Psyllid ID: psy15692

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------28
Protein Sequence
MVRALRHGVEGMLESRLRSSSMYESIYEPINPRPPSDLSSRSNYSLYSSNIPPPEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTSTMVTEL
Secondary Structure (PSIPRED)
cHHHHcccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHccccccccccccccccccccccccccEEEccccccccccccccccccccccccEEEccEEcccccccccccccccccccHHccccccccccccccccccccccccccccccEEcccccccccccHHcccccccccccccccccccccccEEEEEccccccccccccccccccccccccccccEEcccccccHHHHHHHHHcccccccccc
Secondary Structure Prediction (SSPRO)
ccEEEEEEEHHHHcccccccccEHccccccccccccccccccccccccccccccccHHHHHHHHcHHHHccccHHHcccccccccccccccccEEEEcccccccccEEEEEEccccccccEEEEccccccHHHHHHHHHHHcccccccHHHHHHHHccccccccEEEEEcccccccccEEEcccccEEEHHHHHHHHccHcccccccccccccccccEEEEEcccccccccEEEHHcccccccccccccccccccccccHHHHHHHHHHHHccccccc
Coil and Loop (DISEMBL)
MVRALRHGVEGMLESRLRSSSMYEsiyepinprppsdlssrsnyslyssnipppeaeVDALTDLLVHSldtssesdlfgecckcgerilgegsgctamdkvyhiscftcdhcavqlegkpfyiieGHAYCEQGYLDTLEKCSVCVKPILDRILRatgrpyhpacftcvvcgksldgipftvdaaNQIHCIQDFHkkfaprccvcrapimpdseqdETVRVVALDRsfhigcyrcedcglvlsseaegrgcyplddhvlckscNAKRVQALTSTMVTEL
Flexible Loop (DISEMBL)
mvralrhgvegmlesrlrsSSMYESIYEpinprppsdlsSRSNYSLYSSNIPPPEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRApimpdseqdeTVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTSTMVTEL
Low Complexity Region (SEG)
MVRALRHGVEGMLESRLRSSSMYESIYEPINPRPPsdlssrsnyslyssnIPPPEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTSTMVTEL
Disordered region (IsUnstruct)
***********************************************************ALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQA*********
Disordered Region (DISOPRED)
******************************************************************************GECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTSTM****
Disordered Region (DISEMBL)
MVRALRHGVEGMLESRLRSSSMYESIYEPINPRPPSDLSSRSNYSLYSSNIPPPEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQAL********
Disordered Region (DISPRO)
MVRALRHGVEGMLESRLRSSSMYESIYEPINPRPPSDLSSRSNYSLYSSNIPPPEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTSTMV***
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVRALRHGVEGMLESRLRSSSMYESIYEPINPRPPSDLSSRSNYSLYSSNIPPPEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTSTMVTEL
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	278	2.2.26 [Sep-21-2011]
Q5F464	604	Lipoma-preferred partner	yes	N/A	0.874	0.402	0.584	3e-86
Q8BFW7	613	Lipoma-preferred partner	yes	N/A	0.820	0.371	0.603	4e-84
Q5XI07	632	Lipoma-preferred partner	yes	N/A	0.820	0.360	0.599	7e-84
Q15654	476	Thyroid receptor-interact	yes	N/A	0.870	0.508	0.571	1e-83
Q3SX26	481	Thyroid receptor-interact	no	N/A	0.830	0.480	0.594	4e-83
Q93052	612	Lipoma-preferred partner	no	N/A	0.805	0.366	0.595	8e-83
Q9Z1Y4	480	Thyroid receptor-interact	no	N/A	0.809	0.468	0.613	2e-82
Q9UGP4	676	LIM domain-containing pro	no	N/A	0.791	0.325	0.451	5e-60
Q62523	564	Zyxin OS=Mus musculus GN=	no	N/A	0.762	0.375	0.523	5e-60
G5E5X0	674	LIM domain-containing pro	no	N/A	0.766	0.316	0.461	6e-60

>sp|Q5F464|LPP_CHICK Lipoma-preferred partner homolog OS=Gallus gallus GN=LPP PE=2 SV=1

 Score =  318 bits (815), Expect = 3e-86,   Method: Compositional matrix adjust.
 Identities = 145/248 (58%), Positives = 187/248 (75%), Gaps = 5/248 (2%)

Query: 35  PSDLSSRSNY--SLYSSNIPP--PEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILG 90
           P  L  +S Y  S  +S+ P   PE E++ LT  +++ ++     D FG C +CGE ++G
Sbjct: 358 PQPLQQKSGYPSSGPTSSTPAFRPEDELEHLTKKMLYDMENPPSDDYFGRCARCGENVVG 417

Query: 91  EGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILD 150
           EG+GCTAMD+V+H+ CFTC  C  +L G+PFY +E  AYCE  Y++TLE+CSVC KPI++
Sbjct: 418 EGTGCTAMDQVFHVECFTCMMCNNKLRGQPFYAVEKKAYCEPCYINTLEQCSVCAKPIME 477

Query: 151 RILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMP 210
           RILRATG+ YHP CFTCV+C +SLDGIPFTVDA   IHCI+DFHKKFAPRC VC+ PIMP
Sbjct: 478 RILRATGKAYHPHCFTCVMCHRSLDGIPFTVDAGGNIHCIEDFHKKFAPRCSVCKEPIMP 537

Query: 211 DSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQAL 270
              Q+ETVR+VALDR FH+ CYRCEDCG +L SE + +GCYPLD H+LCK+CN+ R+QAL
Sbjct: 538 APGQEETVRIVALDRDFHVQCYRCEDCGGLL-SEGDNQGCYPLDGHILCKTCNSARIQAL 596

Query: 271 TSTMVTEL 278
           T+   T+L
Sbjct: 597 TAKASTDL 604

May play a structural role at sites of cell adhesion in maintaining cell shape and motility. May be involved in signal transduction from cell adhesion sites to the nucleus.
Gallus gallus (taxid: 9031)

>sp|Q8BFW7|LPP_MOUSE Lipoma-preferred partner homolog OS=Mus musculus GN=Lpp PE=1 SV=1

 Score =  311 bits (796), Expect = 4e-84,   Method: Compositional matrix adjust.
 Identities = 140/232 (60%), Positives = 181/232 (78%), Gaps = 4/232 (1%)

Query: 50  NIPP---PEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVYHISC 106
           +IPP   PE E++ LT  +++ ++     D FG C +CGE ++GEG+GCTAMD+V+H+ C
Sbjct: 383 SIPPSFRPEDELEHLTKKMLYDMENPPADDYFGRCARCGENVVGEGTGCTAMDQVFHVDC 442

Query: 107 FTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFT 166
           FTC  C V+L G+PFY +E  AYCE  Y++TLE+CSVC KPI++RILRATG+ YHP CFT
Sbjct: 443 FTCIVCDVKLRGQPFYAVEKKAYCEPCYINTLEQCSVCSKPIMERILRATGKAYHPHCFT 502

Query: 167 CVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRS 226
           CV+C +SLDGIPFTVDA   IHCI+DFHKKFAPRC VC+ PIMP   Q+ETVR+VALDR 
Sbjct: 503 CVMCHRSLDGIPFTVDACGLIHCIEDFHKKFAPRCSVCKEPIMPAPGQEETVRIVALDRD 562

Query: 227 FHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTSTMVTEL 278
           FH+ CYRCEDCG +L SE + +GCYPLD H+LCK+CN+ R++ LT+   T+L
Sbjct: 563 FHVHCYRCEDCGGLL-SEGDNQGCYPLDGHILCKTCNSARIRVLTAKASTDL 613

May play a structural role at sites of cell adhesion in maintaining cell shape and motility. In addition to these structural functions, it may also be implicated in signaling events and activation of gene transcription. May be involved in signal transduction from cell adhesion sites to the nucleus allowing successful integration of signals arising from soluble factors and cell-cell adhesion sites. Also suggested to serve as a scaffold protein upon which distinct protein complexes are assembled in the cytoplasm and in the nucleus.

Mus musculus (taxid: 10090)

>sp|Q5XI07|LPP_RAT Lipoma-preferred partner homolog OS=Rattus norvegicus GN=Lpp PE=1 SV=1

 Score =  310 bits (794), Expect = 7e-84,   Method: Compositional matrix adjust.
 Identities = 139/232 (59%), Positives = 181/232 (78%), Gaps = 4/232 (1%)

Query: 50  NIPP---PEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVYHISC 106
           ++PP   PE E++ LT  +++ ++     D FG C +CGE ++GEG+GCTAMD+V+H+ C
Sbjct: 402 SVPPSFRPEDELEHLTKKMLYDMENPPADDYFGRCARCGENVVGEGTGCTAMDQVFHVDC 461

Query: 107 FTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFT 166
           FTC  C ++L G+PFY +E  AYCE  Y++TLE+CSVC KPI++RILRATG+ YHP CFT
Sbjct: 462 FTCMVCDIKLRGQPFYAVEKKAYCEPCYINTLEQCSVCSKPIMERILRATGKAYHPHCFT 521

Query: 167 CVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRS 226
           CV+C +SLDGIPFTVDA   IHCI+DFHKKFAPRC VC+ PIMP   Q+ETVR+VALDR 
Sbjct: 522 CVMCHRSLDGIPFTVDACGLIHCIEDFHKKFAPRCSVCKEPIMPAPGQEETVRIVALDRD 581

Query: 227 FHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTSTMVTEL 278
           FH+ CYRCEDCG +L SE + +GCYPLD H+LCKSCN+ R++ LT+   T+L
Sbjct: 582 FHVHCYRCEDCGGLL-SEGDNQGCYPLDGHILCKSCNSARIRVLTAKASTDL 632

May play a structural role at sites of cell adhesion in maintaining cell shape and motility. In addition to these structural functions, it may also be implicated in signaling events and activation of gene transcription. May be involved in signal transduction from cell adhesion sites to the nucleus allowing successful integration of signals arising from soluble factors and cell-cell adhesion. Also suggested to serve as a scaffold protein upon which distinct protein complexes are assembled in the cytoplasm and in the nucleus.

Rattus norvegicus (taxid: 10116)

>sp|Q15654|TRIP6_HUMAN Thyroid receptor-interacting protein 6 OS=Homo sapiens GN=TRIP6 PE=1 SV=3

 Score =  309 bits (792), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 140/245 (57%), Positives = 181/245 (73%), Gaps = 3/245 (1%)

Query: 36  SDLSSRSNYSLYSSNIP---PPEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEG 92
           S  + R     +   +P   PPE E+D LT  LVH ++     + FG+C  CGE ++G+G
Sbjct: 231 SGPAGRGRGGEHGPQVPLSQPPEDELDRLTKKLVHDMNHPPSGEYFGQCGGCGEDVVGDG 290

Query: 93  SGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRI 152
           +G  A+D+V+H+ CF C  C  QL G+ FY +E  AYCE  Y+ TLEKC+ C +PILDRI
Sbjct: 291 AGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVATLEKCATCSQPILDRI 350

Query: 153 LRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDS 212
           LRA G+ YHP CFTCVVC + LDGIPFTVDA +QIHCI+DFH+KFAPRC VC   IMP+ 
Sbjct: 351 LRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFAPRCSVCGGAIMPEP 410

Query: 213 EQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTS 272
            Q+ETVR+VALDRSFHIGCY+CE+CGL+LSSE E +GCYPLD H+LCK+C+A R+Q L++
Sbjct: 411 GQEETVRIVALDRSFHIGCYKCEECGLLLSSEGECQGCYPLDGHILCKACSAWRIQELSA 470

Query: 273 TMVTE 277
           T+ T+
Sbjct: 471 TVTTD 475

Relays signals from the cell surface to the nucleus to weaken adherens junction and promote actin cytoskeleton reorganization and cell invasiveness. Involved in lysophosphatidic acid-induced cell adhesion and migration. Acts as a transcriptional coactivator for NF-kappa-B and JUN, and mediates the transrepression of these transcription factors induced by glucocorticoid receptor.

Homo sapiens (taxid: 9606)

>sp|Q3SX26|TRIP6_BOVIN Thyroid receptor-interacting protein 6 OS=Bos taurus GN=TRIP6 PE=2 SV=1

 Score =  308 bits (788), Expect = 4e-83,   Method: Compositional matrix adjust.
 Identities = 139/234 (59%), Positives = 177/234 (75%), Gaps = 3/234 (1%)

Query: 47  YSSNIP---PPEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVYH 103
           Y   +P   PPE E++ LT  LVH ++     + FG C  CGE ++G+G+G  A+D+V+H
Sbjct: 247 YGPQVPLSQPPEEELERLTKKLVHDMNHPPSGEYFGRCGGCGEDVVGDGAGVVALDRVFH 306

Query: 104 ISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPA 163
           + CF C  C  QL G+ FY +E  AYCE  Y+ TLEKCS C +PILDRILRA G+ YHP 
Sbjct: 307 VGCFVCSTCRAQLRGQHFYAVERRAYCESCYVATLEKCSTCSQPILDRILRAMGKAYHPG 366

Query: 164 CFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVAL 223
           CFTCVVC + LDGIPFTVDA +QIHCI+DFH+KFAPRC VC   IMP+  Q+ETVR+VAL
Sbjct: 367 CFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFAPRCSVCGGAIMPEPGQEETVRIVAL 426

Query: 224 DRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTSTMVTE 277
           DRSFHIGCY+CE+CGL+LSSE E +GCYPLD H+LCK+C+A R+Q L++T+ T+
Sbjct: 427 DRSFHIGCYKCEECGLLLSSEGECQGCYPLDGHILCKTCSAWRIQELSATVTTD 480

Relays signals from the cell surface to the nucleus to weaken adherens junction and promote actin cytoskeleton reorganization and cell invasiveness. Involved in lysophosphatidic acid-induced cell adhesion and migration. Acts as a transcriptional coactivator for NF-kappa-B and JUN, and mediates the transrepression of these transcription factors induced by glucocorticoid receptor.

Bos taurus (taxid: 9913)

>sp|Q93052|LPP_HUMAN Lipoma-preferred partner OS=Homo sapiens GN=LPP PE=1 SV=1

 Score =  306 bits (785), Expect = 8e-83,   Method: Compositional matrix adjust.
 Identities = 134/225 (59%), Positives = 176/225 (78%), Gaps = 1/225 (0%)

Query: 54  PEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCA 113
           PE E++ LT  +++ ++     + FG C +CGE ++GEG+GCTAMD+V+H+ CFTC  C 
Sbjct: 389 PEDELEHLTKKMLYDMENPPADEYFGRCARCGENVVGEGTGCTAMDQVFHVDCFTCIICN 448

Query: 114 VQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKS 173
            +L G+PFY +E  AYCE  Y++TLE+C+VC KPI++RILRATG+ YHP CFTCV+C +S
Sbjct: 449 NKLRGQPFYAVEKKAYCEPCYINTLEQCNVCSKPIMERILRATGKAYHPHCFTCVMCHRS 508

Query: 174 LDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYR 233
           LDGIPFTVDA   IHCI+DFHKKFAPRC VC+ PIMP   Q+ETVR+VALDR FH+ CYR
Sbjct: 509 LDGIPFTVDAGGLIHCIEDFHKKFAPRCSVCKEPIMPAPGQEETVRIVALDRDFHVHCYR 568

Query: 234 CEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTSTMVTEL 278
           CEDCG +L SE + +GCYPLD H+LCK+CN+ R++ LT+   T+L
Sbjct: 569 CEDCGGLL-SEGDNQGCYPLDGHILCKTCNSARIRVLTAKASTDL 612

May play a structural role at sites of cell adhesion in maintaining cell shape and motility. In addition to these structural functions, it may also be implicated in signaling events and activation of gene transcription. May be involved in signal transduction from cell adhesion sites to the nucleus allowing successful integration of signals arising from soluble factors and cell-cell adhesion sites. Also suggested to serve as a scaffold protein upon which distinct protein complexes are assembled in the cytoplasm and in the nucleus.

Homo sapiens (taxid: 9606)

>sp|Q9Z1Y4|TRIP6_MOUSE Thyroid receptor-interacting protein 6 OS=Mus musculus GN=Trip6 PE=1 SV=1

 Score =  306 bits (783), Expect = 2e-82,   Method: Compositional matrix adjust.
 Identities = 138/225 (61%), Positives = 173/225 (76%)

Query: 53  PPEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHC 112
           PPE E++ LT  LVH +      + FG C  CGE ++G+G+G  A+D+V+HI CF C  C
Sbjct: 255 PPEEELERLTKKLVHDMSHPPSGEYFGRCGGCGEDVVGDGAGVVALDRVFHIGCFVCSTC 314

Query: 113 AVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGK 172
             QL G+ FY +E  AYCE  Y+ TLEKCS C +PILDRILRA G+ YHP CFTCVVC +
Sbjct: 315 RAQLRGQHFYAVERRAYCESCYVATLEKCSTCSEPILDRILRAMGKAYHPGCFTCVVCHR 374

Query: 173 SLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCY 232
            LDGIPFTVDA +QIHCI+DFH+KFAPRC VC   IMP+  Q+ETVR+VALDRSFHIGCY
Sbjct: 375 GLDGIPFTVDATSQIHCIEDFHRKFAPRCSVCGGAIMPEPGQEETVRIVALDRSFHIGCY 434

Query: 233 RCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTSTMVTE 277
           +CE+CGL+LSSE E +GCYPLD H+LCK+C+A R+Q L++T+ T+
Sbjct: 435 KCEECGLLLSSEGECQGCYPLDGHILCKACSAWRIQELSATVTTD 479

Relays signals from the cell surface to the nucleus to weaken adherens junction and promote actin cytoskeleton reorganization and cell invasiveness. Involved in lysophosphatidic acid-induced cell adhesion and migration. Acts as a transcriptional coactivator for NF-kappa-B and JUN, and mediates the transrepression of these transcription factors induced by glucocorticoid receptor.

Mus musculus (taxid: 10090)

>sp|Q9UGP4|LIMD1_HUMAN LIM domain-containing protein 1 OS=Homo sapiens GN=LIMD1 PE=1 SV=1

 Score =  231 bits (589), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 102/226 (45%), Positives = 149/226 (65%), Gaps = 6/226 (2%)

Query: 55  EAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAV 114
           E +++ALT  L   +D   ++D FG C KC + + G G  C AM  +YH +CFTC  C+ 
Sbjct: 446 ELKLEALTQRLEREMDAHPKADYFGACVKCSKGVFGAGQACQAMGNLYHDTCFTCAACSR 505

Query: 115 QLEGKPFYIIEGHAYCEQ-----GYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVV 169
           +L GK FY + G  +CE+     G+  + ++C +C   I+D IL+A G+ YHP CF CV+
Sbjct: 506 KLRGKAFYFVNGKVFCEEDFLYSGFQQSADRCFLCGHLIMDMILQALGKSYHPGCFRCVI 565

Query: 170 CGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHI 229
           C + LDG+PFTVD+ N+I+C++D+HK  AP+C  C  PI+P    DET+RVV++DR +H+
Sbjct: 566 CNECLDGVPFTVDSENKIYCVRDYHKVLAPKCAACGLPILPPEGSDETIRVVSMDRDYHV 625

Query: 230 GCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTSTMV 275
            CY CEDCGL L+ E +G  CYPL+DH+ C SC+ KR++   S+  
Sbjct: 626 ECYHCEDCGLELNDE-DGHRCYPLEDHLFCHSCHVKRLEKRPSSTA 670

Adapter or scaffold protein which participates in the assembly of numerous protein complexes and is involved in several cellular processes such as cell fate determination, cytoskeletal organization, repression of gene transcription, cell-cell adhesion, cell differentiation, proliferation and migration. Positively regulates microRNA (miRNA)-mediated gene silencing and is essential for P-body formation and integrity. Acts as a hypoxic regulator by bridging an association between the prolyl hydroxylases and VHL enabling efficient degradation of HIF1A. Acts as a transcriptional corepressor for SNAI1- and SNAI2/SLUG-dependent repression of E-cadherin transcription. Negatively regulates the Hippo signaling pathway and antagonizes phosphorylation of YAP1. Inhibits E2F-mediated transcription, and suppresses the expression of the majority of genes with E2F1-responsive elements. Regulates osteoblast development, function, differentiation and stress osteoclastogenesis. Enhances the ability of TRAF6 to activate adapter protein complex 1 (AP-1) and negatively regulates the canonical Wnt receptor signaling pathway in osteoblasts. May act as a tumor suppressor by inhibiting cell proliferation.

Homo sapiens (taxid: 9606)

>sp|Q62523|ZYX_MOUSE Zyxin OS=Mus musculus GN=Zyx PE=1 SV=2

 Score =  231 bits (589), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 112/214 (52%), Positives = 148/214 (69%), Gaps = 2/214 (0%)

Query: 57  EVDALTDLLVHSLD-TSSESDLFGECC-KCGERILGEGSGCTAMDKVYHISCFTCDHCAV 114
           E++ LT  L+  ++    +S    E C KC + +        A+ +++HI+CFTC  C  
Sbjct: 350 ELEQLTQQLMQDMEHPQRQSVAVNESCGKCNQPLARAQPAVRALGQLFHITCFTCHQCQQ 409

Query: 115 QLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSL 174
           QL+G+ FY +EG  YCE  Y DTLEKC+ C +PI DR+LRATG+ YHP CFTCVVC   L
Sbjct: 410 QLQGQQFYSLEGAPYCEGCYTDTLEKCNTCGQPITDRMLRATGKAYHPQCFTCVVCACPL 469

Query: 175 DGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRC 234
           +G  F VD ANQ HC+ D+HK++APRC VC  PIMP+  +DETVRVVALD++FH+ CY+C
Sbjct: 470 EGTSFIVDQANQPHCVPDYHKQYAPRCSVCSEPIMPEPGRDETVRVVALDKNFHMKCYKC 529

Query: 235 EDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQ 268
           EDCG  LS EA+  GC+PLD HVLC+ C++ R Q
Sbjct: 530 EDCGKPLSIEADDNGCFPLDGHVLCRKCHSARAQ 563

Adhesion plaque protein. Binds alpha-actinin and the CRP protein. Important for targeting TES and ENA/VASP family members to focal adhesions and for the formation of actin-rich structures. May be a component of a signal transduction pathway that mediates adhesion-stimulated changes in gene expression.

Mus musculus (taxid: 10090)

>sp|G5E5X0|LIMD1_BOVIN LIM domain-containing protein 1 OS=Bos taurus GN=LIMD1 PE=3 SV=1

 Score =  231 bits (588), Expect = 6e-60,   Method: Compositional matrix adjust.
 Identities = 101/219 (46%), Positives = 147/219 (67%), Gaps = 6/219 (2%)

Query: 55  EAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAV 114
           E +++ALT  L   +D   ++D FG C KC + + G G  C AM  +YH +CFTC  C+ 
Sbjct: 444 ELKLEALTQRLEREMDAHPKADYFGACVKCSKGVFGAGQACQAMGNLYHDACFTCAACSR 503

Query: 115 QLEGKPFYIIEGHAYCEQ-----GYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVV 169
           +L GK FY + G  +CE+     G+  + ++C +C   I+D IL+A G+ YHP CF CV+
Sbjct: 504 KLRGKAFYFVNGKVFCEEDFLYSGFQQSADRCFLCGHLIMDMILQALGKSYHPGCFRCVI 563

Query: 170 CGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHI 229
           C + LDG+PFTVD+ N+I+C++D+HK  AP+C  C  PI+P    DET+RVV++DR +H+
Sbjct: 564 CNECLDGVPFTVDSENKIYCVRDYHKVLAPKCAACGLPILPPEGSDETIRVVSMDRDYHV 623

Query: 230 GCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQ 268
            CY CEDCGL L+ E +G  CYPL+DH+ C SC+ KR++
Sbjct: 624 ECYHCEDCGLELNDE-DGHRCYPLEDHLFCHSCHVKRLE 661

Adapter or scaffold protein which participates in the assembly of numerous protein complexes and is involved in several cellular processes such as cell fate determination, cytoskeletal organization, repression of gene transcription, cell-cell adhesion, cell differentiation, proliferation and migration. Positively regulates microRNA (miRNA)-mediated gene silencing and is essential for P-body formation and integrity. Acts as a hypoxic regulator by bridging an association between the prolyl hydroxylases and VHL enabling efficient degradation of HIF1A. Acts as a transcriptional corepressor for SNAI1- and SNAI2/SLUG-dependent repression of E-cadherin transcription. Negatively regulates the Hippo signaling pathway and antagonizes phosphorylation of YAP1. Inhibits E2F-mediated transcription, and suppresses the expression of the majority of genes with E2F1-responsive elements. Regulates osteoblast development, function, differentiation and stress osteoclastogenesis. Enhances the ability of TRAF6 to activate adapter protein complex 1 (AP-1) and negatively regulates the canonical Wnt receptor signaling pathway in osteoblasts. May act as a tumor suppressor by inhibiting cell proliferation.

Bos taurus (taxid: 9913)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	278
157116661	591	lipoma preferred partner/lpp [Aedes aegy	0.967	0.455	0.668	1e-117
312385054	675	hypothetical protein AND_01238 [Anophele	0.971	0.4	0.649	1e-116
91085289	485	PREDICTED: similar to lipoma preferred p	0.938	0.538	0.695	1e-112
158288311	499	AGAP009503-PA [Anopheles gambiae str. PE	0.956	0.533	0.656	1e-111
307195679	562	Lipoma-preferred partner-like protein [H	0.913	0.451	0.722	1e-107
307174132	617	Lipoma-preferred partner-like protein [C	0.913	0.411	0.719	1e-107
170032375	597	lipoma preferred partner/lpp [Culex quin	0.928	0.432	0.631	1e-106
332031347	542	Lipoma-preferred partner-like protein [A	0.913	0.468	0.711	1e-106
380021192	539	PREDICTED: thyroid receptor-interacting	0.913	0.471	0.707	1e-106
242014060	438	zyxin/trip6, putative [Pediculus humanus	0.906	0.575	0.719	1e-106

>gi|157116661|ref|XP_001652822.1| lipoma preferred partner/lpp [Aedes aegypti] gi|108876345|gb|EAT40570.1| AAEL007704-PA [Aedes aegypti]

 Score =  425 bits (1093), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 198/296 (66%), Positives = 231/296 (78%), Gaps = 27/296 (9%)

Query: 7   HGVEGMLESRLRSSSMYESIYEPINPRPPSDLSSRSNYSLYSSNI--------------- 51
           +G  GM     + S+ YESIYEPINPRP S +S RSNYSLY+  +               
Sbjct: 299 YGTYGMGS---QGSTTYESIYEPINPRPTSQMSGRSNYSLYTPYVNSRGINSPNDSLITS 355

Query: 52  ---------PPPEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVY 102
                    PP E+EVD LTDLLV S+D  S+ D FG C KCG+R++GE +GCTAMD++Y
Sbjct: 356 ASNQHHRSHPPKESEVDTLTDLLVQSMDNVSDPDTFGTCVKCGDRVIGENNGCTAMDQIY 415

Query: 103 HISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHP 162
           HI+CFTC  C + L+GKPFY ++G+ YCE+ YL+TLEKCSVC+KPIL+RILRATG+PYHP
Sbjct: 416 HIACFTCQQCQINLQGKPFYALDGNPYCEEDYLNTLEKCSVCLKPILERILRATGKPYHP 475

Query: 163 ACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVA 222
            CFTC+VCGKSLDGIPFTVDA NQIHCI+DFHKKFAPRCCVC  PIMP+  QDET+RVVA
Sbjct: 476 QCFTCIVCGKSLDGIPFTVDATNQIHCIEDFHKKFAPRCCVCNNPIMPEPGQDETIRVVA 535

Query: 223 LDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTSTMVTEL 278
           LDRSFHI CY+CEDCGL+LSSEAEGRGCYPLDDH+ CKSCNAKRVQALTS M TEL
Sbjct: 536 LDRSFHINCYKCEDCGLLLSSEAEGRGCYPLDDHIYCKSCNAKRVQALTSHMTTEL 591

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|312385054|gb|EFR29640.1| hypothetical protein AND_01238 [Anopheles darlingi]

 Score =  422 bits (1085), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 198/305 (64%), Positives = 231/305 (75%), Gaps = 35/305 (11%)

Query: 7   HGVEGMLESRLRSSSMYESIYEPINPRPPSDLSSRSNYSLYSSNIP-------------- 52
           +G  G + S+   S+ YESIYEPINPRPPS +S RSNYSLY+  +               
Sbjct: 373 YGTYGGMSSQ--GSTTYESIYEPINPRPPSQMSGRSNYSLYAPYVNSHGINSSNDSIITS 430

Query: 53  -------------------PPEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGS 93
                              P E EVD LTDLLV S+D + + D +G C KCGER++GE +
Sbjct: 431 ASQQQPQSHHLGHHHRGGVPKETEVDTLTDLLVQSMDGTQDVDSYGTCVKCGERVVGENT 490

Query: 94  GCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRIL 153
           GCTAMDK+YHI+CFTC  C + L+GKPFY ++G  YCE+ YL+TLEKCSVC+KPIL+RIL
Sbjct: 491 GCTAMDKIYHITCFTCQQCQINLQGKPFYSLDGKPYCEEDYLNTLEKCSVCLKPILERIL 550

Query: 154 RATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSE 213
           RATG+PYHP CFTC+VCGKSLDGIPFTVDA NQIHCI+DFHKKFAPRCCVC+ PIMP+  
Sbjct: 551 RATGKPYHPQCFTCIVCGKSLDGIPFTVDATNQIHCIEDFHKKFAPRCCVCKHPIMPEPG 610

Query: 214 QDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTST 273
           QDETVRVVALDRSFHI CY+CEDCGL+LSSEAEGRGCYPLDDH+LCK+CNAKRVQ LTS 
Sbjct: 611 QDETVRVVALDRSFHINCYKCEDCGLLLSSEAEGRGCYPLDDHILCKTCNAKRVQTLTSH 670

Query: 274 MVTEL 278
           M TEL
Sbjct: 671 MTTEL 675

Source: Anopheles darlingi

Species: Anopheles darlingi

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91085289|ref|XP_967989.1| PREDICTED: similar to lipoma preferred partner/lpp [Tribolium castaneum] gi|270009118|gb|EFA05566.1| hypothetical protein TcasGA2_TC015755 [Tribolium castaneum]

 Score =  409 bits (1051), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 194/279 (69%), Positives = 222/279 (79%), Gaps = 18/279 (6%)

Query: 18  RSSSMYESIYEPINPRPPSDLSSRSNYSLY-------SSNIPPPEA-----------EVD 59
           +SSS YESIYEPINPRPPS +SSRSNYSLY       SS +  P             EVD
Sbjct: 207 QSSSTYESIYEPINPRPPSQMSSRSNYSLYAPYVSGNSSTMTGPSQSASRMEVNKLQEVD 266

Query: 60  ALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGK 119
           +LTDLLV  +D   + D++G C KCGE+I+GE SGCTAMD++YH  CFTC HCA+ L+GK
Sbjct: 267 SLTDLLVQGMDNEQDQDVYGVCVKCGEKIIGENSGCTAMDQLYHTKCFTCHHCAINLQGK 326

Query: 120 PFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPF 179
           PFY ++G  YCE+ YL+TLEKC VC KPILDRILRATG+PYHP CF CVVCGKSLDGIPF
Sbjct: 327 PFYALDGKPYCEEDYLNTLEKCCVCQKPILDRILRATGKPYHPKCFCCVVCGKSLDGIPF 386

Query: 180 TVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGL 239
           TVDA N++HCI+DFHK FAPRC VC+ PIMP+  ++ETVRVVALD SFHI CY+CEDCGL
Sbjct: 387 TVDATNRVHCIEDFHKIFAPRCWVCKQPIMPEPGEEETVRVVALDHSFHIQCYKCEDCGL 446

Query: 240 VLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTSTMVTEL 278
           VLSSEAEGRGCYPLDDHVLCKSCNAKRVQ LT+ M TEL
Sbjct: 447 VLSSEAEGRGCYPLDDHVLCKSCNAKRVQTLTNHMTTEL 485

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|158288311|ref|XP_310193.4| AGAP009503-PA [Anopheles gambiae str. PEST] gi|157019189|gb|EAA05908.5| AGAP009503-PA [Anopheles gambiae str. PEST]

 Score =  406 bits (1044), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 199/303 (65%), Positives = 226/303 (74%), Gaps = 37/303 (12%)

Query: 7   HGVEGMLESRLRSSSMYESIYEPINPRPPSDLSSRSNYSLY-----SSNIPPPE------ 55
           +G  GM     + S+ YESIYEPINPRPPS +S RSNYSLY     S  I  P       
Sbjct: 203 YGTYGMSS---QGSTTYESIYEPINPRPPSQMSGRSNYSLYAPYVNSHGINSPNDSIITS 259

Query: 56  --------------------AEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGC 95
                               AEVD LTDLLV S+    + + FG C KCGER++GE +GC
Sbjct: 260 ASQQQQQQQHRHNQGSMSKGAEVDTLTDLLVQSI---HDQESFGTCVKCGERVVGEKTGC 316

Query: 96  TAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRA 155
           TAMDK+YHI+CFTC  C + L+GKPFY ++G  YC++ YL+TLEKCSVC+KPIL+RILRA
Sbjct: 317 TAMDKIYHIACFTCHQCQINLQGKPFYGLDGKPYCKEDYLNTLEKCSVCLKPILERILRA 376

Query: 156 TGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQD 215
           TG+PYHP CFTC+VCGKSLDGIPFTVDA NQIHCI DFHKKFAPRCCVC+ PIMP   +D
Sbjct: 377 TGKPYHPQCFTCIVCGKSLDGIPFTVDATNQIHCIDDFHKKFAPRCCVCKMPIMPGPGED 436

Query: 216 ETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTSTMV 275
           ETVRVVALDRSFHI CY+CEDCGLVLSSEAEGRGCYPLDDH+LCKSCNAKRVQ LTS M 
Sbjct: 437 ETVRVVALDRSFHINCYKCEDCGLVLSSEAEGRGCYPLDDHILCKSCNAKRVQTLTSHMT 496

Query: 276 TEL 278
           TEL
Sbjct: 497 TEL 499

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307195679|gb|EFN77521.1| Lipoma-preferred partner-like protein [Harpegnathos saltator]

 Score =  395 bits (1014), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 193/267 (72%), Positives = 219/267 (82%), Gaps = 13/267 (4%)

Query: 23  YESIYEPINPRPPSDLSSRSNYSLYS------SNIP----PPEAEVDALTDLLVHSL-DT 71
           YESIYEPINPRPPS LS   NYS+YS      S  P     P  EVD LTDLLV  + D+
Sbjct: 298 YESIYEPINPRPPSQLSC--NYSMYSGYGSATSTQPQGKVSPVKEVDVLTDLLVQGMADS 355

Query: 72  SSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCE 131
           S +SD++G C +CG ++ GEG+GC+AMDKV+HISCF C  C V L+GKPFY +EG  YCE
Sbjct: 356 SEDSDIYGICAQCGRKVEGEGTGCSAMDKVFHISCFCCFVCKVNLQGKPFYSLEGKPYCE 415

Query: 132 QGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQ 191
           + YL+TLEKC VC++PILDRILRATG+PYHP+CFTCVVCG+SLDGIPFTVDA NQIHCIQ
Sbjct: 416 ENYLNTLEKCCVCIRPILDRILRATGKPYHPSCFTCVVCGQSLDGIPFTVDATNQIHCIQ 475

Query: 192 DFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCY 251
            FHKKFAPRCCVC+ PIMP+  +DETVRVVALDRSFHI CY+CEDCGLVLSS+ EGRGCY
Sbjct: 476 CFHKKFAPRCCVCKLPIMPEPGEDETVRVVALDRSFHIQCYKCEDCGLVLSSDLEGRGCY 535

Query: 252 PLDDHVLCKSCNAKRVQALTSTMVTEL 278
           PLDDHVLCKSCNA RVQALTS M TEL
Sbjct: 536 PLDDHVLCKSCNATRVQALTSHMTTEL 562

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307174132|gb|EFN64790.1| Lipoma-preferred partner-like protein [Camponotus floridanus]

 Score =  392 bits (1007), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 192/267 (71%), Positives = 217/267 (81%), Gaps = 13/267 (4%)

Query: 23  YESIYEPINPRPPSDLSSRSNYSLYS------SNIP----PPEAEVDALTDLLVHSL-DT 71
           YESIYEPINPRPPS LS   NYS+YS      S  P     P  EVD LTDLLV  + D 
Sbjct: 353 YESIYEPINPRPPSQLSC--NYSMYSGYGSAVSTQPQGKVSPVKEVDVLTDLLVQGMADN 410

Query: 72  SSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCE 131
           + +SD++G C +CG ++ GEG+GC+AMDKV+HI+CF C  C V L+GKPFY +EG  YCE
Sbjct: 411 NEDSDIYGICAQCGRKVEGEGTGCSAMDKVFHINCFCCFICKVNLQGKPFYSLEGKPYCE 470

Query: 132 QGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQ 191
           + YL+TLEKC VC  PILDRILRATG+PYHPACF+CVVCG+SLDGIPFTVDA NQIHCIQ
Sbjct: 471 EDYLNTLEKCCVCTTPILDRILRATGKPYHPACFSCVVCGQSLDGIPFTVDATNQIHCIQ 530

Query: 192 DFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCY 251
            FHKKFAPRCCVC+ PIMP+  QDETVRVVALDRSFHI CY+CEDCGLVLSS++EGRGCY
Sbjct: 531 CFHKKFAPRCCVCKLPIMPEPGQDETVRVVALDRSFHIQCYKCEDCGLVLSSDSEGRGCY 590

Query: 252 PLDDHVLCKSCNAKRVQALTSTMVTEL 278
           PLDDHVLCKSCNA RVQALTS M TEL
Sbjct: 591 PLDDHVLCKSCNATRVQALTSHMTTEL 617

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170032375|ref|XP_001844057.1| lipoma preferred partner/lpp [Culex quinquefasciatus] gi|167872343|gb|EDS35726.1| lipoma preferred partner/lpp [Culex quinquefasciatus]

 Score =  391 bits (1005), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 190/301 (63%), Positives = 222/301 (73%), Gaps = 43/301 (14%)

Query: 21  SMYESIYEPINPRPPSDLSSRSNYSLYSS-------NIP--------------------- 52
           S YESIYEPINPRP S +S RSNYSLY+        N P                     
Sbjct: 297 STYESIYEPINPRPTSQMSGRSNYSLYTPYVNSRGINSPNDTMLNQQQHQQQQQQQHRHH 356

Query: 53  -PPEAEVDALTDLLVHSLDTSSE---------SDLFGECCKCGERILGEGSGCTAMDKVY 102
            P E EVD LTDLLV S+D   +         +D FG C +CGER++GE +GCTAMD+++
Sbjct: 357 VPKENEVDKLTDLLVQSMDNVGQDPDSFDEFLTDTFGTCVQCGERVVGENTGCTAMDQIF 416

Query: 103 HISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHP 162
           HI+CFTC  C + L+GKPFY ++G  YCE+ YL+TLEKCSVC KPIL+RILRATG+PYHP
Sbjct: 417 HIACFTCQQCQINLQGKPFYALDGKPYCEEDYLNTLEKCSVCQKPILERILRATGKPYHP 476

Query: 163 ACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVA 222
            CFTCV+CGKSLDGIPFTVDA NQIHCI+DFHKKFAPRCCVC+ PIMP+  QDET+RVVA
Sbjct: 477 QCFTCVICGKSLDGIPFTVDATNQIHCIEDFHKKFAPRCCVCQKPIMPEPGQDETIRVVA 536

Query: 223 LDRSFHIGCYRCEDCGLVLSSEAEGR-GCYPLDDHVLCKSCNAKRVQALT----STMVTE 277
           LDRSFH+ CY+CEDCG +LSSEAEG  GCYPLDDH+LCKSCNAKRVQAL+    + M TE
Sbjct: 537 LDRSFHVSCYKCEDCGQLLSSEAEGGIGCYPLDDHILCKSCNAKRVQALSMSYHTGMTTE 596

Query: 278 L 278
           L
Sbjct: 597 L 597

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332031347|gb|EGI70860.1| Lipoma-preferred partner-like protein [Acromyrmex echinatior]

 Score =  390 bits (1003), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 190/267 (71%), Positives = 217/267 (81%), Gaps = 13/267 (4%)

Query: 23  YESIYEPINPRPPSDLSSRSNYSLYS------SNIP----PPEAEVDALTDLLVHSL-DT 71
           YESIYEPINPRPPS LS   NYS+YS      S  P     P  EVD LTDLLV  + D 
Sbjct: 278 YESIYEPINPRPPSQLSC--NYSMYSGYGSATSTQPQGKVSPVKEVDVLTDLLVQGMEDN 335

Query: 72  SSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCE 131
           + +SD++G C +CG ++ GEG+GC+AMDKV+HISCF C  C V L+GKPFY +EG  YCE
Sbjct: 336 NEDSDIYGICAQCGRKVEGEGTGCSAMDKVFHISCFCCFVCKVNLQGKPFYSLEGKPYCE 395

Query: 132 QGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQ 191
           + YL+TLEKC VC +PILDRILRATG+PYHP+CFTCVVCG+SLDGIPFTVDA NQIHCIQ
Sbjct: 396 EDYLNTLEKCCVCTRPILDRILRATGKPYHPSCFTCVVCGQSLDGIPFTVDATNQIHCIQ 455

Query: 192 DFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCY 251
            FHKKFAPRCCVC+ PIMP+  QDET+RVVALDRSFHI CY+CEDCGLVLSS++EG GCY
Sbjct: 456 CFHKKFAPRCCVCKLPIMPEPGQDETIRVVALDRSFHIQCYKCEDCGLVLSSDSEGHGCY 515

Query: 252 PLDDHVLCKSCNAKRVQALTSTMVTEL 278
           PLDDH+LCKSCNA RVQALTS M TEL
Sbjct: 516 PLDDHILCKSCNATRVQALTSHMTTEL 542

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380021192|ref|XP_003694455.1| PREDICTED: thyroid receptor-interacting protein 6-like [Apis florea]

 Score =  389 bits (1000), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 189/267 (70%), Positives = 216/267 (80%), Gaps = 13/267 (4%)

Query: 23  YESIYEPINPRPPSDLSSRSNYSLYS------SNIP----PPEAEVDALTDLLVHSL-DT 71
           YESIYEPINPRPPS LS   NYS+YS      S  P     P  EVD LTDLLV  + D 
Sbjct: 275 YESIYEPINPRPPSQLSC--NYSMYSGYGSATSTQPQGKVSPVKEVDVLTDLLVQGMEDN 332

Query: 72  SSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCE 131
           + ++D++G C +CG ++ GEG+GC+AMDKV+HI CF C  C V L+GKPFY +E   YCE
Sbjct: 333 AEDNDIYGICAQCGRKVEGEGTGCSAMDKVFHIDCFCCYVCKVNLQGKPFYSLENKPYCE 392

Query: 132 QGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQ 191
           + YL+TLEKC VC +PILDRILRATG+PYHP+CFTCVVCG+SLDGIPFTVDA NQIHCIQ
Sbjct: 393 EDYLNTLEKCCVCTRPILDRILRATGKPYHPSCFTCVVCGQSLDGIPFTVDATNQIHCIQ 452

Query: 192 DFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCY 251
            FHKKFAPRCCVC+ PIMP+  QDETVRVVALDRSFHI CY+CEDCGL+LSS++EGRGCY
Sbjct: 453 CFHKKFAPRCCVCKLPIMPEPGQDETVRVVALDRSFHIQCYKCEDCGLILSSDSEGRGCY 512

Query: 252 PLDDHVLCKSCNAKRVQALTSTMVTEL 278
           PLDDHVLCKSCNA RVQALTS M TEL
Sbjct: 513 PLDDHVLCKSCNATRVQALTSHMTTEL 539

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242014060|ref|XP_002427716.1| zyxin/trip6, putative [Pediculus humanus corporis] gi|212512151|gb|EEB14978.1| zyxin/trip6, putative [Pediculus humanus corporis]

 Score =  389 bits (999), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 182/253 (71%), Positives = 211/253 (83%), Gaps = 1/253 (0%)

Query: 20  SSMYESIYEPINPRPPSDLSSRSNYSLY-SSNIPPPEAEVDALTDLLVHSLDTSSESDLF 78
           +S YESIYEPI PR PS  S+ S Y+ Y S +    E +V+ALT+LLV S+D S + D+ 
Sbjct: 178 ASTYESIYEPICPRSPSQASNYSLYAPYVSGSQGNKEKQVNALTNLLVQSMDGSPDEDIL 237

Query: 79  GECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL 138
           G C KC E ++ EGSGC AM+KVYHI+CFTC  C +QL+GKPF+ +EG  YCEQ YL+TL
Sbjct: 238 GVCEKCKEYVINEGSGCVAMEKVYHITCFTCHQCKIQLQGKPFFALEGKPYCEQDYLNTL 297

Query: 139 EKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFA 198
           EKCSVC+KPILDRILRATG+PYHP CFTCVVCG+SLDGIPFTVDA NQIHCI DFHKKFA
Sbjct: 298 EKCSVCMKPILDRILRATGKPYHPKCFTCVVCGRSLDGIPFTVDAVNQIHCITDFHKKFA 357

Query: 199 PRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVL 258
           PRCCVC+ PIMP+  + ETVRVVALDRSFH+ CY+CEDCGLVLSSEA+GRGCYPLDDHVL
Sbjct: 358 PRCCVCKLPIMPEQGEQETVRVVALDRSFHVSCYKCEDCGLVLSSEAQGRGCYPLDDHVL 417

Query: 259 CKSCNAKRVQALT 271
           CKSCNAKR+Q LT
Sbjct: 418 CKSCNAKRIQTLT 430

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	278
FB|FBgn0011642	585	Zyx "Zyxin" [Drosophila melano	0.733	0.348	0.745	8.8e-96
ZFIN|ZDB-GENE-040426-918	556	lpp "LIM domain containing pre	0.805	0.402	0.622	5.7e-86
UNIPROTKB|Q5F464	604	LPP "Lipoma-preferred partner	0.805	0.370	0.613	1e-84
UNIPROTKB|Q3SX26	481	TRIP6 "Thyroid receptor-intera	0.809	0.467	0.608	4e-83
UNIPROTKB|E2RPC5	484	TRIP6 "Uncharacterized protein	0.809	0.464	0.608	4e-83
MGI|MGI:1343458	480	Trip6 "thyroid hormone recepto	0.809	0.468	0.613	4e-83
UNIPROTKB|E1BMD6	614	LPP "Uncharacterized protein"	0.805	0.364	0.6	1.3e-82
UNIPROTKB|Q93052	612	LPP "Lipoma-preferred partner"	0.805	0.366	0.595	2.8e-82
RGD|1310535	632	Lpp "LIM domain containing pre	0.816	0.359	0.601	3.6e-82
UNIPROTKB|F1LSB9	633	Lpp "Lipoma-preferred partner	0.816	0.358	0.601	3.6e-82

FB|FBgn0011642 Zyx "Zyxin" [Drosophila melanogaster (taxid:7227)]

 Score = 894 (319.8 bits), Expect = 8.8e-96, Sum P(2) = 8.8e-96
 Identities = 152/204 (74%), Positives = 175/204 (85%)

Query:    74 ESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQG 133
             E + +G C KC  R+LGE SGCTAMD++YHI CFTC  C + L+GKPFY ++G  YCE  
Sbjct:   381 ELENYGRCVKCNSRVLGESSGCTAMDQIYHIFCFTCTDCQINLQGKPFYALDGKPYCEYD 440

Query:   134 YLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDF 193
             YL TLEKCSVC++PIL+RILRATG+PYHP CFTCVVCGKSLDG+ FTVDA NQ +CI DF
Sbjct:   441 YLQTLEKCSVCMEPILERILRATGKPYHPQCFTCVVCGKSLDGLLFTVDATNQNYCITDF 500

Query:   194 HKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPL 253
             HKKFAPRCCVC+ PIMPD  Q+ET+RVVALDRSFH+ CY+CEDCGL+LSSEAEGRGCYPL
Sbjct:   501 HKKFAPRCCVCKQPIMPDPGQEETIRVVALDRSFHLECYKCEDCGLLLSSEAEGRGCYPL 560

Query:   254 DDHVLCKSCNAKRVQALTSTMVTE 277
             DDHVLCKSCNAKRVQALT+ M +E
Sbjct:   561 DDHVLCKSCNAKRVQALTNRMTSE 584

GO:0005856 "cytoskeleton" evidence=ISS

GO:0005911 "cell-cell junction" evidence=ISS

GO:0005515 "protein binding" evidence=IPI

GO:0005925 "focal adhesion" evidence=ISS

GO:0007155 "cell adhesion" evidence=ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0001725 "stress fiber" evidence=IDA

GO:0045805 "positive regulation of eclosion" evidence=IMP

GO:0007593 "chitin-based cuticle sclerotization" evidence=IMP

GO:0007430 "terminal branching, open tracheal system" evidence=IMP

GO:0048526 "imaginal disc-derived wing expansion" evidence=IMP

GO:0035002 "liquid clearance, open tracheal system" evidence=IMP

GO:0045572 "positive regulation of imaginal disc growth" evidence=IMP

GO:0035003 "subapical complex" evidence=IDA

GO:0035329 "hippo signaling cascade" evidence=IMP

ZFIN|ZDB-GENE-040426-918 lpp "LIM domain containing preferred translocation partner in lipoma" [Danio rerio (taxid:7955)]

 Score = 837 (299.7 bits), Expect = 5.7e-86, Sum P(2) = 5.7e-86
 Identities = 140/225 (62%), Positives = 174/225 (77%)

Query:    54 PEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCA 113
             PE E+D LT  +++ +D     + FG C  CGE ++GEG+GCTAMD+V+H+ CF C  C 
Sbjct:   333 PEEELDRLTKKMLYDMDNPPSEEYFGRCSSCGENVVGEGTGCTAMDQVFHVDCFICMTCG 392

Query:   114 VQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKS 173
              +L GKPFY +E  AYCE  Y++TLE C++C KPI++RILRATG+ YHP CFTCVVC +S
Sbjct:   393 SKLRGKPFYAVEKKAYCEPCYINTLETCNICYKPIMERILRATGKAYHPQCFTCVVCHRS 452

Query:   174 LDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYR 233
             LDGIPFTVDA+N IHCI+DFHKKFAPRC VC  PIMP   Q+ETVR+VALDR FH+ CYR
Sbjct:   453 LDGIPFTVDASNHIHCIEDFHKKFAPRCSVCNEPIMPAPGQEETVRIVALDRDFHVQCYR 512

Query:   234 CEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTSTMVTEL 278
             CEDCG +LS E + +GCYPLD HVLCK+CN  R+QALT+   T+L
Sbjct:   513 CEDCGCLLS-EGDNQGCYPLDGHVLCKNCNTSRIQALTAKATTDL 556

GO:0008270 "zinc ion binding" evidence=IEA

GO:0060027 "convergent extension involved in gastrulation" evidence=IGI;IMP

GO:0005515 "protein binding" evidence=IPI

GO:0060030 "dorsal convergence" evidence=IMP

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|Q5F464 LPP "Lipoma-preferred partner homolog" [Gallus gallus (taxid:9031)]

 Score = 825 (295.5 bits), Expect = 1.0e-84, Sum P(2) = 1.0e-84
 Identities = 138/225 (61%), Positives = 177/225 (78%)

Query:    54 PEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCA 113
             PE E++ LT  +++ ++     D FG C +CGE ++GEG+GCTAMD+V+H+ CFTC  C 
Sbjct:   381 PEDELEHLTKKMLYDMENPPSDDYFGRCARCGENVVGEGTGCTAMDQVFHVECFTCMMCN 440

Query:   114 VQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKS 173
              +L G+PFY +E  AYCE  Y++TLE+CSVC KPI++RILRATG+ YHP CFTCV+C +S
Sbjct:   441 NKLRGQPFYAVEKKAYCEPCYINTLEQCSVCAKPIMERILRATGKAYHPHCFTCVMCHRS 500

Query:   174 LDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYR 233
             LDGIPFTVDA   IHCI+DFHKKFAPRC VC+ PIMP   Q+ETVR+VALDR FH+ CYR
Sbjct:   501 LDGIPFTVDAGGNIHCIEDFHKKFAPRCSVCKEPIMPAPGQEETVRIVALDRDFHVQCYR 560

Query:   234 CEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTSTMVTEL 278
             CEDCG +LS E + +GCYPLD H+LCK+CN+ R+QALT+   T+L
Sbjct:   561 CEDCGGLLS-EGDNQGCYPLDGHILCKTCNSARIQALTAKASTDL 604

GO:0008270 "zinc ion binding" evidence=IEA

GO:0007155 "cell adhesion" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005925 "focal adhesion" evidence=IEA

UNIPROTKB|Q3SX26 TRIP6 "Thyroid receptor-interacting protein 6" [Bos taurus (taxid:9913)]

 Score = 815 (292.0 bits), Expect = 4.0e-83, Sum P(2) = 4.0e-83
 Identities = 137/225 (60%), Positives = 174/225 (77%)

Query:    53 PPEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHC 112
             PPE E++ LT  LVH ++     + FG C  CGE ++G+G+G  A+D+V+H+ CF C  C
Sbjct:   256 PPEEELERLTKKLVHDMNHPPSGEYFGRCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTC 315

Query:   113 AVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGK 172
               QL G+ FY +E  AYCE  Y+ TLEKCS C +PILDRILRA G+ YHP CFTCVVC +
Sbjct:   316 RAQLRGQHFYAVERRAYCESCYVATLEKCSTCSQPILDRILRAMGKAYHPGCFTCVVCHR 375

Query:   173 SLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCY 232
              LDGIPFTVDA +QIHCI+DFH+KFAPRC VC   IMP+  Q+ETVR+VALDRSFHIGCY
Sbjct:   376 GLDGIPFTVDATSQIHCIEDFHRKFAPRCSVCGGAIMPEPGQEETVRIVALDRSFHIGCY 435

Query:   233 RCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTSTMVTE 277
             +CE+CGL+LSSE E +GCYPLD H+LCK+C+A R+Q L++T+ T+
Sbjct:   436 KCEECGLLLSSEGECQGCYPLDGHILCKTCSAWRIQELSATVTTD 480

GO:0045323 "interleukin-1 receptor complex" evidence=ISS

GO:0030335 "positive regulation of cell migration" evidence=ISS

GO:0019900 "kinase binding" evidence=ISS

GO:0008588 "release of cytoplasmic sequestered NF-kappaB" evidence=ISS

GO:0005925 "focal adhesion" evidence=ISS

GO:0005149 "interleukin-1 receptor binding" evidence=ISS

GO:0005856 "cytoskeleton" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0007155 "cell adhesion" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

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

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|E2RPC5 TRIP6 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 815 (292.0 bits), Expect = 4.0e-83, Sum P(2) = 4.0e-83
 Identities = 137/225 (60%), Positives = 175/225 (77%)

Query:    53 PPEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHC 112
             PPE E++ LT  LVH ++     + FG C  CGE ++G+G+G  A+D+V+H+ CF C  C
Sbjct:   259 PPEEELERLTKKLVHDMNHPPTGEYFGRCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTC 318

Query:   113 AVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGK 172
               QL G+ FY +E  AYCE  Y+ TLEKCS C +PILDRILRA G+ YHP+CFTCVVC +
Sbjct:   319 RAQLRGQHFYAVERRAYCESCYVATLEKCSTCSQPILDRILRAMGKAYHPSCFTCVVCHR 378

Query:   173 SLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCY 232
              LDGIPFTVDA +QIHCI+DFH+KFAPRC VC   IMP+  Q+ETVR+VALDRSFHIGCY
Sbjct:   379 GLDGIPFTVDATSQIHCIEDFHRKFAPRCSVCGGAIMPEPGQEETVRIVALDRSFHIGCY 438

Query:   233 RCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTSTMVTE 277
             +CE+CGL+LSSE E +GCYPLD H+LCK+C+A R+Q L++T+ T+
Sbjct:   439 KCEECGLLLSSEGECQGCYPLDGHILCKACSAWRIQELSATVTTD 483

GO:0008270 "zinc ion binding" evidence=IEA

MGI|MGI:1343458 Trip6 "thyroid hormone receptor interactor 6" [Mus musculus (taxid:10090)]

 Score = 815 (292.0 bits), Expect = 4.0e-83, Sum P(2) = 4.0e-83
 Identities = 138/225 (61%), Positives = 173/225 (76%)

Query:    53 PPEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHC 112
             PPE E++ LT  LVH +      + FG C  CGE ++G+G+G  A+D+V+HI CF C  C
Sbjct:   255 PPEEELERLTKKLVHDMSHPPSGEYFGRCGGCGEDVVGDGAGVVALDRVFHIGCFVCSTC 314

Query:   113 AVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGK 172
               QL G+ FY +E  AYCE  Y+ TLEKCS C +PILDRILRA G+ YHP CFTCVVC +
Sbjct:   315 RAQLRGQHFYAVERRAYCESCYVATLEKCSTCSEPILDRILRAMGKAYHPGCFTCVVCHR 374

Query:   173 SLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCY 232
              LDGIPFTVDA +QIHCI+DFH+KFAPRC VC   IMP+  Q+ETVR+VALDRSFHIGCY
Sbjct:   375 GLDGIPFTVDATSQIHCIEDFHRKFAPRCSVCGGAIMPEPGQEETVRIVALDRSFHIGCY 434

Query:   233 RCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTSTMVTE 277
             +CE+CGL+LSSE E +GCYPLD H+LCK+C+A R+Q L++T+ T+
Sbjct:   435 KCEECGLLLSSEGECQGCYPLDGHILCKACSAWRIQELSATVTTD 479

GO:0005149 "interleukin-1 receptor binding" evidence=ISO

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005856 "cytoskeleton" evidence=IEA

GO:0005925 "focal adhesion" evidence=ISO

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

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0007155 "cell adhesion" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0008588 "release of cytoplasmic sequestered NF-kappaB" evidence=ISO

GO:0019900 "kinase binding" evidence=ISO

GO:0030054 "cell junction" evidence=IEA

GO:0030335 "positive regulation of cell migration" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|E1BMD6 LPP "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 807 (289.1 bits), Expect = 1.3e-82, Sum P(2) = 1.3e-82
 Identities = 135/225 (60%), Positives = 176/225 (78%)

Query:    54 PEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCA 113
             PE E++ LT  +++ ++     + FG C +CGE ++GEG+GCTAMD+V+H+ CFTC  C 
Sbjct:   391 PEDELEHLTKKMLYDMENPPTDEYFGRCARCGENVVGEGTGCTAMDQVFHVDCFTCIICN 450

Query:   114 VQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKS 173
              +L G+PFY +E  AYCE  Y++TLE+CSVC KPI++RILRATG+ YHP CFTCV+C +S
Sbjct:   451 NKLRGQPFYAVEKKAYCEPCYINTLEQCSVCSKPIMERILRATGKAYHPHCFTCVMCHRS 510

Query:   174 LDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYR 233
             LDGIPFTVDA   IHCI+DFHKKFAPRC VC+ PIMP   Q+ETVR+VALDR FH+ CYR
Sbjct:   511 LDGIPFTVDAGGLIHCIEDFHKKFAPRCSVCKEPIMPAPGQEETVRIVALDRDFHVHCYR 570

Query:   234 CEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTSTMVTEL 278
             CEDCG +LS E + +GCYPLD H+LCK+CN+ R++ LT+   T+L
Sbjct:   571 CEDCGGLLS-EGDNQGCYPLDGHILCKTCNSARIRVLTAKASTDL 614

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005925 "focal adhesion" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|Q93052 LPP "Lipoma-preferred partner" [Homo sapiens (taxid:9606)]

 Score = 804 (288.1 bits), Expect = 2.8e-82, Sum P(2) = 2.8e-82
 Identities = 134/225 (59%), Positives = 176/225 (78%)

Query:    54 PEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCA 113
             PE E++ LT  +++ ++     + FG C +CGE ++GEG+GCTAMD+V+H+ CFTC  C 
Sbjct:   389 PEDELEHLTKKMLYDMENPPADEYFGRCARCGENVVGEGTGCTAMDQVFHVDCFTCIICN 448

Query:   114 VQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKS 173
              +L G+PFY +E  AYCE  Y++TLE+C+VC KPI++RILRATG+ YHP CFTCV+C +S
Sbjct:   449 NKLRGQPFYAVEKKAYCEPCYINTLEQCNVCSKPIMERILRATGKAYHPHCFTCVMCHRS 508

Query:   174 LDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYR 233
             LDGIPFTVDA   IHCI+DFHKKFAPRC VC+ PIMP   Q+ETVR+VALDR FH+ CYR
Sbjct:   509 LDGIPFTVDAGGLIHCIEDFHKKFAPRCSVCKEPIMPAPGQEETVRIVALDRDFHVHCYR 568

Query:   234 CEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTSTMVTEL 278
             CEDCG +LS E + +GCYPLD H+LCK+CN+ R++ LT+   T+L
Sbjct:   569 CEDCGGLLS-EGDNQGCYPLDGHILCKTCNSARIRVLTAKASTDL 612

GO:0008270 "zinc ion binding" evidence=IEA

GO:0007155 "cell adhesion" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0008150 "biological_process" evidence=ND

GO:0005737 "cytoplasm" evidence=IDA

GO:0005925 "focal adhesion" evidence=IDA

RGD|1310535 Lpp "LIM domain containing preferred translocation partner in lipoma" [Rattus norvegicus (taxid:10116)]

 Score = 824 (295.1 bits), Expect = 3.6e-82, P = 3.6e-82
 Identities = 139/231 (60%), Positives = 180/231 (77%)

Query:    51 IPP---PEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVYHISCF 107
             +PP   PE E++ LT  +++ ++     D FG C +CGE ++GEG+GCTAMD+V+H+ CF
Sbjct:   403 VPPSFRPEDELEHLTKKMLYDMENPPADDYFGRCARCGENVVGEGTGCTAMDQVFHVDCF 462

Query:   108 TCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTC 167
             TC  C ++L G+PFY +E  AYCE  Y++TLE+CSVC KPI++RILRATG+ YHP CFTC
Sbjct:   463 TCMVCDIKLRGQPFYAVEKKAYCEPCYINTLEQCSVCSKPIMERILRATGKAYHPHCFTC 522

Query:   168 VVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSF 227
             V+C +SLDGIPFTVDA   IHCI+DFHKKFAPRC VC+ PIMP   Q+ETVR+VALDR F
Sbjct:   523 VMCHRSLDGIPFTVDACGLIHCIEDFHKKFAPRCSVCKEPIMPAPGQEETVRIVALDRDF 582

Query:   228 HIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTSTMVTEL 278
             H+ CYRCEDCG +LS E + +GCYPLD H+LCKSCN+ R++ LT+   T+L
Sbjct:   583 HVHCYRCEDCGGLLS-EGDNQGCYPLDGHILCKSCNSARIRVLTAKASTDL 632

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA;ISO

GO:0005925 "focal adhesion" evidence=IEA;ISO

GO:0007155 "cell adhesion" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1LSB9 Lpp "Lipoma-preferred partner homolog" [Rattus norvegicus (taxid:10116)]

 Score = 824 (295.1 bits), Expect = 3.6e-82, P = 3.6e-82
 Identities = 139/231 (60%), Positives = 180/231 (77%)

Query:    51 IPP---PEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGSGCTAMDKVYHISCF 107
             +PP   PE E++ LT  +++ ++     D FG C +CGE ++GEG+GCTAMD+V+H+ CF
Sbjct:   404 VPPSFRPEDELEHLTKKMLYDMENPPADDYFGRCARCGENVVGEGTGCTAMDQVFHVDCF 463

Query:   108 TCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTC 167
             TC  C ++L G+PFY +E  AYCE  Y++TLE+CSVC KPI++RILRATG+ YHP CFTC
Sbjct:   464 TCMVCDIKLRGQPFYAVEKKAYCEPCYINTLEQCSVCSKPIMERILRATGKAYHPHCFTC 523

Query:   168 VVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSF 227
             V+C +SLDGIPFTVDA   IHCI+DFHKKFAPRC VC+ PIMP   Q+ETVR+VALDR F
Sbjct:   524 VMCHRSLDGIPFTVDACGLIHCIEDFHKKFAPRCSVCKEPIMPAPGQEETVRIVALDRDF 583

Query:   228 HIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTSTMVTEL 278
             H+ CYRCEDCG +LS E + +GCYPLD H+LCKSCN+ R++ LT+   T+L
Sbjct:   584 HVHCYRCEDCGGLLS-EGDNQGCYPLDGHILCKSCNSARIRVLTAKASTDL 633

GO:0008270 "zinc ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q15654	TRIP6_HUMAN	No assigned EC number	0.5714	0.8705	0.5084	yes	N/A
Q8BFW7	LPP_MOUSE	No assigned EC number	0.6034	0.8201	0.3719	yes	N/A
Q5F464	LPP_CHICK	No assigned EC number	0.5846	0.8741	0.4023	yes	N/A
Q5XI07	LPP_RAT	No assigned EC number	0.5991	0.8201	0.3607	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	278
cd09437	68	cd09437, LIM3_LPP, The third LIM domain of lipoma	4e-39
cd09354	60	cd09354, LIM2_LPP, The second LIM domain of lipoma	5e-36
cd09357	63	cd09357, LIM3_Zyxin_like, The third LIM domain of	1e-30
cd09356	53	cd09356, LIM2_TRIP6, The second LIM domain of Thyr	6e-25
cd09436	66	cd09436, LIM3_TRIP6, The third LIM domain of Thyro	3e-24
cd09351	54	cd09351, LIM1_LPP, The first LIM domain of lipoma	3e-24
cd09435	67	cd09435, LIM3_Zyxin, The third LIM domain of Zyxin	3e-24
cd09353	60	cd09353, LIM2_Zyxin, The second LIM domain of Zyxi	3e-22
cd09438	62	cd09438, LIM3_Ajuba_like, The third LIM domain of	9e-21
cd09350	54	cd09350, LIM1_TRIP6, The first LIM domain of Thyro	3e-19
cd09355	53	cd09355, LIM2_Ajuba_like, The second LIM domain of	2e-17
cd09352	54	cd09352, LIM1_Ajuba_like, The first LIM domain of	2e-12
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	1e-11
cd09372	53	cd09372, LIM2_FBLP-1, The second LIM domain of the	7e-11
cd09349	87	cd09349, LIM1_Zyxin, The first LIM domain of Zyxin	1e-09
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	1e-09
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	5e-09
pfam00412	58	pfam00412, LIM, LIM domain	5e-09
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	2e-07
pfam00412	58	pfam00412, LIM, LIM domain	3e-07
cd09334	54	cd09334, LIM4_PINCH, The fourth LIM domain of prot	3e-07
cd09456	52	cd09456, LIM2_Enigma, The second LIM domain of Eni	5e-07
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	1e-06
cd09336	53	cd09336, LIM1_Paxillin_like, The first LIM domain	4e-06
cd09451	53	cd09451, LIM_RIL, The LIM domain of RIL	5e-06
cd09450	53	cd09450, LIM_ALP, This family represents the LIM d	9e-06
cd09336	53	cd09336, LIM1_Paxillin_like, The first LIM domain	1e-05
cd09362	52	cd09362, LIM2_Enigma_like, The second LIM domain o	1e-05
cd09406	55	cd09406, LIM1_Leupaxin, The first LIM domain of Le	2e-05
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	3e-05
cd09406	55	cd09406, LIM1_Leupaxin, The first LIM domain of Le	3e-05
cd09379	55	cd09379, LIM2_AWH, The second LIM domain of Arrowh	3e-05
cd09457	52	cd09457, LIM2_ENH, The second LIM domain of the En	4e-05
cd09387	55	cd09387, LIM2_LMO4, The second LIM domain of LMO4	5e-05
cd09329	52	cd09329, LIM3_abLIM, The third LIM domain of actin	5e-05
cd09361	52	cd09361, LIM1_Enigma_like, The first LIM domain of	9e-05
cd09392	53	cd09392, LIM2_Lrg1p_like, The second LIM domain of	1e-04
cd09360	52	cd09360, LIM_ALP_like, The LIM domain of ALP (acti	2e-04
cd09461	54	cd09461, LIM3_Enigma_like_1, The third LIM domain	2e-04
cd09466	56	cd09466, LIM1_Lhx3a, The first LIM domain of Lhx3a	3e-04
cd09328	56	cd09328, LIM2_abLIM, The second LIM domain on acti	3e-04
cd09327	52	cd09327, LIM1_abLIM, The first LIM domain of actin	3e-04
cd09375	56	cd09375, LIM2_Lhx1_Lhx5, The second LIM domain of	5e-04
cd09438	62	cd09438, LIM3_Ajuba_like, The third LIM domain of	6e-04
cd09405	54	cd09405, LIM1_Paxillin, The first LIM domain of pa	6e-04
cd09355	53	cd09355, LIM2_Ajuba_like, The second LIM domain of	7e-04
cd09391	57	cd09391, LIM1_Lrg1p_like, The first LIM domain of	7e-04
cd09408	52	cd09408, LIM2_Leupaxin, The second LIM domain of L	7e-04
cd09337	52	cd09337, LIM2_Paxillin_like, The second LIM domain	7e-04
cd09360	52	cd09360, LIM_ALP_like, The LIM domain of ALP (acti	8e-04
cd09363	54	cd09363, LIM3_Enigma_like, The third LIM domain of	0.001
cd09452	52	cd09452, LIM1_Enigma, The first LIM domain of Enig	0.001
cd09346	52	cd09346, LIM3_FHL, The third LIM domain of Four an	0.001
cd09357	63	cd09357, LIM3_Zyxin_like, The third LIM domain of	0.002
cd09334	54	cd09334, LIM4_PINCH, The fourth LIM domain of prot	0.002
cd09329	52	cd09329, LIM3_abLIM, The third LIM domain of actin	0.002
cd09327	52	cd09327, LIM1_abLIM, The first LIM domain of actin	0.002
cd09387	55	cd09387, LIM2_LMO4, The second LIM domain of LMO4	0.003
cd09338	53	cd09338, LIM3_Paxillin_like, The third LIM domain	0.003
cd09338	53	cd09338, LIM3_Paxillin_like, The third LIM domain	0.003
cd09358	53	cd09358, LIM_Mical_like, The LIM domain of Mical (	0.004
cd09397	58	cd09397, LIM1_UF1, LIM domain in proteins of unkno	0.004

>gnl|CDD|188821 cd09437, LIM3_LPP, The third LIM domain of lipoma preferred partner (LPP)

 Score =  130 bits (329), Expect = 4e-39
 Identities = 59/68 (86%), Positives = 64/68 (94%)

Query: 201 CCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCK 260
           CCVC+ PIMP+  QDETVRVVALDRSFH+ CY+CEDCGL+LSSEAEGRGCYPLDDHVLCK
Sbjct: 1   CCVCKLPIMPEPGQDETVRVVALDRSFHVQCYKCEDCGLLLSSEAEGRGCYPLDDHVLCK 60

Query: 261 SCNAKRVQ 268
           SCNAKRVQ
Sbjct: 61  SCNAKRVQ 68

The third LIM domain of lipoma preferred partner (LPP): LPP is a member of the zyxin LIM protein family and contains three LIM zinc-binding domains at the C-terminal and proline-rich region at the N-terminal. LPP initially identified as the most frequent translocation partner of HMGA2 (High Mobility Group A2) in a subgroup of benign tumors of adipose tissue (lipomas). It was also shown to be rearranged in a number of other soft tissues, as well as in a case of acute monoblastic leukemia. In addition to its involvement in tumors, LPP was inedited as a smooth muscle restricted LIM protein that plays an important role in SMC migration. LPP is localized at sites of cell adhesion, cell-cell contacts and transiently in the nucleus. In nucleus, it acts as a coactivator for the ETS domain transcription factor PEA3. In addition to PEA3, it interacts with alpha-actinin,vasodilator stimulated phosphoprotein (VASP), Palladin, and Scrib. The LIM domains are the main focal adhesion targeting elements and that the proline- rich region, which harbors binding sites for alpha-actinin and vasodilator- stimulated phosphoprotein (VASP), has a weak targeting capacity. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 68

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

 Score =  122 bits (308), Expect = 5e-36
 Identities = 55/60 (91%), Positives = 57/60 (95%)

Query: 141 CSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPR 200
           CSVC KPILDRILRATG+PYHP CFTCVVCGKSLDGIPFTVDA NQIHCI+DFHKKFAPR
Sbjct: 1   CSVCSKPILDRILRATGKPYHPQCFTCVVCGKSLDGIPFTVDATNQIHCIEDFHKKFAPR 60

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

>gnl|CDD|188743 cd09357, LIM3_Zyxin_like, The third LIM domain of Zyxin-like family

 Score =  109 bits (273), Expect = 1e-30
 Identities = 47/63 (74%), Positives = 55/63 (87%)

Query: 201 CCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCK 260
           C VC  PIMP+  QDETVR+VALDRSFH+ CY+CEDCG++LSSE EG+GCYPLD H+LCK
Sbjct: 1   CSVCGEPIMPEPGQDETVRIVALDRSFHVNCYKCEDCGMLLSSEDEGQGCYPLDGHLLCK 60

Query: 261 SCN 263
           SCN
Sbjct: 61  SCN 63

The third LIM domain of Zyxin like family: This family includes Ajuba, Limd1, WTIP, Zyxin, LPP, and Trip6 LIM proteins. Members of Zyxin family contain three tandem C-terminal LIM domains, and a proline-rich N-terminal region. Zyxin proteins are detected primarily in focal adhesion plaques. They function as scaffolds, participating in the assembly of multiple interactions and signal transduction networks, which regulate cell adhesion, spreading, and motility. They can also shuffle into nucleus. In nucleus, zyxin proteins affect gene transcription by interaction with a variety of nuclear proteins, including several transcription factors, playing regulating roles in cell proliferation, differentiation and apoptosis. 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|188742 cd09356, LIM2_TRIP6, The second LIM domain of Thyroid receptor-interacting protein 6 (TRIP6)

 Score = 93.8 bits (233), Expect = 6e-25
 Identities = 42/53 (79%), Positives = 47/53 (88%)

Query: 141 CSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDF 193
           CSVC KPI++RILRATG+ YHP CFTCVVC +SLDGIPFTVDA  QIHCI+DF
Sbjct: 1   CSVCSKPIMERILRATGKAYHPHCFTCVVCHRSLDGIPFTVDATGQIHCIEDF 53

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

>gnl|CDD|188820 cd09436, LIM3_TRIP6, The third LIM domain of Thyroid receptor-interacting protein 6 (TRIP6)

 Score = 92.4 bits (229), Expect = 3e-24
 Identities = 43/67 (64%), Positives = 54/67 (80%), Gaps = 1/67 (1%)

Query: 201 CCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCK 260
           C VC+ PIMP   Q+ETVR+VALDR FH+ CYRCEDCG +L SE + +GCYPLD H+LCK
Sbjct: 1   CSVCKEPIMPAPGQEETVRIVALDRDFHVQCYRCEDCGSLL-SEGDNQGCYPLDGHILCK 59

Query: 261 SCNAKRV 267
           +CN+ R+
Sbjct: 60  ACNSARI 66

The third LIM domain of Thyroid receptor-interacting protein 6 (TRIP6): TRIP6 is a member of the zyxin LIM protein family and contains three LIM zinc-binding domains at the C-terminal. TRIP6 protein localizes to focal adhesion sites and along actin stress fibers. Recruitment of this protein to the plasma membrane occurs in a lysophosphatidic acid (LPA)-dependent manner. TRIP6 recruits a number of molecules involved in actin assembly, cell motility, survival and transcriptional control. The function of TRIP6 in cell motility is regulated by Src-dependent phosphorylation at a Tyr residue. The phosphorylation activates the coupling to the Crk SH2 domain, which is required for the function of TRIP6 in promoting lysophosphatidic acid (LPA)-induced cell migration. TRIP6 can shuttle to the nucleus to serve as a coactivator of AP-1 and NF-kappaB transcriptional factors. Moreover, TRIP6 can form a ternary complex with the NHERF2 PDZ protein and LPA2 receptor to regulate LPA-induced activation of ERK and AKT, rendering cells resistant to chemotherapy. Recent evidence shows that TRIP6 antagonizes Fas-Induced apoptosis by enhancing the antiapoptotic effect of LPA in cells. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 66

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

 Score = 92.1 bits (229), Expect = 3e-24
 Identities = 37/54 (68%), Positives = 45/54 (83%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C KCGE++LGEGSGCTAMD+VYHISCFTC  C + L+GKPFY ++G  YCE+ Y
Sbjct: 1   CVKCGEKVLGEGSGCTAMDQVYHISCFTCHQCQINLQGKPFYALDGKPYCEEDY 54

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

>gnl|CDD|188819 cd09435, LIM3_Zyxin, The third LIM domain of Zyxin

 Score = 92.2 bits (229), Expect = 3e-24
 Identities = 41/66 (62%), Positives = 51/66 (77%)

Query: 201 CCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCK 260
           CCVC  PIMP+  +DETVRVVAL+++FH+ CY+CEDCG  LS EA+  GC+PLD HVLC 
Sbjct: 1   CCVCSEPIMPEPGRDETVRVVALEKNFHMKCYKCEDCGRPLSIEADDNGCFPLDGHVLCM 60

Query: 261 SCNAKR 266
            C+  R
Sbjct: 61  KCHTAR 66

The third LIM domain of Zyxin: Zyxin exhibits three copies of the LIM domain, an extensive proline-rich domain and a nuclear export signal. Localized at sites of cellsubstratum adhesion in fibroblasts, Zyxin interacts with alpha-actinin, members of the cysteine-rich protein (CRP) family, proteins that display Src homology 3 (SH3) domains and Ena/VASP family members. Zyxin and its partners have been implicated in the spatial control of actin filament assembly as well as in pathways important for cell differentiation. In addition to its functions at focal adhesion plaques, recent work has shown that zyxin moves from the sites of cell contacts to the nucleus, where it directly participates in the regulation of gene expression. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 67

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

 Score = 86.9 bits (215), Expect = 3e-22
 Identities = 35/60 (58%), Positives = 46/60 (76%)

Query: 141 CSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPR 200
           C+VC + I DR+L+ATG+ YHP CFTCVVC   L+G  F VD ANQ HC+ D+H+++APR
Sbjct: 1   CAVCDQKITDRMLKATGKSYHPQCFTCVVCKCPLEGESFIVDQANQPHCVNDYHRRYAPR 60

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

>gnl|CDD|188822 cd09438, LIM3_Ajuba_like, The third LIM domain of Ajuba-like proteins

 Score = 83.2 bits (206), Expect = 9e-21
 Identities = 34/62 (54%), Positives = 44/62 (70%), Gaps = 1/62 (1%)

Query: 201 CCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCK 260
           C  C  PI+P    +ET+RVV++D+ +H+ CY CEDCGL L+ E EG  CYPLD H+LC 
Sbjct: 1   CAACGQPILPAEGSEETIRVVSMDKDYHVECYHCEDCGLQLNDE-EGHRCYPLDGHLLCH 59

Query: 261 SC 262
           SC
Sbjct: 60  SC 61

The third LIM domain of Ajuba-like proteins: Ajuba like LIM protein family includes three highly homologous proteins Ajuba, Limd1, and WTIP. Members of the family contain three tandem C-terminal LIM domains and a proline-rich N-terminal region. This family of proteins functions as scaffolds, participating in the assembly of numerous protein complexes. In the cytoplasm, Ajuba binds Grb2 to modulate serum-stimulated ERK activation. Ajuba also recruits the TNF receptor-associated factor 6 (TRAF6) to p62 and activates PKCKappa activity. Ajuba interacts with alpha-catenin and F-actin to contribute to the formation or stabilization of adheren junctions by linking adhesive receptors to the actin cytoskeleton. Although Ajuba is a cytoplasmic protein, it can shuttle into the nucleus. In nucleus, Ajuba functions as a corepressor for the zinc finger-protein Snail. It binds to the SNAG repression domain of Snail through its LIM region. Arginine methyltransferase-5 (Prmt5), a protein in the complex, is recruited to Snai l through an interaction with Ajuba. This ternary complex functions to repress E-cadherin, a Snail target gene. In addition, Ajuba contains functional nuclear-receptor interacting motifs and selectively interacts with retinoic acid receptors (RARs) and rexinoid receptor (RXRs) to negatively regulate retinoic acid signaling. Wtip, the Wt1-interacting protein, was originally identified as an interaction partner of the Wilms tumour protein 1 (WT1). Wtip is involved in kidney and neural crest development. Wtip interacts with the receptor tyrosine kinase Ror2 and inhibits canonical Wnt signaling. LIMD1 was reported to inhibit cell growth and metastases. The inhibition may be mediated through an interaction with the protein barrier-to-autointegration (BAF), a component of SWI/SNF chromatin-remodeling protein; or through the interaction with retinoblastoma protein (pRB), resulting in inhibition of E2F-mediated transcription, and expression of the majority of genes with E2F1- responsive elements. Recently, Limd1 was shown to interact with the p62/sequestosome protein and influence IL-1 and RANKL signaling by facilitating the assembly of a p62/TRAF6/a-PKC multi-protein complex. The Limd1-p62 interaction affects both NF-kappaB and AP-1 activity in epithelial cells and osteoclasts. Moreover, LIMD1 functions as tumor repressor to block lung tumor cell line in vitro and in vivo. Recent studies revealed that LIM proteins Wtip, LIMD1 and Ajuba interact with components of RNA induced silencing complexes (RISC) as well as eIF4E and the mRNA m7GTP cap-protein complex and are required for microRNA-mediated gene silencing. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 62

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

 Score = 79.0 bits (195), Expect = 3e-19
 Identities = 31/54 (57%), Positives = 41/54 (75%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C +CGE ++GEG+GCTAMD+V+H+ CFTC  C  +L G+PFY +E  AYCE  Y
Sbjct: 1   CGRCGENVVGEGTGCTAMDQVFHVDCFTCMTCNGKLRGQPFYAVEKKAYCEPCY 54

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

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

 Score = 73.9 bits (182), Expect = 2e-17
 Identities = 28/53 (52%), Positives = 39/53 (73%)

Query: 141 CSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDF 193
           C+VC   I++ IL+A G+ YHP CF C VC + LDG+PFTVD  N I+C++D+
Sbjct: 1   CAVCGHLIMEMILQALGKSYHPGCFRCCVCNECLDGVPFTVDVENNIYCVKDY 53

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

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

 Score = 60.5 bits (147), Expect = 2e-12
 Identities = 25/54 (46%), Positives = 31/54 (57%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C KCG+ + G    C AM  +YH +CFTC  C   L GK FY + G  YCE+ Y
Sbjct: 1   CVKCGKGVYGASQACQAMGNLYHTNCFTCCSCGRTLRGKAFYNVNGKVYCEEDY 54

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

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

 Score = 58.1 bits (141), Expect = 1e-11
 Identities = 21/54 (38%), Positives = 26/54 (48%), Gaps = 1/54 (1%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C  CG+ I G      A+ K +H  CF C  C   L G  FY  +G  YCE+ Y
Sbjct: 1   CAGCGKPIEGREL-LRALGKKWHPECFKCSVCGKPLGGDSFYEKDGKPYCEKCY 53

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

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

 Score = 56.3 bits (136), Expect = 7e-11
 Identities = 23/53 (43%), Positives = 34/53 (64%)

Query: 141 CSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDF 193
           C+ C   I + I+RA G+ YHP CFTCV CG+ +    F VD  N+++C+ D+
Sbjct: 1   CAKCQGVITEHIIRALGKGYHPPCFTCVTCGRRIGDESFAVDEQNEVYCLDDY 53

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

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

 Score = 54.1 bits (130), Expect = 1e-09
 Identities = 27/80 (33%), Positives = 45/80 (56%), Gaps = 2/80 (2%)

Query: 57  EVDALTDLLVHSLD--TSSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAV 114
           E++ LT  L+  +D   ++E+     C  CG+ +        A+  ++H++CFTC  C  
Sbjct: 8   ELEMLTQQLMQDMDHPPAAEAATNELCGICGQPLSRTQPAVRALGHLFHVTCFTCHQCEQ 67

Query: 115 QLEGKPFYIIEGHAYCEQGY 134
           QL+G+ FY +EG  YCE+ Y
Sbjct: 68  QLQGQQFYSLEGKPYCEECY 87

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

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

 Score = 52.8 bits (127), Expect = 1e-09
 Identities = 19/51 (37%), Positives = 25/51 (49%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCE 131
           C  CG+ I G      A+ KV+H  CF C  C   L G  F+  +G  YC+
Sbjct: 2   CAGCGKPIYGTERVLRALGKVWHPECFKCATCGKPLSGDTFFEKDGKLYCK 52

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

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

 Score = 51.2 bits (123), Expect = 5e-09
 Identities = 23/54 (42%), Positives = 31/54 (57%), Gaps = 2/54 (3%)

Query: 141 CSVCVKPILDR-ILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDF 193
           C+ C KPI  R +LRA G+ +HP CF C VCGK L G  F      + +C + +
Sbjct: 1   CAGCGKPIEGRELLRALGKKWHPECFKCSVCGKPLGGDSFYEK-DGKPYCEKCY 53

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

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

 Score = 51.2 bits (123), Expect = 5e-09
 Identities = 18/56 (32%), Positives = 24/56 (42%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLD 136
           C  CG+ I        A+ KV+H  CF C  C   L    F+  +G  YC+  Y  
Sbjct: 1   CAGCGKPIYDRELVRRALGKVWHPECFRCAVCGKPLGPGDFFEKDGKLYCKHDYFK 56

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 = 46.2 bits (110), Expect = 2e-07
 Identities = 23/55 (41%), Positives = 30/55 (54%), Gaps = 3/55 (5%)

Query: 140 KCSVCVKPILD--RILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQD 192
           KC+ C KPI    R+LRA G+ +HP CF C  CGK L G  F      +++C   
Sbjct: 1   KCAGCGKPIYGTERVLRALGKVWHPECFKCATCGKPLSGDTFFEK-DGKLYCKDC 54

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

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

 Score = 46.6 bits (111), Expect = 3e-07
 Identities = 28/60 (46%), Positives = 35/60 (58%), Gaps = 5/60 (8%)

Query: 141 CSVCVKPILDRIL--RATGRPYHPACFTCVVCGKSL-DGIPFTVDAANQIHCIQDFHKKF 197
           C+ C KPI DR L  RA G+ +HP CF C VCGK L  G  F  D   +++C  D+ K F
Sbjct: 1   CAGCGKPIYDRELVRRALGKVWHPECFRCAVCGKPLGPGDFFEKDG--KLYCKHDYFKLF 58

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

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

 Score = 45.8 bits (109), Expect = 3e-07
 Identities = 20/54 (37%), Positives = 24/54 (44%), Gaps = 2/54 (3%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C  C   I  EG   TA+ K +H+  F C  C     G   Y  +G AYCE  Y
Sbjct: 3   CGACRRPI--EGRVVTALGKHWHVEHFVCAKCEKPFLGHRHYEKKGLAYCETHY 54

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

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

 Score = 45.4 bits (107), Expect = 5e-07
 Identities = 21/54 (38%), Positives = 30/54 (55%), Gaps = 2/54 (3%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C KC ++I GE     A+   +H+ CFTC  C   +  + FY+ EG  YCE+ Y
Sbjct: 1   CAKCKKKITGEI--MHALKMTWHVHCFTCAACKTPIRNRAFYMEEGAPYCERDY 52

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

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

 Score = 44.3 bits (105), Expect = 1e-06
 Identities = 18/63 (28%), Positives = 26/63 (41%), Gaps = 9/63 (14%)

Query: 200 RCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLC 259
           +C  C  PI           + AL + +H  C++C  CG  LS    G   +  D  + C
Sbjct: 1   KCAGCGKPIYGTER-----VLRALGKVWHPECFKCATCGKPLS----GDTFFEKDGKLYC 51

Query: 260 KSC 262
           K C
Sbjct: 52  KDC 54

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

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

 Score = 42.7 bits (101), Expect = 4e-06
 Identities = 19/54 (35%), Positives = 28/54 (51%), Gaps = 2/54 (3%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C  C + I+G+    TA+ K +H   F C  C  +L  K F+  +G  YCE+ Y
Sbjct: 1   CAACKKPIVGQV--VTALGKTWHPEHFVCAECKTELGTKNFFERDGQPYCEKDY 52

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

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

 Score = 42.6 bits (100), Expect = 5e-06
 Identities = 20/51 (39%), Positives = 30/51 (58%), Gaps = 2/51 (3%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCE 131
           C +CG  I+G  +   A DK+YH  CF CD C + L+ + ++ I+   YCE
Sbjct: 1   CTRCGNGIVG--TIVKARDKLYHPECFMCDDCGLNLKQRGYFFIDEQLYCE 49

The LIM domain of RIL: RIL contains an N-terminal PDZ domain, a LIM domain, and a short consensus C-terminal region. It is the smallest molecule in the ALP LIM domain containing protein family. RIL was identified in rat fibroblasts and in human lymphocytes. The LIM domain interacts with the AMPA glutamate receptor in dendritic spines. The consensus C-terminus interacts with PTP-BL, a submembranous protein tyrosine phosphatase and the PDZ domain is responsible to interact with alpha-actinin molecules. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 53

>gnl|CDD|188834 cd09450, LIM_ALP, This family represents the LIM domain of ALP, actinin-associated LIM protein

 Score = 41.8 bits (98), Expect = 9e-06
 Identities = 21/51 (41%), Positives = 28/51 (54%), Gaps = 2/51 (3%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCE 131
           C KCG  I+G  +   A DK  H  CF C  C + L+ K ++ +EG  YCE
Sbjct: 1   CDKCGSGIVG--TVVKARDKYRHPECFVCSDCNLNLKQKGYFFVEGQLYCE 49

This family represents the LIM domain of ALP, actinin-associated LIM protein. ALP contains an N-terminal PDZ domain, a C-terminal LIM domain and an ALP-subfamily-specific 34-amino-acid motif termed ALP-like motif (AM), which contains a putative consensus protein kinase C (PKC) phosphorylation site and two alpha-helices. ALP proteins are found in heart and in skeletal muscle. ALP may act as a signaling molecule which is regulated by PKC-dependent signaling. ALP plays an essential role in the development of RV (right ventricle) chamber. 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|188722 cd09336, LIM1_Paxillin_like, The first LIM domain of the paxillin like protein family

 Score = 41.5 bits (98), Expect = 1e-05
 Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 1/54 (1%)

Query: 141 CSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFH 194
           C+ C KPI+ +++ A G+ +HP  F C  C   L    F  +   Q +C +D+H
Sbjct: 1   CAACKKPIVGQVVTALGKTWHPEHFVCAECKTELGTKNF-FERDGQPYCEKDYH 53

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

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

 Score = 41.3 bits (97), Expect = 1e-05
 Identities = 19/54 (35%), Positives = 31/54 (57%), Gaps = 2/54 (3%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C +C ++ILGE     A+ + +H+SCF C  C   +    F++ +G  YCE+ Y
Sbjct: 1   CARCHKKILGEV--MHALKQTWHVSCFVCAACKQPIGNSLFHMEDGEPYCEKDY 52

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

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

 Score = 41.0 bits (96), Expect = 2e-05
 Identities = 20/56 (35%), Positives = 30/56 (53%), Gaps = 2/56 (3%)

Query: 79  GECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           G+C  C + I G+    TA+ + +H   F C  C  +L  +PF+   G AYCE+ Y
Sbjct: 1   GDCASCQKPIAGQV--VTALGQTWHPEHFVCCQCGKELGSRPFFERNGQAYCEEDY 54

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

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

 Score = 40.4 bits (95), Expect = 3e-05
 Identities = 17/62 (27%), Positives = 23/62 (37%), Gaps = 10/62 (16%)

Query: 201 CCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCK 260
           C  C  PI           + AL + +H  C++C  CG  L     G   Y  D    C+
Sbjct: 1   CAGCGKPIEG------RELLRALGKKWHPECFKCSVCGKPLG----GDSFYEKDGKPYCE 50

Query: 261 SC 262
            C
Sbjct: 51  KC 52

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|188790 cd09406, LIM1_Leupaxin, The first LIM domain of Leupaxin

 Score = 40.6 bits (95), Expect = 3e-05
 Identities = 21/54 (38%), Positives = 31/54 (57%), Gaps = 1/54 (1%)

Query: 141 CSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFH 194
           C+ C KPI  +++ A G+ +HP  F C  CGK L   PF  +   Q +C +D+H
Sbjct: 3   CASCQKPIAGQVVTALGQTWHPEHFVCCQCGKELGSRPF-FERNGQAYCEEDYH 55

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

>gnl|CDD|188765 cd09379, LIM2_AWH, The second LIM domain of Arrowhead (AWH)

 Score = 40.5 bits (95), Expect = 3e-05
 Identities = 22/55 (40%), Positives = 27/55 (49%), Gaps = 1/55 (1%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLE-GKPFYIIEGHAYCEQGY 134
           C KC   I        A D VYH++CF CD C  QL  G+ F +IE    C+  Y
Sbjct: 1   CAKCSRNISASDWVRRARDHVYHLACFACDACKRQLSTGEEFALIEDRVLCKAHY 55

The second LIM domain of Arrowhead (AWH): Arrowhead belongs to the LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs such as the pituitary gland and the pancreas. During embryogenesis of Drosophila, Arrowhead is expressed in each abdominal segment and in the labial segment. Late in embryonic development, expression of arrowhead is refined to the abdominal histoblasts and salivary gland imaginal ring cells themselves. The Arrowhead gene required for establishment of a subset of imaginal tissues: the abdominal histoblasts and the salivary gland imaginal rings. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 55

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

 Score = 40.0 bits (93), Expect = 4e-05
 Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 2/54 (3%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C +C  +ILGE     A+ + +H+SCF C  C   +    F++ +G  YCE  Y
Sbjct: 1   CGRCQRKILGEV--INALKQTWHVSCFVCVACHNPIRNNVFHLEDGEPYCETDY 52

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

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

 Score = 40.2 bits (94), Expect = 5e-05
 Identities = 20/53 (37%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQL-EGKPFYIIEGHAYCEQ 132
           C  CG+ I        A   VYH+ CFTC  C  QL  G  F+ + G  +CE 
Sbjct: 1   CSACGQSIPASELVMRAQGNVYHLKCFTCSTCHNQLVPGDRFHYVNGSLFCEH 53

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

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

 Score = 39.6 bits (93), Expect = 5e-05
 Identities = 21/55 (38%), Positives = 29/55 (52%), Gaps = 4/55 (7%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYI-IEGHAYCEQGY 134
           C  CG+ I   G    A+DK +H+ CF C  C   L G+  Y+  +G  YCE+ Y
Sbjct: 1   CAGCGQEI-KNGQALLALDKQWHVWCFKCKECGKVLTGE--YMGKDGKPYCERDY 52

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

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

 Score = 38.9 bits (91), Expect = 9e-05
 Identities = 19/49 (38%), Positives = 25/49 (51%), Gaps = 1/49 (2%)

Query: 141 CSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHC 189
           C+ C + I    L A GR +HP  FTC  C  SL  I F V+    ++C
Sbjct: 1   CAHCNQVIRGPFLVALGRSWHPEEFTCSHCHCSLAEIGF-VEEKGSLYC 48

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

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

 Score = 38.9 bits (91), Expect = 1e-04
 Identities = 20/55 (36%), Positives = 25/55 (45%), Gaps = 3/55 (5%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLE-GKPFYIIEGHAYCEQGY 134
           C KCG  +   GS  TA+ + YH+  FTC  C         +Y  EG  YC   Y
Sbjct: 1   CFKCGGAL--RGSYITALGRKYHVEHFTCSVCPTVFGPNDSYYEHEGKIYCHYHY 53

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

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

 Score = 38.1 bits (89), Expect = 2e-04
 Identities = 21/51 (41%), Positives = 26/51 (50%), Gaps = 2/51 (3%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCE 131
           C KCG  I+G      A DK  H  CF C  C + L+ K ++ IE   YCE
Sbjct: 1   CDKCGNGIVG--VVVKARDKNRHPECFVCADCGLNLKNKGYFFIEDELYCE 49

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

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

 Score = 38.3 bits (89), Expect = 2e-04
 Identities = 19/51 (37%), Positives = 24/51 (47%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCE 131
           C  CG  I        A++  YH  CF C  C V LEG+ FY   G  +C+
Sbjct: 1   CVSCGFPIEAGDRWVEALNNNYHSQCFNCTRCNVNLEGQSFYAKGGRPFCK 51

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

>gnl|CDD|188850 cd09466, LIM1_Lhx3a, The first LIM domain of Lhx3a

 Score = 37.8 bits (88), Expect = 3e-04
 Identities = 21/55 (38%), Positives = 29/55 (52%), Gaps = 3/55 (5%)

Query: 140 KCSVCVKPILDR-ILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDF 193
           KC+ C  PI DR IL+   +P+H  C  CV C   L    F+     Q++C +DF
Sbjct: 3   KCAGCDHPIFDRFILKVQDKPWHSKCLKCVDCQAQLTDKCFSRG--GQVYCKEDF 55

The first LIM domain of Lhx3a: Lhx3a is a member of LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs, such as the pituitary gland and the pancreas. Lhx3a is one of the two isoforms of Lhx3. The Lhx3 gene is expressed in the ventral spinal cord, the pons, the medulla oblongata, and the pineal gland of the developing nervous system during mouse embryogenesis, and transcripts are found in the emergent pituitary gland. Lhx3 functions in concert with other transcription factors to specify interneuron and motor neuron fates during development. Lhx3 proteins have been demonstrated to directly bind to the promoters of several pituitary hormone gene promoters. The Lhx3 gene encodes two isoforms, LHX3a and LHX3b that differ in their amino-terminal sequences, where Lhx3a has longer N-terminal. They show differential activation of pituitary hormone genes and distinct DNA binding properties. In human, Lhx3a trans-activated the alpha-glycoprotein subunit promoter and genes containing a high-affinity Lhx3 binding site more effectively than the hLhx3b isoform. In addition, hLhx3a induce transcription of the TSHbeta-subunit gene by acting on pituitary POU domain factor, Pit-1, while hLhx3b does not. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 56

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

 Score = 37.7 bits (88), Expect = 3e-04
 Identities = 13/33 (39%), Positives = 18/33 (54%)

Query: 140 KCSVCVKPILDRILRATGRPYHPACFTCVVCGK 172
           KC  C   +   ++ A G+ YHP CF C VC +
Sbjct: 3   KCDSCQDFVEGEVVSALGKTYHPKCFVCSVCRQ 35

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

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

 Score = 37.6 bits (88), Expect = 3e-04
 Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 141 CSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDF 193
           C  C K     +LR   + +H  CFTC VCG  L    F V    + +C  D+
Sbjct: 1   CYKCGKKCKGEVLRVQDKYFHIKCFTCKVCGCDLAQGGFFV-KEGEYYCTDDY 52

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

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

 Score = 37.0 bits (86), Expect = 5e-04
 Identities = 20/56 (35%), Positives = 31/56 (55%), Gaps = 2/56 (3%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLE-GKPFYIIEGHAY-CEQGY 134
           C  C + I        A DKV+H++CFTC  C  QL  G+  YI++ + + C++ Y
Sbjct: 1   CAGCDQGISPNDLVRRARDKVFHLNCFTCMVCRKQLSTGEELYILDENKFICKEDY 56

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

>gnl|CDD|188822 cd09438, LIM3_Ajuba_like, The third LIM domain of Ajuba-like proteins

 Score = 37.0 bits (86), Expect = 6e-04
 Identities = 25/58 (43%), Positives = 33/58 (56%), Gaps = 8/58 (13%)

Query: 81  CCKCGERIL-GEGSGCT----AMDKVYHISCFTCDHCAVQL---EGKPFYIIEGHAYC 130
           C  CG+ IL  EGS  T    +MDK YH+ C+ C+ C +QL   EG   Y ++GH  C
Sbjct: 1   CAACGQPILPAEGSEETIRVVSMDKDYHVECYHCEDCGLQLNDEEGHRCYPLDGHLLC 58

The third LIM domain of Ajuba-like proteins: Ajuba like LIM protein family includes three highly homologous proteins Ajuba, Limd1, and WTIP. Members of the family contain three tandem C-terminal LIM domains and a proline-rich N-terminal region. This family of proteins functions as scaffolds, participating in the assembly of numerous protein complexes. In the cytoplasm, Ajuba binds Grb2 to modulate serum-stimulated ERK activation. Ajuba also recruits the TNF receptor-associated factor 6 (TRAF6) to p62 and activates PKCKappa activity. Ajuba interacts with alpha-catenin and F-actin to contribute to the formation or stabilization of adheren junctions by linking adhesive receptors to the actin cytoskeleton. Although Ajuba is a cytoplasmic protein, it can shuttle into the nucleus. In nucleus, Ajuba functions as a corepressor for the zinc finger-protein Snail. It binds to the SNAG repression domain of Snail through its LIM region. Arginine methyltransferase-5 (Prmt5), a protein in the complex, is recruited to Snai l through an interaction with Ajuba. This ternary complex functions to repress E-cadherin, a Snail target gene. In addition, Ajuba contains functional nuclear-receptor interacting motifs and selectively interacts with retinoic acid receptors (RARs) and rexinoid receptor (RXRs) to negatively regulate retinoic acid signaling. Wtip, the Wt1-interacting protein, was originally identified as an interaction partner of the Wilms tumour protein 1 (WT1). Wtip is involved in kidney and neural crest development. Wtip interacts with the receptor tyrosine kinase Ror2 and inhibits canonical Wnt signaling. LIMD1 was reported to inhibit cell growth and metastases. The inhibition may be mediated through an interaction with the protein barrier-to-autointegration (BAF), a component of SWI/SNF chromatin-remodeling protein; or through the interaction with retinoblastoma protein (pRB), resulting in inhibition of E2F-mediated transcription, and expression of the majority of genes with E2F1- responsive elements. Recently, Limd1 was shown to interact with the p62/sequestosome protein and influence IL-1 and RANKL signaling by facilitating the assembly of a p62/TRAF6/a-PKC multi-protein complex. The Limd1-p62 interaction affects both NF-kappaB and AP-1 activity in epithelial cells and osteoclasts. Moreover, LIMD1 functions as tumor repressor to block lung tumor cell line in vitro and in vivo. Recent studies revealed that LIM proteins Wtip, LIMD1 and Ajuba interact with components of RNA induced silencing complexes (RISC) as well as eIF4E and the mRNA m7GTP cap-protein complex and are required for microRNA-mediated gene silencing. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 62

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

 Score = 36.9 bits (85), Expect = 6e-04
 Identities = 17/54 (31%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 141 CSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFH 194
           C  C KPI  +++ A G+ +HP  F C  C + +    F  +   Q +C +D+H
Sbjct: 2   CGACKKPIAGQVVTAMGKTWHPEHFVCTHCQEEIGSRNF-FERDGQPYCEKDYH 54

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

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

 Score = 36.6 bits (85), Expect = 7e-04
 Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 3/55 (5%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYI-IEGHAYCEQGY 134
           C  CG  I+       A+ K YH  CF C  C   L+G PF + +E + YC + Y
Sbjct: 1   CAVCGHLIMEMI--LQALGKSYHPGCFRCCVCNECLDGVPFTVDVENNIYCVKDY 53

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

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

 Score = 36.9 bits (86), Expect = 7e-04
 Identities = 17/32 (53%), Positives = 20/32 (62%)

Query: 141 CSVCVKPILDRILRATGRPYHPACFTCVVCGK 172
           C+ C KPI  + +RA G  YH  CFTC  CGK
Sbjct: 1   CAKCGKPITGQFVRALGDVYHLDCFTCHDCGK 32

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

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

 Score = 36.7 bits (85), Expect = 7e-04
 Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 141 CSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDF 193
           C+ C  PIL  +L A  + +HP  F C  CG+ L G    ++   + +C +DF
Sbjct: 1   CAYCAGPILQNVLTAMDQTWHPEHFFCSHCGE-LFGDEGFLERDGKPYCRRDF 52

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

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

 Score = 36.6 bits (85), Expect = 7e-04
 Identities = 14/32 (43%), Positives = 19/32 (59%)

Query: 141 CSVCVKPILDRILRATGRPYHPACFTCVVCGK 172
           C+ C  PILD+ + A  + +HP  F C  CGK
Sbjct: 1   CAYCNGPILDKCVTALDKTWHPEHFFCAQCGK 32

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

 Score = 36.2 bits (84), Expect = 8e-04
 Identities = 12/34 (35%), Positives = 18/34 (52%)

Query: 141 CSVCVKPILDRILRATGRPYHPACFTCVVCGKSL 174
           C  C   I+  +++A  +  HP CF C  CG +L
Sbjct: 1   CDKCGNGIVGVVVKARDKNRHPECFVCADCGLNL 34

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

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

 Score = 36.3 bits (84), Expect = 0.001
 Identities = 13/34 (38%), Positives = 18/34 (52%)

Query: 97  AMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYC 130
           A+   +H +CF C  C V LEG+ FY  +    C
Sbjct: 17  ALGHTWHDTCFVCAVCHVNLEGQTFYSKKDKPLC 50

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

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

 Score = 35.9 bits (83), Expect = 0.001
 Identities = 19/35 (54%), Positives = 20/35 (57%)

Query: 141 CSVCVKPILDRILRATGRPYHPACFTCVVCGKSLD 175
           C+ C K I  R L A GR YHP  FTC  C K LD
Sbjct: 1   CAQCNKIIRGRYLVALGRSYHPEEFTCSQCKKVLD 35

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

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

 Score = 35.8 bits (83), Expect = 0.001
 Identities = 18/50 (36%), Positives = 24/50 (48%), Gaps = 2/50 (4%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYC 130
           C KC + I   G   T  D+ +H  CF C  C  QL G+ F   + + YC
Sbjct: 1   CAKCKKAITSGG--VTYRDQPWHKECFVCTGCKKQLAGQRFTSRDEYPYC 48

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

>gnl|CDD|188743 cd09357, LIM3_Zyxin_like, The third LIM domain of Zyxin-like family

 Score = 35.9 bits (83), Expect = 0.002
 Identities = 21/59 (35%), Positives = 33/59 (55%), Gaps = 9/59 (15%)

Query: 81  CCKCGERILGE-GSGCT----AMDKVYHISCFTCDHCAVQL----EGKPFYIIEGHAYC 130
           C  CGE I+ E G   T    A+D+ +H++C+ C+ C + L    EG+  Y ++GH  C
Sbjct: 1   CSVCGEPIMPEPGQDETVRIVALDRSFHVNCYKCEDCGMLLSSEDEGQGCYPLDGHLLC 59

The third LIM domain of Zyxin like family: This family includes Ajuba, Limd1, WTIP, Zyxin, LPP, and Trip6 LIM proteins. Members of Zyxin family contain three tandem C-terminal LIM domains, and a proline-rich N-terminal region. Zyxin proteins are detected primarily in focal adhesion plaques. They function as scaffolds, participating in the assembly of multiple interactions and signal transduction networks, which regulate cell adhesion, spreading, and motility. They can also shuffle into nucleus. In nucleus, zyxin proteins affect gene transcription by interaction with a variety of nuclear proteins, including several transcription factors, playing regulating roles in cell proliferation, differentiation and apoptosis. 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|188720 cd09334, LIM4_PINCH, The fourth LIM domain of protein PINCH

 Score = 35.4 bits (82), Expect = 0.002
 Identities = 13/39 (33%), Positives = 18/39 (46%)

Query: 141 CSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPF 179
           C  C +PI  R++ A G+ +H   F C  C K   G   
Sbjct: 3   CGACRRPIEGRVVTALGKHWHVEHFVCAKCEKPFLGHRH 41

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

 Score = 35.8 bits (83), Expect = 0.002
 Identities = 13/33 (39%), Positives = 23/33 (69%)

Query: 221 VALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPL 253
           +ALD+ +H+ C++C++CG VL+ E  G+   P 
Sbjct: 15  LALDKQWHVWCFKCKECGKVLTGEYMGKDGKPY 47

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

 Score = 35.3 bits (82), Expect = 0.002
 Identities = 22/54 (40%), Positives = 27/54 (50%), Gaps = 2/54 (3%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C KCG++  GE       DK +HI CFTC  C   L    F++ EG  YC   Y
Sbjct: 1   CYKCGKKCKGEV--LRVQDKYFHIKCFTCKVCGCDLAQGGFFVKEGEYYCTDDY 52

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

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

 Score = 35.2 bits (81), Expect = 0.003
 Identities = 15/36 (41%), Positives = 19/36 (52%), Gaps = 2/36 (5%)

Query: 141 CSVCVK--PILDRILRATGRPYHPACFTCVVCGKSL 174
           CS C +  P  + ++RA G  YH  CFTC  C   L
Sbjct: 1   CSACGQSIPASELVMRAQGNVYHLKCFTCSTCHNQL 36

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

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

 Score = 35.0 bits (81), Expect = 0.003
 Identities = 17/54 (31%), Positives = 23/54 (42%), Gaps = 2/54 (3%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C  C + IL      +A++  +H  CF C  C        F+  EG  YCE  Y
Sbjct: 1   CGGCNKPILENY--ISALNTQWHPECFVCRECHKPFINGSFFEHEGLPYCETHY 52

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

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

 Score = 34.6 bits (80), Expect = 0.003
 Identities = 15/39 (38%), Positives = 18/39 (46%)

Query: 141 CSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPF 179
           C  C KPIL+  + A    +HP CF C  C K      F
Sbjct: 1   CGGCNKPILENYISALNTQWHPECFVCRECHKPFINGSF 39

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

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

 Score = 34.6 bits (80), Expect = 0.004
 Identities = 19/58 (32%), Positives = 27/58 (46%), Gaps = 13/58 (22%)

Query: 81  CCKCG------ERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQ 132
           C  CG      ER++ +G       K++H SCF C HC   L    +  +EG  YC+ 
Sbjct: 1   CAVCGKTVYPMERLVADG-------KLFHKSCFRCSHCNKTLRLGNYASLEGKLYCKP 51

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

>gnl|CDD|188783 cd09397, LIM1_UF1, LIM domain in proteins of unknown function

 Score = 34.5 bits (80), Expect = 0.004
 Identities = 18/57 (31%), Positives = 26/57 (45%), Gaps = 3/57 (5%)

Query: 81  CCKCGERILGEG--SGCTAMDKVYHISCFTCDHCAVQLEGK-PFYIIEGHAYCEQGY 134
           C KCG  I G+   S    +   +H  CF C  C    +   P Y+++   YC+Q Y
Sbjct: 1   CRKCGLEIEGKSISSKDGELSGQWHRECFVCTTCGCPFQFSVPCYVLDDKPYCQQHY 57

The first Lim domain of a LIM domain containing protein: The functions of the proteins are unknown. The members of this family contain two copies of LIM domain. 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 = 58

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	278
KOG1701|consensus	468		100.0
KOG2272|consensus	332		99.97
KOG2272|consensus	332		99.96
KOG1703|consensus	479		99.94
KOG1044|consensus	670		99.92
KOG4577|consensus	383		99.84
KOG4577|consensus	383		99.81
KOG1703|consensus	479		99.81
KOG1701|consensus	468		99.78
KOG1044|consensus	670		99.69
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.51
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.36
KOG1700|consensus	200		99.1
KOG1700|consensus	200		99.09
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.64
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.53
KOG0490|consensus	235		97.76
KOG1702|consensus	264		97.57
KOG0490|consensus	235		97.1
KOG1702|consensus	264		96.63
PF08394	37	Arc_trans_TRASH: Archaeal TRASH domain; InterPro:	89.44
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	87.99
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	85.64
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	82.96
KOG2462|consensus	279		81.97

>KOG1701|consensus

Probab=100.00  E-value=4.3e-52  Score=368.73  Aligned_cols=202  Identities=59%  Similarity=1.236  Sum_probs=194.3

Q ss_pred             CCCCCCCCccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeeccccccccccccccccccccc
Q psy15692         70 DTSSESDLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPIL  149 (278)
Q Consensus        70 ~~~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~~~C~~C~~~I~  149 (278)
                      +..+..+..++|.+|+|.|.++..++.||++.||..||+|..|++.|.++.||.+|+++||+.||.....+|..|++.|.
T Consensus       266 ~~~p~~~~~~iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~v~~k~~CE~cyq~tlekC~~Cg~~I~  345 (468)
T KOG1701|consen  266 EAEPVEDYFGICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQVDGKPYCEGCYQDTLEKCNKCGEPIM  345 (468)
T ss_pred             CCChhhhhhhhhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccccccCCcccchHHHHHHHHHHhhhhhHHH
Confidence            34445566779999999999999889999999999999999999999999999999999999999999999999999999


Q ss_pred             ccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCcccCccccCCCCCCceeEEEcCCccccc
Q psy15692        150 DRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHI  229 (278)
Q Consensus       150 ~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~  229 (278)
                      |++|+|.|+.||+.||+|..|.+.|++..|+++.++++||..||+++||++|+.|+++|++.+|++|+++|+++|+.||.
T Consensus       346 d~iLrA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfAPrCs~C~~PI~P~~G~~etvRvvamdr~fHv  425 (468)
T KOG1701|consen  346 DRILRALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFAPRCSVCGNPILPRDGKDETVRVVAMDRDFHV  425 (468)
T ss_pred             HHHHHhcccccCCCceEEEEeccccCCccccccCCCceeeehhhhhhcCcchhhccCCccCCCCCcceEEEEEccccccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcccCCCCCCCCCCcCCCceeecCCccccccchhHhhhhcc
Q psy15692        230 GCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALT  271 (278)
Q Consensus       230 ~Cf~C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~~~~~~~~~  271 (278)
                      +|++|+.|+..|+.+.+|.++|++|++++|+.|+.+|+++++
T Consensus       426 ~CY~CEDCg~~LS~e~e~qgCyPld~HllCk~Ch~~Rl~~~~  467 (468)
T KOG1701|consen  426 NCYKCEDCGLLLSSEEEGQGCYPLDGHLLCKTCHLKRLQAGS  467 (468)
T ss_pred             cceehhhcCccccccCCCCcceeccCceeechhhhhhhcccC
Confidence            999999999999988899999999999999999999998865

>KOG2272|consensus

Probab=99.97  E-value=4.8e-33  Score=231.85  Aligned_cols=175  Identities=30%  Similarity=0.670  Sum_probs=154.6

Q ss_pred             CccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeeccccc-----------------------
Q psy15692         77 LFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQG-----------------------  133 (278)
Q Consensus        77 ~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~-----------------------  133 (278)
                      ..+.|++|++-|+|+.  |.+++.+||+.||+|..|++.|.+..|+...|+.+|..|                       
T Consensus        72 faPcC~kC~EFiiGrV--ikamnnSwHp~CF~Cd~Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~  149 (332)
T KOG2272|consen   72 FAPCCGKCGEFIIGRV--IKAMNNSWHPACFRCDLCNKHLADQGFYRNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDE  149 (332)
T ss_pred             hchhhcccccchhhHH--HHhhccccCcccchhHHHHHHHhhhhhHhhcchHHhhhhhhhhcccccceeehhhhhhhccc
Confidence            3568999999999986  499999999999999999999988777766655555443                       


Q ss_pred             ----------------------------------------ccccc-cccccccccccccceEEcCCcCCcCeecCCCCCC
Q psy15692        134 ----------------------------------------YLDTL-EKCSVCVKPILDRILRATGRPYHPACFTCVVCGK  172 (278)
Q Consensus       134 ----------------------------------------y~~~~-~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~  172 (278)
                                                              +.+.. |+|..|.++|.+++|.++|+.||.++|+|+.|.+
T Consensus       150 ~~l~fr~d~yH~yHFkCt~C~keL~sdaRevk~eLyClrChD~mgipiCgaC~rpIeervi~amgKhWHveHFvCa~Cek  229 (332)
T KOG2272|consen  150 QPLTFRGDPYHPYHFKCTTCGKELTSDAREVKGELYCLRCHDKMGIPICGACRRPIEERVIFAMGKHWHVEHFVCAKCEK  229 (332)
T ss_pred             ccccccCCCCCccceecccccccccchhhhhccceeccccccccCCcccccccCchHHHHHHHhccccchhheeehhcCC
Confidence                                                    33222 8899999999999999999999999999999999


Q ss_pred             CCCCCCeEEcCCCcccchhhhhcccCCCCcccCccccCCCCCCceeEEEcCCcccccCCcccCCCCCCCCCCcCCCceee
Q psy15692        173 SLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYP  252 (278)
Q Consensus       173 ~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~  252 (278)
                      |+-|...+ ++.|.+||+.||.++|+..|..|..+|.+.       ++.++++.|.++||.|+.|++.|..   ..+||.
T Consensus       230 PFlGHrHY-EkkGlaYCe~h~~qLfG~~CF~C~~~i~G~-------vv~al~KawCv~cf~Cs~Cdkkl~~---K~Kf~E  298 (332)
T KOG2272|consen  230 PFLGHRHY-EKKGLAYCETHYHQLFGNLCFICNRVIGGD-------VVSALNKAWCVECFSCSTCDKKLTQ---KNKFYE  298 (332)
T ss_pred             cccchhhh-hhcCchhHHHHHHHHhhhhheecCCccCcc-------HHHHhhhhhcccccccccccccccc---ccceee
Confidence            99887765 588999999999999999999999999765       6789999999999999999999985   458999


Q ss_pred             cCCccccccchh
Q psy15692        253 LDDHVLCKSCNA  264 (278)
Q Consensus       253 ~~~~~~C~~C~~  264 (278)
                      .|-+|.|+.||.
T Consensus       299 ~DmkP~CKkCy~  310 (332)
T KOG2272|consen  299 FDMKPVCKKCYD  310 (332)
T ss_pred             eccchHHHHHHh
Confidence            999999999997

>KOG2272|consensus

Probab=99.96  E-value=1.5e-32  Score=228.86  Aligned_cols=181  Identities=25%  Similarity=0.594  Sum_probs=157.2

Q ss_pred             cccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc-cccccccccccccceEEcC
Q psy15692         79 GECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-EKCSVCVKPILDRILRATG  157 (278)
Q Consensus        79 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~-~~C~~C~~~I~~~~~~~~~  157 (278)
                      ..|.+|...+...+.++...|..||..||.|++|-.|+.++.||..+|+.||+.||..++ |.|..|++.|.|++|.+++
T Consensus        13 ~~C~RC~~gF~~~e~~vns~ge~wH~~CFvCAQCf~pf~~g~~~efEgRkYCEhDF~~LfaPcC~kC~EFiiGrVikamn   92 (332)
T KOG2272|consen   13 MVCERCRDGFEPAEKIVNSNGELWHEQCFVCAQCFRPFPDGIFYEFEGRKYCEHDFHVLFAPCCGKCGEFIIGRVIKAMN   92 (332)
T ss_pred             HHHHHHhccCCchhhhhccCchhhHHHHHHHHHhcCcCCCceeEEecCcccccccchhhhchhhcccccchhhHHHHhhc
Confidence            469999999888887778889999999999999999999999999999999999999999 8999999999999999999


Q ss_pred             CcCCcCeecCCCCCCCCCCCCeEEc-------------------------------------------------------
Q psy15692        158 RPYHPACFTCVVCGKSLDGIPFTVD-------------------------------------------------------  182 (278)
Q Consensus       158 ~~~H~~Cf~C~~C~~~l~~~~~~~~-------------------------------------------------------  182 (278)
                      ..||+.||+|..|.+.|.+..|+..                                                       
T Consensus        93 nSwHp~CF~Cd~Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~~~l~fr~d~yH~yHFkCt~C~ke  172 (332)
T KOG2272|consen   93 NSWHPACFRCDLCNKHLADQGFYRNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDEQPLTFRGDPYHPYHFKCTTCGKE  172 (332)
T ss_pred             cccCcccchhHHHHHHHhhhhhHhhcchHHhhhhhhhhcccccceeehhhhhhhcccccccccCCCCCccceeccccccc
Confidence            9999999999988887765544331                                                       


Q ss_pred             -------CCCcccchhhhhcccCCCCcccCccccCCCCCCceeEEEcCCcccccCCcccCCCCCCCCCCcCCCceeecCC
Q psy15692        183 -------AANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDD  255 (278)
Q Consensus       183 -------~~~~~~C~~~y~~~~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~~~~  255 (278)
                             ..|.+||..|+.+.--|+|..|.+||...       +|.++|+.||.++|+|+.|.+++-    |-..|...|
T Consensus       173 L~sdaRevk~eLyClrChD~mgipiCgaC~rpIeer-------vi~amgKhWHveHFvCa~CekPFl----GHrHYEkkG  241 (332)
T KOG2272|consen  173 LTSDAREVKGELYCLRCHDKMGIPICGACRRPIEER-------VIFAMGKHWHVEHFVCAKCEKPFL----GHRHYEKKG  241 (332)
T ss_pred             ccchhhhhccceeccccccccCCcccccccCchHHH-------HHHHhccccchhheeehhcCCccc----chhhhhhcC
Confidence                   12345666666666667899999999732       577999999999999999999995    667899999


Q ss_pred             ccccccchhHhhhhc
Q psy15692        256 HVLCKSCNAKRVQAL  270 (278)
Q Consensus       256 ~~~C~~C~~~~~~~~  270 (278)
                      ..||..+|.+.+..+
T Consensus       242 laYCe~h~~qLfG~~  256 (332)
T KOG2272|consen  242 LAYCETHYHQLFGNL  256 (332)
T ss_pred             chhHHHHHHHHhhhh
Confidence            999999999998776

>KOG1703|consensus

Probab=99.94  E-value=8.8e-28  Score=227.34  Aligned_cols=175  Identities=27%  Similarity=0.614  Sum_probs=160.1

Q ss_pred             ccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc-cccccccccccccceEEc
Q psy15692         78 FGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-EKCSVCVKPILDRILRAT  156 (278)
Q Consensus        78 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~-~~C~~C~~~I~~~~~~~~  156 (278)
                      .+.|..|++.|.+... +.++++.||+.+|.|..|+..+....|...+|++||..||...+ ++|.+|.++|.+++|.+.
T Consensus       303 ~p~c~~c~~~i~~~~~-i~~~~~~~h~~~~~c~~~~~~~~~~~~~~~~g~~~c~~~~~~~~~p~C~~C~~~i~~~~v~a~  381 (479)
T KOG1703|consen  303 RPLCLSCNQKIRSVKV-IVALGKEWHPEHFSCEVCAIVILDGGPRELDGKILCHECFHAPFRPNCKRCLLPILEEGVCAL  381 (479)
T ss_pred             cccccccccCccccee-EeeccccccccceeeccccccccCCCccccCCCccHHHHHHHhhCccccccCCchHHhHhhhc
Confidence            3799999999998443 69999999999999999999998888899999999999999887 999999999999999999


Q ss_pred             CCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCcccCccccCCCCCCceeEEEcCCcccccCCcccCC
Q psy15692        157 GRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCED  236 (278)
Q Consensus       157 ~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf~C~~  236 (278)
                      ++.||++||.|..|+++|.+..|+. .++.+||+.||++++.++|..|.++|....     ..+.+++..||..||+|..
T Consensus       382 ~~~wH~~cf~C~~C~~~~~~~~~~~-~~~~pyce~~~~~~~~~~~~~~~~p~~~~~-----~~ie~~~~~~h~~~F~c~~  455 (479)
T KOG1703|consen  382 GRLWHPECFVCADCGKPLKNSSFFE-SDGEPYCEDHYKKLFTTKCDYCKKPVEFGS-----RQIEADGSPFHGDCFRCAN  455 (479)
T ss_pred             cCeechhceeeecccCCCCCCcccc-cCCccchhhhHhhhccccchhccchhHhhh-----hHhhccCccccccceehhh
Confidence            9999999999999999999888775 789999999999999999999999987432     2578999999999999999


Q ss_pred             CCCCCCCCcCCCceeecCCccccccch
Q psy15692        237 CGLVLSSEAEGRGCYPLDDHVLCKSCN  263 (278)
Q Consensus       237 C~~~l~~~~~g~~~~~~~~~~~C~~C~  263 (278)
                      |.+.|.    +..|+...++++|..|+
T Consensus       456 c~~~l~----~~~~~~~~~~p~c~~~~  478 (479)
T KOG1703|consen  456 CMKKLT----KKTFFETLDKPLCQKHF  478 (479)
T ss_pred             hhcccc----CCceeecCCccccccCC
Confidence            999997    56799999999999885

>KOG1044|consensus

Probab=99.92  E-value=1.1e-25  Score=206.98  Aligned_cols=173  Identities=27%  Similarity=0.586  Sum_probs=148.6

Q ss_pred             ccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCC-eecccc---------------------ccc
Q psy15692         78 FGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEG-HAYCEQ---------------------GYL  135 (278)
Q Consensus        78 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g-~~yC~~---------------------~y~  135 (278)
                      ...|.+|+++-.++.  +.+.++.||..||.|..|+..|+...||.+++ +.|+..                     |+.
T Consensus        16 ~i~c~~c~~kc~gev--lrv~d~~fhi~cf~c~~cg~~la~~gff~k~~~~~ygt~~c~~~~~gevvsa~gktyh~~cf~   93 (670)
T KOG1044|consen   16 GIKCDKCRKKCSGEV--LRVNDNHFHINCFQCKKCGRNLAEGGFFTKPENRLYGTDDCRAFVEGEVVSTLGKTYHPKCFS   93 (670)
T ss_pred             ceehhhhCCccccce--eEeeccccceeeeeccccCCCcccccceecccceeecccchhhhccceeEecccceeccccce
Confidence            457999999998875  69999999999999999999999888887765 455542                     220


Q ss_pred             -----------------------------------c--ccccccccccccc-ccceEEcCCcCCcCeecCCCCCCCCCCC
Q psy15692        136 -----------------------------------D--TLEKCSVCVKPIL-DRILRATGRPYHPACFTCVVCGKSLDGI  177 (278)
Q Consensus       136 -----------------------------------~--~~~~C~~C~~~I~-~~~~~~~~~~~H~~Cf~C~~C~~~l~~~  177 (278)
                                                         +  ....|++|++.|. ++++.|+++.||..||+|..|...|.++
T Consensus        94 cs~ck~pf~~g~~vt~~gk~~~c~~c~~~~~~~p~~~~~ps~cagc~~~lk~gq~llald~qwhv~cfkc~~c~~vL~ge  173 (670)
T KOG1044|consen   94 CSTCKSPFKSGDKVTFSGKECLCQTCSQPMPVSPAESYGPSTCAGCGEELKNGQALLALDKQWHVSCFKCKSCSAVLNGE  173 (670)
T ss_pred             ecccCCCCCCCCeeeecchhhhhhhhcCcccCCcccccCCccccchhhhhhccceeeeeccceeeeeeehhhhcccccce
Confidence                                               0  1146999999885 7899999999999999999999999998


Q ss_pred             CeEEcCCCcccchhhhhcccCCCCcccCccccCCCCCCceeEEEcCCcccccCCcccCCCCCCCCCCcCCCceeecCCcc
Q psy15692        178 PFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHV  257 (278)
Q Consensus       178 ~~~~~~~~~~~C~~~y~~~~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~~~~~~  257 (278)
                      ++.  ++|.+||+.||.+.|+.+|..|.+.|.+.       ++.+.|++||+.|-+|..|+..|.   +|.+.|+....+
T Consensus       174 y~s--kdg~pyce~dy~~~fgvkc~~c~~fisgk-------vLqag~kh~HPtCARCsRCgqmF~---eGEEMYlQGs~i  241 (670)
T KOG1044|consen  174 YMS--KDGVPYCEKDYQAKFGVKCEECEKFISGK-------VLQAGDKHFHPTCARCSRCGQMFG---EGEEMYLQGSEI  241 (670)
T ss_pred             eec--cCCCcchhhhhhhhcCeehHHhhhhhhhh-------hhhccCcccCcchhhhhhhccccc---cchheeeccccc
Confidence            764  68999999999999999999999999875       678999999999999999999998   577899998888


Q ss_pred             ccccchh
Q psy15692        258 LCKSCNA  264 (278)
Q Consensus       258 ~C~~C~~  264 (278)
                      +-..|-.
T Consensus       242 WHP~C~q  248 (670)
T KOG1044|consen  242 WHPDCKQ  248 (670)
T ss_pred             cCCcccc
Confidence            8888763

>KOG4577|consensus

Probab=99.84  E-value=4.5e-23  Score=175.17  Aligned_cols=125  Identities=30%  Similarity=0.651  Sum_probs=109.6

Q ss_pred             ccccccccccccccc-eEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCcccCccccCCCCCCc
Q psy15692        138 LEKCSVCVKPILDRI-LRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDE  216 (278)
Q Consensus       138 ~~~C~~C~~~I~~~~-~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~C~~~I~~~~~~~~  216 (278)
                      .++|+.|.+.|.+++ ++++++.||..|++|+.|..+|....|.  ++|.+||+++|+++|+.+|.+|...|.+..    
T Consensus        33 ip~CagC~q~IlDrFilKvl~R~wHs~CLkCs~C~~qL~drCFs--R~~s~yCkedFfKrfGTKCsaC~~GIpPtq----  106 (383)
T KOG4577|consen   33 IPICAGCDQHILDRFILKVLDRHWHSSCLKCSDCHDQLADRCFS--REGSVYCKEDFFKRFGTKCSACQEGIPPTQ----  106 (383)
T ss_pred             cccccchHHHHHHHHHHHHHhhhhhhhhcchhhhhhHHHHHHhh--cCCceeehHHHHHHhCCcchhhcCCCChHH----
Confidence            389999999999975 5889999999999999999999998885  579999999999999999999999999874    


Q ss_pred             eeEEEcCCcccccCCcccCCCCCCCCCCcCCCceeec-CCccccccchhHhhhhccc
Q psy15692        217 TVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPL-DDHVLCKSCNAKRVQALTS  272 (278)
Q Consensus       217 ~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~~-~~~~~C~~C~~~~~~~~~~  272 (278)
                       ++-.|.+..||..||.|..|++.|..   |++||+. |.+++|+..|....+.--|
T Consensus       107 -VVRkAqd~VYHl~CF~C~iC~R~L~T---GdEFYLmeD~rLvCK~DYE~Ak~k~~~  159 (383)
T KOG4577|consen  107 -VVRKAQDFVYHLHCFACFICKRQLAT---GDEFYLMEDARLVCKDDYETAKQKHCN  159 (383)
T ss_pred             -HHHHhhcceeehhhhhhHhhhccccc---CCeeEEeccceeehhhhHHHHHhcccc
Confidence             23358899999999999999999984   7789988 5689999999766555444

>KOG4577|consensus

Probab=99.81  E-value=2.4e-22  Score=170.81  Aligned_cols=123  Identities=28%  Similarity=0.690  Sum_probs=111.4

Q ss_pred             CccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc-cccccccccccc-cce-
Q psy15692         77 LFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-EKCSVCVKPILD-RIL-  153 (278)
Q Consensus        77 ~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~-~~C~~C~~~I~~-~~~-  153 (278)
                      .+++|++|.+.|.++.+ ++++++.||..|++|+.|..+|... +|.++|.+||+++|+++| .+|..|...|.. ++| 
T Consensus        32 eip~CagC~q~IlDrFi-lKvl~R~wHs~CLkCs~C~~qL~dr-CFsR~~s~yCkedFfKrfGTKCsaC~~GIpPtqVVR  109 (383)
T KOG4577|consen   32 EIPICAGCDQHILDRFI-LKVLDRHWHSSCLKCSDCHDQLADR-CFSREGSVYCKEDFFKRFGTKCSACQEGIPPTQVVR  109 (383)
T ss_pred             ccccccchHHHHHHHHH-HHHHhhhhhhhhcchhhhhhHHHHH-HhhcCCceeehHHHHHHhCCcchhhcCCCChHHHHH
Confidence            46789999999999986 8999999999999999999999875 788899999999999999 799999999974 454 


Q ss_pred             EEcCCcCCcCeecCCCCCCCCC-CCCeEEcCCCcccchhhhhcccCCCC
Q psy15692        154 RATGRPYHPACFTCVVCGKSLD-GIPFTVDAANQIHCIQDFHKKFAPRC  201 (278)
Q Consensus       154 ~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~~~~~~~C~~~y~~~~~~~C  201 (278)
                      +|.+.+||..||.|..|++.|. |..|++..+.++.|+++|+..-...|
T Consensus       110 kAqd~VYHl~CF~C~iC~R~L~TGdEFYLmeD~rLvCK~DYE~Ak~k~~  158 (383)
T KOG4577|consen  110 KAQDFVYHLHCFACFICKRQLATGDEFYLMEDARLVCKDDYETAKQKHC  158 (383)
T ss_pred             HhhcceeehhhhhhHhhhcccccCCeeEEeccceeehhhhHHHHHhccc
Confidence            6889999999999999999998 88888888999999999988766665

>KOG1703|consensus

Probab=99.81  E-value=1.8e-20  Score=177.61  Aligned_cols=174  Identities=22%  Similarity=0.381  Sum_probs=155.8

Q ss_pred             cccCCCeeeCCcceeeeCCccccccccccc-ccCcccCCCCeEeeCCeecccccccccc-cccccccccccc-cceEEcC
Q psy15692         81 CCKCGERILGEGSGCTAMDKVYHISCFTCD-HCAVQLEGKPFYIIEGHAYCEQGYLDTL-EKCSVCVKPILD-RILRATG  157 (278)
Q Consensus        81 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~-~C~~~l~~~~f~~~~g~~yC~~~y~~~~-~~C~~C~~~I~~-~~~~~~~  157 (278)
                      |+.+..+|.+.-  +.+....||...|+|. .+...|....++...+..++..+|.... ++|..|.+.|.+ +++.+++
T Consensus       246 ~~~~~~p~~~p~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~c~~c~~~i~~~~~i~~~~  323 (479)
T KOG1703|consen  246 SASMDSPECQPL--VSAPRPASEGLHMKVEKELPLLLVESEALKKLREEEKPAEYHNVTRPLCLSCNQKIRSVKVIVALG  323 (479)
T ss_pred             CcccCCCccCcc--eecccccccccccccccccchhhcccccccccccccccccccccccccccccccCcccceeEeecc
Confidence            677777777643  5788999999999998 7999998889999999999999997655 899999999999 9999999


Q ss_pred             CcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCcccCccccCCCCCCceeEEEcCCcccccCCcccCCC
Q psy15692        158 RPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDC  237 (278)
Q Consensus       158 ~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf~C~~C  237 (278)
                      +.||+.+|.|..|...+....+ ...+|++||..||++.++++|.+|+++|.+.       .|.+.++.||++||.|..|
T Consensus       324 ~~~h~~~~~c~~~~~~~~~~~~-~~~~g~~~c~~~~~~~~~p~C~~C~~~i~~~-------~v~a~~~~wH~~cf~C~~C  395 (479)
T KOG1703|consen  324 KEWHPEHFSCEVCAIVILDGGP-RELDGKILCHECFHAPFRPNCKRCLLPILEE-------GVCALGRLWHPECFVCADC  395 (479)
T ss_pred             ccccccceeeccccccccCCCc-cccCCCccHHHHHHHhhCccccccCCchHHh-------HhhhccCeechhceeeecc
Confidence            9999999999999999986666 3478999999999999999999999999865       6778899999999999999


Q ss_pred             CCCCCCCcCCCceeecCCccccccchhHhhh
Q psy15692        238 GLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQ  268 (278)
Q Consensus       238 ~~~l~~~~~g~~~~~~~~~~~C~~C~~~~~~  268 (278)
                      ++.|.+    ..||..++.+||..|+.+++.
T Consensus       396 ~~~~~~----~~~~~~~~~pyce~~~~~~~~  422 (479)
T KOG1703|consen  396 GKPLKN----SSFFESDGEPYCEDHYKKLFT  422 (479)
T ss_pred             cCCCCC----CcccccCCccchhhhHhhhcc
Confidence            999974    569999999999999998875

>KOG1701|consensus

Probab=99.78  E-value=3.3e-21  Score=172.22  Aligned_cols=119  Identities=25%  Similarity=0.540  Sum_probs=105.1

Q ss_pred             cccccccccccc--cceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCcccCccccCCCCCCc
Q psy15692        139 EKCSVCVKPILD--RILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDE  216 (278)
Q Consensus       139 ~~C~~C~~~I~~--~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~C~~~I~~~~~~~~  216 (278)
                      .+|..|+|.|.+  ..+.|+++.||..||+|..|++.|.+..|+. .++++||+.||.. ...||..|+++|+..     
T Consensus       275 ~iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~-v~~k~~CE~cyq~-tlekC~~Cg~~I~d~-----  347 (468)
T KOG1701|consen  275 GICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQ-VDGKPYCEGCYQD-TLEKCNKCGEPIMDR-----  347 (468)
T ss_pred             hhhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccccc-cCCcccchHHHHH-HHHHHhhhhhHHHHH-----
Confidence            699999999985  4789999999999999999999999999875 7999999999965 458999999999854     


Q ss_pred             eeEEEcCCcccccCCcccCCCCCCCCCCcCCCceeec-CCccccccchhHhhhhc
Q psy15692        217 TVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPL-DDHVLCKSCNAKRVQAL  270 (278)
Q Consensus       217 ~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~~-~~~~~C~~C~~~~~~~~  270 (278)
                        ++.|+|+.||+.||+|.+|++.|.+    ..|.+. ++++||..+|.++++..
T Consensus       348 --iLrA~GkayHp~CF~Cv~C~r~ldg----ipFtvd~~n~v~Cv~dfh~kfAPr  396 (468)
T KOG1701|consen  348 --ILRALGKAYHPGCFTCVVCARCLDG----IPFTVDSQNNVYCVPDFHKKFAPR  396 (468)
T ss_pred             --HHHhcccccCCCceEEEEeccccCC----ccccccCCCceeeehhhhhhcCcc
Confidence              6789999999999999999999974    456554 67999999999988765

>KOG1044|consensus

Probab=99.69  E-value=1e-17  Score=154.62  Aligned_cols=110  Identities=32%  Similarity=0.743  Sum_probs=97.5

Q ss_pred             CCccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc-cccccccccccccceE
Q psy15692         76 DLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-EKCSVCVKPILDRILR  154 (278)
Q Consensus        76 ~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~-~~C~~C~~~I~~~~~~  154 (278)
                      .+...|++|++.|..+.. |.|+++.||..||+|..|+..|.+ .|+.++|.+||+.||.+.| .+|..|.+.|.+++|+
T Consensus       131 ~~ps~cagc~~~lk~gq~-llald~qwhv~cfkc~~c~~vL~g-ey~skdg~pyce~dy~~~fgvkc~~c~~fisgkvLq  208 (670)
T KOG1044|consen  131 YGPSTCAGCGEELKNGQA-LLALDKQWHVSCFKCKSCSAVLNG-EYMSKDGVPYCEKDYQAKFGVKCEECEKFISGKVLQ  208 (670)
T ss_pred             cCCccccchhhhhhccce-eeeeccceeeeeeehhhhcccccc-eeeccCCCcchhhhhhhhcCeehHHhhhhhhhhhhh
Confidence            456689999999987765 799999999999999999999977 4999999999999999998 7999999999999999


Q ss_pred             EcCCcCCcCeecCCCCCCCCC-CCCeEEcCCCccc
Q psy15692        155 ATGRPYHPACFTCVVCGKSLD-GIPFTVDAANQIH  188 (278)
Q Consensus       155 ~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~~~~~~~  188 (278)
                      |.|+.||+.|.+|+.|+++|+ |+..++ .+..++
T Consensus       209 ag~kh~HPtCARCsRCgqmF~eGEEMYl-QGs~iW  242 (670)
T KOG1044|consen  209 AGDKHFHPTCARCSRCGQMFGEGEEMYL-QGSEIW  242 (670)
T ss_pred             ccCcccCcchhhhhhhccccccchheee-cccccc
Confidence            999999999999999999998 666665 333443

>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=99.51  E-value=8.2e-15  Score=99.00  Aligned_cols=58  Identities=34%  Similarity=0.845  Sum_probs=53.3

Q ss_pred             cccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc
Q psy15692         81 CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL  138 (278)
Q Consensus        81 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~  138 (278)
                      |++|+++|.+.+..+.++|+.||++||+|..|+.+|.+..|+..+|++||+.||.++|
T Consensus         1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~f   58 (58)
T PF00412_consen    1 CARCGKPIYGTEIVIKAMGKFWHPECFKCSKCGKPLNDGDFYEKDGKPYCKDCYQKRF   58 (58)
T ss_dssp             BTTTSSBESSSSEEEEETTEEEETTTSBETTTTCBTTTSSEEEETTEEEEHHHHHHHT
T ss_pred             CCCCCCCccCcEEEEEeCCcEEEccccccCCCCCccCCCeeEeECCEEECHHHHhhhC
Confidence            8899999998887557999999999999999999999888999999999999998754

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

>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=99.36  E-value=6e-13  Score=89.80  Aligned_cols=58  Identities=31%  Similarity=0.779  Sum_probs=50.6

Q ss_pred             CcccCccccCCCCCCceeEEEcCCcccccCCcccCCCCCCCCCCcCCCceeecCCccccccchhHhh
Q psy15692        201 CCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRV  267 (278)
Q Consensus       201 C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~~~~~  267 (278)
                      |.+|+++|.+.+     ..+.+.|+.||++||+|..|+++|...    .|+..++++||..|+.+++
T Consensus         1 C~~C~~~I~~~~-----~~~~~~~~~~H~~Cf~C~~C~~~l~~~----~~~~~~~~~~C~~c~~~~f   58 (58)
T PF00412_consen    1 CARCGKPIYGTE-----IVIKAMGKFWHPECFKCSKCGKPLNDG----DFYEKDGKPYCKDCYQKRF   58 (58)
T ss_dssp             BTTTSSBESSSS-----EEEEETTEEEETTTSBETTTTCBTTTS----SEEEETTEEEEHHHHHHHT
T ss_pred             CCCCCCCccCcE-----EEEEeCCcEEEccccccCCCCCccCCC----eeEeECCEEECHHHHhhhC
Confidence            789999999764     345799999999999999999999842    4999999999999998874

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

>KOG1700|consensus

Probab=99.10  E-value=1.5e-11  Score=103.60  Aligned_cols=120  Identities=27%  Similarity=0.615  Sum_probs=96.6

Q ss_pred             ccccccccccc-ccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCC-----------------
Q psy15692        139 EKCSVCVKPIL-DRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPR-----------------  200 (278)
Q Consensus       139 ~~C~~C~~~I~-~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~-----------------  200 (278)
                      .+|..|++.+. -..+...|..||..||+|..|.+.|....+.. .++.+||..+|..+++++                 
T Consensus         8 ~kc~~c~k~vy~~e~~~~~g~~~hk~c~~c~~~~k~l~~~~~~~-~e~~~yc~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (200)
T KOG1700|consen    8 DKCNACGKTVYFVEKVQKDGVDFHKECFKCEKCKKTLTLSGYSE-HEGVPYCKNCHVAQFGPKGGGFGKGFQKAGGLGKD   86 (200)
T ss_pred             chhhhccCcchHHHHHhccCcchhhhHHhccccccccccccccc-cccccccccchHhhhCcccccccccccccCCCCcc
Confidence            58999999996 34455889999999999999999999666665 689999999665554442                 


Q ss_pred             ------------------------CcccCccccCCCCCCceeEEEcCCcccccCCcccCCCCCCCCCCcCCCceeecCCc
Q psy15692        201 ------------------------CCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDH  256 (278)
Q Consensus       201 ------------------------C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~~~~~  256 (278)
                                              |..|++.+.+.+      .+...+..||..||+|+.|+..|+..    .+-..++.
T Consensus        87 ~~~~~~~~~~~~~~~~~~~g~~~~c~~c~k~vy~~E------k~~~~~~~~hk~cfrc~~~~~~ls~~----~~~~~~g~  156 (200)
T KOG1700|consen   87 GKSLNESKPNQSAKFQVFAGEKEKCARCQKTVYPLE------KVTGNGLEFHKSCFRCTHCGKKLSPK----NYAALEGV  156 (200)
T ss_pred             cccccccccccchhHHhhhccccccccccceeeehH------HHhhhhhhhhhhheeecccccccCCc----chhhcCCc
Confidence                                    899999988665      56788999999999999999999863    36667888


Q ss_pred             cccccchhHhhhh
Q psy15692        257 VLCKSCNAKRVQA  269 (278)
Q Consensus       257 ~~C~~C~~~~~~~  269 (278)
                      +||...+...+-.
T Consensus       157 l~~~~~~~~~~~~  169 (200)
T KOG1700|consen  157 LYCKHHFAQLFKG  169 (200)
T ss_pred             cccchhhheeecC
Confidence            8888877665433

>KOG1700|consensus

Probab=99.09  E-value=1.6e-11  Score=103.38  Aligned_cols=117  Identities=26%  Similarity=0.618  Sum_probs=97.1

Q ss_pred             cccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccc----------------------
Q psy15692         79 GECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLD----------------------  136 (278)
Q Consensus        79 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~----------------------  136 (278)
                      ..|..|++.|+-.+. +...|..||..||+|..|...|....+...++.+||+.+|..                      
T Consensus         8 ~kc~~c~k~vy~~e~-~~~~g~~~hk~c~~c~~~~k~l~~~~~~~~e~~~yc~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (200)
T KOG1700|consen    8 DKCNACGKTVYFVEK-VQKDGVDFHKECFKCEKCKKTLTLSGYSEHEGVPYCKNCHVAQFGPKGGGFGKGFQKAGGLGKD   86 (200)
T ss_pred             chhhhccCcchHHHH-HhccCcchhhhHHhccccccccccccccccccccccccchHhhhCcccccccccccccCCCCcc
Confidence            369999999997775 578899999999999999999998888999999999995410                      


Q ss_pred             -------------c-------ccccccccccccc-cceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhc
Q psy15692        137 -------------T-------LEKCSVCVKPILD-RILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHK  195 (278)
Q Consensus       137 -------------~-------~~~C~~C~~~I~~-~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~  195 (278)
                                   .       ...|..|++.+.. +-+...+..||..||+|..|+..|+...+.. ..+.+||..++..
T Consensus        87 ~~~~~~~~~~~~~~~~~~~g~~~~c~~c~k~vy~~Ek~~~~~~~~hk~cfrc~~~~~~ls~~~~~~-~~g~l~~~~~~~~  165 (200)
T KOG1700|consen   87 GKSLNESKPNQSAKFQVFAGEKEKCARCQKTVYPLEKVTGNGLEFHKSCFRCTHCGKKLSPKNYAA-LEGVLYCKHHFAQ  165 (200)
T ss_pred             cccccccccccchhHHhhhccccccccccceeeehHHHhhhhhhhhhhheeecccccccCCcchhh-cCCccccchhhhe
Confidence                         0       0469999999874 4567789999999999999999999777764 5788898877655


Q ss_pred             cc
Q psy15692        196 KF  197 (278)
Q Consensus       196 ~~  197 (278)
                      ++
T Consensus       166 ~~  167 (200)
T KOG1700|consen  166 LF  167 (200)
T ss_pred             ee
Confidence            44

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

Probab=98.64  E-value=1.9e-08  Score=61.66  Aligned_cols=38  Identities=37%  Similarity=0.827  Sum_probs=33.6

Q ss_pred             ccccCCCeeeCCcceeeeCCcccccccccccccCcccC
Q psy15692         80 ECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLE  117 (278)
Q Consensus        80 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~  117 (278)
                      .|.+|+++|.+.+..+.++++.||++||+|..|+.+|.
T Consensus         1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L~   38 (39)
T smart00132        1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPLG   38 (39)
T ss_pred             CccccCCcccCCcEEEEeCCccccccCCCCcccCCcCc
Confidence            48999999998744578999999999999999999885

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

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

Probab=98.53  E-value=5.2e-08  Score=59.65  Aligned_cols=36  Identities=53%  Similarity=1.133  Sum_probs=32.6

Q ss_pred             ccccccccccc--cceEEcCCcCCcCeecCCCCCCCCC
Q psy15692        140 KCSVCVKPILD--RILRATGRPYHPACFTCVVCGKSLD  175 (278)
Q Consensus       140 ~C~~C~~~I~~--~~~~~~~~~~H~~Cf~C~~C~~~l~  175 (278)
                      +|..|+++|.+  ..+.+.++.||++||+|..|+++|.
T Consensus         1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L~   38 (39)
T smart00132        1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPLG   38 (39)
T ss_pred             CccccCCcccCCcEEEEeCCccccccCCCCcccCCcCc
Confidence            58999999986  6788899999999999999999885

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

>KOG0490|consensus

Probab=97.76  E-value=3.7e-06  Score=72.42  Aligned_cols=111  Identities=30%  Similarity=0.604  Sum_probs=89.4

Q ss_pred             cCCCeeeCCcceeeeCCcccccccccccccCcccC-CCCeEeeCCeecccccccc--cc-ccccccccccc--ccceEEc
Q psy15692         83 KCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLE-GKPFYIIEGHAYCEQGYLD--TL-EKCSVCVKPIL--DRILRAT  156 (278)
Q Consensus        83 ~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~-~~~f~~~~g~~yC~~~y~~--~~-~~C~~C~~~I~--~~~~~~~  156 (278)
                      .|+..|.+... +.+.+..||..|..|..|...|. ....+..+|..||..+|..  .+ .+|.+|...|.  +.+..+.
T Consensus         1 ~~~~~~~~~~~-l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~d~~~~~~~~~rr~rt~~~~~ql~~ler~f   79 (235)
T KOG0490|consen    1 GCGRQILDRYL-LRVLDRYWHASCLKCAECDNPLGVGDTCFSKDGSIYCKRDYQREFKFSKRCARCKFTISQLDELERAF   79 (235)
T ss_pred             CCCccccchHH-hhcccHHHHHHHHhhhhhcchhccCCCcccCCCcccccccchhhhhccccccCCCCCcCHHHHHHHhh
Confidence            47788888775 78889999999999999999997 2334444999999999997  34 69999999995  4566777


Q ss_pred             CCcCCcCeecCCCCCCCCC-CCCeEEcCCCcccchhhhhc
Q psy15692        157 GRPYHPACFTCVVCGKSLD-GIPFTVDAANQIHCIQDFHK  195 (278)
Q Consensus       157 ~~~~H~~Cf~C~~C~~~l~-~~~~~~~~~~~~~C~~~y~~  195 (278)
                      .+. |..||.|..|...+. +..+.+..+.+..|..++.+
T Consensus        80 ~~~-h~Pd~~~r~~la~~~~~~e~rVqvwFqnrrak~r~~  118 (235)
T KOG0490|consen   80 EKV-HLPCFACRECLALLLTGDEFRVQVWFQNRRAKDRKE  118 (235)
T ss_pred             cCC-CcCccchHHHHhhcCCCCeeeeehhhhhhcHhhhhh
Confidence            777 999999999988665 66777766668888887654

>KOG1702|consensus

Probab=97.57  E-value=8.4e-06  Score=67.25  Aligned_cols=57  Identities=26%  Similarity=0.633  Sum_probs=50.9

Q ss_pred             cccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccc
Q psy15692         79 GECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLD  136 (278)
Q Consensus        79 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~  136 (278)
                      ..|..|++.+++-+. +..+++.||..||+|..|+.+|..+.+--.+.++||..+|-+
T Consensus         5 ~n~~~cgk~vYPvE~-v~cldk~whk~cfkce~c~mtlnmKnyKgy~kkpycn~hYpk   61 (264)
T KOG1702|consen    5 CNREDCGKTVYPVEE-VKCLDKVWHKQCFKCEVCGMTLNMKNYKGYDKKPYCNPHYPK   61 (264)
T ss_pred             chhhhhccccccHHH-HhhHHHHHHHHhheeeeccCChhhhhccccccCCCcCccccc
Confidence            348899999998875 799999999999999999999998877778999999999954

>KOG0490|consensus

Probab=97.10  E-value=4.8e-05  Score=65.47  Aligned_cols=112  Identities=27%  Similarity=0.575  Sum_probs=87.1

Q ss_pred             cccccccc-ceEEcCCcCCcCeecCCCCCCCCC--CCCeEEcCCCcccchhhhhc--ccCCCCcccCccccCCCCCCcee
Q psy15692        144 CVKPILDR-ILRATGRPYHPACFTCVVCGKSLD--GIPFTVDAANQIHCIQDFHK--KFAPRCCVCRAPIMPDSEQDETV  218 (278)
Q Consensus       144 C~~~I~~~-~~~~~~~~~H~~Cf~C~~C~~~l~--~~~~~~~~~~~~~C~~~y~~--~~~~~C~~C~~~I~~~~~~~~~~  218 (278)
                      |+..|.+. .+.+.+..||..|..|..|...|.  ...|.  .+|..||..+|..  .+..+|.+|...|...+     .
T Consensus         2 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~g~~~~~~d~~~~~~~~~rr~rt~~~~~ql~-----~   74 (235)
T KOG0490|consen    2 CGRQILDRYLLRVLDRYWHASCLKCAECDNPLGVGDTCFS--KDGSIYCKRDYQREFKFSKRCARCKFTISQLD-----E   74 (235)
T ss_pred             CCccccchHHhhcccHHHHHHHHhhhhhcchhccCCCccc--CCCcccccccchhhhhccccccCCCCCcCHHH-----H
Confidence            66777765 356679999999999999999997  44454  3899999999998  88899999999996543     1


Q ss_pred             EEEcCCcccccCCcccCCCCCCCCCCcCCCceeecCC-ccccccchhHh
Q psy15692        219 RVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDD-HVLCKSCNAKR  266 (278)
Q Consensus       219 ~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~~~~-~~~C~~C~~~~  266 (278)
                      ...+..+. |.-||.|..|.+.+..   +.++.+..+ +..|...+.+.
T Consensus        75 ler~f~~~-h~Pd~~~r~~la~~~~---~~e~rVqvwFqnrrak~r~~~  119 (235)
T KOG0490|consen   75 LERAFEKV-HLPCFACRECLALLLT---GDEFRVQVWFQNRRAKDRKEE  119 (235)
T ss_pred             HHHhhcCC-CcCccchHHHHhhcCC---CCeeeeehhhhhhcHhhhhhh
Confidence            23355555 9999999999998875   445666665 88888888655

>KOG1702|consensus

Probab=96.63  E-value=0.00017  Score=59.66  Aligned_cols=60  Identities=22%  Similarity=0.474  Sum_probs=48.1

Q ss_pred             cccccccccccc-cceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCC
Q psy15692        139 EKCSVCVKPILD-RILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAP  199 (278)
Q Consensus       139 ~~C~~C~~~I~~-~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~  199 (278)
                      ..|..|++.+.. +-|..+++.||..||+|..|+..|.-..+-. .+.++||..+|.+..+.
T Consensus         5 ~n~~~cgk~vYPvE~v~cldk~whk~cfkce~c~mtlnmKnyKg-y~kkpycn~hYpkq~at   65 (264)
T KOG1702|consen    5 CNREDCGKTVYPVEEVKCLDKVWHKQCFKCEVCGMTLNMKNYKG-YDKKPYCNPHYPKQVAT   65 (264)
T ss_pred             chhhhhccccccHHHHhhHHHHHHHHhheeeeccCChhhhhccc-cccCCCcCcccccceee
Confidence            456778888764 4578889999999999999999998666642 46799999999876543

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

Probab=89.44  E-value=0.2  Score=30.18  Aligned_cols=33  Identities=36%  Similarity=0.666  Sum_probs=25.0

Q ss_pred             cccCCCeeeCCcceeeeCCcccccccccccccCccc
Q psy15692         81 CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQL  116 (278)
Q Consensus        81 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l  116 (278)
                      |.-||++|.++-+.+...++.||.-|   ..|...|
T Consensus         1 Cd~CG~~I~~eP~~~k~~~~~y~fCC---~tC~~~f   33 (37)
T PF08394_consen    1 CDYCGGEITGEPIVVKIGNKVYYFCC---PTCLSQF   33 (37)
T ss_pred             CCccCCcccCCEEEEEECCeEEEEEC---HHHHHHH
Confidence            77899999988877888999998544   4444433

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

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

Probab=87.99  E-value=0.48  Score=35.23  Aligned_cols=33  Identities=21%  Similarity=0.332  Sum_probs=24.7

Q ss_pred             CCccccccCCCeeeCCcceeeeCCccccccccc
Q psy15692         76 DLFGECCKCGERILGEGSGCTAMDKVYHISCFT  108 (278)
Q Consensus        76 ~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~  108 (278)
                      .....|..|+++|....+.+.-.|..+|..|++
T Consensus        76 ~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   76 TESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence            445679999999987665445567789988864

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

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=85.64  E-value=0.37  Score=31.56  Aligned_cols=38  Identities=21%  Similarity=0.525  Sum_probs=24.7

Q ss_pred             ccccccCCCeeeCCcceee--eCCcccccccc----cccc--cCcc
Q psy15692         78 FGECCKCGERILGEGSGCT--AMDKVYHISCF----TCDH--CAVQ  115 (278)
Q Consensus        78 ~~~C~~C~~~I~~~~~~~~--~~~~~~H~~Cf----~C~~--C~~~  115 (278)
                      ...|..|+++|..++-+|.  .-+..||++|.    .|..  |+.+
T Consensus         5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~g~C~~~~c~~~   50 (54)
T PF14446_consen    5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKAGGCINYSCGTG   50 (54)
T ss_pred             CccChhhCCcccCCCCEEECCCCCCcccHHHHhhCCceEeccCCCC
Confidence            3579999999963332232  34789999987    5554  5443

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=82.96  E-value=1.1  Score=29.43  Aligned_cols=40  Identities=25%  Similarity=0.604  Sum_probs=26.9

Q ss_pred             cCCCCcccCccccCCCCCCceeEEE--cCCcccccCCc----ccCC--CCCCC
Q psy15692        197 FAPRCCVCRAPIMPDSEQDETVRVV--ALDRSFHIGCY----RCED--CGLVL  241 (278)
Q Consensus       197 ~~~~C~~C~~~I~~~~~~~~~~~v~--~~~~~~H~~Cf----~C~~--C~~~l  241 (278)
                      .+.+|..|+++|.+++.     +|+  .-+..||.+|+    .|..  |+..+
T Consensus         4 ~~~~C~~Cg~~~~~~dD-----iVvCp~CgapyHR~C~~~~g~C~~~~c~~~~   51 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDD-----IVVCPECGAPYHRDCWEKAGGCINYSCGTGF   51 (54)
T ss_pred             cCccChhhCCcccCCCC-----EEECCCCCCcccHHHHhhCCceEeccCCCCc
Confidence            36789999999975542     332  44778888888    3655  55544

>KOG2462|consensus

Probab=81.97  E-value=0.38  Score=42.12  Aligned_cols=123  Identities=15%  Similarity=0.306  Sum_probs=65.9

Q ss_pred             cccccccccCcccCCCCeEeeCCeecccccccccccccccccccccccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcC
Q psy15692        104 ISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDA  183 (278)
Q Consensus       104 ~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~  183 (278)
                      ...++|..|++.++...-..+..+.-|..+- +....|..|++.-...-...+-..-|.-=+.|..|++.|.- .+.+  
T Consensus       128 ~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s-~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSR-PWLL--  203 (279)
T KOG2462|consen  128 HPRYKCPECGKSYSTSSNLSRHKQTHRSLDS-KKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSR-PWLL--  203 (279)
T ss_pred             CCceeccccccccccccccchhhcccccccc-cccccCCCCCceeeehHHHhhHhhccCCCcccccccccccc-hHHh--
Confidence            4678899999888754434444455554443 33367888888664321122222345444678899987751 1111  


Q ss_pred             CCcccchhhhhcccCC---CCcccCccccCCCCCCceeEEEc-CCcccccCCcccCCCCCCCC
Q psy15692        184 ANQIHCIQDFHKKFAP---RCCVCRAPIMPDSEQDETVRVVA-LDRSFHIGCYRCEDCGLVLS  242 (278)
Q Consensus       184 ~~~~~C~~~y~~~~~~---~C~~C~~~I~~~~~~~~~~~v~~-~~~~~H~~Cf~C~~C~~~l~  242 (278)
                      +|.+      ..-.+.   .|..|++...+...      +.+ +.-.=+.+=|.|..|++.|.
T Consensus       204 QGHi------RTHTGEKPF~C~hC~kAFADRSN------LRAHmQTHS~~K~~qC~~C~KsFs  254 (279)
T KOG2462|consen  204 QGHI------RTHTGEKPFSCPHCGKAFADRSN------LRAHMQTHSDVKKHQCPRCGKSFA  254 (279)
T ss_pred             hccc------ccccCCCCccCCcccchhcchHH------HHHHHHhhcCCccccCcchhhHHH
Confidence            1211      111111   37778877753321      111 11122345688888888876

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	278
2dlo_A	81	Solution Structure Of The Second Lim Domain Of Huma		2e-24
1x61_A	72	Solution Structure Of The First Lim Domain Of Thyro		2e-10
3mmk_A	169	The Structural Basis For Partial Redundancy In A Cl		9e-08
2dfy_X	195	Crystal Structure Of A Cyclized Protein Fusion Of L		3e-06
1rut_X	188	Complex Of Lmo4 Lim Domains 1 And 2 With The Ldb1 L		3e-06
2jtn_A	182	Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Compl		5e-06
2rgt_A	169	Crystal Structure Of Lhx3 Lim Domains 1 And 2 With		9e-06
1cxx_A	113	Mutant R122a Of Quail Cysteine And Glycine-Rich Pro		4e-05
1qli_A	113	Quail Cysteine And Glycine-Rich Protein, Nmr, 15 Mi		8e-05
2xjy_A	131	Crystal Structure Of The Lmo2:ldb1-Lid Complex, P21		1e-04
1x64_A	89	Solution Structure Of The Lim Domain Of Alpha-Actin		6e-04

>pdb|2DLO|A Chain A, Solution Structure Of The Second Lim Domain Of Human Thyroid Receptor-Interacting Protein 6 Length = 81

Iteration: 1
 Score =  109 bits (272), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 48/65 (73%), Positives = 56/65 (86%)
Query: 134 YLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDF 193
           Y+ TLEKC+ C +PILDRILRA G+ YHP CFTCVVC + LDGIPFTVDA +QIHCI+DF
Sbjct: 11  YVATLEKCATCSQPILDRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDF 70
Query: 194 HKKFA 198
           H+KFA
Sbjct: 71  HRKFA 75

>pdb|1X61|A Chain A, Solution Structure Of The First Lim Domain Of Thyroid Receptor Interacting Protein 6 (Trip6) Length = 72

Iteration: 1
 Score = 62.8 bits (151), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 26/55 (47%), Positives = 37/55 (67%)
Query: 86  ERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEK 140
           E ++G+G+G  A+D+V+H+ CF C  C  QL G+ FY +E  AYCE  Y+ TLE 
Sbjct: 13  EDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVATLES 67

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

Iteration: 1
 Score = 53.9 bits (128), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 40/130 (30%), Positives = 64/130 (49%), Gaps = 12/130 (9%)
Query: 133 GYLDTLEKCSVCVKPILDR-ILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQ 191
           G +  + +C+ C + ILD+ IL+   R +H +C  C  C   L    F+   A  ++C +
Sbjct: 1   GSMQQIPQCAGCNQHILDKFILKVLDRHWHSSCLKCADCQMQLADRCFS--RAGSVYCKE 58
Query: 192 DFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCY 251
           DF K+F  +C  C+  I P     + VR  A D  +H+ C+ C  C   L   A G   Y
Sbjct: 59  DFFKRFGTKCTACQQGIPP----TQVVR-KAQDFVYHLHCFACIICNRQL---ATGDEFY 110
Query: 252 PLDD-HVLCK 260
            ++D  ++CK
Sbjct: 111 LMEDGRLVCK 120

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 33/104 (31%), Positives = 42/104 (40%), Gaps = 8/104 (7%)
Query: 78  FGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLE--GKPFYIIEGHAYCEQGYL 135
           +  C  CG +I  +     AMD  +H  C  C  C  QL   G   Y   G   C   Y+
Sbjct: 3   WKRCAGCGGKI-ADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYI 61
Query: 136 DTLEK---CSVCVK--PILDRILRATGRPYHPACFTCVVCGKSL 174
                   CS C +  P  + ++RA G  YH  CFTC  C   L
Sbjct: 62  RLFGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRL 105

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 33/104 (31%), Positives = 42/104 (40%), Gaps = 8/104 (7%)
Query: 78  FGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLE--GKPFYIIEGHAYCEQGYL 135
           +  C  CG +I  +     AMD  +H  C  C  C  QL   G   Y   G   C   Y+
Sbjct: 5   WKRCAGCGGKI-ADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYI 63
Query: 136 DTLEK---CSVCVK--PILDRILRATGRPYHPACFTCVVCGKSL 174
                   CS C +  P  + ++RA G  YH  CFTC  C   L
Sbjct: 64  RLFGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRL 107

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 40/123 (32%), Positives = 59/123 (47%), Gaps = 12/123 (9%)
Query: 141 CSVCVKPILDR-ILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAP 199
           C+ C + ILDR IL+A  R +H  C  C  C   L    F+      ++C  DF K+F  
Sbjct: 63  CAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFS--RGESVYCKDDFFKRFGT 120
Query: 200 RCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDD-HVL 258
           +C  C+  I P     + VR  A D  +H+ C+ C  C   L   A G   Y ++D  ++
Sbjct: 121 KCAACQLGIPP----TQVVR-RAQDFVYHLHCFACVVCKRQL---ATGDEFYLMEDSRLV 172
Query: 259 CKS 261
           CK+
Sbjct: 173 CKA 175

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

Iteration: 1
 Score = 47.4 bits (111), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 41/131 (31%), Positives = 61/131 (46%), Gaps = 12/131 (9%)
Query: 133 GYLDTLEKCSVCVKPILDR-ILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQ 191
           G    +  C+ C + ILDR IL+A  R +H  C  C  C   L    F+      ++C  
Sbjct: 1   GSTPEIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFS--RGESVYCKD 58
Query: 192 DFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCY 251
           DF K+F  +C  C+  I P     + VR  A D  +H+ C+ C  C   L   A G   Y
Sbjct: 59  DFFKRFGTKCAACQLGIPP----TQVVR-RAQDFVYHLHCFACVVCKRQL---ATGDEFY 110
Query: 252 PLDD-HVLCKS 261
            ++D  ++CK+
Sbjct: 111 LMEDSRLVCKA 121

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 23/68 (33%), Positives = 36/68 (52%), Gaps = 4/68 (5%)
Query: 135 LDTLEKCSVCVKPIL--DRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQD 192
               EKCS C   +   ++++ A G+P+H  CF C  CGKSL+    T +   +I+C   
Sbjct: 33  FGGAEKCSACGDSVYAAEKVIGA-GKPWHKNCFRCAKCGKSLESTTLT-EKEGEIYCKGC 90
Query: 193 FHKKFAPR 200
           + K F P+
Sbjct: 91  YAKNFGPK 98

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 23/68 (33%), Positives = 36/68 (52%), Gaps = 4/68 (5%)
Query: 135 LDTLEKCSVCVKPIL--DRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQD 192
               EKCS C   +   ++++ A G+P+H  CF C  CGKSL+    T +   +I+C   
Sbjct: 33  FGGAEKCSRCGDSVYAAEKVIGA-GKPWHKNCFRCAKCGKSLESTTLT-EKEGEIYCKGC 90
Query: 193 FHKKFAPR 200
           + K F P+
Sbjct: 91  YAKNFGPK 98

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 27/96 (28%), Positives = 43/96 (44%), Gaps = 7/96 (7%)
Query: 86  ERILGEGSGCTAMDKVYHISCFTCDHCAVQLE--GKPFYIIEGHAYCEQGYLDTLEK--- 140
           ++ +G+     A+D+ +H  C +CD C  +L   G+  Y   G   C + YL    +   
Sbjct: 9   QQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGL 68
Query: 141 CSVCVKPI--LDRILRATGRPYHPACFTCVVCGKSL 174
           C+ C K I   +  +R   + YH  CF C  C K  
Sbjct: 69  CASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHF 104

>pdb|1X64|A Chain A, Solution Structure Of The Lim Domain Of Alpha-Actinin-2 Associated Lim Protein Length = 89

Iteration: 1
 Score = 41.2 bits (95), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 21/51 (41%), Positives = 28/51 (54%), Gaps = 2/51 (3%)
Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCE 131
           C KCG  I+G  +   A DK  H  CF C  C + L+ K ++ +EG  YCE
Sbjct: 28  CDKCGSGIVG--AVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCE 76

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	278
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	3e-29
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	1e-22
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	5e-15
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	3e-05
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	3e-28
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	5e-14
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	4e-05
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	2e-27
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	2e-24
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	7e-06
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	1e-25
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	8e-21
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	6e-10
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	3e-25
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	4e-21
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	7e-07
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	3e-25
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	2e-20
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	2e-08
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	6e-25
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	5e-10
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	7e-08
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	3e-24
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	3e-17
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	3e-09
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	3e-05
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	6e-22
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	7e-11
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	1e-06
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	3e-19
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	4e-12
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	9e-06
2cuq_A	80	Four and A half LIM domains 3; structural genomics	2e-18
2cuq_A	80	Four and A half LIM domains 3; structural genomics	2e-11
2cuq_A	80	Four and A half LIM domains 3; structural genomics	3e-09
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	3e-18
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	1e-11
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	8e-07
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	2e-17
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	4e-12
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	1e-09
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	6e-17
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	4e-12
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	1e-06
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	2e-16
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	1e-10
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	2e-09
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	5e-16
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	2e-13
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	2e-06
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	1e-15
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	1e-13
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	4e-07
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	2e-15
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	3e-10
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	4e-10
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	2e-15
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	3e-11
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	4e-07
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	2e-15
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	1e-11
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	9e-07
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	1e-14
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	2e-11
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	8e-09
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	2e-14
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	2e-11
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	7e-06
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	3e-14
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	4e-11
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	2e-08
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	5e-14
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	2e-13
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	1e-06
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	8e-14
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	5e-07
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	2e-04
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	8e-14
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	3e-08
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	7e-06
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	6e-13
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	2e-10
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	1e-07
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	1e-12
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	5e-11
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	1e-10
2cor_A	79	Pinch protein; LIM domain, particularly interestin	2e-12
2cor_A	79	Pinch protein; LIM domain, particularly interestin	9e-07
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	3e-12
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	2e-08
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	2e-06
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	4e-12
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	1e-07
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	5e-06
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	3e-11
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	2e-10
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	2e-08
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	1e-10
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	2e-10
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	1e-07
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	2e-10
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	2e-09
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	5e-10
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	1e-07
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	2e-05
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	2e-09
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	9e-09
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	2e-08
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	7e-09
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	5e-07
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	6e-05
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	4e-08
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	1e-07
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	1e-05
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	9e-08
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	1e-07
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	3e-04
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	4e-06
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	4e-05
2co8_A	82	NEDD9 interacting protein with calponin homology a	9e-05
2co8_A	82	NEDD9 interacting protein with calponin homology a	1e-04
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	2e-04

>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 =  108 bits (270), Expect = 3e-29
 Identities = 37/162 (22%), Positives = 55/162 (33%), Gaps = 13/162 (8%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-E 139
           C  C + IL       A+D+ +H  C  C  C V L  +  +      YC+  +      
Sbjct: 9   CAGCDQHILDRFI-LKALDRHWHSKCLKCSDCHVPLAER-CFSRGESVYCKDDFFKRFGT 66

Query: 140 KCSVCVK--PILDRILRATGRPYHPACFTCVVCGKSL-DGIPFTVDAANQIHCIQDFHKK 196
           KC+ C    P    + RA    YH  CF CVVC + L  G  F +   +++ C  D+   
Sbjct: 67  KCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETA 126

Query: 197 FAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCG 238
                                  +VA     H G  +     
Sbjct: 127 KQGGSGGSGGSGGGTP-------MVAASPERHDGGLQANPVE 161

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

 Score = 90.7 bits (225), Expect = 1e-22
 Identities = 36/124 (29%), Positives = 54/124 (43%), Gaps = 10/124 (8%)

Query: 140 KCSVCVKPILDR-ILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFA 198
            C+ C + ILDR IL+A  R +H  C  C  C   L    F+      ++C  DF K+F 
Sbjct: 8   MCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSRG--ESVYCKDDFFKRFG 65

Query: 199 PRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVL 258
            +C  C+  I P           A D  +H+ C+ C  C   L++  E       D  ++
Sbjct: 66  TKCAACQLGIPPTQV-----VRRAQDFVYHLHCFACVVCKRQLATGDE--FYLMEDSRLV 118

Query: 259 CKSC 262
           CK+ 
Sbjct: 119 CKAD 122

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

 Score = 70.3 bits (172), Expect = 5e-15
 Identities = 24/101 (23%), Positives = 30/101 (29%), Gaps = 4/101 (3%)

Query: 77  LFGECC-KCGERILGEGSGCTAMDKVYHISCFTCDHCAVQL-EGKPFYIIE-GHAYCEQG 133
            FG  C  C   I        A D VYH+ CF C  C  QL  G  FY++E     C+  
Sbjct: 63  RFGTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKAD 122

Query: 134 YLDTLE-KCSVCVKPILDRILRATGRPYHPACFTCVVCGKS 173
           Y    +              + A     H            
Sbjct: 123 YETAKQGGSGGSGGSGGGTPMVAASPERHDGGLQANPVEVQ 163

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

 Score = 42.5 bits (100), Expect = 3e-05
 Identities = 19/64 (29%), Positives = 27/64 (42%), Gaps = 11/64 (17%)

Query: 199 PRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVL 258
           P C  C   I      D  + + ALDR +H  C +C DC + L+       C+   + V 
Sbjct: 7   PMCAGCDQHI-----LDRFI-LKALDRHWHSKCLKCSDCHVPLAER-----CFSRGESVY 55

Query: 259 CKSC 262
           CK  
Sbjct: 56  CKDD 59

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

 Score =  106 bits (265), Expect = 3e-28
 Identities = 32/186 (17%), Positives = 48/186 (25%), Gaps = 22/186 (11%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEK 140
           C  C + +             +H SCF C  C   L+     +     YC+         
Sbjct: 10  CGVCQKAVYF-AEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKS-------- 60

Query: 141 CSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPR 200
              C         +  G                      +    N            +  
Sbjct: 61  ---CYGKKYGPKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDG 117

Query: 201 CCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCK 260
           C  C   +          +V+   +S+H  C+RC  CG  L S          D  + CK
Sbjct: 118 CPRCGQAVYA------AEKVIGAGKSWHKSCFRCAKCGKSLEST----TLADKDGEIYCK 167

Query: 261 SCNAKR 266
            C AK 
Sbjct: 168 GCYAKN 173

>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 = 67.7 bits (165), Expect = 5e-14
 Identities = 25/125 (20%), Positives = 42/125 (33%), Gaps = 2/125 (1%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEK 140
           C  C  +  G       M      +           EG+       +A      +   + 
Sbjct: 58  CKSCYGKKYGPKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDG 117

Query: 141 CSVCVKPILD-RILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAP 199
           C  C + +     +   G+ +H +CF C  CGKSL+      D   +I+C   + K F P
Sbjct: 118 CPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLA-DKDGEIYCKGCYAKNFGP 176

Query: 200 RCCVC 204
           +    
Sbjct: 177 KGFGF 181

>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 = 42.3 bits (99), Expect = 4e-05
 Identities = 18/69 (26%), Positives = 24/69 (34%), Gaps = 10/69 (14%)

Query: 198 APRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHV 257
             +C VC+  +           V     SFH  C+ C  C   L S           D +
Sbjct: 7   GKKCGVCQKAVYF------AEEVQCEGSSFHKSCFLCMVCKKNLDST----TVAVHGDEI 56

Query: 258 LCKSCNAKR 266
            CKSC  K+
Sbjct: 57  YCKSCYGKK 65

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

 Score =  102 bits (255), Expect = 2e-27
 Identities = 27/123 (21%), Positives = 45/123 (36%), Gaps = 7/123 (5%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-E 139
           C  C E I        A ++ +H+  F C  C   L G+ + ++     C+  Y+     
Sbjct: 6   CAGCDELIFS-NEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAV 64

Query: 140 KCSVCVKPIL--DRILRATGRPYHPA--CFTCVVCGKSLDGIPFTVDAANQIHCIQDFHK 195
            C  C   I    + +      +H +  CF C  C K L G  F       + C  +  K
Sbjct: 65  VCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPV-EGMVFCSVECKK 123

Query: 196 KFA 198
           + +
Sbjct: 124 RMS 126

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

 Score = 94.0 bits (234), Expect = 2e-24
 Identities = 31/131 (23%), Positives = 50/131 (38%), Gaps = 13/131 (9%)

Query: 140 KCSVCVKPILDR-ILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFA 198
           +C+ C + I      +A  + +H   F C  C   L G  + +   ++  C   + K  A
Sbjct: 5   RCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVN-DKPVCKPCYVKNHA 63

Query: 199 PRCCVCRAPIMPDSEQDETVRVVALDRSFH--IGCYRCEDCGLVLSSEAEGRGCYPLDDH 256
             C  C   I P+       RV   + S+H    C+ C  C   L     G+   P++  
Sbjct: 64  VVCQGCHNAIDPE-----VQRVTYNNFSWHASTECFLCSCCSKCL----IGQKFMPVEGM 114

Query: 257 VLCKSCNAKRV 267
           V C     KR+
Sbjct: 115 VFCSVECKKRM 125

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

 Score = 43.5 bits (103), Expect = 7e-06
 Identities = 16/64 (25%), Positives = 28/64 (43%), Gaps = 10/64 (15%)

Query: 199 PRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVL 258
           PRC  C   I  +          A ++++H+  + C DC  +L+    G     ++D  +
Sbjct: 4   PRCAGCDELIFSNEY------TQAENQNWHLKHFCCFDCDSILA----GEIYVMVNDKPV 53

Query: 259 CKSC 262
           CK C
Sbjct: 54  CKPC 57

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

 Score = 97.5 bits (243), Expect = 1e-25
 Identities = 33/122 (27%), Positives = 49/122 (40%), Gaps = 8/122 (6%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQL--EGKPFYIIEGHAYCEQGYLD-- 136
           C  C + I        A+D+ +H  C +CD C  +L   G+  Y   G   C + YL   
Sbjct: 5   CGGCQQNIGDR-YFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLF 63

Query: 137 -TLEKCSVCVKPI--LDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDF 193
                C+ C K I   +  +R   + YH  CF C  C K        +   + I C QD 
Sbjct: 64  GQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDI 123

Query: 194 HK 195
           ++
Sbjct: 124 YE 125

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

 Score = 84.8 bits (210), Expect = 8e-21
 Identities = 29/130 (22%), Positives = 53/130 (40%), Gaps = 12/130 (9%)

Query: 137 TLEKCSVCVKPILDR-ILRATGRPYHPACFTCVVCGKSLDGIPFT-VDAANQIHCIQDFH 194
           +L  C  C + I DR  L+A  + +H  C +C +CG  L  +         +  C +D+ 
Sbjct: 1   SLLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYL 60

Query: 195 KKFAPR--CCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYP 252
           + F     C  C   I      + T+R    D+ +H+ C++C  C         G     
Sbjct: 61  RLFGQDGLCASCDKRIRAY---EMTMR--VKDKVYHLECFKCAACQKHFC---VGDRYLL 112

Query: 253 LDDHVLCKSC 262
           ++  ++C+  
Sbjct: 113 INSDIVCEQD 122

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

 Score = 55.1 bits (133), Expect = 6e-10
 Identities = 19/64 (29%), Positives = 25/64 (39%), Gaps = 1/64 (1%)

Query: 79  GECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQL-EGKPFYIIEGHAYCEQGYLDT 137
           G C  C +RI          DKVYH+ CF C  C      G  + +I     CEQ   + 
Sbjct: 67  GLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIYEW 126

Query: 138 LEKC 141
            +  
Sbjct: 127 TKIN 130

>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 = 98.1 bits (244), Expect = 3e-25
 Identities = 39/160 (24%), Positives = 58/160 (36%), Gaps = 11/160 (6%)

Query: 105 SCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDT-LEKCSVCVKPILDR-ILRATGRPYHP 162
              T                 G            +  C+ C + ILDR IL+A  R +H 
Sbjct: 26  RLITRLENTQFDAANGIDDEGGSGGHMGSGGTPEIPMCAGCDQHILDRFILKALDRHWHS 85

Query: 163 ACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVA 222
            C  C  C   L    F+      ++C  DF K+F  +C  C+  I P       V   A
Sbjct: 86  KCLKCSDCHVPLAERCFSRG--ESVYCKDDFFKRFGTKCAACQLGIPPT-----QVVRRA 138

Query: 223 LDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSC 262
            D  +H+ C+ C  C   L++  E       D  ++CK+ 
Sbjct: 139 QDFVYHLHCFACVVCKRQLATGDE--FYLMEDSRLVCKAD 176

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

 Score = 86.9 bits (215), Expect = 4e-21
 Identities = 33/120 (27%), Positives = 49/120 (40%), Gaps = 6/120 (5%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-E 139
           C  C + IL       A+D+ +H  C  C  C V L  +  +      YC+  +      
Sbjct: 63  CAGCDQHILDRFI-LKALDRHWHSKCLKCSDCHVPLAER-CFSRGESVYCKDDFFKRFGT 120

Query: 140 KCSVCVKPI--LDRILRATGRPYHPACFTCVVCGKSL-DGIPFTVDAANQIHCIQDFHKK 196
           KC+ C   I     + RA    YH  CF CVVC + L  G  F +   +++ C  D+   
Sbjct: 121 KCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETA 180

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

 Score = 47.6 bits (113), Expect = 7e-07
 Identities = 22/61 (36%), Positives = 26/61 (42%), Gaps = 3/61 (4%)

Query: 77  LFGECC-KCGERILGEGSGCTAMDKVYHISCFTCDHCAVQL-EGKPFYIIE-GHAYCEQG 133
            FG  C  C   I        A D VYH+ CF C  C  QL  G  FY++E     C+  
Sbjct: 117 RFGTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKAD 176

Query: 134 Y 134
           Y
Sbjct: 177 Y 177

>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 = 95.2 bits (237), Expect = 3e-25
 Identities = 22/94 (23%), Positives = 37/94 (39%), Gaps = 3/94 (3%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-E 139
           C +C + I  +       ++ +H +CF C  C   L  + F   +    C +        
Sbjct: 8   CVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSP 67

Query: 140 KCSVCVKPIL--DRILRATGRPYHPACFTCVVCG 171
           KC  C K I+  D+ +   G  +H  CF+    G
Sbjct: 68  KCKGCFKAIVAGDQNVEYKGTVWHKDCFSGPSSG 101

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

 Score = 82.8 bits (205), Expect = 2e-20
 Identities = 24/101 (23%), Positives = 37/101 (36%), Gaps = 8/101 (7%)

Query: 140 KCSVCVKPIL--DRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKF 197
            C  C KPI    + +    R +H  CF C  C   L    F     N+I C +   ++ 
Sbjct: 7   GCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAK-DNKILCNKCTTRED 65

Query: 198 APRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCG 238
           +P+C  C   I+   +      V      +H  C+     G
Sbjct: 66  SPKCKGCFKAIVAGDQ-----NVEYKGTVWHKDCFSGPSSG 101

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

 Score = 50.1 bits (120), Expect = 2e-08
 Identities = 19/67 (28%), Positives = 27/67 (40%), Gaps = 9/67 (13%)

Query: 196 KFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDD 255
             +  C  CR PI  DS+      V   +R +H  C+RC  C   L+           D+
Sbjct: 3   SGSSGCVECRKPIGADSK-----EVHYKNRFWHDTCFRCAKCLHPLA----NETFVAKDN 53

Query: 256 HVLCKSC 262
            +LC  C
Sbjct: 54  KILCNKC 60

>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 = 94.0 bits (234), Expect = 6e-25
 Identities = 49/72 (68%), Positives = 57/72 (79%)

Query: 131 EQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCI 190
           E  Y+ TLEKC+ C +PILDRILRA G+ YHP CFTCVVC + LDGIPFTVDA +QIHCI
Sbjct: 8   EGCYVATLEKCATCSQPILDRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCI 67

Query: 191 QDFHKKFAPRCC 202
           +DFH+KFA    
Sbjct: 68  EDFHRKFASGPS 79

>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 = 53.9 bits (130), Expect = 5e-10
 Identities = 19/55 (34%), Positives = 25/55 (45%), Gaps = 3/55 (5%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYII-EGHAYCEQGY 134
           C  C + IL       AM K YH  CFTC  C   L+G PF +      +C + +
Sbjct: 18  CATCSQPILDRI--LRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDF 70

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

 Score = 48.1 bits (115), Expect = 7e-08
 Identities = 12/76 (15%), Positives = 25/76 (32%), Gaps = 10/76 (13%)

Query: 191 QDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGC 250
           +  +     +C  C  PI+          + A+ +++H GC+ C  C   L         
Sbjct: 8   EGCYVATLEKCATCSQPILDRI-------LRAMGKAYHPGCFTCVVCHRGLDGI---PFT 57

Query: 251 YPLDDHVLCKSCNAKR 266
                 + C     ++
Sbjct: 58  VDATSQIHCIEDFHRK 73

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

 Score = 95.5 bits (237), Expect = 3e-24
 Identities = 36/147 (24%), Positives = 46/147 (31%), Gaps = 8/147 (5%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQL--EGKPFYIIEGHAYCEQGYLDTL 138
           C  CG +I        AMD  +H  C  C  C  QL   G   Y   G   C   Y+   
Sbjct: 8   CAGCGGKIADRFL-LYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLF 66

Query: 139 E---KCSVCVKPIL--DRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDF 193
                CS C + I   + ++RA G  YH  CFTC  C   L            + C  D 
Sbjct: 67  GNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDR 126

Query: 194 HKKFAPRCCVCRAPIMPDSEQDETVRV 220
                                 + + V
Sbjct: 127 PTALINGHLNSGGSGGSGGSGGDVMVV 153

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

 Score = 76.6 bits (188), Expect = 3e-17
 Identities = 30/130 (23%), Positives = 49/130 (37%), Gaps = 12/130 (9%)

Query: 137 TLEKCSVCVKPILDR-ILRATGRPYHPACFTCVVCGKSLDGIPFT-VDAANQIHCIQDFH 194
           + ++C+ C   I DR +L A    +H  C  C  C   L  I  +    +  I C  D+ 
Sbjct: 4   SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYI 63

Query: 195 KKF--APRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYP 252
           + F  +  C  C   I       E V   A    +H+ C+ C  C   L     G   + 
Sbjct: 64  RLFGNSGACSACGQSIPAS----ELVMR-AQGNVYHLKCFTCSTCRNRLV---PGDRFHY 115

Query: 253 LDDHVLCKSC 262
           ++  + C+  
Sbjct: 116 INGSLFCEHD 125

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

 Score = 54.6 bits (131), Expect = 3e-09
 Identities = 24/92 (26%), Positives = 30/92 (32%), Gaps = 6/92 (6%)

Query: 79  GECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQL-EGKPFYIIEGHAYCEQGYLDT 137
           G C  CG+ I        A   VYH+ CFTC  C  +L  G  F+ I G  +CE      
Sbjct: 70  GACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTA 129

Query: 138 LE-KCSVCVKPI----LDRILRATGRPYHPAC 164
           L                   +   G P     
Sbjct: 130 LINGHLNSGGSGGSGGSGGDVMVVGEPTLMGG 161

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

 Score = 43.1 bits (101), Expect = 3e-05
 Identities = 16/70 (22%), Positives = 25/70 (35%), Gaps = 8/70 (11%)

Query: 197 FAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDH 256
              RC  C   I      D  + + A+D  +H  C +C  C   L     G   Y     
Sbjct: 4   SWKRCAGCGGKIA-----DRFL-LYAMDSYWHSRCLKCSSCQAQLGD--IGTSSYTKSGM 55

Query: 257 VLCKSCNAKR 266
           +LC++   + 
Sbjct: 56  ILCRNDYIRL 65

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

 Score = 86.0 bits (213), Expect = 6e-22
 Identities = 29/66 (43%), Positives = 40/66 (60%)

Query: 79  GECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL 138
             C  CGE ++G+G+G  A+D+V+H+ CF C  C  QL G+ FY +E  AYCE  Y+ TL
Sbjct: 6   SGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVATL 65

Query: 139 EKCSVC 144
           E     
Sbjct: 66  ESGPSS 71

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

 Score = 56.3 bits (136), Expect = 7e-11
 Identities = 13/70 (18%), Positives = 21/70 (30%), Gaps = 4/70 (5%)

Query: 137 TLEKCSVCVKPIL--DRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFH 194
               C  C + ++     + A  R +H  CF C  C   L G  F      + +C   + 
Sbjct: 4   GSSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAV-ERRAYCEGCYV 62

Query: 195 KKFAPRCCVC 204
                     
Sbjct: 63  ATLE-SGPSS 71

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

 Score = 44.4 bits (105), Expect = 1e-06
 Identities = 20/65 (30%), Positives = 29/65 (44%), Gaps = 9/65 (13%)

Query: 198 APRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHV 257
           +  C  C   ++ D        VVALDR FH+GC+ C  C   L     G+  Y ++   
Sbjct: 5   SSGCGGCGEDVVGDG-----AGVVALDRVFHVGCFVCSTCRAQLR----GQHFYAVERRA 55

Query: 258 LCKSC 262
            C+ C
Sbjct: 56  YCEGC 60

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

 Score = 79.4 bits (196), Expect = 3e-19
 Identities = 18/85 (21%), Positives = 30/85 (35%), Gaps = 3/85 (3%)

Query: 120 PFYIIEGHAYCEQGYLDTLEK--CSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGI 177
                +      +          C+ C + I    L A G+ +HP  F C  C  ++  I
Sbjct: 5   SSGDQDTLVQRAEHIPAGKRTPMCAHCNQVIRGPFLVALGKSWHPEEFNCAHCKNTMAYI 64

Query: 178 PFTVDAANQIHCIQDFHKKFAPRCC 202
            F V+    ++C   + K FA    
Sbjct: 65  GF-VEEKGALYCELCYEKFFASGPS 88

>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 = 60.1 bits (146), Expect = 4e-12
 Identities = 17/54 (31%), Positives = 22/54 (40%), Gaps = 2/54 (3%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C  C + I G      A+ K +H   F C HC   +    F   +G  YCE  Y
Sbjct: 28  CAHCNQVIRGPF--LVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCY 79

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

 Score = 42.4 bits (100), Expect = 9e-06
 Identities = 17/86 (19%), Positives = 27/86 (31%), Gaps = 12/86 (13%)

Query: 182 DAANQIHCIQDFH-KKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLV 240
           D    +   +     K  P C  C   I           +VAL +S+H   + C  C   
Sbjct: 8   DQDTLVQRAEHIPAGKRTPMCAHCNQVIRGPF-------LVALGKSWHPEEFNCAHCKNT 60

Query: 241 LSSEAEGRGCYPLDDHVLCKSCNAKR 266
           ++      G       + C+ C  K 
Sbjct: 61  MA----YIGFVEEKGALYCELCYEKF 82

>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 = 76.6 bits (189), Expect = 2e-18
 Identities = 17/77 (22%), Positives = 27/77 (35%), Gaps = 2/77 (2%)

Query: 126 GHAYCEQGYLDTL-EKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAA 184
                   Y +    +C+ C K +    +    +P+H  C  C  C   L G  FT    
Sbjct: 2   SSGSSGPCYENKFAPRCARCSKTLTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSR-D 60

Query: 185 NQIHCIQDFHKKFAPRC 201
              +C+  F + FA   
Sbjct: 61  EDPYCVACFGELFASGP 77

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

 Score = 58.1 bits (141), Expect = 2e-11
 Identities = 14/54 (25%), Positives = 22/54 (40%), Gaps = 2/54 (3%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C +C + +   G   T  D+ +H  C  C  C   L G+ F   +   YC   +
Sbjct: 18  CARCSKTLTQGG--VTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACF 69

>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 = 51.9 bits (125), Expect = 3e-09
 Identities = 18/78 (23%), Positives = 27/78 (34%), Gaps = 11/78 (14%)

Query: 185 NQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSE 244
           +       +  KFAPRC  C   +           V   D+ +H  C  C  C   L+  
Sbjct: 2   SSGSSGPCYENKFAPRCARCSKTLTQGG-------VTYRDQPWHRECLVCTGCQTPLA-- 52

Query: 245 AEGRGCYPLDDHVLCKSC 262
             G+     D+   C +C
Sbjct: 53  --GQQFTSRDEDPYCVAC 68

>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 = 76.3 bits (188), Expect = 3e-18
 Identities = 17/65 (26%), Positives = 23/65 (35%)

Query: 79  GECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL 138
             C +C            +  ++YH  CF C  C  Q     FY  EG  YCE  +    
Sbjct: 12  ATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 71

Query: 139 EKCSV 143
             C +
Sbjct: 72  APCWI 76

>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 = 58.2 bits (141), Expect = 1e-11
 Identities = 19/77 (24%), Positives = 27/77 (35%), Gaps = 5/77 (6%)

Query: 130 CEQGYLD-TLEKCSVCVKPI--LDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQ 186
            E          C  C       ++I+ + G  YH  CF C  C +      F      +
Sbjct: 2   SEFMANALASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEF-EGR 60

Query: 187 IHCIQDFHKKFAPRCCV 203
            +C  DF   FAP C +
Sbjct: 61  KYCEHDFQMLFAP-CWI 76

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

 Score = 45.1 bits (107), Expect = 8e-07
 Identities = 10/74 (13%), Positives = 19/74 (25%), Gaps = 9/74 (12%)

Query: 189 CIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGR 248
                +   +  C  C+    P  +      V +    +H  C+ C  C           
Sbjct: 2   SEFMANALASATCERCKGGFAPAEK-----IVNSNGELYHEQCFVCAQCFQQF----PEG 52

Query: 249 GCYPLDDHVLCKSC 262
             Y  +    C+  
Sbjct: 53  LFYEFEGRKYCEHD 66

>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 = 73.9 bits (182), Expect = 2e-17
 Identities = 18/78 (23%), Positives = 27/78 (34%), Gaps = 2/78 (2%)

Query: 126 GHAYCEQGYLDTLE-KCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAA 184
                 + +L     KC  C +P+L+  L A    +HP CF C  C  S     F     
Sbjct: 2   SSGSSGKDFLAMFSPKCGGCNRPVLENYLSAMDTVWHPECFVCGDCFTSFSTGSFFEL-D 60

Query: 185 NQIHCIQDFHKKFAPRCC 202
            +  C   +H +      
Sbjct: 61  GRPFCELHYHHRRGSGPS 78

>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 = 59.7 bits (145), Expect = 4e-12
 Identities = 17/54 (31%), Positives = 24/54 (44%), Gaps = 2/54 (3%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C  C   +L      +AMD V+H  CF C  C        F+ ++G  +CE  Y
Sbjct: 18  CGGCNRPVLENY--LSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHY 69

>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 = 52.7 bits (127), Expect = 1e-09
 Identities = 18/74 (24%), Positives = 30/74 (40%), Gaps = 11/74 (14%)

Query: 189 CIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGR 248
             +DF   F+P+C  C  P++ +        + A+D  +H  C+ C DC    S      
Sbjct: 6   SGKDFLAMFSPKCGGCNRPVLENY-------LSAMDTVWHPECFVCGDCFTSFS----TG 54

Query: 249 GCYPLDDHVLCKSC 262
             + LD    C+  
Sbjct: 55  SFFELDGRPFCELH 68

>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 = 72.8 bits (179), Expect = 6e-17
 Identities = 19/62 (30%), Positives = 26/62 (41%), Gaps = 1/62 (1%)

Query: 140 KCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAP 199
            C  C KPI    +    +P+H  CF C  C K L G  FT    +  +C+  F   +A 
Sbjct: 7   GCVQCKKPITTGGVTYREQPWHKECFVCTACRKQLSGQRFTAR-DDFAYCLNCFCDLYAS 65

Query: 200 RC 201
             
Sbjct: 66  GP 67

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

 Score = 59.3 bits (144), Expect = 4e-12
 Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 2/54 (3%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C +C + I   G   T  ++ +H  CF C  C  QL G+ F   +  AYC   +
Sbjct: 8   CVQCKKPITTGG--VTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCF 59

>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 = 44.3 bits (105), Expect = 1e-06
 Identities = 16/68 (23%), Positives = 24/68 (35%), Gaps = 11/68 (16%)

Query: 195 KKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLD 254
              +  C  C+ PI           V   ++ +H  C+ C  C   LS    G+     D
Sbjct: 2   SSGSSGCVQCKKPITTG-------GVTYREQPWHKECFVCTACRKQLS----GQRFTARD 50

Query: 255 DHVLCKSC 262
           D   C +C
Sbjct: 51  DFAYCLNC 58

>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 = 71.7 bits (176), Expect = 2e-16
 Identities = 16/81 (19%), Positives = 28/81 (34%), Gaps = 6/81 (7%)

Query: 185 NQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSE 244
           +       +    A +C  C+ PI    +      V    +S+H  C+ C+ C + L   
Sbjct: 2   SSGSSGDCYKNFVAKKCAGCKNPITGFGKGSS--VVAYEGQSWHDYCFHCKKCSVNL--- 56

Query: 245 AEGRGCYPLDDHVLCKSCNAK 265
              +      + V C  C  K
Sbjct: 57  -ANKRFVFHQEQVYCPDCAKK 76

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

 Score = 55.6 bits (134), Expect = 1e-10
 Identities = 17/55 (30%), Positives = 21/55 (38%), Gaps = 3/55 (5%)

Query: 81  CCKCGERILGEGSGC---TAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQ 132
           C  C   I G G G        + +H  CF C  C+V L  K F   +   YC  
Sbjct: 18  CAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYCPD 72

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

 Score = 52.5 bits (126), Expect = 2e-09
 Identities = 17/76 (22%), Positives = 28/76 (36%), Gaps = 7/76 (9%)

Query: 126 GHAYCEQGYLDTL-EKCSVCVKPIL-----DRILRATGRPYHPACFTCVVCGKSLDGIPF 179
                   Y + + +KC+ C  PI        ++   G+ +H  CF C  C  +L    F
Sbjct: 2   SSGSSGDCYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRF 61

Query: 180 TVDAANQIHCIQDFHK 195
                 Q++C     K
Sbjct: 62  VFH-QEQVYCPDCAKK 76

>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 = 70.6 bits (173), Expect = 5e-16
 Identities = 12/66 (18%), Positives = 25/66 (37%), Gaps = 1/66 (1%)

Query: 137 TLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKK 196
            +  C  C   I+  +++A  +  HP CF C  C  +L    +      +++C      +
Sbjct: 24  RMPLCDKCGSGIVGAVVKARDKYRHPECFVCADCNLNLKQKGY-FFVEGELYCETHARAR 82

Query: 197 FAPRCC 202
            +    
Sbjct: 83  TSGPSS 88

>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 = 63.3 bits (154), Expect = 2e-13
 Identities = 21/54 (38%), Positives = 27/54 (50%), Gaps = 2/54 (3%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C KCG  I+G      A DK  H  CF C  C + L+ K ++ +EG  YCE   
Sbjct: 28  CDKCGSGIVGAV--VKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETHA 79

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

 Score = 44.4 bits (105), Expect = 2e-06
 Identities = 17/75 (22%), Positives = 30/75 (40%), Gaps = 11/75 (14%)

Query: 196 KFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDD 255
           +  P C  C + I+        V+  A D+  H  C+ C DC L L      +G + ++ 
Sbjct: 23  QRMPLCDKCGSGIV-----GAVVK--ARDKYRHPECFVCADCNLNLK----QKGYFFVEG 71

Query: 256 HVLCKSCNAKRVQAL 270
            + C++    R    
Sbjct: 72  ELYCETHARARTSGP 86

>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 = 69.0 bits (169), Expect = 1e-15
 Identities = 18/63 (28%), Positives = 26/63 (41%), Gaps = 1/63 (1%)

Query: 139 EKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFA 198
             C  C K I    +    +P+H  CF CV C K L G  FT    +Q +C+  +    +
Sbjct: 6   SGCVKCNKAITSGGITYQDQPWHADCFVCVTCSKKLAGQRFTAV-EDQYYCVDCYKNFVS 64

Query: 199 PRC 201
              
Sbjct: 65  GPS 67

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

 Score = 63.6 bits (155), Expect = 1e-13
 Identities = 20/63 (31%), Positives = 29/63 (46%), Gaps = 3/63 (4%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-E 139
           C KC + I   G   T  D+ +H  CF C  C+ +L G+ F  +E   YC   Y + +  
Sbjct: 8   CVKCNKAITSGG--ITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFVSG 65

Query: 140 KCS 142
             S
Sbjct: 66  PSS 68

>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 = 45.5 bits (108), Expect = 4e-07
 Identities = 13/68 (19%), Positives = 21/68 (30%), Gaps = 11/68 (16%)

Query: 195 KKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLD 254
              +  C  C   I           +   D+ +H  C+ C  C   L     G+    ++
Sbjct: 2   SSGSSGCVKCNKAITSGG-------ITYQDQPWHADCFVCVTCSKKL----AGQRFTAVE 50

Query: 255 DHVLCKSC 262
           D   C  C
Sbjct: 51  DQYYCVDC 58

>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 = 68.9 bits (169), Expect = 2e-15
 Identities = 18/79 (22%), Positives = 27/79 (34%), Gaps = 4/79 (5%)

Query: 126 GHAYCEQGYLDTL-EKCSVCVKPIL--DRILRATGRPYHPACFTCVVCGKSLDGIPFTVD 182
                 +        KC  C K I+  D+ +   G  +H  CFTC  C + +    F   
Sbjct: 2   SSGSSGKCTTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPK 61

Query: 183 AANQIHCIQDFHKKFAPRC 201
                +C+     KFA   
Sbjct: 62  -GEDFYCVTCHETKFASGP 79

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

 Score = 54.7 bits (132), Expect = 3e-10
 Identities = 13/78 (16%), Positives = 28/78 (35%), Gaps = 9/78 (11%)

Query: 185 NQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSE 244
           +     +   ++ +P+C  C   I+   +      V      +H  C+ C +C  V+   
Sbjct: 2   SSGSSGKCTTREDSPKCKGCFKAIVAGDQ-----NVEYKGTVWHKDCFTCSNCKQVI--- 53

Query: 245 AEGRGCYPLDDHVLCKSC 262
                 +P  +   C +C
Sbjct: 54  -GTGSFFPKGEDFYCVTC 70

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

 Score = 54.3 bits (131), Expect = 4e-10
 Identities = 13/54 (24%), Positives = 20/54 (37%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C  C + I+           V+H  CFTC +C   +    F+      YC   +
Sbjct: 18  CKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCH 71

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

 Score = 68.6 bits (168), Expect = 2e-15
 Identities = 16/54 (29%), Positives = 21/54 (38%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C +C            +  ++YH  CF C  C  Q     FY  EG  YCE  +
Sbjct: 14  CERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDF 67

>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 = 57.0 bits (138), Expect = 3e-11
 Identities = 16/62 (25%), Positives = 23/62 (37%), Gaps = 3/62 (4%)

Query: 139 EKCSVCVKPI--LDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKK 196
             C  C       ++I+ + G  YH  CF C  C +      F      + +C  DF   
Sbjct: 12  ATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEF-EGRKYCEHDFQML 70

Query: 197 FA 198
           FA
Sbjct: 71  FA 72

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

 Score = 45.9 bits (109), Expect = 4e-07
 Identities = 11/71 (15%), Positives = 19/71 (26%), Gaps = 9/71 (12%)

Query: 192 DFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCY 251
            F    +  C  C+    P  +      V +    +H  C+ C  C             Y
Sbjct: 5   YFQGSASATCERCKGGFAPAEK-----IVNSNGELYHEQCFVCAQCFQQFP----EGLFY 55

Query: 252 PLDDHVLCKSC 262
             +    C+  
Sbjct: 56  EFEGRKYCEHD 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 = 68.6 bits (168), Expect = 2e-15
 Identities = 15/65 (23%), Positives = 26/65 (40%), Gaps = 1/65 (1%)

Query: 137 TLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKK 196
            L  C  C   I+   ++   R  HP C+ C  CG +L          +QI+C +   ++
Sbjct: 14  KLPMCDKCGTGIVGVFVKLRDRHRHPECYVCTDCGTNLKQKGH-FFVEDQIYCEKHARER 72

Query: 197 FAPRC 201
            +   
Sbjct: 73  VSGPS 77

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

 Score = 58.6 bits (142), Expect = 1e-11
 Identities = 17/54 (31%), Positives = 24/54 (44%), Gaps = 2/54 (3%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C KCG  I+G        D+  H  C+ C  C   L+ K  + +E   YCE+  
Sbjct: 18  CDKCGTGIVGVF--VKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEKHA 69

>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 = 44.7 bits (106), Expect = 9e-07
 Identities = 20/73 (27%), Positives = 29/73 (39%), Gaps = 11/73 (15%)

Query: 196 KFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDD 255
           +  P C  C   I+          V   DR  H  CY C DCG  L      +G + ++D
Sbjct: 13  QKLPMCDKCGTGIVGVF-------VKLRDRHRHPECYVCTDCGTNLK----QKGHFFVED 61

Query: 256 HVLCKSCNAKRVQ 268
            + C+    +RV 
Sbjct: 62  QIYCEKHARERVS 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 Length = 72

 Score = 66.7 bits (163), Expect = 1e-14
 Identities = 17/64 (26%), Positives = 25/64 (39%), Gaps = 3/64 (4%)

Query: 140 KCSVCVKPIL--DRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKF 197
            C  C K I+   R +   G  +H  CF C  C + +    F     NQ  C+  + K+ 
Sbjct: 7   GCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPK-DNQNFCVPCYEKQH 65

Query: 198 APRC 201
           A   
Sbjct: 66  ASGP 69

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

 Score = 57.8 bits (140), Expect = 2e-11
 Identities = 12/54 (22%), Positives = 20/54 (37%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C +C + I+            +H +CF C  C   +  K F   +   +C   Y
Sbjct: 8   CQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCY 61

>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 = 50.5 bits (121), Expect = 8e-09
 Identities = 15/71 (21%), Positives = 26/71 (36%), Gaps = 9/71 (12%)

Query: 196 KFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDD 255
             +  C  C+  IMP +      ++     S+H  C+ C  C   +      +   P D+
Sbjct: 3   SGSSGCQECKKTIMPGTR-----KMEYKGSSWHETCFICHRCQQPI----GTKSFIPKDN 53

Query: 256 HVLCKSCNAKR 266
              C  C  K+
Sbjct: 54  QNFCVPCYEKQ 64

>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 = 65.9 bits (161), Expect = 2e-14
 Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 1/63 (1%)

Query: 140 KCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAP 199
            C  C + I+ R+++A    +HP CF C +C + L  I F V  A +  C    +++ A 
Sbjct: 7   GCHQCGEFIIGRVIKAMNNSWHPECFRCDLCQEVLADIGF-VKNAGRHLCRPCHNREKAS 65

Query: 200 RCC 202
              
Sbjct: 66  GPS 68

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

 Score = 57.8 bits (140), Expect = 2e-11
 Identities = 18/64 (28%), Positives = 23/64 (35%), Gaps = 2/64 (3%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEK 140
           C +CGE I+G      AM+  +H  CF CD C   L    F    G   C   +      
Sbjct: 8   CHQCGEFIIGRV--IKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNREKAS 65

Query: 141 CSVC 144
               
Sbjct: 66  GPSS 69

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

 Score = 42.0 bits (99), Expect = 7e-06
 Identities = 16/69 (23%), Positives = 27/69 (39%), Gaps = 11/69 (15%)

Query: 198 APRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHV 257
           +  C  C   I+          + A++ S+H  C+RC+ C  VL       G        
Sbjct: 5   SSGCHQCGEFIIGRV-------IKAMNNSWHPECFRCDLCQEVL----ADIGFVKNAGRH 53

Query: 258 LCKSCNAKR 266
           LC+ C+ + 
Sbjct: 54  LCRPCHNRE 62

>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 = 65.5 bits (160), Expect = 3e-14
 Identities = 18/64 (28%), Positives = 27/64 (42%), Gaps = 3/64 (4%)

Query: 140 KCSVCVKPIL--DRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKF 197
            CS C + ++   R L   G+ +H  CF C  C + L    F  D     +C+  +  KF
Sbjct: 7   GCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPD-KGAHYCVPCYENKF 65

Query: 198 APRC 201
           A   
Sbjct: 66  ASGP 69

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

 Score = 57.0 bits (138), Expect = 4e-11
 Identities = 15/54 (27%), Positives = 21/54 (38%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C  CGE ++          + +H  CF C  C   L  + F   +G  YC   Y
Sbjct: 8   CSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCY 61

>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 = 49.3 bits (118), Expect = 2e-08
 Identities = 14/71 (19%), Positives = 23/71 (32%), Gaps = 9/71 (12%)

Query: 196 KFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDD 255
             +  C  C   +MP S      ++    +++H  C+ C  C   L      R   P   
Sbjct: 3   SGSSGCSACGETVMPGSR-----KLEYGGQTWHEHCFLCSGCEQPL----GSRSFVPDKG 53

Query: 256 HVLCKSCNAKR 266
              C  C   +
Sbjct: 54  AHYCVPCYENK 64

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

 Score = 64.6 bits (158), Expect = 5e-14
 Identities = 15/60 (25%), Positives = 24/60 (40%), Gaps = 1/60 (1%)

Query: 140 KCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAP 199
            C  C +PI  R++ A G+ +H   F C  C K   G           +C   +++ F  
Sbjct: 7   ICGACRRPIEGRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYER-KGLAYCETHYNQLFGD 65

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

 Score = 63.1 bits (154), Expect = 2e-13
 Identities = 19/54 (35%), Positives = 22/54 (40%), Gaps = 2/54 (3%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C  C   I G      AM K +H+  F C  C     G   Y  +G AYCE  Y
Sbjct: 8   CGACRRPIEGRV--VNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHY 59

>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 = 44.2 bits (105), Expect = 1e-06
 Identities = 14/67 (20%), Positives = 21/67 (31%), Gaps = 11/67 (16%)

Query: 196 KFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDD 255
              P C  CR PI           V A+ + +H+  + C  C         G   Y    
Sbjct: 3   MGVPICGACRRPIEGRV-------VNAMGKQWHVEHFVCAKCEKPF----LGHRHYERKG 51

Query: 256 HVLCKSC 262
              C++ 
Sbjct: 52  LAYCETH 58

>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 = 65.8 bits (160), Expect = 8e-14
 Identities = 20/108 (18%), Positives = 37/108 (34%), Gaps = 7/108 (6%)

Query: 136 DTLEKCSVCVKPILDR-ILRATGRPYHPACFTCVVCGKSLDGIPFTVDA-ANQIHCIQDF 193
            + ++C+ C   I DR +L A    +H  C  C  C   L  I  +    +  I C  D+
Sbjct: 3   LSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDY 62

Query: 194 HKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVL 241
            + F           M          V+ +     +G    ++   ++
Sbjct: 63  IRLFGNSGAGGSGGHMGSGGD-----VMVVGEPTLMGGEFGDEDERLI 105

>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 = 46.9 bits (111), Expect = 5e-07
 Identities = 20/89 (22%), Positives = 26/89 (29%), Gaps = 6/89 (6%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQL--EGKPFYIIEGHAYCEQGYLDT- 137
           C  CG +I  +     AMD  +H  C  C  C  QL   G   Y   G   C   Y+   
Sbjct: 8   CAGCGGKIA-DRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLF 66

Query: 138 LEKCSVCVKPILDRILRAT--GRPYHPAC 164
               +      +         G P     
Sbjct: 67  GNSGAGGSGGHMGSGGDVMVVGEPTLMGG 95

>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 = 39.2 bits (91), Expect = 2e-04
 Identities = 16/64 (25%), Positives = 24/64 (37%), Gaps = 8/64 (12%)

Query: 199 PRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVL 258
            RC  C   I      D  + + A+D  +H  C +C  C   L     G   Y     +L
Sbjct: 6   KRCAGCGGKI-----ADRFL-LYAMDSYWHSRCLKCSSCQAQLGD--IGTSSYTKSGMIL 57

Query: 259 CKSC 262
           C++ 
Sbjct: 58  CRND 61

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

 Score = 62.1 bits (151), Expect = 6e-13
 Identities = 15/75 (20%), Positives = 28/75 (37%), Gaps = 2/75 (2%)

Query: 129 YCEQGYLDTL-EKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSL-DGIPFTVDAANQ 186
              + Y     E C  C   +    + A    YHP CF C+ C   + DG  + +     
Sbjct: 5   SSGKDYWGKFGEFCHGCSLLMTGPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHAT 64

Query: 187 IHCIQDFHKKFAPRC 201
           ++C +  ++  +   
Sbjct: 65  LYCGKCHNEVVSGPS 79

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

 Score = 55.2 bits (133), Expect = 2e-10
 Identities = 15/88 (17%), Positives = 30/88 (34%), Gaps = 9/88 (10%)

Query: 185 NQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSE 244
           +     +D+  KF   C  C   +           +VA +  +H  C+ C  C +++   
Sbjct: 2   SSGSSGKDYWGKFGEFCHGCSLLMTGPF-------MVAGEFKYHPECFACMSCKVIIED- 53

Query: 245 AEGRGCYPLDDHVLCKSCNAKRVQALTS 272
                       + C  C+ + V   +S
Sbjct: 54  -GDAYALVQHATLYCGKCHNEVVSGPSS 80

>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 = 47.5 bits (113), Expect = 1e-07
 Identities = 17/61 (27%), Positives = 27/61 (44%), Gaps = 5/61 (8%)

Query: 77  LFGECC-KCGERILGEGSGCTAMDKVYHISCFTCDHCAVQL-EGKPFYIIEGHA-YCEQG 133
            FGE C  C   + G      A +  YH  CF C  C V + +G  + +++    YC + 
Sbjct: 13  KFGEFCHGCSLLMTGPFM--VAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKC 70

Query: 134 Y 134
           +
Sbjct: 71  H 71

>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 = 61.4 bits (149), Expect = 1e-12
 Identities = 20/79 (25%), Positives = 30/79 (37%), Gaps = 4/79 (5%)

Query: 126 GHAYCEQGYLDTL-EKCSVCVKPIL--DRILRATGRPYHPACFTCVVCGKSLDGIPFTVD 182
                   Y +T    C+ C + I    R L    R +H  CF C  C +SL   PFT  
Sbjct: 2   SSGSSGPCYDNTFANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQ 61

Query: 183 AANQIHCIQDFHKKFAPRC 201
             +++ C   +   F+   
Sbjct: 62  -DSELLCNDCYCSAFSSGP 79

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

 Score = 56.7 bits (137), Expect = 5e-11
 Identities = 21/82 (25%), Positives = 28/82 (34%), Gaps = 9/82 (10%)

Query: 185 NQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSE 244
           +       +   FA  C  C+  I  DS +     +   DR FH GC+RC  C   L   
Sbjct: 2   SSGSSGPCYDNTFANTCAECQQLIGHDSRE-----LFYEDRHFHEGCFRCCRCQRSL--- 53

Query: 245 AEGRGCYPLDDHVLCKSCNAKR 266
                    D  +LC  C    
Sbjct: 54  -ADEPFTCQDSELLCNDCYCSA 74

>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 = 56.0 bits (135), Expect = 1e-10
 Identities = 14/54 (25%), Positives = 21/54 (38%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C +C + I  +       D+ +H  CF C  C   L  +PF   +    C   Y
Sbjct: 18  CAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELLCNDCY 71

>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 = 60.2 bits (146), Expect = 2e-12
 Identities = 16/62 (25%), Positives = 23/62 (37%), Gaps = 2/62 (3%)

Query: 141 CSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPR 200
           C  C   I ++ L     PYHP  F C  CGK L      +    +++C+    K     
Sbjct: 18  CQKCHAIIDEQPLIFKNDPYHPDHFNCANCGKELTADARELK--GELYCLPCHDKMGVSG 75

Query: 201 CC 202
             
Sbjct: 76  PS 77

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

 Score = 44.8 bits (106), Expect = 9e-07
 Identities = 13/54 (24%), Positives = 20/54 (37%), Gaps = 3/54 (5%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C KC   I  +       +  YH   F C +C  +L       ++G  YC   +
Sbjct: 18  CQKCHAII--DEQPLIFKNDPYHPDHFNCANCGKELTAD-ARELKGELYCLPCH 68

>2dj7_A Actin-binding LIM protein 3; LIM domain, Zn binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 80

 Score = 60.1 bits (146), Expect = 3e-12
 Identities = 17/65 (26%), Positives = 26/65 (40%), Gaps = 3/65 (4%)

Query: 138 LEKCSVCVKPILDR-ILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKK 196
              C+ C + I     L A  + +H +CF C  C   L G   + D     +C  D+H +
Sbjct: 15  PSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTGEYISKD--GVPYCESDYHAQ 72

Query: 197 FAPRC 201
           F    
Sbjct: 73  FGSGP 77

>2dj7_A Actin-binding LIM protein 3; LIM domain, Zn binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 80

 Score = 49.4 bits (118), Expect = 2e-08
 Identities = 22/54 (40%), Positives = 29/54 (53%), Gaps = 2/54 (3%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C  C E I   G    A+DK +H+SCF C  C+V L G+ +   +G  YCE  Y
Sbjct: 18  CAGCKEEIK-HGQSLLALDKQWHVSCFKCQTCSVILTGE-YISKDGVPYCESDY 69

>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 = 44.0 bits (104), Expect = 2e-06
 Identities = 15/72 (20%), Positives = 30/72 (41%), Gaps = 11/72 (15%)

Query: 191 QDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGC 250
           +    +    C  C+  I           ++ALD+ +H+ C++C+ C ++L+ E      
Sbjct: 8   KPIKIRGPSHCAGCKEEIK------HGQSLLALDKQWHVSCFKCQTCSVILTGE-----Y 56

Query: 251 YPLDDHVLCKSC 262
              D    C+S 
Sbjct: 57  ISKDGVPYCESD 68

>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 = 59.7 bits (145), Expect = 4e-12
 Identities = 18/67 (26%), Positives = 32/67 (47%), Gaps = 2/67 (2%)

Query: 139 EKCSVCVKPILD-RILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKF 197
            KC  C + +     ++  GR +H  CF C+VC K+LD     +    +++C   + KK+
Sbjct: 8   NKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIH-DAEVYCKSCYGKKY 66

Query: 198 APRCCVC 204
            P+    
Sbjct: 67  GPKGYGY 73

>1a7i_A QCRP2 (LIM1); LIM domain containing proteins, metal-binding protein, zinc finger; NMR {Coturnix japonica} SCOP: g.39.1.3 g.39.1.3 PDB: 2o10_A Length = 81

 Score = 47.4 bits (113), Expect = 1e-07
 Identities = 14/65 (21%), Positives = 20/65 (30%), Gaps = 2/65 (3%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-E 139
           C  CG  +           + +H  CF C  C   L+     I +   YC+  Y      
Sbjct: 10  CGACGRTVY-HAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYGP 68

Query: 140 KCSVC 144
           K    
Sbjct: 69  KGYGY 73

>1a7i_A QCRP2 (LIM1); LIM domain containing proteins, metal-binding protein, zinc finger; NMR {Coturnix japonica} SCOP: g.39.1.3 g.39.1.3 PDB: 2o10_A Length = 81

 Score = 42.8 bits (101), Expect = 5e-06
 Identities = 19/69 (27%), Positives = 23/69 (33%), Gaps = 10/69 (14%)

Query: 198 APRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHV 257
             +C  C   +           V    RSFH  C+ C  C   L S          D  V
Sbjct: 7   GNKCGACGRTVYHAE------EVQCDGRSFHRCCFLCMVCRKNLDS----TTVAIHDAEV 56

Query: 258 LCKSCNAKR 266
            CKSC  K+
Sbjct: 57  YCKSCYGKK 65

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

 Score = 57.1 bits (138), Expect = 3e-11
 Identities = 17/67 (25%), Positives = 23/67 (34%), Gaps = 5/67 (7%)

Query: 139 EKCSVCVKPIL----DRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFH 194
             C+ C  PI      + +    R +H  CF C  C  SL G  F  +  + I C     
Sbjct: 6   SGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTE-RDDILCPDCGK 64

Query: 195 KKFAPRC 201
               P  
Sbjct: 65  DISGPSS 71

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

 Score = 54.8 bits (132), Expect = 2e-10
 Identities = 14/53 (26%), Positives = 21/53 (39%), Gaps = 2/53 (3%)

Query: 81  CCKCGERILGEGSG--CTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCE 131
           C  C   I G G     +  ++ +H  CF C  C++ L G+ F        C 
Sbjct: 8   CAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCP 60

>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 = 49.4 bits (118), Expect = 2e-08
 Identities = 18/71 (25%), Positives = 25/71 (35%), Gaps = 7/71 (9%)

Query: 196 KFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDD 255
             +  C  C  PI           +   +R +H  C+ C+ C L L     GRG     D
Sbjct: 3   SGSSGCAGCTNPISGLGGTK---YISFEERQWHNDCFNCKKCSLSL----VGRGFLTERD 55

Query: 256 HVLCKSCNAKR 266
            +LC  C    
Sbjct: 56  DILCPDCGKDI 66

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

 Score = 55.6 bits (134), Expect = 1e-10
 Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 2/54 (3%)

Query: 81  CCKCGERILGEGSG--CTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQ 132
           C  C + I G          D  +H  CF C  C+V L GK F       +C++
Sbjct: 8   CVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQK 61

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

 Score = 54.9 bits (132), Expect = 2e-10
 Identities = 14/76 (18%), Positives = 26/76 (34%), Gaps = 7/76 (9%)

Query: 196 KFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDD 255
             +  C  C  PI           +   D  +H  C+ C  C + L     G+G    + 
Sbjct: 3   SGSSGCVACSKPISGL---TGAKFICFQDSQWHSECFNCGKCSVSL----VGKGFLTQNK 55

Query: 256 HVLCKSCNAKRVQALT 271
            + C+ C +     ++
Sbjct: 56  EIFCQKCGSGMDTDIS 71

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

 Score = 47.5 bits (113), Expect = 1e-07
 Identities = 16/67 (23%), Positives = 21/67 (31%), Gaps = 5/67 (7%)

Query: 139 EKCSVCVKPIL----DRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFH 194
             C  C KPI      + +      +H  CF C  C  SL G  F      +I C +   
Sbjct: 6   SGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQ-NKEIFCQKCGS 64

Query: 195 KKFAPRC 201
                  
Sbjct: 65  GMDTDIS 71

>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 = 55.8 bits (134), Expect = 2e-10
 Identities = 16/103 (15%), Positives = 34/103 (33%), Gaps = 5/103 (4%)

Query: 137 TLEKCSVCVKPILDR-ILRATGRPYHPACFTCVVCGKSLDGIPFTV-DAANQIHCIQDFH 194
           +L  C  C + I DR  L+A  + +H  C +C +CG  L  +   +     +  C +D+ 
Sbjct: 2   SLLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYL 61

Query: 195 KKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDC 237
           +       +     +    +      +  +             
Sbjct: 62  RLGGSGGHMGSGGDVMVVGEPTL---MGGEFGDEDERLITRLE 101

>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 = 53.5 bits (128), Expect = 2e-09
 Identities = 20/103 (19%), Positives = 31/103 (30%), Gaps = 8/103 (7%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQL--EGKPFYIIEGHAYCEQGYLDTL 138
           C  C + I        A+D+ +H  C +CD C  +L   G+  Y   G   C + YL   
Sbjct: 6   CGGCQQNIGDRYF-LKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLG 64

Query: 139 EKCSVC-----VKPILDRILRATGRPYHPACFTCVVCGKSLDG 176
                      V  + +  L               +     D 
Sbjct: 65  GSGGHMGSGGDVMVVGEPTLMGGEFGDEDERLITRLENTQFDA 107

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

 Score = 55.1 bits (132), Expect = 5e-10
 Identities = 17/64 (26%), Positives = 27/64 (42%), Gaps = 2/64 (3%)

Query: 137 TLEKCSVCVKPILDR-ILRATGRPYHPACFTCVVCGKSLDGIPFTVDA-ANQIHCIQDFH 194
           + ++C+ C   I DR +L A    +H  C  C  C   L  I  +    +  I C  D+ 
Sbjct: 60  SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYI 119

Query: 195 KKFA 198
           + F 
Sbjct: 120 RLFG 123

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

 Score = 48.6 bits (115), Expect = 1e-07
 Identities = 23/103 (22%), Positives = 31/103 (30%), Gaps = 7/103 (6%)

Query: 34  PPSDLSSRSNYSLYSSNIPPPEAEVDALTDLLVHSLDTSSESDLFGECCKCGERILGEGS 93
           P +DLS               ++++              S       C  CG +I  +  
Sbjct: 21  PGADLSQYKMDVTVIDTKDGSQSKLGGGGSGGHMGSGGLSWK----RCAGCGGKIA-DRF 75

Query: 94  GCTAMDKVYHISCFTCDHCAVQL--EGKPFYIIEGHAYCEQGY 134
              AMD  +H  C  C  C  QL   G   Y   G   C   Y
Sbjct: 76  LLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDY 118

>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 = 42.4 bits (99), Expect = 2e-05
 Identities = 16/78 (20%), Positives = 24/78 (30%), Gaps = 8/78 (10%)

Query: 185 NQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSE 244
                          RC  C   I      D  + + A+D  +H  C +C  C   L   
Sbjct: 48  GGSGGHMGSGGLSWKRCAGCGGKIA-----DRFL-LYAMDSYWHSRCLKCSSCQAQLGD- 100

Query: 245 AEGRGCYPLDDHVLCKSC 262
             G   Y     +LC++ 
Sbjct: 101 -IGTSSYTKSGMILCRND 117

>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 = 52.5 bits (126), Expect = 2e-09
 Identities = 16/72 (22%), Positives = 27/72 (37%), Gaps = 10/72 (13%)

Query: 192 DFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCY 251
           D+ + +  RC  C   I  +        V AL +++H  C+ C  C L       G    
Sbjct: 9   DYQRLYGTRCFSCDQFIEGEV-------VSALGKTYHPDCFVCAVCRLPFP---PGDRVT 58

Query: 252 PLDDHVLCKSCN 263
                 +C+ C+
Sbjct: 59  FNGKECMCQKCS 70

>1v6g_A Actin binding LIM protein 2; LIM domain, zinc binding domain, ablim2, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 81

 Score = 50.6 bits (121), Expect = 9e-09
 Identities = 14/50 (28%), Positives = 20/50 (40%)

Query: 140 KCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHC 189
           +C  C + I   ++ A G+ YHP CF C VC               +  C
Sbjct: 17  RCFSCDQFIEGEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMC 66

>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 = 49.8 bits (119), Expect = 2e-08
 Identities = 17/58 (29%), Positives = 24/58 (41%), Gaps = 4/58 (6%)

Query: 77  LFGECC-KCGERILGEGSGCTAMDKVYHISCFTCDHCAVQL-EGKPFYIIEGHAYCEQ 132
           L+G  C  C + I  EG   +A+ K YH  CF C  C +    G           C++
Sbjct: 13  LYGTRCFSCDQFI--EGEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQK 68

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

 Score = 50.4 bits (121), Expect = 7e-09
 Identities = 15/65 (23%), Positives = 26/65 (40%), Gaps = 3/65 (4%)

Query: 140 KCSVCVKPI-LDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQD-FHKKF 197
           KC  C K +     + + G+ +H  C  C  CGK+L       +   + +C    +   F
Sbjct: 2   KCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHA-EHEGKPYCNHPCYSAMF 60

Query: 198 APRCC 202
            P+  
Sbjct: 61  GPKGF 65

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

 Score = 45.4 bits (108), Expect = 5e-07
 Identities = 14/52 (26%), Positives = 20/52 (38%), Gaps = 1/52 (1%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQ 132
           C KC + +       T++ K +H  C  C+ C   L        EG  YC  
Sbjct: 3   CPKCDKEVY-FAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNH 53

>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 = 39.6 bits (93), Expect = 6e-05
 Identities = 16/62 (25%), Positives = 24/62 (38%), Gaps = 10/62 (16%)

Query: 199 PRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVL 258
           P+C  C   +          RV +L + +H  C +CE CG  L+S     G    +    
Sbjct: 1   PKCPKCDKEVYFAE------RVTSLGKDWHRPCLKCEKCGKTLTS----GGHAEHEGKPY 50

Query: 259 CK 260
           C 
Sbjct: 51  CN 52

>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 = 49.1 bits (117), Expect = 4e-08
 Identities = 17/69 (24%), Positives = 30/69 (43%), Gaps = 4/69 (5%)

Query: 139 EKCSVCVKPI--LDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKK 196
           E C  C K +  ++R+L A  + +H +CF C  C   L    +      +I+C   F++ 
Sbjct: 16  ETCVECQKTVYPMERLL-ANQQVFHISCFRCSYCNNKLSLGTYA-SLHGRIYCKPHFNQL 73

Query: 197 FAPRCCVCR 205
           F  +     
Sbjct: 74  FKSKGNYDE 82

>2d8y_A Eplin protein; LIM domain, epithelial protein LOST in neoplasm, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 91

 Score = 47.5 bits (113), Expect = 1e-07
 Identities = 16/55 (29%), Positives = 27/55 (49%), Gaps = 3/55 (5%)

Query: 81  CCKCGERI-LGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           C +C + +   E     A  +V+HISCF C +C  +L    +  + G  YC+  +
Sbjct: 18  CVECQKTVYPMER--LLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHF 70

>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 = 42.1 bits (99), Expect = 1e-05
 Identities = 17/68 (25%), Positives = 25/68 (36%), Gaps = 10/68 (14%)

Query: 198 APRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHV 257
              C  C+  + P        R++A  + FHI C+RC  C   LS          L   +
Sbjct: 15  RETCVECQKTVYP------MERLLANQQVFHISCFRCSYCNNKLSL----GTYASLHGRI 64

Query: 258 LCKSCNAK 265
            CK    +
Sbjct: 65  YCKPHFNQ 72

>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 = 47.8 bits (114), Expect = 9e-08
 Identities = 13/58 (22%), Positives = 24/58 (41%), Gaps = 1/58 (1%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL 138
           C KC + +       +++ K +H  C  C+ C+  L        +G  +C +    TL
Sbjct: 12  CPKCDKTVY-FAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATL 68

>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 = 47.4 bits (113), Expect = 1e-07
 Identities = 13/67 (19%), Positives = 23/67 (34%), Gaps = 3/67 (4%)

Query: 137 TLEKCSVCVKPI-LDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQD-FH 194
              KC  C K +     + + G+ +H  C  C  C K+L       +   +  C +  + 
Sbjct: 8   MASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHA-EHDGKPFCHKPCYA 66

Query: 195 KKFAPRC 201
             F    
Sbjct: 67  TLFGSGP 73

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

 Score = 37.8 bits (88), Expect = 3e-04
 Identities = 11/46 (23%), Positives = 19/46 (41%), Gaps = 6/46 (13%)

Query: 198 APRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSS 243
           A +C  C   +          +V +L + +H  C +CE C   L+ 
Sbjct: 9   ASKCPKCDKTVYFAE------KVSSLGKDWHKFCLKCERCSKTLTP 48

>1wig_A KIAA1808 protein; LIM domain, zinc finger, metal-binding protein, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 73

 Score = 42.8 bits (100), Expect = 4e-06
 Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 139 EKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSL-DGIPFTVDAANQIH 188
             C  C K I  R+L A  + YHP+C  CV CG+   +G    +  ++  H
Sbjct: 6   SGCDSCEKYITGRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWH 56

>1wig_A KIAA1808 protein; LIM domain, zinc finger, metal-binding protein, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 73

 Score = 40.1 bits (93), Expect = 4e-05
 Identities = 15/53 (28%), Positives = 20/53 (37%), Gaps = 3/53 (5%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQL-EGKPFYIIEGHAYCEQ 132
           C  C + I   G    A +K YH SC  C  C     EG+  Y+     +   
Sbjct: 8   CDSCEKYI--TGRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWHPA 58

>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 = 39.5 bits (92), Expect = 9e-05
 Identities = 16/54 (29%), Positives = 20/54 (37%), Gaps = 3/54 (5%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYII--EGHAYCEQ 132
           C  CGE +             +H SCF C  C   L    +     +GH YC Q
Sbjct: 18  CALCGEHLYV-LERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQ 70

>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 = 39.2 bits (91), Expect = 1e-04
 Identities = 12/61 (19%), Positives = 25/61 (40%), Gaps = 2/61 (3%)

Query: 137 TLEKCSVCVKPILDR-ILRATGRPYHPACFTCVVCGKSLDGIPFTVDAAN-QIHCIQDFH 194
             + C++C + +     L   G  +H +CF C  C  +L    +     +   +C+Q   
Sbjct: 14  AGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLP 73

Query: 195 K 195
           +
Sbjct: 74  Q 74

>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 = 37.9 bits (88), Expect = 2e-04
 Identities = 17/52 (32%), Positives = 23/52 (44%), Gaps = 2/52 (3%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHIS--CFTCDHCAVQLEGKPFYIIEGHAYC 130
           C  C   I  E    T  +  +H S  CF C  C+  L G+ F  +EG  +C
Sbjct: 5   CQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFC 56

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	278
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.96
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.95
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.95
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.95
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.95
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.94
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.94
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.94
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.93
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.93
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.93
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.92
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.9
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.9
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.83
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.81
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.8
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.78
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.78
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.78
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	99.76
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.75
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.74
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	99.74
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.72
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.71
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.71
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.71
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.7
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.68
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.68
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.64
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.63
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.62
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.61
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	99.61
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.6
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	99.6
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.6
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	99.59
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	99.59
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	99.59
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	99.59
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	99.58
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	99.58
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	99.56
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	99.56
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.56
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	99.56
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.56
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
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	99.54
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	99.54
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.54
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.54
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	99.54
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	99.53
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	99.53
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	99.52
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	99.52
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	99.52
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	99.51
2co8_A	82	NEDD9 interacting protein with calponin homology a	99.51
2cor_A	79	Pinch protein; LIM domain, particularly interestin	99.51
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	99.5
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	99.5
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	99.49
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	99.49
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	99.49
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	99.48
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	99.48
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	99.47
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	99.46
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	99.45
2cor_A	79	Pinch protein; LIM domain, particularly interestin	99.45
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	99.44
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	99.43
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	99.43
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	99.42
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	99.41
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	99.4
2co8_A	82	NEDD9 interacting protein with calponin homology a	99.39
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	99.35
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	97.8
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	97.56
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	82.94
4gne_A	107	Histone-lysine N-methyltransferase NSD3; zinc fing	80.18

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

Probab=99.96  E-value=8.8e-30  Score=212.98  Aligned_cols=131  Identities=22%  Similarity=0.499  Sum_probs=118.5

Q ss_pred             CccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc-c----------------
Q psy15692         77 LFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-E----------------  139 (278)
Q Consensus        77 ~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~-~----------------  139 (278)
                      ....|.+|+++|...+. |.++|+.||++||+|..|+.+|.+..|+.++|++||+.||.+++ +                
T Consensus         6 ~~~~C~~C~~~I~~~~~-v~a~g~~wH~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~f~~~c~~c~~~~g~~~~~~   84 (192)
T 1b8t_A            6 GGKKCGVCQKAVYFAEE-VQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTDK   84 (192)
T ss_dssp             CCEECTTTCCEECSSCC-EEETTEEECTTTCBCTTTCCBCCSSSEEEETTEEEEHHHHHHHHSCCCCCCCCCCCCCCCCC
T ss_pred             CCCcCccCCCeecceeE-EEeCCceecCCCCcCcccCCcCCCCeeEecCCEeeChhhhHhhcCccccccccccccEecCC
Confidence            45689999999986665 78999999999999999999999889999999999999998775 3                


Q ss_pred             --------------------------------cccccccccc-ccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCc
Q psy15692        140 --------------------------------KCSVCVKPIL-DRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQ  186 (278)
Q Consensus       140 --------------------------------~C~~C~~~I~-~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~  186 (278)
                                                      +|..|+++|. +..|.++++.||++||+|..|+++|.+..|+. .+++
T Consensus        85 ~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~-~~g~  163 (192)
T 1b8t_A           85 GESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLAD-KDGE  163 (192)
T ss_dssp             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEECTTTSCEECSSSCEEETTEEECTTTCBCTTTCCBCCSSSEEE-ETTE
T ss_pred             CcccccccccccccCCCCcCccccccccCCCCcCCCCCCEecCcEEEecCCCccchhcCCccccCCCCCCCcccc-cCCE
Confidence                                            3889999997 46788999999999999999999998777764 7899


Q ss_pred             ccchhhhhcccCCCCcccCcccc
Q psy15692        187 IHCIQDFHKKFAPRCCVCRAPIM  209 (278)
Q Consensus       187 ~~C~~~y~~~~~~~C~~C~~~I~  209 (278)
                      +||..||.++|+++|.+|+++|.
T Consensus       164 ~yC~~cy~~~f~~kc~~C~~~~g  186 (192)
T 1b8t_A          164 IYCKGCYAKNFGPKGFGFGQGAG  186 (192)
T ss_dssp             EEEHHHHHHHTCCCCCCCCCCCC
T ss_pred             EeCHHHHHHhcCCcCCCCCCccc
Confidence            99999999999999999999863

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

Probab=99.95  E-value=8.6e-29  Score=193.28  Aligned_cols=118  Identities=23%  Similarity=0.537  Sum_probs=109.0

Q ss_pred             ccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc-ccccccccccc--ccceE
Q psy15692         78 FGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-EKCSVCVKPIL--DRILR  154 (278)
Q Consensus        78 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~-~~C~~C~~~I~--~~~~~  154 (278)
                      .+.|++|+++|.++++ +.++|+.||++||+|..|+++|.+..|+.++|++||+.||.+++ ++|.+|+++|.  +.+|.
T Consensus         3 ~~~C~~C~~~I~~~~~-~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~I~~~~~~~~   81 (126)
T 2xqn_T            3 KPRCAGCDELIFSNEY-TQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVVCQGCHNAIDPEVQRVT   81 (126)
T ss_dssp             CCBBTTTSSBCCSSCE-EEETTEEECGGGSBCTTTCCBCTTSEEEEETTEEEEHHHHHHHSCCBCTTTCSBCCTTSCEEE
T ss_pred             CCCCccCCCEeCCceE-EeeCCCCccCCCCCcCCCCCCCCcCEEEeECCEEechHHhCcCcCccCcccCCcCCcCceEEE
Confidence            3579999999997664 79999999999999999999999889999999999999999988 89999999998  57899


Q ss_pred             EcCCcCC--cCeecCCCCCCCCCCCCeEEcCCCcccchhhhhccc
Q psy15692        155 ATGRPYH--PACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKF  197 (278)
Q Consensus       155 ~~~~~~H--~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~  197 (278)
                      ++++.||  ++||+|..|+++|.+..|.. .+|++||..+|.++|
T Consensus        82 a~~~~~H~~~~CF~C~~C~~~l~~~~f~~-~~~~~yC~~~~~~~f  125 (126)
T 2xqn_T           82 YNNFSWHASTECFLCSCCSKCLIGQKFMP-VEGMVFCSVECKKRM  125 (126)
T ss_dssp             ETTEEEESSTTTSBCTTTCCBCTTSEEEE-ETTEEESSHHHHHSC
T ss_pred             CCCCEeeCCCCCcCcCCCCCccCCCeeEe-ECCEEcchHHhhhhc
Confidence            9999999  99999999999999888876 689999998988776

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

Probab=99.95  E-value=6.1e-29  Score=195.37  Aligned_cols=120  Identities=28%  Similarity=0.615  Sum_probs=107.7

Q ss_pred             ccccccCCCeeeCCcceeeeCCcccccccccccccCcccC--CCCeEeeCCeecccccccccc-c--ccccccccccc--
Q psy15692         78 FGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLE--GKPFYIIEGHAYCEQGYLDTL-E--KCSVCVKPILD--  150 (278)
Q Consensus        78 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~--~~~f~~~~g~~yC~~~y~~~~-~--~C~~C~~~I~~--  150 (278)
                      .++|++|+++|.+.++ |.|+|+.||++||+|..|+.+|.  +..|+.++|++||+.||.+++ +  +|..|+++|.+  
T Consensus         2 ~~~C~~C~~~I~~~~~-~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~~~~C~~C~~~I~~~e   80 (131)
T 2xjy_A            2 LLTCGGCQQNIGDRYF-LKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIRAYE   80 (131)
T ss_dssp             CCBBTTTCCBCCSSEE-EEETTEEEETTTCBCTTTCCBCSSTTCCEEEETTEEECHHHHHHHHCCCEECTTTCCEECTTS
T ss_pred             cccCcCCCCEeCCcEE-EEECCCcccHHHcccCcCCCccccCCCeEEEECCEEeecCchhhhCCCccChhhcCCccCccc
Confidence            3579999999998764 79999999999999999999996  468999999999999999988 5  89999999974  


Q ss_pred             cceEEcCCcCCcCeecCCCCCCCCC-CCCeEEcCCCcccchhhhhcccCC
Q psy15692        151 RILRATGRPYHPACFTCVVCGKSLD-GIPFTVDAANQIHCIQDFHKKFAP  199 (278)
Q Consensus       151 ~~~~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~~~~~~~C~~~y~~~~~~  199 (278)
                      .+|.+.++.||++||+|..|+++|. +..|.. .++++||..||.+++++
T Consensus        81 ~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~-~~~~~~C~~c~~~~~~~  129 (131)
T 2xjy_A           81 MTMRVKDKVYHLECFKCAACQKHFCVGDRYLL-INSDIVCEQDIYEWTKI  129 (131)
T ss_dssp             EEEEETTEEEEGGGCBCTTTCCBCCTTCEEEE-ETTEEEEGGGHHHHHHH
T ss_pred             eeEeeCCceECccCcccCCCCCCCCCCCEEEE-ECCEEEcHHHHHHHhhc
Confidence            6889999999999999999999995 666765 68999999999988753

>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=99.95  E-value=1.2e-28  Score=205.38  Aligned_cols=154  Identities=25%  Similarity=0.485  Sum_probs=118.2

Q ss_pred             ccccccCCCeeeCCcceeeeCCcccccccccccccCcccCC--CCeEeeCCeecccccccccc-c--ccccccccccc--
Q psy15692         78 FGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEG--KPFYIIEGHAYCEQGYLDTL-E--KCSVCVKPILD--  150 (278)
Q Consensus        78 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~--~~f~~~~g~~yC~~~y~~~~-~--~C~~C~~~I~~--  150 (278)
                      ...|++|+++|.+.++ |.++|+.||++||+|..|+.+|..  ..||.++|++||+.||.+++ +  +|..|+++|.+  
T Consensus         5 ~~~C~~C~~~I~~~~~-~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~cy~~~~~~~~~C~~C~~~I~~~e   83 (188)
T 1rut_X            5 WKRCAGCGGKIADRFL-LYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPASE   83 (188)
T ss_dssp             CCBBTTTCCBCCCSEE-EEETTEEECGGGCBCTTTCCBHHHHCSEEEEETTEEECHHHHHHHHSCCEECTTTCCEECTTS
T ss_pred             CCcCccCCCEeCCcee-EEecCcEecccCcccCCCCcccccCCceEEEeCCccccccccccccccCCccccCCCccccCc
Confidence            4679999999998764 799999999999999999999985  68999999999999999988 4  79999999974  


Q ss_pred             cceEEcCCcCCcCeecCCCCCCCCC-CCCeEEcCCCcccchhhhhcccCCCCcccCccccCCCCCCceeE----EEcCCc
Q psy15692        151 RILRATGRPYHPACFTCVVCGKSLD-GIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVR----VVALDR  225 (278)
Q Consensus       151 ~~~~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~~~~~~~C~~~y~~~~~~~C~~C~~~I~~~~~~~~~~~----v~~~~~  225 (278)
                      .+|.+.++.||++||+|..|+++|. +..|+. .++++||..||.++++++|...+..-.......+ +.    ...++.
T Consensus        84 ~~i~a~~~~~H~~CF~C~~C~~~L~~g~~f~~-~~g~~yC~~c~~~~~~~~~~~~g~~~~~~~~~~~-v~vvgep~l~g~  161 (188)
T 1rut_X           84 LVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHY-INGSLFCEHDRPTALINGHLNSGGSGGSGGSGGD-VMVVGEPTLMGG  161 (188)
T ss_dssp             EEEEETTEEECGGGCBCTTTCCBCCTTCEEEE-ETTEEEEGGGCCTTTC----------------CC-CEECCCCEETTC
T ss_pred             EEEEcCCCEEeCCCCeECCCCCCCCCCCeEEE-ECCeEECHHHHHHHhcccccccCCCCcccccCCc-ccccCCCcccCC
Confidence            5789999999999999999999996 666765 6899999999999999999877653110000000 11    134567


Q ss_pred             ccccCCccc
Q psy15692        226 SFHIGCYRC  234 (278)
Q Consensus       226 ~~H~~Cf~C  234 (278)
                      .||++..+.
T Consensus       162 ~~~~~~~r~  170 (188)
T 1rut_X          162 EFGDEDERL  170 (188)
T ss_dssp             CCCCTTEEE
T ss_pred             CCCCCCCce
Confidence            788777765

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

Probab=99.95  E-value=5.3e-28  Score=189.99  Aligned_cols=122  Identities=22%  Similarity=0.563  Sum_probs=109.3

Q ss_pred             ccccccccccccc-ceEEcCCcCCcCeecCCCCCCCCC--CCCeEEcCCCcccchhhhhcccCC--CCcccCccccCCCC
Q psy15692        139 EKCSVCVKPILDR-ILRATGRPYHPACFTCVVCGKSLD--GIPFTVDAANQIHCIQDFHKKFAP--RCCVCRAPIMPDSE  213 (278)
Q Consensus       139 ~~C~~C~~~I~~~-~~~~~~~~~H~~Cf~C~~C~~~l~--~~~~~~~~~~~~~C~~~y~~~~~~--~C~~C~~~I~~~~~  213 (278)
                      ++|..|+++|.++ +|.++++.||++||+|..|+++|.  +..|+. .+|++||..||.++|++  +|.+|+++|.+.+ 
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 LTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYY-KLGRKLCRRDYLRLFGQDGLCASCDKRIRAYE-   80 (131)
T ss_dssp             CBBTTTCCBCCSSEEEEETTEEEETTTCBCTTTCCBCSSTTCCEEE-ETTEEECHHHHHHHHCCCEECTTTCCEECTTS-
T ss_pred             ccCcCCCCEeCCcEEEEECCCcccHHHcccCcCCCccccCCCeEEE-ECCEEeecCchhhhCCCccChhhcCCccCccc-
Confidence            6899999999987 689999999999999999999996  356654 78999999999999999  9999999998754 


Q ss_pred             CCceeEEEcCCcccccCCcccCCCCCCCCCCcCCCceeecCCccccccchhHhhhh
Q psy15692        214 QDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQA  269 (278)
Q Consensus       214 ~~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~~~~~~~  269 (278)
                          .+|.++++.||++||+|..|+++|..   |..|+..++++||..|+.++++.
T Consensus        81 ----~~~~a~~~~~H~~CF~C~~C~~~L~~---g~~f~~~~~~~~C~~c~~~~~~~  129 (131)
T 2xjy_A           81 ----MTMRVKDKVYHLECFKCAACQKHFCV---GDRYLLINSDIVCEQDIYEWTKI  129 (131)
T ss_dssp             ----EEEEETTEEEEGGGCBCTTTCCBCCT---TCEEEEETTEEEEGGGHHHHHHH
T ss_pred             ----eeEeeCCceECccCcccCCCCCCCCC---CCEEEEECCEEEcHHHHHHHhhc
Confidence                36789999999999999999999963   55799999999999999988764

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

Probab=99.94  E-value=1.1e-27  Score=186.91  Aligned_cols=119  Identities=26%  Similarity=0.542  Sum_probs=107.2

Q ss_pred             cccccccccccc-cceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCcccCccccCCCCCCce
Q psy15692        139 EKCSVCVKPILD-RILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDET  217 (278)
Q Consensus       139 ~~C~~C~~~I~~-~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~C~~~I~~~~~~~~~  217 (278)
                      ++|.+|+++|.+ .++.++|+.||++||+|..|+++|.+..|+. .+|++||..||.++|+++|.+|+++|.+.+     
T Consensus         4 ~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~-~~g~~yC~~cy~~~~~~~C~~C~~~I~~~~-----   77 (126)
T 2xqn_T            4 PRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVM-VNDKPVCKPCYVKNHAVVCQGCHNAIDPEV-----   77 (126)
T ss_dssp             CBBTTTSSBCCSSCEEEETTEEECGGGSBCTTTCCBCTTSEEEE-ETTEEEEHHHHHHHSCCBCTTTCSBCCTTS-----
T ss_pred             CCCccCCCEeCCceEEeeCCCCccCCCCCcCCCCCCCCcCEEEe-ECCEEechHHhCcCcCccCcccCCcCCcCc-----
Confidence            789999999984 6889999999999999999999999877765 789999999999999999999999999753     


Q ss_pred             eEEEcCCcccc--cCCcccCCCCCCCCCCcCCCceeecCCccccccchhHhh
Q psy15692        218 VRVVALDRSFH--IGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRV  267 (278)
Q Consensus       218 ~~v~~~~~~~H--~~Cf~C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~~~~~  267 (278)
                      .+|.++++.||  ++||+|..|+++|.    |..|+..++++||..++.+.+
T Consensus        78 ~~~~a~~~~~H~~~~CF~C~~C~~~l~----~~~f~~~~~~~yC~~~~~~~f  125 (126)
T 2xqn_T           78 QRVTYNNFSWHASTECFLCSCCSKCLI----GQKFMPVEGMVFCSVECKKRM  125 (126)
T ss_dssp             CEEEETTEEEESSTTTSBCTTTCCBCT----TSEEEEETTEEESSHHHHHSC
T ss_pred             eEEECCCCEeeCCCCCcCcCCCCCccC----CCeeEeECCEEcchHHhhhhc
Confidence            37889999999  99999999999997    456999999999997776543

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

Probab=99.94  E-value=9.8e-28  Score=196.60  Aligned_cols=145  Identities=26%  Similarity=0.513  Sum_probs=118.2

Q ss_pred             ccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc-cccccccccccc--cceE
Q psy15692         78 FGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-EKCSVCVKPILD--RILR  154 (278)
Q Consensus        78 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~-~~C~~C~~~I~~--~~~~  154 (278)
                      ...|++|+++|.+.++ +.++|+.||++||+|..|+.+|.+.. |.++|++||+.||.+++ ++|.+|+++|.+  .++.
T Consensus         6 ~~~C~~C~~~I~~~~~-~~a~~~~wH~~CF~C~~C~~~L~~~~-f~~~g~~yC~~~y~~~f~~~C~~C~~~I~~~~~v~~   83 (169)
T 2rgt_A            6 IPMCAGCDQHILDRFI-LKALDRHWHSKCLKCSDCHVPLAERC-FSRGESVYCKDDFFKRFGTKCAACQLGIPPTQVVRR   83 (169)
T ss_dssp             -CBBSSSSSBCCSSSC-EECSSCEECTTTSBCTTTCCBCCSCC-EESSSCEECHHHHHHHHSCBCTTTCCBCCTTSEEEE
T ss_pred             CCccccCCCccCCcEE-EEECCcEEccccCccCCCCCcCCCCC-cccCCeeeecccccccccccccccccccCCCcEEEE
Confidence            4679999999998775 78999999999999999999999875 58999999999999988 899999999975  4678


Q ss_pred             EcCCcCCcCeecCCCCCCCCC-CCCeEEcCCCcccchhhhhcccCCCCc--ccCccccCCCCCCceeEEEcCCcccccCC
Q psy15692        155 ATGRPYHPACFTCVVCGKSLD-GIPFTVDAANQIHCIQDFHKKFAPRCC--VCRAPIMPDSEQDETVRVVALDRSFHIGC  231 (278)
Q Consensus       155 ~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~~~~~~~C~~~y~~~~~~~C~--~C~~~I~~~~~~~~~~~v~~~~~~~H~~C  231 (278)
                      +.++.||++||+|..|+++|. +..|+...+|++||..||.++++..+.  +.+.+.         ..+.+....+|...
T Consensus        84 a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~~C~~c~~~~~~~~~~~~~~~rpr---------t~~~~~q~~~l~~~  154 (169)
T 2rgt_A           84 AQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAKQGGSGGSGGSGGG---------TPMVAASPERHDGG  154 (169)
T ss_dssp             ETTEEEEGGGCBCTTTCCBCCTTCEEEECTTSCEEEHHHHHHHHHCC-------------------EEEECCCCEECCSS
T ss_pred             cCCceEeeCCCcCCCCCCCCCCCCceEEccCCeEECHHHHHHHhhccCCCCCCcCCC---------CcccHHHHHHHHHH
Confidence            999999999999999999998 666766678999999999988866543  222222         14556666777777


Q ss_pred             cc
Q psy15692        232 YR  233 (278)
Q Consensus       232 f~  233 (278)
                      |.
T Consensus       155 f~  156 (169)
T 2rgt_A          155 LQ  156 (169)
T ss_dssp             CC
T ss_pred             Hh
Confidence            65

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

Probab=99.94  E-value=3.4e-27  Score=195.67  Aligned_cols=133  Identities=29%  Similarity=0.590  Sum_probs=114.0

Q ss_pred             CCeecccccccc----ccccccccccccccc-ceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCC
Q psy15692        125 EGHAYCEQGYLD----TLEKCSVCVKPILDR-ILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAP  199 (278)
Q Consensus       125 ~g~~yC~~~y~~----~~~~C~~C~~~I~~~-~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~  199 (278)
                      ++..||..++..    ..++|..|+++|.+. ++.+.++.||++||+|..|+++|.+..|.  .+|++||..||.++|++
T Consensus        43 ~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~--~~g~~yC~~~y~~~f~~  120 (182)
T 2jtn_A           43 DDEGGSGGHMGSGGTPEIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFS--RGESVYCKDDFFKRFGT  120 (182)
T ss_dssp             SSSCSSSSSCCCCCCCSCCBCBTSSSBCCCSEEEEETTEEECSSTTSCTTTCCCCSSCCEE--ETTEEECHHHHHHTTSC
T ss_pred             ccccccccccccCCCCCCCcCccCCCCccCceeEEecCCeEccccCccCCCCCccCCCcee--ECCEeeecCcccccccc
Confidence            456788887752    238999999999976 67899999999999999999999987764  58999999999999999


Q ss_pred             CCcccCccccCCCCCCceeEEEcCCcccccCCcccCCCCCCCCCCcCCCceee-cCCccccccchhHhh
Q psy15692        200 RCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYP-LDDHVLCKSCNAKRV  267 (278)
Q Consensus       200 ~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~-~~~~~~C~~C~~~~~  267 (278)
                      +|.+|+++|.+.+     .++.+.++.||++||+|..|+++|..   |..||. .++++||+.||.+..
T Consensus       121 kC~~C~~~I~~~~-----~v~~a~~~~~H~~CF~C~~C~~~L~~---g~~f~~~~~g~~yC~~cy~~~~  181 (182)
T 2jtn_A          121 KCAACQLGIPPTQ-----VVRRAQDFVYHLHCFACVVCKRQLAT---GDEFYLMEDSRLVCKADYETAK  181 (182)
T ss_dssp             CCTTTCCCCCSSC-----CCCEETTEECCTTTCCCTTTCCCCCT---TCEEEECTTSCEECHHHHHHHT
T ss_pred             ccccCCCccCCCc-----eEEecCCCCEEeCCCcCCCCCCCCCC---CCceEEccCCEEECHHHHHHhh
Confidence            9999999998754     24578999999999999999999974   456765 578999999997653

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

Probab=99.93  E-value=1.4e-26  Score=191.85  Aligned_cols=118  Identities=28%  Similarity=0.647  Sum_probs=105.9

Q ss_pred             CccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc-cccccccccccc--cce
Q psy15692         77 LFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-EKCSVCVKPILD--RIL  153 (278)
Q Consensus        77 ~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~-~~C~~C~~~I~~--~~~  153 (278)
                      ....|++|+++|.+.++ +.++|+.||++||+|..|+.+|.+.. |.++|++||+.||.+++ ++|..|+++|.+  .++
T Consensus        59 ~~~~C~~C~~~I~~~~~-~~a~~~~wH~~CF~C~~C~~~L~~~~-f~~~g~~yC~~~y~~~f~~kC~~C~~~I~~~~~v~  136 (182)
T 2jtn_A           59 EIPMCAGCDQHILDRFI-LKALDRHWHSKCLKCSDCHVPLAERC-FSRGESVYCKDDFFKRFGTKCAACQLGIPPTQVVR  136 (182)
T ss_dssp             SCCBCBTSSSBCCCSEE-EEETTEEECSSTTSCTTTCCCCSSCC-EEETTEEECHHHHHHTTSCCCTTTCCCCCSSCCCC
T ss_pred             CCCcCccCCCCccCcee-EEecCCeEccccCccCCCCCccCCCc-eeECCEeeecCccccccccccccCCCccCCCceEE
Confidence            45789999999998764 78999999999999999999999876 57999999999999988 899999999975  467


Q ss_pred             EEcCCcCCcCeecCCCCCCCCC-CCCeEEcCCCcccchhhhhcc
Q psy15692        154 RATGRPYHPACFTCVVCGKSLD-GIPFTVDAANQIHCIQDFHKK  196 (278)
Q Consensus       154 ~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~~~~~~~C~~~y~~~  196 (278)
                      .+.++.||++||+|..|+++|. +..|+...+|++||..||.++
T Consensus       137 ~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~yC~~cy~~~  180 (182)
T 2jtn_A          137 RAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETA  180 (182)
T ss_dssp             EETTEECCTTTCCCTTTCCCCCTTCEEEECTTSCEECHHHHHHH
T ss_pred             ecCCCCEEeCCCcCCCCCCCCCCCCceEEccCCEEECHHHHHHh
Confidence            8999999999999999999998 566766678999999999764

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

Probab=99.93  E-value=1.6e-26  Score=189.41  Aligned_cols=121  Identities=32%  Similarity=0.670  Sum_probs=107.4

Q ss_pred             ccccccccccccc-ceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCcccCccccCCCCCCce
Q psy15692        139 EKCSVCVKPILDR-ILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDET  217 (278)
Q Consensus       139 ~~C~~C~~~I~~~-~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~C~~~I~~~~~~~~~  217 (278)
                      ++|.+|+++|.++ +|.++|+.||++||+|..|+++|.+..|.  .+|++||..||.++|+++|.+|+++|.+.+     
T Consensus         7 ~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~--~~g~~yC~~~y~~~f~~~C~~C~~~I~~~~-----   79 (169)
T 2rgt_A            7 PMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFS--RGESVYCKDDFFKRFGTKCAACQLGIPPTQ-----   79 (169)
T ss_dssp             CBBSSSSSBCCSSSCEECSSCEECTTTSBCTTTCCBCCSCCEE--SSSCEECHHHHHHHHSCBCTTTCCBCCTTS-----
T ss_pred             CccccCCCccCCcEEEEECCcEEccccCccCCCCCcCCCCCcc--cCCeeeecccccccccccccccccccCCCc-----
Confidence            7899999999976 68899999999999999999999987763  689999999999999999999999998754     


Q ss_pred             eEEEcCCcccccCCcccCCCCCCCCCCcCCCceee-cCCccccccchhHhhhh
Q psy15692        218 VRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYP-LDDHVLCKSCNAKRVQA  269 (278)
Q Consensus       218 ~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~-~~~~~~C~~C~~~~~~~  269 (278)
                      .++.++++.||++||+|..|+++|..   |..||. .++++||+.|+.+.++.
T Consensus        80 ~v~~a~~~~~H~~CF~C~~C~~~L~~---g~~f~~~~~g~~~C~~c~~~~~~~  129 (169)
T 2rgt_A           80 VVRRAQDFVYHLHCFACVVCKRQLAT---GDEFYLMEDSRLVCKADYETAKQG  129 (169)
T ss_dssp             EEEEETTEEEEGGGCBCTTTCCBCCT---TCEEEECTTSCEEEHHHHHHHHHC
T ss_pred             EEEEcCCceEeeCCCcCCCCCCCCCC---CCceEEccCCeEECHHHHHHHhhc
Confidence            35679999999999999999999974   456765 58899999999888754

>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=99.93  E-value=1.4e-26  Score=192.98  Aligned_cols=122  Identities=22%  Similarity=0.535  Sum_probs=107.9

Q ss_pred             ccccccccccccc-ceEEcCCcCCcCeecCCCCCCCCCC--CCeEEcCCCcccchhhhhcccCC--CCcccCccccCCCC
Q psy15692        139 EKCSVCVKPILDR-ILRATGRPYHPACFTCVVCGKSLDG--IPFTVDAANQIHCIQDFHKKFAP--RCCVCRAPIMPDSE  213 (278)
Q Consensus       139 ~~C~~C~~~I~~~-~~~~~~~~~H~~Cf~C~~C~~~l~~--~~~~~~~~~~~~C~~~y~~~~~~--~C~~C~~~I~~~~~  213 (278)
                      ++|..|+++|.++ +|.++++.||++||+|..|+++|..  ..|+. .+|++||..||.++|++  +|.+|+++|.+.+ 
T Consensus         6 ~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~-~~g~~yC~~cy~~~~~~~~~C~~C~~~I~~~e-   83 (188)
T 1rut_X            6 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYT-KSGMILCRNDYIRLFGNSGACSACGQSIPASE-   83 (188)
T ss_dssp             CBBTTTCCBCCCSEEEEETTEEECGGGCBCTTTCCBHHHHCSEEEE-ETTEEECHHHHHHHHSCCEECTTTCCEECTTS-
T ss_pred             CcCccCCCEeCCceeEEecCcEecccCcccCCCCcccccCCceEEE-eCCccccccccccccccCCccccCCCccccCc-
Confidence            7899999999987 5899999999999999999999984  55654 78999999999999999  7999999998754 


Q ss_pred             CCceeEEEcCCcccccCCcccCCCCCCCCCCcCCCceeecCCccccccchhHhhhh
Q psy15692        214 QDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQA  269 (278)
Q Consensus       214 ~~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~~~~~~~  269 (278)
                          .+|.++++.||++||+|..|+++|..   |..|+..++++||..||.+++..
T Consensus        84 ----~~i~a~~~~~H~~CF~C~~C~~~L~~---g~~f~~~~g~~yC~~c~~~~~~~  132 (188)
T 1rut_X           84 ----LVMRAQGNVYHLKCFTCSTCRNRLVP---GDRFHYINGSLFCEHDRPTALIN  132 (188)
T ss_dssp             ----EEEEETTEEECGGGCBCTTTCCBCCT---TCEEEEETTEEEEGGGCCTTTC-
T ss_pred             ----EEEEcCCCEEeCCCCeECCCCCCCCC---CCeEEEECCeEECHHHHHHHhcc
Confidence                36789999999999999999999963   45799999999999999877644

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

Probab=99.92  E-value=4.7e-26  Score=190.31  Aligned_cols=122  Identities=32%  Similarity=0.761  Sum_probs=108.8

Q ss_pred             ccccccccccc-ccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCC-----------------
Q psy15692        139 EKCSVCVKPIL-DRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPR-----------------  200 (278)
Q Consensus       139 ~~C~~C~~~I~-~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~-----------------  200 (278)
                      ++|..|+++|. +..|.++++.||++||+|..|+++|.+..|+. .+|++||+.||.++|+++                 
T Consensus         8 ~~C~~C~~~I~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~~~~-~~g~~yC~~cy~~~f~~~c~~c~~~~g~~~~~~~~   86 (192)
T 1b8t_A            8 KKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAV-HGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTDKGE   86 (192)
T ss_dssp             EECTTTCCEECSSCCEEETTEEECTTTCBCTTTCCBCCSSSEEE-ETTEEEEHHHHHHHHSCCCCCCCCCCCCCCCCCCC
T ss_pred             CcCccCCCeecceeEEEeCCceecCCCCcCcccCCcCCCCeeEe-cCCEeeChhhhHhhcCccccccccccccEecCCCc
Confidence            78999999997 67889999999999999999999999877765 689999999999999887                 


Q ss_pred             -------------------------------CcccCccccCCCCCCceeEEEcCCcccccCCcccCCCCCCCCCCcCCCc
Q psy15692        201 -------------------------------CCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRG  249 (278)
Q Consensus       201 -------------------------------C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~  249 (278)
                                                     |.+|+++|.+.+      .|.++++.||++||+|..|+++|..    ..
T Consensus        87 ~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~C~~C~~~I~~~~------~v~a~~~~~H~~CF~C~~C~~~L~~----~~  156 (192)
T 1b8t_A           87 SLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAVYAAE------KVIGAGKSWHKSCFRCAKCGKSLES----TT  156 (192)
T ss_dssp             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCEECTTTSCEECSSS------CEEETTEEECTTTCBCTTTCCBCCS----SS
T ss_pred             ccccccccccccCCCCcCccccccccCCCCcCCCCCCEecCcE------EEecCCCccchhcCCccccCCCCCC----Cc
Confidence                                           678999998653      5679999999999999999999974    35


Q ss_pred             eeecCCccccccchhHhhhhcc
Q psy15692        250 CYPLDDHVLCKSCNAKRVQALT  271 (278)
Q Consensus       250 ~~~~~~~~~C~~C~~~~~~~~~  271 (278)
                      |+..++++||+.||.+++...-
T Consensus       157 ~~~~~g~~yC~~cy~~~f~~kc  178 (192)
T 1b8t_A          157 LADKDGEIYCKGCYAKNFGPKG  178 (192)
T ss_dssp             EEEETTEEEEHHHHHHHTCCCC
T ss_pred             ccccCCEEeCHHHHHHhcCCcC
Confidence            9999999999999999987654

>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=99.90  E-value=1.1e-24  Score=163.38  Aligned_cols=95  Identities=23%  Similarity=0.536  Sum_probs=86.7

Q ss_pred             CccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc-ccccccccccc--ccce
Q psy15692         77 LFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-EKCSVCVKPIL--DRIL  153 (278)
Q Consensus        77 ~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~-~~C~~C~~~I~--~~~~  153 (278)
                      ....|.+|+++|..+...+.++|+.||++||+|..|+++|.+..|+.++|++||+.||.+++ ++|..|+++|.  +.+|
T Consensus         4 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~C~~C~~~I~~~~~~~   83 (101)
T 2cup_A            4 GSSGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSPKCKGCFKAIVAGDQNV   83 (101)
T ss_dssp             CCCBCSSSCCBCCSSSCEEEETTEEEETTTCCCSSSCCCTTSSCCEEETTEEECHHHHTTCCCCBCSSSCCBCCSSSCEE
T ss_pred             CCCcCcccCCcccCCceEEEECccChhhcCCcccccCCCCCcCeeECcCCEEEChhHhhhhcCCccccCCCccccCCeEE
Confidence            34679999999985333489999999999999999999999888999999999999999988 89999999998  5789


Q ss_pred             EEcCCcCCcCeecCCCCC
Q psy15692        154 RATGRPYHPACFTCVVCG  171 (278)
Q Consensus       154 ~~~~~~~H~~Cf~C~~C~  171 (278)
                      .++++.||++||+|..|+
T Consensus        84 ~a~~~~~H~~CF~C~~C~  101 (101)
T 2cup_A           84 EYKGTVWHKDCFSGPSSG  101 (101)
T ss_dssp             ESSSCEEETTTCCCTTCC
T ss_pred             EeCCcchHHhCCCCCCCC
Confidence            999999999999999996

>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=99.90  E-value=4e-24  Score=160.29  Aligned_cols=94  Identities=26%  Similarity=0.534  Sum_probs=86.2

Q ss_pred             ccccccccccc--ccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCcccCccccCCCCCCc
Q psy15692        139 EKCSVCVKPIL--DRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDE  216 (278)
Q Consensus       139 ~~C~~C~~~I~--~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~C~~~I~~~~~~~~  216 (278)
                      ++|..|+++|.  +.+|.++++.||++||+|..|+++|.+..|+. .+|++||..||.++|+++|.+|+++|.+++    
T Consensus         6 ~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~-~~g~~yC~~cy~~~~~~~C~~C~~~I~~~~----   80 (101)
T 2cup_A            6 SGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVA-KDNKILCNKCTTREDSPKCKGCFKAIVAGD----   80 (101)
T ss_dssp             CBCSSSCCBCCSSSCEEEETTEEEETTTCCCSSSCCCTTSSCCEE-ETTEEECHHHHTTCCCCBCSSSCCBCCSSS----
T ss_pred             CcCcccCCcccCCceEEEECccChhhcCCcccccCCCCCcCeeEC-cCCEEEChhHhhhhcCCccccCCCccccCC----
Confidence            78999999996  67899999999999999999999999877765 789999999999999999999999998653    


Q ss_pred             eeEEEcCCcccccCCcccCCCC
Q psy15692        217 TVRVVALDRSFHIGCYRCEDCG  238 (278)
Q Consensus       217 ~~~v~~~~~~~H~~Cf~C~~C~  238 (278)
                       .+|.++++.||++||+|..|+
T Consensus        81 -~~~~a~~~~~H~~CF~C~~C~  101 (101)
T 2cup_A           81 -QNVEYKGTVWHKDCFSGPSSG  101 (101)
T ss_dssp             -CEEESSSCEEETTTCCCTTCC
T ss_pred             -eEEEeCCcchHHhCCCCCCCC
Confidence             378899999999999999996

>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=99.83  E-value=6.4e-22  Score=153.34  Aligned_cols=107  Identities=21%  Similarity=0.344  Sum_probs=92.1

Q ss_pred             CccccccCCCeeeCCcceeeeCCcccccccccccccCcccC--CCCeEeeCCeecccccccccc-c--cccccccccccc
Q psy15692         77 LFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLE--GKPFYIIEGHAYCEQGYLDTL-E--KCSVCVKPILDR  151 (278)
Q Consensus        77 ~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~--~~~f~~~~g~~yC~~~y~~~~-~--~C~~C~~~I~~~  151 (278)
                      ....|++|+++|.+.++ +.++++.||++||+|..|+.+|.  +..|+.++|++||+.||.+++ +  +|++|+++|.+.
T Consensus         4 ~~~~C~~C~~~I~~~~~-~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~cy~~~f~~~~~C~~C~~~I~~~   82 (122)
T 1m3v_A            4 SWKRCAGCGGKIADRFL-LYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAGGSGGHMGSGG   82 (122)
T ss_dssp             CCCCBSSSSSCCCSSCC-EEETTEEECHHHHCCSSSCCCTTTSEECCEEETTEEECHHHHHHHHCCCCSSSCSSCCSCCE
T ss_pred             CCCCCcccCCEeCCcEE-EEECCceeHhhCCCcCCCCCcccccCCeEEEECCeeecHHHHHHHcCCCCccccCCCCcCch
Confidence            34679999999998875 79999999999999999999997  357999999999999999988 6  899999999976


Q ss_pred             ceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccC
Q psy15692        152 ILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFA  198 (278)
Q Consensus       152 ~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~  198 (278)
                      .+.+.++             ..|.+..|+. .++++||..||.+++.
T Consensus        83 ~~~~~g~-------------~~l~g~~f~~-~~~~~yC~~~~~~~~~  115 (122)
T 1m3v_A           83 DVMVVGE-------------PTLMGGEFGD-EDERLITRLENTQFDA  115 (122)
T ss_dssp             ESSSSSS-------------SSCCSCTTCC-TTCCCCEECTTTTTTC
T ss_pred             heEEcCC-------------cCCCCCccEe-cCCEeEccCcchhchh
Confidence            6666553             3677888865 7899999999987664

>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=99.81  E-value=5.7e-21  Score=147.98  Aligned_cols=107  Identities=21%  Similarity=0.328  Sum_probs=90.2

Q ss_pred             ccccccccccccc-ceEEcCCcCCcCeecCCCCCCCCC--CCCeEEcCCCcccchhhhhcccCC--CCcccCccccCCCC
Q psy15692        139 EKCSVCVKPILDR-ILRATGRPYHPACFTCVVCGKSLD--GIPFTVDAANQIHCIQDFHKKFAP--RCCVCRAPIMPDSE  213 (278)
Q Consensus       139 ~~C~~C~~~I~~~-~~~~~~~~~H~~Cf~C~~C~~~l~--~~~~~~~~~~~~~C~~~y~~~~~~--~C~~C~~~I~~~~~  213 (278)
                      ++|..|+++|.+. +|.++++.||++||+|..|+++|.  +..|+. .+|++||..||.++|++  +|.+|+++|.+.  
T Consensus         6 ~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~-~~g~~yC~~cy~~~f~~~~~C~~C~~~I~~~--   82 (122)
T 1m3v_A            6 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYT-KSGMILCRNDYIRLFGNSGAGGSGGHMGSGG--   82 (122)
T ss_dssp             CCBSSSSSCCCSSCCEEETTEEECHHHHCCSSSCCCTTTSEECCEE-ETTEEECHHHHHHHHCCCCSSSCSSCCSCCE--
T ss_pred             CCCcccCCEeCCcEEEEECCceeHhhCCCcCCCCCcccccCCeEEE-ECCeeecHHHHHHHcCCCCccccCCCCcCch--
Confidence            7899999999987 589999999999999999999997  345654 78999999999999999  999999999864  


Q ss_pred             CCceeEEEcCCcccccCCcccCCCCCCCCCCcCCCceeecCCccccccchhHhhhhc
Q psy15692        214 QDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQAL  270 (278)
Q Consensus       214 ~~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~~~~~~~~  270 (278)
                           .|++.++             ..|.    |+.|+..++++||+.|+.++..+.
T Consensus        83 -----~~~~~g~-------------~~l~----g~~f~~~~~~~yC~~~~~~~~~~~  117 (122)
T 1m3v_A           83 -----DVMVVGE-------------PTLM----GGEFGDEDERLITRLENTQFDAAN  117 (122)
T ss_dssp             -----ESSSSSS-------------SSCC----SCTTCCTTCCCCEECTTTTTTCCS
T ss_pred             -----heEEcCC-------------cCCC----CCccEecCCEeEccCcchhchhhc
Confidence                 2345542             2343    668999999999999999887543

>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=99.80  E-value=4.6e-20  Score=132.53  Aligned_cols=79  Identities=62%  Similarity=1.156  Sum_probs=72.5

Q ss_pred             CCeecccccccccccccccccccccccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCcc
Q psy15692        125 EGHAYCEQGYLDTLEKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCV  203 (278)
Q Consensus       125 ~g~~yC~~~y~~~~~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~  203 (278)
                      +|++||++||....++|..|+++|.+++|.+.++.||++||+|..|+++|.+..|..+.++++||..||.++|+++|++
T Consensus         2 ~g~~yC~~~y~~~~~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~g~~yC~~cy~~~f~~~C~~   80 (81)
T 2dlo_A            2 SSGSSGEGCYVATLEKCATCSQPILDRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFASGPSS   80 (81)
T ss_dssp             CCCCCCCCCCCSSCCBCTTTCCBCCSCCEEETTEEECTTTCBCSSSCCBCTTSCEECCTTCCCEEHHHHHHHTTSSSCC
T ss_pred             cCCEECHHHhhcCCCccccCCCeecceeEEECCccccHHhcCcccCCCccCCCeeEECCCCEEECHHHHHHHhcCcCCC
Confidence            6899999999944489999999999999999999999999999999999998888765578999999999999999974

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

Probab=99.78  E-value=1e-19  Score=130.36  Aligned_cols=78  Identities=23%  Similarity=0.496  Sum_probs=72.5

Q ss_pred             CCeecccccccccc-cccccccccccccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCcc
Q psy15692        125 EGHAYCEQGYLDTL-EKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCV  203 (278)
Q Consensus       125 ~g~~yC~~~y~~~~-~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~  203 (278)
                      +|++||++||.+++ ++|..|+++|.+++|.+.++.||++||+|..|+++|.+..|+. .++++||..||.++|+++|.+
T Consensus         1 gg~~yC~~~y~~~~~~~C~~C~~~I~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~-~~~~~yC~~~y~~~f~~~C~~   79 (80)
T 1x3h_A            1 GSSGSSGKDFLAMFSPKCGGCNRPVLENYLSAMDTVWHPECFVCGDCFTSFSTGSFFE-LDGRPFCELHYHHRRGSGPSS   79 (80)
T ss_dssp             CCCCCCCCCCCCCCSCBCTTTCCBCCSSCEEETTEEECTTTCBCSSSCCBSCSSCCEE-SSSCEECHHHHHHHHSSSCCC
T ss_pred             CCCccchhHHhhhcCCccccCCCeecceeEEECCCeEecCcCChhhCCCCCCCCcEEe-ECCEEECHHHHHHHcCCCCCC
Confidence            47899999999988 8999999999999999999999999999999999999767765 789999999999999999974

>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=99.78  E-value=1.3e-19  Score=129.77  Aligned_cols=78  Identities=22%  Similarity=0.478  Sum_probs=72.7

Q ss_pred             CCeecccccccccc-cccccccccccccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCcc
Q psy15692        125 EGHAYCEQGYLDTL-EKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCV  203 (278)
Q Consensus       125 ~g~~yC~~~y~~~~-~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~  203 (278)
                      +|++||++||.+++ ++|..|+++|.++.|.+.++.||++||+|..|+++|.+..|+. .++++||..||.++|+++|..
T Consensus         1 gg~~yC~~cy~~~~~~~C~~C~~~I~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~-~~~~~yC~~cy~~~f~~~c~s   79 (80)
T 2cuq_A            1 GSSGSSGPCYENKFAPRCARCSKTLTQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTS-RDEDPYCVACFGELFASGPSS   79 (80)
T ss_dssp             CCCCSCCCCCCCCSSCCCTTTCCCCCSCCEESSSSEECTTTCBCSSSCCBCTTCCEEE-CSSSEEEHHHHHHHTTCSTTC
T ss_pred             CCcEEcHHHHccccCCcCCCCCCEecCcEEEECCchhhhhhCCcccCCCcCCCCeeEe-ECCEEECHHHHHHHcCCCCCC
Confidence            58999999999987 8999999999998999999999999999999999999877765 789999999999999999964

>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=99.78  E-value=8.1e-20  Score=131.51  Aligned_cols=78  Identities=26%  Similarity=0.512  Sum_probs=72.3

Q ss_pred             CCeecccccccccc-ccccccccccc--ccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCC
Q psy15692        125 EGHAYCEQGYLDTL-EKCSVCVKPIL--DRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRC  201 (278)
Q Consensus       125 ~g~~yC~~~y~~~~-~~C~~C~~~I~--~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C  201 (278)
                      +|++||++||.+++ ++|..|+++|.  +.+|.++++.||++||+|..|+++|.+..|.. .++++||..||.++|+++|
T Consensus         1 ~g~~yC~~~y~~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~-~~~~~~C~~c~~~~~~~~C   79 (82)
T 2ehe_A            1 GSSGSSGPCYDNTFANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTC-QDSELLCNDCYCSAFSSGP   79 (82)
T ss_dssp             CCCCCCCCCCCCCCSCBCTTTCCBCCSSCCBCCCSSCCCBTTTSBCTTTCCBCSSCCEEE-ETTEEEETTTSSCCGGGSS
T ss_pred             CCceechhHhCcccCCcCccCCCccccCcEEEEeCCccccccCCeecCCCCccCCCccEe-eCCEEECHHHHhhhcCCCC
Confidence            58999999999988 89999999998  67899999999999999999999999888865 6899999999999999999


Q ss_pred             cc
Q psy15692        202 CV  203 (278)
Q Consensus       202 ~~  203 (278)
                      .+
T Consensus        80 ~~   81 (82)
T 2ehe_A           80 SS   81 (82)
T ss_dssp             CC
T ss_pred             CC
Confidence            74

>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=99.76  E-value=2e-19  Score=137.64  Aligned_cols=101  Identities=21%  Similarity=0.368  Sum_probs=83.1

Q ss_pred             ccccccCCCeeeCCcceeeeCCcccccccccccccCcccCC--CCeEeeCCeecccccccccc-cccccccccccccceE
Q psy15692         78 FGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEG--KPFYIIEGHAYCEQGYLDTL-EKCSVCVKPILDRILR  154 (278)
Q Consensus        78 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~--~~f~~~~g~~yC~~~y~~~~-~~C~~C~~~I~~~~~~  154 (278)
                      .++|++|+++|.+.++ +.++++.||++||+|..|+.+|..  ..||.++|++||+.||.+++ ++|..|..   +.+|.
T Consensus         3 ~~~C~~C~~~I~~~~~-~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~~y~~~f~~~c~~c~~---~~~~~   78 (114)
T 1j2o_A            3 LLTCGGCQQNIGDRYF-LKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGGSGGHMGSG---GDVMV   78 (114)
T ss_dssp             CBCBSSSCSCBCSSEE-EECSSSEECTTTCCCSSSCSCCCCSSSCCCCBTTBCCCHHHHHHHHTSCCSSCBS---CSCCC
T ss_pred             CCCCcCCCCeeCCcEE-EEECchhHHHhcCcccccCCchhcCCCeeEEECCeeechHHHHHHhCcccCcCCC---CceeE
Confidence            4579999999998764 799999999999999999999974  58999999999999999988 88888762   33322


Q ss_pred             EcCCcCCcCeecCCCCCCC-CCCCCeEEcCCCcccchhhhhcccC
Q psy15692        155 ATGRPYHPACFTCVVCGKS-LDGIPFTVDAANQIHCIQDFHKKFA  198 (278)
Q Consensus       155 ~~~~~~H~~Cf~C~~C~~~-l~~~~~~~~~~~~~~C~~~y~~~~~  198 (278)
                                     |+.+ |.+..|.. .++++||..||.++.+
T Consensus        79 ---------------~~~~~~~g~~f~~-~~~~~~C~~~~~~~~~  107 (114)
T 1j2o_A           79 ---------------VGEPTLMGGEFGD-EDERLITRLENTQFDA  107 (114)
T ss_dssp             ---------------SSCSSTTSSBCCC-SSSCCCEEEECTTCCC
T ss_pred             ---------------cCCccCCCCeeEE-cCCEeecchhhhcccc
Confidence                           3344 56777865 7899999999887654

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

Probab=99.75  E-value=1.1e-18  Score=125.24  Aligned_cols=79  Identities=18%  Similarity=0.402  Sum_probs=71.6

Q ss_pred             CCeecccccccccc-cccccccccccccceEEcCCcCCcCeecCCCCCCCCC-CCCeEEcCCCcccchhhhhcccCCCCc
Q psy15692        125 EGHAYCEQGYLDTL-EKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLD-GIPFTVDAANQIHCIQDFHKKFAPRCC  202 (278)
Q Consensus       125 ~g~~yC~~~y~~~~-~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~~~~~~~C~~~y~~~~~~~C~  202 (278)
                      ++.+||++||.+++ ++|..|+++|.+++|.++++.||++||+|..|+++|. +..|.++.++++||..||.++|++.|.
T Consensus         1 g~~~yC~~~y~~~~~~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~~C~~c~~~~~~~~~s   80 (81)
T 1x6a_A            1 GSSGSSGKDYWGKFGEFCHGCSLLMTGPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVVSGPSS   80 (81)
T ss_dssp             CCCCCCCCCSSCCSSCBCTTTCCBCCSCCBCCTTCCBCTTSCBCTTTCCBCCTTSCEEECSSSCEEEHHHHHHHHCTTSC
T ss_pred             CCCccchhHHhhhcCCcCccCCCCcCceEEEECCceeccccCCccCCCCccCCCCcEEEeeCCEEECHHHHHHHhcCCCC
Confidence            36899999999988 8999999999999999999999999999999999997 567764578999999999999999876


Q ss_pred             c
Q psy15692        203 V  203 (278)
Q Consensus       203 ~  203 (278)
                      +
T Consensus        81 g   81 (81)
T 1x6a_A           81 G   81 (81)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.74  E-value=1.1e-18  Score=125.40  Aligned_cols=77  Identities=23%  Similarity=0.437  Sum_probs=71.0

Q ss_pred             CCeecccccccccc-ccccccccccc--ccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCC
Q psy15692        125 EGHAYCEQGYLDTL-EKCSVCVKPIL--DRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRC  201 (278)
Q Consensus       125 ~g~~yC~~~y~~~~-~~C~~C~~~I~--~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C  201 (278)
                      ++.+||++||.+++ ++|..|+++|.  +++|.+.++.||++||+|..|+++|.+..|+. .++++||..||.++|+++|
T Consensus         1 ~~~~yC~~cy~~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~-~~~~~yC~~cy~~~f~~~~   79 (82)
T 1x63_A            1 GSSGSSGKCTTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFP-KGEDFYCVTCHETKFASGP   79 (82)
T ss_dssp             CCSCCCCCCCSCCCSCBCSSSCCBCCSSSCEEECSSCEEETTTCCCSSSCCCCTTSCEEE-ETTEEEEHHHHHHHTSCCC
T ss_pred             CCCcCchhHHccccCCcCccCCcccccCceEEEECccccccccCchhhCCCccCCCccEe-eCCEEECHHHHHHHhCCCC
Confidence            46899999999987 89999999998  67899999999999999999999999877765 6899999999999999998


Q ss_pred             c
Q psy15692        202 C  202 (278)
Q Consensus       202 ~  202 (278)
                      .
T Consensus        80 ~   80 (82)
T 1x63_A           80 S   80 (82)
T ss_dssp             S
T ss_pred             C
Confidence            5

>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=9.2e-19  Score=133.89  Aligned_cols=103  Identities=21%  Similarity=0.310  Sum_probs=84.5

Q ss_pred             ccccccccccccc-ceEEcCCcCCcCeecCCCCCCCCCC--CCeEEcCCCcccchhhhhcccCCCCcccCccccCCCCCC
Q psy15692        139 EKCSVCVKPILDR-ILRATGRPYHPACFTCVVCGKSLDG--IPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQD  215 (278)
Q Consensus       139 ~~C~~C~~~I~~~-~~~~~~~~~H~~Cf~C~~C~~~l~~--~~~~~~~~~~~~C~~~y~~~~~~~C~~C~~~I~~~~~~~  215 (278)
                      ++|.+|+++|.+. +|.++++.||++||+|..|+++|..  ..|+ ..+|++||..||.++|+++|..|..   +.    
T Consensus         4 ~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~-~~~g~~yC~~~y~~~f~~~c~~c~~---~~----   75 (114)
T 1j2o_A            4 LTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLY-YKLGRKLCRRDYLRLGGSGGHMGSG---GD----   75 (114)
T ss_dssp             BCBSSSCSCBCSSEEEECSSSEECTTTCCCSSSCSCCCCSSSCCC-CBTTBCCCHHHHHHHHTSCCSSCBS---CS----
T ss_pred             CCCcCCCCeeCCcEEEEECchhHHHhcCcccccCCchhcCCCeeE-EECCeeechHHHHHHhCcccCcCCC---Cc----
Confidence            6899999999987 7999999999999999999999974  4564 4789999999999999999998862   11    


Q ss_pred             ceeEEEcCCcccccCCcccCCCCCCCCCCcCCCceeecCCccccccchhHhhhhc
Q psy15692        216 ETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQAL  270 (278)
Q Consensus       216 ~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~~~~~~~~  270 (278)
                         +|.               |++.+.   .|+.|++.++++||+.|+.++..+.
T Consensus        76 ---~~~---------------~~~~~~---~g~~f~~~~~~~~C~~~~~~~~~~~  109 (114)
T 1j2o_A           76 ---VMV---------------VGEPTL---MGGEFGDEDERLITRLENTQFDAAN  109 (114)
T ss_dssp             ---CCC---------------SSCSST---TSSBCCCSSSCCCEEEECTTCCCTT
T ss_pred             ---eeE---------------cCCccC---CCCeeEEcCCEeecchhhhcccccc
Confidence               221               345544   2668999999999999998876543

>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=99.72  E-value=4e-18  Score=121.93  Aligned_cols=77  Identities=23%  Similarity=0.486  Sum_probs=69.4

Q ss_pred             CCcccchhhhhcccCCCCcccCccccCCCCCCceeEEEcCCcccccCCcccCCCCCCCCCCcCCCceeecCCccccccch
Q psy15692        184 ANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCN  263 (278)
Q Consensus       184 ~~~~~C~~~y~~~~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~  263 (278)
                      +|++||+.||.++++++|.+|+++|.+.       .|.++++.||++||+|..|+++|.    +..|+..++++||+.|+
T Consensus         1 gg~~yC~~cy~~~~~~~C~~C~~~I~~~-------~v~a~~~~~H~~CF~C~~C~~~L~----~~~~~~~~~~~yC~~cy   69 (80)
T 2cuq_A            1 GSSGSSGPCYENKFAPRCARCSKTLTQG-------GVTYRDQPWHRECLVCTGCQTPLA----GQQFTSRDEDPYCVACF   69 (80)
T ss_dssp             CCCCSCCCCCCCCSSCCCTTTCCCCCSC-------CEESSSSEECTTTCBCSSSCCBCT----TCCEEECSSSEEEHHHH
T ss_pred             CCcEEcHHHHccccCCcCCCCCCEecCc-------EEEECCchhhhhhCCcccCCCcCC----CCeeEeECCEEECHHHH
Confidence            4789999999999999999999999753       578999999999999999999996    34699999999999999


Q ss_pred             hHhhhhcc
Q psy15692        264 AKRVQALT  271 (278)
Q Consensus       264 ~~~~~~~~  271 (278)
                      .+++....
T Consensus        70 ~~~f~~~c   77 (80)
T 2cuq_A           70 GELFASGP   77 (80)
T ss_dssp             HHHTTCST
T ss_pred             HHHcCCCC
Confidence            99887653

>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=99.71  E-value=5.1e-18  Score=120.48  Aligned_cols=76  Identities=21%  Similarity=0.454  Sum_probs=65.5

Q ss_pred             CCcccchhhhhcccCCCCcccCccccCCCCCCceeEEEcCCcccccCCcccCCCCCCCCCCcCCCceeecCCccccccch
Q psy15692        184 ANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCN  263 (278)
Q Consensus       184 ~~~~~C~~~y~~~~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~  263 (278)
                      ++++||+.||.++++++|.+|+++|.+..  ....+|.++++.||++||+|..|+++|.    +..|+..++++||+.||
T Consensus         1 g~~~yC~~cy~~~~~~~C~~C~~~I~~~g--~~~~~~~a~~~~~H~~CF~C~~C~~~L~----~~~f~~~~~~~yC~~cy   74 (77)
T 2egq_A            1 GSSGSSGDCYKNFVAKKCAGCKNPITGFG--KGSSVVAYEGQSWHDYCFHCKKCSVNLA----NKRFVFHQEQVYCPDCA   74 (77)
T ss_dssp             CCSSCCTTCCCSCCCCCCSSSCCCCCCCS--SCCCEEEETTEEEETTTCBCSSSCCBCT----TSCCCEETTEECCHHHH
T ss_pred             CCCeEchhHhchhhCccCcccCCcccCCC--CCceeEEECcceeCcccCEehhcCCCCC----CCccEeECCEEEChHHh
Confidence            46899999999999999999999999610  0013788999999999999999999997    34699999999999999


Q ss_pred             hH
Q psy15692        264 AK  265 (278)
Q Consensus       264 ~~  265 (278)
                      .+
T Consensus        75 ~~   76 (77)
T 2egq_A           75 KK   76 (77)
T ss_dssp             HH
T ss_pred             cc
Confidence            65

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

Probab=99.71  E-value=3.5e-18  Score=122.90  Aligned_cols=78  Identities=27%  Similarity=0.500  Sum_probs=68.8

Q ss_pred             CCcccchhhhhcccCCCCcccCccccCCCCCCceeEEEcCCcccccCCcccCCCCCCCCCCcCCCceeecCCccccccch
Q psy15692        184 ANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCN  263 (278)
Q Consensus       184 ~~~~~C~~~y~~~~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~  263 (278)
                      +|++||+.||.++|+++|.+|+++|.+.+     .+|.++++.||++||+|..|+++|.    +..|+..++++||+.|+
T Consensus         1 ~g~~yC~~~y~~~~~~~C~~C~~~I~~~~-----~~~~a~~~~~H~~CF~C~~C~~~L~----~~~f~~~~~~~~C~~c~   71 (82)
T 2ehe_A            1 GSSGSSGPCYDNTFANTCAECQQLIGHDS-----RELFYEDRHFHEGCFRCCRCQRSLA----DEPFTCQDSELLCNDCY   71 (82)
T ss_dssp             CCCCCCCCCCCCCCSCBCTTTCCBCCSSC-----CBCCCSSCCCBTTTSBCTTTCCBCS----SCCEEEETTEEEETTTS
T ss_pred             CCceechhHhCcccCCcCccCCCccccCc-----EEEEeCCccccccCCeecCCCCccC----CCccEeeCCEEECHHHH
Confidence            47899999999999999999999998532     2677899999999999999999997    34699999999999999


Q ss_pred             hHhhhhc
Q psy15692        264 AKRVQAL  270 (278)
Q Consensus       264 ~~~~~~~  270 (278)
                      .+++...
T Consensus        72 ~~~~~~~   78 (82)
T 2ehe_A           72 CSAFSSG   78 (82)
T ss_dssp             SCCGGGS
T ss_pred             hhhcCCC
Confidence            8887654

>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=99.71  E-value=7.2e-18  Score=121.19  Aligned_cols=80  Identities=18%  Similarity=0.447  Sum_probs=71.0

Q ss_pred             CCcccchhhhhcccCCCCcccCccccCCCCCCceeEEEcCCcccccCCcccCCCCCCCCCCcCCCceeecCCccccccch
Q psy15692        184 ANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCN  263 (278)
Q Consensus       184 ~~~~~C~~~y~~~~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~  263 (278)
                      ++.+||+.||.++++++|.+|+++|.+.+     .+|.++++.||++||+|..|+++|..    ..|+..++++||+.||
T Consensus         1 ~~~~yC~~cy~~~~~~~C~~C~~~I~~~~-----~~~~a~~~~~H~~CF~C~~C~~~L~~----~~~~~~~~~~yC~~cy   71 (82)
T 1x63_A            1 GSSGSSGKCTTREDSPKCKGCFKAIVAGD-----QNVEYKGTVWHKDCFTCSNCKQVIGT----GSFFPKGEDFYCVTCH   71 (82)
T ss_dssp             CCSCCCCCCCSCCCSCBCSSSCCBCCSSS-----CEEECSSCEEETTTCCCSSSCCCCTT----SCEEEETTEEEEHHHH
T ss_pred             CCCcCchhHHccccCCcCccCCcccccCc-----eEEEECccccccccCchhhCCCccCC----CccEeeCCEEECHHHH
Confidence            36899999999999999999999998653     26889999999999999999999974    3699999999999999


Q ss_pred             hHhhhhccc
Q psy15692        264 AKRVQALTS  272 (278)
Q Consensus       264 ~~~~~~~~~  272 (278)
                      .+++....|
T Consensus        72 ~~~f~~~~~   80 (82)
T 1x63_A           72 ETKFASGPS   80 (82)
T ss_dssp             HHHTSCCCS
T ss_pred             HHHhCCCCC
Confidence            998877654

>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=99.70  E-value=8.1e-18  Score=120.35  Aligned_cols=76  Identities=25%  Similarity=0.551  Sum_probs=68.6

Q ss_pred             CCcccchhhhhcccCCCCcccCccccCCCCCCceeEEEcCCcccccCCcccCCCCCCCCCCcCCCceeecCCccccccch
Q psy15692        184 ANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCN  263 (278)
Q Consensus       184 ~~~~~C~~~y~~~~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~  263 (278)
                      +|++||+.||.++++++|.+|+++|.+.       .|.++++.||++||+|..|+++|..    ..|+..++++||+.|+
T Consensus         1 gg~~yC~~~y~~~~~~~C~~C~~~I~~~-------~v~a~~~~~H~~CF~C~~C~~~L~~----~~~~~~~~~~yC~~~y   69 (80)
T 1x3h_A            1 GSSGSSGKDFLAMFSPKCGGCNRPVLEN-------YLSAMDTVWHPECFVCGDCFTSFST----GSFFELDGRPFCELHY   69 (80)
T ss_dssp             CCCCCCCCCCCCCCSCBCTTTCCBCCSS-------CEEETTEEECTTTCBCSSSCCBSCS----SCCEESSSCEECHHHH
T ss_pred             CCCccchhHHhhhcCCccccCCCeecce-------eEEECCCeEecCcCChhhCCCCCCC----CcEEeECCEEECHHHH
Confidence            4789999999999999999999999863       5789999999999999999999974    3599999999999999


Q ss_pred             hHhhhhc
Q psy15692        264 AKRVQAL  270 (278)
Q Consensus       264 ~~~~~~~  270 (278)
                      .+++..+
T Consensus        70 ~~~f~~~   76 (80)
T 1x3h_A           70 HHRRGSG   76 (80)
T ss_dssp             HHHHSSS
T ss_pred             HHHcCCC
Confidence            9988654

>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=99.68  E-value=1.3e-17  Score=119.60  Aligned_cols=77  Identities=19%  Similarity=0.440  Sum_probs=67.4

Q ss_pred             CCcccchhhhhcccCCCCcccCccccCCCCCCceeEEEcCCcccccCCcccCCCCCCCCCCcCCCcee-ecCCccccccc
Q psy15692        184 ANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCY-PLDDHVLCKSC  262 (278)
Q Consensus       184 ~~~~~C~~~y~~~~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~-~~~~~~~C~~C  262 (278)
                      ++.+||+.||.++|+++|.+|+++|.+.       .|.++++.||++||+|..|+++|..   |..|+ ..++++||+.|
T Consensus         1 g~~~yC~~~y~~~~~~~C~~C~~~I~~~-------~~~a~~~~~H~~CF~C~~C~~~L~~---g~~f~~~~~~~~~C~~c   70 (81)
T 1x6a_A            1 GSSGSSGKDYWGKFGEFCHGCSLLMTGP-------FMVAGEFKYHPECFACMSCKVIIED---GDAYALVQHATLYCGKC   70 (81)
T ss_dssp             CCCCCCCCCSSCCSSCBCTTTCCBCCSC-------CBCCTTCCBCTTSCBCTTTCCBCCT---TSCEEECSSSCEEEHHH
T ss_pred             CCCccchhHHhhhcCCcCccCCCCcCce-------EEEECCceeccccCCccCCCCccCC---CCcEEEeeCCEEECHHH
Confidence            3679999999999999999999999832       5789999999999999999999974   44577 47999999999


Q ss_pred             hhHhhhhc
Q psy15692        263 NAKRVQAL  270 (278)
Q Consensus       263 ~~~~~~~~  270 (278)
                      +.+++...
T Consensus        71 ~~~~~~~~   78 (81)
T 1x6a_A           71 HNEVVSGP   78 (81)
T ss_dssp             HHHHHCTT
T ss_pred             HHHHhcCC
Confidence            99888654

>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=99.68  E-value=1.7e-17  Score=117.77  Aligned_cols=70  Identities=24%  Similarity=0.539  Sum_probs=64.1

Q ss_pred             CCeecccccccccc-cccccccccccc-----cceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhc
Q psy15692        125 EGHAYCEQGYLDTL-EKCSVCVKPILD-----RILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHK  195 (278)
Q Consensus       125 ~g~~yC~~~y~~~~-~~C~~C~~~I~~-----~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~  195 (278)
                      ++++||++||.+++ ++|.+|+++|.+     .+|.+.++.||++||+|..|+++|.+..|+. .++++||..||.+
T Consensus         1 g~~~yC~~cy~~~~~~~C~~C~~~I~~~g~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~-~~~~~yC~~cy~~   76 (77)
T 2egq_A            1 GSSGSSGDCYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVF-HQEQVYCPDCAKK   76 (77)
T ss_dssp             CCSSCCTTCCCSCCCCCCSSSCCCCCCCSSCCCEEEETTEEEETTTCBCSSSCCBCTTSCCCE-ETTEECCHHHHHH
T ss_pred             CCCeEchhHhchhhCccCcccCCcccCCCCCceeEEECcceeCcccCEehhcCCCCCCCccEe-ECCEEEChHHhcc
Confidence            47899999999988 899999999996     7899999999999999999999999877765 6899999999965

>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=99.64  E-value=9.3e-17  Score=115.09  Aligned_cols=75  Identities=16%  Similarity=0.344  Sum_probs=65.7

Q ss_pred             CCcccchhhhhcccCCCCcccCccccCCCCCCceeEEEcCCcccccCCcccCCCCCCCCCCcCCCceeec-CCccccccc
Q psy15692        184 ANQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPL-DDHVLCKSC  262 (278)
Q Consensus       184 ~~~~~C~~~y~~~~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~~-~~~~~C~~C  262 (278)
                      +|++||+.||. +++++|.+|+++|.+.       +|.++++.||++||+|..|+++|.+    ..|+.. ++++||+.|
T Consensus         2 ~g~~yC~~~y~-~~~~~C~~C~~~I~~~-------~~~a~~~~~H~~CF~C~~C~~~L~~----~~f~~~~~g~~yC~~c   69 (81)
T 2dlo_A            2 SSGSSGEGCYV-ATLEKCATCSQPILDR-------ILRAMGKAYHPGCFTCVVCHRGLDG----IPFTVDATSQIHCIED   69 (81)
T ss_dssp             CCCCCCCCCCC-SSCCBCTTTCCBCCSC-------CEEETTEEECTTTCBCSSSCCBCTT----SCEECCTTCCCEEHHH
T ss_pred             cCCEECHHHhh-cCCCccccCCCeecce-------eEEECCccccHHhcCcccCCCccCC----CeeEECCCCEEECHHH
Confidence            68999999998 7999999999999842       6789999999999999999999973    357765 689999999


Q ss_pred             hhHhhhhc
Q psy15692        263 NAKRVQAL  270 (278)
Q Consensus       263 ~~~~~~~~  270 (278)
                      |.+++...
T Consensus        70 y~~~f~~~   77 (81)
T 2dlo_A           70 FHRKFASG   77 (81)
T ss_dssp             HHHHTTSS
T ss_pred             HHHHhcCc
Confidence            99887654

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

Probab=99.63  E-value=1.8e-16  Score=112.25  Aligned_cols=70  Identities=21%  Similarity=0.456  Sum_probs=64.1

Q ss_pred             ccccccccccc-ccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccch-hhhhcccCCCCcccCcccc
Q psy15692        139 EKCSVCVKPIL-DRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCI-QDFHKKFAPRCCVCRAPIM  209 (278)
Q Consensus       139 ~~C~~C~~~I~-~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~-~~y~~~~~~~C~~C~~~I~  209 (278)
                      |+|..|+++|. ++.|.+.++.||++||+|..|+++|.+..|+. .+|++||. .||.++|+++|.+|++.+.
T Consensus         1 p~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~-~~g~~yC~~~cy~~~f~~~C~~C~~~~~   72 (76)
T 1iml_A            1 PKCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAE-HEGKPYCNHPCYSAMFGPKGFGRGGAES   72 (76)
T ss_dssp             CBCTTTSSBCCGGGEEEETTEEEETTTCBCTTTCCBCCTTTEEE-ETTEEEETTTHHHHHSSCCCSSCCCSSS
T ss_pred             CcCCCCCCEEECceEEEECCccccCCCCCccccCccCCCCceEC-cCCeEeeCHHHHHHHhCccCCCcCCcee
Confidence            68999999998 78899999999999999999999999877765 78999999 6999999999999998765

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

Probab=99.62  E-value=1.6e-16  Score=112.49  Aligned_cols=70  Identities=23%  Similarity=0.423  Sum_probs=63.4

Q ss_pred             cccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeeccc-ccccccc-ccccccccccc
Q psy15692         79 GECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCE-QGYLDTL-EKCSVCVKPIL  149 (278)
Q Consensus        79 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~-~~y~~~~-~~C~~C~~~I~  149 (278)
                      +.|++|+++|...+. |.++|+.||++||+|..|+.+|.+..|+..+|++||+ .||.+++ ++|.+|++.+.
T Consensus         1 p~C~~C~~~I~~~~~-v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~~~C~~C~~~~~   72 (76)
T 1iml_A            1 PKCPKCDKEVYFAER-VTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGFGRGGAES   72 (76)
T ss_dssp             CBCTTTSSBCCGGGE-EEETTEEEETTTCBCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCCCSSCCCSSS
T ss_pred             CcCCCCCCEEECceE-EEECCccccCCCCCccccCccCCCCceECcCCeEeeCHHHHHHHhCccCCCcCCcee
Confidence            369999999996665 7999999999999999999999988999999999999 6999888 89999997654

>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=6.9e-16  Score=109.19  Aligned_cols=68  Identities=24%  Similarity=0.478  Sum_probs=60.7

Q ss_pred             ccccccCCCeeeC--CcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc-ccccccc
Q psy15692         78 FGECCKCGERILG--EGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-EKCSVCV  145 (278)
Q Consensus        78 ~~~C~~C~~~I~~--~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~-~~C~~C~  145 (278)
                      ...|++|+++|.+  ....|.++++.||++||+|..|+.+|.+..|+.+++++||+.||.+++ ++|+.+.
T Consensus         5 ~~~C~~C~~~I~~~g~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~C~~~s   75 (76)
T 1x68_A            5 SSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCGSGMDTDISGPSS   75 (76)
T ss_dssp             CCCCTTTCCCCCTTTTCCEEEETTEEEEGGGCBCTTTCCBCSSSCEEEETTEEEETTTTCCCCCCSSSSSC
T ss_pred             CCCCccCCCcccCCCCceeEEECCcccCcccCChhhCCCcCCCCceEeECCEEECHHHhhhhhCCcCCCCC
Confidence            4579999999996  333479999999999999999999999889999999999999999988 8898764

>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=99.61  E-value=4.5e-16  Score=111.52  Aligned_cols=73  Identities=21%  Similarity=0.382  Sum_probs=62.1

Q ss_pred             Ceecccccccccc-cccccccccccccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccC
Q psy15692        126 GHAYCEQGYLDTL-EKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFA  198 (278)
Q Consensus       126 g~~yC~~~y~~~~-~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~  198 (278)
                      +.+||+.||.+++ ++|..|+++|.+++|.++++.||++||+|..|+++|....++...++.+||..||.+++.
T Consensus         2 ~~~yC~~dy~~~~~~~C~~C~~~I~~~~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~~~~C~~C~~~~~~   75 (81)
T 1v6g_A            2 SSGSSGLDYQRLYGTRCFSCDQFIEGEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCSLPVSV   75 (81)
T ss_dssp             CCCCCCSCGGGSCCCBCTTTCCBCCSCCEEETTEEECTTTSSCSSSCCCCCSSSCEEEETTEEEEHHHHSCCSS
T ss_pred             CCCcchHHHHhHhCCcCccccCEeccceEEECCceeCccCCccccCCCCCCCCCEEEeCCCCEEChhhhcccCC
Confidence            5789999999998 899999999999999999999999999999999999844443324445799999876553

>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=99.60  E-value=3.6e-16  Score=110.65  Aligned_cols=66  Identities=24%  Similarity=0.445  Sum_probs=61.7

Q ss_pred             cccccccccccc----cceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCcccC
Q psy15692        139 EKCSVCVKPILD----RILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCR  205 (278)
Q Consensus       139 ~~C~~C~~~I~~----~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~C~  205 (278)
                      ++|..|+++|.+    ++|.++++.||++||+|..|+++|.+..|+. .++++||..||.++|+++|..+.
T Consensus         6 ~~C~~C~~~I~~~g~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~-~~g~~yC~~cy~~~f~~~C~~~s   75 (76)
T 1x68_A            6 SGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLT-QNKEIFCQKCGSGMDTDISGPSS   75 (76)
T ss_dssp             CCCTTTCCCCCTTTTCCEEEETTEEEEGGGCBCTTTCCBCSSSCEEE-ETTEEEETTTTCCCCCCSSSSSC
T ss_pred             CCCccCCCcccCCCCceeEEECCcccCcccCChhhCCCcCCCCceEe-ECCEEECHHHhhhhhCCcCCCCC
Confidence            799999999997    8899999999999999999999999887876 78999999999999999999875

>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=99.60  E-value=3.6e-16  Score=112.03  Aligned_cols=74  Identities=20%  Similarity=0.517  Sum_probs=62.6

Q ss_pred             CcccchhhhhcccCCCCcccCccccCCCCCCceeEEEcCCcccccCCcccCCCCCCCCCCcCCCceeecCC-ccccccch
Q psy15692        185 NQIHCIQDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDD-HVLCKSCN  263 (278)
Q Consensus       185 ~~~~C~~~y~~~~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~~~~-~~~C~~C~  263 (278)
                      +.+||..||.++|+++|.+|+++|.+.       .|.++++.||++||+|..|+++|..+    .++..++ .+||+.|+
T Consensus         2 ~~~yC~~dy~~~~~~~C~~C~~~I~~~-------~v~a~~~~wH~~CF~C~~C~~~L~~~----~~~~~~~~~~~C~~C~   70 (81)
T 1v6g_A            2 SSGSSGLDYQRLYGTRCFSCDQFIEGE-------VVSALGKTYHPDCFVCAVCRLPFPPG----DRVTFNGKECMCQKCS   70 (81)
T ss_dssp             CCCCCCSCGGGSCCCBCTTTCCBCCSC-------CEEETTEEECTTTSSCSSSCCCCCSS----SCEEEETTEEEEHHHH
T ss_pred             CCCcchHHHHhHhCCcCccccCEeccc-------eEEECCceeCccCCccccCCCCCCCC----CEEEeCCCCEEChhhh
Confidence            468999999999999999999999843       67899999999999999999999742    3555555 57999999


Q ss_pred             hHhhhh
Q psy15692        264 AKRVQA  269 (278)
Q Consensus       264 ~~~~~~  269 (278)
                      .+.+..
T Consensus        71 ~~~~~~   76 (81)
T 1v6g_A           71 LPVSVS   76 (81)
T ss_dssp             SCCSSC
T ss_pred             cccCCC
Confidence            776654

>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=2.1e-16  Score=113.19  Aligned_cols=71  Identities=20%  Similarity=0.407  Sum_probs=55.4

Q ss_pred             CccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc-cccccccccc
Q psy15692         77 LFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-EKCSVCVKPI  148 (278)
Q Consensus        77 ~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~-~~C~~C~~~I  148 (278)
                      ....|.+|+++|...+. +.++++.||++||+|..|+++|....|+.+++++||+.||.+++ ++|.+|++..
T Consensus         6 ~~~~C~~C~~~I~~~~~-~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~gcg~g~   77 (81)
T 1a7i_A            6 GGNKCGACGRTVYHAEE-VQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYGPKGYGYGQGA   77 (81)
T ss_dssp             --CBCSSSCCBCSSTTE-EEETTEEEESSSEECSSSCCEECSSCCEEETTEEECSHHHHHHCC----------
T ss_pred             CCCcCcCcCccccCcee-EEeCCcccccccCccCCCCCCCCCCCeEeeCCEEECHHHHHHHhCCcccccCCcc
Confidence            34679999999987675 79999999999999999999999888999999999999999988 8999998754

>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=99.59  E-value=7.3e-16  Score=110.20  Aligned_cols=65  Identities=35%  Similarity=0.690  Sum_probs=58.3

Q ss_pred             CCccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc-cccc
Q psy15692         76 DLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-EKCS  142 (278)
Q Consensus        76 ~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~-~~C~  142 (278)
                      .....|.+|+++|...+. |.++++.||++||+|..|+.+|.+ .|+.+++++||+.||.++| ++|+
T Consensus        13 ~~~~~C~~C~~~I~~~~~-v~a~~~~wH~~CF~C~~C~~~L~~-~~~~~~g~~yC~~~y~~~fg~~C~   78 (80)
T 2dj7_A           13 RGPSHCAGCKEEIKHGQS-LLALDKQWHVSCFKCQTCSVILTG-EYISKDGVPYCESDYHAQFGSGPS   78 (80)
T ss_dssp             SSCSCCTTTCCCCSSSCC-EEETTEEECTTTCBCSSSCCBCSS-CCEEETTEEECTTHHHHHTTCCST
T ss_pred             CCCCCCcCcCCeeCCCeE-EEECCcccccccCCcCcCCCCcCC-CeEEECCEEECHHHHHHHcCCCCC
Confidence            345689999999996665 799999999999999999999986 6999999999999999988 7886

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

Probab=99.59  E-value=9.2e-16  Score=112.14  Aligned_cols=70  Identities=24%  Similarity=0.414  Sum_probs=62.5

Q ss_pred             cccccc-cccccccccccccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCcc
Q psy15692        133 GYLDTL-EKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCV  203 (278)
Q Consensus       133 ~y~~~~-~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~  203 (278)
                      .+...+ ++|..|+++|.+++|.+.++.||++||+|..|+++|.+..|+. .++++||..||.++|+++|..
T Consensus        19 ~~~~~~~~~C~~C~~~I~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~f~~-~~g~~yC~~cy~~~f~~~c~s   89 (90)
T 2dar_A           19 IPAGKRTPMCAHCNQVIRGPFLVALGKSWHPEEFNCAHCKNTMAYIGFVE-EKGALYCELCYEKFFASGPSS   89 (90)
T ss_dssp             ECTTTCCCBBSSSCCBCCSCEEEETTEEECTTTCBCSSSCCBCSSSCBEE-SSSCEECHHHHHHHTSCCCCC
T ss_pred             CCCCCCCCCCccCCCEecceEEEECCccccccCCccCCCCCCCCCCEeEe-ECCEEECHHHHHHHcCCCCCC
Confidence            344444 8999999999999999999999999999999999999877765 789999999999999999964

>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=7e-16  Score=107.02  Aligned_cols=64  Identities=28%  Similarity=0.610  Sum_probs=59.9

Q ss_pred             cccccccccccccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCcc
Q psy15692        139 EKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCV  203 (278)
Q Consensus       139 ~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~  203 (278)
                      ++|..|+++|.++.|.+.++.||++||+|..|+++|.+..|+. .++++||..||.++|+++|.+
T Consensus         6 ~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~-~~~~~yC~~cy~~~f~~~C~g   69 (69)
T 2cur_A            6 SGCVKCNKAITSGGITYQDQPWHADCFVCVTCSKKLAGQRFTA-VEDQYYCVDCYKNFVSGPSSG   69 (69)
T ss_dssp             CCCSSSCCCCCTTCEEETTEEECTTTTBCTTTCCBCTTSCEEE-CSSCEEEHHHHHHHHTCSCCC
T ss_pred             CCCcccCCEeCcceEEECccccccCcCEECCCCCCCCCCccEe-ECCEEECHHHhHHHhcCCCCC
Confidence            7899999999998999999999999999999999999877875 789999999999999999974

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

Probab=99.59  E-value=2.9e-16  Score=114.85  Aligned_cols=65  Identities=28%  Similarity=0.452  Sum_probs=58.3

Q ss_pred             CCccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc-cccc
Q psy15692         76 DLFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-EKCS  142 (278)
Q Consensus        76 ~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~-~~C~  142 (278)
                      ....+|++|+++|.++.  |.++|+.||++||+|..|+++|.+..|+.+++++||+.||.+++ ++|+
T Consensus        23 ~~~~~C~~C~~~I~~~~--v~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~c~   88 (90)
T 2dar_A           23 KRTPMCAHCNQVIRGPF--LVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFFASGPS   88 (90)
T ss_dssp             TCCCBBSSSCCBCCSCE--EEETTEEECTTTCBCSSSCCBCSSSCBEESSSCEECHHHHHHHTSCCCC
T ss_pred             CCCCCCccCCCEecceE--EEECCccccccCCccCCCCCCCCCCEeEeECCEEECHHHHHHHcCCCCC
Confidence            34568999999997543  68999999999999999999999888999999999999999888 7886

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

Probab=99.58  E-value=6.1e-16  Score=108.23  Aligned_cols=68  Identities=43%  Similarity=0.961  Sum_probs=60.3

Q ss_pred             CccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccccccccc
Q psy15692         77 LFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVC  144 (278)
Q Consensus        77 ~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~~~C~~C  144 (278)
                      ....|.+|+++|.+.+..+.++++.||++||+|..|+.+|.+..|+.+++++||+.||.+++.+|..+
T Consensus         4 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~~~~~~~~   71 (72)
T 1x61_A            4 GSSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVATLESGPSS   71 (72)
T ss_dssp             CCCCCSSSCSCCCSSSCCEECSSSEECTTTCBCSSSCCBCTTSCEEESSSCEEEHHHHHHHHHTCSSC
T ss_pred             CCCCCccCCCccCCCceEEEECCCeEcccCCcccccCCcCCcCcCEeeCCeEECHHHHHHHHccCCCC
Confidence            34679999999997544479999999999999999999998888999999999999999988777654

>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=1e-15  Score=106.49  Aligned_cols=64  Identities=30%  Similarity=0.622  Sum_probs=59.7

Q ss_pred             cccccccccccccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCcc
Q psy15692        139 EKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCV  203 (278)
Q Consensus       139 ~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~  203 (278)
                      ++|..|+++|.++.|.+.++.||++||+|..|+++|.+..|.. .++++||..||.++|+++|.+
T Consensus         6 ~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~-~~~~~yC~~cy~~~f~~~c~~   69 (70)
T 2d8z_A            6 SGCVQCKKPITTGGVTYREQPWHKECFVCTACRKQLSGQRFTA-RDDFAYCLNCFCDLYASGPSS   69 (70)
T ss_dssp             CBCSSSCCBCCSSEEESSSSEEETTTSBCSSSCCBCTTSCCEE-SSSSEECHHHHHHHTCCCCTT
T ss_pred             CCCcccCCeeccceEEECccccCCCCCccCCCCCcCCcCceEe-eCCeEECHHHHHHHhccccCC
Confidence            7899999999988899999999999999999999999877875 689999999999999999974

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

Probab=99.56  E-value=1.6e-15  Score=106.04  Aligned_cols=65  Identities=25%  Similarity=0.546  Sum_probs=58.5

Q ss_pred             ccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc-cccc
Q psy15692         78 FGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-EKCS  142 (278)
Q Consensus        78 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~-~~C~  142 (278)
                      ...|.+|+++|...+..+.++|+.||++||+|..|+.+|.+..|+..++++||+.||.+++ ++|+
T Consensus         5 ~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~   70 (72)
T 1wyh_A            5 SSGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFASGPS   70 (72)
T ss_dssp             CCBCSSSCCBCCSSSCEECSTTCCEETTTCBCTTTCCBTTTSCEEEETTEEEEHHHHHHHTSCCCC
T ss_pred             CCCCccCCCccccCccEEEECccccCcccCeECCCCCcCCCCccCCcCCeEECHHHHHHHccCcCC
Confidence            4579999999997533479999999999999999999999888999999999999999888 7885

>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=99.56  E-value=2.4e-15  Score=106.34  Aligned_cols=64  Identities=20%  Similarity=0.490  Sum_probs=58.4

Q ss_pred             ccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeeccc-ccccccc-cccc
Q psy15692         78 FGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCE-QGYLDTL-EKCS  142 (278)
Q Consensus        78 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~-~~y~~~~-~~C~  142 (278)
                      ...|++|+++|...+. |.++++.||++||+|..|+.+|.+..|+.+++++||+ .||.+++ ++|.
T Consensus         9 ~~~C~~C~~~I~~~~~-v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~~kc~   74 (76)
T 2cu8_A            9 ASKCPKCDKTVYFAEK-VSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFGSGPS   74 (76)
T ss_dssp             CCBCTTTCCBCCTTTE-EEETTEEEETTTCBCSSSCCBCCTTSCEEETTEEECTTTHHHHHSCSSCS
T ss_pred             CCCCcCCCCEeECCeE-EEECCeEeeCCCCCCCCCCCccCCCceEeECCEEecchHHHHHhcccccC
Confidence            4579999999997665 7899999999999999999999988899999999999 7999888 7775

>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=99.56  E-value=1.7e-15  Score=105.86  Aligned_cols=65  Identities=20%  Similarity=0.454  Sum_probs=58.9

Q ss_pred             ccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc-cccc
Q psy15692         78 FGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-EKCS  142 (278)
Q Consensus        78 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~-~~C~  142 (278)
                      ...|.+|+++|.+.+..+.++|+.||++||+|..|+++|.+..|+.+++++||+.||.+++ ++|+
T Consensus         5 ~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~   70 (72)
T 1x4k_A            5 SSGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQHASGPS   70 (72)
T ss_dssp             CCCBSSSCCCCCSSSCEEEETTEEEETTTTCCSSSCCCCCSSSEEEETTEEEEHHHHHHHTSSCCC
T ss_pred             CCCCccCCCcccCCceEEEECcCeecccCCcccccCCccCCCccCccCCeEECHHHHhHHhCCCCC
Confidence            4579999999997654589999999999999999999999889999999999999999887 7775

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

Probab=99.56  E-value=1.2e-15  Score=108.08  Aligned_cols=66  Identities=24%  Similarity=0.528  Sum_probs=57.5

Q ss_pred             CccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc-cccc
Q psy15692         77 LFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-EKCS  142 (278)
Q Consensus        77 ~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~-~~C~  142 (278)
                      ....|++|+++|...+..+.++|+.||++||+|..|+.+|.+..|+.++|++||+.||.+++ ++|+
T Consensus        10 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~~C~   76 (77)
T 1g47_A           10 ASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAPCWI   76 (77)
T ss_dssp             CCCBCSSSCCBCCSTTTCEEETTEEECTTTCCCTTTCCCCGGGCSEEETTEEECHHHHHHHCCCC--
T ss_pred             CCCCchhcCCccCCCceEEEeCccEeccccCeECCCCCCCCCCCeEeECCeEeCHHHHHHHhhcccC
Confidence            45689999999996554478999999999999999999999888999999999999999887 7775

>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=99.56  E-value=9.3e-16  Score=109.83  Aligned_cols=69  Identities=26%  Similarity=0.668  Sum_probs=54.5

Q ss_pred             ccccccccccc-ccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCcccCccc
Q psy15692        139 EKCSVCVKPIL-DRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPI  208 (278)
Q Consensus       139 ~~C~~C~~~I~-~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~C~~~I  208 (278)
                      ++|..|+++|. +..|.+.++.||++||+|..|+++|.+..|.. .++++||..||.++|+++|.+|++..
T Consensus         8 ~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~-~~~~~yC~~cy~~~f~~~c~gcg~g~   77 (81)
T 1a7i_A            8 NKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAI-HDAEVYCKSCYGKKYGPKGYGYGQGA   77 (81)
T ss_dssp             CBCSSSCCBCSSTTEEEETTEEEESSSEECSSSCCEECSSCCEE-ETTEEECSHHHHHHCC----------
T ss_pred             CcCcCcCccccCceeEEeCCcccccccCccCCCCCCCCCCCeEe-eCCEEECHHHHHHHhCCcccccCCcc
Confidence            78999999996 67899999999999999999999999777765 68999999999999999999998764

>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=3.9e-15  Score=108.54  Aligned_cols=63  Identities=35%  Similarity=0.709  Sum_probs=56.4

Q ss_pred             ccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc-cccc
Q psy15692         78 FGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-EKCS  142 (278)
Q Consensus        78 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~-~~C~  142 (278)
                      ...|.+|+++|.+..  +.++++.||++||+|..|+.+|.+..|+.+++++||+.||.+++ +++.
T Consensus        25 ~~~C~~C~~~I~~~~--~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~p~~~   88 (89)
T 1x64_A           25 MPLCDKCGSGIVGAV--VKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETHARARTSGPSS   88 (89)
T ss_dssp             CCBCTTTCCBCCSCC--EESSSCEECTTTCCCSSSCCCTTTSCCEEETTEEECHHHHHHHSSSCCC
T ss_pred             CCCcccCCCEecccE--EEECCceECccCCEecCCCCCCCCCCeEeECCEEECHHHHHHHhCCCCC
Confidence            457999999999743  68999999999999999999999888999999999999999887 6654

>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=2.5e-15  Score=105.11  Aligned_cols=65  Identities=22%  Similarity=0.460  Sum_probs=56.7

Q ss_pred             CccccccCCCeeeC--CcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc-ccc
Q psy15692         77 LFGECCKCGERILG--EGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-EKC  141 (278)
Q Consensus        77 ~~~~C~~C~~~I~~--~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~-~~C  141 (278)
                      ....|++|+++|.+  ++..+.++++.||++||+|..|+.+|.+..|+.+++++||+.||.+++ |++
T Consensus         4 ~~~~C~~C~~~I~~~~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~p~~   71 (72)
T 1x4l_A            4 GSSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGKDISGPSS   71 (72)
T ss_dssp             CSCSBTTTTBCCCCSSSCSCEECSSCEECTTTCBCSSSCCBCTTSCCEECSSSEECHHHHHTCCCSSC
T ss_pred             CCCCCcCCCccccCCCCcceEEECCcccCcccCEeccCCCcCCCCccEeECCEEEChhHcCcccCCCC
Confidence            34679999999996  333479999999999999999999999889999999999999998876 443

>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=99.54  E-value=1.9e-15  Score=104.86  Aligned_cols=65  Identities=29%  Similarity=0.598  Sum_probs=58.1

Q ss_pred             CccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc-ccccc
Q psy15692         77 LFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-EKCSV  143 (278)
Q Consensus        77 ~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~-~~C~~  143 (278)
                      ....|.+|+++|.++ . |.++++.||++||+|..|+.+|.+..|+..++++||+.||.+++ ++|++
T Consensus         4 ~~~~C~~C~~~I~~~-~-~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~g   69 (69)
T 2cur_A            4 GSSGCVKCNKAITSG-G-ITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFVSGPSSG   69 (69)
T ss_dssp             CCCCCSSSCCCCCTT-C-EEETTEEECTTTTBCTTTCCBCTTSCEEECSSCEEEHHHHHHHHTCSCCC
T ss_pred             CcCCCcccCCEeCcc-e-EEECccccccCcCEECCCCCCCCCCccEeECCEEECHHHhHHHhcCCCCC
Confidence            345799999999875 3 69999999999999999999999889999999999999999887 78863

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

Probab=99.54  E-value=2.6e-15  Score=104.93  Aligned_cols=64  Identities=27%  Similarity=0.598  Sum_probs=59.1

Q ss_pred             ccccccccccc--ccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCcc
Q psy15692        139 EKCSVCVKPIL--DRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCV  203 (278)
Q Consensus       139 ~~C~~C~~~I~--~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~  203 (278)
                      ++|..|+++|.  +.+|.+.++.||++||+|..|+++|.+..|+. .++++||..||.++|+++|+.
T Consensus         6 ~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~-~~~~~yC~~cy~~~f~~~C~~   71 (72)
T 1wyh_A            6 SGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVP-DKGAHYCVPCYENKFASGPSS   71 (72)
T ss_dssp             CBCSSSCCBCCSSSCEECSTTCCEETTTCBCTTTCCBTTTSCEEE-ETTEEEEHHHHHHHTSCCCCC
T ss_pred             CCCccCCCccccCccEEEECccccCcccCeECCCCCcCCCCccCC-cCCeEECHHHHHHHccCcCCC
Confidence            79999999998  67899999999999999999999999877765 689999999999999999974

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

Probab=99.54  E-value=3.1e-15  Score=104.57  Aligned_cols=64  Identities=27%  Similarity=0.594  Sum_probs=58.8

Q ss_pred             ccccccccccc--ccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCcc
Q psy15692        139 EKCSVCVKPIL--DRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCV  203 (278)
Q Consensus       139 ~~C~~C~~~I~--~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~  203 (278)
                      ++|..|+++|.  +.+|.+.++.||++||+|..|+++|.+..|+. .++++||..||.++|+++|..
T Consensus         6 ~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~-~~~~~yC~~cy~~~f~~~C~~   71 (72)
T 1x4k_A            6 SGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIP-KDNQNFCVPCYEKQHASGPSS   71 (72)
T ss_dssp             CCBSSSCCCCCSSSCEEEETTEEEETTTTCCSSSCCCCCSSSEEE-ETTEEEEHHHHHHHTSSCCCC
T ss_pred             CCCccCCCcccCCceEEEECcCeecccCCcccccCCccCCCccCc-cCCeEECHHHHhHHhCCCCCC
Confidence            78999999998  46899999999999999999999999877765 789999999999999999964

>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=99.54  E-value=5.1e-15  Score=103.49  Aligned_cols=63  Identities=27%  Similarity=0.539  Sum_probs=58.0

Q ss_pred             cccccccccccc----cceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCc
Q psy15692        139 EKCSVCVKPILD----RILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCC  202 (278)
Q Consensus       139 ~~C~~C~~~I~~----~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~  202 (278)
                      ++|..|+++|.+    .+|.++++.||++||+|..|+++|.+..|.. .++++||..||.++|++++.
T Consensus         6 ~~C~~C~~~I~~~~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~-~~g~~yC~~c~~~~~~p~~g   72 (72)
T 1x4l_A            6 SGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLT-ERDDILCPDCGKDISGPSSG   72 (72)
T ss_dssp             CSBTTTTBCCCCSSSCSCEECSSCEECTTTCBCSSSCCBCTTSCCEE-CSSSEECHHHHHTCCCSSCC
T ss_pred             CCCcCCCccccCCCCcceEEECCcccCcccCEeccCCCcCCCCccEe-ECCEEEChhHcCcccCCCCC
Confidence            789999999986    7899999999999999999999999888875 78999999999999999863

>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=99.54  E-value=2.1e-15  Score=104.85  Aligned_cols=64  Identities=30%  Similarity=0.587  Sum_probs=57.8

Q ss_pred             CccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc-cccc
Q psy15692         77 LFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-EKCS  142 (278)
Q Consensus        77 ~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~-~~C~  142 (278)
                      ....|.+|+++|.++.  +.++++.||++||+|..|+++|.+..|+.+++++||+.||.+++ ++|+
T Consensus         4 ~~~~C~~C~~~I~~~~--~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~   68 (70)
T 2d8z_A            4 GSSGCVQCKKPITTGG--VTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLYASGPS   68 (70)
T ss_dssp             CCCBCSSSCCBCCSSE--EESSSSEEETTTSBCSSSCCBCTTSCCEESSSSEECHHHHHHHTCCCCT
T ss_pred             CCCCCcccCCeeccce--EEECccccCCCCCccCCCCCcCCcCceEeeCCeEECHHHHHHHhccccC
Confidence            3467999999998653  69999999999999999999999889999999999999999888 7875

>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=99.53  E-value=6.5e-15  Score=103.33  Aligned_cols=69  Identities=17%  Similarity=0.379  Sum_probs=59.6

Q ss_pred             cccCCCCcccCccccCCCCCCceeEEEcCCcccccCCcccCCCCCCCCCCcCCCceeecCCccccccchhHhhhhcccC
Q psy15692        195 KKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALTST  273 (278)
Q Consensus       195 ~~~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~~~~~~~~~~~  273 (278)
                      .+|+++|.+|+++|.+.       +|.++++.||++||+|..|+++|..   |..|+..++++||..|+.+...+...+
T Consensus         2 s~~~~~C~~C~~~I~~~-------~v~a~~~~wH~~CF~C~~C~~~L~~---~~~f~~~~~~~yC~~C~~~~~~~~~~r   70 (73)
T 1wig_A            2 SSGSSGCDSCEKYITGR-------VLEAGEKHYHPSCALCVRCGQMFAE---GEEMYLQGSSIWHPACRQAARTEDSGP   70 (73)
T ss_dssp             CCSCCSCSSSCCCCSSC-------CBCCSSCCBCTTTSCCSSSCCCCCS---SCCCEEETTEEECTTHHHHTSSSSCCS
T ss_pred             CcCcCCcccCCCEecCe-------eEEeCCCCCCCCcCEeCCCCCCCCC---CCeeEeeCCEEEChHHChHhhcccccC
Confidence            36789999999999863       5789999999999999999999973   456999999999999999887765544

>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=99.53  E-value=9.5e-15  Score=112.89  Aligned_cols=61  Identities=30%  Similarity=0.674  Sum_probs=54.9

Q ss_pred             CccccccCCCeeeCCcceeeeCCcccccccccccccCcccC--CCCeEeeCCeecccccccccc
Q psy15692         77 LFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLE--GKPFYIIEGHAYCEQGYLDTL  138 (278)
Q Consensus        77 ~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~--~~~f~~~~g~~yC~~~y~~~~  138 (278)
                      ....|++|+++|.+.++ +.++|+.||++||+|..|+.+|.  +..||.++|++||+.||.++|
T Consensus        60 ~~~~C~~C~~~I~~~~~-v~a~~~~wH~~CF~C~~C~~~L~~~g~~f~~~dg~~yC~~cy~~~F  122 (123)
T 2l4z_A           60 SWKRCAGCGGKIADRFL-LYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLF  122 (123)
T ss_dssp             SCSBBSSSSSBCCSSSE-EEETTEEEETTTSBCTTTCCBGGGTTCCCBCSSSCCBCHHHHHHHC
T ss_pred             cCCcCcCCCCCcCCcEE-EEeCCcEEcccccCcCcCCCcccccCCceEEECCEEeCHHHhhhhc
Confidence            45689999999998764 79999999999999999999996  468999999999999998765

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

Probab=99.52  E-value=3.6e-15  Score=102.44  Aligned_cols=61  Identities=25%  Similarity=0.556  Sum_probs=56.7

Q ss_pred             cccccccccccccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCC
Q psy15692        139 EKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPR  200 (278)
Q Consensus       139 ~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~  200 (278)
                      ++|.+|+++|.+++|.+.++.||++||+|..|+++|.+..|+. .+|++||..||.++|+++
T Consensus         6 ~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~-~~g~~yC~~~y~~~f~~k   66 (66)
T 1nyp_A            6 PICGACRRPIEGRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYE-RKGLAYCETHYNQLFGDV   66 (66)
T ss_dssp             CEETTTTEECCSCEECCTTSBEETTTCBCTTTCCBCSSSCCEE-ETTEEECHHHHHHHCSCC
T ss_pred             CCCcccCCEecceEEEECccccccCcCEECCCCCCCCCCceEe-ECCcEECHHHHHHHhCCC
Confidence            7899999999999999999999999999999999999877765 789999999999999875

>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=99.52  E-value=5.3e-15  Score=104.55  Aligned_cols=64  Identities=20%  Similarity=0.447  Sum_probs=58.8

Q ss_pred             ccccccccccc-ccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccch-hhhhcccCCCCcc
Q psy15692        139 EKCSVCVKPIL-DRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCI-QDFHKKFAPRCCV  203 (278)
Q Consensus       139 ~~C~~C~~~I~-~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~-~~y~~~~~~~C~~  203 (278)
                      ++|..|+++|. ++.|.+.++.||++||+|..|+++|.+..|+. .++++||. .||.++|+++|.+
T Consensus        10 ~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~-~~g~~yC~~~cy~~~f~~kc~g   75 (76)
T 2cu8_A           10 SKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAE-HDGKPFCHKPCYATLFGSGPSS   75 (76)
T ss_dssp             CBCTTTCCBCCTTTEEEETTEEEETTTCBCSSSCCBCCTTSCEE-ETTEEECTTTHHHHHSCSSCSC
T ss_pred             CCCcCCCCEeECCeEEEECCeEeeCCCCCCCCCCCccCCCceEe-ECCEEecchHHHHHhcccccCC
Confidence            79999999998 67899999999999999999999999877765 68999999 7999999999974

>2dj7_A Actin-binding LIM protein 3; LIM domain, Zn binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.52  E-value=8e-15  Score=104.73  Aligned_cols=63  Identities=25%  Similarity=0.571  Sum_probs=57.1

Q ss_pred             ccccccccccc-ccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCcc
Q psy15692        139 EKCSVCVKPIL-DRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCV  203 (278)
Q Consensus       139 ~~C~~C~~~I~-~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~  203 (278)
                      ++|..|+++|. +++|.++++.||++||+|..|+++|.+. |+. .++++||..||.++|+++|.+
T Consensus        16 ~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~~-~~~-~~g~~yC~~~y~~~fg~~C~~   79 (80)
T 2dj7_A           16 SHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTGE-YIS-KDGVPYCESDYHAQFGSGPSS   79 (80)
T ss_dssp             SCCTTTCCCCSSSCCEEETTEEECTTTCBCSSSCCBCSSC-CEE-ETTEEECTTHHHHHTTCCSTT
T ss_pred             CCCcCcCCeeCCCeEEEECCcccccccCCcCcCCCCcCCC-eEE-ECCEEECHHHHHHHcCCCCCC
Confidence            68999999997 6789999999999999999999999974 543 689999999999999999974

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

Probab=99.51  E-value=7.4e-15  Score=107.06  Aligned_cols=64  Identities=19%  Similarity=0.457  Sum_probs=58.6

Q ss_pred             cccccccccccccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCcc
Q psy15692        139 EKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCV  203 (278)
Q Consensus       139 ~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~  203 (278)
                      ++|..|++.|.+++|.+.++.||++||+|..|+++|.+..|+. .++++||..||.++|++++.+
T Consensus        26 ~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~-~~g~~yC~~~y~~~f~p~~~g   89 (89)
T 1x64_A           26 PLCDKCGSGIVGAVVKARDKYRHPECFVCADCNLNLKQKGYFF-VEGELYCETHARARTSGPSSG   89 (89)
T ss_dssp             CBCTTTCCBCCSCCEESSSCEECTTTCCCSSSCCCTTTSCCEE-ETTEEECHHHHHHHSSSCCCC
T ss_pred             CCcccCCCEecccEEEECCceECccCCEecCCCCCCCCCCeEe-ECCEEECHHHHHHHhCCCCCC
Confidence            7899999999999999999999999999999999999766665 589999999999999999753

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

Probab=99.51  E-value=1.2e-14  Score=104.28  Aligned_cols=61  Identities=28%  Similarity=0.474  Sum_probs=54.6

Q ss_pred             CccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeE--eeCCeecccccccccc
Q psy15692         77 LFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFY--IIEGHAYCEQGYLDTL  138 (278)
Q Consensus        77 ~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~--~~~g~~yC~~~y~~~~  138 (278)
                      ....|.+|+++|+..+. |.++++.||++||+|..|+.+|....|+  .++|++||+.||.+++
T Consensus        14 ~~~~C~~C~~~I~~~e~-v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~   76 (82)
T 2co8_A           14 AGDLCALCGEHLYVLER-LCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQTD   76 (82)
T ss_dssp             SSCBCSSSCCBCCTTTB-CCBTTBCCBTTTCBCSSSCCBCCTTSEECCTTTCCCEETTTCCCCC
T ss_pred             CCCCCcccCCCcccceE-EEECCCeeCCCcCEEcCCCCCcCCCceeEeCcCCEEEChHHHHhhh
Confidence            45679999999987775 6899999999999999999999988888  4799999999998876

>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=99.51  E-value=9.7e-15  Score=104.05  Aligned_cols=62  Identities=26%  Similarity=0.455  Sum_probs=57.4

Q ss_pred             cccccccccccccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCc
Q psy15692        139 EKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCC  202 (278)
Q Consensus       139 ~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~  202 (278)
                      ++|..|+++|.+++|.++++.||++||+|..|+++|.+..|  ..++++||..||.++|++++.
T Consensus        16 ~~C~~C~~~I~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~f--~~~g~~yC~~cy~~~f~p~~s   77 (79)
T 2cor_A           16 YICQKCHAIIDEQPLIFKNDPYHPDHFNCANCGKELTADAR--ELKGELYCLPCHDKMGVSGPS   77 (79)
T ss_dssp             CBCTTTCCBCCSCCCCCSSSCCCTTTSBCSSSCCBCCTTCE--EETTEEECHHHHHTTSCCSSC
T ss_pred             CCCccCCCEecceEEEECcceeCCCCCEeCCCCCccCCCCE--eECCEEeCHHHHHHhCCCCCC
Confidence            78999999999999999999999999999999999998766  368999999999999999764

>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=1.2e-14  Score=101.11  Aligned_cols=63  Identities=27%  Similarity=0.595  Sum_probs=58.0

Q ss_pred             cccccccccccccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCc
Q psy15692        139 EKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCC  202 (278)
Q Consensus       139 ~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~  202 (278)
                      ++|..|+++|.+++|.+.++.||++||+|..|+++|.+..|.. .++++||..||.++|+++..
T Consensus         6 ~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~-~~g~~yC~~c~~~~~~~~~~   68 (70)
T 2d8x_A            6 SGCHQCGEFIIGRVIKAMNNSWHPECFRCDLCQEVLADIGFVK-NAGRHLCRPCHNREKASGPS   68 (70)
T ss_dssp             SBCSSSCCBCCSCCEEETTEEECTTTSBCSSSCCBCSSSCCEE-ETTEEECHHHHHHHHCCCSC
T ss_pred             CcCccCCCEecceEEEECcccccccCCEeCCCCCcCCCCccEe-ECCeEECHHHhhhhcCCCCC
Confidence            6899999999999999999999999999999999999877765 68999999999999988753

>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=99.50  E-value=3.7e-15  Score=106.18  Aligned_cols=63  Identities=22%  Similarity=0.525  Sum_probs=58.2

Q ss_pred             cccccccccccccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCc
Q psy15692        139 EKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCC  202 (278)
Q Consensus       139 ~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~  202 (278)
                      ++|..|+++|.+++|.+.++.||++||+|..|+++|.+..|+. .++++||..||.++|++++.
T Consensus        16 ~~C~~C~~~I~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~-~~g~~yC~~cy~~~~~p~g~   78 (79)
T 1x62_A           16 PMCDKCGTGIVGVFVKLRDRHRHPECYVCTDCGTNLKQKGHFF-VEDQIYCEKHARERVSGPSS   78 (79)
T ss_dssp             CCCSSSCCCCCSSCEECSSCEECTTTTSCSSSCCCHHHHCCEE-SSSCEECHHHHHHHHSSCCC
T ss_pred             CccccCCCCccCcEEEECcceeCcCcCeeCCCCCCCCCCCeEe-ECCEEECHHHHHHHhCCCCC
Confidence            7999999999999999999999999999999999998766665 68999999999999999875

>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=99.49  E-value=9.3e-15  Score=106.96  Aligned_cols=65  Identities=25%  Similarity=0.570  Sum_probs=59.3

Q ss_pred             ccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc-ccccc
Q psy15692         78 FGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-EKCSV  143 (278)
Q Consensus        78 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~-~~C~~  143 (278)
                      ...|.+|+++|.+.+. |.++++.||++||+|..|+.+|....|+..++++||+.||.+++ ++|..
T Consensus        15 ~~~C~~C~~~I~~~~~-v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~kc~~   80 (91)
T 2d8y_A           15 RETCVECQKTVYPMER-LLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNY   80 (91)
T ss_dssp             SCBCTTTCCBCCTTSE-EECSSSEEETTTCBCTTTCCBCCTTTCCCSSSCCCCHHHHHHHSCCCSCC
T ss_pred             CCcCccCCCccCCcee-EEECCCEECCCCCeeCCCCCCCCCCCcEeECCEEECHHHHHHHhCCCcCc
Confidence            4579999999998775 79999999999999999999999888999999999999999888 78863

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

Probab=99.49  E-value=9.8e-15  Score=103.34  Aligned_cols=63  Identities=27%  Similarity=0.575  Sum_probs=55.9

Q ss_pred             ccccccccccc--ccceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCc
Q psy15692        139 EKCSVCVKPIL--DRILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCC  202 (278)
Q Consensus       139 ~~C~~C~~~I~--~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~  202 (278)
                      ++|.+|+++|.  +.++.+.++.||++||+|..|+++|.+..|+. .+|++||..||.++|+++|.
T Consensus        12 ~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~-~~g~~yC~~~y~~~f~~~C~   76 (77)
T 1g47_A           12 ATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYE-FEGRKYCEHDFQMLFAPCWI   76 (77)
T ss_dssp             CBCSSSCCBCCSTTTCEEETTEEECTTTCCCTTTCCCCGGGCSEE-ETTEEECHHHHHHHCCCC--
T ss_pred             CCchhcCCccCCCceEEEeCccEeccccCeECCCCCCCCCCCeEe-ECCeEeCHHHHHHHhhcccC
Confidence            78999999996  57789999999999999999999999766664 68999999999999999996

>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=99.49  E-value=8.9e-15  Score=100.48  Aligned_cols=59  Identities=32%  Similarity=0.647  Sum_probs=53.7

Q ss_pred             ccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc
Q psy15692         78 FGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL  138 (278)
Q Consensus        78 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~  138 (278)
                      ...|++|+++|.+ .. +.++|+.||++||+|..|+.+|.+..|+..+|++||+.||.+++
T Consensus         5 ~~~C~~C~~~I~~-~~-~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f   63 (66)
T 1nyp_A            5 VPICGACRRPIEG-RV-VNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLF   63 (66)
T ss_dssp             CCEETTTTEECCS-CE-ECCTTSBEETTTCBCTTTCCBCSSSCCEEETTEEECHHHHHHHC
T ss_pred             CCCCcccCCEecc-eE-EEECccccccCcCEECCCCCCCCCCceEeECCcEECHHHHHHHh
Confidence            4679999999994 43 79999999999999999999999889999999999999998765

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

Probab=99.48  E-value=1.2e-14  Score=100.94  Aligned_cols=60  Identities=30%  Similarity=0.562  Sum_probs=54.4

Q ss_pred             CccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc
Q psy15692         77 LFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL  138 (278)
Q Consensus        77 ~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~  138 (278)
                      ....|++|+++|.+. . +.++++.||++||+|..|+.+|....|+.+++++||+.||.+++
T Consensus         4 ~~~~C~~C~~~I~~~-~-~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~   63 (70)
T 2d8x_A            4 GSSGCHQCGEFIIGR-V-IKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNREK   63 (70)
T ss_dssp             CSSBCSSSCCBCCSC-C-EEETTEEECTTTSBCSSSCCBCSSSCCEEETTEEECHHHHHHHH
T ss_pred             CCCcCccCCCEecce-E-EEECcccccccCCEeCCCCCcCCCCccEeECCeEECHHHhhhhc
Confidence            456799999999964 3 69999999999999999999999888999999999999998765

>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=99.48  E-value=4.7e-15  Score=105.65  Aligned_cols=62  Identities=27%  Similarity=0.650  Sum_probs=55.6

Q ss_pred             ccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc-ccc
Q psy15692         78 FGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-EKC  141 (278)
Q Consensus        78 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~-~~C  141 (278)
                      ...|.+|+++|.+. . |.++++.||++||+|..|+++|.+..|+.+++++||+.||.+++ +++
T Consensus        15 ~~~C~~C~~~I~~~-~-~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~p~g   77 (79)
T 1x62_A           15 LPMCDKCGTGIVGV-F-VKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEKHARERVSGPS   77 (79)
T ss_dssp             CCCCSSSCCCCCSS-C-EECSSCEECTTTTSCSSSCCCHHHHCCEESSSCEECHHHHHHHHSSCC
T ss_pred             CCccccCCCCccCc-E-EEECcceeCcCcCeeCCCCCCCCCCCeEeECCEEECHHHHHHHhCCCC
Confidence            45799999999985 3 79999999999999999999998878999999999999998876 554

>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=99.47  E-value=4.1e-14  Score=98.78  Aligned_cols=67  Identities=30%  Similarity=0.711  Sum_probs=58.1

Q ss_pred             ccCCCCcccCccccCCCCCCceeEEEcCCcccccCCcccCCCCCCCCCCcCCCceeecCCccccccchhHhhhhcc
Q psy15692        196 KFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRVQALT  271 (278)
Q Consensus       196 ~~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~~~~~~~~~  271 (278)
                      .++++|.+|+++|.+.+     .+|.++++.||++||+|..|+++|.    +..|+..++++||+.||.++++..+
T Consensus         3 ~~~~~C~~C~~~I~~~~-----~~~~a~~~~~H~~CF~C~~C~~~L~----~~~~~~~~~~~yC~~cy~~~~~~~~   69 (72)
T 1x61_A            3 SGSSGCGGCGEDVVGDG-----AGVVALDRVFHVGCFVCSTCRAQLR----GQHFYAVERRAYCEGCYVATLESGP   69 (72)
T ss_dssp             SCCCCCSSSCSCCCSSS-----CCEECSSSEECTTTCBCSSSCCBCT----TSCEEESSSCEEEHHHHHHHHHTCS
T ss_pred             CCCCCCccCCCccCCCc-----eEEEECCCeEcccCCcccccCCcCC----cCcCEeeCCeEECHHHHHHHHccCC
Confidence            46789999999998642     2678999999999999999999996    4569999999999999999986543

>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=99.46  E-value=1.7e-14  Score=100.50  Aligned_cols=61  Identities=26%  Similarity=0.611  Sum_probs=54.9

Q ss_pred             ccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc
Q psy15692         78 FGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL  138 (278)
Q Consensus        78 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~  138 (278)
                      ...|++|+++|.+.+..+.++|+.||++||+|..|+.+|....|+..+|++||+.||.++|
T Consensus        11 ~~~C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~lf   71 (72)
T 3f6q_B           11 SATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF   71 (72)
T ss_dssp             TCBCTTTCCBCCTTCEEEEETTEEEETTTSSCTTTCCCCGGGCCEEETTEEECHHHHHHHT
T ss_pred             CccchhcCccccCCceEEEeCcCeeCcCCCcccCCCCCCCCCCeEeECCeEeCHHHHHHhh
Confidence            4579999999997775568999999999999999999998878999999999999998754

>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=99.45  E-value=3.8e-14  Score=99.37  Aligned_cols=61  Identities=28%  Similarity=0.526  Sum_probs=55.4

Q ss_pred             cccccccccccccceEEcCCcCCcCeecCCCCCCCCC-CCCeEEcCCCcccchhhhhcccCCC
Q psy15692        139 EKCSVCVKPILDRILRATGRPYHPACFTCVVCGKSLD-GIPFTVDAANQIHCIQDFHKKFAPR  200 (278)
Q Consensus       139 ~~C~~C~~~I~~~~~~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~~~~~~~C~~~y~~~~~~~  200 (278)
                      ++|.+|+++|.+++|.++++.||++||+|..|+++|. +..|+. .++++||..||.++++..
T Consensus         6 ~~C~~C~~~I~~~~v~a~~~~wH~~CF~C~~C~~~L~~~~~f~~-~~~~~yC~~C~~~~~~~~   67 (73)
T 1wig_A            6 SGCDSCEKYITGRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYL-QGSSIWHPACRQAARTED   67 (73)
T ss_dssp             CSCSSSCCCCSSCCBCCSSCCBCTTTSCCSSSCCCCCSSCCCEE-ETTEEECTTHHHHTSSSS
T ss_pred             CCcccCCCEecCeeEEeCCCCCCCCcCEeCCCCCCCCCCCeeEe-eCCEEEChHHChHhhccc
Confidence            7899999999999999999999999999999999998 667765 689999999999887653

>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=99.45  E-value=5.6e-14  Score=100.05  Aligned_cols=59  Identities=22%  Similarity=0.305  Sum_probs=52.8

Q ss_pred             CccccccCCCeeeCCcceeeeCCcccccccccccccCcccCCCCeEeeCCeecccccccccc
Q psy15692         77 LFGECCKCGERILGEGSGCTAMDKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL  138 (278)
Q Consensus        77 ~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~  138 (278)
                      ...+|++|+++|.+..  |.++|+.||++||+|..|+.+|.+. +|.++|++||+.||.+++
T Consensus        14 ~~~~C~~C~~~I~~~~--v~a~~~~~H~~CF~C~~C~~~L~~~-~f~~~g~~yC~~cy~~~f   72 (79)
T 2cor_A           14 GKYICQKCHAIIDEQP--LIFKNDPYHPDHFNCANCGKELTAD-ARELKGELYCLPCHDKMG   72 (79)
T ss_dssp             CCCBCTTTCCBCCSCC--CCCSSSCCCTTTSBCSSSCCBCCTT-CEEETTEEECHHHHHTTS
T ss_pred             CCCCCccCCCEecceE--EEECcceeCCCCCEeCCCCCccCCC-CEeECCEEeCHHHHHHhC
Confidence            4568999999999544  6899999999999999999999977 469999999999999887

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

Probab=99.43  E-value=6.1e-14  Score=96.01  Aligned_cols=59  Identities=27%  Similarity=0.496  Sum_probs=52.0

Q ss_pred             cccccCCCeeeCCcceeeeCCcccc--cccccccccCcccCCCCeEeeCCeecc-ccccccc
Q psy15692         79 GECCKCGERILGEGSGCTAMDKVYH--ISCFTCDHCAVQLEGKPFYIIEGHAYC-EQGYLDT  137 (278)
Q Consensus        79 ~~C~~C~~~I~~~~~~~~~~~~~~H--~~Cf~C~~C~~~l~~~~f~~~~g~~yC-~~~y~~~  137 (278)
                      ..|++|+++|...+..|.++|+.||  ++||+|..|+.+|.+..|+.++|++|| .+||.++
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            4699999999964224799999999  999999999999999899999999999 7888653

>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=99.43  E-value=6.2e-14  Score=102.54  Aligned_cols=64  Identities=25%  Similarity=0.540  Sum_probs=58.1

Q ss_pred             cccccccccccc-cceEEcCCcCCcCeecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCcc
Q psy15692        139 EKCSVCVKPILD-RILRATGRPYHPACFTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCV  203 (278)
Q Consensus       139 ~~C~~C~~~I~~-~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~  203 (278)
                      ++|..|+++|.+ ..|.++++.||++||+|..|+++|.+..|+. .++++||..||.++|+++|.-
T Consensus        16 ~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~-~~g~~yC~~~y~~~f~~kc~~   80 (91)
T 2d8y_A           16 ETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYAS-LHGRIYCKPHFNQLFKSKGNY   80 (91)
T ss_dssp             CBCTTTCCBCCTTSEEECSSSEEETTTCBCTTTCCBCCTTTCCC-SSSCCCCHHHHHHHSCCCSCC
T ss_pred             CcCccCCCccCCceeEEECCCEECCCCCeeCCCCCCCCCCCcEe-ECCEEECHHHHHHHhCCCcCc
Confidence            789999999985 6789999999999999999999999776654 789999999999999999973

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

Probab=99.41  E-value=8.1e-14  Score=95.39  Aligned_cols=61  Identities=30%  Similarity=0.643  Sum_probs=52.8

Q ss_pred             cCCCCcccCccccCCCCCCceeEEEcCCcccc--cCCcccCCCCCCCCCCcCCCceeecCCcccc-ccchhHh
Q psy15692        197 FAPRCCVCRAPIMPDSEQDETVRVVALDRSFH--IGCYRCEDCGLVLSSEAEGRGCYPLDDHVLC-KSCNAKR  266 (278)
Q Consensus       197 ~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H--~~Cf~C~~C~~~l~~~~~g~~~~~~~~~~~C-~~C~~~~  266 (278)
                      |+++|.+|+++|.+.+     ..|.++|+.||  ++||+|..|+++|.    +..|+..++++|| ..|+.+.
T Consensus         1 fa~~C~~C~~~I~~~~-----~~v~a~~~~wH~~~~CF~C~~C~~~L~----~~~f~~~~g~~yC~~~C~~k~   64 (65)
T 2iyb_E            1 HAVVCQGCHNAIDPEV-----QRVTYNNFSWHASTECFLCSCCSKCLI----GQKFMPVEGMVFCSVECKKRM   64 (65)
T ss_dssp             -CEECTTTSSEECTTS-----CEEEETTEEEETTTTTSBCTTTCCBCT----TSCCEEETTEEESSHHHHHTT
T ss_pred             CcCCCcCCCCeeccCc-----eEEEECCCccCCCCCCEECCCCCCcCC----CCceEEECCEEecCHHHhhhh
Confidence            5788999999999642     27889999999  99999999999997    4569999999999 8999764

>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=99.40  E-value=1.3e-13  Score=95.99  Aligned_cols=65  Identities=15%  Similarity=0.349  Sum_probs=56.4

Q ss_pred             hcccCCCCcccCccccCCCCCCceeEEEcCCcccccCCcccCCCCCCCCCCcCCCceeecCCccccccchhHhh
Q psy15692        194 HKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRV  267 (278)
Q Consensus       194 ~~~~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~~~~~  267 (278)
                      ...++++|.+|+++|.+.+     .++.+.++.||++||+|..|+++|...    .|+..++++||..||.+++
T Consensus         7 ~~~~~~~C~~C~~~i~~~e-----~~~~~~~~~~H~~CF~C~~C~~~L~~~----~~~~~~g~~yC~~~y~~lf   71 (72)
T 3f6q_B            7 QGSASATCERCKGGFAPAE-----KIVNSNGELYHEQCFVCAQCFQQFPEG----LFYEFEGRKYCEHDFQMLF   71 (72)
T ss_dssp             CCCTTCBCTTTCCBCCTTC-----EEEEETTEEEETTTSSCTTTCCCCGGG----CCEEETTEEECHHHHHHHT
T ss_pred             cCcCCccchhcCccccCCc-----eEEEeCcCeeCcCCCcccCCCCCCCCC----CeEeECCeEeCHHHHHHhh
Confidence            4567899999999999764     246799999999999999999999742    5899999999999998875

>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=99.39  E-value=1.7e-13  Score=98.20  Aligned_cols=64  Identities=19%  Similarity=0.446  Sum_probs=56.4

Q ss_pred             ccccccccccc-ccceEEcCCcCCcCeecCCCCCCCCCCCCeEE-cCCCcccchhhhhcccCCCCc
Q psy15692        139 EKCSVCVKPIL-DRILRATGRPYHPACFTCVVCGKSLDGIPFTV-DAANQIHCIQDFHKKFAPRCC  202 (278)
Q Consensus       139 ~~C~~C~~~I~-~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~-~~~~~~~C~~~y~~~~~~~C~  202 (278)
                      ++|..|+++|. .+.|.++++.||.+||+|..|+++|.+..|.. +.++++||+.||.++|+..+.
T Consensus        16 ~~C~~C~~~I~~~e~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~~~~   81 (82)
T 2co8_A           16 DLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQTDSGPSS   81 (82)
T ss_dssp             CBCSSSCCBCCTTTBCCBTTBCCBTTTCBCSSSCCBCCTTSEECCTTTCCCEETTTCCCCCCCCCC
T ss_pred             CCCcccCCCcccceEEEECCCeeCCCcCEEcCCCCCcCCCceeEeCcCCEEEChHHHHhhhcCCCC
Confidence            78999999996 46788999999999999999999999888774 478999999999999877543

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

Probab=99.35  E-value=3.7e-13  Score=103.91  Aligned_cols=65  Identities=23%  Similarity=0.473  Sum_probs=56.1

Q ss_pred             cccCCCCcccCccccCCCCCCceeEEEcCCcccccCCcccCCCCCCCCCCcCCCceeecCCccccccchhHhh
Q psy15692        195 KKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCYRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRV  267 (278)
Q Consensus       195 ~~~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~~~~~  267 (278)
                      ..++++|.+|+++|.+..      +|.++++.||++||+|..|+++|..  .|..||..++++||+.||.+++
T Consensus        58 ~~~~~~C~~C~~~I~~~~------~v~a~~~~wH~~CF~C~~C~~~L~~--~g~~f~~~dg~~yC~~cy~~~F  122 (123)
T 2l4z_A           58 GLSWKRCAGCGGKIADRF------LLYAMDSYWHSRCLKCSSCQAQLGD--IGTSSYTKSGMILCRNDYIRLF  122 (123)
T ss_dssp             CSSCSBBSSSSSBCCSSS------EEEETTEEEETTTSBCTTTCCBGGG--TTCCCBCSSSCCBCHHHHHHHC
T ss_pred             CccCCcCcCCCCCcCCcE------EEEeCCcEEcccccCcCcCCCcccc--cCCceEEECCEEeCHHHhhhhc
Confidence            456789999999998642      6889999999999999999999962  1457999999999999999876

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

Probab=97.80  E-value=5.7e-06  Score=47.33  Aligned_cols=28  Identities=29%  Similarity=0.845  Sum_probs=25.2

Q ss_pred             cccccCCCeeeCCcceeeeCCcccccccc
Q psy15692         79 GECCKCGERILGEGSGCTAMDKVYHISCF  107 (278)
Q Consensus        79 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  107 (278)
                      ..|..|++.|+..+. +.++|+.||..||
T Consensus         4 ~~C~~C~k~Vy~~Ek-~~~~g~~~Hk~CF   31 (31)
T 1zfo_A            4 PNCARCGKIVYPTEK-VNCLDKFWHKACF   31 (31)
T ss_dssp             CBCSSSCSBCCGGGC-CCSSSSCCCGGGC
T ss_pred             CcCCccCCEEeccee-EEECCeEecccCC
Confidence            369999999998886 7899999999998

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

Probab=97.56  E-value=1.4e-05  Score=45.63  Aligned_cols=29  Identities=31%  Similarity=0.843  Sum_probs=25.6

Q ss_pred             CCCCcccCccccCCCCCCceeEEEcCCcccccCCc
Q psy15692        198 APRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCY  232 (278)
Q Consensus       198 ~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf  232 (278)
                      .++|..|++.|.+.+      .+.+.|+.||..||
T Consensus         3 ~~~C~~C~k~Vy~~E------k~~~~g~~~Hk~CF   31 (31)
T 1zfo_A            3 NPNCARCGKIVYPTE------KVNCLDKFWHKACF   31 (31)
T ss_dssp             CCBCSSSCSBCCGGG------CCCSSSSCCCGGGC
T ss_pred             CCcCCccCCEEecce------eEEECCeEecccCC
Confidence            578999999999775      67799999999998

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=82.94  E-value=0.24  Score=37.00  Aligned_cols=44  Identities=27%  Similarity=0.520  Sum_probs=22.1

Q ss_pred             ccccccCcccCCC-----C-eEeeCCeecccccccccc---cccccccccccc
Q psy15692        107 FTCDHCAVQLEGK-----P-FYIIEGHAYCEQGYLDTL---EKCSVCVKPILD  150 (278)
Q Consensus       107 f~C~~C~~~l~~~-----~-f~~~~g~~yC~~~y~~~~---~~C~~C~~~I~~  150 (278)
                      +.|..|...+...     . ....=|+.||..|..+.+   ..|..|++.+..
T Consensus         8 ~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   60 (133)
T 4ap4_A            8 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH   60 (133)
T ss_dssp             CBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBCTT
T ss_pred             CCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcCcc
Confidence            4566665554321     1 223345666666654432   456666666543

>4gne_A Histone-lysine N-methyltransferase NSD3; zinc finger, transcription, nuclear protein, transf nuclear protein complex; 1.47A {Homo sapiens} PDB: 4gnd_A 4gnf_A 4gng_A*

Probab=80.18  E-value=6.1  Score=28.74  Aligned_cols=80  Identities=21%  Similarity=0.471  Sum_probs=48.2

Q ss_pred             CccccccCCCeeeCCcceeeeC----CcccccccccccccCcccCCCCeEeeCCeecccccccccccccccccccccccc
Q psy15692         77 LFGECCKCGERILGEGSGCTAM----DKVYHISCFTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEKCSVCVKPILDRI  152 (278)
Q Consensus        77 ~~~~C~~C~~~I~~~~~~~~~~----~~~~H~~Cf~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~~~C~~C~~~I~~~~  152 (278)
                      ....|..|+.   ++++ |..+    .+.||..|+.       |...    -.|.-||..|      .|..|++...   
T Consensus        14 ~~~~C~~C~~---~G~l-l~CD~~~Cp~~fH~~Cl~-------L~~~----P~g~W~Cp~c------~C~~C~k~~~---   69 (107)
T 4gne_A           14 HEDYCFQCGD---GGEL-VMCDKKDCPKAYHLLCLN-------LTQP----PYGKWECPWH------QCDECSSAAV---   69 (107)
T ss_dssp             SCSSCTTTCC---CSEE-EECCSTTCCCEECTGGGT-------CSSC----CSSCCCCGGG------BCTTTCSBCC---
T ss_pred             CCCCCCcCCC---CCcE-eEECCCCCCcccccccCc-------CCcC----CCCCEECCCC------CCCcCCCCCC---
Confidence            4457999983   3343 3333    3689988864       4332    2567788877      4777777643   


Q ss_pred             eEEcCCcCCcCeecCCCCCC-----CCCCCCeEEcCCCcccchhh
Q psy15692        153 LRATGRPYHPACFTCVVCGK-----SLDGIPFTVDAANQIHCIQD  192 (278)
Q Consensus       153 ~~~~~~~~H~~Cf~C~~C~~-----~l~~~~~~~~~~~~~~C~~~  192 (278)
                                  |.|..|..     -+.+.-+....+|.+.|.+|
T Consensus        70 ------------~~C~~Cp~sfC~~c~~g~l~~~~~~~~~c~~~~  102 (107)
T 4gne_A           70 ------------SFCEFCPHSFCKDHEKGALVPSALEGRLCCSEH  102 (107)
T ss_dssp             ------------EECSSSSCEECTTTCTTSCEECTTTTCEECTTS
T ss_pred             ------------cCcCCCCcchhhhccCCcceecCCCCceecCCC
Confidence                        45555544     34555565556677667655

---

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	278
d2dloa2	33	g.39.1.3 (A:43-75) Thyroid receptor interacting pr	3e-15
d2dloa1	35	g.39.1.3 (A:8-42) Thyroid receptor interacting pro	2e-12
d1x3ha1	35	g.39.1.3 (A:8-42) Leupaxin {Human (Homo sapiens) [	2e-06
d1x3ha1	35	g.39.1.3 (A:8-42) Leupaxin {Human (Homo sapiens) [	4e-05
d1x61a2	32	g.39.1.3 (A:35-66) Thyroid receptor interacting pr	6e-05
d1x61a1	27	g.39.1.3 (A:8-34) Thyroid receptor interacting pro	6e-05
d2dara2	45	g.39.1.3 (A:8-52) PDZ and LIM domain protein 5, En	0.001
d1g47a2	35	g.39.1.3 (A:36-70) Pinch (particularly interesting	0.003

>d2dloa2 g.39.1.3 (A:43-75) Thyroid receptor interacting protein 6, TRIP6 {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: Thyroid receptor interacting protein 6, TRIP6
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 65.9 bits (161), Expect = 3e-15
 Identities = 26/33 (78%), Positives = 30/33 (90%)

Query: 166 TCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFA 198
           TCVVC + LDGIPFTVDA +QIHCI+DFH+KFA
Sbjct: 1   TCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFA 33

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

 Score = 57.9 bits (140), Expect = 2e-12
 Identities = 23/35 (65%), Positives = 27/35 (77%)

Query: 131 EQGYLDTLEKCSVCVKPILDRILRATGRPYHPACF 165
           E  Y+ TLEKC+ C +PILDRILRA G+ YHP CF
Sbjct: 1   EGCYVATLEKCATCSQPILDRILRAMGKAYHPGCF 35

>d1x3ha1 g.39.1.3 (A:8-42) Leupaxin {Human (Homo sapiens) [TaxId: 9606]} Length = 35

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

 Score = 41.5 bits (98), Expect = 2e-06
 Identities = 11/42 (26%), Positives = 21/42 (50%), Gaps = 7/42 (16%)

Query: 191 QDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCY 232
           +DF   F+P+C  C  P++ +        + A+D  +H  C+
Sbjct: 1   KDFLAMFSPKCGGCNRPVLEN-------YLSAMDTVWHPECF 35

>d1x3ha1 g.39.1.3 (A:8-42) Leupaxin {Human (Homo sapiens) [TaxId: 9606]} Length = 35

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

 Score = 37.7 bits (88), Expect = 4e-05
 Identities = 11/27 (40%), Positives = 15/27 (55%)

Query: 139 EKCSVCVKPILDRILRATGRPYHPACF 165
            KC  C +P+L+  L A    +HP CF
Sbjct: 9   PKCGGCNRPVLENYLSAMDTVWHPECF 35

>d1x61a2 g.39.1.3 (A:35-66) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]} Length = 32

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

 Score = 37.2 bits (86), Expect = 6e-05
 Identities = 16/31 (51%), Positives = 19/31 (61%)

Query: 109 CDHCAVQLEGKPFYIIEGHAYCEQGYLDTLE 139
           C  C  QL G+ FY +E  AYCE  Y+ TLE
Sbjct: 2   CSTCRAQLRGQHFYAVERRAYCEGCYVATLE 32

>d1x61a1 g.39.1.3 (A:8-34) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]} Length = 27

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]

 Score = 37.2 bits (86), Expect = 6e-05
 Identities = 13/27 (48%), Positives = 21/27 (77%)

Query: 81  CCKCGERILGEGSGCTAMDKVYHISCF 107
           C  CGE ++G+G+G  A+D+V+H+ CF
Sbjct: 1   CGGCGEDVVGDGAGVVALDRVFHVGCF 27

>d2dara2 g.39.1.3 (A:8-52) PDZ and LIM domain protein 5, Enigma {Human (Homo sapiens) [TaxId: 9606]} Length = 45

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 5, Enigma
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.0 bits (78), Expect = 0.001
 Identities = 9/26 (34%), Positives = 13/26 (50%)

Query: 140 KCSVCVKPILDRILRATGRPYHPACF 165
            C+ C + I    L A G+ +HP  F
Sbjct: 20  MCAHCNQVIRGPFLVALGKSWHPEEF 45

>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 = 32.8 bits (75), Expect = 0.003
 Identities = 11/28 (39%), Positives = 12/28 (42%)

Query: 107 FTCDHCAVQLEGKPFYIIEGHAYCEQGY 134
           F C  C  Q     FY  EG  YCE  +
Sbjct: 1   FVCAQCFQQFPEGLFYEFEGRKYCEHDF 28

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	278
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	99.16
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	99.05
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	98.9
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.77
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	98.75
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	98.65
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	98.53
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.51
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.48
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.46
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	98.45
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	98.32
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	98.3
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	98.3
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	98.27
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	98.24
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	98.23
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	98.23
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	98.2
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	98.16
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	98.16
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.15
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	98.14
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	98.12
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.1
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	98.08
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.99
d2co8a2	36	Nedd9 interacting protein with calponin homology,	97.93
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.93
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	97.92
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.9
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	97.9
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.88
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.87
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	97.86
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	97.84
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	97.83
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.82
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.81
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.81
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	97.8
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	97.77
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	97.77
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	97.77
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.76
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.74
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	97.73
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	97.73
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	97.72
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	97.7
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.7
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.68
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	97.66
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.66
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.63
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.62
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.62
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.61
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	97.61
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	97.6
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	97.6
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.59
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	97.58
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.55
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	97.53
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.51
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	97.5
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.5
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	97.46
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	97.45
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	97.42
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.41
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	97.4
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	97.39
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.38
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.37
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.35
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	97.34
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	97.32
d2co8a2	36	Nedd9 interacting protein with calponin homology,	97.32
d1x61a1	27	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.31
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	97.2
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.19
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	97.18
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	97.16
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.09
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.07
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	96.98
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	96.92
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	96.91
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	96.84
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	96.82
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	96.82
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	96.78
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	96.61
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	96.53
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.46
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	96.28
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	96.28
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	96.21
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	96.14
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	96.11
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	96.02
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	95.97
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	95.91
d1x61a1	27	Thyroid receptor interacting protein 6, TRIP6 {Hum	95.77
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	95.71
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	95.42
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	95.25
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	95.18
d1rutx4	33	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	95.14
d1rutx2	34	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	95.1
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	95.08
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	95.07
d2cora1	31	Pinch (particularly interesting new Cys-His) prote	94.34
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	94.13
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	93.95
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	93.88
d1rutx2	34	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	93.54
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	92.02
d2cora1	31	Pinch (particularly interesting new Cys-His) prote	91.69
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	91.35
d1rutx4	33	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	91.34
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	91.03
d1x68a2	34	Four and a half LIM domains protein 5, FHL-5 {Huma	90.33
d1x68a2	34	Four and a half LIM domains protein 5, FHL-5 {Huma	89.46
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	89.22
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	87.82
d1j2oa2	33	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	86.99
d1x4la2	30	Four and a half LIM domains protein 2, FHL2 {Human	84.03
d1v6ga2	40	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	82.81
d1x4la2	30	Four and a half LIM domains protein 2, FHL2 {Human	82.12
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	81.97

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

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

Probab=99.16  E-value=4e-12  Score=73.58  Aligned_cols=35  Identities=31%  Similarity=0.866  Sum_probs=32.2

Q ss_pred             hhhhcccCCCCcccCccccCCCCCCceeEEEcCCcccccCCc
Q psy15692        191 QDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCY  232 (278)
Q Consensus       191 ~~y~~~~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf  232 (278)
                      +||.++|+++|.+|+++|.+.       +|+|+|+.||++||
T Consensus         1 ~DY~~~fapkC~~C~~~I~g~-------~v~Al~~~wHpeCF   35 (35)
T d1x3ha1           1 KDFLAMFSPKCGGCNRPVLEN-------YLSAMDTVWHPECF   35 (35)
T ss_dssp             CCCCCCCSCBCTTTCCBCCSS-------CEEETTEEECTTTC
T ss_pred             CcHHHHhChhhhhcCCcccch-------heeecCCccCcccC
Confidence            378999999999999999865       78999999999998

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

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

Probab=99.05  E-value=2.5e-11  Score=70.17  Aligned_cols=34  Identities=35%  Similarity=0.901  Sum_probs=32.2

Q ss_pred             ccccccc-cccccccccccccceEEcCCcCCcCee
Q psy15692        132 QGYLDTL-EKCSVCVKPILDRILRATGRPYHPACF  165 (278)
Q Consensus       132 ~~y~~~~-~~C~~C~~~I~~~~~~~~~~~~H~~Cf  165 (278)
                      +||.+++ ++|..|+++|.+++|.|+|+.||++||
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            4788888 999999999999999999999999998

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

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

Probab=98.90  E-value=2.1e-10  Score=64.64  Aligned_cols=35  Identities=66%  Similarity=1.306  Sum_probs=33.2

Q ss_pred             cccccccccccccccccccccceEEcCCcCCcCee
Q psy15692        131 EQGYLDTLEKCSVCVKPILDRILRATGRPYHPACF  165 (278)
Q Consensus       131 ~~~y~~~~~~C~~C~~~I~~~~~~~~~~~~H~~Cf  165 (278)
                      +.||.....+|.+|+++|.+++++|.|+.||+.||
T Consensus         1 E~Cy~~tlEkC~~C~~~I~driLrA~Gk~yHP~CF   35 (35)
T d2dloa1           1 EGCYVATLEKCATCSQPILDRILRAMGKAYHPGCF   35 (35)
T ss_dssp             CCCCCSSCCBCTTTCCBCCSCCEEETTEEECTTTC
T ss_pred             ChhHHHHHHHHHHhchHHHHHHHHHhCCCCCCCCC
Confidence            47898888999999999999999999999999998

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

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

Probab=98.77  E-value=1.6e-09  Score=60.62  Aligned_cols=35  Identities=31%  Similarity=0.699  Sum_probs=31.6

Q ss_pred             hhhhcccCCCCcccCccccCCCCCCceeEEEcCCcccccCCc
Q psy15692        191 QDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCY  232 (278)
Q Consensus       191 ~~y~~~~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf  232 (278)
                      .||+++|+++|..|+++|..+       -|...++.||.+||
T Consensus         1 PCyE~kfa~~C~~Ckk~It~G-------GvtY~dqpWHkeCF   35 (35)
T d2cuqa2           1 PCYENKFAPRCARCSKTLTQG-------GVTYRDQPWHRECL   35 (35)
T ss_dssp             CCCCCCSSCCCTTTCCCCCSC-------CEESSSSEECTTTC
T ss_pred             CchHHHHHHHHhhcCCccccC-------ceeecCCcchhhhC
Confidence            379999999999999999865       37899999999998

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

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

Probab=98.75  E-value=1.8e-09  Score=62.40  Aligned_cols=37  Identities=19%  Similarity=0.414  Sum_probs=33.5

Q ss_pred             hhhhcccCCCCcccCccccCCCCCCceeEEEcCCcccccCCc
Q psy15692        191 QDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCY  232 (278)
Q Consensus       191 ~~y~~~~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf  232 (278)
                      .||.+.|+++|.+|+++|.+++     ..|.+.|+.||..||
T Consensus         1 kCy~~~~a~~C~~C~k~I~~G~-----k~veykg~~WHe~CF   37 (37)
T d1x63a1           1 KCTTREDSPKCKGCFKAIVAGD-----QNVEYKGTVWHKDCF   37 (37)
T ss_dssp             CCCSCCCSCBCSSSCCBCCSSS-----CEEECSSCEEETTTC
T ss_pred             CccccccCcccccCCCccCCCC-----eEeEeCCccchhccC
Confidence            3788999999999999999875     478999999999998

>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=98.65  E-value=1.7e-09  Score=62.18  Aligned_cols=34  Identities=32%  Similarity=0.739  Sum_probs=31.5

Q ss_pred             ccccccCcccCCCCeEeeCCeecccccccccccc
Q psy15692        107 FTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTLEK  140 (278)
Q Consensus       107 f~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~~~  140 (278)
                      |+|+.|+++|.+..||+++|++||+.||.+++.-
T Consensus         1 F~C~~C~~~f~~~~F~e~~G~pYCe~~Y~~lFAP   34 (35)
T d1g47a2           1 FVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAP   34 (35)
T ss_dssp             CCCTTTCCCCGGGCSEEETTEEECHHHHHHHCCC
T ss_pred             CCCCCCcCCCCCCCeEEECCEecChHhHHhhcCC
Confidence            7899999999999999999999999999988743

>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=98.53  E-value=1.4e-08  Score=58.16  Aligned_cols=34  Identities=29%  Similarity=0.527  Sum_probs=31.2

Q ss_pred             ecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCC
Q psy15692        165 FTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAP  199 (278)
Q Consensus       165 f~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~  199 (278)
                      |+|..|+++|.+..|+. .+|++||+.||+++|+|
T Consensus         1 F~C~~C~~~f~~~~F~e-~~G~pYCe~~Y~~lFAP   34 (35)
T d1g47a2           1 FVCAQCFQQFPEGLFYE-FEGRKYCEHDFQMLFAP   34 (35)
T ss_dssp             CCCTTTCCCCGGGCSEE-ETTEEECHHHHHHHCCC
T ss_pred             CCCCCCcCCCCCCCeEE-ECCEecChHhHHhhcCC
Confidence            78999999999888865 79999999999999987

>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=98.51  E-value=8.7e-09  Score=61.41  Aligned_cols=30  Identities=27%  Similarity=0.413  Sum_probs=26.6

Q ss_pred             CCccccccCCCeeeCCcceeeeCCcccccccc
Q psy15692         76 DLFGECCKCGERILGEGSGCTAMDKVYHISCF  107 (278)
Q Consensus        76 ~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  107 (278)
                      ...++|+.|+++|.|..  |.|+|+.||++||
T Consensus        16 ~r~P~C~~C~~pI~g~~--vtAlgk~WHPEhF   45 (45)
T d2dara2          16 KRTPMCAHCNQVIRGPF--LVALGKSWHPEEF   45 (45)
T ss_dssp             TCCCBBSSSCCBCCSCE--EEETTEEECTTTC
T ss_pred             CCCeeccccCCcccCce--eeecCCccCcCCC
Confidence            45678999999999876  5999999999998

>d2dara2 g.39.1.3 (A:8-52) PDZ and LIM domain protein 5, Enigma {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 5, Enigma
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.48  E-value=1.7e-08  Score=60.19  Aligned_cols=28  Identities=32%  Similarity=0.630  Sum_probs=26.8

Q ss_pred             ccccccccccccccceEEcCCcCCcCee
Q psy15692        138 LEKCSVCVKPILDRILRATGRPYHPACF  165 (278)
Q Consensus       138 ~~~C~~C~~~I~~~~~~~~~~~~H~~Cf  165 (278)
                      .|+|..|+++|.+++|.|+|+.||++||
T Consensus        18 ~P~C~~C~~pI~g~~vtAlgk~WHPEhF   45 (45)
T d2dara2          18 TPMCAHCNQVIRGPFLVALGKSWHPEEF   45 (45)
T ss_dssp             CCBBSSSCCBCCSCEEEETTEEECTTTC
T ss_pred             CeeccccCCcccCceeeecCCccCcCCC
Confidence            3899999999999999999999999998

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

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

Probab=98.46  E-value=2.4e-08  Score=55.79  Aligned_cols=34  Identities=21%  Similarity=0.605  Sum_probs=31.5

Q ss_pred             ccccccc-cccccccccccccceEEcCCcCCcCee
Q psy15692        132 QGYLDTL-EKCSVCVKPILDRILRATGRPYHPACF  165 (278)
Q Consensus       132 ~~y~~~~-~~C~~C~~~I~~~~~~~~~~~~H~~Cf  165 (278)
                      +||.+.| ++|..|+++|...-|...++.||.+||
T Consensus         1 PCyE~kfa~~C~~Ckk~It~GGvtY~dqpWHkeCF   35 (35)
T d2cuqa2           1 PCYENKFAPRCARCSKTLTQGGVTYRDQPWHRECL   35 (35)
T ss_dssp             CCCCCCSSCCCTTTCCCCCSCCEESSSSEECTTTC
T ss_pred             CchHHHHHHHHhhcCCccccCceeecCCcchhhhC
Confidence            4888888 899999999998889999999999998

>d1v6ga1 g.39.1.3 (A:1-41) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.45  E-value=4.1e-08  Score=57.37  Aligned_cols=34  Identities=29%  Similarity=0.702  Sum_probs=31.1

Q ss_pred             hhhhcccCCCCcccCccccCCCCCCceeEEEcCCcccccCC
Q psy15692        191 QDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGC  231 (278)
Q Consensus       191 ~~y~~~~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~C  231 (278)
                      .||+++|+.+|..|.+.|.+.       +|+|.++.||++|
T Consensus         8 ~DYq~~fG~~C~~C~~~ItG~-------V~~Ag~~~yHP~C   41 (41)
T d1v6ga1           8 LDYQRLYGTRCFSCDQFIEGE-------VVSALGKTYHPDC   41 (41)
T ss_dssp             SCGGGSCCCBCTTTCCBCCSC-------CEEETTEEECTTT
T ss_pred             ccHHHHhCcccccccCEeeee-------eeEecCcccCCCC
Confidence            479999999999999999865       7899999999998

>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=98.30  E-value=1.8e-07  Score=51.62  Aligned_cols=33  Identities=79%  Similarity=1.465  Sum_probs=31.2

Q ss_pred             cCCCCCCCCCCCCeEEcCCCcccchhhhhcccC
Q psy15692        166 TCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFA  198 (278)
Q Consensus       166 ~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~  198 (278)
                      +|..|++.|+|.+|.++..+++||..+|+++||
T Consensus         1 tCvvC~~~LDGvPFtvD~~n~i~Cv~DyHrkfA   33 (33)
T d2dloa2           1 TCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFA   33 (33)
T ss_dssp             BCSSSCCBCTTSCEECCTTCCCEEHHHHHHHTT
T ss_pred             CeeEcCcccCCCcEEEcCCCCEeehhhhhhhcC
Confidence            589999999999999999999999999999986

>d1rutx1 g.39.1.3 (X:19-48) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.27  E-value=1.5e-07  Score=51.10  Aligned_cols=28  Identities=32%  Similarity=0.653  Sum_probs=25.7

Q ss_pred             cccccCCCeeeCCcceeeeCCcccccccc
Q psy15692         79 GECCKCGERILGEGSGCTAMDKVYHISCF  107 (278)
Q Consensus        79 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  107 (278)
                      ..|++|+++|.++++ +.++++.||..|+
T Consensus         3 ~~CaGC~~~I~DRfl-L~v~dr~WH~~CL   30 (30)
T d1rutx1           3 KRCAGCGGKIADRFL-LYAMDSYWHSRCL   30 (30)
T ss_dssp             CBBTTTCCBCCCSEE-EEETTEEECGGGC
T ss_pred             cccCCCCCccchhhh-hccchhhhhhhhC
Confidence            469999999999996 8999999999985

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

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

Probab=98.24  E-value=7.7e-08  Score=52.24  Aligned_cols=26  Identities=31%  Similarity=0.747  Sum_probs=24.8

Q ss_pred             cccccccccccccceEEcCCcCCcCe
Q psy15692        139 EKCSVCVKPILDRILRATGRPYHPAC  164 (278)
Q Consensus       139 ~~C~~C~~~I~~~~~~~~~~~~H~~C  164 (278)
                      ++|+.|+++|.+++|.|+|+.||+++
T Consensus         6 p~C~~C~~PI~~~~vtAlgk~WHpEH   31 (31)
T d1u5sb1           6 PICGACRRPIEGRVVNAMGKQWHVEH   31 (31)
T ss_dssp             CEETTTTEECCSCEECCTTSBEETTT
T ss_pred             cchhhcCCchhhhHhhhhccccCCCC
Confidence            89999999999999999999999974

>d1j2oa1 g.39.1.3 (A:1-30) Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Rhombotin-2 (Lmo2)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.23  E-value=2.3e-07  Score=50.15  Aligned_cols=28  Identities=25%  Similarity=0.473  Sum_probs=25.2

Q ss_pred             ccccccCCCeeeCCcceeeeCCccccccc
Q psy15692         78 FGECCKCGERILGEGSGCTAMDKVYHISC  106 (278)
Q Consensus        78 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~C  106 (278)
                      ...|++|+++|.++++ +.++++.||.+|
T Consensus         3 ~~~CaGC~~~I~DRfl-L~a~Dr~WH~~C   30 (30)
T d1j2oa1           3 LLTCGGCQQNIGDRYF-LKAIDQYWHEDC   30 (30)
T ss_dssp             CBCBSSSCSCBCSSEE-EECSSSEECTTT
T ss_pred             CcccCCCCCcchHHHH-HHHHHHHHhcCC
Confidence            3469999999999986 899999999987

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

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

Probab=98.23  E-value=1.5e-07  Score=54.14  Aligned_cols=34  Identities=29%  Similarity=0.585  Sum_probs=30.1

Q ss_pred             ccccccc-ccccccccccc--ccceEEcCCcCCcCee
Q psy15692        132 QGYLDTL-EKCSVCVKPIL--DRILRATGRPYHPACF  165 (278)
Q Consensus       132 ~~y~~~~-~~C~~C~~~I~--~~~~~~~~~~~H~~Cf  165 (278)
                      .||.+.+ ++|..|+++|.  ++.|.+.|+.||..||
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            4777777 89999999996  4789999999999998

>d1v6ga1 g.39.1.3 (A:1-41) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.20  E-value=2.4e-07  Score=54.07  Aligned_cols=33  Identities=30%  Similarity=0.699  Sum_probs=31.0

Q ss_pred             ccccccc-cccccccccccccceEEcCCcCCcCe
Q psy15692        132 QGYLDTL-EKCSVCVKPILDRILRATGRPYHPAC  164 (278)
Q Consensus       132 ~~y~~~~-~~C~~C~~~I~~~~~~~~~~~~H~~C  164 (278)
                      .||.++| .+|..|++.|++++|.|.++.||++|
T Consensus         8 ~DYq~~fG~~C~~C~~~ItG~V~~Ag~~~yHP~C   41 (41)
T d1v6ga1           8 LDYQRLYGTRCFSCDQFIEGEVVSALGKTYHPDC   41 (41)
T ss_dssp             SCGGGSCCCBCTTTCCBCCSCCEEETTEEECTTT
T ss_pred             ccHHHHhCcccccccCEeeeeeeEecCcccCCCC
Confidence            5889888 89999999999999999999999987

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

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

Probab=98.16  E-value=3.5e-07  Score=51.22  Aligned_cols=29  Identities=28%  Similarity=0.844  Sum_probs=25.8

Q ss_pred             cCCCCcccCccccCCCCCCceeEEEcCCcccccCCc
Q psy15692        197 FAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCY  232 (278)
Q Consensus       197 ~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf  232 (278)
                      ...+|..|+++|...       ++.|.|+.||+.||
T Consensus         7 tlEkC~~C~~~I~dr-------iLrA~Gk~yHP~CF   35 (35)
T d2dloa1           7 TLEKCATCSQPILDR-------ILRAMGKAYHPGCF   35 (35)
T ss_dssp             SCCBCTTTCCBCCSC-------CEEETTEEECTTTC
T ss_pred             HHHHHHHhchHHHHH-------HHHHhCCCCCCCCC
Confidence            457999999999864       78899999999998

>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=98.16  E-value=6.5e-07  Score=49.11  Aligned_cols=32  Identities=31%  Similarity=0.651  Sum_probs=29.4

Q ss_pred             cCCCCCCCCCCCCeEEcCCCcccchhhhhcccC
Q psy15692        166 TCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFA  198 (278)
Q Consensus       166 ~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~  198 (278)
                      .|..|+++|.|..|.. ++++|||..||..+||
T Consensus         1 ~C~~C~~~L~GQry~~-rd~~PyC~~Cf~~lfA   32 (32)
T d2d8za2           1 VCTACRKQLSGQRFTA-RDDFAYCLNCFCDLYA   32 (32)
T ss_dssp             BCSSSCCBCTTSCCEE-SSSSEECHHHHHHHTC
T ss_pred             CcccCCccccCceeee-cCCCeehHHhhHhhcC
Confidence            4899999999999987 8999999999999885

>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=98.15  E-value=1.6e-07  Score=51.87  Aligned_cols=30  Identities=23%  Similarity=0.750  Sum_probs=27.7

Q ss_pred             cccccCcccCCCCeEeeCCeeccccccccc
Q psy15692        108 TCDHCAVQLEGKPFYIIEGHAYCEQGYLDT  137 (278)
Q Consensus       108 ~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~  137 (278)
                      +|..|.+|+.+..||+.+|+|||+.+|.++
T Consensus         1 VC~~C~~PF~~~~Fy~~~g~PyCe~HyH~~   30 (32)
T d1x3ha2           1 VCGDCFTSFSTGSFFELDGRPFCELHYHHR   30 (32)
T ss_dssp             BCSSSCCBSCSSCCEESSSCEECHHHHHHH
T ss_pred             CcCccCCcCCCCCeEeECCccchHHhhhhh
Confidence            589999999999999999999999999764

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

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

Probab=98.14  E-value=3.2e-07  Score=49.76  Aligned_cols=30  Identities=30%  Similarity=0.553  Sum_probs=25.9

Q ss_pred             cccCCCCcccCccccCCCCCCceeEEEcCCcccccCC
Q psy15692        195 KKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGC  231 (278)
Q Consensus       195 ~~~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~C  231 (278)
                      +++.++|..|.+||.+.       .|.++|+.||+++
T Consensus         2 kmg~p~C~~C~~PI~~~-------~vtAlgk~WHpEH   31 (31)
T d1u5sb1           2 SMGVPICGACRRPIEGR-------VVNAMGKQWHVEH   31 (31)
T ss_dssp             CCCCCEETTTTEECCSC-------EECCTTSBEETTT
T ss_pred             CcCCcchhhcCCchhhh-------HhhhhccccCCCC
Confidence            45678999999999865       7899999999975

>d1x6aa1 g.39.1.3 (A:8-41) Lim domain kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Lim domain kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.12  E-value=3.6e-07  Score=50.21  Aligned_cols=34  Identities=26%  Similarity=0.484  Sum_probs=29.9

Q ss_pred             hhhhcccCCCCcccCccccCCCCCCceeEEEcCCcccccCC
Q psy15692        191 QDFHKKFAPRCCVCRAPIMPDSEQDETVRVVALDRSFHIGC  231 (278)
Q Consensus       191 ~~y~~~~~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~C  231 (278)
                      .+|+.+|+..|.+|.+.|.+-       +|++.+.+||++|
T Consensus         1 kdYw~kfge~C~~C~~~itGp-------vMvAG~~K~HPEC   34 (34)
T d1x6aa1           1 KDYWGKFGEFCHGCSLLMTGP-------FMVAGEFKYHPEC   34 (34)
T ss_dssp             CCSSCCSSCBCTTTCCBCCSC-------CBCCTTCCBCTTS
T ss_pred             CcHHHHHHHHhhhhHhhcccc-------eeeecccccCCCC
Confidence            368999999999999988743       7889999999998

>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=98.10  E-value=1.1e-06  Score=48.84  Aligned_cols=31  Identities=39%  Similarity=0.658  Sum_probs=26.8

Q ss_pred             CCccccccCCCeeeCCcceeeeCCcccccccc
Q psy15692         76 DLFGECCKCGERILGEGSGCTAMDKVYHISCF  107 (278)
Q Consensus        76 ~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  107 (278)
                      .+...|++|++.|..... +.|+++.||.+||
T Consensus         6 ~g~~~CagCg~eik~gQa-L~ALdkqWH~~CF   36 (36)
T d2dj7a2           6 RGPSHCAGCKEEIKHGQS-LLALDKQWHVSCF   36 (36)
T ss_dssp             SSCSCCTTTCCCCSSSCC-EEETTEEECTTTC
T ss_pred             cCCccccccchhhhCCce-eeeeecceeeeeC
Confidence            345579999999997775 8999999999998

>d1zfoa_ g.39.1.4 (A:) LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LASP-1
domain: LASP-1
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=98.08  E-value=4.5e-07  Score=48.20  Aligned_cols=28  Identities=29%  Similarity=0.845  Sum_probs=25.7

Q ss_pred             cccccCCCeeeCCcceeeeCCcccccccc
Q psy15692         79 GECCKCGERILGEGSGCTAMDKVYHISCF  107 (278)
Q Consensus        79 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  107 (278)
                      +.|++|++.|++.+. |..+++.||..||
T Consensus         3 ~~CaRC~k~VYp~Ek-l~ClDk~WHK~CF   30 (30)
T d1zfoa_           3 PNCARCGKIVYPTEK-VNCLDKFWHKACF   30 (30)
T ss_dssp             CBCSSSCSBCCGGGC-CCSSSSCCCGGGC
T ss_pred             CcccccCCccccHHH-hhhhHHHHhhccC
Confidence            459999999999886 8999999999998

>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=97.99  E-value=2.5e-06  Score=51.90  Aligned_cols=41  Identities=29%  Similarity=0.585  Sum_probs=35.9

Q ss_pred             cCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCcccCcc
Q psy15692        166 TCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAP  207 (278)
Q Consensus       166 ~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~C~~~  207 (278)
                      +|..|++.|++.... ++++++||+.||.++|+|+..+.+..
T Consensus         1 KC~~C~k~Lds~t~~-ehdg~~YCk~CY~k~fGPKG~g~G~g   41 (49)
T d1b8ta4           1 RCAKCGKSLESTTLA-DKDGEIYCKGCYAKNFGPKGFGFGQG   41 (49)
T ss_dssp             BCTTTCCBCCSSSEE-EETTEEEEHHHHHHHTCCCCCCCCCC
T ss_pred             ChhhcCCccCCCccc-ccCCcccchhhhhhccCCCccCcccC
Confidence            699999999987766 48999999999999999999887643

>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=97.93  E-value=3.1e-06  Score=48.08  Aligned_cols=31  Identities=26%  Similarity=0.485  Sum_probs=27.7

Q ss_pred             CCccccccCCCeeeCCcceeeeCCcccccccc
Q psy15692         76 DLFGECCKCGERILGEGSGCTAMDKVYHISCF  107 (278)
Q Consensus        76 ~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  107 (278)
                      .....|..|+|.|+..+. +.++|+.||..||
T Consensus         6 g~~~~C~~C~K~VY~~Er-l~a~g~~yHk~CF   36 (36)
T d2co8a2           6 GAGDLCALCGEHLYVLER-LCVNGHFFHRSCF   36 (36)
T ss_dssp             CSSCBCSSSCCBCCTTTB-CCBTTBCCBTTTC
T ss_pred             CCCCcccccCCEEeeeeE-EEecCcEeccccC
Confidence            345679999999999986 8999999999998

>d2cuqa1 g.39.1.3 (A:43-74) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.93  E-value=3.1e-06  Score=45.69  Aligned_cols=32  Identities=31%  Similarity=0.597  Sum_probs=29.1

Q ss_pred             cCCCCCCCCCCCCeEEcCCCcccchhhhhcccC
Q psy15692        166 TCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFA  198 (278)
Q Consensus       166 ~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~  198 (278)
                      .|+.|+++|.|..|.. ++++|||.+||-.+|+
T Consensus         1 vCt~Ck~~LaGqrFTS-rde~pYC~~Cfg~LfA   32 (32)
T d2cuqa1           1 VCTGCQTPLAGQQFTS-RDEDPYCVACFGELFA   32 (32)
T ss_dssp             BCSSSCCBCTTCCEEE-CSSSEEEHHHHHHHTT
T ss_pred             CccccCccccCCcccc-CCCCccHHHHhHhhcC
Confidence            4899999999999986 8999999999988875

>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=97.92  E-value=2.2e-06  Score=45.24  Aligned_cols=29  Identities=28%  Similarity=0.587  Sum_probs=25.0

Q ss_pred             CcccCccccCCCCCCceeEEEcCCcccccCCc
Q psy15692        201 CCVCRAPIMPDSEQDETVRVVALDRSFHIGCY  232 (278)
Q Consensus       201 C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf  232 (278)
                      |.+|.+||.+-.   ++.+|.+.++.||.+||
T Consensus         1 C~~C~kPItg~g---g~kyisFE~R~WH~~CF   29 (29)
T d1x4la1           1 CAGCTNPISGLG---GTKYISFEERQWHNDCF   29 (29)
T ss_dssp             BTTTTBCCCCSS---SCSCEECSSCEECTTTC
T ss_pred             CCccCCcccccC---CceEEEeecccccccCC
Confidence            789999998653   45689999999999998

>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=97.90  E-value=3.7e-06  Score=45.31  Aligned_cols=31  Identities=26%  Similarity=0.566  Sum_probs=27.3

Q ss_pred             cCCCCCCCCCCCCeEEcCCCcccchhhhhcccC
Q psy15692        166 TCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFA  198 (278)
Q Consensus       166 ~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~  198 (278)
                      +|..|++.|.+++..  ++|.|||+.||+.+|+
T Consensus         1 kC~~C~~vL~gEYm~--kdG~PyCe~DY~~~FG   31 (31)
T d2dj7a1           1 KCQTCSVILTGEYIS--KDGVPYCESDYHAQFG   31 (31)
T ss_dssp             BCSSSCCBCSSCCEE--ETTEEECTTHHHHHTT
T ss_pred             CccccCccccceeec--CCCCcccHHHHHHhcC
Confidence            589999999998764  5899999999999885

>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=97.90  E-value=3e-06  Score=46.65  Aligned_cols=31  Identities=19%  Similarity=0.330  Sum_probs=27.5

Q ss_pred             cCCCCCCCCCCCCeEEcCCCcccchhhhhccc
Q psy15692        166 TCVVCGKSLDGIPFTVDAANQIHCIQDFHKKF  197 (278)
Q Consensus       166 ~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~  197 (278)
                      +|..|.+++.+..|++ .+|+|||+.||+++.
T Consensus         1 VC~~C~~PF~~~~Fy~-~~g~PyCe~HyH~~~   31 (32)
T d1x3ha2           1 VCGDCFTSFSTGSFFE-LDGRPFCELHYHHRR   31 (32)
T ss_dssp             BCSSSCCBSCSSCCEE-SSSCEECHHHHHHHH
T ss_pred             CcCccCCcCCCCCeEe-ECCccchHHhhhhhc
Confidence            5899999999888876 789999999999864

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

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

Probab=97.88  E-value=4e-06  Score=49.97  Aligned_cols=30  Identities=27%  Similarity=0.617  Sum_probs=27.0

Q ss_pred             CccccccCCCeeeCCcceeeeCCcccccccc
Q psy15692         77 LFGECCKCGERILGEGSGCTAMDKVYHISCF  107 (278)
Q Consensus        77 ~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  107 (278)
                      +...|..|++.|+..+. +.++|+.||..||
T Consensus        14 ~~~kC~~C~k~VY~~E~-~~~~g~~~Hk~CF   43 (43)
T d1b8ta3          14 GSDGCPRCGQAVYAAEK-VIGAGKSWHKSCF   43 (43)
T ss_dssp             CCEECTTTSCEECSSSC-EEETTEEECTTTC
T ss_pred             CCCcCccCCCEeeHHHH-hhcCCCccccCCC
Confidence            34679999999999996 8999999999998

>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=97.87  E-value=2.9e-06  Score=45.68  Aligned_cols=28  Identities=21%  Similarity=0.566  Sum_probs=25.3

Q ss_pred             cccccCCCeeeCCcceeeeCCcccccccc
Q psy15692         79 GECCKCGERILGEGSGCTAMDKVYHISCF  107 (278)
Q Consensus        79 ~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  107 (278)
                      ..|.+|+|+|+..+. +.++|+.||..|+
T Consensus         3 ~~CprC~K~VYfaEk-~~~lgk~WHk~Cl   30 (30)
T d2cu8a1           3 SKCPKCDKTVYFAEK-VSSLGKDWHKFCL   30 (30)
T ss_dssp             CBCTTTCCBCCTTTE-EEETTEEEETTTC
T ss_pred             CcCCCCCCceeeHHh-hccCCcccccccC
Confidence            469999999999886 8999999999985

>d1x68a1 g.39.1.3 (A:8-36) Four and a half LIM domains protein 5, FHL-5 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 5, FHL-5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.86  E-value=3.6e-06  Score=44.29  Aligned_cols=29  Identities=24%  Similarity=0.587  Sum_probs=25.1

Q ss_pred             CcccCccccCCCCCCceeEEEcCCcccccCCc
Q psy15692        201 CCVCRAPIMPDSEQDETVRVVALDRSFHIGCY  232 (278)
Q Consensus       201 C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf  232 (278)
                      |.+|.+||.+-.   ++.+|.+.++.||.+||
T Consensus         1 C~~C~kPItg~g---G~k~isFedR~WH~~CF   29 (29)
T d1x68a1           1 CVACSKPISGLT---GAKFICFQDSQWHSECF   29 (29)
T ss_dssp             CTTTCCCCCTTT---TCCEEEETTEEEEGGGC
T ss_pred             CccccccccccC---CceEEEeehhhcccccC
Confidence            789999998754   45689999999999998

>d2d8za2 g.39.1.3 (A:33-64) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.84  E-value=1.4e-06  Score=47.72  Aligned_cols=31  Identities=32%  Similarity=0.680  Sum_probs=28.1

Q ss_pred             cccccCcccCCCCeEeeCCeecccccccccc
Q psy15692        108 TCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL  138 (278)
Q Consensus       108 ~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~  138 (278)
                      .|..|+++|.++.|..+|++|||-.||..+|
T Consensus         1 ~C~~C~~~L~GQry~~rd~~PyC~~Cf~~lf   31 (32)
T d2d8za2           1 VCTACRKQLSGQRFTARDDFAYCLNCFCDLY   31 (32)
T ss_dssp             BCSSSCCBCTTSCCEESSSSEECHHHHHHHT
T ss_pred             CcccCCccccCceeeecCCCeehHHhhHhhc
Confidence            4889999999999999999999999997654

>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=97.83  E-value=2.2e-06  Score=46.92  Aligned_cols=32  Identities=34%  Similarity=0.757  Sum_probs=30.0

Q ss_pred             ccccccCcccCCCCeEeeCCeecccccccccc
Q psy15692        107 FTCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL  138 (278)
Q Consensus       107 f~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~  138 (278)
                      |+|+.|.+|+-+...|++.|..||+.+|.++|
T Consensus         1 FvCA~CekPF~G~rhyE~~g~ayCe~Hy~qLf   32 (35)
T d1u5sb2           1 FVCAKCEKPFLGHRHYERKGLAYCETHYNQLF   32 (35)
T ss_dssp             CBCTTTCCBCSSSCCEEETTEEECHHHHHHHC
T ss_pred             CcccccCCccCCchhhhhcCchHHHHHHHHHh
Confidence            78999999999999999999999999998765

>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=97.82  E-value=3e-06  Score=45.66  Aligned_cols=30  Identities=33%  Similarity=0.854  Sum_probs=26.3

Q ss_pred             cccccCcccCCCCeEeeCCeecccccccccc
Q psy15692        108 TCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL  138 (278)
Q Consensus       108 ~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~  138 (278)
                      +|..|++.|.+. |..+||.|||+.||...|
T Consensus         1 kC~~C~~vL~gE-Ym~kdG~PyCe~DY~~~F   30 (31)
T d2dj7a1           1 KCQTCSVILTGE-YISKDGVPYCESDYHAQF   30 (31)
T ss_dssp             BCSSSCCBCSSC-CEEETTEEECTTHHHHHT
T ss_pred             CccccCccccce-eecCCCCcccHHHHHHhc
Confidence            589999999874 899999999999998654

>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=97.81  E-value=2.8e-06  Score=51.67  Aligned_cols=39  Identities=23%  Similarity=0.447  Sum_probs=34.3

Q ss_pred             cccccCcccCCCCeEeeCCeecccccccccc-cccccccc
Q psy15692        108 TCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL-EKCSVCVK  146 (278)
Q Consensus       108 ~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~-~~C~~C~~  146 (278)
                      +|..|++.|++....++|+++||+.||.++| |+....+.
T Consensus         1 KC~~C~k~Lds~t~~ehdg~~YCk~CY~k~fGPKG~g~G~   40 (49)
T d1b8ta4           1 RCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKGFGFGQ   40 (49)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHTCCCCCCCCC
T ss_pred             ChhhcCCccCCCcccccCCcccchhhhhhccCCCccCccc
Confidence            6899999999999999999999999999988 77765553

>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=97.81  E-value=5.1e-06  Score=47.01  Aligned_cols=29  Identities=31%  Similarity=0.662  Sum_probs=26.5

Q ss_pred             ccccccCCCeeeCCcceeeeCCcccccccc
Q psy15692         78 FGECCKCGERILGEGSGCTAMDKVYHISCF  107 (278)
Q Consensus        78 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  107 (278)
                      ...|..|+|.|+..+. +.++|+.||..||
T Consensus         7 ~~kC~~C~K~VY~~E~-~~a~g~~~Hk~CF   35 (35)
T d2d8ya1           7 RETCVECQKTVYPMER-LLANQQVFHISCF   35 (35)
T ss_dssp             SCBCTTTCCBCCTTSE-EECSSSEEETTTC
T ss_pred             CcccccCCCEEeeeee-EecCCeehhhccC
Confidence            3569999999999996 8999999999998

>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=97.77  E-value=5e-06  Score=43.83  Aligned_cols=27  Identities=26%  Similarity=0.621  Sum_probs=22.6

Q ss_pred             cccCCCeeeC--CcceeeeCCcccccccc
Q psy15692         81 CCKCGERILG--EGSGCTAMDKVYHISCF  107 (278)
Q Consensus        81 C~~C~~~I~~--~~~~~~~~~~~~H~~Cf  107 (278)
                      |+.|.+||.+  ....|+..++.||.+||
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            8899999973  33447999999999998

>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=97.76  E-value=3.8e-06  Score=45.47  Aligned_cols=27  Identities=33%  Similarity=0.705  Sum_probs=24.1

Q ss_pred             cccccccccccccc-eEEcCCcCCcCee
Q psy15692        139 EKCSVCVKPILDRI-LRATGRPYHPACF  165 (278)
Q Consensus       139 ~~C~~C~~~I~~~~-~~~~~~~~H~~Cf  165 (278)
                      ..|++|+++|.|++ +.+.++.||..|+
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            57999999999985 6889999999985

>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=97.74  E-value=2.9e-06  Score=44.78  Aligned_cols=30  Identities=33%  Similarity=0.744  Sum_probs=27.9

Q ss_pred             ccccccCcccCCCCeEeeCCeecccccccc
Q psy15692        107 FTCDHCAVQLEGKPFYIIEGHAYCEQGYLD  136 (278)
Q Consensus       107 f~C~~C~~~l~~~~f~~~~g~~yC~~~y~~  136 (278)
                      |+|..|++.|.+.....+||.+||+.||.+
T Consensus         1 frca~cgk~lestt~adkdgeiyck~cyak   30 (31)
T d1ibia2           1 FRCAKCGKSLESTTLTEKEGEIYCKGCYAK   30 (31)
T ss_dssp             EECSSSCCEECSSCSEEETTEEECHHHHHH
T ss_pred             CccccccCccccceeeccCCcEEEeeeeec
Confidence            799999999999889999999999999964

>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=97.73  E-value=7.2e-06  Score=42.22  Aligned_cols=27  Identities=30%  Similarity=0.731  Sum_probs=24.1

Q ss_pred             CcccCccccCCCCCCceeEEEcCCcccccCCc
Q psy15692        201 CCVCRAPIMPDSEQDETVRVVALDRSFHIGCY  232 (278)
Q Consensus       201 C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf  232 (278)
                      |..|.+.|+|+.     ..+...|..||..||
T Consensus         1 C~~C~ktiMPGs-----rKme~kG~~WHEtCF   27 (27)
T d1x4ka2           1 CQECKKTIMPGT-----RKMEYKGSSWHETCF   27 (27)
T ss_dssp             BSSSCCCCCSSS-----CEEEETTEEEETTTT
T ss_pred             CccccccccCCc-----eeecccCCccccccC
Confidence            788999999874     478999999999998

>d1x62a2 g.39.1.3 (A:8-42) PDZ and LIM domain protein 1 Elfin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 1 Elfin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.73  E-value=4.4e-06  Score=45.78  Aligned_cols=29  Identities=28%  Similarity=0.682  Sum_probs=27.3

Q ss_pred             cccccccccccccccceEEcCCcCCcCee
Q psy15692        137 TLEKCSVCVKPILDRILRATGRPYHPACF  165 (278)
Q Consensus       137 ~~~~C~~C~~~I~~~~~~~~~~~~H~~Cf  165 (278)
                      ..|.|..|+..|.+.+|.++++.+|++||
T Consensus         7 klp~CdkCg~GIVG~~VK~rDk~rHPeCf   35 (35)
T d1x62a2           7 KLPMCDKCGTGIVGVFVKLRDRHRHPECY   35 (35)
T ss_dssp             CCCCCSSSCCCCCSSCEECSSCEECTTTT
T ss_pred             cCccccccCCCcEeEEEEeccccCCCCCC
Confidence            45899999999999999999999999997

>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=97.70  E-value=1.3e-05  Score=43.82  Aligned_cols=34  Identities=21%  Similarity=0.490  Sum_probs=30.3

Q ss_pred             ecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCC
Q psy15692        165 FTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAP  199 (278)
Q Consensus       165 f~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~  199 (278)
                      |+|..|.+++-|...+ ++.|..||+.||+++|+.
T Consensus         1 FvCA~CekPF~G~rhy-E~~g~ayCe~Hy~qLfg~   34 (35)
T d1u5sb2           1 FVCAKCEKPFLGHRHY-ERKGLAYCETHYNQLFGD   34 (35)
T ss_dssp             CBCTTTCCBCSSSCCE-EETTEEECHHHHHHHCSC
T ss_pred             CcccccCCccCCchhh-hhcCchHHHHHHHHHhcc
Confidence            7899999999988776 478999999999999874

>d1rutx3 g.39.1.3 (X:83-113) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.70  E-value=8.9e-06  Score=44.27  Aligned_cols=28  Identities=21%  Similarity=0.636  Sum_probs=25.5

Q ss_pred             CCcccCccccCCCCCCceeEEEcCCcccccCCc
Q psy15692        200 RCCVCRAPIMPDSEQDETVRVVALDRSFHIGCY  232 (278)
Q Consensus       200 ~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf  232 (278)
                      .|.+|++.|.+.+     .++.+++..||..||
T Consensus         4 ~Ca~C~~~I~~~e-----~VmRA~~~VyHl~CF   31 (31)
T d1rutx3           4 ACSACGQSIPASE-----LVMRAQGNVYHLKCF   31 (31)
T ss_dssp             ECTTTCCEECTTS-----EEEEETTEEECGGGC
T ss_pred             ccccccCcCChhH-----hheecccceeeeccC
Confidence            5999999999987     478899999999998

>d2cuqa1 g.39.1.3 (A:43-74) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.68  E-value=4.6e-06  Score=45.01  Aligned_cols=31  Identities=23%  Similarity=0.602  Sum_probs=27.9

Q ss_pred             cccccCcccCCCCeEeeCCeecccccccccc
Q psy15692        108 TCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL  138 (278)
Q Consensus       108 ~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~  138 (278)
                      .|..|+++|+++.|..+|.+|||.+||-++|
T Consensus         1 vCt~Ck~~LaGqrFTSrde~pYC~~Cfg~Lf   31 (32)
T d2cuqa1           1 VCTGCQTPLAGQQFTSRDEDPYCVACFGELF   31 (32)
T ss_dssp             BCSSSCCBCTTCCEEECSSSEEEHHHHHHHT
T ss_pred             CccccCccccCCccccCCCCccHHHHhHhhc
Confidence            4899999999999999999999999996653

>d2cupa3 g.39.1.3 (A:8-34) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.66  E-value=1.1e-05  Score=41.30  Aligned_cols=27  Identities=22%  Similarity=0.660  Sum_probs=24.3

Q ss_pred             cccCCCeeeCCcceeeeCCcccccccc
Q psy15692         81 CCKCGERILGEGSGCTAMDKVYHISCF  107 (278)
Q Consensus        81 C~~C~~~I~~~~~~~~~~~~~~H~~Cf  107 (278)
                      |..|.+||..+...+...+++||..||
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            788999999777778899999999998

>d1rutx3 g.39.1.3 (X:83-113) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.66  E-value=1.2e-05  Score=43.71  Aligned_cols=30  Identities=37%  Similarity=0.784  Sum_probs=27.2

Q ss_pred             ccccccCCCeeeCCcceeeeCCcccccccc
Q psy15692         78 FGECCKCGERILGEGSGCTAMDKVYHISCF  107 (278)
Q Consensus        78 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  107 (278)
                      .+.|++|++.|...+....|.++.||..||
T Consensus         2 ~g~Ca~C~~~I~~~e~VmRA~~~VyHl~CF   31 (31)
T d1rutx3           2 SGACSACGQSIPASELVMRAQGNVYHLKCF   31 (31)
T ss_dssp             CEECTTTCCEECTTSEEEEETTEEECGGGC
T ss_pred             CcccccccCcCChhHhheecccceeeeccC
Confidence            357999999999988878999999999998

>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=97.63  E-value=1.4e-05  Score=41.07  Aligned_cols=27  Identities=26%  Similarity=0.726  Sum_probs=24.1

Q ss_pred             CcccCccccCCCCCCceeEEEcCCcccccCCc
Q psy15692        201 CCVCRAPIMPDSEQDETVRVVALDRSFHIGCY  232 (278)
Q Consensus       201 C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf  232 (278)
                      |..|.+.|+|+.     ..+...|..||..||
T Consensus         1 C~~C~ktiMPGs-----rKmey~G~sWHE~CF   27 (27)
T d1wyha2           1 CSACGETVMPGS-----RKLEYGGQTWHEHCF   27 (27)
T ss_dssp             CSSSCCBCCSSS-----CEECSTTCCEETTTC
T ss_pred             CccccceecCCc-----ccccccCcccccccC
Confidence            789999999874     478899999999998

>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=97.62  E-value=2e-05  Score=42.33  Aligned_cols=29  Identities=24%  Similarity=0.568  Sum_probs=26.0

Q ss_pred             CCCCcccCccccCCCCCCceeEEEcCCcccccCCc
Q psy15692        198 APRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCY  232 (278)
Q Consensus       198 ~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf  232 (278)
                      .++|.+|++++...+      .+..+|+.||..|.
T Consensus         2 ~~~CprC~K~VYfaE------k~~~lgk~WHk~Cl   30 (30)
T d2cu8a1           2 ASKCPKCDKTVYFAE------KVSSLGKDWHKFCL   30 (30)
T ss_dssp             CCBCTTTCCBCCTTT------EEEETTEEEETTTC
T ss_pred             CCcCCCCCCceeeHH------hhccCCcccccccC
Confidence            578999999999886      78999999999884

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

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

Probab=97.62  E-value=1.3e-05  Score=44.35  Aligned_cols=28  Identities=29%  Similarity=0.860  Sum_probs=24.4

Q ss_pred             CCCcccCccccCCCCCCceeEEEcCCcccccCCc
Q psy15692        199 PRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCY  232 (278)
Q Consensus       199 ~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf  232 (278)
                      ..|++|++.|..+.      .++++++.||.+||
T Consensus         9 ~~CagCg~eik~gQ------aL~ALdkqWH~~CF   36 (36)
T d2dj7a2           9 SHCAGCKEEIKHGQ------SLLALDKQWHVSCF   36 (36)
T ss_dssp             SCCTTTCCCCSSSC------CEEETTEEECTTTC
T ss_pred             ccccccchhhhCCc------eeeeeecceeeeeC
Confidence            46999999998653      67899999999998

>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=97.61  E-value=7.6e-06  Score=43.72  Aligned_cols=29  Identities=45%  Similarity=1.019  Sum_probs=26.7

Q ss_pred             cccccCcccCCCCeEeeCCeecccccccc
Q psy15692        108 TCDHCAVQLEGKPFYIIEGHAYCEQGYLD  136 (278)
Q Consensus       108 ~C~~C~~~l~~~~f~~~~g~~yC~~~y~~  136 (278)
                      .|..|+..|.++.||..+.+.||+.||..
T Consensus         1 vC~tC~~kLRGqpFYAvekkayCE~CYi~   29 (32)
T d1x61a2           1 VCSTCRAQLRGQHFYAVERRAYCEGCYVA   29 (32)
T ss_dssp             BCSSSCCBCTTSCEEESSSCEEEHHHHHH
T ss_pred             CeeEeCceecCCcceEeeccccccceeee
Confidence            48899999999999999999999999964

>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=97.61  E-value=1.4e-05  Score=41.17  Aligned_cols=27  Identities=22%  Similarity=0.565  Sum_probs=24.5

Q ss_pred             cccCCCeeeCCcceeeeCCcccccccc
Q psy15692         81 CCKCGERILGEGSGCTAMDKVYHISCF  107 (278)
Q Consensus        81 C~~C~~~I~~~~~~~~~~~~~~H~~Cf  107 (278)
                      |..|.+.|.+....+...|..||..||
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            789999999877778999999999998

>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=97.60  E-value=5.6e-06  Score=43.91  Aligned_cols=29  Identities=31%  Similarity=0.843  Sum_probs=25.8

Q ss_pred             CCCCcccCccccCCCCCCceeEEEcCCcccccCCc
Q psy15692        198 APRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCY  232 (278)
Q Consensus       198 ~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf  232 (278)
                      .+.|++|++.+.+.+      .+.-+|+.||..||
T Consensus         2 n~~CaRC~k~VYp~E------kl~ClDk~WHK~CF   30 (30)
T d1zfoa_           2 NPNCARCGKIVYPTE------KVNCLDKFWHKACF   30 (30)
T ss_dssp             CCBCSSSCSBCCGGG------CCCSSSSCCCGGGC
T ss_pred             CCcccccCCccccHH------HhhhhHHHHhhccC
Confidence            478999999999876      57899999999998

>d1x64a1 g.39.1.3 (A:8-52) PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 3, PDLIM3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.60  E-value=9.2e-06  Score=47.53  Aligned_cols=30  Identities=27%  Similarity=0.700  Sum_probs=27.7

Q ss_pred             ccccccccccccccccceEEcCCcCCcCee
Q psy15692        136 DTLEKCSVCVKPILDRILRATGRPYHPACF  165 (278)
Q Consensus       136 ~~~~~C~~C~~~I~~~~~~~~~~~~H~~Cf  165 (278)
                      +..+.|..|+..|.+.+|.++++.+|++||
T Consensus        16 QkLP~CdkCg~GIVG~~VK~rDK~rHPeCf   45 (45)
T d1x64a1          16 QRMPLCDKCGSGIVGAVVKARDKYRHPECF   45 (45)
T ss_dssp             CSCCBCTTTCCBCCSCCEESSSCEECTTTC
T ss_pred             ccCccccccCCCcEEEEEEeccccCCCCCC
Confidence            345899999999999999999999999998

>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=97.59  E-value=8.5e-06  Score=42.97  Aligned_cols=31  Identities=35%  Similarity=0.807  Sum_probs=25.8

Q ss_pred             cccCCCCCCCCCCcCCCceeecCCccccccchhHh
Q psy15692        232 YRCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKR  266 (278)
Q Consensus       232 f~C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~~~~  266 (278)
                      |+|..|++.|.+..    .-..+|.+||+.||+|.
T Consensus         1 frca~cgk~lestt----~adkdgeiyck~cyak~   31 (31)
T d1ibia2           1 FRCAKCGKSLESTT----LTEKEGEIYCKGCYAKN   31 (31)
T ss_dssp             EECSSSCCEECSSC----SEEETTEEECHHHHHHC
T ss_pred             CccccccCccccce----eeccCCcEEEeeeeecC
Confidence            79999999997642    45679999999999873

>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=97.58  E-value=1e-05  Score=43.58  Aligned_cols=26  Identities=35%  Similarity=0.675  Sum_probs=23.2

Q ss_pred             cccccccccccccc-eEEcCCcCCcCe
Q psy15692        139 EKCSVCVKPILDRI-LRATGRPYHPAC  164 (278)
Q Consensus       139 ~~C~~C~~~I~~~~-~~~~~~~~H~~C  164 (278)
                      ..|++|+++|.+++ +.+.++.||.+|
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            46999999999985 688999999987

>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=97.55  E-value=1.8e-05  Score=40.63  Aligned_cols=27  Identities=26%  Similarity=0.683  Sum_probs=24.3

Q ss_pred             cccCCCeeeCCcceeeeCCcccccccc
Q psy15692         81 CCKCGERILGEGSGCTAMDKVYHISCF  107 (278)
Q Consensus        81 C~~C~~~I~~~~~~~~~~~~~~H~~Cf  107 (278)
                      |..|.|.|.+....+...|..||..||
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            788999999877778889999999998

>d1x68a1 g.39.1.3 (A:8-36) Four and a half LIM domains protein 5, FHL-5 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 5, FHL-5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.53  E-value=1.9e-05  Score=41.50  Aligned_cols=27  Identities=30%  Similarity=0.640  Sum_probs=22.6

Q ss_pred             cccCCCeeeC--CcceeeeCCcccccccc
Q psy15692         81 CCKCGERILG--EGSGCTAMDKVYHISCF  107 (278)
Q Consensus        81 C~~C~~~I~~--~~~~~~~~~~~~H~~Cf  107 (278)
                      |..|.|||.+  ....|...++.||.+||
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            7899999974  33457999999999998

>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=97.51  E-value=3e-05  Score=43.76  Aligned_cols=29  Identities=31%  Similarity=0.825  Sum_probs=26.6

Q ss_pred             CCCCcccCccccCCCCCCceeEEEcCCcccccCCc
Q psy15692        198 APRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCY  232 (278)
Q Consensus       198 ~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf  232 (278)
                      ..+|..|++.+.+-+      ++.+.|+.||..||
T Consensus         7 ~~kC~~C~K~VY~~E------~~~a~g~~~Hk~CF   35 (35)
T d2d8ya1           7 RETCVECQKTVYPME------RLLANQQVFHISCF   35 (35)
T ss_dssp             SCBCTTTCCBCCTTS------EEECSSSEEETTTC
T ss_pred             CcccccCCCEEeeee------eEecCCeehhhccC
Confidence            568999999999876      88999999999998

>d1x6aa1 g.39.1.3 (A:8-41) Lim domain kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Lim domain kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.50  E-value=2e-05  Score=43.08  Aligned_cols=33  Identities=27%  Similarity=0.577  Sum_probs=29.8

Q ss_pred             ccccccc-cccccccccccccceEEcCCcCCcCe
Q psy15692        132 QGYLDTL-EKCSVCVKPILDRILRATGRPYHPAC  164 (278)
Q Consensus       132 ~~y~~~~-~~C~~C~~~I~~~~~~~~~~~~H~~C  164 (278)
                      .||..+| ..|..|.+.|.+.++.|.+..||++|
T Consensus         1 kdYw~kfge~C~~C~~~itGpvMvAG~~K~HPEC   34 (34)
T d1x6aa1           1 KDYWGKFGEFCHGCSLLMTGPFMVAGEFKYHPEC   34 (34)
T ss_dssp             CCSSCCSSCBCTTTCCBCCSCCBCCTTCCBCTTS
T ss_pred             CcHHHHHHHHhhhhHhhcccceeeecccccCCCC
Confidence            3677777 79999999999999999999999997

>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=97.50  E-value=6.4e-06  Score=48.41  Aligned_cols=31  Identities=19%  Similarity=0.562  Sum_probs=28.8

Q ss_pred             cccccCcccCCCCeEeeCCeecccccccccc
Q psy15692        108 TCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL  138 (278)
Q Consensus       108 ~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~  138 (278)
                      +|.+|+..|....|...+|.+||++||.++|
T Consensus         1 rC~~C~~~Ls~~~yas~~G~lYCkpHf~qLF   31 (42)
T d2d8ya2           1 RCSYCNNKLSLGTYASLHGRIYCKPHFNQLF   31 (42)
T ss_dssp             BCTTTCCBCCTTTCCCSSSCCCCHHHHHHHS
T ss_pred             CcCcCCCCccCCcchhhCCEeccHHHHHHHH
Confidence            6999999999889999999999999998776

>d1x62a2 g.39.1.3 (A:8-42) PDZ and LIM domain protein 1 Elfin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 1 Elfin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.46  E-value=3.3e-05  Score=42.24  Aligned_cols=28  Identities=36%  Similarity=0.535  Sum_probs=25.2

Q ss_pred             CCCCcccCccccCCCCCCceeEEEcCCcccccCCc
Q psy15692        198 APRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCY  232 (278)
Q Consensus       198 ~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf  232 (278)
                      .|.|..|+..|.+.       +|.++++.+|++||
T Consensus         8 lp~CdkCg~GIVG~-------~VK~rDk~rHPeCf   35 (35)
T d1x62a2           8 LPMCDKCGTGIVGV-------FVKLRDRHRHPECY   35 (35)
T ss_dssp             CCCCSSSCCCCCSS-------CEECSSCEECTTTT
T ss_pred             CccccccCCCcEeE-------EEEeccccCCCCCC
Confidence            47899999999975       78899999999998

>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=97.45  E-value=3.8e-05  Score=46.03  Aligned_cols=35  Identities=23%  Similarity=0.509  Sum_probs=30.8

Q ss_pred             cCCCCCCCCCCCCeEEcCCCcccc-hhhhhcccCCCC
Q psy15692        166 TCVVCGKSLDGIPFTVDAANQIHC-IQDFHKKFAPRC  201 (278)
Q Consensus       166 ~C~~C~~~l~~~~~~~~~~~~~~C-~~~y~~~~~~~C  201 (278)
                      +|..|++.|++.... +++++||| +.||.++|+|+=
T Consensus         1 kC~~C~K~L~sg~~a-eHdg~pYC~k~CY~~~FGPkG   36 (48)
T d1imla2           1 KCEKCGKTLTSGGHA-EHEGKPYCNHPCYSAMFGPKG   36 (48)
T ss_dssp             BCTTTCCBCCTTTEE-EETTEEEETTTHHHHHSSCCC
T ss_pred             CchhcCcCcCCCChh-hcCCcccccccchhhccCCCc
Confidence            689999999988776 48999999 779999999974

>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=97.42  E-value=1.8e-05  Score=42.90  Aligned_cols=31  Identities=19%  Similarity=0.514  Sum_probs=28.1

Q ss_pred             cccccCcccCCCCeEeeCCeecccccccccc
Q psy15692        108 TCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL  138 (278)
Q Consensus       108 ~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~  138 (278)
                      .|..|+.||+.++|..+++..||-.||.+.|
T Consensus         1 ~C~~C~qPIGtksfipk~~~~yCvpCyE~kf   31 (32)
T d1x4ka1           1 ICHRCQQPIGTKSFIPKDNQNFCVPCYEKQH   31 (32)
T ss_dssp             CCSSSCCCCCSSSEEEETTEEEEHHHHHHHT
T ss_pred             CcccccCcccccccccCCCCceEeecchhhc
Confidence            3789999999999999999999999998754

>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=97.41  E-value=3.9e-05  Score=44.99  Aligned_cols=34  Identities=21%  Similarity=0.501  Sum_probs=29.6

Q ss_pred             cCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCC
Q psy15692        166 TCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPR  200 (278)
Q Consensus       166 ~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~  200 (278)
                      +|..|++.|.-..|.. .+|.+||+.||.++|.++
T Consensus         1 rC~~C~~~Ls~~~yas-~~G~lYCkpHf~qLF~~k   34 (42)
T d2d8ya2           1 RCSYCNNKLSLGTYAS-LHGRIYCKPHFNQLFKSK   34 (42)
T ss_dssp             BCTTTCCBCCTTTCCC-SSSCCCCHHHHHHHSCCC
T ss_pred             CcCcCCCCccCCcchh-hCCEeccHHHHHHHHHhh
Confidence            6999999999767764 689999999999999875

>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=97.40  E-value=4.8e-05  Score=41.17  Aligned_cols=32  Identities=25%  Similarity=0.528  Sum_probs=28.6

Q ss_pred             cCCCCCCCCCCCCeEEcCCCcccchhhhhcccC
Q psy15692        166 TCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFA  198 (278)
Q Consensus       166 ~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~  198 (278)
                      .|..|+++|+...|.- +++..||..||+++||
T Consensus         1 ~C~~C~qPIGtksfip-k~~~~yCvpCyE~kfA   32 (32)
T d1x4ka1           1 ICHRCQQPIGTKSFIP-KDNQNFCVPCYEKQHA   32 (32)
T ss_dssp             CCSSSCCCCCSSSEEE-ETTEEEEHHHHHHHTS
T ss_pred             CcccccCccccccccc-CCCCceEeecchhhcC
Confidence            3889999999999975 7899999999999885

>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=97.39  E-value=1.6e-05  Score=42.96  Aligned_cols=30  Identities=30%  Similarity=0.563  Sum_probs=27.2

Q ss_pred             cccccCcccCCCCeEeeCCeeccccccccc
Q psy15692        108 TCDHCAVQLEGKPFYIIEGHAYCEQGYLDT  137 (278)
Q Consensus       108 ~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~  137 (278)
                      .|+.|+.+|....|.+.+|++||+.||.+.
T Consensus         1 nCa~C~~sL~d~gFVEE~g~lYCe~Cye~f   30 (32)
T d2dara1           1 NCAHCKNTMAYIGFVEEKGALYCELCYEKF   30 (32)
T ss_dssp             BCSSSCCBCSSSCBEESSSCEECHHHHHHH
T ss_pred             CcccccccHhhcceeeecCcEeHHHHHHHh
Confidence            489999999999999999999999999753

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

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

Probab=97.38  E-value=2.3e-05  Score=46.54  Aligned_cols=29  Identities=21%  Similarity=0.661  Sum_probs=25.9

Q ss_pred             CCCCcccCccccCCCCCCceeEEEcCCcccccCCc
Q psy15692        198 APRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCY  232 (278)
Q Consensus       198 ~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf  232 (278)
                      +++|..|++.+.+.|      ++.+.|+.||..||
T Consensus        15 ~~kC~~C~k~VY~~E------~~~~~g~~~Hk~CF   43 (43)
T d1b8ta3          15 SDGCPRCGQAVYAAE------KVIGAGKSWHKSCF   43 (43)
T ss_dssp             CEECTTTSCEECSSS------CEEETTEEECTTTC
T ss_pred             CCcCccCCCEeeHHH------HhhcCCCccccCCC
Confidence            367999999999876      68899999999998

>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=97.37  E-value=5.1e-05  Score=40.97  Aligned_cols=32  Identities=25%  Similarity=0.536  Sum_probs=28.4

Q ss_pred             cCCCCCCCCCCCCeEEcCCCcccchhhhhcccC
Q psy15692        166 TCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFA  198 (278)
Q Consensus       166 ~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~  198 (278)
                      .|..|+++|+...|.- +++..||..||+++||
T Consensus         1 ~C~~C~qPIGtkSFip-~~~~~yCvpCYE~kfA   32 (32)
T d1wyha1           1 LCSGCEQPLGSRSFVP-DKGAHYCVPCYENKFA   32 (32)
T ss_dssp             BCTTTCCBTTTSCEEE-ETTEEEEHHHHHHHTS
T ss_pred             CcccccCccccccccc-CCCcEEEEeccccccC
Confidence            3889999999999976 6789999999999886

>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=97.35  E-value=2.5e-05  Score=42.21  Aligned_cols=31  Identities=26%  Similarity=0.603  Sum_probs=28.0

Q ss_pred             cccccCcccCCCCeEeeCCeecccccccccc
Q psy15692        108 TCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL  138 (278)
Q Consensus       108 ~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~  138 (278)
                      .|..|+.||..++|..+++..||-+||.+.|
T Consensus         1 ~C~~C~qPIGtkSFip~~~~~yCvpCYE~kf   31 (32)
T d1wyha1           1 LCSGCEQPLGSRSFVPDKGAHYCVPCYENKF   31 (32)
T ss_dssp             BCTTTCCBTTTSCEEEETTEEEEHHHHHHHT
T ss_pred             CcccccCcccccccccCCCcEEEEecccccc
Confidence            3789999999999999999999999998654

>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=97.34  E-value=3.8e-05  Score=46.01  Aligned_cols=31  Identities=26%  Similarity=0.592  Sum_probs=28.5

Q ss_pred             cccccCcccCCCCeEeeCCeecc-cccccccc
Q psy15692        108 TCDHCAVQLEGKPFYIIEGHAYC-EQGYLDTL  138 (278)
Q Consensus       108 ~C~~C~~~l~~~~f~~~~g~~yC-~~~y~~~~  138 (278)
                      +|..|++.|......++|++||| +.||..+|
T Consensus         1 kC~~C~K~L~sg~~aeHdg~pYC~k~CY~~~F   32 (48)
T d1imla2           1 KCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMF   32 (48)
T ss_dssp             BCTTTCCBCCTTTEEEETTEEEETTTHHHHHS
T ss_pred             CchhcCcCcCCCChhhcCCcccccccchhhcc
Confidence            68999999999999999999999 77998876

>d1x64a1 g.39.1.3 (A:8-52) PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 3, PDLIM3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.32  E-value=5.1e-05  Score=44.29  Aligned_cols=28  Identities=32%  Similarity=0.553  Sum_probs=25.1

Q ss_pred             CCCCcccCccccCCCCCCceeEEEcCCcccccCCc
Q psy15692        198 APRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCY  232 (278)
Q Consensus       198 ~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf  232 (278)
                      .+.|..|+..|.+.       +|.++|+.+|++||
T Consensus        18 LP~CdkCg~GIVG~-------~VK~rDK~rHPeCf   45 (45)
T d1x64a1          18 MPLCDKCGSGIVGA-------VVKARDKYRHPECF   45 (45)
T ss_dssp             CCBCTTTCCBCCSC-------CEESSSCEECTTTC
T ss_pred             CccccccCCCcEEE-------EEEeccccCCCCCC
Confidence            47799999999975       78999999999998

>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=97.32  E-value=4.4e-05  Score=43.21  Aligned_cols=29  Identities=21%  Similarity=0.540  Sum_probs=26.2

Q ss_pred             CCCCcccCccccCCCCCCceeEEEcCCcccccCCc
Q psy15692        198 APRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCY  232 (278)
Q Consensus       198 ~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf  232 (278)
                      ..+|..|++.+.+-+      ++.+.|+.||..||
T Consensus         8 ~~~C~~C~K~VY~~E------rl~a~g~~yHk~CF   36 (36)
T d2co8a2           8 GDLCALCGEHLYVLE------RLCVNGHFFHRSCF   36 (36)
T ss_dssp             SCBCSSSCCBCCTTT------BCCBTTBCCBTTTC
T ss_pred             CCcccccCCEEeeee------EEEecCcEeccccC
Confidence            468999999999876      78899999999998

>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=97.31  E-value=5.5e-05  Score=38.05  Aligned_cols=27  Identities=48%  Similarity=1.324  Sum_probs=25.0

Q ss_pred             cccCCCeeeCCcceeeeCCcccccccc
Q psy15692         81 CCKCGERILGEGSGCTAMDKVYHISCF  107 (278)
Q Consensus        81 C~~C~~~I~~~~~~~~~~~~~~H~~Cf  107 (278)
                      |.+|++.+.++..++.++++.||..||
T Consensus         1 cggcgedvvgdgagvvaldrvfhvgcf   27 (27)
T d1x61a1           1 CGGCGEDVVGDGAGVVALDRVFHVGCF   27 (27)
T ss_dssp             CSSSCSCCCSSSCCEECSSSEECTTTC
T ss_pred             CCCcccccccCCcceEEEeeeEEeccC
Confidence            789999999888889999999999998

>d1wiga1 g.39.1.3 (A:1-32) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.20  E-value=4.7e-05  Score=40.47  Aligned_cols=26  Identities=42%  Similarity=0.908  Sum_probs=24.2

Q ss_pred             cccccccccccccceEEcCCcCCcCe
Q psy15692        139 EKCSVCVKPILDRILRATGRPYHPAC  164 (278)
Q Consensus       139 ~~C~~C~~~I~~~~~~~~~~~~H~~C  164 (278)
                      .-|..|.+.|.++++++.++.||+.|
T Consensus         6 sgC~~C~~~ItGkVLEAG~khYHP~C   31 (32)
T d1wiga1           6 SGCDSCEKYITGRVLEAGEKHYHPSC   31 (32)
T ss_dssp             CSCSSSCCCCSSCCBCCSSCCBCTTT
T ss_pred             chhhhhhhhhhhhhhhccccccCCCC
Confidence            46999999999999999999999987

>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=97.19  E-value=8.4e-05  Score=47.62  Aligned_cols=37  Identities=30%  Similarity=0.593  Sum_probs=32.0

Q ss_pred             cCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCcc
Q psy15692        166 TCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCV  203 (278)
Q Consensus       166 ~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~  203 (278)
                      .|..|++.|++.... ++++.+||+.||.++|+|+=.+
T Consensus         1 ~C~~C~K~LdS~~~~-eh~~e~YCk~CY~k~fGPkG~G   37 (65)
T d1b8ta2           1 LCMVCKKNLDSTTVA-VHGDEIYCKSCYGKKYGPKGKG   37 (65)
T ss_dssp             BCTTTCCBCCSSSEE-EETTEEEEHHHHHHHHSCCCCC
T ss_pred             CchhcCCccCCCccc-cCCCcccchhhhccccCCCccc
Confidence            489999999988876 4789999999999999998543

>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=97.18  E-value=0.00014  Score=39.25  Aligned_cols=32  Identities=25%  Similarity=0.501  Sum_probs=27.5

Q ss_pred             cCCCCCCCCCCCCeEEcCCCcccchhhhhcccC
Q psy15692        166 TCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFA  198 (278)
Q Consensus       166 ~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~  198 (278)
                      .|..|+.+|....|.. ..|++||+.||.+-|+
T Consensus         1 nCa~C~~sL~d~gFVE-E~g~lYCe~Cye~ffA   32 (32)
T d2dara1           1 NCAHCKNTMAYIGFVE-EKGALYCELCYEKFFA   32 (32)
T ss_dssp             BCSSSCCBCSSSCBEE-SSSCEECHHHHHHHTS
T ss_pred             CcccccccHhhcceee-ecCcEeHHHHHHHhcC
Confidence            3889999999999975 6799999999988764

>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=97.16  E-value=5.9e-05  Score=40.07  Aligned_cols=29  Identities=31%  Similarity=0.761  Sum_probs=26.6

Q ss_pred             cccccCcccCCCCeEeeCCeecccccccc
Q psy15692        108 TCDHCAVQLEGKPFYIIEGHAYCEQGYLD  136 (278)
Q Consensus       108 ~C~~C~~~l~~~~f~~~~g~~yC~~~y~~  136 (278)
                      .|..|+++|++..|-..++++||-+||..
T Consensus         1 vC~~C~K~Lag~rFTa~eDq~yCVdCYK~   29 (31)
T d2cura1           1 VCVTCSKKLAGQRFTAVEDQYYCVDCYKN   29 (31)
T ss_dssp             BCTTTCCBCTTSCEEECSSCEEEHHHHHH
T ss_pred             CcccccchhcCceeEEecceEEEeeeecc
Confidence            48899999999999999999999999963

>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=97.09  E-value=0.0001  Score=39.93  Aligned_cols=31  Identities=19%  Similarity=0.544  Sum_probs=26.6

Q ss_pred             cccccCcccCCCCeEeeCCeeccc-ccccccc
Q psy15692        108 TCDHCAVQLEGKPFYIIEGHAYCE-QGYLDTL  138 (278)
Q Consensus       108 ~C~~C~~~l~~~~f~~~~g~~yC~-~~y~~~~  138 (278)
                      +|..|++.|......+++|+|||. +||..+|
T Consensus         1 kCekC~ktL~~G~HaEH~gkPYC~~PCY~aLF   32 (33)
T d2cu8a2           1 KCERCSKTLTPGGHAEHDGKPFCHKPCYATLF   32 (33)
T ss_dssp             BCSSSCCBCCTTSCEEETTEEECTTTHHHHHS
T ss_pred             CchhcccccCCCCccccCCCcCcCcchHHhhc
Confidence            588999999998999999999996 4886543

>d1b8ta1 g.39.1.3 (A:1-35) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]}

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

Probab=97.07  E-value=0.00022  Score=38.54  Aligned_cols=31  Identities=19%  Similarity=0.369  Sum_probs=26.9

Q ss_pred             CCccccccCCCeeeCCcceeeeCCcccccccc
Q psy15692         76 DLFGECCKCGERILGEGSGCTAMDKVYHISCF  107 (278)
Q Consensus        76 ~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  107 (278)
                      .+...|+.|.+.|+-.+- +...|+.||..||
T Consensus         5 ggg~kcg~c~ktvy~aee-vqc~g~sfhk~cf   35 (35)
T d1b8ta1           5 GGGKKCGVCQKAVYFAEE-VQCEGSSFHKSCF   35 (35)
T ss_dssp             CCCEECTTTCCEECSSCC-EEETTEEECTTTC
T ss_pred             CCCceeccccceEeeeee-eeecCcccccccC
Confidence            455689999999997775 7999999999998

>d2cura1 g.39.1.3 (A:33-63) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=96.98  E-value=0.00027  Score=37.47  Aligned_cols=29  Identities=34%  Similarity=0.783  Sum_probs=25.8

Q ss_pred             cCCCCCCCCCCCCeEEcCCCcccchhhhhc
Q psy15692        166 TCVVCGKSLDGIPFTVDAANQIHCIQDFHK  195 (278)
Q Consensus       166 ~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~  195 (278)
                      .|..|++.|.+..|.. .++++||.+||..
T Consensus         1 vC~~C~K~Lag~rFTa-~eDq~yCVdCYK~   29 (31)
T d2cura1           1 VCVTCSKKLAGQRFTA-VEDQYYCVDCYKN   29 (31)
T ss_dssp             BCTTTCCBCTTSCEEE-CSSCEEEHHHHHH
T ss_pred             CcccccchhcCceeEE-ecceEEEeeeecc
Confidence            4899999999999987 6889999999953

>d2cupa3 g.39.1.3 (A:8-34) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=96.92  E-value=0.00034  Score=35.65  Aligned_cols=27  Identities=41%  Similarity=0.764  Sum_probs=22.1

Q ss_pred             CcccCccccCCCCCCceeEEEcCCcccccCCc
Q psy15692        201 CCVCRAPIMPDSEQDETVRVVALDRSFHIGCY  232 (278)
Q Consensus       201 C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf  232 (278)
                      |..|.+||....     .-+...++.||..||
T Consensus         1 c~ecrkpigad~-----ke~h~knr~wh~~cf   27 (27)
T d2cupa3           1 CVECRKPIGADS-----KEVHYKNRFWHDTCF   27 (27)
T ss_dssp             CSSSCCBCCSSS-----CEEEETTEEEETTTC
T ss_pred             CccccCCcCcch-----HHhhccccccccccC
Confidence            778999997653     257789999999998

>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=96.91  E-value=0.00022  Score=36.57  Aligned_cols=27  Identities=22%  Similarity=0.695  Sum_probs=24.3

Q ss_pred             ccccCCCeeeCCcceeeeCCcccccccc
Q psy15692         80 ECCKCGERILGEGSGCTAMDKVYHISCF  107 (278)
Q Consensus        80 ~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  107 (278)
                      .|+.|.+.|+-.+- +..+|+.||..||
T Consensus         2 kcg~c~ktvy~aee-vqc~grsfhk~cf   28 (28)
T d1a7ia1           2 KCGACGRTVYHAEE-VQCDGRSFHRCCF   28 (28)
T ss_dssp             BCSSSCCBCSSTTE-EEETTEEEESSSE
T ss_pred             ccccccceEeeeee-eeecCceeccccC
Confidence            59999999998775 7999999999998

>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=96.84  E-value=0.00019  Score=37.15  Aligned_cols=27  Identities=19%  Similarity=0.699  Sum_probs=23.3

Q ss_pred             CCCcccCccccCCCCCCceeEEEcCCcccccCC
Q psy15692        199 PRCCVCRAPIMPDSEQDETVRVVALDRSFHIGC  231 (278)
Q Consensus       199 ~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~C  231 (278)
                      .+|.+|++.+...+      .|...|+.||..|
T Consensus         2 d~CpRC~~~VyaAE------kviGaG~~WHk~C   28 (28)
T d1ibia1           2 EKCSRCGDSVYAAE------KVIGAGKPWHKNC   28 (28)
T ss_dssp             EECTTTSSEESSSS------CEESSSSEECSSC
T ss_pred             CcCcccchhHHHHH------HHhcCCCccccCC
Confidence            46999999999876      6778999999987

>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=96.82  E-value=0.00034  Score=36.19  Aligned_cols=26  Identities=23%  Similarity=0.770  Sum_probs=23.0

Q ss_pred             ccccCCCeeeCCcceeeeCCccccccc
Q psy15692         80 ECCKCGERILGEGSGCTAMDKVYHISC  106 (278)
Q Consensus        80 ~C~~C~~~I~~~~~~~~~~~~~~H~~C  106 (278)
                      .|.+|++.|+..+. +.-.|+.||..|
T Consensus         3 ~CpRC~~~VyaAEk-viGaG~~WHk~C   28 (28)
T d1ibia1           3 KCSRCGDSVYAAEK-VIGAGKPWHKNC   28 (28)
T ss_dssp             ECTTTSSEESSSSC-EESSSSEECSSC
T ss_pred             cCcccchhHHHHHH-HhcCCCccccCC
Confidence            69999999998886 677799999987

>d1x64a2 g.39.1.3 (A:53-83) PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 3, PDLIM3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.82  E-value=0.00021  Score=37.88  Aligned_cols=28  Identities=32%  Similarity=0.855  Sum_probs=25.1

Q ss_pred             cccccCcccCCCCeEeeCCeeccccccc
Q psy15692        108 TCDHCAVQLEGKPFYIIEGHAYCEQGYL  135 (278)
Q Consensus       108 ~C~~C~~~l~~~~f~~~~g~~yC~~~y~  135 (278)
                      .|+.|+..|..+.+|..++++||+.+..
T Consensus         1 vC~dCg~NLKqrG~Ffv~~~lyCE~HAr   28 (31)
T d1x64a2           1 VCADCNLNLKQKGYFFVEGELYCETHAR   28 (31)
T ss_dssp             CCSSSCCCTTTSCCEEETTEEECHHHHH
T ss_pred             CccccccChhhcceEEeccEEeehhhhh
Confidence            4899999999999999999999998754

>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=96.78  E-value=0.00016  Score=46.23  Aligned_cols=31  Identities=19%  Similarity=0.463  Sum_probs=28.6

Q ss_pred             cccccCcccCCCCeEeeCCeecccccccccc
Q psy15692        108 TCDHCAVQLEGKPFYIIEGHAYCEQGYLDTL  138 (278)
Q Consensus       108 ~C~~C~~~l~~~~f~~~~g~~yC~~~y~~~~  138 (278)
                      .|..|++.|.+...-.+++++||+.||.++|
T Consensus         1 ~C~~C~K~LdS~~~~eh~~e~YCk~CY~k~f   31 (65)
T d1b8ta2           1 LCMVCKKNLDSTTVAVHGDEIYCKSCYGKKY   31 (65)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHH
T ss_pred             CchhcCCccCCCccccCCCcccchhhhcccc
Confidence            3889999999999999999999999998877

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

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

Probab=96.61  E-value=0.0007  Score=36.52  Aligned_cols=32  Identities=19%  Similarity=0.410  Sum_probs=26.6

Q ss_pred             cCCCCCCCCCCCCeEEcCCCcccchh-hhhcccC
Q psy15692        166 TCVVCGKSLDGIPFTVDAANQIHCIQ-DFHKKFA  198 (278)
Q Consensus       166 ~C~~C~~~l~~~~~~~~~~~~~~C~~-~y~~~~~  198 (278)
                      +|..|++.|...... +.+|+|||.. ||..+|+
T Consensus         1 kCekC~ktL~~G~Ha-EH~gkPYC~~PCY~aLFG   33 (33)
T d2cu8a2           1 KCERCSKTLTPGGHA-EHDGKPFCHKPCYATLFG   33 (33)
T ss_dssp             BCSSSCCBCCTTSCE-EETTEEECTTTHHHHHSC
T ss_pred             CchhcccccCCCCcc-ccCCCcCcCcchHHhhcC
Confidence            588999999977776 4899999976 9887764

>d1a7ia2 g.39.1.3 (A:36-67) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

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

Probab=96.53  E-value=0.00046  Score=36.72  Aligned_cols=31  Identities=29%  Similarity=0.718  Sum_probs=26.8

Q ss_pred             CCCCCCCCCCCCeEEcCCCcccchhhhhcccC
Q psy15692        167 CVVCGKSLDGIPFTVDAANQIHCIQDFHKKFA  198 (278)
Q Consensus       167 C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~  198 (278)
                      |-.|++.|++..... +++.+||+.||.++|+
T Consensus         2 C~~C~K~LdStTva~-h~~eiYCKsCygkkyg   32 (32)
T d1a7ia2           2 CMVCRKNLDSTTVAI-HDAEVYCKSCYGKKYG   32 (32)
T ss_dssp             CSSSCCEECSSCCEE-ETTEEECSHHHHHHCC
T ss_pred             chhhhhccCcceeee-ecceEEehhhccccCC
Confidence            778999999877775 7899999999998874

>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=96.46  E-value=0.00082  Score=35.64  Aligned_cols=31  Identities=23%  Similarity=0.696  Sum_probs=26.4

Q ss_pred             ccCCCCCCCCCCcCCCceeecCCccccccchhHhh
Q psy15692        233 RCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRV  267 (278)
Q Consensus       233 ~C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~~~~~  267 (278)
                      .|..|+..|.    |+.||..+.+.||..||...+
T Consensus         1 vC~tC~~kLR----GqpFYAvekkayCE~CYi~tL   31 (32)
T d1x61a2           1 VCSTCRAQLR----GQHFYAVERRAYCEGCYVATL   31 (32)
T ss_dssp             BCSSSCCBCT----TSCEEESSSCEEEHHHHHHHH
T ss_pred             CeeEeCceec----CCcceEeeccccccceeeeec
Confidence            4888999996    678999999999999997543

>d1wiga1 g.39.1.3 (A:1-32) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.28  E-value=0.00072  Score=35.77  Aligned_cols=26  Identities=23%  Similarity=0.489  Sum_probs=22.5

Q ss_pred             CCCcccCccccCCCCCCceeEEEcCCcccccCC
Q psy15692        199 PRCCVCRAPIMPDSEQDETVRVVALDRSFHIGC  231 (278)
Q Consensus       199 ~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~C  231 (278)
                      .-|..|.+.|.+.       ++.+.++.||+.|
T Consensus         6 sgC~~C~~~ItGk-------VLEAG~khYHP~C   31 (32)
T d1wiga1           6 SGCDSCEKYITGR-------VLEAGEKHYHPSC   31 (32)
T ss_dssp             CSCSSSCCCCSSC-------CBCCSSCCBCTTT
T ss_pred             chhhhhhhhhhhh-------hhhccccccCCCC
Confidence            4599999999875       6789999999988

>d1a7ia2 g.39.1.3 (A:36-67) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

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

Probab=96.28  E-value=0.00056  Score=36.40  Aligned_cols=29  Identities=24%  Similarity=0.573  Sum_probs=26.1

Q ss_pred             ccccCcccCCCCeEeeCCeeccccccccc
Q psy15692        109 CDHCAVQLEGKPFYIIEGHAYCEQGYLDT  137 (278)
Q Consensus       109 C~~C~~~l~~~~f~~~~g~~yC~~~y~~~  137 (278)
                      |..|++.|.+....++++.+||+.||-+.
T Consensus         2 C~~C~K~LdStTva~h~~eiYCKsCygkk   30 (32)
T d1a7ia2           2 CMVCRKNLDSTTVAIHDAEVYCKSCYGKK   30 (32)
T ss_dssp             CSSSCCEECSSCCEEETTEEECSHHHHHH
T ss_pred             chhhhhccCcceeeeecceEEehhhcccc
Confidence            77899999999899999999999999654

>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=96.21  E-value=0.0016  Score=33.30  Aligned_cols=27  Identities=30%  Similarity=0.679  Sum_probs=23.2

Q ss_pred             CCcccCccccCCCCCCceeEEEcCCcccccCCc
Q psy15692        200 RCCVCRAPIMPDSEQDETVRVVALDRSFHIGCY  232 (278)
Q Consensus       200 ~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf  232 (278)
                      +|..|.+.+.-.+      -|.-.|+.||..||
T Consensus         2 kcg~c~ktvy~ae------evqc~grsfhk~cf   28 (28)
T d1a7ia1           2 KCGACGRTVYHAE------EVQCDGRSFHRCCF   28 (28)
T ss_dssp             BCSSSCCBCSSTT------EEEETTEEEESSSE
T ss_pred             ccccccceEeeee------eeeecCceeccccC
Confidence            6999999998664      57789999999998

>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=96.14  E-value=0.00097  Score=35.98  Aligned_cols=29  Identities=28%  Similarity=0.660  Sum_probs=24.2

Q ss_pred             CCCCcccCccccCCCCCCceeEEEcCCcccccCCc
Q psy15692        198 APRCCVCRAPIMPDSEQDETVRVVALDRSFHIGCY  232 (278)
Q Consensus       198 ~~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf  232 (278)
                      +.+|..|++.+.-.+      -|.-.|+.||..||
T Consensus         7 g~kcg~c~ktvy~ae------evqc~g~sfhk~cf   35 (35)
T d1b8ta1           7 GKKCGVCQKAVYFAE------EVQCEGSSFHKSCF   35 (35)
T ss_dssp             CEECTTTCCEECSSC------CEEETTEEECTTTC
T ss_pred             CceeccccceEeeee------eeeecCcccccccC
Confidence            457999999998654      46789999999998

>d1x6aa2 g.39.1.3 (A:42-75) Lim domain kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Lim domain kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.11  E-value=0.0017  Score=35.22  Aligned_cols=33  Identities=18%  Similarity=0.652  Sum_probs=26.7

Q ss_pred             cccCCCCCCCCCCcCCCceeecC-CccccccchhHhh
Q psy15692        232 YRCEDCGLVLSSEAEGRGCYPLD-DHVLCKSCNAKRV  267 (278)
Q Consensus       232 f~C~~C~~~l~~~~~g~~~~~~~-~~~~C~~C~~~~~  267 (278)
                      |.|..|+.-|..   |+.|-+.+ .++||..||.+.+
T Consensus         1 F~C~~C~~fIgd---gdsyaLVerskLYCG~Cy~~~v   34 (34)
T d1x6aa2           1 FACMSCKVIIED---GDAYALVQHATLYCGKCHNEVV   34 (34)
T ss_dssp             CBCTTTCCBCCT---TSCEEECSSSCEEEHHHHHHHH
T ss_pred             CcccccccEEec---CceEEEEeeceeeeecchhccC
Confidence            789999999984   66777775 4899999998753

>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=96.02  E-value=0.0018  Score=33.91  Aligned_cols=31  Identities=19%  Similarity=0.755  Sum_probs=26.7

Q ss_pred             ccCCCCCCCCCCcCCCceeecCCccccccchhHhh
Q psy15692        233 RCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRV  267 (278)
Q Consensus       233 ~C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~~~~~  267 (278)
                      .|+.|...+.++    .|++.....||..|+..++
T Consensus         1 tcs~ckq~igsg----sffpkg~d~ycvtche~kf   31 (32)
T d1x63a2           1 TCSNCKQVIGTG----SFFPKGEDFYCVTCHETKF   31 (32)
T ss_dssp             CCSSSCCCCTTS----CEEEETTEEEEHHHHHHHT
T ss_pred             Ccchhhhhcccc----cccCCCCcEEEEEeecccc
Confidence            488999999853    5999999999999998775

>d1x62a1 g.39.1.3 (A:43-73) PDZ and LIM domain protein 1 Elfin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 1 Elfin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.97  E-value=0.00026  Score=37.61  Aligned_cols=28  Identities=29%  Similarity=0.740  Sum_probs=24.6

Q ss_pred             cccccCcccCCCCeEeeCCeeccccccc
Q psy15692        108 TCDHCAVQLEGKPFYIIEGHAYCEQGYL  135 (278)
Q Consensus       108 ~C~~C~~~l~~~~f~~~~g~~yC~~~y~  135 (278)
                      .|+.|+..|..+.+|..++++||+.+..
T Consensus         1 vC~dCg~NLKqrG~Ffve~~lyCE~HAr   28 (31)
T d1x62a1           1 VCTDCGTNLKQKGHFFVEDQIYCEKHAR   28 (31)
T ss_dssp             SCSSSCCCHHHHCCEESSSCEECHHHHH
T ss_pred             CccccccChhhcceEEeccEEehhhhhh
Confidence            4899999999888999999999998754

>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=95.91  E-value=0.00083  Score=36.65  Aligned_cols=31  Identities=26%  Similarity=0.582  Sum_probs=26.1

Q ss_pred             cccccCcccCCCCeEee-CCeecccccccccc
Q psy15692        108 TCDHCAVQLEGKPFYII-EGHAYCEQGYLDTL  138 (278)
Q Consensus       108 ~C~~C~~~l~~~~f~~~-~g~~yC~~~y~~~~  138 (278)
                      +|..|++.|.+.+|.+. ++++||-+||.+.|
T Consensus         1 tCvvC~~~LDGvPFtvD~~n~i~Cv~DyHrkf   32 (33)
T d2dloa2           1 TCVVCHRGLDGIPFTVDATSQIHCIEDFHRKF   32 (33)
T ss_dssp             BCSSSCCBCTTSCEECCTTCCCEEHHHHHHHT
T ss_pred             CeeEcCcccCCCcEEEcCCCCEeehhhhhhhc
Confidence            47889999999999754 78999999998754

>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=95.77  E-value=0.0031  Score=31.47  Aligned_cols=27  Identities=48%  Similarity=1.039  Sum_probs=21.7

Q ss_pred             CcccCccccCCCCCCceeEEEcCCcccccCCc
Q psy15692        201 CCVCRAPIMPDSEQDETVRVVALDRSFHIGCY  232 (278)
Q Consensus       201 C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~Cf  232 (278)
                      |.+|++-+.+..     .-++++++.||..||
T Consensus         1 cggcgedvvgdg-----agvvaldrvfhvgcf   27 (27)
T d1x61a1           1 CGGCGEDVVGDG-----AGVVALDRVFHVGCF   27 (27)
T ss_dssp             CSSSCSCCCSSS-----CCEECSSSEECTTTC
T ss_pred             CCCcccccccCC-----cceEEEeeeEEeccC
Confidence            788998887542     247899999999998

>d1x63a2 g.39.1.3 (A:45-76) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=95.71  E-value=0.0039  Score=32.54  Aligned_cols=32  Identities=25%  Similarity=0.496  Sum_probs=26.6

Q ss_pred             cCCCCCCCCCCCCeEEcCCCcccchhhhhcccC
Q psy15692        166 TCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFA  198 (278)
Q Consensus       166 ~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~  198 (278)
                      .|+.|++.+++..|+- ++...||..|.+.+|+
T Consensus         1 tcs~ckq~igsgsffp-kg~d~ycvtche~kfa   32 (32)
T d1x63a2           1 TCSNCKQVIGTGSFFP-KGEDFYCVTCHETKFA   32 (32)
T ss_dssp             CCSSSCCCCTTSCEEE-ETTEEEEHHHHHHHTS
T ss_pred             CcchhhhhcccccccC-CCCcEEEEEeeccccC
Confidence            4899999999777765 6778999999888774

>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=95.42  E-value=0.0046  Score=32.61  Aligned_cols=30  Identities=27%  Similarity=0.727  Sum_probs=25.3

Q ss_pred             ccCCCCCCCCCCcCCCceeecCCccccccchhHh
Q psy15692        233 RCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKR  266 (278)
Q Consensus       233 ~C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~~~~  266 (278)
                      .|..|+..|..    +++|..++++||.++...|
T Consensus         1 vC~dCg~NLKq----rG~Ffv~~~lyCE~HAr~R   30 (31)
T d1x64a2           1 VCADCNLNLKQ----KGYFFVEGELYCETHARAR   30 (31)
T ss_dssp             CCSSSCCCTTT----SCCEEETTEEECHHHHHHH
T ss_pred             CccccccChhh----cceEEeccEEeehhhhhcc
Confidence            48999999974    5689999999999987654

>d1x6aa2 g.39.1.3 (A:42-75) Lim domain kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Lim domain kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.25  E-value=0.0075  Score=32.58  Aligned_cols=31  Identities=16%  Similarity=0.503  Sum_probs=26.9

Q ss_pred             ecCCCCCCCCC-CCCeEEcCCCcccchhhhhc
Q psy15692        165 FTCVVCGKSLD-GIPFTVDAANQIHCIQDFHK  195 (278)
Q Consensus       165 f~C~~C~~~l~-~~~~~~~~~~~~~C~~~y~~  195 (278)
                      |.|..|+..++ ++.|.+-...++||..||.+
T Consensus         1 F~C~~C~~fIgdgdsyaLVerskLYCG~Cy~~   32 (34)
T d1x6aa2           1 FACMSCKVIIEDGDAYALVQHATLYCGKCHNE   32 (34)
T ss_dssp             CBCTTTCCBCCTTSCEEECSSSCEEEHHHHHH
T ss_pred             CcccccccEEecCceEEEEeeceeeeecchhc
Confidence            78999999998 77888877789999999865

>d1g47a1 g.39.1.3 (A:1-35) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=95.18  E-value=0.0065  Score=33.06  Aligned_cols=29  Identities=17%  Similarity=0.412  Sum_probs=25.6

Q ss_pred             ccccccCCCeeeCCcceeeeCCccccccc
Q psy15692         78 FGECCKCGERILGEGSGCTAMDKVYHISC  106 (278)
Q Consensus        78 ~~~C~~C~~~I~~~~~~~~~~~~~~H~~C  106 (278)
                      ...|.+|+.-+.+.+.++...|..||+.|
T Consensus         7 ~~~C~RC~~gF~p~EkiVNSnGEl~H~qC   35 (35)
T d1g47a1           7 SATCERCKGGFAPAEKIVNSNGELYHEQC   35 (35)
T ss_dssp             CCBCSSSCCBCCSTTTCEEETTEEECTTT
T ss_pred             HHHHHHHccCCCchHHhhcCCCccccccC
Confidence            34699999999988888899999999987

>d1rutx4 g.39.1.3 (X:114-146) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.14  E-value=0.0065  Score=32.20  Aligned_cols=27  Identities=37%  Similarity=0.822  Sum_probs=23.0

Q ss_pred             cccccCcccC-CCCeEeeCCeecccccc
Q psy15692        108 TCDHCAVQLE-GKPFYIIEGHAYCEQGY  134 (278)
Q Consensus       108 ~C~~C~~~l~-~~~f~~~~g~~yC~~~y  134 (278)
                      .|+.|...|. +..|...+|.+||+.+-
T Consensus         1 tC~tC~n~LVPGDRFHyvNG~lfCE~D~   28 (33)
T d1rutx4           1 TCSTCRNRLVPGDRFHYINGSLFCEHDR   28 (33)
T ss_dssp             BCTTTCCBCCTTCEEEEETTEEEEGGGC
T ss_pred             CcccccccccCCceeEEecCEEEEecCC
Confidence            4889999886 56899999999999875

>d1rutx2 g.39.1.3 (X:49-82) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.10  E-value=0.0016  Score=35.36  Aligned_cols=31  Identities=29%  Similarity=0.720  Sum_probs=26.2

Q ss_pred             cccccCcccC--CCCeEeeCCeecccccccccc
Q psy15692        108 TCDHCAVQLE--GKPFYIIEGHAYCEQGYLDTL  138 (278)
Q Consensus       108 ~C~~C~~~l~--~~~f~~~~g~~yC~~~y~~~~  138 (278)
                      +|.-|+..|.  +.+.|.+.|.++|+.||.++|
T Consensus         1 KCscC~~~LgeiG~s~ytk~~mILCk~DY~rlF   33 (34)
T d1rutx2           1 KCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLF   33 (34)
T ss_dssp             BCTTTCCBHHHHCSEEEEETTEEECHHHHHHHH
T ss_pred             CCcchhcChhhccchheecCCEEEEchhHHHhc
Confidence            5778888885  568999999999999998754

>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=95.08  E-value=0.0043  Score=32.56  Aligned_cols=28  Identities=18%  Similarity=0.477  Sum_probs=24.7

Q ss_pred             cccccCcccCCCCeEeeCCeeccccccc
Q psy15692        108 TCDHCAVQLEGKPFYIIEGHAYCEQGYL  135 (278)
Q Consensus       108 ~C~~C~~~l~~~~f~~~~g~~yC~~~y~  135 (278)
                      +|..|-.||....|..+|++++|..|..
T Consensus         1 RCaKC~hpLA~E~F~aKd~kI~C~Kc~s   28 (31)
T d2cupa2           1 RCAKCLHPLANETFVAKDNKILCNKCTT   28 (31)
T ss_dssp             CCSSSCCCTTSSCCEEETTEEECHHHHT
T ss_pred             CchhhccccccCcccccCCeEeeccccc
Confidence            5888999999999999999999987753

>d2cora2 g.39.1.3 (A:8-42) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=95.07  E-value=0.0037  Score=34.10  Aligned_cols=27  Identities=33%  Similarity=0.583  Sum_probs=24.5

Q ss_pred             cccccccccccccceEEcCCcCCcCee
Q psy15692        139 EKCSVCVKPILDRILRATGRPYHPACF  165 (278)
Q Consensus       139 ~~C~~C~~~I~~~~~~~~~~~~H~~Cf  165 (278)
                      .+|.+|...|.++-+..++..||+.+|
T Consensus         9 ~vC~KCh~iIdd~pL~Fr~d~YHp~HF   35 (35)
T d2cora2           9 YICQKCHAIIDEQPLIFKNDPYHPDHF   35 (35)
T ss_dssp             CBCTTTCCBCCSCCCCCSSSCCCTTTS
T ss_pred             HHHHHHHhhhhcCcceecCCCCCCCCC
Confidence            479999999999999999999999876

>d2cora1 g.39.1.3 (A:43-73) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=94.34  E-value=0.0081  Score=31.47  Aligned_cols=29  Identities=31%  Similarity=0.781  Sum_probs=23.8

Q ss_pred             ccCCCCCCCCCCcCCCceeecCCccccccchhHh
Q psy15692        233 RCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKR  266 (278)
Q Consensus       233 ~C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~~~~  266 (278)
                      .|..|++.|...+     -.+.|.+||..|++|.
T Consensus         1 nC~~CgkeltadA-----rEl~geLyCLpChdKm   29 (31)
T d2cora1           1 NCANCGKELTADA-----RELKGELYCLPCHDKM   29 (31)
T ss_dssp             BCSSSCCBCCTTC-----EEETTEEECHHHHHTT
T ss_pred             CccccccccchhH-----HHhcCCEEEEeccccc
Confidence            3889999998643     3788999999999874

>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=94.13  E-value=0.0036  Score=33.10  Aligned_cols=31  Identities=32%  Similarity=0.814  Sum_probs=25.4

Q ss_pred             ccCCCCCCCCCCcCCCceeecCCccccccchhHhh
Q psy15692        233 RCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKRV  267 (278)
Q Consensus       233 ~C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~~~~~  267 (278)
                      .|..|+..|..    +++|..++++||.++...|+
T Consensus         1 vC~dCg~NLKq----rG~Ffve~~lyCE~HAr~rv   31 (31)
T d1x62a1           1 VCTDCGTNLKQ----KGHFFVEDQIYCEKHARERV   31 (31)
T ss_dssp             SCSSSCCCHHH----HCCEESSSCEECHHHHHHHH
T ss_pred             CccccccChhh----cceEEeccEEehhhhhhhcC
Confidence            48999999963    46899999999999887653

>d1wiga2 g.39.1.3 (A:33-73) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.95  E-value=0.012  Score=33.25  Aligned_cols=28  Identities=25%  Similarity=0.624  Sum_probs=21.2

Q ss_pred             ccccCCCeee-CCcceeeeCCccccccccc
Q psy15692         80 ECCKCGERIL-GEGSGCTAMDKVYHISCFT  108 (278)
Q Consensus        80 ~C~~C~~~I~-~~~~~~~~~~~~~H~~Cf~  108 (278)
                      .|++|++.+. |+++ ..-.+..||+.|-.
T Consensus         1 ~C~rC~~mF~EGEEM-YLQGs~IWHP~C~~   29 (41)
T d1wiga2           1 LCVRCGQMFAEGEEM-YLQGSSIWHPACRQ   29 (41)
T ss_dssp             CCSSSCCCCCSSCCC-EEETTEEECTTHHH
T ss_pred             Ccchhhcccccccee-eecCCceeCCcccc
Confidence            4999999987 4555 45667899998843

>d1g47a1 g.39.1.3 (A:1-35) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=93.88  E-value=0.018  Score=31.21  Aligned_cols=28  Identities=21%  Similarity=0.511  Sum_probs=23.6

Q ss_pred             CCCcccCccccCCCCCCceeEEEcCCcccccCC
Q psy15692        199 PRCCVCRAPIMPDSEQDETVRVVALDRSFHIGC  231 (278)
Q Consensus       199 ~~C~~C~~~I~~~~~~~~~~~v~~~~~~~H~~C  231 (278)
                      ..|.+|+....+.+.     +|...|..||+.|
T Consensus         8 ~~C~RC~~gF~p~Ek-----iVNSnGEl~H~qC   35 (35)
T d1g47a1           8 ATCERCKGGFAPAEK-----IVNSNGELYHEQC   35 (35)
T ss_dssp             CBCSSSCCBCCSTTT-----CEEETTEEECTTT
T ss_pred             HHHHHHccCCCchHH-----hhcCCCccccccC
Confidence            469999999988863     6789999999987

>d1rutx2 g.39.1.3 (X:49-82) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.54  E-value=0.0095  Score=32.16  Aligned_cols=32  Identities=25%  Similarity=0.557  Sum_probs=24.5

Q ss_pred             cCCCCCCCCC--CCCeEEcCCCcccchhhhhcccC
Q psy15692        166 TCVVCGKSLD--GIPFTVDAANQIHCIQDFHKKFA  198 (278)
Q Consensus       166 ~C~~C~~~l~--~~~~~~~~~~~~~C~~~y~~~~~  198 (278)
                      +|+-|+..|.  +..-+ .+.|.++|+.+|.++|+
T Consensus         1 KCscC~~~LgeiG~s~y-tk~~mILCk~DY~rlFG   34 (34)
T d1rutx2           1 KCSSCQAQLGDIGTSSY-TKSGMILCRNDYIRLFG   34 (34)
T ss_dssp             BCTTTCCBHHHHCSEEE-EETTEEECHHHHHHHHS
T ss_pred             CCcchhcChhhccchhe-ecCCEEEEchhHHHhcC
Confidence            5788888886  43333 36899999999998874

>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=92.02  E-value=0.038  Score=28.81  Aligned_cols=28  Identities=32%  Similarity=0.768  Sum_probs=23.5

Q ss_pred             ccCCCCCCCCCCcCCCceeecCCccccccchh
Q psy15692        233 RCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNA  264 (278)
Q Consensus       233 ~C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~~  264 (278)
                      +|..|-.+|..|    .|...+++++|..|..
T Consensus         1 RCaKC~hpLA~E----~F~aKd~kI~C~Kc~s   28 (31)
T d2cupa2           1 RCAKCLHPLANE----TFVAKDNKILCNKCTT   28 (31)
T ss_dssp             CCSSSCCCTTSS----CCEEETTEEECHHHHT
T ss_pred             CchhhccccccC----cccccCCeEeeccccc
Confidence            588888999854    5899999999999864

>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=91.69  E-value=0.086  Score=27.43  Aligned_cols=29  Identities=24%  Similarity=0.532  Sum_probs=23.3

Q ss_pred             cCCCCCCCCCCCCeEEcCCCcccchhhhhcc
Q psy15692        166 TCVVCGKSLDGIPFTVDAANQIHCIQDFHKK  196 (278)
Q Consensus       166 ~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~  196 (278)
                      .|..|++.|....-.+  .|.+||..|..++
T Consensus         1 nC~~CgkeltadArEl--~geLyCLpChdKm   29 (31)
T d2cora1           1 NCANCGKELTADAREL--KGELYCLPCHDKM   29 (31)
T ss_dssp             BCSSSCCBCCTTCEEE--TTEEECHHHHHTT
T ss_pred             CccccccccchhHHHh--cCCEEEEeccccc
Confidence            3889999999776654  6899999997664

>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=91.35  E-value=0.056  Score=28.43  Aligned_cols=30  Identities=30%  Similarity=0.698  Sum_probs=25.1

Q ss_pred             ccCCCCCCCCCCcCCCceeecCCccccccchhHh
Q psy15692        233 RCEDCGLVLSSEAEGRGCYPLDDHVLCKSCNAKR  266 (278)
Q Consensus       233 ~C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~~~~  266 (278)
                      +|..|...|..    .+|....|+.+|+.|+.+.
T Consensus         1 rC~~C~~~LAD----~GFvKnagR~LCrpch~re   30 (32)
T d2d8xa1           1 RCDLCQEVLAD----IGFVKNAGRHLCRPCHNRE   30 (32)
T ss_dssp             BCSSSCCBCSS----SCCEEETTEEECHHHHHHH
T ss_pred             CchHHHhHHHH----hhhhhcccccccchhhhhc
Confidence            58999999973    4688889999999998753

>d1rutx4 g.39.1.3 (X:114-146) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.34  E-value=0.066  Score=28.20  Aligned_cols=27  Identities=30%  Similarity=0.573  Sum_probs=21.7

Q ss_pred             cCCCCCCCCC-CCCeEEcCCCcccchhhh
Q psy15692        166 TCVVCGKSLD-GIPFTVDAANQIHCIQDF  193 (278)
Q Consensus       166 ~C~~C~~~l~-~~~~~~~~~~~~~C~~~y  193 (278)
                      .|+.|.-.|- |..|-+ .+|.+||+.+-
T Consensus         1 tC~tC~n~LVPGDRFHy-vNG~lfCE~D~   28 (33)
T d1rutx4           1 TCSTCRNRLVPGDRFHY-INGSLFCEHDR   28 (33)
T ss_dssp             BCTTTCCBCCTTCEEEE-ETTEEEEGGGC
T ss_pred             CcccccccccCCceeEE-ecCEEEEecCC
Confidence            4888988886 778877 68999999773

>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=91.03  E-value=0.052  Score=28.58  Aligned_cols=29  Identities=24%  Similarity=0.392  Sum_probs=25.7

Q ss_pred             cccccCcccCCCCeEeeCCeecccccccc
Q psy15692        108 TCDHCAVQLEGKPFYIIEGHAYCEQGYLD  136 (278)
Q Consensus       108 ~C~~C~~~l~~~~f~~~~g~~yC~~~y~~  136 (278)
                      +|..|+..|....|....|+.+|.+|..+
T Consensus         1 rC~~C~~~LAD~GFvKnagR~LCrpch~r   29 (32)
T d2d8xa1           1 RCDLCQEVLADIGFVKNAGRHLCRPCHNR   29 (32)
T ss_dssp             BCSSSCCBCSSSCCEEETTEEECHHHHHH
T ss_pred             CchHHHhHHHHhhhhhcccccccchhhhh
Confidence            58899999999999999999999988643

>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=90.33  E-value=0.074  Score=28.01  Aligned_cols=27  Identities=26%  Similarity=0.923  Sum_probs=23.0

Q ss_pred             cCCCCCCCCCCcCCCceeecCCccccccchh
Q psy15692        234 CEDCGLVLSSEAEGRGCYPLDDHVLCKSCNA  264 (278)
Q Consensus       234 C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~~  264 (278)
                      |..|...|-    |++|......++|+.|..
T Consensus         2 cgkcsvslv----g~gfltq~~~i~c~~cgs   28 (34)
T d1x68a2           2 CGKCSVSLV----GKGFLTQNKEIFCQKCGS   28 (34)
T ss_dssp             CTTTCCBCS----SSCEEEETTEEEETTTTC
T ss_pred             CccceEEEE----eeeeeeccCcEEehhcCC
Confidence            778888886    678999999999999964

>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=89.46  E-value=0.15  Score=26.75  Aligned_cols=27  Identities=30%  Similarity=0.671  Sum_probs=23.0

Q ss_pred             ccccCcccCCCCeEeeCCeeccccccc
Q psy15692        109 CDHCAVQLEGKPFYIIEGHAYCEQGYL  135 (278)
Q Consensus       109 C~~C~~~l~~~~f~~~~g~~yC~~~y~  135 (278)
                      |..|+..|.++.|...+..++|.+|-.
T Consensus         2 cgkcsvslvg~gfltq~~~i~c~~cgs   28 (34)
T d1x68a2           2 CGKCSVSLVGKGFLTQNKEIFCQKCGS   28 (34)
T ss_dssp             CTTTCCBCSSSCEEEETTEEEETTTTC
T ss_pred             CccceEEEEeeeeeeccCcEEehhcCC
Confidence            678889999989999999999988753

>d2cora2 g.39.1.3 (A:8-42) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=89.22  E-value=0.18  Score=27.23  Aligned_cols=30  Identities=23%  Similarity=0.151  Sum_probs=24.1

Q ss_pred             CCccccccCCCeeeCCcceeeeCCcccccccc
Q psy15692         76 DLFGECCKCGERILGEGSGCTAMDKVYHISCF  107 (278)
Q Consensus        76 ~~~~~C~~C~~~I~~~~~~~~~~~~~~H~~Cf  107 (278)
                      .+.-+|.+|...|.+.-  |..-|..||+..|
T Consensus         6 lGk~vC~KCh~iIdd~p--L~Fr~d~YHp~HF   35 (35)
T d2cora2           6 LGKYICQKCHAIIDEQP--LIFKNDPYHPDHF   35 (35)
T ss_dssp             CCCCBCTTTCCBCCSCC--CCCSSSCCCTTTS
T ss_pred             hhhHHHHHHHhhhhcCc--ceecCCCCCCCCC
Confidence            35568999999887644  5888999999887

>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=87.82  E-value=0.24  Score=27.68  Aligned_cols=9  Identities=22%  Similarity=0.656  Sum_probs=4.5

Q ss_pred             CcccCcccc
Q psy15692        201 CCVCRAPIM  209 (278)
Q Consensus       201 C~~C~~~I~  209 (278)
                      |.+|++...
T Consensus         2 C~rC~~mF~   10 (41)
T d1wiga2           2 CVRCGQMFA   10 (41)
T ss_dssp             CSSSCCCCC
T ss_pred             cchhhcccc
Confidence            455555544

>d1j2oa2 g.39.1.3 (A:31-63) Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Rhombotin-2 (Lmo2)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=86.99  E-value=0.056  Score=28.48  Aligned_cols=29  Identities=34%  Similarity=0.883  Sum_probs=22.8

Q ss_pred             cccccCcccC--CCCeEeeCCeecccccccc
Q psy15692        108 TCDHCAVQLE--GKPFYIIEGHAYCEQGYLD  136 (278)
Q Consensus       108 ~C~~C~~~l~--~~~f~~~~g~~yC~~~y~~  136 (278)
                      +|.-|+..|.  +...|.+.+.++|+.||.+
T Consensus         2 kC~cC~cRLGEVG~tlytk~nliLCkrDYlR   32 (33)
T d1j2oa2           2 SCDLCGCRLGEVGRRLYYKLGRKLCRRDYLR   32 (33)
T ss_dssp             CCSSSCSCCCCSSSCCCCBTTBCCCHHHHHH
T ss_pred             ccccccccccchhhHHHhhcceeeehhhhhc
Confidence            5666777775  5578999999999999964

>d1x4la2 g.39.1.3 (A:37-66) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=84.03  E-value=0.29  Score=24.82  Aligned_cols=27  Identities=41%  Similarity=0.990  Sum_probs=22.4

Q ss_pred             cCCCCCCCCCCcCCCceeecCCccccccchh
Q psy15692        234 CEDCGLVLSSEAEGRGCYPLDDHVLCKSCNA  264 (278)
Q Consensus       234 C~~C~~~l~~~~~g~~~~~~~~~~~C~~C~~  264 (278)
                      |..|...|-    |++|...-+.++|..|..
T Consensus         2 c~kcsvslv----grgflterddilc~dcgk   28 (30)
T d1x4la2           2 CKKCSLSLV----GRGFLTERDDILCPDCGK   28 (30)
T ss_dssp             CSSSCCBCT----TSCCEECSSSEECHHHHH
T ss_pred             cceeeEEEE----eeeccccccceeccccCc
Confidence            677887885    778998889999999864

>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=82.81  E-value=0.45  Score=26.20  Aligned_cols=27  Identities=26%  Similarity=0.555  Sum_probs=18.9

Q ss_pred             ecCCCCCCCCC-CCCeEEcCCCcccchhh
Q psy15692        165 FTCVVCGKSLD-GIPFTVDAANQIHCIQD  192 (278)
Q Consensus       165 f~C~~C~~~l~-~~~~~~~~~~~~~C~~~  192 (278)
                      |.|+.|++++. |+...+ .+..-+|..|
T Consensus         1 FvC~vCr~pFP~GDRVTF-nGKeC~CQ~C   28 (40)
T d1v6ga2           1 FVCAVCRLPFPPGDRVTF-NGKECMCQKC   28 (40)
T ss_dssp             SSCSSSCCCCCSSSCEEE-ETTEEEEHHH
T ss_pred             CcccccCCCCCCCCeEEE-cCceeehhhc
Confidence            78999999998 666655 3445556555

>d1x4la2 g.39.1.3 (A:37-66) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=82.12  E-value=0.27  Score=24.97  Aligned_cols=27  Identities=22%  Similarity=0.583  Sum_probs=21.6

Q ss_pred             cccccCcccCCCCeEeeCCeecccccc
Q psy15692        108 TCDHCAVQLEGKPFYIIEGHAYCEQGY  134 (278)
Q Consensus       108 ~C~~C~~~l~~~~f~~~~g~~yC~~~y  134 (278)
                      .|..|...|.+..|....+.++|.+|-
T Consensus         1 nc~kcsvslvgrgflterddilc~dcg   27 (30)
T d1x4la2           1 NCKKCSLSLVGRGFLTERDDILCPDCG   27 (30)
T ss_dssp             BCSSSCCBCTTSCCEECSSSEECHHHH
T ss_pred             CcceeeEEEEeeeccccccceeccccC
Confidence            367888899988898888888887664

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.97  E-value=0.63  Score=31.40  Aligned_cols=46  Identities=20%  Similarity=0.437  Sum_probs=29.9

Q ss_pred             ecCCCCCCCCCCCCeEEcCCCcccchhhhhcccCCCCcccCccccCC
Q psy15692        165 FTCVVCGKSLDGIPFTVDAANQIHCIQDFHKKFAPRCCVCRAPIMPD  211 (278)
Q Consensus       165 f~C~~C~~~l~~~~~~~~~~~~~~C~~~y~~~~~~~C~~C~~~I~~~  211 (278)
                      +.|..|...+..- .....=|..||..|..+.+...|..|+.++...
T Consensus        23 l~C~IC~~~~~~p-v~~~~CgH~fC~~Ci~~~~~~~CP~Cr~~~~~~   68 (97)
T d1jm7b_          23 LRCSRCTNILREP-VCLGGCEHIFCSNCVSDCIGTGCPVCYTPAWIQ   68 (97)
T ss_dssp             TSCSSSCSCCSSC-BCCCSSSCCBCTTTGGGGTTTBCSSSCCBCSCS
T ss_pred             CCCccCCchhhcC-ceeCCCCCchhHHHHHHHHhccccccCCcCchh
Confidence            5677777766532 222134778888887776667788888777543