Psyllid ID: psy2231

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-
Protein Sequence
MSSSSSSSLVNSRGAGLQQYAMILDLLLSSSGRRYVLQHHTSNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKGNTSHTMIPDTYITQVTIVIARCLSSVYSIQLVKPSIRYRLTYIMPPCTYAQTV
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEccccccccccccccccccccccccccccccEEEccHHHHHHcccccccccccccEEEccccEEEcccccccccccccccccccccccccccccccccccEEccccccccccccccccccEEcccEEEEEEEccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccEccccccHHHHHHHHHHHHHccccccccccccccccccccEEEEEHHHHccccccccccccHHHHccccccccccccccccccccccHHHHcccccccccccccEEEccccccccEEEEEEEEEEEccHHHHHccccccccccccccccHHHHHEEEEEHHcccEEEEEEEcccEEEEEEEccccccEEEcc
Coil and Loop (DISEMBL)
mssssssslvnsrgagLQQYAMILDLLLSSSGRRYVLQHHTsnainlpnsmyLAERKTslgkdwhgsclrcencnktlvpgshsehdgkpycnypcysalFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMhlrsdclsmyggkgntshtmipdtyITQVTIVIARCLSSVYsiqlvkpsiryrltyimppctyaqtv
Flexible Loop (DISEMBL)
MSSSSSSSLVNSRGAGLQQYAMILDLLLSSSGRRYVLQHHtsnainlpnsMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKGNTSHTMIPDTYITQVTIVIARCLSSVYSIQLVKPSIRYRLTYIMPPCTYAQTV
Low Complexity Region (SEG)
MsssssssLVNSRGAGLQQYAMILDLLLSSSGRRYVLQHHTSNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKGNTSHTMIPDTYITQVTIVIARCLSSVYSIQLVKPSIRYRLTYIMPPCTYAQTV
Disordered region (IsUnstruct)
***************GLQQYAMILDLLLSSSGRRYVLQHHTSNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKGNTSHTMIPDTYITQVTIVIARCLSSVYSIQLVKPSIRYRLTYIMPPCTY****
Disordered Region (DISOPRED)
*******************************************AINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVC**************YHAS*H*********************DTYITQVTIVIARCLSSVYSIQLVKPSIRYRLTYIMPPCTYA***
Disordered Region (DISEMBL)
*************GAGLQQYAMILDLLLSSSGRRYVLQHHTSNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKGNTSHTMIPDTYITQVTIVIARCLSSVYSIQLVKPSIRYRLTYIMPPCTYAQTV
Disordered Region (DISPRO)
**************AGLQQYAMILDLLLSSSGR********SNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKGNTSHTMIPDTYITQVTIVIARCLSSVYSIQLVKPSIRYRLTYIMPPCTYAQT*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSSSSSSSLVNSRGAGLQQYAMILDLLLSSSGRRYVLQHHTSNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKGNTSHTMIPDTYITQVTIVIARCLSSVYSIQLVKPSIRYRLTYIMPPCTYAQTV
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	201	2.2.26 [Sep-21-2011]
Q9DCT8	208	Cysteine-rich protein 2 O	yes	N/A	0.323	0.312	0.553	1e-17
P36201	208	Cysteine-rich protein 2 O	yes	N/A	0.323	0.312	0.553	1e-17
P52943	208	Cysteine-rich protein 2 O	yes	N/A	0.323	0.312	0.569	2e-17
P63255	77	Cysteine-rich protein 1 O	no	N/A	0.283	0.740	0.631	2e-17
P63254	77	Cysteine-rich protein 1 O	no	N/A	0.283	0.740	0.631	2e-17
Q0VFX8	208	Cysteine-rich protein 2 O	yes	N/A	0.313	0.302	0.587	2e-17
Q56K04	77	Cysteine-rich protein 1 O	no	N/A	0.283	0.740	0.614	3e-17
P50238	77	Cysteine-rich protein 1 O	no	N/A	0.283	0.740	0.614	3e-17
Q5R7Y1	208	Cysteine-rich protein 2 O	yes	N/A	0.323	0.312	0.553	1e-16
Q6Q6R3	243	Cysteine-rich protein 3 O	no	N/A	0.288	0.238	0.524	1e-14

>sp|Q9DCT8|CRIP2_MOUSE Cysteine-rich protein 2 OS=Mus musculus GN=Crip2 PE=1 SV=1

 Score = 89.7 bits (221), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 36/65 (55%), Positives = 47/65 (72%)

Query: 49  NSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFL 108
            ++Y AE+ +SLGKDWH  CL+CE CNKTL PG H+EHDGKP+C+ PCY+ LF  +   +
Sbjct: 10  KTVYFAEKVSSLGKDWHKFCLKCERCNKTLTPGGHAEHDGKPFCHKPCYATLFGPKGVNI 69

Query: 109 GCLSS 113
           G   S
Sbjct: 70  GGAGS 74

Mus musculus (taxid: 10090)

>sp|P36201|CRIP2_RAT Cysteine-rich protein 2 OS=Rattus norvegicus GN=Crip2 PE=2 SV=1

 Score = 89.7 bits (221), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 36/65 (55%), Positives = 47/65 (72%)

Query: 49  NSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFL 108
            ++Y AE+ +SLGKDWH  CL+CE CNKTL PG H+EHDGKP+C+ PCY+ LF  +   +
Sbjct: 10  KTVYFAEKVSSLGKDWHKFCLKCERCNKTLTPGGHAEHDGKPFCHKPCYATLFGPKGVNI 69

Query: 109 GCLSS 113
           G   S
Sbjct: 70  GGAGS 74

Rattus norvegicus (taxid: 10116)

>sp|P52943|CRIP2_HUMAN Cysteine-rich protein 2 OS=Homo sapiens GN=CRIP2 PE=1 SV=1

 Score = 89.4 bits (220), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 37/65 (56%), Positives = 44/65 (67%)

Query: 49  NSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFL 108
             +Y AE+ TSLGKDWH  CLRCE C KTL PG H+EHDG+PYC+ PCY  LF  +    
Sbjct: 131 KKVYFAEKVTSLGKDWHRPCLRCERCGKTLTPGGHAEHDGQPYCHKPCYGILFGPKGVNT 190

Query: 109 GCLSS 113
           G + S
Sbjct: 191 GAVGS 195

Homo sapiens (taxid: 9606)

>sp|P63255|CRIP1_RAT Cysteine-rich protein 1 OS=Rattus norvegicus GN=Crip1 PE=1 SV=2

 Score = 89.0 bits (219), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 36/57 (63%), Positives = 43/57 (75%)

Query: 49  NSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERS 105
             +Y AER TSLGKDWH  CL+CE C KTL  G H+EH+GKPYCN+PCYSA+F  + 
Sbjct: 9   KEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKG 65

Seems to have a role in zinc absorption and may function as an intracellular zinc transport protein.

Rattus norvegicus (taxid: 10116)

>sp|P63254|CRIP1_MOUSE Cysteine-rich protein 1 OS=Mus musculus GN=Crip1 PE=2 SV=2

 Score = 89.0 bits (219), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 36/57 (63%), Positives = 43/57 (75%)

Query: 49  NSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERS 105
             +Y AER TSLGKDWH  CL+CE C KTL  G H+EH+GKPYCN+PCYSA+F  + 
Sbjct: 9   KEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKG 65

Seems to have a role in zinc absorption and may function as an intracellular zinc transport protein.

Mus musculus (taxid: 10090)

>sp|Q0VFX8|CRIP2_BOVIN Cysteine-rich protein 2 OS=Bos taurus GN=CRIP2 PE=2 SV=1

 Score = 89.0 bits (219), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 37/63 (58%), Positives = 44/63 (69%)

Query: 51  MYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGC 110
           +Y AE+ TSLGKDWH  CLRCE C KTL PG H+EHDG+PYC+ PCY  LF  +    G 
Sbjct: 133 VYFAEKVTSLGKDWHRPCLRCERCGKTLTPGGHAEHDGQPYCHKPCYGILFGPKGVNTGA 192

Query: 111 LSS 113
           + S
Sbjct: 193 VGS 195

Bos taurus (taxid: 9913)

>sp|Q56K04|CRIP1_BOVIN Cysteine-rich protein 1 OS=Bos taurus GN=CRIP1 PE=3 SV=3

 Score = 88.6 bits (218), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 35/57 (61%), Positives = 43/57 (75%)

Query: 49  NSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERS 105
             +Y AER TSLGKDWH  CL+CE C KTL  G H+EH+GKPYCN+PCY+A+F  + 
Sbjct: 9   KEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYAAMFGPKG 65

Seems to have a role in zinc absorption and may function as an intracellular zinc transport protein.

Bos taurus (taxid: 9913)

>sp|P50238|CRIP1_HUMAN Cysteine-rich protein 1 OS=Homo sapiens GN=CRIP1 PE=1 SV=3

 Score = 88.2 bits (217), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 35/57 (61%), Positives = 43/57 (75%)

Query: 49  NSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERS 105
             +Y AER TSLGKDWH  CL+CE C KTL  G H+EH+GKPYCN+PCY+A+F  + 
Sbjct: 9   KEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYAAMFGPKG 65

Seems to have a role in zinc absorption and may function as an intracellular zinc transport protein.

Homo sapiens (taxid: 9606)

>sp|Q5R7Y1|CRIP2_PONAB Cysteine-rich protein 2 OS=Pongo abelii GN=CRIP2 PE=2 SV=1

 Score = 86.7 bits (213), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 36/65 (55%), Positives = 43/65 (66%)

Query: 49  NSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFL 108
             +Y AE+ TSLGKDWH  CL CE C KTL PG H+EHDG+PYC+ PCY  LF  +    
Sbjct: 131 KKVYFAEKVTSLGKDWHRPCLHCERCGKTLTPGGHAEHDGQPYCHKPCYGILFGPKGVNT 190

Query: 109 GCLSS 113
           G + S
Sbjct: 191 GAVGS 195

Pongo abelii (taxid: 9601)

>sp|Q6Q6R3|CRIP3_MOUSE Cysteine-rich protein 3 OS=Mus musculus GN=Crip3 PE=2 SV=1

 Score = 80.1 bits (196), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 32/61 (52%), Positives = 43/61 (70%)

Query: 49  NSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFL 108
             +Y AE+ +SLGK+WH  CL+CE C+  L PG H+EH+G+PYC+ PCY ALF  R   +
Sbjct: 10  QPVYFAEKVSSLGKNWHRFCLKCERCHSILSPGGHAEHNGRPYCHKPCYGALFGPRGVNI 69

Query: 109 G 109
           G
Sbjct: 70  G 70

Mus musculus (taxid: 10090)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	201
340713170	78	PREDICTED: cysteine-rich protein 1-like	0.288	0.743	0.775	5e-20
110755704	78	PREDICTED: cysteine-rich protein 1-like	0.288	0.743	0.758	9e-20
307199868	78	Cysteine-rich protein 1 [Harpegnathos sa	0.288	0.743	0.758	1e-19
383850433	78	PREDICTED: cysteine-rich protein 1-like	0.288	0.743	0.724	3e-19
242010138	90	Cysteine-rich protein, putative [Pedicul	0.248	0.555	0.86	3e-19
91079426	77	PREDICTED: similar to MGC85360 protein [	0.298	0.779	0.7	5e-19
321466665	78	hypothetical protein DAPPUDRAFT_231122 [	0.288	0.743	0.724	2e-18
156555221	78	PREDICTED: cysteine-rich protein 1-like	0.248	0.641	0.8	5e-18
363736473	472	PREDICTED: uncharacterized protein LOC42	0.273	0.116	0.666	1e-17
429327037	78	putative cysteine-rich protein 1 [Coptot	0.288	0.743	0.689	2e-17

>gi|340713170|ref|XP_003395120.1| PREDICTED: cysteine-rich protein 1-like [Bombus terrestris] gi|350417101|ref|XP_003491257.1| PREDICTED: cysteine-rich protein 1-like [Bombus impatiens]

 Score =  103 bits (256), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 45/58 (77%), Positives = 48/58 (82%)

Query: 43  NAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSAL 100
           N       +Y AERKTSLGKDWHGSCLRCE CNKTL PGSHSEH+GKPYCN+PCYSAL
Sbjct: 3   NCPKCDKPVYFAERKTSLGKDWHGSCLRCEKCNKTLTPGSHSEHEGKPYCNHPCYSAL 60

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|110755704|ref|XP_001122454.1| PREDICTED: cysteine-rich protein 1-like [Apis mellifera] gi|380015513|ref|XP_003691745.1| PREDICTED: cysteine-rich protein 1-like [Apis florea]

 Score =  102 bits (254), Expect = 9e-20,   Method: Compositional matrix adjust.
 Identities = 44/58 (75%), Positives = 48/58 (82%)

Query: 43  NAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSAL 100
           N       +Y AERKTSLGKDWHGSCLRCE CNKTL PGSHSEH+GKPYCN+PCY+AL
Sbjct: 3   NCPKCDKPVYFAERKTSLGKDWHGSCLRCEKCNKTLTPGSHSEHEGKPYCNHPCYAAL 60

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307199868|gb|EFN80265.1| Cysteine-rich protein 1 [Harpegnathos saltator]

 Score =  102 bits (253), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 44/58 (75%), Positives = 48/58 (82%)

Query: 43  NAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSAL 100
           N       +Y AERKTSLGKDWHGSCLRCE CNKTL PGSH+EH+GKPYCN+PCYSAL
Sbjct: 3   NCPKCDKPVYFAERKTSLGKDWHGSCLRCEKCNKTLTPGSHAEHEGKPYCNHPCYSAL 60

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383850433|ref|XP_003700800.1| PREDICTED: cysteine-rich protein 1-like [Megachile rotundata]

 Score =  100 bits (250), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 42/58 (72%), Positives = 48/58 (82%)

Query: 43  NAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSAL 100
           N       +Y AERKTSLGKDWHG+CLRCE CNKTL PGSH+EH+GKPYCN+PCY+AL
Sbjct: 3   NCPKCDKPVYFAERKTSLGKDWHGACLRCEKCNKTLTPGSHAEHEGKPYCNHPCYAAL 60

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242010138|ref|XP_002425833.1| Cysteine-rich protein, putative [Pediculus humanus corporis] gi|212509766|gb|EEB13095.1| Cysteine-rich protein, putative [Pediculus humanus corporis]

 Score =  100 bits (249), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 43/50 (86%), Positives = 45/50 (90%)

Query: 51  MYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSAL 100
           +Y AERKTSLGKDWHG CL+CE CNKTLVPG HSEHDGKPYCN PCYSAL
Sbjct: 11  VYFAERKTSLGKDWHGVCLKCEKCNKTLVPGGHSEHDGKPYCNQPCYSAL 60

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91079426|ref|XP_967808.1| PREDICTED: similar to MGC85360 protein [Tribolium castaneum] gi|270004383|gb|EFA00831.1| hypothetical protein TcasGA2_TC003719 [Tribolium castaneum]

 Score = 99.8 bits (247), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 42/60 (70%), Positives = 46/60 (76%)

Query: 43  NAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFS 102
           N       +Y AERKTSLGKDWH  CLRCE CNKTL PGSH+EH+GKPYCN PCY+ALF 
Sbjct: 3   NCPKCDKPVYFAERKTSLGKDWHAGCLRCEKCNKTLTPGSHAEHEGKPYCNQPCYAALFG 62

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|321466665|gb|EFX77659.1| hypothetical protein DAPPUDRAFT_231122 [Daphnia pulex]

 Score = 97.8 bits (242), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 42/58 (72%), Positives = 46/58 (79%)

Query: 43  NAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSAL 100
           N       +Y AERKTSLGKDWHG CL+CE CNKTLVPG H+EH+GKPYCN PCYSAL
Sbjct: 3   NCPKCQKPVYFAERKTSLGKDWHGLCLKCEKCNKTLVPGQHAEHEGKPYCNNPCYSAL 60

Source: Daphnia pulex

Species: Daphnia pulex

Genus: Daphnia

Family: Daphniidae

Order: Diplostraca

Class: Branchiopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156555221|ref|XP_001601221.1| PREDICTED: cysteine-rich protein 1-like [Nasonia vitripennis]

 Score = 96.7 bits (239), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 40/50 (80%), Positives = 45/50 (90%)

Query: 51  MYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSAL 100
           +Y AERKTSLGKDWHG+CLRCE CNKTL PG H+EH+GKPYCN PCYSA+
Sbjct: 11  VYFAERKTSLGKDWHGACLRCEKCNKTLNPGGHAEHEGKPYCNNPCYSAM 60

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|363736473|ref|XP_422218.3| PREDICTED: uncharacterized protein LOC424374 [Gallus gallus]

 Score = 95.1 bits (235), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 38/57 (66%), Positives = 44/57 (77%)

Query: 49  NSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERS 105
             +Y AE+ TSLGKDWH  CLRCE CNKTL  G H+EHDGKPYCN+PCY+ALF  + 
Sbjct: 404 KEVYFAEKVTSLGKDWHRPCLRCEKCNKTLTSGGHAEHDGKPYCNHPCYAALFGPKG 460

Source: Gallus gallus

Species: Gallus gallus

Genus: Gallus

Family: Phasianidae

Order: Galliformes

Class: Aves

Phylum: Chordata

Superkingdom: Eukaryota

>gi|429327037|gb|AFZ78847.1| putative cysteine-rich protein 1 [Coptotermes formosanus]

 Score = 95.1 bits (235), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 40/58 (68%), Positives = 46/58 (79%)

Query: 43  NAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSAL 100
           N       +Y AERKTSLGKDWH +CLRCE CNKTL PG+H+EH+GKPYC+ PCYSAL
Sbjct: 3   NCPKCQKPVYFAERKTSLGKDWHSACLRCEKCNKTLTPGNHAEHEGKPYCHQPCYSAL 60

Source: Coptotermes formosanus

Species: Coptotermes formosanus

Genus: Coptotermes

Family: Rhinotermitidae

Order: Isoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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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	201
UNIPROTKB|F1N8J7	185	F1N8J7 "Uncharacterized protei	0.268	0.291	0.703	2.1e-20
UNIPROTKB|B9EPY4	89	CRIP1 "Cysteine-rich protein 1	0.268	0.606	0.740	3.5e-20
UNIPROTKB|C1BGH2	78	CRIP1 "Cysteine-rich protein 1	0.268	0.692	0.740	3.5e-20
UNIPROTKB|F6Y6R6	77	F6Y6R6 "Uncharacterized protei	0.268	0.701	0.703	4.4e-20
UNIPROTKB|G3UTH7	77	LOC100543477 "Uncharacterized	0.268	0.701	0.703	4.4e-20
UNIPROTKB|A4QNF7	77	crip1 "LOC100125153 protein" [	0.268	0.701	0.685	9.2e-20
UNIPROTKB|C1BW08	78	CRIP1 "Cysteine-rich protein 1	0.268	0.692	0.722	9.2e-20
UNIPROTKB|E2RE67	78	CRIP1 "Uncharacterized protein	0.283	0.730	0.649	1.2e-19
UNIPROTKB|B5X5E7	78	CRIP1 "Cysteine-rich protein 1	0.268	0.692	0.722	1.2e-19
UNIPROTKB|G1KVA2	77	LOC100555534 "Uncharacterized	0.268	0.701	0.685	1.5e-19

UNIPROTKB|F1N8J7 F1N8J7 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 241 (89.9 bits), Expect = 2.1e-20, P = 2.1e-20
 Identities = 38/54 (70%), Positives = 45/54 (83%)

Query:    51 MYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
             +Y AE+ TSLGKDWH  CLRCE C+KTL PG H+EHDGKPYCN+PCY+ALF  +
Sbjct:   119 VYFAEKVTSLGKDWHRPCLRCERCSKTLTPGGHAEHDGKPYCNHPCYAALFGPK 172

GO:0005938 "cell cortex" evidence=IEA

GO:0008284 "positive regulation of cell proliferation" evidence=IEA

GO:0030097 "hemopoiesis" evidence=IEA

GO:0031012 "extracellular matrix" evidence=IEA

GO:0006915 "apoptotic process" evidence=ISS

GO:0010043 "response to zinc ion" evidence=ISS

GO:0071236 "cellular response to antibiotic" evidence=ISS

GO:0071493 "cellular response to UV-B" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0003680 "AT DNA binding" evidence=ISS

GO:0008270 "zinc ion binding" evidence=ISS

GO:0008301 "DNA binding, bending" evidence=ISS

GO:0042277 "peptide binding" evidence=ISS

UNIPROTKB|B9EPY4 CRIP1 "Cysteine-rich protein 1" [Salmo salar (taxid:8030)]

 Score = 239 (89.2 bits), Expect = 3.5e-20, P = 3.5e-20
 Identities = 40/54 (74%), Positives = 44/54 (81%)

Query:    51 MYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
             +Y AER TSLGKDWH  CL+CE CNKTL  GSH+EHDGKPYCN PCYSALF  +
Sbjct:    22 VYFAERVTSLGKDWHRPCLKCEKCNKTLSAGSHAEHDGKPYCNSPCYSALFGPK 75

GO:0003680 "AT DNA binding" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0006915 "apoptotic process" evidence=ISS

GO:0008270 "zinc ion binding" evidence=ISS

GO:0008301 "DNA binding, bending" evidence=ISS

GO:0010043 "response to zinc ion" evidence=ISS

GO:0042277 "peptide binding" evidence=ISS

GO:0071236 "cellular response to antibiotic" evidence=ISS

GO:0071493 "cellular response to UV-B" evidence=ISS

UNIPROTKB|C1BGH2 CRIP1 "Cysteine-rich protein 1" [Oncorhynchus mykiss (taxid:8022)]

 Score = 239 (89.2 bits), Expect = 3.5e-20, P = 3.5e-20
 Identities = 40/54 (74%), Positives = 44/54 (81%)

Query:    51 MYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
             +Y AER TSLGKDWH  CL+CE CNKTL  GSH+EHDGKPYCN PCYSALF  +
Sbjct:    11 VYFAERVTSLGKDWHRPCLKCEKCNKTLSAGSHAEHDGKPYCNSPCYSALFGPK 64

GO:0003680 "AT DNA binding" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0006915 "apoptotic process" evidence=ISS

GO:0008270 "zinc ion binding" evidence=ISS

GO:0008301 "DNA binding, bending" evidence=ISS

GO:0010043 "response to zinc ion" evidence=ISS

GO:0042277 "peptide binding" evidence=ISS

GO:0071236 "cellular response to antibiotic" evidence=ISS

GO:0071493 "cellular response to UV-B" evidence=ISS

UNIPROTKB|F6Y6R6 F6Y6R6 "Uncharacterized protein" [Ornithorhynchus anatinus (taxid:9258)]

 Score = 238 (88.8 bits), Expect = 4.4e-20, P = 4.4e-20
 Identities = 38/54 (70%), Positives = 45/54 (83%)

Query:    51 MYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
             +Y AER TSLGKDWH  CL+CE CNKTL  GSH+EH+GKPYCN+PCY+ALF  +
Sbjct:    11 VYFAERVTSLGKDWHRPCLKCEKCNKTLTSGSHAEHEGKPYCNHPCYAALFGPK 64

GO:0003680 "AT DNA binding" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0006915 "apoptotic process" evidence=ISS

GO:0008270 "zinc ion binding" evidence=ISS

GO:0008301 "DNA binding, bending" evidence=ISS

GO:0010043 "response to zinc ion" evidence=ISS

GO:0042277 "peptide binding" evidence=ISS

GO:0071236 "cellular response to antibiotic" evidence=ISS

GO:0071493 "cellular response to UV-B" evidence=ISS

UNIPROTKB|G3UTH7 LOC100543477 "Uncharacterized protein" [Meleagris gallopavo (taxid:9103)]

 Score = 238 (88.8 bits), Expect = 4.4e-20, P = 4.4e-20
 Identities = 38/54 (70%), Positives = 44/54 (81%)

Query:    51 MYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
             +Y AE+ TSLGKDWH  CLRCE CNKTL  G H+EHDGKPYCN+PCY+ALF  +
Sbjct:    11 VYFAEKVTSLGKDWHRPCLRCEKCNKTLTSGGHAEHDGKPYCNHPCYAALFGPK 64

GO:0003680 "AT DNA binding" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0006915 "apoptotic process" evidence=ISS

GO:0008270 "zinc ion binding" evidence=ISS

GO:0008301 "DNA binding, bending" evidence=ISS

GO:0010043 "response to zinc ion" evidence=ISS

GO:0042277 "peptide binding" evidence=ISS

GO:0071236 "cellular response to antibiotic" evidence=ISS

GO:0071493 "cellular response to UV-B" evidence=ISS

UNIPROTKB|A4QNF7 crip1 "LOC100125153 protein" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 235 (87.8 bits), Expect = 9.2e-20, P = 9.2e-20
 Identities = 37/54 (68%), Positives = 45/54 (83%)

Query:    51 MYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
             +Y AE+ +SLGKDWH  CL+CE C+KTL PGSH+EHDGKPYCN PCY+ALF  +
Sbjct:    11 VYFAEKVSSLGKDWHRPCLKCEKCSKTLTPGSHAEHDGKPYCNQPCYAALFGPK 64

GO:0003680 "AT DNA binding" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0006915 "apoptotic process" evidence=ISS

GO:0008270 "zinc ion binding" evidence=ISS

GO:0008301 "DNA binding, bending" evidence=ISS

GO:0010043 "response to zinc ion" evidence=ISS

GO:0042277 "peptide binding" evidence=ISS

GO:0071236 "cellular response to antibiotic" evidence=ISS

GO:0071493 "cellular response to UV-B" evidence=ISS

UNIPROTKB|C1BW08 CRIP1 "Cysteine-rich protein 1" [Esox lucius (taxid:8010)]

 Score = 235 (87.8 bits), Expect = 9.2e-20, P = 9.2e-20
 Identities = 39/54 (72%), Positives = 43/54 (79%)

Query:    51 MYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
             +Y AER TSLGKDWH  CL+CE C KTL PGSH+EHDGKPYCN PCYSA F  +
Sbjct:    11 VYFAERVTSLGKDWHRPCLKCEKCGKTLSPGSHAEHDGKPYCNNPCYSAQFGPK 64

GO:0003680 "AT DNA binding" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0006915 "apoptotic process" evidence=ISS

GO:0008270 "zinc ion binding" evidence=ISS

GO:0008301 "DNA binding, bending" evidence=ISS

GO:0010043 "response to zinc ion" evidence=ISS

GO:0042277 "peptide binding" evidence=ISS

GO:0071236 "cellular response to antibiotic" evidence=ISS

GO:0071493 "cellular response to UV-B" evidence=ISS

UNIPROTKB|E2RE67 CRIP1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 234 (87.4 bits), Expect = 1.2e-19, P = 1.2e-19
 Identities = 37/57 (64%), Positives = 45/57 (78%)

Query:    51 MYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKF 107
             +Y AER TSLGKDWH  CL+CE C KTL  G H+EH+GKPYCN+PCYSA+F  ++ F
Sbjct:    11 VYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKAGF 67

GO:0042277 "peptide binding" evidence=ISS

GO:0008301 "DNA binding, bending" evidence=ISS

GO:0008270 "zinc ion binding" evidence=ISS

GO:0003680 "AT DNA binding" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0071493 "cellular response to UV-B" evidence=ISS

GO:0071236 "cellular response to antibiotic" evidence=ISS

GO:0010043 "response to zinc ion" evidence=ISS

GO:0006915 "apoptotic process" evidence=ISS

UNIPROTKB|B5X5E7 CRIP1 "Cysteine-rich protein 1" [Salmo salar (taxid:8030)]

 Score = 234 (87.4 bits), Expect = 1.2e-19, P = 1.2e-19
 Identities = 39/54 (72%), Positives = 44/54 (81%)

Query:    51 MYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
             +Y AER TSLGKDWH  CL+CE C+KTL  GSH+EHDGKPYCN PCYSALF  +
Sbjct:    11 VYFAERVTSLGKDWHRPCLKCEKCSKTLSAGSHAEHDGKPYCNNPCYSALFGPK 64

GO:0003680 "AT DNA binding" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0006915 "apoptotic process" evidence=ISS

GO:0008270 "zinc ion binding" evidence=ISS

GO:0008301 "DNA binding, bending" evidence=ISS

GO:0010043 "response to zinc ion" evidence=ISS

GO:0042277 "peptide binding" evidence=ISS

GO:0071236 "cellular response to antibiotic" evidence=ISS

GO:0071493 "cellular response to UV-B" evidence=ISS

UNIPROTKB|G1KVA2 LOC100555534 "Uncharacterized protein" [Anolis carolinensis (taxid:28377)]

 Score = 233 (87.1 bits), Expect = 1.5e-19, P = 1.5e-19
 Identities = 37/54 (68%), Positives = 44/54 (81%)

Query:    51 MYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
             +Y AE+ TSLGKDWH  CL+CE CNKTL  G H+EHDGKPYCN+PCY+ALF  +
Sbjct:    11 VYFAEKVTSLGKDWHRPCLKCEKCNKTLSAGGHAEHDGKPYCNHPCYAALFGPK 64

GO:0003680 "AT DNA binding" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0006915 "apoptotic process" evidence=ISS

GO:0008270 "zinc ion binding" evidence=ISS

GO:0008301 "DNA binding, bending" evidence=ISS

GO:0010043 "response to zinc ion" evidence=ISS

GO:0042277 "peptide binding" evidence=ISS

GO:0071236 "cellular response to antibiotic" evidence=ISS

GO:0071493 "cellular response to UV-B" evidence=ISS

---

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	201
cd09401	53	cd09401, LIM_TLP_like, The LIM domains of thymus L	6e-24
cd09478	54	cd09478, LIM_CRIP, The LIM domain of Cysteine-Rich	6e-24
cd09476	54	cd09476, LIM1_TLP, The first LIM domain of thymus	2e-19
cd09477	54	cd09477, LIM2_TLP, The second LIM domain of thymus	2e-18
cd09326	53	cd09326, LIM_CRP_like, The LIM domains of Cysteine	2e-11
pfam00412	58	pfam00412, LIM, LIM domain	8e-10
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	4e-08
cd09358	53	cd09358, LIM_Mical_like, The LIM domain of Mical (	5e-08
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	7e-08
cd09840	54	cd09840, LIM2_CRP2, The second LIM domain of Cyste	1e-07
cd09404	54	cd09404, LIM1_MLP84B_like, The LIM domain of Mlp84	2e-07
cd09403	54	cd09403, LIM2_CRP, The second LIM domain of Cystei	4e-07
cd09482	54	cd09482, LIM2_CRP3, The second LIM domain of Cyste	2e-06
cd09445	53	cd09445, LIM_Mical_like_2, This domain belongs to	1e-05
cd09359	53	cd09359, LIM_LASP_like, The LIM domain of LIM and	1e-05
cd09440	63	cd09440, LIM1_SF3, The first Lim domain of pollen	2e-05
cd09329	52	cd09329, LIM3_abLIM, The third LIM domain of actin	3e-05
cd09338	53	cd09338, LIM3_Paxillin_like, The third LIM domain	4e-05
cd09447	53	cd09447, LIM_LASP, The LIM domain of LIM and SH3 P	6e-05
cd09446	53	cd09446, LIM_N_RAP, The LIM domain of N-RAP	6e-05
cd09439	55	cd09439, LIM_Mical, The LIM domain of Mical (molec	7e-05
cd09334	54	cd09334, LIM4_PINCH, The fourth LIM domain of prot	1e-04
cd09345	54	cd09345, LIM2_FHL, The second LIM domain of Four a	1e-04
cd09409	53	cd09409, LIM3_Paxillin, The third LIM domain of pa	2e-04
cd09337	52	cd09337, LIM2_Paxillin_like, The second LIM domain	3e-04
cd09336	53	cd09336, LIM1_Paxillin_like, The first LIM domain	4e-04
cd09396	53	cd09396, LIM_DA1, The Lim domain of DA1	6e-04
cd09441	61	cd09441, LIM2_SF3, The second Lim domain of pollen	8e-04
cd09430	52	cd09430, LIM5_LIMPETin, The fifth LIM domain of pr	9e-04
cd09340	58	cd09340, LIM1_Testin_like, The first LIM domain of	0.001
cd09339	52	cd09339, LIM4_Paxillin_like, The fourth LIM domain	0.001
cd09364	53	cd09364, LIM1_LIMK, The first LIM domain of LIMK (	0.002
cd09414	58	cd09414, LIM1_LIMPETin, The first LIM domain of pr	0.003

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

 Score = 89.3 bits (222), Expect = 6e-24
 Identities = 34/46 (73%), Positives = 37/46 (80%), Gaps = 1/46 (2%)

Query: 52 YLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCY 97
          Y AE+KTSLG+DWH  CLRCE C KTL PG HSEH+GKPYCN  CY
Sbjct: 9  YFAEKKTSLGRDWHKPCLRCEKCKKTLTPGQHSEHEGKPYCN-KCY 53

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

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

 Score = 89.2 bits (221), Expect = 6e-24
 Identities = 36/47 (76%), Positives = 40/47 (85%)

Query: 51 MYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCY 97
          +Y AER TSLGKDWH  CL+CE C KTL PGSH+EHDGKPYCN+PCY
Sbjct: 8  VYFAERVTSLGKDWHRPCLKCEKCGKTLTPGSHAEHDGKPYCNHPCY 54

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

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

 Score = 77.7 bits (191), Expect = 2e-19
 Identities = 30/48 (62%), Positives = 39/48 (81%)

Query: 50 SMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCY 97
          ++Y AE+ +SLGK+WH  CL+CE C+K L PG H+EHDGKPYC+ PCY
Sbjct: 7  TVYFAEKVSSLGKNWHRFCLKCERCSKILSPGGHAEHDGKPYCHKPCY 54

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

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

 Score = 75.0 bits (184), Expect = 2e-18
 Identities = 28/47 (59%), Positives = 35/47 (74%)

Query: 51 MYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCY 97
          +Y AE+  SLG++WH  CLRC+ C KTL  G H+EHDG PYC+ PCY
Sbjct: 8  VYFAEKVMSLGRNWHRPCLRCQRCKKTLTAGGHAEHDGSPYCHVPCY 54

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

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

 Score = 56.8 bits (138), Expect = 2e-11
 Identities = 23/48 (47%), Positives = 28/48 (58%), Gaps = 1/48 (2%)

Query: 50 SMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCY 97
          S+Y AE   + GK WH SC  C  CNK L   + +EHDG+ YC   CY
Sbjct: 7  SVYAAEEVIAAGKSWHKSCFTCAVCNKRLDSTTLAEHDGEIYCK-SCY 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|215907 pfam00412, LIM, LIM domain

 Score = 52.3 bits (126), Expect = 8e-10
 Identities = 22/45 (48%), Positives = 25/45 (55%), Gaps = 1/45 (2%)

Query: 57  KTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALF 101
           + +LGK WH  C RC  C K L PG   E DGK YC +  Y  LF
Sbjct: 15  RRALGKVWHPECFRCAVCGKPLGPGDFFEKDGKLYCKH-DYFKLF 58

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

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

 Score = 47.8 bits (114), Expect = 4e-08
 Identities = 16/35 (45%), Positives = 19/35 (54%)

Query: 58 TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYC 92
           +LGK WH  C +C  C K L   +  E DGK YC
Sbjct: 17 RALGKVWHPECFKCATCGKPLSGDTFFEKDGKLYC 51

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

 Score = 47.6 bits (114), Expect = 5e-08
 Identities = 20/41 (48%), Positives = 27/41 (65%)

Query: 52 YLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYC 92
          Y  ER  + GK +H SC RC +CNKTL  G+++  +GK YC
Sbjct: 9  YPMERLVADGKLFHKSCFRCSHCNKTLRLGNYASLEGKLYC 49

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

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

 Score = 46.9 bits (112), Expect = 7e-08
 Identities = 21/43 (48%), Positives = 23/43 (53%), Gaps = 1/43 (2%)

Query: 55 ERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCY 97
          E   +LGK WH  C +C  C K L   S  E DGKPYC   CY
Sbjct: 12 ELLRALGKKWHPECFKCSVCGKPLGGDSFYEKDGKPYCE-KCY 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|188871 cd09840, LIM2_CRP2, The second LIM domain of Cysteine Rich Protein 2 (CRP2)

 Score = 46.3 bits (109), Expect = 1e-07
 Identities = 20/50 (40%), Positives = 30/50 (60%), Gaps = 1/50 (2%)

Query: 49 NSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYS 98
          +S+Y AE+    GK WH +C RC  C K+L   + +E +G+ YC   CY+
Sbjct: 6  DSVYAAEKIMGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCK-GCYA 54

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

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

 Score = 45.9 bits (109), Expect = 2e-07
 Identities = 19/48 (39%), Positives = 28/48 (58%), Gaps = 1/48 (2%)

Query: 50 SMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCY 97
          S+Y AE + + G  WH  C +C  CNK L   + +EH+G+ YC   C+
Sbjct: 8  SVYAAEERLAGGYKWHKMCFKCGMCNKLLDSTNCAEHEGELYCK-QCH 54

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

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

 Score = 44.9 bits (106), Expect = 4e-07
 Identities = 20/49 (40%), Positives = 29/49 (59%), Gaps = 1/49 (2%)

Query: 50 SMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYS 98
          S+Y AE+    GK WH +C RC  C K+L   + ++ DG+ YC   CY+
Sbjct: 7  SVYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLADKDGEIYCK-GCYA 54

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

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

 Score = 43.1 bits (101), Expect = 2e-06
 Identities = 20/49 (40%), Positives = 29/49 (59%), Gaps = 1/49 (2%)

Query: 50 SMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYS 98
          S+Y AE+    GK WH +C RC  C K+L   + ++ DG+ YC   CY+
Sbjct: 7  SVYAAEKVMGGGKPWHKTCFRCAICGKSLESTTVTDKDGELYCKV-CYA 54

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

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

 Score = 41.3 bits (97), Expect = 1e-05
 Identities = 12/30 (40%), Positives = 19/30 (63%)

Query: 64 WHGSCLRCENCNKTLVPGSHSEHDGKPYCN 93
          +H +C RC++CNK L   ++  H+G  YC 
Sbjct: 21 YHKNCFRCKDCNKQLKVDNYQSHEGNLYCK 50

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

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

 Score = 41.1 bits (96), Expect = 1e-05
 Identities = 17/43 (39%), Positives = 23/43 (53%)

Query: 51 MYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCN 93
          +Y  E+   L K WH +C  CE C  TL   ++  +  KPYCN
Sbjct: 8  VYPTEKVNCLDKTWHKACFHCEVCKMTLNMNNYKGYQKKPYCN 50

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

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

 Score = 40.9 bits (96), Expect = 2e-05
 Identities = 19/54 (35%), Positives = 31/54 (57%), Gaps = 1/54 (1%)

Query: 50  SMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSE 103
           ++YL ++ ++ G  +H SC RC +C  TL   ++S  +G  YC  P +  LF E
Sbjct: 11  TVYLVDQLSADGVVYHKSCFRCSHCKGTLKLSNYSSMEGVLYCK-PHFEQLFKE 63

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

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

 Score = 40.0 bits (94), Expect = 3e-05
 Identities = 16/33 (48%), Positives = 19/33 (57%), Gaps = 1/33 (3%)

Query: 60 LGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYC 92
          L K WH  C +C+ C K L  G +   DGKPYC
Sbjct: 17 LDKQWHVWCFKCKECGKVL-TGEYMGKDGKPYC 48

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

 Score = 39.6 bits (93), Expect = 4e-05
 Identities = 15/35 (42%), Positives = 20/35 (57%)

Query: 58 TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYC 92
          ++L   WH  C  C  C+K  + GS  EH+G PYC
Sbjct: 14 SALNTQWHPECFVCRECHKPFINGSFFEHEGLPYC 48

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

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

 Score = 38.9 bits (91), Expect = 6e-05
 Identities = 17/42 (40%), Positives = 23/42 (54%)

Query: 52 YLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCN 93
          Y  E+   L K WH  C +CE C  TL   ++  ++ KPYCN
Sbjct: 9  YPTEKLNCLDKIWHKGCFKCEVCGMTLNMKNYKGYNKKPYCN 50

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

>gnl|CDD|188830 cd09446, LIM_N_RAP, The LIM domain of N-RAP

 Score = 39.1 bits (91), Expect = 6e-05
 Identities = 15/41 (36%), Positives = 20/41 (48%)

Query: 52 YLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYC 92
          Y AE+   + + WH +C  CE C   L   +   H  KPYC
Sbjct: 9  YPAEKINCIDQTWHKACFHCEVCKMMLTVNNFVSHQKKPYC 49

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

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

 Score = 38.8 bits (91), Expect = 7e-05
 Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 2/43 (4%)

Query: 52 YLAERKTSLGKDWHGSCLRCENCNKTLVPGSHS--EHDGKPYC 92
          Y+ ER ++ G  +H SC +C  C  TL  G+++    DGK YC
Sbjct: 9  YVMERLSAEGLFFHRSCFKCSYCGTTLRLGAYAFDRDDGKFYC 51

The LIM domain of Mical (molecule interacting with CasL): MICAL is a large, multidomain, cytosolic protein with a single LIM domain, a calponin homology (CH) domain and a flavoprotein monooxygenase domain. In Drosophila, MICAL is expressed in axons, interacts with the neuronal A (PlexA) receptor and is required for Semapho-rin 1a (Sema-1a)-PlexA-mediated repulsive axon guidance. The LIM domain and calporin homology domain are known for interactions with the cytoskeleton, cytoskeletal adaptor proteins, and other signaling proteins. The flavoprotein monooxygenase (MO) is required for semaphorin-plexin repulsive axon guidance during axonal pathfinding in the Drosophila neuromuscular system. In addition, MICAL was characterized to interact with Rab13 and Rab8 to coordinate the assembly of tight junctions and adherens junctions in epithelial cells. Thus, MICAL was also named junctional Rab13-binding protein (JRAB). As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 55

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

 Score = 38.5 bits (90), Expect = 1e-04
 Identities = 14/35 (40%), Positives = 16/35 (45%)

Query: 58 TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYC 92
          T+LGK WH     C  C K  +   H E  G  YC
Sbjct: 16 TALGKHWHVEHFVCAKCEKPFLGHRHYEKKGLAYC 50

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

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

 Score = 38.4 bits (90), Expect = 1e-04
 Identities = 16/37 (43%), Positives = 17/37 (45%), Gaps = 1/37 (2%)

Query: 61 GKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCY 97
          GK WH  C  C  C K +   S    D K YC  PCY
Sbjct: 19 GKFWHEKCFTCSECKKPIGTKSFIPKDDKIYCV-PCY 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|188793 cd09409, LIM3_Paxillin, The third LIM domain of paxillin

 Score = 37.5 bits (87), Expect = 2e-04
 Identities = 16/35 (45%), Positives = 19/35 (54%)

Query: 58 TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYC 92
          ++L   WH  C  C  C    V GS  EHDG+PYC
Sbjct: 14 SALNTLWHPECFVCRECFTPFVNGSFFEHDGQPYC 48

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

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

 Score = 37.0 bits (86), Expect = 3e-04
 Identities = 15/35 (42%), Positives = 16/35 (45%)

Query: 58 TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYC 92
          T+L K WH     C  C K        E DGKPYC
Sbjct: 14 TALDKTWHPEHFFCAQCGKPFGDEGFHEKDGKPYC 48

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

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

 Score = 36.9 bits (86), Expect = 4e-04
 Identities = 15/35 (42%), Positives = 18/35 (51%)

Query: 58 TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYC 92
          T+LGK WH     C  C   L   +  E DG+PYC
Sbjct: 14 TALGKTWHPEHFVCAECKTELGTKNFFERDGQPYC 48

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|188782 cd09396, LIM_DA1, The Lim domain of DA1

 Score = 36.1 bits (84), Expect = 6e-04
 Identities = 14/38 (36%), Positives = 16/38 (42%), Gaps = 1/38 (2%)

Query: 60 LGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCY 97
          LG  WH  C RC  C K +     S     PY +  CY
Sbjct: 17 LGAVWHPECFRCHACRKPIAEHEFSVSGNDPY-HKSCY 53

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

>gnl|CDD|188825 cd09441, LIM2_SF3, The second Lim domain of pollen specific protein SF3

 Score = 36.3 bits (84), Expect = 8e-04
 Identities = 18/57 (31%), Positives = 32/57 (56%), Gaps = 1/57 (1%)

Query: 48  PNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
             ++Y  E+ T  G  +H SC +C +   T+ P +++ H+G+ YC    +S LF E+
Sbjct: 5   GKTVYPIEKVTVEGTSYHKSCFKCSHGGCTISPSNYAAHEGRLYCK-HHHSQLFKEK 60

The second Lim domain of pollen specific protein SF3: SF3 is a Lim protein that is found exclusively in mature plant pollen grains. It contains two LIM domains. The exact function of SF3 is unknown. It may be a transcription factor required for the expression of late pollen genes. It is possible that SF3 protein is involved in controlling pollen-specific processes such as male gamete maturation, pollen tube formation, or even fertilization. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 61

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

 Score = 35.9 bits (83), Expect = 9e-04
 Identities = 14/35 (40%), Positives = 18/35 (51%)

Query: 58 TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYC 92
          T   + WH  C  C NC+K+L     +  D KPYC
Sbjct: 14 TYKNEPWHRECFTCTNCSKSLAGQRFTSRDEKPYC 48

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

 Score = 35.7 bits (83), Expect = 0.001
 Identities = 20/41 (48%), Positives = 23/41 (56%), Gaps = 5/41 (12%)

Query: 54 AERKTSLGKD--WHGSCLRCENCNKTLVPGSHSEHDGKPYC 92
          AER    G+D  WH  C  CE CN+ LV   +  HDGK YC
Sbjct: 17 AERA---GEDACWHPGCFVCETCNELLVDLIYFYHDGKIYC 54

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

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

 Score = 35.4 bits (82), Expect = 0.001
 Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 1/40 (2%)

Query: 58 TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCY 97
          T++G+ +H     C  C K L  G+  E D KPYC+ PC+
Sbjct: 14 TAMGRKFHPEHFVCAFCLKQLSKGTFKEQDDKPYCH-PCF 52

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

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

 Score = 34.8 bits (80), Expect = 0.002
 Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 1/44 (2%)

Query: 49 NSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYC 92
            +  ++   +L +DWH  C RC  C+ +L    + E DGK YC
Sbjct: 6  GKILDSQYVQALNQDWHCDCFRCSVCSDSL-SNWYFEKDGKLYC 48

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

>gnl|CDD|188798 cd09414, LIM1_LIMPETin, The first LIM domain of protein LIMPETin

 Score = 34.7 bits (80), Expect = 0.003
 Identities = 13/45 (28%), Positives = 20/45 (44%)

Query: 48 PNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYC 92
             + +   K      WH +C RC  C + LV  ++  HD + YC
Sbjct: 10 YGELAVTAPKFGESLLWHPACFRCSTCEELLVDLTYCVHDDQIYC 54

The first 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 = 58

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	201
KOG2272|consensus	332		99.86
KOG1701|consensus	468		99.84
KOG2272|consensus	332		99.8
KOG1044|consensus	670		99.74
KOG1044|consensus	670		99.68
KOG1701|consensus	468		99.65
KOG1703|consensus	479		99.59
KOG1703|consensus	479		99.51
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.44
KOG4577|consensus	383		99.35
KOG1700|consensus	200		98.56
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.53
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	98.52
KOG4577|consensus	383		98.24
KOG1702|consensus	264		97.99
KOG1700|consensus	200		97.64
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	95.97
KOG0490|consensus	235		93.5

>KOG2272|consensus

Probab=99.86  E-value=3.3e-23  Score=171.36  Aligned_cols=166  Identities=14%  Similarity=0.242  Sum_probs=135.7

Q ss_pred             eeeeceeeccCCCcccCCCcccccC------------------------------------CCCCeeeecceEEeCCCcc
Q psy2231          21 AMILDLLLSSSGRRYVLQHHTSNAI------------------------------------NLPNSMYLAERKTSLGKDW   64 (201)
Q Consensus        21 ~~~~~~~~~a~g~~~h~~cf~C~cc------------------------------------~C~~~i~~~~~v~a~g~~w   64 (201)
                      |+|.|++|.||+.+|||+||+|+-|                                    +|... |+.+.++..|..|
T Consensus        81 EFiiGrVikamnnSwHp~CF~Cd~Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~-iD~~~l~fr~d~y  159 (332)
T KOG2272|consen   81 EFIIGRVIKAMNNSWHPACFRCDLCNKHLADQGFYRNQGRALCRECNQKEKAKGRGRYVCQKCHAH-IDEQPLTFRGDPY  159 (332)
T ss_pred             cchhhHHHHhhccccCcccchhHHHHHHHhhhhhHhhcchHHhhhhhhhhcccccceeehhhhhhh-cccccccccCCCC
Confidence            5889999999999999999999887                                    24444 4667899999999


Q ss_pred             cCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCc---------------------eeeCCCCccccCCcEE
Q psy2231          65 HGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKF---------------------LGCLSSVCSILSQTFY  123 (201)
Q Consensus        65 H~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~---------------------F~C~~C~~~l~~~~f~  123 (201)
                      |+.+|+|..|++.|... -.+..|++|| ..|+.++--|.|..                     |+|+.|.+|+.|..-+
T Consensus       160 H~yHFkCt~C~keL~sd-aRevk~eLyC-lrChD~mgipiCgaC~rpIeervi~amgKhWHveHFvCa~CekPFlGHrHY  237 (332)
T KOG2272|consen  160 HPYHFKCTTCGKELTSD-AREVKGELYC-LRCHDKMGIPICGACRRPIEERVIFAMGKHWHVEHFVCAKCEKPFLGHRHY  237 (332)
T ss_pred             Cccceecccccccccch-hhhhccceec-cccccccCCcccccccCchHHHHHHHhccccchhheeehhcCCcccchhhh
Confidence            99999999999999764 3467889999 79999988888763                     9999999999999999


Q ss_pred             EeCCeeeeccCCchhhhhhhcCCCCCCCCCcccCcceeecce-eeccccCcceeeeeeeCCcc-eEEEeecCcc
Q psy2231         124 SLSVDLYHASMHLRSDCLSMYGGKGNTSHTMIPDTYITQVTI-VIARCLSSVYSIQLVKPSIR-YRLTYIMPPC  195 (201)
Q Consensus       124 ~~~g~~yH~~~~C~~~y~~~~~~~C~~C~~~I~~~~i~a~~~-~~~~c~~~~~~~~~~~~~~~-~~~~~~~~~~  195 (201)
                      ++.|+.|     |+.||.++|+..|..|+++|.+++++|+++ ++-.|.+ +....++.-.+. |--+-.||-|
T Consensus       238 EkkGlaY-----Ce~h~~qLfG~~CF~C~~~i~G~vv~al~KawCv~cf~-Cs~Cdkkl~~K~Kf~E~DmkP~C  305 (332)
T KOG2272|consen  238 EKKGLAY-----CETHYHQLFGNLCFICNRVIGGDVVSALNKAWCVECFS-CSTCDKKLTQKNKFYEFDMKPVC  305 (332)
T ss_pred             hhcCchh-----HHHHHHHHhhhhheecCCccCccHHHHhhhhhcccccc-ccccccccccccceeeeccchHH
Confidence            9999999     999999999999999999999999999996 5666643 223333333333 2224445555

>KOG1701|consensus

Probab=99.84  E-value=3.7e-22  Score=175.21  Aligned_cols=108  Identities=18%  Similarity=0.367  Sum_probs=97.7

Q ss_pred             ccCCCCCeeeecc-eEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccc---------------------
Q psy2231          43 NAINLPNSMYLAE-RKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSAL---------------------  100 (201)
Q Consensus        43 ~cc~C~~~i~~~~-~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~---------------------  100 (201)
                      .|.+|+|.|...+ .+.||++.||.+||+|..|++.|.++.||..|+++||| .||++.                     
T Consensus       276 iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~v~~k~~CE-~cyq~tlekC~~Cg~~I~d~iLrA~Gk  354 (468)
T KOG1701|consen  276 ICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQVDGKPYCE-GCYQDTLEKCNKCGEPIMDRILRALGK  354 (468)
T ss_pred             hhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccccccCCcccch-HHHHHHHHHHhhhhhHHHHHHHHhccc
Confidence            7999999986554 38999999999999999999999999999999999997 999753                     


Q ss_pred             -cCCccCceeeCCCCccccCCcEEE-eCCeeeeccCCchhhhhhhcCCCCCCCCCcccCc
Q psy2231         101 -FSERSKFLGCLSSVCSILSQTFYS-LSVDLYHASMHLRSDCLSMYGGKGNTSHTMIPDT  158 (201)
Q Consensus       101 -~~p~C~~F~C~~C~~~l~~~~f~~-~~g~~yH~~~~C~~~y~~~~~~~C~~C~~~I~~~  158 (201)
                       |+|.|  |+|..|++.|+|..|.. .++++|     |.+||+++||++|+.|++||+++
T Consensus       355 ayHp~C--F~Cv~C~r~ldgipFtvd~~n~v~-----Cv~dfh~kfAPrCs~C~~PI~P~  407 (468)
T KOG1701|consen  355 AYHPGC--FTCVVCARCLDGIPFTVDSQNNVY-----CVPDFHKKFAPRCSVCGNPILPR  407 (468)
T ss_pred             ccCCCc--eEEEEeccccCCccccccCCCcee-----eehhhhhhcCcchhhccCCccCC
Confidence             67778  99999999999999874 667777     99999999999999999999864

>KOG2272|consensus

Probab=99.80  E-value=2.4e-22  Score=166.22  Aligned_cols=151  Identities=17%  Similarity=0.315  Sum_probs=125.4

Q ss_pred             CcccCcccceeeeeceeeccCCCcccCCCcccccC-------------------------------CCCCeeeecceEEe
Q psy2231          11 NSRGAGLQQYAMILDLLLSSSGRRYVLQHHTSNAI-------------------------------NLPNSMYLAERKTS   59 (201)
Q Consensus        11 ~~~~~~~~~~~~~~~~~~~a~g~~~h~~cf~C~cc-------------------------------~C~~~i~~~~~v~a   59 (201)
                      .+.+.|...    .+++++++|..||.+||+|+.|                               +|++.| .|++|.|
T Consensus        16 ~RC~~gF~~----~e~~vns~ge~wH~~CFvCAQCf~pf~~g~~~efEgRkYCEhDF~~LfaPcC~kC~EFi-iGrVika   90 (332)
T KOG2272|consen   16 ERCRDGFEP----AEKIVNSNGELWHEQCFVCAQCFRPFPDGIFYEFEGRKYCEHDFHVLFAPCCGKCGEFI-IGRVIKA   90 (332)
T ss_pred             HHHhccCCc----hhhhhccCchhhHHHHHHHHHhcCcCCCceeEEecCcccccccchhhhchhhcccccch-hhHHHHh
Confidence            344445543    6788999999999999999888                               588874 6899999


Q ss_pred             CCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccC--------CccCc------------------eeeCCC
Q psy2231          60 LGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFS--------ERSKF------------------LGCLSS  113 (201)
Q Consensus        60 ~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~--------p~C~~------------------F~C~~C  113 (201)
                      ++.+||+.||+|..|++.|.+..|+...|+.+| .+|.++.-+        .+|.+                  |.|.+|
T Consensus        91 mnnSwHp~CF~Cd~Cn~~Lad~gf~rnqgr~LC-~~Cn~k~Ka~~~g~YvC~KCh~~iD~~~l~fr~d~yH~yHFkCt~C  169 (332)
T KOG2272|consen   91 MNNSWHPACFRCDLCNKHLADQGFYRNQGRALC-RECNQKEKAKGRGRYVCQKCHAHIDEQPLTFRGDPYHPYHFKCTTC  169 (332)
T ss_pred             hccccCcccchhHHHHHHHhhhhhHhhcchHHh-hhhhhhhcccccceeehhhhhhhcccccccccCCCCCccceecccc
Confidence            999999999999999999999999999999999 599877321        12221                  889999


Q ss_pred             CccccCCcEEEeCCeeeeccCCchhhhhhhcCCCCCCCCCcccCcceeecc-------eeeccccCc
Q psy2231         114 VCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKGNTSHTMIPDTYITQVT-------IVIARCLSS  173 (201)
Q Consensus       114 ~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C~~C~~~I~~~~i~a~~-------~~~~~c~~~  173 (201)
                      ++.|... -.+..|.+|     |..|++++--++|..|.+||.+++|.|++       +++|.|.+-
T Consensus       170 ~keL~sd-aRevk~eLy-----ClrChD~mgipiCgaC~rpIeervi~amgKhWHveHFvCa~CekP  230 (332)
T KOG2272|consen  170 GKELTSD-AREVKGELY-----CLRCHDKMGIPICGACRRPIEERVIFAMGKHWHVEHFVCAKCEKP  230 (332)
T ss_pred             cccccch-hhhhcccee-----ccccccccCCcccccccCchHHHHHHHhccccchhheeehhcCCc
Confidence            9888764 355677788     99999999999999999999999999998       577888543

>KOG1044|consensus

Probab=99.74  E-value=4.3e-19  Score=160.69  Aligned_cols=139  Identities=19%  Similarity=0.369  Sum_probs=114.7

Q ss_pred             eeeeeceeeccCCCcccCCCcccccC----------------------------------------CCCCeeeecceEEe
Q psy2231          20 YAMILDLLLSSSGRRYVLQHHTSNAI----------------------------------------NLPNSMYLAERKTS   59 (201)
Q Consensus        20 ~~~~~~~~~~a~g~~~h~~cf~C~cc----------------------------------------~C~~~i~~~~~v~a   59 (201)
                      -++++|++|+++|+.||+.||+|.-|                                        +|++.|..|+.+.|
T Consensus        72 ~~~~~gevvsa~gktyh~~cf~cs~ck~pf~~g~~vt~~gk~~~c~~c~~~~~~~p~~~~~ps~cagc~~~lk~gq~lla  151 (670)
T KOG1044|consen   72 RAFVEGEVVSTLGKTYHPKCFSCSTCKSPFKSGDKVTFSGKECLCQTCSQPMPVSPAESYGPSTCAGCGEELKNGQALLA  151 (670)
T ss_pred             hhhccceeEecccceeccccceecccCCCCCCCCeeeecchhhhhhhhcCcccCCcccccCCccccchhhhhhccceeee
Confidence            34778999999999999999999877                                        58888888999999


Q ss_pred             CCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCchhh
Q psy2231          60 LGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSD  139 (201)
Q Consensus        60 ~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~  139 (201)
                      +++.||..||+|..|+..|.+ .|+.++|.|||| .||++.|+-+|     ..|.+.|.|.... ..|+.||+.  |   
T Consensus       152 ld~qwhv~cfkc~~c~~vL~g-ey~skdg~pyce-~dy~~~fgvkc-----~~c~~fisgkvLq-ag~kh~HPt--C---  218 (670)
T KOG1044|consen  152 LDKQWHVSCFKCKSCSAVLNG-EYMSKDGVPYCE-KDYQAKFGVKC-----EECEKFISGKVLQ-AGDKHFHPT--C---  218 (670)
T ss_pred             eccceeeeeeehhhhcccccc-eeeccCCCcchh-hhhhhhcCeeh-----HHhhhhhhhhhhh-ccCcccCcc--h---
Confidence            999999999999999999965 799999999996 99999999665     7888899886544 455777665  3   


Q ss_pred             hhhhcCCCCCCCCCcccCc---ceeecceeeccccCcceee
Q psy2231         140 CLSMYGGKGNTSHTMIPDT---YITQVTIVIARCLSSVYSI  177 (201)
Q Consensus       140 y~~~~~~~C~~C~~~I~~~---~i~a~~~~~~~c~~~~~~~  177 (201)
                            .+|..|+++++++   +++--.+||.+|--+-...
T Consensus       219 ------ARCsRCgqmF~eGEEMYlQGs~iWHP~C~qa~~tE  253 (670)
T KOG1044|consen  219 ------ARCSRCGQMFGEGEEMYLQGSEIWHPDCKQATKTE  253 (670)
T ss_pred             ------hhhhhhccccccchheeeccccccCCccccccchh
Confidence                  3789999999864   4555568899995443333

>KOG1044|consensus

Probab=99.68  E-value=1.9e-17  Score=150.08  Aligned_cols=143  Identities=17%  Similarity=0.342  Sum_probs=116.6

Q ss_pred             eeeeceeeccCCCcccCCCcccccCCCCCe--------------------eeecceEEeCCCcccCCCcccCCCCCcCCC
Q psy2231          21 AMILDLLLSSSGRRYVLQHHTSNAINLPNS--------------------MYLAERKTSLGKDWHGSCLRCENCNKTLVP   80 (201)
Q Consensus        21 ~~~~~~~~~a~g~~~h~~cf~C~cc~C~~~--------------------i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~   80 (201)
                      +...|+++++.++.||+.||+|.-|+|+..                    ++.+++|.++|++||+.||.|+.|+.++..
T Consensus        24 ~kc~gevlrv~d~~fhi~cf~c~~cg~~la~~gff~k~~~~~ygt~~c~~~~~gevvsa~gktyh~~cf~cs~ck~pf~~  103 (670)
T KOG1044|consen   24 KKCSGEVLRVNDNHFHINCFQCKKCGRNLAEGGFFTKPENRLYGTDDCRAFVEGEVVSTLGKTYHPKCFSCSTCKSPFKS  103 (670)
T ss_pred             CccccceeEeeccccceeeeeccccCCCcccccceecccceeecccchhhhccceeEecccceeccccceecccCCCCCC
Confidence            346799999999999999999988865432                    235678999999999999999999999987


Q ss_pred             CceeeeCC-eeeecCCccccc-------cC-CccCc----------------------eeeCCCCccccCCcEEEeCCee
Q psy2231          81 GSHSEHDG-KPYCNYPCYSAL-------FS-ERSKF----------------------LGCLSSVCSILSQTFYSLSVDL  129 (201)
Q Consensus        81 ~~f~~~~g-~~yCe~~cy~~~-------~~-p~C~~----------------------F~C~~C~~~l~~~~f~~~~g~~  129 (201)
                      +.-....| ...|+ .|-+-.       ++ ..|++                      |.|..|...|.| +++.+||.+
T Consensus       104 g~~vt~~gk~~~c~-~c~~~~~~~p~~~~~ps~cagc~~~lk~gq~llald~qwhv~cfkc~~c~~vL~g-ey~skdg~p  181 (670)
T KOG1044|consen  104 GDKVTFSGKECLCQ-TCSQPMPVSPAESYGPSTCAGCGEELKNGQALLALDKQWHVSCFKCKSCSAVLNG-EYMSKDGVP  181 (670)
T ss_pred             CCeeeecchhhhhh-hhcCcccCCcccccCCccccchhhhhhccceeeeeccceeeeeeehhhhcccccc-eeeccCCCc
Confidence            76555555 46784 775422       11 12332                      999999998877 588999999


Q ss_pred             eeccCCchhhhhhhcCCCCCCCCCcccCcceeecce----eeccc
Q psy2231         130 YHASMHLRSDCLSMYGGKGNTSHTMIPDTYITQVTI----VIARC  170 (201)
Q Consensus       130 yH~~~~C~~~y~~~~~~~C~~C~~~I~~~~i~a~~~----~~~~c  170 (201)
                      |     |+.||.+.|+.+|..|.+.|.+++++|.|.    -||||
T Consensus       182 y-----ce~dy~~~fgvkc~~c~~fisgkvLqag~kh~HPtCARC  221 (670)
T KOG1044|consen  182 Y-----CEKDYQAKFGVKCEECEKFISGKVLQAGDKHFHPTCARC  221 (670)
T ss_pred             c-----hhhhhhhhcCeehHHhhhhhhhhhhhccCcccCcchhhh
Confidence            9     999999999999999999999999999994    36666

>KOG1701|consensus

Probab=99.65  E-value=1.8e-17  Score=145.93  Aligned_cols=113  Identities=17%  Similarity=0.253  Sum_probs=89.8

Q ss_pred             cccceeeeeceeeccCCCcccCCCcccccC------------------------------CCCCeeeecceEEeCCCccc
Q psy2231          16 GLQQYAMILDLLLSSSGRRYVLQHHTSNAI------------------------------NLPNSMYLAERKTSLGKDWH   65 (201)
Q Consensus        16 ~~~~~~~~~~~~~~a~g~~~h~~cf~C~cc------------------------------~C~~~i~~~~~v~a~g~~wH   65 (201)
                      +..+...-.+..++||++.||..||+|.-|                              .|++.| .+..|.|+|+.||
T Consensus       279 ~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~v~~k~~CE~cyq~tlekC~~Cg~~I-~d~iLrA~GkayH  357 (468)
T KOG1701|consen  279 FCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQVDGKPYCEGCYQDTLEKCNKCGEPI-MDRILRALGKAYH  357 (468)
T ss_pred             hcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccccccCCcccchHHHHHHHHHHhhhhhHH-HHHHHHhcccccC
Confidence            333433445678899999999999999887                              477774 5667999999999


Q ss_pred             CCCcccCCCCCcCCCCceee-eCCeeeecCCccccccCCccCceeeCCCCccccCCc------EEEeCCeeeeccCC
Q psy2231          66 GSCLRCENCNKTLVPGSHSE-HDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQT------FYSLSVDLYHASMH  135 (201)
Q Consensus        66 ~~CF~C~~C~~~L~~~~f~~-~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~------f~~~~g~~yH~~~~  135 (201)
                      +.||+|..|.+.|++..|.. .++++|| .+||+++|+|+|     +.|.++|..++      -+..-++-||..+|
T Consensus       358 p~CF~Cv~C~r~ldgipFtvd~~n~v~C-v~dfh~kfAPrC-----s~C~~PI~P~~G~~etvRvvamdr~fHv~CY  428 (468)
T KOG1701|consen  358 PGCFTCVVCARCLDGIPFTVDSQNNVYC-VPDFHKKFAPRC-----SVCGNPILPRDGKDETVRVVAMDRDFHVNCY  428 (468)
T ss_pred             CCceEEEEeccccCCccccccCCCceee-ehhhhhhcCcch-----hhccCCccCCCCCcceEEEEEccccccccce
Confidence            99999999999999998885 5779999 799999999987     77888886542      12333466887655

>KOG1703|consensus

Probab=99.59  E-value=3.2e-16  Score=143.53  Aligned_cols=115  Identities=24%  Similarity=0.522  Sum_probs=94.5

Q ss_pred             cccCcccceeeeec-eeeccCCCcccCCCcccccC-------------------------------CCCCeeeecceEEe
Q psy2231          12 SRGAGLQQYAMILD-LLLSSSGRRYVLQHHTSNAI-------------------------------NLPNSMYLAERKTS   59 (201)
Q Consensus        12 ~~~~~~~~~~~~~~-~~~~a~g~~~h~~cf~C~cc-------------------------------~C~~~i~~~~~v~a   59 (201)
                      +++++...  .|.+ +++.++++.||+++|.|.-+                               +|+++| .++.|.|
T Consensus       304 p~c~~c~~--~i~~~~~i~~~~~~~h~~~~~c~~~~~~~~~~~~~~~~g~~~c~~~~~~~~~p~C~~C~~~i-~~~~v~a  380 (479)
T KOG1703|consen  304 PLCLSCNQ--KIRSVKVIVALGKEWHPEHFSCEVCAIVILDGGPRELDGKILCHECFHAPFRPNCKRCLLPI-LEEGVCA  380 (479)
T ss_pred             cccccccc--CcccceeEeeccccccccceeeccccccccCCCccccCCCccHHHHHHHhhCccccccCCch-HHhHhhh
Confidence            33444333  5667 99999999999999998877                               588884 6788999


Q ss_pred             CCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCc-----------------------eeeCCCCcc
Q psy2231          60 LGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKF-----------------------LGCLSSVCS  116 (201)
Q Consensus        60 ~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~-----------------------F~C~~C~~~  116 (201)
                      +++.||++||.|..|+++|....|+..+|.|||| .||.+++.++|..                       |+|+.|.+.
T Consensus       381 ~~~~wH~~cf~C~~C~~~~~~~~~~~~~~~pyce-~~~~~~~~~~~~~~~~p~~~~~~~ie~~~~~~h~~~F~c~~c~~~  459 (479)
T KOG1703|consen  381 LGRLWHPECFVCADCGKPLKNSSFFESDGEPYCE-DHYKKLFTTKCDYCKKPVEFGSRQIEADGSPFHGDCFRCANCMKK  459 (479)
T ss_pred             ccCeechhceeeecccCCCCCCcccccCCccchh-hhHhhhccccchhccchhHhhhhHhhccCccccccceehhhhhcc
Confidence            9999999999999999999999999999999996 9999999877632                       667777777


Q ss_pred             ccCCcEEEeCCeee
Q psy2231         117 ILSQTFYSLSVDLY  130 (201)
Q Consensus       117 l~~~~f~~~~g~~y  130 (201)
                      |.++.|++..++++
T Consensus       460 l~~~~~~~~~~~p~  473 (479)
T KOG1703|consen  460 LTKKTFFETLDKPL  473 (479)
T ss_pred             ccCCceeecCCccc
Confidence            76666666666666

>KOG1703|consensus

Probab=99.51  E-value=7.4e-15  Score=134.61  Aligned_cols=129  Identities=19%  Similarity=0.378  Sum_probs=113.6

Q ss_pred             cccccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCc------------
Q psy2231          40 HTSNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKF------------  107 (201)
Q Consensus        40 f~C~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~------------  107 (201)
                      ++-.|..|++.|...+.+.++++.||+.+|.|+.|+..+....|...+|++|| ..||.+.+.|.|.+            
T Consensus       302 ~~p~c~~c~~~i~~~~~i~~~~~~~h~~~~~c~~~~~~~~~~~~~~~~g~~~c-~~~~~~~~~p~C~~C~~~i~~~~v~a  380 (479)
T KOG1703|consen  302 TRPLCLSCNQKIRSVKVIVALGKEWHPEHFSCEVCAIVILDGGPRELDGKILC-HECFHAPFRPNCKRCLLPILEEGVCA  380 (479)
T ss_pred             ccccccccccCcccceeEeeccccccccceeeccccccccCCCccccCCCccH-HHHHHHhhCccccccCCchHHhHhhh
Confidence            44556678888644388999999999999999999999999889999999999 59999999999885            


Q ss_pred             ---------eeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCCCCCCCCccc--Ccceeecce-eeccccCcc
Q psy2231         108 ---------LGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKGNTSHTMIP--DTYITQVTI-VIARCLSSV  174 (201)
Q Consensus       108 ---------F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C~~C~~~I~--~~~i~a~~~-~~~~c~~~~  174 (201)
                               |.|..|+++|....|++.+|.+|     |+.||.+++.++|..|.+||+  +..|++++. ++..|++-.
T Consensus       381 ~~~~wH~~cf~C~~C~~~~~~~~~~~~~~~py-----ce~~~~~~~~~~~~~~~~p~~~~~~~ie~~~~~~h~~~F~c~  454 (479)
T KOG1703|consen  381 LGRLWHPECFVCADCGKPLKNSSFFESDGEPY-----CEDHYKKLFTTKCDYCKKPVEFGSRQIEADGSPFHGDCFRCA  454 (479)
T ss_pred             ccCeechhceeeecccCCCCCCcccccCCccc-----hhhhHhhhccccchhccchhHhhhhHhhccCccccccceehh
Confidence                     99999999999999999999999     999999999999999999988  888999983 566555443

>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=99.44  E-value=5.7e-14  Score=92.45  Aligned_cols=57  Identities=39%  Similarity=0.871  Sum_probs=51.5

Q ss_pred             cCCCCCeeeecceE-EeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCcccccc
Q psy2231          44 AINLPNSMYLAERK-TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALF  101 (201)
Q Consensus        44 cc~C~~~i~~~~~v-~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~  101 (201)
                      |.+|+++|.+++.+ .++|+.||++||+|..|+++|.+..|+..+|++|| .+||.++|
T Consensus         1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C-~~c~~~~f   58 (58)
T PF00412_consen    1 CARCGKPIYGTEIVIKAMGKFWHPECFKCSKCGKPLNDGDFYEKDGKPYC-KDCYQKRF   58 (58)
T ss_dssp             BTTTSSBESSSSEEEEETTEEEETTTSBETTTTCBTTTSSEEEETTEEEE-HHHHHHHT
T ss_pred             CCCCCCCccCcEEEEEeCCcEEEccccccCCCCCccCCCeeEeECCEEEC-HHHHhhhC
Confidence            56899998777765 69999999999999999999999999999999999 59998875

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

>KOG4577|consensus

Probab=99.35  E-value=2.4e-14  Score=120.79  Aligned_cols=101  Identities=19%  Similarity=0.394  Sum_probs=87.9

Q ss_pred             cccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCc--------------
Q psy2231          42 SNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKF--------------  107 (201)
Q Consensus        42 C~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~--------------  107 (201)
                      -.|++|.+.|.+.-.+.++++.||..|++|++|..+|.+ ..+.++|..|| +++|.++|+.+|..              
T Consensus        34 p~CagC~q~IlDrFilKvl~R~wHs~CLkCs~C~~qL~d-rCFsR~~s~yC-kedFfKrfGTKCsaC~~GIpPtqVVRkA  111 (383)
T KOG4577|consen   34 PICAGCDQHILDRFILKVLDRHWHSSCLKCSDCHDQLAD-RCFSREGSVYC-KEDFFKRFGTKCSACQEGIPPTQVVRKA  111 (383)
T ss_pred             ccccchHHHHHHHHHHHHHhhhhhhhhcchhhhhhHHHH-HHhhcCCceee-hHHHHHHhCCcchhhcCCCChHHHHHHh
Confidence            358999999877777889999999999999999999976 56789999999 89999999999974              


Q ss_pred             ---------eeeCCCCccccC-CcEE-EeCCeeeeccCCchhhhhhhcCCCCC
Q psy2231         108 ---------LGCLSSVCSILS-QTFY-SLSVDLYHASMHLRSDCLSMYGGKGN  149 (201)
Q Consensus       108 ---------F~C~~C~~~l~~-~~f~-~~~g~~yH~~~~C~~~y~~~~~~~C~  149 (201)
                               |.|..|+++|.. .+|+ +.|+++.     |+.||+..-+..|.
T Consensus       112 qd~VYHl~CF~C~iC~R~L~TGdEFYLmeD~rLv-----CK~DYE~Ak~k~~~  159 (383)
T KOG4577|consen  112 QDFVYHLHCFACFICKRQLATGDEFYLMEDARLV-----CKDDYETAKQKHCN  159 (383)
T ss_pred             hcceeehhhhhhHhhhcccccCCeeEEeccceee-----hhhhHHHHHhcccc
Confidence                     999999999964 4565 6788999     99999988777664

>KOG1700|consensus

Probab=98.56  E-value=1.7e-08  Score=82.79  Aligned_cols=62  Identities=35%  Similarity=0.746  Sum_probs=55.6

Q ss_pred             cCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccC
Q psy2231          44 AINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSK  106 (201)
Q Consensus        44 cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~  106 (201)
                      |-.|++.|+..+.+...|..||+.||.|..|.+.|....+..+++.+|| +.+|...++|+..
T Consensus        10 c~~c~k~vy~~e~~~~~g~~~hk~c~~c~~~~k~l~~~~~~~~e~~~yc-~~~~~~~~~~~~~   71 (200)
T KOG1700|consen   10 CNACGKTVYFVEKVQKDGVDFHKECFKCEKCKKTLTLSGYSEHEGVPYC-KNCHVAQFGPKGG   71 (200)
T ss_pred             hhhccCcchHHHHHhccCcchhhhHHhcccccccccccccccccccccc-ccchHhhhCcccc
Confidence            7789999999999999999999999999999999999999999999999 5877777766543

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

Probab=98.53  E-value=6.7e-08  Score=57.78  Aligned_cols=36  Identities=28%  Similarity=0.587  Sum_probs=32.0

Q ss_pred             cCCCCCeeeec-ceEEeCCCcccCCCcccCCCCCcCC
Q psy2231          44 AINLPNSMYLA-ERKTSLGKDWHGSCLRCENCNKTLV   79 (201)
Q Consensus        44 cc~C~~~i~~~-~~v~a~g~~wH~~CF~C~~C~~~L~   79 (201)
                      |.+|++.|.++ ..+.++++.||++||+|..|+++|.
T Consensus         2 C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L~   38 (39)
T smart00132        2 CAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPLG   38 (39)
T ss_pred             ccccCCcccCCcEEEEeCCccccccCCCCcccCCcCc
Confidence            67899998766 6688999999999999999999985

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.

>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=98.52  E-value=3.6e-07  Score=59.71  Aligned_cols=57  Identities=18%  Similarity=0.336  Sum_probs=48.2

Q ss_pred             cCCCCCcCCCCcee-eeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhc
Q psy2231          71 CENCNKTLVPGSHS-EHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMY  144 (201)
Q Consensus        71 C~~C~~~L~~~~f~-~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~  144 (201)
                      |..|++++.+.... ...|+.|. .+|           |.|..|+++|.++.|++.+|++|     |..||.++|
T Consensus         1 C~~C~~~I~~~~~~~~~~~~~~H-~~C-----------f~C~~C~~~l~~~~~~~~~~~~~-----C~~c~~~~f   58 (58)
T PF00412_consen    1 CARCGKPIYGTEIVIKAMGKFWH-PEC-----------FKCSKCGKPLNDGDFYEKDGKPY-----CKDCYQKRF   58 (58)
T ss_dssp             BTTTSSBESSSSEEEEETTEEEE-TTT-----------SBETTTTCBTTTSSEEEETTEEE-----EHHHHHHHT
T ss_pred             CCCCCCCccCcEEEEEeCCcEEE-ccc-----------cccCCCCCccCCCeeEeECCEEE-----CHHHHhhhC
Confidence            77899999876544 46777777 355           99999999999988999999999     999999876

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

>KOG4577|consensus

Probab=98.24  E-value=6.1e-08  Score=82.41  Aligned_cols=94  Identities=15%  Similarity=0.197  Sum_probs=72.5

Q ss_pred             cCcccCcccceeeeeceeeccCCCcccCCCcccccC------------------------------CCCCeeeecceEE-
Q psy2231          10 VNSRGAGLQQYAMILDLLLSSSGRRYVLQHHTSNAI------------------------------NLPNSMYLAERKT-   58 (201)
Q Consensus        10 ~~~~~~~~~~~~~~~~~~~~a~g~~~h~~cf~C~cc------------------------------~C~~~i~~~~~v~-   58 (201)
                      ..+.++|+++.. ...-++.++++.||..|..|.-|                              .|.+.|.+.++|. 
T Consensus        32 eip~CagC~q~I-lDrFilKvl~R~wHs~CLkCs~C~~qL~drCFsR~~s~yCkedFfKrfGTKCsaC~~GIpPtqVVRk  110 (383)
T KOG4577|consen   32 EIPICAGCDQHI-LDRFILKVLDRHWHSSCLKCSDCHDQLADRCFSREGSVYCKEDFFKRFGTKCSACQEGIPPTQVVRK  110 (383)
T ss_pred             ccccccchHHHH-HHHHHHHHHhhhhhhhhcchhhhhhHHHHHHhhcCCceeehHHHHHHhCCcchhhcCCCChHHHHHH
Confidence            455667777643 23456679999999999998877                              4777776667654 


Q ss_pred             eCCCcccCCCcccCCCCCcCCCC-ceee-eCCeeeecCCccccccCCcc
Q psy2231          59 SLGKDWHGSCLRCENCNKTLVPG-SHSE-HDGKPYCNYPCYSALFSERS  105 (201)
Q Consensus        59 a~g~~wH~~CF~C~~C~~~L~~~-~f~~-~~g~~yCe~~cy~~~~~p~C  105 (201)
                      |.+..||..||.|..|++.|..+ .||. .|+++.| +++|+..-...|
T Consensus       111 Aqd~VYHl~CF~C~iC~R~L~TGdEFYLmeD~rLvC-K~DYE~Ak~k~~  158 (383)
T KOG4577|consen  111 AQDFVYHLHCFACFICKRQLATGDEFYLMEDARLVC-KDDYETAKQKHC  158 (383)
T ss_pred             hhcceeehhhhhhHhhhcccccCCeeEEeccceeeh-hhhHHHHHhccc
Confidence            78999999999999999999866 5664 5779999 899987655444

>KOG1702|consensus

Probab=97.99  E-value=5.1e-07  Score=73.59  Aligned_cols=61  Identities=34%  Similarity=0.672  Sum_probs=55.2

Q ss_pred             ccccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccC
Q psy2231          41 TSNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFS  102 (201)
Q Consensus        41 ~C~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~  102 (201)
                      .|++..|++.+++.|.+..+++.||..||+|..|+.+|..+.|...+.+|||+ .+|.+..+
T Consensus         4 k~n~~~cgk~vYPvE~v~cldk~whk~cfkce~c~mtlnmKnyKgy~kkpycn-~hYpkq~a   64 (264)
T KOG1702|consen    4 KCNREDCGKTVYPVEEVKCLDKVWHKQCFKCEVCGMTLNMKNYKGYDKKPYCN-PHYPKQVA   64 (264)
T ss_pred             cchhhhhccccccHHHHhhHHHHHHHHhheeeeccCChhhhhccccccCCCcC-ccccccee
Confidence            46788999999999999999999999999999999999998988889999996 99977643

>KOG1700|consensus

Probab=97.64  E-value=1.2e-05  Score=65.97  Aligned_cols=57  Identities=32%  Similarity=0.698  Sum_probs=51.6

Q ss_pred             cCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCcccccc
Q psy2231          44 AINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALF  101 (201)
Q Consensus        44 cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~  101 (201)
                      |.+|.+.+++.+.+...+..||..||+|..|+..|+.+.+...+|.+|| ...+..++
T Consensus       111 c~~c~k~vy~~Ek~~~~~~~~hk~cfrc~~~~~~ls~~~~~~~~g~l~~-~~~~~~~~  167 (200)
T KOG1700|consen  111 CARCQKTVYPLEKVTGNGLEFHKSCFRCTHCGKKLSPKNYAALEGVLYC-KHHFAQLF  167 (200)
T ss_pred             cccccceeeehHHHhhhhhhhhhhheeecccccccCCcchhhcCCcccc-chhhheee
Confidence            7789999999999999999999999999999999999999999999999 46665543

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

Probab=95.97  E-value=0.0075  Score=35.31  Aligned_cols=36  Identities=11%  Similarity=0.067  Sum_probs=21.0

Q ss_pred             eCCCCccccCC-cEEEeCCeeeeccCCchhhhhhhcCCCCCCCCCccc
Q psy2231         110 CLSSVCSILSQ-TFYSLSVDLYHASMHLRSDCLSMYGGKGNTSHTMIP  156 (201)
Q Consensus       110 C~~C~~~l~~~-~f~~~~g~~yH~~~~C~~~y~~~~~~~C~~C~~~I~  156 (201)
                      |..|+++|.+. ..+...++.||..     ||      +|..|+++|.
T Consensus         2 C~~C~~~i~~~~~~~~~~~~~~H~~-----Cf------~C~~C~~~L~   38 (39)
T smart00132        2 CAGCGKPIRGGELVLRALGKVWHPE-----CF------KCSKCGKPLG   38 (39)
T ss_pred             ccccCCcccCCcEEEEeCCcccccc-----CC------CCcccCCcCc
Confidence            56667777665 4555566667543     22      5666666653

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=93.50  E-value=0.016  Score=47.64  Aligned_cols=58  Identities=31%  Similarity=0.595  Sum_probs=45.4

Q ss_pred             CCCeeeecceEEeCCCcccCCCcccCCCCCcCC--CCceeeeCCeeeecCCcccc--ccCCccC
Q psy2231          47 LPNSMYLAERKTSLGKDWHGSCLRCENCNKTLV--PGSHSEHDGKPYCNYPCYSA--LFSERSK  106 (201)
Q Consensus        47 C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~--~~~f~~~~g~~yCe~~cy~~--~~~p~C~  106 (201)
                      |+..|.+...+.+.+..||..|..|..|...|.  ...|.. +|..|| ..+|.+  .+..+|.
T Consensus         2 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~-~~d~~~~~~~~~rr~   63 (235)
T KOG0490|consen    2 CGRQILDRYLLRVLDRYWHASCLKCAECDNPLGVGDTCFSK-DGSIYC-KRDYQREFKFSKRCA   63 (235)
T ss_pred             CCccccchHHhhcccHHHHHHHHhhhhhcchhccCCCcccC-CCcccc-cccchhhhhcccccc
Confidence            566665555567779999999999999999997  445555 999999 699998  5555554

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	201
1iml_A	76	Cysteine Rich Intestinal Protein, Nmr, 48 Structure		2e-18
2cu8_A	76	Solution Structure Of The Lim Domain Of Human Cyste		3e-17
1ctl_A	85	Structure Of The Carboxy-Terminal Lim Domain From T		7e-06
1b8t_A	192	Solution Structure Of The Chicken Crp1 Length = 192		1e-05
1cxx_A	113	Mutant R122a Of Quail Cysteine And Glycine-Rich Pro		2e-05
1qli_A	113	Quail Cysteine And Glycine-Rich Protein, Nmr, 15 Mi		2e-05
2o13_A	58	Solution Structure Of The C-Terminal Lim Domain Of		6e-05

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

Iteration: 1
 Score = 88.6 bits (218), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 36/57 (63%), Positives = 43/57 (75%)
Query: 49  NSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERS 105
             +Y AER TSLGKDWH  CL+CE C KTL  G H+EH+GKPYCN+PCYSA+F  + 
Sbjct: 8   KEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKG 64

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

Iteration: 1
 Score = 84.7 bits (208), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 34/62 (54%), Positives = 44/62 (70%)
Query: 41  TSNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSAL 100
            S       ++Y AE+ +SLGKDWH  CL+CE C+KTL PG H+EHDGKP+C+ PCY+ L
Sbjct: 9   ASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATL 68
Query: 101 FS 102
           F 
Sbjct: 69  FG 70

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

Iteration: 1
 Score = 47.0 bits (110), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 21/56 (37%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 49  NSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
            ++Y AE+    GK WH SC RC  C K+L   + ++ DG+ YC   CY+  F  +
Sbjct: 16  QAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCK-GCYAKNFGPK 70

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

Iteration: 1
 Score = 46.2 bits (108), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 21/56 (37%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 49  NSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
            ++Y AE+    GK WH SC RC  C K+L   + ++ DG+ YC   CY+  F  +
Sbjct: 123 QAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCK-GCYAKNFGPK 177

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

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 21/57 (36%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 49  NSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERS 105
           +S+Y AE+    GK WH +C RC  C K+L   + +E +G+ YC   CY+  F  + 
Sbjct: 44  DSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKG-CYAKNFGPKG 99

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 21/57 (36%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 49  NSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERS 105
           +S+Y AE+    GK WH +C RC  C K+L   + +E +G+ YC   CY+  F  + 
Sbjct: 44  DSVYAAEKVIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKG-CYAKNFGPKG 99

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 21/52 (40%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 50  SMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALF 101
           S+Y AE+    GK WH +C RC  C K+L   + ++ DG+ YC   CY+  F
Sbjct: 8   SVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCKV-CYAKNF 58

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	201
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	3e-22
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	1e-21
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	4e-19
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	2e-18
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	3e-16
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	5e-15
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	5e-14
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	5e-14
2co8_A	82	NEDD9 interacting protein with calponin homology a	2e-13
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	7e-13
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	8e-13
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	7e-12
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	9e-12
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	2e-11
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	5e-11
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	2e-10
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	2e-10
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	2e-10
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	3e-10
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	7e-10
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	1e-09
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	2e-09
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	3e-09
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	1e-05
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	6e-09
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	8e-09
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	1e-08
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	1e-08
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	2e-08
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	1e-04
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	3e-08
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	9e-08
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	1e-07
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	3e-07
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	3e-06
2cor_A	79	Pinch protein; LIM domain, particularly interestin	4e-07
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	4e-07
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	8e-07
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	1e-04
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	4e-06
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	2e-05
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	6e-06
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	9e-06
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	1e-05
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	6e-05
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	5e-04

>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 = 85.1 bits (211), Expect = 3e-22
 Identities = 36/53 (67%), Positives = 42/53 (79%)

Query: 52  YLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
           Y AER TSLGKDWH  CL+CE C KTL  G H+EH+GKPYCN+PCYSA+F  +
Sbjct: 11  YFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPK 63

>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 = 83.2 bits (206), Expect = 1e-21
 Identities = 33/53 (62%), Positives = 41/53 (77%)

Query: 52  YLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
           Y AE+ +SLGKDWH  CL+CE C+KTL PG H+EHDGKP+C+ PCY+ LF   
Sbjct: 20  YFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFGSG 72

>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 = 77.1 bits (190), Expect = 4e-19
 Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 52  YLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
           Y AE     G+ +H  C  C  C K L   + + HD + YC   CY   +  +
Sbjct: 18  YHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCK-SCYGKKYGPK 69

>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 = 75.3 bits (185), Expect = 2e-18
 Identities = 18/56 (32%), Positives = 29/56 (51%), Gaps = 1/56 (1%)

Query: 52  YLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKF 107
           Y  ER  +  + +H SC RC  CN  L  G+++   G+ YC  P ++ LF  +  +
Sbjct: 26  YPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCK-PHFNQLFKSKGNY 80

>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 = 72.7 bits (178), Expect = 3e-16
 Identities = 21/53 (39%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 52  YLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
           Y AE+    GK WH SC RC  C K+L   + ++ DG+ YC   CY+  F  +
Sbjct: 126 YAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCK-GCYAKNFGPK 177

>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 = 69.3 bits (169), Expect = 5e-15
 Identities = 18/59 (30%), Positives = 24/59 (40%), Gaps = 1/59 (1%)

Query: 52  YLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGC 110
           Y AE     G  +H SC  C  C K L   + + H  + YC   CY   +  + K  G 
Sbjct: 18  YFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCK-SCYGKKYGPKGKGKGM 75

>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 = 63.5 bits (155), Expect = 5e-14
 Identities = 17/54 (31%), Positives = 20/54 (37%), Gaps = 2/54 (3%)

Query: 52  YLAERKTS-LGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
               RK    G+ WH  C  C  C + L   S     G  YC  PCY   F+  
Sbjct: 16  MPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCV-PCYENKFASG 68

>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 = 63.5 bits (155), Expect = 5e-14
 Identities = 13/54 (24%), Positives = 19/54 (35%), Gaps = 2/54 (3%)

Query: 52  YLAERKTS-LGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
              ++     G  WH  C  C NC + +  GS        YC   C+   F+  
Sbjct: 26  VAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCV-TCHETKFASG 78

>2co8_A NEDD9 interacting protein with calponin homology and LIM domains; zinc finger protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 82

 Score = 62.3 bits (151), Expect = 2e-13
 Identities = 20/56 (35%), Positives = 24/56 (42%), Gaps = 2/56 (3%)

Query: 52  YLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEH--DGKPYCNYPCYSALFSERS 105
           Y+ ER    G  +H SC RC  C  TL PG + +H  DG  YC            S
Sbjct: 26  YVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQTDSGPSS 81

>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 = 60.5 bits (147), Expect = 7e-13
 Identities = 15/52 (28%), Positives = 23/52 (44%), Gaps = 2/52 (3%)

Query: 52  YLAERK-TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFS 102
             AE+   S G+ +H  C  C  C +    G   E +G+ YC    +  LF+
Sbjct: 22  APAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCE-HDFQMLFA 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 = 60.1 bits (146), Expect = 8e-13
 Identities = 15/52 (28%), Positives = 23/52 (44%), Gaps = 2/52 (3%)

Query: 52  YLAERK-TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFS 102
             AE+   S G+ +H  C  C  C +    G   E +G+ YC    +  LF+
Sbjct: 22  APAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCE-HDFQMLFA 72

>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 = 57.7 bits (140), Expect = 7e-12
 Identities = 15/44 (34%), Positives = 19/44 (43%), Gaps = 1/44 (2%)

Query: 58  TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALF 101
            ++GK WH     C  C K  +   H E  G  YC    Y+ LF
Sbjct: 21  NAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCET-HYNQLF 63

>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 = 57.4 bits (139), Expect = 9e-12
 Identities = 13/47 (27%), Positives = 18/47 (38%), Gaps = 1/47 (2%)

Query: 58  TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
           T   + WH  C  C  C K L     +  D   YC   C+  L++  
Sbjct: 21  TYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCL-NCFCDLYASG 66

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

 Score = 56.2 bits (136), Expect = 2e-11
 Identities = 12/47 (25%), Positives = 18/47 (38%), Gaps = 1/47 (2%)

Query: 58  TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
              G  WH +C  C  C + +   S    D + +C  PCY    +  
Sbjct: 23  EYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCV-PCYEKQHASG 68

>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 = 55.8 bits (135), Expect = 5e-11
 Identities = 13/47 (27%), Positives = 20/47 (42%), Gaps = 1/47 (2%)

Query: 58  TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
           +++   WH  C  C +C  +   GS  E DG+P+C    Y       
Sbjct: 31  SAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCEL-HYHHRRGSG 76

>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 = 13/47 (27%), Positives = 18/47 (38%), Gaps = 1/47 (2%)

Query: 58  TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
               + WH +C RC  C   L   +    D K  CN  C +   S +
Sbjct: 23  HYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCN-KCTTREDSPK 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 = 54.3 bits (131), Expect = 2e-10
 Identities = 15/47 (31%), Positives = 19/47 (40%), Gaps = 1/47 (2%)

Query: 58  TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
           T   + WH  CL C  C   L     +  D  PYC   C+  LF+  
Sbjct: 31  TYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCV-ACFGELFASG 76

>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 = 53.9 bits (130), Expect = 2e-10
 Identities = 13/47 (27%), Positives = 18/47 (38%), Gaps = 1/47 (2%)

Query: 58  TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
           T   + WH  C  C  C+K L     +  + + YC   CY    S  
Sbjct: 21  TYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCV-DCYKNFVSGP 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 = 54.0 bits (130), Expect = 2e-10
 Identities = 11/45 (24%), Positives = 21/45 (46%), Gaps = 1/45 (2%)

Query: 58  TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFS 102
            ++   WH  C RC+ C + L      ++ G+  C  PC++   +
Sbjct: 21  KAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCR-PCHNREKA 64

>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 = 54.0 bits (130), Expect = 3e-10
 Identities = 15/47 (31%), Positives = 19/47 (40%), Gaps = 1/47 (2%)

Query: 58  TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
            +LGK WH     C +C  T+      E  G  YC   CY   F+  
Sbjct: 41  VALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCEL-CYEKFFASG 86

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

 Score = 52.9 bits (127), Expect = 7e-10
 Identities = 12/47 (25%), Positives = 17/47 (36%), Gaps = 1/47 (2%)

Query: 58  TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
            +  K  H  C  C +CN  L    +   +G+ YC      A  S  
Sbjct: 41  KARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCET-HARARTSGP 86

>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 = 51.7 bits (124), Expect = 1e-09
 Identities = 18/45 (40%), Positives = 22/45 (48%), Gaps = 2/45 (4%)

Query: 60  LGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
           L K WH SC +C+ C+  L  G +   DG PYC    Y A F   
Sbjct: 34  LDKQWHVSCFKCQTCSVILT-GEYISKDGVPYCE-SDYHAQFGSG 76

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

 Score = 51.7 bits (124), Expect = 2e-09
 Identities = 13/45 (28%), Positives = 20/45 (44%), Gaps = 1/45 (2%)

Query: 60  LGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
             + +H  C RC  C ++L     +  D +  CN  CY + FS  
Sbjct: 35  EDRHFHEGCFRCCRCQRSLADEPFTCQDSELLCN-DCYCSAFSSG 78

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

 Score = 52.0 bits (125), Expect = 3e-09
 Identities = 11/45 (24%), Positives = 18/45 (40%), Gaps = 1/45 (2%)

Query: 60  LGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
             ++WH     C +C+  L    +   + KP C  PCY    +  
Sbjct: 22  ENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCK-PCYVKNHAVV 65

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

 Score = 42.0 bits (99), Expect = 1e-05
 Identities = 12/47 (25%), Positives = 17/47 (36%), Gaps = 3/47 (6%)

Query: 58  TSLGKDWHGS--CLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFS 102
           T     WH S  C  C  C+K L+       +G  +C+        S
Sbjct: 81  TYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCS-VECKKRMS 126

>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 = 49.7 bits (119), Expect = 6e-09
 Identities = 11/45 (24%), Positives = 16/45 (35%), Gaps = 1/45 (2%)

Query: 58  TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFS 102
            +L + +H  C  C  C   L        + + YC   CY A   
Sbjct: 23  VALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCE-GCYVATLE 66

>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 = 49.8 bits (119), Expect = 8e-09
 Identities = 9/47 (19%), Positives = 13/47 (27%), Gaps = 1/47 (2%)

Query: 58  TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
               +  H  C  C +C   L    H   + + YC         S  
Sbjct: 31  KLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEK-HARERVSGP 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 = 49.5 bits (118), Expect = 1e-08
 Identities = 11/46 (23%), Positives = 19/46 (41%), Gaps = 1/46 (2%)

Query: 60  LGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERS 105
               WH  C  C  C+ +LV       + + +C   C S + ++ S
Sbjct: 27  QDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQ-KCGSGMDTDIS 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 = 49.0 bits (117), Expect = 1e-08
 Identities = 9/45 (20%), Positives = 15/45 (33%), Gaps = 1/45 (2%)

Query: 58  TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFS 102
           +   + WH  C  C+ C+ +LV            C   C   +  
Sbjct: 25  SFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCP-DCGKDISG 68

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

 Score = 49.7 bits (119), Expect = 2e-08
 Identities = 13/53 (24%), Positives = 18/53 (33%), Gaps = 3/53 (5%)

Query: 60  LGKDWHGSCLRCENCNKTLVPGSHS--EHDGKPYCNYPCYSALFSERSKFLGC 110
           + + WH  CL C+ C   L           G+  C    Y  LF +      C
Sbjct: 21  IDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCR-RDYLRLFGQDGLCASC 72

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

 Score = 39.3 bits (92), Expect = 1e-04
 Identities = 8/39 (20%), Positives = 11/39 (28%), Gaps = 2/39 (5%)

Query: 60  LGKDWHGSCLRCENCNKTLVPGSH-SEHDGKPYCNYPCY 97
             K +H  C +C  C K    G      +    C     
Sbjct: 86  KDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCE-QDI 123

>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 = 48.5 bits (116), Expect = 3e-08
 Identities = 9/46 (19%), Positives = 18/46 (39%), Gaps = 2/46 (4%)

Query: 60  LGKDWHGSCLRCENCNKTLVPGS-HSEHDGKPYCNYPCYSALFSER 104
           +GK +H  C  C  C++ L       +   + +C    +   F+  
Sbjct: 33  MGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCI-EDFHRKFASG 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 = 46.7 bits (111), Expect = 9e-08
 Identities = 12/41 (29%), Positives = 16/41 (39%), Gaps = 1/41 (2%)

Query: 60  LGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSAL 100
            G+ WH  C  C+ C+  L       H  + YC   C   L
Sbjct: 38  EGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYCP-DCAKKL 77

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

 Score = 47.7 bits (113), Expect = 1e-07
 Identities = 13/66 (19%), Positives = 17/66 (25%), Gaps = 8/66 (12%)

Query: 60  LGKDWHGSCLRCENCNKTLVPGSHS--EHDGKPYCNYPCYSALFSERSKFLGCLSSVCSI 117
           +   WH  CL+C +C   L     S     G   C    Y  LF                
Sbjct: 24  MDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRN-DYIRLFGNS-----GAGGSGGH 77

Query: 118 LSQTFY 123
           +     
Sbjct: 78  MGSGGD 83

>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 = 47.5 bits (113), Expect = 3e-07
 Identities = 11/45 (24%), Positives = 17/45 (37%), Gaps = 2/45 (4%)

Query: 60  LGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
           L + WH  CL+C +C+  L            YC    +   F  +
Sbjct: 25  LDRHWHSKCLKCSDCHVPLA-ERCFSRGESVYCK-DDFFKRFGTK 67

>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 = 3e-06
 Identities = 10/48 (20%), Positives = 13/48 (27%), Gaps = 3/48 (6%)

Query: 60  LGKDWHGSCLRCENCNKTLVPGSHS--EHDGKPYCNYPCYSALFSERS 105
               +H  C  C  C + L  G       D +  C    Y       S
Sbjct: 85  QDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCK-ADYETAKQGGS 131

>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 = 45.2 bits (107), Expect = 4e-07
 Identities = 12/44 (27%), Positives = 17/44 (38%), Gaps = 2/44 (4%)

Query: 58  TSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALF 101
                 +H     C NC K L   +  E  G+ YC  PC+  + 
Sbjct: 31  IFKNDPYHPDHFNCANCGKELTADAR-ELKGELYCL-PCHDKMG 72

>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 = 46.3 bits (109), Expect = 4e-07
 Identities = 13/44 (29%), Positives = 16/44 (36%), Gaps = 3/44 (6%)

Query: 60  LGKDWHGSCLRCENCNKTLVPGSHS--EHDGKPYCNYPCYSALF 101
           +   WH  CL+C +C   L     S     G   C    Y  LF
Sbjct: 80  MDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRN-DYIRLF 122

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

 Score = 46.4 bits (110), Expect = 8e-07
 Identities = 11/45 (24%), Positives = 17/45 (37%), Gaps = 2/45 (4%)

Query: 60  LGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
           L + WH  CL+C +C+  L            YC    +   F  +
Sbjct: 79  LDRHWHSKCLKCSDCHVPLA-ERCFSRGESVYCK-DDFFKRFGTK 121

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

 Score = 39.9 bits (93), Expect = 1e-04
 Identities = 9/42 (21%), Positives = 12/42 (28%), Gaps = 3/42 (7%)

Query: 60  LGKDWHGSCLRCENCNKTLVPGSHS--EHDGKPYCNYPCYSA 99
               +H  C  C  C + L  G       D +  C    Y  
Sbjct: 139 QDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCK-ADYET 179

>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 = 44.6 bits (105), Expect = 4e-06
 Identities = 14/53 (26%), Positives = 17/53 (32%), Gaps = 3/53 (5%)

Query: 60  LGKDWHGSCLRCENCNKTLVPGSHS--EHDGKPYCNYPCYSALFSERSKFLGC 110
           +   WH  CL+C +C   L     S     G   C    Y  LF        C
Sbjct: 24  MDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCR-NDYIRLFGNSGACSAC 75

>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 = 42.7 bits (100), Expect = 2e-05
 Identities = 12/55 (21%), Positives = 15/55 (27%), Gaps = 2/55 (3%)

Query: 60  LGKDWHGSCLRCENCNKTLVPGSH-SEHDGKPYCNYPCYSALFSERSKFLGCLSS 113
            G  +H  C  C  C   LVPG      +G  +C                G    
Sbjct: 89  QGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCE-HDRPTALINGHLNSGGSGG 142

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

 Score = 42.1 bits (99), Expect = 6e-06
 Identities = 10/51 (19%), Positives = 17/51 (33%), Gaps = 3/51 (5%)

Query: 58  TSLGKDWHGSCLRCENCNKTLVPGSH--SEHDGKPYCNYPCYSALFSERSK 106
            +    +H  C  C +C   +  G           YC   C++ + S  S 
Sbjct: 31  VAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGK-CHNEVVSGPSS 80

>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 = 42.4 bits (99), Expect = 9e-06
 Identities = 11/57 (19%), Positives = 16/57 (28%), Gaps = 3/57 (5%)

Query: 60  LGKDWHGSCLRCENCNKTLVPGSHS--EHDGKPYCNYPCYSALFSERSKFLGCLSSV 114
           + + WH  CL C+ C   L           G+  C    Y  L             +
Sbjct: 22  IDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCR-RDYLRLGGSGGHMGSGGDVM 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 = 41.3 bits (97), Expect = 1e-05
 Identities = 11/41 (26%), Positives = 17/41 (41%), Gaps = 2/41 (4%)

Query: 58 TSLGKDWHGSCLRCENCNKTLVPGS-HSEHDGKPYCNYPCY 97
          ++LGK +H  C  C  C     PG   + +  +  C   C 
Sbjct: 31 SALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQ-KCS 70

>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 = 36.4 bits (84), Expect = 5e-04
 Identities = 11/40 (27%), Positives = 16/40 (40%), Gaps = 2/40 (5%)

Query: 61 GKDWHGS--CLRCENCNKTLVPGSHSEHDGKPYCNYPCYS 98
             WH S  C  C  C+K L+       +G  +C+  C  
Sbjct: 23 NFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKK 62

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	201
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.88
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.85
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.83
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.8
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.77
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.77
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.75
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	99.74
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.73
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.71
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	99.68
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.65
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.64
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	99.64
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.62
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	99.62
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	99.61
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.61
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.6
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	99.59
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	99.59
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.58
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	99.58
2co8_A	82	NEDD9 interacting protein with calponin homology a	99.58
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	99.58
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	99.58
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.57
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	99.55
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.55
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.54
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	99.54
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.52
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.52
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.51
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.51
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	99.5
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.49
2cor_A	79	Pinch protein; LIM domain, particularly interestin	99.49
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.49
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	99.47
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	99.44
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	99.43
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.42
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	99.42
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.41
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	99.4
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.39
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.33
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	99.28
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	99.23
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.14
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.14
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.13
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.1
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.01
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	98.99
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	98.99
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	98.9
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	98.88
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	98.87
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	98.86
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	98.86
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	98.85
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	98.83
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	98.81
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	98.79
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	98.77
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	98.77
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	98.68
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	98.66
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	98.66
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	98.66
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	98.57
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	98.56
2cor_A	79	Pinch protein; LIM domain, particularly interestin	98.48
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	98.48
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	98.46
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	98.39
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	98.35
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	98.3
2co8_A	82	NEDD9 interacting protein with calponin homology a	98.27
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	98.27
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	98.24
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	98.14
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	97.85

>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=99.88  E-value=7.5e-23  Score=165.02  Aligned_cols=107  Identities=22%  Similarity=0.395  Sum_probs=98.9

Q ss_pred             ccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCcc-----------------
Q psy2231          43 NAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERS-----------------  105 (201)
Q Consensus        43 ~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C-----------------  105 (201)
                      .|.+|+++|..++.|.|+|+.||++||+|..|+++|.+..|+.++|++|| +.||.++|+|+|                 
T Consensus         9 ~C~~C~~~I~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~~~~~~g~~yC-~~cy~~~f~~~c~~c~~~~g~~~~~~~~~   87 (192)
T 1b8t_A            9 KCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYC-KSCYGKKYGPKGKGKGMGAGTLSTDKGES   87 (192)
T ss_dssp             ECTTTCCEECSSCCEEETTEEECTTTCBCTTTCCBCCSSSEEEETTEEEE-HHHHHHHHSCCCCCCCCCCCCCCCCCCCC
T ss_pred             cCccCCCeecceeEEEeCCceecCCCCcCcccCCcCCCCeeEecCCEeeC-hhhhHhhcCccccccccccccEecCCCcc
Confidence            48899999988899999999999999999999999999999999999999 599999998874                 


Q ss_pred             -------------------------------Cc----------------------eeeCCCCccccCCcEEEeCCeeeec
Q psy2231         106 -------------------------------KF----------------------LGCLSSVCSILSQTFYSLSVDLYHA  132 (201)
Q Consensus       106 -------------------------------~~----------------------F~C~~C~~~l~~~~f~~~~g~~yH~  132 (201)
                                                     .+                      |.|..|+++|.++.|++.||++|  
T Consensus        88 ~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~y--  165 (192)
T 1b8t_A           88 LGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIY--  165 (192)
T ss_dssp             CCCCCCCCCCCCCCCCCCCCCCCCCCCCEECTTTSCEECSSSCEEETTEEECTTTCBCTTTCCBCCSSSEEEETTEEE--
T ss_pred             cccccccccccCCCCcCccccccccCCCCcCCCCCCEecCcEEEecCCCccchhcCCccccCCCCCCCcccccCCEEe--
Confidence                                           21                      89999999998888999999999  


Q ss_pred             cCCchhhhhhhcCCCCCCCCCcc
Q psy2231         133 SMHLRSDCLSMYGGKGNTSHTMI  155 (201)
Q Consensus       133 ~~~C~~~y~~~~~~~C~~C~~~I  155 (201)
                         |..||.++|+++|.+|+++|
T Consensus       166 ---C~~cy~~~f~~kc~~C~~~~  185 (192)
T 1b8t_A          166 ---CKGCYAKNFGPKGFGFGQGA  185 (192)
T ss_dssp             ---EHHHHHHHTCCCCCCCCCCC
T ss_pred             ---CHHHHHHhcCCcCCCCCCcc
Confidence               99999999999999999985

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

Probab=99.85  E-value=1e-21  Score=148.04  Aligned_cols=104  Identities=15%  Similarity=0.216  Sum_probs=88.4

Q ss_pred             ccccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCCccccC-
Q psy2231          41 TSNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILS-  119 (201)
Q Consensus        41 ~C~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~-  119 (201)
                      .-.|.+|+++|.+++.+.|+|+.||++||+|..|+++|.+..|+.++|+||| +.||.++|+++|     ..|+++|.+ 
T Consensus         3 ~~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC-~~cy~~~~~~~C-----~~C~~~I~~~   76 (126)
T 2xqn_T            3 KPRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVC-KPCYVKNHAVVC-----QGCHNAIDPE   76 (126)
T ss_dssp             CCBBTTTSSBCCSSCEEEETTEEECGGGSBCTTTCCBCTTSEEEEETTEEEE-HHHHHHHSCCBC-----TTTCSBCCTT
T ss_pred             CCCCccCCCEeCCceEEeeCCCCccCCCCCcCCCCCCCCcCEEEeECCEEec-hHHhCcCcCccC-----cccCCcCCcC
Confidence            3458999999987889999999999999999999999998899999999999 599999999876     888889987 


Q ss_pred             CcEEEeCCeeeeccCCchhhhhhhcCCCCCCCCCcccCcc
Q psy2231         120 QTFYSLSVDLYHASMHLRSDCLSMYGGKGNTSHTMIPDTY  159 (201)
Q Consensus       120 ~~f~~~~g~~yH~~~~C~~~y~~~~~~~C~~C~~~I~~~~  159 (201)
                      +..+...|+.||..   ..||      +|..|+++|.++.
T Consensus        77 ~~~~~a~~~~~H~~---~~CF------~C~~C~~~l~~~~  107 (126)
T 2xqn_T           77 VQRVTYNNFSWHAS---TECF------LCSCCSKCLIGQK  107 (126)
T ss_dssp             SCEEEETTEEEESS---TTTS------BCTTTCCBCTTSE
T ss_pred             ceEEECCCCEeeCC---CCCc------CcCCCCCccCCCe
Confidence            35677888999721   2233      7889999998654

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

Probab=99.83  E-value=2.9e-21  Score=146.26  Aligned_cols=116  Identities=18%  Similarity=0.232  Sum_probs=89.6

Q ss_pred             ccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCC--CceeeeCCeeeecCCccccccCCccCceeeCCCCccccCC
Q psy2231          43 NAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVP--GSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQ  120 (201)
Q Consensus        43 ~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~--~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~  120 (201)
                      .|.+|+++|.+.+.+.|+|+.||++||+|..|+++|..  ..|+.++|+||| ++||.++|+++   ..|..|+++|.+.
T Consensus         4 ~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC-~~~y~~~~~~~---~~C~~C~~~I~~~   79 (131)
T 2xjy_A            4 TCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLC-RRDYLRLFGQD---GLCASCDKRIRAY   79 (131)
T ss_dssp             BBTTTCCBCCSSEEEEETTEEEETTTCBCTTTCCBCSSTTCCEEEETTEEEC-HHHHHHHHCCC---EECTTTCCEECTT
T ss_pred             cCcCCCCEeCCcEEEEECCCcccHHHcccCcCCCccccCCCeEEEECCEEee-cCchhhhCCCc---cChhhcCCccCcc
Confidence            48899999876667999999999999999999999963  689999999999 59999999983   1357888888764


Q ss_pred             -cEEEeCCeeeeccCCchhhhhhhcCCCCCCCCCccc-Cc-ceeecc-eeeccccCc
Q psy2231         121 -TFYSLSVDLYHASMHLRSDCLSMYGGKGNTSHTMIP-DT-YITQVT-IVIARCLSS  173 (201)
Q Consensus       121 -~f~~~~g~~yH~~~~C~~~y~~~~~~~C~~C~~~I~-~~-~i~a~~-~~~~~c~~~  173 (201)
                       ..+...|+.||..     ||      +|..|+++|. +. +....+ .++..|...
T Consensus        80 e~~~~a~~~~~H~~-----CF------~C~~C~~~L~~g~~f~~~~~~~~C~~c~~~  125 (131)
T 2xjy_A           80 EMTMRVKDKVYHLE-----CF------KCAACQKHFCVGDRYLLINSDIVCEQDIYE  125 (131)
T ss_dssp             SEEEEETTEEEEGG-----GC------BCTTTCCBCCTTCEEEEETTEEEEGGGHHH
T ss_pred             ceeEeeCCceECcc-----Cc------ccCCCCCCCCCCCEEEEECCEEEcHHHHHH
Confidence             3566778888543     44      6888888884 33 444334 356666543

>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=99.80  E-value=2.3e-20  Score=150.03  Aligned_cols=105  Identities=17%  Similarity=0.280  Sum_probs=86.3

Q ss_pred             ccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCC--CceeeeCCeeeecCCccccccCC--ccCc-----------
Q psy2231          43 NAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVP--GSHSEHDGKPYCNYPCYSALFSE--RSKF-----------  107 (201)
Q Consensus        43 ~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~--~~f~~~~g~~yCe~~cy~~~~~p--~C~~-----------  107 (201)
                      .|.+|+++|.+.+.+.|+|+.||++||+|..|+++|..  ..|+.++|++|| +.||.++|++  +|..           
T Consensus         7 ~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC-~~cy~~~~~~~~~C~~C~~~I~~~e~~   85 (188)
T 1rut_X            7 RCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILC-RNDYIRLFGNSGACSACGQSIPASELV   85 (188)
T ss_dssp             BBTTTCCBCCCSEEEEETTEEECGGGCBCTTTCCBHHHHCSEEEEETTEEEC-HHHHHHHHSCCEECTTTCCEECTTSEE
T ss_pred             cCccCCCEeCCceeEEecCcEecccCcccCCCCcccccCCceEEEeCCcccc-ccccccccccCCccccCCCccccCcEE
Confidence            48999999876667999999999999999999999985  689999999999 5999999998  5764           


Q ss_pred             ------------eeeCCCCcccc-CCcEEEeCCeeeeccCCchhhhhhhcCCCCCCCCC
Q psy2231         108 ------------LGCLSSVCSIL-SQTFYSLSVDLYHASMHLRSDCLSMYGGKGNTSHT  153 (201)
Q Consensus       108 ------------F~C~~C~~~l~-~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C~~C~~  153 (201)
                                  |.|..|+++|. +..|++.+|++|     |..||.++++++|...+.
T Consensus        86 i~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~g~~y-----C~~c~~~~~~~~~~~~g~  139 (188)
T 1rut_X           86 MRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLF-----CEHDRPTALINGHLNSGG  139 (188)
T ss_dssp             EEETTEEECGGGCBCTTTCCBCCTTCEEEEETTEEE-----EGGGCCTTTC--------
T ss_pred             EEcCCCEEeCCCCeECCCCCCCCCCCeEEEECCeEE-----CHHHHHHHhcccccccCC
Confidence                        88999999985 567888899998     999999999988877654

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

Probab=99.77  E-value=7e-19  Score=127.41  Aligned_cols=86  Identities=17%  Similarity=0.372  Sum_probs=76.1

Q ss_pred             cccCCCCCeeee-cceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCCccccC-
Q psy2231          42 SNAINLPNSMYL-AERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILS-  119 (201)
Q Consensus        42 C~cc~C~~~i~~-~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~-  119 (201)
                      -.|.+|+++|.. ++.+.++|+.||++||+|..|+++|.+..|+.++|++|| +.||.++|+++|     ..|+++|.+ 
T Consensus         6 ~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC-~~cy~~~~~~~C-----~~C~~~I~~~   79 (101)
T 2cup_A            6 SGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILC-NKCTTREDSPKC-----KGCFKAIVAG   79 (101)
T ss_dssp             CBCSSSCCBCCSSSCEEEETTEEEETTTCCCSSSCCCTTSSCCEEETTEEEC-HHHHTTCCCCBC-----SSSCCBCCSS
T ss_pred             CcCcccCCcccCCceEEEECccChhhcCCcccccCCCCCcCeeECcCCEEEC-hhHhhhhcCCcc-----ccCCCccccC
Confidence            358999999864 788999999999999999999999988889999999999 599999999876     788889984 


Q ss_pred             CcEEEeCCeeeecc
Q psy2231         120 QTFYSLSVDLYHAS  133 (201)
Q Consensus       120 ~~f~~~~g~~yH~~  133 (201)
                      +.++...|+.||..
T Consensus        80 ~~~~~a~~~~~H~~   93 (101)
T 2cup_A           80 DQNVEYKGTVWHKD   93 (101)
T ss_dssp             SCEEESSSCEEETT
T ss_pred             CeEEEeCCcchHHh
Confidence            45788889999764

>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=99.77  E-value=2e-19  Score=142.10  Aligned_cols=97  Identities=18%  Similarity=0.384  Sum_probs=73.9

Q ss_pred             ccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCc---------------
Q psy2231          43 NAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKF---------------  107 (201)
Q Consensus        43 ~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~---------------  107 (201)
                      .|.+|+++|.+.+.+.|+|+.||++||+|..|+++|.+.. +.++|++|| +.||.++|+++|.+               
T Consensus         8 ~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~-f~~~g~~yC-~~~y~~~f~~~C~~C~~~I~~~~~v~~a~   85 (169)
T 2rgt_A            8 MCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERC-FSRGESVYC-KDDFFKRFGTKCAACQLGIPPTQVVRRAQ   85 (169)
T ss_dssp             BBSSSSSBCCSSSCEECSSCEECTTTSBCTTTCCBCCSCC-EESSSCEEC-HHHHHHHHSCBCTTTCCBCCTTSEEEEET
T ss_pred             ccccCCCccCCcEEEEECCcEEccccCccCCCCCcCCCCC-cccCCeeee-cccccccccccccccccccCCCcEEEEcC
Confidence            4899999987766789999999999999999999999876 489999999 59999999998743               


Q ss_pred             --------eeeCCCCcccc-CCcEE-EeCCeeeeccCCchhhhhhhcCC
Q psy2231         108 --------LGCLSSVCSIL-SQTFY-SLSVDLYHASMHLRSDCLSMYGG  146 (201)
Q Consensus       108 --------F~C~~C~~~l~-~~~f~-~~~g~~yH~~~~C~~~y~~~~~~  146 (201)
                              |.|..|+++|. +..|+ ..||++|     |..||.++++.
T Consensus        86 ~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~~-----C~~c~~~~~~~  129 (169)
T 2rgt_A           86 DFVYHLHCFACVVCKRQLATGDEFYLMEDSRLV-----CKADYETAKQG  129 (169)
T ss_dssp             TEEEEGGGCBCTTTCCBCCTTCEEEECTTSCEE-----EHHHHHHHHHC
T ss_pred             CceEeeCCCcCCCCCCCCCCCCceEEccCCeEE-----CHHHHHHHhhc
Confidence                    55555555554 33343 2355555     55555555443

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

Probab=99.75  E-value=9.4e-19  Score=139.85  Aligned_cols=113  Identities=13%  Similarity=0.261  Sum_probs=88.1

Q ss_pred             ccccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCCccccCC
Q psy2231          41 TSNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQ  120 (201)
Q Consensus        41 ~C~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~  120 (201)
                      .-.|.+|+++|...+.+.|+|+.||++||+|..|+++|.+..| .++|++|| +.||.++|+++|     ..|+++|.+.
T Consensus        60 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f-~~~g~~yC-~~~y~~~f~~kC-----~~C~~~I~~~  132 (182)
T 2jtn_A           60 IPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYC-KDDFFKRFGTKC-----AACQLGIPPT  132 (182)
T ss_dssp             CCBCBTSSSBCCCSEEEEETTEEECSSTTSCTTTCCCCSSCCE-EETTEEEC-HHHHHHTTSCCC-----TTTCCCCCSS
T ss_pred             CCcCccCCCCccCceeEEecCCeEccccCccCCCCCccCCCce-eECCEeee-cCcccccccccc-----ccCCCccCCC
Confidence            4568899999877777899999999999999999999998775 79999999 599999999887     6788888765


Q ss_pred             c-EEEeCCeeeeccCCchhhhhhhcCCCCCCCCCcccC-c-c-eeecc-eeecccc
Q psy2231         121 T-FYSLSVDLYHASMHLRSDCLSMYGGKGNTSHTMIPD-T-Y-ITQVT-IVIARCL  171 (201)
Q Consensus       121 ~-f~~~~g~~yH~~~~C~~~y~~~~~~~C~~C~~~I~~-~-~-i~a~~-~~~~~c~  171 (201)
                      . .+...++.||..     ||      +|..|+++|.. . + +...+ .+|..|.
T Consensus       133 ~~v~~a~~~~~H~~-----CF------~C~~C~~~L~~g~~f~~~~~g~~yC~~cy  177 (182)
T 2jtn_A          133 QVVRRAQDFVYHLH-----CF------ACVVCKRQLATGDEFYLMEDSRLVCKADY  177 (182)
T ss_dssp             CCCCEETTEECCTT-----TC------CCTTTCCCCCTTCEEEECTTSCEECHHHH
T ss_pred             ceEEecCCCCEEeC-----CC------cCCCCCCCCCCCCceEEccCCEEECHHHH
Confidence            4 345677888553     44      78899999873 2 2 22223 4566553

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

Probab=99.74  E-value=3.6e-19  Score=132.22  Aligned_cols=98  Identities=14%  Similarity=0.138  Sum_probs=81.5

Q ss_pred             ccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCC--CceeeeCCeeeecCCccccccCCccCceeeC---CCCcc-
Q psy2231          43 NAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVP--GSHSEHDGKPYCNYPCYSALFSERSKFLGCL---SSVCS-  116 (201)
Q Consensus        43 ~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~--~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~---~C~~~-  116 (201)
                      .|.+|+++|...+.+.|+++.||++||+|..|+++|.+  ..|+.++|+||| +.||.++|+|+|....+.   .|..+ 
T Consensus         5 ~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC-~~~y~~~f~~~c~~c~~~~~~~~~~~~   83 (114)
T 1j2o_A            5 TCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLC-RRDYLRLGGSGGHMGSGGDVMVVGEPT   83 (114)
T ss_dssp             CBSSSCSCBCSSEEEECSSSEECTTTCCCSSSCSCCCCSSSCCCCBTTBCCC-HHHHHHHHTSCCSSCBSCSCCCSSCSS
T ss_pred             CCcCCCCeeCCcEEEEECchhHHHhcCcccccCCchhcCCCeeEEECCeeec-hHHHHHHhCcccCcCCCCceeEcCCcc
Confidence            48899999887778999999999999999999999985  589999999999 599999999998432221   23344 


Q ss_pred             ccCCcEEEeCCeeeeccCCchhhhhhhcCC
Q psy2231         117 ILSQTFYSLSVDLYHASMHLRSDCLSMYGG  146 (201)
Q Consensus       117 l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~  146 (201)
                      +.++.|++.||++|     |..||.+..+.
T Consensus        84 ~~g~~f~~~~~~~~-----C~~~~~~~~~~  108 (114)
T 1j2o_A           84 LMGGEFGDEDERLI-----TRLENTQFDAA  108 (114)
T ss_dssp             TTSSBCCCSSSCCC-----EEEECTTCCCT
T ss_pred             CCCCeeEEcCCEee-----cchhhhccccc
Confidence            56778999999999     99999876543

>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=99.73  E-value=3e-19  Score=134.15  Aligned_cols=94  Identities=18%  Similarity=0.234  Sum_probs=79.2

Q ss_pred             cccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCC--CCceeeeCCeeeecCCccccccCC--ccCceeeCCCCccc
Q psy2231          42 SNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLV--PGSHSEHDGKPYCNYPCYSALFSE--RSKFLGCLSSVCSI  117 (201)
Q Consensus        42 C~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~--~~~f~~~~g~~yCe~~cy~~~~~p--~C~~F~C~~C~~~l  117 (201)
                      -.|.+|+++|..++.+.|+++.||++||+|..|+++|.  +..|+.++|++|| +.||.++|++  +|     ..|+++|
T Consensus         6 ~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC-~~cy~~~f~~~~~C-----~~C~~~I   79 (122)
T 1m3v_A            6 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILC-RNDYIRLFGNSGAG-----GSGGHMG   79 (122)
T ss_dssp             CCBSSSSSCCCSSCCEEETTEEECHHHHCCSSSCCCTTTSEECCEEETTEEEC-HHHHHHHHCCCCSS-----SCSSCCS
T ss_pred             CCCcccCCEeCCcEEEEECCceeHhhCCCcCCCCCcccccCCeEEEECCeeec-HHHHHHHcCCCCcc-----ccCCCCc
Confidence            35899999987777799999999999999999999997  3579999999999 5999999999  66     5555554


Q ss_pred             -------------cCCcEEEeCCeeeeccCCchhhhhhhcCC
Q psy2231         118 -------------LSQTFYSLSVDLYHASMHLRSDCLSMYGG  146 (201)
Q Consensus       118 -------------~~~~f~~~~g~~yH~~~~C~~~y~~~~~~  146 (201)
                                   .|+.|++.||++|     |..||.+.++.
T Consensus        80 ~~~~~~~~g~~~l~g~~f~~~~~~~y-----C~~~~~~~~~~  116 (122)
T 1m3v_A           80 SGGDVMVVGEPTLMGGEFGDEDERLI-----TRLENTQFDAA  116 (122)
T ss_dssp             CCEESSSSSSSSCCSCTTCCTTCCCC-----EECTTTTTTCC
T ss_pred             CchheEEcCCcCCCCCccEecCCEeE-----ccCcchhchhh
Confidence                         4556888888888     99999877643

>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=99.71  E-value=9.4e-18  Score=135.08  Aligned_cols=58  Identities=36%  Similarity=0.857  Sum_probs=53.6

Q ss_pred             CCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCcc
Q psy2231          47 LPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERS  105 (201)
Q Consensus        47 C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C  105 (201)
                      |+++|.+++.|.++|+.||++||+|..|+++|.+..|+.++|++|| +.||.++|+++|
T Consensus       121 C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC-~~cy~~~f~~kc  178 (192)
T 1b8t_A          121 CGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYC-KGCYAKNFGPKG  178 (192)
T ss_dssp             TSCEECSSSCEEETTEEECTTTCBCTTTCCBCCSSSEEEETTEEEE-HHHHHHHTCCCC
T ss_pred             CCCEecCcEEEecCCCccchhcCCccccCCCCCCCcccccCCEEeC-HHHHHHhcCCcC
Confidence            5677767788999999999999999999999998899999999999 699999999988

>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=99.68  E-value=4.5e-17  Score=113.73  Aligned_cols=61  Identities=28%  Similarity=0.604  Sum_probs=57.5

Q ss_pred             cCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccC
Q psy2231          44 AINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSK  106 (201)
Q Consensus        44 cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~  106 (201)
                      |.+|+++|.+++.|.++++.||++||+|..|+++|.+ .|+.++|+||| +.||.++|+++|.
T Consensus        18 C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~-~~~~~~g~~yC-~~~y~~~fg~~C~   78 (80)
T 2dj7_A           18 CAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTG-EYISKDGVPYC-ESDYHAQFGSGPS   78 (80)
T ss_dssp             CTTTCCCCSSSCCEEETTEEECTTTCBCSSSCCBCSS-CCEEETTEEEC-TTHHHHHTTCCST
T ss_pred             CcCcCCeeCCCeEEEECCcccccccCCcCcCCCCcCC-CeEEECCEEEC-HHHHHHHcCCCCC
Confidence            8999999988899999999999999999999999986 69999999999 5999999999984

>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=99.65  E-value=9.7e-17  Score=128.78  Aligned_cols=95  Identities=19%  Similarity=0.236  Sum_probs=73.6

Q ss_pred             cCcccCcccceeeeece-eeccCCCcccCCCcccccC-----------------------------------CCCCeeee
Q psy2231          10 VNSRGAGLQQYAMILDL-LLSSSGRRYVLQHHTSNAI-----------------------------------NLPNSMYL   53 (201)
Q Consensus        10 ~~~~~~~~~~~~~~~~~-~~~a~g~~~h~~cf~C~cc-----------------------------------~C~~~i~~   53 (201)
                      ..++..+...  .|.++ ++.|+|+.||++||+|.-|                                   +|+++|..
T Consensus         4 ~~~~C~~C~~--~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~cy~~~~~~~~~C~~C~~~I~~   81 (188)
T 1rut_X            4 SWKRCAGCGG--KIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPA   81 (188)
T ss_dssp             CCCBBTTTCC--BCCCSEEEEETTEEECGGGCBCTTTCCBHHHHCSEEEEETTEEECHHHHHHHHSCCEECTTTCCEECT
T ss_pred             CCCcCccCCC--EeCCceeEEecCcEecccCcccCCCCcccccCCceEEEeCCccccccccccccccCCccccCCCcccc
Confidence            3455666665  33344 6899999999999998644                                   47788765


Q ss_pred             cc-eEEeCCCcccCCCcccCCCCCcCC-CCceeeeCCeeeecCCccccccCCccCc
Q psy2231          54 AE-RKTSLGKDWHGSCLRCENCNKTLV-PGSHSEHDGKPYCNYPCYSALFSERSKF  107 (201)
Q Consensus        54 ~~-~v~a~g~~wH~~CF~C~~C~~~L~-~~~f~~~~g~~yCe~~cy~~~~~p~C~~  107 (201)
                      .+ .+.|+++.||++||+|..|+++|. +..|+..++++|| +.||.++++++|.+
T Consensus        82 ~e~~i~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~g~~yC-~~c~~~~~~~~~~~  136 (188)
T 1rut_X           82 SELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFC-EHDRPTALINGHLN  136 (188)
T ss_dssp             TSEEEEETTEEECGGGCBCTTTCCBCCTTCEEEEETTEEEE-GGGCCTTTC-----
T ss_pred             CcEEEEcCCCEEeCCCCeECCCCCCCCCCCeEEEECCeEEC-HHHHHHHhcccccc
Confidence            45 578999999999999999999996 5579999999999 69999999999843

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

Probab=99.64  E-value=6.2e-17  Score=122.30  Aligned_cols=90  Identities=16%  Similarity=0.159  Sum_probs=71.9

Q ss_pred             cccCcccceeeeece-eeccCCCcccCCCcccccC-----------------------------------CCCCeeeecc
Q psy2231          12 SRGAGLQQYAMILDL-LLSSSGRRYVLQHHTSNAI-----------------------------------NLPNSMYLAE   55 (201)
Q Consensus        12 ~~~~~~~~~~~~~~~-~~~a~g~~~h~~cf~C~cc-----------------------------------~C~~~i~~~~   55 (201)
                      ++..+..+  .|.++ ++.|+|+.||++||+|.-|                                   +|+++|...+
T Consensus         3 ~~C~~C~~--~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~~~~C~~C~~~I~~~e   80 (131)
T 2xjy_A            3 LTCGGCQQ--NIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIRAYE   80 (131)
T ss_dssp             CBBTTTCC--BCCSSEEEEETTEEEETTTCBCTTTCCBCSSTTCCEEEETTEEECHHHHHHHHCCCEECTTTCCEECTTS
T ss_pred             ccCcCCCC--EeCCcEEEEECCCcccHHHcccCcCCCccccCCCeEEEECCEEeecCchhhhCCCccChhhcCCccCccc
Confidence            44555555  33444 7899999999999998654                                   4677765444


Q ss_pred             -eEEeCCCcccCCCcccCCCCCcCC-CCceeeeCCeeeecCCccccccCCc
Q psy2231          56 -RKTSLGKDWHGSCLRCENCNKTLV-PGSHSEHDGKPYCNYPCYSALFSER  104 (201)
Q Consensus        56 -~v~a~g~~wH~~CF~C~~C~~~L~-~~~f~~~~g~~yCe~~cy~~~~~p~  104 (201)
                       .+.|+++.||++||+|..|+++|. +..|+..+|++|| .+||.++|+++
T Consensus        81 ~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~C-~~c~~~~~~~~  130 (131)
T 2xjy_A           81 MTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVC-EQDIYEWTKIN  130 (131)
T ss_dssp             EEEEETTEEEEGGGCBCTTTCCBCCTTCEEEEETTEEEE-GGGHHHHHHHH
T ss_pred             eeEeeCCceECccCcccCCCCCCCCCCCEEEEECCEEEc-HHHHHHHhhcc
Confidence             588999999999999999999994 6679999999999 59999988754

>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=99.64  E-value=1.6e-16  Score=109.41  Aligned_cols=64  Identities=53%  Similarity=1.154  Sum_probs=59.9

Q ss_pred             cccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecC-CccccccCCccC
Q psy2231          42 SNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNY-PCYSALFSERSK  106 (201)
Q Consensus        42 C~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~-~cy~~~~~p~C~  106 (201)
                      -.|.+|+++|.+++.|.|+++.||++||+|..|+++|.+..|+.+++++|| . +||.++|+|+|+
T Consensus        10 ~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC-~~~cy~~~f~~kc~   74 (76)
T 2cu8_A           10 SKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFC-HKPCYATLFGSGPS   74 (76)
T ss_dssp             CBCTTTCCBCCTTTEEEETTEEEETTTCBCSSSCCBCCTTSCEEETTEEEC-TTTHHHHHSCSSCS
T ss_pred             CCCcCCCCEeECCeEEEECCeEeeCCCCCCCCCCCccCCCceEeECCEEec-chHHHHHhcccccC
Confidence            358999999987999999999999999999999999998899999999999 7 699999999985

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

Probab=99.62  E-value=4.2e-16  Score=107.28  Aligned_cols=62  Identities=56%  Similarity=1.201  Sum_probs=58.5

Q ss_pred             ccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecC-CccccccCCcc
Q psy2231          43 NAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNY-PCYSALFSERS  105 (201)
Q Consensus        43 ~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~-~cy~~~~~p~C  105 (201)
                      .|.+|+++|.+++.|.++|+.||++||+|..|+++|.+..|+.++|++|| . +||.++|+++|
T Consensus         2 ~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC-~~~cy~~~f~~~C   64 (76)
T 1iml_A            2 KCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYC-NHPCYSAMFGPKG   64 (76)
T ss_dssp             BCTTTSSBCCGGGEEEETTEEEETTTCBCTTTCCBCCTTTEEEETTEEEE-TTTHHHHHSSCCC
T ss_pred             cCCCCCCEEECceEEEECCccccCCCCCccccCccCCCCceECcCCeEee-CHHHHHHHhCccC
Confidence            48899999987999999999999999999999999999899999999999 7 59999999988

>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=99.62  E-value=1.9e-16  Score=112.78  Aligned_cols=61  Identities=30%  Similarity=0.661  Sum_probs=58.3

Q ss_pred             cCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCcc
Q psy2231          44 AINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERS  105 (201)
Q Consensus        44 cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C  105 (201)
                      |.+|++.|.+++.|.++++.||++||+|..|+++|.+..|+.++|++|| ..||.++|+|+|
T Consensus        18 C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC-~~~y~~~f~~kc   78 (91)
T 2d8y_A           18 CVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYC-KPHFNQLFKSKG   78 (91)
T ss_dssp             CTTTCCBCCTTSEEECSSSEEETTTCBCTTTCCBCCTTTCCCSSSCCCC-HHHHHHHSCCCS
T ss_pred             CccCCCccCCceeEEECCCEECCCCCeeCCCCCCCCCCCcEeECCEEEC-HHHHHHHhCCCc
Confidence            9999999988889999999999999999999999999889999999999 599999999998

>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=99.61  E-value=7.1e-16  Score=109.61  Aligned_cols=64  Identities=25%  Similarity=0.531  Sum_probs=59.0

Q ss_pred             ccccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccC
Q psy2231          41 TSNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSK  106 (201)
Q Consensus        41 ~C~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~  106 (201)
                      .-.|.+|+++| .++.|.|+|+.||++||+|..|+++|.+..|+.++|++|| +.||.++|+|+|.
T Consensus        25 ~~~C~~C~~~I-~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC-~~cy~~~f~~~c~   88 (90)
T 2dar_A           25 TPMCAHCNQVI-RGPFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYC-ELCYEKFFASGPS   88 (90)
T ss_dssp             CCBBSSSCCBC-CSCEEEETTEEECTTTCBCSSSCCBCSSSCBEESSSCEEC-HHHHHHHTSCCCC
T ss_pred             CCCCccCCCEe-cceEEEECCccccccCCccCCCCCCCCCCEeEeECCEEEC-HHHHHHHcCCCCC
Confidence            34589999997 6888999999999999999999999998899999999999 5999999999984

>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=99.61  E-value=7.3e-16  Score=106.14  Aligned_cols=66  Identities=20%  Similarity=0.428  Sum_probs=59.3

Q ss_pred             cccccCCCCCeeee---cceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccC
Q psy2231          40 HTSNAINLPNSMYL---AERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSK  106 (201)
Q Consensus        40 f~C~cc~C~~~i~~---~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~  106 (201)
                      |.-.|.+|+++|.+   .+.|.++++.||++||+|..|+++|.+..|+.++|++|| +.||.++|+++|.
T Consensus         4 ~~~~C~~C~~~I~~~g~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC-~~cy~~~f~~~C~   72 (76)
T 1x68_A            4 GSSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFC-QKCGSGMDTDISG   72 (76)
T ss_dssp             CCCCCTTTCCCCCTTTTCCEEEETTEEEEGGGCBCTTTCCBCSSSCEEEETTEEEE-TTTTCCCCCCSSS
T ss_pred             cCCCCccCCCcccCCCCceeEEECCcccCcccCChhhCCCcCCCCceEeECCEEEC-HHHhhhhhCCcCC
Confidence            34468899999863   478999999999999999999999998899999999999 6999999999983

>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=99.60  E-value=2.5e-16  Score=109.67  Aligned_cols=66  Identities=26%  Similarity=0.554  Sum_probs=56.2

Q ss_pred             ccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeC
Q psy2231          43 NAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCL  111 (201)
Q Consensus        43 ~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~  111 (201)
                      .|.+|+++|.+++.+.++++.||++||+|..|+++|.+..|+.+++++|| ++||.++|+|+|  +.|.
T Consensus         9 ~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC-~~cy~~~f~~~c--~gcg   74 (81)
T 1a7i_A            9 KCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYC-KSCYGKKYGPKG--YGYG   74 (81)
T ss_dssp             BCSSSCCBCSSTTEEEETTEEEESSSEECSSSCCEECSSCCEEETTEEEC-SHHHHHHCC---------
T ss_pred             cCcCcCccccCceeEEeCCcccccccCccCCCCCCCCCCCeEeeCCEEEC-HHHHHHHhCCcc--cccC
Confidence            48899999888999999999999999999999999999899999999999 599999999999  5554

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

Probab=99.59  E-value=5.6e-16  Score=105.32  Aligned_cols=65  Identities=25%  Similarity=0.606  Sum_probs=59.3

Q ss_pred             ccccCCCCCeeeec-ceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccC
Q psy2231          41 TSNAINLPNSMYLA-ERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSK  106 (201)
Q Consensus        41 ~C~cc~C~~~i~~~-~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~  106 (201)
                      .-.|.+|+++|.++ +.+.|+|+.||++||+|..|+++|.+..|+.++|++|| +.||.++|+|+|+
T Consensus         5 ~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC-~~cy~~~f~~~C~   70 (72)
T 1wyh_A            5 SSGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYC-VPCYENKFASGPS   70 (72)
T ss_dssp             CCBCSSSCCBCCSSSCEECSTTCCEETTTCBCTTTCCBTTTSCEEEETTEEEE-HHHHHHHTSCCCC
T ss_pred             CCCCccCCCccccCccEEEECccccCcccCeECCCCCcCCCCccCCcCCeEEC-HHHHHHHccCcCC
Confidence            34588999998774 77999999999999999999999999899999999999 5999999999984

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

Probab=99.59  E-value=5.7e-16  Score=104.59  Aligned_cols=63  Identities=22%  Similarity=0.526  Sum_probs=58.1

Q ss_pred             ccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCc
Q psy2231          43 NAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKF  107 (201)
Q Consensus        43 ~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~  107 (201)
                      .|.+|+++| .++.|.++++.||++||+|..|+++|.+..|+.+++++|| ++||.++|+++|.+
T Consensus         7 ~C~~C~~~I-~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC-~~cy~~~f~~~C~g   69 (69)
T 2cur_A            7 GCVKCNKAI-TSGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYC-VDCYKNFVSGPSSG   69 (69)
T ss_dssp             CCSSSCCCC-CTTCEEETTEEECTTTTBCTTTCCBCTTSCEEECSSCEEE-HHHHHHHHTCSCCC
T ss_pred             CCcccCCEe-CcceEEECccccccCcCEECCCCCCCCCCccEeECCEEEC-HHHhHHHhcCCCCC
Confidence            488999997 4678999999999999999999999998899999999999 59999999999853

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

Probab=99.58  E-value=7.8e-16  Score=104.59  Aligned_cols=66  Identities=20%  Similarity=0.564  Sum_probs=59.6

Q ss_pred             cccccCCCCCeeeec-ceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccC
Q psy2231          40 HTSNAINLPNSMYLA-ERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSK  106 (201)
Q Consensus        40 f~C~cc~C~~~i~~~-~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~  106 (201)
                      |.-.|.+|+++|.++ ..+.|+|+.||++||+|..|+++|.+..|+.++|++|| +.||.++|+|+|.
T Consensus         4 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC-~~cy~~~f~~~C~   70 (72)
T 1x4k_A            4 GSSGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFC-VPCYEKQHASGPS   70 (72)
T ss_dssp             CCCCBSSSCCCCCSSSCEEEETTEEEETTTTCCSSSCCCCCSSSEEEETTEEEE-HHHHHHHTSSCCC
T ss_pred             cCCCCccCCCcccCCceEEEECcCeecccCCcccccCCccCCCccCccCCeEEC-HHHHhHHhCCCCC
Confidence            334588999998776 57999999999999999999999999899999999999 5999999999984

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

Probab=99.58  E-value=7.1e-16  Score=104.34  Aligned_cols=65  Identities=22%  Similarity=0.553  Sum_probs=58.7

Q ss_pred             cccccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccC
Q psy2231          40 HTSNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSK  106 (201)
Q Consensus        40 f~C~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~  106 (201)
                      |.-.|.+|+++|. ++.|.++++.||++||+|..|+++|.+..|+.+++++|| ..||.++|+|+|.
T Consensus         4 ~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC-~~cy~~~f~~~c~   68 (70)
T 2d8z_A            4 GSSGCVQCKKPIT-TGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYC-LNCFCDLYASGPS   68 (70)
T ss_dssp             CCCBCSSSCCBCC-SSEEESSSSEEETTTSBCSSSCCBCTTSCCEESSSSEEC-HHHHHHHTCCCCT
T ss_pred             CCCCCcccCCeec-cceEEECccccCCCCCccCCCCCcCCcCceEeeCCeEEC-HHHHHHHhccccC
Confidence            3345889999975 677999999999999999999999998899999999999 5999999999984

>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=99.58  E-value=2.7e-15  Score=105.01  Aligned_cols=61  Identities=33%  Similarity=0.552  Sum_probs=56.1

Q ss_pred             cCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCcee--eeCCeeeecCCccccccCCcc
Q psy2231          44 AINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHS--EHDGKPYCNYPCYSALFSERS  105 (201)
Q Consensus        44 cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~--~~~g~~yCe~~cy~~~~~p~C  105 (201)
                      |.+|++.|++++.|.++++.||++||+|..|+++|....|+  +++|++|| +.||.++|++..
T Consensus        18 C~~C~~~I~~~e~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC-~~~y~~~~~~~~   80 (82)
T 2co8_A           18 CALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYC-LQHLPQTDSGPS   80 (82)
T ss_dssp             CSSSCCBCCTTTBCCBTTBCCBTTTCBCSSSCCBCCTTSEECCTTTCCCEE-TTTCCCCCCCCC
T ss_pred             CcccCCCcccceEEEECCCeeCCCcCEEcCCCCCcCCCceeEeCcCCEEEC-hHHHHhhhcCCC
Confidence            89999999888999999999999999999999999998888  47999999 599999988654

>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=99.58  E-value=5e-16  Score=104.01  Aligned_cols=62  Identities=24%  Similarity=0.526  Sum_probs=57.0

Q ss_pred             ccccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCc
Q psy2231          41 TSNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER  104 (201)
Q Consensus        41 ~C~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~  104 (201)
                      .-.|.+|+++|. ++.|.|+|+.||++||+|..|+++|.+..|+.++|++|| +.||.++|+|+
T Consensus         5 ~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC-~~~y~~~f~~k   66 (66)
T 1nyp_A            5 VPICGACRRPIE-GRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYC-ETHYNQLFGDV   66 (66)
T ss_dssp             CCEETTTTEECC-SCEECCTTSBEETTTCBCTTTCCBCSSSCCEEETTEEEC-HHHHHHHCSCC
T ss_pred             CCCCcccCCEec-ceEEEECccccccCcCEECCCCCCCCCCceEeECCcEEC-HHHHHHHhCCC
Confidence            345899999986 888999999999999999999999999899999999999 59999999875

>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=4.1e-16  Score=108.28  Aligned_cols=61  Identities=16%  Similarity=0.228  Sum_probs=56.5

Q ss_pred             cCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccC
Q psy2231          44 AINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSK  106 (201)
Q Consensus        44 cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~  106 (201)
                      |.+|+++|. ++.|.|+++.||++||+|..|+++|.+..|+.+++++|| +.||.++|+|++.
T Consensus        18 C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC-~~cy~~~~~p~g~   78 (79)
T 1x62_A           18 CDKCGTGIV-GVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYC-EKHARERVSGPSS   78 (79)
T ss_dssp             CSSSCCCCC-SSCEECSSCEECTTTTSCSSSCCCHHHHCCEESSSCEEC-HHHHHHHHSSCCC
T ss_pred             cccCCCCcc-CcEEEECcceeCcCcCeeCCCCCCCCCCCeEeECCEEEC-HHHHHHHhCCCCC
Confidence            899999975 578999999999999999999999988789999999999 5999999999874

>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=99.57  E-value=2.6e-15  Score=104.70  Aligned_cols=66  Identities=18%  Similarity=0.450  Sum_probs=59.3

Q ss_pred             cccccCCCCCeeee-cceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccC
Q psy2231          40 HTSNAINLPNSMYL-AERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSK  106 (201)
Q Consensus        40 f~C~cc~C~~~i~~-~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~  106 (201)
                      |.-.|.+|+++|.+ +..+.|+++.||++||+|..|+++|.+..|+.++|++|| +.||.++|+++|.
T Consensus        14 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~~~~C-~~c~~~~~~~~C~   80 (82)
T 2ehe_A           14 FANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELLC-NDCYCSAFSSGPS   80 (82)
T ss_dssp             CSCBCTTTCCBCCSSCCBCCCSSCCCBTTTSBCTTTCCBCSSCCEEEETTEEEE-TTTSSCCGGGSSC
T ss_pred             cCCcCccCCCccccCcEEEEeCCccccccCCeecCCCCccCCCccEeeCCEEEC-HHHHhhhcCCCCC
Confidence            34568899999873 567889999999999999999999999899999999999 6999999999984

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

Probab=99.55  E-value=3.6e-15  Score=105.70  Aligned_cols=62  Identities=21%  Similarity=0.243  Sum_probs=57.2

Q ss_pred             ccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccC
Q psy2231          43 NAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSK  106 (201)
Q Consensus        43 ~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~  106 (201)
                      .|.+|++.|. ++.|.|+++.||++||+|..|+++|.+..|+.+++++|| +.||.++|+|++.
T Consensus        27 ~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC-~~~y~~~f~p~~~   88 (89)
T 1x64_A           27 LCDKCGSGIV-GAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYC-ETHARARTSGPSS   88 (89)
T ss_dssp             BCTTTCCBCC-SCCEESSSCEECTTTCCCSSSCCCTTTSCCEEETTEEEC-HHHHHHHSSSCCC
T ss_pred             CcccCCCEec-ccEEEECCceECccCCEecCCCCCCCCCCeEeECCEEEC-HHHHHHHhCCCCC
Confidence            3899999975 588999999999999999999999998899999999999 5999999999874

>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=99.55  E-value=1.8e-15  Score=102.94  Aligned_cols=63  Identities=19%  Similarity=0.405  Sum_probs=57.2

Q ss_pred             cccCCCCCeeee---cceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCcc
Q psy2231          42 SNAINLPNSMYL---AERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERS  105 (201)
Q Consensus        42 C~cc~C~~~i~~---~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C  105 (201)
                      -.|.+|+++|.+   .+.|.|+|+.||++||+|..|+++|.+..|+.++|++|| +.||.++|+|++
T Consensus         6 ~~C~~C~~~I~~~~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC-~~c~~~~~~p~~   71 (72)
T 1x4l_A            6 SGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILC-PDCGKDISGPSS   71 (72)
T ss_dssp             CSBTTTTBCCCCSSSCSCEECSSCEECTTTCBCSSSCCBCTTSCCEECSSSEEC-HHHHHTCCCSSC
T ss_pred             CCCcCCCccccCCCCcceEEECCcccCcccCEeccCCCcCCCCccEeECCEEEC-hhHcCcccCCCC
Confidence            358999999874   377999999999999999999999998899999999999 599999999975

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

Probab=99.54  E-value=2e-15  Score=104.67  Aligned_cols=65  Identities=20%  Similarity=0.482  Sum_probs=59.1

Q ss_pred             cccccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccC
Q psy2231          40 HTSNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSK  106 (201)
Q Consensus        40 f~C~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~  106 (201)
                      |.-.|.+|+++|. ++.|.|+++.||++||+|..|+++|.+..|+.++|++|| +.||.++|+++|.
T Consensus        14 ~~~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC-~~~y~~~f~~~C~   78 (80)
T 1x3h_A           14 FSPKCGGCNRPVL-ENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFC-ELHYHHRRGSGPS   78 (80)
T ss_dssp             CSCBCTTTCCBCC-SSCEEETTEEECTTTCBCSSSCCBSCSSCCEESSSCEEC-HHHHHHHHSSSCC
T ss_pred             cCCccccCCCeec-ceeEEECCCeEecCcCChhhCCCCCCCCcEEeECCEEEC-HHHHHHHcCCCCC
Confidence            3456899999975 578999999999999999999999998899999999999 5999999999984

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

Probab=99.54  E-value=1.9e-15  Score=103.94  Aligned_cols=64  Identities=23%  Similarity=0.428  Sum_probs=56.5

Q ss_pred             cccCCCCCeeeecc-eEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccC
Q psy2231          42 SNAINLPNSMYLAE-RKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSK  106 (201)
Q Consensus        42 C~cc~C~~~i~~~~-~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~  106 (201)
                      -.|.+|+++|.+++ .+.++|+.||++||+|..|+++|.+..|+.++|++|| +.||.++|+|+|.
T Consensus        12 ~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC-~~~y~~~f~~~C~   76 (77)
T 1g47_A           12 ATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYC-EHDFQMLFAPCWI   76 (77)
T ss_dssp             CBCSSSCCBCCSTTTCEEETTEEECTTTCCCTTTCCCCGGGCSEEETTEEEC-HHHHHHHCCCC--
T ss_pred             CCchhcCCccCCCceEEEeCccEeccccCeECCCCCCCCCCCeEeECCeEeC-HHHHHHHhhcccC
Confidence            35899999987544 5789999999999999999999998899999999999 5999999999983

>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=99.52  E-value=4.4e-15  Score=103.32  Aligned_cols=65  Identities=14%  Similarity=0.331  Sum_probs=58.0

Q ss_pred             cccccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeee-CCeeeecCCccccccCCccC
Q psy2231          40 HTSNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEH-DGKPYCNYPCYSALFSERSK  106 (201)
Q Consensus        40 f~C~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~-~g~~yCe~~cy~~~~~p~C~  106 (201)
                      +.-.|.+|+++|. ++.|.|+++.||++||+|..|+++|.+..|+.. +|++|| +.||.++|+|+|+
T Consensus        14 ~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~g~~yC-~~cy~~~f~~~C~   79 (81)
T 2dlo_A           14 TLEKCATCSQPIL-DRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHC-IEDFHRKFASGPS   79 (81)
T ss_dssp             SCCBCTTTCCBCC-SCCEEETTEEECTTTCBCSSSCCBCTTSCEECCTTCCCEE-HHHHHHHTTSSSC
T ss_pred             CCCccccCCCeec-ceeEEECCccccHHhcCcccCCCccCCCeeEECCCCEEEC-HHHHHHHhcCcCC
Confidence            4456889999985 678999999999999999999999998888876 789999 5999999999984

>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=99.52  E-value=6.1e-15  Score=102.66  Aligned_cols=66  Identities=20%  Similarity=0.496  Sum_probs=59.3

Q ss_pred             cccccCCCCCeeeecc-eEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccC
Q psy2231          40 HTSNAINLPNSMYLAE-RKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSK  106 (201)
Q Consensus        40 f~C~cc~C~~~i~~~~-~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~  106 (201)
                      |.-.|.+|+++|.+++ .|.|+++.||++||+|..|+++|.+..|+.+++++|| +.||.++|+|++.
T Consensus        14 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC-~~cy~~~f~~~~~   80 (82)
T 1x63_A           14 DSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYC-VTCHETKFASGPS   80 (82)
T ss_dssp             CSCBCSSSCCBCCSSSCEEECSSCEEETTTCCCSSSCCCCTTSCEEEETTEEEE-HHHHHHHTSCCCS
T ss_pred             cCCcCccCCcccccCceEEEECccccccccCchhhCCCccCCCccEeeCCEEEC-HHHHHHHhCCCCC
Confidence            4456889999987655 5899999999999999999999999899999999999 5999999999873

>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=99.51  E-value=4.2e-15  Score=117.24  Aligned_cols=93  Identities=15%  Similarity=0.209  Sum_probs=72.0

Q ss_pred             CcccCcccceeeeeceeeccCCCcccCCCcccccC------------------------------CCCCeeeecce-EEe
Q psy2231          11 NSRGAGLQQYAMILDLLLSSSGRRYVLQHHTSNAI------------------------------NLPNSMYLAER-KTS   59 (201)
Q Consensus        11 ~~~~~~~~~~~~~~~~~~~a~g~~~h~~cf~C~cc------------------------------~C~~~i~~~~~-v~a   59 (201)
                      .++..+..+... ...++.|+|+.||++||+|.-|                              +|++.|..++. +.|
T Consensus         6 ~~~C~~C~~~I~-~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~g~~yC~~~y~~~f~~~C~~C~~~I~~~~~v~~a   84 (169)
T 2rgt_A            6 IPMCAGCDQHIL-DRFILKALDRHWHSKCLKCSDCHVPLAERCFSRGESVYCKDDFFKRFGTKCAACQLGIPPTQVVRRA   84 (169)
T ss_dssp             -CBBSSSSSBCC-SSSCEECSSCEECTTTSBCTTTCCBCCSCCEESSSCEECHHHHHHHHSCBCTTTCCBCCTTSEEEEE
T ss_pred             CCccccCCCccC-CcEEEEECCcEEccccCccCCCCCcCCCCCcccCCeeeecccccccccccccccccccCCCcEEEEc
Confidence            456666665332 2346889999999999999766                              58888766554 579


Q ss_pred             CCCcccCCCcccCCCCCcCCC-Ccee-eeCCeeeecCCccccccCCcc
Q psy2231          60 LGKDWHGSCLRCENCNKTLVP-GSHS-EHDGKPYCNYPCYSALFSERS  105 (201)
Q Consensus        60 ~g~~wH~~CF~C~~C~~~L~~-~~f~-~~~g~~yCe~~cy~~~~~p~C  105 (201)
                      +++.||++||+|..|+++|.. ..|+ ..+|++|| +.||.+++...+
T Consensus        85 ~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~~C-~~c~~~~~~~~~  131 (169)
T 2rgt_A           85 QDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVC-KADYETAKQGGS  131 (169)
T ss_dssp             TTEEEEGGGCBCTTTCCBCCTTCEEEECTTSCEEE-HHHHHHHHHCC-
T ss_pred             CCceEeeCCCcCCCCCCCCCCCCceEEccCCeEEC-HHHHHHHhhccC
Confidence            999999999999999999974 4565 56899999 699998876543

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

Probab=99.51  E-value=6.9e-15  Score=101.93  Aligned_cols=65  Identities=23%  Similarity=0.612  Sum_probs=58.7

Q ss_pred             cccccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCccC
Q psy2231          40 HTSNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSK  106 (201)
Q Consensus        40 f~C~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~  106 (201)
                      |.-.|.+|+++|. ++.|.|+++.||++||+|..|+++|.+..|+.+++++|| +.||.++|+|+|.
T Consensus        14 ~~~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC-~~cy~~~f~~~c~   78 (80)
T 2cuq_A           14 FAPRCARCSKTLT-QGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYC-VACFGELFASGPS   78 (80)
T ss_dssp             SSCCCTTTCCCCC-SCCEESSSSEECTTTCBCSSSCCBCTTCCEEECSSSEEE-HHHHHHHTTCSTT
T ss_pred             cCCcCCCCCCEec-CcEEEECCchhhhhhCCcccCCCcCCCCeeEeECCEEEC-HHHHHHHcCCCCC
Confidence            3456889999974 578999999999999999999999998899999999999 5999999999984

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

Probab=99.50  E-value=8.3e-15  Score=99.11  Aligned_cols=61  Identities=18%  Similarity=0.494  Sum_probs=56.2

Q ss_pred             ccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCcc
Q psy2231          43 NAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERS  105 (201)
Q Consensus        43 ~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C  105 (201)
                      .|.+|+++|. ++.|.++++.||++||+|..|+++|.+..|+.++|++|| +.||.++|+++.
T Consensus         7 ~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC-~~c~~~~~~~~~   67 (70)
T 2d8x_A            7 GCHQCGEFII-GRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLC-RPCHNREKASGP   67 (70)
T ss_dssp             BCSSSCCBCC-SCCEEETTEEECTTTSBCSSSCCBCSSSCCEEETTEEEC-HHHHHHHHCCCS
T ss_pred             cCccCCCEec-ceEEEECcccccccCCEeCCCCCcCCCCccEeECCeEEC-HHHhhhhcCCCC
Confidence            4889999975 788999999999999999999999999999999999999 599999998764

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

Probab=99.49  E-value=1.1e-14  Score=116.16  Aligned_cols=89  Identities=15%  Similarity=0.221  Sum_probs=69.6

Q ss_pred             cCcccCcccceeeeeceeeccCCCcccCCCcccccC------------------------------CCCCeeeecc-eEE
Q psy2231          10 VNSRGAGLQQYAMILDLLLSSSGRRYVLQHHTSNAI------------------------------NLPNSMYLAE-RKT   58 (201)
Q Consensus        10 ~~~~~~~~~~~~~~~~~~~~a~g~~~h~~cf~C~cc------------------------------~C~~~i~~~~-~v~   58 (201)
                      ..++..+..+... ...++.++|+.||++||+|.-|                              +|+++|.+.+ .+.
T Consensus        59 ~~~~C~~C~~~I~-~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~g~~yC~~~y~~~f~~kC~~C~~~I~~~~~v~~  137 (182)
T 2jtn_A           59 EIPMCAGCDQHIL-DRFILKALDRHWHSKCLKCSDCHVPLAERCFSRGESVYCKDDFFKRFGTKCAACQLGIPPTQVVRR  137 (182)
T ss_dssp             SCCBCBTSSSBCC-CSEEEEETTEEECSSTTSCTTTCCCCSSCCEEETTEEECHHHHHHTTSCCCTTTCCCCCSSCCCCE
T ss_pred             CCCcCccCCCCcc-CceeEEecCCeEccccCccCCCCCccCCCceeECCEeeecCccccccccccccCCCccCCCceEEe
Confidence            3456666666332 2347889999999999999766                              5888876555 468


Q ss_pred             eCCCcccCCCcccCCCCCcCCC-Ccee-eeCCeeeecCCccccc
Q psy2231          59 SLGKDWHGSCLRCENCNKTLVP-GSHS-EHDGKPYCNYPCYSAL  100 (201)
Q Consensus        59 a~g~~wH~~CF~C~~C~~~L~~-~~f~-~~~g~~yCe~~cy~~~  100 (201)
                      |+++.||++||+|..|+++|.. ..|+ ..+|++|| +.||.++
T Consensus       138 a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~yC-~~cy~~~  180 (182)
T 2jtn_A          138 AQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVC-KADYETA  180 (182)
T ss_dssp             ETTEECCTTTCCCTTTCCCCCTTCEEEECTTSCEEC-HHHHHHH
T ss_pred             cCCCCEEeCCCcCCCCCCCCCCCCceEEccCCEEEC-HHHHHHh
Confidence            9999999999999999999974 4565 56899999 6998764

>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=99.49  E-value=1.7e-14  Score=100.19  Aligned_cols=61  Identities=20%  Similarity=0.378  Sum_probs=55.2

Q ss_pred             cccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccCCcc
Q psy2231          42 SNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERS  105 (201)
Q Consensus        42 C~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C  105 (201)
                      -.|.+|+++|. ++.|.|+|+.||++||+|..|+++|.+.. +.++|++|| +.||.++|+|.+
T Consensus        16 ~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~-f~~~g~~yC-~~cy~~~f~p~~   76 (79)
T 2cor_A           16 YICQKCHAIID-EQPLIFKNDPYHPDHFNCANCGKELTADA-RELKGELYC-LPCHDKMGVSGP   76 (79)
T ss_dssp             CBCTTTCCBCC-SCCCCCSSSCCCTTTSBCSSSCCBCCTTC-EEETTEEEC-HHHHHTTSCCSS
T ss_pred             CCCccCCCEec-ceEEEECcceeCCCCCEeCCCCCccCCCC-EeECCEEeC-HHHHHHhCCCCC
Confidence            34899999976 88899999999999999999999999875 599999999 599999999875

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

Probab=99.49  E-value=6.9e-14  Score=104.87  Aligned_cols=109  Identities=9%  Similarity=0.166  Sum_probs=89.3

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCCCC
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKGN  149 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C~  149 (201)
                      +|..|++++.+..+..-.|+.|-          +.|  |.|..|+++|.++.|++.||++|     |..||.++|+++|.
T Consensus         5 ~C~~C~~~I~~~~~~~a~~~~~H----------~~C--F~C~~C~~~L~~~~f~~~~g~~y-----C~~cy~~~~~~~C~   67 (126)
T 2xqn_T            5 RCAGCDELIFSNEYTQAENQNWH----------LKH--FCCFDCDSILAGEIYVMVNDKPV-----CKPCYVKNHAVVCQ   67 (126)
T ss_dssp             BBTTTSSBCCSSCEEEETTEEEC----------GGG--SBCTTTCCBCTTSEEEEETTEEE-----EHHHHHHHSCCBCT
T ss_pred             CCccCCCEeCCceEEeeCCCCcc----------CCC--CCcCCCCCCCCcCEEEeECCEEe-----chHHhCcCcCccCc
Confidence            68899999986555555555555          455  99999999999999999999999     99999999999999


Q ss_pred             CCCCccc--Ccceeecce-ee--ccccCcceeeeeeeCCcceEEEeecCccc
Q psy2231         150 TSHTMIP--DTYITQVTI-VI--ARCLSSVYSIQLVKPSIRYRLTYIMPPCT  196 (201)
Q Consensus       150 ~C~~~I~--~~~i~a~~~-~~--~~c~~~~~~~~~~~~~~~~~~~~~~~~~~  196 (201)
                      +|+++|.  +..|.|++. +|  ..|++ +....+..++.+|.+....|+|.
T Consensus        68 ~C~~~I~~~~~~~~a~~~~~H~~~~CF~-C~~C~~~l~~~~f~~~~~~~yC~  118 (126)
T 2xqn_T           68 GCHNAIDPEVQRVTYNNFSWHASTECFL-CSCCSKCLIGQKFMPVEGMVFCS  118 (126)
T ss_dssp             TTCSBCCTTSCEEEETTEEEESSTTTSB-CTTTCCBCTTSEEEEETTEEESS
T ss_pred             ccCCcCCcCceEEECCCCEeeCCCCCcC-cCCCCCccCCCeeEeECCEEcch
Confidence            9999999  578999986 56  67753 44566666678888888888886

>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=99.47  E-value=2.7e-14  Score=97.69  Aligned_cols=63  Identities=16%  Similarity=0.220  Sum_probs=55.3

Q ss_pred             cccccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCC-CCceeeeCCeeeecCCccccccCCc
Q psy2231          40 HTSNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLV-PGSHSEHDGKPYCNYPCYSALFSER  104 (201)
Q Consensus        40 f~C~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~-~~~f~~~~g~~yCe~~cy~~~~~p~  104 (201)
                      |.-.|.+|+++|. ++.|.|+|+.||++||+|..|+++|. +..|+.+++++|| +.||.++++..
T Consensus         4 ~~~~C~~C~~~I~-~~~v~a~~~~wH~~CF~C~~C~~~L~~~~~f~~~~~~~yC-~~C~~~~~~~~   67 (73)
T 1wig_A            4 GSSGCDSCEKYIT-GRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWH-PACRQAARTED   67 (73)
T ss_dssp             SCCSCSSSCCCCS-SCCBCCSSCCBCTTTSCCSSSCCCCCSSCCCEEETTEEEC-TTHHHHTSSSS
T ss_pred             CcCCcccCCCEec-CeeEEeCCCCCCCCcCEeCCCCCCCCCCCeeEeeCCEEEC-hHHChHhhccc
Confidence            3445899999974 58899999999999999999999998 6789999999999 69999887754

>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=99.44  E-value=3.1e-14  Score=96.67  Aligned_cols=60  Identities=20%  Similarity=0.411  Sum_probs=54.2

Q ss_pred             cccCCCCCeeeec-ceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccC
Q psy2231          42 SNAINLPNSMYLA-ERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFS  102 (201)
Q Consensus        42 C~cc~C~~~i~~~-~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~  102 (201)
                      -.|.+|+++|..+ ..+.++++.||++||+|..|+++|.+..|+.+++++|| +.||.++|+
T Consensus         6 ~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC-~~cy~~~~~   66 (72)
T 1x61_A            6 SGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYC-EGCYVATLE   66 (72)
T ss_dssp             CCCSSSCSCCCSSSCCEECSSSEECTTTCBCSSSCCBCTTSCEEESSSCEEE-HHHHHHHHH
T ss_pred             CCCccCCCccCCCceEEEECCCeEcccCCcccccCCcCCcCcCEeeCCeEEC-HHHHHHHHc
Confidence            3588999998764 57999999999999999999999988889999999999 599999885

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

Probab=99.43  E-value=3.6e-14  Score=95.90  Aligned_cols=62  Identities=24%  Similarity=0.516  Sum_probs=55.0

Q ss_pred             cccccCCCCCeeeecce-EEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccccC
Q psy2231          40 HTSNAINLPNSMYLAER-KTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFS  102 (201)
Q Consensus        40 f~C~cc~C~~~i~~~~~-v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~  102 (201)
                      +.-.|.+|+++|..++. +.++|+.||++||+|..|+++|.+..|+.++|++|| +.||.++|+
T Consensus        10 ~~~~C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC-~~~y~~lf~   72 (72)
T 3f6q_B           10 ASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYC-EHDFQMLFA   72 (72)
T ss_dssp             TTCBCTTTCCBCCTTCEEEEETTEEEETTTSSCTTTCCCCGGGCCEEETTEEEC-HHHHHHHTC
T ss_pred             CCccchhcCccccCCceEEEeCcCeeCcCCCcccCCCCCCCCCCeEeECCeEeC-HHHHHHhhC
Confidence            34458999999877775 679999999999999999999998899999999999 599998875

>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=99.42  E-value=5.8e-13  Score=95.97  Aligned_cols=86  Identities=13%  Similarity=0.215  Sum_probs=72.3

Q ss_pred             ccCCCCCcCCC-CceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCCC
Q psy2231          70 RCENCNKTLVP-GSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKG  148 (201)
Q Consensus        70 ~C~~C~~~L~~-~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C  148 (201)
                      +|..|++++.. .....-.|+.|-          +.|  |.|..|+++|.+..|++.||++|     |+.||.++|+++|
T Consensus         7 ~C~~C~~~I~~~~~~~~a~~~~~H----------~~C--F~C~~C~~~L~~~~~~~~~g~~y-----C~~cy~~~~~~~C   69 (101)
T 2cup_A            7 GCVECRKPIGADSKEVHYKNRFWH----------DTC--FRCAKCLHPLANETFVAKDNKIL-----CNKCTTREDSPKC   69 (101)
T ss_dssp             BCSSSCCBCCSSSCEEEETTEEEE----------TTT--CCCSSSCCCTTSSCCEEETTEEE-----CHHHHTTCCCCBC
T ss_pred             cCcccCCcccCCceEEEECccChh----------hcC--CcccccCCCCCcCeeECcCCEEE-----ChhHhhhhcCCcc
Confidence            68899999964 455555666666          345  99999999999888999999999     9999999999999


Q ss_pred             CCCCCccc--Ccceeecce-eeccccC
Q psy2231         149 NTSHTMIP--DTYITQVTI-VIARCLS  172 (201)
Q Consensus       149 ~~C~~~I~--~~~i~a~~~-~~~~c~~  172 (201)
                      .+|+++|.  +..|.|++. +|..|+.
T Consensus        70 ~~C~~~I~~~~~~~~a~~~~~H~~CF~   96 (101)
T 2cup_A           70 KGCFKAIVAGDQNVEYKGTVWHKDCFS   96 (101)
T ss_dssp             SSSCCBCCSSSCEEESSSCEEETTTCC
T ss_pred             ccCCCccccCCeEEEeCCcchHHhCCC
Confidence            99999999  568999986 6777753

>2iyb_E Testin, TESS, TES; LIM domain, SH3-binding, tumour supressor LIM domain EVH1 DO cell motility, phosphorylation, cytoskeleton; 2.35A {Homo sapiens}

Probab=99.42  E-value=7.1e-14  Score=93.39  Aligned_cols=59  Identities=22%  Similarity=0.483  Sum_probs=51.6

Q ss_pred             cccCCCCCeeee-cceEEeCCCccc--CCCcccCCCCCcCCCCceeeeCCeeeecCCccccc
Q psy2231          42 SNAINLPNSMYL-AERKTSLGKDWH--GSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSAL  100 (201)
Q Consensus        42 C~cc~C~~~i~~-~~~v~a~g~~wH--~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~  100 (201)
                      -.|.+|+++|.+ ++.|.++|+.||  ++||+|..|+++|.+..|+.++|+|||+.+||.++
T Consensus         3 ~~C~~C~~~I~~~~~~v~a~~~~wH~~~~CF~C~~C~~~L~~~~f~~~~g~~yC~~~C~~k~   64 (65)
T 2iyb_E            3 VVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKRM   64 (65)
T ss_dssp             EECTTTSSEECTTSCEEEETTEEEETTTTTSBCTTTCCBCTTSCCEEETTEEESSHHHHHTT
T ss_pred             CCCcCCCCeeccCceEEEECCCccCCCCCCEECCCCCCcCCCCceEEECCEEecCHHHhhhh
Confidence            358899999876 478999999999  99999999999999989999999999932777654

>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=99.41  E-value=6.9e-14  Score=97.13  Aligned_cols=65  Identities=15%  Similarity=0.254  Sum_probs=56.7

Q ss_pred             cccccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCC-Ccee-eeCCeeeecCCccccccCCccC
Q psy2231          40 HTSNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVP-GSHS-EHDGKPYCNYPCYSALFSERSK  106 (201)
Q Consensus        40 f~C~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~-~~f~-~~~g~~yCe~~cy~~~~~p~C~  106 (201)
                      |.-.|.+|+++|. ++.|.|+++.||++||+|..|+++|.. ..|+ ++++++|| +.||.++|++.+.
T Consensus        14 ~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~~C-~~c~~~~~~~~~s   80 (81)
T 1x6a_A           14 FGEFCHGCSLLMT-GPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYC-GKCHNEVVSGPSS   80 (81)
T ss_dssp             SSCBCTTTCCBCC-SCCBCCTTCCBCTTSCBCTTTCCBCCTTSCEEECSSSCEEE-HHHHHHHHCTTSC
T ss_pred             cCCcCccCCCCcC-ceEEEECCceeccccCCccCCCCccCCCCcEEEeeCCEEEC-HHHHHHHhcCCCC
Confidence            4446899999986 888999999999999999999999975 5677 58999999 5999999998874

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

Probab=99.40  E-value=5.1e-14  Score=105.93  Aligned_cols=63  Identities=21%  Similarity=0.352  Sum_probs=55.7

Q ss_pred             CcccccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCC--CCceeeeCCeeeecCCccccccC
Q psy2231          39 HHTSNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLV--PGSHSEHDGKPYCNYPCYSALFS  102 (201)
Q Consensus        39 cf~C~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~--~~~f~~~~g~~yCe~~cy~~~~~  102 (201)
                      -+.-.|.+|+++|...+.+.|+|+.||++||+|..|+++|.  +..|+.++|++|| +.||.++|+
T Consensus        59 ~~~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~~g~~f~~~dg~~yC-~~cy~~~Fg  123 (123)
T 2l4z_A           59 LSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILC-RNDYIRLFG  123 (123)
T ss_dssp             SSCSBBSSSSSBCCSSSEEEETTEEEETTTSBCTTTCCBGGGTTCCCBCSSSCCBC-HHHHHHHCC
T ss_pred             ccCCcCcCCCCCcCCcEEEEeCCcEEcccccCcCcCCCcccccCCceEEECCEEeC-HHHhhhhcC
Confidence            34556999999987766799999999999999999999997  4689999999999 599999875

>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=99.39  E-value=1.1e-13  Score=95.08  Aligned_cols=60  Identities=22%  Similarity=0.492  Sum_probs=52.9

Q ss_pred             cccccCCCCCeeee----cceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCeeeecCCccccc
Q psy2231          40 HTSNAINLPNSMYL----AERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGKPYCNYPCYSAL  100 (201)
Q Consensus        40 f~C~cc~C~~~i~~----~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~  100 (201)
                      |.-.|.+|+++|.+    .+.+.|+++.||++||+|..|+++|.+..|+.++|++|| ++||.++
T Consensus        14 ~~~~C~~C~~~I~~~g~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~~~yC-~~cy~~l   77 (77)
T 2egq_A           14 VAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYC-PDCAKKL   77 (77)
T ss_dssp             CCCCCSSSCCCCCCCSSCCCEEEETTEEEETTTCBCSSSCCBCTTSCCCEETTEECC-HHHHHHC
T ss_pred             hCccCcccCCcccCCCCCceeEEECcceeCcccCEehhcCCCCCCCccEeECCEEEC-hHHhccC
Confidence            44568999999873    478999999999999999999999998899999999999 5998653

>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=99.33  E-value=5e-13  Score=100.02  Aligned_cols=98  Identities=15%  Similarity=0.155  Sum_probs=79.4

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCCcccc--CCcEEEeCCeeeeccCCchhhhhhhcCC-
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSIL--SQTFYSLSVDLYHASMHLRSDCLSMYGG-  146 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~--~~~f~~~~g~~yH~~~~C~~~y~~~~~~-  146 (201)
                      +|..|++++.+.....-.++.|          ++.|  |+|..|+++|.  +..|++.||++|     |..||.++|++ 
T Consensus         7 ~C~~C~~~I~~~~~~~a~~~~w----------H~~C--F~C~~C~~~L~~~~~~~~~~~g~~y-----C~~cy~~~f~~~   69 (122)
T 1m3v_A            7 RCAGCGGKIADRFLLYAMDSYW----------HSRC--LKCSSCQAQLGDIGTSSYTKSGMIL-----CRNDYIRLFGNS   69 (122)
T ss_dssp             CBSSSSSCCCSSCCEEETTEEE----------CHHH--HCCSSSCCCTTTSEECCEEETTEEE-----CHHHHHHHHCCC
T ss_pred             CCcccCCEeCCcEEEEECCcee----------HhhC--CCcCCCCCcccccCCeEEEECCeee-----cHHHHHHHcCCC
Confidence            6889999987654344444444          4566  99999999997  467999999999     99999999999 


Q ss_pred             -CCCCCCCcccCcceeecceeeccccCcceeeeeeeCCcceEEEeecCcccc
Q psy2231         147 -KGNTSHTMIPDTYITQVTIVIARCLSSVYSIQLVKPSIRYRLTYIMPPCTY  197 (201)
Q Consensus       147 -~C~~C~~~I~~~~i~a~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~  197 (201)
                       +|++|+++|++..|.+++.             ...+..+|.....+|+|..
T Consensus        70 ~~C~~C~~~I~~~~~~~~g~-------------~~l~g~~f~~~~~~~yC~~  108 (122)
T 1m3v_A           70 GAGGSGGHMGSGGDVMVVGE-------------PTLMGGEFGDEDERLITRL  108 (122)
T ss_dssp             CSSSCSSCCSCCEESSSSSS-------------SSCCSCTTCCTTCCCCEEC
T ss_pred             CccccCCCCcCchheEEcCC-------------cCCCCCccEecCCEeEccC
Confidence             9999999999988887762             2456778888888899864

>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=99.23  E-value=4.7e-12  Score=87.83  Aligned_cols=63  Identities=22%  Similarity=0.477  Sum_probs=52.7

Q ss_pred             cccccCCCCCeeeecceEEeCCCcccCCCcccCCCCCcCCCCceeeeCCe-eeecCCccccccCCc
Q psy2231          40 HTSNAINLPNSMYLAERKTSLGKDWHGSCLRCENCNKTLVPGSHSEHDGK-PYCNYPCYSALFSER  104 (201)
Q Consensus        40 f~C~cc~C~~~i~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~~g~-~yCe~~cy~~~~~p~  104 (201)
                      |.-.|.+|+++|. ++.|.|+++.||++||+|..|+++|.+..++..+++ +|| +.||.+++...
T Consensus        14 ~~~~C~~C~~~I~-~~~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~~~~C-~~C~~~~~~~~   77 (81)
T 1v6g_A           14 YGTRCFSCDQFIE-GEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMC-QKCSLPVSVSG   77 (81)
T ss_dssp             CCCBCTTTCCBCC-SCCEEETTEEECTTTSSCSSSCCCCCSSSCEEEETTEEEE-HHHHSCCSSCC
T ss_pred             hCCcCccccCEec-cceEEECCceeCccCCccccCCCCCCCCCEEEeCCCCEEC-hhhhcccCCCC
Confidence            4446899999975 788999999999999999999999987776666665 699 69998877643

>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=99.14  E-value=4.2e-11  Score=82.63  Aligned_cols=38  Identities=18%  Similarity=0.232  Sum_probs=35.9

Q ss_pred             eeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCCCCC
Q psy2231         108 LGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKGNT  150 (201)
Q Consensus       108 F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C~~  150 (201)
                      |.|..|+++|.++.|++.+|++|     |..||.++|+++|+.
T Consensus        42 F~C~~C~~~L~~~~~~~~~~~~y-----C~~cy~~~f~~~c~s   79 (80)
T 2cuq_A           42 LVCTGCQTPLAGQQFTSRDEDPY-----CVACFGELFASGPSS   79 (80)
T ss_dssp             CBCSSSCCBCTTCCEEECSSSEE-----EHHHHHHHTTCSTTC
T ss_pred             CCcccCCCcCCCCeeEeECCEEE-----CHHHHHHHcCCCCCC
Confidence            99999999999889999999999     999999999999974

>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=99.14  E-value=4.1e-11  Score=82.68  Aligned_cols=38  Identities=13%  Similarity=0.203  Sum_probs=36.0

Q ss_pred             eeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCCCCC
Q psy2231         108 LGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKGNT  150 (201)
Q Consensus       108 F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C~~  150 (201)
                      |.|..|+++|.++.|++.+|++|     |..||.++|+++|++
T Consensus        42 F~C~~C~~~L~~~~~~~~~~~~y-----C~~~y~~~f~~~C~~   79 (80)
T 1x3h_A           42 FVCGDCFTSFSTGSFFELDGRPF-----CELHYHHRRGSGPSS   79 (80)
T ss_dssp             CBCSSSCCBSCSSCCEESSSCEE-----CHHHHHHHHSSSCCC
T ss_pred             CChhhCCCCCCCCcEEeECCEEE-----CHHHHHHHcCCCCCC
Confidence            99999999999888999999999     999999999999975

>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=99.13  E-value=2.9e-11  Score=83.92  Aligned_cols=38  Identities=13%  Similarity=0.215  Sum_probs=34.6

Q ss_pred             eeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCCCCC
Q psy2231         108 LGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKGNT  150 (201)
Q Consensus       108 F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C~~  150 (201)
                      |.|..|+++|.++.|+..+|++|     |..||.++|+++|++
T Consensus        44 F~C~~C~~~L~~~~f~~~~~~~~-----C~~c~~~~~~~~C~~   81 (82)
T 2ehe_A           44 FRCCRCQRSLADEPFTCQDSELL-----CNDCYCSAFSSGPSS   81 (82)
T ss_dssp             SBCTTTCCBCSSCCEEEETTEEE-----ETTTSSCCGGGSSCC
T ss_pred             CeecCCCCccCCCccEeeCCEEE-----CHHHHhhhcCCCCCC
Confidence            89999999999888999999999     999999999999864

>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=99.10  E-value=2.4e-10  Score=78.12  Aligned_cols=71  Identities=18%  Similarity=0.249  Sum_probs=59.2

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCch-hhhhhhcCCCC
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLR-SDCLSMYGGKG  148 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~-~~y~~~~~~~C  148 (201)
                      +|..|++++....+....|+.|-          +.|  |.|..|+++|.++.|++.||++|     |. .||.++|+++|
T Consensus         2 ~C~~C~~~I~~~~~v~a~~~~~H----------~~C--F~C~~C~~~L~~~~~~~~~g~~y-----C~~~cy~~~f~~~C   64 (76)
T 1iml_A            2 KCPKCDKEVYFAERVTSLGKDWH----------RPC--LKCEKCGKTLTSGGHAEHEGKPY-----CNHPCYSAMFGPKG   64 (76)
T ss_dssp             BCTTTSSBCCGGGEEEETTEEEE----------TTT--CBCTTTCCBCCTTTEEEETTEEE-----ETTTHHHHHSSCCC
T ss_pred             cCCCCCCEEECceEEEECCcccc----------CCC--CCccccCccCCCCceECcCCeEe-----eCHHHHHHHhCccC
Confidence            58899999875555555566665          445  99999999999989999999999     99 69999999999


Q ss_pred             CCCCCcccC
Q psy2231         149 NTSHTMIPD  157 (201)
Q Consensus       149 ~~C~~~I~~  157 (201)
                      .+|++++..
T Consensus        65 ~~C~~~~~~   73 (76)
T 1iml_A           65 FGRGGAESH   73 (76)
T ss_dssp             SSCCCSSSC
T ss_pred             CCcCCceee
Confidence            999977643

>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=99.01  E-value=7.3e-10  Score=76.60  Aligned_cols=69  Identities=20%  Similarity=0.334  Sum_probs=50.6

Q ss_pred             cccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCCC
Q psy2231          69 LRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKG  148 (201)
Q Consensus        69 F~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C  148 (201)
                      -+|..|++++.......-.++.|-          +.|  |.|..|+++|.+..|++.+|++|     |..||.++|+++|
T Consensus         8 ~~C~~C~~~I~~~~~~~a~~~~~H----------~~C--F~C~~C~~~L~~~~~~~~~~~~y-----C~~cy~~~f~~~c   70 (81)
T 1a7i_A            8 NKCGACGRTVYHAEEVQCDGRSFH----------RCC--FLCMVCRKNLDSTTVAIHDAEVY-----CKSCYGKKYGPKG   70 (81)
T ss_dssp             CBCSSSCCBCSSTTEEEETTEEEE----------SSS--EECSSSCCEECSSCCEEETTEEE-----CSHHHHHHCC---
T ss_pred             CcCcCcCccccCceeEEeCCcccc----------ccc--CccCCCCCCCCCCCeEeeCCEEE-----CHHHHHHHhCCcc
Confidence            378999999965555555666666          445  99999999999989999999999     9999999999999


Q ss_pred             CCCCCc
Q psy2231         149 NTSHTM  154 (201)
Q Consensus       149 ~~C~~~  154 (201)
                      .+|++-
T Consensus        71 ~gcg~g   76 (81)
T 1a7i_A           71 YGYGQG   76 (81)
T ss_dssp             ------
T ss_pred             cccCCc
Confidence            999864

>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=98.99  E-value=3.4e-10  Score=78.30  Aligned_cols=63  Identities=13%  Similarity=0.275  Sum_probs=48.4

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEe-CCeeeeccCCchhhhhhhcCCCC
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSL-SVDLYHASMHLRSDCLSMYGGKG  148 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~-~g~~yH~~~~C~~~y~~~~~~~C  148 (201)
                      +|..|++++.+. +..-.++.|          ++.|  |.|..|+++|.+..|... +|++|     |..||.++|+++|
T Consensus        17 ~C~~C~~~I~~~-~~~a~~~~~----------H~~C--F~C~~C~~~L~~~~f~~~~~g~~y-----C~~cy~~~f~~~C   78 (81)
T 2dlo_A           17 KCATCSQPILDR-ILRAMGKAY----------HPGC--FTCVVCHRGLDGIPFTVDATSQIH-----CIEDFHRKFASGP   78 (81)
T ss_dssp             BCTTTCCBCCSC-CEEETTEEE----------CTTT--CBCSSSCCBCTTSCEECCTTCCCE-----EHHHHHHHTTSSS
T ss_pred             ccccCCCeecce-eEEECCccc----------cHHh--cCcccCCCccCCCeeEECCCCEEE-----CHHHHHHHhcCcC
Confidence            577788777643 333333443          4455  999999999998888876 78999     9999999999999


Q ss_pred             CC
Q psy2231         149 NT  150 (201)
Q Consensus       149 ~~  150 (201)
                      ++
T Consensus        79 ~~   80 (81)
T 2dlo_A           79 SS   80 (81)
T ss_dssp             CC
T ss_pred             CC
Confidence            75

>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=98.99  E-value=5.3e-10  Score=77.35  Aligned_cols=64  Identities=19%  Similarity=0.417  Sum_probs=48.9

Q ss_pred             ccCCCCCcCCCC-ceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCCC
Q psy2231          70 RCENCNKTLVPG-SHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKG  148 (201)
Q Consensus        70 ~C~~C~~~L~~~-~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C  148 (201)
                      +|..|++++... .+....++.|-          +.|  |.|..|+++|.++.|++.+|++|     |..||.++|++++
T Consensus        17 ~C~~C~~~I~~~~~~~~a~~~~~H----------~~C--F~C~~C~~~L~~~~~~~~~~~~y-----C~~cy~~~f~~~~   79 (82)
T 1x63_A           17 KCKGCFKAIVAGDQNVEYKGTVWH----------KDC--FTCSNCKQVIGTGSFFPKGEDFY-----CVTCHETKFASGP   79 (82)
T ss_dssp             BCSSSCCBCCSSSCEEECSSCEEE----------TTT--CCCSSSCCCCTTSCEEEETTEEE-----EHHHHHHHTSCCC
T ss_pred             cCccCCcccccCceEEEECccccc----------ccc--CchhhCCCccCCCccEeeCCEEE-----CHHHHHHHhCCCC
Confidence            577777777643 23333444444          344  99999999999989999999999     9999999999998


Q ss_pred             CC
Q psy2231         149 NT  150 (201)
Q Consensus       149 ~~  150 (201)
                      +.
T Consensus        80 ~~   81 (82)
T 1x63_A           80 SS   81 (82)
T ss_dssp             SC
T ss_pred             CC
Confidence            63

>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=98.90  E-value=9.6e-10  Score=81.06  Aligned_cols=94  Identities=13%  Similarity=0.134  Sum_probs=69.8

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCCccccC--CcEEEeCCeeeeccCCchhhhhhhcCCC
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILS--QTFYSLSVDLYHASMHLRSDCLSMYGGK  147 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~--~~f~~~~g~~yH~~~~C~~~y~~~~~~~  147 (201)
                      +|..|++++.+.....-.++          .|++.|  |.|..|+++|..  ..|++.||++|     |..||.++|+++
T Consensus         5 ~C~~C~~~I~~~~~~~a~~~----------~wH~~C--F~C~~C~~~L~~~g~~~~~~~g~~y-----C~~~y~~~f~~~   67 (114)
T 1j2o_A            5 TCGGCQQNIGDRYFLKAIDQ----------YWHEDC--LSCDLCGCRLGEVGRRLYYKLGRKL-----CRRDYLRLGGSG   67 (114)
T ss_dssp             CBSSSCSCBCSSEEEECSSS----------EECTTT--CCCSSSCSCCCCSSSCCCCBTTBCC-----CHHHHHHHHTSC
T ss_pred             CCcCCCCeeCCcEEEEECch----------hHHHhc--CcccccCCchhcCCCeeEEECCeee-----chHHHHHHhCcc
Confidence            68999999876533333344          445666  999999999974  57999999999     999999999999


Q ss_pred             CCCCCCcccCcceeecceeeccccCcceeeeeeeCCcceEEEeecCcccc
Q psy2231         148 GNTSHTMIPDTYITQVTIVIARCLSSVYSIQLVKPSIRYRLTYIMPPCTY  197 (201)
Q Consensus       148 C~~C~~~I~~~~i~a~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~  197 (201)
                      |..|..   +.++.        |.      +...+..+|.....+|+|..
T Consensus        68 c~~c~~---~~~~~--------~~------~~~~~g~~f~~~~~~~~C~~  100 (114)
T 1j2o_A           68 GHMGSG---GDVMV--------VG------EPTLMGGEFGDEDERLITRL  100 (114)
T ss_dssp             CSSCBS---CSCCC--------SS------CSSTTSSBCCCSSSCCCEEE
T ss_pred             cCcCCC---CceeE--------cC------CccCCCCeeEEcCCEeecch
Confidence            998862   33322        11      33345678888888888864

>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=98.88  E-value=3.9e-09  Score=70.59  Aligned_cols=63  Identities=17%  Similarity=0.388  Sum_probs=52.8

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCCCC
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKGN  149 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C~  149 (201)
                      +|..|++++.+. ++...++.|-          +.|  |.|..|+++|.+..|++.+|++|     |..||.++|+++|+
T Consensus         7 ~C~~C~~~I~~~-~~~a~~~~~H----------~~C--F~C~~C~~~L~~~~~~~~~~~~y-----C~~cy~~~f~~~C~   68 (69)
T 2cur_A            7 GCVKCNKAITSG-GITYQDQPWH----------ADC--FVCVTCSKKLAGQRFTAVEDQYY-----CVDCYKNFVSGPSS   68 (69)
T ss_dssp             CCSSSCCCCCTT-CEEETTEEEC----------TTT--TBCTTTCCBCTTSCEEECSSCEE-----EHHHHHHHHTCSCC
T ss_pred             CCcccCCEeCcc-eEEECccccc----------cCc--CEECCCCCCCCCCccEeECCEEE-----CHHHhHHHhcCCCC
Confidence            688999998753 4555555555          455  99999999999989999999999     99999999999997


Q ss_pred             C
Q psy2231         150 T  150 (201)
Q Consensus       150 ~  150 (201)
                      +
T Consensus        69 g   69 (69)
T 2cur_A           69 G   69 (69)
T ss_dssp             C
T ss_pred             C
Confidence            5

>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=98.87  E-value=5.5e-09  Score=71.24  Aligned_cols=64  Identities=14%  Similarity=0.279  Sum_probs=54.5

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCch-hhhhhhcCCCC
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLR-SDCLSMYGGKG  148 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~-~~y~~~~~~~C  148 (201)
                      +|..|++++....+..-.++.|-          +.|  |.|..|+++|.++.|++.||++|     |. .||.++|+++|
T Consensus        11 ~C~~C~~~I~~~~~v~a~~~~~H----------~~C--F~C~~C~~~L~~~~~~~~~g~~y-----C~~~cy~~~f~~kc   73 (76)
T 2cu8_A           11 KCPKCDKTVYFAEKVSSLGKDWH----------KFC--LKCERCSKTLTPGGHAEHDGKPF-----CHKPCYATLFGSGP   73 (76)
T ss_dssp             BCTTTCCBCCTTTEEEETTEEEE----------TTT--CBCSSSCCBCCTTSCEEETTEEE-----CTTTHHHHHSCSSC
T ss_pred             CCcCCCCEeECCeEEEECCeEee----------CCC--CCCCCCCCccCCCceEeECCEEe-----cchHHHHHhccccc
Confidence            78999999986666666666666          345  99999999999989999999999     99 79999999999


Q ss_pred             CC
Q psy2231         149 NT  150 (201)
Q Consensus       149 ~~  150 (201)
                      .+
T Consensus        74 ~g   75 (76)
T 2cu8_A           74 SS   75 (76)
T ss_dssp             SC
T ss_pred             CC
Confidence            75

>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=98.86  E-value=4.5e-09  Score=71.75  Aligned_cols=66  Identities=12%  Similarity=0.263  Sum_probs=55.1

Q ss_pred             ccCCCCCcCCC---CceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCC
Q psy2231          70 RCENCNKTLVP---GSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGG  146 (201)
Q Consensus        70 ~C~~C~~~L~~---~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~  146 (201)
                      +|..|++++.+   ..+....++.|-          +.|  |.|..|+++|.+..|++.||++|     |..||.++|++
T Consensus         7 ~C~~C~~~I~~~g~~~~~~a~~~~wH----------~~C--F~C~~C~~~L~~~~f~~~~g~~y-----C~~cy~~~f~~   69 (76)
T 1x68_A            7 GCVACSKPISGLTGAKFICFQDSQWH----------SEC--FNCGKCSVSLVGKGFLTQNKEIF-----CQKCGSGMDTD   69 (76)
T ss_dssp             CCTTTCCCCCTTTTCCEEEETTEEEE----------GGG--CBCTTTCCBCSSSCEEEETTEEE-----ETTTTCCCCCC
T ss_pred             CCccCCCcccCCCCceeEEECCcccC----------ccc--CChhhCCCcCCCCceEeECCEEE-----CHHHhhhhhCC
Confidence            67889999875   345555555555          455  99999999999989999999999     99999999999


Q ss_pred             CCCCCC
Q psy2231         147 KGNTSH  152 (201)
Q Consensus       147 ~C~~C~  152 (201)
                      +|+.++
T Consensus        70 ~C~~~s   75 (76)
T 1x68_A           70 ISGPSS   75 (76)
T ss_dssp             SSSSSC
T ss_pred             cCCCCC
Confidence            999875

>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=98.86  E-value=2.2e-09  Score=74.04  Aligned_cols=38  Identities=16%  Similarity=0.248  Sum_probs=31.5

Q ss_pred             eeeCCCCcccc-CCcEE-EeCCeeeeccCCchhhhhhhcCCCCCC
Q psy2231         108 LGCLSSVCSIL-SQTFY-SLSVDLYHASMHLRSDCLSMYGGKGNT  150 (201)
Q Consensus       108 F~C~~C~~~l~-~~~f~-~~~g~~yH~~~~C~~~y~~~~~~~C~~  150 (201)
                      |.|..|+++|. +..|. +.+|++|     |..||.++|++.|++
T Consensus        42 F~C~~C~~~L~~g~~f~~~~~~~~~-----C~~c~~~~~~~~~sg   81 (81)
T 1x6a_A           42 FACMSCKVIIEDGDAYALVQHATLY-----CGKCHNEVVSGPSSG   81 (81)
T ss_dssp             CBCTTTCCBCCTTSCEEECSSSCEE-----EHHHHHHHHCTTSCC
T ss_pred             CCccCCCCccCCCCcEEEeeCCEEE-----CHHHHHHHhcCCCCC
Confidence            89999999996 46677 4888999     999999999888764

>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=98.85  E-value=7.7e-09  Score=69.59  Aligned_cols=64  Identities=19%  Similarity=0.346  Sum_probs=52.8

Q ss_pred             ccCCCCCcCCCC-ceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCCC
Q psy2231          70 RCENCNKTLVPG-SHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKG  148 (201)
Q Consensus        70 ~C~~C~~~L~~~-~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C  148 (201)
                      +|..|++++... ......|+.|-          +.|  |.|..|+++|.++.|++.+|++|     |..||.++|+++|
T Consensus         7 ~C~~C~~~I~~~~~~~~a~~~~~H----------~~C--F~C~~C~~~L~~~~~~~~~~~~y-----C~~cy~~~f~~~C   69 (72)
T 1wyh_A            7 GCSACGETVMPGSRKLEYGGQTWH----------EHC--FLCSGCEQPLGSRSFVPDKGAHY-----CVPCYENKFASGP   69 (72)
T ss_dssp             BCSSSCCBCCSSSCEECSTTCCEE----------TTT--CBCTTTCCBTTTSCEEEETTEEE-----EHHHHHHHTSCCC
T ss_pred             CCccCCCccccCccEEEECccccC----------ccc--CeECCCCCcCCCCccCCcCCeEE-----CHHHHHHHccCcC
Confidence            678999998753 44444555554          455  99999999999999999999999     9999999999999


Q ss_pred             CC
Q psy2231         149 NT  150 (201)
Q Consensus       149 ~~  150 (201)
                      +.
T Consensus        70 ~~   71 (72)
T 1wyh_A           70 SS   71 (72)
T ss_dssp             CC
T ss_pred             CC
Confidence            74

>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=98.83  E-value=1.1e-08  Score=68.87  Aligned_cols=64  Identities=19%  Similarity=0.342  Sum_probs=54.1

Q ss_pred             ccCCCCCcCCCC-ceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCCC
Q psy2231          70 RCENCNKTLVPG-SHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKG  148 (201)
Q Consensus        70 ~C~~C~~~L~~~-~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C  148 (201)
                      +|..|++++.+. ......|+.|-          +.|  |.|..|+++|.++.|++.||++|     |..||.++|+++|
T Consensus         7 ~C~~C~~~I~~~~~~~~a~~~~~H----------~~C--F~C~~C~~~L~~~~~~~~~~~~y-----C~~cy~~~f~~~C   69 (72)
T 1x4k_A            7 GCQECKKTIMPGTRKMEYKGSSWH----------ETC--FICHRCQQPIGTKSFIPKDNQNF-----CVPCYEKQHASGP   69 (72)
T ss_dssp             CBSSSCCCCCSSSCEEEETTEEEE----------TTT--TCCSSSCCCCCSSSEEEETTEEE-----EHHHHHHHTSSCC
T ss_pred             CCccCCCcccCCceEEEECcCeec----------ccC--CcccccCCccCCCccCccCCeEE-----CHHHHhHHhCCCC
Confidence            688999999865 45555666666          344  89999999999999999999999     9999999999999


Q ss_pred             CC
Q psy2231         149 NT  150 (201)
Q Consensus       149 ~~  150 (201)
                      +.
T Consensus        70 ~~   71 (72)
T 1x4k_A           70 SS   71 (72)
T ss_dssp             CC
T ss_pred             CC
Confidence            74

>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=98.81  E-value=8.6e-09  Score=69.02  Aligned_cols=63  Identities=16%  Similarity=0.310  Sum_probs=51.7

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCCCC
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKGN  149 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C~  149 (201)
                      +|..|++++.+. +..-.++.|-          +.|  |.|..|+++|.++.|++.||++|     |..||.++|+++|+
T Consensus         7 ~C~~C~~~I~~~-~~~a~~~~~H----------~~C--F~C~~C~~~L~~~~~~~~~~~~y-----C~~cy~~~f~~~c~   68 (70)
T 2d8z_A            7 GCVQCKKPITTG-GVTYREQPWH----------KEC--FVCTACRKQLSGQRFTARDDFAY-----CLNCFCDLYASGPS   68 (70)
T ss_dssp             BCSSSCCBCCSS-EEESSSSEEE----------TTT--SBCSSSCCBCTTSCCEESSSSEE-----CHHHHHHHTCCCCT
T ss_pred             CCcccCCeeccc-eEEECccccC----------CCC--CccCCCCCcCCcCceEeeCCeEE-----CHHHHHHHhccccC
Confidence            688999998753 3444444444          556  99999999999999999999999     99999999999997


Q ss_pred             C
Q psy2231         150 T  150 (201)
Q Consensus       150 ~  150 (201)
                      +
T Consensus        69 ~   69 (70)
T 2d8z_A           69 S   69 (70)
T ss_dssp             T
T ss_pred             C
Confidence            4

>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=98.79  E-value=1.1e-08  Score=70.71  Aligned_cols=64  Identities=16%  Similarity=0.291  Sum_probs=52.4

Q ss_pred             cccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCCC
Q psy2231          69 LRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKG  148 (201)
Q Consensus        69 F~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C  148 (201)
                      -+|..|++++....+....++.|-          +.|  |.|..|+++|.+ .|++.||++|     |+.||.++|+++|
T Consensus        16 ~~C~~C~~~I~~~~~v~a~~~~wH----------~~C--F~C~~C~~~L~~-~~~~~~g~~y-----C~~~y~~~fg~~C   77 (80)
T 2dj7_A           16 SHCAGCKEEIKHGQSLLALDKQWH----------VSC--FKCQTCSVILTG-EYISKDGVPY-----CESDYHAQFGSGP   77 (80)
T ss_dssp             SCCTTTCCCCSSSCCEEETTEEEC----------TTT--CBCSSSCCBCSS-CCEEETTEEE-----CTTHHHHHTTCCS
T ss_pred             CCCcCcCCeeCCCeEEEECCcccc----------ccc--CCcCcCCCCcCC-CeEEECCEEE-----CHHHHHHHcCCCC
Confidence            368999999875555555555554          556  999999999986 6999999999     9999999999999


Q ss_pred             CC
Q psy2231         149 NT  150 (201)
Q Consensus       149 ~~  150 (201)
                      ++
T Consensus        78 ~~   79 (80)
T 2dj7_A           78 SS   79 (80)
T ss_dssp             TT
T ss_pred             CC
Confidence            75

>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=98.77  E-value=1.7e-08  Score=71.08  Aligned_cols=63  Identities=14%  Similarity=0.255  Sum_probs=52.3

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCCCC
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKGN  149 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C~  149 (201)
                      +|..|++++.+ .+..-.|+.|-          +.|  |.|..|+++|.+..|++.+|++|     |..||.++|+++|+
T Consensus        27 ~C~~C~~~I~~-~~v~a~~~~~H----------~~C--F~C~~C~~~L~~~~f~~~~g~~y-----C~~cy~~~f~~~c~   88 (90)
T 2dar_A           27 MCAHCNQVIRG-PFLVALGKSWH----------PEE--FNCAHCKNTMAYIGFVEEKGALY-----CELCYEKFFASGPS   88 (90)
T ss_dssp             BBSSSCCBCCS-CEEEETTEEEC----------TTT--CBCSSSCCBCSSSCBEESSSCEE-----CHHHHHHHTSCCCC
T ss_pred             CCccCCCEecc-eEEEECCcccc----------ccC--CccCCCCCCCCCCEeEeECCEEE-----CHHHHHHHcCCCCC
Confidence            78899998854 44444555554          556  99999999999989999999999     99999999999997


Q ss_pred             C
Q psy2231         150 T  150 (201)
Q Consensus       150 ~  150 (201)
                      .
T Consensus        89 s   89 (90)
T 2dar_A           89 S   89 (90)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=98.77  E-value=1.2e-08  Score=69.43  Aligned_cols=63  Identities=19%  Similarity=0.384  Sum_probs=50.8

Q ss_pred             ccCCCCCcCCCC-ceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCCC
Q psy2231          70 RCENCNKTLVPG-SHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKG  148 (201)
Q Consensus        70 ~C~~C~~~L~~~-~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C  148 (201)
                      +|..|++++... ......|+.|-          +.|  |.|..|+++|.++.|++.||++|     |+.||.++|+++|
T Consensus        13 ~C~~C~~~I~~~~~~~~a~~~~~H----------~~C--F~C~~C~~~L~~~~~~~~~g~~y-----C~~~y~~~f~~~C   75 (77)
T 1g47_A           13 TCERCKGGFAPAEKIVNSNGELYH----------EQC--FVCAQCFQQFPEGLFYEFEGRKY-----CEHDFQMLFAPCW   75 (77)
T ss_dssp             BCSSSCCBCCSTTTCEEETTEEEC----------TTT--CCCTTTCCCCGGGCSEEETTEEE-----CHHHHHHHCCCC-
T ss_pred             CchhcCCccCCCceEEEeCccEec----------ccc--CeECCCCCCCCCCCeEeECCeEe-----CHHHHHHHhhccc
Confidence            689999998743 44445556555          455  99999999999989999999999     9999999999999


Q ss_pred             C
Q psy2231         149 N  149 (201)
Q Consensus       149 ~  149 (201)
                      .
T Consensus        76 ~   76 (77)
T 1g47_A           76 I   76 (77)
T ss_dssp             -
T ss_pred             C
Confidence            6

>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=98.68  E-value=3.2e-08  Score=69.83  Aligned_cols=66  Identities=20%  Similarity=0.333  Sum_probs=54.7

Q ss_pred             cccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCCC
Q psy2231          69 LRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKG  148 (201)
Q Consensus        69 F~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C  148 (201)
                      -+|..|++++.+.......++.|-          +.|  |.|..|+++|.+..|++.||++|     |..||.++|+++|
T Consensus        16 ~~C~~C~~~I~~~~~v~a~~~~~H----------~~C--F~C~~C~~~L~~~~~~~~~g~~y-----C~~~y~~~f~~kc   78 (91)
T 2d8y_A           16 ETCVECQKTVYPMERLLANQQVFH----------ISC--FRCSYCNNKLSLGTYASLHGRIY-----CKPHFNQLFKSKG   78 (91)
T ss_dssp             CBCTTTCCBCCTTSEEECSSSEEE----------TTT--CBCTTTCCBCCTTTCCCSSSCCC-----CHHHHHHHSCCCS
T ss_pred             CcCccCCCccCCceeEEECCCEEC----------CCC--CeeCCCCCCCCCCCcEeECCEEE-----CHHHHHHHhCCCc
Confidence            378999999976555555555555          445  99999999999988999999999     9999999999999


Q ss_pred             CCC
Q psy2231         149 NTS  151 (201)
Q Consensus       149 ~~C  151 (201)
                      .-+
T Consensus        79 ~~~   81 (91)
T 2d8y_A           79 NYD   81 (91)
T ss_dssp             CCC
T ss_pred             Ccc
Confidence            843

>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=98.66  E-value=3.4e-08  Score=65.33  Aligned_cols=60  Identities=17%  Similarity=0.343  Sum_probs=49.0

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCC
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGK  147 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~  147 (201)
                      +|..|++++. ..+..-.|+.|-          +.|  |.|..|+++|.++.|++.||++|     |..||.++|+++
T Consensus         7 ~C~~C~~~I~-~~~~~a~~~~~H----------~~C--F~C~~C~~~L~~~~~~~~~g~~y-----C~~~y~~~f~~k   66 (66)
T 1nyp_A            7 ICGACRRPIE-GRVVNAMGKQWH----------VEH--FVCAKCEKPFLGHRHYERKGLAY-----CETHYNQLFGDV   66 (66)
T ss_dssp             EETTTTEECC-SCEECCTTSBEE----------TTT--CBCTTTCCBCSSSCCEEETTEEE-----CHHHHHHHCSCC
T ss_pred             CCcccCCEec-ceEEEECccccc----------cCc--CEECCCCCCCCCCceEeECCcEE-----CHHHHHHHhCCC
Confidence            6889999887 344444444444          556  99999999999999999999999     999999999975

>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=98.66  E-value=4.5e-08  Score=65.86  Aligned_cols=63  Identities=11%  Similarity=0.283  Sum_probs=50.8

Q ss_pred             ccCCCCCcCCC---CceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCC
Q psy2231          70 RCENCNKTLVP---GSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGG  146 (201)
Q Consensus        70 ~C~~C~~~L~~---~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~  146 (201)
                      +|..|++++.+   ..+....++.|          ++.|  |.|..|+++|.++.|++.+|++|     |..||.++|++
T Consensus         7 ~C~~C~~~I~~~~~~~~~~a~~~~w----------H~~C--F~C~~C~~~L~~~~f~~~~g~~y-----C~~c~~~~~~p   69 (72)
T 1x4l_A            7 GCAGCTNPISGLGGTKYISFEERQW----------HNDC--FNCKKCSLSLVGRGFLTERDDIL-----CPDCGKDISGP   69 (72)
T ss_dssp             SBTTTTBCCCCSSSCSCEECSSCEE----------CTTT--CBCSSSCCBCTTSCCEECSSSEE-----CHHHHHTCCCS
T ss_pred             CCcCCCccccCCCCcceEEECCccc----------Cccc--CEeccCCCcCCCCccEeECCEEE-----ChhHcCcccCC
Confidence            68999999875   24433344444          4556  99999999999999999999999     99999999999


Q ss_pred             CCC
Q psy2231         147 KGN  149 (201)
Q Consensus       147 ~C~  149 (201)
                      ++.
T Consensus        70 ~~g   72 (72)
T 1x4l_A           70 SSG   72 (72)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            763

>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=98.66  E-value=4.6e-08  Score=68.69  Aligned_cols=64  Identities=13%  Similarity=0.293  Sum_probs=51.9

Q ss_pred             cccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCCC
Q psy2231          69 LRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKG  148 (201)
Q Consensus        69 F~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C  148 (201)
                      -+|..|++++.+ .+..-.++          .|++.|  |.|..|+++|.++.|++.||++|     |..||.++|++++
T Consensus        26 ~~C~~C~~~I~~-~~~~a~~~----------~~H~~C--F~C~~C~~~L~~~~~~~~~g~~y-----C~~~y~~~f~p~~   87 (89)
T 1x64_A           26 PLCDKCGSGIVG-AVVKARDK----------YRHPEC--FVCADCNLNLKQKGYFFVEGELY-----CETHARARTSGPS   87 (89)
T ss_dssp             CBCTTTCCBCCS-CCEESSSC----------EECTTT--CCCSSSCCCTTTSCCEEETTEEE-----CHHHHHHHSSSCC
T ss_pred             CCcccCCCEecc-cEEEECCc----------eECccC--CEecCCCCCCCCCCeEeECCEEE-----CHHHHHHHhCCCC
Confidence            478999998876 33333333          445666  99999999999888999999999     9999999999998


Q ss_pred             CC
Q psy2231         149 NT  150 (201)
Q Consensus       149 ~~  150 (201)
                      .+
T Consensus        88 ~g   89 (89)
T 1x64_A           88 SG   89 (89)
T ss_dssp             CC
T ss_pred             CC
Confidence            64

>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=98.57  E-value=4.1e-08  Score=67.43  Aligned_cols=64  Identities=9%  Similarity=0.205  Sum_probs=51.7

Q ss_pred             cccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCCC
Q psy2231          69 LRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKG  148 (201)
Q Consensus        69 F~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C  148 (201)
                      -+|..|++++.+. +..-.++          .|++.|  |.|..|+++|.+..|++.||++|     |..||.++|++++
T Consensus        16 ~~C~~C~~~I~~~-~~~a~~~----------~~H~~C--F~C~~C~~~L~~~~~~~~~g~~y-----C~~cy~~~~~p~g   77 (79)
T 1x62_A           16 PMCDKCGTGIVGV-FVKLRDR----------HRHPEC--YVCTDCGTNLKQKGHFFVEDQIY-----CEKHARERVSGPS   77 (79)
T ss_dssp             CCCSSSCCCCCSS-CEECSSC----------EECTTT--TSCSSSCCCHHHHCCEESSSCEE-----CHHHHHHHHSSCC
T ss_pred             CccccCCCCccCc-EEEECcc----------eeCcCc--CeeCCCCCCCCCCCeEeECCEEE-----CHHHHHHHhCCCC
Confidence            3789999998763 4333333          445666  99999999998888999999999     9999999999987


Q ss_pred             CC
Q psy2231         149 NT  150 (201)
Q Consensus       149 ~~  150 (201)
                      .+
T Consensus        78 ~g   79 (79)
T 1x62_A           78 SG   79 (79)
T ss_dssp             CC
T ss_pred             CC
Confidence            63

>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=98.56  E-value=1.6e-07  Score=62.74  Aligned_cols=62  Identities=8%  Similarity=0.079  Sum_probs=51.1

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCCCC
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKGN  149 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C~  149 (201)
                      +|..|++++.+ .+....++.|.          +.|  |.|..|+++|.+..|++.+|++|     |..||.++|+++..
T Consensus         7 ~C~~C~~~I~~-~~~~a~~~~~H----------~~C--F~C~~C~~~L~~~~f~~~~g~~y-----C~~c~~~~~~~~~~   68 (70)
T 2d8x_A            7 GCHQCGEFIIG-RVIKAMNNSWH----------PEC--FRCDLCQEVLADIGFVKNAGRHL-----CRPCHNREKASGPS   68 (70)
T ss_dssp             BCSSSCCBCCS-CCEEETTEEEC----------TTT--SBCSSSCCBCSSSCCEEETTEEE-----CHHHHHHHHCCCSC
T ss_pred             cCccCCCEecc-eEEEECccccc----------ccC--CEeCCCCCcCCCCccEeECCeEE-----CHHHhhhhcCCCCC
Confidence            68899998875 44555555555          455  99999999999999999999999     99999999998764

>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=98.48  E-value=2.1e-07  Score=63.98  Aligned_cols=62  Identities=11%  Similarity=0.148  Sum_probs=48.6

Q ss_pred             cccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCCC
Q psy2231          69 LRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKG  148 (201)
Q Consensus        69 F~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C  148 (201)
                      -+|..|++++.+ .+..-.|          +.|++.|  |.|..|+++|.++.| +.||++|     |..||.++|++++
T Consensus        16 ~~C~~C~~~I~~-~~v~a~~----------~~~H~~C--F~C~~C~~~L~~~~f-~~~g~~y-----C~~cy~~~f~p~~   76 (79)
T 2cor_A           16 YICQKCHAIIDE-QPLIFKN----------DPYHPDH--FNCANCGKELTADAR-ELKGELY-----CLPCHDKMGVSGP   76 (79)
T ss_dssp             CBCTTTCCBCCS-CCCCCSS----------SCCCTTT--SBCSSSCCBCCTTCE-EETTEEE-----CHHHHHTTSCCSS
T ss_pred             CCCccCCCEecc-eEEEECc----------ceeCCCC--CEeCCCCCccCCCCE-eECCEEe-----CHHHHHHhCCCCC
Confidence            378899998873 3333233          3455677  999999999998755 9999999     9999999999976


Q ss_pred             C
Q psy2231         149 N  149 (201)
Q Consensus       149 ~  149 (201)
                      .
T Consensus        77 s   77 (79)
T 2cor_A           77 S   77 (79)
T ss_dssp             C
T ss_pred             C
Confidence            5

>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=98.48  E-value=2.6e-07  Score=62.01  Aligned_cols=63  Identities=14%  Similarity=0.315  Sum_probs=49.2

Q ss_pred             ccCCCCCcCCCC-ceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCCC
Q psy2231          70 RCENCNKTLVPG-SHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKG  148 (201)
Q Consensus        70 ~C~~C~~~L~~~-~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C  148 (201)
                      +|..|++++.+. ......++.|-          +.|  |.|..|+++|.+..|++.+|++|     |..||.++|+ +|
T Consensus         7 ~C~~C~~~I~~~~~~~~a~~~~~H----------~~C--F~C~~C~~~L~~~~~~~~~~~~y-----C~~cy~~~~~-~~   68 (72)
T 1x61_A            7 GCGGCGEDVVGDGAGVVALDRVFH----------VGC--FVCSTCRAQLRGQHFYAVERRAY-----CEGCYVATLE-SG   68 (72)
T ss_dssp             CCSSSCSCCCSSSCCEECSSSEEC----------TTT--CBCSSSCCBCTTSCEEESSSCEE-----EHHHHHHHHH-TC
T ss_pred             CCccCCCccCCCceEEEECCCeEc----------ccC--CcccccCCcCCcCcCEeeCCeEE-----CHHHHHHHHc-cC
Confidence            688999988753 34444444444          556  99999999998888999999999     9999999885 45


Q ss_pred             CC
Q psy2231         149 NT  150 (201)
Q Consensus       149 ~~  150 (201)
                      ..
T Consensus        69 ~~   70 (72)
T 1x61_A           69 PS   70 (72)
T ss_dssp             SS
T ss_pred             CC
Confidence            44

>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=98.39  E-value=5.7e-07  Score=59.93  Aligned_cols=59  Identities=20%  Similarity=0.490  Sum_probs=48.5

Q ss_pred             ccCCCCCcCCCCce-eeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcC
Q psy2231          70 RCENCNKTLVPGSH-SEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYG  145 (201)
Q Consensus        70 ~C~~C~~~L~~~~f-~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~  145 (201)
                      +|..|++++.+... ....|+.|-          +.|  |.|..|+++|.++.|++.||++|     |..||.++|+
T Consensus        13 ~C~~C~~~i~~~e~~~~~~~~~~H----------~~C--F~C~~C~~~L~~~~~~~~~g~~y-----C~~~y~~lf~   72 (72)
T 3f6q_B           13 TCERCKGGFAPAEKIVNSNGELYH----------EQC--FVCAQCFQQFPEGLFYEFEGRKY-----CEHDFQMLFA   72 (72)
T ss_dssp             BCTTTCCBCCTTCEEEEETTEEEE----------TTT--SSCTTTCCCCGGGCCEEETTEEE-----CHHHHHHHTC
T ss_pred             cchhcCccccCCceEEEeCcCeeC----------cCC--CcccCCCCCCCCCCeEeECCeEe-----CHHHHHHhhC
Confidence            78999999886543 345666665          345  89999999999889999999999     9999999886

>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=98.35  E-value=1.3e-07  Score=64.31  Aligned_cols=64  Identities=8%  Similarity=-0.014  Sum_probs=51.3

Q ss_pred             CeeeeccCCchhhhhhhcCCCCCCCCCcccC-----cceeecce-eeccccCcceeeeeeeCCcceEEEeecCccc
Q psy2231         127 VDLYHASMHLRSDCLSMYGGKGNTSHTMIPD-----TYITQVTI-VIARCLSSVYSIQLVKPSIRYRLTYIMPPCT  196 (201)
Q Consensus       127 g~~yH~~~~C~~~y~~~~~~~C~~C~~~I~~-----~~i~a~~~-~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~  196 (201)
                      |++|     |++||.++|+++|++|+++|.+     ..|.|++. +|..|++ +....+...+.+|.....+|+|.
T Consensus         2 ~~~y-----C~~cy~~~~~~~C~~C~~~I~~~g~~~~~~~a~~~~~H~~CF~-C~~C~~~L~~~~f~~~~~~~yC~   71 (77)
T 2egq_A            2 SSGS-----SGDCYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFH-CKKCSVNLANKRFVFHQEQVYCP   71 (77)
T ss_dssp             CSSC-----CTTCCCSCCCCCCSSSCCCCCCCSSCCCEEEETTEEEETTTCB-CSSSCCBCTTSCCCEETTEECCH
T ss_pred             CCeE-----chhHhchhhCccCcccCCcccCCCCCceeEEECcceeCcccCE-ehhcCCCCCCCccEeECCEEECh
Confidence            4566     9999999999999999999997     88999995 5777753 44566666677888887888874

>2iyb_E Testin, TESS, TES; LIM domain, SH3-binding, tumour supressor LIM domain EVH1 DO cell motility, phosphorylation, cytoskeleton; 2.35A {Homo sapiens}

Probab=98.30  E-value=1.3e-06  Score=57.68  Aligned_cols=59  Identities=14%  Similarity=0.281  Sum_probs=45.3

Q ss_pred             ccCCCCCcCCCC-ceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEEEeCCeeeeccCCc-hhhhhhh
Q psy2231          70 RCENCNKTLVPG-SHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFYSLSVDLYHASMHL-RSDCLSM  143 (201)
Q Consensus        70 ~C~~C~~~L~~~-~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~~~~g~~yH~~~~C-~~~y~~~  143 (201)
                      +|..|++++... ....-.|+.|-.        .+.|  |.|..|+++|.++.|++.||++|     | .+||.++
T Consensus         4 ~C~~C~~~I~~~~~~v~a~~~~wH~--------~~~C--F~C~~C~~~L~~~~f~~~~g~~y-----C~~~C~~k~   64 (65)
T 2iyb_E            4 VCQGCHNAIDPEVQRVTYNNFSWHA--------STEC--FLCSCCSKCLIGQKFMPVEGMVF-----CSVECKKRM   64 (65)
T ss_dssp             ECTTTSSEECTTSCEEEETTEEEET--------TTTT--SBCTTTCCBCTTSCCEEETTEEE-----SSHHHHHTT
T ss_pred             CCcCCCCeeccCceEEEECCCccCC--------CCCC--EECCCCCCcCCCCceEEECCEEe-----cCHHHhhhh
Confidence            588999988753 454444444440        0566  99999999999999999999999     9 8888764

>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=98.27  E-value=5.9e-07  Score=62.11  Aligned_cols=63  Identities=13%  Similarity=0.235  Sum_probs=48.8

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCCccccCCcEE--EeCCeeeeccCCchhhhhhhcCCC
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSILSQTFY--SLSVDLYHASMHLRSDCLSMYGGK  147 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~~~~f~--~~~g~~yH~~~~C~~~y~~~~~~~  147 (201)
                      +|..|++++.......-.++          .|++.|  |.|..|+++|.+..|.  +.||++|     |+.||.++|+.-
T Consensus        17 ~C~~C~~~I~~~e~v~a~~~----------~wH~~C--F~C~~C~~~L~~~~~~~~~~~g~~y-----C~~~y~~~~~~~   79 (82)
T 2co8_A           17 LCALCGEHLYVLERLCVNGH----------FFHRSC--FRCHTCEATLWPGGYEQHPGDGHFY-----CLQHLPQTDSGP   79 (82)
T ss_dssp             BCSSSCCBCCTTTBCCBTTB----------CCBTTT--CBCSSSCCBCCTTSEECCTTTCCCE-----ETTTCCCCCCCC
T ss_pred             CCcccCCCcccceEEEECCC----------eeCCCc--CEEcCCCCCcCCCceeEeCcCCEEE-----ChHHHHhhhcCC
Confidence            68999998865444333344          445566  9999999999998888  5799999     999999998875


Q ss_pred             CC
Q psy2231         148 GN  149 (201)
Q Consensus       148 C~  149 (201)
                      +.
T Consensus        80 ~~   81 (82)
T 2co8_A           80 SS   81 (82)
T ss_dssp             CC
T ss_pred             CC
Confidence            44

>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=98.27  E-value=9.1e-07  Score=66.03  Aligned_cols=60  Identities=20%  Similarity=0.339  Sum_probs=48.4

Q ss_pred             cccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCCcccc--CCcEEEeCCeeeeccCCchhhhhhhcC
Q psy2231          69 LRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSIL--SQTFYSLSVDLYHASMHLRSDCLSMYG  145 (201)
Q Consensus        69 F~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~--~~~f~~~~g~~yH~~~~C~~~y~~~~~  145 (201)
                      -+|..|++++.+.....-.|+.|-          +.|  |.|..|+++|.  +..|++.+|++|     |..||.++|+
T Consensus        62 ~~C~~C~~~I~~~~~v~a~~~~wH----------~~C--F~C~~C~~~L~~~g~~f~~~dg~~y-----C~~cy~~~Fg  123 (123)
T 2l4z_A           62 KRCAGCGGKIADRFLLYAMDSYWH----------SRC--LKCSSCQAQLGDIGTSSYTKSGMIL-----CRNDYIRLFG  123 (123)
T ss_dssp             SBBSSSSSBCCSSSEEEETTEEEE----------TTT--SBCTTTCCBGGGTTCCCBCSSSCCB-----CHHHHHHHCC
T ss_pred             CcCcCCCCCcCCcEEEEeCCcEEc----------ccc--cCcCcCCCcccccCCceEEECCEEe-----CHHHhhhhcC
Confidence            478999999976544555555555          455  99999999996  568999999999     9999999886

>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=98.24  E-value=1.3e-06  Score=59.04  Aligned_cols=60  Identities=10%  Similarity=0.186  Sum_probs=47.6

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCCcccc-CCcEEEeCCeeeeccCCchhhhhhhcCCC
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSVCSIL-SQTFYSLSVDLYHASMHLRSDCLSMYGGK  147 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~~~l~-~~~f~~~~g~~yH~~~~C~~~y~~~~~~~  147 (201)
                      +|..|++++.+ .+..-.          .+.|++.|  |.|..|+++|. +..|++.+|++|     |..||.++++.+
T Consensus         7 ~C~~C~~~I~~-~~v~a~----------~~~wH~~C--F~C~~C~~~L~~~~~f~~~~~~~y-----C~~C~~~~~~~~   67 (73)
T 1wig_A            7 GCDSCEKYITG-RVLEAG----------EKHYHPSC--ALCVRCGQMFAEGEEMYLQGSSIW-----HPACRQAARTED   67 (73)
T ss_dssp             SCSSSCCCCSS-CCBCCS----------SCCBCTTT--SCCSSSCCCCCSSCCCEEETTEEE-----CTTHHHHTSSSS
T ss_pred             CcccCCCEecC-eeEEeC----------CCCCCCCc--CEeCCCCCCCCCCCeeEeeCCEEE-----ChHHChHhhccc
Confidence            67899999876 333222          34556777  99999999998 778999999999     999999988754

>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=98.14  E-value=1.4e-06  Score=59.85  Aligned_cols=61  Identities=13%  Similarity=0.123  Sum_probs=45.3

Q ss_pred             CchhhhhhhcCCCCCCCCCcccCcceeecce-eeccccCcceeeeeeeCCcceEEEeecC-ccc
Q psy2231         135 HLRSDCLSMYGGKGNTSHTMIPDTYITQVTI-VIARCLSSVYSIQLVKPSIRYRLTYIMP-PCT  196 (201)
Q Consensus       135 ~C~~~y~~~~~~~C~~C~~~I~~~~i~a~~~-~~~~c~~~~~~~~~~~~~~~~~~~~~~~-~~~  196 (201)
                      ||+.||.++|+++|.+|+++|.++.|.|++. +|..|++ +....+...++.++.....+ +|.
T Consensus         5 yC~~dy~~~~~~~C~~C~~~I~~~~v~a~~~~wH~~CF~-C~~C~~~L~~~~~~~~~~~~~~C~   67 (81)
T 1v6g_A            5 SSGLDYQRLYGTRCFSCDQFIEGEVVSALGKTYHPDCFV-CAVCRLPFPPGDRVTFNGKECMCQ   67 (81)
T ss_dssp             CCCSCGGGSCCCBCTTTCCBCCSCCEEETTEEECTTTSS-CSSSCCCCCSSSCEEEETTEEEEH
T ss_pred             cchHHHHhHhCCcCccccCEeccceEEECCceeCccCCc-cccCCCCCCCCCEEEeCCCCEECh
Confidence            4999999999999999999999999999996 5667754 44555555555555544442 553

>1zfo_A LAsp-1; LIM domain, zinc-finger, metal-binding protein; NMR {Sus scrofa} SCOP: g.39.1.4

Probab=97.85  E-value=3.5e-06  Score=47.90  Aligned_cols=27  Identities=30%  Similarity=0.607  Sum_probs=25.5

Q ss_pred             ccCCCCCeeeecceEEeCCCcccCCCc
Q psy2231          43 NAINLPNSMYLAERKTSLGKDWHGSCL   69 (201)
Q Consensus        43 ~cc~C~~~i~~~~~v~a~g~~wH~~CF   69 (201)
                      .|.+|++.|++.|.+.++|+.||..||
T Consensus         5 ~C~~C~k~Vy~~Ek~~~~g~~~Hk~CF   31 (31)
T 1zfo_A            5 NCARCGKIVYPTEKVNCLDKFWHKACF   31 (31)
T ss_dssp             BCSSSCSBCCGGGCCCSSSSCCCGGGC
T ss_pred             cCCccCCEEecceeEEECCeEecccCC
Confidence            488999999999999999999999998

---

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	201
d2cu8a2	33	g.39.1.3 (A:38-70) Cysteine-rich (intestinal) prot	5e-17
d1imla2	48	g.39.1.3 (A:29-76) Cysteine-rich (intestinal) prot	1e-14
d2d8ya2	42	g.39.1.3 (A:44-85) Eplin, LIMA1 {Human (Homo sapie	1e-09
d1b8ta4	49	g.39.1.3 (A:144-192) Cysteine-rich (intestinal) pr	1e-09
d1b8ta2	65	g.39.1.3 (A:36-100) Cysteine-rich (intestinal) pro	3e-08
d1g47a2	35	g.39.1.3 (A:36-70) Pinch (particularly interesting	3e-05
d2cu8a1	30	g.39.1.3 (A:8-37) Cysteine-rich (intestinal) prote	2e-04

>d2cu8a2 g.39.1.3 (A:38-70) Cysteine-rich (intestinal) protein, CRP, CRIP {Human (Homo sapiens) [TaxId: 9606]} Length = 33

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 69.0 bits (169), Expect = 5e-17
 Identities = 21/32 (65%), Positives = 27/32 (84%)

Query: 70  RCENCNKTLVPGSHSEHDGKPYCNYPCYSALF 101
           +CE C+KTL PG H+EHDGKP+C+ PCY+ LF
Sbjct: 1   KCERCSKTLTPGGHAEHDGKPFCHKPCYATLF 32

>d1imla2 g.39.1.3 (A:29-76) Cysteine-rich (intestinal) protein, CRP, CRIP {Rat (Rattus rattus) [TaxId: 10117]} Length = 48

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Rat (Rattus rattus) [TaxId: 10117]

 Score = 63.2 bits (154), Expect = 1e-14
 Identities = 22/32 (68%), Positives = 27/32 (84%)

Query: 70  RCENCNKTLVPGSHSEHDGKPYCNYPCYSALF 101
           +CE C KTL  G H+EH+GKPYCN+PCYSA+F
Sbjct: 1   KCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMF 32

>d2d8ya2 g.39.1.3 (A:44-85) Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]} Length = 42

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Eplin, LIMA1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.7 bits (119), Expect = 1e-09
 Identities = 12/35 (34%), Positives = 19/35 (54%), Gaps = 1/35 (2%)

Query: 70  RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSER 104
           RC  CN  L  G+++   G+ YC  P ++ LF  +
Sbjct: 1   RCSYCNNKLSLGTYASLHGRIYCK-PHFNQLFKSK 34

>d1b8ta4 g.39.1.3 (A:144-192) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]} Length = 49

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Chicken (Gallus gallus) [TaxId: 9031]

 Score = 49.7 bits (119), Expect = 1e-09
 Identities = 12/32 (37%), Positives = 18/32 (56%), Gaps = 1/32 (3%)

Query: 70  RCENCNKTLVPGSHSEHDGKPYCNYPCYSALF 101
           RC  C K+L   + ++ DG+ YC   CY+  F
Sbjct: 1   RCAKCGKSLESTTLADKDGEIYCK-GCYAKNF 31

>d1b8ta2 g.39.1.3 (A:36-100) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]} Length = 65

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Chicken (Gallus gallus) [TaxId: 9031]

 Score = 46.8 bits (111), Expect = 3e-08
 Identities = 9/31 (29%), Positives = 13/31 (41%), Gaps = 1/31 (3%)

Query: 71  CENCNKTLVPGSHSEHDGKPYCNYPCYSALF 101
           C  C K L   + + H  + YC   CY   +
Sbjct: 2   CMVCKKNLDSTTVAVHGDEIYCK-SCYGKKY 31

>d1g47a2 g.39.1.3 (A:36-70) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]} Length = 35

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.8 bits (88), Expect = 3e-05
 Identities = 9/32 (28%), Positives = 15/32 (46%), Gaps = 1/32 (3%)

Query: 71  CENCNKTLVPGSHSEHDGKPYCNYPCYSALFS 102
           C  C +    G   E +G+ YC +  +  LF+
Sbjct: 3   CAQCFQQFPEGLFYEFEGRKYCEH-DFQMLFA 33

>d2cu8a1 g.39.1.3 (A:8-37) Cysteine-rich (intestinal) protein, CRP, CRIP {Human (Homo sapiens) [TaxId: 9606]} Length = 30

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.2 bits (81), Expect = 2e-04
 Identities = 12/20 (60%), Positives = 16/20 (80%)

Query: 50 SMYLAERKTSLGKDWHGSCL 69
          ++Y AE+ +SLGKDWH  CL
Sbjct: 11 TVYFAEKVSSLGKDWHKFCL 30

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	201
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	98.88
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	98.71
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.58
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.49
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.42
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	98.38
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	98.33
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	98.25
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	98.24
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.24
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.2
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.2
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.12
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.11
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	98.11
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.09
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	98.05
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.05
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.01
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	97.99
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.98
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	97.97
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.97
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	97.94
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	97.92
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.88
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.85
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.85
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	97.83
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	97.77
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	97.77
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.73
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.7
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.69
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	97.62
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.62
d2co8a2	36	Nedd9 interacting protein with calponin homology,	97.62
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	97.62
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.61
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	97.59
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.56
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	97.55
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	97.53
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	97.45
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.44
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	97.42
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	97.41
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.38
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.32
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	97.31
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.28
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.25
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	97.21
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	97.17
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.16
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.15
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	97.15
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	97.13
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	97.07
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.03
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.98
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	96.98
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	96.96
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	96.9
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	96.9
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.82
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.79
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.77
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	96.62
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	96.6
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	96.48
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	96.4
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	96.23
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	96.09
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	96.06
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	95.93
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	95.7
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	95.45
d1x61a1	27	Thyroid receptor interacting protein 6, TRIP6 {Hum	95.43
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	95.24
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	95.21
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	95.21
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	94.86
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	94.31
d1rutx4	33	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	94.18
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	94.03
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	93.97
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	93.75
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	93.75
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	93.57
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	93.45
d1rutx4	33	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	93.08
d1rutx2	34	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	92.77
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	92.32
d1rutx2	34	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	92.09
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	91.79
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	91.52
d2cora1	31	Pinch (particularly interesting new Cys-His) prote	91.28
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	91.11
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	89.95
d2cora1	31	Pinch (particularly interesting new Cys-His) prote	89.92
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	89.63
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	89.19
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	89.04
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	88.02
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	87.95
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	87.77
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	87.02
d1x68a2	34	Four and a half LIM domains protein 5, FHL-5 {Huma	86.76
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	86.75
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	86.44
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	85.36
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	84.9
d1v6ga2	40	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	83.98
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	83.97
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	83.94
d1v6ga2	40	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	82.35
d1x68a2	34	Four and a half LIM domains protein 5, FHL-5 {Huma	82.07
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	80.99

>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=98.88  E-value=1.3e-10  Score=66.90  Aligned_cols=34  Identities=26%  Similarity=0.699  Sum_probs=32.7

Q ss_pred             cccCCCCCcCCCCceeeeCCeeeecCCccccccCC
Q psy2231          69 LRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSE  103 (201)
Q Consensus        69 F~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p  103 (201)
                      |+|+.|+++|.+..|++++|+|||| .||.++|+|
T Consensus         1 F~C~~C~~~f~~~~F~e~~G~pYCe-~~Y~~lFAP   34 (35)
T d1g47a2           1 FVCAQCFQQFPEGLFYEFEGRKYCE-HDFQMLFAP   34 (35)
T ss_dssp             CCCTTTCCCCGGGCSEEETTEEECH-HHHHHHCCC
T ss_pred             CCCCCCcCCCCCCCeEEECCEecCh-HhHHhhcCC
Confidence            8999999999999999999999996 999999998

>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=98.71  E-value=3.1e-09  Score=60.95  Aligned_cols=34  Identities=15%  Similarity=0.291  Sum_probs=32.9

Q ss_pred             eeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCC
Q psy2231         108 LGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGG  146 (201)
Q Consensus       108 F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~  146 (201)
                      |+|..|+++|.+..|++.||++|     |+.||.++|||
T Consensus         1 F~C~~C~~~f~~~~F~e~~G~pY-----Ce~~Y~~lFAP   34 (35)
T d1g47a2           1 FVCAQCFQQFPEGLFYEFEGRKY-----CEHDFQMLFAP   34 (35)
T ss_dssp             CCCTTTCCCCGGGCSEEETTEEE-----CHHHHHHHCCC
T ss_pred             CCCCCCcCCCCCCCeEEECCEec-----ChHhHHhhcCC
Confidence            78999999999999999999999     99999999997

>d1x3ha1 g.39.1.3 (A:8-42) Leupaxin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Leupaxin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.58  E-value=7.8e-09  Score=59.25  Aligned_cols=34  Identities=18%  Similarity=0.421  Sum_probs=30.0

Q ss_pred             hhhhhhcCCCCCCCCCcccCcceeecce-eecccc
Q psy2231         138 SDCLSMYGGKGNTSHTMIPDTYITQVTI-VIARCL  171 (201)
Q Consensus       138 ~~y~~~~~~~C~~C~~~I~~~~i~a~~~-~~~~c~  171 (201)
                      +||.++|+++|++|++||++++|+||+. +|..|+
T Consensus         1 ~DY~~~fapkC~~C~~~I~g~~v~Al~~~wHpeCF   35 (35)
T d1x3ha1           1 KDFLAMFSPKCGGCNRPVLENYLSAMDTVWHPECF   35 (35)
T ss_dssp             CCCCCCCSCBCTTTCCBCCSSCEEETTEEECTTTC
T ss_pred             CcHHHHhChhhhhcCCcccchheeecCCccCcccC
Confidence            4789999999999999999999999996 676663

>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=98.49  E-value=1.7e-08  Score=61.66  Aligned_cols=39  Identities=33%  Similarity=0.783  Sum_probs=35.6

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCcee
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLG  109 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~  109 (201)
                      +|..|++.|++....++||+||| +.||.++|+|++.+|.
T Consensus         1 KC~~C~k~Lds~t~~ehdg~~YC-k~CY~k~fGPKG~g~G   39 (49)
T d1b8ta4           1 RCAKCGKSLESTTLADKDGEIYC-KGCYAKNFGPKGFGFG   39 (49)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEE-HHHHHHHTCCCCCCCC
T ss_pred             ChhhcCCccCCCcccccCCcccc-hhhhhhccCCCccCcc
Confidence            58999999999999999999999 7999999999995544

>d1x3ha1 g.39.1.3 (A:8-42) Leupaxin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Leupaxin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.42  E-value=4.9e-08  Score=55.82  Aligned_cols=31  Identities=13%  Similarity=0.360  Sum_probs=26.9

Q ss_pred             CCcccccCCCCCeeeecceEEeCCCcccCCCc
Q psy2231          38 QHHTSNAINLPNSMYLAERKTSLGKDWHGSCL   69 (201)
Q Consensus        38 ~cf~C~cc~C~~~i~~~~~v~a~g~~wH~~CF   69 (201)
                      +-|.-.|.+|+++| .++.|+|+|+.||++||
T Consensus         5 ~~fapkC~~C~~~I-~g~~v~Al~~~wHpeCF   35 (35)
T d1x3ha1           5 AMFSPKCGGCNRPV-LENYLSAMDTVWHPECF   35 (35)
T ss_dssp             CCCSCBCTTTCCBC-CSSCEEETTEEECTTTC
T ss_pred             HHhChhhhhcCCcc-cchheeecCCccCcccC
Confidence            34666799999996 78999999999999998

>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=98.38  E-value=9.9e-08  Score=57.59  Aligned_cols=38  Identities=58%  Similarity=1.236  Sum_probs=34.6

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCc
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKF  107 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~  107 (201)
                      +|..|++.|++....++||+|||.++||.++|+|+..+
T Consensus         1 kC~~C~K~L~sg~~aeHdg~pYC~k~CY~~~FGPkG~g   38 (48)
T d1imla2           1 KCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGFG   38 (48)
T ss_dssp             BCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCCCSS
T ss_pred             CchhcCcCcCCCChhhcCCcccccccchhhccCCCccc
Confidence            58999999999999999999999647999999999854

>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=98.33  E-value=1.7e-07  Score=51.75  Aligned_cols=32  Identities=16%  Similarity=0.149  Sum_probs=30.0

Q ss_pred             eeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcC
Q psy2231         109 GCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYG  145 (201)
Q Consensus       109 ~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~  145 (201)
                      .|..|+++|.|+.|+++|++||     |..||..+||
T Consensus         1 ~C~~C~~~L~GQry~~rd~~Py-----C~~Cf~~lfA   32 (32)
T d2d8za2           1 VCTACRKQLSGQRFTARDDFAY-----CLNCFCDLYA   32 (32)
T ss_dssp             BCSSSCCBCTTSCCEESSSSEE-----CHHHHHHHTC
T ss_pred             CcccCCccccCceeeecCCCee-----hHHhhHhhcC
Confidence            4789999999999999999999     9999999986

>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=98.25  E-value=8.7e-08  Score=52.94  Aligned_cols=32  Identities=28%  Similarity=0.761  Sum_probs=29.5

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccC
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFS  102 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~  102 (201)
                      +|..|+++|.++.|..+|++||| ..||.++|+
T Consensus         1 ~C~~C~~~L~GQry~~rd~~PyC-~~Cf~~lfA   32 (32)
T d2d8za2           1 VCTACRKQLSGQRFTARDDFAYC-LNCFCDLYA   32 (32)
T ss_dssp             BCSSSCCBCTTSCCEESSSSEEC-HHHHHHHTC
T ss_pred             CcccCCccccCceeeecCCCeeh-HHhhHhhcC
Confidence            58899999999999999999999 699998875

>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=98.24  E-value=2.4e-07  Score=50.89  Aligned_cols=33  Identities=64%  Similarity=1.505  Sum_probs=30.0

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccC
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFS  102 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~  102 (201)
                      +|..|++.|......+++|+|||+++||..+|+
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            589999999999999999999998779988874

>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=98.24  E-value=2.2e-07  Score=50.60  Aligned_cols=31  Identities=35%  Similarity=0.820  Sum_probs=27.7

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccC
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFS  102 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~  102 (201)
                      +|..|++.|.+ .|..+||.|||| .||+.+|+
T Consensus         1 kC~~C~~vL~g-EYm~kdG~PyCe-~DY~~~FG   31 (31)
T d2dj7a1           1 KCQTCSVILTG-EYISKDGVPYCE-SDYHAQFG   31 (31)
T ss_dssp             BCSSSCCBCSS-CCEEETTEEECT-THHHHHTT
T ss_pred             CccccCccccc-eeecCCCCcccH-HHHHHhcC
Confidence            58999999975 799999999997 99999875

>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=98.20  E-value=1.3e-07  Score=52.47  Aligned_cols=31  Identities=32%  Similarity=0.715  Sum_probs=28.0

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCcccccc
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALF  101 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~  101 (201)
                      +|..|.+|+.+..|++.+|+|||| .+|.++.
T Consensus         1 VC~~C~~PF~~~~Fy~~~g~PyCe-~HyH~~~   31 (32)
T d1x3ha2           1 VCGDCFTSFSTGSFFELDGRPFCE-LHYHHRR   31 (32)
T ss_dssp             BCSSSCCBSCSSCCEESSSCEECH-HHHHHHH
T ss_pred             CcCccCCcCCCCCeEeECCccchH-Hhhhhhc
Confidence            689999999999999999999996 9988753

>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=98.20  E-value=5.1e-07  Score=53.66  Aligned_cols=26  Identities=19%  Similarity=0.312  Sum_probs=23.9

Q ss_pred             ccCCCCCeeeecceEEeCCCcccCCCc
Q psy2231          43 NAINLPNSMYLAERKTSLGKDWHGSCL   69 (201)
Q Consensus        43 ~cc~C~~~i~~~~~v~a~g~~wH~~CF   69 (201)
                      .|..|+++| .+..|+|+|+.||++||
T Consensus        20 ~C~~C~~pI-~g~~vtAlgk~WHPEhF   45 (45)
T d2dara2          20 MCAHCNQVI-RGPFLVALGKSWHPEEF   45 (45)
T ss_dssp             BBSSSCCBC-CSCEEEETTEEECTTTC
T ss_pred             eccccCCcc-cCceeeecCCccCcCCC
Confidence            499999995 89999999999999998

>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=98.12  E-value=5.8e-07  Score=57.72  Aligned_cols=44  Identities=25%  Similarity=0.505  Sum_probs=39.6

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccCCccCceeeCCCC
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERSKFLGCLSSV  114 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C~~F~C~~C~  114 (201)
                      .|..|++.|+.....+++++||| +.||.++|+|+.++|.-.+-.
T Consensus         1 ~C~~C~K~LdS~~~~eh~~e~YC-k~CY~k~fGPkG~G~G~gag~   44 (65)
T d1b8ta2           1 LCMVCKKNLDSTTVAVHGDEIYC-KSCYGKKYGPKGKGKGMGAGT   44 (65)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEE-HHHHHHHHSCCCCCCCCCCCC
T ss_pred             CchhcCCccCCCccccCCCcccc-hhhhccccCCCccccccccce
Confidence            48899999999999999999999 799999999999888776643

>d2dj7a2 g.39.1.3 (A:8-43) Actin-binding LIM protein 3, abLIM-3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 3, abLIM-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.11  E-value=4.9e-07  Score=50.55  Aligned_cols=29  Identities=24%  Similarity=0.479  Sum_probs=26.6

Q ss_pred             ccccCCCCCeeeecceEEeCCCcccCCCc
Q psy2231          41 TSNAINLPNSMYLAERKTSLGKDWHGSCL   69 (201)
Q Consensus        41 ~C~cc~C~~~i~~~~~v~a~g~~wH~~CF   69 (201)
                      ..+|++|++.|-.++.+.|+++.||.+||
T Consensus         8 ~~~CagCg~eik~gQaL~ALdkqWH~~CF   36 (36)
T d2dj7a2           8 PSHCAGCKEEIKHGQSLLALDKQWHVSCF   36 (36)
T ss_dssp             CSCCTTTCCCCSSSCCEEETTEEECTTTC
T ss_pred             CccccccchhhhCCceeeeeecceeeeeC
Confidence            34599999999999999999999999998

>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=98.11  E-value=3.5e-07  Score=50.59  Aligned_cols=34  Identities=32%  Similarity=0.821  Sum_probs=31.8

Q ss_pred             cccCCCCCcCCCCceeeeCCeeeecCCccccccCC
Q psy2231          69 LRCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSE  103 (201)
Q Consensus        69 F~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p  103 (201)
                      |+|+.|.+|+-+...+++.|.+||| .+|.++|+.
T Consensus         1 FvCA~CekPF~G~rhyE~~g~ayCe-~Hy~qLfg~   34 (35)
T d1u5sb2           1 FVCAKCEKPFLGHRHYERKGLAYCE-THYNQLFGD   34 (35)
T ss_dssp             CBCTTTCCBCSSSCCEEETTEEECH-HHHHHHCSC
T ss_pred             CcccccCCccCCchhhhhcCchHHH-HHHHHHhcc
Confidence            8999999999999999999999997 999999874

>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=98.09  E-value=4e-07  Score=49.64  Aligned_cols=32  Identities=31%  Similarity=0.892  Sum_probs=29.3

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccC
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFS  102 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~  102 (201)
                      +|..|+++|+++.|..+|++||| .+||.++|+
T Consensus         1 vCt~Ck~~LaGqrFTSrde~pYC-~~Cfg~LfA   32 (32)
T d2cuqa1           1 VCTGCQTPLAGQQFTSRDEDPYC-VACFGELFA   32 (32)
T ss_dssp             BCSSSCCBCTTCCEEECSSSEEE-HHHHHHHTT
T ss_pred             CccccCccccCCccccCCCCccH-HHHhHhhcC
Confidence            58999999999999999999999 699988874

>d1b8ta3 g.39.1.3 (A:101-143) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=98.05  E-value=1.9e-06  Score=51.23  Aligned_cols=26  Identities=35%  Similarity=0.715  Sum_probs=25.4

Q ss_pred             cCCCCCeeeecceEEeCCCcccCCCc
Q psy2231          44 AINLPNSMYLAERKTSLGKDWHGSCL   69 (201)
Q Consensus        44 cc~C~~~i~~~~~v~a~g~~wH~~CF   69 (201)
                      |..|++.|++.|.+.+.|+.||+.||
T Consensus        18 C~~C~k~VY~~E~~~~~g~~~Hk~CF   43 (43)
T d1b8ta3          18 CPRCGQAVYAAEKVIGAGKSWHKSCF   43 (43)
T ss_dssp             CTTTSCEECSSSCEEETTEEECTTTC
T ss_pred             CccCCCEeeHHHHhhcCCCccccCCC
Confidence            89999999999999999999999998

>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=98.01  E-value=2.2e-06  Score=46.65  Aligned_cols=32  Identities=19%  Similarity=0.233  Sum_probs=29.9

Q ss_pred             eeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcC
Q psy2231         109 GCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYG  145 (201)
Q Consensus       109 ~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~  145 (201)
                      .|..|+++|.|+.|..+|.+||     |.+||-++|+
T Consensus         1 vCt~Ck~~LaGqrFTSrde~pY-----C~~Cfg~LfA   32 (32)
T d2cuqa1           1 VCTGCQTPLAGQQFTSRDEDPY-----CVACFGELFA   32 (32)
T ss_dssp             BCSSSCCBCTTCCEEECSSSEE-----EHHHHHHHTT
T ss_pred             CccccCccccCCccccCCCCcc-----HHHHhHhhcC
Confidence            4889999999999999999999     9999998885

>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=97.99  E-value=6.9e-07  Score=47.91  Aligned_cols=27  Identities=30%  Similarity=0.607  Sum_probs=25.7

Q ss_pred             ccCCCCCeeeecceEEeCCCcccCCCc
Q psy2231          43 NAINLPNSMYLAERKTSLGKDWHGSCL   69 (201)
Q Consensus        43 ~cc~C~~~i~~~~~v~a~g~~wH~~CF   69 (201)
                      .|++|++.|++.|.+..+++.||+.||
T Consensus         4 ~CaRC~k~VYp~Ekl~ClDk~WHK~CF   30 (30)
T d1zfoa_           4 NCARCGKIVYPTEKVNCLDKFWHKACF   30 (30)
T ss_dssp             BCSSSCSBCCGGGCCCSSSSCCCGGGC
T ss_pred             cccccCCccccHHHhhhhHHHHhhccC
Confidence            488999999999999999999999998

>d1wyha1 g.39.1.3 (A:35-66) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.98  E-value=3.2e-06  Score=46.10  Aligned_cols=32  Identities=13%  Similarity=0.059  Sum_probs=29.8

Q ss_pred             eeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcC
Q psy2231         109 GCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYG  145 (201)
Q Consensus       109 ~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~  145 (201)
                      .|..|++||+.+.|+..++..|     |.+||+++||
T Consensus         1 ~C~~C~qPIGtkSFip~~~~~y-----CvpCYE~kfA   32 (32)
T d1wyha1           1 LCSGCEQPLGSRSFVPDKGAHY-----CVPCYENKFA   32 (32)
T ss_dssp             BCTTTCCBTTTSCEEEETTEEE-----EHHHHHHHTS
T ss_pred             CcccccCcccccccccCCCcEE-----EEeccccccC
Confidence            3789999999999999999999     9999999986

>d1x4ka1 g.39.1.3 (A:35-66) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.97  E-value=3e-06  Score=46.29  Aligned_cols=32  Identities=9%  Similarity=-0.005  Sum_probs=29.8

Q ss_pred             eeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcC
Q psy2231         109 GCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYG  145 (201)
Q Consensus       109 ~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~  145 (201)
                      .|..|++||+.+.|+.+++..|     |.+||+++||
T Consensus         1 ~C~~C~qPIGtksfipk~~~~y-----CvpCyE~kfA   32 (32)
T d1x4ka1           1 ICHRCQQPIGTKSFIPKDNQNF-----CVPCYEKQHA   32 (32)
T ss_dssp             CCSSSCCCCCSSSEEEETTEEE-----EHHHHHHHTS
T ss_pred             CcccccCcccccccccCCCCce-----EeecchhhcC
Confidence            3789999999999999999999     9999999986

>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=97.97  E-value=1.5e-06  Score=47.12  Aligned_cols=27  Identities=44%  Similarity=0.888  Sum_probs=25.3

Q ss_pred             ccCCCCCeeeecceEEeCCCcccCCCc
Q psy2231          43 NAINLPNSMYLAERKTSLGKDWHGSCL   69 (201)
Q Consensus        43 ~cc~C~~~i~~~~~v~a~g~~wH~~CF   69 (201)
                      .|.+|+++|++.|.+.++|+.||+.|+
T Consensus         4 ~CprC~K~VYfaEk~~~lgk~WHk~Cl   30 (30)
T d2cu8a1           4 KCPKCDKTVYFAEKVSSLGKDWHKFCL   30 (30)
T ss_dssp             BCTTTCCBCCTTTEEEETTEEEETTTC
T ss_pred             cCCCCCCceeeHHhhccCCcccccccC
Confidence            589999999999999999999999885

>d1u5sb2 g.39.1.3 (B:103-137) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.94  E-value=4.4e-06  Score=46.04  Aligned_cols=34  Identities=15%  Similarity=0.281  Sum_probs=32.2

Q ss_pred             eeeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCC
Q psy2231         108 LGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGG  146 (201)
Q Consensus       108 F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~  146 (201)
                      |+|+.|.+|+.|...+++.|..|     |+.+|.++|+.
T Consensus         1 FvCA~CekPF~G~rhyE~~g~ay-----Ce~Hy~qLfg~   34 (35)
T d1u5sb2           1 FVCAKCEKPFLGHRHYERKGLAY-----CETHYNQLFGD   34 (35)
T ss_dssp             CBCTTTCCBCSSSCCEEETTEEE-----CHHHHHHHCSC
T ss_pred             CcccccCCccCCchhhhhcCchH-----HHHHHHHHhcc
Confidence            78999999999999999999999     99999999974

>d1x3ha2 g.39.1.3 (A:43-74) Leupaxin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Leupaxin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.92  E-value=3.1e-06  Score=46.72  Aligned_cols=31  Identities=13%  Similarity=0.155  Sum_probs=28.5

Q ss_pred             eeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhc
Q psy2231         109 GCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMY  144 (201)
Q Consensus       109 ~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~  144 (201)
                      +|..|.+|+.+..|++.||+||     |+.||+++.
T Consensus         1 VC~~C~~PF~~~~Fy~~~g~Py-----Ce~HyH~~~   31 (32)
T d1x3ha2           1 VCGDCFTSFSTGSFFELDGRPF-----CELHYHHRR   31 (32)
T ss_dssp             BCSSSCCBSCSSCCEESSSCEE-----CHHHHHHHH
T ss_pred             CcCccCCcCCCCCeEeECCccc-----hHHhhhhhc
Confidence            5899999999999999999999     999998764

>d1b8ta4 g.39.1.3 (A:144-192) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=97.88  E-value=9.1e-06  Score=49.25  Aligned_cols=40  Identities=20%  Similarity=0.211  Sum_probs=36.6

Q ss_pred             eeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCCCCCCCC
Q psy2231         109 GCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKGNTSHT  153 (201)
Q Consensus       109 ~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C~~C~~  153 (201)
                      .|..|++.|.+....+.||++|     |..||.++|+|+..+.++
T Consensus         1 KC~~C~k~Lds~t~~ehdg~~Y-----Ck~CY~k~fGPKG~g~G~   40 (49)
T d1b8ta4           1 RCAKCGKSLESTTLADKDGEIY-----CKGCYAKNFGPKGFGFGQ   40 (49)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEE-----EHHHHHHHTCCCCCCCCC
T ss_pred             ChhhcCCccCCCcccccCCccc-----chhhhhhccCCCccCccc
Confidence            4889999999999999999999     999999999999988653

>d2dj7a1 g.39.1.3 (A:44-74) Actin-binding LIM protein 3, abLIM-3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 3, abLIM-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.85  E-value=5.6e-06  Score=44.89  Aligned_cols=31  Identities=19%  Similarity=0.312  Sum_probs=27.3

Q ss_pred             eeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcC
Q psy2231         109 GCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYG  145 (201)
Q Consensus       109 ~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~  145 (201)
                      .|.+|++.|.+ +++.+||.||     |+.||+.+|+
T Consensus         1 kC~~C~~vL~g-EYm~kdG~Py-----Ce~DY~~~FG   31 (31)
T d2dj7a1           1 KCQTCSVILTG-EYISKDGVPY-----CESDYHAQFG   31 (31)
T ss_dssp             BCSSSCCBCSS-CCEEETTEEE-----CTTHHHHHTT
T ss_pred             CccccCccccc-eeecCCCCcc-----cHHHHHHhcC
Confidence            37889999877 5899999999     9999999885

>d2d8ya2 g.39.1.3 (A:44-85) Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Eplin, LIMA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.85  E-value=1.1e-06  Score=51.74  Aligned_cols=35  Identities=34%  Similarity=0.838  Sum_probs=32.9

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccCCcc
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFSERS  105 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~p~C  105 (201)
                      +|+.|++.|....|...+|.+|| ++||.++|.++.
T Consensus         1 rC~~C~~~Ls~~~yas~~G~lYC-kpHf~qLF~~kG   35 (42)
T d2d8ya2           1 RCSYCNNKLSLGTYASLHGRIYC-KPHFNQLFKSKG   35 (42)
T ss_dssp             BCTTTCCBCCTTTCCCSSSCCCC-HHHHHHHSCCCS
T ss_pred             CcCcCCCCccCCcchhhCCEecc-HHHHHHHHHhhc
Confidence            58999999999999999999999 799999999876

>d1u5sb1 g.39.1.3 (B:72-102) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.83  E-value=2.5e-06  Score=46.41  Aligned_cols=27  Identities=15%  Similarity=0.241  Sum_probs=20.7

Q ss_pred             ccccCCCCCeeeecceEEeCCCcccCCC
Q psy2231          41 TSNAINLPNSMYLAERKTSLGKDWHGSC   68 (201)
Q Consensus        41 ~C~cc~C~~~i~~~~~v~a~g~~wH~~C   68 (201)
                      ...|..|.++| .++.|.|+|+.||+++
T Consensus         5 ~p~C~~C~~PI-~~~~vtAlgk~WHpEH   31 (31)
T d1u5sb1           5 VPICGACRRPI-EGRVVNAMGKQWHVEH   31 (31)
T ss_dssp             CCEETTTTEEC-CSCEECCTTSBEETTT
T ss_pred             CcchhhcCCch-hhhHhhhhccccCCCC
Confidence            34578888885 6788888888888875

>d1x63a1 g.39.1.3 (A:8-44) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.77  E-value=5.5e-06  Score=47.40  Aligned_cols=31  Identities=13%  Similarity=0.377  Sum_probs=26.2

Q ss_pred             CcccccCCCCCeeeecce-EEeCCCcccCCCc
Q psy2231          39 HHTSNAINLPNSMYLAER-KTSLGKDWHGSCL   69 (201)
Q Consensus        39 cf~C~cc~C~~~i~~~~~-v~a~g~~wH~~CF   69 (201)
                      -|.-.|-+|+++|.+|.. |.++|+.||..||
T Consensus         6 ~~a~~C~~C~k~I~~G~k~veykg~~WHe~CF   37 (37)
T d1x63a1           6 EDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCF   37 (37)
T ss_dssp             CCSCBCSSSCCBCCSSSCEEECSSCEEETTTC
T ss_pred             ccCcccccCCCccCCCCeEeEeCCccchhccC
Confidence            355568899999987765 9999999999998

>d1x4ka1 g.39.1.3 (A:35-66) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 2, FHL2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.77  E-value=3.8e-06  Score=45.91  Aligned_cols=32  Identities=25%  Similarity=0.727  Sum_probs=29.5

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccC
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFS  102 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~  102 (201)
                      .|..|++|+..+.|+.+++..|| .+||+++|+
T Consensus         1 ~C~~C~qPIGtksfipk~~~~yC-vpCyE~kfA   32 (32)
T d1x4ka1           1 ICHRCQQPIGTKSFIPKDNQNFC-VPCYEKQHA   32 (32)
T ss_dssp             CCSSSCCCCCSSSEEEETTEEEE-HHHHHHHTS
T ss_pred             CcccccCcccccccccCCCCceE-eecchhhcC
Confidence            48899999999999999999999 799999875

>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=97.73  E-value=6.6e-06  Score=46.51  Aligned_cols=26  Identities=23%  Similarity=0.423  Sum_probs=25.1

Q ss_pred             cCCCCCeeeecceEEeCCCcccCCCc
Q psy2231          44 AINLPNSMYLAERKTSLGKDWHGSCL   69 (201)
Q Consensus        44 cc~C~~~i~~~~~v~a~g~~wH~~CF   69 (201)
                      |..|++.|++.|.+.|.|+.||..||
T Consensus        10 C~~C~K~VY~~E~~~a~g~~~Hk~CF   35 (35)
T d2d8ya1          10 CVECQKTVYPMERLLANQQVFHISCF   35 (35)
T ss_dssp             CTTTCCBCCTTSEEECSSSEEETTTC
T ss_pred             cccCCCEEeeeeeEecCCeehhhccC
Confidence            78899999999999999999999998

>d2dloa1 g.39.1.3 (A:8-42) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.70  E-value=8.3e-06  Score=45.70  Aligned_cols=25  Identities=20%  Similarity=0.506  Sum_probs=22.0

Q ss_pred             cCCCCCeeeecceEEeCCCcccCCCc
Q psy2231          44 AINLPNSMYLAERKTSLGKDWHGSCL   69 (201)
Q Consensus        44 cc~C~~~i~~~~~v~a~g~~wH~~CF   69 (201)
                      |..|+++| ....+.|+|+.|||.||
T Consensus        11 C~~C~~~I-~driLrA~Gk~yHP~CF   35 (35)
T d2dloa1          11 CATCSQPI-LDRILRAMGKAYHPGCF   35 (35)
T ss_dssp             CTTTCCBC-CSCCEEETTEEECTTTC
T ss_pred             HHHhchHH-HHHHHHHhCCCCCCCCC
Confidence            77899985 77789999999999998

>d1ibia2 g.39.1.3 (A:145-175) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]

Probab=97.69  E-value=2.8e-06  Score=45.30  Aligned_cols=30  Identities=37%  Similarity=0.953  Sum_probs=27.8

Q ss_pred             cccCCCCCcCCCCceeeeCCeeeecCCcccc
Q psy2231          69 LRCENCNKTLVPGSHSEHDGKPYCNYPCYSA   99 (201)
Q Consensus        69 F~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~   99 (201)
                      |+|+.|++.|+......+||++|| +.||.+
T Consensus         1 frca~cgk~lestt~adkdgeiyc-k~cyak   30 (31)
T d1ibia2           1 FRCAKCGKSLESTTLTEKEGEIYC-KGCYAK   30 (31)
T ss_dssp             EECSSSCCEECSSCSEEETTEEEC-HHHHHH
T ss_pred             CccccccCccccceeeccCCcEEE-eeeeec
Confidence            789999999999999999999999 799864

>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=97.62  E-value=1.3e-05  Score=43.35  Aligned_cols=26  Identities=12%  Similarity=0.218  Sum_probs=23.2

Q ss_pred             ccCCCCCeeeecceEEeCCCcccCCC
Q psy2231          43 NAINLPNSMYLAERKTSLGKDWHGSC   68 (201)
Q Consensus        43 ~cc~C~~~i~~~~~v~a~g~~wH~~C   68 (201)
                      .|++|+++|.+.-.+.|+++.||.+|
T Consensus         5 ~CaGC~~~I~DRflL~a~Dr~WH~~C   30 (30)
T d1j2oa1           5 TCGGCQQNIGDRYFLKAIDQYWHEDC   30 (30)
T ss_dssp             CBSSSCSCBCSSEEEECSSSEECTTT
T ss_pred             ccCCCCCcchHHHHHHHHHHHHhcCC
Confidence            48999999877777999999999987

>d2cuqa2 g.39.1.3 (A:8-42) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.62  E-value=8.9e-06  Score=45.39  Aligned_cols=33  Identities=6%  Similarity=0.025  Sum_probs=28.1

Q ss_pred             hhhhhhcCCCCCCCCCcccCcceeecce-eeccc
Q psy2231         138 SDCLSMYGGKGNTSHTMIPDTYITQVTI-VIARC  170 (201)
Q Consensus       138 ~~y~~~~~~~C~~C~~~I~~~~i~a~~~-~~~~c  170 (201)
                      +||+++|+++|..|+++|+.+.|++-+. +|.-|
T Consensus         1 PCyE~kfa~~C~~Ckk~It~GGvtY~dqpWHkeC   34 (35)
T d2cuqa2           1 PCYENKFAPRCARCSKTLTQGGVTYRDQPWHREC   34 (35)
T ss_dssp             CCCCCCSSCCCTTTCCCCCSCCEESSSSEECTTT
T ss_pred             CchHHHHHHHHhhcCCccccCceeecCCcchhhh
Confidence            4799999999999999999999998875 45444

>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=97.62  E-value=9.5e-06  Score=46.04  Aligned_cols=26  Identities=27%  Similarity=0.439  Sum_probs=25.2

Q ss_pred             cCCCCCeeeecceEEeCCCcccCCCc
Q psy2231          44 AINLPNSMYLAERKTSLGKDWHGSCL   69 (201)
Q Consensus        44 cc~C~~~i~~~~~v~a~g~~wH~~CF   69 (201)
                      |..|++.|++.|.+.|.|+.||+.||
T Consensus        11 C~~C~K~VY~~Erl~a~g~~yHk~CF   36 (36)
T d2co8a2          11 CALCGEHLYVLERLCVNGHFFHRSCF   36 (36)
T ss_dssp             CSSSCCBCCTTTBCCBTTBCCBTTTC
T ss_pred             ccccCCEEeeeeEEEecCcEeccccC
Confidence            88899999999999999999999998

>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=97.62  E-value=8.5e-06  Score=48.27  Aligned_cols=28  Identities=18%  Similarity=0.195  Sum_probs=23.8

Q ss_pred             CcccCcccceeeeeceeeccCCCcccCCCc
Q psy2231          11 NSRGAGLQQYAMILDLLLSSSGRRYVLQHH   40 (201)
Q Consensus        11 ~~~~~~~~~~~~~~~~~~~a~g~~~h~~cf   40 (201)
                      .|.+.+...  .|.|+.+.|+|+.||||+|
T Consensus        18 ~P~C~~C~~--pI~g~~vtAlgk~WHPEhF   45 (45)
T d2dara2          18 TPMCAHCNQ--VIRGPFLVALGKSWHPEEF   45 (45)
T ss_dssp             CCBBSSSCC--BCCSCEEEETTEEECTTTC
T ss_pred             CeeccccCC--cccCceeeecCCccCcCCC
Confidence            455667765  7899999999999999998

>d1wyha1 g.39.1.3 (A:35-66) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.61  E-value=8.5e-06  Score=44.40  Aligned_cols=32  Identities=34%  Similarity=0.850  Sum_probs=29.5

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccC
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFS  102 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~  102 (201)
                      .|..|++|+..+.|+.+++..|| .+||+++|+
T Consensus         1 ~C~~C~qPIGtkSFip~~~~~yC-vpCYE~kfA   32 (32)
T d1wyha1           1 LCSGCEQPLGSRSFVPDKGAHYC-VPCYENKFA   32 (32)
T ss_dssp             BCTTTCCBTTTSCEEEETTEEEE-HHHHHHHTS
T ss_pred             CcccccCcccccccccCCCcEEE-EeccccccC
Confidence            48899999999999999999999 799999875

>d1v6ga1 g.39.1.3 (A:1-41) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.59  E-value=1.9e-05  Score=45.82  Aligned_cols=34  Identities=15%  Similarity=0.298  Sum_probs=29.9

Q ss_pred             hhhhhhhcCCCCCCCCCcccCcceeecce-eeccc
Q psy2231         137 RSDCLSMYGGKGNTSHTMIPDTYITQVTI-VIARC  170 (201)
Q Consensus       137 ~~~y~~~~~~~C~~C~~~I~~~~i~a~~~-~~~~c  170 (201)
                      ..||.++|+.+|..|++.|++++|.|++. +|..|
T Consensus         7 ~~DYq~~fG~~C~~C~~~ItG~V~~Ag~~~yHP~C   41 (41)
T d1v6ga1           7 GLDYQRLYGTRCFSCDQFIEGEVVSALGKTYHPDC   41 (41)
T ss_dssp             CSCGGGSCCCBCTTTCCBCCSCCEEETTEEECTTT
T ss_pred             cccHHHHhCcccccccCEeeeeeeEecCcccCCCC
Confidence            35899999999999999999999999985 66655

>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=97.56  E-value=1.2e-05  Score=43.60  Aligned_cols=27  Identities=15%  Similarity=0.256  Sum_probs=23.9

Q ss_pred             ccCCCCCeeeecceEEeCCCcccCCCc
Q psy2231          43 NAINLPNSMYLAERKTSLGKDWHGSCL   69 (201)
Q Consensus        43 ~cc~C~~~i~~~~~v~a~g~~wH~~CF   69 (201)
                      .|++|+++|.+.-.+.++++.||..|.
T Consensus         4 ~CaGC~~~I~DRflL~v~dr~WH~~CL   30 (30)
T d1rutx1           4 RCAGCGGKIADRFLLYAMDSYWHSRCL   30 (30)
T ss_dssp             BBTTTCCBCCCSEEEEETTEEECGGGC
T ss_pred             ccCCCCCccchhhhhccchhhhhhhhC
Confidence            389999999777789999999999884

>d1imla2 g.39.1.3 (A:29-76) Cysteine-rich (intestinal) protein, CRP, CRIP {Rat (Rattus rattus) [TaxId: 10117]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Rat (Rattus rattus) [TaxId: 10117]

Probab=97.53  E-value=3.6e-05  Score=46.09  Aligned_cols=37  Identities=19%  Similarity=0.169  Sum_probs=33.0

Q ss_pred             eeCCCCccccCCcEEEeCCeeeeccCCc-hhhhhhhcCCCCCC
Q psy2231         109 GCLSSVCSILSQTFYSLSVDLYHASMHL-RSDCLSMYGGKGNT  150 (201)
Q Consensus       109 ~C~~C~~~l~~~~f~~~~g~~yH~~~~C-~~~y~~~~~~~C~~  150 (201)
                      .|..|++.|.+....+.||+||     | .+||.++|+|+=.+
T Consensus         1 kC~~C~K~L~sg~~aeHdg~pY-----C~k~CY~~~FGPkG~g   38 (48)
T d1imla2           1 KCEKCGKTLTSGGHAEHEGKPY-----CNHPCYSAMFGPKGFG   38 (48)
T ss_dssp             BCTTTCCBCCTTTEEEETTEEE-----ETTTHHHHHSSCCCSS
T ss_pred             CchhcCcCcCCCChhhcCCccc-----ccccchhhccCCCccc
Confidence            4789999999999999999999     9 77999999997443

>d2dara1 g.39.1.3 (A:53-84) PDZ and LIM domain protein 5, Enigma {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 5, Enigma
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.45  E-value=5.2e-05  Score=41.20  Aligned_cols=32  Identities=13%  Similarity=0.150  Sum_probs=29.2

Q ss_pred             eeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcC
Q psy2231         109 GCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYG  145 (201)
Q Consensus       109 ~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~  145 (201)
                      .|+.|+.+|....|++..|.+|     |+.||++.||
T Consensus         1 nCa~C~~sL~d~gFVEE~g~lY-----Ce~Cye~ffA   32 (32)
T d2dara1           1 NCAHCKNTMAYIGFVEEKGALY-----CELCYEKFFA   32 (32)
T ss_dssp             BCSSSCCBCSSSCBEESSSCEE-----CHHHHHHHTS
T ss_pred             CcccccccHhhcceeeecCcEe-----HHHHHHHhcC
Confidence            4889999999999999999999     9999998765

>d2cuqa2 g.39.1.3 (A:8-42) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains 3, FHL3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.44  E-value=4.2e-05  Score=42.57  Aligned_cols=32  Identities=16%  Similarity=0.344  Sum_probs=25.9

Q ss_pred             CCCcccccCCCCCeeeecceEEeCCCcccCCCc
Q psy2231          37 LQHHTSNAINLPNSMYLAERKTSLGKDWHGSCL   69 (201)
Q Consensus        37 ~~cf~C~cc~C~~~i~~~~~v~a~g~~wH~~CF   69 (201)
                      .+-|.-.|..|++.| ....|+..++.||.+||
T Consensus         4 E~kfa~~C~~Ckk~I-t~GGvtY~dqpWHkeCF   35 (35)
T d2cuqa2           4 ENKFAPRCARCSKTL-TQGGVTYRDQPWHRECL   35 (35)
T ss_dssp             CCCSSCCCTTTCCCC-CSCCEESSSSEECTTTC
T ss_pred             HHHHHHHHhhcCCcc-ccCceeecCCcchhhhC
Confidence            345666799999996 45558999999999998

>d2dara1 g.39.1.3 (A:53-84) PDZ and LIM domain protein 5, Enigma {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 5, Enigma
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.42  E-value=1.7e-05  Score=43.18  Aligned_cols=32  Identities=31%  Similarity=0.819  Sum_probs=28.7

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccC
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFS  102 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~  102 (201)
                      .|+.|+.+|.+..|.+.+|.+||| .||.+.|+
T Consensus         1 nCa~C~~sL~d~gFVEE~g~lYCe-~Cye~ffA   32 (32)
T d2dara1           1 NCAHCKNTMAYIGFVEEKGALYCE-LCYEKFFA   32 (32)
T ss_dssp             BCSSSCCBCSSSCBEESSSCEECH-HHHHHHTS
T ss_pred             CcccccccHhhcceeeecCcEeHH-HHHHHhcC
Confidence            488999999999999999999996 99988663

>d1u5sb1 g.39.1.3 (B:72-102) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.41  E-value=1.2e-05  Score=43.60  Aligned_cols=26  Identities=12%  Similarity=-0.082  Sum_probs=23.0

Q ss_pred             hhcCCCCCCCCCcccCcceeecceee
Q psy2231         142 SMYGGKGNTSHTMIPDTYITQVTIVI  167 (201)
Q Consensus       142 ~~~~~~C~~C~~~I~~~~i~a~~~~~  167 (201)
                      +++.++|+.|++||.++.|+||++.+
T Consensus         2 kmg~p~C~~C~~PI~~~~vtAlgk~W   27 (31)
T d1u5sb1           2 SMGVPICGACRRPIEGRVVNAMGKQW   27 (31)
T ss_dssp             CCCCCEETTTTEECCSCEECCTTSBE
T ss_pred             CcCCcchhhcCCchhhhHhhhhcccc
Confidence            46789999999999999999999743

>d2d8ya2 g.39.1.3 (A:44-85) Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Eplin, LIMA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.38  E-value=3.2e-05  Score=45.27  Aligned_cols=34  Identities=18%  Similarity=0.271  Sum_probs=31.5

Q ss_pred             eeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCC
Q psy2231         109 GCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGK  147 (201)
Q Consensus       109 ~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~  147 (201)
                      +|..|++.|..+.|.+.+|++|     |.+||..+|+++
T Consensus         1 rC~~C~~~Ls~~~yas~~G~lY-----CkpHf~qLF~~k   34 (42)
T d2d8ya2           1 RCSYCNNKLSLGTYASLHGRIY-----CKPHFNQLFKSK   34 (42)
T ss_dssp             BCTTTCCBCCTTTCCCSSSCCC-----CHHHHHHHSCCC
T ss_pred             CcCcCCCCccCCcchhhCCEec-----cHHHHHHHHHhh
Confidence            4899999999999999999999     999999999876

>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=97.32  E-value=4.1e-05  Score=39.65  Aligned_cols=26  Identities=19%  Similarity=0.443  Sum_probs=22.4

Q ss_pred             cCCCCCeeeecce-EEeCCCcccCCCc
Q psy2231          44 AINLPNSMYLAER-KTSLGKDWHGSCL   69 (201)
Q Consensus        44 cc~C~~~i~~~~~-v~a~g~~wH~~CF   69 (201)
                      |-.|.+.|++|.. +...|+.||..||
T Consensus         1 C~~C~ktiMPGsrKmey~G~sWHE~CF   27 (27)
T d1wyha2           1 CSACGETVMPGSRKLEYGGQTWHEHCF   27 (27)
T ss_dssp             CSSSCCBCCSSSCEECSTTCCEETTTC
T ss_pred             CccccceecCCcccccccCcccccccC
Confidence            4579999998865 8899999999998

>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=97.31  E-value=4.6e-05  Score=39.52  Aligned_cols=26  Identities=19%  Similarity=0.525  Sum_probs=22.5

Q ss_pred             cCCCCCeeeecce-EEeCCCcccCCCc
Q psy2231          44 AINLPNSMYLAER-KTSLGKDWHGSCL   69 (201)
Q Consensus        44 cc~C~~~i~~~~~-v~a~g~~wH~~CF   69 (201)
                      |-.|.++|++|.. +...|..||..||
T Consensus         1 C~~C~ktiMPGsrKme~kG~~WHEtCF   27 (27)
T d1x4ka2           1 CQECKKTIMPGTRKMEYKGSSWHETCF   27 (27)
T ss_dssp             BSSSCCCCCSSSCEEEETTEEEETTTT
T ss_pred             CccccccccCCceeecccCCccccccC
Confidence            4579999998865 8999999999998

>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=97.28  E-value=4e-05  Score=41.20  Aligned_cols=29  Identities=28%  Similarity=0.699  Sum_probs=26.4

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCcccc
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSA   99 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~   99 (201)
                      +|..|+..|.+++||..+.+.||| +||..
T Consensus         1 vC~tC~~kLRGqpFYAvekkayCE-~CYi~   29 (32)
T d1x61a2           1 VCSTCRAQLRGQHFYAVERRAYCE-GCYVA   29 (32)
T ss_dssp             BCSSSCCBCTTSCEEESSSCEEEH-HHHHH
T ss_pred             CeeEeCceecCCcceEeecccccc-ceeee
Confidence            588999999999999999999997 99864

>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=97.25  E-value=3.4e-05  Score=41.57  Aligned_cols=31  Identities=32%  Similarity=0.774  Sum_probs=28.4

Q ss_pred             cCCCCCcCCCCceeeeCCeeeecCCccccccC
Q psy2231          71 CENCNKTLVPGSHSEHDGKPYCNYPCYSALFS  102 (201)
Q Consensus        71 C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~  102 (201)
                      |..|++.|++.+...+++++|| +.||.++|+
T Consensus         2 C~~C~K~LdStTva~h~~eiYC-KsCygkkyg   32 (32)
T d1a7ia2           2 CMVCRKNLDSTTVAIHDAEVYC-KSCYGKKYG   32 (32)
T ss_dssp             CSSSCCEECSSCCEEETTEEEC-SHHHHHHCC
T ss_pred             chhhhhccCcceeeeecceEEe-hhhccccCC
Confidence            7889999999999999999999 899988764

>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=97.17  E-value=0.00016  Score=38.68  Aligned_cols=29  Identities=14%  Similarity=0.214  Sum_probs=26.7

Q ss_pred             eeCCCCccccCCcEEEeCCeeeeccCCchhhhhh
Q psy2231         109 GCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLS  142 (201)
Q Consensus       109 ~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~  142 (201)
                      .|.+|+++|.|+.|...+.+.|     |.+||..
T Consensus         1 vC~~C~K~Lag~rFTa~eDq~y-----CVdCYK~   29 (31)
T d2cura1           1 VCVTCSKKLAGQRFTAVEDQYY-----CVDCYKN   29 (31)
T ss_dssp             BCTTTCCBCTTSCEEECSSCEE-----EHHHHHH
T ss_pred             CcccccchhcCceeEEecceEE-----Eeeeecc
Confidence            4899999999999999999999     9999974

>d1ibia2 g.39.1.3 (A:145-175) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]

Probab=97.16  E-value=0.00019  Score=38.06  Aligned_cols=30  Identities=17%  Similarity=0.196  Sum_probs=28.0

Q ss_pred             eeeCCCCccccCCcEEEeCCeeeeccCCchhhhhh
Q psy2231         108 LGCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLS  142 (201)
Q Consensus       108 F~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~  142 (201)
                      |+|+.|++.|.......+||.+|     |..||.+
T Consensus         1 frca~cgk~lestt~adkdgeiy-----ck~cyak   30 (31)
T d1ibia2           1 FRCAKCGKSLESTTLTEKEGEIY-----CKGCYAK   30 (31)
T ss_dssp             EECSSSCCEECSSCSEEETTEEE-----CHHHHHH
T ss_pred             CccccccCccccceeeccCCcEE-----Eeeeeec
Confidence            78999999999999999999999     9999965

>d1b8ta2 g.39.1.3 (A:36-100) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=97.15  E-value=0.00018  Score=45.83  Aligned_cols=37  Identities=24%  Similarity=0.281  Sum_probs=33.5

Q ss_pred             eeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcCCCCCC
Q psy2231         109 GCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYGGKGNT  150 (201)
Q Consensus       109 ~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~~~C~~  150 (201)
                      .|..|++.|.+...-+.++++|     |+.||.++|+++=.+
T Consensus         1 ~C~~C~K~LdS~~~~eh~~e~Y-----Ck~CY~k~fGPkG~G   37 (65)
T d1b8ta2           1 LCMVCKKNLDSTTVAVHGDEIY-----CKSCYGKKYGPKGKG   37 (65)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEE-----EHHHHHHHHSCCCCC
T ss_pred             CchhcCCccCCCccccCCCccc-----chhhhccccCCCccc
Confidence            3889999999999999999999     999999999987544

>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=97.13  E-value=8.7e-05  Score=39.29  Aligned_cols=26  Identities=15%  Similarity=0.390  Sum_probs=21.0

Q ss_pred             cCCCCCeeee---cceEEeCCCcccCCCc
Q psy2231          44 AINLPNSMYL---AERKTSLGKDWHGSCL   69 (201)
Q Consensus        44 cc~C~~~i~~---~~~v~a~g~~wH~~CF   69 (201)
                      |.+|.++|..   +.+|.+.++.||.+||
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            5679999742   3569999999999998

>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=97.07  E-value=8.3e-05  Score=39.81  Aligned_cols=29  Identities=28%  Similarity=0.716  Sum_probs=26.4

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCcccc
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSA   99 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~   99 (201)
                      +|..|+++|++..|...+++.|| .+||..
T Consensus         1 vC~~C~K~Lag~rFTa~eDq~yC-VdCYK~   29 (31)
T d2cura1           1 VCVTCSKKLAGQRFTAVEDQYYC-VDCYKN   29 (31)
T ss_dssp             BCTTTCCBCTTSCEEECSSCEEE-HHHHHH
T ss_pred             CcccccchhcCceeEEecceEEE-eeeecc
Confidence            58999999999999999999999 699854

>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=97.03  E-value=0.00027  Score=38.43  Aligned_cols=32  Identities=6%  Similarity=0.125  Sum_probs=28.3

Q ss_pred             eeCCCCccccCCcEEEeCCeeeeccCCchh-hhhhhcC
Q psy2231         109 GCLSSVCSILSQTFYSLSVDLYHASMHLRS-DCLSMYG  145 (201)
Q Consensus       109 ~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~-~y~~~~~  145 (201)
                      .|..|++.|.++...+.||+||     |.. ||..+|+
T Consensus         1 kCekC~ktL~~G~HaEH~gkPY-----C~~PCY~aLFG   33 (33)
T d2cu8a2           1 KCERCSKTLTPGGHAEHDGKPF-----CHKPCYATLFG   33 (33)
T ss_dssp             BCSSSCCBCCTTSCEEETTEEE-----CTTTHHHHHSC
T ss_pred             CchhcccccCCCCccccCCCcC-----cCcchHHhhcC
Confidence            4789999999999999999999     876 9988875

>d2dloa2 g.39.1.3 (A:43-75) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.98  E-value=0.00022  Score=39.16  Aligned_cols=32  Identities=9%  Similarity=0.128  Sum_probs=27.5

Q ss_pred             eeCCCCccccCCcEEE-eCCeeeeccCCchhhhhhhcC
Q psy2231         109 GCLSSVCSILSQTFYS-LSVDLYHASMHLRSDCLSMYG  145 (201)
Q Consensus       109 ~C~~C~~~l~~~~f~~-~~g~~yH~~~~C~~~y~~~~~  145 (201)
                      +|..|++.|.|.+|.. .++++|     |.+||+++||
T Consensus         1 tCvvC~~~LDGvPFtvD~~n~i~-----Cv~DyHrkfA   33 (33)
T d2dloa2           1 TCVVCHRGLDGIPFTVDATSQIH-----CIEDFHRKFA   33 (33)
T ss_dssp             BCSSSCCBCTTSCEECCTTCCCE-----EHHHHHHHTT
T ss_pred             CeeEcCcccCCCcEEEcCCCCEe-----ehhhhhhhcC
Confidence            4889999999999874 667777     9999999986

>d1a7ia1 g.39.1.3 (A:8-35) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]

Probab=96.98  E-value=0.00017  Score=37.39  Aligned_cols=27  Identities=22%  Similarity=0.439  Sum_probs=24.9

Q ss_pred             ccCCCCCeeeecceEEeCCCcccCCCc
Q psy2231          43 NAINLPNSMYLAERKTSLGKDWHGSCL   69 (201)
Q Consensus        43 ~cc~C~~~i~~~~~v~a~g~~wH~~CF   69 (201)
                      .|..|.+.++.+|.|...|+.||+.||
T Consensus         2 kcg~c~ktvy~aeevqc~grsfhk~cf   28 (28)
T d1a7ia1           2 KCGACGRTVYHAEEVQCDGRSFHRCCF   28 (28)
T ss_dssp             BCSSSCCBCSSTTEEEETTEEEESSSE
T ss_pred             ccccccceEeeeeeeeecCceeccccC
Confidence            377899999999999999999999998

>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=96.96  E-value=0.0002  Score=39.02  Aligned_cols=26  Identities=27%  Similarity=0.498  Sum_probs=24.8

Q ss_pred             cCCCCCeeeecceEEeCCCcccCCCc
Q psy2231          44 AINLPNSMYLAERKTSLGKDWHGSCL   69 (201)
Q Consensus        44 cc~C~~~i~~~~~v~a~g~~wH~~CF   69 (201)
                      |..|.+.++.+|.|...|+.||+.||
T Consensus        10 cg~c~ktvy~aeevqc~g~sfhk~cf   35 (35)
T d1b8ta1          10 CGVCQKAVYFAEEVQCEGSSFHKSCF   35 (35)
T ss_dssp             CTTTCCEECSSCCEEETTEEECTTTC
T ss_pred             eccccceEeeeeeeeecCcccccccC
Confidence            78899999999999999999999998

>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=96.90  E-value=0.00016  Score=41.10  Aligned_cols=34  Identities=12%  Similarity=0.008  Sum_probs=27.1

Q ss_pred             hhhhhhcCCCCCCCCCccc--Ccceeecce-eecccc
Q psy2231         138 SDCLSMYGGKGNTSHTMIP--DTYITQVTI-VIARCL  171 (201)
Q Consensus       138 ~~y~~~~~~~C~~C~~~I~--~~~i~a~~~-~~~~c~  171 (201)
                      +||.+.|+++|.+|.+||.  ++.|++++. +|..|+
T Consensus         1 kCy~~~~a~~C~~C~k~I~~G~k~veykg~~WHe~CF   37 (37)
T d1x63a1           1 KCTTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCF   37 (37)
T ss_dssp             CCCSCCCSCBCSSSCCBCCSSSCEEECSSCEEETTTC
T ss_pred             CccccccCcccccCCCccCCCCeEeEeCCccchhccC
Confidence            3688899999999999997  467888886 566553

>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=96.90  E-value=0.00024  Score=37.10  Aligned_cols=25  Identities=36%  Similarity=0.729  Sum_probs=23.3

Q ss_pred             cCCCCCeeeecceEEeCCCcccCCC
Q psy2231          44 AINLPNSMYLAERKTSLGKDWHGSC   68 (201)
Q Consensus        44 cc~C~~~i~~~~~v~a~g~~wH~~C   68 (201)
                      |.+|++.++.+|.|.-.|+.||+.|
T Consensus         4 CpRC~~~VyaAEkviGaG~~WHk~C   28 (28)
T d1ibia1           4 CSRCGDSVYAAEKVIGAGKPWHKNC   28 (28)
T ss_dssp             CTTTSSEESSSSCEESSSSEECSSC
T ss_pred             CcccchhHHHHHHHhcCCCccccCC
Confidence            7899999999999998999999987

>d1x61a2 g.39.1.3 (A:35-66) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.82  E-value=0.00045  Score=36.96  Aligned_cols=29  Identities=17%  Similarity=0.352  Sum_probs=26.5

Q ss_pred             eeCCCCccccCCcEEEeCCeeeeccCCchhhhhh
Q psy2231         109 GCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLS  142 (201)
Q Consensus       109 ~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~  142 (201)
                      .|.+|+..|.|+.|+..+.+.|     |++||..
T Consensus         1 vC~tC~~kLRGqpFYAvekkay-----CE~CYi~   29 (32)
T d1x61a2           1 VCSTCRAQLRGQHFYAVERRAY-----CEGCYVA   29 (32)
T ss_dssp             BCSSSCCBCTTSCEEESSSCEE-----EHHHHHH
T ss_pred             CeeEeCceecCCcceEeecccc-----ccceeee
Confidence            4789999999999999999999     9999964

>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=96.79  E-value=0.00043  Score=38.51  Aligned_cols=28  Identities=18%  Similarity=0.116  Sum_probs=24.3

Q ss_pred             cCCCCCCCCCcccCcceeecce-eecccc
Q psy2231         144 YGGKGNTSHTMIPDTYITQVTI-VIARCL  171 (201)
Q Consensus       144 ~~~~C~~C~~~I~~~~i~a~~~-~~~~c~  171 (201)
                      -..+|..|+++|+++.+.|+|. +|..|+
T Consensus         7 tlEkC~~C~~~I~driLrA~Gk~yHP~CF   35 (35)
T d2dloa1           7 TLEKCATCSQPILDRILRAMGKAYHPGCF   35 (35)
T ss_dssp             SCCBCTTTCCBCCSCCEEETTEEECTTTC
T ss_pred             HHHHHHHhchHHHHHHHHHhCCCCCCCCC
Confidence            3468999999999999999996 688774

>d2dloa2 g.39.1.3 (A:43-75) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.77  E-value=0.00017  Score=39.65  Aligned_cols=32  Identities=16%  Similarity=0.327  Sum_probs=27.4

Q ss_pred             ccCCCCCcCCCCceeee-CCeeeecCCccccccC
Q psy2231          70 RCENCNKTLVPGSHSEH-DGKPYCNYPCYSALFS  102 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~-~g~~yCe~~cy~~~~~  102 (201)
                      .|..|++.|++-+|... ++++|| .+||+++|+
T Consensus         1 tCvvC~~~LDGvPFtvD~~n~i~C-v~DyHrkfA   33 (33)
T d2dloa2           1 TCVVCHRGLDGIPFTVDATSQIHC-IEDFHRKFA   33 (33)
T ss_dssp             BCSSSCCBCTTSCEECCTTCCCEE-HHHHHHHTT
T ss_pred             CeeEcCcccCCCcEEEcCCCCEee-hhhhhhhcC
Confidence            47889999999999865 679999 699999875

>d1x68a1 g.39.1.3 (A:8-36) Four and a half LIM domains protein 5, FHL-5 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 5, FHL-5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.62  E-value=0.0003  Score=37.11  Aligned_cols=26  Identities=15%  Similarity=0.365  Sum_probs=20.5

Q ss_pred             cCCCCCeeee---cceEEeCCCcccCCCc
Q psy2231          44 AINLPNSMYL---AERKTSLGKDWHGSCL   69 (201)
Q Consensus        44 cc~C~~~i~~---~~~v~a~g~~wH~~CF   69 (201)
                      |..|.|+|..   ..+|.+.++.||.+||
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            5578898642   2569999999999998

>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=96.60  E-value=0.00052  Score=37.76  Aligned_cols=35  Identities=20%  Similarity=0.303  Sum_probs=28.4

Q ss_pred             CCCCCCCCccCcccCcccceeeeeceeeccCCCcccCCC
Q psy2231           1 MSSSSSSSLVNSRGAGLQQYAMILDLLLSSSGRRYVLQH   39 (201)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~g~~~h~~c   39 (201)
                      ||.|=++..+.+.+.|+..    .+++|++.|+.||++|
T Consensus         1 m~~sL~~~~C~RC~~gF~p----~EkiVNSnGEl~H~qC   35 (35)
T d1g47a1           1 MANALASATCERCKGGFAP----AEKIVNSNGELYHEQC   35 (35)
T ss_dssp             CCSCCCCCBCSSSCCBCCS----TTTCEEETTEEECTTT
T ss_pred             CchHHHHHHHHHHccCCCc----hHHhhcCCCccccccC
Confidence            6777888888888888886    5678888888888765

>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=96.48  E-value=0.00034  Score=36.50  Aligned_cols=23  Identities=26%  Similarity=0.238  Sum_probs=21.5

Q ss_pred             eeccccCcceeeeeeeCCcceEE
Q psy2231         166 VIARCLSSVYSIQLVKPSIRYRL  188 (201)
Q Consensus       166 ~~~~c~~~~~~~~~~~~~~~~~~  188 (201)
                      +|.||..+||++++|.+.++.|+
T Consensus         3 ~CpRC~~~VyaAEkviGaG~~WH   25 (28)
T d1ibia1           3 KCSRCGDSVYAAEKVIGAGKPWH   25 (28)
T ss_dssp             ECTTTSSEESSSSCEESSSSEEC
T ss_pred             cCcccchhHHHHHHHhcCCCccc
Confidence            68899999999999999999986

>d1x63a2 g.39.1.3 (A:45-76) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.40  E-value=0.00059  Score=36.14  Aligned_cols=32  Identities=28%  Similarity=0.678  Sum_probs=28.2

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccccC
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSALFS  102 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~~~  102 (201)
                      .|+.|++.+....|+.+....|| ..|++.+|+
T Consensus         1 tcs~ckq~igsgsffpkg~d~yc-vtche~kfa   32 (32)
T d1x63a2           1 TCSNCKQVIGTGSFFPKGEDFYC-VTCHETKFA   32 (32)
T ss_dssp             CCSSSCCCCTTSCEEEETTEEEE-HHHHHHHTS
T ss_pred             CcchhhhhcccccccCCCCcEEE-EEeeccccC
Confidence            48999999999999999999999 699887763

>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=96.23  E-value=0.0009  Score=36.23  Aligned_cols=28  Identities=18%  Similarity=0.248  Sum_probs=23.9

Q ss_pred             cccCCCCCeeeecce-EEeCCCcccCCCc
Q psy2231          42 SNAINLPNSMYLAER-KTSLGKDWHGSCL   69 (201)
Q Consensus        42 C~cc~C~~~i~~~~~-v~a~g~~wH~~CF   69 (201)
                      ..|.+|++.|.+.|. +.|.++.||..||
T Consensus         3 g~Ca~C~~~I~~~e~VmRA~~~VyHl~CF   31 (31)
T d1rutx3           3 GACSACGQSIPASELVMRAQGNVYHLKCF   31 (31)
T ss_dssp             EECTTTCCEECTTSEEEEETTEEECGGGC
T ss_pred             cccccccCcCChhHhheecccceeeeccC
Confidence            358999999877776 6799999999998

>d1x63a2 g.39.1.3 (A:45-76) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 1, FHL-1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.09  E-value=0.0032  Score=33.17  Aligned_cols=32  Identities=16%  Similarity=0.268  Sum_probs=29.0

Q ss_pred             eeCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcC
Q psy2231         109 GCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYG  145 (201)
Q Consensus       109 ~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~  145 (201)
                      +|+.|++.|+.+.|+.+....|     |..|.+.+|+
T Consensus         1 tcs~ckq~igsgsffpkg~d~y-----cvtche~kfa   32 (32)
T d1x63a2           1 TCSNCKQVIGTGSFFPKGEDFY-----CVTCHETKFA   32 (32)
T ss_dssp             CCSSSCCCCTTSCEEEETTEEE-----EHHHHHHHTS
T ss_pred             CcchhhhhcccccccCCCCcEE-----EEEeeccccC
Confidence            4899999999999999999999     9999998875

>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=96.06  E-value=0.0016  Score=37.42  Aligned_cols=25  Identities=24%  Similarity=0.473  Sum_probs=20.1

Q ss_pred             ccCCCCCeeeecceEEeCCCcccCCC
Q psy2231          43 NAINLPNSMYLAERKTSLGKDWHGSC   68 (201)
Q Consensus        43 ~cc~C~~~i~~~~~v~a~g~~wH~~C   68 (201)
                      .|..|++-| .+++|.|.++.|||.|
T Consensus        17 ~C~~C~~~I-tG~V~~Ag~~~yHP~C   41 (41)
T d1v6ga1          17 RCFSCDQFI-EGEVVSALGKTYHPDC   41 (41)
T ss_dssp             BCTTTCCBC-CSCCEEETTEEECTTT
T ss_pred             ccccccCEe-eeeeeEecCcccCCCC
Confidence            477888874 7888888888888876

>d1x64a2 g.39.1.3 (A:53-83) PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 3, PDLIM3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.93  E-value=0.0024  Score=33.95  Aligned_cols=26  Identities=27%  Similarity=0.553  Sum_probs=23.5

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCc
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPC   96 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~c   96 (201)
                      +|++|+..|..+.++..++++||| .+
T Consensus         1 vC~dCg~NLKqrG~Ffv~~~lyCE-~H   26 (31)
T d1x64a2           1 VCADCNLNLKQKGYFFVEGELYCE-TH   26 (31)
T ss_dssp             CCSSSCCCTTTSCCEEETTEEECH-HH
T ss_pred             CccccccChhhcceEEeccEEeeh-hh
Confidence            589999999999999999999996 54

>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=95.70  E-value=0.0026  Score=32.57  Aligned_cols=26  Identities=12%  Similarity=0.383  Sum_probs=19.5

Q ss_pred             cCCCCCeeeec-ceEEeCCCcccCCCc
Q psy2231          44 AINLPNSMYLA-ERKTSLGKDWHGSCL   69 (201)
Q Consensus        44 cc~C~~~i~~~-~~v~a~g~~wH~~CF   69 (201)
                      |..|.++|-.+ ..+...++.||..||
T Consensus         1 c~ecrkpigad~ke~h~knr~wh~~cf   27 (27)
T d2cupa3           1 CVECRKPIGADSKEVHYKNRFWHDTCF   27 (27)
T ss_dssp             CSSSCCBCCSSSCEEEETTEEEETTTC
T ss_pred             CccccCCcCcchHHhhccccccccccC
Confidence            45688987332 237889999999998

>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=95.45  E-value=0.0039  Score=33.32  Aligned_cols=25  Identities=16%  Similarity=0.206  Sum_probs=18.8

Q ss_pred             CCCCCCCCcccCcce-eecce-eeccc
Q psy2231         146 GKGNTSHTMIPDTYI-TQVTI-VIARC  170 (201)
Q Consensus       146 ~~C~~C~~~I~~~~i-~a~~~-~~~~c  170 (201)
                      ..|++|+++|.++++ .+++. +|++|
T Consensus         4 ~~CaGC~~~I~DRflL~a~Dr~WH~~C   30 (30)
T d1j2oa1           4 LTCGGCQQNIGDRYFLKAIDQYWHEDC   30 (30)
T ss_dssp             BCBSSSCSCBCSSEEEECSSSEECTTT
T ss_pred             cccCCCCCcchHHHHHHHHHHHHhcCC
Confidence            469999999999974 57774 56655

>d1x61a1 g.39.1.3 (A:8-34) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.43  E-value=0.0041  Score=31.36  Aligned_cols=26  Identities=12%  Similarity=0.169  Sum_probs=20.7

Q ss_pred             cCCCCCeeeec-ceEEeCCCcccCCCc
Q psy2231          44 AINLPNSMYLA-ERKTSLGKDWHGSCL   69 (201)
Q Consensus        44 cc~C~~~i~~~-~~v~a~g~~wH~~CF   69 (201)
                      |.+|++.+..+ ..+.|+++.||..||
T Consensus         1 cggcgedvvgdgagvvaldrvfhvgcf   27 (27)
T d1x61a1           1 CGGCGEDVVGDGAGVVALDRVFHVGCF   27 (27)
T ss_dssp             CSSSCSCCCSSSCCEECSSSEECTTTC
T ss_pred             CCCcccccccCCcceEEEeeeEEeccC
Confidence            56899887533 348899999999998

>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=95.24  E-value=0.0057  Score=32.71  Aligned_cols=26  Identities=19%  Similarity=0.326  Sum_probs=20.0

Q ss_pred             CCCCCCCCcccCcce-eecce-eecccc
Q psy2231         146 GKGNTSHTMIPDTYI-TQVTI-VIARCL  171 (201)
Q Consensus       146 ~~C~~C~~~I~~~~i-~a~~~-~~~~c~  171 (201)
                      .+|++|+++|.|+++ .++|. +|.+|+
T Consensus         3 ~~CaGC~~~I~DRflL~v~dr~WH~~CL   30 (30)
T d1rutx1           3 KRCAGCGGKIADRFLLYAMDSYWHSRCL   30 (30)
T ss_dssp             CBBTTTCCBCCCSEEEEETTEEECGGGC
T ss_pred             cccCCCCCccchhhhhccchhhhhhhhC
Confidence            479999999999985 46664 677774

>d1a7ia2 g.39.1.3 (A:36-67) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Cysteine-rich (intestinal) protein, CRP, CRIP
species: Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]

Probab=95.21  E-value=0.0085  Score=31.91  Aligned_cols=31  Identities=23%  Similarity=0.308  Sum_probs=28.1

Q ss_pred             eCCCCccccCCcEEEeCCeeeeccCCchhhhhhhcC
Q psy2231         110 CLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSMYG  145 (201)
Q Consensus       110 C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~~~  145 (201)
                      |..|++.|.+....+.++.+|     |..||-++|+
T Consensus         2 C~~C~K~LdStTva~h~~eiY-----CKsCygkkyg   32 (32)
T d1a7ia2           2 CMVCRKNLDSTTVAIHDAEVY-----CKSCYGKKYG   32 (32)
T ss_dssp             CSSSCCEECSSCCEEETTEEE-----CSHHHHHHCC
T ss_pred             chhhhhccCcceeeeecceEE-----ehhhccccCC
Confidence            788999999999999999999     9999988774

>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=95.21  E-value=0.011  Score=34.20  Aligned_cols=25  Identities=12%  Similarity=0.173  Sum_probs=22.5

Q ss_pred             cCCCCCeeeecceEEeCCCcccCCCc
Q psy2231          44 AINLPNSMYLAERKTSLGKDWHGSCL   69 (201)
Q Consensus        44 cc~C~~~i~~~~~v~a~g~~wH~~CF   69 (201)
                      |-+|+.-| .|-.+.+.++.+|++||
T Consensus        21 CdkCg~GI-VG~~VK~rDK~rHPeCf   45 (45)
T d1x64a1          21 CDKCGSGI-VGAVVKARDKYRHPECF   45 (45)
T ss_dssp             CTTTCCBC-CSCCEESSSCEECTTTC
T ss_pred             ccccCCCc-EEEEEEeccccCCCCCC
Confidence            78899985 78889999999999998

>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=94.86  E-value=0.0074  Score=32.86  Aligned_cols=25  Identities=8%  Similarity=0.093  Sum_probs=21.7

Q ss_pred             cCCCCCeeeecceEEeCCCcccCCCc
Q psy2231          44 AINLPNSMYLAERKTSLGKDWHGSCL   69 (201)
Q Consensus        44 cc~C~~~i~~~~~v~a~g~~wH~~CF   69 (201)
                      |-+|+.-| .+..+.+.++.+||+||
T Consensus        11 CdkCg~GI-VG~~VK~rDk~rHPeCf   35 (35)
T d1x62a2          11 CDKCGTGI-VGVFVKLRDRHRHPECY   35 (35)
T ss_dssp             CSSSCCCC-CSSCEECSSCEECTTTT
T ss_pred             ccccCCCc-EeEEEEeccccCCCCCC
Confidence            77888885 68889999999999997

>d1x62a1 g.39.1.3 (A:43-73) PDZ and LIM domain protein 1 Elfin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 1 Elfin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.31  E-value=0.0028  Score=33.74  Aligned_cols=26  Identities=23%  Similarity=0.549  Sum_probs=23.2

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCc
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPC   96 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~c   96 (201)
                      .|++|+..|..+.++..++++||| .+
T Consensus         1 vC~dCg~NLKqrG~Ffve~~lyCE-~H   26 (31)
T d1x62a1           1 VCTDCGTNLKQKGHFFVEDQIYCE-KH   26 (31)
T ss_dssp             SCSSSCCCHHHHCCEESSSCEECH-HH
T ss_pred             CccccccChhhcceEEeccEEehh-hh
Confidence            589999999988999999999996 54

>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=94.18  E-value=0.018  Score=30.66  Aligned_cols=27  Identities=30%  Similarity=0.723  Sum_probs=21.7

Q ss_pred             ccCCCCCcCCCC-ceeeeCCeeeecCCcc
Q psy2231          70 RCENCNKTLVPG-SHSEHDGKPYCNYPCY   97 (201)
Q Consensus        70 ~C~~C~~~L~~~-~f~~~~g~~yCe~~cy   97 (201)
                      .|+.|...|.++ .|-..+|.+||| .|.
T Consensus         1 tC~tC~n~LVPGDRFHyvNG~lfCE-~D~   28 (33)
T d1rutx4           1 TCSTCRNRLVPGDRFHYINGSLFCE-HDR   28 (33)
T ss_dssp             BCTTTCCBCCTTCEEEEETTEEEEG-GGC
T ss_pred             CcccccccccCCceeEEecCEEEEe-cCC
Confidence            488899888766 788899999997 553

>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=94.03  E-value=0.018  Score=30.07  Aligned_cols=24  Identities=17%  Similarity=0.378  Sum_probs=18.6

Q ss_pred             eCCCCccccC---CcEEEeCCeeeecc
Q psy2231         110 CLSSVCSILS---QTFYSLSVDLYHAS  133 (201)
Q Consensus       110 C~~C~~~l~~---~~f~~~~g~~yH~~  133 (201)
                      |..|.+||.|   .+|+..+.+.||..
T Consensus         1 C~~C~kPItg~gg~kyisFE~R~WH~~   27 (29)
T d1x4la1           1 CAGCTNPISGLGGTKYISFEERQWHND   27 (29)
T ss_dssp             BTTTTBCCCCSSSCSCEECSSCEECTT
T ss_pred             CCccCCcccccCCceEEEeeccccccc
Confidence            6788888854   56888888889764

>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=93.97  E-value=0.0093  Score=32.77  Aligned_cols=28  Identities=14%  Similarity=0.140  Sum_probs=21.3

Q ss_pred             cccCcccceeeeeceeeccCCCcccCCCc
Q psy2231          12 SRGAGLQQYAMILDLLLSSSGRRYVLQHH   40 (201)
Q Consensus        12 ~~~~~~~~~~~~~~~~~~a~g~~~h~~cf   40 (201)
                      ..+.|..+. .-.|+.+.|++++||..||
T Consensus         9 ~~CagCg~e-ik~gQaL~ALdkqWH~~CF   36 (36)
T d2dj7a2           9 SHCAGCKEE-IKHGQSLLALDKQWHVSCF   36 (36)
T ss_dssp             SCCTTTCCC-CSSSCCEEETTEEECTTTC
T ss_pred             ccccccchh-hhCCceeeeeecceeeeeC
Confidence            344555543 3478999999999999998

>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=93.75  E-value=0.03  Score=29.15  Aligned_cols=24  Identities=17%  Similarity=0.408  Sum_probs=18.7

Q ss_pred             eCCCCccccC---CcEEEeCCeeeecc
Q psy2231         110 CLSSVCSILS---QTFYSLSVDLYHAS  133 (201)
Q Consensus       110 C~~C~~~l~~---~~f~~~~g~~yH~~  133 (201)
                      |..|.+||.|   .+|+..+.+.||+.
T Consensus         1 C~~C~kPItg~gG~k~isFedR~WH~~   27 (29)
T d1x68a1           1 CVACSKPISGLTGAKFICFQDSQWHSE   27 (29)
T ss_dssp             CTTTCCCCCTTTTCCEEEETTEEEEGG
T ss_pred             CccccccccccCCceEEEeehhhcccc
Confidence            6788888854   56999899999764

>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=93.75  E-value=0.027  Score=29.63  Aligned_cols=28  Identities=11%  Similarity=0.210  Sum_probs=24.0

Q ss_pred             eeCCCCccccCCcEEEeCCeeeeccCCchhhhh
Q psy2231         109 GCLSSVCSILSQTFYSLSVDLYHASMHLRSDCL  141 (201)
Q Consensus       109 ~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~  141 (201)
                      +|+.|-.||..+.|..+|++++     |..|-.
T Consensus         1 RCaKC~hpLA~E~F~aKd~kI~-----C~Kc~s   28 (31)
T d2cupa2           1 RCAKCLHPLANETFVAKDNKIL-----CNKCTT   28 (31)
T ss_dssp             CCSSSCCCTTSSCCEEETTEEE-----CHHHHT
T ss_pred             CchhhccccccCcccccCCeEe-----eccccc
Confidence            4788899999999999999999     887753

>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=93.57  E-value=0.033  Score=29.39  Aligned_cols=23  Identities=13%  Similarity=0.213  Sum_probs=15.0

Q ss_pred             CcccceeeeeceeeccCCCcccCCC
Q psy2231          15 AGLQQYAMILDLLLSSSGRRYVLQH   39 (201)
Q Consensus        15 ~~~~~~~~~~~~~~~a~g~~~h~~c   39 (201)
                      ++.++  .|+|+++.|.+++|||.|
T Consensus         9 ~~C~~--~ItGkVLEAG~khYHP~C   31 (32)
T d1wiga1           9 DSCEK--YITGRVLEAGEKHYHPSC   31 (32)
T ss_dssp             SSSCC--CCSSCCBCCSSCCBCTTT
T ss_pred             hhhhh--hhhhhhhhccccccCCCC
Confidence            34444  556777777777777754

>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=93.45  E-value=0.031  Score=29.39  Aligned_cols=27  Identities=33%  Similarity=0.736  Sum_probs=23.9

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCcc
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCY   97 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy   97 (201)
                      +|..|-.||...+|..+|++++|. .|.
T Consensus         1 RCaKC~hpLA~E~F~aKd~kI~C~-Kc~   27 (31)
T d2cupa2           1 RCAKCLHPLANETFVAKDNKILCN-KCT   27 (31)
T ss_dssp             CCSSSCCCTTSSCCEEETTEEECH-HHH
T ss_pred             CchhhccccccCcccccCCeEeec-ccc
Confidence            588999999999999999999995 654

>d1rutx4 g.39.1.3 (X:114-146) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.08  E-value=0.046  Score=29.01  Aligned_cols=28  Identities=14%  Similarity=0.257  Sum_probs=22.7

Q ss_pred             eeCCCCccccCC-cEEEeCCeeeeccCCchhhhh
Q psy2231         109 GCLSSVCSILSQ-TFYSLSVDLYHASMHLRSDCL  141 (201)
Q Consensus       109 ~C~~C~~~l~~~-~f~~~~g~~yH~~~~C~~~y~  141 (201)
                      +|++|...|.++ .|...+|++|     |+.|-.
T Consensus         1 tC~tC~n~LVPGDRFHyvNG~lf-----CE~D~p   29 (33)
T d1rutx4           1 TCSTCRNRLVPGDRFHYINGSLF-----CEHDRP   29 (33)
T ss_dssp             BCTTTCCBCCTTCEEEEETTEEE-----EGGGCC
T ss_pred             CcccccccccCCceeEEecCEEE-----EecCCc
Confidence            488998888654 6999999999     988753

>d1rutx2 g.39.1.3 (X:49-82) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.77  E-value=0.0076  Score=32.71  Aligned_cols=32  Identities=28%  Similarity=0.534  Sum_probs=26.5

Q ss_pred             ccCCCCCcCC--CCceeeeCCeeeecCCccccccC
Q psy2231          70 RCENCNKTLV--PGSHSEHDGKPYCNYPCYSALFS  102 (201)
Q Consensus        70 ~C~~C~~~L~--~~~f~~~~g~~yCe~~cy~~~~~  102 (201)
                      +|+-|+..|.  +...|.+.|.++| +.||.++|+
T Consensus         1 KCscC~~~LgeiG~s~ytk~~mILC-k~DY~rlFG   34 (34)
T d1rutx2           1 KCSSCQAQLGDIGTSSYTKSGMILC-RNDYIRLFG   34 (34)
T ss_dssp             BCTTTCCBHHHHCSEEEEETTEEEC-HHHHHHHHS
T ss_pred             CCcchhcChhhccchheecCCEEEE-chhHHHhcC
Confidence            4777888875  4578999999999 799999875

>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=92.32  E-value=0.03  Score=29.59  Aligned_cols=24  Identities=17%  Similarity=0.153  Sum_probs=21.2

Q ss_pred             cCCCCCeeeecceEEeCCCcccCCC
Q psy2231          44 AINLPNSMYLAERKTSLGKDWHGSC   68 (201)
Q Consensus        44 cc~C~~~i~~~~~v~a~g~~wH~~C   68 (201)
                      |..|.+- |.+.++.|.++.|||.|
T Consensus         8 C~~C~~~-ItGkVLEAG~khYHP~C   31 (32)
T d1wiga1           8 CDSCEKY-ITGRVLEAGEKHYHPSC   31 (32)
T ss_dssp             CSSSCCC-CSSCCBCCSSCCBCTTT
T ss_pred             hhhhhhh-hhhhhhhccccccCCCC
Confidence            6788887 58999999999999987

>d1rutx2 g.39.1.3 (X:49-82) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.09  E-value=0.07  Score=28.75  Aligned_cols=31  Identities=23%  Similarity=0.428  Sum_probs=25.8

Q ss_pred             eCCCCcccc--CCcEEEeCCeeeeccCCchhhhhhhcC
Q psy2231         110 CLSSVCSIL--SQTFYSLSVDLYHASMHLRSDCLSMYG  145 (201)
Q Consensus       110 C~~C~~~l~--~~~f~~~~g~~yH~~~~C~~~y~~~~~  145 (201)
                      |+.|+..|.  |...+.+.|.+.     |+.||.++|+
T Consensus         2 CscC~~~LgeiG~s~ytk~~mIL-----Ck~DY~rlFG   34 (34)
T d1rutx2           2 CSSCQAQLGDIGTSSYTKSGMIL-----CRNDYIRLFG   34 (34)
T ss_dssp             CTTTCCBHHHHCSEEEEETTEEE-----CHHHHHHHHS
T ss_pred             CcchhcChhhccchheecCCEEE-----EchhHHHhcC
Confidence            677777773  567888999999     9999999885

>d2d8xa1 g.39.1.3 (A:33-64) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.79  E-value=0.027  Score=29.89  Aligned_cols=29  Identities=28%  Similarity=0.744  Sum_probs=25.6

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCcccc
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSA   99 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~   99 (201)
                      +|..|+..|.+..|....|+.+| .+|..+
T Consensus         1 rC~~C~~~LAD~GFvKnagR~LC-rpch~r   29 (32)
T d2d8xa1           1 RCDLCQEVLADIGFVKNAGRHLC-RPCHNR   29 (32)
T ss_dssp             BCSSSCCBCSSSCCEEETTEEEC-HHHHHH
T ss_pred             CchHHHhHHHHhhhhhccccccc-chhhhh
Confidence            48899999999999999999999 588754

>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=91.52  E-value=0.11  Score=26.35  Aligned_cols=24  Identities=13%  Similarity=0.234  Sum_probs=18.6

Q ss_pred             eCCCCccccCC-cEEEeCCeeeecc
Q psy2231         110 CLSSVCSILSQ-TFYSLSVDLYHAS  133 (201)
Q Consensus       110 C~~C~~~l~~~-~f~~~~g~~yH~~  133 (201)
                      |..|++.|+++ .-.+..|..||+.
T Consensus         1 C~~C~ktiMPGsrKme~kG~~WHEt   25 (27)
T d1x4ka2           1 CQECKKTIMPGTRKMEYKGSSWHET   25 (27)
T ss_dssp             BSSSCCCCCSSSCEEEETTEEEETT
T ss_pred             CccccccccCCceeecccCCccccc
Confidence            67888888765 4678889999875

>d2cora1 g.39.1.3 (A:43-73) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.28  E-value=0.034  Score=29.19  Aligned_cols=29  Identities=38%  Similarity=0.933  Sum_probs=23.3

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCccccc
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCYSAL  100 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy~~~  100 (201)
                      .|+.|++.|.. .-.+..|++|| .+|+.++
T Consensus         1 nC~~Cgkelta-dArEl~geLyC-LpChdKm   29 (31)
T d2cora1           1 NCANCGKELTA-DARELKGELYC-LPCHDKM   29 (31)
T ss_dssp             BCSSSCCBCCT-TCEEETTEEEC-HHHHHTT
T ss_pred             Cccccccccch-hHHHhcCCEEE-Eeccccc
Confidence            48899999965 45688999999 6998764

>d1g47a1 g.39.1.3 (A:1-35) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Pinch (particularly interesting new Cys-His) protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.11  E-value=0.075  Score=28.82  Aligned_cols=25  Identities=24%  Similarity=0.340  Sum_probs=20.2

Q ss_pred             cCCCCCeeeecce-EEeCCCcccCCC
Q psy2231          44 AINLPNSMYLAER-KTSLGKDWHGSC   68 (201)
Q Consensus        44 cc~C~~~i~~~~~-v~a~g~~wH~~C   68 (201)
                      |.+|+..+.+.|. |...|..||+.|
T Consensus        10 C~RC~~gF~p~EkiVNSnGEl~H~qC   35 (35)
T d1g47a1          10 CERCKGGFAPAEKIVNSNGELYHEQC   35 (35)
T ss_dssp             CSSSCCBCCSTTTCEEETTEEECTTT
T ss_pred             HHHHccCCCchHHhhcCCCccccccC
Confidence            7888888777766 667899999887

>d2d8za1 g.39.1.3 (A:8-32) 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=89.95  E-value=0.1  Score=26.31  Aligned_cols=17  Identities=12%  Similarity=-0.095  Sum_probs=8.6

Q ss_pred             CCCCCCcccCcceeecc
Q psy2231         148 GNTSHTMIPDTYITQVT  164 (201)
Q Consensus       148 C~~C~~~I~~~~i~a~~  164 (201)
                      |.+|+++|+.+.|++-+
T Consensus         1 C~~C~K~ItsGGvtY~~   17 (26)
T d2d8za1           1 CVQCKKPITTGGVTYRE   17 (26)
T ss_dssp             CSSSCCBCCSSEEESSS
T ss_pred             CcccCcceecCceeecC
Confidence            44555555555554443

>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=89.92  E-value=0.2  Score=26.14  Aligned_cols=29  Identities=17%  Similarity=0.155  Sum_probs=24.2

Q ss_pred             eeCCCCccccCCcEEEeCCeeeeccCCchhhhhhh
Q psy2231         109 GCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLSM  143 (201)
Q Consensus       109 ~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~~  143 (201)
                      .|..|++.|... -.+.+|.+|     |.+|..++
T Consensus         1 nC~~Cgkeltad-ArEl~geLy-----CLpChdKm   29 (31)
T d2cora1           1 NCANCGKELTAD-ARELKGELY-----CLPCHDKM   29 (31)
T ss_dssp             BCSSSCCBCCTT-CEEETTEEE-----CHHHHHTT
T ss_pred             Cccccccccchh-HHHhcCCEE-----EEeccccc
Confidence            378999998764 478899999     99998875

>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=89.63  E-value=0.052  Score=29.35  Aligned_cols=30  Identities=7%  Similarity=0.128  Sum_probs=23.1

Q ss_pred             hhhhhcCCCCCCCCCcccCcceeecc-eeec
Q psy2231         139 DCLSMYGGKGNTSHTMIPDTYITQVT-IVIA  168 (201)
Q Consensus       139 ~y~~~~~~~C~~C~~~I~~~~i~a~~-~~~~  168 (201)
                      ||-.+|+..|.+|.+.|++-++.|-+ +++.
T Consensus         2 dYw~kfge~C~~C~~~itGpvMvAG~~K~HP   32 (34)
T d1x6aa1           2 DYWGKFGEFCHGCSLLMTGPFMVAGEFKYHP   32 (34)
T ss_dssp             CSSCCSSCBCTTTCCBCCSCCBCCTTCCBCT
T ss_pred             cHHHHHHHHhhhhHhhcccceeeecccccCC
Confidence            56678999999999999977776665 3444

>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=89.19  E-value=0.17  Score=27.28  Aligned_cols=28  Identities=11%  Similarity=0.208  Sum_probs=22.0

Q ss_pred             CCccCcccCcccceeeeeceeeccCCCcccCCCc
Q psy2231           7 SSLVNSRGAGLQQYAMILDLLLSSSGRRYVLQHH   40 (201)
Q Consensus         7 ~~~~~~~~~~~~~~~~~~~~~~~a~g~~~h~~cf   40 (201)
                      -|.+....+||-      |-++.+-++.+||+||
T Consensus         8 lp~CdkCg~GIV------G~~VK~rDk~rHPeCf   35 (35)
T d1x62a2           8 LPMCDKCGTGIV------GVFVKLRDRHRHPECY   35 (35)
T ss_dssp             CCCCSSSCCCCC------SSCEECSSCEECTTTT
T ss_pred             CccccccCCCcE------eEEEEeccccCCCCCC
Confidence            355666677764      7788999999999997

>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=89.04  E-value=0.055  Score=30.43  Aligned_cols=27  Identities=15%  Similarity=0.231  Sum_probs=19.9

Q ss_pred             cCCCCCeeeecceEEe-CCCcccCCCcc
Q psy2231          44 AINLPNSMYLAERKTS-LGKDWHGSCLR   70 (201)
Q Consensus        44 cc~C~~~i~~~~~v~a-~g~~wH~~CF~   70 (201)
                      |.+|++.+..||-+-. .+..|||.|-.
T Consensus         2 C~rC~~mF~EGEEMYLQGs~IWHP~C~~   29 (41)
T d1wiga2           2 CVRCGQMFAEGEEMYLQGSSIWHPACRQ   29 (41)
T ss_dssp             CSSSCCCCCSSCCCEEETTEEECTTHHH
T ss_pred             cchhhccccccceeeecCCceeCCcccc
Confidence            7789998877776554 45689998743

>d2cura2 g.39.1.3 (A:8-32) 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=88.02  E-value=0.21  Score=25.10  Aligned_cols=17  Identities=18%  Similarity=-0.009  Sum_probs=8.6

Q ss_pred             CCCCCCcccCcceeecc
Q psy2231         148 GNTSHTMIPDTYITQVT  164 (201)
Q Consensus       148 C~~C~~~I~~~~i~a~~  164 (201)
                      |.+|+++|+.+.|++-+
T Consensus         1 CvkC~k~ItsGGvtY~~   17 (26)
T d2cura2           1 CVKCNKAITSGGITYQD   17 (26)
T ss_dssp             CSSSCCCCCTTCEEETT
T ss_pred             CcccCceEecCceeecC
Confidence            34455555555555444

>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=87.95  E-value=0.092  Score=28.28  Aligned_cols=30  Identities=20%  Similarity=0.561  Sum_probs=23.1

Q ss_pred             cccCCCCCcCCCC-ceeeeCC-eeeecCCcccc
Q psy2231          69 LRCENCNKTLVPG-SHSEHDG-KPYCNYPCYSA   99 (201)
Q Consensus        69 F~C~~C~~~L~~~-~f~~~~g-~~yCe~~cy~~   99 (201)
                      |.|..|+.-+.+. .|...+. ++||. .||.+
T Consensus         1 F~C~~C~~fIgdgdsyaLVerskLYCG-~Cy~~   32 (34)
T d1x6aa2           1 FACMSCKVIIEDGDAYALVQHATLYCG-KCHNE   32 (34)
T ss_dssp             CBCTTTCCBCCTTSCEEECSSSCEEEH-HHHHH
T ss_pred             CcccccccEEecCceEEEEeeceeeee-cchhc
Confidence            7899999988776 6665554 89995 88764

>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=87.77  E-value=0.084  Score=27.89  Aligned_cols=23  Identities=17%  Similarity=0.150  Sum_probs=13.8

Q ss_pred             eeccccCcceeeeeeeCCcceEE
Q psy2231         166 VIARCLSSVYSIQLVKPSIRYRL  188 (201)
Q Consensus       166 ~~~~c~~~~~~~~~~~~~~~~~~  188 (201)
                      .|+||.+.||-++++.--++.|+
T Consensus         4 ~CprC~K~VYfaEk~~~lgk~WH   26 (30)
T d2cu8a1           4 KCPKCDKTVYFAEKVSSLGKDWH   26 (30)
T ss_dssp             BCTTTCCBCCTTTEEEETTEEEE
T ss_pred             cCCCCCCceeeHHhhccCCcccc
Confidence            45556666666666666665554

>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=87.02  E-value=0.18  Score=27.13  Aligned_cols=25  Identities=8%  Similarity=-0.043  Sum_probs=18.1

Q ss_pred             ccCCCCCeeeecceEEeCCCcccCCC
Q psy2231          43 NAINLPNSMYLAERKTSLGKDWHGSC   68 (201)
Q Consensus        43 ~cc~C~~~i~~~~~v~a~g~~wH~~C   68 (201)
                      .|-+|.+. +.|-.+.|.+..|||+|
T Consensus        10 ~C~~C~~~-itGpvMvAG~~K~HPEC   34 (34)
T d1x6aa1          10 FCHGCSLL-MTGPFMVAGEFKYHPEC   34 (34)
T ss_dssp             BCTTTCCB-CCSCCBCCTTCCBCTTS
T ss_pred             HhhhhHhh-cccceeeecccccCCCC
Confidence            36677774 56777777777888876

>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=86.76  E-value=0.39  Score=25.30  Aligned_cols=27  Identities=22%  Similarity=0.611  Sum_probs=22.9

Q ss_pred             ccCCCCCcCCCCceeeeCCeeeecCCcc
Q psy2231          70 RCENCNKTLVPGSHSEHDGKPYCNYPCY   97 (201)
Q Consensus        70 ~C~~C~~~L~~~~f~~~~g~~yCe~~cy   97 (201)
                      .|..|+-.|.++.|...+..++| .+|-
T Consensus         1 ncgkcsvslvg~gfltq~~~i~c-~~cg   27 (34)
T d1x68a2           1 NCGKCSVSLVGKGFLTQNKEIFC-QKCG   27 (34)
T ss_dssp             BCTTTCCBCSSSCEEEETTEEEE-TTTT
T ss_pred             CCccceEEEEeeeeeeccCcEEe-hhcC
Confidence            37788899999999999999999 5763

>d1x6aa2 g.39.1.3 (A:42-75) Lim domain kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Lim domain kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.75  E-value=0.27  Score=26.36  Aligned_cols=31  Identities=16%  Similarity=0.248  Sum_probs=22.2

Q ss_pred             eeeCCCCccccCCc-EEEeC-CeeeeccCCchhhhhhh
Q psy2231         108 LGCLSSVCSILSQT-FYSLS-VDLYHASMHLRSDCLSM  143 (201)
Q Consensus       108 F~C~~C~~~l~~~~-f~~~~-g~~yH~~~~C~~~y~~~  143 (201)
                      |.|..|+.-|+.++ |...+ .++|     |..||.+.
T Consensus         1 F~C~~C~~fIgdgdsyaLVerskLY-----CG~Cy~~~   33 (34)
T d1x6aa2           1 FACMSCKVIIEDGDAYALVQHATLY-----CGKCHNEV   33 (34)
T ss_dssp             CBCTTTCCBCCTTSCEEECSSSCEE-----EHHHHHHH
T ss_pred             CcccccccEEecCceEEEEeeceee-----eecchhcc
Confidence            67999999997665 44333 4556     99999764

>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=86.44  E-value=0.28  Score=28.01  Aligned_cols=18  Identities=6%  Similarity=0.085  Sum_probs=16.0

Q ss_pred             eeceeeccCCCcccCCCc
Q psy2231          23 ILDLLLSSSGRRYVLQHH   40 (201)
Q Consensus        23 ~~~~~~~a~g~~~h~~cf   40 (201)
                      |.|-++.+-++.+||+||
T Consensus        28 IVG~~VK~rDK~rHPeCf   45 (45)
T d1x64a1          28 IVGAVVKARDKYRHPECF   45 (45)
T ss_dssp             CCSCCEESSSCEECTTTC
T ss_pred             cEEEEEEeccccCCCCCC
Confidence            458889999999999998

>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=85.36  E-value=0.13  Score=27.52  Aligned_cols=25  Identities=16%  Similarity=0.008  Sum_probs=22.1

Q ss_pred             ceeeccccCcceeeeeeeCCcceEE
Q psy2231         164 TIVIARCLSSVYSIQLVKPSIRYRL  188 (201)
Q Consensus       164 ~~~~~~c~~~~~~~~~~~~~~~~~~  188 (201)
                      +..|+.|.++||+++-|+=++|+|+
T Consensus         7 g~kcg~c~ktvy~aeevqc~g~sfh   31 (35)
T d1b8ta1           7 GKKCGVCQKAVYFAEEVQCEGSSFH   31 (35)
T ss_dssp             CEECTTTCCEECSSCCEEETTEEEC
T ss_pred             CceeccccceEeeeeeeeecCcccc
Confidence            4568889999999999999999986

>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=84.90  E-value=0.32  Score=26.22  Aligned_cols=25  Identities=4%  Similarity=-0.089  Sum_probs=20.5

Q ss_pred             cCCCCCeeeecceEEeCCCcccCCCc
Q psy2231          44 AINLPNSMYLAERKTSLGKDWHGSCL   69 (201)
Q Consensus        44 cc~C~~~i~~~~~v~a~g~~wH~~CF   69 (201)
                      |-+|... |+.+.+.+.|..||+.+|
T Consensus        11 C~KCh~i-Idd~pL~Fr~d~YHp~HF   35 (35)
T d2cora2          11 CQKCHAI-IDEQPLIFKNDPYHPDHF   35 (35)
T ss_dssp             CTTTCCB-CCSCCCCCSSSCCCTTTS
T ss_pred             HHHHHhh-hhcCcceecCCCCCCCCC
Confidence            6677775 577788999999999987

>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=83.98  E-value=0.057  Score=30.04  Aligned_cols=21  Identities=5%  Similarity=0.009  Sum_probs=14.9

Q ss_pred             eeeCCCCccccCCcEEEeCCe
Q psy2231         108 LGCLSSVCSILSQTFYSLSVD  128 (201)
Q Consensus       108 F~C~~C~~~l~~~~f~~~~g~  128 (201)
                      |.|+.|++|+..++-+..+|+
T Consensus         1 FvC~vCr~pFP~GDRVTFnGK   21 (40)
T d1v6ga2           1 FVCAVCRLPFPPGDRVTFNGK   21 (40)
T ss_dssp             SSCSSSCCCCCSSSCEEEETT
T ss_pred             CcccccCCCCCCCCeEEEcCc
Confidence            678888888876665555665

>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=83.97  E-value=0.62  Score=24.39  Aligned_cols=29  Identities=10%  Similarity=-0.082  Sum_probs=25.6

Q ss_pred             eeCCCCccccCCcEEEeCCeeeeccCCchhhhhh
Q psy2231         109 GCLSSVCSILSQTFYSLSVDLYHASMHLRSDCLS  142 (201)
Q Consensus       109 ~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~y~~  142 (201)
                      .|..|+..|.+..|+-..|+..     |++|..+
T Consensus         1 rC~~C~~~LAD~GFvKnagR~L-----Crpch~r   29 (32)
T d2d8xa1           1 RCDLCQEVLADIGFVKNAGRHL-----CRPCHNR   29 (32)
T ss_dssp             BCSSSCCBCSSSCCEEETTEEE-----CHHHHHH
T ss_pred             CchHHHhHHHHhhhhhcccccc-----cchhhhh
Confidence            3788999999999999999999     9999764

>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=83.94  E-value=0.48  Score=25.78  Aligned_cols=26  Identities=12%  Similarity=0.225  Sum_probs=21.4

Q ss_pred             eeeCCCCccccCCcEEEeCCeeeecc
Q psy2231         108 LGCLSSVCSILSQTFYSLSVDLYHAS  133 (201)
Q Consensus       108 F~C~~C~~~l~~~~f~~~~g~~yH~~  133 (201)
                      -.|..|++.+-.-+-...||+.||-.
T Consensus         8 ~kC~~C~K~VY~~E~~~a~g~~~Hk~   33 (35)
T d2d8ya1           8 ETCVECQKTVYPMERLLANQQVFHIS   33 (35)
T ss_dssp             CBCTTTCCBCCTTSEEECSSSEEETT
T ss_pred             cccccCCCEEeeeeeEecCCeehhhc
Confidence            45789999988878888899999754

>d1v6ga2 g.39.1.3 (A:42-81) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.35  E-value=0.25  Score=27.35  Aligned_cols=29  Identities=24%  Similarity=0.653  Sum_probs=20.1

Q ss_pred             cccCCCCCcCCCCceeeeCC-eeeecCCccc
Q psy2231          69 LRCENCNKTLVPGSHSEHDG-KPYCNYPCYS   98 (201)
Q Consensus        69 F~C~~C~~~L~~~~f~~~~g-~~yCe~~cy~   98 (201)
                      |+|+.|++++....-...+| +..| +.|-+
T Consensus         1 FvC~vCr~pFP~GDRVTFnGKeC~C-Q~Cs~   30 (40)
T d1v6ga2           1 FVCAVCRLPFPPGDRVTFNGKECMC-QKCSL   30 (40)
T ss_dssp             SSCSSSCCCCCSSSCEEEETTEEEE-HHHHS
T ss_pred             CcccccCCCCCCCCeEEEcCceeeh-hhcCC
Confidence            78899999887775555555 5777 36643

>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=82.07  E-value=0.58  Score=24.59  Aligned_cols=26  Identities=12%  Similarity=0.359  Sum_probs=21.6

Q ss_pred             eeCCCCccccCCcEEEeCCeeeeccCCchhh
Q psy2231         109 GCLSSVCSILSQTFYSLSVDLYHASMHLRSD  139 (201)
Q Consensus       109 ~C~~C~~~l~~~~f~~~~g~~yH~~~~C~~~  139 (201)
                      .|..|.-+|.|+.|..++..++     |++|
T Consensus         1 ncgkcsvslvg~gfltq~~~i~-----c~~c   26 (34)
T d1x68a2           1 NCGKCSVSLVGKGFLTQNKEIF-----CQKC   26 (34)
T ss_dssp             BCTTTCCBCSSSCEEEETTEEE-----ETTT
T ss_pred             CCccceEEEEeeeeeeccCcEE-----ehhc
Confidence            3788889999999998888888     7665

>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=80.99  E-value=0.25  Score=25.02  Aligned_cols=22  Identities=23%  Similarity=0.181  Sum_probs=19.2

Q ss_pred             eccccCcceeeeeeeCCcceEE
Q psy2231         167 IARCLSSVYSIQLVKPSIRYRL  188 (201)
Q Consensus       167 ~~~c~~~~~~~~~~~~~~~~~~  188 (201)
                      |+-|.+.||+++-|+=++|+++
T Consensus         3 cg~c~ktvy~aeevqc~grsfh   24 (28)
T d1a7ia1           3 CGACGRTVYHAEEVQCDGRSFH   24 (28)
T ss_dssp             CSSSCCBCSSTTEEEETTEEEE
T ss_pred             cccccceEeeeeeeeecCceec
Confidence            4458889999999999999987