Psyllid ID: psy11345

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280--
Protein Sequence
VNGHDGKQLVNKQYNSPVGIYSEESIAETLSAQAEVLAGGVLGVNFKKNEKNYTPANSEVLKMVQEADQEPRSPEPGSGAGGKGGSSGLTTAPRRGRGVLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKSTSGTIVCLE
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEcccccccccEEEccccccccccccccEEcccccccHHHHcccccHHHHHcccccccccccccccccccccccccEEEccccccHHHHHHHHccccccccccEEccccEEEEcccccccccccccccccccccccccccccccccccccEEEEcc
Secondary Structure Prediction (SSPRO)
cccccccEEEcccccccccccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHcccccccccccHHccccccccHEHHccccccccHEEEEHHccccccccccEEccccccccHHHHHHHHcHHHHHHHccccccccEEEEEccccccccccEccccccccHHHHHHHHccccccccccccccHHHHHHHccccccccEEEEEEcccccccccEEccccEEEEccccccccc
Coil and Loop (DISEMBL)
vnghdgkqlvnkqynspvgiysEESIAETLSAQAEVLAGgvlgvnfkkneknytpaNSEVLKMVQEadqeprspepgsgaggkggssglttaprrgrgvlnpqnlapgarvplcgqcyqQIRGPfitalgkiwcpdhflcvrpqckrplqdigfveedsglycefcfeqylapdclnaigkhyhpecftcaycgklfgnnpffleeglpycendwndlfttkcfacgfpieaGDRWVEALNNNYhslcfncsspsspalsgakpygtqntikstsgtivcle
Flexible Loop (DISEMBL)
vnghdgkqlvnkqynsPVGIYSEESIAETLSAQAEVLAGGVLGVNFKKNEKNYTPANSEVLKMVQEADQEPrspepgsgaggkggssgLTTAPRRGRGVLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSgakpygtqntikstsgtivcle
Low Complexity Region (SEG)
VNGHDGKQLVNKQYNSPVGIYSEESIAETLSAQAEVLAGGVLGVNFKKNEKNYTPANSEVLKMVQEADQEPRSPEPgsgaggkggssgLTTAPRRGRGVLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKSTSGTIVCLE
Disordered region (IsUnstruct)
*****************VGIYSEESIAETLSAQAEVLAGGVLGVNFK*********************************************************LAPGARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNC*******************************
Disordered Region (DISOPRED)
************************************************************************************************************ARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKSTSGTIVCLE
Disordered Region (DISEMBL)
VNGHDGKQLVNKQYNSPVGIYSEESIAETLSAQAEVLAGGVLGVNFKKNEKNYTPANSEVLKMV************************LTTAPRRGRGVLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSSP***********GTQNTIKSTSGTIVCLE
Disordered Region (DISPRO)
*****GKQLVNKQYNSPVGIYSEESIAETLSAQAEVL***********************************************************************ARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKSTSGT**C**
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
VNGHDGKQLVNKQYNSPVGIYSEESIAETLSAQAEVLAGGVLGVNFKKNEKNYTPANSEVLKMVQEADQEPRSPEPGSGAGGKGGSSGLTTAPRRGRGVLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKSTSGTIVCLE
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	282	2.2.26 [Sep-21-2011]
A1ZA47	2194	PDZ and LIM domain protei	yes	N/A	0.613	0.078	0.704	5e-79
Q62920	591	PDZ and LIM domain protei	yes	N/A	0.645	0.307	0.417	7e-41
Q8CI51	591	PDZ and LIM domain protei	yes	N/A	0.645	0.307	0.420	2e-40
O75112	727	LIM domain-binding protei	no	N/A	0.602	0.233	0.423	3e-40
Q9JKS4	723	LIM domain-binding protei	no	N/A	0.507	0.197	0.461	2e-39
Q96HC4	596	PDZ and LIM domain protei	no	N/A	0.539	0.255	0.460	2e-39
Q6P7E4	419	PDZ and LIM domain protei	no	N/A	0.496	0.334	0.418	2e-32
Q6INU3	421	PDZ and LIM domain protei	N/A	N/A	0.570	0.382	0.385	1e-31
Q9NR12	457	PDZ and LIM domain protei	no	N/A	0.5	0.308	0.396	8e-31
Q3TJD7	457	PDZ and LIM domain protei	no	N/A	0.5	0.308	0.396	1e-30

>sp|A1ZA47|ZASP_DROME PDZ and LIM domain protein Zasp OS=Drosophila melanogaster GN=Zasp52 PE=1 SV=2

 Score =  294 bits (753), Expect = 5e-79,   Method: Compositional matrix adjust.
 Identities = 131/186 (70%), Positives = 149/186 (80%), Gaps = 13/186 (6%)

Query: 79   GAGGK-GGSSGLTTAPRRGRGVLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPDH 137
            GAGGK  G+ G T+AP+RGRG+LN +   PG R+PLC  C  QIRGPFITALG+IWCPDH
Sbjct: 1985 GAGGKSAGAFGATSAPKRGRGILN-KAAGPGVRIPLCNSCNVQIRGPFITALGRIWCPDH 2043

Query: 138  FLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAP-----------DCLNAIGKHYHPE 186
            F+CV   C+RPLQDIGFVEE   LYCE+CFE+YLAP           DCLNAIGKH+HPE
Sbjct: 2044 FICVNGNCRRPLQDIGFVEEKGDLYCEYCFEKYLAPTCSKCAGKIKGDCLNAIGKHFHPE 2103

Query: 187  CFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHS 246
            CFTC  CGK+FGN PFFLE+G  YCE DWN+LFTTKCFACGFP+EAGDRWVEALN+NYHS
Sbjct: 2104 CFTCGQCGKIFGNRPFFLEDGNAYCEADWNELFTTKCFACGFPVEAGDRWVEALNHNYHS 2163

Query: 247  LCFNCS 252
             CFNC+
Sbjct: 2164 QCFNCT 2169

Regulator of cell matrix adhesion having two related functions, one upstream of Actn organizing the Z line and the other downstream of integrins regulating assembly of integrin adhesion sites. Also required for the formation of myotendinous junctions in muscles.
Drosophila melanogaster (taxid: 7227)

>sp|Q62920|PDLI5_RAT PDZ and LIM domain protein 5 OS=Rattus norvegicus GN=Pdlim5 PE=1 SV=2

 Score =  167 bits (424), Expect = 7e-41,   Method: Compositional matrix adjust.
 Identities = 86/206 (41%), Positives = 109/206 (52%), Gaps = 24/206 (11%)

Query: 69  QEPRSPEPGSGAGGKGGSSGLTTAPRR-----------GRGVLNPQNLAPGARVPLCGQC 117
           Q P    P +G      SS  T AP +              V   +++  G R P+C  C
Sbjct: 359 QRPNQAAPSTGRISNSASSSGTGAPMKPAVGPPQPSDQDTLVQRAEHIPAGKRTPMCAHC 418

Query: 118 YQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDC-- 175
            Q IRGPF+ ALGK W P+ F C    CK  +  IGFVEE   LYCE C+E++ AP+C  
Sbjct: 419 NQAIRGPFLVALGKSWHPEEFNCA--HCKNTMAYIGFVEEKGALYCELCYEKFFAPECGR 476

Query: 176 ---------LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFAC 226
                    +NA+ + +H  CF C  CGK   NN F LE+G PYCE D+  LF T C  C
Sbjct: 477 CQRKILGEVINALKQTWHVSCFVCVACGKPIRNNVFHLEDGEPYCETDYYALFGTICRGC 536

Query: 227 GFPIEAGDRWVEALNNNYHSLCFNCS 252
            FPIEAGD ++EAL + +H  CF CS
Sbjct: 537 EFPIEAGDMFLEALGSTWHDTCFVCS 562

May play an important role in the heart development by scaffolding PKC to the Z-disk region. May play a role in the regulation of cardiomyocyte expansion. Isoforms lacking the LIM domains may negatively modulate the scaffolding activity of isoform 1. Overexpression promotes the development of heart hypertrophy. Contributes to the regulation of dendritic spine morphogenesis in neurons. May restrain postsynaptic growth of excitatory synapses.

Rattus norvegicus (taxid: 10116)

>sp|Q8CI51|PDLI5_MOUSE PDZ and LIM domain protein 5 OS=Mus musculus GN=Pdlim5 PE=1 SV=4

 Score =  166 bits (420), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 85/202 (42%), Positives = 108/202 (53%), Gaps = 20/202 (9%)

Query: 69  QEPRSPEPGSG-------AGGKGGSSGLTTAPRRGRGVLNPQNLAPGARVPLCGQCYQQI 121
           Q P    P +G       + G G S G      +   V   +++  G R P+C  C Q I
Sbjct: 363 QRPNQAAPSTGRISNNARSSGTGASVGPPQPSDQDTLVQRAEHIPAGKRTPMCAHCNQVI 422

Query: 122 RGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDC------ 175
           RGPF+ ALGK W P+ F C    CK  +  IGFVEE   LYCE C+E++ AP+C      
Sbjct: 423 RGPFLVALGKSWHPEEFNCA--HCKNTMAYIGFVEEKGALYCELCYEKFFAPECGRCQRK 480

Query: 176 -----LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPI 230
                +NA+ + +H  CF C  CGK   NN F LE+G PYCE D+  LF T C  C FPI
Sbjct: 481 ILGEVINALKQTWHVSCFVCVACGKPIRNNVFHLEDGEPYCETDYYALFGTICRGCEFPI 540

Query: 231 EAGDRWVEALNNNYHSLCFNCS 252
           EAGD ++EAL   +H  CF CS
Sbjct: 541 EAGDMFLEALGYTWHDTCFVCS 562

May play an important role in the heart development by scaffolding PKC to the Z-disk region. Isoform 2 and isoform 3 may negatively modulate the scaffolding activity of isoform 1. May play a role in the regulation of cardiomyocyte expansion. Overexpression promotes the development of heart hypertrophy. Contributes to the regulation of dendritic spine morphogenesis in neurons. May restrain postsynaptic growth of excitatory synapses.

Mus musculus (taxid: 10090)

>sp|O75112|LDB3_HUMAN LIM domain-binding protein 3 OS=Homo sapiens GN=LDB3 PE=1 SV=2

 Score =  165 bits (417), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 78/184 (42%), Positives = 108/184 (58%), Gaps = 14/184 (7%)

Query: 81  GGKGGSSGLTTAPRRGRGVLNPQNLAPGA-RVPLCGQCYQQIRGPFITALGKIWCPDHFL 139
           GG   +      P   RG +      P + R PLCG C   IRGPF+ A+G+ W P+ F 
Sbjct: 517 GGPAYTPAGPQVPPLARGTVQRAERFPASSRTPLCGHCNNVIRGPFLVAMGRSWHPEEFT 576

Query: 140 CVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDC-----------LNAIGKHYHPECF 188
           C    CK  L D+ FVEE + +YCE C+EQ+ AP C           ++A+ + +H  CF
Sbjct: 577 CA--YCKTSLADVCFVEEQNNVYCERCYEQFFAPLCAKCNTKIMGEVMHALRQTWHTTCF 634

Query: 189 TCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLC 248
            CA C K FGN+ F +E+G PYCE D+ +LF+TKC  C FP+EAGD+++EAL + +H  C
Sbjct: 635 VCAACKKPFGNSLFHMEDGEPYCEKDYINLFSTKCHGCDFPVEAGDKFIEALGHTWHDTC 694

Query: 249 FNCS 252
           F C+
Sbjct: 695 FICA 698

May function as an adapter in striated muscle to couple protein kinase C-mediated signaling via its LIM domains to the cytoskeleton.

Homo sapiens (taxid: 9606)

>sp|Q9JKS4|LDB3_MOUSE LIM domain-binding protein 3 OS=Mus musculus GN=Ldb3 PE=1 SV=1

 Score =  163 bits (412), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 72/156 (46%), Positives = 100/156 (64%), Gaps = 13/156 (8%)

Query: 108 GARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCF 167
            +R PLCG C   IRGPF+ A+G+ W P+ F C    CK  L D+ FVEE + +YCE C+
Sbjct: 541 SSRTPLCGHCNNVIRGPFLVAMGRSWHPEEFNCAY--CKTSLADVCFVEEQNNVYCERCY 598

Query: 168 EQYLAPDC-----------LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWN 216
           EQ+ AP C           ++A+ + +H  CF CA C K FGN+ F +E+G PYCE D+ 
Sbjct: 599 EQFFAPICAKCNTKIMGEVMHALRQTWHTTCFVCAACKKPFGNSLFHMEDGEPYCEKDYI 658

Query: 217 DLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
           +LF+TKC  C FP+EAGD+++EAL + +H  CF C+
Sbjct: 659 NLFSTKCHGCDFPVEAGDKFIEALGHTWHDTCFICA 694

May function as an adapter in striated muscle to couple protein kinase C-mediated signaling via its LIM domains to the cytoskeleton.

Mus musculus (taxid: 10090)

>sp|Q96HC4|PDLI5_HUMAN PDZ and LIM domain protein 5 OS=Homo sapiens GN=PDLIM5 PE=1 SV=5

 Score =  162 bits (411), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 76/165 (46%), Positives = 97/165 (58%), Gaps = 13/165 (7%)

Query: 99  VLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEED 158
           V   +++  G R P+C  C Q IRGPF+ ALGK W P+ F C    CK  +  IGFVEE 
Sbjct: 405 VQRAEHIPAGKRTPMCAHCNQVIRGPFLVALGKSWHPEEFNCA--HCKNTMAYIGFVEEK 462

Query: 159 SGLYCEFCFEQYLAPDC-----------LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEG 207
             LYCE C+E++ AP+C           ++A+ + +H  CF C  CGK   NN F LE+G
Sbjct: 463 GALYCELCYEKFFAPECGRCQRKILGEVISALKQTWHVSCFVCVACGKPIRNNVFHLEDG 522

Query: 208 LPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
            PYCE D+  LF T C  C FPIEAGD ++EAL   +H  CF CS
Sbjct: 523 EPYCETDYYALFGTICHGCEFPIEAGDMFLEALGYTWHDTCFVCS 567

May play an important role in the heart development by scaffolding PKC to the Z-disk region. May play a role in the regulation of cardiomyocyte expansion. Overexpression promotes the development of heart hypertrophy. Contributes to the regulation of dendritic spine morphogenesis in neurons. May restrain postsynaptic growth of excitatory synapses.

Homo sapiens (taxid: 9606)

>sp|Q6P7E4|PDLI7_DANRE PDZ and LIM domain protein 7 OS=Danio rerio GN=pdlim7 PE=2 SV=1

 Score =  139 bits (351), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 64/153 (41%), Positives = 90/153 (58%), Gaps = 13/153 (8%)

Query: 111 VPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQY 170
            PLC  C + IRG ++ ALG+ W P+ F+C   QCKR L + GF EE   +YC  C++  
Sbjct: 241 TPLCAACSKIIRGRYVVALGRSWHPEEFMCC--QCKRLLDEGGFFEEKGSIYCSKCYDNR 298

Query: 171 LAPDC-----------LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLF 219
            +P+C           ++A+   YH +CF CA C     N  F++EEG PYCE D+  +F
Sbjct: 299 YSPNCAKCKKIITGEIMHALKMTYHVQCFLCAACKLPIRNQAFYMEEGEPYCERDYEKMF 358

Query: 220 TTKCFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
            TKC  C F I+AGDR++EAL  ++H  CF C+
Sbjct: 359 GTKCHGCDFKIDAGDRFLEALGYSWHDTCFVCA 391

May function as a scaffold on which the coordinated assembly of proteins can occur. May play a role as an adapter that, via its PDZ domain, localizes LIM-binding proteins to actin filaments of both skeletal muscle and nonmuscle tissues.

Danio rerio (taxid: 7955)

>sp|Q6INU3|PDLI7_XENLA PDZ and LIM domain protein 7 OS=Xenopus laevis GN=pdlim7 PE=2 SV=1

 Score =  137 bits (345), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 67/174 (38%), Positives = 99/174 (56%), Gaps = 13/174 (7%)

Query: 90  TTAPRRGRGVLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPL 149
           T A  R   +   Q  + G + P+C QC + IRG F+ ALG+ + P+ F C   QC + L
Sbjct: 222 TPAQSRNSILQAAQVPSSGDKTPVCSQCNKIIRGRFLLALGRYYHPEEFTCS--QCHKVL 279

Query: 150 QDIGFVEEDSGLYCEFCFEQYLAPDC-----------LNAIGKHYHPECFTCAYCGKLFG 198
           ++ GF EE   ++C  C++   AP+C           ++A+   +H  CFTCAYC     
Sbjct: 280 EEGGFFEEKGSIFCPCCYDARFAPNCAKCKKKITGEIMHALKMTWHVPCFTCAYCKTPIR 339

Query: 199 NNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
           N  F++E+G PYCE D+  +F TKC  C F I+AGDR++EAL  ++H  CF C+
Sbjct: 340 NRAFYMEDGKPYCEKDYEQMFGTKCRGCDFKIDAGDRFLEALGFSWHDTCFVCA 393

May function as a scaffold on which the coordinated assembly of proteins can occur. May play a role as an adapter that, via its PDZ domain, localizes LIM-binding proteins to actin filaments of both skeletal muscle and nonmuscle tissues.

Xenopus laevis (taxid: 8355)

>sp|Q9NR12|PDLI7_HUMAN PDZ and LIM domain protein 7 OS=Homo sapiens GN=PDLIM7 PE=1 SV=1

 Score =  134 bits (337), Expect = 8e-31,   Method: Compositional matrix adjust.
 Identities = 61/154 (39%), Positives = 92/154 (59%), Gaps = 13/154 (8%)

Query: 110 RVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQ 169
           + P+C QC++ IRG ++ ALG  + P+ F+C   QC + L++ GF EE   ++C  C++ 
Sbjct: 278 KTPVCHQCHKVIRGRYLVALGHAYHPEEFVCS--QCGKVLEEGGFFEEKGAIFCPPCYDV 335

Query: 170 YLAPDC-----------LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDL 218
             AP C           ++A+   +H  CFTCA C     N  F++EEG+PYCE D+  +
Sbjct: 336 RYAPSCAKCKKKITGEIMHALKMTWHVHCFTCAACKTPIRNRAFYMEEGVPYCERDYEKM 395

Query: 219 FTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
           F TKC  C F I+AGDR++EAL  ++H  CF C+
Sbjct: 396 FGTKCHGCDFKIDAGDRFLEALGFSWHDTCFVCA 429

May function as a scaffold on which the coordinated assembly of proteins can occur. May play a role as an adapter that, via its PDZ domain, localizes LIM-binding proteins to actin filaments of both skeletal muscle and nonmuscle tissues. Involved in both of the two fundamental mechanisms of bone formation, direct bone formation e.g (embryonic flat bones mandible and cranium), and endochondral bone formation e.g (embryonic long bone development). Plays a role during fracture repair. Involved in BMP6 signaling pathway.

Homo sapiens (taxid: 9606)

>sp|Q3TJD7|PDLI7_MOUSE PDZ and LIM domain protein 7 OS=Mus musculus GN=Pdlim7 PE=2 SV=1

 Score =  133 bits (334), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 61/154 (39%), Positives = 92/154 (59%), Gaps = 13/154 (8%)

Query: 110 RVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQ 169
           + P+C QC++ IRG ++ ALG  + P+ F+C   QC + L++ GF EE   ++C  C++ 
Sbjct: 278 KTPVCHQCHKIIRGRYLVALGHAYHPEEFVCS--QCGKVLEEGGFFEEKGAIFCPSCYDV 335

Query: 170 YLAPDC-----------LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDL 218
             AP+C           ++A+   +H  CFTCA C     N  F++EEG PYCE D+  +
Sbjct: 336 RYAPNCAKCKKKITGEIMHALKMTWHVHCFTCAACKTPIRNRAFYMEEGAPYCERDYEKM 395

Query: 219 FTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
           F TKC  C F I+AGDR++EAL  ++H  CF C+
Sbjct: 396 FGTKCRGCDFKIDAGDRFLEALGFSWHDTCFVCA 429

May function as a scaffold on which the coordinated assembly of proteins can occur. May play a role as an adapter that, via its PDZ domain, localizes LIM-binding proteins to actin filaments of both skeletal muscle and nonmuscle tissues. Involved in both of the two fundamental mechanisms of bone formation, direct bone formation e.g (embryonic flat bones mandible and cranium), and endochondral bone formation e.g (embryonic long bone development). Plays a role during fracture repair. Involved in BMP6 signaling pathway.

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	282
328722462	647	PREDICTED: PDZ and LIM domain protein Za	0.620	0.270	0.770	3e-83
328722467	671	PREDICTED: PDZ and LIM domain protein Za	0.620	0.260	0.770	3e-83
193669165	635	PREDICTED: PDZ and LIM domain protein Za	0.620	0.275	0.770	4e-83
328722465	633	PREDICTED: PDZ and LIM domain protein Za	0.620	0.276	0.770	5e-83
307178151	1681	LIM domain-binding protein 3 [Camponotus	0.609	0.102	0.706	2e-78
307213996	1664	LIM domain-binding protein 3 [Harpegnath	0.574	0.097	0.729	3e-78
383862864	1705	PREDICTED: uncharacterized protein LOC10	0.602	0.099	0.708	6e-78
328786412	1684	PREDICTED: hypothetical protein LOC41020	0.602	0.100	0.703	7e-78
442623845	1758	Z band alternatively spliced PDZ-motif p	0.613	0.098	0.704	2e-77
161077121	2194	Z band alternatively spliced PDZ-motif p	0.613	0.078	0.704	3e-77

>gi|328722462|ref|XP_003247586.1| PREDICTED: PDZ and LIM domain protein Zasp-like isoform 2 [Acyrthosiphon pisum]

 Score =  314 bits (804), Expect = 3e-83,   Method: Compositional matrix adjust.
 Identities = 144/187 (77%), Positives = 156/187 (83%), Gaps = 12/187 (6%)

Query: 77  GSGAGGKGGSSGLTTAPRRGRGVLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPD 136
           G   G  G S+GLT APRRGRGVLNPQNL PGARVPLCGQC   IRGPFITALGKIWCP+
Sbjct: 437 GQPTGRTGASAGLT-APRRGRGVLNPQNLTPGARVPLCGQCNLYIRGPFITALGKIWCPE 495

Query: 137 HFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAP-----------DCLNAIGKHYHP 185
           HF+C   +C+RPLQDIGFVEED+GLYCE+CFEQYLAP           DCLNAIGK +HP
Sbjct: 496 HFVCTNEKCRRPLQDIGFVEEDNGLYCEYCFEQYLAPVCSKCSKKIKGDCLNAIGKQFHP 555

Query: 186 ECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYH 245
           ECF C YCGKLFGN+PFFLE+ LPYCENDWN+LFTTKC ACGFPIEAGDRWVEALN+NYH
Sbjct: 556 ECFNCTYCGKLFGNSPFFLEDSLPYCENDWNELFTTKCIACGFPIEAGDRWVEALNSNYH 615

Query: 246 SLCFNCS 252
           S CFNCS
Sbjct: 616 SPCFNCS 622

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328722467|ref|XP_003247588.1| PREDICTED: PDZ and LIM domain protein Zasp-like isoform 4 [Acyrthosiphon pisum]

 Score =  314 bits (804), Expect = 3e-83,   Method: Compositional matrix adjust.
 Identities = 144/187 (77%), Positives = 156/187 (83%), Gaps = 12/187 (6%)

Query: 77  GSGAGGKGGSSGLTTAPRRGRGVLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPD 136
           G   G  G S+GLT APRRGRGVLNPQNL PGARVPLCGQC   IRGPFITALGKIWCP+
Sbjct: 461 GQPTGRTGASAGLT-APRRGRGVLNPQNLTPGARVPLCGQCNLYIRGPFITALGKIWCPE 519

Query: 137 HFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAP-----------DCLNAIGKHYHP 185
           HF+C   +C+RPLQDIGFVEED+GLYCE+CFEQYLAP           DCLNAIGK +HP
Sbjct: 520 HFVCTNEKCRRPLQDIGFVEEDNGLYCEYCFEQYLAPVCSKCSKKIKGDCLNAIGKQFHP 579

Query: 186 ECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYH 245
           ECF C YCGKLFGN+PFFLE+ LPYCENDWN+LFTTKC ACGFPIEAGDRWVEALN+NYH
Sbjct: 580 ECFNCTYCGKLFGNSPFFLEDSLPYCENDWNELFTTKCIACGFPIEAGDRWVEALNSNYH 639

Query: 246 SLCFNCS 252
           S CFNCS
Sbjct: 640 SPCFNCS 646

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|193669165|ref|XP_001944917.1| PREDICTED: PDZ and LIM domain protein Zasp-like isoform 1 [Acyrthosiphon pisum]

 Score =  313 bits (803), Expect = 4e-83,   Method: Compositional matrix adjust.
 Identities = 144/187 (77%), Positives = 156/187 (83%), Gaps = 12/187 (6%)

Query: 77  GSGAGGKGGSSGLTTAPRRGRGVLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPD 136
           G   G  G S+GLT APRRGRGVLNPQNL PGARVPLCGQC   IRGPFITALGKIWCP+
Sbjct: 425 GQPTGRTGASAGLT-APRRGRGVLNPQNLTPGARVPLCGQCNLYIRGPFITALGKIWCPE 483

Query: 137 HFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAP-----------DCLNAIGKHYHP 185
           HF+C   +C+RPLQDIGFVEED+GLYCE+CFEQYLAP           DCLNAIGK +HP
Sbjct: 484 HFVCTNEKCRRPLQDIGFVEEDNGLYCEYCFEQYLAPVCSKCSKKIKGDCLNAIGKQFHP 543

Query: 186 ECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYH 245
           ECF C YCGKLFGN+PFFLE+ LPYCENDWN+LFTTKC ACGFPIEAGDRWVEALN+NYH
Sbjct: 544 ECFNCTYCGKLFGNSPFFLEDSLPYCENDWNELFTTKCIACGFPIEAGDRWVEALNSNYH 603

Query: 246 SLCFNCS 252
           S CFNCS
Sbjct: 604 SPCFNCS 610

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328722465|ref|XP_003247587.1| PREDICTED: PDZ and LIM domain protein Zasp-like isoform 3 [Acyrthosiphon pisum]

 Score =  313 bits (802), Expect = 5e-83,   Method: Compositional matrix adjust.
 Identities = 144/187 (77%), Positives = 156/187 (83%), Gaps = 12/187 (6%)

Query: 77  GSGAGGKGGSSGLTTAPRRGRGVLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPD 136
           G   G  G S+GLT APRRGRGVLNPQNL PGARVPLCGQC   IRGPFITALGKIWCP+
Sbjct: 423 GQPTGRTGASAGLT-APRRGRGVLNPQNLTPGARVPLCGQCNLYIRGPFITALGKIWCPE 481

Query: 137 HFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAP-----------DCLNAIGKHYHP 185
           HF+C   +C+RPLQDIGFVEED+GLYCE+CFEQYLAP           DCLNAIGK +HP
Sbjct: 482 HFVCTNEKCRRPLQDIGFVEEDNGLYCEYCFEQYLAPVCSKCSKKIKGDCLNAIGKQFHP 541

Query: 186 ECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYH 245
           ECF C YCGKLFGN+PFFLE+ LPYCENDWN+LFTTKC ACGFPIEAGDRWVEALN+NYH
Sbjct: 542 ECFNCTYCGKLFGNSPFFLEDSLPYCENDWNELFTTKCIACGFPIEAGDRWVEALNSNYH 601

Query: 246 SLCFNCS 252
           S CFNCS
Sbjct: 602 SPCFNCS 608

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307178151|gb|EFN66959.1| LIM domain-binding protein 3 [Camponotus floridanus]

 Score =  298 bits (764), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 130/184 (70%), Positives = 150/184 (81%), Gaps = 12/184 (6%)

Query: 80   AGGKGGSSGLTTAPRRGRGVLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPDHFL 139
            A  K GS   ++AP+RGRG+LN Q +  G+RVPLC  C   +RGPFI+ALG+IWCPDHF+
Sbjct: 1474 ASSKSGSFAGSSAPKRGRGILN-QAVGAGSRVPLCAHCSSYVRGPFISALGQIWCPDHFV 1532

Query: 140  CVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAP-----------DCLNAIGKHYHPECF 188
            CV  QC+RPLQDIGFVEE   LYCE+CFE+++AP           DCLNAIGKH+HPECF
Sbjct: 1533 CVNAQCRRPLQDIGFVEEKGQLYCEYCFEKFIAPTCNKCNNKIKGDCLNAIGKHFHPECF 1592

Query: 189  TCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLC 248
            +C YCGKLFGNNPFFLEEGLPYCE DWN+LFTTKCFACGFP+EAGDRWVEALNNNYHS C
Sbjct: 1593 SCTYCGKLFGNNPFFLEEGLPYCEADWNELFTTKCFACGFPVEAGDRWVEALNNNYHSQC 1652

Query: 249  FNCS 252
            FNC+
Sbjct: 1653 FNCT 1656

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307213996|gb|EFN89203.1| LIM domain-binding protein 3 [Harpegnathos saltator]

 Score =  297 bits (760), Expect = 3e-78,   Method: Compositional matrix adjust.
 Identities = 127/174 (72%), Positives = 147/174 (84%), Gaps = 12/174 (6%)

Query: 90   TTAPRRGRGVLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPL 149
            ++AP+RGRG+LN Q +A G+R+PLC  C   +RGPFITALG+IWCPDHF+CV  QC+RPL
Sbjct: 1467 SSAPKRGRGILN-QAVAAGSRIPLCAHCNSYVRGPFITALGQIWCPDHFVCVNAQCRRPL 1525

Query: 150  QDIGFVEEDSGLYCEFCFEQYLAP-----------DCLNAIGKHYHPECFTCAYCGKLFG 198
            QDIGFVEE   LYCE+CFE+++AP           DCLNAIGKH+HPECF CAYCGKLFG
Sbjct: 1526 QDIGFVEEKGQLYCEYCFEKFIAPTCNKCNNKIKGDCLNAIGKHFHPECFNCAYCGKLFG 1585

Query: 199  NNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
            N+PFFLEEGLPYCE DWN+LFTTKCFACGFP+EAGDRWVEALNNNYHS CFNC+
Sbjct: 1586 NSPFFLEEGLPYCEADWNELFTTKCFACGFPVEAGDRWVEALNNNYHSQCFNCT 1639

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383862864|ref|XP_003706903.1| PREDICTED: uncharacterized protein LOC100874905 [Megachile rotundata]

 Score =  296 bits (758), Expect = 6e-78,   Method: Compositional matrix adjust.
 Identities = 129/182 (70%), Positives = 148/182 (81%), Gaps = 12/182 (6%)

Query: 82   GKGGSSGLTTAPRRGRGVLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPDHFLCV 141
             K GS   ++AP+RGRG+LN Q   PG R+PLC  C   +RGPFITALG+IWCPDHF+CV
Sbjct: 1500 SKSGSFAGSSAPKRGRGILN-QATGPGLRLPLCAHCNSYVRGPFITALGQIWCPDHFVCV 1558

Query: 142  RPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAP-----------DCLNAIGKHYHPECFTC 190
              QC+RPLQDIGFVEE   LYCE+CFE+++AP           DCLNAIGKH+HPECF C
Sbjct: 1559 NTQCRRPLQDIGFVEEKGQLYCEYCFERFIAPSCNKCNNKIKGDCLNAIGKHFHPECFKC 1618

Query: 191  AYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFN 250
            +YCGKLFGN+PFFLEEGLPYCE DWN+LFTTKCFACGFP+EAGDRWVEALNNNYHS CFN
Sbjct: 1619 SYCGKLFGNSPFFLEEGLPYCEADWNELFTTKCFACGFPVEAGDRWVEALNNNYHSQCFN 1678

Query: 251  CS 252
            C+
Sbjct: 1679 CT 1680

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328786412|ref|XP_393687.4| PREDICTED: hypothetical protein LOC410204 [Apis mellifera]

 Score =  296 bits (758), Expect = 7e-78,   Method: Compositional matrix adjust.
 Identities = 128/182 (70%), Positives = 149/182 (81%), Gaps = 12/182 (6%)

Query: 82   GKGGSSGLTTAPRRGRGVLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPDHFLCV 141
             K G+   ++AP+RGRG+LN Q   PG+R+PLC  C   +RGPFITALG+IWCPDHF+CV
Sbjct: 1479 SKSGTFAGSSAPKRGRGILN-QATGPGSRLPLCAHCNSYVRGPFITALGQIWCPDHFVCV 1537

Query: 142  RPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAP-----------DCLNAIGKHYHPECFTC 190
              QC+RPLQDIGFVEE   LYCE+CFE+++AP           DCLNAIGKH+HPECF C
Sbjct: 1538 NTQCRRPLQDIGFVEEKGQLYCEYCFERFIAPSCNKCNNKIKGDCLNAIGKHFHPECFKC 1597

Query: 191  AYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFN 250
            +YCGKLFGN+PFFLEEGLPYCE DWN+LFTTKCFACGFP+EAGDRWVEALNNNYHS CFN
Sbjct: 1598 SYCGKLFGNSPFFLEEGLPYCEADWNELFTTKCFACGFPVEAGDRWVEALNNNYHSQCFN 1657

Query: 251  CS 252
            C+
Sbjct: 1658 CT 1659

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|442623845|ref|NP_001261010.1| Z band alternatively spliced PDZ-motif protein 52, isoform Q [Drosophila melanogaster] gi|345523058|gb|AEO00788.1| Z-band PDZ-motif protein 52 isoform 13 [Drosophila melanogaster] gi|440214430|gb|AGB93542.1| Z band alternatively spliced PDZ-motif protein 52, isoform Q [Drosophila melanogaster]

 Score =  294 bits (753), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 131/186 (70%), Positives = 149/186 (80%), Gaps = 13/186 (6%)

Query: 79   GAGGK-GGSSGLTTAPRRGRGVLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPDH 137
            GAGGK  G+ G T+AP+RGRG+LN +   PG R+PLC  C  QIRGPFITALG+IWCPDH
Sbjct: 1549 GAGGKSAGAFGATSAPKRGRGILN-KAAGPGVRIPLCNSCNVQIRGPFITALGRIWCPDH 1607

Query: 138  FLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAP-----------DCLNAIGKHYHPE 186
            F+CV   C+RPLQDIGFVEE   LYCE+CFE+YLAP           DCLNAIGKH+HPE
Sbjct: 1608 FICVNGNCRRPLQDIGFVEEKGDLYCEYCFEKYLAPTCSKCAGKIKGDCLNAIGKHFHPE 1667

Query: 187  CFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHS 246
            CFTC  CGK+FGN PFFLE+G  YCE DWN+LFTTKCFACGFP+EAGDRWVEALN+NYHS
Sbjct: 1668 CFTCGQCGKIFGNRPFFLEDGNAYCEADWNELFTTKCFACGFPVEAGDRWVEALNHNYHS 1727

Query: 247  LCFNCS 252
             CFNC+
Sbjct: 1728 QCFNCT 1733

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|161077121|ref|NP_001027420.2| Z band alternatively spliced PDZ-motif protein 52, isoform F [Drosophila melanogaster] gi|313471772|sp|A1ZA47.2|ZASP_DROME RecName: Full=PDZ and LIM domain protein Zasp; AltName: Full=Z band alternatively spliced PDZ-motif protein gi|157400350|gb|AAZ52806.2| Z band alternatively spliced PDZ-motif protein 52, isoform F [Drosophila melanogaster]

 Score =  294 bits (753), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 131/186 (70%), Positives = 149/186 (80%), Gaps = 13/186 (6%)

Query: 79   GAGGK-GGSSGLTTAPRRGRGVLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPDH 137
            GAGGK  G+ G T+AP+RGRG+LN +   PG R+PLC  C  QIRGPFITALG+IWCPDH
Sbjct: 1985 GAGGKSAGAFGATSAPKRGRGILN-KAAGPGVRIPLCNSCNVQIRGPFITALGRIWCPDH 2043

Query: 138  FLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAP-----------DCLNAIGKHYHPE 186
            F+CV   C+RPLQDIGFVEE   LYCE+CFE+YLAP           DCLNAIGKH+HPE
Sbjct: 2044 FICVNGNCRRPLQDIGFVEEKGDLYCEYCFEKYLAPTCSKCAGKIKGDCLNAIGKHFHPE 2103

Query: 187  CFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHS 246
            CFTC  CGK+FGN PFFLE+G  YCE DWN+LFTTKCFACGFP+EAGDRWVEALN+NYHS
Sbjct: 2104 CFTCGQCGKIFGNRPFFLEDGNAYCEADWNELFTTKCFACGFPVEAGDRWVEALNHNYHS 2163

Query: 247  LCFNCS 252
             CFNC+
Sbjct: 2164 QCFNCT 2169

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

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	282
UNIPROTKB|Q7PTE3	2116	AGAP006901 "AGAP006901-PA" [An	0.578	0.077	0.731	5.1e-96
FB|FBgn0083919	2194	Zasp52 "Z band alternatively s	0.574	0.073	0.712	6.4e-96
UNIPROTKB|Q179D0	1172	AAEL005667 "AAEL005667-PA" [Ae	0.510	0.122	0.717	6.3e-88
UNIPROTKB|Q28WK7	2144	GA15635 "GA15635" [Drosophila	0.705	0.092	0.570	5.3e-86
UNIPROTKB|B0WXP3	2543	CpipJ_CPIJ012054 "LIM domain-b	0.510	0.056	0.705	6.9e-71
UNIPROTKB|G5EEL1	645	alp-1 "Protein ALP-1, isoform	0.560	0.244	0.561	3.3e-59
WB|WBGene00001132	1424	alp-1 [Caenorhabditis elegans	0.560	0.110	0.561	1.4e-56
UNIPROTKB|G5EFL5	1424	alp-1 "Protein ALP-1, isoform	0.560	0.110	0.561	1.4e-56
UNIPROTKB|E2QW94	586	LDB3 "Uncharacterized protein"	0.546	0.262	0.452	9.7e-46
UNIPROTKB|J9P0E5	705	LDB3 "Uncharacterized protein"	0.546	0.218	0.452	1.6e-44

UNIPROTKB|Q7PTE3 AGAP006901 "AGAP006901-PA" [Anopheles gambiae (taxid:7165)]

 Score = 740 (265.6 bits), Expect = 5.1e-96, Sum P(2) = 5.1e-96
 Identities = 128/175 (73%), Positives = 142/175 (81%)

Query:    90 TTAPRRGRGVLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPL 149
             T+AP RGRGV+N + + PG RVPLCG C QQIRGPFITALG+IWCPDHF+C    CKRPL
Sbjct:  1919 TSAPNRGRGVMN-KAVGPGGRVPLCGCCQQQIRGPFITALGRIWCPDHFICHNANCKRPL 1977

Query:   150 QDIGFVEEDSGLYCEFCFEQYLAP-----------DCLNAIGKHYHPECFTCAYCGKLFG 198
              DIGFVEE   LYCE+CFE++LAP           DCLNAIGK +HPECF C YCGK FG
Sbjct:  1978 ADIGFVEEKGDLYCEYCFEEFLAPLCSKCNGRVKGDCLNAIGKQFHPECFKCTYCGKQFG 2037

Query:   199 NNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSS 253
             N+PFFLEEG PYCE DWNDLFTTKCFACGFP+EAGD+WVEALNNNYHS CFNC+S
Sbjct:  2038 NSPFFLEEGDPYCEKDWNDLFTTKCFACGFPVEAGDKWVEALNNNYHSQCFNCTS 2092

GO:0001952 "regulation of cell-matrix adhesion" evidence=ISS

GO:0015629 "actin cytoskeleton" evidence=ISS

GO:0051371 "muscle alpha-actinin binding" evidence=ISS

FB|FBgn0083919 Zasp52 "Z band alternatively spliced PDZ-motif protein 52" [Drosophila melanogaster (taxid:7227)]

 Score = 728 (261.3 bits), Expect = 6.4e-96, Sum P(3) = 6.4e-96
 Identities = 124/174 (71%), Positives = 141/174 (81%)

Query:    90 TTAPRRGRGVLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPL 149
             T+AP+RGRG+LN +   PG R+PLC  C  QIRGPFITALG+IWCPDHF+CV   C+RPL
Sbjct:  1997 TSAPKRGRGILN-KAAGPGVRIPLCNSCNVQIRGPFITALGRIWCPDHFICVNGNCRRPL 2055

Query:   150 QDIGFVEEDSGLYCEFCFEQYLAP-----------DCLNAIGKHYHPECFTCAYCGKLFG 198
             QDIGFVEE   LYCE+CFE+YLAP           DCLNAIGKH+HPECFTC  CGK+FG
Sbjct:  2056 QDIGFVEEKGDLYCEYCFEKYLAPTCSKCAGKIKGDCLNAIGKHFHPECFTCGQCGKIFG 2115

Query:   199 NNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
             N PFFLE+G  YCE DWN+LFTTKCFACGFP+EAGDRWVEALN+NYHS CFNC+
Sbjct:  2116 NRPFFLEDGNAYCEADWNELFTTKCFACGFPVEAGDRWVEALNHNYHSQCFNCT 2169

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0030018 "Z disc" evidence=IDA

GO:0005927 "muscle tendon junction" evidence=IDA

GO:0061061 "muscle structure development" evidence=IMP

UNIPROTKB|Q179D0 AAEL005667 "AAEL005667-PA" [Aedes aegypti (taxid:7159)]

 Score = 656 (236.0 bits), Expect = 6.3e-88, Sum P(2) = 6.3e-88
 Identities = 112/156 (71%), Positives = 127/156 (81%)

Query:   110 RVPLCGQCYQQI-RGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFE 168
             +VP+C +C  +I  GPFITALG+IWCPDHF+C    CKRPL DIGFVEE   LYCE+CFE
Sbjct:   993 KVPICNKCNHKIVTGPFITALGRIWCPDHFICHNGNCKRPLADIGFVEEKGDLYCEYCFE 1052

Query:   169 QYLAP-----------DCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWND 217
             ++LAP           DCLNAIGK +HPECF CAYCGKLFGN+PFFLEEG PYCE DWN+
Sbjct:  1053 EFLAPVCSKCNTRVKGDCLNAIGKQFHPECFKCAYCGKLFGNSPFFLEEGDPYCEADWNE 1112

Query:   218 LFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSS 253
             LFTTKCFACGFP+EAGD+WVEALNNNYHS CFNC+S
Sbjct:  1113 LFTTKCFACGFPVEAGDKWVEALNNNYHSQCFNCTS 1148

GO:0001952 "regulation of cell-matrix adhesion" evidence=ISS

GO:0015629 "actin cytoskeleton" evidence=ISS

GO:0051371 "muscle alpha-actinin binding" evidence=ISS

UNIPROTKB|Q28WK7 GA15635 "GA15635" [Drosophila pseudoobscura pseudoobscura (taxid:46245)]

 Score = 661 (237.7 bits), Expect = 5.3e-86, Sum P(2) = 5.3e-86
 Identities = 122/214 (57%), Positives = 144/214 (67%)

Query:    52 NYTPANSEVLKMVQEADQEPRSPE-PXXXXXXXXXXXXLTTAPRRGRGVLNPQNLAPGAR 110
             N TP  +     +Q+ +QE  +P                 T        ++ Q L  G R
Sbjct:  1908 NVTPTATATNSSIQQHNQESAAPSFSVSVKALGPHSEGQNTMSEENEKAVS-QLLKDGKR 1966

Query:   111 VPLCGQCYQQIR-GPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQ 169
              P+C QC ++I  GPFITALG+IWCPDHF+CV   C+RPLQDIGFVEE   LYCE+CFE+
Sbjct:  1967 -PICCQCNKEITSGPFITALGRIWCPDHFICVNGNCRRPLQDIGFVEEKGDLYCEYCFEK 2025

Query:   170 YLAP-----------DCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDL 218
             YLAP           DCLNAIGKH+HPECFTC  CGK+FGN PFFLE+G  YCE DWN+L
Sbjct:  2026 YLAPTCSKCAGKIKGDCLNAIGKHFHPECFTCGQCGKVFGNRPFFLEDGNAYCEADWNEL 2085

Query:   219 FTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
             FTTKCFACGFP+EAGDRWVEALN+NYHS CFNC+
Sbjct:  2086 FTTKCFACGFPVEAGDRWVEALNHNYHSQCFNCT 2119

GO:0001952 "regulation of cell-matrix adhesion" evidence=ISS

GO:0015629 "actin cytoskeleton" evidence=ISS

GO:0051371 "muscle alpha-actinin binding" evidence=ISS

UNIPROTKB|B0WXP3 CpipJ_CPIJ012054 "LIM domain-binding protein" [Culex quinquefasciatus (taxid:7176)]

 Score = 648 (233.2 bits), Expect = 6.9e-71, Sum P(2) = 6.9e-71
 Identities = 110/156 (70%), Positives = 125/156 (80%)

Query:   110 RVPLCGQCYQQIR-GPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFE 168
             +VP+C +C  +I  GPFITALG+IWCPDHF+C    CKRPL DIGFVEE   LYCE+CFE
Sbjct:  2364 KVPICNKCNHKITTGPFITALGRIWCPDHFICHNGNCKRPLADIGFVEEKGDLYCEYCFE 2423

Query:   169 QYLAP-----------DCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWND 217
             ++LAP           DCLNAIGK +HPECF C YCGK FGN+PFFLEEG PYCE DWN+
Sbjct:  2424 EFLAPVCSKCNARVKGDCLNAIGKQFHPECFKCTYCGKQFGNSPFFLEEGDPYCETDWNE 2483

Query:   218 LFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSS 253
             LFTTKCFACGFP+EAGD+WVEALNNNYHS CFNC+S
Sbjct:  2484 LFTTKCFACGFPVEAGDKWVEALNNNYHSQCFNCTS 2519

GO:0001952 "regulation of cell-matrix adhesion" evidence=ISS

GO:0015629 "actin cytoskeleton" evidence=ISS

GO:0051371 "muscle alpha-actinin binding" evidence=ISS

UNIPROTKB|G5EEL1 alp-1 "Protein ALP-1, isoform b" [Caenorhabditis elegans (taxid:6239)]

 Score = 541 (195.5 bits), Expect = 3.3e-59, Sum P(2) = 3.3e-59
 Identities = 96/171 (56%), Positives = 114/171 (66%)

Query:    95 RGRGVLNPQNLAP--GARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDI 152
             RG G L         G R P C  C QQIRG F+ A GK WCP+HF+C    C+R L + 
Sbjct:   451 RGTGHLTTTTTTQQNGGRAPFCESCKQQIRGAFVLATGKSWCPEHFVCANSSCRRRLLEC 510

Query:   153 GFVEEDSGLYCEFCFEQYLAP-----------DCLNAIGKHYHPECFTCAYCGKLFGNNP 201
             GFVEED   +CE CFEQ++AP           DCLNA+ K +HP CFTCA+C K FGN+ 
Sbjct:   511 GFVEEDGQKFCESCFEQHIAPRCNKCSKPIISDCLNALQKKWHPTCFTCAHCQKPFGNSA 570

Query:   202 FFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
             F+LE+GLPYCE DWN LFTTKC +C +PIEAGDRWVEAL N +HS CF C+
Sbjct:   571 FYLEQGLPYCEQDWNALFTTKCVSCRYPIEAGDRWVEALGNAFHSNCFTCA 621

GO:0005515 "protein binding" evidence=IPI

WB|WBGene00001132 alp-1 [Caenorhabditis elegans (taxid:6239)]

 Score = 541 (195.5 bits), Expect = 1.4e-56, Sum P(2) = 1.4e-56
 Identities = 96/171 (56%), Positives = 114/171 (66%)

Query:    95 RGRGVLNPQNLAP--GARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDI 152
             RG G L         G R P C  C QQIRG F+ A GK WCP+HF+C    C+R L + 
Sbjct:  1230 RGTGHLTTTTTTQQNGGRAPFCESCKQQIRGAFVLATGKSWCPEHFVCANSSCRRRLLEC 1289

Query:   153 GFVEEDSGLYCEFCFEQYLAP-----------DCLNAIGKHYHPECFTCAYCGKLFGNNP 201
             GFVEED   +CE CFEQ++AP           DCLNA+ K +HP CFTCA+C K FGN+ 
Sbjct:  1290 GFVEEDGQKFCESCFEQHIAPRCNKCSKPIISDCLNALQKKWHPTCFTCAHCQKPFGNSA 1349

Query:   202 FFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
             F+LE+GLPYCE DWN LFTTKC +C +PIEAGDRWVEAL N +HS CF C+
Sbjct:  1350 FYLEQGLPYCEQDWNALFTTKCVSCRYPIEAGDRWVEALGNAFHSNCFTCA 1400

GO:0008270 "zinc ion binding" evidence=IEA

GO:0040011 "locomotion" evidence=IMP

GO:0043050 "pharyngeal pumping" evidence=IMP

GO:0008340 "determination of adult lifespan" evidence=IMP

GO:0055120 "striated muscle dense body" evidence=IDA

UNIPROTKB|G5EFL5 alp-1 "Protein ALP-1, isoform d" [Caenorhabditis elegans (taxid:6239)]

 Score = 541 (195.5 bits), Expect = 1.4e-56, Sum P(2) = 1.4e-56
 Identities = 96/171 (56%), Positives = 114/171 (66%)

Query:    95 RGRGVLNPQNLAP--GARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDI 152
             RG G L         G R P C  C QQIRG F+ A GK WCP+HF+C    C+R L + 
Sbjct:  1230 RGTGHLTTTTTTQQNGGRAPFCESCKQQIRGAFVLATGKSWCPEHFVCANSSCRRRLLEC 1289

Query:   153 GFVEEDSGLYCEFCFEQYLAP-----------DCLNAIGKHYHPECFTCAYCGKLFGNNP 201
             GFVEED   +CE CFEQ++AP           DCLNA+ K +HP CFTCA+C K FGN+ 
Sbjct:  1290 GFVEEDGQKFCESCFEQHIAPRCNKCSKPIISDCLNALQKKWHPTCFTCAHCQKPFGNSA 1349

Query:   202 FFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
             F+LE+GLPYCE DWN LFTTKC +C +PIEAGDRWVEAL N +HS CF C+
Sbjct:  1350 FYLEQGLPYCEQDWNALFTTKCVSCRYPIEAGDRWVEALGNAFHSNCFTCA 1400

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|E2QW94 LDB3 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 420 (152.9 bits), Expect = 9.7e-46, Sum P(2) = 9.7e-46
 Identities = 76/168 (45%), Positives = 105/168 (62%)

Query:    97 RGVLNPQNLAPGA-RVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFV 155
             RG++      P + R PLCG C   IRGPF+ A+G+ W P+ F C    CK  L D+ FV
Sbjct:   392 RGIVQRAERFPASSRTPLCGHCNNVIRGPFLVAMGRSWHPEEFNCA--YCKTSLADVCFV 449

Query:   156 EEDSGLYCEFCFEQYLAPDC-----------LNAIGKHYHPECFTCAYCGKLFGNNPFFL 204
             EE S +YCE C+EQ+ AP C           ++A+ + +H  CF CA C K FGN+ F +
Sbjct:   450 EEQSNVYCERCYEQFFAPICAKCNTKIMGEVMHALRQTWHTTCFVCAACKKPFGNSLFHM 509

Query:   205 EEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
             E+G PYCE D+ +LF+TKC  C FP+EAGD+++EAL + +H  CF C+
Sbjct:   510 EDGEPYCEKDYVNLFSTKCHGCDFPVEAGDKFIEALGHTWHDTCFICA 557

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|J9P0E5 LDB3 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 420 (152.9 bits), Expect = 1.6e-44, Sum P(2) = 1.6e-44
 Identities = 76/168 (45%), Positives = 105/168 (62%)

Query:    97 RGVLNPQNLAPGA-RVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFV 155
             RG++      P + R PLCG C   IRGPF+ A+G+ W P+ F C    CK  L D+ FV
Sbjct:   511 RGIVQRAERFPASSRTPLCGHCNNVIRGPFLVAMGRSWHPEEFNCA--YCKTSLADVCFV 568

Query:   156 EEDSGLYCEFCFEQYLAPDC-----------LNAIGKHYHPECFTCAYCGKLFGNNPFFL 204
             EE S +YCE C+EQ+ AP C           ++A+ + +H  CF CA C K FGN+ F +
Sbjct:   569 EEQSNVYCERCYEQFFAPICAKCNTKIMGEVMHALRQTWHTTCFVCAACKKPFGNSLFHM 628

Query:   205 EEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
             E+G PYCE D+ +LF+TKC  C FP+EAGD+++EAL + +H  CF C+
Sbjct:   629 EDGEPYCEKDYVNLFSTKCHGCDFPVEAGDKFIEALGHTWHDTCFICA 676

GO:0008270 "zinc ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
A1ZA47	ZASP_DROME	No assigned EC number	0.7043	0.6134	0.0788	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	282
cd09455	54	cd09455, LIM1_Enigma_like_1, The first LIM domain	5e-29
cd09361	52	cd09361, LIM1_Enigma_like, The first LIM domain of	4e-16
cd09461	54	cd09461, LIM3_Enigma_like_1, The third LIM domain	3e-14
cd09453	52	cd09453, LIM1_ENH, The first LIM domain of the Eni	7e-14
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	8e-12
cd09363	54	cd09363, LIM3_Enigma_like, The third LIM domain of	2e-11
cd09454	52	cd09454, LIM1_ZASP_Cypher, The first LIM domain of	6e-11
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	1e-10
cd09336	53	cd09336, LIM1_Paxillin_like, The first LIM domain	3e-10
cd09362	52	cd09362, LIM2_Enigma_like, The second LIM domain o	6e-10
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	9e-10
pfam00412	58	pfam00412, LIM, LIM domain	2e-09
cd09452	52	cd09452, LIM1_Enigma, The first LIM domain of Enig	2e-09
cd09336	53	cd09336, LIM1_Paxillin_like, The first LIM domain	5e-09
cd09337	52	cd09337, LIM2_Paxillin_like, The second LIM domain	7e-09
cd09337	52	cd09337, LIM2_Paxillin_like, The second LIM domain	8e-09
cd09334	54	cd09334, LIM4_PINCH, The fourth LIM domain of prot	8e-09
cd09338	53	cd09338, LIM3_Paxillin_like, The third LIM domain	1e-08
smart00735	26	smart00735, ZM, ZASP-like motif	2e-08
cd09406	55	cd09406, LIM1_Leupaxin, The first LIM domain of Le	3e-08
cd09456	52	cd09456, LIM2_Enigma, The second LIM domain of Eni	5e-08
cd09334	54	cd09334, LIM4_PINCH, The fourth LIM domain of prot	2e-07
cd09457	52	cd09457, LIM2_ENH, The second LIM domain of the En	2e-07
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	7e-07
cd09361	52	cd09361, LIM1_Enigma_like, The first LIM domain of	1e-06
cd09406	55	cd09406, LIM1_Leupaxin, The first LIM domain of Le	1e-06
cd09408	52	cd09408, LIM2_Leupaxin, The second LIM domain of L	1e-06
cd09396	53	cd09396, LIM_DA1, The Lim domain of DA1	1e-06
cd09412	52	cd09412, LIM4_Leupaxin, The fourth LIM domain of L	2e-06
cd09339	52	cd09339, LIM4_Paxillin_like, The fourth LIM domain	2e-06
cd09405	54	cd09405, LIM1_Paxillin, The first LIM domain of pa	3e-06
cd09459	55	cd09459, LIM3_ENH, The third LIM domain of the Eni	4e-06
cd09353	60	cd09353, LIM2_Zyxin, The second LIM domain of Zyxi	4e-06
cd09405	54	cd09405, LIM1_Paxillin, The first LIM domain of pa	5e-06
cd09331	59	cd09331, LIM1_PINCH, The first LIM domain of prote	7e-06
cd09412	52	cd09412, LIM4_Leupaxin, The fourth LIM domain of L	2e-05
cd09409	53	cd09409, LIM3_Paxillin, The third LIM domain of pa	2e-05
cd09392	53	cd09392, LIM2_Lrg1p_like, The second LIM domain of	2e-05
pfam00412	58	pfam00412, LIM, LIM domain	3e-05
cd09330	56	cd09330, LIM4_abLIM, The fourth LIM domain of acti	3e-05
cd09328	56	cd09328, LIM2_abLIM, The second LIM domain on acti	3e-05
cd09372	53	cd09372, LIM2_FBLP-1, The second LIM domain of the	4e-05
cd09460	55	cd09460, LIM3_ZASP_Cypher, The third LIM domain of	4e-05
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	5e-05
cd09351	54	cd09351, LIM1_LPP, The first LIM domain of lipoma	5e-05
cd09452	52	cd09452, LIM1_Enigma, The first LIM domain of Enig	6e-05
cd09327	52	cd09327, LIM1_abLIM, The first LIM domain of actin	7e-05
cd09410	53	cd09410, LIM3_Leupaxin, The third LIM domain of Le	8e-05
cd09407	52	cd09407, LIM2_Paxillin, The second LIM domain of p	1e-04
cd09329	52	cd09329, LIM3_abLIM, The third LIM domain of actin	1e-04
cd09354	60	cd09354, LIM2_LPP, The second LIM domain of lipoma	2e-04
cd09387	55	cd09387, LIM2_LMO4, The second LIM domain of LMO4	2e-04
cd09458	55	cd09458, LIM3_Enigma, The third LIM domain of Enig	2e-04
cd09392	53	cd09392, LIM2_Lrg1p_like, The second LIM domain of	3e-04
cd09411	52	cd09411, LIM4_Paxillin, The fourth LIM domain of P	4e-04
cd09391	57	cd09391, LIM1_Lrg1p_like, The first LIM domain of	5e-04
cd09363	54	cd09363, LIM3_Enigma_like, The third LIM domain of	6e-04
cd09454	52	cd09454, LIM1_ZASP_Cypher, The first LIM domain of	6e-04
cd09457	52	cd09457, LIM2_ENH, The second LIM domain of the En	7e-04
cd09355	53	cd09355, LIM2_Ajuba_like, The second LIM domain of	7e-04
cd09408	52	cd09408, LIM2_Leupaxin, The second LIM domain of L	0.001
cd09411	52	cd09411, LIM4_Paxillin, The fourth LIM domain of P	0.001
cd09352	54	cd09352, LIM1_Ajuba_like, The first LIM domain of	0.001
cd09349	87	cd09349, LIM1_Zyxin, The first LIM domain of Zyxin	0.001
cd09418	56	cd09418, LIM2_Prickle, The second LIM domain of Pr	0.001
cd09360	52	cd09360, LIM_ALP_like, The LIM domain of ALP (acti	0.001
cd09461	54	cd09461, LIM3_Enigma_like_1, The third LIM domain	0.002
cd09396	53	cd09396, LIM_DA1, The Lim domain of DA1	0.002
cd09451	53	cd09451, LIM_RIL, The LIM domain of RIL	0.002
cd09356	53	cd09356, LIM2_TRIP6, The second LIM domain of Thyr	0.002
cd09350	54	cd09350, LIM1_TRIP6, The first LIM domain of Thyro	0.002
cd09332	52	cd09332, LIM2_PINCH, The second LIM domain of prot	0.002
cd09453	52	cd09453, LIM1_ENH, The first LIM domain of the Eni	0.003
cd09339	52	cd09339, LIM4_Paxillin_like, The fourth LIM domain	0.003
cd09409	53	cd09409, LIM3_Paxillin, The third LIM domain of pa	0.003
cd09345	54	cd09345, LIM2_FHL, The second LIM domain of Four a	0.003
cd09375	56	cd09375, LIM2_Lhx1_Lhx5, The second LIM domain of	0.003
cd09439	55	cd09439, LIM_Mical, The LIM domain of Mical (molec	0.003
cd09335	54	cd09335, LIM5_PINCH, The fifth LIM domain of prote	0.003
cd09341	56	cd09341, LIM2_Testin_like, The second LIM domain o	0.003
cd09340	58	cd09340, LIM1_Testin_like, The first LIM domain of	0.004

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

 Score =  104 bits (261), Expect = 5e-29
 Identities = 41/54 (75%), Positives = 44/54 (81%)

Query: 114 CGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCF 167
           C  C QQIRGPFITALGKIWCPDHF+C    C+RPLQDIGFVEE   LYCE+CF
Sbjct: 1   CESCNQQIRGPFITALGKIWCPDHFICANASCRRPLQDIGFVEEKGQLYCEYCF 54

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

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

 Score = 70.5 bits (173), Expect = 4e-16
 Identities = 28/54 (51%), Positives = 33/54 (61%), Gaps = 2/54 (3%)

Query: 114 CGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCF 167
           C  C Q IRGPF+ ALG+ W P+ F C    C   L +IGFVEE   LYCE C+
Sbjct: 1   CAHCNQVIRGPFLVALGRSWHPEEFTC--SHCHCSLAEIGFVEEKGSLYCELCY 52

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

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

 Score = 65.7 bits (160), Expect = 3e-14
 Identities = 26/31 (83%), Positives = 28/31 (90%)

Query: 223 CFACGFPIEAGDRWVEALNNNYHSLCFNCSS 253
           C +CGFPIEAGDRWVEALNNNYHS CFNC+ 
Sbjct: 1   CVSCGFPIEAGDRWVEALNNNYHSQCFNCTR 31

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

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

 Score = 64.3 bits (156), Expect = 7e-14
 Identities = 29/54 (53%), Positives = 33/54 (61%), Gaps = 2/54 (3%)

Query: 114 CGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCF 167
           C  C Q IRGPF+ ALGK W P+ F C    CK  +  IGFVEE   LYCE C+
Sbjct: 1   CATCNQVIRGPFLVALGKSWHPEEFNCA--HCKSSMAYIGFVEEKGALYCEICY 52

The first LIM domain of the Enigma Homolog (ENH) family: ENH was initially identified in rat brain. Same as enigma, it contains three LIM domains at the C-terminus and a PDZ domain at N-terminus. ENH is implicated in signal transduction processes involving protein kinases. It has also been shown that ENH interacts with protein kinase D1 (PKD1) via its LIM domains and forms a complex with PKD1 and the alpha1C subunit of cardiac L-type voltage-gated calcium channel in rat neonatal cardiomyocytes. The N-terminal PDZ domain interacts with alpha-actinin at the Z-line. ENH is expressed in multiple tissues, such as skeletal muscle, heart, bone, and brain. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

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

 Score = 58.9 bits (143), Expect = 8e-12
 Identities = 22/53 (41%), Positives = 32/53 (60%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDW 215
           C  C +     + L A+GK +HPECF C+ CGK  G + F+ ++G PYCE  +
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|188749 cd09363, LIM3_Enigma_like, The third LIM domain of Enigma-like family

 Score = 57.8 bits (140), Expect = 2e-11
 Identities = 17/30 (56%), Positives = 22/30 (73%)

Query: 223 CFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
           C  C FPIEAGDR++EAL + +H  CF C+
Sbjct: 1   CHGCDFPIEAGDRFLEALGHTWHDTCFVCA 30

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

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

 Score = 56.5 bits (136), Expect = 6e-11
 Identities = 26/54 (48%), Positives = 33/54 (61%), Gaps = 2/54 (3%)

Query: 114 CGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCF 167
           CG C   IRGPF+ ALG+ W P+ F C    C   L D+ FVEE + +YCE C+
Sbjct: 1   CGHCNNIIRGPFLVALGRSWHPEEFTCH--YCHTSLADVSFVEEQNNVYCENCY 52

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

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

 Score = 55.5 bits (134), Expect = 1e-10
 Identities = 21/53 (39%), Positives = 30/53 (56%), Gaps = 1/53 (1%)

Query: 163 CEFCFEQYLAPDC-LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCEND 214
           C  C +     +  L A+GK +HPECF CA CGK    + FF ++G  YC++ 
Sbjct: 2   CAGCGKPIYGTERVLRALGKVWHPECFKCATCGKPLSGDTFFEKDGKLYCKDC 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|188722 cd09336, LIM1_Paxillin_like, The first LIM domain of the paxillin like protein family

 Score = 54.6 bits (132), Expect = 3e-10
 Identities = 19/42 (45%), Positives = 25/42 (59%)

Query: 175 CLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWN 216
            + A+GK +HPE F CA C    G   FF  +G PYCE D++
Sbjct: 12  VVTALGKTWHPEHFVCAECKTELGTKNFFERDGQPYCEKDYH 53

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

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

 Score = 53.6 bits (129), Expect = 6e-10
 Identities = 17/40 (42%), Positives = 27/40 (67%)

Query: 176 LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDW 215
           ++A+ + +H  CF CA C +  GN+ F +E+G PYCE D+
Sbjct: 13  MHALKQTWHVSCFVCAACKQPIGNSLFHMEDGEPYCEKDY 52

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

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

 Score = 53.1 bits (128), Expect = 9e-10
 Identities = 22/55 (40%), Positives = 28/55 (50%), Gaps = 3/55 (5%)

Query: 114 CGQCYQQIRGPFI-TALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCF 167
           C  C + I G  +  ALGK W P+ F C    C +PL    F E+D   YCE C+
Sbjct: 1   CAGCGKPIEGRELLRALGKKWHPECFKCS--VCGKPLGGDSFYEKDGKPYCEKCY 53

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

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

 Score = 52.3 bits (126), Expect = 2e-09
 Identities = 22/45 (48%), Positives = 29/45 (64%)

Query: 175 CLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLF 219
              A+GK +HPECF CA CGK  G   FF ++G  YC++D+  LF
Sbjct: 14  VRRALGKVWHPECFRCAVCGKPLGPGDFFEKDGKLYCKHDYFKLF 58

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

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

 Score = 52.1 bits (125), Expect = 2e-09
 Identities = 22/54 (40%), Positives = 33/54 (61%), Gaps = 2/54 (3%)

Query: 114 CGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCF 167
           C QC + IRG ++ ALG+ + P+ F C   QCK+ L + GF EE   ++C  C+
Sbjct: 1   CAQCNKIIRGRYLVALGRSYHPEEFTCS--QCKKVLDEGGFFEEKGSIFCPKCY 52

The first LIM domain of Enigma: Enigma was initially characterized in humans as a protein containing three LIM domains at the C-terminus and a PDZ domain at N-terminus. The third LIM domain specifically interacts with the insulin receptor and the second LIM domain interacts with the receptor tyrosine kinase Ret and the adaptor protein APS. Thus Enigma is implicated in signal transduction processes such as mitogenic activity, insulin related actin organization, and glucose metabolism. Enigma is expressed in multiple tissues, such as skeletal muscle, heart, bone and brain. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

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

 Score = 50.8 bits (122), Expect = 5e-09
 Identities = 23/54 (42%), Positives = 29/54 (53%), Gaps = 2/54 (3%)

Query: 114 CGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCF 167
           C  C + I G  +TALGK W P+HF+C   +CK  L    F E D   YCE  +
Sbjct: 1   CAACKKPIVGQVVTALGKTWHPEHFVCA--ECKTELGTKNFFERDGQPYCEKDY 52

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

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

 Score = 50.5 bits (121), Expect = 7e-09
 Identities = 22/53 (41%), Positives = 31/53 (58%), Gaps = 1/53 (1%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDW 215
           C +C    +   C+ A+ K +HPE F CA CGK FG+  F  ++G PYC  D+
Sbjct: 1   CAYC-NGPILDKCVTALDKTWHPEHFFCAQCGKPFGDEGFHEKDGKPYCREDY 52

The second LIM domain of the paxillin like protein family: This family consists of paxillin, leupaxin, Hic-5 (ARA55), and other related proteins. There are four LIM domains in the C-terminal of the proteins and leucine-rich LD-motifs in the N-terminal region. Members of this family are adaptor proteins to recruit key components of signal-transduction machinery to specific sub-cellular locations. Paxillin is found at the interface between the plasma membrane and the actin cytoskeleton. Paxillin serves as a platform for the recruitment of numerous regulatory and structural proteins that together control the dynamic changes in cell adhesion, cytoskeletal reorganization and gene expression that are necessary for cell migration and survival. Leupaxin is a cytoskeleton adaptor protein, which is preferentially expressed in hematopoietic cells. It associates with focal adhesion kinases PYK2 and pp125FAK and identified to be a component of the osteoclast pososomal signaling complex. Hic-5 controls cell proliferation, migration and senescence by functioning as coactivator for steroid receptors such as androgen receptor, glucocorticoid receptor and progesterone receptor. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

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

 Score = 50.5 bits (121), Expect = 8e-09
 Identities = 22/50 (44%), Positives = 26/50 (52%), Gaps = 2/50 (4%)

Query: 114 CGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYC 163
           C  C   I    +TAL K W P+HF C   QC +P  D GF E+D   YC
Sbjct: 1   CAYCNGPILDKCVTALDKTWHPEHFFCA--QCGKPFGDEGFHEKDGKPYC 48

The second LIM domain of the paxillin like protein family: This family consists of paxillin, leupaxin, Hic-5 (ARA55), and other related proteins. There are four LIM domains in the C-terminal of the proteins and leucine-rich LD-motifs in the N-terminal region. Members of this family are adaptor proteins to recruit key components of signal-transduction machinery to specific sub-cellular locations. Paxillin is found at the interface between the plasma membrane and the actin cytoskeleton. Paxillin serves as a platform for the recruitment of numerous regulatory and structural proteins that together control the dynamic changes in cell adhesion, cytoskeletal reorganization and gene expression that are necessary for cell migration and survival. Leupaxin is a cytoskeleton adaptor protein, which is preferentially expressed in hematopoietic cells. It associates with focal adhesion kinases PYK2 and pp125FAK and identified to be a component of the osteoclast pososomal signaling complex. Hic-5 controls cell proliferation, migration and senescence by functioning as coactivator for steroid receptors such as androgen receptor, glucocorticoid receptor and progesterone receptor. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

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

 Score = 50.4 bits (121), Expect = 8e-09
 Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 1/54 (1%)

Query: 162 YCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDW 215
            C  C         + A+GKH+H E F CA C K F  +  + ++GL YCE  +
Sbjct: 2   ICGACRRPIEGR-VVTALGKHWHVEHFVCAKCEKPFLGHRHYEKKGLAYCETHY 54

The fourth LIM domain of protein PINCH: PINCH plays a pivotal role in the assembly of focal adhesions (FAs), regulating diverse functions in cell adhesion, growth, and differentiation through LIM-mediated protein-protein interactions. PINCH comprises an array of five LIM domains that interact with integrin-linked kinase (ILK), Nck2 (also called Nckbeta or Grb4) and other interaction partners. These interactions are essential for triggering the FA assembly and for relaying diverse mechanical and biochemical signals between Cell-extracellular matrix and the actin cytoskeleton. The PINCH LIM4 domain recognizes the third SH3 domain of another adaptor protein, Nck2. This step is an important component of integrin signaling event. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assem bly of multimeric protein complexes. Length = 54

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

 Score = 49.6 bits (119), Expect = 1e-08
 Identities = 20/38 (52%), Positives = 24/38 (63%)

Query: 176 LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCEN 213
           ++A+   +HPECF C  C K F N  FF  EGLPYCE 
Sbjct: 13  ISALNTQWHPECFVCRECHKPFINGSFFEHEGLPYCET 50

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

>gnl|CDD|128974 smart00735, ZM, ZASP-like motif

 Score = 49.1 bits (118), Expect = 2e-08
 Identities = 17/26 (65%), Positives = 23/26 (88%)

Query: 8  QLVNKQYNSPVGIYSEESIAETLSAQ 33
          ++V+KQYNSP+G+YS E+IAETL  Q
Sbjct: 1  RVVHKQYNSPIGLYSSENIAETLQGQ 26

Short motif (26 amino acids) present in an alpha-actinin-binding protein, ZASP, and similar molecules. Length = 26

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

 Score = 49.1 bits (117), Expect = 3e-08
 Identities = 19/39 (48%), Positives = 25/39 (64%)

Query: 178 AIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWN 216
           A+G+ +HPE F C  CGK  G+ PFF   G  YCE D++
Sbjct: 17  ALGQTWHPEHFVCCQCGKELGSRPFFERNGQAYCEEDYH 55

The first LIM domain of Leupaxin: Leupaxin is a cytoskeleton adaptor protein, which is preferentially expressed in hematopoietic cells. Leupaxin belongs to the paxillin focal adhesion protein family. Same as other members of the family, it has four leucine-rich LD-motifs in the N-terminus and four LIM domains in the C-terminus. It may function in cell type-specific signaling by associating with interaction partners PYK2, FAK, PEP and p95PKL. When expressed in human leukocytic cells, leupaxin significantly suppressed integrin-mediated cell adhesion to fibronectin and the tyrosine phosphorylation of paxillin. These findings indicate that leupaxin may negatively regulate the functions of paxillin during integrin signaling. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 55

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

 Score = 48.1 bits (114), Expect = 5e-08
 Identities = 18/40 (45%), Positives = 25/40 (62%)

Query: 176 LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDW 215
           ++A+   +H  CFTCA C     N  F++EEG PYCE D+
Sbjct: 13  MHALKMTWHVHCFTCAACKTPIRNRAFYMEEGAPYCERDY 52

The second LIM domain of Enigma: Enigma was initially characterized in humans as a protein containing three LIM domains at the C-terminus and a PDZ domain at N-terminus. The third LIM domain specifically interacts with the insulin receptor and the second LIM domain interacts with the receptor tyrosine kinase Ret and the adaptor protein APS. Thus Enigma is implicated in signal transduction processes, such as mitogenic activity, insulin related actin organization, and glucose metabolism. Enigma is expressed in multiple tissues, such as skeletal muscle, heart, bone and brain. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

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

 Score = 46.6 bits (111), Expect = 2e-07
 Identities = 21/53 (39%), Positives = 30/53 (56%), Gaps = 2/53 (3%)

Query: 112 PLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCE 164
           P+CG C + I G  +TALGK W  +HF+C +  C++P       E+    YCE
Sbjct: 1   PICGACRRPIEGRVVTALGKHWHVEHFVCAK--CEKPFLGHRHYEKKGLAYCE 51

The fourth LIM domain of protein PINCH: PINCH plays a pivotal role in the assembly of focal adhesions (FAs), regulating diverse functions in cell adhesion, growth, and differentiation through LIM-mediated protein-protein interactions. PINCH comprises an array of five LIM domains that interact with integrin-linked kinase (ILK), Nck2 (also called Nckbeta or Grb4) and other interaction partners. These interactions are essential for triggering the FA assembly and for relaying diverse mechanical and biochemical signals between Cell-extracellular matrix and the actin cytoskeleton. The PINCH LIM4 domain recognizes the third SH3 domain of another adaptor protein, Nck2. This step is an important component of integrin signaling event. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assem bly of multimeric protein complexes. Length = 54

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

 Score = 46.6 bits (110), Expect = 2e-07
 Identities = 21/53 (39%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDW 215
           C  C  + L  + +NA+ + +H  CF C  C     NN F LE+G PYCE D+
Sbjct: 1   CGRCQRKILG-EVINALKQTWHVSCFVCVACHNPIRNNVFHLEDGEPYCETDY 52

The second LIM domain of the Enigma Homolog (ENH) family: ENH was initially identified in rat brain. Same as enigma, it contains three LIM domains at the C-terminus and a PDZ domain at N-terminus. ENH is implicated in signal transduction processes involving protein kinases. It has also been shown that ENH interacts with protein kinase D1 (PKD1) via its LIM domains and forms a complex with PKD1 and the alpha1C subunit of cardiac L-type voltage-gated calcium channel in rat neonatal cardiomyocytes. The N-terminal PDZ domain interacts with alpha-actinin at the Z-line. ENH is expressed in multiple tissues, such as skeletal muscle, heart, bone, and brain. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

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

 Score = 45.1 bits (107), Expect = 7e-07
 Identities = 22/55 (40%), Positives = 29/55 (52%), Gaps = 4/55 (7%)

Query: 114 CGQCYQQIRG--PFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFC 166
           C  C + I G    + ALGK+W P+ F C    C +PL    F E+D  LYC+ C
Sbjct: 2   CAGCGKPIYGTERVLRALGKVWHPECFKCA--TCGKPLSGDTFFEKDGKLYCKDC 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|188747 cd09361, LIM1_Enigma_like, The first LIM domain of Enigma-like family

 Score = 44.3 bits (105), Expect = 1e-06
 Identities = 19/51 (37%), Positives = 26/51 (50%), Gaps = 1/51 (1%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCEN 213
           C  C  Q +    L A+G+ +HPE FTC++C        F  E+G  YCE 
Sbjct: 1   CAHC-NQVIRGPFLVALGRSWHPEEFTCSHCHCSLAEIGFVEEKGSLYCEL 50

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

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

 Score = 44.5 bits (105), Expect = 1e-06
 Identities = 21/51 (41%), Positives = 28/51 (54%), Gaps = 2/51 (3%)

Query: 114 CGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCE 164
           C  C + I G  +TALG+ W P+HF+C   QC + L    F E +   YCE
Sbjct: 3   CASCQKPIAGQVVTALGQTWHPEHFVCC--QCGKELGSRPFFERNGQAYCE 51

The first LIM domain of Leupaxin: Leupaxin is a cytoskeleton adaptor protein, which is preferentially expressed in hematopoietic cells. Leupaxin belongs to the paxillin focal adhesion protein family. Same as other members of the family, it has four leucine-rich LD-motifs in the N-terminus and four LIM domains in the C-terminus. It may function in cell type-specific signaling by associating with interaction partners PYK2, FAK, PEP and p95PKL. When expressed in human leukocytic cells, leupaxin significantly suppressed integrin-mediated cell adhesion to fibronectin and the tyrosine phosphorylation of paxillin. These findings indicate that leupaxin may negatively regulate the functions of paxillin during integrin signaling. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 55

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

 Score = 44.4 bits (105), Expect = 1e-06
 Identities = 18/40 (45%), Positives = 27/40 (67%)

Query: 176 LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDW 215
           L A+ + +HPE F C++CG+LFG+  F   +G PYC  D+
Sbjct: 13  LTAMDQTWHPEHFFCSHCGELFGDEGFLERDGKPYCRRDF 52

The second LIM domain of Leupaxin: Leupaxin is a cytoskeleton adaptor protein, which is preferentially expressed in hematopoietic cells. Leupaxin belongs to the paxillin focal adhesion protein family. Same as other members of the family, it has four leucine-rich LD-motifs in the N-terminus and four LIM domains in the C-terminus. It may function in cell type-specific signaling by associating with interaction partners PYK2, FAK, PEP and p95PKL. When expressed in human leukocytic cells, leupaxin significantly suppressed integrin-mediated cell adhesion to fibronectin and the tyrosine phosphorylation of paxillin. These findings indicate that leupaxin may negatively regulate the functions of paxillin during integrin signaling. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

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

 Score = 44.6 bits (106), Expect = 1e-06
 Identities = 14/36 (38%), Positives = 19/36 (52%)

Query: 175 CLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPY 210
            L+A+G  +HPECF C  C K    + F +    PY
Sbjct: 13  FLSALGAVWHPECFRCHACRKPIAEHEFSVSGNDPY 48

The Lim domain of DA1: DA1 contains one copy of LIM domain and a domain of unknown function. DA1 is predicted as an ubiquitin receptor, which sets final seed and organ size by restricting the period of cell proliferation. The LIM domain is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 53

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

 Score = 44.0 bits (104), Expect = 2e-06
 Identities = 23/54 (42%), Positives = 29/54 (53%), Gaps = 2/54 (3%)

Query: 114 CGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCF 167
           CG C   I G  I+ALG+ + P+HF+C    C RPL    F E+    YC  CF
Sbjct: 1   CGSCGLPITGRCISALGRKFHPEHFVCAF--CLRPLTQGSFKEQSGKPYCSTCF 52

The fourth LIM domain of Leupaxin: Leupaxin is a cytoskeleton adaptor protein, which is preferentially expressed in hematopoietic cells. Leupaxin belongs to the paxillin focal adhesion protein family. Same as other members of the family, it has four leucine-rich LD-motifs in the N-terminus and four LIM domains in the C-terminus. It may function in cell type-specific signaling by associating with interaction partners PYK2, FAK, PEP and p95PKL. When expressed in human leukocytic cells, leupaxin significantly suppressed integrin-mediated cell adhesion to fibronectin and the tyrosine phosphorylation of paxillin. These findings indicate that leupaxin may negatively regulate the functions of paxillin during integrin signaling. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

>gnl|CDD|188725 cd09339, LIM4_Paxillin_like, The fourth LIM domain of the Paxillin-like protein family

 Score = 43.9 bits (104), Expect = 2e-06
 Identities = 21/54 (38%), Positives = 29/54 (53%), Gaps = 2/54 (3%)

Query: 114 CGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCF 167
           C  C + I G  ITA+G+ + P+HF+C    C + L    F E+D   YC  CF
Sbjct: 1   CAGCGKPITGRCITAMGRKFHPEHFVCAF--CLKQLSKGTFKEQDDKPYCHPCF 52

The fourth LIM domain of the Paxillin like protein family: This family consists of paxillin, leupaxin, Hic-5 (ARA55), and other related proteins. There are four LIM domains in the C-terminal of the proteins and leucine-rich LD-motifs in the N-terminal region. Members of this family are adaptor proteins to recruit key components of signal-transduction machinery to specific sub-cellular locations. Paxillin is found at the interface between the plasma membrane and the actin cytoskeleton. Paxillin serves as a platform for the recruitment of numerous regulatory and structural proteins that together control the dynamic changes in cell adhesion, cytoskeletal reorganization and gene expression that are necessary for cell migration and survival. Leupaxin is a cytoskeleton adaptor protein, which is preferentially expressed in hematopoietic cells. It associates with focal adhesion kinases PYK2 and pp125FAK and identified to be a component of the osteoclast pososomal signaling complex. Hic-5 controls cell proliferation, migration and senescence by functioning as coactivator for steroid receptors such as androgen receptor, glucocorticoid receptor and progesterone receptor. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

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

 Score = 43.5 bits (102), Expect = 3e-06
 Identities = 19/46 (41%), Positives = 29/46 (63%)

Query: 171 LAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWN 216
           +A   + A+GK +HPE F C +C +  G+  FF  +G PYCE D++
Sbjct: 9   IAGQVVTAMGKTWHPEHFVCTHCQEEIGSRNFFERDGQPYCEKDYH 54

The first LIM domain of paxillin: Paxillin is an adaptor protein, which recruits key components of the signal-transduction machinery to specific sub-cellular locations to respond to environmental changes rapidly. The C-terminal region of paxillin contains four LIM domains which target paxillin to focal adhesions, presumably through a direct association with the cytoplasmic tail of beta-integrin. The N-terminal of paxillin is leucine-rich LD-motifs. Paxillin is found at the interface between the plasma membrane and the actin cytoskeleton. The binding partners of paxillin are diverse and include protein tyrosine kinases, such as Src and FAK, structural proteins, such as vinculin and actopaxin, and regulators of actin organization. Paxillin recruits these proteins to their function sites to control the dynamic changes in cell adhesion, cytoskeletal reorganization and gene expression. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight cons erved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 54

>gnl|CDD|188843 cd09459, LIM3_ENH, The third LIM domain of the Enigma Homolog (ENH) family

 Score = 43.0 bits (101), Expect = 4e-06
 Identities = 18/30 (60%), Positives = 22/30 (73%)

Query: 223 CFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
           C  C FPIEAGDR++EAL + +H  CF CS
Sbjct: 1   CHGCEFPIEAGDRFLEALGHTWHDTCFVCS 30

The third LIM domain of the Enigma Homolog (ENH) family: ENH was initially identified in rat brain. Same as enigma, it contains three LIM domains at the C-terminus and a PDZ domain at N-terminus. ENH is implicated in signal transduction processes involving protein kinases. It has also been shown that ENH interacts with protein kinase D1 (PKD1) via its LIM domains and forms a complex with PKD1 and the alpha1C subunit of cardiac L-type voltage-gated calcium channel in rat neonatal cardiomyocytes. The N-terminal PDZ domain interacts with alpha-actinin at the Z-line. ENH is expressed in multiple tissues, such as skeletal muscle, heart, bone, and brain. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 55

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

 Score = 43.0 bits (101), Expect = 4e-06
 Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 2/55 (3%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEG-LPYCENDWN 216
           C  C +Q +    L A GK YHP+CFTC  C        F +++   P+C ND++
Sbjct: 1   CAVC-DQKITDRMLKATGKSYHPQCFTCVVCKCPLEGESFIVDQANQPHCVNDYH 54

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

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

 Score = 42.7 bits (100), Expect = 5e-06
 Identities = 21/52 (40%), Positives = 29/52 (55%), Gaps = 2/52 (3%)

Query: 113 LCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCE 164
           +CG C + I G  +TA+GK W P+HF+C    C+  +    F E D   YCE
Sbjct: 1   VCGACKKPIAGQVVTAMGKTWHPEHFVCT--HCQEEIGSRNFFERDGQPYCE 50

The first LIM domain of paxillin: Paxillin is an adaptor protein, which recruits key components of the signal-transduction machinery to specific sub-cellular locations to respond to environmental changes rapidly. The C-terminal region of paxillin contains four LIM domains which target paxillin to focal adhesions, presumably through a direct association with the cytoplasmic tail of beta-integrin. The N-terminal of paxillin is leucine-rich LD-motifs. Paxillin is found at the interface between the plasma membrane and the actin cytoskeleton. The binding partners of paxillin are diverse and include protein tyrosine kinases, such as Src and FAK, structural proteins, such as vinculin and actopaxin, and regulators of actin organization. Paxillin recruits these proteins to their function sites to control the dynamic changes in cell adhesion, cytoskeletal reorganization and gene expression. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight cons erved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 54

>gnl|CDD|188717 cd09331, LIM1_PINCH, The first LIM domain of protein PINCH

 Score = 42.3 bits (100), Expect = 7e-06
 Identities = 23/58 (39%), Positives = 33/58 (56%), Gaps = 1/58 (1%)

Query: 163 CEFCFEQY-LAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLF 219
           CE C E +      +N+ G+ YH +CF CA C + F +  F+  EG  YCE+D+  LF
Sbjct: 1   CERCREGFEPDEKIVNSNGELYHEQCFVCAQCFQPFPDGLFYEFEGRKYCEHDFQVLF 58

The first LIM domain of paxillin: Paxillin is an adaptor protein, which recruits key components of the signal-transduction machinery to specific sub-cellular locations to respond to environmental changes rapidly. The C-terminal region of paxillin contains four LIM domains which target paxillin to focal adhesions, presumably through a direct association with the cytoplasmic tail of beta-integrin. The N-terminal of paxillin is leucine-rich LD-motifs. Paxillin is found at the interface between the plasma membrane and the actin cytoskeleton. The binding partners of paxillin are diverse and include protein tyrosine kinases, such as Src and FAK, structural proteins, such as vinculin and actopaxin, and regulators of actin organization. Paxillin recruits these proteins to their function sites to control the dynamic changes in cell adhesion, cytoskeletal reorganization and gene expression. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 59

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

 Score = 41.3 bits (97), Expect = 2e-05
 Identities = 15/41 (36%), Positives = 24/41 (58%)

Query: 171 LAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYC 211
           +   C++A+G+ +HPE F CA+C +      F  + G PYC
Sbjct: 8   ITGRCISALGRKFHPEHFVCAFCLRPLTQGSFKEQSGKPYC 48

The fourth LIM domain of Leupaxin: Leupaxin is a cytoskeleton adaptor protein, which is preferentially expressed in hematopoietic cells. Leupaxin belongs to the paxillin focal adhesion protein family. Same as other members of the family, it has four leucine-rich LD-motifs in the N-terminus and four LIM domains in the C-terminus. It may function in cell type-specific signaling by associating with interaction partners PYK2, FAK, PEP and p95PKL. When expressed in human leukocytic cells, leupaxin significantly suppressed integrin-mediated cell adhesion to fibronectin and the tyrosine phosphorylation of paxillin. These findings indicate that leupaxin may negatively regulate the functions of paxillin during integrin signaling. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

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

 Score = 41.0 bits (96), Expect = 2e-05
 Identities = 17/41 (41%), Positives = 24/41 (58%)

Query: 176 LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWN 216
           ++A+   +HPECF C  C   F N  FF  +G PYCE  ++
Sbjct: 13  ISALNTLWHPECFVCRECFTPFVNGSFFEHDGQPYCEAHYH 53

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

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

 Score = 40.8 bits (96), Expect = 2e-05
 Identities = 16/53 (30%), Positives = 27/53 (50%), Gaps = 3/53 (5%)

Query: 114 CGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPL-QDIGFVEEDSGLYCEF 165
           C +C   +RG +ITALG+ +  +HF C    C      +  + E +  +YC +
Sbjct: 1   CFKCGGALRGSYITALGRKYHVEHFTCS--VCPTVFGPNDSYYEHEGKIYCHY 51

The second LIM domain of Lrg1p, a LIM and RhoGap domain containing protein: The members of this family contain three tandem repeats of LIM domains and a Rho-type GTPase activating protein (RhoGap) domain. Lrg1p is a Rho1 GTPase-activating protein required for efficient cell fusion in yeast. Lrg1p-GAP domain strongly and specifically stimulates the GTPase activity of Rho1p, a regulator of beta (1-3)-glucan synthase in vitro. The LIM domain is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 53

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

 Score = 40.4 bits (95), Expect = 3e-05
 Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 4/59 (6%)

Query: 114 CGQCYQQIRGPFIT--ALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQY 170
           C  C + I    +   ALGK+W P+ F C    C +PL    F E+D  LYC+  + + 
Sbjct: 1   CAGCGKPIYDRELVRRALGKVWHPECFRCA--VCGKPLGPGDFFEKDGKLYCKHDYFKL 57

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

>gnl|CDD|188716 cd09330, LIM4_abLIM, The fourth LIM domain of actin binding LIM (abLIM) proteins

 Score = 40.4 bits (95), Expect = 3e-05
 Identities = 17/36 (47%), Positives = 24/36 (66%), Gaps = 1/36 (2%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFG 198
           CE C ++++    L A GKHYHP C  C+ CG++FG
Sbjct: 1   CEAC-DKFITGKVLEAGGKHYHPTCARCSRCGQMFG 35

The fourth LIM domain of actin binding LIM (abLIM) proteins: Three homologous members of the abLIM protein family have been identified; abLIM-1, abLIM-2 and abLIM-3. The N-terminal of abLIM consists of four tandem repeats of LIM domains and the C-terminal of acting binding LIM protein is a villin headpiece domain, which has strong actin binding activity. The abLIM-1, which is expressed in retina, brain, and muscle tissue, has been indicated to function as a tumor suppressor. AbLIM-2 and -3, mainly expressed in muscle and neuronal tissue, bind to F-actin strongly. They may serve as a scaffold for signaling modules of the actin cytoskeleton and thereby modulate transcription. It has shown that LIM domains of abLIMs interact with STARS (striated muscle activator of Rho signaling), which directly binds actin and stimulates serum-response factor (SRF)-dependent transcription. All LIM domains are 50-60 amino acids in size and share two characteristic highly conserved zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 56

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

 Score = 40.4 bits (95), Expect = 3e-05
 Identities = 14/38 (36%), Positives = 25/38 (65%), Gaps = 1/38 (2%)

Query: 160 GLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLF 197
           G  C+ C + ++  + ++A+GK YHP+CF C+ C + F
Sbjct: 1   GTKCDSC-QDFVEGEVVSALGKTYHPKCFVCSVCRQPF 37

The second LIM domain of actin binding LIM (abLIM) proteins: Three homologous members of the abLIM protein family have been identified; abLIM-1, abLIM-2 and abLIM-3. The N-terminal of abLIM consists of four tandem repeats of LIM domains and the C-terminal of acting binding LIM protein is a villin headpiece domain, which has strong actin binding activity. The abLIM-1, which is expressed in retina, brain, and muscle tissue, has been indicated to function as a tumor suppressor. AbLIM-2 and -3, mainly expressed in muscle and neuronal tissue, bind to F-actin strongly. They may serve as a scaffold for signaling modules of the actin cytoskeleton and thereby modulate transcription. It has shown that LIM domains of abLIMs interact with STARS (striated muscle activator of Rho signaling), which directly binds actin and stimulates serum-response factor (SRF)-dependent transcription. All LIM domains are 50-60 amino acids in size and share two characteristic highly conserved zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 56

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

 Score = 40.1 bits (94), Expect = 4e-05
 Identities = 18/39 (46%), Positives = 25/39 (64%), Gaps = 1/39 (2%)

Query: 178 AIGKHYHPECFTCAYCGKLFGNNPFFLEE-GLPYCENDW 215
           A+GK YHP CFTC  CG+  G+  F ++E    YC +D+
Sbjct: 15  ALGKGYHPPCFTCVTCGRRIGDESFAVDEQNEVYCLDDY 53

The second LIM domain of the filamin-binding LIM protein-1 (FBLP-1): Fblp-1 contains a proline-rich domain near its N terminus and two LIM domains at its C terminus. FBLP-1 mRNA was detected in a variety of tissues and cells including platelets and endothelial cells. FBLP-1 binds to Filamins. The association between filamin B and FBLP-1 may play an unknown role in cytoskeletal function, cell adhesion, and cell motility. As in other LIM domains, this domain family is 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 53

>gnl|CDD|188844 cd09460, LIM3_ZASP_Cypher, The third LIM domain of ZASP/Cypher family

 Score = 40.4 bits (94), Expect = 4e-05
 Identities = 15/30 (50%), Positives = 22/30 (73%)

Query: 223 CFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
           C  C FP+EAGD+++EAL + +H  CF C+
Sbjct: 1   CHGCDFPVEAGDKFIEALGHTWHDTCFICA 30

The third LIM domain of ZASP/Cypher family: ZASP was identified in human heart and skeletal muscle and Cypher is a mice ortholog of ZASP. ZASP/Cyppher contains three LIM domains at the C-terminus and a PDZ domain at N-terminus. ZASP/Cypher is required for maintenance of Z-line structure during muscle contraction, but not required for Z-line assembly. In heart, Cypher/ZASP plays a structural role through its interaction with cytoskeletal Z-line proteins. In addition, there is increasing evidence that Cypher/ZASP also performs signaling functions. Studies reveal that Cypher/ZASP interacts with and directs PKC to the Z-line, where PKC phosphorylates downstream signaling targets. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 55

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

 Score = 39.7 bits (93), Expect = 5e-05
 Identities = 13/31 (41%), Positives = 17/31 (54%)

Query: 222 KCFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
           KC  CG PI   +R + AL   +H  CF C+
Sbjct: 1   KCAGCGKPIYGTERVLRALGKVWHPECFKCA 31

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

 Score = 39.7 bits (93), Expect = 5e-05
 Identities = 16/38 (42%), Positives = 21/38 (55%)

Query: 178 AIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDW 215
           A+ + YH  CFTC  C       PF+  +G PYCE D+
Sbjct: 17  AMDQVYHISCFTCHQCQINLQGKPFYALDGKPYCEEDY 54

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

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

 Score = 39.8 bits (93), Expect = 6e-05
 Identities = 17/36 (47%), Positives = 23/36 (63%)

Query: 176 LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYC 211
           L A+G+ YHPE FTC+ C K+     FF E+G  +C
Sbjct: 13  LVALGRSYHPEEFTCSQCKKVLDEGGFFEEKGSIFC 48

The first LIM domain of Enigma: Enigma was initially characterized in humans as a protein containing three LIM domains at the C-terminus and a PDZ domain at N-terminus. The third LIM domain specifically interacts with the insulin receptor and the second LIM domain interacts with the receptor tyrosine kinase Ret and the adaptor protein APS. Thus Enigma is implicated in signal transduction processes such as mitogenic activity, insulin related actin organization, and glucose metabolism. Enigma is expressed in multiple tissues, such as skeletal muscle, heart, bone and brain. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

>gnl|CDD|188713 cd09327, LIM1_abLIM, The first LIM domain of actin binding LIM (abLIM) proteins

 Score = 39.2 bits (92), Expect = 7e-05
 Identities = 16/42 (38%), Positives = 24/42 (57%)

Query: 174 DCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDW 215
           + L    K++H +CFTC  CG       FF++EG  YC +D+
Sbjct: 11  EVLRVQDKYFHIKCFTCKVCGCDLAQGGFFVKEGEYYCTDDY 52

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

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

 Score = 39.4 bits (92), Expect = 8e-05
 Identities = 17/37 (45%), Positives = 22/37 (59%)

Query: 176 LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCE 212
           L+A    +HPECF C+ C K F +  FF  +G P CE
Sbjct: 13  LSAANGVWHPECFVCSDCLKPFTDGSFFELDGRPLCE 49

The third LIM domain of Leupaxin: Leupaxin is a cytoskeleton adaptor protein, which is preferentially expressed in hematopoietic cells. Leupaxin belongs to the paxillin focal adhesion protein family. Same as other members of the family, it has four leucine-rich LD-motifs in the N-terminus and four LIM domains in the C-terminus. It may function in cell type-specific signaling by associating with interaction partners PYK2, FAK, PEP and p95PKL. When expressed in human leukocytic cells, leupaxin significantly suppressed integrin-mediated cell adhesion to fibronectin and the tyrosine phosphorylation of paxillin. These findings indicate that leupaxin may negatively regulate the functions of paxillin during integrin signaling. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 53

>gnl|CDD|188791 cd09407, LIM2_Paxillin, The second LIM domain of paxillin

 Score = 38.8 bits (90), Expect = 1e-04
 Identities = 16/40 (40%), Positives = 23/40 (57%)

Query: 176 LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDW 215
           + A+ + +HPE F CA CG  FG   F  ++G  YC  D+
Sbjct: 13  VTALDRTWHPEHFFCAQCGAFFGPEGFHEKDGKAYCRKDY 52

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

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

 Score = 38.5 bits (90), Expect = 1e-04
 Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 1/40 (2%)

Query: 176 LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDW 215
           L A+ K +H  CF C  CGK+     +  ++G PYCE D+
Sbjct: 14  LLALDKQWHVWCFKCKECGKVL-TGEYMGKDGKPYCERDY 52

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

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

 Score = 38.7 bits (90), Expect = 2e-04
 Identities = 16/27 (59%), Positives = 17/27 (62%)

Query: 176 LNAIGKHYHPECFTCAYCGKLFGNNPF 202
           L A GK YHP+CFTC  CGK     PF
Sbjct: 13  LRATGKPYHPQCFTCVVCGKSLDGIPF 39

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

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

 Score = 38.6 bits (90), Expect = 2e-04
 Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 1/39 (2%)

Query: 178 AIGKHYHPECFTCAYCG-KLFGNNPFFLEEGLPYCENDW 215
           A G  YH +CFTC+ C  +L   + F    G  +CE+D 
Sbjct: 17  AQGNVYHLKCFTCSTCHNQLVPGDRFHYVNGSLFCEHDR 55

The second LIM domain of LMO4 (LIM domain only protein 4): LMO4 is a nuclear protein that plays important roles in transcriptional regulation and development. LMO4 is involved in various functions in tumorigenesis and cellular differentiation. LMO4 proteins regulate gene expression by interacting with a wide variety of transcription factors and cofactors to form large transcription complexes. It can interact with Smad proteins, and associate with the promoter of the PAI-1 (plasminogen activator inhibitor-1) gene in a TGFbeta (transforming growth factor beta)-dependent manner. LMO4 can also form a complex with transcription regulator CREB (cAMP response element-binding protein) and interact with CLIM1 and CLIM2. In breast tissue, LMO4 interacts with multiple proteins, including the cofactor CtIP [CtBP (C-terminal binding protein)-interacting protein], the breast and ovarian tumor suppressor BRCA1 (breast-cancer susceptibility gene 1) and the LIM-domain-binding protein LDB1. Functionally, LMO4 is shown to repress BRCA1-mediated transcription activation, thus invoking a potential role for LMO4 as a negative regulator of BRCA1 in sporadic breast cancer. LMO4 also forms complex to both ERa (oestrogen receptor alpha), MTA1 (metastasis tumor antigen 1), and HDACs (histone deacetylases), implying that LMO4 is also a component of the MTA1 corepressor complex. Over-expressed LMO4 represses ERa transactivation functions in an HDAC-dependent manner, and contributes to the process of breast cancer progression by allowing the development of Era-negative phenotypes. All LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 55

>gnl|CDD|188842 cd09458, LIM3_Enigma, The third LIM domain of Enigma

 Score = 38.1 bits (88), Expect = 2e-04
 Identities = 15/30 (50%), Positives = 21/30 (70%)

Query: 223 CFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
           C  C F I+AGDR++EAL  ++H  CF C+
Sbjct: 1   CHGCDFKIDAGDRFLEALGFSWHDTCFVCA 30

The third LIM domain of Enigma: Enigma was initially characterized in humans as a protein containing three LIM domains at the C-terminus and a PDZ domain at N-terminus. The third LIM domain specifically interacts with the insulin receptor and the second LIM domain interacts with the receptor tyrosine kinase Ret and the adaptor protein APS. Thus Enigma is implicated in signal transduction processes such as mitogenic activity, insulin related actin organization, and glucose metabolism. Enigma is expressed in multiple tissues, such as skeletal muscle, heart, bone, and brain. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 55

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

 Score = 37.7 bits (88), Expect = 3e-04
 Identities = 16/42 (38%), Positives = 25/42 (59%), Gaps = 1/42 (2%)

Query: 175 CLNAIGKHYHPECFTCAYCGKLFG-NNPFFLEEGLPYCENDW 215
            + A+G+ YH E FTC+ C  +FG N+ ++  EG  YC   +
Sbjct: 12  YITALGRKYHVEHFTCSVCPTVFGPNDSYYEHEGKIYCHYHY 53

The second LIM domain of Lrg1p, a LIM and RhoGap domain containing protein: The members of this family contain three tandem repeats of LIM domains and a Rho-type GTPase activating protein (RhoGap) domain. Lrg1p is a Rho1 GTPase-activating protein required for efficient cell fusion in yeast. Lrg1p-GAP domain strongly and specifically stimulates the GTPase activity of Rho1p, a regulator of beta (1-3)-glucan synthase in vitro. The LIM domain is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 53

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

 Score = 37.2 bits (86), Expect = 4e-04
 Identities = 16/38 (42%), Positives = 21/38 (55%)

Query: 175 CLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCE 212
           C+ A+GK +HPE F CA+C K      F  +   PYC 
Sbjct: 12  CITAMGKKFHPEHFVCAFCLKQLNKGTFKEQNDKPYCH 49

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

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

 Score = 37.3 bits (87), Expect = 5e-04
 Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 5/50 (10%)

Query: 171 LAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEG-----LPYCENDW 215
           +    + A+G  YH +CFTC  CGK   +  F +++      +P CE D+
Sbjct: 8   ITGQFVRALGDVYHLDCFTCHDCGKPVASKFFPVDDPDTSEQVPLCETDY 57

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

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

 Score = 37.0 bits (86), Expect = 6e-04
 Identities = 13/38 (34%), Positives = 19/38 (50%)

Query: 176 LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCEN 213
           L A+G  +H  CF CA C        F+ ++  P C+N
Sbjct: 15  LEALGHTWHDTCFVCAVCHVNLEGQTFYSKKDKPLCKN 52

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

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

 Score = 36.9 bits (85), Expect = 6e-04
 Identities = 17/38 (44%), Positives = 22/38 (57%)

Query: 176 LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCEN 213
           L A+G+ +HPE FTC YC     +  F  E+   YCEN
Sbjct: 13  LVALGRSWHPEEFTCHYCHTSLADVSFVEEQNNVYCEN 50

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

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

 Score = 36.5 bits (84), Expect = 7e-04
 Identities = 20/51 (39%), Positives = 28/51 (54%), Gaps = 2/51 (3%)

Query: 114 CGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCE 164
           CG+C ++I G  I AL + W    F+CV   C  P+++  F  ED   YCE
Sbjct: 1   CGRCQRKILGEVINALKQTWHVSCFVCV--ACHNPIRNNVFHLEDGEPYCE 49

The second LIM domain of the Enigma Homolog (ENH) family: ENH was initially identified in rat brain. Same as enigma, it contains three LIM domains at the C-terminus and a PDZ domain at N-terminus. ENH is implicated in signal transduction processes involving protein kinases. It has also been shown that ENH interacts with protein kinase D1 (PKD1) via its LIM domains and forms a complex with PKD1 and the alpha1C subunit of cardiac L-type voltage-gated calcium channel in rat neonatal cardiomyocytes. The N-terminal PDZ domain interacts with alpha-actinin at the Z-line. ENH is expressed in multiple tissues, such as skeletal muscle, heart, bone, and brain. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

>gnl|CDD|188741 cd09355, LIM2_Ajuba_like, The second LIM domain of Ajuba-like proteins

 Score = 36.6 bits (85), Expect = 7e-04
 Identities = 17/41 (41%), Positives = 22/41 (53%), Gaps = 1/41 (2%)

Query: 176 LNAIGKHYHPECFTCAYCGKLFGNNPFFLE-EGLPYCENDW 215
           L A+GK YHP CF C  C +     PF ++ E   YC  D+
Sbjct: 13  LQALGKSYHPGCFRCCVCNECLDGVPFTVDVENNIYCVKDY 53

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

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

 Score = 36.0 bits (83), Expect = 0.001
 Identities = 18/50 (36%), Positives = 23/50 (46%), Gaps = 2/50 (4%)

Query: 114 CGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYC 163
           C  C   I    +TA+ + W P+HF C    C     D GF+E D   YC
Sbjct: 1   CAYCAGPILQNVLTAMDQTWHPEHFFCS--HCGELFGDEGFLERDGKPYC 48

The second LIM domain of Leupaxin: Leupaxin is a cytoskeleton adaptor protein, which is preferentially expressed in hematopoietic cells. Leupaxin belongs to the paxillin focal adhesion protein family. Same as other members of the family, it has four leucine-rich LD-motifs in the N-terminus and four LIM domains in the C-terminus. It may function in cell type-specific signaling by associating with interaction partners PYK2, FAK, PEP and p95PKL. When expressed in human leukocytic cells, leupaxin significantly suppressed integrin-mediated cell adhesion to fibronectin and the tyrosine phosphorylation of paxillin. These findings indicate that leupaxin may negatively regulate the functions of paxillin during integrin signaling. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

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

 Score = 36.1 bits (83), Expect = 0.001
 Identities = 21/54 (38%), Positives = 29/54 (53%), Gaps = 2/54 (3%)

Query: 114 CGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCF 167
           C  C + I G  ITA+GK + P+HF+C    C + L    F E++   YC  CF
Sbjct: 1   CSGCQKPITGRCITAMGKKFHPEHFVCAF--CLKQLNKGTFKEQNDKPYCHNCF 52

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

>gnl|CDD|188738 cd09352, LIM1_Ajuba_like, The first LIM domain of Ajuba-like proteins

 Score = 36.3 bits (84), Expect = 0.001
 Identities = 18/46 (39%), Positives = 22/46 (47%)

Query: 170 YLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDW 215
           Y A     A+G  YH  CFTC  CG+      F+   G  YCE D+
Sbjct: 9   YGASQACQAMGNLYHTNCFTCCSCGRTLRGKAFYNVNGKVYCEEDY 54

The first LIM domain of Ajuba-like proteins: Ajuba like LIM protein family includes three highly homologous proteins Ajuba, Limd1, and WTIP. Members of the family contain three tandem C-terminal LIM domains and a proline-rich N-terminal region. This family of proteins functions as scaffolds, participating in the assembly of numerous protein complexes. In the cytoplasm, Ajuba binds Grb2 to modulate serum-stimulated ERK activation. Ajuba also recruits the TNF receptor-associated factor 6 (TRAF6) to p62 and activates PKCKappa activity. Ajuba interacts with alpha-catenin and F-actin to contribute to the formation or stabilization of adheren junctions by linking adhesive receptors to the actin cytoskeleton. Although Ajuba is a cytoplasmic protein, it can shuttle into the nucleus. In nucleus, Ajuba functions as a corepressor for the zinc finger-protein Snail. It binds to the SNAG repression domain of Snail through its LIM region. Arginine methyltransferase-5 (Prmt5), a protein in the complex, is recruited to Snai l through an interaction with Ajuba. This ternary complex functions to repress E-cadherin, a Snail target gene. In addition, Ajuba contains functional nuclear-receptor interacting motifs and selectively interacts with retinoic acid receptors (RARs) and rexinoid receptor (RXRs) to negatively regulate retinoic acid signaling. Wtip, the Wt1-interacting protein, was originally identified as an interaction partner of the Wilms tumour protein 1 (WT1). Wtip is involved in kidney and neural crest development. Wtip interacts with the receptor tyrosine kinase Ror2 and inhibits canonical Wnt signaling. LIMD1 was reported to inhibit cell growth and metastases. The inhibition may be mediated through an interaction with the protein barrier-to-autointegration (BAF), a component of SWI/SNF chromatin-remodeling protein; or through the interaction with retinoblastoma protein (pRB), resulting in inhibition of E2F-mediated transcription, and expression of the majority of genes with E2F1- responsive elements. Recently, Limd1 was shown to interact with the p62/sequestosome protein and influence IL-1 and RANKL signaling by facilitating the assembly of a p62/TRAF6/a-PKC multi-protein complex. The Limd1-p62 interaction affects both NF-kappaB and AP-1 activity in epithelial cells and osteoclasts. Moreover, LIMD1 functions as tumor repressor to block lung tumor cell line in vitro and in vivo. Recent studies revealed that LIM proteins Wtip, LIMD1 and Ajuba interact with components of RNA induced silencing complexes (RISC) as well as eIF4E and the mRNA m7GTP cap-protein complex and are required for microRNA-mediated gene silencing. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 54

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

 Score = 37.1 bits (86), Expect = 0.001
 Identities = 15/35 (42%), Positives = 19/35 (54%)

Query: 178 AIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCE 212
           A+G  +H  CFTC  C +      F+  EG PYCE
Sbjct: 50  ALGHLFHVTCFTCHQCEQQLQGQQFYSLEGKPYCE 84

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

 Score = 35.9 bits (83), Expect = 0.001
 Identities = 18/49 (36%), Positives = 24/49 (48%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYC 211
           C  C E   A +C  A G+H+H + F C  C    G   + + EG PYC
Sbjct: 3   CSACDEIIFADECTEAEGRHWHMKHFCCFECECQLGGQRYIMREGRPYC 51

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

>gnl|CDD|188746 cd09360, LIM_ALP_like, The LIM domain of ALP (actinin-associated LIM protein) family

 Score = 35.8 bits (83), Expect = 0.001
 Identities = 16/33 (48%), Positives = 18/33 (54%)

Query: 180 GKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCE 212
            K+ HPECF CA CG    N  +F  E   YCE
Sbjct: 17  DKNRHPECFVCADCGLNLKNKGYFFIEDELYCE 49

This family represents the LIM domain of ALP (actinin-associated LIM protein) family. Four proteins: ALP, CLP36, RIL, and Mystique have been classified into the ALP subfamily of LIM domain proteins. Each member of the subfamily contains an N-terminal PDZ domain and a C-terminal LIM domain. Functionally, these proteins bind to alpha-actinin through their PDZ domains and bind or other signaling molecules through their LIM domains. ALP proteins have been implicated in cardiac and skeletal muscle structure, function and disease, platelet, and epithelial cell motility. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

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

 Score = 35.2 bits (81), Expect = 0.002
 Identities = 11/36 (30%), Positives = 18/36 (50%)

Query: 178 AIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCEN 213
           A+  +YH +CF C  C        F+ + G P+C+ 
Sbjct: 17  ALNNNYHSQCFNCTRCNVNLEGQSFYAKGGRPFCKL 52

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

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

 Score = 35.3 bits (82), Expect = 0.002
 Identities = 17/55 (30%), Positives = 29/55 (52%), Gaps = 3/55 (5%)

Query: 114 CGQCYQQI-RGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCF 167
           C  C  +I  G F++ALG +W P+ F C    C++P+ +  F    +  Y + C+
Sbjct: 1   CAGCKSEIGHGRFLSALGAVWHPECFRCHA--CRKPIAEHEFSVSGNDPYHKSCY 53

The Lim domain of DA1: DA1 contains one copy of LIM domain and a domain of unknown function. DA1 is predicted as an ubiquitin receptor, which sets final seed and organ size by restricting the period of cell proliferation. The LIM domain is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 53

>gnl|CDD|188835 cd09451, LIM_RIL, The LIM domain of RIL

 Score = 35.7 bits (82), Expect = 0.002
 Identities = 18/34 (52%), Positives = 20/34 (58%), Gaps = 2/34 (5%)

Query: 181 KHYHPECFTCAYCG-KLFGNNPFFLEEGLPYCEN 213
           K YHPECF C  CG  L     FF++E L YCE 
Sbjct: 18  KLYHPECFMCDDCGLNLKQRGYFFIDEQL-YCET 50

The LIM domain of RIL: RIL contains an N-terminal PDZ domain, a LIM domain, and a short consensus C-terminal region. It is the smallest molecule in the ALP LIM domain containing protein family. RIL was identified in rat fibroblasts and in human lymphocytes. The LIM domain interacts with the AMPA glutamate receptor in dendritic spines. The consensus C-terminus interacts with PTP-BL, a submembranous protein tyrosine phosphatase and the PDZ domain is responsible to interact with alpha-actinin molecules. 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|188742 cd09356, LIM2_TRIP6, The second LIM domain of Thyroid receptor-interacting protein 6 (TRIP6)

 Score = 35.2 bits (81), Expect = 0.002
 Identities = 14/32 (43%), Positives = 17/32 (53%)

Query: 176 LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEG 207
           L A GK YHP CFTC  C +     PF ++  
Sbjct: 13  LRATGKAYHPHCFTCVVCHRSLDGIPFTVDAT 44

The second LIM domain of Thyroid receptor-interacting protein 6 (TRIP6): TRIP6 is a member of the zyxin LIM protein family and contains three LIM zinc-binding domains at the C-terminal. TRIP6 protein localizes to focal adhesion sites and along actin stress fibers. Recruitment of this protein to the plasma membrane occurs in a lysophosphatidic acid (LPA)-dependent manner. TRIP6 recruits a number of molecules involved in actin assembly, cell motility, survival and transcriptional control. The function of TRIP6 in cell motility is regulated by Src-dependent phosphorylation at a Tyr residue. The phosphorylation activates the coupling to the Crk SH2 domain, which is required for the function of TRIP6 in promoting lysophosphatidic acid (LPA)-induced cell migration. TRIP6 can shuttle to the nucleus to serve as a coactivator of AP-1 and NF-kappaB transcriptional factors. Moreover, TRIP6 can form a ternary complex with the NHERF2 PDZ protein and LPA2 receptor to regulate LPA-induced activation of ERK and AKT, rendering cells resistant to chemotherapy. Recent evidence shows that TRIP6 antagonizes Fas-Induced apoptosis by enhancing the antiapoptotic effect of LPA in cells. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 53

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

 Score = 35.1 bits (81), Expect = 0.002
 Identities = 13/35 (37%), Positives = 18/35 (51%)

Query: 178 AIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCE 212
           A+ + +H +CFTC  C       PF+  E   YCE
Sbjct: 17  AMDQVFHVDCFTCMTCNGKLRGQPFYAVEKKAYCE 51

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

>gnl|CDD|188718 cd09332, LIM2_PINCH, The second LIM domain of protein PINCH

 Score = 35.0 bits (81), Expect = 0.002
 Identities = 18/42 (42%), Positives = 23/42 (54%), Gaps = 2/42 (4%)

Query: 114 CGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFV 155
           CG+C + + G  I A+   W PD F C    C + L DIGFV
Sbjct: 1   CGKCGEFVIGRVIKAMNNNWHPDCFRC--EICNKELADIGFV 40

The second LIM domain of protein PINCH: PINCH plays a pivotal role in the assembly of focal adhesions (FAs), regulating diverse functions in cell adhesion, growth, and differentiation through LIM-mediated protein-protein interactions. PINCH comprises an array of five LIM domains that interact with integrin-linked kinase (ILK), Nck2 (also called Nckbeta or Grb4) and other interaction partners. These interactions are essential for triggering the FA assembly and for relaying diverse mechanical and biochemical signals between Cell-extracellular matrix and the actin cytoskeleton. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

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

 Score = 34.6 bits (79), Expect = 0.003
 Identities = 17/37 (45%), Positives = 21/37 (56%)

Query: 176 LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCE 212
           L A+GK +HPE F CA+C        F  E+G  YCE
Sbjct: 13  LVALGKSWHPEEFNCAHCKSSMAYIGFVEEKGALYCE 49

The first LIM domain of the Enigma Homolog (ENH) family: ENH was initially identified in rat brain. Same as enigma, it contains three LIM domains at the C-terminus and a PDZ domain at N-terminus. ENH is implicated in signal transduction processes involving protein kinases. It has also been shown that ENH interacts with protein kinase D1 (PKD1) via its LIM domains and forms a complex with PKD1 and the alpha1C subunit of cardiac L-type voltage-gated calcium channel in rat neonatal cardiomyocytes. The N-terminal PDZ domain interacts with alpha-actinin at the Z-line. ENH is expressed in multiple tissues, such as skeletal muscle, heart, bone, and brain. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

>gnl|CDD|188725 cd09339, LIM4_Paxillin_like, The fourth LIM domain of the Paxillin-like protein family

 Score = 34.6 bits (80), Expect = 0.003
 Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 1/50 (2%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCE 212
           C  C  + +   C+ A+G+ +HPE F CA+C K      F  ++  PYC 
Sbjct: 1   CAGC-GKPITGRCITAMGRKFHPEHFVCAFCLKQLSKGTFKEQDDKPYCH 49

The fourth LIM domain of the Paxillin like protein family: This family consists of paxillin, leupaxin, Hic-5 (ARA55), and other related proteins. There are four LIM domains in the C-terminal of the proteins and leucine-rich LD-motifs in the N-terminal region. Members of this family are adaptor proteins to recruit key components of signal-transduction machinery to specific sub-cellular locations. Paxillin is found at the interface between the plasma membrane and the actin cytoskeleton. Paxillin serves as a platform for the recruitment of numerous regulatory and structural proteins that together control the dynamic changes in cell adhesion, cytoskeletal reorganization and gene expression that are necessary for cell migration and survival. Leupaxin is a cytoskeleton adaptor protein, which is preferentially expressed in hematopoietic cells. It associates with focal adhesion kinases PYK2 and pp125FAK and identified to be a component of the osteoclast pososomal signaling complex. Hic-5 controls cell proliferation, migration and senescence by functioning as coactivator for steroid receptors such as androgen receptor, glucocorticoid receptor and progesterone receptor. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 52

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

 Score = 34.8 bits (80), Expect = 0.003
 Identities = 19/51 (37%), Positives = 27/51 (52%), Gaps = 2/51 (3%)

Query: 114 CGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCE 164
           CG C + I   +I+AL  +W P+ F+C   +C  P  +  F E D   YCE
Sbjct: 1   CGGCARAILENYISALNTLWHPECFVC--RECFTPFVNGSFFEHDGQPYCE 49

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

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

 Score = 35.0 bits (81), Expect = 0.003
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 180 GKHYHPECFTCAYCGKLFGNNPFFLEEGLPYC 211
           GK +H +CFTC+ C K  G   F  ++   YC
Sbjct: 19  GKFWHEKCFTCSECKKPIGTKSFIPKDDKIYC 50

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

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

 Score = 35.0 bits (81), Expect = 0.003
 Identities = 19/57 (33%), Positives = 28/57 (49%), Gaps = 5/57 (8%)

Query: 163 CEFCFEQYLAPDCL--NAIGKHYHPECFTCAYCGKLF--GNNPFFLEEGLPYCENDW 215
           C  C +Q ++P+ L   A  K +H  CFTC  C K    G   + L+E    C+ D+
Sbjct: 1   CAGC-DQGISPNDLVRRARDKVFHLNCFTCMVCRKQLSTGEELYILDENKFICKEDY 56

The second LIM domain of Lhx1 (also known as Lim1) and Lhx5. Lhx1 and Lhx5 are closely related members of LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs, such as the pituitary gland and the pancreas. Lhx1 is required for regulating the vertebrate head organizer, the nervous system, and female reproductive tract development. During embryogenesis in the mouse, Lhx1 is expressed early in mesodermal tissue, then later during urogenital, kidney, liver, and nervous system development. In the adult, expression is restricted to the kidney and brain. A mouse embryos with Lhx1 gene knockout cannot grow normal anterior head structures, kidneys, and gonads, but with normally developed trunk and tail morphology. In the developing nervous system, Lhx1 is required to direct the trajectories of motor axons in the limb. Lhx1 null female mice lack the oviducts and uterus. Lhx5 protein may play complementary or overlapping roles with Lhx1. The expression of Lhx5 in the anterior portion of the mouse neural tube suggests a role in patterning of the forebrain. All LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 56

>gnl|CDD|188823 cd09439, LIM_Mical, The LIM domain of Mical (molecule interacting with CasL)

 Score = 35.0 bits (81), Expect = 0.003
 Identities = 18/52 (34%), Positives = 27/52 (51%), Gaps = 2/52 (3%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLF--GNNPFFLEEGLPYCE 212
           C FC ++    + L+A G  +H  CF C+YCG     G   F  ++G  YC+
Sbjct: 1   CYFCKKRVYVMERLSAEGLFFHRSCFKCSYCGTTLRLGAYAFDRDDGKFYCK 52

The LIM domain of Mical (molecule interacting with CasL): MICAL is a large, multidomain, cytosolic protein with a single LIM domain, a calponin homology (CH) domain and a flavoprotein monooxygenase domain. In Drosophila, MICAL is expressed in axons, interacts with the neuronal A (PlexA) receptor and is required for Semapho-rin 1a (Sema-1a)-PlexA-mediated repulsive axon guidance. The LIM domain and calporin homology domain are known for interactions with the cytoskeleton, cytoskeletal adaptor proteins, and other signaling proteins. The flavoprotein monooxygenase (MO) is required for semaphorin-plexin repulsive axon guidance during axonal pathfinding in the Drosophila neuromuscular system. In addition, MICAL was characterized to interact with Rab13 and Rab8 to coordinate the assembly of tight junctions and adherens junctions in epithelial cells. Thus, MICAL was also named junctional Rab13-binding protein (JRAB). 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|188721 cd09335, LIM5_PINCH, The fifth LIM domain of protein PINCH

 Score = 34.6 bits (80), Expect = 0.003
 Identities = 21/56 (37%), Positives = 26/56 (46%), Gaps = 3/56 (5%)

Query: 114 CGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPL-QDIGFVEEDSGLYCEFCFE 168
           C  C Q I G  ++AL K WC DHF C    C   L     F E D    C+ C++
Sbjct: 1   CYHCNQVIEGDVVSALNKTWCVDHFSC--SFCDTKLTLKSKFYEFDMKPVCKKCYD 54

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

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

 Score = 34.9 bits (81), Expect = 0.003
 Identities = 17/49 (34%), Positives = 24/49 (48%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYC 211
           C  C E   + +   A GK++H + F C  C +  G   + L EG PYC
Sbjct: 3   CAACDELIFSGEYTQAEGKNWHLKHFCCFQCDEPLGGQRYVLREGKPYC 51

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

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

 Score = 34.5 bits (80), Expect = 0.004
 Identities = 11/35 (31%), Positives = 17/35 (48%)

Query: 181 KHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDW 215
             +HP CF C  C +L  +  +F  +G  YC   +
Sbjct: 24  ACWHPGCFVCETCNELLVDLIYFYHDGKIYCGRHY 58

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	282
KOG1701|consensus	468		99.98
KOG2272|consensus	332		99.93
KOG1044|consensus	670		99.91
KOG1703|consensus	479		99.9
KOG2272|consensus	332		99.9
KOG4577|consensus	383		99.81
KOG1044|consensus	670		99.8
KOG1701|consensus	468		99.78
KOG4577|consensus	383		99.69
KOG1703|consensus	479		99.63
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.25
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.24
KOG1700|consensus	200		98.97
smart00735	26	ZM ZASP-like motif. Short motif (26 amino acids) p	98.86
KOG1700|consensus	200		98.8
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.56
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.41
KOG0490|consensus	235		97.58
KOG1702|consensus	264		97.18
KOG1702|consensus	264		96.22
KOG0490|consensus	235		96.04
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	83.39
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	82.18
PF09943	101	DUF2175: Uncharacterized protein conserved in arch	81.83
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	80.59

>KOG1701|consensus

Probab=99.98  E-value=2.3e-33  Score=250.55  Aligned_cols=169  Identities=28%  Similarity=0.657  Sum_probs=148.7

Q ss_pred             CCCCCCcccccCccccC--ceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCC----------c
Q psy11345        107 PGARVPLCGQCYQQIRG--PFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAP----------D  174 (282)
Q Consensus       107 ~~~~~~~C~~C~~~I~~--~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~----------~  174 (282)
                      ....+.+|.+|++.|.|  ..+.||++.||.+||+|.  .|++.|..+.||.+++++||+.||.....+          +
T Consensus       270 ~~~~~~iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~--~C~r~L~Gq~FY~v~~k~~CE~cyq~tlekC~~Cg~~I~d~  347 (468)
T KOG1701|consen  270 VEDYFGICAFCHKTVSGQGLAVEAMDQLFHVQCFTCR--TCRRQLAGQSFYQVDGKPYCEGCYQDTLEKCNKCGEPIMDR  347 (468)
T ss_pred             hhhhhhhhhhcCCcccCcchHHHHhhhhhcccceehH--hhhhhhccccccccCCcccchHHHHHHHHHHhhhhhHHHHH
Confidence            33455699999999975  469999999999999999  999999999999999999999999765543          3


Q ss_pred             eeeecCccccccCccCCccCcccCCCCeeee-CCeecCHhhhhcccCCCCccCCCccccCC-----cEEEeCCcccccCC
Q psy11345        175 CLNAIGKHYHPECFTCAYCGKLFGNNPFFLE-EGLPYCENDWNDLFTTKCFACGFPIEAGD-----RWVEALNNNYHSLC  248 (282)
Q Consensus       175 ~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~-~~~~yC~~c~~~~~~~~C~~C~~~I~~~~-----~~~~~~~~~~H~~C  248 (282)
                      .++|.|+.||+.||+|.+|++.|++..|.+. ++++||..||+++|+++|..|+++|.+.+     ..|.++++.||.+|
T Consensus       348 iLrA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfAPrCs~C~~PI~P~~G~~etvRvvamdr~fHv~C  427 (468)
T KOG1701|consen  348 ILRALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFAPRCSVCGNPILPRDGKDETVRVVAMDRDFHVNC  427 (468)
T ss_pred             HHHhcccccCCCceEEEEeccccCCccccccCCCceeeehhhhhhcCcchhhccCCccCCCCCcceEEEEEccccccccc
Confidence            4889999999999999999999999889885 68999999999999999999999999732     34678999999999


Q ss_pred             CcCCCCCCCCCCCCcccccCCceecCCCeeecC
Q psy11345        249 FNCSSPSSPALSGAKPYGTQNTIKSTSGTIVCL  281 (282)
Q Consensus       249 f~C~~C~~~l~~g~~~~~~~~~~~~~~g~~~C~  281 (282)
                      ++|..|+..|. .+   .+....|..||.++|+
T Consensus       428 Y~CEDCg~~LS-~e---~e~qgCyPld~HllCk  456 (468)
T KOG1701|consen  428 YKCEDCGLLLS-SE---EEGQGCYPLDGHLLCK  456 (468)
T ss_pred             eehhhcCcccc-cc---CCCCcceeccCceeec
Confidence            99999999954 22   4566788999999997

>KOG2272|consensus

Probab=99.93  E-value=4.9e-28  Score=202.72  Aligned_cols=159  Identities=35%  Similarity=0.694  Sum_probs=138.2

Q ss_pred             CcccccCccccCceeecCCcccCcCCcccccCCCCCCCCCCCceecCCcccccccccc----------------------
Q psy11345        112 PLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQ----------------------  169 (282)
Q Consensus       112 ~~C~~C~~~I~~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~----------------------  169 (282)
                      |.|.+|+..|.|++|++++.+|||.||+|.  .|.+.|.+.+|+-..|+.+|..|..+                      
T Consensus        74 PcC~kC~EFiiGrVikamnnSwHp~CF~Cd--~Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~~~  151 (332)
T KOG2272|consen   74 PCCGKCGEFIIGRVIKAMNNSWHPACFRCD--LCNKHLADQGFYRNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDEQP  151 (332)
T ss_pred             hhhcccccchhhHHHHhhccccCcccchhH--HHHHHHhhhhhHhhcchHHhhhhhhhhcccccceeehhhhhhhccccc
Confidence            699999999999999999999999999999  99999988888777776666665543                      


Q ss_pred             -----------------------------------------ccCC-----------ceeeecCccccccCccCCccCccc
Q psy11345        170 -----------------------------------------YLAP-----------DCLNAIGKHYHPECFTCAYCGKLF  197 (282)
Q Consensus       170 -----------------------------------------~~~~-----------~~~~~~~~~~H~~Cf~C~~C~~~l  197 (282)
                                                               ..-+           ..+.++|++||.+.|+|+.|.+++
T Consensus       152 l~fr~d~yH~yHFkCt~C~keL~sdaRevk~eLyClrChD~mgipiCgaC~rpIeervi~amgKhWHveHFvCa~CekPF  231 (332)
T KOG2272|consen  152 LTFRGDPYHPYHFKCTTCGKELTSDAREVKGELYCLRCHDKMGIPICGACRRPIEERVIFAMGKHWHVEHFVCAKCEKPF  231 (332)
T ss_pred             ccccCCCCCccceecccccccccchhhhhccceeccccccccCCcccccccCchHHHHHHHhccccchhheeehhcCCcc
Confidence                                                     1111           115678999999999999999999


Q ss_pred             CCCCeeeeCCeecCHhhhhcccCCCCccCCCccccCCcEEEeCCcccccCCCcCCCCCCCCCCCCcccccCCceecCCCe
Q psy11345        198 GNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKSTSGT  277 (282)
Q Consensus       198 ~~~~f~~~~~~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~g~~~~~~~~~~~~~~g~  277 (282)
                      -+.+.|.+.|..||+.+|.++|+..|..|+..|.  ..++.+.++.|.++||+|+.|++.|....+||       +.|.+
T Consensus       232 lGHrHYEkkGlaYCe~h~~qLfG~~CF~C~~~i~--G~vv~al~KawCv~cf~Cs~Cdkkl~~K~Kf~-------E~Dmk  302 (332)
T KOG2272|consen  232 LGHRHYEKKGLAYCETHYHQLFGNLCFICNRVIG--GDVVSALNKAWCVECFSCSTCDKKLTQKNKFY-------EFDMK  302 (332)
T ss_pred             cchhhhhhcCchhHHHHHHHHhhhhheecCCccC--ccHHHHhhhhhcccccccccccccccccccee-------eeccc
Confidence            9888999999999999999999999999999997  45888999999999999999999976666666       88888


Q ss_pred             eecC
Q psy11345        278 IVCL  281 (282)
Q Consensus       278 ~~C~  281 (282)
                      ++|+
T Consensus       303 P~CK  306 (332)
T KOG2272|consen  303 PVCK  306 (332)
T ss_pred             hHHH
Confidence            8886

>KOG1044|consensus

Probab=99.91  E-value=1.5e-25  Score=206.75  Aligned_cols=156  Identities=27%  Similarity=0.575  Sum_probs=139.3

Q ss_pred             cccCccccCceeecCCcccCcCCcccccCCCCCCCCCCCceecC---------------------CccccccccccccCC
Q psy11345        115 GQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEED---------------------SGLYCEFCFEQYLAP  173 (282)
Q Consensus       115 ~~C~~~I~~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~---------------------~~~yC~~c~~~~~~~  173 (282)
                      ..|...|.+.+|.++|++||+.||.|+  .|..++....-....                     +---|..|...+...
T Consensus        69 ~~c~~~~~gevvsa~gktyh~~cf~cs--~ck~pf~~g~~vt~~gk~~~c~~c~~~~~~~p~~~~~ps~cagc~~~lk~g  146 (670)
T KOG1044|consen   69 DDCRAFVEGEVVSTLGKTYHPKCFSCS--TCKSPFKSGDKVTFSGKECLCQTCSQPMPVSPAESYGPSTCAGCGEELKNG  146 (670)
T ss_pred             cchhhhccceeEecccceeccccceec--ccCCCCCCCCeeeecchhhhhhhhcCcccCCcccccCCccccchhhhhhcc
Confidence            779999999999999999999999999  999999765433222                     223466677777777


Q ss_pred             ceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCccCCCccccCCcEEEeCCcccccCCCcCCC
Q psy11345        174 DCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSS  253 (282)
Q Consensus       174 ~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~  253 (282)
                      ..+.|+++.||+.||+|..|...|.+ +|+.+++.+||+.||.+.|+-+|..|.+.|.  .+++.+.+++||+.|-+|..
T Consensus       147 q~llald~qwhv~cfkc~~c~~vL~g-ey~skdg~pyce~dy~~~fgvkc~~c~~fis--gkvLqag~kh~HPtCARCsR  223 (670)
T KOG1044|consen  147 QALLALDKQWHVSCFKCKSCSAVLNG-EYMSKDGVPYCEKDYQAKFGVKCEECEKFIS--GKVLQAGDKHFHPTCARCSR  223 (670)
T ss_pred             ceeeeeccceeeeeeehhhhcccccc-eeeccCCCcchhhhhhhhcCeehHHhhhhhh--hhhhhccCcccCcchhhhhh
Confidence            88999999999999999999999964 7899999999999999999999999999998  68999999999999999999


Q ss_pred             CCCCCCCCCcccccCCceecCC
Q psy11345        254 PSSPALSGAKPYGTQNTIKSTS  275 (282)
Q Consensus       254 C~~~l~~g~~~~~~~~~~~~~~  275 (282)
                      |+.+|.+|++.|+..+.+|+-+
T Consensus       224 CgqmF~eGEEMYlQGs~iWHP~  245 (670)
T KOG1044|consen  224 CGQMFGEGEEMYLQGSEIWHPD  245 (670)
T ss_pred             hccccccchheeeccccccCCc
Confidence            9999999999999999999876

>KOG1703|consensus

Probab=99.90  E-value=4.3e-25  Score=209.90  Aligned_cols=161  Identities=42%  Similarity=0.859  Sum_probs=149.5

Q ss_pred             CCcccccCccccC-ceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCCce-----------eee
Q psy11345        111 VPLCGQCYQQIRG-PFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDC-----------LNA  178 (282)
Q Consensus       111 ~~~C~~C~~~I~~-~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~~-----------~~~  178 (282)
                      .+.|..|++.|.+ +++.++++.||+.+|.|.  .|...+....+...+|.+||..|+...+.+.|           |.+
T Consensus       303 ~p~c~~c~~~i~~~~~i~~~~~~~h~~~~~c~--~~~~~~~~~~~~~~~g~~~c~~~~~~~~~p~C~~C~~~i~~~~v~a  380 (479)
T KOG1703|consen  303 RPLCLSCNQKIRSVKVIVALGKEWHPEHFSCE--VCAIVILDGGPRELDGKILCHECFHAPFRPNCKRCLLPILEEGVCA  380 (479)
T ss_pred             cccccccccCcccceeEeeccccccccceeec--cccccccCCCccccCCCccHHHHHHHhhCccccccCCchHHhHhhh
Confidence            3899999999999 999999999999999999  99999999999999999999999998888744           778


Q ss_pred             cCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCccCCCccccCCcEEEeCCcccccCCCcCCCCCCCC
Q psy11345        179 IGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPA  258 (282)
Q Consensus       179 ~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l  258 (282)
                      ++..||++||.|..|++.|.+..|++.++.+||+.||++++.++|..|+++|..++..+.+++..||..||+|..|.+. 
T Consensus       381 ~~~~wH~~cf~C~~C~~~~~~~~~~~~~~~pyce~~~~~~~~~~~~~~~~p~~~~~~~ie~~~~~~h~~~F~c~~c~~~-  459 (479)
T KOG1703|consen  381 LGRLWHPECFVCADCGKPLKNSSFFESDGEPYCEDHYKKLFTTKCDYCKKPVEFGSRQIEADGSPFHGDCFRCANCMKK-  459 (479)
T ss_pred             ccCeechhceeeecccCCCCCCcccccCCccchhhhHhhhccccchhccchhHhhhhHhhccCccccccceehhhhhcc-
Confidence            8999999999999999999999999999999999999999999999999999988999999999999999999999999 


Q ss_pred             CCCCcccccCCceecCCCeeecC
Q psy11345        259 LSGAKPYGTQNTIKSTSGTIVCL  281 (282)
Q Consensus       259 ~~g~~~~~~~~~~~~~~g~~~C~  281 (282)
                      +.++.|+       ...++++|.
T Consensus       460 l~~~~~~-------~~~~~p~c~  475 (479)
T KOG1703|consen  460 LTKKTFF-------ETLDKPLCQ  475 (479)
T ss_pred             ccCCcee-------ecCCccccc
Confidence            6666566       777777775

>KOG2272|consensus

Probab=99.90  E-value=1.4e-26  Score=194.01  Aligned_cols=160  Identities=29%  Similarity=0.628  Sum_probs=135.5

Q ss_pred             CCCcccccCccc--cCceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCCc-----------ee
Q psy11345        110 RVPLCGQCYQQI--RGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPD-----------CL  176 (282)
Q Consensus       110 ~~~~C~~C~~~I--~~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~-----------~~  176 (282)
                      ...+|.+|....  ..++|...|..||..||.|+  +|-.|+.+..||..+|+.||+.+++-++++-           ++
T Consensus        11 ~~~~C~RC~~gF~~~e~~vns~ge~wH~~CFvCA--QCf~pf~~g~~~efEgRkYCEhDF~~LfaPcC~kC~EFiiGrVi   88 (332)
T KOG2272|consen   11 ANMVCERCRDGFEPAEKIVNSNGELWHEQCFVCA--QCFRPFPDGIFYEFEGRKYCEHDFHVLFAPCCGKCGEFIIGRVI   88 (332)
T ss_pred             HHHHHHHHhccCCchhhhhccCchhhHHHHHHHH--HhcCcCCCceeEEecCcccccccchhhhchhhcccccchhhHHH
Confidence            446899999887  46789999999999999999  9999999999999999999999999999983           37


Q ss_pred             eecCccccccCccCCccCcccCCCCeeeeCCe------------------------------------------------
Q psy11345        177 NAIGKHYHPECFTCAYCGKLFGNNPFFLEEGL------------------------------------------------  208 (282)
Q Consensus       177 ~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~------------------------------------------------  208 (282)
                      .+.+..||+.||+|..|++.|.+..|+...|.                                                
T Consensus        89 kamnnSwHp~CF~Cd~Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~~~l~fr~d~yH~yHFkCt~  168 (332)
T KOG2272|consen   89 KAMNNSWHPACFRCDLCNKHLADQGFYRNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDEQPLTFRGDPYHPYHFKCTT  168 (332)
T ss_pred             HhhccccCcccchhHHHHHHHhhhhhHhhcchHHhhhhhhhhcccccceeehhhhhhhcccccccccCCCCCccceeccc
Confidence            78899999999999999888876555544444                                                


Q ss_pred             ---------------ecCHhhhhcccCCCCccCCCccccCCcEEEeCCcccccCCCcCCCCCCCCCCCCcccccCCceec
Q psy11345        209 ---------------PYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKS  273 (282)
Q Consensus       209 ---------------~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~g~~~~~~~~~~~~  273 (282)
                                     +||..|+.++-.+.|..|++||.  +++|.++|++||.++|+|+.|.++|+.-        +.++
T Consensus       169 C~keL~sdaRevk~eLyClrChD~mgipiCgaC~rpIe--ervi~amgKhWHveHFvCa~CekPFlGH--------rHYE  238 (332)
T KOG2272|consen  169 CGKELTSDAREVKGELYCLRCHDKMGIPICGACRRPIE--ERVIFAMGKHWHVEHFVCAKCEKPFLGH--------RHYE  238 (332)
T ss_pred             ccccccchhhhhccceeccccccccCCcccccccCchH--HHHHHHhccccchhheeehhcCCcccch--------hhhh
Confidence                           55555555555688999999998  8899999999999999999999996543        4668


Q ss_pred             CCCeeecC
Q psy11345        274 TSGTIVCL  281 (282)
Q Consensus       274 ~~g~~~C~  281 (282)
                      .+|..||.
T Consensus       239 kkGlaYCe  246 (332)
T KOG2272|consen  239 KKGLAYCE  246 (332)
T ss_pred             hcCchhHH
Confidence            89999985

>KOG4577|consensus

Probab=99.81  E-value=7.4e-22  Score=168.44  Aligned_cols=117  Identities=27%  Similarity=0.523  Sum_probs=106.5

Q ss_pred             CccccccccccccCCceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCccCCCccccCCcEEE
Q psy11345        159 SGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVE  238 (282)
Q Consensus       159 ~~~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~  238 (282)
                      ..+.|..|.+.|.++..+++++++||..|++|++|+.+|.. .+|.+++.+||+++|.++|+++|..|...|.+...+.+
T Consensus        32 eip~CagC~q~IlDrFilKvl~R~wHs~CLkCs~C~~qL~d-rCFsR~~s~yCkedFfKrfGTKCsaC~~GIpPtqVVRk  110 (383)
T KOG4577|consen   32 EIPICAGCDQHILDRFILKVLDRHWHSSCLKCSDCHDQLAD-RCFSREGSVYCKEDFFKRFGTKCSACQEGIPPTQVVRK  110 (383)
T ss_pred             ccccccchHHHHHHHHHHHHHhhhhhhhhcchhhhhhHHHH-HHhhcCCceeehHHHHHHhCCcchhhcCCCChHHHHHH
Confidence            56889999999999999999999999999999999999975 56788999999999999999999999999998655557


Q ss_pred             eCCcccccCCCcCCCCCCCCCCCCcccccCCceecCCCeeecCC
Q psy11345        239 ALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKSTSGTIVCLE  282 (282)
Q Consensus       239 ~~~~~~H~~Cf~C~~C~~~l~~g~~~~~~~~~~~~~~g~~~C~~  282 (282)
                      +.+..||..||.|.+|++.|..|++||+      ..|++++||+
T Consensus       111 Aqd~VYHl~CF~C~iC~R~L~TGdEFYL------meD~rLvCK~  148 (383)
T KOG4577|consen  111 AQDFVYHLHCFACFICKRQLATGDEFYL------MEDARLVCKD  148 (383)
T ss_pred             hhcceeehhhhhhHhhhcccccCCeeEE------eccceeehhh
Confidence            9999999999999999999999999995      4568999974

>KOG1044|consensus

Probab=99.80  E-value=6e-20  Score=169.92  Aligned_cols=158  Identities=25%  Similarity=0.562  Sum_probs=133.9

Q ss_pred             CcccccCccccCceeecCCcccCcCCcccccCCCCCCCCCCCceecCC-ccccccccccccCCceeeecCccccccCccC
Q psy11345        112 PLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDS-GLYCEFCFEQYLAPDCLNAIGKHYHPECFTC  190 (282)
Q Consensus       112 ~~C~~C~~~I~~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~-~~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C  190 (282)
                      ..|.+|++.-.|+++++.++.||..||.|.  .|+..|...+||.+++ +.||..........+++.++|+.||+.||.|
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 IKCDKCRKKCSGEVLRVNDNHFHINCFQCK--KCGRNLAEGGFFTKPENRLYGTDDCRAFVEGEVVSTLGKTYHPKCFSC   94 (670)
T ss_pred             eehhhhCCccccceeEeeccccceeeeecc--ccCCCcccccceecccceeecccchhhhccceeEecccceecccccee
Confidence            489999999999999999999999999999  9999999999997765 5677755555566688999999999999999


Q ss_pred             CccCcccCCCC-eeeeCCeecCHhhhhcc--------cCCCCccCCCccccCCcEEEeCCcccccCCCcCCCCCCCCCCC
Q psy11345        191 AYCGKLFGNNP-FFLEEGLPYCENDWNDL--------FTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSG  261 (282)
Q Consensus       191 ~~C~~~l~~~~-f~~~~~~~yC~~c~~~~--------~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~g  261 (282)
                      +.|+.++..+. ..+......|+.|..-.        ....|++|++.|..| ..+.+.++.||..||+|..|+.. |.|
T Consensus        95 s~ck~pf~~g~~vt~~gk~~~c~~c~~~~~~~p~~~~~ps~cagc~~~lk~g-q~llald~qwhv~cfkc~~c~~v-L~g  172 (670)
T KOG1044|consen   95 STCKSPFKSGDKVTFSGKECLCQTCSQPMPVSPAESYGPSTCAGCGEELKNG-QALLALDKQWHVSCFKCKSCSAV-LNG  172 (670)
T ss_pred             cccCCCCCCCCeeeecchhhhhhhhcCcccCCcccccCCccccchhhhhhcc-ceeeeeccceeeeeeehhhhccc-ccc
Confidence            99999997666 55566678899995432        224799999999875 57789999999999999999999 777


Q ss_pred             CcccccCCceecCCCeeecC
Q psy11345        262 AKPYGTQNTIKSTSGTIVCL  281 (282)
Q Consensus       262 ~~~~~~~~~~~~~~g~~~C~  281 (282)
                      +        +..+||.+||.
T Consensus       173 e--------y~skdg~pyce  184 (670)
T KOG1044|consen  173 E--------YMSKDGVPYCE  184 (670)
T ss_pred             e--------eeccCCCcchh
Confidence            6        34788888885

>KOG1701|consensus

Probab=99.78  E-value=7.1e-21  Score=170.71  Aligned_cols=110  Identities=32%  Similarity=0.744  Sum_probs=100.1

Q ss_pred             ccccccccccCC-ceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCccCCCccccCCcEEEeC
Q psy11345        162 YCEFCFEQYLAP-DCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEAL  240 (282)
Q Consensus       162 yC~~c~~~~~~~-~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~  240 (282)
                      .|..|.+.+++. ....|+++.||..||+|..|++.|.+..||..++++||+.||.... .||..|+++|.  |++++++
T Consensus       276 iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~v~~k~~CE~cyq~tl-ekC~~Cg~~I~--d~iLrA~  352 (468)
T KOG1701|consen  276 ICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQVDGKPYCEGCYQDTL-EKCNKCGEPIM--DRILRAL  352 (468)
T ss_pred             hhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccccccCCcccchHHHHHHH-HHHhhhhhHHH--HHHHHhc
Confidence            788888888776 3478899999999999999999999999999999999999998876 89999999999  8999999


Q ss_pred             CcccccCCCcCCCCCCCCCCCCcccccCCceecCCCeeecC
Q psy11345        241 NNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKSTSGTIVCL  281 (282)
Q Consensus       241 ~~~~H~~Cf~C~~C~~~l~~g~~~~~~~~~~~~~~g~~~C~  281 (282)
                      |+.||+.||+|.+|.+. |+|..|.+      +.++++||.
T Consensus       353 GkayHp~CF~Cv~C~r~-ldgipFtv------d~~n~v~Cv  386 (468)
T KOG1701|consen  353 GKAYHPGCFTCVVCARC-LDGIPFTV------DSQNNVYCV  386 (468)
T ss_pred             ccccCCCceEEEEeccc-cCCccccc------cCCCceeee
Confidence            99999999999999999 88887774      667788886

>KOG4577|consensus

Probab=99.69  E-value=9.2e-19  Score=149.62  Aligned_cols=111  Identities=26%  Similarity=0.688  Sum_probs=98.7

Q ss_pred             CCCcccccCccccCce-eecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCCce-------------
Q psy11345        110 RVPLCGQCYQQIRGPF-ITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDC-------------  175 (282)
Q Consensus       110 ~~~~C~~C~~~I~~~~-v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~~-------------  175 (282)
                      ..++|++|.+.|.++| ++++++.||..|++|+  +|..+|.+ .+|.+++..||+.++.+.|+.+|             
T Consensus        32 eip~CagC~q~IlDrFilKvl~R~wHs~CLkCs--~C~~qL~d-rCFsR~~s~yCkedFfKrfGTKCsaC~~GIpPtqVV  108 (383)
T KOG4577|consen   32 EIPICAGCDQHILDRFILKVLDRHWHSSCLKCS--DCHDQLAD-RCFSREGSVYCKEDFFKRFGTKCSACQEGIPPTQVV  108 (383)
T ss_pred             ccccccchHHHHHHHHHHHHHhhhhhhhhcchh--hhhhHHHH-HHhhcCCceeehHHHHHHhCCcchhhcCCCChHHHH
Confidence            4579999999999998 5899999999999999  99999987 68899999999999999999977             


Q ss_pred             eeecCccccccCccCCccCcccCCCC-eee-eCCeecCHhhhhcccCCCC
Q psy11345        176 LNAIGKHYHPECFTCAYCGKLFGNNP-FFL-EEGLPYCENDWNDLFTTKC  223 (282)
Q Consensus       176 ~~~~~~~~H~~Cf~C~~C~~~l~~~~-f~~-~~~~~yC~~c~~~~~~~~C  223 (282)
                      .+|.+.+||.+||.|..|+++|.+++ ||+ .|.++.|+.+|++.-..-|
T Consensus       109 RkAqd~VYHl~CF~C~iC~R~L~TGdEFYLmeD~rLvCK~DYE~Ak~k~~  158 (383)
T KOG4577|consen  109 RKAQDFVYHLHCFACFICKRQLATGDEFYLMEDARLVCKDDYETAKQKHC  158 (383)
T ss_pred             HHhhcceeehhhhhhHhhhcccccCCeeEEeccceeehhhhHHHHHhccc
Confidence            45789999999999999999997766 665 6789999999988665555

>KOG1703|consensus

Probab=99.63  E-value=2.4e-16  Score=150.13  Aligned_cols=157  Identities=21%  Similarity=0.366  Sum_probs=131.7

Q ss_pred             ccccCccccCceeecCCcccCcCCcccccCCCCCCCCCCCceecCCc------------cccccccccccCCceeeecCc
Q psy11345        114 CGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSG------------LYCEFCFEQYLAPDCLNAIGK  181 (282)
Q Consensus       114 C~~C~~~I~~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~------------~yC~~c~~~~~~~~~~~~~~~  181 (282)
                      |..+..++.+..+.+....||+..|.|.. .+...+....++.....            +.|..|...+.....+.+.++
T Consensus       246 ~~~~~~p~~~p~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~c~~c~~~i~~~~~i~~~~~  324 (479)
T KOG1703|consen  246 SASMDSPECQPLVSAPRPASEGLHMKVEK-ELPLLLVESEALKKLREEEKPAEYHNVTRPLCLSCNQKIRSVKVIVALGK  324 (479)
T ss_pred             CcccCCCccCcceeccccccccccccccc-ccchhhcccccccccccccccccccccccccccccccCcccceeEeeccc
Confidence            66677778788888999999999999973 67777766666554443            556666677666678899999


Q ss_pred             cccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCccCCCccccCCcEEEeCCcccccCCCcCCCCCCCCCCC
Q psy11345        182 HYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSG  261 (282)
Q Consensus       182 ~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~g  261 (282)
                      .||+.+|.|..|+..+....|...+|++||..|+.+.+.++|.+|.++|.  ++.|.+.++.||++||.|..|.+. +.+
T Consensus       325 ~~h~~~~~c~~~~~~~~~~~~~~~~g~~~c~~~~~~~~~p~C~~C~~~i~--~~~v~a~~~~wH~~cf~C~~C~~~-~~~  401 (479)
T KOG1703|consen  325 EWHPEHFSCEVCAIVILDGGPRELDGKILCHECFHAPFRPNCKRCLLPIL--EEGVCALGRLWHPECFVCADCGKP-LKN  401 (479)
T ss_pred             cccccceeeccccccccCCCccccCCCccHHHHHHHhhCccccccCCchH--HhHhhhccCeechhceeeecccCC-CCC
Confidence            99999999999999999888988999999999999999999999999999  778889999999999999999777 555


Q ss_pred             CcccccCCceecCCCeeecC
Q psy11345        262 AKPYGTQNTIKSTSGTIVCL  281 (282)
Q Consensus       262 ~~~~~~~~~~~~~~g~~~C~  281 (282)
                      ..||       ..+|.+||.
T Consensus       402 ~~~~-------~~~~~pyce  414 (479)
T KOG1703|consen  402 SSFF-------ESDGEPYCE  414 (479)
T ss_pred             Cccc-------ccCCccchh
Confidence            5555       777777774

>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=99.25  E-value=2.4e-12  Score=87.16  Aligned_cols=56  Identities=39%  Similarity=0.982  Sum_probs=50.1

Q ss_pred             ccccCccccCc-e-eecCCcccCcCCcccccCCCCCCCCCCCceecCCcccccccccccc
Q psy11345        114 CGQCYQQIRGP-F-ITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYL  171 (282)
Q Consensus       114 C~~C~~~I~~~-~-v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~  171 (282)
                      |.+|+++|.+. . +.++|+.||++||+|.  .|+++|....++..++++||+.|+.+.|
T Consensus         1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~--~C~~~l~~~~~~~~~~~~~C~~c~~~~f   58 (58)
T PF00412_consen    1 CARCGKPIYGTEIVIKAMGKFWHPECFKCS--KCGKPLNDGDFYEKDGKPYCKDCYQKRF   58 (58)
T ss_dssp             BTTTSSBESSSSEEEEETTEEEETTTSBET--TTTCBTTTSSEEEETTEEEEHHHHHHHT
T ss_pred             CCCCCCCccCcEEEEEeCCcEEEccccccC--CCCCccCCCeeEeECCEEECHHHHhhhC
Confidence            78999999753 3 4699999999999999  9999999988999999999999997653

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=99.24  E-value=8e-12  Score=84.55  Aligned_cols=57  Identities=35%  Similarity=0.952  Sum_probs=48.7

Q ss_pred             cccccccccCCcee-eecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhccc
Q psy11345        163 CEFCFEQYLAPDCL-NAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLF  219 (282)
Q Consensus       163 C~~c~~~~~~~~~~-~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~  219 (282)
                      |..|.+.+.....+ .+.++.||++||+|..|+++|....|+..++++||+.||.++|
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            45566666655544 6899999999999999999999888999999999999998875

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=98.97  E-value=7.2e-11  Score=99.79  Aligned_cols=112  Identities=24%  Similarity=0.513  Sum_probs=90.0

Q ss_pred             cccccccccccCCceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccC--------------------
Q psy11345        161 LYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFT--------------------  220 (282)
Q Consensus       161 ~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~--------------------  220 (282)
                      .-|..|.+.++..+-+...|..||..||+|..|++.|....+...++.+||..||...++                    
T Consensus         8 ~kc~~c~k~vy~~e~~~~~g~~~hk~c~~c~~~~k~l~~~~~~~~e~~~yc~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (200)
T KOG1700|consen    8 DKCNACGKTVYFVEKVQKDGVDFHKECFKCEKCKKTLTLSGYSEHEGVPYCKNCHVAQFGPKGGGFGKGFQKAGGLGKDG   87 (200)
T ss_pred             chhhhccCcchHHHHHhccCcchhhhHHhccccccccccccccccccccccccchHhhhCcccccccccccccCCCCccc
Confidence            357777777777766667899999999999999999999889999999999996555443                    


Q ss_pred             ---------------------CCCccCCCccccCCcEEEeCCcccccCCCcCCCCCCCCCCCCcccccCCceecCCCeee
Q psy11345        221 ---------------------TKCFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKSTSGTIV  279 (282)
Q Consensus       221 ---------------------~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~g~~~~~~~~~~~~~~g~~~  279 (282)
                                           ..|.+|++.+.+.+ .+...+..||..||+|..|+..|        +...+...+|.++
T Consensus        88 ~~~~~~~~~~~~~~~~~~g~~~~c~~c~k~vy~~E-k~~~~~~~~hk~cfrc~~~~~~l--------s~~~~~~~~g~l~  158 (200)
T KOG1700|consen   88 KSLNESKPNQSAKFQVFAGEKEKCARCQKTVYPLE-KVTGNGLEFHKSCFRCTHCGKKL--------SPKNYAALEGVLY  158 (200)
T ss_pred             ccccccccccchhHHhhhccccccccccceeeehH-HHhhhhhhhhhhheeeccccccc--------CCcchhhcCCccc
Confidence                                 36999999998644 45578999999999999999994        3334556666777


Q ss_pred             cC
Q psy11345        280 CL  281 (282)
Q Consensus       280 C~  281 (282)
                      |+
T Consensus       159 ~~  160 (200)
T KOG1700|consen  159 CK  160 (200)
T ss_pred             cc
Confidence            65

>smart00735 ZM ZASP-like motif

Probab=98.86  E-value=7.3e-10  Score=62.07  Aligned_cols=26  Identities=65%  Similarity=1.054  Sum_probs=23.5

Q ss_pred             ccccccccCCcccCchhHHHHHHHHh
Q psy11345          8 QLVNKQYNSPVGIYSEESIAETLSAQ   33 (282)
Q Consensus         8 ~~~~~qyn~p~~lys~~ni~~~~~~~   33 (282)
                      +|+|+|||+|+||||++||+++|.+|
T Consensus         1 ~vv~~qyn~P~glys~~n~~~~l~~~   26 (26)
T smart00735        1 RVVHKQYNSPIGLYSSENIAETLQGQ   26 (26)
T ss_pred             CccccccCCCCCCCCcccHHHhhccC
Confidence            58999999999999999999998754

Short motif (26 amino acids) present in an alpha-actinin-binding protein, ZASP, and similar molecules.

>KOG1700|consensus

Probab=98.80  E-value=1.2e-09  Score=92.41  Aligned_cols=106  Identities=27%  Similarity=0.680  Sum_probs=88.2

Q ss_pred             CcccccCcccc-CceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCC-----------------
Q psy11345        112 PLCGQCYQQIR-GPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAP-----------------  173 (282)
Q Consensus       112 ~~C~~C~~~I~-~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~-----------------  173 (282)
                      ..|..|++.+. -..+...|..||+.||+|.  .|...|....+...++.+||..|+-.++++                 
T Consensus         8 ~kc~~c~k~vy~~e~~~~~g~~~hk~c~~c~--~~~k~l~~~~~~~~e~~~yc~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (200)
T KOG1700|consen    8 DKCNACGKTVYFVEKVQKDGVDFHKECFKCE--KCKKTLTLSGYSEHEGVPYCKNCHVAQFGPKGGGFGKGFQKAGGLGK   85 (200)
T ss_pred             chhhhccCcchHHHHHhccCcchhhhHHhcc--ccccccccccccccccccccccchHhhhCcccccccccccccCCCCc
Confidence            48999999995 3455688999999999999  999999999999999999999975433332                 


Q ss_pred             ------------------------ce------------eeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhc
Q psy11345        174 ------------------------DC------------LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWND  217 (282)
Q Consensus       174 ------------------------~~------------~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~  217 (282)
                                              .|            +...+..||..||+|+.|+..|....+...++.+||..++.+
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~g~~~~c~~c~k~vy~~Ek~~~~~~~~hk~cfrc~~~~~~ls~~~~~~~~g~l~~~~~~~~  165 (200)
T KOG1700|consen   86 DGKSLNESKPNQSAKFQVFAGEKEKCARCQKTVYPLEKVTGNGLEFHKSCFRCTHCGKKLSPKNYAALEGVLYCKHHFAQ  165 (200)
T ss_pred             ccccccccccccchhHHhhhccccccccccceeeehHHHhhhhhhhhhhheeecccccccCCcchhhcCCccccchhhhe
Confidence                                    00            234578999999999999999999889998999999888776


Q ss_pred             cc
Q psy11345        218 LF  219 (282)
Q Consensus       218 ~~  219 (282)
                      ++
T Consensus       166 ~~  167 (200)
T KOG1700|consen  166 LF  167 (200)
T ss_pred             ee
Confidence            55

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

Probab=98.56  E-value=6e-08  Score=59.59  Aligned_cols=37  Identities=41%  Similarity=0.872  Sum_probs=33.3

Q ss_pred             CCccCCCccccCCcEEEeCCcccccCCCcCCCCCCCC
Q psy11345        222 KCFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPA  258 (282)
Q Consensus       222 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l  258 (282)
                      +|.+|+++|..++..+.+.++.||+.||+|..|+++|
T Consensus         1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L   37 (39)
T smart00132        1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPL   37 (39)
T ss_pred             CccccCCcccCCcEEEEeCCccccccCCCCcccCCcC
Confidence            5899999998655788899999999999999999984

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=98.41  E-value=1.9e-07  Score=57.31  Aligned_cols=36  Identities=44%  Similarity=1.066  Sum_probs=32.3

Q ss_pred             cccccCccccC--ceeecCCcccCcCCcccccCCCCCCCC
Q psy11345        113 LCGQCYQQIRG--PFITALGKIWCPDHFLCVRPQCKRPLQ  150 (282)
Q Consensus       113 ~C~~C~~~I~~--~~v~~~~~~~H~~Cf~C~~~~C~~~l~  150 (282)
                      .|.+|+++|.+  ..+.++++.||++||+|.  .|+.+|.
T Consensus         1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~--~C~~~L~   38 (39)
T smart00132        1 KCAGCGKPIRGGELVLRALGKVWHPECFKCS--KCGKPLG   38 (39)
T ss_pred             CccccCCcccCCcEEEEeCCccccccCCCCc--ccCCcCc
Confidence            48999999976  678899999999999999  9999885

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

>KOG0490|consensus

Probab=97.58  E-value=5.7e-06  Score=71.53  Aligned_cols=90  Identities=28%  Similarity=0.616  Sum_probs=76.1

Q ss_pred             eeeecCccccccCccCCccCcccC--CCCeeeeCCeecCHhhhhc--ccCCCCccCCCccccCCcEEEeCCcccccCCCc
Q psy11345        175 CLNAIGKHYHPECFTCAYCGKLFG--NNPFFLEEGLPYCENDWND--LFTTKCFACGFPIEAGDRWVEALNNNYHSLCFN  250 (282)
Q Consensus       175 ~~~~~~~~~H~~Cf~C~~C~~~l~--~~~f~~~~~~~yC~~c~~~--~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~  250 (282)
                      -+.+.+..||..|..|..|...|.  ...|.. ++..||..++..  .+..+|.+|.+.+...+.+..+..+. |..||.
T Consensus        11 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~~d~~~~~~~~~rr~rt~~~~~ql~~ler~f~~~-h~Pd~~   88 (235)
T KOG0490|consen   11 LLRVLDRYWHASCLKCAECDNPLGVGDTCFSK-DGSIYCKRDYQREFKFSKRCARCKFTISQLDELERAFEKV-HLPCFA   88 (235)
T ss_pred             HhhcccHHHHHHHHhhhhhcchhccCCCcccC-CCcccccccchhhhhccccccCCCCCcCHHHHHHHhhcCC-CcCccc
Confidence            344458999999999999999997  444656 999999999998  77889999999997666666777777 999999


Q ss_pred             CCCCCCCCCCCCcccc
Q psy11345        251 CSSPSSPALSGAKPYG  266 (282)
Q Consensus       251 C~~C~~~l~~g~~~~~  266 (282)
                      |..|...++.+.++.+
T Consensus        89 ~r~~la~~~~~~e~rV  104 (235)
T KOG0490|consen   89 CRECLALLLTGDEFRV  104 (235)
T ss_pred             hHHHHhhcCCCCeeee
Confidence            9999999888887763

>KOG1702|consensus

Probab=97.18  E-value=4.4e-05  Score=63.32  Aligned_cols=60  Identities=20%  Similarity=0.477  Sum_probs=51.5

Q ss_pred             cccccccccccCCceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccC
Q psy11345        161 LYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFT  220 (282)
Q Consensus       161 ~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~  220 (282)
                      .-|+.|.+..+..+-++.+++.||..||+|..|+..|....|...+.++||..+|.+..+
T Consensus         5 ~n~~~cgk~vYPvE~v~cldk~whk~cfkce~c~mtlnmKnyKgy~kkpycn~hYpkq~a   64 (264)
T KOG1702|consen    5 CNREDCGKTVYPVEEVKCLDKVWHKQCFKCEVCGMTLNMKNYKGYDKKPYCNPHYPKQVA   64 (264)
T ss_pred             chhhhhccccccHHHHhhHHHHHHHHhheeeeccCChhhhhccccccCCCcCccccccee
Confidence            446777777777777888899999999999999999988888889999999999987553

>KOG1702|consensus

Probab=96.22  E-value=0.00071  Score=56.26  Aligned_cols=59  Identities=20%  Similarity=0.390  Sum_probs=51.0

Q ss_pred             CcccccCccccC-ceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccC
Q psy11345        112 PLCGQCYQQIRG-PFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLA  172 (282)
Q Consensus       112 ~~C~~C~~~I~~-~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~  172 (282)
                      ..|..|++.+.- +-|+.+++.||..||.|.  .|+-+|....+-..+.++||..+|-...+
T Consensus         5 ~n~~~cgk~vYPvE~v~cldk~whk~cfkce--~c~mtlnmKnyKgy~kkpycn~hYpkq~a   64 (264)
T KOG1702|consen    5 CNREDCGKTVYPVEEVKCLDKVWHKQCFKCE--VCGMTLNMKNYKGYDKKPYCNPHYPKQVA   64 (264)
T ss_pred             chhhhhccccccHHHHhhHHHHHHHHhheee--eccCChhhhhccccccCCCcCccccccee
Confidence            467889998863 568999999999999999  99999999888889999999999965443

>KOG0490|consensus

Probab=96.04  E-value=0.0013  Score=56.62  Aligned_cols=100  Identities=23%  Similarity=0.508  Sum_probs=74.3

Q ss_pred             ccCccccCce-eecCCcccCcCCcccccCCCCCCCC-CCCceecCCcccccccccc--ccCCce-------------eee
Q psy11345        116 QCYQQIRGPF-ITALGKIWCPDHFLCVRPQCKRPLQ-DIGFVEEDSGLYCEFCFEQ--YLAPDC-------------LNA  178 (282)
Q Consensus       116 ~C~~~I~~~~-v~~~~~~~H~~Cf~C~~~~C~~~l~-~~~~~~~~~~~yC~~c~~~--~~~~~~-------------~~~  178 (282)
                      +|+..|.+.+ +.+.+..||..|..|.  .|...|. ....+..++..||...+..  .+...+             .++
T Consensus         1 ~~~~~~~~~~~l~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~g~~~~~~d~~~~~~~~~rr~rt~~~~~ql~~ler~   78 (235)
T KOG0490|consen    1 GCGRQILDRYLLRVLDRYWHASCLKCA--ECDNPLGVGDTCFSKDGSIYCKRDYQREFKFSKRCARCKFTISQLDELERA   78 (235)
T ss_pred             CCCccccchHHhhcccHHHHHHHHhhh--hhcchhccCCCcccCCCcccccccchhhhhccccccCCCCCcCHHHHHHHh
Confidence            4778888765 5677999999999999  9999996 3344444999999999886  333222             345


Q ss_pred             cCccccccCccCCccCcccCCCC-eeeeCC-eecCHhhhhcc
Q psy11345        179 IGKHYHPECFTCAYCGKLFGNNP-FFLEEG-LPYCENDWNDL  218 (282)
Q Consensus       179 ~~~~~H~~Cf~C~~C~~~l~~~~-f~~~~~-~~yC~~c~~~~  218 (282)
                      ..+. |..||.|..|...+.... +.+... +..|..++.+.
T Consensus        79 f~~~-h~Pd~~~r~~la~~~~~~e~rVqvwFqnrrak~r~~~  119 (235)
T KOG0490|consen   79 FEKV-HLPCFACRECLALLLTGDEFRVQVWFQNRRAKDRKEE  119 (235)
T ss_pred             hcCC-CcCccchHHHHhhcCCCCeeeeehhhhhhcHhhhhhh
Confidence            5666 999999999988775544 666654 88898887553

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=83.39  E-value=0.65  Score=30.53  Aligned_cols=38  Identities=29%  Similarity=0.586  Sum_probs=28.6

Q ss_pred             CCCCccCCCccccCCcEEE--eCCcccccCCC----cCCC--CCCC
Q psy11345        220 TTKCFACGFPIEAGDRWVE--ALNNNYHSLCF----NCSS--PSSP  257 (282)
Q Consensus       220 ~~~C~~C~~~I~~~~~~~~--~~~~~~H~~Cf----~C~~--C~~~  257 (282)
                      +.+|..|+++|.++|.+|.  .-+..||.+|+    .|..  |+..
T Consensus         5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~g~C~~~~c~~~   50 (54)
T PF14446_consen    5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKAGGCINYSCGTG   50 (54)
T ss_pred             CccChhhCCcccCCCCEEECCCCCCcccHHHHhhCCceEeccCCCC
Confidence            5789999999986665654  35899999999    3665  5554

>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=82.18  E-value=1.1  Score=33.39  Aligned_cols=30  Identities=30%  Similarity=0.470  Sum_probs=20.5

Q ss_pred             CCCccCCCccccCCcEEEeCCcccccCCCc
Q psy11345        221 TKCFACGFPIEAGDRWVEALNNNYHSLCFN  250 (282)
Q Consensus       221 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~  250 (282)
                      ..|..|+++|..+..++...|..+|..|++
T Consensus        79 ~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   79 TKCSVCGKPLGNSVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence            578888888875433444456778888764

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 [].

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

Probab=81.83  E-value=0.36  Score=35.97  Aligned_cols=32  Identities=31%  Similarity=0.664  Sum_probs=26.8

Q ss_pred             CCccCCCccccCCcEEEeCCcccccCCCcCCC
Q psy11345        222 KCFACGFPIEAGDRWVEALNNNYHSLCFNCSS  253 (282)
Q Consensus       222 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~  253 (282)
                      +|..|+++|..|+.+-...+..-|-.||+=..
T Consensus         4 kC~iCg~~I~~gqlFTF~~kG~VH~~C~~~~~   35 (101)
T PF09943_consen    4 KCYICGKPIYEGQLFTFTKKGPVHYECFREKA   35 (101)
T ss_pred             EEEecCCeeeecceEEEecCCcEeHHHHHHHH
Confidence            69999999998887777788889999997544

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

Probab=80.59  E-value=1.7  Score=29.64  Aligned_cols=47  Identities=17%  Similarity=0.356  Sum_probs=23.9

Q ss_pred             ccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCccCCCccccCC
Q psy11345        188 FTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGD  234 (282)
Q Consensus       188 f~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~~C~~~I~~~~  234 (282)
                      .+|+.|..-|..--....=..+||..|....++..|..|..|....|
T Consensus         8 LrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~~CPvC~~Paw~qD   54 (65)
T PF14835_consen    8 LRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGSECPVCHTPAWIQD   54 (65)
T ss_dssp             TS-SSS-S--SS-B---SSS--B-TTTGGGGTTTB-SSS--B-S-SS
T ss_pred             cCCcHHHHHhcCCceeccCccHHHHHHhHHhcCCCCCCcCChHHHHH
Confidence            57888877765421222335789999999999999999999987544

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	282
2dar_A	90	Solution Structure Of First Lim Domain Of Enigma-Li		4e-15
2dfy_X	195	Crystal Structure Of A Cyclized Protein Fusion Of L		3e-06
1rut_X	188	Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 L		3e-06
2jtn_A	182	Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Compl		7e-06
2rgt_A	169	Crystal Structure Of Lhx3 Lim Domains 1 And 2 With		8e-06
3mmk_A	169	The Structural Basis For Partial Redundancy In A Cl		1e-05
1nyp_A	66	4th Lim Domain Of Pinch Protein Length = 66		6e-05
1nyp_A	66	4th Lim Domain Of Pinch Protein Length = 66		1e-04
3f6q_B	72	Crystal Structure Of Integrin-Linked Kinase Ankyrin		3e-04
2kbx_B	70	Solution Structure Of Ilk-Pinch Complex Length = 70		5e-04
1g47_A	77	1st Lim Domain Of Pinch Protein Length = 77		5e-04
2xjy_A	131	Crystal Structure Of The Lmo2:ldb1-Lid Complex, P21		5e-04
2dj7_A	80	Solution Structure Of 3rd Lim Domain Of Actin-Bindi		7e-04
3ixe_B	72	Structural Basis Of Competition Between Pinch1 And		8e-04

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

Iteration: 1
 Score = 78.6 bits (192), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 35/74 (47%), Positives = 45/74 (60%), Gaps = 2/74 (2%)
Query: 99  VLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEED 158
           V   +++  G R P+C  C Q IRGPF+ ALGK W P+ F C    CK  +  IGFVEE 
Sbjct: 13  VQRAEHIPAGKRTPMCAHCNQVIRGPFLVALGKSWHPEEFNCA--HCKNTMAYIGFVEEK 70
Query: 159 SGLYCEFCFEQYLA 172
             LYCE C+E++ A
Sbjct: 71  GALYCELCYEKFFA 84

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 28/92 (30%), Positives = 44/92 (47%), Gaps = 4/92 (4%)
Query: 176 LNAIGKHYHPECFTCAYCGKLFGN--NPFFLEEGLPYCENDWNDLF--TTKCFACGFPIE 231
           L A+  ++H  C  C+ C    G+     + + G+  C ND+  LF  +  C ACG  I 
Sbjct: 19  LYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIP 78
Query: 232 AGDRWVEALNNNYHSLCFNCSSPSSPALSGAK 263
           A +  + A  N YH  CF CS+  +  + G +
Sbjct: 79  ASELVMRAQGNVYHLKCFTCSTCRNRLVPGDR 110

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 28/92 (30%), Positives = 44/92 (47%), Gaps = 4/92 (4%)
Query: 176 LNAIGKHYHPECFTCAYCGKLFGN--NPFFLEEGLPYCENDWNDLF--TTKCFACGFPIE 231
           L A+  ++H  C  C+ C    G+     + + G+  C ND+  LF  +  C ACG  I 
Sbjct: 21  LYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIP 80
Query: 232 AGDRWVEALNNNYHSLCFNCSSPSSPALSGAK 263
           A +  + A  N YH  CF CS+  +  + G +
Sbjct: 81  ASELVMRAQGNVYHLKCFTCSTCRNRLVPGDR 112

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

Iteration: 1
 Score = 47.8 bits (112), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 30/108 (27%), Positives = 46/108 (42%), Gaps = 1/108 (0%)
Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTK 222
           C  C +  L    L A+ +H+H +C  C+ C        F   E + YC++D+   F TK
Sbjct: 63  CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSRGESV-YCKDDFFKRFGTK 121
Query: 223 CFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNT 270
           C AC   I        A +  YH  CF C        +G + Y  +++
Sbjct: 122 CAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDS 169

>pdb|2RGT|A Chain A, Crystal Structure Of Lhx3 Lim Domains 1 And 2 With The Binding Domain Of Isl1 Length = 169

Iteration: 1
 Score = 47.4 bits (111), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 30/108 (27%), Positives = 46/108 (42%), Gaps = 1/108 (0%)
Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTK 222
           C  C +  L    L A+ +H+H +C  C+ C        F   E + YC++D+   F TK
Sbjct: 9   CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSRGESV-YCKDDFFKRFGTK 67
Query: 223 CFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNT 270
           C AC   I        A +  YH  CF C        +G + Y  +++
Sbjct: 68  CAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDS 115

>pdb|3MMK|A Chain A, The Structural Basis For Partial Redundancy In A Class Of Transcription Factors, The Lim-Homeodomain Proteins, In Neural Cell Type Specification Length = 169

Iteration: 1
 Score = 47.4 bits (111), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 34/120 (28%), Positives = 49/120 (40%), Gaps = 7/120 (5%)
Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTK 222
           C  C +  L    L  + +H+H  C  CA C     +   F   G  YC+ D+   F TK
Sbjct: 9   CAGCNQHILDKFILKVLDRHWHSSCLKCADCQMQLADR-CFSRAGSVYCKEDFFKRFGTK 67
Query: 223 CFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKSTSGTIVCLE 282
           C AC   I       +A +  YH  CF C   +    +G + Y  ++      G +VC E
Sbjct: 68  CTACQQGIPPTQVVRKAQDFVYHLHCFACIICNRQLATGDEFYLMED------GRLVCKE 121

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 21/59 (35%), Positives = 31/59 (52%), Gaps = 2/59 (3%)
Query: 111 VPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQ 169
           VP+CG C + I G  + A+GK W  +HF+C +  C++P       E     YCE  + Q
Sbjct: 5   VPICGACRRPIEGRVVNAMGKQWHVEHFVCAK--CEKPFLGHRHYERKGLAYCETHYNQ 61

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/44 (45%), Positives = 27/44 (61%)
Query: 176 LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLF 219
           +NA+GK +H E F CA C K F  +  +  +GL YCE  +N LF
Sbjct: 20  VNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLF 63

>pdb|3F6Q|B Chain B, Crystal Structure Of Integrin-Linked Kinase Ankyrin Repeat Domain In Complex With Pinch1 Lim1 Domain Length = 72

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 20/49 (40%), Positives = 28/49 (57%)
Query: 172 APDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFT 220
           A   +N+ G+ YH +CF CA C + F    F+  EG  YCE+D+  LF 
Sbjct: 24  AEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA 72

>pdb|2KBX|B Chain B, Solution Structure Of Ilk-Pinch Complex Length = 70

Iteration: 1
 Score = 41.6 bits (96), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 20/49 (40%), Positives = 28/49 (57%)
Query: 172 APDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFT 220
           A   +N+ G+ YH +CF CA C + F    F+  EG  YCE+D+  LF 
Sbjct: 20  AEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA 68

>pdb|1G47|A Chain A, 1st Lim Domain Of Pinch Protein Length = 77

Iteration: 1
 Score = 41.6 bits (96), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 20/49 (40%), Positives = 28/49 (57%)
Query: 172 APDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFT 220
           A   +N+ G+ YH +CF CA C + F    F+  EG  YCE+D+  LF 
Sbjct: 24  AEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA 72

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

Iteration: 1
 Score = 41.6 bits (96), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 24/92 (26%), Positives = 39/92 (42%), Gaps = 4/92 (4%)
Query: 176 LNAIGKHYHPECFTCAYCGKLFGN--NPFFLEEGLPYCENDWNDLFTTK--CFACGFPIE 231
           L AI +++H +C +C  CG   G      + + G   C  D+  LF     C +C   I 
Sbjct: 18  LKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIR 77
Query: 232 AGDRWVEALNNNYHSLCFNCSSPSSPALSGAK 263
           A +  +   +  YH  CF C++       G +
Sbjct: 78  AYEMTMRVKDKVYHLECFKCAACQKHFCVGDR 109

>pdb|2DJ7|A Chain A, Solution Structure Of 3rd Lim Domain Of Actin-Binding Lim Protein 3 Length = 80

Iteration: 1
 Score = 41.2 bits (95), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 18/60 (30%), Positives = 31/60 (51%), Gaps = 1/60 (1%)
Query: 162 YCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTT 221
           +C  C E+      L A+ K +H  CF C  C  +     +  ++G+PYCE+D++  F +
Sbjct: 17  HCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVIL-TGEYISKDGVPYCESDYHAQFGS 75

>pdb|3IXE|B Chain B, Structural Basis Of Competition Between Pinch1 And Pinch2 For Binding To The Ankyrin Repeat Domain Of Integrin-Linked Kinase Length = 72

Iteration: 1
 Score = 40.8 bits (94), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 20/49 (40%), Positives = 27/49 (55%)
Query: 172 APDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFT 220
           A   +N+ G+ YH  CF CA C + F    F+  EG  YCE+D+  LF 
Sbjct: 24  AERIVNSNGELYHEHCFVCAQCFRPFPEGLFYEFEGRKYCEHDFQMLFA 72

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	282
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	1e-37
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	5e-26
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	4e-32
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	2e-08
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	2e-31
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	1e-19
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	3e-04
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	4e-30
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	4e-26
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	3e-07
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	1e-26
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	5e-23
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	8e-26
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	2e-19
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	3e-13
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	7e-25
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	4e-24
2cuq_A	80	Four and A half LIM domains 3; structural genomics	1e-21
2cuq_A	80	Four and A half LIM domains 3; structural genomics	2e-14
2cuq_A	80	Four and A half LIM domains 3; structural genomics	1e-07
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	2e-21
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	9e-06
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	2e-20
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	6e-15
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	3e-10
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	5e-18
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	6e-18
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	6e-12
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	6e-12
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	8e-18
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	7e-10
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	5e-09
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	9e-18
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	2e-14
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	6e-04
2cor_A	79	Pinch protein; LIM domain, particularly interestin	1e-17
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	2e-17
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	1e-14
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	5e-17
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	1e-13
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	5e-04
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	7e-17
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	1e-16
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	1e-04
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	1e-16
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	1e-15
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	2e-16
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	2e-15
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	2e-16
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	1e-13
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	2e-07
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	6e-16
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	6e-11
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	3e-05
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	2e-15
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	3e-12
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	5e-06
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	1e-14
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	5e-13
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	9e-08
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	1e-14
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	1e-14
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	2e-12
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	7e-08
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	3e-14
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	4e-11
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	3e-13
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	4e-07
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	3e-13
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	3e-12
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	2e-07
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	4e-13
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	2e-10
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	3e-09
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	9e-13
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	3e-07
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	2e-12
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	2e-11
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	4e-10
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	7e-06
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	5e-11
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	1e-10
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	9e-07
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	2e-10
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	2e-08
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	2e-06
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	2e-10
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	5e-06
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	7e-05
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	3e-10
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	4e-10
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	8e-05
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	6e-10
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	3e-04
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	1e-08
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	3e-04
2co8_A	82	NEDD9 interacting protein with calponin homology a	5e-06
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	2e-05
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	9e-05

>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 =  129 bits (327), Expect = 1e-37
 Identities = 35/171 (20%), Positives = 54/171 (31%), Gaps = 21/171 (12%)

Query: 106 APGARVPLCGQCYQQIRGPFI-TALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCE 164
                +P+C  C Q I   FI  AL + W      C    C  PL +  F   +S +YC+
Sbjct: 1   GSTPEIPMCAGCDQHILDRFILKALDRHWHSKCLKCS--DCHVPLAERCFSRGES-VYCK 57

Query: 165 FCFEQYLAPDC-------------LNAIGKHYHPECFTCAYCGKLF--GNNPFFLEEGLP 209
             F +     C               A    YH  CF C  C +    G+  + +E+   
Sbjct: 58  DDFFKRFGTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRL 117

Query: 210 YCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALS 260
            C+ D+           G     G   + A +   H      +     +  
Sbjct: 118 VCKADYETAKQGGSGGSGGSG--GGTPMVAASPERHDGGLQANPVEVQSYQ 166

>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 = 99.5 bits (248), Expect = 5e-26
 Identities = 29/107 (27%), Positives = 43/107 (40%), Gaps = 1/107 (0%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTK 222
           C  C +  L    L A+ +H+H +C  C+ C         F      YC++D+   F TK
Sbjct: 9   CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAER-CFSRGESVYCKDDFFKRFGTK 67

Query: 223 CFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQN 269
           C AC   I        A +  YH  CF C        +G + Y  ++
Sbjct: 68  CAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMED 114

>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 =  116 bits (291), Expect = 4e-32
 Identities = 31/130 (23%), Positives = 43/130 (33%), Gaps = 13/130 (10%)

Query: 136 DHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDC------------LNAIGKHY 183
           D  L  R +  +     G  +E               P C            L A+ +H+
Sbjct: 24  DERLITRLENTQFDAANGIDDEGGSGGHMGSGGTPEIPMCAGCDQHILDRFILKALDRHW 83

Query: 184 HPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNN 243
           H +C  C+ C         F      YC++D+   F TKC AC   I        A +  
Sbjct: 84  HSKCLKCSDCHVPLAER-CFSRGESVYCKDDFFKRFGTKCAACQLGIPPTQVVRRAQDFV 142

Query: 244 YHSLCFNCSS 253
           YH  CF C  
Sbjct: 143 YHLHCFACVV 152

>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 = 51.8 bits (124), Expect = 2e-08
 Identities = 18/62 (29%), Positives = 24/62 (38%), Gaps = 6/62 (9%)

Query: 112 PLCGQCYQQIR--GPFITALGKIWCPDHFLCVRPQCKRPLQ--DIGFVEEDSGLYCEFCF 167
             C  C   I        A   ++    F CV   CKR L   D  ++ EDS L C+  +
Sbjct: 120 TKCAACQLGIPPTQVVRRAQDFVYHLHCFACV--VCKRQLATGDEFYLMEDSRLVCKADY 177

Query: 168 EQ 169
           E 
Sbjct: 178 ET 179

>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 =  111 bits (279), Expect = 2e-31
 Identities = 25/92 (27%), Positives = 36/92 (39%), Gaps = 1/92 (1%)

Query: 163 CEFCFEQYLAPD-CLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTT 221
           C  C +   A    ++   + +H  CF CA C     N  F  ++    C        + 
Sbjct: 8   CVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSP 67

Query: 222 KCFACGFPIEAGDRWVEALNNNYHSLCFNCSS 253
           KC  C   I AGD+ VE     +H  CF+  S
Sbjct: 68  KCKGCFKAIVAGDQNVEYKGTVWHKDCFSGPS 99

>2cup_A Skeletal muscle LIM-protein 1; four and half LIM domains protein 1, LIM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 g.39.1.3 Length = 101

 Score = 80.9 bits (200), Expect = 1e-19
 Identities = 21/98 (21%), Positives = 36/98 (36%), Gaps = 17/98 (17%)

Query: 112 PLCGQCYQQIRG--PFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQ 169
             C +C + I      +    + W    F C   +C  PL +  FV +D+ + C  C  +
Sbjct: 6   SGCVECRKPIGADSKEVHYKNRFWHDTCFRCA--KCLHPLANETFVAKDNKILCNKCTTR 63

Query: 170 YLAPDC-------------LNAIGKHYHPECFTCAYCG 194
             +P C             +   G  +H +CF+    G
Sbjct: 64  EDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFSGPSSG 101

>2cup_A Skeletal muscle LIM-protein 1; four and half LIM domains protein 1, LIM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 g.39.1.3 Length = 101

 Score = 38.5 bits (90), Expect = 3e-04
 Identities = 11/34 (32%), Positives = 16/34 (47%)

Query: 219 FTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
            ++ C  C  PI A  + V   N  +H  CF C+
Sbjct: 4   GSSGCVECRKPIGADSKEVHYKNRFWHDTCFRCA 37

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

 Score =  109 bits (273), Expect = 4e-30
 Identities = 20/93 (21%), Positives = 36/93 (38%), Gaps = 2/93 (2%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTK 222
           C  C E   + +   A  +++H + F C  C  +     + +    P C+  +       
Sbjct: 6   CAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVV 65

Query: 223 CFACGFPIEAGDRWVEALNNNYH--SLCFNCSS 253
           C  C   I+   + V   N ++H  + CF CS 
Sbjct: 66  CQGCHNAIDPEVQRVTYNNFSWHASTECFLCSC 98

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

 Score = 98.6 bits (246), Expect = 4e-26
 Identities = 28/122 (22%), Positives = 42/122 (34%), Gaps = 18/122 (14%)

Query: 109 ARVPLCGQCYQQIRGPFIT-ALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCF 167
           +  P C  C + I     T A  + W   HF C    C   L    +V  +    C+ C+
Sbjct: 1   SEKPRCAGCDELIFSNEYTQAENQNWHLKHFCCF--DCDSILAGEIYVMVNDKPVCKPCY 58

Query: 168 EQYLAPDC-------------LNAIGKHYHP--ECFTCAYCGKLFGNNPFFLEEGLPYCE 212
            +  A  C             +      +H   ECF C+ C K      F   EG+ +C 
Sbjct: 59  VKNHAVVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCS 118

Query: 213 ND 214
            +
Sbjct: 119 VE 120

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

 Score = 47.8 bits (114), Expect = 3e-07
 Identities = 12/65 (18%), Positives = 25/65 (38%), Gaps = 6/65 (9%)

Query: 112 PLCGQCYQQIRG--PFITALGKIW--CPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCF 167
            +C  C+  I      +T     W    + FLC    C + L    F+  +  ++C    
Sbjct: 64  VVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSC--CSKCLIGQKFMPVEGMVFCSVEC 121

Query: 168 EQYLA 172
           ++ ++
Sbjct: 122 KKRMS 126

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

 Score =  100 bits (250), Expect = 1e-26
 Identities = 25/95 (26%), Positives = 40/95 (42%), Gaps = 4/95 (4%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGN--NPFFLEEGLPYCENDWNDLFT 220
           C  C +       L AI +++H +C +C  CG   G      + + G   C  D+  LF 
Sbjct: 5   CGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFG 64

Query: 221 TK--CFACGFPIEAGDRWVEALNNNYHSLCFNCSS 253
               C +C   I A +  +   +  YH  CF C++
Sbjct: 65  QDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAA 99

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

 Score = 90.6 bits (225), Expect = 5e-23
 Identities = 29/131 (22%), Positives = 42/131 (32%), Gaps = 21/131 (16%)

Query: 111 VPLCGQCYQQIRGPFI-TALGKIWCPDHFLCVRPQCKRPLQDIG--FVEEDSGLYCEFCF 167
           +  CG C Q I   +   A+ + W  D   C    C   L ++G     +     C   +
Sbjct: 2   LLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCD--LCGCRLGEVGRRLYYKLGRKLCRRDY 59

Query: 168 EQYLAPD---------------CLNAIGKHYHPECFTCAYCGKLFGN-NPFFLEEGLPYC 211
            +    D                +    K YH ECF CA C K F   + + L      C
Sbjct: 60  LRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVC 119

Query: 212 ENDWNDLFTTK 222
           E D  +     
Sbjct: 120 EQDIYEWTKIN 130

>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 = 99.7 bits (248), Expect = 8e-26
 Identities = 24/142 (16%), Positives = 42/142 (29%), Gaps = 4/142 (2%)

Query: 112 PLCGQCYQQIRGP-FITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQY 170
             CG C + +     +   G  +    FLC+   CK+ L           +YC+ C+ + 
Sbjct: 8   KKCGVCQKAVYFAEEVQCEGSSFHKSCFLCM--VCKKNLDSTTVAVHGDEIYCKSCYGKK 65

Query: 171 LAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPI 230
             P                    G  +                      +  C  CG  +
Sbjct: 66  YGPKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAV 125

Query: 231 EAGDRWVEALNNNYHSLCFNCS 252
            A ++ V     ++H  CF C+
Sbjct: 126 YAAEK-VIGAGKSWHKSCFRCA 146

>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 = 2e-19
 Identities = 26/143 (18%), Positives = 42/143 (29%), Gaps = 13/143 (9%)

Query: 97  RGVLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVE 156
           +  L+   +A       C  CY +  GP     G                   ++     
Sbjct: 41  KKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLST-DKGESLGIKYEEGQSHR 99

Query: 157 EDSGLYCEFCFEQYLAPDC------------LNAIGKHYHPECFTCAYCGKLFGNNPFFL 204
             +        +   +  C            +   GK +H  CF CA CGK   +     
Sbjct: 100 PTNPNASRMAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLAD 159

Query: 205 EEGLPYCENDWNDLFTTKCFACG 227
           ++G  YC+  +   F  K F  G
Sbjct: 160 KDGEIYCKGCYAKNFGPKGFGFG 182

>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 = 65.8 bits (160), Expect = 3e-13
 Identities = 16/107 (14%), Positives = 31/107 (28%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTK 222
           C  C +     + +   G  +H  CF C  C K   +    +     YC++ +   +  K
Sbjct: 10  CGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPK 69

Query: 223 CFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQN 269
               G                 +    +    +  A   A+  G  +
Sbjct: 70  GKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSD 116

>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 = 97.4 bits (242), Expect = 7e-25
 Identities = 30/113 (26%), Positives = 50/113 (44%), Gaps = 4/113 (3%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNN--PFFLEEGLPYCENDWNDLF- 219
           C  C  +      L A+  ++H  C  C+ C    G+     + + G+  C ND+  LF 
Sbjct: 8   CAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG 67

Query: 220 -TTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTI 271
            +  C ACG  I A +  + A  N YH  CF CS+  +  + G + +    ++
Sbjct: 68  NSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSL 120

>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 = 95.1 bits (236), Expect = 4e-24
 Identities = 30/165 (18%), Positives = 46/165 (27%), Gaps = 22/165 (13%)

Query: 112 PLCGQCYQQIRGPFI-TALGKIWCPDHFLCVRPQCKRPLQDIG--FVEEDSGLYCEFCFE 168
             C  C  +I   F+  A+   W      C    C+  L DIG     +   + C   + 
Sbjct: 6   KRCAGCGGKIADRFLLYAMDSYWHSRCLKCS--SCQAQLGDIGTSSYTKSGMILCRNDYI 63

Query: 169 QY--LAPDC-------------LNAIGKHYHPECFTCAYCGKLFGNN-PFFLEEGLPYCE 212
           +    +  C             + A G  YH +CFTC+ C         F    G  +CE
Sbjct: 64  RLFGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCE 123

Query: 213 NDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSP 257
           +D            G    +G      +                 
Sbjct: 124 HDRPTALINGHLNSGGSGGSGGS-GGDVMVVGEPTLMGGEFGDED 167

>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 = 85.5 bits (212), Expect = 1e-21
 Identities = 17/76 (22%), Positives = 25/76 (32%), Gaps = 11/76 (14%)

Query: 159 SGLYCEFCFEQYLAPDC-----------LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEG 207
           S      C+E   AP C           +    + +H EC  C  C        F   + 
Sbjct: 2   SSGSSGPCYENKFAPRCARCSKTLTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDE 61

Query: 208 LPYCENDWNDLFTTKC 223
            PYC   + +LF +  
Sbjct: 62  DPYCVACFGELFASGP 77

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

 Score = 66.2 bits (162), Expect = 2e-14
 Identities = 16/64 (25%), Positives = 25/64 (39%), Gaps = 2/64 (3%)

Query: 112 PLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYL 171
           P C +C + +    +T   + W  +  +C    C+ PL    F   D   YC  CF +  
Sbjct: 16  PRCARCSKTLTQGGVTYRDQPWHRECLVCT--GCQTPLAGQQFTSRDEDPYCVACFGELF 73

Query: 172 APDC 175
           A   
Sbjct: 74  ASGP 77

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

 Score = 47.3 bits (113), Expect = 1e-07
 Identities = 7/45 (15%), Positives = 14/45 (31%), Gaps = 2/45 (4%)

Query: 209 PYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSS 253
                 + + F  +C  C   +      V   +  +H  C  C+ 
Sbjct: 4   GSSGPCYENKFAPRCARCSKTLT--QGGVTYRDQPWHRECLVCTG 46

>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 = 85.2 bits (211), Expect = 2e-21
 Identities = 39/91 (42%), Positives = 52/91 (57%), Gaps = 4/91 (4%)

Query: 85  GSSGLTTAPRRGRGVLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQ 144
           GSSG  ++  +   V   +++  G R P+C  C Q IRGPF+ ALGK W P+ F C    
Sbjct: 1   GSSG--SSGDQDTLVQRAEHIPAGKRTPMCAHCNQVIRGPFLVALGKSWHPEEFNCA--H 56

Query: 145 CKRPLQDIGFVEEDSGLYCEFCFEQYLAPDC 175
           CK  +  IGFVEE   LYCE C+E++ A   
Sbjct: 57  CKNTMAYIGFVEEKGALYCELCYEKFFASGP 87

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

 Score = 42.4 bits (100), Expect = 9e-06
 Identities = 11/55 (20%), Positives = 19/55 (34%), Gaps = 3/55 (5%)

Query: 199 NNPFFLEEGLPYCEND-WNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
           +     ++ L            T  C  C   I     ++ AL  ++H   FNC+
Sbjct: 3   SGSSGDQDTLVQRAEHIPAGKRTPMCAHCNQVIR--GPFLVALGKSWHPEEFNCA 55

>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 = 82.0 bits (203), Expect = 2e-20
 Identities = 19/73 (26%), Positives = 28/73 (38%), Gaps = 11/73 (15%)

Query: 162 YCEFCFEQYLAPDC-----------LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPY 210
                F    +P C           L+A+   +HPECF C  C   F    FF  +G P+
Sbjct: 5   SSGKDFLAMFSPKCGGCNRPVLENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPF 64

Query: 211 CENDWNDLFTTKC 223
           CE  ++    +  
Sbjct: 65  CELHYHHRRGSGP 77

>1x3h_A Leupaxin; paxillin family, protein-protein interaction, LIM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 80

 Score = 67.4 bits (165), Expect = 6e-15
 Identities = 15/64 (23%), Positives = 26/64 (40%), Gaps = 2/64 (3%)

Query: 112 PLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYL 171
           P CG C + +   +++A+  +W P+ F+C    C        F E D   +CE  +    
Sbjct: 16  PKCGGCNRPVLENYLSAMDTVWHPECFVCG--DCFTSFSTGSFFELDGRPFCELHYHHRR 73

Query: 172 APDC 175
               
Sbjct: 74  GSGP 77

>1x3h_A Leupaxin; paxillin family, protein-protein interaction, LIM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 80

 Score = 54.7 bits (132), Expect = 3e-10
 Identities = 11/46 (23%), Positives = 21/46 (45%), Gaps = 2/46 (4%)

Query: 207 GLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
                  D+  +F+ KC  C  P+   + ++ A++  +H  CF C 
Sbjct: 2   SSGSSGKDFLAMFSPKCGGCNRPVL--ENYLSAMDTVWHPECFVCG 45

>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 = 76.0 bits (187), Expect = 5e-18
 Identities = 24/91 (26%), Positives = 35/91 (38%), Gaps = 4/91 (4%)

Query: 85  GSSGLTTAPRRGRGVLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQ 144
           GSSG  ++  R              R+PLC +C   I G  + A  K   P+ F+C    
Sbjct: 1   GSSG--SSGVRAPVTKVHGGAGSAQRMPLCDKCGSGIVGAVVKARDKYRHPECFVCA--D 56

Query: 145 CKRPLQDIGFVEEDSGLYCEFCFEQYLAPDC 175
           C   L+  G+   +  LYCE       +   
Sbjct: 57  CNLNLKQKGYFFVEGELYCETHARARTSGPS 87

>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 = 75.5 bits (186), Expect = 6e-18
 Identities = 17/78 (21%), Positives = 27/78 (34%), Gaps = 13/78 (16%)

Query: 159 SGLYCEFCFEQYLAPDC-------------LNAIGKHYHPECFTCAYCGKLFGNNPFFLE 205
           S      C  +  +P C             +   G  +H +CFTC+ C ++ G   FF +
Sbjct: 2   SSGSSGKCTTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPK 61

Query: 206 EGLPYCENDWNDLFTTKC 223
               YC       F +  
Sbjct: 62  GEDFYCVTCHETKFASGP 79

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

 Score = 59.3 bits (144), Expect = 6e-12
 Identities = 14/47 (29%), Positives = 18/47 (38%)

Query: 207 GLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSS 253
                        + KC  C   I AGD+ VE     +H  CF CS+
Sbjct: 2   SSGSSGKCTTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSN 48

>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 = 59.3 bits (144), Expect = 6e-12
 Identities = 17/66 (25%), Positives = 24/66 (36%), Gaps = 4/66 (6%)

Query: 112 PLCGQCYQQIRGP--FITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQ 169
           P C  C++ I      +   G +W  D F C    CK+ +    F  +    YC  C E 
Sbjct: 16  PKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCS--NCKQVIGTGSFFPKGEDFYCVTCHET 73

Query: 170 YLAPDC 175
             A   
Sbjct: 74  KFASGP 79

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

 Score = 75.2 bits (185), Expect = 8e-18
 Identities = 15/78 (19%), Positives = 27/78 (34%), Gaps = 13/78 (16%)

Query: 159 SGLYCEFCFEQYLAPDC-------------LNAIGKHYHPECFTCAYCGKLFGNNPFFLE 205
           S      C++   A  C             L    +H+H  CF C  C +   + PF  +
Sbjct: 2   SSGSSGPCYDNTFANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQ 61

Query: 206 EGLPYCENDWNDLFTTKC 223
           +    C + +   F++  
Sbjct: 62  DSELLCNDCYCSAFSSGP 79

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

 Score = 53.7 bits (129), Expect = 7e-10
 Identities = 16/66 (24%), Positives = 25/66 (37%), Gaps = 4/66 (6%)

Query: 112 PLCGQCYQQIRG--PFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQ 169
             C +C Q I      +    + +    F C   +C+R L D  F  +DS L C  C+  
Sbjct: 16  NTCAECQQLIGHDSRELFYEDRHFHEGCFRCC--RCQRSLADEPFTCQDSELLCNDCYCS 73

Query: 170 YLAPDC 175
             +   
Sbjct: 74  AFSSGP 79

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

 Score = 51.3 bits (123), Expect = 5e-09
 Identities = 9/45 (20%), Positives = 16/45 (35%)

Query: 209 PYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSS 253
                 +++ F   C  C   I    R +   + ++H  CF C  
Sbjct: 4   GSSGPCYDNTFANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCR 48

>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 = 75.2 bits (185), Expect = 9e-18
 Identities = 14/71 (19%), Positives = 30/71 (42%), Gaps = 2/71 (2%)

Query: 105 LAPGARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCE 164
           +    ++P+C +C   I G F+    +   P+ ++C    C   L+  G    +  +YCE
Sbjct: 9   IGNAQKLPMCDKCGTGIVGVFVKLRDRHRHPECYVCT--DCGTNLKQKGHFFVEDQIYCE 66

Query: 165 FCFEQYLAPDC 175
               + ++   
Sbjct: 67  KHARERVSGPS 77

>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 = 66.3 bits (162), Expect = 2e-14
 Identities = 15/61 (24%), Positives = 22/61 (36%), Gaps = 1/61 (1%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTK 222
           C+ C    +    +    +H HPEC+ C  CG        F  E   YCE    +  +  
Sbjct: 18  CDKC-GTGIVGVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEKHARERVSGP 76

Query: 223 C 223
            
Sbjct: 77  S 77

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

 Score = 37.0 bits (86), Expect = 6e-04
 Identities = 8/34 (23%), Positives = 14/34 (41%), Gaps = 2/34 (5%)

Query: 219 FTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
               C  CG  I     +V+  + + H  C+ C+
Sbjct: 14  KLPMCDKCGTGIV--GVFVKLRDRHRHPECYVCT 45

>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 = 74.8 bits (184), Expect = 1e-17
 Identities = 17/75 (22%), Positives = 26/75 (34%), Gaps = 3/75 (4%)

Query: 101 NPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSG 160
           +    A G    +C +C+  I    +      + PDHF C    C + L      E    
Sbjct: 5   SSGEKARGLGKYICQKCHAIIDEQPLIFKNDPYHPDHFNCA--NCGKELTADAR-ELKGE 61

Query: 161 LYCEFCFEQYLAPDC 175
           LYC  C ++      
Sbjct: 62  LYCLPCHDKMGVSGP 76

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

 Score = 73.6 bits (181), Expect = 2e-17
 Identities = 21/67 (31%), Positives = 28/67 (41%), Gaps = 2/67 (2%)

Query: 109 ARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFE 168
           +    C QC + I G  I A+   W P+ F C    C+  L DIGFV+      C  C  
Sbjct: 3   SGSSGCHQCGEFIIGRVIKAMNNSWHPECFRCD--LCQEVLADIGFVKNAGRHLCRPCHN 60

Query: 169 QYLAPDC 175
           +  A   
Sbjct: 61  REKASGP 67

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

 Score = 66.3 bits (162), Expect = 1e-14
 Identities = 15/65 (23%), Positives = 26/65 (40%), Gaps = 2/65 (3%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTK 222
           C  C  +++    + A+   +HPECF C  C ++  +  F    G   C    N    + 
Sbjct: 8   CHQC-GEFIIGRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNREKASG 66

Query: 223 CFACG 227
             + G
Sbjct: 67  P-SSG 70

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

 Score = 73.2 bits (180), Expect = 5e-17
 Identities = 20/62 (32%), Positives = 29/62 (46%), Gaps = 2/62 (3%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLE-EGLPYCENDWNDLFTT 221
           C  C  Q +    L A+GK YHP CFTC  C +     PF ++     +C  D++  F +
Sbjct: 18  CATC-SQPILDRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFAS 76

Query: 222 KC 223
             
Sbjct: 77  GP 78

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

 Score = 63.9 bits (156), Expect = 1e-13
 Identities = 21/66 (31%), Positives = 29/66 (43%), Gaps = 3/66 (4%)

Query: 111 VPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGF-VEEDSGLYCEFCFEQ 169
           +  C  C Q I    + A+GK + P  F CV   C R L  I F V+  S ++C   F +
Sbjct: 15  LEKCATCSQPILDRILRAMGKAYHPGCFTCV--VCHRGLDGIPFTVDATSQIHCIEDFHR 72

Query: 170 YLAPDC 175
             A   
Sbjct: 73  KFASGP 78

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

 Score = 37.3 bits (87), Expect = 5e-04
 Identities = 13/44 (29%), Positives = 15/44 (34%), Gaps = 2/44 (4%)

Query: 209 PYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
                        KC  C  PI   DR + A+   YH  CF C 
Sbjct: 4   GSSGEGCYVATLEKCATCSQPIL--DRILRAMGKAYHPGCFTCV 45

>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 = 72.3 bits (178), Expect = 7e-17
 Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 2/64 (3%)

Query: 110 RVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQ 169
            VP+CG C + I G  + A+GK W  +HF+C   +C++P       E     YCE  + Q
Sbjct: 4   GVPICGACRRPIEGRVVNAMGKQWHVEHFVCA--KCEKPFLGHRHYERKGLAYCETHYNQ 61

Query: 170 YLAP 173
               
Sbjct: 62  LFGD 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 = 71.6 bits (176), Expect = 1e-16
 Identities = 22/57 (38%), Positives = 31/57 (54%), Gaps = 1/57 (1%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLF 219
           C  C  + +    +NA+GK +H E F CA C K F  +  +  +GL YCE  +N LF
Sbjct: 8   CGAC-RRPIEGRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLF 63

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

 Score = 38.8 bits (91), Expect = 1e-04
 Identities = 12/35 (34%), Positives = 16/35 (45%), Gaps = 2/35 (5%)

Query: 218 LFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCS 252
           +    C AC  PIE   R V A+   +H   F C+
Sbjct: 3   MGVPICGACRRPIE--GRVVNAMGKQWHVEHFVCA 35

>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 = 71.6 bits (176), Expect = 1e-16
 Identities = 15/61 (24%), Positives = 23/61 (37%), Gaps = 1/61 (1%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTK 222
           C  C +       +    + +H ECF C  C K      F   +   YC N + DL+ + 
Sbjct: 8   CVQCKKPITT-GGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLYASG 66

Query: 223 C 223
            
Sbjct: 67  P 67

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

 Score = 68.9 bits (169), Expect = 1e-15
 Identities = 17/64 (26%), Positives = 24/64 (37%), Gaps = 2/64 (3%)

Query: 112 PLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYL 171
             C QC + I    +T   + W  + F+C    C++ L    F   D   YC  CF    
Sbjct: 6   SGCVQCKKPITTGGVTYREQPWHKECFVCT--ACRKQLSGQRFTARDDFAYCLNCFCDLY 63

Query: 172 APDC 175
           A   
Sbjct: 64  ASGP 67

>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 = 71.3 bits (175), Expect = 2e-16
 Identities = 12/61 (19%), Positives = 22/61 (36%), Gaps = 1/61 (1%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTK 222
           C  C  + +    +    + +H +CF C  C K      F   E   YC + + +  +  
Sbjct: 8   CVKC-NKAITSGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFVSGP 66

Query: 223 C 223
            
Sbjct: 67  S 67

>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 = 68.2 bits (167), Expect = 2e-15
 Identities = 16/64 (25%), Positives = 27/64 (42%), Gaps = 2/64 (3%)

Query: 112 PLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYL 171
             C +C + I    IT   + W  D F+CV   C + L    F   +   YC  C++ ++
Sbjct: 6   SGCVKCNKAITSGGITYQDQPWHADCFVCV--TCSKKLAGQRFTAVEDQYYCVDCYKNFV 63

Query: 172 APDC 175
           +   
Sbjct: 64  SGPS 67

>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 = 71.3 bits (175), Expect = 2e-16
 Identities = 22/70 (31%), Positives = 31/70 (44%), Gaps = 13/70 (18%)

Query: 163 CEFCFEQYLAPDC-------------LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLP 209
            EF      +  C             +N+ G+ YH +CF CA C + F    F+  EG  
Sbjct: 2   SEFMANALASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRK 61

Query: 210 YCENDWNDLF 219
           YCE+D+  LF
Sbjct: 62  YCEHDFQMLF 71

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

 Score = 63.6 bits (155), Expect = 1e-13
 Identities = 15/64 (23%), Positives = 26/64 (40%), Gaps = 4/64 (6%)

Query: 112 PLCGQCYQQIR--GPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQ 169
             C +C          + + G+++    F+C   QC +   +  F E +   YCE  F+ 
Sbjct: 12  ATCERCKGGFAPAEKIVNSNGELYHEQCFVCA--QCFQQFPEGLFYEFEGRKYCEHDFQM 69

Query: 170 YLAP 173
             AP
Sbjct: 70  LFAP 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 = 46.6 bits (111), Expect = 2e-07
 Identities = 11/43 (25%), Positives = 16/43 (37%)

Query: 211 CENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSS 253
            E   N L +  C  C       ++ V +    YH  CF C+ 
Sbjct: 2   SEFMANALASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQ 44

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

 Score = 70.2 bits (172), Expect = 6e-16
 Identities = 12/52 (23%), Positives = 20/52 (38%), Gaps = 1/52 (1%)

Query: 176 LNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACG 227
           + A+ + +H  CF C+ C        F+  E   YCE  +         + G
Sbjct: 22  VVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVATL-ESGPSSG 72

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

 Score = 56.3 bits (136), Expect = 6e-11
 Identities = 17/85 (20%), Positives = 28/85 (32%), Gaps = 20/85 (23%)

Query: 112 PLCGQCYQQIRG--PFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQ 169
             CG C + + G    + AL +++    F+C    C+  L+   F   +   YCE C+  
Sbjct: 6   SGCGGCGEDVVGDGAGVVALDRVFHVGCFVCS--TCRAQLRGQHFYAVERRAYCEGCYVA 63

Query: 170 YLAPDCLNAIGKHYHPECFTCAYCG 194
            L                      G
Sbjct: 64  TLES----------------GPSSG 72

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

 Score = 40.5 bits (95), Expect = 3e-05
 Identities = 11/34 (32%), Positives = 17/34 (50%)

Query: 220 TTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSS 253
           ++ C  CG  +      V AL+  +H  CF CS+
Sbjct: 5   SSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCST 38

>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 = 69.0 bits (169), Expect = 2e-15
 Identities = 23/58 (39%), Positives = 31/58 (53%), Gaps = 1/58 (1%)

Query: 163 CEFCFEQ-YLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLF 219
           CE C      A   +N+ G+ YH +CF CA C + F    F+  EG  YCE+D+  LF
Sbjct: 14  CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 71

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

 Score = 60.1 bits (146), Expect = 3e-12
 Identities = 14/63 (22%), Positives = 25/63 (39%), Gaps = 4/63 (6%)

Query: 112 PLCGQCYQQIR--GPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQ 169
             C +C          + + G+++    F+C   QC +   +  F E +   YCE  F+ 
Sbjct: 12  ATCERCKGGFAPAEKIVNSNGELYHEQCFVCA--QCFQQFPEGLFYEFEGRKYCEHDFQM 69

Query: 170 YLA 172
             A
Sbjct: 70  LFA 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 = 42.4 bits (100), Expect = 5e-06
 Identities = 8/36 (22%), Positives = 13/36 (36%)

Query: 218 LFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSS 253
             +  C  C       ++ V +    YH  CF C+ 
Sbjct: 9   SASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQ 44

>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 = 66.6 bits (163), Expect = 1e-14
 Identities = 16/62 (25%), Positives = 26/62 (41%), Gaps = 1/62 (1%)

Query: 163 CEFCFEQ-YLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTT 221
           C  C E        L   G+ +H  CF C+ C +  G+  F  ++G  YC   + + F +
Sbjct: 8   CSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFAS 67

Query: 222 KC 223
             
Sbjct: 68  GP 69

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

 Score = 62.0 bits (151), Expect = 5e-13
 Identities = 17/66 (25%), Positives = 25/66 (37%), Gaps = 4/66 (6%)

Query: 112 PLCGQCYQQIR--GPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQ 169
             C  C + +      +   G+ W    FLC    C++PL    FV +    YC  C+E 
Sbjct: 6   SGCSACGETVMPGSRKLEYGGQTWHEHCFLCS--GCEQPLGSRSFVPDKGAHYCVPCYEN 63

Query: 170 YLAPDC 175
             A   
Sbjct: 64  KFASGP 69

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

 Score = 47.4 bits (113), Expect = 9e-08
 Identities = 12/35 (34%), Positives = 17/35 (48%)

Query: 219 FTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSS 253
            ++ C ACG  +  G R +E     +H  CF CS 
Sbjct: 4   GSSGCSACGETVMPGSRKLEYGGQTWHEHCFLCSG 38

>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 = 66.7 bits (163), Expect = 1e-14
 Identities = 18/63 (28%), Positives = 31/63 (49%), Gaps = 1/63 (1%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTK 222
           C  C E+      L A+ K +H  CF C  C  +     +  ++G+PYCE+D++  F + 
Sbjct: 18  CAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVIL-TGEYISKDGVPYCESDYHAQFGSG 76

Query: 223 CFA 225
             +
Sbjct: 77  PSS 79

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

 Score = 66.3 bits (162), Expect = 1e-14
 Identities = 11/62 (17%), Positives = 22/62 (35%), Gaps = 1/62 (1%)

Query: 163 CEFCFEQYLAPD-CLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTT 221
           C+ C +  +     +   G  +H  CF C  C +  G   F  ++   +C   +     +
Sbjct: 8   CQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQHAS 67

Query: 222 KC 223
             
Sbjct: 68  GP 69

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

 Score = 60.5 bits (147), Expect = 2e-12
 Identities = 15/66 (22%), Positives = 29/66 (43%), Gaps = 4/66 (6%)

Query: 112 PLCGQCYQQIR--GPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQ 169
             C +C + I      +   G  W    F+C   +C++P+    F+ +D+  +C  C+E+
Sbjct: 6   SGCQECKKTIMPGTRKMEYKGSSWHETCFICH--RCQQPIGTKSFIPKDNQNFCVPCYEK 63

Query: 170 YLAPDC 175
             A   
Sbjct: 64  QHASGP 69

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

 Score = 47.8 bits (114), Expect = 7e-08
 Identities = 10/35 (28%), Positives = 16/35 (45%)

Query: 219 FTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSS 253
            ++ C  C   I  G R +E   +++H  CF C  
Sbjct: 4   GSSGCQECKKTIMPGTRKMEYKGSSWHETCFICHR 38

>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 = 66.9 bits (163), Expect = 3e-14
 Identities = 17/83 (20%), Positives = 27/83 (32%), Gaps = 2/83 (2%)

Query: 157 EDSGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNP--FFLEEGLPYCEND 214
             S   C  C  +      L A+  ++H  C  C+ C    G+     + + G+  C ND
Sbjct: 2   SLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRND 61

Query: 215 WNDLFTTKCFACGFPIEAGDRWV 237
           +  LF                 V
Sbjct: 62  YIRLFGNSGAGGSGGHMGSGGDV 84

>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 = 58.1 bits (140), Expect = 4e-11
 Identities = 17/113 (15%), Positives = 27/113 (23%), Gaps = 5/113 (4%)

Query: 112 PLCGQCYQQIRGPFI-TALGKIWCPDHFLCVRPQCKRPLQDIG--FVEEDSGLYCEFCFE 168
             C  C  +I   F+  A+   W      C    C+  L DIG     +   + C   + 
Sbjct: 6   KRCAGCGGKIADRFLLYAMDSYWHSRCLKCS--SCQAQLGDIGTSSYTKSGMILCRNDYI 63

Query: 169 QYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTT 221
           +          G H                   F  E+       +       
Sbjct: 64  RLFGNSGAGGSGGHMGSGGDVMVVGEPTLMGGEFGDEDERLITRLENTQFDAA 116

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

 Score = 62.8 bits (153), Expect = 3e-13
 Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 1/66 (1%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCEND-WNDLFTT 221
           C  C ++    + + ++GK +H  C  C  CGK   +      EG PYC +  ++ +F  
Sbjct: 3   CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGP 62

Query: 222 KCFACG 227
           K F  G
Sbjct: 63  KGFGRG 68

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

 Score = 45.8 bits (109), Expect = 4e-07
 Identities = 17/66 (25%), Positives = 27/66 (40%), Gaps = 4/66 (6%)

Query: 112 PLCGQCYQQIR-GPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYC-EFCFEQ 169
           P C +C +++     +T+LGK W      C   +C + L   G  E +   YC   C+  
Sbjct: 1   PKCPKCDKEVYFAERVTSLGKDWHRPCLKCE--KCGKTLTSGGHAEHEGKPYCNHPCYSA 58

Query: 170 YLAPDC 175
              P  
Sbjct: 59  MFGPKG 64

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

 Score = 62.9 bits (153), Expect = 3e-13
 Identities = 14/76 (18%), Positives = 23/76 (30%), Gaps = 13/76 (17%)

Query: 161 LYCEFCFEQYLAPDC-----------LNAIGKHYHPECFTCAYCGKLF--GNNPFFLEEG 207
                 +       C           + A    YHPECF C  C  +   G+    ++  
Sbjct: 4   GSSGKDYWGKFGEFCHGCSLLMTGPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHA 63

Query: 208 LPYCENDWNDLFTTKC 223
             YC    N++ +   
Sbjct: 64  TLYCGKCHNEVVSGPS 79

>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 = 60.2 bits (146), Expect = 3e-12
 Identities = 16/66 (24%), Positives = 28/66 (42%), Gaps = 4/66 (6%)

Query: 112 PLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPL--QDIGFVEEDSGLYCEFCFEQ 169
             C  C   + GPF+ A    + P+ F C+   CK  +   D   + + + LYC  C  +
Sbjct: 16  EFCHGCSLLMTGPFMVAGEFKYHPECFACMS--CKVIIEDGDAYALVQHATLYCGKCHNE 73

Query: 170 YLAPDC 175
            ++   
Sbjct: 74  VVSGPS 79

>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 = 46.7 bits (111), Expect = 2e-07
 Identities = 11/45 (24%), Positives = 15/45 (33%), Gaps = 2/45 (4%)

Query: 209 PYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSS 253
                D+   F   C  C   +     ++ A    YH  CF C S
Sbjct: 4   GSSGKDYWGKFGEFCHGCSLLMT--GPFMVAGEFKYHPECFACMS 46

>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 = 62.5 bits (152), Expect = 4e-13
 Identities = 14/74 (18%), Positives = 23/74 (31%), Gaps = 16/74 (21%)

Query: 161 LYCEFCFEQYLAPDC----------------LNAIGKHYHPECFTCAYCGKLFGNNPFFL 204
                C++ ++A  C                +   G+ +H  CF C  C     N  F  
Sbjct: 4   GSSGDCYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVF 63

Query: 205 EEGLPYCENDWNDL 218
            +   YC +    L
Sbjct: 64  HQEQVYCPDCAKKL 77

>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 = 55.2 bits (133), Expect = 2e-10
 Identities = 11/50 (22%), Positives = 17/50 (34%), Gaps = 3/50 (6%)

Query: 207 GLPYCENDWNDLFTTKCFACGFPIEA---GDRWVEALNNNYHSLCFNCSS 253
                 + + +    KC  C  PI     G   V     ++H  CF+C  
Sbjct: 2   SSGSSGDCYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKK 51

>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 = 52.1 bits (125), Expect = 3e-09
 Identities = 15/63 (23%), Positives = 22/63 (34%), Gaps = 7/63 (11%)

Query: 112 PLCGQCYQQIRGP-----FITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFC 166
             C  C   I G       +   G+ W    F C   +C   L +  FV     +YC  C
Sbjct: 16  KKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCK--KCSVNLANKRFVFHQEQVYCPDC 73

Query: 167 FEQ 169
            ++
Sbjct: 74  AKK 76

>1a7i_A QCRP2 (LIM1); LIM domain containing proteins, metal-binding protein, zinc finger; NMR {Coturnix japonica} SCOP: g.39.1.3 g.39.1.3 PDB: 2o10_A Length = 81

 Score = 61.7 bits (150), Expect = 9e-13
 Identities = 13/65 (20%), Positives = 25/65 (38%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTK 222
           C  C       + +   G+ +H  CF C  C K   +    + +   YC++ +   +  K
Sbjct: 10  CGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYGPK 69

Query: 223 CFACG 227
            +  G
Sbjct: 70  GYGYG 74

>1a7i_A QCRP2 (LIM1); LIM domain containing proteins, metal-binding protein, zinc finger; NMR {Coturnix japonica} SCOP: g.39.1.3 g.39.1.3 PDB: 2o10_A Length = 81

 Score = 46.2 bits (110), Expect = 3e-07
 Identities = 14/67 (20%), Positives = 27/67 (40%), Gaps = 3/67 (4%)

Query: 112 PLCGQCYQQI-RGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQY 170
             CG C + +     +   G+ +    FLC+   C++ L        D+ +YC+ C+ + 
Sbjct: 8   NKCGACGRTVYHAEEVQCDGRSFHRCCFLCM--VCRKNLDSTTVAIHDAEVYCKSCYGKK 65

Query: 171 LAPDCLN 177
             P    
Sbjct: 66  YGPKGYG 72

>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 = 61.6 bits (149), Expect = 2e-12
 Identities = 17/93 (18%), Positives = 30/93 (32%), Gaps = 4/93 (4%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFG--NNPFFLEEGLPYCENDWNDLFT 220
           C  C +       L AI +++H +C +C  CG   G      + + G   C  D+  L  
Sbjct: 6   CGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGG 65

Query: 221 TKCFAC--GFPIEAGDRWVEALNNNYHSLCFNC 251
           +       G  +  G+  +              
Sbjct: 66  SGGHMGSGGDVMVVGEPTLMGGEFGDEDERLIT 98

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

 Score = 57.9 bits (140), Expect = 2e-11
 Identities = 9/49 (18%), Positives = 16/49 (32%)

Query: 175 CLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKC 223
            ++   + +H +CF C  C        F  E     C +   D+     
Sbjct: 23  YISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGKDISGPSS 71

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

 Score = 54.1 bits (130), Expect = 4e-10
 Identities = 17/68 (25%), Positives = 24/68 (35%), Gaps = 6/68 (8%)

Query: 112 PLCGQCYQQIRGP----FITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCF 167
             C  C   I G     +I+   + W  D F C   +C   L   GF+ E   + C  C 
Sbjct: 6   SGCAGCTNPISGLGGTKYISFEERQWHNDCFNCK--KCSLSLVGRGFLTERDDILCPDCG 63

Query: 168 EQYLAPDC 175
           +    P  
Sbjct: 64  KDISGPSS 71

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

 Score = 42.1 bits (99), Expect = 7e-06
 Identities = 10/38 (26%), Positives = 17/38 (44%), Gaps = 2/38 (5%)

Query: 218 LFTTKCFACGFPIEA--GDRWVEALNNNYHSLCFNCSS 253
             ++ C  C  PI    G +++      +H+ CFNC  
Sbjct: 3   SGSSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKK 40

>1v6g_A Actin binding LIM protein 2; LIM domain, zinc binding domain, ablim2, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 81

 Score = 57.1 bits (138), Expect = 5e-11
 Identities = 17/56 (30%), Positives = 23/56 (41%), Gaps = 3/56 (5%)

Query: 112 PLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIG-FVEEDSGLYCEFC 166
             C  C Q I G  ++ALGK + PD F+C    C+ P               C+ C
Sbjct: 16  TRCFSCDQFIEGEVVSALGKTYHPDCFVCA--VCRLPFPPGDRVTFNGKECMCQKC 69

>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 = 55.6 bits (134), Expect = 1e-10
 Identities = 20/74 (27%), Positives = 29/74 (39%), Gaps = 12/74 (16%)

Query: 160 GLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLF 219
           G  C  C +Q++  + ++A+GK YHP+CF CA C   F         G            
Sbjct: 15  GTRCFSC-DQFIEGEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECM-------- 65

Query: 220 TTKCFACGFPIEAG 233
              C  C  P+   
Sbjct: 66  ---CQKCSLPVSVS 76

>1v6g_A Actin binding LIM protein 2; LIM domain, zinc binding domain, ablim2, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 81

 Score = 44.8 bits (106), Expect = 9e-07
 Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 2/40 (5%)

Query: 214 DWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSS 253
           D+  L+ T+CF+C   IE     V AL   YH  CF C+ 
Sbjct: 9   DYQRLYGTRCFSCDQFIE--GEVVSALGKTYHPDCFVCAV 46

>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 = 55.3 bits (133), Expect = 2e-10
 Identities = 10/61 (16%), Positives = 17/61 (27%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTK 222
           C            +      +H ECF C  C        F  +    +C+   + + T  
Sbjct: 11  CSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCGSGMDTDI 70

Query: 223 C 223
            
Sbjct: 71  S 71

>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 = 49.5 bits (118), Expect = 2e-08
 Identities = 15/62 (24%), Positives = 24/62 (38%), Gaps = 6/62 (9%)

Query: 112 PLCGQCYQQIRGP----FITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCF 167
             C  C + I G     FI      W  + F C   +C   L   GF+ ++  ++C+ C 
Sbjct: 6   SGCVACSKPISGLTGAKFICFQDSQWHSECFNCG--KCSVSLVGKGFLTQNKEIFCQKCG 63

Query: 168 EQ 169
             
Sbjct: 64  SG 65

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

 Score = 43.7 bits (103), Expect = 2e-06
 Identities = 12/38 (31%), Positives = 20/38 (52%), Gaps = 2/38 (5%)

Query: 217 DLFTTKCFACGFPIEA--GDRWVEALNNNYHSLCFNCS 252
              ++ C AC  PI    G +++   ++ +HS CFNC 
Sbjct: 2   SSGSSGCVACSKPISGLTGAKFICFQDSQWHSECFNCG 39

>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 = 55.9 bits (134), Expect = 3e-10
 Identities = 15/59 (25%), Positives = 25/59 (42%), Gaps = 2/59 (3%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPF--FLEEGLPYCENDWNDLF 219
           C  C  +      L A+  ++H  C  C+ C    G+     + + G+  C ND+  LF
Sbjct: 64  CAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLF 122

>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 = 54.3 bits (131), Expect = 4e-10
 Identities = 14/62 (22%), Positives = 25/62 (40%), Gaps = 1/62 (1%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCEND-WNDLFTT 221
           C  C +     + ++++GK +H  C  C  C K          +G P+C    +  LF +
Sbjct: 12  CPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFGS 71

Query: 222 KC 223
             
Sbjct: 72  GP 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 = 39.3 bits (92), Expect = 8e-05
 Identities = 14/64 (21%), Positives = 24/64 (37%), Gaps = 4/64 (6%)

Query: 112 PLCGQCYQQIR-GPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCE-FCFEQ 169
             C +C + +     +++LGK W      C   +C + L   G  E D   +C   C+  
Sbjct: 10  SKCPKCDKTVYFAEKVSSLGKDWHKFCLKCE--RCSKTLTPGGHAEHDGKPFCHKPCYAT 67

Query: 170 YLAP 173
               
Sbjct: 68  LFGS 71

>2d8y_A Eplin protein; LIM domain, epithelial protein LOST in neoplasm, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 91

 Score = 54.1 bits (130), Expect = 6e-10
 Identities = 17/65 (26%), Positives = 26/65 (40%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTK 222
           C  C +     + L A  + +H  CF C+YC        +    G  YC+  +N LF +K
Sbjct: 18  CVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSK 77

Query: 223 CFACG 227
                
Sbjct: 78  GNYDE 82

>2d8y_A Eplin protein; LIM domain, epithelial protein LOST in neoplasm, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 91

 Score = 37.9 bits (88), Expect = 3e-04
 Identities = 11/65 (16%), Positives = 21/65 (32%), Gaps = 3/65 (4%)

Query: 112 PLCGQCYQQIRGP-FITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQY 170
             C +C + +     + A  +++    F C    C   L    +      +YC+  F Q 
Sbjct: 16  ETCVECQKTVYPMERLLANQQVFHISCFRCS--YCNNKLSLGTYASLHGRIYCKPHFNQL 73

Query: 171 LAPDC 175
                
Sbjct: 74  FKSKG 78

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

 Score = 50.1 bits (119), Expect = 1e-08
 Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 2/50 (4%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGN-NPFFLEEGLPYC 211
           C+ C E+Y+    L A  KHYHP C  C  CG++F      +L+    + 
Sbjct: 8   CDSC-EKYITGRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWH 56

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

 Score = 37.8 bits (87), Expect = 3e-04
 Identities = 15/64 (23%), Positives = 24/64 (37%), Gaps = 3/64 (4%)

Query: 112 PLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQD-IGFVEEDSGLYCEFCFEQY 170
             C  C + I G  + A  K + P   LCVR  C +   +      + S ++   C +  
Sbjct: 6   SGCDSCEKYITGRVLEAGEKHYHPSCALCVR--CGQMFAEGEEMYLQGSSIWHPACRQAA 63

Query: 171 LAPD 174
              D
Sbjct: 64  RTED 67

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

 Score = 43.0 bits (101), Expect = 5e-06
 Identities = 14/52 (26%), Positives = 17/52 (32%), Gaps = 2/52 (3%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLF--GNNPFFLEEGLPYCE 212
           C  C E     + L   G  +H  CF C  C      G       +G  YC 
Sbjct: 18  CALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCL 69

>2iyb_E Testin, TESS, TES; LIM domain, SH3-binding, tumour supressor LIM domain EVH1 DO cell motility, phosphorylation, cytoskeleton; 2.35A {Homo sapiens} Length = 65

 Score = 40.6 bits (95), Expect = 2e-05
 Identities = 10/37 (27%), Positives = 15/37 (40%), Gaps = 2/37 (5%)

Query: 219 FTTKCFACGFPIEAGDRWVEALNNNYHSL--CFNCSS 253
               C  C   I+   + V   N ++H+   CF CS 
Sbjct: 1   HAVVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSC 37

>2iyb_E Testin, TESS, TES; LIM domain, SH3-binding, tumour supressor LIM domain EVH1 DO cell motility, phosphorylation, cytoskeleton; 2.35A {Homo sapiens} Length = 65

 Score = 39.1 bits (91), Expect = 9e-05
 Identities = 14/54 (25%), Positives = 22/54 (40%), Gaps = 5/54 (9%)

Query: 162 YCEFCFEQYLAPDC--LNAIGKHYH--PECFTCAYCGKLFGNNPFFLEEGLPYC 211
            C+ C    + P+   +      +H   ECF C+ C K      F   EG+ +C
Sbjct: 4   VCQGCHNA-IDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFC 56

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	282
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.92
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.92
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.92
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.9
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.9
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.9
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.9
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.9
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.89
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.89
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.88
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.87
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.85
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.77
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.71
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	99.67
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	99.65
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.61
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.58
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.57
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.56
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.55
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.55
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	99.55
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.55
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.53
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	99.53
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.52
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.51
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	99.51
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.5
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.5
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.5
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.5
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	99.49
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.48
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	99.47
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	99.47
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	99.47
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.47
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	99.47
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	99.46
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.45
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.45
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	99.45
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	99.44
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	99.43
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	99.43
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.43
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	99.42
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	99.42
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	99.42
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.42
2cor_A	79	Pinch protein; LIM domain, particularly interestin	99.41
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	99.41
2co8_A	82	NEDD9 interacting protein with calponin homology a	99.4
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.4
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	99.39
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	99.39
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	99.39
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	99.39
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.39
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.38
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	99.38
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	99.38
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	99.37
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	99.36
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.36
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	99.35
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	99.34
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	99.33
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	99.33
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.32
2cor_A	79	Pinch protein; LIM domain, particularly interestin	99.32
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	99.31
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	99.29
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	99.28
2co8_A	82	NEDD9 interacting protein with calponin homology a	99.27
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	99.25
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	99.23
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	99.22
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	99.21
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	99.18
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	99.17
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	97.39
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	97.21

>1b8t_A Protein (CRP1); LIM domain, muscle differentiation, contractIle; NMR {Gallus gallus} SCOP: g.39.1.3 g.39.1.3 g.39.1.3 g.39.1.3 PDB: 1ibi_A 1qli_A 1cxx_A 1ctl_A 2o13_A

Probab=99.92  E-value=7.6e-26  Score=189.78  Aligned_cols=120  Identities=26%  Similarity=0.595  Sum_probs=109.2

Q ss_pred             CCCcccccCcccc-CceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCC---------------
Q psy11345        110 RVPLCGQCYQQIR-GPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAP---------------  173 (282)
Q Consensus       110 ~~~~C~~C~~~I~-~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~---------------  173 (282)
                      ..+.|.+|+++|. ++.|.++|+.||++||+|.  .|+.+|....|+.+++++||+.||.+++++               
T Consensus         6 ~~~~C~~C~~~I~~~~~v~a~g~~wH~~CF~C~--~C~~~L~~~~~~~~~g~~yC~~cy~~~f~~~c~~c~~~~g~~~~~   83 (192)
T 1b8t_A            6 GGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCM--VCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTD   83 (192)
T ss_dssp             CCEECTTTCCEECSSCCEEETTEEECTTTCBCT--TTCCBCCSSSEEEETTEEEEHHHHHHHHSCCCCCCCCCCCCCCCC
T ss_pred             CCCcCccCCCeecceeEEEeCCceecCCCCcCc--ccCCcCCCCeeEecCCEeeChhhhHhhcCccccccccccccEecC
Confidence            3469999999996 7888999999999999999  999999998999999999999999876543               


Q ss_pred             ---------------------------------------------ceeeecCccccccCccCCccCcccCCCCeeeeCCe
Q psy11345        174 ---------------------------------------------DCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGL  208 (282)
Q Consensus       174 ---------------------------------------------~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~  208 (282)
                                                                   +.+.+.++.||++||+|..|+++|.+..|+..+++
T Consensus        84 ~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~  163 (192)
T 1b8t_A           84 KGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGE  163 (192)
T ss_dssp             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEECTTTSCEECSSSCEEETTEEECTTTCBCTTTCCBCCSSSEEEETTE
T ss_pred             CCcccccccccccccCCCCcCccccccccCCCCcCCCCCCEecCcEEEecCCCccchhcCCccccCCCCCCCcccccCCE
Confidence                                                         23678899999999999999999988889999999


Q ss_pred             ecCHhhhhcccCCCCccCCCccc
Q psy11345        209 PYCENDWNDLFTTKCFACGFPIE  231 (282)
Q Consensus       209 ~yC~~c~~~~~~~~C~~C~~~I~  231 (282)
                      +||+.||.++|+++|.+|++++.
T Consensus       164 ~yC~~cy~~~f~~kc~~C~~~~g  186 (192)
T 1b8t_A          164 IYCKGCYAKNFGPKGFGFGQGAG  186 (192)
T ss_dssp             EEEHHHHHHHTCCCCCCCCCCCC
T ss_pred             EeCHHHHHHhcCCcCCCCCCccc
Confidence            99999999999999999999864

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

Probab=99.92  E-value=1.5e-25  Score=175.41  Aligned_cols=113  Identities=22%  Similarity=0.435  Sum_probs=103.2

Q ss_pred             cccccccccccCCceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCccCCCccccCCcEEEeC
Q psy11345        161 LYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEAL  240 (282)
Q Consensus       161 ~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~  240 (282)
                      +.|..|.+.+.....+.+.++.||++||+|..|+++|.+..|+.+++++||+.||.++|+++|.+|+++|.+++.+|.++
T Consensus         4 ~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~I~~~~~~~~a~   83 (126)
T 2xqn_T            4 PRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVVCQGCHNAIDPEVQRVTYN   83 (126)
T ss_dssp             CBBTTTSSBCCSSCEEEETTEEECGGGSBCTTTCCBCTTSEEEEETTEEEEHHHHHHHSCCBCTTTCSBCCTTSCEEEET
T ss_pred             CCCccCCCEeCCceEEeeCCCCccCCCCCcCCCCCCCCcCEEEeECCEEechHHhCcCcCccCcccCCcCCcCceEEECC
Confidence            56888888888777889999999999999999999999878999999999999999999999999999999877899999


Q ss_pred             Ccccc--cCCCcCCCCCCCCCCCCcccccCCceecCCCeeecC
Q psy11345        241 NNNYH--SLCFNCSSPSSPALSGAKPYGTQNTIKSTSGTIVCL  281 (282)
Q Consensus       241 ~~~~H--~~Cf~C~~C~~~l~~g~~~~~~~~~~~~~~g~~~C~  281 (282)
                      ++.||  ++||+|..|+++| .|+.|+       ..+|++||+
T Consensus        84 ~~~~H~~~~CF~C~~C~~~l-~~~~f~-------~~~~~~yC~  118 (126)
T 2xqn_T           84 NFSWHASTECFLCSCCSKCL-IGQKFM-------PVEGMVFCS  118 (126)
T ss_dssp             TEEEESSTTTSBCTTTCCBC-TTSEEE-------EETTEEESS
T ss_pred             CCEeeCCCCCcCcCCCCCcc-CCCeeE-------eECCEEcch
Confidence            99999  9999999999994 576665       678999997

>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=1.8e-25  Score=176.14  Aligned_cols=115  Identities=26%  Similarity=0.531  Sum_probs=102.9

Q ss_pred             ccccccccccccCCceeeecCccccccCccCCccCcccCC--CCeeeeCCeecCHhhhhcccCC--CCccCCCccccCCc
Q psy11345        160 GLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGN--NPFFLEEGLPYCENDWNDLFTT--KCFACGFPIEAGDR  235 (282)
Q Consensus       160 ~~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~--~~f~~~~~~~yC~~c~~~~~~~--~C~~C~~~I~~~~~  235 (282)
                      .+.|..|.+.|.+...+.+.++.||++||+|..|+++|..  ..|+.+++++||+.||.++|++  +|..|+++|.+.+.
T Consensus         2 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~~~~C~~C~~~I~~~e~   81 (131)
T 2xjy_A            2 LLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIRAYEM   81 (131)
T ss_dssp             CCBBTTTCCBCCSSEEEEETTEEEETTTCBCTTTCCBCSSTTCCEEEETTEEECHHHHHHHHCCCEECTTTCCEECTTSE
T ss_pred             cccCcCCCCEeCCcEEEEECCCcccHHHcccCcCCCccccCCCeEEEECCEEeecCchhhhCCCccChhhcCCccCccce
Confidence            3568888888887777899999999999999999999963  5699999999999999999999  99999999997778


Q ss_pred             EEEeCCcccccCCCcCCCCCCCCCCCCcccccCCceecCCCeeecC
Q psy11345        236 WVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKSTSGTIVCL  281 (282)
Q Consensus       236 ~~~~~~~~~H~~Cf~C~~C~~~l~~g~~~~~~~~~~~~~~g~~~C~  281 (282)
                      ++.+.++.||++||+|..|+++|..|..|+       ..+|++||+
T Consensus        82 ~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~-------~~~~~~~C~  120 (131)
T 2xjy_A           82 TMRVKDKVYHLECFKCAACQKHFCVGDRYL-------LINSDIVCE  120 (131)
T ss_dssp             EEEETTEEEEGGGCBCTTTCCBCCTTCEEE-------EETTEEEEG
T ss_pred             eEeeCCceECccCcccCCCCCCCCCCCEEE-------EECCEEEcH
Confidence            899999999999999999999965677666       668899996

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

Probab=99.90  E-value=3.7e-24  Score=177.97  Aligned_cols=117  Identities=26%  Similarity=0.509  Sum_probs=104.1

Q ss_pred             CCccccccccccccCCceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCccCCCccccCCcEE
Q psy11345        158 DSGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWV  237 (282)
Q Consensus       158 ~~~~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~  237 (282)
                      .+.+.|..|.+.|.....+.+.++.||++||+|..|+++|.+..| .+++++||+.||.++|+++|..|+++|.+++.++
T Consensus        58 ~~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f-~~~g~~yC~~~y~~~f~~kC~~C~~~I~~~~~v~  136 (182)
T 2jtn_A           58 PEIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRFGTKCAACQLGIPPTQVVR  136 (182)
T ss_dssp             CSCCBCBTSSSBCCCSEEEEETTEEECSSTTSCTTTCCCCSSCCE-EETTEEECHHHHHHTTSCCCTTTCCCCCSSCCCC
T ss_pred             CCCCcCccCCCCccCceeEEecCCeEccccCccCCCCCccCCCce-eECCEeeecCccccccccccccCCCccCCCceEE
Confidence            456789999999988778899999999999999999999987664 7899999999999999999999999999777778


Q ss_pred             EeCCcccccCCCcCCCCCCCCCCCCcccccCCceecCCCeeecC
Q psy11345        238 EALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKSTSGTIVCL  281 (282)
Q Consensus       238 ~~~~~~~H~~Cf~C~~C~~~l~~g~~~~~~~~~~~~~~g~~~C~  281 (282)
                      .+.++.||++||+|..|+++|..|..||      ...+|++||+
T Consensus       137 ~a~~~~~H~~CF~C~~C~~~L~~g~~f~------~~~~g~~yC~  174 (182)
T 2jtn_A          137 RAQDFVYHLHCFACVVCKRQLATGDEFY------LMEDSRLVCK  174 (182)
T ss_dssp             EETTEECCTTTCCCTTTCCCCCTTCEEE------ECTTSCEECH
T ss_pred             ecCCCCEEeCCCcCCCCCCCCCCCCceE------EccCCEEECH
Confidence            8999999999999999999976677655      2568899996

>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=99.90  E-value=2.6e-24  Score=176.88  Aligned_cols=116  Identities=27%  Similarity=0.515  Sum_probs=101.8

Q ss_pred             CccccccccccccCCceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCccCCCccccCCcEEE
Q psy11345        159 SGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVE  238 (282)
Q Consensus       159 ~~~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~  238 (282)
                      +...|..|.+.|.....+.+.++.||++||+|..|+++|.+.. |.+++++||+.||.++|+++|..|+++|.+++.++.
T Consensus         5 ~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~-f~~~g~~yC~~~y~~~f~~~C~~C~~~I~~~~~v~~   83 (169)
T 2rgt_A            5 EIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERC-FSRGESVYCKDDFFKRFGTKCAACQLGIPPTQVVRR   83 (169)
T ss_dssp             --CBBSSSSSBCCSSSCEECSSCEECTTTSBCTTTCCBCCSCC-EESSSCEECHHHHHHHHSCBCTTTCCBCCTTSEEEE
T ss_pred             CCCccccCCCccCCcEEEEECCcEEccccCccCCCCCcCCCCC-cccCCeeeecccccccccccccccccccCCCcEEEE
Confidence            3467888888888877888999999999999999999998766 578999999999999999999999999997777788


Q ss_pred             eCCcccccCCCcCCCCCCCCCCCCcccccCCceecCCCeeecC
Q psy11345        239 ALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKSTSGTIVCL  281 (282)
Q Consensus       239 ~~~~~~H~~Cf~C~~C~~~l~~g~~~~~~~~~~~~~~g~~~C~  281 (282)
                      +.++.||++||+|..|++.|..|..||      ...||++||+
T Consensus        84 a~~~~~H~~CF~C~~C~~~L~~g~~f~------~~~~g~~~C~  120 (169)
T 2rgt_A           84 AQDFVYHLHCFACVVCKRQLATGDEFY------LMEDSRLVCK  120 (169)
T ss_dssp             ETTEEEEGGGCBCTTTCCBCCTTCEEE------ECTTSCEEEH
T ss_pred             cCCceEeeCCCcCCCCCCCCCCCCceE------EccCCeEECH
Confidence            999999999999999999976677665      2467889985

>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=99.90  E-value=1.6e-24  Score=181.03  Aligned_cols=115  Identities=28%  Similarity=0.570  Sum_probs=103.4

Q ss_pred             ccccccccccccCCceeeecCccccccCccCCccCcccCC--CCeeeeCCeecCHhhhhcccCC--CCccCCCccccCCc
Q psy11345        160 GLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGN--NPFFLEEGLPYCENDWNDLFTT--KCFACGFPIEAGDR  235 (282)
Q Consensus       160 ~~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~--~~f~~~~~~~yC~~c~~~~~~~--~C~~C~~~I~~~~~  235 (282)
                      .+.|..|.+.|.....+.+.++.||++||+|..|+++|..  ..|+.+++++||+.||.++|++  +|..|+++|.+.+.
T Consensus         5 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~cy~~~~~~~~~C~~C~~~I~~~e~   84 (188)
T 1rut_X            5 WKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPASEL   84 (188)
T ss_dssp             CCBBTTTCCBCCCSEEEEETTEEECGGGCBCTTTCCBHHHHCSEEEEETTEEECHHHHHHHHSCCEECTTTCCEECTTSE
T ss_pred             CCcCccCCCEeCCceeEEecCcEecccCcccCCCCcccccCCceEEEeCCccccccccccccccCCccccCCCccccCcE
Confidence            4578888888887778899999999999999999999985  5699999999999999999998  79999999997778


Q ss_pred             EEEeCCcccccCCCcCCCCCCCCCCCCcccccCCceecCCCeeecC
Q psy11345        236 WVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKSTSGTIVCL  281 (282)
Q Consensus       236 ~~~~~~~~~H~~Cf~C~~C~~~l~~g~~~~~~~~~~~~~~g~~~C~  281 (282)
                      ++.+.++.||++||+|..|++.|..|..|+       ..++++||+
T Consensus        85 ~i~a~~~~~H~~CF~C~~C~~~L~~g~~f~-------~~~g~~yC~  123 (188)
T 1rut_X           85 VMRAQGNVYHLKCFTCSTCRNRLVPGDRFH-------YINGSLFCE  123 (188)
T ss_dssp             EEEETTEEECGGGCBCTTTCCBCCTTCEEE-------EETTEEEEG
T ss_pred             EEEcCCCEEeCCCCeECCCCCCCCCCCeEE-------EECCeEECH
Confidence            899999999999999999999966677666       668899996

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

Probab=99.90  E-value=1.1e-24  Score=171.60  Aligned_cols=108  Identities=26%  Similarity=0.508  Sum_probs=96.6

Q ss_pred             CCcccccCccccCc-eeecCCcccCcCCcccccCCCCCCCCC--CCceecCCccccccccccccCC--c-----------
Q psy11345        111 VPLCGQCYQQIRGP-FITALGKIWCPDHFLCVRPQCKRPLQD--IGFVEEDSGLYCEFCFEQYLAP--D-----------  174 (282)
Q Consensus       111 ~~~C~~C~~~I~~~-~v~~~~~~~H~~Cf~C~~~~C~~~l~~--~~~~~~~~~~yC~~c~~~~~~~--~-----------  174 (282)
                      .++|.+|+++|.++ +|.|+|+.||++||+|.  .|+.+|..  ..|+.++|++||+.||.+++++  .           
T Consensus         2 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~--~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~~~~C~~C~~~I~~~   79 (131)
T 2xjy_A            2 LLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCD--LCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIRAY   79 (131)
T ss_dssp             CCBBTTTCCBCCSSEEEEETTEEEETTTCBCT--TTCCBCSSTTCCEEEETTEEECHHHHHHHHCCCEECTTTCCEECTT
T ss_pred             cccCcCCCCEeCCcEEEEECCCcccHHHcccC--cCCCccccCCCeEEEECCEEeecCchhhhCCCccChhhcCCccCcc
Confidence            46999999999887 68999999999999999  99999964  6799999999999999887765  2           


Q ss_pred             --eeeecCccccccCccCCccCcccC-CCCeeeeCCeecCHhhhhcccC
Q psy11345        175 --CLNAIGKHYHPECFTCAYCGKLFG-NNPFFLEEGLPYCENDWNDLFT  220 (282)
Q Consensus       175 --~~~~~~~~~H~~Cf~C~~C~~~l~-~~~f~~~~~~~yC~~c~~~~~~  220 (282)
                        .+.+.++.||++||+|..|+++|. +..|++.++++||..||.++++
T Consensus        80 e~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~C~~c~~~~~~  128 (131)
T 2xjy_A           80 EMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIYEWTK  128 (131)
T ss_dssp             SEEEEETTEEEEGGGCBCTTTCCBCCTTCEEEEETTEEEEGGGHHHHHH
T ss_pred             ceeEeeCCceECccCcccCCCCCCCCCCCEEEEECCEEEcHHHHHHHhh
Confidence              367899999999999999999995 5559999999999999998875

>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=99.90  E-value=1.5e-24  Score=181.35  Aligned_cols=140  Identities=19%  Similarity=0.397  Sum_probs=109.8

Q ss_pred             CCCcccccCccccCc-eeecCCcccCcCCcccccCCCCCCCCC--CCceecCCccccccccccccCC--c----------
Q psy11345        110 RVPLCGQCYQQIRGP-FITALGKIWCPDHFLCVRPQCKRPLQD--IGFVEEDSGLYCEFCFEQYLAP--D----------  174 (282)
Q Consensus       110 ~~~~C~~C~~~I~~~-~v~~~~~~~H~~Cf~C~~~~C~~~l~~--~~~~~~~~~~yC~~c~~~~~~~--~----------  174 (282)
                      ..++|.+|+++|.++ +|.|+++.||++||+|.  .|+.+|..  ..|+.+++++||+.||.++++.  .          
T Consensus         4 ~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~--~C~~~L~~~g~~~~~~~g~~yC~~cy~~~~~~~~~C~~C~~~I~~   81 (188)
T 1rut_X            4 SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCS--SCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPA   81 (188)
T ss_dssp             CCCBBTTTCCBCCCSEEEEETTEEECGGGCBCT--TTCCBHHHHCSEEEEETTEEECHHHHHHHHSCCEECTTTCCEECT
T ss_pred             CCCcCccCCCEeCCceeEEecCcEecccCcccC--CCCcccccCCceEEEeCCccccccccccccccCCccccCCCcccc
Confidence            346999999999987 58999999999999999  99999986  6899999999999999887765  2          


Q ss_pred             ---eeeecCccccccCccCCccCcccCC-CCeeeeCCeecCHhhhhcccCCCCccCCCccc----cCCcE----EEeCCc
Q psy11345        175 ---CLNAIGKHYHPECFTCAYCGKLFGN-NPFFLEEGLPYCENDWNDLFTTKCFACGFPIE----AGDRW----VEALNN  242 (282)
Q Consensus       175 ---~~~~~~~~~H~~Cf~C~~C~~~l~~-~~f~~~~~~~yC~~c~~~~~~~~C~~C~~~I~----~~~~~----~~~~~~  242 (282)
                         .+.+.++.||++||+|..|+++|.. ..|+..++++||..||.+++.++|...+....    ..|..    ...++.
T Consensus        82 ~e~~i~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~g~~yC~~c~~~~~~~~~~~~g~~~~~~~~~~~v~vvgep~l~g~  161 (188)
T 1rut_X           82 SELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHLNSGGSGGSGGSGGDVMVVGEPTLMGG  161 (188)
T ss_dssp             TSEEEEETTEEECGGGCBCTTTCCBCCTTCEEEEETTEEEEGGGCCTTTC----------------CCCEECCCCEETTC
T ss_pred             CcEEEEcCCCEEeCCCCeECCCCCCCCCCCeEEEECCeEECHHHHHHHhcccccccCCCCcccccCCcccccCCCcccCC
Confidence               3678899999999999999999964 45999999999999999999999988775211    11111    245678


Q ss_pred             ccccCCCcC
Q psy11345        243 NYHSLCFNC  251 (282)
Q Consensus       243 ~~H~~Cf~C  251 (282)
                      .||+...+.
T Consensus       162 ~~~~~~~r~  170 (188)
T 1rut_X          162 EFGDEDERL  170 (188)
T ss_dssp             CCCCTTEEE
T ss_pred             CCCCCCCce
Confidence            899888886

>2cup_A Skeletal muscle LIM-protein 1; four and half LIM domains protein 1, LIM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 g.39.1.3

Probab=99.89  E-value=1.4e-23  Score=157.83  Aligned_cols=96  Identities=26%  Similarity=0.425  Sum_probs=89.1

Q ss_pred             ccccccccccccC-CceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCccCCCccccCCcEEE
Q psy11345        160 GLYCEFCFEQYLA-PDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRWVE  238 (282)
Q Consensus       160 ~~yC~~c~~~~~~-~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~  238 (282)
                      ...|..|.+.+.. ...+.+.++.||++||+|..|+++|.+..|+.+++++||+.||.++|+++|.+|+++|.+++.+|.
T Consensus         5 ~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~C~~C~~~I~~~~~~~~   84 (101)
T 2cup_A            5 SSGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSPKCKGCFKAIVAGDQNVE   84 (101)
T ss_dssp             CCBCSSSCCBCCSSSCEEEETTEEEETTTCCCSSSCCCTTSSCCEEETTEEECHHHHTTCCCCBCSSSCCBCCSSSCEEE
T ss_pred             CCcCcccCCcccCCceEEEECccChhhcCCcccccCCCCCcCeeECcCCEEEChhHhhhhcCCccccCCCccccCCeEEE
Confidence            4568888888864 678899999999999999999999988779999999999999999999999999999998888999


Q ss_pred             eCCcccccCCCcCCCCC
Q psy11345        239 ALNNNYHSLCFNCSSPS  255 (282)
Q Consensus       239 ~~~~~~H~~Cf~C~~C~  255 (282)
                      ++++.||++||+|..|+
T Consensus        85 a~~~~~H~~CF~C~~C~  101 (101)
T 2cup_A           85 YKGTVWHKDCFSGPSSG  101 (101)
T ss_dssp             SSSCEEETTTCCCTTCC
T ss_pred             eCCcchHHhCCCCCCCC
Confidence            99999999999999996

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

Probab=99.89  E-value=1e-23  Score=164.99  Aligned_cols=106  Identities=25%  Similarity=0.541  Sum_probs=97.0

Q ss_pred             CcccccCcccc-CceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCCc-------------eee
Q psy11345        112 PLCGQCYQQIR-GPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPD-------------CLN  177 (282)
Q Consensus       112 ~~C~~C~~~I~-~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~-------------~~~  177 (282)
                      ++|.+|+++|. +++|.++|+.||++||+|.  .|+++|....|+.+++++||+.||.+++++.             .+.
T Consensus         4 ~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~--~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~I~~~~~~~~   81 (126)
T 2xqn_T            4 PRCAGCDELIFSNEYTQAENQNWHLKHFCCF--DCDSILAGEIYVMVNDKPVCKPCYVKNHAVVCQGCHNAIDPEVQRVT   81 (126)
T ss_dssp             CBBTTTSSBCCSSCEEEETTEEECGGGSBCT--TTCCBCTTSEEEEETTEEEEHHHHHHHSCCBCTTTCSBCCTTSCEEE
T ss_pred             CCCccCCCEeCCceEEeeCCCCccCCCCCcC--CCCCCCCcCEEEeECCEEechHHhCcCcCccCcccCCcCCcCceEEE
Confidence            69999999997 5789999999999999999  9999999889999999999999998877663             377


Q ss_pred             ecCcccc--ccCccCCccCcccCCCCeeeeCCeecCHhhhhccc
Q psy11345        178 AIGKHYH--PECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLF  219 (282)
Q Consensus       178 ~~~~~~H--~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~  219 (282)
                      +.++.||  ++||+|..|+++|.+..|++.++++||..++.++|
T Consensus        82 a~~~~~H~~~~CF~C~~C~~~l~~~~f~~~~~~~yC~~~~~~~f  125 (126)
T 2xqn_T           82 YNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKRM  125 (126)
T ss_dssp             ETTEEEESSTTTSBCTTTCCBCTTSEEEEETTEEESSHHHHHSC
T ss_pred             CCCCEeeCCCCCcCcCCCCCccCCCeeEeECCEEcchHHhhhhc
Confidence            8999999  99999999999999777999999999998887766

>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=3.8e-23  Score=169.89  Aligned_cols=134  Identities=22%  Similarity=0.470  Sum_probs=104.6

Q ss_pred             CCCcccccCccccCc-eeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCCce-------------
Q psy11345        110 RVPLCGQCYQQIRGP-FITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDC-------------  175 (282)
Q Consensus       110 ~~~~C~~C~~~I~~~-~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~~-------------  175 (282)
                      ..++|.+|+++|.+. +|.++|+.||++||+|.  .|+.+|.... |.++|++||+.||.++++..|             
T Consensus         5 ~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~--~C~~~L~~~~-f~~~g~~yC~~~y~~~f~~~C~~C~~~I~~~~~v   81 (169)
T 2rgt_A            5 EIPMCAGCDQHILDRFILKALDRHWHSKCLKCS--DCHVPLAERC-FSRGESVYCKDDFFKRFGTKCAACQLGIPPTQVV   81 (169)
T ss_dssp             --CBBSSSSSBCCSSSCEECSSCEECTTTSBCT--TTCCBCCSCC-EESSSCEECHHHHHHHHSCBCTTTCCBCCTTSEE
T ss_pred             CCCccccCCCccCCcEEEEECCcEEccccCccC--CCCCcCCCCC-cccCCeeeecccccccccccccccccccCCCcEE
Confidence            357999999999876 58899999999999999  9999998866 689999999999988777643             


Q ss_pred             eeecCccccccCccCCccCcccCCC-Ceee-eCCeecCHhhhhcccCCCCc--cCCCccccCCcEEEeCCcccccCCCc
Q psy11345        176 LNAIGKHYHPECFTCAYCGKLFGNN-PFFL-EEGLPYCENDWNDLFTTKCF--ACGFPIEAGDRWVEALNNNYHSLCFN  250 (282)
Q Consensus       176 ~~~~~~~~H~~Cf~C~~C~~~l~~~-~f~~-~~~~~yC~~c~~~~~~~~C~--~C~~~I~~~~~~~~~~~~~~H~~Cf~  250 (282)
                      +.+.++.||++||+|..|+++|..+ .|+. .++++||..||.+++...+.  ..+++.+    .+.+....+|...|.
T Consensus        82 ~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~~C~~c~~~~~~~~~~~~~~~rprt----~~~~~q~~~l~~~f~  156 (169)
T 2rgt_A           82 RRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAKQGGSGGSGGSGGGT----PMVAASPERHDGGLQ  156 (169)
T ss_dssp             EEETTEEEEGGGCBCTTTCCBCCTTCEEEECTTSCEEEHHHHHHHHHCC----------E----EEECCCCEECCSSCC
T ss_pred             EEcCCceEeeCCCcCCCCCCCCCCCCceEEccCCeEECHHHHHHHhhccCCCCCCcCCCC----cccHHHHHHHHHHHh
Confidence            4688999999999999999999744 4655 58899999999998866543  3333332    455666667777665

>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=99.87  E-value=1.5e-22  Score=169.68  Aligned_cols=115  Identities=22%  Similarity=0.527  Sum_probs=100.2

Q ss_pred             CCccccccccccccCCceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCC---------------
Q psy11345        158 DSGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTK---------------  222 (282)
Q Consensus       158 ~~~~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~---------------  222 (282)
                      .+...|..|.+.+...+.+.+.++.||++||+|..|+++|....|+.+++++||+.||.++|+++               
T Consensus         5 ~~~~~C~~C~~~I~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~f~~~c~~c~~~~g~~~~~~   84 (192)
T 1b8t_A            5 GGGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTDK   84 (192)
T ss_dssp             CCCEECTTTCCEECSSCCEEETTEEECTTTCBCTTTCCBCCSSSEEEETTEEEEHHHHHHHHSCCCCCCCCCCCCCCCCC
T ss_pred             CCCCcCccCCCeecceeEEEeCCceecCCCCcCcccCCcCCCCeeEecCCEeeChhhhHhhcCccccccccccccEecCC
Confidence            35678999999888777788999999999999999999999888999999999999999999876               


Q ss_pred             ---------------------------------CccCCCccccCCcEEEeCCcccccCCCcCCCCCCCCCCCCcccccCC
Q psy11345        223 ---------------------------------CFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQN  269 (282)
Q Consensus       223 ---------------------------------C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~g~~~~~~~~  269 (282)
                                                       |.+|+++|.+++ .|.+.++.||++||+|..|+++| .+..|+    
T Consensus        85 ~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~C~~C~~~I~~~~-~v~a~~~~~H~~CF~C~~C~~~L-~~~~~~----  158 (192)
T 1b8t_A           85 GESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAVYAAE-KVIGAGKSWHKSCFRCAKCGKSL-ESTTLA----  158 (192)
T ss_dssp             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEECTTTSCEECSSS-CEEETTEEECTTTCBCTTTCCBC-CSSSEE----
T ss_pred             CcccccccccccccCCCCcCccccccccCCCCcCCCCCCEecCcE-EEecCCCccchhcCCccccCCCC-CCCccc----
Confidence                                             778999998654 56799999999999999999995 333344    


Q ss_pred             ceecCCCeeecC
Q psy11345        270 TIKSTSGTIVCL  281 (282)
Q Consensus       270 ~~~~~~g~~~C~  281 (282)
                         ..||++||+
T Consensus       159 ---~~~g~~yC~  167 (192)
T 1b8t_A          159 ---DKDGEIYCK  167 (192)
T ss_dssp             ---EETTEEEEH
T ss_pred             ---ccCCEEeCH
Confidence               788999996

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

Probab=99.85  E-value=6.6e-22  Score=164.36  Aligned_cols=108  Identities=26%  Similarity=0.658  Sum_probs=93.6

Q ss_pred             CCCCCcccccCccccCc-eeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCCce-----------
Q psy11345        108 GARVPLCGQCYQQIRGP-FITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDC-----------  175 (282)
Q Consensus       108 ~~~~~~C~~C~~~I~~~-~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~~-----------  175 (282)
                      ....+.|.+|+++|.+. +|.++|+.||++||+|.  .|+++|.... |.++|++||+.||.+++++.|           
T Consensus        57 ~~~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~--~C~~~L~~~~-f~~~g~~yC~~~y~~~f~~kC~~C~~~I~~~~  133 (182)
T 2jtn_A           57 TPEIPMCAGCDQHILDRFILKALDRHWHSKCLKCS--DCHVPLAERC-FSRGESVYCKDDFFKRFGTKCAACQLGIPPTQ  133 (182)
T ss_dssp             CCSCCBCBTSSSBCCCSEEEEETTEEECSSTTSCT--TTCCCCSSCC-EEETTEEECHHHHHHTTSCCCTTTCCCCCSSC
T ss_pred             CCCCCcCccCCCCccCceeEEecCCeEccccCccC--CCCCccCCCc-eeECCEeeecCccccccccccccCCCccCCCc
Confidence            34567999999999876 57899999999999999  9999998866 589999999999998887744           


Q ss_pred             --eeecCccccccCccCCccCcccCCC-Ceee-eCCeecCHhhhhcc
Q psy11345        176 --LNAIGKHYHPECFTCAYCGKLFGNN-PFFL-EEGLPYCENDWNDL  218 (282)
Q Consensus       176 --~~~~~~~~H~~Cf~C~~C~~~l~~~-~f~~-~~~~~yC~~c~~~~  218 (282)
                        +.+.++.||++||+|..|+++|..+ .|+. .++++||..||.++
T Consensus       134 ~v~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~yC~~cy~~~  180 (182)
T 2jtn_A          134 VVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETA  180 (182)
T ss_dssp             CCCEETTEECCTTTCCCTTTCCCCCTTCEEEECTTSCEECHHHHHHH
T ss_pred             eEEecCCCCEEeCCCcCCCCCCCCCCCCceEEccCCEEECHHHHHHh
Confidence              4678999999999999999999754 4664 58899999999865

>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=99.77  E-value=2.5e-19  Score=134.52  Aligned_cols=82  Identities=24%  Similarity=0.585  Sum_probs=74.5

Q ss_pred             CCcccccCcccc--CceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCCc-------------e
Q psy11345        111 VPLCGQCYQQIR--GPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPD-------------C  175 (282)
Q Consensus       111 ~~~C~~C~~~I~--~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~-------------~  175 (282)
                      .+.|.+|+++|.  +++|.++++.||++||+|.  .|+++|....|+.+++++||+.||.+++++.             .
T Consensus         5 ~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~--~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~C~~C~~~I~~~~~~   82 (101)
T 2cup_A            5 SSGCVECRKPIGADSKEVHYKNRFWHDTCFRCA--KCLHPLANETFVAKDNKILCNKCTTREDSPKCKGCFKAIVAGDQN   82 (101)
T ss_dssp             CCBCSSSCCBCCSSSCEEEETTEEEETTTCCCS--SSCCCTTSSCCEEETTEEECHHHHTTCCCCBCSSSCCBCCSSSCE
T ss_pred             CCcCcccCCcccCCceEEEECccChhhcCCccc--ccCCCCCcCeeECcCCEEEChhHhhhhcCCccccCCCccccCCeE
Confidence            469999999996  6889999999999999999  9999999888999999999999998887653             4


Q ss_pred             eeecCccccccCccCCccC
Q psy11345        176 LNAIGKHYHPECFTCAYCG  194 (282)
Q Consensus       176 ~~~~~~~~H~~Cf~C~~C~  194 (282)
                      +.+.++.||++||+|..|+
T Consensus        83 ~~a~~~~~H~~CF~C~~C~  101 (101)
T 2cup_A           83 VEYKGTVWHKDCFSGPSSG  101 (101)
T ss_dssp             EESSSCEEETTTCCCTTCC
T ss_pred             EEeCCcchHHhCCCCCCCC
Confidence            7788999999999999996

>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=99.71  E-value=4.5e-18  Score=132.10  Aligned_cols=99  Identities=20%  Similarity=0.345  Sum_probs=83.1

Q ss_pred             ccccccccccccCCceeeecCccccccCccCCccCcccCC--CCeeeeCCeecCHhhhhcccCC--CCccCCCccccCCc
Q psy11345        160 GLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGN--NPFFLEEGLPYCENDWNDLFTT--KCFACGFPIEAGDR  235 (282)
Q Consensus       160 ~~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~--~~f~~~~~~~yC~~c~~~~~~~--~C~~C~~~I~~~~~  235 (282)
                      .+.|..|.+.+.....+.+.++.||++||+|..|+++|..  ..|+.+++++||+.||.++|++  +|.+|+++|.+  .
T Consensus         5 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~cy~~~f~~~~~C~~C~~~I~~--~   82 (122)
T 1m3v_A            5 WKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAGGSGGHMGSG--G   82 (122)
T ss_dssp             CCCBSSSSSCCCSSCCEEETTEEECHHHHCCSSSCCCTTTSEECCEEETTEEECHHHHHHHHCCCCSSSCSSCCSCC--E
T ss_pred             CCCCcccCCEeCCcEEEEECCceeHhhCCCcCCCCCcccccCCeEEEECCeeecHHHHHHHcCCCCccccCCCCcCc--h
Confidence            4678888888888777889999999999999999999973  5699999999999999999999  99999999984  3


Q ss_pred             EEEeCCcccccCCCcCCCCCCCCCCCCcccccCCceecCCCeeecC
Q psy11345        236 WVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKSTSGTIVCL  281 (282)
Q Consensus       236 ~~~~~~~~~H~~Cf~C~~C~~~l~~g~~~~~~~~~~~~~~g~~~C~  281 (282)
                      .+.+.+              +.++.|+.|+       ..++++||+
T Consensus        83 ~~~~~g--------------~~~l~g~~f~-------~~~~~~yC~  107 (122)
T 1m3v_A           83 DVMVVG--------------EPTLMGGEFG-------DEDERLITR  107 (122)
T ss_dssp             ESSSSS--------------SSSCCSCTTC-------CTTCCCCEE
T ss_pred             heEEcC--------------CcCCCCCccE-------ecCCEeEcc
Confidence            444444              3457777776       788889986

>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=99.67  E-value=2.7e-17  Score=126.15  Aligned_cols=100  Identities=17%  Similarity=0.240  Sum_probs=82.7

Q ss_pred             CCcccccCccccCc-eeecCCcccCcCCcccccCCCCCCCCC--CCceecCCccccccccccccCCceeeec-Ccccccc
Q psy11345        111 VPLCGQCYQQIRGP-FITALGKIWCPDHFLCVRPQCKRPLQD--IGFVEEDSGLYCEFCFEQYLAPDCLNAI-GKHYHPE  186 (282)
Q Consensus       111 ~~~C~~C~~~I~~~-~v~~~~~~~H~~Cf~C~~~~C~~~l~~--~~~~~~~~~~yC~~c~~~~~~~~~~~~~-~~~~H~~  186 (282)
                      .++|.+|+++|.+. +|.++++.||++||+|.  .|+.+|..  ..|+.+++++||+.||.+++++.|.-.. +..    
T Consensus         3 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~--~C~~~L~~~g~~~~~~~g~~yC~~~y~~~f~~~c~~c~~~~~----   76 (114)
T 1j2o_A            3 LLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCD--LCGCRLGEVGRRLYYKLGRKLCRRDYLRLGGSGGHMGSGGDV----   76 (114)
T ss_dssp             CBCBSSSCSCBCSSEEEECSSSEECTTTCCCS--SSCSCCCCSSSCCCCBTTBCCCHHHHHHHHTSCCSSCBSCSC----
T ss_pred             CCCCcCCCCeeCCcEEEEECchhHHHhcCccc--ccCCchhcCCCeeEEECCeeechHHHHHHhCcccCcCCCCce----
Confidence            46999999999887 79999999999999999  99999985  5799999999999999999998754222 222    


Q ss_pred             CccCCccCcc-cCCCCeeeeCCeecCHhhhhcccC
Q psy11345        187 CFTCAYCGKL-FGNNPFFLEEGLPYCENDWNDLFT  220 (282)
Q Consensus       187 Cf~C~~C~~~-l~~~~f~~~~~~~yC~~c~~~~~~  220 (282)
                          ..|+.+ |.+..|++.++++||..|+.++..
T Consensus        77 ----~~~~~~~~~g~~f~~~~~~~~C~~~~~~~~~  107 (114)
T 1j2o_A           77 ----MVVGEPTLMGGEFGDEDERLITRLENTQFDA  107 (114)
T ss_dssp             ----CCSSCSSTTSSBCCCSSSCCCEEEECTTCCC
T ss_pred             ----eEcCCccCCCCeeEEcCCEeecchhhhcccc
Confidence                235556 455569999999999999987654

>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=99.65  E-value=1.3e-16  Score=122.26  Aligned_cols=96  Identities=21%  Similarity=0.364  Sum_probs=79.8

Q ss_pred             CccccccccccccCCceeeecCccccccCccCCccCcccCC--CCeeeeCCeecCHhhhhcccCCCCccCCCccccCCcE
Q psy11345        159 SGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGN--NPFFLEEGLPYCENDWNDLFTTKCFACGFPIEAGDRW  236 (282)
Q Consensus       159 ~~~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~--~~f~~~~~~~yC~~c~~~~~~~~C~~C~~~I~~~~~~  236 (282)
                      +.+.|..|.+.|.....+.+.++.||++||+|+.|+++|..  ..|+.+++++||+.||.++|+++|..|..     +.+
T Consensus         2 ~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~~y~~~f~~~c~~c~~-----~~~   76 (114)
T 1j2o_A            2 SLLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGGSGGHMGSG-----GDV   76 (114)
T ss_dssp             CCBCBSSSCSCBCSSEEEECSSSEECTTTCCCSSSCSCCCCSSSCCCCBTTBCCCHHHHHHHHTSCCSSCBS-----CSC
T ss_pred             cCCCCcCCCCeeCCcEEEEECchhHHHhcCcccccCCchhcCCCeeEEECCeeechHHHHHHhCcccCcCCC-----Cce
Confidence            34678888888887778999999999999999999999975  46999999999999999999999998862     112


Q ss_pred             EEeCCcccccCCCcCCCCCCCCCCCCcccccCCceecCCCeeecC
Q psy11345        237 VEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKSTSGTIVCL  281 (282)
Q Consensus       237 ~~~~~~~~H~~Cf~C~~C~~~l~~g~~~~~~~~~~~~~~g~~~C~  281 (282)
                      +               .|.++++.|+.|+       ..++++||+
T Consensus        77 ~---------------~~~~~~~~g~~f~-------~~~~~~~C~   99 (114)
T 1j2o_A           77 M---------------VVGEPTLMGGEFG-------DEDERLITR   99 (114)
T ss_dssp             C---------------CSSCSSTTSSBCC-------CSSSCCCEE
T ss_pred             e---------------EcCCccCCCCeeE-------EcCCEeecc
Confidence            2               1557777887776       788889886

>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=99.61  E-value=6.4e-17  Score=125.55  Aligned_cols=102  Identities=14%  Similarity=0.221  Sum_probs=79.7

Q ss_pred             CCCcccccCccccCc-eeecCCcccCcCCcccccCCCCCCCCC--CCceecCCccccccccccccCC--ceee----ecC
Q psy11345        110 RVPLCGQCYQQIRGP-FITALGKIWCPDHFLCVRPQCKRPLQD--IGFVEEDSGLYCEFCFEQYLAP--DCLN----AIG  180 (282)
Q Consensus       110 ~~~~C~~C~~~I~~~-~v~~~~~~~H~~Cf~C~~~~C~~~l~~--~~~~~~~~~~yC~~c~~~~~~~--~~~~----~~~  180 (282)
                      ..+.|.+|+++|.+. +|.++++.||++||+|.  .|+.+|.+  ..|+.+++++||+.||.+++++  .|..    +.+
T Consensus         4 ~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~--~C~~~L~~~~~~~~~~~g~~yC~~cy~~~f~~~~~C~~C~~~I~~   81 (122)
T 1m3v_A            4 SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCS--SCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAGGSGGHMGSG   81 (122)
T ss_dssp             CCCCBSSSSSCCCSSCCEEETTEEECHHHHCCS--SSCCCTTTSEECCEEETTEEECHHHHHHHHCCCCSSSCSSCCSCC
T ss_pred             CCCCCcccCCEeCCcEEEEECCceeHhhCCCcC--CCCCcccccCCeEEEECCeeecHHHHHHHcCCCCccccCCCCcCc
Confidence            346999999999876 58999999999999999  99999973  6799999999999999998877  4411    111


Q ss_pred             ccccccCccCCccC-cccCCCCeeeeCCeecCHhhhhcccC
Q psy11345        181 KHYHPECFTCAYCG-KLFGNNPFFLEEGLPYCENDWNDLFT  220 (282)
Q Consensus       181 ~~~H~~Cf~C~~C~-~~l~~~~f~~~~~~~yC~~c~~~~~~  220 (282)
                      ..+       ...+ ..|.+..|+++++++||..||.+++.
T Consensus        82 ~~~-------~~~g~~~l~g~~f~~~~~~~yC~~~~~~~~~  115 (122)
T 1m3v_A           82 GDV-------MVVGEPTLMGGEFGDEDERLITRLENTQFDA  115 (122)
T ss_dssp             EES-------SSSSSSSCCSCTTCCTTCCCCEECTTTTTTC
T ss_pred             hhe-------EEcCCcCCCCCccEecCCEeEccCcchhchh
Confidence            111       0112 24566679999999999999988763

>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=99.58  E-value=4.7e-16  Score=112.04  Aligned_cols=69  Identities=14%  Similarity=0.312  Sum_probs=60.5

Q ss_pred             CCeecCHhhhhcccCCCCccCCCccccCCcEEEeCCcccccCCCcCCCCCCCCCCCCcccccCCceecCCCeeecCC
Q psy11345        206 EGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKSTSGTIVCLE  282 (282)
Q Consensus       206 ~~~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~g~~~~~~~~~~~~~~g~~~C~~  282 (282)
                      +|++||+.||.++|+++|.+|+++|.+++.++.++++.||++||+|..|+++| .+..|+       ..++++||+.
T Consensus         1 ~g~~yC~~~y~~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L-~~~~f~-------~~~~~~~C~~   69 (82)
T 2ehe_A            1 GSSGSSGPCYDNTFANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSL-ADEPFT-------CQDSELLCND   69 (82)
T ss_dssp             CCCCCCCCCCCCCCSCBCTTTCCBCCSSCCBCCCSSCCCBTTTSBCTTTCCBC-SSCCEE-------EETTEEEETT
T ss_pred             CCceechhHhCcccCCcCccCCCccccCcEEEEeCCccccccCCeecCCCCcc-CCCccE-------eeCCEEECHH
Confidence            57899999999999999999999999767888999999999999999999994 455444       7788999863

>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=99.57  E-value=1.1e-15  Score=108.83  Aligned_cols=68  Identities=21%  Similarity=0.436  Sum_probs=59.7

Q ss_pred             CCeecCHhhhhcccCCCCccCCCcccc---CCcEEEeCCcccccCCCcCCCCCCCCCCCCcccccCCceecCCCeeecC
Q psy11345        206 EGLPYCENDWNDLFTTKCFACGFPIEA---GDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKSTSGTIVCL  281 (282)
Q Consensus       206 ~~~~yC~~c~~~~~~~~C~~C~~~I~~---~~~~~~~~~~~~H~~Cf~C~~C~~~l~~g~~~~~~~~~~~~~~g~~~C~  281 (282)
                      .+++||+.||.++|+++|.+|+++|.+   .+.++.+.++.||++||+|..|+++ |.+..|+       ..+|++||+
T Consensus         1 g~~~yC~~cy~~~~~~~C~~C~~~I~~~g~~~~~~~a~~~~~H~~CF~C~~C~~~-L~~~~f~-------~~~~~~yC~   71 (77)
T 2egq_A            1 GSSGSSGDCYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVN-LANKRFV-------FHQEQVYCP   71 (77)
T ss_dssp             CCSSCCTTCCCSCCCCCCSSSCCCCCCCSSCCCEEEETTEEEETTTCBCSSSCCB-CTTSCCC-------EETTEECCH
T ss_pred             CCCeEchhHhchhhCccCcccCCcccCCCCCceeEEECcceeCcccCEehhcCCC-CCCCccE-------eECCEEECh
Confidence            367999999999999999999999995   4588999999999999999999999 4455555       788899985

>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=99.56  E-value=3e-15  Score=107.26  Aligned_cols=62  Identities=31%  Similarity=0.668  Sum_probs=52.4

Q ss_pred             cccccccccCCceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCcc
Q psy11345        163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFA  225 (282)
Q Consensus       163 C~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~~  225 (282)
                      |..|.+.+.+ ..+.+.++.||++||+|..|+++|.+..|+..++++||+.||.++|+++|.+
T Consensus        18 C~~C~~~I~~-~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~~y~~~f~~~C~~   79 (80)
T 1x3h_A           18 CGGCNRPVLE-NYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHHRRGSGPSS   79 (80)
T ss_dssp             CTTTCCBCCS-SCEEETTEEECTTTCBCSSSCCBSCSSCCEESSSCEECHHHHHHHHSSSCCC
T ss_pred             cccCCCeecc-eeEEECCCeEecCcCChhhCCCCCCCCcEEeECCEEECHHHHHHHcCCCCCC
Confidence            4444444443 4478999999999999999999998888999999999999999999999974

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

Probab=99.55  E-value=2.5e-15  Score=108.21  Aligned_cols=67  Identities=21%  Similarity=0.486  Sum_probs=55.6

Q ss_pred             CccccccccccccCC-------------ceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCcc
Q psy11345        159 SGLYCEFCFEQYLAP-------------DCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFA  225 (282)
Q Consensus       159 ~~~yC~~c~~~~~~~-------------~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~~  225 (282)
                      |++||+.||.++++.             ..+.+.++.||++||+|..|+++|.+..|+..++++||+.||.++|+++|..
T Consensus         2 g~~yC~~~y~~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~~~~C~~c~~~~~~~~C~~   81 (82)
T 2ehe_A            2 SSGSSGPCYDNTFANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELLCNDCYCSAFSSGPSS   81 (82)
T ss_dssp             CCCCCCCCCCCCCSCBCTTTCCBCCSSCCBCCCSSCCCBTTTSBCTTTCCBCSSCCEEEETTEEEETTTSSCCGGGSSCC
T ss_pred             CceechhHhCcccCCcCccCCCccccCcEEEEeCCccccccCCeecCCCCccCCCccEeeCCEEECHHHHhhhcCCCCCC
Confidence            455555555554443             4467789999999999999999999888999999999999999999999964

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

Probab=99.55  E-value=1.7e-15  Score=109.05  Aligned_cols=67  Identities=22%  Similarity=0.286  Sum_probs=59.6

Q ss_pred             CeecCHhhhhcccCCCCccCCCccccCCcEEEeCCcccccCCCcCCCCCCCCCCCCcccccCCceecCCCeeecC
Q psy11345        207 GLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKSTSGTIVCL  281 (282)
Q Consensus       207 ~~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~g~~~~~~~~~~~~~~g~~~C~  281 (282)
                      +.+||+.||.++++++|.+|+++|.++++++.+.++.||++||+|..|+++|. +..|+       ..++++||+
T Consensus         2 ~~~yC~~cy~~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~-~~~~~-------~~~~~~yC~   68 (82)
T 1x63_A            2 SSGSSGKCTTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIG-TGSFF-------PKGEDFYCV   68 (82)
T ss_dssp             CSCCCCCCCSCCCSCBCSSSCCBCCSSSCEEECSSCEEETTTCCCSSSCCCCT-TSCEE-------EETTEEEEH
T ss_pred             CCcCchhHHccccCCcCccCCcccccCceEEEECccccccccCchhhCCCccC-CCccE-------eeCCEEECH
Confidence            57999999999999999999999998888999999999999999999999943 33444       678899985

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

Probab=99.55  E-value=4.7e-15  Score=108.76  Aligned_cols=67  Identities=51%  Similarity=1.171  Sum_probs=61.4

Q ss_pred             CCCCCCcccccCccccCceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCCce
Q psy11345        107 PGARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDC  175 (282)
Q Consensus       107 ~~~~~~~C~~C~~~I~~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~~  175 (282)
                      .....++|.+|++.|.+++|.++++.||++||+|.  .|+++|....|+.+++++||+.||.++++++|
T Consensus        21 ~~~~~~~C~~C~~~I~~~~v~a~~~~~H~~CF~C~--~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~c   87 (90)
T 2dar_A           21 AGKRTPMCAHCNQVIRGPFLVALGKSWHPEEFNCA--HCKNTMAYIGFVEEKGALYCELCYEKFFASGP   87 (90)
T ss_dssp             TTTCCCBBSSSCCBCCSCEEEETTEEECTTTCBCS--SSCCBCSSSCBEESSSCEECHHHHHHHTSCCC
T ss_pred             CCCCCCCCccCCCEecceEEEECCccccccCCccC--CCCCCCCCCEeEeECCEEECHHHHHHHcCCCC
Confidence            33455799999999999999999999999999999  99999999899999999999999999988765

>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=99.55  E-value=3.8e-15  Score=106.73  Aligned_cols=67  Identities=24%  Similarity=0.505  Sum_probs=55.3

Q ss_pred             CccccccccccccCC-----------ceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCcc
Q psy11345        159 SGLYCEFCFEQYLAP-----------DCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFA  225 (282)
Q Consensus       159 ~~~yC~~c~~~~~~~-----------~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~~  225 (282)
                      |++||+.||.+++..           ..+.+.++.||++||+|..|+++|.+..|+..++++||+.||.++|+++|..
T Consensus         2 g~~yC~~cy~~~~~~~C~~C~~~I~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~s   79 (80)
T 2cuq_A            2 SSGSSGPCYENKFAPRCARCSKTLTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELFASGPSS   79 (80)
T ss_dssp             CCCSCCCCCCCCSSCCCTTTCCCCCSCCEESSSSEECTTTCBCSSSCCBCTTCCEEECSSSEEEHHHHHHHTTCSTTC
T ss_pred             CcEEcHHHHccccCCcCCCCCCEecCcEEEECCchhhhhhCCcccCCCcCCCCeeEeECCEEECHHHHHHHcCCCCCC
Confidence            445555555544443           3478899999999999999999998878999999999999999999999963

>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=99.53  E-value=8.5e-15  Score=103.88  Aligned_cols=70  Identities=27%  Similarity=0.609  Sum_probs=62.7

Q ss_pred             ccccccccccCCceeeecCccccccCccCCccCcccCCCCeeeeCCeecCH-hhhhcccCCCCccCCCccc
Q psy11345        162 YCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCE-NDWNDLFTTKCFACGFPIE  231 (282)
Q Consensus       162 yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~-~c~~~~~~~~C~~C~~~I~  231 (282)
                      .|..|.+.+...+.+.+.++.||++||+|..|+++|.+..|+..++++||. .||.++|+++|.+|++.+.
T Consensus         2 ~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~~~C~~C~~~~~   72 (76)
T 1iml_A            2 KCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGFGRGGAES   72 (76)
T ss_dssp             BCTTTSSBCCGGGEEEETTEEEETTTCBCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCCCSSCCCSSS
T ss_pred             cCCCCCCEEECceEEEECCccccCCCCCccccCccCCCCceECcCCeEeeCHHHHHHHhCccCCCcCCcee
Confidence            477777777766678899999999999999999999988899999999999 6999999999999997764

>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=1.4e-14  Score=105.97  Aligned_cols=65  Identities=29%  Similarity=0.612  Sum_probs=59.8

Q ss_pred             CCCCCcccccCccccCceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCCc
Q psy11345        108 GARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPD  174 (282)
Q Consensus       108 ~~~~~~C~~C~~~I~~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~  174 (282)
                      ....+.|.+|++.|.+++|.++++.||++||+|.  .|+++|....|+.+++.+||+.||.++++++
T Consensus        22 ~~~~~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~--~C~~~L~~~~~~~~~g~~yC~~~y~~~f~p~   86 (89)
T 1x64_A           22 AQRMPLCDKCGSGIVGAVVKARDKYRHPECFVCA--DCNLNLKQKGYFFVEGELYCETHARARTSGP   86 (89)
T ss_dssp             CCSCCBCTTTCCBCCSCCEESSSCEECTTTCCCS--SSCCCTTTSCCEEETTEEECHHHHHHHSSSC
T ss_pred             CCcCCCcccCCCEecccEEEECCceECccCCEec--CCCCCCCCCCeEeECCEEECHHHHHHHhCCC
Confidence            3455799999999999999999999999999999  9999999989999999999999999888764

>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=99.52  E-value=3.7e-15  Score=106.77  Aligned_cols=66  Identities=17%  Similarity=0.364  Sum_probs=58.1

Q ss_pred             CCeecCHhhhhcccCCCCccCCCccccCCcEEEeCCcccccCCCcCCCCCCCCCCCCcccccCCceecCCCeeecC
Q psy11345        206 EGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKSTSGTIVCL  281 (282)
Q Consensus       206 ~~~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~g~~~~~~~~~~~~~~g~~~C~  281 (282)
                      +|++||+.||.++++++|.+|+++|.+  .+|.+.++.||++||+|..|+++| .+..|+       ..++++||+
T Consensus         1 gg~~yC~~cy~~~~~~~C~~C~~~I~~--~~v~a~~~~~H~~CF~C~~C~~~L-~~~~~~-------~~~~~~yC~   66 (80)
T 2cuq_A            1 GSSGSSGPCYENKFAPRCARCSKTLTQ--GGVTYRDQPWHRECLVCTGCQTPL-AGQQFT-------SRDEDPYCV   66 (80)
T ss_dssp             CCCCSCCCCCCCCSSCCCTTTCCCCCS--CCEESSSSEECTTTCBCSSSCCBC-TTCCEE-------ECSSSEEEH
T ss_pred             CCcEEcHHHHccccCCcCCCCCCEecC--cEEEECCchhhhhhCCcccCCCcC-CCCeeE-------eECCEEECH
Confidence            478999999999999999999999983  478999999999999999999994 555555       788899985

>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=99.51  E-value=5.8e-15  Score=105.74  Aligned_cols=66  Identities=21%  Similarity=0.491  Sum_probs=57.6

Q ss_pred             CCeecCHhhhhcccCCCCccCCCccccCCcEEEeCCcccccCCCcCCCCCCCCCCCCcccccCCceecCCCeeecC
Q psy11345        206 EGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKSTSGTIVCL  281 (282)
Q Consensus       206 ~~~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~g~~~~~~~~~~~~~~g~~~C~  281 (282)
                      ++++||+.||.++++++|.+|+++|.  +++|.+.++.||++||+|..|+++| .+..|+       ..++++||+
T Consensus         1 gg~~yC~~~y~~~~~~~C~~C~~~I~--~~~v~a~~~~~H~~CF~C~~C~~~L-~~~~~~-------~~~~~~yC~   66 (80)
T 1x3h_A            1 GSSGSSGKDFLAMFSPKCGGCNRPVL--ENYLSAMDTVWHPECFVCGDCFTSF-STGSFF-------ELDGRPFCE   66 (80)
T ss_dssp             CCCCCCCCCCCCCCSCBCTTTCCBCC--SSCEEETTEEECTTTCBCSSSCCBS-CSSCCE-------ESSSCEECH
T ss_pred             CCCccchhHHhhhcCCccccCCCeec--ceeEEECCCeEecCcCChhhCCCCC-CCCcEE-------eECCEEECH
Confidence            46899999999999999999999998  4688999999999999999999994 443444       678899985

>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=99.51  E-value=3.9e-15  Score=106.49  Aligned_cols=65  Identities=22%  Similarity=0.568  Sum_probs=59.5

Q ss_pred             CCCCCcccccCccccCceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCCc
Q psy11345        108 GARVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPD  174 (282)
Q Consensus       108 ~~~~~~C~~C~~~I~~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~  174 (282)
                      .+..+.|.+|++.|.+++|.++++.||++||+|.  .|+++|....|+.+++++||+.||.+++.+.
T Consensus        12 ~~~~~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~--~C~~~L~~~~~~~~~g~~yC~~cy~~~~~p~   76 (79)
T 1x62_A           12 AQKLPMCDKCGTGIVGVFVKLRDRHRHPECYVCT--DCGTNLKQKGHFFVEDQIYCEKHARERVSGP   76 (79)
T ss_dssp             CCCCCCCSSSCCCCCSSCEECSSCEECTTTTSCS--SSCCCHHHHCCEESSSCEECHHHHHHHHSSC
T ss_pred             CCCCCccccCCCCccCcEEEECcceeCcCcCeeC--CCCCCCCCCCeEeECCEEECHHHHHHHhCCC
Confidence            3456799999999999999999999999999999  9999998888999999999999999887653

>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=99.50  E-value=9.1e-15  Score=105.01  Aligned_cols=73  Identities=19%  Similarity=0.478  Sum_probs=56.2

Q ss_pred             CCccccccccccccCCceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCccCCCcc
Q psy11345        158 DSGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFPI  230 (282)
Q Consensus       158 ~~~~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~~C~~~I  230 (282)
                      .+...|..|.+.+.....+.+.++.||++||+|..|+++|....|+..++++||+.||.++|+++|.+|++..
T Consensus         5 ~~~~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~gcg~g~   77 (81)
T 1a7i_A            5 GGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYGPKGYGYGQGA   77 (81)
T ss_dssp             ---CBCSSSCCBCSSTTEEEETTEEEESSSEECSSSCCEECSSCCEEETTEEECSHHHHHHCC----------
T ss_pred             CCCCcCcCcCccccCceeEEeCCcccccccCccCCCCCCCCCCCeEeeCCEEECHHHHHHHhCCcccccCCcc
Confidence            3456788888888877788999999999999999999999988899999999999999999999999999765

>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=99.50  E-value=5.1e-15  Score=106.30  Aligned_cols=67  Identities=21%  Similarity=0.323  Sum_probs=58.2

Q ss_pred             CeecCHhhhhcccCCCCccCCCccccCCcEEEeCCcccccCCCcCCCCCCCCCCCCcccccCCceecCCCeeecC
Q psy11345        207 GLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKSTSGTIVCL  281 (282)
Q Consensus       207 ~~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~g~~~~~~~~~~~~~~g~~~C~  281 (282)
                      +.+||+.||.++|+++|.+|+++|.  +.++.++++.||++||+|..|+++|..|..|++      ..++++||+
T Consensus         2 ~~~yC~~~y~~~~~~~C~~C~~~I~--~~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~------~~~~~~~C~   68 (81)
T 1x6a_A            2 SSGSSGKDYWGKFGEFCHGCSLLMT--GPFMVAGEFKYHPECFACMSCKVIIEDGDAYAL------VQHATLYCG   68 (81)
T ss_dssp             CCCCCCCCSSCCSSCBCTTTCCBCC--SCCBCCTTCCBCTTSCBCTTTCCBCCTTSCEEE------CSSSCEEEH
T ss_pred             CCccchhHHhhhcCCcCccCCCCcC--ceEEEECCceeccccCCccCCCCccCCCCcEEE------eeCCEEECH
Confidence            5689999999999999999999999  678899999999999999999999656665441      468889885

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

Probab=99.50  E-value=1.5e-14  Score=103.85  Aligned_cols=65  Identities=31%  Similarity=0.621  Sum_probs=54.4

Q ss_pred             ccccccccccccCCceeeecCccccccCccCCccCcccCCCCeeee-CCeecCHhhhhcccCCCCcc
Q psy11345        160 GLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLE-EGLPYCENDWNDLFTTKCFA  225 (282)
Q Consensus       160 ~~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~-~~~~yC~~c~~~~~~~~C~~  225 (282)
                      ...|..|.+.|.+ ..+.+.++.||++||+|..|+++|.+..|+.. ++++||+.||.++|+++|.+
T Consensus        15 ~~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~g~~yC~~cy~~~f~~~C~~   80 (81)
T 2dlo_A           15 LEKCATCSQPILD-RILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFASGPSS   80 (81)
T ss_dssp             CCBCTTTCCBCCS-CCEEETTEEECTTTCBCSSSCCBCTTSCEECCTTCCCEEHHHHHHHTTSSSCC
T ss_pred             CCccccCCCeecc-eeEEECCccccHHhcCcccCCCccCCCeeEECCCCEEECHHHHHHHhcCcCCC
Confidence            3455666666653 46889999999999999999999997778776 78999999999999999974

>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=99.50  E-value=2.4e-14  Score=102.96  Aligned_cols=64  Identities=27%  Similarity=0.584  Sum_probs=53.4

Q ss_pred             cccccccccccCC-ceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCc
Q psy11345        161 LYCEFCFEQYLAP-DCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCF  224 (282)
Q Consensus       161 ~yC~~c~~~~~~~-~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~  224 (282)
                      ..|..|.+.+... ..+.+.++.||++||+|..|+++|.+..|+..++++||+.||.++|+++|.
T Consensus        16 ~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~~~   80 (82)
T 1x63_A           16 PKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKFASGPS   80 (82)
T ss_dssp             CBCSSSCCBCCSSSCEEECSSCEEETTTCCCSSSCCCCTTSCEEEETTEEEEHHHHHHHTSCCCS
T ss_pred             CcCccCCcccccCceEEEECccccccccCchhhCCCccCCCccEeeCCEEECHHHHHHHhCCCCC
Confidence            3455555555432 357889999999999999999999988899999999999999999998875

>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=1.9e-14  Score=101.30  Aligned_cols=62  Identities=23%  Similarity=0.413  Sum_probs=57.2

Q ss_pred             CCcccccCccccCceeecCCcccCcCCcccccCCCCCCCC-CCCceecCCccccccccccccCCc
Q psy11345        111 VPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQ-DIGFVEEDSGLYCEFCFEQYLAPD  174 (282)
Q Consensus       111 ~~~C~~C~~~I~~~~v~~~~~~~H~~Cf~C~~~~C~~~l~-~~~~~~~~~~~yC~~c~~~~~~~~  174 (282)
                      .+.|.+|+++|.+++|.++++.||++||+|.  .|+++|. ...|+.+++++||..|+..++...
T Consensus         5 ~~~C~~C~~~I~~~~v~a~~~~wH~~CF~C~--~C~~~L~~~~~f~~~~~~~yC~~C~~~~~~~~   67 (73)
T 1wig_A            5 SSGCDSCEKYITGRVLEAGEKHYHPSCALCV--RCGQMFAEGEEMYLQGSSIWHPACRQAARTED   67 (73)
T ss_dssp             CCSCSSSCCCCSSCCBCCSSCCBCTTTSCCS--SSCCCCCSSCCCEEETTEEECTTHHHHTSSSS
T ss_pred             cCCcccCCCEecCeeEEeCCCCCCCCcCEeC--CCCCCCCCCCeeEeeCCEEEChHHChHhhccc
Confidence            4699999999999999999999999999999  9999998 678889999999999999887654

>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=99.48  E-value=3.1e-14  Score=99.81  Aligned_cols=62  Identities=27%  Similarity=0.618  Sum_probs=57.4

Q ss_pred             CCcccccCccccC----ceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCCc
Q psy11345        111 VPLCGQCYQQIRG----PFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPD  174 (282)
Q Consensus       111 ~~~C~~C~~~I~~----~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~  174 (282)
                      .+.|.+|+++|.+    ++|.++++.||++||+|.  .|+++|....|+.+++++||+.||.+++++.
T Consensus         5 ~~~C~~C~~~I~~~~~~~~~~a~~~~wH~~CF~C~--~C~~~L~~~~f~~~~g~~yC~~c~~~~~~p~   70 (72)
T 1x4l_A            5 SSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCK--KCSLSLVGRGFLTERDDILCPDCGKDISGPS   70 (72)
T ss_dssp             SCSBTTTTBCCCCSSSCSCEECSSCEECTTTCBCS--SSCCBCTTSCCEECSSSEECHHHHHTCCCSS
T ss_pred             CCCCcCCCccccCCCCcceEEECCcccCcccCEec--cCCCcCCCCccEeECCEEEChhHcCcccCCC
Confidence            4699999999986    789999999999999999  9999999989999999999999999988764

>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=99.47  E-value=2.5e-14  Score=99.68  Aligned_cols=63  Identities=27%  Similarity=0.527  Sum_probs=58.9

Q ss_pred             CCcccccCccccCceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCCce
Q psy11345        111 VPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDC  175 (282)
Q Consensus       111 ~~~C~~C~~~I~~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~~  175 (282)
                      .+.|.+|+++|.++.|.++++.||++||+|.  .|+++|....|+.+++++||+.||.++++++|
T Consensus         5 ~~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~--~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c   67 (70)
T 2d8z_A            5 SSGCVQCKKPITTGGVTYREQPWHKECFVCT--ACRKQLSGQRFTARDDFAYCLNCFCDLYASGP   67 (70)
T ss_dssp             CCBCSSSCCBCCSSEEESSSSEEETTTSBCS--SSCCBCTTSCCEESSSSEECHHHHHHHTCCCC
T ss_pred             CCCCcccCCeeccceEEECccccCCCCCccC--CCCCcCCcCceEeeCCeEECHHHHHHHhcccc
Confidence            4699999999999899999999999999999  99999998899999999999999999887765

>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=99.47  E-value=1.9e-14  Score=100.08  Aligned_cols=63  Identities=25%  Similarity=0.607  Sum_probs=58.8

Q ss_pred             CCcccccCccccCceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCCce
Q psy11345        111 VPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDC  175 (282)
Q Consensus       111 ~~~C~~C~~~I~~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~~  175 (282)
                      .+.|.+|+++|.+++|.++++.||++||+|.  .|+++|....|+.+++++||+.||.+++++.|
T Consensus         5 ~~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~--~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C   67 (69)
T 2cur_A            5 SSGCVKCNKAITSGGITYQDQPWHADCFVCV--TCSKKLAGQRFTAVEDQYYCVDCYKNFVSGPS   67 (69)
T ss_dssp             CCCCSSSCCCCCTTCEEETTEEECTTTTBCT--TTCCBCTTSCEEECSSCEEEHHHHHHHHTCSC
T ss_pred             cCCCcccCCEeCcceEEECccccccCcCEEC--CCCCCCCCCccEeECCEEECHHHhHHHhcCCC
Confidence            4699999999999999999999999999999  99999998899999999999999999887765

>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=99.47  E-value=1.7e-14  Score=99.38  Aligned_cols=61  Identities=34%  Similarity=0.872  Sum_probs=57.4

Q ss_pred             CCcccccCccccCceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCC
Q psy11345        111 VPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAP  173 (282)
Q Consensus       111 ~~~C~~C~~~I~~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~  173 (282)
                      .+.|.+|+++|.+++|.++|+.||++||+|.  .|+++|....|+.+++++||+.||.+++++
T Consensus         5 ~~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~--~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~   65 (66)
T 1nyp_A            5 VPICGACRRPIEGRVVNAMGKQWHVEHFVCA--KCEKPFLGHRHYERKGLAYCETHYNQLFGD   65 (66)
T ss_dssp             CCEETTTTEECCSCEECCTTSBEETTTCBCT--TTCCBCSSSCCEEETTEEECHHHHHHHCSC
T ss_pred             CCCCcccCCEecceEEEECccccccCcCEEC--CCCCCCCCCceEeECCcEECHHHHHHHhCC
Confidence            4699999999999999999999999999999  999999998999999999999999988764

>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=99.47  E-value=2e-14  Score=103.18  Aligned_cols=66  Identities=26%  Similarity=0.433  Sum_probs=56.2

Q ss_pred             CCeecCHhhhhcccCCCCccCCCccccCCcEEEeCCcccccCCCcCCCCCCCCCCCCcccccCCceecCCCeeecC
Q psy11345        206 EGLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGAKPYGTQNTIKSTSGTIVCL  281 (282)
Q Consensus       206 ~~~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~g~~~~~~~~~~~~~~g~~~C~  281 (282)
                      ++++||+.||. ++.++|.+|+++|.  ++++.+.++.||++||+|..|+++| .+..|+.      ..+|++||+
T Consensus         2 ~g~~yC~~~y~-~~~~~C~~C~~~I~--~~~~~a~~~~~H~~CF~C~~C~~~L-~~~~f~~------~~~g~~yC~   67 (81)
T 2dlo_A            2 SSGSSGEGCYV-ATLEKCATCSQPIL--DRILRAMGKAYHPGCFTCVVCHRGL-DGIPFTV------DATSQIHCI   67 (81)
T ss_dssp             CCCCCCCCCCC-SSCCBCTTTCCBCC--SCCEEETTEEECTTTCBCSSSCCBC-TTSCEEC------CTTCCCEEH
T ss_pred             cCCEECHHHhh-cCCCccccCCCeec--ceeEEECCccccHHhcCcccCCCcc-CCCeeEE------CCCCEEECH
Confidence            67899999999 78999999999998  5689999999999999999999994 4554441      237889985

>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=99.47  E-value=2e-14  Score=100.20  Aligned_cols=61  Identities=34%  Similarity=0.681  Sum_probs=57.2

Q ss_pred             CCcccccCccccCceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCC
Q psy11345        111 VPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAP  173 (282)
Q Consensus       111 ~~~C~~C~~~I~~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~  173 (282)
                      .+.|.+|++.|.+++|.++++.||++||+|.  .|+++|....|+.+++++||+.||.+++++
T Consensus         5 ~~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~--~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~   65 (70)
T 2d8x_A            5 SSGCHQCGEFIIGRVIKAMNNSWHPECFRCD--LCQEVLADIGFVKNAGRHLCRPCHNREKAS   65 (70)
T ss_dssp             SSBCSSSCCBCCSCCEEETTEEECTTTSBCS--SSCCBCSSSCCEEETTEEECHHHHHHHHCC
T ss_pred             CCcCccCCCEecceEEEECcccccccCCEeC--CCCCcCCCCccEeECCeEECHHHhhhhcCC
Confidence            4699999999999999999999999999999  999999998899999999999999988765

>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=99.46  E-value=5.8e-14  Score=100.62  Aligned_cols=68  Identities=26%  Similarity=0.615  Sum_probs=61.1

Q ss_pred             cCCccccccccccccCCceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCcc
Q psy11345        157 EDSGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFA  225 (282)
Q Consensus       157 ~~~~~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~~  225 (282)
                      ..+...|..|.+.|...+.+.+.++.||++||+|..|+++|.+ .|+.+++++||+.||.++|+++|..
T Consensus        12 ~~~~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~-~~~~~~g~~yC~~~y~~~fg~~C~~   79 (80)
T 2dj7_A           12 IRGPSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTG-EYISKDGVPYCESDYHAQFGSGPSS   79 (80)
T ss_dssp             CSSCSCCTTTCCCCSSSCCEEETTEEECTTTCBCSSSCCBCSS-CCEEETTEEECTTHHHHHTTCCSTT
T ss_pred             CCCCCCCcCcCCeeCCCeEEEECCcccccccCCcCcCCCCcCC-CeEEECCEEECHHHHHHHcCCCCCC
Confidence            3456789999998887778899999999999999999999985 6999999999999999999999974

>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=99.45  E-value=5.9e-14  Score=99.51  Aligned_cols=67  Identities=16%  Similarity=0.336  Sum_probs=59.0

Q ss_pred             cccccccccccC---CceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCccCC
Q psy11345        161 LYCEFCFEQYLA---PDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACG  227 (282)
Q Consensus       161 ~yC~~c~~~~~~---~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~~C~  227 (282)
                      ..|..|.+.|..   ...+.+.++.||++||+|..|+++|.+..|+..++++||..||.++|+++|..+.
T Consensus         6 ~~C~~C~~~I~~~g~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~C~~~s   75 (76)
T 1x68_A            6 SGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCGSGMDTDISGPSS   75 (76)
T ss_dssp             CCCTTTCCCCCTTTTCCEEEETTEEEEGGGCBCTTTCCBCSSSCEEEETTEEEETTTTCCCCCCSSSSSC
T ss_pred             CCCccCCCcccCCCCceeEEECCcccCcccCChhhCCCcCCCCceEeECCEEECHHHhhhhhCCcCCCCC
Confidence            456667677663   4678899999999999999999999987899999999999999999999999875

>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=99.45  E-value=3.3e-14  Score=100.82  Aligned_cols=63  Identities=24%  Similarity=0.519  Sum_probs=58.8

Q ss_pred             CcccccCccccC----ceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCCcee
Q psy11345        112 PLCGQCYQQIRG----PFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDCL  176 (282)
Q Consensus       112 ~~C~~C~~~I~~----~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~~~  176 (282)
                      +.|.+|+++|.+    ++|.++++.||++||+|.  .|+++|....|+.+++++||+.||.+++++.|.
T Consensus         6 ~~C~~C~~~I~~~g~~~~~~a~~~~wH~~CF~C~--~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~C~   72 (76)
T 1x68_A            6 SGCVACSKPISGLTGAKFICFQDSQWHSECFNCG--KCSVSLVGKGFLTQNKEIFCQKCGSGMDTDISG   72 (76)
T ss_dssp             CCCTTTCCCCCTTTTCCEEEETTEEEEGGGCBCT--TTCCBCSSSCEEEETTEEEETTTTCCCCCCSSS
T ss_pred             CCCccCCCcccCCCCceeEEECCcccCcccCChh--hCCCcCCCCceEeECCEEECHHHhhhhhCCcCC
Confidence            589999999987    889999999999999999  999999998999999999999999998887654

>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=99.45  E-value=5.9e-14  Score=100.58  Aligned_cols=63  Identities=25%  Similarity=0.551  Sum_probs=57.3

Q ss_pred             CCCcccccCcccc-CceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCCce
Q psy11345        110 RVPLCGQCYQQIR-GPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDC  175 (282)
Q Consensus       110 ~~~~C~~C~~~I~-~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~~  175 (282)
                      ..+.|.+|+++|. +++|.++++.||++||+|.  .|+++|.. .|+.+++++||+.||.++++..|
T Consensus        14 ~~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~--~C~~~L~~-~~~~~~g~~yC~~~y~~~fg~~C   77 (80)
T 2dj7_A           14 GPSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQ--TCSVILTG-EYISKDGVPYCESDYHAQFGSGP   77 (80)
T ss_dssp             SCSCCTTTCCCCSSSCCEEETTEEECTTTCBCS--SSCCBCSS-CCEEETTEEECTTHHHHHTTCCS
T ss_pred             CCCCCcCcCCeeCCCeEEEECCcccccccCCcC--cCCCCcCC-CeEEECCEEECHHHHHHHcCCCC
Confidence            3469999999997 7889999999999999999  99999985 69999999999999999988754

>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=99.44  E-value=5.4e-14  Score=100.94  Aligned_cols=54  Identities=33%  Similarity=0.605  Sum_probs=49.2

Q ss_pred             CeecCHhhhhcccCCCCccCCCccccCCcEEEeCCcccccCCCcCCCCCCCCCCCC
Q psy11345        207 GLPYCENDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCFNCSSPSSPALSGA  262 (282)
Q Consensus       207 ~~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~g~  262 (282)
                      +.+||+.||.++|+++|.+|+++|.  +++|.+.++.||++||+|..|+++|..|.
T Consensus         2 ~~~yC~~dy~~~~~~~C~~C~~~I~--~~~v~a~~~~wH~~CF~C~~C~~~L~~~~   55 (81)
T 1v6g_A            2 SSGSSGLDYQRLYGTRCFSCDQFIE--GEVVSALGKTYHPDCFVCAVCRLPFPPGD   55 (81)
T ss_dssp             CCCCCCSCGGGSCCCBCTTTCCBCC--SCCEEETTEEECTTTSSCSSSCCCCCSSS
T ss_pred             CCCcchHHHHhHhCCcCccccCEec--cceEEECCceeCccCCccccCCCCCCCCC
Confidence            4589999999999999999999998  56899999999999999999999965555

>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=99.43  E-value=1.5e-13  Score=97.30  Aligned_cols=67  Identities=21%  Similarity=0.489  Sum_probs=60.6

Q ss_pred             CccccccccccccCCceeeecCccccccCccCCccCcccCCCCeeeeCCeecCH-hhhhcccCCCCcc
Q psy11345        159 SGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCE-NDWNDLFTTKCFA  225 (282)
Q Consensus       159 ~~~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~-~c~~~~~~~~C~~  225 (282)
                      ....|..|.+.+...+.+.+.++.||++||+|..|+++|.+..|+..++++||. .||.++|+++|.+
T Consensus         8 ~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~~kc~g   75 (76)
T 2cu8_A            8 MASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFGSGPSS   75 (76)
T ss_dssp             CCCBCTTTCCBCCTTTEEEETTEEEETTTCBCSSSCCBCCTTSCEEETTEEECTTTHHHHHSCSSCSC
T ss_pred             CCCCCcCCCCEeECCeEEEECCeEeeCCCCCCCCCCCccCCCceEeECCEEecchHHHHHhcccccCC
Confidence            346788888888877788899999999999999999999988899999999999 7999999999974

>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=99.43  E-value=1.1e-13  Score=96.13  Aligned_cols=65  Identities=18%  Similarity=0.451  Sum_probs=57.4

Q ss_pred             ccccccccccccCCceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCcc
Q psy11345        160 GLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFA  225 (282)
Q Consensus       160 ~~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~~  225 (282)
                      ...|..|.+.+.+ ..+.+.++.||++||+|..|+++|.+..|++.++++||+.||.++|+++|.+
T Consensus         5 ~~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~g   69 (69)
T 2cur_A            5 SSGCVKCNKAITS-GGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFVSGPSSG   69 (69)
T ss_dssp             CCCCSSSCCCCCT-TCEEETTEEECTTTTBCTTTCCBCTTSCEEECSSCEEEHHHHHHHHTCSCCC
T ss_pred             cCCCcccCCEeCc-ceEEECccccccCcCEECCCCCCCCCCccEeECCEEECHHHhHHHhcCCCCC
Confidence            4567777777765 4688899999999999999999999878999999999999999999999974

>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=99.43  E-value=1e-13  Score=99.40  Aligned_cols=62  Identities=23%  Similarity=0.515  Sum_probs=49.1

Q ss_pred             cccccccccCCceeeecCccccccCccCCccCcccCC-CCee-eeCCeecCHhhhhcccCCCCcc
Q psy11345        163 CEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGN-NPFF-LEEGLPYCENDWNDLFTTKCFA  225 (282)
Q Consensus       163 C~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~-~~f~-~~~~~~yC~~c~~~~~~~~C~~  225 (282)
                      |..|.+.+. ...+.+.++.||++||+|..|+++|.. ..|+ ..++++||+.||.++|++.|.+
T Consensus        18 C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~~C~~c~~~~~~~~~sg   81 (81)
T 1x6a_A           18 CHGCSLLMT-GPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVVSGPSSG   81 (81)
T ss_dssp             CTTTCCBCC-SCCBCCTTCCBCTTSCBCTTTCCBCCTTSCEEECSSSCEEEHHHHHHHHCTTSCC
T ss_pred             CccCCCCcC-ceEEEECCceeccccCCccCCCCccCCCCcEEEeeCCEEECHHHHHHHhcCCCCC
Confidence            444444443 244788999999999999999999975 4577 4899999999999999988753

>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=99.42  E-value=1.5e-13  Score=95.79  Aligned_cols=65  Identities=23%  Similarity=0.507  Sum_probs=57.1

Q ss_pred             ccccccccccccCCceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCcc
Q psy11345        160 GLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFA  225 (282)
Q Consensus       160 ~~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~~  225 (282)
                      ...|..|.+.+.+ ..+.+.++.||++||+|..|+++|.+..|+..++++||..||.++|+++|..
T Consensus         5 ~~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~~   69 (70)
T 2d8z_A            5 SSGCVQCKKPITT-GGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLYASGPSS   69 (70)
T ss_dssp             CCBCSSSCCBCCS-SEEESSSSEEETTTSBCSSSCCBCTTSCCEESSSSEECHHHHHHHTCCCCTT
T ss_pred             CCCCcccCCeecc-ceEEECccccCCCCCccCCCCCcCCcCceEeeCCeEECHHHHHHHhccccCC
Confidence            3457777777765 4588899999999999999999998888999999999999999999999964

>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=99.42  E-value=1e-13  Score=98.19  Aligned_cols=63  Identities=22%  Similarity=0.563  Sum_probs=58.5

Q ss_pred             CCcccccCcccc-CceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccc-cccccccCCce
Q psy11345        111 VPLCGQCYQQIR-GPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCE-FCFEQYLAPDC  175 (282)
Q Consensus       111 ~~~C~~C~~~I~-~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~-~c~~~~~~~~~  175 (282)
                      .+.|.+|+++|. +++|.++++.||++||+|.  .|+++|....|+.+++++||+ .||.++++++|
T Consensus         9 ~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~--~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~~kc   73 (76)
T 2cu8_A            9 ASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCE--RCSKTLTPGGHAEHDGKPFCHKPCYATLFGSGP   73 (76)
T ss_dssp             CCBCTTTCCBCCTTTEEEETTEEEETTTCBCS--SSCCBCCTTSCEEETTEEECTTTHHHHHSCSSC
T ss_pred             CCCCcCCCCEeECCeEEEECCeEeeCCCCCCC--CCCCccCCCceEeECCEEecchHHHHHhccccc
Confidence            469999999998 7899999999999999999  999999998999999999999 79999888765

>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=99.42  E-value=2.2e-13  Score=95.40  Aligned_cols=66  Identities=24%  Similarity=0.543  Sum_probs=58.5

Q ss_pred             ccccccccccccCC-ceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCcc
Q psy11345        160 GLYCEFCFEQYLAP-DCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFA  225 (282)
Q Consensus       160 ~~yC~~c~~~~~~~-~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~~  225 (282)
                      ...|..|.+.+... ..+.+.++.||++||+|..|+++|.+..|+..++++||+.||.++|+++|..
T Consensus         5 ~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~~   71 (72)
T 1wyh_A            5 SSGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFASGPSS   71 (72)
T ss_dssp             CCBCSSSCCBCCSSSCEECSTTCCEETTTCBCTTTCCBTTTSCEEEETTEEEEHHHHHHHTSCCCCC
T ss_pred             CCCCccCCCccccCccEEEECccccCcccCeECCCCCcCCCCccCCcCCeEECHHHHHHHccCcCCC
Confidence            34577777777764 7788999999999999999999999888999999999999999999999963

>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=99.42  E-value=1.9e-13  Score=95.72  Aligned_cols=65  Identities=17%  Similarity=0.460  Sum_probs=58.2

Q ss_pred             cccccccccccCC-ceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCcc
Q psy11345        161 LYCEFCFEQYLAP-DCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFA  225 (282)
Q Consensus       161 ~yC~~c~~~~~~~-~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~~  225 (282)
                      ..|..|.+.+... ..+.+.++.||++||+|..|+++|.+..|+..++++||+.||.++|+++|..
T Consensus         6 ~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~~   71 (72)
T 1x4k_A            6 SGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQHASGPSS   71 (72)
T ss_dssp             CCBSSSCCCCCSSSCEEEETTEEEETTTTCCSSSCCCCCSSSEEEETTEEEEHHHHHHHTSSCCCC
T ss_pred             CCCccCCCcccCCceEEEECcCeecccCCcccccCCccCCCccCccCCeEECHHHHhHHhCCCCCC
Confidence            4577777777765 5788999999999999999999999888999999999999999999999963

>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=99.41  E-value=1.3e-13  Score=98.51  Aligned_cols=62  Identities=24%  Similarity=0.463  Sum_probs=56.5

Q ss_pred             CCCcccccCccccCceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCCc
Q psy11345        110 RVPLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPD  174 (282)
Q Consensus       110 ~~~~C~~C~~~I~~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~  174 (282)
                      ..++|.+|++.|.+++|.++++.||++||+|.  .|+++|... +|.+++.+||+.||.+++++.
T Consensus        14 ~~~~C~~C~~~I~~~~v~a~~~~~H~~CF~C~--~C~~~L~~~-~f~~~g~~yC~~cy~~~f~p~   75 (79)
T 2cor_A           14 GKYICQKCHAIIDEQPLIFKNDPYHPDHFNCA--NCGKELTAD-ARELKGELYCLPCHDKMGVSG   75 (79)
T ss_dssp             CCCBCTTTCCBCCSCCCCCSSSCCCTTTSBCS--SSCCBCCTT-CEEETTEEECHHHHHTTSCCS
T ss_pred             CCCCCccCCCEecceEEEECcceeCCCCCEeC--CCCCccCCC-CEeECCEEeCHHHHHHhCCCC
Confidence            34699999999999999999999999999999  999999977 469999999999999988763

>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=99.41  E-value=8.5e-14  Score=97.50  Aligned_cols=63  Identities=27%  Similarity=0.628  Sum_probs=58.2

Q ss_pred             CCcccccCcccc--CceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCCce
Q psy11345        111 VPLCGQCYQQIR--GPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDC  175 (282)
Q Consensus       111 ~~~C~~C~~~I~--~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~~  175 (282)
                      .+.|.+|+++|.  +.+|.++++.||++||+|.  .|+++|....|+.+++++||+.||.++++++|
T Consensus         5 ~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~--~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C   69 (72)
T 1wyh_A            5 SSGCSACGETVMPGSRKLEYGGQTWHEHCFLCS--GCEQPLGSRSFVPDKGAHYCVPCYENKFASGP   69 (72)
T ss_dssp             CCBCSSSCCBCCSSSCEECSTTCCEETTTCBCT--TTCCBTTTSCEEEETTEEEEHHHHHHHTSCCC
T ss_pred             CCCCccCCCccccCccEEEECccccCcccCeEC--CCCCcCCCCccCCcCCeEECHHHHHHHccCcC
Confidence            359999999997  6889999999999999999  99999999899999999999999999888765

>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=99.40  E-value=3.4e-13  Score=97.05  Aligned_cols=62  Identities=21%  Similarity=0.370  Sum_probs=55.3

Q ss_pred             CCCcccccCcccc-CceeecCCcccCcCCcccccCCCCCCCCCCCce--ecCCccccccccccccCC
Q psy11345        110 RVPLCGQCYQQIR-GPFITALGKIWCPDHFLCVRPQCKRPLQDIGFV--EEDSGLYCEFCFEQYLAP  173 (282)
Q Consensus       110 ~~~~C~~C~~~I~-~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~--~~~~~~yC~~c~~~~~~~  173 (282)
                      ..+.|.+|++.|. ++.|.++++.||++||+|.  .|+++|....|+  .+++++||+.||.+++..
T Consensus        14 ~~~~C~~C~~~I~~~e~v~a~~~~wH~~CF~C~--~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~   78 (82)
T 2co8_A           14 AGDLCALCGEHLYVLERLCVNGHFFHRSCFRCH--TCEATLWPGGYEQHPGDGHFYCLQHLPQTDSG   78 (82)
T ss_dssp             SSCBCSSSCCBCCTTTBCCBTTBCCBTTTCBCS--SSCCBCCTTSEECCTTTCCCEETTTCCCCCCC
T ss_pred             CCCCCcccCCCcccceEEEECCCeeCCCcCEEc--CCCCCcCCCceeEeCcCCEEEChHHHHhhhcC
Confidence            3469999999995 6788999999999999999  999999998887  479999999999988764

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

Probab=99.40  E-value=9.6e-14  Score=97.23  Aligned_cols=62  Identities=24%  Similarity=0.615  Sum_probs=57.6

Q ss_pred             CcccccCcccc--CceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCCce
Q psy11345        112 PLCGQCYQQIR--GPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDC  175 (282)
Q Consensus       112 ~~C~~C~~~I~--~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~~  175 (282)
                      ++|.+|+++|.  +.+|.++++.||++||+|.  .|+++|....|+.+++++||+.||.+++++.|
T Consensus         6 ~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~--~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C   69 (72)
T 1x4k_A            6 SGCQECKKTIMPGTRKMEYKGSSWHETCFICH--RCQQPIGTKSFIPKDNQNFCVPCYEKQHASGP   69 (72)
T ss_dssp             CCBSSSCCCCCSSSCEEEETTEEEETTTTCCS--SSCCCCCSSSEEEETTEEEEHHHHHHHTSSCC
T ss_pred             CCCccCCCcccCCceEEEECcCeecccCCccc--ccCCccCCCccCccCCeEECHHHHhHHhCCCC
Confidence            59999999997  4689999999999999999  99999999899999999999999999888765

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

Probab=99.39  E-value=2.2e-13  Score=96.60  Aligned_cols=66  Identities=33%  Similarity=0.695  Sum_probs=57.4

Q ss_pred             CccccccccccccC-CceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCc
Q psy11345        159 SGLYCEFCFEQYLA-PDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCF  224 (282)
Q Consensus       159 ~~~yC~~c~~~~~~-~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~  224 (282)
                      ....|..|.+.+.. ...+.+.++.||++||+|..|+++|.+..|+..++++||+.||.++|+++|.
T Consensus        10 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~~C~   76 (77)
T 1g47_A           10 ASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAPCWI   76 (77)
T ss_dssp             CCCBCSSSCCBCCSTTTCEEETTEEECTTTCCCTTTCCCCGGGCSEEETTEEECHHHHHHHCCCC--
T ss_pred             CCCCchhcCCccCCCceEEEeCccEeccccCeECCCCCCCCCCCeEeECCeEeCHHHHHHHhhcccC
Confidence            35678888888874 4667899999999999999999999988899999999999999999999985

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

Probab=99.39  E-value=1.2e-13  Score=98.07  Aligned_cols=64  Identities=23%  Similarity=0.522  Sum_probs=57.7

Q ss_pred             CCCcccccCcccc--CceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCCce
Q psy11345        110 RVPLCGQCYQQIR--GPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDC  175 (282)
Q Consensus       110 ~~~~C~~C~~~I~--~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~~  175 (282)
                      ..+.|.+|+++|.  +.+|.++|+.||++||+|.  .|+++|....|+.+++++||+.||.+++++.|
T Consensus        10 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~--~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~~C   75 (77)
T 1g47_A           10 ASATCERCKGGFAPAEKIVNSNGELYHEQCFVCA--QCFQQFPEGLFYEFEGRKYCEHDFQMLFAPCW   75 (77)
T ss_dssp             CCCBCSSSCCBCCSTTTCEEETTEEECTTTCCCT--TTCCCCGGGCSEEETTEEECHHHHHHHCCCC-
T ss_pred             CCCCchhcCCccCCCceEEEeCccEeccccCeEC--CCCCCCCCCCeEeECCeEeCHHHHHHHhhccc
Confidence            3469999999996  5678999999999999999  99999998889999999999999999888765

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

Probab=99.39  E-value=3.2e-13  Score=98.91  Aligned_cols=66  Identities=30%  Similarity=0.557  Sum_probs=56.5

Q ss_pred             CccccccccccccCCceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCcc
Q psy11345        159 SGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFA  225 (282)
Q Consensus       159 ~~~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~~  225 (282)
                      ....|..|.+.|. .+.+.+.++.||++||+|..|+++|.+..|+..++++||+.||.++|+++|..
T Consensus        24 ~~~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~c~s   89 (90)
T 2dar_A           24 RTPMCAHCNQVIR-GPFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFFASGPSS   89 (90)
T ss_dssp             CCCBBSSSCCBCC-SCEEEETTEEECTTTCBCSSSCCBCSSSCBEESSSCEECHHHHHHHTSCCCCC
T ss_pred             CCCCCccCCCEec-ceEEEECCccccccCCccCCCCCCCCCCEeEeECCEEECHHHHHHHcCCCCCC
Confidence            3455666666664 45678899999999999999999999888999999999999999999999963

>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=99.39  E-value=3.7e-13  Score=98.30  Aligned_cols=63  Identities=29%  Similarity=0.540  Sum_probs=53.3

Q ss_pred             cccccccccccCCceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCc
Q psy11345        161 LYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCF  224 (282)
Q Consensus       161 ~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~  224 (282)
                      ..|..|.+.|.+ ..+.+.++.||++||+|..|+++|....|+..++++||+.||.++|++++.
T Consensus        26 ~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~p~~~   88 (89)
T 1x64_A           26 PLCDKCGSGIVG-AVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETHARARTSGPSS   88 (89)
T ss_dssp             CBCTTTCCBCCS-CCEESSSCEECTTTCCCSSSCCCTTTSCCEEETTEEECHHHHHHHSSSCCC
T ss_pred             CCcccCCCEecc-cEEEECCceECccCCEecCCCCCCCCCCeEeECCEEECHHHHHHHhCCCCC
Confidence            345555555554 457789999999999999999999988899999999999999999999875

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

Probab=99.39  E-value=3.9e-13  Score=94.17  Aligned_cols=64  Identities=17%  Similarity=0.374  Sum_probs=57.0

Q ss_pred             ccccccccccccC---CceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCC
Q psy11345        160 GLYCEFCFEQYLA---PDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKC  223 (282)
Q Consensus       160 ~~yC~~c~~~~~~---~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C  223 (282)
                      ...|..|.+.|..   ...+.+.++.||++||+|..|+++|.+..|+.+++++||..||.++|++++
T Consensus         5 ~~~C~~C~~~I~~~~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~p~~   71 (72)
T 1x4l_A            5 SSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGKDISGPSS   71 (72)
T ss_dssp             SCSBTTTTBCCCCSSSCSCEECSSCEECTTTCBCSSSCCBCTTSCCEECSSSEECHHHHHTCCCSSC
T ss_pred             CCCCcCCCccccCCCCcceEEECCcccCcccCEeccCCCcCCCCccEeECCEEEChhHcCcccCCCC
Confidence            4568888888774   477889999999999999999999998889999999999999999999876

>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=99.38  E-value=1.5e-13  Score=97.33  Aligned_cols=60  Identities=28%  Similarity=0.728  Sum_probs=55.7

Q ss_pred             CcccccCcccc-CceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccc-cccccccCC
Q psy11345        112 PLCGQCYQQIR-GPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCE-FCFEQYLAP  173 (282)
Q Consensus       112 ~~C~~C~~~I~-~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~-~c~~~~~~~  173 (282)
                      |+|.+|+++|. +++|.++|+.||++||+|.  .|+++|....|+.+++++||+ .||.+++++
T Consensus         1 p~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~--~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~~   62 (76)
T 1iml_A            1 PKCPKCDKEVYFAERVTSLGKDWHRPCLKCE--KCGKTLTSGGHAEHEGKPYCNHPCYSAMFGP   62 (76)
T ss_dssp             CBCTTTSSBCCGGGEEEETTEEEETTTCBCT--TTCCBCCTTTEEEETTEEEETTTHHHHHSSC
T ss_pred             CcCCCCCCEEECceEEEECCccccCCCCCcc--ccCccCCCCceECcCCeEeeCHHHHHHHhCc
Confidence            58999999997 8899999999999999999  999999998999999999999 699887764

>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=99.38  E-value=6e-13  Score=97.62  Aligned_cols=68  Identities=25%  Similarity=0.499  Sum_probs=62.1

Q ss_pred             CCccccccccccccCCceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCcc
Q psy11345        158 DSGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFA  225 (282)
Q Consensus       158 ~~~~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~~  225 (282)
                      .....|..|.+.+...+.+.+.++.||++||+|..|+++|....|+..++++||+.||.++|+++|..
T Consensus        13 ~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~kc~~   80 (91)
T 2d8y_A           13 PARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNY   80 (91)
T ss_dssp             SSSCBCTTTCCBCCTTSEEECSSSEEETTTCBCTTTCCBCCTTTCCCSSSCCCCHHHHHHHSCCCSCC
T ss_pred             CCCCcCccCCCccCCceeEEECCCEECCCCCeeCCCCCCCCCCCcEeECCEEECHHHHHHHhCCCcCc
Confidence            35677999999988877889999999999999999999999888999999999999999999999974

>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=99.38  E-value=3.3e-13  Score=92.86  Aligned_cols=62  Identities=35%  Similarity=0.680  Sum_probs=55.4

Q ss_pred             ccccccccccccCCceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCC
Q psy11345        160 GLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTK  222 (282)
Q Consensus       160 ~~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~  222 (282)
                      ...|..|.+.+. ...+.+.++.||++||+|..|+++|.+..|+..++++||+.||.++|+++
T Consensus         5 ~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~k   66 (66)
T 1nyp_A            5 VPICGACRRPIE-GRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLFGDV   66 (66)
T ss_dssp             CCEETTTTEECC-SCEECCTTSBEETTTCBCTTTCCBCSSSCCEEETTEEECHHHHHHHCSCC
T ss_pred             CCCCcccCCEec-ceEEEECccccccCcCEECCCCCCCCCCceEeECCcEECHHHHHHHhCCC
Confidence            356888888887 56788999999999999999999999888999999999999999999864

>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=99.37  E-value=2e-13  Score=95.57  Aligned_cols=61  Identities=26%  Similarity=0.614  Sum_probs=55.3

Q ss_pred             CCCcccccCccccC--ceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccC
Q psy11345        110 RVPLCGQCYQQIRG--PFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLA  172 (282)
Q Consensus       110 ~~~~C~~C~~~I~~--~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~  172 (282)
                      ..+.|.+|+++|.+  .+|.++++.||++||+|.  .|+++|....|+.+++++||+.||.+++.
T Consensus         4 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~--~C~~~L~~~~~~~~~~~~yC~~cy~~~~~   66 (72)
T 1x61_A            4 GSSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCS--TCRAQLRGQHFYAVERRAYCEGCYVATLE   66 (72)
T ss_dssp             CCCCCSSSCSCCCSSSCCEECSSSEECTTTCBCS--SSCCBCTTSCEEESSSCEEEHHHHHHHHH
T ss_pred             CCCCCccCCCccCCCceEEEECCCeEcccCCccc--ccCCcCCcCcCEeeCCeEECHHHHHHHHc
Confidence            34699999999974  589999999999999999  99999988889999999999999988764

>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=99.36  E-value=3.7e-13  Score=98.74  Aligned_cols=72  Identities=17%  Similarity=0.326  Sum_probs=62.2

Q ss_pred             CCcccccCccccC-ceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCCcee--eecCcccc
Q psy11345        111 VPLCGQCYQQIRG-PFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDCL--NAIGKHYH  184 (282)
Q Consensus       111 ~~~C~~C~~~I~~-~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~~~--~~~~~~~H  184 (282)
                      .+.|.+|++.|.+ +.|.++++.||++||+|.  .|+++|....|+.+++++||+.||.+++++.|.  ...+..+|
T Consensus        15 ~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~--~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~kc~~~~g~g~~~~   89 (91)
T 2d8y_A           15 RETCVECQKTVYPMERLLANQQVFHISCFRCS--YCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNYDEGFGSGPS   89 (91)
T ss_dssp             SCBCTTTCCBCCTTSEEECSSSEEETTTCBCT--TTCCBCCTTTCCCSSSCCCCHHHHHHHSCCCSCCCSCCCCCCC
T ss_pred             CCcCccCCCccCCceeEEECCCEECCCCCeeC--CCCCCCCCCCcEeECCEEECHHHHHHHhCCCcCccCCcCCCCC
Confidence            4699999999974 789999999999999999  999999998899999999999999999988653  33444454

>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=99.36  E-value=1.5e-13  Score=98.64  Aligned_cols=64  Identities=22%  Similarity=0.560  Sum_probs=55.7

Q ss_pred             CCCcccccCcccc-CceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccCCce
Q psy11345        110 RVPLCGQCYQQIR-GPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDC  175 (282)
Q Consensus       110 ~~~~C~~C~~~I~-~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~~  175 (282)
                      ..+.|.+|+++|. ++.|.++++.||++||+|.  .|+++|....|+.+++++||+.||.++++++|
T Consensus         6 ~~~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~--~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c   70 (81)
T 1a7i_A            6 GGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCM--VCRKNLDSTTVAIHDAEVYCKSCYGKKYGPKG   70 (81)
T ss_dssp             --CBCSSSCCBCSSTTEEEETTEEEESSSEECS--SSCCEECSSCCEEETTEEECSHHHHHHCC---
T ss_pred             CCCcCcCcCccccCceeEEeCCcccccccCccC--CCCCCCCCCCeEeeCCEEECHHHHHHHhCCcc
Confidence            3469999999995 7889999999999999999  99999999899999999999999998877654

>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=99.35  E-value=7.9e-13  Score=102.46  Aligned_cols=61  Identities=15%  Similarity=0.386  Sum_probs=54.9

Q ss_pred             CCCcccccCccccCc-eeecCCcccCcCCcccccCCCCCCCC--CCCceecCCccccccccccccC
Q psy11345        110 RVPLCGQCYQQIRGP-FITALGKIWCPDHFLCVRPQCKRPLQ--DIGFVEEDSGLYCEFCFEQYLA  172 (282)
Q Consensus       110 ~~~~C~~C~~~I~~~-~v~~~~~~~H~~Cf~C~~~~C~~~l~--~~~~~~~~~~~yC~~c~~~~~~  172 (282)
                      ..+.|.+|+++|.+. +|.++++.||++||+|.  .|+.+|.  ...|+.+++++||+.||.++|+
T Consensus        60 ~~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~--~C~~~L~~~g~~f~~~dg~~yC~~cy~~~Fg  123 (123)
T 2l4z_A           60 SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCS--SCQAQLGDIGTSSYTKSGMILCRNDYIRLFG  123 (123)
T ss_dssp             SCSBBSSSSSBCCSSSEEEETTEEEETTTSBCT--TTCCBGGGTTCCCBCSSSCCBCHHHHHHHCC
T ss_pred             cCCcCcCCCCCcCCcEEEEeCCcEEcccccCcC--cCCCcccccCCceEEECCEEeCHHHhhhhcC
Confidence            347999999999887 59999999999999999  9999997  3689999999999999988764

>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=99.34  E-value=1.3e-12  Score=90.92  Aligned_cols=65  Identities=23%  Similarity=0.495  Sum_probs=56.9

Q ss_pred             CccccccccccccCCceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCc
Q psy11345        159 SGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCF  224 (282)
Q Consensus       159 ~~~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~  224 (282)
                      +...|..|.+.+.+ ..+.+.++.||++||+|..|+++|....|+..++++||+.||.++|+++..
T Consensus         4 ~~~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~~   68 (70)
T 2d8x_A            4 GSSGCHQCGEFIIG-RVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNREKASGPS   68 (70)
T ss_dssp             CSSBCSSSCCBCCS-CCEEETTEEECTTTSBCSSSCCBCSSSCCEEETTEEECHHHHHHHHCCCSC
T ss_pred             CCCcCccCCCEecc-eEEEECcccccccCCEeCCCCCcCCCCccEeECCeEECHHHhhhhcCCCCC
Confidence            45668888888774 568899999999999999999999988899999999999999999987653

>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=99.33  E-value=3.7e-13  Score=96.09  Aligned_cols=65  Identities=23%  Similarity=0.500  Sum_probs=58.0

Q ss_pred             CccccccccccccCCceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCc
Q psy11345        159 SGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCF  224 (282)
Q Consensus       159 ~~~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~  224 (282)
                      ....|..|.+.|.+ ..+.+.++.||++||+|..|+++|.+..|+..++++||+.||.++|++++.
T Consensus        14 ~~~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~p~g~   78 (79)
T 1x62_A           14 KLPMCDKCGTGIVG-VFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEKHARERVSGPSS   78 (79)
T ss_dssp             CCCCCSSSCCCCCS-SCEECSSCEECTTTTSCSSSCCCHHHHCCEESSSCEECHHHHHHHHSSCCC
T ss_pred             CCCccccCCCCccC-cEEEECcceeCcCcCeeCCCCCCCCCCCeEeECCEEECHHHHHHHhCCCCC
Confidence            45678888888876 478899999999999999999999877799999999999999999998865

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

Probab=99.33  E-value=4.1e-13  Score=92.20  Aligned_cols=57  Identities=23%  Similarity=0.498  Sum_probs=53.3

Q ss_pred             CcccccCcccc--CceeecCCcccC--cCCcccccCCCCCCCCCCCceecCCcccc-ccccccc
Q psy11345        112 PLCGQCYQQIR--GPFITALGKIWC--PDHFLCVRPQCKRPLQDIGFVEEDSGLYC-EFCFEQY  170 (282)
Q Consensus       112 ~~C~~C~~~I~--~~~v~~~~~~~H--~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC-~~c~~~~  170 (282)
                      +.|.+|+++|.  ++.|.++|+.||  ++||+|.  .|+++|....|+.+++++|| ..|+.++
T Consensus         3 ~~C~~C~~~I~~~~~~v~a~~~~wH~~~~CF~C~--~C~~~L~~~~f~~~~g~~yC~~~C~~k~   64 (65)
T 2iyb_E            3 VVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCS--CCSKCLIGQKFMPVEGMVFCSVECKKRM   64 (65)
T ss_dssp             EECTTTSSEECTTSCEEEETTEEEETTTTTSBCT--TTCCBCTTSCCEEETTEEESSHHHHHTT
T ss_pred             CCCcCCCCeeccCceEEEECCCccCCCCCCEECC--CCCCcCCCCceEEECCEEecCHHHhhhh
Confidence            58999999998  689999999999  9999999  99999999999999999999 8898765

>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=99.32  E-value=5.4e-13  Score=94.65  Aligned_cols=57  Identities=26%  Similarity=0.616  Sum_probs=53.3

Q ss_pred             CcccccCccccC-----ceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccc
Q psy11345        112 PLCGQCYQQIRG-----PFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQY  170 (282)
Q Consensus       112 ~~C~~C~~~I~~-----~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~  170 (282)
                      +.|.+|+++|.+     ++|.++++.||++||+|.  .|+++|....|+.+++++||+.||.++
T Consensus        16 ~~C~~C~~~I~~~g~~~~~~~a~~~~~H~~CF~C~--~C~~~L~~~~f~~~~~~~yC~~cy~~l   77 (77)
T 2egq_A           16 KKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCK--KCSVNLANKRFVFHQEQVYCPDCAKKL   77 (77)
T ss_dssp             CCCSSSCCCCCCCSSCCCEEEETTEEEETTTCBCS--SSCCBCTTSCCCEETTEECCHHHHHHC
T ss_pred             ccCcccCCcccCCCCCceeEEECcceeCcccCEeh--hcCCCCCCCccEeECCEEEChHHhccC
Confidence            689999999986     789999999999999999  999999998999999999999998754

>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=99.32  E-value=3.6e-12  Score=90.93  Aligned_cols=64  Identities=23%  Similarity=0.376  Sum_probs=56.2

Q ss_pred             CccccccccccccCCceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCc
Q psy11345        159 SGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCF  224 (282)
Q Consensus       159 ~~~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~  224 (282)
                      +.+.|..|.+.|. ...+.+.++.||++||+|..|+++|.+.. |.+++++||+.||.++|++++.
T Consensus        14 ~~~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~-f~~~g~~yC~~cy~~~f~p~~s   77 (79)
T 2cor_A           14 GKYICQKCHAIID-EQPLIFKNDPYHPDHFNCANCGKELTADA-RELKGELYCLPCHDKMGVSGPS   77 (79)
T ss_dssp             CCCBCTTTCCBCC-SCCCCCSSSCCCTTTSBCSSSCCBCCTTC-EEETTEEECHHHHHTTSCCSSC
T ss_pred             CCCCCccCCCEec-ceEEEECcceeCCCCCEeCCCCCccCCCC-EeECCEEeCHHHHHHhCCCCCC
Confidence            4577999998888 45688999999999999999999998764 5899999999999999988764

>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=99.31  E-value=1.5e-12  Score=91.03  Aligned_cols=66  Identities=21%  Similarity=0.451  Sum_probs=56.3

Q ss_pred             ccccccccccccCC-ceeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCccC
Q psy11345        160 GLYCEFCFEQYLAP-DCLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFAC  226 (282)
Q Consensus       160 ~~yC~~c~~~~~~~-~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~~C  226 (282)
                      ...|..|.+.+... ..+.+.++.||++||+|..|+++|.+..|+..++++||..||.++| .+|..+
T Consensus         5 ~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~~-~~~~~~   71 (72)
T 1x61_A            5 SSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVATL-ESGPSS   71 (72)
T ss_dssp             CCCCSSSCSCCCSSSCCEECSSSEECTTTCBCSSSCCBCTTSCEEESSSCEEEHHHHHHHH-HTCSSC
T ss_pred             CCCCccCCCccCCCceEEEECCCeEcccCCcccccCCcCCcCcCEeeCCeEECHHHHHHHH-ccCCCC
Confidence            45677888777763 5788999999999999999999998777999999999999999998 556544

>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=99.29  E-value=1.8e-12  Score=90.43  Aligned_cols=66  Identities=33%  Similarity=0.732  Sum_probs=56.8

Q ss_pred             eecCCccccccccccccCCc-eeeecCccccccCccCCccCcccCCCCeeeeCCeecCHhhhhcccC
Q psy11345        155 VEEDSGLYCEFCFEQYLAPD-CLNAIGKHYHPECFTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFT  220 (282)
Q Consensus       155 ~~~~~~~yC~~c~~~~~~~~-~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~  220 (282)
                      |.......|..|.+.+.... .+.+.++.||++||+|..|+++|....|+..++++||+.||.++|+
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            33445677888888888654 5679999999999999999999988789999999999999999874

>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=99.28  E-value=9.6e-13  Score=91.87  Aligned_cols=60  Identities=23%  Similarity=0.537  Sum_probs=54.1

Q ss_pred             CCcccccCccccC--ceeecCCcccCcCCcccccCCCCCCCCCCCceecCCccccccccccccC
Q psy11345        111 VPLCGQCYQQIRG--PFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLA  172 (282)
Q Consensus       111 ~~~C~~C~~~I~~--~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~  172 (282)
                      .+.|.+|++.|.+  .+|.++|+.||++||+|.  .|+++|....|+.+++++||+.||.++|+
T Consensus        11 ~~~C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~--~C~~~L~~~~~~~~~g~~yC~~~y~~lf~   72 (72)
T 3f6q_B           11 SATCERCKGGFAPAEKIVNSNGELYHEQCFVCA--QCFQQFPEGLFYEFEGRKYCEHDFQMLFA   72 (72)
T ss_dssp             TCBCTTTCCBCCTTCEEEEETTEEEETTTSSCT--TTCCCCGGGCCEEETTEEECHHHHHHHTC
T ss_pred             CccchhcCccccCCceEEEeCcCeeCcCCCccc--CCCCCCCCCCeEeECCeEeCHHHHHHhhC
Confidence            3599999999973  367899999999999999  99999998899999999999999988763

>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=99.27  E-value=2.5e-12  Score=92.45  Aligned_cols=66  Identities=21%  Similarity=0.447  Sum_probs=57.2

Q ss_pred             CCccccccccccccCCceeeecCccccccCccCCccCcccCCCCee--eeCCeecCHhhhhcccCCCC
Q psy11345        158 DSGLYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFGNNPFF--LEEGLPYCENDWNDLFTTKC  223 (282)
Q Consensus       158 ~~~~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~--~~~~~~yC~~c~~~~~~~~C  223 (282)
                      .+...|..|.+.+...+.+.+.++.||.+||+|..|+++|....|+  .+++++||+.||.++|...+
T Consensus        13 ~~~~~C~~C~~~I~~~e~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~~~   80 (82)
T 2co8_A           13 GAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQTDSGPS   80 (82)
T ss_dssp             CSSCBCSSSCCBCCTTTBCCBTTBCCBTTTCBCSSSCCBCCTTSEECCTTTCCCEETTTCCCCCCCCC
T ss_pred             CCCCCCcccCCCcccceEEEECCCeeCCCcCEEcCCCCCcCCCceeEeCcCCEEEChHHHHhhhcCCC
Confidence            3567788888888877778899999999999999999999988877  46899999999999987544

>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=99.25  E-value=6.5e-12  Score=88.19  Aligned_cols=61  Identities=26%  Similarity=0.521  Sum_probs=52.0

Q ss_pred             cccccccccccCCceeeecCccccccCccCCccCcccC-CCCeeeeCCeecCHhhhhcccCCC
Q psy11345        161 LYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFG-NNPFFLEEGLPYCENDWNDLFTTK  222 (282)
Q Consensus       161 ~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~-~~~f~~~~~~~yC~~c~~~~~~~~  222 (282)
                      +.|..|.+.|.+ ..+.+.++.||++||+|..|+++|. +..|++.++++||..||.++++..
T Consensus         6 ~~C~~C~~~I~~-~~v~a~~~~wH~~CF~C~~C~~~L~~~~~f~~~~~~~yC~~C~~~~~~~~   67 (73)
T 1wig_A            6 SGCDSCEKYITG-RVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWHPACRQAARTED   67 (73)
T ss_dssp             CSCSSSCCCCSS-CCBCCSSCCBCTTTSCCSSSCCCCCSSCCCEEETTEEECTTHHHHTSSSS
T ss_pred             CCcccCCCEecC-eeEEeCCCCCCCCcCEeCCCCCCCCCCCeeEeeCCEEEChHHChHhhccc
Confidence            456777777765 5678899999999999999999998 666999999999999999988653

>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=99.23  E-value=5.4e-12  Score=97.72  Aligned_cols=60  Identities=25%  Similarity=0.556  Sum_probs=50.6

Q ss_pred             cccccccccccCCceeeecCccccccCccCCccCcccC--CCCeeeeCCeecCHhhhhcccC
Q psy11345        161 LYCEFCFEQYLAPDCLNAIGKHYHPECFTCAYCGKLFG--NNPFFLEEGLPYCENDWNDLFT  220 (282)
Q Consensus       161 ~yC~~c~~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~--~~~f~~~~~~~yC~~c~~~~~~  220 (282)
                      ..|..|.+.|.....+.+.++.||++||+|..|+++|.  +..|+.+++++||+.||.++|+
T Consensus        62 ~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~~g~~f~~~dg~~yC~~cy~~~Fg  123 (123)
T 2l4z_A           62 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG  123 (123)
T ss_dssp             SBBSSSSSBCCSSSEEEETTEEEETTTSBCTTTCCBGGGTTCCCBCSSSCCBCHHHHHHHCC
T ss_pred             CcCcCCCCCcCCcEEEEeCCcEEcccccCcCcCCCcccccCCceEEECCEEeCHHHhhhhcC
Confidence            44556666666666688899999999999999999997  3569999999999999999885

>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=99.22  E-value=4.7e-12  Score=90.70  Aligned_cols=60  Identities=30%  Similarity=0.567  Sum_probs=53.9

Q ss_pred             CcccccCccccCceeecCCcccCcCCcccccCCCCCCCCCCCceecCCc-cccccccccccCC
Q psy11345        112 PLCGQCYQQIRGPFITALGKIWCPDHFLCVRPQCKRPLQDIGFVEEDSG-LYCEFCFEQYLAP  173 (282)
Q Consensus       112 ~~C~~C~~~I~~~~v~~~~~~~H~~Cf~C~~~~C~~~l~~~~~~~~~~~-~yC~~c~~~~~~~  173 (282)
                      +.|.+|+++|.+++|.++++.||++||+|.  .|+++|....++..++. +||..|+.++...
T Consensus        16 ~~C~~C~~~I~~~~v~a~~~~wH~~CF~C~--~C~~~L~~~~~~~~~~~~~~C~~C~~~~~~~   76 (81)
T 1v6g_A           16 TRCFSCDQFIEGEVVSALGKTYHPDCFVCA--VCRLPFPPGDRVTFNGKECMCQKCSLPVSVS   76 (81)
T ss_dssp             CBCTTTCCBCCSCCEEETTEEECTTTSSCS--SSCCCCCSSSCEEEETTEEEEHHHHSCCSSC
T ss_pred             CcCccccCEeccceEEECCceeCccCCccc--cCCCCCCCCCEEEeCCCCEEChhhhcccCCC
Confidence            489999999999999999999999999999  99999988777777776 6999999887754

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

Probab=99.17  E-value=2.6e-11  Score=83.08  Aligned_cols=58  Identities=22%  Similarity=0.518  Sum_probs=50.8

Q ss_pred             cccccccccccC-CceeeecCcccc--ccCccCCccCcccCCCCeeeeCCeecC-Hhhhhcc
Q psy11345        161 LYCEFCFEQYLA-PDCLNAIGKHYH--PECFTCAYCGKLFGNNPFFLEEGLPYC-ENDWNDL  218 (282)
Q Consensus       161 ~yC~~c~~~~~~-~~~~~~~~~~~H--~~Cf~C~~C~~~l~~~~f~~~~~~~yC-~~c~~~~  218 (282)
                      ..|..|.+.+.. ...+.+.++.||  ++||+|..|+++|.+..|+.+++++|| ..||.++
T Consensus         3 ~~C~~C~~~I~~~~~~v~a~~~~wH~~~~CF~C~~C~~~L~~~~f~~~~g~~yC~~~C~~k~   64 (65)
T 2iyb_E            3 VVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKRM   64 (65)
T ss_dssp             EECTTTSSEECTTSCEEEETTEEEETTTTTSBCTTTCCBCTTSCCEEETTEEESSHHHHHTT
T ss_pred             CCCcCCCCeeccCceEEEECCCccCCCCCCEECCCCCCcCCCCceEEECCEEecCHHHhhhh
Confidence            357777777776 378899999999  999999999999998889999999999 9998765

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

Probab=97.39  E-value=3.2e-05  Score=44.31  Aligned_cols=29  Identities=28%  Similarity=0.658  Sum_probs=25.2

Q ss_pred             CCCCccCCCccccCCcEEEeCCcccccCCC
Q psy11345        220 TTKCFACGFPIEAGDRWVEALNNNYHSLCF  249 (282)
Q Consensus       220 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  249 (282)
                      .++|..|++.+.+.+ .+.+.|+.||..||
T Consensus         3 ~~~C~~C~k~Vy~~E-k~~~~g~~~Hk~CF   31 (31)
T 1zfo_A            3 NPNCARCGKIVYPTE-KVNCLDKFWHKACF   31 (31)
T ss_dssp             CCBCSSSCSBCCGGG-CCCSSSSCCCGGGC
T ss_pred             CCcCCccCCEEecce-eEEECCeEecccCC
Confidence            478999999999875 45589999999998

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

Probab=97.21  E-value=0.0001  Score=42.21  Aligned_cols=27  Identities=26%  Similarity=0.639  Sum_probs=24.3

Q ss_pred             CcccccCcccc-CceeecCCcccCcCCc
Q psy11345        112 PLCGQCYQQIR-GPFITALGKIWCPDHF  138 (282)
Q Consensus       112 ~~C~~C~~~I~-~~~v~~~~~~~H~~Cf  138 (282)
                      ..|.+|++.|. .+.|.+.|+.||..||
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            48999999996 5788899999999998

---

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	282
d2dara2	45	g.39.1.3 (A:8-52) PDZ and LIM domain protein 5, En	1e-14
d2dara1	32	g.39.1.3 (A:53-84) PDZ and LIM domain protein 5, E	7e-10
d1x63a1	37	g.39.1.3 (A:8-44) Four and a half LIM domains prot	2e-09
d1g47a2	35	g.39.1.3 (A:36-70) Pinch (particularly interesting	3e-09
d1g47a2	35	g.39.1.3 (A:36-70) Pinch (particularly interesting	5e-06
d1x3ha1	35	g.39.1.3 (A:8-42) Leupaxin {Human (Homo sapiens) [	2e-07
d1x3ha1	35	g.39.1.3 (A:8-42) Leupaxin {Human (Homo sapiens) [	5e-06
d1x3ha1	35	g.39.1.3 (A:8-42) Leupaxin {Human (Homo sapiens) [	8e-04
d1u5sb1	31	g.39.1.3 (B:72-102) Pinch (particularly interestin	7e-05
d1u5sb2	35	g.39.1.3 (B:103-137) Pinch (particularly interesti	0.001

>d2dara2 g.39.1.3 (A:8-52) PDZ and LIM domain protein 5, Enigma {Human (Homo sapiens) [TaxId: 9606]} Length = 45

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 5, Enigma
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 64.8 bits (158), Expect = 1e-14
 Identities = 19/40 (47%), Positives = 25/40 (62%)

Query: 99  VLNPQNLAPGARVPLCGQCYQQIRGPFITALGKIWCPDHF 138
           V   +++  G R P+C  C Q IRGPF+ ALGK W P+ F
Sbjct: 6   VQRAEHIPAGKRTPMCAHCNQVIRGPFLVALGKSWHPEEF 45

>d2dara1 g.39.1.3 (A:53-84) PDZ and LIM domain protein 5, Enigma {Human (Homo sapiens) [TaxId: 9606]} Length = 32

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 5, Enigma
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 50.9 bits (122), Expect = 7e-10
 Identities = 15/29 (51%), Positives = 19/29 (65%)

Query: 144 QCKRPLQDIGFVEEDSGLYCEFCFEQYLA 172
            CK  +  IGFVEE   LYCE C+E++ A
Sbjct: 4   HCKNTMAYIGFVEEKGALYCELCYEKFFA 32

>d1x63a1 g.39.1.3 (A:8-44) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]} Length = 37

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.8 bits (119), Expect = 2e-09
 Identities = 12/34 (35%), Positives = 15/34 (44%)

Query: 216 NDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCF 249
               + KC  C   I AGD+ VE     +H  CF
Sbjct: 4   TREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCF 37

>d1g47a2 g.39.1.3 (A:36-70) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]} Length = 35

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.3 bits (118), Expect = 3e-09
 Identities = 14/32 (43%), Positives = 18/32 (56%)

Query: 188 FTCAYCGKLFGNNPFFLEEGLPYCENDWNDLF 219
           F CA C + F    F+  EG  YCE+D+  LF
Sbjct: 1   FVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 32

>d1g47a2 g.39.1.3 (A:36-70) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]} Length = 35

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.1 bits (94), Expect = 5e-06
 Identities = 12/36 (33%), Positives = 17/36 (47%), Gaps = 2/36 (5%)

Query: 138 FLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAP 173
           F+C   QC +   +  F E +   YCE  F+   AP
Sbjct: 1   FVCA--QCFQQFPEGLFYEFEGRKYCEHDFQMLFAP 34

>d1x3ha1 g.39.1.3 (A:8-42) Leupaxin {Human (Homo sapiens) [TaxId: 9606]} Length = 35

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Leupaxin
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.9 bits (104), Expect = 2e-07
 Identities = 10/36 (27%), Positives = 20/36 (55%), Gaps = 2/36 (5%)

Query: 214 DWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCF 249
           D+  +F+ KC  C  P+   + ++ A++  +H  CF
Sbjct: 2   DFLAMFSPKCGGCNRPVL--ENYLSAMDTVWHPECF 35

>d1x3ha1 g.39.1.3 (A:8-42) Leupaxin {Human (Homo sapiens) [TaxId: 9606]} Length = 35

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Leupaxin
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.4 bits (95), Expect = 5e-06
 Identities = 8/27 (29%), Positives = 16/27 (59%)

Query: 112 PLCGQCYQQIRGPFITALGKIWCPDHF 138
           P CG C + +   +++A+  +W P+ F
Sbjct: 9   PKCGGCNRPVLENYLSAMDTVWHPECF 35

>d1x3ha1 g.39.1.3 (A:8-42) Leupaxin {Human (Homo sapiens) [TaxId: 9606]} Length = 35

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Leupaxin
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.2 bits (79), Expect = 8e-04
 Identities = 9/26 (34%), Positives = 15/26 (57%), Gaps = 1/26 (3%)

Query: 163 CEFCFEQYLAPDCLNAIGKHYHPECF 188
           C  C  + +  + L+A+   +HPECF
Sbjct: 11  CGGC-NRPVLENYLSAMDTVWHPECF 35

>d1u5sb1 g.39.1.3 (B:72-102) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]} Length = 31

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.0 bits (86), Expect = 7e-05
 Identities = 12/27 (44%), Positives = 17/27 (62%)

Query: 111 VPLCGQCYQQIRGPFITALGKIWCPDH 137
           VP+CG C + I G  + A+GK W  +H
Sbjct: 5   VPICGACRRPIEGRVVNAMGKQWHVEH 31

>d1u5sb2 g.39.1.3 (B:103-137) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]} Length = 35

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.0 bits (78), Expect = 0.001
 Identities = 14/32 (43%), Positives = 18/32 (56%)

Query: 188 FTCAYCGKLFGNNPFFLEEGLPYCENDWNDLF 219
           F CA C K F  +  +  +GL YCE  +N LF
Sbjct: 1   FVCAKCEKPFLGHRHYERKGLAYCETHYNQLF 32

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	282
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	99.06
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	98.98
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	98.96
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	98.93
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.93
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.79
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.77
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	98.75
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	98.74
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	98.63
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	98.49
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	98.44
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	98.38
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	98.33
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.3
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	98.3
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	98.28
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	98.24
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	98.21
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.19
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.18
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	98.07
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.06
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	98.05
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.04
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.03
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	98.02
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	98.0
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	97.97
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.96
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.95
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	97.92
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	97.89
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	97.85
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	97.79
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.78
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.76
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	97.75
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	97.72
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	97.7
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	97.69
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	97.64
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	97.61
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	97.57
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	97.57
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	97.56
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	97.54
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.51
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.51
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.51
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.48
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	97.45
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	97.45
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	97.44
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	97.43
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.39
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.39
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	97.38
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.34
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.33
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.32
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	97.31
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	97.31
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	97.29
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.29
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	97.29
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.28
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.23
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	97.22
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	97.2
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.2
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	97.18
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.08
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.08
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	97.04
d2co8a2	36	Nedd9 interacting protein with calponin homology,	97.02
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.02
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.0
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.98
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	96.91
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	96.75
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	96.75
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	96.72
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	96.6
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	96.59
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	96.58
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	96.49
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	96.48
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	96.46
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	96.41
d2co8a2	36	Nedd9 interacting protein with calponin homology,	96.39
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	96.33
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	96.15
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	96.13
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	95.92
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	95.85
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	95.78
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	95.66
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	95.6
d1x61a1	27	Thyroid receptor interacting protein 6, TRIP6 {Hum	95.59
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	95.57
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	95.57
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	95.54
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	95.48
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	95.31
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	95.27
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	95.26
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	94.55
d1rutx4	33	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	94.41
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	94.38
d1x61a1	27	Thyroid receptor interacting protein 6, TRIP6 {Hum	94.26
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	94.25
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	93.25
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	93.23
d1rutx2	34	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	93.17
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	92.05
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	91.76
d2cora1	31	Pinch (particularly interesting new Cys-His) prote	91.21
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	90.46
d1x4la2	30	Four and a half LIM domains protein 2, FHL2 {Human	89.87
d1v6ga2	40	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	88.54
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	88.41
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	87.95
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	87.61
d1x68a2	34	Four and a half LIM domains protein 5, FHL-5 {Huma	87.23
d1rutx4	33	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	85.78
d1x4la2	30	Four and a half LIM domains protein 2, FHL2 {Human	84.22
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	82.34
d1x68a2	34	Four and a half LIM domains protein 5, FHL-5 {Huma	81.81

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

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Leupaxin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.06  E-value=2e-11  Score=70.86  Aligned_cols=35  Identities=29%  Similarity=0.807  Sum_probs=32.7

Q ss_pred             hhhhcccCCCCccCCCccccCCcEEEeCCcccccCCC
Q psy11345        213 NDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCF  249 (282)
Q Consensus       213 ~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  249 (282)
                      ++|.++|+++|.+|+++|.  +++|.|+|+.||++||
T Consensus         1 ~DY~~~fapkC~~C~~~I~--g~~v~Al~~~wHpeCF   35 (35)
T d1x3ha1           1 KDFLAMFSPKCGGCNRPVL--ENYLSAMDTVWHPECF   35 (35)
T ss_dssp             CCCCCCCSCBCTTTCCBCC--SSCEEETTEEECTTTC
T ss_pred             CcHHHHhChhhhhcCCccc--chheeecCCccCcccC
Confidence            3789999999999999998  6799999999999998

>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=98.98  E-value=8.5e-11  Score=68.35  Aligned_cols=37  Identities=32%  Similarity=0.394  Sum_probs=35.4

Q ss_pred             hhhhcccCCCCccCCCccccCCcEEEeCCcccccCCC
Q psy11345        213 NDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCF  249 (282)
Q Consensus       213 ~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  249 (282)
                      .||.+.|+++|.+|.++|.+|++.|++.|+.||..||
T Consensus         1 kCy~~~~a~~C~~C~k~I~~G~k~veykg~~WHe~CF   37 (37)
T d1x63a1           1 KCTTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCF   37 (37)
T ss_dssp             CCCSCCCSCBCSSSCCBCCSSSCEEECSSCEEETTTC
T ss_pred             CccccccCcccccCCCccCCCCeEeEeCCccchhccC
Confidence            4788999999999999999999999999999999998

>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=98.96  E-value=2.2e-10  Score=67.86  Aligned_cols=34  Identities=32%  Similarity=0.645  Sum_probs=32.6

Q ss_pred             CCCCCCCCcccccCccccCceeecCCcccCcCCc
Q psy11345        105 LAPGARVPLCGQCYQQIRGPFITALGKIWCPDHF  138 (282)
Q Consensus       105 ~~~~~~~~~C~~C~~~I~~~~v~~~~~~~H~~Cf  138 (282)
                      +++.+++|+|.+|+..|.|.+|++.|+.+||+||
T Consensus        12 ~~~~QkLP~CdkCg~GIVG~~VK~rDK~rHPeCf   45 (45)
T d1x64a1          12 AGSAQRMPLCDKCGSGIVGAVVKARDKYRHPECF   45 (45)
T ss_dssp             CSCCCSCCBCTTTCCBCCSCCEESSSCEECTTTC
T ss_pred             CCccccCccccccCCCcEEEEEEeccccCCCCCC
Confidence            5788999999999999999999999999999998

>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=98.93  E-value=3e-10  Score=62.96  Aligned_cols=34  Identities=21%  Similarity=0.614  Sum_probs=32.2

Q ss_pred             CCCCCCCCcccccCccccCceeecCCcccCcCCc
Q psy11345        105 LAPGARVPLCGQCYQQIRGPFITALGKIWCPDHF  138 (282)
Q Consensus       105 ~~~~~~~~~C~~C~~~I~~~~v~~~~~~~H~~Cf  138 (282)
                      +++.+++|+|.+|+..|.|.+|++.++.+||+||
T Consensus         2 vg~~qklp~CdkCg~GIVG~~VK~rDk~rHPeCf   35 (35)
T d1x62a2           2 IGNAQKLPMCDKCGTGIVGVFVKLRDRHRHPECY   35 (35)
T ss_dssp             CCCCCCCCCCSSSCCCCCSSCEECSSCEECTTTT
T ss_pred             CCccccCccccccCCCcEeEEEEeccccCCCCCC
Confidence            4678899999999999999999999999999998

>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=98.93  E-value=3.2e-10  Score=68.02  Aligned_cols=34  Identities=53%  Similarity=1.242  Sum_probs=30.2

Q ss_pred             CCCCCCCCcccccCccccCceeecCCcccCcCCc
Q psy11345        105 LAPGARVPLCGQCYQQIRGPFITALGKIWCPDHF  138 (282)
Q Consensus       105 ~~~~~~~~~C~~C~~~I~~~~v~~~~~~~H~~Cf  138 (282)
                      ++.+...|+|..|+++|.|++|.|+|+.|||+||
T Consensus        12 ~p~~~r~P~C~~C~~pI~g~~vtAlgk~WHPEhF   45 (45)
T d2dara2          12 IPAGKRTPMCAHCNQVIRGPFLVALGKSWHPEEF   45 (45)
T ss_dssp             ECTTTCCCBBSSSCCBCCSCEEEETTEEECTTTC
T ss_pred             cCCCCCCeeccccCCcccCceeeecCCccCcCCC
Confidence            3445566899999999999999999999999998

>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=98.79  E-value=1.1e-09  Score=61.55  Aligned_cols=34  Identities=21%  Similarity=0.552  Sum_probs=31.6

Q ss_pred             hhhcccCCCCccCCCccccCCcEEEeCCcccccCCC
Q psy11345        214 DWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCF  249 (282)
Q Consensus       214 c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  249 (282)
                      ||++.|+++|..|+++|+.|  -|.+.++.||.+||
T Consensus         2 CyE~kfa~~C~~Ckk~It~G--GvtY~dqpWHkeCF   35 (35)
T d2cuqa2           2 CYENKFAPRCARCSKTLTQG--GVTYRDQPWHRECL   35 (35)
T ss_dssp             CCCCCSSCCCTTTCCCCCSC--CEESSSSEECTTTC
T ss_pred             chHHHHHHHHhhcCCccccC--ceeecCCcchhhhC
Confidence            78999999999999999966  48899999999998

>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=98.77  E-value=9.9e-10  Score=63.50  Aligned_cols=27  Identities=30%  Similarity=0.987  Sum_probs=26.3

Q ss_pred             CcccccCccccCceeecCCcccCcCCc
Q psy11345        112 PLCGQCYQQIRGPFITALGKIWCPDHF  138 (282)
Q Consensus       112 ~~C~~C~~~I~~~~v~~~~~~~H~~Cf  138 (282)
                      +.|.+|+++|.|++|.|+|+.||++||
T Consensus         9 pkC~~C~~~I~g~~v~Al~~~wHpeCF   35 (35)
T d1x3ha1           9 PKCGGCNRPVLENYLSAMDTVWHPECF   35 (35)
T ss_dssp             CBCTTTCCBCCSSCEEETTEEECTTTC
T ss_pred             hhhhhcCCcccchheeecCCccCcccC
Confidence            699999999999999999999999998

>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=98.74  E-value=2e-09  Score=62.05  Aligned_cols=34  Identities=41%  Similarity=0.827  Sum_probs=32.4

Q ss_pred             ccCCccCcccCCCCeeeeCCeecCHhhhhcccCC
Q psy11345        188 FTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTT  221 (282)
Q Consensus       188 f~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~  221 (282)
                      |+|+.|+++|.+..|++++|++||+.||.++|+|
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            7899999999998999999999999999999975

>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=98.63  E-value=4.1e-09  Score=59.49  Aligned_cols=34  Identities=35%  Similarity=0.732  Sum_probs=30.2

Q ss_pred             hhhhcccCCCCccCCCccccCCcEEEeCCcccccCCC
Q psy11345        213 NDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLCF  249 (282)
Q Consensus       213 ~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  249 (282)
                      .||.... .+|..|+++|.  |+++++.|+.||+.||
T Consensus         2 ~Cy~~tl-EkC~~C~~~I~--driLrA~Gk~yHP~CF   35 (35)
T d2dloa1           2 GCYVATL-EKCATCSQPIL--DRILRAMGKAYHPGCF   35 (35)
T ss_dssp             CCCCSSC-CBCTTTCCBCC--SCCEEETTEEECTTTC
T ss_pred             hhHHHHH-HHHHHhchHHH--HHHHHHhCCCCCCCCC
Confidence            4665554 89999999999  9999999999999998

>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=98.49  E-value=2.6e-08  Score=56.17  Aligned_cols=30  Identities=33%  Similarity=0.672  Sum_probs=27.8

Q ss_pred             CCCCcccccCccccCceeecCCcccCcCCc
Q psy11345        109 ARVPLCGQCYQQIRGPFITALGKIWCPDHF  138 (282)
Q Consensus       109 ~~~~~C~~C~~~I~~~~v~~~~~~~H~~Cf  138 (282)
                      ..+..|..|+++|.+++++|+|+.|||.||
T Consensus         6 ~tlEkC~~C~~~I~driLrA~Gk~yHP~CF   35 (35)
T d2dloa1           6 ATLEKCATCSQPILDRILRAMGKAYHPGCF   35 (35)
T ss_dssp             SSCCBCTTTCCBCCSCCEEETTEEECTTTC
T ss_pred             HHHHHHHHhchHHHHHHHHHhCCCCCCCCC
Confidence            345699999999999999999999999998

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

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Rhombotin-2 (Lmo2)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.44  E-value=5e-08  Score=53.06  Aligned_cols=27  Identities=30%  Similarity=0.748  Sum_probs=24.8

Q ss_pred             CCcccccCccccCce-eecCCcccCcCC
Q psy11345        111 VPLCGQCYQQIRGPF-ITALGKIWCPDH  137 (282)
Q Consensus       111 ~~~C~~C~~~I~~~~-v~~~~~~~H~~C  137 (282)
                      +..|++|+++|.++| ++++++.||.+|
T Consensus         3 ~~~CaGC~~~I~DRflL~a~Dr~WH~~C   30 (30)
T d1j2oa1           3 LLTCGGCQQNIGDRYFLKAIDQYWHEDC   30 (30)
T ss_dssp             CBCBSSSCSCBCSSEEEECSSSEECTTT
T ss_pred             CcccCCCCCcchHHHHHHHHHHHHhcCC
Confidence            468999999999997 699999999988

>d1u5sb1 g.39.1.3 (B:72-102) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.38  E-value=5.7e-08  Score=52.98  Aligned_cols=28  Identities=43%  Similarity=1.051  Sum_probs=25.8

Q ss_pred             CCCcccccCccccCceeecCCcccCcCC
Q psy11345        110 RVPLCGQCYQQIRGPFITALGKIWCPDH  137 (282)
Q Consensus       110 ~~~~C~~C~~~I~~~~v~~~~~~~H~~C  137 (282)
                      ..|+|+.|+++|.|+.|.|+|+.||+++
T Consensus         4 g~p~C~~C~~PI~~~~vtAlgk~WHpEH   31 (31)
T d1u5sb1           4 GVPICGACRRPIEGRVVNAMGKQWHVEH   31 (31)
T ss_dssp             CCCEETTTTEECCSCEECCTTSBEETTT
T ss_pred             CCcchhhcCCchhhhHhhhhccccCCCC
Confidence            4579999999999999999999999974

>d1rutx1 g.39.1.3 (X:19-48) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.33  E-value=7.8e-08  Score=52.50  Aligned_cols=28  Identities=21%  Similarity=0.507  Sum_probs=25.1

Q ss_pred             CCcccccCccccCce-eecCCcccCcCCc
Q psy11345        111 VPLCGQCYQQIRGPF-ITALGKIWCPDHF  138 (282)
Q Consensus       111 ~~~C~~C~~~I~~~~-v~~~~~~~H~~Cf  138 (282)
                      ...|++|+++|.++| ++++++.||.+|+
T Consensus         2 ~~~CaGC~~~I~DRflL~v~dr~WH~~CL   30 (30)
T d1rutx1           2 WKRCAGCGGKIADRFLLYAMDSYWHSRCL   30 (30)
T ss_dssp             CCBBTTTCCBCCCSEEEEETTEEECGGGC
T ss_pred             ccccCCCCCccchhhhhccchhhhhhhhC
Confidence            358999999999998 6999999999985

>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=1.7e-07  Score=55.99  Aligned_cols=28  Identities=29%  Similarity=0.529  Sum_probs=26.3

Q ss_pred             CCCCccCCCccccCCcEEEeCCcccccCCC
Q psy11345        220 TTKCFACGFPIEAGDRWVEALNNNYHSLCF  249 (282)
Q Consensus       220 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  249 (282)
                      .+.|..|+++|.  +++|.++|+.||++||
T Consensus        18 ~P~C~~C~~pI~--g~~vtAlgk~WHPEhF   45 (45)
T d2dara2          18 TPMCAHCNQVIR--GPFLVALGKSWHPEEF   45 (45)
T ss_dssp             CCBBSSSCCBCC--SCEEEETTEEECTTTC
T ss_pred             CeeccccCCccc--CceeeecCCccCcCCC
Confidence            478999999998  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=98.30  E-value=5.1e-08  Score=56.02  Aligned_cols=34  Identities=35%  Similarity=0.717  Sum_probs=32.0

Q ss_pred             cccccCCCCCCCCCCCceecCCccccccccccccCC
Q psy11345        138 FLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAP  173 (282)
Q Consensus       138 f~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~  173 (282)
                      |+|+  .|+++|.+..|++++|++||+.||.+++++
T Consensus         1 F~C~--~C~~~f~~~~F~e~~G~pYCe~~Y~~lFAP   34 (35)
T d1g47a2           1 FVCA--QCFQQFPEGLFYEFEGRKYCEHDFQMLFAP   34 (35)
T ss_dssp             CCCT--TTCCCCGGGCSEEETTEEECHHHHHHHCCC
T ss_pred             CCCC--CCcCCCCCCCeEEECCEecChHhHHhhcCC
Confidence            7898  999999999999999999999999998875

>d1v6ga1 g.39.1.3 (A:1-41) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.28  E-value=1.9e-07  Score=54.72  Aligned_cols=34  Identities=41%  Similarity=0.814  Sum_probs=31.5

Q ss_pred             hhhhcccCCCCccCCCccccCCcEEEeCCcccccCC
Q psy11345        213 NDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLC  248 (282)
Q Consensus       213 ~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~C  248 (282)
                      .+|+++|+.+|..|.+-|.  ..+|.+.++.||+.|
T Consensus         8 ~DYq~~fG~~C~~C~~~It--G~V~~Ag~~~yHP~C   41 (41)
T d1v6ga1           8 LDYQRLYGTRCFSCDQFIE--GEVVSALGKTYHPDC   41 (41)
T ss_dssp             SCGGGSCCCBCTTTCCBCC--SCCEEETTEEECTTT
T ss_pred             ccHHHHhCcccccccCEee--eeeeEecCcccCCCC
Confidence            4789999999999999997  679999999999998

>d2d8za2 g.39.1.3 (A:33-64) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.24  E-value=2.7e-07  Score=50.85  Aligned_cols=32  Identities=28%  Similarity=0.698  Sum_probs=29.8

Q ss_pred             cCCccCcccCCCCeeeeCCeecCHhhhhcccC
Q psy11345        189 TCAYCGKLFGNNPFFLEEGLPYCENDWNDLFT  220 (282)
Q Consensus       189 ~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~  220 (282)
                      .|..|+++|.+.+|.++|+++||..||..+|+
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            48899999999999999999999999999884

>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=98.21  E-value=3.7e-07  Score=47.35  Aligned_cols=27  Identities=33%  Similarity=0.701  Sum_probs=26.1

Q ss_pred             CccCCCccccCCcEEEeCCcccccCCC
Q psy11345        223 CFACGFPIEAGDRWVEALNNNYHSLCF  249 (282)
Q Consensus       223 C~~C~~~I~~~~~~~~~~~~~~H~~Cf  249 (282)
                      |..|.+.|.+|.+.+++.|..||..||
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            789999999999999999999999998

>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=98.19  E-value=6.8e-07  Score=54.70  Aligned_cols=41  Identities=29%  Similarity=0.566  Sum_probs=37.6

Q ss_pred             cCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCccCCCc
Q psy11345        189 TCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCFACGFP  229 (282)
Q Consensus       189 ~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~~C~~~  229 (282)
                      +|..|++.|+......+|+++||..||.++|+++..+.+..
T Consensus         1 KC~~C~k~Lds~t~~ehdg~~YCk~CY~k~fGPKG~g~G~g   41 (49)
T d1b8ta4           1 RCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKGFGFGQG   41 (49)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHTCCCCCCCCCC
T ss_pred             ChhhcCCccCCCcccccCCcccchhhhhhccCCCccCcccC
Confidence            69999999998888899999999999999999999987754

>d1x3ha2 g.39.1.3 (A:43-74) Leupaxin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Leupaxin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.18  E-value=3.8e-07  Score=50.55  Aligned_cols=31  Identities=29%  Similarity=0.680  Sum_probs=28.7

Q ss_pred             cCCccCcccCCCCeeeeCCeecCHhhhhccc
Q psy11345        189 TCAYCGKLFGNNPFFLEEGLPYCENDWNDLF  219 (282)
Q Consensus       189 ~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~  219 (282)
                      +|.+|.+++.+..||+.+|++||+.||+++.
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            5899999999999999999999999998864

>d2cuqa1 g.39.1.3 (A:43-74) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.06  E-value=1e-06  Score=47.76  Aligned_cols=32  Identities=25%  Similarity=0.632  Sum_probs=29.7

Q ss_pred             cCCccCcccCCCCeeeeCCeecCHhhhhcccC
Q psy11345        189 TCAYCGKLFGNNPFFLEEGLPYCENDWNDLFT  220 (282)
Q Consensus       189 ~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~  220 (282)
                      .|+.|+++|.+..|..+|+++||.+||..+|+
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

>d1u5sb1 g.39.1.3 (B:72-102) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.05  E-value=4.3e-07  Score=49.45  Aligned_cols=30  Identities=33%  Similarity=0.511  Sum_probs=26.8

Q ss_pred             cccCCCCccCCCccccCCcEEEeCCcccccCC
Q psy11345        217 DLFTTKCFACGFPIEAGDRWVEALNNNYHSLC  248 (282)
Q Consensus       217 ~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~C  248 (282)
                      +++.++|..|++||.  ++++.++++.||+++
T Consensus         2 kmg~p~C~~C~~PI~--~~~vtAlgk~WHpEH   31 (31)
T d1u5sb1           2 SMGVPICGACRRPIE--GRVVNAMGKQWHVEH   31 (31)
T ss_dssp             CCCCCEETTTTEECC--SCEECCTTSBEETTT
T ss_pred             CcCCcchhhcCCchh--hhHhhhhccccCCCC
Confidence            456789999999999  799999999999874

>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=98.04  E-value=1.2e-06  Score=48.78  Aligned_cols=28  Identities=32%  Similarity=0.684  Sum_probs=25.6

Q ss_pred             CCcccccCcccc-CceeecCCcccCcCCc
Q psy11345        111 VPLCGQCYQQIR-GPFITALGKIWCPDHF  138 (282)
Q Consensus       111 ~~~C~~C~~~I~-~~~v~~~~~~~H~~Cf  138 (282)
                      ...|++|+++|. |+.+.|+++.||.+||
T Consensus         8 ~~~CagCg~eik~gQaL~ALdkqWH~~CF   36 (36)
T d2dj7a2           8 PSHCAGCKEEIKHGQSLLALDKQWHVSCF   36 (36)
T ss_dssp             CSCCTTTCCCCSSSCCEEETTEEECTTTC
T ss_pred             CccccccchhhhCCceeeeeecceeeeeC
Confidence            358999999995 7999999999999998

>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=98.03  E-value=1e-06  Score=45.57  Aligned_cols=27  Identities=37%  Similarity=0.770  Sum_probs=26.0

Q ss_pred             CccCCCccccCCcEEEeCCcccccCCC
Q psy11345        223 CFACGFPIEAGDRWVEALNNNYHSLCF  249 (282)
Q Consensus       223 C~~C~~~I~~~~~~~~~~~~~~H~~Cf  249 (282)
                      |..|.+.|.+|.+.+++.|..||..||
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            789999999999999999999999998

>d1u5sb2 g.39.1.3 (B:103-137) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.02  E-value=2e-06  Score=47.26  Aligned_cols=34  Identities=41%  Similarity=0.891  Sum_probs=31.7

Q ss_pred             ccCCccCcccCCCCeeeeCCeecCHhhhhcccCC
Q psy11345        188 FTCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTT  221 (282)
Q Consensus       188 f~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~  221 (282)
                      |+|+.|.+++-+...|.+.|..||+.+|.++|+.
T Consensus         1 FvCA~CekPF~G~rhyE~~g~ayCe~Hy~qLfg~   34 (35)
T d1u5sb2           1 FVCAKCEKPFLGHRHYERKGLAYCETHYNQLFGD   34 (35)
T ss_dssp             CBCTTTCCBCSSSCCEEETTEEECHHHHHHHCSC
T ss_pred             CcccccCCccCCchhhhhcCchHHHHHHHHHhcc
Confidence            7899999999988899999999999999999863

>d1x4la1 g.39.1.3 (A:8-36) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.00  E-value=1.2e-06  Score=46.48  Aligned_cols=27  Identities=30%  Similarity=0.843  Sum_probs=24.7

Q ss_pred             CccCCCcccc--CCcEEEeCCcccccCCC
Q psy11345        223 CFACGFPIEA--GDRWVEALNNNYHSLCF  249 (282)
Q Consensus       223 C~~C~~~I~~--~~~~~~~~~~~~H~~Cf  249 (282)
                      |..|.+||+.  |.++|.+.++.||..||
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            7899999985  67999999999999998

>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=97.96  E-value=1.4e-06  Score=47.74  Aligned_cols=29  Identities=41%  Similarity=0.720  Sum_probs=27.2

Q ss_pred             CCCccCCCccccCCcEEEeCCcccccCCC
Q psy11345        221 TKCFACGFPIEAGDRWVEALNNNYHSLCF  249 (282)
Q Consensus       221 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  249 (282)
                      -.|.+|++.|.+.|.++++++..||..||
T Consensus         3 g~Ca~C~~~I~~~e~VmRA~~~VyHl~CF   31 (31)
T d1rutx3           3 GACSACGQSIPASELVMRAQGNVYHLKCF   31 (31)
T ss_dssp             EECTTTCCEECTTSEEEEETTEEECGGGC
T ss_pred             cccccccCcCChhHhheecccceeeeccC
Confidence            36999999999999999999999999998

>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=97.95  E-value=2.4e-06  Score=46.21  Aligned_cols=31  Identities=29%  Similarity=0.913  Sum_probs=27.7

Q ss_pred             cCCccCcccCCCCeeeeCCeecCHhhhhcccC
Q psy11345        189 TCAYCGKLFGNNPFFLEEGLPYCENDWNDLFT  220 (282)
Q Consensus       189 ~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~  220 (282)
                      +|..|++.|.+ +|..+||.+||+.+|+..|+
T Consensus         1 kC~~C~~vL~g-EYm~kdG~PyCe~DY~~~FG   31 (31)
T d2dj7a1           1 KCQTCSVILTG-EYISKDGVPYCESDYHAQFG   31 (31)
T ss_dssp             BCSSSCCBCSS-CCEEETTEEECTTHHHHHTT
T ss_pred             CccccCccccc-eeecCCCCcccHHHHHHhcC
Confidence            58999999975 78999999999999999874

>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=97.92  E-value=2.1e-06  Score=45.39  Aligned_cols=27  Identities=37%  Similarity=0.931  Sum_probs=24.7

Q ss_pred             CccCCCcccc--CCcEEEeCCcccccCCC
Q psy11345        223 CFACGFPIEA--GDRWVEALNNNYHSLCF  249 (282)
Q Consensus       223 C~~C~~~I~~--~~~~~~~~~~~~H~~Cf  249 (282)
                      |..|.+||+.  |.++|.+.++.||.+||
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            7899999984  67999999999999998

>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=97.85  E-value=3.1e-06  Score=44.81  Aligned_cols=25  Identities=28%  Similarity=0.682  Sum_probs=22.6

Q ss_pred             ccccCcccc----CceeecCCcccCcCCc
Q psy11345        114 CGQCYQQIR----GPFITALGKIWCPDHF  138 (282)
Q Consensus       114 C~~C~~~I~----~~~v~~~~~~~H~~Cf  138 (282)
                      |..|.++|+    ++||...++.||.+||
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            789999995    2689999999999998

>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=97.79  E-value=6.8e-06  Score=42.26  Aligned_cols=27  Identities=37%  Similarity=0.732  Sum_probs=24.8

Q ss_pred             CccCCCccccCCcEEEeCCcccccCCC
Q psy11345        223 CFACGFPIEAGDRWVEALNNNYHSLCF  249 (282)
Q Consensus       223 C~~C~~~I~~~~~~~~~~~~~~H~~Cf  249 (282)
                      |..|++||.+..+-+.+.+++||..||
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            788999999877888999999999998

>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=97.78  E-value=5.5e-06  Score=43.89  Aligned_cols=30  Identities=33%  Similarity=0.728  Sum_probs=27.6

Q ss_pred             ccCCccCcccCCCCeeeeCCeecCHhhhhc
Q psy11345        188 FTCAYCGKLFGNNPFFLEEGLPYCENDWND  217 (282)
Q Consensus       188 f~C~~C~~~l~~~~f~~~~~~~yC~~c~~~  217 (282)
                      |+|+.|++.|.......++|.+||+.||.+
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            799999999998888999999999999964

>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=97.76  E-value=5.5e-06  Score=48.89  Aligned_cols=34  Identities=29%  Similarity=0.734  Sum_probs=31.3

Q ss_pred             cCCccCcccCCCCeeeeCCeecCHhhhhcccCCC
Q psy11345        189 TCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTK  222 (282)
Q Consensus       189 ~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~  222 (282)
                      +|..|++.|..+.|...+|.+||+.||.++|.++
T Consensus         1 rC~~C~~~Ls~~~yas~~G~lYCkpHf~qLF~~k   34 (42)
T d2d8ya2           1 RCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSK   34 (42)
T ss_dssp             BCTTTCCBCCTTTCCCSSSCCCCHHHHHHHSCCC
T ss_pred             CcCcCCCCccCCcchhhCCEeccHHHHHHHHHhh
Confidence            6999999999999999999999999999999653

>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=97.75  E-value=7.9e-06  Score=44.42  Aligned_cols=32  Identities=31%  Similarity=0.650  Sum_probs=28.9

Q ss_pred             cCCccCcccCCCCeeeeCCeecCHhhhhcccC
Q psy11345        189 TCAYCGKLFGNNPFFLEEGLPYCENDWNDLFT  220 (282)
Q Consensus       189 ~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~  220 (282)
                      .|+.|+++|....|..+.|.+||+.||.+.|+
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            38899999999899999999999999998763

>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=97.72  E-value=4.6e-06  Score=44.41  Aligned_cols=27  Identities=26%  Similarity=0.639  Sum_probs=24.6

Q ss_pred             CcccccCcccc-CceeecCCcccCcCCc
Q psy11345        112 PLCGQCYQQIR-GPFITALGKIWCPDHF  138 (282)
Q Consensus       112 ~~C~~C~~~I~-~~~v~~~~~~~H~~Cf  138 (282)
                      +.|++|++.+. .+.|+.+|++||..||
T Consensus         3 ~~CaRC~k~VYp~Ekl~ClDk~WHK~CF   30 (30)
T d1zfoa_           3 PNCARCGKIVYPTEKVNCLDKFWHKACF   30 (30)
T ss_dssp             CBCSSSCSBCCGGGCCCSSSSCCCGGGC
T ss_pred             CcccccCCccccHHHhhhhHHHHhhccC
Confidence            58999999997 5789999999999998

>d1x6aa1 g.39.1.3 (A:8-41) Lim domain kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Lim domain kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.70  E-value=4.2e-06  Score=46.04  Aligned_cols=34  Identities=24%  Similarity=0.534  Sum_probs=30.1

Q ss_pred             hhhhcccCCCCccCCCccccCCcEEEeCCcccccCC
Q psy11345        213 NDWNDLFTTKCFACGFPIEAGDRWVEALNNNYHSLC  248 (282)
Q Consensus       213 ~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~C  248 (282)
                      ++|+.+|+..|.+|.+.|+  ..++.+.+..||++|
T Consensus         1 kdYw~kfge~C~~C~~~it--GpvMvAG~~K~HPEC   34 (34)
T d1x6aa1           1 KDYWGKFGEFCHGCSLLMT--GPFMVAGEFKYHPEC   34 (34)
T ss_dssp             CCSSCCSSCBCTTTCCBCC--SCCBCCTTCCBCTTS
T ss_pred             CcHHHHHHHHhhhhHhhcc--cceeeecccccCCCC
Confidence            3688999999999999887  568889999999998

>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=97.69  E-value=5.5e-06  Score=45.04  Aligned_cols=30  Identities=50%  Similarity=1.276  Sum_probs=27.9

Q ss_pred             cccCCCCCCCCCCCceecCCcccccccccccc
Q psy11345        140 CVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYL  171 (282)
Q Consensus       140 C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~  171 (282)
                      |+  .|+.+|.+.+|+++.|.+||+.||++.+
T Consensus         2 Ca--~C~~sL~d~gFVEE~g~lYCe~Cye~ff   31 (32)
T d2dara1           2 CA--HCKNTMAYIGFVEEKGALYCELCYEKFF   31 (32)
T ss_dssp             CS--SSCCBCSSSCBEESSSCEECHHHHHHHT
T ss_pred             cc--cccccHhhcceeeecCcEeHHHHHHHhc
Confidence            66  9999999999999999999999998865

>d1imla2 g.39.1.3 (A:29-76) Cysteine-rich (intestinal) protein, CRP, CRIP {Rat (Rattus rattus) [TaxId: 10117]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Rat (Rattus rattus) [TaxId: 10117]

Probab=97.64  E-value=1.4e-05  Score=48.10  Aligned_cols=34  Identities=32%  Similarity=0.719  Sum_probs=31.4

Q ss_pred             cCCccCcccCCCCeeeeCCeecC-HhhhhcccCCC
Q psy11345        189 TCAYCGKLFGNNPFFLEEGLPYC-ENDWNDLFTTK  222 (282)
Q Consensus       189 ~C~~C~~~l~~~~f~~~~~~~yC-~~c~~~~~~~~  222 (282)
                      +|..|++.|+......+++++|| ..||..+|+++
T Consensus         1 kC~~C~K~L~sg~~aeHdg~pYC~k~CY~~~FGPk   35 (48)
T d1imla2           1 KCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPK   35 (48)
T ss_dssp             BCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCC
T ss_pred             CchhcCcCcCCCChhhcCCcccccccchhhccCCC
Confidence            68999999999899999999999 66999999875

>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=97.57  E-value=2.3e-05  Score=42.59  Aligned_cols=32  Identities=16%  Similarity=0.519  Sum_probs=29.4

Q ss_pred             cCCccCcccCCCCeeeeCCeecCHhhhhcccC
Q psy11345        189 TCAYCGKLFGNNPFFLEEGLPYCENDWNDLFT  220 (282)
Q Consensus       189 ~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~  220 (282)
                      .|..|+.+|+++.|.-+++..||..||++.|+
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            38899999999999999999999999999874

>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=97.57  E-value=2.7e-05  Score=41.61  Aligned_cols=30  Identities=30%  Similarity=0.600  Sum_probs=26.8

Q ss_pred             cCCccCcccCCCCeeeeCCeecCHhhhhcc
Q psy11345        189 TCAYCGKLFGNNPFFLEEGLPYCENDWNDL  218 (282)
Q Consensus       189 ~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~  218 (282)
                      .|++|+..|....+|+.++++||+.|...+
T Consensus         1 vC~dCg~NLKqrG~Ffv~~~lyCE~HAr~R   30 (31)
T d1x64a2           1 VCADCNLNLKQKGYFFVEGELYCETHARAR   30 (31)
T ss_dssp             CCSSSCCCTTTSCCEEETTEEECHHHHHHH
T ss_pred             CccccccChhhcceEEeccEEeehhhhhcc
Confidence            489999999999999999999999998653

>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=97.56  E-value=8.2e-06  Score=43.07  Aligned_cols=25  Identities=32%  Similarity=0.737  Sum_probs=22.3

Q ss_pred             ccccCccccC----ceeecCCcccCcCCc
Q psy11345        114 CGQCYQQIRG----PFITALGKIWCPDHF  138 (282)
Q Consensus       114 C~~C~~~I~~----~~v~~~~~~~H~~Cf  138 (282)
                      |..|.++|+|    +||...++.||.+||
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            7889999952    689999999999998

>d1x63a1 g.39.1.3 (A:8-44) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.54  E-value=1.9e-05  Score=45.32  Aligned_cols=28  Identities=29%  Similarity=0.736  Sum_probs=25.1

Q ss_pred             CCcccccCcccc--CceeecCCcccCcCCc
Q psy11345        111 VPLCGQCYQQIR--GPFITALGKIWCPDHF  138 (282)
Q Consensus       111 ~~~C~~C~~~I~--~~~v~~~~~~~H~~Cf  138 (282)
                      .+.|.+|+++|.  ++.|.+.|+.||..||
T Consensus         8 a~~C~~C~k~I~~G~k~veykg~~WHe~CF   37 (37)
T d1x63a1           8 SPKCKGCFKAIVAGDQNVEYKGTVWHKDCF   37 (37)
T ss_dssp             SCBCSSSCCBCCSSSCEEECSSCEEETTTC
T ss_pred             CcccccCCCccCCCCeEeEeCCccchhccC
Confidence            358999999995  4789999999999998

>d1b8ta2 g.39.1.3 (A:36-100) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=97.51  E-value=2.5e-05  Score=50.36  Aligned_cols=36  Identities=17%  Similarity=0.368  Sum_probs=32.5

Q ss_pred             cCCccCcccCCCCeeeeCCeecCHhhhhcccCCCCc
Q psy11345        189 TCAYCGKLFGNNPFFLEEGLPYCENDWNDLFTTKCF  224 (282)
Q Consensus       189 ~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~~~C~  224 (282)
                      .|..|++.|+......+++++||+.||.++|+++=.
T Consensus         1 ~C~~C~K~LdS~~~~eh~~e~YCk~CY~k~fGPkG~   36 (65)
T d1b8ta2           1 LCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGK   36 (65)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHHSCCCC
T ss_pred             CchhcCCccCCCccccCCCcccchhhhccccCCCcc
Confidence            389999999998899999999999999999998633

>d2cu8a1 g.39.1.3 (A:8-37) Cysteine-rich (intestinal) protein, CRP, CRIP {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.51  E-value=1.8e-05  Score=42.69  Aligned_cols=27  Identities=22%  Similarity=0.520  Sum_probs=24.5

Q ss_pred             CcccccCcccc-CceeecCCcccCcCCc
Q psy11345        112 PLCGQCYQQIR-GPFITALGKIWCPDHF  138 (282)
Q Consensus       112 ~~C~~C~~~I~-~~~v~~~~~~~H~~Cf  138 (282)
                      +.|.+|++++. .+.+..+|+.||..|+
T Consensus         3 ~~CprC~K~VYfaEk~~~lgk~WHk~Cl   30 (30)
T d2cu8a1           3 SKCPKCDKTVYFAEKVSSLGKDWHKFCL   30 (30)
T ss_dssp             CBCTTTCCBCCTTTEEEETTEEEETTTC
T ss_pred             CcCCCCCCceeeHHhhccCCcccccccC
Confidence            58999999996 6889999999999985

>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=97.51  E-value=2.5e-05  Score=41.96  Aligned_cols=31  Identities=16%  Similarity=0.524  Sum_probs=28.5

Q ss_pred             CCccCcccCCCCeeeeCCeecCHhhhhcccC
Q psy11345        190 CAYCGKLFGNNPFFLEEGLPYCENDWNDLFT  220 (282)
Q Consensus       190 C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~  220 (282)
                      |..|++.|+......+++.+||+.||.+.|+
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            7899999999889999999999999998874

>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=97.48  E-value=3.6e-05  Score=41.73  Aligned_cols=32  Identities=25%  Similarity=0.692  Sum_probs=29.4

Q ss_pred             cCCccCcccCCCCeeeeCCeecCHhhhhcccC
Q psy11345        189 TCAYCGKLFGNNPFFLEEGLPYCENDWNDLFT  220 (282)
Q Consensus       189 ~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~  220 (282)
                      .|..|+.+|+.+.|.-+++..||..||+++|+
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

>d2d8za2 g.39.1.3 (A:33-64) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.45  E-value=1.9e-05  Score=43.32  Aligned_cols=31  Identities=32%  Similarity=0.729  Sum_probs=28.4

Q ss_pred             cccCCCCCCCCCCCceecCCccccccccccccC
Q psy11345        140 CVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLA  172 (282)
Q Consensus       140 C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~  172 (282)
                      |.  .|.++|..+.|..++++|||-.||..+++
T Consensus         2 C~--~C~~~L~GQry~~rd~~PyC~~Cf~~lfA   32 (32)
T d2d8za2           2 CT--ACRKQLSGQRFTARDDFAYCLNCFCDLYA   32 (32)
T ss_dssp             CS--SSCCBCTTSCCEESSSSEECHHHHHHHTC
T ss_pred             cc--cCCccccCceeeecCCCeehHHhhHhhcC
Confidence            66  89999999999999999999999988764

>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=97.44  E-value=1.6e-05  Score=43.88  Aligned_cols=30  Identities=23%  Similarity=0.588  Sum_probs=27.1

Q ss_pred             ccccCCCCCCCCCCCceecCCccccccccccc
Q psy11345        139 LCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQY  170 (282)
Q Consensus       139 ~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~  170 (282)
                      .|.  +|.+|+....||+.+|+|||+.+|.++
T Consensus         1 VC~--~C~~PF~~~~Fy~~~g~PyCe~HyH~~   30 (32)
T d1x3ha2           1 VCG--DCFTSFSTGSFFELDGRPFCELHYHHR   30 (32)
T ss_dssp             BCS--SSCCBSCSSCCEESSSCEECHHHHHHH
T ss_pred             CcC--ccCCcCCCCCeEeECCccchHHhhhhh
Confidence            366  999999999999999999999998764

>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=97.43  E-value=1.7e-05  Score=42.39  Aligned_cols=28  Identities=29%  Similarity=0.662  Sum_probs=25.4

Q ss_pred             cccCCCCCCCCCCCceecCCcccccccccc
Q psy11345        140 CVRPQCKRPLQDIGFVEEDSGLYCEFCFEQ  169 (282)
Q Consensus       140 C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~  169 (282)
                      |+  +|+.+|+++++|+.++++||+.+...
T Consensus         2 C~--dCg~NLKqrG~Ffv~~~lyCE~HAr~   29 (31)
T d1x64a2           2 CA--DCNLNLKQKGYFFVEGELYCETHARA   29 (31)
T ss_dssp             CS--SSCCCTTTSCCEEETTEEECHHHHHH
T ss_pred             cc--ccccChhhcceEEeccEEeehhhhhc
Confidence            67  99999999999999999999988643

>d2cu8a1 g.39.1.3 (A:8-37) Cysteine-rich (intestinal) protein, CRP, CRIP {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.39  E-value=6.1e-05  Score=40.57  Aligned_cols=29  Identities=24%  Similarity=0.651  Sum_probs=25.0

Q ss_pred             CCCCccCCCccccCCcEEEeCCcccccCCC
Q psy11345        220 TTKCFACGFPIEAGDRWVEALNNNYHSLCF  249 (282)
Q Consensus       220 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  249 (282)
                      .++|.+|++++.+.+ .+...|+.||..|.
T Consensus         2 ~~~CprC~K~VYfaE-k~~~lgk~WHk~Cl   30 (30)
T d2cu8a1           2 ASKCPKCDKTVYFAE-KVSSLGKDWHKFCL   30 (30)
T ss_dssp             CCBCTTTCCBCCTTT-EEEETTEEEETTTC
T ss_pred             CCcCCCCCCceeeHH-hhccCCcccccccC
Confidence            478999999999876 55688999999985

>d2cuqa2 g.39.1.3 (A:8-42) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.39  E-value=4.2e-05  Score=42.56  Aligned_cols=28  Identities=18%  Similarity=0.483  Sum_probs=25.6

Q ss_pred             CCcccccCccccCceeecCCcccCcCCc
Q psy11345        111 VPLCGQCYQQIRGPFITALGKIWCPDHF  138 (282)
Q Consensus       111 ~~~C~~C~~~I~~~~v~~~~~~~H~~Cf  138 (282)
                      .+.|.+|++.|+.--|...++.||.+||
T Consensus         8 a~~C~~Ckk~It~GGvtY~dqpWHkeCF   35 (35)
T d2cuqa2           8 APRCARCSKTLTQGGVTYRDQPWHRECL   35 (35)
T ss_dssp             SCCCTTTCCCCCSCCEESSSSEECTTTC
T ss_pred             HHHHhhcCCccccCceeecCCcchhhhC
Confidence            3689999999987789999999999998

>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=97.38  E-value=5.2e-05  Score=40.46  Aligned_cols=29  Identities=24%  Similarity=0.571  Sum_probs=26.8

Q ss_pred             cCCccCcccCCCCeeeeCCeecCHhhhhc
Q psy11345        189 TCAYCGKLFGNNPFFLEEGLPYCENDWND  217 (282)
Q Consensus       189 ~C~~C~~~l~~~~f~~~~~~~yC~~c~~~  217 (282)
                      .|..|++.|.+.+|...++++||.+||..
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            48999999999999999999999999964

>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=97.34  E-value=4.6e-05  Score=41.28  Aligned_cols=27  Identities=37%  Similarity=0.881  Sum_probs=23.3

Q ss_pred             CCCccCCCccccCCcEE-EeCCcccccCCC
Q psy11345        221 TKCFACGFPIEAGDRWV-EALNNNYHSLCF  249 (282)
Q Consensus       221 ~~C~~C~~~I~~~~~~~-~~~~~~~H~~Cf  249 (282)
                      ..|.+|+++|.  |+++ .+.++.||..|.
T Consensus         3 ~~CaGC~~~I~--DRflL~v~dr~WH~~CL   30 (30)
T d1rutx1           3 KRCAGCGGKIA--DRFLLYAMDSYWHSRCL   30 (30)
T ss_dssp             CBBTTTCCBCC--CSEEEEETTEEECGGGC
T ss_pred             cccCCCCCccc--hhhhhccchhhhhhhhC
Confidence            57999999999  7664 799999999884

>d2dj7a2 g.39.1.3 (A:8-43) Actin-binding LIM protein 3, abLIM-3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 3, abLIM-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.33  E-value=5.5e-05  Score=41.94  Aligned_cols=31  Identities=29%  Similarity=0.511  Sum_probs=27.5

Q ss_pred             CCccccccccccccCCceeeecCccccccCc
Q psy11345        158 DSGLYCEFCFEQYLAPDCLNAIGKHYHPECF  188 (282)
Q Consensus       158 ~~~~yC~~c~~~~~~~~~~~~~~~~~H~~Cf  188 (282)
                      .+...|..|.+++.....+.|+++.||.+||
T Consensus         6 ~g~~~CagCg~eik~gQaL~ALdkqWH~~CF   36 (36)
T d2dj7a2           6 RGPSHCAGCKEEIKHGQSLLALDKQWHVSCF   36 (36)
T ss_dssp             SSCSCCTTTCCCCSSSCCEEETTEEECTTTC
T ss_pred             cCCccccccchhhhCCceeeeeecceeeeeC
Confidence            4556788999999989999999999999998

>d1b8ta3 g.39.1.3 (A:101-143) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=97.32  E-value=4.3e-05  Score=45.54  Aligned_cols=28  Identities=25%  Similarity=0.634  Sum_probs=25.0

Q ss_pred             CCCccCCCccccCCcEEEeCCcccccCCC
Q psy11345        221 TKCFACGFPIEAGDRWVEALNNNYHSLCF  249 (282)
Q Consensus       221 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  249 (282)
                      .+|..|++.+.+.|++ .+.|+.||..||
T Consensus        16 ~kC~~C~k~VY~~E~~-~~~g~~~Hk~CF   43 (43)
T d1b8ta3          16 DGCPRCGQAVYAAEKV-IGAGKSWHKSCF   43 (43)
T ss_dssp             EECTTTSCEECSSSCE-EETTEEECTTTC
T ss_pred             CcCccCCCEeeHHHHh-hcCCCccccCCC
Confidence            6899999999987755 699999999998

>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=97.31  E-value=4.1e-05  Score=44.56  Aligned_cols=26  Identities=42%  Similarity=0.741  Sum_probs=24.7

Q ss_pred             CcccccCccccCceeecCCcccCcCC
Q psy11345        112 PLCGQCYQQIRGPFITALGKIWCPDH  137 (282)
Q Consensus       112 ~~C~~C~~~I~~~~v~~~~~~~H~~C  137 (282)
                      ..|..|++.|+|++|.|.++.|||.|
T Consensus        16 ~~C~~C~~~ItG~V~~Ag~~~yHP~C   41 (41)
T d1v6ga1          16 TRCFSCDQFIEGEVVSALGKTYHPDC   41 (41)
T ss_dssp             CBCTTTCCBCCSCCEEETTEEECTTT
T ss_pred             cccccccCEeeeeeeEecCcccCCCC
Confidence            38999999999999999999999998

>d1x62a2 g.39.1.3 (A:8-42) PDZ and LIM domain protein 1 Elfin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 1 Elfin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.31  E-value=6.1e-05  Score=41.32  Aligned_cols=27  Identities=26%  Similarity=0.577  Sum_probs=25.3

Q ss_pred             CCCccCCCccccCCcEEEeCCcccccCCC
Q psy11345        221 TKCFACGFPIEAGDRWVEALNNNYHSLCF  249 (282)
Q Consensus       221 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  249 (282)
                      +.|.+|+..|.  ..++.++++.+|++||
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            78999999999  6799999999999998

>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=97.29  E-value=1.9e-05  Score=41.95  Aligned_cols=29  Identities=28%  Similarity=0.658  Sum_probs=25.0

Q ss_pred             CCCCccCCCccccCCcEEEeCCcccccCCC
Q psy11345        220 TTKCFACGFPIEAGDRWVEALNNNYHSLCF  249 (282)
Q Consensus       220 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  249 (282)
                      .+.|++|++.+.+.+ .+.-.++.||..||
T Consensus         2 n~~CaRC~k~VYp~E-kl~ClDk~WHK~CF   30 (30)
T d1zfoa_           2 NPNCARCGKIVYPTE-KVNCLDKFWHKACF   30 (30)
T ss_dssp             CCBCSSSCSBCCGGG-CCCSSSSCCCGGGC
T ss_pred             CCcccccCCccccHH-HhhhhHHHHhhccC
Confidence            478999999999855 56789999999998

>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=97.29  E-value=2.1e-05  Score=41.58  Aligned_cols=30  Identities=27%  Similarity=0.902  Sum_probs=27.7

Q ss_pred             cccccCCCCCCCCCCCceecCCcccccccccc
Q psy11345        138 FLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQ  169 (282)
Q Consensus       138 f~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~  169 (282)
                      |+|+  .|++.|.......++|.+||+.||.+
T Consensus         1 frca--~cgk~lestt~adkdgeiyck~cyak   30 (31)
T d1ibia2           1 FRCA--KCGKSLESTTLTEKEGEIYCKGCYAK   30 (31)
T ss_dssp             EECS--SSCCEECSSCSEEETTEEECHHHHHH
T ss_pred             Cccc--cccCccccceeeccCCcEEEeeeeec
Confidence            7899  99999999999999999999999854

>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=97.29  E-value=3.3e-05  Score=42.28  Aligned_cols=33  Identities=27%  Similarity=0.716  Sum_probs=30.9

Q ss_pred             cccccCCCCCCCCCCCceecCCccccccccccccC
Q psy11345        138 FLCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLA  172 (282)
Q Consensus       138 f~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~  172 (282)
                      |.|+  .|.+|+-...++++.|..||+.+|.++++
T Consensus         1 FvCA--~CekPF~G~rhyE~~g~ayCe~Hy~qLfg   33 (35)
T d1u5sb2           1 FVCA--KCEKPFLGHRHYERKGLAYCETHYNQLFG   33 (35)
T ss_dssp             CBCT--TTCCBCSSSCCEEETTEEECHHHHHHHCS
T ss_pred             Cccc--ccCCccCCchhhhhcCchHHHHHHHHHhc
Confidence            7888  99999999999999999999999999875

>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=97.28  E-value=9.1e-05  Score=40.25  Aligned_cols=32  Identities=25%  Similarity=0.633  Sum_probs=28.6

Q ss_pred             cCCccCcccCCCCeeeeCCeecCHh-hhhcccC
Q psy11345        189 TCAYCGKLFGNNPFFLEEGLPYCEN-DWNDLFT  220 (282)
Q Consensus       189 ~C~~C~~~l~~~~f~~~~~~~yC~~-c~~~~~~  220 (282)
                      +|..|++.|..+....+++++||.. ||..+|+
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            5889999999999999999999976 9988774

>d2d8ya1 g.39.1.3 (A:9-43) Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Eplin, LIMA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.23  E-value=9.7e-05  Score=41.75  Aligned_cols=29  Identities=21%  Similarity=0.464  Sum_probs=25.7

Q ss_pred             CCCCccCCCccccCCcEEEeCCcccccCCC
Q psy11345        220 TTKCFACGFPIEAGDRWVEALNNNYHSLCF  249 (282)
Q Consensus       220 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  249 (282)
                      ..+|..|++.+.+-| .+.+.|+.||..||
T Consensus         7 ~~kC~~C~K~VY~~E-~~~a~g~~~Hk~CF   35 (35)
T d2d8ya1           7 RETCVECQKTVYPME-RLLANQQVFHISCF   35 (35)
T ss_dssp             SCBCTTTCCBCCTTS-EEECSSSEEETTTC
T ss_pred             CcccccCCCEEeeee-eEecCCeehhhccC
Confidence            468999999999866 66799999999998

>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=97.22  E-value=9.3e-05  Score=39.87  Aligned_cols=26  Identities=31%  Similarity=0.728  Sum_probs=22.6

Q ss_pred             CCCccCCCccccCCcE-EEeCCcccccCC
Q psy11345        221 TKCFACGFPIEAGDRW-VEALNNNYHSLC  248 (282)
Q Consensus       221 ~~C~~C~~~I~~~~~~-~~~~~~~~H~~C  248 (282)
                      ..|++|+++|.  |++ +.+.++.||..|
T Consensus         4 ~~CaGC~~~I~--DRflL~a~Dr~WH~~C   30 (30)
T d1j2oa1           4 LTCGGCQQNIG--DRYFLKAIDQYWHEDC   30 (30)
T ss_dssp             BCBSSSCSCBC--SSEEEECSSSEECTTT
T ss_pred             cccCCCCCcch--HHHHHHHHHHHHhcCC
Confidence            57999999999  766 479999999987

>d1x64a1 g.39.1.3 (A:8-52) PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 3, PDLIM3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.20  E-value=8.1e-05  Score=43.59  Aligned_cols=27  Identities=33%  Similarity=0.544  Sum_probs=25.4

Q ss_pred             CCCccCCCccccCCcEEEeCCcccccCCC
Q psy11345        221 TKCFACGFPIEAGDRWVEALNNNYHSLCF  249 (282)
Q Consensus       221 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  249 (282)
                      +.|.+|+..|.  ..++.++++.+|++||
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            78999999999  6799999999999998

>d1x61a2 g.39.1.3 (A:35-66) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.20  E-value=0.0001  Score=39.36  Aligned_cols=29  Identities=24%  Similarity=0.594  Sum_probs=26.6

Q ss_pred             cCCccCcccCCCCeeeeCCeecCHhhhhc
Q psy11345        189 TCAYCGKLFGNNPFFLEEGLPYCENDWND  217 (282)
Q Consensus       189 ~C~~C~~~l~~~~f~~~~~~~yC~~c~~~  217 (282)
                      .|.+|+..|++..||..+.+.||+.||..
T Consensus         1 vC~tC~~kLRGqpFYAvekkayCE~CYi~   29 (32)
T d1x61a2           1 VCSTCRAQLRGQHFYAVERRAYCEGCYVA   29 (32)
T ss_dssp             BCSSSCCBCTTSCEEESSSCEEEHHHHHH
T ss_pred             CeeEeCceecCCcceEeeccccccceeee
Confidence            48999999999999999999999999964

>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=97.18  E-value=2.7e-05  Score=41.72  Aligned_cols=30  Identities=27%  Similarity=0.590  Sum_probs=26.4

Q ss_pred             cCCccCcccCCCCeeeeCCeecCHhhhhcc
Q psy11345        189 TCAYCGKLFGNNPFFLEEGLPYCENDWNDL  218 (282)
Q Consensus       189 ~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~  218 (282)
                      .|++|+..|....+|+.++++||+.|...+
T Consensus         1 vC~dCg~NLKqrG~Ffve~~lyCE~HAr~r   30 (31)
T d1x62a1           1 VCTDCGTNLKQKGHFFVEDQIYCEKHARER   30 (31)
T ss_dssp             SCSSSCCCHHHHCCEESSSCEECHHHHHHH
T ss_pred             CccccccChhhcceEEeccEEehhhhhhhc
Confidence            489999999988888889999999998754

>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=97.08  E-value=7.4e-05  Score=40.33  Aligned_cols=31  Identities=35%  Similarity=0.872  Sum_probs=28.1

Q ss_pred             cccCCCCCCCCCCCceecCCccccccccccccC
Q psy11345        140 CVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLA  172 (282)
Q Consensus       140 C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~  172 (282)
                      |.  .|+++|..+.|..++..+||..|+-.+++
T Consensus         2 Ct--~Ck~~LaGqrFTSrde~pYC~~Cfg~LfA   32 (32)
T d2cuqa1           2 CT--GCQTPLAGQQFTSRDEDPYCVACFGELFA   32 (32)
T ss_dssp             CS--SSCCBCTTCCEEECSSSEEEHHHHHHHTT
T ss_pred             cc--ccCccccCCccccCCCCccHHHHhHhhcC
Confidence            66  99999999999999999999999987763

>d1b8ta3 g.39.1.3 (A:101-143) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=97.08  E-value=0.0002  Score=42.57  Aligned_cols=27  Identities=26%  Similarity=0.527  Sum_probs=24.7

Q ss_pred             CcccccCcccc-CceeecCCcccCcCCc
Q psy11345        112 PLCGQCYQQIR-GPFITALGKIWCPDHF  138 (282)
Q Consensus       112 ~~C~~C~~~I~-~~~v~~~~~~~H~~Cf  138 (282)
                      ..|..|++.|. -+.+.+.|+.||..||
T Consensus        16 ~kC~~C~k~VY~~E~~~~~g~~~Hk~CF   43 (43)
T d1b8ta3          16 DGCPRCGQAVYAAEKVIGAGKSWHKSCF   43 (43)
T ss_dssp             EECTTTSCEECSSSCEEETTEEECTTTC
T ss_pred             CcCccCCCEeeHHHHhhcCCCccccCCC
Confidence            68999999996 5788999999999998

>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=97.04  E-value=3e-05  Score=41.50  Aligned_cols=27  Identities=26%  Similarity=0.595  Sum_probs=24.9

Q ss_pred             cccCCCCCCCCCCCceecCCccccccccc
Q psy11345        140 CVRPQCKRPLQDIGFVEEDSGLYCEFCFE  168 (282)
Q Consensus       140 C~~~~C~~~l~~~~~~~~~~~~yC~~c~~  168 (282)
                      |+  +|+.+|+++++|+.++++||+.+..
T Consensus         2 C~--dCg~NLKqrG~Ffve~~lyCE~HAr   28 (31)
T d1x62a1           2 CT--DCGTNLKQKGHFFVEDQIYCEKHAR   28 (31)
T ss_dssp             CS--SSCCCHHHHCCEESSSCEECHHHHH
T ss_pred             cc--ccccChhhcceEEeccEEehhhhhh
Confidence            66  9999999999999999999998864

>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=97.02  E-value=0.00015  Score=41.16  Aligned_cols=29  Identities=24%  Similarity=0.493  Sum_probs=25.3

Q ss_pred             CCCCccCCCccccCCcEEEeCCcccccCCC
Q psy11345        220 TTKCFACGFPIEAGDRWVEALNNNYHSLCF  249 (282)
Q Consensus       220 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  249 (282)
                      ..+|..|++.+.+-++ +.+.|+.||..||
T Consensus         8 ~~~C~~C~K~VY~~Er-l~a~g~~yHk~CF   36 (36)
T d2co8a2           8 GDLCALCGEHLYVLER-LCVNGHFFHRSCF   36 (36)
T ss_dssp             SCBCSSSCCBCCTTTB-CCBTTBCCBTTTC
T ss_pred             CCcccccCCEEeeeeE-EEecCcEeccccC
Confidence            3689999999998764 4699999999998

>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=97.02  E-value=0.00013  Score=37.95  Aligned_cols=27  Identities=26%  Similarity=0.651  Sum_probs=23.0

Q ss_pred             CCCccCCCccccCCcEEEeCCcccccCC
Q psy11345        221 TKCFACGFPIEAGDRWVEALNNNYHSLC  248 (282)
Q Consensus       221 ~~C~~C~~~I~~~~~~~~~~~~~~H~~C  248 (282)
                      .+|.+|++.+.+.+++| ..|+.||..|
T Consensus         2 d~CpRC~~~VyaAEkvi-GaG~~WHk~C   28 (28)
T d1ibia1           2 EKCSRCGDSVYAAEKVI-GAGKPWHKNC   28 (28)
T ss_dssp             EECTTTSSEESSSSCEE-SSSSEECSSC
T ss_pred             CcCcccchhHHHHHHHh-cCCCccccCC
Confidence            47999999999877655 7889999987

>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=97.00  E-value=9.2e-05  Score=40.31  Aligned_cols=27  Identities=26%  Similarity=0.491  Sum_probs=23.5

Q ss_pred             CcccccCcccc--CceeecCCcccCcCCc
Q psy11345        112 PLCGQCYQQIR--GPFITALGKIWCPDHF  138 (282)
Q Consensus       112 ~~C~~C~~~I~--~~~v~~~~~~~H~~Cf  138 (282)
                      ..|.+|++.|.  +.+++|.+..||..||
T Consensus         3 g~Ca~C~~~I~~~e~VmRA~~~VyHl~CF   31 (31)
T d1rutx3           3 GACSACGQSIPASELVMRAQGNVYHLKCF   31 (31)
T ss_dssp             EECTTTCCEECTTSEEEEETTEEECGGGC
T ss_pred             cccccccCcCChhHhheecccceeeeccC
Confidence            37999999994  4567999999999998

>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=96.98  E-value=0.00019  Score=39.46  Aligned_cols=32  Identities=25%  Similarity=0.587  Sum_probs=28.2

Q ss_pred             cCCccCcccCCCCeeee-CCeecCHhhhhcccC
Q psy11345        189 TCAYCGKLFGNNPFFLE-EGLPYCENDWNDLFT  220 (282)
Q Consensus       189 ~C~~C~~~l~~~~f~~~-~~~~yC~~c~~~~~~  220 (282)
                      .|..|++.|.+-.|.+. ++++||..+|+++|+
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            48899999999889886 689999999999874

>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=96.91  E-value=0.00011  Score=44.58  Aligned_cols=37  Identities=22%  Similarity=0.766  Sum_probs=33.1

Q ss_pred             ccccCCCCCCCCCCCceecCCccccccccccccCCceee
Q psy11345        139 LCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDCLN  177 (282)
Q Consensus       139 ~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~~~~  177 (282)
                      +|.  .|++.|......++++++||+.||.++|+++.+.
T Consensus         1 KC~--~C~k~Lds~t~~ehdg~~YCk~CY~k~fGPKG~g   37 (49)
T d1b8ta4           1 RCA--KCGKSLESTTLADKDGEIYCKGCYAKNFGPKGFG   37 (49)
T ss_dssp             BCT--TTCCBCCSSSEEEETTEEEEHHHHHHHTCCCCCC
T ss_pred             Chh--hcCCccCCCcccccCCcccchhhhhhccCCCccC
Confidence            577  9999999999999999999999999999986543

>d1x63a2 g.39.1.3 (A:45-76) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.75  E-value=0.00059  Score=35.92  Aligned_cols=32  Identities=28%  Similarity=0.626  Sum_probs=28.8

Q ss_pred             cCCccCcccCCCCeeeeCCeecCHhhhhcccC
Q psy11345        189 TCAYCGKLFGNNPFFLEEGLPYCENDWNDLFT  220 (282)
Q Consensus       189 ~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~~~  220 (282)
                      .|+.|+..++.+.|+.+....||..|++..|+
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            48999999999999999999999999988763

>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=96.75  E-value=0.00022  Score=41.83  Aligned_cols=34  Identities=21%  Similarity=0.461  Sum_probs=30.9

Q ss_pred             ccccCCCCCCCCCCCceecCCccccccccccccCCc
Q psy11345        139 LCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPD  174 (282)
Q Consensus       139 ~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~  174 (282)
                      +|.  .|+..|+...|...+|.+||+.|++++|..+
T Consensus         1 rC~--~C~~~Ls~~~yas~~G~lYCkpHf~qLF~~k   34 (42)
T d2d8ya2           1 RCS--YCNNKLSLGTYASLHGRIYCKPHFNQLFKSK   34 (42)
T ss_dssp             BCT--TTCCBCCTTTCCCSSSCCCCHHHHHHHSCCC
T ss_pred             CcC--cCCCCccCCcchhhCCEeccHHHHHHHHHhh
Confidence            577  9999999999999999999999999998753

>d1wiga1 g.39.1.3 (A:1-32) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.72  E-value=0.00061  Score=36.20  Aligned_cols=26  Identities=27%  Similarity=0.469  Sum_probs=24.5

Q ss_pred             CcccccCccccCceeecCCcccCcCC
Q psy11345        112 PLCGQCYQQIRGPFITALGKIWCPDH  137 (282)
Q Consensus       112 ~~C~~C~~~I~~~~v~~~~~~~H~~C  137 (282)
                      .-|..|.+.|+|+++.|-++-|||.|
T Consensus         6 sgC~~C~~~ItGkVLEAG~khYHP~C   31 (32)
T d1wiga1           6 SGCDSCEKYITGRVLEAGEKHYHPSC   31 (32)
T ss_dssp             CSCSSSCCCCSSCCBCCSSCCBCTTT
T ss_pred             chhhhhhhhhhhhhhhccccccCCCC
Confidence            37999999999999999999999998

>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=96.60  E-value=0.00042  Score=35.42  Aligned_cols=25  Identities=20%  Similarity=0.534  Sum_probs=21.4

Q ss_pred             ccccCcccc-C-ceeecCCcccCcCCc
Q psy11345        114 CGQCYQQIR-G-PFITALGKIWCPDHF  138 (282)
Q Consensus       114 C~~C~~~I~-~-~~v~~~~~~~H~~Cf  138 (282)
                      |..|.++|. + .-+...+++||..||
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            778999994 3 558899999999998

>d1wiga1 g.39.1.3 (A:1-32) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.59  E-value=0.00031  Score=37.38  Aligned_cols=26  Identities=35%  Similarity=0.626  Sum_probs=23.8

Q ss_pred             CCCccCCCccccCCcEEEeCCcccccCC
Q psy11345        221 TKCFACGFPIEAGDRWVEALNNNYHSLC  248 (282)
Q Consensus       221 ~~C~~C~~~I~~~~~~~~~~~~~~H~~C  248 (282)
                      .-|..|.+.|+  .+++++.+++||+.|
T Consensus         6 sgC~~C~~~It--GkVLEAG~khYHP~C   31 (32)
T d1wiga1           6 SGCDSCEKYIT--GRVLEAGEKHYHPSC   31 (32)
T ss_dssp             CSCSSSCCCCS--SCCBCCSSCCBCTTT
T ss_pred             chhhhhhhhhh--hhhhhccccccCCCC
Confidence            56999999998  789999999999998

>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=96.58  E-value=0.00067  Score=38.16  Aligned_cols=27  Identities=15%  Similarity=0.296  Sum_probs=24.8

Q ss_pred             CcccccCcccc-CceeecCCcccCcCCc
Q psy11345        112 PLCGQCYQQIR-GPFITALGKIWCPDHF  138 (282)
Q Consensus       112 ~~C~~C~~~I~-~~~v~~~~~~~H~~Cf  138 (282)
                      ..|..|++.+. -+.+.+.|+.||..||
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            48999999996 5889999999999998

>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=96.49  E-value=0.00052  Score=35.24  Aligned_cols=25  Identities=28%  Similarity=0.652  Sum_probs=21.9

Q ss_pred             ccccCcccc-C-ceeecCCcccCcCCc
Q psy11345        114 CGQCYQQIR-G-PFITALGKIWCPDHF  138 (282)
Q Consensus       114 C~~C~~~I~-~-~~v~~~~~~~H~~Cf  138 (282)
                      |..|.+.|- | +.+...|..||..||
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            778999993 4 779999999999998

>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=96.48  E-value=0.00062  Score=34.86  Aligned_cols=25  Identities=24%  Similarity=0.624  Sum_probs=21.7

Q ss_pred             ccccCcccc-C-ceeecCCcccCcCCc
Q psy11345        114 CGQCYQQIR-G-PFITALGKIWCPDHF  138 (282)
Q Consensus       114 C~~C~~~I~-~-~~v~~~~~~~H~~Cf  138 (282)
                      |..|.+.|- | +.+...|..||..||
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            778999983 4 779999999999998

>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=96.46  E-value=0.00066  Score=37.09  Aligned_cols=26  Identities=27%  Similarity=0.598  Sum_probs=24.4

Q ss_pred             CcccccCccccCceeecCCcccCcCC
Q psy11345        112 PLCGQCYQQIRGPFITALGKIWCPDH  137 (282)
Q Consensus       112 ~~C~~C~~~I~~~~v~~~~~~~H~~C  137 (282)
                      ..|.+|.+.|+|.++.|-+..|||+|
T Consensus         9 e~C~~C~~~itGpvMvAG~~K~HPEC   34 (34)
T d1x6aa1           9 EFCHGCSLLMTGPFMVAGEFKYHPEC   34 (34)
T ss_dssp             CBCTTTCCBCCSCCBCCTTCCBCTTS
T ss_pred             HHhhhhHhhcccceeeecccccCCCC
Confidence            38999999999999999999999998

>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=96.41  E-value=0.00051  Score=36.90  Aligned_cols=31  Identities=23%  Similarity=0.542  Sum_probs=25.4

Q ss_pred             ccccCCCCCCCCCCCceecCCccccccccccccC
Q psy11345        139 LCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLA  172 (282)
Q Consensus       139 ~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~  172 (282)
                      +|.  .|+..|.. .|..++|.|||+.+|+..|+
T Consensus         1 kC~--~C~~vL~g-EYm~kdG~PyCe~DY~~~FG   31 (31)
T d2dj7a1           1 KCQ--TCSVILTG-EYISKDGVPYCESDYHAQFG   31 (31)
T ss_dssp             BCS--SSCCBCSS-CCEEETTEEECTTHHHHHTT
T ss_pred             Ccc--ccCccccc-eeecCCCCcccHHHHHHhcC
Confidence            466  88888865 78899999999999987653

>d2co8a2 g.39.1.3 (A:8-43) Nedd9 interacting protein with calponin homology, NICAL (MICAL1) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Nedd9 interacting protein with calponin homology, NICAL (MICAL1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.39  E-value=0.0011  Score=37.39  Aligned_cols=27  Identities=19%  Similarity=0.399  Sum_probs=24.6

Q ss_pred             CcccccCcccc-CceeecCCcccCcCCc
Q psy11345        112 PLCGQCYQQIR-GPFITALGKIWCPDHF  138 (282)
Q Consensus       112 ~~C~~C~~~I~-~~~v~~~~~~~H~~Cf  138 (282)
                      ..|..|++.+. -+.+.+.|+.||..||
T Consensus         9 ~~C~~C~K~VY~~Erl~a~g~~yHk~CF   36 (36)
T d2co8a2           9 DLCALCGEHLYVLERLCVNGHFFHRSCF   36 (36)
T ss_dssp             CBCSSSCCBCCTTTBCCBTTBCCBTTTC
T ss_pred             CcccccCCEEeeeeEEEecCcEeccccC
Confidence            49999999996 5789999999999998

>d1x4ka1 g.39.1.3 (A:35-66) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.33  E-value=0.00048  Score=37.28  Aligned_cols=30  Identities=27%  Similarity=0.828  Sum_probs=27.5

Q ss_pred             cccCCCCCCCCCCCceecCCcccccccccccc
Q psy11345        140 CVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYL  171 (282)
Q Consensus       140 C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~  171 (282)
                      |.  .|++||..+.|..+++..||..||++.|
T Consensus         2 C~--~C~qPIGtksfipk~~~~yCvpCyE~kf   31 (32)
T d1x4ka1           2 CH--RCQQPIGTKSFIPKDNQNFCVPCYEKQH   31 (32)
T ss_dssp             CS--SSCCCCCSSSEEEETTEEEEHHHHHHHT
T ss_pred             cc--cccCcccccccccCCCCceEeecchhhc
Confidence            56  8999999999999999999999998765

>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=96.15  E-value=0.00095  Score=36.12  Aligned_cols=31  Identities=26%  Similarity=0.718  Sum_probs=27.5

Q ss_pred             ccccCCCCCCCCCCCceecCCcccccc-cccccc
Q psy11345        139 LCVRPQCKRPLQDIGFVEEDSGLYCEF-CFEQYL  171 (282)
Q Consensus       139 ~C~~~~C~~~l~~~~~~~~~~~~yC~~-c~~~~~  171 (282)
                      +|.  .|.+-|...++.+.+|++||.. ||..+|
T Consensus         1 kCe--kC~ktL~~G~HaEH~gkPYC~~PCY~aLF   32 (33)
T d2cu8a2           1 KCE--RCSKTLTPGGHAEHDGKPFCHKPCYATLF   32 (33)
T ss_dssp             BCS--SSCCBCCTTSCEEETTEEECTTTHHHHHS
T ss_pred             Cch--hcccccCCCCccccCCCcCcCcchHHhhc
Confidence            477  8999999999999999999976 887765

>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=96.13  E-value=0.00088  Score=40.07  Aligned_cols=36  Identities=25%  Similarity=0.698  Sum_probs=31.9

Q ss_pred             ccccCCCCCCCCCCCceecCCcccc-ccccccccCCcee
Q psy11345        139 LCVRPQCKRPLQDIGFVEEDSGLYC-EFCFEQYLAPDCL  176 (282)
Q Consensus       139 ~C~~~~C~~~l~~~~~~~~~~~~yC-~~c~~~~~~~~~~  176 (282)
                      +|.  .|++.|....+.+.++++|| +.||..+|+++-+
T Consensus         1 kC~--~C~K~L~sg~~aeHdg~pYC~k~CY~~~FGPkG~   37 (48)
T d1imla2           1 KCE--KCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGF   37 (48)
T ss_dssp             BCT--TTCCBCCTTTEEEETTEEEETTTHHHHHSSCCCS
T ss_pred             Cch--hcCcCcCCCChhhcCCcccccccchhhccCCCcc
Confidence            577  89999999999999999999 7799999988644

>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=95.92  E-value=0.00093  Score=36.05  Aligned_cols=30  Identities=33%  Similarity=0.881  Sum_probs=27.4

Q ss_pred             cccCCCCCCCCCCCceecCCcccccccccccc
Q psy11345        140 CVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYL  171 (282)
Q Consensus       140 C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~  171 (282)
                      |.  .|.+|+..+.|..+++..||..||+..|
T Consensus         2 C~--~C~qPIGtkSFip~~~~~yCvpCYE~kf   31 (32)
T d1wyha1           2 CS--GCEQPLGSRSFVPDKGAHYCVPCYENKF   31 (32)
T ss_dssp             CT--TTCCBTTTSCEEEETTEEEEHHHHHHHT
T ss_pred             cc--cccCcccccccccCCCcEEEEecccccc
Confidence            56  8999999999999999999999998765

>d2cura1 g.39.1.3 (A:33-63) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.85  E-value=0.0013  Score=34.89  Aligned_cols=28  Identities=29%  Similarity=0.813  Sum_probs=25.8

Q ss_pred             cccCCCCCCCCCCCceecCCcccccccccc
Q psy11345        140 CVRPQCKRPLQDIGFVEEDSGLYCEFCFEQ  169 (282)
Q Consensus       140 C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~  169 (282)
                      |.  .|.+.|....|...+++.||-.||+.
T Consensus         2 C~--~C~K~Lag~rFTa~eDq~yCVdCYK~   29 (31)
T d2cura1           2 CV--TCSKKLAGQRFTAVEDQYYCVDCYKN   29 (31)
T ss_dssp             CT--TTCCBCTTSCEEECSSCEEEHHHHHH
T ss_pred             cc--cccchhcCceeEEecceEEEeeeecc
Confidence            66  89999999999999999999999975

>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=95.78  E-value=0.0022  Score=33.22  Aligned_cols=25  Identities=20%  Similarity=0.535  Sum_probs=21.7

Q ss_pred             cccccCcccc-CceeecCCcccCcCC
Q psy11345        113 LCGQCYQQIR-GPFITALGKIWCPDH  137 (282)
Q Consensus       113 ~C~~C~~~I~-~~~v~~~~~~~H~~C  137 (282)
                      .|.+|++.+. .+.|.--|+.||..|
T Consensus         3 ~CpRC~~~VyaAEkviGaG~~WHk~C   28 (28)
T d1ibia1           3 KCSRCGDSVYAAEKVIGAGKPWHKNC   28 (28)
T ss_dssp             ECTTTSSEESSSSCEESSSSEECSSC
T ss_pred             cCcccchhHHHHHHHhcCCCccccCC
Confidence            7999999996 577888899999987

>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=95.66  E-value=0.0036  Score=34.00  Aligned_cols=31  Identities=23%  Similarity=0.615  Sum_probs=26.0

Q ss_pred             ccCCccCcccCCCC-eeeeC-CeecCHhhhhcc
Q psy11345        188 FTCAYCGKLFGNNP-FFLEE-GLPYCENDWNDL  218 (282)
Q Consensus       188 f~C~~C~~~l~~~~-f~~~~-~~~yC~~c~~~~  218 (282)
                      |.|..|+..+++++ |.+.+ .++||..||.+.
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            78999999998877 77765 689999999763

>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=95.60  E-value=0.0024  Score=33.96  Aligned_cols=28  Identities=29%  Similarity=0.746  Sum_probs=25.4

Q ss_pred             cccCCCCCCCCCCCceecCCcccccccccc
Q psy11345        140 CVRPQCKRPLQDIGFVEEDSGLYCEFCFEQ  169 (282)
Q Consensus       140 C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~  169 (282)
                      |.  .|+..|..+.||-.+.+.||+.||..
T Consensus         2 C~--tC~~kLRGqpFYAvekkayCE~CYi~   29 (32)
T d1x61a2           2 CS--TCRAQLRGQHFYAVERRAYCEGCYVA   29 (32)
T ss_dssp             CS--SSCCBCTTSCEEESSSCEEEHHHHHH
T ss_pred             ee--EeCceecCCcceEeeccccccceeee
Confidence            56  89999999999999999999999853

>d1x61a1 g.39.1.3 (A:8-34) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.59  E-value=0.0034  Score=31.42  Aligned_cols=25  Identities=28%  Similarity=0.690  Sum_probs=21.6

Q ss_pred             ccccCcccc--CceeecCCcccCcCCc
Q psy11345        114 CGQCYQQIR--GPFITALGKIWCPDHF  138 (282)
Q Consensus       114 C~~C~~~I~--~~~v~~~~~~~H~~Cf  138 (282)
                      |.+|+.-+.  |.-|.++++.||..||
T Consensus         1 cggcgedvvgdgagvvaldrvfhvgcf   27 (27)
T d1x61a1           1 CGGCGEDVVGDGAGVVALDRVFHVGCF   27 (27)
T ss_dssp             CSSSCSCCCSSSCCEECSSSEECTTTC
T ss_pred             CCCcccccccCCcceEEEeeeEEeccC
Confidence            789999885  3569999999999998

>d1b8ta1 g.39.1.3 (A:1-35) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=95.57  E-value=0.0037  Score=33.79  Aligned_cols=28  Identities=18%  Similarity=0.390  Sum_probs=24.6

Q ss_pred             CCcccccCcccc-CceeecCCcccCcCCc
Q psy11345        111 VPLCGQCYQQIR-GPFITALGKIWCPDHF  138 (282)
Q Consensus       111 ~~~C~~C~~~I~-~~~v~~~~~~~H~~Cf  138 (282)
                      -..|..|++.+. .+-|...|++||..||
T Consensus         7 g~kcg~c~ktvy~aeevqc~g~sfhk~cf   35 (35)
T d1b8ta1           7 GKKCGVCQKAVYFAEEVQCEGSSFHKSCF   35 (35)
T ss_dssp             CEECTTTCCEECSSCCEEETTEEECTTTC
T ss_pred             CceeccccceEeeeeeeeecCcccccccC
Confidence            358999999996 5779999999999998

>d1a7ia1 g.39.1.3 (A:8-35) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]

Probab=95.57  E-value=0.0039  Score=31.91  Aligned_cols=27  Identities=33%  Similarity=0.698  Sum_probs=22.9

Q ss_pred             CCccCCCccccCCcEEEeCCcccccCCC
Q psy11345        222 KCFACGFPIEAGDRWVEALNNNYHSLCF  249 (282)
Q Consensus       222 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  249 (282)
                      +|..|.+.+.-.+ -+.-.|+.||..||
T Consensus         2 kcg~c~ktvy~ae-evqc~grsfhk~cf   28 (28)
T d1a7ia1           2 KCGACGRTVYHAE-EVQCDGRSFHRCCF   28 (28)
T ss_dssp             BCSSSCCBCSSTT-EEEETTEEEESSSE
T ss_pred             ccccccceEeeee-eeeecCceeccccC
Confidence            6899999998644 56799999999998

>d1b8ta1 g.39.1.3 (A:1-35) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=95.54  E-value=0.0035  Score=33.86  Aligned_cols=29  Identities=24%  Similarity=0.526  Sum_probs=24.1

Q ss_pred             CCCCccCCCccccCCcEEEeCCcccccCCC
Q psy11345        220 TTKCFACGFPIEAGDRWVEALNNNYHSLCF  249 (282)
Q Consensus       220 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  249 (282)
                      +.+|..|.+.+...+ -+...|+.||..||
T Consensus         7 g~kcg~c~ktvy~ae-evqc~g~sfhk~cf   35 (35)
T d1b8ta1           7 GKKCGVCQKAVYFAE-EVQCEGSSFHKSCF   35 (35)
T ss_dssp             CEECTTTCCEECSSC-CEEETTEEECTTTC
T ss_pred             CceeccccceEeeee-eeeecCcccccccC
Confidence            358999999998655 45689999999998

>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=95.48  E-value=0.0053  Score=33.54  Aligned_cols=27  Identities=11%  Similarity=0.394  Sum_probs=23.6

Q ss_pred             CCcccccCcccc--CceeecCCcccCcCC
Q psy11345        111 VPLCGQCYQQIR--GPFITALGKIWCPDH  137 (282)
Q Consensus       111 ~~~C~~C~~~I~--~~~v~~~~~~~H~~C  137 (282)
                      ...|.+|+..+.  .++|...|..||++|
T Consensus         7 ~~~C~RC~~gF~p~EkiVNSnGEl~H~qC   35 (35)
T d1g47a1           7 SATCERCKGGFAPAEKIVNSNGELYHEQC   35 (35)
T ss_dssp             CCBCSSSCCBCCSTTTCEEETTEEECTTT
T ss_pred             HHHHHHHccCCCchHHhhcCCCccccccC
Confidence            358999999984  678999999999988

>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=95.31  E-value=0.0018  Score=41.40  Aligned_cols=34  Identities=24%  Similarity=0.712  Sum_probs=30.9

Q ss_pred             cccCCCCCCCCCCCceecCCccccccccccccCCce
Q psy11345        140 CVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYLAPDC  175 (282)
Q Consensus       140 C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~~~~~  175 (282)
                      |.  .|.+.|....+...++.+||+.||.+.|+++-
T Consensus         2 C~--~C~K~LdS~~~~eh~~e~YCk~CY~k~fGPkG   35 (65)
T d1b8ta2           2 CM--VCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKG   35 (65)
T ss_dssp             CT--TTCCBCCSSSEEEETTEEEEHHHHHHHHSCCC
T ss_pred             ch--hcCCccCCCccccCCCcccchhhhccccCCCc
Confidence            66  89999999999999999999999999998753

>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=95.27  E-value=0.0076  Score=32.97  Aligned_cols=29  Identities=24%  Similarity=0.453  Sum_probs=26.3

Q ss_pred             CCCcccccCccccCceeecCCcccCcCCc
Q psy11345        110 RVPLCGQCYQQIRGPFITALGKIWCPDHF  138 (282)
Q Consensus       110 ~~~~C~~C~~~I~~~~v~~~~~~~H~~Cf  138 (282)
                      +.-+|.+|...|.++-++..+..|||..|
T Consensus         7 Gk~vC~KCh~iIdd~pL~Fr~d~YHp~HF   35 (35)
T d2cora2           7 GKYICQKCHAIIDEQPLIFKNDPYHPDHF   35 (35)
T ss_dssp             CCCBCTTTCCBCCSCCCCCSSSCCCTTTS
T ss_pred             hhHHHHHHHhhhhcCcceecCCCCCCCCC
Confidence            44699999999999999999999999987

>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=95.26  E-value=0.0054  Score=33.50  Aligned_cols=28  Identities=21%  Similarity=0.493  Sum_probs=25.6

Q ss_pred             CCCccCCCccccCCcEEEeCCcccccCC
Q psy11345        221 TKCFACGFPIEAGDRWVEALNNNYHSLC  248 (282)
Q Consensus       221 ~~C~~C~~~I~~~~~~~~~~~~~~H~~C  248 (282)
                      -.|.+|+....+.+++|.-.|..||..|
T Consensus         8 ~~C~RC~~gF~p~EkiVNSnGEl~H~qC   35 (35)
T d1g47a1           8 ATCERCKGGFAPAEKIVNSNGELYHEQC   35 (35)
T ss_dssp             CBCSSSCCBCCSTTTCEEETTEEECTTT
T ss_pred             HHHHHHccCCCchHHhhcCCCccccccC
Confidence            4799999999999999999999999987

>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=94.55  E-value=0.016  Score=30.40  Aligned_cols=28  Identities=21%  Similarity=0.439  Sum_probs=24.9

Q ss_pred             cCCccCcccCCCCeeeeCCeecCHhhhh
Q psy11345        189 TCAYCGKLFGNNPFFLEEGLPYCENDWN  216 (282)
Q Consensus       189 ~C~~C~~~l~~~~f~~~~~~~yC~~c~~  216 (282)
                      +|..|=.+|....|..++++++|..|..
T Consensus         1 RCaKC~hpLA~E~F~aKd~kI~C~Kc~s   28 (31)
T d2cupa2           1 RCAKCLHPLANETFVAKDNKILCNKCTT   28 (31)
T ss_dssp             CCSSSCCCTTSSCCEEETTEEECHHHHT
T ss_pred             CchhhccccccCcccccCCeEeeccccc
Confidence            5888999999988999999999999863

>d1rutx4 g.39.1.3 (X:114-146) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.41  E-value=0.016  Score=30.73  Aligned_cols=27  Identities=30%  Similarity=0.637  Sum_probs=22.1

Q ss_pred             cCCccCcccCCCC-eeeeCCeecCHhhh
Q psy11345        189 TCAYCGKLFGNNP-FFLEEGLPYCENDW  215 (282)
Q Consensus       189 ~C~~C~~~l~~~~-f~~~~~~~yC~~c~  215 (282)
                      .|++|..+|..++ |...+|.+||+.+.
T Consensus         1 tC~tC~n~LVPGDRFHyvNG~lfCE~D~   28 (33)
T d1rutx4           1 TCSTCRNRLVPGDRFHYINGSLFCEHDR   28 (33)
T ss_dssp             BCTTTCCBCCTTCEEEEETTEEEEGGGC
T ss_pred             CcccccccccCCceeEEecCEEEEecCC
Confidence            4889998885555 88999999999874

>d1wiga2 g.39.1.3 (A:33-73) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.38  E-value=0.0083  Score=33.99  Aligned_cols=26  Identities=23%  Similarity=0.579  Sum_probs=14.3

Q ss_pred             CccCCCccccCCcEEEeCCcccccCC
Q psy11345        223 CFACGFPIEAGDRWVEALNNNYHSLC  248 (282)
Q Consensus       223 C~~C~~~I~~~~~~~~~~~~~~H~~C  248 (282)
                      |.+|++....|+....-...+||+.|
T Consensus         2 C~rC~~mF~EGEEMYLQGs~IWHP~C   27 (41)
T d1wiga2           2 CVRCGQMFAEGEEMYLQGSSIWHPAC   27 (41)
T ss_dssp             CSSSCCCCCSSCCCEEETTEEECTTH
T ss_pred             cchhhccccccceeeecCCceeCCcc
Confidence            55566555555544444555666555

>d1x61a1 g.39.1.3 (A:8-34) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.26  E-value=0.015  Score=28.99  Aligned_cols=27  Identities=33%  Similarity=0.618  Sum_probs=20.9

Q ss_pred             CccCCCccccCCcEEEeCCcccccCCC
Q psy11345        223 CFACGFPIEAGDRWVEALNNNYHSLCF  249 (282)
Q Consensus       223 C~~C~~~I~~~~~~~~~~~~~~H~~Cf  249 (282)
                      |.+|++-+....--+.+.++.||..||
T Consensus         1 cggcgedvvgdgagvvaldrvfhvgcf   27 (27)
T d1x61a1           1 CGGCGEDVVGDGAGVVALDRVFHVGCF   27 (27)
T ss_dssp             CSSSCSCCCSSSCCEECSSSEECTTTC
T ss_pred             CCCcccccccCCcceEEEeeeEEeccC
Confidence            778888776433346799999999998

>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=94.25  E-value=0.01  Score=30.31  Aligned_cols=26  Identities=19%  Similarity=0.427  Sum_probs=23.2

Q ss_pred             cccccCcccc-CceeecCCcccCcCCc
Q psy11345        113 LCGQCYQQIR-GPFITALGKIWCPDHF  138 (282)
Q Consensus       113 ~C~~C~~~I~-~~~v~~~~~~~H~~Cf  138 (282)
                      .|+.|++.+. .+-|...|++||..||
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            6899999996 5789999999999998

>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=93.25  E-value=0.026  Score=31.89  Aligned_cols=25  Identities=16%  Similarity=0.186  Sum_probs=23.1

Q ss_pred             CCCCCCCCCCCCcccccCCceecCC
Q psy11345        251 CSSPSSPALSGAKPYGTQNTIKSTS  275 (282)
Q Consensus       251 C~~C~~~l~~g~~~~~~~~~~~~~~  275 (282)
                      |..|+.+|.+|++.|+..+.+|+-+
T Consensus         2 C~rC~~mF~EGEEMYLQGs~IWHP~   26 (41)
T d1wiga2           2 CVRCGQMFAEGEEMYLQGSSIWHPA   26 (41)
T ss_dssp             CSSSCCCCCSSCCCEEETTEEECTT
T ss_pred             cchhhccccccceeeecCCceeCCc
Confidence            8999999999999999999999764

>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=93.23  E-value=0.013  Score=30.65  Aligned_cols=31  Identities=26%  Similarity=0.670  Sum_probs=26.9

Q ss_pred             ccccCCCCCCCCCCCceecCCcccccccccccc
Q psy11345        139 LCVRPQCKRPLQDIGFVEEDSGLYCEFCFEQYL  171 (282)
Q Consensus       139 ~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~~~~  171 (282)
                      +|+  .|.+-+....||.++...||..|.+..+
T Consensus         1 tcs--~ckq~igsgsffpkg~d~ycvtche~kf   31 (32)
T d1x63a2           1 TCS--NCKQVIGTGSFFPKGEDFYCVTCHETKF   31 (32)
T ss_dssp             CCS--SSCCCCTTSCEEEETTEEEEHHHHHHHT
T ss_pred             Ccc--hhhhhcccccccCCCCcEEEEEeecccc
Confidence            466  9999999999999999999999987644

>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=93.17  E-value=0.011  Score=32.02  Aligned_cols=32  Identities=28%  Similarity=0.745  Sum_probs=26.2

Q ss_pred             cCCccCcccCC--CCeeeeCCeecCHhhhhcccC
Q psy11345        189 TCAYCGKLFGN--NPFFLEEGLPYCENDWNDLFT  220 (282)
Q Consensus       189 ~C~~C~~~l~~--~~f~~~~~~~yC~~c~~~~~~  220 (282)
                      +|+-|+.+|.+  ...|.+.+.++|+.+|.++|+
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            57788888853  448899999999999998874

>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=92.05  E-value=0.017  Score=30.62  Aligned_cols=28  Identities=21%  Similarity=0.665  Sum_probs=24.4

Q ss_pred             CCCCCCCCCCceecCCcccccccccccc
Q psy11345        144 QCKRPLQDIGFVEEDSGLYCEFCFEQYL  171 (282)
Q Consensus       144 ~C~~~l~~~~~~~~~~~~yC~~c~~~~~  171 (282)
                      .|++.|........++.+||+.||-+.+
T Consensus         4 ~C~K~LdStTva~h~~eiYCKsCygkky   31 (32)
T d1a7ia2           4 VCRKNLDSTTVAIHDAEVYCKSCYGKKY   31 (32)
T ss_dssp             SSCCEECSSCCEEETTEEECSHHHHHHC
T ss_pred             hhhhccCcceeeeecceEEehhhccccC
Confidence            7889998888889999999999996543

>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=91.76  E-value=0.036  Score=29.04  Aligned_cols=28  Identities=32%  Similarity=0.808  Sum_probs=24.8

Q ss_pred             ccccCCCCCCCCCCCceecCCccccccccc
Q psy11345        139 LCVRPQCKRPLQDIGFVEEDSGLYCEFCFE  168 (282)
Q Consensus       139 ~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~  168 (282)
                      +|+  .|-.||....|..++++++|.+|..
T Consensus         1 RCa--KC~hpLA~E~F~aKd~kI~C~Kc~s   28 (31)
T d2cupa2           1 RCA--KCLHPLANETFVAKDNKILCNKCTT   28 (31)
T ss_dssp             CCS--SSCCCTTSSCCEEETTEEECHHHHT
T ss_pred             Cch--hhccccccCcccccCCeEeeccccc
Confidence            477  8999999999999999999998854

>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=91.21  E-value=0.11  Score=27.07  Aligned_cols=29  Identities=28%  Similarity=0.525  Sum_probs=23.1

Q ss_pred             cCCccCcccCCCCeeeeCCeecCHhhhhcc
Q psy11345        189 TCAYCGKLFGNNPFFLEEGLPYCENDWNDL  218 (282)
Q Consensus       189 ~C~~C~~~l~~~~f~~~~~~~yC~~c~~~~  218 (282)
                      .|+.|++.|.... ....+.+||..|+.++
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            3889999997644 4667899999998765

>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=90.46  E-value=0.045  Score=29.80  Aligned_cols=27  Identities=26%  Similarity=0.388  Sum_probs=23.3

Q ss_pred             CCCccCCCccccCCcEEEeCCcccccCCC
Q psy11345        221 TKCFACGFPIEAGDRWVEALNNNYHSLCF  249 (282)
Q Consensus       221 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  249 (282)
                      ..|..|...|.  |.-+.+++..||+..|
T Consensus         9 ~vC~KCh~iId--d~pL~Fr~d~YHp~HF   35 (35)
T d2cora2           9 YICQKCHAIID--EQPLIFKNDPYHPDHF   35 (35)
T ss_dssp             CBCTTTCCBCC--SCCCCCSSSCCCTTTS
T ss_pred             HHHHHHHhhhh--cCcceecCCCCCCCCC
Confidence            47999999998  6778899999999887

>d1x4la2 g.39.1.3 (A:37-66) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.87  E-value=0.074  Score=27.23  Aligned_cols=27  Identities=26%  Similarity=0.589  Sum_probs=23.7

Q ss_pred             CCCCCCCCCCceecCCccccccccccc
Q psy11345        144 QCKRPLQDIGFVEEDSGLYCEFCFEQY  170 (282)
Q Consensus       144 ~C~~~l~~~~~~~~~~~~yC~~c~~~~  170 (282)
                      .|...|...+|....+.++|..|.+.+
T Consensus         4 kcsvslvgrgflterddilc~dcgkdi   30 (30)
T d1x4la2           4 KCSLSLVGRGFLTERDDILCPDCGKDI   30 (30)
T ss_dssp             SSCCBCTTSCCEECSSSEECHHHHHTC
T ss_pred             eeeEEEEeeeccccccceeccccCcCC
Confidence            788999999999999999999998653

>d1v6ga2 g.39.1.3 (A:42-81) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.54  E-value=0.2  Score=27.77  Aligned_cols=29  Identities=21%  Similarity=0.316  Sum_probs=20.7

Q ss_pred             ccCCccCcccCCCC-eeeeCCeecCHhhhh
Q psy11345        188 FTCAYCGKLFGNNP-FFLEEGLPYCENDWN  216 (282)
Q Consensus       188 f~C~~C~~~l~~~~-f~~~~~~~yC~~c~~  216 (282)
                      |.|+.|++++..++ ..+.....+|..|..
T Consensus         1 FvC~vCr~pFP~GDRVTFnGKeC~CQ~Cs~   30 (40)
T d1v6ga2           1 FVCAVCRLPFPPGDRVTFNGKECMCQKCSL   30 (40)
T ss_dssp             SSCSSSCCCCCSSSCEEEETTEEEEHHHHS
T ss_pred             CcccccCCCCCCCCeEEEcCceeehhhcCC
Confidence            78888988887665 555566677777753

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.41  E-value=0.19  Score=34.35  Aligned_cols=44  Identities=25%  Similarity=0.495  Sum_probs=33.3

Q ss_pred             ccCCccCcccCCCCeee-eCCeecCHhhhhcccCCCCccCCCcccc
Q psy11345        188 FTCAYCGKLFGNNPFFL-EEGLPYCENDWNDLFTTKCFACGFPIEA  232 (282)
Q Consensus       188 f~C~~C~~~l~~~~f~~-~~~~~yC~~c~~~~~~~~C~~C~~~I~~  232 (282)
                      +.|..|...+.. .... .=|..||..|..+.+..+|..|+.++..
T Consensus        23 l~C~IC~~~~~~-pv~~~~CgH~fC~~Ci~~~~~~~CP~Cr~~~~~   67 (97)
T d1jm7b_          23 LRCSRCTNILRE-PVCLGGCEHIFCSNCVSDCIGTGCPVCYTPAWI   67 (97)
T ss_dssp             TSCSSSCSCCSS-CBCCCSSSCCBCTTTGGGGTTTBCSSSCCBCSC
T ss_pred             CCCccCCchhhc-CceeCCCCCchhHHHHHHHHhccccccCCcCch
Confidence            678888887754 2333 3488899999888888889999988764

>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=87.95  E-value=0.26  Score=25.88  Aligned_cols=29  Identities=21%  Similarity=0.512  Sum_probs=25.5

Q ss_pred             cCCccCcccCCCCeeeeCCeecCHhhhhc
Q psy11345        189 TCAYCGKLFGNNPFFLEEGLPYCENDWND  217 (282)
Q Consensus       189 ~C~~C~~~l~~~~f~~~~~~~yC~~c~~~  217 (282)
                      +|..|...|.+..|...-|+.+|..|..+
T Consensus         1 rC~~C~~~LAD~GFvKnagR~LCrpch~r   29 (32)
T d2d8xa1           1 RCDLCQEVLADIGFVKNAGRHLCRPCHNR   29 (32)
T ss_dssp             BCSSSCCBCSSSCCEEETTEEECHHHHHH
T ss_pred             CchHHHhHHHHhhhhhcccccccchhhhh
Confidence            58999999999889888999999999743

>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=87.61  E-value=0.093  Score=28.39  Aligned_cols=31  Identities=32%  Similarity=0.610  Sum_probs=25.3

Q ss_pred             ccccCCCCCCCCCCCce-ecCCcccccccccccc
Q psy11345        139 LCVRPQCKRPLQDIGFV-EEDSGLYCEFCFEQYL  171 (282)
Q Consensus       139 ~C~~~~C~~~l~~~~~~-~~~~~~yC~~c~~~~~  171 (282)
                      +|.  .|+..|....|. ...+++||-.+|.+.+
T Consensus         1 tCv--vC~~~LDGvPFtvD~~n~i~Cv~DyHrkf   32 (33)
T d2dloa2           1 TCV--VCHRGLDGIPFTVDATSQIHCIEDFHRKF   32 (33)
T ss_dssp             BCS--SSCCBCTTSCEECCTTCCCEEHHHHHHHT
T ss_pred             Cee--EcCcccCCCcEEEcCCCCEeehhhhhhhc
Confidence            466  899999988886 5678999999988765

>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=87.23  E-value=0.2  Score=26.39  Aligned_cols=26  Identities=15%  Similarity=0.411  Sum_probs=22.3

Q ss_pred             CCccCcccCCCCeeeeCCeecCHhhh
Q psy11345        190 CAYCGKLFGNNPFFLEEGLPYCENDW  215 (282)
Q Consensus       190 C~~C~~~l~~~~f~~~~~~~yC~~c~  215 (282)
                      |..|...|.+..|.-....++|.+|-
T Consensus         2 cgkcsvslvg~gfltq~~~i~c~~cg   27 (34)
T d1x68a2           2 CGKCSVSLVGKGFLTQNKEIFCQKCG   27 (34)
T ss_dssp             CTTTCCBCSSSCEEEETTEEEETTTT
T ss_pred             CccceEEEEeeeeeeccCcEEehhcC
Confidence            77888999988898888899998874

>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=85.78  E-value=0.18  Score=26.54  Aligned_cols=23  Identities=22%  Similarity=0.534  Sum_probs=12.2

Q ss_pred             CCCCCCCCCCCCcccccCCceecCCCeeec
Q psy11345        251 CSSPSSPALSGAKPYGTQNTIKSTSGTIVC  280 (282)
Q Consensus       251 C~~C~~~l~~g~~~~~~~~~~~~~~g~~~C  280 (282)
                      |+.|...|..|+.|-       -.||++||
T Consensus         2 C~tC~n~LVPGDRFH-------yvNG~lfC   24 (33)
T d1rutx4           2 CSTCRNRLVPGDRFH-------YINGSLFC   24 (33)
T ss_dssp             CTTTCCBCCTTCEEE-------EETTEEEE
T ss_pred             cccccccccCCceeE-------EecCEEEE
Confidence            556666655555443       34555555

>d1x4la2 g.39.1.3 (A:37-66) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.22  E-value=0.38  Score=24.47  Aligned_cols=27  Identities=19%  Similarity=0.328  Sum_probs=22.6

Q ss_pred             CCccCcccCCCCeeeeCCeecCHhhhh
Q psy11345        190 CAYCGKLFGNNPFFLEEGLPYCENDWN  216 (282)
Q Consensus       190 C~~C~~~l~~~~f~~~~~~~yC~~c~~  216 (282)
                      |..|...|.+..|.-..+.++|.+|-.
T Consensus         2 c~kcsvslvgrgflterddilc~dcgk   28 (30)
T d1x4la2           2 CKKCSLSLVGRGFLTERDDILCPDCGK   28 (30)
T ss_dssp             CSSSCCBCTTSCCEECSSSEECHHHHH
T ss_pred             cceeeEEEEeeeccccccceeccccCc
Confidence            677888998888888778899999854

>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=82.34  E-value=0.24  Score=26.02  Aligned_cols=28  Identities=36%  Similarity=0.781  Sum_probs=24.8

Q ss_pred             ccccCCCCCCCCCCCceecCCccccccccc
Q psy11345        139 LCVRPQCKRPLQDIGFVEEDSGLYCEFCFE  168 (282)
Q Consensus       139 ~C~~~~C~~~l~~~~~~~~~~~~yC~~c~~  168 (282)
                      +|.  -|+..|.+.+|....|+.+|..|..
T Consensus         1 rC~--~C~~~LAD~GFvKnagR~LCrpch~   28 (32)
T d2d8xa1           1 RCD--LCQEVLADIGFVKNAGRHLCRPCHN   28 (32)
T ss_dssp             BCS--SSCCBCSSSCCEEETTEEECHHHHH
T ss_pred             Cch--HHHhHHHHhhhhhcccccccchhhh
Confidence            466  8999999999999999999998864

>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=81.81  E-value=0.37  Score=25.35  Aligned_cols=26  Identities=23%  Similarity=0.690  Sum_probs=23.0

Q ss_pred             CCCCCCCCCCceecCCcccccccccc
Q psy11345        144 QCKRPLQDIGFVEEDSGLYCEFCFEQ  169 (282)
Q Consensus       144 ~C~~~l~~~~~~~~~~~~yC~~c~~~  169 (282)
                      .|+.+|...+|...+..++|..|..-
T Consensus         4 kcsvslvg~gfltq~~~i~c~~cgsg   29 (34)
T d1x68a2           4 KCSVSLVGKGFLTQNKEIFCQKCGSG   29 (34)
T ss_dssp             TTCCBCSSSCEEEETTEEEETTTTCC
T ss_pred             cceEEEEeeeeeeccCcEEehhcCCC
Confidence            88899999999999999999998754