Psyllid ID: psy8131

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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-------20
Protein Sequence
MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKLM
Secondary Structure (PSIPRED)
cEEccccccccccccccccccccccccEEcccccccHHHHHHHHcccccccccccccccccccccccccccccHHHHHcccEEEEEccccEEEcccccccccccccccccccccccEEEEccccccHHHHHHHcccccccccccEEccccccEEEEccccccccccccccccccccccccEEcccccccHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccccccccccccEEEEEcccccccccEEEcccccccHHHHHHHHcccHcccccccccHHcccccccccccccccccccHHHccccccccEEEEcccccccccEEEEEccccccccccEccccccccHHHHHHHHcHHHccccccccccccHHHEHHcccccccccEEEEHccccccccccEccccccccHHHHHHHcc
Coil and Loop (DISEMBL)
meyktrqwhekcfacvvcktpigtksfipreqEIYCANCYEEKFATRCVKCNKTFFRlrekgtfqshsgriNKVYSILFYFLFQIITsggvtyknepwhrecftcsncstslagqrftsredkpfcADCFGELfakrcysckkpitgiggtrfisfedrhwhndcfmcascqsslvgrgfitdgediicpdcakaklm
Flexible Loop (DISEMBL)
meyktrqwhekcfacvvcktpigtksfiprEQEIYCANCYEEKFATRCVKCNKTFFRLRekgtfqshsgriNKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKLM
Low Complexity Region (SEG)
MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKLM
Disordered region (IsUnstruct)
******QWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCA*****
Disordered Region (DISOPRED)
MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKLM
Disordered Region (DISEMBL)
********HEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKLM
Disordered Region (DISPRO)
****TRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKLM
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKLM
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	198	2.2.26 [Sep-21-2011]
Q3ZBI6	280	Four and a half LIM domai	yes	N/A	0.828	0.585	0.487	2e-54
O35115	279	Four and a half LIM domai	yes	N/A	0.823	0.584	0.494	3e-53
Q13643	280	Four and a half LIM domai	yes	N/A	0.828	0.585	0.471	4e-53
O70433	279	Four and a half LIM domai	yes	N/A	0.823	0.584	0.489	1e-52
Q2KI95	279	Four and a half LIM domai	no	N/A	0.823	0.584	0.494	4e-52
Q14192	279	Four and a half LIM domai	no	N/A	0.823	0.584	0.484	1e-51
Q9R059	289	Four and a half LIM domai	no	N/A	0.828	0.567	0.460	1e-48
Q2YDK0	284	Four and a half LIM domai	no	N/A	0.828	0.577	0.425	8e-43
P97447	280	Four and a half LIM domai	no	N/A	0.823	0.582	0.430	7e-42
Q9WUH4	280	Four and a half LIM domai	no	N/A	0.823	0.582	0.430	9e-42

>sp|Q3ZBI6|FHL3_BOVIN Four and a half LIM domains protein 3 OS=Bos taurus GN=FHL3 PE=2 SV=1

 Score =  211 bits (538), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 95/195 (48%), Positives = 127/195 (65%), Gaps = 31/195 (15%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
           +EY  + WHE CF C  C+ P+G++SF+P +   YC  CYE KFA RC +C+KT      
Sbjct: 115 LEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFAPRCARCSKT------ 168

Query: 61  KGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSR 120
                                    +T GGVTY+++PWHREC  C+ C T LAGQ+FTSR
Sbjct: 169 -------------------------LTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSR 203

Query: 121 EDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGF 180
           ED P+C  CFGELFA +C SCK+PITG+GG +++SFEDRHWH+ CF CA C +SLVG+GF
Sbjct: 204 EDDPYCVTCFGELFAPKCSSCKRPITGLGGGKYVSFEDRHWHHSCFSCARCSTSLVGQGF 263

Query: 181 ITDGEDIICPDCAKA 195
           + DG+ ++C  C++A
Sbjct: 264 VPDGDQVLCQGCSQA 278

Bos taurus (taxid: 9913)

>sp|O35115|FHL2_RAT Four and a half LIM domains protein 2 OS=Rattus norvegicus GN=Fhl2 PE=1 SV=1

 Score =  207 bits (528), Expect = 3e-53,   Method: Compositional matrix adjust.
 Identities = 96/194 (49%), Positives = 127/194 (65%), Gaps = 31/194 (15%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
           MEYK   WHE CF C  C+ PIGTKSFIP+E + +C  CYE+++A +CV+C K       
Sbjct: 115 MEYKGSSWHETCFTCQRCQQPIGTKSFIPKENQNFCVPCYEKQYALQCVQCKKP------ 168

Query: 61  KGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSR 120
                                    IT+GGVTY+++PWHRECF C+ C   L+GQRFT+R
Sbjct: 169 -------------------------ITTGGVTYRDQPWHRECFVCTACKKQLSGQRFTAR 203

Query: 121 EDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGF 180
           ++ P+C  CF +L+AK+C  C  PI+G+GGT++ISFE+R WHNDCF C  C  SLVGRGF
Sbjct: 204 DEFPYCLTCFCDLYAKKCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGF 263

Query: 181 ITDGEDIICPDCAK 194
           +T+ +DI+CPDC K
Sbjct: 264 LTERDDILCPDCGK 277

May function as a molecular transmitter linking various signaling pathways to transcriptional regulation. Negatively regulates the transcriptional repressor E4F1 and may function in cell growth. Inhibits the transcriptional activity of FOXO1 and its apoptotic function by enhancing the interaction of FOXO1 with SIRT1 and FOXO1 deacetylation.

Rattus norvegicus (taxid: 10116)

>sp|Q13643|FHL3_HUMAN Four and a half LIM domains protein 3 OS=Homo sapiens GN=FHL3 PE=1 SV=4

 Score =  207 bits (527), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 92/195 (47%), Positives = 127/195 (65%), Gaps = 31/195 (15%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
           +EY  + WHE CF C  C+ P+G++SF+P +   YC  CYE KFA RC +C+KT      
Sbjct: 115 LEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFAPRCARCSKT------ 168

Query: 61  KGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSR 120
                                    +T GGVTY+++PWHREC  C+ C T LAGQ+FTSR
Sbjct: 169 -------------------------LTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSR 203

Query: 121 EDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGF 180
           ++ P+C  CFGELFA +C SCK+PI G+GG +++SFEDRHWH++CF CA C +SLVG+GF
Sbjct: 204 DEDPYCVACFGELFAPKCSSCKRPIVGLGGGKYVSFEDRHWHHNCFSCARCSTSLVGQGF 263

Query: 181 ITDGEDIICPDCAKA 195
           + DG+ ++C  C++A
Sbjct: 264 VPDGDQVLCQGCSQA 278

Homo sapiens (taxid: 9606)

>sp|O70433|FHL2_MOUSE Four and a half LIM domains protein 2 OS=Mus musculus GN=Fhl2 PE=1 SV=1

 Score =  206 bits (523), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 95/194 (48%), Positives = 126/194 (64%), Gaps = 31/194 (15%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
           MEYK   WHE CF C  C+ PIGTKSFIP+E + +C  CYE+++A +CV+C K       
Sbjct: 115 MEYKGSSWHETCFTCQRCQQPIGTKSFIPKENQNFCVPCYEKQYALQCVQCKKP------ 168

Query: 61  KGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSR 120
                                    IT+GGVTY+ +PWH+ECF C+ C   L+GQRFT+R
Sbjct: 169 -------------------------ITTGGVTYREQPWHKECFVCTACKKQLSGQRFTAR 203

Query: 121 EDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGF 180
           ++ P+C  CF +L+AK+C  C  PI+G+GGT++ISFE+R WHNDCF C  C  SLVGRGF
Sbjct: 204 DEFPYCLTCFCDLYAKKCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGF 263

Query: 181 ITDGEDIICPDCAK 194
           +T+ +DI+CPDC K
Sbjct: 264 LTERDDILCPDCGK 277

May function as a molecular transmitter linking various signaling pathways to transcriptional regulation. Negatively regulates the transcriptional repressor E4F1 and may function in cell growth. Inhibits the transcriptional activity of FOXO1 and its apoptotic function by enhancing the interaction of FOXO1 with SIRT1 and FOXO1 deacetylation.

Mus musculus (taxid: 10090)

>sp|Q2KI95|FHL2_BOVIN Four and a half LIM domains protein 2 OS=Bos taurus GN=FHL2 PE=2 SV=1

 Score =  204 bits (518), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 96/194 (49%), Positives = 124/194 (63%), Gaps = 31/194 (15%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
           MEYK   WHE CF C  C+ PIGTKSFIP++ E +C  CYE ++A +CV+C K       
Sbjct: 115 MEYKGSSWHETCFICHRCQQPIGTKSFIPKDSENFCVPCYERQYALQCVQCKKP------ 168

Query: 61  KGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSR 120
                                    IT+GGVTY+ +PWHRECF C+ C   L+GQRFTSR
Sbjct: 169 -------------------------ITTGGVTYREQPWHRECFVCTACKKPLSGQRFTSR 203

Query: 121 EDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGF 180
           ++  +C  CF +L+AK+C  C  PI+G+GGT++ISFE+R WHNDCF C  C  SLVGRGF
Sbjct: 204 DEFAYCLGCFCDLYAKKCAGCANPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGF 263

Query: 181 ITDGEDIICPDCAK 194
           +T+ +DI+CPDC K
Sbjct: 264 LTERDDILCPDCGK 277

May function as a molecular transmitter linking various signaling pathways to transcriptional regulation. Negatively regulates the transcriptional repressor E4F1 and may function in cell growth. Inhibits the transcriptional activity of FOXO1 and its apoptotic function by enhancing the interaction of FOXO1 with SIRT1 and FOXO1 deacetylation.

Bos taurus (taxid: 9913)

>sp|Q14192|FHL2_HUMAN Four and a half LIM domains protein 2 OS=Homo sapiens GN=FHL2 PE=1 SV=3

 Score =  202 bits (514), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 94/194 (48%), Positives = 125/194 (64%), Gaps = 31/194 (15%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
           MEYK   WHE CF C  C+ PIGTKSFIP++ + +C  CYE++ A +CV+C K       
Sbjct: 115 MEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQHAMQCVQCKKP------ 168

Query: 61  KGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSR 120
                                    IT+GGVTY+ +PWH+ECF C+ C   L+GQRFT+R
Sbjct: 169 -------------------------ITTGGVTYREQPWHKECFVCTACRKQLSGQRFTAR 203

Query: 121 EDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGF 180
           +D  +C +CF +L+AK+C  C  PI+G+GGT++ISFE+R WHNDCF C  C  SLVGRGF
Sbjct: 204 DDFAYCLNCFCDLYAKKCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGF 263

Query: 181 ITDGEDIICPDCAK 194
           +T+ +DI+CPDC K
Sbjct: 264 LTERDDILCPDCGK 277

May function as a molecular transmitter linking various signaling pathways to transcriptional regulation. Negatively regulates the transcriptional repressor E4F1 and may function in cell growth. Inhibits the transcriptional activity of FOXO1 and its apoptotic function by enhancing the interaction of FOXO1 with SIRT1 and FOXO1 deacetylation.

Homo sapiens (taxid: 9606)

>sp|Q9R059|FHL3_MOUSE Four and a half LIM domains protein 3 OS=Mus musculus GN=Fhl3 PE=2 SV=2

 Score =  192 bits (489), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 94/204 (46%), Positives = 127/204 (62%), Gaps = 40/204 (19%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
           +EY  + WHE CF C  C+ P+G++SF+P +   YC  CYE KFA RC +C+KT      
Sbjct: 115 LEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFAPRCARCSKT------ 168

Query: 61  KGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSR 120
                                    +T GGVTY+++PWHREC  C+ C T LAGQ+FTSR
Sbjct: 169 -------------------------LTQGGVTYRDQPWHRECLVCTGCKTPLAGQQFTSR 203

Query: 121 EDKPFCADCFGELFAKRCYSCKKPIT---------GIGGTRFISFEDRHWHNDCFMCASC 171
           +D P+C  CFGELFA +C SCK+PIT         G+GG +++SFEDRHWH+ CF CA C
Sbjct: 204 DDDPYCVACFGELFAPKCSSCKRPITGGSGGGEGAGLGGGKYVSFEDRHWHHSCFSCARC 263

Query: 172 QSSLVGRGFITDGEDIICPDCAKA 195
            +SLVG+GF+ DG+ ++C  C++A
Sbjct: 264 STSLVGQGFVPDGDQVLCQGCSQA 287

Mus musculus (taxid: 10090)

>sp|Q2YDK0|FHL5_BOVIN Four and a half LIM domains protein 5 OS=Bos taurus GN=FHL5 PE=2 SV=1

 Score =  173 bits (438), Expect = 8e-43,   Method: Compositional matrix adjust.
 Identities = 83/195 (42%), Positives = 110/195 (56%), Gaps = 31/195 (15%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
           ME+K   WHE CF C  C+ PIGTK  I +E   YC  C+E++FA  C  C K       
Sbjct: 116 MEFKGNYWHETCFVCEHCRQPIGTKPLISKESGNYCVPCFEKEFAHYCSFCKK------- 168

Query: 61  KGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSR 120
                                   +ITSGG+T++++PWH+ECF CS C   L  + F SR
Sbjct: 169 ------------------------VITSGGITFRDQPWHKECFLCSGCRKELCEEEFMSR 204

Query: 121 EDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGF 180
           +D PFC DC+  L+AK+C +C KPITG+ G +FI F+DR WH++CF C  C  SLVG GF
Sbjct: 205 DDYPFCLDCYNHLYAKKCAACTKPITGLRGAKFICFQDRQWHSECFNCGKCSVSLVGEGF 264

Query: 181 ITDGEDIICPDCAKA 195
           +T  ++I C  C   
Sbjct: 265 LTHNKEIFCRKCGSG 279

May be involved in the regulation of spermatogenesis. Stimulates CREM transcriptional activity in a phosphorylation-independent manner.

Bos taurus (taxid: 9913)

>sp|P97447|FHL1_MOUSE Four and a half LIM domains protein 1 OS=Mus musculus GN=Fhl1 PE=2 SV=3

 Score =  169 bits (429), Expect = 7e-42,   Method: Compositional matrix adjust.
 Identities = 84/195 (43%), Positives = 109/195 (55%), Gaps = 32/195 (16%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
           +EYK   WH+ CF C  CK  IGT SF P+ ++ YC  C+E KFA  CVKCNK       
Sbjct: 115 VEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKFAKHCVKCNKA------ 168

Query: 61  KGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSR 120
                                    ITSGG+TY+++PWH ECF C  CS  LAGQRFT+ 
Sbjct: 169 -------------------------ITSGGITYQDQPWHAECFVCVTCSKKLAGQRFTAV 203

Query: 121 EDKPFCADCFGELFAKRCYSCKKPITGIG-GTRFISFEDRHWHNDCFMCASCQSSLVGRG 179
           ED+ +C DC+    AK+C  CK PITG G G+  +++E + WH+ CF C  C  +L  + 
Sbjct: 204 EDQYYCVDCYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKR 263

Query: 180 FITDGEDIICPDCAK 194
           F+   E + CPDCAK
Sbjct: 264 FVFHNEQVYCPDCAK 278

May have an involvement in muscle development or hypertrophy. Isoform 2 binds to RBP-J and plays a negative regulatory role in the RBP-J-mediated transcription in mammalian systems.

Mus musculus (taxid: 10090)

>sp|Q9WUH4|FHL1_RAT Four and a half LIM domains protein 1 OS=Rattus norvegicus GN=Fhl1 PE=2 SV=1

 Score =  169 bits (429), Expect = 9e-42,   Method: Compositional matrix adjust.
 Identities = 84/195 (43%), Positives = 109/195 (55%), Gaps = 32/195 (16%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
           +EYK   WH+ CF C  CK  IGT SF P+ ++ YC  C+E KFA  CVKCNK       
Sbjct: 115 VEYKGTIWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKFAKHCVKCNKA------ 168

Query: 61  KGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSR 120
                                    ITSGG+TY+++PWH ECF C  CS  LAGQRFT+ 
Sbjct: 169 -------------------------ITSGGITYQDQPWHAECFVCVTCSKKLAGQRFTAV 203

Query: 121 EDKPFCADCFGELFAKRCYSCKKPITGIG-GTRFISFEDRHWHNDCFMCASCQSSLVGRG 179
           ED+ +C DC+    AK+C  CK PITG G G+  +++E + WH+ CF C  C  +L  + 
Sbjct: 204 EDQYYCVDCYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKR 263

Query: 180 FITDGEDIICPDCAK 194
           F+   E + CPDCAK
Sbjct: 264 FVFHNEQVYCPDCAK 278

May have an involvement in muscle development or hypertrophy. Isoform 2 binds to RBP-J and plays a negative regulatory role in the RBP-J-mediated transcription in mammalian systems.

Rattus norvegicus (taxid: 10116)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	198
350421086	1384	PREDICTED: hypothetical protein LOC10074	0.843	0.120	0.757	1e-84
340719742	1384	PREDICTED: hypothetical protein LOC10065	0.843	0.120	0.752	6e-84
380027198	578	PREDICTED: four and a half LIM domains p	0.843	0.288	0.757	2e-81
328786758	546	PREDICTED: four and a half LIM domains p	0.843	0.305	0.757	3e-81
380027200	546	PREDICTED: four and a half LIM domains p	0.843	0.305	0.757	3e-81
383851070	669	PREDICTED: uncharacterized protein LOC10	0.843	0.249	0.752	3e-81
332021158	239	Four and a half LIM domains protein 2 [A	0.843	0.698	0.747	9e-81
389611039	244	limpet protein [Papilio polytes]	0.843	0.684	0.742	3e-80
320545982	989	limpet, isoform J [Drosophila melanogast	0.843	0.168	0.712	3e-80
307166375	239	Four and a half LIM domains protein 2 [C	0.843	0.698	0.737	2e-79

>gi|350421086|ref|XP_003492728.1| PREDICTED: hypothetical protein LOC100741757 [Bombus impatiens]

 Score =  317 bits (813), Expect = 1e-84,   Method: Compositional matrix adjust.
 Identities = 150/198 (75%), Positives = 159/198 (80%), Gaps = 31/198 (15%)

Query: 1    MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
            MEYKTRQWHEKCF CVVCK PIGTKSFIPREQEIYCA CYE+KFATRCVKCNK       
Sbjct: 1218 MEYKTRQWHEKCFCCVVCKNPIGTKSFIPREQEIYCAACYEDKFATRCVKCNK------- 1270

Query: 61   KGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSR 120
                                    IITSGGVTYKNEPWHR+CFTCSNC+ SLAGQRFTSR
Sbjct: 1271 ------------------------IITSGGVTYKNEPWHRDCFTCSNCNNSLAGQRFTSR 1306

Query: 121  EDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGF 180
            +DKP+CADCFGELFAKRC +C KPITGIGGTRFISFEDRHWHNDCF+CA C++SLVGRGF
Sbjct: 1307 DDKPYCADCFGELFAKRCTACSKPITGIGGTRFISFEDRHWHNDCFICAGCKTSLVGRGF 1366

Query: 181  ITDGEDIICPDCAKAKLM 198
            ITDGEDIICPDCAK KLM
Sbjct: 1367 ITDGEDIICPDCAKMKLM 1384

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340719742|ref|XP_003398306.1| PREDICTED: hypothetical protein LOC100650291 [Bombus terrestris]

 Score =  315 bits (807), Expect = 6e-84,   Method: Compositional matrix adjust.
 Identities = 149/198 (75%), Positives = 158/198 (79%), Gaps = 31/198 (15%)

Query: 1    MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
            MEYKTRQWHEKCF CVVCK PIGTKSFIPREQEIYCA CYE+KFATRCVKCNK       
Sbjct: 1218 MEYKTRQWHEKCFCCVVCKNPIGTKSFIPREQEIYCAACYEDKFATRCVKCNK------- 1270

Query: 61   KGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSR 120
                                    IITSGGVTYKNEPWHR+CFTCSNC+ SLAGQRFTSR
Sbjct: 1271 ------------------------IITSGGVTYKNEPWHRDCFTCSNCNNSLAGQRFTSR 1306

Query: 121  EDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGF 180
            +DKP+CADCFGELFAKRC +C KPITGIGGTRFISFEDRHWHNDCF+CA C++SLVGRGF
Sbjct: 1307 DDKPYCADCFGELFAKRCTACSKPITGIGGTRFISFEDRHWHNDCFICAGCKTSLVGRGF 1366

Query: 181  ITDGEDIICPDCAKAKLM 198
            ITDGEDIICPDCAK K M
Sbjct: 1367 ITDGEDIICPDCAKMKFM 1384

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380027198|ref|XP_003697316.1| PREDICTED: four and a half LIM domains protein 2-like isoform 1 [Apis florea]

 Score =  306 bits (785), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 150/198 (75%), Positives = 159/198 (80%), Gaps = 31/198 (15%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
           MEYKTRQWHEKCF CVVCK PIGTKSFIPREQEIYCA CYE+KFATRCVKCNK       
Sbjct: 412 MEYKTRQWHEKCFCCVVCKNPIGTKSFIPREQEIYCAACYEDKFATRCVKCNK------- 464

Query: 61  KGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSR 120
                                   IITSGGVTYKNEPWHR+CFTCSNC+ SLAGQRFTSR
Sbjct: 465 ------------------------IITSGGVTYKNEPWHRDCFTCSNCNNSLAGQRFTSR 500

Query: 121 EDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGF 180
           +DKP+CADCFGELFAKRC +C KPITGIGGTRFISFEDRHWHNDCF+CA C++SLVGRGF
Sbjct: 501 DDKPYCADCFGELFAKRCTACSKPITGIGGTRFISFEDRHWHNDCFICAGCKTSLVGRGF 560

Query: 181 ITDGEDIICPDCAKAKLM 198
           ITDGEDIICPDCAK KLM
Sbjct: 561 ITDGEDIICPDCAKMKLM 578

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328786758|ref|XP_393694.4| PREDICTED: four and a half LIM domains protein 2 [Apis mellifera]

 Score =  306 bits (784), Expect = 3e-81,   Method: Compositional matrix adjust.
 Identities = 150/198 (75%), Positives = 159/198 (80%), Gaps = 31/198 (15%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
           MEYKTRQWHEKCF CVVCK PIGTKSFIPREQEIYCA CYE+KFATRCVKCNK       
Sbjct: 380 MEYKTRQWHEKCFCCVVCKNPIGTKSFIPREQEIYCAACYEDKFATRCVKCNK------- 432

Query: 61  KGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSR 120
                                   IITSGGVTYKNEPWHR+CFTCSNC+ SLAGQRFTSR
Sbjct: 433 ------------------------IITSGGVTYKNEPWHRDCFTCSNCNNSLAGQRFTSR 468

Query: 121 EDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGF 180
           +DKP+CADCFGELFAKRC +C KPITGIGGTRFISFEDRHWHNDCF+CA C++SLVGRGF
Sbjct: 469 DDKPYCADCFGELFAKRCTACSKPITGIGGTRFISFEDRHWHNDCFICAGCKTSLVGRGF 528

Query: 181 ITDGEDIICPDCAKAKLM 198
           ITDGEDIICPDCAK KLM
Sbjct: 529 ITDGEDIICPDCAKMKLM 546

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380027200|ref|XP_003697317.1| PREDICTED: four and a half LIM domains protein 2-like isoform 2 [Apis florea]

 Score =  306 bits (784), Expect = 3e-81,   Method: Compositional matrix adjust.
 Identities = 150/198 (75%), Positives = 159/198 (80%), Gaps = 31/198 (15%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
           MEYKTRQWHEKCF CVVCK PIGTKSFIPREQEIYCA CYE+KFATRCVKCNK       
Sbjct: 380 MEYKTRQWHEKCFCCVVCKNPIGTKSFIPREQEIYCAACYEDKFATRCVKCNK------- 432

Query: 61  KGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSR 120
                                   IITSGGVTYKNEPWHR+CFTCSNC+ SLAGQRFTSR
Sbjct: 433 ------------------------IITSGGVTYKNEPWHRDCFTCSNCNNSLAGQRFTSR 468

Query: 121 EDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGF 180
           +DKP+CADCFGELFAKRC +C KPITGIGGTRFISFEDRHWHNDCF+CA C++SLVGRGF
Sbjct: 469 DDKPYCADCFGELFAKRCTACSKPITGIGGTRFISFEDRHWHNDCFICAGCKTSLVGRGF 528

Query: 181 ITDGEDIICPDCAKAKLM 198
           ITDGEDIICPDCAK KLM
Sbjct: 529 ITDGEDIICPDCAKMKLM 546

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383851070|ref|XP_003701076.1| PREDICTED: uncharacterized protein LOC100883879 [Megachile rotundata]

 Score =  306 bits (784), Expect = 3e-81,   Method: Compositional matrix adjust.
 Identities = 149/198 (75%), Positives = 158/198 (79%), Gaps = 31/198 (15%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
           MEYKTRQWHEKCF CVVCK PIGTKSFIPREQEIYCA CYE+KFATRCVKCNK       
Sbjct: 503 MEYKTRQWHEKCFCCVVCKNPIGTKSFIPREQEIYCAGCYEDKFATRCVKCNK------- 555

Query: 61  KGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSR 120
                                   IITSGGVTYKNEPWHR+CFTCSNC+ SLAGQRFTSR
Sbjct: 556 ------------------------IITSGGVTYKNEPWHRDCFTCSNCNQSLAGQRFTSR 591

Query: 121 EDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGF 180
           +DKP+CADCFGELFAKRC +C KPITGIGGTRFISFEDRHWHNDCF+CA C++SLVG GF
Sbjct: 592 DDKPYCADCFGELFAKRCTACSKPITGIGGTRFISFEDRHWHNDCFICAGCKTSLVGHGF 651

Query: 181 ITDGEDIICPDCAKAKLM 198
           ITDGEDIICPDCAK KLM
Sbjct: 652 ITDGEDIICPDCAKMKLM 669

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332021158|gb|EGI61543.1| Four and a half LIM domains protein 2 [Acromyrmex echinatior]

 Score =  305 bits (780), Expect = 9e-81,   Method: Compositional matrix adjust.
 Identities = 148/198 (74%), Positives = 159/198 (80%), Gaps = 31/198 (15%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
           MEYKTRQWHEKCF CVVCK PIGTKSFIPREQEIYCA CYE+KFATRCVKCNK       
Sbjct: 73  MEYKTRQWHEKCFCCVVCKNPIGTKSFIPREQEIYCAGCYEDKFATRCVKCNK------- 125

Query: 61  KGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSR 120
                                   IITSGGVTYKNEPWHR+CFTCSNC+ SLAGQRFTSR
Sbjct: 126 ------------------------IITSGGVTYKNEPWHRDCFTCSNCNNSLAGQRFTSR 161

Query: 121 EDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGF 180
           +DKP+CADCFGELFAKRC +C KPITGIGGTRFISFEDRHWHNDCF+CA C++SLVGRGF
Sbjct: 162 DDKPYCADCFGELFAKRCTACSKPITGIGGTRFISFEDRHWHNDCFICAGCKTSLVGRGF 221

Query: 181 ITDGEDIICPDCAKAKLM 198
           ITDG+DIICP+CAK KLM
Sbjct: 222 ITDGDDIICPECAKMKLM 239

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|389611039|dbj|BAM19130.1| limpet protein [Papilio polytes]

 Score =  303 bits (776), Expect = 3e-80,   Method: Compositional matrix adjust.
 Identities = 147/198 (74%), Positives = 157/198 (79%), Gaps = 31/198 (15%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
           MEYKTRQWHEKCF CVVCK PIGTKSFIPREQEIYCA CYE+KFATRCVKCNK       
Sbjct: 78  MEYKTRQWHEKCFCCVVCKNPIGTKSFIPREQEIYCAGCYEDKFATRCVKCNK------- 130

Query: 61  KGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSR 120
                                   IIT GGVTYKNEPWHRECFTC++C TSLAGQRFTSR
Sbjct: 131 ------------------------IITQGGVTYKNEPWHRECFTCTHCDTSLAGQRFTSR 166

Query: 121 EDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGF 180
           +DKP+CADCFGELFAKRC SC KPITGIGGTRFISFEDRHWHNDCF+CA C +SLVG+GF
Sbjct: 167 DDKPYCADCFGELFAKRCTSCTKPITGIGGTRFISFEDRHWHNDCFICAQCSASLVGKGF 226

Query: 181 ITDGEDIICPDCAKAKLM 198
           ITDG+DIICP+CAK KLM
Sbjct: 227 ITDGQDIICPECAKQKLM 244

Source: Papilio polytes

Species: Papilio polytes

Genus: Papilio

Family: Papilionidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|320545982|ref|NP_001189122.1| limpet, isoform J [Drosophila melanogaster] gi|318069230|gb|ADV37558.1| limpet, isoform J [Drosophila melanogaster]

 Score =  303 bits (776), Expect = 3e-80,   Method: Compositional matrix adjust.
 Identities = 141/198 (71%), Positives = 157/198 (79%), Gaps = 31/198 (15%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
           MEYKTRQWHE CF C VCKT IGTKSFIPREQEIYCA CYEEKFATRC+KCNK       
Sbjct: 823 MEYKTRQWHENCFCCCVCKTAIGTKSFIPREQEIYCAGCYEEKFATRCIKCNK------- 875

Query: 61  KGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSR 120
                                   +ITSGGVTYKNEPWHRECFTC++C+ +LAGQRFTSR
Sbjct: 876 ------------------------VITSGGVTYKNEPWHRECFTCTHCNITLAGQRFTSR 911

Query: 121 EDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGF 180
           ++KP+CA+CFGELFAKRC +C KPITGIGGTRFISFEDRHWH+DCF+CASC++SLVGRGF
Sbjct: 912 DEKPYCAECFGELFAKRCTACVKPITGIGGTRFISFEDRHWHHDCFVCASCKASLVGRGF 971

Query: 181 ITDGEDIICPDCAKAKLM 198
           ITDG DI+CPDCAK KLM
Sbjct: 972 ITDGPDILCPDCAKQKLM 989

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307166375|gb|EFN60512.1| Four and a half LIM domains protein 2 [Camponotus floridanus]

 Score =  300 bits (769), Expect = 2e-79,   Method: Compositional matrix adjust.
 Identities = 146/198 (73%), Positives = 158/198 (79%), Gaps = 31/198 (15%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
           MEYKTRQWHEKCF CVVCK PIGTKSFIPREQEIYCA CYE+KFATRCVKCNK       
Sbjct: 73  MEYKTRQWHEKCFCCVVCKNPIGTKSFIPREQEIYCAGCYEDKFATRCVKCNK------- 125

Query: 61  KGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSR 120
                                   II SGGVTYKNEPWHR+CFTCSNC+ SLAGQRFTSR
Sbjct: 126 ------------------------IINSGGVTYKNEPWHRDCFTCSNCNNSLAGQRFTSR 161

Query: 121 EDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGF 180
           +DKP+CA+CFGELFAKRC +C KPITGIGGTRFISFEDRHWHNDCF+CA C++SLVGRGF
Sbjct: 162 DDKPYCAECFGELFAKRCTACSKPITGIGGTRFISFEDRHWHNDCFICAGCKTSLVGRGF 221

Query: 181 ITDGEDIICPDCAKAKLM 198
           ITDG+DIICP+CAK KLM
Sbjct: 222 ITDGDDIICPECAKMKLM 239

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	198
WB|WBGene00006407	656	lim-9 [Caenorhabditis elegans	0.580	0.175	0.747	7.6e-74
UNIPROTKB|Q3ZBI6	280	FHL3 "Four and a half LIM doma	0.555	0.392	0.618	2.6e-59
UNIPROTKB|E2QXW5	290	FHL3 "Uncharacterized protein"	0.555	0.379	0.609	5.4e-59
UNIPROTKB|F1SV27	280	FHL3 "Uncharacterized protein"	0.555	0.392	0.609	2.3e-58
UNIPROTKB|Q13643	280	FHL3 "Four and a half LIM doma	0.555	0.392	0.590	4.8e-58
UNIPROTKB|Q2KI95	279	FHL2 "Four and a half LIM doma	0.550	0.390	0.605	4.8e-58
ZFIN|ZDB-GENE-040808-49	279	fhl2a "four and a half LIM dom	0.550	0.390	0.596	9.9e-58
UNIPROTKB|J3KNW4	389	FHL2 "Four and a half LIM doma	0.550	0.280	0.596	2e-57
UNIPROTKB|Q14192	279	FHL2 "Four and a half LIM doma	0.550	0.390	0.596	2e-57
RGD|1307180	288	Fhl3 "four and a half LIM doma	0.555	0.381	0.567	1.8e-56

WB|WBGene00006407 lim-9 [Caenorhabditis elegans (taxid:6239)]

 Score = 543 (196.2 bits), Expect = 7.6e-74, Sum P(2) = 7.6e-74
 Identities = 86/115 (74%), Positives = 108/115 (93%)

Query:    84 QIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKK 143
             ++IT+GGVTYKNEPWHRECF C+NC++SLAGQRFTS+++KP+CA+C+G+LFAKRC +C K
Sbjct:   538 KVITAGGVTYKNEPWHRECFCCTNCNSSLAGQRFTSKDEKPYCANCYGDLFAKRCNACTK 597

Query:   144 PITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKLM 198
             PITGIGG +FISFEDRHWHNDCF+CA C +SLVG+GFITDG +I+CP+CAKA+LM
Sbjct:   598 PITGIGGAKFISFEDRHWHNDCFICAQCTTSLVGKGFITDGHEILCPECAKARLM 652

GO:0008270 "zinc ion binding" evidence=IEA

GO:0071688 "striated muscle myosin thick filament assembly" evidence=IMP

GO:0031430 "M band" evidence=IDA

GO:0019904 "protein domain specific binding" evidence=IPI

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|Q3ZBI6 FHL3 "Four and a half LIM domains protein 3" [Bos taurus (taxid:9913)]

 Score = 450 (163.5 bits), Expect = 2.6e-59, Sum P(2) = 2.6e-59
 Identities = 68/110 (61%), Positives = 90/110 (81%)

Query:    86 ITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPI 145
             +T GGVTY+++PWHREC  C+ C T LAGQ+FTSRED P+C  CFGELFA +C SCK+PI
Sbjct:   169 LTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSREDDPYCVTCFGELFAPKCSSCKRPI 228

Query:   146 TGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKA 195
             TG+GG +++SFEDRHWH+ CF CA C +SLVG+GF+ DG+ ++C  C++A
Sbjct:   229 TGLGGGKYVSFEDRHWHHSCFSCARCSTSLVGQGFVPDGDQVLCQGCSQA 278

GO:0030036 "actin cytoskeleton organization" evidence=IEA

GO:0030018 "Z disc" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003779 "actin binding" evidence=IEA

GO:0001725 "stress fiber" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|E2QXW5 FHL3 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 447 (162.4 bits), Expect = 5.4e-59, Sum P(2) = 5.4e-59
 Identities = 67/110 (60%), Positives = 90/110 (81%)

Query:    86 ITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPI 145
             +T GGVTY+++PWHREC  C+ C T LAGQ+FTSR+D P+C  CFGELFA +C SCK+PI
Sbjct:   179 LTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDDDPYCVACFGELFAPKCSSCKRPI 238

Query:   146 TGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKA 195
             TG+GG +++SFEDRHWH+ CF CA C +SLVG+GF+ DG+ ++C  C++A
Sbjct:   239 TGLGGGKYVSFEDRHWHHSCFSCARCSTSLVGQGFVPDGDQVVCQGCSQA 288

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1SV27 FHL3 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 446 (162.1 bits), Expect = 2.3e-58, Sum P(2) = 2.3e-58
 Identities = 67/110 (60%), Positives = 90/110 (81%)

Query:    86 ITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPI 145
             +T GGVTY+++PWHREC  C+ C T LAGQ+FTSR+D P+C  CFGELFA +C SCK+PI
Sbjct:   169 LTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDDDPYCVACFGELFAPKCSSCKRPI 228

Query:   146 TGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKA 195
             TG+GG +++SFEDRHWH+ CF CA C +SLVG+GF+ DG+ ++C  C++A
Sbjct:   229 TGLGGGKYVSFEDRHWHHSCFSCARCSTSLVGQGFVPDGDQVLCQGCSQA 278

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q13643 FHL3 "Four and a half LIM domains protein 3" [Homo sapiens (taxid:9606)]

 Score = 438 (159.2 bits), Expect = 4.8e-58, Sum P(2) = 4.8e-58
 Identities = 65/110 (59%), Positives = 90/110 (81%)

Query:    86 ITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPI 145
             +T GGVTY+++PWHREC  C+ C T LAGQ+FTSR++ P+C  CFGELFA +C SCK+PI
Sbjct:   169 LTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELFAPKCSSCKRPI 228

Query:   146 TGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKA 195
              G+GG +++SFEDRHWH++CF CA C +SLVG+GF+ DG+ ++C  C++A
Sbjct:   229 VGLGGGKYVSFEDRHWHHNCFSCARCSTSLVGQGFVPDGDQVLCQGCSQA 278

GO:0008270 "zinc ion binding" evidence=IEA

GO:0001725 "stress fiber" evidence=IEA

GO:0003779 "actin binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0030018 "Z disc" evidence=IEA

GO:0030036 "actin cytoskeleton organization" evidence=IEA

GO:0007517 "muscle organ development" evidence=TAS

UNIPROTKB|Q2KI95 FHL2 "Four and a half LIM domains protein 2" [Bos taurus (taxid:9913)]

 Score = 425 (154.7 bits), Expect = 4.8e-58, Sum P(2) = 4.8e-58
 Identities = 66/109 (60%), Positives = 86/109 (78%)

Query:    86 ITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPI 145
             IT+GGVTY+ +PWHRECF C+ C   L+GQRFTSR++  +C  CF +L+AK+C  C  PI
Sbjct:   169 ITTGGVTYREQPWHRECFVCTACKKPLSGQRFTSRDEFAYCLGCFCDLYAKKCAGCANPI 228

Query:   146 TGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAK 194
             +G+GGT++ISFE+R WHNDCF C  C  SLVGRGF+T+ +DI+CPDC K
Sbjct:   229 SGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGK 277

GO:0043066 "negative regulation of apoptotic process" evidence=ISS

GO:0008134 "transcription factor binding" evidence=ISS

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=ISS

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0060347 "heart trabecula formation" evidence=IEA

GO:0055015 "ventricular cardiac muscle cell development" evidence=IEA

GO:0055014 "atrial cardiac muscle cell development" evidence=IEA

GO:0042802 "identical protein binding" evidence=IEA

GO:0015629 "actin cytoskeleton" evidence=IEA

GO:0009725 "response to hormone stimulus" evidence=IEA

GO:0005925 "focal adhesion" evidence=IEA

GO:0001649 "osteoblast differentiation" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

ZFIN|ZDB-GENE-040808-49 fhl2a "four and a half LIM domains 2a" [Danio rerio (taxid:7955)]

 Score = 423 (154.0 bits), Expect = 9.9e-58, Sum P(2) = 9.9e-58
 Identities = 65/109 (59%), Positives = 87/109 (79%)

Query:    86 ITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPI 145
             IT+GGVTY ++PWH++CF C+ C   L+GQRFTSR+D  +C +CF  L+AK+C SC  PI
Sbjct:   169 ITTGGVTYHDQPWHKDCFLCTGCKQQLSGQRFTSRDDFAYCLNCFCNLYAKKCASCTSPI 228

Query:   146 TGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAK 194
             +G+GG+++ISFE+R WHNDCF C  C  SLVGRGF+TD +DI+CP+C K
Sbjct:   229 SGLGGSKYISFEERQWHNDCFNCKKCSVSLVGRGFLTDRDDILCPECGK 277

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|J3KNW4 FHL2 "Four and a half LIM domains protein 2" [Homo sapiens (taxid:9606)]

 Score = 425 (154.7 bits), Expect = 2.0e-57, Sum P(2) = 2.0e-57
 Identities = 65/109 (59%), Positives = 87/109 (79%)

Query:    86 ITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPI 145
             IT+GGVTY+ +PWH+ECF C+ C   L+GQRFT+R+D  +C +CF +L+AK+C  C  PI
Sbjct:   279 ITTGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLYAKKCAGCTNPI 338

Query:   146 TGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAK 194
             +G+GGT++ISFE+R WHNDCF C  C  SLVGRGF+T+ +DI+CPDC K
Sbjct:   339 SGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGK 387

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q14192 FHL2 "Four and a half LIM domains protein 2" [Homo sapiens (taxid:9606)]

 Score = 425 (154.7 bits), Expect = 2.0e-57, Sum P(2) = 2.0e-57
 Identities = 65/109 (59%), Positives = 87/109 (79%)

Query:    86 ITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPI 145
             IT+GGVTY+ +PWH+ECF C+ C   L+GQRFT+R+D  +C +CF +L+AK+C  C  PI
Sbjct:   169 ITTGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLYAKKCAGCTNPI 228

Query:   146 TGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAK 194
             +G+GGT++ISFE+R WHNDCF C  C  SLVGRGF+T+ +DI+CPDC K
Sbjct:   229 SGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGK 277

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0001649 "osteoblast differentiation" evidence=IEA

GO:0030018 "Z disc" evidence=IEA

GO:0031430 "M band" evidence=IEA

GO:0055014 "atrial cardiac muscle cell development" evidence=IEA

GO:0055015 "ventricular cardiac muscle cell development" evidence=IEA

GO:0060347 "heart trabecula formation" evidence=IEA

GO:0003713 "transcription coactivator activity" evidence=NAS

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=NAS

GO:0050681 "androgen receptor binding" evidence=NAS

GO:0030521 "androgen receptor signaling pathway" evidence=NAS

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IDA

GO:0008134 "transcription factor binding" evidence=IPI

GO:0043066 "negative regulation of apoptotic process" evidence=IDA

GO:0005654 "nucleoplasm" evidence=TAS

GO:0044255 "cellular lipid metabolic process" evidence=TAS

GO:0044281 "small molecule metabolic process" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

GO:0042802 "identical protein binding" evidence=IPI

GO:0009725 "response to hormone stimulus" evidence=IMP

GO:0005634 "nucleus" evidence=IDA

GO:0005925 "focal adhesion" evidence=IDA

GO:0015629 "actin cytoskeleton" evidence=IDA

RGD|1307180 Fhl3 "four and a half LIM domains 3" [Rattus norvegicus (taxid:10116)]

 Score = 423 (154.0 bits), Expect = 1.8e-56, Sum P(2) = 1.8e-56
 Identities = 67/118 (56%), Positives = 90/118 (76%)

Query:    86 ITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPI 145
             +T GGVTY+++PWHREC  C+ C T LAGQ+FTSR+D P+C  CFGELFA +C SCK+PI
Sbjct:   169 LTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDDDPYCVACFGELFAPKCSSCKRPI 228

Query:   146 TG--------IGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKA 195
             TG        +GG +++SFEDRHWH+ CF CA C +SLVG+GF+ DG+ ++C  C++A
Sbjct:   229 TGGSGSEGAGLGGGKYVSFEDRHWHHSCFSCARCSTSLVGQGFVPDGDQVLCQGCSQA 286

GO:0001725 "stress fiber" evidence=IEA;ISO

GO:0003779 "actin binding" evidence=IEA;ISO

GO:0005634 "nucleus" evidence=IEA;ISO

GO:0008270 "zinc ion binding" evidence=IEA

GO:0030018 "Z disc" evidence=IEA;ISO

GO:0030036 "actin cytoskeleton organization" evidence=IEA;ISO

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	198
cd09432	56	cd09432, LIM6_LIMPETin, The sixth LIM domain of pr	6e-29
cd09347	56	cd09347, LIM4_FHL, The fourth LIM domain of Four a	1e-25
cd09430	52	cd09430, LIM5_LIMPETin, The fifth LIM domain of pr	1e-22
cd09433	58	cd09433, LIM4_FHL2, The fourth LIM domain of Four	1e-20
cd09346	52	cd09346, LIM3_FHL, The third LIM domain of Four an	2e-20
cd09434	56	cd09434, LIM4_FHL3, The fourth LIM domain of Four	5e-20
cd09425	54	cd09425, LIM4_LIMPETin, The fourth LIM domain of p	3e-17
cd09429	53	cd09429, LIM3_FHL1, The third LIM domain of Four a	1e-15
cd09431	57	cd09431, LIM3_Fhl2, The third LIM domain of Four a	1e-14
cd09348	64	cd09348, LIM4_FHL1, The fourth LIM domain of Four	4e-13
cd09345	54	cd09345, LIM2_FHL, The second LIM domain of Four a	6e-13
cd09424	58	cd09424, LIM2_FHL1, The second LIM domain of Four	1e-11
cd09426	57	cd09426, LIM2_FHL2, The second LIM domain of Four	1e-10
cd09343	59	cd09343, LIM1_FHL, The first LIM domain of Four an	3e-10
cd09427	58	cd09427, LIM2_FHL3, The second LIM domain of Four	1e-09
cd09422	62	cd09422, LIM1_FHL2, The first LIM domain of Four a	2e-09
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	8e-09
cd09421	59	cd09421, LIM3_LIMPETin, The third LIM domain of pr	3e-08
cd09346	52	cd09346, LIM3_FHL, The third LIM domain of Four an	4e-08
cd09429	53	cd09429, LIM3_FHL1, The third LIM domain of Four a	2e-07
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	5e-07
cd09428	54	cd09428, LIM2_FHL5, The second LIM domain of Four	9e-07
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	1e-06
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	1e-06
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	1e-06
cd09349	87	cd09349, LIM1_Zyxin, The first LIM domain of Zyxin	1e-06
cd09343	59	cd09343, LIM1_FHL, The first LIM domain of Four an	2e-06
cd09421	59	cd09421, LIM3_LIMPETin, The third LIM domain of pr	2e-06
cd09347	56	cd09347, LIM4_FHL, The fourth LIM domain of Four a	3e-06
cd09344	54	cd09344, LIM1_FHL1, The first LIM domain of Four a	3e-06
cd09341	56	cd09341, LIM2_Testin_like, The second LIM domain o	4e-06
pfam00412	58	pfam00412, LIM, LIM domain	5e-06
cd09348	64	cd09348, LIM4_FHL1, The fourth LIM domain of Four	7e-06
cd09421	59	cd09421, LIM3_LIMPETin, The third LIM domain of pr	7e-06
cd09343	59	cd09343, LIM1_FHL, The first LIM domain of Four an	9e-06
cd09434	56	cd09434, LIM4_FHL3, The fourth LIM domain of Four	1e-05
cd09345	54	cd09345, LIM2_FHL, The second LIM domain of Four a	1e-05
cd09344	54	cd09344, LIM1_FHL1, The first LIM domain of Four a	1e-05
cd09427	58	cd09427, LIM2_FHL3, The second LIM domain of Four	2e-05
cd09422	62	cd09422, LIM1_FHL2, The first LIM domain of Four a	2e-05
pfam00412	58	pfam00412, LIM, LIM domain	2e-05
cd09336	53	cd09336, LIM1_Paxillin_like, The first LIM domain	2e-05
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	3e-05
cd09423	59	cd09423, LIM1_FHL3, The first LIM domain of Four a	3e-05
cd09429	53	cd09429, LIM3_FHL1, The third LIM domain of Four a	4e-05
cd09459	55	cd09459, LIM3_ENH, The third LIM domain of the Eni	4e-05
cd09431	57	cd09431, LIM3_Fhl2, The third LIM domain of Four a	5e-05
cd09424	58	cd09424, LIM2_FHL1, The second LIM domain of Four	5e-05
cd09424	58	cd09424, LIM2_FHL1, The second LIM domain of Four	5e-05
cd09432	56	cd09432, LIM6_LIMPETin, The sixth LIM domain of pr	7e-05
cd09346	52	cd09346, LIM3_FHL, The third LIM domain of Four an	7e-05
cd09430	52	cd09430, LIM5_LIMPETin, The fifth LIM domain of pr	1e-04
cd09433	58	cd09433, LIM4_FHL2, The fourth LIM domain of Four	1e-04
cd09422	62	cd09422, LIM1_FHL2, The first LIM domain of Four a	1e-04
cd09344	54	cd09344, LIM1_FHL1, The first LIM domain of Four a	1e-04
cd09350	54	cd09350, LIM1_TRIP6, The first LIM domain of Thyro	1e-04
cd09363	54	cd09363, LIM3_Enigma_like, The third LIM domain of	1e-04
cd09417	56	cd09417, LIM2_LIMPETin_like, The second LIM domain	1e-04
cd09425	54	cd09425, LIM4_LIMPETin, The fourth LIM domain of p	2e-04
cd09342	57	cd09342, LIM3_Testin_like, The third LIM domain of	2e-04
cd09434	56	cd09434, LIM4_FHL3, The fourth LIM domain of Four	3e-04
cd09341	56	cd09341, LIM2_Testin_like, The second LIM domain o	3e-04
cd09336	53	cd09336, LIM1_Paxillin_like, The first LIM domain	3e-04
cd09460	55	cd09460, LIM3_ZASP_Cypher, The third LIM domain of	3e-04
cd09418	56	cd09418, LIM2_Prickle, The second LIM domain of Pr	3e-04
cd09431	57	cd09431, LIM3_Fhl2, The third LIM domain of Four a	4e-04
cd09361	52	cd09361, LIM1_Enigma_like, The first LIM domain of	4e-04
cd09430	52	cd09430, LIM5_LIMPETin, The fifth LIM domain of pr	5e-04
cd09345	54	cd09345, LIM2_FHL, The second LIM domain of Four a	5e-04
cd09459	55	cd09459, LIM3_ENH, The third LIM domain of the Eni	5e-04
cd09396	53	cd09396, LIM_DA1, The Lim domain of DA1	6e-04
cd09428	54	cd09428, LIM2_FHL5, The second LIM domain of Four	9e-04
cd09347	56	cd09347, LIM4_FHL, The fourth LIM domain of Four a	0.001
cd09423	59	cd09423, LIM1_FHL3, The first LIM domain of Four a	0.001
cd09460	55	cd09460, LIM3_ZASP_Cypher, The third LIM domain of	0.001
cd09418	56	cd09418, LIM2_Prickle, The second LIM domain of Pr	0.001
cd09419	59	cd09419, LIM3_Testin, The third LIM domain of Test	0.001
cd09420	59	cd09420, LIM3_Prickle, The third LIM domain of Pri	0.001
cd09454	52	cd09454, LIM1_ZASP_Cypher, The first LIM domain of	0.001
cd09338	53	cd09338, LIM3_Paxillin_like, The third LIM domain	0.001
cd09432	56	cd09432, LIM6_LIMPETin, The sixth LIM domain of pr	0.002
cd09426	57	cd09426, LIM2_FHL2, The second LIM domain of Four	0.002
pfam00412	58	pfam00412, LIM, LIM domain	0.002
cd09363	54	cd09363, LIM3_Enigma_like, The third LIM domain of	0.002
cd09342	57	cd09342, LIM3_Testin_like, The third LIM domain of	0.002
cd09361	52	cd09361, LIM1_Enigma_like, The first LIM domain of	0.002
cd09326	53	cd09326, LIM_CRP_like, The LIM domains of Cysteine	0.002
cd09362	52	cd09362, LIM2_Enigma_like, The second LIM domain o	0.002
cd09372	53	cd09372, LIM2_FBLP-1, The second LIM domain of the	0.002
cd09336	53	cd09336, LIM1_Paxillin_like, The first LIM domain	0.003
cd09458	55	cd09458, LIM3_Enigma, The third LIM domain of Enig	0.003
cd09393	56	cd09393, LIM3_Lrg1p_like, The third LIM domain of	0.003
cd09456	52	cd09456, LIM2_Enigma, The second LIM domain of Eni	0.003
cd09401	53	cd09401, LIM_TLP_like, The LIM domains of thymus L	0.003
cd09426	57	cd09426, LIM2_FHL2, The second LIM domain of Four	0.004
cd09341	56	cd09341, LIM2_Testin_like, The second LIM domain o	0.004
cd09420	59	cd09420, LIM3_Prickle, The third LIM domain of Pri	0.004
cd09338	53	cd09338, LIM3_Paxillin_like, The third LIM domain	0.004
cd09327	52	cd09327, LIM1_abLIM, The first LIM domain of actin	0.004
cd09353	60	cd09353, LIM2_Zyxin, The second LIM domain of Zyxi	0.004
cd09329	52	cd09329, LIM3_abLIM, The third LIM domain of actin	0.004
cd09840	54	cd09840, LIM2_CRP2, The second LIM domain of Cyste	0.004

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

 Score =  102 bits (255), Expect = 6e-29
 Identities = 44/56 (78%), Positives = 50/56 (89%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCA 193
           C +C KPITGIGGT+FISFEDRHWHNDCF CA C++SLVG+GFITDG  I+CPDCA
Sbjct: 1   CAACGKPITGIGGTKFISFEDRHWHNDCFNCAGCRTSLVGKGFITDGGRILCPDCA 56

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

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

 Score = 93.2 bits (232), Expect = 1e-25
 Identities = 33/56 (58%), Positives = 44/56 (78%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCA 193
           C +C KPITG+GG +FISFE+R WH+DCF C  C  SLVG+GF+T  ++I+CP+C 
Sbjct: 1   CAACTKPITGLGGAKFISFEERQWHSDCFNCGKCSVSLVGQGFLTQRDEILCPECG 56

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

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

 Score = 85.6 bits (212), Expect = 1e-22
 Identities = 40/47 (85%), Positives = 45/47 (95%)

Query: 84  QIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCF 130
           +II SGGVTYKNEPWHRECFTC+NCS SLAGQRFTSR++KP+CADCF
Sbjct: 6   KIINSGGVTYKNEPWHRECFTCTNCSKSLAGQRFTSRDEKPYCADCF 52

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

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

 Score = 80.8 bits (199), Expect = 1e-20
 Identities = 35/57 (61%), Positives = 45/57 (78%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAK 194
           C  C  PI+G+GGT++ISFE+R WHNDCF C  C  SLVGRGF+T+ +DI+CP+C K
Sbjct: 1   CAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPECGK 57

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

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

 Score = 79.7 bits (197), Expect = 2e-20
 Identities = 30/47 (63%), Positives = 39/47 (82%)

Query: 84  QIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCF 130
           + ITSGGVTY+++PWH+ECF C+ C   LAGQRFTSR++ P+C DCF
Sbjct: 6   KAITSGGVTYRDQPWHKECFVCTGCKKQLAGQRFTSRDEYPYCVDCF 52

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

>gnl|CDD|188818 cd09434, LIM4_FHL3, The fourth LIM domain of Four and a half LIM domains protein 3 (FHL3)

 Score = 79.0 bits (195), Expect = 5e-20
 Identities = 32/55 (58%), Positives = 39/55 (70%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDC 192
           C +C KPITG GG +++SFEDR WH  CF C+ C  SLVG GF  DG+ I+C DC
Sbjct: 1   CAACNKPITGFGGGKYVSFEDRQWHQPCFKCSRCSVSLVGAGFFPDGDQILCRDC 55

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

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

 Score = 72.1 bits (177), Expect = 3e-17
 Identities = 27/40 (67%), Positives = 32/40 (80%)

Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCY 40
          MEYK +QWHEKCF C  CK PIGTKSFIP++ ++YC  CY
Sbjct: 15 MEYKGQQWHEKCFCCCECKQPIGTKSFIPKDDDVYCVPCY 54

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

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

 Score = 67.5 bits (165), Expect = 1e-15
 Identities = 30/45 (66%), Positives = 38/45 (84%)

Query: 86  ITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCF 130
           ITSGGVTY+++PWH ECF CS+CS  LAGQRFT+ ED+ +C DC+
Sbjct: 8   ITSGGVTYQDQPWHSECFVCSSCSKKLAGQRFTAVEDQYYCVDCY 52

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

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

 Score = 65.0 bits (158), Expect = 1e-14
 Identities = 29/50 (58%), Positives = 40/50 (80%)

Query: 86  ITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFA 135
           IT+GGVTY+++PWH+ECF C+ C   L+GQRFTSR+D  +C +CF  L+A
Sbjct: 8   ITTGGVTYRDQPWHKECFVCTGCKKQLSGQRFTSRDDFAYCLNCFCNLYA 57

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

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

 Score = 61.3 bits (149), Expect = 4e-13
 Identities = 26/61 (42%), Positives = 35/61 (57%), Gaps = 1/61 (1%)

Query: 135 AKRCYSCKKPITGIG-GTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCA 193
           AK+C  C+ PITG G GT  +++E   WH+ CF C  C  +L  + F+     I C DCA
Sbjct: 2   AKKCSGCQNPITGFGKGTNVVNYEGSSWHDYCFNCKKCSLNLANKRFVFHNGQIYCSDCA 61

Query: 194 K 194
           K
Sbjct: 62  K 62

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

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

 Score = 60.4 bits (147), Expect = 6e-13
 Identities = 27/40 (67%), Positives = 31/40 (77%)

Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCY 40
          MEYK + WHEKCF C  CK PIGTKSFIP++ +IYC  CY
Sbjct: 15 MEYKGKFWHEKCFTCSECKKPIGTKSFIPKDDKIYCVPCY 54

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

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

 Score = 57.1 bits (138), Expect = 1e-11
 Identities = 24/43 (55%), Positives = 30/43 (69%)

Query: 2  EYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKF 44
          EYK   WH+ CF C  CK PIGTKSF P+ ++ YC  C+E+KF
Sbjct: 16 EYKGNVWHKDCFTCSNCKQPIGTKSFFPKGEDFYCVPCHEKKF 58

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

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

 Score = 54.3 bits (130), Expect = 1e-10
 Identities = 24/43 (55%), Positives = 31/43 (72%)

Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEK 43
          MEYK   WHE CF C  C+ PIGTKSFIP++ + +C  CYE++
Sbjct: 15 MEYKGNSWHETCFICQRCQQPIGTKSFIPKDNQNFCVPCYEKQ 57

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

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

 Score = 53.6 bits (129), Expect = 3e-10
 Identities = 26/59 (44%), Positives = 35/59 (59%), Gaps = 2/59 (3%)

Query: 134 FAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDC 192
           FA  C  CKK I     ++ +S++DRHWH  CF C  CQ SLV + F    ED++C +C
Sbjct: 1   FANTCEECKKKIGC--DSKDLSYKDRHWHEGCFKCFKCQRSLVDKPFAAKDEDLLCTEC 57

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

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

 Score = 52.2 bits (125), Expect = 1e-09
 Identities = 22/41 (53%), Positives = 29/41 (70%)

Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYE 41
          +EY+ + WHE CF C  C+ PIG++SFIP + E YC  CYE
Sbjct: 18 LEYEGQTWHEHCFICHGCEQPIGSRSFIPDKDEHYCVPCYE 58

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

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

 Score = 51.8 bits (124), Expect = 2e-09
 Identities = 23/59 (38%), Positives = 35/59 (59%), Gaps = 2/59 (3%)

Query: 134 FAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDC 192
           ++  C  CKKPI      + +S++DRHWH  CF C  C++SLV + F    E ++C +C
Sbjct: 1   YSNTCEECKKPIGC--DCKDLSYKDRHWHESCFHCFQCKNSLVDKPFAAKEEHLLCTEC 57

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

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

 Score = 49.7 bits (119), Expect = 8e-09
 Identities = 20/56 (35%), Positives = 26/56 (46%), Gaps = 2/56 (3%)

Query: 137 RCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDC 192
           +C  C KPI G    R +    + WH +CF CA+C   L G  F      + C DC
Sbjct: 1   KCAGCGKPIYG--TERVLRALGKVWHPECFKCATCGKPLSGDTFFEKDGKLYCKDC 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|188805 cd09421, LIM3_LIMPETin, The third LIM domain of protein LIMPETin

 Score = 48.3 bits (115), Expect = 3e-08
 Identities = 24/59 (40%), Positives = 38/59 (64%), Gaps = 2/59 (3%)

Query: 134 FAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDC 192
           FA +C  C K I GI  ++ +S++D+HWH  CF+C+ C+ SLV + F +  + I C +C
Sbjct: 1   FANQCEECSKII-GID-SKDLSYKDKHWHEACFLCSKCKISLVDKPFGSKADRIYCGNC 57

The third LIM domain of protein LIMPETin: LIMPETin contains 6 LIM domains at the C-terminal and an N-terminal PET domain. Four of the six LIM domains are highly homologous to the four and half LIM domain protein family and two of them show sequence similarity to the LIM domains of the testin family. Thus, LIMPETin may be the recombinant product of genes coding testin and FHL proteins. In Schistosoma mansoni, where LIMPETin was first identified, LIMPETin is down regulated in sexually mature adult Schistosoma females compared to sexually immature adult females and adult male. Its differential expression indicates that it is a transcription regulator. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 59

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

 Score = 47.7 bits (114), Expect = 4e-08
 Identities = 21/55 (38%), Positives = 30/55 (54%), Gaps = 4/55 (7%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDC 192
           C  CKK IT  G    +++ D+ WH +CF+C  C+  L G+ F +  E   C DC
Sbjct: 1   CAKCKKAITSGG----VTYRDQPWHKECFVCTGCKKQLAGQRFTSRDEYPYCVDC 51

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

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

 Score = 46.0 bits (109), Expect = 2e-07
 Identities = 22/57 (38%), Positives = 33/57 (57%), Gaps = 4/57 (7%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAK 194
           C  C KPIT  G    ++++D+ WH++CF+C+SC   L G+ F    +   C DC K
Sbjct: 1   CVKCNKPITSGG----VTYQDQPWHSECFVCSSCSKKLAGQRFTAVEDQYYCVDCYK 53

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

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

 Score = 44.6 bits (106), Expect = 5e-07
 Identities = 15/40 (37%), Positives = 21/40 (52%)

Query: 91  VTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCF 130
           +    + WH ECF CS C   L G  F  ++ KP+C  C+
Sbjct: 14  LRALGKKWHPECFKCSVCGKPLGGDSFYEKDGKPYCEKCY 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|188812 cd09428, LIM2_FHL5, The second LIM domain of Four and a half LIM domains protein 5 (FHL5)

 Score = 44.1 bits (104), Expect = 9e-07
 Identities = 18/40 (45%), Positives = 26/40 (65%)

Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCY 40
          +E++  +WHE CF C  C+ PIGTK  I +E + YC  C+
Sbjct: 15 LEFEGNEWHETCFVCQSCQQPIGTKPLITKENKNYCVPCF 54

The second LIM domain of Four and a half LIM domains protein 5 (FHL5): FHL5 is a tissue-specific coactivator of CREB/CREM family transcription factors , which are highly expressed in male germ cells and is required for post-meiotic gene expression. FHL5 associates with CREM and confers a powerful transcriptional activation function. Activation by CREB has known to occur upon phosphorylation at an essential regulatory site and the subsequent interaction with the ubiquitous coactivator CREB-binding protein (CBP). However, the activation by FHL5 is independent of phosphorylation and CBP association. It represents a new route for transcriptional activation by CREM and CREB. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 54

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

 Score = 43.9 bits (104), Expect = 1e-06
 Identities = 14/39 (35%), Positives = 21/39 (53%)

Query: 91  VTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADC 129
           +    + WH ECF C+ C   L+G  F  ++ K +C DC
Sbjct: 16  LRALGKVWHPECFKCATCGKPLSGDTFFEKDGKLYCKDC 54

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

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

 Score = 43.8 bits (104), Expect = 1e-06
 Identities = 15/40 (37%), Positives = 23/40 (57%)

Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCY 40
          +    ++WH +CF C VC  P+G  SF  ++ + YC  CY
Sbjct: 14 LRALGKKWHPECFKCSVCGKPLGGDSFYEKDGKPYCEKCY 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|188711 cd08368, LIM, LIM is a small protein-protein interaction domain, containing two zinc fingers

 Score = 43.5 bits (103), Expect = 1e-06
 Identities = 17/56 (30%), Positives = 21/56 (37%), Gaps = 3/56 (5%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCA 193
           C  C KPI G      +    + WH +CF C+ C   L G  F        C  C 
Sbjct: 1   CAGCGKPIEG---RELLRALGKKWHPECFKCSVCGKPLGGDSFYEKDGKPYCEKCY 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|188735 cd09349, LIM1_Zyxin, The first LIM domain of Zyxin

 Score = 44.5 bits (105), Expect = 1e-06
 Identities = 16/33 (48%), Positives = 21/33 (63%)

Query: 98  WHRECFTCSNCSTSLAGQRFTSREDKPFCADCF 130
           +H  CFTC  C   L GQ+F S E KP+C +C+
Sbjct: 55  FHVTCFTCHQCEQQLQGQQFYSLEGKPYCEECY 87

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

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

 Score = 43.2 bits (102), Expect = 2e-06
 Identities = 15/38 (39%), Positives = 22/38 (57%)

Query: 3  YKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCY 40
          YK R WHE CF C  C+  +  K F  +++++ C  CY
Sbjct: 21 YKDRHWHEGCFKCFKCQRSLVDKPFAAKDEDLLCTECY 58

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

>gnl|CDD|188805 cd09421, LIM3_LIMPETin, The third LIM domain of protein LIMPETin

 Score = 43.3 bits (102), Expect = 2e-06
 Identities = 18/45 (40%), Positives = 28/45 (62%)

Query: 86  ITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCF 130
           I S  ++YK++ WH  CF CS C  SL  + F S+ D+ +C +C+
Sbjct: 14  IDSKDLSYKDKHWHEACFLCSKCKISLVDKPFGSKADRIYCGNCY 58

The third LIM domain of protein LIMPETin: LIMPETin contains 6 LIM domains at the C-terminal and an N-terminal PET domain. Four of the six LIM domains are highly homologous to the four and half LIM domain protein family and two of them show sequence similarity to the LIM domains of the testin family. Thus, LIMPETin may be the recombinant product of genes coding testin and FHL proteins. In Schistosoma mansoni, where LIMPETin was first identified, LIMPETin is down regulated in sexually mature adult Schistosoma females compared to sexually immature adult females and adult male. Its differential expression indicates that it is a transcription regulator. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 59

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

 Score = 42.7 bits (101), Expect = 3e-06
 Identities = 15/39 (38%), Positives = 24/39 (61%)

Query: 91  VTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADC 129
           ++++   WH +CF C  CS SL GQ F ++ D+  C +C
Sbjct: 17  ISFEERQWHSDCFNCGKCSVSLVGQGFLTQRDEILCPEC 55

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

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

 Score = 42.4 bits (100), Expect = 3e-06
 Identities = 18/56 (32%), Positives = 27/56 (48%), Gaps = 2/56 (3%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCA 193
           C  C+KPI     ++ +  ++R+WH  CF CA C   L    F+     I+C  C 
Sbjct: 1   CAECRKPIGA--DSKELHHKNRYWHETCFRCAKCYKPLANEPFVAKDNKILCGKCT 54

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

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

 Score = 42.2 bits (100), Expect = 4e-06
 Identities = 16/33 (48%), Positives = 20/33 (60%)

Query: 98  WHRECFTCSNCSTSLAGQRFTSREDKPFCADCF 130
           WH + F C  C   L GQR+  RE KP+C DC+
Sbjct: 23  WHLKHFCCFQCDEPLGGQRYVLREGKPYCLDCY 55

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

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

 Score = 41.9 bits (99), Expect = 5e-06
 Identities = 13/41 (31%), Positives = 20/41 (48%)

Query: 94  KNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELF 134
             + WH ECF C+ C   L    F  ++ K +C   + +LF
Sbjct: 18  LGKVWHPECFRCAVCGKPLGPGDFFEKDGKLYCKHDYFKLF 58

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

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

 Score = 41.7 bits (98), Expect = 7e-06
 Identities = 16/39 (41%), Positives = 22/39 (56%)

Query: 91  VTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADC 129
           V Y+   WH  CF C  CS +LA +RF     + +C+DC
Sbjct: 22  VNYEGSSWHDYCFNCKKCSLNLANKRFVFHNGQIYCSDC 60

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

>gnl|CDD|188805 cd09421, LIM3_LIMPETin, The third LIM domain of protein LIMPETin

 Score = 41.8 bits (98), Expect = 7e-06
 Identities = 18/41 (43%), Positives = 23/41 (56%)

Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYE 41
          + YK + WHE CF C  CK  +  K F  +   IYC NCY+
Sbjct: 19 LSYKDKHWHEACFLCSKCKISLVDKPFGSKADRIYCGNCYD 59

The third LIM domain of protein LIMPETin: LIMPETin contains 6 LIM domains at the C-terminal and an N-terminal PET domain. Four of the six LIM domains are highly homologous to the four and half LIM domain protein family and two of them show sequence similarity to the LIM domains of the testin family. Thus, LIMPETin may be the recombinant product of genes coding testin and FHL proteins. In Schistosoma mansoni, where LIMPETin was first identified, LIMPETin is down regulated in sexually mature adult Schistosoma females compared to sexually immature adult females and adult male. Its differential expression indicates that it is a transcription regulator. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 59

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

 Score = 41.7 bits (98), Expect = 9e-06
 Identities = 14/45 (31%), Positives = 24/45 (53%)

Query: 86  ITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCF 130
             S  ++YK+  WH  CF C  C  SL  + F ++++   C +C+
Sbjct: 14  CDSKDLSYKDRHWHEGCFKCFKCQRSLVDKPFAAKDEDLLCTECY 58

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

>gnl|CDD|188818 cd09434, LIM4_FHL3, The fourth LIM domain of Four and a half LIM domains protein 3 (FHL3)

 Score = 40.9 bits (96), Expect = 1e-05
 Identities = 17/39 (43%), Positives = 23/39 (58%)

Query: 91  VTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADC 129
           V++++  WH+ CF CS CS SL G  F    D+  C DC
Sbjct: 17  VSFEDRQWHQPCFKCSRCSVSLVGAGFFPDGDQILCRDC 55

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

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

 Score = 41.1 bits (97), Expect = 1e-05
 Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 2/55 (3%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDC 192
           C +C K I    G++ + ++ + WH  CF C+ C+  +  + FI   + I C  C
Sbjct: 1   CKACGKAIMP--GSKKMEYKGKFWHEKCFTCSECKKPIGTKSFIPKDDKIYCVPC 53

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

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

 Score = 40.9 bits (96), Expect = 1e-05
 Identities = 14/39 (35%), Positives = 22/39 (56%)

Query: 91  VTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADC 129
           + +KN  WH  CF C+ C   LA + F ++++K  C  C
Sbjct: 15  LHHKNRYWHETCFRCAKCYKPLANEPFVAKDNKILCGKC 53

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

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

 Score = 40.6 bits (95), Expect = 2e-05
 Identities = 19/56 (33%), Positives = 31/56 (55%), Gaps = 2/56 (3%)

Query: 137 RCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDC 192
           +C +C K  T + G+R + +E + WH  CF+C  C+  +  R FI D ++  C  C
Sbjct: 3   KCVACGK--TVMPGSRKLEYEGQTWHEHCFICHGCEQPIGSRSFIPDKDEHYCVPC 56

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

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

 Score = 40.7 bits (95), Expect = 2e-05
 Identities = 17/44 (38%), Positives = 24/44 (54%)

Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKF 44
          + YK R WHE CF C  CK  +  K F  +E+ + C  CY  ++
Sbjct: 19 LSYKDRHWHESCFHCFQCKNSLVDKPFAAKEEHLLCTECYSNEY 62

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

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

 Score = 40.4 bits (95), Expect = 2e-05
 Identities = 14/37 (37%), Positives = 22/37 (59%)

Query: 8  WHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKF 44
          WH +CF C VC  P+G   F  ++ ++YC + Y + F
Sbjct: 22 WHPECFRCAVCGKPLGPGDFFEKDGKLYCKHDYFKLF 58

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

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

 Score = 40.4 bits (95), Expect = 2e-05
 Identities = 15/35 (42%), Positives = 21/35 (60%)

Query: 6  RQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCY 40
          + WH + F C  CKT +GTK+F  R+ + YC   Y
Sbjct: 18 KTWHPEHFVCAECKTELGTKNFFERDGQPYCEKDY 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|214528 smart00132, LIM, Zinc-binding domain present in Lin-11, Isl-1, Mec-3

 Score = 39.7 bits (93), Expect = 3e-05
 Identities = 11/39 (28%), Positives = 21/39 (53%)

Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANC 39
          +    + WH +CF C  C  P+   +F  ++ ++YC +C
Sbjct: 16 LRALGKVWHPECFKCATCGKPLSGDTFFEKDGKLYCKDC 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|188807 cd09423, LIM1_FHL3, The first LIM domain of Four and a half LIM domains protein 3 (FHL3)

 Score = 39.9 bits (93), Expect = 3e-05
 Identities = 23/59 (38%), Positives = 31/59 (52%), Gaps = 2/59 (3%)

Query: 134 FAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDC 192
           FA  C  CK+ I     +R + +EDRH+H  CF C  C  SL    F    E+++C DC
Sbjct: 1   FANTCDECKELIGH--DSRELYYEDRHYHEHCFRCFRCDRSLADEPFTCQDEELLCNDC 57

The first LIM domain of Four and a half LIM domains protein 3 (FHL3): FHL3 is highly expressed in the skeleton and cardiac muscles and possesses the transactivation and repression activities. FHL3 interacts with many transcription factors, such as CREB, BKLF/KLF3, CtBP2, MyoD, and MZF_1. Moreover, FHL3 interacts with alpha- and beta-subunits of the muscle alpha7beta1 integrin receptor. FHL3 was also proved to possess the auto-activation ability and was confirmed that the second zinc finger motif in fourth LIM domain was responsible for the auto-activation of FHL3. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 59

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

 Score = 39.4 bits (92), Expect = 4e-05
 Identities = 13/39 (33%), Positives = 21/39 (53%)

Query: 3  YKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYE 41
          Y+ + WH +CF C  C   +  + F   E + YC +CY+
Sbjct: 15 YQDQPWHSECFVCSSCSKKLAGQRFTAVEDQYYCVDCYK 53

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

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

 Score = 39.6 bits (92), Expect = 4e-05
 Identities = 17/29 (58%), Positives = 19/29 (65%)

Query: 98  WHRECFTCSNCSTSLAGQRFTSREDKPFC 126
           WH  CF CS C  SL GQ F S++DKP C
Sbjct: 22  WHDTCFVCSVCCESLEGQTFFSKKDKPLC 50

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

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

 Score = 39.6 bits (92), Expect = 5e-05
 Identities = 20/55 (36%), Positives = 31/55 (56%), Gaps = 4/55 (7%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDC 192
           C  CKKPIT  G    +++ D+ WH +CF+C  C+  L G+ F +  +   C +C
Sbjct: 1   CVQCKKPITTGG----VTYRDQPWHKECFVCTGCKKQLSGQRFTSRDDFAYCLNC 51

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

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

 Score = 39.4 bits (92), Expect = 5e-05
 Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 2/59 (3%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAK 196
           C  C K I    G + + ++   WH DCF C++C+  +  + F   GED  C  C + K
Sbjct: 1   CKGCYKDILA--GDQNVEYKGNVWHKDCFTCSNCKQPIGTKSFFPKGEDFYCVPCHEKK 57

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

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

 Score = 39.4 bits (92), Expect = 5e-05
 Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 2/54 (3%)

Query: 83  FQIITSGG--VTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELF 134
           ++ I +G   V YK   WH++CFTCSNC   +  + F  + +  +C  C  + F
Sbjct: 5   YKDILAGDQNVEYKGNVWHKDCFTCSNCKQPIGTKSFFPKGEDFYCVPCHEKKF 58

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

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

 Score = 39.0 bits (91), Expect = 7e-05
 Identities = 14/39 (35%), Positives = 24/39 (61%)

Query: 91  VTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADC 129
           +++++  WH +CF C+ C TSL G+ F +   +  C DC
Sbjct: 17  ISFEDRHWHNDCFNCAGCRTSLVGKGFITDGGRILCPDC 55

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

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

 Score = 38.8 bits (91), Expect = 7e-05
 Identities = 13/38 (34%), Positives = 23/38 (60%)

Query: 3  YKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCY 40
          Y+ + WH++CF C  CK  +  + F  R++  YC +C+
Sbjct: 15 YRDQPWHKECFVCTGCKKQLAGQRFTSRDEYPYCVDCF 52

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

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

 Score = 38.2 bits (89), Expect = 1e-04
 Identities = 14/38 (36%), Positives = 22/38 (57%)

Query: 3  YKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCY 40
          YK   WH +CF C  C   +  + F  R+++ YCA+C+
Sbjct: 15 YKNEPWHRECFTCTNCSKSLAGQRFTSRDEKPYCADCF 52

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

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

 Score = 38.4 bits (89), Expect = 1e-04
 Identities = 14/39 (35%), Positives = 22/39 (56%)

Query: 91  VTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADC 129
           ++++   WH +CF C  CS SL G+ F +  D   C +C
Sbjct: 17  ISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPEC 55

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

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

 Score = 38.3 bits (89), Expect = 1e-04
 Identities = 14/40 (35%), Positives = 23/40 (57%)

Query: 91  VTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCF 130
           ++YK+  WH  CF C  C  SL  + F ++E+   C +C+
Sbjct: 19  LSYKDRHWHESCFHCFQCKNSLVDKPFAAKEEHLLCTECY 58

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

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

 Score = 38.2 bits (89), Expect = 1e-04
 Identities = 14/37 (37%), Positives = 21/37 (56%)

Query: 3  YKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANC 39
          +K R WHE CF C  C  P+  + F+ ++ +I C  C
Sbjct: 17 HKNRYWHETCFRCAKCYKPLANEPFVAKDNKILCGKC 53

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

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

 Score = 38.5 bits (90), Expect = 1e-04
 Identities = 16/41 (39%), Positives = 24/41 (58%)

Query: 90  GVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCF 130
           G T  ++ +H +CFTC  C+  L GQ F + E K +C  C+
Sbjct: 14  GCTAMDQVFHVDCFTCMTCNGKLRGQPFYAVEKKAYCEPCY 54

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

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

 Score = 38.2 bits (89), Expect = 1e-04
 Identities = 15/32 (46%), Positives = 19/32 (59%)

Query: 95  NEPWHRECFTCSNCSTSLAGQRFTSREDKPFC 126
              WH  CF C+ C  +L GQ F S++DKP C
Sbjct: 19  GHTWHDTCFVCAVCHVNLEGQTFYSKKDKPLC 50

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

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

 Score = 38.3 bits (89), Expect = 1e-04
 Identities = 15/36 (41%), Positives = 21/36 (58%)

Query: 95  NEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCF 130
           N+ WH   F C  C  SL GQR+  R++ P+C  C+
Sbjct: 20  NKDWHSGHFCCWQCDESLTGQRYVLRDEHPYCIKCY 55

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

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

 Score = 37.8 bits (88), Expect = 2e-04
 Identities = 12/38 (31%), Positives = 20/38 (52%)

Query: 93  YKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCF 130
           YK + WH +CF C  C   +  + F  ++D  +C  C+
Sbjct: 17  YKGQQWHEKCFCCCECKQPIGTKSFIPKDDDVYCVPCY 54

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

>gnl|CDD|188728 cd09342, LIM3_Testin_like, The third LIM domain of Testin-like family

 Score = 37.8 bits (88), Expect = 2e-04
 Identities = 17/38 (44%), Positives = 21/38 (55%), Gaps = 2/38 (5%)

Query: 91  VTYKNEPWH--RECFTCSNCSTSLAGQRFTSREDKPFC 126
           V +  + WH   ECF CSNC  SL GQ F  +  + FC
Sbjct: 15  VAHNGQHWHATEECFCCSNCKKSLLGQPFLPKNGQIFC 52

The third 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 = 57

>gnl|CDD|188818 cd09434, LIM4_FHL3, The fourth LIM domain of Four and a half LIM domains protein 3 (FHL3)

 Score = 37.0 bits (86), Expect = 3e-04
 Identities = 13/37 (35%), Positives = 19/37 (51%)

Query: 3  YKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANC 39
          ++ RQWH+ CF C  C   +    F P   +I C +C
Sbjct: 19 FEDRQWHQPCFKCSRCSVSLVGAGFFPDGDQILCRDC 55

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

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

 Score = 37.2 bits (87), Expect = 3e-04
 Identities = 15/36 (41%), Positives = 22/36 (61%)

Query: 6  RQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYE 41
          + WH K F C  C  P+G + ++ RE + YC +CYE
Sbjct: 21 KNWHLKHFCCFQCDEPLGGQRYVLREGKPYCLDCYE 56

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

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

 Score = 37.3 bits (87), Expect = 3e-04
 Identities = 14/40 (35%), Positives = 21/40 (52%)

Query: 91  VTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCF 130
           VT   + WH E F C+ C T L  + F  R+ +P+C   +
Sbjct: 13  VTALGKTWHPEHFVCAECKTELGTKNFFERDGQPYCEKDY 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|188844 cd09460, LIM3_ZASP_Cypher, The third LIM domain of ZASP/Cypher family

 Score = 37.3 bits (86), Expect = 3e-04
 Identities = 15/29 (51%), Positives = 19/29 (65%)

Query: 98  WHRECFTCSNCSTSLAGQRFTSREDKPFC 126
           WH  CF C+ C  +L GQ F S++DKP C
Sbjct: 22  WHDTCFICAVCHVNLEGQPFYSKKDKPLC 50

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

 Score = 37.0 bits (86), Expect = 3e-04
 Identities = 15/33 (45%), Positives = 19/33 (57%)

Query: 98  WHRECFTCSNCSTSLAGQRFTSREDKPFCADCF 130
           WH + F C  C   L GQR+  RE +P+C  CF
Sbjct: 23  WHMKHFCCFECECQLGGQRYIMREGRPYCCHCF 55

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

 Score = 36.9 bits (85), Expect = 4e-04
 Identities = 15/43 (34%), Positives = 24/43 (55%)

Query: 3  YKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFA 45
          Y+ + WH++CF C  CK  +  + F  R+   YC NC+   +A
Sbjct: 15 YRDQPWHKECFVCTGCKKQLSGQRFTSRDDFAYCLNCFCNLYA 57

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

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

 Score = 36.6 bits (85), Expect = 4e-04
 Identities = 17/55 (30%), Positives = 24/55 (43%), Gaps = 4/55 (7%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDC 192
           C  C + I G     F+    R WH + F C+ C  SL   GF+ +   + C  C
Sbjct: 1   CAHCNQVIRG----PFLVALGRSWHPEEFTCSHCHCSLAEIGFVEEKGSLYCELC 51

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

 Score = 36.3 bits (84), Expect = 5e-04
 Identities = 19/55 (34%), Positives = 28/55 (50%), Gaps = 4/55 (7%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDC 192
           C  C K I   G    +++++  WH +CF C +C  SL G+ F +  E   C DC
Sbjct: 1   CSKCNKIINSGG----VTYKNEPWHRECFTCTNCSKSLAGQRFTSRDEKPYCADC 51

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

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

 Score = 36.5 bits (85), Expect = 5e-04
 Identities = 17/50 (34%), Positives = 27/50 (54%), Gaps = 2/50 (4%)

Query: 83  FQIITSGG--VTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCF 130
            + I  G   + YK + WH +CFTCS C   +  + F  ++DK +C  C+
Sbjct: 5   GKAIMPGSKKMEYKGKFWHEKCFTCSECKKPIGTKSFIPKDDKIYCVPCY 54

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

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

 Score = 36.9 bits (85), Expect = 5e-04
 Identities = 18/52 (34%), Positives = 28/52 (53%), Gaps = 2/52 (3%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIIC 189
           C+ C+ PI    G RF+      WH+ CF+C+ C  SL G+ F +  +  +C
Sbjct: 1   CHGCEFPIEA--GDRFLEALGHTWHDTCFVCSVCCESLEGQTFFSKKDKPLC 50

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

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

 Score = 36.5 bits (85), Expect = 6e-04
 Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 3/49 (6%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGED 186
           C  CK  I   G  RF+S     WH +CF C +C+  +    F   G D
Sbjct: 1   CAGCKSEI---GHGRFLSALGAVWHPECFRCHACRKPIAEHEFSVSGND 46

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|188812 cd09428, LIM2_FHL5, The second LIM domain of Four and a half LIM domains protein 5 (FHL5)

 Score = 36.0 bits (83), Expect = 9e-04
 Identities = 21/55 (38%), Positives = 28/55 (50%), Gaps = 2/55 (3%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDC 192
           C+ CKK I  + G+R + FE   WH  CF+C SCQ  +  +  IT      C  C
Sbjct: 1   CFHCKKTI--MPGSRKLEFEGNEWHETCFVCQSCQQPIGTKPLITKENKNYCVPC 53

The second LIM domain of Four and a half LIM domains protein 5 (FHL5): FHL5 is a tissue-specific coactivator of CREB/CREM family transcription factors , which are highly expressed in male germ cells and is required for post-meiotic gene expression. FHL5 associates with CREM and confers a powerful transcriptional activation function. Activation by CREB has known to occur upon phosphorylation at an essential regulatory site and the subsequent interaction with the ubiquitous coactivator CREB-binding protein (CBP). However, the activation by FHL5 is independent of phosphorylation and CBP association. It represents a new route for transcriptional activation by CREM and CREB. 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|188733 cd09347, LIM4_FHL, The fourth LIM domain of Four and a half LIM domains protein (FHL)

 Score = 35.8 bits (83), Expect = 0.001
 Identities = 13/34 (38%), Positives = 17/34 (50%)

Query: 6  RQWHEKCFACVVCKTPIGTKSFIPREQEIYCANC 39
          RQWH  CF C  C   +  + F+ +  EI C  C
Sbjct: 22 RQWHSDCFNCGKCSVSLVGQGFLTQRDEILCPEC 55

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

>gnl|CDD|188807 cd09423, LIM1_FHL3, The first LIM domain of Four and a half LIM domains protein 3 (FHL3)

 Score = 35.7 bits (82), Expect = 0.001
 Identities = 14/38 (36%), Positives = 23/38 (60%)

Query: 93  YKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCF 130
           Y++  +H  CF C  C  SLA + FT ++++  C DC+
Sbjct: 21  YEDRHYHEHCFRCFRCDRSLADEPFTCQDEELLCNDCY 58

The first LIM domain of Four and a half LIM domains protein 3 (FHL3): FHL3 is highly expressed in the skeleton and cardiac muscles and possesses the transactivation and repression activities. FHL3 interacts with many transcription factors, such as CREB, BKLF/KLF3, CtBP2, MyoD, and MZF_1. Moreover, FHL3 interacts with alpha- and beta-subunits of the muscle alpha7beta1 integrin receptor. FHL3 was also proved to possess the auto-activation ability and was confirmed that the second zinc finger motif in fourth LIM domain was responsible for the auto-activation of FHL3. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 59

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

 Score = 35.8 bits (82), Expect = 0.001
 Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 2/52 (3%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIIC 189
           C+ C  P+    G +FI      WH+ CF+CA C  +L G+ F +  +  +C
Sbjct: 1   CHGCDFPVEA--GDKFIEALGHTWHDTCFICAVCHVNLEGQPFYSKKDKPLC 50

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

 Score = 35.9 bits (83), Expect = 0.001
 Identities = 16/40 (40%), Positives = 23/40 (57%)

Query: 2  EYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYE 41
          E + R WH K F C  C+  +G + +I RE   YC +C+E
Sbjct: 17 EAEGRHWHMKHFCCFECECQLGGQRYIMREGRPYCCHCFE 56

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

>gnl|CDD|188803 cd09419, LIM3_Testin, The third LIM domain of Testin

 Score = 36.0 bits (83), Expect = 0.001
 Identities = 19/39 (48%), Positives = 22/39 (56%), Gaps = 2/39 (5%)

Query: 91  VTYKNEPWH--RECFTCSNCSTSLAGQRFTSREDKPFCA 127
           V+Y N  WH   ECF CS CS  L GQ+F   E   FC+
Sbjct: 15  VSYNNFHWHAEPECFLCSCCSKCLIGQKFMPVEGMVFCS 53

The third LIM domain of Testin: Testin contains three C-terminal LIM domains and a PET protein-protein interaction domain at the N-terminal. Testin is a cytoskeleton associated focal adhesion protein that localizes along actin stress fibers at cell-cell-contact areas and at focal adhesion plaques. Testin interacts with a variety of cytoskeletal proteins, including zyxin, mena, VASP, talin, and actin and it is involved in cell motility and adhesion events. Knockout mice experiments reveal that tumor repressor function of Testin. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 59

>gnl|CDD|188804 cd09420, LIM3_Prickle, The third LIM domain of Prickle

 Score = 35.9 bits (83), Expect = 0.001
 Identities = 16/39 (41%), Positives = 24/39 (61%), Gaps = 2/39 (5%)

Query: 1  MEYKTRQWH--EKCFACVVCKTPIGTKSFIPREQEIYCA 37
          M Y  + WH  EKCF C  CK  +  + F+P++ +IYC+
Sbjct: 17 MTYDGQHWHATEKCFCCAQCKKSLLGRPFLPKQGQIYCS 55

The third 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 = 59

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

 Score = 35.3 bits (81), Expect = 0.001
 Identities = 14/35 (40%), Positives = 19/35 (54%)

Query: 6  RQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCY 40
          R WH + F C  C T +   SF+  +  +YC NCY
Sbjct: 18 RSWHPEEFTCHYCHTSLADVSFVEEQNNVYCENCY 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|188724 cd09338, LIM3_Paxillin_like, The third LIM domain of the paxillin like protein family

 Score = 35.0 bits (81), Expect = 0.001
 Identities = 14/34 (41%), Positives = 15/34 (44%)

Query: 7  QWHEKCFACVVCKTPIGTKSFIPREQEIYCANCY 40
          QWH +CF C  C  P    SF   E   YC   Y
Sbjct: 19 QWHPECFVCRECHKPFINGSFFEHEGLPYCETHY 52

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

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

 Score = 35.1 bits (81), Expect = 0.002
 Identities = 14/37 (37%), Positives = 19/37 (51%)

Query: 3  YKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANC 39
          ++ R WH  CF C  C+T +  K FI     I C +C
Sbjct: 19 FEDRHWHNDCFNCAGCRTSLVGKGFITDGGRILCPDC 55

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

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

 Score = 34.6 bits (79), Expect = 0.002
 Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 2/55 (3%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDC 192
           C  CKK I  + GTR + ++   WH  CF+C  CQ  +  + FI       C  C
Sbjct: 1   CSECKKTI--MPGTRKMEYKGNSWHETCFICQRCQQPIGTKSFIPKDNQNFCVPC 53

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

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

 Score = 35.0 bits (81), Expect = 0.002
 Identities = 15/55 (27%), Positives = 18/55 (32%), Gaps = 2/55 (3%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDC 192
           C  C KPI             + WH +CF CA C   L    F      + C   
Sbjct: 1   CAGCGKPIYDRE--LVRRALGKVWHPECFRCAVCGKPLGPGDFFEKDGKLYCKHD 53

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

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

 Score = 35.1 bits (81), Expect = 0.002
 Identities = 18/52 (34%), Positives = 27/52 (51%), Gaps = 2/52 (3%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIIC 189
           C+ C  PI    G RF+      WH+ CF+CA C  +L G+ F +  +  +C
Sbjct: 1   CHGCDFPIEA--GDRFLEALGHTWHDTCFVCAVCHVNLEGQTFYSKKDKPLC 50

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

>gnl|CDD|188728 cd09342, LIM3_Testin_like, The third LIM domain of Testin-like family

 Score = 34.7 bits (80), Expect = 0.002
 Identities = 21/59 (35%), Positives = 33/59 (55%), Gaps = 5/59 (8%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWH--NDCFMCASCQSSLVGRGFITDGEDIIC-PDCA 193
           C +C +PI G    R ++   +HWH   +CF C++C+ SL+G+ F+     I C P C 
Sbjct: 1   CDACGEPI-GPDVQR-VAHNGQHWHATEECFCCSNCKKSLLGQPFLPKNGQIFCSPKCK 57

The third 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 = 57

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

 Score = 35.0 bits (81), Expect = 0.002
 Identities = 14/33 (42%), Positives = 18/33 (54%)

Query: 98  WHRECFTCSNCSTSLAGQRFTSREDKPFCADCF 130
           WH E FTCS+C  SLA   F   +   +C  C+
Sbjct: 20  WHPEEFTCSHCHCSLAEIGFVEEKGSLYCELCY 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|188712 cd09326, LIM_CRP_like, The LIM domains of Cysteine Rich Protein (CRP) family

 Score = 34.9 bits (81), Expect = 0.002
 Identities = 13/36 (36%), Positives = 20/36 (55%)

Query: 5  TRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCY 40
           + WH+ CF C VC   + + +    + EIYC +CY
Sbjct: 18 GKSWHKSCFTCAVCNKRLDSTTLAEHDGEIYCKSCY 53

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

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

 Score = 35.1 bits (81), Expect = 0.002
 Identities = 15/33 (45%), Positives = 16/33 (48%)

Query: 8  WHEKCFACVVCKTPIGTKSFIPREQEIYCANCY 40
          WH  CF C  CK PIG   F   + E YC   Y
Sbjct: 20 WHVSCFVCAACKQPIGNSLFHMEDGEPYCEKDY 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|188758 cd09372, LIM2_FBLP-1, The second LIM domain of the filamin-binding LIM protein-1 (FBLP-1)

 Score = 34.7 bits (80), Expect = 0.002
 Identities = 16/36 (44%), Positives = 21/36 (58%), Gaps = 1/36 (2%)

Query: 6  RQWHEKCFACVVCKTPIGTKSFIPREQ-EIYCANCY 40
          + +H  CF CV C   IG +SF   EQ E+YC + Y
Sbjct: 18 KGYHPPCFTCVTCGRRIGDESFAVDEQNEVYCLDDY 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|188722 cd09336, LIM1_Paxillin_like, The first LIM domain of the paxillin like protein family

 Score = 34.2 bits (79), Expect = 0.003
 Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 4/43 (9%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGF 180
           C +CKKPI G    + ++   + WH + F+CA C++ L  + F
Sbjct: 1   CAACKKPIVG----QVVTALGKTWHPEHFVCAECKTELGTKNF 39

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|188842 cd09458, LIM3_Enigma, The third LIM domain of Enigma

 Score = 34.6 bits (79), Expect = 0.003
 Identities = 14/29 (48%), Positives = 19/29 (65%)

Query: 98  WHRECFTCSNCSTSLAGQRFTSREDKPFC 126
           WH  CF C+ C  +L G+ F S++DKP C
Sbjct: 22  WHDTCFVCAICQINLEGKTFYSKKDKPLC 50

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

 Score = 34.6 bits (80), Expect = 0.003
 Identities = 14/41 (34%), Positives = 23/41 (56%), Gaps = 4/41 (9%)

Query: 3  YKTRQWHEKCFACVVCKTPIGTKS----FIPREQEIYCANC 39
          ++ ++WH KCF C  C   I ++     F  ++Q I C+NC
Sbjct: 15 FEDKRWHLKCFTCSRCHREISSELSDAAFNNKDQRILCSNC 55

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

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

 Score = 34.6 bits (79), Expect = 0.003
 Identities = 15/33 (45%), Positives = 17/33 (51%)

Query: 8  WHEKCFACVVCKTPIGTKSFIPREQEIYCANCY 40
          WH  CF C  CKTPI  ++F   E   YC   Y
Sbjct: 20 WHVHCFTCAACKTPIRNRAFYMEEGAPYCERDY 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|188785 cd09401, LIM_TLP_like, The LIM domains of thymus LIM protein (TLP)

 Score = 34.2 bits (79), Expect = 0.003
 Identities = 11/33 (33%), Positives = 17/33 (51%)

Query: 98  WHRECFTCSNCSTSLAGQRFTSREDKPFCADCF 130
           WH+ C  C  C  +L   + +  E KP+C  C+
Sbjct: 21  WHKPCLRCEKCKKTLTPGQHSEHEGKPYCNKCY 53

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

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

 Score = 34.3 bits (78), Expect = 0.004
 Identities = 12/38 (31%), Positives = 19/38 (50%)

Query: 93  YKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCF 130
           YK   WH  CF C  C   +  + F  ++++ FC  C+
Sbjct: 17  YKGNSWHETCFICQRCQQPIGTKSFIPKDNQNFCVPCY 54

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

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

 Score = 34.1 bits (79), Expect = 0.004
 Identities = 11/36 (30%), Positives = 16/36 (44%)

Query: 157 EDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDC 192
           E ++WH   F C  C   L G+ ++       C DC
Sbjct: 19  EGKNWHLKHFCCFQCDEPLGGQRYVLREGKPYCLDC 54

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|188804 cd09420, LIM3_Prickle, The third LIM domain of Prickle

 Score = 34.0 bits (78), Expect = 0.004
 Identities = 19/54 (35%), Positives = 31/54 (57%), Gaps = 4/54 (7%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWH--NDCFMCASCQSSLVGRGFITDGEDIIC 189
           C +C + I G+   + ++++ +HWH    CF CA C+ SL+GR F+     I C
Sbjct: 3   CDTCGEHI-GVDQGQ-MTYDGQHWHATEKCFCCAQCKKSLLGRPFLPKQGQIYC 54

The third 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 = 59

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

 Score = 34.2 bits (79), Expect = 0.004
 Identities = 14/43 (32%), Positives = 19/43 (44%), Gaps = 4/43 (9%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGF 180
           C  C KPI       +IS  +  WH +CF+C  C    +   F
Sbjct: 1   CGGCNKPILE----NYISALNTQWHPECFVCRECHKPFINGSF 39

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

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

 Score = 34.2 bits (79), Expect = 0.004
 Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 4/54 (7%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPD 191
           CY C K   G      +  +D+++H  CF C  C   L   GF     +  C D
Sbjct: 1   CYKCGKKCKG----EVLRVQDKYFHIKCFTCKVCGCDLAQGGFFVKEGEYYCTD 50

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|188739 cd09353, LIM2_Zyxin, The second LIM domain of Zyxin

 Score = 34.1 bits (78), Expect = 0.004
 Identities = 17/43 (39%), Positives = 26/43 (60%), Gaps = 1/43 (2%)

Query: 6  RQWHEKCFACVVCKTPIGTKSFIPREQEI-YCANCYEEKFATR 47
          + +H +CF CVVCK P+  +SFI  +    +C N Y  ++A R
Sbjct: 18 KSYHPQCFTCVVCKCPLEGESFIVDQANQPHCVNDYHRRYAPR 60

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

 Score = 33.8 bits (78), Expect = 0.004
 Identities = 11/33 (33%), Positives = 17/33 (51%), Gaps = 1/33 (3%)

Query: 98  WHRECFTCSNCSTSLAGQRFTSREDKPFCADCF 130
           WH  CF C  C   L G+ +  ++ KP+C   +
Sbjct: 21  WHVWCFKCKECGKVLTGE-YMGKDGKPYCERDY 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|188871 cd09840, LIM2_CRP2, The second LIM domain of Cysteine Rich Protein 2 (CRP2)

 Score = 33.9 bits (77), Expect = 0.004
 Identities = 13/36 (36%), Positives = 20/36 (55%)

Query: 96  EPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFG 131
           +PWH+ CF C+ C  SL     T +E + +C  C+ 
Sbjct: 19  KPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYA 54

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	198
KOG1701|consensus	468		100.0
KOG2272|consensus	332		100.0
KOG2272|consensus	332		99.96
KOG1703|consensus	479		99.95
KOG1044|consensus	670		99.93
KOG1701|consensus	468		99.89
KOG1044|consensus	670		99.87
KOG1703|consensus	479		99.86
KOG4577|consensus	383		99.83
KOG4577|consensus	383		99.72
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.52
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.46
KOG1700|consensus	200		99.34
KOG1700|consensus	200		99.21
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.79
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.49
KOG0490|consensus	235		97.2
KOG0490|consensus	235		96.81
KOG1702|consensus	264		96.44
KOG1702|consensus	264		96.21
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	91.71
PF14634	44	zf-RING_5: zinc-RING finger domain	87.47
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	86.46
PF08394	37	Arc_trans_TRASH: Archaeal TRASH domain; InterPro:	84.14
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	81.1

>KOG1701|consensus

Probab=100.00  E-value=7.8e-39  Score=262.11  Aligned_cols=165  Identities=29%  Similarity=0.708  Sum_probs=151.7

Q ss_pred             CccCCcccCcCCcccCCCCCCCCCCCcccCCCeecchhhHHhhhcccccccccccccccccccccccCCcccccceeeee
Q psy8131           1 MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFY   80 (198)
Q Consensus         1 ~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (198)
                      +++|++.||.+||+|..|++.|.++.||..|+++||+.||... ..+|..|++                           
T Consensus       291 c~Am~~~fHv~CFtC~~C~r~L~Gq~FY~v~~k~~CE~cyq~t-lekC~~Cg~---------------------------  342 (468)
T KOG1701|consen  291 VEAMDQLFHVQCFTCRTCRRQLAGQSFYQVDGKPYCEGCYQDT-LEKCNKCGE---------------------------  342 (468)
T ss_pred             HHHhhhhhcccceehHhhhhhhccccccccCCcccchHHHHHH-HHHHhhhhh---------------------------
Confidence            3689999999999999999999999999999999999999886 569999999                           


Q ss_pred             eeeeeeccCceEeCCcCccccCCCCccCcCCCCCCceeec-CCcccchhhHhhhhccCCCCCCCCCcCCCCc---eEEee
Q psy8131          81 FLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSR-EDKPFCADCFGELFAKRCYSCKKPITGIGGT---RFISF  156 (198)
Q Consensus        81 ~~~~~i~~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~-~g~~yC~~c~~~~~~~~C~~C~~~I~~~~~~---~~~~~  156 (198)
                          +|.+..+.+.|+.||+.||+|..|++.|++..|.++ ++++||.+||+++|+++|+.|++||.+.+|.   ..|++
T Consensus       343 ----~I~d~iLrA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfAPrCs~C~~PI~P~~G~~etvRvva  418 (468)
T KOG1701|consen  343 ----PIMDRILRALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFAPRCSVCGNPILPRDGKDETVRVVA  418 (468)
T ss_pred             ----HHHHHHHHhcccccCCCceEEEEeccccCCccccccCCCceeeehhhhhhcCcchhhccCCccCCCCCcceEEEEE
Confidence                777888899999999999999999999999999876 6999999999999999999999999876544   35789


Q ss_pred             CCCcccccCcccCcCCCCCC----CCceEecCCceeCcccccccC
Q psy8131         157 EDRHWHNDCFMCASCQSSLV----GRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       157 ~~~~~H~~Cf~C~~C~~~l~----~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      +++.||.+|++|..|+..|+    +...+..|+.++|+.|..+++
T Consensus       419 mdr~fHv~CY~CEDCg~~LS~e~e~qgCyPld~HllCk~Ch~~Rl  463 (468)
T KOG1701|consen  419 MDRDFHVNCYKCEDCGLLLSSEEEGQGCYPLDGHLLCKTCHLKRL  463 (468)
T ss_pred             ccccccccceehhhcCccccccCCCCcceeccCceeechhhhhhh
Confidence            99999999999999999995    567899999999999988765

>KOG2272|consensus

Probab=100.00  E-value=8.2e-37  Score=235.04  Aligned_cols=162  Identities=28%  Similarity=0.682  Sum_probs=141.5

Q ss_pred             CccCCcccCcCCcccCCCCCCCCCCCcccCCCeecchhhHHhhhcccccccccccccccccccccccCCcccccceeeee
Q psy8131           1 MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFY   80 (198)
Q Consensus         1 ~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (198)
                      |..+|..||.+||+|++|..||.++.|++.+|+.||+.++..+|+|.|.+|++                           
T Consensus        29 vns~ge~wH~~CFvCAQCf~pf~~g~~~efEgRkYCEhDF~~LfaPcC~kC~E---------------------------   81 (332)
T KOG2272|consen   29 VNSNGELWHEQCFVCAQCFRPFPDGIFYEFEGRKYCEHDFHVLFAPCCGKCGE---------------------------   81 (332)
T ss_pred             hccCchhhHHHHHHHHHhcCcCCCceeEEecCcccccccchhhhchhhccccc---------------------------
Confidence            35689999999999999999999999999999999999999999999999999                           


Q ss_pred             eeeeeeccCceEeCCcCccccCCCCccCcCCCCCCceeecC---------------------------------------
Q psy8131          81 FLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSRE---------------------------------------  121 (198)
Q Consensus        81 ~~~~~i~~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~---------------------------------------  121 (198)
                          .|-+++|.+++..|||.||+|..|++.|.+..|+-..                                       
T Consensus        82 ----FiiGrVikamnnSwHp~CF~Cd~Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~~~l~fr~d  157 (332)
T KOG2272|consen   82 ----FIIGRVIKAMNNSWHPACFRCDLCNKHLADQGFYRNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDEQPLTFRGD  157 (332)
T ss_pred             ----chhhHHHHhhccccCcccchhHHHHHHHhhhhhHhhcchHHhhhhhhhhcccccceeehhhhhhhcccccccccCC
Confidence                5567778888999999999888888877655443333                                       


Q ss_pred             ------------------------CcccchhhHhhhhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCC
Q psy8131         122 ------------------------DKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVG  177 (198)
Q Consensus       122 ------------------------g~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~  177 (198)
                                              |.+||.+|+++.--|+|..|.+||.+    ++|.++|+.||.++|+|+.|.+|+-|
T Consensus       158 ~yH~yHFkCt~C~keL~sdaRevk~eLyClrChD~mgipiCgaC~rpIee----rvi~amgKhWHveHFvCa~CekPFlG  233 (332)
T KOG2272|consen  158 PYHPYHFKCTTCGKELTSDAREVKGELYCLRCHDKMGIPICGACRRPIEE----RVIFAMGKHWHVEHFVCAKCEKPFLG  233 (332)
T ss_pred             CCCccceecccccccccchhhhhccceeccccccccCCcccccccCchHH----HHHHHhccccchhheeehhcCCcccc
Confidence                                    45566666655556899999999986    78999999999999999999999999


Q ss_pred             CceEecCCceeCcccccccC
Q psy8131         178 RGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       178 ~~~~~~~~~~~C~~C~~~~~  197 (198)
                      -+.+...|.+||+++|.++|
T Consensus       234 HrHYEkkGlaYCe~h~~qLf  253 (332)
T KOG2272|consen  234 HRHYEKKGLAYCETHYHQLF  253 (332)
T ss_pred             hhhhhhcCchhHHHHHHHHh
Confidence            99999999999999998876

>KOG2272|consensus

Probab=99.96  E-value=4.9e-31  Score=203.21  Aligned_cols=159  Identities=23%  Similarity=0.643  Sum_probs=147.2

Q ss_pred             CccCCcccCcCCcccCCCCCCCCCCCcccCCCeecchhhHHhhhcccccccccccccccccccccccCCcccccceeeee
Q psy8131           1 MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFY   80 (198)
Q Consensus         1 ~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (198)
                      |.+.|..||+-+|+|+.|++.|.+..- +..|++||..|+++.--|.|..|.+                           
T Consensus       152 l~fr~d~yH~yHFkCt~C~keL~sdaR-evk~eLyClrChD~mgipiCgaC~r---------------------------  203 (332)
T KOG2272|consen  152 LTFRGDPYHPYHFKCTTCGKELTSDAR-EVKGELYCLRCHDKMGIPICGACRR---------------------------  203 (332)
T ss_pred             ccccCCCCCccceecccccccccchhh-hhccceeccccccccCCcccccccC---------------------------
Confidence            457889999999999999999997543 6778999999999998999999999                           


Q ss_pred             eeeeeeccCceEeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhhhccCCCCCCCCCcCCCCceEEeeCCCc
Q psy8131          81 FLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRH  160 (198)
Q Consensus        81 ~~~~~i~~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~  160 (198)
                          +|++++|.++|+.||.++|+|+.|.+|+-+-..+++.|..||+.+|.++|+..|..|+++|.+    .++++.++.
T Consensus       204 ----pIeervi~amgKhWHveHFvCa~CekPFlGHrHYEkkGlaYCe~h~~qLfG~~CF~C~~~i~G----~vv~al~Ka  275 (332)
T KOG2272|consen  204 ----PIEERVIFAMGKHWHVEHFVCAKCEKPFLGHRHYEKKGLAYCETHYHQLFGNLCFICNRVIGG----DVVSALNKA  275 (332)
T ss_pred             ----chHHHHHHHhccccchhheeehhcCCcccchhhhhhcCchhHHHHHHHHhhhhheecCCccCc----cHHHHhhhh
Confidence                788889999999999999999999999977779999999999999999999999999999987    678999999


Q ss_pred             ccccCcccCcCCCCC-CCCceEecCCceeCcccccc
Q psy8131         161 WHNDCFMCASCQSSL-VGRGFITDGEDIICPDCAKA  195 (198)
Q Consensus       161 ~H~~Cf~C~~C~~~l-~~~~~~~~~~~~~C~~C~~~  195 (198)
                      |-++||+|+.|++.| ....|+..|-.|.|+.||++
T Consensus       276 wCv~cf~Cs~Cdkkl~~K~Kf~E~DmkP~CKkCy~r  311 (332)
T KOG2272|consen  276 WCVECFSCSTCDKKLTQKNKFYEFDMKPVCKKCYDR  311 (332)
T ss_pred             hccccccccccccccccccceeeeccchHHHHHHhh
Confidence            999999999999999 46689999999999999973

>KOG1703|consensus

Probab=99.95  E-value=8.4e-29  Score=214.57  Aligned_cols=160  Identities=30%  Similarity=0.733  Sum_probs=150.6

Q ss_pred             CccCCcccCcCCcccCCCCCCCCCCCcccCCCeecchhhHHhhhcccccccccccccccccccccccCCcccccceeeee
Q psy8131           1 MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFY   80 (198)
Q Consensus         1 ~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (198)
                      +.++++.||+.+|.|..|...+....+.+.+|.+||..|+...++|+|.+|+.                           
T Consensus       319 i~~~~~~~h~~~~~c~~~~~~~~~~~~~~~~g~~~c~~~~~~~~~p~C~~C~~---------------------------  371 (479)
T KOG1703|consen  319 IVALGKEWHPEHFSCEVCAIVILDGGPRELDGKILCHECFHAPFRPNCKRCLL---------------------------  371 (479)
T ss_pred             EeeccccccccceeeccccccccCCCccccCCCccHHHHHHHhhCccccccCC---------------------------
Confidence            35689999999999999999999999999999999999999999999999999                           


Q ss_pred             eeeeeeccCceEeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhhhccCCCCCCCCCcCCCCceEEeeCCCc
Q psy8131          81 FLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRH  160 (198)
Q Consensus        81 ~~~~~i~~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~  160 (198)
                          +|.+..|.+.++.||++||.|..|+++|.+..|++.++.+||+.||.+++.++|..|.++|..  ++..+.+.+..
T Consensus       372 ----~i~~~~v~a~~~~wH~~cf~C~~C~~~~~~~~~~~~~~~pyce~~~~~~~~~~~~~~~~p~~~--~~~~ie~~~~~  445 (479)
T KOG1703|consen  372 ----PILEEGVCALGRLWHPECFVCADCGKPLKNSSFFESDGEPYCEDHYKKLFTTKCDYCKKPVEF--GSRQIEADGSP  445 (479)
T ss_pred             ----chHHhHhhhccCeechhceeeecccCCCCCCcccccCCccchhhhHhhhccccchhccchhHh--hhhHhhccCcc
Confidence                677778888899999999999999999999999999999999999999999999999999874  24789999999


Q ss_pred             ccccCcccCcCCCCCCCCceEecCCceeCcccc
Q psy8131         161 WHNDCFMCASCQSSLVGRGFITDGEDIICPDCA  193 (198)
Q Consensus       161 ~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~  193 (198)
                      ||..||+|+.|.+.|.++.|+...++++|..|+
T Consensus       446 ~h~~~F~c~~c~~~l~~~~~~~~~~~p~c~~~~  478 (479)
T KOG1703|consen  446 FHGDCFRCANCMKKLTKKTFFETLDKPLCQKHF  478 (479)
T ss_pred             ccccceehhhhhccccCCceeecCCccccccCC
Confidence            999999999999999999999999999999985

>KOG1044|consensus

Probab=99.93  E-value=2.3e-27  Score=200.83  Aligned_cols=159  Identities=27%  Similarity=0.764  Sum_probs=139.7

Q ss_pred             CccCCcccCcCCcccCCCCCCCCCCC-cccCCCeecchhhHHhh-------hc-ccccccccccccccccccccccCCcc
Q psy8131           1 MEYKTRQWHEKCFACVVCKTPIGTKS-FIPREQEIYCANCYEEK-------FA-TRCVKCNKTFFRLREKGTFQSHSGRI   71 (198)
Q Consensus         1 ~~~~~~~~H~~CF~C~~C~~~L~~~~-f~~~~g~~yC~~cy~~~-------~~-~~C~~C~~~~~~~~~~~~~~~~~~~~   71 (198)
                      |.++|++||+.||+|++|+.++.... ...-+....|+.|..-.       .. ..|++|++.                 
T Consensus        80 vsa~gktyh~~cf~cs~ck~pf~~g~~vt~~gk~~~c~~c~~~~~~~p~~~~~ps~cagc~~~-----------------  142 (670)
T KOG1044|consen   80 VSTLGKTYHPKCFSCSTCKSPFKSGDKVTFSGKECLCQTCSQPMPVSPAESYGPSTCAGCGEE-----------------  142 (670)
T ss_pred             EecccceeccccceecccCCCCCCCCeeeecchhhhhhhhcCcccCCcccccCCccccchhhh-----------------
Confidence            46899999999999999999998643 33456677888887432       12 268888884                 


Q ss_pred             cccceeeeeeeeeeeccCceEeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhhhccCCCCCCCCCcCCCCc
Q psy8131          72 NKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGT  151 (198)
Q Consensus        72 ~~~~~~~~~~~~~~i~~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~~C~~~I~~~~~~  151 (198)
                                   +..++.+.+++++||..||+|..|...|.++ +..+||.+||+.||.+.|+.+|..|.+.|.+    
T Consensus       143 -------------lk~gq~llald~qwhv~cfkc~~c~~vL~ge-y~skdg~pyce~dy~~~fgvkc~~c~~fisg----  204 (670)
T KOG1044|consen  143 -------------LKNGQALLALDKQWHVSCFKCKSCSAVLNGE-YMSKDGVPYCEKDYQAKFGVKCEECEKFISG----  204 (670)
T ss_pred             -------------hhccceeeeeccceeeeeeehhhhcccccce-eeccCCCcchhhhhhhhcCeehHHhhhhhhh----
Confidence                         5678889999999999999999999999877 9999999999999999999999999999998    


Q ss_pred             eEEeeCCCcccccCcccCcCCCCC-CCCceEecCCceeCccccc
Q psy8131         152 RFISFEDRHWHNDCFMCASCQSSL-VGRGFITDGEDIICPDCAK  194 (198)
Q Consensus       152 ~~~~~~~~~~H~~Cf~C~~C~~~l-~~~~~~~~~~~~~C~~C~~  194 (198)
                      +++.|.|++||+.|.+|+.|+..+ .|+++++.+..+|-..|-.
T Consensus       205 kvLqag~kh~HPtCARCsRCgqmF~eGEEMYlQGs~iWHP~C~q  248 (670)
T KOG1044|consen  205 KVLQAGDKHFHPTCARCSRCGQMFGEGEEMYLQGSEIWHPDCKQ  248 (670)
T ss_pred             hhhhccCcccCcchhhhhhhccccccchheeeccccccCCcccc
Confidence            789999999999999999999999 7999999999999888854

>KOG1701|consensus

Probab=99.89  E-value=2.4e-25  Score=183.02  Aligned_cols=105  Identities=30%  Similarity=0.747  Sum_probs=97.9

Q ss_pred             cCceEeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhhhccCCCCCCCCCcCCCCceEEeeCCCcccccCcc
Q psy8131          88 SGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFM  167 (198)
Q Consensus        88 ~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~  167 (198)
                      +..++++++.||..||+|..|++.|.++.||..|+++||+.||... ..+|..|+++|.+    +++.|.|+.||+.||+
T Consensus       288 ~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~v~~k~~CE~cyq~t-lekC~~Cg~~I~d----~iLrA~GkayHp~CF~  362 (468)
T KOG1701|consen  288 GLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQVDGKPYCEGCYQDT-LEKCNKCGEPIMD----RILRALGKAYHPGCFT  362 (468)
T ss_pred             chHHHHhhhhhcccceehHhhhhhhccccccccCCcccchHHHHHH-HHHHhhhhhHHHH----HHHHhcccccCCCceE
Confidence            4477899999999999999999999999999999999999999664 6999999999997    8999999999999999


Q ss_pred             cCcCCCCCCCCceEec-CCceeCcccccccC
Q psy8131         168 CASCQSSLVGRGFITD-GEDIICPDCAKAKL  197 (198)
Q Consensus       168 C~~C~~~l~~~~~~~~-~~~~~C~~C~~~~~  197 (198)
                      |..|++.|+|..|.++ ++++||..+|-++|
T Consensus       363 Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kf  393 (468)
T KOG1701|consen  363 CVVCARCLDGIPFTVDSQNNVYCVPDFHKKF  393 (468)
T ss_pred             EEEeccccCCccccccCCCceeeehhhhhhc
Confidence            9999999999999987 77999999998775

>KOG1044|consensus

Probab=99.87  E-value=3.8e-23  Score=175.42  Aligned_cols=152  Identities=22%  Similarity=0.612  Sum_probs=127.2

Q ss_pred             CccCCcccCcCCcccCCCCCCCCCCCcccCCCeecchhhHHhhhcccccccccccccccccccccccCCcccccceeeee
Q psy8131           1 MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFY   80 (198)
Q Consensus         1 ~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (198)
                      |.+.++.||..||+|..|+..|+...|+.++++        +++++  ..|.+                           
T Consensus        31 lrv~d~~fhi~cf~c~~cg~~la~~gff~k~~~--------~~ygt--~~c~~---------------------------   73 (670)
T KOG1044|consen   31 LRVNDNHFHINCFQCKKCGRNLAEGGFFTKPEN--------RLYGT--DDCRA---------------------------   73 (670)
T ss_pred             eEeeccccceeeeeccccCCCcccccceecccc--------eeecc--cchhh---------------------------
Confidence            467899999999999999999999999988776        33343  55666                           


Q ss_pred             eeeeeeccCceEeCCcCccccCCCCccCcCCC-CCCceeecCCcccchhhHhhh--------hccCCCCCCCCCcCCCCc
Q psy8131          81 FLFQIITSGGVTYKNEPWHRECFTCSNCSTSL-AGQRFTSREDKPFCADCFGEL--------FAKRCYSCKKPITGIGGT  151 (198)
Q Consensus        81 ~~~~~i~~~~~~~~~~~~H~~CF~C~~C~~~l-~~~~~~~~~g~~yC~~c~~~~--------~~~~C~~C~~~I~~~~~~  151 (198)
                          .+++..|.++|++||++||.|+.|+.|+ .+...........|+.|..-.        .-..|++|++.|..+   
T Consensus        74 ----~~~gevvsa~gktyh~~cf~cs~ck~pf~~g~~vt~~gk~~~c~~c~~~~~~~p~~~~~ps~cagc~~~lk~g---  146 (670)
T KOG1044|consen   74 ----FVEGEVVSTLGKTYHPKCFSCSTCKSPFKSGDKVTFSGKECLCQTCSQPMPVSPAESYGPSTCAGCGEELKNG---  146 (670)
T ss_pred             ----hccceeEecccceeccccceecccCCCCCCCCeeeecchhhhhhhhcCcccCCcccccCCccccchhhhhhcc---
Confidence                7788889999999999999999999999 455555666778899886321        124799999999763   


Q ss_pred             eEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         152 RFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       152 ~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      +++.|+++.||..||+|..|...|.|+ ++..++.|||..+|.+.|
T Consensus       147 q~llald~qwhv~cfkc~~c~~vL~ge-y~skdg~pyce~dy~~~f  191 (670)
T KOG1044|consen  147 QALLALDKQWHVSCFKCKSCSAVLNGE-YMSKDGVPYCEKDYQAKF  191 (670)
T ss_pred             ceeeeeccceeeeeeehhhhcccccce-eeccCCCcchhhhhhhhc
Confidence            788999999999999999999999886 678888999999998875

>KOG1703|consensus

Probab=99.86  E-value=1.1e-22  Score=176.58  Aligned_cols=160  Identities=22%  Similarity=0.427  Sum_probs=149.7

Q ss_pred             cCCcccCcCCcccC-CCCCCCCCCCcccCCCeecchhhHHhhhcccccccccccccccccccccccCCcccccceeeeee
Q psy8131           3 YKTRQWHEKCFACV-VCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYF   81 (198)
Q Consensus         3 ~~~~~~H~~CF~C~-~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (198)
                      +....||...++|. .+...|....++.+.+...+..+|.....|+|..|++                            
T Consensus       260 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~c~~c~~----------------------------  311 (479)
T KOG1703|consen  260 APRPASEGLHMKVEKELPLLLVESEALKKLREEEKPAEYHNVTRPLCLSCNQ----------------------------  311 (479)
T ss_pred             cccccccccccccccccchhhccccccccccccccccccccccccccccccc----------------------------
Confidence            46778999999999 8999999999999999999999998888999999999                            


Q ss_pred             eeeeecc-CceEeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhhhccCCCCCCCCCcCCCCceEEeeCCCc
Q psy8131          82 LFQIITS-GGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRH  160 (198)
Q Consensus        82 ~~~~i~~-~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~  160 (198)
                         +|.+ ..++++++.||+.+|.|+.|...+....+...+|++||.+|+.+.++++|.+|+++|.+    .+|.+.++.
T Consensus       312 ---~i~~~~~i~~~~~~~h~~~~~c~~~~~~~~~~~~~~~~g~~~c~~~~~~~~~p~C~~C~~~i~~----~~v~a~~~~  384 (479)
T KOG1703|consen  312 ---KIRSVKVIVALGKEWHPEHFSCEVCAIVILDGGPRELDGKILCHECFHAPFRPNCKRCLLPILE----EGVCALGRL  384 (479)
T ss_pred             ---CcccceeEeeccccccccceeeccccccccCCCccccCCCccHHHHHHHhhCccccccCCchHH----hHhhhccCe
Confidence               6777 88899999999999999999999987778899999999999999999999999999998    678889999


Q ss_pred             ccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         161 WHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       161 ~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      ||++||.|..|+++|.+..|+..++.+||..||..++
T Consensus       385 wH~~cf~C~~C~~~~~~~~~~~~~~~pyce~~~~~~~  421 (479)
T KOG1703|consen  385 WHPECFVCADCGKPLKNSSFFESDGEPYCEDHYKKLF  421 (479)
T ss_pred             echhceeeecccCCCCCCcccccCCccchhhhHhhhc
Confidence            9999999999999999999999999999999999876

>KOG4577|consensus

Probab=99.83  E-value=8.8e-23  Score=160.27  Aligned_cols=109  Identities=27%  Similarity=0.589  Sum_probs=95.3

Q ss_pred             eeccCce-EeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhhhccCCCCCCCCCcCCCCceEEeeCCCcccc
Q psy8131          85 IITSGGV-TYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHN  163 (198)
Q Consensus        85 ~i~~~~~-~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~  163 (198)
                      .|.+..| .++++.||..|++|+.|..+|... ++.++|.+||+++|.++|+.+|++|+..|.+.  ..+..|.+..||.
T Consensus        42 ~IlDrFilKvl~R~wHs~CLkCs~C~~qL~dr-CFsR~~s~yCkedFfKrfGTKCsaC~~GIpPt--qVVRkAqd~VYHl  118 (383)
T KOG4577|consen   42 HILDRFILKVLDRHWHSSCLKCSDCHDQLADR-CFSREGSVYCKEDFFKRFGTKCSACQEGIPPT--QVVRKAQDFVYHL  118 (383)
T ss_pred             HHHHHHHHHHHhhhhhhhhcchhhhhhHHHHH-HhhcCCceeehHHHHHHhCCcchhhcCCCChH--HHHHHhhcceeeh
Confidence            4555543 578999999999999999999776 88999999999999999999999999999884  2456889999999


Q ss_pred             cCcccCcCCCCC-CCCceEec-CCceeCccccccc
Q psy8131         164 DCFMCASCQSSL-VGRGFITD-GEDIICPDCAKAK  196 (198)
Q Consensus       164 ~Cf~C~~C~~~l-~~~~~~~~-~~~~~C~~C~~~~  196 (198)
                      +||.|..|+++| +|++|++. +.+++|+.-|++.
T Consensus       119 ~CF~C~iC~R~L~TGdEFYLmeD~rLvCK~DYE~A  153 (383)
T KOG4577|consen  119 HCFACFICKRQLATGDEFYLMEDARLVCKDDYETA  153 (383)
T ss_pred             hhhhhHhhhcccccCCeeEEeccceeehhhhHHHH
Confidence            999999999999 78888875 6799999988753

>KOG4577|consensus

Probab=99.72  E-value=4e-19  Score=139.76  Aligned_cols=108  Identities=26%  Similarity=0.661  Sum_probs=91.5

Q ss_pred             ccCCcccCcCCcccCCCCCCCCCCCcccCCCeecchhhHHhhhcccccccccccccccccccccccCCcccccceeeeee
Q psy8131           2 EYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYF   81 (198)
Q Consensus         2 ~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (198)
                      .++++.||..|++|+.|..+|.++.| .++|.+||++++.++|+.+|.+|+.+|                          
T Consensus        50 Kvl~R~wHs~CLkCs~C~~qL~drCF-sR~~s~yCkedFfKrfGTKCsaC~~GI--------------------------  102 (383)
T KOG4577|consen   50 KVLDRHWHSSCLKCSDCHDQLADRCF-SREGSVYCKEDFFKRFGTKCSACQEGI--------------------------  102 (383)
T ss_pred             HHHhhhhhhhhcchhhhhhHHHHHHh-hcCCceeehHHHHHHhCCcchhhcCCC--------------------------
Confidence            57899999999999999999999877 599999999999999999999999975                          


Q ss_pred             eeeeeccCceEeCCcCccccCCCCccCcCCC-CCCcee-ecCCcccchhhHhhhhccCCC
Q psy8131          82 LFQIITSGGVTYKNEPWHRECFTCSNCSTSL-AGQRFT-SREDKPFCADCFGELFAKRCY  139 (198)
Q Consensus        82 ~~~~i~~~~~~~~~~~~H~~CF~C~~C~~~l-~~~~~~-~~~g~~yC~~c~~~~~~~~C~  139 (198)
                         +.+.-+..+.+..||..||.|..|++.| .++.|| +.|.++.|+++|+..-..-|.
T Consensus       103 ---pPtqVVRkAqd~VYHl~CF~C~iC~R~L~TGdEFYLmeD~rLvCK~DYE~Ak~k~~~  159 (383)
T KOG4577|consen  103 ---PPTQVVRKAQDFVYHLHCFACFICKRQLATGDEFYLMEDARLVCKDDYETAKQKHCN  159 (383)
T ss_pred             ---ChHHHHHHhhcceeehhhhhhHhhhcccccCCeeEEeccceeehhhhHHHHHhcccc
Confidence               3332233577889999999999999999 455565 568999999999876666553

>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=99.52  E-value=6e-15  Score=92.03  Aligned_cols=58  Identities=31%  Similarity=0.783  Sum_probs=52.0

Q ss_pred             CCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       138 C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      |++|+++|.+.  +.++.+.|+.||++||+|..|+++|.+..++..++++||..||.++|
T Consensus         1 C~~C~~~I~~~--~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~f   58 (58)
T PF00412_consen    1 CARCGKPIYGT--EIVIKAMGKFWHPECFKCSKCGKPLNDGDFYEKDGKPYCKDCYQKRF   58 (58)
T ss_dssp             BTTTSSBESSS--SEEEEETTEEEETTTSBETTTTCBTTTSSEEEETTEEEEHHHHHHHT
T ss_pred             CCCCCCCccCc--EEEEEeCCcEEEccccccCCCCCccCCCeeEeECCEEECHHHHhhhC
Confidence            78999999973  35557999999999999999999998877999999999999998875

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=99.46  E-value=5.2e-14  Score=87.76  Aligned_cols=50  Identities=34%  Similarity=0.869  Sum_probs=43.2

Q ss_pred             eeccCce--EeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhhh
Q psy8131          85 IITSGGV--TYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELF  134 (198)
Q Consensus        85 ~i~~~~~--~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~  134 (198)
                      +|.+..+  .++|+.||++||+|+.|+++|.+..++..+|++||+.||.++|
T Consensus         7 ~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~f   58 (58)
T PF00412_consen    7 PIYGTEIVIKAMGKFWHPECFKCSKCGKPLNDGDFYEKDGKPYCKDCYQKRF   58 (58)
T ss_dssp             BESSSSEEEEETTEEEETTTSBETTTTCBTTTSSEEEETTEEEEHHHHHHHT
T ss_pred             CccCcEEEEEeCCcEEEccccccCCCCCccCCCeeEeECCEEECHHHHhhhC
Confidence            4444433  4899999999999999999998888999999999999998875

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

>KOG1700|consensus

Probab=99.34  E-value=1.6e-13  Score=106.14  Aligned_cols=106  Identities=22%  Similarity=0.604  Sum_probs=91.0

Q ss_pred             ceEeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhhhcc---------------------------------
Q psy8131          90 GVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAK---------------------------------  136 (198)
Q Consensus        90 ~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~---------------------------------  136 (198)
                      .+...|..||+.||+|..|.+.|....+...++.+||+.+|...+++                                 
T Consensus        22 ~~~~~g~~~hk~c~~c~~~~k~l~~~~~~~~e~~~yc~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (200)
T KOG1700|consen   22 KVQKDGVDFHKECFKCEKCKKTLTLSGYSEHEGVPYCKNCHVAQFGPKGGGFGKGFQKAGGLGKDGKSLNESKPNQSAKF  101 (200)
T ss_pred             HHhccCcchhhhHHhccccccccccccccccccccccccchHhhhCcccccccccccccCCCCcccccccccccccchhH
Confidence            34477889999999999999999888899999999999977665542                                 


Q ss_pred             --------CCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccCC
Q psy8131         137 --------RCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKLM  198 (198)
Q Consensus       137 --------~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~~  198 (198)
                              .|..|++.+.+.   .-+...+..||..||+|+.|+..|+...+....+.++|...+.++++
T Consensus       102 ~~~~g~~~~c~~c~k~vy~~---Ek~~~~~~~~hk~cfrc~~~~~~ls~~~~~~~~g~l~~~~~~~~~~~  168 (200)
T KOG1700|consen  102 QVFAGEKEKCARCQKTVYPL---EKVTGNGLEFHKSCFRCTHCGKKLSPKNYAALEGVLYCKHHFAQLFK  168 (200)
T ss_pred             Hhhhccccccccccceeeeh---HHHhhhhhhhhhhheeecccccccCCcchhhcCCccccchhhheeec
Confidence                    799999998863   44678899999999999999999999899999999999988777653

>KOG1700|consensus

Probab=99.21  E-value=2.9e-12  Score=99.23  Aligned_cols=131  Identities=21%  Similarity=0.463  Sum_probs=87.8

Q ss_pred             cCCcccCcCCcccCCCCCCCCCCCcccCCCeecchhhHHhhhccccccccccccccccccc-------ccccCCcccccc
Q psy8131           3 YKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLREKGT-------FQSHSGRINKVY   75 (198)
Q Consensus         3 ~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~~~~~~~~~~-------~~~~~~~~~~~~   75 (198)
                      ..|..||+.||.|..|.+.|+...+.++++.+||+.+|...++|.-..-++.+......+.       .....+......
T Consensus        25 ~~g~~~hk~c~~c~~~~k~l~~~~~~~~e~~~yc~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  104 (200)
T KOG1700|consen   25 KDGVDFHKECFKCEKCKKTLTLSGYSEHEGVPYCKNCHVAQFGPKGGGFGKGFQKAGGLGKDGKSLNESKPNQSAKFQVF  104 (200)
T ss_pred             ccCcchhhhHHhccccccccccccccccccccccccchHhhhCcccccccccccccCCCCcccccccccccccchhHHhh
Confidence            4688999999999999999999999999999999999999998876666653221111000       000000000000


Q ss_pred             ee---eeeeeee-eeccCceEeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhh
Q psy8131          76 SI---LFYFLFQ-IITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGEL  133 (198)
Q Consensus        76 ~~---~~~~~~~-~i~~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~  133 (198)
                      .+   .+..+.. +.....+...+..||..||+|+.|+..|+...+...++.+||...+.++
T Consensus       105 ~g~~~~c~~c~k~vy~~Ek~~~~~~~~hk~cfrc~~~~~~ls~~~~~~~~g~l~~~~~~~~~  166 (200)
T KOG1700|consen  105 AGEKEKCARCQKTVYPLEKVTGNGLEFHKSCFRCTHCGKKLSPKNYAALEGVLYCKHHFAQL  166 (200)
T ss_pred             hccccccccccceeeehHHHhhhhhhhhhhheeecccccccCCcchhhcCCccccchhhhee
Confidence            00   0001110 1111234457789999999999999999999899999999998776554

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

Probab=98.79  E-value=5.8e-09  Score=59.15  Aligned_cols=38  Identities=34%  Similarity=0.869  Sum_probs=33.8

Q ss_pred             CCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCC
Q psy8131         137 RCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLV  176 (198)
Q Consensus       137 ~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~  176 (198)
                      +|.+|+++|.+.  +..+.+.++.||++||+|..|+++|.
T Consensus         1 ~C~~C~~~i~~~--~~~~~~~~~~~H~~Cf~C~~C~~~L~   38 (39)
T smart00132        1 KCAGCGKPIRGG--ELVLRALGKVWHPECFKCSKCGKPLG   38 (39)
T ss_pred             CccccCCcccCC--cEEEEeCCccccccCCCCcccCCcCc
Confidence            589999999873  36788999999999999999999985

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=98.49  E-value=9.3e-08  Score=54.04  Aligned_cols=25  Identities=36%  Similarity=0.830  Sum_probs=22.2

Q ss_pred             CceEeCCcCccccCCCCccCcCCCC
Q psy8131          89 GGVTYKNEPWHRECFTCSNCSTSLA  113 (198)
Q Consensus        89 ~~~~~~~~~~H~~CF~C~~C~~~l~  113 (198)
                      ..+.+.++.||++||+|..|+++|.
T Consensus        14 ~~~~~~~~~~H~~Cf~C~~C~~~L~   38 (39)
T smart00132       14 LVLRALGKVWHPECFKCSKCGKPLG   38 (39)
T ss_pred             EEEEeCCccccccCCCCcccCCcCc
Confidence            4567889999999999999999985

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=97.20  E-value=3.8e-05  Score=60.67  Aligned_cols=100  Identities=24%  Similarity=0.547  Sum_probs=79.1

Q ss_pred             EeCCcCccccCCCCccCcCCCC--CCceeecCCcccchhhHhh--hhccCCCCCCCCCcCCCCceEEeeCCCcccccCcc
Q psy8131          92 TYKNEPWHRECFTCSNCSTSLA--GQRFTSREDKPFCADCFGE--LFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFM  167 (198)
Q Consensus        92 ~~~~~~~H~~CF~C~~C~~~l~--~~~~~~~~g~~yC~~c~~~--~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~  167 (198)
                      ...+..||..|..|..|..+|.  ...+.. +|..||..+|..  .+..+|++|...|...  +.+..+..+. |..||.
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~~d~~~~~~~~~rr~rt~~~~~ql--~~ler~f~~~-h~Pd~~   88 (235)
T KOG0490|consen   13 RVLDRYWHASCLKCAECDNPLGVGDTCFSK-DGSIYCKRDYQREFKFSKRCARCKFTISQL--DELERAFEKV-HLPCFA   88 (235)
T ss_pred             hcccHHHHHHHHhhhhhcchhccCCCcccC-CCcccccccchhhhhccccccCCCCCcCHH--HHHHHhhcCC-CcCccc
Confidence            3448899999999999999996  444444 999999999988  7888999999999652  3555677777 999999


Q ss_pred             cCcCCCCC-CCCceEec-CCceeCcccccc
Q psy8131         168 CASCQSSL-VGRGFITD-GEDIICPDCAKA  195 (198)
Q Consensus       168 C~~C~~~l-~~~~~~~~-~~~~~C~~C~~~  195 (198)
                      |..|.+.+ .+.++.+. +.+..|...+.+
T Consensus        89 ~r~~la~~~~~~e~rVqvwFqnrrak~r~~  118 (235)
T KOG0490|consen   89 CRECLALLLTGDEFRVQVWFQNRRAKDRKE  118 (235)
T ss_pred             hHHHHhhcCCCCeeeeehhhhhhcHhhhhh
Confidence            99999977 66666655 447777776644

>KOG0490|consensus

Probab=96.81  E-value=0.00018  Score=56.79  Aligned_cols=99  Identities=30%  Similarity=0.647  Sum_probs=74.1

Q ss_pred             cCCcccCcCCcccCCCCCCCC--CCCcccCCCeecchhhHHh--hhcccccccccccccccccccccccCCcccccceee
Q psy8131           3 YKTRQWHEKCFACVVCKTPIG--TKSFIPREQEIYCANCYEE--KFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSIL   78 (198)
Q Consensus         3 ~~~~~~H~~CF~C~~C~~~L~--~~~f~~~~g~~yC~~cy~~--~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (198)
                      +.+..||..|..|..|..+|.  ...|.. +|..||..+|..  .+..+|.+|...+..+                    
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~~d~~~~~~~~~rr~rt~~~~~ql--------------------   72 (235)
T KOG0490|consen   14 VLDRYWHASCLKCAECDNPLGVGDTCFSK-DGSIYCKRDYQREFKFSKRCARCKFTISQL--------------------   72 (235)
T ss_pred             cccHHHHHHHHhhhhhcchhccCCCcccC-CCcccccccchhhhhccccccCCCCCcCHH--------------------
Confidence            457889999999999999998  667766 999999999998  7778999998853211                    


Q ss_pred             eeeeeeeeccCceEeCCcCccccCCCCccCcCCC-CCCceeecCC-cccchhhHhh
Q psy8131          79 FYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSL-AGQRFTSRED-KPFCADCFGE  132 (198)
Q Consensus        79 ~~~~~~~i~~~~~~~~~~~~H~~CF~C~~C~~~l-~~~~~~~~~g-~~yC~~c~~~  132 (198)
                               +....+..+. |.-||.|..|...+ ....+.+.+. +.+|...+.+
T Consensus        73 ---------~~ler~f~~~-h~Pd~~~r~~la~~~~~~e~rVqvwFqnrrak~r~~  118 (235)
T KOG0490|consen   73 ---------DELERAFEKV-HLPCFACRECLALLLTGDEFRVQVWFQNRRAKDRKE  118 (235)
T ss_pred             ---------HHHHHhhcCC-CcCccchHHHHhhcCCCCeeeeehhhhhhcHhhhhh
Confidence                     1111233444 98999999998866 4555666654 8888887754

>KOG1702|consensus

Probab=96.44  E-value=0.00032  Score=53.72  Aligned_cols=44  Identities=27%  Similarity=0.773  Sum_probs=39.2

Q ss_pred             ccCCcccCcCCcccCCCCCCCCCCCcccCCCeecchhhHHhhhc
Q psy8131           2 EYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFA   45 (198)
Q Consensus         2 ~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~   45 (198)
                      .-+++.||..||.|.+|+-+|.-+.+.-.|.++||-.+|.+..+
T Consensus        21 ~cldk~whk~cfkce~c~mtlnmKnyKgy~kkpycn~hYpkq~a   64 (264)
T KOG1702|consen   21 KCLDKVWHKQCFKCEVCGMTLNMKNYKGYDKKPYCNPHYPKQVA   64 (264)
T ss_pred             hhHHHHHHHHhheeeeccCChhhhhccccccCCCcCccccccee
Confidence            34688999999999999999998889889999999999987654

>KOG1702|consensus

Probab=96.21  E-value=0.00045  Score=52.90  Aligned_cols=58  Identities=19%  Similarity=0.444  Sum_probs=47.2

Q ss_pred             cCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCccccccc
Q psy8131         136 KRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAK  196 (198)
Q Consensus       136 ~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~  196 (198)
                      +.|..|++.+.+-   .-+.-+++.||..||+|..|+.+|.-..+--.+.++||..+|...
T Consensus         5 ~n~~~cgk~vYPv---E~v~cldk~whk~cfkce~c~mtlnmKnyKgy~kkpycn~hYpkq   62 (264)
T KOG1702|consen    5 CNREDCGKTVYPV---EEVKCLDKVWHKQCFKCEVCGMTLNMKNYKGYDKKPYCNPHYPKQ   62 (264)
T ss_pred             chhhhhccccccH---HHHhhHHHHHHHHhheeeeccCChhhhhccccccCCCcCcccccc
Confidence            4466788877762   346778999999999999999999777776678899999998754

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=91.71  E-value=0.11  Score=31.43  Aligned_cols=39  Identities=21%  Similarity=0.564  Sum_probs=26.3

Q ss_pred             ccCCCCCCCCCcCCCCceEE--eeCCCcccccCc----ccCc--CCCCC
Q psy8131         135 AKRCYSCKKPITGIGGTRFI--SFEDRHWHNDCF----MCAS--CQSSL  175 (198)
Q Consensus       135 ~~~C~~C~~~I~~~~~~~~~--~~~~~~~H~~Cf----~C~~--C~~~l  175 (198)
                      +.+|..|+++|..+  +.+|  ..-+..||.+|+    .|..  |+.++
T Consensus         5 ~~~C~~Cg~~~~~~--dDiVvCp~CgapyHR~C~~~~g~C~~~~c~~~~   51 (54)
T PF14446_consen    5 GCKCPVCGKKFKDG--DDIVVCPECGAPYHRDCWEKAGGCINYSCGTGF   51 (54)
T ss_pred             CccChhhCCcccCC--CCEEECCCCCCcccHHHHhhCCceEeccCCCCc
Confidence            57899999999753  2333  445788898888    4665  55544

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=87.47  E-value=0.9  Score=25.98  Aligned_cols=39  Identities=26%  Similarity=0.642  Sum_probs=28.0

Q ss_pred             CccCcCCC-CCCceeecC-CcccchhhHhhhh--ccCCCCCCC
Q psy8131         105 CSNCSTSL-AGQRFTSRE-DKPFCADCFGELF--AKRCYSCKK  143 (198)
Q Consensus       105 C~~C~~~l-~~~~~~~~~-g~~yC~~c~~~~~--~~~C~~C~~  143 (198)
                      |..|.+.+ ....+.+.. |.++|..|..+..  ...|..|++
T Consensus         2 C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    2 CNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            67787777 333444444 9999999998876  567888764

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

Probab=86.46  E-value=0.67  Score=29.05  Aligned_cols=46  Identities=22%  Similarity=0.483  Sum_probs=24.2

Q ss_pred             CCCccCcCCCCCCceeecCCcccchhhHhhhhccCCCCCCCCCcCC
Q psy8131         103 FTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGI  148 (198)
Q Consensus       103 F~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~~C~~~I~~~  148 (198)
                      ++|+.|..-|........=+.+||..|-...++..|..|..|....
T Consensus         8 LrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~~CPvC~~Paw~q   53 (65)
T PF14835_consen    8 LRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGSECPVCHTPAWIQ   53 (65)
T ss_dssp             TS-SSS-S--SS-B---SSS--B-TTTGGGGTTTB-SSS--B-S-S
T ss_pred             cCCcHHHHHhcCCceeccCccHHHHHHhHHhcCCCCCCcCChHHHH
Confidence            6889998877654333445789999999888899999999998753

>PF08394 Arc_trans_TRASH: Archaeal TRASH domain; InterPro: IPR013603 This region is found in the C terminus of a number of archaeal transcriptional regulators

Probab=84.14  E-value=0.64  Score=25.82  Aligned_cols=33  Identities=27%  Similarity=0.647  Sum_probs=22.2

Q ss_pred             CCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCC
Q psy8131         138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSL  175 (198)
Q Consensus       138 C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l  175 (198)
                      |.-|+++|.+.+  .++...++.||   |-|..|.+.|
T Consensus         1 Cd~CG~~I~~eP--~~~k~~~~~y~---fCC~tC~~~f   33 (37)
T PF08394_consen    1 CDYCGGEITGEP--IVVKIGNKVYY---FCCPTCLSQF   33 (37)
T ss_pred             CCccCCcccCCE--EEEEECCeEEE---EECHHHHHHH
Confidence            677899998742  45677888887   4555555443

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

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

Probab=81.10  E-value=1.4  Score=30.04  Aligned_cols=29  Identities=21%  Similarity=0.426  Sum_probs=17.4

Q ss_pred             cCCCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         136 KRCYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       136 ~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      ..|+.|+++|...  .-++-..|..+|..|+
T Consensus        79 ~~C~vC~k~l~~~--~f~~~p~~~v~H~~C~  107 (109)
T PF10367_consen   79 TKCSVCGKPLGNS--VFVVFPCGHVVHYSCI  107 (109)
T ss_pred             CCccCcCCcCCCc--eEEEeCCCeEEecccc
Confidence            4678888887652  2333444566777665

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

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	198
2cuq_A	80	Solution Structure Of Second Lim Domain From Human		3e-18
2cuq_A	80	Solution Structure Of Second Lim Domain From Human		9e-07
1x4l_A	72	Solution Structure Of Lim Domain In Four And A Half		8e-17
2d8z_A	70	Solution Structure Of The Third Lim Domain Of Four		9e-13
2d8z_A	70	Solution Structure Of The Third Lim Domain Of Four		2e-04
1x68_A	76	Solution Structures Of The C-Terminal Lim Domain Of		2e-12
2cur_A	69	Solution Structure Of Skeletal Muscle Lim-Protein 1		2e-12
2cur_A	69	Solution Structure Of Skeletal Muscle Lim-Protein 1		2e-05
2egq_A	77	Solution Structure Of The Fourth Lim Domain From Hu		4e-12
1x4k_A	72	Solution Structure Of Lim Domain In Lim-Protein 3 L		5e-10
1wyh_A	72	Solution Structure Of The Lim Domain From Human Ske		6e-09
2xqn_T	126	Complex Of The 2nd And 3rd Lim Domains Of Tes With		2e-08
1x63_A	82	Solution Structure Of The Second Lim Domain Of Skel		2e-08
1x63_A	82	Solution Structure Of The Second Lim Domain Of Skel		1e-05
2cup_A	101	Solution Structure Of The Skeletal Muscle Lim-Prote		7e-08
2cup_A	101	Solution Structure Of The Skeletal Muscle Lim-Prote		2e-04
2xjy_A	131	Crystal Structure Of The Lmo2:ldb1-Lid Complex, P21		3e-06
2ehe_A	82	Solution Structure Of The First Lim Domain From Hum		1e-05
2rgt_A	169	Crystal Structure Of Lhx3 Lim Domains 1 And 2 With		3e-05
2jtn_A	182	Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Compl		4e-05
1b8t_A	192	Solution Structure Of The Chicken Crp1 Length = 192		7e-05
3mmk_A	169	The Structural Basis For Partial Redundancy In A Cl		3e-04
1cxx_A	113	Mutant R122a Of Quail Cysteine And Glycine-Rich Pro		7e-04
1qli_A	113	Quail Cysteine And Glycine-Rich Protein, Nmr, 15 Mi		7e-04

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

Iteration: 1
 Score = 87.8 bits (216), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 43/98 (43%), Positives = 54/98 (55%), Gaps = 31/98 (31%)
Query: 39  CYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPW 98
           CYE KFA RC +C+KT                               +T GGVTY+++PW
Sbjct: 9   CYENKFAPRCARCSKT-------------------------------LTQGGVTYRDQPW 37
Query: 99  HRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAK 136
           HREC  C+ C T LAGQ+FTSR++ P+C  CFGELFA 
Sbjct: 38  HRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELFAS 75

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

Iteration: 1
 Score = 50.1 bits (118), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 23/66 (34%), Positives = 34/66 (51%), Gaps = 4/66 (6%)
Query: 127 ADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGED 186
             C+   FA RC  C K +T  G    +++ D+ WH +C +C  CQ+ L G+ F +  ED
Sbjct: 7   GPCYENKFAPRCARCSKTLTQGG----VTYRDQPWHRECLVCTGCQTPLAGQQFTSRDED 62
Query: 187 IICPDC 192
             C  C
Sbjct: 63  PYCVAC 68

>pdb|1X4L|A Chain A, Solution Structure Of Lim Domain In Four And A Half Lim Domains Protein 2 Length = 72

Iteration: 1
 Score = 83.6 bits (205), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 34/52 (65%), Positives = 43/52 (82%)
Query: 143 KPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAK 194
            PI+G+GGT++ISFE+R WHNDCF C  C  SLVGRGF+T+ +DI+CPDC K
Sbjct: 13  NPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGK 64

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

Iteration: 1
 Score = 69.7 bits (169), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 28/50 (56%), Positives = 40/50 (80%)
Query: 86  ITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFA 135
           IT+GGVTY+ +PWH+ECF C+ C   L+GQRFT+R+D  +C +CF +L+A
Sbjct: 15  ITTGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLYA 64

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

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 33/62 (53%), Gaps = 4/62 (6%)
Query: 131 GELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICP 190
           G   +  C  CKKPIT  G    +++ ++ WH +CF+C +C+  L G+ F    +   C 
Sbjct: 1   GSSGSSGCVQCKKPITTGG----VTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCL 56
Query: 191 DC 192
           +C
Sbjct: 57  NC 58

>pdb|1X68|A Chain A, Solution Structures Of The C-Terminal Lim Domain Of Human Fhl5 Protein Length = 76

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 28/65 (43%), Positives = 40/65 (61%)
Query: 131 GELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICP 190
           G   +  C +C KPI+G+ G +FI F+D  WH++CF C  C  SLVG+GF+T  ++I C 
Sbjct: 1   GSSGSSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQ 60
Query: 191 DCAKA 195
            C   
Sbjct: 61  KCGSG 65

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

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 27/47 (57%), Positives = 37/47 (78%)
Query: 84  QIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCF 130
           + ITSGG+TY+++PWH +CF C  CS  LAGQRFT+ ED+ +C DC+
Sbjct: 13  KAITSGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCY 59

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

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 23/64 (35%), Positives = 32/64 (50%), Gaps = 4/64 (6%)
Query: 131 GELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICP 190
           G   +  C  C K IT  G    I+++D+ WH DCF+C +C   L G+ F    +   C 
Sbjct: 1   GSSGSSGCVKCNKAITSGG----ITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCV 56
Query: 191 DCAK 194
           DC K
Sbjct: 57  DCYK 60

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

Iteration: 1
 Score = 67.8 bits (164), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 29/69 (42%), Positives = 41/69 (59%), Gaps = 1/69 (1%)
Query: 127 ADCFGELFAKRCYSCKKPITGIG-GTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGE 185
            DC+    AK+C  CK PITG G G+  +++E + WH+ CF C  C  +L  + F+   E
Sbjct: 7   GDCYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQE 66
Query: 186 DIICPDCAK 194
            + CPDCAK
Sbjct: 67  QVYCPDCAK 75

>pdb|1X4K|A Chain A, Solution Structure Of Lim Domain In Lim-Protein 3 Length = 72

Iteration: 1
 Score = 60.8 bits (146), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 25/46 (54%), Positives = 33/46 (71%)
Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFAT 46
          MEYK   WHE CF C  C+ PIGTKSFIP++ + +C  CYE++ A+
Sbjct: 22 MEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQHAS 67

>pdb|1WYH|A Chain A, Solution Structure Of The Lim Domain From Human Skeletal Muscle Lim-Protein 2 Length = 72

Iteration: 1
 Score = 57.0 bits (136), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 22/46 (47%), Positives = 31/46 (67%)
Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFAT 46
          +EY  + WHE CF C  C+ P+G++SF+P +   YC  CYE KFA+
Sbjct: 22 LEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFAS 67

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

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 28/99 (28%), Positives = 50/99 (50%), Gaps = 4/99 (4%)
Query: 85  IITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKP 144
           I ++     +N+ WH + F C +C + LAG+ +    DKP C  C+ +  A  C  C   
Sbjct: 13  IFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVVCQGCHNA 72
Query: 145 ITGIGGTRFISFEDRHWH--NDCFMCASCQSSLVGRGFI 181
           I      + +++ +  WH   +CF+C+ C   L+G+ F+
Sbjct: 73  ID--PEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFM 109

>pdb|1X63|A Chain A, Solution Structure Of The Second Lim Domain Of Skeletal Muscle Lim Protein 1 Length = 82

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 23/46 (50%), Positives = 30/46 (65%)
Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFAT 46
          +EYK   WH+ CF C  CK  IGT SF P+ ++ YC  C+E KFA+
Sbjct: 32 VEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKFAS 77

>pdb|1X63|A Chain A, Solution Structure Of The Second Lim Domain Of Skeletal Muscle Lim Protein 1 Length = 82

Iteration: 1
 Score = 45.8 bits (107), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 25/89 (28%), Positives = 39/89 (43%), Gaps = 14/89 (15%)
Query: 110 TSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCA 169
           +S +  + T+RED P C  CF  + A              G + + ++   WH DCF C+
Sbjct: 2   SSGSSGKCTTREDSPKCKGCFKAIVA--------------GDQNVEYKGTVWHKDCFTCS 47
Query: 170 SCQSSLVGRGFITDGEDIICPDCAKAKLM 198
           +C+  +    F   GED  C  C + K  
Sbjct: 48  NCKQVIGTGSFFPKGEDFYCVTCHETKFA 76

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

Iteration: 1
 Score = 53.5 bits (127), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 26/76 (34%), Positives = 39/76 (51%), Gaps = 2/76 (2%)
Query: 91  VTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGG 150
           V YKN  WH  CF C+ C   LA + F ++++K  C  C     + +C  C K I  + G
Sbjct: 22  VHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSPKCKGCFKAI--VAG 79
Query: 151 TRFISFEDRHWHNDCF 166
            + + ++   WH DCF
Sbjct: 80  DQNVEYKGTVWHKDCF 95

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

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 19/62 (30%), Positives = 30/62 (48%), Gaps = 2/62 (3%)
Query: 131 GELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICP 190
           G   +  C  C+KPI     ++ + +++R WH+ CF CA C   L    F+     I+C 
Sbjct: 1   GSSGSSGCVECRKPIGA--DSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCN 58
Query: 191 DC 192
            C
Sbjct: 59  KC 60

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 30/101 (29%), Positives = 48/101 (47%), Gaps = 7/101 (6%)
Query: 95  NEPWHRECFTCSNCSTSLA--GQRFTSREDKPFCADCFGELFAKR--CYSCKKPITGIGG 150
           ++ WH +C +C  C   L   G+R   +  +  C   +  LF +   C SC K I     
Sbjct: 22  DQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIRAYEM 81
Query: 151 TRFISFEDRHWHNDCFMCASCQSSL-VGRGFITDGEDIICP 190
           T  +  +D+ +H +CF CA+CQ    VG  ++    DI+C 
Sbjct: 82  T--MRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCE 120

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

Iteration: 1
 Score = 45.8 bits (107), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 23/64 (35%), Positives = 33/64 (51%), Gaps = 2/64 (3%)
Query: 129 CFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDII 188
           C+   FA  C  C++ I     +R + +EDRH+H  CF C  CQ SL    F     +++
Sbjct: 9   CYDNTFANTCAECQQLIGH--DSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELL 66
Query: 189 CPDC 192
           C DC
Sbjct: 67  CNDC 70

>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 = 44.7 bits (104), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 27/80 (33%), Positives = 41/80 (51%), Gaps = 5/80 (6%)
Query: 98  WHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGTRFI-SF 156
           WH +C  CS+C   LA +R  SR +  +C D F + F  +C +C+    GI  T+ +   
Sbjct: 29  WHSKCLKCSDCHVPLA-ERCFSRGESVYCKDDFFKRFGTKCAACQ---LGIPPTQVVRRA 84
Query: 157 EDRHWHNDCFMCASCQSSLV 176
           +D  +H  CF C  C+  L 
Sbjct: 85  QDFVYHLHCFACVVCKRQLA 104

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 27/80 (33%), Positives = 41/80 (51%), Gaps = 5/80 (6%)
Query: 98  WHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGTRFI-SF 156
           WH +C  CS+C   LA +R  SR +  +C D F + F  +C +C+    GI  T+ +   
Sbjct: 83  WHSKCLKCSDCHVPLA-ERCFSRGESVYCKDDFFKRFGTKCAACQ---LGIPPTQVVRRA 138
Query: 157 EDRHWHNDCFMCASCQSSLV 176
           +D  +H  CF C  C+  L 
Sbjct: 139 QDFVYHLHCFACVVCKRQLA 158

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 33/148 (22%), Positives = 60/148 (40%), Gaps = 18/148 (12%)
Query: 8   WHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLR-EKGT--- 63
           +H+ CF C+VCK  + + +      EIYC +CY +K+  +          L  +KG    
Sbjct: 30  FHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTDKGESLG 89
Query: 64  FQSHSGRINKVYSILFYFLFQIITS-------GGVTYKNE-------PWHRECFTCSNCS 109
            +   G+ ++  +     + Q +         G   Y  E        WH+ CF C+ C 
Sbjct: 90  IKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCG 149
Query: 110 TSLAGQRFTSREDKPFCADCFGELFAKR 137
            SL       ++ + +C  C+ + F  +
Sbjct: 150 KSLESTTLADKDGEIYCKGCYAKNFGPK 177

>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 = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 28/101 (27%), Positives = 47/101 (46%), Gaps = 13/101 (12%)
Query: 77  ILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAK 136
           IL  F+ +++        +  WH  C  C++C   LA + F SR    +C + F + F  
Sbjct: 16  ILDKFILKVL--------DRHWHSSCLKCADCQMQLADRCF-SRAGSVYCKEDFFKRFGT 66
Query: 137 RCYSCKKPITGIGGTRFI-SFEDRHWHNDCFMCASCQSSLV 176
           +C +C++   GI  T+ +   +D  +H  CF C  C   L 
Sbjct: 67  KCTACQQ---GIPPTQVVRKAQDFVYHLHCFACIICNRQLA 104

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

Iteration: 1
 Score = 40.4 bits (93), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 17/62 (27%), Positives = 30/62 (48%), Gaps = 6/62 (9%)
Query: 79  FYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRC 138
            Y   ++I +G      +PWH+ CF C+ C  SL     T +E + +C  C+ + F  + 
Sbjct: 46  VYAAEKVIGAG------KPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFGPKG 99
Query: 139 YS 140
           + 
Sbjct: 100 FG 101

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

Iteration: 1
 Score = 40.0 bits (92), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 17/62 (27%), Positives = 30/62 (48%), Gaps = 6/62 (9%)
Query: 79  FYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRC 138
            Y   ++I +G      +PWH+ CF C+ C  SL     T +E + +C  C+ + F  + 
Sbjct: 46  VYAAEKVIGAG------KPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFGPKG 99
Query: 139 YS 140
           + 
Sbjct: 100 FG 101

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	198
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	8e-30
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	2e-23
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	7e-08
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	1e-25
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	9e-18
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	1e-13
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	4e-06
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	7e-24
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	6e-10
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	2e-09
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	9e-23
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	3e-16
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	1e-10
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	3e-11
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	2e-21
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	5e-15
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	3e-08
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	2e-21
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	1e-10
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	5e-09
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	3e-21
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	6e-16
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	4e-07
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	6e-21
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	1e-11
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	5e-10
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	2e-18
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	1e-13
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	2e-10
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	3e-18
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	9e-15
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	2e-14
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	4e-18
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	2e-11
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	5e-11
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	3e-17
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	2e-11
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	4e-11
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	9e-17
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	2e-14
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	7e-06
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	1e-16
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	4e-15
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	1e-11
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	3e-16
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	1e-13
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	4e-06
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	3e-14
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	6e-14
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	2e-11
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	3e-14
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	4e-11
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	8e-11
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	3e-14
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	1e-13
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	2e-11
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	1e-13
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	7e-10
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	3e-08
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	2e-13
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	3e-11
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	5e-10
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	8e-13
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	1e-09
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	3e-09
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	2e-12
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	8e-10
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	2e-08
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	2e-12
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	2e-09
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	1e-08
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	7e-12
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	2e-10
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	9e-10
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	1e-11
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	3e-09
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	3e-05
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	1e-11
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	2e-09
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	9e-05
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	3e-11
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	5e-10
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	2e-09
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	7e-11
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	8e-10
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	9e-10
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	2e-10
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	3e-07
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	4e-04
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	2e-10
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	2e-07
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	4e-05
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	3e-10
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	1e-06
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	4e-04
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	3e-10
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	7e-06
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	4e-10
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	2e-09
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	2e-06
2cor_A	79	Pinch protein; LIM domain, particularly interestin	2e-09
2cor_A	79	Pinch protein; LIM domain, particularly interestin	8e-07
2cor_A	79	Pinch protein; LIM domain, particularly interestin	4e-05
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	2e-09
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	1e-07
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	1e-08
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	5e-08
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	4e-06
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	1e-07
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	9e-07
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	2e-04
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	1e-06
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	2e-06
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	3e-06
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	5e-06
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	7e-06
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	1e-05
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	3e-04

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

 Score =  105 bits (265), Expect = 8e-30
 Identities = 32/117 (27%), Positives = 57/117 (48%), Gaps = 5/117 (4%)

Query: 84  QIITSGGVT-YKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCK 142
           ++I S   T  +N+ WH + F C +C + LAG+ +    DKP C  C+ +  A  C  C 
Sbjct: 11  ELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVVCQGCH 70

Query: 143 KPITGIGGTRFISFEDRHWH--NDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL 197
             I      + +++ +  WH   +CF+C+ C   L+G+ F+     + C    K ++
Sbjct: 71  NAID--PEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKRM 125

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

 Score = 89.8 bits (223), Expect = 2e-23
 Identities = 32/137 (23%), Positives = 47/137 (34%), Gaps = 31/137 (22%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
            + + + WH K F C  C + +  + ++    +  C  CY +  A  C  C+        
Sbjct: 19  TQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVVCQGCHNAI----- 73

Query: 61  KGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWH--RECFTCSNCSTSLAGQRFT 118
                                         VTY N  WH   ECF CS CS  L GQ+F 
Sbjct: 74  ------------------------DPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFM 109

Query: 119 SREDKPFCADCFGELFA 135
             E   FC+    +  +
Sbjct: 110 PVEGMVFCSVECKKRMS 126

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

 Score = 48.2 bits (115), Expect = 7e-08
 Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 3/56 (5%)

Query: 137 RCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDC 192
           RC  C + I       +   E+++WH   F C  C S L G  ++   +  +C  C
Sbjct: 5   RCAGCDELIF---SNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPC 57

>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 = 96.4 bits (240), Expect = 1e-25
 Identities = 27/174 (15%), Positives = 49/174 (28%), Gaps = 36/174 (20%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
           ++   R WH KC  C  C  P+  + F  R + +YC + + ++F T+C  C         
Sbjct: 22  LKALDRHWHSKCLKCSDCHVPLAERCFS-RGESVYCKDDFFKRFGTKCAACQLGI----- 75

Query: 61  KGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAG--QRFT 118
                                     T      ++  +H  CF C  C   LA   + + 
Sbjct: 76  ------------------------PPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYL 111

Query: 119 SREDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQ 172
             + +  C   +                G      +       H+        +
Sbjct: 112 MEDSRLVCKADYETAKQGGSGGSGGSGGG----TPMVAASPERHDGGLQANPVE 161

>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 = 75.6 bits (186), Expect = 9e-18
 Identities = 26/104 (25%), Positives = 45/104 (43%), Gaps = 5/104 (4%)

Query: 91  VTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGG 150
           +   +  WH +C  CS+C   LA + F SR +  +C D F + F  +C +C+  I     
Sbjct: 22  LKALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRFGTKCAACQLGIPPTQ- 79

Query: 151 TRFISFEDRHWHNDCFMCASCQSSLVG--RGFITDGEDIICPDC 192
                 +D  +H  CF C  C+  L      ++ +   ++C   
Sbjct: 80  -VVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKAD 122

>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 = 65.2 bits (159), Expect = 1e-13
 Identities = 14/113 (12%), Positives = 26/113 (23%), Gaps = 33/113 (29%)

Query: 1   MEYKTRQWHEKCFACVVCKTPI--GTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRL 58
              +   +H  CFACVVCK  +  G + ++  +  + C   YE            +    
Sbjct: 82  RRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAKQGGSGGSGGS---- 137

Query: 59  REKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTS 111
                                           +   +   H      +     
Sbjct: 138 ---------------------------GGGTPMVAASPERHDGGLQANPVEVQ 163

>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 = 44.4 bits (105), Expect = 4e-06
 Identities = 16/56 (28%), Positives = 21/56 (37%), Gaps = 4/56 (7%)

Query: 137 RCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDC 192
            C  C + I        +   DRHWH+ C  C+ C   L  R F      + C D 
Sbjct: 8   MCAGCDQHILD---RFILKALDRHWHSKCLKCSDCHVPLAERCFSRGES-VYCKDD 59

>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 = 92.4 bits (229), Expect = 7e-24
 Identities = 30/156 (19%), Positives = 56/156 (35%), Gaps = 18/156 (11%)

Query: 6   RQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKT--------FFR 57
             +H+ CF C+VCK  + + +      EIYC +CY +K+  +                  
Sbjct: 28  SSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTDKGES 87

Query: 58  LREKGTFQSHSGRINKVYSILFYFLFQ----------IITSGGVTYKNEPWHRECFTCSN 107
           L  K          N   S +   +            +  +  V    + WH+ CF C+ 
Sbjct: 88  LGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAK 147

Query: 108 CSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKK 143
           C  SL       ++ + +C  C+ + F  + +   +
Sbjct: 148 CGKSLESTTLADKDGEIYCKGCYAKNFGPKGFGFGQ 183

>1b8t_A Protein (CRP1); LIM domain, muscle differentiation, contractIle; NMR {Gallus gallus} SCOP: g.39.1.3 g.39.1.3 g.39.1.3 g.39.1.3 PDB: 1ibi_A 1qli_A 1cxx_A 1ctl_A 2o13_A Length = 192

 Score = 55.4 bits (133), Expect = 6e-10
 Identities = 13/55 (23%), Positives = 24/55 (43%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTF 55
           +    + WH+ CF C  C   + + +   ++ EIYC  CY + F  +     +  
Sbjct: 131 VIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKGFGFGQGA 185

>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 = 53.9 bits (129), Expect = 2e-09
 Identities = 24/151 (15%), Positives = 39/151 (25%), Gaps = 33/151 (21%)

Query: 45  ATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFT 104
             +C  C K  +   E                              V  +   +H+ CF 
Sbjct: 7   GKKCGVCQKAVYFAEE------------------------------VQCEGSSFHKSCFL 36

Query: 105 CSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHND 164
           C  C  +L         D+ +C  C+G+ +  +         G G       E      +
Sbjct: 37  CMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGM---GAGTLSTDKGESLGIKYE 93

Query: 165 CFMCASCQSSLVGRGFITDGEDIICPDCAKA 195
                   +    R     G    CP C +A
Sbjct: 94  EGQSHRPTNPNASRMAQKVGGSDGCPRCGQA 124

>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 = 86.7 bits (215), Expect = 9e-23
 Identities = 27/81 (33%), Positives = 39/81 (48%), Gaps = 2/81 (2%)

Query: 91  VTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGG 150
           V YKN  WH  CF C+ C   LA + F ++++K  C  C     + +C  C K I    G
Sbjct: 22  VHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSPKCKGCFKAIV--AG 79

Query: 151 TRFISFEDRHWHNDCFMCASC 171
            + + ++   WH DCF   S 
Sbjct: 80  DQNVEYKGTVWHKDCFSGPSS 100

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

 Score = 70.1 bits (172), Expect = 3e-16
 Identities = 24/108 (22%), Positives = 41/108 (37%), Gaps = 29/108 (26%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
           + YK R WH+ CF C  C  P+  ++F+ ++ +I C  C   + + +C  C K      +
Sbjct: 22  VHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSPKCKGCFKAIVAGDQ 81

Query: 61  KGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNC 108
                                         V YK   WH++CF+  + 
Sbjct: 82  N-----------------------------VEYKGTVWHKDCFSGPSS 100

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

 Score = 55.1 bits (133), Expect = 1e-10
 Identities = 19/62 (30%), Positives = 30/62 (48%), Gaps = 2/62 (3%)

Query: 131 GELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICP 190
           G   +  C  C+KPI     ++ + +++R WH+ CF CA C   L    F+     I+C 
Sbjct: 1   GSSGSSGCVECRKPIGA--DSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCN 58

Query: 191 DC 192
            C
Sbjct: 59  KC 60

>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 = 83.5 bits (207), Expect = 1e-21
 Identities = 43/107 (40%), Positives = 54/107 (50%), Gaps = 31/107 (28%)

Query: 34  IYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTY 93
                CYE KFA RC +C+K                                +T GGVTY
Sbjct: 4   GSSGPCYENKFAPRCARCSK-------------------------------TLTQGGVTY 32

Query: 94  KNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYS 140
           +++PWHREC  C+ C T LAGQ+FTSR++ P+C  CFGELFA    S
Sbjct: 33  RDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELFASGPSS 79

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

 Score = 64.3 bits (157), Expect = 2e-14
 Identities = 22/71 (30%), Positives = 33/71 (46%), Gaps = 4/71 (5%)

Query: 122 DKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFI 181
                  C+   FA RC  C K +T       +++ D+ WH +C +C  CQ+ L G+ F 
Sbjct: 2   SSGSSGPCYENKFAPRCARCSKTLTQ----GGVTYRDQPWHRECLVCTGCQTPLAGQQFT 57

Query: 182 TDGEDIICPDC 192
           +  ED  C  C
Sbjct: 58  SRDEDPYCVAC 68

>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 = 56.2 bits (136), Expect = 3e-11
 Identities = 16/48 (33%), Positives = 28/48 (58%)

Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRC 48
          + Y+ + WH +C  C  C+TP+  + F  R+++ YC  C+ E FA+  
Sbjct: 30 VTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELFASGP 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 = 82.9 bits (205), Expect = 2e-21
 Identities = 29/73 (39%), Positives = 41/73 (56%), Gaps = 1/73 (1%)

Query: 123 KPFCADCFGELFAKRCYSCKKPITGIG-GTRFISFEDRHWHNDCFMCASCQSSLVGRGFI 181
                DC+    AK+C  CK PITG G G+  +++E + WH+ CF C  C  +L  + F+
Sbjct: 3   SGSSGDCYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFV 62

Query: 182 TDGEDIICPDCAK 194
              E + CPDCAK
Sbjct: 63  FHQEQVYCPDCAK 75

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

 Score = 66.0 bits (161), Expect = 5e-15
 Identities = 22/101 (21%), Positives = 36/101 (35%), Gaps = 26/101 (25%)

Query: 33  EIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVT 92
                +CY+   A +C  C        +  +                           V 
Sbjct: 3   SGSSGDCYKNFVAKKCAGCKNPITGFGKGSSV--------------------------VA 36

Query: 93  YKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGEL 133
           Y+ + WH  CF C  CS +LA +RF   +++ +C DC  +L
Sbjct: 37  YEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYCPDCAKKL 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 = 48.2 bits (115), Expect = 3e-08
 Identities = 12/42 (28%), Positives = 25/42 (59%)

Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEE 42
          + Y+ + WH+ CF C  C   +  K F+  ++++YC +C ++
Sbjct: 35 VAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYCPDCAKK 76

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

 Score = 83.0 bits (205), Expect = 2e-21
 Identities = 28/64 (43%), Positives = 40/64 (62%)

Query: 131 GELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICP 190
           G   +  C +C KPI+G+ G +FI F+D  WH++CF C  C  SLVG+GF+T  ++I C 
Sbjct: 1   GSSGSSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQ 60

Query: 191 DCAK 194
            C  
Sbjct: 61  KCGS 64

>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 = 54.5 bits (131), Expect = 1e-10
 Identities = 15/48 (31%), Positives = 24/48 (50%)

Query: 91  VTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRC 138
           + +++  WH ECF C  CS SL G+ F ++  + FC  C   +     
Sbjct: 24  ICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCGSGMDTDIS 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 = 50.2 bits (120), Expect = 5e-09
 Identities = 13/52 (25%), Positives = 23/52 (44%)

Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCN 52
          + ++  QWH +CF C  C   +  K F+ + +EI+C  C            +
Sbjct: 24 ICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCGSGMDTDISGPSS 75

>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 = 85.4 bits (211), Expect = 3e-21
 Identities = 30/185 (16%), Positives = 54/185 (29%), Gaps = 35/185 (18%)

Query: 10  EKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSG 69
           E+    +                               C  C++                
Sbjct: 25  ERLITRLENTQFDAANGIDDEGGSGGHMGSGGTPEIPMCAGCDQ---------------- 68

Query: 70  RINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADC 129
                          I+    +   +  WH +C  CS+C   LA + F SR +  +C D 
Sbjct: 69  --------------HILDRFILKALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDD 113

Query: 130 FGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVG--RGFITDGEDI 187
           F + F  +C +C+  I           +D  +H  CF C  C+  L      ++ +   +
Sbjct: 114 FFKRFGTKCAACQLGIP--PTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRL 171

Query: 188 ICPDC 192
           +C   
Sbjct: 172 VCKAD 176

>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 = 71.5 bits (175), Expect = 6e-16
 Identities = 29/132 (21%), Positives = 45/132 (34%), Gaps = 32/132 (24%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
           ++   R WH KC  C  C  P+  + F  R + +YC + + ++F T+C  C         
Sbjct: 76  LKALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRFGTKCAACQLGI----- 129

Query: 61  KGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLA-GQRFTS 119
                                     T      ++  +H  CF C  C   LA G  F  
Sbjct: 130 ------------------------PPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYL 165

Query: 120 RED-KPFCADCF 130
            ED +  C   +
Sbjct: 166 MEDSRLVCKADY 177

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

 Score = 47.2 bits (112), Expect = 4e-07
 Identities = 13/45 (28%), Positives = 21/45 (46%), Gaps = 2/45 (4%)

Query: 1   MEYKTRQWHEKCFACVVCKTPI--GTKSFIPREQEIYCANCYEEK 43
              +   +H  CFACVVCK  +  G + ++  +  + C   YE  
Sbjct: 136 RRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETA 180

>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 = 81.4 bits (201), Expect = 6e-21
 Identities = 37/64 (57%), Positives = 47/64 (73%)

Query: 131 GELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICP 190
           G   +  C  C  PI+G+GGT++ISFE+R WHNDCF C  C  SLVGRGF+T+ +DI+CP
Sbjct: 1   GSSGSSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCP 60

Query: 191 DCAK 194
           DC K
Sbjct: 61  DCGK 64

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

 Score = 57.1 bits (138), Expect = 1e-11
 Identities = 15/48 (31%), Positives = 24/48 (50%)

Query: 91  VTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRC 138
           ++++   WH +CF C  CS SL G+ F +  D   C DC  ++     
Sbjct: 24  ISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGKDISGPSS 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 = 52.9 bits (127), Expect = 5e-10
 Identities = 12/48 (25%), Positives = 22/48 (45%)

Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRC 48
          + ++ RQWH  CF C  C   +  + F+    +I C +C ++      
Sbjct: 24 ISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGKDISGPSS 71

>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 = 75.1 bits (185), Expect = 2e-18
 Identities = 18/106 (16%), Positives = 31/106 (29%), Gaps = 31/106 (29%)

Query: 35  YCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYK 94
                +   F+ +C  CN+                                +    ++  
Sbjct: 5   SSGKDFLAMFSPKCGGCNR-------------------------------PVLENYLSAM 33

Query: 95  NEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYS 140
           +  WH ECF C +C TS +   F   + +PFC   +         S
Sbjct: 34  DTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHHRRGSGPSS 79

>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 = 62.7 bits (153), Expect = 1e-13
 Identities = 16/74 (21%), Positives = 27/74 (36%), Gaps = 4/74 (5%)

Query: 123 KPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFIT 182
                  F  +F+ +C  C +P+       ++S  D  WH +CF+C  C +S     F  
Sbjct: 3   SGSSGKDFLAMFSPKCGGCNRPVLE----NYLSAMDTVWHPECFVCGDCFTSFSTGSFFE 58

Query: 183 DGEDIICPDCAKAK 196
                 C      +
Sbjct: 59  LDGRPFCELHYHHR 72

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

 Score = 53.9 bits (130), Expect = 2e-10
 Identities = 12/43 (27%), Positives = 17/43 (39%)

Query: 6  RQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRC 48
            WH +CF C  C T   T SF   +   +C   Y  +  +  
Sbjct: 35 TVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHHRRGSGP 77

>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 = 74.7 bits (184), Expect = 3e-18
 Identities = 22/108 (20%), Positives = 32/108 (29%), Gaps = 29/108 (26%)

Query: 33  EIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVT 92
                 C   + + +C  C K      +                              V 
Sbjct: 3   SGSSGKCTTREDSPKCKGCFKAIVAGDQN-----------------------------VE 33

Query: 93  YKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYS 140
           YK   WH++CFTCSNC   +    F  + +  +C  C    FA    S
Sbjct: 34  YKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKFASGPSS 81

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

 Score = 65.5 bits (160), Expect = 9e-15
 Identities = 19/70 (27%), Positives = 29/70 (41%), Gaps = 2/70 (2%)

Query: 123 KPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFIT 182
                 C     + +C  C K I    G + + ++   WH DCF C++C+  +    F  
Sbjct: 3   SGSSGKCTTREDSPKCKGCFKAIVA--GDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFP 60

Query: 183 DGEDIICPDC 192
            GED  C  C
Sbjct: 61  KGEDFYCVTC 70

>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 = 64.7 bits (158), Expect = 2e-14
 Identities = 23/48 (47%), Positives = 30/48 (62%)

Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRC 48
          +EYK   WH+ CF C  CK  IGT SF P+ ++ YC  C+E KFA+  
Sbjct: 32 VEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKFASGP 79

>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 = 73.9 bits (182), Expect = 4e-18
 Identities = 29/57 (50%), Positives = 42/57 (73%)

Query: 84  QIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYS 140
           + IT+GGVTY+ +PWH+ECF C+ C   L+GQRFT+R+D  +C +CF +L+A    S
Sbjct: 13  KPITTGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLYASGPSS 69

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

 Score = 56.2 bits (136), Expect = 2e-11
 Identities = 14/48 (29%), Positives = 27/48 (56%)

Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRC 48
          + Y+ + WH++CF C  C+  +  + F  R+   YC NC+ + +A+  
Sbjct: 20 VTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLYASGP 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 = 55.4 bits (134), Expect = 5e-11
 Identities = 19/62 (30%), Positives = 32/62 (51%), Gaps = 4/62 (6%)

Query: 131 GELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICP 190
           G   +  C  CKKPIT       +++ ++ WH +CF+C +C+  L G+ F    +   C 
Sbjct: 1   GSSGSSGCVQCKKPITT----GGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCL 56

Query: 191 DC 192
           +C
Sbjct: 57  NC 58

>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 = 3e-17
 Identities = 27/55 (49%), Positives = 38/55 (69%)

Query: 84  QIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRC 138
           + ITSGG+TY+++PWH +CF C  CS  LAGQRFT+ ED+ +C DC+    +   
Sbjct: 13  KAITSGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFVSGPS 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 = 56.2 bits (136), Expect = 2e-11
 Identities = 21/62 (33%), Positives = 30/62 (48%), Gaps = 4/62 (6%)

Query: 131 GELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICP 190
           G   +  C  C K IT       I+++D+ WH DCF+C +C   L G+ F    +   C 
Sbjct: 1   GSSGSSGCVKCNKAITS----GGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCV 56

Query: 191 DC 192
           DC
Sbjct: 57  DC 58

>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 = 55.5 bits (134), Expect = 4e-11
 Identities = 13/43 (30%), Positives = 20/43 (46%)

Query: 6  RQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRC 48
          + WH  CF CV C   +  + F   E + YC +CY+   +   
Sbjct: 25 QPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFVSGPS 67

>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 = 73.5 bits (180), Expect = 9e-17
 Identities = 28/160 (17%), Positives = 43/160 (26%), Gaps = 34/160 (21%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIG--TKSFIPREQEIYCANCYEEKF--ATRCVKCNKTFF 56
           +      WH +C  C  C+  +G    S   +   I C N Y   F  +  C  C ++  
Sbjct: 21  LYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSI- 79

Query: 57  RLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLA-GQ 115
                                         +   +  +   +H +CFTCS C   L  G 
Sbjct: 80  ----------------------------PASELVMRAQGNVYHLKCFTCSTCRNRLVPGD 111

Query: 116 RFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGTRFIS 155
           RF       FC             +        G    + 
Sbjct: 112 RFHYINGSLFCEHDRPTALINGHLNSGGSGGSGGSGGDVM 151

>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 = 67.0 bits (163), Expect = 2e-14
 Identities = 24/107 (22%), Positives = 42/107 (39%), Gaps = 7/107 (6%)

Query: 91  VTYKNEPWHRECFTCSNCSTSLA--GQRFTSREDKPFCADCFGELF--AKRCYSCKKPIT 146
           +   +  WH  C  CS+C   L   G    ++     C + +  LF  +  C +C + I 
Sbjct: 21  LYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIP 80

Query: 147 GIGGTRFISFEDRHWHNDCFMCASCQSSLV-GRGFITDGEDIICPDC 192
                  +  +   +H  CF C++C++ LV G  F      + C   
Sbjct: 81  A--SELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHD 125

>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 = 43.8 bits (103), Expect = 7e-06
 Identities = 20/64 (31%), Positives = 28/64 (43%), Gaps = 5/64 (7%)

Query: 131 GELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSL--VGRGFITDGEDII 188
           G L  KRC  C   I        +   D +WH+ C  C+SCQ+ L  +G    T    I+
Sbjct: 1   GSLSWKRCAGCGGKIAD---RFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMIL 57

Query: 189 CPDC 192
           C + 
Sbjct: 58  CRND 61

>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 = 70.2 bits (172), Expect = 1e-16
 Identities = 22/105 (20%), Positives = 35/105 (33%), Gaps = 29/105 (27%)

Query: 34  IYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTY 93
                CY+  FA  C +C +                                  S  + Y
Sbjct: 4   GSSGPCYDNTFANTCAECQQLIG-----------------------------HDSRELFY 34

Query: 94  KNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRC 138
           ++  +H  CF C  C  SLA + FT ++ +  C DC+   F+   
Sbjct: 35  EDRHFHEGCFRCCRCQRSLADEPFTCQDSELLCNDCYCSAFSSGP 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 = 66.4 bits (162), Expect = 4e-15
 Identities = 23/71 (32%), Positives = 33/71 (46%), Gaps = 2/71 (2%)

Query: 122 DKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFI 181
                  C+   FA  C  C++ I     +R + +EDRH+H  CF C  CQ SL    F 
Sbjct: 2   SSGSSGPCYDNTFANTCAECQQLIGH--DSRELFYEDRHFHEGCFRCCRCQRSLADEPFT 59

Query: 182 TDGEDIICPDC 192
               +++C DC
Sbjct: 60  CQDSELLCNDC 70

>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 = 57.1 bits (138), Expect = 1e-11
 Identities = 14/48 (29%), Positives = 26/48 (54%)

Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRC 48
          + Y+ R +HE CF C  C+  +  + F  ++ E+ C +CY   F++  
Sbjct: 32 LFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELLCNDCYCSAFSSGP 79

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

 Score = 70.9 bits (174), Expect = 3e-16
 Identities = 29/103 (28%), Positives = 47/103 (45%), Gaps = 7/103 (6%)

Query: 95  NEPWHRECFTCSNCSTSLA--GQRFTSREDKPFCADCFGELFAKR--CYSCKKPITGIGG 150
           ++ WH +C +C  C   L   G+R   +  +  C   +  LF +   C SC K I     
Sbjct: 22  DQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIRA--Y 79

Query: 151 TRFISFEDRHWHNDCFMCASCQSSL-VGRGFITDGEDIICPDC 192
              +  +D+ +H +CF CA+CQ    VG  ++    DI+C   
Sbjct: 80  EMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQD 122

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

 Score = 64.0 bits (156), Expect = 1e-13
 Identities = 24/130 (18%), Positives = 37/130 (28%), Gaps = 34/130 (26%)

Query: 6   RQWHEKCFACVVCKTPIGT--KSFIPREQEIYCANCYEEKFATR--CVKCNKTFFRLREK 61
           + WHE C +C +C   +G   +    +     C   Y   F     C  C+K        
Sbjct: 23  QYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKR------- 75

Query: 62  GTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLA-GQRFTSR 120
                    I                   +  K++ +H ECF C+ C      G R+   
Sbjct: 76  ---------IRAYEMT-------------MRVKDKVYHLECFKCAACQKHFCVGDRYLLI 113

Query: 121 EDKPFCADCF 130
                C    
Sbjct: 114 NSDIVCEQDI 123

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

 Score = 43.6 bits (103), Expect = 4e-06
 Identities = 10/43 (23%), Positives = 17/43 (39%), Gaps = 1/43 (2%)

Query: 1   MEYKTRQWHEKCFACVVCKTPIGT-KSFIPREQEIYCANCYEE 42
           M  K + +H +CF C  C+        ++    +I C     E
Sbjct: 83  MRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIYE 125

>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 = 63.9 bits (156), Expect = 3e-14
 Identities = 22/48 (45%), Positives = 31/48 (64%)

Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRC 48
          +EY  + WHE CF C  C+ P+G++SF+P +   YC  CYE KFA+  
Sbjct: 22 LEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFASGP 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 = 63.2 bits (154), Expect = 6e-14
 Identities = 19/98 (19%), Positives = 28/98 (28%), Gaps = 29/98 (29%)

Query: 43  KFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHREC 102
             ++ C  C +T      K                             + Y  + WH  C
Sbjct: 3   SGSSGCSACGETVMPGSRK-----------------------------LEYGGQTWHEHC 33

Query: 103 FTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYS 140
           F CS C   L  + F   +   +C  C+   FA    S
Sbjct: 34  FLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFASGPSS 71

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

 Score = 56.6 bits (137), Expect = 2e-11
 Identities = 17/62 (27%), Positives = 29/62 (46%), Gaps = 2/62 (3%)

Query: 131 GELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICP 190
           G   +  C +C + +    G+R + +  + WH  CF+C+ C+  L  R F+ D     C 
Sbjct: 1   GSSGSSGCSACGETVMP--GSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCV 58

Query: 191 DC 192
            C
Sbjct: 59  PC 60

>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 = 64.4 bits (157), Expect = 3e-14
 Identities = 15/57 (26%), Positives = 26/57 (45%)

Query: 84  QIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYS 140
           Q+I    +    + WH E F C++C  ++A   F   +   +C  C+ + FA    S
Sbjct: 33  QVIRGPFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFFASGPSS 89

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

 Score = 55.9 bits (135), Expect = 4e-11
 Identities = 14/43 (32%), Positives = 22/43 (51%)

Query: 6  RQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRC 48
          + WH + F C  CK  +    F+  +  +YC  CYE+ FA+  
Sbjct: 45 KSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFFASGP 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 = 55.1 bits (133), Expect = 8e-11
 Identities = 16/77 (20%), Positives = 30/77 (38%), Gaps = 5/77 (6%)

Query: 117 FTSREDKPFCADCFG-ELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSL 175
              ++     A+          C  C + I G     F+    + WH + F CA C++++
Sbjct: 6   SGDQDTLVQRAEHIPAGKRTPMCAHCNQVIRG----PFLVALGKSWHPEEFNCAHCKNTM 61

Query: 176 VGRGFITDGEDIICPDC 192
              GF+ +   + C  C
Sbjct: 62  AYIGFVEEKGALYCELC 78

>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 = 64.0 bits (156), Expect = 3e-14
 Identities = 25/48 (52%), Positives = 33/48 (68%)

Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRC 48
          MEYK   WHE CF C  C+ PIGTKSFIP++ + +C  CYE++ A+  
Sbjct: 22 MEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQHASGP 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 = 62.0 bits (151), Expect = 1e-13
 Identities = 19/98 (19%), Positives = 31/98 (31%), Gaps = 29/98 (29%)

Query: 43  KFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHREC 102
             ++ C +C KT      K                             + YK   WH  C
Sbjct: 3   SGSSGCQECKKTIMPGTRK-----------------------------MEYKGSSWHETC 33

Query: 103 FTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYS 140
           F C  C   +  + F  ++++ FC  C+ +  A    S
Sbjct: 34  FICHRCQQPIGTKSFIPKDNQNFCVPCYEKQHASGPSS 71

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

 Score = 56.6 bits (137), Expect = 2e-11
 Identities = 20/62 (32%), Positives = 27/62 (43%), Gaps = 2/62 (3%)

Query: 131 GELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICP 190
           G   +  C  CKK I    GTR + ++   WH  CF+C  CQ  +  + FI       C 
Sbjct: 1   GSSGSSGCQECKKTIMP--GTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCV 58

Query: 191 DC 192
            C
Sbjct: 59  PC 60

>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 = 62.5 bits (152), Expect = 1e-13
 Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 1/54 (1%)

Query: 88  SGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSC 141
             GV   +  +H  CF CS C   L GQ F + E + +C  C+         S 
Sbjct: 19  GAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVATLES-GPSS 71

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

 Score = 52.4 bits (126), Expect = 7e-10
 Identities = 12/51 (23%), Positives = 18/51 (35%), Gaps = 1/51 (1%)

Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKC 51
          +    R +H  CF C  C+  +  + F   E+  YC  CY           
Sbjct: 22 VVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVATLE-SGPSS 71

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

 Score = 47.8 bits (114), Expect = 3e-08
 Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 2/56 (3%)

Query: 137 RCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDC 192
            C  C + + G      +   DR +H  CF+C++C++ L G+ F        C  C
Sbjct: 7   GCGGCGEDVVG--DGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGC 60

>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 = 61.5 bits (150), Expect = 2e-13
 Identities = 14/52 (26%), Positives = 21/52 (40%)

Query: 84  QIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFA 135
           + I    V    + WH E F C+ C     G R   R+   +C   + +LF 
Sbjct: 13  RPIEGRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLFG 64

>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 = 55.8 bits (135), Expect = 3e-11
 Identities = 15/62 (24%), Positives = 26/62 (41%), Gaps = 4/62 (6%)

Query: 131 GELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICP 190
           G +    C +C++PI G    R ++   + WH + F+CA C+   +G           C 
Sbjct: 1   GSMGVPICGACRRPIEG----RVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCE 56

Query: 191 DC 192
             
Sbjct: 57  TH 58

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

 Score = 52.7 bits (127), Expect = 5e-10
 Identities = 12/41 (29%), Positives = 17/41 (41%)

Query: 6  RQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFAT 46
          +QWH + F C  C+ P        R+   YC   Y + F  
Sbjct: 25 KQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLFGD 65

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

 Score = 60.1 bits (146), Expect = 8e-13
 Identities = 17/101 (16%), Positives = 25/101 (24%), Gaps = 29/101 (28%)

Query: 36  CANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKN 95
                    +  C +C   F    +                              V    
Sbjct: 2   SEFMANALASATCERCKGGFAPAEKI-----------------------------VNSNG 32

Query: 96  EPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAK 136
           E +H +CF C+ C        F   E + +C   F  LFA 
Sbjct: 33  ELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAP 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 = 52.0 bits (125), Expect = 1e-09
 Identities = 12/67 (17%), Positives = 18/67 (26%), Gaps = 2/67 (2%)

Query: 126 CADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGE 185
                  L +  C  CK         + ++     +H  CF+CA C        F     
Sbjct: 2   SEFMANALASATCERCKGGFAPAE--KIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEG 59

Query: 186 DIICPDC 192
              C   
Sbjct: 60  RKYCEHD 66

>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 = 50.9 bits (122), Expect = 3e-09
 Identities = 12/45 (26%), Positives = 18/45 (40%)

Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFA 45
          +      +HE+CF C  C        F   E   YC + ++  FA
Sbjct: 28 VNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA 72

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

 Score = 59.7 bits (145), Expect = 2e-12
 Identities = 17/58 (29%), Positives = 22/58 (37%), Gaps = 1/58 (1%)

Query: 84  QIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFT-SREDKPFCADCFGELFAKRCYS 140
           Q I    +    + +H  CFTC  C   L G  FT     +  C + F   FA    S
Sbjct: 23  QPILDRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFASGPSS 80

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

 Score = 52.4 bits (126), Expect = 8e-10
 Identities = 13/44 (29%), Positives = 21/44 (47%), Gaps = 1/44 (2%)

Query: 6  RQWHEKCFACVVCKTPIGTKSF-IPREQEIYCANCYEEKFATRC 48
          + +H  CF CVVC   +    F +    +I+C   +  KFA+  
Sbjct: 35 KAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFASGP 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 = 48.9 bits (117), Expect = 2e-08
 Identities = 16/68 (23%), Positives = 25/68 (36%), Gaps = 5/68 (7%)

Query: 126 CADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGE 185
             +       ++C +C +PI      R +    + +H  CF C  C   L G  F  D  
Sbjct: 6   SGEGCYVATLEKCATCSQPILD----RILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDAT 61

Query: 186 DII-CPDC 192
             I C + 
Sbjct: 62  SQIHCIED 69

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

 Score = 58.9 bits (143), Expect = 2e-12
 Identities = 17/97 (17%), Positives = 27/97 (27%), Gaps = 29/97 (29%)

Query: 39  CYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPW 98
            ++   +  C +C   F    +                              V    E +
Sbjct: 5   YFQGSASATCERCKGGFAPAEK-----------------------------IVNSNGELY 35

Query: 99  HRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFA 135
           H +CF C+ C        F   E + +C   F  LFA
Sbjct: 36  HEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA 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 = 50.9 bits (122), Expect = 2e-09
 Identities = 12/45 (26%), Positives = 18/45 (40%)

Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFA 45
          +      +HE+CF C  C        F   E   YC + ++  FA
Sbjct: 28 VNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA 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 = 48.9 bits (117), Expect = 1e-08
 Identities = 12/64 (18%), Positives = 18/64 (28%), Gaps = 2/64 (3%)

Query: 129 CFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDII 188
            F    +  C  CK         + ++     +H  CF+CA C        F        
Sbjct: 5   YFQGSASATCERCKGGFAPAE--KIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKY 62

Query: 189 CPDC 192
           C   
Sbjct: 63  CEHD 66

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

 Score = 57.4 bits (139), Expect = 7e-12
 Identities = 15/55 (27%), Positives = 18/55 (32%)

Query: 84  QIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRC 138
           + I    +   N  WH ECF C  C   LA   F     +  C  C     A   
Sbjct: 13  EFIIGRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNREKASGP 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 = 54.0 bits (130), Expect = 2e-10
 Identities = 10/48 (20%), Positives = 20/48 (41%)

Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRC 48
          ++     WH +CF C +C+  +    F+       C  C+  + A+  
Sbjct: 20 IKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNREKASGP 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 = 52.0 bits (125), Expect = 9e-10
 Identities = 19/62 (30%), Positives = 27/62 (43%), Gaps = 4/62 (6%)

Query: 131 GELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICP 190
           G   +  C+ C + I G    R I   +  WH +CF C  CQ  L   GF+ +    +C 
Sbjct: 1   GSSGSSGCHQCGEFIIG----RVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCR 56

Query: 191 DC 192
            C
Sbjct: 57  PC 58

>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 = 57.5 bits (139), Expect = 1e-11
 Identities = 19/67 (28%), Positives = 34/67 (50%), Gaps = 5/67 (7%)

Query: 129 CFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFIT-DGEDI 187
            +  L+  RC+SC + I G      +S   + +H DCF+CA C+        +T +G++ 
Sbjct: 9   DYQRLYGTRCFSCDQFIEG----EVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKEC 64

Query: 188 ICPDCAK 194
           +C  C+ 
Sbjct: 65  MCQKCSL 71

>1v6g_A Actin binding LIM protein 2; LIM domain, zinc binding domain, ablim2, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 81

 Score = 50.9 bits (122), Expect = 3e-09
 Identities = 18/104 (17%), Positives = 28/104 (26%), Gaps = 32/104 (30%)

Query: 35  YCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYK 94
                Y+  + TRC  C+                               Q I    V+  
Sbjct: 5   SSGLDYQRLYGTRCFSCD-------------------------------QFIEGEVVSAL 33

Query: 95  NEPWHRECFTCSNCSTSLA-GQRFTSREDKPFCADCFGELFAKR 137
            + +H +CF C+ C      G R T    +  C  C   +    
Sbjct: 34  GKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCSLPVSVSG 77

>1v6g_A Actin binding LIM protein 2; LIM domain, zinc binding domain, ablim2, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 81

 Score = 40.2 bits (94), Expect = 3e-05
 Identities = 10/48 (20%), Positives = 16/48 (33%), Gaps = 1/48 (2%)

Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKS-FIPREQEIYCANCYEEKFATR 47
          +    + +H  CF C VC+ P           +E  C  C      + 
Sbjct: 30 VSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCSLPVSVSG 77

>1a7i_A QCRP2 (LIM1); LIM domain containing proteins, metal-binding protein, zinc finger; NMR {Coturnix japonica} SCOP: g.39.1.3 g.39.1.3 PDB: 2o10_A Length = 81

 Score = 57.4 bits (139), Expect = 1e-11
 Identities = 12/51 (23%), Positives = 21/51 (41%)

Query: 91  VTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSC 141
           V      +HR CF C  C  +L        + + +C  C+G+ +  + Y  
Sbjct: 23  VQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYGPKGYGY 73

>1a7i_A QCRP2 (LIM1); LIM domain containing proteins, metal-binding protein, zinc finger; NMR {Coturnix japonica} SCOP: g.39.1.3 g.39.1.3 PDB: 2o10_A Length = 81

 Score = 51.6 bits (124), Expect = 2e-09
 Identities = 13/50 (26%), Positives = 26/50 (52%)

Query: 6  RQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTF 55
          R +H  CF C+VC+  + + +    + E+YC +CY +K+  +     +  
Sbjct: 28 RSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYGPKGYGYGQGA 77

>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 = 38.5 bits (90), Expect = 9e-05
 Identities = 11/58 (18%), Positives = 23/58 (39%), Gaps = 3/58 (5%)

Query: 135 AKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDC 192
             +C +C + +        +  + R +H  CF+C  C+ +L          ++ C  C
Sbjct: 7   GNKCGACGRTVYH---AEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSC 61

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

 Score = 55.9 bits (135), Expect = 3e-11
 Identities = 17/64 (26%), Positives = 28/64 (43%), Gaps = 4/64 (6%)

Query: 134 FAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCA 193
               C  C   I G     F+   DRH H +C++C  C ++L  +G     + I C   A
Sbjct: 14  KLPMCDKCGTGIVG----VFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEKHA 69

Query: 194 KAKL 197
           + ++
Sbjct: 70  RERV 73

>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 = 52.8 bits (127), Expect = 5e-10
 Identities = 13/55 (23%), Positives = 23/55 (41%)

Query: 84  QIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRC 138
             I    V  ++   H EC+ C++C T+L  +     ED+ +C     E  +   
Sbjct: 23  TGIVGVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEKHARERVSGPS 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 = 51.3 bits (123), Expect = 2e-09
 Identities = 12/43 (27%), Positives = 18/43 (41%)

Query: 6  RQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRC 48
          R  H +C+ C  C T +  K     E +IYC     E+ +   
Sbjct: 35 RHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEKHARERVSGPS 77

>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 = 55.6 bits (134), Expect = 7e-11
 Identities = 11/55 (20%), Positives = 23/55 (41%)

Query: 84  QIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRC 138
             I    V  +++  H ECF C++C+ +L  + +   E + +C        +   
Sbjct: 33  SGIVGAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETHARARTSGPS 87

>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 = 52.5 bits (126), Expect = 8e-10
 Identities = 10/43 (23%), Positives = 17/43 (39%)

Query: 6  RQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRC 48
          +  H +CF C  C   +  K +   E E+YC      + +   
Sbjct: 45 KYRHPECFVCADCNLNLKQKGYFFVEGELYCETHARARTSGPS 87

>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 = 52.5 bits (126), Expect = 9e-10
 Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 4/60 (6%)

Query: 137 RCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAK 196
            C  C   I G      +   D++ H +CF+CA C  +L  +G+     ++ C   A+A+
Sbjct: 27  LCDKCGSGIVG----AVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETHARAR 82

>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 = 53.9 bits (130), Expect = 2e-10
 Identities = 15/52 (28%), Positives = 22/52 (42%), Gaps = 1/52 (1%)

Query: 91  VTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFC-ADCFGELFAKRCYSC 141
           VT   + WHR C  C  C  +L        E KP+C   C+  +F  + +  
Sbjct: 16  VTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGFGR 67

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

 Score = 45.4 bits (108), Expect = 3e-07
 Identities = 11/47 (23%), Positives = 17/47 (36%), Gaps = 1/47 (2%)

Query: 6  RQWHEKCFACVVCKTPIGTKSFIPREQEIYCAN-CYEEKFATRCVKC 51
          + WH  C  C  C   + +      E + YC + CY   F  +    
Sbjct: 21 KDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGFGR 67

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

 Score = 36.9 bits (86), Expect = 4e-04
 Identities = 11/53 (20%), Positives = 17/53 (32%), Gaps = 3/53 (5%)

Query: 137 RCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIIC 189
           +C  C K +        ++   + WH  C  C  C  +L   G         C
Sbjct: 2   KCPKCDKEVYF---AERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYC 51

>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 = 53.7 bits (129), Expect = 2e-10
 Identities = 16/64 (25%), Positives = 29/64 (45%), Gaps = 5/64 (7%)

Query: 134 FAKRCYSCKKPITGIGGTRFISFEDRHWH--NDCFMCASCQSSLVGRGFITDGEDIIC-P 190
            A  C  C   I      + +++ +  WH   +CF+C+ C   L+G+ F+     + C  
Sbjct: 1   HAVVCQGCHNAIDP--EVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSV 58

Query: 191 DCAK 194
           +C K
Sbjct: 59  ECKK 62

>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 = 45.6 bits (108), Expect = 2e-07
 Identities = 20/43 (46%), Positives = 21/43 (48%), Gaps = 2/43 (4%)

Query: 86  ITSGGVTYKNEPWH--RECFTCSNCSTSLAGQRFTSREDKPFC 126
                VTY N  WH   ECF CS CS  L GQ+F   E   FC
Sbjct: 14  PEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFC 56

>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 = 4e-05
 Identities = 11/47 (23%), Positives = 23/47 (48%), Gaps = 2/47 (4%)

Query: 1  MEYKTRQWH--EKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFA 45
          + Y    WH   +CF C  C   +  + F+P E  ++C+   +++ +
Sbjct: 19 VTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKRMS 65

>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 = 53.6 bits (129), Expect = 3e-10
 Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 1/51 (1%)

Query: 91  VTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCA-DCFGELFAKRCYS 140
           V+   + WH+ C  C  CS +L        + KPFC   C+  LF     S
Sbjct: 25  VSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFGSGPSS 75

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

 Score = 43.9 bits (104), Expect = 1e-06
 Identities = 9/44 (20%), Positives = 16/44 (36%), Gaps = 1/44 (2%)

Query: 6  RQWHEKCFACVVCKTPIGTKSFIPREQEIYCAN-CYEEKFATRC 48
          + WH+ C  C  C   +        + + +C   CY   F +  
Sbjct: 30 KDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFGSGP 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 = 36.6 bits (85), Expect = 4e-04
 Identities = 13/55 (23%), Positives = 18/55 (32%), Gaps = 3/55 (5%)

Query: 135 AKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIIC 189
           A +C  C K +        +S   + WH  C  C  C  +L   G         C
Sbjct: 9   ASKCPKCDKTVYF---AEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFC 60

>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 = 54.3 bits (130), Expect = 3e-10
 Identities = 13/91 (14%), Positives = 29/91 (31%), Gaps = 2/91 (2%)

Query: 95  NEPWHRECFTCSNCSTSLA--GQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGTR 152
           ++ WH +C +C  C   L   G+R   +  +  C   +  L     +        + G  
Sbjct: 23  DQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGGSGGHMGSGGDVMVVGEP 82

Query: 153 FISFEDRHWHNDCFMCASCQSSLVGRGFITD 183
            +   +    ++  +     +       I D
Sbjct: 83  TLMGGEFGDEDERLITRLENTQFDAANGIDD 113

>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 = 42.7 bits (100), Expect = 7e-06
 Identities = 9/53 (16%), Positives = 17/53 (32%), Gaps = 2/53 (3%)

Query: 6  RQWHEKCFACVVCKTPIGT--KSFIPREQEIYCANCYEEKFATRCVKCNKTFF 56
          + WHE C +C +C   +G   +    +     C   Y     +     +    
Sbjct: 24 QYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGGSGGHMGSGGDV 76

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

 Score = 53.2 bits (128), Expect = 4e-10
 Identities = 16/108 (14%), Positives = 28/108 (25%), Gaps = 33/108 (30%)

Query: 33  EIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVT 92
                  Y  KF   C  C+                                ++T   + 
Sbjct: 3   SGSSGKDYWGKFGEFCHGCS-------------------------------LLMTGPFMV 31

Query: 93  YKNEPWHRECFTCSNCSTSLA-GQRFTSRED-KPFCADCFGELFAKRC 138
                +H ECF C +C   +  G  +   +    +C  C  E+ +   
Sbjct: 32  AGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVVSGPS 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 = 51.3 bits (123), Expect = 2e-09
 Identities = 14/73 (19%), Positives = 26/73 (35%), Gaps = 6/73 (8%)

Query: 122 DKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLV--GRG 179
                   +   F + C+ C   +TG     F+   +  +H +CF C SC+  +      
Sbjct: 2   SSGSSGKDYWGKFGEFCHGCSLLMTG----PFMVAGEFKYHPECFACMSCKVIIEDGDAY 57

Query: 180 FITDGEDIICPDC 192
            +     + C  C
Sbjct: 58  ALVQHATLYCGKC 70

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

 Score = 43.2 bits (102), Expect = 2e-06
 Identities = 14/50 (28%), Positives = 23/50 (46%), Gaps = 2/50 (4%)

Query: 1  MEYKTRQWHEKCFACVVCKTPI--GTKSFIPREQEIYCANCYEEKFATRC 48
          M     ++H +CFAC+ CK  I  G    + +   +YC  C+ E  +   
Sbjct: 30 MVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVVSGPS 79

>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 = 51.3 bits (123), Expect = 2e-09
 Identities = 14/57 (24%), Positives = 25/57 (43%), Gaps = 1/57 (1%)

Query: 84  QIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYS 140
            II    + +KN+P+H + F C+NC   L        + + +C  C  ++      S
Sbjct: 23  AIIDEQPLIFKNDPYHPDHFNCANCGKELTADARE-LKGELYCLPCHDKMGVSGPSS 78

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

 Score = 44.4 bits (105), Expect = 8e-07
 Identities = 15/55 (27%), Positives = 22/55 (40%), Gaps = 5/55 (9%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDC 192
           C  C   I      + + F++  +H D F CA+C   L        GE + C  C
Sbjct: 18  CQKCHAIIDE----QPLIFKNDPYHPDHFNCANCGKELTADARELKGE-LYCLPC 67

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

 Score = 39.4 bits (92), Expect = 4e-05
 Identities = 9/48 (18%), Positives = 20/48 (41%), Gaps = 1/48 (2%)

Query: 1  MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRC 48
          + +K   +H   F C  C   +   +    + E+YC  C+++   +  
Sbjct: 30 LIFKNDPYHPDHFNCANCGKELTADARE-LKGELYCLPCHDKMGVSGP 76

>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 = 51.8 bits (124), Expect = 2e-09
 Identities = 13/57 (22%), Positives = 25/57 (43%)

Query: 91  VTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITG 147
           +    + +H  CF CS C+  L+   + S   + +C   F +LF  +    +   +G
Sbjct: 31  LLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNYDEGFGSG 87

>2d8y_A Eplin protein; LIM domain, epithelial protein LOST in neoplasm, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 91

 Score = 46.8 bits (111), Expect = 1e-07
 Identities = 9/46 (19%), Positives = 18/46 (39%)

Query: 6  RQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKC 51
          + +H  CF C  C   +   ++      IYC   + + F ++    
Sbjct: 36 QVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNYD 81

>2dj7_A Actin-binding LIM protein 3; LIM domain, Zn binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 80

 Score = 49.4 bits (118), Expect = 1e-08
 Identities = 13/43 (30%), Positives = 21/43 (48%), Gaps = 1/43 (2%)

Query: 6  RQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRC 48
          +QWH  CF C  C   + T  +I ++   YC + Y  +F +  
Sbjct: 36 KQWHVSCFKCQTCSVIL-TGEYISKDGVPYCESDYHAQFGSGP 77

>2dj7_A Actin-binding LIM protein 3; LIM domain, Zn binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 80

 Score = 47.4 bits (113), Expect = 5e-08
 Identities = 14/46 (30%), Positives = 21/46 (45%), Gaps = 1/46 (2%)

Query: 95  NEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYS 140
           ++ WH  CF C  CS  L G  + S++  P+C   +   F     S
Sbjct: 35  DKQWHVSCFKCQTCSVILTG-EYISKDGVPYCESDYHAQFGSGPSS 79

>2dj7_A Actin-binding LIM protein 3; LIM domain, Zn binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 80

 Score = 42.4 bits (100), Expect = 4e-06
 Identities = 15/59 (25%), Positives = 20/59 (33%), Gaps = 3/59 (5%)

Query: 127 ADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGE 185
                      C  CK+ I      + +   D+ WH  CF C +C   L G     DG 
Sbjct: 7   GKPIKIRGPSHCAGCKEEIKH---GQSLLALDKQWHVSCFKCQTCSVILTGEYISKDGV 62

>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 = 47.7 bits (113), Expect = 1e-07
 Identities = 16/97 (16%), Positives = 28/97 (28%), Gaps = 8/97 (8%)

Query: 95  NEPWHRECFTCSNCSTSLA--GQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIG--- 149
           +  WH  C  CS+C   L   G    ++     C + +  LF            G G   
Sbjct: 25  DSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAGGSGGHMGSGGDV 84

Query: 150 ---GTRFISFEDRHWHNDCFMCASCQSSLVGRGFITD 183
              G   +   +    ++  +     +       I D
Sbjct: 85  MVVGEPTLMGGEFGDEDERLITRLENTQFDAANGIDD 121

>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 = 45.4 bits (107), Expect = 9e-07
 Identities = 12/57 (21%), Positives = 17/57 (29%), Gaps = 2/57 (3%)

Query: 6  RQWHEKCFACVVCKTPIG--TKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLRE 60
            WH +C  C  C+  +G    S   +   I C N Y   F       +        
Sbjct: 26 SYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAGGSGGHMGSGG 82

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

 Score = 38.4 bits (89), Expect = 2e-04
 Identities = 17/50 (34%), Positives = 22/50 (44%), Gaps = 3/50 (6%)

Query: 131 GELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGF 180
           G L  KRC  C   I        +   D +WH+ C  C+SCQ+ L   G 
Sbjct: 1   GSLSWKRCAGCGGKIAD---RFLLYAMDSYWHSRCLKCSSCQAQLGDIGT 47

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

 Score = 43.6 bits (102), Expect = 1e-06
 Identities = 20/67 (29%), Positives = 28/67 (41%), Gaps = 5/67 (7%)

Query: 131 GELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSL-VGRGFITDGEDIIC 189
           G   +  C SC+K ITG    R +   ++H+H  C +C  C      G      G  I  
Sbjct: 1   GSSGSSGCDSCEKYITG----RVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWH 56

Query: 190 PDCAKAK 196
           P C +A 
Sbjct: 57  PACRQAA 63

>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 = 44.3 bits (104), Expect = 2e-06
 Identities = 12/42 (28%), Positives = 16/42 (38%), Gaps = 2/42 (4%)

Query: 6   RQWHEKCFACVVCKTPIG--TKSFIPREQEIYCANCYEEKFA 45
             WH +C  C  C+  +G    S   +   I C N Y   F 
Sbjct: 82  SYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG 123

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

 Score = 44.0 bits (103), Expect = 3e-06
 Identities = 18/78 (23%), Positives = 25/78 (32%), Gaps = 3/78 (3%)

Query: 103 FTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWH 162
                   +  G +              G L  KRC  C   I        +   D +WH
Sbjct: 29  KMDVTVIDTKDGSQSKLGGGGSGGHMGSGGLSWKRCAGCGGKIAD---RFLLYAMDSYWH 85

Query: 163 NDCFMCASCQSSLVGRGF 180
           + C  C+SCQ+ L   G 
Sbjct: 86  SRCLKCSSCQAQLGDIGT 103

>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 = 43.2 bits (101), Expect = 5e-06
 Identities = 10/43 (23%), Positives = 17/43 (39%), Gaps = 2/43 (4%)

Query: 95  NEPWHRECFTCSNCSTSLAGQRFT--SREDKPFCADCFGELFA 135
           +  WH  C  CS+C   L     +  ++     C + +  LF 
Sbjct: 81  DSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG 123

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	198
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.97
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.97
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.96
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.96
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.96
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.95
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.95
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.95
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.94
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.94
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.94
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.93
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.92
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.89
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.88
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.85
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.85
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.85
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.84
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	99.83
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.81
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.8
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.8
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.8
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.8
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.79
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.78
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.78
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.78
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.76
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.75
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	99.73
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	99.73
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.72
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.71
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	99.7
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	99.7
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	99.7
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	99.69
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.68
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	99.68
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	99.66
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	99.65
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.65
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	99.65
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.65
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.63
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	99.63
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	99.62
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.61
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	99.61
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	99.6
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	99.6
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.6
2cor_A	79	Pinch protein; LIM domain, particularly interestin	99.6
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	99.59
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	99.59
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	99.59
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	99.58
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	99.58
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	99.58
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	99.58
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	99.58
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	99.58
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	99.57
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	99.56
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	99.56
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	99.55
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	99.55
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	99.54
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.53
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.53
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	99.53
2cor_A	79	Pinch protein; LIM domain, particularly interestin	99.52
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	99.52
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	99.51
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	99.51
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	99.5
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	99.49
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	99.48
2co8_A	82	NEDD9 interacting protein with calponin homology a	99.47
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	99.46
2co8_A	82	NEDD9 interacting protein with calponin homology a	99.45
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	99.44
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	97.7
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	97.15
1jjd_A	55	Metallothionein, SMTA; zinc finger, zinc cluster,	86.86
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	84.93
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	83.6
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	82.57
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	80.7
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	80.37

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

Probab=99.97  E-value=7.1e-32  Score=194.07  Aligned_cols=122  Identities=27%  Similarity=0.705  Sum_probs=111.2

Q ss_pred             hcccccccccccccccccccccccCCcccccceeeeeeeeeeec-cCceEeCCcCccccCCCCccCcCCCCCCceeecCC
Q psy8131          44 FATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIIT-SGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSRED  122 (198)
Q Consensus        44 ~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~-~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g  122 (198)
                      ++++|.+|+++                               |. +..+.++|+.||++||+|+.|+++|++..|+++||
T Consensus         2 ~~~~C~~C~~~-------------------------------I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g   50 (126)
T 2xqn_T            2 EKPRCAGCDEL-------------------------------IFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVND   50 (126)
T ss_dssp             CCCBBTTTSSB-------------------------------CCSSCEEEETTEEECGGGSBCTTTCCBCTTSEEEEETT
T ss_pred             cCCCCccCCCE-------------------------------eCCceEEeeCCCCccCCCCCcCCCCCCCCcCEEEeECC
Confidence            57899999994                               44 44678999999999999999999999888999999


Q ss_pred             cccchhhHhhhhccCCCCCCCCCcCCCCceEEeeCCCccc--ccCcccCcCCCCCCCCceEecCCceeCcccccccCC
Q psy8131         123 KPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWH--NDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKLM  198 (198)
Q Consensus       123 ~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H--~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~~  198 (198)
                      ++||+.||.++++++|++|+++|.+.  +.+|++.++.||  ++||+|..|+++|.++.|+..++++||..++.++|.
T Consensus        51 ~~yC~~cy~~~~~~~C~~C~~~I~~~--~~~~~a~~~~~H~~~~CF~C~~C~~~l~~~~f~~~~~~~yC~~~~~~~f~  126 (126)
T 2xqn_T           51 KPVCKPCYVKNHAVVCQGCHNAIDPE--VQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKRMS  126 (126)
T ss_dssp             EEEEHHHHHHHSCCBCTTTCSBCCTT--SCEEEETTEEEESSTTTSBCTTTCCBCTTSEEEEETTEEESSHHHHHSCC
T ss_pred             EEechHHhCcCcCccCcccCCcCCcC--ceEEECCCCEeeCCCCCcCcCCCCCccCCCeeEeECCEEcchHHhhhhcC
Confidence            99999999999999999999999962  478999999999  999999999999999999999999999977777663

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

Probab=99.97  E-value=5.9e-31  Score=190.44  Aligned_cols=111  Identities=27%  Similarity=0.623  Sum_probs=100.8

Q ss_pred             eeccC-ceEeCCcCccccCCCCccCcCCCC--CCceeecCCcccchhhHhhhhcc--CCCCCCCCCcCCCCceEEeeCCC
Q psy8131          85 IITSG-GVTYKNEPWHRECFTCSNCSTSLA--GQRFTSREDKPFCADCFGELFAK--RCYSCKKPITGIGGTRFISFEDR  159 (198)
Q Consensus        85 ~i~~~-~~~~~~~~~H~~CF~C~~C~~~l~--~~~~~~~~g~~yC~~c~~~~~~~--~C~~C~~~I~~~~~~~~~~~~~~  159 (198)
                      +|.+. .+.++|+.||++||+|+.|+++|+  +..|+.+||++||+.||.+++++  +|++|+++|.+.  +.++.+.++
T Consensus        11 ~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~~~~C~~C~~~I~~~--e~~~~a~~~   88 (131)
T 2xjy_A           11 NIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIRAY--EMTMRVKDK   88 (131)
T ss_dssp             BCCSSEEEEETTEEEETTTCBCTTTCCBCSSTTCCEEEETTEEECHHHHHHHHCCCEECTTTCCEECTT--SEEEEETTE
T ss_pred             EeCCcEEEEECCCcccHHHcccCcCCCccccCCCeEEEECCEEeecCchhhhCCCccChhhcCCccCcc--ceeEeeCCc
Confidence            55555 578999999999999999999995  46799999999999999999999  999999999863  478899999


Q ss_pred             cccccCcccCcCCCCC-CCCceEecCCceeCcccccccC
Q psy8131         160 HWHNDCFMCASCQSSL-VGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       160 ~~H~~Cf~C~~C~~~l-~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      .||++||+|..|+++| .++.|+..++++||..||.+++
T Consensus        89 ~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~C~~c~~~~~  127 (131)
T 2xjy_A           89 VYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIYEWT  127 (131)
T ss_dssp             EEEGGGCBCTTTCCBCCTTCEEEEETTEEEEGGGHHHHH
T ss_pred             eECccCcccCCCCCCCCCCCEEEEECCEEEcHHHHHHHh
Confidence            9999999999999999 6888999999999999998765

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

Probab=99.96  E-value=4.4e-30  Score=195.79  Aligned_cols=133  Identities=23%  Similarity=0.513  Sum_probs=114.4

Q ss_pred             CCeecchhhHH---hhhcccccccccccccccccccccccCCcccccceeeeeeeeeeeccC-ceEeCCcCccccCCCCc
Q psy8131          31 EQEIYCANCYE---EKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSG-GVTYKNEPWHRECFTCS  106 (198)
Q Consensus        31 ~g~~yC~~cy~---~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~~~H~~CF~C~  106 (198)
                      +++.||...+.   ....++|.+|++                               +|.+. .+.++|+.||++||+|+
T Consensus        43 ~~~~~~~~~~~~~~~~~~~~C~~C~~-------------------------------~I~~~~~~~a~~~~wH~~CF~C~   91 (182)
T 2jtn_A           43 DDEGGSGGHMGSGGTPEIPMCAGCDQ-------------------------------HILDRFILKALDRHWHSKCLKCS   91 (182)
T ss_dssp             SSSCSSSSSCCCCCCCSCCBCBTSSS-------------------------------BCCCSEEEEETTEEECSSTTSCT
T ss_pred             ccccccccccccCCCCCCCcCccCCC-------------------------------CccCceeEEecCCeEccccCccC
Confidence            56788988875   445689999999                               45544 46789999999999999


Q ss_pred             cCcCCCCCCceeecCCcccchhhHhhhhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCC-CCceEe-cC
Q psy8131         107 NCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLV-GRGFIT-DG  184 (198)
Q Consensus       107 ~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~-~~  184 (198)
                      .|+++|.+.. +.++|++||+.||.++|+++|.+|+++|.+.  +.++.+.++.||++||+|..|+++|. |+.|+. .+
T Consensus        92 ~C~~~L~~~~-f~~~g~~yC~~~y~~~f~~kC~~C~~~I~~~--~~v~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~  168 (182)
T 2jtn_A           92 DCHVPLAERC-FSRGESVYCKDDFFKRFGTKCAACQLGIPPT--QVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMED  168 (182)
T ss_dssp             TTCCCCSSCC-EEETTEEECHHHHHHTTSCCCTTTCCCCCSS--CCCCEETTEECCTTTCCCTTTCCCCCTTCEEEECTT
T ss_pred             CCCCccCCCc-eeECCEeeecCccccccccccccCCCccCCC--ceEEecCCCCEEeCCCcCCCCCCCCCCCCceEEccC
Confidence            9999998776 4799999999999999999999999999873  35678999999999999999999995 677754 58


Q ss_pred             CceeCcccccccC
Q psy8131         185 EDIICPDCAKAKL  197 (198)
Q Consensus       185 ~~~~C~~C~~~~~  197 (198)
                      +++||..||.++.
T Consensus       169 g~~yC~~cy~~~~  181 (182)
T 2jtn_A          169 SRLVCKADYETAK  181 (182)
T ss_dssp             SCEECHHHHHHHT
T ss_pred             CEEECHHHHHHhh
Confidence            8999999998765

>1b8t_A Protein (CRP1); LIM domain, muscle differentiation, contractIle; NMR {Gallus gallus} SCOP: g.39.1.3 g.39.1.3 g.39.1.3 g.39.1.3 PDB: 1ibi_A 1qli_A 1cxx_A 1ctl_A 2o13_A

Probab=99.96  E-value=7e-30  Score=196.24  Aligned_cols=145  Identities=23%  Similarity=0.528  Sum_probs=113.7

Q ss_pred             ccCCcccCcCCcccCCCCCCCCCCCcccCCCeecchhhHHhhhccccccccccccccccc-cc-cc-----ccCCc-cc-
Q psy8131           2 EYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLREK-GT-FQ-----SHSGR-IN-   72 (198)
Q Consensus         2 ~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~~~~~~~~-~~-~~-----~~~~~-~~-   72 (198)
                      .++|+.||++||+|..|+++|++..|+++||++||+.||.++|+|+|.+|+++...+..+ +. +.     ++... .+ 
T Consensus        24 ~a~g~~wH~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~f~~~c~~c~~~~g~~~~~~~~~~~~~~~~~~~~~p~~~  103 (192)
T 1b8t_A           24 QCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNP  103 (192)
T ss_dssp             EETTEEECTTTCBCTTTCCBCCSSSEEEETTEEEEHHHHHHHHSCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_pred             EeCCceecCCCCcCcccCCcCCCCeeEecCCEeeChhhhHhhcCccccccccccccEecCCCcccccccccccccCCCCc
Confidence            478999999999999999999999999999999999999999999999998743211100 00 00     00000 00 


Q ss_pred             --ccc------eeeeeeeeeeec-cCceEeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhhhccCCCCCCC
Q psy8131          73 --KVY------SILFYFLFQIIT-SGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKK  143 (198)
Q Consensus        73 --~~~------~~~~~~~~~~i~-~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~~C~~  143 (198)
                        ..+      ...+..+.++|. +..|.++++.||++||+|+.|+++|.+..|+.+||++||+.||.++|+++|.+|++
T Consensus       104 ~~~~~~~~~~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~f~~kc~~C~~  183 (192)
T 1b8t_A          104 NASRMAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKGFGFGQ  183 (192)
T ss_dssp             CCCCCCCCCCCCEECTTTSCEECSSSCEEETTEEECTTTCBCTTTCCBCCSSSEEEETTEEEEHHHHHHHTCCCCCCCCC
T ss_pred             CccccccccCCCCcCCCCCCEecCcEEEecCCCccchhcCCccccCCCCCCCcccccCCEEeCHHHHHHhcCCcCCCCCC
Confidence              000      122445666776 45788999999999999999999998778999999999999999999999999999


Q ss_pred             CCc
Q psy8131         144 PIT  146 (198)
Q Consensus       144 ~I~  146 (198)
                      ++-
T Consensus       184 ~~g  186 (192)
T 1b8t_A          184 GAG  186 (192)
T ss_dssp             CCC
T ss_pred             ccc
Confidence            963

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

Probab=99.96  E-value=1.2e-29  Score=194.35  Aligned_cols=112  Identities=21%  Similarity=0.537  Sum_probs=100.9

Q ss_pred             eeccC-ceEeCCcCccccCCCCccCcCCCCC--CceeecCCcccchhhHhhhhcc--CCCCCCCCCcCCCCceEEeeCCC
Q psy8131          85 IITSG-GVTYKNEPWHRECFTCSNCSTSLAG--QRFTSREDKPFCADCFGELFAK--RCYSCKKPITGIGGTRFISFEDR  159 (198)
Q Consensus        85 ~i~~~-~~~~~~~~~H~~CF~C~~C~~~l~~--~~~~~~~g~~yC~~c~~~~~~~--~C~~C~~~I~~~~~~~~~~~~~~  159 (198)
                      +|.+. .+.++++.||++||+|+.|+++|..  ..|+.+||++||+.||.+++++  +|.+|+++|.+.  +.++.+.++
T Consensus        14 ~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~cy~~~~~~~~~C~~C~~~I~~~--e~~i~a~~~   91 (188)
T 1rut_X           14 KIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPAS--ELVMRAQGN   91 (188)
T ss_dssp             BCCCSEEEEETTEEECGGGCBCTTTCCBHHHHCSEEEEETTEEECHHHHHHHHSCCEECTTTCCEECTT--SEEEEETTE
T ss_pred             EeCCceeEEecCcEecccCcccCCCCcccccCCceEEEeCCccccccccccccccCCccccCCCccccC--cEEEEcCCC
Confidence            45555 4789999999999999999999964  6799999999999999999999  799999999863  478899999


Q ss_pred             cccccCcccCcCCCCC-CCCceEecCCceeCcccccccCC
Q psy8131         160 HWHNDCFMCASCQSSL-VGRGFITDGEDIICPDCAKAKLM  198 (198)
Q Consensus       160 ~~H~~Cf~C~~C~~~l-~~~~~~~~~~~~~C~~C~~~~~~  198 (198)
                      .||++||+|..|+++| .++.|+..++++||..||.++++
T Consensus        92 ~~H~~CF~C~~C~~~L~~g~~f~~~~g~~yC~~c~~~~~~  131 (188)
T 1rut_X           92 VYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALI  131 (188)
T ss_dssp             EECGGGCBCTTTCCBCCTTCEEEEETTEEEEGGGCCTTTC
T ss_pred             EEeCCCCeECCCCCCCCCCCeEEEECCeEECHHHHHHHhc
Confidence            9999999999999999 57889999999999999998764

>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=99.95  E-value=7.7e-29  Score=186.77  Aligned_cols=110  Identities=25%  Similarity=0.571  Sum_probs=96.7

Q ss_pred             eeccC-ceEeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhhhccCCCCCCCCCcCCCCceEEeeCCCcccc
Q psy8131          85 IITSG-GVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHN  163 (198)
Q Consensus        85 ~i~~~-~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~  163 (198)
                      +|.+. .+.++|+.||++||+|+.|+++|++.. +++||++||+.||.++|+++|++|+++|.+.  +.++.+.++.||+
T Consensus        15 ~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~-f~~~g~~yC~~~y~~~f~~~C~~C~~~I~~~--~~v~~a~~~~~H~   91 (169)
T 2rgt_A           15 HILDRFILKALDRHWHSKCLKCSDCHVPLAERC-FSRGESVYCKDDFFKRFGTKCAACQLGIPPT--QVVRRAQDFVYHL   91 (169)
T ss_dssp             BCCSSSCEECSSCEECTTTSBCTTTCCBCCSCC-EESSSCEECHHHHHHHHSCBCTTTCCBCCTT--SEEEEETTEEEEG
T ss_pred             ccCCcEEEEECCcEEccccCccCCCCCcCCCCC-cccCCeeeecccccccccccccccccccCCC--cEEEEcCCceEee
Confidence            44444 467899999999999999999998875 5899999999999999999999999999873  4677899999999


Q ss_pred             cCcccCcCCCCCC-CCceEe-cCCceeCcccccccC
Q psy8131         164 DCFMCASCQSSLV-GRGFIT-DGEDIICPDCAKAKL  197 (198)
Q Consensus       164 ~Cf~C~~C~~~l~-~~~~~~-~~~~~~C~~C~~~~~  197 (198)
                      +||+|..|+++|. |+.|+. .++++||..||.+++
T Consensus        92 ~CF~C~~C~~~L~~g~~f~~~~~g~~~C~~c~~~~~  127 (169)
T 2rgt_A           92 HCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAK  127 (169)
T ss_dssp             GGCBCTTTCCBCCTTCEEEECTTSCEEEHHHHHHHH
T ss_pred             CCCcCCCCCCCCCCCCceEEccCCeEECHHHHHHHh
Confidence            9999999999995 777754 688999999998764

>1b8t_A Protein (CRP1); LIM domain, muscle differentiation, contractIle; NMR {Gallus gallus} SCOP: g.39.1.3 g.39.1.3 g.39.1.3 g.39.1.3 PDB: 1ibi_A 1qli_A 1cxx_A 1ctl_A 2o13_A

Probab=99.95  E-value=1.3e-28  Score=189.12  Aligned_cols=107  Identities=23%  Similarity=0.688  Sum_probs=97.7

Q ss_pred             cCceEeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhhhccC------------------------------
Q psy8131          88 SGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKR------------------------------  137 (198)
Q Consensus        88 ~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~------------------------------  137 (198)
                      +..+.++|+.||++||+|..|+++|.+..|+++||++||+.||.++|+++                              
T Consensus        20 ~~~v~a~g~~wH~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~f~~~c~~c~~~~g~~~~~~~~~~~~~~~~~~~~~   99 (192)
T 1b8t_A           20 AEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTDKGESLGIKYEEGQSHR   99 (192)
T ss_dssp             SCCEEETTEEECTTTCBCTTTCCBCCSSSEEEETTEEEEHHHHHHHHSCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_pred             eeEEEeCCceecCCCCcCcccCCcCCCCeeEecCCEeeChhhhHhhcCccccccccccccEecCCCcccccccccccccC
Confidence            55678999999999999999999998888999999999999999999886                              


Q ss_pred             ------------------CCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         138 ------------------CYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       138 ------------------C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                                        |++|+++|.+.   ..|.+.++.||++||+|..|+++|.+..|+..++++||..||.+++
T Consensus       100 p~~~~~~~~~~~~~~~~~C~~C~~~I~~~---~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~f  174 (192)
T 1b8t_A          100 PTNPNASRMAQKVGGSDGCPRCGQAVYAA---EKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNF  174 (192)
T ss_dssp             CCCCCCCCCCCCCCCCEECTTTSCEECSS---SCEEETTEEECTTTCBCTTTCCBCCSSSEEEETTEEEEHHHHHHHT
T ss_pred             CCCcCccccccccCCCCcCCCCCCEecCc---EEEecCCCccchhcCCccccCCCCCCCcccccCCEEeCHHHHHHhc
Confidence                              77899999863   4567999999999999999999998888999999999999998875

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

Probab=99.95  E-value=1.4e-28  Score=176.75  Aligned_cols=103  Identities=32%  Similarity=0.719  Sum_probs=94.9

Q ss_pred             CccCCcccCcCCcccCCCCCCCCCCCcccCCCeecchhhHHhhhcccccccccccccccccccccccCCcccccceeeee
Q psy8131           1 MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFY   80 (198)
Q Consensus         1 ~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (198)
                      |.++|+.||++||+|+.|+++|++..|+++||++||+.||.++++|+|.+|+++                          
T Consensus        19 ~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~--------------------------   72 (126)
T 2xqn_T           19 TQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVVCQGCHNA--------------------------   72 (126)
T ss_dssp             EEETTEEECGGGSBCTTTCCBCTTSEEEEETTEEEEHHHHHHHSCCBCTTTCSB--------------------------
T ss_pred             EeeCCCCccCCCCCcCCCCCCCCcCEEEeECCEEechHHhCcCcCccCcccCCc--------------------------
Confidence            357899999999999999999999999999999999999999999999999995                          


Q ss_pred             eeeeeec--cCceEeCCcCcc--ccCCCCccCcCCCCCCceeecCCcccchhhHhhhh
Q psy8131          81 FLFQIIT--SGGVTYKNEPWH--RECFTCSNCSTSLAGQRFTSREDKPFCADCFGELF  134 (198)
Q Consensus        81 ~~~~~i~--~~~~~~~~~~~H--~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~  134 (198)
                           |.  +..|+++++.||  ++||+|..|+++|.++.|++++|++||..+|.++|
T Consensus        73 -----I~~~~~~~~a~~~~~H~~~~CF~C~~C~~~l~~~~f~~~~~~~yC~~~~~~~f  125 (126)
T 2xqn_T           73 -----IDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKRM  125 (126)
T ss_dssp             -----CCTTSCEEEETTEEEESSTTTSBCTTTCCBCTTSEEEEETTEEESSHHHHHSC
T ss_pred             -----CCcCceEEECCCCEeeCCCCCcCcCCCCCccCCCeeEeECCEEcchHHhhhhc
Confidence                 44  456889999999  99999999999999888999999999998887765

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

Probab=99.94  E-value=2.2e-28  Score=176.88  Aligned_cols=105  Identities=24%  Similarity=0.583  Sum_probs=94.7

Q ss_pred             CccCCcccCcCCcccCCCCCCCC--CCCcccCCCeecchhhHHhhhcc--cccccccccccccccccccccCCcccccce
Q psy8131           1 MEYKTRQWHEKCFACVVCKTPIG--TKSFIPREQEIYCANCYEEKFAT--RCVKCNKTFFRLREKGTFQSHSGRINKVYS   76 (198)
Q Consensus         1 ~~~~~~~~H~~CF~C~~C~~~L~--~~~f~~~~g~~yC~~cy~~~~~~--~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~   76 (198)
                      |.++|+.||++||+|+.|+++|+  +..|+++||++||+.||.+++++  +|.+|++                       
T Consensus        18 ~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~~~~C~~C~~-----------------------   74 (131)
T 2xjy_A           18 LKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDK-----------------------   74 (131)
T ss_dssp             EEETTEEEETTTCBCTTTCCBCSSTTCCEEEETTEEECHHHHHHHHCCCEECTTTCC-----------------------
T ss_pred             EEECCCcccHHHcccCcCCCccccCCCeEEEECCEEeecCchhhhCCCccChhhcCC-----------------------
Confidence            35789999999999999999996  46899999999999999999999  9999999                       


Q ss_pred             eeeeeeeeeecc--CceEeCCcCccccCCCCccCcCCC-CCCceeecCCcccchhhHhhhhcc
Q psy8131          77 ILFYFLFQIITS--GGVTYKNEPWHRECFTCSNCSTSL-AGQRFTSREDKPFCADCFGELFAK  136 (198)
Q Consensus        77 ~~~~~~~~~i~~--~~~~~~~~~~H~~CF~C~~C~~~l-~~~~~~~~~g~~yC~~c~~~~~~~  136 (198)
                              +|.+  ..+.+.++.||++||+|..|+++| .+..|++.++++||..||.+++++
T Consensus        75 --------~I~~~e~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~C~~c~~~~~~~  129 (131)
T 2xjy_A           75 --------RIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIYEWTKI  129 (131)
T ss_dssp             --------EECTTSEEEEETTEEEEGGGCBCTTTCCBCCTTCEEEEETTEEEEGGGHHHHHHH
T ss_pred             --------ccCccceeEeeCCceECccCcccCCCCCCCCCCCEEEEECCEEEcHHHHHHHhhc
Confidence                    4443  467899999999999999999999 577799999999999999988764

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

Probab=99.94  E-value=4.1e-28  Score=185.80  Aligned_cols=137  Identities=21%  Similarity=0.447  Sum_probs=104.2

Q ss_pred             CccCCcccCcCCcccCCCCCCCCC--CCcccCCCeecchhhHHhhhcc--cccccccccccccccccccccCCcccccce
Q psy8131           1 MEYKTRQWHEKCFACVVCKTPIGT--KSFIPREQEIYCANCYEEKFAT--RCVKCNKTFFRLREKGTFQSHSGRINKVYS   76 (198)
Q Consensus         1 ~~~~~~~~H~~CF~C~~C~~~L~~--~~f~~~~g~~yC~~cy~~~~~~--~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~   76 (198)
                      |.++|+.||++||+|..|+++|.+  ..|++++|++||+.||.+++++  +|.+|+++                      
T Consensus        21 ~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~cy~~~~~~~~~C~~C~~~----------------------   78 (188)
T 1rut_X           21 LYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQS----------------------   78 (188)
T ss_dssp             EEETTEEECGGGCBCTTTCCBHHHHCSEEEEETTEEECHHHHHHHHSCCEECTTTCCE----------------------
T ss_pred             EEecCcEecccCcccCCCCcccccCCceEEEeCCccccccccccccccCCccccCCCc----------------------
Confidence            357899999999999999999985  7899999999999999999999  79999994                      


Q ss_pred             eeeeeeeeeecc--CceEeCCcCccccCCCCccCcCCCC-CCceeecCCcccchhhHhhhhccCCCCCCCCCc---CCCC
Q psy8131          77 ILFYFLFQIITS--GGVTYKNEPWHRECFTCSNCSTSLA-GQRFTSREDKPFCADCFGELFAKRCYSCKKPIT---GIGG  150 (198)
Q Consensus        77 ~~~~~~~~~i~~--~~~~~~~~~~H~~CF~C~~C~~~l~-~~~~~~~~g~~yC~~c~~~~~~~~C~~C~~~I~---~~~~  150 (198)
                               |.+  ..+.+.++.||++||+|..|+++|. +..|+..++++||..||.++++++|...+..-.   ...+
T Consensus        79 ---------I~~~e~~i~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~g~~yC~~c~~~~~~~~~~~~g~~~~~~~~~~~  149 (188)
T 1rut_X           79 ---------IPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHLNSGGSGGSGGSGGD  149 (188)
T ss_dssp             ---------ECTTSEEEEETTEEECGGGCBCTTTCCBCCTTCEEEEETTEEEEGGGCCTTTC----------------CC
T ss_pred             ---------cccCcEEEEcCCCEEeCCCCeECCCCCCCCCCCeEEEECCeEECHHHHHHHhcccccccCCCCcccccCCc
Confidence                     443  3567999999999999999999995 667999999999999999999999987765211   1000


Q ss_pred             ceE---EeeCCCcccccCccc
Q psy8131         151 TRF---ISFEDRHWHNDCFMC  168 (198)
Q Consensus       151 ~~~---~~~~~~~~H~~Cf~C  168 (198)
                      ..+   ....+..+|++..+.
T Consensus       150 v~vvgep~l~g~~~~~~~~r~  170 (188)
T 1rut_X          150 VMVVGEPTLMGGEFGDEDERL  170 (188)
T ss_dssp             CEECCCCEETTCCCCCTTEEE
T ss_pred             ccccCCCcccCCCCCCCCCce
Confidence            011   245566777766654

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

Probab=99.94  E-value=6.5e-27  Score=176.23  Aligned_cols=128  Identities=23%  Similarity=0.532  Sum_probs=100.7

Q ss_pred             ccCCcccCcCCcccCCCCCCCCCCCcccCCCeecchhhHHhhhcccccccccccccccccccccccCCcccccceeeeee
Q psy8131           2 EYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYF   81 (198)
Q Consensus         2 ~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (198)
                      .++|+.||++||+|..|+++|++..| ++||++||+.||.++|+++|.+|+++                           
T Consensus        23 ~a~~~~wH~~CF~C~~C~~~L~~~~f-~~~g~~yC~~~y~~~f~~~C~~C~~~---------------------------   74 (169)
T 2rgt_A           23 KALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRFGTKCAACQLG---------------------------   74 (169)
T ss_dssp             ECSSCEECTTTSBCTTTCCBCCSCCE-ESSSCEECHHHHHHHHSCBCTTTCCB---------------------------
T ss_pred             EECCcEEccccCccCCCCCcCCCCCc-ccCCeeeecccccccccccccccccc---------------------------
Confidence            57899999999999999999998775 79999999999999999999999995                           


Q ss_pred             eeeeeccC--ceEeCCcCccccCCCCccCcCCCC-CCcee-ecCCcccchhhHhhhhccCCC--CCCCCCcCCCCceEEe
Q psy8131          82 LFQIITSG--GVTYKNEPWHRECFTCSNCSTSLA-GQRFT-SREDKPFCADCFGELFAKRCY--SCKKPITGIGGTRFIS  155 (198)
Q Consensus        82 ~~~~i~~~--~~~~~~~~~H~~CF~C~~C~~~l~-~~~~~-~~~g~~yC~~c~~~~~~~~C~--~C~~~I~~~~~~~~~~  155 (198)
                          |.+.  .+.+.++.||++||+|..|+++|. +..|+ ..||++||..||.+++...+.  +.+++.+      .++
T Consensus        75 ----I~~~~~v~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~~C~~c~~~~~~~~~~~~~~~rprt------~~~  144 (169)
T 2rgt_A           75 ----IPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAKQGGSGGSGGSGGGT------PMV  144 (169)
T ss_dssp             ----CCTTSEEEEETTEEEEGGGCBCTTTCCBCCTTCEEEECTTSCEEEHHHHHHHHHCC----------E------EEE
T ss_pred             ----cCCCcEEEEcCCceEeeCCCcCCCCCCCCCCCCceEEccCCeEECHHHHHHHhhccCCCCCCcCCCC------ccc
Confidence                3332  457899999999999999999996 55565 468999999999988876543  3333332      355


Q ss_pred             eCCCcccccCcc
Q psy8131         156 FEDRHWHNDCFM  167 (198)
Q Consensus       156 ~~~~~~H~~Cf~  167 (198)
                      +.....|...|.
T Consensus       145 ~~q~~~l~~~f~  156 (169)
T 2rgt_A          145 AASPERHDGGLQ  156 (169)
T ss_dssp             CCCCEECCSSCC
T ss_pred             HHHHHHHHHHHh
Confidence            666666666554

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

Probab=99.93  E-value=7.8e-27  Score=161.37  Aligned_cols=83  Identities=34%  Similarity=0.801  Sum_probs=77.4

Q ss_pred             cCceEeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhhhccCCCCCCCCCcCCCCceEEeeCCCcccccCcc
Q psy8131          88 SGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFM  167 (198)
Q Consensus        88 ~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~  167 (198)
                      +..+.++|+.||++||+|..|+++|.+..|+.++|++||+.||.++++++|++|+++|.+  ++.+|+++++.||++||+
T Consensus        19 ~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~C~~C~~~I~~--~~~~~~a~~~~~H~~CF~   96 (101)
T 2cup_A           19 SKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSPKCKGCFKAIVA--GDQNVEYKGTVWHKDCFS   96 (101)
T ss_dssp             SCEEEETTEEEETTTCCCSSSCCCTTSSCCEEETTEEECHHHHTTCCCCBCSSSCCBCCS--SSCEEESSSCEEETTTCC
T ss_pred             ceEEEECccChhhcCCcccccCCCCCcCeeECcCCEEEChhHhhhhcCCccccCCCcccc--CCeEEEeCCcchHHhCCC
Confidence            567789999999999999999999988889999999999999999999999999999985  247899999999999999


Q ss_pred             cCcCC
Q psy8131         168 CASCQ  172 (198)
Q Consensus       168 C~~C~  172 (198)
                      |..|+
T Consensus        97 C~~C~  101 (101)
T 2cup_A           97 GPSSG  101 (101)
T ss_dssp             CTTCC
T ss_pred             CCCCC
Confidence            99986

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

Probab=99.92  E-value=8.5e-26  Score=172.04  Aligned_cols=102  Identities=26%  Similarity=0.684  Sum_probs=88.2

Q ss_pred             ccCCcccCcCCcccCCCCCCCCCCCcccCCCeecchhhHHhhhcccccccccccccccccccccccCCcccccceeeeee
Q psy8131           2 EYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYF   81 (198)
Q Consensus         2 ~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (198)
                      .++|+.||++||+|..|+++|.+..| +++|++||+.||.++|+|+|.+|+++|.                         
T Consensus        77 ~a~~~~wH~~CF~C~~C~~~L~~~~f-~~~g~~yC~~~y~~~f~~kC~~C~~~I~-------------------------  130 (182)
T 2jtn_A           77 KALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRFGTKCAACQLGIP-------------------------  130 (182)
T ss_dssp             EETTEEECSSTTSCTTTCCCCSSCCE-EETTEEECHHHHHHTTSCCCTTTCCCCC-------------------------
T ss_pred             EecCCeEccccCccCCCCCccCCCce-eECCEeeecCccccccccccccCCCccC-------------------------
Confidence            57899999999999999999998776 7999999999999999999999999531                         


Q ss_pred             eeeeeccCceEeCCcCccccCCCCccCcCCCC-CCcee-ecCCcccchhhHhhh
Q psy8131          82 LFQIITSGGVTYKNEPWHRECFTCSNCSTSLA-GQRFT-SREDKPFCADCFGEL  133 (198)
Q Consensus        82 ~~~~i~~~~~~~~~~~~H~~CF~C~~C~~~l~-~~~~~-~~~g~~yC~~c~~~~  133 (198)
                          .....+.+.++.||++||+|..|+++|. +..|+ ..+|++||..||.++
T Consensus       131 ----~~~~v~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~yC~~cy~~~  180 (182)
T 2jtn_A          131 ----PTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETA  180 (182)
T ss_dssp             ----SSCCCCEETTEECCTTTCCCTTTCCCCCTTCEEEECTTSCEECHHHHHHH
T ss_pred             ----CCceEEecCCCCEEeCCCcCCCCCCCCCCCCceEEccCCEEECHHHHHHh
Confidence                1122457899999999999999999996 45565 568999999999765

>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=99.89  E-value=4.6e-24  Score=152.34  Aligned_cols=97  Identities=20%  Similarity=0.298  Sum_probs=83.6

Q ss_pred             eeccC-ceEeCCcCccccCCCCccCcCCCC--CCceeecCCcccchhhHhhhhcc--CCCCCCCCCcCCCCceEEeeCCC
Q psy8131          85 IITSG-GVTYKNEPWHRECFTCSNCSTSLA--GQRFTSREDKPFCADCFGELFAK--RCYSCKKPITGIGGTRFISFEDR  159 (198)
Q Consensus        85 ~i~~~-~~~~~~~~~H~~CF~C~~C~~~l~--~~~~~~~~g~~yC~~c~~~~~~~--~C~~C~~~I~~~~~~~~~~~~~~  159 (198)
                      +|.+. .++++++.||++||+|+.|+++|.  +..|+.++|++||+.||.++|++  +|++|+++|.+    ..+++.++
T Consensus        14 ~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~cy~~~f~~~~~C~~C~~~I~~----~~~~~~g~   89 (122)
T 1m3v_A           14 KIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAGGSGGHMGSG----GDVMVVGE   89 (122)
T ss_dssp             CCCSSCCEEETTEEECHHHHCCSSSCCCTTTSEECCEEETTEEECHHHHHHHHCCCCSSSCSSCCSCC----EESSSSSS
T ss_pred             EeCCcEEEEECCceeHhhCCCcCCCCCcccccCCeEEEECCeeecHHHHHHHcCCCCccccCCCCcCc----hheEEcCC
Confidence            45555 478999999999999999999996  35699999999999999999999  99999999997    33455553


Q ss_pred             cccccCcccCcCCCCCCCCceEecCCceeCcccccccCC
Q psy8131         160 HWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKLM  198 (198)
Q Consensus       160 ~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~~  198 (198)
                                   .+|.|+.|+..+++|||..|+.++++
T Consensus        90 -------------~~l~g~~f~~~~~~~yC~~~~~~~~~  115 (122)
T 1m3v_A           90 -------------PTLMGGEFGDEDERLITRLENTQFDA  115 (122)
T ss_dssp             -------------SSCCSCTTCCTTCCCCEECTTTTTTC
T ss_pred             -------------cCCCCCccEecCCEeEccCcchhchh
Confidence                         36789999999999999999988764

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

Probab=99.88  E-value=1.7e-23  Score=144.57  Aligned_cols=78  Identities=32%  Similarity=0.926  Sum_probs=71.8

Q ss_pred             CccCCcccCcCCcccCCCCCCCCCCCcccCCCeecchhhHHhhhcccccccccccccccccccccccCCcccccceeeee
Q psy8131           1 MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFY   80 (198)
Q Consensus         1 ~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (198)
                      |.++|+.||++||+|..|+++|.+..|++++|++||+.||.++++|+|.+|+++                          
T Consensus        22 ~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~C~~C~~~--------------------------   75 (101)
T 2cup_A           22 VHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSPKCKGCFKA--------------------------   75 (101)
T ss_dssp             EEETTEEEETTTCCCSSSCCCTTSSCCEEETTEEECHHHHTTCCCCBCSSSCCB--------------------------
T ss_pred             EEECccChhhcCCcccccCCCCCcCeeECcCCEEEChhHhhhhcCCccccCCCc--------------------------
Confidence            357899999999999999999999999999999999999999999999999994                          


Q ss_pred             eeeeeec--cCceEeCCcCccccCCCCccCc
Q psy8131          81 FLFQIIT--SGGVTYKNEPWHRECFTCSNCS  109 (198)
Q Consensus        81 ~~~~~i~--~~~~~~~~~~~H~~CF~C~~C~  109 (198)
                           |.  +..|+++|+.||++||+|+.|+
T Consensus        76 -----I~~~~~~~~a~~~~~H~~CF~C~~C~  101 (101)
T 2cup_A           76 -----IVAGDQNVEYKGTVWHKDCFSGPSSG  101 (101)
T ss_dssp             -----CCSSSCEEESSSCEEETTTCCCTTCC
T ss_pred             -----cccCCeEEEeCCcchHHhCCCCCCCC
Confidence                 44  4578899999999999999985

>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=99.85  E-value=2.7e-22  Score=132.73  Aligned_cols=79  Identities=23%  Similarity=0.500  Sum_probs=73.6

Q ss_pred             CCeecchhhHHhhhcccccccccccccccccccccccCCcccccceeeeeeeeeeeccCceEeCCcCccccCCCCccCcC
Q psy8131          31 EQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCST  110 (198)
Q Consensus        31 ~g~~yC~~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~H~~CF~C~~C~~  110 (198)
                      +|++||++||.++++++|.+|++                               +|.+..|.++++.||++||+|+.|++
T Consensus         1 gg~~yC~~~y~~~~~~~C~~C~~-------------------------------~I~~~~v~a~~~~~H~~CF~C~~C~~   49 (80)
T 1x3h_A            1 GSSGSSGKDFLAMFSPKCGGCNR-------------------------------PVLENYLSAMDTVWHPECFVCGDCFT   49 (80)
T ss_dssp             CCCCCCCCCCCCCCSCBCTTTCC-------------------------------BCCSSCEEETTEEECTTTCBCSSSCC
T ss_pred             CCCccchhHHhhhcCCccccCCC-------------------------------eecceeEEECCCeEecCcCChhhCCC
Confidence            58999999999999999999999                               55567889999999999999999999


Q ss_pred             CCCCCceeecCCcccchhhHhhhhccCCCC
Q psy8131         111 SLAGQRFTSREDKPFCADCFGELFAKRCYS  140 (198)
Q Consensus       111 ~l~~~~~~~~~g~~yC~~c~~~~~~~~C~~  140 (198)
                      +|.+..|+.+++++||+.||.++|+++|++
T Consensus        50 ~L~~~~~~~~~~~~yC~~~y~~~f~~~C~~   79 (80)
T 1x3h_A           50 SFSTGSFFELDGRPFCELHYHHRRGSGPSS   79 (80)
T ss_dssp             BSCSSCCEESSSCEECHHHHHHHHSSSCCC
T ss_pred             CCCCCcEEeECCEEECHHHHHHHcCCCCCC
Confidence            998878999999999999999999999974

>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=99.85  E-value=2.7e-22  Score=132.75  Aligned_cols=79  Identities=54%  Similarity=1.188  Sum_probs=73.5

Q ss_pred             CCeecchhhHHhhhcccccccccccccccccccccccCCcccccceeeeeeeeeeeccCceEeCCcCccccCCCCccCcC
Q psy8131          31 EQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCST  110 (198)
Q Consensus        31 ~g~~yC~~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~H~~CF~C~~C~~  110 (198)
                      +|++||++||.++++++|.+|++                               +|.+..|.++++.||++||+|+.|++
T Consensus         1 gg~~yC~~cy~~~~~~~C~~C~~-------------------------------~I~~~~v~a~~~~~H~~CF~C~~C~~   49 (80)
T 2cuq_A            1 GSSGSSGPCYENKFAPRCARCSK-------------------------------TLTQGGVTYRDQPWHRECLVCTGCQT   49 (80)
T ss_dssp             CCCCSCCCCCCCCSSCCCTTTCC-------------------------------CCCSCCEESSSSEECTTTCBCSSSCC
T ss_pred             CCcEEcHHHHccccCCcCCCCCC-------------------------------EecCcEEEECCchhhhhhCCcccCCC
Confidence            68999999999999999999999                               55566788999999999999999999


Q ss_pred             CCCCCceeecCCcccchhhHhhhhccCCCC
Q psy8131         111 SLAGQRFTSREDKPFCADCFGELFAKRCYS  140 (198)
Q Consensus       111 ~l~~~~~~~~~g~~yC~~c~~~~~~~~C~~  140 (198)
                      +|.+..|+++++++||+.||.++|+++|+.
T Consensus        50 ~L~~~~~~~~~~~~yC~~cy~~~f~~~c~s   79 (80)
T 2cuq_A           50 PLAGQQFTSRDEDPYCVACFGELFASGPSS   79 (80)
T ss_dssp             BCTTCCEEECSSSEEEHHHHHHHTTCSTTC
T ss_pred             cCCCCeeEeECCEEECHHHHHHHcCCCCCC
Confidence            998888999999999999999999999974

>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=99.85  E-value=1.7e-22  Score=134.27  Aligned_cols=81  Identities=28%  Similarity=0.677  Sum_probs=72.7

Q ss_pred             CCeecchhhHHhhhcccccccccccccccccccccccCCcccccceeeeeeeeeeeccCceEeCCcCccccCCCCccCcC
Q psy8131          31 EQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCST  110 (198)
Q Consensus        31 ~g~~yC~~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~H~~CF~C~~C~~  110 (198)
                      ||++||++||.++++++|.+|+++|.                             ..+..+.++++.||++||+|+.|++
T Consensus         1 ~g~~yC~~~y~~~~~~~C~~C~~~I~-----------------------------~~~~~~~a~~~~~H~~CF~C~~C~~   51 (82)
T 2ehe_A            1 GSSGSSGPCYDNTFANTCAECQQLIG-----------------------------HDSRELFYEDRHFHEGCFRCCRCQR   51 (82)
T ss_dssp             CCCCCCCCCCCCCCSCBCTTTCCBCC-----------------------------SSCCBCCCSSCCCBTTTSBCTTTCC
T ss_pred             CCceechhHhCcccCCcCccCCCccc-----------------------------cCcEEEEeCCccccccCCeecCCCC
Confidence            68999999999999999999999531                             1255677899999999999999999


Q ss_pred             CCCCCceeecCCcccchhhHhhhhccCCCC
Q psy8131         111 SLAGQRFTSREDKPFCADCFGELFAKRCYS  140 (198)
Q Consensus       111 ~l~~~~~~~~~g~~yC~~c~~~~~~~~C~~  140 (198)
                      +|.+..|+++++++||+.||.++++++|++
T Consensus        52 ~L~~~~f~~~~~~~~C~~c~~~~~~~~C~~   81 (82)
T 2ehe_A           52 SLADEPFTCQDSELLCNDCYCSAFSSGPSS   81 (82)
T ss_dssp             BCSSCCEEEETTEEEETTTSSCCGGGSSCC
T ss_pred             ccCCCccEeeCCEEECHHHHhhhcCCCCCC
Confidence            999888999999999999999999999974

>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=99.84  E-value=1.7e-21  Score=129.21  Aligned_cols=78  Identities=26%  Similarity=0.492  Sum_probs=71.3

Q ss_pred             CCeecchhhHHhhhcccccccccccccccccccccccCCcccccceeeeeeeeeeeccCceEeCCcCccccCCCCccCcC
Q psy8131          31 EQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCST  110 (198)
Q Consensus        31 ~g~~yC~~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~H~~CF~C~~C~~  110 (198)
                      ||++||++||. +++++|.+|++                               +|.+..+.++++.||++||+|+.|++
T Consensus         2 ~g~~yC~~~y~-~~~~~C~~C~~-------------------------------~I~~~~~~a~~~~~H~~CF~C~~C~~   49 (81)
T 2dlo_A            2 SSGSSGEGCYV-ATLEKCATCSQ-------------------------------PILDRILRAMGKAYHPGCFTCVVCHR   49 (81)
T ss_dssp             CCCCCCCCCCC-SSCCBCTTTCC-------------------------------BCCSCCEEETTEEECTTTCBCSSSCC
T ss_pred             cCCEECHHHhh-cCCCccccCCC-------------------------------eecceeEEECCccccHHhcCcccCCC
Confidence            78999999999 78999999999                               55567888999999999999999999


Q ss_pred             CCCCCceeec-CCcccchhhHhhhhccCCCC
Q psy8131         111 SLAGQRFTSR-EDKPFCADCFGELFAKRCYS  140 (198)
Q Consensus       111 ~l~~~~~~~~-~g~~yC~~c~~~~~~~~C~~  140 (198)
                      +|.+..|+.. +|++||+.||.++|+++|++
T Consensus        50 ~L~~~~f~~~~~g~~yC~~cy~~~f~~~C~~   80 (81)
T 2dlo_A           50 GLDGIPFTVDATSQIHCIEDFHRKFASGPSS   80 (81)
T ss_dssp             BCTTSCEECCTTCCCEEHHHHHHHTTSSSCC
T ss_pred             ccCCCeeEECCCCEEECHHHHHHHhcCcCCC
Confidence            9988878876 79999999999999999974

>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=99.83  E-value=6.7e-21  Score=134.34  Aligned_cols=91  Identities=18%  Similarity=0.291  Sum_probs=76.2

Q ss_pred             eeccC-ceEeCCcCccccCCCCccCcCCCCC--CceeecCCcccchhhHhhhhccCCCCCCCCCcCCCCceEEeeCCCcc
Q psy8131          85 IITSG-GVTYKNEPWHRECFTCSNCSTSLAG--QRFTSREDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHW  161 (198)
Q Consensus        85 ~i~~~-~~~~~~~~~H~~CF~C~~C~~~l~~--~~~~~~~g~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~  161 (198)
                      +|.+. .+.++++.||++||+|+.|+++|.+  ..|+.+||++||+.||.++|+++|..|..   +    .++.      
T Consensus        12 ~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~~y~~~f~~~c~~c~~---~----~~~~------   78 (114)
T 1j2o_A           12 NIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGGSGGHMGSG---G----DVMV------   78 (114)
T ss_dssp             CBCSSEEEECSSSEECTTTCCCSSSCSCCCCSSSCCCCBTTBCCCHHHHHHHHTSCCSSCBS---C----SCCC------
T ss_pred             eeCCcEEEEECchhHHHhcCcccccCCchhcCCCeeEEECCeeechHHHHHHhCcccCcCCC---C----ceeE------
Confidence            45555 6789999999999999999999974  57999999999999999999999998862   2    2232      


Q ss_pred             cccCcccCcCCCC-CCCCceEecCCceeCcccccccC
Q psy8131         162 HNDCFMCASCQSS-LVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       162 H~~Cf~C~~C~~~-l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                               |+.+ |.|+.|+..+++|||..|+.++.
T Consensus        79 ---------~~~~~~~g~~f~~~~~~~~C~~~~~~~~  106 (114)
T 1j2o_A           79 ---------VGEPTLMGGEFGDEDERLITRLENTQFD  106 (114)
T ss_dssp             ---------SSCSSTTSSBCCCSSSCCCEEEECTTCC
T ss_pred             ---------cCCccCCCCeeEEcCCEeecchhhhccc
Confidence                     3344 58999999999999999998865

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

Probab=99.81  E-value=7.6e-21  Score=126.27  Aligned_cols=78  Identities=28%  Similarity=0.656  Sum_probs=71.4

Q ss_pred             CCeecchhhHHhhhcccccccccccccccccccccccCCcccccceeeeeeeeeeec--cCceEeCCcCccccCCCCccC
Q psy8131          31 EQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIIT--SGGVTYKNEPWHRECFTCSNC  108 (198)
Q Consensus        31 ~g~~yC~~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~--~~~~~~~~~~~H~~CF~C~~C  108 (198)
                      ++.+||++||.++++++|.+|+++                               |.  +..+.++++.||++||+|..|
T Consensus         1 ~~~~yC~~cy~~~~~~~C~~C~~~-------------------------------I~~~~~~~~a~~~~~H~~CF~C~~C   49 (82)
T 1x63_A            1 GSSGSSGKCTTREDSPKCKGCFKA-------------------------------IVAGDQNVEYKGTVWHKDCFTCSNC   49 (82)
T ss_dssp             CCSCCCCCCCSCCCSCBCSSSCCB-------------------------------CCSSSCEEECSSCEEETTTCCCSSS
T ss_pred             CCCcCchhHHccccCCcCccCCcc-------------------------------cccCceEEEECccccccccCchhhC
Confidence            578999999999999999999994                               44  456889999999999999999


Q ss_pred             cCCCCCCceeecCCcccchhhHhhhhccCCC
Q psy8131         109 STSLAGQRFTSREDKPFCADCFGELFAKRCY  139 (198)
Q Consensus       109 ~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~  139 (198)
                      +++|.+..|+++++++||+.||.++|++++.
T Consensus        50 ~~~L~~~~~~~~~~~~yC~~cy~~~f~~~~~   80 (82)
T 1x63_A           50 KQVIGTGSFFPKGEDFYCVTCHETKFASGPS   80 (82)
T ss_dssp             CCCCTTSCEEEETTEEEEHHHHHHHTSCCCS
T ss_pred             CCccCCCccEeeCCEEECHHHHHHHhCCCCC
Confidence            9999888899999999999999999999885

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

Probab=99.80  E-value=1.4e-20  Score=123.57  Aligned_cols=76  Identities=38%  Similarity=0.972  Sum_probs=68.5

Q ss_pred             CCcccchhhHhhhhccCCCCCCCCCcCCC-CceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCccccccc
Q psy8131         121 EDKPFCADCFGELFAKRCYSCKKPITGIG-GTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAK  196 (198)
Q Consensus       121 ~g~~yC~~c~~~~~~~~C~~C~~~I~~~~-~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~  196 (198)
                      ++++||++||.++++++|++|+++|.+.+ ...++.+.++.||++||+|..|+++|.++.|+..++++||..||.++
T Consensus         1 g~~~yC~~cy~~~~~~~C~~C~~~I~~~g~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~~~yC~~cy~~l   77 (77)
T 2egq_A            1 GSSGSSGDCYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYCPDCAKKL   77 (77)
T ss_dssp             CCSSCCTTCCCSCCCCCCSSSCCCCCCCSSCCCEEEETTEEEETTTCBCSSSCCBCTTSCCCEETTEECCHHHHHHC
T ss_pred             CCCeEchhHhchhhCccCcccCCcccCCCCCceeEEECcceeCcccCEehhcCCCCCCCccEeECCEEEChHHhccC
Confidence            47899999999999999999999999521 23788999999999999999999999988999999999999999764

>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=99.80  E-value=1.3e-20  Score=125.09  Aligned_cols=75  Identities=31%  Similarity=0.754  Sum_probs=69.5

Q ss_pred             CCcccchhhHhhhhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         121 EDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       121 ~g~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      +|++||++||.++++++|++|+++|.+  ++.++.+.++.||++||+|+.|+++|.++.|+..++++||..||.+++
T Consensus         1 ~g~~yC~~~y~~~~~~~C~~C~~~I~~--~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~~~~C~~c~~~~~   75 (82)
T 2ehe_A            1 GSSGSSGPCYDNTFANTCAECQQLIGH--DSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELLCNDCYCSAF   75 (82)
T ss_dssp             CCCCCCCCCCCCCCSCBCTTTCCBCCS--SCCBCCCSSCCCBTTTSBCTTTCCBCSSCCEEEETTEEEETTTSSCCG
T ss_pred             CCceechhHhCcccCCcCccCCCcccc--CcEEEEeCCccccccCCeecCCCCccCCCccEeeCCEEECHHHHhhhc
Confidence            589999999999999999999999984  237889999999999999999999999889999999999999998875

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

Probab=99.80  E-value=4.2e-21  Score=136.96  Aligned_cols=90  Identities=20%  Similarity=0.382  Sum_probs=76.7

Q ss_pred             CccCCcccCcCCcccCCCCCCCC--CCCcccCCCeecchhhHHhhhcc--cccccccccccccccccccccCCcccccce
Q psy8131           1 MEYKTRQWHEKCFACVVCKTPIG--TKSFIPREQEIYCANCYEEKFAT--RCVKCNKTFFRLREKGTFQSHSGRINKVYS   76 (198)
Q Consensus         1 ~~~~~~~~H~~CF~C~~C~~~L~--~~~f~~~~g~~yC~~cy~~~~~~--~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~   76 (198)
                      |.++++.||++||+|+.|+++|+  +..|++++|++||+.||.++|+|  +|.+|++                       
T Consensus        21 ~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~cy~~~f~~~~~C~~C~~-----------------------   77 (122)
T 1m3v_A           21 LYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAGGSGGH-----------------------   77 (122)
T ss_dssp             EEETTEEECHHHHCCSSSCCCTTTSEECCEEETTEEECHHHHHHHHCCCCSSSCSSC-----------------------
T ss_pred             EEECCceeHhhCCCcCCCCCcccccCCeEEEECCeeecHHHHHHHcCCCCccccCCC-----------------------
Confidence            35789999999999999999997  36899999999999999999999  9999999                       


Q ss_pred             eeeeeeeeeeccCceEeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhhh
Q psy8131          77 ILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELF  134 (198)
Q Consensus        77 ~~~~~~~~~i~~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~  134 (198)
                              +|.+..+++.|+             .+|.++.|+++++++||..|+.+++
T Consensus        78 --------~I~~~~~~~~g~-------------~~l~g~~f~~~~~~~yC~~~~~~~~  114 (122)
T 1m3v_A           78 --------MGSGGDVMVVGE-------------PTLMGGEFGDEDERLITRLENTQFD  114 (122)
T ss_dssp             --------CSCCEESSSSSS-------------SSCCSCTTCCTTCCCCEECTTTTTT
T ss_pred             --------CcCchheEEcCC-------------cCCCCCccEecCCEeEccCcchhch
Confidence                    444444445443             3678888999999999999997764

>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=99.80  E-value=2.6e-20  Score=123.43  Aligned_cols=79  Identities=20%  Similarity=0.488  Sum_probs=70.5

Q ss_pred             CCeecchhhHHhhhcccccccccccccccccccccccCCcccccceeeeeeeeeeeccCceEeCCcCccccCCCCccCcC
Q psy8131          31 EQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCST  110 (198)
Q Consensus        31 ~g~~yC~~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~H~~CF~C~~C~~  110 (198)
                      ++.+||++||.++++++|.+|++                               +|.+..+.++++.||++||+|..|++
T Consensus         1 g~~~yC~~~y~~~~~~~C~~C~~-------------------------------~I~~~~~~a~~~~~H~~CF~C~~C~~   49 (81)
T 1x6a_A            1 GSSGSSGKDYWGKFGEFCHGCSL-------------------------------LMTGPFMVAGEFKYHPECFACMSCKV   49 (81)
T ss_dssp             CCCCCCCCCSSCCSSCBCTTTCC-------------------------------BCCSCCBCCTTCCBCTTSCBCTTTCC
T ss_pred             CCCccchhHHhhhcCCcCccCCC-------------------------------CcCceEEEECCceeccccCCccCCCC
Confidence            47899999999999999999999                               45577788999999999999999999


Q ss_pred             CCC-CCcee-ecCCcccchhhHhhhhccCCCC
Q psy8131         111 SLA-GQRFT-SREDKPFCADCFGELFAKRCYS  140 (198)
Q Consensus       111 ~l~-~~~~~-~~~g~~yC~~c~~~~~~~~C~~  140 (198)
                      +|. +..|. ++++++||+.||.+++++.+++
T Consensus        50 ~L~~g~~f~~~~~~~~~C~~c~~~~~~~~~sg   81 (81)
T 1x6a_A           50 IIEDGDAYALVQHATLYCGKCHNEVVSGPSSG   81 (81)
T ss_dssp             BCCTTSCEEECSSSCEEEHHHHHHHHCTTSCC
T ss_pred             ccCCCCcEEEeeCCEEECHHHHHHHhcCCCCC
Confidence            995 46677 5899999999999999988764

>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=99.79  E-value=2e-20  Score=123.64  Aligned_cols=73  Identities=30%  Similarity=0.771  Sum_probs=68.5

Q ss_pred             CCcccchhhHhhhhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         121 EDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       121 ~g~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      +|++||++||.++++++|++|+++|.+    .+|.+.++.||++||+|..|+++|.++.|+..++++||..||.+++
T Consensus         1 gg~~yC~~cy~~~~~~~C~~C~~~I~~----~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f   73 (80)
T 2cuq_A            1 GSSGSSGPCYENKFAPRCARCSKTLTQ----GGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELF   73 (80)
T ss_dssp             CCCCSCCCCCCCCSSCCCTTTCCCCCS----CCEESSSSEECTTTCBCSSSCCBCTTCCEEECSSSEEEHHHHHHHT
T ss_pred             CCcEEcHHHHccccCCcCCCCCCEecC----cEEEECCchhhhhhCCcccCCCcCCCCeeEeECCEEECHHHHHHHc
Confidence            589999999999999999999999987    4688999999999999999999998889999999999999998875

>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=99.78  E-value=3.8e-20  Score=121.38  Aligned_cols=76  Identities=29%  Similarity=0.740  Sum_probs=64.8

Q ss_pred             CCeecchhhHHhhhcccccccccccccccccccccccCCcccccceeeeeeeeeeeccCceEeCCcCccccCCCCccCcC
Q psy8131          31 EQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCST  110 (198)
Q Consensus        31 ~g~~yC~~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~H~~CF~C~~C~~  110 (198)
                      ++++||++||.++++++|.+|+++|...+                          .....+.++++.||++||+|+.|++
T Consensus         1 g~~~yC~~cy~~~~~~~C~~C~~~I~~~g--------------------------~~~~~~~a~~~~~H~~CF~C~~C~~   54 (77)
T 2egq_A            1 GSSGSSGDCYKNFVAKKCAGCKNPITGFG--------------------------KGSSVVAYEGQSWHDYCFHCKKCSV   54 (77)
T ss_dssp             CCSSCCTTCCCSCCCCCCSSSCCCCCCCS--------------------------SCCCEEEETTEEEETTTCBCSSSCC
T ss_pred             CCCeEchhHhchhhCccCcccCCcccCCC--------------------------CCceeEEECcceeCcccCEehhcCC
Confidence            57899999999999999999999531000                          0125778999999999999999999


Q ss_pred             CCCCCceeecCCcccchhhHhh
Q psy8131         111 SLAGQRFTSREDKPFCADCFGE  132 (198)
Q Consensus       111 ~l~~~~~~~~~g~~yC~~c~~~  132 (198)
                      +|.+..|+++++++||+.||.+
T Consensus        55 ~L~~~~f~~~~~~~yC~~cy~~   76 (77)
T 2egq_A           55 NLANKRFVFHQEQVYCPDCAKK   76 (77)
T ss_dssp             BCTTSCCCEETTEECCHHHHHH
T ss_pred             CCCCCccEeECCEEEChHHhcc
Confidence            9988889999999999999965

>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=99.78  E-value=3.5e-20  Score=122.45  Aligned_cols=73  Identities=22%  Similarity=0.551  Sum_probs=68.0

Q ss_pred             CCcccchhhHhhhhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         121 EDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       121 ~g~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      +|++||++||.++++++|++|+++|.+    ++|.+.++.||++||+|..|+++|.+..|+..++++||..||.+++
T Consensus         1 gg~~yC~~~y~~~~~~~C~~C~~~I~~----~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~~y~~~f   73 (80)
T 1x3h_A            1 GSSGSSGKDFLAMFSPKCGGCNRPVLE----NYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHHRR   73 (80)
T ss_dssp             CCCCCCCCCCCCCCSCBCTTTCCBCCS----SCEEETTEEECTTTCBCSSSCCBSCSSCCEESSSCEECHHHHHHHH
T ss_pred             CCCccchhHHhhhcCCccccCCCeecc----eeEEECCCeEecCcCChhhCCCCCCCCcEEeECCEEECHHHHHHHc
Confidence            478999999999999999999999997    5689999999999999999999998878999999999999998765

>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=99.78  E-value=5.3e-20  Score=122.13  Aligned_cols=75  Identities=27%  Similarity=0.701  Sum_probs=69.2

Q ss_pred             CCcccchhhHhhhhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         121 EDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       121 ~g~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      ++.+||++||.++++++|++|+++|.+  ++.+|.+.++.||++||+|..|+++|.+..|+..++.+||..||.+++
T Consensus         1 ~~~~yC~~cy~~~~~~~C~~C~~~I~~--~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f   75 (82)
T 1x63_A            1 GSSGSSGKCTTREDSPKCKGCFKAIVA--GDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKF   75 (82)
T ss_dssp             CCSCCCCCCCSCCCSCBCSSSCCBCCS--SSCEEECSSCEEETTTCCCSSSCCCCTTSCEEEETTEEEEHHHHHHHT
T ss_pred             CCCcCchhHHccccCCcCccCCccccc--CceEEEECccccccccCchhhCCCccCCCccEeeCCEEECHHHHHHHh
Confidence            468999999999999999999999986  247899999999999999999999998889999999999999998876

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

Probab=99.76  E-value=1.3e-19  Score=120.05  Aligned_cols=72  Identities=25%  Similarity=0.588  Sum_probs=66.4

Q ss_pred             CCcccchhhHhhhhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEec-CCceeCcccccccC
Q psy8131         121 EDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITD-GEDIICPDCAKAKL  197 (198)
Q Consensus       121 ~g~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~-~~~~~C~~C~~~~~  197 (198)
                      ||++||++||. +++++|++|+++|.+    ++|.+.++.||++||+|+.|+++|.++.|... ++++||..||.+++
T Consensus         2 ~g~~yC~~~y~-~~~~~C~~C~~~I~~----~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~g~~yC~~cy~~~f   74 (81)
T 2dlo_A            2 SSGSSGEGCYV-ATLEKCATCSQPILD----RILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKF   74 (81)
T ss_dssp             CCCCCCCCCCC-SSCCBCTTTCCBCCS----CCEEETTEEECTTTCBCSSSCCBCTTSCEECCTTCCCEEHHHHHHHT
T ss_pred             cCCEECHHHhh-cCCCccccCCCeecc----eeEEECCccccHHhcCcccCCCccCCCeeEECCCCEEECHHHHHHHh
Confidence            68999999998 799999999999986    57899999999999999999999998888876 78999999998875

>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=99.75  E-value=1.7e-19  Score=119.38  Aligned_cols=73  Identities=21%  Similarity=0.536  Sum_probs=66.2

Q ss_pred             CCcccchhhHhhhhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCC-CCceEe-cCCceeCcccccccC
Q psy8131         121 EDKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLV-GRGFIT-DGEDIICPDCAKAKL  197 (198)
Q Consensus       121 ~g~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~-~~~~~~C~~C~~~~~  197 (198)
                      ++.+||++||.++++++|++|+++|.+    .+|.+.++.||++||+|..|+++|. ++.|.+ .++++||..||.+++
T Consensus         1 g~~~yC~~~y~~~~~~~C~~C~~~I~~----~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~~C~~c~~~~~   75 (81)
T 1x6a_A            1 GSSGSSGKDYWGKFGEFCHGCSLLMTG----PFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVV   75 (81)
T ss_dssp             CCCCCCCCCSSCCSSCBCTTTCCBCCS----CCBCCTTCCBCTTSCBCTTTCCBCCTTSCEEECSSSCEEEHHHHHHHH
T ss_pred             CCCccchhHHhhhcCCcCccCCCCcCc----eEEEECCceeccccCCccCCCCccCCCCcEEEeeCCEEECHHHHHHHh
Confidence            368999999999999999999999995    6789999999999999999999994 677874 899999999998765

>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=99.73  E-value=1.6e-18  Score=114.69  Aligned_cols=72  Identities=26%  Similarity=0.670  Sum_probs=63.2

Q ss_pred             CcccchhhHhhhhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCC-CCceEecCCceeCcccccccC
Q psy8131         122 DKPFCADCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLV-GRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       122 g~~yC~~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      +.+||+.||.++++++|++|+++|.+    ++|.+.++.||++||+|..|+++|. +..+..+++.+||..|+.+++
T Consensus         2 ~~~yC~~dy~~~~~~~C~~C~~~I~~----~~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~~~~C~~C~~~~~   74 (81)
T 1v6g_A            2 SSGSSGLDYQRLYGTRCFSCDQFIEG----EVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCSLPVS   74 (81)
T ss_dssp             CCCCCCSCGGGSCCCBCTTTCCBCCS----CCEEETTEEECTTTSSCSSSCCCCCSSSCEEEETTEEEEHHHHSCCS
T ss_pred             CCCcchHHHHhHhCCcCccccCEecc----ceEEECCceeCccCCccccCCCCCCCCCEEEeCCCCEEChhhhcccC
Confidence            57899999999999999999999986    6789999999999999999999996 445555565679999998765

>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=99.73  E-value=2e-18  Score=121.53  Aligned_cols=85  Identities=14%  Similarity=0.296  Sum_probs=70.8

Q ss_pred             CccCCcccCcCCcccCCCCCCCCC--CCcccCCCeecchhhHHhhhcccccccccccccccccccccccCCcccccceee
Q psy8131           1 MEYKTRQWHEKCFACVVCKTPIGT--KSFIPREQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSIL   78 (198)
Q Consensus         1 ~~~~~~~~H~~CF~C~~C~~~L~~--~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (198)
                      |.++|+.||++||+|+.|+++|++  ..|+++||++||+.||.++|+|+|..|....                       
T Consensus        19 ~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~~y~~~f~~~c~~c~~~~-----------------------   75 (114)
T 1j2o_A           19 LKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGGSGGHMGSGGD-----------------------   75 (114)
T ss_dssp             EECSSSEECTTTCCCSSSCSCCCCSSSCCCCBTTBCCCHHHHHHHHTSCCSSCBSCS-----------------------
T ss_pred             EEECchhHHHhcCcccccCCchhcCCCeeEEECCeeechHHHHHHhCcccCcCCCCc-----------------------
Confidence            457899999999999999999985  6899999999999999999999998876410                       


Q ss_pred             eeeeeeeeccCceEeCCcCccccCCCCccCcCC-CCCCceeecCCcccchhhHhhhh
Q psy8131          79 FYFLFQIITSGGVTYKNEPWHRECFTCSNCSTS-LAGQRFTSREDKPFCADCFGELF  134 (198)
Q Consensus        79 ~~~~~~~i~~~~~~~~~~~~H~~CF~C~~C~~~-l~~~~~~~~~g~~yC~~c~~~~~  134 (198)
                            +|.                    |+++ |.++.|+++++++||..|+.++.
T Consensus        76 ------~~~--------------------~~~~~~~g~~f~~~~~~~~C~~~~~~~~  106 (114)
T 1j2o_A           76 ------VMV--------------------VGEPTLMGGEFGDEDERLITRLENTQFD  106 (114)
T ss_dssp             ------CCC--------------------SSCSSTTSSBCCCSSSCCCEEEECTTCC
T ss_pred             ------eeE--------------------cCCccCCCCeeEEcCCEeecchhhhccc
Confidence                  221                    2344 57888999999999999987654

>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=99.72  E-value=5.7e-18  Score=110.71  Aligned_cols=63  Identities=24%  Similarity=0.663  Sum_probs=56.4

Q ss_pred             eec-cCceEeCCcCccccCCCCccCcCCCCCCceeecCCcccch-hhHhhhhccCCCCCCCCCcC
Q psy8131          85 IIT-SGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCA-DCFGELFAKRCYSCKKPITG  147 (198)
Q Consensus        85 ~i~-~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~-~c~~~~~~~~C~~C~~~I~~  147 (198)
                      +|. +..+.++|+.||++||+|..|+++|.+..|+++||++||+ .||.++|+++|++|++++..
T Consensus         9 ~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~~~C~~C~~~~~~   73 (76)
T 1iml_A            9 EVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGFGRGGAESH   73 (76)
T ss_dssp             BCCGGGEEEETTEEEETTTCBCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCCCSSCCCSSSC
T ss_pred             EEECceEEEECCccccCCCCCccccCccCCCCceECcCCeEeeCHHHHHHHhCccCCCcCCceee
Confidence            444 5678899999999999999999999888899999999999 69999999999999987653

>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=99.71  E-value=2.3e-18  Score=112.58  Aligned_cols=70  Identities=29%  Similarity=0.702  Sum_probs=63.5

Q ss_pred             hhhcccccccccccccccccccccccCCcccccceeeeeeeeeeecc----CceEeCCcCccccCCCCccCcCCCCCCce
Q psy8131          42 EKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITS----GGVTYKNEPWHRECFTCSNCSTSLAGQRF  117 (198)
Q Consensus        42 ~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~----~~~~~~~~~~H~~CF~C~~C~~~l~~~~~  117 (198)
                      ++++++|.+|+++                               |.+    ..+.++++.||++||+|+.|+++|.+..|
T Consensus         2 ~~~~~~C~~C~~~-------------------------------I~~~g~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f   50 (76)
T 1x68_A            2 SSGSSGCVACSKP-------------------------------ISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGF   50 (76)
T ss_dssp             TTCCCCCTTTCCC-------------------------------CCTTTTCCEEEETTEEEEGGGCBCTTTCCBCSSSCE
T ss_pred             CccCCCCccCCCc-------------------------------ccCCCCceeEEECCcccCcccCChhhCCCcCCCCce
Confidence            4689999999995                               443    67889999999999999999999998889


Q ss_pred             eecCCcccchhhHhhhhccCCCCCC
Q psy8131         118 TSREDKPFCADCFGELFAKRCYSCK  142 (198)
Q Consensus       118 ~~~~g~~yC~~c~~~~~~~~C~~C~  142 (198)
                      +++++++||+.||.++|+++|+.++
T Consensus        51 ~~~~g~~yC~~cy~~~f~~~C~~~s   75 (76)
T 1x68_A           51 LTQNKEIFCQKCGSGMDTDISGPSS   75 (76)
T ss_dssp             EEETTEEEETTTTCCCCCCSSSSSC
T ss_pred             EeECCEEECHHHhhhhhCCcCCCCC
Confidence            9999999999999999999999875

>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=99.70  E-value=1.4e-17  Score=112.40  Aligned_cols=75  Identities=24%  Similarity=0.532  Sum_probs=66.2

Q ss_pred             cchhhHHhhhcccccccccccccccccccccccCCcccccceeeeeeeeeeeccCceEeCCcCccccCCCCccCcCCCCC
Q psy8131          35 YCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAG  114 (198)
Q Consensus        35 yC~~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~H~~CF~C~~C~~~l~~  114 (198)
                      ..+..+...++++|.+|++                               +|.+..|.++++.||++||+|..|+++|.+
T Consensus        15 ~~~~~~~~~~~~~C~~C~~-------------------------------~I~~~~v~a~~~~~H~~CF~C~~C~~~L~~   63 (90)
T 2dar_A           15 RAEHIPAGKRTPMCAHCNQ-------------------------------VIRGPFLVALGKSWHPEEFNCAHCKNTMAY   63 (90)
T ss_dssp             CCEEECTTTCCCBBSSSCC-------------------------------BCCSCEEEETTEEECTTTCBCSSSCCBCSS
T ss_pred             hcccCCCCCCCCCCccCCC-------------------------------EecceEEEECCccccccCCccCCCCCCCCC
Confidence            3444466778999999999                               566778889999999999999999999988


Q ss_pred             CceeecCCcccchhhHhhhhccCCCC
Q psy8131         115 QRFTSREDKPFCADCFGELFAKRCYS  140 (198)
Q Consensus       115 ~~~~~~~g~~yC~~c~~~~~~~~C~~  140 (198)
                      ..|+++++++||+.||.++|+++|+.
T Consensus        64 ~~f~~~~g~~yC~~cy~~~f~~~c~s   89 (90)
T 2dar_A           64 IGFVEEKGALYCELCYEKFFASGPSS   89 (90)
T ss_dssp             SCBEESSSCEECHHHHHHHTSCCCCC
T ss_pred             CEeEeECCEEECHHHHHHHcCCCCCC
Confidence            88999999999999999999999974

>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=99.70  E-value=8.8e-18  Score=108.01  Aligned_cols=67  Identities=49%  Similarity=1.125  Sum_probs=60.9

Q ss_pred             hhcccccccccccccccccccccccCCcccccceeeeeeeeeeeccCceEeCCcCccccCCCCccCcCCCCCCceeecCC
Q psy8131          43 KFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSRED  122 (198)
Q Consensus        43 ~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g  122 (198)
                      +++++|.+|++                               +|.+..+.++++.||++||+|..|+++|.+..|+++++
T Consensus         3 ~~~~~C~~C~~-------------------------------~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~   51 (70)
T 2d8z_A            3 SGSSGCVQCKK-------------------------------PITTGGVTYREQPWHKECFVCTACRKQLSGQRFTARDD   51 (70)
T ss_dssp             CCCCBCSSSCC-------------------------------BCCSSEEESSSSEEETTTSBCSSSCCBCTTSCCEESSS
T ss_pred             CCCCCCcccCC-------------------------------eeccceEEECccccCCCCCccCCCCCcCCcCceEeeCC
Confidence            46789999999                               55566788999999999999999999998888999999


Q ss_pred             cccchhhHhhhhccCCCC
Q psy8131         123 KPFCADCFGELFAKRCYS  140 (198)
Q Consensus       123 ~~yC~~c~~~~~~~~C~~  140 (198)
                      ++||+.||.++|+++|++
T Consensus        52 ~~yC~~cy~~~f~~~c~~   69 (70)
T 2d8z_A           52 FAYCLNCFCDLYASGPSS   69 (70)
T ss_dssp             SEECHHHHHHHTCCCCTT
T ss_pred             eEECHHHHHHHhccccCC
Confidence            999999999999999974

>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=99.70  E-value=1.2e-17  Score=107.07  Aligned_cols=56  Identities=48%  Similarity=1.109  Sum_probs=51.6

Q ss_pred             eeccCceEeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhhhccCCCC
Q psy8131          85 IITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYS  140 (198)
Q Consensus        85 ~i~~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~~  140 (198)
                      +|.+..|.++++.||++||+|+.|+++|.+..|+++++++||+.||.++|+++|++
T Consensus        14 ~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~g   69 (69)
T 2cur_A           14 AITSGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFVSGPSSG   69 (69)
T ss_dssp             CCCTTCEEETTEEECTTTTBCTTTCCBCTTSCEEECSSCEEEHHHHHHHHTCSCCC
T ss_pred             EeCcceEEECccccccCcCEECCCCCCCCCCccEeECCEEECHHHhHHHhcCCCCC
Confidence            55566789999999999999999999998888999999999999999999999974

>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=99.69  E-value=8e-18  Score=111.33  Aligned_cols=73  Identities=19%  Similarity=0.456  Sum_probs=62.2

Q ss_pred             CCeecchhhHHhhhcccccccccccccccccccccccCCcccccceeeeeeeeeeeccCceEeCCcCccccCCCCccCcC
Q psy8131          31 EQEIYCANCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCST  110 (198)
Q Consensus        31 ~g~~yC~~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~H~~CF~C~~C~~  110 (198)
                      ++.+||++||.++++++|.+|++                               +|.+..|.++++.||++||+|..|++
T Consensus         1 ~~~~yC~~dy~~~~~~~C~~C~~-------------------------------~I~~~~v~a~~~~wH~~CF~C~~C~~   49 (81)
T 1v6g_A            1 GSSGSSGLDYQRLYGTRCFSCDQ-------------------------------FIEGEVVSALGKTYHPDCFVCAVCRL   49 (81)
T ss_dssp             CCCCCCCSCGGGSCCCBCTTTCC-------------------------------BCCSCCEEETTEEECTTTSSCSSSCC
T ss_pred             CCCCcchHHHHhHhCCcCccccC-------------------------------EeccceEEECCceeCccCCccccCCC
Confidence            35789999999999999999999                               55567889999999999999999999


Q ss_pred             CCCCCceeecCC-cccchhhHhhhh
Q psy8131         111 SLAGQRFTSRED-KPFCADCFGELF  134 (198)
Q Consensus       111 ~l~~~~~~~~~g-~~yC~~c~~~~~  134 (198)
                      +|....++..++ .+||..||.+++
T Consensus        50 ~L~~~~~~~~~~~~~~C~~C~~~~~   74 (81)
T 1v6g_A           50 PFPPGDRVTFNGKECMCQKCSLPVS   74 (81)
T ss_dssp             CCCSSSCEEEETTEEEEHHHHSCCS
T ss_pred             CCCCCCEEEeCCCCEEChhhhcccC
Confidence            997655666555 479999996654

>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=99.68  E-value=2.2e-17  Score=106.65  Aligned_cols=68  Identities=28%  Similarity=0.758  Sum_probs=60.8

Q ss_pred             hhhcccccccccccccccccccccccCCcccccceeeeeeeeeeec--cCceEeCCcCccccCCCCccCcCCCCCCceee
Q psy8131          42 EKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIIT--SGGVTYKNEPWHRECFTCSNCSTSLAGQRFTS  119 (198)
Q Consensus        42 ~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~--~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~  119 (198)
                      ++++++|.+|+++                               |.  +..+.++|+.||++||+|..|+++|.+..|++
T Consensus         2 ~~~~~~C~~C~~~-------------------------------I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~   50 (72)
T 1x4k_A            2 SSGSSGCQECKKT-------------------------------IMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIP   50 (72)
T ss_dssp             CSCCCCBSSSCCC-------------------------------CCSSSCEEEETTEEEETTTTCCSSSCCCCCSSSEEE
T ss_pred             CccCCCCccCCCc-------------------------------ccCCceEEEECcCeecccCCcccccCCccCCCccCc
Confidence            3578999999994                               44  34778999999999999999999998888999


Q ss_pred             cCCcccchhhHhhhhccCCCC
Q psy8131         120 REDKPFCADCFGELFAKRCYS  140 (198)
Q Consensus       120 ~~g~~yC~~c~~~~~~~~C~~  140 (198)
                      +|+++||+.||.++|+++|+.
T Consensus        51 ~~~~~yC~~cy~~~f~~~C~~   71 (72)
T 1x4k_A           51 KDNQNFCVPCYEKQHASGPSS   71 (72)
T ss_dssp             ETTEEEEHHHHHHHTSSCCCC
T ss_pred             cCCeEECHHHHhHHhCCCCCC
Confidence            999999999999999999974

>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=99.68  E-value=1.7e-17  Score=107.26  Aligned_cols=68  Identities=28%  Similarity=0.732  Sum_probs=60.5

Q ss_pred             hhhcccccccccccccccccccccccCCcccccceeeeeeeeeeec--cCceEeCCcCccccCCCCccCcCCCCCCceee
Q psy8131          42 EKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIIT--SGGVTYKNEPWHRECFTCSNCSTSLAGQRFTS  119 (198)
Q Consensus        42 ~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~--~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~  119 (198)
                      ++++++|.+|+++                               |.  +..+.++++.||++||+|+.|+++|.+..|++
T Consensus         2 ~~~~~~C~~C~~~-------------------------------I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~   50 (72)
T 1wyh_A            2 SSGSSGCSACGET-------------------------------VMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVP   50 (72)
T ss_dssp             CCCCCBCSSSCCB-------------------------------CCSSSCEECSTTCCEETTTCBCTTTCCBTTTSCEEE
T ss_pred             CccCCCCccCCCc-------------------------------cccCccEEEECccccCcccCeECCCCCcCCCCccCC
Confidence            3578899999994                               44  45677899999999999999999998888999


Q ss_pred             cCCcccchhhHhhhhccCCCC
Q psy8131         120 REDKPFCADCFGELFAKRCYS  140 (198)
Q Consensus       120 ~~g~~yC~~c~~~~~~~~C~~  140 (198)
                      +++++||+.||.++|+++|+.
T Consensus        51 ~~~~~yC~~cy~~~f~~~C~~   71 (72)
T 1wyh_A           51 DKGAHYCVPCYENKFASGPSS   71 (72)
T ss_dssp             ETTEEEEHHHHHHHTSCCCCC
T ss_pred             cCCeEECHHHHHHHccCcCCC
Confidence            999999999999999999974

>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=99.66  E-value=2.7e-17  Score=104.55  Aligned_cols=65  Identities=25%  Similarity=0.586  Sum_probs=58.2

Q ss_pred             hhhcccccccccccccccccccccccCCcccccceeeeeeeeeeeccCceEeCCcCccccCCCCccCcCCCCCCceeecC
Q psy8131          42 EKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSRE  121 (198)
Q Consensus        42 ~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~  121 (198)
                      ++++++|.+|++                               +|.+..+.++|+.||++||+|+.|+++|.+..|++++
T Consensus         2 ~~~~~~C~~C~~-------------------------------~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~   50 (66)
T 1nyp_A            2 SMGVPICGACRR-------------------------------PIEGRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERK   50 (66)
T ss_dssp             CCCCCEETTTTE-------------------------------ECCSCEECCTTSBEETTTCBCTTTCCBCSSSCCEEET
T ss_pred             CcCCCCCcccCC-------------------------------EecceEEEECccccccCcCEECCCCCCCCCCceEeEC
Confidence            356889999999                               4556678899999999999999999999888899999


Q ss_pred             CcccchhhHhhhhccC
Q psy8131         122 DKPFCADCFGELFAKR  137 (198)
Q Consensus       122 g~~yC~~c~~~~~~~~  137 (198)
                      |++||+.||.++|+++
T Consensus        51 g~~yC~~~y~~~f~~k   66 (66)
T 1nyp_A           51 GLAYCETHYNQLFGDV   66 (66)
T ss_dssp             TEEECHHHHHHHCSCC
T ss_pred             CcEECHHHHHHHhCCC
Confidence            9999999999999875

>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=99.65  E-value=1e-16  Score=103.96  Aligned_cols=61  Identities=31%  Similarity=0.682  Sum_probs=56.5

Q ss_pred             hhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCC-CCceEecCCceeCcccccccC
Q psy8131         133 LFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLV-GRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       133 ~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      +++++|++|+++|.+    ++|.++++.||++||+|..|+++|. +..|+..++++||..||.+++
T Consensus         3 ~~~~~C~~C~~~I~~----~~v~a~~~~wH~~CF~C~~C~~~L~~~~~f~~~~~~~yC~~C~~~~~   64 (73)
T 1wig_A            3 SGSSGCDSCEKYITG----RVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWHPACRQAAR   64 (73)
T ss_dssp             CSCCSCSSSCCCCSS----CCBCCSSCCBCTTTSCCSSSCCCCCSSCCCEEETTEEECTTHHHHTS
T ss_pred             cCcCCcccCCCEecC----eeEEeCCCCCCCCcCEeCCCCCCCCCCCeeEeeCCEEEChHHChHhh
Confidence            578999999999987    6789999999999999999999997 889999999999999998765

>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=99.65  E-value=3.8e-17  Score=108.06  Aligned_cols=58  Identities=21%  Similarity=0.623  Sum_probs=45.3

Q ss_pred             cCceEeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhhhccCCCCCCCCC
Q psy8131          88 SGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPI  145 (198)
Q Consensus        88 ~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~~C~~~I  145 (198)
                      +..+.++++.||++||+|+.|+++|.+..|+++++++||+.||.++|+++|.+|++..
T Consensus        20 ~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~gcg~g~   77 (81)
T 1a7i_A           20 AEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYGPKGYGYGQGA   77 (81)
T ss_dssp             TTEEEETTEEEESSSEECSSSCCEECSSCCEEETTEEECSHHHHHHCC----------
T ss_pred             ceeEEeCCcccccccCccCCCCCCCCCCCeEeeCCEEECHHHHHHHhCCcccccCCcc
Confidence            5577899999999999999999999888899999999999999999999999998764

>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=99.65  E-value=1e-16  Score=104.67  Aligned_cols=56  Identities=29%  Similarity=0.710  Sum_probs=50.5

Q ss_pred             eec-cCceEeCCcCccccCCCCccCcCCCCCCceeecCCcccch-hhHhhhhccCCCC
Q psy8131          85 IIT-SGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCA-DCFGELFAKRCYS  140 (198)
Q Consensus        85 ~i~-~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~-~c~~~~~~~~C~~  140 (198)
                      +|. +..|.++++.||++||+|..|+++|.+..|+++|+++||+ .||.++|+++|.+
T Consensus        18 ~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~~kc~g   75 (76)
T 2cu8_A           18 TVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFGSGPSS   75 (76)
T ss_dssp             BCCTTTEEEETTEEEETTTCBCSSSCCBCCTTSCEEETTEEECTTTHHHHHSCSSCSC
T ss_pred             EeECCeEEEECCeEeeCCCCCCCCCCCccCCCceEeECCEEecchHHHHHhcccccCC
Confidence            444 5577899999999999999999999988899999999999 7999999999974

>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=99.65  E-value=1.5e-16  Score=103.93  Aligned_cols=66  Identities=41%  Similarity=1.040  Sum_probs=59.0

Q ss_pred             hhhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         132 ELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       132 ~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      ++++++|++|+++|.+.+.+.+|.+.++.||++||+|..|+++|.+..|+..++++||..||.+++
T Consensus         2 ~~~~~~C~~C~~~I~~~g~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f   67 (76)
T 1x68_A            2 SSGSSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCGSGMD   67 (76)
T ss_dssp             TTCCCCCTTTCCCCCTTTTCCEEEETTEEEEGGGCBCTTTCCBCSSSCEEEETTEEEETTTTCCCC
T ss_pred             CccCCCCccCCCcccCCCCceeEEECCcccCcccCChhhCCCcCCCCceEeECCEEECHHHhhhhh
Confidence            468899999999999621236899999999999999999999999989999999999999999876

>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=99.63  E-value=1.5e-16  Score=102.71  Aligned_cols=50  Identities=30%  Similarity=0.827  Sum_probs=46.9

Q ss_pred             CceEeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhhhccCC
Q psy8131          89 GGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRC  138 (198)
Q Consensus        89 ~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C  138 (198)
                      ..+.++++.||++||+|+.|+++|.+..|+++++++||+.||.++++|++
T Consensus        22 ~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~p~~   71 (72)
T 1x4l_A           22 KYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGKDISGPSS   71 (72)
T ss_dssp             SCEECSSCEECTTTCBCSSSCCBCTTSCCEECSSSEECHHHHHTCCCSSC
T ss_pred             ceEEECCcccCcccCEeccCCCcCCCCccEeECCEEEChhHcCcccCCCC
Confidence            57788999999999999999999998889999999999999999999876

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

Probab=99.63  E-value=1.1e-16  Score=104.72  Aligned_cols=52  Identities=27%  Similarity=0.545  Sum_probs=46.5

Q ss_pred             cCceEeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhhhccCCC
Q psy8131          88 SGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCY  139 (198)
Q Consensus        88 ~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~  139 (198)
                      +..+.++|+.||++||+|..|+++|.+..|+.+||++||+.||.++|+++|+
T Consensus        25 ~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~~C~   76 (77)
T 1g47_A           25 EKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAPCWI   76 (77)
T ss_dssp             TTCEEETTEEECTTTCCCTTTCCCCGGGCSEEETTEEECHHHHHHHCCCC--
T ss_pred             ceEEEeCccEeccccCeECCCCCCCCCCCeEeECCeEeCHHHHHHHhhcccC
Confidence            4466899999999999999999999877799999999999999999999996

>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=99.62  E-value=3.3e-16  Score=103.30  Aligned_cols=55  Identities=27%  Similarity=0.674  Sum_probs=49.3

Q ss_pred             eec-cCceEeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhhhccCCCC
Q psy8131          85 IIT-SGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYS  140 (198)
Q Consensus        85 ~i~-~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~~  140 (198)
                      +|. +..+.++++.||++||+|..|+++|.+ .|+++|+++||+.||.++|+++|+.
T Consensus        24 ~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~-~~~~~~g~~yC~~~y~~~fg~~C~~   79 (80)
T 2dj7_A           24 EIKHGQSLLALDKQWHVSCFKCQTCSVILTG-EYISKDGVPYCESDYHAQFGSGPSS   79 (80)
T ss_dssp             CCSSSCCEEETTEEECTTTCBCSSSCCBCSS-CCEEETTEEECTTHHHHHTTCCSTT
T ss_pred             eeCCCeEEEECCcccccccCCcCcCCCCcCC-CeEEECCEEECHHHHHHHcCCCCCC
Confidence            443 567889999999999999999999986 5999999999999999999999974

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

Probab=99.61  E-value=3.9e-16  Score=100.79  Aligned_cols=65  Identities=55%  Similarity=1.241  Sum_probs=57.5

Q ss_pred             hhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         133 LFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       133 ~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      .++++|++|+++|.+..++.+|.+.++.||++||+|..|+++|.+..|+..++++||..||.+++
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~   67 (72)
T 1x4l_A            3 SGSSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGKDIS   67 (72)
T ss_dssp             SCSCSBTTTTBCCCCSSSCSCEECSSCEECTTTCBCSSSCCBCTTSCCEECSSSEECHHHHHTCC
T ss_pred             CCCCCCcCCCccccCCCCcceEEECCcccCcccCEeccCCCcCCCCccEeECCEEEChhHcCccc
Confidence            45789999999998621237789999999999999999999999999999999999999998875

>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=99.61  E-value=1.4e-16  Score=101.24  Aligned_cols=62  Identities=23%  Similarity=0.603  Sum_probs=57.0

Q ss_pred             hhhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         132 ELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       132 ~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      ++++++|++|+++|.+    ++|.+.++.||++||+|..|+++|.++.|+..++++||..||.+++
T Consensus         2 ~~~~~~C~~C~~~I~~----~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f   63 (66)
T 1nyp_A            2 SMGVPICGACRRPIEG----RVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLF   63 (66)
T ss_dssp             CCCCCEETTTTEECCS----CEECCTTSBEETTTCBCTTTCCBCSSSCCEEETTEEECHHHHHHHC
T ss_pred             CcCCCCCcccCCEecc----eEEEECccccccCcCEECCCCCCCCCCceEeECCcEECHHHHHHHh
Confidence            3568999999999985    6789999999999999999999999889999999999999998876

>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=99.60  E-value=6.6e-16  Score=99.18  Aligned_cols=55  Identities=27%  Similarity=0.567  Sum_probs=49.7

Q ss_pred             eeccCceEeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhhhccCCC
Q psy8131          85 IITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCY  139 (198)
Q Consensus        85 ~i~~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~  139 (198)
                      +|.+..+.++++.||++||+|..|+++|.+..|+.+++++||+.||.++++++..
T Consensus        14 ~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~~   68 (70)
T 2d8x_A           14 FIIGRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNREKASGPS   68 (70)
T ss_dssp             BCCSCCEEETTEEECTTTSBCSSSCCBCSSSCCEEETTEEECHHHHHHHHCCCSC
T ss_pred             EecceEEEECcccccccCCEeCCCCCcCCCCccEeECCeEECHHHhhhhcCCCCC
Confidence            5556788999999999999999999999888899999999999999999987653

>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=99.60  E-value=4.6e-16  Score=100.82  Aligned_cols=64  Identities=19%  Similarity=0.401  Sum_probs=56.8

Q ss_pred             hhcccccccccccccccccccccccCCcccccceeeeeeeeeeeccCceEeCCcCccccCCCCccCcCCCC-CCceeecC
Q psy8131          43 KFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECFTCSNCSTSLA-GQRFTSRE  121 (198)
Q Consensus        43 ~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~H~~CF~C~~C~~~l~-~~~~~~~~  121 (198)
                      +++++|.+|++                               +|.+..|.++++.||++||+|+.|+++|. +..|++++
T Consensus         3 ~~~~~C~~C~~-------------------------------~I~~~~v~a~~~~wH~~CF~C~~C~~~L~~~~~f~~~~   51 (73)
T 1wig_A            3 SGSSGCDSCEK-------------------------------YITGRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQG   51 (73)
T ss_dssp             CSCCSCSSSCC-------------------------------CCSSCCBCCSSCCBCTTTSCCSSSCCCCCSSCCCEEET
T ss_pred             cCcCCcccCCC-------------------------------EecCeeEEeCCCCCCCCcCEeCCCCCCCCCCCeeEeeC
Confidence            57899999999                               56667788999999999999999999997 77899999


Q ss_pred             CcccchhhHhhhhccC
Q psy8131         122 DKPFCADCFGELFAKR  137 (198)
Q Consensus       122 g~~yC~~c~~~~~~~~  137 (198)
                      +++||..||.++++..
T Consensus        52 ~~~yC~~C~~~~~~~~   67 (73)
T 1wig_A           52 SSIWHPACRQAARTED   67 (73)
T ss_dssp             TEEECTTHHHHTSSSS
T ss_pred             CEEEChHHChHhhccc
Confidence            9999999998877643

>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=99.60  E-value=4.1e-16  Score=100.64  Aligned_cols=64  Identities=28%  Similarity=0.679  Sum_probs=58.1

Q ss_pred             hhhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         132 ELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       132 ~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      ++++++|++|+++|.+.  +.+|.+.++.||++||+|..|+++|.+..|+..++++||..||.+++
T Consensus         2 ~~~~~~C~~C~~~I~~~--~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f   65 (72)
T 1x4k_A            2 SSGSSGCQECKKTIMPG--TRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQH   65 (72)
T ss_dssp             CSCCCCBSSSCCCCCSS--SCEEEETTEEEETTTTCCSSSCCCCCSSSEEEETTEEEEHHHHHHHT
T ss_pred             CccCCCCccCCCcccCC--ceEEEECcCeecccCCcccccCCccCCCccCccCCeEECHHHHhHHh
Confidence            46789999999999862  36899999999999999999999998889999999999999998875

>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=99.60  E-value=5.5e-16  Score=101.96  Aligned_cols=54  Identities=24%  Similarity=0.608  Sum_probs=48.1

Q ss_pred             eeccCceEeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhhhccCCC
Q psy8131          85 IITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCY  139 (198)
Q Consensus        85 ~i~~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~  139 (198)
                      +|.+..|.++|+.||++||+|..|+++|.+.. ++++|++||..||.++|+|+++
T Consensus        24 ~I~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~-f~~~g~~yC~~cy~~~f~p~~s   77 (79)
T 2cor_A           24 IIDEQPLIFKNDPYHPDHFNCANCGKELTADA-RELKGELYCLPCHDKMGVSGPS   77 (79)
T ss_dssp             BCCSCCCCCSSSCCCTTTSBCSSSCCBCCTTC-EEETTEEECHHHHHTTSCCSSC
T ss_pred             EecceEEEECcceeCCCCCEeCCCCCccCCCC-EeECCEEeCHHHHHHhCCCCCC
Confidence            55577788999999999999999999998774 5899999999999999998765

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

Probab=99.59  E-value=5e-16  Score=99.73  Aligned_cols=61  Identities=30%  Similarity=0.769  Sum_probs=56.2

Q ss_pred             hhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         133 LFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       133 ~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      +++++|++|+++|.+    ..|.+.++.||++||+|..|+++|.++.|+..++++||..||.+++
T Consensus         3 ~~~~~C~~C~~~I~~----~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f   63 (70)
T 2d8z_A            3 SGSSGCVQCKKPITT----GGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLY   63 (70)
T ss_dssp             CCCCBCSSSCCBCCS----SEEESSSSEEETTTSBCSSSCCBCTTSCCEESSSSEECHHHHHHHT
T ss_pred             CCCCCCcccCCeecc----ceEEECccccCCCCCccCCCCCcCCcCceEeeCCeEECHHHHHHHh
Confidence            468999999999986    4689999999999999999999999889999999999999998875

>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=99.59  E-value=1.2e-15  Score=98.47  Aligned_cols=52  Identities=31%  Similarity=0.714  Sum_probs=46.2

Q ss_pred             CceEeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhhhccCCCCC
Q psy8131          89 GGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSC  141 (198)
Q Consensus        89 ~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~~C  141 (198)
                      ..+.++++.||++||+|..|+++|.+..|+.+++++||+.||.+++ .+|..+
T Consensus        20 ~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~~-~~~~~~   71 (72)
T 1x61_A           20 AGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVATL-ESGPSS   71 (72)
T ss_dssp             CCEECSSSEECTTTCBCSSSCCBCTTSCEEESSSCEEEHHHHHHHH-HTCSSC
T ss_pred             eEEEECCCeEcccCCcccccCCcCCcCcCEeeCCeEECHHHHHHHH-ccCCCC
Confidence            4778999999999999999999998888999999999999999987 455543

>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=99.59  E-value=6.7e-16  Score=104.04  Aligned_cols=66  Identities=23%  Similarity=0.554  Sum_probs=59.5

Q ss_pred             hhHhhhhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         128 DCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       128 ~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      ..+...++++|++|+++|.+    ++|.+.++.||++||+|..|+++|.+..|+..++.+||..||.++|
T Consensus        18 ~~~~~~~~~~C~~C~~~I~~----~~v~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f   83 (90)
T 2dar_A           18 HIPAGKRTPMCAHCNQVIRG----PFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFF   83 (90)
T ss_dssp             EECTTTCCCBBSSSCCBCCS----CEEEETTEEECTTTCBCSSSCCBCSSSCBEESSSCEECHHHHHHHT
T ss_pred             cCCCCCCCCCCccCCCEecc----eEEEECCccccccCCccCCCCCCCCCCEeEeECCEEECHHHHHHHc
Confidence            33556788999999999975    6789999999999999999999998888999999999999998876

>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=99.58  E-value=4.2e-16  Score=102.50  Aligned_cols=55  Identities=24%  Similarity=0.412  Sum_probs=50.1

Q ss_pred             eeccCceEeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhhhccCCC
Q psy8131          85 IITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCY  139 (198)
Q Consensus        85 ~i~~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~  139 (198)
                      +|.+..+.++++.||++||+|..|+++|.+..|+++++++||+.||.++|++++.
T Consensus        24 ~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~p~g~   78 (79)
T 1x62_A           24 GIVGVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEKHARERVSGPSS   78 (79)
T ss_dssp             CCCSSCEECSSCEECTTTTSCSSSCCCHHHHCCEESSSCEECHHHHHHHHSSCCC
T ss_pred             CccCcEEEECcceeCcCcCeeCCCCCCCCCCCeEeECCEEECHHHHHHHhCCCCC
Confidence            5566788999999999999999999999877799999999999999999999875

>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=99.58  E-value=1.2e-15  Score=102.59  Aligned_cols=55  Identities=20%  Similarity=0.380  Sum_probs=50.5

Q ss_pred             eeccCceEeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhhhccCCC
Q psy8131          85 IITSGGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCY  139 (198)
Q Consensus        85 ~i~~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~  139 (198)
                      +|.+..+.++++.||++||+|..|+++|.+..|+.+++++||+.||.++|++++.
T Consensus        34 ~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~p~~~   88 (89)
T 1x64_A           34 GIVGAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETHARARTSGPSS   88 (89)
T ss_dssp             BCCSCCEESSSCEECTTTCCCSSSCCCTTTSCCEEETTEEECHHHHHHHSSSCCC
T ss_pred             EecccEEEECCceECccCCEecCCCCCCCCCCeEeECCEEECHHHHHHHhCCCCC
Confidence            5666778899999999999999999999887899999999999999999999875

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

Probab=99.58  E-value=5.6e-16  Score=98.12  Aligned_cols=62  Identities=26%  Similarity=0.761  Sum_probs=55.2

Q ss_pred             hccCCCCCCCCCcCCCCceEEeeCCCccc--ccCcccCcCCCCCCCCceEecCCceeC-cccccccC
Q psy8131         134 FAKRCYSCKKPITGIGGTRFISFEDRHWH--NDCFMCASCQSSLVGRGFITDGEDIIC-PDCAKAKL  197 (198)
Q Consensus       134 ~~~~C~~C~~~I~~~~~~~~~~~~~~~~H--~~Cf~C~~C~~~l~~~~~~~~~~~~~C-~~C~~~~~  197 (198)
                      |+++|++|+++|.+.  +..|++.|+.||  ++||+|+.|+++|.++.|+..+++||| ..||.+++
T Consensus         1 fa~~C~~C~~~I~~~--~~~v~a~~~~wH~~~~CF~C~~C~~~L~~~~f~~~~g~~yC~~~C~~k~~   65 (65)
T 2iyb_E            1 HAVVCQGCHNAIDPE--VQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKRMS   65 (65)
T ss_dssp             -CEECTTTSSEECTT--SCEEEETTEEEETTTTTSBCTTTCCBCTTSCCEEETTEEESSHHHHHTTC
T ss_pred             CcCCCcCCCCeeccC--ceEEEECCCccCCCCCCEECCCCCCcCCCCceEEECCEEecCHHHhhhhC
Confidence            578999999999852  268999999999  999999999999999999999999999 89997653

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

Probab=99.58  E-value=6.4e-16  Score=99.71  Aligned_cols=64  Identities=25%  Similarity=0.695  Sum_probs=57.9

Q ss_pred             hhhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         132 ELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       132 ~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      ++++++|++|+++|.+.  +.++.+.++.||++||+|..|+++|.+..|+..++.+||..||.+++
T Consensus         2 ~~~~~~C~~C~~~I~~~--~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f   65 (72)
T 1wyh_A            2 SSGSSGCSACGETVMPG--SRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKF   65 (72)
T ss_dssp             CCCCCBCSSSCCBCCSS--SCEECSTTCCEETTTCBCTTTCCBTTTSCEEEETTEEEEHHHHHHHT
T ss_pred             CccCCCCccCCCccccC--ccEEEECccccCcccCeECCCCCcCCCCccCCcCCeEECHHHHHHHc
Confidence            45789999999999852  37899999999999999999999998888999999999999998875

>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=99.58  E-value=4.9e-16  Score=99.49  Aligned_cols=61  Identities=34%  Similarity=0.813  Sum_probs=55.8

Q ss_pred             hhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         133 LFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       133 ~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      +++++|++|+++|.+    ..|.+.++.||++||+|..|+++|.+..|+..++++||..||.+++
T Consensus         3 ~~~~~C~~C~~~I~~----~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f   63 (69)
T 2cur_A            3 SGSSGCVKCNKAITS----GGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFV   63 (69)
T ss_dssp             CCCCCCSSSCCCCCT----TCEEETTEEECTTTTBCTTTCCBCTTSCEEECSSCEEEHHHHHHHH
T ss_pred             CCcCCCcccCCEeCc----ceEEECccccccCcCEECCCCCCCCCCccEeECCEEECHHHhHHHh
Confidence            467899999999986    4688999999999999999999999889999999999999998765

>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=99.58  E-value=7.9e-16  Score=99.32  Aligned_cols=63  Identities=27%  Similarity=0.566  Sum_probs=56.9

Q ss_pred             hhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         133 LFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       133 ~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      .++++|++|+++|.+.  +.++.+.++.||++||+|..|+++|.+..|+..++++||..||.+++
T Consensus         3 ~~~~~C~~C~~~I~~~--~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~~   65 (72)
T 1x61_A            3 SGSSGCGGCGEDVVGD--GAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVATL   65 (72)
T ss_dssp             SCCCCCSSSCSCCCSS--SCCEECSSSEECTTTCBCSSSCCBCTTSCEEESSSCEEEHHHHHHHH
T ss_pred             CCCCCCccCCCccCCC--ceEEEECCCeEcccCCcccccCCcCCcCcCEeeCCeEECHHHHHHHH
Confidence            4679999999999862  36789999999999999999999999888999999999999998765

>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=99.57  E-value=7e-16  Score=99.36  Aligned_cols=65  Identities=17%  Similarity=0.367  Sum_probs=57.9

Q ss_pred             hhhhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         131 GELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       131 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      ..+++++|++|+++|.+.  +.++.+.++.||++||+|..|+++|.+..|+..++++||..||.++|
T Consensus         7 ~~~~~~~C~~C~~~i~~~--e~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~lf   71 (72)
T 3f6q_B            7 QGSASATCERCKGGFAPA--EKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF   71 (72)
T ss_dssp             CCCTTCBCTTTCCBCCTT--CEEEEETTEEEETTTSSCTTTCCCCGGGCCEEETTEEECHHHHHHHT
T ss_pred             cCcCCccchhcCccccCC--ceEEEeCcCeeCcCCCcccCCCCCCCCCCeEeECCeEeCHHHHHHhh
Confidence            346789999999999863  46788999999999999999999997778999999999999999876

>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=99.56  E-value=1.3e-15  Score=97.85  Aligned_cols=60  Identities=30%  Similarity=0.729  Sum_probs=55.1

Q ss_pred             hccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         134 FAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       134 ~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      ++++|..|+++|.+    ++|.+.++.||++||+|..|+++|.+..|+..++++||..||.+++
T Consensus         4 ~~~~C~~C~~~I~~----~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~   63 (70)
T 2d8x_A            4 GSSGCHQCGEFIIG----RVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNREK   63 (70)
T ss_dssp             CSSBCSSSCCBCCS----CCEEETTEEECTTTSBCSSSCCBCSSSCCEEETTEEECHHHHHHHH
T ss_pred             CCCcCccCCCEecc----eEEEECcccccccCCEeCCCCCcCCCCccEeECCeEECHHHhhhhc
Confidence            46899999999986    5789999999999999999999998888999999999999998765

>2d8y_A Eplin protein; LIM domain, epithelial protein LOST in neoplasm, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.55  E-value=2.6e-15  Score=101.36  Aligned_cols=52  Identities=23%  Similarity=0.553  Sum_probs=48.4

Q ss_pred             CceEeCCcCccccCCCCccCcCCCCCCceeecCCcccchhhHhhhhccCCCC
Q psy8131          89 GGVTYKNEPWHRECFTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYS  140 (198)
Q Consensus        89 ~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~~  140 (198)
                      ..|.++++.||++||+|..|+++|.+..|+++|+++||+.||.++++++|+.
T Consensus        29 ~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~kc~~   80 (91)
T 2d8y_A           29 ERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNY   80 (91)
T ss_dssp             SEEECSSSEEETTTCBCTTTCCBCCTTTCCCSSSCCCCHHHHHHHSCCCSCC
T ss_pred             eeEEECCCEECCCCCeeCCCCCCCCCCCcEeECCEEECHHHHHHHhCCCcCc
Confidence            4678999999999999999999998878999999999999999999999984

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

Probab=99.55  E-value=3.4e-15  Score=97.35  Aligned_cols=62  Identities=23%  Similarity=0.535  Sum_probs=56.1

Q ss_pred             hhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCc-ccccccC
Q psy8131         133 LFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICP-DCAKAKL  197 (198)
Q Consensus       133 ~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~-~C~~~~~  197 (198)
                      .++++|++|+++|.+.   ..|.+.++.||++||+|..|+++|.++.|+..++++||. .||.+++
T Consensus         7 ~~~~~C~~C~~~I~~~---~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~cy~~~f   69 (76)
T 2cu8_A            7 GMASKCPKCDKTVYFA---EKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLF   69 (76)
T ss_dssp             CCCCBCTTTCCBCCTT---TEEEETTEEEETTTCBCSSSCCBCCTTSCEEETTEEECTTTHHHHHS
T ss_pred             CCCCCCcCCCCEeECC---eEEEECCeEeeCCCCCCCCCCCccCCCceEeECCEEecchHHHHHhc
Confidence            4678999999999853   568899999999999999999999988899999999999 7998875

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

Probab=99.54  E-value=3.7e-15  Score=94.30  Aligned_cols=49  Identities=45%  Similarity=0.909  Sum_probs=43.7

Q ss_pred             eec--cCceEeCCcCcc--ccCCCCccCcCCCCCCceeecCCcccc-hhhHhhh
Q psy8131          85 IIT--SGGVTYKNEPWH--RECFTCSNCSTSLAGQRFTSREDKPFC-ADCFGEL  133 (198)
Q Consensus        85 ~i~--~~~~~~~~~~~H--~~CF~C~~C~~~l~~~~~~~~~g~~yC-~~c~~~~  133 (198)
                      +|.  +..|+++|+.||  ++||+|+.|+++|.+..|++++|++|| .+||.++
T Consensus        11 ~I~~~~~~v~a~~~~wH~~~~CF~C~~C~~~L~~~~f~~~~g~~yC~~~C~~k~   64 (65)
T 2iyb_E           11 AIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKRM   64 (65)
T ss_dssp             EECTTSCEEEETTEEEETTTTTSBCTTTCCBCTTSCCEEETTEEESSHHHHHTT
T ss_pred             eeccCceEEEECCCccCCCCCCEECCCCCCcCCCCceEEECCEEecCHHHhhhh
Confidence            455  568899999999  999999999999998889999999999 8998654

>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=99.53  E-value=1.2e-15  Score=100.70  Aligned_cols=54  Identities=24%  Similarity=0.748  Sum_probs=42.8

Q ss_pred             CccCCcccCcCCcccCCCCCCCCCCCcccCCCeecchhhHHhhhcccccccccc
Q psy8131           1 MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKT   54 (198)
Q Consensus         1 ~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~   54 (198)
                      |.++++.||++||+|..|+++|.+..|+++++++||+.||.++|+|+|.+|+++
T Consensus        23 ~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~gcg~g   76 (81)
T 1a7i_A           23 VQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYGPKGYGYGQG   76 (81)
T ss_dssp             EEETTEEEESSSEECSSSCCEECSSCCEEETTEEECSHHHHHHCC---------
T ss_pred             EEeCCcccccccCccCCCCCCCCCCCeEeeCCEEECHHHHHHHhCCcccccCCc
Confidence            357899999999999999999999999999999999999999999999999984

>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=2.1e-15  Score=98.35  Aligned_cols=54  Identities=20%  Similarity=0.591  Sum_probs=50.6

Q ss_pred             CccCCcccCcCCcccCCCCCCCCCCCcccCCCeecch-hhHHhhhcccccccccc
Q psy8131           1 MEYKTRQWHEKCFACVVCKTPIGTKSFIPREQEIYCA-NCYEEKFATRCVKCNKT   54 (198)
Q Consensus         1 ~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~-~cy~~~~~~~C~~C~~~   54 (198)
                      |.++|+.||++||+|..|+++|.+..|+++||++||+ .||.++|+|+|.+|++.
T Consensus        16 v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~~~C~~C~~~   70 (76)
T 1iml_A           16 VTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGFGRGGA   70 (76)
T ss_dssp             EEETTEEEETTTCBCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCCCSSCCCS
T ss_pred             EEECCccccCCCCCccccCccCCCCceECcCCeEeeCHHHHHHHhCccCCCcCCc
Confidence            3578999999999999999999999999999999999 69999999999999984

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

Probab=99.53  E-value=2.5e-15  Score=98.19  Aligned_cols=63  Identities=19%  Similarity=0.421  Sum_probs=56.4

Q ss_pred             hhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         133 LFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       133 ~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      .++++|++|+++|.+.  +.++.+.|+.||++||+|..|+++|.+..|+..++++||..||.+++
T Consensus         9 ~~~~~C~~C~~~I~~~--~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f   71 (77)
T 1g47_A            9 LASATCERCKGGFAPA--EKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF   71 (77)
T ss_dssp             CCCCBCSSSCCBCCST--TTCEEETTEEECTTTCCCTTTCCCCGGGCSEEETTEEECHHHHHHHC
T ss_pred             CCCCCchhcCCccCCC--ceEEEeCccEeccccCeECCCCCCCCCCCeEeECCeEeCHHHHHHHh
Confidence            4578999999999852  37789999999999999999999998778999999999999998875

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

Probab=99.52  E-value=5.2e-15  Score=97.26  Aligned_cols=60  Identities=23%  Similarity=0.449  Sum_probs=53.8

Q ss_pred             hhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         133 LFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       133 ~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      .++++|++|+++|.+    .+|.+.++.||++||+|..|+++|.+..| ..++++||..||.+++
T Consensus        13 ~~~~~C~~C~~~I~~----~~v~a~~~~~H~~CF~C~~C~~~L~~~~f-~~~g~~yC~~cy~~~f   72 (79)
T 2cor_A           13 LGKYICQKCHAIIDE----QPLIFKNDPYHPDHFNCANCGKELTADAR-ELKGELYCLPCHDKMG   72 (79)
T ss_dssp             CCCCBCTTTCCBCCS----CCCCCSSSCCCTTTSBCSSSCCBCCTTCE-EETTEEECHHHHHTTS
T ss_pred             cCCCCCccCCCEecc----eEEEECcceeCCCCCEeCCCCCccCCCCE-eECCEEeCHHHHHHhC
Confidence            357899999999995    56899999999999999999999987765 8899999999998876

>2dj7_A Actin-binding LIM protein 3; LIM domain, Zn binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.52  E-value=9.7e-15  Score=96.18  Aligned_cols=59  Identities=27%  Similarity=0.628  Sum_probs=53.1

Q ss_pred             ccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         135 AKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       135 ~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      .++|.+|+++|...   .+|.++++.||++||+|..|+++|.+ .|+..++++||..||.++|
T Consensus        15 ~~~C~~C~~~I~~~---~~v~a~~~~wH~~CF~C~~C~~~L~~-~~~~~~g~~yC~~~y~~~f   73 (80)
T 2dj7_A           15 PSHCAGCKEEIKHG---QSLLALDKQWHVSCFKCQTCSVILTG-EYISKDGVPYCESDYHAQF   73 (80)
T ss_dssp             CSCCTTTCCCCSSS---CCEEETTEEECTTTCBCSSSCCBCSS-CCEEETTEEECTTHHHHHT
T ss_pred             CCCCcCcCCeeCCC---eEEEECCcccccccCCcCcCCCCcCC-CeEEECCEEECHHHHHHHc
Confidence            57899999999853   56889999999999999999999986 5889999999999998876

>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=99.51  E-value=4e-15  Score=95.79  Aligned_cols=64  Identities=25%  Similarity=0.593  Sum_probs=54.6

Q ss_pred             HhhhcccccccccccccccccccccccCCcccccceeeeeeeeeeecc--CceEeCCcCccccCCCCccCcCCCCCCcee
Q psy8131          41 EEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITS--GGVTYKNEPWHRECFTCSNCSTSLAGQRFT  118 (198)
Q Consensus        41 ~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~--~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~  118 (198)
                      ...++++|.+|+++                               |..  ..+.++|+.||++||+|+.|+++|.+..|+
T Consensus         7 ~~~~~~~C~~C~~~-------------------------------i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~   55 (72)
T 3f6q_B            7 QGSASATCERCKGG-------------------------------FAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFY   55 (72)
T ss_dssp             CCCTTCBCTTTCCB-------------------------------CCTTCEEEEETTEEEETTTSSCTTTCCCCGGGCCE
T ss_pred             cCcCCccchhcCcc-------------------------------ccCCceEEEeCcCeeCcCCCcccCCCCCCCCCCeE
Confidence            34568899999994                               442  245799999999999999999999777899


Q ss_pred             ecCCcccchhhHhhhhc
Q psy8131         119 SREDKPFCADCFGELFA  135 (198)
Q Consensus       119 ~~~g~~yC~~c~~~~~~  135 (198)
                      .++|++||+.||.++|+
T Consensus        56 ~~~g~~yC~~~y~~lf~   72 (72)
T 3f6q_B           56 EFEGRKYCEHDFQMLFA   72 (72)
T ss_dssp             EETTEEECHHHHHHHTC
T ss_pred             eECCeEeCHHHHHHhhC
Confidence            99999999999999875

>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=2.5e-15  Score=98.74  Aligned_cols=59  Identities=29%  Similarity=0.751  Sum_probs=54.6

Q ss_pred             ccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         135 AKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       135 ~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      .++|++|+++|.+    ++|.+.++.||++||+|..|+++|.+..|+..++++||..||.+++
T Consensus        15 ~~~C~~C~~~I~~----~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~   73 (79)
T 1x62_A           15 LPMCDKCGTGIVG----VFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEKHARERV   73 (79)
T ss_dssp             CCCCSSSCCCCCS----SCEECSSCEECTTTTSCSSSCCCHHHHCCEESSSCEECHHHHHHHH
T ss_pred             CCccccCCCCccC----cEEEECcceeCcCcCeeCCCCCCCCCCCeEeECCEEECHHHHHHHh
Confidence            5899999999997    5789999999999999999999998778999999999999998775

>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=99.50  E-value=1.1e-14  Score=97.92  Aligned_cols=60  Identities=27%  Similarity=0.626  Sum_probs=55.0

Q ss_pred             hccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         134 FAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       134 ~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      ..++|.+|+++|.+    ++|.+.++.||++||+|..|+++|.+..|+..++.+||..||.++|
T Consensus        24 ~~~~C~~C~~~I~~----~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f   83 (89)
T 1x64_A           24 RMPLCDKCGSGIVG----AVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETHARART   83 (89)
T ss_dssp             SCCBCTTTCCBCCS----CCEESSSCEECTTTCCCSSSCCCTTTSCCEEETTEEECHHHHHHHS
T ss_pred             cCCCcccCCCEecc----cEEEECCceECccCCEecCCCCCCCCCCeEeECCEEECHHHHHHHh
Confidence            36889999999997    5689999999999999999999998878999999999999998876

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

Probab=99.48  E-value=1.6e-14  Score=102.76  Aligned_cols=51  Identities=24%  Similarity=0.559  Sum_probs=45.0

Q ss_pred             eeccC-ceEeCCcCccccCCCCccCcCCCC--CCceeecCCcccchhhHhhhhc
Q psy8131          85 IITSG-GVTYKNEPWHRECFTCSNCSTSLA--GQRFTSREDKPFCADCFGELFA  135 (198)
Q Consensus        85 ~i~~~-~~~~~~~~~H~~CF~C~~C~~~l~--~~~~~~~~g~~yC~~c~~~~~~  135 (198)
                      +|.+. .+.++++.||++||+|..|+++|.  +..|+.++|++||+.||.++|+
T Consensus        70 ~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~~g~~f~~~dg~~yC~~cy~~~Fg  123 (123)
T 2l4z_A           70 KIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG  123 (123)
T ss_dssp             BCCSSSEEEETTEEEETTTSBCTTTCCBGGGTTCCCBCSSSCCBCHHHHHHHCC
T ss_pred             CcCCcEEEEeCCcEEcccccCcCcCCCcccccCCceEEECCEEeCHHHhhhhcC
Confidence            55555 478999999999999999999996  4679999999999999999875

>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=99.47  E-value=2.7e-14  Score=94.49  Aligned_cols=60  Identities=17%  Similarity=0.471  Sum_probs=52.9

Q ss_pred             ccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceE--ecCCceeCcccccccC
Q psy8131         135 AKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFI--TDGEDIICPDCAKAKL  197 (198)
Q Consensus       135 ~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~--~~~~~~~C~~C~~~~~  197 (198)
                      +++|.+|+++|...   ..+.+.++.||++||+|..|+++|.+..|.  ..++++||+.||.+++
T Consensus        15 ~~~C~~C~~~I~~~---e~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~   76 (82)
T 2co8_A           15 GDLCALCGEHLYVL---ERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQTD   76 (82)
T ss_dssp             SCBCSSSCCBCCTT---TBCCBTTBCCBTTTCBCSSSCCBCCTTSEECCTTTCCCEETTTCCCCC
T ss_pred             CCCCcccCCCcccc---eEEEECCCeeCCCcCEEcCCCCCcCCCceeEeCcCCEEEChHHHHhhh
Confidence            57899999999753   456799999999999999999999888887  3689999999999876

>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=99.46  E-value=1.4e-14  Score=103.06  Aligned_cols=63  Identities=30%  Similarity=0.537  Sum_probs=56.2

Q ss_pred             hhhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCC--CCceEecCCceeCcccccccC
Q psy8131         132 ELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLV--GRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       132 ~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~--~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      ..++++|++|+++|.+.   .++.+.++.||++||+|..|+++|.  +..|+..++++||..||.++|
T Consensus        58 ~~~~~~C~~C~~~I~~~---~~v~a~~~~wH~~CF~C~~C~~~L~~~g~~f~~~dg~~yC~~cy~~~F  122 (123)
T 2l4z_A           58 GLSWKRCAGCGGKIADR---FLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLF  122 (123)
T ss_dssp             CSSCSBBSSSSSBCCSS---SEEEETTEEEETTTSBCTTTCCBGGGTTCCCBCSSSCCBCHHHHHHHC
T ss_pred             CccCCcCcCCCCCcCCc---EEEEeCCcEEcccccCcCcCCCcccccCCceEEECCEEeCHHHhhhhc
Confidence            34578999999999873   5689999999999999999999995  578999999999999999876

>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=99.45  E-value=3.1e-14  Score=94.16  Aligned_cols=51  Identities=16%  Similarity=0.418  Sum_probs=44.3

Q ss_pred             cCceEeCCcCccccCCCCccCcCCCCCCcee--ecCCcccchhhHhhhhccCC
Q psy8131          88 SGGVTYKNEPWHRECFTCSNCSTSLAGQRFT--SREDKPFCADCFGELFAKRC  138 (198)
Q Consensus        88 ~~~~~~~~~~~H~~CF~C~~C~~~l~~~~~~--~~~g~~yC~~c~~~~~~~~C  138 (198)
                      ...+.++++.||++||+|+.|+++|....|+  ++||++||+.||.++++...
T Consensus        28 ~e~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~~~   80 (82)
T 2co8_A           28 LERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQTDSGPS   80 (82)
T ss_dssp             TTBCCBTTBCCBTTTCBCSSSCCBCCTTSEECCTTTCCCEETTTCCCCCCCCC
T ss_pred             ceEEEECCCeeCCCcCEEcCCCCCcCCCceeEeCcCCEEEChHHHHhhhcCCC
Confidence            4466789999999999999999999888787  47999999999998887644

>2d8y_A Eplin protein; LIM domain, epithelial protein LOST in neoplasm, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.44  E-value=2.6e-14  Score=96.38  Aligned_cols=61  Identities=18%  Similarity=0.428  Sum_probs=55.1

Q ss_pred             hccCCCCCCCCCcCCCCceEEeeCCCcccccCcccCcCCCCCCCCceEecCCceeCcccccccC
Q psy8131         134 FAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCASCQSSLVGRGFITDGEDIICPDCAKAKL  197 (198)
Q Consensus       134 ~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~~  197 (198)
                      .+++|++|+++|.+.   ..|.+.++.||++||+|..|+++|.+..|+..++++||..||.+++
T Consensus        14 ~~~~C~~C~~~I~~~---~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f   74 (91)
T 2d8y_A           14 ARETCVECQKTVYPM---ERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLF   74 (91)
T ss_dssp             SSCBCTTTCCBCCTT---SEEECSSSEEETTTCBCTTTCCBCCTTTCCCSSSCCCCHHHHHHHS
T ss_pred             CCCcCccCCCccCCc---eeEEECCCEECCCCCeeCCCCCCCCCCCcEeECCEEECHHHHHHHh
Confidence            468999999999863   4678999999999999999999998878999999999999998876

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

Probab=97.70  E-value=9.8e-06  Score=42.83  Aligned_cols=29  Identities=28%  Similarity=0.718  Sum_probs=24.9

Q ss_pred             ccCCCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         135 AKRCYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       135 ~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      .++|..|++++...   +.+.+.|+.||..||
T Consensus         3 ~~~C~~C~k~Vy~~---Ek~~~~g~~~Hk~CF   31 (31)
T 1zfo_A            3 NPNCARCGKIVYPT---EKVNCLDKFWHKACF   31 (31)
T ss_dssp             CCBCSSSCSBCCGG---GCCCSSSSCCCGGGC
T ss_pred             CCcCCccCCEEecc---eeEEECCeEecccCC
Confidence            57899999999874   456789999999998

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

Probab=97.15  E-value=0.00011  Score=38.70  Aligned_cols=15  Identities=33%  Similarity=0.897  Sum_probs=12.4

Q ss_pred             CceEeCCcCccccCC
Q psy8131          89 GGVTYKNEPWHRECF  103 (198)
Q Consensus        89 ~~~~~~~~~~H~~CF  103 (198)
                      ..+.+.|+.||..||
T Consensus        17 Ek~~~~g~~~Hk~CF   31 (31)
T 1zfo_A           17 EKVNCLDKFWHKACF   31 (31)
T ss_dssp             GCCCSSSSCCCGGGC
T ss_pred             eeEEECCeEecccCC
Confidence            456688999999997

>1jjd_A Metallothionein, SMTA; zinc finger, zinc cluster, metal binding PR; NMR {Synechococcus elongatus} SCOP: g.46.1.1

Probab=86.86  E-value=0.5  Score=27.87  Aligned_cols=30  Identities=27%  Similarity=0.607  Sum_probs=25.3

Q ss_pred             ccCCCCCCCCCCCcccCCCeecc-hhhHHhh
Q psy8131          14 ACVVCKTPIGTKSFIPREQEIYC-ANCYEEK   43 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~~~~g~~yC-~~cy~~~   43 (198)
                      .|..|+..++...-+.+||+.|| +.|....
T Consensus         9 aC~~C~c~Vs~~eai~~dGK~YCSe~Ca~gH   39 (55)
T 1jjd_A            9 ACEPCLCNVDPSKAIDRNGLYYCSEACADGH   39 (55)
T ss_dssp             SSTTCCCCBCTTTSEESSSCEESSHHHHHTS
T ss_pred             cCCCCeeEechHHhhhcCCeEEehHHHHccC
Confidence            47899999988888899999999 8887653

>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A

Probab=84.93  E-value=0.9  Score=25.90  Aligned_cols=44  Identities=18%  Similarity=0.437  Sum_probs=24.2

Q ss_pred             CCCccCcCCCCC--C-ceeecCCcccchhhHhhhh--ccCCCCCCCCCc
Q psy8131         103 FTCSNCSTSLAG--Q-RFTSREDKPFCADCFGELF--AKRCYSCKKPIT  146 (198)
Q Consensus       103 F~C~~C~~~l~~--~-~~~~~~g~~yC~~c~~~~~--~~~C~~C~~~I~  146 (198)
                      ..|..|...+..  . .....=+..||..|..+.+  ...|..|+++|.
T Consensus         6 ~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            6 SGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            456666666632  1 1222336677777765432  256777766664

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

Probab=83.60  E-value=0.78  Score=31.33  Aligned_cols=104  Identities=17%  Similarity=0.455  Sum_probs=64.7

Q ss_pred             CCcccCCCCCCCCCC------CcccCCCeecchhhHHhhh--cccccccccccccccccccccccCCcccccceeeeeee
Q psy8131          11 KCFACVVCKTPIGTK------SFIPREQEIYCANCYEEKF--ATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFL   82 (198)
Q Consensus        11 ~CF~C~~C~~~L~~~------~f~~~~g~~yC~~cy~~~~--~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (198)
                      +=+.|..|...+.+.      .....=|-.||..|..+.+  ...|..|.+.+.                          
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~--------------------------   59 (133)
T 4ap4_A            6 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN--------------------------   59 (133)
T ss_dssp             CSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCT--------------------------
T ss_pred             CCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCc--------------------------
Confidence            347899998887542      1334558899999998764  347888888431                          


Q ss_pred             eeeeccCceEeCCcCccccCCCCccCcCCCCC-----Cc-eeecCCcccchhhHhhh--hccCCCCCCCCCcC
Q psy8131          83 FQIITSGGVTYKNEPWHRECFTCSNCSTSLAG-----QR-FTSREDKPFCADCFGEL--FAKRCYSCKKPITG  147 (198)
Q Consensus        83 ~~~i~~~~~~~~~~~~H~~CF~C~~C~~~l~~-----~~-~~~~~g~~yC~~c~~~~--~~~~C~~C~~~I~~  147 (198)
                           ...+..  ...-.+=..|..|...+..     .. ....=|..||..|..+.  ....|..|..+|..
T Consensus        60 -----~~~l~~--l~i~~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~  125 (133)
T 4ap4_A           60 -----HKRYHP--IYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH  125 (133)
T ss_dssp             -----TTCEEE--CBCSSSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBCCG
T ss_pred             -----cccccc--cccCCCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcCCh
Confidence                 111110  0112234567888776632     11 23345888999997543  35689999998876

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

Probab=82.57  E-value=1.9  Score=26.23  Aligned_cols=45  Identities=27%  Similarity=0.541  Sum_probs=33.7

Q ss_pred             CCCCccCcCCCCCCceee-cCCcccchhhHhhhh--ccCCCCCCCCCcC
Q psy8131         102 CFTCSNCSTSLAGQRFTS-REDKPFCADCFGELF--AKRCYSCKKPITG  147 (198)
Q Consensus       102 CF~C~~C~~~l~~~~~~~-~~g~~yC~~c~~~~~--~~~C~~C~~~I~~  147 (198)
                      =+.|..|...+.+. ... .=|..||..|..+.+  ...|..|+++|..
T Consensus        15 ~~~C~IC~~~~~~p-~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   62 (72)
T 2djb_A           15 YILCSICKGYLIDA-TTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQ   62 (72)
T ss_dssp             GGSCTTTSSCCSSC-EECSSSCCEECHHHHHHHHHHCSSCTTTCCCCCS
T ss_pred             CCCCCCCChHHHCc-CEECCCCCHHHHHHHHHHHHcCCcCCCcCcccCc
Confidence            36788888877654 443 568999999986544  5789999999876

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=80.70  E-value=1.7  Score=28.82  Aligned_cols=63  Identities=24%  Similarity=0.481  Sum_probs=42.8

Q ss_pred             CCccCcCCCCCCceeecCCcccchhhHhh---hhccCCCCCCCCCcCCCCceEEeeCCCcccccCcccC---cCCCCC
Q psy8131         104 TCSNCSTSLAGQRFTSREDKPFCADCFGE---LFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCFMCA---SCQSSL  175 (198)
Q Consensus       104 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~---~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf~C~---~C~~~l  175 (198)
                      .|..|+.|+....-.+-=+..+|.+|+..   .-...|..|+.+|..-   +.. ..|..     |.|+   .|.+.+
T Consensus         3 fC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~rV---e~~-~~~~i-----f~C~~~~~Ckrty   71 (101)
T 3vk6_A            3 FCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRI---EQC-TRGSL-----FMCSIVQGCKRTY   71 (101)
T ss_dssp             BCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSEE---EEE-EGGGC-----CCCCCCCCCCCCC
T ss_pred             ecCccCCCeEEEeeeccccccHHHHHHHHHHhccCCCCcCcCCeeeee---EEe-ccCCE-----EECCCCCCHHHHh
Confidence            37889888865434444578999999965   3457899999999862   112 23444     6676   677765

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

Probab=80.37  E-value=1.5  Score=26.11  Aligned_cols=44  Identities=23%  Similarity=0.733  Sum_probs=32.9

Q ss_pred             CCCccCcCCCCCCceeecCCcccchhhHhhhh---ccCCCCCCCCCcC
Q psy8131         103 FTCSNCSTSLAGQRFTSREDKPFCADCFGELF---AKRCYSCKKPITG  147 (198)
Q Consensus       103 F~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~---~~~C~~C~~~I~~  147 (198)
                      +.|..|...+.+. ....=|..||..|..+..   ...|..|+++|..
T Consensus        16 ~~C~IC~~~~~~p-~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (66)
T 2ecy_A           16 YKCEKCHLVLCSP-KQTECGHRFCESCMAALLSSSSPKCTACQESIVK   62 (66)
T ss_dssp             EECTTTCCEESSC-CCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCT
T ss_pred             CCCCCCChHhcCe-eECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCCh
Confidence            6688887777543 334568999999987665   3579999999875

---

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	198
d1x4la1	29	g.39.1.3 (A:8-36) Four and a half LIM domains prot	2e-11
d1x68a1	29	g.39.1.3 (A:8-36) Four and a half LIM domains prot	2e-11
d2cuqa1	32	g.39.1.3 (A:43-74) Four and a half LIM domains 3,	1e-10
d1x4ka1	32	g.39.1.3 (A:35-66) Four and a half LIM domains pro	2e-10
d1wyha1	32	g.39.1.3 (A:35-66) Four and a half LIM domains 3,	7e-10
d2d8za2	32	g.39.1.3 (A:33-64) Four and a half LIM domains pro	1e-09
d2d8za2	32	g.39.1.3 (A:33-64) Four and a half LIM domains pro	0.003
d2cuqa2	35	g.39.1.3 (A:8-42) Four and a half LIM domains 3, F	2e-09
d2cuqa2	35	g.39.1.3 (A:8-42) Four and a half LIM domains 3, F	3e-05
d2cura2	26	g.39.1.3 (A:8-32) Four and a half LIM domains prot	1e-06
d2d8za1	26	g.39.1.3 (A:8-32) Four and a half LIM domains prot	3e-06
d1x4la2	30	g.39.1.3 (A:37-66) Four and a half LIM domains pro	1e-05
d1x63a1	37	g.39.1.3 (A:8-44) Four and a half LIM domains prot	3e-05
d1x3ha1	35	g.39.1.3 (A:8-42) Leupaxin {Human (Homo sapiens) [	1e-04
d2cura1	31	g.39.1.3 (A:33-63) Four and a half LIM domains pro	1e-04
d1g47a2	35	g.39.1.3 (A:36-70) Pinch (particularly interesting	4e-04
d1g47a2	35	g.39.1.3 (A:36-70) Pinch (particularly interesting	8e-04
d1x68a2	34	g.39.1.3 (A:37-70) Four and a half LIM domains pro	5e-04
d1x63a2	32	g.39.1.3 (A:45-76) Four and a half LIM domains pro	8e-04
d2dara2	45	g.39.1.3 (A:8-52) PDZ and LIM domain protein 5, En	0.001

>d1x4la1 g.39.1.3 (A:8-36) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]} Length = 29

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]

 Score = 54.1 bits (130), Expect = 2e-11
 Identities = 19/29 (65%), Positives = 24/29 (82%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCF 166
           C  C  PI+G+GGT++ISFE+R WHNDCF
Sbjct: 1   CAGCTNPISGLGGTKYISFEERQWHNDCF 29

>d1x68a1 g.39.1.3 (A:8-36) Four and a half LIM domains protein 5, FHL-5 {Human (Homo sapiens) [TaxId: 9606]} Length = 29

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]

 Score = 54.1 bits (130), Expect = 2e-11
 Identities = 15/29 (51%), Positives = 22/29 (75%)

Query: 138 CYSCKKPITGIGGTRFISFEDRHWHNDCF 166
           C +C KPI+G+ G +FI F+D  WH++CF
Sbjct: 1   CVACSKPISGLTGAKFICFQDSQWHSECF 29

>d2cuqa1 g.39.1.3 (A:43-74) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]} Length = 32

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.1 bits (125), Expect = 1e-10
 Identities = 20/31 (64%), Positives = 25/31 (80%)

Query: 105 CSNCSTSLAGQRFTSREDKPFCADCFGELFA 135
           C+ C T LAGQ+FTSR++ P+C  CFGELFA
Sbjct: 2   CTGCQTPLAGQQFTSRDEDPYCVACFGELFA 32

>d1x4ka1 g.39.1.3 (A:35-66) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]} Length = 32

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.7 bits (124), Expect = 2e-10
 Identities = 16/31 (51%), Positives = 23/31 (74%)

Query: 15 CVVCKTPIGTKSFIPREQEIYCANCYEEKFA 45
          C  C+ PIGTKSFIP++ + +C  CYE++ A
Sbjct: 2  CHRCQQPIGTKSFIPKDNQNFCVPCYEKQHA 32

>d1wyha1 g.39.1.3 (A:35-66) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]} Length = 32

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 50.2 bits (120), Expect = 7e-10
 Identities = 15/31 (48%), Positives = 21/31 (67%)

Query: 15 CVVCKTPIGTKSFIPREQEIYCANCYEEKFA 45
          C  C+ P+G++SF+P +   YC  CYE KFA
Sbjct: 2  CSGCEQPLGSRSFVPDKGAHYCVPCYENKFA 32

>d2d8za2 g.39.1.3 (A:33-64) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]} Length = 32

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.3 bits (118), Expect = 1e-09
 Identities = 15/31 (48%), Positives = 23/31 (74%)

Query: 105 CSNCSTSLAGQRFTSREDKPFCADCFGELFA 135
           C+ C   L+GQRFT+R+D  +C +CF +L+A
Sbjct: 2   CTACRKQLSGQRFTARDDFAYCLNCFCDLYA 32

>d2d8za2 g.39.1.3 (A:33-64) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]} Length = 32

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 32.0 bits (73), Expect = 0.003
 Identities = 9/31 (29%), Positives = 16/31 (51%)

Query: 15 CVVCKTPIGTKSFIPREQEIYCANCYEEKFA 45
          C  C+  +  + F  R+   YC NC+ + +A
Sbjct: 2  CTACRKQLSGQRFTARDDFAYCLNCFCDLYA 32

>d2cuqa2 g.39.1.3 (A:8-42) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]} Length = 35

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.0 bits (117), Expect = 2e-09
 Identities = 22/65 (33%), Positives = 28/65 (43%), Gaps = 31/65 (47%)

Query: 39  CYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPW 98
           CYE KFA RC +C+K                                +T GGVTY+++PW
Sbjct: 2   CYENKFAPRCARCSK-------------------------------TLTQGGVTYRDQPW 30

Query: 99  HRECF 103
           HREC 
Sbjct: 31  HRECL 35

>d2cuqa2 g.39.1.3 (A:8-42) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]} Length = 35

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.4 bits (87), Expect = 3e-05
 Identities = 13/38 (34%), Positives = 20/38 (52%), Gaps = 4/38 (10%)

Query: 129 CFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCF 166
           C+   FA RC  C K +T  G    +++ D+ WH +C 
Sbjct: 2   CYENKFAPRCARCSKTLTQGG----VTYRDQPWHRECL 35

>d2cura2 g.39.1.3 (A:8-32) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]} Length = 26

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 = 41.4 bits (97), Expect = 1e-06
 Identities = 12/20 (60%), Positives = 18/20 (90%)

Query: 84  QIITSGGVTYKNEPWHRECF 103
           + ITSGG+TY+++PWH +CF
Sbjct: 6   KAITSGGITYQDQPWHADCF 25

>d2d8za1 g.39.1.3 (A:8-32) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]} Length = 26

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]

 Score = 40.3 bits (94), Expect = 3e-06
 Identities = 13/20 (65%), Positives = 18/20 (90%)

Query: 84  QIITSGGVTYKNEPWHRECF 103
           + IT+GGVTY+ +PWH+ECF
Sbjct: 6   KPITTGGVTYREQPWHKECF 25

>d1x4la2 g.39.1.3 (A:37-66) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]} Length = 30

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.4 bits (89), Expect = 1e-05
 Identities = 17/27 (62%), Positives = 21/27 (77%)

Query: 168 CASCQSSLVGRGFITDGEDIICPDCAK 194
           C  C  SLVGRGF+T+ +DI+CPDC K
Sbjct: 2   CKKCSLSLVGRGFLTERDDILCPDCGK 28

>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 = 37.8 bits (88), Expect = 3e-05
 Identities = 11/38 (28%), Positives = 17/38 (44%), Gaps = 2/38 (5%)

Query: 129 CFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCF 166
           C     + +C  C K I    G + + ++   WH DCF
Sbjct: 2   CTTREDSPKCKGCFKAIVA--GDQNVEYKGTVWHKDCF 37

>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 = 35.8 bits (83), Expect = 1e-04
 Identities = 11/37 (29%), Positives = 19/37 (51%), Gaps = 4/37 (10%)

Query: 130 FGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCF 166
           F  +F+ +C  C +P+       ++S  D  WH +CF
Sbjct: 3   FLAMFSPKCGGCNRPVLE----NYLSAMDTVWHPECF 35

>d2cura1 g.39.1.3 (A:33-63) Four and a half LIM domains protein 1, FHL-1 {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: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.7 bits (82), Expect = 1e-04
 Identities = 15/26 (57%), Positives = 19/26 (73%)

Query: 105 CSNCSTSLAGQRFTSREDKPFCADCF 130
           C  CS  LAGQRFT+ ED+ +C DC+
Sbjct: 2   CVTCSKKLAGQRFTAVEDQYYCVDCY 27

>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 = 34.3 bits (79), Expect = 4e-04
 Identities = 9/33 (27%), Positives = 12/33 (36%)

Query: 13 FACVVCKTPIGTKSFIPREQEIYCANCYEEKFA 45
          F C  C        F   E   YC + ++  FA
Sbjct: 1  FVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA 33

>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 = 33.5 bits (77), Expect = 8e-04
 Identities = 10/33 (30%), Positives = 13/33 (39%)

Query: 103 FTCSNCSTSLAGQRFTSREDKPFCADCFGELFA 135
           F C+ C        F   E + +C   F  LFA
Sbjct: 1   FVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA 33

>d1x68a2 g.39.1.3 (A:37-70) Four and a half LIM domains protein 5, FHL-5 {Human (Homo sapiens) [TaxId: 9606]} Length = 34

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]

 Score = 34.5 bits (79), Expect = 5e-04
 Identities = 12/25 (48%), Positives = 16/25 (64%)

Query: 168 CASCQSSLVGRGFITDGEDIICPDC 192
           C  C  SLVG+GF+T  ++I C  C
Sbjct: 2   CGKCSVSLVGKGFLTQNKEIFCQKC 26

>d1x63a2 g.39.1.3 (A:45-76) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]} Length = 32

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.5 bits (76), Expect = 8e-04
 Identities = 16/31 (51%), Positives = 20/31 (64%)

Query: 15 CVVCKTPIGTKSFIPREQEIYCANCYEEKFA 45
          C  CK  IGT SF P+ ++ YC  C+E KFA
Sbjct: 2  CSNCKQVIGTGSFFPKGEDFYCVTCHETKFA 32

>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 = 33.6 bits (77), Expect = 0.001
 Identities = 8/30 (26%), Positives = 12/30 (40%), Gaps = 4/30 (13%)

Query: 137 RCYSCKKPITGIGGTRFISFEDRHWHNDCF 166
            C  C + I G     F+    + WH + F
Sbjct: 20  MCAHCNQVIRG----PFLVALGKSWHPEEF 45

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	198
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	99.3
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	99.2
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	99.14
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	98.98
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.96
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	98.95
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.94
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.93
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	98.76
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.72
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	98.69
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	98.67
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	98.67
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	98.66
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	98.66
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	98.65
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	98.63
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.62
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.61
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	98.61
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	98.6
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.59
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.58
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	98.52
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.48
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.48
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.44
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	98.42
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	98.4
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	98.39
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.37
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.32
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.3
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	98.3
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.29
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	98.29
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	98.25
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	98.24
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	98.2
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	98.2
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	98.17
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	98.16
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	98.15
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	98.14
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	98.12
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.12
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.11
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	98.09
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	98.08
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	98.07
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	98.07
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.07
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	98.06
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	98.03
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	98.01
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.93
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.93
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.91
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.91
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.86
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	97.82
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	97.81
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.78
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.76
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	97.76
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.73
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.68
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	97.67
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	97.66
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.65
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	97.62
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.58
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.54
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	97.53
d2co8a2	36	Nedd9 interacting protein with calponin homology,	97.52
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.51
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	97.47
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	97.46
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.45
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	97.43
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	97.41
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	97.22
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	97.2
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.19
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	97.19
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	97.07
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.06
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.03
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	97.0
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	96.91
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	96.83
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	96.83
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	96.83
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	96.72
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	96.71
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	96.69
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	96.62
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	96.54
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	96.5
d2co8a2	36	Nedd9 interacting protein with calponin homology,	96.41
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	96.39
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	96.32
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	96.29
d2cora1	31	Pinch (particularly interesting new Cys-His) prote	96.18
d1rutx2	34	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	96.13
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	96.1
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	96.03
d2cora1	31	Pinch (particularly interesting new Cys-His) prote	95.95
d1rutx2	34	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	95.92
d1rutx4	33	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	95.8
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	95.75
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	95.67
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	95.67
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	95.33
d1x61a1	27	Thyroid receptor interacting protein 6, TRIP6 {Hum	94.99
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	94.9
d1rutx4	33	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	94.84
d1x61a1	27	Thyroid receptor interacting protein 6, TRIP6 {Hum	94.82
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	94.82
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	94.55
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	94.39
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	94.16
d1v6ga2	40	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	93.95
d1x68a2	34	Four and a half LIM domains protein 5, FHL-5 {Huma	93.93
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	93.9
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	93.86
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	93.44
d1v6ga2	40	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	92.19
d1x68a2	34	Four and a half LIM domains protein 5, FHL-5 {Huma	92.13
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	91.46
d1x4la2	30	Four and a half LIM domains protein 2, FHL2 {Human	90.14
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	89.61
d1x4la2	30	Four and a half LIM domains protein 2, FHL2 {Human	89.6
d1j2oa2	33	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	89.47
d1j2oa2	33	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	88.12
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	88.1
d2co8a1	33	Nedd9 interacting protein with calponin homology,	81.81
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	81.38

>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=99.30  E-value=1.5e-13  Score=73.82  Aligned_cols=35  Identities=31%  Similarity=0.890  Sum_probs=32.6

Q ss_pred             hhHhhhhccCCCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         128 DCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       128 ~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      +||.++|+|+|++|++||.+    .+|+|+|+.||++||
T Consensus         1 ~DY~~~fapkC~~C~~~I~g----~~v~Al~~~wHpeCF   35 (35)
T d1x3ha1           1 KDFLAMFSPKCGGCNRPVLE----NYLSAMDTVWHPECF   35 (35)
T ss_dssp             CCCCCCCSCBCTTTCCBCCS----SCEEETTEEECTTTC
T ss_pred             CcHHHHhChhhhhcCCcccc----hheeecCCccCcccC
Confidence            36889999999999999998    789999999999998

>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=99.20  E-value=2.2e-12  Score=69.05  Aligned_cols=34  Identities=26%  Similarity=0.533  Sum_probs=33.1

Q ss_pred             cccCCCCCCCCCCCcccCCCeecchhhHHhhhcc
Q psy8131          13 FACVVCKTPIGTKSFIPREQEIYCANCYEEKFAT   46 (198)
Q Consensus        13 F~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~   46 (198)
                      |+|+.|+++|.+..|+++||++||+.||.++|+|
T Consensus         1 F~C~~C~~~f~~~~F~e~~G~pYCe~~Y~~lFAP   34 (35)
T d1g47a2           1 FVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAP   34 (35)
T ss_dssp             CCCTTTCCCCGGGCSEEETTEEECHHHHHHHCCC
T ss_pred             CCCCCCcCCCCCCCeEEECCEecChHhHHhhcCC
Confidence            8999999999999999999999999999999987

>d1x3ha1 g.39.1.3 (A:8-42) Leupaxin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Leupaxin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.14  E-value=2.9e-12  Score=68.69  Aligned_cols=35  Identities=26%  Similarity=0.683  Sum_probs=32.5

Q ss_pred             hhHHhhhcccccccccccccccccccccccCCcccccceeeeeeeeeeeccCceEeCCcCccccCC
Q psy8131          38 NCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECF  103 (198)
Q Consensus        38 ~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~H~~CF  103 (198)
                      +||.++|+|+|.+|++                               +|.+..|+|+|+.||++||
T Consensus         1 ~DY~~~fapkC~~C~~-------------------------------~I~g~~v~Al~~~wHpeCF   35 (35)
T d1x3ha1           1 KDFLAMFSPKCGGCNR-------------------------------PVLENYLSAMDTVWHPECF   35 (35)
T ss_dssp             CCCCCCCSCBCTTTCC-------------------------------BCCSSCEEETTEEECTTTC
T ss_pred             CcHHHHhChhhhhcCC-------------------------------cccchheeecCCccCcccC
Confidence            4788999999999999                               7889999999999999998

>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=98.98  E-value=6.3e-11  Score=63.22  Aligned_cols=34  Identities=29%  Similarity=0.647  Sum_probs=32.6

Q ss_pred             CCCccCcCCCCCCceeecCCcccchhhHhhhhcc
Q psy8131         103 FTCSNCSTSLAGQRFTSREDKPFCADCFGELFAK  136 (198)
Q Consensus       103 F~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~  136 (198)
                      |+|+.|+++|.+..|+++||++||+.||.++|+|
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            7999999999999999999999999999999987

>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=98.96  E-value=1.6e-10  Score=65.67  Aligned_cols=41  Identities=22%  Similarity=0.697  Sum_probs=38.5

Q ss_pred             ccCCCCCCCCCCCcccCCCeecchhhHHhhhcccccccccc
Q psy8131          14 ACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKT   54 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~   54 (198)
                      +|..|++.|++.+..++||+|||+.||.++|+|+..+.+..
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            58999999999999999999999999999999999988873

>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=98.95  E-value=8.1e-11  Score=63.13  Aligned_cols=37  Identities=30%  Similarity=0.790  Sum_probs=34.0

Q ss_pred             hhHhhhhccCCCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         128 DCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       128 ~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      +||.+.++++|.+|+++|.+  |++.|.+.|+.||.+||
T Consensus         1 kCy~~~~a~~C~~C~k~I~~--G~k~veykg~~WHe~CF   37 (37)
T d1x63a1           1 KCTTREDSPKCKGCFKAIVA--GDQNVEYKGTVWHKDCF   37 (37)
T ss_dssp             CCCSCCCSCBCSSSCCBCCS--SSCEEECSSCEEETTTC
T ss_pred             CccccccCcccccCCCccCC--CCeEeEeCCccchhccC
Confidence            47889999999999999986  57999999999999998

>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=98.94  E-value=9.9e-11  Score=60.88  Aligned_cols=35  Identities=34%  Similarity=0.932  Sum_probs=31.8

Q ss_pred             hhHhhhhccCCCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         128 DCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       128 ~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      +||+++|+++|..|+++|+.+    -|++.++.||.+||
T Consensus         1 PCyE~kfa~~C~~Ckk~It~G----GvtY~dqpWHkeCF   35 (35)
T d2cuqa2           1 PCYENKFAPRCARCSKTLTQG----GVTYRDQPWHRECL   35 (35)
T ss_dssp             CCCCCCSSCCCTTTCCCCCSC----CEESSSSEECTTTC
T ss_pred             CchHHHHHHHHhhcCCccccC----ceeecCCcchhhhC
Confidence            488999999999999999873    38999999999998

>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=98.93  E-value=6.1e-11  Score=61.68  Aligned_cols=35  Identities=63%  Similarity=1.504  Sum_probs=32.9

Q ss_pred             hhHHhhhcccccccccccccccccccccccCCcccccceeeeeeeeeeeccCceEeCCcCccccCC
Q psy8131          38 NCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECF  103 (198)
Q Consensus        38 ~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~H~~CF  103 (198)
                      .||+++|+++|..|++                               +|+.+.|++.++.||.+||
T Consensus         1 PCyE~kfa~~C~~Ckk-------------------------------~It~GGvtY~dqpWHkeCF   35 (35)
T d2cuqa2           1 PCYENKFAPRCARCSK-------------------------------TLTQGGVTYRDQPWHRECL   35 (35)
T ss_dssp             CCCCCCSSCCCTTTCC-------------------------------CCCSCCEESSSSEECTTTC
T ss_pred             CchHHHHHHHHhhcCC-------------------------------ccccCceeecCCcchhhhC
Confidence            4899999999999999                               7888999999999999998

>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=98.76  E-value=2.3e-09  Score=54.81  Aligned_cols=32  Identities=28%  Similarity=0.865  Sum_probs=30.1

Q ss_pred             ccCCCCCCCCCCCcccCCCeecchhhHHhhhc
Q psy8131          14 ACVVCKTPIGTKSFIPREQEIYCANCYEEKFA   45 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~   45 (198)
                      +|..|+++|.++.|+.+|++|||-.||..+|+
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            58999999999999999999999999999875

>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=98.72  E-value=2.2e-09  Score=59.32  Aligned_cols=28  Identities=29%  Similarity=0.729  Sum_probs=26.6

Q ss_pred             ccCCCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         135 AKRCYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       135 ~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      .|+|+.|+++|.+    ++|+|+|+.||++||
T Consensus        18 ~P~C~~C~~pI~g----~~vtAlgk~WHPEhF   45 (45)
T d2dara2          18 TPMCAHCNQVIRG----PFLVALGKSWHPEEF   45 (45)
T ss_dssp             CCBBSSSCCBCCS----CEEEETTEEECTTTC
T ss_pred             CeeccccCCcccC----ceeeecCCccCcCCC
Confidence            5899999999998    899999999999998

>d1x4la1 g.39.1.3 (A:8-36) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.69  E-value=3.4e-09  Score=52.20  Aligned_cols=29  Identities=66%  Similarity=1.614  Sum_probs=27.7

Q ss_pred             CCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         138 CYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       138 C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      |+.|.+||++.+|.++|++.++.||.+||
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            78999999998899999999999999998

>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=98.67  E-value=1.8e-09  Score=56.29  Aligned_cols=34  Identities=26%  Similarity=0.804  Sum_probs=29.3

Q ss_pred             hhHhhhhccCCCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         128 DCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       128 ~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      .||.. ...+|+.|+++|.+    +++.|.|+.|||.||
T Consensus         2 ~Cy~~-tlEkC~~C~~~I~d----riLrA~Gk~yHP~CF   35 (35)
T d2dloa1           2 GCYVA-TLEKCATCSQPILD----RILRAMGKAYHPGCF   35 (35)
T ss_dssp             CCCCS-SCCBCTTTCCBCCS----CCEEETTEEECTTTC
T ss_pred             hhHHH-HHHHHHHhchHHHH----HHHHHhCCCCCCCCC
Confidence            45543 36899999999997    899999999999998

>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=98.67  E-value=1.5e-09  Score=58.04  Aligned_cols=37  Identities=30%  Similarity=0.821  Sum_probs=31.8

Q ss_pred             hhHHhhhcccccccccccccccccccccccCCcccccceeeeeeeeeeeccCceEeCCcCccccCC
Q psy8131          38 NCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHRECF  103 (198)
Q Consensus        38 ~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~H~~CF  103 (198)
                      .||.+.++++|.+|+++|                             ...++.|.+.|+.||..||
T Consensus         1 kCy~~~~a~~C~~C~k~I-----------------------------~~G~k~veykg~~WHe~CF   37 (37)
T d1x63a1           1 KCTTREDSPKCKGCFKAI-----------------------------VAGDQNVEYKGTVWHKDCF   37 (37)
T ss_dssp             CCCSCCCSCBCSSSCCBC-----------------------------CSSSCEEECSSCEEETTTC
T ss_pred             CccccccCcccccCCCcc-----------------------------CCCCeEeEeCCccchhccC
Confidence            478899999999999965                             3446688999999999998

>d1ibia2 g.39.1.3 (A:145-175) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]

Probab=98.66  E-value=3.9e-09  Score=52.02  Aligned_cols=30  Identities=33%  Similarity=0.954  Sum_probs=28.7

Q ss_pred             cccCCCCCCCCCCCcccCCCeecchhhHHh
Q psy8131          13 FACVVCKTPIGTKSFIPREQEIYCANCYEE   42 (198)
Q Consensus        13 F~C~~C~~~L~~~~f~~~~g~~yC~~cy~~   42 (198)
                      |+|+.|++.|.+++...+||++||+.||.+
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            789999999999999999999999999975

>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=98.66  E-value=6.1e-09  Score=51.15  Aligned_cols=29  Identities=52%  Similarity=1.439  Sum_probs=27.8

Q ss_pred             CCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         138 CYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       138 C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      |.+|.+||++.+|.++|++.++.||.+||
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            78999999999899999999999999998

>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=98.65  E-value=4.3e-09  Score=52.64  Aligned_cols=32  Identities=28%  Similarity=0.932  Sum_probs=29.6

Q ss_pred             ccCCCCCCCCCCCcccCCCeecchhhHHhhhc
Q psy8131          14 ACVVCKTPIGTKSFIPREQEIYCANCYEEKFA   45 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~   45 (198)
                      .|..|++.|++++..++++++||+.||.++|+
T Consensus         1 lC~~C~K~LdStTva~h~~eiYCKsCygkkyg   32 (32)
T d1a7ia2           1 LCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYG   32 (32)
T ss_dssp             ECSSSCCEECSSCCEEETTEEECSHHHHHHCC
T ss_pred             CchhhhhccCcceeeeecceEEehhhccccCC
Confidence            37899999999999999999999999999874

>d1imla2 g.39.1.3 (A:29-76) Cysteine-rich (intestinal) protein, CRP, CRIP {Rat (Rattus rattus) [TaxId: 10117]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Rat (Rattus rattus) [TaxId: 10117]

Probab=98.63  E-value=6.5e-09  Score=58.18  Aligned_cols=39  Identities=21%  Similarity=0.532  Sum_probs=35.1

Q ss_pred             ccCCCCCCCCCCCcccCCCeecc-hhhHHhhhcccccccc
Q psy8131          14 ACVVCKTPIGTKSFIPREQEIYC-ANCYEEKFATRCVKCN   52 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~~~~g~~yC-~~cy~~~~~~~C~~C~   52 (198)
                      +|..|++.|++.+..++||+||| +.||.++|+|+-.+=+
T Consensus         1 kC~~C~K~L~sg~~aeHdg~pYC~k~CY~~~FGPkG~g~G   40 (48)
T d1imla2           1 KCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGFGRG   40 (48)
T ss_dssp             BCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCCCSSCC
T ss_pred             CchhcCcCcCCCChhhcCCcccccccchhhccCCCccccC
Confidence            58999999999999999999999 8899999999865544

>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=98.62  E-value=1.4e-08  Score=57.51  Aligned_cols=41  Identities=17%  Similarity=0.663  Sum_probs=37.6

Q ss_pred             CCccCcCCCCCCceeecCCcccchhhHhhhhccCCCCCCCC
Q psy8131         104 TCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKP  144 (198)
Q Consensus       104 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~~C~~~  144 (198)
                      +|..|++.|++....++|+++||+.||.++|+|+....+..
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            68999999998889999999999999999999999887643

>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=98.61  E-value=1e-08  Score=51.60  Aligned_cols=32  Identities=38%  Similarity=1.011  Sum_probs=30.2

Q ss_pred             ccCCCCCCCCCCCcccCCCeecchhhHHhhhc
Q psy8131          14 ACVVCKTPIGTKSFIPREQEIYCANCYEEKFA   45 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~   45 (198)
                      +|+.|+++|+++.|..+|++|||.+||.++|+
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            58999999999999999999999999999874

>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=98.61  E-value=6e-09  Score=56.47  Aligned_cols=34  Identities=32%  Similarity=0.777  Sum_probs=31.7

Q ss_pred             hhHhhhhccCCCCCCCCCcCCCCceEEeeCCCcccccC
Q psy8131         128 DCFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDC  165 (198)
Q Consensus       128 ~c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~C  165 (198)
                      .||.++|+.+|..|++.|++    ++|+|.+++|||+|
T Consensus         8 ~DYq~~fG~~C~~C~~~ItG----~V~~Ag~~~yHP~C   41 (41)
T d1v6ga1           8 LDYQRLYGTRCFSCDQFIEG----EVVSALGKTYHPDC   41 (41)
T ss_dssp             SCGGGSCCCBCTTTCCBCCS----CCEEETTEEECTTT
T ss_pred             ccHHHHhCcccccccCEeee----eeeEecCcccCCCC
Confidence            47899999999999999998    78999999999987

>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=98.60  E-value=1.3e-08  Score=51.89  Aligned_cols=32  Identities=47%  Similarity=1.159  Sum_probs=29.8

Q ss_pred             CCccCcCCCCCCceeecCCcccchhhHhhhhc
Q psy8131         104 TCSNCSTSLAGQRFTSREDKPFCADCFGELFA  135 (198)
Q Consensus       104 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~  135 (198)
                      .|..|+++|++++|.++|++|||..||..+|+
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            48899999999999999999999999999875

>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=98.59  E-value=1.6e-08  Score=51.88  Aligned_cols=30  Identities=27%  Similarity=0.555  Sum_probs=28.5

Q ss_pred             ccCCCCCCCCCCCcccCCCeecchhhHHhh
Q psy8131          14 ACVVCKTPIGTKSFIPREQEIYCANCYEEK   43 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~   43 (198)
                      +|..|.+|+.+..|++.||+|||+.+|.++
T Consensus         1 VC~~C~~PF~~~~Fy~~~g~PyCe~HyH~~   30 (32)
T d1x3ha2           1 VCGDCFTSFSTGSFFELDGRPFCELHYHHR   30 (32)
T ss_dssp             BCSSSCCBSCSSCCEESSSCEECHHHHHHH
T ss_pred             CcCccCCcCCCCCeEeECCccchHHhhhhh
Confidence            699999999999999999999999999876

>d1b8ta2 g.39.1.3 (A:36-100) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=98.58  E-value=1.3e-08  Score=60.89  Aligned_cols=41  Identities=27%  Similarity=0.670  Sum_probs=37.7

Q ss_pred             ccCCCCCCCCCCCcccCCCeecchhhHHhhhcccccccccc
Q psy8131          14 ACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKT   54 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~   54 (198)
                      .|..|++.|++.+..++++++||+.||.++|+|+-.+-+..
T Consensus         1 ~C~~C~K~LdS~~~~eh~~e~YCk~CY~k~fGPkG~G~G~g   41 (65)
T d1b8ta2           1 LCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMG   41 (65)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHHSCCCCCCCCC
T ss_pred             CchhcCCccCCCccccCCCcccchhhhccccCCCccccccc
Confidence            48999999999999999999999999999999998777763

>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=98.52  E-value=6.4e-09  Score=52.45  Aligned_cols=29  Identities=28%  Similarity=0.761  Sum_probs=26.2

Q ss_pred             hhccCCCCCCCCCcCCCCceEEeeCCCcccccC
Q psy8131         133 LFAKRCYSCKKPITGIGGTRFISFEDRHWHNDC  165 (198)
Q Consensus       133 ~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~C  165 (198)
                      .+.|+|+.|++||.+    ++|+|+|+.||+++
T Consensus         3 mg~p~C~~C~~PI~~----~~vtAlgk~WHpEH   31 (31)
T d1u5sb1           3 MGVPICGACRRPIEG----RVVNAMGKQWHVEH   31 (31)
T ss_dssp             CCCCEETTTTEECCS----CEECCTTSBEETTT
T ss_pred             cCCcchhhcCCchhh----hHhhhhccccCCCC
Confidence            457899999999998    89999999999975

>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=98.48  E-value=2.3e-08  Score=55.13  Aligned_cols=19  Identities=26%  Similarity=0.473  Sum_probs=18.1

Q ss_pred             eeccCceEeCCcCccccCC
Q psy8131          85 IITSGGVTYKNEPWHRECF  103 (198)
Q Consensus        85 ~i~~~~~~~~~~~~H~~CF  103 (198)
                      +|.+..|+++|+.|||+||
T Consensus        27 pI~g~~vtAlgk~WHPEhF   45 (45)
T d2dara2          27 VIRGPFLVALGKSWHPEEF   45 (45)
T ss_dssp             BCCSCEEEETTEEECTTTC
T ss_pred             cccCceeeecCCccCcCCC
Confidence            8899999999999999998

>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=98.48  E-value=4.9e-08  Score=49.04  Aligned_cols=32  Identities=63%  Similarity=1.389  Sum_probs=29.9

Q ss_pred             CCccCcCCCCCCceeecCCcccchhhHhhhhc
Q psy8131         104 TCSNCSTSLAGQRFTSREDKPFCADCFGELFA  135 (198)
Q Consensus       104 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~  135 (198)
                      .|+.|+++|++++|..+|.+|||..||.++|+
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            48999999999999999999999999998875

>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=98.44  E-value=7e-08  Score=48.68  Aligned_cols=32  Identities=34%  Similarity=0.869  Sum_probs=29.4

Q ss_pred             ccCCCCCCCCCCCcccCCCeecchhhHHhhhc
Q psy8131          14 ACVVCKTPIGTKSFIPREQEIYCANCYEEKFA   45 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~   45 (198)
                      .|+.|+.+|.+..|++.+|.+||+.||++-++
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            48999999999999999999999999998764

>d1x4ka1 g.39.1.3 (A:35-66) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.42  E-value=6.6e-08  Score=48.86  Aligned_cols=32  Identities=50%  Similarity=1.177  Sum_probs=30.1

Q ss_pred             ccCCCCCCCCCCCcccCCCeecchhhHHhhhc
Q psy8131          14 ACVVCKTPIGTKSFIPREQEIYCANCYEEKFA   45 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~   45 (198)
                      .|..|.+||..++|+.+|+..||..||+++|+
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            48899999999999999999999999999875

>d2d8ya2 g.39.1.3 (A:44-85) Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Eplin, LIMA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.40  E-value=8.7e-08  Score=52.41  Aligned_cols=34  Identities=18%  Similarity=0.615  Sum_probs=32.1

Q ss_pred             ccCCCCCCCCCCCcccCCCeecchhhHHhhhccc
Q psy8131          14 ACVVCKTPIGTKSFIPREQEIYCANCYEEKFATR   47 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~   47 (198)
                      +|+.|++.|+-.+|+..+|.+||+.||.++|.++
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            5899999999999999999999999999999876

>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=98.39  E-value=9.2e-08  Score=48.68  Aligned_cols=34  Identities=26%  Similarity=0.663  Sum_probs=32.1

Q ss_pred             cccCCCCCCCCCCCcccCCCeecchhhHHhhhcc
Q psy8131          13 FACVVCKTPIGTKSFIPREQEIYCANCYEEKFAT   46 (198)
Q Consensus        13 F~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~   46 (198)
                      |+|+.|.+|+-+...+++.|..||+.+|.++|+.
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            8999999999999999999999999999999863

>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=98.37  E-value=1.2e-07  Score=48.56  Aligned_cols=31  Identities=26%  Similarity=0.604  Sum_probs=28.6

Q ss_pred             CCccCcCCCCCCceeecCCcccchhhHhhhh
Q psy8131         104 TCSNCSTSLAGQRFTSREDKPFCADCFGELF  134 (198)
Q Consensus       104 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~  134 (198)
                      +|..|.+|+.+..|++.||+|||+.+|.++.
T Consensus         1 VC~~C~~PF~~~~Fy~~~g~PyCe~HyH~~~   31 (32)
T d1x3ha2           1 VCGDCFTSFSTGSFFELDGRPFCELHYHHRR   31 (32)
T ss_dssp             BCSSSCCBSCSSCCEESSSCEECHHHHHHHH
T ss_pred             CcCccCCcCCCCCeEeECCccchHHhhhhhc
Confidence            5899999999999999999999999998764

>d2dj7a1 g.39.1.3 (A:44-74) Actin-binding LIM protein 3, abLIM-3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 3, abLIM-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.32  E-value=1.6e-07  Score=47.12  Aligned_cols=31  Identities=23%  Similarity=0.678  Sum_probs=27.9

Q ss_pred             ccCCCCCCCCCCCcccCCCeecchhhHHhhhc
Q psy8131          14 ACVVCKTPIGTKSFIPREQEIYCANCYEEKFA   45 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~   45 (198)
                      +|..|++.|.+ .|..+||.|||+.||..+|+
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            58999999986 78899999999999998874

>d1wyha1 g.39.1.3 (A:35-66) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.30  E-value=1.8e-07  Score=47.18  Aligned_cols=32  Identities=47%  Similarity=1.169  Sum_probs=30.0

Q ss_pred             ccCCCCCCCCCCCcccCCCeecchhhHHhhhc
Q psy8131          14 ACVVCKTPIGTKSFIPREQEIYCANCYEEKFA   45 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~   45 (198)
                      .|..|.+|+..++|+.+++..||..||+++|+
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            48899999999999999999999999999875

>d1imla2 g.39.1.3 (A:29-76) Cysteine-rich (intestinal) protein, CRP, CRIP {Rat (Rattus rattus) [TaxId: 10117]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Rat (Rattus rattus) [TaxId: 10117]

Probab=98.30  E-value=1.7e-07  Score=52.37  Aligned_cols=36  Identities=25%  Similarity=0.856  Sum_probs=32.6

Q ss_pred             CCccCcCCCCCCceeecCCcccc-hhhHhhhhccCCC
Q psy8131         104 TCSNCSTSLAGQRFTSREDKPFC-ADCFGELFAKRCY  139 (198)
Q Consensus       104 ~C~~C~~~l~~~~~~~~~g~~yC-~~c~~~~~~~~C~  139 (198)
                      +|..|++.|++....++|++||| +.||.++|+|+=.
T Consensus         1 kC~~C~K~L~sg~~aeHdg~pYC~k~CY~~~FGPkG~   37 (48)
T d1imla2           1 KCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGF   37 (48)
T ss_dssp             BCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCCCS
T ss_pred             CchhcCcCcCCCChhhcCCcccccccchhhccCCCcc
Confidence            68999999999999999999999 7799999998643

>d2dj7a1 g.39.1.3 (A:44-74) Actin-binding LIM protein 3, abLIM-3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 3, abLIM-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.29  E-value=1.8e-07  Score=46.88  Aligned_cols=31  Identities=29%  Similarity=0.846  Sum_probs=28.1

Q ss_pred             CCccCcCCCCCCceeecCCcccchhhHhhhhc
Q psy8131         104 TCSNCSTSLAGQRFTSREDKPFCADCFGELFA  135 (198)
Q Consensus       104 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~  135 (198)
                      +|..|++.|.++ +..+||.|||+.+|...|+
T Consensus         1 kC~~C~~vL~gE-Ym~kdG~PyCe~DY~~~FG   31 (31)
T d2dj7a1           1 KCQTCSVILTGE-YISKDGVPYCESDYHAQFG   31 (31)
T ss_dssp             BCSSSCCBCSSC-CEEETTEEECTTHHHHHTT
T ss_pred             CccccCccccce-eecCCCCcccHHHHHHhcC
Confidence            589999999887 9999999999999998874

>d2d8ya2 g.39.1.3 (A:44-85) Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Eplin, LIMA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.25  E-value=2.8e-07  Score=50.32  Aligned_cols=34  Identities=26%  Similarity=0.663  Sum_probs=31.5

Q ss_pred             CCccCcCCCCCCceeecCCcccchhhHhhhhccC
Q psy8131         104 TCSNCSTSLAGQRFTSREDKPFCADCFGELFAKR  137 (198)
Q Consensus       104 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~  137 (198)
                      +|+.|++.|....|...+|.+||++||.++|.++
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            6999999998888999999999999999999765

>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=98.24  E-value=1.8e-07  Score=50.54  Aligned_cols=34  Identities=26%  Similarity=0.669  Sum_probs=31.6

Q ss_pred             hhHHhhhcccccccccccccccccccccccCCcccccceeeeeeeeeeeccCceEeCCcCccccC
Q psy8131          38 NCYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHREC  102 (198)
Q Consensus        38 ~cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~H~~C  102 (198)
                      .||.++|+.+|..|++                               .|++..|++.++.|||.|
T Consensus         8 ~DYq~~fG~~C~~C~~-------------------------------~ItG~V~~Ag~~~yHP~C   41 (41)
T d1v6ga1           8 LDYQRLYGTRCFSCDQ-------------------------------FIEGEVVSALGKTYHPDC   41 (41)
T ss_dssp             SCGGGSCCCBCTTTCC-------------------------------BCCSCCEEETTEEECTTT
T ss_pred             ccHHHHhCcccccccC-------------------------------EeeeeeeEecCcccCCCC
Confidence            4799999999999999                               789999999999999987

>d1ibia2 g.39.1.3 (A:145-175) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]

Probab=98.20  E-value=1.7e-07  Score=46.01  Aligned_cols=30  Identities=30%  Similarity=0.920  Sum_probs=28.0

Q ss_pred             CCCccCcCCCCCCceeecCCcccchhhHhh
Q psy8131         103 FTCSNCSTSLAGQRFTSREDKPFCADCFGE  132 (198)
Q Consensus       103 F~C~~C~~~l~~~~~~~~~g~~yC~~c~~~  132 (198)
                      |+|+.|++.|.+.....+||.+||+.||.+
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            789999999999889999999999999965

>d1x6aa1 g.39.1.3 (A:8-41) Lim domain kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Lim domain kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.20  E-value=1.4e-07  Score=48.10  Aligned_cols=33  Identities=24%  Similarity=0.576  Sum_probs=30.2

Q ss_pred             hHhhhhccCCCCCCCCCcCCCCceEEeeCCCcccccC
Q psy8131         129 CFGELFAKRCYSCKKPITGIGGTRFISFEDRHWHNDC  165 (198)
Q Consensus       129 c~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~C  165 (198)
                      +|..+|+..|..|.+.|++    .++.|.+.+|||+|
T Consensus         2 dYw~kfge~C~~C~~~itG----pvMvAG~~K~HPEC   34 (34)
T d1x6aa1           2 DYWGKFGEFCHGCSLLMTG----PFMVAGEFKYHPEC   34 (34)
T ss_dssp             CSSCCSSCBCTTTCCBCCS----CCBCCTTCCBCTTS
T ss_pred             cHHHHHHHHhhhhHhhccc----ceeeecccccCCCC
Confidence            5788999999999999987    68899999999998

>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=98.17  E-value=1.8e-07  Score=48.60  Aligned_cols=19  Identities=21%  Similarity=0.385  Sum_probs=17.9

Q ss_pred             eeccCceEeCCcCccccCC
Q psy8131          85 IITSGGVTYKNEPWHRECF  103 (198)
Q Consensus        85 ~i~~~~~~~~~~~~H~~CF  103 (198)
                      +|.+..+.+.|+.|||.||
T Consensus        17 ~I~driLrA~Gk~yHP~CF   35 (35)
T d2dloa1          17 PILDRILRAMGKAYHPGCF   35 (35)
T ss_dssp             BCCSCCEEETTEEECTTTC
T ss_pred             HHHHHHHHHhCCCCCCCCC
Confidence            7889999999999999998

>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=98.15  E-value=6.8e-07  Score=45.42  Aligned_cols=34  Identities=26%  Similarity=0.812  Sum_probs=31.6

Q ss_pred             CCCccCcCCCCCCceeecCCcccchhhHhhhhcc
Q psy8131         103 FTCSNCSTSLAGQRFTSREDKPFCADCFGELFAK  136 (198)
Q Consensus       103 F~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~  136 (198)
                      |+|+.|.+|+-+.+.+++.|..||+.+|.++|+.
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            7899999999888899999999999999999864

>d1x4ka1 g.39.1.3 (A:35-66) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.14  E-value=7e-07  Score=45.02  Aligned_cols=32  Identities=22%  Similarity=0.804  Sum_probs=29.7

Q ss_pred             CCccCcCCCCCCceeecCCcccchhhHhhhhc
Q psy8131         104 TCSNCSTSLAGQRFTSREDKPFCADCFGELFA  135 (198)
Q Consensus       104 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~  135 (198)
                      .|..|++||+..+|..+++..||..||++.|+
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            48899999999999999999999999999875

>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=98.12  E-value=2e-07  Score=46.88  Aligned_cols=18  Identities=28%  Similarity=0.364  Sum_probs=16.3

Q ss_pred             eeccCceEeCCcCccccC
Q psy8131          85 IITSGGVTYKNEPWHREC  102 (198)
Q Consensus        85 ~i~~~~~~~~~~~~H~~C  102 (198)
                      +|.++.++++|+.||+++
T Consensus        14 PI~~~~vtAlgk~WHpEH   31 (31)
T d1u5sb1          14 PIEGRVVNAMGKQWHVEH   31 (31)
T ss_dssp             ECCSCEECCTTSBEETTT
T ss_pred             chhhhHhhhhccccCCCC
Confidence            788999999999999974

>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=98.12  E-value=9.4e-07  Score=44.45  Aligned_cols=32  Identities=25%  Similarity=0.764  Sum_probs=28.9

Q ss_pred             CCccCcCCCCCCceeecCCcccchhhHhhhhc
Q psy8131         104 TCSNCSTSLAGQRFTSREDKPFCADCFGELFA  135 (198)
Q Consensus       104 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~  135 (198)
                      .|+.|+.+|.+..|++.+|.+||+.||.+-|+
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            48899999999999999999999999988654

>d1wyha1 g.39.1.3 (A:35-66) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.11  E-value=8.7e-07  Score=44.58  Aligned_cols=32  Identities=28%  Similarity=0.812  Sum_probs=29.6

Q ss_pred             CCccCcCCCCCCceeecCCcccchhhHhhhhc
Q psy8131         104 TCSNCSTSLAGQRFTSREDKPFCADCFGELFA  135 (198)
Q Consensus       104 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~  135 (198)
                      .|..|.+|++.++|..+++..||.+||+++|+
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            37899999999999999999999999999875

>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=98.09  E-value=1e-06  Score=44.48  Aligned_cols=32  Identities=19%  Similarity=0.616  Sum_probs=28.6

Q ss_pred             ccCCCCCCCCCCCcccCCCeecch-hhHHhhhc
Q psy8131          14 ACVVCKTPIGTKSFIPREQEIYCA-NCYEEKFA   45 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~~~~g~~yC~-~cy~~~~~   45 (198)
                      +|..|++.|......++||+|||. .||..+|+
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            589999999999999999999995 59988764

>d1b8ta2 g.39.1.3 (A:36-100) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=98.07  E-value=1e-06  Score=52.57  Aligned_cols=37  Identities=19%  Similarity=0.621  Sum_probs=33.7

Q ss_pred             CCccCcCCCCCCceeecCCcccchhhHhhhhccCCCC
Q psy8131         104 TCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYS  140 (198)
Q Consensus       104 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~~  140 (198)
                      .|..|++.|++....++++++||+.||.++|+|+=..
T Consensus         1 ~C~~C~K~LdS~~~~eh~~e~YCk~CY~k~fGPkG~G   37 (65)
T d1b8ta2           1 LCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKG   37 (65)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHHSCCCCC
T ss_pred             CchhcCCccCCCccccCCCcccchhhhccccCCCccc
Confidence            4889999999999999999999999999999998654

>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=98.06  E-value=1.2e-06  Score=43.42  Aligned_cols=29  Identities=31%  Similarity=0.951  Sum_probs=27.3

Q ss_pred             ccCCCCCCCCCCCcccCCCeecchhhHHh
Q psy8131          14 ACVVCKTPIGTKSFIPREQEIYCANCYEE   42 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~~~~g~~yC~~cy~~   42 (198)
                      +|..|.++|+++.|..+|+++||-+||+.
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            58999999999999999999999999975

>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=98.03  E-value=1.2e-06  Score=41.88  Aligned_cols=27  Identities=44%  Similarity=1.093  Sum_probs=24.4

Q ss_pred             CCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         138 CYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       138 C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      |..|.+.|.+  |.+-+.+.|+.||..||
T Consensus         1 C~~C~ktiMP--GsrKme~kG~~WHEtCF   27 (27)
T d1x4ka2           1 CQECKKTIMP--GTRKMEYKGSSWHETCF   27 (27)
T ss_dssp             BSSSCCCCCS--SSCEEEETTEEEETTTT
T ss_pred             CccccccccC--CceeecccCCccccccC
Confidence            7889999998  46889999999999998

>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=97.93  E-value=1.8e-06  Score=43.65  Aligned_cols=29  Identities=21%  Similarity=0.553  Sum_probs=26.0

Q ss_pred             cCCCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         136 KRCYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       136 ~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      -.|++|++.|.+.  |.++.|.++.||.+||
T Consensus         3 g~Ca~C~~~I~~~--e~VmRA~~~VyHl~CF   31 (31)
T d1rutx3           3 GACSACGQSIPAS--ELVMRAQGNVYHLKCF   31 (31)
T ss_dssp             EECTTTCCEECTT--SEEEEETTEEECGGGC
T ss_pred             cccccccCcCChh--HhheecccceeeeccC
Confidence            3699999999874  6899999999999998

>d1wyha2 g.39.1.3 (A:8-34) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.93  E-value=2.5e-06  Score=40.68  Aligned_cols=27  Identities=30%  Similarity=1.004  Sum_probs=24.4

Q ss_pred             CCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         138 CYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       138 C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      |..|.+.|.+  |.+-+.+.|+.||..||
T Consensus         1 C~~C~ktiMP--GsrKmey~G~sWHE~CF   27 (27)
T d1wyha2           1 CSACGETVMP--GSRKLEYGGQTWHEHCF   27 (27)
T ss_dssp             CSSSCCBCCS--SSCEECSTTCCEETTTC
T ss_pred             CccccceecC--CcccccccCcccccccC
Confidence            7889999987  46889999999999998

>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=97.91  E-value=2.7e-06  Score=42.19  Aligned_cols=29  Identities=28%  Similarity=0.846  Sum_probs=27.0

Q ss_pred             ccCCCCCCCCCCCcccCCCeecchhhHHh
Q psy8131          14 ACVVCKTPIGTKSFIPREQEIYCANCYEE   42 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~~~~g~~yC~~cy~~   42 (198)
                      +|..|+..|.++.|+..+.+.||+.||-.
T Consensus         1 vC~tC~~kLRGqpFYAvekkayCE~CYi~   29 (32)
T d1x61a2           1 VCSTCRAQLRGQHFYAVERRAYCEGCYVA   29 (32)
T ss_dssp             BCSSSCCBCTTSCEEESSSCEEEHHHHHH
T ss_pred             CeeEeCceecCCcceEeeccccccceeee
Confidence            58999999999999999999999999964

>d2dloa2 g.39.1.3 (A:43-75) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.91  E-value=3.5e-06  Score=42.96  Aligned_cols=32  Identities=31%  Similarity=0.676  Sum_probs=28.9

Q ss_pred             ccCCCCCCCCCCCcc-cCCCeecchhhHHhhhc
Q psy8131          14 ACVVCKTPIGTKSFI-PREQEIYCANCYEEKFA   45 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~-~~~g~~yC~~cy~~~~~   45 (198)
                      +|..|++.|++..|. ..++++||-+||.++|+
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            589999999999996 67899999999999875

>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=97.86  E-value=4.2e-06  Score=42.15  Aligned_cols=32  Identities=34%  Similarity=0.924  Sum_probs=28.1

Q ss_pred             CCccCcCCCCCCceeecCCcccch-hhHhhhhc
Q psy8131         104 TCSNCSTSLAGQRFTSREDKPFCA-DCFGELFA  135 (198)
Q Consensus       104 ~C~~C~~~l~~~~~~~~~g~~yC~-~c~~~~~~  135 (198)
                      +|..|++.|+.....+.||+|||. +||..+|+
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            589999999888899999999995 59988764

>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=97.82  E-value=5.9e-06  Score=40.82  Aligned_cols=29  Identities=52%  Similarity=1.130  Sum_probs=26.8

Q ss_pred             CCccCcCCCCCCceeecCCcccchhhHhh
Q psy8131         104 TCSNCSTSLAGQRFTSREDKPFCADCFGE  132 (198)
Q Consensus       104 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~  132 (198)
                      +|..|+++|++.+|...++++||-+||..
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

>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=97.81  E-value=4e-06  Score=41.00  Aligned_cols=16  Identities=25%  Similarity=1.043  Sum_probs=14.3

Q ss_pred             cCceEeCCcCccccCC
Q psy8131          88 SGGVTYKNEPWHRECF  103 (198)
Q Consensus        88 ~~~~~~~~~~~H~~CF  103 (198)
                      +.+|.+.+++||.+||
T Consensus        14 ~kyisFE~R~WH~~CF   29 (29)
T d1x4la1          14 TKYISFEERQWHNDCF   29 (29)
T ss_dssp             CSCEECSSCEECTTTC
T ss_pred             ceEEEeecccccccCC
Confidence            4588999999999998

>d2dloa2 g.39.1.3 (A:43-75) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.78  E-value=8.8e-06  Score=41.45  Aligned_cols=32  Identities=34%  Similarity=0.633  Sum_probs=28.5

Q ss_pred             CCccCcCCCCCCceeec-CCcccchhhHhhhhc
Q psy8131         104 TCSNCSTSLAGQRFTSR-EDKPFCADCFGELFA  135 (198)
Q Consensus       104 ~C~~C~~~l~~~~~~~~-~g~~yC~~c~~~~~~  135 (198)
                      .|..|++.|++.+|.++ ++++||-++|.++|+
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            48899999999999977 599999999999875

>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=97.76  E-value=6.3e-06  Score=42.31  Aligned_cols=28  Identities=32%  Similarity=0.761  Sum_probs=25.0

Q ss_pred             cCCCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         136 KRCYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       136 ~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      ..|++|++.|..+   +.+.|+++.||.+||
T Consensus         9 ~~CagCg~eik~g---QaL~ALdkqWH~~CF   36 (36)
T d2dj7a2           9 SHCAGCKEEIKHG---QSLLALDKQWHVSCF   36 (36)
T ss_dssp             SCCTTTCCCCSSS---CCEEETTEEECTTTC
T ss_pred             ccccccchhhhCC---ceeeeeecceeeeeC
Confidence            4799999999874   778999999999998

>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=97.76  E-value=7.2e-06  Score=41.64  Aligned_cols=28  Identities=36%  Similarity=0.876  Sum_probs=25.9

Q ss_pred             ccCCCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         135 AKRCYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       135 ~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      -|.|.+|+..|.+    .++.++++.+|++||
T Consensus         8 lp~CdkCg~GIVG----~~VK~rDk~rHPeCf   35 (35)
T d1x62a2           8 LPMCDKCGTGIVG----VFVKLRDRHRHPECY   35 (35)
T ss_dssp             CCCCSSSCCCCCS----SCEECSSCEECTTTT
T ss_pred             CccccccCCCcEe----EEEEeccccCCCCCC
Confidence            3889999999998    689999999999998

>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=97.73  E-value=7.5e-06  Score=41.02  Aligned_cols=28  Identities=32%  Similarity=0.721  Sum_probs=24.5

Q ss_pred             cCCCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         136 KRCYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       136 ~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      ..|++|+++|.+.   -++.+.++.||..|.
T Consensus         3 ~~CaGC~~~I~DR---flL~v~dr~WH~~CL   30 (30)
T d1rutx1           3 KRCAGCGGKIADR---FLLYAMDSYWHSRCL   30 (30)
T ss_dssp             CBBTTTCCBCCCS---EEEEETTEEECGGGC
T ss_pred             cccCCCCCccchh---hhhccchhhhhhhhC
Confidence            5799999999985   668999999999884

>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=97.68  E-value=7e-06  Score=40.76  Aligned_cols=31  Identities=19%  Similarity=0.753  Sum_probs=28.3

Q ss_pred             CccCcCCCCCCceeecCCcccchhhHhhhhc
Q psy8131         105 CSNCSTSLAGQRFTSREDKPFCADCFGELFA  135 (198)
Q Consensus       105 C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~  135 (198)
                      |..|++.|++....++++.+||+.||.++++
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            7889999999989999999999999988764

>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=97.67  E-value=1.4e-05  Score=39.85  Aligned_cols=27  Identities=33%  Similarity=0.792  Sum_probs=23.9

Q ss_pred             cCCCCCCCCCcCCCCceEEeeCCCcccccC
Q psy8131         136 KRCYSCKKPITGIGGTRFISFEDRHWHNDC  165 (198)
Q Consensus       136 ~~C~~C~~~I~~~~~~~~~~~~~~~~H~~C  165 (198)
                      ..|++|+++|.+.   -++.+.++.||..|
T Consensus         4 ~~CaGC~~~I~DR---flL~a~Dr~WH~~C   30 (30)
T d1j2oa1           4 LTCGGCQQNIGDR---YFLKAIDQYWHEDC   30 (30)
T ss_dssp             BCBSSSCSCBCSS---EEEECSSSEECTTT
T ss_pred             cccCCCCCcchHH---HHHHHHHHHHhcCC
Confidence            5799999999985   67899999999987

>d1x63a2 g.39.1.3 (A:45-76) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.66  E-value=1.5e-05  Score=38.95  Aligned_cols=32  Identities=50%  Similarity=1.084  Sum_probs=29.6

Q ss_pred             ccCCCCCCCCCCCcccCCCeecchhhHHhhhc
Q psy8131          14 ACVVCKTPIGTKSFIPREQEIYCANCYEEKFA   45 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~   45 (198)
                      +|+.|++.+.+.+|+.++...||..|++.+|+
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            58999999999999999999999999998874

>d2d8ya1 g.39.1.3 (A:9-43) Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Eplin, LIMA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.65  E-value=1.3e-05  Score=41.85  Aligned_cols=29  Identities=21%  Similarity=0.599  Sum_probs=25.9

Q ss_pred             ccCCCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         135 AKRCYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       135 ~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      .++|..|++.+...   +.+.+.|+.||..||
T Consensus         7 ~~kC~~C~K~VY~~---E~~~a~g~~~Hk~CF   35 (35)
T d2d8ya1           7 RETCVECQKTVYPM---ERLLANQQVFHISCF   35 (35)
T ss_dssp             SCBCTTTCCBCCTT---SEEECSSSEEETTTC
T ss_pred             CcccccCCCEEeee---eeEecCCeehhhccC
Confidence            57899999999885   668999999999998

>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=97.62  E-value=1.2e-05  Score=43.51  Aligned_cols=28  Identities=29%  Similarity=0.661  Sum_probs=26.0

Q ss_pred             ccCCCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         135 AKRCYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       135 ~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      -|.|.+|+..|.+    .+|.++++.+|++||
T Consensus        18 LP~CdkCg~GIVG----~~VK~rDK~rHPeCf   45 (45)
T d1x64a1          18 MPLCDKCGSGIVG----AVVKARDKYRHPECF   45 (45)
T ss_dssp             CCBCTTTCCBCCS----CCEESSSCEECTTTC
T ss_pred             CccccccCCCcEE----EEEEeccccCCCCCC
Confidence            3889999999998    789999999999998

>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=97.58  E-value=1.8e-05  Score=39.38  Aligned_cols=29  Identities=28%  Similarity=0.623  Sum_probs=24.8

Q ss_pred             ccCCCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         135 AKRCYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       135 ~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      +++|++|++++...   +-+...|+.||..|+
T Consensus         2 ~~~CprC~K~VYfa---Ek~~~lgk~WHk~Cl   30 (30)
T d2cu8a1           2 ASKCPKCDKTVYFA---EKVSSLGKDWHKFCL   30 (30)
T ss_dssp             CCBCTTTCCBCCTT---TEEEETTEEEETTTC
T ss_pred             CCcCCCCCCceeeH---HhhccCCcccccccC
Confidence            57899999999874   557889999999884

>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=97.54  E-value=2.6e-05  Score=38.53  Aligned_cols=30  Identities=33%  Similarity=0.875  Sum_probs=27.2

Q ss_pred             CCccCcCCCCCCceeecCCcccchhhHhhh
Q psy8131         104 TCSNCSTSLAGQRFTSREDKPFCADCFGEL  133 (198)
Q Consensus       104 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~  133 (198)
                      .|..|+..|.++.|+..+.+.||+.||...
T Consensus         1 vC~tC~~kLRGqpFYAvekkayCE~CYi~t   30 (32)
T d1x61a2           1 VCSTCRAQLRGQHFYAVERRAYCEGCYVAT   30 (32)
T ss_dssp             BCSSSCCBCTTSCEEESSSCEEEHHHHHHH
T ss_pred             CeeEeCceecCCcceEeeccccccceeeee
Confidence            488999999999999999999999999653

>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=97.53  E-value=1.1e-05  Score=39.31  Aligned_cols=16  Identities=31%  Similarity=1.005  Sum_probs=14.1

Q ss_pred             cCceEeCCcCccccCC
Q psy8131          88 SGGVTYKNEPWHRECF  103 (198)
Q Consensus        88 ~~~~~~~~~~~H~~CF  103 (198)
                      ..+|.+.+++||.+||
T Consensus        14 ~k~isFedR~WH~~CF   29 (29)
T d1x68a1          14 AKFICFQDSQWHSECF   29 (29)
T ss_dssp             CCEEEETTEEEEGGGC
T ss_pred             ceEEEeehhhcccccC
Confidence            4588999999999998

>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=97.52  E-value=1.8e-05  Score=41.48  Aligned_cols=29  Identities=17%  Similarity=0.547  Sum_probs=25.5

Q ss_pred             ccCCCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         135 AKRCYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       135 ~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      ..+|..|++.+...   +.+.+.|+.||..||
T Consensus         8 ~~~C~~C~K~VY~~---Erl~a~g~~yHk~CF   36 (36)
T d2co8a2           8 GDLCALCGEHLYVL---ERLCVNGHFFHRSCF   36 (36)
T ss_dssp             SCBCSSSCCBCCTT---TBCCBTTBCCBTTTC
T ss_pred             CCcccccCCEEeee---eEEEecCcEeccccC
Confidence            47899999999884   557899999999998

>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=97.51  E-value=1.8e-05  Score=40.56  Aligned_cols=19  Identities=26%  Similarity=0.662  Sum_probs=16.3

Q ss_pred             eeccCceEeCCcCccccCC
Q psy8131          85 IITSGGVTYKNEPWHRECF  103 (198)
Q Consensus        85 ~i~~~~~~~~~~~~H~~CF  103 (198)
                      +-.++.+.+++++||.+||
T Consensus        18 ik~gQaL~ALdkqWH~~CF   36 (36)
T d2dj7a2          18 IKHGQSLLALDKQWHVSCF   36 (36)
T ss_dssp             CSSSCCEEETTEEECTTTC
T ss_pred             hhCCceeeeeecceeeeeC
Confidence            3457789999999999998

>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=97.47  E-value=4.6e-05  Score=37.56  Aligned_cols=30  Identities=23%  Similarity=0.588  Sum_probs=26.9

Q ss_pred             ccCCCCCCCCCCCcccCCCeecchhhHHhh
Q psy8131          14 ACVVCKTPIGTKSFIPREQEIYCANCYEEK   43 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~   43 (198)
                      +|+.|+.+|..+.++..++++||+.+...+
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            589999999999999999999999987653

>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=97.46  E-value=1.7e-05  Score=38.95  Aligned_cols=29  Identities=28%  Similarity=0.718  Sum_probs=25.0

Q ss_pred             ccCCCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         135 AKRCYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       135 ~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      .+.|++|++.+.+.   +-+.-.++.||..||
T Consensus         2 n~~CaRC~k~VYp~---Ekl~ClDk~WHK~CF   30 (30)
T d1zfoa_           2 NPNCARCGKIVYPT---EKVNCLDKFWHKACF   30 (30)
T ss_dssp             CCBCSSSCSBCCGG---GCCCSSSSCCCGGGC
T ss_pred             CCcccccCCccccH---HHhhhhHHHHhhccC
Confidence            47899999999874   457889999999998

>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=97.45  E-value=1.5e-05  Score=43.83  Aligned_cols=29  Identities=21%  Similarity=0.663  Sum_probs=25.0

Q ss_pred             ccCCCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         135 AKRCYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       135 ~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      +++|..|++.+...   +.+.+.|+.||..||
T Consensus        15 ~~kC~~C~k~VY~~---E~~~~~g~~~Hk~CF   43 (43)
T d1b8ta3          15 SDGCPRCGQAVYAA---EKVIGAGKSWHKSCF   43 (43)
T ss_dssp             CEECTTTSCEECSS---SCEEETTEEECTTTC
T ss_pred             CCcCccCCCEeeHH---HHhhcCCCccccCCC
Confidence            47899999999874   456899999999998

>d1wiga1 g.39.1.3 (A:1-32) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.43  E-value=3e-05  Score=38.24  Aligned_cols=26  Identities=42%  Similarity=0.938  Sum_probs=23.8

Q ss_pred             cCCCCCCCCCcCCCCceEEeeCCCcccccC
Q psy8131         136 KRCYSCKKPITGIGGTRFISFEDRHWHNDC  165 (198)
Q Consensus       136 ~~C~~C~~~I~~~~~~~~~~~~~~~~H~~C  165 (198)
                      .-|..|.+.|++    +++++.++.|||.|
T Consensus         6 sgC~~C~~~ItG----kVLEAG~khYHP~C   31 (32)
T d1wiga1           6 SGCDSCEKYITG----RVLEAGEKHYHPSC   31 (32)
T ss_dssp             CSCSSSCCCCSS----CCBCCSSCCBCTTT
T ss_pred             chhhhhhhhhhh----hhhhccccccCCCC
Confidence            469999999998    78999999999987

>d1x4ka2 g.39.1.3 (A:8-34) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.41  E-value=2.9e-05  Score=36.98  Aligned_cols=19  Identities=32%  Similarity=0.889  Sum_probs=15.7

Q ss_pred             eeccCceEeCCcCccccCC
Q psy8131          85 IITSGGVTYKNEPWHRECF  103 (198)
Q Consensus        85 ~i~~~~~~~~~~~~H~~CF  103 (198)
                      ....+.+.+.|..||..||
T Consensus         9 MPGsrKme~kG~~WHEtCF   27 (27)
T d1x4ka2           9 MPGTRKMEYKGSSWHETCF   27 (27)
T ss_dssp             CSSSCEEEETTEEEETTTT
T ss_pred             cCCceeecccCCccccccC
Confidence            3445678999999999998

>d1x63a2 g.39.1.3 (A:45-76) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.22  E-value=0.00013  Score=35.59  Aligned_cols=32  Identities=31%  Similarity=0.756  Sum_probs=28.8

Q ss_pred             CCccCcCCCCCCceeecCCcccchhhHhhhhc
Q psy8131         104 TCSNCSTSLAGQRFTSREDKPFCADCFGELFA  135 (198)
Q Consensus       104 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~  135 (198)
                      .|+.|++.+++.+|+.+...+||-.|++.+|+
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            48999999998899999999999999988764

>d1x6aa1 g.39.1.3 (A:8-41) Lim domain kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Lim domain kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.20  E-value=3.1e-05  Score=39.24  Aligned_cols=33  Identities=27%  Similarity=0.466  Sum_probs=28.6

Q ss_pred             hHHhhhcccccccccccccccccccccccCCcccccceeeeeeeeeeeccCceEeCCcCccccC
Q psy8131          39 CYEEKFATRCVKCNKTFFRLREKGTFQSHSGRINKVYSILFYFLFQIITSGGVTYKNEPWHREC  102 (198)
Q Consensus        39 cy~~~~~~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~H~~C  102 (198)
                      +|-.+|+..|..|.+                               +|++..+++....|||+|
T Consensus         2 dYw~kfge~C~~C~~-------------------------------~itGpvMvAG~~K~HPEC   34 (34)
T d1x6aa1           2 DYWGKFGEFCHGCSL-------------------------------LMTGPFMVAGEFKYHPEC   34 (34)
T ss_dssp             CSSCCSSCBCTTTCC-------------------------------BCCSCCBCCTTCCBCTTS
T ss_pred             cHHHHHHHHhhhhHh-------------------------------hcccceeeecccccCCCC
Confidence            566778889999998                               888888999999999987

>d1wyha2 g.39.1.3 (A:8-34) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.19  E-value=5.1e-05  Score=36.03  Aligned_cols=19  Identities=32%  Similarity=0.859  Sum_probs=15.3

Q ss_pred             eeccCceEeCCcCccccCC
Q psy8131          85 IITSGGVTYKNEPWHRECF  103 (198)
Q Consensus        85 ~i~~~~~~~~~~~~H~~CF  103 (198)
                      +...+.+.+.|..||..||
T Consensus         9 MPGsrKmey~G~sWHE~CF   27 (27)
T d1wyha2           9 MPGSRKLEYGGQTWHEHCF   27 (27)
T ss_dssp             CSSSCEECSTTCCEETTTC
T ss_pred             cCCcccccccCcccccccC
Confidence            3445678899999999998

>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=97.19  E-value=0.0001  Score=34.84  Aligned_cols=27  Identities=37%  Similarity=1.139  Sum_probs=22.5

Q ss_pred             CCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         138 CYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       138 C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      |..|.+||...  .+-+-..++.||..||
T Consensus         1 c~ecrkpigad--~ke~h~knr~wh~~cf   27 (27)
T d2cupa3           1 CVECRKPIGAD--SKEVHYKNRFWHDTCF   27 (27)
T ss_dssp             CSSSCCBCCSS--SCEEEETTEEEETTTC
T ss_pred             CccccCCcCcc--hHHhhccccccccccC
Confidence            77899999652  3667899999999998

>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=97.07  E-value=0.00011  Score=34.75  Aligned_cols=16  Identities=56%  Similarity=1.105  Sum_probs=13.6

Q ss_pred             cCceEeCCcCccccCC
Q psy8131          88 SGGVTYKNEPWHRECF  103 (198)
Q Consensus        88 ~~~~~~~~~~~H~~CF  103 (198)
                      ...+.+.++.||..||
T Consensus        12 ~ke~h~knr~wh~~cf   27 (27)
T d2cupa3          12 SKEVHYKNRFWHDTCF   27 (27)
T ss_dssp             SCEEEETTEEEETTTC
T ss_pred             hHHhhccccccccccC
Confidence            3467899999999998

>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=97.06  E-value=0.0001  Score=36.75  Aligned_cols=19  Identities=21%  Similarity=0.462  Sum_probs=15.1

Q ss_pred             eeccCc-eEeCCcCccccCC
Q psy8131          85 IITSGG-VTYKNEPWHRECF  103 (198)
Q Consensus        85 ~i~~~~-~~~~~~~~H~~CF  103 (198)
                      +|.+++ +.++++.||.+|+
T Consensus        11 ~I~DRflL~v~dr~WH~~CL   30 (30)
T d1rutx1          11 KIADRFLLYAMDSYWHSRCL   30 (30)
T ss_dssp             BCCCSEEEEETTEEECGGGC
T ss_pred             ccchhhhhccchhhhhhhhC
Confidence            667775 4789999999885

>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=97.03  E-value=0.00013  Score=36.22  Aligned_cols=18  Identities=22%  Similarity=0.567  Sum_probs=14.0

Q ss_pred             eccCceEeCCcCccccCC
Q psy8131          86 ITSGGVTYKNEPWHRECF  103 (198)
Q Consensus        86 i~~~~~~~~~~~~H~~CF  103 (198)
                      .....+..+|+.||..|+
T Consensus        13 YfaEk~~~lgk~WHk~Cl   30 (30)
T d2cu8a1          13 YFAEKVSSLGKDWHKFCL   30 (30)
T ss_dssp             CTTTEEEETTEEEETTTC
T ss_pred             eeHHhhccCCcccccccC
Confidence            345567889999999885

>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=97.00  E-value=6.2e-05  Score=37.16  Aligned_cols=30  Identities=30%  Similarity=0.607  Sum_probs=26.6

Q ss_pred             ccCCCCCCCCCCCcccCCCeecchhhHHhh
Q psy8131          14 ACVVCKTPIGTKSFIPREQEIYCANCYEEK   43 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~   43 (198)
                      +|+.|+.+|..+.++..++++||+.+...+
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            589999999998999999999999987653

>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=96.91  E-value=0.0002  Score=35.53  Aligned_cols=18  Identities=22%  Similarity=0.534  Sum_probs=14.1

Q ss_pred             eeccCc-eEeCCcCccccC
Q psy8131          85 IITSGG-VTYKNEPWHREC  102 (198)
Q Consensus        85 ~i~~~~-~~~~~~~~H~~C  102 (198)
                      +|.+++ +.+.++.||.+|
T Consensus        12 ~I~DRflL~a~Dr~WH~~C   30 (30)
T d1j2oa1          12 NIGDRYFLKAIDQYWHEDC   30 (30)
T ss_dssp             CBCSSEEEECSSSEECTTT
T ss_pred             cchHHHHHHHHHHHHhcCC
Confidence            566664 478999999987

>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=96.83  E-value=0.00015  Score=35.48  Aligned_cols=15  Identities=33%  Similarity=0.897  Sum_probs=12.1

Q ss_pred             CceEeCCcCccccCC
Q psy8131          89 GGVTYKNEPWHRECF  103 (198)
Q Consensus        89 ~~~~~~~~~~H~~CF  103 (198)
                      ..+.-+++.||..||
T Consensus        16 Ekl~ClDk~WHK~CF   30 (30)
T d1zfoa_          16 EKVNCLDKFWHKACF   30 (30)
T ss_dssp             GCCCSSSSCCCGGGC
T ss_pred             HHhhhhHHHHhhccC
Confidence            355678999999998

>d2cupa2 g.39.1.3 (A:35-65) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.83  E-value=0.00036  Score=34.07  Aligned_cols=29  Identities=24%  Similarity=0.874  Sum_probs=26.1

Q ss_pred             ccCCCCCCCCCCCcccCCCeecchhhHHh
Q psy8131          14 ACVVCKTPIGTKSFIPREQEIYCANCYEE   42 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~~~~g~~yC~~cy~~   42 (198)
                      +|+.|-.||++.+|+.+|++++|..|..+
T Consensus         1 RCaKC~hpLA~E~F~aKd~kI~C~Kc~sr   29 (31)
T d2cupa2           1 RCAKCLHPLANETFVAKDNKILCNKCTTR   29 (31)
T ss_dssp             CCSSSCCCTTSSCCEEETTEEECHHHHTT
T ss_pred             CchhhccccccCcccccCCeEeecccccc
Confidence            58999999999999999999999988643

>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=96.83  E-value=0.00023  Score=38.93  Aligned_cols=16  Identities=31%  Similarity=0.858  Sum_probs=13.3

Q ss_pred             cCceEeCCcCccccCC
Q psy8131          88 SGGVTYKNEPWHRECF  103 (198)
Q Consensus        88 ~~~~~~~~~~~H~~CF  103 (198)
                      .+.+.++|+.||..||
T Consensus        28 ~E~~~~~g~~~Hk~CF   43 (43)
T d1b8ta3          28 AEKVIGAGKSWHKSCF   43 (43)
T ss_dssp             SSCEEETTEEECTTTC
T ss_pred             HHHhhcCCCccccCCC
Confidence            3456789999999998

>d1x62a2 g.39.1.3 (A:8-42) PDZ and LIM domain protein 1 Elfin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 1 Elfin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.72  E-value=0.00034  Score=35.29  Aligned_cols=19  Identities=26%  Similarity=0.401  Sum_probs=16.2

Q ss_pred             eeccCceEeCCcCccccCC
Q psy8131          85 IITSGGVTYKNEPWHRECF  103 (198)
Q Consensus        85 ~i~~~~~~~~~~~~H~~CF  103 (198)
                      =|.+..+.+.++.+||+||
T Consensus        17 GIVG~~VK~rDk~rHPeCf   35 (35)
T d1x62a2          17 GIVGVFVKLRDRHRHPECY   35 (35)
T ss_dssp             CCCSSCEECSSCEECTTTT
T ss_pred             CcEeEEEEeccccCCCCCC
Confidence            4667788899999999997

>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=96.71  E-value=0.00019  Score=36.00  Aligned_cols=17  Identities=18%  Similarity=0.429  Sum_probs=13.7

Q ss_pred             ccCceEeCCcCccccCC
Q psy8131          87 TSGGVTYKNEPWHRECF  103 (198)
Q Consensus        87 ~~~~~~~~~~~~H~~CF  103 (198)
                      ++-.+.+.+..||..||
T Consensus        15 ~e~VmRA~~~VyHl~CF   31 (31)
T d1rutx3          15 SELVMRAQGNVYHLKCF   31 (31)
T ss_dssp             TSEEEEETTEEECGGGC
T ss_pred             hHhheecccceeeeccC
Confidence            34466799999999998

>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=96.69  E-value=0.00033  Score=36.39  Aligned_cols=15  Identities=20%  Similarity=0.530  Sum_probs=13.1

Q ss_pred             CceEeCCcCccccCC
Q psy8131          89 GGVTYKNEPWHRECF  103 (198)
Q Consensus        89 ~~~~~~~~~~H~~CF  103 (198)
                      ..+.++|+.||..||
T Consensus        21 E~~~a~g~~~Hk~CF   35 (35)
T d2d8ya1          21 ERLLANQQVFHISCF   35 (35)
T ss_dssp             SEEECSSSEEETTTC
T ss_pred             eeEecCCeehhhccC
Confidence            467899999999998

>d1x64a1 g.39.1.3 (A:8-52) PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 3, PDLIM3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.62  E-value=0.0004  Score=37.40  Aligned_cols=19  Identities=32%  Similarity=0.475  Sum_probs=16.6

Q ss_pred             eeccCceEeCCcCccccCC
Q psy8131          85 IITSGGVTYKNEPWHRECF  103 (198)
Q Consensus        85 ~i~~~~~~~~~~~~H~~CF  103 (198)
                      -|.+..+.+.++.+||+||
T Consensus        27 GIVG~~VK~rDK~rHPeCf   45 (45)
T d1x64a1          27 GIVGAVVKARDKYRHPECF   45 (45)
T ss_dssp             BCCSCCEESSSCEECTTTC
T ss_pred             CcEEEEEEeccccCCCCCC
Confidence            4677788999999999998

>d2cupa2 g.39.1.3 (A:35-65) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.54  E-value=0.00073  Score=32.96  Aligned_cols=28  Identities=29%  Similarity=0.823  Sum_probs=25.5

Q ss_pred             CCccCcCCCCCCceeecCCcccchhhHh
Q psy8131         104 TCSNCSTSLAGQRFTSREDKPFCADCFG  131 (198)
Q Consensus       104 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~  131 (198)
                      +|..|-.||.++.|..+|++++|..|..
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            5889999999999999999999999864

>d1x6aa2 g.39.1.3 (A:42-75) Lim domain kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Lim domain kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.50  E-value=0.00035  Score=35.17  Aligned_cols=31  Identities=23%  Similarity=0.615  Sum_probs=26.0

Q ss_pred             cccCcCCCCC-CCCceEec-CCceeCccccccc
Q psy8131         166 FMCASCQSSL-VGRGFITD-GEDIICPDCAKAK  196 (198)
Q Consensus       166 f~C~~C~~~l-~~~~~~~~-~~~~~C~~C~~~~  196 (198)
                      |.|..|+.-| +|+.|.+. ..++||..||.+.
T Consensus         1 F~C~~C~~fIgdgdsyaLVerskLYCG~Cy~~~   33 (34)
T d1x6aa2           1 FACMSCKVIIEDGDAYALVQHATLYCGKCHNEV   33 (34)
T ss_dssp             CBCTTTCCBCCTTSCEEECSSSCEEEHHHHHHH
T ss_pred             CcccccccEEecCceEEEEeeceeeeecchhcc
Confidence            7899999999 67778775 5689999999875

>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=96.41  E-value=0.00063  Score=35.42  Aligned_cols=14  Identities=29%  Similarity=0.714  Sum_probs=12.4

Q ss_pred             ceEeCCcCccccCC
Q psy8131          90 GVTYKNEPWHRECF  103 (198)
Q Consensus        90 ~~~~~~~~~H~~CF  103 (198)
                      .+.++|+.||..||
T Consensus        23 rl~a~g~~yHk~CF   36 (36)
T d2co8a2          23 RLCVNGHFFHRSCF   36 (36)
T ss_dssp             BCCBTTBCCBTTTC
T ss_pred             EEEecCcEeccccC
Confidence            56789999999998

>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=96.39  E-value=0.0015  Score=32.18  Aligned_cols=30  Identities=17%  Similarity=0.570  Sum_probs=27.6

Q ss_pred             ccCCCCCCCCCCCcccCCCeecchhhHHhh
Q psy8131          14 ACVVCKTPIGTKSFIPREQEIYCANCYEEK   43 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~   43 (198)
                      +|..|...|++..|+-..|+.+|.+|..+.
T Consensus         1 rC~~C~~~LAD~GFvKnagR~LCrpch~re   30 (32)
T d2d8xa1           1 RCDLCQEVLADIGFVKNAGRHLCRPCHNRE   30 (32)
T ss_dssp             BCSSSCCBCSSSCCEEETTEEECHHHHHHH
T ss_pred             CchHHHhHHHHhhhhhcccccccchhhhhc
Confidence            589999999999999999999999998764

>d1x64a2 g.39.1.3 (A:53-83) PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 3, PDLIM3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.32  E-value=0.0014  Score=32.03  Aligned_cols=29  Identities=17%  Similarity=0.490  Sum_probs=25.3

Q ss_pred             CCccCcCCCCCCceeecCCcccchhhHhh
Q psy8131         104 TCSNCSTSLAGQRFTSREDKPFCADCFGE  132 (198)
Q Consensus       104 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~  132 (198)
                      .|+.|+..|....++..++++||+.+...
T Consensus         1 vC~dCg~NLKqrG~Ffv~~~lyCE~HAr~   29 (31)
T d1x64a2           1 VCADCNLNLKQKGYFFVEGELYCETHARA   29 (31)
T ss_dssp             CCSSSCCCTTTSCCEEETTEEECHHHHHH
T ss_pred             CccccccChhhcceEEeccEEeehhhhhc
Confidence            48999999988889999999999998654

>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=96.29  E-value=0.00096  Score=32.84  Aligned_cols=29  Identities=28%  Similarity=0.717  Sum_probs=26.6

Q ss_pred             ccCcCCCCCCCCceEecCCceeCcccccc
Q psy8131         167 MCASCQSSLVGRGFITDGEDIICPDCAKA  195 (198)
Q Consensus       167 ~C~~C~~~l~~~~~~~~~~~~~C~~C~~~  195 (198)
                      +|..|...|.+..|+...|+.+|++|..+
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            58999999999999999999999999764

>d2cora1 g.39.1.3 (A:43-73) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.18  E-value=0.0016  Score=31.70  Aligned_cols=29  Identities=21%  Similarity=0.701  Sum_probs=24.4

Q ss_pred             CCccCcCCCCCCceeecCCcccchhhHhhh
Q psy8131         104 TCSNCSTSLAGQRFTSREDKPFCADCFGEL  133 (198)
Q Consensus       104 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~  133 (198)
                      .|+.|++.|... -.+.+|.+||.+|+.+.
T Consensus         1 nC~~Cgkeltad-ArEl~geLyCLpChdKm   29 (31)
T d2cora1           1 NCANCGKELTAD-ARELKGELYCLPCHDKM   29 (31)
T ss_dssp             BCSSSCCBCCTT-CEEETTEEECHHHHHTT
T ss_pred             Cccccccccchh-HHHhcCCEEEEeccccc
Confidence            488999999776 66888999999998764

>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=96.13  E-value=0.001  Score=33.42  Aligned_cols=32  Identities=25%  Similarity=0.594  Sum_probs=27.6

Q ss_pred             CCccCcCCC--CCCceeecCCcccchhhHhhhhc
Q psy8131         104 TCSNCSTSL--AGQRFTSREDKPFCADCFGELFA  135 (198)
Q Consensus       104 ~C~~C~~~l--~~~~~~~~~g~~yC~~c~~~~~~  135 (198)
                      +|+-|+..|  .+.+.+.+.|.++|+.+|.++|+
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            578899988  36679999999999999999875

>d1ibia1 g.39.1.3 (A:117-144) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]

Probab=96.10  E-value=0.00086  Score=32.10  Aligned_cols=27  Identities=22%  Similarity=0.783  Sum_probs=21.3

Q ss_pred             cCCCCCCCCCcCCCCceEEeeCCCcccccC
Q psy8131         136 KRCYSCKKPITGIGGTRFISFEDRHWHNDC  165 (198)
Q Consensus       136 ~~C~~C~~~I~~~~~~~~~~~~~~~~H~~C  165 (198)
                      .+|.+|++.+...  +++| -.|+.||..|
T Consensus         2 d~CpRC~~~VyaA--Ekvi-GaG~~WHk~C   28 (28)
T d1ibia1           2 EKCSRCGDSVYAA--EKVI-GAGKPWHKNC   28 (28)
T ss_dssp             EECTTTSSEESSS--SCEE-SSSSEECSSC
T ss_pred             CcCcccchhHHHH--HHHh-cCCCccccCC
Confidence            5799999999873  4554 5789999876

>d1x6aa2 g.39.1.3 (A:42-75) Lim domain kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Lim domain kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.03  E-value=0.0028  Score=31.74  Aligned_cols=31  Identities=23%  Similarity=0.775  Sum_probs=24.8

Q ss_pred             CCCccCcCCC-CCCceeec-CCcccchhhHhhh
Q psy8131         103 FTCSNCSTSL-AGQRFTSR-EDKPFCADCFGEL  133 (198)
Q Consensus       103 F~C~~C~~~l-~~~~~~~~-~g~~yC~~c~~~~  133 (198)
                      |.|..|+.-+ ++++|... ..++||..||.+.
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            7899999988 55667655 4899999999763

>d2cora1 g.39.1.3 (A:43-73) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.95  E-value=0.0026  Score=30.92  Aligned_cols=29  Identities=21%  Similarity=0.576  Sum_probs=24.0

Q ss_pred             ccCCCCCCCCCCCcccCCCeecchhhHHhh
Q psy8131          14 ACVVCKTPIGTKSFIPREQEIYCANCYEEK   43 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~   43 (198)
                      .|+.|++.|... --+.+|++||..|+++.
T Consensus         1 nC~~Cgkeltad-ArEl~geLyCLpChdKm   29 (31)
T d2cora1           1 NCANCGKELTAD-ARELKGELYCLPCHDKM   29 (31)
T ss_dssp             BCSSSCCBCCTT-CEEETTEEECHHHHHTT
T ss_pred             Cccccccccchh-HHHhcCCEEEEeccccc
Confidence            489999999864 34789999999999864

>d1rutx2 g.39.1.3 (X:49-82) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.92  E-value=0.0012  Score=33.20  Aligned_cols=32  Identities=28%  Similarity=0.584  Sum_probs=27.4

Q ss_pred             ccCCCCCCCC--CCCcccCCCeecchhhHHhhhc
Q psy8131          14 ACVVCKTPIG--TKSFIPREQEIYCANCYEEKFA   45 (198)
Q Consensus        14 ~C~~C~~~L~--~~~f~~~~g~~yC~~cy~~~~~   45 (198)
                      +|+-|+..|.  +.+.+.+.|.++|+.+|.++|+
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            4788899997  4677889999999999999874

>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=95.80  E-value=0.0026  Score=31.29  Aligned_cols=27  Identities=37%  Similarity=0.722  Sum_probs=23.4

Q ss_pred             CCccCcCCC-CCCceeecCCcccchhhH
Q psy8131         104 TCSNCSTSL-AGQRFTSREDKPFCADCF  130 (198)
Q Consensus       104 ~C~~C~~~l-~~~~~~~~~g~~yC~~c~  130 (198)
                      .|+.|...| .+++|...+|.+||+.+.
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            488999988 788899999999999864

>d1wiga1 g.39.1.3 (A:1-32) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.75  E-value=0.0017  Score=31.75  Aligned_cols=18  Identities=22%  Similarity=0.412  Sum_probs=16.6

Q ss_pred             eeccCceEeCCcCccccC
Q psy8131          85 IITSGGVTYKNEPWHREC  102 (198)
Q Consensus        85 ~i~~~~~~~~~~~~H~~C  102 (198)
                      .|++..+.+.++.|||.|
T Consensus        14 ~ItGkVLEAG~khYHP~C   31 (32)
T d1wiga1          14 YITGRVLEAGEKHYHPSC   31 (32)
T ss_dssp             CCSSCCBCCSSCCBCTTT
T ss_pred             hhhhhhhhccccccCCCC
Confidence            788999999999999987

>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=95.67  E-value=0.0029  Score=29.88  Aligned_cols=27  Identities=22%  Similarity=0.679  Sum_probs=22.7

Q ss_pred             CCCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         137 RCYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       137 ~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      +|..|.+.+.-.   .-|+-.|+.||..||
T Consensus         2 kcg~c~ktvy~a---eevqc~grsfhk~cf   28 (28)
T d1a7ia1           2 KCGACGRTVYHA---EEVQCDGRSFHRCCF   28 (28)
T ss_dssp             BCSSSCCBCSST---TEEEETTEEEESSSE
T ss_pred             ccccccceEeee---eeeeecCceeccccC
Confidence            689999998763   457899999999997

>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=95.67  E-value=0.0017  Score=32.40  Aligned_cols=29  Identities=28%  Similarity=0.647  Sum_probs=24.0

Q ss_pred             ccCCCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         135 AKRCYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       135 ~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      +.+|..|++.+.-.   .-|.-.|+.||..||
T Consensus         7 g~kcg~c~ktvy~a---eevqc~g~sfhk~cf   35 (35)
T d1b8ta1           7 GKKCGVCQKAVYFA---EEVQCEGSSFHKSCF   35 (35)
T ss_dssp             CEECTTTCCEECSS---CCEEETTEEECTTTC
T ss_pred             CceeccccceEeee---eeeeecCcccccccC
Confidence            46899999998753   347889999999998

>d1x62a1 g.39.1.3 (A:43-73) PDZ and LIM domain protein 1 Elfin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 1 Elfin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.33  E-value=0.00067  Score=33.33  Aligned_cols=30  Identities=23%  Similarity=0.640  Sum_probs=25.3

Q ss_pred             ccCcCCCCCCCCceEecCCceeCccccccc
Q psy8131         167 MCASCQSSLVGRGFITDGEDIICPDCAKAK  196 (198)
Q Consensus       167 ~C~~C~~~l~~~~~~~~~~~~~C~~C~~~~  196 (198)
                      .|+.|+..|....++..++++||.++...+
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            489999999777788889999999887654

>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=94.99  E-value=0.0092  Score=27.48  Aligned_cols=27  Identities=33%  Similarity=0.690  Sum_probs=21.5

Q ss_pred             CCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         138 CYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       138 C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      |.+|++.+.+. + .-+.+.++.||..||
T Consensus         1 cggcgedvvgd-g-agvvaldrvfhvgcf   27 (27)
T d1x61a1           1 CGGCGEDVVGD-G-AGVVALDRVFHVGCF   27 (27)
T ss_dssp             CSSSCSCCCSS-S-CCEECSSSEECTTTC
T ss_pred             CCCcccccccC-C-cceEEEeeeEEeccC
Confidence            67899988873 3 336789999999997

>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=94.90  E-value=0.0063  Score=30.27  Aligned_cols=19  Identities=21%  Similarity=0.628  Sum_probs=14.9

Q ss_pred             eeccCceEeCCcCccccCC
Q psy8131          85 IITSGGVTYKNEPWHRECF  103 (198)
Q Consensus        85 ~i~~~~~~~~~~~~H~~CF  103 (198)
                      +.....+.-.|+.||..||
T Consensus        17 vy~aeevqc~g~sfhk~cf   35 (35)
T d1b8ta1          17 VYFAEEVQCEGSSFHKSCF   35 (35)
T ss_dssp             ECSSCCEEETTEEECTTTC
T ss_pred             EeeeeeeeecCcccccccC
Confidence            3445567889999999997

>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=94.84  E-value=0.012  Score=28.84  Aligned_cols=27  Identities=22%  Similarity=0.560  Sum_probs=23.4

Q ss_pred             ccCcCCCCC-CCCceEecCCceeCcccc
Q psy8131         167 MCASCQSSL-VGRGFITDGEDIICPDCA  193 (198)
Q Consensus       167 ~C~~C~~~l-~~~~~~~~~~~~~C~~C~  193 (198)
                      .|+.|...| +|++|...+|.++|+.-.
T Consensus         1 tC~tC~n~LVPGDRFHyvNG~lfCE~D~   28 (33)
T d1rutx4           1 TCSTCRNRLVPGDRFHYINGSLFCEHDR   28 (33)
T ss_dssp             BCTTTCCBCCTTCEEEEETTEEEEGGGC
T ss_pred             CcccccccccCCceeEEecCEEEEecCC
Confidence            488999999 899999999999998653

>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=94.82  E-value=0.0073  Score=27.84  Aligned_cols=17  Identities=29%  Similarity=0.642  Sum_probs=14.4

Q ss_pred             ccCceEeCCcCccccCC
Q psy8131          87 TSGGVTYKNEPWHRECF  103 (198)
Q Consensus        87 ~~~~~~~~~~~~H~~CF  103 (198)
                      .+..++++++.||..||
T Consensus        11 dgagvvaldrvfhvgcf   27 (27)
T d1x61a1          11 DGAGVVALDRVFHVGCF   27 (27)
T ss_dssp             SSCCEECSSSEECTTTC
T ss_pred             CCcceEEEeeeEEeccC
Confidence            45578999999999997

>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=94.82  E-value=0.0061  Score=29.05  Aligned_cols=15  Identities=33%  Similarity=0.935  Sum_probs=10.3

Q ss_pred             cCceEeCCcCccccC
Q psy8131          88 SGGVTYKNEPWHREC  102 (198)
Q Consensus        88 ~~~~~~~~~~~H~~C  102 (198)
                      ...|.-.|+.||..|
T Consensus        14 AEkviGaG~~WHk~C   28 (28)
T d1ibia1          14 AEKVIGAGKPWHKNC   28 (28)
T ss_dssp             SSCEESSSSEECSSC
T ss_pred             HHHHhcCCCccccCC
Confidence            334455678999876

>d1g47a1 g.39.1.3 (A:1-35) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.55  E-value=0.0083  Score=30.18  Aligned_cols=29  Identities=17%  Similarity=0.552  Sum_probs=23.6

Q ss_pred             ccCCCCCCCCCcCCCCceEEeeCCCcccccC
Q psy8131         135 AKRCYSCKKPITGIGGTRFISFEDRHWHNDC  165 (198)
Q Consensus       135 ~~~C~~C~~~I~~~~~~~~~~~~~~~~H~~C  165 (198)
                      ...|.+|+....+.  +++|...|..||+.|
T Consensus         7 ~~~C~RC~~gF~p~--EkiVNSnGEl~H~qC   35 (35)
T d1g47a1           7 SATCERCKGGFAPA--EKIVNSNGELYHEQC   35 (35)
T ss_dssp             CCBCSSSCCBCCST--TTCEEETTEEECTTT
T ss_pred             HHHHHHHccCCCch--HHhhcCCCccccccC
Confidence            35688898888774  588999999999876

>d2cora2 g.39.1.3 (A:8-42) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.39  E-value=0.0083  Score=30.25  Aligned_cols=19  Identities=37%  Similarity=0.821  Sum_probs=17.1

Q ss_pred             eeccCceEeCCcCccccCC
Q psy8131          85 IITSGGVTYKNEPWHRECF  103 (198)
Q Consensus        85 ~i~~~~~~~~~~~~H~~CF  103 (198)
                      +|.+.-+.+.|..||+.+|
T Consensus        17 iIdd~pL~Fr~d~YHp~HF   35 (35)
T d2cora2          17 IIDEQPLIFKNDPYHPDHF   35 (35)
T ss_dssp             BCCSCCCCCSSSCCCTTTS
T ss_pred             hhhcCcceecCCCCCCCCC
Confidence            8888888999999999987

>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=94.16  E-value=0.0092  Score=28.10  Aligned_cols=19  Identities=26%  Similarity=0.632  Sum_probs=14.7

Q ss_pred             eeccCceEeCCcCccccCC
Q psy8131          85 IITSGGVTYKNEPWHRECF  103 (198)
Q Consensus        85 ~i~~~~~~~~~~~~H~~CF  103 (198)
                      +.....+.-+|+.||..||
T Consensus        10 vy~aeevqc~grsfhk~cf   28 (28)
T d1a7ia1          10 VYHAEEVQCDGRSFHRCCF   28 (28)
T ss_dssp             CSSTTEEEETTEEEESSSE
T ss_pred             EeeeeeeeecCceeccccC
Confidence            3445567889999999987

>d1v6ga2 g.39.1.3 (A:42-81) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.95  E-value=0.014  Score=30.08  Aligned_cols=29  Identities=28%  Similarity=0.827  Sum_probs=21.3

Q ss_pred             cccCcCCCCC-CCCceEecCCceeCccccc
Q psy8131         166 FMCASCQSSL-VGRGFITDGEDIICPDCAK  194 (198)
Q Consensus       166 f~C~~C~~~l-~~~~~~~~~~~~~C~~C~~  194 (198)
                      |.|+.|.+++ .|++....+..-+|..|..
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            6788888888 5777777777777777743

>d1x68a2 g.39.1.3 (A:37-70) Four and a half LIM domains protein 5, FHL-5 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 5, FHL-5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.93  E-value=0.019  Score=28.07  Aligned_cols=27  Identities=44%  Similarity=1.168  Sum_probs=24.3

Q ss_pred             cCcCCCCCCCCceEecCCceeCccccc
Q psy8131         168 CASCQSSLVGRGFITDGEDIICPDCAK  194 (198)
Q Consensus       168 C~~C~~~l~~~~~~~~~~~~~C~~C~~  194 (198)
                      |..|+.+|-|+.|......++|+.|-.
T Consensus         2 cgkcsvslvg~gfltq~~~i~c~~cgs   28 (34)
T d1x68a2           2 CGKCSVSLVGKGFLTQNKEIFCQKCGS   28 (34)
T ss_dssp             CTTTCCBCSSSCEEEETTEEEETTTTC
T ss_pred             CccceEEEEeeeeeeccCcEEehhcCC
Confidence            778999999999999999999999954

>d1g47a1 g.39.1.3 (A:1-35) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.90  E-value=0.013  Score=29.43  Aligned_cols=17  Identities=24%  Similarity=0.409  Sum_probs=13.1

Q ss_pred             eccCceEeCCcCccccC
Q psy8131          86 ITSGGVTYKNEPWHREC  102 (198)
Q Consensus        86 i~~~~~~~~~~~~H~~C  102 (198)
                      ..+..|..+|..||+.|
T Consensus        19 p~EkiVNSnGEl~H~qC   35 (35)
T d1g47a1          19 PAEKIVNSNGELYHEQC   35 (35)
T ss_dssp             STTTCEEETTEEECTTT
T ss_pred             chHHhhcCCCccccccC
Confidence            44556778999999976

>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=93.86  E-value=0.012  Score=30.65  Aligned_cols=26  Identities=19%  Similarity=0.597  Sum_probs=16.3

Q ss_pred             CCCCCCCCcCCCCceEEeeCCCcccccC
Q psy8131         138 CYSCKKPITGIGGTRFISFEDRHWHNDC  165 (198)
Q Consensus       138 C~~C~~~I~~~~~~~~~~~~~~~~H~~C  165 (198)
                      |++|++..... .++++ -.+..|||.|
T Consensus         2 C~rC~~mF~EG-EEMYL-QGs~IWHP~C   27 (41)
T d1wiga2           2 CVRCGQMFAEG-EEMYL-QGSSIWHPAC   27 (41)
T ss_dssp             CSSSCCCCCSS-CCCEE-ETTEEECTTH
T ss_pred             cchhhcccccc-ceeee-cCCceeCCcc
Confidence            77787776542 23444 4667788865

>d2cora2 g.39.1.3 (A:8-42) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.44  E-value=0.018  Score=28.96  Aligned_cols=27  Identities=26%  Similarity=0.556  Sum_probs=21.7

Q ss_pred             cCCCCCCCCCcCCCCceEEeeCCCcccccCc
Q psy8131         136 KRCYSCKKPITGIGGTRFISFEDRHWHNDCF  166 (198)
Q Consensus       136 ~~C~~C~~~I~~~~~~~~~~~~~~~~H~~Cf  166 (198)
                      -+|.+|...|..    +-+.+.+..||+.+|
T Consensus         9 ~vC~KCh~iIdd----~pL~Fr~d~YHp~HF   35 (35)
T d2cora2           9 YICQKCHAIIDE----QPLIFKNDPYHPDHF   35 (35)
T ss_dssp             CBCTTTCCBCCS----CCCCCSSSCCCTTTS
T ss_pred             HHHHHHHhhhhc----CcceecCCCCCCCCC
Confidence            468888888876    447789999999887

>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=92.19  E-value=0.046  Score=28.06  Aligned_cols=28  Identities=29%  Similarity=0.742  Sum_probs=21.7

Q ss_pred             CCCccCcCCC-CCCceeecCCcccchhhH
Q psy8131         103 FTCSNCSTSL-AGQRFTSREDKPFCADCF  130 (198)
Q Consensus       103 F~C~~C~~~l-~~~~~~~~~g~~yC~~c~  130 (198)
                      |+|+.|++|+ .+++......+..|+.|.
T Consensus         1 FvC~vCr~pFP~GDRVTFnGKeC~CQ~Cs   29 (40)
T d1v6ga2           1 FVCAVCRLPFPPGDRVTFNGKECMCQKCS   29 (40)
T ss_dssp             SSCSSSCCCCCSSSCEEEETTEEEEHHHH
T ss_pred             CcccccCCCCCCCCeEEEcCceeehhhcC
Confidence            7899999999 455566666778888876

>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=92.13  E-value=0.037  Score=27.03  Aligned_cols=27  Identities=30%  Similarity=0.818  Sum_probs=23.1

Q ss_pred             ccCCCCCCCCCCCcccCCCeecchhhH
Q psy8131          14 ACVVCKTPIGTKSFIPREQEIYCANCY   40 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~~~~g~~yC~~cy   40 (198)
                      .|..|..+|.++.|......++|.+|-
T Consensus         1 ncgkcsvslvg~gfltq~~~i~c~~cg   27 (34)
T d1x68a2           1 NCGKCSVSLVGKGFLTQNKEIFCQKCG   27 (34)
T ss_dssp             BCTTTCCBCSSSCEEEETTEEEETTTT
T ss_pred             CCccceEEEEeeeeeeccCcEEehhcC
Confidence            378899999999999888889888763

>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=91.46  E-value=0.096  Score=32.98  Aligned_cols=45  Identities=22%  Similarity=0.550  Sum_probs=35.1

Q ss_pred             CCCccCcCCCCCCceeecCCcccchhhHhhhhccCCCCCCCCCcC
Q psy8131         103 FTCSNCSTSLAGQRFTSREDKPFCADCFGELFAKRCYSCKKPITG  147 (198)
Q Consensus       103 F~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~~C~~C~~~I~~  147 (198)
                      +.|..|...+........=|..||..|..+.....|..|+.++..
T Consensus        23 l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~~~CP~Cr~~~~~   67 (97)
T d1jm7b_          23 LRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVCYTPAWI   67 (97)
T ss_dssp             TSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTTTBCSSSCCBCSC
T ss_pred             CCCccCCchhhcCceeCCCCCchhHHHHHHHHhccccccCCcCch
Confidence            688899888865422234599999999888888889999988765

>d1x4la2 g.39.1.3 (A:37-66) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.14  E-value=0.12  Score=24.38  Aligned_cols=28  Identities=21%  Similarity=0.726  Sum_probs=23.3

Q ss_pred             ccCCCCCCCCCCCcccCCCeecchhhHH
Q psy8131          14 ACVVCKTPIGTKSFIPREQEIYCANCYE   41 (198)
Q Consensus        14 ~C~~C~~~L~~~~f~~~~g~~yC~~cy~   41 (198)
                      .|..|..+|.+..|...-+.++|.+|-.
T Consensus         1 nc~kcsvslvgrgflterddilc~dcgk   28 (30)
T d1x4la2           1 NCKKCSLSLVGRGFLTERDDILCPDCGK   28 (30)
T ss_dssp             BCSSSCCBCTTSCCEECSSSEECHHHHH
T ss_pred             CcceeeEEEEeeeccccccceeccccCc
Confidence            3788999999999987777888988754

>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=89.61  E-value=0.14  Score=26.50  Aligned_cols=28  Identities=29%  Similarity=0.688  Sum_probs=24.8

Q ss_pred             cCcCCCCC-CCCceEecCCceeCcccccc
Q psy8131         168 CASCQSSL-VGRGFITDGEDIICPDCAKA  195 (198)
Q Consensus       168 C~~C~~~l-~~~~~~~~~~~~~C~~C~~~  195 (198)
                      |+.|+..+ .|+..++.++.+|-..|.+.
T Consensus         2 C~rC~~mF~EGEEMYLQGs~IWHP~C~~~   30 (41)
T d1wiga2           2 CVRCGQMFAEGEEMYLQGSSIWHPACRQA   30 (41)
T ss_dssp             CSSSCCCCCSSCCCEEETTEEECTTHHHH
T ss_pred             cchhhccccccceeeecCCceeCCccccc
Confidence            88999999 79999999999999888643

>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=89.60  E-value=0.11  Score=24.52  Aligned_cols=27  Identities=63%  Similarity=1.424  Sum_probs=23.7

Q ss_pred             cCcCCCCCCCCceEecCCceeCccccc
Q psy8131         168 CASCQSSLVGRGFITDGEDIICPDCAK  194 (198)
Q Consensus       168 C~~C~~~l~~~~~~~~~~~~~C~~C~~  194 (198)
                      |..|..+|-|..|...-+.++|..|-+
T Consensus         2 c~kcsvslvgrgflterddilc~dcgk   28 (30)
T d1x4la2           2 CKKCSLSLVGRGFLTERDDILCPDCGK   28 (30)
T ss_dssp             CSSSCCBCTTSCCEECSSSEECHHHHH
T ss_pred             cceeeEEEEeeeccccccceeccccCc
Confidence            778899999999999988999998854

>d1j2oa2 g.39.1.3 (A:31-63) Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Rhombotin-2 (Lmo2)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.47  E-value=0.21  Score=24.23  Aligned_cols=29  Identities=17%  Similarity=0.462  Sum_probs=23.0

Q ss_pred             ccCCCCCCCC--CCCcccCCCeecchhhHHh
Q psy8131          14 ACVVCKTPIG--TKSFIPREQEIYCANCYEE   42 (198)
Q Consensus        14 ~C~~C~~~L~--~~~f~~~~g~~yC~~cy~~   42 (198)
                      +|.-|+-.|.  +.+.+.+.+.+.|+.+|.+
T Consensus         2 kC~cC~cRLGEVG~tlytk~nliLCkrDYlR   32 (33)
T d1j2oa2           2 SCDLCGCRLGEVGRRLYYKLGRKLCRRDYLR   32 (33)
T ss_dssp             CCSSSCSCCCCSSSCCCCBTTBCCCHHHHHH
T ss_pred             ccccccccccchhhHHHhhcceeeehhhhhc
Confidence            5666777775  5677889999999999975

>d1j2oa2 g.39.1.3 (A:31-63) Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Rhombotin-2 (Lmo2)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.12  E-value=0.26  Score=23.89  Aligned_cols=29  Identities=21%  Similarity=0.573  Sum_probs=22.9

Q ss_pred             CCccCcCCCC--CCceeecCCcccchhhHhh
Q psy8131         104 TCSNCSTSLA--GQRFTSREDKPFCADCFGE  132 (198)
Q Consensus       104 ~C~~C~~~l~--~~~~~~~~g~~yC~~c~~~  132 (198)
                      +|.-|+..|+  +...+.+.+.++|+.+|.+
T Consensus         2 kC~cC~cRLGEVG~tlytk~nliLCkrDYlR   32 (33)
T d1j2oa2           2 SCDLCGCRLGEVGRRLYYKLGRKLCRRDYLR   32 (33)
T ss_dssp             CCSSSCSCCCCSSSCCCCBTTBCCCHHHHHH
T ss_pred             ccccccccccchhhHHHhhcceeeehhhhhc
Confidence            5777888884  4567788899999999975

>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=88.10  E-value=0.21  Score=31.28  Aligned_cols=43  Identities=21%  Similarity=0.566  Sum_probs=35.6

Q ss_pred             cccCCCCCCCCCCCcccCCCeecchhhHHhhhccccccccccc
Q psy8131          13 FACVVCKTPIGTKSFIPREQEIYCANCYEEKFATRCVKCNKTF   55 (198)
Q Consensus        13 F~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~~   55 (198)
                      ++|..|...|.+......=|..||..|..+.+...|..|+.++
T Consensus        23 l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~~~CP~Cr~~~   65 (97)
T d1jm7b_          23 LRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVCYTPA   65 (97)
T ss_dssp             TSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTTTBCSSSCCBC
T ss_pred             CCCccCCchhhcCceeCCCCCchhHHHHHHHHhccccccCCcC
Confidence            7899999999875444456999999999988888899998854

>d2co8a1 g.39.1.3 (A:44-76) Nedd9 interacting protein with calponin homology, NICAL (MICAL1) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Nedd9 interacting protein with calponin homology, NICAL (MICAL1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.81  E-value=0.51  Score=22.93  Aligned_cols=29  Identities=17%  Similarity=0.472  Sum_probs=20.8

Q ss_pred             ccCcCCCCCCCCceEe--cCCceeCcccccc
Q psy8131         167 MCASCQSSLVGRGFIT--DGEDIICPDCAKA  195 (198)
Q Consensus       167 ~C~~C~~~l~~~~~~~--~~~~~~C~~C~~~  195 (198)
                      +|..|...|....|..  .+|.+||..+..+
T Consensus         1 rC~~CeatL~pG~Y~qhp~dghfyc~~hlpq   31 (33)
T d2co8a1           1 RCHTCEATLWPGGYEQHPGDGHFYCLQHLPQ   31 (33)
T ss_dssp             BCSSSCCBCCTTSEECCTTTCCCEETTTCCC
T ss_pred             CceeeeeEEccCcccCCCCCceEeeeeccCC
Confidence            5888999995545554  4788999877543

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=81.38  E-value=0.71  Score=25.59  Aligned_cols=45  Identities=7%  Similarity=0.104  Sum_probs=31.9

Q ss_pred             CCCccCcCCCCCCceeecCCcccchhhHhhhh--ccCCCCCCCCCcC
Q psy8131         103 FTCSNCSTSLAGQRFTSREDKPFCADCFGELF--AKRCYSCKKPITG  147 (198)
Q Consensus       103 F~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~--~~~C~~C~~~I~~  147 (198)
                      +.|..|...+.+-......|..||.+|-.+-+  ..+|..|++++..
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~   47 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSI   47 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCG
T ss_pred             CCCccCCchHHhcCccCCCCCcccHHHHHHHHhhccCCCccCCcCCH
Confidence            35788888776542333579999999964322  4689999999876