l4z_A           58 GLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL  121 (123)
T ss_dssp             CSSCSBBSSSSSBCCSSSEEEETTEEEETTTSBCTTTCCBGGGTTCCCBCSSSCCBCHHHHHHH
T ss_pred             CccCCcCcCCCCCcCCcEEEEeCCcEEcccccCcCcCCCcccccCCceEEECCEEeCHHHhhhh
Confidence            45578999999999887 489999999999999999999995  57899999999999999764

>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=99.31  E-value=1.5e-12  Score=89.45  Aligned_cols=63  Identities=16%  Similarity=0.296  Sum_probs=55.3

Q ss_pred             CCCCCCCCcccc-ccEEecCCCeeecCCCCCCCCCcccccCcee--ccCCceechhhhhhccCCCC
Q psy11756         98 LNKCQGCRLPIK-DVVVTALNQTWHPDHFVCISCGTKLLYKGFY--EREGNAFCTACYEGKFCPKC  160 (233)
Q Consensus        98 ~~~C~~C~~~i~-~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~--~~~g~~~C~~c~~~~~~~~C  160 (233)
                      .++|.+|+++|. ...+.+.++.||+.||+|..|+++|....|+  ..+|++||..||.++++..+
T Consensus        15 ~~~C~~C~~~I~~~e~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~~~   80 (82)
T 2co8_A           15 GDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQTDSGPS   80 (82)
T ss_dssp             SCBCSSSCCBCCTTTBCCBTTBCCBTTTCBCSSSCCBCCTTSEECCTTTCCCEETTTCCCCCCCCC
T ss_pred             CCCCcccCCCcccceEEEECCCeeCCCcCEEcCCCCCcCCCceeEeCcCCEEEChHHHHhhhcCCC
Confidence            468999999995 4577899999999999999999999887787  47999999999999887654

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

Probab=97.75  E-value=9e-06  Score=44.66  Aligned_cols=28  Identities=39%  Similarity=0.807  Sum_probs=25.1

Q ss_pred             CCccccccccccc-cEeeecCCCcCcCCC
Q psy11756         39 YPKCAACQGLIQN-IIVQALDKTWHPEHF   66 (233)
Q Consensus        39 ~~~C~~C~~~I~~-~~~~~~~~~~H~~Cf   66 (233)
                      .+.|..|++.|+. +.+.+.|+.||..||
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            4689999999987 778899999999998

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

Probab=97.36  E-value=3.5e-05  Score=42.26  Aligned_cols=28  Identities=39%  Similarity=0.981  Sum_probs=24.0

Q ss_pred             CCCCCCCCCCcc-ccEEEEcCceecCCCC
Q psy11756        157 CPKCFGCGKPIT-ETAIKVHDRKWHEACF  184 (233)
Q Consensus       157 ~~~C~~C~~~I~-~~~i~~~~~~~H~~Cf  184 (233)
                      .++|++|++.|- .+.|.+.|+.||..||
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            568999999995 3568889999999998

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

Probab=92.22  E-value=0.08  Score=38.09  Aligned_cols=105  Identities=19%  Similarity=0.334  Sum_probs=62.1

Q ss_pred             CCccCCCCCCCCCC------ceeeeCCccccccccccc--cCCCCCCCCccccccEEecCCCeeecCCCCCCCCCccccc
Q psy11756         65 HFRCTHCRIPIATQ------KFHVHAGSPYCVEDYASL--FLNKCQGCRLPIKDVVVTALNQTWHPDHFVCISCGTKLLY  136 (233)
Q Consensus        65 Cf~C~~C~~~l~~~------~~~~~~~~~yC~~c~~~~--~~~~C~~C~~~i~~~~~~~~~~~~H~~Cf~C~~C~~~l~~  136 (233)
                      =+.|..|...+.+.      .....=|..||..|..+.  ....|..|++.+....+..  ...-..-..|..|...+..
T Consensus         7 ~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~l~~--l~i~~~~~~C~iC~~~~~~   84 (133)
T 4ap4_A            7 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHP--IYIGSGTVSCPICMDGYSE   84 (133)
T ss_dssp             SCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTCEEE--CBCSSSSCBCTTTCCBHHH
T ss_pred             CCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCccccccc--cccCCCCCCCCCCCCcccc
Confidence            36788887766431      133455778888887553  2357888888885442211  1112344667888776642


Q ss_pred             C------ceeccCCceechhhhhh--ccCCCCCCCCCCccccE
Q psy11756        137 K------GFYEREGNAFCTACYEG--KFCPKCFGCGKPITETA  171 (233)
Q Consensus       137 ~------~~~~~~g~~~C~~c~~~--~~~~~C~~C~~~I~~~~  171 (233)
                      .      .....=|..||..|..+  .....|+.|...|..+.
T Consensus        85 ~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~  127 (133)
T 4ap4_A           85 IVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR  127 (133)
T ss_dssp             HHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             ccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChhc
Confidence            1      12334577888888643  22457777777775543

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

Probab=90.21  E-value=0.22  Score=35.66  Aligned_cols=90  Identities=19%  Similarity=0.412  Sum_probs=57.5

Q ss_pred             CCcccccccccccc-------EeeecCCCcCcCCC--------ccCCCCCCCCCCceeeeCCccccccccccccCCCCCC
Q psy11756         39 YPKCAACQGLIQNI-------IVQALDKTWHPEHF--------RCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQG  103 (233)
Q Consensus        39 ~~~C~~C~~~I~~~-------~~~~~~~~~H~~Cf--------~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~~  103 (233)
                      ...|..|...+...       ++..-|-.||..|+        .|..|++.+........         +.......|..
T Consensus         7 ~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~l~~l---------~i~~~~~~C~i   77 (133)
T 4ap4_A            7 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPI---------YIGSGTVSCPI   77 (133)
T ss_dssp             SCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTCEEEC---------BCSSSSCBCTT
T ss_pred             CCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCcccccccc---------ccCCCCCCCCC
Confidence            35799998877543       44445777777775        89999999986543221         11122356777


Q ss_pred             CCcccccc-------EEecCCCeeecCCC--------CCCCCCcccccC
Q psy11756        104 CRLPIKDV-------VVTALNQTWHPDHF--------VCISCGTKLLYK  137 (233)
Q Consensus       104 C~~~i~~~-------~~~~~~~~~H~~Cf--------~C~~C~~~l~~~  137 (233)
                      |...+...       .+..-+..||..|.        .|..|+.++...
T Consensus        78 C~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  126 (133)
T 4ap4_A           78 CMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK  126 (133)
T ss_dssp             TCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCChh
Confidence            77766432       44455777887774        688888877643

---

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	233
d1x3ha1	35	g.39.1.3 (A:8-42) Leupaxin {Human (Homo sapiens) [	8e-09
d1x3ha1	35	g.39.1.3 (A:8-42) Leupaxin {Human (Homo sapiens) [	3e-06
d1x3ha1	35	g.39.1.3 (A:8-42) Leupaxin {Human (Homo sapiens) [	6e-06
d2dara2	45	g.39.1.3 (A:8-52) PDZ and LIM domain protein 5, En	2e-07
d2dara2	45	g.39.1.3 (A:8-52) PDZ and LIM domain protein 5, En	3e-07
d2cuqa2	35	g.39.1.3 (A:8-42) Four and a half LIM domains 3, F	7e-07
d1u5sb1	31	g.39.1.3 (B:72-102) Pinch (particularly interestin	1e-06
d1u5sb1	31	g.39.1.3 (B:72-102) Pinch (particularly interestin	2e-06
d1g47a2	35	g.39.1.3 (A:36-70) Pinch (particularly interesting	2e-05
d1g47a2	35	g.39.1.3 (A:36-70) Pinch (particularly interesting	6e-05
d1x63a1	37	g.39.1.3 (A:8-44) Four and a half LIM domains prot	1e-04
d1b8ta4	49	g.39.1.3 (A:144-192) Cysteine-rich (intestinal) pr	0.001
d2cuqa1	32	g.39.1.3 (A:43-74) Four and a half LIM domains 3,	0.002
d1j2oa1	30	g.39.1.3 (A:1-30) Rhombotin-2 (Lmo2) {Mouse (Mus m	0.003

>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 = 47.7 bits (114), Expect = 8e-09
 Identities = 12/35 (34%), Positives = 23/35 (65%)

Query: 91  EDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHF 125
           +D+ ++F  KC GC  P+ +  ++A++  WHP+ F
Sbjct: 1   KDFLAMFSPKCGGCNRPVLENYLSAMDTVWHPECF 35

>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 = 40.8 bits (96), Expect = 3e-06
 Identities = 13/33 (39%), Positives = 17/33 (51%)

Query: 152 YEGKFCPKCFGCGKPITETAIKVHDRKWHEACF 184
           +   F PKC GC +P+ E  +   D  WH  CF
Sbjct: 3   FLAMFSPKCGGCNRPVLENYLSAMDTVWHPECF 35

>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 = 39.6 bits (93), Expect = 6e-06
 Identities = 11/27 (40%), Positives = 14/27 (51%)

Query: 40 PKCAACQGLIQNIIVQALDKTWHPEHF 66
          PKC  C   +    + A+D  WHPE F
Sbjct: 9  PKCGGCNRPVLENYLSAMDTVWHPECF 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 = 44.4 bits (105), Expect = 2e-07
 Identities = 14/33 (42%), Positives = 18/33 (54%)

Query: 34 AASTMYPKCAACQGLIQNIIVQALDKTWHPEHF 66
           A    P CA C  +I+   + AL K+WHPE F
Sbjct: 13 PAGKRTPMCAHCNQVIRGPFLVALGKSWHPEEF 45

>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 = 43.6 bits (103), Expect = 3e-07
 Identities = 9/26 (34%), Positives = 14/26 (53%)

Query: 100 KCQGCRLPIKDVVVTALNQTWHPDHF 125
            C  C   I+   + AL ++WHP+ F
Sbjct: 20  MCAHCNQVIRGPFLVALGKSWHPEEF 45

>d2cuqa2 g.39.1.3 (A:8-42) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]} Length = 35

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.4 bits (100), Expect = 7e-07
 Identities = 14/34 (41%), Positives = 19/34 (55%)

Query: 151 CYEGKFCPKCFGCGKPITETAIKVHDRKWHEACF 184
           CYE KF P+C  C K +T+  +   D+ WH  C 
Sbjct: 2   CYENKFAPRCARCSKTLTQGGVTYRDQPWHRECL 35

>d1u5sb1 g.39.1.3 (B:72-102) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]} Length = 31

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

 Score = 42.0 bits (99), Expect = 1e-06
 Identities = 12/26 (46%), Positives = 16/26 (61%)

Query: 40 PKCAACQGLIQNIIVQALDKTWHPEH 65
          P C AC+  I+  +V A+ K WH EH
Sbjct: 6  PICGACRRPIEGRVVNAMGKQWHVEH 31

>d1u5sb1 g.39.1.3 (B:72-102) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]} Length = 31

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

 Score = 41.3 bits (97), Expect = 2e-06
 Identities = 11/29 (37%), Positives = 17/29 (58%)

Query: 96  LFLNKCQGCRLPIKDVVVTALNQTWHPDH 124
           + +  C  CR PI+  VV A+ + WH +H
Sbjct: 3   MGVPICGACRRPIEGRVVNAMGKQWHVEH 31

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

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

 Score = 38.2 bits (89), Expect = 2e-05
 Identities = 10/32 (31%), Positives = 12/32 (37%)

Query: 66 FRCTHCRIPIATQKFHVHAGSPYCVEDYASLF 97
          F C  C        F+   G  YC  D+  LF
Sbjct: 1  FVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 32

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

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

 Score = 37.0 bits (86), Expect = 6e-05
 Identities = 12/34 (35%), Positives = 16/34 (47%)

Query: 125 FVCISCGTKLLYKGFYEREGNAFCTACYEGKFCP 158
           FVC  C  +     FYE EG  +C   ++  F P
Sbjct: 1   FVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAP 34

>d1x63a1 g.39.1.3 (A:8-44) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]} Length = 37

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.3 bits (84), Expect = 1e-04
 Identities = 13/36 (36%), Positives = 15/36 (41%), Gaps = 2/36 (5%)

Query: 151 CYEGKFCPKCFGCGKPITETAIKVH--DRKWHEACF 184
           C   +  PKC GC K I      V      WH+ CF
Sbjct: 2   CTTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCF 37

>d1b8ta4 g.39.1.3 (A:144-192) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]} Length = 49

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

 Score = 33.9 bits (78), Expect = 0.001
 Identities = 14/38 (36%), Positives = 18/38 (47%)

Query: 127 CISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCG 164
           C  CG  L      +++G  +C  CY   F PK FG G
Sbjct: 2   CAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKGFGFG 39

>d2cuqa1 g.39.1.3 (A:43-74) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]} Length = 32

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 32.5 bits (74), Expect = 0.002
 Identities = 13/30 (43%), Positives = 17/30 (56%)

Query: 68 CTHCRIPIATQKFHVHAGSPYCVEDYASLF 97
          CT C+ P+A Q+F      PYCV  +  LF
Sbjct: 2  CTGCQTPLAGQQFTSRDEDPYCVACFGELF 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 = 32.4 bits (74), Expect = 0.003
 Identities = 10/27 (37%), Positives = 13/27 (48%), Gaps = 1/27 (3%)

Query: 158 PKCFGCGKPITETAI-KVHDRKWHEAC 183
             C GC + I +    K  D+ WHE C
Sbjct: 4   LTCGGCQQNIGDRYFLKAIDQYWHEDC 30

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	233
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	99.23
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	99.08
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	99.0
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.74
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.72
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	98.69
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	98.66
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	98.65
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.64
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	98.62
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	98.61
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	98.6
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	98.45
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	98.43
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	98.43
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	98.4
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	98.31
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	98.31
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.29
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	98.28
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	98.27
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	98.26
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	98.22
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	98.2
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	98.18
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	98.17
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	98.17
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.05
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	98.04
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.02
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	98.01
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.99
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	97.97
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.96
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	97.95
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.93
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	97.92
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	97.88
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.87
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	97.86
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	97.86
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.86
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.83
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	97.83
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.83
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	97.82
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	97.82
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	97.82
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.8
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	97.78
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	97.78
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	97.76
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	97.76
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	97.75
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	97.75
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	97.74
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.74
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.71
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.71
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.7
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.66
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	97.66
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	97.65
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.65
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	97.61
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	97.56
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.56
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	97.5
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.5
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	97.49
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	97.48
d2co8a2	36	Nedd9 interacting protein with calponin homology,	97.48
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	97.48
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	97.47
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.46
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.4
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	97.39
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	97.37
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.3
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	97.24
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.22
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.22
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.19
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.17
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.17
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.16
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.13
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.02
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.94
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.84
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.82
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	96.71
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	96.71
d2co8a2	36	Nedd9 interacting protein with calponin homology,	96.68
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	96.63
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	96.48
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	96.42
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	96.34
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	96.28
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.26
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	96.23
d1rutx4	33	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	96.17
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	95.92
d1x61a1	27	Thyroid receptor interacting protein 6, TRIP6 {Hum	95.86
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	95.65
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	95.64
d2cora1	31	Pinch (particularly interesting new Cys-His) prote	95.58
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	95.54
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	95.52
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	95.44
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	95.38
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	95.19
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	95.17
d1x61a1	27	Thyroid receptor interacting protein 6, TRIP6 {Hum	95.13
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	95.07
d1x68a2	34	Four and a half LIM domains protein 5, FHL-5 {Huma	94.7
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	94.68
d1rutx2	34	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	94.39
d1v6ga2	40	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	93.86
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	93.38
d1rutx4	33	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	93.21
d2cora1	31	Pinch (particularly interesting new Cys-His) prote	93.18
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	93.04
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	92.87
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	92.87
d1rutx2	34	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	92.61
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	92.31
d1x4la2	30	Four and a half LIM domains protein 2, FHL2 {Human	90.67
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	90.63
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	89.39
d1v6ga2	40	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	88.59
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	88.52
d2co8a1	33	Nedd9 interacting protein with calponin homology,	86.09
d1x68a2	34	Four and a half LIM domains protein 5, FHL-5 {Huma	85.34
d1j2oa2	33	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	81.56

>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=99.23  E-value=1.6e-12  Score=72.30  Aligned_cols=34  Identities=38%  Similarity=0.956  Sum_probs=32.7

Q ss_pred             hhhhccCCCCCCCCCCccccEEEEcCceecCCCC
Q psy11756        151 CYEGKFCPKCFGCGKPITETAIKVHDRKWHEACF  184 (233)
Q Consensus       151 c~~~~~~~~C~~C~~~I~~~~i~~~~~~~H~~Cf  184 (233)
                      +|.++|+++|.+|+++|+++.|+|+|+.||++||
T Consensus         2 DY~~~fapkC~~C~~~I~g~~v~Al~~~wHpeCF   35 (35)
T d1x3ha1           2 DFLAMFSPKCGGCNRPVLENYLSAMDTVWHPECF   35 (35)
T ss_dssp             CCCCCCSCBCTTTCCBCCSSCEEETTEEECTTTC
T ss_pred             cHHHHhChhhhhcCCcccchheeecCCccCcccC
Confidence            5789999999999999999999999999999998

>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=99.08  E-value=2.2e-11  Score=67.67  Aligned_cols=35  Identities=34%  Similarity=0.975  Sum_probs=33.5

Q ss_pred             cccccccCCCCCCCCccccccEEecCCCeeecCCC
Q psy11756         91 EDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHF  125 (233)
Q Consensus        91 ~c~~~~~~~~C~~C~~~i~~~~~~~~~~~~H~~Cf  125 (233)
                      +||.++|+++|.+|+++|.+.+|+|+++.||++||
T Consensus         1 ~DY~~~fapkC~~C~~~I~g~~v~Al~~~wHpeCF   35 (35)
T d1x3ha1           1 KDFLAMFSPKCGGCNRPVLENYLSAMDTVWHPECF   35 (35)
T ss_dssp             CCCCCCCSCBCTTTCCBCCSSCEEETTEEECTTTC
T ss_pred             CcHHHHhChhhhhcCCcccchheeecCCccCcccC
Confidence            47999999999999999999999999999999998

>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=99.00  E-value=6.7e-11  Score=63.82  Aligned_cols=35  Identities=40%  Similarity=1.111  Sum_probs=33.5

Q ss_pred             hhhhhccCCCCCCCCCCccccEEEEcCceecCCCC
Q psy11756        150 ACYEGKFCPKCFGCGKPITETAIKVHDRKWHEACF  184 (233)
Q Consensus       150 ~c~~~~~~~~C~~C~~~I~~~~i~~~~~~~H~~Cf  184 (233)
                      .||...|+++|..|+++|+.+.|++.++.||.+||
T Consensus         1 PCyE~kfa~~C~~Ckk~It~GGvtY~dqpWHkeCF   35 (35)
T d2cuqa2           1 PCYENKFAPRCARCSKTLTQGGVTYRDQPWHRECL   35 (35)
T ss_dssp             CCCCCCSSCCCTTTCCCCCSCCEESSSSEECTTTC
T ss_pred             CchHHHHHHHHhhcCCccccCceeecCCcchhhhC
Confidence            47899999999999999999999999999999998

>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=98.74  E-value=2.4e-09  Score=61.40  Aligned_cols=31  Identities=42%  Similarity=0.901  Sum_probs=28.5

Q ss_pred             CCCCCccccccccccccEeeecCCCcCcCCC
Q psy11756         36 STMYPKCAACQGLIQNIIVQALDKTWHPEHF   66 (233)
Q Consensus        36 ~~~~~~C~~C~~~I~~~~~~~~~~~~H~~Cf   66 (233)
                      ....|+|.+|+++|.+++|.|+|+.|||+||
T Consensus        15 ~~r~P~C~~C~~pI~g~~vtAlgk~WHPEhF   45 (45)
T d2dara2          15 GKRTPMCAHCNQVIRGPFLVALGKSWHPEEF   45 (45)
T ss_dssp             TTCCCBBSSSCCBCCSCEEEETTEEECTTTC
T ss_pred             CCCCeeccccCCcccCceeeecCCccCcCCC
Confidence            3456899999999999999999999999998

>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=4.2e-09  Score=56.67  Aligned_cols=35  Identities=26%  Similarity=0.539  Sum_probs=33.4

Q ss_pred             cccccccCCCCCCCCccccccEEecCCCeeecCCC
Q psy11756         91 EDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHF  125 (233)
Q Consensus        91 ~c~~~~~~~~C~~C~~~i~~~~~~~~~~~~H~~Cf  125 (233)
                      +||++.|+.+|..|+++|....|+..++.||.+||
T Consensus         1 PCyE~kfa~~C~~Ckk~It~GGvtY~dqpWHkeCF   35 (35)
T d2cuqa2           1 PCYENKFAPRCARCSKTLTQGGVTYRDQPWHRECL   35 (35)
T ss_dssp             CCCCCCSSCCCTTTCCCCCSCCEESSSSEECTTTC
T ss_pred             CchHHHHHHHHhhcCCccccCceeecCCcchhhhC
Confidence            58999999999999999999999999999999998

>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=98.66  E-value=5.5e-09  Score=57.62  Aligned_cols=34  Identities=35%  Similarity=0.732  Sum_probs=32.6

Q ss_pred             CCCCCCCcccccCceeccCCceechhhhhhccCC
Q psy11756        125 FVCISCGTKLLYKGFYEREGNAFCTACYEGKFCP  158 (233)
Q Consensus       125 f~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~  158 (233)
                      |+|..|+++|.+..|++++|++||..||.++|+|
T Consensus         1 F~C~~C~~~f~~~~F~e~~G~pYCe~~Y~~lFAP   34 (35)
T d1g47a2           1 FVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAP   34 (35)
T ss_dssp             CCCTTTCCCCGGGCSEEETTEEECHHHHHHHCCC
T ss_pred             CCCCCCcCCCCCCCeEEECCEecChHhHHhhcCC
Confidence            7899999999999999999999999999999986

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

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

Probab=98.65  E-value=1.9e-09  Score=59.51  Aligned_cols=34  Identities=29%  Similarity=0.648  Sum_probs=32.4

Q ss_pred             CccCCCCCCCCCCceeeeCCccccccccccccCC
Q psy11756         66 FRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLN   99 (233)
Q Consensus        66 f~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~   99 (233)
                      |+|+.|+++|.+..|+.++|++||+.||.++|+|
T Consensus         1 F~C~~C~~~f~~~~F~e~~G~pYCe~~Y~~lFAP   34 (35)
T d1g47a2           1 FVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAP   34 (35)
T ss_dssp             CCCTTTCCCCGGGCSEEETTEEECHHHHHHHCCC
T ss_pred             CCCCCCcCCCCCCCeEEECCEecChHhHHhhcCC
Confidence            7999999999999999999999999999999875

>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=98.64  E-value=7.4e-09  Score=59.35  Aligned_cols=28  Identities=25%  Similarity=0.617  Sum_probs=26.8

Q ss_pred             CCCCCCCCCCccccEEEEcCceecCCCC
Q psy11756        157 CPKCFGCGKPITETAIKVHDRKWHEACF  184 (233)
Q Consensus       157 ~~~C~~C~~~I~~~~i~~~~~~~H~~Cf  184 (233)
                      .++|+.|+++|.+..|+++|+.||++||
T Consensus        18 ~P~C~~C~~pI~g~~vtAlgk~WHPEhF   45 (45)
T d2dara2          18 TPMCAHCNQVIRGPFLVALGKSWHPEEF   45 (45)
T ss_dssp             CCBBSSSCCBCCSCEEEETTEEECTTTC
T ss_pred             CeeccccCCcccCceeeecCCccCcCCC
Confidence            5789999999999999999999999998

>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=98.62  E-value=1.1e-08  Score=57.56  Aligned_cols=34  Identities=21%  Similarity=0.631  Sum_probs=32.4

Q ss_pred             hhhhhccCCCCCCCCCCccccEEEEcCceecCCC
Q psy11756        150 ACYEGKFCPKCFGCGKPITETAIKVHDRKWHEAC  183 (233)
Q Consensus       150 ~c~~~~~~~~C~~C~~~I~~~~i~~~~~~~H~~C  183 (233)
                      .+|+++|+.+|..|.+.|++++|+++++.|||+|
T Consensus         8 ~DYq~~fG~~C~~C~~~ItG~V~~Ag~~~yHP~C   41 (41)
T d1v6ga1           8 LDYQRLYGTRCFSCDQFIEGEVVSALGKTYHPDC   41 (41)
T ss_dssp             SCGGGSCCCBCTTTCCBCCSCCEEETTEEECTTT
T ss_pred             ccHHHHhCcccccccCEeeeeeeEecCcccCCCC
Confidence            4689999999999999999999999999999998

>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=98.61  E-value=6.9e-09  Score=57.56  Aligned_cols=35  Identities=34%  Similarity=0.815  Sum_probs=31.6

Q ss_pred             hhhhhccCCCCCCCCCCccc--cEEEEcCceecCCCC
Q psy11756        150 ACYEGKFCPKCFGCGKPITE--TAIKVHDRKWHEACF  184 (233)
Q Consensus       150 ~c~~~~~~~~C~~C~~~I~~--~~i~~~~~~~H~~Cf  184 (233)
                      .||.+.++++|.+|.++|..  +.|.+.|+.||..||
T Consensus         1 kCy~~~~a~~C~~C~k~I~~G~k~veykg~~WHe~CF   37 (37)
T d1x63a1           1 KCTTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCF   37 (37)
T ss_dssp             CCCSCCCSCBCSSSCCBCCSSSCEEECSSCEEETTTC
T ss_pred             CccccccCcccccCCCccCCCCeEeEeCCccchhccC
Confidence            37889999999999999964  569999999999998

>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=98.60  E-value=9.7e-09  Score=55.49  Aligned_cols=33  Identities=30%  Similarity=0.856  Sum_probs=29.0

Q ss_pred             hhhhccCCCCCCCCCCccccEEEEcCceecCCCC
Q psy11756        151 CYEGKFCPKCFGCGKPITETAIKVHDRKWHEACF  184 (233)
Q Consensus       151 c~~~~~~~~C~~C~~~I~~~~i~~~~~~~H~~Cf  184 (233)
                      ||. ....+|..|+++|++..|+|.|+.|||.||
T Consensus         3 Cy~-~tlEkC~~C~~~I~driLrA~Gk~yHP~CF   35 (35)
T d2dloa1           3 CYV-ATLEKCATCSQPILDRILRAMGKAYHPGCF   35 (35)
T ss_dssp             CCC-SSCCBCTTTCCBCCSCCEEETTEEECTTTC
T ss_pred             hHH-HHHHHHHHhchHHHHHHHHHhCCCCCCCCC
Confidence            443 335799999999999999999999999998

>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=98.45  E-value=4.6e-08  Score=52.79  Aligned_cols=34  Identities=35%  Similarity=0.782  Sum_probs=30.1

Q ss_pred             cccccccCCCCCCCCccccccEEecCCCeeecCCC
Q psy11756         91 EDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDHF  125 (233)
Q Consensus        91 ~c~~~~~~~~C~~C~~~i~~~~~~~~~~~~H~~Cf  125 (233)
                      .||... ..+|..|+++|.++++.+.|+.||+.||
T Consensus         2 ~Cy~~t-lEkC~~C~~~I~driLrA~Gk~yHP~CF   35 (35)
T d2dloa1           2 GCYVAT-LEKCATCSQPILDRILRAMGKAYHPGCF   35 (35)
T ss_dssp             CCCCSS-CCBCTTTCCBCCSCCEEETTEEECTTTC
T ss_pred             hhHHHH-HHHHHHhchHHHHHHHHHhCCCCCCCCC
Confidence            466553 5799999999999999999999999998

>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=98.43  E-value=3.1e-08  Score=51.75  Aligned_cols=29  Identities=41%  Similarity=0.825  Sum_probs=26.4

Q ss_pred             CCCCccccccccccccEeeecCCCcCcCC
Q psy11756         37 TMYPKCAACQGLIQNIIVQALDKTWHPEH   65 (233)
Q Consensus        37 ~~~~~C~~C~~~I~~~~~~~~~~~~H~~C   65 (233)
                      ...|+|+.|+++|.+++|.++|+.||++.
T Consensus         3 mg~p~C~~C~~PI~~~~vtAlgk~WHpEH   31 (31)
T d1u5sb1           3 MGVPICGACRRPIEGRVVNAMGKQWHVEH   31 (31)
T ss_dssp             CCCCEETTTTEECCSCEECCTTSBEETTT
T ss_pred             cCCcchhhcCCchhhhHhhhhccccCCCC
Confidence            45689999999999999999999999974

>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=98.40  E-value=2.6e-08  Score=52.08  Aligned_cols=30  Identities=23%  Similarity=0.599  Sum_probs=27.1

Q ss_pred             hccCCCCCCCCCCccccEEEEcCceecCCC
Q psy11756        154 GKFCPKCFGCGKPITETAIKVHDRKWHEAC  183 (233)
Q Consensus       154 ~~~~~~C~~C~~~I~~~~i~~~~~~~H~~C  183 (233)
                      +++.++|+.|++||+++.|+++|+.||+++
T Consensus         2 kmg~p~C~~C~~PI~~~~vtAlgk~WHpEH   31 (31)
T d1u5sb1           2 SMGVPICGACRRPIEGRVVNAMGKQWHVEH   31 (31)
T ss_dssp             CCCCCEETTTTEECCSCEECCTTSBEETTT
T ss_pred             CcCCcchhhcCCchhhhHhhhhccccCCCC
Confidence            456789999999999999999999999974

>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=98.31  E-value=2.5e-07  Score=51.13  Aligned_cols=35  Identities=29%  Similarity=0.413  Sum_probs=31.6

Q ss_pred             cccccccCCCCCCCCccccc--cEEecCCCeeecCCC
Q psy11756         91 EDYASLFLNKCQGCRLPIKD--VVVTALNQTWHPDHF  125 (233)
Q Consensus        91 ~c~~~~~~~~C~~C~~~i~~--~~~~~~~~~~H~~Cf  125 (233)
                      +||.+.++++|.+|+++|..  +.|.+.+..||..||
T Consensus         1 kCy~~~~a~~C~~C~k~I~~G~k~veykg~~WHe~CF   37 (37)
T d1x63a1           1 KCTTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCF   37 (37)
T ss_dssp             CCCSCCCSCBCSSSCCBCCSSSCEEECSSCEEETTTC
T ss_pred             CccccccCcccccCCCccCCCCeEeEeCCccchhccC
Confidence            48999999999999999953  489999999999998

>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=98.29  E-value=1.5e-07  Score=55.18  Aligned_cols=40  Identities=28%  Similarity=0.483  Sum_probs=37.1

Q ss_pred             ccCCCCCCCCCCceeeeCCccccccccccccCCCCCCCCc
Q psy11756         67 RCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRL  106 (233)
Q Consensus        67 ~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~~C~~  106 (233)
                      +|..|++.|++.....+++++||+.||.++|+|+..+.++
T Consensus         1 KC~~C~k~Lds~t~~ehdg~~YCk~CY~k~fGPKG~g~G~   40 (49)
T d1b8ta4           1 RCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKGFGFGQ   40 (49)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHTCCCCCCCCC
T ss_pred             ChhhcCCccCCCcccccCCcccchhhhhhccCCCccCccc
Confidence            6899999999999999999999999999999999888764

>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=98.28  E-value=2e-07  Score=52.29  Aligned_cols=34  Identities=41%  Similarity=0.744  Sum_probs=32.5

Q ss_pred             cccccccCCCCCCCCccccccEEecCCCeeecCC
Q psy11756         91 EDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDH  124 (233)
Q Consensus        91 ~c~~~~~~~~C~~C~~~i~~~~~~~~~~~~H~~C  124 (233)
                      .||+++|+.+|..|++.|.+.+|.+.++.||+.|
T Consensus         8 ~DYq~~fG~~C~~C~~~ItG~V~~Ag~~~yHP~C   41 (41)
T d1v6ga1           8 LDYQRLYGTRCFSCDQFIEGEVVSALGKTYHPDC   41 (41)
T ss_dssp             SCGGGSCCCBCTTTCCBCCSCCEEETTEEECTTT
T ss_pred             ccHHHHhCcccccccCEeeeeeeEecCcccCCCC
Confidence            5899999999999999999999999999999987

>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=98.26  E-value=1.6e-07  Score=47.79  Aligned_cols=30  Identities=30%  Similarity=0.819  Sum_probs=28.4

Q ss_pred             CCcCCCCCCCCCCceEeeCCeeeChhhhhc
Q psy11756        184 FRCGRCRRPISGPTFRVCEADVVCVECSEK  213 (233)
Q Consensus       184 f~C~~C~~~l~~~~~~~~~~~~~C~~C~~~  213 (233)
                      |+|+.|++.|++.....+||.+||+.||.+
T Consensus         1 frca~cgk~lestt~adkdgeiyck~cyak   30 (31)
T d1ibia2           1 FRCAKCGKSLESTTLTEKEGEIYCKGCYAK   30 (31)
T ss_dssp             EECSSSCCEECSSCSEEETTEEECHHHHHH
T ss_pred             CccccccCccccceeeccCCcEEEeeeeec
Confidence            799999999999999999999999999975

>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=98.22  E-value=2.3e-07  Score=48.44  Aligned_cols=28  Identities=32%  Similarity=0.834  Sum_probs=24.9

Q ss_pred             CCccccccccccccE-eeecCCCcCcCCC
Q psy11756         39 YPKCAACQGLIQNII-VQALDKTWHPEHF   66 (233)
Q Consensus        39 ~~~C~~C~~~I~~~~-~~~~~~~~H~~Cf   66 (233)
                      ...|++|+++|.+++ +.++++.||..|+
T Consensus         2 ~~~CaGC~~~I~DRflL~v~dr~WH~~CL   30 (30)
T d1rutx1           2 WKRCAGCGGKIADRFLLYAMDSYWHSRCL   30 (30)
T ss_dssp             CCBBTTTCCBCCCSEEEEETTEEECGGGC
T ss_pred             ccccCCCCCccchhhhhccchhhhhhhhC
Confidence            468999999999975 7999999999985

>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=98.20  E-value=1.7e-07  Score=49.49  Aligned_cols=32  Identities=28%  Similarity=0.737  Sum_probs=29.5

Q ss_pred             ccCCCCCCCCCCceeeeCCccccccccccccC
Q psy11756         67 RCTHCRIPIATQKFHVHAGSPYCVEDYASLFL   98 (233)
Q Consensus        67 ~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~   98 (233)
                      +|..|.++|.++.|.+++++|||..||..+|+
T Consensus         1 ~C~~C~~~L~GQry~~rd~~PyC~~Cf~~lfA   32 (32)
T d2d8za2           1 VCTACRKQLSGQRFTARDDFAYCLNCFCDLYA   32 (32)
T ss_dssp             BCSSSCCBCTTSCCEESSSSEECHHHHHHHTC
T ss_pred             CcccCCccccCceeeecCCCeehHHhhHhhcC
Confidence            58899999999999999999999999988763

>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=98.18  E-value=4.9e-07  Score=47.68  Aligned_cols=32  Identities=28%  Similarity=0.729  Sum_probs=29.7

Q ss_pred             CCCCCCcccccCceeccCCceechhhhhhccC
Q psy11756        126 VCISCGTKLLYKGFYEREGNAFCTACYEGKFC  157 (233)
Q Consensus       126 ~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~  157 (233)
                      .|..|+.+|.|..|+.++++|||-.||..+|+
T Consensus         1 ~C~~C~~~L~GQry~~rd~~PyC~~Cf~~lfA   32 (32)
T d2d8za2           1 VCTACRKQLSGQRFTARDDFAYCLNCFCDLYA   32 (32)
T ss_dssp             BCSSSCCBCTTSCCEESSSSEECHHHHHHHTC
T ss_pred             CcccCCccccCceeeecCCCeehHHhhHhhcC
Confidence            48899999999999999999999999998875

>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=98.17  E-value=4.5e-07  Score=47.12  Aligned_cols=27  Identities=30%  Similarity=0.698  Sum_probs=24.2

Q ss_pred             CCccccccccccccE-eeecCCCcCcCC
Q psy11756         39 YPKCAACQGLIQNII-VQALDKTWHPEH   65 (233)
Q Consensus        39 ~~~C~~C~~~I~~~~-~~~~~~~~H~~C   65 (233)
                      ...|++|+++|.+++ +.++++.||.+|
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            468999999999976 799999999987

>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=98.17  E-value=1.7e-07  Score=49.55  Aligned_cols=33  Identities=33%  Similarity=0.628  Sum_probs=31.2

Q ss_pred             hhhhccCCCCCCCCCCccccEEEEcCceecCCC
Q psy11756        151 CYEGKFCPKCFGCGKPITETAIKVHDRKWHEAC  183 (233)
Q Consensus       151 c~~~~~~~~C~~C~~~I~~~~i~~~~~~~H~~C  183 (233)
                      +|+.+|+..|.+|...|++.+|++++.+||++|
T Consensus         2 dYw~kfge~C~~C~~~itGpvMvAG~~K~HPEC   34 (34)
T d1x6aa1           2 DYWGKFGEFCHGCSLLMTGPFMVAGEFKYHPEC   34 (34)
T ss_dssp             CSSCCSSCBCTTTCCBCCSCCBCCTTCCBCTTS
T ss_pred             cHHHHHHHHhhhhHhhcccceeeecccccCCCC
Confidence            578899999999999999999999999999998

>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=98.05  E-value=1.5e-06  Score=45.16  Aligned_cols=32  Identities=34%  Similarity=0.835  Sum_probs=29.5

Q ss_pred             CCCCCCcccccCceeccCCceechhhhhhccC
Q psy11756        126 VCISCGTKLLYKGFYEREGNAFCTACYEGKFC  157 (233)
Q Consensus       126 ~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~  157 (233)
                      .|..|+++|.|..|..++..|||..||..+|+
T Consensus         1 vCt~Ck~~LaGqrFTSrde~pYC~~Cfg~LfA   32 (32)
T d2cuqa1           1 VCTGCQTPLAGQQFTSRDEDPYCVACFGELFA   32 (32)
T ss_dssp             BCSSSCCBCTTCCEEECSSSEEEHHHHHHHTT
T ss_pred             CccccCccccCCccccCCCCccHHHHhHhhcC
Confidence            48899999999999999999999999988774

>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=98.04  E-value=7.2e-07  Score=45.59  Aligned_cols=28  Identities=39%  Similarity=0.807  Sum_probs=25.8

Q ss_pred             CCccccccccccc-cEeeecCCCcCcCCC
Q psy11756         39 YPKCAACQGLIQN-IIVQALDKTWHPEHF   66 (233)
Q Consensus        39 ~~~C~~C~~~I~~-~~~~~~~~~~H~~Cf   66 (233)
                      .+.|++|++.++. +-|..+++.||..||
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            4789999999988 889999999999998

>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=98.02  E-value=1.6e-06  Score=46.30  Aligned_cols=30  Identities=37%  Similarity=0.665  Sum_probs=26.3

Q ss_pred             CCCCccccccccccc-cEeeecCCCcCcCCC
Q psy11756         37 TMYPKCAACQGLIQN-IIVQALDKTWHPEHF   66 (233)
Q Consensus        37 ~~~~~C~~C~~~I~~-~~~~~~~~~~H~~Cf   66 (233)
                      .....|++|++.|.. ..+.++++.||.+||
T Consensus         6 ~g~~~CagCg~eik~gQaL~ALdkqWH~~CF   36 (36)
T d2dj7a2           6 RGPSHCAGCKEEIKHGQSLLALDKQWHVSCF   36 (36)
T ss_dssp             SSCSCCTTTCCCCSSSCCEEETTEEECTTTC
T ss_pred             cCCccccccchhhhCCceeeeeecceeeeeC
Confidence            345689999999965 899999999999998

>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=98.01  E-value=9.9e-07  Score=44.82  Aligned_cols=25  Identities=28%  Similarity=0.761  Sum_probs=23.2

Q ss_pred             cccccccccc----cEeeecCCCcCcCCC
Q psy11756         42 CAACQGLIQN----IIVQALDKTWHPEHF   66 (233)
Q Consensus        42 C~~C~~~I~~----~~~~~~~~~~H~~Cf   66 (233)
                      |++|.++|++    ++|...++.||.+||
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            7899999976    889999999999998

>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=97.99  E-value=1.8e-06  Score=44.83  Aligned_cols=30  Identities=30%  Similarity=0.731  Sum_probs=27.5

Q ss_pred             CcCCCCCCCCCCceEeeCCeeeChhhhhcc
Q psy11756        185 RCGRCRRPISGPTFRVCEADVVCVECSEKG  214 (233)
Q Consensus       185 ~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~  214 (233)
                      .|..|+++|.|++|...|+.|||.+||..+
T Consensus         1 vCt~Ck~~LaGqrFTSrde~pYC~~Cfg~L   30 (32)
T d2cuqa1           1 VCTGCQTPLAGQQFTSRDEDPYCVACFGEL   30 (32)
T ss_dssp             BCSSSCCBCTTCCEEECSSSEEEHHHHHHH
T ss_pred             CccccCccccCCccccCCCCccHHHHhHhh
Confidence            489999999999999999999999999653

>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=97.97  E-value=1.9e-06  Score=45.63  Aligned_cols=31  Identities=32%  Similarity=0.674  Sum_probs=28.3

Q ss_pred             CCCCCCcccccCceeccCCceechhhhhhcc
Q psy11756        126 VCISCGTKLLYKGFYEREGNAFCTACYEGKF  156 (233)
Q Consensus       126 ~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~  156 (233)
                      +|..|.+|+.+..|++.+|+|||..+|+++.
T Consensus         1 VC~~C~~PF~~~~Fy~~~g~PyCe~HyH~~~   31 (32)
T d1x3ha2           1 VCGDCFTSFSTGSFFELDGRPFCELHYHHRR   31 (32)
T ss_dssp             BCSSSCCBSCSSCCEESSSCEECHHHHHHHH
T ss_pred             CcCccCCcCCCCCeEeECCccchHHhhhhhc
Confidence            5899999999999999999999999998764

>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=97.96  E-value=2.3e-06  Score=45.60  Aligned_cols=27  Identities=33%  Similarity=0.962  Sum_probs=24.4

Q ss_pred             CCCCCCCCCcc-ccEEEEcCceecCCCC
Q psy11756        158 PKCFGCGKPIT-ETAIKVHDRKWHEACF  184 (233)
Q Consensus       158 ~~C~~C~~~I~-~~~i~~~~~~~H~~Cf  184 (233)
                      ..|++|++.|. +..+.++++.||.+||
T Consensus         9 ~~CagCg~eik~gQaL~ALdkqWH~~CF   36 (36)
T d2dj7a2           9 SHCAGCKEEIKHGQSLLALDKQWHVSCF   36 (36)
T ss_dssp             SCCTTTCCCCSSSCCEEETTEEECTTTC
T ss_pred             ccccccchhhhCCceeeeeecceeeeeC
Confidence            47999999995 6789999999999998

>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=97.95  E-value=9.5e-07  Score=46.82  Aligned_cols=31  Identities=26%  Similarity=0.550  Sum_probs=28.5

Q ss_pred             ccCCCCCCCCCCceeeeCCcccccccccccc
Q psy11756         67 RCTHCRIPIATQKFHVHAGSPYCVEDYASLF   97 (233)
Q Consensus        67 ~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~   97 (233)
                      +|..|.+|+.+..|+..+|+|||+.+|.++.
T Consensus         1 VC~~C~~PF~~~~Fy~~~g~PyCe~HyH~~~   31 (32)
T d1x3ha2           1 VCGDCFTSFSTGSFFELDGRPFCELHYHHRR   31 (32)
T ss_dssp             BCSSSCCBSCSSCCEESSSCEECHHHHHHHH
T ss_pred             CcCccCCcCCCCCeEeECCccchHHhhhhhc
Confidence            6899999999999999999999999998753

>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=6.1e-07  Score=45.64  Aligned_cols=30  Identities=30%  Similarity=0.734  Sum_probs=28.0

Q ss_pred             CccCCCCCCCCCCceeeeCCcccccccccc
Q psy11756         66 FRCTHCRIPIATQKFHVHAGSPYCVEDYAS   95 (233)
Q Consensus        66 f~C~~C~~~l~~~~~~~~~~~~yC~~c~~~   95 (233)
                      |+|+.|++.|.+.+...++|.+||+.||.+
T Consensus         1 frca~cgk~lestt~adkdgeiyck~cyak   30 (31)
T d1ibia2           1 FRCAKCGKSLESTTLTEKEGEIYCKGCYAK   30 (31)
T ss_dssp             EECSSSCCEECSSCSEEETTEEECHHHHHH
T ss_pred             CccccccCccccceeeccCCcEEEeeeeec
Confidence            789999999999999999999999999864

>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=97.88  E-value=3e-06  Score=43.02  Aligned_cols=25  Identities=44%  Similarity=1.198  Sum_probs=22.4

Q ss_pred             CCCCCCCccc----cEEEEcCceecCCCC
Q psy11756        160 CFGCGKPITE----TAIKVHDRKWHEACF  184 (233)
Q Consensus       160 C~~C~~~I~~----~~i~~~~~~~H~~Cf  184 (233)
                      |+.|.+||++    ++|.+.++.||..||
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            7899999976    569999999999998

>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=97.87  E-value=6.7e-06  Score=48.02  Aligned_cols=40  Identities=35%  Similarity=0.924  Sum_probs=36.0

Q ss_pred             CCCCCCcccccCceeccCCceechhhhhhccCCCCCCCCC
Q psy11756        126 VCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGK  165 (233)
Q Consensus       126 ~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~~C~~  165 (233)
                      +|..|++.|........+|++||..||.++|+|+..+.+.
T Consensus         1 KC~~C~k~Lds~t~~ehdg~~YCk~CY~k~fGPKG~g~G~   40 (49)
T d1b8ta4           1 RCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKGFGFGQ   40 (49)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHTCCCCCCCCC
T ss_pred             ChhhcCCccCCCcccccCCcccchhhhhhccCCCccCccc
Confidence            5899999998778888999999999999999999887653

>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=97.86  E-value=5.5e-06  Score=43.54  Aligned_cols=34  Identities=38%  Similarity=0.803  Sum_probs=31.8

Q ss_pred             CCCCCCCcccccCceeccCCceechhhhhhccCC
Q psy11756        125 FVCISCGTKLLYKGFYEREGNAFCTACYEGKFCP  158 (233)
Q Consensus       125 f~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~  158 (233)
                      |+|+.|.+|+.+...+++.|..||+.+|.++|+.
T Consensus         1 FvCA~CekPF~G~rhyE~~g~ayCe~Hy~qLfg~   34 (35)
T d1u5sb2           1 FVCAKCEKPFLGHRHYERKGLAYCETHYNQLFGD   34 (35)
T ss_dssp             CBCTTTCCBCSSSCCEEETTEEECHHHHHHHCSC
T ss_pred             CcccccCCccCCchhhhhcCchHHHHHHHHHhcc
Confidence            7899999999999999999999999999999864

>d1x6aa1 g.39.1.3 (A:8-41) Lim domain kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Lim domain kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.86  E-value=3.1e-06  Score=44.61  Aligned_cols=34  Identities=29%  Similarity=0.579  Sum_probs=31.7

Q ss_pred             cccccccCCCCCCCCccccccEEecCCCeeecCC
Q psy11756         91 EDYASLFLNKCQGCRLPIKDVVVTALNQTWHPDH  124 (233)
Q Consensus        91 ~c~~~~~~~~C~~C~~~i~~~~~~~~~~~~H~~C  124 (233)
                      ++|+.+|+..|.+|.+.|++.+|.+....||++|
T Consensus         1 kdYw~kfge~C~~C~~~itGpvMvAG~~K~HPEC   34 (34)
T d1x6aa1           1 KDYWGKFGEFCHGCSLLMTGPFMVAGEFKYHPEC   34 (34)
T ss_dssp             CCSSCCSSCBCTTTCCBCCSCCBCCTTCCBCTTS
T ss_pred             CcHHHHHHHHhhhhHhhcccceeeecccccCCCC
Confidence            4789999999999999999999999999999987

>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=97.86  E-value=3.5e-06  Score=43.85  Aligned_cols=27  Identities=33%  Similarity=0.917  Sum_probs=24.2

Q ss_pred             CCCCCCCCCccccE-EEEcCceecCCCC
Q psy11756        158 PKCFGCGKPITETA-IKVHDRKWHEACF  184 (233)
Q Consensus       158 ~~C~~C~~~I~~~~-i~~~~~~~H~~Cf  184 (233)
                      ..|++|+++|.+++ +.+.++.||..|.
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            47999999999987 7799999999884

>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=97.83  E-value=2.4e-06  Score=48.33  Aligned_cols=34  Identities=26%  Similarity=0.642  Sum_probs=31.2

Q ss_pred             ccCCCCCCCCCCceeeeCCccccccccccccCCC
Q psy11756         67 RCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNK  100 (233)
Q Consensus        67 ~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~  100 (233)
                      +|..|++.|....|...+|.+||++||.++|.++
T Consensus         1 rC~~C~~~Ls~~~yas~~G~lYCkpHf~qLF~~k   34 (42)
T d2d8ya2           1 RCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSK   34 (42)
T ss_dssp             BCTTTCCBCCTTTCCCSSSCCCCHHHHHHHSCCC
T ss_pred             CcCcCCCCccCCcchhhCCEeccHHHHHHHHHhh
Confidence            6999999999999999999999999999988653

>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=97.83  E-value=2.2e-06  Score=43.43  Aligned_cols=25  Identities=36%  Similarity=0.764  Sum_probs=23.0

Q ss_pred             cccccccccc----cEeeecCCCcCcCCC
Q psy11756         42 CAACQGLIQN----IIVQALDKTWHPEHF   66 (233)
Q Consensus        42 C~~C~~~I~~----~~~~~~~~~~H~~Cf   66 (233)
                      |.+|.++|.+    ++|...++.||.+||
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            7899999976    899999999999998

>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=97.83  E-value=5.6e-06  Score=47.37  Aligned_cols=29  Identities=24%  Similarity=0.457  Sum_probs=26.1

Q ss_pred             CCCccccccccccc-cEeeecCCCcCcCCC
Q psy11756         38 MYPKCAACQGLIQN-IIVQALDKTWHPEHF   66 (233)
Q Consensus        38 ~~~~C~~C~~~I~~-~~~~~~~~~~H~~Cf   66 (233)
                      +...|..|++.|+. +-+.+.|+.||..||
T Consensus        14 ~~~kC~~C~k~VY~~E~~~~~g~~~Hk~CF   43 (43)
T d1b8ta3          14 GSDGCPRCGQAVYAAEKVIGAGKSWHKSCF   43 (43)
T ss_dssp             CCEECTTTSCEECSSSCEEETTEEECTTTC
T ss_pred             CCCcCccCCCEeeHHHHhhcCCCccccCCC
Confidence            34789999999988 788999999999998

>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=97.82  E-value=5.1e-06  Score=43.03  Aligned_cols=26  Identities=38%  Similarity=0.871  Sum_probs=23.6

Q ss_pred             CCCCCCCCCccccE-EEEcCceecCCC
Q psy11756        158 PKCFGCGKPITETA-IKVHDRKWHEAC  183 (233)
Q Consensus       158 ~~C~~C~~~I~~~~-i~~~~~~~H~~C  183 (233)
                      ..|++|+++|.+++ +.+.++.||..|
T Consensus         4 ~~CaGC~~~I~DRflL~a~Dr~WH~~C   30 (30)
T d1j2oa1           4 LTCGGCQQNIGDRYFLKAIDQYWHEDC   30 (30)
T ss_dssp             BCBSSSCSCBCSSEEEECSSSEECTTT
T ss_pred             cccCCCCCcchHHHHHHHHHHHHhcCC
Confidence            57999999999987 779999999987

>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=97.82  E-value=9.5e-06  Score=45.63  Aligned_cols=30  Identities=40%  Similarity=0.650  Sum_probs=27.9

Q ss_pred             CCCCccccccccccccEeeecCCCcCcCCC
Q psy11756         37 TMYPKCAACQGLIQNIIVQALDKTWHPEHF   66 (233)
Q Consensus        37 ~~~~~C~~C~~~I~~~~~~~~~~~~H~~Cf   66 (233)
                      ...|.|.+|+.-|.|.++++.++.+||+||
T Consensus        16 QkLP~CdkCg~GIVG~~VK~rDK~rHPeCf   45 (45)
T d1x64a1          16 QRMPLCDKCGSGIVGAVVKARDKYRHPECF   45 (45)
T ss_dssp             CSCCBCTTTCCBCCSCCEESSSCEECTTTC
T ss_pred             ccCccccccCCCcEEEEEEeccccCCCCCC
Confidence            445899999999999999999999999998

>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=97.82  E-value=3.7e-06  Score=48.55  Aligned_cols=35  Identities=29%  Similarity=0.693  Sum_probs=31.9

Q ss_pred             ccCCCCCCCCCCceeeeCCcccc-ccccccccCCCC
Q psy11756         67 RCTHCRIPIATQKFHVHAGSPYC-VEDYASLFLNKC  101 (233)
Q Consensus        67 ~C~~C~~~l~~~~~~~~~~~~yC-~~c~~~~~~~~C  101 (233)
                      +|..|++.|++.....+++++|| +.||..+|+|+=
T Consensus         1 kC~~C~K~L~sg~~aeHdg~pYC~k~CY~~~FGPkG   36 (48)
T d1imla2           1 KCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKG   36 (48)
T ss_dssp             BCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCCC
T ss_pred             CchhcCcCcCCCChhhcCCcccccccchhhccCCCc
Confidence            68999999999999999999999 779999998753

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

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

Probab=97.80  E-value=4.7e-06  Score=43.12  Aligned_cols=28  Identities=29%  Similarity=0.533  Sum_probs=25.3

Q ss_pred             CCccccccccccc-cEeeecCCCcCcCCC
Q psy11756         39 YPKCAACQGLIQN-IIVQALDKTWHPEHF   66 (233)
Q Consensus        39 ~~~C~~C~~~I~~-~~~~~~~~~~H~~Cf   66 (233)
                      .+.|++|++.|+. +-+..+|+.||..|+
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            4789999999988 889999999999985

>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=97.78  E-value=3e-06  Score=44.16  Aligned_cols=31  Identities=32%  Similarity=0.717  Sum_probs=28.4

Q ss_pred             ccCCCCCCCCCCceeeeCCcccccccccccc
Q psy11756         67 RCTHCRIPIATQKFHVHAGSPYCVEDYASLF   97 (233)
Q Consensus        67 ~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~   97 (233)
                      .|+.|+.+|.+..|+..+|++||+.||.+.+
T Consensus         1 nCa~C~~sL~d~gFVEE~g~lYCe~Cye~ff   31 (32)
T d2dara1           1 NCAHCKNTMAYIGFVEEKGALYCELCYEKFF   31 (32)
T ss_dssp             BCSSSCCBCSSSCBEESSSCEECHHHHHHHT
T ss_pred             CcccccccHhhcceeeecCcEeHHHHHHHhc
Confidence            3899999999999999999999999998754

>d1x4ka1 g.39.1.3 (A:35-66) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.78  E-value=3.4e-06  Score=44.04  Aligned_cols=32  Identities=28%  Similarity=0.636  Sum_probs=29.3

Q ss_pred             ccCCCCCCCCCCceeeeCCccccccccccccC
Q psy11756         67 RCTHCRIPIATQKFHVHAGSPYCVEDYASLFL   98 (233)
Q Consensus        67 ~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~   98 (233)
                      .|..|++||.+..|..+++..||..||++.|+
T Consensus         1 ~C~~C~qPIGtksfipk~~~~yCvpCyE~kfA   32 (32)
T d1x4ka1           1 ICHRCQQPIGTKSFIPKDNQNFCVPCYEKQHA   32 (32)
T ss_dssp             CCSSSCCCCCSSSEEEETTEEEEHHHHHHHTS
T ss_pred             CcccccCcccccccccCCCCceEeecchhhcC
Confidence            48899999999999999999999999998763

>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=97.76  E-value=6.2e-06  Score=42.28  Aligned_cols=29  Identities=28%  Similarity=0.777  Sum_probs=27.0

Q ss_pred             CcCCCCCCCCCCceEeeCCeeeChhhhhc
Q psy11756        185 RCGRCRRPISGPTFRVCEADVVCVECSEK  213 (233)
Q Consensus       185 ~C~~C~~~l~~~~~~~~~~~~~C~~C~~~  213 (233)
                      .|..|++.|.|.+|..++.++||.+||..
T Consensus         1 vC~~C~K~Lag~rFTa~eDq~yCVdCYK~   29 (31)
T d2cura1           1 VCVTCSKKLAGQRFTAVEDQYYCVDCYKN   29 (31)
T ss_dssp             BCTTTCCBCTTSCEEECSSCEEEHHHHHH
T ss_pred             CcccccchhcCceeEEecceEEEeeeecc
Confidence            38899999999999999999999999975

>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=97.76  E-value=4.4e-06  Score=43.92  Aligned_cols=34  Identities=29%  Similarity=0.713  Sum_probs=31.6

Q ss_pred             CccCCCCCCCCCCceeeeCCccccccccccccCC
Q psy11756         66 FRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLN   99 (233)
Q Consensus        66 f~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~   99 (233)
                      |+|+.|.+|+-+...+.++|..||+.+|.++|+.
T Consensus         1 FvCA~CekPF~G~rhyE~~g~ayCe~Hy~qLfg~   34 (35)
T d1u5sb2           1 FVCAKCEKPFLGHRHYERKGLAYCETHYNQLFGD   34 (35)
T ss_dssp             CBCTTTCCBCSSSCCEEETTEEECHHHHHHHCSC
T ss_pred             CcccccCCccCCchhhhhcCchHHHHHHHHHhcc
Confidence            8999999999999999999999999999998764

>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=97.75  E-value=7.9e-06  Score=41.33  Aligned_cols=25  Identities=44%  Similarity=1.128  Sum_probs=22.3

Q ss_pred             CCCCCCCccc----cEEEEcCceecCCCC
Q psy11756        160 CFGCGKPITE----TAIKVHDRKWHEACF  184 (233)
Q Consensus       160 C~~C~~~I~~----~~i~~~~~~~H~~Cf  184 (233)
                      |..|.+||++    ++|.+.++.||.+||
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            7889999976    569999999999998

>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=97.75  E-value=9e-06  Score=42.82  Aligned_cols=28  Identities=36%  Similarity=0.801  Sum_probs=26.5

Q ss_pred             CCCCCCCCCCccccEEEEcCceecCCCC
Q psy11756        157 CPKCFGCGKPITETAIKVHDRKWHEACF  184 (233)
Q Consensus       157 ~~~C~~C~~~I~~~~i~~~~~~~H~~Cf  184 (233)
                      -|.|.+|+..|.+..+.++++.+|++||
T Consensus         8 lp~CdkCg~GIVG~~VK~rDk~rHPeCf   35 (35)
T d1x62a2           8 LPMCDKCGTGIVGVFVKLRDRHRHPECY   35 (35)
T ss_dssp             CCCCSSSCCCCCSSCEECSSCEECTTTT
T ss_pred             CccccccCCCcEeEEEEeccccCCCCCC
Confidence            3789999999999999999999999998

>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=97.74  E-value=4.9e-06  Score=43.09  Aligned_cols=31  Identities=29%  Similarity=0.817  Sum_probs=27.0

Q ss_pred             ccCCCCCCCCCCceeeeCCccccccccccccC
Q psy11756         67 RCTHCRIPIATQKFHVHAGSPYCVEDYASLFL   98 (233)
Q Consensus        67 ~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~   98 (233)
                      +|..|++.|.. .|..++|.|||+.||...|+
T Consensus         1 kC~~C~~vL~g-EYm~kdG~PyCe~DY~~~FG   31 (31)
T d2dj7a1           1 KCQTCSVILTG-EYISKDGVPYCESDYHAQFG   31 (31)
T ss_dssp             BCSSSCCBCSS-CCEEETTEEECTTHHHHHTT
T ss_pred             CccccCccccc-eeecCCCCcccHHHHHHhcC
Confidence            58999999985 68899999999999988763

>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=97.71  E-value=4.4e-06  Score=43.50  Aligned_cols=32  Identities=31%  Similarity=0.777  Sum_probs=29.2

Q ss_pred             ccCCCCCCCCCCceeeeCCccccccccccccC
Q psy11756         67 RCTHCRIPIATQKFHVHAGSPYCVEDYASLFL   98 (233)
Q Consensus        67 ~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~   98 (233)
                      .|..|++||..+.|..+++..||.+||+..|+
T Consensus         1 ~C~~C~qPIGtkSFip~~~~~yCvpCYE~kfA   32 (32)
T d1wyha1           1 LCSGCEQPLGSRSFVPDKGAHYCVPCYENKFA   32 (32)
T ss_dssp             BCTTTCCBTTTSCEEEETTEEEEHHHHHHHTS
T ss_pred             CcccccCcccccccccCCCcEEEEeccccccC
Confidence            38899999999999999999999999998764

>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=97.71  E-value=6.7e-06  Score=43.03  Aligned_cols=26  Identities=27%  Similarity=0.798  Sum_probs=22.9

Q ss_pred             CCCCCCCCccc--cEEEEcCceecCCCC
Q psy11756        159 KCFGCGKPITE--TAIKVHDRKWHEACF  184 (233)
Q Consensus       159 ~C~~C~~~I~~--~~i~~~~~~~H~~Cf  184 (233)
                      .|++|++.|..  .++++++..||..||
T Consensus         4 ~Ca~C~~~I~~~e~VmRA~~~VyHl~CF   31 (31)
T d1rutx3           4 ACSACGQSIPASELVMRAQGNVYHLKCF   31 (31)
T ss_dssp             ECTTTCCEECTTSEEEEETTEEECGGGC
T ss_pred             ccccccCcCChhHhheecccceeeeccC
Confidence            69999999954  568899999999998

>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=97.70  E-value=7.9e-06  Score=46.13  Aligned_cols=34  Identities=24%  Similarity=0.539  Sum_probs=31.0

Q ss_pred             CCCCCCcccccCceeccCCceechhhhhhccCCC
Q psy11756        126 VCISCGTKLLYKGFYEREGNAFCTACYEGKFCPK  159 (233)
Q Consensus       126 ~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~  159 (233)
                      +|..|+..|.-..|...+|.+||..||.++|.++
T Consensus         1 rC~~C~~~Ls~~~yas~~G~lYCkpHf~qLF~~k   34 (42)
T d2d8ya2           1 RCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSK   34 (42)
T ss_dssp             BCTTTCCBCCTTTCCCSSSCCCCHHHHHHHSCCC
T ss_pred             CcCcCCCCccCCcchhhCCEeccHHHHHHHHHhh
Confidence            6899999998888999999999999999999765

>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=97.66  E-value=1.6e-05  Score=41.08  Aligned_cols=28  Identities=11%  Similarity=0.279  Sum_probs=25.3

Q ss_pred             CcCCCCCCCCCCceEeeCCeeeChhhhhc
Q psy11756        185 RCGRCRRPISGPTFRVCEADVVCVECSEK  213 (233)
Q Consensus       185 ~C~~C~~~l~~~~~~~~~~~~~C~~C~~~  213 (233)
                      +|..|+++|. ++|+.+||.|||...|..
T Consensus         1 kC~~C~~vL~-gEYm~kdG~PyCe~DY~~   28 (31)
T d2dj7a1           1 KCQTCSVILT-GEYISKDGVPYCESDYHA   28 (31)
T ss_dssp             BCSSSCCBCS-SCCEEETTEEECTTHHHH
T ss_pred             CccccCcccc-ceeecCCCCcccHHHHHH
Confidence            5899999998 789999999999999875

>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=1.6e-05  Score=41.36  Aligned_cols=31  Identities=39%  Similarity=0.998  Sum_probs=28.3

Q ss_pred             CCCCCcccccCceeccCCceechhhhhhccC
Q psy11756        127 CISCGTKLLYKGFYEREGNAFCTACYEGKFC  157 (233)
Q Consensus       127 C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~  157 (233)
                      |..|+.+|....|+...|.+||..||.+.++
T Consensus         2 Ca~C~~sL~d~gFVEE~g~lYCe~Cye~ffA   32 (32)
T d2dara1           2 CAHCKNTMAYIGFVEEKGALYCELCYEKFFA   32 (32)
T ss_dssp             CSSSCCBCSSSCBEESSSCEECHHHHHHHTS
T ss_pred             cccccccHhhcceeeecCcEeHHHHHHHhcC
Confidence            7899999998899999999999999988664

>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=97.65  E-value=1e-05  Score=42.58  Aligned_cols=29  Identities=31%  Similarity=0.639  Sum_probs=27.1

Q ss_pred             CCCccccccccccccEeeecCCCcCcCCC
Q psy11756         38 MYPKCAACQGLIQNIIVQALDKTWHPEHF   66 (233)
Q Consensus        38 ~~~~C~~C~~~I~~~~~~~~~~~~H~~Cf   66 (233)
                      ..|.|.+|+.-|.+.++++.++.+||+||
T Consensus         7 klp~CdkCg~GIVG~~VK~rDk~rHPeCf   35 (35)
T d1x62a2           7 KLPMCDKCGTGIVGVFVKLRDRHRHPECY   35 (35)
T ss_dssp             CCCCCSSSCCCCCSSCEECSSCEECTTTT
T ss_pred             cCccccccCCCcEeEEEEeccccCCCCCC
Confidence            35899999999999999999999999998

>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=97.65  E-value=1.3e-05  Score=43.55  Aligned_cols=28  Identities=21%  Similarity=0.376  Sum_probs=26.1

Q ss_pred             CCccccccccccc-cEeeecCCCcCcCCC
Q psy11756         39 YPKCAACQGLIQN-IIVQALDKTWHPEHF   66 (233)
Q Consensus        39 ~~~C~~C~~~I~~-~~~~~~~~~~H~~Cf   66 (233)
                      ...|..|++.|+. +-+.+.|+.||..||
T Consensus         7 ~~kC~~C~K~VY~~E~~~a~g~~~Hk~CF   35 (35)
T d2d8ya1           7 RETCVECQKTVYPMERLLANQQVFHISCF   35 (35)
T ss_dssp             SCBCTTTCCBCCTTSEEECSSSEEETTTC
T ss_pred             CcccccCCCEEeeeeeEecCCeehhhccC
Confidence            4699999999998 899999999999998

>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=97.61  E-value=6.9e-06  Score=42.07  Aligned_cols=27  Identities=26%  Similarity=0.639  Sum_probs=24.8

Q ss_pred             CCCCCCCCCccccEEEEcCceecCCCC
Q psy11756        158 PKCFGCGKPITETAIKVHDRKWHEACF  184 (233)
Q Consensus       158 ~~C~~C~~~I~~~~i~~~~~~~H~~Cf  184 (233)
                      .-|..|.+.|++++++++++.|||.|.
T Consensus         6 sgC~~C~~~ItGkVLEAG~khYHP~CA   32 (32)
T d1wiga1           6 SGCDSCEKYITGRVLEAGEKHYHPSCA   32 (32)
T ss_dssp             CSCSSSCCCCSSCCBCCSSCCBCTTTS
T ss_pred             chhhhhhhhhhhhhhhccccccCCCCC
Confidence            469999999999999999999999984

>d1x64a1 g.39.1.3 (A:8-52) PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 3, PDLIM3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.56  E-value=1.8e-05  Score=44.49  Aligned_cols=27  Identities=37%  Similarity=0.822  Sum_probs=26.0

Q ss_pred             CCCCCCCCCccccEEEEcCceecCCCC
Q psy11756        158 PKCFGCGKPITETAIKVHDRKWHEACF  184 (233)
Q Consensus       158 ~~C~~C~~~I~~~~i~~~~~~~H~~Cf  184 (233)
                      +.|.+|+..|.+.++.++++.+|++||
T Consensus        19 P~CdkCg~GIVG~~VK~rDK~rHPeCf   45 (45)
T d1x64a1          19 PLCDKCGSGIVGAVVKARDKYRHPECF   45 (45)
T ss_dssp             CBCTTTCCBCCSCCEESSSCEECTTTC
T ss_pred             ccccccCCCcEEEEEEeccccCCCCCC
Confidence            689999999999999999999999998

>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=97.56  E-value=1e-05  Score=50.01  Aligned_cols=38  Identities=24%  Similarity=0.493  Sum_probs=33.7

Q ss_pred             ccCCCCCCCCCCceeeeCCccccccccccccCCCCCCC
Q psy11756         67 RCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGC  104 (233)
Q Consensus        67 ~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~~C  104 (233)
                      .|..|++.|++..+..+++++||+.||.++|+++=.+=
T Consensus         1 ~C~~C~K~LdS~~~~eh~~e~YCk~CY~k~fGPkG~G~   38 (65)
T d1b8ta2           1 LCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGK   38 (65)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHHSCCCCCC
T ss_pred             CchhcCCccCCCccccCCCcccchhhhccccCCCcccc
Confidence            48899999999999999999999999999998865443

>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=97.50  E-value=4.5e-05  Score=37.47  Aligned_cols=25  Identities=40%  Similarity=1.135  Sum_probs=22.0

Q ss_pred             CCCCCCCc--cccEEEEcCceecCCCC
Q psy11756        160 CFGCGKPI--TETAIKVHDRKWHEACF  184 (233)
Q Consensus       160 C~~C~~~I--~~~~i~~~~~~~H~~Cf  184 (233)
                      |..|.+||  ....+-+.++.||..||
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            78899999  45679999999999998

>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=97.50  E-value=3.9e-05  Score=39.97  Aligned_cols=29  Identities=17%  Similarity=0.583  Sum_probs=26.4

Q ss_pred             CcCCCCCCCCCCceEeeCCeeeChh-hhhc
Q psy11756        185 RCGRCRRPISGPTFRVCEADVVCVE-CSEK  213 (233)
Q Consensus       185 ~C~~C~~~l~~~~~~~~~~~~~C~~-C~~~  213 (233)
                      +|.+|++.|..+.....+|+|||.. ||..
T Consensus         1 kCekC~ktL~~G~HaEH~gkPYC~~PCY~a   30 (33)
T d2cu8a2           1 KCERCSKTLTPGGHAEHDGKPFCHKPCYAT   30 (33)
T ss_dssp             BCSSSCCBCCTTSCEEETTEEECTTTHHHH
T ss_pred             CchhcccccCCCCccccCCCcCcCcchHHh
Confidence            6899999999999999999999987 8864

>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=97.49  E-value=1.9e-05  Score=39.04  Aligned_cols=25  Identities=24%  Similarity=0.607  Sum_probs=22.5

Q ss_pred             cccccccccc--cEeeecCCCcCcCCC
Q psy11756         42 CAACQGLIQN--IIVQALDKTWHPEHF   66 (233)
Q Consensus        42 C~~C~~~I~~--~~~~~~~~~~H~~Cf   66 (233)
                      |..|.+.|.+  +-+...|..||..||
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            7889999965  789999999999998

>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=97.48  E-value=3.1e-05  Score=38.26  Aligned_cols=25  Identities=36%  Similarity=0.935  Sum_probs=22.1

Q ss_pred             CCCCCCCccc--cEEEEcCceecCCCC
Q psy11756        160 CFGCGKPITE--TAIKVHDRKWHEACF  184 (233)
Q Consensus       160 C~~C~~~I~~--~~i~~~~~~~H~~Cf  184 (233)
                      |..|.+.|.+  +.+.+.|..||..||
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            6789999976  469999999999998

>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=97.48  E-value=2.8e-05  Score=42.29  Aligned_cols=28  Identities=18%  Similarity=0.205  Sum_probs=26.0

Q ss_pred             CCccccccccccc-cEeeecCCCcCcCCC
Q psy11756         39 YPKCAACQGLIQN-IIVQALDKTWHPEHF   66 (233)
Q Consensus        39 ~~~C~~C~~~I~~-~~~~~~~~~~H~~Cf   66 (233)
                      ...|..|++.|+. +-+.+.|+.||..||
T Consensus         8 ~~~C~~C~K~VY~~Erl~a~g~~yHk~CF   36 (36)
T d2co8a2           8 GDLCALCGEHLYVLERLCVNGHFFHRSCF   36 (36)
T ss_dssp             SCBCSSSCCBCCTTTBCCBTTBCCBTTTC
T ss_pred             CCcccccCCEEeeeeEEEecCcEeccccC
Confidence            4699999999988 889999999999998

>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=97.48  E-value=2.9e-05  Score=39.72  Aligned_cols=27  Identities=26%  Similarity=0.625  Sum_probs=25.1

Q ss_pred             CCccccccccccccEeeecCCCcCcCC
Q psy11756         39 YPKCAACQGLIQNIIVQALDKTWHPEH   65 (233)
Q Consensus        39 ~~~C~~C~~~I~~~~~~~~~~~~H~~C   65 (233)
                      ..-|..|.+.|.++++.+.++.|||.|
T Consensus         5 ssgC~~C~~~ItGkVLEAG~khYHP~C   31 (32)
T d1wiga1           5 SSGCDSCEKYITGRVLEAGEKHYHPSC   31 (32)
T ss_dssp             CCSCSSSCCCCSSCCBCCSSCCBCTTT
T ss_pred             cchhhhhhhhhhhhhhhccccccCCCC
Confidence            457999999999999999999999988

>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=97.47  E-value=3.5e-05  Score=44.37  Aligned_cols=34  Identities=41%  Similarity=0.940  Sum_probs=31.0

Q ss_pred             CCCCCCcccccCceeccCCceec-hhhhhhccCCC
Q psy11756        126 VCISCGTKLLYKGFYEREGNAFC-TACYEGKFCPK  159 (233)
Q Consensus       126 ~C~~C~~~l~~~~~~~~~g~~~C-~~c~~~~~~~~  159 (233)
                      +|..|++.|........+|+||| ..||..+|+|+
T Consensus         1 kC~~C~K~L~sg~~aeHdg~pYC~k~CY~~~FGPk   35 (48)
T d1imla2           1 KCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPK   35 (48)
T ss_dssp             BCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCC
T ss_pred             CchhcCcCcCCCChhhcCCcccccccchhhccCCC
Confidence            58899999998889999999999 67999999986

>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=5.6e-05  Score=38.96  Aligned_cols=28  Identities=25%  Similarity=0.744  Sum_probs=24.2

Q ss_pred             CCCCCCCCCCcc-ccEEEEcCceecCCCC
Q psy11756        157 CPKCFGCGKPIT-ETAIKVHDRKWHEACF  184 (233)
Q Consensus       157 ~~~C~~C~~~I~-~~~i~~~~~~~H~~Cf  184 (233)
                      .++|++|++++- .+.+...|+.||+.|+
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            578999999995 4679999999999885

>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=97.40  E-value=2.9e-05  Score=38.27  Aligned_cols=25  Identities=28%  Similarity=0.626  Sum_probs=22.2

Q ss_pred             cccccccccc--cEeeecCCCcCcCCC
Q psy11756         42 CAACQGLIQN--IIVQALDKTWHPEHF   66 (233)
Q Consensus        42 C~~C~~~I~~--~~~~~~~~~~H~~Cf   66 (233)
                      |..|.+.|.+  +-+...|..||..||
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            7789999965  779999999999998

>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=97.39  E-value=2.3e-05  Score=40.09  Aligned_cols=29  Identities=31%  Similarity=0.687  Sum_probs=26.9

Q ss_pred             ccCCCCCCCCCCceeeeCCcccccccccc
Q psy11756         67 RCTHCRIPIATQKFHVHAGSPYCVEDYAS   95 (233)
Q Consensus        67 ~C~~C~~~l~~~~~~~~~~~~yC~~c~~~   95 (233)
                      +|..|++.|.++.|...+++.||.+||..
T Consensus         1 vC~~C~K~Lag~rFTa~eDq~yCVdCYK~   29 (31)
T d2cura1           1 VCVTCSKKLAGQRFTAVEDQYYCVDCYKN   29 (31)
T ss_dssp             BCTTTCCBCTTSCEEECSSCEEEHHHHHH
T ss_pred             CcccccchhcCceeEEecceEEEeeeecc
Confidence            58999999999999999999999999964

>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=97.37  E-value=6.2e-05  Score=39.13  Aligned_cols=32  Identities=28%  Similarity=0.799  Sum_probs=29.0

Q ss_pred             CCCCCCcccccCceeccCCceechhhhhhccC
Q psy11756        126 VCISCGTKLLYKGFYEREGNAFCTACYEGKFC  157 (233)
Q Consensus       126 ~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~  157 (233)
                      .|..|+++|....|..+++..||..||.+.|+
T Consensus         1 ~C~~C~qPIGtksfipk~~~~yCvpCyE~kfA   32 (32)
T d1x4ka1           1 ICHRCQQPIGTKSFIPKDNQNFCVPCYEKQHA   32 (32)
T ss_dssp             CCSSSCCCCCSSSEEEETTEEEEHHHHHHHTS
T ss_pred             CcccccCcccccccccCCCCceEeecchhhcC
Confidence            37899999998999999999999999998774

>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=97.30  E-value=8.2e-05  Score=38.60  Aligned_cols=31  Identities=35%  Similarity=0.899  Sum_probs=28.5

Q ss_pred             CCCCCcccccCceeccCCceechhhhhhccC
Q psy11756        127 CISCGTKLLYKGFYEREGNAFCTACYEGKFC  157 (233)
Q Consensus       127 C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~  157 (233)
                      |..|.+||....|..+++..||..||...|+
T Consensus         2 C~~C~qPIGtkSFip~~~~~yCvpCYE~kfA   32 (32)
T d1wyha1           2 CSGCEQPLGSRSFVPDKGAHYCVPCYENKFA   32 (32)
T ss_dssp             CTTTCCBTTTSCEEEETTEEEEHHHHHHHTS
T ss_pred             cccccCcccccccccCCCcEEEEeccccccC
Confidence            7889999998999999999999999998774

>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=97.24  E-value=2.7e-05  Score=39.60  Aligned_cols=28  Identities=39%  Similarity=0.977  Sum_probs=24.2

Q ss_pred             CCCCCCCCCCccc-cEEEEcCceecCCCC
Q psy11756        157 CPKCFGCGKPITE-TAIKVHDRKWHEACF  184 (233)
Q Consensus       157 ~~~C~~C~~~I~~-~~i~~~~~~~H~~Cf  184 (233)
                      .+.|++|++.+-+ +.|.-.++.||+.||
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            4789999999965 568899999999998

>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=97.22  E-value=5.4e-05  Score=37.28  Aligned_cols=25  Identities=32%  Similarity=0.995  Sum_probs=21.8

Q ss_pred             CCCCCCCccc--cEEEEcCceecCCCC
Q psy11756        160 CFGCGKPITE--TAIKVHDRKWHEACF  184 (233)
Q Consensus       160 C~~C~~~I~~--~~i~~~~~~~H~~Cf  184 (233)
                      |..|.+.|.+  +.+.+.|..||..||
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            6789999976  468999999999998

>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=97.22  E-value=3.6e-05  Score=39.53  Aligned_cols=30  Identities=23%  Similarity=0.658  Sum_probs=27.4

Q ss_pred             cCCCCCCCCCCceeeeCCcccccccccccc
Q psy11756         68 CTHCRIPIATQKFHVHAGSPYCVEDYASLF   97 (233)
Q Consensus        68 C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~   97 (233)
                      |..|++.|++.+...+++.+||+.||-+.+
T Consensus         2 C~~C~K~LdStTva~h~~eiYCKsCygkky   31 (32)
T d1a7ia2           2 CMVCRKNLDSTTVAIHDAEVYCKSCYGKKY   31 (32)
T ss_dssp             CSSSCCEECSSCCEEETTEEECSHHHHHHC
T ss_pred             chhhhhccCcceeeeecceEEehhhccccC
Confidence            778999999999999999999999997765

>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=97.19  E-value=0.0001  Score=37.86  Aligned_cols=28  Identities=32%  Similarity=0.758  Sum_probs=26.3

Q ss_pred             cCCCCCCCCCCceEeeCCeeeChhhhhc
Q psy11756        186 CGRCRRPISGPTFRVCEADVVCVECSEK  213 (233)
Q Consensus       186 C~~C~~~l~~~~~~~~~~~~~C~~C~~~  213 (233)
                      |..|++.|.+.....+++.+||+.||.+
T Consensus         2 C~~C~K~LdStTva~h~~eiYCKsCygk   29 (32)
T d1a7ia2           2 CMVCRKNLDSTTVAIHDAEVYCKSCYGK   29 (32)
T ss_dssp             CSSSCCEECSSCCEEETTEEECSHHHHH
T ss_pred             chhhhhccCcceeeeecceEEehhhccc
Confidence            8899999999999999999999999976

>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=97.17  E-value=7.8e-05  Score=38.79  Aligned_cols=32  Identities=31%  Similarity=0.765  Sum_probs=27.9

Q ss_pred             ccCCCCCCCCCCceeeeCCcccccc-ccccccC
Q psy11756         67 RCTHCRIPIATQKFHVHAGSPYCVE-DYASLFL   98 (233)
Q Consensus        67 ~C~~C~~~l~~~~~~~~~~~~yC~~-c~~~~~~   98 (233)
                      +|..|++.|.......++|++||.. ||..+|+
T Consensus         1 kCekC~ktL~~G~HaEH~gkPYC~~PCY~aLFG   33 (33)
T d2cu8a2           1 KCERCSKTLTPGGHAEHDGKPFCHKPCYATLFG   33 (33)
T ss_dssp             BCSSSCCBCCTTSCEEETTEEECTTTHHHHHSC
T ss_pred             CchhcccccCCCCccccCCCcCcCcchHHhhcC
Confidence            5899999999989999999999975 9987663

>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=97.17  E-value=7e-05  Score=39.05  Aligned_cols=26  Identities=27%  Similarity=0.638  Sum_probs=23.0

Q ss_pred             CCCCCCcccc--ccEEecCCCeeecCCC
Q psy11756        100 KCQGCRLPIK--DVVVTALNQTWHPDHF  125 (233)
Q Consensus       100 ~C~~C~~~i~--~~~~~~~~~~~H~~Cf  125 (233)
                      .|.+|++.|.  +.++.+.+..||..||
T Consensus         4 ~Ca~C~~~I~~~e~VmRA~~~VyHl~CF   31 (31)
T d1rutx3           4 ACSACGQSIPASELVMRAQGNVYHLKCF   31 (31)
T ss_dssp             ECTTTCCEECTTSEEEEETTEEECGGGC
T ss_pred             ccccccCcCChhHhheecccceeeeccC
Confidence            6999999994  4588999999999998

>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=97.16  E-value=7.2e-05  Score=42.58  Aligned_cols=27  Identities=26%  Similarity=0.818  Sum_probs=23.2

Q ss_pred             CCCCCCCCCccc-cEEEEcCceecCCCC
Q psy11756        158 PKCFGCGKPITE-TAIKVHDRKWHEACF  184 (233)
Q Consensus       158 ~~C~~C~~~I~~-~~i~~~~~~~H~~Cf  184 (233)
                      .+|..|++.+-. +.+.+.|+.||+.||
T Consensus        16 ~kC~~C~k~VY~~E~~~~~g~~~Hk~CF   43 (43)
T d1b8ta3          16 DGCPRCGQAVYAAEKVIGAGKSWHKSCF   43 (43)
T ss_dssp             EECTTTSCEECSSSCEEETTEEECTTTC
T ss_pred             CcCccCCCEeeHHHHhhcCCCccccCCC
Confidence            579999999844 568899999999998

>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=97.13  E-value=0.00015  Score=39.15  Aligned_cols=28  Identities=21%  Similarity=0.610  Sum_probs=24.5

Q ss_pred             CCCCCCCCCCccc-cEEEEcCceecCCCC
Q psy11756        157 CPKCFGCGKPITE-TAIKVHDRKWHEACF  184 (233)
Q Consensus       157 ~~~C~~C~~~I~~-~~i~~~~~~~H~~Cf  184 (233)
                      ..+|..|++.+-. +.+.+.|+.||.+||
T Consensus         7 ~~kC~~C~K~VY~~E~~~a~g~~~Hk~CF   35 (35)
T d2d8ya1           7 RETCVECQKTVYPMERLLANQQVFHISCF   35 (35)
T ss_dssp             SCBCTTTCCBCCTTSEEECSSSEEETTTC
T ss_pred             CcccccCCCEEeeeeeEecCCeehhhccC
Confidence            5689999999954 569999999999998

>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=97.02  E-value=0.00018  Score=44.21  Aligned_cols=34  Identities=26%  Similarity=0.701  Sum_probs=31.1

Q ss_pred             CCCCCCcccccCceeccCCceechhhhhhccCCC
Q psy11756        126 VCISCGTKLLYKGFYEREGNAFCTACYEGKFCPK  159 (233)
Q Consensus       126 ~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~  159 (233)
                      .|..|++.|........++.+||..||.++|+|+
T Consensus         1 ~C~~C~K~LdS~~~~eh~~e~YCk~CY~k~fGPk   34 (65)
T d1b8ta2           1 LCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPK   34 (65)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHHSCC
T ss_pred             CchhcCCccCCCccccCCCcccchhhhccccCCC
Confidence            3889999999888889999999999999999987

>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=96.94  E-value=0.00029  Score=37.03  Aligned_cols=32  Identities=22%  Similarity=0.424  Sum_probs=27.9

Q ss_pred             CCCCCCcccccCceecc-CCceechhhhhhccC
Q psy11756        126 VCISCGTKLLYKGFYER-EGNAFCTACYEGKFC  157 (233)
Q Consensus       126 ~C~~C~~~l~~~~~~~~-~g~~~C~~c~~~~~~  157 (233)
                      .|..|+..|.|.+|.+. .+++||..+|++.|+
T Consensus         1 tCvvC~~~LDGvPFtvD~~n~i~Cv~DyHrkfA   33 (33)
T d2dloa2           1 TCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFA   33 (33)
T ss_dssp             BCSSSCCBCTTSCEECCTTCCCEEHHHHHHHTT
T ss_pred             CeeEcCcccCCCcEEEcCCCCEeehhhhhhhcC
Confidence            48899999999999875 789999999998875

>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=96.84  E-value=0.00042  Score=35.37  Aligned_cols=29  Identities=38%  Similarity=0.897  Sum_probs=26.4

Q ss_pred             CCCCCCcccccCceeccCCceechhhhhh
Q psy11756        126 VCISCGTKLLYKGFYEREGNAFCTACYEG  154 (233)
Q Consensus       126 ~C~~C~~~l~~~~~~~~~g~~~C~~c~~~  154 (233)
                      .|..|+..|.|..|+..+.+.||+.||..
T Consensus         1 vC~tC~~kLRGqpFYAvekkayCE~CYi~   29 (32)
T d1x61a2           1 VCSTCRAQLRGQHFYAVERRAYCEGCYVA   29 (32)
T ss_dssp             BCSSSCCBCTTSCEEESSSCEEEHHHHHH
T ss_pred             CeeEeCceecCCcceEeeccccccceeee
Confidence            48899999999999999999999999854

>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=96.82  E-value=0.00038  Score=35.52  Aligned_cols=29  Identities=28%  Similarity=0.654  Sum_probs=26.6

Q ss_pred             CcCCCCCCCCCCceEeeCCeeeChhhhhc
Q psy11756        185 RCGRCRRPISGPTFRVCEADVVCVECSEK  213 (233)
Q Consensus       185 ~C~~C~~~l~~~~~~~~~~~~~C~~C~~~  213 (233)
                      .|..|+..|.|+.|+..+.+-||..||-.
T Consensus         1 vC~tC~~kLRGqpFYAvekkayCE~CYi~   29 (32)
T d1x61a2           1 VCSTCRAQLRGQHFYAVERRAYCEGCYVA   29 (32)
T ss_dssp             BCSSSCCBCTTSCEEESSSCEEEHHHHHH
T ss_pred             CeeEeCceecCCcceEeeccccccceeee
Confidence            38899999999999999999999999954

>d1ibia1 g.39.1.3 (A:117-144) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

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

Probab=96.71  E-value=0.00026  Score=35.25  Aligned_cols=26  Identities=27%  Similarity=0.792  Sum_probs=21.0

Q ss_pred             CCCCCCCCCcc-ccEEEEcCceecCCC
Q psy11756        158 PKCFGCGKPIT-ETAIKVHDRKWHEAC  183 (233)
Q Consensus       158 ~~C~~C~~~I~-~~~i~~~~~~~H~~C  183 (233)
                      .+|++|++.+- .+.|.-.|+.||+.|
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            47999999984 455777889999987

>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=96.71  E-value=0.00032  Score=34.36  Aligned_cols=25  Identities=28%  Similarity=0.630  Sum_probs=21.5

Q ss_pred             cccccccccc--cEeeecCCCcCcCCC
Q psy11756         42 CAACQGLIQN--IIVQALDKTWHPEHF   66 (233)
Q Consensus        42 C~~C~~~I~~--~~~~~~~~~~H~~Cf   66 (233)
                      |..|.++|.-  +-+...++.||..||
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            6789999954  668889999999998

>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=96.68  E-value=0.00027  Score=38.29  Aligned_cols=28  Identities=25%  Similarity=0.573  Sum_probs=24.1

Q ss_pred             CCCCCCCCCCccc-cEEEEcCceecCCCC
Q psy11756        157 CPKCFGCGKPITE-TAIKVHDRKWHEACF  184 (233)
Q Consensus       157 ~~~C~~C~~~I~~-~~i~~~~~~~H~~Cf  184 (233)
                      ..+|..|++.+-. +.+.+.|+.||.+||
T Consensus         8 ~~~C~~C~K~VY~~Erl~a~g~~yHk~CF   36 (36)
T d2co8a2           8 GDLCALCGEHLYVLERLCVNGHFFHRSCF   36 (36)
T ss_dssp             SCBCSSSCCBCCTTTBCCBTTBCCBTTTC
T ss_pred             CCcccccCCEEeeeeEEEecCcEeccccC
Confidence            4689999999854 568899999999998

>d1x63a2 g.39.1.3 (A:45-76) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.63  E-value=0.00092  Score=33.66  Aligned_cols=29  Identities=31%  Similarity=0.701  Sum_probs=26.6

Q ss_pred             CcCCCCCCCCCCceEeeCCeeeChhhhhc
Q psy11756        185 RCGRCRRPISGPTFRVCEADVVCVECSEK  213 (233)
Q Consensus       185 ~C~~C~~~l~~~~~~~~~~~~~C~~C~~~  213 (233)
                      .|+.|++.|..+.|+.+...+||..|++.
T Consensus         1 tcs~ckq~igsgsffpkg~d~ycvtche~   29 (32)
T d1x63a2           1 TCSNCKQVIGTGSFFPKGEDFYCVTCHET   29 (32)
T ss_dssp             CCSSSCCCCTTSCEEEETTEEEEHHHHHH
T ss_pred             CcchhhhhcccccccCCCCcEEEEEeecc
Confidence            48999999988999999999999999975

>d2cupa2 g.39.1.3 (A:35-65) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.48  E-value=0.0014  Score=33.12  Aligned_cols=29  Identities=28%  Similarity=0.912  Sum_probs=26.5

Q ss_pred             CcCCCCCCCCCCceEeeCCeeeChhhhhc
Q psy11756        185 RCGRCRRPISGPTFRVCEADVVCVECSEK  213 (233)
Q Consensus       185 ~C~~C~~~l~~~~~~~~~~~~~C~~C~~~  213 (233)
                      +|+.|-.+|.++.|..+|+++.|.+|..+
T Consensus         1 RCaKC~hpLA~E~F~aKd~kI~C~Kc~sr   29 (31)
T d2cupa2           1 RCAKCLHPLANETFVAKDNKILCNKCTTR   29 (31)
T ss_dssp             CCSSSCCCTTSSCCEEETTEEECHHHHTT
T ss_pred             CchhhccccccCcccccCCeEeecccccc
Confidence            68999999999999999999999999754

>d1x6aa2 g.39.1.3 (A:42-75) Lim domain kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Lim domain kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.42  E-value=0.0009  Score=34.91  Aligned_cols=31  Identities=26%  Similarity=0.689  Sum_probs=26.5

Q ss_pred             CCcCCCCCCC-CCCceEee-CCeeeChhhhhcc
Q psy11756        184 FRCGRCRRPI-SGPTFRVC-EADVVCVECSEKG  214 (233)
Q Consensus       184 f~C~~C~~~l-~~~~~~~~-~~~~~C~~C~~~~  214 (233)
                      |.|..|+..| +|+.|.++ ..++||..||.+.
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            7899999999 67888887 5679999999764

>d1x63a2 g.39.1.3 (A:45-76) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.34  E-value=0.0016  Score=32.77  Aligned_cols=32  Identities=25%  Similarity=0.702  Sum_probs=28.1

Q ss_pred             CCCCCCcccccCceeccCCceechhhhhhccC
Q psy11756        126 VCISCGTKLLYKGFYEREGNAFCTACYEGKFC  157 (233)
Q Consensus       126 ~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~  157 (233)
                      .|+.|++.+....|+.+....||..|+...|+
T Consensus         1 tcs~ckq~igsgsffpkg~d~ycvtche~kfa   32 (32)
T d1x63a2           1 TCSNCKQVIGTGSFFPKGEDFYCVTCHETKFA   32 (32)
T ss_dssp             CCSSSCCCCTTSCEEEETTEEEEHHHHHHHTS
T ss_pred             CcchhhhhcccccccCCCCcEEEEEeeccccC
Confidence            48899999988889999999999999987664

>d2cora2 g.39.1.3 (A:8-42) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=96.28  E-value=0.0015  Score=34.36  Aligned_cols=33  Identities=24%  Similarity=0.506  Sum_probs=29.1

Q ss_pred             CCCCCCCccccccccccccEeeecCCCcCcCCC
Q psy11756         34 AASTMYPKCAACQGLIQNIIVQALDKTWHPEHF   66 (233)
Q Consensus        34 ~~~~~~~~C~~C~~~I~~~~~~~~~~~~H~~Cf   66 (233)
                      +...++-+|.+|...|.++-+...+..||+..|
T Consensus         3 A~glGk~vC~KCh~iIdd~pL~Fr~d~YHp~HF   35 (35)
T d2cora2           3 ARGLGKYICQKCHAIIDEQPLIFKNDPYHPDHF   35 (35)
T ss_dssp             CCCCCCCBCTTTCCBCCSCCCCCSSSCCCTTTS
T ss_pred             ccchhhHHHHHHHhhhhcCcceecCCCCCCCCC
Confidence            346678899999999999999999999999887

>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=96.26  E-value=0.0011  Score=34.73  Aligned_cols=29  Identities=28%  Similarity=0.620  Sum_probs=26.0

Q ss_pred             CcCCCCCCCCCCceEee-CCeeeChhhhhc
Q psy11756        185 RCGRCRRPISGPTFRVC-EADVVCVECSEK  213 (233)
Q Consensus       185 ~C~~C~~~l~~~~~~~~-~~~~~C~~C~~~  213 (233)
                      +|..|++.|.|..|.+. +|++||.+.|-+
T Consensus         1 tCvvC~~~LDGvPFtvD~~n~i~Cv~DyHr   30 (33)
T d2dloa2           1 TCVVCHRGLDGIPFTVDATSQIHCIEDFHR   30 (33)
T ss_dssp             BCSSSCCBCTTSCEECCTTCCCEEHHHHHH
T ss_pred             CeeEcCcccCCCcEEEcCCCCEeehhhhhh
Confidence            48899999999999998 899999998854

>d1ibia1 g.39.1.3 (A:117-144) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

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

Probab=96.23  E-value=0.00075  Score=33.52  Aligned_cols=26  Identities=27%  Similarity=0.551  Sum_probs=21.5

Q ss_pred             Cccccccccccc-cEeeecCCCcCcCC
Q psy11756         40 PKCAACQGLIQN-IIVQALDKTWHPEH   65 (233)
Q Consensus        40 ~~C~~C~~~I~~-~~~~~~~~~~H~~C   65 (233)
                      .+|++|++.++- +-|...|+.||..|
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            379999999987 55666799999987

>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=96.17  E-value=0.0021  Score=32.87  Aligned_cols=27  Identities=22%  Similarity=0.640  Sum_probs=23.5

Q ss_pred             CcCCCCCCC-CCCceEeeCCeeeChhhh
Q psy11756        185 RCGRCRRPI-SGPTFRVCEADVVCVECS  211 (233)
Q Consensus       185 ~C~~C~~~l-~~~~~~~~~~~~~C~~C~  211 (233)
                      .|+.|..+| .|++|...+|.+||..-.
T Consensus         1 tC~tC~n~LVPGDRFHyvNG~lfCE~D~   28 (33)
T d1rutx4           1 TCSTCRNRLVPGDRFHYINGSLFCEHDR   28 (33)
T ss_dssp             BCTTTCCBCCTTCEEEEETTEEEEGGGC
T ss_pred             CcccccccccCCceeEEecCEEEEecCC
Confidence            488999999 889999999999998643

>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=95.92  E-value=0.0027  Score=32.22  Aligned_cols=29  Identities=31%  Similarity=0.744  Sum_probs=25.2

Q ss_pred             CCCCCCcccccCceeccCCceechhhhhh
Q psy11756        126 VCISCGTKLLYKGFYEREGNAFCTACYEG  154 (233)
Q Consensus       126 ~C~~C~~~l~~~~~~~~~g~~~C~~c~~~  154 (233)
                      .|+.|+..|....++..++++||+.+...
T Consensus         1 vC~dCg~NLKqrG~Ffv~~~lyCE~HAr~   29 (31)
T d1x64a2           1 VCADCNLNLKQKGYFFVEGELYCETHARA   29 (31)
T ss_dssp             CCSSSCCCTTTSCCEEETTEEECHHHHHH
T ss_pred             CccccccChhhcceEEeccEEeehhhhhc
Confidence            48999999988888889999999998654

>d1x61a1 g.39.1.3 (A:8-34) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.86  E-value=0.0019  Score=30.96  Aligned_cols=25  Identities=32%  Similarity=0.578  Sum_probs=21.9

Q ss_pred             cccccccccc--cEeeecCCCcCcCCC
Q psy11756         42 CAACQGLIQN--IIVQALDKTWHPEHF   66 (233)
Q Consensus        42 C~~C~~~I~~--~~~~~~~~~~H~~Cf   66 (233)
                      |.+|++.+.+  ..+.++++.||..||
T Consensus         1 cggcgedvvgdgagvvaldrvfhvgcf   27 (27)
T d1x61a1           1 CGGCGEDVVGDGAGVVALDRVFHVGCF   27 (27)
T ss_dssp             CSSSCSCCCSSSCCEECSSSEECTTTC
T ss_pred             CCCcccccccCCcceEEEeeeEEeccC
Confidence            7889999866  568899999999998

>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=95.65  E-value=0.0025  Score=33.01  Aligned_cols=28  Identities=25%  Similarity=0.644  Sum_probs=23.5

Q ss_pred             CCCCCCCCCCcc-ccEEEEcCceecCCCC
Q psy11756        157 CPKCFGCGKPIT-ETAIKVHDRKWHEACF  184 (233)
Q Consensus       157 ~~~C~~C~~~I~-~~~i~~~~~~~H~~Cf  184 (233)
                      +.+|..|.+.+- .+.|.-.|+.||+.||
T Consensus         7 g~kcg~c~ktvy~aeevqc~g~sfhk~cf   35 (35)
T d1b8ta1           7 GKKCGVCQKAVYFAEEVQCEGSSFHKSCF   35 (35)
T ss_dssp             CEECTTTCCEECSSCCEEETTEEECTTTC
T ss_pred             CceeccccceEeeeeeeeecCcccccccC
Confidence            357999999884 5678999999999998

>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=95.64  E-value=0.0047  Score=30.23  Aligned_cols=26  Identities=31%  Similarity=0.929  Sum_probs=22.5

Q ss_pred             CCCCCCCCc-cccEEEEcCceecCCCC
Q psy11756        159 KCFGCGKPI-TETAIKVHDRKWHEACF  184 (233)
Q Consensus       159 ~C~~C~~~I-~~~~i~~~~~~~H~~Cf  184 (233)
                      +|..|.+.+ ..+.|.-.|+.||+.||
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            688899888 45779999999999997

>d2cora1 g.39.1.3 (A:43-73) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=95.58  E-value=0.0066  Score=30.57  Aligned_cols=29  Identities=21%  Similarity=0.698  Sum_probs=23.7

Q ss_pred             CcCCCCCCCCCCceEeeCCeeeChhhhhcc
Q psy11756        185 RCGRCRRPISGPTFRVCEADVVCVECSEKG  214 (233)
Q Consensus       185 ~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~  214 (233)
                      .|+.|++.|+. .-..+.|.+||-.|+++.
T Consensus         1 nC~~Cgkelta-dArEl~geLyCLpChdKm   29 (31)
T d2cora1           1 NCANCGKELTA-DARELKGELYCLPCHDKM   29 (31)
T ss_dssp             BCSSSCCBCCT-TCEEETTEEECHHHHHTT
T ss_pred             Cccccccccch-hHHHhcCCEEEEeccccc
Confidence            48899999974 455668999999999874

>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=95.54  E-value=0.0025  Score=31.28  Aligned_cols=26  Identities=31%  Similarity=0.530  Sum_probs=23.4

Q ss_pred             ccccccccccc-cEeeecCCCcCcCCC
Q psy11756         41 KCAACQGLIQN-IIVQALDKTWHPEHF   66 (233)
Q Consensus        41 ~C~~C~~~I~~-~~~~~~~~~~H~~Cf   66 (233)
                      .|..|++.++- +-|...|++||..||
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            68899999977 789999999999997

>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=95.52  E-value=0.0023  Score=33.15  Aligned_cols=28  Identities=29%  Similarity=0.428  Sum_probs=24.7

Q ss_pred             CCccccccccccc-cEeeecCCCcCcCCC
Q psy11756         39 YPKCAACQGLIQN-IIVQALDKTWHPEHF   66 (233)
Q Consensus        39 ~~~C~~C~~~I~~-~~~~~~~~~~H~~Cf   66 (233)
                      -..|..|++.++- +-|...|++||..||
T Consensus         7 g~kcg~c~ktvy~aeevqc~g~sfhk~cf   35 (35)
T d1b8ta1           7 GKKCGVCQKAVYFAEEVQCEGSSFHKSCF   35 (35)
T ss_dssp             CEECTTTCCEECSSCCEEETTEEECTTTC
T ss_pred             CceeccccceEeeeeeeeecCcccccccC
Confidence            3589999999977 778899999999998

>d1wiga2 g.39.1.3 (A:33-73) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.44  E-value=0.012  Score=31.84  Aligned_cols=38  Identities=18%  Similarity=0.419  Sum_probs=30.1

Q ss_pred             CcCCCCCCC-CCCceEeeCCeeeChhhhhccccCCCCCC
Q psy11756        185 RCGRCRRPI-SGPTFRVCEADVVCVECSEKGREEGKNDT  222 (233)
Q Consensus       185 ~C~~C~~~l-~~~~~~~~~~~~~C~~C~~~~~~~~~~~~  222 (233)
                      .|++|+.++ +|+..|+..+.+|-..|.+..+.+.+.-+
T Consensus         1 ~C~rC~~mF~EGEEMYLQGs~IWHP~C~~~~~~E~k~p~   39 (41)
T d1wiga2           1 LCVRCGQMFAEGEEMYLQGSSIWHPACRQAARTEDSGPS   39 (41)
T ss_dssp             CCSSSCCCCCSSCCCEEETTEEECTTHHHHTSSSSCCSC
T ss_pred             CcchhhccccccceeeecCCceeCCcccccchhhccCCC
Confidence            388999999 56667777888999999988888776654

>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=0.0064  Score=30.62  Aligned_cols=29  Identities=21%  Similarity=0.579  Sum_probs=25.4

Q ss_pred             CCCCCCcccccCceeccCCceechhhhhh
Q psy11756        126 VCISCGTKLLYKGFYEREGNAFCTACYEG  154 (233)
Q Consensus       126 ~C~~C~~~l~~~~~~~~~g~~~C~~c~~~  154 (233)
                      +|..|-.+|..+.|+.++++++|..|..+
T Consensus         1 RCaKC~hpLA~E~F~aKd~kI~C~Kc~sr   29 (31)
T d2cupa2           1 RCAKCLHPLANETFVAKDNKILCNKCTTR   29 (31)
T ss_dssp             CCSSSCCCTTSSCCEEETTEEECHHHHTT
T ss_pred             CchhhccccccCcccccCCeEeecccccc
Confidence            58889999998999999999999998643

>d1x62a1 g.39.1.3 (A:43-73) PDZ and LIM domain protein 1 Elfin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 1 Elfin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.19  E-value=0.0033  Score=31.96  Aligned_cols=29  Identities=34%  Similarity=0.702  Sum_probs=24.8

Q ss_pred             CCCCCCcccccCceeccCCceechhhhhh
Q psy11756        126 VCISCGTKLLYKGFYEREGNAFCTACYEG  154 (233)
Q Consensus       126 ~C~~C~~~l~~~~~~~~~g~~~C~~c~~~  154 (233)
                      .|+.|+..|....++..++++||+.+.+.
T Consensus         1 vC~dCg~NLKqrG~Ffve~~lyCE~HAr~   29 (31)
T d1x62a1           1 VCTDCGTNLKQKGHFFVEDQIYCEKHARE   29 (31)
T ss_dssp             SCSSSCCCHHHHCCEESSSCEECHHHHHH
T ss_pred             CccccccChhhcceEEeccEEehhhhhhh
Confidence            48899999987788889999999998654

>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=95.17  E-value=0.0069  Score=31.66  Aligned_cols=29  Identities=21%  Similarity=0.422  Sum_probs=24.3

Q ss_pred             CCCCccccccccccc--cEeeecCCCcCcCC
Q psy11756         37 TMYPKCAACQGLIQN--IIVQALDKTWHPEH   65 (233)
Q Consensus        37 ~~~~~C~~C~~~I~~--~~~~~~~~~~H~~C   65 (233)
                      .....|.+|+.-..+  ++|...|..||+.|
T Consensus         5 L~~~~C~RC~~gF~p~EkiVNSnGEl~H~qC   35 (35)
T d1g47a1           5 LASATCERCKGGFAPAEKIVNSNGELYHEQC   35 (35)
T ss_dssp             CCCCBCSSSCCBCCSTTTCEEETTEEECTTT
T ss_pred             HHHHHHHHHccCCCchHHhhcCCCccccccC
Confidence            345689999998866  78999999999987

>d1x61a1 g.39.1.3 (A:8-34) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.13  E-value=0.0081  Score=28.72  Aligned_cols=25  Identities=36%  Similarity=0.918  Sum_probs=20.8

Q ss_pred             CCCCCCCccc--cEEEEcCceecCCCC
Q psy11756        160 CFGCGKPITE--TAIKVHDRKWHEACF  184 (233)
Q Consensus       160 C~~C~~~I~~--~~i~~~~~~~H~~Cf  184 (233)
                      |.+|+..+.+  ..+++.++.||..||
T Consensus         1 cggcgedvvgdgagvvaldrvfhvgcf   27 (27)
T d1x61a1           1 CGGCGEDVVGDGAGVVALDRVFHVGCF   27 (27)
T ss_dssp             CSSSCSCCCSSSCCEECSSSEECTTTC
T ss_pred             CCCcccccccCCcceEEEeeeEEeccC
Confidence            7789888754  459999999999997

>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=95.07  E-value=0.01  Score=29.97  Aligned_cols=29  Identities=14%  Similarity=0.431  Sum_probs=25.0

Q ss_pred             CcCCCCCCCCCCceEeeCCeeeChhhhhc
Q psy11756        185 RCGRCRRPISGPTFRVCEADVVCVECSEK  213 (233)
Q Consensus       185 ~C~~C~~~l~~~~~~~~~~~~~C~~C~~~  213 (233)
                      .|+.|+..|....+++.++++||..+...
T Consensus         1 vC~dCg~NLKqrG~Ffv~~~lyCE~HAr~   29 (31)
T d1x64a2           1 VCADCNLNLKQKGYFFVEGELYCETHARA   29 (31)
T ss_dssp             CCSSSCCCTTTSCCEEETTEEECHHHHHH
T ss_pred             CccccccChhhcceEEeccEEeehhhhhc
Confidence            48899999988888888999999988654

>d1x68a2 g.39.1.3 (A:37-70) Four and a half LIM domains protein 5, FHL-5 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 5, FHL-5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.70  E-value=0.017  Score=29.33  Aligned_cols=30  Identities=23%  Similarity=0.722  Sum_probs=26.4

Q ss_pred             CcCCCCCCCCCCceEeeCCeeeChhhhhcc
Q psy11756        185 RCGRCRRPISGPTFRVCEADVVCVECSEKG  214 (233)
Q Consensus       185 ~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~  214 (233)
                      .|..|+..|.|..|...+..++|++|-.-.
T Consensus         1 ncgkcsvslvg~gfltq~~~i~c~~cgsg~   30 (34)
T d1x68a2           1 NCGKCSVSLVGKGFLTQNKEIFCQKCGSGM   30 (34)
T ss_dssp             BCTTTCCBCSSSCEEEETTEEEETTTTCCC
T ss_pred             CCccceEEEEeeeeeeccCcEEehhcCCCc
Confidence            488999999999999999999999997543

>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=94.68  E-value=0.0044  Score=32.49  Aligned_cols=27  Identities=22%  Similarity=0.437  Sum_probs=24.2

Q ss_pred             CCCCCCCCCccccEEEEcCceecCCCC
Q psy11756        158 PKCFGCGKPITETAIKVHDRKWHEACF  184 (233)
Q Consensus       158 ~~C~~C~~~I~~~~i~~~~~~~H~~Cf  184 (233)
                      -.|.+|...|.++-+.+++..||+..|
T Consensus         9 ~vC~KCh~iIdd~pL~Fr~d~YHp~HF   35 (35)
T d2cora2           9 YICQKCHAIIDEQPLIFKNDPYHPDHF   35 (35)
T ss_dssp             CBCTTTCCBCCSCCCCCSSSCCCTTTS
T ss_pred             HHHHHHHhhhhcCcceecCCCCCCCCC
Confidence            368889999999999999999999887

>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=94.39  E-value=0.003  Score=32.85  Aligned_cols=32  Identities=25%  Similarity=0.600  Sum_probs=27.1

Q ss_pred             ccCCCCCCCC--CCceeeeCCccccccccccccC
Q psy11756         67 RCTHCRIPIA--TQKFHVHAGSPYCVEDYASLFL   98 (233)
Q Consensus        67 ~C~~C~~~l~--~~~~~~~~~~~yC~~c~~~~~~   98 (233)
                      +|+-|+..|.  +...|.+.|.++|+.+|.++|+
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            5788888887  4688899999999999998764

>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=93.86  E-value=0.049  Score=29.04  Aligned_cols=32  Identities=28%  Similarity=0.657  Sum_probs=26.3

Q ss_pred             CCcCCCCCCC-CCCceEeeCCeeeChhhhhccc
Q psy11756        184 FRCGRCRRPI-SGPTFRVCEADVVCVECSEKGR  215 (233)
Q Consensus       184 f~C~~C~~~l-~~~~~~~~~~~~~C~~C~~~~~  215 (233)
                      |.|+.|.+++ .|++..+....-.|+.|..-..
T Consensus         1 FvC~vCr~pFP~GDRVTFnGKeC~CQ~Cs~p~~   33 (40)
T d1v6ga2           1 FVCAVCRLPFPPGDRVTFNGKECMCQKCSLPVS   33 (40)
T ss_dssp             SSCSSSCCCCCSSSCEEEETTEEEEHHHHSCCS
T ss_pred             CcccccCCCCCCCCeEEEcCceeehhhcCCCcc
Confidence            7899999999 6677777777899999987443

>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=93.38  E-value=0.03  Score=29.13  Aligned_cols=27  Identities=19%  Similarity=0.528  Sum_probs=21.4

Q ss_pred             CCCCCCCCCCccc--cEEEEcCceecCCC
Q psy11756        157 CPKCFGCGKPITE--TAIKVHDRKWHEAC  183 (233)
Q Consensus       157 ~~~C~~C~~~I~~--~~i~~~~~~~H~~C  183 (233)
                      ...|.+|+....+  +.|...|..||..|
T Consensus         7 ~~~C~RC~~gF~p~EkiVNSnGEl~H~qC   35 (35)
T d1g47a1           7 SATCERCKGGFAPAEKIVNSNGELYHEQC   35 (35)
T ss_dssp             CCBCSSSCCBCCSTTTCEEETTEEECTTT
T ss_pred             HHHHHHHccCCCchHHhhcCCCccccccC
Confidence            4578899887754  56888999999987

>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=93.21  E-value=0.031  Score=28.35  Aligned_cols=27  Identities=26%  Similarity=0.565  Sum_probs=22.5

Q ss_pred             CCCCCCcccc-cCceeccCCceechhhh
Q psy11756        126 VCISCGTKLL-YKGFYEREGNAFCTACY  152 (233)
Q Consensus       126 ~C~~C~~~l~-~~~~~~~~g~~~C~~c~  152 (233)
                      .|+.|...|. +..|...+|.+||+.+.
T Consensus         1 tC~tC~n~LVPGDRFHyvNG~lfCE~D~   28 (33)
T d1rutx4           1 TCSTCRNRLVPGDRFHYINGSLFCEHDR   28 (33)
T ss_dssp             BCTTTCCBCCTTCEEEEETTEEEEGGGC
T ss_pred             CcccccccccCCceeEEecCEEEEecCC
Confidence            4888998885 77899999999998763

>d2cora1 g.39.1.3 (A:43-73) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=93.18  E-value=0.017  Score=28.97  Aligned_cols=29  Identities=17%  Similarity=0.514  Sum_probs=23.5

Q ss_pred             ccCCCCCCCCCCceeeeCCccccccccccc
Q psy11756         67 RCTHCRIPIATQKFHVHAGSPYCVEDYASL   96 (233)
Q Consensus        67 ~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~   96 (233)
                      .|+.|++.|.... ....|.+||.+|..++
T Consensus         1 nC~~CgkeltadA-rEl~geLyCLpChdKm   29 (31)
T d2cora1           1 NCANCGKELTADA-RELKGELYCLPCHDKM   29 (31)
T ss_dssp             BCSSSCCBCCTTC-EEETTEEECHHHHHTT
T ss_pred             CccccccccchhH-HHhcCCEEEEeccccc
Confidence            3889999998654 4788999999998764

>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=93.04  E-value=0.04  Score=28.45  Aligned_cols=31  Identities=19%  Similarity=0.535  Sum_probs=24.2

Q ss_pred             CCCCCCCcccc-cCceecc-CCceechhhhhhc
Q psy11756        125 FVCISCGTKLL-YKGFYER-EGNAFCTACYEGK  155 (233)
Q Consensus       125 f~C~~C~~~l~-~~~~~~~-~g~~~C~~c~~~~  155 (233)
                      |.|..|+..|. ++.|... ..++||..||.+.
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            78999999886 4566654 6789999998763

>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=92.87  E-value=0.0073  Score=30.62  Aligned_cols=30  Identities=13%  Similarity=0.356  Sum_probs=24.6

Q ss_pred             CcCCCCCCCCCCceEeeCCeeeChhhhhcc
Q psy11756        185 RCGRCRRPISGPTFRVCEADVVCVECSEKG  214 (233)
Q Consensus       185 ~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~  214 (233)
                      .|+.|+..|....++..++++||..+...+
T Consensus         1 vC~dCg~NLKqrG~Ffve~~lyCE~HAr~r   30 (31)
T d1x62a1           1 VCTDCGTNLKQKGHFFVEDQIYCEKHARER   30 (31)
T ss_dssp             SCSSSCCCHHHHCCEESSSCEECHHHHHHH
T ss_pred             CccccccChhhcceEEeccEEehhhhhhhc
Confidence            388999999777788889999999987543

>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=92.87  E-value=0.015  Score=31.51  Aligned_cols=26  Identities=19%  Similarity=0.497  Sum_probs=18.7

Q ss_pred             ccccccccccc--cEeeecCCCcCcCCC
Q psy11756         41 KCAACQGLIQN--IIVQALDKTWHPEHF   66 (233)
Q Consensus        41 ~C~~C~~~I~~--~~~~~~~~~~H~~Cf   66 (233)
                      .|.+|++....  +.....+..|||.|-
T Consensus         1 ~C~rC~~mF~EGEEMYLQGs~IWHP~C~   28 (41)
T d1wiga2           1 LCVRCGQMFAEGEEMYLQGSSIWHPACR   28 (41)
T ss_dssp             CCSSSCCCCCSSCCCEEETTEEECTTHH
T ss_pred             CcchhhccccccceeeecCCceeCCccc
Confidence            48899998854  444445678999883

>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=92.61  E-value=0.03  Score=28.97  Aligned_cols=32  Identities=28%  Similarity=0.491  Sum_probs=26.4

Q ss_pred             CCCCCCcccc--cCceeccCCceechhhhhhccC
Q psy11756        126 VCISCGTKLL--YKGFYEREGNAFCTACYEGKFC  157 (233)
Q Consensus       126 ~C~~C~~~l~--~~~~~~~~g~~~C~~c~~~~~~  157 (233)
                      +|.-|+..|.  +...|.+.|.++|..+|.++|+
T Consensus         1 KCscC~~~LgeiG~s~ytk~~mILCk~DY~rlFG   34 (34)
T d1rutx2           1 KCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG   34 (34)
T ss_dssp             BCTTTCCBHHHHCSEEEEETTEEECHHHHHHHHS
T ss_pred             CCcchhcChhhccchheecCCEEEEchhHHHhcC
Confidence            4777888885  5678889999999999988774

>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=92.31  E-value=0.07  Score=26.94  Aligned_cols=29  Identities=21%  Similarity=0.591  Sum_probs=26.1

Q ss_pred             CcCCCCCCCCCCceEeeCCeeeChhhhhc
Q psy11756        185 RCGRCRRPISGPTFRVCEADVVCVECSEK  213 (233)
Q Consensus       185 ~C~~C~~~l~~~~~~~~~~~~~C~~C~~~  213 (233)
                      +|..|...|....|..--|+..|.+|+.+
T Consensus         1 rC~~C~~~LAD~GFvKnagR~LCrpch~r   29 (32)
T d2d8xa1           1 RCDLCQEVLADIGFVKNAGRHLCRPCHNR   29 (32)
T ss_dssp             BCSSSCCBCSSSCCEEETTEEECHHHHHH
T ss_pred             CchHHHhHHHHhhhhhcccccccchhhhh
Confidence            58899999988889888999999999875

>d1x4la2 g.39.1.3 (A:37-66) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.67  E-value=0.12  Score=25.24  Aligned_cols=29  Identities=24%  Similarity=0.768  Sum_probs=25.0

Q ss_pred             CcCCCCCCCCCCceEeeCCeeeChhhhhc
Q psy11756        185 RCGRCRRPISGPTFRVCEADVVCVECSEK  213 (233)
Q Consensus       185 ~C~~C~~~l~~~~~~~~~~~~~C~~C~~~  213 (233)
                      .|..|+..|.|..|......+.|..|-..
T Consensus         1 nc~kcsvslvgrgflterddilc~dcgkd   29 (30)
T d1x4la2           1 NCKKCSLSLVGRGFLTERDDILCPDCGKD   29 (30)
T ss_dssp             BCSSSCCBCTTSCCEECSSSEECHHHHHT
T ss_pred             CcceeeEEEEeeeccccccceeccccCcC
Confidence            38889999999999998889999999653

>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=90.63  E-value=0.11  Score=26.21  Aligned_cols=29  Identities=28%  Similarity=0.611  Sum_probs=25.4

Q ss_pred             CCCCCCcccccCceeccCCceechhhhhh
Q psy11756        126 VCISCGTKLLYKGFYEREGNAFCTACYEG  154 (233)
Q Consensus       126 ~C~~C~~~l~~~~~~~~~g~~~C~~c~~~  154 (233)
                      +|..|...|.+..|+-.-|+.+|..|..+
T Consensus         1 rC~~C~~~LAD~GFvKnagR~LCrpch~r   29 (32)
T d2d8xa1           1 RCDLCQEVLADIGFVKNAGRHLCRPCHNR   29 (32)
T ss_dssp             BCSSSCCBCSSSCCEEETTEEECHHHHHH
T ss_pred             CchHHHhHHHHhhhhhcccccccchhhhh
Confidence            58899999998899988999999999754

>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=89.39  E-value=0.13  Score=33.75  Aligned_cols=45  Identities=20%  Similarity=0.340  Sum_probs=29.1

Q ss_pred             CCCCCCCcccccCceeccCCceechhhhhhccCCCCCCCCCCccc
Q psy11756        125 FVCISCGTKLLYKGFYEREGNAFCTACYEGKFCPKCFGCGKPITE  169 (233)
Q Consensus       125 f~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~~C~~C~~~I~~  169 (233)
                      +.|..|...+........=|..||..|..+.....|+.|..++..
T Consensus        23 l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~~~CP~Cr~~~~~   67 (97)
T d1jm7b_          23 LRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVCYTPAWI   67 (97)
T ss_dssp             TSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTTTBCSSSCCBCSC
T ss_pred             CCCccCCchhhcCceeCCCCCchhHHHHHHHHhccccccCCcCch
Confidence            567777776653322224578888888766666667777766643

>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=88.59  E-value=0.2  Score=26.58  Aligned_cols=29  Identities=21%  Similarity=0.432  Sum_probs=20.5

Q ss_pred             CCCCCCCcccc-cCceeccCCceechhhhh
Q psy11756        125 FVCISCGTKLL-YKGFYEREGNAFCTACYE  153 (233)
Q Consensus       125 f~C~~C~~~l~-~~~~~~~~g~~~C~~c~~  153 (233)
                      |.|..|.+++. ++........-+|..|..
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            78999999997 444444445567888864

>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=88.52  E-value=0.21  Score=32.57  Aligned_cols=43  Identities=16%  Similarity=0.369  Sum_probs=26.1

Q ss_pred             CccCCCCCCCCCCceeeeCCccccccccccccCCCCCCCCccc
Q psy11756         66 FRCTHCRIPIATQKFHVHAGSPYCVEDYASLFLNKCQGCRLPI  108 (233)
Q Consensus        66 f~C~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~C~~C~~~i  108 (233)
                      +.|..|...+........=|..||..|..+.....|..|+.++
T Consensus        23 l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~~~CP~Cr~~~   65 (97)
T d1jm7b_          23 LRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVCYTPA   65 (97)
T ss_dssp             TSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTTTBCSSSCCBC
T ss_pred             CCCccCCchhhcCceeCCCCCchhHHHHHHHHhccccccCCcC
Confidence            4667776666543222234667777776665555677777665

>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=86.09  E-value=0.22  Score=25.25  Aligned_cols=29  Identities=14%  Similarity=0.450  Sum_probs=23.4

Q ss_pred             CcCCCCCCCCCCceEee--CCeeeChhhhhc
Q psy11756        185 RCGRCRRPISGPTFRVC--EADVVCVECSEK  213 (233)
Q Consensus       185 ~C~~C~~~l~~~~~~~~--~~~~~C~~C~~~  213 (233)
                      +|-.|...|-.+.|...  ||.+||-.+..+
T Consensus         1 rC~~CeatL~pG~Y~qhp~dghfyc~~hlpq   31 (33)
T d2co8a1           1 RCHTCEATLWPGGYEQHPGDGHFYCLQHLPQ   31 (33)
T ss_dssp             BCSSSCCBCCTTSEECCTTTCCCEETTTCCC
T ss_pred             CceeeeeEEccCcccCCCCCceEeeeeccCC
Confidence            58889999977888877  899999877643

>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=85.34  E-value=0.3  Score=24.57  Aligned_cols=27  Identities=33%  Similarity=0.800  Sum_probs=21.7

Q ss_pred             CCCCCcccccCceeccCCceechhhhh
Q psy11756        127 CISCGTKLLYKGFYEREGNAFCTACYE  153 (233)
Q Consensus       127 C~~C~~~l~~~~~~~~~g~~~C~~c~~  153 (233)
                      |..|...|.+..|......++|..|-.
T Consensus         2 cgkcsvslvg~gfltq~~~i~c~~cgs   28 (34)
T d1x68a2           2 CGKCSVSLVGKGFLTQNKEIFCQKCGS   28 (34)
T ss_dssp             CTTTCCBCSSSCEEEETTEEEETTTTC
T ss_pred             CccceEEEEeeeeeeccCcEEehhcCC
Confidence            667888888888888888888887753

>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=81.56  E-value=0.28  Score=24.65  Aligned_cols=29  Identities=21%  Similarity=0.566  Sum_probs=22.6

Q ss_pred             ccCCCCCCCC--CCceeeeCCcccccccccc
Q psy11756         67 RCTHCRIPIA--TQKFHVHAGSPYCVEDYAS   95 (233)
Q Consensus        67 ~C~~C~~~l~--~~~~~~~~~~~yC~~c~~~   95 (233)
                      +|.-|...|.  +...|.+.+.++|+.+|.+
T Consensus         2 kC~cC~cRLGEVG~tlytk~nliLCkrDYlR   32 (33)
T d1j2oa2           2 SCDLCGCRLGEVGRRLYYKLGRKLCRRDYLR   32 (33)
T ss_dssp             CCSSSCSCCCCSSSCCCCBTTBCCCHHHHHH
T ss_pred             ccccccccccchhhHHHhhcceeeehhhhhc
Confidence            5666777776  3578889999999999865