Psyllid ID: psy16551

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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-------240-------250-------260-------270-------280-
Protein Sequence
MPEESTLSFNQYADRIYSVRFILGLKPSGNVIYRNSPRSVVKDLRSGDRVSRVNIRKKRPPDEGVISLIYIFFCRENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGHSPTLVSTSGESTMQ
Secondary Structure (PSIPRED)
cccccccccccccccccEEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEccEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEccccccccccccccccccccccccccccccccccHHHHHcccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccEEEcccccEEEEEEEEEEEcccccEEEEccccccEEEEEccccccEccccccccccccccccccHHHHcccccccccccccccccccccccccccccEEEEEEEEEEcccccccccEEEHHccccccccccccccccEEEEcccHHHHccccccccccccccccccccccccccccccccccccHHHcccccccccccccEEEEHEEEEEcccccccccEEcHccccccccccccccccccEEEccHHHHHcccccccccccccEEccccccccc
Coil and Loop (DISEMBL)
mpeestlsfnQYADRIYSVRFILglkpsgnviyrnsprsvvkdlrsgdrvsrvnirkkrppdegvISLIYIFFCrennaprttvidtakikaapgkgcprcggvVFAAEQVLAKGsewhrkcfkcrdcnktldsinacdgpdkdiycktcygkkwgphgygfaagsgflqtdgltedeisanrpfynpnttsimarkgegcprcggaVFAAEQQLAKgtmwhkqcfscnvckrpldsvlacdgpdkeiyckacygknfgpkgfgyghsptlvstsgestmq
Flexible Loop (DISEMBL)
mpeestlsfnQYADRIYSVRFILGlkpsgnviyrnsprsvvkdlrsgdrvsrvnirkkrppdegviSLIYIFFCRENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTldsinacdgpdkDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGHSptlvstsgestmq
Low Complexity Region (SEG)
MPEESTLSFNQYADRIYSVRFILGLKPSGNVIYRNSPRSVVKDLRSGDRVSRVNIRKKRPPDEGVISLIYIFFCRENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGHSPTLVSTSGESTMQ
Disordered region (IsUnstruct)
********FNQYADRIYSVRFILGLKPSGNVIYRN***************************EGVISLIYIFFCRENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGH**************
Disordered Region (DISOPRED)
***********************************************************************************************KGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGHS*************
Disordered Region (DISEMBL)
********FNQYADRIYSVRFILGLKPSGNVIYRNSPRSVVKDLRSGDRVSRVNIRKKRPPDEGVISLIYIFFCRENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGHSPTLV*********
Disordered Region (DISPRO)
****STLSFNQYADRIYSVRFILGLKPSGNVIYRNSPRSVVKDLRSGDRVSRVNIRKKRPPDEGVISLIYIFFCRE*******************KGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQT***************************EGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGHSPTLVST*******
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MPEESTLSFNQYADRIYSVRFILGLKPSGNVIYRNSPRSVVKDLRSGDRVSRVNIRKKRPPDEGVISLIYIFFCRENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGHSPTLVSTSGESTMQ
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	281	2.2.26 [Sep-21-2011]
Q24400	495	Muscle LIM protein Mlp84B	yes	N/A	0.743	0.422	0.766	3e-95
Q16527	193	Cysteine and glycine-rich	yes	N/A	0.608	0.886	0.461	2e-37
Q32LE9	193	Cysteine and glycine-rich	yes	N/A	0.608	0.886	0.461	2e-37
P97314	193	Cysteine and glycine-rich	yes	N/A	0.608	0.886	0.461	6e-37
Q62908	193	Cysteine and glycine-rich	yes	N/A	0.608	0.886	0.461	7e-37
P67967	192	Cysteine and glycine-rich	N/A	N/A	0.583	0.854	0.477	2e-36
P67966	192	Cysteine and glycine-rich	yes	N/A	0.583	0.854	0.477	2e-36
Q05158	194	Cysteine and glycine-rich	N/A	N/A	0.608	0.881	0.464	8e-36
P50460	194	Cysteine and glycine-rich	no	N/A	0.608	0.881	0.464	9e-36
Q3MHY1	193	Cysteine and glycine-rich	no	N/A	0.583	0.849	0.474	9e-36

>sp|Q24400|MLP2_DROME Muscle LIM protein Mlp84B OS=Drosophila melanogaster GN=Mlp84B PE=1 SV=1

 Score =  348 bits (892), Expect = 3e-95,   Method: Compositional matrix adjust.
 Identities = 161/210 (76%), Positives = 187/210 (89%), Gaps = 1/210 (0%)

Query: 73  FCRENNAPRT-TVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKT 131
           +  ++ AP+    ID  KI+A PG+GCPRCGGVV+AAEQ L+KG EWH+KCF C+DC+KT
Sbjct: 196 YAHDDGAPQIRAAIDVDKIQARPGEGCPRCGGVVYAAEQKLSKGREWHKKCFNCKDCHKT 255

Query: 132 LDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTT 191
           LDSINA DGPD+D+YC+TCYGKKWGPHGYGFA GSGFLQTDGLTED+ISANRPFYNP+TT
Sbjct: 256 LDSINASDGPDRDVYCRTCYGKKWGPHGYGFACGSGFLQTDGLTEDQISANRPFYNPDTT 315

Query: 192 SIMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCK 251
           SI AR GEGCPRCGGAVFAAEQQL+KG +WHK+C++C  C RPLDSVLACDGPD +I+C+
Sbjct: 316 SIKARDGEGCPRCGGAVFAAEQQLSKGKVWHKKCYNCADCHRPLDSVLACDGPDGDIHCR 375

Query: 252 ACYGKNFGPKGFGYGHSPTLVSTSGESTMQ 281
           ACYGK FGPKGFGYGH+PTLVSTSGEST+Q
Sbjct: 376 ACYGKLFGPKGFGYGHAPTLVSTSGESTIQ 405

Plays a role in cell differentiation late in myogenesis. Transcription factor Mef2 is essential for expression.
Drosophila melanogaster (taxid: 7227)

>sp|Q16527|CSRP2_HUMAN Cysteine and glycine-rich protein 2 OS=Homo sapiens GN=CSRP2 PE=1 SV=3

 Score =  156 bits (394), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 83/180 (46%), Positives = 106/180 (58%), Gaps = 9/180 (5%)

Query: 95  GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 154
           G  C  CG  V+ AE+V   G  +HR CF C  C K LDS       D++IYCK+CYGKK
Sbjct: 7   GNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAI-HDEEIYCKSCYGKK 65

Query: 155 WGPHGYGFAAGSGFLQTD-----GLTEDEISANRPFYNPNTTSIMARKG--EGCPRCGGA 207
           +GP GYG+  G+G L  D     G+  + +  +RP  NPNT+    + G  E C RCG +
Sbjct: 66  YGPKGYGYGQGAGTLNMDRGERLGIKPESVQPHRPTTNPNTSKFAQKYGGAEKCSRCGDS 125

Query: 208 VFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGH 267
           V+AAE+ +  G  WHK CF C  C + L+S    +  + EIYCK CY KNFGPKGFGYG 
Sbjct: 126 VYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLTE-KEGEIYCKGCYAKNFGPKGFGYGQ 184

Drastically down-regulated in response to PDGF-BB or cell injury, that promote smooth muscle cell proliferation and dedifferentiation. Seems to play a role in the development of the embryonic vascular system.

Homo sapiens (taxid: 9606)

>sp|Q32LE9|CSRP2_BOVIN Cysteine and glycine-rich protein 2 OS=Bos taurus GN=CSRP2 PE=2 SV=3

 Score =  156 bits (394), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 83/180 (46%), Positives = 106/180 (58%), Gaps = 9/180 (5%)

Query: 95  GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 154
           G  C  CG  V+ AE+V   G  +HR CF C  C K LDS       D++IYCK+CYGKK
Sbjct: 7   GNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAI-HDEEIYCKSCYGKK 65

Query: 155 WGPHGYGFAAGSGFLQTD-----GLTEDEISANRPFYNPNTTSIMARKG--EGCPRCGGA 207
           +GP GYG+  G+G L  D     G+  + +  +RP  NPNT+    + G  E C RCG +
Sbjct: 66  YGPKGYGYGQGAGTLNMDRGERLGIKPESVQPHRPTTNPNTSKFAQKYGGAEKCSRCGDS 125

Query: 208 VFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGH 267
           V+AAE+ +  G  WHK CF C  C + L+S    +  + EIYCK CY KNFGPKGFGYG 
Sbjct: 126 VYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLTE-KEGEIYCKGCYAKNFGPKGFGYGQ 184

Drastically down-regulated in response to PDGF-BB or cell injury, that promote smooth muscle cell proliferation and dedifferentiation. Seems to play a role in the development of the embryonic vascular system.

Bos taurus (taxid: 9913)

>sp|P97314|CSRP2_MOUSE Cysteine and glycine-rich protein 2 OS=Mus musculus GN=Csrp2 PE=1 SV=3

 Score =  154 bits (389), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 83/180 (46%), Positives = 105/180 (58%), Gaps = 9/180 (5%)

Query: 95  GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 154
           G  C  CG  V+ AE+V   G  +HR CF C  C K LDS       D++IYCK+CYGKK
Sbjct: 7   GNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAI-HDEEIYCKSCYGKK 65

Query: 155 WGPHGYGFAAGSGFLQTD-----GLTEDEISANRPFYNPNTTSIMARKG--EGCPRCGGA 207
           +GP GYG+  G+G L  D     G+  +    +RP  NPNT+    + G  E C RCG +
Sbjct: 66  YGPKGYGYGQGAGTLNMDRGERLGIKPESAQPHRPTTNPNTSKFAQKYGGAEKCSRCGDS 125

Query: 208 VFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGH 267
           V+AAE+ +  G  WHK CF C  C + L+S    +  + EIYCK CY KNFGPKGFGYG 
Sbjct: 126 VYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLTE-KEGEIYCKGCYAKNFGPKGFGYGQ 184

Drastically down-regulated in response to PDGF-BB or cell injury, that promote smooth muscle cell proliferation and dedifferentiation. Seems to play a role in the development of the embryonic vascular system.

Mus musculus (taxid: 10090)

>sp|Q62908|CSRP2_RAT Cysteine and glycine-rich protein 2 OS=Rattus norvegicus GN=Csrp2 PE=2 SV=3

 Score =  154 bits (389), Expect = 7e-37,   Method: Compositional matrix adjust.
 Identities = 83/180 (46%), Positives = 105/180 (58%), Gaps = 9/180 (5%)

Query: 95  GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 154
           G  C  CG  V+ AE+V   G  +HR CF C  C K LDS       D++IYCK+CYGKK
Sbjct: 7   GNKCGACGRTVYHAEEVQCDGRTFHRCCFLCMVCRKNLDSTTVAI-HDEEIYCKSCYGKK 65

Query: 155 WGPHGYGFAAGSGFLQTD-----GLTEDEISANRPFYNPNTTSIMARKG--EGCPRCGGA 207
           +GP GYG+  G+G L  D     G+  +    +RP  NPNT+    + G  E C RCG +
Sbjct: 66  YGPKGYGYGQGAGTLNMDRGERLGIKPESAQPHRPTTNPNTSKFAQKYGGAEKCSRCGDS 125

Query: 208 VFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGH 267
           V+AAE+ +  G  WHK CF C  C + L+S    +  + EIYCK CY KNFGPKGFGYG 
Sbjct: 126 VYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLTE-KEGEIYCKGCYAKNFGPKGFGYGQ 184

Drastically down-regulated in response to PDGF-BB or cell injury, that promote smooth muscle cell proliferation and dedifferentiation. Seems to play a role in the development of the embryonic vascular system.

Rattus norvegicus (taxid: 10116)

>sp|P67967|CSRP1_COTJA Cysteine and glycine-rich protein 1 OS=Coturnix coturnix japonica GN=CSRP1 PE=2 SV=2

 Score =  152 bits (385), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 83/174 (47%), Positives = 106/174 (60%), Gaps = 10/174 (5%)

Query: 95  GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 154
           GK C  C   V+ AE+V  +GS +H+ CF C  C K LDS       D +IYCK+CYGKK
Sbjct: 7   GKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGD-EIYCKSCYGKK 65

Query: 155 WGPHGYGFAAGSGFLQTD-----GLTEDEISANRPFYNPNTTSIMARKG--EGCPRCGGA 207
           +GP GYG+  G+G L TD     G+  +E  ++RP  NPN + +  + G  +GCPRCG A
Sbjct: 66  YGPKGYGYGMGAGTLSTDKGESLGIKYEEGQSHRPT-NPNASRMAQKVGGSDGCPRCGQA 124

Query: 208 VFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPK 261
           V+AAE+ +  G  WHK CF C  C + L+S    D  D EIYCK CY KNFGPK
Sbjct: 125 VYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLAD-KDGEIYCKGCYAKNFGPK 177

Heat stable protein, that interacts with zyxin. May be a component of a signal transduction pathway that mediates adhesion-stimulated changes in gene expression.

Coturnix coturnix japonica (taxid: 93934)

>sp|P67966|CSRP1_CHICK Cysteine and glycine-rich protein 1 OS=Gallus gallus GN=CSRP1 PE=1 SV=2

 Score =  152 bits (385), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 83/174 (47%), Positives = 106/174 (60%), Gaps = 10/174 (5%)

Query: 95  GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 154
           GK C  C   V+ AE+V  +GS +H+ CF C  C K LDS       D +IYCK+CYGKK
Sbjct: 7   GKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGD-EIYCKSCYGKK 65

Query: 155 WGPHGYGFAAGSGFLQTD-----GLTEDEISANRPFYNPNTTSIMARKG--EGCPRCGGA 207
           +GP GYG+  G+G L TD     G+  +E  ++RP  NPN + +  + G  +GCPRCG A
Sbjct: 66  YGPKGYGYGMGAGTLSTDKGESLGIKYEEGQSHRPT-NPNASRMAQKVGGSDGCPRCGQA 124

Query: 208 VFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPK 261
           V+AAE+ +  G  WHK CF C  C + L+S    D  D EIYCK CY KNFGPK
Sbjct: 125 VYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLAD-KDGEIYCKGCYAKNFGPK 177

Heat stable protein, that interacts with zyxin. May be a component of a signal transduction pathway that mediates adhesion-stimulated changes in gene expression.

Gallus gallus (taxid: 9031)

>sp|Q05158|CSRP2_COTJA Cysteine and glycine-rich protein 2 OS=Coturnix coturnix japonica GN=CSRP2 PE=1 SV=2

 Score =  150 bits (380), Expect = 8e-36,   Method: Compositional matrix adjust.
 Identities = 84/181 (46%), Positives = 105/181 (58%), Gaps = 10/181 (5%)

Query: 95  GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 154
           G  C  CG  V+ AE+V   G  +HR CF C  C K LDS       D ++YCK+CYGKK
Sbjct: 7   GNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAI-HDAEVYCKSCYGKK 65

Query: 155 WGPHGYGFAAGSGFLQTD-----GLT-EDEISANRPFYNPNTTSIMARKG--EGCPRCGG 206
           +GP GYG+  G+G L  D     G+  E   S +RP  NPNT+    + G  E C RCG 
Sbjct: 66  YGPKGYGYGQGAGTLNMDRGERLGIKPESSPSPHRPTTNPNTSKFAQKFGGAEKCSRCGD 125

Query: 207 AVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYG 266
           +V+AAE+ +  G  WHK CF C  C + L+S    +  + EIYCK CY KNFGPKGFGYG
Sbjct: 126 SVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTE-KEGEIYCKGCYAKNFGPKGFGYG 184

Query: 267 H 267
            
Sbjct: 185 Q 185

Interacts with zyxin. May be a component of a signal transduction pathway that mediates adhesion-stimulated changes in gene expression. Totally down-regulated in transformed cells.

Coturnix coturnix japonica (taxid: 93934)

>sp|P50460|CSRP2_CHICK Cysteine and glycine-rich protein 2 OS=Gallus gallus GN=CSRP2 PE=2 SV=3

 Score =  150 bits (380), Expect = 9e-36,   Method: Compositional matrix adjust.
 Identities = 84/181 (46%), Positives = 105/181 (58%), Gaps = 10/181 (5%)

Query: 95  GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 154
           G  C  CG  V+ AE+V   G  +HR CF C  C K LDS       D ++YCK+CYGKK
Sbjct: 7   GNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAI-HDAEVYCKSCYGKK 65

Query: 155 WGPHGYGFAAGSGFLQTD-----GLT-EDEISANRPFYNPNTTSIMARKG--EGCPRCGG 206
           +GP GYG+  G+G L  D     G+  E   S +RP  NPNT+    + G  E C RCG 
Sbjct: 66  YGPKGYGYGQGAGTLNMDRGERLGIKPESTPSPHRPTTNPNTSKFAQKFGGAEKCSRCGD 125

Query: 207 AVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYG 266
           +V+AAE+ +  G  WHK CF C  C + L+S    +  + EIYCK CY KNFGPKGFGYG
Sbjct: 126 SVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTE-KEGEIYCKGCYAKNFGPKGFGYG 184

Query: 267 H 267
            
Sbjct: 185 Q 185

Totally down-regulated in transformed cells. May therefore take part in the control of cell growth and differentiation.

Gallus gallus (taxid: 9031)

>sp|Q3MHY1|CSRP1_BOVIN Cysteine and glycine-rich protein 1 OS=Bos taurus GN=CSRP1 PE=2 SV=3

 Score =  150 bits (379), Expect = 9e-36,   Method: Compositional matrix adjust.
 Identities = 83/175 (47%), Positives = 104/175 (59%), Gaps = 11/175 (6%)

Query: 95  GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSIN-ACDGPDKDIYCKTCYGK 153
           GK C  C   V+ AE+V  +GS +H+ CF C  C K LDS   A  G  ++IYCK+CYGK
Sbjct: 7   GKKCGVCQKTVYFAEEVQCEGSSFHKSCFLCLVCKKNLDSTTVAVHG--EEIYCKSCYGK 64

Query: 154 KWGPHGYGFAAGSGFLQTD-----GLTEDEISANRPFYNPNTTSIMARKG--EGCPRCGG 206
           K+GP GYG+  G+G L  D     G+  +E   +RP  NPNT+    + G  E CPRC  
Sbjct: 65  KYGPKGYGYGQGAGTLSMDKGESLGIRHEEAPGHRPTTNPNTSKFAQKVGGSERCPRCSQ 124

Query: 207 AVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPK 261
           AV+AAE+ +  G  WHK CF C  C + L+S    D  D EIYCK CY KNFGPK
Sbjct: 125 AVYAAEKVIGAGKSWHKSCFRCAKCGKGLESTTLAD-KDGEIYCKGCYAKNFGPK 178

Could play a role in neuronal development.

Bos taurus (taxid: 9913)

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	281
307182443	563	Muscle LIM protein Mlp84B [Camponotus fl	0.683	0.341	0.840	1e-97
160333386	494	muscle LIM protein isoform 1 [Bombyx mor	0.718	0.408	0.833	1e-97
242019568	492	muscle lim protein, putative [Pediculus	0.697	0.398	0.836	3e-97
357619549	516	muscle LIM protein isoform 1 [Danaus ple	0.693	0.377	0.845	3e-97
307205016	472	Muscle LIM protein Mlp84B [Harpegnathos	0.690	0.411	0.840	3e-97
332373454	490	unknown [Dendroctonus ponderosae]	0.704	0.404	0.826	1e-96
322797391	401	hypothetical protein SINV_16490 [Solenop	0.690	0.483	0.835	1e-96
332027513	560	Muscle LIM protein Mlp84B [Acromyrmex ec	0.672	0.337	0.830	1e-96
328788697	493	PREDICTED: muscle LIM protein Mlp84B-lik	0.697	0.397	0.839	1e-96
383854456	493	PREDICTED: muscle LIM protein Mlp84B-lik	0.704	0.401	0.835	2e-96

>gi|307182443|gb|EFN69678.1| Muscle LIM protein Mlp84B [Camponotus floridanus]

 Score =  362 bits (929), Expect = 1e-97,   Method: Compositional matrix adjust.
 Identities = 169/201 (84%), Positives = 184/201 (91%)

Query: 77  NNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSIN 136
           + APRTTVIDTA IKA PGKGCPRCGGVVFAAEQVLAKG EWHRKC+KC DC KTLDSI 
Sbjct: 267 DAAPRTTVIDTAIIKAPPGKGCPRCGGVVFAAEQVLAKGREWHRKCYKCHDCTKTLDSII 326

Query: 137 ACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMAR 196
           ACDGPD+D+YCKTCYGKKWGPHGYGFA GSGFLQTDGLTE+EISANRPFYNP+TTSI A 
Sbjct: 327 ACDGPDRDVYCKTCYGKKWGPHGYGFACGSGFLQTDGLTEEEISANRPFYNPDTTSIKAP 386

Query: 197 KGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGK 256
            G+GCPRCGG VFAAEQQLAKGTMWHK+CF+C  C RPLDS+LACDGPDKEI+C+ACYGK
Sbjct: 387 AGQGCPRCGGMVFAAEQQLAKGTMWHKKCFNCAECHRPLDSMLACDGPDKEIHCRACYGK 446

Query: 257 NFGPKGFGYGHSPTLVSTSGE 277
            FGPKGFG+GH PTLVST+G+
Sbjct: 447 LFGPKGFGFGHKPTLVSTNGD 467

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|160333386|ref|NP_001103762.1| muscle LIM protein isoform 1 [Bombyx mori] gi|87248175|gb|ABD36140.1| muscle LIM protein [Bombyx mori]

 Score =  362 bits (928), Expect = 1e-97,   Method: Compositional matrix adjust.
 Identities = 170/204 (83%), Positives = 185/204 (90%)

Query: 77  NNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSIN 136
           + AP+TTVIDTA IKA PGKGCPRCGGVVFAAEQVLAKG EWHRKCFKCRDC KTLDSI 
Sbjct: 198 DQAPKTTVIDTASIKAPPGKGCPRCGGVVFAAEQVLAKGREWHRKCFKCRDCTKTLDSII 257

Query: 137 ACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMAR 196
           ACDGPD ++YCKTCYGKKWGPHGYGFA GSGFLQTDGLTE+EISA+RPFYNP+TTSI A 
Sbjct: 258 ACDGPDGEVYCKTCYGKKWGPHGYGFACGSGFLQTDGLTEEEISASRPFYNPDTTSIKAP 317

Query: 197 KGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGK 256
           KG+GCPRCGG VFAAEQQLAKGTMWHK+CF+C  C RPLDS+LACDGPDKEI+C+ACY K
Sbjct: 318 KGQGCPRCGGMVFAAEQQLAKGTMWHKKCFNCAECHRPLDSMLACDGPDKEIHCRACYAK 377

Query: 257 NFGPKGFGYGHSPTLVSTSGESTM 280
            FGPKGFGYGH+PTLVST  E T+
Sbjct: 378 LFGPKGFGYGHAPTLVSTDSEPTV 401

Source: Bombyx mori

Species: Bombyx mori

Genus: Bombyx

Family: Bombycidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242019568|ref|XP_002430232.1| muscle lim protein, putative [Pediculus humanus corporis] gi|212515332|gb|EEB17494.1| muscle lim protein, putative [Pediculus humanus corporis]

 Score =  360 bits (925), Expect = 3e-97,   Method: Compositional matrix adjust.
 Identities = 169/202 (83%), Positives = 186/202 (92%)

Query: 79  APRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINAC 138
           APRTTVIDTA IKA PGKGCPRCGGVV+AAEQVLAKG EWH KCFKCRDC+KTLDSI AC
Sbjct: 198 APRTTVIDTAVIKAPPGKGCPRCGGVVYAAEQVLAKGREWHNKCFKCRDCSKTLDSIIAC 257

Query: 139 DGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKG 198
           DGPD+D+YCKTCYGKK+GPHGYGFA GSGFLQTDGLTE+EI A +P+YNP+TTSI A KG
Sbjct: 258 DGPDRDVYCKTCYGKKFGPHGYGFACGSGFLQTDGLTEEEIQAMKPYYNPDTTSIPAPKG 317

Query: 199 EGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNF 258
           +GCPRCGGAVFAAEQQLAKGTMWHK+CF+C  C RPLDSVLACDGPD+E+YCKACY K +
Sbjct: 318 QGCPRCGGAVFAAEQQLAKGTMWHKKCFNCADCHRPLDSVLACDGPDREVYCKACYAKKY 377

Query: 259 GPKGFGYGHSPTLVSTSGESTM 280
           GPKGFGYGH+PTLVST GEST+
Sbjct: 378 GPKGFGYGHTPTLVSTEGESTI 399

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357619549|gb|EHJ72075.1| muscle LIM protein isoform 1 [Danaus plexippus]

 Score =  360 bits (925), Expect = 3e-97,   Method: Compositional matrix adjust.
 Identities = 169/200 (84%), Positives = 184/200 (92%)

Query: 75  RENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDS 134
           + + APRTTVIDTA IKA PGKGCPRCGGVVFAAEQVLAKG EWHRKCFKCRDC+KTLDS
Sbjct: 218 QSDLAPRTTVIDTAAIKAPPGKGCPRCGGVVFAAEQVLAKGREWHRKCFKCRDCHKTLDS 277

Query: 135 INACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIM 194
           I ACDGPD D+YCKTCYGKKWGPHGYGFA GSGFLQTDGLTE+EISANRP+YNP+TTSI 
Sbjct: 278 IIACDGPDSDVYCKTCYGKKWGPHGYGFACGSGFLQTDGLTEEEISANRPYYNPDTTSIK 337

Query: 195 ARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
           A KG+GCPRCGG VFAAEQQLAKGTMWHK+CF+C  C RPLDS+LACDGPDKEI+C+ACY
Sbjct: 338 APKGQGCPRCGGMVFAAEQQLAKGTMWHKKCFNCAECHRPLDSMLACDGPDKEIHCRACY 397

Query: 255 GKNFGPKGFGYGHSPTLVST 274
            K FGP+GFGYGH+PTLVST
Sbjct: 398 AKLFGPRGFGYGHAPTLVST 417

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307205016|gb|EFN83539.1| Muscle LIM protein Mlp84B [Harpegnathos saltator]

 Score =  360 bits (925), Expect = 3e-97,   Method: Compositional matrix adjust.
 Identities = 169/201 (84%), Positives = 185/201 (92%)

Query: 77  NNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSIN 136
           + APRTTVIDTA IKA PGKGCPRCGGVVFAAEQVLAKG EWHRKC+KCRDC KTLDSI 
Sbjct: 198 DAAPRTTVIDTAIIKAPPGKGCPRCGGVVFAAEQVLAKGREWHRKCYKCRDCTKTLDSII 257

Query: 137 ACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMAR 196
           ACDGPD+D+YCKTCYGKKWGPHGYGFA GSGFLQTDGLTE+EISA+RPFYNP+TTSI A 
Sbjct: 258 ACDGPDRDVYCKTCYGKKWGPHGYGFACGSGFLQTDGLTEEEISASRPFYNPDTTSIKAP 317

Query: 197 KGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGK 256
            G+GCPRCGG VFAAEQQLAKGTMWHK+CF+C  C RPLDS+LACDGPDKEI+C+ACYGK
Sbjct: 318 AGQGCPRCGGMVFAAEQQLAKGTMWHKKCFNCAECHRPLDSMLACDGPDKEIHCRACYGK 377

Query: 257 NFGPKGFGYGHSPTLVSTSGE 277
            FGPKGFG+GH PTLVST+G+
Sbjct: 378 LFGPKGFGFGHRPTLVSTNGD 398

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332373454|gb|AEE61868.1| unknown [Dendroctonus ponderosae]

 Score =  358 bits (920), Expect = 1e-96,   Method: Compositional matrix adjust.
 Identities = 167/202 (82%), Positives = 182/202 (90%)

Query: 78  NAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINA 137
            AP+ TVIDTA IKAAPG+GCPRCGGVVFAAE+VLAKG  WHRKCFKC DC+KTLDSI A
Sbjct: 196 QAPKITVIDTACIKAAPGEGCPRCGGVVFAAEEVLAKGRPWHRKCFKCHDCHKTLDSIIA 255

Query: 138 CDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARK 197
           CDGPD+D+YCKTCYGKKWGPHGYGFA GSGFLQTDGLTEDEIS NRPFYNP+TTSI A  
Sbjct: 256 CDGPDRDVYCKTCYGKKWGPHGYGFACGSGFLQTDGLTEDEISQNRPFYNPDTTSIKAAP 315

Query: 198 GEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKN 257
           G+GCPRCGGAVFAAEQQLAKGTMWHK+CF+C  C RPLDS LACDGPDKE++C+ACY K 
Sbjct: 316 GQGCPRCGGAVFAAEQQLAKGTMWHKKCFNCAECHRPLDSTLACDGPDKEVHCRACYAKL 375

Query: 258 FGPKGFGYGHSPTLVSTSGEST 279
           FGPKGFG+GHSPTLVST G +T
Sbjct: 376 FGPKGFGFGHSPTLVSTGGAAT 397

Source: Dendroctonus ponderosae

Species: Dendroctonus ponderosae

Genus: Dendroctonus

Family: Curculionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322797391|gb|EFZ19503.1| hypothetical protein SINV_16490 [Solenopsis invicta]

 Score =  358 bits (920), Expect = 1e-96,   Method: Compositional matrix adjust.
 Identities = 168/201 (83%), Positives = 184/201 (91%)

Query: 77  NNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSIN 136
           + APRTTVIDTA IKA PGKGCPRCGGVVFAAEQVLAKG EWHRKC+KC DC KTLDSI 
Sbjct: 105 DAAPRTTVIDTAIIKAPPGKGCPRCGGVVFAAEQVLAKGREWHRKCYKCHDCTKTLDSII 164

Query: 137 ACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMAR 196
           ACDGPD+D+YCKTCYGKKWGPHGYGFA GSGFLQTDGLTE+EISANRP+YNP+TTSI A 
Sbjct: 165 ACDGPDRDVYCKTCYGKKWGPHGYGFACGSGFLQTDGLTEEEISANRPYYNPDTTSIKAP 224

Query: 197 KGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGK 256
            G+GCPRCGG VFAAEQQLAKGTMWHK+CF+C  C RPLDS+LACDGPDKEI+C+ACYGK
Sbjct: 225 AGQGCPRCGGMVFAAEQQLAKGTMWHKKCFNCAECHRPLDSMLACDGPDKEIHCRACYGK 284

Query: 257 NFGPKGFGYGHSPTLVSTSGE 277
            FGPKGFG+GH PTLVST+G+
Sbjct: 285 LFGPKGFGFGHKPTLVSTNGD 305

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332027513|gb|EGI67590.1| Muscle LIM protein Mlp84B [Acromyrmex echinatior]

 Score =  358 bits (919), Expect = 1e-96,   Method: Compositional matrix adjust.
 Identities = 167/201 (83%), Positives = 184/201 (91%)

Query: 77  NNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSIN 136
           + APRTTVIDTA IKA PGKGCPRCGGVVFAAEQVLAKG EWHRKC+KC DC KTLDSI 
Sbjct: 264 DAAPRTTVIDTAIIKAPPGKGCPRCGGVVFAAEQVLAKGREWHRKCYKCHDCTKTLDSII 323

Query: 137 ACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMAR 196
           ACDGPD+D+YCKTCYGKKWGPHGYGFA GSGFLQTDGLTE+EISA+RP+YNP+TTSI A 
Sbjct: 324 ACDGPDRDVYCKTCYGKKWGPHGYGFACGSGFLQTDGLTEEEISASRPYYNPDTTSIKAP 383

Query: 197 KGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGK 256
            G+GCPRCGG VFAAEQQLAKGTMWHK+CF+C  C RPLDS+LACDGPDKEI+C+ACYGK
Sbjct: 384 AGQGCPRCGGMVFAAEQQLAKGTMWHKKCFNCAECHRPLDSMLACDGPDKEIHCRACYGK 443

Query: 257 NFGPKGFGYGHSPTLVSTSGE 277
            FGPKGFG+GH PTLVST+G+
Sbjct: 444 LFGPKGFGFGHKPTLVSTNGD 464

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328788697|ref|XP_394758.3| PREDICTED: muscle LIM protein Mlp84B-like isoform 1 [Apis mellifera]

 Score =  358 bits (919), Expect = 1e-96,   Method: Compositional matrix adjust.
 Identities = 167/199 (83%), Positives = 184/199 (92%)

Query: 79  APRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINAC 138
           APRTTVIDTA IKA PGKGCPRCGGVVFAAEQVLAKG EWHRKC+KC DC+KTLDSI AC
Sbjct: 199 APRTTVIDTAIIKAPPGKGCPRCGGVVFAAEQVLAKGREWHRKCYKCHDCSKTLDSIIAC 258

Query: 139 DGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKG 198
           DGPDKD+YCKTCYGKKWGPHGYGFA GSGFLQTDGLTE+EISA+RPFYNP+TT+I A  G
Sbjct: 259 DGPDKDVYCKTCYGKKWGPHGYGFACGSGFLQTDGLTEEEISASRPFYNPDTTAIKAPAG 318

Query: 199 EGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNF 258
           +GCPRCGG VFAAEQQLAKGTMWHK+CF+C  C RPLDS+LACDGPDKEI+C++CYGK F
Sbjct: 319 QGCPRCGGMVFAAEQQLAKGTMWHKKCFNCAECHRPLDSMLACDGPDKEIHCRSCYGKLF 378

Query: 259 GPKGFGYGHSPTLVSTSGE 277
           GPKGFG+GH+PTLVST G+
Sbjct: 379 GPKGFGFGHTPTLVSTDGD 397

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383854456|ref|XP_003702737.1| PREDICTED: muscle LIM protein Mlp84B-like [Megachile rotundata]

 Score =  357 bits (917), Expect = 2e-96,   Method: Compositional matrix adjust.
 Identities = 168/201 (83%), Positives = 182/201 (90%)

Query: 77  NNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSIN 136
           + APRTTVIDTA IKA PGKGCPRCGGVVFAAEQVLAKG EWHRKC+KCRDC KTLDSI 
Sbjct: 197 DAAPRTTVIDTAIIKAPPGKGCPRCGGVVFAAEQVLAKGREWHRKCYKCRDCTKTLDSII 256

Query: 137 ACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMAR 196
           ACDGPDKD+YCKTCYGKKWGPHGYGFA GSGFLQTDGLTE+EISA+RPFYNP+TTSI A 
Sbjct: 257 ACDGPDKDVYCKTCYGKKWGPHGYGFACGSGFLQTDGLTEEEISASRPFYNPDTTSIKAP 316

Query: 197 KGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGK 256
            G+GCPRCGG VFAAEQQLAKGTMWHK+CF+C  C RPLDS+LACDGPDKEI+C++CY K
Sbjct: 317 AGQGCPRCGGMVFAAEQQLAKGTMWHKKCFNCAECHRPLDSMLACDGPDKEIHCRSCYSK 376

Query: 257 NFGPKGFGYGHSPTLVSTSGE 277
            FGPKGFG+GH PTLVST  E
Sbjct: 377 LFGPKGFGFGHKPTLVSTDSE 397

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

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	281
FB|FBgn0014863	495	Mlp84B "Muscle LIM protein at	0.743	0.422	0.766	2e-95
UNIPROTKB|F1NMV9	194	CSRP1 "Cysteine and glycine-ri	0.601	0.871	0.486	2.2e-43
UNIPROTKB|P67966	192	CSRP1 "Cysteine and glycine-ri	0.601	0.880	0.486	2.2e-43
UNIPROTKB|Q3MHY1	193	CSRP1 "Cysteine and glycine-ri	0.601	0.875	0.483	7.3e-43
MGI|MGI:88549	193	Csrp1 "cysteine and glycine-ri	0.601	0.875	0.477	1.2e-42
UNIPROTKB|F1RYJ8	193	CSRP2 "Uncharacterized protein	0.604	0.880	0.463	1.2e-42
UNIPROTKB|P21291	193	CSRP1 "Cysteine and glycine-ri	0.601	0.875	0.477	1.5e-42
UNIPROTKB|I3LL97	193	CSRP1 "Uncharacterized protein	0.601	0.875	0.477	2.5e-42
UNIPROTKB|J9NYN2	193	CSRP1 "Uncharacterized protein	0.601	0.875	0.477	3.2e-42
RGD|62053	193	Csrp1 "cysteine and glycine-ri	0.601	0.875	0.472	5.2e-42

FB|FBgn0014863 Mlp84B "Muscle LIM protein at 84B" [Drosophila melanogaster (taxid:7227)]

 Score = 949 (339.1 bits), Expect = 2.0e-95, P = 2.0e-95
 Identities = 161/210 (76%), Positives = 187/210 (89%)

Query:    73 FCRENNAPRT-TVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKT 131
             +  ++ AP+    ID  KI+A PG+GCPRCGGVV+AAEQ L+KG EWH+KCF C+DC+KT
Sbjct:   196 YAHDDGAPQIRAAIDVDKIQARPGEGCPRCGGVVYAAEQKLSKGREWHKKCFNCKDCHKT 255

Query:   132 LDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTT 191
             LDSINA DGPD+D+YC+TCYGKKWGPHGYGFA GSGFLQTDGLTED+ISANRPFYNP+TT
Sbjct:   256 LDSINASDGPDRDVYCRTCYGKKWGPHGYGFACGSGFLQTDGLTEDQISANRPFYNPDTT 315

Query:   192 SIMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCK 251
             SI AR GEGCPRCGGAVFAAEQQL+KG +WHK+C++C  C RPLDSVLACDGPD +I+C+
Sbjct:   316 SIKARDGEGCPRCGGAVFAAEQQLSKGKVWHKKCYNCADCHRPLDSVLACDGPDGDIHCR 375

Query:   252 ACYGKNFGPKGFGYGHSPTLVSTSGESTMQ 281
             ACYGK FGPKGFGYGH+PTLVSTSGEST+Q
Sbjct:   376 ACYGKLFGPKGFGYGHAPTLVSTSGESTIQ 405

GO:0060537 "muscle tissue development" evidence=IEP

GO:0015629 "actin cytoskeleton" evidence=IDA

GO:0005634 "nucleus" evidence=ISS;IDA;NAS

GO:0005737 "cytoplasm" evidence=NAS

GO:0007519 "skeletal muscle tissue development" evidence=NAS

GO:0030154 "cell differentiation" evidence=NAS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0008307 "structural constituent of muscle" evidence=IGI;IMP

GO:0045214 "sarcomere organization" evidence=IGI

GO:0030018 "Z disc" evidence=IDA

GO:0090175 "regulation of establishment of planar polarity" evidence=IMP

UNIPROTKB|F1NMV9 CSRP1 "Cysteine and glycine-rich protein 1" [Gallus gallus (taxid:9031)]

 Score = 458 (166.3 bits), Expect = 2.2e-43, P = 2.2e-43
 Identities = 87/179 (48%), Positives = 111/179 (62%)

Query:    95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 154
             GK C  C   V+ AE+V  +GS +H+ CF C  C K LDS       D +IYCK+CYGKK
Sbjct:     9 GKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGD-EIYCKSCYGKK 67

Query:   155 WGPHGYGFAAGSGFLQTD-----GLTEDEISANRPFYNPNTTSIMARKG--EGCPRCGGA 207
             +GP GYG+  G+G L TD     G+  +E  ++RP  NPN + +  + G  +GCPRCG A
Sbjct:    68 YGPKGYGYGMGAGTLSTDKGESLGIKYEEGQSHRPT-NPNASRMAQKVGGSDGCPRCGQA 126

Query:   208 VFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYG 266
             V+AAE+ +  G  WHK CF C  C + L+S    D  D EIYCK CY KNFGPKGFG+G
Sbjct:   127 VYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLAD-KDGEIYCKGCYAKNFGPKGFGFG 184

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|P67966 CSRP1 "Cysteine and glycine-rich protein 1" [Gallus gallus (taxid:9031)]

 Score = 458 (166.3 bits), Expect = 2.2e-43, P = 2.2e-43
 Identities = 87/179 (48%), Positives = 111/179 (62%)

Query:    95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 154
             GK C  C   V+ AE+V  +GS +H+ CF C  C K LDS       D +IYCK+CYGKK
Sbjct:     7 GKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGD-EIYCKSCYGKK 65

Query:   155 WGPHGYGFAAGSGFLQTD-----GLTEDEISANRPFYNPNTTSIMARKG--EGCPRCGGA 207
             +GP GYG+  G+G L TD     G+  +E  ++RP  NPN + +  + G  +GCPRCG A
Sbjct:    66 YGPKGYGYGMGAGTLSTDKGESLGIKYEEGQSHRPT-NPNASRMAQKVGGSDGCPRCGQA 124

Query:   208 VFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYG 266
             V+AAE+ +  G  WHK CF C  C + L+S    D  D EIYCK CY KNFGPKGFG+G
Sbjct:   125 VYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLAD-KDGEIYCKGCYAKNFGPKGFGFG 182

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005856 "cytoskeleton" evidence=IEA

UNIPROTKB|Q3MHY1 CSRP1 "Cysteine and glycine-rich protein 1" [Bos taurus (taxid:9913)]

 Score = 453 (164.5 bits), Expect = 7.3e-43, P = 7.3e-43
 Identities = 87/180 (48%), Positives = 109/180 (60%)

Query:    95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSIN-ACDGPDKDIYCKTCYGK 153
             GK C  C   V+ AE+V  +GS +H+ CF C  C K LDS   A  G  ++IYCK+CYGK
Sbjct:     7 GKKCGVCQKTVYFAEEVQCEGSSFHKSCFLCLVCKKNLDSTTVAVHG--EEIYCKSCYGK 64

Query:   154 KWGPHGYGFAAGSGFLQTD-----GLTEDEISANRPFYNPNTTSIMARKG--EGCPRCGG 206
             K+GP GYG+  G+G L  D     G+  +E   +RP  NPNT+    + G  E CPRC  
Sbjct:    65 KYGPKGYGYGQGAGTLSMDKGESLGIRHEEAPGHRPTTNPNTSKFAQKVGGSERCPRCSQ 124

Query:   207 AVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYG 266
             AV+AAE+ +  G  WHK CF C  C + L+S    D  D EIYCK CY KNFGPKGFG+G
Sbjct:   125 AVYAAEKVIGAGKSWHKSCFRCAKCGKGLESTTLAD-KDGEIYCKGCYAKNFGPKGFGFG 183

GO:0005634 "nucleus" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

MGI|MGI:88549 Csrp1 "cysteine and glycine-rich protein 1" [Mus musculus (taxid:10090)]

 Score = 451 (163.8 bits), Expect = 1.2e-42, P = 1.2e-42
 Identities = 86/180 (47%), Positives = 109/180 (60%)

Query:    95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSIN-ACDGPDKDIYCKTCYGK 153
             GK C  C   V+ AE+V  +G+ +H+ CF C  C K LDS   A  G  ++IYCK+CYGK
Sbjct:     7 GKKCGVCQKTVYFAEEVQCEGNSFHKSCFLCMVCKKNLDSTTVAVHG--EEIYCKSCYGK 64

Query:   154 KWGPHGYGFAAGSGFLQTD-----GLTEDEISANRPFYNPNTTSIMARKG--EGCPRCGG 206
             K+GP GYG+  G+G L TD     G+  +E   +RP  NPN +    + G  E CPRC  
Sbjct:    65 KYGPKGYGYGQGAGTLSTDKGESLGIKHEEAPGHRPTTNPNASKFAQKIGGSERCPRCSQ 124

Query:   207 AVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYG 266
             AV+AAE+ +  G  WHK CF C  C + L+S    D  D EIYCK CY KNFGPKGFG+G
Sbjct:   125 AVYAAEKVIGAGKSWHKSCFRCAKCGKGLESTTLAD-KDGEIYCKGCYAKNFGPKGFGFG 183

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0015629 "actin cytoskeleton" evidence=TAS

GO:0030036 "actin cytoskeleton organization" evidence=TAS

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|F1RYJ8 CSRP2 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 451 (163.8 bits), Expect = 1.2e-42, P = 1.2e-42
 Identities = 83/179 (46%), Positives = 107/179 (59%)

Query:    95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 154
             G  C  CG  V+ AE+V   G  +HR CF C  C K LDS       D+++YCK+CYGKK
Sbjct:     7 GNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIH-DEEVYCKSCYGKK 65

Query:   155 WGPHGYGFAAGSGFLQTD-----GLTEDEISANRPFYNPNTTSIMARKG--EGCPRCGGA 207
             +GP GYG+  G+G L  D     G+  + +  +RP  NPNT+    + G  E CPRCG +
Sbjct:    66 YGPKGYGYGQGAGTLNMDRGERLGIKPESVQPHRPTTNPNTSKFAQKYGGAEKCPRCGDS 125

Query:   208 VFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYG 266
             V+AAE+ +  G  WHK CF C  C + L+S    +  + EIYCK CY KNFGPKGFGYG
Sbjct:   126 VYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLTE-KEGEIYCKGCYAKNFGPKGFGYG 183

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|P21291 CSRP1 "Cysteine and glycine-rich protein 1" [Homo sapiens (taxid:9606)]

 Score = 450 (163.5 bits), Expect = 1.5e-42, P = 1.5e-42
 Identities = 86/180 (47%), Positives = 109/180 (60%)

Query:    95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSIN-ACDGPDKDIYCKTCYGK 153
             GK C  C   V+ AE+V  +G+ +H+ CF C  C K LDS   A  G  ++IYCK+CYGK
Sbjct:     7 GKKCGVCQKTVYFAEEVQCEGNSFHKSCFLCMVCKKNLDSTTVAVHG--EEIYCKSCYGK 64

Query:   154 KWGPHGYGFAAGSGFLQTD-----GLTEDEISANRPFYNPNTTSIMARKG--EGCPRCGG 206
             K+GP GYG+  G+G L TD     G+  +E   +RP  NPN +    + G  E CPRC  
Sbjct:    65 KYGPKGYGYGQGAGTLSTDKGESLGIKHEEAPGHRPTTNPNASKFAQKIGGSERCPRCSQ 124

Query:   207 AVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYG 266
             AV+AAE+ +  G  WHK CF C  C + L+S    D  D EIYCK CY KNFGPKGFG+G
Sbjct:   125 AVYAAEKVIGAGKSWHKACFRCAKCGKGLESTTLAD-KDGEIYCKGCYAKNFGPKGFGFG 183

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|I3LL97 CSRP1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 448 (162.8 bits), Expect = 2.5e-42, P = 2.5e-42
 Identities = 86/180 (47%), Positives = 108/180 (60%)

Query:    95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSIN-ACDGPDKDIYCKTCYGK 153
             GK C  C   V+ AE+V  +GS +H+ CF C  C K LDS   A  G  ++IYCK+CYGK
Sbjct:     7 GKRCGVCQKTVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHG--EEIYCKSCYGK 64

Query:   154 KWGPHGYGFAAGSGFLQTD-----GLTEDEISANRPFYNPNTTSIMARKG--EGCPRCGG 206
             K+GP GYG+  G+G L  D     G+  +E   +RP  NPN +    + G  E CPRC  
Sbjct:    65 KYGPKGYGYGQGAGTLSMDKGESLGIKHEETPGHRPTTNPNASKFAQKIGGSERCPRCSQ 124

Query:   207 AVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYG 266
             AV+AAE+ +  G  WHK CF C  C + L+S    D  D EIYCK CY KNFGPKGFG+G
Sbjct:   125 AVYAAEKVIGAGKSWHKSCFRCAKCGKGLESTTLAD-KDGEIYCKGCYAKNFGPKGFGFG 183

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|J9NYN2 CSRP1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 447 (162.4 bits), Expect = 3.2e-42, P = 3.2e-42
 Identities = 86/180 (47%), Positives = 108/180 (60%)

Query:    95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSIN-ACDGPDKDIYCKTCYGK 153
             GK C  C   V+ AE+V  +GS +H+ CF C  C K LDS   A  G  ++IYCK+CYGK
Sbjct:     7 GKKCGVCQKTVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHG--EEIYCKSCYGK 64

Query:   154 KWGPHGYGFAAGSGFLQTD-----GLTEDEISANRPFYNPNTTSIMARKG--EGCPRCGG 206
             K+GP GYG+  G+G L  D     G+  +E   +RP  NPN +    + G  E CPRC  
Sbjct:    65 KYGPKGYGYGQGAGTLSMDKGESLGIKHEETLGHRPTTNPNASKFAQKIGGSERCPRCSQ 124

Query:   207 AVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYG 266
             AV+AAE+ +  G  WHK CF C  C + L+S    D  D EIYCK CY KNFGPKGFG+G
Sbjct:   125 AVYAAEKVIGAGKSWHKSCFRCAKCGKGLESTTLAD-KDGEIYCKGCYAKNFGPKGFGFG 183

GO:0008270 "zinc ion binding" evidence=IEA

RGD|62053 Csrp1 "cysteine and glycine-rich protein 1" [Rattus norvegicus (taxid:10116)]

 Score = 445 (161.7 bits), Expect = 5.2e-42, P = 5.2e-42
 Identities = 85/180 (47%), Positives = 108/180 (60%)

Query:    95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSIN-ACDGPDKDIYCKTCYGK 153
             GK C  C   V+ AE+V  +G+ +H+ CF C  C K LDS   A  G  ++IYCK+CYGK
Sbjct:     7 GKKCGVCQKTVYFAEEVQCEGNSFHKSCFLCMVCKKNLDSTTVAVHG--EEIYCKSCYGK 64

Query:   154 KWGPHGYGFAAGSGFLQTD-----GLTEDEISANRPFYNPNTTSIMARKG--EGCPRCGG 206
             K+GP GYG+  G+G L  D     G+  +E   +RP  NPN +    + G  E CPRC  
Sbjct:    65 KYGPKGYGYGQGAGTLSMDKGESLGIKHEEAPGHRPTTNPNASKFAQKIGGSERCPRCSQ 124

Query:   207 AVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYG 266
             AV+AAE+ +  G  WHK CF C  C + L+S    D  D EIYCK CY KNFGPKGFG+G
Sbjct:   125 AVYAAEKVIGAGKSWHKSCFRCAKCGKGLESTTLAD-KDGEIYCKGCYAKNFGPKGFGFG 183

GO:0005634 "nucleus" evidence=IEA

GO:0007399 "nervous system development" evidence=NAS

GO:0008270 "zinc ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q32LE9	CSRP2_BOVIN	No assigned EC number	0.4611	0.6085	0.8860	yes	N/A
Q62908	CSRP2_RAT	No assigned EC number	0.4611	0.6085	0.8860	yes	N/A
Q16527	CSRP2_HUMAN	No assigned EC number	0.4611	0.6085	0.8860	yes	N/A
Q24400	MLP2_DROME	No assigned EC number	0.7666	0.7437	0.4222	yes	N/A
P97314	CSRP2_MOUSE	No assigned EC number	0.4611	0.6085	0.8860	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	281
cd09326	53	cd09326, LIM_CRP_like, The LIM domains of Cysteine	2e-22
cd09326	53	cd09326, LIM_CRP_like, The LIM domains of Cysteine	3e-20
cd09404	54	cd09404, LIM1_MLP84B_like, The LIM domain of Mlp84	6e-16
cd09404	54	cd09404, LIM1_MLP84B_like, The LIM domain of Mlp84	8e-14
cd09403	54	cd09403, LIM2_CRP, The second LIM domain of Cystei	1e-13
cd09482	54	cd09482, LIM2_CRP3, The second LIM domain of Cyste	3e-13
cd09403	54	cd09403, LIM2_CRP, The second LIM domain of Cystei	2e-12
cd09482	54	cd09482, LIM2_CRP3, The second LIM domain of Cyste	2e-12
cd09840	54	cd09840, LIM2_CRP2, The second LIM domain of Cyste	1e-11
cd09401	53	cd09401, LIM_TLP_like, The LIM domains of thymus L	2e-11
cd09840	54	cd09840, LIM2_CRP2, The second LIM domain of Cyste	5e-11
cd09401	53	cd09401, LIM_TLP_like, The LIM domains of thymus L	6e-10
cd09358	53	cd09358, LIM_Mical_like, The LIM domain of Mical (	2e-09
cd09445	53	cd09445, LIM_Mical_like_2, This domain belongs to	4e-09
cd09480	55	cd09480, LIM1_CRP2, The first LIM domain of Cystei	9e-09
cd09480	55	cd09480, LIM1_CRP2, The first LIM domain of Cystei	1e-08
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	1e-08
cd09478	54	cd09478, LIM_CRIP, The LIM domain of Cysteine-Rich	1e-08
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	3e-08
cd09402	53	cd09402, LIM1_CRP, The first LIM domain of Cystein	3e-08
cd09479	56	cd09479, LIM1_CRP1, The first LIM domain of Cystei	3e-08
cd09402	53	cd09402, LIM1_CRP, The first LIM domain of Cystein	4e-08
cd09479	56	cd09479, LIM1_CRP1, The first LIM domain of Cystei	4e-08
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	4e-08
pfam00412	58	pfam00412, LIM, LIM domain	9e-08
pfam00412	58	pfam00412, LIM, LIM domain	1e-07
cd09400	61	cd09400, LIM_like_1, LIM domain in proteins of unk	1e-07
cd09443	55	cd09443, LIM_Ltd-1, The LIM domain of LIM and tran	1e-07
cd09477	54	cd09477, LIM2_TLP, The second LIM domain of thymus	2e-07
cd09481	54	cd09481, LIM1_CRP3, The first LIM domain of Cystei	2e-07
cd09481	54	cd09481, LIM1_CRP3, The first LIM domain of Cystei	2e-07
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	3e-07
cd09358	53	cd09358, LIM_Mical_like, The LIM domain of Mical (	4e-07
cd09476	54	cd09476, LIM1_TLP, The first LIM domain of thymus	8e-07
cd09470	54	cd09470, LIM1_Lhx9, The first LIM domain of Lhx9	1e-06
cd09359	53	cd09359, LIM_LASP_like, The LIM domain of LIM and	2e-06
cd09447	53	cd09447, LIM_LASP, The LIM domain of LIM and SH3 P	2e-06
cd09359	53	cd09359, LIM_LASP_like, The LIM domain of LIM and	3e-06
cd09469	64	cd09469, LIM1_Lhx2, The first LIM domain of Lhx2	5e-06
cd09369	54	cd09369, LIM1_Lhx2_Lhx9, The first LIM domain of L	7e-06
cd09470	54	cd09470, LIM1_Lhx9, The first LIM domain of Lhx9	8e-06
cd09469	64	cd09469, LIM1_Lhx2, The first LIM domain of Lhx2	9e-06
cd09445	53	cd09445, LIM_Mical_like_2, This domain belongs to	1e-05
cd09443	55	cd09443, LIM_Ltd-1, The LIM domain of LIM and tran	1e-05
cd09369	54	cd09369, LIM1_Lhx2_Lhx9, The first LIM domain of L	1e-05
cd09440	63	cd09440, LIM1_SF3, The first Lim domain of pollen	4e-05
cd09447	53	cd09447, LIM_LASP, The LIM domain of LIM and SH3 P	6e-05
cd09381	56	cd09381, LIM1_Lhx7_Lhx8, The first LIM domain of L	8e-05
cd09424	58	cd09424, LIM2_FHL1, The second LIM domain of Four	8e-05
cd09446	53	cd09446, LIM_N_RAP, The LIM domain of N-RAP	8e-05
cd09475	59	cd09475, LIM2_Lhx9, The second LIM domain of Lhx9	1e-04
cd09477	54	cd09477, LIM2_TLP, The second LIM domain of thymus	2e-04
cd09345	54	cd09345, LIM2_FHL, The second LIM domain of Four a	2e-04
cd09364	53	cd09364, LIM1_LIMK, The first LIM domain of LIMK (	2e-04
cd09424	58	cd09424, LIM2_FHL1, The second LIM domain of Four	3e-04
cd09446	53	cd09446, LIM_N_RAP, The LIM domain of N-RAP	3e-04
cd09354	60	cd09354, LIM2_LPP, The second LIM domain of lipoma	3e-04
cd09393	56	cd09393, LIM3_Lrg1p_like, The third LIM domain of	3e-04
cd09373	54	cd09373, LIM1_AWH, The first LIM domain of Arrowhe	3e-04
cd09427	58	cd09427, LIM2_FHL3, The second LIM domain of Four	4e-04
cd09478	54	cd09478, LIM_CRIP, The LIM domain of Cysteine-Rich	9e-04
cd09366	55	cd09366, LIM1_Isl, The first LIM domain of Isl, a	9e-04
cd09345	54	cd09345, LIM2_FHL, The second LIM domain of Four a	0.001
cd09444	55	cd09444, LIM_Mical_like_1, This domain belongs to	0.001
cd09430	52	cd09430, LIM5_LIMPETin, The fifth LIM domain of pr	0.001
cd09370	52	cd09370, LIM1_Lmx1a, The first LIM domain of Lmx1a	0.001
cd09354	60	cd09354, LIM2_LPP, The second LIM domain of lipoma	0.002
cd09373	54	cd09373, LIM1_AWH, The first LIM domain of Arrowhe	0.002
cd09416	56	cd09416, LIM2_Testin, The second LIM domain of Tes	0.002
cd09380	54	cd09380, LIM1_Lhx6, The first LIM domain of Lhx6	0.002
cd09382	55	cd09382, LIM2_Lhx6, The second LIM domain of Lhx6	0.002
cd09440	63	cd09440, LIM1_SF3, The first Lim domain of pollen	0.003
cd09364	53	cd09364, LIM1_LIMK, The first LIM domain of LIMK (	0.003
cd09391	57	cd09391, LIM1_Lrg1p_like, The first LIM domain of	0.003
cd09425	54	cd09425, LIM4_LIMPETin, The fourth LIM domain of p	0.003
cd09371	53	cd09371, LIM1_Lmx1b, The first LIM domain of Lmx1b	0.003
cd09340	58	cd09340, LIM1_Testin_like, The first LIM domain of	0.003
cd09400	61	cd09400, LIM_like_1, LIM domain in proteins of unk	0.004
cd09476	54	cd09476, LIM1_TLP, The first LIM domain of thymus	0.004
cd09425	54	cd09425, LIM4_LIMPETin, The fourth LIM domain of p	0.004
cd09415	59	cd09415, LIM1_Prickle, The first LIM domain of Pri	0.004
cd09474	59	cd09474, LIM2_Lhx2, The second LIM domain of Lhx2	0.004
cd09328	56	cd09328, LIM2_abLIM, The second LIM domain on acti	0.004

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

 Score = 87.3 bits (217), Expect = 2e-22
 Identities = 30/54 (55%), Positives = 37/54 (68%), Gaps = 1/54 (1%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
           CPRCG  V+AAE+V+A G  WH+ CF C  CNK LDS    +  D +IYCK+CY
Sbjct: 1   CPRCGKSVYAAEEVIAAGKSWHKSCFTCAVCNKRLDSTTLAE-HDGEIYCKSCY 53

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

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

 Score = 81.1 bits (201), Expect = 3e-20
 Identities = 30/54 (55%), Positives = 38/54 (70%), Gaps = 1/54 (1%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
           CPRCG +V+AAE+ +A G  WHK CF+C VC + LDS    +  D EIYCK+CY
Sbjct: 1   CPRCGKSVYAAEEVIAAGKSWHKSCFTCAVCNKRLDSTTLAE-HDGEIYCKSCY 53

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

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

 Score = 69.8 bits (171), Expect = 6e-16
 Identities = 28/54 (51%), Positives = 38/54 (70%), Gaps = 1/54 (1%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
           CP+CG  V+AAE+ LA G +WH+ CFKC  CNK LDS N  +  + ++YCK C+
Sbjct: 2   CPKCGKSVYAAEERLAGGYKWHKMCFKCGMCNKLLDSTNCAEH-EGELYCKQCH 54

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

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

 Score = 64.0 bits (156), Expect = 8e-14
 Identities = 26/54 (48%), Positives = 37/54 (68%), Gaps = 1/54 (1%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
           CP+CG +V+AAE++LA G  WHK CF C +C + LDS    +  + E+YCK C+
Sbjct: 2   CPKCGKSVYAAEERLAGGYKWHKMCFKCGMCNKLLDSTNCAEH-EGELYCKQCH 54

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

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

 Score = 63.7 bits (155), Expect = 1e-13
 Identities = 27/54 (50%), Positives = 36/54 (66%), Gaps = 1/54 (1%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
           CPRCG  V+AAE+++  G  WH+ CF+C  C K+L+S    D  D +IYCK CY
Sbjct: 1   CPRCGKSVYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLAD-KDGEIYCKGCY 53

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

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

 Score = 62.7 bits (152), Expect = 3e-13
 Identities = 27/54 (50%), Positives = 36/54 (66%), Gaps = 1/54 (1%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
           CPRCG  V+AAE+V+  G  WH+ CF+C  C K+L+S    D  D ++YCK CY
Sbjct: 1   CPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTTVTD-KDGELYCKVCY 53

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

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

 Score = 60.7 bits (147), Expect = 2e-12
 Identities = 28/54 (51%), Positives = 34/54 (62%), Gaps = 1/54 (1%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
           CPRCG +V+AAE+ +  G  WHK CF C  C + L+S    D  D EIYCK CY
Sbjct: 1   CPRCGKSVYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLAD-KDGEIYCKGCY 53

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

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

 Score = 60.4 bits (146), Expect = 2e-12
 Identities = 27/54 (50%), Positives = 35/54 (64%), Gaps = 1/54 (1%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
           CPRCG +V+AAE+ +  G  WHK CF C +C + L+S    D  D E+YCK CY
Sbjct: 1   CPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTTVTD-KDGELYCKVCY 53

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

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

 Score = 58.6 bits (141), Expect = 1e-11
 Identities = 24/55 (43%), Positives = 35/55 (63%), Gaps = 1/55 (1%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYG 152
           C RCG  V+AAE+++  G  WH+ CF+C  C K+L+S    +  + +IYCK CY 
Sbjct: 1   CSRCGDSVYAAEKIMGAGKPWHKNCFRCAKCGKSLESTTLTE-KEGEIYCKGCYA 54

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

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

 Score = 57.4 bits (139), Expect = 2e-11
 Identities = 21/54 (38%), Positives = 29/54 (53%), Gaps = 1/54 (1%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
           CP+CG  V+ AE+  + G +WH+ C +C  C KTL      +   K  YC  CY
Sbjct: 1   CPKCGKPVYFAEKKTSLGRDWHKPCLRCEKCKKTLTPGQHSEHEGK-PYCNKCY 53

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

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

 Score = 56.7 bits (136), Expect = 5e-11
 Identities = 25/55 (45%), Positives = 33/55 (60%), Gaps = 1/55 (1%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYG 255
           C RCG +V+AAE+ +  G  WHK CF C  C + L+S    +  + EIYCK CY 
Sbjct: 1   CSRCGDSVYAAEKIMGAGKPWHKNCFRCAKCGKSLESTTLTE-KEGEIYCKGCYA 54

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

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

 Score = 53.5 bits (129), Expect = 6e-10
 Identities = 20/54 (37%), Positives = 29/54 (53%), Gaps = 1/54 (1%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
           CP+CG  V+ AE++ + G  WHK C  C  CK+ L      +  + + YC  CY
Sbjct: 1   CPKCGKPVYFAEKKTSLGRDWHKPCLRCEKCKKTLTPGQHSE-HEGKPYCNKCY 53

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

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

 Score = 51.9 bits (125), Expect = 2e-09
 Identities = 21/51 (41%), Positives = 29/51 (56%), Gaps = 1/51 (1%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCK 148
           C  CG  V+  E+++A G  +H+ CF+C  CNKTL   N      K +YCK
Sbjct: 1   CAVCGKTVYPMERLVADGKLFHKSCFRCSHCNKTLRLGNYASLEGK-LYCK 50

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

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

 Score = 51.3 bits (123), Expect = 4e-09
 Identities = 20/53 (37%), Positives = 34/53 (64%), Gaps = 5/53 (9%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTL--DSINACDGPDKDIYCK 148
           C  CG  V+  E+++A+   +H+ CF+C+DCNK L  D+  + +G   ++YCK
Sbjct: 1   CRSCGKPVYKMEEIIAEKHIYHKNCFRCKDCNKQLKVDNYQSHEG---NLYCK 50

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

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

 Score = 50.4 bits (120), Expect = 9e-09
 Identities = 26/55 (47%), Positives = 33/55 (60%), Gaps = 1/55 (1%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYG 255
           C  CG  V+ AE+    G  +HK CF C VC++ LDS       D+EIYCK+CYG
Sbjct: 2   CGACGRTVYHAEEVQCDGRSFHKCCFLCMVCRKNLDSTTVAIH-DQEIYCKSCYG 55

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

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

 Score = 50.0 bits (119), Expect = 1e-08
 Identities = 25/55 (45%), Positives = 32/55 (58%), Gaps = 1/55 (1%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYG 152
           C  CG  V+ AE+V   G  +H+ CF C  C K LDS       D++IYCK+CYG
Sbjct: 2   CGACGRTVYHAEEVQCDGRSFHKCCFLCMVCRKNLDSTTVAIH-DQEIYCKSCYG 55

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

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

 Score = 50.1 bits (120), Expect = 1e-08
 Identities = 22/54 (40%), Positives = 27/54 (50%), Gaps = 2/54 (3%)

Query: 98  CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTC 150
           C  CG  ++  E+VL A G  WH +CFKC  C K L         D  +YCK C
Sbjct: 2   CAGCGKPIYGTERVLRALGKVWHPECFKCATCGKPLSGDT-FFEKDGKLYCKDC 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|188862 cd09478, LIM_CRIP, The LIM domain of Cysteine-Rich Intestinal Protein (CRIP)

 Score = 49.9 bits (119), Expect = 1e-08
 Identities = 21/54 (38%), Positives = 28/54 (51%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
           CP+C   V+ AE+V + G +WHR C KC  C KTL   +  +   K      CY
Sbjct: 1   CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTPGSHAEHDGKPYCNHPCY 54

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

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

 Score = 48.9 bits (117), Expect = 3e-08
 Identities = 20/54 (37%), Positives = 28/54 (51%), Gaps = 2/54 (3%)

Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKAC 253
           C  CG  ++  E+ L A G +WH +CF C  C +PL         D ++YCK C
Sbjct: 2   CAGCGKPIYGTERVLRALGKVWHPECFKCATCGKPLSGDT-FFEKDGKLYCKDC 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|188786 cd09402, LIM1_CRP, The first LIM domain of Cysteine Rich Protein (CRP)

 Score = 49.2 bits (117), Expect = 3e-08
 Identities = 23/54 (42%), Positives = 31/54 (57%), Gaps = 1/54 (1%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
           C  C   V+ AE+   +G  +HK CF C VC++ LDS       + EIYCK+CY
Sbjct: 1   CGACEKTVYHAEEVQCEGRSFHKSCFLCMVCRKNLDSTTVA-AHEDEIYCKSCY 53

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

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

 Score = 48.9 bits (116), Expect = 3e-08
 Identities = 25/55 (45%), Positives = 32/55 (58%), Gaps = 1/55 (1%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYG 255
           C  C   V+ AE+   +G  +HK CF C VCK+ LDS       + EIYCK+CYG
Sbjct: 3   CGVCQKTVYFAEEVQCEGRSFHKSCFLCMVCKKNLDSTTVAVHGE-EIYCKSCYG 56

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

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

 Score = 48.4 bits (115), Expect = 4e-08
 Identities = 22/54 (40%), Positives = 30/54 (55%), Gaps = 1/54 (1%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
           C  C   V+ AE+V  +G  +H+ CF C  C K LDS       + +IYCK+CY
Sbjct: 1   CGACEKTVYHAEEVQCEGRSFHKSCFLCMVCRKNLDSTTVA-AHEDEIYCKSCY 53

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

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

 Score = 48.5 bits (115), Expect = 4e-08
 Identities = 24/57 (42%), Positives = 32/57 (56%), Gaps = 1/57 (1%)

Query: 96  KGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYG 152
           K C  C   V+ AE+V  +G  +H+ CF C  C K LDS       + +IYCK+CYG
Sbjct: 1   KKCGVCQKTVYFAEEVQCEGRSFHKSCFLCMVCKKNLDSTTVAVHGE-EIYCKSCYG 56

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

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

 Score = 48.5 bits (116), Expect = 4e-08
 Identities = 20/54 (37%), Positives = 27/54 (50%), Gaps = 1/54 (1%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
           C  CG  +   E + A G +WH +CFKC  C K L   +  +  D   YC+ CY
Sbjct: 1   CAGCGKPIEGRELLRALGKKWHPECFKCSVCGKPLGGDSFYEK-DGKPYCEKCY 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|215907 pfam00412, LIM, LIM domain

 Score = 47.7 bits (114), Expect = 9e-08
 Identities = 21/58 (36%), Positives = 27/58 (46%), Gaps = 2/58 (3%)

Query: 98  CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 154
           C  CG  ++  E V  A G  WH +CF+C  C K L   +     D  +YCK  Y K 
Sbjct: 1   CAGCGKPIYDRELVRRALGKVWHPECFRCAVCGKPLGPGD-FFEKDGKLYCKHDYFKL 57

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

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

 Score = 47.7 bits (114), Expect = 1e-07
 Identities = 22/59 (37%), Positives = 30/59 (50%), Gaps = 2/59 (3%)

Query: 201 CPRCGGAVFAAEQ-QLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNF 258
           C  CG  ++  E  + A G +WH +CF C VC +PL         D ++YCK  Y K F
Sbjct: 1   CAGCGKPIYDRELVRRALGKVWHPECFRCAVCGKPLGPGD-FFEKDGKLYCKHDYFKLF 58

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

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

 Score = 47.8 bits (114), Expect = 1e-07
 Identities = 20/54 (37%), Positives = 27/54 (50%)

Query: 97  GCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTC 150
            C  CG  VF AE++L +G  +HR CFKC  C   L   +  +       C+TC
Sbjct: 4   PCASCGLPVFLAERLLIEGKVYHRTCFKCARCGVQLTPGSFYETEYGSYCCETC 57

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

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

 Score = 47.0 bits (112), Expect = 1e-07
 Identities = 20/53 (37%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINAC-DGPDKDIYCKT 149
           CPRCG   + AE V   G+ +H+ CFKCR+C   L          D ++YC  
Sbjct: 1   CPRCGKTAYPAESVDKDGTFYHKGCFKCRECGTRLSLKTFTFVQGDGEVYCAR 53

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

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

 Score = 46.5 bits (110), Expect = 2e-07
 Identities = 18/35 (51%), Positives = 24/35 (68%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTL 132
           CP CG  V+ AE+V++ G  WHR C +C+ C KTL
Sbjct: 1   CPGCGKPVYFAEKVMSLGRNWHRPCLRCQRCKKTL 35

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

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

 Score = 46.7 bits (110), Expect = 2e-07
 Identities = 22/54 (40%), Positives = 29/54 (53%), Gaps = 1/54 (1%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
           C  C   V+ AE++   G  +H+ CF C  C K LDS       + +IYCKTCY
Sbjct: 2   CGACEKTVYHAEEIQCNGRSFHKTCFICMACRKALDSTTVA-AHESEIYCKTCY 54

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

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

 Score = 46.7 bits (110), Expect = 2e-07
 Identities = 22/54 (40%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
           C  C   V+ AE+    G  +HK CF C  C++ LDS       + EIYCK CY
Sbjct: 2   CGACEKTVYHAEEIQCNGRSFHKTCFICMACRKALDSTTVA-AHESEIYCKTCY 54

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

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

 Score = 46.2 bits (110), Expect = 3e-07
 Identities = 20/54 (37%), Positives = 27/54 (50%), Gaps = 1/54 (1%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
           C  CG  +   E   A G  WH +CF C+VC +PL      +  D + YC+ CY
Sbjct: 1   CAGCGKPIEGRELLRALGKKWHPECFKCSVCGKPLGGDSFYEK-DGKPYCEKCY 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|188744 cd09358, LIM_Mical_like, The LIM domain of Mical (molecule interacting with CasL) like family

 Score = 45.7 bits (109), Expect = 4e-07
 Identities = 18/53 (33%), Positives = 30/53 (56%), Gaps = 5/53 (9%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPL--DSVLACDGPDKEIYCK 251
           C  CG  V+  E+ +A G ++HK CF C+ C + L   +  + +G   ++YCK
Sbjct: 1   CAVCGKTVYPMERLVADGKLFHKSCFRCSHCNKTLRLGNYASLEG---KLYCK 50

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

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

 Score = 45.0 bits (106), Expect = 8e-07
 Identities = 22/54 (40%), Positives = 27/54 (50%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
           CPRC   V+ AE+V + G  WHR C KC  C+K L      +   K    K CY
Sbjct: 1   CPRCDKTVYFAEKVSSLGKNWHRFCLKCERCSKILSPGGHAEHDGKPYCHKPCY 54

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

>gnl|CDD|188854 cd09470, LIM1_Lhx9, The first LIM domain of Lhx9

 Score = 44.3 bits (104), Expect = 1e-06
 Identities = 21/54 (38%), Positives = 27/54 (50%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
           C  CGG +     +LA   +WH +C KC +C   L+S   C   D  IYCK  Y
Sbjct: 1   CAGCGGKISDRYYLLAVDKQWHLRCLKCCECKLALESELTCFAKDGSIYCKEDY 54

The first LIM domain of Lhx9: Lhx9 belongs to the LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs, such as the pituitary gland and the pancreas. Lhx9 is highly homologous to Lhx2. It is expressed in several regions of the developing mouse brain, the spinal cord, the pancreas, in limb mesenchyme, and in the urogenital region. Lhx9 plays critical roles in gonad development. Homozygous mice lacking functional Lhx9 alleles exhibit numerous urogenital defects, such as gonadal agenesis, infertility, and undetectable levels of testosterone and estradiol coupled with high FSH levels. Lhx9 null mice have reduced levels of the Sf1 nuclear receptor that is required for gonadogenesis, and recent studies have shown that Lhx9 is able to activate the Sf1/FtzF1 gene. Lhx9 null mice are phenotypically female, even those that are genotypically male. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 54

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

 Score = 43.8 bits (103), Expect = 2e-06
 Identities = 22/54 (40%), Positives = 27/54 (50%), Gaps = 1/54 (1%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
           C RCG  V+  E+       WHK CF C VCK  L ++    G  K+ YC A Y
Sbjct: 1   CARCGKIVYPTEKVNCLDKTWHKACFHCEVCKMTL-NMNNYKGYQKKPYCNAHY 53

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

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

 Score = 43.5 bits (103), Expect = 2e-06
 Identities = 20/54 (37%), Positives = 27/54 (50%), Gaps = 1/54 (1%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
           C RCG  V+  E++      WH+ CFKC  C  TL ++    G +K  YC   Y
Sbjct: 1   CARCGKTVYPTEKLNCLDKIWHKGCFKCEVCGMTL-NMKNYKGYNKKPYCNAHY 53

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

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

 Score = 43.4 bits (102), Expect = 3e-06
 Identities = 21/54 (38%), Positives = 27/54 (50%), Gaps = 1/54 (1%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
           C RCG +V+  E+V      WH+ CF C  C  TL ++N   G  K  YC   Y
Sbjct: 1   CARCGKIVYPTEKVNCLDKTWHKACFHCEVCKMTL-NMNNYKGYQKKPYCNAHY 53

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

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

 Score = 43.1 bits (101), Expect = 5e-06
 Identities = 21/54 (38%), Positives = 27/54 (50%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
           C  CGG +     +LA   +WH +C KC +C   L+S   C   D  IYCK  Y
Sbjct: 11  CAGCGGKISDRYYLLAVDKQWHMRCLKCCECKLNLESELTCFSKDGSIYCKEDY 64

The first LIM domain of Lhx2: Lhx2 belongs to the LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs, such as the pituitary gland and the pancreas. In animals, Lhx2 plays important roles in eye, cerebral cortex, limb, the olfactory organs, and erythrocyte development. Lhx2 gene knockout mice exhibit impaired patterning of the cortical hem and the telencephalon of the developing brain, and a lack of development in olfactory structures. The Lhx2 protein has been shown to bind to the mouse M71 olfactory receptor promoter. Similar to other LIM domains, this domain family is 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 64

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

 Score = 42.3 bits (100), Expect = 7e-06
 Identities = 22/54 (40%), Positives = 25/54 (46%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
           C  CG  +      LA    WH  C  C  C+ PLDS L+C   D  IYCK  Y
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|188854 cd09470, LIM1_Lhx9, The first LIM domain of Lhx9

 Score = 42.0 bits (98), Expect = 8e-06
 Identities = 22/54 (40%), Positives = 25/54 (46%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
           C  CGG +      LA    WH +C  C  CK  L+S L C   D  IYCK  Y
Sbjct: 1   CAGCGGKISDRYYLLAVDKQWHLRCLKCCECKLALESELTCFAKDGSIYCKEDY 54

The first LIM domain of Lhx9: Lhx9 belongs to the LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs, such as the pituitary gland and the pancreas. Lhx9 is highly homologous to Lhx2. It is expressed in several regions of the developing mouse brain, the spinal cord, the pancreas, in limb mesenchyme, and in the urogenital region. Lhx9 plays critical roles in gonad development. Homozygous mice lacking functional Lhx9 alleles exhibit numerous urogenital defects, such as gonadal agenesis, infertility, and undetectable levels of testosterone and estradiol coupled with high FSH levels. Lhx9 null mice have reduced levels of the Sf1 nuclear receptor that is required for gonadogenesis, and recent studies have shown that Lhx9 is able to activate the Sf1/FtzF1 gene. Lhx9 null mice are phenotypically female, even those that are genotypically male. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 54

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

 Score = 42.3 bits (99), Expect = 9e-06
 Identities = 22/54 (40%), Positives = 25/54 (46%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
           C  CGG +      LA    WH +C  C  CK  L+S L C   D  IYCK  Y
Sbjct: 11  CAGCGGKISDRYYLLAVDKQWHMRCLKCCECKLNLESELTCFSKDGSIYCKEDY 64

The first LIM domain of Lhx2: Lhx2 belongs to the LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs, such as the pituitary gland and the pancreas. In animals, Lhx2 plays important roles in eye, cerebral cortex, limb, the olfactory organs, and erythrocyte development. Lhx2 gene knockout mice exhibit impaired patterning of the cortical hem and the telencephalon of the developing brain, and a lack of development in olfactory structures. The Lhx2 protein has been shown to bind to the mouse M71 olfactory receptor promoter. Similar to other LIM domains, this domain family is 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 64

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

 Score = 41.7 bits (98), Expect = 1e-05
 Identities = 18/53 (33%), Positives = 29/53 (54%), Gaps = 5/53 (9%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPL--DSVLACDGPDKEIYCK 251
           C  CG  V+  E+ +A+  ++HK CF C  C + L  D+  + +G    +YCK
Sbjct: 1   CRSCGKPVYKMEEIIAEKHIYHKNCFRCKDCNKQLKVDNYQSHEG---NLYCK 50

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

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

 Score = 41.3 bits (97), Expect = 1e-05
 Identities = 20/52 (38%), Positives = 23/52 (44%), Gaps = 1/52 (1%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLAC-DGPDKEIYCK 251
           CPRCG   + AE     GT +HK CF C  C   L          D E+YC 
Sbjct: 1   CPRCGKTAYPAESVDKDGTFYHKGCFKCRECGTRLSLKTFTFVQGDGEVYCA 52

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

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

 Score = 41.6 bits (98), Expect = 1e-05
 Identities = 21/54 (38%), Positives = 27/54 (50%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
           C  CG  +     +LA   +WH  C KC +C   LDS  +C   D +IYCK  Y
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|188824 cd09440, LIM1_SF3, The first Lim domain of pollen specific protein SF3

 Score = 40.1 bits (94), Expect = 4e-05
 Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 5/56 (8%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTL--DSINACDGPDKDIYCKTCY 151
           C  C   V+  +Q+ A G  +H+ CF+C  C  TL   + ++ +G    +YCK  +
Sbjct: 5   CKACDKTVYLVDQLSADGVVYHKSCFRCSHCKGTLKLSNYSSMEGV---LYCKPHF 57

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

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

 Score = 39.7 bits (93), Expect = 6e-05
 Identities = 21/54 (38%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
           C RCG  V+  E+      +WHK CF C VC   L ++    G +K+ YC A Y
Sbjct: 1   CARCGKTVYPTEKLNCLDKIWHKGCFKCEVCGMTL-NMKNYKGYNKKPYCNAHY 53

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

>gnl|CDD|188767 cd09381, LIM1_Lhx7_Lhx8, The first LIM domain of Lhx7 and Lhx8

 Score = 39.2 bits (91), Expect = 8e-05
 Identities = 18/54 (33%), Positives = 25/54 (46%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
           C  CG  +            WH +C SC+VC+  L    +C   DK+I+CK  Y
Sbjct: 2   CSSCGLEIVDKYLLKVNDLCWHVRCLSCSVCRTSLGRHTSCYIKDKDIFCKLDY 55

The first LIM domain of Lhx7 and Lhx8: Lhx7 and Lhx8 belong to the LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs such as the pituitary gland and the pancreas. Studies using mutant mice have revealed roles for Lhx7 and Lhx8 in the development of cholinergic neurons in the telencephalon and in basal forebrain development. Mice lacking alleles of the LIM-homeobox gene Lhx7 or Lhx8 display dramatically reduced number of forebrain cholinergic neurons. In addition, Lhx7 mutation affects male and female mice differently, with females appearing more affected than males. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 56

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

 Score = 39.4 bits (92), Expect = 8e-05
 Identities = 21/61 (34%), Positives = 32/61 (52%), Gaps = 6/61 (9%)

Query: 201 CPRCGGAVFAAEQQLA-KGTMWHKQCFSCNVCKRPL--DSVLACDGPDKEIYCKACYGKN 257
           C  C   + A +Q +  KG +WHK CF+C+ CK+P+   S        ++ YC  C+ K 
Sbjct: 1   CKGCYKDILAGDQNVEYKGNVWHKDCFTCSNCKQPIGTKSFFP---KGEDFYCVPCHEKK 57

Query: 258 F 258
           F
Sbjct: 58  F 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|188830 cd09446, LIM_N_RAP, The LIM domain of N-RAP

 Score = 39.1 bits (91), Expect = 8e-05
 Identities = 16/32 (50%), Positives = 18/32 (56%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCK 232
           C RCG  V+ AE+       WHK CF C VCK
Sbjct: 1   CARCGYGVYPAEKINCIDQTWHKACFHCEVCK 32

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

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

 Score = 38.5 bits (89), Expect = 1e-04
 Identities = 20/54 (37%), Positives = 30/54 (55%), Gaps = 1/54 (1%)

Query: 96  KGCPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCK 148
           + C RC   + A+E V+ A+ S +H  CF C  CNKTL + +     D  +YC+
Sbjct: 3   QRCARCHLGISASEMVMRARESVYHLSCFTCTTCNKTLTTGDHFGMKDNLVYCR 56

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

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

 Score = 38.1 bits (88), Expect = 2e-04
 Identities = 15/35 (42%), Positives = 21/35 (60%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPL 235
           CP CG  V+ AE+ ++ G  WH+ C  C  CK+ L
Sbjct: 1   CPGCGKPVYFAEKVMSLGRNWHRPCLRCQRCKKTL 35

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

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

 Score = 38.4 bits (90), Expect = 2e-04
 Identities = 21/57 (36%), Positives = 33/57 (57%), Gaps = 6/57 (10%)

Query: 201 CPRCGGAVFAAEQQLA-KGTMWHKQCFSCNVCKRPL--DSVLACDGPDKEIYCKACY 254
           C  CG A+    +++  KG  WH++CF+C+ CK+P+   S +  D    +IYC  CY
Sbjct: 1   CKACGKAIMPGSKKMEYKGKFWHEKCFTCSECKKPIGTKSFIPKDD---KIYCVPCY 54

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

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

 Score = 38.2 bits (89), Expect = 2e-04
 Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 2/54 (3%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
           C  C G +  ++ V A   +WH  CF+C  C+ +L   N     D  +YC+  Y
Sbjct: 1   CAGCRGKILDSQYVQALNQDWHCDCFRCSVCSDSLS--NWYFEKDGKLYCRKDY 52

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

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

 Score = 37.8 bits (88), Expect = 3e-04
 Identities = 19/59 (32%), Positives = 31/59 (52%), Gaps = 2/59 (3%)

Query: 98  CPRCGGVVFAAEQ-VLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKW 155
           C  C   + A +Q V  KG+ WH+ CF C +C + + + +      +D YC  C+ KK+
Sbjct: 1   CKGCYKDILAGDQNVEYKGNVWHKDCFTCSNCKQPIGTKSFFP-KGEDFYCVPCHEKKF 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|188830 cd09446, LIM_N_RAP, The LIM domain of N-RAP

 Score = 38.0 bits (88), Expect = 3e-04
 Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCK 148
           C RCG  V+ AE++      WH+ CF C  C   L ++N      K  YC+
Sbjct: 1   CARCGYGVYPAEKINCIDQTWHKACFHCEVCKMML-TVNNFVSHQKKPYCQ 50

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

>gnl|CDD|188740 cd09354, LIM2_LPP, The second LIM domain of lipoma preferred partner (LPP)

 Score = 37.9 bits (88), Expect = 3e-04
 Identities = 16/46 (34%), Positives = 24/46 (52%)

Query: 216 AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPK 261
           A G  +H QCF+C VC + LD +        +I+C   + K F P+
Sbjct: 15  ATGKPYHPQCFTCVVCGKSLDGIPFTVDATNQIHCIEDFHKKFAPR 60

The second 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 = 60

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

 Score = 37.7 bits (88), Expect = 3e-04
 Identities = 14/36 (38%), Positives = 20/36 (55%), Gaps = 3/36 (8%)

Query: 221 WHKQCFSCNVCKRPLDSVL---ACDGPDKEIYCKAC 253
           WH +CF+C+ C R + S L   A +  D+ I C  C
Sbjct: 20  WHLKCFTCSRCHREISSELSDAAFNNKDQRILCSNC 55

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

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

 Score = 37.4 bits (87), Expect = 3e-04
 Identities = 17/37 (45%), Positives = 22/37 (59%)

Query: 218 GTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
           G  WH  C  C VC+ PL+   +C   D++IYCKA Y
Sbjct: 18  GRSWHVSCLRCCVCQTPLERQPSCFTRDRQIYCKADY 54

The first LIM domain of Arrowhead (AWH): Arrowhead belongs to the LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs, such as the pituitary gland and the pancreas. During embryogenesis of Drosophila, Arrowhead is expressed in each abdominal segment and in the labial segment. Late in embryonic development, expression of arrowhead is refined to the abdominal histoblasts and salivary gland imaginal ring cells themselves. The Arrowhead gene required for establishment of a subset of imaginal tissues: the abdominal histoblasts and the salivary gland imaginal rings. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 54

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

 Score = 37.5 bits (87), Expect = 4e-04
 Identities = 22/57 (38%), Positives = 30/57 (52%), Gaps = 4/57 (7%)

Query: 200 GCPRCGGAVFAAEQQLA-KGTMWHKQCFSCNVCKRPLDSVLACDGPDK-EIYCKACY 254
            C  CG  V    ++L  +G  WH+ CF C+ C++P+ S      PDK E YC  CY
Sbjct: 3   KCVACGKTVMPGSRKLEYEGQTWHEHCFICHGCEQPIGSRSFI--PDKDEHYCVPCY 57

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

 Score = 36.4 bits (84), Expect = 9e-04
 Identities = 16/54 (29%), Positives = 23/54 (42%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
           CP+C   V+ AE+  + G  WH+ C  C  C + L      +   K      CY
Sbjct: 1   CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTPGSHAEHDGKPYCNHPCY 54

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

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

 Score = 36.6 bits (85), Expect = 9e-04
 Identities = 15/35 (42%), Positives = 17/35 (48%)

Query: 117 EWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
           EWH  C KC +C + LD    C   D   YCK  Y
Sbjct: 21  EWHAACLKCAECGQYLDETCTCFVRDGKTYCKRDY 55

The first LIM domain of Isl: Isl is a member of LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Isl1 and Isl2 are the two conserved members of this family. Proteins in this group are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs, such as the pituitary gland and the pancreas. Isl-1 is one of the LHX proteins isolated originally by virtue of its ability to bind DNA sequences from the 5'-flanking region of the rat insulin gene in pancreatic insulin-producing cells. Mice deficient in Isl-1 fail to form the dorsal exocrine pancreas and islet cells fail to differentiate. On the other hand, Isl-1 takes part in the pituitary development by activating the gonadotropin-releasing hormone receptor gene together with LHX3 and steroidogenic factor 1. Mouse Is l2 is expressed in the retinal ganglion cells and the developing spinal cord where it plays a role in motor neuron development. Same as Isl1, Isl2 may also be able to bind to the insulin gene enhancer to promote gene activation. All LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 55

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

 Score = 35.7 bits (83), Expect = 0.001
 Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 2/55 (3%)

Query: 98  CPRCGGVVFAAEQVLA-KGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
           C  CG  +    + +  KG  WH KCF C +C K + +  +    D  IYC  CY
Sbjct: 1   CKACGKAIMPGSKKMEYKGKFWHEKCFTCSECKKPIGT-KSFIPKDDKIYCVPCY 54

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

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

 Score = 36.2 bits (84), Expect = 0.001
 Identities = 14/37 (37%), Positives = 21/37 (56%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDS 134
           C  CG  V   ++ L  G  +HR CF+C++C+ TL  
Sbjct: 1   CAACGQHVHLVQRHLVDGKLYHRNCFRCKECSSTLLP 37

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

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

 Score = 35.9 bits (83), Expect = 0.001
 Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 2/54 (3%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
           C +C  ++ +   V  K   WHR+CF C +C+K+L         +K  YC  C+
Sbjct: 1   CSKCNKIINSG-GVTYKNEPWHRECFTCTNCSKSLAGQRFTSRDEKP-YCADCF 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|188756 cd09370, LIM1_Lmx1a, The first LIM domain of Lmx1a

 Score = 35.5 bits (82), Expect = 0.001
 Identities = 15/35 (42%), Positives = 22/35 (62%), Gaps = 2/35 (5%)

Query: 220 MWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
           +WH++C  C  CK PL++   C   DK++YCK  Y
Sbjct: 20  LWHERCLQCASCKEPLET--TCFYRDKKLYCKEDY 52

The first LIM domain of Lmx1a: Lmx1a belongs to the LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs, such as the pituitary gland and the pancreas. Mouse Lmx1a is expressed in multiple tissues, including the roof plate of the neural tube, the developing brain, the otic vesicles, the notochord, and the pancreas. Human Lmx1a can be found in pancreas, skeletal muscle, adipose tissue, developing brain, mammary glands, and pituitary. The functions of Lmx1a in the developing nervous system were revealed by studies of mutant mouse. In mouse, mutations in Lmx1a result in failure of the roof plate to develop. Lmx1a may act upstream of other roof plate markers such as MafB, Gdf7, Bmp 6, and Bmp7. Further characterization of these mice reveals numerous defects including disorganized cerebellum, hippocampus, and cortex; altered pigmentation; female sterility; skeletal defects; and behavioral abnormalities. Within pancreatic cells, the Lmx1a protein interacts synergistically with the bHLH transcription factor E47 to activate the insulin gene enhancer/promoter. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 52

>gnl|CDD|188740 cd09354, LIM2_LPP, The second LIM domain of lipoma preferred partner (LPP)

 Score = 36.0 bits (83), Expect = 0.002
 Identities = 16/45 (35%), Positives = 22/45 (48%)

Query: 113 AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP 157
           A G  +H +CF C  C K+LD I         I+C   + KK+ P
Sbjct: 15  ATGKPYHPQCFTCVVCGKSLDGIPFTVDATNQIHCIEDFHKKFAP 59

The second 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 = 60

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

 Score = 35.0 bits (81), Expect = 0.002
 Identities = 14/37 (37%), Positives = 18/37 (48%)

Query: 115 GSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
           G  WH  C +C  C   L+   +C   D+ IYCK  Y
Sbjct: 18  GRSWHVSCLRCCVCQTPLERQPSCFTRDRQIYCKADY 54

The first LIM domain of Arrowhead (AWH): Arrowhead belongs to the LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs, such as the pituitary gland and the pancreas. During embryogenesis of Drosophila, Arrowhead is expressed in each abdominal segment and in the labial segment. Late in embryonic development, expression of arrowhead is refined to the abdominal histoblasts and salivary gland imaginal ring cells themselves. The Arrowhead gene required for establishment of a subset of imaginal tissues: the abdominal histoblasts and the salivary gland imaginal rings. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 54

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

 Score = 35.6 bits (82), Expect = 0.002
 Identities = 21/56 (37%), Positives = 27/56 (48%), Gaps = 4/56 (7%)

Query: 99  PRCGG---VVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
           PRC G   ++F+ E   A+   WH K F C DC+  L         DK + CK CY
Sbjct: 1   PRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDNILAGEIYVMVNDKPV-CKPCY 55

The second LIM domain of Testin: Testin contains three C-terminal LIM domains and a PET protein-protein interaction domain at the N-terminal. Testin is a cytoskeleton associated focal adhesion protein that localizes along actin stress fibers, at cell-cell-contact areas, and at focal adhesion plaques. Testin interacts with a variety of cytoskeletal proteins, including zyxin, mena, VASP, talin, and actin and it is involved in cell motility and adhesion events. Knockout mice experiments reveal that tumor repressor function of testin. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 56

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

 Score = 35.4 bits (81), Expect = 0.002
 Identities = 17/54 (31%), Positives = 25/54 (46%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
           C  CG  +           +WH +C  C+VC+  L    +C   +KEI+CK  Y
Sbjct: 1   CSSCGLEILDRYLLKVNNLIWHVRCLECSVCRTSLRQHNSCYIKNKEIFCKMDY 54

The first LIM domain of Lhx6. Lhx6 is a member of LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs such as the pituitary gland and the pancreas. Lhx6 functions in the brain and nervous system. It is expressed at high levels in several regions of the embryonic mouse CNS, including the telencephalon and hypothalamus, and the first branchial arch. Lhx6 is proposed to have a role in patterning of the mandible and maxilla, and in signaling during odontogenesis. In brain sections, knockdown of Lhx6 gene blocks the normal migration of neurons to the cortex. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 54

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

 Score = 35.1 bits (80), Expect = 0.002
 Identities = 17/55 (30%), Positives = 31/55 (56%), Gaps = 1/55 (1%)

Query: 201 CPRCGGAVFAAEQ-QLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
           C RCG  ++A++  + A+G  +H  CF+C  CKR L +       ++++ C+  Y
Sbjct: 1   CARCGRQIYASDWVRRARGNAYHLACFACFSCKRQLSTGEEFGLVEEKVLCRIHY 55

The second LIM domain of Lhx6. Lhx6 is a member of LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs such as the pituitary gland and the pancreas. Lhx6 functions in brain and nervous system. It is expressed at high levels in several regions of the embryonic mouse CNS, including the telencephalon and hypothalamus, and the first branchial arch. Lhx6 is proposed to have a role in patterning of the mandible and maxilla, and in signaling during odontogenesis. In brain sections, knockdown of Lhx6 gene blocks the normal migration of neurons to the cortex. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 55

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

 Score = 35.1 bits (81), Expect = 0.003
 Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 8/49 (16%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPL--------DSVLAC 241
           C  C   V+  +Q  A G ++HK CF C+ CK  L        + VL C
Sbjct: 5   CKACDKTVYLVDQLSADGVVYHKSCFRCSHCKGTLKLSNYSSMEGVLYC 53

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

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

 Score = 34.8 bits (80), Expect = 0.003
 Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 2/54 (3%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
           C  C G +  ++   A    WH  CF C+VC   L +       D ++YC+  Y
Sbjct: 1   CAGCRGKILDSQYVQALNQDWHCDCFRCSVCSDSLSNWYF--EKDGKLYCRKDY 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|188777 cd09391, LIM1_Lrg1p_like, The first LIM domain of Lrg1p, a LIM and RhoGap domain containing protein

 Score = 35.0 bits (81), Expect = 0.003
 Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 1/33 (3%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNK 130
           C +CG  +   + V A G  +H  CF C DC K
Sbjct: 1   CAKCGKPI-TGQFVRALGDVYHLDCFTCHDCGK 32

The first LIM domain of Lrg1p, a LIM and RhoGap domain containing protein: The members of this family contain three tandem repeats of LIM domains and a Rho-type GTPase activating protein (RhoGap) domain. Lrg1p is a Rho1 GTPase-activating protein required for efficient cell fusion in yeast. Lrg1p-GAP domain strongly and specifically stimulates the GTPase activity of Rho1p, a regulator of beta (1-3)-glucan synthase in vitro. The LIM domain is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 57

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

 Score = 34.7 bits (80), Expect = 0.003
 Identities = 20/57 (35%), Positives = 30/57 (52%), Gaps = 6/57 (10%)

Query: 201 CPRCGGAVFAAEQQLA-KGTMWHKQCFSCNVCKRPL--DSVLACDGPDKEIYCKACY 254
           C  CG    A  +++  KG  WH++CF C  CK+P+   S +  D    ++YC  CY
Sbjct: 1   CDGCGEIFRAGMKKMEYKGQQWHEKCFCCCECKQPIGTKSFIPKDD---DVYCVPCY 54

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

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

 Score = 34.7 bits (80), Expect = 0.003
 Identities = 14/34 (41%), Positives = 23/34 (67%), Gaps = 2/34 (5%)

Query: 221 WHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
           WH++C  C+VC++PL    +C   D+++YCK  Y
Sbjct: 21  WHEECLQCSVCQQPL--TTSCYFRDRKLYCKQDY 52

The first LIM domain of Lmx1b: Lmx1b belongs to the LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs, such as the pituitary gland and the pancreas. In mouse, Lmx1b functions in the developing limbs and eyes, the kidneys, the brain, and in cranial mesenchyme. The disruption of Lmx1b gene results kidney and limb defects. In the brain, Lmx1b is important for generation of mesencephalic dopamine neurons and the differentiation of serotonergic neurons. In the mouse eye, Lmx1b regulates anterior segment (cornea, iris, ciliary body, trabecular meshwork, and lens) development. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 53

>gnl|CDD|188726 cd09340, LIM1_Testin_like, The first LIM domain of Testin-like family

 Score = 34.9 bits (81), Expect = 0.003
 Identities = 13/42 (30%), Positives = 15/42 (35%), Gaps = 9/42 (21%)

Query: 201 CPRCGG-------AVFAAEQQLAKGTMWHKQCFSCNVCKRPL 235
           C +C         AVFA      +   WH  CF C  C   L
Sbjct: 1   CEKCKEPINPGEVAVFAER--AGEDACWHPGCFVCETCNELL 40

The first LIM domain of Testin_like family: This family includes testin, prickle, dyxin and LIMPETin. Structurally, testin and prickle proteins contain three LIM domains at C-terminal; LIMPETin has six LIM domains; and dyxin presents only two LIM domains. However, all members of the family contain a PET protein-protein interaction domain. Testin is a cytoskeleton associated focal adhesion protein that localizes along actin stress fibers, at cell-cell-contact areas, and at focal adhesion plaques. Testin interacts with a variety of cytoskeletal proteins, including zyxin, mena, VASP, talin, and actin and it is involved in cell motility and adhesion events. Prickles have been implicated in roles of regulating tissue polarity or planar cell polarity (PCP). Dyxin involves in lung and heart development by interaction with GATA6 and blocking GATA6 activated target genes. LIMPETin might be the recombinant product of genes coding testin and four and half LIM proteins and its function is not well understood. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 58

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

 Score = 34.7 bits (80), Expect = 0.004
 Identities = 18/55 (32%), Positives = 25/55 (45%)

Query: 199 EGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKAC 253
           E C  CG  VF AE+ L +G ++H+ CF C  C   L      +       C+ C
Sbjct: 3   EPCASCGLPVFLAERLLIEGKVYHRTCFKCARCGVQLTPGSFYETEYGSYCCETC 57

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

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

 Score = 34.6 bits (79), Expect = 0.004
 Identities = 14/35 (40%), Positives = 19/35 (54%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPL 235
           CPRC   V+ AE+  + G  WH+ C  C  C + L
Sbjct: 1   CPRCDKTVYFAEKVSSLGKNWHRFCLKCERCSKIL 35

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

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

 Score = 34.7 bits (80), Expect = 0.004
 Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 2/55 (3%)

Query: 98  CPRCGGVVFAAEQVLA-KGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
           C  CG +  A  + +  KG +WH KCF C +C + + +  +    D D+YC  CY
Sbjct: 1   CDGCGEIFRAGMKKMEYKGQQWHEKCFCCCECKQPIGT-KSFIPKDDDVYCVPCY 54

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

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

 Score = 34.5 bits (80), Expect = 0.004
 Identities = 15/35 (42%), Positives = 17/35 (48%), Gaps = 4/35 (11%)

Query: 200 GCPRCGG--AVFAAEQQLAKGTMWHKQCFSCNVCK 232
           G    GG  AVFA   +   G  WH  CF C+ CK
Sbjct: 5   GEQISGGDIAVFA--SRAGPGACWHPACFVCSTCK 37

The first LIM domain of Prickle: Prickle contains three C-terminal LIM domains and a N-terminal PET domain. Prickles have been implicated in roles of regulating tissue polarity or planar cell polarity (PCP). PCP establishment requires the conserved Frizzled/Dishevelled PCP pathway. Prickle interacts with Dishevelled, thereby modulating Frizzled/Dishevelled activity and PCP signaling. Four forms of prickles have been identified: prickle 1-4. The best characterized is prickle 1 and prickle 2 which are differentially expressed. While prickle 1 is expressed in fetal heart and hematological malignancies, prickle 2 is found in fetal brain, adult cartilage, pancreatic islet, and some types of timorous cells. Mutations in prickle 1 have been linked to progressive myoclonus epilepsy. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 59

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

 Score = 34.7 bits (79), Expect = 0.004
 Identities = 18/52 (34%), Positives = 27/52 (51%), Gaps = 1/52 (1%)

Query: 98  CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCK 148
           C RC   + A+E V+ A+   +H  CF C  CNK L + +     D  +YC+
Sbjct: 5   CARCHLGISASEMVMRARDLVYHLNCFTCTTCNKMLTTGDHFGMKDNLVYCR 56

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

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

 Score = 34.2 bits (79), Expect = 0.004
 Identities = 18/56 (32%), Positives = 24/56 (42%), Gaps = 1/56 (1%)

Query: 198 GEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKAC 253
           G  C  C   V   E   A G  +H +CF C+VC++P           KE  C+ C
Sbjct: 1   GTKCDSCQDFV-EGEVVSALGKTYHPKCFVCSVCRQPFPPGDRVTFNGKECLCQKC 55

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	281
KOG1701|consensus	468		99.92
KOG2272|consensus	332		99.83
KOG4577|consensus	383		99.82
KOG1701|consensus	468		99.81
KOG2272|consensus	332		99.8
KOG1703|consensus	479		99.7
KOG1044|consensus	670		99.69
KOG1703|consensus	479		99.64
KOG1044|consensus	670		99.63
KOG1700|consensus	200		99.62
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.36
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.34
KOG4577|consensus	383		99.16
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.47
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.47
KOG1700|consensus	200		97.82
KOG0490|consensus	235		97.7
KOG1702|consensus	264		97.59
KOG1702|consensus	264		97.33
KOG0490|consensus	235		93.85
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	86.03
PF09943	101	DUF2175: Uncharacterized protein conserved in arch	83.21

>KOG1701|consensus

Probab=99.92  E-value=7.4e-27  Score=210.47  Aligned_cols=141  Identities=29%  Similarity=0.608  Sum_probs=122.7

Q ss_pred             CCCCCCCcCCCccccccce-eeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCCCCCcccCCcccc
Q psy16551         92 AAPGKGCPRCGGVVFAAEQ-VLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQ  170 (281)
Q Consensus        92 ~~~~~~C~~C~~~I~~~~~-~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~~~~~c~~~~~~  170 (281)
                      ..+..+|++|+|.|+..+- +.|+++.||..||+|..|++.|.+..|+. .|+++||+.||....               
T Consensus       271 ~~~~~iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~-v~~k~~CE~cyq~tl---------------  334 (468)
T KOG1701|consen  271 EDYFGICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQ-VDGKPYCEGCYQDTL---------------  334 (468)
T ss_pred             hhhhhhhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccccc-cCCcccchHHHHHHH---------------
Confidence            3344699999999976443 68999999999999999999999988875 999999999998643               


Q ss_pred             cCCCccccccCCCCCcCCCCccccCCCCCCCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccC
Q psy16551        171 TDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYC  250 (281)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C  250 (281)
                                                  .+|..|+++|++. ++.+.|+.||+.||+|..|++.|++..|....++++||
T Consensus       335 ----------------------------ekC~~Cg~~I~d~-iLrA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~C  385 (468)
T KOG1701|consen  335 ----------------------------EKCNKCGEPIMDR-ILRALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYC  385 (468)
T ss_pred             ----------------------------HHHhhhhhHHHHH-HHHhcccccCCCceEEEEeccccCCccccccCCCceee
Confidence                                        3899999999543 56699999999999999999999999999999999999


Q ss_pred             hhhhccccCCCCCcCCCCCcccccCCCCC
Q psy16551        251 KACYGKNFGPKGFGYGHSPTLVSTSGEST  279 (281)
Q Consensus       251 ~~c~~~~f~~~c~~c~~~~~~~s~~~~~~  279 (281)
                      ..||+++|+++|+.|+. +|++ .+|+.|
T Consensus       386 v~dfh~kfAPrCs~C~~-PI~P-~~G~~e  412 (468)
T KOG1701|consen  386 VPDFHKKFAPRCSVCGN-PILP-RDGKDE  412 (468)
T ss_pred             ehhhhhhcCcchhhccC-CccC-CCCCcc
Confidence            99999999999999987 5555 566553

>KOG2272|consensus

Probab=99.83  E-value=5.7e-22  Score=167.74  Aligned_cols=129  Identities=23%  Similarity=0.489  Sum_probs=118.1

Q ss_pred             ccccccccCCCCCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCCCCCc
Q psy16551         83 TVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGF  162 (281)
Q Consensus        83 ~~~~~~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~~~~  162 (281)
                      ..++.++...-..++|.+|.++| +.++|.++|+.||.++|+|+.|.+++.+...+ ++.|..||+.||.++|+-     
T Consensus       183 eLyClrChD~mgipiCgaC~rpI-eervi~amgKhWHveHFvCa~CekPFlGHrHY-EkkGlaYCe~h~~qLfG~-----  255 (332)
T KOG2272|consen  183 ELYCLRCHDKMGIPICGACRRPI-EERVIFAMGKHWHVEHFVCAKCEKPFLGHRHY-EKKGLAYCETHYHQLFGN-----  255 (332)
T ss_pred             ceeccccccccCCcccccccCch-HHHHHHHhccccchhheeehhcCCcccchhhh-hhcCchhHHHHHHHHhhh-----
Confidence            45778888888889999999999 46778999999999999999999999998877 599999999999999986     


Q ss_pred             ccCCcccccCCCccccccCCCCCcCCCCccccCCCCCCCCCCCCcccccceeeecCcccccccccccccCCCCCCCcccc
Q psy16551        163 AAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACD  242 (281)
Q Consensus       163 ~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~  242 (281)
                                                           .|..|+.+| .++.+.++++.|.++||+|+.|++.|.....++
T Consensus       256 -------------------------------------~CF~C~~~i-~G~vv~al~KawCv~cf~Cs~Cdkkl~~K~Kf~  297 (332)
T KOG2272|consen  256 -------------------------------------LCFICNRVI-GGDVVSALNKAWCVECFSCSTCDKKLTQKNKFY  297 (332)
T ss_pred             -------------------------------------hheecCCcc-CccHHHHhhhhhcccccccccccccccccccee
Confidence                                                 899999999 788899999999999999999999998888888


Q ss_pred             CCCCcccChhhhcc
Q psy16551        243 GPDKEIYCKACYGK  256 (281)
Q Consensus       243 ~~~g~~~C~~c~~~  256 (281)
                      +.|.+|.|+.||.+
T Consensus       298 E~DmkP~CKkCy~r  311 (332)
T KOG2272|consen  298 EFDMKPVCKKCYDR  311 (332)
T ss_pred             eeccchHHHHHHhh
Confidence            99999999999974

>KOG4577|consensus

Probab=99.82  E-value=2.7e-22  Score=172.45  Aligned_cols=126  Identities=24%  Similarity=0.517  Sum_probs=112.4

Q ss_pred             CCCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCCCCCcccCCcccccC
Q psy16551         93 APGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTD  172 (281)
Q Consensus        93 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~~~~~c~~~~~~~~  172 (281)
                      ...++|++|.+.|.+..++.++++.||..|++|+.|+.+|....|  .++|.+||+++|.|+|+.               
T Consensus        31 ~eip~CagC~q~IlDrFilKvl~R~wHs~CLkCs~C~~qL~drCF--sR~~s~yCkedFfKrfGT---------------   93 (383)
T KOG4577|consen   31 VEIPICAGCDQHILDRFILKVLDRHWHSSCLKCSDCHDQLADRCF--SREGSVYCKEDFFKRFGT---------------   93 (383)
T ss_pred             cccccccchHHHHHHHHHHHHHhhhhhhhhcchhhhhhHHHHHHh--hcCCceeehHHHHHHhCC---------------
Confidence            356899999999998777899999999999999999999998776  499999999999999998               


Q ss_pred             CCccccccCCCCCcCCCCccccCCCCCCCCCCCCcccccceee-ecCcccccccccccccCCCCC-CCccccCCCCcccC
Q psy16551        173 GLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLD-SVLACDGPDKEIYC  250 (281)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~-~~g~~~H~~Cf~C~~C~~~L~-~~~~~~~~~g~~~C  250 (281)
                                                 +|..|...|.+...|. +.+.+||..||.|..|++.|. +.+|+...|++++|
T Consensus        94 ---------------------------KCsaC~~GIpPtqVVRkAqd~VYHl~CF~C~iC~R~L~TGdEFYLmeD~rLvC  146 (383)
T KOG4577|consen   94 ---------------------------KCSACQEGIPPTQVVRKAQDFVYHLHCFACFICKRQLATGDEFYLMEDARLVC  146 (383)
T ss_pred             ---------------------------cchhhcCCCChHHHHHHhhcceeehhhhhhHhhhcccccCCeeEEeccceeeh
Confidence                                       8999999998777665 889999999999999999995 56677789999999


Q ss_pred             hhhhccccCCCC
Q psy16551        251 KACYGKNFGPKG  262 (281)
Q Consensus       251 ~~c~~~~f~~~c  262 (281)
                      +.+|+.--...|
T Consensus       147 K~DYE~Ak~k~~  158 (383)
T KOG4577|consen  147 KDDYETAKQKHC  158 (383)
T ss_pred             hhhHHHHHhccc
Confidence            999988655555

>KOG1701|consensus

Probab=99.81  E-value=7.9e-21  Score=171.68  Aligned_cols=124  Identities=27%  Similarity=0.665  Sum_probs=109.3

Q ss_pred             CCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCCCCCcccCCcccccCCCc
Q psy16551         96 KGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLT  175 (281)
Q Consensus        96 ~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~~~~~c~~~~~~~~~~~  175 (281)
                      ..|..|++.|.+ .++.|+|+.||..||+|..|.+.|++..|.+..++++||-.||+++|+|                  
T Consensus       335 ekC~~Cg~~I~d-~iLrA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfAP------------------  395 (468)
T KOG1701|consen  335 EKCNKCGEPIMD-RILRALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFAP------------------  395 (468)
T ss_pred             HHHhhhhhHHHH-HHHHhcccccCCCceEEEEeccccCCccccccCCCceeeehhhhhhcCc------------------
Confidence            568999999964 6779999999999999999999999988888899999999999999999                  


Q ss_pred             cccccCCCCCcCCCCccccCCCCCCCCCCCCcccccc------eeeecCcccccccccccccCCCCC---CCccccCCCC
Q psy16551        176 EDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAE------QQLAKGTMWHKQCFSCNVCKRPLD---SVLACDGPDK  246 (281)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~------~v~~~g~~~H~~Cf~C~~C~~~L~---~~~~~~~~~g  246 (281)
                                              +|+.|+++|+..+      +|+++++.||.+|++|..|+..|+   .+...+-.||
T Consensus       396 ------------------------rCs~C~~PI~P~~G~~etvRvvamdr~fHv~CY~CEDCg~~LS~e~e~qgCyPld~  451 (468)
T KOG1701|consen  396 ------------------------RCSVCGNPILPRDGKDETVRVVAMDRDFHVNCYKCEDCGLLLSSEEEGQGCYPLDG  451 (468)
T ss_pred             ------------------------chhhccCCccCCCCCcceEEEEEccccccccceehhhcCccccccCCCCcceeccC
Confidence                                    9999999998754      566899999999999999999997   2344557899


Q ss_pred             cccChhhhccccCCCC
Q psy16551        247 EIYCKACYGKNFGPKG  262 (281)
Q Consensus       247 ~~~C~~c~~~~f~~~c  262 (281)
                      .++|+.|..++....+
T Consensus       452 HllCk~Ch~~Rl~~~~  467 (468)
T KOG1701|consen  452 HLLCKTCHLKRLQAGS  467 (468)
T ss_pred             ceeechhhhhhhcccC
Confidence            9999999988866543

>KOG2272|consensus

Probab=99.80  E-value=2.8e-21  Score=163.56  Aligned_cols=187  Identities=20%  Similarity=0.365  Sum_probs=137.9

Q ss_pred             cccccccCCCCCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCCCCC-c
Q psy16551         84 VIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYG-F  162 (281)
Q Consensus        84 ~~~~~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~~~-~  162 (281)
                      .++..++...+.|.|.+|++-|. +++|.+++.+||+.||+|..|++.|.+..++. ..|..+|..|..+.- +++-| +
T Consensus        62 kYCEhDF~~LfaPcC~kC~EFii-GrVikamnnSwHp~CF~Cd~Cn~~Lad~gf~r-nqgr~LC~~Cn~k~K-a~~~g~Y  138 (332)
T KOG2272|consen   62 KYCEHDFHVLFAPCCGKCGEFII-GRVIKAMNNSWHPACFRCDLCNKHLADQGFYR-NQGRALCRECNQKEK-AKGRGRY  138 (332)
T ss_pred             ccccccchhhhchhhcccccchh-hHHHHhhccccCcccchhHHHHHHHhhhhhHh-hcchHHhhhhhhhhc-cccccee
Confidence            37888888999999999999995 78999999999999999999999999877663 789999999987633 22322 3


Q ss_pred             ccCCcccccCCC----ccccccCCCCCcCCCCccc-----------------cCCCCCCCCCCCCcccccceeeecCccc
Q psy16551        163 AAGSGFLQTDGL----TEDEISANRPFYNPNTTSI-----------------MARKGEGCPRCGGAVFAAEQQLAKGTMW  221 (281)
Q Consensus       163 ~c~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~-----------------~~~~~~~C~~C~~~I~~~~~v~~~g~~~  221 (281)
                      .|+++..-.|..    .+.+.++..--+......+                 ..-+.++|..|.++| ++..+.++|+.|
T Consensus       139 vC~KCh~~iD~~~l~fr~d~yH~yHFkCt~C~keL~sdaRevk~eLyClrChD~mgipiCgaC~rpI-eervi~amgKhW  217 (332)
T KOG2272|consen  139 VCQKCHAHIDEQPLTFRGDPYHPYHFKCTTCGKELTSDAREVKGELYCLRCHDKMGIPICGACRRPI-EERVIFAMGKHW  217 (332)
T ss_pred             ehhhhhhhcccccccccCCCCCccceecccccccccchhhhhccceeccccccccCCcccccccCch-HHHHHHHhcccc
Confidence            555544444431    1111111111111111111                 113566999999999 454566999999


Q ss_pred             ccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCCcCCCCCcccccC
Q psy16551        222 HKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGHSPTLVSTS  275 (281)
Q Consensus       222 H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~c~~~~~~~s~~  275 (281)
                      |.++|+|+.|.+++-+-.. +++.|.+||+.||.++||-.|..|++.++..+++
T Consensus       218 HveHFvCa~CekPFlGHrH-YEkkGlaYCe~h~~qLfG~~CF~C~~~i~G~vv~  270 (332)
T KOG2272|consen  218 HVEHFVCAKCEKPFLGHRH-YEKKGLAYCETHYHQLFGNLCFICNRVIGGDVVS  270 (332)
T ss_pred             chhheeehhcCCcccchhh-hhhcCchhHHHHHHHHhhhhheecCCccCccHHH
Confidence            9999999999999865544 4899999999999999999999999988665544

>KOG1703|consensus

Probab=99.70  E-value=8.8e-18  Score=160.83  Aligned_cols=130  Identities=28%  Similarity=0.605  Sum_probs=115.8

Q ss_pred             CCCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCCCCCcccCCcccccC
Q psy16551         93 APGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTD  172 (281)
Q Consensus        93 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~~~~~c~~~~~~~~  172 (281)
                      ...+.|..|++.|...+.+.++++.||+.+|.|..|...+....+. ..+|++||..|+.+.+.+               
T Consensus       301 ~~~p~c~~c~~~i~~~~~i~~~~~~~h~~~~~c~~~~~~~~~~~~~-~~~g~~~c~~~~~~~~~p---------------  364 (479)
T KOG1703|consen  301 VTRPLCLSCNQKIRSVKVIVALGKEWHPEHFSCEVCAIVILDGGPR-ELDGKILCHECFHAPFRP---------------  364 (479)
T ss_pred             cccccccccccCcccceeEeeccccccccceeeccccccccCCCcc-ccCCCccHHHHHHHhhCc---------------
Confidence            4458999999999654889999999999999999999999877664 599999999999999988               


Q ss_pred             CCccccccCCCCCcCCCCccccCCCCCCCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccChh
Q psy16551        173 GLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKA  252 (281)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~  252 (281)
                                                 .|.+|.++|. ++.|.+.+..||++||+|..|++.|....++ ..+|.+||+.
T Consensus       365 ---------------------------~C~~C~~~i~-~~~v~a~~~~wH~~cf~C~~C~~~~~~~~~~-~~~~~pyce~  415 (479)
T KOG1703|consen  365 ---------------------------NCKRCLLPIL-EEGVCALGRLWHPECFVCADCGKPLKNSSFF-ESDGEPYCED  415 (479)
T ss_pred             ---------------------------cccccCCchH-HhHhhhccCeechhceeeecccCCCCCCccc-ccCCccchhh
Confidence                                       8999999994 6677788999999999999999999877665 6999999999


Q ss_pred             hhccccCCCCCcCCC
Q psy16551        253 CYGKNFGPKGFGYGH  267 (281)
Q Consensus       253 c~~~~f~~~c~~c~~  267 (281)
                      ||+++|.++|..|.-
T Consensus       416 ~~~~~~~~~~~~~~~  430 (479)
T KOG1703|consen  416 HYKKLFTTKCDYCKK  430 (479)
T ss_pred             hHhhhccccchhccc
Confidence            999999999988744

>KOG1044|consensus

Probab=99.69  E-value=1.6e-17  Score=155.04  Aligned_cols=169  Identities=22%  Similarity=0.453  Sum_probs=118.1

Q ss_pred             CCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhh------------ccCCCCC-C
Q psy16551         95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGK------------KWGPHGY-G  161 (281)
Q Consensus        95 ~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~------------~~~~~~~-~  161 (281)
                      ...|..|++.- .++++.+.+++||..||+|..|+..|..+.||...+..+|+......            .+.++|+ +
T Consensus        16 ~i~c~~c~~kc-~gevlrv~d~~fhi~cf~c~~cg~~la~~gff~k~~~~~ygt~~c~~~~~gevvsa~gktyh~~cf~c   94 (670)
T KOG1044|consen   16 GIKCDKCRKKC-SGEVLRVNDNHFHINCFQCKKCGRNLAEGGFFTKPENRLYGTDDCRAFVEGEVVSTLGKTYHPKCFSC   94 (670)
T ss_pred             ceehhhhCCcc-ccceeEeeccccceeeeeccccCCCcccccceecccceeecccchhhhccceeEecccceecccccee
Confidence            45699999998 47999999999999999999999999987777655667787633221            1112211 1


Q ss_pred             cccCCcccccCCCccccccCCCCCcCCCCcc-----ccCCCCCCCCCCCCcccccceeeecCcccccccccccccCCCCC
Q psy16551        162 FAAGSGFLQTDGLTEDEISANRPFYNPNTTS-----IMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLD  236 (281)
Q Consensus       162 ~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~  236 (281)
                      .-|...+...+..+.   .+..-.++..-..     ...-+...|++|+..|..++.++++++.||..||+|..|...|.
T Consensus        95 s~ck~pf~~g~~vt~---~gk~~~c~~c~~~~~~~p~~~~~ps~cagc~~~lk~gq~llald~qwhv~cfkc~~c~~vL~  171 (670)
T KOG1044|consen   95 STCKSPFKSGDKVTF---SGKECLCQTCSQPMPVSPAESYGPSTCAGCGEELKNGQALLALDKQWHVSCFKCKSCSAVLN  171 (670)
T ss_pred             cccCCCCCCCCeeee---cchhhhhhhhcCcccCCcccccCCccccchhhhhhccceeeeeccceeeeeeehhhhccccc
Confidence            122222222221111   0000001111011     11124558999999999999999999999999999999999997


Q ss_pred             CCccccCCCCcccChhhhccccCCCCCcCCCCC
Q psy16551        237 SVLACDGPDKEIYCKACYGKNFGPKGFGYGHSP  269 (281)
Q Consensus       237 ~~~~~~~~~g~~~C~~c~~~~f~~~c~~c~~~~  269 (281)
                      +.+.  .+||.+||+.||.+.||.+|..|-+-+
T Consensus       172 gey~--skdg~pyce~dy~~~fgvkc~~c~~fi  202 (670)
T KOG1044|consen  172 GEYM--SKDGVPYCEKDYQAKFGVKCEECEKFI  202 (670)
T ss_pred             ceee--ccCCCcchhhhhhhhcCeehHHhhhhh
Confidence            6544  699999999999999999999987766

>KOG1703|consensus

Probab=99.64  E-value=4.1e-17  Score=156.23  Aligned_cols=126  Identities=28%  Similarity=0.559  Sum_probs=110.1

Q ss_pred             cccccccCCCCCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCCCCCcc
Q psy16551         84 VIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGFA  163 (281)
Q Consensus        84 ~~~~~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~~~~~  163 (281)
                      .++..++.....+.|.+|+++|. ++.|.+++..||++||.|..|++.|....++ .++|.+||+.||++++++      
T Consensus       352 ~~c~~~~~~~~~p~C~~C~~~i~-~~~v~a~~~~wH~~cf~C~~C~~~~~~~~~~-~~~~~pyce~~~~~~~~~------  423 (479)
T KOG1703|consen  352 ILCHECFHAPFRPNCKRCLLPIL-EEGVCALGRLWHPECFVCADCGKPLKNSSFF-ESDGEPYCEDHYKKLFTT------  423 (479)
T ss_pred             ccHHHHHHHhhCccccccCCchH-HhHhhhccCeechhceeeecccCCCCCCccc-ccCCccchhhhHhhhccc------
Confidence            34666777778899999999995 6888899999999999999999999887776 499999999999999976      


Q ss_pred             cCCcccccCCCccccccCCCCCcCCCCccccCCCCCCCCCCCCcccccc-eeeecCcccccccccccccCCCCCCCcccc
Q psy16551        164 AGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAE-QQLAKGTMWHKQCFSCNVCKRPLDSVLACD  242 (281)
Q Consensus       164 c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~-~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~  242 (281)
                                                          +|..|.++|..++ .+.+++..||..||+|+.|.+.|.+..|+ 
T Consensus       424 ------------------------------------~~~~~~~p~~~~~~~ie~~~~~~h~~~F~c~~c~~~l~~~~~~-  466 (479)
T KOG1703|consen  424 ------------------------------------KCDYCKKPVEFGSRQIEADGSPFHGDCFRCANCMKKLTKKTFF-  466 (479)
T ss_pred             ------------------------------------cchhccchhHhhhhHhhccCccccccceehhhhhccccCCcee-
Confidence                                                8999999886655 45599999999999999999999877665 


Q ss_pred             CCCCcccChhhh
Q psy16551        243 GPDKEIYCKACY  254 (281)
Q Consensus       243 ~~~g~~~C~~c~  254 (281)
                      ...++++|..|+
T Consensus       467 ~~~~~p~c~~~~  478 (479)
T KOG1703|consen  467 ETLDKPLCQKHF  478 (479)
T ss_pred             ecCCccccccCC
Confidence            689999999886

>KOG1044|consensus

Probab=99.63  E-value=6.9e-17  Score=150.88  Aligned_cols=117  Identities=25%  Similarity=0.556  Sum_probs=104.5

Q ss_pred             CCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCCCCCcccCCcccccCC
Q psy16551         94 PGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDG  173 (281)
Q Consensus        94 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~~~~~c~~~~~~~~~  173 (281)
                      ....|++|++.|..++.+.|+++.||..||+|..|+..|.+.+.  .++|.+||+.||.+.|+.                
T Consensus       132 ~ps~cagc~~~lk~gq~llald~qwhv~cfkc~~c~~vL~gey~--skdg~pyce~dy~~~fgv----------------  193 (670)
T KOG1044|consen  132 GPSTCAGCGEELKNGQALLALDKQWHVSCFKCKSCSAVLNGEYM--SKDGVPYCEKDYQAKFGV----------------  193 (670)
T ss_pred             CCccccchhhhhhccceeeeeccceeeeeeehhhhcccccceee--ccCCCcchhhhhhhhcCe----------------
Confidence            34679999999999999999999999999999999999987665  599999999999999976                


Q ss_pred             CccccccCCCCCcCCCCccccCCCCCCCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccChhh
Q psy16551        174 LTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKAC  253 (281)
Q Consensus       174 ~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c  253 (281)
                                                +|..|.+.| .+..+.+.|+.||+.|.+|+.|+..++.++-+++....+|-..|
T Consensus       194 --------------------------kc~~c~~fi-sgkvLqag~kh~HPtCARCsRCgqmF~eGEEMYlQGs~iWHP~C  246 (670)
T KOG1044|consen  194 --------------------------KCEECEKFI-SGKVLQAGDKHFHPTCARCSRCGQMFGEGEEMYLQGSEIWHPDC  246 (670)
T ss_pred             --------------------------ehHHhhhhh-hhhhhhccCcccCcchhhhhhhccccccchheeeccccccCCcc
Confidence                                      899999999 46567799999999999999999999887777788888887777


Q ss_pred             hc
Q psy16551        254 YG  255 (281)
Q Consensus       254 ~~  255 (281)
                      -+
T Consensus       247 ~q  248 (670)
T KOG1044|consen  247 KQ  248 (670)
T ss_pred             cc
Confidence            54

>KOG1700|consensus

Probab=99.62  E-value=2e-16  Score=134.35  Aligned_cols=166  Identities=28%  Similarity=0.590  Sum_probs=123.9

Q ss_pred             CCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCCCCCcccCCcccccCCC
Q psy16551         95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGL  174 (281)
Q Consensus        95 ~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~~~~~c~~~~~~~~~~  174 (281)
                      ...|.+|++.|+..+++...|..||+.||+|..|.+.|....+.. +++.+||+.+|...+++++.+++-+--....-..
T Consensus         7 ~~kc~~c~k~vy~~e~~~~~g~~~hk~c~~c~~~~k~l~~~~~~~-~e~~~yc~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (200)
T KOG1700|consen    7 TDKCNACGKTVYFVEKVQKDGVDFHKECFKCEKCKKTLTLSGYSE-HEGVPYCKNCHVAQFGPKGGGFGKGFQKAGGLGK   85 (200)
T ss_pred             cchhhhccCcchHHHHHhccCcchhhhHHhccccccccccccccc-cccccccccchHhhhCcccccccccccccCCCCc
Confidence            457999999999999999999999999999999999999877664 9999999999999999987766553111000000


Q ss_pred             ccccccCCCCCcCCCCccccCCCCCCCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccChhhh
Q psy16551        175 TEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY  254 (281)
Q Consensus       175 ~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~  254 (281)
                      ... ......+.......+..+....|++|.+.+++.+.++..+..||..||+|+.|++.|+...+. ..+|.++|..++
T Consensus        86 ~~~-~~~~~~~~~~~~~~~~~g~~~~c~~c~k~vy~~Ek~~~~~~~~hk~cfrc~~~~~~ls~~~~~-~~~g~l~~~~~~  163 (200)
T KOG1700|consen   86 DGK-SLNESKPNQSAKFQVFAGEKEKCARCQKTVYPLEKVTGNGLEFHKSCFRCTHCGKKLSPKNYA-ALEGVLYCKHHF  163 (200)
T ss_pred             ccc-cccccccccchhHHhhhccccccccccceeeehHHHhhhhhhhhhhheeecccccccCCcchh-hcCCccccchhh
Confidence            000 011111111123455667888999999999999999999999999999999999999877664 578888887776


Q ss_pred             ccc-cCCCCC
Q psy16551        255 GKN-FGPKGF  263 (281)
Q Consensus       255 ~~~-f~~~c~  263 (281)
                      -.+ +++...
T Consensus       164 ~~~~~~~~~~  173 (200)
T KOG1700|consen  164 AQLFKGKGNY  173 (200)
T ss_pred             heeecCCCcc
Confidence            554 444443

>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=99.36  E-value=3.2e-13  Score=92.02  Aligned_cols=57  Identities=42%  Similarity=0.987  Sum_probs=51.3

Q ss_pred             CcCCCcccccccee-eccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhcc
Q psy16551         98 CPRCGGVVFAAEQV-LAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKW  155 (281)
Q Consensus        98 C~~C~~~I~~~~~~-~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~  155 (281)
                      |++|+++|.+.+.+ .+.|+.||++||+|..|++.|.+..++ ..+|++||+.||.++|
T Consensus         1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~-~~~~~~~C~~c~~~~f   58 (58)
T PF00412_consen    1 CARCGKPIYGTEIVIKAMGKFWHPECFKCSKCGKPLNDGDFY-EKDGKPYCKDCYQKRF   58 (58)
T ss_dssp             BTTTSSBESSSSEEEEETTEEEETTTSBETTTTCBTTTSSEE-EETTEEEEHHHHHHHT
T ss_pred             CCCCCCCccCcEEEEEeCCcEEEccccccCCCCCccCCCeeE-eECCEEECHHHHhhhC
Confidence            88999999877776 699999999999999999999987755 4999999999999876

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=99.34  E-value=4.5e-13  Score=91.32  Aligned_cols=57  Identities=40%  Similarity=0.981  Sum_probs=51.0

Q ss_pred             CCCCCCccccccee-eecCcccccccccccccCCCCCCCccccCCCCcccChhhhcccc
Q psy16551        201 CPRCGGAVFAAEQQ-LAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNF  258 (281)
Q Consensus       201 C~~C~~~I~~~~~v-~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f  258 (281)
                      |++|+++|...+.+ .+.|+.||++||+|..|++.|....+ ...+|++||..||.++|
T Consensus         1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~-~~~~~~~~C~~c~~~~f   58 (58)
T PF00412_consen    1 CARCGKPIYGTEIVIKAMGKFWHPECFKCSKCGKPLNDGDF-YEKDGKPYCKDCYQKRF   58 (58)
T ss_dssp             BTTTSSBESSSSEEEEETTEEEETTTSBETTTTCBTTTSSE-EEETTEEEEHHHHHHHT
T ss_pred             CCCCCCCccCcEEEEEeCCcEEEccccccCCCCCccCCCee-EeECCEEECHHHHhhhC
Confidence            78999999888877 49999999999999999999987764 46899999999999876

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

>KOG4577|consensus

Probab=99.16  E-value=1.1e-12  Score=113.47  Aligned_cols=76  Identities=20%  Similarity=0.393  Sum_probs=68.4

Q ss_pred             CCCCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCCcCCCCCcccccC
Q psy16551        198 GEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGHSPTLVSTS  275 (281)
Q Consensus       198 ~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~c~~~~~~~s~~  275 (281)
                      ..+|++|.+.|.+..++.++++.||..|++|+.|+.+|....|  .++|.+||+.+|.++||+||..|..|+...-+.
T Consensus        33 ip~CagC~q~IlDrFilKvl~R~wHs~CLkCs~C~~qL~drCF--sR~~s~yCkedFfKrfGTKCsaC~~GIpPtqVV  108 (383)
T KOG4577|consen   33 IPICAGCDQHILDRFILKVLDRHWHSSCLKCSDCHDQLADRCF--SREGSVYCKEDFFKRFGTKCSACQEGIPPTQVV  108 (383)
T ss_pred             cccccchHHHHHHHHHHHHHhhhhhhhhcchhhhhhHHHHHHh--hcCCceeehHHHHHHhCCcchhhcCCCChHHHH
Confidence            3499999999988887789999999999999999999987776  689999999999999999999999998765443

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

Probab=98.47  E-value=1.1e-07  Score=58.83  Aligned_cols=37  Identities=35%  Similarity=0.934  Sum_probs=32.4

Q ss_pred             CCCCCCCccccc-ceeeecCcccccccccccccCCCCC
Q psy16551        200 GCPRCGGAVFAA-EQQLAKGTMWHKQCFSCNVCKRPLD  236 (281)
Q Consensus       200 ~C~~C~~~I~~~-~~v~~~g~~~H~~Cf~C~~C~~~L~  236 (281)
                      +|.+|+++|.+. ..+.+.++.||+.||+|..|+++|.
T Consensus         1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L~   38 (39)
T smart00132        1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPLG   38 (39)
T ss_pred             CccccCCcccCCcEEEEeCCccccccCCCCcccCCcCc
Confidence            589999999876 4566899999999999999999885

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=98.47  E-value=9.5e-08  Score=59.06  Aligned_cols=37  Identities=38%  Similarity=0.896  Sum_probs=32.9

Q ss_pred             CCcCCCcccccc-ceeeccCcccccCceeccccCCCCC
Q psy16551         97 GCPRCGGVVFAA-EQVLAKGSEWHRKCFKCRDCNKTLD  133 (281)
Q Consensus        97 ~C~~C~~~I~~~-~~~~~~~~~~H~~CF~C~~C~~~L~  133 (281)
                      .|.+|++.|.+. ..+.+.++.||..||+|..|+.+|.
T Consensus         1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L~   38 (39)
T smart00132        1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPLG   38 (39)
T ss_pred             CccccCCcccCCcEEEEeCCccccccCCCCcccCCcCc
Confidence            489999999876 6678899999999999999999885

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

>KOG1700|consensus

Probab=97.82  E-value=5.7e-06  Score=70.51  Aligned_cols=65  Identities=31%  Similarity=0.731  Sum_probs=56.2

Q ss_pred             CCCCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCC
Q psy16551         92 AAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP  157 (281)
Q Consensus        92 ~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~  157 (281)
                      ......|..|.+.+++.+.+...+..||..||+|..|+..|....+.. .+|.+||..++..++..
T Consensus       105 ~g~~~~c~~c~k~vy~~Ek~~~~~~~~hk~cfrc~~~~~~ls~~~~~~-~~g~l~~~~~~~~~~~~  169 (200)
T KOG1700|consen  105 AGEKEKCARCQKTVYPLEKVTGNGLEFHKSCFRCTHCGKKLSPKNYAA-LEGVLYCKHHFAQLFKG  169 (200)
T ss_pred             hccccccccccceeeehHHHhhhhhhhhhhheeecccccccCCcchhh-cCCccccchhhheeecC
Confidence            344678999999999999999999999999999999999999877764 88999998877776543

>KOG0490|consensus

Probab=97.70  E-value=8.2e-06  Score=70.83  Aligned_cols=114  Identities=24%  Similarity=0.444  Sum_probs=84.1

Q ss_pred             CCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhh--ccCCCCCCcccCCcccccCCCccc
Q psy16551        100 RCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGK--KWGPHGYGFAAGSGFLQTDGLTED  177 (281)
Q Consensus       100 ~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~--~~~~~~~~~~c~~~~~~~~~~~~~  177 (281)
                      .|+..|.+...+.+.+..||..|..|..|...|......+.++|..||..+|..  .+..                    
T Consensus         1 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~d~~~~~~~~~--------------------   60 (235)
T KOG0490|consen    1 GCGRQILDRYLLRVLDRYWHASCLKCAECDNPLGVGDTCFSKDGSIYCKRDYQREFKFSK--------------------   60 (235)
T ss_pred             CCCccccchHHhhcccHHHHHHHHhhhhhcchhccCCCcccCCCcccccccchhhhhccc--------------------
Confidence            367778776667778999999999999999999732222246999999999987  3332                    


Q ss_pred             cccCCCCCcCCCCccccCCCCCCCCCCCCcccccceee-ecCcccccccccccccCCCCCC-CccccCCCCcccChhhhc
Q psy16551        178 EISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDS-VLACDGPDKEIYCKACYG  255 (281)
Q Consensus       178 ~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~-~~g~~~H~~Cf~C~~C~~~L~~-~~~~~~~~g~~~C~~c~~  255 (281)
                                            +|.+|...+...+.+. +..+. |..||.|..|...+.. ..+-.....+..|..++.
T Consensus        61 ----------------------rr~rt~~~~~ql~~ler~f~~~-h~Pd~~~r~~la~~~~~~e~rVqvwFqnrrak~r~  117 (235)
T KOG0490|consen   61 ----------------------RCARCKFTISQLDELERAFEKV-HLPCFACRECLALLLTGDEFRVQVWFQNRRAKDRK  117 (235)
T ss_pred             ----------------------cccCCCCCcCHHHHHHHhhcCC-CcCccchHHHHhhcCCCCeeeeehhhhhhcHhhhh
Confidence                                  8999999887666666 55555 9999999999987643 333323344888887774


Q ss_pred             c
Q psy16551        256 K  256 (281)
Q Consensus       256 ~  256 (281)
                      +
T Consensus       118 ~  118 (235)
T KOG0490|consen  118 E  118 (235)
T ss_pred             h
Confidence            4

>KOG1702|consensus

Probab=97.59  E-value=1.1e-05  Score=67.39  Aligned_cols=61  Identities=36%  Similarity=0.707  Sum_probs=53.3

Q ss_pred             CCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccC
Q psy16551         95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG  156 (281)
Q Consensus        95 ~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~  156 (281)
                      ...|..|++.++..|.+.-+++.||..||+|..|+-+|..+.+- ..+.++||..||.+..+
T Consensus         4 k~n~~~cgk~vYPvE~v~cldk~whk~cfkce~c~mtlnmKnyK-gy~kkpycn~hYpkq~a   64 (264)
T KOG1702|consen    4 KCNREDCGKTVYPVEEVKCLDKVWHKQCFKCEVCGMTLNMKNYK-GYDKKPYCNPHYPKQVA   64 (264)
T ss_pred             cchhhhhccccccHHHHhhHHHHHHHHhheeeeccCChhhhhcc-ccccCCCcCccccccee
Confidence            34588999999999999999999999999999999999876654 47899999999987654

>KOG1702|consensus

Probab=97.33  E-value=3.1e-05  Score=64.69  Aligned_cols=63  Identities=33%  Similarity=0.666  Sum_probs=53.5

Q ss_pred             CCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCC
Q psy16551        200 GCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGF  263 (281)
Q Consensus       200 ~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~  263 (281)
                      .|..|++.+++.+.+..+++.||..||.|..|+.+|....+ ...|.++||-.||.+..++--+
T Consensus         6 n~~~cgk~vYPvE~v~cldk~whk~cfkce~c~mtlnmKny-Kgy~kkpycn~hYpkq~at~~a   68 (264)
T KOG1702|consen    6 NREDCGKTVYPVEEVKCLDKVWHKQCFKCEVCGMTLNMKNY-KGYDKKPYCNPHYPKQVATVMA   68 (264)
T ss_pred             hhhhhccccccHHHHhhHHHHHHHHhheeeeccCChhhhhc-cccccCCCcCcccccceeeeec
Confidence            68899999999999999999999999999999999975443 3578999999999887655433

>KOG0490|consensus

Probab=93.85  E-value=0.027  Score=48.62  Aligned_cols=64  Identities=25%  Similarity=0.585  Sum_probs=51.9

Q ss_pred             CCCcccccceeeecCcccccccccccccCCCCC--CCccccCCCCcccChhhhcc--ccCCCCCcCCCCC
Q psy16551        204 CGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLD--SVLACDGPDKEIYCKACYGK--NFGPKGFGYGHSP  269 (281)
Q Consensus       204 C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~--~~~~~~~~~g~~~C~~c~~~--~f~~~c~~c~~~~  269 (281)
                      |+..|.+...+.+.+..||..|..|..|...|.  ...+  ..+|..||...|..  .+..+|.+|.-.+
T Consensus         2 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~g~~~~~~d~~~~~~~~~rr~rt~~~~   69 (235)
T KOG0490|consen    2 CGRQILDRYLLRVLDRYWHASCLKCAECDNPLGVGDTCF--SKDGSIYCKRDYQREFKFSKRCARCKFTI   69 (235)
T ss_pred             CCccccchHHhhcccHHHHHHHHhhhhhcchhccCCCcc--cCCCcccccccchhhhhccccccCCCCCc
Confidence            566676655556779999999999999999996  3333  34999999999998  8899999998765

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=86.03  E-value=0.55  Score=31.16  Aligned_cols=37  Identities=24%  Similarity=0.685  Sum_probs=26.4

Q ss_pred             CCCCCCCCcccccc-eee--ecCcccccccc----cccc--cCCCC
Q psy16551        199 EGCPRCGGAVFAAE-QQL--AKGTMWHKQCF----SCNV--CKRPL  235 (281)
Q Consensus       199 ~~C~~C~~~I~~~~-~v~--~~g~~~H~~Cf----~C~~--C~~~L  235 (281)
                      .+|..|+++|.+++ .|+  .=+..||++|.    .|..  |+..+
T Consensus         6 ~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~g~C~~~~c~~~~   51 (54)
T PF14446_consen    6 CKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKAGGCINYSCGTGF   51 (54)
T ss_pred             ccChhhCCcccCCCCEEECCCCCCcccHHHHhhCCceEeccCCCCc
Confidence            38999999997554 444  46778999997    3655  55443

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

Probab=83.21  E-value=0.36  Score=36.25  Aligned_cols=33  Identities=24%  Similarity=0.465  Sum_probs=26.8

Q ss_pred             CCCCCCCcccccceeee-cCcccccccccccccC
Q psy16551        200 GCPRCGGAVFAAEQQLA-KGTMWHKQCFSCNVCK  232 (281)
Q Consensus       200 ~C~~C~~~I~~~~~v~~-~g~~~H~~Cf~C~~C~  232 (281)
                      +|..|+++|..++.+++ .+..-|..||.=..-.
T Consensus         4 kC~iCg~~I~~gqlFTF~~kG~VH~~C~~~~~~~   37 (101)
T PF09943_consen    4 KCYICGKPIYEGQLFTFTKKGPVHYECFREKASK   37 (101)
T ss_pred             EEEecCCeeeecceEEEecCCcEeHHHHHHHHhh
Confidence            79999999999999984 5567899999865443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	281
1b8t_A	192	Solution Structure Of The Chicken Crp1 Length = 192		2e-28
1qli_A	113	Quail Cysteine And Glycine-Rich Protein, Nmr, 15 Mi		5e-19
1cxx_A	113	Mutant R122a Of Quail Cysteine And Glycine-Rich Pro		3e-18
1ctl_A	85	Structure Of The Carboxy-Terminal Lim Domain From T		6e-15
1a7i_A	81	Amino-Terminal Lim Domain From Quail Cysteine And G		6e-13
1a7i_A	81	Amino-Terminal Lim Domain From Quail Cysteine And G		8e-12
2o13_A	58	Solution Structure Of The C-Terminal Lim Domain Of		2e-11
1iml_A	76	Cysteine Rich Intestinal Protein, Nmr, 48 Structure		2e-07
1iml_A	76	Cysteine Rich Intestinal Protein, Nmr, 48 Structure		7e-06
2o10_A	60	Solution Structure Of The N-Terminal Lim Domain Of		6e-07
2o10_A	60	Solution Structure Of The N-Terminal Lim Domain Of		2e-06
2cu8_A	76	Solution Structure Of The Lim Domain Of Human Cyste		5e-05
2dfy_X	195	Crystal Structure Of A Cyclized Protein Fusion Of L		7e-04

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

Iteration: 1
 Score =  122 bits (307), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 82/174 (47%), Positives = 104/174 (59%), Gaps = 10/174 (5%)
Query: 95  GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 154
           GK C  C   V+ AE+V  +GS +H+ CF C  C K LDS       D +IYCK+CYGKK
Sbjct: 7   GKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGD-EIYCKSCYGKK 65
Query: 155 WGPHGYGFAAGSGFLQTD-----GLTEDEISANRPFYNPNTTSIMARKG--EGCPRCGGA 207
           +GP G G   G+G L TD     G+  +E  ++RP  NPN + +  + G  +GCPRCG A
Sbjct: 66  YGPKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPT-NPNASRMAQKVGGSDGCPRCGQA 124
Query: 208 VFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPK 261
           V+AAE+ +  G  WHK CF C  C + L+S    D  D EIYCK CY KNFGPK
Sbjct: 125 VYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLAD-KDGEIYCKGCYAKNFGPK 177

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

Iteration: 1
 Score = 91.7 bits (226), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 46/94 (48%), Positives = 57/94 (60%), Gaps = 3/94 (3%)
Query: 176 EDEISANRPFYNPNTTSIMARKG--EGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKR 233
           E   S +RP  NPNT+    + G  E C RCG +V+AAE+ +  G  WHK CF C  C +
Sbjct: 12  ESSPSPHRPTTNPNTSKFAQKFGGAEKCSRCGDSVYAAEKVIGAGKPWHKNCFRCAKCGK 71
Query: 234 PLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGH 267
            L+S    +  + EIYCK CY KNFGPKGFGYG 
Sbjct: 72  SLESTTLTE-KEGEIYCKGCYAKNFGPKGFGYGQ 104

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

Iteration: 1
 Score = 89.0 bits (219), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 45/94 (47%), Positives = 56/94 (59%), Gaps = 3/94 (3%)
Query: 176 EDEISANRPFYNPNTTSIMARKG--EGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKR 233
           E   S +RP  NPNT+    + G  E C  CG +V+AAE+ +  G  WHK CF C  C +
Sbjct: 12  ESSPSPHRPTTNPNTSKFAQKFGGAEKCSACGDSVYAAEKVIGAGKPWHKNCFRCAKCGK 71
Query: 234 PLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGH 267
            L+S    +  + EIYCK CY KNFGPKGFGYG 
Sbjct: 72  SLESTTLTE-KEGEIYCKGCYAKNFGPKGFGYGQ 104

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

Iteration: 1
 Score = 77.8 bits (190), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 39/71 (54%), Positives = 46/71 (64%), Gaps = 4/71 (5%)
Query: 194 MARK---GEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYC 250
           MA+K    +GCPRCG AV+AAE+ +  G  WHK CF C  C + L+S    D  D EIYC
Sbjct: 1   MAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLAD-KDGEIYC 59
Query: 251 KACYGKNFGPK 261
           K CY KNFGPK
Sbjct: 60  KGCYAKNFGPK 70

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

Iteration: 1
 Score = 71.2 bits (173), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 36/76 (47%), Positives = 45/76 (59%), Gaps = 1/76 (1%)
Query: 95  GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 154
           G  C  CG  V+ AE+V   G  +HR CF C  C K LDS       D ++YCK+CYGKK
Sbjct: 7   GNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAI-HDAEVYCKSCYGKK 65
Query: 155 WGPHGYGFAAGSGFLQ 170
           +GP GYG+  G+G L 
Sbjct: 66  YGPKGYGYGQGAGTLN 81

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

Iteration: 1
 Score = 67.4 bits (163), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 33/76 (43%), Positives = 45/76 (59%), Gaps = 1/76 (1%)
Query: 198 GEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKN 257
           G  C  CG  V+ AE+    G  +H+ CF C VC++ LDS       D E+YCK+CYGK 
Sbjct: 7   GNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAI-HDAEVYCKSCYGKK 65
Query: 258 FGPKGFGYGHSPTLVS 273
           +GPKG+GYG     ++
Sbjct: 66  YGPKGYGYGQGAGTLN 81

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

Iteration: 1
 Score = 65.9 bits (159), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 30/58 (51%), Positives = 38/58 (65%), Gaps = 1/58 (1%)
Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNF 258
           CPRCG +V+AAE+ +  G  WHK CF C +C + L+S    D  D E+YCK CY KNF
Sbjct: 2   CPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTD-KDGELYCKVCYAKNF 58

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

Iteration: 1
 Score = 53.1 bits (126), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 26/64 (40%), Positives = 34/64 (53%)
Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP 157
           CP+C   V+ AE+V + G +WHR C KC  C KTL S    +   K      CY   +GP
Sbjct: 3   CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGP 62
Query: 158 HGYG 161
            G+G
Sbjct: 63  KGFG 66

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

Iteration: 1
 Score = 47.8 bits (112), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 25/66 (37%), Positives = 32/66 (48%)
Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGP 260
           CP+C   V+ AE+  + G  WH+ C  C  C + L S    +   K      CY   FGP
Sbjct: 3   CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGP 62
Query: 261 KGFGYG 266
           KGFG G
Sbjct: 63  KGFGRG 68

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

Iteration: 1
 Score = 51.2 bits (121), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 23/60 (38%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 95  GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 154
           G  C  C   V+ AE++   G  +H+ CF C  C K LDS       + +IYCK CYG++
Sbjct: 1   GAKCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTV-AAHESEIYCKVCYGRR 59

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

Iteration: 1
 Score = 49.7 bits (117), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 24/59 (40%), Positives = 31/59 (52%), Gaps = 1/59 (1%)
Query: 198 GEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGK 256
           G  C  C   V+ AE+    G  +HK CF C  C++ LDS       + EIYCK CYG+
Sbjct: 1   GAKCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTV-AAHESEIYCKVCYGR 58

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 22/59 (37%), Positives = 31/59 (52%)
Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG 156
           CP+C   V+ AE+V + G +WH+ C KC  C+KTL      +   K    K CY   +G
Sbjct: 12  CPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFG 70

>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 = 41.2 bits (95), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 33/142 (23%), Positives = 50/142 (35%), Gaps = 42/142 (29%)
Query: 96  KGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKD-IYCKTCYGKK 154
           K C  CGG +     + A  S WH +C KC  C   L  I          I C+  Y + 
Sbjct: 4   KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 63
Query: 155 WGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQ 214
           +G  G                                         C  CG ++ A+E  
Sbjct: 64  FGNSG----------------------------------------ACSACGQSIPASELV 83
Query: 215 L-AKGTMWHKQCFSCNVCKRPL 235
           + A+G ++H +CF+C+ C+  L
Sbjct: 84  MRAQGNVYHLKCFTCSTCRNRL 105

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	281
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	2e-41
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	4e-18
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	1e-21
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	6e-20
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	1e-20
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	3e-20
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	6e-19
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	7e-19
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	2e-16
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	7e-07
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	3e-16
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	1e-15
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	3e-15
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	2e-15
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	2e-06
2co8_A	82	NEDD9 interacting protein with calponin homology a	5e-15
2co8_A	82	NEDD9 interacting protein with calponin homology a	2e-13
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	9e-14
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	3e-09
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	2e-13
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	2e-07
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	1e-05
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	5e-13
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	3e-12
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	6e-13
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	3e-12
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	1e-12
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	6e-11
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	1e-11
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	1e-10
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	1e-11
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	6e-09
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	2e-11
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	8e-11
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	3e-11
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	6e-10
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	2e-10
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	3e-09
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	3e-10
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	4e-09
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	1e-09
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	5e-08
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	3e-09
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	1e-08
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	5e-09
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	2e-08
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	1e-08
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	5e-08
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	2e-08
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	7e-08
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	5e-08
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	1e-07
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	6e-08
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	2e-07
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	8e-08
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	1e-07
2cuq_A	80	Four and A half LIM domains 3; structural genomics	8e-08
2cuq_A	80	Four and A half LIM domains 3; structural genomics	3e-07
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	2e-07
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	1e-06
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	2e-07
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	7e-07
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	3e-07
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	2e-06
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	4e-07
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	5e-06
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	4e-07
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	5e-07
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	1e-06
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	5e-06
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	1e-06
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	1e-05
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	2e-06
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	1e-05
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	5e-06
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	4e-05
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	7e-06
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	2e-05
2cor_A	79	Pinch protein; LIM domain, particularly interestin	2e-05
2cor_A	79	Pinch protein; LIM domain, particularly interestin	2e-05

>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 =  140 bits (353), Expect = 2e-41
 Identities = 80/183 (43%), Positives = 97/183 (53%), Gaps = 8/183 (4%)

Query: 91  KAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTC 150
               GK C  C   V+ AE+V  +GS +H+ CF C  C K LDS       D+ IYCK+C
Sbjct: 3   NWGGGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDE-IYCKSC 61

Query: 151 YGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTS------IMARKGEGCPRC 204
           YGKK+GP G G   G+G L TD      I       +  T              +GCPRC
Sbjct: 62  YGKKYGPKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRC 121

Query: 205 GGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFG 264
           G AV+AAE+ +  G  WHK CF C  C + L+S    D  D EIYCK CY KNFGPKGFG
Sbjct: 122 GQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLAD-KDGEIYCKGCYAKNFGPKGFG 180

Query: 265 YGH 267
           +G 
Sbjct: 181 FGQ 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 = 79.3 bits (195), Expect = 4e-18
 Identities = 40/99 (40%), Positives = 55/99 (55%), Gaps = 1/99 (1%)

Query: 72  FFCRENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKT 131
           +   +++ P          K     GCPRCG  V+AAE+V+  G  WH+ CF+C  C K+
Sbjct: 92  YEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKS 151

Query: 132 LDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQ 170
           L+S    D  D +IYCK CY K +GP G+GF  G+G L 
Sbjct: 152 LESTTLAD-KDGEIYCKGCYAKNFGPKGFGFGQGAGALI 189

>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 = 85.5 bits (212), Expect = 1e-21
 Identities = 36/79 (45%), Positives = 45/79 (56%), Gaps = 1/79 (1%)

Query: 91  KAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTC 150
               G  C  CG  V+ AE+V   G  +HR CF C  C K LDS       D ++YCK+C
Sbjct: 3   NWGGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIH-DAEVYCKSC 61

Query: 151 YGKKWGPHGYGFAAGSGFL 169
           YGKK+GP GYG+  G+G L
Sbjct: 62  YGKKYGPKGYGYGQGAGTL 80

>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 = 80.9 bits (200), Expect = 6e-20
 Identities = 35/75 (46%), Positives = 45/75 (60%), Gaps = 3/75 (4%)

Query: 194 MARKGEG--CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCK 251
           M   G G  C  CG  V+ AE+    G  +H+ CF C VC++ LDS       D E+YCK
Sbjct: 1   MPNWGGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIH-DAEVYCK 59

Query: 252 ACYGKNFGPKGFGYG 266
           +CYGK +GPKG+GYG
Sbjct: 60  SCYGKKYGPKGYGYG 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 = 82.4 bits (204), Expect = 1e-20
 Identities = 26/71 (36%), Positives = 37/71 (52%), Gaps = 2/71 (2%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCK-ACYGKNFG 259
           CP+C   V+ AE+  + G  WH+ C  C  C + L S    +  + + YC   CY   FG
Sbjct: 3   CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEH-EGKPYCNHPCYSAMFG 61

Query: 260 PKGFGYGHSPT 270
           PKGFG G + +
Sbjct: 62  PKGFGRGGAES 72

>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 = 81.6 bits (202), Expect = 3e-20
 Identities = 27/67 (40%), Positives = 36/67 (53%), Gaps = 2/67 (2%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCK-TCYGKKWG 156
           CP+C   V+ AE+V + G +WHR C KC  C KTL S    +  +   YC   CY   +G
Sbjct: 3   CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEH-EGKPYCNHPCYSAMFG 61

Query: 157 PHGYGFA 163
           P G+G  
Sbjct: 62  PKGFGRG 68

>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 = 78.7 bits (194), Expect = 6e-19
 Identities = 24/83 (28%), Positives = 34/83 (40%), Gaps = 2/83 (2%)

Query: 86  DTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDI 145
              K +A   + C  C   V+  E++LA    +H  CF+C  CN  L            I
Sbjct: 6   SGMKFQAPARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGT-YASLHGRI 64

Query: 146 YCKTCYGKKWGPHG-YGFAAGSG 167
           YCK  + + +   G Y    GSG
Sbjct: 65  YCKPHFNQLFKSKGNYDEGFGSG 87

>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 = 78.4 bits (193), Expect = 7e-19
 Identities = 24/87 (27%), Positives = 34/87 (39%), Gaps = 4/87 (4%)

Query: 187 NPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDK 246
             +     A   E C  C   V+  E+ LA   ++H  CF C+ C   L           
Sbjct: 4   GSSGMKFQAPARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLG-TYASLHG 62

Query: 247 EIYCKACYGKNFGPKG---FGYGHSPT 270
            IYCK  + + F  KG    G+G  P+
Sbjct: 63  RIYCKPHFNQLFKSKGNYDEGFGSGPS 89

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

 Score = 72.9 bits (179), Expect = 2e-16
 Identities = 28/170 (16%), Positives = 45/170 (26%), Gaps = 48/170 (28%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINA-CDGPDKDIYCKTCYGKKWG 156
           C  C   +     + A    WH  C  C  C   L  +            C+  Y + +G
Sbjct: 5   CGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFG 64

Query: 157 PHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQL- 215
             G                                         C  C   + A E  + 
Sbjct: 65  QDGL----------------------------------------CASCDKRIRAYEMTMR 84

Query: 216 AKGTMWHKQCFSCNVCKRPL---DSVLACDGPDKEIYCKACYGKNFGPKG 262
            K  ++H +CF C  C++     D  L  +    +I C+    +     G
Sbjct: 85  VKDKVYHLECFKCAACQKHFCVGDRYLLINS---DIVCEQDIYEWTKING 131

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

 Score = 46.7 bits (111), Expect = 7e-07
 Identities = 15/60 (25%), Positives = 22/60 (36%), Gaps = 1/60 (1%)

Query: 93  APGKGCPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
                C  C   + A E  +  K   +H +CFKC  C K     +     + DI C+   
Sbjct: 64  GQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDI 123

>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 = 74.3 bits (182), Expect = 3e-16
 Identities = 37/187 (19%), Positives = 61/187 (32%), Gaps = 42/187 (22%)

Query: 95  GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTL-DSINACDGPDKDIYCKTCYGK 153
            K C  CGG +     + A  S WH +C KC  C   L D   +       I C+  Y +
Sbjct: 5   WKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIR 64

Query: 154 KWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQ 213
            +G  G                                         C  CG ++ A+E 
Sbjct: 65  LFGNSGA----------------------------------------CSACGQSIPASEL 84

Query: 214 QL-AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGHSPTLV 272
            + A+G ++H +CF+C+ C+  L         +  ++C+              G S    
Sbjct: 85  VMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHLNSGGSGGSG 144

Query: 273 STSGEST 279
            + G+  
Sbjct: 145 GSGGDVM 151

>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 = 69.4 bits (170), Expect = 1e-15
 Identities = 23/64 (35%), Positives = 33/64 (51%), Gaps = 2/64 (3%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYC-KTCYGKKWG 156
           CP+C   V+ AE+V + G +WH+ C KC  C+KTL      +  D   +C K CY   +G
Sbjct: 12  CPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAE-HDGKPFCHKPCYATLFG 70

Query: 157 PHGY 160
               
Sbjct: 71  SGPS 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 = 68.2 bits (167), Expect = 3e-15
 Identities = 21/63 (33%), Positives = 28/63 (44%), Gaps = 2/63 (3%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYC-KACYGKNFG 259
           CP+C   V+ AE+  + G  WHK C  C  C + L         D + +C K CY   FG
Sbjct: 12  CPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPG-GHAEHDGKPFCHKPCYATLFG 70

Query: 260 PKG 262
              
Sbjct: 71  SGP 73

>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 = 71.0 bits (174), Expect = 2e-15
 Identities = 39/180 (21%), Positives = 54/180 (30%), Gaps = 56/180 (31%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP 157
           C  C   +     + A    WH KC KC DC+  L     C    + +YCK  + K++G 
Sbjct: 9   CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLA--ERCFSRGESVYCKDDFFKRFGT 66

Query: 158 HGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQL-A 216
                                                      C  C   +   +    A
Sbjct: 67  K------------------------------------------CAACQLGIPPTQVVRRA 84

Query: 217 KGTMWHKQCFSCNVCKRPLDSVLACDG------PDKEIYCKACYGKNFGPKGFGYGHSPT 270
           +  ++H  CF+C VCKR L       G       D  + CKA Y         G G S  
Sbjct: 85  QDFVYHLHCFACVVCKRQL-----ATGDEFYLMEDSRLVCKADYETAKQGGSGGSGGSGG 139

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

 Score = 46.0 bits (109), Expect = 2e-06
 Identities = 22/140 (15%), Positives = 33/140 (23%), Gaps = 45/140 (32%)

Query: 95  GKGCPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINA-CDGPDKDIYCKTCYG 152
           G  C  C   +   + V  A+   +H  CF C  C + L + +      D  + CK  Y 
Sbjct: 65  GTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADY- 123

Query: 153 KKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAE 212
                                                       K  G    GG+     
Sbjct: 124 -----------------------------------------ETAKQGGSGGSGGSG-GGT 141

Query: 213 QQLAKGTMWHKQCFSCNVCK 232
             +A     H      N  +
Sbjct: 142 PMVAASPERHDGGLQANPVE 161

>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 = 67.7 bits (165), Expect = 5e-15
 Identities = 19/76 (25%), Positives = 27/76 (35%), Gaps = 1/76 (1%)

Query: 87  TAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSIN-ACDGPDKDI 145
               +A  G  C  CG  ++  E++   G  +HR CF+C  C  TL          D   
Sbjct: 7   GQHQEAGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHF 66

Query: 146 YCKTCYGKKWGPHGYG 161
           YC     +       G
Sbjct: 67  YCLQHLPQTDSGPSSG 82

>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 = 63.4 bits (154), Expect = 2e-13
 Identities = 16/68 (23%), Positives = 25/68 (36%), Gaps = 1/68 (1%)

Query: 198 GEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSV-LACDGPDKEIYCKACYGK 256
           G+ C  CG  ++  E+    G  +H+ CF C+ C+  L          D   YC     +
Sbjct: 15  GDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQ 74

Query: 257 NFGPKGFG 264
                  G
Sbjct: 75  TDSGPSSG 82

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

 Score = 65.5 bits (160), Expect = 9e-14
 Identities = 32/166 (19%), Positives = 48/166 (28%), Gaps = 51/166 (30%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP 157
           C  C  ++F+ E   A+   WH K F C DC+  L         +    CK CY K    
Sbjct: 6   CAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAG-EIYVMVNDKPVCKPCYVKNHAV 64

Query: 158 HGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQL-A 216
                                                      C  C  A+    Q++  
Sbjct: 65  V------------------------------------------CQGCHNAIDPEVQRVTY 82

Query: 217 KGTMWH--KQCFSCNVCKRPL--DSVLACDGPDKEIYCKACYGKNF 258
               WH   +CF C+ C + L     +  +G    ++C     K  
Sbjct: 83  NNFSWHASTECFLCSCCSKCLIGQKFMPVEG---MVFCSVECKKRM 125

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

 Score = 53.2 bits (128), Expect = 3e-09
 Identities = 17/61 (27%), Positives = 23/61 (37%), Gaps = 1/61 (1%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGP 260
           C  C   +F+ E   A+   WH + F C  C   L         + +  CK CY KN   
Sbjct: 6   CAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGE-IYVMVNDKPVCKPCYVKNHAV 64

Query: 261 K 261
            
Sbjct: 65  V 65

>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 = 66.1 bits (161), Expect = 2e-13
 Identities = 36/164 (21%), Positives = 51/164 (31%), Gaps = 56/164 (34%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP 157
           C  C   +     + A    WH KC KC DC+  L     C    + +YCK  + K++G 
Sbjct: 63  CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLA--ERCFSRGESVYCKDDFFKRFGT 120

Query: 158 HGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQL-A 216
                                                      C  C   +   +    A
Sbjct: 121 K------------------------------------------CAACQLGIPPTQVVRRA 138

Query: 217 KGTMWHKQCFSCNVCKRPLDSVLACDG------PDKEIYCKACY 254
           +  ++H  CF+C VCKR L       G       D  + CKA Y
Sbjct: 139 QDFVYHLHCFACVVCKRQL-----ATGDEFYLMEDSRLVCKADY 177

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

 Score = 49.5 bits (118), Expect = 2e-07
 Identities = 18/61 (29%), Positives = 24/61 (39%), Gaps = 2/61 (3%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGP 260
           C  C   +       A    WH +C  C+ C  PL     C    + +YCK  + K FG 
Sbjct: 63  CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAER--CFSRGESVYCKDDFFKRFGT 120

Query: 261 K 261
           K
Sbjct: 121 K 121

>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 = 44.1 bits (104), Expect = 1e-05
 Identities = 16/61 (26%), Positives = 23/61 (37%), Gaps = 6/61 (9%)

Query: 95  GKGCPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTL---DSINACDGPDKDIYCKTC 150
           G  C  C   +   + V  A+   +H  CF C  C + L   D     +  D  + CK  
Sbjct: 119 GTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLME--DSRLVCKAD 176

Query: 151 Y 151
           Y
Sbjct: 177 Y 177

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

 Score = 62.4 bits (152), Expect = 5e-13
 Identities = 20/62 (32%), Positives = 32/62 (51%), Gaps = 2/62 (3%)

Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG 259
           C  C  A+ A +Q +  KGT+WHK CF+C+ CK+ + +        ++ YC  C+   F 
Sbjct: 18  CKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFP-KGEDFYCVTCHETKFA 76

Query: 260 PK 261
             
Sbjct: 77  SG 78

>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 = 60.1 bits (146), Expect = 3e-12
 Identities = 18/62 (29%), Positives = 31/62 (50%), Gaps = 2/62 (3%)

Query: 98  CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG 156
           C  C   + A +Q +  KG+ WH+ CF C +C + + + +      +D YC TC+  K+ 
Sbjct: 18  CKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFP-KGEDFYCVTCHETKFA 76

Query: 157 PH 158
             
Sbjct: 77  SG 78

>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 = 62.0 bits (151), Expect = 6e-13
 Identities = 20/62 (32%), Positives = 27/62 (43%), Gaps = 2/62 (3%)

Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG 259
           C  CG  V    ++L   G  WH+ CF C+ C++PL S  +        YC  CY   F 
Sbjct: 8   CSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSR-SFVPDKGAHYCVPCYENKFA 66

Query: 260 PK 261
             
Sbjct: 67  SG 68

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

 Score = 59.7 bits (145), Expect = 3e-12
 Identities = 19/62 (30%), Positives = 23/62 (37%), Gaps = 2/62 (3%)

Query: 98  CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG 156
           C  CG  V    + L   G  WH  CF C  C + L S +         YC  CY  K+ 
Sbjct: 8   CSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVP-DKGAHYCVPCYENKFA 66

Query: 157 PH 158
             
Sbjct: 67  SG 68

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

 Score = 60.9 bits (148), Expect = 1e-12
 Identities = 16/62 (25%), Positives = 30/62 (48%), Gaps = 2/62 (3%)

Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG 259
           C  C   +    +++  KG+ WH+ CF C+ C++P+ +  +    D + +C  CY K   
Sbjct: 8   CQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTK-SFIPKDNQNFCVPCYEKQHA 66

Query: 260 PK 261
             
Sbjct: 67  SG 68

>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 = 56.2 bits (136), Expect = 6e-11
 Identities = 16/61 (26%), Positives = 25/61 (40%), Gaps = 2/61 (3%)

Query: 98  CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG 156
           C  C   +    + +  KGS WH  CF C  C + + + +     D   +C  CY K+  
Sbjct: 8   CQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIP-KDNQNFCVPCYEKQHA 66

Query: 157 P 157
            
Sbjct: 67  S 67

>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 = 60.1 bits (145), Expect = 1e-11
 Identities = 18/81 (22%), Positives = 28/81 (34%), Gaps = 1/81 (1%)

Query: 180 SANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPL-DSV 238
           S      +           + C  CGG +       A  + WH +C  C+ C+  L D  
Sbjct: 43  SKLGGGGSGGHMGSGGLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIG 102

Query: 239 LACDGPDKEIYCKACYGKNFG 259
            +       I C+  Y + FG
Sbjct: 103 TSSYTKSGMILCRNDYIRLFG 123

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

 Score = 57.1 bits (137), Expect = 1e-10
 Identities = 19/67 (28%), Positives = 26/67 (38%), Gaps = 1/67 (1%)

Query: 91  KAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTL-DSINACDGPDKDIYCKT 149
                K C  CGG +     + A  S WH +C KC  C   L D   +       I C+ 
Sbjct: 57  GGLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRN 116

Query: 150 CYGKKWG 156
            Y + +G
Sbjct: 117 DYIRLFG 123

>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 = 59.0 bits (143), Expect = 1e-11
 Identities = 30/136 (22%), Positives = 41/136 (30%), Gaps = 45/136 (33%)

Query: 98  CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG 156
           C  C   + A  + +  K   WH  CF+C  C   L +       D  I C  C  ++  
Sbjct: 8   CVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLAN-ETFVAKDNKILCNKCTTREDS 66

Query: 157 PHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQL- 215
           P                                           C  C  A+ A +Q + 
Sbjct: 67  PK------------------------------------------CKGCFKAIVAGDQNVE 84

Query: 216 AKGTMWHKQCFSCNVC 231
            KGT+WHK CFS    
Sbjct: 85  YKGTVWHKDCFSGPSS 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 = 6e-09
 Identities = 18/62 (29%), Positives = 25/62 (40%), Gaps = 2/62 (3%)

Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG 259
           C  C   + A  +++  K   WH  CF C  C  PL +       D +I C  C  +   
Sbjct: 8   CVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLAN-ETFVAKDNKILCNKCTTREDS 66

Query: 260 PK 261
           PK
Sbjct: 67  PK 68

>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 = 57.8 bits (140), Expect = 2e-11
 Identities = 17/61 (27%), Positives = 21/61 (34%), Gaps = 2/61 (3%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGP 260
           C  C   +   +  LA    WH  CF C  C   L         D   YC++ Y   FG 
Sbjct: 18  CAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTG--EYISKDGVPYCESDYHAQFGS 75

Query: 261 K 261
            
Sbjct: 76  G 76

>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 = 56.3 bits (136), Expect = 8e-11
 Identities = 17/60 (28%), Positives = 27/60 (45%), Gaps = 2/60 (3%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP 157
           C  C   +   + +LA   +WH  CFKC+ C+  L         D   YC++ Y  ++G 
Sbjct: 18  CAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILT--GEYISKDGVPYCESDYHAQFGS 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 = 57.4 bits (139), Expect = 3e-11
 Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 2/61 (3%)

Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG 259
           C RC G    AE+ + + G ++H+QCF C  C +     L  +  +   YC+  +   F 
Sbjct: 14  CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYE-FEGRKYCEHDFQMLFA 72

Query: 260 P 260
           P
Sbjct: 73  P 73

>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 = 53.6 bits (129), Expect = 6e-10
 Identities = 15/61 (24%), Positives = 27/61 (44%), Gaps = 2/61 (3%)

Query: 98  CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG 156
           C RC G    AE+++ + G  +H +CF C  C +        +  +   YC+  +   + 
Sbjct: 14  CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYE-FEGRKYCEHDFQMLFA 72

Query: 157 P 157
           P
Sbjct: 73  P 73

>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 = 54.7 bits (132), Expect = 2e-10
 Identities = 18/62 (29%), Positives = 28/62 (45%), Gaps = 6/62 (9%)

Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDSVL--ACDGPDKEIYCKACYGKN 257
           C RC G    AE+ + + G ++H+QCF C  C +     L    +G     YC+  +   
Sbjct: 14  CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEG---RKYCEHDFQML 70

Query: 258 FG 259
           F 
Sbjct: 71  FA 72

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

 Score = 51.6 bits (124), Expect = 3e-09
 Identities = 15/60 (25%), Positives = 25/60 (41%), Gaps = 6/60 (10%)

Query: 98  CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSIN--ACDGPDKDIYCKTCYGKK 154
           C RC G    AE+++ + G  +H +CF C  C +          +G     YC+  +   
Sbjct: 14  CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEG---RKYCEHDFQML 70

>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 = 54.7 bits (132), Expect = 3e-10
 Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 3/62 (4%)

Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG 259
           C  C   +   ++ L A G  +H  CF+C VC R LD +        +I+C   + + F 
Sbjct: 18  CATCSQPI--LDRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFA 75

Query: 260 PK 261
             
Sbjct: 76  SG 77

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

 Score = 51.6 bits (124), Expect = 4e-09
 Identities = 16/61 (26%), Positives = 27/61 (44%), Gaps = 3/61 (4%)

Query: 98  CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG 156
           C  C   +   +++L A G  +H  CF C  C++ LD I         I+C   + +K+ 
Sbjct: 18  CATCSQPI--LDRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFA 75

Query: 157 P 157
            
Sbjct: 76  S 76

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

 Score = 53.3 bits (128), Expect = 1e-09
 Identities = 16/62 (25%), Positives = 24/62 (38%), Gaps = 2/62 (3%)

Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG 259
           C  C   +    ++L  +   +H+ CF C  C+R L         D E+ C  CY   F 
Sbjct: 18  CAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADE-PFTCQDSELLCNDCYCSAFS 76

Query: 260 PK 261
             
Sbjct: 77  SG 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 = 48.6 bits (116), Expect = 5e-08
 Identities = 13/61 (21%), Positives = 24/61 (39%), Gaps = 2/61 (3%)

Query: 98  CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG 156
           C  C  ++    + L  +   +H  CF+C  C ++L         D ++ C  CY   + 
Sbjct: 18  CAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLAD-EPFTCQDSELLCNDCYCSAFS 76

Query: 157 P 157
            
Sbjct: 77  S 77

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

 Score = 51.2 bits (123), Expect = 3e-09
 Identities = 15/64 (23%), Positives = 22/64 (34%), Gaps = 2/64 (3%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGP 260
           C +C  A+ +      +   WH  CF C  C + L         + + YC  CY      
Sbjct: 8   CVKCNKAITS-GGITYQDQPWHADCFVCVTCSKKLAGQ-RFTAVEDQYYCVDCYKNFVSG 65

Query: 261 KGFG 264
              G
Sbjct: 66  PSSG 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 = 50.1 bits (120), Expect = 1e-08
 Identities = 15/64 (23%), Positives = 22/64 (34%), Gaps = 2/64 (3%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP 157
           C +C   + +   +  +   WH  CF C  C+K L         +   YC  CY      
Sbjct: 8   CVKCNKAITS-GGITYQDQPWHADCFVCVTCSKKLAG-QRFTAVEDQYYCVDCYKNFVSG 65

Query: 158 HGYG 161
              G
Sbjct: 66  PSSG 69

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

 Score = 50.8 bits (122), Expect = 5e-09
 Identities = 14/61 (22%), Positives = 22/61 (36%), Gaps = 2/61 (3%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGP 260
           C +C   +        +   WHK+CF C  C++ L         D   YC  C+   +  
Sbjct: 8   CVQCKKPITTGGVT-YREQPWHKECFVCTACRKQLSGQ-RFTARDDFAYCLNCFCDLYAS 65

Query: 261 K 261
            
Sbjct: 66  G 66

>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 = 49.3 bits (118), Expect = 2e-08
 Identities = 15/60 (25%), Positives = 22/60 (36%), Gaps = 2/60 (3%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP 157
           C +C   +     V  +   WH++CF C  C K L         D   YC  C+   +  
Sbjct: 8   CVQCKKPITT-GGVTYREQPWHKECFVCTACRKQLSG-QRFTARDDFAYCLNCFCDLYAS 65

>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 = 50.8 bits (121), Expect = 2e-08
 Identities = 19/71 (26%), Positives = 28/71 (39%), Gaps = 1/71 (1%)

Query: 198 GEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPL-DSVLACDGPDKEIYCKACYGK 256
            + C  CGG +       A  + WH +C  C+ C+  L D   +       I C+  Y +
Sbjct: 5   WKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIR 64

Query: 257 NFGPKGFGYGH 267
            FG  G G   
Sbjct: 65  LFGNSGAGGSG 75

>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 = 49.2 bits (117), Expect = 7e-08
 Identities = 21/68 (30%), Positives = 28/68 (41%), Gaps = 1/68 (1%)

Query: 95  GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTL-DSINACDGPDKDIYCKTCYGK 153
            K C  CGG +     + A  S WH +C KC  C   L D   +       I C+  Y +
Sbjct: 5   WKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIR 64

Query: 154 KWGPHGYG 161
            +G  G G
Sbjct: 65  LFGNSGAG 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 = 48.2 bits (115), Expect = 5e-08
 Identities = 15/59 (25%), Positives = 23/59 (38%), Gaps = 2/59 (3%)

Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNF 258
           C  CG  V      + A   ++H  CF C+ C+  L         ++  YC+ CY    
Sbjct: 8   CGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQ-HFYAVERRAYCEGCYVATL 65

>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 = 47.1 bits (112), Expect = 1e-07
 Identities = 16/64 (25%), Positives = 22/64 (34%), Gaps = 3/64 (4%)

Query: 92  AAPGKG-CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKT 149
            + G   C  CG  V      + A    +H  CF C  C   L         ++  YC+ 
Sbjct: 1   GSSGSSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRG-QHFYAVERRAYCEG 59

Query: 150 CYGK 153
           CY  
Sbjct: 60  CYVA 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 = 47.7 bits (114), Expect = 6e-08
 Identities = 15/60 (25%), Positives = 21/60 (35%), Gaps = 2/60 (3%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGP 260
           C  C   +       A G  WH + F C  C++P              YC+  Y + FG 
Sbjct: 8   CGACRRPI-EGRVVNAMGKQWHVEHFVCAKCEKPFLGH-RHYERKGLAYCETHYNQLFGD 65

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

 Score = 46.5 bits (111), Expect = 2e-07
 Identities = 16/60 (26%), Positives = 23/60 (38%), Gaps = 2/60 (3%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP 157
           C  C   +     V A G +WH + F C  C K        +      YC+T Y + +G 
Sbjct: 8   CGACRRPI-EGRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYE-RKGLAYCETHYNQLFGD 65

>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 = 47.9 bits (114), Expect = 8e-08
 Identities = 16/66 (24%), Positives = 24/66 (36%), Gaps = 4/66 (6%)

Query: 95  GKGCPRCG---GVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
             GC  C      +   + +  +  +WH  CF C+ C+ +L           DI C  C 
Sbjct: 5   SSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVG-RGFLTERDDILCPDCG 63

Query: 152 GKKWGP 157
               GP
Sbjct: 64  KDISGP 69

>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 = 47.5 bits (113), Expect = 1e-07
 Identities = 14/64 (21%), Positives = 18/64 (28%), Gaps = 4/64 (6%)

Query: 201 CPRCGGAVFAAEQQ---LAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKN 257
           C  C   +           +   WH  CF+C  C   L           +I C  C    
Sbjct: 8   CAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGR-GFLTERDDILCPDCGKDI 66

Query: 258 FGPK 261
            GP 
Sbjct: 67  SGPS 70

>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 = 47.7 bits (114), Expect = 8e-08
 Identities = 17/65 (26%), Positives = 26/65 (40%), Gaps = 10/65 (15%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGP----DKEIYCKACYGK 256
           C RC   +        +   WH++C  C  C+ PL             D++ YC AC+G+
Sbjct: 18  CARCSKTLTQGGVT-YRDQPWHRECLVCTGCQTPLA-----GQQFTSRDEDPYCVACFGE 71

Query: 257 NFGPK 261
            F   
Sbjct: 72  LFASG 76

>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 = 46.2 bits (110), Expect = 3e-07
 Identities = 17/60 (28%), Positives = 24/60 (40%), Gaps = 2/60 (3%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP 157
           C RC   +     V  +   WHR+C  C  C   L         D+D YC  C+G+ +  
Sbjct: 18  CARCSKTLTQ-GGVTYRDQPWHRECLVCTGCQTPLAG-QQFTSRDEDPYCVACFGELFAS 75

>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 = 47.1 bits (112), Expect = 2e-07
 Identities = 17/88 (19%), Positives = 29/88 (32%), Gaps = 8/88 (9%)

Query: 180 SANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDSV 238
               P    +  +  A++   C +CG  +      + A+    H +CF C  C   L   
Sbjct: 7   GVRAPVTKVHGGAGSAQRMPLCDKCGSGI--VGAVVKARDKYRHPECFVCADCNLNLKQK 64

Query: 239 --LACDGPDKEIYCKACYGKNFGPKGFG 264
                +G   E+YC+            G
Sbjct: 65  GYFFVEG---ELYCETHARARTSGPSSG 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 = 44.8 bits (106), Expect = 1e-06
 Identities = 16/60 (26%), Positives = 24/60 (40%), Gaps = 2/60 (3%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP 157
           C +CG  +     V A+    H +CF C DCN  L          + +YC+T    +   
Sbjct: 28  CDKCGSGI-VGAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGE-LYCETHARARTSG 85

>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 = 46.3 bits (110), Expect = 2e-07
 Identities = 13/61 (21%), Positives = 23/61 (37%), Gaps = 2/61 (3%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGP 260
           C +CG  +       A    WH +CF C++C+  L  +           C+ C+ +    
Sbjct: 8   CHQCGEFIIG-RVIKAMNNSWHPECFRCDLCQEVLADIGFVK-NAGRHLCRPCHNREKAS 65

Query: 261 K 261
            
Sbjct: 66  G 66

>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 = 44.7 bits (106), Expect = 7e-07
 Identities = 14/59 (23%), Positives = 25/59 (42%), Gaps = 2/59 (3%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG 156
           C +CG  +     + A  + WH +CF+C  C + L  I           C+ C+ ++  
Sbjct: 8   CHQCGEFIIG-RVIKAMNNSWHPECFRCDLCQEVLADIGFVK-NAGRHLCRPCHNREKA 64

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

 Score = 47.0 bits (111), Expect = 3e-07
 Identities = 13/65 (20%), Positives = 19/65 (29%), Gaps = 1/65 (1%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINA-CDGPDKDIYCKTCYGKKWG 156
           C  C   +     + A    WH  C  C  C   L  +            C+  Y +  G
Sbjct: 6   CGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGG 65

Query: 157 PHGYG 161
             G+ 
Sbjct: 66  SGGHM 70

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

 Score = 44.7 bits (105), Expect = 2e-06
 Identities = 16/75 (21%), Positives = 23/75 (30%), Gaps = 1/75 (1%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLA-CDGPDKEIYCKACYGKNFG 259
           C  C   +       A    WH+ C SC++C   L  V            C+  Y +  G
Sbjct: 6   CGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGG 65

Query: 260 PKGFGYGHSPTLVST 274
             G        +V  
Sbjct: 66  SGGHMGSGGDVMVVG 80

>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 = 45.9 bits (109), Expect = 4e-07
 Identities = 17/63 (26%), Positives = 24/63 (38%), Gaps = 5/63 (7%)

Query: 95  GKGCPRCG----GVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTC 150
            K C  C     G    +  V  +G  WH  CF C+ C+  L +        + +YC  C
Sbjct: 15  AKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLAN-KRFVFHQEQVYCPDC 73

Query: 151 YGK 153
             K
Sbjct: 74  AKK 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 = 42.9 bits (101), Expect = 5e-06
 Identities = 14/60 (23%), Positives = 21/60 (35%), Gaps = 5/60 (8%)

Query: 201 CPRCGGAVFAAEQQL----AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGK 256
           C  C   +    +       +G  WH  CF C  C   L +        +++YC  C  K
Sbjct: 18  CAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANK-RFVFHQEQVYCPDCAKK 76

>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 = 45.9 bits (109), Expect = 4e-07
 Identities = 17/60 (28%), Positives = 26/60 (43%), Gaps = 2/60 (3%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP 157
           C  C  V+     ++A G  WH + F C  C  T+  I   +     +YC+ CY K +  
Sbjct: 28  CAHCNQVI-RGPFLVALGKSWHPEEFNCAHCKNTMAYIGFVE-EKGALYCELCYEKFFAS 85

>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 = 45.9 bits (109), Expect = 5e-07
 Identities = 16/61 (26%), Positives = 25/61 (40%), Gaps = 2/61 (3%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGP 260
           C  C   +      +A G  WH + F+C  CK  +  +   +     +YC+ CY K F  
Sbjct: 28  CAHCNQVI-RGPFLVALGKSWHPEEFNCAHCKNTMAYIGFVE-EKGALYCELCYEKFFAS 85

Query: 261 K 261
            
Sbjct: 86  G 86

>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 = 44.6 bits (106), Expect = 1e-06
 Identities = 16/65 (24%), Positives = 20/65 (30%), Gaps = 10/65 (15%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGP----DKEIYCKACYGK 256
           C  C   V       A  T+WH +CF C  C           G     D   +C+  Y  
Sbjct: 18  CGGCNRPVLE-NYLSAMDTVWHPECFVCGDCFTSFS-----TGSFFELDGRPFCELHYHH 71

Query: 257 NFGPK 261
             G  
Sbjct: 72  RRGSG 76

>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 = 43.1 bits (102), Expect = 5e-06
 Identities = 16/67 (23%), Positives = 23/67 (34%), Gaps = 10/67 (14%)

Query: 95  GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGP----DKDIYCKTC 150
              C  C   V     + A  + WH +CF C DC  +        G     D   +C+  
Sbjct: 15  SPKCGGCNRPVLE-NYLSAMDTVWHPECFVCGDCFTSFS-----TGSFFELDGRPFCELH 68

Query: 151 YGKKWGP 157
           Y  + G 
Sbjct: 69  YHHRRGS 75

>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 = 44.8 bits (106), Expect = 1e-06
 Identities = 15/57 (26%), Positives = 20/57 (35%), Gaps = 1/57 (1%)

Query: 95  GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
           G  C  C   +   E V A G  +H  CF C  C       +      K+  C+ C 
Sbjct: 15  GTRCFSCDQFI-EGEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCS 70

>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 = 41.7 bits (98), Expect = 1e-05
 Identities = 16/54 (29%), Positives = 20/54 (37%), Gaps = 1/54 (1%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACY 254
           C  C   +   E   A G  +H  CF C VC+ P           KE  C+ C 
Sbjct: 18  CFSCDQFI-EGEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCS 70

>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 = 43.6 bits (103), Expect = 2e-06
 Identities = 14/69 (20%), Positives = 22/69 (31%), Gaps = 3/69 (4%)

Query: 91  KAAPGKGCPRCG--GVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCK 148
                +  P C   G       V  +    H +C+ C DC   L         D+ IYC+
Sbjct: 8   SIGNAQKLPMCDKCGTGIVGVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQ-IYCE 66

Query: 149 TCYGKKWGP 157
               ++   
Sbjct: 67  KHARERVSG 75

>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 = 42.0 bits (99), Expect = 1e-05
 Identities = 11/62 (17%), Positives = 21/62 (33%), Gaps = 4/62 (6%)

Query: 201 CPRCGGAVFAAEQQL-AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG 259
           C +CG  +      +  +    H +C+ C  C   L         + +IYC+    +   
Sbjct: 18  CDKCGTGI--VGVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFV-EDQIYCEKHARERVS 74

Query: 260 PK 261
             
Sbjct: 75  GP 76

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

 Score = 42.9 bits (101), Expect = 5e-06
 Identities = 16/62 (25%), Positives = 28/62 (45%), Gaps = 4/62 (6%)

Query: 95  GKGCPRCG---GVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 151
             GC  C      +  A+ +  + S+WH +CF C  C+ +L         +K+I+C+ C 
Sbjct: 5   SSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVG-KGFLTQNKEIFCQKCG 63

Query: 152 GK 153
             
Sbjct: 64  SG 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 = 40.2 bits (94), Expect = 4e-05
 Identities = 14/59 (23%), Positives = 22/59 (37%), Gaps = 4/59 (6%)

Query: 201 CPRCGGAVFAAEQQL---AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGK 256
           C  C   +           + + WH +CF+C  C   L         +KEI+C+ C   
Sbjct: 8   CVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGK-GFLTQNKEIFCQKCGSG 65

>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 = 42.5 bits (100), Expect = 7e-06
 Identities = 15/67 (22%), Positives = 25/67 (37%), Gaps = 2/67 (2%)

Query: 196 RKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPL-DSVLACDGPDKEIYCKACY 254
           + GE C  C   +      +A    +H +CF+C  CK  + D           +YC  C+
Sbjct: 13  KFGEFCHGCSLLM-TGPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCH 71

Query: 255 GKNFGPK 261
            +     
Sbjct: 72  NEVVSGP 78

>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 = 40.9 bits (96), Expect = 2e-05
 Identities = 14/68 (20%), Positives = 28/68 (41%), Gaps = 2/68 (2%)

Query: 95  GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINA-CDGPDKDIYCKTCYGK 153
           G+ C  C  ++     ++A   ++H +CF C  C   ++  +A        +YC  C+ +
Sbjct: 15  GEFCHGCSLLM-TGPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNE 73

Query: 154 KWGPHGYG 161
                  G
Sbjct: 74  VVSGPSSG 81

>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 = 41.3 bits (97), Expect = 2e-05
 Identities = 13/56 (23%), Positives = 25/56 (44%), Gaps = 3/56 (5%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGK 153
           C +C  ++   + ++ K   +H   F C +C K L +         ++YC  C+ K
Sbjct: 18  CQKCHAII-DEQPLIFKNDPYHPDHFNCANCGKELTAD--ARELKGELYCLPCHDK 70

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

 Score = 40.9 bits (96), Expect = 2e-05
 Identities = 15/65 (23%), Positives = 25/65 (38%), Gaps = 4/65 (6%)

Query: 196 RKGEGCPRCGG--AVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKAC 253
            +G G   C    A+   +  + K   +H   F+C  C + L +         E+YC  C
Sbjct: 10  ARGLGKYICQKCHAIIDEQPLIFKNDPYHPDHFNCANCGKELTAD--ARELKGELYCLPC 67

Query: 254 YGKNF 258
           + K  
Sbjct: 68  HDKMG 72

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	281
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.96
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.94
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.94
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.93
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.93
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.92
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.88
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.8
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.75
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.75
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.75
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.74
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	99.74
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.72
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.72
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.66
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.65
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.63
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	99.6
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	99.6
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	99.59
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.59
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.58
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	99.58
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.57
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	99.57
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	99.55
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	99.55
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.55
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	99.55
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	99.54
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	99.54
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.54
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.54
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.54
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	99.54
2co8_A	82	NEDD9 interacting protein with calponin homology a	99.53
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.53
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.53
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.53
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.52
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.52
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.52
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	99.52
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	99.52
2co8_A	82	NEDD9 interacting protein with calponin homology a	99.51
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	99.51
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	99.51
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	99.51
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.51
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.51
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	99.51
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.5
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	99.5
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	99.49
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	99.49
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.49
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	99.48
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	99.48
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	99.48
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	99.47
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.47
2cor_A	79	Pinch protein; LIM domain, particularly interestin	99.46
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.46
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	99.45
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.44
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.43
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	99.43
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	99.42
2cor_A	79	Pinch protein; LIM domain, particularly interestin	99.42
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	99.41
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	99.41
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	99.41
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	99.41
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	99.41
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	99.4
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.4
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	99.39
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	99.39
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	99.36
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.34
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	99.34
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	99.3
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	99.27
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	98.21
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	98.07
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	88.5

>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=1.7e-30  Score=219.33  Aligned_cols=175  Identities=47%  Similarity=0.975  Sum_probs=134.0

Q ss_pred             CCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCCCCCcccCCcccccCCC
Q psy16551         95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGL  174 (281)
Q Consensus        95 ~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~~~~~c~~~~~~~~~~  174 (281)
                      .+.|.+|+++|+.++.+.++++.||++||+|..|+++|....++ .++|++||+.||.++|++++++.+-..+.+..|..
T Consensus         7 ~~~C~~C~~~I~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~cy~~~f~~~c~~c~~~~g~~~~~~~   85 (192)
T 1b8t_A            7 GKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVA-VHGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTDKG   85 (192)
T ss_dssp             CEECTTTCCEECSSCCEEETTEEECTTTCBCTTTCCBCCSSSEE-EETTEEEEHHHHHHHHSCCCCCCCCCCCCCCCCCC
T ss_pred             CCcCccCCCeecceeEEEeCCceecCCCCcCcccCCcCCCCeeE-ecCCEeeChhhhHhhcCccccccccccccEecCCC
Confidence            46799999999888899999999999999999999999987766 49999999999999999987654322333322221


Q ss_pred             c-----cccccCCCCCcCCCCc--cccCCCCCCCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCc
Q psy16551        175 T-----EDEISANRPFYNPNTT--SIMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKE  247 (281)
Q Consensus       175 ~-----~~~~~~~~~~~~~~~~--~~~~~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~  247 (281)
                      .     ........| .....+  .-..++..+|++|+++|..++.+.++++.||++||+|..|+++|....++ ..+|+
T Consensus        86 ~~~~~~~~~~~~~~p-~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~  163 (192)
T 1b8t_A           86 ESLGIKYEEGQSHRP-TNPNASRMAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLA-DKDGE  163 (192)
T ss_dssp             CCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCEECTTTSCEECSSSCEEETTEEECTTTCBCTTTCCBCCSSSEE-EETTE
T ss_pred             cccccccccccccCC-CCcCccccccccCCCCcCCCCCCEecCcEEEecCCCccchhcCCccccCCCCCCCccc-ccCCE
Confidence            0     000111111 000000  01113455799999999888888899999999999999999999776664 79999


Q ss_pred             ccChhhhccccCCCCCcCCCCCccc
Q psy16551        248 IYCKACYGKNFGPKGFGYGHSPTLV  272 (281)
Q Consensus       248 ~~C~~c~~~~f~~~c~~c~~~~~~~  272 (281)
                      +||+.||.++|+++|.+|+.+++..
T Consensus       164 ~yC~~cy~~~f~~kc~~C~~~~g~~  188 (192)
T 1b8t_A          164 IYCKGCYAKNFGPKGFGFGQGAGAL  188 (192)
T ss_dssp             EEEHHHHHHHTCCCCCCCCCCCCCC
T ss_pred             EeCHHHHHHhcCCcCCCCCCcccce
Confidence            9999999999999999999986433

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

Probab=99.94  E-value=2.8e-28  Score=193.31  Aligned_cols=127  Identities=20%  Similarity=0.358  Sum_probs=108.3

Q ss_pred             CCCCcCCCccccccceeeccCcccccCceeccccCCCCCC--CCeeeCCCCcccCccchhhccCCCCCCcccCCcccccC
Q psy16551         95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDS--INACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTD  172 (281)
Q Consensus        95 ~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~--~~~~~~~~g~~~C~~cy~~~~~~~~~~~~c~~~~~~~~  172 (281)
                      .++|++|+++|.+.+.+.++++.||++||+|..|+.+|..  ..++ .++|++||+.||.++|++++             
T Consensus         2 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~-~~~g~~yC~~~y~~~~~~~~-------------   67 (131)
T 2xjy_A            2 LLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLY-YKLGRKLCRRDYLRLFGQDG-------------   67 (131)
T ss_dssp             CCBBTTTCCBCCSSEEEEETTEEEETTTCBCTTTCCBCSSTTCCEE-EETTEEECHHHHHHHHCCCE-------------
T ss_pred             cccCcCCCCEeCCcEEEEECCCcccHHHcccCcCCCccccCCCeEE-EECCEEeecCchhhhCCCcc-------------
Confidence            4679999999987767899999999999999999999973  4555 59999999999999997621             


Q ss_pred             CCccccccCCCCCcCCCCccccCCCCCCCCCCCCcccccc-eeeecCcccccccccccccCCCCCCCccccCCCCcccCh
Q psy16551        173 GLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAE-QQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCK  251 (281)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~-~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~  251 (281)
                                                 +|++|+++|...+ .+.++++.||++||+|..|+++|..+..+...+|++||.
T Consensus        68 ---------------------------~C~~C~~~I~~~e~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~C~  120 (131)
T 2xjy_A           68 ---------------------------LCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCE  120 (131)
T ss_dssp             ---------------------------ECTTTCCEECTTSEEEEETTEEEEGGGCBCTTTCCBCCTTCEEEEETTEEEEG
T ss_pred             ---------------------------ChhhcCCccCccceeEeeCCceECccCcccCCCCCCCCCCCEEEEECCEEEcH
Confidence                                       7999999998755 456899999999999999999995433334689999999


Q ss_pred             hhhccccCCCC
Q psy16551        252 ACYGKNFGPKG  262 (281)
Q Consensus       252 ~c~~~~f~~~c  262 (281)
                      .||.++|++++
T Consensus       121 ~c~~~~~~~~~  131 (131)
T 2xjy_A          121 QDIYEWTKING  131 (131)
T ss_dssp             GGHHHHHHHHC
T ss_pred             HHHHHHhhccC
Confidence            99999988653

>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=99.94  E-value=7.7e-28  Score=202.40  Aligned_cols=134  Identities=25%  Similarity=0.555  Sum_probs=108.1

Q ss_pred             CCCCCcCCCccccccceeeccCcccccCceeccccCCCCCC--CCeeeCCCCcccCccchhhccCCCCCCcccCCccccc
Q psy16551         94 PGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDS--INACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQT  171 (281)
Q Consensus        94 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~--~~~~~~~~g~~~C~~cy~~~~~~~~~~~~c~~~~~~~  171 (281)
                      ..+.|++|+++|.+.+++.++++.||++||+|..|+++|..  ..++ .++|++||+.||.++|+++             
T Consensus         4 ~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~-~~~g~~yC~~cy~~~~~~~-------------   69 (188)
T 1rut_X            4 SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSY-TKSGMILCRNDYIRLFGNS-------------   69 (188)
T ss_dssp             CCCBBTTTCCBCCCSEEEEETTEEECGGGCBCTTTCCBHHHHCSEEE-EETTEEECHHHHHHHHSCC-------------
T ss_pred             CCCcCccCCCEeCCceeEEecCcEecccCcccCCCCcccccCCceEE-EeCCccccccccccccccC-------------
Confidence            35789999999987767899999999999999999999985  4444 5999999999999999862             


Q ss_pred             CCCccccccCCCCCcCCCCccccCCCCCCCCCCCCcccccce-eeecCcccccccccccccCCCCCCCccccCCCCcccC
Q psy16551        172 DGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQ-QLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYC  250 (281)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~-v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C  250 (281)
                                                 .+|++|+++|...+. +.+.++.||++||+|..|++.|..+..+...++++||
T Consensus        70 ---------------------------~~C~~C~~~I~~~e~~i~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~g~~yC  122 (188)
T 1rut_X           70 ---------------------------GACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFC  122 (188)
T ss_dssp             ---------------------------EECTTTCCEECTTSEEEEETTEEECGGGCBCTTTCCBCCTTCEEEEETTEEEE
T ss_pred             ---------------------------CccccCCCccccCcEEEEcCCCEEeCCCCeECCCCCCCCCCCeEEEECCeEEC
Confidence                                       169999999987664 4599999999999999999999644333468999999


Q ss_pred             hhhhccccCCCCCcCCCC
Q psy16551        251 KACYGKNFGPKGFGYGHS  268 (281)
Q Consensus       251 ~~c~~~~f~~~c~~c~~~  268 (281)
                      ..||.++|+++|.+.+.+
T Consensus       123 ~~c~~~~~~~~~~~~g~~  140 (188)
T 1rut_X          123 EHDRPTALINGHLNSGGS  140 (188)
T ss_dssp             GGGCCTTTC---------
T ss_pred             HHHHHHHhcccccccCCC
Confidence            999999999999887664

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

Probab=99.93  E-value=3.3e-27  Score=185.94  Aligned_cols=121  Identities=25%  Similarity=0.536  Sum_probs=108.3

Q ss_pred             CCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCCCCCcccCCcccccCCC
Q psy16551         95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGL  174 (281)
Q Consensus        95 ~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~~~~~c~~~~~~~~~~  174 (281)
                      .+.|++|+++|++++.+.++|+.||++||+|..|+++|.+..++ .++|++||+.||.++|++                 
T Consensus         3 ~~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~-~~~g~~yC~~cy~~~~~~-----------------   64 (126)
T 2xqn_T            3 KPRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYV-MVNDKPVCKPCYVKNHAV-----------------   64 (126)
T ss_dssp             CCBBTTTSSBCCSSCEEEETTEEECGGGSBCTTTCCBCTTSEEE-EETTEEEEHHHHHHHSCC-----------------
T ss_pred             CCCCccCCCEeCCceEEeeCCCCccCCCCCcCCCCCCCCcCEEE-eECCEEechHHhCcCcCc-----------------
Confidence            47899999999888889999999999999999999999977665 499999999999999988                 


Q ss_pred             ccccccCCCCCcCCCCccccCCCCCCCCCCCCcccccc-eeeecCcccc--cccccccccCCCCCCCccccCCCCcccCh
Q psy16551        175 TEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAE-QQLAKGTMWH--KQCFSCNVCKRPLDSVLACDGPDKEIYCK  251 (281)
Q Consensus       175 ~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~-~v~~~g~~~H--~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~  251 (281)
                                               +|++|+++|...+ .+.++++.||  ++||+|..|+++|.+..|+ ..+|++||.
T Consensus        65 -------------------------~C~~C~~~I~~~~~~~~a~~~~~H~~~~CF~C~~C~~~l~~~~f~-~~~~~~yC~  118 (126)
T 2xqn_T           65 -------------------------VCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFM-PVEGMVFCS  118 (126)
T ss_dssp             -------------------------BCTTTCSBCCTTSCEEEETTEEEESSTTTSBCTTTCCBCTTSEEE-EETTEEESS
T ss_pred             -------------------------cCcccCCcCCcCceEEECCCCEeeCCCCCcCcCCCCCccCCCeeE-eECCEEcch
Confidence                                     8999999998644 5669999999  9999999999999866654 689999999


Q ss_pred             hhhccccC
Q psy16551        252 ACYGKNFG  259 (281)
Q Consensus       252 ~c~~~~f~  259 (281)
                      .+|.++|.
T Consensus       119 ~~~~~~f~  126 (126)
T 2xqn_T          119 VECKKRMS  126 (126)
T ss_dssp             HHHHHSCC
T ss_pred             HHhhhhcC
Confidence            88888763

>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=2.1e-26  Score=190.42  Aligned_cols=124  Identities=27%  Similarity=0.541  Sum_probs=108.7

Q ss_pred             CCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCCCCCcccCCcccccCCC
Q psy16551         95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGL  174 (281)
Q Consensus        95 ~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~~~~~c~~~~~~~~~~  174 (281)
                      .+.|++|+++|++.+++.++|+.||++||+|..|+++|.+..|  .++|++||+.||.++|++                 
T Consensus         6 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f--~~~g~~yC~~~y~~~f~~-----------------   66 (169)
T 2rgt_A            6 IPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF--SRGESVYCKDDFFKRFGT-----------------   66 (169)
T ss_dssp             -CBBSSSSSBCCSSSCEECSSCEECTTTSBCTTTCCBCCSCCE--ESSSCEECHHHHHHHHSC-----------------
T ss_pred             CCccccCCCccCCcEEEEECCcEEccccCccCCCCCcCCCCCc--ccCCeeeecccccccccc-----------------
Confidence            4789999999988777889999999999999999999998764  499999999999999988                 


Q ss_pred             ccccccCCCCCcCCCCccccCCCCCCCCCCCCccccccee-eecCcccccccccccccCCCCCC-CccccCCCCcccChh
Q psy16551        175 TEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQ-LAKGTMWHKQCFSCNVCKRPLDS-VLACDGPDKEIYCKA  252 (281)
Q Consensus       175 ~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v-~~~g~~~H~~Cf~C~~C~~~L~~-~~~~~~~~g~~~C~~  252 (281)
                                               +|++|+++|...+.+ .+.++.||++||+|..|++.|.. ..++...+|++||..
T Consensus        67 -------------------------~C~~C~~~I~~~~~v~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~~C~~  121 (169)
T 2rgt_A           67 -------------------------KCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKA  121 (169)
T ss_dssp             -------------------------BCTTTCCBCCTTSEEEEETTEEEEGGGCBCTTTCCBCCTTCEEEECTTSCEEEHH
T ss_pred             -------------------------cccccccccCCCcEEEEcCCceEeeCCCcCCCCCCCCCCCCceEEccCCeEECHH
Confidence                                     899999999877755 58999999999999999999974 445456799999999


Q ss_pred             hhccccCCCC
Q psy16551        253 CYGKNFGPKG  262 (281)
Q Consensus       253 c~~~~f~~~c  262 (281)
                      ||.+++...+
T Consensus       122 c~~~~~~~~~  131 (169)
T 2rgt_A          122 DYETAKQGGS  131 (169)
T ss_dssp             HHHHHHHCC-
T ss_pred             HHHHHhhccC
Confidence            9999887644

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

Probab=99.92  E-value=6.4e-26  Score=189.71  Aligned_cols=121  Identities=28%  Similarity=0.572  Sum_probs=106.4

Q ss_pred             CCCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCCCCCcccCCcccccC
Q psy16551         93 APGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTD  172 (281)
Q Consensus        93 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~~~~~c~~~~~~~~  172 (281)
                      ...+.|++|+++|++.+++.++++.||++||+|..|+++|....|  .++|++||+.||.++|++               
T Consensus        58 ~~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f--~~~g~~yC~~~y~~~f~~---------------  120 (182)
T 2jtn_A           58 PEIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF--SRGESVYCKDDFFKRFGT---------------  120 (182)
T ss_dssp             CSCCBCBTSSSBCCCSEEEEETTEEECSSTTSCTTTCCCCSSCCE--EETTEEECHHHHHHTTSC---------------
T ss_pred             CCCCcCccCCCCccCceeEEecCCeEccccCccCCCCCccCCCce--eECCEeeecCcccccccc---------------
Confidence            346899999999988777889999999999999999999998764  489999999999999988               


Q ss_pred             CCccccccCCCCCcCCCCccccCCCCCCCCCCCCccccccee-eecCcccccccccccccCCCCCC-CccccCCCCcccC
Q psy16551        173 GLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQ-LAKGTMWHKQCFSCNVCKRPLDS-VLACDGPDKEIYC  250 (281)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v-~~~g~~~H~~Cf~C~~C~~~L~~-~~~~~~~~g~~~C  250 (281)
                                                 +|..|+++|...+.+ .+.++.||++||+|..|+++|.. ..++...+|++||
T Consensus       121 ---------------------------kC~~C~~~I~~~~~v~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~yC  173 (182)
T 2jtn_A          121 ---------------------------KCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVC  173 (182)
T ss_dssp             ---------------------------CCTTTCCCCCSSCCCCEETTEECCTTTCCCTTTCCCCCTTCEEEECTTSCEEC
T ss_pred             ---------------------------ccccCCCccCCCceEEecCCCCEEeCCCcCCCCCCCCCCCCceEEccCCEEEC
Confidence                                       899999999876654 58999999999999999999974 4454567999999


Q ss_pred             hhhhccc
Q psy16551        251 KACYGKN  257 (281)
Q Consensus       251 ~~c~~~~  257 (281)
                      ..||.++
T Consensus       174 ~~cy~~~  180 (182)
T 2jtn_A          174 KADYETA  180 (182)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9999764

>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=99.88  E-value=3.7e-23  Score=156.45  Aligned_cols=96  Identities=32%  Similarity=0.692  Sum_probs=86.4

Q ss_pred             CCCCCcCCCccccc-cceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCCCCCcccCCcccccC
Q psy16551         94 PGKGCPRCGGVVFA-AEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTD  172 (281)
Q Consensus        94 ~~~~C~~C~~~I~~-~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~~~~~c~~~~~~~~  172 (281)
                      ..+.|.+|+++|+. ++++.++++.||++||+|..|+++|.+..++ .++|++||+.||.++|++               
T Consensus         4 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~cy~~~~~~---------------   67 (101)
T 2cup_A            4 GSSGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFV-AKDNKILCNKCTTREDSP---------------   67 (101)
T ss_dssp             CCCBCSSSCCBCCSSSCEEEETTEEEETTTCCCSSSCCCTTSSCCE-EETTEEECHHHHTTCCCC---------------
T ss_pred             CCCcCcccCCcccCCceEEEECccChhhcCCcccccCCCCCcCeeE-CcCCEEEChhHhhhhcCC---------------
Confidence            45789999999974 7889999999999999999999999876666 499999999999999988               


Q ss_pred             CCccccccCCCCCcCCCCccccCCCCCCCCCCCCcccccc-eeeecCcccccccccccccC
Q psy16551        173 GLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAE-QQLAKGTMWHKQCFSCNVCK  232 (281)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~-~v~~~g~~~H~~Cf~C~~C~  232 (281)
                                                 +|++|+++|..++ .+.++++.||++||+|..|+
T Consensus        68 ---------------------------~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~  101 (101)
T 2cup_A           68 ---------------------------KCKGCFKAIVAGDQNVEYKGTVWHKDCFSGPSSG  101 (101)
T ss_dssp             ---------------------------BCSSSCCBCCSSSCEEESSSCEEETTTCCCTTCC
T ss_pred             ---------------------------ccccCCCccccCCeEEEeCCcchHHhCCCCCCCC
Confidence                                       8999999998665 56699999999999999985

>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=99.80  E-value=2.6e-20  Score=145.71  Aligned_cols=113  Identities=21%  Similarity=0.380  Sum_probs=93.1

Q ss_pred             CCCCCcCCCccccccceeeccCcccccCceeccccCCCCCC--CCeeeCCCCcccCccchhhccCCCCCCcccCCccccc
Q psy16551         94 PGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDS--INACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQT  171 (281)
Q Consensus        94 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~--~~~~~~~~g~~~C~~cy~~~~~~~~~~~~c~~~~~~~  171 (281)
                      ..+.|++|+++|++.+++.++++.||++||+|..|+++|..  ..++ .++|++||+.||.++|++++            
T Consensus         4 ~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~-~~~g~~yC~~cy~~~f~~~~------------   70 (122)
T 1m3v_A            4 SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSY-TKSGMILCRNDYIRLFGNSG------------   70 (122)
T ss_dssp             CCCCBSSSSSCCCSSCCEEETTEEECHHHHCCSSSCCCTTTSEECCE-EETTEEECHHHHHHHHCCCC------------
T ss_pred             CCCCCcccCCEeCCcEEEEECCceeHhhCCCcCCCCCcccccCCeEE-EECCeeecHHHHHHHcCCCC------------
Confidence            45789999999988777899999999999999999999973  3444 59999999999999998743            


Q ss_pred             CCCccccccCCCCCcCCCCccccCCCCCCCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccCh
Q psy16551        172 DGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCK  251 (281)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~  251 (281)
                                                  +|++|+++|...+ +++.++             ..|.+..| ...++++||.
T Consensus        71 ----------------------------~C~~C~~~I~~~~-~~~~g~-------------~~l~g~~f-~~~~~~~yC~  107 (122)
T 1m3v_A           71 ----------------------------AGGSGGHMGSGGD-VMVVGE-------------PTLMGGEF-GDEDERLITR  107 (122)
T ss_dssp             ----------------------------SSSCSSCCSCCEE-SSSSSS-------------SSCCSCTT-CCTTCCCCEE
T ss_pred             ----------------------------ccccCCCCcCchh-eEEcCC-------------cCCCCCcc-EecCCEeEcc
Confidence                                        7999999997654 455553             34656555 4799999999


Q ss_pred             hhhccccCCCC
Q psy16551        252 ACYGKNFGPKG  262 (281)
Q Consensus       252 ~c~~~~f~~~c  262 (281)
                      .||.+++...+
T Consensus       108 ~~~~~~~~~~g  118 (122)
T 1m3v_A          108 LENTQFDAANG  118 (122)
T ss_dssp             CTTTTTTCCSC
T ss_pred             CcchhchhhcC
Confidence            99999887665

>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=99.75  E-value=3.6e-19  Score=129.36  Aligned_cols=80  Identities=21%  Similarity=0.528  Sum_probs=71.2

Q ss_pred             CCcccCccchhhccCCCCCCcccCCcccccCCCccccccCCCCCcCCCCccccCCCCCCCCCCCCcccc-cceeeecCcc
Q psy16551        142 DKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFA-AEQQLAKGTM  220 (281)
Q Consensus       142 ~g~~~C~~cy~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~-~~~v~~~g~~  220 (281)
                      +|++||+.||.++|++                                          +|++|+++|.. +..+.++++.
T Consensus         1 ~g~~yC~~~y~~~~~~------------------------------------------~C~~C~~~I~~~~~~~~a~~~~   38 (82)
T 2ehe_A            1 GSSGSSGPCYDNTFAN------------------------------------------TCAECQQLIGHDSRELFYEDRH   38 (82)
T ss_dssp             CCCCCCCCCCCCCCSC------------------------------------------BCTTTCCBCCSSCCBCCCSSCC
T ss_pred             CCceechhHhCcccCC------------------------------------------cCccCCCccccCcEEEEeCCcc
Confidence            5899999999999987                                          89999999984 4455689999


Q ss_pred             cccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCCc
Q psy16551        221 WHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFG  264 (281)
Q Consensus       221 ~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~  264 (281)
                      ||++||+|+.|+++|.+..++ ..++++||+.||.++|+++|++
T Consensus        39 ~H~~CF~C~~C~~~L~~~~f~-~~~~~~~C~~c~~~~~~~~C~~   81 (82)
T 2ehe_A           39 FHEGCFRCCRCQRSLADEPFT-CQDSELLCNDCYCSAFSSGPSS   81 (82)
T ss_dssp             CBTTTSBCTTTCCBCSSCCEE-EETTEEEETTTSSCCGGGSSCC
T ss_pred             ccccCCeecCCCCccCCCccE-eeCCEEECHHHHhhhcCCCCCC
Confidence            999999999999999876664 6899999999999999999963

>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=99.75  E-value=5.9e-19  Score=127.54  Aligned_cols=79  Identities=20%  Similarity=0.411  Sum_probs=71.5

Q ss_pred             CCcccCccchhhccCCCCCCcccCCcccccCCCccccccCCCCCcCCCCccccCCCCCCCCCCCCcccccceeeecCccc
Q psy16551        142 DKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMW  221 (281)
Q Consensus       142 ~g~~~C~~cy~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~g~~~  221 (281)
                      +|++||+.||.++|++                                          +|++|+++|.. +.+.++++.|
T Consensus         1 gg~~yC~~~y~~~~~~------------------------------------------~C~~C~~~I~~-~~v~a~~~~~   37 (80)
T 1x3h_A            1 GSSGSSGKDFLAMFSP------------------------------------------KCGGCNRPVLE-NYLSAMDTVW   37 (80)
T ss_dssp             CCCCCCCCCCCCCCSC------------------------------------------BCTTTCCBCCS-SCEEETTEEE
T ss_pred             CCCccchhHHhhhcCC------------------------------------------ccccCCCeecc-eeEEECCCeE
Confidence            4789999999999987                                          89999999975 6778999999


Q ss_pred             ccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCCc
Q psy16551        222 HKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFG  264 (281)
Q Consensus       222 H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~  264 (281)
                      |++||+|..|+++|....++ ..++++||+.||.++|+++|.+
T Consensus        38 H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~~y~~~f~~~C~~   79 (80)
T 1x3h_A           38 HPECFVCGDCFTSFSTGSFF-ELDGRPFCELHYHHRRGSGPSS   79 (80)
T ss_dssp             CTTTCBCSSSCCBSCSSCCE-ESSSCEECHHHHHHHHSSSCCC
T ss_pred             ecCcCChhhCCCCCCCCcEE-eECCEEECHHHHHHHcCCCCCC
Confidence            99999999999999876654 6899999999999999999974

>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=99.75  E-value=6.8e-19  Score=127.59  Aligned_cols=64  Identities=25%  Similarity=0.568  Sum_probs=56.7

Q ss_pred             CCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCCc
Q psy16551        200 GCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFG  264 (281)
Q Consensus       200 ~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~  264 (281)
                      +|++|+++|. +..+.++++.||++||+|..|+++|.+..|+...+|++||+.||.++|+++|++
T Consensus        17 ~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~g~~yC~~cy~~~f~~~C~~   80 (81)
T 2dlo_A           17 KCATCSQPIL-DRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFASGPSS   80 (81)
T ss_dssp             BCTTTCCBCC-SCCEEETTEEECTTTCBCSSSCCBCTTSCEECCTTCCCEEHHHHHHHTTSSSCC
T ss_pred             ccccCCCeec-ceeEEECCccccHHhcCcccCCCccCCCeeEECCCCEEECHHHHHHHhcCcCCC
Confidence            8999999997 557779999999999999999999987666543479999999999999999974

>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=99.74  E-value=1.1e-18  Score=126.14  Aligned_cols=79  Identities=27%  Similarity=0.682  Sum_probs=71.2

Q ss_pred             CCcccCccchhhccCCCCCCcccCCcccccCCCccccccCCCCCcCCCCccccCCCCCCCCCCCCcccccceeeecCccc
Q psy16551        142 DKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMW  221 (281)
Q Consensus       142 ~g~~~C~~cy~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~g~~~  221 (281)
                      +|++||+.||.+++++                                          +|++|+++|.. +.+.++++.|
T Consensus         1 gg~~yC~~cy~~~~~~------------------------------------------~C~~C~~~I~~-~~v~a~~~~~   37 (80)
T 2cuq_A            1 GSSGSSGPCYENKFAP------------------------------------------RCARCSKTLTQ-GGVTYRDQPW   37 (80)
T ss_dssp             CCCCSCCCCCCCCSSC------------------------------------------CCTTTCCCCCS-CCEESSSSEE
T ss_pred             CCcEEcHHHHccccCC------------------------------------------cCCCCCCEecC-cEEEECCchh
Confidence            5899999999999887                                          99999999965 5778999999


Q ss_pred             ccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCCc
Q psy16551        222 HKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFG  264 (281)
Q Consensus       222 H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~  264 (281)
                      |++||+|..|+++|.+..++ ..++++||+.||.++|+++|.+
T Consensus        38 H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~cy~~~f~~~c~s   79 (80)
T 2cuq_A           38 HRECLVCTGCQTPLAGQQFT-SRDEDPYCVACFGELFASGPSS   79 (80)
T ss_dssp             CTTTCBCSSSCCBCTTCCEE-ECSSSEEEHHHHHHHTTCSTTC
T ss_pred             hhhhCCcccCCCcCCCCeeE-eECCEEECHHHHHHHcCCCCCC
Confidence            99999999999999766554 6999999999999999999963

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

Probab=99.74  E-value=1.9e-18  Score=133.42  Aligned_cols=105  Identities=17%  Similarity=0.212  Sum_probs=82.4

Q ss_pred             CCCCcCCCccccccceeeccCcccccCceeccccCCCCCC--CCeeeCCCCcccCccchhhccCCCCCCcccCCcccccC
Q psy16551         95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDS--INACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTD  172 (281)
Q Consensus        95 ~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~--~~~~~~~~g~~~C~~cy~~~~~~~~~~~~c~~~~~~~~  172 (281)
                      .++|++|+++|++.+.+.++++.||++||+|..|+++|..  ..++ .++|++||+.||.++|++               
T Consensus         3 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~-~~~g~~yC~~~y~~~f~~---------------   66 (114)
T 1j2o_A            3 LLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLY-YKLGRKLCRRDYLRLGGS---------------   66 (114)
T ss_dssp             CBCBSSSCSCBCSSEEEECSSSEECTTTCCCSSSCSCCCCSSSCCC-CBTTBCCCHHHHHHHHTS---------------
T ss_pred             CCCCcCCCCeeCCcEEEEECchhHHHhcCcccccCCchhcCCCeeE-EECCeeechHHHHHHhCc---------------
Confidence            4679999999997778999999999999999999999985  3444 699999999999999998               


Q ss_pred             CCccccccCCCCCcCCCCccccCCCCCCCCCCCCcccccceeeecCcccccccccccccCCCC-CCCccccCCCCcccCh
Q psy16551        173 GLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPL-DSVLACDGPDKEIYCK  251 (281)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L-~~~~~~~~~~g~~~C~  251 (281)
                                                 +|..|..    ++.+               .|...+ .+..| ...++++||.
T Consensus        67 ---------------------------~c~~c~~----~~~~---------------~~~~~~~~g~~f-~~~~~~~~C~   99 (114)
T 1j2o_A           67 ---------------------------GGHMGSG----GDVM---------------VVGEPTLMGGEF-GDEDERLITR   99 (114)
T ss_dssp             ---------------------------CCSSCBS----CSCC---------------CSSCSSTTSSBC-CCSSSCCCEE
T ss_pred             ---------------------------ccCcCCC----Ccee---------------EcCCccCCCCee-EEcCCEeecc
Confidence                                       5555531    1111               133454 44444 5799999999


Q ss_pred             hhhccccCCCC
Q psy16551        252 ACYGKNFGPKG  262 (281)
Q Consensus       252 ~c~~~~f~~~c  262 (281)
                      .|+.++....+
T Consensus       100 ~~~~~~~~~~g  110 (114)
T 1j2o_A          100 LENTQFDAANG  110 (114)
T ss_dssp             EECTTCCCTTS
T ss_pred             hhhhccccccC
Confidence            99999877654

>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=99.72  E-value=2.9e-18  Score=124.24  Aligned_cols=80  Identities=21%  Similarity=0.370  Sum_probs=70.3

Q ss_pred             CCcccCccchhhccCCCCCCcccCCcccccCCCccccccCCCCCcCCCCccccCCCCCCCCCCCCcccccceeeecCccc
Q psy16551        142 DKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMW  221 (281)
Q Consensus       142 ~g~~~C~~cy~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~g~~~  221 (281)
                      ++.+||+.||.++|++                                          +|++|+++|. ++.+.++++.|
T Consensus         1 g~~~yC~~~y~~~~~~------------------------------------------~C~~C~~~I~-~~~~~a~~~~~   37 (81)
T 1x6a_A            1 GSSGSSGKDYWGKFGE------------------------------------------FCHGCSLLMT-GPFMVAGEFKY   37 (81)
T ss_dssp             CCCCCCCCCSSCCSSC------------------------------------------BCTTTCCBCC-SCCBCCTTCCB
T ss_pred             CCCccchhHHhhhcCC------------------------------------------cCccCCCCcC-ceEEEECCcee
Confidence            3679999999999987                                          8999999997 66778999999


Q ss_pred             ccccccccccCCCCCCCcccc-CCCCcccChhhhccccCCCCCc
Q psy16551        222 HKQCFSCNVCKRPLDSVLACD-GPDKEIYCKACYGKNFGPKGFG  264 (281)
Q Consensus       222 H~~Cf~C~~C~~~L~~~~~~~-~~~g~~~C~~c~~~~f~~~c~~  264 (281)
                      |++||+|..|+++|..+..+. +.++++||+.||.++|++++.|
T Consensus        38 H~~CF~C~~C~~~L~~g~~f~~~~~~~~~C~~c~~~~~~~~~sg   81 (81)
T 1x6a_A           38 HPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVVSGPSSG   81 (81)
T ss_dssp             CTTSCBCTTTCCBCCTTSCEEECSSSCEEEHHHHHHHHCTTSCC
T ss_pred             ccccCCccCCCCccCCCCcEEEeeCCEEECHHHHHHHhcCCCCC
Confidence            999999999999996544444 5899999999999999999864

>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=99.72  E-value=2.8e-18  Score=124.53  Aligned_cols=79  Identities=28%  Similarity=0.598  Sum_probs=70.9

Q ss_pred             CCcccCccchhhccCCCCCCcccCCcccccCCCccccccCCCCCcCCCCccccCCCCCCCCCCCCcccccce-eeecCcc
Q psy16551        142 DKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQ-QLAKGTM  220 (281)
Q Consensus       142 ~g~~~C~~cy~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~-v~~~g~~  220 (281)
                      ++.+||++||.+++++                                          +|++|+++|..++. +.++++.
T Consensus         1 ~~~~yC~~cy~~~~~~------------------------------------------~C~~C~~~I~~~~~~~~a~~~~   38 (82)
T 1x63_A            1 GSSGSSGKCTTREDSP------------------------------------------KCKGCFKAIVAGDQNVEYKGTV   38 (82)
T ss_dssp             CCSCCCCCCCSCCCSC------------------------------------------BCSSSCCBCCSSSCEEECSSCE
T ss_pred             CCCcCchhHHccccCC------------------------------------------cCccCCcccccCceEEEECccc
Confidence            4689999999999887                                          89999999987664 6699999


Q ss_pred             cccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCC
Q psy16551        221 WHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGF  263 (281)
Q Consensus       221 ~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~  263 (281)
                      ||++||+|..|+++|....++ ..++++||+.||.++|+++|.
T Consensus        39 ~H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~cy~~~f~~~~~   80 (82)
T 1x63_A           39 WHKDCFTCSNCKQVIGTGSFF-PKGEDFYCVTCHETKFASGPS   80 (82)
T ss_dssp             EETTTCCCSSSCCCCTTSCEE-EETTEEEEHHHHHHHTSCCCS
T ss_pred             cccccCchhhCCCccCCCccE-eeCCEEECHHHHHHHhCCCCC
Confidence            999999999999999877664 689999999999999999985

>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=99.66  E-value=2.1e-17  Score=119.66  Aligned_cols=73  Identities=45%  Similarity=1.052  Sum_probs=55.5

Q ss_pred             CCCCCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCCcCCCCCc
Q psy16551        197 KGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGHSPT  270 (281)
Q Consensus       197 ~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~c~~~~~  270 (281)
                      +..+|++|+++|..++.+.+.++.||++||+|..|+++|....++ ..++++||+.||.++|+++|.+|+.|.+
T Consensus         6 ~~~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~cy~~~f~~~c~gcg~g~~   78 (81)
T 1a7i_A            6 GGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVA-IHDAEVYCKSCYGKKYGPKGYGYGQGAG   78 (81)
T ss_dssp             --CBCSSSCCBCSSTTEEEETTEEEESSSEECSSSCCEECSSCCE-EETTEEECSHHHHHHCC-----------
T ss_pred             CCCcCcCcCccccCceeEEeCCcccccccCccCCCCCCCCCCCeE-eeCCEEECHHHHHHHhCCcccccCCccc
Confidence            445999999999888888899999999999999999999876654 6899999999999999999999998764

>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=99.65  E-value=5.4e-17  Score=116.27  Aligned_cols=73  Identities=22%  Similarity=0.513  Sum_probs=64.4

Q ss_pred             CCcccCccchhhccCCCCCCcccCCcccccCCCccccccCCCCCcCCCCccccCCCCCCCCCCCCcccc----cceeeec
Q psy16551        142 DKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFA----AEQQLAK  217 (281)
Q Consensus       142 ~g~~~C~~cy~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~----~~~v~~~  217 (281)
                      ++++||+.||.++|++                                          +|++|+++|.+    .+.+.++
T Consensus         1 g~~~yC~~cy~~~~~~------------------------------------------~C~~C~~~I~~~g~~~~~~~a~   38 (77)
T 2egq_A            1 GSSGSSGDCYKNFVAK------------------------------------------KCAGCKNPITGFGKGSSVVAYE   38 (77)
T ss_dssp             CCSSCCTTCCCSCCCC------------------------------------------CCSSSCCCCCCCSSCCCEEEET
T ss_pred             CCCeEchhHhchhhCc------------------------------------------cCcccCCcccCCCCCceeEEEC
Confidence            4789999999999987                                          99999999984    3677799


Q ss_pred             CcccccccccccccCCCCCCCccccCCCCcccChhhhccc
Q psy16551        218 GTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKN  257 (281)
Q Consensus       218 g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~  257 (281)
                      ++.||++||+|..|+++|.+..++ ..++++||+.||.++
T Consensus        39 ~~~~H~~CF~C~~C~~~L~~~~f~-~~~~~~yC~~cy~~l   77 (77)
T 2egq_A           39 GQSWHDYCFHCKKCSVNLANKRFV-FHQEQVYCPDCAKKL   77 (77)
T ss_dssp             TEEEETTTCBCSSSCCBCTTSCCC-EETTEECCHHHHHHC
T ss_pred             cceeCcccCEehhcCCCCCCCccE-eECCEEEChHHhccC
Confidence            999999999999999999876554 699999999999753

>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=1.8e-16  Score=113.30  Aligned_cols=70  Identities=37%  Similarity=0.900  Sum_probs=63.5

Q ss_pred             CCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccCh-hhhccccCCCCCcCCCCCc
Q psy16551        200 GCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCK-ACYGKNFGPKGFGYGHSPT  270 (281)
Q Consensus       200 ~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~-~c~~~~f~~~c~~c~~~~~  270 (281)
                      +|++|+++|..++.+.++++.||++||+|..|+++|.+..++ ..+|++||. .||.++|+++|.+|+.+..
T Consensus         2 ~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~~cy~~~f~~~C~~C~~~~~   72 (76)
T 1iml_A            2 KCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHA-EHEGKPYCNHPCYSAMFGPKGFGRGGAES   72 (76)
T ss_dssp             BCTTTSSBCCGGGEEEETTEEEETTTCBCTTTCCBCCTTTEE-EETTEEEETTTHHHHHSSCCCSSCCCSSS
T ss_pred             cCCCCCCEEECceEEEECCccccCCCCCccccCccCCCCceE-CcCCeEeeCHHHHHHHhCccCCCcCCcee
Confidence            799999999878888899999999999999999999877664 689999999 6999999999999987543

>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=4.9e-16  Score=111.02  Aligned_cols=68  Identities=29%  Similarity=0.697  Sum_probs=61.0

Q ss_pred             CCCCCCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccCh-hhhccccCCCCCc
Q psy16551        196 RKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCK-ACYGKNFGPKGFG  264 (281)
Q Consensus       196 ~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~-~c~~~~f~~~c~~  264 (281)
                      +...+|++|+++|..++.+.++++.||++||+|..|+++|.+..++ ..++++||+ .||.++|+++|.+
T Consensus         7 ~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~~cy~~~f~~kc~g   75 (76)
T 2cu8_A            7 GMASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHA-EHDGKPFCHKPCYATLFGSGPSS   75 (76)
T ss_dssp             CCCCBCTTTCCBCCTTTEEEETTEEEETTTCBCSSSCCBCCTTSCE-EETTEEECTTTHHHHHSCSSCSC
T ss_pred             CCCCCCcCCCCEeECCeEEEECCeEeeCCCCCCCCCCCccCCCceE-eECCEEecchHHHHHhcccccCC
Confidence            4456999999999888888999999999999999999999876554 689999999 7999999999974

>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=99.60  E-value=5.6e-16  Score=111.95  Aligned_cols=67  Identities=27%  Similarity=0.545  Sum_probs=60.0

Q ss_pred             CCCCCCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCCc
Q psy16551        196 RKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFG  264 (281)
Q Consensus       196 ~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~  264 (281)
                      .+..+|++|+++|..++.+.++++.||++||+|..|+++|.+ .+ +.+|+++||+.||.++|+++|.+
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-EY-ISKDGVPYCESDYHAQFGSGPSS   79 (80)
T ss_dssp             SSCSCCTTTCCCCSSSCCEEETTEEECTTTCBCSSSCCBCSS-CC-EEETTEEECTTHHHHHTTCCSTT
T ss_pred             CCCCCCcCcCCeeCCCeEEEECCcccccccCCcCcCCCCcCC-Ce-EEECCEEECHHHHHHHcCCCCCC
Confidence            345599999999988888889999999999999999999985 44 46999999999999999999974

>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=99.59  E-value=7.4e-16  Score=111.44  Aligned_cols=77  Identities=23%  Similarity=0.383  Sum_probs=65.9

Q ss_pred             CcccCccchhhccCCCCCCcccCCcccccCCCccccccCCCCCcCCCCccccCCCCCCCCCCCCcccccceeeecCcccc
Q psy16551        143 KDIYCKTCYGKKWGPHGYGFAAGSGFLQTDGLTEDEISANRPFYNPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMWH  222 (281)
Q Consensus       143 g~~~C~~cy~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~g~~~H  222 (281)
                      ..+||+.||.++|++                                          +|++|+++|. ++.+.++++.||
T Consensus         2 ~~~yC~~dy~~~~~~------------------------------------------~C~~C~~~I~-~~~v~a~~~~wH   38 (81)
T 1v6g_A            2 SSGSSGLDYQRLYGT------------------------------------------RCFSCDQFIE-GEVVSALGKTYH   38 (81)
T ss_dssp             CCCCCCSCGGGSCCC------------------------------------------BCTTTCCBCC-SCCEEETTEEEC
T ss_pred             CCCcchHHHHhHhCC------------------------------------------cCccccCEec-cceEEECCceeC
Confidence            468999999999988                                          8999999997 567889999999


Q ss_pred             cccccccccCCCCCCCccccCCCCcccChhhhccccCCCC
Q psy16551        223 KQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKG  262 (281)
Q Consensus       223 ~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c  262 (281)
                      ++||+|..|+++|..+.++...++.+||..||.++++...
T Consensus        39 ~~CF~C~~C~~~L~~~~~~~~~~~~~~C~~C~~~~~~~~~   78 (81)
T 1v6g_A           39 PDCFVCAVCRLPFPPGDRVTFNGKECMCQKCSLPVSVSGP   78 (81)
T ss_dssp             TTTSSCSSSCCCCCSSSCEEEETTEEEEHHHHSCCSSCCC
T ss_pred             ccCCccccCCCCCCCCCEEEeCCCCEEChhhhcccCCCCC
Confidence            9999999999999766665444445799999999887764

>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=99.59  E-value=8.6e-16  Score=109.74  Aligned_cols=61  Identities=41%  Similarity=0.978  Sum_probs=56.3

Q ss_pred             CCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCc-cchhhccCC
Q psy16551         96 KGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCK-TCYGKKWGP  157 (281)
Q Consensus        96 ~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~-~cy~~~~~~  157 (281)
                      +.|++|+++|..++.+.++++.||++||+|..|+++|....++ .++|++||+ .||.++|++
T Consensus         1 p~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~~cy~~~f~~   62 (76)
T 1iml_A            1 PKCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHA-EHEGKPYCNHPCYSAMFGP   62 (76)
T ss_dssp             CBCTTTSSBCCGGGEEEETTEEEETTTCBCTTTCCBCCTTTEE-EETTEEEETTTHHHHHSSC
T ss_pred             CcCCCCCCEEECceEEEECCccccCCCCCccccCccCCCCceE-CcCCeEeeCHHHHHHHhCc
Confidence            4799999999878999999999999999999999999987766 499999999 699999998

>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=99.58  E-value=1.2e-15  Score=108.97  Aligned_cols=67  Identities=24%  Similarity=0.479  Sum_probs=59.8

Q ss_pred             CCCCCCCCcccc---cceeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCCcCC
Q psy16551        199 EGCPRCGGAVFA---AEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYG  266 (281)
Q Consensus       199 ~~C~~C~~~I~~---~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~c~  266 (281)
                      .+|++|+++|..   .+.+.++++.||++||+|..|+++|.+..++ ..++++||..||.++|+++|+.++
T Consensus         6 ~~C~~C~~~I~~~g~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~-~~~g~~yC~~cy~~~f~~~C~~~s   75 (76)
T 1x68_A            6 SGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFL-TQNKEIFCQKCGSGMDTDISGPSS   75 (76)
T ss_dssp             CCCTTTCCCCCTTTTCCEEEETTEEEEGGGCBCTTTCCBCSSSCEE-EETTEEEETTTTCCCCCCSSSSSC
T ss_pred             CCCccCCCcccCCCCceeEEECCcccCcccCChhhCCCcCCCCceE-eECCEEECHHHhhhhhCCcCCCCC
Confidence            399999999974   3677799999999999999999999866564 689999999999999999999875

>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=99.58  E-value=3.5e-15  Score=110.30  Aligned_cols=74  Identities=28%  Similarity=0.573  Sum_probs=64.0

Q ss_pred             CCCCCCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCCcCCCCCcc
Q psy16551        196 RKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGHSPTL  271 (281)
Q Consensus       196 ~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~c~~~~~~  271 (281)
                      .+..+|++|+++|...+.+.++++.||++||+|..|+++|....++ ..++++||+.||.++|+++|. +..+.+.
T Consensus        13 ~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~~y~~~f~~kc~-~~~g~g~   86 (91)
T 2d8y_A           13 PARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYA-SLHGRIYCKPHFNQLFKSKGN-YDEGFGS   86 (91)
T ss_dssp             SSSCBCTTTCCBCCTTSEEECSSSEEETTTCBCTTTCCBCCTTTCC-CSSSCCCCHHHHHHHSCCCSC-CCSCCCC
T ss_pred             CCCCcCccCCCccCCceeEEECCCEECCCCCeeCCCCCCCCCCCcE-eECCEEECHHHHHHHhCCCcC-ccCCcCC
Confidence            3456999999999888888899999999999999999999876654 689999999999999999997 4454443

>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=99.57  E-value=7.3e-16  Score=111.46  Aligned_cols=73  Identities=48%  Similarity=1.086  Sum_probs=56.2

Q ss_pred             CCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCCCCCcccCCc
Q psy16551         94 PGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSG  167 (281)
Q Consensus        94 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~~~~~c~~~  167 (281)
                      ..+.|.+|+++|+.++.+.++++.||++||+|..|+++|....++ .+++++||+.||.++|+++++|.+-+.+
T Consensus         6 ~~~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~cy~~~f~~~c~gcg~g~~   78 (81)
T 1a7i_A            6 GGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVA-IHDAEVYCKSCYGKKYGPKGYGYGQGAG   78 (81)
T ss_dssp             --CBCSSSCCBCSSTTEEEETTEEEESSSEECSSSCCEECSSCCE-EETTEEECSHHHHHHCC-----------
T ss_pred             CCCcCcCcCccccCceeEEeCCcccccccCccCCCCCCCCCCCeE-eeCCEEECHHHHHHHhCCcccccCCccc
Confidence            457899999999888899999999999999999999999887666 4899999999999999999775554443

>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=99.57  E-value=1.5e-15  Score=106.39  Aligned_cols=66  Identities=24%  Similarity=0.622  Sum_probs=58.6

Q ss_pred             CCCCCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCCc
Q psy16551        197 KGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFG  264 (281)
Q Consensus       197 ~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~  264 (281)
                      +..+|++|+++|. ++.+.++++.||++||+|..|+++|.+..++ ..++++||..||.++|+++|.|
T Consensus         4 ~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~cy~~~f~~~C~g   69 (69)
T 2cur_A            4 GSSGCVKCNKAIT-SGGITYQDQPWHADCFVCVTCSKKLAGQRFT-AVEDQYYCVDCYKNFVSGPSSG   69 (69)
T ss_dssp             CCCCCSSSCCCCC-TTCEEETTEEECTTTTBCTTTCCBCTTSCEE-ECSSCEEEHHHHHHHHTCSCCC
T ss_pred             CcCCCcccCCEeC-cceEEECccccccCcCEECCCCCCCCCCccE-eECCEEECHHHhHHHhcCCCCC
Confidence            3459999999996 4678899999999999999999999866554 6899999999999999999975

>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=3.2e-15  Score=106.75  Aligned_cols=67  Identities=33%  Similarity=0.794  Sum_probs=60.3

Q ss_pred             CCCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCc-cchhhccCCCCC
Q psy16551         93 APGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCK-TCYGKKWGPHGY  160 (281)
Q Consensus        93 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~-~cy~~~~~~~~~  160 (281)
                      ...+.|++|+++|+.++.+.++++.||++||+|..|+++|....++ .+++++||+ .||.++|+|+++
T Consensus         7 ~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~~cy~~~f~~kc~   74 (76)
T 2cu8_A            7 GMASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHA-EHDGKPFCHKPCYATLFGSGPS   74 (76)
T ss_dssp             CCCCBCTTTCCBCCTTTEEEETTEEEETTTCBCSSSCCBCCTTSCE-EETTEEECTTTHHHHHSCSSCS
T ss_pred             CCCCCCcCCCCEeECCeEEEECCeEeeCCCCCCCCCCCccCCCceE-eECCEEecchHHHHHhcccccC
Confidence            3467899999999888999999999999999999999999987666 499999999 799999999765

>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=99.55  E-value=4.2e-15  Score=109.66  Aligned_cols=67  Identities=24%  Similarity=0.577  Sum_probs=59.3

Q ss_pred             CCCCCCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCCc
Q psy16551        196 RKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFG  264 (281)
Q Consensus       196 ~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~  264 (281)
                      ....+|++|+++|. ++.+.++++.||++||+|..|+++|.+..|+ +.++++||+.||.++|+++|.+
T Consensus        23 ~~~~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~f~-~~~g~~yC~~cy~~~f~~~c~s   89 (90)
T 2dar_A           23 KRTPMCAHCNQVIR-GPFLVALGKSWHPEEFNCAHCKNTMAYIGFV-EEKGALYCELCYEKFFASGPSS   89 (90)
T ss_dssp             TCCCBBSSSCCBCC-SCEEEETTEEECTTTCBCSSSCCBCSSSCBE-ESSSCEECHHHHHHHTSCCCCC
T ss_pred             CCCCCCccCCCEec-ceEEEECCccccccCCccCCCCCCCCCCEeE-eECCEEECHHHHHHHcCCCCCC
Confidence            34569999999994 6778899999999999999999999876664 6999999999999999999963

>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=99.55  E-value=3.3e-15  Score=108.19  Aligned_cols=76  Identities=24%  Similarity=0.562  Sum_probs=67.9

Q ss_pred             ccccccccCCCCCCCCcCCCccccccc-eeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCCC
Q psy16551         83 TVIDTAKIKAAPGKGCPRCGGVVFAAE-QVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHG  159 (281)
Q Consensus        83 ~~~~~~~~~~~~~~~C~~C~~~I~~~~-~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~  159 (281)
                      .++|..++.....+.|.+|+++|..++ .+.++++.||++||+|..|+++|....++. +++++||+.||.++|++++
T Consensus         3 ~~yC~~cy~~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~-~~~~~yC~~cy~~~f~~~~   79 (82)
T 1x63_A            3 SGSSGKCTTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFP-KGEDFYCVTCHETKFASGP   79 (82)
T ss_dssp             SCCCCCCCSCCCSCBCSSSCCBCCSSSCEEECSSCEEETTTCCCSSSCCCCTTSCEEE-ETTEEEEHHHHHHHTSCCC
T ss_pred             CcCchhHHccccCCcCccCCcccccCceEEEECccccccccCchhhCCCccCCCccEe-eCCEEECHHHHHHHhCCCC
Confidence            357889999998999999999998655 488999999999999999999999877664 9999999999999999864

>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=99.55  E-value=3.1e-15  Score=104.98  Aligned_cols=66  Identities=23%  Similarity=0.611  Sum_probs=58.1

Q ss_pred             CCCCCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCCc
Q psy16551        197 KGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFG  264 (281)
Q Consensus       197 ~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~  264 (281)
                      +..+|++|+++|. .+.+.++++.||++||+|..|+++|.+..++ ..++++||..||.++|+++|++
T Consensus         4 ~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~cy~~~f~~~c~~   69 (70)
T 2d8z_A            4 GSSGCVQCKKPIT-TGGVTYREQPWHKECFVCTACRKQLSGQRFT-ARDDFAYCLNCFCDLYASGPSS   69 (70)
T ss_dssp             CCCBCSSSCCBCC-SSEEESSSSEEETTTSBCSSSCCBCTTSCCE-ESSSSEECHHHHHHHTCCCCTT
T ss_pred             CCCCCcccCCeec-cceEEECccccCCCCCccCCCCCcCCcCceE-eeCCeEECHHHHHHHhccccCC
Confidence            3458999999996 4568899999999999999999999776664 6899999999999999999964

>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=99.54  E-value=4.1e-15  Score=114.63  Aligned_cols=70  Identities=20%  Similarity=0.269  Sum_probs=61.5

Q ss_pred             CCCCCCCCCcccccceeeecCcccccccccccccCCCCCC--CccccCCCCcccChhhhccccCCCCCcCCCC
Q psy16551        198 GEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDS--VLACDGPDKEIYCKACYGKNFGPKGFGYGHS  268 (281)
Q Consensus       198 ~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~--~~~~~~~~g~~~C~~c~~~~f~~~c~~c~~~  268 (281)
                      ..+|++|+++|...+.+.++++.||++||+|+.|+++|..  ..+ +.++|++||+.||.++|+++|.+|..+
T Consensus         3 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~-~~~~g~~yC~~~y~~~f~~~c~~c~~~   74 (114)
T 1j2o_A            3 LLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRL-YYKLGRKLCRRDYLRLGGSGGHMGSGG   74 (114)
T ss_dssp             CBCBSSSCSCBCSSEEEECSSSEECTTTCCCSSSCSCCCCSSSCC-CCBTTBCCCHHHHHHHHTSCCSSCBSC
T ss_pred             CCCCcCCCCeeCCcEEEEECchhHHHhcCcccccCCchhcCCCee-EEECCeeechHHHHHHhCcccCcCCCC
Confidence            3489999999987777889999999999999999999974  344 479999999999999999999988643

>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=99.54  E-value=4e-15  Score=107.43  Aligned_cols=65  Identities=26%  Similarity=0.608  Sum_probs=58.2

Q ss_pred             CCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCCCC
Q psy16551         94 PGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGY  160 (281)
Q Consensus        94 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~~  160 (281)
                      ..+.|.+|+++|+.++++.++++.||++||+|..|+++|.+ .++ .++|++||+.||.++|++++.
T Consensus        14 ~~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~-~~~-~~~g~~yC~~~y~~~fg~~C~   78 (80)
T 2dj7_A           14 GPSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTG-EYI-SKDGVPYCESDYHAQFGSGPS   78 (80)
T ss_dssp             SCSCCTTTCCCCSSSCCEEETTEEECTTTCBCSSSCCBCSS-CCE-EETTEEECTTHHHHHTTCCST
T ss_pred             CCCCCcCcCCeeCCCeEEEECCcccccccCCcCcCCCCcCC-CeE-EECCEEECHHHHHHHcCCCCC
Confidence            45789999999988899999999999999999999999986 444 599999999999999998653

>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=99.54  E-value=4.6e-15  Score=106.89  Aligned_cols=73  Identities=22%  Similarity=0.454  Sum_probs=66.3

Q ss_pred             cccccccCCCCCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCC
Q psy16551         84 VIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPH  158 (281)
Q Consensus        84 ~~~~~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~  158 (281)
                      +++..++.....+.|++|+++|.+ +.+.++++.||++||+|..|+++|....++ .+++++||+.||.++|+++
T Consensus         4 ~yC~~~y~~~~~~~C~~C~~~I~~-~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~~y~~~f~~~   76 (80)
T 1x3h_A            4 GSSGKDFLAMFSPKCGGCNRPVLE-NYLSAMDTVWHPECFVCGDCFTSFSTGSFF-ELDGRPFCELHYHHRRGSG   76 (80)
T ss_dssp             CCCCCCCCCCCSCBCTTTCCBCCS-SCEEETTEEECTTTCBCSSSCCBSCSSCCE-ESSSCEECHHHHHHHHSSS
T ss_pred             ccchhHHhhhcCCccccCCCeecc-eeEEECCCeEecCcCChhhCCCCCCCCcEE-eECCEEECHHHHHHHcCCC
Confidence            578889999889999999999975 788999999999999999999999876666 4999999999999999984

>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=99.54  E-value=4.4e-15  Score=111.74  Aligned_cols=73  Identities=27%  Similarity=0.598  Sum_probs=64.5

Q ss_pred             CCCCCCCCCCcccc-cceeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCCcCCCCCc
Q psy16551        197 KGEGCPRCGGAVFA-AEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGHSPT  270 (281)
Q Consensus       197 ~~~~C~~C~~~I~~-~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~c~~~~~  270 (281)
                      +..+|++|+++|.. ++.+.++++.||++||+|..|+++|.+..++ ..+|++||+.||.++|+++|.+|+..+.
T Consensus         4 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~cy~~~~~~~C~~C~~~I~   77 (101)
T 2cup_A            4 GSSGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFV-AKDNKILCNKCTTREDSPKCKGCFKAIV   77 (101)
T ss_dssp             CCCBCSSSCCBCCSSSCEEEETTEEEETTTCCCSSSCCCTTSSCCE-EETTEEECHHHHTTCCCCBCSSSCCBCC
T ss_pred             CCCcCcccCCcccCCceEEEECccChhhcCCcccccCCCCCcCeeE-CcCCEEEChhHhhhhcCCccccCCCccc
Confidence            34599999999975 6677899999999999999999999766554 6999999999999999999999988664

>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=99.54  E-value=4.3e-15  Score=107.58  Aligned_cols=75  Identities=16%  Similarity=0.494  Sum_probs=66.9

Q ss_pred             ccccccccCCCCCCCCcCCCcccc-ccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCC
Q psy16551         83 TVIDTAKIKAAPGKGCPRCGGVVF-AAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPH  158 (281)
Q Consensus        83 ~~~~~~~~~~~~~~~C~~C~~~I~-~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~  158 (281)
                      .+++..++.....+.|++|+++|. +..++.++++.||++||+|..|+++|.+..++ .+++++||+.||.++|+++
T Consensus         3 ~~yC~~~y~~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~-~~~~~~~C~~c~~~~~~~~   78 (82)
T 2ehe_A            3 SGSSGPCYDNTFANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFT-CQDSELLCNDCYCSAFSSG   78 (82)
T ss_dssp             CCCCCCCCCCCCSCBCTTTCCBCCSSCCBCCCSSCCCBTTTSBCTTTCCBCSSCCEE-EETTEEEETTTSSCCGGGS
T ss_pred             ceechhHhCcccCCcCccCCCccccCcEEEEeCCccccccCCeecCCCCccCCCccE-eeCCEEECHHHHhhhcCCC
Confidence            357889999999999999999998 45677889999999999999999999987766 4999999999999999883

>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=99.54  E-value=3.1e-15  Score=105.58  Aligned_cols=66  Identities=30%  Similarity=0.747  Sum_probs=58.6

Q ss_pred             CCCCCCCCCccccc-ceeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCCc
Q psy16551        198 GEGCPRCGGAVFAA-EQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFG  264 (281)
Q Consensus       198 ~~~C~~C~~~I~~~-~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~  264 (281)
                      ..+|++|+++|... +.+.++++.||++||+|..|+++|....++ ..++++||+.||.++|+++|++
T Consensus         5 ~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~cy~~~f~~~C~~   71 (72)
T 1wyh_A            5 SSGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFV-PDKGAHYCVPCYENKFASGPSS   71 (72)
T ss_dssp             CCBCSSSCCBCCSSSCEECSTTCCEETTTCBCTTTCCBTTTSCEE-EETTEEEEHHHHHHHTSCCCCC
T ss_pred             CCCCccCCCccccCccEEEECccccCcccCeECCCCCcCCCCccC-CcCCeEECHHHHHHHccCcCCC
Confidence            45899999999875 567799999999999999999999876654 6899999999999999999963

>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=99.53  E-value=8.5e-15  Score=106.18  Aligned_cols=68  Identities=22%  Similarity=0.483  Sum_probs=60.3

Q ss_pred             CCCCCCCCCCCcccccceeeecCcccccccccccccCCCCCCCcccc-CCCCcccChhhhccccCCCCC
Q psy16551        196 RKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACD-GPDKEIYCKACYGKNFGPKGF  263 (281)
Q Consensus       196 ~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~-~~~g~~~C~~c~~~~f~~~c~  263 (281)
                      ++..+|++|+++|...+.+.++++.||++||+|..|++.|....++. +.||++||+.||.++|++...
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            45569999999998888888999999999999999999998877753 589999999999999988654

>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=99.53  E-value=3.7e-15  Score=105.17  Aligned_cols=65  Identities=26%  Similarity=0.732  Sum_probs=58.0

Q ss_pred             CCCCCCCCcccccc-eeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCCc
Q psy16551        199 EGCPRCGGAVFAAE-QQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFG  264 (281)
Q Consensus       199 ~~C~~C~~~I~~~~-~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~  264 (281)
                      .+|++|+++|...+ .+.++++.||++||+|..|+++|.+..++ ..++++||+.||.++|+++|.+
T Consensus         6 ~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~cy~~~f~~~C~~   71 (72)
T 1x4k_A            6 SGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFI-PKDNQNFCVPCYEKQHASGPSS   71 (72)
T ss_dssp             CCBSSSCCCCCSSSCEEEETTEEEETTTTCCSSSCCCCCSSSEE-EETTEEEEHHHHHHHTSSCCCC
T ss_pred             CCCccCCCcccCCceEEEECcCeecccCCcccccCCccCCCccC-ccCCeEECHHHHhHHhCCCCCC
Confidence            49999999998764 66799999999999999999999877654 6899999999999999999963

>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=99.53  E-value=7.8e-15  Score=106.01  Aligned_cols=74  Identities=22%  Similarity=0.438  Sum_probs=64.8

Q ss_pred             ccccccccCCCCCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCC
Q psy16551         83 TVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPH  158 (281)
Q Consensus        83 ~~~~~~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~  158 (281)
                      .+++..++. ...+.|++|+++|. ++.+.++++.||++||+|..|+++|.+..|+...+|++||+.||.++|+++
T Consensus         4 ~~yC~~~y~-~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~g~~yC~~cy~~~f~~~   77 (81)
T 2dlo_A            4 GSSGEGCYV-ATLEKCATCSQPIL-DRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFASG   77 (81)
T ss_dssp             CCCCCCCCC-SSCCBCTTTCCBCC-SCCEEETTEEECTTTCBCSSSCCBCTTSCEECCTTCCCEEHHHHHHHTTSS
T ss_pred             CEECHHHhh-cCCCccccCCCeec-ceeEEECCccccHHhcCcccCCCccCCCeeEECCCCEEECHHHHHHHhcCc
Confidence            457888888 68899999999997 578899999999999999999999997766543378999999999999984

>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=99.53  E-value=6e-15  Score=105.33  Aligned_cols=64  Identities=25%  Similarity=0.623  Sum_probs=57.4

Q ss_pred             CCCCCCcCCCccccc---cceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCC
Q psy16551         93 APGKGCPRCGGVVFA---AEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP  157 (281)
Q Consensus        93 ~~~~~C~~C~~~I~~---~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~  157 (281)
                      ...+.|++|+++|.+   .+++.++++.||++||+|..|+++|.+..++. +++++||+.||.++|++
T Consensus         3 ~~~~~C~~C~~~I~~~g~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~-~~g~~yC~~cy~~~f~~   69 (76)
T 1x68_A            3 SGSSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLT-QNKEIFCQKCGSGMDTD   69 (76)
T ss_dssp             TCCCCCTTTCCCCCTTTTCCEEEETTEEEEGGGCBCTTTCCBCSSSCEEE-ETTEEEETTTTCCCCCC
T ss_pred             ccCCCCccCCCcccCCCCceeEEECCcccCcccCChhhCCCcCCCCceEe-ECCEEECHHHhhhhhCC
Confidence            356789999999983   47889999999999999999999999776664 99999999999999998

>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=99.52  E-value=3.4e-15  Score=116.48  Aligned_cols=72  Identities=26%  Similarity=0.560  Sum_probs=63.8

Q ss_pred             CCCCCCCCCcccccceeeecCcccccccccccccCCCCCC--CccccCCCCcccChhhhccccCC--CCCcCCCCCc
Q psy16551        198 GEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDS--VLACDGPDKEIYCKACYGKNFGP--KGFGYGHSPT  270 (281)
Q Consensus       198 ~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~--~~~~~~~~g~~~C~~c~~~~f~~--~c~~c~~~~~  270 (281)
                      ..+|++|+++|...+.+.++++.||++||+|..|+++|..  ..+ +.++|++||+.||.++|++  +|.+|+..+.
T Consensus         5 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~-~~~~g~~yC~~cy~~~f~~~~~C~~C~~~I~   80 (122)
T 1m3v_A            5 WKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSS-YTKSGMILCRNDYIRLFGNSGAGGSGGHMGS   80 (122)
T ss_dssp             CCCBSSSSSCCCSSCCEEETTEEECHHHHCCSSSCCCTTTSEECC-EEETTEEECHHHHHHHHCCCCSSSCSSCCSC
T ss_pred             CCCCcccCCEeCCcEEEEECCceeHhhCCCcCCCCCcccccCCeE-EEECCeeecHHHHHHHcCCCCccccCCCCcC
Confidence            3499999999988777889999999999999999999962  334 4799999999999999999  9999998774

>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=99.52  E-value=8.3e-15  Score=105.83  Aligned_cols=74  Identities=16%  Similarity=0.334  Sum_probs=65.4

Q ss_pred             cccccccCCCCCCCCcCCCccccccceeeccCcccccCceeccccCCCCCC-CCeeeCCCCcccCccchhhccCCC
Q psy16551         84 VIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDS-INACDGPDKDIYCKTCYGKKWGPH  158 (281)
Q Consensus        84 ~~~~~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~-~~~~~~~~g~~~C~~cy~~~~~~~  158 (281)
                      +++..++.....+.|++|+++|. ++.+.++++.||++||+|..|+++|.. ..+...+++++||+.||.++|++.
T Consensus         4 ~yC~~~y~~~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~~C~~c~~~~~~~~   78 (81)
T 1x6a_A            4 GSSGKDYWGKFGEFCHGCSLLMT-GPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVVSGP   78 (81)
T ss_dssp             CCCCCCSSCCSSCBCTTTCCBCC-SCCBCCTTCCBCTTSCBCTTTCCBCCTTSCEEECSSSCEEEHHHHHHHHCTT
T ss_pred             ccchhHHhhhcCCcCccCCCCcC-ceEEEECCceeccccCCccCCCCccCCCCcEEEeeCCEEECHHHHHHHhcCC
Confidence            57888999999999999999998 688999999999999999999999975 444424899999999999999874

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

Probab=99.52  E-value=4.7e-15  Score=116.15  Aligned_cols=71  Identities=25%  Similarity=0.491  Sum_probs=65.0

Q ss_pred             CCCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCCcCCCCCc
Q psy16551        199 EGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGHSPT  270 (281)
Q Consensus       199 ~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~c~~~~~  270 (281)
                      .+|++|+++|..++.+.++|+.||++||+|..|+++|.+..++ .++|++||+.||.++|+++|.+|+..+.
T Consensus         4 ~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~-~~~g~~yC~~cy~~~~~~~C~~C~~~I~   74 (126)
T 2xqn_T            4 PRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYV-MVNDKPVCKPCYVKNHAVVCQGCHNAID   74 (126)
T ss_dssp             CBBTTTSSBCCSSCEEEETTEEECGGGSBCTTTCCBCTTSEEE-EETTEEEEHHHHHHHSCCBCTTTCSBCC
T ss_pred             CCCccCCCEeCCceEEeeCCCCccCCCCCcCCCCCCCCcCEEE-eECCEEechHHhCcCcCccCcccCCcCC
Confidence            4899999999878888899999999999999999999876554 6999999999999999999999998765

>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=99.52  E-value=4.8e-15  Score=102.84  Aligned_cols=62  Identities=26%  Similarity=0.500  Sum_probs=56.6

Q ss_pred             CCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCC
Q psy16551         94 PGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP  157 (281)
Q Consensus        94 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~  157 (281)
                      ..+.|++|+++|. ++.+.++++.||++||+|..|+++|.+..++ .++|++||+.||.++|++
T Consensus         4 ~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~~y~~~f~~   65 (66)
T 1nyp_A            4 GVPICGACRRPIE-GRVVNAMGKQWHVEHFVCAKCEKPFLGHRHY-ERKGLAYCETHYNQLFGD   65 (66)
T ss_dssp             CCCEETTTTEECC-SCEECCTTSBEETTTCBCTTTCCBCSSSCCE-EETTEEECHHHHHHHCSC
T ss_pred             CCCCCcccCCEec-ceEEEECccccccCcCEECCCCCCCCCCceE-eECCcEECHHHHHHHhCC
Confidence            4678999999998 7889999999999999999999999986666 499999999999999987

>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=99.52  E-value=1.3e-14  Score=106.83  Aligned_cols=66  Identities=24%  Similarity=0.457  Sum_probs=58.5

Q ss_pred             CCCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCCCC
Q psy16551         93 APGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGY  160 (281)
Q Consensus        93 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~~  160 (281)
                      .....|.+|++.|++ +++.++++.||.+||+|..|++.|....++. +++++||+.||.++|+++|.
T Consensus        23 ~~~~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~-~~g~~yC~~~y~~~f~p~~~   88 (89)
T 1x64_A           23 QRMPLCDKCGSGIVG-AVVKARDKYRHPECFVCADCNLNLKQKGYFF-VEGELYCETHARARTSGPSS   88 (89)
T ss_dssp             CSCCBCTTTCCBCCS-CCEESSSCEECTTTCCCSSSCCCTTTSCCEE-ETTEEECHHHHHHHSSSCCC
T ss_pred             CcCCCcccCCCEecc-cEEEECCceECccCCEecCCCCCCCCCCeEe-ECCEEECHHHHHHHhCCCCC
Confidence            345789999999975 7899999999999999999999999766664 89999999999999999764

>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=99.51  E-value=1.3e-14  Score=105.15  Aligned_cols=64  Identities=27%  Similarity=0.557  Sum_probs=57.7

Q ss_pred             CCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeee-CCCCcccCccchhhccCC
Q psy16551         94 PGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACD-GPDKDIYCKTCYGKKWGP  157 (281)
Q Consensus        94 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~-~~~g~~~C~~cy~~~~~~  157 (281)
                      ....|.+|++.|+..+++.++++.||++||+|..|++.|....++. .++|++||+.||.++|.+
T Consensus        14 ~~~~C~~C~~~I~~~e~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~   78 (82)
T 2co8_A           14 AGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQTDSG   78 (82)
T ss_dssp             SSCBCSSSCCBCCTTTBCCBTTBCCBTTTCBCSSSCCBCCTTSEECCTTTCCCEETTTCCCCCCC
T ss_pred             CCCCCcccCCCcccceEEEECCCeeCCCcCEEcCCCCCcCCCceeEeCcCCEEEChHHHHhhhcC
Confidence            4578999999999889999999999999999999999999887763 489999999999998865

>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=99.51  E-value=1.6e-14  Score=106.78  Aligned_cols=69  Identities=28%  Similarity=0.633  Sum_probs=60.9

Q ss_pred             cCCCCCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCCC
Q psy16551         90 IKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHG  159 (281)
Q Consensus        90 ~~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~  159 (281)
                      +.......|++|++.|++.+.+.++++.||.+||+|..|+++|....++ .+++++||+.||.++|+++|
T Consensus        10 ~~~~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~~y~~~f~~kc   78 (91)
T 2d8y_A           10 FQAPARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYA-SLHGRIYCKPHFNQLFKSKG   78 (91)
T ss_dssp             SCSSSSCBCTTTCCBCCTTSEEECSSSEEETTTCBCTTTCCBCCTTTCC-CSSSCCCCHHHHHHHSCCCS
T ss_pred             cCCCCCCcCccCCCccCCceeEEECCCEECCCCCeeCCCCCCCCCCCcE-eECCEEECHHHHHHHhCCCc
Confidence            3344567899999999988899999999999999999999999987655 59999999999999999953

>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=4.2e-15  Score=106.29  Aligned_cols=66  Identities=27%  Similarity=0.583  Sum_probs=56.4

Q ss_pred             CCCCCCCCCCcccccce-eeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCC
Q psy16551        197 KGEGCPRCGGAVFAAEQ-QLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGF  263 (281)
Q Consensus       197 ~~~~C~~C~~~I~~~~~-v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~  263 (281)
                      ...+|++|+++|...+. +.+.|+.||++||+|..|+++|....++ ..+|++||+.||.++|+++|+
T Consensus        10 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~~y~~~f~~~C~   76 (77)
T 1g47_A           10 ASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFY-EFEGRKYCEHDFQMLFAPCWI   76 (77)
T ss_dssp             CCCBCSSSCCBCCSTTTCEEETTEEECTTTCCCTTTCCCCGGGCSE-EETTEEECHHHHHHHCCCC--
T ss_pred             CCCCchhcCCccCCCceEEEeCccEeccccCeECCCCCCCCCCCeE-eECCeEeCHHHHHHHhhcccC
Confidence            44599999999986554 4599999999999999999999776654 689999999999999999995

>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=99.51  E-value=9.4e-15  Score=102.28  Aligned_cols=65  Identities=23%  Similarity=0.619  Sum_probs=58.1

Q ss_pred             CCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCCCC
Q psy16551         94 PGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGY  160 (281)
Q Consensus        94 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~~  160 (281)
                      ..+.|.+|+++|. ++.+.++++.||++||+|..|+++|.+..++ .+++++||+.||.++|++++.
T Consensus         4 ~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~cy~~~f~~~C~   68 (69)
T 2cur_A            4 GSSGCVKCNKAIT-SGGITYQDQPWHADCFVCVTCSKKLAGQRFT-AVEDQYYCVDCYKNFVSGPSS   68 (69)
T ss_dssp             CCCCCSSSCCCCC-TTCEEETTEEECTTTTBCTTTCCBCTTSCEE-ECSSCEEEHHHHHHHHTCSCC
T ss_pred             CcCCCcccCCEeC-cceEEECccccccCcCEECCCCCCCCCCccE-eECCEEECHHHhHHHhcCCCC
Confidence            4578999999997 5789999999999999999999999876666 499999999999999998754

>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=99.51  E-value=1.5e-14  Score=104.13  Aligned_cols=73  Identities=23%  Similarity=0.580  Sum_probs=66.1

Q ss_pred             cccccccCCCCCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCC
Q psy16551         84 VIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPH  158 (281)
Q Consensus        84 ~~~~~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~  158 (281)
                      +++..++.....+.|++|+++|.+ +.+.++++.||.+||+|..|+++|.+..++ .+++++||+.||.++|+++
T Consensus         4 ~yC~~cy~~~~~~~C~~C~~~I~~-~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~cy~~~f~~~   76 (80)
T 2cuq_A            4 GSSGPCYENKFAPRCARCSKTLTQ-GGVTYRDQPWHRECLVCTGCQTPLAGQQFT-SRDEDPYCVACFGELFASG   76 (80)
T ss_dssp             CSCCCCCCCCSSCCCTTTCCCCCS-CCEESSSSEECTTTCBCSSSCCBCTTCCEE-ECSSSEEEHHHHHHHTTCS
T ss_pred             EEcHHHHccccCCcCCCCCCEecC-cEEEECCchhhhhhCCcccCCCcCCCCeeE-eECCEEECHHHHHHHcCCC
Confidence            578889999889999999999975 688999999999999999999999876666 4999999999999999984

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

Probab=99.51  E-value=1.3e-14  Score=120.89  Aligned_cols=70  Identities=24%  Similarity=0.501  Sum_probs=63.5

Q ss_pred             CCCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCCcCCCCCc
Q psy16551        199 EGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGHSPT  270 (281)
Q Consensus       199 ~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~c~~~~~  270 (281)
                      .+|++|+++|...+.+.++++.||++||+|..|+++|.+..|  .++|++||..||.++|+++|.+|+..+.
T Consensus        61 ~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f--~~~g~~yC~~~y~~~f~~kC~~C~~~I~  130 (182)
T 2jtn_A           61 PMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF--SRGESVYCKDDFFKRFGTKCAACQLGIP  130 (182)
T ss_dssp             CBCBTSSSBCCCSEEEEETTEEECSSTTSCTTTCCCCSSCCE--EETTEEECHHHHHHTTSCCCTTTCCCCC
T ss_pred             CcCccCCCCccCceeEEecCCeEccccCccCCCCCccCCCce--eECCEeeecCccccccccccccCCCccC
Confidence            499999999987767779999999999999999999987654  5899999999999999999999998764

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

Probab=99.51  E-value=1.7e-14  Score=106.13  Aligned_cols=67  Identities=21%  Similarity=0.428  Sum_probs=58.7

Q ss_pred             CCCCCCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCCc
Q psy16551        196 RKGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFG  264 (281)
Q Consensus       196 ~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~  264 (281)
                      ....+|++|++.|.. +.+.++++.||++||+|..|++.|....++ ..++++||+.||.++|+++|.+
T Consensus        23 ~~~~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~~y~~~f~p~~~g   89 (89)
T 1x64_A           23 QRMPLCDKCGSGIVG-AVVKARDKYRHPECFVCADCNLNLKQKGYF-FVEGELYCETHARARTSGPSSG   89 (89)
T ss_dssp             CSCCBCTTTCCBCCS-CCEESSSCEECTTTCCCSSSCCCTTTSCCE-EETTEEECHHHHHHHSSSCCCC
T ss_pred             CcCCCcccCCCEecc-cEEEECCceECccCCEecCCCCCCCCCCeE-eECCEEECHHHHHHHhCCCCCC
Confidence            345689999999975 667799999999999999999999876665 5799999999999999999864

>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=99.50  E-value=1.4e-14  Score=102.18  Aligned_cols=65  Identities=23%  Similarity=0.548  Sum_probs=56.9

Q ss_pred             CCCCCCCCCCcccc---cceeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCC
Q psy16551        197 KGEGCPRCGGAVFA---AEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKG  262 (281)
Q Consensus       197 ~~~~C~~C~~~I~~---~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c  262 (281)
                      +..+|++|+++|..   .+.+.++++.||++||+|..|+++|.+..|+ ..++++||+.||.++|++++
T Consensus         4 ~~~~C~~C~~~I~~~~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~-~~~g~~yC~~c~~~~~~p~~   71 (72)
T 1x4l_A            4 GSSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFL-TERDDILCPDCGKDISGPSS   71 (72)
T ss_dssp             CSCSBTTTTBCCCCSSSCSCEECSSCEECTTTCBCSSSCCBCTTSCCE-ECSSSEECHHHHHTCCCSSC
T ss_pred             CCCCCcCCCccccCCCCcceEEECCcccCcccCEeccCCCcCCCCccE-eECCEEEChhHcCcccCCCC
Confidence            34599999999985   3566789999999999999999999876664 58999999999999999986

>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=99.50  E-value=5.4e-15  Score=102.57  Aligned_cols=62  Identities=24%  Similarity=0.505  Sum_probs=55.7

Q ss_pred             CCCCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCC
Q psy16551        198 GEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPK  261 (281)
Q Consensus       198 ~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~  261 (281)
                      ..+|++|+++|. ++.+.++++.||++||+|..|+++|.+..++ ..+|++||+.||.++|++|
T Consensus         5 ~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~~y~~~f~~k   66 (66)
T 1nyp_A            5 VPICGACRRPIE-GRVVNAMGKQWHVEHFVCAKCEKPFLGHRHY-ERKGLAYCETHYNQLFGDV   66 (66)
T ss_dssp             CCEETTTTEECC-SCEECCTTSBEETTTCBCTTTCCBCSSSCCE-EETTEEECHHHHHHHCSCC
T ss_pred             CCCCcccCCEec-ceEEEECccccccCcCEECCCCCCCCCCceE-eECCcEECHHHHHHHhCCC
Confidence            348999999997 7778899999999999999999999876664 6999999999999999986

>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=99.49  E-value=3.2e-14  Score=104.89  Aligned_cols=66  Identities=26%  Similarity=0.630  Sum_probs=59.1

Q ss_pred             CCCCCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCC
Q psy16551         91 KAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPH  158 (281)
Q Consensus        91 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~  158 (281)
                      .....+.|++|+++|. ++++.++++.||++||+|..|+++|.+..|+ .+++++||+.||.++|+|+
T Consensus        21 ~~~~~~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~f~-~~~g~~yC~~cy~~~f~~~   86 (90)
T 2dar_A           21 AGKRTPMCAHCNQVIR-GPFLVALGKSWHPEEFNCAHCKNTMAYIGFV-EEKGALYCELCYEKFFASG   86 (90)
T ss_dssp             TTTCCCBBSSSCCBCC-SCEEEETTEEECTTTCBCSSSCCBCSSSCBE-ESSSCEECHHHHHHHTSCC
T ss_pred             CCCCCCCCccCCCEec-ceEEEECCccccccCCccCCCCCCCCCCEeE-eECCEEECHHHHHHHcCCC
Confidence            3456789999999995 6889999999999999999999999977666 4999999999999999985

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

Probab=99.49  E-value=7.2e-15  Score=105.75  Aligned_cols=65  Identities=20%  Similarity=0.435  Sum_probs=57.8

Q ss_pred             CCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCCCC
Q psy16551         94 PGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGY  160 (281)
Q Consensus        94 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~~  160 (281)
                      ..+.|.+|+++|++ +++.++++.||.+||+|..|++.|....++ .+++++||+.||.++|+|+|.
T Consensus        14 ~~~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~cy~~~~~p~g~   78 (79)
T 1x62_A           14 KLPMCDKCGTGIVG-VFVKLRDRHRHPECYVCTDCGTNLKQKGHF-FVEDQIYCEKHARERVSGPSS   78 (79)
T ss_dssp             CCCCCSSSCCCCCS-SCEECSSCEECTTTTSCSSSCCCHHHHCCE-ESSSCEECHHHHHHHHSSCCC
T ss_pred             CCCccccCCCCccC-cEEEECcceeCcCcCeeCCCCCCCCCCCeE-eECCEEECHHHHHHHhCCCCC
Confidence            35789999999975 789999999999999999999999876565 499999999999999999754

>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=99.49  E-value=2.1e-14  Score=101.33  Aligned_cols=64  Identities=25%  Similarity=0.647  Sum_probs=57.0

Q ss_pred             CCCCCcCCCccccc---cceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCC
Q psy16551         94 PGKGCPRCGGVVFA---AEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPH  158 (281)
Q Consensus        94 ~~~~C~~C~~~I~~---~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~  158 (281)
                      ..+.|.+|+++|.+   .+++.++++.||++||+|..|+++|.+..|+. ++|++||+.||.++|+|+
T Consensus         4 ~~~~C~~C~~~I~~~~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~-~~g~~yC~~c~~~~~~p~   70 (72)
T 1x4l_A            4 GSSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLT-ERDDILCPDCGKDISGPS   70 (72)
T ss_dssp             CSCSBTTTTBCCCCSSSCSCEECSSCEECTTTCBCSSSCCBCTTSCCEE-CSSSEECHHHHHTCCCSS
T ss_pred             CCCCCcCCCccccCCCCcceEEECCcccCcccCEeccCCCcCCCCccEe-ECCEEEChhHcCcccCCC
Confidence            45789999999984   47788999999999999999999999777664 999999999999999884

>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=99.48  E-value=1.9e-14  Score=101.52  Aligned_cols=65  Identities=29%  Similarity=0.763  Sum_probs=58.2

Q ss_pred             CCCCCCcCCCcccccc-ceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCC
Q psy16551         93 APGKGCPRCGGVVFAA-EQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPH  158 (281)
Q Consensus        93 ~~~~~C~~C~~~I~~~-~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~  158 (281)
                      ...+.|.+|+++|... +++.++++.||.+||+|..|+++|....++ .++|++||+.||.++|+++
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~cy~~~f~~~   68 (72)
T 1wyh_A            3 SGSSGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFV-PDKGAHYCVPCYENKFASG   68 (72)
T ss_dssp             CCCCBCSSSCCBCCSSSCEECSTTCCEETTTCBCTTTCCBTTTSCEE-EETTEEEEHHHHHHHTSCC
T ss_pred             ccCCCCccCCCccccCccEEEECccccCcccCeECCCCCcCCCCccC-CcCCeEECHHHHHHHccCc
Confidence            3567899999999874 778999999999999999999999987766 4899999999999999984

>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=99.48  E-value=3.2e-14  Score=99.78  Aligned_cols=64  Identities=25%  Similarity=0.651  Sum_probs=57.2

Q ss_pred             CCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCCC
Q psy16551         94 PGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHG  159 (281)
Q Consensus        94 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~  159 (281)
                      ..+.|.+|+++|. ++.+.++++.||++||+|..|+++|.+..++ .+++++||+.||.++|++++
T Consensus         4 ~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~cy~~~f~~~c   67 (70)
T 2d8z_A            4 GSSGCVQCKKPIT-TGGVTYREQPWHKECFVCTACRKQLSGQRFT-ARDDFAYCLNCFCDLYASGP   67 (70)
T ss_dssp             CCCBCSSSCCBCC-SSEEESSSSEEETTTSBCSSSCCBCTTSCCE-ESSSSEECHHHHHHHTCCCC
T ss_pred             CCCCCcccCCeec-cceEEECccccCCCCCccCCCCCcCCcCceE-eeCCeEECHHHHHHHhcccc
Confidence            4578999999997 5779999999999999999999999877666 49999999999999999853

>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=99.48  E-value=2e-14  Score=100.85  Aligned_cols=65  Identities=22%  Similarity=0.590  Sum_probs=57.4

Q ss_pred             CCCCCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCC
Q psy16551        197 KGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGF  263 (281)
Q Consensus       197 ~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~  263 (281)
                      +..+|+.|+++|. ++.+.++++.||++||+|..|+++|....|+ ..++++||..||.++|+++..
T Consensus         4 ~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~-~~~g~~yC~~c~~~~~~~~~~   68 (70)
T 2d8x_A            4 GSSGCHQCGEFII-GRVIKAMNNSWHPECFRCDLCQEVLADIGFV-KNAGRHLCRPCHNREKASGPS   68 (70)
T ss_dssp             CSSBCSSSCCBCC-SCCEEETTEEECTTTSBCSSSCCBCSSSCCE-EETTEEECHHHHHHHHCCCSC
T ss_pred             CCCcCccCCCEec-ceEEEECcccccccCCEeCCCCCcCCCCccE-eECCeEECHHHhhhhcCCCCC
Confidence            4458999999997 5677899999999999999999999877654 589999999999999998874

>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=99.47  E-value=9.6e-15  Score=105.08  Aligned_cols=66  Identities=20%  Similarity=0.403  Sum_probs=57.8

Q ss_pred             CCCCCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCCc
Q psy16551        197 KGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFG  264 (281)
Q Consensus       197 ~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~  264 (281)
                      ...+|++|+++|.. +.+.++++.||++||+|..|++.|....++ ..++++||+.||.++|++++.+
T Consensus        14 ~~~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~cy~~~~~p~g~g   79 (79)
T 1x62_A           14 KLPMCDKCGTGIVG-VFVKLRDRHRHPECYVCTDCGTNLKQKGHF-FVEDQIYCEKHARERVSGPSSG   79 (79)
T ss_dssp             CCCCCSSSCCCCCS-SCEECSSCEECTTTTSCSSSCCCHHHHCCE-ESSSCEECHHHHHHHHSSCCCC
T ss_pred             CCCccccCCCCccC-cEEEECcceeCcCcCeeCCCCCCCCCCCeE-eECCEEECHHHHHHHhCCCCCC
Confidence            34599999999975 577899999999999999999999765554 6899999999999999999864

>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=99.47  E-value=2.4e-14  Score=100.89  Aligned_cols=65  Identities=26%  Similarity=0.742  Sum_probs=58.0

Q ss_pred             CCCCCCcCCCcccccc-ceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCC
Q psy16551         93 APGKGCPRCGGVVFAA-EQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPH  158 (281)
Q Consensus        93 ~~~~~C~~C~~~I~~~-~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~  158 (281)
                      ...+.|.+|+++|... .++.++++.||.+||+|..|+++|....++ .++|++||+.||.++|+++
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~cy~~~f~~~   68 (72)
T 1x4k_A            3 SGSSGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFI-PKDNQNFCVPCYEKQHASG   68 (72)
T ss_dssp             SCCCCBSSSCCCCCSSSCEEEETTEEEETTTTCCSSSCCCCCSSSEE-EETTEEEEHHHHHHHTSSC
T ss_pred             ccCCCCccCCCcccCCceEEEECcCeecccCCcccccCCccCCCccC-ccCCeEECHHHHhHHhCCC
Confidence            3567899999999875 578899999999999999999999987766 4999999999999999984

>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=99.46  E-value=2.9e-14  Score=102.61  Aligned_cols=64  Identities=20%  Similarity=0.361  Sum_probs=56.6

Q ss_pred             CCCCCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCC
Q psy16551        197 KGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGF  263 (281)
Q Consensus       197 ~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~  263 (281)
                      +..+|++|+++|. ++.+.++++.||++||+|..|+++|.+.. + ..+|++||..||.++|++.+.
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 GKYICQKCHAIID-EQPLIFKNDPYHPDHFNCANCGKELTADA-R-ELKGELYCLPCHDKMGVSGPS   77 (79)
T ss_dssp             CCCBCTTTCCBCC-SCCCCCSSSCCCTTTSBCSSSCCBCCTTC-E-EETTEEECHHHHHTTSCCSSC
T ss_pred             CCCCCccCCCEec-ceEEEECcceeCCCCCEeCCCCCccCCCC-E-eECCEEeCHHHHHHhCCCCCC
Confidence            3458999999997 66788999999999999999999998764 3 689999999999999999764

>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=99.46  E-value=3.7e-14  Score=101.36  Aligned_cols=70  Identities=24%  Similarity=0.552  Sum_probs=62.3

Q ss_pred             ccccccccCCCCCCCCcCCCccccc----cceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhh
Q psy16551         83 TVIDTAKIKAAPGKGCPRCGGVVFA----AEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGK  153 (281)
Q Consensus        83 ~~~~~~~~~~~~~~~C~~C~~~I~~----~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~  153 (281)
                      .+++..++.....+.|++|+++|.+    .+.+.++++.||++||+|..|+++|.+..++ .++|++||+.||.+
T Consensus         3 ~~yC~~cy~~~~~~~C~~C~~~I~~~g~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~-~~~~~~yC~~cy~~   76 (77)
T 2egq_A            3 SGSSGDCYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFV-FHQEQVYCPDCAKK   76 (77)
T ss_dssp             SSCCTTCCCSCCCCCCSSSCCCCCCCSSCCCEEEETTEEEETTTCBCSSSCCBCTTSCCC-EETTEECCHHHHHH
T ss_pred             CeEchhHhchhhCccCcccCCcccCCCCCceeEEECcceeCcccCEehhcCCCCCCCccE-eECCEEEChHHhcc
Confidence            3578889999999999999999983    4788999999999999999999999977666 49999999999975

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

Probab=99.45  E-value=2.9e-14  Score=101.89  Aligned_cols=65  Identities=25%  Similarity=0.532  Sum_probs=56.8

Q ss_pred             CCCCCCcCCCccccccce-eeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCC
Q psy16551         93 APGKGCPRCGGVVFAAEQ-VLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPH  158 (281)
Q Consensus        93 ~~~~~C~~C~~~I~~~~~-~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~  158 (281)
                      .....|++|+++|+..+. +.++|+.||.+||+|..|+++|....++ .++|++||+.||.++|+++
T Consensus         9 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~~y~~~f~~~   74 (77)
T 1g47_A            9 LASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFY-EFEGRKYCEHDFQMLFAPC   74 (77)
T ss_dssp             CCCCBCSSSCCBCCSTTTCEEETTEEECTTTCCCTTTCCCCGGGCSE-EETTEEECHHHHHHHCCCC
T ss_pred             CCCCCchhcCCccCCCceEEEeCccEeccccCeECCCCCCCCCCCeE-eECCeEeCHHHHHHHhhcc
Confidence            456889999999986444 5799999999999999999999976665 4999999999999999983

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

Probab=99.44  E-value=3.1e-14  Score=112.12  Aligned_cols=72  Identities=19%  Similarity=0.297  Sum_probs=62.8

Q ss_pred             CCCCCCCCcccccceeeecCcccccccccccccCCCCCC-CccccCCCCcccChhhhccccCC--CCCcCCCCCc
Q psy16551        199 EGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDS-VLACDGPDKEIYCKACYGKNFGP--KGFGYGHSPT  270 (281)
Q Consensus       199 ~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~-~~~~~~~~g~~~C~~c~~~~f~~--~c~~c~~~~~  270 (281)
                      .+|++|+++|...+.+.++++.||++||+|..|+++|.. +..++.++|++||+.||.++|++  +|.+|+..+.
T Consensus         3 ~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~~~~C~~C~~~I~   77 (131)
T 2xjy_A            3 LTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIR   77 (131)
T ss_dssp             CBBTTTCCBCCSSEEEEETTEEEETTTCBCTTTCCBCSSTTCCEEEETTEEECHHHHHHHHCCCEECTTTCCEEC
T ss_pred             ccCcCCCCEeCCcEEEEECCCcccHHHcccCcCCCccccCCCeEEEECCEEeecCchhhhCCCccChhhcCCccC
Confidence            489999999987767789999999999999999999963 22334699999999999999999  9999998663

>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=99.43  E-value=4.6e-14  Score=116.12  Aligned_cols=71  Identities=24%  Similarity=0.473  Sum_probs=63.5

Q ss_pred             CCCCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCCcCCCCCc
Q psy16551        198 GEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGHSPT  270 (281)
Q Consensus       198 ~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~c~~~~~  270 (281)
                      ..+|++|+++|...+.+.++|+.||++||+|..|+++|.+..|  .+||++||..||.++|+++|.+|+..+.
T Consensus         6 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f--~~~g~~yC~~~y~~~f~~~C~~C~~~I~   76 (169)
T 2rgt_A            6 IPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF--SRGESVYCKDDFFKRFGTKCAACQLGIP   76 (169)
T ss_dssp             -CBBSSSSSBCCSSSCEECSSCEECTTTSBCTTTCCBCCSCCE--ESSSCEECHHHHHHHHSCBCTTTCCBCC
T ss_pred             CCccccCCCccCCcEEEEECCcEEccccCccCCCCCcCCCCCc--ccCCeeeecccccccccccccccccccC
Confidence            3489999999987767779999999999999999999987654  5899999999999999999999998764

>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=99.43  E-value=5.1e-14  Score=98.75  Aligned_cols=63  Identities=24%  Similarity=0.680  Sum_probs=56.6

Q ss_pred             CCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCC
Q psy16551         94 PGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPH  158 (281)
Q Consensus        94 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~  158 (281)
                      ....|.+|+++|. ++++.++++.||++||+|..|+++|....|+ .++|++||+.||.++|+++
T Consensus         4 ~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~-~~~g~~yC~~c~~~~~~~~   66 (70)
T 2d8x_A            4 GSSGCHQCGEFII-GRVIKAMNNSWHPECFRCDLCQEVLADIGFV-KNAGRHLCRPCHNREKASG   66 (70)
T ss_dssp             CSSBCSSSCCBCC-SCCEEETTEEECTTTSBCSSSCCBCSSSCCE-EETTEEECHHHHHHHHCCC
T ss_pred             CCCcCccCCCEec-ceEEEECcccccccCCEeCCCCCcCCCCccE-eECCeEECHHHhhhhcCCC
Confidence            4578999999997 5789999999999999999999999987666 4899999999999999873

>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=99.42  E-value=7.7e-14  Score=98.34  Aligned_cols=67  Identities=25%  Similarity=0.635  Sum_probs=56.0

Q ss_pred             CCCCCCCCCCcccccc-eeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCCcC
Q psy16551        197 KGEGCPRCGGAVFAAE-QQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGY  265 (281)
Q Consensus       197 ~~~~C~~C~~~I~~~~-~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~c  265 (281)
                      +..+|++|+++|...+ .+.++++.||++||+|..|+++|.+..++ ..++++||+.||.++|+ +|..+
T Consensus         4 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~cy~~~~~-~~~~~   71 (72)
T 1x61_A            4 GSSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFY-AVERRAYCEGCYVATLE-SGPSS   71 (72)
T ss_dssp             CCCCCSSSCSCCCSSSCCEECSSSEECTTTCBCSSSCCBCTTSCEE-ESSSCEEEHHHHHHHHH-TCSSC
T ss_pred             CCCCCccCCCccCCCceEEEECCCeEcccCCcccccCCcCCcCcCE-eeCCeEECHHHHHHHHc-cCCCC
Confidence            3459999999998654 67799999999999999999999765554 68999999999999984 45443

>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=99.42  E-value=8.9e-14  Score=100.02  Aligned_cols=63  Identities=21%  Similarity=0.468  Sum_probs=56.5

Q ss_pred             CCCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCCC
Q psy16551         93 APGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPH  158 (281)
Q Consensus        93 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~  158 (281)
                      ...++|++|+++|. ++.+.++++.||++||+|..|+++|.... + .++|++||+.||.++|+|.
T Consensus        13 ~~~~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~-f-~~~g~~yC~~cy~~~f~p~   75 (79)
T 2cor_A           13 LGKYICQKCHAIID-EQPLIFKNDPYHPDHFNCANCGKELTADA-R-ELKGELYCLPCHDKMGVSG   75 (79)
T ss_dssp             CCCCBCTTTCCBCC-SCCCCCSSSCCCTTTSBCSSSCCBCCTTC-E-EETTEEECHHHHHTTSCCS
T ss_pred             cCCCCCccCCCEec-ceEEEECcceeCCCCCEeCCCCCccCCCC-E-eECCEEeCHHHHHHhCCCC
Confidence            34578999999998 68899999999999999999999999775 3 5899999999999999884

>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=99.41  E-value=1e-13  Score=108.23  Aligned_cols=63  Identities=29%  Similarity=0.639  Sum_probs=55.1

Q ss_pred             CCCCCCcCCCccccccceeeccCcccccCceeccccCCCCC--CCCeeeCCCCcccCccchhhccC
Q psy16551         93 APGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLD--SINACDGPDKDIYCKTCYGKKWG  156 (281)
Q Consensus        93 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~--~~~~~~~~~g~~~C~~cy~~~~~  156 (281)
                      ...+.|++|+++|++.+++.++++.||++||+|..|+++|.  +..++ .++|++||+.||.++|+
T Consensus        59 ~~~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~~g~~f~-~~dg~~yC~~cy~~~Fg  123 (123)
T 2l4z_A           59 LSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSY-TKSGMILCRNDYIRLFG  123 (123)
T ss_dssp             SSCSBBSSSSSBCCSSSEEEETTEEEETTTSBCTTTCCBGGGTTCCCB-CSSSCCBCHHHHHHHCC
T ss_pred             ccCCcCcCCCCCcCCcEEEEeCCcEEcccccCcCcCCCcccccCCceE-EECCEEeCHHHhhhhcC
Confidence            34678999999999777799999999999999999999997  23444 69999999999999885

>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=99.41  E-value=1.2e-13  Score=97.38  Aligned_cols=63  Identities=27%  Similarity=0.628  Sum_probs=55.4

Q ss_pred             CCCCCcCCCcccccc-ceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCC
Q psy16551         94 PGKGCPRCGGVVFAA-EQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP  157 (281)
Q Consensus        94 ~~~~C~~C~~~I~~~-~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~  157 (281)
                      ..+.|.+|+++|+.. ..+.++++.||.+||+|..|+++|.+..++ .+++++||+.||.++|..
T Consensus         4 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~cy~~~~~~   67 (72)
T 1x61_A            4 GSSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFY-AVERRAYCEGCYVATLES   67 (72)
T ss_dssp             CCCCCSSSCSCCCSSSCCEECSSSEECTTTCBCSSSCCBCTTSCEE-ESSSCEEEHHHHHHHHHT
T ss_pred             CCCCCccCCCccCCCceEEEECCCeEcccCCcccccCCcCCcCcCE-eeCCeEECHHHHHHHHcc
Confidence            467899999999864 578899999999999999999999876666 499999999999998853

>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=99.41  E-value=1.2e-13  Score=97.87  Aligned_cols=62  Identities=16%  Similarity=0.378  Sum_probs=54.5

Q ss_pred             CCCCCcCCCccccccceeeccCcccccCceeccccCCCCC-CCCeeeCCCCcccCccchhhccCC
Q psy16551         94 PGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLD-SINACDGPDKDIYCKTCYGKKWGP  157 (281)
Q Consensus        94 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~-~~~~~~~~~g~~~C~~cy~~~~~~  157 (281)
                      +.+.|++|+++|.+ +.+.++++.||++||+|..|+++|. +..++ .+++++||+.||.+++..
T Consensus         4 ~~~~C~~C~~~I~~-~~v~a~~~~wH~~CF~C~~C~~~L~~~~~f~-~~~~~~yC~~C~~~~~~~   66 (73)
T 1wig_A            4 GSSGCDSCEKYITG-RVLEAGEKHYHPSCALCVRCGQMFAEGEEMY-LQGSSIWHPACRQAARTE   66 (73)
T ss_dssp             SCCSCSSSCCCCSS-CCBCCSSCCBCTTTSCCSSSCCCCCSSCCCE-EETTEEECTTHHHHTSSS
T ss_pred             CcCCcccCCCEecC-eeEEeCCCCCCCCcCEeCCCCCCCCCCCeeE-eeCCEEEChHHChHhhcc
Confidence            46789999999975 8899999999999999999999998 45554 589999999999988764

>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=99.41  E-value=7.2e-14  Score=98.24  Aligned_cols=65  Identities=23%  Similarity=0.522  Sum_probs=56.6

Q ss_pred             CCCCCCCCcCCCccccccce-eeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccC
Q psy16551         91 KAAPGKGCPRCGGVVFAAEQ-VLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG  156 (281)
Q Consensus        91 ~~~~~~~C~~C~~~I~~~~~-~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~  156 (281)
                      .......|++|+++|...+. +.+.++.||++||+|..|+++|....++ .++|++||+.||.++|+
T Consensus         7 ~~~~~~~C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~~y~~lf~   72 (72)
T 3f6q_B            7 QGSASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFY-EFEGRKYCEHDFQMLFA   72 (72)
T ss_dssp             CCCTTCBCTTTCCBCCTTCEEEEETTEEEETTTSSCTTTCCCCGGGCCE-EETTEEECHHHHHHHTC
T ss_pred             cCcCCccchhcCccccCCceEEEeCcCeeCcCCCcccCCCCCCCCCCeE-eECCeEeCHHHHHHhhC
Confidence            44567899999999987775 5799999999999999999999877655 49999999999999874

>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=99.41  E-value=1.5e-13  Score=97.34  Aligned_cols=66  Identities=17%  Similarity=0.243  Sum_probs=55.4

Q ss_pred             CCCCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCCc
Q psy16551        198 GEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFG  264 (281)
Q Consensus       198 ~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~  264 (281)
                      ..+|++|+++|.. +.+.++++.||++||+|..|+++|..+..++..++++||..||.++++..-.+
T Consensus         5 ~~~C~~C~~~I~~-~~v~a~~~~wH~~CF~C~~C~~~L~~~~~f~~~~~~~yC~~C~~~~~~~~~~r   70 (73)
T 1wig_A            5 SSGCDSCEKYITG-RVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWHPACRQAARTEDSGP   70 (73)
T ss_dssp             CCSCSSSCCCCSS-CCBCCSSCCBCTTTSCCSSSCCCCCSSCCCEEETTEEECTTHHHHTSSSSCCS
T ss_pred             cCCcccCCCEecC-eeEEeCCCCCCCCcCEeCCCCCCCCCCCeeEeeCCEEEChHHChHhhcccccC
Confidence            4599999999965 67779999999999999999999973344456899999999999988865433

>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=99.40  E-value=1.1e-13  Score=116.24  Aligned_cols=72  Identities=47%  Similarity=0.957  Sum_probs=64.7

Q ss_pred             CCCCCCCCCCcccccceeeecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccCCCCCcCCCCC
Q psy16551        197 KGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGHSP  269 (281)
Q Consensus       197 ~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~c~~~~  269 (281)
                      +..+|.+|+++|..++.+.++++.||++||+|..|+++|....++ ..+|++||+.||.++|+++|.+|+.+.
T Consensus         6 ~~~~C~~C~~~I~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~cy~~~f~~~c~~c~~~~   77 (192)
T 1b8t_A            6 GGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVA-VHGDEIYCKSCYGKKYGPKGKGKGMGA   77 (192)
T ss_dssp             CCEECTTTCCEECSSCCEEETTEEECTTTCBCTTTCCBCCSSSEE-EETTEEEEHHHHHHHHSCCCCCCCCCC
T ss_pred             CCCcCccCCCeecceeEEEeCCceecCCCCcCcccCCcCCCCeeE-ecCCEeeChhhhHhhcCcccccccccc
Confidence            345899999999888888899999999999999999999877654 689999999999999999999998665

>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=99.39  E-value=1.1e-13  Score=97.27  Aligned_cols=62  Identities=27%  Similarity=0.608  Sum_probs=54.3

Q ss_pred             CCCCCCCCCCccccccee-eecCcccccccccccccCCCCCCCccccCCCCcccChhhhccccC
Q psy16551        197 KGEGCPRCGGAVFAAEQQ-LAKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG  259 (281)
Q Consensus       197 ~~~~C~~C~~~I~~~~~v-~~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~  259 (281)
                      ...+|++|+++|...+.+ .+.++.||++||+|..|+++|....++ ..+|++||+.||.++||
T Consensus        10 ~~~~C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~~y~~lf~   72 (72)
T 3f6q_B           10 ASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFY-EFEGRKYCEHDFQMLFA   72 (72)
T ss_dssp             TTCBCTTTCCBCCTTCEEEEETTEEEETTTSSCTTTCCCCGGGCCE-EETTEEECHHHHHHHTC
T ss_pred             CCccchhcCccccCCceEEEeCcCeeCcCCCcccCCCCCCCCCCeE-eECCeEeCHHHHHHhhC
Confidence            455999999999877765 599999999999999999999766554 68999999999999986

>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=99.39  E-value=1.7e-13  Score=106.85  Aligned_cols=62  Identities=26%  Similarity=0.610  Sum_probs=54.2

Q ss_pred             CCCCCCCCCCcccccceeeecCcccccccccccccCCCCC--CCccccCCCCcccChhhhccccC
Q psy16551        197 KGEGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLD--SVLACDGPDKEIYCKACYGKNFG  259 (281)
Q Consensus       197 ~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~--~~~~~~~~~g~~~C~~c~~~~f~  259 (281)
                      ...+|++|+++|...+.+.++++.||++||+|..|+++|.  +..+ +.++|++||+.||.++||
T Consensus        60 ~~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~~g~~f-~~~dg~~yC~~cy~~~Fg  123 (123)
T 2l4z_A           60 SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSS-YTKSGMILCRNDYIRLFG  123 (123)
T ss_dssp             SCSBBSSSSSBCCSSSEEEETTEEEETTTSBCTTTCCBGGGTTCCC-BCSSSCCBCHHHHHHHCC
T ss_pred             cCCcCcCCCCCcCCcEEEEeCCcEEcccccCcCcCCCcccccCCce-EEECCEEeCHHHhhhhcC
Confidence            3459999999998776788999999999999999999996  2344 479999999999999986

>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=99.36  E-value=3.3e-13  Score=97.37  Aligned_cols=74  Identities=20%  Similarity=0.345  Sum_probs=62.8

Q ss_pred             ccccccccCCCCCCCCcCCCccccccceeeccCcccccCceeccccCCCCCCCCeeeCCCCcccCccchhhccCC
Q psy16551         83 TVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP  157 (281)
Q Consensus        83 ~~~~~~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~  157 (281)
                      .++|..++.....+.|++|+++|. ++.+.++++.||++||+|..|+++|..+.++...++.+||..||.+++..
T Consensus         3 ~~yC~~dy~~~~~~~C~~C~~~I~-~~~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~~~~C~~C~~~~~~~   76 (81)
T 1v6g_A            3 SGSSGLDYQRLYGTRCFSCDQFIE-GEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCSLPVSVS   76 (81)
T ss_dssp             CCCCCSCGGGSCCCBCTTTCCBCC-SCCEEETTEEECTTTSSCSSSCCCCCSSSCEEEETTEEEEHHHHSCCSSC
T ss_pred             CCcchHHHHhHhCCcCccccCEec-cceEEECCceeCccCCccccCCCCCCCCCEEEeCCCCEEChhhhcccCCC
Confidence            357889999999999999999997 68899999999999999999999998766654344457999999887654

>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=99.34  E-value=1.5e-13  Score=114.98  Aligned_cols=71  Identities=25%  Similarity=0.558  Sum_probs=62.7

Q ss_pred             CCCCCCCCcccccceeeecCcccccccccccccCCCCCC--CccccCCCCcccChhhhccccCC--CCCcCCCCCc
Q psy16551        199 EGCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPLDS--VLACDGPDKEIYCKACYGKNFGP--KGFGYGHSPT  270 (281)
Q Consensus       199 ~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L~~--~~~~~~~~g~~~C~~c~~~~f~~--~c~~c~~~~~  270 (281)
                      .+|++|+++|...+.+.++++.||++||+|..|+++|..  ..+ +.++|++||+.||.++|++  +|.+|+..+.
T Consensus         6 ~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~-~~~~g~~yC~~cy~~~~~~~~~C~~C~~~I~   80 (188)
T 1rut_X            6 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSS-YTKSGMILCRNDYIRLFGNSGACSACGQSIP   80 (188)
T ss_dssp             CBBTTTCCBCCCSEEEEETTEEECGGGCBCTTTCCBHHHHCSEE-EEETTEEECHHHHHHHHSCCEECTTTCCEEC
T ss_pred             CcCccCCCEeCCceeEEecCcEecccCcccCCCCcccccCCceE-EEeCCccccccccccccccCCccccCCCccc
Confidence            489999999987767789999999999999999999974  344 4699999999999999999  7999998664

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

Probab=99.30  E-value=6.8e-13  Score=91.69  Aligned_cols=59  Identities=22%  Similarity=0.548  Sum_probs=51.8

Q ss_pred             CCCCcCCCccccc-cceeeccCcccc--cCceeccccCCCCCCCCeeeCCCCcccC-ccchhhc
Q psy16551         95 GKGCPRCGGVVFA-AEQVLAKGSEWH--RKCFKCRDCNKTLDSINACDGPDKDIYC-KTCYGKK  154 (281)
Q Consensus        95 ~~~C~~C~~~I~~-~~~~~~~~~~~H--~~CF~C~~C~~~L~~~~~~~~~~g~~~C-~~cy~~~  154 (281)
                      .+.|++|+++|.. .+.+.++++.||  ++||+|..|+++|.+..|+ .++|++|| .+||.++
T Consensus         2 a~~C~~C~~~I~~~~~~v~a~~~~wH~~~~CF~C~~C~~~L~~~~f~-~~~g~~yC~~~C~~k~   64 (65)
T 2iyb_E            2 AVVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFM-PVEGMVFCSVECKKRM   64 (65)
T ss_dssp             CEECTTTSSEECTTSCEEEETTEEEETTTTTSBCTTTCCBCTTSCCE-EETTEEESSHHHHHTT
T ss_pred             cCCCcCCCCeeccCceEEEECCCccCCCCCCEECCCCCCcCCCCceE-EECCEEecCHHHhhhh
Confidence            3579999999986 478999999999  9999999999999887766 49999999 8888654

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

Probab=99.27  E-value=1.3e-12  Score=90.31  Aligned_cols=58  Identities=21%  Similarity=0.527  Sum_probs=50.8

Q ss_pred             CCCCCCCCccccc-ceeeecCcccc--cccccccccCCCCCCCccccCCCCcccC-hhhhccc
Q psy16551        199 EGCPRCGGAVFAA-EQQLAKGTMWH--KQCFSCNVCKRPLDSVLACDGPDKEIYC-KACYGKN  257 (281)
Q Consensus       199 ~~C~~C~~~I~~~-~~v~~~g~~~H--~~Cf~C~~C~~~L~~~~~~~~~~g~~~C-~~c~~~~  257 (281)
                      .+|++|+++|..+ +.+.++++.||  ++||+|..|+++|.+..|+ ..+|++|| ..||.++
T Consensus         3 ~~C~~C~~~I~~~~~~v~a~~~~wH~~~~CF~C~~C~~~L~~~~f~-~~~g~~yC~~~C~~k~   64 (65)
T 2iyb_E            3 VVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFM-PVEGMVFCSVECKKRM   64 (65)
T ss_dssp             EECTTTSSEECTTSCEEEETTEEEETTTTTSBCTTTCCBCTTSCCE-EETTEEESSHHHHHTT
T ss_pred             CCCcCCCCeeccCceEEEECCCccCCCCCCEECCCCCCcCCCCceE-EECCEEecCHHHhhhh
Confidence            3899999999864 67789999999  9999999999999876665 68999999 8998765

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

Probab=98.21  E-value=5.5e-07  Score=52.34  Aligned_cols=29  Identities=38%  Similarity=1.004  Sum_probs=27.2

Q ss_pred             CCCCcCCCccccccceeeccCcccccCce
Q psy16551         95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCF  123 (281)
Q Consensus        95 ~~~C~~C~~~I~~~~~~~~~~~~~H~~CF  123 (281)
                      +..|..|++.|+..|++.++|+.||+.||
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            45799999999999999999999999998

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

Probab=98.07  E-value=1.5e-06  Score=50.47  Aligned_cols=27  Identities=41%  Similarity=1.048  Sum_probs=26.1

Q ss_pred             CCCCCCCcccccceeeecCcccccccc
Q psy16551        200 GCPRCGGAVFAAEQQLAKGTMWHKQCF  226 (281)
Q Consensus       200 ~C~~C~~~I~~~~~v~~~g~~~H~~Cf  226 (281)
                      +|++|++.++..|.+.+.|+.||+.||
T Consensus         5 ~C~~C~k~Vy~~Ek~~~~g~~~Hk~CF   31 (31)
T 1zfo_A            5 NCARCGKIVYPTEKVNCLDKFWHKACF   31 (31)
T ss_dssp             BCSSSCSBCCGGGCCCSSSSCCCGGGC
T ss_pred             cCCccCCEEecceeEEECCeEecccCC
Confidence            899999999999999999999999998

>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD domain, histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens}

Probab=88.50  E-value=2.2  Score=31.36  Aligned_cols=48  Identities=19%  Similarity=0.304  Sum_probs=28.4

Q ss_pred             CCCCCCCcccccceee--ecCcccccccccccccCCCCCCCccccCCCCcccChhhhccc
Q psy16551        200 GCPRCGGAVFAAEQQL--AKGTMWHKQCFSCNVCKRPLDSVLACDGPDKEIYCKACYGKN  257 (281)
Q Consensus       200 ~C~~C~~~I~~~~~v~--~~g~~~H~~Cf~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~  257 (281)
                      .|..|++.-....++.  .=++.||..|+.=     +|..     ..++.-+|..|....
T Consensus        56 ~C~~C~~~~~~~~ll~Cd~C~~~yH~~Cl~p-----pl~~-----~P~g~W~C~~C~~c~  105 (111)
T 2ysm_A           56 VCQNCKQSGEDSKMLVCDTCDKGYHTFCLQP-----VMKS-----VPTNGWKCKNCRICI  105 (111)
T ss_dssp             CCTTTCCCSCCTTEEECSSSCCEEEGGGSSS-----CCSS-----CCSSCCCCHHHHCCS
T ss_pred             cccccCccCCCCCeeECCCCCcHHhHHhcCC-----cccc-----CCCCCcCCcCCcCcC
Confidence            5777877654334444  4566799887642     2321     234567788886543

---

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	281
d1b8ta2	65	g.39.1.3 (A:36-100) Cysteine-rich (intestinal) pro	2e-18
d1b8ta2	65	g.39.1.3 (A:36-100) Cysteine-rich (intestinal) pro	3e-14
d1b8ta4	49	g.39.1.3 (A:144-192) Cysteine-rich (intestinal) pr	1e-15
d1b8ta4	49	g.39.1.3 (A:144-192) Cysteine-rich (intestinal) pr	3e-13
d1b8ta3	43	g.39.1.3 (A:101-143) Cysteine-rich (intestinal) pr	6e-09
d1b8ta3	43	g.39.1.3 (A:101-143) Cysteine-rich (intestinal) pr	2e-07
d1imla2	48	g.39.1.3 (A:29-76) Cysteine-rich (intestinal) prot	2e-08
d1imla2	48	g.39.1.3 (A:29-76) Cysteine-rich (intestinal) prot	5e-08
d1ibia1	28	g.39.1.3 (A:117-144) Cysteine-rich (intestinal) pr	7e-06
d1ibia1	28	g.39.1.3 (A:117-144) Cysteine-rich (intestinal) pr	9e-06
d1a7ia2	32	g.39.1.3 (A:36-67) Cysteine-rich (intestinal) prot	5e-05
d1a7ia2	32	g.39.1.3 (A:36-67) Cysteine-rich (intestinal) prot	1e-04
d2cu8a1	30	g.39.1.3 (A:8-37) Cysteine-rich (intestinal) prote	5e-05
d2cu8a1	30	g.39.1.3 (A:8-37) Cysteine-rich (intestinal) prote	4e-04
d2d8ya1	35	g.39.1.3 (A:9-43) Eplin, LIMA1 {Human (Homo sapien	5e-05
d2d8ya1	35	g.39.1.3 (A:9-43) Eplin, LIMA1 {Human (Homo sapien	7e-04
d1ibia2	31	g.39.1.3 (A:145-175) Cysteine-rich (intestinal) pr	0.002
d1ibia2	31	g.39.1.3 (A:145-175) Cysteine-rich (intestinal) pr	0.002
d2co8a2	36	g.39.1.3 (A:8-43) Nedd9 interacting protein with c	0.003
d2co8a2	36	g.39.1.3 (A:8-43) Nedd9 interacting protein with c	0.004

>d1b8ta2 g.39.1.3 (A:36-100) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]} Length = 65

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 = 75.3 bits (185), Expect = 2e-18
 Identities = 29/65 (44%), Positives = 37/65 (56%), Gaps = 6/65 (9%)

Query: 125 CRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTD-----GLTEDEI 179
           C  C K LDS       D +IYCK+CYGKK+GP G G   G+G L TD     G+  +E 
Sbjct: 2   CMVCKKNLDSTTVAVHGD-EIYCKSCYGKKYGPKGKGKGMGAGTLSTDKGESLGIKYEEG 60

Query: 180 SANRP 184
            ++RP
Sbjct: 61  QSHRP 65

>d1b8ta2 g.39.1.3 (A:36-100) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]} Length = 65

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 = 64.1 bits (156), Expect = 3e-14
 Identities = 25/47 (53%), Positives = 29/47 (61%), Gaps = 1/47 (2%)

Query: 228 CNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGHSPTLVST 274
           C VCK+ LDS       D EIYCK+CYGK +GPKG G G     +ST
Sbjct: 2   CMVCKKNLDSTTVAVHGD-EIYCKSCYGKKYGPKGKGKGMGAGTLST 47

>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 = 67.4 bits (165), Expect = 1e-15
 Identities = 22/46 (47%), Positives = 29/46 (63%), Gaps = 1/46 (2%)

Query: 124 KCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFL 169
           +C  C K+L+S    D  D +IYCK CY K +GP G+GF  G+G L
Sbjct: 1   RCAKCGKSLESTTLAD-KDGEIYCKGCYAKNFGPKGFGFGQGAGAL 45

>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 = 60.5 bits (147), Expect = 3e-13
 Identities = 23/39 (58%), Positives = 26/39 (66%), Gaps = 1/39 (2%)

Query: 228 CNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYG 266
           C  C + L+S    D  D EIYCK CY KNFGPKGFG+G
Sbjct: 2   CAKCGKSLESTTLAD-KDGEIYCKGCYAKNFGPKGFGFG 39

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

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

 Score = 48.7 bits (116), Expect = 6e-09
 Identities = 18/40 (45%), Positives = 24/40 (60%)

Query: 187 NPNTTSIMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCF 226
           N +  +      +GCPRCG AV+AAE+ +  G  WHK CF
Sbjct: 4   NASRMAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCF 43

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

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

 Score = 44.1 bits (104), Expect = 2e-07
 Identities = 17/33 (51%), Positives = 21/33 (63%)

Query: 91  KAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCF 123
           K     GCPRCG  V+AAE+V+  G  WH+ CF
Sbjct: 11  KVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCF 43

>d1imla2 g.39.1.3 (A:29-76) Cysteine-rich (intestinal) protein, CRP, CRIP {Rat (Rattus rattus) [TaxId: 10117]} Length = 48

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]

 Score = 47.4 bits (113), Expect = 2e-08
 Identities = 15/42 (35%), Positives = 19/42 (45%), Gaps = 2/42 (4%)

Query: 124 KCRDCNKTLDSINACDGPDKDIYC-KTCYGKKWGPHGYGFAA 164
           KC  C KTL S    +  +   YC   CY   +GP G+G   
Sbjct: 1   KCEKCGKTLTSGGHAEH-EGKPYCNHPCYSAMFGPKGFGRGG 41

>d1imla2 g.39.1.3 (A:29-76) Cysteine-rich (intestinal) protein, CRP, CRIP {Rat (Rattus rattus) [TaxId: 10117]} Length = 48

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]

 Score = 46.3 bits (110), Expect = 5e-08
 Identities = 16/40 (40%), Positives = 20/40 (50%), Gaps = 2/40 (5%)

Query: 228 CNVCKRPLDSVLACDGPDKEIYC-KACYGKNFGPKGFGYG 266
           C  C + L S    +  + + YC   CY   FGPKGFG G
Sbjct: 2   CEKCGKTLTSGGHAEH-EGKPYCNHPCYSAMFGPKGFGRG 40

>d1ibia1 g.39.1.3 (A:117-144) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]} Length = 28

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

 Score = 39.9 bits (93), Expect = 7e-06
 Identities = 13/25 (52%), Positives = 17/25 (68%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKC 122
           C RCG  V+AAE+V+  G  WH+ C
Sbjct: 4   CSRCGDSVYAAEKVIGAGKPWHKNC 28

>d1ibia1 g.39.1.3 (A:117-144) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]} Length = 28

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

 Score = 39.5 bits (92), Expect = 9e-06
 Identities = 14/27 (51%), Positives = 18/27 (66%)

Query: 199 EGCPRCGGAVFAAEQQLAKGTMWHKQC 225
           E C RCG +V+AAE+ +  G  WHK C
Sbjct: 2   EKCSRCGDSVYAAEKVIGAGKPWHKNC 28

>d1a7ia2 g.39.1.3 (A:36-67) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]} Length = 32

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

 Score = 37.6 bits (87), Expect = 5e-05
 Identities = 16/32 (50%), Positives = 21/32 (65%), Gaps = 1/32 (3%)

Query: 228 CNVCKRPLDSVLACDGPDKEIYCKACYGKNFG 259
           C VC++ LDS       D E+YCK+CYGK +G
Sbjct: 2   CMVCRKNLDSTTVAIH-DAEVYCKSCYGKKYG 32

>d1a7ia2 g.39.1.3 (A:36-67) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]} Length = 32

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

 Score = 36.4 bits (84), Expect = 1e-04
 Identities = 16/32 (50%), Positives = 20/32 (62%), Gaps = 1/32 (3%)

Query: 125 CRDCNKTLDSINACDGPDKDIYCKTCYGKKWG 156
           C  C K LDS       D ++YCK+CYGKK+G
Sbjct: 2   CMVCRKNLDSTTVAIH-DAEVYCKSCYGKKYG 32

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

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

 Score = 37.5 bits (87), Expect = 5e-05
 Identities = 11/25 (44%), Positives = 17/25 (68%)

Query: 98  CPRCGGVVFAAEQVLAKGSEWHRKC 122
           CP+C   V+ AE+V + G +WH+ C
Sbjct: 5   CPKCDKTVYFAEKVSSLGKDWHKFC 29

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

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

 Score = 34.8 bits (80), Expect = 4e-04
 Identities = 11/25 (44%), Positives = 15/25 (60%)

Query: 201 CPRCGGAVFAAEQQLAKGTMWHKQC 225
           CP+C   V+ AE+  + G  WHK C
Sbjct: 5   CPKCDKTVYFAEKVSSLGKDWHKFC 29

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

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

 Score = 37.4 bits (87), Expect = 5e-05
 Identities = 11/35 (31%), Positives = 17/35 (48%)

Query: 89  KIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCF 123
           K +A   + C  C   V+  E++LA    +H  CF
Sbjct: 1   KFQAPARETCVECQKTVYPMERLLANQQVFHISCF 35

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

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

 Score = 34.3 bits (79), Expect = 7e-04
 Identities = 10/30 (33%), Positives = 14/30 (46%)

Query: 197 KGEGCPRCGGAVFAAEQQLAKGTMWHKQCF 226
             E C  C   V+  E+ LA   ++H  CF
Sbjct: 6   ARETCVECQKTVYPMERLLANQQVFHISCF 35

>d1ibia2 g.39.1.3 (A:145-175) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]} Length = 31

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

 Score = 33.1 bits (75), Expect = 0.002
 Identities = 14/32 (43%), Positives = 18/32 (56%), Gaps = 1/32 (3%)

Query: 226 FSCNVCKRPLDSVLACDGPDKEIYCKACYGKN 257
           F C  C + L+S    +  + EIYCK CY KN
Sbjct: 1   FRCAKCGKSLESTTLTE-KEGEIYCKGCYAKN 31

>d1ibia2 g.39.1.3 (A:145-175) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]} Length = 31

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

 Score = 32.7 bits (74), Expect = 0.002
 Identities = 13/31 (41%), Positives = 19/31 (61%), Gaps = 1/31 (3%)

Query: 123 FKCRDCNKTLDSINACDGPDKDIYCKTCYGK 153
           F+C  C K+L+S    +  + +IYCK CY K
Sbjct: 1   FRCAKCGKSLESTTLTE-KEGEIYCKGCYAK 30

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

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

 Score = 32.4 bits (74), Expect = 0.003
 Identities = 9/29 (31%), Positives = 15/29 (51%)

Query: 198 GEGCPRCGGAVFAAEQQLAKGTMWHKQCF 226
           G+ C  CG  ++  E+    G  +H+ CF
Sbjct: 8   GDLCALCGEHLYVLERLCVNGHFFHRSCF 36

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

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

 Score = 32.1 bits (73), Expect = 0.004
 Identities = 11/33 (33%), Positives = 17/33 (51%)

Query: 91  KAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCF 123
           +A  G  C  CG  ++  E++   G  +HR CF
Sbjct: 4   EAGAGDLCALCGEHLYVLERLCVNGHFFHRSCF 36

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	281
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.86
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.83
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.77
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.68
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.62
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.47
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	98.45
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	98.44
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	98.41
d2co8a2	36	Nedd9 interacting protein with calponin homology,	98.35
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.33
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	98.33
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	98.24
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	98.23
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.22
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.22
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	98.22
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	98.22
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.19
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.17
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	98.07
d2co8a2	36	Nedd9 interacting protein with calponin homology,	98.06
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	98.06
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.03
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.0
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	98.0
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.99
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.98
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.96
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	97.94
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	97.91
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	97.9
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.87
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	97.85
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.84
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.83
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	97.83
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	97.83
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.82
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	97.8
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.77
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	97.77
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.71
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	97.69
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	97.68
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	97.68
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	97.65
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.65
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	97.64
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.64
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.63
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	97.58
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	97.57
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.55
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	97.53
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.48
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.48
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	97.46
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	97.45
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.45
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.44
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	97.42
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.36
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.34
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	97.31
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	97.28
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.28
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	97.27
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	97.26
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	97.25
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.24
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	97.21
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	97.2
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.19
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.19
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	97.11
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.09
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.09
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.04
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.01
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	96.77
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	96.62
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	96.56
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	96.47
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	96.46
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	96.46
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	96.43
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	96.36
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	96.31
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	96.29
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	96.21
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	96.19
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	96.05
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	95.98
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	95.97
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	95.92
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	95.62
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	95.62
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	95.27
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	95.26
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	95.12
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	95.11
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	95.06
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	94.77
d1rutx2	34	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	94.43
d2cora1	31	Pinch (particularly interesting new Cys-His) prote	94.36
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	94.16
d1x61a1	27	Thyroid receptor interacting protein 6, TRIP6 {Hum	94.15
d1rutx4	33	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	94.09
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	93.89
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	92.44
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	92.19
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	91.64
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	91.61
d2co8a1	33	Nedd9 interacting protein with calponin homology,	91.15
d1rutx4	33	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	90.22
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	90.16
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	89.96
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	89.6
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	89.0
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	88.63
d2cora1	31	Pinch (particularly interesting new Cys-His) prote	88.59
d1rutx2	34	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	87.62
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	87.6
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	85.42
d1j2oa2	33	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	83.99
d1v6ga2	40	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	82.94
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	82.33
d2co8a1	33	Nedd9 interacting protein with calponin homology,	81.29

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

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

Probab=98.86  E-value=4e-10  Score=65.81  Aligned_cols=26  Identities=35%  Similarity=0.791  Sum_probs=24.2

Q ss_pred             CCCCCCCcccccceeeecCcccccccc
Q psy16551        200 GCPRCGGAVFAAEQQLAKGTMWHKQCF  226 (281)
Q Consensus       200 ~C~~C~~~I~~~~~v~~~g~~~H~~Cf  226 (281)
                      +|..|+++| .++.|.|+|+.||++||
T Consensus        10 kC~~C~~~I-~g~~v~Al~~~wHpeCF   35 (35)
T d1x3ha1          10 KCGGCNRPV-LENYLSAMDTVWHPECF   35 (35)
T ss_dssp             BCTTTCCBC-CSSCEEETTEEECTTTC
T ss_pred             hhhhcCCcc-cchheeecCCccCcccC
Confidence            999999999 57788999999999998

>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=98.83  E-value=6.2e-10  Score=69.24  Aligned_cols=47  Identities=47%  Similarity=1.107  Sum_probs=42.1

Q ss_pred             eccccCCCCCCCCeeeCCCCcccCccchhhccCCCCCCcccCCccccc
Q psy16551        124 KCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQT  171 (281)
Q Consensus       124 ~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~~~~~c~~~~~~~  171 (281)
                      +|..|++.|+....+. +|+++||+.||.++|+|+|+|++.+.+++..
T Consensus         1 KC~~C~k~Lds~t~~e-hdg~~YCk~CY~k~fGPKG~g~G~gaG~l~~   47 (49)
T d1b8ta4           1 RCAKCGKSLESTTLAD-KDGEIYCKGCYAKNFGPKGFGFGQGAGALIH   47 (49)
T ss_dssp             BCTTTCCBCCSSSEEE-ETTEEEEHHHHHHHTCCCCCCCCCCCCCCCC
T ss_pred             ChhhcCCccCCCcccc-cCCcccchhhhhhccCCCccCcccCcccccc
Confidence            6899999999877765 9999999999999999999999988887644

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

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

Probab=98.77  E-value=1.7e-09  Score=71.04  Aligned_cols=49  Identities=49%  Similarity=0.956  Sum_probs=44.7

Q ss_pred             eccccCCCCCCCCeeeCCCCcccCccchhhccCCCCCCcccCCcccccCC
Q psy16551        124 KCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGYGFAAGSGFLQTDG  173 (281)
Q Consensus       124 ~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~~~~~c~~~~~~~~~  173 (281)
                      .|..|++.|+...... +++++||+.||.++|+|+|+|++.+.+++..|.
T Consensus         1 ~C~~C~K~LdS~~~~e-h~~e~YCk~CY~k~fGPkG~G~G~gag~l~~d~   49 (65)
T d1b8ta2           1 LCMVCKKNLDSTTVAV-HGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTDK   49 (65)
T ss_dssp             BCTTTCCBCCSSSEEE-ETTEEEEHHHHHHHHSCCCCCCCCCCCCCCCCC
T ss_pred             CchhcCCccCCCcccc-CCCcccchhhhccccCCCccccccccceeeecc
Confidence            3889999999888774 999999999999999999999999999998883

>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=98.68  E-value=3.4e-09  Score=65.83  Aligned_cols=46  Identities=48%  Similarity=1.058  Sum_probs=40.2

Q ss_pred             cccccCCCCCCCccccCCCCcccChhhhccccCCCCCcCCCCCcccc
Q psy16551        227 SCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGHSPTLVS  273 (281)
Q Consensus       227 ~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~c~~~~~~~s  273 (281)
                      +|..|++.|++.... ++|+++||+.||.++|||++.+.+.+.+.+|
T Consensus         1 KC~~C~k~Lds~t~~-ehdg~~YCk~CY~k~fGPKG~g~G~gaG~l~   46 (49)
T d1b8ta4           1 RCAKCGKSLESTTLA-DKDGEIYCKGCYAKNFGPKGFGFGQGAGALI   46 (49)
T ss_dssp             BCTTTCCBCCSSSEE-EETTEEEEHHHHHHHTCCCCCCCCCCCCCCC
T ss_pred             ChhhcCCccCCCccc-ccCCcccchhhhhhccCCCccCcccCccccc
Confidence            589999999876554 6999999999999999999999998876554

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

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

Probab=98.62  E-value=7.8e-09  Score=60.21  Aligned_cols=34  Identities=26%  Similarity=0.569  Sum_probs=30.9

Q ss_pred             ccCCCCCCCCcCCCccccccceeeccCcccccCce
Q psy16551         89 KIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCF  123 (281)
Q Consensus        89 ~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF  123 (281)
                      +|....++.|.+|+++|. +++|.|+|+.||++||
T Consensus         2 DY~~~fapkC~~C~~~I~-g~~v~Al~~~wHpeCF   35 (35)
T d1x3ha1           2 DFLAMFSPKCGGCNRPVL-ENYLSAMDTVWHPECF   35 (35)
T ss_dssp             CCCCCCSCBCTTTCCBCC-SSCEEETTEEECTTTC
T ss_pred             cHHHHhChhhhhcCCccc-chheeecCCccCcccC
Confidence            567778899999999995 7899999999999998

>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=98.47  E-value=3.2e-08  Score=56.06  Aligned_cols=26  Identities=23%  Similarity=0.760  Sum_probs=23.8

Q ss_pred             CCCCCCCcccccceeeecCcccccccc
Q psy16551        200 GCPRCGGAVFAAEQQLAKGTMWHKQCF  226 (281)
Q Consensus       200 ~C~~C~~~I~~~~~v~~~g~~~H~~Cf  226 (281)
                      +|..|+++|..+ .|...++.||++||
T Consensus        10 ~C~~Ckk~It~G-GvtY~dqpWHkeCF   35 (35)
T d2cuqa2          10 RCARCSKTLTQG-GVTYRDQPWHRECL   35 (35)
T ss_dssp             CCTTTCCCCCSC-CEESSSSEECTTTC
T ss_pred             HHhhcCCccccC-ceeecCCcchhhhC
Confidence            999999999766 68899999999998

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

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

Probab=98.45  E-value=4.4e-08  Score=59.96  Aligned_cols=43  Identities=35%  Similarity=0.849  Sum_probs=37.5

Q ss_pred             eccccCCCCCCCCeeeCCCCcccC-ccchhhccCCCCCCcccCCc
Q psy16551        124 KCRDCNKTLDSINACDGPDKDIYC-KTCYGKKWGPHGYGFAAGSG  167 (281)
Q Consensus       124 ~C~~C~~~L~~~~~~~~~~g~~~C-~~cy~~~~~~~~~~~~c~~~  167 (281)
                      +|..|++.|....... +++++|| +.||.++|+|+|+|++-.+.
T Consensus         1 kC~~C~K~L~sg~~ae-Hdg~pYC~k~CY~~~FGPkG~g~Gg~gs   44 (48)
T d1imla2           1 KCEKCGKTLTSGGHAE-HEGKPYCNHPCYSAMFGPKGFGRGGAES   44 (48)
T ss_dssp             BCTTTCCBCCTTTEEE-ETTEEEETTTHHHHHSSCCCSSCCCSSS
T ss_pred             CchhcCcCcCCCChhh-cCCcccccccchhhccCCCccccCCccc
Confidence            6899999999888774 9999999 77999999999998875443

>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=98.44  E-value=1.4e-08  Score=59.03  Aligned_cols=34  Identities=24%  Similarity=0.503  Sum_probs=31.0

Q ss_pred             ccccccCCCCCCCccccCCCCcccChhhhccccCC
Q psy16551        226 FSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGP  260 (281)
Q Consensus       226 f~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~  260 (281)
                      |+|+.|+++|....|+ +.+|++||+.||.++|+|
T Consensus         1 F~C~~C~~~f~~~~F~-e~~G~pYCe~~Y~~lFAP   34 (35)
T d1g47a2           1 FVCAQCFQQFPEGLFY-EFEGRKYCEHDFQMLFAP   34 (35)
T ss_dssp             CCCTTTCCCCGGGCSE-EETTEEECHHHHHHHCCC
T ss_pred             CCCCCCcCCCCCCCeE-EECCEecChHhHHhhcCC
Confidence            7899999999877775 799999999999999987

>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=98.41  E-value=1.9e-08  Score=58.47  Aligned_cols=34  Identities=18%  Similarity=0.414  Sum_probs=31.2

Q ss_pred             eeccccCCCCCCCCeeeCCCCcccCccchhhccCC
Q psy16551        123 FKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGP  157 (281)
Q Consensus       123 F~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~  157 (281)
                      |+|..|+++|....|+ +++|++||+.||.++|+|
T Consensus         1 F~C~~C~~~f~~~~F~-e~~G~pYCe~~Y~~lFAP   34 (35)
T d1g47a2           1 FVCAQCFQQFPEGLFY-EFEGRKYCEHDFQMLFAP   34 (35)
T ss_dssp             CCCTTTCCCCGGGCSE-EETTEEECHHHHHHHCCC
T ss_pred             CCCCCCcCCCCCCCeE-EECCEecChHhHHhhcCC
Confidence            7899999999987777 499999999999999987

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

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

Probab=98.35  E-value=1.3e-07  Score=54.74  Aligned_cols=32  Identities=34%  Similarity=0.815  Sum_probs=29.1

Q ss_pred             CCCCCCCcCCCccccccceeeccCcccccCce
Q psy16551         92 AAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCF  123 (281)
Q Consensus        92 ~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF  123 (281)
                      ......|..|++.||..|++.++|+.||+.||
T Consensus         5 ~g~~~~C~~C~K~VY~~Erl~a~g~~yHk~CF   36 (36)
T d2co8a2           5 AGAGDLCALCGEHLYVLERLCVNGHFFHRSCF   36 (36)
T ss_dssp             CCSSCBCSSSCCBCCTTTBCCBTTBCCBTTTC
T ss_pred             CCCCCcccccCCEEeeeeEEEecCcEeccccC
Confidence            34467899999999999999999999999998

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

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

Probab=98.33  E-value=8.5e-08  Score=62.79  Aligned_cols=48  Identities=50%  Similarity=0.940  Sum_probs=41.3

Q ss_pred             cccccCCCCCCCccccCCCCcccChhhhccccCCCCCcCCCCCcccccC
Q psy16551        227 SCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGFGYGHSPTLVSTS  275 (281)
Q Consensus       227 ~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~~c~~~~~~~s~~  275 (281)
                      .|..|++.|++.... ++++++||+.||.++|+|++.+-|.+.+.+|.+
T Consensus         1 ~C~~C~K~LdS~~~~-eh~~e~YCk~CY~k~fGPkG~G~G~gag~l~~d   48 (65)
T d1b8ta2           1 LCMVCKKNLDSTTVA-VHGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTD   48 (65)
T ss_dssp             BCTTTCCBCCSSSEE-EETTEEEEHHHHHHHHSCCCCCCCCCCCCCCCC
T ss_pred             CchhcCCccCCCccc-cCCCcccchhhhccccCCCccccccccceeeec
Confidence            388999999877654 789999999999999999999999888666555

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

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

Probab=98.33  E-value=1.4e-07  Score=54.37  Aligned_cols=32  Identities=31%  Similarity=0.697  Sum_probs=29.2

Q ss_pred             CCCCCCCcCCCccccccceeeccCcccccCce
Q psy16551         92 AAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCF  123 (281)
Q Consensus        92 ~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF  123 (281)
                      ......|..|++.||..|++.++|+.||+.||
T Consensus         4 ~p~~~kC~~C~K~VY~~E~~~a~g~~~Hk~CF   35 (35)
T d2d8ya1           4 APARETCVECQKTVYPMERLLANQQVFHISCF   35 (35)
T ss_dssp             SSSSCBCTTTCCBCCTTSEEECSSSEEETTTC
T ss_pred             CCCCcccccCCCEEeeeeeEecCCeehhhccC
Confidence            44567899999999999999999999999998

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

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

Probab=98.24  E-value=2e-07  Score=56.96  Aligned_cols=41  Identities=39%  Similarity=0.862  Sum_probs=35.4

Q ss_pred             cccccCCCCCCCccccCCCCcccC-hhhhccccCCCCCcCCCC
Q psy16551        227 SCNVCKRPLDSVLACDGPDKEIYC-KACYGKNFGPKGFGYGHS  268 (281)
Q Consensus       227 ~C~~C~~~L~~~~~~~~~~g~~~C-~~c~~~~f~~~c~~c~~~  268 (281)
                      +|..|++.|+.... .++|++||| +.||.++|+|++.+-+..
T Consensus         1 kC~~C~K~L~sg~~-aeHdg~pYC~k~CY~~~FGPkG~g~Gg~   42 (48)
T d1imla2           1 KCEKCGKTLTSGGH-AEHEGKPYCNHPCYSAMFGPKGFGRGGA   42 (48)
T ss_dssp             BCTTTCCBCCTTTE-EEETTEEEETTTHHHHHSSCCCSSCCCS
T ss_pred             CchhcCcCcCCCCh-hhcCCcccccccchhhccCCCccccCCc
Confidence            58999999987665 479999999 779999999999887753

>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=98.23  E-value=2.3e-07  Score=54.06  Aligned_cols=27  Identities=48%  Similarity=1.047  Sum_probs=24.6

Q ss_pred             CCCCCCCcccccceee-ecCcccccccc
Q psy16551        200 GCPRCGGAVFAAEQQL-AKGTMWHKQCF  226 (281)
Q Consensus       200 ~C~~C~~~I~~~~~v~-~~g~~~H~~Cf  226 (281)
                      +|..|.++|.+++..+ +.|+.||..||
T Consensus        10 ~C~~C~k~I~~G~k~veykg~~WHe~CF   37 (37)
T d1x63a1          10 KCKGCFKAIVAGDQNVEYKGTVWHKDCF   37 (37)
T ss_dssp             BCSSSCCBCCSSSCEEECSSCEEETTTC
T ss_pred             ccccCCCccCCCCeEeEeCCccchhccC
Confidence            9999999999888555 99999999998

>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=98.22  E-value=2.2e-07  Score=56.02  Aligned_cols=29  Identities=28%  Similarity=0.642  Sum_probs=26.4

Q ss_pred             CCCCCcCCCccccccceeeccCcccccCce
Q psy16551         94 PGKGCPRCGGVVFAAEQVLAKGSEWHRKCF  123 (281)
Q Consensus        94 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF  123 (281)
                      ..++|.+|+++| .+.++.++|+.||++||
T Consensus        17 r~P~C~~C~~pI-~g~~vtAlgk~WHPEhF   45 (45)
T d2dara2          17 RTPMCAHCNQVI-RGPFLVALGKSWHPEEF   45 (45)
T ss_dssp             CCCBBSSSCCBC-CSCEEEETTEEECTTTC
T ss_pred             CCeeccccCCcc-cCceeeecCCccCcCCC
Confidence            458899999999 57999999999999998

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

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

Probab=98.22  E-value=2.2e-07  Score=56.36  Aligned_cols=34  Identities=50%  Similarity=1.125  Sum_probs=30.3

Q ss_pred             ccCCCCCCCCCCCCcccccceeeecCcccccccc
Q psy16551        193 IMARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCF  226 (281)
Q Consensus       193 ~~~~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf  226 (281)
                      ...++.++|.+|++.++..|.+.+.|+.||+.||
T Consensus        10 ~~~g~~~kC~~C~k~VY~~E~~~~~g~~~Hk~CF   43 (43)
T d1b8ta3          10 QKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCF   43 (43)
T ss_dssp             CCCCCCEECTTTSCEECSSSCEEETTEEECTTTC
T ss_pred             cccCCCCcCccCCCEeeHHHHhhcCCCccccCCC
Confidence            3445667999999999999999999999999998

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

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

Probab=98.22  E-value=2.8e-07  Score=50.52  Aligned_cols=29  Identities=38%  Similarity=1.014  Sum_probs=26.9

Q ss_pred             CCCCcCCCccccccceeeccCcccccCce
Q psy16551         95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCF  123 (281)
Q Consensus        95 ~~~C~~C~~~I~~~~~~~~~~~~~H~~CF  123 (281)
                      .+.|++|+++||..|.+..+|+.||+.|+
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            46799999999999999999999999985

>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=98.22  E-value=2.9e-07  Score=49.71  Aligned_cols=29  Identities=38%  Similarity=1.004  Sum_probs=27.2

Q ss_pred             CCCCcCCCccccccceeeccCcccccCce
Q psy16551         95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCF  123 (281)
Q Consensus        95 ~~~C~~C~~~I~~~~~~~~~~~~~H~~CF  123 (281)
                      .+.|++|++.||..|.+.-+++.||..||
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            36799999999999999999999999998

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

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

Probab=98.19  E-value=3.2e-07  Score=55.63  Aligned_cols=30  Identities=53%  Similarity=1.331  Sum_probs=28.0

Q ss_pred             CCCCCcCCCccccccceeeccCcccccCce
Q psy16551         94 PGKGCPRCGGVVFAAEQVLAKGSEWHRKCF  123 (281)
Q Consensus        94 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF  123 (281)
                      ....|..|++.||..|++.++|+.||+.||
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            357799999999999999999999999998

>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=98.17  E-value=6.5e-07  Score=53.90  Aligned_cols=29  Identities=24%  Similarity=0.598  Sum_probs=25.5

Q ss_pred             CCCCCCCCCCcccccceeeecCcccccccc
Q psy16551        197 KGEGCPRCGGAVFAAEQQLAKGTMWHKQCF  226 (281)
Q Consensus       197 ~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf  226 (281)
                      ...+|..|+++| .+..++++|+.||++||
T Consensus        17 r~P~C~~C~~pI-~g~~vtAlgk~WHPEhF   45 (45)
T d2dara2          17 RTPMCAHCNQVI-RGPFLVALGKSWHPEEF   45 (45)
T ss_dssp             CCCBBSSSCCBC-CSCEEEETTEEECTTTC
T ss_pred             CCeeccccCCcc-cCceeeecCCccCcCCC
Confidence            345899999999 57788999999999998

>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=98.07  E-value=1.2e-06  Score=50.89  Aligned_cols=35  Identities=31%  Similarity=0.672  Sum_probs=29.9

Q ss_pred             ccCCCCCCCCcCCCccccccce-eeccCcccccCce
Q psy16551         89 KIKAAPGKGCPRCGGVVFAAEQ-VLAKGSEWHRKCF  123 (281)
Q Consensus        89 ~~~~~~~~~C~~C~~~I~~~~~-~~~~~~~~H~~CF  123 (281)
                      ++.......|.+|+++|..+.+ +.+.|+.||..||
T Consensus         2 Cy~~~~a~~C~~C~k~I~~G~k~veykg~~WHe~CF   37 (37)
T d1x63a1           2 CTTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCF   37 (37)
T ss_dssp             CCSCCCSCBCSSSCCBCCSSSCEEECSSCEEETTTC
T ss_pred             ccccccCcccccCCCccCCCCeEeEeCCccchhccC
Confidence            4566788899999999986554 7999999999998

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

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

Probab=98.06  E-value=1e-06  Score=50.88  Aligned_cols=32  Identities=31%  Similarity=0.829  Sum_probs=29.3

Q ss_pred             CCCCCCCCCCCCcccccceeeecCcccccccc
Q psy16551        195 ARKGEGCPRCGGAVFAAEQQLAKGTMWHKQCF  226 (281)
Q Consensus       195 ~~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf  226 (281)
                      +++..+|..|+|.+++.|.+.+.|+.||+.||
T Consensus         5 ~g~~~~C~~C~K~VY~~Erl~a~g~~yHk~CF   36 (36)
T d2co8a2           5 AGAGDLCALCGEHLYVLERLCVNGHFFHRSCF   36 (36)
T ss_dssp             CCSSCBCSSSCCBCCTTTBCCBTTBCCBTTTC
T ss_pred             CCCCCcccccCCEEeeeeEEEecCcEeccccC
Confidence            34567999999999999999999999999998

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

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

Probab=98.06  E-value=9e-07  Score=48.43  Aligned_cols=27  Identities=41%  Similarity=0.973  Sum_probs=25.8

Q ss_pred             CCCCCCCcccccceeeecCcccccccc
Q psy16551        200 GCPRCGGAVFAAEQQLAKGTMWHKQCF  226 (281)
Q Consensus       200 ~C~~C~~~I~~~~~v~~~g~~~H~~Cf  226 (281)
                      +|++|+++++..|.+..+|+.||+.|+
T Consensus         4 ~CprC~K~VYfaEk~~~lgk~WHk~Cl   30 (30)
T d2cu8a1           4 KCPKCDKTVYFAEKVSSLGKDWHKFCL   30 (30)
T ss_dssp             BCTTTCCBCCTTTEEEETTEEEETTTC
T ss_pred             cCCCCCCceeeHHhhccCCcccccccC
Confidence            899999999999999999999999985

>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=98.03  E-value=1.4e-06  Score=49.10  Aligned_cols=29  Identities=28%  Similarity=0.710  Sum_probs=27.0

Q ss_pred             CCCCcCCCccccccceeeccCcccccCce
Q psy16551         95 GKGCPRCGGVVFAAEQVLAKGSEWHRKCF  123 (281)
Q Consensus        95 ~~~C~~C~~~I~~~~~~~~~~~~~H~~CF  123 (281)
                      ...|++|++.|..++.+.++++.||.+||
T Consensus         8 ~~~CagCg~eik~gQaL~ALdkqWH~~CF   36 (36)
T d2dj7a2           8 PSHCAGCKEEIKHGQSLLALDKQWHVSCF   36 (36)
T ss_dssp             CSCCTTTCCCCSSSCCEEETTEEECTTTC
T ss_pred             CccccccchhhhCCceeeeeecceeeeeC
Confidence            45699999999999999999999999998

>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=98.00  E-value=2.1e-06  Score=48.34  Aligned_cols=31  Identities=29%  Similarity=0.664  Sum_probs=28.0

Q ss_pred             CCCCCCCCCCCcccccceeeecCcccccccc
Q psy16551        196 RKGEGCPRCGGAVFAAEQQLAKGTMWHKQCF  226 (281)
Q Consensus       196 ~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf  226 (281)
                      .+...|++|++.|..++.+.++++.||..||
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            3445899999999999999999999999998

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

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

Probab=98.00  E-value=1.2e-06  Score=52.25  Aligned_cols=36  Identities=28%  Similarity=0.552  Sum_probs=32.2

Q ss_pred             cccccCCCCCCCccccCCCCcccChhhhccccCCCCC
Q psy16551        227 SCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGPKGF  263 (281)
Q Consensus       227 ~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~~c~  263 (281)
                      +|..|++.|+.+.+. ..+|.+||+.||.++|.+++.
T Consensus         1 rC~~C~~~Ls~~~ya-s~~G~lYCkpHf~qLF~~kGn   36 (42)
T d2d8ya2           1 RCSYCNNKLSLGTYA-SLHGRIYCKPHFNQLFKSKGN   36 (42)
T ss_dssp             BCTTTCCBCCTTTCC-CSSSCCCCHHHHHHHSCCCSC
T ss_pred             CcCcCCCCccCCcch-hhCCEeccHHHHHHHHHhhcC
Confidence            689999999887775 689999999999999999874

>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=97.99  E-value=1.8e-06  Score=49.03  Aligned_cols=30  Identities=27%  Similarity=0.588  Sum_probs=25.2

Q ss_pred             CCCCCCCCCCCcccccceeeecCcccccccc
Q psy16551        196 RKGEGCPRCGGAVFAAEQQLAKGTMWHKQCF  226 (281)
Q Consensus       196 ~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf  226 (281)
                      ....+|..|+++|.+. .+.+.|+.||+.||
T Consensus         6 ~tlEkC~~C~~~I~dr-iLrA~Gk~yHP~CF   35 (35)
T d2dloa1           6 ATLEKCATCSQPILDR-ILRAMGKAYHPGCF   35 (35)
T ss_dssp             SSCCBCTTTCCBCCSC-CEEETTEEECTTTC
T ss_pred             HHHHHHHHhchHHHHH-HHHHhCCCCCCCCC
Confidence            3456999999999644 66799999999998

>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=97.98  E-value=1.4e-06  Score=52.05  Aligned_cols=36  Identities=25%  Similarity=0.557  Sum_probs=32.2

Q ss_pred             eccccCCCCCCCCeeeCCCCcccCccchhhccCCCCC
Q psy16551        124 KCRDCNKTLDSINACDGPDKDIYCKTCYGKKWGPHGY  160 (281)
Q Consensus       124 ~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~~~~~  160 (281)
                      ||..|++.|....+. ..+|++||+.||.++|.++|.
T Consensus         1 rC~~C~~~Ls~~~ya-s~~G~lYCkpHf~qLF~~kGn   36 (42)
T d2d8ya2           1 RCSYCNNKLSLGTYA-SLHGRIYCKPHFNQLFKSKGN   36 (42)
T ss_dssp             BCTTTCCBCCTTTCC-CSSSCCCCHHHHHHHSCCCSC
T ss_pred             CcCcCCCCccCCcch-hhCCEeccHHHHHHHHHhhcC
Confidence            699999999987777 499999999999999999763

>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=97.96  E-value=2.3e-06  Score=49.14  Aligned_cols=30  Identities=33%  Similarity=0.742  Sum_probs=27.8

Q ss_pred             CCCCCCCCCCcccccceeeecCcccccccc
Q psy16551        197 KGEGCPRCGGAVFAAEQQLAKGTMWHKQCF  226 (281)
Q Consensus       197 ~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf  226 (281)
                      ...+|..|+|.++..|.+.+.|+.||+.||
T Consensus         6 ~~~kC~~C~K~VY~~E~~~a~g~~~Hk~CF   35 (35)
T d2d8ya1           6 ARETCVECQKTVYPMERLLANQQVFHISCF   35 (35)
T ss_dssp             SSCBCTTTCCBCCTTSEEECSSSEEETTTC
T ss_pred             CCcccccCCCEEeeeeeEecCCeehhhccC
Confidence            345999999999999999999999999998

>d1v6ga1 g.39.1.3 (A:1-41) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.94  E-value=2.3e-06  Score=50.48  Aligned_cols=25  Identities=28%  Similarity=0.603  Sum_probs=23.3

Q ss_pred             CCCCCCCcccccceeeecCccccccc
Q psy16551        200 GCPRCGGAVFAAEQQLAKGTMWHKQC  225 (281)
Q Consensus       200 ~C~~C~~~I~~~~~v~~~g~~~H~~C  225 (281)
                      +|..|++.| .++.+.+.++.||++|
T Consensus        17 ~C~~C~~~I-tG~V~~Ag~~~yHP~C   41 (41)
T d1v6ga1          17 RCFSCDQFI-EGEVVSALGKTYHPDC   41 (41)
T ss_dssp             BCTTTCCBC-CSCCEEETTEEECTTT
T ss_pred             ccccccCEe-eeeeeEecCcccCCCC
Confidence            899999999 6888889999999998

>d1u5sb1 g.39.1.3 (B:72-102) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.91  E-value=1.7e-06  Score=47.52  Aligned_cols=28  Identities=25%  Similarity=0.400  Sum_probs=24.7

Q ss_pred             CCCCCcCCCccccccceeeccCcccccCc
Q psy16551         94 PGKGCPRCGGVVFAAEQVLAKGSEWHRKC  122 (281)
Q Consensus        94 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~C  122 (281)
                      +.++|++|+++|. ++.+.++|+.||+++
T Consensus         4 g~p~C~~C~~PI~-~~~vtAlgk~WHpEH   31 (31)
T d1u5sb1           4 GVPICGACRRPIE-GRVVNAMGKQWHVEH   31 (31)
T ss_dssp             CCCEETTTTEECC-SCEECCTTSBEETTT
T ss_pred             CCcchhhcCCchh-hhHhhhhccccCCCC
Confidence            4688999999995 589999999999974

>d2d8za2 g.39.1.3 (A:33-64) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.90  E-value=1.9e-06  Score=47.87  Aligned_cols=32  Identities=22%  Similarity=0.635  Sum_probs=28.3

Q ss_pred             cccccCCCCCCCccccCCCCcccChhhhccccC
Q psy16551        227 SCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG  259 (281)
Q Consensus       227 ~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~  259 (281)
                      .|..|.++|++..|+ .+|++|||-.||..+|+
T Consensus         1 ~C~~C~~~L~GQry~-~rd~~PyC~~Cf~~lfA   32 (32)
T d2d8za2           1 VCTACRKQLSGQRFT-ARDDFAYCLNCFCDLYA   32 (32)
T ss_dssp             BCSSSCCBCTTSCCE-ESSSSEECHHHHHHHTC
T ss_pred             CcccCCccccCceee-ecCCCeehHHhhHhhcC
Confidence            488999999887776 69999999999999986

>d2cuqa2 g.39.1.3 (A:8-42) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.87  E-value=4.5e-06  Score=47.07  Aligned_cols=34  Identities=24%  Similarity=0.579  Sum_probs=29.3

Q ss_pred             ccCCCCCCCCcCCCccccccceeeccCcccccCce
Q psy16551         89 KIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCF  123 (281)
Q Consensus        89 ~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF  123 (281)
                      ++...+...|..|++.|.. .-|...++.||++||
T Consensus         2 CyE~kfa~~C~~Ckk~It~-GGvtY~dqpWHkeCF   35 (35)
T d2cuqa2           2 CYENKFAPRCARCSKTLTQ-GGVTYRDQPWHRECL   35 (35)
T ss_dssp             CCCCCSSCCCTTTCCCCCS-CCEESSSSEECTTTC
T ss_pred             chHHHHHHHHhhcCCcccc-CceeecCCcchhhhC
Confidence            5667788999999999964 568889999999998

>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=97.85  E-value=3e-06  Score=45.64  Aligned_cols=27  Identities=41%  Similarity=1.048  Sum_probs=26.0

Q ss_pred             CCCCCCCcccccceeeecCcccccccc
Q psy16551        200 GCPRCGGAVFAAEQQLAKGTMWHKQCF  226 (281)
Q Consensus       200 ~C~~C~~~I~~~~~v~~~g~~~H~~Cf  226 (281)
                      .|++|++.+++.|.+.-+++.||+.||
T Consensus         4 ~CaRC~k~VYp~Ekl~ClDk~WHK~CF   30 (30)
T d1zfoa_           4 NCARCGKIVYPTEKVNCLDKFWHKACF   30 (30)
T ss_dssp             BCSSSCSBCCGGGCCCSSSSCCCGGGC
T ss_pred             cccccCCccccHHHhhhhHHHHhhccC
Confidence            799999999999999999999999998

>d1rutx1 g.39.1.3 (X:19-48) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.84  E-value=2.8e-06  Score=46.68  Aligned_cols=28  Identities=36%  Similarity=0.821  Sum_probs=25.4

Q ss_pred             CCCcCCCccccccceeeccCcccccCce
Q psy16551         96 KGCPRCGGVVFAAEQVLAKGSEWHRKCF  123 (281)
Q Consensus        96 ~~C~~C~~~I~~~~~~~~~~~~~H~~CF  123 (281)
                      ..|++|+++|.+...+.+.++.||..|+
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            4699999999988888999999999985

>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=97.83  E-value=1.9e-06  Score=47.12  Aligned_cols=31  Identities=29%  Similarity=0.630  Sum_probs=26.7

Q ss_pred             cccccCCCCCCCccccCCCCcccChhhhccccC
Q psy16551        227 SCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG  259 (281)
Q Consensus       227 ~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~  259 (281)
                      +|..|++.|.+.+.  .+||.|||+.+|+..||
T Consensus         1 kC~~C~~vL~gEYm--~kdG~PyCe~DY~~~FG   31 (31)
T d2dj7a1           1 KCQTCSVILTGEYI--SKDGVPYCESDYHAQFG   31 (31)
T ss_dssp             BCSSSCCBCSSCCE--EETTEEECTTHHHHHTT
T ss_pred             CccccCccccceee--cCCCCcccHHHHHHhcC
Confidence            58999999976543  69999999999999986

>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=97.83  E-value=4.5e-06  Score=45.64  Aligned_cols=27  Identities=22%  Similarity=0.432  Sum_probs=24.8

Q ss_pred             CCCcCCCccccccceeeccCcccccCc
Q psy16551         96 KGCPRCGGVVFAAEQVLAKGSEWHRKC  122 (281)
Q Consensus        96 ~~C~~C~~~I~~~~~~~~~~~~~H~~C  122 (281)
                      ..|++|+++|.+...+.++++.||..|
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            469999999998888899999999987

>d1u5sb1 g.39.1.3 (B:72-102) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.83  E-value=2.1e-06  Score=47.11  Aligned_cols=27  Identities=22%  Similarity=0.378  Sum_probs=23.2

Q ss_pred             CCCCCCCCCcccccceeeecCccccccc
Q psy16551        198 GEGCPRCGGAVFAAEQQLAKGTMWHKQC  225 (281)
Q Consensus       198 ~~~C~~C~~~I~~~~~v~~~g~~~H~~C  225 (281)
                      .++|+.|+++|. +..+.++|+.||+++
T Consensus         5 ~p~C~~C~~PI~-~~~vtAlgk~WHpEH   31 (31)
T d1u5sb1           5 VPICGACRRPIE-GRVVNAMGKQWHVEH   31 (31)
T ss_dssp             CCEETTTTEECC-SCEECCTTSBEETTT
T ss_pred             CcchhhcCCchh-hhHhhhhccccCCCC
Confidence            458999999994 567889999999974

>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=97.82  E-value=1.8e-06  Score=46.31  Aligned_cols=30  Identities=43%  Similarity=1.105  Sum_probs=26.8

Q ss_pred             eeccccCCCCCCCCeeeCCCCcccCccchhh
Q psy16551        123 FKCRDCNKTLDSINACDGPDKDIYCKTCYGK  153 (281)
Q Consensus       123 F~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~  153 (281)
                      |+|..|++.|....... +||.+||+.||.+
T Consensus         1 frca~cgk~lestt~ad-kdgeiyck~cyak   30 (31)
T d1ibia2           1 FRCAKCGKSLESTTLTE-KEGEIYCKGCYAK   30 (31)
T ss_dssp             EECSSSCCEECSSCSEE-ETTEEECHHHHHH
T ss_pred             CccccccCccccceeec-cCCcEEEeeeeec
Confidence            89999999998877664 9999999999976

>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=97.77  E-value=6.1e-06  Score=46.73  Aligned_cols=29  Identities=24%  Similarity=0.618  Sum_probs=25.3

Q ss_pred             CCCCCcCCCccccccceeeccCcccccCce
Q psy16551         94 PGKGCPRCGGVVFAAEQVLAKGSEWHRKCF  123 (281)
Q Consensus        94 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF  123 (281)
                      ....|..|+++|.+ ..+.|.|+.||+.||
T Consensus         7 tlEkC~~C~~~I~d-riLrA~Gk~yHP~CF   35 (35)
T d2dloa1           7 TLEKCATCSQPILD-RILRAMGKAYHPGCF   35 (35)
T ss_dssp             SCCBCTTTCCBCCS-CCEEETTEEECTTTC
T ss_pred             HHHHHHHhchHHHH-HHHHHhCCCCCCCCC
Confidence            34679999999964 778999999999998

>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=6.6e-06  Score=45.45  Aligned_cols=27  Identities=37%  Similarity=0.946  Sum_probs=25.5

Q ss_pred             CCCCCCCcccccceee-ecCcccccccc
Q psy16551        200 GCPRCGGAVFAAEQQL-AKGTMWHKQCF  226 (281)
Q Consensus       200 ~C~~C~~~I~~~~~v~-~~g~~~H~~Cf  226 (281)
                      .|++|++.|...|.|+ +.+++||..||
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            7999999999999888 99999999998

>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=97.69  E-value=6.2e-06  Score=46.01  Aligned_cols=31  Identities=19%  Similarity=0.487  Sum_probs=27.4

Q ss_pred             eccccCCCCCCCCeeeCCCCcccCccchhhcc
Q psy16551        124 KCRDCNKTLDSINACDGPDKDIYCKTCYGKKW  155 (281)
Q Consensus       124 ~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~  155 (281)
                      .|..|.+++....|+. .+|++||+.||.++.
T Consensus         1 VC~~C~~PF~~~~Fy~-~~g~PyCe~HyH~~~   31 (32)
T d1x3ha2           1 VCGDCFTSFSTGSFFE-LDGRPFCELHYHHRR   31 (32)
T ss_dssp             BCSSSCCBSCSSCCEE-SSSCEECHHHHHHHH
T ss_pred             CcCccCCcCCCCCeEe-ECCccchHHhhhhhc
Confidence            4899999999888875 999999999998764

>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=97.68  E-value=5.3e-06  Score=46.03  Aligned_cols=33  Identities=27%  Similarity=0.607  Sum_probs=30.1

Q ss_pred             eeccccCCCCCCCCeeeCCCCcccCccchhhccC
Q psy16551        123 FKCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG  156 (281)
Q Consensus       123 F~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~  156 (281)
                      |.|+.|.+++.+...+ ++.|..||+.||.++|+
T Consensus         1 FvCA~CekPF~G~rhy-E~~g~ayCe~Hy~qLfg   33 (35)
T d1u5sb2           1 FVCAKCEKPFLGHRHY-ERKGLAYCETHYNQLFG   33 (35)
T ss_dssp             CBCTTTCCBCSSSCCE-EETTEEECHHHHHHHCS
T ss_pred             CcccccCCccCCchhh-hhcCchHHHHHHHHHhc
Confidence            7899999999988777 49999999999999986

>d2d8za2 g.39.1.3 (A:33-64) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.65  E-value=8.8e-06  Score=45.14  Aligned_cols=32  Identities=25%  Similarity=0.613  Sum_probs=28.5

Q ss_pred             eccccCCCCCCCCeeeCCCCcccCccchhhccC
Q psy16551        124 KCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG  156 (281)
Q Consensus       124 ~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~  156 (281)
                      .|..|.++|.+..|.. +|+++||-.||..+|+
T Consensus         1 ~C~~C~~~L~GQry~~-rd~~PyC~~Cf~~lfA   32 (32)
T d2d8za2           1 VCTACRKQLSGQRFTA-RDDFAYCLNCFCDLYA   32 (32)
T ss_dssp             BCSSSCCBCTTSCCEE-SSSSEECHHHHHHHTC
T ss_pred             CcccCCccccCceeee-cCCCeehHHhhHhhcC
Confidence            4789999999988885 9999999999998874

>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=97.65  E-value=1.3e-05  Score=43.98  Aligned_cols=28  Identities=29%  Similarity=0.783  Sum_probs=25.4

Q ss_pred             CCCCCCCCcccccceeeecCcccccccc
Q psy16551        199 EGCPRCGGAVFAAEQQLAKGTMWHKQCF  226 (281)
Q Consensus       199 ~~C~~C~~~I~~~~~v~~~g~~~H~~Cf  226 (281)
                      ..|++|+++|.+...+.+.++.||..|+
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            3899999999988888899999999985

>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=97.64  E-value=6.8e-06  Score=45.84  Aligned_cols=31  Identities=16%  Similarity=0.320  Sum_probs=27.1

Q ss_pred             cccccCCCCCCCccccCCCCcccChhhhcccc
Q psy16551        227 SCNVCKRPLDSVLACDGPDKEIYCKACYGKNF  258 (281)
Q Consensus       227 ~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f  258 (281)
                      +|..|.+++.++.|+ +.||+|||+.||.++-
T Consensus         1 VC~~C~~PF~~~~Fy-~~~g~PyCe~HyH~~~   31 (32)
T d1x3ha2           1 VCGDCFTSFSTGSFF-ELDGRPFCELHYHHRR   31 (32)
T ss_dssp             BCSSSCCBSCSSCCE-ESSSCEECHHHHHHHH
T ss_pred             CcCccCCcCCCCCeE-eECCccchHHhhhhhc
Confidence            489999999888886 6999999999998764

>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=97.64  E-value=7.1e-06  Score=44.82  Aligned_cols=31  Identities=29%  Similarity=0.648  Sum_probs=26.7

Q ss_pred             eccccCCCCCCCCeeeCCCCcccCccchhhccC
Q psy16551        124 KCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG  156 (281)
Q Consensus       124 ~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~  156 (281)
                      +|..|++.|.+.+.  .+||.+||+.||..+|+
T Consensus         1 kC~~C~~vL~gEYm--~kdG~PyCe~DY~~~FG   31 (31)
T d2dj7a1           1 KCQTCSVILTGEYI--SKDGVPYCESDYHAQFG   31 (31)
T ss_dssp             BCSSSCCBCSSCCE--EETTEEECTTHHHHHTT
T ss_pred             CccccCccccceee--cCCCCcccHHHHHHhcC
Confidence            58999999987665  49999999999999884

>d1ibia1 g.39.1.3 (A:117-144) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

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

Probab=97.63  E-value=6.3e-06  Score=43.55  Aligned_cols=26  Identities=50%  Similarity=1.210  Sum_probs=24.8

Q ss_pred             CCCCCCCcccccceeeecCccccccc
Q psy16551        200 GCPRCGGAVFAAEQQLAKGTMWHKQC  225 (281)
Q Consensus       200 ~C~~C~~~I~~~~~v~~~g~~~H~~C  225 (281)
                      +|++|++.++..|.++-.|+.||+.|
T Consensus         3 ~CpRC~~~VyaAEkviGaG~~WHk~C   28 (28)
T d1ibia1           3 KCSRCGDSVYAAEKVIGAGKPWHKNC   28 (28)
T ss_dssp             ECTTTSSEESSSSCEESSSSEECSSC
T ss_pred             cCcccchhHHHHHHHhcCCCccccCC
Confidence            79999999999999999999999987

>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=97.58  E-value=1.5e-05  Score=42.66  Aligned_cols=26  Identities=23%  Similarity=0.779  Sum_probs=22.8

Q ss_pred             CcCCCccccc---cceeeccCcccccCce
Q psy16551         98 CPRCGGVVFA---AEQVLAKGSEWHRKCF  123 (281)
Q Consensus        98 C~~C~~~I~~---~~~~~~~~~~~H~~CF  123 (281)
                      |++|.++|..   ..+|..+++.||.+||
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            8899999964   5678999999999998

>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=97.57  E-value=8.7e-06  Score=45.14  Aligned_cols=34  Identities=26%  Similarity=0.614  Sum_probs=29.1

Q ss_pred             ccccccCCCCCCCccccCCCCcccChhhhccccCC
Q psy16551        226 FSCNVCKRPLDSVLACDGPDKEIYCKACYGKNFGP  260 (281)
Q Consensus       226 f~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~~  260 (281)
                      |+|+.|.+++-+... +++.|..||+.||.++||-
T Consensus         1 FvCA~CekPF~G~rh-yE~~g~ayCe~Hy~qLfg~   34 (35)
T d1u5sb2           1 FVCAKCEKPFLGHRH-YERKGLAYCETHYNQLFGD   34 (35)
T ss_dssp             CBCTTTCCBCSSSCC-EEETTEEECHHHHHHHCSC
T ss_pred             CcccccCCccCCchh-hhhcCchHHHHHHHHHhcc
Confidence            789999999965544 4799999999999999974

>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=97.55  E-value=1.2e-05  Score=43.95  Aligned_cols=32  Identities=34%  Similarity=0.840  Sum_probs=28.2

Q ss_pred             cccccCCCCCCCccccCCCCcccChhhhccccC
Q psy16551        227 SCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG  259 (281)
Q Consensus       227 ~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~  259 (281)
                      .|..|+++|.+..|. .+|.+|||-.||..+|+
T Consensus         1 vCt~Ck~~LaGqrFT-Srde~pYC~~Cfg~LfA   32 (32)
T d2cuqa1           1 VCTGCQTPLAGQQFT-SRDEDPYCVACFGELFA   32 (32)
T ss_dssp             BCSSSCCBCTTCCEE-ECSSSEEEHHHHHHHTT
T ss_pred             CccccCccccCCccc-cCCCCccHHHHhHhhcC
Confidence            488999999887775 69999999999999885

>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=97.53  E-value=2.5e-05  Score=42.64  Aligned_cols=27  Identities=22%  Similarity=0.448  Sum_probs=24.7

Q ss_pred             CCCCCCCCcccccceeeecCccccccc
Q psy16551        199 EGCPRCGGAVFAAEQQLAKGTMWHKQC  225 (281)
Q Consensus       199 ~~C~~C~~~I~~~~~v~~~g~~~H~~C  225 (281)
                      ..|++|+++|.+...+.+.++.||..|
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            389999999998888889999999887

>d1ibia1 g.39.1.3 (A:117-144) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

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

Probab=97.48  E-value=2e-05  Score=41.59  Aligned_cols=27  Identities=48%  Similarity=1.233  Sum_probs=25.1

Q ss_pred             CCCcCCCccccccceeeccCcccccCc
Q psy16551         96 KGCPRCGGVVFAAEQVLAKGSEWHRKC  122 (281)
Q Consensus        96 ~~C~~C~~~I~~~~~~~~~~~~~H~~C  122 (281)
                      ..|.+|++.||..|.+.-.|+.||+.|
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            369999999999999999999999987

>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=97.48  E-value=1.4e-05  Score=44.04  Aligned_cols=32  Identities=28%  Similarity=0.718  Sum_probs=27.3

Q ss_pred             cccccCCCCCCCccccCCCCcccChh-hhccccC
Q psy16551        227 SCNVCKRPLDSVLACDGPDKEIYCKA-CYGKNFG  259 (281)
Q Consensus       227 ~C~~C~~~L~~~~~~~~~~g~~~C~~-c~~~~f~  259 (281)
                      +|..|++.|..+... +.+|+|||.. ||..+||
T Consensus         1 kCekC~ktL~~G~Ha-EH~gkPYC~~PCY~aLFG   33 (33)
T d2cu8a2           1 KCERCSKTLTPGGHA-EHDGKPFCHKPCYATLFG   33 (33)
T ss_dssp             BCSSSCCBCCTTSCE-EETTEEECTTTHHHHHSC
T ss_pred             CchhcccccCCCCcc-ccCCCcCcCcchHHhhcC
Confidence            589999999877664 7999999975 9998886

>d1v6ga1 g.39.1.3 (A:1-41) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.45  E-value=3e-05  Score=45.61  Aligned_cols=35  Identities=26%  Similarity=0.507  Sum_probs=32.0

Q ss_pred             ccccCCCCCCCCcCCCccccccceeeccCcccccCc
Q psy16551         87 TAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKC  122 (281)
Q Consensus        87 ~~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~C  122 (281)
                      ..+|+..++..|..|++.| .++++.+.++.||++|
T Consensus         7 ~~DYq~~fG~~C~~C~~~I-tG~V~~Ag~~~yHP~C   41 (41)
T d1v6ga1           7 GLDYQRLYGTRCFSCDQFI-EGEVVSALGKTYHPDC   41 (41)
T ss_dssp             CSCGGGSCCCBCTTTCCBC-CSCCEEETTEEECTTT
T ss_pred             cccHHHHhCcccccccCEe-eeeeeEecCcccCCCC
Confidence            4578889999999999999 6899999999999998

>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=97.45  E-value=9.9e-06  Score=43.36  Aligned_cols=30  Identities=43%  Similarity=0.999  Sum_probs=25.4

Q ss_pred             ccccccCCCCCCCccccCCCCcccChhhhcc
Q psy16551        226 FSCNVCKRPLDSVLACDGPDKEIYCKACYGK  256 (281)
Q Consensus       226 f~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~  256 (281)
                      |+|+.|++.|.+... .++||++||+.||.+
T Consensus         1 frca~cgk~lestt~-adkdgeiyck~cyak   30 (31)
T d1ibia2           1 FRCAKCGKSLESTTL-TEKEGEIYCKGCYAK   30 (31)
T ss_dssp             EECSSSCCEECSSCS-EEETTEEECHHHHHH
T ss_pred             CccccccCcccccee-eccCCcEEEeeeeec
Confidence            789999999976544 479999999999965

>d2dloa2 g.39.1.3 (A:43-75) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.44  E-value=2.3e-05  Score=43.65  Aligned_cols=33  Identities=27%  Similarity=0.591  Sum_probs=30.7

Q ss_pred             cccccCCCCCCCccccCCCCcccChhhhccccC
Q psy16551        227 SCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG  259 (281)
Q Consensus       227 ~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~  259 (281)
                      .|..|++.|++..|....++++||-.+|+++|+
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            488999999999999999999999999999986

>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=97.36  E-value=4.3e-05  Score=39.74  Aligned_cols=26  Identities=35%  Similarity=1.002  Sum_probs=23.0

Q ss_pred             CcCCCccccccce-eeccCcccccCce
Q psy16551         98 CPRCGGVVFAAEQ-VLAKGSEWHRKCF  123 (281)
Q Consensus        98 C~~C~~~I~~~~~-~~~~~~~~H~~CF  123 (281)
                      |..|.+.|+++.+ +...|..||..||
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            7899999988655 7899999999998

>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=97.34  E-value=3.9e-05  Score=42.18  Aligned_cols=32  Identities=34%  Similarity=0.847  Sum_probs=27.6

Q ss_pred             eccccCCCCCCCCeeeCCCCcccCc-cchhhccC
Q psy16551        124 KCRDCNKTLDSINACDGPDKDIYCK-TCYGKKWG  156 (281)
Q Consensus       124 ~C~~C~~~L~~~~~~~~~~g~~~C~-~cy~~~~~  156 (281)
                      +|..|++.|..+.... ++|++||. .||..+|+
T Consensus         1 kCekC~ktL~~G~HaE-H~gkPYC~~PCY~aLFG   33 (33)
T d2cu8a2           1 KCERCSKTLTPGGHAE-HDGKPFCHKPCYATLFG   33 (33)
T ss_dssp             BCSSSCCBCCTTSCEE-ETTEEECTTTHHHHHSC
T ss_pred             CchhcccccCCCCccc-cCCCcCcCcchHHhhcC
Confidence            6899999999888874 99999995 59988874

>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=97.31  E-value=4.1e-05  Score=40.77  Aligned_cols=26  Identities=31%  Similarity=0.825  Sum_probs=22.5

Q ss_pred             CcCCCccccc---cceeeccCcccccCce
Q psy16551         98 CPRCGGVVFA---AEQVLAKGSEWHRKCF  123 (281)
Q Consensus        98 C~~C~~~I~~---~~~~~~~~~~~H~~CF  123 (281)
                      |.+|.++|..   ..+|..+++.||.+||
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            8899999954   5568999999999998

>d1x4ka2 g.39.1.3 (A:8-34) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.28  E-value=4.6e-05  Score=39.72  Aligned_cols=26  Identities=35%  Similarity=0.972  Sum_probs=23.0

Q ss_pred             CcCCCccccccce-eeccCcccccCce
Q psy16551         98 CPRCGGVVFAAEQ-VLAKGSEWHRKCF  123 (281)
Q Consensus        98 C~~C~~~I~~~~~-~~~~~~~~H~~CF  123 (281)
                      |..|.+.|+++.+ +...|..||..||
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            7899999988655 7899999999998

>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=97.28  E-value=4.8e-05  Score=41.54  Aligned_cols=32  Identities=28%  Similarity=0.774  Sum_probs=28.2

Q ss_pred             eccccCCCCCCCCeeeCCCCcccCccchhhccC
Q psy16551        124 KCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG  156 (281)
Q Consensus       124 ~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~  156 (281)
                      .|..|+++|.+..|. .+|+++||.+||-.+|+
T Consensus         1 vCt~Ck~~LaGqrFT-Srde~pYC~~Cfg~LfA   32 (32)
T d2cuqa1           1 VCTGCQTPLAGQQFT-SRDEDPYCVACFGELFA   32 (32)
T ss_dssp             BCSSSCCBCTTCCEE-ECSSSEEEHHHHHHHTT
T ss_pred             CccccCccccCCccc-cCCCCccHHHHhHhhcC
Confidence            488999999998887 49999999999988774

>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=97.26  E-value=6.1e-05  Score=39.25  Aligned_cols=26  Identities=31%  Similarity=1.030  Sum_probs=23.1

Q ss_pred             CCCCCCcccccceee-ecCcccccccc
Q psy16551        201 CPRCGGAVFAAEQQL-AKGTMWHKQCF  226 (281)
Q Consensus       201 C~~C~~~I~~~~~v~-~~g~~~H~~Cf  226 (281)
                      |..|.+.|+++.+.+ ..|..||..||
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            778999999998665 99999999998

>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=97.25  E-value=4.7e-05  Score=41.73  Aligned_cols=32  Identities=28%  Similarity=0.714  Sum_probs=27.5

Q ss_pred             cccccCCCCCCCccccCCCCcccChhhhccccC
Q psy16551        227 SCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG  259 (281)
Q Consensus       227 ~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~  259 (281)
                      .|+.|+++|....|+ +..|.+||+.||++.|+
T Consensus         1 nCa~C~~sL~d~gFV-EE~g~lYCe~Cye~ffA   32 (32)
T d2dara1           1 NCAHCKNTMAYIGFV-EEKGALYCELCYEKFFA   32 (32)
T ss_dssp             BCSSSCCBCSSSCBE-ESSSCEECHHHHHHHTS
T ss_pred             CcccccccHhhccee-eecCcEeHHHHHHHhcC
Confidence            378999999877775 68999999999998875

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

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

Probab=97.24  E-value=5.6e-05  Score=41.58  Aligned_cols=31  Identities=42%  Similarity=0.884  Sum_probs=28.3

Q ss_pred             CCCCCCcCCCccccccceeeccCcccccCce
Q psy16551         93 APGKGCPRCGGVVFAAEQVLAKGSEWHRKCF  123 (281)
Q Consensus        93 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF  123 (281)
                      ..+..|..|.+.||..|-+..+|+.||+.||
T Consensus         5 ggg~kcg~c~ktvy~aeevqc~g~sfhk~cf   35 (35)
T d1b8ta1           5 GGGKKCGVCQKAVYFAEEVQCEGSSFHKSCF   35 (35)
T ss_dssp             CCCEECTTTCCEECSSCCEEETTEEECTTTC
T ss_pred             CCCceeccccceEeeeeeeeecCcccccccC
Confidence            4567899999999999999999999999998

>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=97.21  E-value=3.4e-05  Score=42.36  Aligned_cols=31  Identities=26%  Similarity=0.755  Sum_probs=28.0

Q ss_pred             ccccCCCCCCCccccCCCCcccChhhhccccC
Q psy16551        228 CNVCKRPLDSVLACDGPDKEIYCKACYGKNFG  259 (281)
Q Consensus       228 C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~  259 (281)
                      |..|+.+|+...|+ .+++..||-.||++.|+
T Consensus         2 C~~C~qPIGtksfi-pk~~~~yCvpCyE~kfA   32 (32)
T d1x4ka1           2 CHRCQQPIGTKSFI-PKDNQNFCVPCYEKQHA   32 (32)
T ss_dssp             CSSSCCCCCSSSEE-EETTEEEEHHHHHHHTS
T ss_pred             cccccCcccccccc-cCCCCceEeecchhhcC
Confidence            78999999888886 59999999999999986

>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=97.20  E-value=8e-05  Score=41.28  Aligned_cols=25  Identities=20%  Similarity=0.408  Sum_probs=21.2

Q ss_pred             CCCCCCCcccccceeeecCccccccc
Q psy16551        200 GCPRCGGAVFAAEQQLAKGTMWHKQC  225 (281)
Q Consensus       200 ~C~~C~~~I~~~~~v~~~g~~~H~~C  225 (281)
                      .|..|...| .+..+++....||++|
T Consensus        10 ~C~~C~~~i-tGpvMvAG~~K~HPEC   34 (34)
T d1x6aa1          10 FCHGCSLLM-TGPFMVAGEFKYHPEC   34 (34)
T ss_dssp             BCTTTCCBC-CSCCBCCTTCCBCTTS
T ss_pred             HhhhhHhhc-ccceeeecccccCCCC
Confidence            899999977 5766668888999998

>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=97.19  E-value=3.6e-05  Score=42.21  Aligned_cols=31  Identities=32%  Similarity=0.765  Sum_probs=27.9

Q ss_pred             ccccCCCCCCCccccCCCCcccChhhhccccC
Q psy16551        228 CNVCKRPLDSVLACDGPDKEIYCKACYGKNFG  259 (281)
Q Consensus       228 C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~  259 (281)
                      |..|..+|+...|+ .+++..||-.||+++|+
T Consensus         2 C~~C~qPIGtkSFi-p~~~~~yCvpCYE~kfA   32 (32)
T d1wyha1           2 CSGCEQPLGSRSFV-PDKGAHYCVPCYENKFA   32 (32)
T ss_dssp             CTTTCCBTTTSCEE-EETTEEEEHHHHHHHTS
T ss_pred             cccccCcccccccc-cCCCcEEEEeccccccC
Confidence            78999999888886 68999999999999986

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

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

Probab=97.19  E-value=0.0001  Score=38.41  Aligned_cols=27  Identities=44%  Similarity=0.988  Sum_probs=25.6

Q ss_pred             CCcCCCccccccceeeccCcccccCce
Q psy16551         97 GCPRCGGVVFAAEQVLAKGSEWHRKCF  123 (281)
Q Consensus        97 ~C~~C~~~I~~~~~~~~~~~~~H~~CF  123 (281)
                      .|..|.+.||..+-+..+|+.||+.||
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            599999999999999999999999998

>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=97.11  E-value=0.0001  Score=40.38  Aligned_cols=32  Identities=28%  Similarity=0.794  Sum_probs=27.6

Q ss_pred             eccccCCCCCCCCeeeCCCCcccCccchhhccC
Q psy16551        124 KCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG  156 (281)
Q Consensus       124 ~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~  156 (281)
                      .|+.|+.+|.+..|+. ..|.+||+.||.+.|+
T Consensus         1 nCa~C~~sL~d~gFVE-E~g~lYCe~Cye~ffA   32 (32)
T d2dara1           1 NCAHCKNTMAYIGFVE-EKGALYCELCYEKFFA   32 (32)
T ss_dssp             BCSSSCCBCSSSCBEE-SSSCEECHHHHHHHTS
T ss_pred             CcccccccHhhcceee-ecCcEeHHHHHHHhcC
Confidence            4889999999988874 9999999999998663

>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=97.09  E-value=0.00012  Score=38.01  Aligned_cols=26  Identities=38%  Similarity=1.101  Sum_probs=22.8

Q ss_pred             CCCCCCcccccceee-ecCcccccccc
Q psy16551        201 CPRCGGAVFAAEQQL-AKGTMWHKQCF  226 (281)
Q Consensus       201 C~~C~~~I~~~~~v~-~~g~~~H~~Cf  226 (281)
                      |..|.+.|+++.+.+ ..|+.||..||
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            778999999988655 89999999998

>d2dloa2 g.39.1.3 (A:43-75) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.09  E-value=9.8e-05  Score=41.04  Aligned_cols=33  Identities=24%  Similarity=0.511  Sum_probs=29.7

Q ss_pred             eccccCCCCCCCCeeeCCCCcccCccchhhccC
Q psy16551        124 KCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG  156 (281)
Q Consensus       124 ~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~  156 (281)
                      +|..|++.|.+..|....++++||-.||+++|+
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            478999999999998888999999999999874

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

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

Probab=97.04  E-value=9.3e-05  Score=40.70  Aligned_cols=31  Identities=39%  Similarity=0.806  Sum_probs=28.3

Q ss_pred             CCCCCCCCCCCcccccceeeecCcccccccc
Q psy16551        196 RKGEGCPRCGGAVFAAEQQLAKGTMWHKQCF  226 (281)
Q Consensus       196 ~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf  226 (281)
                      +++.+|..|.+.++..+-+...|+.||+.||
T Consensus         5 ggg~kcg~c~ktvy~aeevqc~g~sfhk~cf   35 (35)
T d1b8ta1           5 GGGKKCGVCQKAVYFAEEVQCEGSSFHKSCF   35 (35)
T ss_dssp             CCCEECTTTCCEECSSCCEEETTEEECTTTC
T ss_pred             CCCceeccccceEeeeeeeeecCcccccccC
Confidence            4666999999999999999999999999997

>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=97.01  E-value=9.3e-05  Score=40.71  Aligned_cols=28  Identities=43%  Similarity=0.856  Sum_probs=24.8

Q ss_pred             CCCcCCCcccccccee-eccCcccccCce
Q psy16551         96 KGCPRCGGVVFAAEQV-LAKGSEWHRKCF  123 (281)
Q Consensus        96 ~~C~~C~~~I~~~~~~-~~~~~~~H~~CF  123 (281)
                      ..|++|++.|...+.+ .+.+..||..||
T Consensus         3 g~Ca~C~~~I~~~e~VmRA~~~VyHl~CF   31 (31)
T d1rutx3           3 GACSACGQSIPASELVMRAQGNVYHLKCF   31 (31)
T ss_dssp             EECTTTCCEECTTSEEEEETTEEECGGGC
T ss_pred             cccccccCcCChhHhheecccceeeeccC
Confidence            4699999999877775 899999999998

>d1a7ia2 g.39.1.3 (A:36-67) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

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

Probab=96.77  E-value=0.00016  Score=39.10  Aligned_cols=31  Identities=52%  Similarity=1.131  Sum_probs=26.5

Q ss_pred             ccccCCCCCCCCeeeCCCCcccCccchhhccC
Q psy16551        125 CRDCNKTLDSINACDGPDKDIYCKTCYGKKWG  156 (281)
Q Consensus       125 C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~  156 (281)
                      |..|++.|+...-. .+++.+||+.||.++|+
T Consensus         2 C~~C~K~LdStTva-~h~~eiYCKsCygkkyg   32 (32)
T d1a7ia2           2 CMVCRKNLDSTTVA-IHDAEVYCKSCYGKKYG   32 (32)
T ss_dssp             CSSSCCEECSSCCE-EETTEEECSHHHHHHCC
T ss_pred             chhhhhccCcceee-eecceEEehhhccccCC
Confidence            78899999877665 49999999999998874

>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=96.62  E-value=0.00051  Score=37.95  Aligned_cols=29  Identities=21%  Similarity=0.480  Sum_probs=25.7

Q ss_pred             CCCCCcCCCccccccceeeccCcccccCce
Q psy16551         94 PGKGCPRCGGVVFAAEQVLAKGSEWHRKCF  123 (281)
Q Consensus        94 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF  123 (281)
                      ..++|.+|+.-|. +.++.+.++.+|++||
T Consensus         7 klp~CdkCg~GIV-G~~VK~rDk~rHPeCf   35 (35)
T d1x62a2           7 KLPMCDKCGTGIV-GVFVKLRDRHRHPECY   35 (35)
T ss_dssp             CCCCCSSSCCCCC-SSCEECSSCEECTTTT
T ss_pred             cCccccccCCCcE-eEEEEeccccCCCCCC
Confidence            3578999999995 6889999999999997

>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=96.56  E-value=0.00052  Score=36.48  Aligned_cols=26  Identities=23%  Similarity=0.719  Sum_probs=21.0

Q ss_pred             CCCCCCcccc---cceeeecCcccccccc
Q psy16551        201 CPRCGGAVFA---AEQQLAKGTMWHKQCF  226 (281)
Q Consensus       201 C~~C~~~I~~---~~~v~~~g~~~H~~Cf  226 (281)
                      |+.|.++|..   ...+.+.++.||.+||
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            7889999864   2356789999999998

>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=96.47  E-value=0.00069  Score=34.99  Aligned_cols=26  Identities=35%  Similarity=0.760  Sum_probs=20.9

Q ss_pred             CcCCCccccc-cceeeccCcccccCce
Q psy16551         98 CPRCGGVVFA-AEQVLAKGSEWHRKCF  123 (281)
Q Consensus        98 C~~C~~~I~~-~~~~~~~~~~~H~~CF  123 (281)
                      |..|.++|-. ..-+...++.||..||
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            7889999953 3346788999999998

>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=96.46  E-value=0.00036  Score=38.17  Aligned_cols=31  Identities=23%  Similarity=0.705  Sum_probs=27.6

Q ss_pred             ccccCCCCCCCCeeeCCCCcccCccchhhccC
Q psy16551        125 CRDCNKTLDSINACDGPDKDIYCKTCYGKKWG  156 (281)
Q Consensus       125 C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~  156 (281)
                      |..|..++....|.- +++..||..||+++|+
T Consensus         2 C~~C~qPIGtksfip-k~~~~yCvpCyE~kfA   32 (32)
T d1x4ka1           2 CHRCQQPIGTKSFIP-KDNQNFCVPCYEKQHA   32 (32)
T ss_dssp             CSSSCCCCCSSSEEE-ETTEEEEHHHHHHHTS
T ss_pred             cccccCccccccccc-CCCCceEeecchhhcC
Confidence            788999999888874 9999999999999874

>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=96.46  E-value=0.0007  Score=39.91  Aligned_cols=29  Identities=28%  Similarity=0.559  Sum_probs=25.9

Q ss_pred             CCCCCcCCCccccccceeeccCcccccCce
Q psy16551         94 PGKGCPRCGGVVFAAEQVLAKGSEWHRKCF  123 (281)
Q Consensus        94 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF  123 (281)
                      ..++|.+|+.-|. +-++.+.++.+|++||
T Consensus        17 kLP~CdkCg~GIV-G~~VK~rDK~rHPeCf   45 (45)
T d1x64a1          17 RMPLCDKCGSGIV-GAVVKARDKYRHPECF   45 (45)
T ss_dssp             SCCBCTTTCCBCC-SCCEESSSCEECTTTC
T ss_pred             cCccccccCCCcE-EEEEEeccccCCCCCC
Confidence            4588999999995 6889999999999998

>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=96.43  E-value=0.0011  Score=36.58  Aligned_cols=28  Identities=18%  Similarity=0.482  Sum_probs=24.1

Q ss_pred             CCCCCCCCCcccccceeeecCcccccccc
Q psy16551        198 GEGCPRCGGAVFAAEQQLAKGTMWHKQCF  226 (281)
Q Consensus       198 ~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf  226 (281)
                      .+.|.+|+..|. +-.+.++++.+|++||
T Consensus         8 lp~CdkCg~GIV-G~~VK~rDk~rHPeCf   35 (35)
T d1x62a2           8 LPMCDKCGTGIV-GVFVKLRDRHRHPECY   35 (35)
T ss_dssp             CCCCSSSCCCCC-SSCEECSSCEECTTTT
T ss_pred             CccccccCCCcE-eEEEEeccccCCCCCC
Confidence            458999999994 6577799999999997

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

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

Probab=96.36  E-value=0.001  Score=34.54  Aligned_cols=27  Identities=37%  Similarity=0.896  Sum_probs=25.4

Q ss_pred             CCCCCCCcccccceeeecCcccccccc
Q psy16551        200 GCPRCGGAVFAAEQQLAKGTMWHKQCF  226 (281)
Q Consensus       200 ~C~~C~~~I~~~~~v~~~g~~~H~~Cf  226 (281)
                      +|..|.+.++..+-+...|+.||+.||
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            799999999999999999999999997

>d2cura1 g.39.1.3 (A:33-63) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.31  E-value=0.0007  Score=36.36  Aligned_cols=29  Identities=28%  Similarity=0.702  Sum_probs=25.3

Q ss_pred             eccccCCCCCCCCeeeCCCCcccCccchhh
Q psy16551        124 KCRDCNKTLDSINACDGPDKDIYCKTCYGK  153 (281)
Q Consensus       124 ~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~  153 (281)
                      .|..|++.|.+..|.. .++++||-+||..
T Consensus         1 vC~~C~K~Lag~rFTa-~eDq~yCVdCYK~   29 (31)
T d2cura1           1 VCVTCSKKLAGQRFTA-VEDQYYCVDCYKN   29 (31)
T ss_dssp             BCTTTCCBCTTSCEEE-CSSCEEEHHHHHH
T ss_pred             CcccccchhcCceeEE-ecceEEEeeeecc
Confidence            4889999999988875 9999999999964

>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=96.29  E-value=0.0022  Score=37.77  Aligned_cols=29  Identities=24%  Similarity=0.627  Sum_probs=24.6

Q ss_pred             CCCCCCCCCCcccccceeeecCcccccccc
Q psy16551        197 KGEGCPRCGGAVFAAEQQLAKGTMWHKQCF  226 (281)
Q Consensus       197 ~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf  226 (281)
                      ..+.|-+|+..| -+-.+.++++.+|++||
T Consensus        17 kLP~CdkCg~GI-VG~~VK~rDK~rHPeCf   45 (45)
T d1x64a1          17 RMPLCDKCGSGI-VGAVVKARDKYRHPECF   45 (45)
T ss_dssp             SCCBCTTTCCBC-CSCCEESSSCEECTTTC
T ss_pred             cCccccccCCCc-EEEEEEeccccCCCCCC
Confidence            345899999999 46577799999999998

>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=96.21  E-value=0.0012  Score=34.07  Aligned_cols=26  Identities=31%  Similarity=0.770  Sum_probs=20.1

Q ss_pred             CCCCCCcccccce-eeecCcccccccc
Q psy16551        201 CPRCGGAVFAAEQ-QLAKGTMWHKQCF  226 (281)
Q Consensus       201 C~~C~~~I~~~~~-v~~~g~~~H~~Cf  226 (281)
                      |..|+++|..... +...++.||-.||
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            7889999954432 3378999999997

>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=96.19  E-value=0.00061  Score=37.18  Aligned_cols=31  Identities=29%  Similarity=0.728  Sum_probs=27.4

Q ss_pred             ccccCCCCCCCCeeeCCCCcccCccchhhccC
Q psy16551        125 CRDCNKTLDSINACDGPDKDIYCKTCYGKKWG  156 (281)
Q Consensus       125 C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~  156 (281)
                      |..|..++....|.- +++..||-.||+++|+
T Consensus         2 C~~C~qPIGtkSFip-~~~~~yCvpCYE~kfA   32 (32)
T d1wyha1           2 CSGCEQPLGSRSFVP-DKGAHYCVPCYENKFA   32 (32)
T ss_dssp             CTTTCCBTTTSCEEE-ETTEEEEHHHHHHHTS
T ss_pred             cccccCccccccccc-CCCcEEEEeccccccC
Confidence            788999998888874 9999999999999874

>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=96.05  E-value=0.0018  Score=34.29  Aligned_cols=26  Identities=27%  Similarity=0.755  Sum_probs=20.4

Q ss_pred             CCCCCCcccc---cceeeecCcccccccc
Q psy16551        201 CPRCGGAVFA---AEQQLAKGTMWHKQCF  226 (281)
Q Consensus       201 C~~C~~~I~~---~~~v~~~g~~~H~~Cf  226 (281)
                      |..|.|||..   ...+.+.++.||.+||
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            7788888864   2356689999999998

>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=95.98  E-value=0.00059  Score=36.83  Aligned_cols=31  Identities=52%  Similarity=1.167  Sum_probs=25.4

Q ss_pred             ccccCCCCCCCccccCCCCcccChhhhccccC
Q psy16551        228 CNVCKRPLDSVLACDGPDKEIYCKACYGKNFG  259 (281)
Q Consensus       228 C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~  259 (281)
                      |-.|.+.|++... ..+++++||+.||.++||
T Consensus         2 C~~C~K~LdStTv-a~h~~eiYCKsCygkkyg   32 (32)
T d1a7ia2           2 CMVCRKNLDSTTV-AIHDAEVYCKSCYGKKYG   32 (32)
T ss_dssp             CSSSCCEECSSCC-EEETTEEECSHHHHHHCC
T ss_pred             chhhhhccCccee-eeecceEEehhhccccCC
Confidence            6788999976544 468999999999999875

>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=95.97  E-value=0.0012  Score=35.48  Aligned_cols=29  Identities=24%  Similarity=0.676  Sum_probs=25.6

Q ss_pred             eccccCCCCCCCCeeeCCCCcccCccchhh
Q psy16551        124 KCRDCNKTLDSINACDGPDKDIYCKTCYGK  153 (281)
Q Consensus       124 ~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~  153 (281)
                      .|..|+..|.+..|+. .+.+.||+.||..
T Consensus         1 vC~tC~~kLRGqpFYA-vekkayCE~CYi~   29 (32)
T d1x61a2           1 VCSTCRAQLRGQHFYA-VERRAYCEGCYVA   29 (32)
T ss_dssp             BCSSSCCBCTTSCEEE-SSSCEEEHHHHHH
T ss_pred             CeeEeCceecCCcceE-eeccccccceeee
Confidence            4789999999988875 9999999999975

>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=95.92  E-value=0.0015  Score=35.08  Aligned_cols=29  Identities=24%  Similarity=0.676  Sum_probs=24.4

Q ss_pred             cccccCCCCCCCccccCCCCcccChhhhcc
Q psy16551        227 SCNVCKRPLDSVLACDGPDKEIYCKACYGK  256 (281)
Q Consensus       227 ~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~  256 (281)
                      .|..|.+.|.+..|. ..+.+.||-.||..
T Consensus         1 vC~~C~K~Lag~rFT-a~eDq~yCVdCYK~   29 (31)
T d2cura1           1 VCVTCSKKLAGQRFT-AVEDQYYCVDCYKN   29 (31)
T ss_dssp             BCTTTCCBCTTSCEE-ECSSCEEEHHHHHH
T ss_pred             CcccccchhcCceeE-EecceEEEeeeecc
Confidence            488999999887776 48999999999953

>d1wiga1 g.39.1.3 (A:1-32) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.62  E-value=0.0047  Score=33.02  Aligned_cols=27  Identities=22%  Similarity=0.619  Sum_probs=23.7

Q ss_pred             CCCCcCCCccccccceeeccCcccccCc
Q psy16551         95 GKGCPRCGGVVFAAEQVLAKGSEWHRKC  122 (281)
Q Consensus        95 ~~~C~~C~~~I~~~~~~~~~~~~~H~~C  122 (281)
                      ..-|..|.+-| .+.++.+.++.||+.|
T Consensus         5 ssgC~~C~~~I-tGkVLEAG~khYHP~C   31 (32)
T d1wiga1           5 SSGCDSCEKYI-TGRVLEAGEKHYHPSC   31 (32)
T ss_dssp             CCSCSSSCCCC-SSCCBCCSSCCBCTTT
T ss_pred             cchhhhhhhhh-hhhhhhccccccCCCC
Confidence            45699999999 5789999999999988

>d1wiga1 g.39.1.3 (A:1-32) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.62  E-value=0.0042  Score=33.22  Aligned_cols=28  Identities=21%  Similarity=0.516  Sum_probs=23.0

Q ss_pred             CCCCCCCCCCcccccceeeecCccccccc
Q psy16551        197 KGEGCPRCGGAVFAAEQQLAKGTMWHKQC  225 (281)
Q Consensus       197 ~~~~C~~C~~~I~~~~~v~~~g~~~H~~C  225 (281)
                      +..-|..|.+-| .+..+.+.++.||+.|
T Consensus         4 gssgC~~C~~~I-tGkVLEAG~khYHP~C   31 (32)
T d1wiga1           4 GSSGCDSCEKYI-TGRVLEAGEKHYHPSC   31 (32)
T ss_dssp             SCCSCSSSCCCC-SSCCBCCSSCCBCTTT
T ss_pred             ccchhhhhhhhh-hhhhhhccccccCCCC
Confidence            344899999999 4656779999999988

>d1x6aa1 g.39.1.3 (A:8-41) Lim domain kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Lim domain kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.27  E-value=0.0073  Score=33.18  Aligned_cols=33  Identities=18%  Similarity=0.382  Sum_probs=27.8

Q ss_pred             ccCCCCCCCCcCCCccccccceeeccCcccccCc
Q psy16551         89 KIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKC  122 (281)
Q Consensus        89 ~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~C  122 (281)
                      +|-.+++..|..|...| .+-++.+.+..||++|
T Consensus         2 dYw~kfge~C~~C~~~i-tGpvMvAG~~K~HPEC   34 (34)
T d1x6aa1           2 DYWGKFGEFCHGCSLLM-TGPFMVAGEFKYHPEC   34 (34)
T ss_dssp             CSSCCSSCBCTTTCCBC-CSCCBCCTTCCBCTTS
T ss_pred             cHHHHHHHHhhhhHhhc-ccceeeecccccCCCC
Confidence            34567788999999977 5788899999999998

>d1x63a2 g.39.1.3 (A:45-76) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.26  E-value=0.0022  Score=34.08  Aligned_cols=32  Identities=22%  Similarity=0.624  Sum_probs=27.3

Q ss_pred             cccccCCCCCCCccccCCCCcccChhhhccccC
Q psy16551        227 SCNVCKRPLDSVLACDGPDKEIYCKACYGKNFG  259 (281)
Q Consensus       227 ~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~f~  259 (281)
                      .|+.|+..++.+.|| .+....||-.|.+.+|+
T Consensus         1 tcs~ckq~igsgsff-pkg~d~ycvtche~kfa   32 (32)
T d1x63a2           1 TCSNCKQVIGTGSFF-PKGEDFYCVTCHETKFA   32 (32)
T ss_dssp             CCSSSCCCCTTSCEE-EETTEEEEHHHHHHHTS
T ss_pred             Ccchhhhhccccccc-CCCCcEEEEEeeccccC
Confidence            488999999888776 58889999999998875

>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=95.12  E-value=0.003  Score=33.81  Aligned_cols=29  Identities=28%  Similarity=0.535  Sum_probs=23.6

Q ss_pred             eccccCCCCCCCCeeeCCCCcccCccchhh
Q psy16551        124 KCRDCNKTLDSINACDGPDKDIYCKTCYGK  153 (281)
Q Consensus       124 ~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~  153 (281)
                      .|+.|+..|....+|+ .++++||+.|...
T Consensus         1 vC~dCg~NLKqrG~Ff-v~~~lyCE~HAr~   29 (31)
T d1x64a2           1 VCADCNLNLKQKGYFF-VEGELYCETHARA   29 (31)
T ss_dssp             CCSSSCCCTTTSCCEE-ETTEEECHHHHHH
T ss_pred             CccccccChhhcceEE-eccEEeehhhhhc
Confidence            4899999999766665 8999999988653

>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=95.11  E-value=0.0042  Score=33.33  Aligned_cols=28  Identities=25%  Similarity=0.745  Sum_probs=24.1

Q ss_pred             cccccCCCCCCCccccCCCCcccChhhhc
Q psy16551        227 SCNVCKRPLDSVLACDGPDKEIYCKACYG  255 (281)
Q Consensus       227 ~C~~C~~~L~~~~~~~~~~g~~~C~~c~~  255 (281)
                      .|..|+..|.+..|+. .+.+.||+.||-
T Consensus         1 vC~tC~~kLRGqpFYA-vekkayCE~CYi   28 (32)
T d1x61a2           1 VCSTCRAQLRGQHFYA-VERRAYCEGCYV   28 (32)
T ss_dssp             BCSSSCCBCTTSCEEE-SSSCEEEHHHHH
T ss_pred             CeeEeCceecCCcceE-eeccccccceee
Confidence            4789999999888764 899999999984

>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=95.06  E-value=0.0047  Score=35.41  Aligned_cols=28  Identities=32%  Similarity=0.762  Sum_probs=22.1

Q ss_pred             CCCCCCCccccccee-eecCccccccccc
Q psy16551        200 GCPRCGGAVFAAEQQ-LAKGTMWHKQCFS  227 (281)
Q Consensus       200 ~C~~C~~~I~~~~~v-~~~g~~~H~~Cf~  227 (281)
                      .|++|++.+.+++-+ ...+.+||+.|-.
T Consensus         1 ~C~rC~~mF~EGEEMYLQGs~IWHP~C~~   29 (41)
T d1wiga2           1 LCVRCGQMFAEGEEMYLQGSSIWHPACRQ   29 (41)
T ss_dssp             CCSSSCCCCCSSCCCEEETTEEECTTHHH
T ss_pred             CcchhhccccccceeeecCCceeCCcccc
Confidence            389999999888744 4677799998854

>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=94.77  E-value=0.0086  Score=33.04  Aligned_cols=27  Identities=37%  Similarity=0.917  Sum_probs=23.4

Q ss_pred             CCCCCCCCcccccceee-ecCccccccc
Q psy16551        199 EGCPRCGGAVFAAEQQL-AKGTMWHKQC  225 (281)
Q Consensus       199 ~~C~~C~~~I~~~~~v~-~~g~~~H~~C  225 (281)
                      ..|.+|+..+.+.+.++ ..|..||..|
T Consensus         8 ~~C~RC~~gF~p~EkiVNSnGEl~H~qC   35 (35)
T d1g47a1           8 ATCERCKGGFAPAEKIVNSNGELYHEQC   35 (35)
T ss_dssp             CBCSSSCCBCCSTTTCEEETTEEECTTT
T ss_pred             HHHHHHccCCCchHHhhcCCCccccccC
Confidence            38999999998888666 8999999987

>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=94.43  E-value=0.002  Score=35.43  Aligned_cols=33  Identities=24%  Similarity=0.507  Sum_probs=26.7

Q ss_pred             eccccCCCCCC-CCeeeCCCCcccCccchhhccC
Q psy16551        124 KCRDCNKTLDS-INACDGPDKDIYCKTCYGKKWG  156 (281)
Q Consensus       124 ~C~~C~~~L~~-~~~~~~~~g~~~C~~cy~~~~~  156 (281)
                      +|+-|+..|.+ +...+.+.|.++|+.+|.++|+
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            57788888874 5555569999999999999884

>d2cora1 g.39.1.3 (A:43-73) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=94.36  E-value=0.0066  Score=32.29  Aligned_cols=29  Identities=28%  Similarity=0.615  Sum_probs=24.4

Q ss_pred             cccccCCCCCCCccccCCCCcccChhhhccc
Q psy16551        227 SCNVCKRPLDSVLACDGPDKEIYCKACYGKN  257 (281)
Q Consensus       227 ~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~  257 (281)
                      .|+.|++.|.....  +..|.+||..|..++
T Consensus         1 nC~~CgkeltadAr--El~geLyCLpChdKm   29 (31)
T d2cora1           1 NCANCGKELTADAR--ELKGELYCLPCHDKM   29 (31)
T ss_dssp             BCSSSCCBCCTTCE--EETTEEECHHHHHTT
T ss_pred             CccccccccchhHH--HhcCCEEEEeccccc
Confidence            38899999987665  689999999999774

>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=94.16  E-value=0.013  Score=32.33  Aligned_cols=29  Identities=17%  Similarity=0.402  Sum_probs=24.1

Q ss_pred             CCCCCCCCCCcccccceeeecCcccccccc
Q psy16551        197 KGEGCPRCGGAVFAAEQQLAKGTMWHKQCF  226 (281)
Q Consensus       197 ~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf  226 (281)
                      +..+|.+|...| +.+-+.+++..||+.+|
T Consensus         7 Gk~vC~KCh~iI-dd~pL~Fr~d~YHp~HF   35 (35)
T d2cora2           7 GKYICQKCHAII-DEQPLIFKNDPYHPDHF   35 (35)
T ss_dssp             CCCBCTTTCCBC-CSCCCCCSSSCCCTTTS
T ss_pred             hhHHHHHHHhhh-hcCcceecCCCCCCCCC
Confidence            445899999988 55678899999999876

>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=94.15  E-value=0.015  Score=29.35  Aligned_cols=26  Identities=35%  Similarity=0.699  Sum_probs=21.3

Q ss_pred             CcCCCcccc-ccceeeccCcccccCce
Q psy16551         98 CPRCGGVVF-AAEQVLAKGSEWHRKCF  123 (281)
Q Consensus        98 C~~C~~~I~-~~~~~~~~~~~~H~~CF  123 (281)
                      |.+|++.+. ++.-+.++++.||..||
T Consensus         1 cggcgedvvgdgagvvaldrvfhvgcf   27 (27)
T d1x61a1           1 CGGCGEDVVGDGAGVVALDRVFHVGCF   27 (27)
T ss_dssp             CSSSCSCCCSSSCCEECSSSEECTTTC
T ss_pred             CCCcccccccCCcceEEEeeeEEeccC
Confidence            788998764 35568899999999997

>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=94.09  E-value=0.0085  Score=32.22  Aligned_cols=28  Identities=14%  Similarity=0.386  Sum_probs=23.2

Q ss_pred             eccccCCCCCCCCeeeCCCCcccCccch
Q psy16551        124 KCRDCNKTLDSINACDGPDKDIYCKTCY  151 (281)
Q Consensus       124 ~C~~C~~~L~~~~~~~~~~g~~~C~~cy  151 (281)
                      .|+.|+..|-.+..|...+|.+||+.+-
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            4889999998766666699999999875

>d1x62a1 g.39.1.3 (A:43-73) PDZ and LIM domain protein 1 Elfin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 1 Elfin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.89  E-value=0.0031  Score=33.85  Aligned_cols=29  Identities=24%  Similarity=0.544  Sum_probs=23.0

Q ss_pred             eccccCCCCCCCCeeeCCCCcccCccchhh
Q psy16551        124 KCRDCNKTLDSINACDGPDKDIYCKTCYGK  153 (281)
Q Consensus       124 ~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~  153 (281)
                      .|+.|+..|....+|+ .++++||+.|...
T Consensus         1 vC~dCg~NLKqrG~Ff-ve~~lyCE~HAr~   29 (31)
T d1x62a1           1 VCTDCGTNLKQKGHFF-VEDQIYCEKHARE   29 (31)
T ss_dssp             SCSSSCCCHHHHCCEE-SSSCEECHHHHHH
T ss_pred             CccccccChhhcceEE-eccEEehhhhhhh
Confidence            4899999998655554 8999999988754

>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=92.44  E-value=0.02  Score=30.52  Aligned_cols=30  Identities=20%  Similarity=0.330  Sum_probs=22.7

Q ss_pred             cccccCCCCCCCccccCCCCcccChhhhccc
Q psy16551        227 SCNVCKRPLDSVLACDGPDKEIYCKACYGKN  257 (281)
Q Consensus       227 ~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~  257 (281)
                      .|+.|+.-|....+| ..++++||+.|...+
T Consensus         1 vC~dCg~NLKqrG~F-fv~~~lyCE~HAr~R   30 (31)
T d1x64a2           1 VCADCNLNLKQKGYF-FVEGELYCETHARAR   30 (31)
T ss_dssp             CCSSSCCCTTTSCCE-EETTEEECHHHHHHH
T ss_pred             CccccccChhhcceE-EeccEEeehhhhhcc
Confidence            488999999655444 378999999987543

>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=92.19  E-value=0.028  Score=32.09  Aligned_cols=28  Identities=36%  Similarity=0.776  Sum_probs=21.7

Q ss_pred             CCcCCCcccccccee-eccCcccccCcee
Q psy16551         97 GCPRCGGVVFAAEQV-LAKGSEWHRKCFK  124 (281)
Q Consensus        97 ~C~~C~~~I~~~~~~-~~~~~~~H~~CF~  124 (281)
                      .|.+|++...+++-+ ...+..||+.|-.
T Consensus         1 ~C~rC~~mF~EGEEMYLQGs~IWHP~C~~   29 (41)
T d1wiga2           1 LCVRCGQMFAEGEEMYLQGSSIWHPACRQ   29 (41)
T ss_dssp             CCSSSCCCCCSSCCCEEETTEEECTTHHH
T ss_pred             CcchhhccccccceeeecCCceeCCcccc
Confidence            499999988776654 6677889998844

>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=91.64  E-value=0.027  Score=29.71  Aligned_cols=32  Identities=25%  Similarity=0.687  Sum_probs=25.8

Q ss_pred             eccccCCCCCCCCeeeCCCCcccCccchhhccC
Q psy16551        124 KCRDCNKTLDSINACDGPDKDIYCKTCYGKKWG  156 (281)
Q Consensus       124 ~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~~  156 (281)
                      .|+.|...+..+.|+ .+...+||-.|.+.+|+
T Consensus         1 tcs~ckq~igsgsff-pkg~d~ycvtche~kfa   32 (32)
T d1x63a2           1 TCSNCKQVIGTGSFF-PKGEDFYCVTCHETKFA   32 (32)
T ss_dssp             CCSSSCCCCTTSCEE-EETTEEEEHHHHHHHTS
T ss_pred             Ccchhhhhccccccc-CCCCcEEEEEeeccccC
Confidence            478898888877776 48899999999887763

>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=91.61  E-value=0.062  Score=29.46  Aligned_cols=29  Identities=31%  Similarity=0.732  Sum_probs=23.1

Q ss_pred             CCCCCcCCCcccccccee-eccCcccccCc
Q psy16551         94 PGKGCPRCGGVVFAAEQV-LAKGSEWHRKC  122 (281)
Q Consensus        94 ~~~~C~~C~~~I~~~~~~-~~~~~~~H~~C  122 (281)
                      ....|.+|+....+.|++ .-.|..||..|
T Consensus         6 ~~~~C~RC~~gF~p~EkiVNSnGEl~H~qC   35 (35)
T d1g47a1           6 ASATCERCKGGFAPAEKIVNSNGELYHEQC   35 (35)
T ss_dssp             CCCBCSSSCCBCCSTTTCEEETTEEECTTT
T ss_pred             HHHHHHHHccCCCchHHhhcCCCccccccC
Confidence            346799999888776664 67899999987

>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=91.15  E-value=0.044  Score=29.49  Aligned_cols=29  Identities=24%  Similarity=0.423  Sum_probs=22.7

Q ss_pred             eccccCCCCCC-CCeeeCCCCcccCccchh
Q psy16551        124 KCRDCNKTLDS-INACDGPDKDIYCKTCYG  152 (281)
Q Consensus       124 ~C~~C~~~L~~-~~~~~~~~g~~~C~~cy~  152 (281)
                      +|..|...|.. .+.....||.+||..|..
T Consensus         1 rC~~CeatL~pG~Y~qhp~dghfyc~~hlp   30 (33)
T d2co8a1           1 RCHTCEATLWPGGYEQHPGDGHFYCLQHLP   30 (33)
T ss_dssp             BCSSSCCBCCTTSEECCTTTCCCEETTTCC
T ss_pred             CceeeeeEEccCcccCCCCCceEeeeeccC
Confidence            58899999985 455556789999988864

>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=90.22  E-value=0.046  Score=29.25  Aligned_cols=28  Identities=14%  Similarity=0.361  Sum_probs=21.5

Q ss_pred             cccccCCCCCCCccccCCCCcccChhhh
Q psy16551        227 SCNVCKRPLDSVLACDGPDKEIYCKACY  254 (281)
Q Consensus       227 ~C~~C~~~L~~~~~~~~~~g~~~C~~c~  254 (281)
                      .|+.|...|-.+..|...+|.+||+.+-
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            4788988886656556689999998764

>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=90.16  E-value=0.056  Score=29.46  Aligned_cols=31  Identities=23%  Similarity=0.540  Sum_probs=23.7

Q ss_pred             ccccccCCCCCCC-ccccCCCCcccChhhhcc
Q psy16551        226 FSCNVCKRPLDSV-LACDGPDKEIYCKACYGK  256 (281)
Q Consensus       226 f~C~~C~~~L~~~-~~~~~~~g~~~C~~c~~~  256 (281)
                      |.|..|+.-++.+ .+......++||..||.+
T Consensus         1 F~C~~C~~fIgdgdsyaLVerskLYCG~Cy~~   32 (34)
T d1x6aa2           1 FACMSCKVIIEDGDAYALVQHATLYCGKCHNE   32 (34)
T ss_dssp             CBCTTTCCBCCTTSCEEECSSSCEEEHHHHHH
T ss_pred             CcccccccEEecCceEEEEeeceeeeecchhc
Confidence            6789999988654 344466788999999865

>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=89.96  E-value=0.066  Score=29.17  Aligned_cols=31  Identities=19%  Similarity=0.555  Sum_probs=24.8

Q ss_pred             eeccccCCCCCC-CCeeeCCCCcccCccchhh
Q psy16551        123 FKCRDCNKTLDS-INACDGPDKDIYCKTCYGK  153 (281)
Q Consensus       123 F~C~~C~~~L~~-~~~~~~~~g~~~C~~cy~~  153 (281)
                      |.|..|+.-+.+ ..+......++||..||.+
T Consensus         1 F~C~~C~~fIgdgdsyaLVerskLYCG~Cy~~   32 (34)
T d1x6aa2           1 FACMSCKVIIEDGDAYALVQHATLYCGKCHNE   32 (34)
T ss_dssp             CBCTTTCCBCCTTSCEEECSSSCEEEHHHHHH
T ss_pred             CcccccccEEecCceEEEEeeceeeeecchhc
Confidence            678999988874 5566667889999999975

>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=89.60  E-value=0.11  Score=28.49  Aligned_cols=29  Identities=17%  Similarity=0.507  Sum_probs=24.1

Q ss_pred             CCCCCcCCCccccccceeeccCcccccCce
Q psy16551         94 PGKGCPRCGGVVFAAEQVLAKGSEWHRKCF  123 (281)
Q Consensus        94 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF  123 (281)
                      +.-+|.+|...| +.+-+...+..||+.+|
T Consensus         7 Gk~vC~KCh~iI-dd~pL~Fr~d~YHp~HF   35 (35)
T d2cora2           7 GKYICQKCHAII-DEQPLIFKNDPYHPDHF   35 (35)
T ss_dssp             CCCBCTTTCCBC-CSCCCCCSSSCCCTTTS
T ss_pred             hhHHHHHHHhhh-hcCcceecCCCCCCCCC
Confidence            456899999988 45778899999999876

>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=89.00  E-value=0.066  Score=28.29  Aligned_cols=28  Identities=25%  Similarity=0.636  Sum_probs=23.5

Q ss_pred             eccccCCCCCCCCeeeCCCCcccCccchh
Q psy16551        124 KCRDCNKTLDSINACDGPDKDIYCKTCYG  152 (281)
Q Consensus       124 ~C~~C~~~L~~~~~~~~~~g~~~C~~cy~  152 (281)
                      +|..|-.+|....|.. +|++++|..|..
T Consensus         1 RCaKC~hpLA~E~F~a-Kd~kI~C~Kc~s   28 (31)
T d2cupa2           1 RCAKCLHPLANETFVA-KDNKILCNKCTT   28 (31)
T ss_dssp             CCSSSCCCTTSSCCEE-ETTEEECHHHHT
T ss_pred             CchhhccccccCcccc-cCCeEeeccccc
Confidence            5888999999877774 999999988864

>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=88.63  E-value=0.021  Score=30.47  Aligned_cols=30  Identities=20%  Similarity=0.372  Sum_probs=21.8

Q ss_pred             cccccCCCCCCCccccCCCCcccChhhhccc
Q psy16551        227 SCNVCKRPLDSVLACDGPDKEIYCKACYGKN  257 (281)
Q Consensus       227 ~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~~  257 (281)
                      .|+.|+.-|....+| ..++++||+.|...+
T Consensus         1 vC~dCg~NLKqrG~F-fve~~lyCE~HAr~r   30 (31)
T d1x62a1           1 VCTDCGTNLKQKGHF-FVEDQIYCEKHARER   30 (31)
T ss_dssp             SCSSSCCCHHHHCCE-ESSSCEECHHHHHHH
T ss_pred             CccccccChhhcceE-EeccEEehhhhhhhc
Confidence            488899888543333 378999999987543

>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=88.59  E-value=0.06  Score=28.45  Aligned_cols=29  Identities=28%  Similarity=0.685  Sum_probs=22.2

Q ss_pred             eccccCCCCCCCCeeeCCCCcccCccchhhc
Q psy16551        124 KCRDCNKTLDSINACDGPDKDIYCKTCYGKK  154 (281)
Q Consensus       124 ~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~  154 (281)
                      .|..|++.|.....  +..|.+||-.|..++
T Consensus         1 nC~~CgkeltadAr--El~geLyCLpChdKm   29 (31)
T d2cora1           1 NCANCGKELTADAR--ELKGELYCLPCHDKM   29 (31)
T ss_dssp             BCSSSCCBCCTTCE--EETTEEECHHHHHTT
T ss_pred             CccccccccchhHH--HhcCCEEEEeccccc
Confidence            37889998876543  478999999988763

>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=87.62  E-value=0.027  Score=30.75  Aligned_cols=33  Identities=24%  Similarity=0.497  Sum_probs=24.5

Q ss_pred             cccccCCCCCC-CccccCCCCcccChhhhccccC
Q psy16551        227 SCNVCKRPLDS-VLACDGPDKEIYCKACYGKNFG  259 (281)
Q Consensus       227 ~C~~C~~~L~~-~~~~~~~~g~~~C~~c~~~~f~  259 (281)
                      +|+-|+..|.. +...+.+.|.++|+.+|-++||
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            47778888742 2233358999999999999886

>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=87.60  E-value=0.11  Score=27.47  Aligned_cols=28  Identities=29%  Similarity=0.679  Sum_probs=22.6

Q ss_pred             cccccCCCCCCCccccCCCCcccChhhhc
Q psy16551        227 SCNVCKRPLDSVLACDGPDKEIYCKACYG  255 (281)
Q Consensus       227 ~C~~C~~~L~~~~~~~~~~g~~~C~~c~~  255 (281)
                      +|+.|-.+|....|. .+|++++|..|..
T Consensus         1 RCaKC~hpLA~E~F~-aKd~kI~C~Kc~s   28 (31)
T d2cupa2           1 RCAKCLHPLANETFV-AKDNKILCNKCTT   28 (31)
T ss_dssp             CCSSSCCCTTSSCCE-EETTEEECHHHHT
T ss_pred             CchhhccccccCccc-ccCCeEeeccccc
Confidence            578888899877776 4899999988864

>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=85.42  E-value=0.15  Score=27.17  Aligned_cols=29  Identities=17%  Similarity=0.584  Sum_probs=24.1

Q ss_pred             cccccCCCCCCCccccCCCCcccChhhhcc
Q psy16551        227 SCNVCKRPLDSVLACDGPDKEIYCKACYGK  256 (281)
Q Consensus       227 ~C~~C~~~L~~~~~~~~~~g~~~C~~c~~~  256 (281)
                      +|..|...|.+..|+. .-|+.+|+.|..+
T Consensus         1 rC~~C~~~LAD~GFvK-nagR~LCrpch~r   29 (32)
T d2d8xa1           1 RCDLCQEVLADIGFVK-NAGRHLCRPCHNR   29 (32)
T ss_dssp             BCSSSCCBCSSSCCEE-ETTEEECHHHHHH
T ss_pred             CchHHHhHHHHhhhhh-cccccccchhhhh
Confidence            5889999998877764 7899999999754

>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=83.99  E-value=0.22  Score=26.48  Aligned_cols=30  Identities=17%  Similarity=0.182  Sum_probs=22.3

Q ss_pred             eccccCCCCCC-CCeeeCCCCcccCccchhh
Q psy16551        124 KCRDCNKTLDS-INACDGPDKDIYCKTCYGK  153 (281)
Q Consensus       124 ~C~~C~~~L~~-~~~~~~~~g~~~C~~cy~~  153 (281)
                      +|.-|+..|.. +...+.+.+.++|+.+|.+
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            57777778874 4444458899999999975

>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=82.94  E-value=0.17  Score=28.34  Aligned_cols=31  Identities=23%  Similarity=0.581  Sum_probs=20.1

Q ss_pred             CCCCCCCcccccceeeecCcccccccccccccCCCC
Q psy16551        200 GCPRCGGAVFAAEQQLAKGTMWHKQCFSCNVCKRPL  235 (281)
Q Consensus       200 ~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~L  235 (281)
                      .|+.|.+++..++++++.|+.    | .|..|..++
T Consensus         2 vC~vCr~pFP~GDRVTFnGKe----C-~CQ~Cs~p~   32 (40)
T d1v6ga2           2 VCAVCRLPFPPGDRVTFNGKE----C-MCQKCSLPV   32 (40)
T ss_dssp             SCSSSCCCCCSSSCEEEETTE----E-EEHHHHSCC
T ss_pred             cccccCCCCCCCCeEEEcCce----e-ehhhcCCCc
Confidence            577777777777777777764    2 355555444

>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=82.33  E-value=0.62  Score=31.76  Aligned_cols=32  Identities=22%  Similarity=0.597  Sum_probs=19.3

Q ss_pred             eeccccCCCCCCCCeeeCCCCcccCccchhhcc
Q psy16551        123 FKCRDCNKTLDSINACDGPDKDIYCKTCYGKKW  155 (281)
Q Consensus       123 F~C~~C~~~L~~~~~~~~~~g~~~C~~cy~~~~  155 (281)
                      +.|..|...|...... ..=|..||..|..+.+
T Consensus        23 l~C~IC~~~~~~pv~~-~~CgH~fC~~Ci~~~~   54 (97)
T d1jm7b_          23 LRCSRCTNILREPVCL-GGCEHIFCSNCVSDCI   54 (97)
T ss_dssp             TSCSSSCSCCSSCBCC-CSSSCCBCTTTGGGGT
T ss_pred             CCCccCCchhhcCcee-CCCCCchhHHHHHHHH
Confidence            5677777766543221 1347778888866544

>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=81.29  E-value=0.38  Score=25.70  Aligned_cols=30  Identities=20%  Similarity=0.401  Sum_probs=22.1

Q ss_pred             cccccCCCCC-CCccccCCCCcccChhhhcc
Q psy16551        227 SCNVCKRPLD-SVLACDGPDKEIYCKACYGK  256 (281)
Q Consensus       227 ~C~~C~~~L~-~~~~~~~~~g~~~C~~c~~~  256 (281)
                      +|..|...|. +++.....||..||..|+.+
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            4677887874 45555688999999988753