Psyllid ID: psy12252

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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-------290-------300-------310-------320-------330-------340-------350------
Protein Sequence
MRVKQYKKKLDIIMPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCGFGLGAGALTMA
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccEEccEEEEEccccccccccccccccccccccccEEEccEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEccccccccccccccccccccccccccccccccccHHHHHcccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHccccccccccccccccccccccccEEEEEEEEEEcccccccccEEHHHccccccccccccccccEEEcccHHHHcccccccccccccccccccccccccccccccccccccEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEEEEEcccccccccEEEHHcccccccccccccccccEEEcccHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEHHHEEEcccccccccEEHHHcccccccccccccccccEEEcccHHHHcccccccccccccHHccc
Coil and Loop (DISEMBL)
MRVKQYKKKLDiimpfvpaenpkcpacgksvyAAEERvaggykfhkmcfkcsmcskfldstnctehekelycrqchgrkygpkgygfgggagclsmdagmcskfldstnctehekelycrqchgrkygpkgygfgggagclsmdagehltennaprttvidtakikaapgkgcprcggvVFAAEQVLAKGsewhrkcfkcrdcnktldsinacdgpdkdiycktcygkkhkyckacygknfgpkgfgyghsptlvstsgestmqfydarptsglkgrngdgcprcgFVVYAAEQMISknriwhrrcfscadchrsldstnlndgpdndiycrgcygknfgpkgcgfglgagaltma
Flexible Loop (DISEMBL)
mrvkqykkkldiimpfvpaenpkcpACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTldsinacdgpdkdIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVSTSGESTMQFYDARPTsglkgrngdgcPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSldstnlndgpdnDIYCRGCYGKNFGPKGCGFGLGAGALTMA
Low Complexity Region (SEG)
MRVKQYKKKLDIIMPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHgrkygpkgygfgggagCLSMDAGMCSKFLDSTNCTEHEKELYCRQCHgrkygpkgygfgggagCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCGFGLGAGALTMA
Disordered region (IsUnstruct)
********KLDIIMPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLV**********************NGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCGFGLGAGA****
Disordered Region (DISOPRED)
*********************PKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGM*********CTEHEKELYCRQCHG**********GGGAGCLSM*********************************GGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDS****DGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVSTS*********ARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCGFGLGAGAL***
Disordered Region (DISEMBL)
MRVKQYKKKLDIIMPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCGFGLGAGALTMA
Disordered Region (DISPRO)
********************NPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDA**C*KFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGA********************************KGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNF**************************************DGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCGFGLG*******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MRVKQYKKKLDIIMPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCGFGLGAGALTMA
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	356	2.2.26 [Sep-21-2011]
Q24400	495	Muscle LIM protein Mlp84B	no	N/A	0.755	0.543	0.523	4e-87
P50462	194	Cysteine and glycine-rich	yes	N/A	0.471	0.865	0.387	5e-33
P50463	194	Cysteine and glycine-rich	yes	N/A	0.471	0.865	0.391	6e-33
P50461	194	Cysteine and glycine-rich	yes	N/A	0.471	0.865	0.382	1e-32
P67967	192	Cysteine and glycine-rich	N/A	N/A	0.449	0.833	0.461	1e-32
P67966	192	Cysteine and glycine-rich	yes	N/A	0.449	0.833	0.461	1e-32
Q4U0T9	194	Cysteine and glycine-rich	yes	N/A	0.471	0.865	0.374	3e-32
Q16527	193	Cysteine and glycine-rich	no	N/A	0.488	0.901	0.437	5e-32
Q32LE9	193	Cysteine and glycine-rich	no	N/A	0.488	0.901	0.437	5e-32
P97314	193	Cysteine and glycine-rich	no	N/A	0.488	0.901	0.442	6e-32

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

 Score =  321 bits (823), Expect = 4e-87,   Method: Compositional matrix adjust.
 Identities = 176/336 (52%), Positives = 212/336 (63%), Gaps = 67/336 (19%)

Query: 24  CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPK 83
           CP CG  VYAAE++++ G ++HK CF C                     + CH       
Sbjct: 222 CPRCGGVVYAAEQKLSKGREWHKKCFNC---------------------KDCH------- 253

Query: 84  GYGFGGGAGCLSMDAGMCSKFLDSTNCTE-HEKELYCRQCHGRKYGPKGYGFGGGAGCLS 142
                              K LDS N ++  ++++YCR C+G+K+GP GYGF  G+G L 
Sbjct: 254 -------------------KTLDSINASDGPDRDVYCRTCYGKKWGPHGYGFACGSGFLQ 294

Query: 143 MDAGEHLTENNAPRTTVI---DTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFK 199
            D    LTE+           DT  IKA  G+GCPRCGG VFAAEQ L+KG  WH+KC+ 
Sbjct: 295 TDG---LTEDQISANRPFYNPDTTSIKARDGEGCPRCGGAVFAAEQQLSKGKVWHKKCYN 351

Query: 200 CRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVSTSG 259
           C DC++ LDS+ ACDGPD DI+C+           ACYGK FGPKGFGYGH+PTLVSTSG
Sbjct: 352 CADCHRPLDSVLACDGPDGDIHCR-----------ACYGKLFGPKGFGYGHAPTLVSTSG 400

Query: 260 ESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDST 319
           EST+QF D RP +G K     GCPRCGF V+AAEQMISK RIWH+RCF C+DC +SLDST
Sbjct: 401 ESTIQFPDGRPLAGPK--TSGGCPRCGFAVFAAEQMISKTRIWHKRCFYCSDCRKSLDST 458

Query: 320 NLNDGPDNDIYCRGCYGKNFGPKGCGFGLGAGALTM 355
           NLNDGPD DIYCR CYG+NFGPKG G+GLGAGALT 
Sbjct: 459 NLNDGPDGDIYCRACYGRNFGPKGVGYGLGAGALTT 494

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

>sp|P50462|CSRP3_MOUSE Cysteine and glycine-rich protein 3 OS=Mus musculus GN=Csrp3 PE=1 SV=1

 Score =  142 bits (357), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 91/235 (38%), Positives = 110/235 (46%), Gaps = 67/235 (28%)

Query: 23  KCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGP 82
           KC AC K+VY AEE    G  FHK CF C  C                            
Sbjct: 9   KCGACEKTVYHAEEIQCNGRSFHKTCFHCMACR--------------------------- 41

Query: 83  KGYGFGGGAGCLSMDAGMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLS 142
                               K LDST    HE E+YC+ C+GR+YGPKG GFG GAGCLS
Sbjct: 42  --------------------KALDSTTVAAHESEIYCKVCYGRRYGPKGIGFGQGAGCLS 81

Query: 143 MDAGEHL------TENNAPRTTVIDTAKIKAAPGKG--CPRCGGVVFAAEQVLAKGSEWH 194
            D GEHL      +   A   T  + +K  A  G+   CPRCG  V+AAE+V+  G  WH
Sbjct: 82  TDTGEHLGLQFQQSPKPARAATTSNPSKFSAKFGESEKCPRCGKSVYAAEKVMGGGKPWH 141

Query: 195 RKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYG 249
           + CF+C  C K+L+S N  D  D ++YCK            CY KNFGP G G+G
Sbjct: 142 KTCFRCAICGKSLESTNVTD-KDGELYCKV-----------CYAKNFGPTGIGFG 184

Positive regulator of myogenesis. Plays a crucial and specific role in the organization of cytosolic structures in cardiomyocytes. Could play a role in mechanical stretch sensing. May be a scaffold protein that promotes the assembly of interacting proteins at Z-line structures. It is essential for calcineurin anchorage to the Z line. Required for stress-induced calcineurin-NFAT activation.

Mus musculus (taxid: 10090)

>sp|P50463|CSRP3_RAT Cysteine and glycine-rich protein 3 OS=Rattus norvegicus GN=Csrp3 PE=1 SV=1

 Score =  142 bits (357), Expect = 6e-33,   Method: Compositional matrix adjust.
 Identities = 92/235 (39%), Positives = 109/235 (46%), Gaps = 67/235 (28%)

Query: 23  KCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGP 82
           KC AC K+VY AEE    G  FHK CF C  C                            
Sbjct: 9   KCGACDKTVYHAEEIQCNGRSFHKTCFHCMACR--------------------------- 41

Query: 83  KGYGFGGGAGCLSMDAGMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLS 142
                               K LDST    HE E+YC+ C+GRKYGPKG GFG GAGCLS
Sbjct: 42  --------------------KALDSTTVAAHESEIYCKVCYGRKYGPKGIGFGQGAGCLS 81

Query: 143 MDAGEHL------TENNAPRTTVIDTAKIKAAPGKG--CPRCGGVVFAAEQVLAKGSEWH 194
            D GEHL      +   A   T  + +K  A  G+   CPRCG  V+AAE+V+  G  WH
Sbjct: 82  TDTGEHLGLQFQQSPKPARAATTSNPSKFSAKFGESEKCPRCGKSVYAAEKVMGGGKPWH 141

Query: 195 RKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYG 249
           + CF C  C K+L+S N  D  D ++YCK            CY KNFGP G G+G
Sbjct: 142 KTCFPCAICGKSLESTNVTD-KDGELYCKV-----------CYAKNFGPTGIGFG 184

Positive regulator of myogenesis. Plays a crucial and specific role in the organization of cytosolic structures in cardiomyocytes. Could play a role in mechanical stretch sensing. May be a scaffold protein that promotes the assembly of interacting proteins at Z-line structures. It is essential for calcineurin anchorage to the Z line. Required for stress-induced calcineurin-NFAT activation.

Rattus norvegicus (taxid: 10116)

>sp|P50461|CSRP3_HUMAN Cysteine and glycine-rich protein 3 OS=Homo sapiens GN=CSRP3 PE=1 SV=1

 Score =  141 bits (355), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 90/235 (38%), Positives = 110/235 (46%), Gaps = 67/235 (28%)

Query: 23  KCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGP 82
           KC AC K+VY AEE    G  FHK CF C  C                            
Sbjct: 9   KCGACEKTVYHAEEIQCNGRSFHKTCFHCMACR--------------------------- 41

Query: 83  KGYGFGGGAGCLSMDAGMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLS 142
                               K LDST    HE E+YC+ C+GR+YGPKG G+G GAGCLS
Sbjct: 42  --------------------KALDSTTVAAHESEIYCKVCYGRRYGPKGIGYGQGAGCLS 81

Query: 143 MDAGEHL------TENNAPRTTVIDTAKIKAAPGKG--CPRCGGVVFAAEQVLAKGSEWH 194
            D GEHL      +   A   T  + +K  A  G+   CPRCG  V+AAE+V+  G  WH
Sbjct: 82  TDTGEHLGLQFQQSPKPARSVTTSNPSKFTAKFGESEKCPRCGKSVYAAEKVMGGGKPWH 141

Query: 195 RKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYG 249
           + CF+C  C K+L+S N  D  D ++           YCK CY KNFGP G G+G
Sbjct: 142 KTCFRCAICGKSLESTNVTD-KDGEL-----------YCKVCYAKNFGPTGIGFG 184

Positive regulator of myogenesis. Plays a crucial and specific role in the organization of cytosolic structures in cardiomyocytes. Could play a role in mechanical stretch sensing. May be a scaffold protein that promotes the assembly of interacting proteins at Z-line structures. It is essential for calcineurin anchorage to the Z line. Required for stress-induced calcineurin-NFAT activation.

Homo sapiens (taxid: 9606)

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

 Score =  140 bits (354), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 85/184 (46%), Positives = 106/184 (57%), Gaps = 24/184 (13%)

Query: 170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 229
           GK C  C   V+ AE+V  +GS +H+ CF C  C K LDS       D +IYCK+CYGKK
Sbjct: 7   GKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGD-EIYCKSCYGKK 65

Query: 230 HKYCKACYGKNFGPKGFGYGH-SPTLVSTSGESTMQFYDA----RPTSGLKGR------N 278
                      +GPKG+GYG  + TL +  GES    Y+     RPT+    R       
Sbjct: 66  -----------YGPKGYGYGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGG 114

Query: 279 GDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKN 338
            DGCPRCG  VYAAE++I   + WH+ CF CA C +SL+ST L D  D +IYC+GCY KN
Sbjct: 115 SDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLAD-KDGEIYCKGCYAKN 173

Query: 339 FGPK 342
           FGPK
Sbjct: 174 FGPK 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 =  140 bits (354), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 85/184 (46%), Positives = 106/184 (57%), Gaps = 24/184 (13%)

Query: 170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 229
           GK C  C   V+ AE+V  +GS +H+ CF C  C K LDS       D +IYCK+CYGKK
Sbjct: 7   GKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGD-EIYCKSCYGKK 65

Query: 230 HKYCKACYGKNFGPKGFGYGH-SPTLVSTSGESTMQFYDA----RPTSGLKGR------N 278
                      +GPKG+GYG  + TL +  GES    Y+     RPT+    R       
Sbjct: 66  -----------YGPKGYGYGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGG 114

Query: 279 GDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKN 338
            DGCPRCG  VYAAE++I   + WH+ CF CA C +SL+ST L D  D +IYC+GCY KN
Sbjct: 115 SDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLAD-KDGEIYCKGCYAKN 173

Query: 339 FGPK 342
           FGPK
Sbjct: 174 FGPK 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|Q4U0T9|CSRP3_BOVIN Cysteine and glycine-rich protein 3 OS=Bos taurus GN=CSRP3 PE=2 SV=1

 Score =  139 bits (351), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 88/235 (37%), Positives = 106/235 (45%), Gaps = 67/235 (28%)

Query: 23  KCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGP 82
           KC AC K+VY AEE    G  FHK CF C  C                            
Sbjct: 9   KCGACEKTVYHAEEIQCNGRSFHKTCFHCMACR--------------------------- 41

Query: 83  KGYGFGGGAGCLSMDAGMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLS 142
                               K LDST    HE E+YC+ C+GR+YGPKG G+G GAGCLS
Sbjct: 42  --------------------KALDSTTVAAHESEIYCKVCYGRRYGPKGIGYGQGAGCLS 81

Query: 143 MDAGEHLTENNAPRTTVIDTAKIKAAPGK--------GCPRCGGVVFAAEQVLAKGSEWH 194
            D GEHL            +A   + P K         CPRCG  V+AAE+V+  G  WH
Sbjct: 82  TDTGEHLGLQFQQSPKQARSATTSSNPSKFAKFGESEKCPRCGKSVYAAEKVMGGGKPWH 141

Query: 195 RKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYG 249
           + CF+C  C K+L+S N  D  D ++YCK            CY KNFGP G G+G
Sbjct: 142 KTCFRCAICGKSLESTNVTD-KDGELYCKV-----------CYAKNFGPTGIGFG 184

Positive regulator of myogenesis. Plays a crucial and specific role in the organization of cytosolic structures in cardiomyocytes. Could play a role in mechanical stretch sensing. May be a scaffold protein that promotes the assembly of interacting proteins at Z-line structures. It is essential for calcineurin anchorage to the Z line. Required for stress-induced calcineurin-NFAT activation.

Bos taurus (taxid: 9913)

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

 Score =  138 bits (348), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 87/199 (43%), Positives = 109/199 (54%), Gaps = 25/199 (12%)

Query: 170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 229
           G  C  CG  V+ AE+V   G  +HR CF C  C K LDS       D++IYCK+CYGKK
Sbjct: 7   GNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAI-HDEEIYCKSCYGKK 65

Query: 230 HKYCKACYGKNFGPKGFGYGH-SPTLVSTSGEST----MQFYDARPTS-------GLKGR 277
                      +GPKG+GYG  + TL    GE            RPT+         K  
Sbjct: 66  -----------YGPKGYGYGQGAGTLNMDRGERLGIKPESVQPHRPTTNPNTSKFAQKYG 114

Query: 278 NGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGK 337
             + C RCG  VYAAE++I   + WH+ CF CA C +SL+ST L +  + +IYC+GCY K
Sbjct: 115 GAEKCSRCGDSVYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLTE-KEGEIYCKGCYAK 173

Query: 338 NFGPKGCGFGLGAGALTMA 356
           NFGPKG G+G GAGAL  A
Sbjct: 174 NFGPKGFGYGQGAGALVHA 192

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 =  138 bits (348), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 87/199 (43%), Positives = 109/199 (54%), Gaps = 25/199 (12%)

Query: 170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 229
           G  C  CG  V+ AE+V   G  +HR CF C  C K LDS       D++IYCK+CYGKK
Sbjct: 7   GNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAI-HDEEIYCKSCYGKK 65

Query: 230 HKYCKACYGKNFGPKGFGYGH-SPTLVSTSGEST----MQFYDARPTS-------GLKGR 277
                      +GPKG+GYG  + TL    GE            RPT+         K  
Sbjct: 66  -----------YGPKGYGYGQGAGTLNMDRGERLGIKPESVQPHRPTTNPNTSKFAQKYG 114

Query: 278 NGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGK 337
             + C RCG  VYAAE++I   + WH+ CF CA C +SL+ST L +  + +IYC+GCY K
Sbjct: 115 GAEKCSRCGDSVYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLTE-KEGEIYCKGCYAK 173

Query: 338 NFGPKGCGFGLGAGALTMA 356
           NFGPKG G+G GAGAL  A
Sbjct: 174 NFGPKGFGYGQGAGALVHA 192

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 =  138 bits (348), Expect = 6e-32,   Method: Compositional matrix adjust.
 Identities = 88/199 (44%), Positives = 113/199 (56%), Gaps = 25/199 (12%)

Query: 170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 229
           G  C  CG  V+ AE+V   G  +HR CF C  C K LDS       D++IYCK+CYGKK
Sbjct: 7   GNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAI-HDEEIYCKSCYGKK 65

Query: 230 HKYCKACYGKNFGPKGFGYGH-SPTLVSTSGEST-MQFYDARP--------TSGLKGRNG 279
                      +GPKG+GYG  + TL    GE   ++   A+P        TS    + G
Sbjct: 66  -----------YGPKGYGYGQGAGTLNMDRGERLGIKPESAQPHRPTTNPNTSKFAQKYG 114

Query: 280 --DGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGK 337
             + C RCG  VYAAE++I   + WH+ CF CA C +SL+ST L +  + +IYC+GCY K
Sbjct: 115 GAEKCSRCGDSVYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLTE-KEGEIYCKGCYAK 173

Query: 338 NFGPKGCGFGLGAGALTMA 356
           NFGPKG G+G GAGAL  A
Sbjct: 174 NFGPKGFGYGQGAGALVHA 192

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)

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	356
92109966	505	IP07084p [Drosophila melanogaster]	0.921	0.649	0.511	7e-95
242019568	492	muscle lim protein, putative [Pediculus	0.929	0.672	0.493	1e-94
221468537	486	muscle LIM protein at 60A, isoform B [Dr	0.907	0.664	0.515	4e-94
157114447	488	muscle lim protein [Aedes aegypti] gi|10	0.938	0.684	0.465	4e-87
195036714	492	GH18591 [Drosophila grimshawi] gi|193894	0.755	0.546	0.520	8e-86
289742311	491	muscle LIM protein at 84B [Glossina mors	0.766	0.556	0.523	2e-85
17137134	495	muscle LIM protein at 84B, isoform A [Dr	0.755	0.543	0.523	3e-85
195392002	491	GJ22693 [Drosophila virilis] gi|19415273	0.755	0.547	0.523	3e-85
193718315	496	PREDICTED: muscle LIM protein Mlp84B-lik	0.764	0.548	0.519	3e-85
328788697	493	PREDICTED: muscle LIM protein Mlp84B-lik	0.764	0.551	0.513	4e-85

>gi|92109966|gb|ABE73307.1| IP07084p [Drosophila melanogaster]

 Score =  353 bits (906), Expect = 7e-95,   Method: Compositional matrix adjust.
 Identities = 203/397 (51%), Positives = 249/397 (62%), Gaps = 69/397 (17%)

Query: 9   KLDIIMPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEK 68
           +  I MPFVP E PKCPACGKSVYAAEERVAGGYKFHK CFKCSMC+K LDSTNCTEHEK
Sbjct: 15  RTQIKMPFVPVETPKCPACGKSVYAAEERVAGGYKFHKTCFKCSMCNKALDSTNCTEHEK 74

Query: 69  ELYCRQCHGRKYGPKGYGFGGGAGCLSMDAG----------------------------- 99
           EL+C+ CHGRKYGPKGYGFGGGAGCLS D G                             
Sbjct: 75  ELFCKNCHGRKYGPKGYGFGGGAGCLSTDTGAHLNREFVPPKIPPKAPDGLGCPRCGIYV 134

Query: 100 ---------------------MCSKFLDST-NCTEHEKELYCRQCHGRKYGPKGYGFGG- 136
                                 C+K LDST +C   +K++YCR C+ +K+G +GYG  G 
Sbjct: 135 YAAEQMLARGKGYHRRCFKCVQCNKTLDSTLHCDGPDKDIYCRGCYAQKFGARGYGHIGI 194

Query: 137 -GAGCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHR 195
              G +S         + AP+ ++I+  +I+A  G+GCPRCGGVVFAAEQVL+KG  WHR
Sbjct: 195 SSLGLMSDIRDSEWQSDMAPKASIINVEQIQAPIGEGCPRCGGVVFAAEQVLSKGRSWHR 254

Query: 196 KCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLV 255
           KCFKCRDC KTLDSI ACDGPD ++YCKTCYGKK           +GP G+G+    + +
Sbjct: 255 KCFKCRDCTKTLDSIIACDGPDNEVYCKTCYGKK-----------WGPHGYGFACGSSFL 303

Query: 256 STSGESTMQFYDARP-----TSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCA 310
            T G +       RP     T+ +   +G+GCPRCG  V+AAE  +SK +++HR+CF+CA
Sbjct: 304 QTDGITEENLASERPFVAPDTTSIMAPDGEGCPRCGGAVFAAELQLSKGKMYHRKCFNCA 363

Query: 311 DCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCGFG 347
            C R LDS    DGPD++IYC+ CY K FGPKG G+G
Sbjct: 364 RCTRPLDSVLACDGPDDNIYCKLCYAKLFGPKGVGYG 400

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

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 =  352 bits (904), Expect = 1e-94,   Method: Compositional matrix adjust.
 Identities = 200/405 (49%), Positives = 250/405 (61%), Gaps = 74/405 (18%)

Query: 12  IIMPFVPAENPK---CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTE-HE 67
           ++ P   A  P+   CP CG  VY AE+++A G  +H  CFKC  CSK LDSTNC E  +
Sbjct: 102 MMEPRAIARAPEGEGCPRCGGYVYMAEQKLARGRSWHAECFKCGSCSKRLDSTNCCEGPD 161

Query: 68  KELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGM--------------------------- 100
           K++YC+ C+G+++GPKGYG+G G G L  D  M                           
Sbjct: 162 KDIYCKACYGKRFGPKGYGYGQGGGALQSDDYMNGYAPRTTVIDTAVIKAPPGKGCPRCG 221

Query: 101 -------------------------CSKFLDST-NCTEHEKELYCRQCHGRKYGPKGYGF 134
                                    CSK LDS   C   ++++YC+ C+G+K+GP GYGF
Sbjct: 222 GVVYAAEQVLAKGREWHNKCFKCRDCSKTLDSIIACDGPDRDVYCKTCYGKKFGPHGYGF 281

Query: 135 GGGAGCLSMDAGEHLTENNAPRTTVI---DTAKIKAAPGKGCPRCGGVVFAAEQVLAKGS 191
             G+G L  D    LTE            DT  I A  G+GCPRCGG VFAAEQ LAKG+
Sbjct: 282 ACGSGFLQTDG---LTEEEIQAMKPYYNPDTTSIPAPKGQGCPRCGGAVFAAEQQLAKGT 338

Query: 192 EWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHS 251
            WH+KCF C DC++ LDS+ ACDGPD+++YCK CY KK           +GPKGFGYGH+
Sbjct: 339 MWHKKCFNCADCHRPLDSVLACDGPDREVYCKACYAKK-----------YGPKGFGYGHT 387

Query: 252 PTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCAD 311
           PTLVST GEST+ + +++P +G +G   + CPRCGFVVYAAEQMISKNR+WHR CF CAD
Sbjct: 388 PTLVSTEGESTICYPESKPKTGFRGNQPNCCPRCGFVVYAAEQMISKNRVWHRMCFVCAD 447

Query: 312 CHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCGFGLGAGALTMA 356
           C +SLDSTNLNDGPD +IYCR CYG+NFGPKG GFG+GAG L+MA
Sbjct: 448 CRKSLDSTNLNDGPDGEIYCRSCYGRNFGPKGVGFGMGAGTLSMA 492

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|221468537|ref|NP_001137750.1| muscle LIM protein at 60A, isoform B [Drosophila melanogaster] gi|220902371|gb|ACL83203.1| muscle LIM protein at 60A, isoform B [Drosophila melanogaster]

 Score =  351 bits (900), Expect = 4e-94,   Method: Compositional matrix adjust.
 Identities = 202/392 (51%), Positives = 247/392 (63%), Gaps = 69/392 (17%)

Query: 14  MPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCR 73
           MPFVP E PKCPACGKSVYAAEERVAGGYKFHK CFKCSMC+K LDSTNCTEHEKEL+C+
Sbjct: 1   MPFVPVETPKCPACGKSVYAAEERVAGGYKFHKTCFKCSMCNKALDSTNCTEHEKELFCK 60

Query: 74  QCHGRKYGPKGYGFGGGAGCLSMDAG---------------------------------- 99
            CHGRKYGPKGYGFGGGAGCLS D G                                  
Sbjct: 61  NCHGRKYGPKGYGFGGGAGCLSTDTGAHLNREFVPPKIPPKAPDGLGCPRCGIYVYAAEQ 120

Query: 100 ----------------MCSKFLDST-NCTEHEKELYCRQCHGRKYGPKGYGFGG--GAGC 140
                            C+K LDST +C   +K++YCR C+ +K+G +GYG  G    G 
Sbjct: 121 MLARGKGYHRRCFKCVQCNKTLDSTLHCDGPDKDIYCRGCYAQKFGARGYGHIGISSLGL 180

Query: 141 LSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKC 200
           +S         + AP+ ++I+  +I+A  G+GCPRCGGVVFAAEQVL+KG  WHRKCFKC
Sbjct: 181 MSDIRDSEWQSDMAPKASIINVEQIQAPIGEGCPRCGGVVFAAEQVLSKGRSWHRKCFKC 240

Query: 201 RDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVSTSGE 260
           RDC KTLDSI ACDGPD ++YCKTCYGKK           +GP G+G+    + + T G 
Sbjct: 241 RDCTKTLDSIIACDGPDNEVYCKTCYGKK-----------WGPHGYGFACGSSFLQTDGI 289

Query: 261 STMQFYDARP-----TSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRS 315
           +       RP     T+ +   +G+GCPRCG  V+AAE  +SK +++HR+CF+CA C R 
Sbjct: 290 TEENLASERPFVAPDTTSIMAPDGEGCPRCGGAVFAAELQLSKGKMYHRKCFNCARCTRP 349

Query: 316 LDSTNLNDGPDNDIYCRGCYGKNFGPKGCGFG 347
           LDS    DGPD++IYC+ CY K FGPKG G+G
Sbjct: 350 LDSVLACDGPDDNIYCKLCYAKLFGPKGVGYG 381

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157114447|ref|XP_001652275.1| muscle lim protein [Aedes aegypti] gi|108877265|gb|EAT41490.1| AAEL006866-PA [Aedes aegypti]

 Score =  327 bits (839), Expect = 4e-87,   Method: Compositional matrix adjust.
 Identities = 187/402 (46%), Positives = 239/402 (59%), Gaps = 68/402 (16%)

Query: 12  IIMPFVPAENPK---CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTE-HE 67
           I  P   A+ P+   CP CG  VY AE+ +A G  +HK CFKC  C K LDS NC E  +
Sbjct: 98  IAEPKPVAKAPEGEGCPRCGGYVYMAEQMLARGRAYHKGCFKCGDCKKNLDSVNCCEGPD 157

Query: 68  KELYCRQCHGRK-----------------------YGPKGYGF-------GGGAGC---- 93
           +E+YCR C+G+K                       Y PK             G GC    
Sbjct: 158 REIYCRVCYGKKFGPKGYGYGQGGGALQTDSSDLDYTPKPSSVDTTVIKASPGQGCPRCG 217

Query: 94  -LSMDAGM-----------------CSKFLDST-NCTEHEKELYCRQCHGRKYGPKGYGF 134
            +   A M                 C+K LDS   C   + ++YC+ C+G+K+GP GYGF
Sbjct: 218 GVVFAAEMVLSKGREWHRKCYKCRDCTKTLDSIIACDGPDHDVYCKTCYGKKWGPHGYGF 277

Query: 135 GGGAGCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWH 194
             G+G L  D        +   +  IDT  IKA  G+GCPRCGG+VFAAEQ LAKG+ WH
Sbjct: 278 ACGSGFLQTDCMTEEQMASQKPSVPIDTTSIKAPAGQGCPRCGGMVFAAEQQLAKGTMWH 337

Query: 195 RKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTL 254
           +KCF C +C++ LDS+ ACDGPDK+I+C+           ACYGK FGPKGFG+GH+PTL
Sbjct: 338 KKCFNCNECHRPLDSMLACDGPDKEIHCR-----------ACYGKLFGPKGFGFGHTPTL 386

Query: 255 VSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHR 314
           VST  + T    +  P +G K ++G GC RCG  VY AE+M+SKN +WH+RCFSC DCH+
Sbjct: 387 VSTEVQGTPFHTEFNPMNGPKAKDGKGCRRCGCTVYEAEKMLSKNLVWHKRCFSCFDCHK 446

Query: 315 SLDSTNLNDGPDNDIYCRGCYGKNFGPKGCGFGLGAGALTMA 356
           SLDSTNLNDGP+ +IYC+GCYG+NFGP+G G+G+GAGALTM 
Sbjct: 447 SLDSTNLNDGPNGEIYCKGCYGRNFGPRGVGYGIGAGALTMV 488

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195036714|ref|XP_001989813.1| GH18591 [Drosophila grimshawi] gi|193894009|gb|EDV92875.1| GH18591 [Drosophila grimshawi]

 Score =  323 bits (828), Expect = 8e-86,   Method: Compositional matrix adjust.
 Identities = 175/336 (52%), Positives = 215/336 (63%), Gaps = 67/336 (19%)

Query: 24  CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPK 83
           CP CG +V+AAE++++ G ++HK C+ C                     + CH       
Sbjct: 219 CPRCGGAVFAAEQKLSKGREWHKKCYNC---------------------KDCH------- 250

Query: 84  GYGFGGGAGCLSMDAGMCSKFLDSTNCTE-HEKELYCRQCHGRKYGPKGYGFGGGAGCLS 142
                              K LDS N ++  + ++YCR C+G+K+GP GYGF  G+G L 
Sbjct: 251 -------------------KTLDSINASDGPDGDVYCRTCYGKKWGPHGYGFACGSGFLQ 291

Query: 143 MDAGEHLTENNAPRTTVI---DTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFK 199
            D    LTE+    +      DT  IKA  G+GCPRCGG VFAAEQ L+KG  WHRKC+ 
Sbjct: 292 TDG---LTEDQISSSRPFINPDTTSIKAPEGEGCPRCGGAVFAAEQQLSKGKMWHRKCYN 348

Query: 200 CRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVSTSG 259
           C DC++ LDS+ ACDGPD DIYCK           ACYGK+FGPKGFGYGH+PTLVST+G
Sbjct: 349 CTDCHRPLDSVLACDGPDGDIYCK-----------ACYGKHFGPKGFGYGHAPTLVSTTG 397

Query: 260 ESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDST 319
           EST+QF D RP +G   R+  GCPRCGF V+AAEQMISK+RIWH+RCF C+DC +SLDST
Sbjct: 398 ESTIQFPDGRPLTGQ--RSSGGCPRCGFAVFAAEQMISKSRIWHKRCFYCSDCRKSLDST 455

Query: 320 NLNDGPDNDIYCRGCYGKNFGPKGCGFGLGAGALTM 355
           NLNDGPD DIYCR CY +NFGPKG G+GLGAGALT 
Sbjct: 456 NLNDGPDGDIYCRSCYSRNFGPKGVGYGLGAGALTT 491

Source: Drosophila grimshawi

Species: Drosophila grimshawi

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|289742311|gb|ADD19903.1| muscle LIM protein at 84B [Glossina morsitans morsitans]

 Score =  322 bits (825), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 175/334 (52%), Positives = 209/334 (62%), Gaps = 61/334 (18%)

Query: 24  CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPK 83
           CP CG  V+AAE  ++ G ++H+ CFKC  C                             
Sbjct: 218 CPRCGGVVFAAELVLSKGREWHRKCFKCRDC----------------------------- 248

Query: 84  GYGFGGGAGCLSMDAGMCSKFLDST-NCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLS 142
                             +K LDS   C   +KE+YCR C+G+K+GP GYGF  G+G L 
Sbjct: 249 ------------------TKTLDSIIACDGPDKEVYCRTCYGKKWGPHGYGFACGSGFLQ 290

Query: 143 MDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRD 202
            D         +      DT  IKA  G+GCPRCGG VFAAEQ L+KG  WH+KC+ C  
Sbjct: 291 TDGMTEEQIAASRPFAPPDTTSIKAPEGEGCPRCGGAVFAAEQQLSKGKMWHKKCYNCCQ 350

Query: 203 CNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVSTSGEST 262
           C++ LDS+ ACDGPDK+IYCK           ACYGKNFGPKGFGYGH+PTLVSTSG++T
Sbjct: 351 CHRPLDSMLACDGPDKEIYCK-----------ACYGKNFGPKGFGYGHTPTLVSTSGQNT 399

Query: 263 MQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLN 322
           MQ+ + +P SG K  +  GCPRCGF VYAAEQMISK+RIWH+RCF CADC +SLDSTNLN
Sbjct: 400 MQYPEGKPFSGPK--SSSGCPRCGFAVYAAEQMISKSRIWHKRCFHCADCRKSLDSTNLN 457

Query: 323 DGPDNDIYCRGCYGKNFGPKGCGFGLGAGALTMA 356
           DGPD DIYCR CYG+NFGPKG G+GLGAG LTMA
Sbjct: 458 DGPDGDIYCRACYGRNFGPKGVGYGLGAGTLTMA 491

Source: Glossina morsitans morsitans

Species: Glossina morsitans

Genus: Glossina

Family: Glossinidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|17137134|ref|NP_477122.1| muscle LIM protein at 84B, isoform A [Drosophila melanogaster] gi|24644746|ref|NP_731134.1| muscle LIM protein at 84B, isoform B [Drosophila melanogaster] gi|195498856|ref|XP_002096704.1| GE25818 [Drosophila yakuba] gi|2497676|sp|Q24400.1|MLP2_DROME RecName: Full=Muscle LIM protein Mlp84B gi|987834|emb|CAA62627.1| muscle LIM protein [Drosophila melanogaster] gi|3659881|gb|AAC61591.1| muscle LIM protein at 84B [Drosophila melanogaster] gi|7298855|gb|AAF54063.1| muscle LIM protein at 84B, isoform A [Drosophila melanogaster] gi|7298856|gb|AAF54064.1| muscle LIM protein at 84B, isoform B [Drosophila melanogaster] gi|27819817|gb|AAO24957.1| RE40142p [Drosophila melanogaster] gi|194182805|gb|EDW96416.1| GE25818 [Drosophila yakuba] gi|220942504|gb|ACL83795.1| Mlp84B-PA [synthetic construct] gi|220952718|gb|ACL88902.1| Mlp84B-PA [synthetic construct]

 Score =  321 bits (823), Expect = 3e-85,   Method: Compositional matrix adjust.
 Identities = 176/336 (52%), Positives = 212/336 (63%), Gaps = 67/336 (19%)

Query: 24  CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPK 83
           CP CG  VYAAE++++ G ++HK CF C                     + CH       
Sbjct: 222 CPRCGGVVYAAEQKLSKGREWHKKCFNC---------------------KDCH------- 253

Query: 84  GYGFGGGAGCLSMDAGMCSKFLDSTNCTE-HEKELYCRQCHGRKYGPKGYGFGGGAGCLS 142
                              K LDS N ++  ++++YCR C+G+K+GP GYGF  G+G L 
Sbjct: 254 -------------------KTLDSINASDGPDRDVYCRTCYGKKWGPHGYGFACGSGFLQ 294

Query: 143 MDAGEHLTENNAPRTTVI---DTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFK 199
            D    LTE+           DT  IKA  G+GCPRCGG VFAAEQ L+KG  WH+KC+ 
Sbjct: 295 TDG---LTEDQISANRPFYNPDTTSIKARDGEGCPRCGGAVFAAEQQLSKGKVWHKKCYN 351

Query: 200 CRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVSTSG 259
           C DC++ LDS+ ACDGPD DI+C+           ACYGK FGPKGFGYGH+PTLVSTSG
Sbjct: 352 CADCHRPLDSVLACDGPDGDIHCR-----------ACYGKLFGPKGFGYGHAPTLVSTSG 400

Query: 260 ESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDST 319
           EST+QF D RP +G K     GCPRCGF V+AAEQMISK RIWH+RCF C+DC +SLDST
Sbjct: 401 ESTIQFPDGRPLAGPK--TSGGCPRCGFAVFAAEQMISKTRIWHKRCFYCSDCRKSLDST 458

Query: 320 NLNDGPDNDIYCRGCYGKNFGPKGCGFGLGAGALTM 355
           NLNDGPD DIYCR CYG+NFGPKG G+GLGAGALT 
Sbjct: 459 NLNDGPDGDIYCRACYGRNFGPKGVGYGLGAGALTT 494

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195392002|ref|XP_002054648.1| GJ22693 [Drosophila virilis] gi|194152734|gb|EDW68168.1| GJ22693 [Drosophila virilis]

 Score =  321 bits (823), Expect = 3e-85,   Method: Compositional matrix adjust.
 Identities = 176/336 (52%), Positives = 211/336 (62%), Gaps = 67/336 (19%)

Query: 24  CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPK 83
           CP CG +V+AAE++++ G ++HK CF C  C                             
Sbjct: 218 CPRCGGAVFAAEQKLSKGREWHKKCFNCKDCK---------------------------- 249

Query: 84  GYGFGGGAGCLSMDAGMCSKFLDSTNCTE-HEKELYCRQCHGRKYGPKGYGFGGGAGCLS 142
                              K LDS N T+  + ++YCR C+G+K+GP GYGF  G+G L 
Sbjct: 250 -------------------KTLDSINATDGPDGDVYCRTCYGKKWGPHGYGFACGSGFLQ 290

Query: 143 MDAGEHLTENNAPRTTVI---DTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFK 199
            D    LTE+    +      DT  IKA  G+GCPRCGG VFAAEQ L+KG  WHRKC+ 
Sbjct: 291 TDG---LTEDQISSSRPFINPDTTSIKAPEGEGCPRCGGAVFAAEQQLSKGKMWHRKCYN 347

Query: 200 CRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVSTSG 259
           C DC++ LDS+ ACDGPD DIYCK           ACYGK+FGPKGFGYGH+PTLVSTSG
Sbjct: 348 CTDCHRPLDSMLACDGPDGDIYCK-----------ACYGKHFGPKGFGYGHAPTLVSTSG 396

Query: 260 ESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDST 319
           EST+QF D  P +G K     GCPRCGF V+AAEQMISK+RIWH+RCF C+DC +SLDST
Sbjct: 397 ESTIQFPDGGPLNGQK--TSGGCPRCGFAVFAAEQMISKSRIWHKRCFYCSDCRKSLDST 454

Query: 320 NLNDGPDNDIYCRGCYGKNFGPKGCGFGLGAGALTM 355
           NLNDGPD DIYCR CY +NFGPKG G+GLGAGALT 
Sbjct: 455 NLNDGPDGDIYCRSCYSRNFGPKGVGYGLGAGALTT 490

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|193718315|ref|XP_001950563.1| PREDICTED: muscle LIM protein Mlp84B-like isoform 1 [Acyrthosiphon pisum] gi|328708622|ref|XP_003243749.1| PREDICTED: muscle LIM protein Mlp84B-like isoform 2 [Acyrthosiphon pisum]

 Score =  321 bits (823), Expect = 3e-85,   Method: Compositional matrix adjust.
 Identities = 175/337 (51%), Positives = 213/337 (63%), Gaps = 65/337 (19%)

Query: 24  CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPK 83
           CP CG  V+AAE+ +A G ++H+ CFKC  C+                            
Sbjct: 221 CPRCGGVVFAAEQVLAKGSEWHRKCFKCKDCN---------------------------- 252

Query: 84  GYGFGGGAGCLSMDAGMCSKFLDST-NCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLS 142
                              K LDS   C   +K++YC+ C+G+K+GP GYGF  G+G L 
Sbjct: 253 -------------------KTLDSIIACDGPDKDVYCKTCYGKKWGPHGYGFACGSGFLQ 293

Query: 143 MDAGEHLTENNAPRTTVI---DTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFK 199
            D    LT+     +      DT  IKA  G+GCPRCGG VFAAEQ LAKG+ WH+ CF 
Sbjct: 294 TDG---LTDEQIAGSRPFYNPDTTSIKAEKGEGCPRCGGKVFAAEQQLAKGAMWHKICFN 350

Query: 200 CRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVSTSG 259
           C  C++ LDS  ACDGPDK++YC++CYGK            FGPKGFGYGHSPTLVST G
Sbjct: 351 CATCHRPLDSTLACDGPDKEVYCRSCYGK-----------YFGPKGFGYGHSPTLVSTKG 399

Query: 260 ESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDST 319
           ESTM F +ARPTSG K RNG+GC RCG+ VYAAEQMISKN+ WH+RCF+CADC +SLDST
Sbjct: 400 ESTMLFSEARPTSGNKSRNGNGCLRCGYEVYAAEQMISKNKSWHKRCFTCADCSKSLDST 459

Query: 320 NLNDGPDNDIYCRGCYGKNFGPKGCGFGLGAGALTMA 356
           +LNDGPD DI+CR CY K+FGPKGCGFG+GAG L+MA
Sbjct: 460 SLNDGPDGDIHCRPCYAKHFGPKGCGFGMGAGVLSMA 496

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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

 Score =  321 bits (822), Expect = 4e-85,   Method: Compositional matrix adjust.
 Identities = 173/337 (51%), Positives = 214/337 (63%), Gaps = 65/337 (19%)

Query: 24  CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPK 83
           CP CG  V+AAE+ +A G ++H+ C+KC              H+                
Sbjct: 218 CPRCGGVVFAAEQVLAKGREWHRKCYKC--------------HD---------------- 247

Query: 84  GYGFGGGAGCLSMDAGMCSKFLDST-NCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLS 142
                            CSK LDS   C   +K++YC+ C+G+K+GP GYGF  G+G L 
Sbjct: 248 -----------------CSKTLDSIIACDGPDKDVYCKTCYGKKWGPHGYGFACGSGFLQ 290

Query: 143 MDAGEHLTENNAPRTTVI---DTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFK 199
            D    LTE     +      DT  IKA  G+GCPRCGG+VFAAEQ LAKG+ WH+KCF 
Sbjct: 291 TDG---LTEEEISASRPFYNPDTTAIKAPAGQGCPRCGGMVFAAEQQLAKGTMWHKKCFN 347

Query: 200 CRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVSTSG 259
           C +C++ LDS+ ACDGPDK+I+C++CYGK            FGPKGFG+GH+PTLVST G
Sbjct: 348 CAECHRPLDSMLACDGPDKEIHCRSCYGKL-----------FGPKGFGFGHTPTLVSTDG 396

Query: 260 ESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDST 319
           +    + DA+P  G K  +G GC RCG+ VYAAEQMISKNR+WH+RCFSCA+CHRSLDST
Sbjct: 397 DHAPSYIDAKPQVGQKRSDGHGCARCGYPVYAAEQMISKNRVWHKRCFSCAECHRSLDST 456

Query: 320 NLNDGPDNDIYCRGCYGKNFGPKGCGFGLGAGALTMA 356
           NLNDGPD DIYCRGCY +NFGPKG GFG+GAG LTMA
Sbjct: 457 NLNDGPDGDIYCRGCYNRNFGPKGVGFGMGAGTLTMA 493

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	356
FB|FBgn0014863	495	Mlp84B "Muscle LIM protein at	0.674	0.484	0.585	1.2e-108
UNIPROTKB|F1NMV9	194	CSRP1 "Cysteine and glycine-ri	0.480	0.881	0.482	1.4e-41
UNIPROTKB|P67966	192	CSRP1 "Cysteine and glycine-ri	0.480	0.890	0.482	1.4e-41
UNIPROTKB|Q3MHY1	193	CSRP1 "Cysteine and glycine-ri	0.477	0.880	0.461	1.3e-38
MGI|MGI:88549	193	Csrp1 "cysteine and glycine-ri	0.477	0.880	0.456	1.6e-38
UNIPROTKB|P21291	193	CSRP1 "Cysteine and glycine-ri	0.477	0.880	0.456	1.6e-38
RGD|62053	193	Csrp1 "cysteine and glycine-ri	0.477	0.880	0.456	2.6e-38
UNIPROTKB|J9NYN2	193	CSRP1 "Uncharacterized protein	0.477	0.880	0.456	3.4e-38
UNIPROTKB|I3LL97	193	CSRP1 "Uncharacterized protein	0.477	0.880	0.456	3.4e-38
UNIPROTKB|F1RYJ8	193	CSRP2 "Uncharacterized protein	0.488	0.901	0.437	8.9e-38

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

 Score = 794 (284.6 bits), Expect = 1.2e-108, Sum P(2) = 1.2e-108
 Identities = 150/256 (58%), Positives = 175/256 (68%)

Query:   101 CSKFLDSTNCTEH-EKELYCRQCHXXXXXXXXXXXXXXXXCLSMDA-GEHLTENNAPRTT 158
             C K LDS N ++  ++++YCR C+                 L  D   E     N P   
Sbjct:   252 CHKTLDSINASDGPDRDVYCRTCYGKKWGPHGYGFACGSGFLQTDGLTEDQISANRPFYN 311

Query:   159 VIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDK 218
               DT  IKA  G+GCPRCGG VFAAEQ L+KG  WH+KC+ C DC++ LDS+ ACDGPD 
Sbjct:   312 P-DTTSIKARDGEGCPRCGGAVFAAEQQLSKGKVWHKKCYNCADCHRPLDSVLACDGPDG 370

Query:   219 DIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVSTSGESTMQFYDARPTSGLKGRN 278
             DI+C+           ACYGK FGPKGFGYGH+PTLVSTSGEST+QF D RP +G K   
Sbjct:   371 DIHCR-----------ACYGKLFGPKGFGYGHAPTLVSTSGESTIQFPDGRPLAGPK--T 417

Query:   279 GDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKN 338
               GCPRCGF V+AAEQMISK RIWH+RCF C+DC +SLDSTNLNDGPD DIYCR CYG+N
Sbjct:   418 SGGCPRCGFAVFAAEQMISKTRIWHKRCFYCSDCRKSLDSTNLNDGPDGDIYCRACYGRN 477

Query:   339 FGPKGCGFGLGAGALT 354
             FGPKG G+GLGAGALT
Sbjct:   478 FGPKGVGYGLGAGALT 493

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 = 441 (160.3 bits), Expect = 1.4e-41, P = 1.4e-41
 Identities = 94/195 (48%), Positives = 114/195 (58%)

Query:   170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 229
             GK C  C   V+ AE+V  +GS +H+ CF C  C K LDS       D +IYCK+CYGKK
Sbjct:     9 GKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGD-EIYCKSCYGKK 67

Query:   230 HKYCKACYGKNFGPKGFGYGHSPTLVSTS-GESTMQFYDA----RPTSGLKGR------N 278
                        +GPKG+GYG     +ST  GES    Y+     RPT+    R       
Sbjct:    68 -----------YGPKGYGYGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGG 116

Query:   279 GDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKN 338
              DGCPRCG  VYAAE++I   + WH+ CF CA C +SL+ST L D  D +IYC+GCY KN
Sbjct:   117 SDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLAD-KDGEIYCKGCYAKN 175

Query:   339 FGPKGCGFGLGAGAL 353
             FGPKG GFG GAGAL
Sbjct:   176 FGPKGFGFGQGAGAL 190

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 441 (160.3 bits), Expect = 1.4e-41, P = 1.4e-41
 Identities = 94/195 (48%), Positives = 114/195 (58%)

Query:   170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 229
             GK C  C   V+ AE+V  +GS +H+ CF C  C K LDS       D +IYCK+CYGKK
Sbjct:     7 GKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGD-EIYCKSCYGKK 65

Query:   230 HKYCKACYGKNFGPKGFGYGHSPTLVSTS-GESTMQFYDA----RPTSGLKGR------N 278
                        +GPKG+GYG     +ST  GES    Y+     RPT+    R       
Sbjct:    66 -----------YGPKGYGYGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGG 114

Query:   279 GDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKN 338
              DGCPRCG  VYAAE++I   + WH+ CF CA C +SL+ST L D  D +IYC+GCY KN
Sbjct:   115 SDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLAD-KDGEIYCKGCYAKN 173

Query:   339 FGPKGCGFGLGAGAL 353
             FGPKG GFG GAGAL
Sbjct:   174 FGPKGFGFGQGAGAL 188

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 = 413 (150.4 bits), Expect = 1.3e-38, P = 1.3e-38
 Identities = 91/197 (46%), Positives = 114/197 (57%)

Query:   170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSIN-ACDGPDKDIYCKTCYGK 228
             GK C  C   V+ AE+V  +GS +H+ CF C  C K LDS   A  G  ++IYCK+CYGK
Sbjct:     7 GKKCGVCQKTVYFAEEVQCEGSSFHKSCFLCLVCKKNLDSTTVAVHG--EEIYCKSCYGK 64

Query:   229 KHKYCKACYGKNFGPKGFGYGHSP-TLVSTSGEST-MQFYDA---RPTSG-------LKG 276
             K           +GPKG+GYG    TL    GES  ++  +A   RPT+         K 
Sbjct:    65 K-----------YGPKGYGYGQGAGTLSMDKGESLGIRHEEAPGHRPTTNPNTSKFAQKV 113

Query:   277 RNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYG 336
                + CPRC   VYAAE++I   + WH+ CF CA C + L+ST L D  D +IYC+GCY 
Sbjct:   114 GGSERCPRCSQAVYAAEKVIGAGKSWHKSCFRCAKCGKGLESTTLAD-KDGEIYCKGCYA 172

Query:   337 KNFGPKGCGFGLGAGAL 353
             KNFGPKG GFG GAGAL
Sbjct:   173 KNFGPKGFGFGQGAGAL 189

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 = 412 (150.1 bits), Expect = 1.6e-38, P = 1.6e-38
 Identities = 90/197 (45%), Positives = 115/197 (58%)

Query:   170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSIN-ACDGPDKDIYCKTCYGK 228
             GK C  C   V+ AE+V  +G+ +H+ CF C  C K LDS   A  G  ++IYCK+CYGK
Sbjct:     7 GKKCGVCQKTVYFAEEVQCEGNSFHKSCFLCMVCKKNLDSTTVAVHG--EEIYCKSCYGK 64

Query:   229 KHKYCKACYGKNFGPKGFGYGHSPTLVSTS-GEST-MQFYDA---RPTSG-------LKG 276
             K           +GPKG+GYG     +ST  GES  ++  +A   RPT+         K 
Sbjct:    65 K-----------YGPKGYGYGQGAGTLSTDKGESLGIKHEEAPGHRPTTNPNASKFAQKI 113

Query:   277 RNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYG 336
                + CPRC   VYAAE++I   + WH+ CF CA C + L+ST L D  D +IYC+GCY 
Sbjct:   114 GGSERCPRCSQAVYAAEKVIGAGKSWHKSCFRCAKCGKGLESTTLAD-KDGEIYCKGCYA 172

Query:   337 KNFGPKGCGFGLGAGAL 353
             KNFGPKG GFG GAGAL
Sbjct:   173 KNFGPKGFGFGQGAGAL 189

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

 Score = 412 (150.1 bits), Expect = 1.6e-38, P = 1.6e-38
 Identities = 90/197 (45%), Positives = 115/197 (58%)

Query:   170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSIN-ACDGPDKDIYCKTCYGK 228
             GK C  C   V+ AE+V  +G+ +H+ CF C  C K LDS   A  G  ++IYCK+CYGK
Sbjct:     7 GKKCGVCQKTVYFAEEVQCEGNSFHKSCFLCMVCKKNLDSTTVAVHG--EEIYCKSCYGK 64

Query:   229 KHKYCKACYGKNFGPKGFGYGHSPTLVSTS-GEST-MQFYDA---RPTSG-------LKG 276
             K           +GPKG+GYG     +ST  GES  ++  +A   RPT+         K 
Sbjct:    65 K-----------YGPKGYGYGQGAGTLSTDKGESLGIKHEEAPGHRPTTNPNASKFAQKI 113

Query:   277 RNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYG 336
                + CPRC   VYAAE++I   + WH+ CF CA C + L+ST L D  D +IYC+GCY 
Sbjct:   114 GGSERCPRCSQAVYAAEKVIGAGKSWHKACFRCAKCGKGLESTTLAD-KDGEIYCKGCYA 172

Query:   337 KNFGPKGCGFGLGAGAL 353
             KNFGPKG GFG GAGAL
Sbjct:   173 KNFGPKGFGFGQGAGAL 189

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

 Score = 410 (149.4 bits), Expect = 2.6e-38, P = 2.6e-38
 Identities = 90/197 (45%), Positives = 114/197 (57%)

Query:   170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSIN-ACDGPDKDIYCKTCYGK 228
             GK C  C   V+ AE+V  +G+ +H+ CF C  C K LDS   A  G  ++IYCK+CYGK
Sbjct:     7 GKKCGVCQKTVYFAEEVQCEGNSFHKSCFLCMVCKKNLDSTTVAVHG--EEIYCKSCYGK 64

Query:   229 KHKYCKACYGKNFGPKGFGYGHSP-TLVSTSGEST-MQFYDA---RPTSG-------LKG 276
             K           +GPKG+GYG    TL    GES  ++  +A   RPT+         K 
Sbjct:    65 K-----------YGPKGYGYGQGAGTLSMDKGESLGIKHEEAPGHRPTTNPNASKFAQKI 113

Query:   277 RNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYG 336
                + CPRC   VYAAE++I   + WH+ CF CA C + L+ST L D  D +IYC+GCY 
Sbjct:   114 GGSERCPRCSQAVYAAEKVIGAGKSWHKSCFRCAKCGKGLESTTLAD-KDGEIYCKGCYA 172

Query:   337 KNFGPKGCGFGLGAGAL 353
             KNFGPKG GFG GAGAL
Sbjct:   173 KNFGPKGFGFGQGAGAL 189

GO:0005634 "nucleus" evidence=IEA

GO:0007399 "nervous system development" evidence=NAS

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 409 (149.0 bits), Expect = 3.4e-38, P = 3.4e-38
 Identities = 90/197 (45%), Positives = 112/197 (56%)

Query:   170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSIN-ACDGPDKDIYCKTCYGK 228
             GK C  C   V+ AE+V  +GS +H+ CF C  C K LDS   A  G  ++IYCK+CYGK
Sbjct:     7 GKKCGVCQKTVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHG--EEIYCKSCYGK 64

Query:   229 KHKYCKACYGKNFGPKGFGYGHSP-TLVSTSGESTMQFYDA----RPTSG-------LKG 276
             K           +GPKG+GYG    TL    GES    ++     RPT+         K 
Sbjct:    65 K-----------YGPKGYGYGQGAGTLSMDKGESLGIKHEETLGHRPTTNPNASKFAQKI 113

Query:   277 RNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYG 336
                + CPRC   VYAAE++I   + WH+ CF CA C + L+ST L D  D +IYC+GCY 
Sbjct:   114 GGSERCPRCSQAVYAAEKVIGAGKSWHKSCFRCAKCGKGLESTTLAD-KDGEIYCKGCYA 172

Query:   337 KNFGPKGCGFGLGAGAL 353
             KNFGPKG GFG GAGAL
Sbjct:   173 KNFGPKGFGFGQGAGAL 189

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 409 (149.0 bits), Expect = 3.4e-38, P = 3.4e-38
 Identities = 90/197 (45%), Positives = 112/197 (56%)

Query:   170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSIN-ACDGPDKDIYCKTCYGK 228
             GK C  C   V+ AE+V  +GS +H+ CF C  C K LDS   A  G  ++IYCK+CYGK
Sbjct:     7 GKRCGVCQKTVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHG--EEIYCKSCYGK 64

Query:   229 KHKYCKACYGKNFGPKGFGYGHSP-TLVSTSGESTMQFYDA----RPTSG-------LKG 276
             K           +GPKG+GYG    TL    GES    ++     RPT+         K 
Sbjct:    65 K-----------YGPKGYGYGQGAGTLSMDKGESLGIKHEETPGHRPTTNPNASKFAQKI 113

Query:   277 RNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYG 336
                + CPRC   VYAAE++I   + WH+ CF CA C + L+ST L D  D +IYC+GCY 
Sbjct:   114 GGSERCPRCSQAVYAAEKVIGAGKSWHKSCFRCAKCGKGLESTTLAD-KDGEIYCKGCYA 172

Query:   337 KNFGPKGCGFGLGAGAL 353
             KNFGPKG GFG GAGAL
Sbjct:   173 KNFGPKGFGFGQGAGAL 189

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 405 (147.6 bits), Expect = 8.9e-38, P = 8.9e-38
 Identities = 87/199 (43%), Positives = 109/199 (54%)

Query:   170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 229
             G  C  CG  V+ AE+V   G  +HR CF C  C K LDS       D+++YCK+CYGKK
Sbjct:     7 GNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIH-DEEVYCKSCYGKK 65

Query:   230 HKYCKACYGKNFGPKGFGYGHSP-TLVSTSGE----STMQFYDARPTSG-------LKGR 277
                        +GPKG+GYG    TL    GE            RPT+         K  
Sbjct:    66 -----------YGPKGYGYGQGAGTLNMDRGERLGIKPESVQPHRPTTNPNTSKFAQKYG 114

Query:   278 NGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGK 337
               + CPRCG  VYAAE++I   + WH+ CF CA C +SL+ST L +  + +IYC+GCY K
Sbjct:   115 GAEKCPRCGDSVYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLTE-KEGEIYCKGCYAK 173

Query:   338 NFGPKGCGFGLGAGALTMA 356
             NFGPKG G+G GAGAL  A
Sbjct:   174 NFGPKGFGYGQGAGALVHA 192

GO:0008270 "zinc ion binding" evidence=IEA

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Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	356
cd09404	54	cd09404, LIM1_MLP84B_like, The LIM domain of Mlp84	3e-26
cd09326	53	cd09326, LIM_CRP_like, The LIM domains of Cysteine	3e-21
cd09326	53	cd09326, LIM_CRP_like, The LIM domains of Cysteine	6e-19
cd09326	53	cd09326, LIM_CRP_like, The LIM domains of Cysteine	9e-19
cd09482	54	cd09482, LIM2_CRP3, The second LIM domain of Cyste	7e-13
cd09404	54	cd09404, LIM1_MLP84B_like, The LIM domain of Mlp84	2e-12
cd09403	54	cd09403, LIM2_CRP, The second LIM domain of Cystei	3e-12
cd09403	54	cd09403, LIM2_CRP, The second LIM domain of Cystei	5e-12
pfam00412	58	pfam00412, LIM, LIM domain	2e-11
cd09401	53	cd09401, LIM_TLP_like, The LIM domains of thymus L	2e-11
cd09481	54	cd09481, LIM1_CRP3, The first LIM domain of Cystei	4e-11
cd09403	54	cd09403, LIM2_CRP, The second LIM domain of Cystei	5e-11
cd09482	54	cd09482, LIM2_CRP3, The second LIM domain of Cyste	6e-11
cd09840	54	cd09840, LIM2_CRP2, The second LIM domain of Cyste	7e-11
cd09482	54	cd09482, LIM2_CRP3, The second LIM domain of Cyste	2e-10
cd09480	55	cd09480, LIM1_CRP2, The first LIM domain of Cystei	2e-10
cd09358	53	cd09358, LIM_Mical_like, The LIM domain of Mical (	3e-10
cd09404	54	cd09404, LIM1_MLP84B_like, The LIM domain of Mlp84	4e-10
cd09840	54	cd09840, LIM2_CRP2, The second LIM domain of Cyste	4e-10
cd09402	53	cd09402, LIM1_CRP, The first LIM domain of Cystein	4e-10
cd09479	56	cd09479, LIM1_CRP1, The first LIM domain of Cystei	4e-10
cd09840	54	cd09840, LIM2_CRP2, The second LIM domain of Cyste	2e-09
cd09401	53	cd09401, LIM_TLP_like, The LIM domains of thymus L	3e-09
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	3e-08
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	6e-08
cd09445	53	cd09445, LIM_Mical_like_2, This domain belongs to	9e-08
cd09440	63	cd09440, LIM1_SF3, The first Lim domain of pollen	1e-07
cd09358	53	cd09358, LIM_Mical_like, The LIM domain of Mical (	2e-07
cd09445	53	cd09445, LIM_Mical_like_2, This domain belongs to	3e-07
cd09401	53	cd09401, LIM_TLP_like, The LIM domains of thymus L	5e-07
cd09478	54	cd09478, LIM_CRIP, The LIM domain of Cysteine-Rich	6e-07
cd09441	61	cd09441, LIM2_SF3, The second Lim domain of pollen	7e-07
cd09443	55	cd09443, LIM_Ltd-1, The LIM domain of LIM and tran	7e-07
cd09400	61	cd09400, LIM_like_1, LIM domain in proteins of unk	1e-06
cd09480	55	cd09480, LIM1_CRP2, The first LIM domain of Cystei	2e-06
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	3e-06
cd09402	53	cd09402, LIM1_CRP, The first LIM domain of Cystein	4e-06
cd09479	56	cd09479, LIM1_CRP1, The first LIM domain of Cystei	4e-06
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	6e-06
cd09477	54	cd09477, LIM2_TLP, The second LIM domain of thymus	6e-06
pfam00412	58	pfam00412, LIM, LIM domain	8e-06
cd09443	55	cd09443, LIM_Ltd-1, The LIM domain of LIM and tran	9e-06
pfam00412	58	pfam00412, LIM, LIM domain	1e-05
cd09480	55	cd09480, LIM1_CRP2, The first LIM domain of Cystei	1e-05
cd09445	53	cd09445, LIM_Mical_like_2, This domain belongs to	1e-05
cd09481	54	cd09481, LIM1_CRP3, The first LIM domain of Cystei	2e-05
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	2e-05
cd09476	54	cd09476, LIM1_TLP, The first LIM domain of thymus	2e-05
cd09358	53	cd09358, LIM_Mical_like, The LIM domain of Mical (	3e-05
cd09478	54	cd09478, LIM_CRIP, The LIM domain of Cysteine-Rich	3e-05
cd09477	54	cd09477, LIM2_TLP, The second LIM domain of thymus	3e-05
cd09476	54	cd09476, LIM1_TLP, The first LIM domain of thymus	3e-05
cd09481	54	cd09481, LIM1_CRP3, The first LIM domain of Cystei	4e-05
cd09402	53	cd09402, LIM1_CRP, The first LIM domain of Cystein	4e-05
cd09400	61	cd09400, LIM_like_1, LIM domain in proteins of unk	4e-05
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	5e-05
cd09470	54	cd09470, LIM1_Lhx9, The first LIM domain of Lhx9	5e-05
cd09479	56	cd09479, LIM1_CRP1, The first LIM domain of Cystei	8e-05
cd09400	61	cd09400, LIM_like_1, LIM domain in proteins of unk	1e-04
cd09469	64	cd09469, LIM1_Lhx2, The first LIM domain of Lhx2	1e-04
cd09446	53	cd09446, LIM_N_RAP, The LIM domain of N-RAP	1e-04
cd09447	53	cd09447, LIM_LASP, The LIM domain of LIM and SH3 P	1e-04
cd09477	54	cd09477, LIM2_TLP, The second LIM domain of thymus	2e-04
cd09447	53	cd09447, LIM_LASP, The LIM domain of LIM and SH3 P	2e-04
cd09359	53	cd09359, LIM_LASP_like, The LIM domain of LIM and	2e-04
cd09359	53	cd09359, LIM_LASP_like, The LIM domain of LIM and	3e-04
cd09349	87	cd09349, LIM1_Zyxin, The first LIM domain of Zyxin	3e-04
cd09369	54	cd09369, LIM1_Lhx2_Lhx9, The first LIM domain of L	3e-04
cd09359	53	cd09359, LIM_LASP_like, The LIM domain of LIM and	4e-04
cd09485	53	cd09485, LIM_Eplin_alpha_beta, The Lim domain of E	5e-04
cd09443	55	cd09443, LIM_Ltd-1, The LIM domain of LIM and tran	7e-04
cd09446	53	cd09446, LIM_N_RAP, The LIM domain of N-RAP	9e-04
cd09440	63	cd09440, LIM1_SF3, The first Lim domain of pollen	0.001
cd09442	53	cd09442, LIM_Eplin_like, The Lim domain of Epithel	0.001
cd09475	59	cd09475, LIM2_Lhx9, The second LIM domain of Lhx9	0.002
cd09475	59	cd09475, LIM2_Lhx9, The second LIM domain of Lhx9	0.002
cd09476	54	cd09476, LIM1_TLP, The first LIM domain of thymus	0.004
cd09446	53	cd09446, LIM_N_RAP, The LIM domain of N-RAP	0.004
cd09364	53	cd09364, LIM1_LIMK, The first LIM domain of LIMK (	0.004
cd09393	56	cd09393, LIM3_Lrg1p_like, The third LIM domain of	0.004

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

 Score = 98.7 bits (246), Expect = 3e-26
 Identities = 45/54 (83%), Positives = 49/54 (90%)

Query: 23 KCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCH 76
          KCP CGKSVYAAEER+AGGYK+HKMCFKC MC+K LDSTNC EHE ELYC+QCH
Sbjct: 1  KCPKCGKSVYAAEERLAGGYKWHKMCFKCGMCNKLLDSTNCAEHEGELYCKQCH 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|188712 cd09326, LIM_CRP_like, The LIM domains of Cysteine Rich Protein (CRP) family

 Score = 85.3 bits (212), Expect = 3e-21
 Identities = 31/53 (58%), Positives = 40/53 (75%)

Query: 24 CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCH 76
          CP CGKSVYAAEE +A G  +HK CF C++C+K LDST   EH+ E+YC+ C+
Sbjct: 1  CPRCGKSVYAAEEVIAAGKSWHKSCFTCAVCNKRLDSTTLAEHDGEIYCKSCY 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 = 78.8 bits (195), Expect = 6e-19
 Identities = 29/54 (53%), Positives = 40/54 (74%), Gaps = 1/54 (1%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCY 335
           CPRCG  VYAAE++I+  + WH+ CF+CA C++ LDST L +  D +IYC+ 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 = 78.4 bits (194), Expect = 9e-19
 Identities = 30/54 (55%), Positives = 37/54 (68%), Gaps = 1/54 (1%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 226
           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|188866 cd09482, LIM2_CRP3, The second LIM domain of Cysteine Rich Protein 3 (CRP3/MLP)

 Score = 62.3 bits (151), Expect = 7e-13
 Identities = 29/53 (54%), Positives = 40/53 (75%)

Query: 24 CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCH 76
          CP CGKSVYAAE+ + GG  +HK CF+C++C K L+ST  T+ + ELYC+ C+
Sbjct: 1  CPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTTVTDKDGELYCKVCY 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|188788 cd09404, LIM1_MLP84B_like, The LIM domain of Mlp84B and Mlp60A

 Score = 61.3 bits (149), Expect = 2e-12
 Identities = 28/54 (51%), Positives = 38/54 (70%), Gaps = 1/54 (1%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 226
           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|188787 cd09403, LIM2_CRP, The second LIM domain of Cysteine Rich Protein (CRP)

 Score = 60.7 bits (147), Expect = 3e-12
 Identities = 31/54 (57%), Positives = 39/54 (72%), Gaps = 1/54 (1%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCY 335
           CPRCG  VYAAE++I   + WH+ CF CA C +SL+ST L D  D +IYC+GCY
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|188787 cd09403, LIM2_CRP, The second LIM domain of Cysteine Rich Protein (CRP)

 Score = 59.9 bits (145), Expect = 5e-12
 Identities = 26/53 (49%), Positives = 37/53 (69%)

Query: 24 CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCH 76
          CP CGKSVYAAE+ +  G  +HK CF+C+ C K L+ST   + + E+YC+ C+
Sbjct: 1  CPRCGKSVYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLADKDGEIYCKGCY 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|215907 pfam00412, LIM, LIM domain

 Score = 58.5 bits (142), Expect = 2e-11
 Identities = 20/58 (34%), Positives = 32/58 (55%), Gaps = 1/58 (1%)

Query: 24 CPACGKSVYAAEE-RVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKY 80
          C  CGK +Y  E  R A G  +H  CF+C++C K L   +  E + +LYC+  + + +
Sbjct: 1  CAGCGKPIYDRELVRRALGKVWHPECFRCAVCGKPLGPGDFFEKDGKLYCKHDYFKLF 58

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

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

 Score = 58.1 bits (141), Expect = 2e-11
 Identities = 23/53 (43%), Positives = 32/53 (60%)

Query: 24 CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCH 76
          CP CGK VY AE++ + G  +HK C +C  C K L     +EHE + YC +C+
Sbjct: 1  CPKCGKPVYFAEKKTSLGRDWHKPCLRCEKCKKTLTPGQHSEHEGKPYCNKCY 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|188865 cd09481, LIM1_CRP3, The first LIM domain of Cysteine Rich Protein 3 (CRP3/MLP)

 Score = 57.5 bits (138), Expect = 4e-11
 Identities = 29/54 (53%), Positives = 33/54 (61%)

Query: 23 KCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCH 76
          KC AC K+VY AEE    G  FHK CF C  C K LDST    HE E+YC+ C+
Sbjct: 1  KCGACEKTVYHAEEIQCNGRSFHKTCFICMACRKALDSTTVAAHESEIYCKTCY 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|188787 cd09403, LIM2_CRP, The second LIM domain of Cysteine Rich Protein (CRP)

 Score = 57.2 bits (138), Expect = 5e-11
 Identities = 27/54 (50%), Positives = 36/54 (66%), Gaps = 1/54 (1%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 226
           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 = 56.9 bits (137), Expect = 6e-11
 Identities = 27/54 (50%), Positives = 36/54 (66%), Gaps = 1/54 (1%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 226
           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|188871 cd09840, LIM2_CRP2, The second LIM domain of Cysteine Rich Protein 2 (CRP2)

 Score = 56.7 bits (136), Expect = 7e-11
 Identities = 27/55 (49%), Positives = 38/55 (69%), Gaps = 1/55 (1%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYG 336
           C RCG  VYAAE+++   + WH+ CF CA C +SL+ST L +  + +IYC+GCY 
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|188866 cd09482, LIM2_CRP3, The second LIM domain of Cysteine Rich Protein 3 (CRP3/MLP)

 Score = 55.8 bits (134), Expect = 2e-10
 Identities = 27/54 (50%), Positives = 38/54 (70%), Gaps = 1/54 (1%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCY 335
           CPRCG  VYAAE+++   + WH+ CF CA C +SL+ST + D  D ++YC+ 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|188864 cd09480, LIM1_CRP2, The first LIM domain of Cysteine Rich Protein 2 (CRP2)

 Score = 55.8 bits (134), Expect = 2e-10
 Identities = 29/55 (52%), Positives = 37/55 (67%)

Query: 23 KCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHG 77
          KC ACG++VY AEE    G  FHK CF C +C K LDST    H++E+YC+ C+G
Sbjct: 1  KCGACGRTVYHAEEVQCDGRSFHKCCFLCMVCRKNLDSTTVAIHDQEIYCKSCYG 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|188744 cd09358, LIM_Mical_like, The LIM domain of Mical (molecule interacting with CasL) like family

 Score = 54.6 bits (132), Expect = 3e-10
 Identities = 25/51 (49%), Positives = 30/51 (58%)

Query: 24 CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQ 74
          C  CGK+VY  E  VA G  FHK CF+CS C+K L   N    E +LYC+ 
Sbjct: 1  CAVCGKTVYPMERLVADGKLFHKSCFRCSHCNKTLRLGNYASLEGKLYCKP 51

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

 Score = 54.8 bits (132), Expect = 4e-10
 Identities = 23/54 (42%), Positives = 36/54 (66%), Gaps = 1/54 (1%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCY 335
           CP+CG  VYAAE+ ++    WH+ CF C  C++ LDSTN  +  + ++YC+ 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|188871 cd09840, LIM2_CRP2, The second LIM domain of Cysteine Rich Protein 2 (CRP2)

 Score = 54.7 bits (131), Expect = 4e-10
 Identities = 27/54 (50%), Positives = 36/54 (66%)

Query: 24 CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHG 77
          C  CG SVYAAE+ +  G  +HK CF+C+ C K L+ST  TE E E+YC+ C+ 
Sbjct: 1  CSRCGDSVYAAEKIMGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYA 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|188786 cd09402, LIM1_CRP, The first LIM domain of Cysteine Rich Protein (CRP)

 Score = 54.6 bits (131), Expect = 4e-10
 Identities = 28/53 (52%), Positives = 33/53 (62%)

Query: 24 CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCH 76
          C AC K+VY AEE    G  FHK CF C +C K LDST    HE E+YC+ C+
Sbjct: 1  CGACEKTVYHAEEVQCEGRSFHKSCFLCMVCRKNLDSTTVAAHEDEIYCKSCY 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 = 54.6 bits (131), Expect = 4e-10
 Identities = 28/55 (50%), Positives = 34/55 (61%)

Query: 23 KCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHG 77
          KC  C K+VY AEE    G  FHK CF C +C K LDST    H +E+YC+ C+G
Sbjct: 2  KCGVCQKTVYFAEEVQCEGRSFHKSCFLCMVCKKNLDSTTVAVHGEEIYCKSCYG 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|188871 cd09840, LIM2_CRP2, The second LIM domain of Cysteine Rich Protein 2 (CRP2)

 Score = 52.4 bits (125), Expect = 2e-09
 Identities = 24/55 (43%), Positives = 35/55 (63%), Gaps = 1/55 (1%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYG 227
           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 = 52.0 bits (125), Expect = 3e-09
 Identities = 21/54 (38%), Positives = 29/54 (53%), Gaps = 1/54 (1%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 226
           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|214528 smart00132, LIM, Zinc-binding domain present in Lin-11, Isl-1, Mec-3

 Score = 49.3 bits (118), Expect = 3e-08
 Identities = 22/54 (40%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 23 KCPACGKSVYAAEE-RVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQC 75
          KC  CGK +Y  E    A G  +H  CFKC+ C K L      E + +LYC+ C
Sbjct: 1  KCAGCGKPIYGTERVLRALGKVWHPECFKCATCGKPLSGDTFFEKDGKLYCKDC 54

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

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

 Score = 48.5 bits (116), Expect = 6e-08
 Identities = 21/53 (39%), Positives = 29/53 (54%)

Query: 24 CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCH 76
          C  CGK +   E   A G K+H  CFKCS+C K L   +  E + + YC +C+
Sbjct: 1  CAGCGKPIEGRELLRALGKKWHPECFKCSVCGKPLGGDSFYEKDGKPYCEKCY 53

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

>gnl|CDD|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 = 47.8 bits (114), Expect = 9e-08
 Identities = 23/50 (46%), Positives = 30/50 (60%)

Query: 24 CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCR 73
          C +CGK VY  EE +A  + +HK CF+C  C+K L   N   HE  LYC+
Sbjct: 1  CRSCGKPVYKMEEIIAEKHIYHKNCFRCKDCNKQLKVDNYQSHEGNLYCK 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|188824 cd09440, LIM1_SF3, The first Lim domain of pollen specific protein SF3

 Score = 47.8 bits (114), Expect = 1e-07
 Identities = 22/51 (43%), Positives = 30/51 (58%)

Query: 23 KCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCR 73
          KC AC K+VY  ++  A G  +HK CF+CS C   L  +N +  E  LYC+
Sbjct: 4  KCKACDKTVYLVDQLSADGVVYHKSCFRCSHCKGTLKLSNYSSMEGVLYCK 54

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

 Score = 46.9 bits (112), Expect = 2e-07
 Identities = 21/51 (41%), Positives = 29/51 (56%), Gaps = 1/51 (1%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCK 223
           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 = 46.3 bits (110), Expect = 3e-07
 Identities = 20/53 (37%), Positives = 34/53 (64%), Gaps = 5/53 (9%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTL--DSINACDGPDKDIYCK 223
           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|188785 cd09401, LIM_TLP_like, The LIM domains of thymus LIM protein (TLP)

 Score = 45.8 bits (109), Expect = 5e-07
 Identities = 20/54 (37%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCY 335
           CP+CG  VY AE+  S  R WH+ C  C  C ++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|188862 cd09478, LIM_CRIP, The LIM domain of Cysteine-Rich Intestinal Protein (CRIP)

 Score = 45.6 bits (108), Expect = 6e-07
 Identities = 21/54 (38%), Positives = 28/54 (51%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 226
           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|188825 cd09441, LIM2_SF3, The second Lim domain of pollen specific protein SF3

 Score = 45.5 bits (108), Expect = 7e-07
 Identities = 25/61 (40%), Positives = 33/61 (54%)

Query: 24 CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPK 83
          C ACGK+VY  E+    G  +HK CFKCS     +  +N   HE  LYC+  H + +  K
Sbjct: 1  CVACGKTVYPIEKVTVEGTSYHKSCFKCSHGGCTISPSNYAAHEGRLYCKHHHSQLFKEK 60

Query: 84 G 84
          G
Sbjct: 61 G 61

The second 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 = 61

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

 Score = 45.5 bits (108), Expect = 7e-07
 Identities = 20/52 (38%), Positives = 26/52 (50%), Gaps = 2/52 (3%)

Query: 24 CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFL--DSTNCTEHEKELYCR 73
          CP CGK+ Y AE     G  +HK CFKC  C   L   +    + + 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|188784 cd09400, LIM_like_1, LIM domain in proteins of unknown function

 Score = 44.7 bits (106), Expect = 1e-06
 Identities = 20/54 (37%), Positives = 27/54 (50%)

Query: 172 GCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTC 225
            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|188864 cd09480, LIM1_CRP2, The first LIM domain of Cysteine Rich Protein 2 (CRP2)

 Score = 43.8 bits (103), Expect = 2e-06
 Identities = 25/55 (45%), Positives = 32/55 (58%), Gaps = 1/55 (1%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYG 227
           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 = 43.5 bits (103), Expect = 3e-06
 Identities = 22/54 (40%), Positives = 27/54 (50%), Gaps = 2/54 (3%)

Query: 173 CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTC 225
           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|188786 cd09402, LIM1_CRP, The first LIM domain of Cysteine Rich Protein (CRP)

 Score = 43.0 bits (101), Expect = 4e-06
 Identities = 22/54 (40%), Positives = 30/54 (55%), Gaps = 1/54 (1%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 226
           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 = 43.5 bits (102), Expect = 4e-06
 Identities = 24/57 (42%), Positives = 32/57 (56%), Gaps = 1/57 (1%)

Query: 171 KGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYG 227
           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 = 42.7 bits (101), Expect = 6e-06
 Identities = 20/54 (37%), Positives = 27/54 (50%), Gaps = 1/54 (1%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 226
           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|188861 cd09477, LIM2_TLP, The second LIM domain of thymus LIM protein (TLP)

 Score = 42.7 bits (100), Expect = 6e-06
 Identities = 18/35 (51%), Positives = 24/35 (68%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTL 207
           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|215907 pfam00412, LIM, LIM domain

 Score = 42.7 bits (101), Expect = 8e-06
 Identities = 21/59 (35%), Positives = 27/59 (45%), Gaps = 2/59 (3%)

Query: 173 CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKH 230
           C  CG  ++  E V  A G  WH +CF+C  C K L   +     D  +YCK  Y K  
Sbjct: 1   CAGCGKPIYDRELVRRALGKVWHPECFRCAVCGKPLGPGD-FFEKDGKLYCKHDYFKLF 58

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

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

 Score = 42.4 bits (100), Expect = 9e-06
 Identities = 20/53 (37%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINAC-DGPDKDIYCKT 224
           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|215907 pfam00412, LIM, LIM domain

 Score = 41.9 bits (99), Expect = 1e-05
 Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 2/59 (3%)

Query: 282 CPRCGFVVYAAEQ-MISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNF 339
           C  CG  +Y  E    +  ++WH  CF CA C + L   +  +  D  +YC+  Y K F
Sbjct: 1   CAGCGKPIYDRELVRRALGKVWHPECFRCAVCGKPLGPGDFFE-KDGKLYCKHDYFKLF 58

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

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

 Score = 42.3 bits (99), Expect = 1e-05
 Identities = 24/55 (43%), Positives = 33/55 (60%), Gaps = 1/55 (1%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYG 336
           C  CG  VY AE++    R +H+ CF C  C ++LDST +    D +IYC+ 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|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 = 42.1 bits (99), Expect = 1e-05
 Identities = 19/53 (35%), Positives = 33/53 (62%), Gaps = 5/53 (9%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSL--DSTNLNDGPDNDIYCR 332
           C  CG  VY  E++I++  I+H+ CF C DC++ L  D+   ++G   ++YC+
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|188865 cd09481, LIM1_CRP3, The first LIM domain of Cysteine Rich Protein 3 (CRP3/MLP)

 Score = 41.3 bits (96), Expect = 2e-05
 Identities = 22/54 (40%), Positives = 29/54 (53%), Gaps = 1/54 (1%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 226
           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|188711 cd08368, LIM, LIM is a small protein-protein interaction domain, containing two zinc fingers

 Score = 41.1 bits (97), Expect = 2e-05
 Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 1/54 (1%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCY 335
           C  CG  +   E + +  + WH  CF C+ C + 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|188860 cd09476, LIM1_TLP, The first LIM domain of thymus LIM protein (TLP)

 Score = 41.1 bits (96), Expect = 2e-05
 Identities = 22/54 (40%), Positives = 27/54 (50%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 226
           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|188744 cd09358, LIM_Mical_like, The LIM domain of Mical (molecule interacting with CasL) like family

 Score = 41.1 bits (97), Expect = 3e-05
 Identities = 15/51 (29%), Positives = 30/51 (58%), Gaps = 1/51 (1%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCR 332
           C  CG  VY  E++++  +++H+ CF C+ C+++L   N     +  +YC+
Sbjct: 1   CAVCGKTVYPMERLVADGKLFHKSCFRCSHCNKTLRLGNYA-SLEGKLYCK 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|188862 cd09478, LIM_CRIP, The LIM domain of Cysteine-Rich Intestinal Protein (CRIP)

 Score = 40.6 bits (95), Expect = 3e-05
 Identities = 20/51 (39%), Positives = 26/51 (50%)

Query: 24 CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQ 74
          CP C K VY AE   + G  +H+ C KC  C K L   +  EH+ + YC  
Sbjct: 1  CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTPGSHAEHDGKPYCNH 51

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

 Score = 40.8 bits (95), Expect = 3e-05
 Identities = 20/49 (40%), Positives = 28/49 (57%)

Query: 24 CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYC 72
          CP CGK VY AE+ ++ G  +H+ C +C  C K L +    EH+   YC
Sbjct: 1  CPGCGKPVYFAEKVMSLGRNWHRPCLRCQRCKKTLTAGGHAEHDGSPYC 49

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

 Score = 40.7 bits (95), Expect = 3e-05
 Identities = 21/51 (41%), Positives = 29/51 (56%)

Query: 24 CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQ 74
          CP C K+VY AE+  + G  +H+ C KC  CSK L      EH+ + YC +
Sbjct: 1  CPRCDKTVYFAEKVSSLGKNWHRFCLKCERCSKILSPGGHAEHDGKPYCHK 51

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

 Score = 40.5 bits (94), Expect = 4e-05
 Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 1/54 (1%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCY 335
           C  C   VY AE++    R +H+ CF C  C ++LDST +    +++IYC+ 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|188786 cd09402, LIM1_CRP, The first LIM domain of Cysteine Rich Protein (CRP)

 Score = 40.7 bits (95), Expect = 4e-05
 Identities = 21/54 (38%), Positives = 33/54 (61%), Gaps = 1/54 (1%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCY 335
           C  C   VY AE++  + R +H+ CF C  C ++LDST +    +++IYC+ 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|188784 cd09400, LIM_like_1, LIM domain in proteins of unknown function

 Score = 40.5 bits (95), Expect = 4e-05
 Identities = 16/55 (29%), Positives = 27/55 (49%)

Query: 280 DGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGC 334
           + C  CG  V+ AE+++ + +++HR CF CA 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|214528 smart00132, LIM, Zinc-binding domain present in Lin-11, Isl-1, Mec-3

 Score = 40.1 bits (94), Expect = 5e-05
 Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 2/54 (3%)

Query: 282 CPRCGFVVYAAEQMIS-KNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGC 334
           C  CG  +Y  E+++    ++WH  CF CA C + L      +  D  +YC+ C
Sbjct: 2   CAGCGKPIYGTERVLRALGKVWHPECFKCATCGKPLSGDTFFE-KDGKLYCKDC 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|188854 cd09470, LIM1_Lhx9, The first LIM domain of Lhx9

 Score = 40.0 bits (93), Expect = 5e-05
 Identities = 21/54 (38%), Positives = 27/54 (50%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 226
           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|188863 cd09479, LIM1_CRP1, The first LIM domain of Cysteine Rich Protein 1 (CRP1)

 Score = 39.6 bits (92), Expect = 8e-05
 Identities = 22/55 (40%), Positives = 32/55 (58%), Gaps = 1/55 (1%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYG 336
           C  C   VY AE++  + R +H+ CF C  C ++LDST +      +IYC+ CYG
Sbjct: 3   CGVCQKTVYFAEEVQCEGRSFHKSCFLCMVCKKNLDSTTVAVH-GEEIYCKSCYG 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|188784 cd09400, LIM_like_1, LIM domain in proteins of unknown function

 Score = 39.3 bits (92), Expect = 1e-04
 Identities = 18/50 (36%), Positives = 25/50 (50%)

Query: 23 KCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYC 72
           C +CG  V+ AE  +  G  +H+ CFKC+ C   L   +  E E   YC
Sbjct: 4  PCASCGLPVFLAERLLIEGKVYHRTCFKCARCGVQLTPGSFYETEYGSYC 53

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|188853 cd09469, LIM1_Lhx2, The first LIM domain of Lhx2

 Score = 39.6 bits (92), Expect = 1e-04
 Identities = 21/54 (38%), Positives = 27/54 (50%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 226
           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|188830 cd09446, LIM_N_RAP, The LIM domain of N-RAP

 Score = 39.1 bits (91), Expect = 1e-04
 Identities = 19/50 (38%), Positives = 25/50 (50%)

Query: 24 CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCR 73
          C  CG  VY AE+       +HK CF C +C   L   N   H+K+ YC+
Sbjct: 1  CARCGYGVYPAEKINCIDQTWHKACFHCEVCKMMLTVNNFVSHQKKPYCQ 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|188831 cd09447, LIM_LASP, The LIM domain of LIM and SH3 Protein (LASP)

 Score = 38.9 bits (91), Expect = 1e-04
 Identities = 20/54 (37%), Positives = 27/54 (50%), Gaps = 1/54 (1%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 226
           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|188861 cd09477, LIM2_TLP, The second LIM domain of thymus LIM protein (TLP)

 Score = 38.5 bits (89), Expect = 2e-04
 Identities = 17/35 (48%), Positives = 22/35 (62%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSL 316
           CP CG  VY AE+++S  R WHR C  C  C ++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|188831 cd09447, LIM_LASP, The LIM domain of LIM and SH3 Protein (LASP)

 Score = 38.5 bits (90), Expect = 2e-04
 Identities = 20/54 (37%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCY 335
           C RCG  VY  E++   ++IWH+ CF C  C  +L+  N   G +   YC   Y
Sbjct: 1   CARCGKTVYPTEKLNCLDKIWHKGCFKCEVCGMTLNMKNYK-GYNKKPYCNAHY 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 = 38.8 bits (90), Expect = 2e-04
 Identities = 21/54 (38%), Positives = 27/54 (50%), Gaps = 1/54 (1%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 226
           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|188745 cd09359, LIM_LASP_like, The LIM domain of LIM and SH3 Protein (LASP)-like proteins

 Score = 38.0 bits (88), Expect = 3e-04
 Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 1/54 (1%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCY 335
           C RCG +VY  E++   ++ WH+ CF C  C  +L+  N   G     YC   Y
Sbjct: 1   CARCGKIVYPTEKVNCLDKTWHKACFHCEVCKMTLNMNNYK-GYQKKPYCNAHY 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|188735 cd09349, LIM1_Zyxin, The first LIM domain of Zyxin

 Score = 39.1 bits (91), Expect = 3e-04
 Identities = 22/77 (28%), Positives = 33/77 (42%), Gaps = 1/77 (1%)

Query: 1  MRVKQYKKKLDIIMPFVPAENPKCPACGKSVYAAEERV-AGGYKFHKMCFKCSMCSKFLD 59
          M  +Q  + +D       A N  C  CG+ +   +  V A G+ FH  CF C  C + L 
Sbjct: 11 MLTQQLMQDMDHPPAAEAATNELCGICGQPLSRTQPAVRALGHLFHVTCFTCHQCEQQLQ 70

Query: 60 STNCTEHEKELYCRQCH 76
                 E + YC +C+
Sbjct: 71 GQQFYSLEGKPYCEECY 87

The first LIM domain of Zyxin: Zyxin exhibits three copies of the LIM domain, an extensive proline-rich domain and a nuclear export signal. Localized at sites of cell substratum adhesion in fibroblasts, Zyxin interacts with alpha-actinin, members of the cysteine-rich protein (CRP) family, proteins that display Src homology 3 (SH3) domains and Ena/VASP family members. Zyxin and its partners have been implicated in the spatial control of actin filament assembly as well as in pathways important for cell differentiation. In addition to its functions at focal adhesion plaques, recent work has shown that zyxin moves from the sites of cell contacts to the nucleus, where it directly participates in the regulation of gene expression. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 87

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

 Score = 38.1 bits (89), Expect = 3e-04
 Identities = 21/54 (38%), Positives = 27/54 (50%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 226
           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|188745 cd09359, LIM_LASP_like, The LIM domain of LIM and SH3 Protein (LASP)-like proteins

 Score = 37.6 bits (87), Expect = 4e-04
 Identities = 18/49 (36%), Positives = 25/49 (51%)

Query: 24 CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYC 72
          C  CGK VY  E+       +HK CF C +C   L+  N   ++K+ YC
Sbjct: 1  CARCGKIVYPTEKVNCLDKTWHKACFHCEVCKMTLNMNNYKGYQKKPYC 49

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|188869 cd09485, LIM_Eplin_alpha_beta, The Lim domain of Epithelial Protein Lost in Neoplasm (Eplin)

 Score = 37.2 bits (86), Expect = 5e-04
 Identities = 17/50 (34%), Positives = 24/50 (48%)

Query: 24 CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCR 73
          C +C K+VY  E  VA    +H  CF+CS C+  L           +YC+
Sbjct: 1  CVSCQKTVYPLERLVANQQIYHNSCFRCSYCNTKLSLGTYASLHGNIYCK 50

The Lim domain of Epithelial Protein Lost in Neoplasm (Eplin): Epithelial Protein Lost in Neoplasm is a cytoskeleton-associated tumor suppressor whose expression inversely correlates with cell growth, motility, invasion and cancer mortality. Eplin interacts and stabilizes F-actin filaments and stress fibers, which correlates with its ability to suppress anchorage independent growth. In epithelial cells, Eplin is required for formation of the F-actin adhesion belt by binding to the E-cadherin-catenin complex through alpha-catenin. Eplin is expressed in two isoforms, a longer Eplin-beta and a shorter Eplin-alpha. Eplin-alpha mRNA is detected in various tissues and cell lines, but is absent or down regulated in cancer cells. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 53

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

 Score = 37.0 bits (86), Expect = 7e-04
 Identities = 19/54 (35%), Positives = 26/54 (48%), Gaps = 3/54 (5%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADC--HRSLDSTNLNDGPDNDIYCRG 333
           CPRCG   Y AE +      +H+ CF C +C    SL +     G D ++YC  
Sbjct: 1   CPRCGKTAYPAESVDKDGTFYHKGCFKCRECGTRLSLKTFTFVQG-DGEVYCAR 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|188830 cd09446, LIM_N_RAP, The LIM domain of N-RAP

 Score = 36.8 bits (85), Expect = 9e-04
 Identities = 16/39 (41%), Positives = 22/39 (56%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTN 320
           C RCG+ VY AE++   ++ WH+ CF C  C   L   N
Sbjct: 1   CARCGYGVYPAEKINCIDQTWHKACFHCEVCKMMLTVNN 39

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

 Score = 36.7 bits (85), Expect = 0.001
 Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 5/56 (8%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTL--DSINACDGPDKDIYCKTCY 226
           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|188826 cd09442, LIM_Eplin_like, The Lim domain of Epithelial Protein Lost in Neoplasm (Eplin) like proteins

 Score = 36.3 bits (84), Expect = 0.001
 Identities = 18/50 (36%), Positives = 23/50 (46%)

Query: 24 CPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCR 73
          C  C K VY  E  +A    FHK CF+C  C+  L   N       +YC+
Sbjct: 1  CTVCQKRVYPMERLIADKQNFHKSCFRCEHCNSKLSLGNYASLHGRIYCK 50

The Lim domain of Epithelial Protein Lost in Neoplasm (Eplin) like proteins: This family contains Epithelial Protein Lost in Neoplasm in Neoplasm (Eplin), xin actin-binding repeat-containing protein 2 (XIRP2) and a group of protein with unknown function. The members of this family all contain a single LIM domain. Epithelial Protein Lost in Neoplasm is a cytoskeleton-associated tumor suppressor whose expression inversely correlates with cell growth, motility, invasion and cancer mortality. Eplin interacts and stabilizes F-actin filaments and stress fibers, which correlates with its ability to suppress anchorage independent growth. In epithelial cells, Eplin is required for formation of the F-actin adhesion belt by binding to the E-cadherin-catenin complex through alpha-catenin. Eplin is expressed in two isoforms, a longer Eplin-beta and a shorter Eplin-alpha. Eplin-alpha mRNA is detected in various tissues and cell lines, but is absent or down regulated in cancer cells. Xirp2 contains a LIM domain and Xin re peats for binding to and stabilising F-actin. Xirp2 is expressed in muscles and is significantly induced in the heart in response to systemic administration of angiotensin II. Xirp2 is an important effector of the Ang II signaling pathway in the heart. The expression of Xirp2 is activated by myocyte enhancer factor (MEF)2A, whose transcriptional activity is stimulated by angiotersin II. Thus, Xirp2 plays important pathological roles in the angiotensin II induced hypertension. 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 = 36.2 bits (83), Expect = 0.002
 Identities = 17/52 (32%), Positives = 30/52 (57%), Gaps = 1/52 (1%)

Query: 282 CPRCGFVVYAAEQ-MISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCR 332
           C RC   + A+E  M ++  ++H  CF+C  C+++L + +     DN +YCR
Sbjct: 5   CARCHLGISASEMVMRARESVYHLSCFTCTTCNKTLTTGDHFGMKDNLVYCR 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|188859 cd09475, LIM2_Lhx9, The second LIM domain of Lhx9

 Score = 35.8 bits (82), Expect = 0.002
 Identities = 20/54 (37%), Positives = 30/54 (55%), Gaps = 1/54 (1%)

Query: 171 KGCPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCK 223
           + 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|188860 cd09476, LIM1_TLP, The first LIM domain of thymus LIM protein (TLP)

 Score = 34.9 bits (80), Expect = 0.004
 Identities = 16/35 (45%), Positives = 20/35 (57%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSL 316
           CPRC   VY AE++ S  + WHR 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|188830 cd09446, LIM_N_RAP, The LIM domain of N-RAP

 Score = 34.5 bits (79), Expect = 0.004
 Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCK 223
           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|188750 cd09364, LIM1_LIMK, The first LIM domain of LIMK (LIM domain Kinase )

 Score = 34.8 bits (80), Expect = 0.004
 Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 2/54 (3%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 226
           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|188779 cd09393, LIM3_Lrg1p_like, The third LIM domain of Lrg1p, a LIM and RhoGap domain containing protein

 Score = 35.0 bits (81), Expect = 0.004
 Identities = 13/40 (32%), Positives = 21/40 (52%), Gaps = 3/40 (7%)

Query: 298 KNRIWHRRCFSCADCHRSLDSTNLND---GPDNDIYCRGC 334
           +++ WH +CF+C+ CHR + S   +      D  I C  C
Sbjct: 16  EDKRWHLKCFTCSRCHREISSELSDAAFNNKDQRILCSNC 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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	356
KOG2272|consensus	332		99.98
KOG1701|consensus	468		99.97
KOG1044|consensus	670		99.89
KOG2272|consensus	332		99.89
KOG1703|consensus	479		99.88
KOG1701|consensus	468		99.85
KOG1703|consensus	479		99.73
KOG4577|consensus	383		99.71
KOG4577|consensus	383		99.71
KOG1044|consensus	670		99.64
KOG1700|consensus	200		99.48
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.46
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.4
KOG1700|consensus	200		99.36
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.6
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.55
KOG1702|consensus	264		97.61
KOG1702|consensus	264		97.34
KOG0490|consensus	235		96.37
KOG0490|consensus	235		95.88
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	88.82
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	84.88
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	82.35

>KOG2272|consensus

Probab=99.98  E-value=8.8e-36  Score=259.82  Aligned_cols=270  Identities=22%  Similarity=0.423  Sum_probs=212.3

Q ss_pred             CCCCCCCCCCCCCccccceEEE-eCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCCccCC---Ccc
Q psy12252         17 VPAENPKCPACGKSVYAAEERV-AGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGG---GAG   92 (356)
Q Consensus        17 ~~~~~~~C~~C~~~I~~~~~i~-~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~~c~~---~~~   92 (356)
                      +..++..|..|......++.++ .+|..||..||.|+.|-.||.++.||+.+|+.||+.++..+|+|-|.+|++   +..
T Consensus         8 ~g~~~~~C~RC~~gF~~~e~~vns~ge~wH~~CFvCAQCf~pf~~g~~~efEgRkYCEhDF~~LfaPcC~kC~EFiiGrV   87 (332)
T KOG2272|consen    8 SGLANMVCERCRDGFEPAEKIVNSNGELWHEQCFVCAQCFRPFPDGIFYEFEGRKYCEHDFHVLFAPCCGKCGEFIIGRV   87 (332)
T ss_pred             hHHHHHHHHHHhccCCchhhhhccCchhhHHHHHHHHHhcCcCCCceeEEecCcccccccchhhhchhhcccccchhhHH
Confidence            3456678999999998888665 688999999999999999999999999999999999999999999999998   234


Q ss_pred             eeeccc---------ccccccCCCCcccccCCceecccCcCcccCCCC--CCCCCCCCcCCCCcccccccC---------
Q psy12252         93 CLSMDA---------GMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKG--YGFGGGAGCLSMDAGEHLTEN---------  152 (356)
Q Consensus        93 ~~~~~~---------~~c~~~l~~~~~~~~~~~~~C~~c~~~~~~p~~--~~~~~g~~~~~~d~~~~~~~~---------  152 (356)
                      +.+|+.         ..|++.|.+..|.-..|+..|..|.++.-+..-  ..+......+..+...+-+.+         
T Consensus        88 ikamnnSwHp~CF~Cd~Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~~~l~fr~d~yH~yHFkCt  167 (332)
T KOG2272|consen   88 IKAMNNSWHPACFRCDLCNKHLADQGFYRNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDEQPLTFRGDPYHPYHFKCT  167 (332)
T ss_pred             HHhhccccCcccchhHHHHHHHhhhhhHhhcchHHhhhhhhhhcccccceeehhhhhhhcccccccccCCCCCccceecc
Confidence            555553         388899999999988999999998876321100  000001112222222221111         


Q ss_pred             -------CCCCc---cccccccccCCCCCCCCCCCceEecceeeccCCCcccccccccccCcCcCCCCccccCCCCceec
Q psy12252        153 -------NAPRT---TVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYC  222 (356)
Q Consensus       153 -------~~~~~---~~~~~~~~~~~~~~~C~~C~~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C  222 (356)
                             +..+.   .+++..+......++|..|++||. +.+|.++|+.||+++|+|+.|.+|+-+-..+ ++.|..||
T Consensus       168 ~C~keL~sdaRevk~eLyClrChD~mgipiCgaC~rpIe-ervi~amgKhWHveHFvCa~CekPFlGHrHY-EkkGlaYC  245 (332)
T KOG2272|consen  168 TCGKELTSDAREVKGELYCLRCHDKMGIPICGACRRPIE-ERVIFAMGKHWHVEHFVCAKCEKPFLGHRHY-EKKGLAYC  245 (332)
T ss_pred             cccccccchhhhhccceeccccccccCCcccccccCchH-HHHHHHhccccchhheeehhcCCcccchhhh-hhcCchhH
Confidence                   00000   244455555566789999999997 4567899999999999999999998776654 59999999


Q ss_pred             ccccccCCcccccccccccCCCcccCCCCCceeecCCCCccccCCCCCCCCCCCCCCCCCCCCCceeecceEEEeCCccc
Q psy12252        223 KTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIW  302 (356)
Q Consensus       223 ~~c~~~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e~v~~~g~~~  302 (356)
                                 +.+|.++||.                                     .|..|+.+|. |+++.+.++.|
T Consensus       246 -----------e~h~~qLfG~-------------------------------------~CF~C~~~i~-G~vv~al~Kaw  276 (332)
T KOG2272|consen  246 -----------ETHYHQLFGN-------------------------------------LCFICNRVIG-GDVVSALNKAW  276 (332)
T ss_pred             -----------HHHHHHHhhh-------------------------------------hheecCCccC-ccHHHHhhhhh
Confidence                       8889999985                                     7999999996 78899999999


Q ss_pred             ccCcccccccCCCCCCCCCccCCCCcccccccccc
Q psy12252        303 HRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGK  337 (356)
Q Consensus       303 H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~  337 (356)
                      -++||+|+.|.+.|+..+.+++.|.+|.|++||++
T Consensus       277 Cv~cf~Cs~Cdkkl~~K~Kf~E~DmkP~CKkCy~r  311 (332)
T KOG2272|consen  277 CVECFSCSTCDKKLTQKNKFYEFDMKPVCKKCYDR  311 (332)
T ss_pred             ccccccccccccccccccceeeeccchHHHHHHhh
Confidence            99999999999999999877789999999999984

>KOG1701|consensus

Probab=99.97  E-value=2.8e-33  Score=261.19  Aligned_cols=200  Identities=25%  Similarity=0.564  Sum_probs=166.5

Q ss_pred             hhhhhcccccc-CCCCCCCCCCCCCCCCccccce-EEEeCCceeccCCcccccccccccCCCccccCCcccCcccccccc
Q psy12252          3 VKQYKKKLDII-MPFVPAENPKCPACGKSVYAAE-ERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKY   80 (356)
Q Consensus         3 ~~~~~~~~~~~-~~~~~~~~~~C~~C~~~I~~~~-~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~   80 (356)
                      ++..+.+|+.. .+-......+|.+|+|.|++++ .+.|+++.||..||+|..|++.|.+..||..|+++||+.||++..
T Consensus       255 ~~~~e~el~~t~~~p~~~~~~iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~v~~k~~CE~cyq~tl  334 (468)
T KOG1701|consen  255 LWPVEAELEPTEAEPVEDYFGICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQVDGKPYCEGCYQDTL  334 (468)
T ss_pred             CcchhhhcCCCCCChhhhhhhhhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccccccCCcccchHHHHHHH
Confidence            34444555531 1112345679999999999877 466999999999999999999999999999999999999998732


Q ss_pred             CCCCCccCCCcceeecccccccccCCCCcccccCCceecccCcCcccCCCCCCCCCCCCcCCCCcccccccCCCCCcccc
Q psy12252         81 GPKGYGFGGGAGCLSMDAGMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVI  160 (356)
Q Consensus        81 ~~~c~~c~~~~~~~~~~~~~c~~~l~~~~~~~~~~~~~C~~c~~~~~~p~~~~~~~g~~~~~~d~~~~~~~~~~~~~~~~  160 (356)
                                                                                                      
T Consensus       335 --------------------------------------------------------------------------------  334 (468)
T KOG1701|consen  335 --------------------------------------------------------------------------------  334 (468)
T ss_pred             --------------------------------------------------------------------------------
Confidence                                                                                            


Q ss_pred             ccccccCCCCCCCCCCCceEecceeeccCCCcccccccccccCcCcCCCCccccCCCCceecccccccCCcccccccccc
Q psy12252        161 DTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKN  240 (356)
Q Consensus       161 ~~~~~~~~~~~~C~~C~~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~  240 (356)
                                .+|..|+++|++ .++.|+|+.||+.||+|..|++.|++..|....++.+||           ..||.+.
T Consensus       335 ----------ekC~~Cg~~I~d-~iLrA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~C-----------v~dfh~k  392 (468)
T KOG1701|consen  335 ----------EKCNKCGEPIMD-RILRALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYC-----------VPDFHKK  392 (468)
T ss_pred             ----------HHHhhhhhHHHH-HHHHhcccccCCCceEEEEeccccCCccccccCCCceee-----------ehhhhhh
Confidence                      268889999985 457899999999999999999999999888889999999           7788888


Q ss_pred             cCCCcccCCCCCceeecCCCCccccCCCCCCCCCCCCCCCCCCCCCceeecce------EEEeCCcccccCcccccccCC
Q psy12252        241 FGPKGFGYGHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAE------QMISKNRIWHRRCFSCADCHR  314 (356)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e------~v~~~g~~~H~~CF~C~~C~~  314 (356)
                      |++                                     +|+.|+++|.+.+      .|+++|+.||.+|++|..|+.
T Consensus       393 fAP-------------------------------------rCs~C~~PI~P~~G~~etvRvvamdr~fHv~CY~CEDCg~  435 (468)
T KOG1701|consen  393 FAP-------------------------------------RCSVCGNPILPRDGKDETVRVVAMDRDFHVNCYKCEDCGL  435 (468)
T ss_pred             cCc-------------------------------------chhhccCCccCCCCCcceEEEEEccccccccceehhhcCc
Confidence            887                                     7999999998533      356899999999999999999


Q ss_pred             CCCCCC----CccCCCCccccccccccccCCC
Q psy12252        315 SLDSTN----LNDGPDNDIYCRGCYGKNFGPK  342 (356)
Q Consensus       315 ~L~~~~----~~~~~~g~~yC~~c~~~~f~~~  342 (356)
                      .|..+.    -| -.||.++|+.|..++....
T Consensus       436 ~LS~e~e~qgCy-Pld~HllCk~Ch~~Rl~~~  466 (468)
T KOG1701|consen  436 LLSSEEEGQGCY-PLDGHLLCKTCHLKRLQAG  466 (468)
T ss_pred             cccccCCCCcce-eccCceeechhhhhhhccc
Confidence            998332    33 5799999999998876554

>KOG1044|consensus

Probab=99.89  E-value=2.8e-24  Score=207.28  Aligned_cols=226  Identities=24%  Similarity=0.505  Sum_probs=152.2

Q ss_pred             CCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCC-CCCccCCCcceeeccc
Q psy12252         20 ENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGP-KGYGFGGGAGCLSMDA   98 (356)
Q Consensus        20 ~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~-~c~~c~~~~~~~~~~~   98 (356)
                      ....|.+|.+...+ +++.+.++.||..||+|..|+..|+.+.||.++++        +++++ .|..+.+++.+..+  
T Consensus        15 ~~i~c~~c~~kc~g-evlrv~d~~fhi~cf~c~~cg~~la~~gff~k~~~--------~~ygt~~c~~~~~gevvsa~--   83 (670)
T KOG1044|consen   15 QGIKCDKCRKKCSG-EVLRVNDNHFHINCFQCKKCGRNLAEGGFFTKPEN--------RLYGTDDCRAFVEGEVVSTL--   83 (670)
T ss_pred             cceehhhhCCcccc-ceeEeeccccceeeeeccccCCCcccccceecccc--------eeecccchhhhccceeEecc--
Confidence            35689999999885 88999999999999999999999999999998875        33333 22333333333322  


Q ss_pred             ccccccCCCCcccccCCceecccCcCccc-CCCCCCCCCCCCcCCCCcccccccCCCCCccccccccccCCCCCCCCCCC
Q psy12252         99 GMCSKFLDSTNCTEHEKELYCRQCHGRKY-GPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCG  177 (356)
Q Consensus        99 ~~c~~~l~~~~~~~~~~~~~C~~c~~~~~-~p~~~~~~~g~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~  177 (356)
                                ..++|.+.++|..|-...- +.+..  ..|+..+..-+       ..+.+    .+.........|++|+
T Consensus        84 ----------gktyh~~cf~cs~ck~pf~~g~~vt--~~gk~~~c~~c-------~~~~~----~~p~~~~~ps~cagc~  140 (670)
T KOG1044|consen   84 ----------GKTYHPKCFSCSTCKSPFKSGDKVT--FSGKECLCQTC-------SQPMP----VSPAESYGPSTCAGCG  140 (670)
T ss_pred             ----------cceeccccceecccCCCCCCCCeee--ecchhhhhhhh-------cCccc----CCcccccCCccccchh
Confidence                      2334555555555543211 00000  00100000000       00111    0011112345899999


Q ss_pred             ceEecceeeccCCCcccccccccccCcCcCCCCccccCCCCceecccccccCCcccccccccccCCCcccCCCCCceeec
Q psy12252        178 GVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVST  257 (356)
Q Consensus       178 ~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~  257 (356)
                      +.|..+..+.|+++.||+.||+|..|...|.++++  ..+|.+||           ..+|...||.              
T Consensus       141 ~~lk~gq~llald~qwhv~cfkc~~c~~vL~gey~--skdg~pyc-----------e~dy~~~fgv--------------  193 (670)
T KOG1044|consen  141 EELKNGQALLALDKQWHVSCFKCKSCSAVLNGEYM--SKDGVPYC-----------EKDYQAKFGV--------------  193 (670)
T ss_pred             hhhhccceeeeeccceeeeeeehhhhcccccceee--ccCCCcch-----------hhhhhhhcCe--------------
Confidence            99999999999999999999999999999988765  48999999           6667666765              


Q ss_pred             CCCCccccCCCCCCCCCCCCCCCCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccc
Q psy12252        258 SGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIY  330 (356)
Q Consensus       258 ~~~~~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~y  330 (356)
                                             +|..|.+-|. |.++.|.|++||+.|-+|+.|+.++..+.-++.....+|
T Consensus       194 -----------------------kc~~c~~fis-gkvLqag~kh~HPtCARCsRCgqmF~eGEEMYlQGs~iW  242 (670)
T KOG1044|consen  194 -----------------------KCEECEKFIS-GKVLQAGDKHFHPTCARCSRCGQMFGEGEEMYLQGSEIW  242 (670)
T ss_pred             -----------------------ehHHhhhhhh-hhhhhccCcccCcchhhhhhhccccccchheeecccccc
Confidence                                   5888888886 567778888888888888888888887765443334444

>KOG2272|consensus

Probab=99.89  E-value=1.9e-25  Score=195.21  Aligned_cols=231  Identities=21%  Similarity=0.433  Sum_probs=168.1

Q ss_pred             ccccccccccCC-CccccCCcccCccccccccCCCCCccCCCcceeecccccccccCCCCcccccCCceecccCcCcccC
Q psy12252         50 KCSMCSKFLDST-NCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGMCSKFLDSTNCTEHEKELYCRQCHGRKYG  128 (356)
Q Consensus        50 ~C~~C~~~L~~~-~~~~~~g~~yC~~cy~~~~~~~c~~c~~~~~~~~~~~~~c~~~l~~~~~~~~~~~~~C~~c~~~~~~  128 (356)
                      .|..|...++.. .++..+|++|..+|+.                    ++.|-.||.+..|+..+++.||+.+++.+|+
T Consensus        14 ~C~RC~~gF~~~e~~vns~ge~wH~~CFv--------------------CAQCf~pf~~g~~~efEgRkYCEhDF~~Lfa   73 (332)
T KOG2272|consen   14 VCERCRDGFEPAEKIVNSNGELWHEQCFV--------------------CAQCFRPFPDGIFYEFEGRKYCEHDFHVLFA   73 (332)
T ss_pred             HHHHHhccCCchhhhhccCchhhHHHHHH--------------------HHHhcCcCCCceeEEecCcccccccchhhhc
Confidence            567777777655 6888899999888874                    2347788999999999999999999999998


Q ss_pred             CCCCCCCCCCCcCCCCcccccccCCCCCccccccccccCCCCCCCCCCCceEecceeeccCCCcccccccccccCcCcCC
Q psy12252        129 PKGYGFGGGAGCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLD  208 (356)
Q Consensus       129 p~~~~~~~g~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~  208 (356)
                      |                                          .|+.|++-|. |.+|.+++.+||+.||+|..|++.|.
T Consensus        74 P------------------------------------------cC~kC~EFii-GrVikamnnSwHp~CF~Cd~Cn~~La  110 (332)
T KOG2272|consen   74 P------------------------------------------CCGKCGEFII-GRVIKAMNNSWHPACFRCDLCNKHLA  110 (332)
T ss_pred             h------------------------------------------hhcccccchh-hHHHHhhccccCcccchhHHHHHHHh
Confidence            6                                          5888899888 67789999999999999999999999


Q ss_pred             CCccccCCCCceecccccccCC------cccccccccccCCCcccC----CCCCceeecCCCCccccCCCCCCCC-----
Q psy12252        209 SINACDGPDKDIYCKTCYGKKH------KYCKACYGKNFGPKGFGY----GHSPTLVSTSGESTMQFYDARPTSG-----  273 (356)
Q Consensus       209 ~~~~~~~~~g~~~C~~c~~~~~------~~C~~c~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~p~~g-----  273 (356)
                      +..|+ ...|..+|..|..+..      ..|..|..-+-.. -..+    =|+-+...+.-..- ....++...|     
T Consensus       111 d~gf~-rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~~-~l~fr~d~yH~yHFkCt~C~ke-L~sdaRevk~eLyCl  187 (332)
T KOG2272|consen  111 DQGFY-RNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDEQ-PLTFRGDPYHPYHFKCTTCGKE-LTSDAREVKGELYCL  187 (332)
T ss_pred             hhhhH-hhcchHHhhhhhhhhcccccceeehhhhhhhcccc-cccccCCCCCccceeccccccc-ccchhhhhccceecc
Confidence            87765 4799999988887743      3444443221100 0000    01111111110000 0000111111     


Q ss_pred             --CCCCCCCCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCCccccCC
Q psy12252        274 --LKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCGFGL  348 (356)
Q Consensus       274 --~~~~~~~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~~~~~~  348 (356)
                        ....+..+|..|.+||. +..|.++|+.||.++|+|+.|.+++-+-..+ ++.|.+||+.+|.+|||..|..+..
T Consensus       188 rChD~mgipiCgaC~rpIe-ervi~amgKhWHveHFvCa~CekPFlGHrHY-EkkGlaYCe~h~~qLfG~~CF~C~~  262 (332)
T KOG2272|consen  188 RCHDKMGIPICGACRRPIE-ERVIFAMGKHWHVEHFVCAKCEKPFLGHRHY-EKKGLAYCETHYHQLFGNLCFICNR  262 (332)
T ss_pred             ccccccCCcccccccCchH-HHHHHHhccccchhheeehhcCCcccchhhh-hhcCchhHHHHHHHHhhhhheecCC
Confidence              01245568999999997 3556799999999999999999999888776 6999999999999999999886665

>KOG1703|consensus

Probab=99.88  E-value=1e-23  Score=210.47  Aligned_cols=178  Identities=26%  Similarity=0.614  Sum_probs=154.7

Q ss_pred             CCCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCCccCCCcceeecc
Q psy12252         18 PAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMD   97 (356)
Q Consensus        18 ~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~~c~~~~~~~~~~   97 (356)
                      ....++|..|+..|.+...++++++.||+.+|.|..|...|....+...+|.+||.+||.+.+.+.              
T Consensus       300 ~~~~p~c~~c~~~i~~~~~i~~~~~~~h~~~~~c~~~~~~~~~~~~~~~~g~~~c~~~~~~~~~p~--------------  365 (479)
T KOG1703|consen  300 NVTRPLCLSCNQKIRSVKVIVALGKEWHPEHFSCEVCAIVILDGGPRELDGKILCHECFHAPFRPN--------------  365 (479)
T ss_pred             ccccccccccccCcccceeEeeccccccccceeeccccccccCCCccccCCCccHHHHHHHhhCcc--------------
Confidence            356699999999999768889999999999999999999999998999999999999998877654              


Q ss_pred             cccccccCCCCcccccCCceecccCcCcccCCCCCCCCCCCCcCCCCcccccccCCCCCccccccccccCCCCCCCCCCC
Q psy12252         98 AGMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCG  177 (356)
Q Consensus        98 ~~~c~~~l~~~~~~~~~~~~~C~~c~~~~~~p~~~~~~~g~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~  177 (356)
                                                                                                 |.+|.
T Consensus       366 ---------------------------------------------------------------------------C~~C~  370 (479)
T KOG1703|consen  366 ---------------------------------------------------------------------------CKRCL  370 (479)
T ss_pred             ---------------------------------------------------------------------------ccccC
Confidence                                                                                       66677


Q ss_pred             ceEecceeeccCCCcccccccccccCcCcCCCCccccCCCCceecccccccCCcccccccccccCCCcccCCCCCceeec
Q psy12252        178 GVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVST  257 (356)
Q Consensus       178 ~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~  257 (356)
                      .+|. ++.|.|++..||++||.|..|+++|....++ ..++.+||           ..||..++++              
T Consensus       371 ~~i~-~~~v~a~~~~wH~~cf~C~~C~~~~~~~~~~-~~~~~pyc-----------e~~~~~~~~~--------------  423 (479)
T KOG1703|consen  371 LPIL-EEGVCALGRLWHPECFVCADCGKPLKNSSFF-ESDGEPYC-----------EDHYKKLFTT--------------  423 (479)
T ss_pred             CchH-HhHhhhccCeechhceeeecccCCCCCCccc-ccCCccch-----------hhhHhhhccc--------------
Confidence            7777 4567888999999999999999999988776 48999999           6666666654              


Q ss_pred             CCCCccccCCCCCCCCCCCCCCCCCCCCCceeecceE-EEeCCcccccCcccccccCCCCCCCCCccCCCCcccccccc
Q psy12252        258 SGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQ-MISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCY  335 (356)
Q Consensus       258 ~~~~~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e~-v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~  335 (356)
                                             .|..|.++|..+.. +.+++..||..||+|+.|.+.|.++.|+ ...++|+|.+|+
T Consensus       424 -----------------------~~~~~~~p~~~~~~~ie~~~~~~h~~~F~c~~c~~~l~~~~~~-~~~~~p~c~~~~  478 (479)
T KOG1703|consen  424 -----------------------KCDYCKKPVEFGSRQIEADGSPFHGDCFRCANCMKKLTKKTFF-ETLDKPLCQKHF  478 (479)
T ss_pred             -----------------------cchhccchhHhhhhHhhccCccccccceehhhhhccccCCcee-ecCCccccccCC
Confidence                                   68999998876554 5799999999999999999999999988 589999999986

>KOG1701|consensus

Probab=99.85  E-value=3.8e-23  Score=193.53  Aligned_cols=126  Identities=28%  Similarity=0.661  Sum_probs=109.8

Q ss_pred             CCCCCCCceEecce-eeccCCCcccccccccccCcCcCCCCccccCCCCceecccccccCCcccccccccccCCCcccCC
Q psy12252        171 KGCPRCGGVVFAAE-QVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYG  249 (356)
Q Consensus       171 ~~C~~C~~~I~~~~-~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~~~~~~~~~~  249 (356)
                      .+|.+|++.|.... .+.|+++.||..||+|..|++.|.+..|+. .++++||+.           ||....        
T Consensus       275 ~iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~-v~~k~~CE~-----------cyq~tl--------  334 (468)
T KOG1701|consen  275 GICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQ-VDGKPYCEG-----------CYQDTL--------  334 (468)
T ss_pred             hhhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccccc-cCCcccchH-----------HHHHHH--------
Confidence            48999999999654 468999999999999999999999988875 899999954           444322        


Q ss_pred             CCCceeecCCCCccccCCCCCCCCCCCCCCCCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCcc
Q psy12252        250 HSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDI  329 (356)
Q Consensus       250 ~~~~~~~~~~~~~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~  329 (356)
                                                    .+|..|+++|.+ ..|+|+|+.||+.||+|..|++.|++..|..+.++++
T Consensus       335 ------------------------------ekC~~Cg~~I~d-~iLrA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v  383 (468)
T KOG1701|consen  335 ------------------------------EKCNKCGEPIMD-RILRALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNV  383 (468)
T ss_pred             ------------------------------HHHhhhhhHHHH-HHHHhcccccCCCceEEEEeccccCCccccccCCCce
Confidence                                          269999999983 4468999999999999999999999999998889999


Q ss_pred             ccccccccccCCCccccC
Q psy12252        330 YCRGCYGKNFGPKGCGFG  347 (356)
Q Consensus       330 yC~~c~~~~f~~~~~~~~  347 (356)
                      ||..||.++||+||.-++
T Consensus       384 ~Cv~dfh~kfAPrCs~C~  401 (468)
T KOG1701|consen  384 YCVPDFHKKFAPRCSVCG  401 (468)
T ss_pred             eeehhhhhhcCcchhhcc
Confidence            999999999999987554

>KOG1703|consensus

Probab=99.73  E-value=2.6e-18  Score=171.66  Aligned_cols=182  Identities=23%  Similarity=0.422  Sum_probs=151.3

Q ss_pred             CCCCCCccccceEEEeCCceeccCCcccc-cccccccCCCccccCCcccCccccccccCCCCCccCCCcceeeccccccc
Q psy12252         24 CPACGKSVYAAEERVAGGYKFHKMCFKCS-MCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGMCS  102 (356)
Q Consensus        24 C~~C~~~I~~~~~i~~~~~~~H~~CF~C~-~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~~c~~~~~~~~~~~~~c~  102 (356)
                      |+.+..+|.. ..+.+....||...|+|. .+...|....++.+.+..++..+|...+.                     
T Consensus       246 ~~~~~~p~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------------  303 (479)
T KOG1703|consen  246 SASMDSPECQ-PLVSAPRPASEGLHMKVEKELPLLLVESEALKKLREEEKPAEYHNVTR---------------------  303 (479)
T ss_pred             CcccCCCccC-cceecccccccccccccccccchhhccccccccccccccccccccccc---------------------
Confidence            6777777765 455677888999998888 78888888888888888877776654222                     


Q ss_pred             ccCCCCcccccCCceecccCcCcccCCCCCCCCCCCCcCCCCcccccccCCCCCccccccccccCCCCCCCCCCCceEec
Q psy12252        103 KFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFA  182 (356)
Q Consensus       103 ~~l~~~~~~~~~~~~~C~~c~~~~~~p~~~~~~~g~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~  182 (356)
                                                                                          +.|..|.+.|..
T Consensus       304 --------------------------------------------------------------------p~c~~c~~~i~~  315 (479)
T KOG1703|consen  304 --------------------------------------------------------------------PLCLSCNQKIRS  315 (479)
T ss_pred             --------------------------------------------------------------------ccccccccCccc
Confidence                                                                                367888888885


Q ss_pred             ceeeccCCCcccccccccccCcCcCCCCccccCCCCceecccccccCCcccccccccccCCCcccCCCCCceeecCCCCc
Q psy12252        183 AEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVSTSGEST  262 (356)
Q Consensus       183 ~~~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~~~  262 (356)
                      ...+.++++.||+.+|.|..|...+....+. ..+|.+||           ..|+.+.+.+                   
T Consensus       316 ~~~i~~~~~~~h~~~~~c~~~~~~~~~~~~~-~~~g~~~c-----------~~~~~~~~~p-------------------  364 (479)
T KOG1703|consen  316 VKVIVALGKEWHPEHFSCEVCAIVILDGGPR-ELDGKILC-----------HECFHAPFRP-------------------  364 (479)
T ss_pred             ceeEeeccccccccceeeccccccccCCCcc-ccCCCccH-----------HHHHHHhhCc-------------------
Confidence            4778999999999999999999999887764 58999999           6676666655                   


Q ss_pred             cccCCCCCCCCCCCCCCCCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCC
Q psy12252        263 MQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPK  342 (356)
Q Consensus       263 ~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~  342 (356)
                                        .|.+|.++|. ++.|.+.++.||++||.|..|++.|.+..|+ ..+|.|||+.||.++|+++
T Consensus       365 ------------------~C~~C~~~i~-~~~v~a~~~~wH~~cf~C~~C~~~~~~~~~~-~~~~~pyce~~~~~~~~~~  424 (479)
T KOG1703|consen  365 ------------------NCKRCLLPIL-EEGVCALGRLWHPECFVCADCGKPLKNSSFF-ESDGEPYCEDHYKKLFTTK  424 (479)
T ss_pred             ------------------cccccCCchH-HhHhhhccCeechhceeeecccCCCCCCccc-ccCCccchhhhHhhhcccc
Confidence                              6999999998 5888888999999999999999999999988 5999999999999999988


Q ss_pred             cccc
Q psy12252        343 GCGF  346 (356)
Q Consensus       343 ~~~~  346 (356)
                      |..+
T Consensus       425 ~~~~  428 (479)
T KOG1703|consen  425 CDYC  428 (479)
T ss_pred             chhc
Confidence            7544

>KOG4577|consensus

Probab=99.71  E-value=1.5e-19  Score=161.13  Aligned_cols=134  Identities=23%  Similarity=0.419  Sum_probs=110.4

Q ss_pred             hhccccccCCCCCCCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCC
Q psy12252          6 YKKKLDIIMPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGY   85 (356)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~   85 (356)
                      +..-|-...+|...+.++|+.|.+.|.+.-++.++++.||..|++|+.|..+|.+. .|.++|.+||+++|.++|+++|.
T Consensus        18 ~~~lLs~~~df~~~eip~CagC~q~IlDrFilKvl~R~wHs~CLkCs~C~~qL~dr-CFsR~~s~yCkedFfKrfGTKCs   96 (383)
T KOG4577|consen   18 LPGLLSPQEDFSNVEIPICAGCDQHILDRFILKVLDRHWHSSCLKCSDCHDQLADR-CFSREGSVYCKEDFFKRFGTKCS   96 (383)
T ss_pred             ChhhccccccccccccccccchHHHHHHHHHHHHHhhhhhhhhcchhhhhhHHHHH-HhhcCCceeehHHHHHHhCCcch
Confidence            33445555567777899999999999976677799999999999999999999976 68899999999999999988765


Q ss_pred             ccCCCcceeecccccccccCCCCcccccCCceecccCcCcccCCCCCCCCCCCCcCCCCcccccccCCCCCccccccccc
Q psy12252         86 GFGGGAGCLSMDAGMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVIDTAKI  165 (356)
Q Consensus        86 ~c~~~~~~~~~~~~~c~~~l~~~~~~~~~~~~~C~~c~~~~~~p~~~~~~~g~~~~~~d~~~~~~~~~~~~~~~~~~~~~  165 (356)
                      +|.                                                                             
T Consensus        97 aC~-----------------------------------------------------------------------------   99 (383)
T KOG4577|consen   97 ACQ-----------------------------------------------------------------------------   99 (383)
T ss_pred             hhc-----------------------------------------------------------------------------
Confidence            554                                                                             


Q ss_pred             cCCCCCCCCCCCceEecceee-ccCCCcccccccccccCcCcCCCC-ccccCCCCceecccccccC
Q psy12252        166 KAAPGKGCPRCGGVVFAAEQV-LAKGSEWHRKCFKCRDCNKTLDSI-NACDGPDKDIYCKTCYGKK  229 (356)
Q Consensus       166 ~~~~~~~C~~C~~~I~~~~~i-~a~~~~~H~~CF~C~~C~~~l~~~-~~~~~~~g~~~C~~c~~~~  229 (356)
                                  ..|.+..+| .|.+.+||..||.|..|++.|..+ .|+...|++++|+++|..-
T Consensus       100 ------------~GIpPtqVVRkAqd~VYHl~CF~C~iC~R~L~TGdEFYLmeD~rLvCK~DYE~A  153 (383)
T KOG4577|consen  100 ------------EGIPPTQVVRKAQDFVYHLHCFACFICKRQLATGDEFYLMEDARLVCKDDYETA  153 (383)
T ss_pred             ------------CCCChHHHHHHhhcceeehhhhhhHhhhcccccCCeeEEeccceeehhhhHHHH
Confidence                        444555656 488999999999999999999876 5666689999998877653

>KOG4577|consensus

Probab=99.71  E-value=1.6e-19  Score=160.90  Aligned_cols=125  Identities=22%  Similarity=0.523  Sum_probs=111.3

Q ss_pred             CCCCCCCCCceEecceeeccCCCcccccccccccCcCcCCCCccccCCCCceecccccccCCcccccccccccCCCcccC
Q psy12252        169 PGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGY  248 (356)
Q Consensus       169 ~~~~C~~C~~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~~~~~~~~~  248 (356)
                      ..++|++|.+.|.+..++.++++.||..|++|+.|..+|.+..|  .+++.+||           +.+|.+.||+     
T Consensus        32 eip~CagC~q~IlDrFilKvl~R~wHs~CLkCs~C~~qL~drCF--sR~~s~yC-----------kedFfKrfGT-----   93 (383)
T KOG4577|consen   32 EIPICAGCDQHILDRFILKVLDRHWHSSCLKCSDCHDQLADRCF--SREGSVYC-----------KEDFFKRFGT-----   93 (383)
T ss_pred             ccccccchHHHHHHHHHHHHHhhhhhhhhcchhhhhhHHHHHHh--hcCCceee-----------hHHHHHHhCC-----
Confidence            44799999999999888899999999999999999999999877  48999999           8899999997     


Q ss_pred             CCCCceeecCCCCccccCCCCCCCCCCCCCCCCCCCCCceeecceEEE-eCCcccccCcccccccCCCCCCCC-CccCCC
Q psy12252        249 GHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMI-SKNRIWHRRCFSCADCHRSLDSTN-LNDGPD  326 (356)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e~v~-~~g~~~H~~CF~C~~C~~~L~~~~-~~~~~~  326 (356)
                                                      +|..|...|.+.++|+ |.+..||.+||.|..|+++|..++ |+.+.|
T Consensus        94 --------------------------------KCsaC~~GIpPtqVVRkAqd~VYHl~CF~C~iC~R~L~TGdEFYLmeD  141 (383)
T KOG4577|consen   94 --------------------------------KCSACQEGIPPTQVVRKAQDFVYHLHCFACFICKRQLATGDEFYLMED  141 (383)
T ss_pred             --------------------------------cchhhcCCCChHHHHHHhhcceeehhhhhhHhhhcccccCCeeEEecc
Confidence                                            5999999999988884 899999999999999999999887 666678


Q ss_pred             CccccccccccccCCCc
Q psy12252        327 NDIYCRGCYGKNFGPKG  343 (356)
Q Consensus       327 g~~yC~~c~~~~f~~~~  343 (356)
                      +++.|+.+|+..=...|
T Consensus       142 ~rLvCK~DYE~Ak~k~~  158 (383)
T KOG4577|consen  142 ARLVCKDDYETAKQKHC  158 (383)
T ss_pred             ceeehhhhHHHHHhccc
Confidence            99999999997533333

>KOG1044|consensus

Probab=99.64  E-value=1e-16  Score=155.37  Aligned_cols=173  Identities=23%  Similarity=0.475  Sum_probs=115.5

Q ss_pred             CCCCCCCceEecceeeccCCCcccccccccccCcCcCCCCccccCCCCceecccccccCCccccc--ccccccCCCcccC
Q psy12252        171 KGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKA--CYGKNFGPKGFGY  248 (356)
Q Consensus       171 ~~C~~C~~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C~~c~~~~~~~C~~--c~~~~~~~~~~~~  248 (356)
                      ..|..|.+.-. ++++.+.++.||..||.|..|+..|+.+-|+...+..+|+.....+ +..++.  =..+.+.++++..
T Consensus        17 i~c~~c~~kc~-gevlrv~d~~fhi~cf~c~~cg~~la~~gff~k~~~~~ygt~~c~~-~~~gevvsa~gktyh~~cf~c   94 (670)
T KOG1044|consen   17 IKCDKCRKKCS-GEVLRVNDNHFHINCFQCKKCGRNLAEGGFFTKPENRLYGTDDCRA-FVEGEVVSTLGKTYHPKCFSC   94 (670)
T ss_pred             eehhhhCCccc-cceeEeeccccceeeeeccccCCCcccccceecccceeecccchhh-hccceeEecccceecccccee
Confidence            46889998876 7889999999999999999999999988776555667787411100 000000  0001112222211


Q ss_pred             CC------CCceeecCCCCccccCC--CCCCCCCCCCCCCCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCC
Q psy12252        249 GH------SPTLVSTSGESTMQFYD--ARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTN  320 (356)
Q Consensus       249 ~~------~~~~~~~~~~~~~~~~~--~~p~~g~~~~~~~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~  320 (356)
                      .-      +-..++.++........  ..|.+.....+...|++|++.|..|+.+.|+++.||..||+|..|...|.+++
T Consensus        95 s~ck~pf~~g~~vt~~gk~~~c~~c~~~~~~~p~~~~~ps~cagc~~~lk~gq~llald~qwhv~cfkc~~c~~vL~gey  174 (670)
T KOG1044|consen   95 STCKSPFKSGDKVTFSGKECLCQTCSQPMPVSPAESYGPSTCAGCGEELKNGQALLALDKQWHVSCFKCKSCSAVLNGEY  174 (670)
T ss_pred             cccCCCCCCCCeeeecchhhhhhhhcCcccCCcccccCCccccchhhhhhccceeeeeccceeeeeeehhhhccccccee
Confidence            10      11122333333222221  11111111224568999999999999999999999999999999999999885


Q ss_pred             CccCCCCccccccccccccCCCccccC
Q psy12252        321 LNDGPDNDIYCRGCYGKNFGPKGCGFG  347 (356)
Q Consensus       321 ~~~~~~g~~yC~~c~~~~f~~~~~~~~  347 (356)
                      .  .+||.|||+.||++.||.||+.+.
T Consensus       175 ~--skdg~pyce~dy~~~fgvkc~~c~  199 (670)
T KOG1044|consen  175 M--SKDGVPYCEKDYQAKFGVKCEECE  199 (670)
T ss_pred             e--ccCCCcchhhhhhhhcCeehHHhh
Confidence            3  599999999999999999987543

>KOG1700|consensus

Probab=99.48  E-value=1.4e-14  Score=128.22  Aligned_cols=167  Identities=28%  Similarity=0.595  Sum_probs=123.1

Q ss_pred             CCCCCCCceEecceeeccCCCcccccccccccCcCcCCCCccccCCCCceecccccccCCcccccccccccCCCcccCCC
Q psy12252        171 KGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGH  250 (356)
Q Consensus       171 ~~C~~C~~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~~~~~~~~~~~  250 (356)
                      ..|..|++.++..+.+...|..||..||.|..|.+.|....+. ..++.+||           ..++..++++++.+.+.
T Consensus         8 ~kc~~c~k~vy~~e~~~~~g~~~hk~c~~c~~~~k~l~~~~~~-~~e~~~yc-----------~~~~~~~~~~~~~~~~~   75 (200)
T KOG1700|consen    8 DKCNACGKTVYFVEKVQKDGVDFHKECFKCEKCKKTLTLSGYS-EHEGVPYC-----------KNCHVAQFGPKGGGFGK   75 (200)
T ss_pred             chhhhccCcchHHHHHhccCcchhhhHHhcccccccccccccc-cccccccc-----------ccchHhhhCcccccccc
Confidence            4799999999988888888999999999999999999987765 48999999           66677788887655443


Q ss_pred             C----CceeecCCCC-ccccCCCCCCCCCCCCCCCCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCC
Q psy12252        251 S----PTLVSTSGES-TMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGP  325 (356)
Q Consensus       251 ~----~~~~~~~~~~-~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~  325 (356)
                      .    ..+..+..+. .... ..........+....|.+|.+.+++.|.++..+..||..||+|+.|+..|..+.+. ..
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~g~~~~c~~c~k~vy~~Ek~~~~~~~~hk~cfrc~~~~~~ls~~~~~-~~  153 (200)
T KOG1700|consen   76 GFQKAGGLGKDGKSLNESKP-NQSAKFQVFAGEKEKCARCQKTVYPLEKVTGNGLEFHKSCFRCTHCGKKLSPKNYA-AL  153 (200)
T ss_pred             cccccCCCCccccccccccc-ccchhHHhhhccccccccccceeeehHHHhhhhhhhhhhheeecccccccCCcchh-hc
Confidence            1    1111111100 0000 00011122345667999999999999999999999999999999999999999987 57


Q ss_pred             CCcccccc-ccccccCCCccccCCCCC
Q psy12252        326 DNDIYCRG-CYGKNFGPKGCGFGLGAG  351 (356)
Q Consensus       326 ~g~~yC~~-c~~~~f~~~~~~~~~~~~  351 (356)
                      ++.+||.. +++..+++..++..+.++
T Consensus       154 ~g~l~~~~~~~~~~~~~~~~~~~~~~~  180 (200)
T KOG1700|consen  154 EGVLYCKHHFAQLFKGKGNYNEGFGAR  180 (200)
T ss_pred             CCccccchhhheeecCCCcccccchhh
Confidence            88888765 555577888888776544

>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=99.46  E-value=2.9e-14  Score=101.05  Aligned_cols=57  Identities=37%  Similarity=0.853  Sum_probs=53.1

Q ss_pred             CCCCCCccccceEE-EeCCceeccCCcccccccccccCCCccccCCcccCcccccccc
Q psy12252         24 CPACGKSVYAAEER-VAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKY   80 (356)
Q Consensus        24 C~~C~~~I~~~~~i-~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~   80 (356)
                      |.+|+++|.+++.+ .++|+.||++||+|+.|+++|.+..|++.+|++||.+||.++|
T Consensus         1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~f   58 (58)
T PF00412_consen    1 CARCGKPIYGTEIVIKAMGKFWHPECFKCSKCGKPLNDGDFYEKDGKPYCKDCYQKRF   58 (58)
T ss_dssp             BTTTSSBESSSSEEEEETTEEEETTTSBETTTTCBTTTSSEEEETTEEEEHHHHHHHT
T ss_pred             CCCCCCCccCcEEEEEeCCcEEEccccccCCCCCccCCCeeEeECCEEECHHHHhhhC
Confidence            78999999988766 5999999999999999999999999999999999999998865

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=99.40  E-value=8e-14  Score=98.79  Aligned_cols=57  Identities=35%  Similarity=1.005  Sum_probs=52.5

Q ss_pred             CCCCCceeecceEE-EeCCcccccCcccccccCCCCCCCCCccCCCCcccccccccccc
Q psy12252        282 CPRCGFVVYAAEQM-ISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNF  339 (356)
Q Consensus       282 C~~C~~~I~~~e~v-~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f  339 (356)
                      |++|+++|.+++.+ .+.|+.||++||+|+.|+++|.++.++ ..+|++||+.||.++|
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            78999999987776 599999999999999999999999866 5999999999999987

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

>KOG1700|consensus

Probab=99.36  E-value=3.9e-13  Score=118.95  Aligned_cols=152  Identities=38%  Similarity=0.792  Sum_probs=113.5

Q ss_pred             CCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCCccCCC---cceee
Q psy12252         19 AENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGG---AGCLS   95 (356)
Q Consensus        19 ~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~~c~~~---~~~~~   95 (356)
                      .....|..|++.|+-.+.+...|..||+.||.|..|.+.|....+..+++.+||+.+|...++++-...+++   .+...
T Consensus         5 ~~~~kc~~c~k~vy~~e~~~~~g~~~hk~c~~c~~~~k~l~~~~~~~~e~~~yc~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (200)
T KOG1700|consen    5 GTTDKCNACGKTVYFVEKVQKDGVDFHKECFKCEKCKKTLTLSGYSEHEGVPYCKNCHVAQFGPKGGGFGKGFQKAGGLG   84 (200)
T ss_pred             cccchhhhccCcchHHHHHhccCcchhhhHHhccccccccccccccccccccccccchHhhhCcccccccccccccCCCC
Confidence            345689999999998888888999999999999999999999999999999999999888888864433321   00000


Q ss_pred             cccccccccCCCCcccccCCceecccCcCcccCCCCCCCCCCCCcCCCCcccccccCCCCCccccccccccCCCCCCCCC
Q psy12252         96 MDAGMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPR  175 (356)
Q Consensus        96 ~~~~~c~~~l~~~~~~~~~~~~~C~~c~~~~~~p~~~~~~~g~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~  175 (356)
                                                                ....+.+...     +.    ......+.......|..
T Consensus        85 ------------------------------------------~~~~~~~~~~-----~~----~~~~~~~~~g~~~~c~~  113 (200)
T KOG1700|consen   85 ------------------------------------------KDGKSLNESK-----PN----QSAKFQVFAGEKEKCAR  113 (200)
T ss_pred             ------------------------------------------cccccccccc-----cc----cchhHHhhhcccccccc
Confidence                                                      0000000000     00    00112234455678999


Q ss_pred             CCceEecceeeccCCCcccccccccccCcCcCCCCccccCCCCceec
Q psy12252        176 CGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYC  222 (356)
Q Consensus       176 C~~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C  222 (356)
                      |.+.+++.+.+...+..||..||+|+.|+..|+.+.+. ...+.+||
T Consensus       114 c~k~vy~~Ek~~~~~~~~hk~cfrc~~~~~~ls~~~~~-~~~g~l~~  159 (200)
T KOG1700|consen  114 CQKTVYPLEKVTGNGLEFHKSCFRCTHCGKKLSPKNYA-ALEGVLYC  159 (200)
T ss_pred             ccceeeehHHHhhhhhhhhhhheeecccccccCCcchh-hcCCcccc
Confidence            99999998888999999999999999999999988775 47888888

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

Probab=98.60  E-value=3.5e-08  Score=63.46  Aligned_cols=37  Identities=43%  Similarity=0.791  Sum_probs=33.5

Q ss_pred             CCCCCCCccccc-eEEEeCCceeccCCccccccccccc
Q psy12252         23 KCPACGKSVYAA-EERVAGGYKFHKMCFKCSMCSKFLD   59 (356)
Q Consensus        23 ~C~~C~~~I~~~-~~i~~~~~~~H~~CF~C~~C~~~L~   59 (356)
                      +|..|+++|.++ ..+.++++.||++||+|..|+++|.
T Consensus         1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L~   38 (39)
T smart00132        1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPLG   38 (39)
T ss_pred             CccccCCcccCCcEEEEeCCccccccCCCCcccCCcCc
Confidence            589999999987 5677899999999999999999986

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=98.55  E-value=5.3e-08  Score=62.58  Aligned_cols=37  Identities=27%  Similarity=0.855  Sum_probs=33.0

Q ss_pred             CCCCCCceeecc-eEEEeCCcccccCcccccccCCCCC
Q psy12252        281 GCPRCGFVVYAA-EQMISKNRIWHRRCFSCADCHRSLD  317 (356)
Q Consensus       281 ~C~~C~~~I~~~-e~v~~~g~~~H~~CF~C~~C~~~L~  317 (356)
                      +|.+|+++|.++ ..+.+.++.||++||+|..|+++|.
T Consensus         1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L~   38 (39)
T smart00132        1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPLG   38 (39)
T ss_pred             CccccCCcccCCcEEEEeCCccccccCCCCcccCCcCc
Confidence            489999999976 5567899999999999999999985

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

>KOG1702|consensus

Probab=97.61  E-value=6.3e-06  Score=71.17  Aligned_cols=60  Identities=32%  Similarity=0.778  Sum_probs=54.4

Q ss_pred             CCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCC
Q psy12252        281 GCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGP  341 (356)
Q Consensus       281 ~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~  341 (356)
                      .|..|++.+++.|.|..+++.||..||+|..|+..|+...+- ..|.+|||..+|.+..++
T Consensus         6 n~~~cgk~vYPvE~v~cldk~whk~cfkce~c~mtlnmKnyK-gy~kkpycn~hYpkq~at   65 (264)
T KOG1702|consen    6 NREDCGKTVYPVEEVKCLDKVWHKQCFKCEVCGMTLNMKNYK-GYDKKPYCNPHYPKQVAT   65 (264)
T ss_pred             hhhhhccccccHHHHhhHHHHHHHHhheeeeccCChhhhhcc-ccccCCCcCcccccceee
Confidence            589999999999999999999999999999999999998876 379999999999987654

>KOG1702|consensus

Probab=97.34  E-value=2.4e-05  Score=67.65  Aligned_cols=61  Identities=31%  Similarity=0.596  Sum_probs=55.1

Q ss_pred             CCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccC
Q psy12252         21 NPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYG   81 (356)
Q Consensus        21 ~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~   81 (356)
                      +..|..|++.++..+.+.-+++.||..||+|..|+-+|.-..|--.+.++||..+|....+
T Consensus         4 k~n~~~cgk~vYPvE~v~cldk~whk~cfkce~c~mtlnmKnyKgy~kkpycn~hYpkq~a   64 (264)
T KOG1702|consen    4 KCNREDCGKTVYPVEEVKCLDKVWHKQCFKCEVCGMTLNMKNYKGYDKKPYCNPHYPKQVA   64 (264)
T ss_pred             cchhhhhccccccHHHHhhHHHHHHHHhheeeeccCChhhhhccccccCCCcCccccccee
Confidence            4568899999999888889999999999999999999998888888999999999987654

>KOG0490|consensus

Probab=96.37  E-value=0.00047  Score=62.46  Aligned_cols=114  Identities=23%  Similarity=0.526  Sum_probs=82.2

Q ss_pred             CCceEecceeeccCCCcccccccccccCcCcCC--CCccccCCCCceecccccccCCcccccccccccCCCcccCCCCCc
Q psy12252        176 CGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLD--SINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPT  253 (356)
Q Consensus       176 C~~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~--~~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~~~~~~~~~~~~~~  253 (356)
                      |+..|.+...+.+.+..||..|..|..|...+.  ...+  ..+|..||           ...+...+.           
T Consensus         2 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~g~~~~-----------~~d~~~~~~-----------   57 (235)
T KOG0490|consen    2 CGRQILDRYLLRVLDRYWHASCLKCAECDNPLGVGDTCF--SKDGSIYC-----------KRDYQREFK-----------   57 (235)
T ss_pred             CCccccchHHhhcccHHHHHHHHhhhhhcchhccCCCcc--cCCCcccc-----------cccchhhhh-----------
Confidence            566677666666779999999999999999997  3333  34999999           444443111           


Q ss_pred             eeecCCCCccccCCCCCCCCCCCCCCCCCCCCCceeecceEE-EeCCcccccCcccccccCCCCCCCC-CccCCCCcccc
Q psy12252        254 LVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQM-ISKNRIWHRRCFSCADCHRSLDSTN-LNDGPDNDIYC  331 (356)
Q Consensus       254 ~~~~~~~~~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e~v-~~~g~~~H~~CF~C~~C~~~L~~~~-~~~~~~g~~yC  331 (356)
                                              ...+|.+|...+...|.| .+..+. |..||.|..|...+.... +.+...-+.+|
T Consensus        58 ------------------------~~~rr~rt~~~~~ql~~ler~f~~~-h~Pd~~~r~~la~~~~~~e~rVqvwFqnrr  112 (235)
T KOG0490|consen   58 ------------------------FSKRCARCKFTISQLDELERAFEKV-HLPCFACRECLALLLTGDEFRVQVWFQNRR  112 (235)
T ss_pred             ------------------------ccccccCCCCCcCHHHHHHHhhcCC-CcCccchHHHHhhcCCCCeeeeehhhhhhc
Confidence                                    113799999999766665 467777 999999999999766555 44334558888


Q ss_pred             ccccccc
Q psy12252        332 RGCYGKN  338 (356)
Q Consensus       332 ~~c~~~~  338 (356)
                      .+++.+.
T Consensus       113 ak~r~~~  119 (235)
T KOG0490|consen  113 AKDRKEE  119 (235)
T ss_pred             Hhhhhhh
Confidence            8887543

>KOG0490|consensus

Probab=95.88  E-value=0.0013  Score=59.52  Aligned_cols=52  Identities=23%  Similarity=0.537  Sum_probs=43.2

Q ss_pred             CCCCccccceEEEeCCceeccCCccccccccccc--CCCccccCCcccCcccccc
Q psy12252         26 ACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLD--STNCTEHEKELYCRQCHGR   78 (356)
Q Consensus        26 ~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~--~~~~~~~~g~~yC~~cy~~   78 (356)
                      .|+..|.+...+.+.+..||..|..|..|...|.  ...|.. +|..||..+|.+
T Consensus         1 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~~d~~~   54 (235)
T KOG0490|consen    1 GCGRQILDRYLLRVLDRYWHASCLKCAECDNPLGVGDTCFSK-DGSIYCKRDYQR   54 (235)
T ss_pred             CCCccccchHHhhcccHHHHHHHHhhhhhcchhccCCCcccC-CCcccccccchh
Confidence            3677787766666779999999999999999997  445555 999999999987

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=88.82  E-value=0.25  Score=33.96  Aligned_cols=37  Identities=24%  Similarity=0.749  Sum_probs=27.9

Q ss_pred             CCCCCCCceeecceEEE---eCCcccccCcc----cccc--cCCCC
Q psy12252        280 DGCPRCGFVVYAAEQMI---SKNRIWHRRCF----SCAD--CHRSL  316 (356)
Q Consensus       280 ~~C~~C~~~I~~~e~v~---~~g~~~H~~CF----~C~~--C~~~L  316 (356)
                      .+|..|+++|.+++.++   .-+..||.+|.    .|..  |+..+
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            38999999998665543   56889999998    5666  66544

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=84.88  E-value=0.52  Score=32.38  Aligned_cols=39  Identities=33%  Similarity=0.745  Sum_probs=27.9

Q ss_pred             CCCCCCCCCCccccce-EEE--eCCceeccCCc----cccc--ccccc
Q psy12252         20 ENPKCPACGKSVYAAE-ERV--AGGYKFHKMCF----KCSM--CSKFL   58 (356)
Q Consensus        20 ~~~~C~~C~~~I~~~~-~i~--~~~~~~H~~CF----~C~~--C~~~L   58 (356)
                      ...+|..|+++|..++ .++  .-+-.||.+|-    .|..  |+.++
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~g~C~~~~c~~~~   51 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKAGGCINYSCGTGF   51 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHHhhCCceEeccCCCCc
Confidence            4578999999997444 343  46888999996    5665  65544

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

Probab=82.35  E-value=1.4  Score=34.42  Aligned_cols=32  Identities=34%  Similarity=0.580  Sum_probs=24.0

Q ss_pred             CCCCCCCCCCCccccceEEE-eCCceeccCCcc
Q psy12252         19 AENPKCPACGKSVYAAEERV-AGGYKFHKMCFK   50 (356)
Q Consensus        19 ~~~~~C~~C~~~I~~~~~i~-~~~~~~H~~CF~   50 (356)
                      .....|..|+++|.....++ ..|..+|..|++
T Consensus        76 ~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   76 TESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence            34677999999998755444 467789999864

Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	356
1b8t_A	192	Solution Structure Of The Chicken Crp1 Length = 192		5e-27
1qli_A	113	Quail Cysteine And Glycine-Rich Protein, Nmr, 15 Mi		3e-19
1cxx_A	113	Mutant R122a Of Quail Cysteine And Glycine-Rich Pro		2e-18
1ctl_A	85	Structure Of The Carboxy-Terminal Lim Domain From T		7e-18
2o13_A	58	Solution Structure Of The C-Terminal Lim Domain Of		2e-12
1a7i_A	81	Amino-Terminal Lim Domain From Quail Cysteine And G		2e-12
2o10_A	60	Solution Structure Of The N-Terminal Lim Domain Of		5e-09
2o10_A	60	Solution Structure Of The N-Terminal Lim Domain Of		2e-06
2o10_A	60	Solution Structure Of The N-Terminal Lim Domain Of		6e-06
1iml_A	76	Cysteine Rich Intestinal Protein, Nmr, 48 Structure		1e-07
1iml_A	76	Cysteine Rich Intestinal Protein, Nmr, 48 Structure		1e-05
2cu8_A	76	Solution Structure Of The Lim Domain Of Human Cyste		8e-05
2cu8_A	76	Solution Structure Of The Lim Domain Of Human Cyste		2e-04

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

Iteration: 1
 Score =  118 bits (296), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 75/173 (43%), Positives = 93/173 (53%), Gaps = 2/173 (1%)
Query: 170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 229
           GK C  C   V+ AE+V  +GS +H+ CF C  C K LDS       D +IYCK+CYGKK
Sbjct: 7   GKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGD-EIYCKSCYGKK 65
Query: 230 HKYCKACYGKNFGPKGFGYGHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVV 289
           +       G   G      G S  +    G+S             K    DGCPRCG  V
Sbjct: 66  YGPKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAV 125
Query: 290 YAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPK 342
           YAAE++I   + WH+ CF CA C +SL+ST L D  D +IYC+GCY KNFGPK
Sbjct: 126 YAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLAD-KDGEIYCKGCYAKNFGPK 177

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

Iteration: 1
 Score = 92.8 bits (229), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 43/75 (57%), Positives = 54/75 (72%), Gaps = 1/75 (1%)
Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGP 341
           C RCG  VYAAE++I   + WH+ CF CA C +SL+ST L +  + +IYC+GCY KNFGP
Sbjct: 39  CSRCGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTE-KEGEIYCKGCYAKNFGP 97
Query: 342 KGCGFGLGAGALTMA 356
           KG G+G GAGAL  A
Sbjct: 98  KGFGYGQGAGALVHA 112

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

Iteration: 1
 Score = 90.1 bits (222), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 42/75 (56%), Positives = 53/75 (70%), Gaps = 1/75 (1%)
Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGP 341
           C  CG  VYAAE++I   + WH+ CF CA C +SL+ST L +  + +IYC+GCY KNFGP
Sbjct: 39  CSACGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTE-KEGEIYCKGCYAKNFGP 97
Query: 342 KGCGFGLGAGALTMA 356
           KG G+G GAGAL  A
Sbjct: 98  KGFGYGQGAGALVHA 112

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

Iteration: 1
 Score = 87.8 bits (216), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 39/63 (61%), Positives = 47/63 (74%), Gaps = 1/63 (1%)
Query: 280 DGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNF 339
           DGCPRCG  VYAAE++I   + WH+ CF CA C +SL+ST L D  D +IYC+GCY KNF
Sbjct: 9   DGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLAD-KDGEIYCKGCYAKNF 67
Query: 340 GPK 342
           GPK
Sbjct: 68  GPK 70

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

Iteration: 1
 Score = 69.7 bits (169), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 31/58 (53%), Positives = 42/58 (72%), Gaps = 1/58 (1%)
Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNF 339
           CPRCG  VYAAE+++   + WH+ CF CA C +SL+STN+ D  D ++YC+ CY KNF
Sbjct: 2   CPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTD-KDGELYCKVCYAKNF 58

>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 = 69.7 bits (169), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 36/76 (47%), Positives = 48/76 (63%), Gaps = 1/76 (1%)
Query: 279 GDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKN 338
           G+ C  CG  VY AE++    R +HR CF C  C ++LDST +    D ++YC+ CYGK 
Sbjct: 7   GNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAI-HDAEVYCKSCYGKK 65
Query: 339 FGPKGCGFGLGAGALT 354
           +GPKG G+G GAG L 
Sbjct: 66  YGPKGYGYGQGAGTLN 81

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

Iteration: 1
 Score = 58.5 bits (140), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 29/55 (52%), Positives = 33/55 (60%)
Query: 22 PKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCH 76
           KC AC K+VY AEE    G  FHK CF C  C K LDST    HE E+YC+ C+
Sbjct: 2  AKCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCKVCY 56

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

Iteration: 1
 Score = 50.1 bits (118), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 23/60 (38%), Positives = 32/60 (53%), Gaps = 1/60 (1%)
Query: 170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 229
           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 = 48.5 bits (114), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 23/60 (38%), Positives = 35/60 (58%), Gaps = 1/60 (1%)
Query: 279 GDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKN 338
           G  C  C   VY AE++    R +H+ CF C  C ++LDST +    +++IYC+ CYG+ 
Sbjct: 1   GAKCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTV-AAHESEIYCKVCYGRR 59

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

Iteration: 1
 Score = 54.3 bits (129), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 32/77 (41%), Positives = 38/77 (49%), Gaps = 11/77 (14%)
Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKY 232
           CP+C   V+ AE+V + G +WHR C KC  C KTL S    +   K  YC          
Sbjct: 3   CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKP-YCN--------- 52
Query: 233 CKACYGKNFGPKGFGYG 249
              CY   FGPKGFG G
Sbjct: 53  -HPCYSAMFGPKGFGRG 68

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

Iteration: 1
 Score = 47.8 bits (112), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 25/66 (37%), Positives = 32/66 (48%)
Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGP 341
           CP+C   VY AE++ S  + WHR C  C  C ++L S    +          CY   FGP
Sbjct: 3   CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGP 62
Query: 342 KGCGFG 347
           KG G G
Sbjct: 63  KGFGRG 68

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 22/52 (42%), Positives = 30/52 (57%)
Query: 23 KCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQ 74
          KCP C K+VY AE+  + G  +HK C KC  CSK L      EH+ + +C +
Sbjct: 11 KCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHK 62

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 21/55 (38%), Positives = 29/55 (52%)
Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYG 227
           CP+C   V+ AE+V + G +WH+ C KC  C+KTL      +   K    K CY 
Sbjct: 12  CPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYA 66

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	356
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	8e-36
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	5e-32
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	6e-19
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	7e-24
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	2e-19
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	3e-15
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	2e-22
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	1e-17
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	1e-15
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	3e-21
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	3e-15
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	1e-14
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	3e-19
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	5e-13
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	7e-13
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	4e-14
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	3e-10
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	6e-09
2co8_A	82	NEDD9 interacting protein with calponin homology a	3e-13
2co8_A	82	NEDD9 interacting protein with calponin homology a	2e-11
2co8_A	82	NEDD9 interacting protein with calponin homology a	3e-11
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	5e-13
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	2e-10
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	3e-09
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	2e-12
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	4e-07
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	4e-06
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	3e-12
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	1e-09
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	2e-08
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	6e-12
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	2e-08
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	2e-06
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	2e-04
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	1e-10
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	2e-06
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	2e-06
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	5e-04
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	1e-10
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	3e-08
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	4e-07
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	1e-10
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	1e-07
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	8e-07
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	2e-10
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	4e-10
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	5e-07
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	4e-10
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	3e-08
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	1e-07
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	6e-10
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	6e-06
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	9e-05
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	5e-09
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	1e-08
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	2e-08
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	6e-09
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	5e-06
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	4e-05
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	6e-09
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	2e-07
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	2e-05
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	7e-09
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	3e-06
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	4e-06
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	7e-09
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	9e-08
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	1e-06
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	8e-05
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	1e-08
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	2e-05
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	3e-05
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	1e-08
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	2e-06
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	5e-06
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	8e-08
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	2e-05
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	3e-05
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	1e-07
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	4e-05
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	1e-04
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	1e-07
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	2e-05
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	8e-05
2cuq_A	80	Four and A half LIM domains 3; structural genomics	2e-07
2cuq_A	80	Four and A half LIM domains 3; structural genomics	6e-05
2cuq_A	80	Four and A half LIM domains 3; structural genomics	8e-05
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	3e-07
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	8e-05
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	4e-04
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	4e-07
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	5e-07
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	3e-05
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	5e-07
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	1e-06
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	2e-06
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	2e-06
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	4e-04
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	6e-04
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	2e-06
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	4e-04
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	2e-06
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	6e-05
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	2e-04
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	2e-06
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	7e-05
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	8e-04
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	4e-06
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	5e-05
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	4e-06
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	4e-06
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	5e-04
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	7e-06
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	6e-05
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	5e-04
2cor_A	79	Pinch protein; LIM domain, particularly interestin	7e-05
2cor_A	79	Pinch protein; LIM domain, particularly interestin	6e-04
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	3e-04

>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 =  128 bits (322), Expect = 8e-36
 Identities = 84/191 (43%), Positives = 103/191 (53%), Gaps = 2/191 (1%)

Query: 166 KAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTC 225
               GK C  C   V+ AE+V  +GS +H+ CF C  C K LDS       D+ IYCK+C
Sbjct: 3   NWGGGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDE-IYCKSC 61

Query: 226 YGKKHKYCKACYGKNFGPKGFGYGHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRC 285
           YGKK+       G   G      G S  +    G+S             K    DGCPRC
Sbjct: 62  YGKKYGPKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRC 121

Query: 286 GFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCG 345
           G  VYAAE++I   + WH+ CF CA C +SL+ST L D  D +IYC+GCY KNFGPKG G
Sbjct: 122 GQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLAD-KDGEIYCKGCYAKNFGPKGFG 180

Query: 346 FGLGAGALTMA 356
           FG GAGAL  +
Sbjct: 181 FGQGAGALIHS 191

>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 =  118 bits (296), Expect = 5e-32
 Identities = 83/239 (34%), Positives = 99/239 (41%), Gaps = 58/239 (24%)

Query: 14  MPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCR 73
           MP       KC  C K+VY AEE    G  FHK CF C +C K LDST    H  E+YC+
Sbjct: 1   MPNWGG-GKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCK 59

Query: 74  QCHGRKYGPKGYGFGGGAGCLSMDAG-MCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGY 132
            C+G+KYGPKG G G GAG LS D G       +             R            
Sbjct: 60  SCYGKKYGPKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDG-- 117

Query: 133 GFGGGAGCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSE 192
                                                   CPRCG  V+AAE+V+  G  
Sbjct: 118 ----------------------------------------CPRCGQAVYAAEKVIGAGKS 137

Query: 193 WHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHK-YCKACYGKNFGPKGFGYGH 250
           WH+ CF+C  C K+L+S              T   K  + YCK CY KNFGPKGFG+G 
Sbjct: 138 WHKSCFRCAKCGKSLES-------------TTLADKDGEIYCKGCYAKNFGPKGFGFGQ 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 = 82.8 bits (204), Expect = 6e-19
 Identities = 36/84 (42%), Positives = 53/84 (63%)

Query: 14  MPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCR 73
           M      +  CP CG++VYAAE+ +  G  +HK CF+C+ C K L+ST   + + E+YC+
Sbjct: 108 MAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCK 167

Query: 74  QCHGRKYGPKGYGFGGGAGCLSMD 97
            C+ + +GPKG+GFG GAG L   
Sbjct: 168 GCYAKNFGPKGFGFGQGAGALIHS 191

>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 = 92.9 bits (231), Expect = 7e-24
 Identities = 43/82 (52%), Positives = 54/82 (65%), Gaps = 1/82 (1%)

Query: 14 MPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCR 73
          MP       KC ACG++VY AEE    G  FH+ CF C +C K LDST    H+ E+YC+
Sbjct: 1  MPNWGG-GNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCK 59

Query: 74 QCHGRKYGPKGYGFGGGAGCLS 95
           C+G+KYGPKGYG+G GAG L+
Sbjct: 60 SCYGKKYGPKGYGYGQGAGTLN 81

>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 = 2e-19
 Identities = 36/76 (47%), Positives = 48/76 (63%), Gaps = 1/76 (1%)

Query: 279 GDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKN 338
           G+ C  CG  VY AE++    R +HR CF C  C ++LDST +    D ++YC+ CYGK 
Sbjct: 7   GNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIH-DAEVYCKSCYGKK 65

Query: 339 FGPKGCGFGLGAGALT 354
           +GPKG G+G GAG L 
Sbjct: 66  YGPKGYGYGQGAGTLN 81

>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 = 69.0 bits (169), Expect = 3e-15
 Identities = 35/84 (41%), Positives = 43/84 (51%), Gaps = 12/84 (14%)

Query: 166 KAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTC 225
               G  C  CG  V+ AE+V   G  +HR CF C  C K LDS       D ++YCK+C
Sbjct: 3   NWGGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIH-DAEVYCKSC 61

Query: 226 YGKKHKYCKACYGKNFGPKGFGYG 249
           YGKK           +GPKG+GYG
Sbjct: 62  YGKK-----------YGPKGYGYG 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 = 88.9 bits (221), Expect = 2e-22
 Identities = 32/70 (45%), Positives = 39/70 (55%), Gaps = 1/70 (1%)

Query: 22 PKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQ-CHGRKY 80
          PKCP C K VY AE   + G  +H+ C KC  C K L S    EHE + YC   C+   +
Sbjct: 1  PKCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMF 60

Query: 81 GPKGYGFGGG 90
          GPKG+G GG 
Sbjct: 61 GPKGFGRGGA 70

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

 Score = 75.5 bits (186), Expect = 1e-17
 Identities = 31/81 (38%), Positives = 40/81 (49%), Gaps = 11/81 (13%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKY 232
           CP+C   V+ AE+V + G +WHR C KC  C KTL S    +  +   YC          
Sbjct: 3   CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEH-EGKPYCN--------- 52

Query: 233 CKACYGKNFGPKGFGYGHSPT 253
              CY   FGPKGFG G + +
Sbjct: 53  -HPCYSAMFGPKGFGRGGAES 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 = 70.1 bits (172), Expect = 1e-15
 Identities = 25/66 (37%), Positives = 32/66 (48%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGP 341
           CP+C   VY AE++ S  + WHR C  C  C ++L S    +          CY   FGP
Sbjct: 3   CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGP 62

Query: 342 KGCGFG 347
           KG G G
Sbjct: 63  KGFGRG 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 = 86.1 bits (213), Expect = 3e-21
 Identities = 25/82 (30%), Positives = 33/82 (40%), Gaps = 3/82 (3%)

Query: 14 MPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCR 73
          M F       C  C K+VY  E  +A    FH  CF+CS C+  L           +YC+
Sbjct: 8  MKFQAPARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCK 67

Query: 74 QCHGRKYGPKG---YGFGGGAG 92
              + +  KG    GFG G  
Sbjct: 68 PHFNQLFKSKGNYDEGFGSGPS 89

>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 = 69.5 bits (170), Expect = 3e-15
 Identities = 21/85 (24%), Positives = 36/85 (42%), Gaps = 4/85 (4%)

Query: 271 TSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIY 330
               +    + C  C   VY  E++++  +++H  CF C+ C+  L            IY
Sbjct: 7   GMKFQAPARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYA-SLHGRIY 65

Query: 331 CRGCYGKNFGPKGC---GFGLGAGA 352
           C+  + + F  KG    GFG G  +
Sbjct: 66  CKPHFNQLFKSKGNYDEGFGSGPSS 90

>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 = 67.6 bits (165), Expect = 1e-14
 Identities = 24/84 (28%), Positives = 34/84 (40%), Gaps = 2/84 (2%)

Query: 161 DTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDI 220
              K +A   + C  C   V+  E++LA    +H  CF+C  CN  L            I
Sbjct: 6   SGMKFQAPARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGT-YASLHGRI 64

Query: 221 YCKTCYGKKHKYCKACYGKNFGPK 244
           YCK  + +  K  K  Y + FG  
Sbjct: 65  YCKPHFNQLFK-SKGNYDEGFGSG 87

>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 = 80.1 bits (198), Expect = 3e-19
 Identities = 24/66 (36%), Positives = 34/66 (51%), Gaps = 1/66 (1%)

Query: 21 NPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYC-RQCHGRK 79
            KCP C K+VY AE+  + G  +HK C KC  CSK L      EH+ + +C + C+   
Sbjct: 9  ASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATL 68

Query: 80 YGPKGY 85
          +G    
Sbjct: 69 FGSGPS 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 = 62.8 bits (153), Expect = 5e-13
 Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYC-RGCYGKNFG 340
           CP+C   VY AE++ S  + WH+ C  C  C ++L      +  D   +C + CY   FG
Sbjct: 12  CPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAE-HDGKPFCHKPCYATLFG 70

Query: 341 PKG 343
              
Sbjct: 71  SGP 73

>2cu8_A Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein, zinc-binding, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 76

 Score = 62.4 bits (152), Expect = 7e-13
 Identities = 24/73 (32%), Positives = 33/73 (45%), Gaps = 11/73 (15%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKY 232
           CP+C   V+ AE+V + G +WH+ C KC  C+KTL      +  D   +C          
Sbjct: 12  CPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAE-HDGKPFC---------- 60

Query: 233 CKACYGKNFGPKG 245
            K CY   FG   
Sbjct: 61  HKPCYATLFGSGP 73

>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 = 65.9 bits (161), Expect = 4e-14
 Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 1/63 (1%)

Query: 22 PKCPACGKSVYAAEERV-AGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKY 80
          PKC  C K++ A ++ V   G  +HK CF CS C + + + +     ++ YC  CH  K+
Sbjct: 16 PKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKF 75

Query: 81 GPK 83
             
Sbjct: 76 ASG 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 = 55.1 bits (133), Expect = 3e-10
 Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 2/62 (3%)

Query: 282 CPRCGFVVYAAEQMIS-KNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFG 340
           C  C   + A +Q +  K  +WH+ CF+C++C + + + +       D YC  C+   F 
Sbjct: 18  CKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFP-KGEDFYCVTCHETKFA 76

Query: 341 PK 342
             
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 = 51.2 bits (123), Expect = 6e-09
 Identities = 18/59 (30%), Positives = 30/59 (50%), Gaps = 2/59 (3%)

Query: 173 CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKH 230
           C  C   + A +Q +  KG+ WH+ CF C +C + + + +      +D YC TC+  K 
Sbjct: 18  CKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFP-KGEDFYCVTCHETKF 75

>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 = 3e-13
 Identities = 18/75 (24%), Positives = 26/75 (34%), Gaps = 2/75 (2%)

Query: 14 MPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKE--LY 71
                    C  CG+ +Y  E     G+ FH+ CF+C  C   L      +H  +   Y
Sbjct: 8  QHQEAGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFY 67

Query: 72 CRQCHGRKYGPKGYG 86
          C Q   +       G
Sbjct: 68 CLQHLPQTDSGPSSG 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 = 58.4 bits (141), Expect = 2e-11
 Identities = 18/68 (26%), Positives = 26/68 (38%), Gaps = 1/68 (1%)

Query: 162 TAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSIN-ACDGPDKDI 220
               +A  G  C  CG  ++  E++   G  +HR CF+C  C  TL          D   
Sbjct: 7   GQHQEAGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHF 66

Query: 221 YCKTCYGK 228
           YC     +
Sbjct: 67  YCLQHLPQ 74

>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 = 58.0 bits (140), Expect = 3e-11
 Identities = 18/79 (22%), Positives = 25/79 (31%), Gaps = 1/79 (1%)

Query: 268 ARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLN-DGPD 326
                  +   GD C  CG  +Y  E++      +HR CF C  C  +L          D
Sbjct: 4   GSSGQHQEAGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGD 63

Query: 327 NDIYCRGCYGKNFGPKGCG 345
              YC     +       G
Sbjct: 64  GHFYCLQHLPQTDSGPSSG 82

>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 = 62.8 bits (153), Expect = 5e-13
 Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 1/63 (1%)

Query: 22 PKCPACGKSVYAAEERV-AGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKY 80
            C ACG++V     ++  GG  +H+ CF CS C + L S +    +   YC  C+  K+
Sbjct: 6  SGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKF 65

Query: 81 GPK 83
             
Sbjct: 66 ASG 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 = 55.5 bits (134), Expect = 2e-10
 Identities = 17/62 (27%), Positives = 23/62 (37%), Gaps = 2/62 (3%)

Query: 282 CPRCGFVVYAAEQMIS-KNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFG 340
           C  CG  V    + +    + WH  CF C+ C + L S +         YC  CY   F 
Sbjct: 8   CSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVP-DKGAHYCVPCYENKFA 66

Query: 341 PK 342
             
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 = 52.0 bits (125), Expect = 3e-09
 Identities = 19/59 (32%), Positives = 22/59 (37%), Gaps = 2/59 (3%)

Query: 173 CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKH 230
           C  CG  V    + L   G  WH  CF C  C + L S +         YC  CY  K 
Sbjct: 8   CSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVP-DKGAHYCVPCYENKF 65

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

 Score = 62.8 bits (153), Expect = 2e-12
 Identities = 31/173 (17%), Positives = 49/173 (28%), Gaps = 48/173 (27%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHK- 231
           C  C   +     + A    WH  C  C  C   L  +            +  Y K  + 
Sbjct: 5   CGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEV-----------GRRLYYKLGRK 53

Query: 232 YCKACYGKNFGPKGFGYGHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYA 291
            C+  Y + FG  G                                    C  C   + A
Sbjct: 54  LCRRDYLRLFGQDGL-----------------------------------CASCDKRIRA 78

Query: 292 AEQMIS-KNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKG 343
            E  +  K++++H  CF CA C +     +     ++DI C     +     G
Sbjct: 79  YEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIYEWTKING 131

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

 Score = 47.4 bits (113), Expect = 4e-07
 Identities = 29/213 (13%), Positives = 46/213 (21%), Gaps = 86/213 (40%)

Query: 22  PKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYG 81
             C  C +++       A    +H+ C  C +C   L                       
Sbjct: 3   LTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRR----------------- 45

Query: 82  PKGYGFGGGAGCLSMDAGMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCL 141
                                                CR+ + R +G  G          
Sbjct: 46  ----------------------------LYYKLGRKLCRRDYLRLFGQDGL--------- 68

Query: 142 SMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVL-AKGSEWHRKCFKC 200
                                          C  C   + A E  +  K   +H +CFKC
Sbjct: 69  -------------------------------CASCDKRIRAYEMTMRVKDKVYHLECFKC 97

Query: 201 RDCNKTLDSINACDGPDKDIYCKTCYGKKHKYC 233
             C K     +     + DI C+    +  K  
Sbjct: 98  AACQKHFCVGDRYLLINSDIVCEQDIYEWTKIN 130

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

 Score = 44.7 bits (106), Expect = 4e-06
 Identities = 18/79 (22%), Positives = 26/79 (32%), Gaps = 5/79 (6%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLN-DGPDNDIYCRGCYGKNFG 340
           C  C   +     + + ++ WH  C SC  C   L               CR  Y + FG
Sbjct: 5   CGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFG 64

Query: 341 PK----GCGFGLGAGALTM 355
                  C   + A  +TM
Sbjct: 65  QDGLCASCDKRIRAYEMTM 83

>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 = 60.5 bits (147), Expect = 3e-12
 Identities = 11/63 (17%), Positives = 28/63 (44%), Gaps = 1/63 (1%)

Query: 22 PKCPACGKSVYAAEERV-AGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKY 80
            C  C K++     ++   G  +H+ CF C  C + + + +    + + +C  C+ +++
Sbjct: 6  SGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQH 65

Query: 81 GPK 83
             
Sbjct: 66 ASG 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 = 53.2 bits (128), Expect = 1e-09
 Identities = 15/62 (24%), Positives = 23/62 (37%), Gaps = 2/62 (3%)

Query: 282 CPRCGFVVYAAEQMIS-KNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFG 340
           C  C   +    + +  K   WH  CF C  C + + + +     DN  +C  CY K   
Sbjct: 8   CQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIP-KDNQNFCVPCYEKQHA 66

Query: 341 PK 342
             
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 = 49.7 bits (119), Expect = 2e-08
 Identities = 17/59 (28%), Positives = 26/59 (44%), Gaps = 2/59 (3%)

Query: 173 CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKH 230
           C  C   +    + +  KGS WH  CF C  C + + + +     D   +C  CY K+H
Sbjct: 8   CQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIP-KDNQNFCVPCYEKQH 65

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

 Score = 62.2 bits (151), Expect = 6e-12
 Identities = 35/187 (18%), Positives = 54/187 (28%), Gaps = 56/187 (29%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHK- 231
           C  C   +     + A    WH KC KC DC+  L                 C+ +    
Sbjct: 9   CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAE--------------RCFSRGESV 54

Query: 232 YCKACYGKNFGPKGFGYGHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYA 291
           YCK  + K FG K                                     C  C   +  
Sbjct: 55  YCKDDFFKRFGTK-------------------------------------CAACQLGIPP 77

Query: 292 AEQMIS-KNRIWHRRCFSCADCHRSLDS-TNLNDGPDNDIYCRGCYGKNFGPK--GCGFG 347
            + +   ++ ++H  CF+C  C R L +        D+ + C+  Y         G G  
Sbjct: 78  TQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAKQGGSGGSGGS 137

Query: 348 LGAGALT 354
            G   + 
Sbjct: 138 GGGTPMV 144

>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 = 52.5 bits (126), Expect = 2e-08
 Identities = 29/145 (20%), Positives = 44/145 (30%), Gaps = 17/145 (11%)

Query: 20  ENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRK 79
           E P C  C + +       A    +H  C KCS C   L    C    + +YC+    ++
Sbjct: 5   EIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAER-CFSRGESVYCKDDFFKR 63

Query: 80  YGPK--GYGFGGGAGCLSMDAG------------MCSKFLD--STNCTEHEKELYCRQCH 123
           +G K      G     +   A             +C + L          +  L C+  +
Sbjct: 64  FGTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADY 123

Query: 124 GRKYGPKGYGFGGGAGCLSMDAGEH 148
                    G GG  G   M A   
Sbjct: 124 ETAKQGGSGGSGGSGGGTPMVAASP 148

>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 = 46.8 bits (111), Expect = 2e-06
 Identities = 19/76 (25%), Positives = 31/76 (40%), Gaps = 4/76 (5%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGP 341
           C  C   +     + + +R WH +C  C+DCH  L     +      +YC+  + K FG 
Sbjct: 9   CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSR--GESVYCKDDFFKRFGT 66

Query: 342 K--GCGFGLGAGALTM 355
           K   C  G+    +  
Sbjct: 67  KCAACQLGIPPTQVVR 82

>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 = 41.0 bits (96), Expect = 2e-04
 Identities = 17/85 (20%), Positives = 27/85 (31%), Gaps = 2/85 (2%)

Query: 170 GKGCPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINA-CDGPDKDIYCKTCYG 227
           G  C  C   +   + V  A+   +H  CF C  C + L + +      D  + CK  Y 
Sbjct: 65  GTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYE 124

Query: 228 KKHKYCKACYGKNFGPKGFGYGHSP 252
              +      G + G          
Sbjct: 125 TAKQGGSGGSGGSGGGTPMVAASPE 149

>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 = 59.2 bits (143), Expect = 1e-10
 Identities = 32/166 (19%), Positives = 50/166 (30%), Gaps = 54/166 (32%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHK- 231
           C  C   +     + A    WH KC KC DC+  L                 C+ +    
Sbjct: 63  CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAE--------------RCFSRGESV 108

Query: 232 YCKACYGKNFGPKGFGYGHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYA 291
           YCK  + K FG K                                     C  C   +  
Sbjct: 109 YCKDDFFKRFGTK-------------------------------------CAACQLGIPP 131

Query: 292 AEQ-MISKNRIWHRRCFSCADCHRSLDS-TNLNDGPDNDIYCRGCY 335
            +    +++ ++H  CF+C  C R L +        D+ + C+  Y
Sbjct: 132 TQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADY 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 = 46.8 bits (111), Expect = 2e-06
 Identities = 23/125 (18%), Positives = 38/125 (30%), Gaps = 17/125 (13%)

Query: 15  PFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQ 74
                E P C  C + +       A    +H  C KCS C   L    C    + +YC+ 
Sbjct: 54  SGGTPEIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAER-CFSRGESVYCKD 112

Query: 75  CHGRKYGPK--GYGFGGGAGCLSMDAG------------MCSKFLD--STNCTEHEKELY 118
              +++G K      G     +   A             +C + L          +  L 
Sbjct: 113 DFFKRFGTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLV 172

Query: 119 CRQCH 123
           C+  +
Sbjct: 173 CKADY 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 = 46.4 bits (110), Expect = 2e-06
 Identities = 19/76 (25%), Positives = 31/76 (40%), Gaps = 4/76 (5%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGP 341
           C  C   +     + + +R WH +C  C+DCH  L     +      +YC+  + K FG 
Sbjct: 63  CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSR--GESVYCKDDFFKRFGT 120

Query: 342 K--GCGFGLGAGALTM 355
           K   C  G+    +  
Sbjct: 121 KCAACQLGIPPTQVVR 136

>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 = 39.5 bits (92), Expect = 5e-04
 Identities = 21/128 (16%), Positives = 35/128 (27%), Gaps = 45/128 (35%)

Query: 101 CSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVI 160
           C   L    C    + +YC+    +++G K                              
Sbjct: 93  CHVPLAER-CFSRGESVYCKDDFFKRFGTK------------------------------ 121

Query: 161 DTAKIKAAPGKGCPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINA-CDGPDK 218
                       C  C   +   + V  A+   +H  CF C  C + L + +      D 
Sbjct: 122 ------------CAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDS 169

Query: 219 DIYCKTCY 226
            + CK  Y
Sbjct: 170 RLVCKADY 177

>1g47_A Pinch protein; LIM domain, Zn finger, cell adhesion; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 77

 Score = 56.3 bits (136), Expect = 1e-10
 Identities = 16/63 (25%), Positives = 24/63 (38%), Gaps = 1/63 (1%)

Query: 21 NPKCPACGKSVYAAEERV-AGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRK 79
          +  C  C      AE+ V + G  +H+ CF C+ C +        E E   YC       
Sbjct: 11 SATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQML 70

Query: 80 YGP 82
          + P
Sbjct: 71 FAP 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 = 49.3 bits (118), Expect = 3e-08
 Identities = 15/61 (24%), Positives = 26/61 (42%), Gaps = 2/61 (3%)

Query: 282 CPRCGFVVYAAEQMIS-KNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFG 340
           C RC      AE++++    ++H +CF CA C +        +  +   YC   +   F 
Sbjct: 14  CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYE-FEGRKYCEHDFQMLFA 72

Query: 341 P 341
           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 = 45.9 bits (109), Expect = 4e-07
 Identities = 19/72 (26%), Positives = 30/72 (41%), Gaps = 13/72 (18%)

Query: 173 CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHK 231
           C RC G    AE+++ + G  +H +CF C  C +          P+   Y      +  K
Sbjct: 14  CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQF--------PEGLFYEF----EGRK 61

Query: 232 YCKACYGKNFGP 243
           YC+  +   F P
Sbjct: 62  YCEHDFQMLFAP 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 = 55.9 bits (135), Expect = 1e-10
 Identities = 16/67 (23%), Positives = 25/67 (37%), Gaps = 1/67 (1%)

Query: 16 FVPAENPKCPACGKSVYAAEERV-AGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQ 74
          F  + +  C  C      AE+ V + G  +H+ CF C+ C +        E E   YC  
Sbjct: 6  FQGSASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEH 65

Query: 75 CHGRKYG 81
               + 
Sbjct: 66 DFQMLFA 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 = 47.8 bits (114), Expect = 1e-07
 Identities = 14/60 (23%), Positives = 25/60 (41%), Gaps = 2/60 (3%)

Query: 282 CPRCGFVVYAAEQMIS-KNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFG 340
           C RC      AE++++    ++H +CF CA C +        +  +   YC   +   F 
Sbjct: 14  CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEF-EGRKYCEHDFQMLFA 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 = 45.1 bits (107), Expect = 8e-07
 Identities = 14/58 (24%), Positives = 25/58 (43%), Gaps = 2/58 (3%)

Query: 173 CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 229
           C RC G    AE+++ + G  +H +CF C  C +        +   +  YC+  +   
Sbjct: 14  CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGR-KYCEHDFQML 70

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

 Score = 57.0 bits (138), Expect = 2e-10
 Identities = 33/171 (19%), Positives = 47/171 (27%), Gaps = 55/171 (32%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHK- 231
           C  C  ++F+ E   A+   WH K F C DC+  L               +       K 
Sbjct: 6   CAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAG-------------EIYVMVNDKP 52

Query: 232 YCKACYGKNFGPKGFGYGHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYA 291
            CK CY KN                                         C  C   +  
Sbjct: 53  VCKPCYVKNHAVV-------------------------------------CQGCHNAIDP 75

Query: 292 AEQMIS-KNRIWH--RRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNF 339
             Q ++  N  WH    CF C+ C + L         +  ++C     K  
Sbjct: 76  EVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPV-EGMVFCSVECKKRM 125

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

 Score = 56.3 bits (136), Expect = 4e-10
 Identities = 20/125 (16%), Positives = 37/125 (29%), Gaps = 16/125 (12%)

Query: 19  AENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGR 78
           +E P+C  C + +++ E   A    +H   F C  C   L          +  C+ C+ +
Sbjct: 1   SEKPRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVK 60

Query: 79  KYGPK--GYGFGGGAGCLSMDAG--------------MCSKFLDSTNCTEHEKELYCRQC 122
            +     G           +                  CSK L        E  ++C   
Sbjct: 61  NHAVVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVE 120

Query: 123 HGRKY 127
             ++ 
Sbjct: 121 CKKRM 125

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

 Score = 47.4 bits (113), Expect = 5e-07
 Identities = 18/76 (23%), Positives = 31/76 (40%), Gaps = 3/76 (3%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGP 341
           C  C  ++++ E   ++N+ WH + F C DC   L         ++   C+ CY KN   
Sbjct: 6   CAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYV-MVNDKPVCKPCYVKNHAV 64

Query: 342 K--GCGFGLGAGALTM 355
              GC   +      +
Sbjct: 65  VCQGCHNAIDPEVQRV 80

>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 = 54.8 bits (132), Expect = 4e-10
 Identities = 15/70 (21%), Positives = 25/70 (35%), Gaps = 1/70 (1%)

Query: 14 MPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCR 73
           P        C  C + +   +  +A   ++H  CFKC  CS  L        +   YC 
Sbjct: 8  KPIKIRGPSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTGE-YISKDGVPYCE 66

Query: 74 QCHGRKYGPK 83
            +  ++G  
Sbjct: 67 SDYHAQFGSG 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 = 49.4 bits (118), Expect = 3e-08
 Identities = 18/73 (24%), Positives = 26/73 (35%), Gaps = 15/73 (20%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHK- 231
           C  C   +   + +LA   +WH  CFKC+ C+  L                    K    
Sbjct: 18  CAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTG--------------EYISKDGVP 63

Query: 232 YCKACYGKNFGPK 244
           YC++ Y   FG  
Sbjct: 64  YCESDYHAQFGSG 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 = 47.8 bits (114), Expect = 1e-07
 Identities = 15/61 (24%), Positives = 23/61 (37%), Gaps = 2/61 (3%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGP 341
           C  C   +   + +++ ++ WH  CF C  C   L    +    D   YC   Y   FG 
Sbjct: 18  CAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTGEYI--SKDGVPYCESDYHAQFGS 75

Query: 342 K 342
            
Sbjct: 76  G 76

>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 = 57.3 bits (138), Expect = 6e-10
 Identities = 34/178 (19%), Positives = 54/178 (30%), Gaps = 48/178 (26%)

Query: 170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 229
            K C  CGG +     + A  S WH +C KC  C   L  I             + Y K 
Sbjct: 5   WKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIG-----------TSSYTKS 53

Query: 230 HK-YCKACYGKNFGPKGFGYGHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFV 288
               C+  Y + FG  G                                    C  CG  
Sbjct: 54  GMILCRNDYIRLFGNSGA-----------------------------------CSACGQS 78

Query: 289 VYAAEQMIS-KNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCG 345
           + A+E ++  +  ++H +CF+C+ C   L   +     +  ++C              
Sbjct: 79  IPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHLN 136

>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 = 45.4 bits (107), Expect = 6e-06
 Identities = 26/148 (17%), Positives = 38/148 (25%), Gaps = 19/148 (12%)

Query: 22  PKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKE--LYCRQCHGRK 79
            +C  CG  +       A    +H  C KCS C   L     + + K   + CR  + R 
Sbjct: 6   KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 65

Query: 80  YGPKGYGFGGGAGCLSMDAGM----------------CSKFLDS-TNCTEHEKELYCRQC 122
           +G  G     G    + +  M                C   L            L+C   
Sbjct: 66  FGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHD 125

Query: 123 HGRKYGPKGYGFGGGAGCLSMDAGEHLT 150
                       GG  G         + 
Sbjct: 126 RPTALINGHLNSGGSGGSGGSGGDVMVV 153

>1rut_X Flinc4, fusion protein of LMO4 protein and LIM domain- binding protein 1; B-tandem zipper, protein binding; 1.30A {Mus musculus} SCOP: g.39.1.3 g.39.1.3 g.39.1.3 g.39.1.3 PDB: 2dfy_X 2xjz_I 2xjy_B Length = 188

 Score = 41.9 bits (98), Expect = 9e-05
 Identities = 19/74 (25%), Positives = 31/74 (41%), Gaps = 1/74 (1%)

Query: 173 CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHK 231
           C  CG  + A+E V+ A+G+ +H KCF C  C   L   +     +  ++C+        
Sbjct: 72  CSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALI 131

Query: 232 YCKACYGKNFGPKG 245
                 G + G  G
Sbjct: 132 NGHLNSGGSGGSGG 145

>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 = 52.8 bits (126), Expect = 5e-09
 Identities = 16/66 (24%), Positives = 24/66 (36%), Gaps = 2/66 (3%)

Query: 18  PAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKE--LYCRQC 75
                +C  CG  +       A    +H  C KCS C   L     + + K   + CR  
Sbjct: 58  GLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRND 117

Query: 76  HGRKYG 81
           + R +G
Sbjct: 118 YIRLFG 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 = 51.7 bits (123), Expect = 1e-08
 Identities = 18/81 (22%), Positives = 27/81 (33%), Gaps = 1/81 (1%)

Query: 150 TENNAPRTTVIDTAKIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTL-D 208
           +++                  K C  CGG +     + A  S WH +C KC  C   L D
Sbjct: 41  SQSKLGGGGSGGHMGSGGLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGD 100

Query: 209 SINACDGPDKDIYCKTCYGKK 229
              +       I C+  Y + 
Sbjct: 101 IGTSSYTKSGMILCRNDYIRL 121

>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 = 51.3 bits (122), Expect = 2e-08
 Identities = 20/95 (21%), Positives = 31/95 (32%), Gaps = 4/95 (4%)

Query: 250 HSPTLVSTSGESTMQFYDARPTSGLKGRNGDG---CPRCGFVVYAAEQMISKNRIWHRRC 306
                V  + + +        + G  G  G     C  CG  +     + + +  WH RC
Sbjct: 29  KMDVTVIDTKDGSQSKLGGGGSGGHMGSGGLSWKRCAGCGGKIADRFLLYAMDSYWHSRC 88

Query: 307 FSCADCHRSLDSTNLN-DGPDNDIYCRGCYGKNFG 340
             C+ C   L     +       I CR  Y + FG
Sbjct: 89  LKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG 123

>1m3v_A FLIN4, fusion of the LIM interacting domain of LDB1 and the N-terminal LIM domain of LMO4...; fusion protein, LMO proteins, metal binding protein; NMR {Mus musculus} SCOP: g.39.1.3 g.39.1.3 Length = 122

 Score = 52.7 bits (126), Expect = 6e-09
 Identities = 25/118 (21%), Positives = 40/118 (33%), Gaps = 3/118 (2%)

Query: 18  PAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKE--LYCRQC 75
                +C  CG  +       A    +H  C KCS C   L     + + K   + CR  
Sbjct: 2   SLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRND 61

Query: 76  HGRKYGPKGYGFGGGAGCLSMDAGMCSK-FLDSTNCTEHEKELYCRQCHGRKYGPKGY 132
           + R +G  G G  GG      D  +  +  L      + ++ L  R  + +     G 
Sbjct: 62  YIRLFGNSGAGGSGGHMGSGGDVMVVGEPTLMGGEFGDEDERLITRLENTQFDAANGI 119

>1m3v_A FLIN4, fusion of the LIM interacting domain of LDB1 and the N-terminal LIM domain of LMO4...; fusion protein, LMO proteins, metal binding protein; NMR {Mus musculus} SCOP: g.39.1.3 g.39.1.3 Length = 122

 Score = 44.2 bits (104), Expect = 5e-06
 Identities = 20/78 (25%), Positives = 26/78 (33%), Gaps = 1/78 (1%)

Query: 170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTL-DSINACDGPDKDIYCKTCYGK 228
            K C  CGG +     + A  S WH +C KC  C   L D   +       I C+  Y +
Sbjct: 5   WKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIR 64

Query: 229 KHKYCKACYGKNFGPKGF 246
                 A         G 
Sbjct: 65  LFGNSGAGGSGGHMGSGG 82

>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 = 41.9 bits (98), Expect = 4e-05
 Identities = 18/65 (27%), Positives = 25/65 (38%), Gaps = 1/65 (1%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLN-DGPDNDIYCRGCYGKNFG 340
           C  CG  +     + + +  WH RC  C+ C   L     +       I CR  Y + FG
Sbjct: 8   CAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG 67

Query: 341 PKGCG 345
             G G
Sbjct: 68  NSGAG 72

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

 Score = 51.3 bits (123), Expect = 6e-09
 Identities = 14/63 (22%), Positives = 23/63 (36%), Gaps = 1/63 (1%)

Query: 22 PKCPACGKSVYAAEERV-AGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKY 80
            C  C + +      +      FH+ CF+C  C + L     T  + EL C  C+   +
Sbjct: 16 NTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELLCNDCYCSAF 75

Query: 81 GPK 83
             
Sbjct: 76 SSG 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 = 47.1 bits (112), Expect = 2e-07
 Identities = 16/62 (25%), Positives = 26/62 (41%), Gaps = 2/62 (3%)

Query: 282 CPRCGFVVYAAEQMIS-KNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFG 340
           C  C  ++    + +  ++R +H  CF C  C RSL         D+++ C  CY   F 
Sbjct: 18  CAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTC-QDSELLCNDCYCSAFS 76

Query: 341 PK 342
             
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 = 41.7 bits (98), Expect = 2e-05
 Identities = 13/74 (17%), Positives = 24/74 (32%), Gaps = 15/74 (20%)

Query: 173 CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHK 231
           C  C  ++    + L  +   +H  CF+C  C ++L               +    +  +
Sbjct: 18  CAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLAD-------------EPFTCQDSE 64

Query: 232 -YCKACYGKNFGPK 244
             C  CY   F   
Sbjct: 65  LLCNDCYCSAFSSG 78

>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 = 7e-09
 Identities = 16/62 (25%), Positives = 20/62 (32%), Gaps = 1/62 (1%)

Query: 22 PKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYG 81
            C  C K +            +HK CF C+ C K L     T  +   YC  C    Y 
Sbjct: 6  SGCVQCKKPI-TTGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLYA 64

Query: 82 PK 83
            
Sbjct: 65 SG 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 = 43.5 bits (103), Expect = 3e-06
 Identities = 13/61 (21%), Positives = 23/61 (37%), Gaps = 2/61 (3%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGP 341
           C +C   +     +  + + WH+ CF C  C + L         D+  YC  C+   +  
Sbjct: 8   CVQCKKPI-TTGGVTYREQPWHKECFVCTACRKQLSGQRFTA-RDDFAYCLNCFCDLYAS 65

Query: 342 K 342
            
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 = 43.1 bits (102), Expect = 4e-06
 Identities = 14/73 (19%), Positives = 23/73 (31%), Gaps = 15/73 (20%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHK- 231
           C +C   +     V  +   WH++CF C  C K L               +    +    
Sbjct: 8   CVQCKKPITT-GGVTYREQPWHKECFVCTACRKQLSG-------------QRFTARDDFA 53

Query: 232 YCKACYGKNFGPK 244
           YC  C+   +   
Sbjct: 54  YCLNCFCDLYASG 66

>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 = 7e-09
 Identities = 27/143 (18%), Positives = 39/143 (27%), Gaps = 53/143 (37%)

Query: 173 CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGK-KH 230
           C  C   + A  + +  K   WH  CF+C  C   L +             +T   K   
Sbjct: 8   CVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLAN-------------ETFVAKDNK 54

Query: 231 KYCKACYGKNFGPKGFGYGHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVY 290
             C  C  +   PK                                     C  C   + 
Sbjct: 55  ILCNKCTTREDSPK-------------------------------------CKGCFKAIV 77

Query: 291 AAEQMIS-KNRIWHRRCFSCADC 312
           A +Q +  K  +WH+ CFS    
Sbjct: 78  AGDQNVEYKGTVWHKDCFSGPSS 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 = 48.6 bits (116), Expect = 9e-08
 Identities = 16/63 (25%), Positives = 27/63 (42%), Gaps = 1/63 (1%)

Query: 22 PKCPACGKSVYAAEERV-AGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKY 80
            C  C K + A  + V      +H  CF+C+ C   L +      + ++ C +C  R+ 
Sbjct: 6  SGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTRED 65

Query: 81 GPK 83
           PK
Sbjct: 66 SPK 68

>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 = 45.5 bits (108), Expect = 1e-06
 Identities = 25/77 (32%), Positives = 32/77 (41%), Gaps = 4/77 (5%)

Query: 282 CPRCGFVVYAAEQMIS-KNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFG 340
           C  C   + A  + +  KNR WH  CF CA C   L +       DN I C  C  +   
Sbjct: 8   CVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAK-DNKILCNKCTTREDS 66

Query: 341 PK--GCGFGLGAGALTM 355
           PK  GC   + AG   +
Sbjct: 67  PKCKGCFKAIVAGDQNV 83

>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 = 40.1 bits (94), Expect = 8e-05
 Identities = 17/104 (16%), Positives = 28/104 (26%), Gaps = 43/104 (41%)

Query: 101 CSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVI 160
           C   L +      + ++ C +C  R+  PK                              
Sbjct: 39  CLHPLANETFVAKDNKILCNKCTTREDSPK------------------------------ 68

Query: 161 DTAKIKAAPGKGCPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDC 203
                       C  C   + A +Q +  KG+ WH+ CF     
Sbjct: 69  ------------CKGCFKAIVAGDQNVEYKGTVWHKDCFSGPSS 100

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

 Score = 50.0 bits (120), Expect = 1e-08
 Identities = 15/61 (24%), Positives = 24/61 (39%), Gaps = 1/61 (1%)

Query: 22 PKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYG 81
          P C AC + +       A G ++H   F C+ C K        E +   YC   + + +G
Sbjct: 6  PICGACRRPIEG-RVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLFG 64

Query: 82 P 82
           
Sbjct: 65 D 65

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

 Score = 41.1 bits (97), Expect = 2e-05
 Identities = 13/60 (21%), Positives = 20/60 (33%), Gaps = 2/60 (3%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGP 341
           C  C   +     + +  + WH   F CA C +        +      YC   Y + FG 
Sbjct: 8   CGACRRPIEG-RVVNAMGKQWHVEHFVCAKCEKPFLGHRHYE-RKGLAYCETHYNQLFGD 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 = 40.7 bits (96), Expect = 3e-05
 Identities = 18/72 (25%), Positives = 24/72 (33%), Gaps = 15/72 (20%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHK- 231
           C  C   +     V A G +WH + F C  C K                    Y +K   
Sbjct: 8   CGACRRPI-EGRVVNAMGKQWHVEHFVCAKCEKPFLG-------------HRHYERKGLA 53

Query: 232 YCKACYGKNFGP 243
           YC+  Y + FG 
Sbjct: 54  YCETHYNQLFGD 65

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

 Score = 50.1 bits (120), Expect = 1e-08
 Identities = 17/65 (26%), Positives = 23/65 (35%), Gaps = 1/65 (1%)

Query: 22 PKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYG 81
            C  C K++  +         +H  CF C  CSK L     T  E + YC  C+     
Sbjct: 6  SGCVKCNKAI-TSGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFVS 64

Query: 82 PKGYG 86
              G
Sbjct: 65 GPSSG 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 = 44.3 bits (105), Expect = 2e-06
 Identities = 14/64 (21%), Positives = 24/64 (37%), Gaps = 2/64 (3%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGP 341
           C +C   +  +  +  +++ WH  CF C  C + L         ++  YC  CY      
Sbjct: 8   CVKCNKAI-TSGGITYQDQPWHADCFVCVTCSKKLAGQRFTA-VEDQYYCVDCYKNFVSG 65

Query: 342 KGCG 345
              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 = 42.8 bits (101), Expect = 5e-06
 Identities = 15/76 (19%), Positives = 24/76 (31%), Gaps = 15/76 (19%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHK- 231
           C +C   + +   +  +   WH  CF C  C+K L               +     + + 
Sbjct: 8   CVKCNKAITS-GGITYQDQPWHADCFVCVTCSKKLAG-------------QRFTAVEDQY 53

Query: 232 YCKACYGKNFGPKGFG 247
           YC  CY         G
Sbjct: 54  YCVDCYKNFVSGPSSG 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 = 13/65 (20%), Positives = 18/65 (27%), Gaps = 3/65 (4%)

Query: 22 PKCPACGKSVYAAEER---VAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGR 78
            C  C   +              ++H  CF C  CS  L          ++ C  C   
Sbjct: 6  SGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGKD 65

Query: 79 KYGPK 83
            GP 
Sbjct: 66 ISGPS 70

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

 Score = 40.6 bits (95), Expect = 4e-05
 Identities = 17/64 (26%), Positives = 22/64 (34%), Gaps = 4/64 (6%)

Query: 282 CPRCGFVVYAAEQ---MISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKN 338
           C  C   +        +  + R WH  CF+C  C  SL          +DI C  C    
Sbjct: 8   CAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLT-ERDDILCPDCGKDI 66

Query: 339 FGPK 342
            GP 
Sbjct: 67  SGPS 70

>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 = 39.0 bits (91), Expect = 1e-04
 Identities = 14/79 (17%), Positives = 25/79 (31%), Gaps = 17/79 (21%)

Query: 170 GKGCPRCG---GVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 226
             GC  C      +   + +  +  +WH  CF C+ C+ +L               +   
Sbjct: 5   SSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVG-------------RGFL 51

Query: 227 GKKHK-YCKACYGKNFGPK 244
            ++    C  C     GP 
Sbjct: 52  TERDDILCPDCGKDISGPS 70

>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 = 47.4 bits (113), Expect = 1e-07
 Identities = 15/62 (24%), Positives = 24/62 (38%), Gaps = 1/62 (1%)

Query: 22 PKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYG 81
            C  CG+ +       A    +H  CF+C +C + L      ++     CR CH R+  
Sbjct: 6  SGCHQCGEFI-IGRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNREKA 64

Query: 82 PK 83
            
Sbjct: 65 SG 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 = 41.3 bits (97), Expect = 2e-05
 Identities = 14/64 (21%), Positives = 26/64 (40%), Gaps = 2/64 (3%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKY 232
           C +CG  +     + A  + WH +CF+C  C + L  I           C+ C+ ++   
Sbjct: 8   CHQCGEFIIG-RVIKAMNNSWHPECFRCDLCQEVLADIGFVK-NAGRHLCRPCHNREKAS 65

Query: 233 CKAC 236
             + 
Sbjct: 66  GPSS 69

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

 Score = 39.3 bits (92), Expect = 8e-05
 Identities = 14/61 (22%), Positives = 20/61 (32%), Gaps = 2/61 (3%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGP 341
           C +CG  +     + + N  WH  CF C  C   L              CR C+ +    
Sbjct: 8   CHQCGEFI-IGRVIKAMNNSWHPECFRCDLCQEVLADIGFVK-NAGRHLCRPCHNREKAS 65

Query: 342 K 342
            
Sbjct: 66  G 66

>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 = 47.3 bits (113), Expect = 2e-07
 Identities = 14/62 (22%), Positives = 24/62 (38%), Gaps = 1/62 (1%)

Query: 22 PKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYG 81
          P+C  C K++            +H+ C  C+ C   L     T  +++ YC  C G  + 
Sbjct: 16 PRCARCSKTLTQ-GGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELFA 74

Query: 82 PK 83
            
Sbjct: 75 SG 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 = 40.0 bits (94), Expect = 6e-05
 Identities = 17/64 (26%), Positives = 24/64 (37%), Gaps = 3/64 (4%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKH-K 231
           C RC   +     V  +   WHR+C  C  C   L         D+D YC  C+G+    
Sbjct: 18  CARCSKTLTQ-GGVTYRDQPWHRECLVCTGCQTPLAG-QQFTSRDEDPYCVACFGELFAS 75

Query: 232 YCKA 235
              +
Sbjct: 76  GPSS 79

>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 = 39.6 bits (93), Expect = 8e-05
 Identities = 17/61 (27%), Positives = 24/61 (39%), Gaps = 2/61 (3%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGP 341
           C RC   +     +  +++ WHR C  C  C   L         D D YC  C+G+ F  
Sbjct: 18  CARCSKTLTQ-GGVTYRDQPWHRECLVCTGCQTPLAGQQFTS-RDEDPYCVACFGELFAS 75

Query: 342 K 342
            
Sbjct: 76  G 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 = 47.0 bits (112), Expect = 3e-07
 Identities = 15/62 (24%), Positives = 24/62 (38%), Gaps = 1/62 (1%)

Query: 22 PKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYG 81
          P C  C + +      VA G  +H   F C+ C   +      E +  LYC  C+ + + 
Sbjct: 26 PMCAHCNQVI-RGPFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFFA 84

Query: 82 PK 83
            
Sbjct: 85 SG 86

>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 = 40.1 bits (94), Expect = 8e-05
 Identities = 12/44 (27%), Positives = 18/44 (40%), Gaps = 1/44 (2%)

Query: 299 NRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPK 342
            + WH   F+CA C  ++      +     +YC  CY K F   
Sbjct: 44  GKSWHPEEFNCAHCKNTMAYIGFVE-EKGALYCELCYEKFFASG 86

>2dar_A PDZ and LIM domain protein 5; enigma homolog protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 90

 Score = 37.8 bits (88), Expect = 4e-04
 Identities = 17/57 (29%), Positives = 25/57 (43%), Gaps = 2/57 (3%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 229
           C  C  V+     ++A G  WH + F C  C  T+  I   +     +YC+ CY K 
Sbjct: 28  CAHCNQVI-RGPFLVALGKSWHPEEFNCAHCKNTMAYIGFVE-EKGALYCELCYEKF 82

>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 = 45.9 bits (109), Expect = 4e-07
 Identities = 18/61 (29%), Positives = 23/61 (37%), Gaps = 1/61 (1%)

Query: 21 NPKCPACGKSVYAAEERV-AGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRK 79
          +  C  CG+ V      V A    FH  CF CS C   L   +    E+  YC  C+   
Sbjct: 5  SSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVAT 64

Query: 80 Y 80
           
Sbjct: 65 L 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 = 45.9 bits (109), Expect = 5e-07
 Identities = 15/65 (23%), Positives = 22/65 (33%), Gaps = 2/65 (3%)

Query: 173 CPRCGGVVFAAEQVL-AKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHK 231
           C  CG  V      + A    +H  CF C  C   L         ++  YC+ CY    +
Sbjct: 8   CGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRG-QHFYAVERRAYCEGCYVATLE 66

Query: 232 YCKAC 236
              + 
Sbjct: 67  SGPSS 71

>1x61_A Thyroid receptor interacting protein 6; LIM domain, OPA-interacting protein 1, zyxin related protein 1 (ZRP-1), structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 72

 Score = 40.5 bits (95), Expect = 3e-05
 Identities = 17/66 (25%), Positives = 24/66 (36%), Gaps = 3/66 (4%)

Query: 282 CPRCGFVVYAAEQMIS-KNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFG 340
           C  CG  V      +   +R++H  CF C+ C   L   +     +   YC GCY     
Sbjct: 8   CGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAV-ERRAYCEGCYVATLE 66

Query: 341 P-KGCG 345
                G
Sbjct: 67  SGPSSG 72

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

 Score = 46.2 bits (110), Expect = 5e-07
 Identities = 12/44 (27%), Positives = 19/44 (43%)

Query: 299 NRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPK 342
            + +H  CF+C  CHR LD         + I+C   + + F   
Sbjct: 34  GKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFASG 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 = 45.1 bits (107), Expect = 1e-06
 Identities = 16/65 (24%), Positives = 29/65 (44%), Gaps = 6/65 (9%)

Query: 22 PKCPACGKSVYAAEERV--AGGYKFHKMCFKCSMCSKFLDSTN-CTEHEKELYCRQCHGR 78
           KC  C + +    +R+  A G  +H  CF C +C + LD      +   +++C +   R
Sbjct: 16 EKCATCSQPI---LDRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHR 72

Query: 79 KYGPK 83
          K+   
Sbjct: 73 KFASG 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 = 44.3 bits (105), Expect = 2e-06
 Identities = 15/57 (26%), Positives = 23/57 (40%), Gaps = 1/57 (1%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 229
           C  C   +     + A G  +H  CF C  C++ LD I         I+C   + +K
Sbjct: 18  CATCSQPI-LDRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRK 73

>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 = 2e-06
 Identities = 14/62 (22%), Positives = 22/62 (35%), Gaps = 1/62 (1%)

Query: 22 PKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYG 81
          PKC  C + V       A    +H  CF C  C     + +  E +   +C   +  + G
Sbjct: 16 PKCGGCNRPVLE-NYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHHRRG 74

Query: 82 PK 83
            
Sbjct: 75 SG 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 = 37.7 bits (88), Expect = 4e-04
 Identities = 15/66 (22%), Positives = 23/66 (34%), Gaps = 2/66 (3%)

Query: 277 RNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYG 336
                C  C   V     + + + +WH  CF C DC  S  + +  +  D   +C   Y 
Sbjct: 13  MFSPKCGGCNRPVLE-NYLSAMDTVWHPECFVCGDCFTSFSTGSFFE-LDGRPFCELHYH 70

Query: 337 KNFGPK 342
              G  
Sbjct: 71  HRRGSG 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 = 37.3 bits (87), Expect = 6e-04
 Identities = 14/76 (18%), Positives = 24/76 (31%), Gaps = 15/76 (19%)

Query: 170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKK 229
              C  C   V     + A  + WH +CF C DC  +  +              + +   
Sbjct: 15  SPKCGGCNRPVLE-NYLSAMDTVWHPECFVCGDCFTSFST-------------GSFFELD 60

Query: 230 HK-YCKACYGKNFGPK 244
            + +C+  Y    G  
Sbjct: 61  GRPFCELHYHHRRGSG 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 = 44.5 bits (105), Expect = 2e-06
 Identities = 15/58 (25%), Positives = 22/58 (37%), Gaps = 3/58 (5%)

Query: 22 PKCPACGKSVYAAEER---VAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCH 76
            C AC K +              ++H  CF C  CS  L         KE++C++C 
Sbjct: 6  SGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCG 63

>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 = 37.5 bits (87), Expect = 4e-04
 Identities = 16/62 (25%), Positives = 28/62 (45%), Gaps = 4/62 (6%)

Query: 170 GKGCPRCG---GVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 226
             GC  C      +  A+ +  + S+WH +CF C  C+ +L         +K+I+C+ C 
Sbjct: 5   SSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVG-KGFLTQNKEIFCQKCG 63

Query: 227 GK 228
             
Sbjct: 64  SG 65

>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 = 44.4 bits (105), Expect = 2e-06
 Identities = 16/56 (28%), Positives = 26/56 (46%), Gaps = 2/56 (3%)

Query: 22 PKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSK-FLDSTNCTEHEKELYCRQCH 76
           +C +C + +   E   A G  +H  CF C++C   F      T + KE  C++C 
Sbjct: 16 TRCFSCDQFI-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 = 40.2 bits (94), Expect = 6e-05
 Identities = 15/57 (26%), Positives = 20/57 (35%), Gaps = 1/57 (1%)

Query: 170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCY 226
           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 = 38.2 bits (89), Expect = 2e-04
 Identities = 11/54 (20%), Positives = 19/54 (35%), Gaps = 1/54 (1%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCY 335
           C  C   +   E + +  + +H  CF CA C       +       +  C+ C 
Sbjct: 18  CFSCDQFI-EGEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCS 70

>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 = 44.0 bits (104), Expect = 2e-06
 Identities = 15/59 (25%), Positives = 23/59 (38%), Gaps = 4/59 (6%)

Query: 22 PKCPACGKSVYAAEER----VAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCH 76
           KC  C   +    +        G  +H  CF C  CS  L +     H++++YC  C 
Sbjct: 16 KKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYCPDCA 74

>2egq_A FHL1 protein; LIM domain, four and A half LIM domains protein 1, skeletal muscle LIM- protein 1, SLIM 1, structural genomics NPPSFA; NMR {Homo sapiens} Length = 77

 Score = 39.8 bits (93), Expect = 7e-05
 Identities = 17/63 (26%), Positives = 24/63 (38%), Gaps = 5/63 (7%)

Query: 170 GKGCPRCG----GVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTC 225
            K C  C     G    +  V  +G  WH  CF C+ C+  L +        + +YC  C
Sbjct: 15  AKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLAN-KRFVFHQEQVYCPDC 73

Query: 226 YGK 228
             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 = 36.7 bits (85), Expect = 8e-04
 Identities = 13/60 (21%), Positives = 21/60 (35%), Gaps = 5/60 (8%)

Query: 282 CPRCGFVVYA----AEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGK 337
           C  C   +      +  +  + + WH  CF C  C  +L +          +YC  C  K
Sbjct: 18  CAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVF-HQEQVYCPDCAKK 76

>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 = 44.3 bits (104), Expect = 4e-06
 Identities = 18/113 (15%), Positives = 35/113 (30%), Gaps = 7/113 (6%)

Query: 22  PKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTN--CTEHEKELYCRQCHGRK 79
             C  C +++       A    +H+ C  C +C   L               CR+ + R 
Sbjct: 4   LTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRL 63

Query: 80  YGPKGYGFGGGAGCLSMDAGMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGY 132
            G  G+   GG   +  +  +           + ++ L  R  + +     G 
Sbjct: 64  GGSGGHMGSGGDVMVVGEPTLMGGEF-----GDEDERLITRLENTQFDAANGI 111

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

 Score = 41.2 bits (96), Expect = 5e-05
 Identities = 13/75 (17%), Positives = 18/75 (24%), Gaps = 2/75 (2%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINA-CDGPDKDIYCKTCY-GKKH 230
           C  C   +     + A    WH  C  C  C   L  +            C+  Y     
Sbjct: 6   CGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGG 65

Query: 231 KYCKACYGKNFGPKG 245
                  G +    G
Sbjct: 66  SGGHMGSGGDVMVVG 80

>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 = 43.2 bits (102), Expect = 4e-06
 Identities = 12/66 (18%), Positives = 22/66 (33%), Gaps = 1/66 (1%)

Query: 18 PAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHG 77
            + P C  CG  +     ++      H  C+ C+ C   L        E ++YC +   
Sbjct: 12 AQKLPMCDKCGTGIVGVFVKLRDR-HRHPECYVCTDCGTNLKQKGHFFVEDQIYCEKHAR 70

Query: 78 RKYGPK 83
           +    
Sbjct: 71 ERVSGP 76

>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 = 43.2 bits (102), Expect = 4e-06
 Identities = 17/67 (25%), Positives = 23/67 (34%), Gaps = 3/67 (4%)

Query: 22 PKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDS--TNCTEHEKELYCRQCHGRK 79
            C  C   +      VAG +K+H  CF C  C   ++            LYC +CH   
Sbjct: 16 EFCHGCSLLM-TGPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEV 74

Query: 80 YGPKGYG 86
                G
Sbjct: 75 VSGPSSG 81

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

 Score = 37.5 bits (87), Expect = 5e-04
 Identities = 13/70 (18%), Positives = 28/70 (40%), Gaps = 2/70 (2%)

Query: 277 RNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDND-IYCRGCY 335
           + G+ C  C  ++     M++    +H  CF+C  C   ++  +      +  +YC  C+
Sbjct: 13  KFGEFCHGCSLLM-TGPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCH 71

Query: 336 GKNFGPKGCG 345
            +       G
Sbjct: 72  NEVVSGPSSG 81

>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 = 42.9 bits (101), Expect = 7e-06
 Identities = 17/64 (26%), Positives = 21/64 (32%), Gaps = 5/64 (7%)

Query: 22 PKCPACGKSVYAAEERV--AGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRK 79
          P C  CG  +      V  A     H  CF C+ C+  L        E ELYC      +
Sbjct: 26 PLCDKCGSGI---VGAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETHARAR 82

Query: 80 YGPK 83
              
Sbjct: 83 TSGP 86

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

 Score = 40.2 bits (94), Expect = 6e-05
 Identities = 14/65 (21%), Positives = 26/65 (40%), Gaps = 4/65 (6%)

Query: 282 CPRCGFVVYAAEQMIS-KNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFG 340
           C +CG  +     ++  +++  H  CF CADC+ +L         + ++YC         
Sbjct: 28  CDKCGSGIV--GAVVKARDKYRHPECFVCADCNLNLKQKGYFF-VEGELYCETHARARTS 84

Query: 341 PKGCG 345
               G
Sbjct: 85  GPSSG 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 = 37.9 bits (88), Expect = 5e-04
 Identities = 16/58 (27%), Positives = 24/58 (41%), Gaps = 2/58 (3%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKH 230
           C +CG  +     V A+    H +CF C DCN  L          + +YC+T    + 
Sbjct: 28  CDKCGSGI-VGAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGE-LYCETHARART 83

>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 = 39.8 bits (93), Expect = 7e-05
 Identities = 15/60 (25%), Positives = 23/60 (38%), Gaps = 2/60 (3%)

Query: 21 NPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKY 80
             C  C   +   +  +     +H   F C+ C K L +    E + ELYC  CH +  
Sbjct: 15 KYICQKCHAII-DEQPLIFKNDPYHPDHFNCANCGKELTAD-ARELKGELYCLPCHDKMG 72

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

 Score = 37.1 bits (86), Expect = 6e-04
 Identities = 15/58 (25%), Positives = 28/58 (48%), Gaps = 3/58 (5%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNF 339
           C +C  ++   + +I KN  +H   F+CA+C + L +         ++YC  C+ K  
Sbjct: 18  CQKCHAII-DEQPLIFKNDPYHPDHFNCANCGKELTADAREL--KGELYCLPCHDKMG 72

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

 Score = 37.8 bits (87), Expect = 3e-04
 Identities = 11/56 (19%), Positives = 19/56 (33%), Gaps = 2/56 (3%)

Query: 21 NPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSK-FLDSTNCTEHEKELYCRQC 75
          +  C +C K +       AG   +H  C  C  C + F +          ++   C
Sbjct: 5  SSGCDSCEKYI-TGRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWHPAC 59

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	356
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.98
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.92
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.91
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.91
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.91
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.91
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.91
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.89
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.89
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.88
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.88
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.86
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.82
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.75
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	99.74
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.72
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.72
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.71
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.71
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.7
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.69
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.69
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.68
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	99.65
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.64
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.64
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.62
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.62
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	99.62
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	99.62
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	99.61
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	99.61
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.61
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.61
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	99.6
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.6
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	99.59
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	99.59
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	99.59
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.59
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	99.58
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	99.58
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	99.58
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.58
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.57
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	99.57
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.57
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	99.57
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	99.57
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.57
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.56
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	99.56
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	99.56
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	99.55
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	99.55
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	99.55
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.54
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	99.53
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	99.53
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	99.53
2co8_A	82	NEDD9 interacting protein with calponin homology a	99.53
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.53
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.53
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	99.52
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.51
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	99.51
2co8_A	82	NEDD9 interacting protein with calponin homology a	99.5
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	99.5
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	99.5
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	99.49
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	99.49
2cor_A	79	Pinch protein; LIM domain, particularly interestin	99.48
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	99.48
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.47
2cor_A	79	Pinch protein; LIM domain, particularly interestin	99.46
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	99.45
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	99.43
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	99.43
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	99.42
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	99.42
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	99.36
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	99.35
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	99.33
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	99.32
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	98.08
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	97.96

>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=99.98  E-value=1.1e-32  Score=242.62  Aligned_cols=188  Identities=47%  Similarity=0.906  Sum_probs=144.6

Q ss_pred             CCCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCCccCCCcceeecc
Q psy12252         18 PAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMD   97 (356)
Q Consensus        18 ~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~~c~~~~~~~~~~   97 (356)
                      -...++|..|+++|..++.+.++|+.||++||+|..|+++|.+..|++++|++||+.||.++|+++|.+|+++.|+    
T Consensus         4 ~~~~~~C~~C~~~I~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~f~~~c~~c~~~~g~----   79 (192)
T 1b8t_A            4 WGGGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGT----   79 (192)
T ss_dssp             CCCCEECTTTCCEECSSCCEEETTEEECTTTCBCTTTCCBCCSSSEEEETTEEEEHHHHHHHHSCCCCCCCCCCCC----
T ss_pred             CCCCCcCccCCCeecceeEEEeCCceecCCCCcCcccCCcCCCCeeEecCCEeeChhhhHhhcCcccccccccccc----
Confidence            3456899999999997788889999999999999999999999999999999999999999999988766542211    


Q ss_pred             cccccccCCCCcccccCCceecccCcCcccCCCCCCCCCCCCcCCCCcccccccCCCCCccccccccccCCCCCCCCCCC
Q psy12252         98 AGMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCG  177 (356)
Q Consensus        98 ~~~c~~~l~~~~~~~~~~~~~C~~c~~~~~~p~~~~~~~g~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~  177 (356)
                                                                                                      
T Consensus        80 --------------------------------------------------------------------------------   79 (192)
T 1b8t_A           80 --------------------------------------------------------------------------------   79 (192)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             --------------------------------------------------------------------------------
Confidence                                                                                            


Q ss_pred             ceEecceeeccCCCcccccccccccCcCcCCCCccccCCCCceecccccccCCcccccccccccCCCcccCCCCCceeec
Q psy12252        178 GVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVST  257 (356)
Q Consensus       178 ~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~  257 (356)
                               .+.++.||   |.+..+.       .   ....+  ..+           ....+.               
T Consensus        80 ---------~~~~~~~~---~~~~~~~-------~---~~~~p--~~~-----------~~~~~~---------------  109 (192)
T 1b8t_A           80 ---------LSTDKGES---LGIKYEE-------G---QSHRP--TNP-----------NASRMA---------------  109 (192)
T ss_dssp             ---------CCCCCCCC---CCCCCCC-------C---CCCCC--CCC-----------CCCCCC---------------
T ss_pred             ---------EecCCCcc---ccccccc-------c---cccCC--CCc-----------Cccccc---------------
Confidence                     12234455   2221110       0   01111  000           000000               


Q ss_pred             CCCCccccCCCCCCCCCCCCCCCCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCcccccccccc
Q psy12252        258 SGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGK  337 (356)
Q Consensus       258 ~~~~~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~  337 (356)
                                      ...++..+|++|+++|.+++.|.++++.||++||+|+.|+++|.++.|+ ..+|++||+.||.+
T Consensus       110 ----------------~~~~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~cy~~  172 (192)
T 1b8t_A          110 ----------------QKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLA-DKDGEIYCKGCYAK  172 (192)
T ss_dssp             ----------------CCCCCCEECTTTSCEECSSSCEEETTEEECTTTCBCTTTCCBCCSSSEE-EETTEEEEHHHHHH
T ss_pred             ----------------cccCCCCcCCCCCCEecCcEEEecCCCccchhcCCccccCCCCCCCccc-ccCCEEeCHHHHHH
Confidence                            1112234799999999988889999999999999999999999988877 69999999999999


Q ss_pred             ccCCCccccCCCCCccccC
Q psy12252        338 NFGPKGCGFGLGAGALTMA  356 (356)
Q Consensus       338 ~f~~~~~~~~~~~~~~~~~  356 (356)
                      +||++|.+++.++|+|.|+
T Consensus       173 ~f~~kc~~C~~~~g~~~~~  191 (192)
T 1b8t_A          173 NFGPKGFGFGQGAGALIHS  191 (192)
T ss_dssp             HTCCCCCCCCCCCCCCCCC
T ss_pred             hcCCcCCCCCCcccceeec
Confidence            9999999999999999875

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

Probab=99.92  E-value=2.7e-26  Score=189.49  Aligned_cols=125  Identities=23%  Similarity=0.415  Sum_probs=106.8

Q ss_pred             CCCCCCCceEecceeeccCCCcccccccccccCcCcCCC--CccccCCCCceecccccccCCcccccccccccCCCcccC
Q psy12252        171 KGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDS--INACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGY  248 (356)
Q Consensus       171 ~~C~~C~~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~~--~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~~~~~~~~~  248 (356)
                      .+|.+|+++|.+.+.+.|+++.||++||+|..|+++|..  ..|+ .++|++||           ..||.++++++    
T Consensus         3 ~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~-~~~g~~yC-----------~~~y~~~~~~~----   66 (131)
T 2xjy_A            3 LTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLY-YKLGRKLC-----------RRDYLRLFGQD----   66 (131)
T ss_dssp             CBBTTTCCBCCSSEEEEETTEEEETTTCBCTTTCCBCSSTTCCEE-EETTEEEC-----------HHHHHHHHCCC----
T ss_pred             ccCcCCCCEeCCcEEEEECCCcccHHHcccCcCCCccccCCCeEE-EECCEEee-----------cCchhhhCCCc----
Confidence            579999999998777899999999999999999999974  3454 48999999           77777777641    


Q ss_pred             CCCCceeecCCCCccccCCCCCCCCCCCCCCCCCCCCCceeecce-EEEeCCcccccCcccccccCCCCCCC-CCccCCC
Q psy12252        249 GHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAE-QMISKNRIWHRRCFSCADCHRSLDST-NLNDGPD  326 (356)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e-~v~~~g~~~H~~CF~C~~C~~~L~~~-~~~~~~~  326 (356)
                                                     .+|++|+++|.+.| .|.+.++.||++||+|+.|+++|..+ .|+ ..+
T Consensus        67 -------------------------------~~C~~C~~~I~~~e~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~-~~~  114 (131)
T 2xjy_A           67 -------------------------------GLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYL-LIN  114 (131)
T ss_dssp             -------------------------------EECTTTCCEECTTSEEEEETTEEEEGGGCBCTTTCCBCCTTCEEE-EET
T ss_pred             -------------------------------cChhhcCCccCccceeEeeCCceECccCcccCCCCCCCCCCCEEE-EEC
Confidence                                           15999999999766 46799999999999999999999644 465 589


Q ss_pred             CccccccccccccCCCc
Q psy12252        327 NDIYCRGCYGKNFGPKG  343 (356)
Q Consensus       327 g~~yC~~c~~~~f~~~~  343 (356)
                      |++||..||.++|++++
T Consensus       115 ~~~~C~~c~~~~~~~~~  131 (131)
T 2xjy_A          115 SDIVCEQDIYEWTKING  131 (131)
T ss_dssp             TEEEEGGGHHHHHHHHC
T ss_pred             CEEEcHHHHHHHhhccC
Confidence            99999999999998754

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

Probab=99.91  E-value=8.3e-26  Score=186.57  Aligned_cols=118  Identities=23%  Similarity=0.385  Sum_probs=100.4

Q ss_pred             CCCCCCCCCccccceEEEeCCceeccCCcccccccccccC--CCccccCCcccCccccccccCCCCCccCCCcceeeccc
Q psy12252         21 NPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDS--TNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDA   98 (356)
Q Consensus        21 ~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~--~~~~~~~g~~yC~~cy~~~~~~~c~~c~~~~~~~~~~~   98 (356)
                      .+.|.+|+++|.+.+.+.|+|+.||++||+|+.|+++|..  ..|++++|++||.+||.++|+++               
T Consensus         2 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~~---------------   66 (131)
T 2xjy_A            2 LLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQD---------------   66 (131)
T ss_dssp             CCBBTTTCCBCCSSEEEEETTEEEETTTCBCTTTCCBCSSTTCCEEEETTEEECHHHHHHHHCCC---------------
T ss_pred             cccCcCCCCEeCCcEEEEECCCcccHHHcccCcCCCccccCCCeEEEECCEEeecCchhhhCCCc---------------
Confidence            4689999999998778889999999999999999999964  58999999999999999988652               


Q ss_pred             ccccccCCCCcccccCCceecccCcCcccCCCCCCCCCCCCcCCCCcccccccCCCCCccccccccccCCCCCCCCCCCc
Q psy12252         99 GMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCGG  178 (356)
Q Consensus        99 ~~c~~~l~~~~~~~~~~~~~C~~c~~~~~~p~~~~~~~g~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~  178 (356)
                                                                                              .+|..|++
T Consensus        67 ------------------------------------------------------------------------~~C~~C~~   74 (131)
T 2xjy_A           67 ------------------------------------------------------------------------GLCASCDK   74 (131)
T ss_dssp             ------------------------------------------------------------------------EECTTTCC
T ss_pred             ------------------------------------------------------------------------cChhhcCC
Confidence                                                                                    14778888


Q ss_pred             eEecce-eeccCCCcccccccccccCcCcCCC-CccccCCCCceeccccc
Q psy12252        179 VVFAAE-QVLAKGSEWHRKCFKCRDCNKTLDS-INACDGPDKDIYCKTCY  226 (356)
Q Consensus       179 ~I~~~~-~i~a~~~~~H~~CF~C~~C~~~l~~-~~~~~~~~g~~~C~~c~  226 (356)
                      +|.+.+ .+.++++.||++||+|..|+++|.. ..|+ ..++++||..||
T Consensus        75 ~I~~~e~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~-~~~~~~~C~~c~  123 (131)
T 2xjy_A           75 RIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYL-LINSDIVCEQDI  123 (131)
T ss_dssp             EECTTSEEEEETTEEEEGGGCBCTTTCCBCCTTCEEE-EETTEEEEGGGH
T ss_pred             ccCccceeEeeCCceECccCcccCCCCCCCCCCCEEE-EECCEEEcHHHH
Confidence            998654 5689999999999999999999964 4454 479999994443

>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=99.91  E-value=6.5e-26  Score=198.72  Aligned_cols=134  Identities=25%  Similarity=0.577  Sum_probs=106.3

Q ss_pred             CCCCCCCCceEecceeeccCCCcccccccccccCcCcCCC--CccccCCCCceecccccccCCcccccccccccCCCccc
Q psy12252        170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDS--INACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFG  247 (356)
Q Consensus       170 ~~~C~~C~~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~~--~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~~~~~~~~  247 (356)
                      ..+|.+|+++|.+.+.+.|+++.||++||+|..|+++|..  ..|+ .++|++||           ..||.++|+++   
T Consensus         5 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~-~~~g~~yC-----------~~cy~~~~~~~---   69 (188)
T 1rut_X            5 WKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSY-TKSGMILC-----------RNDYIRLFGNS---   69 (188)
T ss_dssp             CCBBTTTCCBCCCSEEEEETTEEECGGGCBCTTTCCBHHHHCSEEE-EETTEEEC-----------HHHHHHHHSCC---
T ss_pred             CCcCccCCCEeCCceeEEecCcEecccCcccCCCCcccccCCceEE-EeCCcccc-----------ccccccccccC---
Confidence            3689999999998777899999999999999999999986  3454 48999999           77777777651   


Q ss_pred             CCCCCceeecCCCCccccCCCCCCCCCCCCCCCCCCCCCceeecceE-EEeCCcccccCcccccccCCCCCCCC-CccCC
Q psy12252        248 YGHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQ-MISKNRIWHRRCFSCADCHRSLDSTN-LNDGP  325 (356)
Q Consensus       248 ~~~~~~~~~~~~~~~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e~-v~~~g~~~H~~CF~C~~C~~~L~~~~-~~~~~  325 (356)
                                                      .+|++|+++|.+.|. |.+.++.||++||+|..|+++|..+. |+ ..
T Consensus        70 --------------------------------~~C~~C~~~I~~~e~~i~a~~~~~H~~CF~C~~C~~~L~~g~~f~-~~  116 (188)
T 1rut_X           70 --------------------------------GACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFH-YI  116 (188)
T ss_dssp             --------------------------------EECTTTCCEECTTSEEEEETTEEECGGGCBCTTTCCBCCTTCEEE-EE
T ss_pred             --------------------------------CccccCCCccccCcEEEEcCCCEEeCCCCeECCCCCCCCCCCeEE-EE
Confidence                                            159999999997664 57999999999999999999997554 65 58


Q ss_pred             CCccccccccccccCCCccccCCCCC
Q psy12252        326 DNDIYCRGCYGKNFGPKGCGFGLGAG  351 (356)
Q Consensus       326 ~g~~yC~~c~~~~f~~~~~~~~~~~~  351 (356)
                      ++++||+.||.++|++++.+.+.++|
T Consensus       117 ~g~~yC~~c~~~~~~~~~~~~g~~~~  142 (188)
T 1rut_X          117 NGSLFCEHDRPTALINGHLNSGGSGG  142 (188)
T ss_dssp             TTEEEEGGGCCTTTC-----------
T ss_pred             CCeEECHHHHHHHhcccccccCCCCc
Confidence            99999999999999999988877655

>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=99.91  E-value=2.9e-25  Score=194.58  Aligned_cols=128  Identities=24%  Similarity=0.455  Sum_probs=105.7

Q ss_pred             CCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccC--CCccccCCcccCccccccccCCCCCccCCCcceeec
Q psy12252         19 AENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDS--TNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSM   96 (356)
Q Consensus        19 ~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~--~~~~~~~g~~yC~~cy~~~~~~~c~~c~~~~~~~~~   96 (356)
                      +..+.|..|+++|.+.+.+.|+|+.||++||+|..|+++|..  ..|++++|++||+.||.++|+++             
T Consensus         3 l~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~cy~~~~~~~-------------   69 (188)
T 1rut_X            3 LSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNS-------------   69 (188)
T ss_dssp             -CCCBBTTTCCBCCCSEEEEETTEEECGGGCBCTTTCCBHHHHCSEEEEETTEEECHHHHHHHHSCC-------------
T ss_pred             CCCCcCccCCCEeCCceeEEecCcEecccCcccCCCCcccccCCceEEEeCCccccccccccccccC-------------
Confidence            456899999999998778889999999999999999999986  68999999999999999987652             


Q ss_pred             ccccccccCCCCcccccCCceecccCcCcccCCCCCCCCCCCCcCCCCcccccccCCCCCccccccccccCCCCCCCCCC
Q psy12252         97 DAGMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRC  176 (356)
Q Consensus        97 ~~~~c~~~l~~~~~~~~~~~~~C~~c~~~~~~p~~~~~~~g~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C  176 (356)
                                                                                                .+|..|
T Consensus        70 --------------------------------------------------------------------------~~C~~C   75 (188)
T 1rut_X           70 --------------------------------------------------------------------------GACSAC   75 (188)
T ss_dssp             --------------------------------------------------------------------------EECTTT
T ss_pred             --------------------------------------------------------------------------CccccC
Confidence                                                                                      147788


Q ss_pred             CceEecce-eeccCCCcccccccccccCcCcCCCC-ccccCCCCceecccccccCCcccccccccccCCCc
Q psy12252        177 GGVVFAAE-QVLAKGSEWHRKCFKCRDCNKTLDSI-NACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKG  245 (356)
Q Consensus       177 ~~~I~~~~-~i~a~~~~~H~~CF~C~~C~~~l~~~-~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~~~~~~  245 (356)
                      +++|...+ .+.++++.||++||+|..|+++|..+ .|+ ..++++||           ..||.+++++++
T Consensus        76 ~~~I~~~e~~i~a~~~~~H~~CF~C~~C~~~L~~g~~f~-~~~g~~yC-----------~~c~~~~~~~~~  134 (188)
T 1rut_X           76 GQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFH-YINGSLFC-----------EHDRPTALINGH  134 (188)
T ss_dssp             CCEECTTSEEEEETTEEECGGGCBCTTTCCBCCTTCEEE-EETTEEEE-----------GGGCCTTTC---
T ss_pred             CCccccCcEEEEcCCCEEeCCCCeECCCCCCCCCCCeEE-EECCeEEC-----------HHHHHHHhcccc
Confidence            88998655 56799999999999999999999644 454 47999999           566666666543

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

Probab=99.91  E-value=2.6e-25  Score=182.42  Aligned_cols=116  Identities=22%  Similarity=0.517  Sum_probs=101.6

Q ss_pred             CCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCCccCCCcceeecccc
Q psy12252         20 ENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAG   99 (356)
Q Consensus        20 ~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~~c~~~~~~~~~~~~   99 (356)
                      ..++|.+|+++|.+++.+.++|+.||++||+|+.|+++|.+..|++++|++||+.||.++|+++                
T Consensus         2 ~~~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~----------------   65 (126)
T 2xqn_T            2 EKPRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVV----------------   65 (126)
T ss_dssp             CCCBBTTTSSBCCSSCEEEETTEEECGGGSBCTTTCCBCTTSEEEEETTEEEEHHHHHHHSCCB----------------
T ss_pred             cCCCCccCCCEeCCceEEeeCCCCccCCCCCcCCCCCCCCcCEEEeECCEEechHHhCcCcCcc----------------
Confidence            4689999999999878889999999999999999999999889999999999999999987664                


Q ss_pred             cccccCCCCcccccCCceecccCcCcccCCCCCCCCCCCCcCCCCcccccccCCCCCccccccccccCCCCCCCCCCCce
Q psy12252        100 MCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCGGV  179 (356)
Q Consensus       100 ~c~~~l~~~~~~~~~~~~~C~~c~~~~~~p~~~~~~~g~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~  179 (356)
                                                                                               |.+|+++
T Consensus        66 -------------------------------------------------------------------------C~~C~~~   72 (126)
T 2xqn_T           66 -------------------------------------------------------------------------CQGCHNA   72 (126)
T ss_dssp             -------------------------------------------------------------------------CTTTCSB
T ss_pred             -------------------------------------------------------------------------CcccCCc
Confidence                                                                                     5666777


Q ss_pred             Eecc-eeeccCCCccc--ccccccccCcCcCCCCccccCCCCceecccc
Q psy12252        180 VFAA-EQVLAKGSEWH--RKCFKCRDCNKTLDSINACDGPDKDIYCKTC  225 (356)
Q Consensus       180 I~~~-~~i~a~~~~~H--~~CF~C~~C~~~l~~~~~~~~~~g~~~C~~c  225 (356)
                      |.++ ..|.++++.||  ++||+|..|+++|.+..|+ ..++++||..+
T Consensus        73 I~~~~~~~~a~~~~~H~~~~CF~C~~C~~~l~~~~f~-~~~~~~yC~~~  120 (126)
T 2xqn_T           73 IDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFM-PVEGMVFCSVE  120 (126)
T ss_dssp             CCTTSCEEEETTEEEESSTTTSBCTTTCCBCTTSEEE-EETTEEESSHH
T ss_pred             CCcCceEEECCCCEeeCCCCCcCcCCCCCccCCCeeE-eECCEEcchHH
Confidence            7753 45789999999  9999999999999977665 47999999533

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

Probab=99.91  E-value=2.1e-25  Score=182.95  Aligned_cols=120  Identities=26%  Similarity=0.577  Sum_probs=107.0

Q ss_pred             CCCCCCCceEecceeeccCCCcccccccccccCcCcCCCCccccCCCCceecccccccCCcccccccccccCCCcccCCC
Q psy12252        171 KGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGH  250 (356)
Q Consensus       171 ~~C~~C~~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~~~~~~~~~~~  250 (356)
                      ++|.+|+++|.+++.+.++|+.||++||+|..|+++|.+..|+ .++|++||           ..||.++|++       
T Consensus         4 ~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~-~~~g~~yC-----------~~cy~~~~~~-------   64 (126)
T 2xqn_T            4 PRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYV-MVNDKPVC-----------KPCYVKNHAV-------   64 (126)
T ss_dssp             CBBTTTSSBCCSSCEEEETTEEECGGGSBCTTTCCBCTTSEEE-EETTEEEE-----------HHHHHHHSCC-------
T ss_pred             CCCccCCCEeCCceEEeeCCCCccCCCCCcCCCCCCCCcCEEE-eECCEEec-----------hHHhCcCcCc-------
Confidence            5899999999988888999999999999999999999987665 48999999           7778777776       


Q ss_pred             CCceeecCCCCccccCCCCCCCCCCCCCCCCCCCCCceeecc-eEEEeCCcccc--cCcccccccCCCCCCCCCccCCCC
Q psy12252        251 SPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAA-EQMISKNRIWH--RRCFSCADCHRSLDSTNLNDGPDN  327 (356)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~-e~v~~~g~~~H--~~CF~C~~C~~~L~~~~~~~~~~g  327 (356)
                                                    +|++|+++|.++ ..|.++++.||  ++||+|+.|+++|.+..|+ ..+|
T Consensus        65 ------------------------------~C~~C~~~I~~~~~~~~a~~~~~H~~~~CF~C~~C~~~l~~~~f~-~~~~  113 (126)
T 2xqn_T           65 ------------------------------VCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFM-PVEG  113 (126)
T ss_dssp             ------------------------------BCTTTCSBCCTTSCEEEETTEEEESSTTTSBCTTTCCBCTTSEEE-EETT
T ss_pred             ------------------------------cCcccCCcCCcCceEEECCCCEeeCCCCCcCcCCCCCccCCCeeE-eECC
Confidence                                          699999999975 45789999999  9999999999999977776 5899


Q ss_pred             ccccccccccccC
Q psy12252        328 DIYCRGCYGKNFG  340 (356)
Q Consensus       328 ~~yC~~c~~~~f~  340 (356)
                      ++||+.+|.++|.
T Consensus       114 ~~yC~~~~~~~f~  126 (126)
T 2xqn_T          114 MVFCSVECKKRMS  126 (126)
T ss_dssp             EEESSHHHHHSCC
T ss_pred             EEcchHHhhhhcC
Confidence            9999988888874

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

Probab=99.89  E-value=8.1e-24  Score=184.45  Aligned_cols=120  Identities=24%  Similarity=0.485  Sum_probs=99.4

Q ss_pred             CCCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCCccCCCcceeecc
Q psy12252         18 PAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMD   97 (356)
Q Consensus        18 ~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~~c~~~~~~~~~~   97 (356)
                      ....++|..|+++|.+.+.+.++|+.||++||+|..|+++|.+.. |+++|++||+.||.++|+++              
T Consensus        57 ~~~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~-f~~~g~~yC~~~y~~~f~~k--------------  121 (182)
T 2jtn_A           57 TPEIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERC-FSRGESVYCKDDFFKRFGTK--------------  121 (182)
T ss_dssp             CCSCCBCBTSSSBCCCSEEEEETTEEECSSTTSCTTTCCCCSSCC-EEETTEEECHHHHHHTTSCC--------------
T ss_pred             CCCCCcCccCCCCccCceeEEecCCeEccccCccCCCCCccCCCc-eeECCEeeecCccccccccc--------------
Confidence            345789999999999877788999999999999999999999876 48999999999999988765              


Q ss_pred             cccccccCCCCcccccCCceecccCcCcccCCCCCCCCCCCCcCCCCcccccccCCCCCccccccccccCCCCCCCCCCC
Q psy12252         98 AGMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCG  177 (356)
Q Consensus        98 ~~~c~~~l~~~~~~~~~~~~~C~~c~~~~~~p~~~~~~~g~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~  177 (356)
                                                                                                 |..|+
T Consensus       122 ---------------------------------------------------------------------------C~~C~  126 (182)
T 2jtn_A          122 ---------------------------------------------------------------------------CAACQ  126 (182)
T ss_dssp             ---------------------------------------------------------------------------CTTTC
T ss_pred             ---------------------------------------------------------------------------cccCC
Confidence                                                                                       44555


Q ss_pred             ceEeccee-eccCCCcccccccccccCcCcCCCC-ccccCCCCceecccccc
Q psy12252        178 GVVFAAEQ-VLAKGSEWHRKCFKCRDCNKTLDSI-NACDGPDKDIYCKTCYG  227 (356)
Q Consensus       178 ~~I~~~~~-i~a~~~~~H~~CF~C~~C~~~l~~~-~~~~~~~g~~~C~~c~~  227 (356)
                      ++|.+.+. +.+.+..||++||+|..|+++|..+ .|+...++++||..||.
T Consensus       127 ~~I~~~~~v~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~yC~~cy~  178 (182)
T 2jtn_A          127 LGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYE  178 (182)
T ss_dssp             CCCCSSCCCCEETTEECCTTTCCCTTTCCCCCTTCEEEECTTSCEECHHHHH
T ss_pred             CccCCCceEEecCCCCEEeCCCcCCCCCCCCCCCCceEEccCCEEECHHHHH
Confidence            66665443 4689999999999999999999854 44445789999965554

>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=99.89  E-value=7.1e-24  Score=182.64  Aligned_cols=117  Identities=25%  Similarity=0.498  Sum_probs=97.0

Q ss_pred             CCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCCccCCCcceeecccc
Q psy12252         20 ENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAG   99 (356)
Q Consensus        20 ~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~~c~~~~~~~~~~~~   99 (356)
                      ..+.|..|+++|.+.+.+.|+|+.||++||+|..|+++|.+.. ++++|++||+.||.++|+++                
T Consensus         5 ~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~-f~~~g~~yC~~~y~~~f~~~----------------   67 (169)
T 2rgt_A            5 EIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERC-FSRGESVYCKDDFFKRFGTK----------------   67 (169)
T ss_dssp             --CBBSSSSSBCCSSSCEECSSCEECTTTSBCTTTCCBCCSCC-EESSSCEECHHHHHHHHSCB----------------
T ss_pred             CCCccccCCCccCCcEEEEECCcEEccccCccCCCCCcCCCCC-cccCCeeeeccccccccccc----------------
Confidence            4689999999999877788999999999999999999999876 58999999999999988765                


Q ss_pred             cccccCCCCcccccCCceecccCcCcccCCCCCCCCCCCCcCCCCcccccccCCCCCccccccccccCCCCCCCCCCCce
Q psy12252        100 MCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGEHLTENNAPRTTVIDTAKIKAAPGKGCPRCGGV  179 (356)
Q Consensus       100 ~c~~~l~~~~~~~~~~~~~C~~c~~~~~~p~~~~~~~g~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~  179 (356)
                                                                                               |.+|+++
T Consensus        68 -------------------------------------------------------------------------C~~C~~~   74 (169)
T 2rgt_A           68 -------------------------------------------------------------------------CAACQLG   74 (169)
T ss_dssp             -------------------------------------------------------------------------CTTTCCB
T ss_pred             -------------------------------------------------------------------------ccccccc
Confidence                                                                                     5556666


Q ss_pred             Eeccee-eccCCCcccccccccccCcCcCCCC-ccccCCCCceeccccc
Q psy12252        180 VFAAEQ-VLAKGSEWHRKCFKCRDCNKTLDSI-NACDGPDKDIYCKTCY  226 (356)
Q Consensus       180 I~~~~~-i~a~~~~~H~~CF~C~~C~~~l~~~-~~~~~~~g~~~C~~c~  226 (356)
                      |.+.+. +.+++..||.+||+|..|+++|..+ .|+...++++||..||
T Consensus        75 I~~~~~v~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~~C~~c~  123 (169)
T 2rgt_A           75 IPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADY  123 (169)
T ss_dssp             CCTTSEEEEETTEEEEGGGCBCTTTCCBCCTTCEEEECTTSCEEEHHHH
T ss_pred             cCCCcEEEEcCCceEeeCCCcCCCCCCCCCCCCceEEccCCeEECHHHH
Confidence            665554 4789999999999999999999854 4444578999994444

>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=99.88  E-value=4.1e-24  Score=184.09  Aligned_cols=124  Identities=24%  Similarity=0.565  Sum_probs=107.6

Q ss_pred             CCCCCCCCceEecceeeccCCCcccccccccccCcCcCCCCccccCCCCceecccccccCCcccccccccccCCCcccCC
Q psy12252        170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYG  249 (356)
Q Consensus       170 ~~~C~~C~~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~~~~~~~~~~  249 (356)
                      ..+|.+|+++|.+.+++.|+++.||.+||+|..|+++|.+..|  .++|++||           ..||.++|++      
T Consensus         6 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f--~~~g~~yC-----------~~~y~~~f~~------   66 (169)
T 2rgt_A            6 IPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF--SRGESVYC-----------KDDFFKRFGT------   66 (169)
T ss_dssp             -CBBSSSSSBCCSSSCEECSSCEECTTTSBCTTTCCBCCSCCE--ESSSCEEC-----------HHHHHHHHSC------
T ss_pred             CCccccCCCccCCcEEEEECCcEEccccCccCCCCCcCCCCCc--ccCCeeee-----------cccccccccc------
Confidence            3689999999998777889999999999999999999998765  48999999           7788888876      


Q ss_pred             CCCceeecCCCCccccCCCCCCCCCCCCCCCCCCCCCceeecceEE-EeCCcccccCcccccccCCCCCCCC-CccCCCC
Q psy12252        250 HSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQM-ISKNRIWHRRCFSCADCHRSLDSTN-LNDGPDN  327 (356)
Q Consensus       250 ~~~~~~~~~~~~~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e~v-~~~g~~~H~~CF~C~~C~~~L~~~~-~~~~~~g  327 (356)
                                                     +|++|+++|.+++.+ .+.++.||++||+|+.|+++|..+. |+...+|
T Consensus        67 -------------------------------~C~~C~~~I~~~~~v~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g  115 (169)
T 2rgt_A           67 -------------------------------KCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDS  115 (169)
T ss_dssp             -------------------------------BCTTTCCBCCTTSEEEEETTEEEEGGGCBCTTTCCBCCTTCEEEECTTS
T ss_pred             -------------------------------cccccccccCCCcEEEEcCCceEeeCCCcCCCCCCCCCCCCceEEccCC
Confidence                                           699999999987765 6999999999999999999998654 5445789


Q ss_pred             ccccccccccccCCCc
Q psy12252        328 DIYCRGCYGKNFGPKG  343 (356)
Q Consensus       328 ~~yC~~c~~~~f~~~~  343 (356)
                      ++||+.||.++++...
T Consensus       116 ~~~C~~c~~~~~~~~~  131 (169)
T 2rgt_A          116 RLVCKADYETAKQGGS  131 (169)
T ss_dssp             CEEEHHHHHHHHHCC-
T ss_pred             eEECHHHHHHHhhccC
Confidence            9999999999987654

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

Probab=99.88  E-value=1.5e-23  Score=182.81  Aligned_cols=120  Identities=25%  Similarity=0.592  Sum_probs=104.6

Q ss_pred             CCCCCCCCCceEecceeeccCCCcccccccccccCcCcCCCCccccCCCCceecccccccCCcccccccccccCCCcccC
Q psy12252        169 PGKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGY  248 (356)
Q Consensus       169 ~~~~C~~C~~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~~~~~~~~~  248 (356)
                      ..++|.+|+++|.+.+.+.++++.||++||+|..|+++|....|  .++|++||           ..||.++|++     
T Consensus        59 ~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f--~~~g~~yC-----------~~~y~~~f~~-----  120 (182)
T 2jtn_A           59 EIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF--SRGESVYC-----------KDDFFKRFGT-----  120 (182)
T ss_dssp             SCCBCBTSSSBCCCSEEEEETTEEECSSTTSCTTTCCCCSSCCE--EETTEEEC-----------HHHHHHTTSC-----
T ss_pred             CCCcCccCCCCccCceeEEecCCeEccccCccCCCCCccCCCce--eECCEeee-----------cCcccccccc-----
Confidence            34689999999998777889999999999999999999998765  38999999           7788888876     


Q ss_pred             CCCCceeecCCCCccccCCCCCCCCCCCCCCCCCCCCCceeecceE-EEeCCcccccCcccccccCCCCCCCC-CccCCC
Q psy12252        249 GHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQ-MISKNRIWHRRCFSCADCHRSLDSTN-LNDGPD  326 (356)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e~-v~~~g~~~H~~CF~C~~C~~~L~~~~-~~~~~~  326 (356)
                                                      +|.+|+++|.+.+. +.+.++.||++||+|..|+++|..+. |+...+
T Consensus       121 --------------------------------kC~~C~~~I~~~~~v~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~  168 (182)
T 2jtn_A          121 --------------------------------KCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMED  168 (182)
T ss_dssp             --------------------------------CCTTTCCCCCSSCCCCEETTEECCTTTCCCTTTCCCCCTTCEEEECTT
T ss_pred             --------------------------------ccccCCCccCCCceEEecCCCCEEeCCCcCCCCCCCCCCCCceEEccC
Confidence                                            79999999997665 47999999999999999999998654 444578


Q ss_pred             Cccccccccccc
Q psy12252        327 NDIYCRGCYGKN  338 (356)
Q Consensus       327 g~~yC~~c~~~~  338 (356)
                      |++||+.||.++
T Consensus       169 g~~yC~~cy~~~  180 (182)
T 2jtn_A          169 SRLVCKADYETA  180 (182)
T ss_dssp             SCEECHHHHHHH
T ss_pred             CEEECHHHHHHh
Confidence            999999999875

>2cup_A Skeletal muscle LIM-protein 1; four and half LIM domains protein 1, LIM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 g.39.1.3

Probab=99.86  E-value=2.3e-22  Score=158.31  Aligned_cols=66  Identities=24%  Similarity=0.597  Sum_probs=59.6

Q ss_pred             CCCCCCCCCCCCcccc-ceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCC
Q psy12252         18 PAENPKCPACGKSVYA-AEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPK   83 (356)
Q Consensus        18 ~~~~~~C~~C~~~I~~-~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~   83 (356)
                      ++..++|..|+++|.. ++.+.++|+.||++||+|..|+++|.+..|++++|++||+.||.++|+++
T Consensus         2 s~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~   68 (101)
T 2cup_A            2 SSGSSGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSPK   68 (101)
T ss_dssp             CSCCCBCSSSCCBCCSSSCEEEETTEEEETTTCCCSSSCCCTTSSCCEEETTEEECHHHHTTCCCCB
T ss_pred             CCCCCcCcccCCcccCCceEEEECccChhhcCCcccccCCCCCcCeeECcCCEEEChhHhhhhcCCc
Confidence            3567899999999984 67888999999999999999999999889999999999999999877664

>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=99.82  E-value=4.4e-21  Score=150.92  Aligned_cols=95  Identities=28%  Similarity=0.673  Sum_probs=83.9

Q ss_pred             CCCCCCCCceEec-ceeeccCCCcccccccccccCcCcCCCCccccCCCCceecccccccCCcccccccccccCCCcccC
Q psy12252        170 GKGCPRCGGVVFA-AEQVLAKGSEWHRKCFKCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGY  248 (356)
Q Consensus       170 ~~~C~~C~~~I~~-~~~i~a~~~~~H~~CF~C~~C~~~l~~~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~~~~~~~~~  248 (356)
                      ..+|.+|+++|.. ++.|.++++.||.+||+|..|+++|.+..|+ .+++++||           ..||.++|++     
T Consensus         5 ~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC-----------~~cy~~~~~~-----   67 (101)
T 2cup_A            5 SSGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFV-AKDNKILC-----------NKCTTREDSP-----   67 (101)
T ss_dssp             CCBCSSSCCBCCSSSCEEEETTEEEETTTCCCSSSCCCTTSSCCE-EETTEEEC-----------HHHHTTCCCC-----
T ss_pred             CCcCcccCCcccCCceEEEECccChhhcCCcccccCCCCCcCeeE-CcCCEEEC-----------hhHhhhhcCC-----
Confidence            3689999999984 6788999999999999999999999877665 48999999           7778777776     


Q ss_pred             CCCCceeecCCCCccccCCCCCCCCCCCCCCCCCCCCCceeecce-EEEeCCcccccCcccccccC
Q psy12252        249 GHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAE-QMISKNRIWHRRCFSCADCH  313 (356)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e-~v~~~g~~~H~~CF~C~~C~  313 (356)
                                                      +|++|+++|.+++ .|.++|+.||++||+|+.|+
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                                            6999999999765 57899999999999999985

>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=99.75  E-value=6.9e-19  Score=143.18  Aligned_cols=110  Identities=19%  Similarity=0.234  Sum_probs=92.7

Q ss_pred             CCCCCCCCCCCccccceEEEeCCceeccCCccccccccccc--CCCccccCCcccCccccccccCC--CCCccCCCccee
Q psy12252         19 AENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLD--STNCTEHEKELYCRQCHGRKYGP--KGYGFGGGAGCL   94 (356)
Q Consensus        19 ~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~--~~~~~~~~g~~yC~~cy~~~~~~--~c~~c~~~~~~~   94 (356)
                      +..++|.+|+++|.+.+.+.++++.||++||+|+.|+++|.  +..|++++|++||..||.++|++  +|.+|.+++...
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~cy~~~f~~~~~C~~C~~~I~~~   82 (122)
T 1m3v_A            3 LSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAGGSGGHMGSGG   82 (122)
T ss_dssp             SCCCCBSSSSSCCCSSCCEEETTEEECHHHHCCSSSCCCTTTSEECCEEETTEEECHHHHHHHHCCCCSSSCSSCCSCCE
T ss_pred             CCCCCCcccCCEeCCcEEEEECCceeHhhCCCcCCCCCcccccCCeEEEECCeeecHHHHHHHcCCCCccccCCCCcCch
Confidence            45789999999999877788999999999999999999997  35799999999999999999999  999999865422


Q ss_pred             ecccccccccCCCCcccccCCceecccCcCcccCC
Q psy12252         95 SMDAGMCSKFLDSTNCTEHEKELYCRQCHGRKYGP  129 (356)
Q Consensus        95 ~~~~~~c~~~l~~~~~~~~~~~~~C~~c~~~~~~p  129 (356)
                      ... ..=+..|.|+.|+..++.+||..++...+..
T Consensus        83 ~~~-~~g~~~l~g~~f~~~~~~~yC~~~~~~~~~~  116 (122)
T 1m3v_A           83 DVM-VVGEPTLMGGEFGDEDERLITRLENTQFDAA  116 (122)
T ss_dssp             ESS-SSSSSSCCSCTTCCTTCCCCEECTTTTTTCC
T ss_pred             heE-EcCCcCCCCCccEecCCEeEccCcchhchhh
Confidence            111 1113468899999999999999999876643

>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=2.9e-18  Score=137.83  Aligned_cols=103  Identities=18%  Similarity=0.211  Sum_probs=88.4

Q ss_pred             CCCCCCCCCccccceEEEeCCceeccCCcccccccccccC--CCccccCCcccCccccccccCCCCCccCCCcceeeccc
Q psy12252         21 NPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDS--TNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDA   98 (356)
Q Consensus        21 ~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~--~~~~~~~g~~yC~~cy~~~~~~~c~~c~~~~~~~~~~~   98 (356)
                      .++|.+|+++|.+.+.+.++++.||++||+|+.|+++|.+  ..|++++|++||+.||.++|+++|..|..+..   +  
T Consensus         3 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~~y~~~f~~~c~~c~~~~~---~--   77 (114)
T 1j2o_A            3 LLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGGSGGHMGSGGDV---M--   77 (114)
T ss_dssp             CBCBSSSCSCBCSSEEEECSSSEECTTTCCCSSSCSCCCCSSSCCCCBTTBCCCHHHHHHHHTSCCSSCBSCSC---C--
T ss_pred             CCCCcCCCCeeCCcEEEEECchhHHHhcCcccccCCchhcCCCeeEEECCeeechHHHHHHhCcccCcCCCCce---e--
Confidence            5789999999998778999999999999999999999985  58999999999999999999999987764221   1  


Q ss_pred             ccccc-cCCCCcccccCCceecccCcCcccCC
Q psy12252         99 GMCSK-FLDSTNCTEHEKELYCRQCHGRKYGP  129 (356)
Q Consensus        99 ~~c~~-~l~~~~~~~~~~~~~C~~c~~~~~~p  129 (356)
                       .|.. .|.++.|...++.+||..|+....+.
T Consensus        78 -~~~~~~~~g~~f~~~~~~~~C~~~~~~~~~~  108 (114)
T 1j2o_A           78 -VVGEPTLMGGEFGDEDERLITRLENTQFDAA  108 (114)
T ss_dssp             -CSSCSSTTSSBCCCSSSCCCEEEECTTCCCT
T ss_pred             -EcCCccCCCCeeEEcCCEeecchhhhccccc
Confidence             2444 47788999999999999999876654

>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=99.72  E-value=1.5e-18  Score=130.79  Aligned_cols=79  Identities=53%  Similarity=1.090  Sum_probs=58.1

Q ss_pred             CCCCCCCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCCccCCCcce
Q psy12252         14 MPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGC   93 (356)
Q Consensus        14 ~~~~~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~~c~~~~~~   93 (356)
                      ||+ ....++|..|+++|..++.+.++++.||++||+|..|+++|.+..|+++++++||..||.++|+++|.+|++++|.
T Consensus         1 m~~-~~~~~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~gcg~g~~~   79 (81)
T 1a7i_A            1 MPN-WGGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYGPKGYGYGQGAGT   79 (81)
T ss_dssp             --------CBCSSSCCBCSSTTEEEETTEEEESSSEECSSSCCEECSSCCEEETTEEECSHHHHHHCC------------
T ss_pred             CCC-CCCCCcCcCcCccccCceeEEeCCcccccccCccCCCCCCCCCCCeEeeCCEEECHHHHHHHhCCcccccCCcccc
Confidence            565 3467899999999987788999999999999999999999999899999999999999999999999999987654

>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=99.72  E-value=9.6e-19  Score=131.88  Aligned_cols=74  Identities=47%  Similarity=1.068  Sum_probs=56.8

Q ss_pred             CCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCCccccCCCCCccc
Q psy12252        280 DGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCGFGLGAGALT  354 (356)
Q Consensus       280 ~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~~~~~~~~~~~~  354 (356)
                      .+|++|+++|.+++.|.+.++.||++||+|+.|+++|..+.|+ ..++++||+.||.++|+++|.+++.++|+|.
T Consensus         8 ~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~cy~~~f~~~c~gcg~g~~~~~   81 (81)
T 1a7i_A            8 NKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVA-IHDAEVYCKSCYGKKYGPKGYGYGQGAGTLN   81 (81)
T ss_dssp             CBCSSSCCBCSSTTEEEETTEEEESSSEECSSSCCEECSSCCE-EETTEEECSHHHHHHCC--------------
T ss_pred             CcCcCcCccccCceeEEeCCcccccccCccCCCCCCCCCCCeE-eeCCEEECHHHHHHHhCCcccccCCcccccC
Confidence            4899999999888999999999999999999999999998877 5899999999999999999999999999873

>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=99.71  E-value=4.3e-18  Score=127.92  Aligned_cols=63  Identities=24%  Similarity=0.595  Sum_probs=58.8

Q ss_pred             CCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCCccc
Q psy12252        281 GCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCG  345 (356)
Q Consensus       281 ~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~~~  345 (356)
                      +|++|+++|.+ +.|.++++.||++||+|+.|+++|.++.|+ ..+++|||+.||.++||++|.+
T Consensus        17 ~C~~C~~~I~~-~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~~y~~~f~~~C~~   79 (80)
T 1x3h_A           17 KCGGCNRPVLE-NYLSAMDTVWHPECFVCGDCFTSFSTGSFF-ELDGRPFCELHYHHRRGSGPSS   79 (80)
T ss_dssp             BCTTTCCBCCS-SCEEETTEEECTTTCBCSSSCCBSCSSCCE-ESSSCEECHHHHHHHHSSSCCC
T ss_pred             ccccCCCeecc-eeEEECCCeEecCcCChhhCCCCCCCCcEE-eECCEEECHHHHHHHcCCCCCC
Confidence            79999999985 788999999999999999999999998877 5999999999999999999974

>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=99.71  E-value=3.4e-18  Score=129.15  Aligned_cols=64  Identities=25%  Similarity=0.718  Sum_probs=57.7

Q ss_pred             CCCCCCceeec-ceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCCccc
Q psy12252        281 GCPRCGFVVYA-AEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCG  345 (356)
Q Consensus       281 ~C~~C~~~I~~-~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~~~  345 (356)
                      +|++|+++|.+ +..|.++++.||++||+|+.|+++|.++.|+ ..+++|||+.||.++|+++|..
T Consensus        17 ~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~-~~~~~~~C~~c~~~~~~~~C~~   81 (82)
T 2ehe_A           17 TCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFT-CQDSELLCNDCYCSAFSSGPSS   81 (82)
T ss_dssp             BCTTTCCBCCSSCCBCCCSSCCCBTTTSBCTTTCCBCSSCCEE-EETTEEEETTTSSCCGGGSSCC
T ss_pred             cCccCCCccccCcEEEEeCCccccccCCeecCCCCccCCCccE-eeCCEEECHHHHhhhcCCCCCC
Confidence            79999999995 4556789999999999999999999988876 5999999999999999999863

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

Probab=99.70  E-value=8.1e-18  Score=126.76  Aligned_cols=64  Identities=22%  Similarity=0.576  Sum_probs=57.6

Q ss_pred             CCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCCccc
Q psy12252        281 GCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCG  345 (356)
Q Consensus       281 ~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~~~  345 (356)
                      +|++|+++|. ++.|.++++.||++||+|+.|+++|.+..|+...+|+|||+.||.++||++|.+
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            7999999998 578899999999999999999999998877643378999999999999999874

>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=99.69  E-value=8.7e-18  Score=126.23  Aligned_cols=63  Identities=27%  Similarity=0.779  Sum_probs=58.1

Q ss_pred             CCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCCccc
Q psy12252        281 GCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCG  345 (356)
Q Consensus       281 ~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~~~  345 (356)
                      +|++|+++|.+ +.|.++++.||++||+|+.|+++|.++.|+ ..++++||+.||.++|+++|.+
T Consensus        17 ~C~~C~~~I~~-~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~cy~~~f~~~c~s   79 (80)
T 2cuq_A           17 RCARCSKTLTQ-GGVTYRDQPWHRECLVCTGCQTPLAGQQFT-SRDEDPYCVACFGELFASGPSS   79 (80)
T ss_dssp             CCTTTCCCCCS-CCEESSSSEECTTTCBCSSSCCBCTTCCEE-ECSSSEEEHHHHHHHTTCSTTC
T ss_pred             cCCCCCCEecC-cEEEECCchhhhhhCCcccCCCcCCCCeeE-eECCEEECHHHHHHHcCCCCCC
Confidence            79999999985 688999999999999999999999888776 5999999999999999999863

>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=99.69  E-value=3.8e-18  Score=138.78  Aligned_cols=113  Identities=21%  Similarity=0.387  Sum_probs=92.7

Q ss_pred             CCCCCCCCceEecceeeccCCCcccccccccccCcCcCCC--CccccCCCCceecccccccCCcccccccccccCCCccc
Q psy12252        170 GKGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDS--INACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFG  247 (356)
Q Consensus       170 ~~~C~~C~~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~~--~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~~~~~~~~  247 (356)
                      .++|.+|+++|.+.+.+.++++.||++||+|..|+++|..  ..|+ .+++++||           ..||.++|+++   
T Consensus         5 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~-~~~g~~yC-----------~~cy~~~f~~~---   69 (122)
T 1m3v_A            5 WKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSY-TKSGMILC-----------RNDYIRLFGNS---   69 (122)
T ss_dssp             CCCBSSSSSCCCSSCCEEETTEEECHHHHCCSSSCCCTTTSEECCE-EETTEEEC-----------HHHHHHHHCCC---
T ss_pred             CCCCcccCCEeCCcEEEEECCceeHhhCCCcCCCCCcccccCCeEE-EECCeeec-----------HHHHHHHcCCC---
Confidence            4689999999998877899999999999999999999973  3444 58999999           77888888763   


Q ss_pred             CCCCCceeecCCCCccccCCCCCCCCCCCCCCCCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCC
Q psy12252        248 YGHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDN  327 (356)
Q Consensus       248 ~~~~~~~~~~~~~~~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g  327 (356)
                                                      .+|++|+++|.++ .+++.|+             ..|.++.|+ ..++
T Consensus        70 --------------------------------~~C~~C~~~I~~~-~~~~~g~-------------~~l~g~~f~-~~~~  102 (122)
T 1m3v_A           70 --------------------------------GAGGSGGHMGSGG-DVMVVGE-------------PTLMGGEFG-DEDE  102 (122)
T ss_dssp             --------------------------------CSSSCSSCCSCCE-ESSSSSS-------------SSCCSCTTC-CTTC
T ss_pred             --------------------------------CccccCCCCcCch-heEEcCC-------------cCCCCCccE-ecCC
Confidence                                            1699999999864 3455553             467777776 6999


Q ss_pred             ccccccccccccCCCcc
Q psy12252        328 DIYCRGCYGKNFGPKGC  344 (356)
Q Consensus       328 ~~yC~~c~~~~f~~~~~  344 (356)
                      +|||+.||.+++..++.
T Consensus       103 ~~yC~~~~~~~~~~~g~  119 (122)
T 1m3v_A          103 RLITRLENTQFDAANGI  119 (122)
T ss_dssp             CCCEECTTTTTTCCSCC
T ss_pred             EeEccCcchhchhhcCC
Confidence            99999999999887764

>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=99.68  E-value=1.1e-17  Score=126.19  Aligned_cols=64  Identities=25%  Similarity=0.701  Sum_probs=58.7

Q ss_pred             CCCCCCceeecceE-EEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCCccc
Q psy12252        281 GCPRCGFVVYAAEQ-MISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCG  345 (356)
Q Consensus       281 ~C~~C~~~I~~~e~-v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~~~  345 (356)
                      +|++|+++|.+++. |.++++.||++||+|+.|+++|..+.|+ ..++++||+.||.++|++++.+
T Consensus        17 ~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~cy~~~f~~~~~~   81 (82)
T 1x63_A           17 KCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFF-PKGEDFYCVTCHETKFASGPSS   81 (82)
T ss_dssp             BCSSSCCBCCSSSCEEECSSCEEETTTCCCSSSCCCCTTSCEE-EETTEEEEHHHHHHHTSCCCSC
T ss_pred             cCccCCcccccCceEEEECccccccccCchhhCCCccCCCccE-eeCCEEECHHHHHHHhCCCCCC
Confidence            79999999997664 7899999999999999999999998877 5899999999999999999863

>2dj7_A Actin-binding LIM protein 3; LIM domain, Zn binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.65  E-value=1.1e-16  Score=120.16  Aligned_cols=72  Identities=21%  Similarity=0.450  Sum_probs=65.2

Q ss_pred             cCCCCCCCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCC
Q psy12252         13 IMPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGY   85 (356)
Q Consensus        13 ~~~~~~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~   85 (356)
                      .+|......++|..|+++|..++.+.++++.||++||+|..|+++|.+ .|+++++++||+.||.++|+++|.
T Consensus         7 ~~~~~~~~~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~-~~~~~~g~~yC~~~y~~~fg~~C~   78 (80)
T 2dj7_A            7 GKPIKIRGPSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTG-EYISKDGVPYCESDYHAQFGSGPS   78 (80)
T ss_dssp             CCCCCCSSCSCCTTTCCCCSSSCCEEETTEEECTTTCBCSSSCCBCSS-CCEEETTEEECTTHHHHHTTCCST
T ss_pred             CCCcCCCCCCCCcCcCCeeCCCeEEEECCcccccccCCcCcCCCCcCC-CeEEECCEEECHHHHHHHcCCCCC
Confidence            355556678899999999997788999999999999999999999985 699999999999999999999975

>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=99.64  E-value=5.6e-17  Score=122.09  Aligned_cols=64  Identities=19%  Similarity=0.541  Sum_probs=56.5

Q ss_pred             CCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCcc-CCCCccccccccccccCCCccc
Q psy12252        281 GCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLND-GPDNDIYCRGCYGKNFGPKGCG  345 (356)
Q Consensus       281 ~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~-~~~g~~yC~~c~~~~f~~~~~~  345 (356)
                      +|++|+++|. ++.|.++++.||++||+|+.|+++|..+..+. ..+++|||+.||.++|++.+.|
T Consensus        17 ~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~~C~~c~~~~~~~~~sg   81 (81)
T 1x6a_A           17 FCHGCSLLMT-GPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVVSGPSSG   81 (81)
T ss_dssp             BCTTTCCBCC-SCCBCCTTCCBCTTSCBCTTTCCBCCTTSCEEECSSSCEEEHHHHHHHHCTTSCC
T ss_pred             cCccCCCCcC-ceEEEECCceeccccCCccCCCCccCCCCcEEEeeCCEEECHHHHHHHhcCCCCC
Confidence            6999999999 67888999999999999999999997654443 4799999999999999998753

>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=99.64  E-value=1e-16  Score=119.19  Aligned_cols=69  Identities=46%  Similarity=0.982  Sum_probs=64.9

Q ss_pred             CCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCc-cccccccCCCCCccCCC
Q psy12252         22 PKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCR-QCHGRKYGPKGYGFGGG   90 (356)
Q Consensus        22 ~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~-~cy~~~~~~~c~~c~~~   90 (356)
                      ++|.+|+++|..++.+.++|+.||++||+|..|+++|.+..|++++|++||. .||.++|+++|.+|++.
T Consensus         1 p~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~~~C~~C~~~   70 (76)
T 1iml_A            1 PKCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGFGRGGA   70 (76)
T ss_dssp             CBCTTTSSBCCGGGEEEETTEEEETTTCBCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCCCSSCCCS
T ss_pred             CcCCCCCCEEECceEEEECCccccCCCCCccccCccCCCCceECcCCeEeeCHHHHHHHhCccCCCcCCc
Confidence            5799999999977889999999999999999999999998999999999999 69999999999999864

>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=99.62  E-value=1.6e-16  Score=118.03  Aligned_cols=66  Identities=41%  Similarity=0.936  Sum_probs=62.2

Q ss_pred             CCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccc-cccccccCCCccccC
Q psy12252        281 GCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCR-GCYGKNFGPKGCGFG  347 (356)
Q Consensus       281 ~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~-~c~~~~f~~~~~~~~  347 (356)
                      +|++|+++|.+++.|.++|+.||++||+|+.|+++|.++.|+ ..+|++||+ .||.++|+++|.+++
T Consensus         2 ~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~~cy~~~f~~~C~~C~   68 (76)
T 1iml_A            2 KCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHA-EHEGKPYCNHPCYSAMFGPKGFGRG   68 (76)
T ss_dssp             BCTTTSSBCCGGGEEEETTEEEETTTCBCTTTCCBCCTTTEE-EETTEEEETTTHHHHHSSCCCSSCC
T ss_pred             cCCCCCCEEECceEEEECCccccCCCCCccccCccCCCCceE-CcCCeEeeCHHHHHHHhCccCCCcC
Confidence            699999999988999999999999999999999999998877 599999999 699999999999887

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

Probab=99.62  E-value=3.7e-16  Score=116.14  Aligned_cols=69  Identities=23%  Similarity=0.458  Sum_probs=63.5

Q ss_pred             CCCCCCCCCCCcccc---ceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCCcc
Q psy12252         19 AENPKCPACGKSVYA---AEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGF   87 (356)
Q Consensus        19 ~~~~~C~~C~~~I~~---~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~~c   87 (356)
                      ...++|.+|+++|.+   .+.+.++++.||++||+|..|+++|.+..|+++++++||..||.++|+++|..+
T Consensus         3 ~~~~~C~~C~~~I~~~g~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~C~~~   74 (76)
T 1x68_A            3 SGSSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCGSGMDTDISGPS   74 (76)
T ss_dssp             TCCCCCTTTCCCCCTTTTCCEEEETTEEEEGGGCBCTTTCCBCSSSCEEEETTEEEETTTTCCCCCCSSSSS
T ss_pred             ccCCCCccCCCcccCCCCceeEEECCcccCcccCChhhCCCcCCCCceEeECCEEECHHHhhhhhCCcCCCC
Confidence            456899999999994   468889999999999999999999998899999999999999999999998765

>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=99.62  E-value=1.7e-16  Score=117.96  Aligned_cols=65  Identities=31%  Similarity=0.779  Sum_probs=60.8

Q ss_pred             CCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccc-cccccccCCCccc
Q psy12252        280 DGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCR-GCYGKNFGPKGCG  345 (356)
Q Consensus       280 ~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~-~c~~~~f~~~~~~  345 (356)
                      .+|++|+++|.+++.|.++++.||++||+|+.|+++|.++.|+ ..+++|||+ .||.++|+++|.+
T Consensus        10 ~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~~cy~~~f~~kc~g   75 (76)
T 2cu8_A           10 SKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHA-EHDGKPFCHKPCYATLFGSGPSS   75 (76)
T ss_dssp             CBCTTTCCBCCTTTEEEETTEEEETTTCBCSSSCCBCCTTSCE-EETTEEECTTTHHHHHSCSSCSC
T ss_pred             CCCcCCCCEeECCeEEEECCeEeeCCCCCCCCCCCccCCCceE-eECCEEecchHHHHHhcccccCC
Confidence            4899999999988999999999999999999999999988877 599999999 7999999999975

>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=99.62  E-value=2.8e-16  Score=116.81  Aligned_cols=68  Identities=35%  Similarity=0.749  Sum_probs=63.4

Q ss_pred             CCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCc-cccccccCCCCCc
Q psy12252         19 AENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCR-QCHGRKYGPKGYG   86 (356)
Q Consensus        19 ~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~-~cy~~~~~~~c~~   86 (356)
                      ...++|..|+++|..++.+.++++.||++||+|..|+++|.+..|+++++++||. .||.++|+++|.+
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 GMASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFGSGPSS   75 (76)
T ss_dssp             CCCCBCTTTCCBCCTTTEEEETTEEEETTTCBCSSSCCBCCTTSCEEETTEEECTTTHHHHHSCSSCSC
T ss_pred             CCCCCCcCCCCEeECCeEEEECCeEeeCCCCCCCCCCCccCCCceEeECCEEecchHHHHHhcccccCC
Confidence            4678999999999977889999999999999999999999988999999999999 7999999999863

>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=99.61  E-value=3.5e-16  Score=120.46  Aligned_cols=73  Identities=29%  Similarity=0.606  Sum_probs=68.1

Q ss_pred             cCCCCCCCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCC
Q psy12252         13 IMPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGY   85 (356)
Q Consensus        13 ~~~~~~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~   85 (356)
                      .|++.+...+.|..|+++|.+.+.+.++++.||++||+|..|+++|.+..|+++++++||+.||.++|+++|.
T Consensus         7 ~~~~~~~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~kc~   79 (91)
T 2d8y_A            7 GMKFQAPARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGN   79 (91)
T ss_dssp             SSCSCSSSSCBCTTTCCBCCTTSEEECSSSEEETTTCBCTTTCCBCCTTTCCCSSSCCCCHHHHHHHSCCCSC
T ss_pred             CCccCCCCCCcCccCCCccCCceeEEECCCEECCCCCeeCCCCCCCCCCCcEeECCEEECHHHHHHHhCCCcC
Confidence            4667777889999999999987888999999999999999999999998899999999999999999999986

>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=99.61  E-value=3.8e-16  Score=117.27  Aligned_cols=65  Identities=23%  Similarity=0.594  Sum_probs=59.6

Q ss_pred             CCCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCCccc
Q psy12252        279 GDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCG  345 (356)
Q Consensus       279 ~~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~~~  345 (356)
                      ..+|++|+++|.+++.|.++++.||++||+|+.|+++|.+ .|+ .+|++|||+.||.++||++|.+
T Consensus        15 ~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~-~~~-~~~g~~yC~~~y~~~fg~~C~~   79 (80)
T 2dj7_A           15 PSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTG-EYI-SKDGVPYCESDYHAQFGSGPSS   79 (80)
T ss_dssp             CSCCTTTCCCCSSSCCEEETTEEECTTTCBCSSSCCBCSS-CCE-EETTEEECTTHHHHHTTCCSTT
T ss_pred             CCCCcCcCCeeCCCeEEEECCcccccccCCcCcCCCCcCC-CeE-EECCEEECHHHHHHHcCCCCCC
Confidence            3489999999998899999999999999999999999985 565 5999999999999999999975

>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=99.61  E-value=2.6e-16  Score=118.72  Aligned_cols=78  Identities=19%  Similarity=0.377  Sum_probs=70.8

Q ss_pred             ccccccCCCCCCCCCCCCCCCCcccc-ceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCC
Q psy12252          8 KKLDIIMPFVPAENPKCPACGKSVYA-AEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGY   85 (356)
Q Consensus         8 ~~~~~~~~~~~~~~~~C~~C~~~I~~-~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~   85 (356)
                      ++++...+|.....++|..|+++|.. +..+.++++.||++||+|+.|+++|.+..|+.+++++||..||.++|+++|.
T Consensus         2 g~~yC~~~y~~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~~~~C~~c~~~~~~~~C~   80 (82)
T 2ehe_A            2 SSGSSGPCYDNTFANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELLCNDCYCSAFSSGPS   80 (82)
T ss_dssp             CCCCCCCCCCCCCSCBCTTTCCBCCSSCCBCCCSSCCCBTTTSBCTTTCCBCSSCCEEEETTEEEETTTSSCCGGGSSC
T ss_pred             CceechhHhCcccCCcCccCCCccccCcEEEEeCCccccccCCeecCCCCccCCCccEeeCCEEECHHHHhhhcCCCCC
Confidence            46777888888899999999999994 4566789999999999999999999988999999999999999999999885

>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=99.61  E-value=3.7e-16  Score=117.27  Aligned_cols=77  Identities=19%  Similarity=0.342  Sum_probs=70.7

Q ss_pred             ccccccCCCCCCCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCC
Q psy12252          8 KKLDIIMPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGY   85 (356)
Q Consensus         8 ~~~~~~~~~~~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~   85 (356)
                      ++++...+|.....++|.+|+++|.+ +.+.++++.||++||+|..|+++|.+..|+++++++||..||.++|+++|.
T Consensus         2 g~~yC~~~y~~~~~~~C~~C~~~I~~-~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~~y~~~f~~~C~   78 (80)
T 1x3h_A            2 SSGSSGKDFLAMFSPKCGGCNRPVLE-NYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHHRRGSGPS   78 (80)
T ss_dssp             CCCCCCCCCCCCCSCBCTTTCCBCCS-SCEEETTEEECTTTCBCSSSCCBSCSSCCEESSSCEECHHHHHHHHSSSCC
T ss_pred             CCccchhHHhhhcCCccccCCCeecc-eeEEECCCeEecCcCChhhCCCCCCCCcEEeECCEEECHHHHHHHcCCCCC
Confidence            45677778888888999999999996 678899999999999999999999988999999999999999999999985

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

Probab=99.60  E-value=3.3e-16  Score=114.14  Aligned_cols=67  Identities=24%  Similarity=0.472  Sum_probs=62.1

Q ss_pred             CCCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCC
Q psy12252         18 PAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGY   85 (356)
Q Consensus        18 ~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~   85 (356)
                      ++..++|..|+++|.+ +.+.++++.||++||+|..|+++|.+..|+++++++||..||.++|+++|.
T Consensus         2 s~~~~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~   68 (69)
T 2cur_A            2 SSGSSGCVKCNKAITS-GGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFVSGPSS   68 (69)
T ss_dssp             CCCCCCCSSSCCCCCT-TCEEETTEEECTTTTBCTTTCCBCTTSCEEECSSCEEEHHHHHHHHTCSCC
T ss_pred             CCCcCCCcccCCEeCc-ceEEECccccccCcCEECCCCCCCCCCccEeECCEEECHHHhHHHhcCCCC
Confidence            3567899999999986 678899999999999999999999988999999999999999999999985

>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=99.60  E-value=4e-16  Score=116.16  Aligned_cols=57  Identities=23%  Similarity=0.622  Sum_probs=51.7

Q ss_pred             CCCCCCceeec----ceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccc
Q psy12252        281 GCPRCGFVVYA----AEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKN  338 (356)
Q Consensus       281 ~C~~C~~~I~~----~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~  338 (356)
                      +|++|+++|.+    .+.|.++++.||++||+|+.|+++|.++.|+ ..+|+|||+.||.++
T Consensus        17 ~C~~C~~~I~~~g~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~-~~~~~~yC~~cy~~l   77 (77)
T 2egq_A           17 KCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFV-FHQEQVYCPDCAKKL   77 (77)
T ss_dssp             CCSSSCCCCCCCSSCCCEEEETTEEEETTTCBCSSSCCBCTTSCCC-EETTEECCHHHHHHC
T ss_pred             cCcccCCcccCCCCCceeEEECcceeCcccCEehhcCCCCCCCccE-eECCEEEChHHhccC
Confidence            79999999994    3778899999999999999999999988887 599999999999764

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

Probab=99.59  E-value=7e-16  Score=112.66  Aligned_cols=66  Identities=24%  Similarity=0.517  Sum_probs=61.5

Q ss_pred             CCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCC
Q psy12252         19 AENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGY   85 (356)
Q Consensus        19 ~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~   85 (356)
                      +..++|..|+++|.+ +.+.++++.||++||+|..|+++|.+..|+++++++||..||.++|+++|.
T Consensus         3 ~~~~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~   68 (70)
T 2d8z_A            3 SGSSGCVQCKKPITT-GGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLYASGPS   68 (70)
T ss_dssp             CCCCBCSSSCCBCCS-SEEESSSSEEETTTSBCSSSCCBCTTSCCEESSSSEECHHHHHHHTCCCCT
T ss_pred             CCCCCCcccCCeecc-ceEEECccccCCCCCccCCCCCcCCcCceEeeCCeEECHHHHHHHhccccC
Confidence            467899999999986 568899999999999999999999988999999999999999999999985

>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=99.59  E-value=5e-16  Score=124.67  Aligned_cols=105  Identities=17%  Similarity=0.212  Sum_probs=82.0

Q ss_pred             CCCCCCCceEecceeeccCCCcccccccccccCcCcCCC--CccccCCCCceecccccccCCcccccccccccCCCcccC
Q psy12252        171 KGCPRCGGVVFAAEQVLAKGSEWHRKCFKCRDCNKTLDS--INACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGY  248 (356)
Q Consensus       171 ~~C~~C~~~I~~~~~i~a~~~~~H~~CF~C~~C~~~l~~--~~~~~~~~g~~~C~~c~~~~~~~C~~c~~~~~~~~~~~~  248 (356)
                      ++|.+|+++|.+.+.+.++++.||++||+|..|+++|..  ..|+ .+++++||           ..||.++|++     
T Consensus         4 ~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~-~~~g~~yC-----------~~~y~~~f~~-----   66 (114)
T 1j2o_A            4 LTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLY-YKLGRKLC-----------RRDYLRLGGS-----   66 (114)
T ss_dssp             BCBSSSCSCBCSSEEEECSSSEECTTTCCCSSSCSCCCCSSSCCC-CBTTBCCC-----------HHHHHHHHTS-----
T ss_pred             CCCcCCCCeeCCcEEEEECchhHHHhcCcccccCCchhcCCCeeE-EECCeeec-----------hHHHHHHhCc-----
Confidence            589999999998878899999999999999999999985  3454 58999999           7888888887     


Q ss_pred             CCCCceeecCCCCccccCCCCCCCCCCCCCCCCCCCCCceeecceEEEeCCcccccCcccccccCCC-CCCCCCccCCCC
Q psy12252        249 GHSPTLVSTSGESTMQFYDARPTSGLKGRNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRS-LDSTNLNDGPDN  327 (356)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~~~p~~g~~~~~~~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~-L~~~~~~~~~~g  327 (356)
                                                      +|..|..    ++.|.               |..+ |.++.|+ ..++
T Consensus        67 --------------------------------~c~~c~~----~~~~~---------------~~~~~~~g~~f~-~~~~   94 (114)
T 1j2o_A           67 --------------------------------GGHMGSG----GDVMV---------------VGEPTLMGGEFG-DEDE   94 (114)
T ss_dssp             --------------------------------CCSSCBS----CSCCC---------------SSCSSTTSSBCC-CSSS
T ss_pred             --------------------------------ccCcCCC----CceeE---------------cCCccCCCCeeE-EcCC
Confidence                                            4555531    12111               3344 5555665 6999


Q ss_pred             ccccccccccccCCCcc
Q psy12252        328 DIYCRGCYGKNFGPKGC  344 (356)
Q Consensus       328 ~~yC~~c~~~~f~~~~~  344 (356)
                      +|||+.||.++.++.+.
T Consensus        95 ~~~C~~~~~~~~~~~g~  111 (114)
T 1j2o_A           95 RLITRLENTQFDAANGI  111 (114)
T ss_dssp             CCCEEEECTTCCCTTSS
T ss_pred             EeecchhhhccccccCC
Confidence            99999999999887654

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

Probab=99.59  E-value=4.7e-16  Score=113.32  Aligned_cols=64  Identities=23%  Similarity=0.746  Sum_probs=59.1

Q ss_pred             CCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCCccc
Q psy12252        280 DGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCG  345 (356)
Q Consensus       280 ~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~~~  345 (356)
                      .+|++|+++|. ++.|.++++.||++||+|+.|+++|.+..|+ ..++++||+.||.++||++|.|
T Consensus         6 ~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~cy~~~f~~~C~g   69 (69)
T 2cur_A            6 SGCVKCNKAIT-SGGITYQDQPWHADCFVCVTCSKKLAGQRFT-AVEDQYYCVDCYKNFVSGPSSG   69 (69)
T ss_dssp             CCCSSSCCCCC-TTCEEETTEEECTTTTBCTTTCCBCTTSCEE-ECSSCEEEHHHHHHHHTCSCCC
T ss_pred             CCCcccCCEeC-cceEEECccccccCcCEECCCCCCCCCCccE-eECCEEECHHHhHHHhcCCCCC
Confidence            48999999998 4788999999999999999999999988776 5999999999999999999975

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

Probab=99.59  E-value=7.4e-16  Score=113.17  Aligned_cols=67  Identities=16%  Similarity=0.514  Sum_probs=62.2

Q ss_pred             CCCCCCCCCCCccccc-eEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCC
Q psy12252         19 AENPKCPACGKSVYAA-EERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGY   85 (356)
Q Consensus        19 ~~~~~C~~C~~~I~~~-~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~   85 (356)
                      +..++|..|+++|... ..+.++|+.||++||+|..|+++|.+..|+++++++||+.||.++|+++|.
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~   70 (72)
T 1x4k_A            3 SGSSGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQHASGPS   70 (72)
T ss_dssp             SCCCCBSSSCCCCCSSSCEEEETTEEEETTTTCCSSSCCCCCSSSEEEETTEEEEHHHHHHHTSSCCC
T ss_pred             ccCCCCccCCCcccCCceEEEECcCeecccCCcccccCCccCCCccCccCCeEECHHHHhHHhCCCCC
Confidence            4568999999999986 478899999999999999999999999999999999999999999999975

>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=1.7e-15  Score=116.50  Aligned_cols=65  Identities=26%  Similarity=0.699  Sum_probs=60.7

Q ss_pred             CCCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCCcc
Q psy12252        279 GDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGC  344 (356)
Q Consensus       279 ~~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~~  344 (356)
                      ..+|++|+++|.+++.|.++++.||++||+|+.|+++|..+.|+ ..++++||+.||.++|+++|.
T Consensus        15 ~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~~y~~~f~~kc~   79 (91)
T 2d8y_A           15 RETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYA-SLHGRIYCKPHFNQLFKSKGN   79 (91)
T ss_dssp             SCBCTTTCCBCCTTSEEECSSSEEETTTCBCTTTCCBCCTTTCC-CSSSCCCCHHHHHHHSCCCSC
T ss_pred             CCcCccCCCccCCceeEEECCCEECCCCCeeCCCCCCCCCCCcE-eECCEEECHHHHHHHhCCCcC
Confidence            35899999999988899999999999999999999999998877 599999999999999999985

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

Probab=99.58  E-value=6.4e-16  Score=113.49  Aligned_cols=67  Identities=28%  Similarity=0.631  Sum_probs=62.0

Q ss_pred             CCCCCCCCCCCccccc-eEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCC
Q psy12252         19 AENPKCPACGKSVYAA-EERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGY   85 (356)
Q Consensus        19 ~~~~~C~~C~~~I~~~-~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~   85 (356)
                      ...++|..|+++|..+ +.+.++|+.||++||+|..|+++|.+..|+++++++||+.||.++|+++|.
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~   70 (72)
T 1wyh_A            3 SGSSGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFASGPS   70 (72)
T ss_dssp             CCCCBCSSSCCBCCSSSCEECSTTCCEETTTCBCTTTCCBTTTSCEEEETTEEEEHHHHHHHTSCCCC
T ss_pred             ccCCCCccCCCccccCccEEEECccccCcccCeECCCCCcCCCCccCCcCCeEECHHHHHHHccCcCC
Confidence            4568999999999975 677899999999999999999999998999999999999999999999985

>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=99.58  E-value=7.5e-16  Score=112.51  Aligned_cols=64  Identities=22%  Similarity=0.704  Sum_probs=59.0

Q ss_pred             CCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCCccc
Q psy12252        280 DGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCG  345 (356)
Q Consensus       280 ~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~~~  345 (356)
                      .+|++|+++|. ++.|.++++.||++||+|+.|+++|.++.|+ ..++++||+.||.++|+++|.+
T Consensus         6 ~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~cy~~~f~~~c~~   69 (70)
T 2d8z_A            6 SGCVQCKKPIT-TGGVTYREQPWHKECFVCTACRKQLSGQRFT-ARDDFAYCLNCFCDLYASGPSS   69 (70)
T ss_dssp             CBCSSSCCBCC-SSEEESSSSEEETTTSBCSSSCCBCTTSCCE-ESSSSEECHHHHHHHTCCCCTT
T ss_pred             CCCcccCCeec-cceEEECccccCCCCCccCCCCCcCCcCceE-eeCCeEECHHHHHHHhccccCC
Confidence            47999999998 4778999999999999999999999988887 5899999999999999999974

>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=99.58  E-value=1.2e-15  Score=114.53  Aligned_cols=77  Identities=18%  Similarity=0.421  Sum_probs=70.1

Q ss_pred             ccccccCCCCCCCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCC
Q psy12252          8 KKLDIIMPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGY   85 (356)
Q Consensus         8 ~~~~~~~~~~~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~   85 (356)
                      ++++....+.....++|..|+++|.+ +.+.++++.||++||+|..|+++|.+..|+++++++||..||.++|+++|.
T Consensus         2 g~~yC~~cy~~~~~~~C~~C~~~I~~-~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~   78 (80)
T 2cuq_A            2 SSGSSGPCYENKFAPRCARCSKTLTQ-GGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELFASGPS   78 (80)
T ss_dssp             CCCSCCCCCCCCSSCCCTTTCCCCCS-CCEESSSSEECTTTCBCSSSCCBCTTCCEEECSSSEEEHHHHHHHTTCSTT
T ss_pred             CcEEcHHHHccccCCcCCCCCCEecC-cEEEECCchhhhhhCCcccCCCcCCCCeeEeECCEEECHHHHHHHcCCCCC
Confidence            35667777888888999999999986 578899999999999999999999888999999999999999999999875

>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=99.57  E-value=1.2e-15  Score=113.30  Aligned_cols=66  Identities=23%  Similarity=0.538  Sum_probs=60.1

Q ss_pred             CCCCCCCceeec---ceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCCcccc
Q psy12252        280 DGCPRCGFVVYA---AEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCGF  346 (356)
Q Consensus       280 ~~C~~C~~~I~~---~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~~~~  346 (356)
                      .+|++|+++|.+   .+.|.++++.||++||+|+.|+++|.+..|+ ..+++|||+.||.++|+++|...
T Consensus         6 ~~C~~C~~~I~~~g~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~-~~~g~~yC~~cy~~~f~~~C~~~   74 (76)
T 1x68_A            6 SGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFL-TQNKEIFCQKCGSGMDTDISGPS   74 (76)
T ss_dssp             CCCTTTCCCCCTTTTCCEEEETTEEEEGGGCBCTTTCCBCSSSCEE-EETTEEEETTTTCCCCCCSSSSS
T ss_pred             CCCccCCCcccCCCCceeEEECCcccCcccCChhhCCCcCCCCceE-eECCEEECHHHhhhhhCCcCCCC
Confidence            389999999994   4778899999999999999999999988777 59999999999999999999764

>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=99.57  E-value=1.4e-15  Score=116.72  Aligned_cols=68  Identities=22%  Similarity=0.482  Sum_probs=62.8

Q ss_pred             CCCCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCC
Q psy12252         17 VPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGY   85 (356)
Q Consensus        17 ~~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~   85 (356)
                      .....++|..|+++|. ++.+.++|+.||++||+|..|+++|.+..|+++++++||..||.++|+++|.
T Consensus        21 ~~~~~~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~c~   88 (90)
T 2dar_A           21 AGKRTPMCAHCNQVIR-GPFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFFASGPS   88 (90)
T ss_dssp             TTTCCCBBSSSCCBCC-SCEEEETTEEECTTTCBCSSSCCBCSSSCBEESSSCEECHHHHHHHTSCCCC
T ss_pred             CCCCCCCCccCCCEec-ceEEEECCccccccCCccCCCCCCCCCCEeEeECCEEECHHHHHHHcCCCCC
Confidence            3467789999999997 5788899999999999999999999988999999999999999999999975

>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=99.57  E-value=1.4e-15  Score=114.46  Aligned_cols=76  Identities=24%  Similarity=0.403  Sum_probs=67.7

Q ss_pred             ccccccCCCCCCCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCcccc-CCcccCccccccccCCCCC
Q psy12252          8 KKLDIIMPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEH-EKELYCRQCHGRKYGPKGY   85 (356)
Q Consensus         8 ~~~~~~~~~~~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~-~g~~yC~~cy~~~~~~~c~   85 (356)
                      ++++....|. ...++|..|+++|.+ +.+.++++.||++||+|..|+++|.+..|+.. +|++||..||.++|+++|.
T Consensus         3 g~~yC~~~y~-~~~~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~g~~yC~~cy~~~f~~~C~   79 (81)
T 2dlo_A            3 SGSSGEGCYV-ATLEKCATCSQPILD-RILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFASGPS   79 (81)
T ss_dssp             CCCCCCCCCC-SSCCBCTTTCCBCCS-CCEEETTEEECTTTCBCSSSCCBCTTSCEECCTTCCCEEHHHHHHHTTSSSC
T ss_pred             CCEECHHHhh-cCCCccccCCCeecc-eeEEECCccccHHhcCcccCCCccCCCeeEECCCCEEECHHHHHHHhcCcCC
Confidence            4666777777 688999999999995 68889999999999999999999998888776 7999999999999999985

>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=99.57  E-value=6.1e-16  Score=111.67  Aligned_cols=64  Identities=23%  Similarity=0.422  Sum_probs=59.2

Q ss_pred             CCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCC
Q psy12252         19 AENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPK   83 (356)
Q Consensus        19 ~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~   83 (356)
                      ...++|+.|+++|. ++.+.++|+.||++||+|..|+++|.+..|++++|++||..||.++|+++
T Consensus         3 ~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~k   66 (66)
T 1nyp_A            3 MGVPICGACRRPIE-GRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLFGDV   66 (66)
T ss_dssp             CCCCEETTTTEECC-SCEECCTTSBEETTTCBCTTTCCBCSSSCCEEETTEEECHHHHHHHCSCC
T ss_pred             cCCCCCcccCCEec-ceEEEECccccccCcCEECCCCCCCCCCceEeECCcEECHHHHHHHhCCC
Confidence            35689999999999 57888999999999999999999999989999999999999999999874

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

Probab=99.57  E-value=9.7e-16  Score=114.04  Aligned_cols=68  Identities=22%  Similarity=0.422  Sum_probs=60.6

Q ss_pred             CCCCCCCCCCCCccccce-EEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCC
Q psy12252         18 PAENPKCPACGKSVYAAE-ERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGY   85 (356)
Q Consensus        18 ~~~~~~C~~C~~~I~~~~-~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~   85 (356)
                      ....++|.+|+++|..++ .+.++|+.||++||+|..|+++|.++.|++++|++||+.||.++|+++|.
T Consensus         8 ~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~~C~   76 (77)
T 1g47_A            8 ALASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAPCWI   76 (77)
T ss_dssp             CCCCCBCSSSCCBCCSTTTCEEETTEEECTTTCCCTTTCCCCGGGCSEEETTEEECHHHHHHHCCCC--
T ss_pred             CCCCCCchhcCCccCCCceEEEeCccEeccccCeECCCCCCCCCCCeEeECCeEeCHHHHHHHhhcccC
Confidence            356789999999998644 56799999999999999999999998999999999999999999999874

>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=99.57  E-value=1.3e-15  Score=114.88  Aligned_cols=77  Identities=25%  Similarity=0.524  Sum_probs=69.4

Q ss_pred             cccccCCCCCCCCCCCCCCCCccccce-EEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCC
Q psy12252          9 KLDIIMPFVPAENPKCPACGKSVYAAE-ERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGY   85 (356)
Q Consensus         9 ~~~~~~~~~~~~~~~C~~C~~~I~~~~-~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~   85 (356)
                      +++....+.....++|..|+++|..++ .+.++++.||++||+|..|+++|.+..|+++++++||+.||.++|++++.
T Consensus         3 ~~yC~~cy~~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~~~   80 (82)
T 1x63_A            3 SGSSGKCTTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKFASGPS   80 (82)
T ss_dssp             SCCCCCCCSCCCSCBCSSSCCBCCSSSCEEECSSCEEETTTCCCSSSCCCCTTSCEEEETTEEEEHHHHHHHTSCCCS
T ss_pred             CcCchhHHccccCCcCccCCcccccCceEEEECccccccccCchhhCCCccCCCccEeeCCEEECHHHHHHHhCCCCC
Confidence            456677788888899999999999755 57899999999999999999999999999999999999999999999864

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

Probab=99.56  E-value=1.3e-15  Score=111.84  Aligned_cols=66  Identities=20%  Similarity=0.508  Sum_probs=60.4

Q ss_pred             CCCCCCCCCCCcccc---ceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCC
Q psy12252         19 AENPKCPACGKSVYA---AEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKG   84 (356)
Q Consensus        19 ~~~~~C~~C~~~I~~---~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c   84 (356)
                      +..++|.+|+++|.+   .+.+.++|+.||++||+|..|+++|.+..|+++++++||..||.++|+|++
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~p~~   71 (72)
T 1x4l_A            3 SGSSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGKDISGPSS   71 (72)
T ss_dssp             SCSCSBTTTTBCCCCSSSCSCEECSSCEECTTTCBCSSSCCBCTTSCCEECSSSEECHHHHHTCCCSSC
T ss_pred             CCCCCCcCCCccccCCCCcceEEECCcccCcccCEeccCCCcCCCCccEeECCEEEChhHcCcccCCCC
Confidence            467899999999996   357889999999999999999999998899999999999999999998863

>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=99.56  E-value=8e-16  Score=112.97  Aligned_cols=65  Identities=28%  Similarity=0.746  Sum_probs=59.5

Q ss_pred             CCCCCCCceeecc-eEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCCccc
Q psy12252        280 DGCPRCGFVVYAA-EQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCG  345 (356)
Q Consensus       280 ~~C~~C~~~I~~~-e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~~~  345 (356)
                      .+|++|+++|.++ +.|.++++.||++||+|+.|+++|.++.|+ ..++++||+.||.++|+++|.+
T Consensus         6 ~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~cy~~~f~~~C~~   71 (72)
T 1wyh_A            6 SGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFV-PDKGAHYCVPCYENKFASGPSS   71 (72)
T ss_dssp             CBCSSSCCBCCSSSCEECSTTCCEETTTCBCTTTCCBTTTSCEE-EETTEEEEHHHHHHHTSCCCCC
T ss_pred             CCCccCCCccccCccEEEECccccCcccCeECCCCCcCCCCccC-CcCCeEECHHHHHHHccCcCCC
Confidence            3799999999975 667899999999999999999999998877 5899999999999999999974

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

Probab=99.56  E-value=6.6e-16  Score=111.50  Aligned_cols=61  Identities=21%  Similarity=0.474  Sum_probs=57.0

Q ss_pred             CCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCC
Q psy12252        280 DGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPK  342 (356)
Q Consensus       280 ~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~  342 (356)
                      .+|++|+++|. ++.|.++|+.||++||+|+.|+++|.++.|+ ..+|++||+.||.++||+|
T Consensus         6 ~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~~y~~~f~~k   66 (66)
T 1nyp_A            6 PICGACRRPIE-GRVVNAMGKQWHVEHFVCAKCEKPFLGHRHY-ERKGLAYCETHYNQLFGDV   66 (66)
T ss_dssp             CEETTTTEECC-SCEECCTTSBEETTTCBCTTTCCBCSSSCCE-EETTEEECHHHHHHHCSCC
T ss_pred             CCCcccCCEec-ceEEEECccccccCcCEECCCCCCCCCCceE-eECCcEECHHHHHHHhCCC
Confidence            37999999999 7888999999999999999999999988887 5999999999999999986

>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=2.3e-15  Score=115.56  Aligned_cols=65  Identities=23%  Similarity=0.613  Sum_probs=59.8

Q ss_pred             CCCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCCccc
Q psy12252        279 GDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCG  345 (356)
Q Consensus       279 ~~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~~~  345 (356)
                      ..+|++|+++|. ++.|.++++.||++||+|..|+++|.+..|+ ..++++||+.||.++|+++|..
T Consensus        25 ~~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~f~-~~~g~~yC~~cy~~~f~~~c~s   89 (90)
T 2dar_A           25 TPMCAHCNQVIR-GPFLVALGKSWHPEEFNCAHCKNTMAYIGFV-EEKGALYCELCYEKFFASGPSS   89 (90)
T ss_dssp             CCBBSSSCCBCC-SCEEEETTEEECTTTCBCSSSCCBCSSSCBE-ESSSCEECHHHHHHHTSCCCCC
T ss_pred             CCCCccCCCEec-ceEEEECCccccccCCccCCCCCCCCCCEeE-eECCEEECHHHHHHHcCCCCCC
Confidence            358999999996 6889999999999999999999999988877 5999999999999999999863

>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=99.55  E-value=1e-15  Score=114.61  Aligned_cols=64  Identities=22%  Similarity=0.500  Sum_probs=58.7

Q ss_pred             CCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCCccc
Q psy12252        280 DGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCG  345 (356)
Q Consensus       280 ~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~~~  345 (356)
                      .+|++|+++|.+ +.|.++++.||++||+|..|+++|....|+ ..++++||+.||.++|++++.|
T Consensus        16 ~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~cy~~~~~p~g~g   79 (79)
T 1x62_A           16 PMCDKCGTGIVG-VFVKLRDRHRHPECYVCTDCGTNLKQKGHF-FVEDQIYCEKHARERVSGPSSG   79 (79)
T ss_dssp             CCCSSSCCCCCS-SCEECSSCEECTTTTSCSSSCCCHHHHCCE-ESSSCEECHHHHHHHHSSCCCC
T ss_pred             CccccCCCCccC-cEEEECcceeCcCcCeeCCCCCCCCCCCeE-eECCEEECHHHHHHHhCCCCCC
Confidence            489999999984 788999999999999999999999887777 5999999999999999999754

>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=99.55  E-value=3.5e-15  Score=114.27  Aligned_cols=66  Identities=21%  Similarity=0.495  Sum_probs=59.8

Q ss_pred             CCCCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCCccc
Q psy12252        278 NGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCG  345 (356)
Q Consensus       278 ~~~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~~~  345 (356)
                      ...+|++|+++|.+ +.|.++++.||++||+|..|+++|..+.|+ ..++++||+.||.++|++|+.|
T Consensus        24 ~~~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~~y~~~f~p~~~g   89 (89)
T 1x64_A           24 RMPLCDKCGSGIVG-AVVKARDKYRHPECFVCADCNLNLKQKGYF-FVEGELYCETHARARTSGPSSG   89 (89)
T ss_dssp             SCCBCTTTCCBCCS-CCEESSSCEECTTTCCCSSSCCCTTTSCCE-EETTEEECHHHHHHHSSSCCCC
T ss_pred             cCCCcccCCCEecc-cEEEECCceECccCCEecCCCCCCCCCCeE-eECCEEECHHHHHHHhCCCCCC
Confidence            34589999999994 788999999999999999999999998887 5899999999999999999864

>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=99.54  E-value=1.6e-15  Score=111.36  Aligned_cols=65  Identities=26%  Similarity=0.705  Sum_probs=59.5

Q ss_pred             CCCCCCCceeecce-EEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCCccc
Q psy12252        280 DGCPRCGFVVYAAE-QMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCG  345 (356)
Q Consensus       280 ~~C~~C~~~I~~~e-~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~~~  345 (356)
                      .+|++|+++|.+++ .|.++|+.||++||+|+.|+++|.++.|+ ..++++||+.||.++|+++|.+
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            38999999999864 67899999999999999999999998877 5999999999999999999864

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

Probab=99.53  E-value=1.6e-15  Score=113.56  Aligned_cols=67  Identities=18%  Similarity=0.391  Sum_probs=61.3

Q ss_pred             CCCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCC
Q psy12252         18 PAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGY   85 (356)
Q Consensus        18 ~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~   85 (356)
                      +...++|..|+++|.+ +.+.++++.||++||+|..|+++|.+..|+++++++||..||.++|++++.
T Consensus        12 ~~~~~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~p~g~   78 (79)
T 1x62_A           12 AQKLPMCDKCGTGIVG-VFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEKHARERVSGPSS   78 (79)
T ss_dssp             CCCCCCCSSSCCCCCS-SCEECSSCEECTTTTSCSSSCCCHHHHCCEESSSCEECHHHHHHHHSSCCC
T ss_pred             CCCCCccccCCCCccC-cEEEECcceeCcCcCeeCCCCCCCCCCCeEeECCEEECHHHHHHHhCCCCC
Confidence            3457899999999997 688899999999999999999999888899999999999999999999853

>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=99.53  E-value=3.5e-15  Score=108.98  Aligned_cols=64  Identities=23%  Similarity=0.620  Sum_probs=59.6

Q ss_pred             CCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCC
Q psy12252         19 AENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPK   83 (356)
Q Consensus        19 ~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~   83 (356)
                      ...++|..|+++|.+ +.+.++++.||++||+|..|+++|.+..|+.+++++||..||.++|+++
T Consensus         3 ~~~~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~   66 (70)
T 2d8x_A            3 SGSSGCHQCGEFIIG-RVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNREKASG   66 (70)
T ss_dssp             CCSSBCSSSCCBCCS-CCEEETTEEECTTTSBCSSSCCBCSSSCCEEETTEEECHHHHHHHHCCC
T ss_pred             CCCCcCccCCCEecc-eEEEECcccccccCCEeCCCCCcCCCCccEeECCeEECHHHhhhhcCCC
Confidence            456899999999995 7788999999999999999999999999999999999999999999876

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

Probab=99.53  E-value=3.7e-15  Score=114.16  Aligned_cols=66  Identities=24%  Similarity=0.409  Sum_probs=61.0

Q ss_pred             CCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCC
Q psy12252         19 AENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGY   85 (356)
Q Consensus        19 ~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~   85 (356)
                      ...++|..|+++|.+ +.+.++++.||++||+|..|+++|.+..|+++++++||..||.++|++++.
T Consensus        23 ~~~~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~p~~~   88 (89)
T 1x64_A           23 QRMPLCDKCGSGIVG-AVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETHARARTSGPSS   88 (89)
T ss_dssp             CSCCBCTTTCCBCCS-CCEESSSCEECTTTCCCSSSCCCTTTSCCEEETTEEECHHHHHHHSSSCCC
T ss_pred             CcCCCcccCCCEecc-cEEEECCceECccCCEecCCCCCCCCCCeEeECCEEECHHHHHHHhCCCCC
Confidence            456789999999996 778899999999999999999999988899999999999999999999864

>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=5.9e-15  Score=111.26  Aligned_cols=66  Identities=26%  Similarity=0.571  Sum_probs=58.8

Q ss_pred             CCCCCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCcc-CCCCccccccccccccCCC
Q psy12252        277 RNGDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLND-GPDNDIYCRGCYGKNFGPK  342 (356)
Q Consensus       277 ~~~~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~-~~~g~~yC~~c~~~~f~~~  342 (356)
                      +...+|++|+++|+++|.|.++++.||++||+|+.|+++|..+.|+. ..||++||+.||.++|+.-
T Consensus        13 ~~~~~C~~C~~~I~~~e~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~~   79 (82)
T 2co8_A           13 GAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQTDSGP   79 (82)
T ss_dssp             CSSCBCSSSCCBCCTTTBCCBTTBCCBTTTCBCSSSCCBCCTTSEECCTTTCCCEETTTCCCCCCCC
T ss_pred             CCCCCCcccCCCcccceEEEECCCeeCCCcCEEcCCCCCcCCCceeEeCcCCEEEChHHHHhhhcCC
Confidence            34468999999999888899999999999999999999999998763 4799999999999999863

>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=99.53  E-value=3.9e-15  Score=109.33  Aligned_cols=63  Identities=29%  Similarity=0.672  Sum_probs=57.1

Q ss_pred             CCCCCCCceeec---ceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCCc
Q psy12252        280 DGCPRCGFVVYA---AEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKG  343 (356)
Q Consensus       280 ~~C~~C~~~I~~---~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~  343 (356)
                      .+|++|+++|.+   .+.|.++++.||++||+|+.|+++|.+..|+ ..+++|||+.||.++||+++
T Consensus         6 ~~C~~C~~~I~~~~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~-~~~g~~yC~~c~~~~~~p~~   71 (72)
T 1x4l_A            6 SGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFL-TERDDILCPDCGKDISGPSS   71 (72)
T ss_dssp             CSBTTTTBCCCCSSSCSCEECSSCEECTTTCBCSSSCCBCTTSCCE-ECSSSEECHHHHHTCCCSSC
T ss_pred             CCCcCCCccccCCCCcceEEECCcccCcccCEeccCCCcCCCCccE-eECCEEEChhHcCcccCCCC
Confidence            489999999995   3667899999999999999999999988877 59999999999999999974

>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=99.53  E-value=7.3e-15  Score=109.27  Aligned_cols=71  Identities=21%  Similarity=0.480  Sum_probs=63.9

Q ss_pred             ccccccCCCCCCCCCCCCCCCCcccc----ceEEEeCCceeccCCcccccccccccCCCccccCCcccCcccccc
Q psy12252          8 KKLDIIMPFVPAENPKCPACGKSVYA----AEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGR   78 (356)
Q Consensus         8 ~~~~~~~~~~~~~~~~C~~C~~~I~~----~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~   78 (356)
                      ++++....|.....++|++|+++|.+    .+.+.++++.||++||+|..|+++|.+..|+++++++||..||.+
T Consensus         2 ~~~yC~~cy~~~~~~~C~~C~~~I~~~g~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~~~yC~~cy~~   76 (77)
T 2egq_A            2 SSGSSGDCYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYCPDCAKK   76 (77)
T ss_dssp             CSSCCTTCCCSCCCCCCSSSCCCCCCCSSCCCEEEETTEEEETTTCBCSSSCCBCTTSCCCEETTEECCHHHHHH
T ss_pred             CCeEchhHhchhhCccCcccCCcccCCCCCceeEEECcceeCcccCEehhcCCCCCCCccEeECCEEEChHHhcc
Confidence            35667777888889999999999994    468889999999999999999999998899999999999999975

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

Probab=99.52  E-value=2.5e-15  Score=111.82  Aligned_cols=64  Identities=25%  Similarity=0.526  Sum_probs=57.0

Q ss_pred             CCCCCCCceeecceE-EEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCCcc
Q psy12252        280 DGCPRCGFVVYAAEQ-MISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGC  344 (356)
Q Consensus       280 ~~C~~C~~~I~~~e~-v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~~  344 (356)
                      .+|++|+++|.+++. +.++|+.||++||+|+.|+++|.++.|+ ..+|++||+.||.++||++|.
T Consensus        12 ~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~~y~~~f~~~C~   76 (77)
T 1g47_A           12 ATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFY-EFEGRKYCEHDFQMLFAPCWI   76 (77)
T ss_dssp             CBCSSSCCBCCSTTTCEEETTEEECTTTCCCTTTCCCCGGGCSE-EETTEEECHHHHHHHCCCC--
T ss_pred             CCchhcCCccCCCceEEEeCccEeccccCeECCCCCCCCCCCeE-eECCeEeCHHHHHHHhhcccC
Confidence            489999999986554 6799999999999999999999998877 599999999999999999985

>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=99.51  E-value=5e-15  Score=129.76  Aligned_cols=77  Identities=45%  Similarity=1.078  Sum_probs=71.1

Q ss_pred             CCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCCCccCCCcceeecc
Q psy12252         21 NPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMD   97 (356)
Q Consensus        21 ~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~~c~~~~~~~~~~   97 (356)
                      .++|..|+++|.+++.|.++|+.||++||+|..|+++|.+..|++++|++||+.||.++|+++|.+|++++|.+.++
T Consensus       115 ~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~f~~kc~~C~~~~g~~~~~  191 (192)
T 1b8t_A          115 SDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKGFGFGQGAGALIHS  191 (192)
T ss_dssp             CEECTTTSCEECSSSCEEETTEEECTTTCBCTTTCCBCCSSSEEEETTEEEEHHHHHHHTCCCCCCCCCCCCCCCCC
T ss_pred             CCcCCCCCCEecCcEEEecCCCccchhcCCccccCCCCCCCcccccCCEEeCHHHHHHhcCCcCCCCCCcccceeec
Confidence            45699999999987888899999999999999999999988899999999999999999999999999988776553

>1v6g_A Actin binding LIM protein 2; LIM domain, zinc binding domain, ablim2, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.51  E-value=7e-15  Score=110.52  Aligned_cols=61  Identities=18%  Similarity=0.383  Sum_probs=53.7

Q ss_pred             CCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCc-cccccccccccCCCc
Q psy12252        281 GCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDND-IYCRGCYGKNFGPKG  343 (356)
Q Consensus       281 ~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~-~yC~~c~~~~f~~~~  343 (356)
                      +|++|+++|. ++.|.++++.||++||+|+.|+++|..+.++. .++. +||..||.++++..+
T Consensus        17 ~C~~C~~~I~-~~~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~-~~~~~~~C~~C~~~~~~~~~   78 (81)
T 1v6g_A           17 RCFSCDQFIE-GEVVSALGKTYHPDCFVCAVCRLPFPPGDRVT-FNGKECMCQKCSLPVSVSGP   78 (81)
T ss_dssp             BCTTTCCBCC-SCCEEETTEEECTTTSSCSSSCCCCCSSSCEE-EETTEEEEHHHHSCCSSCCC
T ss_pred             cCccccCEec-cceEEECCceeCccCCccccCCCCCCCCCEEE-eCCCCEEChhhhcccCCCCC
Confidence            6999999998 68899999999999999999999999887764 5554 699999999987753

>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=99.50  E-value=1.2e-14  Score=109.50  Aligned_cols=65  Identities=25%  Similarity=0.554  Sum_probs=59.0

Q ss_pred             CCCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCcc--ccCCcccCccccccccCC
Q psy12252         18 PAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCT--EHEKELYCRQCHGRKYGP   82 (356)
Q Consensus        18 ~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~--~~~g~~yC~~cy~~~~~~   82 (356)
                      ....++|..|+++|+..+.+.++++.||++||+|..|+++|....|+  +++|++||+.||.+++++
T Consensus        12 ~~~~~~C~~C~~~I~~~e~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~   78 (82)
T 2co8_A           12 AGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQTDSG   78 (82)
T ss_dssp             CCSSCBCSSSCCBCCTTTBCCBTTBCCBTTTCBCSSSCCBCCTTSEECCTTTCCCEETTTCCCCCCC
T ss_pred             CCCCCCCcccCCCcccceEEEECCCeeCCCcCEEcCCCCCcCCCceeEeCcCCEEEChHHHHhhhcC
Confidence            34678999999999888888899999999999999999999999887  579999999999998865

>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=99.50  E-value=9.9e-15  Score=106.90  Aligned_cols=66  Identities=23%  Similarity=0.484  Sum_probs=59.6

Q ss_pred             CCCCCCCCCCCCCCccccceE-EEeCCceeccCCcccccccccccCCCccccCCcccCccccccccC
Q psy12252         16 FVPAENPKCPACGKSVYAAEE-RVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYG   81 (356)
Q Consensus        16 ~~~~~~~~C~~C~~~I~~~~~-i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~   81 (356)
                      +.....++|..|+++|.+++. +.++|+.||++||+|..|+++|.+..|+.++|++||+.||.++|+
T Consensus         6 y~~~~~~~C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~lf~   72 (72)
T 3f6q_B            6 FQGSASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA   72 (72)
T ss_dssp             CCCCTTCBCTTTCCBCCTTCEEEEETTEEEETTTSSCTTTCCCCGGGCCEEETTEEECHHHHHHHTC
T ss_pred             ccCcCCccchhcCccccCCceEEEeCcCeeCcCCCcccCCCCCCCCCCeEeECCeEeCHHHHHHhhC
Confidence            455678899999999998775 569999999999999999999998899999999999999998874

>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=99.50  E-value=6.8e-15  Score=107.41  Aligned_cols=62  Identities=24%  Similarity=0.629  Sum_probs=57.5

Q ss_pred             CCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCCc
Q psy12252        280 DGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKG  343 (356)
Q Consensus       280 ~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~  343 (356)
                      .+|++|+++|. ++.|.++++.||++||+|+.|+++|..+.|+ ..++++||+.||.++|+++.
T Consensus         6 ~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~-~~~g~~yC~~c~~~~~~~~~   67 (70)
T 2d8x_A            6 SGCHQCGEFII-GRVIKAMNNSWHPECFRCDLCQEVLADIGFV-KNAGRHLCRPCHNREKASGP   67 (70)
T ss_dssp             SBCSSSCCBCC-SCCEEETTEEECTTTSBCSSSCCBCSSSCCE-EETTEEECHHHHHHHHCCCS
T ss_pred             CcCccCCCEec-ceEEEECcccccccCCEeCCCCCcCCCCccE-eECCeEECHHHhhhhcCCCC
Confidence            47999999998 5788999999999999999999999999876 58999999999999999975

>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=99.49  E-value=1.5e-14  Score=117.43  Aligned_cols=64  Identities=25%  Similarity=0.437  Sum_probs=57.9

Q ss_pred             CCCCCCCCCCCCccccceEEEeCCceeccCCccccccccccc--CCCccccCCcccCccccccccC
Q psy12252         18 PAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLD--STNCTEHEKELYCRQCHGRKYG   81 (356)
Q Consensus        18 ~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~--~~~~~~~~g~~yC~~cy~~~~~   81 (356)
                      ....++|.+|+++|.+.+.+.++|+.||++||+|..|+++|.  +..|++++|++||+.||.++|+
T Consensus        58 ~~~~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~~g~~f~~~dg~~yC~~cy~~~Fg  123 (123)
T 2l4z_A           58 GLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG  123 (123)
T ss_dssp             CSSCSBBSSSSSBCCSSSEEEETTEEEETTTSBCTTTCCBGGGTTCCCBCSSSCCBCHHHHHHHCC
T ss_pred             CccCCcCcCCCCCcCCcEEEEeCCcEEcccccCcCcCCCcccccCCceEEECCEEeCHHHhhhhcC
Confidence            445679999999999877899999999999999999999997  3589999999999999999875

>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=99.49  E-value=1e-14  Score=107.44  Aligned_cols=64  Identities=16%  Similarity=0.402  Sum_probs=58.0

Q ss_pred             CCCCCCCCCCCccccceEEEeCCceeccCCccccccccccc-CCCccccCCcccCccccccccCCC
Q psy12252         19 AENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLD-STNCTEHEKELYCRQCHGRKYGPK   83 (356)
Q Consensus        19 ~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~-~~~~~~~~g~~yC~~cy~~~~~~~   83 (356)
                      +..++|.+|+++|.+ +.+.++|+.||++||+|..|+++|. +..|+++++++||..||.++++..
T Consensus         3 ~~~~~C~~C~~~I~~-~~v~a~~~~wH~~CF~C~~C~~~L~~~~~f~~~~~~~yC~~C~~~~~~~~   67 (73)
T 1wig_A            3 SGSSGCDSCEKYITG-RVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWHPACRQAARTED   67 (73)
T ss_dssp             CSCCSCSSSCCCCSS-CCBCCSSCCBCTTTSCCSSSCCCCCSSCCCEEETTEEECTTHHHHTSSSS
T ss_pred             cCcCCcccCCCEecC-eeEEeCCCCCCCCcCEeCCCCCCCCCCCeeEeeCCEEEChHHChHhhccc
Confidence            467899999999997 7788999999999999999999998 678999999999999999987654

>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=99.48  E-value=9.8e-15  Score=109.25  Aligned_cols=65  Identities=23%  Similarity=0.425  Sum_probs=58.8

Q ss_pred             CCCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCCCC
Q psy12252         18 PAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKG   84 (356)
Q Consensus        18 ~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c   84 (356)
                      ....++|..|+++|. ++.+.++|+.||++||+|..|+++|.+.. ++++|++||..||.++|+|.+
T Consensus        12 ~~~~~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~-f~~~g~~yC~~cy~~~f~p~~   76 (79)
T 2cor_A           12 GLGKYICQKCHAIID-EQPLIFKNDPYHPDHFNCANCGKELTADA-RELKGELYCLPCHDKMGVSGP   76 (79)
T ss_dssp             CCCCCBCTTTCCBCC-SCCCCCSSSCCCTTTSBCSSSCCBCCTTC-EEETTEEECHHHHHTTSCCSS
T ss_pred             ccCCCCCccCCCEec-ceEEEECcceeCCCCCEeCCCCCccCCCC-EeECCEEeCHHHHHHhCCCCC
Confidence            456789999999999 57788999999999999999999999875 599999999999999999864

>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=99.48  E-value=9.9e-15  Score=107.10  Aligned_cols=64  Identities=28%  Similarity=0.544  Sum_probs=58.3

Q ss_pred             CCCCCCCCCCCccccc-eEEEeCCceeccCCcccccccccccCCCccccCCcccCccccccccCC
Q psy12252         19 AENPKCPACGKSVYAA-EERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGP   82 (356)
Q Consensus        19 ~~~~~C~~C~~~I~~~-~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~   82 (356)
                      +..++|..|+++|.++ ..+.++++.||++||+|..|+++|.+..|+++++++||..||.++|+.
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~~~~   67 (72)
T 1x61_A            3 SGSSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVATLES   67 (72)
T ss_dssp             SCCCCCSSSCSCCCSSSCCEECSSSEECTTTCBCSSSCCBCTTSCEEESSSCEEEHHHHHHHHHT
T ss_pred             CCCCCCccCCCccCCCceEEEECCCeEcccCCcccccCCcCCcCcCEeeCCeEECHHHHHHHHcc
Confidence            4678999999999975 478899999999999999999999888899999999999999998853

>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=99.47  E-value=1.6e-14  Score=108.57  Aligned_cols=75  Identities=21%  Similarity=0.457  Sum_probs=65.6

Q ss_pred             cccccCCCCCCCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccC-CCcc-ccCCcccCccccccccCCCC
Q psy12252          9 KLDIIMPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDS-TNCT-EHEKELYCRQCHGRKYGPKG   84 (356)
Q Consensus         9 ~~~~~~~~~~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~-~~~~-~~~g~~yC~~cy~~~~~~~c   84 (356)
                      +.+...+|.....++|..|+++|. ++.+.++++.||++||+|..|+++|.. ..|. ++++++||..||.++|++.+
T Consensus         3 ~~yC~~~y~~~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~~C~~c~~~~~~~~~   79 (81)
T 1x6a_A            3 SGSSGKDYWGKFGEFCHGCSLLMT-GPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVVSGPS   79 (81)
T ss_dssp             CCCCCCCSSCCSSCBCTTTCCBCC-SCCBCCTTCCBCTTSCBCTTTCCBCCTTSCEEECSSSCEEEHHHHHHHHCTTS
T ss_pred             CccchhHHhhhcCCcCccCCCCcC-ceEEEECCceeccccCCccCCCCccCCCCcEEEeeCCEEECHHHHHHHhcCCC
Confidence            455666788888899999999999 577889999999999999999999975 5666 58999999999999998875

>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=1.6e-14  Score=108.13  Aligned_cols=62  Identities=24%  Similarity=0.515  Sum_probs=56.7

Q ss_pred             CCCCCCCceeecceEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCCCcc
Q psy12252        280 DGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGC  344 (356)
Q Consensus       280 ~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~~  344 (356)
                      .+|++|+++|. ++.|.++|+.||++||+|+.|+++|.++. + ..+|++||+.||.++|++++.
T Consensus        16 ~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~-f-~~~g~~yC~~cy~~~f~p~~s   77 (79)
T 2cor_A           16 YICQKCHAIID-EQPLIFKNDPYHPDHFNCANCGKELTADA-R-ELKGELYCLPCHDKMGVSGPS   77 (79)
T ss_dssp             CBCTTTCCBCC-SCCCCCSSSCCCTTTSBCSSSCCBCCTTC-E-EETTEEECHHHHHTTSCCSSC
T ss_pred             CCCccCCCEec-ceEEEECcceeCCCCCEeCCCCCccCCCC-E-eECCEEeCHHHHHHhCCCCCC
Confidence            48999999999 68889999999999999999999999885 4 589999999999999999764

>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=99.45  E-value=2.3e-14  Score=104.93  Aligned_cols=60  Identities=25%  Similarity=0.567  Sum_probs=55.0

Q ss_pred             CCCCCCCceeecceEE-EeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccC
Q psy12252        280 DGCPRCGFVVYAAEQM-ISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFG  340 (356)
Q Consensus       280 ~~C~~C~~~I~~~e~v-~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~  340 (356)
                      .+|++|+++|.++|.+ .+.|+.||++||+|+.|+++|..+.++ ..+|++||+.||.++||
T Consensus        12 ~~C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~-~~~g~~yC~~~y~~lf~   72 (72)
T 3f6q_B           12 ATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFY-EFEGRKYCEHDFQMLFA   72 (72)
T ss_dssp             CBCTTTCCBCCTTCEEEEETTEEEETTTSSCTTTCCCCGGGCCE-EETTEEECHHHHHHHTC
T ss_pred             ccchhcCccccCCceEEEeCcCeeCcCCCcccCCCCCCCCCCeE-eECCeEeCHHHHHHhhC
Confidence            4899999999987764 699999999999999999999988776 59999999999999997

>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=99.43  E-value=3.3e-14  Score=104.68  Aligned_cols=61  Identities=15%  Similarity=0.411  Sum_probs=54.3

Q ss_pred             CCCCCCCceeecceEEEeCCcccccCcccccccCCCCC-CCCCccCCCCccccccccccccCCC
Q psy12252        280 DGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLD-STNLNDGPDNDIYCRGCYGKNFGPK  342 (356)
Q Consensus       280 ~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~-~~~~~~~~~g~~yC~~c~~~~f~~~  342 (356)
                      .+|++|+++|.+ +.|.++++.||++||+|+.|+++|. +..|+ ..++++||..||.++|+.+
T Consensus         6 ~~C~~C~~~I~~-~~v~a~~~~wH~~CF~C~~C~~~L~~~~~f~-~~~~~~yC~~C~~~~~~~~   67 (73)
T 1wig_A            6 SGCDSCEKYITG-RVLEAGEKHYHPSCALCVRCGQMFAEGEEMY-LQGSSIWHPACRQAARTED   67 (73)
T ss_dssp             CSCSSSCCCCSS-CCBCCSSCCBCTTTSCCSSSCCCCCSSCCCE-EETTEEECTTHHHHTSSSS
T ss_pred             CCcccCCCEecC-eeEEeCCCCCCCCcCEeCCCCCCCCCCCeeE-eeCCEEEChHHChHhhccc
Confidence            379999999984 7788999999999999999999998 44555 5899999999999998875

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

Probab=99.43  E-value=3.8e-14  Score=101.88  Aligned_cols=59  Identities=25%  Similarity=0.610  Sum_probs=54.0

Q ss_pred             CCCCCCCCCccccc-eEEEeCCceec--cCCcccccccccccCCCccccCCcccC-ccccccc
Q psy12252         21 NPKCPACGKSVYAA-EERVAGGYKFH--KMCFKCSMCSKFLDSTNCTEHEKELYC-RQCHGRK   79 (356)
Q Consensus        21 ~~~C~~C~~~I~~~-~~i~~~~~~~H--~~CF~C~~C~~~L~~~~~~~~~g~~yC-~~cy~~~   79 (356)
                      .+.|.+|+++|..+ +.+.++|+.||  ++||+|..|+++|.+..|++++|++|| .+||.++
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 AVVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKRM   64 (65)
T ss_dssp             CEECTTTSSEECTTSCEEEETTEEEETTTTTSBCTTTCCBCTTSCCEEETTEEESSHHHHHTT
T ss_pred             cCCCcCCCCeeccCceEEEECCCccCCCCCCEECCCCCCcCCCCceEEECCEEecCHHHhhhh
Confidence            46899999999974 78899999999  999999999999999999999999999 8898764

>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=4.4e-14  Score=103.63  Aligned_cols=61  Identities=28%  Similarity=0.773  Sum_probs=54.9

Q ss_pred             CCCCCCCceeecc-eEEEeCCcccccCcccccccCCCCCCCCCccCCCCccccccccccccCC
Q psy12252        280 DGCPRCGFVVYAA-EQMISKNRIWHRRCFSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGP  341 (356)
Q Consensus       280 ~~C~~C~~~I~~~-e~v~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~  341 (356)
                      .+|++|+++|.+. ..|.++++.||++||+|+.|+++|.+..|+ ..++++||+.||.++|+.
T Consensus         6 ~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~-~~~~~~yC~~cy~~~~~~   67 (72)
T 1x61_A            6 SGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFY-AVERRAYCEGCYVATLES   67 (72)
T ss_dssp             CCCSSSCSCCCSSSCCEECSSSEECTTTCBCSSSCCBCTTSCEE-ESSSCEEEHHHHHHHHHT
T ss_pred             CCCccCCCccCCCceEEEECCCeEcccCCcccccCCcCCcCcCE-eeCCeEECHHHHHHHHcc
Confidence            4899999999975 468899999999999999999999877777 599999999999999964

>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=99.42  E-value=9.2e-14  Score=112.82  Aligned_cols=61  Identities=28%  Similarity=0.620  Sum_probs=54.6

Q ss_pred             CCCCCCCCceeecceEEEeCCcccccCcccccccCCCCC--CCCCccCCCCccccccccccccC
Q psy12252        279 GDGCPRCGFVVYAAEQMISKNRIWHRRCFSCADCHRSLD--STNLNDGPDNDIYCRGCYGKNFG  340 (356)
Q Consensus       279 ~~~C~~C~~~I~~~e~v~~~g~~~H~~CF~C~~C~~~L~--~~~~~~~~~g~~yC~~c~~~~f~  340 (356)
                      ..+|++|+++|...+.|.++++.||++||+|+.|+++|.  +..|+ .++|++||+.||.++||
T Consensus        61 ~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~~g~~f~-~~dg~~yC~~cy~~~Fg  123 (123)
T 2l4z_A           61 WKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSY-TKSGMILCRNDYIRLFG  123 (123)
T ss_dssp             CSBBSSSSSBCCSSSEEEETTEEEETTTSBCTTTCCBGGGTTCCCB-CSSSCCBCHHHHHHHCC
T ss_pred             CCcCcCCCCCcCCcEEEEeCCcEEcccccCcCcCCCcccccCCceE-EECCEEeCHHHhhhhcC
Confidence            358999999999766789999999999999999999997  34566 69999999999999997

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

Probab=99.36  E-value=1.6e-13  Score=98.62  Aligned_cols=58  Identities=21%  Similarity=0.562  Sum_probs=52.7

Q ss_pred             CCCCCCceeecc-eEEEeCCcccc--cCcccccccCCCCCCCCCccCCCCcccc-cccccccc
Q psy12252        281 GCPRCGFVVYAA-EQMISKNRIWH--RRCFSCADCHRSLDSTNLNDGPDNDIYC-RGCYGKNF  339 (356)
Q Consensus       281 ~C~~C~~~I~~~-e~v~~~g~~~H--~~CF~C~~C~~~L~~~~~~~~~~g~~yC-~~c~~~~f  339 (356)
                      +|++|+++|.++ +.|.++|+.||  ++||+|+.|+++|.+..|+ ..+|+||| ..||.+++
T Consensus         4 ~C~~C~~~I~~~~~~v~a~~~~wH~~~~CF~C~~C~~~L~~~~f~-~~~g~~yC~~~C~~k~~   65 (65)
T 2iyb_E            4 VCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFM-PVEGMVFCSVECKKRMS   65 (65)
T ss_dssp             ECTTTSSEECTTSCEEEETTEEEETTTTTSBCTTTCCBCTTSCCE-EETTEEESSHHHHHTTC
T ss_pred             CCcCCCCeeccCceEEEECCCccCCCCCCEECCCCCCcCCCCceE-EECCEEecCHHHhhhhC
Confidence            799999999974 78899999999  9999999999999988887 59999999 88998763

>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=99.32  E-value=5.1e-13  Score=100.24  Aligned_cols=72  Identities=17%  Similarity=0.338  Sum_probs=61.4

Q ss_pred             ccccCCCCCCCCCCCCCCCCccccceEEEeCCceeccCCcccccccccccCCCccccCCc-ccCccccccccCC
Q psy12252         10 LDIIMPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCFKCSMCSKFLDSTNCTEHEKE-LYCRQCHGRKYGP   82 (356)
Q Consensus        10 ~~~~~~~~~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~-~yC~~cy~~~~~~   82 (356)
                      .+...+|..+..++|..|+++|.+ +.+.++++.||++||+|..|+++|..+.++..++. +||..||.+++..
T Consensus         4 ~yC~~dy~~~~~~~C~~C~~~I~~-~~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~~~~C~~C~~~~~~~   76 (81)
T 1v6g_A            4 GSSGLDYQRLYGTRCFSCDQFIEG-EVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCSLPVSVS   76 (81)
T ss_dssp             CCCCSCGGGSCCCBCTTTCCBCCS-CCEEETTEEECTTTSSCSSSCCCCCSSSCEEEETTEEEEHHHHSCCSSC
T ss_pred             CcchHHHHhHhCCcCccccCEecc-ceEEECCceeCccCCccccCCCCCCCCCEEEeCCCCEEChhhhcccCCC
Confidence            455667777888999999999994 78889999999999999999999988777777765 6999999877643

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

Probab=98.08  E-value=6.7e-07  Score=53.77  Aligned_cols=28  Identities=39%  Similarity=1.127  Sum_probs=26.5

Q ss_pred             CCCCCCCceeecceEEEeCCcccccCcc
Q psy12252        280 DGCPRCGFVVYAAEQMISKNRIWHRRCF  307 (356)
Q Consensus       280 ~~C~~C~~~I~~~e~v~~~g~~~H~~CF  307 (356)
                      .+|++|+++|++.|.+.+.|+.||..||
T Consensus         4 ~~C~~C~k~Vy~~Ek~~~~g~~~Hk~CF   31 (31)
T 1zfo_A            4 PNCARCGKIVYPTEKVNCLDKFWHKACF   31 (31)
T ss_dssp             CBCSSSCSBCCGGGCCCSSSSCCCGGGC
T ss_pred             CcCCccCCEEecceeEEECCeEecccCC
Confidence            3799999999999999999999999998

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

Probab=97.96  E-value=1.4e-06  Score=52.39  Aligned_cols=28  Identities=43%  Similarity=0.871  Sum_probs=26.7

Q ss_pred             CCCCCCCCccccceEEEeCCceeccCCc
Q psy12252         22 PKCPACGKSVYAAEERVAGGYKFHKMCF   49 (356)
Q Consensus        22 ~~C~~C~~~I~~~~~i~~~~~~~H~~CF   49 (356)
                      ++|+.|++.|+..|.+.++|+.||..||
T Consensus         4 ~~C~~C~k~Vy~~Ek~~~~g~~~Hk~CF   31 (31)
T 1zfo_A            4 PNCARCGKIVYPTEKVNCLDKFWHKACF   31 (31)
T ss_dssp             CBCSSSCSBCCGGGCCCSSSSCCCGGGC
T ss_pred             CcCCccCCEEecceeEEECCeEecccCC
Confidence            6899999999999999999999999998

---

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	356
d1b8ta2	65	g.39.1.3 (A:36-100) Cysteine-rich (intestinal) pro	1e-18
d1b8ta2	65	g.39.1.3 (A:36-100) Cysteine-rich (intestinal) pro	1e-18
d1b8ta2	65	g.39.1.3 (A:36-100) Cysteine-rich (intestinal) pro	2e-15
d1b8ta2	65	g.39.1.3 (A:36-100) Cysteine-rich (intestinal) pro	1e-10
d1b8ta4	49	g.39.1.3 (A:144-192) Cysteine-rich (intestinal) pr	4e-16
d1b8ta4	49	g.39.1.3 (A:144-192) Cysteine-rich (intestinal) pr	3e-14
d1b8ta4	49	g.39.1.3 (A:144-192) Cysteine-rich (intestinal) pr	4e-14
d1b8ta4	49	g.39.1.3 (A:144-192) Cysteine-rich (intestinal) pr	3e-09
d1imla2	48	g.39.1.3 (A:29-76) Cysteine-rich (intestinal) prot	7e-11
d1imla2	48	g.39.1.3 (A:29-76) Cysteine-rich (intestinal) prot	4e-09
d1imla2	48	g.39.1.3 (A:29-76) Cysteine-rich (intestinal) prot	2e-06
d1imla2	48	g.39.1.3 (A:29-76) Cysteine-rich (intestinal) prot	1e-05
d1b8ta3	43	g.39.1.3 (A:101-143) Cysteine-rich (intestinal) pr	1e-06
d1b8ta3	43	g.39.1.3 (A:101-143) Cysteine-rich (intestinal) pr	2e-06
d1b8ta3	43	g.39.1.3 (A:101-143) Cysteine-rich (intestinal) pr	3e-06
d1a7ia2	32	g.39.1.3 (A:36-67) Cysteine-rich (intestinal) prot	2e-06
d1a7ia2	32	g.39.1.3 (A:36-67) Cysteine-rich (intestinal) prot	1e-05
d2d8ya1	35	g.39.1.3 (A:9-43) Eplin, LIMA1 {Human (Homo sapien	2e-05
d2d8ya1	35	g.39.1.3 (A:9-43) Eplin, LIMA1 {Human (Homo sapien	6e-04
d2d8ya1	35	g.39.1.3 (A:9-43) Eplin, LIMA1 {Human (Homo sapien	0.002
d2cu8a1	30	g.39.1.3 (A:8-37) Cysteine-rich (intestinal) prote	7e-05
d2cu8a1	30	g.39.1.3 (A:8-37) Cysteine-rich (intestinal) prote	4e-04
d2cu8a1	30	g.39.1.3 (A:8-37) Cysteine-rich (intestinal) prote	6e-04
d1ibia1	28	g.39.1.3 (A:117-144) Cysteine-rich (intestinal) pr	1e-04
d1ibia1	28	g.39.1.3 (A:117-144) Cysteine-rich (intestinal) pr	5e-04
d1ibia1	28	g.39.1.3 (A:117-144) Cysteine-rich (intestinal) pr	0.001
d1ibia2	31	g.39.1.3 (A:145-175) Cysteine-rich (intestinal) pr	6e-04
d2co8a2	36	g.39.1.3 (A:8-43) Nedd9 interacting protein with c	0.002

>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 = 77.2 bits (190), Expect = 1e-18
 Identities = 28/49 (57%), Positives = 33/49 (67%)

Query: 51 CSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAG 99
          C +C K LDST    H  E+YC+ C+G+KYGPKG G G GAG LS D G
Sbjct: 2  CMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTDKG 50

>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 = 76.4 bits (188), Expect = 1e-18
 Identities = 29/50 (58%), Positives = 34/50 (68%)

Query: 100 MCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAGEHL 149
           +C K LDST    H  E+YC+ C+G+KYGPKG G G GAG LS D GE L
Sbjct: 4   VCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTDKGESL 53

>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 = 67.9 bits (166), Expect = 2e-15
 Identities = 24/47 (51%), Positives = 32/47 (68%), Gaps = 1/47 (2%)

Query: 309 CADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCGFGLGAGALTM 355
           C  C ++LDST +    D +IYC+ CYGK +GPKG G G+GAG L+ 
Sbjct: 2   CMVCKKNLDSTTVAVHGD-EIYCKSCYGKKYGPKGKGKGMGAGTLST 47

>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 = 54.5 bits (131), Expect = 1e-10
 Identities = 22/58 (37%), Positives = 26/58 (44%), Gaps = 12/58 (20%)

Query: 200 CRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYGHSPTLVST 257
           C  C K LDS       D+             YCK+CYGK +GPKG G G     +ST
Sbjct: 2   CMVCKKNLDSTTVAVHGDE------------IYCKSCYGKKYGPKGKGKGMGAGTLST 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 = 69.4 bits (170), Expect = 4e-16
 Identities = 21/48 (43%), Positives = 32/48 (66%)

Query: 50 KCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMD 97
          +C+ C K L+ST   + + E+YC+ C+ + +GPKG+GFG GAG L   
Sbjct: 1  RCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKGFGFGQGAGALIHS 48

>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 = 64.0 bits (156), Expect = 3e-14
 Identities = 20/45 (44%), Positives = 29/45 (64%)

Query: 100 MCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMD 144
            C K L+ST   + + E+YC+ C+ + +GPKG+GFG GAG L   
Sbjct: 4   KCGKSLESTTLADKDGEIYCKGCYAKNFGPKGFGFGQGAGALIHS 48

>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 = 64.0 bits (156), Expect = 4e-14
 Identities = 31/48 (64%), Positives = 36/48 (75%), Gaps = 1/48 (2%)

Query: 309 CADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCGFGLGAGALTMA 356
           CA C +SL+ST L D  D +IYC+GCY KNFGPKG GFG GAGAL  +
Sbjct: 2   CAKCGKSLESTTLAD-KDGEIYCKGCYAKNFGPKGFGFGQGAGALIHS 48

>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 = 50.1 bits (120), Expect = 3e-09
 Identities = 23/51 (45%), Positives = 28/51 (54%), Gaps = 12/51 (23%)

Query: 199 KCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYG 249
           +C  C K+L+S    D  D +IYCK CY            KNFGPKGFG+G
Sbjct: 1   RCAKCGKSLESTTLAD-KDGEIYCKGCY-----------AKNFGPKGFGFG 39

>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 = 54.8 bits (132), Expect = 7e-11
 Identities = 19/41 (46%), Positives = 23/41 (56%), Gaps = 1/41 (2%)

Query: 50 KCSMCSKFLDSTNCTEHEKELYC-RQCHGRKYGPKGYGFGG 89
          KC  C K L S    EHE + YC   C+   +GPKG+G GG
Sbjct: 1  KCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGFGRGG 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 = 49.7 bits (119), Expect = 4e-09
 Identities = 17/38 (44%), Positives = 21/38 (55%), Gaps = 1/38 (2%)

Query: 100 MCSKFLDSTNCTEHEKELYC-RQCHGRKYGPKGYGFGG 136
            C K L S    EHE + YC   C+   +GPKG+G GG
Sbjct: 4   KCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGFGRGG 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 = 42.0 bits (99), Expect = 2e-06
 Identities = 19/51 (37%), Positives = 21/51 (41%), Gaps = 11/51 (21%)

Query: 199 KCRDCNKTLDSINACDGPDKDIYCKTCYGKKHKYCKACYGKNFGPKGFGYG 249
           KC  C KTL S    +  +   YC             CY   FGPKGFG G
Sbjct: 1   KCEKCGKTLTSGGHAEH-EGKPYCN----------HPCYSAMFGPKGFGRG 40

>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 = 39.7 bits (93), Expect = 1e-05
 Identities = 18/47 (38%), Positives = 23/47 (48%), Gaps = 3/47 (6%)

Query: 309 CADCHRSLDSTNLNDGPDNDIYC-RGCYGKNFGPKGCGFGLGAGALT 354
           C  C ++L S    +  +   YC   CY   FGPKG G G GA + T
Sbjct: 2   CEKCGKTLTSGGHAEH-EGKPYCNHPCYSAMFGPKGFGRG-GAESHT 46

>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 = 42.9 bits (101), Expect = 1e-06
 Identities = 14/32 (43%), Positives = 20/32 (62%)

Query: 18 PAENPKCPACGKSVYAAEERVAGGYKFHKMCF 49
             +  CP CG++VYAAE+ +  G  +HK CF
Sbjct: 12 VGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCF 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 = 42.1 bits (99), Expect = 2e-06
 Identities = 17/29 (58%), Positives = 21/29 (72%)

Query: 279 GDGCPRCGFVVYAAEQMISKNRIWHRRCF 307
            DGCPRCG  VYAAE++I   + WH+ CF
Sbjct: 15  SDGCPRCGQAVYAAEKVIGAGKSWHKSCF 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 = 41.4 bits (97), Expect = 3e-06
 Identities = 17/33 (51%), Positives = 21/33 (63%)

Query: 166 KAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCF 198
           K     GCPRCG  V+AAE+V+  G  WH+ CF
Sbjct: 11  KVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCF 43

>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 = 41.8 bits (98), Expect = 2e-06
 Identities = 16/31 (51%), Positives = 22/31 (70%)

Query: 51 CSMCSKFLDSTNCTEHEKELYCRQCHGRKYG 81
          C +C K LDST    H+ E+YC+ C+G+KYG
Sbjct: 2  CMVCRKNLDSTTVAIHDAEVYCKSCYGKKYG 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 = 39.9 bits (93), Expect = 1e-05
 Identities = 15/30 (50%), Positives = 21/30 (70%)

Query: 99  GMCSKFLDSTNCTEHEKELYCRQCHGRKYG 128
            +C K LDST    H+ E+YC+ C+G+KYG
Sbjct: 3   MVCRKNLDSTTVAIHDAEVYCKSCYGKKYG 32

>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 = 39.0 bits (91), Expect = 2e-05
 Identities = 12/34 (35%), Positives = 14/34 (41%)

Query: 16 FVPAENPKCPACGKSVYAAEERVAGGYKFHKMCF 49
          F       C  C K+VY  E  +A    FH  CF
Sbjct: 2  FQAPARETCVECQKTVYPMERLLANQQVFHISCF 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 = 34.7 bits (80), Expect = 6e-04
 Identities = 11/35 (31%), Positives = 17/35 (48%)

Query: 164 KIKAAPGKGCPRCGGVVFAAEQVLAKGSEWHRKCF 198
           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 = 33.6 bits (77), Expect = 0.002
 Identities = 8/28 (28%), Positives = 16/28 (57%)

Query: 280 DGCPRCGFVVYAAEQMISKNRIWHRRCF 307
           + C  C   VY  E++++  +++H  CF
Sbjct: 8   ETCVECQKTVYPMERLLANQQVFHISCF 35

>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 = 37.1 bits (86), Expect = 7e-05
 Identities = 13/28 (46%), Positives = 17/28 (60%)

Query: 21 NPKCPACGKSVYAAEERVAGGYKFHKMC 48
            KCP C K+VY AE+  + G  +HK C
Sbjct: 2  ASKCPKCDKTVYFAEKVSSLGKDWHKFC 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 = 35.2 bits (81), Expect = 4e-04
 Identities = 11/25 (44%), Positives = 16/25 (64%)

Query: 282 CPRCGFVVYAAEQMISKNRIWHRRC 306
           CP+C   VY AE++ S  + 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 = 6e-04
 Identities = 11/25 (44%), Positives = 17/25 (68%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKC 197
           CP+C   V+ AE+V + G +WH+ C
Sbjct: 5   CPKCDKTVYFAEKVSSLGKDWHKFC 29

>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 = 36.4 bits (84), Expect = 1e-04
 Identities = 13/25 (52%), Positives = 17/25 (68%)

Query: 173 CPRCGGVVFAAEQVLAKGSEWHRKC 197
           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 = 34.9 bits (80), Expect = 5e-04
 Identities = 13/27 (48%), Positives = 18/27 (66%)

Query: 280 DGCPRCGFVVYAAEQMISKNRIWHRRC 306
           + C RCG  VYAAE++I   + WH+ C
Sbjct: 2   EKCSRCGDSVYAAEKVIGAGKPWHKNC 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 = 34.1 bits (78), Expect = 0.001
 Identities = 14/26 (53%), Positives = 17/26 (65%)

Query: 23 KCPACGKSVYAAEERVAGGYKFHKMC 48
          KC  CG SVYAAE+ +  G  +HK C
Sbjct: 3  KCSRCGDSVYAAEKVIGAGKPWHKNC 28

>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 = 34.6 bits (79), Expect = 6e-04
 Identities = 17/32 (53%), Positives = 23/32 (71%), Gaps = 1/32 (3%)

Query: 307 FSCADCHRSLDSTNLNDGPDNDIYCRGCYGKN 338
           F CA C +SL+ST L +  + +IYC+GCY KN
Sbjct: 1   FRCAKCGKSLESTTLTE-KEGEIYCKGCYAKN 31

>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 = 33.6 bits (77), Expect = 0.002
 Identities = 10/27 (37%), Positives = 14/27 (51%)

Query: 23 KCPACGKSVYAAEERVAGGYKFHKMCF 49
           C  CG+ +Y  E     G+ FH+ CF
Sbjct: 10 LCALCGEHLYVLERLCVNGHFFHRSCF 36

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	356
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	99.23
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.98
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.81
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	98.78
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.74
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.74
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	98.69
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	98.62
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.43
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.38
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.3
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	98.29
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.26
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	98.25
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.24
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	98.19
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	98.16
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	98.15
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	98.15
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	98.15
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	98.14
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.13
d2co8a2	36	Nedd9 interacting protein with calponin homology,	98.12
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	98.12
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.1
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.09
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	98.07
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	98.06
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	98.05
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.03
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	98.03
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	98.02
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	98.01
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.01
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.99
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	97.97
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	97.97
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.95
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.93
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	97.93
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	97.92
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	97.82
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	97.82
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	97.82
d2co8a2	36	Nedd9 interacting protein with calponin homology,	97.81
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.79
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.79
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.78
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	97.77
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	97.77
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	97.77
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	97.74
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	97.73
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.7
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	97.69
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.68
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	97.68
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.67
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.66
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	97.65
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.64
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.63
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	97.62
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.51
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	97.5
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	97.48
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	97.48
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	97.43
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	97.41
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	97.41
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	97.4
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.38
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.38
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.31
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.24
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	97.21
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	97.21
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	97.19
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.17
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.16
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	97.15
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.15
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	97.14
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.11
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.06
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.03
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.02
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	96.94
d1x61a1	27	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.74
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	96.73
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	96.72
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.7
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	96.62
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	96.61
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.6
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	96.59
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	96.56
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	96.27
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	96.25
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	95.97
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	95.91
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	95.74
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	95.63
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	95.48
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	95.47
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	95.23
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	94.8
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	94.52
d2cora1	31	Pinch (particularly interesting new Cys-His) prote	94.18
d1x61a1	27	Thyroid receptor interacting protein 6, TRIP6 {Hum	93.82
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	93.66
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	93.59
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	92.89
d1rutx2	34	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	92.55
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	92.26
d2cora1	31	Pinch (particularly interesting new Cys-His) prote	92.09
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	91.97
d1rutx4	33	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	91.63
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	91.58
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	91.43
d1rutx4	33	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	90.61
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	87.82
d1x68a2	34	Four and a half LIM domains protein 5, FHL-5 {Huma	87.24
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	87.08
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	86.71
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	80.64

>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=99.23  E-value=8.6e-13  Score=85.10  Aligned_cols=48  Identities=63%  Similarity=1.259  Sum_probs=45.2

Q ss_pred             cccccCCCCCCCCCccCCCCccccccccccccCCCccccCCCCCccccC
Q psy12252        308 SCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCGFGLGAGALTMA  356 (356)
Q Consensus       308 ~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~~~~~~~~~~~~~~  356 (356)
                      +|..|++.|++.... ++|++|||+.||.++||||+++++++||+|.++
T Consensus         1 KC~~C~k~Lds~t~~-ehdg~~YCk~CY~k~fGPKG~g~G~gaG~l~~~   48 (49)
T d1b8ta4           1 RCAKCGKSLESTTLA-DKDGEIYCKGCYAKNFGPKGFGFGQGAGALIHS   48 (49)
T ss_dssp             BCTTTCCBCCSSSEE-EETTEEEEHHHHHHHTCCCCCCCCCCCCCCCCC
T ss_pred             ChhhcCCccCCCccc-ccCCcccchhhhhhccCCCccCcccCccccccc
Confidence            699999999999877 599999999999999999999999999999875

>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=98.98  E-value=4.4e-11  Score=81.41  Aligned_cols=47  Identities=49%  Similarity=1.090  Sum_probs=44.2

Q ss_pred             cccccCCCCCCCCCccCCCCccccccccccccCCCccccCCCCCcccc
Q psy12252        308 SCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGCGFGLGAGALTM  355 (356)
Q Consensus       308 ~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~~~~~~~~~~~~~  355 (356)
                      .|..|++.|++.... ++++.|||+.||.++||||+++++++||+|.|
T Consensus         1 ~C~~C~K~LdS~~~~-eh~~e~YCk~CY~k~fGPkG~G~G~gag~l~~   47 (65)
T d1b8ta2           1 LCMVCKKNLDSTTVA-VHGDEIYCKSCYGKKYGPKGKGKGMGAGTLST   47 (65)
T ss_dssp             BCTTTCCBCCSSSEE-EETTEEEEHHHHHHHHSCCCCCCCCCCCCCCC
T ss_pred             CchhcCCccCCCccc-cCCCcccchhhhccccCCCccccccccceeee
Confidence            489999999999987 69999999999999999999999999999887

>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=98.81  E-value=8.2e-10  Score=66.63  Aligned_cols=26  Identities=27%  Similarity=0.786  Sum_probs=24.7

Q ss_pred             CCCCCCceeecceEEEeCCcccccCcc
Q psy12252        281 GCPRCGFVVYAAEQMISKNRIWHRRCF  307 (356)
Q Consensus       281 ~C~~C~~~I~~~e~v~~~g~~~H~~CF  307 (356)
                      +|++|+++|. |+.|.|+|+.||++||
T Consensus        10 kC~~C~~~I~-g~~v~Al~~~wHpeCF   35 (35)
T d1x3ha1          10 KCGGCNRPVL-ENYLSAMDTVWHPECF   35 (35)
T ss_dssp             BCTTTCCBCC-SSCEEETTEEECTTTC
T ss_pred             hhhhcCCccc-chheeecCCccCcccC
Confidence            7999999997 7899999999999998

>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=98.78  E-value=4.3e-10  Score=67.78  Aligned_cols=34  Identities=24%  Similarity=0.486  Sum_probs=33.0

Q ss_pred             cccccccccccCCCccccCCcccCccccccccCC
Q psy12252         49 FKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGP   82 (356)
Q Consensus        49 F~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~   82 (356)
                      |+|+.|+++|.+..|++++|+|||+.||.++|+|
T Consensus         1 F~C~~C~~~f~~~~F~e~~G~pYCe~~Y~~lFAP   34 (35)
T d1g47a2           1 FVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAP   34 (35)
T ss_dssp             CCCTTTCCCCGGGCSEEETTEEECHHHHHHHCCC
T ss_pred             CCCCCCcCCCCCCCeEEECCEecChHhHHhhcCC
Confidence            8999999999999999999999999999999987

>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=98.74  E-value=2.5e-09  Score=64.46  Aligned_cols=34  Identities=29%  Similarity=0.591  Sum_probs=31.2

Q ss_pred             CCCCCCCCCCCCCCCccccceEEEeCCceeccCCc
Q psy12252         15 PFVPAENPKCPACGKSVYAAEERVAGGYKFHKMCF   49 (356)
Q Consensus        15 ~~~~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF   49 (356)
                      +|.....++|.+|+++|.+ +.|+|+|++||++||
T Consensus         2 DY~~~fapkC~~C~~~I~g-~~v~Al~~~wHpeCF   35 (35)
T d1x3ha1           2 DFLAMFSPKCGGCNRPVLE-NYLSAMDTVWHPECF   35 (35)
T ss_dssp             CCCCCCSCBCTTTCCBCCS-SCEEETTEEECTTTC
T ss_pred             cHHHHhChhhhhcCCcccc-hheeecCCccCcccC
Confidence            5777889999999999985 789999999999998

>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=98.74  E-value=1.5e-09  Score=69.73  Aligned_cols=47  Identities=45%  Similarity=1.085  Sum_probs=43.2

Q ss_pred             ccccccccccCCCccccCCcccCccccccccCCCCCccCCCcceeec
Q psy12252         50 KCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSM   96 (356)
Q Consensus        50 ~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~~c~~~~~~~~~   96 (356)
                      +|..|++.|++....++|++|||+.||.++|+|++.+.+++.|.++.
T Consensus         1 KC~~C~k~Lds~t~~ehdg~~YCk~CY~k~fGPKG~g~G~gaG~l~~   47 (49)
T d1b8ta4           1 RCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKGFGFGQGAGALIH   47 (49)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHTCCCCCCCCCCCCCCCC
T ss_pred             ChhhcCCccCCCcccccCCcccchhhhhhccCCCccCcccCcccccc
Confidence            68999999999999999999999999999999999999988776654

>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=98.69  E-value=2.3e-09  Score=67.87  Aligned_cols=44  Identities=39%  Similarity=0.847  Sum_probs=39.3

Q ss_pred             cccccCCCCCCCCCccCCCCcccc-ccccccccCCCccccCCCCCcc
Q psy12252        308 SCADCHRSLDSTNLNDGPDNDIYC-RGCYGKNFGPKGCGFGLGAGAL  353 (356)
Q Consensus       308 ~C~~C~~~L~~~~~~~~~~g~~yC-~~c~~~~f~~~~~~~~~~~~~~  353 (356)
                      +|..|++.|+++... ++|++||| +.||.++||||+++.+ ++|+.
T Consensus         1 kC~~C~K~L~sg~~a-eHdg~pYC~k~CY~~~FGPkG~g~G-g~gs~   45 (48)
T d1imla2           1 KCEKCGKTLTSGGHA-EHEGKPYCNHPCYSAMFGPKGFGRG-GAESH   45 (48)
T ss_dssp             BCTTTCCBCCTTTEE-EETTEEEETTTHHHHHSSCCCSSCC-CSSSC
T ss_pred             CchhcCcCcCCCChh-hcCCcccccccchhhccCCCccccC-Cccce
Confidence            689999999999987 69999999 7799999999999888 67654

>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=98.62  E-value=1.8e-09  Score=65.03  Aligned_cols=34  Identities=24%  Similarity=0.568  Sum_probs=32.4

Q ss_pred             ccccccCCCCCCCCCccCCCCccccccccccccCC
Q psy12252        307 FSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGP  341 (356)
Q Consensus       307 F~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~  341 (356)
                      |+|+.|+++|.++.|+ +++|+|||+.||.++|||
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            7999999999999998 699999999999999997

>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=98.43  E-value=2.8e-08  Score=67.33  Aligned_cols=50  Identities=56%  Similarity=1.050  Sum_probs=46.6

Q ss_pred             ccccccccccCCCccccCCcccCccccccccCCCCCccCCCcceeecccc
Q psy12252         50 KCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKGYGFGGGAGCLSMDAG   99 (356)
Q Consensus        50 ~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c~~c~~~~~~~~~~~~   99 (356)
                      .|..|++.|.+..+.++++++||+.||.++|+|+.++.+.+.|.+++|.+
T Consensus         1 ~C~~C~K~LdS~~~~eh~~e~YCk~CY~k~fGPkG~G~G~gag~l~~d~g   50 (65)
T d1b8ta2           1 LCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTDKG   50 (65)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHHSCCCCCCCCCCCCCCCCCC
T ss_pred             CchhcCCccCCCccccCCCcccchhhhccccCCCccccccccceeeeccc
Confidence            38899999999999999999999999999999999999999888888755

>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=98.38  E-value=1e-07  Score=59.40  Aligned_cols=31  Identities=26%  Similarity=0.439  Sum_probs=27.8

Q ss_pred             CCCCCCCCCCCCccccceEEEeCCceeccCCc
Q psy12252         18 PAENPKCPACGKSVYAAEERVAGGYKFHKMCF   49 (356)
Q Consensus        18 ~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF   49 (356)
                      ....++|..|+++|.+ ..|.|+|+.||++||
T Consensus        15 ~~r~P~C~~C~~pI~g-~~vtAlgk~WHPEhF   45 (45)
T d2dara2          15 GKRTPMCAHCNQVIRG-PFLVALGKSWHPEEF   45 (45)
T ss_dssp             TTCCCBBSSSCCBCCS-CEEEETTEEECTTTC
T ss_pred             CCCCeeccccCCcccC-ceeeecCCccCcCCC
Confidence            3567999999999985 789999999999998

>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=98.30  E-value=1.5e-07  Score=58.62  Aligned_cols=27  Identities=22%  Similarity=0.612  Sum_probs=25.2

Q ss_pred             CCCCCCCceeecceEEEeCCcccccCcc
Q psy12252        280 DGCPRCGFVVYAAEQMISKNRIWHRRCF  307 (356)
Q Consensus       280 ~~C~~C~~~I~~~e~v~~~g~~~H~~CF  307 (356)
                      .+|+.|+++|. |..|+|+|+.||++||
T Consensus        19 P~C~~C~~pI~-g~~vtAlgk~WHPEhF   45 (45)
T d2dara2          19 PMCAHCNQVIR-GPFLVALGKSWHPEEF   45 (45)
T ss_dssp             CBBSSSCCBCC-SCEEEETTEEECTTTC
T ss_pred             eeccccCCccc-CceeeecCCccCcCCC
Confidence            47999999997 7899999999999998

>d1x63a1 g.39.1.3 (A:8-44) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.29  E-value=1.4e-07  Score=56.82  Aligned_cols=27  Identities=33%  Similarity=0.824  Sum_probs=24.9

Q ss_pred             CCCCCCceeecceE-EEeCCcccccCcc
Q psy12252        281 GCPRCGFVVYAAEQ-MISKNRIWHRRCF  307 (356)
Q Consensus       281 ~C~~C~~~I~~~e~-v~~~g~~~H~~CF  307 (356)
                      +|.+|+++|.+|+. |.+.|+.||.+||
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            79999999998865 7899999999998

>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=98.26  E-value=2.3e-07  Score=54.15  Aligned_cols=26  Identities=27%  Similarity=0.816  Sum_probs=23.8

Q ss_pred             CCCCCCceeecceEEEeCCcccccCcc
Q psy12252        281 GCPRCGFVVYAAEQMISKNRIWHRRCF  307 (356)
Q Consensus       281 ~C~~C~~~I~~~e~v~~~g~~~H~~CF  307 (356)
                      +|..|+++|+. ..|+..++.||.+||
T Consensus        10 ~C~~Ckk~It~-GGvtY~dqpWHkeCF   35 (35)
T d2cuqa2          10 RCARCSKTLTQ-GGVTYRDQPWHRECL   35 (35)
T ss_dssp             CCTTTCCCCCS-CCEESSSSEECTTTC
T ss_pred             HHhhcCCcccc-CceeecCCcchhhhC
Confidence            79999999996 469999999999998

>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=98.25  E-value=1.5e-07  Score=58.17  Aligned_cols=36  Identities=25%  Similarity=0.595  Sum_probs=33.7

Q ss_pred             cccccCCCCCCCCCccCCCCccccccccccccCCCcc
Q psy12252        308 SCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGPKGC  344 (356)
Q Consensus       308 ~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~~~~  344 (356)
                      +|+.|++.|..+.+. ..+|.+||++||.+||++|+.
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            699999999999987 699999999999999999975

>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=98.24  E-value=3.1e-07  Score=57.63  Aligned_cols=32  Identities=53%  Similarity=1.211  Sum_probs=29.1

Q ss_pred             CCCCCCCCCCCceeecceEEEeCCcccccCcc
Q psy12252        276 GRNGDGCPRCGFVVYAAEQMISKNRIWHRRCF  307 (356)
Q Consensus       276 ~~~~~~C~~C~~~I~~~e~v~~~g~~~H~~CF  307 (356)
                      .+..++|.+|++.+++.|.+.+.|+.||+.||
T Consensus        12 ~g~~~kC~~C~k~VY~~E~~~~~g~~~Hk~CF   43 (43)
T d1b8ta3          12 VGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCF   43 (43)
T ss_dssp             CCCCEECTTTSCEECSSSCEEETTEEECTTTC
T ss_pred             cCCCCcCccCCCEeeHHHHhhcCCCccccCCC
Confidence            34456899999999999999999999999998

>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=98.19  E-value=4.1e-07  Score=51.38  Aligned_cols=29  Identities=45%  Similarity=0.930  Sum_probs=27.1

Q ss_pred             CCCCCCCCCccccceEEEeCCceeccCCc
Q psy12252         21 NPKCPACGKSVYAAEERVAGGYKFHKMCF   49 (356)
Q Consensus        21 ~~~C~~C~~~I~~~~~i~~~~~~~H~~CF   49 (356)
                      +++|++|+++|+..|.+..+|+.||+.|+
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            47899999999999999999999999985

>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=98.16  E-value=6.4e-07  Score=53.25  Aligned_cols=34  Identities=35%  Similarity=0.703  Sum_probs=30.7

Q ss_pred             CCCCCCCCCCCCCCccccceEEEeCCceeccCCc
Q psy12252         16 FVPAENPKCPACGKSVYAAEERVAGGYKFHKMCF   49 (356)
Q Consensus        16 ~~~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF   49 (356)
                      |.+.....|..|++.|+..|.+.++|+.||..||
T Consensus         2 f~~p~~~kC~~C~K~VY~~E~~~a~g~~~Hk~CF   35 (35)
T d2d8ya1           2 FQAPARETCVECQKTVYPMERLLANQQVFHISCF   35 (35)
T ss_dssp             SCSSSSCBCTTTCCBCCTTSEEECSSSEEETTTC
T ss_pred             CCCCCCcccccCCCEEeeeeeEecCCeehhhccC
Confidence            3455778999999999999999999999999998

>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=98.15  E-value=4e-07  Score=51.45  Aligned_cols=27  Identities=41%  Similarity=0.960  Sum_probs=25.8

Q ss_pred             CCCCCCceeecceEEEeCCcccccCcc
Q psy12252        281 GCPRCGFVVYAAEQMISKNRIWHRRCF  307 (356)
Q Consensus       281 ~C~~C~~~I~~~e~v~~~g~~~H~~CF  307 (356)
                      .|++|++++++.|.+...|+.||+.|+
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            799999999999999999999999985

>d2d8za2 g.39.1.3 (A:33-64) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.15  E-value=2.2e-07  Score=53.42  Aligned_cols=32  Identities=28%  Similarity=0.638  Sum_probs=29.8

Q ss_pred             ccccccccccCCCccccCCcccCccccccccC
Q psy12252         50 KCSMCSKFLDSTNCTEHEKELYCRQCHGRKYG   81 (356)
Q Consensus        50 ~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~   81 (356)
                      .|..|.++|+++.|..+|++|||..||.++|+
T Consensus         1 ~C~~C~~~L~GQry~~rd~~PyC~~Cf~~lfA   32 (32)
T d2d8za2           1 VCTACRKQLSGQRFTARDDFAYCLNCFCDLYA   32 (32)
T ss_dssp             BCSSSCCBCTTSCCEESSSSEECHHHHHHHTC
T ss_pred             CcccCCccccCceeeecCCCeehHHhhHhhcC
Confidence            48899999999999999999999999999874

>d2d8za2 g.39.1.3 (A:33-64) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.14  E-value=2.4e-07  Score=53.24  Aligned_cols=32  Identities=22%  Similarity=0.728  Sum_probs=29.6

Q ss_pred             cccccCCCCCCCCCccCCCCccccccccccccC
Q psy12252        308 SCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFG  340 (356)
Q Consensus       308 ~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~  340 (356)
                      .|..|.++|.++.|. .+|++|||.+||..+||
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            488999999999987 59999999999999996

>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=98.13  E-value=7.5e-07  Score=51.73  Aligned_cols=28  Identities=21%  Similarity=0.729  Sum_probs=26.7

Q ss_pred             CCCCCCCceeecceEEEeCCcccccCcc
Q psy12252        280 DGCPRCGFVVYAAEQMISKNRIWHRRCF  307 (356)
Q Consensus       280 ~~C~~C~~~I~~~e~v~~~g~~~H~~CF  307 (356)
                      ..|++|++.|..|+.+.|+++.||.+||
T Consensus         9 ~~CagCg~eik~gQaL~ALdkqWH~~CF   36 (36)
T d2dj7a2           9 SHCAGCKEEIKHGQSLLALDKQWHVSCF   36 (36)
T ss_dssp             SCCTTTCCCCSSSCCEEETTEEECTTTC
T ss_pred             ccccccchhhhCCceeeeeecceeeeeC
Confidence            3799999999999999999999999998

>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=98.12  E-value=4.3e-07  Score=54.20  Aligned_cols=32  Identities=34%  Similarity=0.808  Sum_probs=29.0

Q ss_pred             CCCCCCCCCCCceeecceEEEeCCcccccCcc
Q psy12252        276 GRNGDGCPRCGFVVYAAEQMISKNRIWHRRCF  307 (356)
Q Consensus       276 ~~~~~~C~~C~~~I~~~e~v~~~g~~~H~~CF  307 (356)
                      .+..++|..|++.+++.|.+.+.|+.||..||
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            34456999999999999999999999999998

>d1zfoa_ g.39.1.4 (A:) LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LASP-1
domain: LASP-1
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=98.12  E-value=2.3e-07  Score=51.62  Aligned_cols=27  Identities=41%  Similarity=1.177  Sum_probs=26.0

Q ss_pred             CCCCCCceeecceEEEeCCcccccCcc
Q psy12252        281 GCPRCGFVVYAAEQMISKNRIWHRRCF  307 (356)
Q Consensus       281 ~C~~C~~~I~~~e~v~~~g~~~H~~CF  307 (356)
                      .|++|++.+++.|.+.-.++.||+.||
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            599999999999999999999999998

>d2dj7a1 g.39.1.3 (A:44-74) Actin-binding LIM protein 3, abLIM-3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 3, abLIM-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.10  E-value=3e-07  Score=52.00  Aligned_cols=31  Identities=29%  Similarity=0.588  Sum_probs=27.7

Q ss_pred             cccccCCCCCCCCCccCCCCccccccccccccC
Q psy12252        308 SCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFG  340 (356)
Q Consensus       308 ~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~  340 (356)
                      +|..|++.|++++  +.+||.|||+.+|+++||
T Consensus         1 kC~~C~~vL~gEY--m~kdG~PyCe~DY~~~FG   31 (31)
T d2dj7a1           1 KCQTCSVILTGEY--ISKDGVPYCESDYHAQFG   31 (31)
T ss_dssp             BCSSSCCBCSSCC--EEETTEEECTTHHHHHTT
T ss_pred             CccccCcccccee--ecCCCCcccHHHHHHhcC
Confidence            5899999999885  359999999999999997

>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=98.09  E-value=7.5e-07  Score=55.80  Aligned_cols=32  Identities=44%  Similarity=0.974  Sum_probs=29.6

Q ss_pred             CCCCCCCCCCCCccccceEEEeCCceeccCCc
Q psy12252         18 PAENPKCPACGKSVYAAEERVAGGYKFHKMCF   49 (356)
Q Consensus        18 ~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF   49 (356)
                      .....+|..|++.|+..|.+.++|+.||+.||
T Consensus        12 ~g~~~kC~~C~k~VY~~E~~~~~g~~~Hk~CF   43 (43)
T d1b8ta3          12 VGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCF   43 (43)
T ss_dssp             CCCCEECTTTSCEECSSSCEEETTEEECTTTC
T ss_pred             cCCCCcCccCCCEeeHHHHhhcCCCccccCCC
Confidence            45668999999999999999999999999998

>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=98.07  E-value=6.5e-07  Score=56.47  Aligned_cols=39  Identities=46%  Similarity=0.972  Sum_probs=35.6

Q ss_pred             ccccccccccCCCccccCCcccC-ccccccccCCCCCccC
Q psy12252         50 KCSMCSKFLDSTNCTEHEKELYC-RQCHGRKYGPKGYGFG   88 (356)
Q Consensus        50 ~C~~C~~~L~~~~~~~~~g~~yC-~~cy~~~~~~~c~~c~   88 (356)
                      +|..|++.|.++...++|++||| +.||.++|+|+..+-+
T Consensus         1 kC~~C~K~L~sg~~aeHdg~pYC~k~CY~~~FGPkG~g~G   40 (48)
T d1imla2           1 KCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGFGRG   40 (48)
T ss_dssp             BCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCCCSSCC
T ss_pred             CchhcCcCcCCCChhhcCCcccccccchhhccCCCccccC
Confidence            58999999999999999999999 7799999999977655

>d2dloa1 g.39.1.3 (A:8-42) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.06  E-value=1e-06  Score=51.62  Aligned_cols=29  Identities=28%  Similarity=0.582  Sum_probs=26.3

Q ss_pred             CCCCCCCCCCccccceEEEeCCceeccCCc
Q psy12252         20 ENPKCPACGKSVYAAEERVAGGYKFHKMCF   49 (356)
Q Consensus        20 ~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF   49 (356)
                      ...+|..|+++|.+ ..+.|+|+.||+.||
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            56789999999995 788999999999998

>d1ibia2 g.39.1.3 (A:145-175) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]

Probab=98.05  E-value=3e-07  Score=50.89  Aligned_cols=30  Identities=47%  Similarity=1.029  Sum_probs=28.4

Q ss_pred             cccccccccccCCCccccCCcccCcccccc
Q psy12252         49 FKCSMCSKFLDSTNCTEHEKELYCRQCHGR   78 (356)
Q Consensus        49 F~C~~C~~~L~~~~~~~~~g~~yC~~cy~~   78 (356)
                      |+|+.|++.|.+.....+||++||+.||.+
T Consensus         1 frca~cgk~lestt~adkdgeiyck~cyak   30 (31)
T d1ibia2           1 FRCAKCGKSLESTTLTEKEGEIYCKGCYAK   30 (31)
T ss_dssp             EECSSSCCEECSSCSEEETTEEECHHHHHH
T ss_pred             CccccccCccccceeeccCCcEEEeeeeec
Confidence            899999999999999999999999999964

>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=2e-06  Score=49.96  Aligned_cols=32  Identities=19%  Similarity=0.469  Sum_probs=29.0

Q ss_pred             CCCCCCCCCCCCccccceEEEeCCceeccCCc
Q psy12252         18 PAENPKCPACGKSVYAAEERVAGGYKFHKMCF   49 (356)
Q Consensus        18 ~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF   49 (356)
                      ......|+.|++.|..++.++|+++.||..||
T Consensus         5 ~~g~~~CagCg~eik~gQaL~ALdkqWH~~CF   36 (36)
T d2dj7a2           5 IRGPSHCAGCKEEIKHGQSLLALDKQWHVSCF   36 (36)
T ss_dssp             CSSCSCCTTTCCCCSSSCCEEETTEEECTTTC
T ss_pred             ccCCccccccchhhhCCceeeeeecceeeeeC
Confidence            34567899999999999999999999999998

>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=98.03  E-value=1.2e-06  Score=51.98  Aligned_cols=28  Identities=29%  Similarity=0.870  Sum_probs=27.0

Q ss_pred             CCCCCCCceeecceEEEeCCcccccCcc
Q psy12252        280 DGCPRCGFVVYAAEQMISKNRIWHRRCF  307 (356)
Q Consensus       280 ~~C~~C~~~I~~~e~v~~~g~~~H~~CF  307 (356)
                      ++|..|++.+++.|.+.+.|+.||..||
T Consensus         8 ~kC~~C~K~VY~~E~~~a~g~~~Hk~CF   35 (35)
T d2d8ya1           8 ETCVECQKTVYPMERLLANQQVFHISCF   35 (35)
T ss_dssp             CBCTTTCCBCCTTSEEECSSSEEETTTC
T ss_pred             cccccCCCEEeeeeeEecCCeehhhccC
Confidence            4899999999999999999999999998

>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=98.02  E-value=1.9e-06  Score=51.79  Aligned_cols=33  Identities=33%  Similarity=0.688  Sum_probs=28.7

Q ss_pred             CCCCCCCCCCCCCccccce-EEEeCCceeccCCc
Q psy12252         17 VPAENPKCPACGKSVYAAE-ERVAGGYKFHKMCF   49 (356)
Q Consensus        17 ~~~~~~~C~~C~~~I~~~~-~i~~~~~~~H~~CF   49 (356)
                      ....+++|..|+++|..+. .+.+.|+.||..||
T Consensus         4 ~~~~a~~C~~C~k~I~~G~k~veykg~~WHe~CF   37 (37)
T d1x63a1           4 TREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCF   37 (37)
T ss_dssp             SCCCSCBCSSSCCBCCSSSCEEECSSCEEETTTC
T ss_pred             ccccCcccccCCCccCCCCeEeEeCCccchhccC
Confidence            4567899999999999655 67899999999998

>d2dloa1 g.39.1.3 (A:8-42) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.01  E-value=1.3e-06  Score=51.13  Aligned_cols=27  Identities=19%  Similarity=0.631  Sum_probs=24.0

Q ss_pred             CCCCCCCceeecceEEEeCCcccccCcc
Q psy12252        280 DGCPRCGFVVYAAEQMISKNRIWHRRCF  307 (356)
Q Consensus       280 ~~C~~C~~~I~~~e~v~~~g~~~H~~CF  307 (356)
                      .+|..|+++|.+ ..++|.|+.||+.||
T Consensus         9 EkC~~C~~~I~d-riLrA~Gk~yHP~CF   35 (35)
T d2dloa1           9 EKCATCSQPILD-RILRAMGKAYHPGCF   35 (35)
T ss_dssp             CBCTTTCCBCCS-CCEEETTEEECTTTC
T ss_pred             HHHHHhchHHHH-HHHHHhCCCCCCCCC
Confidence            489999999983 567899999999998

>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=98.01  E-value=1.3e-06  Score=50.94  Aligned_cols=26  Identities=31%  Similarity=0.864  Sum_probs=22.9

Q ss_pred             CCCCCCceEecceeeccCCCccccccc
Q psy12252        172 GCPRCGGVVFAAEQVLAKGSEWHRKCF  198 (356)
Q Consensus       172 ~C~~C~~~I~~~~~i~a~~~~~H~~CF  198 (356)
                      .|..|+++|..|. |+..++.||.+||
T Consensus        10 ~C~~Ckk~It~GG-vtY~dqpWHkeCF   35 (35)
T d2cuqa2          10 RCARCSKTLTQGG-VTYRDQPWHRECL   35 (35)
T ss_dssp             CCTTTCCCCCSCC-EESSSSEECTTTC
T ss_pred             HHhhcCCccccCc-eeecCCcchhhhC
Confidence            5888999998664 8999999999998

>d2cuqa1 g.39.1.3 (A:43-74) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.99  E-value=5.7e-07  Score=50.87  Aligned_cols=32  Identities=31%  Similarity=0.888  Sum_probs=29.7

Q ss_pred             cccccCCCCCCCCCccCCCCccccccccccccC
Q psy12252        308 SCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFG  340 (356)
Q Consensus       308 ~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~  340 (356)
                      +|+.|+++|.++.|. .+|..|||.+||..+||
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            589999999999987 69999999999999986

>d1x3ha2 g.39.1.3 (A:43-74) Leupaxin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Leupaxin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.97  E-value=6.3e-07  Score=51.75  Aligned_cols=31  Identities=13%  Similarity=0.296  Sum_probs=28.5

Q ss_pred             ccccccccccCCCccccCCcccCcccccccc
Q psy12252         50 KCSMCSKFLDSTNCTEHEKELYCRQCHGRKY   80 (356)
Q Consensus        50 ~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~   80 (356)
                      +|..|.+|+.+..|++.||+|||+.+|.++.
T Consensus         1 VC~~C~~PF~~~~Fy~~~g~PyCe~HyH~~~   31 (32)
T d1x3ha2           1 VCGDCFTSFSTGSFFELDGRPFCELHYHHRR   31 (32)
T ss_dssp             BCSSSCCBSCSSCCEESSSCEECHHHHHHHH
T ss_pred             CcCccCCcCCCCCeEeECCccchHHhhhhhc
Confidence            5899999999999999999999999998753

>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=97.97  E-value=6.2e-07  Score=49.84  Aligned_cols=29  Identities=45%  Similarity=0.885  Sum_probs=27.1

Q ss_pred             CCCCCCCCCccccceEEEeCCceeccCCc
Q psy12252         21 NPKCPACGKSVYAAEERVAGGYKFHKMCF   49 (356)
Q Consensus        21 ~~~C~~C~~~I~~~~~i~~~~~~~H~~CF   49 (356)
                      ++.|++|++.|+..|.+.-+++.||+.||
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

>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=97.95  E-value=6.9e-07  Score=50.53  Aligned_cols=32  Identities=25%  Similarity=0.692  Sum_probs=29.8

Q ss_pred             ccccccccccCCCccccCCcccCccccccccC
Q psy12252         50 KCSMCSKFLDSTNCTEHEKELYCRQCHGRKYG   81 (356)
Q Consensus        50 ~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~   81 (356)
                      .|..|+++|+++.|..+|+.|||.+||-++|+
T Consensus         1 vCt~Ck~~LaGqrFTSrde~pYC~~Cfg~LfA   32 (32)
T d2cuqa1           1 VCTGCQTPLAGQQFTSRDEDPYCVACFGELFA   32 (32)
T ss_dssp             BCSSSCCBCTTCCEEECSSSEEEHHHHHHHTT
T ss_pred             CccccCccccCCccccCCCCccHHHHhHhhcC
Confidence            48999999999999999999999999998874

>d2d8ya2 g.39.1.3 (A:44-85) Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Eplin, LIMA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.93  E-value=1.2e-06  Score=54.02  Aligned_cols=35  Identities=23%  Similarity=0.602  Sum_probs=32.9

Q ss_pred             ccccccccccCCCccccCCcccCccccccccCCCC
Q psy12252         50 KCSMCSKFLDSTNCTEHEKELYCRQCHGRKYGPKG   84 (356)
Q Consensus        50 ~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~c   84 (356)
                      +|.+|++.|..++|...+|.+||+.||.++|.++.
T Consensus         1 rC~~C~~~Ls~~~yas~~G~lYCkpHf~qLF~~kG   35 (42)
T d2d8ya2           1 RCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKG   35 (42)
T ss_dssp             BCTTTCCBCCTTTCCCSSSCCCCHHHHHHHSCCCS
T ss_pred             CcCcCCCCccCCcchhhCCEeccHHHHHHHHHhhc
Confidence            69999999999999999999999999999998873

>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=97.93  E-value=1.2e-06  Score=49.61  Aligned_cols=29  Identities=24%  Similarity=0.374  Sum_probs=25.6

Q ss_pred             CCCCCCCCCCCccccceEEEeCCceeccCC
Q psy12252         19 AENPKCPACGKSVYAAEERVAGGYKFHKMC   48 (356)
Q Consensus        19 ~~~~~C~~C~~~I~~~~~i~~~~~~~H~~C   48 (356)
                      .+.++|+.|++||.+ +.+.|+|++||+++
T Consensus         3 mg~p~C~~C~~PI~~-~~vtAlgk~WHpEH   31 (31)
T d1u5sb1           3 MGVPICGACRRPIEG-RVVNAMGKQWHVEH   31 (31)
T ss_dssp             CCCCEETTTTEECCS-CEECCTTSBEETTT
T ss_pred             cCCcchhhcCCchhh-hHhhhhccccCCCC
Confidence            467899999999996 78889999999974

>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=97.92  E-value=1.2e-06  Score=49.63  Aligned_cols=26  Identities=15%  Similarity=0.340  Sum_probs=23.2

Q ss_pred             CCCCCCCceeecceEEEeCCcccccCc
Q psy12252        280 DGCPRCGFVVYAAEQMISKNRIWHRRC  306 (356)
Q Consensus       280 ~~C~~C~~~I~~~e~v~~~g~~~H~~C  306 (356)
                      .+|+.|++||. +..|.|+|+.||+++
T Consensus         6 p~C~~C~~PI~-~~~vtAlgk~WHpEH   31 (31)
T d1u5sb1           6 PICGACRRPIE-GRVVNAMGKQWHVEH   31 (31)
T ss_dssp             CEETTTTEECC-SCEECCTTSBEETTT
T ss_pred             cchhhcCCchh-hhHhhhhccccCCCC
Confidence            48999999998 588899999999985

>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=97.82  E-value=4.7e-06  Score=50.76  Aligned_cols=25  Identities=20%  Similarity=0.538  Sum_probs=23.6

Q ss_pred             CCCCCCceeecceEEEeCCcccccCc
Q psy12252        281 GCPRCGFVVYAAEQMISKNRIWHRRC  306 (356)
Q Consensus       281 ~C~~C~~~I~~~e~v~~~g~~~H~~C  306 (356)
                      +|..|++-|. |+.|.|.+++||++|
T Consensus        17 ~C~~C~~~It-G~V~~Ag~~~yHP~C   41 (41)
T d1v6ga1          17 RCFSCDQFIE-GEVVSALGKTYHPDC   41 (41)
T ss_dssp             BCTTTCCBCC-SCCEEETTEEECTTT
T ss_pred             ccccccCEee-eeeeEecCcccCCCC
Confidence            7999999996 899999999999998

>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=97.82  E-value=1.8e-06  Score=49.76  Aligned_cols=32  Identities=25%  Similarity=0.552  Sum_probs=28.7

Q ss_pred             cccccCCCCCCCCCccCCCCccccccccccccC
Q psy12252        308 SCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFG  340 (356)
Q Consensus       308 ~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~  340 (356)
                      +|..|.+++.++.|+ +.||+|||+.||.++.|
T Consensus         1 VC~~C~~PF~~~~Fy-~~~g~PyCe~HyH~~~G   32 (32)
T d1x3ha2           1 VCGDCFTSFSTGSFF-ELDGRPFCELHYHHRRG   32 (32)
T ss_dssp             BCSSSCCBSCSSCCE-ESSSCEECHHHHHHHHS
T ss_pred             CcCccCCcCCCCCeE-eECCccchHHhhhhhcC
Confidence            589999999999998 69999999999988754

>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=97.82  E-value=2.1e-06  Score=48.71  Aligned_cols=32  Identities=22%  Similarity=0.642  Sum_probs=29.3

Q ss_pred             ccccccccccCCCccccCCcccCccccccccC
Q psy12252         50 KCSMCSKFLDSTNCTEHEKELYCRQCHGRKYG   81 (356)
Q Consensus        50 ~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~   81 (356)
                      .|+.|+.+|.+..|++.+|.+||+.||++.|+
T Consensus         1 nCa~C~~sL~d~gFVEE~g~lYCe~Cye~ffA   32 (32)
T d2dara1           1 NCAHCKNTMAYIGFVEEKGALYCELCYEKFFA   32 (32)
T ss_dssp             BCSSSCCBCSSSCBEESSSCEECHHHHHHHTS
T ss_pred             CcccccccHhhcceeeecCcEeHHHHHHHhcC
Confidence            48999999999999999999999999988653

>d2co8a2 g.39.1.3 (A:8-43) Nedd9 interacting protein with calponin homology, NICAL (MICAL1) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Nedd9 interacting protein with calponin homology, NICAL (MICAL1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.81  E-value=3e-06  Score=50.43  Aligned_cols=32  Identities=31%  Similarity=0.758  Sum_probs=29.6

Q ss_pred             CCCCCCCCCCCCccccceEEEeCCceeccCCc
Q psy12252         18 PAENPKCPACGKSVYAAEERVAGGYKFHKMCF   49 (356)
Q Consensus        18 ~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF   49 (356)
                      +.....|..|++.|+.-|.+.++|+.||+.||
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            45678999999999999999999999999998

>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=97.79  E-value=3e-06  Score=47.82  Aligned_cols=31  Identities=26%  Similarity=0.585  Sum_probs=27.6

Q ss_pred             ccccccccccCCCccccCCcccCccccccccC
Q psy12252         50 KCSMCSKFLDSTNCTEHEKELYCRQCHGRKYG   81 (356)
Q Consensus        50 ~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~   81 (356)
                      +|..|++.|.+. |..+||.|||+.||+..|+
T Consensus         1 kC~~C~~vL~gE-Ym~kdG~PyCe~DY~~~FG   31 (31)
T d2dj7a1           1 KCQTCSVILTGE-YISKDGVPYCESDYHAQFG   31 (31)
T ss_dssp             BCSSSCCBCSSC-CEEETTEEECTTHHHHHTT
T ss_pred             CccccCccccce-eecCCCCcccHHHHHHhcC
Confidence            589999999764 8999999999999998874

>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=97.79  E-value=3.2e-06  Score=46.09  Aligned_cols=26  Identities=50%  Similarity=1.152  Sum_probs=24.8

Q ss_pred             CCCCCCceeecceEEEeCCcccccCc
Q psy12252        281 GCPRCGFVVYAAEQMISKNRIWHRRC  306 (356)
Q Consensus       281 ~C~~C~~~I~~~e~v~~~g~~~H~~C  306 (356)
                      +|++|++.++..|.|.-.|+.||+.|
T Consensus         3 ~CpRC~~~VyaAEkviGaG~~WHk~C   28 (28)
T d1ibia1           3 KCSRCGDSVYAAEKVIGAGKPWHKNC   28 (28)
T ss_dssp             ECTTTSSEESSSSCEESSSSEECSSC
T ss_pred             cCcccchhHHHHHHHhcCCCccccCC
Confidence            69999999999999999999999987

>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=97.78  E-value=6.4e-06  Score=46.66  Aligned_cols=28  Identities=21%  Similarity=0.453  Sum_probs=25.6

Q ss_pred             CCCCCCCCccccceEEEeCCceeccCCc
Q psy12252         22 PKCPACGKSVYAAEERVAGGYKFHKMCF   49 (356)
Q Consensus        22 ~~C~~C~~~I~~~~~i~~~~~~~H~~CF   49 (356)
                      ..|++|+++|.+...+.++++.||.+|+
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            4699999999998889999999999985

>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=97.77  E-value=2e-06  Score=49.21  Aligned_cols=34  Identities=26%  Similarity=0.606  Sum_probs=31.1

Q ss_pred             ccccccCCCCCCCCCccCCCCccccccccccccCC
Q psy12252        307 FSCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFGP  341 (356)
Q Consensus       307 F~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~~  341 (356)
                      |+|+.|.+++-+...+ ++.|..||+.+|.++||.
T Consensus         1 FvCA~CekPF~G~rhy-E~~g~ayCe~Hy~qLfg~   34 (35)
T d1u5sb2           1 FVCAKCEKPFLGHRHY-ERKGLAYCETHYNQLFGD   34 (35)
T ss_dssp             CBCTTTCCBCSSSCCE-EETTEEECHHHHHHHCSC
T ss_pred             CcccccCCccCCchhh-hhcCchHHHHHHHHHhcc
Confidence            7999999999888776 699999999999999985

>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=97.77  E-value=1.9e-06  Score=48.97  Aligned_cols=32  Identities=13%  Similarity=0.507  Sum_probs=29.7

Q ss_pred             ccccccccccCCCccccCCcccCccccccccC
Q psy12252         50 KCSMCSKFLDSTNCTEHEKELYCRQCHGRKYG   81 (356)
Q Consensus        50 ~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~   81 (356)
                      .|..|.++|+..+|..+++..||..||++.|+
T Consensus         1 ~C~~C~qPIGtksfipk~~~~yCvpCyE~kfA   32 (32)
T d1x4ka1           1 ICHRCQQPIGTKSFIPKDNQNFCVPCYEKQHA   32 (32)
T ss_dssp             CCSSSCCCCCSSSEEEETTEEEEHHHHHHHTS
T ss_pred             CcccccCcccccccccCCCCceEeecchhhcC
Confidence            38899999999999999999999999998874

>d1u5sb2 g.39.1.3 (B:103-137) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.73  E-value=3.3e-06  Score=48.29  Aligned_cols=33  Identities=24%  Similarity=0.514  Sum_probs=31.4

Q ss_pred             cccccccccccCCCccccCCcccCccccccccC
Q psy12252         49 FKCSMCSKFLDSTNCTEHEKELYCRQCHGRKYG   81 (356)
Q Consensus        49 F~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~   81 (356)
                      |+|+.|.+|+-+...+++.|..||+.+|.++|+
T Consensus         1 FvCA~CekPF~G~rhyE~~g~ayCe~Hy~qLfg   33 (35)
T d1u5sb2           1 FVCAKCEKPFLGHRHYERKGLAYCETHYNQLFG   33 (35)
T ss_dssp             CBCTTTCCBCSSSCCEEETTEEECHHHHHHHCS
T ss_pred             CcccccCCccCCchhhhhcCchHHHHHHHHHhc
Confidence            899999999998899999999999999999986

>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=97.70  E-value=2.8e-06  Score=48.20  Aligned_cols=32  Identities=28%  Similarity=0.589  Sum_probs=29.6

Q ss_pred             ccccccccccCCCccccCCcccCccccccccC
Q psy12252         50 KCSMCSKFLDSTNCTEHEKELYCRQCHGRKYG   81 (356)
Q Consensus        50 ~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~   81 (356)
                      .|..|.+||+..+|..+++..||..||++.|+
T Consensus         1 ~C~~C~qPIGtkSFip~~~~~yCvpCYE~kfA   32 (32)
T d1wyha1           1 LCSGCEQPLGSRSFVPDKGAHYCVPCYENKFA   32 (32)
T ss_dssp             BCTTTCCBTTTSCEEEETTEEEEHHHHHHHTS
T ss_pred             CcccccCcccccccccCCCcEEEEeccccccC
Confidence            38899999999999999999999999998874

>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=97.68  E-value=9.7e-06  Score=46.19  Aligned_cols=27  Identities=30%  Similarity=0.821  Sum_probs=25.2

Q ss_pred             CCCCCCceeecceEE-EeCCcccccCcc
Q psy12252        281 GCPRCGFVVYAAEQM-ISKNRIWHRRCF  307 (356)
Q Consensus       281 ~C~~C~~~I~~~e~v-~~~g~~~H~~CF  307 (356)
                      .|++|++.|.+.|.| ++.+..||.+||
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            699999999999987 699999999998

>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=97.67  E-value=4.7e-06  Score=47.37  Aligned_cols=32  Identities=28%  Similarity=0.792  Sum_probs=29.0

Q ss_pred             cccccCCCCCCCCCccCCCCcccccc-ccccccC
Q psy12252        308 SCADCHRSLDSTNLNDGPDNDIYCRG-CYGKNFG  340 (356)
Q Consensus       308 ~C~~C~~~L~~~~~~~~~~g~~yC~~-c~~~~f~  340 (356)
                      +|..|++.|..+... +++|+|||.. ||..+||
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            588999999999987 6999999976 9999986

>d2dloa2 g.39.1.3 (A:43-75) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.66  E-value=5.2e-06  Score=47.82  Aligned_cols=33  Identities=27%  Similarity=0.645  Sum_probs=30.8

Q ss_pred             cccccCCCCCCCCCccCCCCccccccccccccC
Q psy12252        308 SCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFG  340 (356)
Q Consensus       308 ~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~  340 (356)
                      +|..|++.|++-.|..+.++++||..+|.++||
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            589999999999998888999999999999986

>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=97.65  E-value=1.7e-05  Score=44.72  Aligned_cols=27  Identities=19%  Similarity=0.277  Sum_probs=24.9

Q ss_pred             CCCCCCCCccccceEEEeCCceeccCC
Q psy12252         22 PKCPACGKSVYAAEERVAGGYKFHKMC   48 (356)
Q Consensus        22 ~~C~~C~~~I~~~~~i~~~~~~~H~~C   48 (356)
                      ..|++|+++|.+...+.++++.||.+|
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            569999999998888999999999987

>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=97.64  E-value=2.7e-06  Score=46.98  Aligned_cols=30  Identities=53%  Similarity=1.249  Sum_probs=27.6

Q ss_pred             ccccccCCCCCCCCCccCCCCcccccccccc
Q psy12252        307 FSCADCHRSLDSTNLNDGPDNDIYCRGCYGK  337 (356)
Q Consensus       307 F~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~  337 (356)
                      |+|+.|++.|.+.... ++||.+||+.||.+
T Consensus         1 frca~cgk~lestt~a-dkdgeiyck~cyak   30 (31)
T d1ibia2           1 FRCAKCGKSLESTTLT-EKEGEIYCKGCYAK   30 (31)
T ss_dssp             EECSSSCCEECSSCSE-EETTEEECHHHHHH
T ss_pred             CccccccCccccceee-ccCCcEEEeeeeec
Confidence            8999999999999877 69999999999975

>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=97.63  E-value=8e-06  Score=46.40  Aligned_cols=32  Identities=34%  Similarity=0.804  Sum_probs=28.8

Q ss_pred             ccccccccccCCCccccCCcccCc-cccccccC
Q psy12252         50 KCSMCSKFLDSTNCTEHEKELYCR-QCHGRKYG   81 (356)
Q Consensus        50 ~C~~C~~~L~~~~~~~~~g~~yC~-~cy~~~~~   81 (356)
                      +|..|++.|..+...+++|+|||. .||..+|+
T Consensus         1 kCekC~ktL~~G~HaEH~gkPYC~~PCY~aLFG   33 (33)
T d2cu8a2           1 KCERCSKTLTPGGHAEHDGKPFCHKPCYATLFG   33 (33)
T ss_dssp             BCSSSCCBCCTTSCEEETTEEECTTTHHHHHSC
T ss_pred             CchhcccccCCCCccccCCCcCcCcchHHhhcC
Confidence            589999999999999999999996 59988874

>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=97.51  E-value=1.4e-05  Score=45.23  Aligned_cols=28  Identities=36%  Similarity=0.821  Sum_probs=25.7

Q ss_pred             CCCCCCCceEecceeeccCCCccccccc
Q psy12252        171 KGCPRCGGVVFAAEQVLAKGSEWHRKCF  198 (356)
Q Consensus       171 ~~C~~C~~~I~~~~~i~a~~~~~H~~CF  198 (356)
                      ..|++|+++|.+...+.++++.||..|+
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            3699999999999999999999999985

>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=97.50  E-value=2.4e-05  Score=47.56  Aligned_cols=35  Identities=20%  Similarity=0.381  Sum_probs=31.3

Q ss_pred             cCCCCCCCCCCCCCCCCccccceEEEeCCceeccCC
Q psy12252         13 IMPFVPAENPKCPACGKSVYAAEERVAGGYKFHKMC   48 (356)
Q Consensus        13 ~~~~~~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~C   48 (356)
                      -+||...+..+|..|++.|.+ ++++|.++.||+.|
T Consensus         7 ~~DYq~~fG~~C~~C~~~ItG-~V~~Ag~~~yHP~C   41 (41)
T d1v6ga1           7 GLDYQRLYGTRCFSCDQFIEG-EVVSALGKTYHPDC   41 (41)
T ss_dssp             CSCGGGSCCCBCTTTCCBCCS-CCEEETTEEECTTT
T ss_pred             cccHHHHhCcccccccCEeee-eeeEecCcccCCCC
Confidence            457788899999999999985 89999999999998

>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=97.48  E-value=2e-05  Score=44.41  Aligned_cols=27  Identities=22%  Similarity=0.432  Sum_probs=25.0

Q ss_pred             CCCCCCCceEecceeeccCCCcccccc
Q psy12252        171 KGCPRCGGVVFAAEQVLAKGSEWHRKC  197 (356)
Q Consensus       171 ~~C~~C~~~I~~~~~i~a~~~~~H~~C  197 (356)
                      ..|++|+++|.+...+.++++.||..|
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            479999999999999999999999887

>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=97.48  E-value=2.3e-05  Score=43.19  Aligned_cols=26  Identities=19%  Similarity=0.529  Sum_probs=22.6

Q ss_pred             CCCCCCccccc---eEEEeCCceeccCCc
Q psy12252         24 CPACGKSVYAA---EERVAGGYKFHKMCF   49 (356)
Q Consensus        24 C~~C~~~I~~~---~~i~~~~~~~H~~CF   49 (356)
                      |+.|.+||.+-   ..|...++.||.+||
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            88999999853   378889999999998

>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=97.43  E-value=1.5e-05  Score=45.15  Aligned_cols=32  Identities=28%  Similarity=0.758  Sum_probs=28.9

Q ss_pred             cccccCCCCCCCCCccCCCCccccccccccccC
Q psy12252        308 SCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFG  340 (356)
Q Consensus       308 ~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~  340 (356)
                      .|+.|+++|....|. +.+|++||+.||++.||
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            388999999999998 69999999999999875

>d2cura1 g.39.1.3 (A:33-63) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.41  E-value=1.3e-05  Score=44.67  Aligned_cols=29  Identities=34%  Similarity=0.671  Sum_probs=27.1

Q ss_pred             ccccccccccCCCccccCCcccCcccccc
Q psy12252         50 KCSMCSKFLDSTNCTEHEKELYCRQCHGR   78 (356)
Q Consensus        50 ~C~~C~~~L~~~~~~~~~g~~yC~~cy~~   78 (356)
                      .|..|++.|++..|..+++++||.+||.+
T Consensus         1 vC~~C~K~Lag~rFTa~eDq~yCVdCYK~   29 (31)
T d2cura1           1 VCVTCSKKLAGQRFTAVEDQYYCVDCYKN   29 (31)
T ss_dssp             BCTTTCCBCTTSCEEECSSCEEEHHHHHH
T ss_pred             CcccccchhcCceeEEecceEEEeeeecc
Confidence            48999999999999999999999999975

>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=97.41  E-value=3.6e-05  Score=42.29  Aligned_cols=26  Identities=27%  Similarity=0.585  Sum_probs=22.6

Q ss_pred             CCCCCCccccc---eEEEeCCceeccCCc
Q psy12252         24 CPACGKSVYAA---EERVAGGYKFHKMCF   49 (356)
Q Consensus        24 C~~C~~~I~~~---~~i~~~~~~~H~~CF   49 (356)
                      |..|.+||.+-   ..|...++.||.+||
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            78999999853   478899999999998

>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=97.40  E-value=2.5e-05  Score=41.98  Aligned_cols=26  Identities=31%  Similarity=0.821  Sum_probs=23.2

Q ss_pred             CCCCCceeecceE-EEeCCcccccCcc
Q psy12252        282 CPRCGFVVYAAEQ-MISKNRIWHRRCF  307 (356)
Q Consensus       282 C~~C~~~I~~~e~-v~~~g~~~H~~CF  307 (356)
                      |..|.++|.+|.. +...|..||..||
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            6789999999864 7899999999998

>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=97.38  E-value=3.4e-05  Score=43.78  Aligned_cols=30  Identities=33%  Similarity=0.758  Sum_probs=27.6

Q ss_pred             CCCCCCCCCceeecceEEEeCCcccccCcc
Q psy12252        278 NGDGCPRCGFVVYAAEQMISKNRIWHRRCF  307 (356)
Q Consensus       278 ~~~~C~~C~~~I~~~e~v~~~g~~~H~~CF  307 (356)
                      +..+|..|.+.++..|.|...|+.||+.||
T Consensus         6 gg~kcg~c~ktvy~aeevqc~g~sfhk~cf   35 (35)
T d1b8ta1           6 GGKKCGVCQKAVYFAEEVQCEGSSFHKSCF   35 (35)
T ss_dssp             CCEECTTTCCEECSSCCEEETTEEECTTTC
T ss_pred             CCceeccccceEeeeeeeeecCcccccccC
Confidence            445899999999999999999999999998

>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=97.38  E-value=2.4e-05  Score=42.57  Aligned_cols=27  Identities=52%  Similarity=1.032  Sum_probs=24.9

Q ss_pred             CCCCCCCCccccceEEEeCCceeccCC
Q psy12252         22 PKCPACGKSVYAAEERVAGGYKFHKMC   48 (356)
Q Consensus        22 ~~C~~C~~~I~~~~~i~~~~~~~H~~C   48 (356)
                      .+|+.|++.|+..|.+.-.|+.||+.|
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            469999999999999998899999987

>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=97.31  E-value=2.9e-05  Score=41.63  Aligned_cols=26  Identities=31%  Similarity=0.888  Sum_probs=23.0

Q ss_pred             CCCCCceeecceE-EEeCCcccccCcc
Q psy12252        282 CPRCGFVVYAAEQ-MISKNRIWHRRCF  307 (356)
Q Consensus       282 C~~C~~~I~~~e~-v~~~g~~~H~~CF  307 (356)
                      |..|.+.|.+|.. +...|..||..||
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            7789999999864 6799999999998

>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=97.24  E-value=6.2e-05  Score=40.33  Aligned_cols=26  Identities=38%  Similarity=0.945  Sum_probs=22.8

Q ss_pred             CCCCCCccccce-EEEeCCceeccCCc
Q psy12252         24 CPACGKSVYAAE-ERVAGGYKFHKMCF   49 (356)
Q Consensus        24 C~~C~~~I~~~~-~i~~~~~~~H~~CF   49 (356)
                      |..|.+.|+.+. .+...|.+||..||
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            789999999765 56689999999998

>d1x63a2 g.39.1.3 (A:45-76) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.21  E-value=2.9e-05  Score=42.81  Aligned_cols=32  Identities=25%  Similarity=0.769  Sum_probs=29.2

Q ss_pred             ccccccccccCCCccccCCcccCccccccccC
Q psy12252         50 KCSMCSKFLDSTNCTEHEKELYCRQCHGRKYG   81 (356)
Q Consensus        50 ~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~   81 (356)
                      +|+.|++.+.+++|+.+....||..|++..|+
T Consensus         1 tcs~ckq~igsgsffpkg~d~ycvtche~kfa   32 (32)
T d1x63a2           1 TCSNCKQVIGTGSFFPKGEDFYCVTCHETKFA   32 (32)
T ss_dssp             CCSSSCCCCTTSCEEEETTEEEEHHHHHHHTS
T ss_pred             CcchhhhhcccccccCCCCcEEEEEeeccccC
Confidence            58999999999999999999999999987663

>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=97.21  E-value=5.6e-05  Score=41.60  Aligned_cols=26  Identities=27%  Similarity=0.764  Sum_probs=21.6

Q ss_pred             CCCCCceeec---ceEEEeCCcccccCcc
Q psy12252        282 CPRCGFVVYA---AEQMISKNRIWHRRCF  307 (356)
Q Consensus       282 C~~C~~~I~~---~e~v~~~g~~~H~~CF  307 (356)
                      |+.|.+||+.   +..|...++.||.+||
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            7889999874   2357899999999998

>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=97.19  E-value=2.5e-05  Score=44.30  Aligned_cols=32  Identities=25%  Similarity=0.708  Sum_probs=28.8

Q ss_pred             cccccCCCCCCCCCccCCCCccccccccccccC
Q psy12252        308 SCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFG  340 (356)
Q Consensus       308 ~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~  340 (356)
                      .|..|+.+|....|. .+++..||..||++.||
T Consensus         1 ~C~~C~qPIGtksfi-pk~~~~yCvpCyE~kfA   32 (32)
T d1x4ka1           1 ICHRCQQPIGTKSFI-PKDNQNFCVPCYEKQHA   32 (32)
T ss_dssp             CCSSSCCCCCSSSEE-EETTEEEEHHHHHHHTS
T ss_pred             CcccccCcccccccc-cCCCCceEeecchhhcC
Confidence            388899999999887 69999999999999986

>d1a7ia2 g.39.1.3 (A:36-67) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]

Probab=97.17  E-value=4.2e-05  Score=42.75  Aligned_cols=31  Identities=52%  Similarity=1.149  Sum_probs=28.4

Q ss_pred             cccccccccCCCccccCCcccCccccccccC
Q psy12252         51 CSMCSKFLDSTNCTEHEKELYCRQCHGRKYG   81 (356)
Q Consensus        51 C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~   81 (356)
                      |-.|++.|.+....++++++||+.||-+.|+
T Consensus         2 C~~C~K~LdStTva~h~~eiYCKsCygkkyg   32 (32)
T d1a7ia2           2 CMVCRKNLDSTTVAIHDAEVYCKSCYGKKYG   32 (32)
T ss_dssp             CSSSCCEECSSCCEEETTEEECSHHHHHHCC
T ss_pred             chhhhhccCcceeeeecceEEehhhccccCC
Confidence            7789999999999999999999999988763

>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=97.16  E-value=2.7e-05  Score=44.04  Aligned_cols=32  Identities=28%  Similarity=0.735  Sum_probs=28.7

Q ss_pred             cccccCCCCCCCCCccCCCCccccccccccccC
Q psy12252        308 SCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFG  340 (356)
Q Consensus       308 ~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~  340 (356)
                      .|..|+.+|....|. ..++..||..||+++||
T Consensus         1 ~C~~C~qPIGtkSFi-p~~~~~yCvpCYE~kfA   32 (32)
T d1wyha1           1 LCSGCEQPLGSRSFV-PDKGAHYCVPCYENKFA   32 (32)
T ss_dssp             BCTTTCCBTTTSCEE-EETTEEEEHHHHHHHTS
T ss_pred             CcccccCcccccccc-cCCCcEEEEeccccccC
Confidence            388899999999887 58999999999999996

>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=97.15  E-value=0.00013  Score=39.12  Aligned_cols=26  Identities=27%  Similarity=0.741  Sum_probs=22.9

Q ss_pred             CCCCCCccccce-EEEeCCceeccCCc
Q psy12252         24 CPACGKSVYAAE-ERVAGGYKFHKMCF   49 (356)
Q Consensus        24 C~~C~~~I~~~~-~i~~~~~~~H~~CF   49 (356)
                      |..|.+.|+.+. .....|..||..||
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            789999999765 67789999999998

>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=97.15  E-value=0.00011  Score=41.61  Aligned_cols=31  Identities=48%  Similarity=0.863  Sum_probs=28.4

Q ss_pred             CCCCCCCCCCCccccceEEEeCCceeccCCc
Q psy12252         19 AENPKCPACGKSVYAAEERVAGGYKFHKMCF   49 (356)
Q Consensus        19 ~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF   49 (356)
                      ....+|..|++.|+-++.+.-.|+.||+.||
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            3567899999999999999999999999998

>d2cupa3 g.39.1.3 (A:8-34) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.14  E-value=0.00015  Score=38.71  Aligned_cols=26  Identities=31%  Similarity=0.575  Sum_probs=22.4

Q ss_pred             CCCCCCccccce-EEEeCCceeccCCc
Q psy12252         24 CPACGKSVYAAE-ERVAGGYKFHKMCF   49 (356)
Q Consensus        24 C~~C~~~I~~~~-~i~~~~~~~H~~CF   49 (356)
                      |..|.+||-.+. .+...++.||..||
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            789999997654 67789999999998

>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=97.11  E-value=8.8e-05  Score=42.13  Aligned_cols=29  Identities=41%  Similarity=0.803  Sum_probs=25.6

Q ss_pred             CCCCCCCCCccccceEEE-eCCceeccCCc
Q psy12252         21 NPKCPACGKSVYAAEERV-AGGYKFHKMCF   49 (356)
Q Consensus        21 ~~~C~~C~~~I~~~~~i~-~~~~~~H~~CF   49 (356)
                      +..|.+|++.|...|.+. |.++.||..||
T Consensus         2 ~g~Ca~C~~~I~~~e~VmRA~~~VyHl~CF   31 (31)
T d1rutx3           2 SGACSACGQSIPASELVMRAQGNVYHLKCF   31 (31)
T ss_dssp             CEECTTTCCEECTTSEEEEETTEEECGGGC
T ss_pred             CcccccccCcCChhHhheecccceeeeccC
Confidence            357999999999998654 99999999998

>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=97.06  E-value=0.00018  Score=38.63  Aligned_cols=28  Identities=54%  Similarity=1.096  Sum_probs=26.1

Q ss_pred             CCCCCCCCccccceEEEeCCceeccCCc
Q psy12252         22 PKCPACGKSVYAAEERVAGGYKFHKMCF   49 (356)
Q Consensus        22 ~~C~~C~~~I~~~~~i~~~~~~~H~~CF   49 (356)
                      .+|..|.+.|+-.+.+.-+|+.||+.||
T Consensus         1 nkcg~c~ktvy~aeevqc~grsfhk~cf   28 (28)
T d1a7ia1           1 NKCGACGRTVYHAEEVQCDGRSFHRCCF   28 (28)
T ss_dssp             CBCSSSCCBCSSTTEEEETTEEEESSSE
T ss_pred             CccccccceEeeeeeeeecCceeccccC
Confidence            3699999999999999999999999998

>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=97.03  E-value=0.00015  Score=38.92  Aligned_cols=27  Identities=44%  Similarity=0.930  Sum_probs=25.7

Q ss_pred             CCCCCCceeecceEEEeCCcccccCcc
Q psy12252        281 GCPRCGFVVYAAEQMISKNRIWHRRCF  307 (356)
Q Consensus       281 ~C~~C~~~I~~~e~v~~~g~~~H~~CF  307 (356)
                      +|..|.+.++-.|.|...|+.||+.||
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            699999999999999999999999998

>d1a7ia2 g.39.1.3 (A:36-67) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]

Probab=97.02  E-value=4.6e-05  Score=42.59  Aligned_cols=31  Identities=45%  Similarity=1.156  Sum_probs=28.2

Q ss_pred             ccccCCCCCCCCCccCCCCccccccccccccC
Q psy12252        309 CADCHRSLDSTNLNDGPDNDIYCRGCYGKNFG  340 (356)
Q Consensus       309 C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~  340 (356)
                      |-.|.+.|++.... .+++.+||+.||.++||
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            77899999999876 59999999999999986

>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=96.94  E-value=0.0002  Score=39.28  Aligned_cols=26  Identities=27%  Similarity=0.740  Sum_probs=21.2

Q ss_pred             CCCCCceeec---ceEEEeCCcccccCcc
Q psy12252        282 CPRCGFVVYA---AEQMISKNRIWHRRCF  307 (356)
Q Consensus       282 C~~C~~~I~~---~e~v~~~g~~~H~~CF  307 (356)
                      |..|.+||+.   +..|...++.||.+||
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            6788888873   2457899999999998

>d1x61a1 g.39.1.3 (A:8-34) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.74  E-value=0.00039  Score=36.46  Aligned_cols=26  Identities=38%  Similarity=0.685  Sum_probs=23.0

Q ss_pred             CCCCCCccccce-EEEeCCceeccCCc
Q psy12252         24 CPACGKSVYAAE-ERVAGGYKFHKMCF   49 (356)
Q Consensus        24 C~~C~~~I~~~~-~i~~~~~~~H~~CF   49 (356)
                      |..|++.+.++. .++++++.||..||
T Consensus         1 cggcgedvvgdgagvvaldrvfhvgcf   27 (27)
T d1x61a1           1 CGGCGEDVVGDGAGVVALDRVFHVGCF   27 (27)
T ss_dssp             CSSSCSCCCSSSCCEECSSSEECTTTC
T ss_pred             CCCcccccccCCcceEEEeeeEEeccC
Confidence            789999998765 68899999999998

>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=96.73  E-value=0.00016  Score=40.11  Aligned_cols=29  Identities=24%  Similarity=0.825  Sum_probs=26.1

Q ss_pred             cccccCCCCCCCCCccCCCCcccccccccc
Q psy12252        308 SCADCHRSLDSTNLNDGPDNDIYCRGCYGK  337 (356)
Q Consensus       308 ~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~  337 (356)
                      .|+.|+++|.+..|. ..+++.||..||+.
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            589999999999987 59999999999974

>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=96.72  E-value=0.00037  Score=39.72  Aligned_cols=27  Identities=22%  Similarity=0.559  Sum_probs=24.5

Q ss_pred             CCCCCCCceeecceEEEeCCcccccCcc
Q psy12252        280 DGCPRCGFVVYAAEQMISKNRIWHRRCF  307 (356)
Q Consensus       280 ~~C~~C~~~I~~~e~v~~~g~~~H~~CF  307 (356)
                      ..|.+|+..|. |-.|.+.++.+|++||
T Consensus         9 p~CdkCg~GIV-G~~VK~rDk~rHPeCf   35 (35)
T d1x62a2           9 PMCDKCGTGIV-GVFVKLRDRHRHPECY   35 (35)
T ss_dssp             CCCSSSCCCCC-SSCEECSSCEECTTTT
T ss_pred             ccccccCCCcE-eEEEEeccccCCCCCC
Confidence            37999999998 6778899999999998

>d1x61a2 g.39.1.3 (A:35-66) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.70  E-value=0.00017  Score=40.16  Aligned_cols=29  Identities=28%  Similarity=0.574  Sum_probs=26.9

Q ss_pred             ccccccccccCCCccccCCcccCcccccc
Q psy12252         50 KCSMCSKFLDSTNCTEHEKELYCRQCHGR   78 (356)
Q Consensus        50 ~C~~C~~~L~~~~~~~~~g~~yC~~cy~~   78 (356)
                      .|..|+..|.+++|+..+.+.||+.||..
T Consensus         1 vC~tC~~kLRGqpFYAvekkayCE~CYi~   29 (32)
T d1x61a2           1 VCSTCRAQLRGQHFYAVERRAYCEGCYVA   29 (32)
T ss_dssp             BCSSSCCBCTTSCEEESSSCEEEHHHHHH
T ss_pred             CeeEeCceecCCcceEeeccccccceeee
Confidence            48899999999999999999999999965

>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=96.62  E-value=0.00092  Score=40.69  Aligned_cols=27  Identities=22%  Similarity=0.634  Sum_probs=24.6

Q ss_pred             CCCCCCCceeecceEEEeCCcccccCcc
Q psy12252        280 DGCPRCGFVVYAAEQMISKNRIWHRRCF  307 (356)
Q Consensus       280 ~~C~~C~~~I~~~e~v~~~g~~~H~~CF  307 (356)
                      ..|.+|+..|. |-.|.+.++.+|++||
T Consensus        19 P~CdkCg~GIV-G~~VK~rDK~rHPeCf   45 (45)
T d1x64a1          19 PLCDKCGSGIV-GAVVKARDKYRHPECF   45 (45)
T ss_dssp             CBCTTTCCBCC-SCCEESSSCEECTTTC
T ss_pred             ccccccCCCcE-EEEEEeccccCCCCCC
Confidence            47999999998 6778899999999998

>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=96.61  E-value=0.00083  Score=38.26  Aligned_cols=30  Identities=20%  Similarity=0.442  Sum_probs=26.4

Q ss_pred             CCCCCCCCCCCccccceEEEeCCceeccCCc
Q psy12252         19 AENPKCPACGKSVYAAEERVAGGYKFHKMCF   49 (356)
Q Consensus        19 ~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF   49 (356)
                      ...+.|.+|+.-|.+ ..+.+.++.+|++||
T Consensus         6 qklp~CdkCg~GIVG-~~VK~rDk~rHPeCf   35 (35)
T d1x62a2           6 QKLPMCDKCGTGIVG-VFVKLRDRHRHPECY   35 (35)
T ss_dssp             CCCCCCSSSCCCCCS-SCEECSSCEECTTTT
T ss_pred             ccCccccccCCCcEe-EEEEeccccCCCCCC
Confidence            346899999999997 578899999999998

>d2dloa2 g.39.1.3 (A:43-75) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.60  E-value=0.00023  Score=40.78  Aligned_cols=32  Identities=25%  Similarity=0.516  Sum_probs=27.6

Q ss_pred             ccccccccccCCCccc-cCCcccCccccccccC
Q psy12252         50 KCSMCSKFLDSTNCTE-HEKELYCRQCHGRKYG   81 (356)
Q Consensus        50 ~C~~C~~~L~~~~~~~-~~g~~yC~~cy~~~~~   81 (356)
                      +|..|++.|.+.+|.. .++++||.++|.+.|+
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            5899999999999864 5699999999998874

>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=96.59  E-value=0.0004  Score=39.61  Aligned_cols=25  Identities=20%  Similarity=0.549  Sum_probs=22.5

Q ss_pred             CCCCCCceeecceEEEeCCcccccCc
Q psy12252        281 GCPRCGFVVYAAEQMISKNRIWHRRC  306 (356)
Q Consensus       281 ~C~~C~~~I~~~e~v~~~g~~~H~~C  306 (356)
                      .|..|...|+ |-.|.|.+..||++|
T Consensus        10 ~C~~C~~~it-GpvMvAG~~K~HPEC   34 (34)
T d1x6aa1          10 FCHGCSLLMT-GPFMVAGEFKYHPEC   34 (34)
T ss_dssp             BCTTTCCBCC-SCCBCCTTCCBCTTS
T ss_pred             HhhhhHhhcc-cceeeecccccCCCC
Confidence            7999999887 777889999999998

>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=96.56  E-value=0.00084  Score=40.87  Aligned_cols=32  Identities=25%  Similarity=0.467  Sum_probs=27.8

Q ss_pred             CCCCCCCCCCCCCccccceEEEeCCceeccCCc
Q psy12252         17 VPAENPKCPACGKSVYAAEERVAGGYKFHKMCF   49 (356)
Q Consensus        17 ~~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF   49 (356)
                      .....+.|.+|+.-|.+ ..+.+.++.+|++||
T Consensus        14 ~~QkLP~CdkCg~GIVG-~~VK~rDK~rHPeCf   45 (45)
T d1x64a1          14 SAQRMPLCDKCGSGIVG-AVVKARDKYRHPECF   45 (45)
T ss_dssp             CCCSCCBCTTTCCBCCS-CCEESSSCEECTTTC
T ss_pred             ccccCccccccCCCcEE-EEEEeccccCCCCCC
Confidence            34557899999999997 678899999999998

>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=96.27  E-value=0.00093  Score=35.55  Aligned_cols=26  Identities=38%  Similarity=0.859  Sum_probs=21.4

Q ss_pred             CCCCCceeecce-EEEeCCcccccCcc
Q psy12252        282 CPRCGFVVYAAE-QMISKNRIWHRRCF  307 (356)
Q Consensus       282 C~~C~~~I~~~e-~v~~~g~~~H~~CF  307 (356)
                      |.-|.+||.... .+...++.||..||
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            778999997543 36789999999998

>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=96.25  E-value=0.00059  Score=40.57  Aligned_cols=28  Identities=36%  Similarity=0.820  Sum_probs=23.2

Q ss_pred             CCCCCCceeecceEE-EeCCcccccCccc
Q psy12252        281 GCPRCGFVVYAAEQM-ISKNRIWHRRCFS  308 (356)
Q Consensus       281 ~C~~C~~~I~~~e~v-~~~g~~~H~~CF~  308 (356)
                      .|++|++.+.+||.| ...+.+|||.|-.
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            399999999999876 5678899998743

>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=0.00087  Score=37.21  Aligned_cols=28  Identities=29%  Similarity=0.858  Sum_probs=25.4

Q ss_pred             cccccCCCCCCCCCccCCCCccccccccc
Q psy12252        308 SCADCHRSLDSTNLNDGPDNDIYCRGCYG  336 (356)
Q Consensus       308 ~C~~C~~~L~~~~~~~~~~g~~yC~~c~~  336 (356)
                      .|..|+..|.++.|+ ..+.+.||+.||-
T Consensus         1 vC~tC~~kLRGqpFY-AvekkayCE~CYi   28 (32)
T d1x61a2           1 VCSTCRAQLRGQHFY-AVERRAYCEGCYV   28 (32)
T ss_dssp             BCSSSCCBCTTSCEE-ESSSCEEEHHHHH
T ss_pred             CeeEeCceecCCcce-Eeeccccccceee
Confidence            488999999999998 5999999999985

>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=95.91  E-value=0.00061  Score=37.38  Aligned_cols=32  Identities=22%  Similarity=0.725  Sum_probs=28.4

Q ss_pred             cccccCCCCCCCCCccCCCCccccccccccccC
Q psy12252        308 SCADCHRSLDSTNLNDGPDNDIYCRGCYGKNFG  340 (356)
Q Consensus       308 ~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~f~  340 (356)
                      .|+.|+..|..+.|+ -.....||..|.+.+|+
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            589999999999988 47888999999998886

>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=95.74  E-value=0.0011  Score=36.79  Aligned_cols=29  Identities=28%  Similarity=0.435  Sum_probs=25.7

Q ss_pred             ccccccccccCCCccccCCcccCcccccc
Q psy12252         50 KCSMCSKFLDSTNCTEHEKELYCRQCHGR   78 (356)
Q Consensus        50 ~C~~C~~~L~~~~~~~~~g~~yC~~cy~~   78 (356)
                      .|+.|+..|....+|..++++||+.+...
T Consensus         1 vC~dCg~NLKqrG~Ffv~~~lyCE~HAr~   29 (31)
T d1x64a2           1 VCADCNLNLKQKGYFFVEGELYCETHARA   29 (31)
T ss_dssp             CCSSSCCCTTTSCCEEETTEEECHHHHHH
T ss_pred             CccccccChhhcceEEeccEEeehhhhhc
Confidence            48999999999999999999999987653

>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=95.63  E-value=0.0023  Score=35.32  Aligned_cols=29  Identities=24%  Similarity=0.550  Sum_probs=25.5

Q ss_pred             CCCCCCCCCCCccccceEEEeCCceeccCC
Q psy12252         19 AENPKCPACGKSVYAAEERVAGGYKFHKMC   48 (356)
Q Consensus        19 ~~~~~C~~C~~~I~~~~~i~~~~~~~H~~C   48 (356)
                      +.+.-|..|.+.|.+ .++.|.++.||+.|
T Consensus         3 sgssgC~~C~~~ItG-kVLEAG~khYHP~C   31 (32)
T d1wiga1           3 SGSSGCDSCEKYITG-RVLEAGEKHYHPSC   31 (32)
T ss_dssp             CSCCSCSSSCCCCSS-CCBCCSSCCBCTTT
T ss_pred             Cccchhhhhhhhhhh-hhhhccccccCCCC
Confidence            456789999999996 78889999999988

>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=95.48  E-value=0.0025  Score=35.20  Aligned_cols=25  Identities=20%  Similarity=0.615  Sum_probs=22.8

Q ss_pred             CCCCCCceeecceEEEeCCcccccCc
Q psy12252        281 GCPRCGFVVYAAEQMISKNRIWHRRC  306 (356)
Q Consensus       281 ~C~~C~~~I~~~e~v~~~g~~~H~~C  306 (356)
                      -|..|.+-|+ |..+.+.++.|||.|
T Consensus         7 gC~~C~~~It-GkVLEAG~khYHP~C   31 (32)
T d1wiga1           7 GCDSCEKYIT-GRVLEAGEKHYHPSC   31 (32)
T ss_dssp             SCSSSCCCCS-SCCBCCSSCCBCTTT
T ss_pred             hhhhhhhhhh-hhhhhccccccCCCC
Confidence            6999999998 678889999999988

>d1g47a1 g.39.1.3 (A:1-35) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.47  E-value=0.0038  Score=35.62  Aligned_cols=32  Identities=25%  Similarity=0.530  Sum_probs=27.1

Q ss_pred             CCCCCCCCCCCCCccccceEEE-eCCceeccCC
Q psy12252         17 VPAENPKCPACGKSVYAAEERV-AGGYKFHKMC   48 (356)
Q Consensus        17 ~~~~~~~C~~C~~~I~~~~~i~-~~~~~~H~~C   48 (356)
                      ..+.+..|..|+......+.|+ ..|..||..|
T Consensus         3 ~sL~~~~C~RC~~gF~p~EkiVNSnGEl~H~qC   35 (35)
T d1g47a1           3 NALASATCERCKGGFAPAEKIVNSNGELYHEQC   35 (35)
T ss_dssp             SCCCCCBCSSSCCBCCSTTTCEEETTEEECTTT
T ss_pred             hHHHHHHHHHHccCCCchHHhhcCCCccccccC
Confidence            3567889999999998888655 7999999987

>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=95.23  E-value=0.0019  Score=35.76  Aligned_cols=30  Identities=23%  Similarity=0.527  Sum_probs=25.3

Q ss_pred             cccccCCCCCCCCCccCCCCccccccccccc
Q psy12252        308 SCADCHRSLDSTNLNDGPDNDIYCRGCYGKN  338 (356)
Q Consensus       308 ~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~  338 (356)
                      .|+.|+..|....+|+ .++++||+.|...+
T Consensus         1 vC~dCg~NLKqrG~Ff-v~~~lyCE~HAr~R   30 (31)
T d1x64a2           1 VCADCNLNLKQKGYFF-VEGELYCETHARAR   30 (31)
T ss_dssp             CCSSSCCCTTTSCCEE-ETTEEECHHHHHHH
T ss_pred             CccccccChhhcceEE-eccEEeehhhhhcc
Confidence            4899999999888774 89999999987643

>d1x62a1 g.39.1.3 (A:43-73) PDZ and LIM domain protein 1 Elfin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 1 Elfin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.80  E-value=0.0012  Score=36.58  Aligned_cols=29  Identities=21%  Similarity=0.462  Sum_probs=25.6

Q ss_pred             ccccccccccCCCccccCCcccCcccccc
Q psy12252         50 KCSMCSKFLDSTNCTEHEKELYCRQCHGR   78 (356)
Q Consensus        50 ~C~~C~~~L~~~~~~~~~g~~yC~~cy~~   78 (356)
                      .|+.|+..|....||..++++||+.+...
T Consensus         1 vC~dCg~NLKqrG~Ffve~~lyCE~HAr~   29 (31)
T d1x62a1           1 VCTDCGTNLKQKGHFFVEDQIYCEKHARE   29 (31)
T ss_dssp             SCSSSCCCHHHHCCEESSSCEECHHHHHH
T ss_pred             CccccccChhhcceEEeccEEehhhhhhh
Confidence            48999999998889999999999988653

>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=94.52  E-value=0.0048  Score=33.88  Aligned_cols=29  Identities=21%  Similarity=0.695  Sum_probs=25.8

Q ss_pred             ccccccccccCCCccccCCcccCcccccc
Q psy12252         50 KCSMCSKFLDSTNCTEHEKELYCRQCHGR   78 (356)
Q Consensus        50 ~C~~C~~~L~~~~~~~~~g~~yC~~cy~~   78 (356)
                      +|+.|-.+|....|..+|++++|..|-.+
T Consensus         1 RCaKC~hpLA~E~F~aKd~kI~C~Kc~sr   29 (31)
T d2cupa2           1 RCAKCLHPLANETFVAKDNKILCNKCTTR   29 (31)
T ss_dssp             CCSSSCCCTTSSCCEEETTEEECHHHHTT
T ss_pred             CchhhccccccCcccccCCeEeecccccc
Confidence            58899999999999999999999988643

>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=94.18  E-value=0.006  Score=33.48  Aligned_cols=29  Identities=38%  Similarity=0.830  Sum_probs=24.5

Q ss_pred             ccccccccccCCCccccCCcccCccccccc
Q psy12252         50 KCSMCSKFLDSTNCTEHEKELYCRQCHGRK   79 (356)
Q Consensus        50 ~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~   79 (356)
                      .|+.|++.|.... .+..|++||-+|+.+.
T Consensus         1 nC~~CgkeltadA-rEl~geLyCLpChdKm   29 (31)
T d2cora1           1 NCANCGKELTADA-RELKGELYCLPCHDKM   29 (31)
T ss_dssp             BCSSSCCBCCTTC-EEETTEEECHHHHHTT
T ss_pred             CccccccccchhH-HHhcCCEEEEeccccc
Confidence            4899999998764 7899999999998763

>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=93.82  E-value=0.014  Score=30.31  Aligned_cols=26  Identities=31%  Similarity=0.775  Sum_probs=20.8

Q ss_pred             CCCCCceee-cceEEEeCCcccccCcc
Q psy12252        282 CPRCGFVVY-AAEQMISKNRIWHRRCF  307 (356)
Q Consensus       282 C~~C~~~I~-~~e~v~~~g~~~H~~CF  307 (356)
                      |.+|++-+. +|..+.+.++.||..||
T Consensus         1 cggcgedvvgdgagvvaldrvfhvgcf   27 (27)
T d1x61a1           1 CGGCGEDVVGDGAGVVALDRVFHVGCF   27 (27)
T ss_dssp             CSSSCSCCCSSSCCEECSSSEECTTTC
T ss_pred             CCCcccccccCCcceEEEeeeEEeccC
Confidence            677888765 34568999999999998

>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=93.66  E-value=0.015  Score=32.92  Aligned_cols=31  Identities=26%  Similarity=0.439  Sum_probs=25.4

Q ss_pred             CCCCCCCCCCCCCccccceEEEeCCceeccCC
Q psy12252         17 VPAENPKCPACGKSVYAAEERVAGGYKFHKMC   48 (356)
Q Consensus        17 ~~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~C   48 (356)
                      =+.+...|..|.+.|.+ -..+|.+..||++|
T Consensus         4 w~kfge~C~~C~~~itG-pvMvAG~~K~HPEC   34 (34)
T d1x6aa1           4 WGKFGEFCHGCSLLMTG-PFMVAGEFKYHPEC   34 (34)
T ss_dssp             SCCSSCBCTTTCCBCCS-CCBCCTTCCBCTTS
T ss_pred             HHHHHHHhhhhHhhccc-ceeeecccccCCCC
Confidence            34567899999998874 67778899999998

>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=93.59  E-value=0.0023  Score=35.43  Aligned_cols=30  Identities=23%  Similarity=0.511  Sum_probs=24.8

Q ss_pred             cccccCCCCCCCCCccCCCCccccccccccc
Q psy12252        308 SCADCHRSLDSTNLNDGPDNDIYCRGCYGKN  338 (356)
Q Consensus       308 ~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~  338 (356)
                      .|+.|+..|....+|+ .++++||++|...+
T Consensus         1 vC~dCg~NLKqrG~Ff-ve~~lyCE~HAr~r   30 (31)
T d1x62a1           1 VCTDCGTNLKQKGHFF-VEDQIYCEKHARER   30 (31)
T ss_dssp             SCSSSCCCHHHHCCEE-SSSCEECHHHHHHH
T ss_pred             CccccccChhhcceEE-eccEEehhhhhhhc
Confidence            4899999998887764 89999999987643

>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=92.89  E-value=0.02  Score=32.54  Aligned_cols=26  Identities=31%  Similarity=0.667  Sum_probs=23.2

Q ss_pred             CCCCCCceeecceEE-EeCCcccccCc
Q psy12252        281 GCPRCGFVVYAAEQM-ISKNRIWHRRC  306 (356)
Q Consensus       281 ~C~~C~~~I~~~e~v-~~~g~~~H~~C  306 (356)
                      .|.+|+..+.+.|.| ...|..||..|
T Consensus         9 ~C~RC~~gF~p~EkiVNSnGEl~H~qC   35 (35)
T d1g47a1           9 TCERCKGGFAPAEKIVNSNGELYHEQC   35 (35)
T ss_dssp             BCSSSCCBCCSTTTCEEETTEEECTTT
T ss_pred             HHHHHccCCCchHHhhcCCCccccccC
Confidence            799999999988875 68999999987

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

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.55  E-value=0.0078  Score=34.06  Aligned_cols=32  Identities=31%  Similarity=0.542  Sum_probs=27.0

Q ss_pred             cccccccccc--CCCccccCCcccCccccccccC
Q psy12252         50 KCSMCSKFLD--STNCTEHEKELYCRQCHGRKYG   81 (356)
Q Consensus        50 ~C~~C~~~L~--~~~~~~~~g~~yC~~cy~~~~~   81 (356)
                      +|+-|+..|.  +.+.|.+.|.++|+.+|.++|+
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            5788888885  4478999999999999998874

>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=92.26  E-value=0.032  Score=32.89  Aligned_cols=26  Identities=31%  Similarity=0.686  Sum_probs=20.2

Q ss_pred             CCCCCCCccccceEE-EeCCceeccCC
Q psy12252         23 KCPACGKSVYAAEER-VAGGYKFHKMC   48 (356)
Q Consensus        23 ~C~~C~~~I~~~~~i-~~~~~~~H~~C   48 (356)
                      +|.+|++....++.. .-.+.+||+.|
T Consensus         1 ~C~rC~~mF~EGEEMYLQGs~IWHP~C   27 (41)
T d1wiga2           1 LCVRCGQMFAEGEEMYLQGSSIWHPAC   27 (41)
T ss_dssp             CCSSSCCCCCSSCCCEEETTEEECTTH
T ss_pred             CcchhhccccccceeeecCCceeCCcc
Confidence            589999998776643 45677899988

>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=92.09  E-value=0.016  Score=31.72  Aligned_cols=29  Identities=28%  Similarity=0.710  Sum_probs=24.6

Q ss_pred             cccccCCCCCCCCCccCCCCccccccccccc
Q psy12252        308 SCADCHRSLDSTNLNDGPDNDIYCRGCYGKN  338 (356)
Q Consensus       308 ~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~~  338 (356)
                      .|+.|++.|.....  +..|.+||.+|.+|.
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            48899999988764  479999999998874

>d2d8xa1 g.39.1.3 (A:33-64) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.97  E-value=0.019  Score=31.75  Aligned_cols=30  Identities=27%  Similarity=0.814  Sum_probs=27.1

Q ss_pred             ccccccccccCCCccccCCcccCccccccc
Q psy12252         50 KCSMCSKFLDSTNCTEHEKELYCRQCHGRK   79 (356)
Q Consensus        50 ~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~   79 (356)
                      +|..|...|.+..|+...|+.+|.+|+.+.
T Consensus         1 rC~~C~~~LAD~GFvKnagR~LCrpch~re   30 (32)
T d2d8xa1           1 RCDLCQEVLADIGFVKNAGRHLCRPCHNRE   30 (32)
T ss_dssp             BCSSSCCBCSSSCCEEETTEEECHHHHHHH
T ss_pred             CchHHHhHHHHhhhhhcccccccchhhhhc
Confidence            589999999999999999999999998764

>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=91.63  E-value=0.029  Score=31.06  Aligned_cols=28  Identities=21%  Similarity=0.415  Sum_probs=23.3

Q ss_pred             ccccccccccCC-CccccCCcccCccccc
Q psy12252         50 KCSMCSKFLDST-NCTEHEKELYCRQCHG   77 (356)
Q Consensus        50 ~C~~C~~~L~~~-~~~~~~g~~yC~~cy~   77 (356)
                      +|+.|...|..+ .|...+|.+||+.+..
T Consensus         1 tC~tC~n~LVPGDRFHyvNG~lfCE~D~p   29 (33)
T d1rutx4           1 TCSTCRNRLVPGDRFHYINGSLFCEHDRP   29 (33)
T ss_dssp             BCTTTCCBCCTTCEEEEETTEEEEGGGCC
T ss_pred             CcccccccccCCceeEEecCEEEEecCCc
Confidence            589999988655 7999999999998753

>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=91.58  E-value=0.032  Score=31.75  Aligned_cols=31  Identities=13%  Similarity=0.217  Sum_probs=26.4

Q ss_pred             CCCCCCCCCCCCccccceEEEeCCceeccCCc
Q psy12252         18 PAENPKCPACGKSVYAAEERVAGGYKFHKMCF   49 (356)
Q Consensus        18 ~~~~~~C~~C~~~I~~~~~i~~~~~~~H~~CF   49 (356)
                      .++.-+|.+|...|.. +.+...|..||+..|
T Consensus         5 glGk~vC~KCh~iIdd-~pL~Fr~d~YHp~HF   35 (35)
T d2cora2           5 GLGKYICQKCHAIIDE-QPLIFKNDPYHPDHF   35 (35)
T ss_dssp             CCCCCBCTTTCCBCCS-CCCCCSSSCCCTTTS
T ss_pred             chhhHHHHHHHhhhhc-CcceecCCCCCCCCC
Confidence            4677899999999985 677788999999987

>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=91.43  E-value=0.023  Score=32.06  Aligned_cols=32  Identities=19%  Similarity=0.585  Sum_probs=25.2

Q ss_pred             ccccccCCCCCCCCCccC-CCCccccccccccc
Q psy12252        307 FSCADCHRSLDSTNLNDG-PDNDIYCRGCYGKN  338 (356)
Q Consensus       307 F~C~~C~~~L~~~~~~~~-~~g~~yC~~c~~~~  338 (356)
                      |.|..|+.-|.+++.+.. ...++||..||.+.
T Consensus         1 F~C~~C~~fIgdgdsyaLVerskLYCG~Cy~~~   33 (34)
T d1x6aa2           1 FACMSCKVIIEDGDAYALVQHATLYCGKCHNEV   33 (34)
T ss_dssp             CBCTTTCCBCCTTSCEEECSSSCEEEHHHHHHH
T ss_pred             CcccccccEEecCceEEEEeeceeeeecchhcc
Confidence            789999999988874433 45699999999763

>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=90.61  E-value=0.038  Score=30.56  Aligned_cols=29  Identities=14%  Similarity=0.372  Sum_probs=23.4

Q ss_pred             cccccCCCCCCCCCccCCCCccccccccc
Q psy12252        308 SCADCHRSLDSTNLNDGPDNDIYCRGCYG  336 (356)
Q Consensus       308 ~C~~C~~~L~~~~~~~~~~g~~yC~~c~~  336 (356)
                      +|+.|...|..++.|...+|.+||+.+-.
T Consensus         1 tC~tC~n~LVPGDRFHyvNG~lfCE~D~p   29 (33)
T d1rutx4           1 TCSTCRNRLVPGDRFHYINGSLFCEHDRP   29 (33)
T ss_dssp             BCTTTCCBCCTTCEEEEETTEEEEGGGCC
T ss_pred             CcccccccccCCceeEEecCEEEEecCCc
Confidence            58999999998885445899999988744

>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=87.82  E-value=0.066  Score=29.21  Aligned_cols=29  Identities=31%  Similarity=0.740  Sum_probs=24.8

Q ss_pred             cccccCCCCCCCCCccCCCCcccccccccc
Q psy12252        308 SCADCHRSLDSTNLNDGPDNDIYCRGCYGK  337 (356)
Q Consensus       308 ~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~  337 (356)
                      +|..|-.+|..+.|. ..|+++.|.+|..+
T Consensus         1 RCaKC~hpLA~E~F~-aKd~kI~C~Kc~sr   29 (31)
T d2cupa2           1 RCAKCLHPLANETFV-AKDNKILCNKCTTR   29 (31)
T ss_dssp             CCSSSCCCTTSSCCE-EETTEEECHHHHTT
T ss_pred             CchhhccccccCccc-ccCCeEeecccccc
Confidence            588999999999998 59999999888643

>d1x68a2 g.39.1.3 (A:37-70) Four and a half LIM domains protein 5, FHL-5 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 5, FHL-5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.24  E-value=0.12  Score=28.43  Aligned_cols=27  Identities=30%  Similarity=0.762  Sum_probs=23.9

Q ss_pred             ccccccccccCCCccccCCcccCcccc
Q psy12252         50 KCSMCSKFLDSTNCTEHEKELYCRQCH   76 (356)
Q Consensus        50 ~C~~C~~~L~~~~~~~~~g~~yC~~cy   76 (356)
                      .|-.|+..|.+..|...+..++|.+|-
T Consensus         1 ncgkcsvslvg~gfltq~~~i~c~~cg   27 (34)
T d1x68a2           1 NCGKCSVSLVGKGFLTQNKEIFCQKCG   27 (34)
T ss_dssp             BCTTTCCBCSSSCEEEETTEEEETTTT
T ss_pred             CCccceEEEEeeeeeeccCcEEehhcC
Confidence            378899999999999999999999885

>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=87.08  E-value=0.13  Score=29.18  Aligned_cols=27  Identities=26%  Similarity=0.520  Sum_probs=23.3

Q ss_pred             CCCCCCCceeecceEEEeCCcccccCcc
Q psy12252        280 DGCPRCGFVVYAAEQMISKNRIWHRRCF  307 (356)
Q Consensus       280 ~~C~~C~~~I~~~e~v~~~g~~~H~~CF  307 (356)
                      .+|.+|...|.+ +-+...|..||+.+|
T Consensus         9 ~vC~KCh~iIdd-~pL~Fr~d~YHp~HF   35 (35)
T d2cora2           9 YICQKCHAIIDE-QPLIFKNDPYHPDHF   35 (35)
T ss_dssp             CBCTTTCCBCCS-CCCCCSSSCCCTTTS
T ss_pred             HHHHHHHhhhhc-CcceecCCCCCCCCC
Confidence            489999999974 678899999999887

>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=86.71  E-value=0.092  Score=29.51  Aligned_cols=29  Identities=21%  Similarity=0.567  Sum_probs=22.2

Q ss_pred             cccccCcCcCCCC-ccccCCCCceeccccc
Q psy12252        198 FKCRDCNKTLDSI-NACDGPDKDIYCKTCY  226 (356)
Q Consensus       198 F~C~~C~~~l~~~-~~~~~~~g~~~C~~c~  226 (356)
                      |.|..|+..+.++ .|..+...++||-.||
T Consensus         1 F~C~~C~~fIgdgdsyaLVerskLYCG~Cy   30 (34)
T d1x6aa2           1 FACMSCKVIIEDGDAYALVQHATLYCGKCH   30 (34)
T ss_dssp             CBCTTTCCBCCTTSCEEECSSSCEEEHHHH
T ss_pred             CcccccccEEecCceEEEEeeceeeeecch
Confidence            7899999999876 4555678899994443

>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=80.64  E-value=0.19  Score=27.63  Aligned_cols=29  Identities=21%  Similarity=0.524  Sum_probs=24.9

Q ss_pred             cccccCCCCCCCCCccCCCCcccccccccc
Q psy12252        308 SCADCHRSLDSTNLNDGPDNDIYCRGCYGK  337 (356)
Q Consensus       308 ~C~~C~~~L~~~~~~~~~~g~~yC~~c~~~  337 (356)
                      +|..|...|.+..|. ..-|+..|+.|..+
T Consensus         1 rC~~C~~~LAD~GFv-KnagR~LCrpch~r   29 (32)
T d2d8xa1           1 RCDLCQEVLADIGFV-KNAGRHLCRPCHNR   29 (32)
T ss_dssp             BCSSSCCBCSSSCCE-EETTEEECHHHHHH
T ss_pred             CchHHHhHHHHhhhh-hcccccccchhhhh
Confidence            588999999999987 57899999998764