Citrus Sinensis ID: 017657

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------37
Protein Sequence
MGWLSKIFKGSSHSITEGHSHRNYGEDPHCYAPSTSGDLPLEQENEDIDRAIALSLLEENQKGENVIDKESQVEEDEQLARAIQESLNLESPPRQGTAHTYQHFPVIQFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGEKNGYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILYGLPRFVICLALSNVCTRR
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccEEEcccccccccccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccEEEcccEEEEcccccccccccccccccccccccccEEEcccccEEcccHHcccccccccccccHHHHHHHHHHHccccccccccHHHHHHHHHHHHHcccccccccccccccccccEEEEEEEEEccccccccccEEEEEEEEccccccEEEEEEEEccccHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccHHHHHHcccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccEEEEcccccccccEEEccccccccccccEccccccccHHHHHHHcccccHcccccccccHHHHHccccccccEEEEccccccccccccccccccccccccEEEcccccEEEHHHHccccccccccHHHHHHHHHHHHHccccccccccEEEEEHHHHHHHHHHcccccccccccccEEEcccEEEEEEEcccccccccEEEEEcccccccccccEEEEEEEEcccHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
mgwlskifkgsshsiteghshrnygedphcyapstsgdlpleqeneDIDRAIALSLLEenqkgenvidkesqVEEDEQLARAIQESlnlespprqgtahtyqhfpviqfpegyricagcnneighgrflncldvfwhpecfcchachqpitdiefstsenrpyhkscyrehyhpkcdvckhfipsnhgglieyrahpfwvqkycpshehdgtprccscermepqdtaYVALDDGRKLCLECLDSaimdtnecqplyLDIQEFYESIHMKLEQQIPLLLVERQALNEardgekngyyhmpetrglclseeqTVTTvlwrprfgpgnqarniitepykltrrcDVTAILILYGLPRFVICLALSNVCTRR
Flexible Loop (DISEMBL)
MGWLSKIFKGSSHSITEGHSHRNYGEDPHCYAPSTSGDLPLEQENEDIDRAIALSLLEENQKGENVIDKESQVEEDEQLARAIQESLNLESPPRQGTAHTYQHFPVIQFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEardgekngyyHMPETRGLCLSEEQTVTTVLwrprfgpgnqarniitepykltrrCDVTAILILYGLPRFVICLALSNVCTRR
Low Complexity Region (SEG)
MGWLSKIFKGSSHSITEGHSHRNYGEDPHCYAPSTSGDLPLEQENEDIDRAIALSLLEENQKGENVIDKESQVEEDEQLARAIQESLNLESPPRQGTAHTYQHFPVIQFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGEKNGYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILYGLPRFVICLALSNVCTRR
Disordered region (IsUnstruct)
**************************************************************************************************HTYQHFPVIQFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGEKNGYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILYGLPRFVICLALSNVC***
Disordered Region (DISOPRED)
MGWLSKI**********************************************************************************************************RICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLL*********************PETRGLCLSEEQTVTTVLW******GN***NI*TEPY*LTRRCDVTAILILYGLPRFVICLALSNVCTR*
Disordered Region (DISEMBL)
MGWLSKIFKGSSHSITEGHSHRNYGEDPHCYAPSTSGDLPLEQENEDIDRAIALSLLEENQKGENVIDKESQVEEDEQLARAIQESLNLESPPRQGTAHTYQHFPVIQFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGEKNGYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILYGLPRFVICLALSNVCTRR
Disordered Region (DISPRO)
*GW*******************************************DIDRAIALSLLEEN*******************A*****SLNLESPPR*GTAHTYQHFPVIQFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGEKNGYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILYGLPRFVICLALSNVCTRR
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiii
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGWLSKIFKGSSHSITEGHSHRNYGEDPHCYAPSTSGDLPLEQENEDIDRAIALSLLEENQKGENVIDKESQVEEDEQLARAIQESLNLESPPRQGTAHTYQHFPVIQFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGEKNGYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILYGLPRFVICLALSNVCTRR
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	368	2.2.26 [Sep-21-2011]
P0C7Q8	532	Protein DA1 OS=Arabidopsi	yes	no	0.980	0.678	0.593	1e-135
Q8W4F0	553	Protein DA1-related 1 OS=	no	no	0.850	0.566	0.660	1e-124
Q0WSN2	528	Protein DA1-related 2 OS=	no	no	0.951	0.662	0.493	2e-97
Q9FJX8	644	Protein DA1-related 6 OS=	no	no	0.793	0.453	0.482	1e-78
Q9FJX9	560	Protein DA1-related 7 OS=	no	no	0.847	0.557	0.418	5e-69
Q9FKN7	1613	Protein DA1-related 4 OS=	no	no	0.665	0.151	0.492	4e-64
Q84WJ0	702	Protein DA1-related 5 OS=	no	no	0.638	0.334	0.458	6e-59
Q9LVR6	450	Protein DA1-related 3 OS=	no	no	0.633	0.517	0.457	1e-58
Q3MHZ4	456	Transforming growth facto	yes	no	0.269	0.217	0.324	5e-07
O43294	461	Transforming growth facto	yes	no	0.269	0.214	0.324	5e-07

>sp|P0C7Q8|DA1_ARATH Protein DA1 OS=Arabidopsis thaliana GN=DA1 PE=1 SV=1

 Score =  481 bits (1237), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 248/418 (59%), Positives = 293/418 (70%), Gaps = 57/418 (13%)

Query: 1   MGWLSKIFKGSSHSITEGHSHRNYG-------------------------EDPHCYAPST 35
           MGW +KIFKGS+  +  G++  N+                          E  H   PST
Sbjct: 1   MGWFNKIFKGSNQRLRVGNNKHNHNVYYDNYPTASHDDEPSAADTDADNDEPHHTQEPST 60

Query: 36  SGD-LPLEQENEDIDRAIALSLLEENQKGENVIDKESQ-VEEDEQLARAIQESLNLESPP 93
           S D    +QENEDIDRAIALSLLEENQ+  ++  K S  V+EDEQLARA+QES+ + + P
Sbjct: 61  SEDNTSNDQENEDIDRAIALSLLEENQEQTSISGKYSMPVDEDEQLARALQESMVVGNSP 120

Query: 94  RQGTAHTYQ----------------------------HFPV-IQFPEGYRICAGCNNEIG 124
           R  +  TY                             ++P  I F   +RICAGCN EIG
Sbjct: 121 RHKSGSTYDNGNAYGAGDLYGNGHMYGGGNVYANGDIYYPRPITFQMDFRICAGCNMEIG 180

Query: 125 HGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIP 184
           HGRFLNCL+  WHPECF C+ C QPI++ EFSTS N P+HK+CYRE YHPKCDVC HFIP
Sbjct: 181 HGRFLNCLNSLWHPECFRCYGCSQPISEYEFSTSGNYPFHKACYRERYHPKCDVCSHFIP 240

Query: 185 SNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDS 244
           +NH GLIEYRAHPFWVQKYCPSHEHD TPRCCSCERMEP++T YV L+DGRKLCLECLDS
Sbjct: 241 TNHAGLIEYRAHPFWVQKYCPSHEHDATPRCCSCERMEPRNTRYVELNDGRKLCLECLDS 300

Query: 245 AIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGEKNGYYHMPETRGL 304
           A+MDT +CQPLYL IQ FYE ++MK+EQ++PLLLVERQALNEAR+GEKNG+YHMPETRGL
Sbjct: 301 AVMDTMQCQPLYLQIQNFYEGLNMKVEQEVPLLLVERQALNEAREGEKNGHYHMPETRGL 360

Query: 305 CLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILYGLPRFVICLALS 362
           CLSEEQTV+TV  R + G G  A N ITEPYKLTR+C+VTAILIL+GLPR +    L+
Sbjct: 361 CLSEEQTVSTVRKRSKHGTGKWAGN-ITEPYKLTRQCEVTAILILFGLPRLLTGSILA 417

Ubiquitin receptor that limits final seed and organ size by restricting the period of cell proliferation. May act maternally to control seed mass.
Arabidopsis thaliana (taxid: 3702)

>sp|Q8W4F0|DAR1_ARATH Protein DA1-related 1 OS=Arabidopsis thaliana GN=DAR1 PE=2 SV=3

 Score =  445 bits (1144), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 210/318 (66%), Positives = 257/318 (80%), Gaps = 5/318 (1%)

Query: 46  EDIDRAIALSLLEENQKGENVIDKESQVEEDEQLARAIQESLNLESPPRQGTAHTYQHFP 105
           E+ ++ +A + LEE    E +   ++Q+EEDE LA+A+QES+N+ SPPR    +  Q +P
Sbjct: 125 EETEKLLAKARLEE----EEMRRSKAQLEEDELLAKALQESMNVGSPPRYDPGNILQPYP 180

Query: 106 VIQFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHK 165
            +  P  +RIC GC  EIGHGRFL+C+   WHPECFCC+AC +PI D EFS S NRPYHK
Sbjct: 181 FL-IPSSHRICVGCQAEIGHGRFLSCMGGVWHPECFCCNACDKPIIDYEFSMSGNRPYHK 239

Query: 166 SCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQD 225
            CY+E +HPKCDVC +FIP+N  GLIEYRAHPFW+QKYCPSHE DGTPRCCSCERMEP+D
Sbjct: 240 LCYKEQHHPKCDVCHNFIPTNPAGLIEYRAHPFWMQKYCPSHERDGTPRCCSCERMEPKD 299

Query: 226 TAYVALDDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALN 285
           T Y+ LDDGRKLCLECLDSAIMDT+ECQPLYL+I+EFYE +HMK+EQQIP+LLVER ALN
Sbjct: 300 TKYLILDDGRKLCLECLDSAIMDTHECQPLYLEIREFYEGLHMKVEQQIPMLLVERSALN 359

Query: 286 EARDGEKNGYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTA 345
           EA +GEK+G++H+PETRGLCLSEEQTVTTVL RPR G G +  ++ITEP +L RRC+VTA
Sbjct: 360 EAMEGEKHGHHHLPETRGLCLSEEQTVTTVLRRPRIGAGYKLIDMITEPCRLIRRCEVTA 419

Query: 346 ILILYGLPRFVICLALSN 363
           ILILYGLPR +    L++
Sbjct: 420 ILILYGLPRLLTGSILAH 437

Ubiquitin receptor that probably regulates developmental process.

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WSN2|DAR2_ARATH Protein DA1-related 2 OS=Arabidopsis thaliana GN=DAR2 PE=2 SV=1

 Score =  355 bits (912), Expect = 2e-97,   Method: Compositional matrix adjust.
 Identities = 184/373 (49%), Positives = 244/373 (65%), Gaps = 23/373 (6%)

Query: 1   MGWLSKIFKGSSHSIT----EGHSHRNYGEDPHCYAPSTSGDLP----LEQENEDIDRAI 52
           M W+SK+FK  S+         H    + ED +   P     L       ++ E++DR+I
Sbjct: 49  MKWVSKLFKSGSNGGGSGAHTNHHPPQFQEDENMVFPLPPSSLDDRSRGARDKEELDRSI 108

Query: 53  ALSLLEENQKGENVIDKESQVEEDEQLARAIQESLNLES--PPRQGTAHTYQHFPVIQFP 110
           +LSL +  ++          ++ +    R     LN  S  PP +         P  Q+ 
Sbjct: 109 SLSLADNTKRPHGY---GWSMDNNRDFPRPFHGGLNPSSFIPPYE---------PSYQYR 156

Query: 111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYRE 170
              RIC GCN++IG G +L C+  F+HPECF CH+C   IT+ EFS S  +PYHK C++E
Sbjct: 157 RRQRICGGCNSDIGSGNYLGCMGTFFHPECFRCHSCGYAITEHEFSLSGTKPYHKLCFKE 216

Query: 171 HYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVA 230
             HPKC+VC HFIP+N  GLIEYR HPFW QKYCPSHE+D T RCCSCER+E  D  Y  
Sbjct: 217 LTHPKCEVCHHFIPTNDAGLIEYRCHPFWNQKYCPSHEYDKTARCCSCERLESWDVRYYT 276

Query: 231 LDDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDG 290
           L+DGR LCLEC+++AI DT ECQPLY  I+++YE ++MKL+QQIP+LLV+R+ALN+A  G
Sbjct: 277 LEDGRSLCLECMETAITDTGECQPLYHAIRDYYEGMYMKLDQQIPMLLVQREALNDAIVG 336

Query: 291 EKNGYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILY 350
           EKNGY+HMPETRGLCLSEEQTVT+VL RPR G  ++   + T+P +LTR+C+VTAIL+LY
Sbjct: 337 EKNGYHHMPETRGLCLSEEQTVTSVLRRPRLG-AHRLVGMRTQPQRLTRKCEVTAILVLY 395

Query: 351 GLPRFVICLALSN 363
           GLPR +    L++
Sbjct: 396 GLPRLLTGAILAH 408

Ubiquitin receptor that probably regulates developmental process.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FJX8|DAR6_ARATH Protein DA1-related 6 OS=Arabidopsis thaliana GN=DAR6 PE=2 SV=1

 Score =  293 bits (750), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 149/309 (48%), Positives = 200/309 (64%), Gaps = 17/309 (5%)

Query: 57  LEENQKGENVIDKESQVEEDEQLARAIQESLNLESPPRQGTAHTYQHFPVIQFPEGYRIC 116
           LEEN    N I   + V+EDEQLA+A++ESL  +   +Q          +++      +C
Sbjct: 231 LEEN----NNISTRAPVDEDEQLAKAVEESLKGKGQIKQSKDEVEGDGMLLELNPPPSLC 286

Query: 117 AGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPIT--DIEFSTSENR-PYHKSCYREHYH 173
            GCN  + HG  +N L V WHP CFCC ACH+PI   DIE   S +R  +HKSCY  +  
Sbjct: 287 GGCNFAVEHGGSVNILGVLWHPGCFCCRACHKPIAIHDIENHVSNSRGKFHKSCYERY-- 344

Query: 174 PKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDD 233
             C VCK         +  Y  HPFW ++YCP HE DGTP+CCSCER+EP+++ YV L D
Sbjct: 345 --CYVCKE------KKMKTYNNHPFWEERYCPVHEADGTPKCCSCERLEPRESNYVMLAD 396

Query: 234 GRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGEKN 293
           GR LCLEC++SA+MD++ECQPL+ D+++F+E ++MK+E++ P LLVE+QALN+A   EK 
Sbjct: 397 GRWLCLECMNSAVMDSDECQPLHFDMRDFFEGLNMKIEKEFPFLLVEKQALNKAEKEEKI 456

Query: 294 GYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILYGLP 353
            Y +   TRG+CLSEEQ V +V  RP  GP N+   + TE  K+TR C+VTAILILYGLP
Sbjct: 457 DYQYEVVTRGICLSEEQIVDSVSQRPVRGPNNKLVGMATESQKVTRECEVTAILILYGLP 516

Query: 354 RFVICLALS 362
           R +    L+
Sbjct: 517 RLLTGYILA 525

Ubiquitin receptor that probably regulates developmental process.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FJX9|DAR7_ARATH Protein DA1-related 7 OS=Arabidopsis thaliana GN=DAR7 PE=2 SV=2

 Score =  261 bits (668), Expect = 5e-69,   Method: Compositional matrix adjust.
 Identities = 151/361 (41%), Positives = 209/361 (57%), Gaps = 49/361 (13%)

Query: 41  LEQENEDIDRAIALSLLEENQKGENVIDKESQVEEDEQLARAIQESL------------- 87
           +++E++ + + +  SL E   KG++   ++ QVE DEQ A  +QESL             
Sbjct: 90  VDEEDQQLSKIVEESLKE---KGKSKQFEDDQVENDEQQALMVQESLYMVELSAQLEEDK 146

Query: 88  NLES-PPRQGTAH-------------TYQHF--PV----------IQFPEGYRICAGCNN 121
           N+ + PP    A                +HF  PV          +     + IC GC +
Sbjct: 147 NISTIPPLNEDAQLQKVIWESAKGKGQIEHFKDPVEEDGNLPRVDLNVNHPHSICDGCKS 206

Query: 122 EIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKH 181
            I +GR ++ L V WHPECFCC  C +PI   EFS ++ R  H +CY E  HP C VCK 
Sbjct: 207 AIEYGRSVHALGVNWHPECFCCRYCDKPIAMHEFSNTKGR-CHITCY-ERSHPNCHVCKK 264

Query: 182 FIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLEC 241
             P       +Y+ HPFW +KYCP HE DGTP+CCSCER+EP  T YV L D R LC++C
Sbjct: 265 KFPGR-----KYKEHPFWKEKYCPFHEVDGTPKCCSCERLEPWGTKYVMLADNRWLCVKC 319

Query: 242 LDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGEKNGYYHMPET 301
           ++ A+MDT ECQPL+ +I+EF+ S++MK+E++ PLLLVE++AL +A   EK    H   T
Sbjct: 320 MECAVMDTYECQPLHFEIREFFGSLNMKVEKEFPLLLVEKEALKKAEAQEKIDNQHGVVT 379

Query: 302 RGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILYGLPRFVICLAL 361
           RG+CLSE Q V +V  +P  GP  +  ++ TEP K+   C+VTAILILYGLPR +    L
Sbjct: 380 RGICLSEGQIVNSVFKKPTMGPNGELVSLGTEPQKVVGGCEVTAILILYGLPRLLTGYIL 439

Query: 362 S 362
           +
Sbjct: 440 A 440

Ubiquitin receptor that probably regulates developmental process.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FKN7|DAR4_ARATH Protein DA1-related 4 OS=Arabidopsis thaliana GN=DAR4 PE=1 SV=2

 Score =  245 bits (625), Expect = 4e-64,   Method: Compositional matrix adjust.
 Identities = 123/250 (49%), Positives = 160/250 (64%), Gaps = 5/250 (2%)

Query: 116  CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPK 175
            C  C + I  G  +N     WHP+CFCC  C +PI   E S      YHK CY+E  HP 
Sbjct: 1240 CKDCKSAIEDGISINAYGSVWHPQCFCCLRCREPIAMNEISDLRGM-YHKPCYKELRHPN 1298

Query: 176  CDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGR 235
            C VC+  IP    GL +Y  HPFW++ YCPSH+ DGTP+CCSCER+E   T YV L D R
Sbjct: 1299 CYVCEKKIPRTAEGL-KYHEHPFWMETYCPSHDGDGTPKCCSCERLEHCGTQYVMLADFR 1357

Query: 236  KLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGE---K 292
             LC EC+DSAIMD++ECQPL+ +I+EF+E +HMK+E++ P+ LVE+ ALN+A   E   K
Sbjct: 1358 WLCRECMDSAIMDSDECQPLHFEIREFFEGLHMKIEEEFPVYLVEKNALNKAEKEEKIDK 1417

Query: 293  NGYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILYGL 352
             G   +   RG+CLSEEQ VT+V    R     Q  + +TE  ++ R+C+VTAILILYGL
Sbjct: 1418 QGDQCLMVVRGICLSEEQIVTSVSQGVRRMLNKQILDTVTESQRVVRKCEVTAILILYGL 1477

Query: 353  PRFVICLALS 362
            PR +    L+
Sbjct: 1478 PRLLTGYILA 1487

Arabidopsis thaliana (taxid: 3702)

>sp|Q84WJ0|DAR5_ARATH Protein DA1-related 5 OS=Arabidopsis thaliana GN=DAR5 PE=2 SV=2

 Score =  228 bits (581), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 115/251 (45%), Positives = 158/251 (62%), Gaps = 16/251 (6%)

Query: 115 ICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPIT--DIEFSTSENR-PYHKSCYREH 171
           +C GCN+ + H   +N L V WHP CFCC +C +PI   ++E   S +R  +HKSCY  +
Sbjct: 346 MCGGCNSAVKHEESVNILGVLWHPGCFCCRSCDKPIAIHELENHVSNSRGKFHKSCYERY 405

Query: 172 YHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVAL 231
               C VCK         +  Y  HPFW ++YCP HE DGTP+CCSCER+EP+ T Y  L
Sbjct: 406 ----CYVCKE------KKMKTYNIHPFWEERYCPVHEADGTPKCCSCERLEPRGTKYGKL 455

Query: 232 DDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGE 291
            DGR LCLEC  SA MD++ECQPLY D+++F+ES++MK+E++ PL+LV ++ LN+  +  
Sbjct: 456 SDGRWLCLECGKSA-MDSDECQPLYFDMRDFFESLNMKIEKEFPLILVRKELLNKKEEKI 514

Query: 292 KNGYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILYG 351
            N Y  +   R  C+SE++ +T V   PR G   Q  ++ TEP  +   C VTAILILYG
Sbjct: 515 DNHYEVL--IRAYCMSEQKIMTYVSEEPRTGQNKQLIDMDTEPQGVVHECKVTAILILYG 572

Query: 352 LPRFVICLALS 362
           LPR +    L+
Sbjct: 573 LPRLLTGYILA 583

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LVR6|DAR3_ARATH Protein DA1-related 3 OS=Arabidopsis thaliana GN=DAR3 PE=2 SV=2

 Score =  227 bits (578), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 112/245 (45%), Positives = 160/245 (65%), Gaps = 12/245 (4%)

Query: 120 NNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPK-CDV 178
            +EIG G  +N       P C CC  CH+P   +     +   +H  CY+E+Y  + C V
Sbjct: 83  KSEIGDGTSVN-------PRCLCCFHCHRPF--VMHEILKKGKFHIDCYKEYYRNRNCYV 133

Query: 179 CKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLC 238
           C+  IP N  G+ ++  HPFW +KYCP H+ DGT +CCSCER+EP+ T YV L D R LC
Sbjct: 134 CQQKIPVNAEGIRKFSEHPFWKEKYCPIHDEDGTAKCCSCERLEPRGTNYVMLGDFRWLC 193

Query: 239 LECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGEKNGYYHM 298
           +EC+ SA+MDTNE QPL+ +I+EF+E + +K++++  LLLVE+QALN+A + EK  Y+  
Sbjct: 194 IECMGSAVMDTNEVQPLHFEIREFFEGLFLKVDKEFALLLVEKQALNKAEEEEKIDYHRA 253

Query: 299 PETRGLCLSEEQTVTTVLWRPRFGPGNQ-ARNIITEPYKLTRRCDVTAILILYGLPRFVI 357
             TRGLC+SEEQ V +++  PR GP NQ   +I+TE  +++   +VT ILI+YGLPR + 
Sbjct: 254 AVTRGLCMSEEQIVPSIIKGPRMGPDNQLITDIVTESQRVS-GFEVTGILIIYGLPRLLT 312

Query: 358 CLALS 362
              L+
Sbjct: 313 GYILA 317

Arabidopsis thaliana (taxid: 3702)

>sp|Q3MHZ4|TGFI1_BOVIN Transforming growth factor beta-1-induced transcript 1 protein OS=Bos taurus GN=TGFB1I1 PE=2 SV=2

 Score = 55.8 bits (133), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 35/108 (32%), Positives = 51/108 (47%), Gaps = 9/108 (8%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPK 175
           C  CN  I H + +  L   WHPE FCC +C +P  D  F   E RPY +  + + + P+
Sbjct: 282 CGLCNQPIRH-KMVTALGTHWHPEHFCCVSCGEPFGDEGFHEREGRPYCRRDFLQLFAPR 340

Query: 176 CDVCKHFIPSNHGGLIEYRAHP-FWVQKYCPS-------HEHDGTPRC 215
           C  C+  I  N+   +    HP  +V + C +        EH+G P C
Sbjct: 341 CQGCQGPILDNYISALSALWHPDCFVCRECFAPFSGGSFFEHEGRPLC 388

Functions as a molecular adapter coordinating multiple protein-protein interactions at the focal adhesion complex and in the nucleus. Links various intracellular signaling modules to plasma membrane receptors and regulates the Wnt and TGFB signaling pathways. May also regulate SLC6A3 and SLC6A4 targeting to the plasma membrane hence regulating their activity. In the nucleus, functions as a nuclear receptor coactivator regulating glucocorticoid, androgen, mineralocorticoid and progesterone receptor transcriptional activity. May play a role in the processes of cell growth, proliferation, migration, differentiation and senescence. May have a zinc-dependent DNA-binding activity.

Bos taurus (taxid: 9913)

>sp|O43294|TGFI1_HUMAN Transforming growth factor beta-1-induced transcript 1 protein OS=Homo sapiens GN=TGFB1I1 PE=1 SV=2

 Score = 55.8 bits (133), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 35/108 (32%), Positives = 51/108 (47%), Gaps = 9/108 (8%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPK 175
           C  CN  I H + +  L   WHPE FCC +C +P  D  F   E RPY +  + + + P+
Sbjct: 287 CGFCNQPIRH-KMVTALGTHWHPEHFCCVSCGEPFGDEGFHEREGRPYCRRDFLQLFAPR 345

Query: 176 CDVCKHFIPSNHGGLIEYRAHP-FWVQKYCPS-------HEHDGTPRC 215
           C  C+  I  N+   +    HP  +V + C +        EH+G P C
Sbjct: 346 CQGCQGPILDNYISALSALWHPDCFVCRECFAPFSGGSFFEHEGRPLC 393

Functions as a molecular adapter coordinating multiple protein-protein interactions at the focal adhesion complex and in the nucleus. Links various intracellular signaling modules to plasma membrane receptors and regulates the Wnt and TGFB signaling pathways. May also regulate SLC6A3 and SLC6A4 targeting to the plasma membrane hence regulating their activity. In the nucleus, functions as a nuclear receptor coactivator regulating glucocorticoid, androgen, mineralocorticoid and progesterone receptor transcriptional activity. May play a role in the processes of cell growth, proliferation, migration, differentiation and senescence. May have a zinc-dependent DNA-binding activity.

Homo sapiens (taxid: 9606)

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	368
255538534	480	zinc ion binding protein, putative [Rici	0.978	0.75	0.728	1e-154
302142429	462	unnamed protein product [Vitis vinifera]	0.983	0.783	0.722	1e-152
359492104	482	PREDICTED: protein DA1 [Vitis vinifera]	0.983	0.751	0.716	1e-151
449470017	480	PREDICTED: protein DA1-like [Cucumis sat	0.978	0.75	0.695	1e-148
224063585	450	predicted protein [Populus trichocarpa]	0.907	0.742	0.689	1e-145
115466772	486	Os06g0182500 [Oryza sativa Japonica Grou	0.980	0.742	0.666	1e-143
356552147	468	PREDICTED: protein DA1-like isoform 2 [G	0.953	0.75	0.699	1e-142
242092232	486	hypothetical protein SORBIDRAFT_10g00557	0.980	0.742	0.669	1e-142
356552145	478	PREDICTED: protein DA1-like isoform 1 [G	0.959	0.738	0.690	1e-140
219888221	508	unknown [Zea mays]	0.980	0.710	0.637	1e-140

>gi|255538534|ref|XP_002510332.1| zinc ion binding protein, putative [Ricinus communis] gi|223551033|gb|EEF52519.1| zinc ion binding protein, putative [Ricinus communis]

 Score =  551 bits (1421), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 265/364 (72%), Positives = 305/364 (83%), Gaps = 4/364 (1%)

Query: 3   WLSKIFKGSSHSITEGHSHRNYGEDPHCYAPSTSGDLPLEQENEDIDRAIALSLLEENQK 62
           WLSKIFKGSSH+I+EGH   NYG+DP+ YAPSTSG    EQENEDI+RAI  SLLEENQ 
Sbjct: 4   WLSKIFKGSSHNISEGHYRGNYGQDPNYYAPSTSGVEWSEQENEDINRAIEWSLLEENQT 63

Query: 63  GENVIDKESQVEEDEQLARAIQESLNLESPPRQGTAHTYQHFPVIQFPEGY----RICAG 118
           G+ VI+ E+Q+EEDEQLARAIQE LN+ESPPR G  +   +      P       RICAG
Sbjct: 64  GKRVINNENQLEEDEQLARAIQEILNVESPPRYGYGYGNGNGNGNDEPRLSLFLCRICAG 123

Query: 119 CNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDV 178
           CN EIGHGRFLNCL+ FWHPECF CHAC+ PI+D EFS + N PYHKSCY+E YHPKCDV
Sbjct: 124 CNTEIGHGRFLNCLNAFWHPECFRCHACNLPISDYEFSMTGNYPYHKSCYKERYHPKCDV 183

Query: 179 CKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLC 238
           CK+FIP+N  GLIEYRAHPFW+QKYCPSHEHDGTPRCCSCERME +DT Y+AL DGRKLC
Sbjct: 184 CKYFIPTNPAGLIEYRAHPFWIQKYCPSHEHDGTPRCCSCERMEARDTGYIALSDGRKLC 243

Query: 239 LECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGEKNGYYHM 298
           LECLDSAIMDTNECQPLYLDIQEFYES++M++EQ +PLLLVERQALNEAR+GEKNG+YH+
Sbjct: 244 LECLDSAIMDTNECQPLYLDIQEFYESLNMRVEQHVPLLLVERQALNEAREGEKNGHYHI 303

Query: 299 PETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILYGLPRFVIC 358
           PETRGLCLSEEQT++ VL RP+FG GN+A  ++TEPYKL RRC+VTAILIL+GLPR +  
Sbjct: 304 PETRGLCLSEEQTISRVLKRPKFGAGNRAMGMVTEPYKLMRRCEVTAILILFGLPRLLTG 363

Query: 359 LALS 362
             L+
Sbjct: 364 SILA 367

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302142429|emb|CBI19632.3| unnamed protein product [Vitis vinifera]

 Score =  545 bits (1403), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 265/367 (72%), Positives = 303/367 (82%), Gaps = 5/367 (1%)

Query: 1   MGWLSKIFKGSSHSITEGHSHRNYGEDPHCYAPSTSGDLPLEQENEDIDRAIALSLLEEN 60
           MGWL+KIFKGSSH I+EG+ H  Y  D     PS SGD+  E ENEDIDRAIALSL EE 
Sbjct: 1   MGWLNKIFKGSSHKISEGNYHGRYQGDTVQNEPSCSGDVWAETENEDIDRAIALSLSEEE 60

Query: 61  QKGENVIDKESQVEEDEQLARAIQESLNLESPPRQGTAH----TYQHFPVIQFPEGYRIC 116
           QKG+ VID E Q+EEDEQLARAIQESLN+ESPP+ G  +     YQ  P   +  G+RIC
Sbjct: 61  QKGKKVIDNEFQLEEDEQLARAIQESLNIESPPQHGNGNGNGNIYQPIP-FPYSTGFRIC 119

Query: 117 AGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKC 176
           AGCN EIGHGRFL+C+   WHPECF CH C  PI+D E+S + N PYHKSCY+EHYHPKC
Sbjct: 120 AGCNTEIGHGRFLSCMGAVWHPECFRCHGCGYPISDYEYSMNGNYPYHKSCYKEHYHPKC 179

Query: 177 DVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRK 236
           DVCKHFIP+N  GLIEYRAHPFWVQKYCPSHEHD TPRCCSCERMEP+DT YVAL+DGRK
Sbjct: 180 DVCKHFIPTNPAGLIEYRAHPFWVQKYCPSHEHDRTPRCCSCERMEPRDTRYVALNDGRK 239

Query: 237 LCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGEKNGYY 296
           LCLECLDSAIMDTNECQPLYLDIQEFYE ++MK++QQ+PLLLVERQALNEA +GEK+G++
Sbjct: 240 LCLECLDSAIMDTNECQPLYLDIQEFYEGLNMKVQQQVPLLLVERQALNEAMEGEKSGHH 299

Query: 297 HMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILYGLPRFV 356
           HMPETRGLCLSEEQTV+T+L RP+ G GN+  N+ITEP KLTRRCDVTA+LILYGLPR +
Sbjct: 300 HMPETRGLCLSEEQTVSTILRRPKIGTGNRVMNMITEPCKLTRRCDVTAVLILYGLPRLL 359

Query: 357 ICLALSN 363
               L++
Sbjct: 360 TGSILAH 366

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359492104|ref|XP_002283584.2| PREDICTED: protein DA1 [Vitis vinifera]

 Score =  540 bits (1391), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 265/370 (71%), Positives = 304/370 (82%), Gaps = 8/370 (2%)

Query: 1   MGWLSKIFKGSSHSITEGHSHRNYGEDPHCYAPSTSGDLPLEQENEDIDRAIALSLLEEN 60
           MGWL+KIFKGSSH I+EG+ H  Y  D     PS SGD+  E ENEDIDRAIALSL EE 
Sbjct: 1   MGWLNKIFKGSSHKISEGNYHGRYQGDTVQNEPSCSGDVWAETENEDIDRAIALSLSEEE 60

Query: 61  QKGENVIDK---ESQVEEDEQLARAIQESLNLESPPRQGTAH----TYQHFPVIQFPEGY 113
           QKG+ VID+   E Q+EEDEQLARAIQESLN+ESPP+ G  +     YQ  P   +  G+
Sbjct: 61  QKGKKVIDELDNEFQLEEDEQLARAIQESLNIESPPQHGNGNGNGNIYQPIP-FPYSTGF 119

Query: 114 RICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYH 173
           RICAGCN EIGHGRFL+C+   WHPECF CH C  PI+D E+S + N PYHKSCY+EHYH
Sbjct: 120 RICAGCNTEIGHGRFLSCMGAVWHPECFRCHGCGYPISDYEYSMNGNYPYHKSCYKEHYH 179

Query: 174 PKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDD 233
           PKCDVCKHFIP+N  GLIEYRAHPFWVQKYCPSHEHD TPRCCSCERMEP+DT YVAL+D
Sbjct: 180 PKCDVCKHFIPTNPAGLIEYRAHPFWVQKYCPSHEHDRTPRCCSCERMEPRDTRYVALND 239

Query: 234 GRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGEKN 293
           GRKLCLECLDSAIMDTNECQPLYLDIQEFYE ++MK++QQ+PLLLVERQALNEA +GEK+
Sbjct: 240 GRKLCLECLDSAIMDTNECQPLYLDIQEFYEGLNMKVQQQVPLLLVERQALNEAMEGEKS 299

Query: 294 GYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILYGLP 353
           G++HMPETRGLCLSEEQTV+T+L RP+ G GN+  N+ITEP KLTRRCDVTA+LILYGLP
Sbjct: 300 GHHHMPETRGLCLSEEQTVSTILRRPKIGTGNRVMNMITEPCKLTRRCDVTAVLILYGLP 359

Query: 354 RFVICLALSN 363
           R +    L++
Sbjct: 360 RLLTGSILAH 369

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449470017|ref|XP_004152715.1| PREDICTED: protein DA1-like [Cucumis sativus] gi|449496042|ref|XP_004160020.1| PREDICTED: protein DA1-like [Cucumis sativus]

 Score =  531 bits (1367), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 253/364 (69%), Positives = 301/364 (82%), Gaps = 4/364 (1%)

Query: 1   MGWLSKIFK-GSSHSITEGHSHRNYGEDPHCYAPSTSGDLPLEQENEDIDRAIALSLLEE 59
           MGWLSKI K GS H I E +   NY EDP+ + PSTS  L  E ENEDIDRAIA+SL+EE
Sbjct: 1   MGWLSKILKVGSGHRIAEKNYQANYEEDPNSHLPSTSEGLWSENENEDIDRAIAISLVEE 60

Query: 60  NQKGENVIDKESQVEEDEQLARAIQESLNLESPPRQGTAHTYQ-HFPVIQFPEGYRICAG 118
           +QK  NVID++ Q+EEDE LA+A+QESLNL+SPP+  + + YQ + P  QF  G RICAG
Sbjct: 61  SQKANNVIDRDYQLEEDELLAKAVQESLNLDSPPQYTSGNMYQPYLPQYQF--GSRICAG 118

Query: 119 CNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDV 178
           C NEIG+GR+LNCL+ FWHPECF C AC+ PI+D EFSTS N PYHKSCY+E+YHPKCDV
Sbjct: 119 CYNEIGYGRYLNCLNAFWHPECFRCRACNLPISDYEFSTSGNFPYHKSCYKENYHPKCDV 178

Query: 179 CKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLC 238
           CKHFIP+N  GLIEYRAHPFW+QKYCPSHE+DGTPRCCSCERMEPQ+  Y+ L DGRKLC
Sbjct: 179 CKHFIPTNPAGLIEYRAHPFWIQKYCPSHEYDGTPRCCSCERMEPQEVKYIPLHDGRKLC 238

Query: 239 LECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGEKNGYYHM 298
           LECLDS IMDT ECQPLY DIQEFY+ ++MK+EQ +PLLLVERQALNEAR+GEK+G+YH+
Sbjct: 239 LECLDSTIMDTKECQPLYRDIQEFYDGLNMKVEQDVPLLLVERQALNEAREGEKHGHYHI 298

Query: 299 PETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILYGLPRFVIC 358
           PETRGLCLSEEQT++TVL RPR+  GN+  + ++EPYKLTR C+VTAILIL+GLPR +  
Sbjct: 299 PETRGLCLSEEQTISTVLRRPRYERGNRVSSTMSEPYKLTRHCEVTAILILFGLPRLLTG 358

Query: 359 LALS 362
             L+
Sbjct: 359 SILA 362

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224063585|ref|XP_002301214.1| predicted protein [Populus trichocarpa] gi|222842940|gb|EEE80487.1| predicted protein [Populus trichocarpa]

 Score =  520 bits (1339), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 253/367 (68%), Positives = 291/367 (79%), Gaps = 33/367 (8%)

Query: 1   MGWLSKIFKGSSHSITEGHSHRNYGEDPHCYAPSTSGDLPLEQENE-DIDRAIALSLLEE 59
           MGWLSKIFKG+                             LEQENE DIDRAIALSLLE+
Sbjct: 1   MGWLSKIFKGAY----------------------------LEQENEEDIDRAIALSLLED 32

Query: 60  NQKGENVIDKESQVEEDEQLARAIQESLNLESPPRQGT---AHTYQHFPVIQFPEGYRIC 116
           N  G+NV D E Q++EDEQLA+A+QESL++ESPPR G     + YQ +P I FP G+R+C
Sbjct: 33  NHIGKNVADVEIQLKEDEQLAKALQESLSVESPPRHGIPYQGNAYQPYP-IHFPMGFRVC 91

Query: 117 AGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKC 176
           AGCN EIG G+FLNCL+ FWHPECF CHAC  PI+D EFS + N PYHK CY+E YHPKC
Sbjct: 92  AGCNTEIGQGKFLNCLNAFWHPECFRCHACGLPISDYEFSMTGNYPYHKFCYKERYHPKC 151

Query: 177 DVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRK 236
           +VCK FIP+N  GLIEYRAHPFW+QKYCPSHEHDGTPRCCSCERMEPQDT YVAL+DGRK
Sbjct: 152 EVCKLFIPTNPAGLIEYRAHPFWIQKYCPSHEHDGTPRCCSCERMEPQDTGYVALNDGRK 211

Query: 237 LCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGEKNGYY 296
           LCLECLDSA+MDT  CQPLYLDIQEFYE ++MK+EQ +PLLLVERQALNEARDGEKNG+Y
Sbjct: 212 LCLECLDSAVMDTKHCQPLYLDIQEFYERLNMKVEQDVPLLLVERQALNEARDGEKNGHY 271

Query: 297 HMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILYGLPRFV 356
           HMPETRGLCLSEEQT++TV  +PRFG GN+A  ++TEPYKLTRRC+VTAILILYGLPR +
Sbjct: 272 HMPETRGLCLSEEQTISTVSKQPRFGAGNRAMGMMTEPYKLTRRCEVTAILILYGLPRLL 331

Query: 357 ICLALSN 363
               L++
Sbjct: 332 TGSILAH 338

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115466772|ref|NP_001056985.1| Os06g0182500 [Oryza sativa Japonica Group] gi|55771369|dbj|BAD72536.1| LIM domain containing protein-like [Oryza sativa Japonica Group] gi|113595025|dbj|BAF18899.1| Os06g0182500 [Oryza sativa Japonica Group]

 Score =  514 bits (1323), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 248/372 (66%), Positives = 297/372 (79%), Gaps = 11/372 (2%)

Query: 1   MGWLSKIFKGSSHSITEGHSHRNYGEDPHCYAPSTSG---DLPLEQENEDIDRAIALSLL 57
           MGWL+K F+GS+H I+EG  H    E+     PS S    D+P E +NEDI RAI+LSLL
Sbjct: 1   MGWLTKFFRGSTHKISEGQYHSKPAEETIWNGPSNSAVVTDVPSEFDNEDIARAISLSLL 60

Query: 58  EENQKGENVIDKESQVEEDEQLARAIQESLNLESPPR---QGTAH---TYQHFPVIQFPE 111
           EE Q+    I+K+  +EEDEQLARAIQESLN+ESPPR    G A+    YQ  P + F  
Sbjct: 61  EEEQRKAKAIEKDMHLEEDEQLARAIQESLNVESPPRARENGNANGGNMYQPLPFM-FSS 119

Query: 112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREH 171
           G+R CAGC++EIGHGRFL+C+   WHPECF CHAC+QPI D EFS S N PYHK+CY+E 
Sbjct: 120 GFRTCAGCHSEIGHGRFLSCMGAVWHPECFRCHACNQPIYDYEFSMSGNHPYHKTCYKER 179

Query: 172 YHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVAL 231
           +HPKCDVCK FIP+N  GLIEYRAHPFW+QKYCPSHE DGTPRCCSCERMEP+++ YV L
Sbjct: 180 FHPKCDVCKQFIPTNMNGLIEYRAHPFWLQKYCPSHEVDGTPRCCSCERMEPRESRYVLL 239

Query: 232 DDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGE 291
           DDGRKLCLECLDSA+MDT+ECQPLYL+IQEFYE ++MK+EQQ+PLLLVERQALNEA +GE
Sbjct: 240 DDGRKLCLECLDSAVMDTSECQPLYLEIQEFYEGLNMKVEQQVPLLLVERQALNEAMEGE 299

Query: 292 KNGYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILYG 351
           K G++H+PETRGLCLSEEQTV+T+L RPR   GN+   +ITEPY+LTRRC+VTAILILYG
Sbjct: 300 KTGHHHLPETRGLCLSEEQTVSTILRRPRMA-GNKVMEMITEPYRLTRRCEVTAILILYG 358

Query: 352 LPRFVICLALSN 363
           LPR +    L++
Sbjct: 359 LPRLLTGSILAH 370

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356552147|ref|XP_003544431.1| PREDICTED: protein DA1-like isoform 2 [Glycine max]

 Score =  509 bits (1312), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 254/363 (69%), Positives = 290/363 (79%), Gaps = 12/363 (3%)

Query: 1   MGWLSKIFKGSSHS-ITEGHSHRNYGEDPHCYAPSTSGDLPLEQENEDIDRAIALSLLEE 59
           MGWLS+IFKGS H+ ++EGH    Y ED   Y PSTSG    + ENEDIDRAIALSL+EE
Sbjct: 1   MGWLSRIFKGSDHNKLSEGHY---YKEDAGYYLPSTSGVTNNQNENEDIDRAIALSLVEE 57

Query: 60  NQKGENVIDKESQVEEDEQLARAIQESLNLESPPRQGTAHTYQHFPVIQFPEGYRICAGC 119
            QK  N ++ ESQ+EEDEQLARAI++SLNLESPPR G  + YQ  P+  FP G  ICAGC
Sbjct: 58  TQKANNNVNGESQLEEDEQLARAIEQSLNLESPPRYGNENMYQP-PIQYFPMG--ICAGC 114

Query: 120 NNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVC 179
             EIG+GR+LNCL+ FWHPECF C AC+ PI+D EFSTS N PYHKSCY+E YHPKCDVC
Sbjct: 115 YTEIGYGRYLNCLNAFWHPECFRCRACNLPISDYEFSTSGNYPYHKSCYKESYHPKCDVC 174

Query: 180 KHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCL 239
           KHFIP+N  GLIEYRAHPFW+QKYCP+HEHDGT RCCSCERME Q+  Y+AL DGRKLCL
Sbjct: 175 KHFIPTNPAGLIEYRAHPFWIQKYCPTHEHDGTTRCCSCERMESQEAGYIALKDGRKLCL 234

Query: 240 ECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGEKNGYYHMP 299
           ECLDSAIMDTNECQPL+ DIQ FYES++MKL+QQIPLLLVERQALNEAR+GEKNG+YHMP
Sbjct: 235 ECLDSAIMDTNECQPLHADIQRFYESLNMKLDQQIPLLLVERQALNEAREGEKNGHYHMP 294

Query: 300 ETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILYGLPRFVICL 359
           ETRGLCLSEE  ++T   RPR G     R    +PY+ T RCDVTAILILYGLPR +   
Sbjct: 295 ETRGLCLSEE--LSTFSRRPRLGTTMDMR---AQPYRPTTRCDVTAILILYGLPRLLTGS 349

Query: 360 ALS 362
            L+
Sbjct: 350 ILA 352

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242092232|ref|XP_002436606.1| hypothetical protein SORBIDRAFT_10g005570 [Sorghum bicolor] gi|241914829|gb|EER87973.1| hypothetical protein SORBIDRAFT_10g005570 [Sorghum bicolor]

 Score =  509 bits (1312), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 249/372 (66%), Positives = 294/372 (79%), Gaps = 11/372 (2%)

Query: 1   MGWLSKIFKGSSHSITEGHSHRNYGEDPHCYAPSTS---GDLPLEQENEDIDRAIALSLL 57
           MGWL+K F+GS+H+I+EG  H    ED     PS+S    D+  E  NEDIDRAIALSL 
Sbjct: 1   MGWLTKFFRGSTHNISEGQYHSRPAEDTAWNEPSSSPVVTDIFSEFNNEDIDRAIALSLS 60

Query: 58  EENQKGENVIDKESQVEEDEQLARAIQESLNLESPP---RQGTAH---TYQHFPVIQFPE 111
           EE Q+    IDK+  +EEDEQLARAIQESLN+ESPP     G+A+    Y   P + F  
Sbjct: 61  EEEQRKAKTIDKDMHLEEDEQLARAIQESLNVESPPPSRENGSANGGNAYHPLPFM-FSS 119

Query: 112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREH 171
           G+R CAGC+ EIGHGRFL+C+   WHPECF CHAC QPI D EFS S N PYHK+CY+E 
Sbjct: 120 GFRACAGCHREIGHGRFLSCMGAVWHPECFRCHACSQPIYDYEFSMSGNHPYHKTCYKEQ 179

Query: 172 YHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVAL 231
           +HPKCDVCK FIP+N  GLIEYRAHPFW+QKYCPSHE DGTPRCCSCERMEP+++ YV L
Sbjct: 180 FHPKCDVCKQFIPTNMNGLIEYRAHPFWLQKYCPSHEVDGTPRCCSCERMEPRESRYVLL 239

Query: 232 DDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGE 291
           DDGRKLCLECLDSA+MDTNECQPLYL+IQEFYE ++MK+EQQ+PLLLVERQALNEA +GE
Sbjct: 240 DDGRKLCLECLDSAVMDTNECQPLYLEIQEFYEGLNMKVEQQVPLLLVERQALNEAMEGE 299

Query: 292 KNGYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILYG 351
           K G++H+PETRGLCLSEEQTV+T+L RPR   GN+   +ITEPY+LTRRC+VTAILILYG
Sbjct: 300 KAGHHHLPETRGLCLSEEQTVSTILRRPRMA-GNKIMGMITEPYRLTRRCEVTAILILYG 358

Query: 352 LPRFVICLALSN 363
           LPR +    L++
Sbjct: 359 LPRLLTGSILAH 370

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356552145|ref|XP_003544430.1| PREDICTED: protein DA1-like isoform 1 [Glycine max]

 Score =  505 bits (1301), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 256/371 (69%), Positives = 290/371 (78%), Gaps = 18/371 (4%)

Query: 1   MGWLSKIFKGSSHS-ITEGHSHRNYGEDPHCYAPSTSG-------DLPLEQENEDIDRAI 52
           MGWLS+IFKGS H+ ++EGH    Y ED   Y PSTSG           + ENEDIDRAI
Sbjct: 1   MGWLSRIFKGSDHNKLSEGHY---YKEDAGYYLPSTSGVTNDAWNQSQNQNENEDIDRAI 57

Query: 53  ALSLLEENQKGEN-VIDKESQVEEDEQLARAIQESLNLESPPRQGTAHTYQHFPVIQFPE 111
           ALSL+EE QK  N V D  SQ+EEDEQLARAI++SLNLESPPR G  + YQ  P+  FP 
Sbjct: 58  ALSLVEETQKANNNVNDYRSQLEEDEQLARAIEQSLNLESPPRYGNENMYQP-PIQYFPM 116

Query: 112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREH 171
           G RICAGC  EIG+GR+LNCL+ FWHPECF C AC+ PI+D EFSTS N PYHKSCY+E 
Sbjct: 117 GSRICAGCYTEIGYGRYLNCLNAFWHPECFRCRACNLPISDYEFSTSGNYPYHKSCYKES 176

Query: 172 YHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVAL 231
           YHPKCDVCKHFIP+N  GLIEYRAHPFW+QKYCP+HEHDGT RCCSCERME Q+  Y+AL
Sbjct: 177 YHPKCDVCKHFIPTNPAGLIEYRAHPFWIQKYCPTHEHDGTTRCCSCERMESQEAGYIAL 236

Query: 232 DDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGE 291
            DGRKLCLECLDSAIMDTNECQPL+ DIQ FYES++MKL+QQIPLLLVERQALNEAR+GE
Sbjct: 237 KDGRKLCLECLDSAIMDTNECQPLHADIQRFYESLNMKLDQQIPLLLVERQALNEAREGE 296

Query: 292 KNGYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILYG 351
           KNG+YHMPETRGLCLSEE  ++T   RPR G     R    +PY+ T RCDVTAILILYG
Sbjct: 297 KNGHYHMPETRGLCLSEE--LSTFSRRPRLGTTMDMR---AQPYRPTTRCDVTAILILYG 351

Query: 352 LPRFVICLALS 362
           LPR +    L+
Sbjct: 352 LPRLLTGSILA 362

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|219888221|gb|ACL54485.1| unknown [Zea mays]

 Score =  504 bits (1297), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 251/394 (63%), Positives = 295/394 (74%), Gaps = 33/394 (8%)

Query: 1   MGWLSKIFKGSSHSITEGHSHRNYGEDPHCYAPSTS---GDLPLEQENEDIDRAIALSLL 57
           MGWL+K F+GS+H+I+EG  H    ED     PS+S    D+  E  NEDIDRAIALSL 
Sbjct: 1   MGWLTKFFRGSTHNISEGQYHSRPAEDTAWNEPSSSPVVTDILSEFNNEDIDRAIALSLS 60

Query: 58  EENQKGENVIDKESQVEEDEQLARAIQESLNLESPPRQG--------------TAHTYQ- 102
           EE Q+ E  IDK+  +EEDEQLARAIQESLN+ESPPR+               T + YQ 
Sbjct: 61  EEEQRKEKAIDKDMHLEEDEQLARAIQESLNVESPPRRNGSANGGTMYHPPRETGNAYQP 120

Query: 103 -------------HFPVIQFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQP 149
                        H     F  G+R CAGC+ EIGHGRFL+C+   WHPECF CHAC QP
Sbjct: 121 PRENGSANGGNAYHPLPFMFSSGFRACAGCHREIGHGRFLSCMGAVWHPECFRCHACSQP 180

Query: 150 ITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEH 209
           I D EFS S N PYHK+CY+E +HPKCDVCK FIP+N  GLIEYRAHPFWVQKYCPSHE 
Sbjct: 181 IYDYEFSMSGNHPYHKTCYKEQFHPKCDVCKQFIPTNMNGLIEYRAHPFWVQKYCPSHEM 240

Query: 210 DGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMK 269
           DGTPRCCSCERMEP+++ YV LDDGRKLCLECLDSA+MDTN+CQPLYL+IQEFYE ++MK
Sbjct: 241 DGTPRCCSCERMEPRESKYVLLDDGRKLCLECLDSAVMDTNDCQPLYLEIQEFYEGLNMK 300

Query: 270 LEQQIPLLLVERQALNEARDGEKNGYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARN 329
           +EQQ+PLLLVERQALNEA +GEK G++H+PETRGLCLSEEQTV+T+L RPR   GN+   
Sbjct: 301 VEQQVPLLLVERQALNEAMEGEKAGHHHLPETRGLCLSEEQTVSTIL-RPRMA-GNKIMG 358

Query: 330 IITEPYKLTRRCDVTAILILYGLPRFVICLALSN 363
           +ITEPY+LTRRC+VTAILILYGLPR +    L++
Sbjct: 359 MITEPYRLTRRCEVTAILILYGLPRLLTGSILAH 392

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

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	368
TAIR|locus:2115290	553	AT4G36860 [Arabidopsis thalian	0.842	0.560	0.666	6e-133
TAIR|locus:2202175	532	DA1 "DA1" [Arabidopsis thalian	0.687	0.475	0.752	1.4e-118
TAIR|locus:2063932	528	DAR2 "DA1-related protein 2" [	0.932	0.649	0.508	8.4e-97
TAIR|locus:2154880	644	DAR6 "DA1-related protein 6" [	0.777	0.444	0.495	1.7e-75
TAIR|locus:2170338	1613	DAR4 "DA1-related protein 4" [	0.807	0.184	0.437	1.4e-63
TAIR|locus:2154890	702	DAR5 "DA1-related protein 5" [	0.622	0.326	0.473	1.2e-58
ZFIN|ZDB-GENE-040121-6	649	ldb3a "LIM-domain binding fact	0.173	0.098	0.446	1.2e-08
UNIPROTKB|O43294	461	TGFB1I1 "Transforming growth f	0.269	0.214	0.333	2e-08
UNIPROTKB|Q3MHZ4	456	TGFB1I1 "Transforming growth f	0.269	0.217	0.333	2.5e-08
UNIPROTKB|E2RTE0	461	TGFB1I1 "Uncharacterized prote	0.269	0.214	0.333	2.5e-08

TAIR|locus:2115290 AT4G36860 [Arabidopsis thaliana (taxid:3702)]

 Score = 1179 (420.1 bits), Expect = 6.0e-133, Sum P(2) = 6.0e-133
 Identities = 210/315 (66%), Positives = 256/315 (81%)

Query:    42 EQENEDIDRAIALSLLEENQKGENVIDKESQVEEDEQLARAIQESLNLESPPRQGTAHTY 101
             E + E+ ++ +A + LEE    E +   ++Q+EEDE LA+A+QES+N+ SPPR    +  
Sbjct:   121 EAQLEETEKLLAKARLEE----EEMRRSKAQLEEDELLAKALQESMNVGSPPRYDPGNIL 176

Query:   102 QHFPVIQFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENR 161
             Q +P +  P  +RIC GC  EIGHGRFL+C+   WHPECFCC+AC +PI D EFS S NR
Sbjct:   177 QPYPFL-IPSSHRICVGCQAEIGHGRFLSCMGGVWHPECFCCNACDKPIIDYEFSMSGNR 235

Query:   162 PYHKSCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERM 221
             PYHK CY+E +HPKCDVC +FIP+N  GLIEYRAHPFW+QKYCPSHE DGTPRCCSCERM
Sbjct:   236 PYHKLCYKEQHHPKCDVCHNFIPTNPAGLIEYRAHPFWMQKYCPSHERDGTPRCCSCERM 295

Query:   222 EPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVER 281
             EP+DT Y+ LDDGRKLCLECLDSAIMDT+ECQPLYL+I+EFYE +HMK+EQQIP+LLVER
Sbjct:   296 EPKDTKYLILDDGRKLCLECLDSAIMDTHECQPLYLEIREFYEGLHMKVEQQIPMLLVER 355

Query:   282 QALNEARDGEKNGYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRC 341
              ALNEA +GEK+G++H+PETRGLCLSEEQTVTTVL RPR G G +  ++ITEP +L RRC
Sbjct:   356 SALNEAMEGEKHGHHHLPETRGLCLSEEQTVTTVLRRPRIGAGYKLIDMITEPCRLIRRC 415

Query:   342 DVTAILILYGLPRFV 356
             +VTAILILYGLPR +
Sbjct:   416 EVTAILILYGLPRLL 430

GO:0005886 "plasma membrane" evidence=ISM;IDA

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2202175 DA1 "DA1" [Arabidopsis thaliana (taxid:3702)]

 Score = 1099 (391.9 bits), Expect = 1.4e-118, Sum P(2) = 1.4e-118
 Identities = 192/255 (75%), Positives = 220/255 (86%)

Query:   103 HFP-VIQFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENR 161
             ++P  I F   +RICAGCN EIGHGRFLNCL+  WHPECF C+ C QPI++ EFSTS N 
Sbjct:   158 YYPRPITFQMDFRICAGCNMEIGHGRFLNCLNSLWHPECFRCYGCSQPISEYEFSTSGNY 217

Query:   162 PYHKSCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERM 221
             P+HK+CYRE YHPKCDVC HFIP+NH GLIEYRAHPFWVQKYCPSHEHD TPRCCSCERM
Sbjct:   218 PFHKACYRERYHPKCDVCSHFIPTNHAGLIEYRAHPFWVQKYCPSHEHDATPRCCSCERM 277

Query:   222 EPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVER 281
             EP++T YV L+DGRKLCLECLDSA+MDT +CQPLYL IQ FYE ++MK+EQ++PLLLVER
Sbjct:   278 EPRNTRYVELNDGRKLCLECLDSAVMDTMQCQPLYLQIQNFYEGLNMKVEQEVPLLLVER 337

Query:   282 QALNEARDGEKNGYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRC 341
             QALNEAR+GEKNG+YHMPETRGLCLSEEQTV+TV  R + G G  A NI TEPYKLTR+C
Sbjct:   338 QALNEAREGEKNGHYHMPETRGLCLSEEQTVSTVRKRSKHGTGKWAGNI-TEPYKLTRQC 396

Query:   342 DVTAILILYGLPRFV 356
             +VTAILIL+GLPR +
Sbjct:   397 EVTAILILFGLPRLL 411

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

GO:0043130 "ubiquitin binding" evidence=IDA;IPI

GO:0046621 "negative regulation of organ growth" evidence=IMP

GO:0048317 "seed morphogenesis" evidence=IMP

GO:0048482 "ovule morphogenesis" evidence=IMP

TAIR|locus:2063932 DAR2 "DA1-related protein 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 962 (343.7 bits), Expect = 8.4e-97, P = 8.4e-97
 Identities = 186/366 (50%), Positives = 248/366 (67%)

Query:     1 MGWLSKIFKGSSHSITEG-HSHRN---YGEDPHCY---APSTSGDLPL-EQENEDIDRAI 52
             M W+SK+FK  S+    G H++ +   + ED +      PS+  D     ++ E++DR+I
Sbjct:    49 MKWVSKLFKSGSNGGGSGAHTNHHPPQFQEDENMVFPLPPSSLDDRSRGARDKEELDRSI 108

Query:    53 ALSLLEENQKGENVIDKESQVEEDEQLARAIQESLNLES--PPRQGTAHTYQHFPVIQFP 110
             +LSL +  ++          ++ +    R     LN  S  PP       Y+  P  Q+ 
Sbjct:   109 SLSLADNTKRPHGY---GWSMDNNRDFPRPFHGGLNPSSFIPP-------YE--PSYQYR 156

Query:   111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYRE 170
                RIC GCN++IG G +L C+  F+HPECF CH+C   IT+ EFS S  +PYHK C++E
Sbjct:   157 RRQRICGGCNSDIGSGNYLGCMGTFFHPECFRCHSCGYAITEHEFSLSGTKPYHKLCFKE 216

Query:   171 HYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVA 230
               HPKC+VC HFIP+N  GLIEYR HPFW QKYCPSHE+D T RCCSCER+E  D  Y  
Sbjct:   217 LTHPKCEVCHHFIPTNDAGLIEYRCHPFWNQKYCPSHEYDKTARCCSCERLESWDVRYYT 276

Query:   231 LDDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDG 290
             L+DGR LCLEC+++AI DT ECQPLY  I+++YE ++MKL+QQIP+LLV+R+ALN+A  G
Sbjct:   277 LEDGRSLCLECMETAITDTGECQPLYHAIRDYYEGMYMKLDQQIPMLLVQREALNDAIVG 336

Query:   291 EKNGYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILY 350
             EKNGY+HMPETRGLCLSEEQTVT+VL RPR G  ++   + T+P +LTR+C+VTAIL+LY
Sbjct:   337 EKNGYHHMPETRGLCLSEEQTVTSVLRRPRLG-AHRLVGMRTQPQRLTRKCEVTAILVLY 395

Query:   351 GLPRFV 356
             GLPR +
Sbjct:   396 GLPRLL 401

GO:0008270 "zinc ion binding" evidence=IEA

GO:0010088 "phloem development" evidence=IMP

GO:0048364 "root development" evidence=IMP

TAIR|locus:2154880 DAR6 "DA1-related protein 6" [Arabidopsis thaliana (taxid:3702)]

 Score = 761 (272.9 bits), Expect = 1.7e-75, P = 1.7e-75
 Identities = 150/303 (49%), Positives = 199/303 (65%)

Query:    57 LEENQKGENVIDKESQVEEDEQLARAIQESLNLESPPRQGTAHTYQHFPVIQFPEGYRIC 116
             LEEN    N I   + V+EDEQLA+A++ESL  +   +Q          +++      +C
Sbjct:   231 LEEN----NNISTRAPVDEDEQLAKAVEESLKGKGQIKQSKDEVEGDGMLLELNPPPSLC 286

Query:   117 AGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPIT--DIEFSTSENR-PYHKSCYREHYH 173
              GCN  + HG  +N L V WHP CFCC ACH+PI   DIE   S +R  +HKSCY E Y 
Sbjct:   287 GGCNFAVEHGGSVNILGVLWHPGCFCCRACHKPIAIHDIENHVSNSRGKFHKSCY-ERY- 344

Query:   174 PKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDD 233
               C VCK         +  Y  HPFW ++YCP HE DGTP+CCSCER+EP+++ YV L D
Sbjct:   345 --CYVCKE------KKMKTYNNHPFWEERYCPVHEADGTPKCCSCERLEPRESNYVMLAD 396

Query:   234 GRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGEKN 293
             GR LCLEC++SA+MD++ECQPL+ D+++F+E ++MK+E++ P LLVE+QALN+A   EK 
Sbjct:   397 GRWLCLECMNSAVMDSDECQPLHFDMRDFFEGLNMKIEKEFPFLLVEKQALNKAEKEEKI 456

Query:   294 GYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILYGLP 353
              Y +   TRG+CLSEEQ V +V  RP  GP N+   + TE  K+TR C+VTAILILYGLP
Sbjct:   457 DYQYEVVTRGICLSEEQIVDSVSQRPVRGPNNKLVGMATESQKVTRECEVTAILILYGLP 516

Query:   354 RFV 356
             R +
Sbjct:   517 RLL 519

GO:0005737 "cytoplasm" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2170338 DAR4 "DA1-related protein 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 661 (237.7 bits), Expect = 1.4e-63, P = 1.4e-63
 Identities = 133/304 (43%), Positives = 183/304 (60%)

Query:    57 LEENQKGENVIDKESQVEEDEQLARAIQESLNLE-SPPRQGTAHTYQHFPVIQFPEGYRI 115
             +E N+K E    K+  +EE     +  ++ L+ + +  ++   H+  H      P   + 
Sbjct:  1181 IESNEKEERRHSKDYVIEELVLKGKGKRKQLDDDKADEKEQIKHSKDHVEEEVNPPLSK- 1239

Query:   116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPK 175
             C  C + I  G  +N     WHP+CFCC  C +PI   E S      YHK CY+E  HP 
Sbjct:  1240 CKDCKSAIEDGISINAYGSVWHPQCFCCLRCREPIAMNEISDLRGM-YHKPCYKELRHPN 1298

Query:   176 CDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGR 235
             C VC+  IP    GL +Y  HPFW++ YCPSH+ DGTP+CCSCER+E   T YV L D R
Sbjct:  1299 CYVCEKKIPRTAEGL-KYHEHPFWMETYCPSHDGDGTPKCCSCERLEHCGTQYVMLADFR 1357

Query:   236 KLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGEK--- 292
              LC EC+DSAIMD++ECQPL+ +I+EF+E +HMK+E++ P+ LVE+ ALN+A   EK   
Sbjct:  1358 WLCRECMDSAIMDSDECQPLHFEIREFFEGLHMKIEEEFPVYLVEKNALNKAEKEEKIDK 1417

Query:   293 NGYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILYGL 352
              G   +   RG+CLSEEQ VT+V    R     Q  + +TE  ++ R+C+VTAILILYGL
Sbjct:  1418 QGDQCLMVVRGICLSEEQIVTSVSQGVRRMLNKQILDTVTESQRVVRKCEVTAILILYGL 1477

Query:   353 PRFV 356
             PR +
Sbjct:  1478 PRLL 1481

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS;IMP

GO:0008270 "zinc ion binding" evidence=IEA

GO:0009409 "response to cold" evidence=IMP

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2154890 DAR5 "DA1-related protein 5" [Arabidopsis thaliana (taxid:3702)]

 Score = 602 (217.0 bits), Expect = 1.2e-58, P = 1.2e-58
 Identities = 116/245 (47%), Positives = 157/245 (64%)

Query:   115 ICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPIT--DIEFSTSENR-PYHKSCYREH 171
             +C GCN+ + H   +N L V WHP CFCC +C +PI   ++E   S +R  +HKSCY E 
Sbjct:   346 MCGGCNSAVKHEESVNILGVLWHPGCFCCRSCDKPIAIHELENHVSNSRGKFHKSCY-ER 404

Query:   172 YHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVAL 231
             Y   C VCK         +  Y  HPFW ++YCP HE DGTP+CCSCER+EP+ T Y  L
Sbjct:   405 Y---CYVCKE------KKMKTYNIHPFWEERYCPVHEADGTPKCCSCERLEPRGTKYGKL 455

Query:   232 DDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGE 291
              DGR LCLEC  SA MD++ECQPLY D+++F+ES++MK+E++ PL+LV ++ LN+  +  
Sbjct:   456 SDGRWLCLECGKSA-MDSDECQPLYFDMRDFFESLNMKIEKEFPLILVRKELLNKKEEKI 514

Query:   292 KNGYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILYG 351
              N Y  +   R  C+SE++ +T V   PR G   Q  ++ TEP  +   C VTAILILYG
Sbjct:   515 DNHYEVL--IRAYCMSEQKIMTYVSEEPRTGQNKQLIDMDTEPQGVVHECKVTAILILYG 572

Query:   352 LPRFV 356
             LPR +
Sbjct:   573 LPRLL 577

GO:0008270 "zinc ion binding" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

ZFIN|ZDB-GENE-040121-6 ldb3a "LIM-domain binding factor 3a" [Danio rerio (taxid:7955)]

 Score = 161 (61.7 bits), Expect = 1.2e-08, P = 1.2e-08
 Identities = 29/65 (44%), Positives = 36/65 (55%)

Query:   115 ICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHP 174
             +CA CNN I  G FL  L   WHPE F CH CH  + D+ F   +N  Y ++CY E + P
Sbjct:   472 LCATCNNII-RGPFLVALGRSWHPEEFNCHYCHTSLADVSFVEEQNNVYCENCYEEFFAP 530

Query:   175 KCDVC 179
              C  C
Sbjct:   531 TCARC 535

GO:0008270 "zinc ion binding" evidence=IEA

GO:0007507 "heart development" evidence=IMP

GO:0001756 "somitogenesis" evidence=IMP

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|O43294 TGFB1I1 "Transforming growth factor beta-1-induced transcript 1 protein" [Homo sapiens (taxid:9606)]

 Score = 157 (60.3 bits), Expect = 2.0e-08, P = 2.0e-08
 Identities = 36/108 (33%), Positives = 51/108 (47%)

Query:   116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPK 175
             C  CN  I H + +  L   WHPE FCC +C +P  D  F   E RPY +  + + + P+
Sbjct:   287 CGFCNQPIRH-KMVTALGTHWHPEHFCCVSCGEPFGDEGFHEREGRPYCRRDFLQLFAPR 345

Query:   176 CDVCKHFIPSNHGGLIEYRAHP-FWVQKYC--PSH-----EHDGTPRC 215
             C  C+  I  N+   +    HP  +V + C  P       EH+G P C
Sbjct:   346 CQGCQGPILDNYISALSALWHPDCFVCRECFAPFSGGSFFEHEGRPLC 393

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0016055 "Wnt receptor signaling pathway" evidence=IEA

GO:0009408 "response to heat" evidence=IEA

GO:0016331 "morphogenesis of embryonic epithelium" evidence=IEA

GO:0030855 "epithelial cell differentiation" evidence=IEA

GO:0045165 "cell fate commitment" evidence=IEA

GO:0045599 "negative regulation of fat cell differentiation" evidence=IEA

GO:0005856 "cytoskeleton" evidence=IEA

GO:0005925 "focal adhesion" evidence=IEA

GO:0016363 "nuclear matrix" evidence=IEA

GO:0050681 "androgen receptor binding" evidence=NAS;IPI

GO:0003713 "transcription coactivator activity" evidence=NAS;IDA

GO:0005622 "intracellular" evidence=IDA

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

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

GO:0048495 "Roundabout binding" evidence=IPI

GO:0005515 "protein binding" evidence=IPI

GO:0006366 "transcription from RNA polymerase II promoter" evidence=TAS

GO:0007155 "cell adhesion" evidence=TAS

GO:0008285 "negative regulation of cell proliferation" evidence=TAS

GO:0030511 "positive regulation of transforming growth factor beta receptor signaling pathway" evidence=IDA

GO:0030512 "negative regulation of transforming growth factor beta receptor signaling pathway" evidence=IDA

GO:0030579 "ubiquitin-dependent SMAD protein catabolic process" evidence=IDA

GO:0010718 "positive regulation of epithelial to mesenchymal transition" evidence=IDA

GO:0031012 "extracellular matrix" evidence=IDA

GO:0070411 "I-SMAD binding" evidence=IPI

UNIPROTKB|Q3MHZ4 TGFB1I1 "Transforming growth factor beta-1-induced transcript 1 protein" [Bos taurus (taxid:9913)]

 Score = 156 (60.0 bits), Expect = 2.5e-08, P = 2.5e-08
 Identities = 36/108 (33%), Positives = 51/108 (47%)

Query:   116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPK 175
             C  CN  I H + +  L   WHPE FCC +C +P  D  F   E RPY +  + + + P+
Sbjct:   282 CGLCNQPIRH-KMVTALGTHWHPEHFCCVSCGEPFGDEGFHEREGRPYCRRDFLQLFAPR 340

Query:   176 CDVCKHFIPSNHGGLIEYRAHP-FWVQKYC--PSH-----EHDGTPRC 215
             C  C+  I  N+   +    HP  +V + C  P       EH+G P C
Sbjct:   341 CQGCQGPILDNYISALSALWHPDCFVCRECFAPFSGGSFFEHEGRPLC 388

GO:0016363 "nuclear matrix" evidence=IEA

GO:0005925 "focal adhesion" evidence=IEA

GO:0005856 "cytoskeleton" evidence=IEA

GO:0070411 "I-SMAD binding" evidence=IEA

GO:0050681 "androgen receptor binding" evidence=IEA

GO:0048495 "Roundabout binding" evidence=IEA

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

GO:0045599 "negative regulation of fat cell differentiation" evidence=IEA

GO:0045165 "cell fate commitment" evidence=IEA

GO:0031012 "extracellular matrix" evidence=IEA

GO:0030855 "epithelial cell differentiation" evidence=IEA

GO:0030579 "ubiquitin-dependent SMAD protein catabolic process" evidence=IEA

GO:0030512 "negative regulation of transforming growth factor beta receptor signaling pathway" evidence=IEA

GO:0030511 "positive regulation of transforming growth factor beta receptor signaling pathway" evidence=IEA

GO:0016331 "morphogenesis of embryonic epithelium" evidence=IEA

GO:0010718 "positive regulation of epithelial to mesenchymal transition" evidence=IEA

GO:0003713 "transcription coactivator activity" evidence=IEA

GO:0016055 "Wnt receptor signaling pathway" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|E2RTE0 TGFB1I1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 156 (60.0 bits), Expect = 2.5e-08, P = 2.5e-08
 Identities = 36/108 (33%), Positives = 51/108 (47%)

Query:   116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPK 175
             C  CN  I H + +  L   WHPE FCC +C +P  D  F   E RPY +  + + + P+
Sbjct:   287 CGLCNQPIRH-KMVTALGTHWHPEHFCCVSCGEPFGDEGFHEREGRPYCRRDFLQLFAPR 345

Query:   176 CDVCKHFIPSNHGGLIEYRAHP-FWVQKYC--PSH-----EHDGTPRC 215
             C  C+  I  N+   +    HP  +V + C  P       EH+G P C
Sbjct:   346 CQGCQGPILDNYISALSALWHPDCFVCRECFAPFSGGSFFEHEGRPLC 393

GO:0070411 "I-SMAD binding" evidence=IEA

GO:0050681 "androgen receptor binding" evidence=IEA

GO:0048495 "Roundabout binding" evidence=IEA

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

GO:0045599 "negative regulation of fat cell differentiation" evidence=IEA

GO:0045165 "cell fate commitment" evidence=IEA

GO:0031012 "extracellular matrix" evidence=IEA

GO:0030855 "epithelial cell differentiation" evidence=IEA

GO:0030579 "ubiquitin-dependent SMAD protein catabolic process" evidence=IEA

GO:0030512 "negative regulation of transforming growth factor beta receptor signaling pathway" evidence=IEA

GO:0030511 "positive regulation of transforming growth factor beta receptor signaling pathway" evidence=IEA

GO:0016331 "morphogenesis of embryonic epithelium" evidence=IEA

GO:0010718 "positive regulation of epithelial to mesenchymal transition" evidence=IEA

GO:0005925 "focal adhesion" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0003713 "transcription coactivator activity" evidence=IEA

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)
P0C7Q8	DA1_ARATH	No assigned EC number	0.5933	0.9809	0.6785	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	368
pfam12315	212	pfam12315, DUF3633, Protein of unknown function (D	4e-52
cd09396	53	cd09396, LIM_DA1, The Lim domain of DA1	5e-27
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	1e-11
cd09338	53	cd09338, LIM3_Paxillin_like, The third LIM domain	5e-09
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	1e-08
cd09361	52	cd09361, LIM1_Enigma_like, The first LIM domain of	1e-07
cd09332	52	cd09332, LIM2_PINCH, The second LIM domain of prot	1e-07
pfam00412	58	pfam00412, LIM, LIM domain	2e-07
cd09329	52	cd09329, LIM3_abLIM, The third LIM domain of actin	2e-07
cd09336	53	cd09336, LIM1_Paxillin_like, The first LIM domain	5e-07
cd09454	52	cd09454, LIM1_ZASP_Cypher, The first LIM domain of	7e-07
cd09410	53	cd09410, LIM3_Leupaxin, The third LIM domain of Le	5e-06
cd09367	52	cd09367, LIM1_Lhx1_Lhx5, The first LIM domain of L	1e-05
cd09362	52	cd09362, LIM2_Enigma_like, The second LIM domain o	3e-05
cd09409	53	cd09409, LIM3_Paxillin, The third LIM domain of pa	3e-05
cd09429	53	cd09429, LIM3_FHL1, The third LIM domain of Four a	3e-05
cd09457	52	cd09457, LIM2_ENH, The second LIM domain of the En	4e-05
cd09401	53	cd09401, LIM_TLP_like, The LIM domains of thymus L	4e-05
cd09341	56	cd09341, LIM2_Testin_like, The second LIM domain o	8e-05
cd09337	52	cd09337, LIM2_Paxillin_like, The second LIM domain	1e-04
cd09363	54	cd09363, LIM3_Enigma_like, The third LIM domain of	1e-04
cd09412	52	cd09412, LIM4_Leupaxin, The fourth LIM domain of L	2e-04
cd09391	57	cd09391, LIM1_Lrg1p_like, The first LIM domain of	2e-04
cd09345	54	cd09345, LIM2_FHL, The second LIM domain of Four a	2e-04
cd09467	55	cd09467, LIM1_Lhx3b, The first LIM domain of Lhx3b	2e-04
cd09458	55	cd09458, LIM3_Enigma, The third LIM domain of Enig	2e-04
cd09421	59	cd09421, LIM3_LIMPETin, The third LIM domain of pr	3e-04
cd09456	52	cd09456, LIM2_Enigma, The second LIM domain of Eni	3e-04
cd09430	52	cd09430, LIM5_LIMPETin, The fifth LIM domain of pr	4e-04
cd09468	52	cd09468, LIM1_Lhx4, The first LIM domain of Lhx4	5e-04
cd09397	58	cd09397, LIM1_UF1, LIM domain in proteins of unkno	6e-04
cd09349	87	cd09349, LIM1_Zyxin, The first LIM domain of Zyxin	6e-04
cd09386	55	cd09386, LIM1_LMO4, The first LIM domain of LMO4 (	7e-04
cd09343	59	cd09343, LIM1_FHL, The first LIM domain of Four an	8e-04
cd09346	52	cd09346, LIM3_FHL, The third LIM domain of Four an	9e-04
cd09447	53	cd09447, LIM_LASP, The LIM domain of LIM and SH3 P	0.001
cd09359	53	cd09359, LIM_LASP_like, The LIM domain of LIM and	0.001
cd09368	52	cd09368, LIM1_Lhx3_Lhx4, The first LIM domain of L	0.001
cd09350	54	cd09350, LIM1_TRIP6, The first LIM domain of Thyro	0.001
cd09340	58	cd09340, LIM1_Testin_like, The first LIM domain of	0.001
cd09425	54	cd09425, LIM4_LIMPETin, The fourth LIM domain of p	0.002
cd09455	54	cd09455, LIM1_Enigma_like_1, The first LIM domain	0.002
cd09453	52	cd09453, LIM1_ENH, The first LIM domain of the Eni	0.003
cd09452	52	cd09452, LIM1_Enigma, The first LIM domain of Enig	0.003
cd09481	54	cd09481, LIM1_CRP3, The first LIM domain of Cystei	0.004

>gnl|CDD|204878 pfam12315, DUF3633, Protein of unknown function (DUF3633)

 Score =  172 bits (437), Expect = 4e-52
 Identities = 65/90 (72%), Positives = 79/90 (87%)

Query: 265 SIHMKLEQQIPLLLVERQALNEARDGEKNGYYHMPETRGLCLSEEQTVTTVLWRPRFGPG 324
            ++MK+EQ+IP+LLVERQALN+AR+GEK G++H PETRGLCLSEEQ VT+VL RPR GPG
Sbjct: 1   GLNMKIEQEIPMLLVERQALNKAREGEKIGHHHTPETRGLCLSEEQIVTSVLKRPRIGPG 60

Query: 325 NQARNIITEPYKLTRRCDVTAILILYGLPR 354
           N+   + TEP KLTRRC+VTAIL+LYGLPR
Sbjct: 61  NRLIGMGTEPQKLTRRCEVTAILVLYGLPR 90

This domain family is found in bacteria and eukaryotes, and is approximately 210 amino acids in length. The family is found in association with pfam00412. Length = 212

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

 Score =  100 bits (252), Expect = 5e-27
 Identities = 37/53 (69%), Positives = 41/53 (77%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           CAGC +EIGHGRFL+ L   WHPECF CHAC +PI + EFS S N PYHKSCY
Sbjct: 1   CAGCKSEIGHGRFLSALGAVWHPECFRCHACRKPIAEHEFSVSGNDPYHKSCY 53

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

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

 Score = 58.9 bits (143), Expect = 1e-11
 Identities = 21/53 (39%), Positives = 26/53 (49%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           CAGC   I     L  L   WHPECF C  C +P+    F   + +PY + CY
Sbjct: 1   CAGCGKPIEGRELLRALGKKWHPECFKCSVCGKPLGGDSFYEKDGKPYCEKCY 53

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

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

 Score = 51.6 bits (124), Expect = 5e-09
 Identities = 23/58 (39%), Positives = 31/58 (53%), Gaps = 5/58 (8%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYH 173
           C GCN  I    +++ L+  WHPECF C  CH+P  +  F   E  PY ++    HYH
Sbjct: 1   CGGCNKPI-LENYISALNTQWHPECFVCRECHKPFINGSFFEHEGLPYCET----HYH 53

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

 Score = 50.5 bits (121), Expect = 1e-08
 Identities = 22/54 (40%), Positives = 27/54 (50%), Gaps = 1/54 (1%)

Query: 115 ICAGCNNEI-GHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSC 167
            CAGC   I G  R L  L   WHPECF C  C +P++   F   + + Y K C
Sbjct: 1   KCAGCGKPIYGTERVLRALGKVWHPECFKCATCGKPLSGDTFFEKDGKLYCKDC 54

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

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

 Score = 47.4 bits (113), Expect = 1e-07
 Identities = 22/53 (41%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           CA CN  I  G FL  L   WHPE F C  CH  + +I F   +   Y + CY
Sbjct: 1   CAHCNQVI-RGPFLVALGRSWHPEEFTCSHCHCSLAEIGFVEEKGSLYCELCY 52

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

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

 Score = 47.3 bits (113), Expect = 1e-07
 Identities = 16/52 (30%), Positives = 25/52 (48%), Gaps = 1/52 (1%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSC 167
           C  C   +  GR +  ++  WHP+CF C  C++ + DI F  +  R     C
Sbjct: 1   CGKCGEFV-IGRVIKAMNNNWHPDCFRCEICNKELADIGFVKNAGRALCHPC 51

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

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

 Score = 47.3 bits (113), Expect = 2e-07
 Identities = 21/55 (38%), Positives = 27/55 (49%), Gaps = 3/55 (5%)

Query: 116 CAGCNNEIGHGRFL--NCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           CAGC   I + R L    L   WHPECF C  C +P+   +F   + + Y K  Y
Sbjct: 1   CAGCGKPI-YDRELVRRALGKVWHPECFRCAVCGKPLGPGDFFEKDGKLYCKHDY 54

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

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

 Score = 46.9 bits (112), Expect = 2e-07
 Identities = 21/53 (39%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           CAGC  EI +G+ L  LD  WH  CF C  C + +T  E+   + +PY +  Y
Sbjct: 1   CAGCGQEIKNGQALLALDKQWHVWCFKCKECGKVLTG-EYMGKDGKPYCERDY 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|188722 cd09336, LIM1_Paxillin_like, The first LIM domain of the paxillin like protein family

 Score = 45.8 bits (109), Expect = 5e-07
 Identities = 17/53 (32%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           CA C   I  G+ +  L   WHPE F C  C   +    F   + +PY +  Y
Sbjct: 1   CAACKKPIV-GQVVTALGKTWHPEHFVCAECKTELGTKNFFERDGQPYCEKDY 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|188838 cd09454, LIM1_ZASP_Cypher, The first LIM domain of ZASP/Cypher family

 Score = 45.4 bits (107), Expect = 7e-07
 Identities = 24/53 (45%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           C  CNN I  G FL  L   WHPE F CH CH  + D+ F   +N  Y ++CY
Sbjct: 1   CGHCNNII-RGPFLVALGRSWHPEEFTCHYCHTSLADVSFVEEQNNVYCENCY 52

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

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

 Score = 42.9 bits (101), Expect = 5e-06
 Identities = 21/58 (36%), Positives = 29/58 (50%), Gaps = 5/58 (8%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYH 173
           C+GC   +    +L+  +  WHPECF C  C +P TD  F   + RP  +     HYH
Sbjct: 1   CSGCGRPVKEN-YLSAANGVWHPECFVCSDCLKPFTDGSFFELDGRPLCEL----HYH 53

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

>gnl|CDD|188753 cd09367, LIM1_Lhx1_Lhx5, The first LIM domain of Lhx1 (also known as Lim1) and Lhx5

 Score = 41.6 bits (98), Expect = 1e-05
 Identities = 18/41 (43%), Positives = 22/41 (53%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFS 156
           CAGC+  I     LN LD  WH +C  C  C  P+T+  FS
Sbjct: 1   CAGCDRPILDKFLLNVLDRAWHAKCVQCCDCKCPLTEKCFS 41

The first 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 = 52

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

 Score = 40.9 bits (96), Expect = 3e-05
 Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPY 163
           CA C+ +I  G  ++ L   WH  CF C AC QPI +  F   +  PY
Sbjct: 1   CARCHKKI-LGEVMHALKQTWHVSCFVCAACKQPIGNSLFHMEDGEPY 47

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|188793 cd09409, LIM3_Paxillin, The third LIM domain of paxillin

 Score = 41.0 bits (96), Expect = 3e-05
 Identities = 20/58 (34%), Positives = 29/58 (50%), Gaps = 5/58 (8%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYH 173
           C GC   I    +++ L+  WHPECF C  C  P  +  F   + +PY ++    HYH
Sbjct: 1   CGGCARAILEN-YISALNTLWHPECFVCRECFTPFVNGSFFEHDGQPYCEA----HYH 53

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

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

 Score = 41.0 bits (96), Expect = 3e-05
 Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 1/54 (1%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYR 169
           C  CN  I  G  +   D  WH ECF C +C + +    F+  E++ Y   CY+
Sbjct: 1   CVKCNKPITSGG-VTYQDQPWHSECFVCSSCSKKLAGQRFTAVEDQYYCVDCYK 53

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

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

 Score = 40.4 bits (94), Expect = 4e-05
 Identities = 20/53 (37%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           C  C  +I  G  +N L   WH  CF C ACH PI +  F   +  PY ++ Y
Sbjct: 1   CGRCQRKI-LGEVINALKQTWHVSCFVCVACHNPIRNNVFHLEDGEPYCETDY 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|188785 cd09401, LIM_TLP_like, The LIM domains of thymus LIM protein (TLP)

 Score = 40.4 bits (95), Expect = 4e-05
 Identities = 15/53 (28%), Positives = 20/53 (37%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           C  C   +        L   WH  C  C  C + +T  + S  E +PY   CY
Sbjct: 1   CPKCGKPVYFAEKKTSLGRDWHKPCLRCEKCKKTLTPGQHSEHEGKPYCNKCY 53

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

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

 Score = 39.9 bits (94), Expect = 8e-05
 Identities = 17/53 (32%), Positives = 24/53 (45%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           CA C+  I  G +       WH + FCC  C +P+    +   E +PY   CY
Sbjct: 3   CAACDELIFSGEYTQAEGKNWHLKHFCCFQCDEPLGGQRYVLREGKPYCLDCY 55

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

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

 Score = 39.3 bits (92), Expect = 1e-04
 Identities = 20/53 (37%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           CA CN  I   + +  LD  WHPE F C  C +P  D  F   + +PY +  Y
Sbjct: 1   CAYCNGPILD-KCVTALDKTWHPEHFFCAQCGKPFGDEGFHEKDGKPYCREDY 52

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

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

 Score = 39.0 bits (91), Expect = 1e-04
 Identities = 19/52 (36%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 116 CAGCNNEIGHG-RFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKS 166
           C GC+  I  G RFL  L   WH  CF C  CH  +    F + +++P  K+
Sbjct: 1   CHGCDFPIEAGDRFLEALGHTWHDTCFVCAVCHVNLEGQTFYSKKDKPLCKN 52

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

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

 Score = 38.6 bits (90), Expect = 2e-04
 Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           C  C   I  GR ++ L   +HPE F C  C +P+T   F     +PY  +C+
Sbjct: 1   CGSCGLPIT-GRCISALGRKFHPEHFVCAFCLRPLTQGSFKEQSGKPYCSTCF 52

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

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

 Score = 38.4 bits (90), Expect = 2e-04
 Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 1/35 (2%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPI 150
           CA C   I  G+F+  L   +H +CF CH C +P+
Sbjct: 1   CAKCGKPIT-GQFVRALGDVYHLDCFTCHDCGKPV 34

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

 Score = 38.4 bits (90), Expect = 2e-04
 Identities = 13/34 (38%), Positives = 18/34 (52%)

Query: 135 FWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           FWH +CF C  C +PI    F   +++ Y   CY
Sbjct: 21  FWHEKCFTCSECKKPIGTKSFIPKDDKIYCVPCY 54

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

>gnl|CDD|188851 cd09467, LIM1_Lhx3b, The first LIM domain of Lhx3b

 Score = 38.4 bits (89), Expect = 2e-04
 Identities = 16/46 (34%), Positives = 22/46 (47%)

Query: 115 ICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSEN 160
           +CAGCN  I     L  LD  WH +C  C  C   + +  FS  ++
Sbjct: 3   LCAGCNQHIVDRFILKVLDRHWHSKCLKCSDCQTQLAEKCFSRGDS 48

The first LIM domain of Lhx3b. Lhx3b 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. Lhx3b 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 = 55

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

 Score = 38.5 bits (89), Expect = 2e-04
 Identities = 19/52 (36%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 116 CAGCNNEIGHG-RFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKS 166
           C GC+ +I  G RFL  L   WH  CF C  C   +    F + +++P  KS
Sbjct: 1   CHGCDFKIDAGDRFLEALGFSWHDTCFVCAICQINLEGKTFYSKKDKPLCKS 52

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

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

 Score = 38.3 bits (89), Expect = 3e-04
 Identities = 18/54 (33%), Positives = 25/54 (46%), Gaps = 1/54 (1%)

Query: 116 CAGCNNEIG-HGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           C  C+  IG   + L+  D  WH  CF C  C   + D  F +  +R Y  +CY
Sbjct: 5   CEECSKIIGIDSKDLSYKDKHWHEACFLCSKCKISLVDKPFGSKADRIYCGNCY 58

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

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

 Score = 38.1 bits (88), Expect = 3e-04
 Identities = 21/56 (37%), Positives = 28/56 (50%), Gaps = 4/56 (7%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREH 171
           CA C  +I  G  ++ L + WH  CF C AC  PI +  F   E  PY   C R++
Sbjct: 1   CAKCKKKIT-GEIMHALKMTWHVHCFTCAACKTPIRNRAFYMEEGAPY---CERDY 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|188814 cd09430, LIM5_LIMPETin, The fifth LIM domain of protein LIMPETin

 Score = 37.5 bits (87), Expect = 4e-04
 Identities = 11/33 (33%), Positives = 18/33 (54%)

Query: 136 WHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           WH ECF C  C + +    F++ + +PY   C+
Sbjct: 20  WHRECFTCTNCSKSLAGQRFTSRDEKPYCADCF 52

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

>gnl|CDD|188852 cd09468, LIM1_Lhx4, The first LIM domain of Lhx4

 Score = 37.3 bits (86), Expect = 5e-04
 Identities = 17/45 (37%), Positives = 20/45 (44%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSEN 160
           CAGCN  I     L  LD  WH  C  C  C   + +  FS + N
Sbjct: 1   CAGCNQHILDKFILKVLDRHWHSSCLKCADCQMQLAERCFSRAGN 45

The first LIM domain of Lhx4. Lhx4 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. LHX4 plays essential roles in pituitary gland and nervous system development. In mice, the lhx4 gene is expressed in the developing hindbrain, cerebral cortex, pituitary gland, and spinal cord. LHX4 shows significant sequence similarity to LHX3, particularly to isoforms Lhx3a. In gene regulation experiments, the LHX4 protein exhibits regulation roles towards pituitary genes, acting on their promoters/enhancers. 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 = 52

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

 Score = 37.2 bits (87), Expect = 6e-04
 Identities = 14/39 (35%), Positives = 19/39 (48%), Gaps = 5/39 (12%)

Query: 136 WHPECFCCHACHQPITD-IEFSTSENRPYHKSCYREHYH 173
           WH ECF C  C  P    +     +++PY   C + HYH
Sbjct: 24  WHRECFVCTTCGCPFQFSVPCYVLDDKPY---CQQ-HYH 58

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

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

 Score = 37.9 bits (88), Expect = 6e-04
 Identities = 25/98 (25%), Positives = 43/98 (43%), Gaps = 16/98 (16%)

Query: 72  QVEEDEQLARAIQESLNLESPPRQGTAHTYQHFPVIQFPEGYRICAGCNNEIGHGR-FLN 130
           +VEE E L + + +  +++ PP    A T +            +C  C   +   +  + 
Sbjct: 5   EVEELEMLTQQLMQ--DMDHPPAA-EAATNE------------LCGICGQPLSRTQPAVR 49

Query: 131 CLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
            L   +H  CF CH C Q +   +F + E +PY + CY
Sbjct: 50  ALGHLFHVTCFTCHQCEQQLQGQQFYSLEGKPYCEECY 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|188772 cd09386, LIM1_LMO4, The first LIM domain of LMO4 (LIM domain only protein 4)

 Score = 37.0 bits (86), Expect = 7e-04
 Identities = 14/38 (36%), Positives = 19/38 (50%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDI 153
           CAGC  +I     L+ LD +WH  C  C  C   + +I
Sbjct: 1   CAGCGGKIVDRFLLHALDRYWHNGCLKCSCCQAQLGEI 38

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

 Score = 37.0 bits (86), Expect = 8e-04
 Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 1/54 (1%)

Query: 116 CAGCNNEIGH-GRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           C  C  +IG   + L+  D  WH  CF C  C + + D  F+  +       CY
Sbjct: 5   CEECKKKIGCDSKDLSYKDRHWHEGCFKCFKCQRSLVDKPFAAKDEDLLCTECY 58

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

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

 Score = 36.5 bits (85), Expect = 9e-04
 Identities = 17/53 (32%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           CA C   I  G      D  WH ECF C  C + +    F++ +  PY   C+
Sbjct: 1   CAKCKKAITSGGVTYR-DQPWHKECFVCTGCKKQLAGQRFTSRDEYPYCVDCF 52

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

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

 Score = 36.6 bits (85), Expect = 0.001
 Identities = 17/53 (32%), Positives = 22/53 (41%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           CA C   +     LNCLD  WH  CF C  C   +    +     +PY  + Y
Sbjct: 1   CARCGKTVYPTEKLNCLDKIWHKGCFKCEVCGMTLNMKNYKGYNKKPYCNAHY 53

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

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

 Score = 36.5 bits (84), Expect = 0.001
 Identities = 15/48 (31%), Positives = 21/48 (43%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPY 163
           CA C   +     +NCLD  WH  CF C  C   +    +   + +PY
Sbjct: 1   CARCGKIVYPTEKVNCLDKTWHKACFHCEVCKMTLNMNNYKGYQKKPY 48

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

>gnl|CDD|188754 cd09368, LIM1_Lhx3_Lhx4, The first LIM domain of Lhx3 and Lhx4 family

 Score = 36.2 bits (84), Expect = 0.001
 Identities = 15/45 (33%), Positives = 21/45 (46%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSEN 160
           C GC   I     L  LD  WH +C  C+ C   +TD  F+ + +
Sbjct: 1   CGGCQEHILDRFILKVLDRTWHAKCLKCNDCGAQLTDKCFARNGH 45

The first LIM domain of Lhx3-Lhx4 family: Lhx3 and Lhx4 belong to the LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs, such as the pituitary gland and the pancreas. The LHX3 and LHX4 LIM-homeodomain transcription factors play essential roles in pituitary gland and nervous system development. Although LHX3 and LHX4 share marked sequence homology, the genes have different expression patterns. They play overlapping, but distinct functions during the establishment of the specialized cells of the mammalian pituitary gland and the nervous system. Lhx3 proteins have been demonstrated the ability to directly bind to the promoters/enhancers of several pituitary hormone gene promoters to cause increased transcription. Lhx3a and Lhx3b, whose mRNAs have distinct temporal expression profiles during development, are two isoforms of Lhx3. LHX4 plays essential roles in pituitary gland and nervous system development. In mice, the lhx4 gene is expressed in the developing hindbrain, cerebral cortex, pituitary gland, and spinal cord. LHX4 shows significant sequence similarity to LHX3, particularly to isoforms Lhx3a. In gene regulation experiments, the LHX4 protein exhibits regulation roles towards pituitary genes, acting on their promoters/enhancers. 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 = 52

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

 Score = 36.2 bits (84), Expect = 0.001
 Identities = 15/54 (27%), Positives = 23/54 (42%), Gaps = 1/54 (1%)

Query: 116 CAGCNNE-IGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           C  C    +G G     +D  +H +CF C  C+  +    F   E + Y + CY
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|188726 cd09340, LIM1_Testin_like, The first LIM domain of Testin-like family

 Score = 36.0 bits (84), Expect = 0.001
 Identities = 12/39 (30%), Positives = 20/39 (51%), Gaps = 3/39 (7%)

Query: 133 DVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREH 171
           D  WHP CF C  C++ + D+ +   + + Y   C R +
Sbjct: 23  DACWHPGCFVCETCNELLVDLIYFYHDGKIY---CGRHY 58

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

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

 Score = 35.5 bits (82), Expect = 0.002
 Identities = 14/33 (42%), Positives = 17/33 (51%)

Query: 136 WHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           WH +CFCC  C QPI    F   ++  Y   CY
Sbjct: 22  WHEKCFCCCECKQPIGTKSFIPKDDDVYCVPCY 54

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

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

 Score = 35.5 bits (82), Expect = 0.002
 Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 3/55 (5%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCC--HACHQPITDIEFSTSENRPYHKSCY 168
           C  CN +I  G F+  L   W P+ F C   +C +P+ DI F   + + Y + C+
Sbjct: 1   CESCNQQI-RGPFITALGKIWCPDHFICANASCRRPLQDIGFVEEKGQLYCEYCF 54

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

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

 Score = 35.4 bits (81), Expect = 0.003
 Identities = 21/53 (39%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           CA CN  I  G FL  L   WHPE F C  C   +  I F   +   Y + CY
Sbjct: 1   CATCNQVI-RGPFLVALGKSWHPEEFNCAHCKSSMAYIGFVEEKGALYCEICY 52

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

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

 Score = 35.2 bits (81), Expect = 0.003
 Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           CA CN  I  GR+L  L   +HPE F C  C + + +  F   +   +   CY
Sbjct: 1   CAQCNKII-RGRYLVALGRSYHPEEFTCSQCKKVLDEGGFFEEKGSIFCPKCY 52

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

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

 Score = 35.1 bits (80), Expect = 0.004
 Identities = 15/53 (28%), Positives = 23/53 (43%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           C  C   + H   + C    +H  CF C AC + +     +  E+  Y K+CY
Sbjct: 2   CGACEKTVYHAEEIQCNGRSFHKTCFICMACRKALDSTTVAAHESEIYCKTCY 54

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	368
PF12315	212	DUF3633: Protein of unknown function (DUF3633); In	100.0
KOG2272	332	consensus Focal adhesion protein PINCH-1, contains	99.95
KOG1701	468	consensus Focal adhesion adaptor protein Paxillin	99.88
KOG1701	468	consensus Focal adhesion adaptor protein Paxillin	99.77
KOG4577	383	consensus Transcription factor LIM3, contains LIM	99.73
KOG1703	479	consensus Adaptor protein Enigma and related PDZ-L	99.68
KOG2272	332	consensus Focal adhesion protein PINCH-1, contains	99.68
KOG1703	479	consensus Adaptor protein Enigma and related PDZ-L	99.67
KOG1044	670	consensus Actin-binding LIM Zn-finger protein Lima	99.62
KOG1044	670	consensus Actin-binding LIM Zn-finger protein Lima	99.61
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.32
KOG1700	200	consensus Regulatory protein MLP and related LIM p	98.75
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	98.54
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.37
KOG4577	383	consensus Transcription factor LIM3, contains LIM	97.53
KOG1700	200	consensus Regulatory protein MLP and related LIM p	97.44
KOG1702	264	consensus Nebulin repeat protein [Cytoskeleton]	97.3
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	97.16
KOG0490	235	consensus Transcription factor, contains HOX domai	97.01

>PF12315 DUF3633: Protein of unknown function (DUF3633); InterPro: IPR022087 This domain family is found in bacteria and eukaryotes, and is approximately 210 amino acids in length

Probab=100.00  E-value=3.5e-38  Score=283.80  Aligned_cols=103  Identities=66%  Similarity=1.018  Sum_probs=101.7

Q ss_pred             HhccccccccchhhHhHHHHHhhhcCCCCCCCCCcccCCcccccceeeeeeeccCcCCCCCcceeeeeccccccccceEE
Q 017657          265 SIHMKLEQQIPLLLVERQALNEARDGEKNGYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVT  344 (368)
Q Consensus       265 ~~~~~i~~~~p~~lv~~~aLn~~~~~e~~g~~~~~~~~G~~~~E~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~  344 (368)
                      ||||||++++||+||+++|||+|.++|++|++|.++|||||+||+|+|++|+|+|++|+|+++++|.++|++++|+|+||
T Consensus         1 ~lnmki~q~~PllLVe~~aLN~a~~~Ek~~~~~~~~tRGLclseeq~v~sv~~~p~~~~~~~~~~~~~e~~~~~~~~eV~   80 (212)
T PF12315_consen    1 GLNMKIEQEIPLLLVERQALNEAEEGEKIGHHHMPETRGLCLSEEQTVTSVLRRPRMGPGNQLIDMSTEPQRLTRGCEVT   80 (212)
T ss_pred             CCCCcccCCCCeEEecHHHHHHHHhhccCCCCCCeeeeeeeeeeeEEEEEEEecCCcCCCCccceeeecceeeccceeEE
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEecCCcHHHHHHHHhhhccc
Q 017657          345 AILILYGLPRFVICLALSNVCTR  367 (368)
Q Consensus       345 ~il~l~glpr~~~~~ilahe~~h  367 (368)
                      ||||||||||++|||||||||||
T Consensus        81 ~Ilvl~GLPrll~gsiLAHE~mH  103 (212)
T PF12315_consen   81 AILVLYGLPRLLTGSILAHELMH  103 (212)
T ss_pred             EEEEECCCCHHHHhhHHHHHHHH
Confidence            99999999999999999999999

The family is found in association with PF00412 from PFAM.

>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]

Probab=99.95  E-value=3.9e-30  Score=235.26  Aligned_cols=166  Identities=25%  Similarity=0.541  Sum_probs=149.4

Q ss_pred             CCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCccccccccccc-----ccccccccCccccCC
Q 017657          112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREH-----YHPKCDVCKHFIPSN  186 (368)
Q Consensus       112 ~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~-----f~p~C~~C~~~I~~~  186 (368)
                      ++|.|++|++.| .|++|.+|+.+|||.||+|..|++.|.+..|+...|+.+|..|..+.     -...|..|+..|.. 
T Consensus        72 faPcC~kC~EFi-iGrVikamnnSwHp~CF~Cd~Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~-  149 (332)
T KOG2272|consen   72 FAPCCGKCGEFI-IGRVIKAMNNSWHPACFRCDLCNKHLADQGFYRNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDE-  149 (332)
T ss_pred             hchhhcccccch-hhHHHHhhccccCcccchhHHHHHHHhhhhhHhhcchHHhhhhhhhhcccccceeehhhhhhhccc-
Confidence            678999999999 89999999999999999999999999999999999999999998763     24579999999986 


Q ss_pred             CCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccCCCCCCcchHhHHHHHHHh
Q 017657          187 HGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESI  266 (368)
Q Consensus       187 ~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~~C~~c~~~I~~f~e~~  266 (368)
                        ..+.+++.||          |+.+|.|..|++.|..+.+-+   .|.+||+.|+++  |..++|..|+          
T Consensus       150 --~~l~fr~d~y----------H~yHFkCt~C~keL~sdaRev---k~eLyClrChD~--mgipiCgaC~----------  202 (332)
T KOG2272|consen  150 --QPLTFRGDPY----------HPYHFKCTTCGKELTSDAREV---KGELYCLRCHDK--MGIPICGACR----------  202 (332)
T ss_pred             --ccccccCCCC----------Cccceecccccccccchhhhh---ccceeccccccc--cCCccccccc----------
Confidence              4799999886          888899999999998887754   789999999999  9999999999          


Q ss_pred             ccccccccchhhHhHHHHHhhh----------cCCCCCCCCCcccCCcccccceeeee
Q 017657          267 HMKLEQQIPLLLVERQALNEAR----------DGEKNGYYHMPETRGLCLSEEQTVTT  314 (368)
Q Consensus       267 ~~~i~~~~p~~lv~~~aLn~~~----------~~e~~g~~~~~~~~G~~~~E~~~~~~  314 (368)
                       .||+.++      +.|||++|          |++|.||+|| |++|++|||+||+.-
T Consensus       203 -rpIeerv------i~amgKhWHveHFvCa~CekPFlGHrHY-EkkGlaYCe~h~~qL  252 (332)
T KOG2272|consen  203 -RPIEERV------IFAMGKHWHVEHFVCAKCEKPFLGHRHY-EKKGLAYCETHYHQL  252 (332)
T ss_pred             -CchHHHH------HHHhccccchhheeehhcCCcccchhhh-hhcCchhHHHHHHHH
Confidence             5556677      89999999          4568999999 999999999999765

>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]

Probab=99.88  E-value=8e-25  Score=213.43  Aligned_cols=165  Identities=21%  Similarity=0.453  Sum_probs=139.4

Q ss_pred             CCCccccCCcccc-cCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccccCccccCCCCcc
Q 017657          112 GYRICAGCNNEIG-HGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGGL  190 (368)
Q Consensus       112 ~~~~C~~C~~~I~-~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~I~~~~~~~  190 (368)
                      .+.+|.+|+|.|. .+..+.||++.||..||+|..|++.|.++.||..|+++||+.||.+. ..||.+|++.|.+   .+
T Consensus       273 ~~~iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~v~~k~~CE~cyq~t-lekC~~Cg~~I~d---~i  348 (468)
T KOG1701|consen  273 YFGICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQVDGKPYCEGCYQDT-LEKCNKCGEPIMD---RI  348 (468)
T ss_pred             hhhhhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccccccCCcccchHHHHHH-HHHHhhhhhHHHH---HH
Confidence            4569999999994 24568999999999999999999999999999999999999999875 7899999999995   57


Q ss_pred             eEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccCCCCCCcchHhHHHHHHHhcccc
Q 017657          191 IEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKL  270 (368)
Q Consensus       191 i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~~C~~c~~~I~~f~e~~~~~i  270 (368)
                      +.+.++.          ||++||+|.+|.|.| .|..|....++++||..||++  .+.++|..|.++|        ||-
T Consensus       349 LrA~Gka----------yHp~CF~Cv~C~r~l-dgipFtvd~~n~v~Cv~dfh~--kfAPrCs~C~~PI--------~P~  407 (468)
T KOG1701|consen  349 LRALGKA----------YHPGCFTCVVCARCL-DGIPFTVDSQNNVYCVPDFHK--KFAPRCSVCGNPI--------LPR  407 (468)
T ss_pred             HHhcccc----------cCCCceEEEEecccc-CCccccccCCCceeeehhhhh--hcCcchhhccCCc--------cCC
Confidence            7777654          599999999999998 799999999999999999999  7899999999888        455


Q ss_pred             ccccchhhHhHHHHHhhhcCCCCCCCCCcccCCcccc
Q 017657          271 EQQIPLLLVERQALNEARDGEKNGYYHMPETRGLCLS  307 (368)
Q Consensus       271 ~~~~p~~lv~~~aLn~~~~~e~~g~~~~~~~~G~~~~  307 (368)
                      +++-.  .|.+.||++-.|.+...   . |-.|+-||
T Consensus       408 ~G~~e--tvRvvamdr~fHv~CY~---C-EDCg~~LS  438 (468)
T KOG1701|consen  408 DGKDE--TVRVVAMDRDFHVNCYK---C-EDCGLLLS  438 (468)
T ss_pred             CCCcc--eEEEEEcccccccccee---h-hhcCcccc
Confidence            54321  25678888888776532   2 66788777

>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]

Probab=99.77  E-value=4.3e-20  Score=180.50  Aligned_cols=127  Identities=25%  Similarity=0.551  Sum_probs=108.7

Q ss_pred             cCCCCCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeec-cCCcccccccccccccccccccCccccC
Q 017657          107 IQFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFST-SENRPYHKSCYREHYHPKCDVCKHFIPS  185 (368)
Q Consensus       107 ~~~~~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~-~dg~~yC~~cy~~~f~p~C~~C~~~I~~  185 (368)
                      ..+.....+|..|++.| ..++|.|+|+.||+.||+|.+|.+.|.+..|.+ .++++||..||++.|+|+|.+|+++|..
T Consensus       328 ~cyq~tlekC~~Cg~~I-~d~iLrA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfAPrCs~C~~PI~P  406 (468)
T KOG1701|consen  328 GCYQDTLEKCNKCGEPI-MDRILRALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFAPRCSVCGNPILP  406 (468)
T ss_pred             HHHHHHHHHHhhhhhHH-HHHHHHhcccccCCCceEEEEeccccCCccccccCCCceeeehhhhhhcCcchhhccCCccC
Confidence            34445678899999999 689999999999999999999999999999987 5789999999999999999999999998


Q ss_pred             CCCc----ceEEccccccccccCCCCccCCCCccCCCCCcCC---CCCceEEccCCcccccchhhhh
Q 017657          186 NHGG----LIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEP---QDTAYVALDDGRKLCLECLDSA  245 (368)
Q Consensus       186 ~~~~----~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~---~~~~f~~~~dg~~~C~~C~~~~  245 (368)
                      .++.    .|..+++          .||.+|++|..|+.+|.   .+...+.+ ||.++|+.|+...
T Consensus       407 ~~G~~etvRvvamdr----------~fHv~CY~CEDCg~~LS~e~e~qgCyPl-d~HllCk~Ch~~R  462 (468)
T KOG1701|consen  407 RDGKDETVRVVAMDR----------DFHVNCYKCEDCGLLLSSEEEGQGCYPL-DGHLLCKTCHLKR  462 (468)
T ss_pred             CCCCcceEEEEEccc----------cccccceehhhcCccccccCCCCcceec-cCceeechhhhhh
Confidence            7533    3455554          45999999999998876   36678887 9999999999753

>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]

Probab=99.73  E-value=7.7e-20  Score=170.47  Aligned_cols=122  Identities=30%  Similarity=0.639  Sum_probs=106.9

Q ss_pred             CCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccccCccccCCCCcce
Q 017657          112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGGLI  191 (368)
Q Consensus       112 ~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~I~~~~~~~i  191 (368)
                      ..++|++|.+.|.+.-+++++++.||..|++|+.|..+|.+..|. ++|..||+.+|.++|+.+|..|...|++..  ++
T Consensus        32 eip~CagC~q~IlDrFilKvl~R~wHs~CLkCs~C~~qL~drCFs-R~~s~yCkedFfKrfGTKCsaC~~GIpPtq--VV  108 (383)
T KOG4577|consen   32 EIPICAGCDQHILDRFILKVLDRHWHSSCLKCSDCHDQLADRCFS-REGSVYCKEDFFKRFGTKCSACQEGIPPTQ--VV  108 (383)
T ss_pred             ccccccchHHHHHHHHHHHHHhhhhhhhhcchhhhhhHHHHHHhh-cCCceeehHHHHHHhCCcchhhcCCCChHH--HH
Confidence            679999999999555557899999999999999999999986655 788999999999999999999999999853  33


Q ss_pred             EEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhh
Q 017657          192 EYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSA  245 (368)
Q Consensus       192 ~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~  245 (368)
                       .+...|        .||..||.|..|.|.|..|+.|+.+.|++++|+..|+++
T Consensus       109 -RkAqd~--------VYHl~CF~C~iC~R~L~TGdEFYLmeD~rLvCK~DYE~A  153 (383)
T KOG4577|consen  109 -RKAQDF--------VYHLHCFACFICKRQLATGDEFYLMEDARLVCKDDYETA  153 (383)
T ss_pred             -HHhhcc--------eeehhhhhhHhhhcccccCCeeEEeccceeehhhhHHHH
Confidence             333332        579999999999999999999999999999999999985

>KOG1703 consensus Adaptor protein Enigma and related PDZ-LIM proteins [Signal transduction mechanisms; Cytoskeleton]

Probab=99.68  E-value=2.3e-17  Score=169.75  Aligned_cols=226  Identities=48%  Similarity=0.836  Sum_probs=196.9

Q ss_pred             CCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccc-cccccccccCccccCCCCcc
Q 017657          112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYRE-HYHPKCDVCKHFIPSNHGGL  190 (368)
Q Consensus       112 ~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~-~f~p~C~~C~~~I~~~~~~~  190 (368)
                      ...+|.+|.-.|..+..+          ||.|..|..++..          +-..+|.. ...+.+.++...|..+..+.
T Consensus       133 ~~~~~~~~~~~~~~~~~~----------~~~~~~~~~p~~~----------~~~~~~~~~~~~~~~~v~~~~~~~~~~~~  192 (479)
T KOG1703|consen  133 LDSICGGCNSAIEHGRSV----------CFQCKRCSEPLSG----------FPKPSYHESGRSKNEDVEEASSPSSRAGL  192 (479)
T ss_pred             ccccccCCCcccccccch----------hhhhcccccccCC----------ccccccccccccccccccccccccccccc
Confidence            456789999888666655          8889998888822          22334444 35678999999999887788


Q ss_pred             eEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccCCCCCCcchHhHHHHHHHhcccc
Q 017657          191 IEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKL  270 (368)
Q Consensus       191 i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~~C~~c~~~I~~f~e~~~~~i  270 (368)
                      +.++.++||.++||+.|.++.+..|..|.+.++.+..++.+.+++.+|.+|....+|+++++++.+.++..++++..+++
T Consensus       193 ~~~~~~~~~~~~~~~~~e~~~tp~~~~~~r~e~~~~~~~~l~~~~~~~~~~~~~~~~~~p~~~p~~~~~~~~~~~~~~~~  272 (479)
T KOG1703|consen  193 ILSRSHPFWKQKYCPSHENDGTPKCCSCERLEPLDTRYVELADGRALCLECMGSASMDSPECQPLVSAPRPASEGLHMKV  272 (479)
T ss_pred             cccccchhhhhcccccccCCCCCCcccccccccccccceecccchhhhhhccCCcccCCCccCcceeccccccccccccc
Confidence            99999999999999999999999999999988778889999999999999998788999999999999999999999999


Q ss_pred             ccccchhhHhHHHHHhhhcCCCCCCCCCcccCCcccccceeeeeeeccCcCCCCCcceeeeeccccccccceEEEEEEec
Q 017657          271 EQQIPLLLVERQALNEARDGEKNGYYHMPETRGLCLSEEQTVTTVLWRPRFGPGNQARNIITEPYKLTRRCDVTAILILY  350 (368)
Q Consensus       271 ~~~~p~~lv~~~aLn~~~~~e~~g~~~~~~~~G~~~~E~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~il~l~  350 (368)
                      ++..++++++..+++++.+..+....|. .++++|.++.++++++         ..+.+|.++..+....|+|++|++++
T Consensus       273 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~p~c~~c~~~i~~~---------~~i~~~~~~~h~~~~~c~~~~~~~~~  342 (479)
T KOG1703|consen  273 EKELPLLLVESEALKKLREEEKPAEYHN-VTRPLCLSCNQKIRSV---------KVIVALGKEWHPEHFSCEVCAIVILD  342 (479)
T ss_pred             ccccchhhcccccccccccccccccccc-cccccccccccCcccc---------eeEeeccccccccceeeccccccccC
Confidence            9999999999999999998877665454 8899999999999654         44678888899999999999999999


Q ss_pred             CCcHHHHHHHHhhhccc
Q 017657          351 GLPRFVICLALSNVCTR  367 (368)
Q Consensus       351 glpr~~~~~ilahe~~h  367 (368)
                      |+|++.+|.||+||+||
T Consensus       343 ~~~~~~~g~~~c~~~~~  359 (479)
T KOG1703|consen  343 GGPRELDGKILCHECFH  359 (479)
T ss_pred             CCccccCCCccHHHHHH
Confidence            99999999999999997

>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]

Probab=99.68  E-value=3.4e-18  Score=157.07  Aligned_cols=129  Identities=20%  Similarity=0.493  Sum_probs=112.9

Q ss_pred             CcccCCCccCCCCCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccc
Q 017657           99 HTYQHFPVIQFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDV  178 (368)
Q Consensus        99 ~~~~p~~~~~~~~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~  178 (368)
                      ..|.+  ..+-..+.++|+.|.++| .+++|.+||+.||.++|+|+.|.+|+-+...+...|.+||+.+|.++|+..|..
T Consensus       183 eLyCl--rChD~mgipiCgaC~rpI-eervi~amgKhWHveHFvCa~CekPFlGHrHYEkkGlaYCe~h~~qLfG~~CF~  259 (332)
T KOG2272|consen  183 ELYCL--RCHDKMGIPICGACRRPI-EERVIFAMGKHWHVEHFVCAKCEKPFLGHRHYEKKGLAYCETHYHQLFGNLCFI  259 (332)
T ss_pred             ceecc--ccccccCCcccccccCch-HHHHHHHhccccchhheeehhcCCcccchhhhhhcCchhHHHHHHHHhhhhhee
Confidence            34444  344557889999999999 799999999999999999999999999989999999999999999999999999


Q ss_pred             cCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhh
Q 017657          179 CKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDS  244 (368)
Q Consensus       179 C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~  244 (368)
                      |+..|.|.   ++.+.++.          |=+.||.|+.|.+.|...++|+.+ |-.++|+.||++
T Consensus       260 C~~~i~G~---vv~al~Ka----------wCv~cf~Cs~Cdkkl~~K~Kf~E~-DmkP~CKkCy~r  311 (332)
T KOG2272|consen  260 CNRVIGGD---VVSALNKA----------WCVECFSCSTCDKKLTQKNKFYEF-DMKPVCKKCYDR  311 (332)
T ss_pred             cCCccCcc---HHHHhhhh----------hccccccccccccccccccceeee-ccchHHHHHHhh
Confidence            99999964   57666543          356789999999999888999876 889999999986

>KOG1703 consensus Adaptor protein Enigma and related PDZ-LIM proteins [Signal transduction mechanisms; Cytoskeleton]

Probab=99.67  E-value=2.9e-17  Score=168.96  Aligned_cols=167  Identities=19%  Similarity=0.329  Sum_probs=134.5

Q ss_pred             CCCccccCCcccccC-ceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccccCccccCCCCcc
Q 017657          112 GYRICAGCNNEIGHG-RFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGGL  190 (368)
Q Consensus       112 ~~~~C~~C~~~I~~g-~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~I~~~~~~~  190 (368)
                      ..+.|..|+..| .+ +++.++++.||+.+|.|..|+..+....|...+|++||..||.+.+.|+|..|+++|.++   .
T Consensus       302 ~~p~c~~c~~~i-~~~~~i~~~~~~~h~~~~~c~~~~~~~~~~~~~~~~g~~~c~~~~~~~~~p~C~~C~~~i~~~---~  377 (479)
T KOG1703|consen  302 TRPLCLSCNQKI-RSVKVIVALGKEWHPEHFSCEVCAIVILDGGPRELDGKILCHECFHAPFRPNCKRCLLPILEE---G  377 (479)
T ss_pred             ccccccccccCc-ccceeEeeccccccccceeeccccccccCCCccccCCCccHHHHHHHhhCccccccCCchHHh---H
Confidence            458999999999 56 999999999999999999999999998999999999999999999999999999999975   3


Q ss_pred             eEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccCCCCCCcchHhHHHHHHHhcccc
Q 017657          191 IEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKL  270 (368)
Q Consensus       191 i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~~C~~c~~~I~~f~e~~~~~i  270 (368)
                      |.+.+          .+||+.||.|..|++.+. +..|+ +.+|.+||..||..  .++..|..|..+|..+.       
T Consensus       378 v~a~~----------~~wH~~cf~C~~C~~~~~-~~~~~-~~~~~pyce~~~~~--~~~~~~~~~~~p~~~~~-------  436 (479)
T KOG1703|consen  378 VCALG----------RLWHPECFVCADCGKPLK-NSSFF-ESDGEPYCEDHYKK--LFTTKCDYCKKPVEFGS-------  436 (479)
T ss_pred             hhhcc----------CeechhceeeecccCCCC-CCccc-ccCCccchhhhHhh--hccccchhccchhHhhh-------
Confidence            55554          468999999999988874 55555 56999999999999  45578999987775332       


Q ss_pred             ccccchhhHhHHHHHhhhcCCC---------CCCCCCcccCCccccccee
Q 017657          271 EQQIPLLLVERQALNEARDGEK---------NGYYHMPETRGLCLSEEQT  311 (368)
Q Consensus       271 ~~~~p~~lv~~~aLn~~~~~e~---------~g~~~~~~~~G~~~~E~~~  311 (368)
                        ..      ++|++.-|+...         +..+.++++.+.+||..+.
T Consensus       437 --~~------ie~~~~~~h~~~F~c~~c~~~l~~~~~~~~~~~p~c~~~~  478 (479)
T KOG1703|consen  437 --RQ------IEADGSPFHGDCFRCANCMKKLTKKTFFETLDKPLCQKHF  478 (479)
T ss_pred             --hH------hhccCccccccceehhhhhccccCCceeecCCccccccCC
Confidence              11      455555554431         2333567888999987654

>KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]

Probab=99.62  E-value=1.1e-16  Score=161.44  Aligned_cols=119  Identities=28%  Similarity=0.659  Sum_probs=105.8

Q ss_pred             CCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccccCccccCCCCcc
Q 017657          111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGGL  190 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~I~~~~~~~  190 (368)
                      .+...|++|++.|..|+.+.|+++.||..||+|..|+..|.+ +|..+||.|||+.||.+.|+.+|..|.++|.+   ++
T Consensus       131 ~~ps~cagc~~~lk~gq~llald~qwhv~cfkc~~c~~vL~g-ey~skdg~pyce~dy~~~fgvkc~~c~~fisg---kv  206 (670)
T KOG1044|consen  131 YGPSTCAGCGEELKNGQALLALDKQWHVSCFKCKSCSAVLNG-EYMSKDGVPYCEKDYQAKFGVKCEECEKFISG---KV  206 (670)
T ss_pred             cCCccccchhhhhhccceeeeeccceeeeeeehhhhcccccc-eeeccCCCcchhhhhhhhcCeehHHhhhhhhh---hh
Confidence            356789999999988999999999999999999999998876 78889999999999999999999999999996   46


Q ss_pred             eEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhh
Q 017657          191 IEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDS  244 (368)
Q Consensus       191 i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~  244 (368)
                      +.+-+          +|||+.|-+|+.|+.+|..|..-+ +....++-..|-..
T Consensus       207 Lqag~----------kh~HPtCARCsRCgqmF~eGEEMY-lQGs~iWHP~C~qa  249 (670)
T KOG1044|consen  207 LQAGD----------KHFHPTCARCSRCGQMFGEGEEMY-LQGSEIWHPDCKQA  249 (670)
T ss_pred             hhccC----------cccCcchhhhhhhccccccchhee-eccccccCCccccc
Confidence            76665          488999999999999998888766 66778888888753

>KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]

Probab=99.61  E-value=4.3e-16  Score=157.22  Aligned_cols=161  Identities=17%  Similarity=0.319  Sum_probs=132.3

Q ss_pred             CCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccccCccccCCCCcce
Q 017657          112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGGLI  191 (368)
Q Consensus       112 ~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~I~~~~~~~i  191 (368)
                      ....|.+|.+.. .|+++++.++.||..||+|..|+..|....|+..++.        +++++  ..|..+|.++   ++
T Consensus        15 ~~i~c~~c~~kc-~gevlrv~d~~fhi~cf~c~~cg~~la~~gff~k~~~--------~~ygt--~~c~~~~~ge---vv   80 (670)
T KOG1044|consen   15 QGIKCDKCRKKC-SGEVLRVNDNHFHINCFQCKKCGRNLAEGGFFTKPEN--------RLYGT--DDCRAFVEGE---VV   80 (670)
T ss_pred             cceehhhhCCcc-ccceeEeeccccceeeeeccccCCCcccccceecccc--------eeecc--cchhhhccce---eE
Confidence            456799999999 7999999999999999999999999999999987775        44455  6788889864   57


Q ss_pred             EEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhc------cCCCCCCcchHhHHHHHHH
Q 017657          192 EYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAI------MDTNECQPLYLDIQEFYES  265 (368)
Q Consensus       192 ~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v------~~~~~C~~c~~~I~~f~e~  265 (368)
                      .+.++.          ||+.||.|+.|..+++.|++. .+.....+|..|-...-      .+...|++|..+|..    
T Consensus        81 sa~gkt----------yh~~cf~cs~ck~pf~~g~~v-t~~gk~~~c~~c~~~~~~~p~~~~~ps~cagc~~~lk~----  145 (670)
T KOG1044|consen   81 STLGKT----------YHPKCFSCSTCKSPFKSGDKV-TFSGKECLCQTCSQPMPVSPAESYGPSTCAGCGEELKN----  145 (670)
T ss_pred             ecccce----------eccccceecccCCCCCCCCee-eecchhhhhhhhcCcccCCcccccCCccccchhhhhhc----
Confidence            888754          599999999999999999885 46677799999976421      155689999988864    


Q ss_pred             hccccccccchhhHhHHHHHhhhcCC--------CCCCCCCcccCCcccccceeee
Q 017657          266 IHMKLEQQIPLLLVERQALNEARDGE--------KNGYYHMPETRGLCLSEEQTVT  313 (368)
Q Consensus       266 ~~~~i~~~~p~~lv~~~aLn~~~~~e--------~~g~~~~~~~~G~~~~E~~~~~  313 (368)
                            +|.      .-||.++|+.-        ...++.|+.++|++|||.+|+.
T Consensus       146 ------gq~------llald~qwhv~cfkc~~c~~vL~gey~skdg~pyce~dy~~  189 (670)
T KOG1044|consen  146 ------GQA------LLALDKQWHVSCFKCKSCSAVLNGEYMSKDGVPYCEKDYQA  189 (670)
T ss_pred             ------cce------eeeeccceeeeeeehhhhcccccceeeccCCCcchhhhhhh
Confidence                  666      67899999764        2455678999999999999964

>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=99.32  E-value=7.3e-13  Score=97.12  Aligned_cols=57  Identities=37%  Similarity=1.023  Sum_probs=52.0

Q ss_pred             cccCCcccccCceE-eecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccc
Q 017657          116 CAGCNNEIGHGRFL-NCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHY  172 (368)
Q Consensus       116 C~~C~~~I~~g~~v-~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f  172 (368)
                      |.+|+++|..+..+ .++|+.||++||+|..|+++|.+..|+..+|++||+.||.++|
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            88999999766655 6999999999999999999999888999999999999998865

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 Regulatory protein MLP and related LIM proteins [Signal transduction mechanisms; Cytoskeleton]

Probab=98.75  E-value=1.9e-09  Score=98.96  Aligned_cols=121  Identities=22%  Similarity=0.450  Sum_probs=89.8

Q ss_pred             CCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCccccccccccccccc---------------
Q 017657          111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPK---------------  175 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~---------------  175 (368)
                      .....|..|++.++..+.+...|..||+.||+|..|...|....+..+++.+||+.||...+.|+               
T Consensus         5 ~~~~kc~~c~k~vy~~e~~~~~g~~~hk~c~~c~~~~k~l~~~~~~~~e~~~yc~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (200)
T KOG1700|consen    5 GTTDKCNACGKTVYFVEKVQKDGVDFHKECFKCEKCKKTLTLSGYSEHEGVPYCKNCHVAQFGPKGGGFGKGFQKAGGLG   84 (200)
T ss_pred             cccchhhhccCcchHHHHHhccCcchhhhHHhccccccccccccccccccccccccchHhhhCcccccccccccccCCCC
Confidence            45568999999998887778899999999999999999999999999999999999766554433               


Q ss_pred             --------------------------ccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceE
Q 017657          176 --------------------------CDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYV  229 (368)
Q Consensus       176 --------------------------C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~  229 (368)
                                                |..|++++-+..  -+...+          .-||..||+|+.|+..|.. ..|.
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~g~~~~c~~c~k~vy~~E--k~~~~~----------~~~hk~cfrc~~~~~~ls~-~~~~  151 (200)
T KOG1700|consen   85 KDGKSLNESKPNQSAKFQVFAGEKEKCARCQKTVYPLE--KVTGNG----------LEFHKSCFRCTHCGKKLSP-KNYA  151 (200)
T ss_pred             cccccccccccccchhHHhhhccccccccccceeeehH--HHhhhh----------hhhhhhheeecccccccCC-cchh
Confidence                                      333433333211  111111          3479999999999998854 4454


Q ss_pred             EccCCcccccchhhhh
Q 017657          230 ALDDGRKLCLECLDSA  245 (368)
Q Consensus       230 ~~~dg~~~C~~C~~~~  245 (368)
                       ...|.++|...+..+
T Consensus       152 -~~~g~l~~~~~~~~~  166 (200)
T KOG1700|consen  152 -ALEGVLYCKHHFAQL  166 (200)
T ss_pred             -hcCCccccchhhhee
Confidence             457888887776653

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

Probab=98.54  E-value=7.3e-08  Score=70.38  Aligned_cols=57  Identities=19%  Similarity=0.445  Sum_probs=44.3

Q ss_pred             ccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhh
Q 017657          176 CDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSA  245 (368)
Q Consensus       176 C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~  245 (368)
                      |..|+++|.+.. .++.+.++          .||+.||+|..|++.|..+. |+ ..+|++||..||.+.
T Consensus         1 C~~C~~~I~~~~-~~~~~~~~----------~~H~~Cf~C~~C~~~l~~~~-~~-~~~~~~~C~~c~~~~   57 (58)
T PF00412_consen    1 CARCGKPIYGTE-IVIKAMGK----------FWHPECFKCSKCGKPLNDGD-FY-EKDGKPYCKDCYQKR   57 (58)
T ss_dssp             BTTTSSBESSSS-EEEEETTE----------EEETTTSBETTTTCBTTTSS-EE-EETTEEEEHHHHHHH
T ss_pred             CCCCCCCccCcE-EEEEeCCc----------EEEccccccCCCCCccCCCe-eE-eECCEEECHHHHhhh
Confidence            789999999753 22346654          36999999999999986554 65 468899999999863

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 ....

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

Probab=98.37  E-value=2.7e-07  Score=61.40  Aligned_cols=37  Identities=46%  Similarity=1.106  Sum_probs=33.2

Q ss_pred             ccccCCcccccC-ceEeecCceecCCCcccCCCCCCCC
Q 017657          115 ICAGCNNEIGHG-RFLNCLDVFWHPECFCCHACHQPIT  151 (368)
Q Consensus       115 ~C~~C~~~I~~g-~~v~a~g~~wH~~CF~C~~C~~~L~  151 (368)
                      .|.+|+++|..+ ..+.++++.||+.||+|..|+.+|.
T Consensus         1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L~   38 (39)
T smart00132        1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPLG   38 (39)
T ss_pred             CccccCCcccCCcEEEEeCCccccccCCCCcccCCcCc
Confidence            489999999655 7788999999999999999999885

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.

>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]

Probab=97.53  E-value=1.1e-05  Score=76.45  Aligned_cols=77  Identities=22%  Similarity=0.464  Sum_probs=61.8

Q ss_pred             CCcccCCCccCCCCCCCccccCCcccccCceE-eecCceecCCCcccCCCCCCCC-Cceee-ccCCcccccccccccccc
Q 017657           98 AHTYQHFPVIQFPEGYRICAGCNNEIGHGRFL-NCLDVFWHPECFCCHACHQPIT-DIEFS-TSENRPYHKSCYREHYHP  174 (368)
Q Consensus        98 ~~~~~p~~~~~~~~~~~~C~~C~~~I~~g~~v-~a~g~~wH~~CF~C~~C~~~L~-~~~f~-~~dg~~yC~~cy~~~f~p  174 (368)
                      +++|.-  ..+|..+.-+|..|...|.+.++| +|.+..||..||.|..|++.|. +.+|+ +.|+++.|+++|.+--..
T Consensus        79 ~s~yCk--edFfKrfGTKCsaC~~GIpPtqVVRkAqd~VYHl~CF~C~iC~R~L~TGdEFYLmeD~rLvCK~DYE~Ak~k  156 (383)
T KOG4577|consen   79 GSVYCK--EDFFKRFGTKCSACQEGIPPTQVVRKAQDFVYHLHCFACFICKRQLATGDEFYLMEDARLVCKDDYETAKQK  156 (383)
T ss_pred             Cceeeh--HHHHHHhCCcchhhcCCCChHHHHHHhhcceeehhhhhhHhhhcccccCCeeEEeccceeehhhhHHHHHhc
Confidence            344444  566788899999999999777877 5889999999999999999996 44555 578899999999876555


Q ss_pred             cc
Q 017657          175 KC  176 (368)
Q Consensus       175 ~C  176 (368)
                      -|
T Consensus       157 ~~  158 (383)
T KOG4577|consen  157 HC  158 (383)
T ss_pred             cc
Confidence            44

>KOG1700 consensus Regulatory protein MLP and related LIM proteins [Signal transduction mechanisms; Cytoskeleton]

Probab=97.44  E-value=3.4e-05  Score=70.98  Aligned_cols=64  Identities=19%  Similarity=0.444  Sum_probs=56.9

Q ss_pred             CCCCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccc
Q 017657          109 FPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHY  172 (368)
Q Consensus       109 ~~~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f  172 (368)
                      +......|..|++.+++.+.+...+..||..||+|+.|+..|+...+....+.+||...+.+++
T Consensus       104 ~~g~~~~c~~c~k~vy~~Ek~~~~~~~~hk~cfrc~~~~~~ls~~~~~~~~g~l~~~~~~~~~~  167 (200)
T KOG1700|consen  104 FAGEKEKCARCQKTVYPLEKVTGNGLEFHKSCFRCTHCGKKLSPKNYAALEGVLYCKHHFAQLF  167 (200)
T ss_pred             hhccccccccccceeeehHHHhhhhhhhhhhheeecccccccCCcchhhcCCccccchhhheee
Confidence            3346788999999999888899999999999999999999999999999999999987776654

>KOG1702 consensus Nebulin repeat protein [Cytoskeleton]

Probab=97.30  E-value=2.7e-05  Score=70.68  Aligned_cols=59  Identities=22%  Similarity=0.598  Sum_probs=54.1

Q ss_pred             CccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccc
Q 017657          114 RICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHY  172 (368)
Q Consensus       114 ~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f  172 (368)
                      ..|..|++.+++-+.++++++.||..||.|..|+.+|....|--.+.++||..+|.+..
T Consensus         5 ~n~~~cgk~vYPvE~v~cldk~whk~cfkce~c~mtlnmKnyKgy~kkpycn~hYpkq~   63 (264)
T KOG1702|consen    5 CNREDCGKTVYPVEEVKCLDKVWHKQCFKCEVCGMTLNMKNYKGYDKKPYCNPHYPKQV   63 (264)
T ss_pred             chhhhhccccccHHHHhhHHHHHHHHhheeeeccCChhhhhccccccCCCcCcccccce
Confidence            56889999998889999999999999999999999999989888899999999998753

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

Probab=97.16  E-value=0.00031  Score=46.36  Aligned_cols=37  Identities=19%  Similarity=0.329  Sum_probs=28.3

Q ss_pred             cccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcC
Q 017657          175 KCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERME  222 (368)
Q Consensus       175 ~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l  222 (368)
                      +|..|+++|.+.. ..+.+.+.          .||..||+|..|++.|
T Consensus         1 ~C~~C~~~i~~~~-~~~~~~~~----------~~H~~Cf~C~~C~~~L   37 (39)
T smart00132        1 KCAGCGKPIRGGE-LVLRALGK----------VWHPECFKCSKCGKPL   37 (39)
T ss_pred             CccccCCcccCCc-EEEEeCCc----------cccccCCCCcccCCcC
Confidence            5889999998741 34555443          4699999999999876

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 Transcription factor, contains HOX domain [General function prediction only]

Probab=97.01  E-value=8.6e-05  Score=68.83  Aligned_cols=114  Identities=23%  Similarity=0.442  Sum_probs=86.9

Q ss_pred             cCCcccccCceEeecCceecCCCcccCCCCCCCC--CceeeccCCcccccccccc--cccccccccCccccCCCCcceEE
Q 017657          118 GCNNEIGHGRFLNCLDVFWHPECFCCHACHQPIT--DIEFSTSENRPYHKSCYRE--HYHPKCDVCKHFIPSNHGGLIEY  193 (368)
Q Consensus       118 ~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~--~~~f~~~dg~~yC~~cy~~--~f~p~C~~C~~~I~~~~~~~i~~  193 (368)
                      +|+..|.+-..+.+.+..||..|..|..|...+.  ...|.. +|..||..+|..  .+..+|..|...|...+     .
T Consensus         1 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~~d~~~~~~~~~rr~rt~~~~~ql~-----~   74 (235)
T KOG0490|consen    1 GCGRQILDRYLLRVLDRYWHASCLKCAECDNPLGVGDTCFSK-DGSIYCKRDYQREFKFSKRCARCKFTISQLD-----E   74 (235)
T ss_pred             CCCccccchHHhhcccHHHHHHHHhhhhhcchhccCCCcccC-CCcccccccchhhhhccccccCCCCCcCHHH-----H
Confidence            4677774444566779999999999999999997  666777 999999999998  78889999999986432     2


Q ss_pred             ccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhh
Q 017657          194 RAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDS  244 (368)
Q Consensus       194 ~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~  244 (368)
                      ..+.|      ... |-.||.|..|.+.+..+..+.+....+..|...+..
T Consensus        75 ler~f------~~~-h~Pd~~~r~~la~~~~~~e~rVqvwFqnrrak~r~~  118 (235)
T KOG0490|consen   75 LERAF------EKV-HLPCFACRECLALLLTGDEFRVQVWFQNRRAKDRKE  118 (235)
T ss_pred             HHHhh------cCC-CcCccchHHHHhhcCCCCeeeeehhhhhhcHhhhhh
Confidence            22222      223 888999999999877777776554558888877754

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	368
2jtn_A	182	Nmr Solution Structure Of A Ldb1-Lid:lhx3-Lim Compl		6e-07
2rgt_A	169	Crystal Structure Of Lhx3 Lim Domains 1 And 2 With		3e-06
3mmk_A	169	The Structural Basis For Partial Redundancy In A Cl		4e-06
2dj7_A	80	Solution Structure Of 3rd Lim Domain Of Actin-Bindi		1e-04
1x3h_A	80	Solution Structure Of The Lim Domain Of Human Leupa		4e-04

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

Iteration: 1
 Score = 52.0 bits (123), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 35/124 (28%), Positives = 53/124 (42%), Gaps = 12/124 (9%)
Query: 115 ICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHP 174
           +CAGC+  I     L  LD  WH +C  C  CH P+ +  FS  E+  Y K  + + +  
Sbjct: 62  MCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSRGES-VYCKDDFFKRFGT 120
Query: 175 KCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDG 234
           KC  C+  IP      +  RA  F    +C +        C  C+R       +  ++D 
Sbjct: 121 KCAACQLGIPPTQ---VVRRAQDFVYHLHCFA--------CVVCKRQLATGDEFYLMEDS 169
Query: 235 RKLC 238
           R +C
Sbjct: 170 RLVC 173

>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 = 49.7 bits (117), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 35/124 (28%), Positives = 53/124 (42%), Gaps = 12/124 (9%)
Query: 115 ICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHP 174
           +CAGC+  I     L  LD  WH +C  C  CH P+ +  FS  E+  Y K  + + +  
Sbjct: 8   MCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSRGESV-YCKDDFFKRFGT 66
Query: 175 KCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDG 234
           KC  C+  IP      +  RA  F    +C +        C  C+R       +  ++D 
Sbjct: 67  KCAACQLGIPPTQ---VVRRAQDFVYHLHCFA--------CVVCKRQLATGDEFYLMEDS 115
Query: 235 RKLC 238
           R +C
Sbjct: 116 RLVC 119

>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 = 48.9 bits (115), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 36/130 (27%), Positives = 52/130 (40%), Gaps = 12/130 (9%)
Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPK 175
           CAGCN  I     L  LD  WH  C  C  C   + D  FS +    Y K  + + +  K
Sbjct: 9   CAGCNQHILDKFILKVLDRHWHSSCLKCADCQMQLADRCFSRA-GSVYCKEDFFKRFGTK 67
Query: 176 CDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGR 235
           C  C+  IP      +  +A  F    +C +        C  C R       +  ++DGR
Sbjct: 68  CTACQQGIPPTQ---VVRKAQDFVYHLHCFA--------CIICNRQLATGDEFYLMEDGR 116
Query: 236 KLCLECLDSA 245
            +C E  ++A
Sbjct: 117 LVCKEDYETA 126

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 23/57 (40%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHY 172
           CAGC  EI HG+ L  LD  WH  CF C  C   +T  E+ + +  PY +S Y   +
Sbjct: 18  CAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTG-EYISKDGVPYCESDYHAQF 73

>pdb|1X3H|A Chain A, Solution Structure Of The Lim Domain Of Human Leupaxin Length = 80

Iteration: 1
 Score = 42.4 bits (98), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYH 173
           C GCN  +    +L+ +D  WHPECF C  C    +   F   + RP+ +     HYH
Sbjct: 18  CGGCNRPVLEN-YLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCEL----HYH 70

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	368
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	4e-21
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	7e-21
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	8e-21
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	1e-20
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	7e-19
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	2e-18
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	3e-08
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	2e-18
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	6e-18
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	3e-17
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	3e-17
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	4e-17
2cuq_A	80	Four and A half LIM domains 3; structural genomics	7e-17
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	9e-17
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	3e-16
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	4e-16
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	8e-04
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	7e-16
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	1e-15
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	5e-10
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	2e-15
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	3e-15
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	7e-15
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	9e-15
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	1e-14
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	1e-14
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	3e-14
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	3e-14
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	1e-13
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	4e-04
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	8e-14
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	1e-13
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	1e-13
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	2e-10
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	4e-13
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	5e-13
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	5e-08
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	7e-13
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	2e-12
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	2e-12
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	3e-12
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	5e-12
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	2e-10
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	3e-10
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	6e-10
2cor_A	79	Pinch protein; LIM domain, particularly interestin	3e-08
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	5e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-06
1q0v_A	81	Hydrophilic protein; has cysteine rich putative zi	9e-06
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	1e-05
2co8_A	82	NEDD9 interacting protein with calponin homology a	3e-04

>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 = 85.2 bits (211), Expect = 4e-21
 Identities = 24/67 (35%), Positives = 31/67 (46%), Gaps = 1/67 (1%)

Query: 110 PEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYR 169
             G   CAGC  EI HG+ L  LD  WH  CF C  C   +T  E+ + +  PY +S Y 
Sbjct: 12  IRGPSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTG-EYISKDGVPYCESDYH 70

Query: 170 EHYHPKC 176
             +    
Sbjct: 71  AQFGSGP 77

>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 = 84.4 bits (209), Expect = 7e-21
 Identities = 17/66 (25%), Positives = 25/66 (37%), Gaps = 1/66 (1%)

Query: 111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYRE 170
            G   C  CN  I     +   D  WH +CF C  C + +    F+  E++ Y   CY+ 
Sbjct: 3   SGSSGCVKCNKAIT-SGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKN 61

Query: 171 HYHPKC 176
                 
Sbjct: 62  FVSGPS 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 = 84.3 bits (209), Expect = 8e-21
 Identities = 16/65 (24%), Positives = 27/65 (41%), Gaps = 1/65 (1%)

Query: 112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREH 171
           G   C  C   I     +   +  WH ECF C AC + ++   F+  ++  Y  +C+ + 
Sbjct: 4   GSSGCVQCKKPIT-TGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDL 62

Query: 172 YHPKC 176
           Y    
Sbjct: 63  YASGP 67

>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 = 84.1 bits (208), Expect = 1e-20
 Identities = 18/68 (26%), Positives = 28/68 (41%), Gaps = 3/68 (4%)

Query: 112 GYRICAGCNNEI---GHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           G   CAGC N I   G  ++++  +  WH +CF C  C   +    F T  +      C 
Sbjct: 4   GSSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCG 63

Query: 169 REHYHPKC 176
           ++   P  
Sbjct: 64  KDISGPSS 71

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

 Score = 79.0 bits (195), Expect = 7e-19
 Identities = 20/67 (29%), Positives = 26/67 (38%), Gaps = 1/67 (1%)

Query: 111 EGYRICAGCNNEIGHG-RFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYR 169
            G   C  C   I  G R +      WH  CF CH C QPI    F   +N+ +   CY 
Sbjct: 3   SGSSGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYE 62

Query: 170 EHYHPKC 176
           + +    
Sbjct: 63  KQHASGP 69

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

 Score = 79.8 bits (197), Expect = 2e-18
 Identities = 24/126 (19%), Positives = 40/126 (31%), Gaps = 11/126 (8%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPK 175
           CAGC+  I    +    +  WH + FCC  C   +    +    ++P  K CY +++   
Sbjct: 6   CAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVV 65

Query: 176 CDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGR 235
           C  C + I       + Y    +        H       C  C +            +G 
Sbjct: 66  CQGCHNAIDPEVQR-VTYNNFSW--------HASTECFLCSCCSKCLIGQKFM--PVEGM 114

Query: 236 KLCLEC 241
             C   
Sbjct: 115 VFCSVE 120

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

 Score = 50.9 bits (122), Expect = 3e-08
 Identities = 14/61 (22%), Positives = 25/61 (40%), Gaps = 3/61 (4%)

Query: 115 ICAGCNNEI-GHGRFLNCLDVFWHP--ECFCCHACHQPITDIEFSTSENRPYHKSCYREH 171
           +C GC+N I    + +   +  WH   ECF C  C + +   +F   E   +     ++ 
Sbjct: 65  VCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKR 124

Query: 172 Y 172
            
Sbjct: 125 M 125

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

 Score = 77.8 bits (192), Expect = 2e-18
 Identities = 18/67 (26%), Positives = 23/67 (34%), Gaps = 1/67 (1%)

Query: 111 EGYRICAGCNNEIGHG-RFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYR 169
            G   C+ C   +  G R L      WH  CF C  C QP+    F   +   Y   CY 
Sbjct: 3   SGSSGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYE 62

Query: 170 EHYHPKC 176
             +    
Sbjct: 63  NKFASGP 69

>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 = 76.7 bits (189), Expect = 6e-18
 Identities = 17/65 (26%), Positives = 25/65 (38%)

Query: 115 ICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHP 174
            C  C   + H   + C    +H  CF C  C + +     +  +   Y KSCY + Y P
Sbjct: 9   KCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYGP 68

Query: 175 KCDVC 179
           K    
Sbjct: 69  KGYGY 73

>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 = 75.2 bits (185), Expect = 3e-17
 Identities = 17/86 (19%), Positives = 28/86 (32%), Gaps = 1/86 (1%)

Query: 91  SPPRQGTAHTYQHFPVIQFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPI 150
           S      A   +        +   +C  C + I  G  +   D + HPECF C  C+  +
Sbjct: 3   SGSSGVRAPVTKVHGGAGSAQRMPLCDKCGSGI-VGAVVKARDKYRHPECFVCADCNLNL 61

Query: 151 TDIEFSTSENRPYHKSCYREHYHPKC 176
               +   E   Y ++  R       
Sbjct: 62  KQKGYFFVEGELYCETHARARTSGPS 87

>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 = 74.4 bits (183), Expect = 3e-17
 Identities = 19/66 (28%), Positives = 27/66 (40%), Gaps = 1/66 (1%)

Query: 111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYRE 170
            G   C  C   I  GR +  ++  WHPECF C  C + + DI F  +  R   + C+  
Sbjct: 3   SGSSGCHQCGEFII-GRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNR 61

Query: 171 HYHPKC 176
                 
Sbjct: 62  EKASGP 67

>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 = 74.5 bits (183), Expect = 4e-17
 Identities = 18/64 (28%), Positives = 25/64 (39%), Gaps = 1/64 (1%)

Query: 115 ICAGCNNEIGHG-RFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYH 173
            CA C   IGH  R L   D  +H  CF C  C + + D  F+  ++      CY   + 
Sbjct: 17  TCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELLCNDCYCSAFS 76

Query: 174 PKCD 177
               
Sbjct: 77  SGPS 80

>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 = 73.9 bits (182), Expect = 7e-17
 Identities = 16/62 (25%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 115 ICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHP 174
            CA C+  +     +   D  WH EC  C  C  P+   +F++ +  PY  +C+ E +  
Sbjct: 17  RCARCSKTLT-QGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELFAS 75

Query: 175 KC 176
             
Sbjct: 76  GP 77

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

 Score = 73.5 bits (181), Expect = 9e-17
 Identities = 18/62 (29%), Positives = 26/62 (41%), Gaps = 1/62 (1%)

Query: 115 ICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHP 174
            C GCN  +    +L+ +D  WHPECF C  C    +   F   + RP+ +  Y      
Sbjct: 17  KCGGCNRPV-LENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHHRRGS 75

Query: 175 KC 176
             
Sbjct: 76  GP 77

>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 = 72.1 bits (177), Expect = 3e-16
 Identities = 21/62 (33%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 115 ICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHP 174
           +CA CN  I  G FL  L   WHPE F C  C   +  I F   +   Y + CY + +  
Sbjct: 27  MCAHCNQVI-RGPFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFFAS 85

Query: 175 KC 176
             
Sbjct: 86  GP 87

>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 = 72.4 bits (178), Expect = 4e-16
 Identities = 20/73 (27%), Positives = 28/73 (38%), Gaps = 1/73 (1%)

Query: 115 ICAGCNNEIGHGRF-LNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYH 173
            C  C   IG     ++  + FWH  CF C  C  P+ +  F   +N+     C      
Sbjct: 7   GCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDS 66

Query: 174 PKCDVCKHFIPSN 186
           PKC  C   I + 
Sbjct: 67  PKCKGCFKAIVAG 79

>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 = 37.4 bits (87), Expect = 8e-04
 Identities = 9/32 (28%), Positives = 13/32 (40%), Gaps = 1/32 (3%)

Query: 116 CAGCNNEIGHG-RFLNCLDVFWHPECFCCHAC 146
           C GC   I  G + +      WH +CF   + 
Sbjct: 69  CKGCFKAIVAGDQNVEYKGTVWHKDCFSGPSS 100

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

 Score = 70.5 bits (173), Expect = 7e-16
 Identities = 19/69 (27%), Positives = 25/69 (36%), Gaps = 2/69 (2%)

Query: 112 GYRICAGCNNEI-GHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYRE 170
           G   C GC  ++ G G  +  LD  +H  CF C  C   +    F   E R Y + CY  
Sbjct: 4   GSSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVA 63

Query: 171 HYHPKCDVC 179
                    
Sbjct: 64  TLE-SGPSS 71

>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 = 73.0 bits (179), Expect = 1e-15
 Identities = 29/127 (22%), Positives = 46/127 (36%), Gaps = 12/127 (9%)

Query: 115 ICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHP 174
           +CAGC+  I     L  LD  WH +C  C  CH P+ +    +     Y K  + + +  
Sbjct: 8   MCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAE-RCFSRGESVYCKDDFFKRFGT 66

Query: 175 KCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDG 234
           KC  C+  IP     +   +        Y           C  C+R       +  ++D 
Sbjct: 67  KCAACQLGIPPT-QVVRRAQDF-----VYHLHCF-----ACVVCKRQLATGDEFYLMEDS 115

Query: 235 RKLCLEC 241
           R +C   
Sbjct: 116 RLVCKAD 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 = 57.2 bits (138), Expect = 5e-10
 Identities = 14/94 (14%), Positives = 25/94 (26%), Gaps = 6/94 (6%)

Query: 116 CAGCNNEI-GHGRFLNCLDVFWHPECFCCHACHQPITDIE--FSTSENRPYHKSCYREHY 172
           CA C   I          D  +H  CF C  C + +   +  +   ++R   K+ Y    
Sbjct: 68  CAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAK 127

Query: 173 HPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPS 206
                          G  +   +          +
Sbjct: 128 QGGSGGSGGSGG---GTPMVAASPERHDGGLQAN 158

>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 = 72.6 bits (178), Expect = 2e-15
 Identities = 35/174 (20%), Positives = 58/174 (33%), Gaps = 14/174 (8%)

Query: 74  EEDEQLARAIQESLNLESPPRQGTAHTYQHFPVIQFPEGY--RICAGCNNEIGHGRFLNC 131
           E  ++  R I    N +     G          +         +CAGC+  I     L  
Sbjct: 19  EFGDEDERLITRLENTQFDAANGIDDEGGSGGHMGSGGTPEIPMCAGCDQHILDRFILKA 78

Query: 132 LDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGGLI 191
           LD  WH +C  C  CH P+ +    +     Y K  + + +  KC  C+  IP     + 
Sbjct: 79  LDRHWHSKCLKCSDCHVPLAE-RCFSRGESVYCKDDFFKRFGTKCAACQLGIPPT-QVVR 136

Query: 192 EYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSA 245
             +        Y           C  C+R       +  ++D R +C    ++A
Sbjct: 137 RAQDF-----VYHLHCF-----ACVVCKRQLATGDEFYLMEDSRLVCKADYETA 180

>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 = 69.3 bits (170), Expect = 3e-15
 Identities = 16/63 (25%), Positives = 22/63 (34%), Gaps = 1/63 (1%)

Query: 115 ICAGCNNEIGHG-RFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYH 173
            C GC   I  G + +      WH +CF C  C Q I    F       Y  +C+   + 
Sbjct: 17  KCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKFA 76

Query: 174 PKC 176
              
Sbjct: 77  SGP 79

>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 = 67.7 bits (166), Expect = 7e-15
 Identities = 16/60 (26%), Positives = 24/60 (40%), Gaps = 1/60 (1%)

Query: 115 ICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHP 174
           IC  C   I  GR +N +   WH E F C  C +P         +   Y ++ Y + +  
Sbjct: 7   ICGACRRPI-EGRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLFGD 65

>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 = 68.3 bits (167), Expect = 9e-15
 Identities = 14/82 (17%), Positives = 27/82 (32%)

Query: 108 QFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSC 167
                   C  C   +     L      +H  CF C  C+  ++   +++   R Y K  
Sbjct: 10  FQAPARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPH 69

Query: 168 YREHYHPKCDVCKHFIPSNHGG 189
           + + +  K +  + F      G
Sbjct: 70  FNQLFKSKGNYDEGFGSGPSSG 91

>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 = 67.8 bits (166), Expect = 1e-14
 Identities = 15/62 (24%), Positives = 26/62 (41%), Gaps = 2/62 (3%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTS-ENRPYHKSCYREHYHP 174
           CA C+  I   R L  +   +HP CF C  CH+ +  I F+    ++ +    +   +  
Sbjct: 18  CATCSQPI-LDRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFAS 76

Query: 175 KC 176
             
Sbjct: 77  GP 78

>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 = 67.5 bits (165), Expect = 1e-14
 Identities = 16/67 (23%), Positives = 24/67 (35%), Gaps = 1/67 (1%)

Query: 110 PEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYR 169
            +   +C  C   I  G F+   D   HPEC+ C  C   +        E++ Y +   R
Sbjct: 12  AQKLPMCDKCGTGI-VGVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEKHAR 70

Query: 170 EHYHPKC 176
           E      
Sbjct: 71  ERVSGPS 77

>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 = 66.4 bits (162), Expect = 3e-14
 Identities = 15/58 (25%), Positives = 21/58 (36%), Gaps = 3/58 (5%)

Query: 116 CAGCNNEI---GHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYRE 170
           C  C+  I      +F+   D  WH ECF C  C   +    F T     + + C   
Sbjct: 8   CVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCGSG 65

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

 Score = 69.7 bits (170), Expect = 3e-14
 Identities = 20/114 (17%), Positives = 35/114 (30%), Gaps = 9/114 (7%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPK 175
           C  C   +     + C    +H  CF C  C + +     +   +  Y KSCY + Y PK
Sbjct: 10  CGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPK 69

Query: 176 CDVCKHFIPSNHGGLIEYRAHPFWVQKYCP---------SHEHDGTPRCCSCER 220
                    +      E     +   +            + +  G+  C  C +
Sbjct: 70  GKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQ 123

>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 = 1e-13
 Identities = 16/90 (17%), Positives = 27/90 (30%)

Query: 90  ESPPRQGTAHTYQHFPVIQFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQP 149
               +           + Q   G   C  C   +     +      WH  CF C  C + 
Sbjct: 92  YEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKS 151

Query: 150 ITDIEFSTSENRPYHKSCYREHYHPKCDVC 179
           +     +  +   Y K CY +++ PK    
Sbjct: 152 LESTTLADKDGEIYCKGCYAKNFGPKGFGF 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 = 40.0 bits (93), Expect = 4e-04
 Identities = 18/127 (14%), Positives = 26/127 (20%), Gaps = 14/127 (11%)

Query: 93  PRQGTAHTYQHFPVIQFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITD 152
           P+                E   I                           C  C Q +  
Sbjct: 68  PKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAVYA 127

Query: 153 IEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDG- 211
            E      + +HKSC+R      C  C   +      L +          YC        
Sbjct: 128 AEKVIGAGKSWHKSCFR------CAKCGKSL--ESTTLADKDGEI-----YCKGCYAKNF 174

Query: 212 TPRCCSC 218
            P+    
Sbjct: 175 GPKGFGF 181

>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 = 65.2 bits (159), Expect = 8e-14
 Identities = 15/59 (25%), Positives = 22/59 (37%), Gaps = 4/59 (6%)

Query: 116 CAGCNNEI----GHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYRE 170
           CAGC N I         +      WH  CF C  C   + +  F   + + Y   C ++
Sbjct: 18  CAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYCPDCAKK 76

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

 Score = 66.2 bits (161), Expect = 1e-13
 Identities = 18/81 (22%), Positives = 29/81 (35%), Gaps = 2/81 (2%)

Query: 110 PEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFS--TSENRPYHKSC 167
              ++ CAGC  +I     L  +D +WH  C  C +C   + DI  S  T       ++ 
Sbjct: 2   SLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRND 61

Query: 168 YREHYHPKCDVCKHFIPSNHG 188
           Y   +             + G
Sbjct: 62  YIRLFGNSGAGGSGGHMGSGG 82

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

 Score = 67.7 bits (165), Expect = 1e-13
 Identities = 28/141 (19%), Positives = 49/141 (34%), Gaps = 16/141 (11%)

Query: 112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFS--TSENRPYHKSCYR 169
            ++ CAGC  +I     L  +D +WH  C  C +C   + DI  S  T       ++ Y 
Sbjct: 4   SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYI 63

Query: 170 EHY--HPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTA 227
             +     C  C   IP++             V +   +  H     C +C         
Sbjct: 64  RLFGNSGACSACGQSIPASE-----------LVMRAQGNVYHLKCFTCSTCRNRLVPGDR 112

Query: 228 YVALDDGRKLCLECLDSAIMD 248
           +    +G   C     +A+++
Sbjct: 113 FH-YINGSLFCEHDRPTALIN 132

>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 = 58.5 bits (141), Expect = 2e-10
 Identities = 13/108 (12%), Positives = 22/108 (20%), Gaps = 5/108 (4%)

Query: 116 CAGCNNEI-GHGRFLNCLDVFWHPECFCCHACHQPITD-IEFSTSENRPYHKSCYREHYH 173
           C+ C   I      +      +H +CF C  C   +     F       + +        
Sbjct: 72  CSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALI 131

Query: 174 PKCDVCKHFIPSNHGGL-IEYRAHPFWVQKYCPSHEHDGTPRCCSCER 220
                      S   G  +     P          + D          
Sbjct: 132 NGHLNSGGSGGSGGSGGDVMVVGEP--TLMGGEFGDEDERLITRLENT 177

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

 Score = 63.2 bits (154), Expect = 4e-13
 Identities = 14/63 (22%), Positives = 23/63 (36%), Gaps = 1/63 (1%)

Query: 115 ICAGCNNEI-GHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYH 173
            C  C        + +N     +H +CF C  C Q   +  F   E R Y +  ++  + 
Sbjct: 13  TCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA 72

Query: 174 PKC 176
           P  
Sbjct: 73  PCW 75

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

 Score = 64.4 bits (157), Expect = 5e-13
 Identities = 25/133 (18%), Positives = 43/133 (32%), Gaps = 18/133 (13%)

Query: 114 RICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFS--TSENRPYHKSCYREH 171
             C GC   IG   FL  +D +WH +C  C  C   + ++         R   +  Y   
Sbjct: 3   LTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRL 62

Query: 172 YHPK--CDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCER-MEPQDTAY 228
           +     C  C   I +     +  R      + Y          +C +C++     D   
Sbjct: 63  FGQDGLCASCDKRIRAYE---MTMRVKD---KVYHLECF-----KCAACQKHFCVGDRYL 111

Query: 229 VALDDGRKLCLEC 241
             L +   +C + 
Sbjct: 112 --LINSDIVCEQD 122

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

 Score = 50.1 bits (120), Expect = 5e-08
 Identities = 13/58 (22%), Positives = 22/58 (37%), Gaps = 2/58 (3%)

Query: 115 ICAGCNNEI-GHGRFLNCLDVFWHPECFCCHACHQPITD-IEFSTSENRPYHKSCYRE 170
           +CA C+  I  +   +   D  +H ECF C AC +       +    +    +    E
Sbjct: 68  LCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIYE 125

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

 Score = 62.4 bits (152), Expect = 7e-13
 Identities = 17/62 (27%), Positives = 26/62 (41%), Gaps = 1/62 (1%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPY-HKSCYREHYHP 174
           C  C+ E+     +  L   WH  C  C  C + +T    +  E +PY +  CY   + P
Sbjct: 3   CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGP 62

Query: 175 KC 176
           K 
Sbjct: 63  KG 64

>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 = 62.8 bits (152), Expect = 2e-12
 Identities = 17/85 (20%), Positives = 30/85 (35%), Gaps = 2/85 (2%)

Query: 90  ESPPRQGTAHTYQHFPVIQFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQP 149
           +   +           +      ++ CAGC  +I     L  +D +WH  C  C +C   
Sbjct: 38  KDGSQSKLGGGGSGGHMGSGGLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQ 97

Query: 150 ITDIEFS--TSENRPYHKSCYREHY 172
           + DI  S  T       ++ Y   +
Sbjct: 98  LGDIGTSSYTKSGMILCRNDYIRLF 122

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

 Score = 61.3 bits (149), Expect = 2e-12
 Identities = 14/63 (22%), Positives = 25/63 (39%), Gaps = 1/63 (1%)

Query: 115 ICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPY-HKSCYREHYH 173
            C  C+  +     ++ L   WH  C  C  C + +T    +  + +P+ HK CY   + 
Sbjct: 11  KCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFG 70

Query: 174 PKC 176
              
Sbjct: 71  SGP 73

>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 = 62.0 bits (150), Expect = 3e-12
 Identities = 16/82 (19%), Positives = 24/82 (29%), Gaps = 2/82 (2%)

Query: 112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFS--TSENRPYHKSCYR 169
               C GC   IG   FL  +D +WH +C  C  C   + ++         R   +  Y 
Sbjct: 2   SLLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYL 61

Query: 170 EHYHPKCDVCKHFIPSNHGGLI 191
                   +         G   
Sbjct: 62  RLGGSGGHMGSGGDVMVVGEPT 83

>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 = 59.7 bits (145), Expect = 5e-12
 Identities = 13/59 (22%), Positives = 22/59 (37%), Gaps = 1/59 (1%)

Query: 115 ICAGCNNEI-GHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHY 172
            C  C        + +N     +H +CF C  C Q   +  F   E R Y +  ++  +
Sbjct: 13  TCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 71

>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 = 55.9 bits (135), Expect = 2e-10
 Identities = 17/64 (26%), Positives = 25/64 (39%), Gaps = 3/64 (4%)

Query: 115 ICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIE--FSTSENRPYHKSCYREHY 172
            C GC+  +  G F+   +  +HPECF C +C   I D +          Y   C+ E  
Sbjct: 17  FCHGCSLLM-TGPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVV 75

Query: 173 HPKC 176
               
Sbjct: 76  SGPS 79

>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 = 55.1 bits (132), Expect = 3e-10
 Identities = 16/59 (27%), Positives = 23/59 (38%), Gaps = 2/59 (3%)

Query: 112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITD-IEFSTSENRPYHKSCYR 169
           G   C  C   I  GR L   +  +HP C  C  C Q   +  E     +  +H +C +
Sbjct: 4   GSSGCDSCEKYIT-GRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWHPACRQ 61

>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 = 54.4 bits (131), Expect = 6e-10
 Identities = 13/56 (23%), Positives = 22/56 (39%), Gaps = 2/56 (3%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIE-FSTSENRPYHKSCYRE 170
           C  C+  I  G  ++ L   +HP+CF C  C  P    +  + +      + C   
Sbjct: 18  CFSCDQFI-EGEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCSLP 72

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

 Score = 49.4 bits (118), Expect = 3e-08
 Identities = 14/57 (24%), Positives = 23/57 (40%), Gaps = 2/57 (3%)

Query: 112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCY 168
           G  IC  C+  I   + L   +  +HP+ F C  C + +T       +   Y   C+
Sbjct: 14  GKYICQKCHAIID-EQPLIFKNDPYHPDHFNCANCGKELTADAR-ELKGELYCLPCH 68

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 47.9 bits (113), Expect = 4e-06
 Identities = 56/318 (17%), Positives = 84/318 (26%), Gaps = 101/318 (31%)

Query: 37  GDLPLEQENEDIDRAIALSLL-EENQKGENVIDKESQVEEDEQLARAIQESLNLESPP-- 93
            DLP E    +      LS++ E  + G    D    V  D +L   I+ SLN+  P   
Sbjct: 316 QDLPREVLTTN---PRRLSIIAESIRDGLATWDNWKHVNCD-KLTTIIESSLNVLEPAEY 371

Query: 94  RQGTAHTYQHFPVIQFPEGYRICAGCNNEIGHGRFLNCLDVFWH------PECFCCHACH 147
           R+     +    V  FP    I                L + W                H
Sbjct: 372 RK----MFDRLSV--FPPSAHIPT------------ILLSLIWFDVIKSDVMVVVNK-LH 412

Query: 148 -------QP------ITDIEFS---TSENRPY-HKSCYREHYHPKCDVCK---------- 180
                  QP      I  I        EN    H+S   +HY+                 
Sbjct: 413 KYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSI-VDHYNIPKTFDSDDLIPPYLDQ 471

Query: 181 --------HFIPSNHGGLIEYRAHPF----WVQ-KYCPSHEHDGTPRCCSCERMEPQDTA 227
                   H     H   +      F    +++ K      HD T    S   +   +T 
Sbjct: 472 YFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIR----HDSTAWNASGSIL---NT- 523

Query: 228 YVALDDGRKLCLECLDSAIMDTNECQPLYL-DIQEFYESIHMKLEQQI---PLLLVERQA 283
              L       L+     I D +      +  I +F      K+E+ +       + R A
Sbjct: 524 ---LQQ-----LKFYKPYICDNDPKYERLVNAILDFL----PKIEENLICSKYTDLLRIA 571

Query: 284 LNEARDGEKNGYYHMPET 301
           L      E    +     
Sbjct: 572 LMA----EDEAIFEEAHK 585

>1q0v_A Hydrophilic protein; has cysteine rich putative zinc finger esential for function;...; stable, non-interacting alpha-helices; NMR {Saccharomyces cerevisiae} SCOP: j.105.1.1 PDB: 1q0w_A Length = 81

 Score = 42.5 bits (100), Expect = 9e-06
 Identities = 22/58 (37%), Positives = 25/58 (43%), Gaps = 12/58 (20%)

Query: 42 EQENEDIDRAIALSLLEENQKG------------ENVIDKESQVEEDEQLARAIQESL 87
          E E E I +AI LSL E                   V  +E + EED  L  AIQESL
Sbjct: 9  EDEEELIRKAIELSLKESRNSASSEPIVPVVESKNEVKRQEIEEEEDPDLKAAIQESL 66

>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 = 41.8 bits (98), Expect = 1e-05
 Identities = 15/60 (25%), Positives = 25/60 (41%), Gaps = 4/60 (6%)

Query: 115 ICAGCNNEIGHG-RFLNCLDVFWH--PECFCCHACHQPITDIEFSTSENRPY-HKSCYRE 170
           +C GC+N I    + +   +  WH   ECF C  C + +   +F   E   +    C + 
Sbjct: 4   VCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKR 63

>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 = 38.0 bits (88), Expect = 3e-04
 Identities = 14/63 (22%), Positives = 19/63 (30%), Gaps = 2/63 (3%)

Query: 108 QFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPIT--DIEFSTSENRPYHK 165
           Q      +CA C   +     L     F+H  CF CH C   +     E    +   Y  
Sbjct: 10  QEAGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCL 69

Query: 166 SCY 168
              
Sbjct: 70  QHL 72

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	368
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.91
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.91
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.91
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.91
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.89
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.89
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.84
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.75
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	99.7
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.62
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.61
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	99.6
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	99.59
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.58
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	99.57
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	99.57
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	99.56
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	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	99.53
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	99.53
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.53
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.53
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.52
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	99.52
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.52
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	99.51
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	99.51
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	99.5
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	99.49
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.47
2co8_A	82	NEDD9 interacting protein with calponin homology a	99.46
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.46
2cor_A	79	Pinch protein; LIM domain, particularly interestin	99.45
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.44
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	99.44
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	99.44
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.43
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.43
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.43
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.42
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.42
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.4
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	99.4
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	99.38
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.36
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.36
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	99.36
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	99.34
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	99.28
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.23
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.21
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	99.19
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.1
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.05
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.02
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.0
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	98.98
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	98.97
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	98.96
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	98.93
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	98.93
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	98.91
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	98.89
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	98.88
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	98.88
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	98.85
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	98.84
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	98.83
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	98.83
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	98.83
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	98.8
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	98.79
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	98.79
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	98.78
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	98.78
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	98.73
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	98.73
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	98.68
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	98.68
2cor_A	79	Pinch protein; LIM domain, particularly interestin	98.68
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	98.64
2co8_A	82	NEDD9 interacting protein with calponin homology a	98.59
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	98.59
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	97.48
1q0v_A	81	Hydrophilic protein; has cysteine rich putative zi	93.43
2d3g_P	26	Ubiquitin interacting motif from hepatocyte growth	82.65
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	81.6
2klz_A	52	Ataxin-3; UIM, ubiquitin-binding, hydrolase, neuro	80.52

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

Probab=99.91  E-value=3.2e-25  Score=187.01  Aligned_cols=120  Identities=20%  Similarity=0.468  Sum_probs=107.3

Q ss_pred             CCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccccCccccCCCCcce
Q 017657          112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGGLI  191 (368)
Q Consensus       112 ~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~I~~~~~~~i  191 (368)
                      ..++|++|+++|..++++.++|+.||++||+|..|+++|.+..|+..+|++||+.||.++|+++|.+|+++|.+.+ .++
T Consensus         2 ~~~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~I~~~~-~~~   80 (126)
T 2xqn_T            2 EKPRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVVCQGCHNAIDPEV-QRV   80 (126)
T ss_dssp             CCCBBTTTSSBCCSSCEEEETTEEECGGGSBCTTTCCBCTTSEEEEETTEEEEHHHHHHHSCCBCTTTCSBCCTTS-CEE
T ss_pred             cCCCCccCCCEeCCceEEeeCCCCccCCCCCcCCCCCCCCcCEEEeECCEEechHHhCcCcCccCcccCCcCCcCc-eEE
Confidence            4578999999997788999999999999999999999999989999999999999999999999999999999742 467


Q ss_pred             EEccccccccccCCCCcc--CCCCccCCCCCcCCCCCceEEccCCcccccchhhh
Q 017657          192 EYRAHPFWVQKYCPSHEH--DGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDS  244 (368)
Q Consensus       192 ~~~~~pfw~~~yC~~h~H--~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~  244 (368)
                      ++.++.          ||  +.||+|..|++.|. +..|+ +.+|++||..++.+
T Consensus        81 ~a~~~~----------~H~~~~CF~C~~C~~~l~-~~~f~-~~~~~~yC~~~~~~  123 (126)
T 2xqn_T           81 TYNNFS----------WHASTECFLCSCCSKCLI-GQKFM-PVEGMVFCSVECKK  123 (126)
T ss_dssp             EETTEE----------EESSTTTSBCTTTCCBCT-TSEEE-EETTEEESSHHHHH
T ss_pred             ECCCCE----------eeCCCCCcCcCCCCCccC-CCeeE-eECCEEcchHHhhh
Confidence            887754          59  99999999999995 77776 46999999977765

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

Probab=99.91  E-value=1e-24  Score=195.60  Aligned_cols=124  Identities=25%  Similarity=0.560  Sum_probs=108.6

Q ss_pred             CCCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccccCccccCCCCc
Q 017657          110 PEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGG  189 (368)
Q Consensus       110 ~~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~I~~~~~~  189 (368)
                      ....++|.+|+++|....++.++++.||+.||+|..|+++|.+..| .++|++||+.||.++|+++|.+|+++|.+.. .
T Consensus        57 ~~~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f-~~~g~~yC~~~y~~~f~~kC~~C~~~I~~~~-~  134 (182)
T 2jtn_A           57 TPEIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRFGTKCAACQLGIPPTQ-V  134 (182)
T ss_dssp             CCSCCBCBTSSSBCCCSEEEEETTEEECSSTTSCTTTCCCCSSCCE-EETTEEECHHHHHHTTSCCCTTTCCCCCSSC-C
T ss_pred             CCCCCcCccCCCCccCceeEEecCCeEccccCccCCCCCccCCCce-eECCEeeecCccccccccccccCCCccCCCc-e
Confidence            3567899999999976667899999999999999999999998776 6899999999999999999999999998742 3


Q ss_pred             ceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhh
Q 017657          190 LIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSA  245 (368)
Q Consensus       190 ~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~  245 (368)
                      ++.+.++          +||..||+|..|++.|..+..|+...+|++||..||.++
T Consensus       135 v~~a~~~----------~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~yC~~cy~~~  180 (182)
T 2jtn_A          135 VRRAQDF----------VYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETA  180 (182)
T ss_dssp             CCEETTE----------ECCTTTCCCTTTCCCCCTTCEEEECTTSCEECHHHHHHH
T ss_pred             EEecCCC----------CEEeCCCcCCCCCCCCCCCCceEEccCCEEECHHHHHHh
Confidence            4556654          469999999999999977888877789999999999875

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

Probab=99.91  E-value=5e-25  Score=186.88  Aligned_cols=121  Identities=19%  Similarity=0.455  Sum_probs=106.7

Q ss_pred             CCccccCCcccccCceEeecCceecCCCcccCCCCCCCC--CceeeccCCcccccccccccccc--cccccCccccCCCC
Q 017657          113 YRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPIT--DIEFSTSENRPYHKSCYREHYHP--KCDVCKHFIPSNHG  188 (368)
Q Consensus       113 ~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~--~~~f~~~dg~~yC~~cy~~~f~p--~C~~C~~~I~~~~~  188 (368)
                      .++|++|+++|..+.++.++++.||++||+|..|+++|.  +..|+..+|++||+.||.++|++  +|..|+++|.+.+ 
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 LLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIRAYE-   80 (131)
T ss_dssp             CCBBTTTCCBCCSSEEEEETTEEEETTTCBCTTTCCBCSSTTCCEEEETTEEECHHHHHHHHCCCEECTTTCCEECTTS-
T ss_pred             cccCcCCCCEeCCcEEEEECCCcccHHHcccCcCCCccccCCCeEEEECCEEeecCchhhhCCCccChhhcCCccCccc-
Confidence            478999999996555799999999999999999999996  36899999999999999999999  9999999998642 


Q ss_pred             cceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhh
Q 017657          189 GLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSA  245 (368)
Q Consensus       189 ~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~  245 (368)
                      .++.+.++.          ||+.||+|..|++.|..+..|+. .+|++||..||.++
T Consensus        81 ~~~~a~~~~----------~H~~CF~C~~C~~~L~~g~~f~~-~~~~~~C~~c~~~~  126 (131)
T 2xjy_A           81 MTMRVKDKV----------YHLECFKCAACQKHFCVGDRYLL-INSDIVCEQDIYEW  126 (131)
T ss_dssp             EEEEETTEE----------EEGGGCBCTTTCCBCCTTCEEEE-ETTEEEEGGGHHHH
T ss_pred             eeEeeCCce----------ECccCcccCCCCCCCCCCCEEEE-ECCEEEcHHHHHHH
Confidence            467777654          59999999999999977888875 58999999999875

>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=99.91  E-value=6e-25  Score=194.79  Aligned_cols=126  Identities=25%  Similarity=0.543  Sum_probs=108.0

Q ss_pred             CCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccccCccccCCCCcc
Q 017657          111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGGL  190 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~I~~~~~~~  190 (368)
                      .+.++|.+|+++|....++.++|+.||++||+|..|+++|.+..| ..||++||+.||.++|+++|.+|+++|.+.+ .+
T Consensus         4 ~~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f-~~~g~~yC~~~y~~~f~~~C~~C~~~I~~~~-~v   81 (169)
T 2rgt_A            4 PEIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRFGTKCAACQLGIPPTQ-VV   81 (169)
T ss_dssp             ---CBBSSSSSBCCSSSCEECSSCEECTTTSBCTTTCCBCCSCCE-ESSSCEECHHHHHHHHSCBCTTTCCBCCTTS-EE
T ss_pred             CCCCccccCCCccCCcEEEEECCcEEccccCccCCCCCcCCCCCc-ccCCeeeecccccccccccccccccccCCCc-EE
Confidence            356899999999976667899999999999999999999998775 7899999999999999999999999998742 24


Q ss_pred             eEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccC
Q 017657          191 IEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMD  248 (368)
Q Consensus       191 i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~  248 (368)
                      +.+.++          +||..||+|..|++.|..++.|+...+|++||..||.++++.
T Consensus        82 ~~a~~~----------~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~~C~~c~~~~~~~  129 (169)
T 2rgt_A           82 RRAQDF----------VYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAKQG  129 (169)
T ss_dssp             EEETTE----------EEEGGGCBCTTTCCBCCTTCEEEECTTSCEEEHHHHHHHHHC
T ss_pred             EEcCCc----------eEeeCCCcCCCCCCCCCCCCceEEccCCeEECHHHHHHHhhc
Confidence            456654          469999999999999977888876789999999999987654

>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=99.89  E-value=6.6e-24  Score=191.79  Aligned_cols=131  Identities=21%  Similarity=0.453  Sum_probs=114.0

Q ss_pred             CCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCccccccccccccccc---------------
Q 017657          111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPK---------------  175 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~---------------  175 (368)
                      .+.++|.+|+++|..++.|.++++.||++||+|..|+++|.+..|+..+|++||+.||.++|+++               
T Consensus         5 ~~~~~C~~C~~~I~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~f~~~c~~c~~~~g~~~~~~   84 (192)
T 1b8t_A            5 GGGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTDK   84 (192)
T ss_dssp             CCCEECTTTCCEECSSCCEEETTEEECTTTCBCTTTCCBCCSSSEEEETTEEEEHHHHHHHHSCCCCCCCCCCCCCCCCC
T ss_pred             CCCCcCccCCCeecceeEEEeCCceecCCCCcCcccCCcCCCCeeEecCCEeeChhhhHhhcCccccccccccccEecCC
Confidence            35689999999997788999999999999999999999999989999999999999999999886               


Q ss_pred             ---------------------------------ccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcC
Q 017657          176 ---------------------------------CDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERME  222 (368)
Q Consensus       176 ---------------------------------C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l  222 (368)
                                                       |..|+++|.+.  ..+.+.++          +||..||+|..|++.|
T Consensus        85 ~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~C~~C~~~I~~~--~~v~a~~~----------~~H~~CF~C~~C~~~L  152 (192)
T 1b8t_A           85 GESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAVYAA--EKVIGAGK----------SWHKSCFRCAKCGKSL  152 (192)
T ss_dssp             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEECTTTSCEECSS--SCEEETTE----------EECTTTCBCTTTCCBC
T ss_pred             CcccccccccccccCCCCcCccccccccCCCCcCCCCCCEecCc--EEEecCCC----------ccchhcCCccccCCCC
Confidence                                             67888999753  25667664          4699999999999998


Q ss_pred             CCCCceEEccCCcccccchhhhhccCCCCCCcchH
Q 017657          223 PQDTAYVALDDGRKLCLECLDSAIMDTNECQPLYL  257 (368)
Q Consensus       223 ~~~~~f~~~~dg~~~C~~C~~~~v~~~~~C~~c~~  257 (368)
                      . +..|+ ..+|++||..||.+  .+.++|..|..
T Consensus       153 ~-~~~~~-~~~g~~yC~~cy~~--~f~~kc~~C~~  183 (192)
T 1b8t_A          153 E-STTLA-DKDGEIYCKGCYAK--NFGPKGFGFGQ  183 (192)
T ss_dssp             C-SSSEE-EETTEEEEHHHHHH--HTCCCCCCCCC
T ss_pred             C-CCccc-ccCCEEeCHHHHHH--hcCCcCCCCCC
Confidence            5 44676 57999999999998  57889999883

>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=99.89  E-value=3.2e-24  Score=193.36  Aligned_cols=124  Identities=20%  Similarity=0.497  Sum_probs=108.2

Q ss_pred             CCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCC--ceeeccCCcccccccccccccc--cccccCccccCCC
Q 017657          112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITD--IEFSTSENRPYHKSCYREHYHP--KCDVCKHFIPSNH  187 (368)
Q Consensus       112 ~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~--~~f~~~dg~~yC~~cy~~~f~p--~C~~C~~~I~~~~  187 (368)
                      ..++|.+|+++|....++.++++.||++||+|..|+++|..  ..|+.++|++||+.||.++|++  +|..|+++|.+.+
T Consensus         4 ~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~cy~~~~~~~~~C~~C~~~I~~~e   83 (188)
T 1rut_X            4 SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACSACGQSIPASE   83 (188)
T ss_dssp             CCCBBTTTCCBCCCSEEEEETTEEECGGGCBCTTTCCBHHHHCSEEEEETTEEECHHHHHHHHSCCEECTTTCCEECTTS
T ss_pred             CCCcCccCCCEeCCceeEEecCcEecccCcccCCCCcccccCCceEEEeCCccccccccccccccCCccccCCCccccCc
Confidence            56889999999965557899999999999999999999985  6899999999999999999999  7999999998642


Q ss_pred             CcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhcc
Q 017657          188 GGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIM  247 (368)
Q Consensus       188 ~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~  247 (368)
                       .++.+.++.          ||+.||+|..|++.|..+..|+ ..++++||..||.++++
T Consensus        84 -~~i~a~~~~----------~H~~CF~C~~C~~~L~~g~~f~-~~~g~~yC~~c~~~~~~  131 (188)
T 1rut_X           84 -LVMRAQGNV----------YHLKCFTCSTCRNRLVPGDRFH-YINGSLFCEHDRPTALI  131 (188)
T ss_dssp             -EEEEETTEE----------ECGGGCBCTTTCCBCCTTCEEE-EETTEEEEGGGCCTTTC
T ss_pred             -EEEEcCCCE----------EeCCCCeECCCCCCCCCCCeEE-EECCeEECHHHHHHHhc
Confidence             466777654          5999999999999997678887 46999999999988543

>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=99.84  E-value=1.4e-21  Score=158.36  Aligned_cols=98  Identities=26%  Similarity=0.554  Sum_probs=87.9

Q ss_pred             CCCCccccCCccccc-CceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccccCccccCCCCc
Q 017657          111 EGYRICAGCNNEIGH-GRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGG  189 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~-g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~I~~~~~~  189 (368)
                      .+.++|.+|+++|.. ++++.++++.||+.||+|..|+++|.+..|+..+|++||+.||.++|+++|..|+++|.+. +.
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~C~~C~~~I~~~-~~   81 (101)
T 2cup_A            3 SGSSGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSPKCKGCFKAIVAG-DQ   81 (101)
T ss_dssp             SCCCBCSSSCCBCCSSSCEEEETTEEEETTTCCCSSSCCCTTSSCCEEETTEEECHHHHTTCCCCBCSSSCCBCCSS-SC
T ss_pred             CCCCcCcccCCcccCCceEEEECccChhhcCCcccccCCCCCcCeeECcCCEEEChhHhhhhcCCccccCCCccccC-Ce
Confidence            467899999999964 7899999999999999999999999988899999999999999999999999999999843 23


Q ss_pred             ceEEccccccccccCCCCccCCCCccCCCC
Q 017657          190 LIEYRAHPFWVQKYCPSHEHDGTPRCCSCE  219 (368)
Q Consensus       190 ~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~  219 (368)
                      ++.+.++.          ||+.||+|..|+
T Consensus        82 ~~~a~~~~----------~H~~CF~C~~C~  101 (101)
T 2cup_A           82 NVEYKGTV----------WHKDCFSGPSSG  101 (101)
T ss_dssp             EEESSSCE----------EETTTCCCTTCC
T ss_pred             EEEeCCcc----------hHHhCCCCCCCC
Confidence            67777654          699999999996

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

Probab=99.75  E-value=1.9e-19  Score=151.13  Aligned_cols=108  Identities=16%  Similarity=0.292  Sum_probs=90.5

Q ss_pred             CCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCC--CceeeccCCcccccccccccccc--cccccCccccCC
Q 017657          111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPIT--DIEFSTSENRPYHKSCYREHYHP--KCDVCKHFIPSN  186 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~--~~~f~~~dg~~yC~~cy~~~f~p--~C~~C~~~I~~~  186 (368)
                      ...++|++|+++|..+.++.++++.||++||+|..|+++|.  +..|+..+|++||+.||.++|++  +|.+|+++|.+.
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~cy~~~f~~~~~C~~C~~~I~~~   82 (122)
T 1m3v_A            3 LSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAGGSGGHMGSGG   82 (122)
T ss_dssp             SCCCCBSSSSSCCCSSCCEEETTEEECHHHHCCSSSCCCTTTSEECCEEETTEEECHHHHHHHHCCCCSSSCSSCCSCCE
T ss_pred             CCCCCCcccCCEeCCcEEEEECCceeHhhCCCcCCCCCcccccCCeEEEECCeeecHHHHHHHcCCCCccccCCCCcCch
Confidence            35689999999997666799999999999999999999997  36799999999999999999999  999999999963


Q ss_pred             CCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhc
Q 017657          187 HGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAI  246 (368)
Q Consensus       187 ~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v  246 (368)
                      .   +++.+                        +.+..+++|+ ..++++||..|+.+..
T Consensus        83 ~---~~~~g------------------------~~~l~g~~f~-~~~~~~yC~~~~~~~~  114 (122)
T 1m3v_A           83 D---VMVVG------------------------EPTLMGGEFG-DEDERLITRLENTQFD  114 (122)
T ss_dssp             E---SSSSS------------------------SSSCCSCTTC-CTTCCCCEECTTTTTT
T ss_pred             h---eEEcC------------------------CcCCCCCccE-ecCCEeEccCcchhch
Confidence            2   32222                        2234688887 5799999999998743

>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=99.70  E-value=8.3e-18  Score=139.51  Aligned_cols=102  Identities=17%  Similarity=0.335  Sum_probs=85.6

Q ss_pred             CCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCC--ceeeccCCcccccccccccccccccccCccccCCCCc
Q 017657          112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITD--IEFSTSENRPYHKSCYREHYHPKCDVCKHFIPSNHGG  189 (368)
Q Consensus       112 ~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~--~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~I~~~~~~  189 (368)
                      +.++|.+|+++|....++.++++.||++||+|..|+++|.+  ..|+.++|++||+.||.++|+++|..|..   +   .
T Consensus         2 ~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~~y~~~f~~~c~~c~~---~---~   75 (114)
T 1j2o_A            2 SLLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGGSGGHMGSG---G---D   75 (114)
T ss_dssp             CCBCBSSSCSCBCSSEEEECSSSEECTTTCCCSSSCSCCCCSSSCCCCBTTBCCCHHHHHHHHTSCCSSCBS---C---S
T ss_pred             cCCCCcCCCCeeCCcEEEEECchhHHHhcCcccccCCchhcCCCeeEEECCeeechHHHHHHhCcccCcCCC---C---c
Confidence            35789999999975668999999999999999999999985  68999999999999999999999998862   1   1


Q ss_pred             ceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhh
Q 017657          190 LIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSA  245 (368)
Q Consensus       190 ~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~  245 (368)
                      ++                      +   |.+.+..+++|+ +.++++||..|+.+.
T Consensus        76 ~~----------------------~---~~~~~~~g~~f~-~~~~~~~C~~~~~~~  105 (114)
T 1j2o_A           76 VM----------------------V---VGEPTLMGGEFG-DEDERLITRLENTQF  105 (114)
T ss_dssp             CC----------------------C---SSCSSTTSSBCC-CSSSCCCEEEECTTC
T ss_pred             ee----------------------E---cCCccCCCCeeE-EcCCEeecchhhhcc
Confidence            11                      1   345555788887 679999999999864

>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=2.1e-16  Score=121.44  Aligned_cols=71  Identities=24%  Similarity=0.526  Sum_probs=66.4

Q ss_pred             CccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCccccc-ccccccccccccccCcccc
Q 017657          114 RICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHK-SCYREHYHPKCDVCKHFIP  184 (368)
Q Consensus       114 ~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~-~cy~~~f~p~C~~C~~~I~  184 (368)
                      ++|.+|+++|..++.|.++++.||++||+|..|+++|.+..|+..+|++||+ .||.++|+++|.+|++.+.
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 PKCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGFGRGGAES   72 (76)
T ss_dssp             CBCTTTSSBCCGGGEEEETTEEEETTTCBCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCCCSSCCCSSS
T ss_pred             CcCCCCCCEEECceEEEECCccccCCCCCccccCccCCCCceECcCCeEeeCHHHHHHHhCccCCCcCCcee
Confidence            5799999999778999999999999999999999999988999999999999 6999999999999997654

>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=99.61  E-value=1.6e-16  Score=123.51  Aligned_cols=74  Identities=24%  Similarity=0.503  Sum_probs=58.2

Q ss_pred             CCCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccccCccc
Q 017657          110 PEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFI  183 (368)
Q Consensus       110 ~~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~I  183 (368)
                      +.+.++|.+|+++|..++.+.++++.||++||+|..|+++|....|+..++++||+.||.++|+++|.+|++..
T Consensus         4 ~~~~~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~gcg~g~   77 (81)
T 1a7i_A            4 WGGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYGPKGYGYGQGA   77 (81)
T ss_dssp             ----CBCSSSCCBCSSTTEEEETTEEEESSSEECSSSCCEECSSCCEEETTEEECSHHHHHHCC----------
T ss_pred             CCCCCcCcCcCccccCceeEEeCCcccccccCccCCCCCCCCCCCeEeeCCEEECHHHHHHHhCCcccccCCcc
Confidence            45678999999999878999999999999999999999999988899999999999999999999999998754

>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=99.60  E-value=9.7e-16  Score=121.60  Aligned_cols=69  Identities=30%  Similarity=0.642  Sum_probs=64.2

Q ss_pred             CCCCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccc
Q 017657          109 FPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDV  178 (368)
Q Consensus       109 ~~~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~  178 (368)
                      .....++|.+|+++| .+++|.++++.||++||+|..|+++|.+..|+..++++||+.||.++|+|+|..
T Consensus        21 ~~~~~~~C~~C~~~I-~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~c~s   89 (90)
T 2dar_A           21 AGKRTPMCAHCNQVI-RGPFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFFASGPSS   89 (90)
T ss_dssp             TTTCCCBBSSSCCBC-CSCEEEETTEEECTTTCBCSSSCCBCSSSCBEESSSCEECHHHHHHHTSCCCCC
T ss_pred             CCCCCCCCccCCCEe-cceEEEECCccccccCCccCCCCCCCCCCEeEeECCEEECHHHHHHHcCCCCCC
Confidence            345779999999999 689999999999999999999999999889999999999999999999999963

>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=99.59  E-value=7.6e-16  Score=118.22  Aligned_cols=70  Identities=17%  Similarity=0.458  Sum_probs=65.0

Q ss_pred             CCCCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCccccc-ccccccccccccc
Q 017657          109 FPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHK-SCYREHYHPKCDV  178 (368)
Q Consensus       109 ~~~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~-~cy~~~f~p~C~~  178 (368)
                      ++...++|.+|+++|..++.|.++++.||++||+|..|+++|.+..|+..++++||+ .||.++|+|+|..
T Consensus         5 ~~~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~~kc~g   75 (76)
T 2cu8_A            5 SSGMASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFGSGPSS   75 (76)
T ss_dssp             CCCCCCBCTTTCCBCCTTTEEEETTEEEETTTCBCSSSCCBCCTTSCEEETTEEECTTTHHHHHSCSSCSC
T ss_pred             cCCCCCCCcCCCCEeECCeEEEECCeEeeCCCCCCCCCCCccCCCceEeECCEEecchHHHHHhcccccCC
Confidence            456789999999999778999999999999999999999999988899999999999 7999999999964

>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=99.58  E-value=1.3e-15  Score=117.07  Aligned_cols=69  Identities=23%  Similarity=0.527  Sum_probs=64.0

Q ss_pred             CCCccccCCccccc---CceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccccC
Q 017657          112 GYRICAGCNNEIGH---GRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCK  180 (368)
Q Consensus       112 ~~~~C~~C~~~I~~---g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~  180 (368)
                      ..++|.+|+++|..   .++|.++++.||++||+|..|+++|.+..|+..++++||+.||.++|+++|..+.
T Consensus         4 ~~~~C~~C~~~I~~~g~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~C~~~s   75 (76)
T 1x68_A            4 GSSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCGSGMDTDISGPSS   75 (76)
T ss_dssp             CCCCCTTTCCCCCTTTTCCEEEETTEEEEGGGCBCTTTCCBCSSSCEEEETTEEEETTTTCCCCCCSSSSSC
T ss_pred             cCCCCccCCCcccCCCCceeEEECCcccCcccCChhhCCCcCCCCceEeECCEEECHHHhhhhhCCcCCCCC
Confidence            56889999999962   3899999999999999999999999998999999999999999999999998875

>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=99.57  E-value=1.1e-15  Score=114.97  Aligned_cols=67  Identities=25%  Similarity=0.625  Sum_probs=62.5

Q ss_pred             CCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccc
Q 017657          111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDV  178 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~  178 (368)
                      .+.++|.+|+++| .++.|.++++.||++||+|..|+++|.+..|+..++++||+.||.++|+++|.+
T Consensus         3 ~~~~~C~~C~~~I-~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~g   69 (69)
T 2cur_A            3 SGSSGCVKCNKAI-TSGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFVSGPSSG   69 (69)
T ss_dssp             CCCCCCSSSCCCC-CTTCEEETTEEECTTTTBCTTTCCBCTTSCEEECSSCEEEHHHHHHHHTCSCCC
T ss_pred             CCcCCCcccCCEe-CcceEEECccccccCcCEECCCCCCCCCCccEeECCEEECHHHhHHHhcCCCCC
Confidence            3668999999999 578899999999999999999999999889999999999999999999999964

>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=99.57  E-value=1.4e-15  Score=118.40  Aligned_cols=67  Identities=36%  Similarity=0.756  Sum_probs=62.4

Q ss_pred             CCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccc
Q 017657          111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDV  178 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~  178 (368)
                      ...++|.+|+++|..+++|.++++.||++||+|..|+++|.+ .|+..++++||+.||.++|+++|..
T Consensus        13 ~~~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~-~~~~~~g~~yC~~~y~~~fg~~C~~   79 (80)
T 2dj7_A           13 RGPSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTG-EYISKDGVPYCESDYHAQFGSGPSS   79 (80)
T ss_dssp             SSCSCCTTTCCCCSSSCCEEETTEEECTTTCBCSSSCCBCSS-CCEEETTEEECTTHHHHHTTCCSTT
T ss_pred             CCCCCCcCcCCeeCCCeEEEECCcccccccCCcCcCCCCcCC-CeEEECCEEECHHHHHHHcCCCCCC
Confidence            467899999999987899999999999999999999999986 6899999999999999999999974

>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=99.56  E-value=1.7e-15  Score=114.23  Aligned_cols=67  Identities=24%  Similarity=0.610  Sum_probs=62.1

Q ss_pred             CCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccc
Q 017657          111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDV  178 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~  178 (368)
                      .+.++|.+|+++| .++.|.++++.||++||+|..|+++|.+..|+..++++||+.||.++|+++|..
T Consensus         3 ~~~~~C~~C~~~I-~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~~   69 (70)
T 2d8z_A            3 SGSSGCVQCKKPI-TTGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLYASGPSS   69 (70)
T ss_dssp             CCCCBCSSSCCBC-CSSEEESSSSEEETTTSBCSSSCCBCTTSCCEESSSSEECHHHHHHHTCCCCTT
T ss_pred             CCCCCCcccCCee-ccceEEECccccCCCCCccCCCCCcCCcCceEeeCCeEECHHHHHHHhccccCC
Confidence            3568899999999 477899999999999999999999999889999999999999999999999963

>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=99.54  E-value=5e-15  Score=115.18  Aligned_cols=72  Identities=24%  Similarity=0.465  Sum_probs=65.4

Q ss_pred             cCCCCCCCccccCCcccc-cCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccc
Q 017657          107 IQFPEGYRICAGCNNEIG-HGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDV  178 (368)
Q Consensus       107 ~~~~~~~~~C~~C~~~I~-~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~  178 (368)
                      .+.....++|.+|+++|. .+.++.++++.||++||+|..|+++|.+..|+..++++||+.||.++|+++|.+
T Consensus         9 ~y~~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~~~~C~~c~~~~~~~~C~~   81 (82)
T 2ehe_A            9 CYDNTFANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELLCNDCYCSAFSSGPSS   81 (82)
T ss_dssp             CCCCCCSCBCTTTCCBCCSSCCBCCCSSCCCBTTTSBCTTTCCBCSSCCEEEETTEEEETTTSSCCGGGSSCC
T ss_pred             HhCcccCCcCccCCCccccCcEEEEeCCccccccCCeecCCCCccCCCccEeeCCEEECHHHHhhhcCCCCCC
Confidence            445567789999999996 378889999999999999999999999989999999999999999999999964

>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=2.9e-15  Score=113.51  Aligned_cols=67  Identities=25%  Similarity=0.630  Sum_probs=62.3

Q ss_pred             CCCccccCCccccc-CceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccc
Q 017657          112 GYRICAGCNNEIGH-GRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDV  178 (368)
Q Consensus       112 ~~~~C~~C~~~I~~-g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~  178 (368)
                      ..++|.+|+++|.. +.++.++++.||++||+|..|+++|.+..|+..++++||+.||.++|+++|..
T Consensus         4 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~~   71 (72)
T 1wyh_A            4 GSSGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFASGPSS   71 (72)
T ss_dssp             CCCBCSSSCCBCCSSSCEECSTTCCEETTTCBCTTTCCBTTTSCEEEETTEEEEHHHHHHHTSCCCCC
T ss_pred             cCCCCccCCCccccCccEEEECccccCcccCeECCCCCcCCCCccCCcCCeEECHHHHHHHccCcCCC
Confidence            56899999999976 48899999999999999999999999889999999999999999999999963

>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=99.53  E-value=3.7e-15  Score=112.91  Aligned_cols=67  Identities=30%  Similarity=0.677  Sum_probs=62.2

Q ss_pred             CCCccccCCcccccC-ceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccc
Q 017657          112 GYRICAGCNNEIGHG-RFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDV  178 (368)
Q Consensus       112 ~~~~C~~C~~~I~~g-~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~  178 (368)
                      ..++|.+|+++|..+ .++.++++.||++||+|..|+++|.+..|+..++++||+.||.++|+++|..
T Consensus         4 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~~   71 (72)
T 1x4k_A            4 GSSGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQHASGPSS   71 (72)
T ss_dssp             CCCCBSSSCCCCCSSSCEEEETTEEEETTTTCCSSSCCCCCSSSEEEETTEEEEHHHHHHHTSSCCCC
T ss_pred             cCCCCccCCCcccCCceEEEECcCeecccCCcccccCCccCCCccCccCCeEECHHHHhHHhCCCCCC
Confidence            567999999999764 6899999999999999999999999889999999999999999999999963

>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=99.53  E-value=7e-15  Score=116.82  Aligned_cols=73  Identities=18%  Similarity=0.378  Sum_probs=66.5

Q ss_pred             CCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccccCccc
Q 017657          111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFI  183 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~I  183 (368)
                      .+...|.+|+++|..++.|.++++.||+.||+|..|+++|....|+..++++||+.||.++|+++|..+..+.
T Consensus        13 ~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~kc~~~~g~g   85 (91)
T 2d8y_A           13 PARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNYDEGFG   85 (91)
T ss_dssp             SSSCBCTTTCCBCCTTSEEECSSSEEETTTCBCTTTCCBCCTTTCCCSSSCCCCHHHHHHHSCCCSCCCSCCC
T ss_pred             CCCCcCccCCCccCCceeEEECCCEECCCCCeeCCCCCCCCCCCcEeECCEEECHHHHHHHhCCCcCccCCcC
Confidence            4678999999999777899999999999999999999999988899999999999999999999998655443

>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=99.53  E-value=5.8e-15  Score=114.20  Aligned_cols=71  Identities=25%  Similarity=0.585  Sum_probs=64.6

Q ss_pred             cCCCCCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccc
Q 017657          107 IQFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDV  178 (368)
Q Consensus       107 ~~~~~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~  178 (368)
                      .+.....++|++|+++|. +++|.++++.||++||+|..|+++|.+..|+..++++||+.||.++|+++|..
T Consensus         9 ~y~~~~~~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~~y~~~f~~~C~~   79 (80)
T 1x3h_A            9 DFLAMFSPKCGGCNRPVL-ENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHHRRGSGPSS   79 (80)
T ss_dssp             CCCCCCSCBCTTTCCBCC-SSCEEETTEEECTTTCBCSSSCCBSCSSCCEESSSCEECHHHHHHHHSSSCCC
T ss_pred             HHhhhcCCccccCCCeec-ceeEEECCCeEecCcCChhhCCCCCCCCcEEeECCEEECHHHHHHHcCCCCCC
Confidence            345556789999999994 68899999999999999999999999888999999999999999999999964

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

Probab=99.53  E-value=5.5e-15  Score=112.15  Aligned_cols=66  Identities=26%  Similarity=0.633  Sum_probs=60.8

Q ss_pred             CCCCccccCCccccc---CceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccc
Q 017657          111 EGYRICAGCNNEIGH---GRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKC  176 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~---g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C  176 (368)
                      .+.++|.+|+++|..   ..+|.++++.||++||+|..|+++|.+..|+..++++||+.||.++|+|++
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~p~~   71 (72)
T 1x4l_A            3 SGSSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGKDISGPSS   71 (72)
T ss_dssp             SCSCSBTTTTBCCCCSSSCSCEECSSCEECTTTCBCSSSCCBCTTSCCEECSSSEECHHHHHTCCCSSC
T ss_pred             CCCCCCcCCCccccCCCCcceEEECCcccCcccCEeccCCCcCCCCccEeECCEEEChhHcCcccCCCC
Confidence            367899999999963   388999999999999999999999999999999999999999999999986

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

Probab=99.52  E-value=7.7e-15  Score=113.51  Aligned_cols=71  Identities=23%  Similarity=0.558  Sum_probs=64.6

Q ss_pred             cCCCCCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccc
Q 017657          107 IQFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDV  178 (368)
Q Consensus       107 ~~~~~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~  178 (368)
                      .+.....++|.+|+++| .++.|.++++.||++||+|..|+++|.+..|+..++++||+.||.++|+++|..
T Consensus         9 cy~~~~~~~C~~C~~~I-~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~s   79 (80)
T 2cuq_A            9 CYENKFAPRCARCSKTL-TQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELFASGPSS   79 (80)
T ss_dssp             CCCCCSSCCCTTTCCCC-CSCCEESSSSEECTTTCBCSSSCCBCTTCCEEECSSSEEEHHHHHHHTTCSTTC
T ss_pred             HHccccCCcCCCCCCEe-cCcEEEECCchhhhhhCCcccCCCcCCCCeeEeECCEEECHHHHHHHcCCCCCC
Confidence            44556779999999999 567899999999999999999999999889999999999999999999999963

>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=3.5e-15  Score=111.32  Aligned_cols=63  Identities=27%  Similarity=0.654  Sum_probs=59.4

Q ss_pred             CCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCccccccccccccccc
Q 017657          112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPK  175 (368)
Q Consensus       112 ~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~  175 (368)
                      ..++|++|+++|. ++++.++++.||++||+|..|+++|.+..|+..+|++||+.||.++|+++
T Consensus         4 ~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~k   66 (66)
T 1nyp_A            4 GVPICGACRRPIE-GRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLFGDV   66 (66)
T ss_dssp             CCCEETTTTEECC-SCEECCTTSBEETTTCBCTTTCCBCSSSCCEEETTEEECHHHHHHHCSCC
T ss_pred             CCCCCcccCCEec-ceEEEECccccccCcCEECCCCCCCCCCceEeECCcEECHHHHHHHhCCC
Confidence            5688999999996 89999999999999999999999999989999999999999999999875

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

Probab=99.52  E-value=9.1e-15  Score=113.53  Aligned_cols=67  Identities=22%  Similarity=0.532  Sum_probs=62.1

Q ss_pred             CCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeecc-CCcccccccccccccccccc
Q 017657          111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTS-ENRPYHKSCYREHYHPKCDV  178 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~-dg~~yC~~cy~~~f~p~C~~  178 (368)
                      .+.++|++|+++|. +++|.++++.||++||+|..|+++|.+..|+.. +|++||+.||.++|+++|.+
T Consensus        13 ~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~g~~yC~~cy~~~f~~~C~~   80 (81)
T 2dlo_A           13 ATLEKCATCSQPIL-DRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFASGPSS   80 (81)
T ss_dssp             SSCCBCTTTCCBCC-SCCEEETTEEECTTTCBCSSSCCBCTTSCEECCTTCCCEEHHHHHHHTTSSSCC
T ss_pred             cCCCccccCCCeec-ceeEEECCccccHHhcCcccCCCccCCCeeEECCCCEEECHHHHHHHhcCcCCC
Confidence            67899999999995 789999999999999999999999998888876 78999999999999999974

>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=1.6e-14  Score=114.24  Aligned_cols=66  Identities=23%  Similarity=0.528  Sum_probs=61.6

Q ss_pred             CCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCccccccccccccccccc
Q 017657          111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCD  177 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~  177 (368)
                      ....+|.+|+++|. ++++.++++.||++||+|..|+++|.+..|+..++++||+.||.++|+++|.
T Consensus        23 ~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~p~~~   88 (89)
T 1x64_A           23 QRMPLCDKCGSGIV-GAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETHARARTSGPSS   88 (89)
T ss_dssp             CSCCBCTTTCCBCC-SCCEESSSCEECTTTCCCSSSCCCTTTSCCEEETTEEECHHHHHHHSSSCCC
T ss_pred             CcCCCcccCCCEec-ccEEEECCceECccCCEecCCCCCCCCCCeEeECCEEECHHHHHHHhCCCCC
Confidence            46789999999994 6889999999999999999999999988899999999999999999999975

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

Probab=99.51  E-value=7.3e-15  Score=112.71  Aligned_cols=67  Identities=21%  Similarity=0.476  Sum_probs=60.4

Q ss_pred             CCCCccccCCccccc-CceEeecCceecCCCcccCCCCCCCCCceeeccCCccccccccccccccccc
Q 017657          111 EGYRICAGCNNEIGH-GRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCD  177 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~-g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~  177 (368)
                      .+..+|.+|+++|.. +.++.++++.||++||+|..|+++|.+..|+..+|++||+.||.++|+++|.
T Consensus         9 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~~C~   76 (77)
T 1g47_A            9 LASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAPCWI   76 (77)
T ss_dssp             CCCCBCSSSCCBCCSTTTCEEETTEEECTTTCCCTTTCCCCGGGCSEEETTEEECHHHHHHHCCCC--
T ss_pred             CCCCCchhcCCccCCCceEEEeCccEeccccCeECCCCCCCCCCCeEeECCeEeCHHHHHHHhhcccC
Confidence            467899999999974 5678899999999999999999999988899999999999999999999996

>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=6.7e-15  Score=113.90  Aligned_cols=66  Identities=24%  Similarity=0.505  Sum_probs=61.3

Q ss_pred             CCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCccccccccccccccccc
Q 017657          111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCD  177 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~  177 (368)
                      ...++|.+|+++|. +++|.++++.||++||+|..|+++|.+..|+..++++||+.||.++|+|++.
T Consensus        13 ~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~p~g~   78 (79)
T 1x62_A           13 QKLPMCDKCGTGIV-GVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEKHARERVSGPSS   78 (79)
T ss_dssp             CCCCCCSSSCCCCC-SSCEECSSCEECTTTTSCSSSCCCHHHHCCEESSSCEECHHHHHHHHSSCCC
T ss_pred             CCCCccccCCCCcc-CcEEEECcceeCcCcCeeCCCCCCCCCCCeEeECCEEECHHHHHHHhCCCCC
Confidence            45789999999994 6899999999999999999999999988899999999999999999999875

>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=99.49  E-value=1.2e-14  Score=109.62  Aligned_cols=66  Identities=29%  Similarity=0.672  Sum_probs=60.6

Q ss_pred             CCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCccccccccccccccccc
Q 017657          111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCD  177 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~  177 (368)
                      .+..+|.+|+++|. ++++.++++.||++||+|..|+++|.+..|+..++++||+.||.++|.++..
T Consensus         3 ~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~~   68 (70)
T 2d8x_A            3 SGSSGCHQCGEFII-GRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNREKASGPS   68 (70)
T ss_dssp             CCSSBCSSSCCBCC-SCCEEETTEEECTTTSBCSSSCCBCSSSCCEEETTEEECHHHHHHHHCCCSC
T ss_pred             CCCCcCccCCCEec-ceEEEECcccccccCCEeCCCCCcCCCCccEeECCeEECHHHhhhhcCCCCC
Confidence            46789999999994 8899999999999999999999999998999999999999999999988653

>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=99.47  E-value=2.9e-14  Score=110.77  Aligned_cols=71  Identities=24%  Similarity=0.506  Sum_probs=64.0

Q ss_pred             cCCCCCCCccccCCcccccC-ceEeecCceecCCCcccCCCCCCCCCceeeccCCccccccccccccccccc
Q 017657          107 IQFPEGYRICAGCNNEIGHG-RFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCD  177 (368)
Q Consensus       107 ~~~~~~~~~C~~C~~~I~~g-~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~  177 (368)
                      .+.....++|.+|+++|..+ .+|.++++.||++||+|..|+++|.+..|+..++++||+.||.++|+++|.
T Consensus         9 cy~~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~~~   80 (82)
T 1x63_A            9 CTTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKFASGPS   80 (82)
T ss_dssp             CCSCCCSCBCSSSCCBCCSSSCEEECSSCEEETTTCCCSSSCCCCTTSCEEEETTEEEEHHHHHHHTSCCCS
T ss_pred             HHccccCCcCccCCcccccCceEEEECccccccccCchhhCCCccCCCccEeeCCEEECHHHHHHHhCCCCC
Confidence            44556678999999999654 679999999999999999999999988999999999999999999999875

>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=99.46  E-value=5.3e-14  Score=109.74  Aligned_cols=67  Identities=18%  Similarity=0.339  Sum_probs=60.3

Q ss_pred             CCCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceee--ccCCcccccccccccccccc
Q 017657          110 PEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFS--TSENRPYHKSCYREHYHPKC  176 (368)
Q Consensus       110 ~~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~--~~dg~~yC~~cy~~~f~p~C  176 (368)
                      ..+..+|.+|+++|+.++.|.++++.||++||+|..|+++|....|+  ..||++||+.||.++|.+-+
T Consensus        12 ~~~~~~C~~C~~~I~~~e~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~~~   80 (82)
T 2co8_A           12 AGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQTDSGPS   80 (82)
T ss_dssp             CCSSCBCSSSCCBCCTTTBCCBTTBCCBTTTCBCSSSCCBCCTTSEECCTTTCCCEETTTCCCCCCCCC
T ss_pred             CCCCCCCcccCCCcccceEEEECCCeeCCCcCEEcCCCCCcCCCceeEeCcCCEEEChHHHHhhhcCCC
Confidence            34678999999999888899999999999999999999999988887  47999999999999887644

>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=99.46  E-value=3.7e-14  Score=110.25  Aligned_cols=80  Identities=25%  Similarity=0.580  Sum_probs=65.8

Q ss_pred             CCcccccccccccccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccc
Q 017657          159 ENRPYHKSCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLC  238 (368)
Q Consensus       159 dg~~yC~~cy~~~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C  238 (368)
                      +|+|||+.||.++|+++|..|+++|.+. +.++.+.++          .||+.||+|..|++.|. +..|+ ..++++||
T Consensus         1 ~g~~yC~~~y~~~~~~~C~~C~~~I~~~-~~~~~a~~~----------~~H~~CF~C~~C~~~L~-~~~f~-~~~~~~~C   67 (82)
T 2ehe_A            1 GSSGSSGPCYDNTFANTCAECQQLIGHD-SRELFYEDR----------HFHEGCFRCCRCQRSLA-DEPFT-CQDSELLC   67 (82)
T ss_dssp             CCCCCCCCCCCCCCSCBCTTTCCBCCSS-CCBCCCSSC----------CCBTTTSBCTTTCCBCS-SCCEE-EETTEEEE
T ss_pred             CCceechhHhCcccCCcCccCCCccccC-cEEEEeCCc----------cccccCCeecCCCCccC-CCccE-eeCCEEEC
Confidence            5889999999999999999999999942 235655553          57999999999999985 66776 46999999


Q ss_pred             cchhhhhccCCCCCC
Q 017657          239 LECLDSAIMDTNECQ  253 (368)
Q Consensus       239 ~~C~~~~v~~~~~C~  253 (368)
                      ..||.+  ...+.|+
T Consensus        68 ~~c~~~--~~~~~C~   80 (82)
T 2ehe_A           68 NDCYCS--AFSSGPS   80 (82)
T ss_dssp             TTTSSC--CGGGSSC
T ss_pred             HHHHhh--hcCCCCC
Confidence            999987  4566775

>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=3.4e-14  Score=110.11  Aligned_cols=65  Identities=22%  Similarity=0.331  Sum_probs=59.3

Q ss_pred             CCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCccccccccccccccccc
Q 017657          111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCD  177 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~  177 (368)
                      .+.++|.+|+++|. +++|.++++.||++||+|..|+++|.+..| ..+|++||+.||.++|+|++.
T Consensus        13 ~~~~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~f-~~~g~~yC~~cy~~~f~p~~s   77 (79)
T 2cor_A           13 LGKYICQKCHAIID-EQPLIFKNDPYHPDHFNCANCGKELTADAR-ELKGELYCLPCHDKMGVSGPS   77 (79)
T ss_dssp             CCCCBCTTTCCBCC-SCCCCCSSSCCCTTTSBCSSSCCBCCTTCE-EETTEEECHHHHHTTSCCSSC
T ss_pred             cCCCCCccCCCEec-ceEEEECcceeCCCCCEeCCCCCccCCCCE-eECCEEeCHHHHHHhCCCCCC
Confidence            46789999999995 899999999999999999999999998754 889999999999999999764

>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=99.44  E-value=7.5e-14  Score=107.88  Aligned_cols=78  Identities=17%  Similarity=0.465  Sum_probs=66.1

Q ss_pred             CCcccccccccccccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccc
Q 017657          159 ENRPYHKSCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLC  238 (368)
Q Consensus       159 dg~~yC~~cy~~~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C  238 (368)
                      +|++||+.||.++|+++|..|+++|.++   .+.+.++          .||..||+|..|++.| .+..|+ ..++++||
T Consensus         1 gg~~yC~~cy~~~~~~~C~~C~~~I~~~---~v~a~~~----------~~H~~CF~C~~C~~~L-~~~~~~-~~~~~~yC   65 (80)
T 2cuq_A            1 GSSGSSGPCYENKFAPRCARCSKTLTQG---GVTYRDQ----------PWHRECLVCTGCQTPL-AGQQFT-SRDEDPYC   65 (80)
T ss_dssp             CCCCSCCCCCCCCSSCCCTTTCCCCCSC---CEESSSS----------EECTTTCBCSSSCCBC-TTCCEE-ECSSSEEE
T ss_pred             CCcEEcHHHHccccCCcCCCCCCEecCc---EEEECCc----------hhhhhhCCcccCCCcC-CCCeeE-eECCEEEC
Confidence            5889999999999999999999999863   5766654          4699999999999999 456776 47999999


Q ss_pred             cchhhhhccCCCCCC
Q 017657          239 LECLDSAIMDTNECQ  253 (368)
Q Consensus       239 ~~C~~~~v~~~~~C~  253 (368)
                      ..||.+  ++.+.|+
T Consensus        66 ~~cy~~--~f~~~c~   78 (80)
T 2cuq_A           66 VACFGE--LFASGPS   78 (80)
T ss_dssp             HHHHHH--HTTCSTT
T ss_pred             HHHHHH--HcCCCCC
Confidence            999998  4566765

>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=99.44  E-value=4.2e-14  Score=107.90  Aligned_cols=63  Identities=25%  Similarity=0.536  Sum_probs=57.4

Q ss_pred             CCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCC-CceeeccCCcccccccccccccc
Q 017657          111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPIT-DIEFSTSENRPYHKSCYREHYHP  174 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~-~~~f~~~dg~~yC~~cy~~~f~p  174 (368)
                      .+.++|++|+++| .+++|.++++.||++||+|..|+++|. +..|+..++++||+.||.+++..
T Consensus         3 ~~~~~C~~C~~~I-~~~~v~a~~~~wH~~CF~C~~C~~~L~~~~~f~~~~~~~yC~~C~~~~~~~   66 (73)
T 1wig_A            3 SGSSGCDSCEKYI-TGRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWHPACRQAARTE   66 (73)
T ss_dssp             CSCCSCSSSCCCC-SSCCBCCSSCCBCTTTSCCSSSCCCCCSSCCCEEETTEEECTTHHHHTSSS
T ss_pred             cCcCCcccCCCEe-cCeeEEeCCCCCCCCcCEeCCCCCCCCCCCeeEeeCCEEEChHHChHhhcc
Confidence            3568999999999 578999999999999999999999998 78899999999999999887654

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

Probab=99.44  E-value=4.9e-14  Score=106.77  Aligned_cols=67  Identities=27%  Similarity=0.628  Sum_probs=59.2

Q ss_pred             CCCCccccCCccccc-CceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccc
Q 017657          111 EGYRICAGCNNEIGH-GRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDV  178 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~-g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~  178 (368)
                      .+.++|.+|+++|.. +.++.++++.||+.||+|..|+++|.+..|+..++++||+.||.++|. +|..
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~~~-~~~~   70 (72)
T 1x61_A            3 SGSSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVATLE-SGPS   70 (72)
T ss_dssp             SCCCCCSSSCSCCCSSSCCEECSSSEECTTTCBCSSSCCBCTTSCEEESSSCEEEHHHHHHHHH-TCSS
T ss_pred             CCCCCCccCCCccCCCceEEEECCCeEcccCCcccccCCcCCcCcCEeeCCeEECHHHHHHHHc-cCCC
Confidence            357899999999965 468999999999999999999999998889999999999999998873 4543

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

Probab=99.43  E-value=8.3e-14  Score=107.96  Aligned_cols=75  Identities=15%  Similarity=0.334  Sum_probs=63.6

Q ss_pred             CCcccccccccccccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccc
Q 017657          159 ENRPYHKSCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLC  238 (368)
Q Consensus       159 dg~~yC~~cy~~~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C  238 (368)
                      ++.+||+.||.++|+++|..|+++|.+.   .+.+.++          .||+.||+|..|++.|..+..|+...++++||
T Consensus         1 g~~~yC~~~y~~~~~~~C~~C~~~I~~~---~~~a~~~----------~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~~C   67 (81)
T 1x6a_A            1 GSSGSSGKDYWGKFGEFCHGCSLLMTGP---FMVAGEF----------KYHPECFACMSCKVIIEDGDAYALVQHATLYC   67 (81)
T ss_dssp             CCCCCCCCCSSCCSSCBCTTTCCBCCSC---CBCCTTC----------CBCTTSCBCTTTCCBCCTTSCEEECSSSCEEE
T ss_pred             CCCccchhHHhhhcCCcCccCCCCcCce---EEEECCc----------eeccccCCccCCCCccCCCCcEEEeeCCEEEC
Confidence            4679999999999999999999999943   5666654          46999999999999996677776447999999


Q ss_pred             cchhhhhc
Q 017657          239 LECLDSAI  246 (368)
Q Consensus       239 ~~C~~~~v  246 (368)
                      ..||.+++
T Consensus        68 ~~c~~~~~   75 (81)
T 1x6a_A           68 GKCHNEVV   75 (81)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99998854

>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=99.43  E-value=1e-13  Score=107.10  Aligned_cols=79  Identities=15%  Similarity=0.211  Sum_probs=66.3

Q ss_pred             CCcccccccccccccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccc
Q 017657          159 ENRPYHKSCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLC  238 (368)
Q Consensus       159 dg~~yC~~cy~~~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C  238 (368)
                      +|++||+.||.++|+++|..|+++|.++   .+.+.+.          .||..||+|..|++.|.. ..|+ ..++++||
T Consensus         1 gg~~yC~~~y~~~~~~~C~~C~~~I~~~---~v~a~~~----------~~H~~CF~C~~C~~~L~~-~~~~-~~~~~~yC   65 (80)
T 1x3h_A            1 GSSGSSGKDFLAMFSPKCGGCNRPVLEN---YLSAMDT----------VWHPECFVCGDCFTSFST-GSFF-ELDGRPFC   65 (80)
T ss_dssp             CCCCCCCCCCCCCCSCBCTTTCCBCCSS---CEEETTE----------EECTTTCBCSSSCCBSCS-SCCE-ESSSCEEC
T ss_pred             CCCccchhHHhhhcCCccccCCCeecce---eEEECCC----------eEecCcCChhhCCCCCCC-CcEE-eECCEEEC
Confidence            5789999999999999999999999963   5777765          469999999999999954 4576 46999999


Q ss_pred             cchhhhhccCCCCCCc
Q 017657          239 LECLDSAIMDTNECQP  254 (368)
Q Consensus       239 ~~C~~~~v~~~~~C~~  254 (368)
                      ..||.+  .+.++|+.
T Consensus        66 ~~~y~~--~f~~~C~~   79 (80)
T 1x3h_A           66 ELHYHH--RRGSGPSS   79 (80)
T ss_dssp             HHHHHH--HHSSSCCC
T ss_pred             HHHHHH--HcCCCCCC
Confidence            999998  45677753

>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=99.43  E-value=1.3e-13  Score=107.01  Aligned_cols=79  Identities=16%  Similarity=0.299  Sum_probs=66.1

Q ss_pred             CCcccccccccccccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccc
Q 017657          159 ENRPYHKSCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLC  238 (368)
Q Consensus       159 dg~~yC~~cy~~~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C  238 (368)
                      +|++||+.||. ++.++|..|+++|.+   .++.+.++          .||+.||+|..|++.|. +..|+...+|++||
T Consensus         2 ~g~~yC~~~y~-~~~~~C~~C~~~I~~---~~~~a~~~----------~~H~~CF~C~~C~~~L~-~~~f~~~~~g~~yC   66 (81)
T 2dlo_A            2 SSGSSGEGCYV-ATLEKCATCSQPILD---RILRAMGK----------AYHPGCFTCVVCHRGLD-GIPFTVDATSQIHC   66 (81)
T ss_dssp             CCCCCCCCCCC-SSCCBCTTTCCBCCS---CCEEETTE----------EECTTTCBCSSSCCBCT-TSCEECCTTCCCEE
T ss_pred             cCCEECHHHhh-cCCCccccCCCeecc---eeEEECCc----------cccHHhcCcccCCCccC-CCeeEECCCCEEEC
Confidence            68999999999 799999999999985   36777765          46999999999999984 66776434789999


Q ss_pred             cchhhhhccCCCCCCc
Q 017657          239 LECLDSAIMDTNECQP  254 (368)
Q Consensus       239 ~~C~~~~v~~~~~C~~  254 (368)
                      ..||.+  .+.++|+.
T Consensus        67 ~~cy~~--~f~~~C~~   80 (81)
T 2dlo_A           67 IEDFHR--KFASGPSS   80 (81)
T ss_dssp             HHHHHH--HTTSSSCC
T ss_pred             HHHHHH--HhcCcCCC
Confidence            999988  46778863

>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=99.42  E-value=1.1e-13  Score=124.56  Aligned_cols=73  Identities=21%  Similarity=0.472  Sum_probs=68.7

Q ss_pred             CCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccccccccccccCcccc
Q 017657          112 GYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIP  184 (368)
Q Consensus       112 ~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~I~  184 (368)
                      +.++|.+|+++|..++.|.++++.||++||+|..|+++|....|+..+|++||+.||.++|+++|.+|++++.
T Consensus       114 ~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~f~~kc~~C~~~~g  186 (192)
T 1b8t_A          114 GSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKGFGFGQGAG  186 (192)
T ss_dssp             CCEECTTTSCEECSSSCEEETTEEECTTTCBCTTTCCBCCSSSEEEETTEEEEHHHHHHHTCCCCCCCCCCCC
T ss_pred             CCCcCCCCCCEecCcEEEecCCCccchhcCCccccCCCCCCCcccccCCEEeCHHHHHHhcCCcCCCCCCccc
Confidence            4678999999997788999999999999999999999998888999999999999999999999999999864

>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=99.42  E-value=9.4e-14  Score=106.55  Aligned_cols=74  Identities=20%  Similarity=0.462  Sum_probs=62.0

Q ss_pred             CCcccccccccccccccccccCccccCC--CCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcc
Q 017657          159 ENRPYHKSCYREHYHPKCDVCKHFIPSN--HGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRK  236 (368)
Q Consensus       159 dg~~yC~~cy~~~f~p~C~~C~~~I~~~--~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~  236 (368)
                      ++++||+.||.++|+++|..|+++|.+.  .+..+.+.++          +||..||+|..|++.|. +..|+ ..+|++
T Consensus         1 g~~~yC~~cy~~~~~~~C~~C~~~I~~~g~~~~~~~a~~~----------~~H~~CF~C~~C~~~L~-~~~f~-~~~~~~   68 (77)
T 2egq_A            1 GSSGSSGDCYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQ----------SWHDYCFHCKKCSVNLA-NKRFV-FHQEQV   68 (77)
T ss_dssp             CCSSCCTTCCCSCCCCCCSSSCCCCCCCSSCCCEEEETTE----------EEETTTCBCSSSCCBCT-TSCCC-EETTEE
T ss_pred             CCCeEchhHhchhhCccCcccCCcccCCCCCceeEEECcc----------eeCcccCEehhcCCCCC-CCccE-eECCEE
Confidence            4789999999999999999999999961  1246777764          46999999999999985 56676 469999


Q ss_pred             cccchhhh
Q 017657          237 LCLECLDS  244 (368)
Q Consensus       237 ~C~~C~~~  244 (368)
                      ||..||.+
T Consensus        69 yC~~cy~~   76 (77)
T 2egq_A           69 YCPDCAKK   76 (77)
T ss_dssp             CCHHHHHH
T ss_pred             EChHHhcc
Confidence            99999975

>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=99.40  E-value=1.2e-13  Score=107.08  Aligned_cols=71  Identities=24%  Similarity=0.484  Sum_probs=62.3

Q ss_pred             cCCCCCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCC-ceee-ccCCcccccccccccccccccc
Q 017657          107 IQFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITD-IEFS-TSENRPYHKSCYREHYHPKCDV  178 (368)
Q Consensus       107 ~~~~~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~-~~f~-~~dg~~yC~~cy~~~f~p~C~~  178 (368)
                      .+.....++|++|+++|. +++|.++++.||++||+|..|+++|.. ..|. ..++++||+.||.++|++.|.+
T Consensus         9 ~y~~~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~~C~~c~~~~~~~~~sg   81 (81)
T 1x6a_A            9 DYWGKFGEFCHGCSLLMT-GPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVVSGPSSG   81 (81)
T ss_dssp             CSSCCSSCBCTTTCCBCC-SCCBCCTTCCBCTTSCBCTTTCCBCCTTSCEEECSSSCEEEHHHHHHHHCTTSCC
T ss_pred             HHhhhcCCcCccCCCCcC-ceEEEECCceeccccCCccCCCCccCCCCcEEEeeCCEEECHHHHHHHhcCCCCC
Confidence            445567889999999995 899999999999999999999999974 6677 5899999999999999988753

>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=99.38  E-value=1.9e-13  Score=102.96  Aligned_cols=63  Identities=21%  Similarity=0.517  Sum_probs=56.9

Q ss_pred             CCCCccccCCcccccCc-eEeecCceecCCCcccCCCCCCCCCceeeccCCccccccccccccc
Q 017657          111 EGYRICAGCNNEIGHGR-FLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYREHYH  173 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~-~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~  173 (368)
                      ....+|.+|+++|..++ ++.++++.||+.||+|..|+++|....|+..+|++||+.||.++|+
T Consensus         9 ~~~~~C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~lf~   72 (72)
T 3f6q_B            9 SASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA   72 (72)
T ss_dssp             CTTCBCTTTCCBCCTTCEEEEETTEEEETTTSSCTTTCCCCGGGCCEEETTEEECHHHHHHHTC
T ss_pred             cCCccchhcCccccCCceEEEeCcCeeCcCCCcccCCCCCCCCCCeEeECCeEeCHHHHHHhhC
Confidence            46789999999997555 5689999999999999999999998899999999999999998874

>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=99.36  E-value=3.2e-13  Score=103.56  Aligned_cols=64  Identities=23%  Similarity=0.522  Sum_probs=57.3

Q ss_pred             cCCCCCCCccccCCccccc----CceEeecCceecCCCcccCCCCCCCCCceeeccCCcccccccccc
Q 017657          107 IQFPEGYRICAGCNNEIGH----GRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENRPYHKSCYRE  170 (368)
Q Consensus       107 ~~~~~~~~~C~~C~~~I~~----g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~~yC~~cy~~  170 (368)
                      .+.....++|++|+++|..    .+++.++++.||+.||+|..|+++|.+..|+..++++||+.||.+
T Consensus         9 cy~~~~~~~C~~C~~~I~~~g~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~~~yC~~cy~~   76 (77)
T 2egq_A            9 CYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYCPDCAKK   76 (77)
T ss_dssp             CCCSCCCCCCSSSCCCCCCCSSCCCEEEETTEEEETTTCBCSSSCCBCTTSCCCEETTEECCHHHHHH
T ss_pred             HhchhhCccCcccCCcccCCCCCceeEEECcceeCcccCEehhcCCCCCCCccEeECCEEEChHHhcc
Confidence            4455677999999999962    388999999999999999999999999899999999999999965

>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=99.36  E-value=4.6e-13  Score=103.89  Aligned_cols=80  Identities=16%  Similarity=0.354  Sum_probs=64.5

Q ss_pred             CCcccccccccccccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccc
Q 017657          159 ENRPYHKSCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLC  238 (368)
Q Consensus       159 dg~~yC~~cy~~~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C  238 (368)
                      ++.+||+.||.++|.++|..|+++|...+ .++.+.++          .||+.||+|..|++.|.. ..|+ ..++++||
T Consensus         1 ~~~~yC~~cy~~~~~~~C~~C~~~I~~~~-~~~~a~~~----------~~H~~CF~C~~C~~~L~~-~~~~-~~~~~~yC   67 (82)
T 1x63_A            1 GSSGSSGKCTTREDSPKCKGCFKAIVAGD-QNVEYKGT----------VWHKDCFTCSNCKQVIGT-GSFF-PKGEDFYC   67 (82)
T ss_dssp             CCSCCCCCCCSCCCSCBCSSSCCBCCSSS-CEEECSSC----------EEETTTCCCSSSCCCCTT-SCEE-EETTEEEE
T ss_pred             CCCcCchhHHccccCCcCccCCcccccCc-eEEEECcc----------ccccccCchhhCCCccCC-CccE-eeCCEEEC
Confidence            46899999999999999999999998532 35666654          469999999999999854 4676 46999999


Q ss_pred             cchhhhhccCCCCCC
Q 017657          239 LECLDSAIMDTNECQ  253 (368)
Q Consensus       239 ~~C~~~~v~~~~~C~  253 (368)
                      ..||.++  ..++|.
T Consensus        68 ~~cy~~~--f~~~~~   80 (82)
T 1x63_A           68 VTCHETK--FASGPS   80 (82)
T ss_dssp             HHHHHHH--TSCCCS
T ss_pred             HHHHHHH--hCCCCC
Confidence            9999884  445543

>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=99.36  E-value=3.2e-13  Score=113.47  Aligned_cols=63  Identities=22%  Similarity=0.594  Sum_probs=56.8

Q ss_pred             CCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCC--CceeeccCCccccccccccccc
Q 017657          111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPIT--DIEFSTSENRPYHKSCYREHYH  173 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~--~~~f~~~dg~~yC~~cy~~~f~  173 (368)
                      ...++|++|+++|....++.++++.||+.||+|..|+++|.  +..|+.++|++||+.||.++|+
T Consensus        59 ~~~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~~g~~f~~~dg~~yC~~cy~~~Fg  123 (123)
T 2l4z_A           59 LSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG  123 (123)
T ss_dssp             SSCSBBSSSSSBCCSSSEEEETTEEEETTTSBCTTTCCBGGGTTCCCBCSSSCCBCHHHHHHHCC
T ss_pred             ccCCcCcCCCCCcCCcEEEEeCCcEEcccccCcCcCCCcccccCCceEEECCEEeCHHHhhhhcC
Confidence            45789999999997556799999999999999999999997  4689999999999999998874

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

Probab=99.34  E-value=3.1e-13  Score=100.62  Aligned_cols=59  Identities=25%  Similarity=0.635  Sum_probs=54.3

Q ss_pred             CCccccCCccccc-CceEeecCceec--CCCcccCCCCCCCCCceeeccCCcccc-ccccccc
Q 017657          113 YRICAGCNNEIGH-GRFLNCLDVFWH--PECFCCHACHQPITDIEFSTSENRPYH-KSCYREH  171 (368)
Q Consensus       113 ~~~C~~C~~~I~~-g~~v~a~g~~wH--~~CF~C~~C~~~L~~~~f~~~dg~~yC-~~cy~~~  171 (368)
                      .+.|++|+++|.. ++.|.++++.||  ++||+|..|+++|.+..|+..+|++|| ++||.++
T Consensus         2 a~~C~~C~~~I~~~~~~v~a~~~~wH~~~~CF~C~~C~~~L~~~~f~~~~g~~yC~~~C~~k~   64 (65)
T 2iyb_E            2 AVVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKRM   64 (65)
T ss_dssp             CEECTTTSSEECTTSCEEEETTEEEETTTTTSBCTTTCCBCTTSCCEEETTEEESSHHHHHTT
T ss_pred             cCCCcCCCCeeccCceEEEECCCccCCCCCCEECCCCCCcCCCCceEEECCEEecCHHHhhhh
Confidence            4689999999976 589999999999  999999999999999999999999999 8998764

>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=99.28  E-value=3.3e-12  Score=98.95  Aligned_cols=73  Identities=16%  Similarity=0.341  Sum_probs=60.2

Q ss_pred             CcccccccccccccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCccccc
Q 017657          160 NRPYHKSCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCL  239 (368)
Q Consensus       160 g~~yC~~cy~~~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~  239 (368)
                      +.+||+.||.++|+++|..|+++|.+   .++.+.++          .||+.||+|..|++.|..+..| ...++.+||.
T Consensus         2 ~~~yC~~dy~~~~~~~C~~C~~~I~~---~~v~a~~~----------~wH~~CF~C~~C~~~L~~~~~~-~~~~~~~~C~   67 (81)
T 1v6g_A            2 SSGSSGLDYQRLYGTRCFSCDQFIEG---EVVSALGK----------TYHPDCFVCAVCRLPFPPGDRV-TFNGKECMCQ   67 (81)
T ss_dssp             CCCCCCSCGGGSCCCBCTTTCCBCCS---CCEEETTE----------EECTTTSSCSSSCCCCCSSSCE-EEETTEEEEH
T ss_pred             CCCcchHHHHhHhCCcCccccCEecc---ceEEECCc----------eeCccCCccccCCCCCCCCCEE-EeCCCCEECh
Confidence            56899999999999999999999995   36888765          4699999999999998655555 4555567999


Q ss_pred             chhhhhc
Q 017657          240 ECLDSAI  246 (368)
Q Consensus       240 ~C~~~~v  246 (368)
                      .|+.++.
T Consensus        68 ~C~~~~~   74 (81)
T 1v6g_A           68 KCSLPVS   74 (81)
T ss_dssp             HHHSCCS
T ss_pred             hhhcccC
Confidence            9998753

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

Probab=99.23  E-value=1.1e-12  Score=109.85  Aligned_cols=111  Identities=19%  Similarity=0.241  Sum_probs=83.0

Q ss_pred             cccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccCCC
Q 017657          171 HYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTN  250 (368)
Q Consensus       171 ~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~  250 (368)
                      +|.++|..|+++|.+.  .++.+.++.          ||+.||+|..|++.|. +..|+ ..||++||..||.+  ...+
T Consensus         1 ~~~~~C~~C~~~I~~~--~~~~a~~~~----------~H~~CF~C~~C~~~L~-~~~f~-~~~g~~yC~~cy~~--~~~~   64 (126)
T 2xqn_T            1 SEKPRCAGCDELIFSN--EYTQAENQN----------WHLKHFCCFDCDSILA-GEIYV-MVNDKPVCKPCYVK--NHAV   64 (126)
T ss_dssp             -CCCBBTTTSSBCCSS--CEEEETTEE----------ECGGGSBCTTTCCBCT-TSEEE-EETTEEEEHHHHHH--HSCC
T ss_pred             CcCCCCccCCCEeCCc--eEEeeCCCC----------ccCCCCCcCCCCCCCC-cCEEE-eECCEEechHHhCc--CcCc
Confidence            3678999999999953  267777654          6999999999999984 66776 47999999999998  5789


Q ss_pred             CCCcchHhHHHHHHHhccccccccchhhHhHHHHHhhhc--CCC---------CCCCCCcccCCcccccceee
Q 017657          251 ECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARD--GEK---------NGYYHMPETRGLCLSEEQTV  312 (368)
Q Consensus       251 ~C~~c~~~I~~f~e~~~~~i~~~~p~~lv~~~aLn~~~~--~e~---------~g~~~~~~~~G~~~~E~~~~  312 (368)
                      .|..|.++|..         +.+.      +.|+++.||  .+.         .....+.+.+|..||+.++.
T Consensus        65 ~C~~C~~~I~~---------~~~~------~~a~~~~~H~~~~CF~C~~C~~~l~~~~f~~~~~~~yC~~~~~  122 (126)
T 2xqn_T           65 VCQGCHNAIDP---------EVQR------VTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECK  122 (126)
T ss_dssp             BCTTTCSBCCT---------TSCE------EEETTEEEESSTTTSBCTTTCCBCTTSEEEEETTEEESSHHHH
T ss_pred             cCcccCCcCCc---------CceE------EECCCCEeeCCCCCcCcCCCCCccCCCeeEeECCEEcchHHhh
Confidence            99999954431         0222      468899998  541         22234557789999987764

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

Probab=99.21  E-value=9e-12  Score=111.11  Aligned_cols=122  Identities=12%  Similarity=0.132  Sum_probs=88.5

Q ss_pred             CCccccccccc---ccccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCc
Q 017657          159 ENRPYHKSCYR---EHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGR  235 (368)
Q Consensus       159 dg~~yC~~cy~---~~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~  235 (368)
                      ++..||..++.   ....++|..|+++|.+.  .++.+.++          .||+.||+|..|++.|. +..|.  .+|+
T Consensus        43 ~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~--~~~~a~~~----------~wH~~CF~C~~C~~~L~-~~~f~--~~g~  107 (182)
T 2jtn_A           43 DDEGGSGGHMGSGGTPEIPMCAGCDQHILDR--FILKALDR----------HWHSKCLKCSDCHVPLA-ERCFS--RGES  107 (182)
T ss_dssp             SSSCSSSSSCCCCCCCSCCBCBTSSSBCCCS--EEEEETTE----------EECSSTTSCTTTCCCCS-SCCEE--ETTE
T ss_pred             ccccccccccccCCCCCCCcCccCCCCccCc--eeEEecCC----------eEccccCccCCCCCccC-CCcee--ECCE
Confidence            45668887765   55578999999999963  25667664          46999999999999985 44453  6999


Q ss_pred             ccccchhhhhccCCCCCCcchHhHHHHHHHhccccccccchhhHhHHHHHhhhcCCC---------C--CCCCCcccCCc
Q 017657          236 KLCLECLDSAIMDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGEK---------N--GYYHMPETRGL  304 (368)
Q Consensus       236 ~~C~~C~~~~v~~~~~C~~c~~~I~~f~e~~~~~i~~~~p~~lv~~~aLn~~~~~e~---------~--g~~~~~~~~G~  304 (368)
                      +||..||.+  .+.+.|..|.+.|           ...--+    ..|+++.||.+.         .  |...+...+|.
T Consensus       108 ~yC~~~y~~--~f~~kC~~C~~~I-----------~~~~~v----~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~  170 (182)
T 2jtn_A          108 VYCKDDFFK--RFGTKCAACQLGI-----------PPTQVV----RRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSR  170 (182)
T ss_dssp             EECHHHHHH--TTSCCCTTTCCCC-----------CSSCCC----CEETTEECCTTTCCCTTTCCCCCTTCEEEECTTSC
T ss_pred             eeecCcccc--ccccccccCCCcc-----------CCCceE----EecCCCCEEeCCCcCCCCCCCCCCCCceEEccCCE
Confidence            999999998  5789999999544           321100    358889998752         1  33234466889


Q ss_pred             ccccceee
Q 017657          305 CLSEEQTV  312 (368)
Q Consensus       305 ~~~E~~~~  312 (368)
                      .||+.+|.
T Consensus       171 ~yC~~cy~  178 (182)
T 2jtn_A          171 LVCKADYE  178 (182)
T ss_dssp             EECHHHHH
T ss_pred             EECHHHHH
Confidence            99988774

>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=99.19  E-value=8.5e-12  Score=96.61  Aligned_cols=65  Identities=22%  Similarity=0.397  Sum_probs=54.4

Q ss_pred             cCCCCCCCccccCCcccccCceEeecCceecCCCcccCCCCCCCCCceeeccCCc-ccccccccccc
Q 017657          107 IQFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECFCCHACHQPITDIEFSTSENR-PYHKSCYREHY  172 (368)
Q Consensus       107 ~~~~~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF~C~~C~~~L~~~~f~~~dg~-~yC~~cy~~~f  172 (368)
                      .|.....++|++|+++|. +++|.++++.||++||+|..|+++|....|+..++. +||+.||.+++
T Consensus         9 dy~~~~~~~C~~C~~~I~-~~~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~~~~C~~C~~~~~   74 (81)
T 1v6g_A            9 DYQRLYGTRCFSCDQFIE-GEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCSLPVS   74 (81)
T ss_dssp             CGGGSCCCBCTTTCCBCC-SCCEEETTEEECTTTSSCSSSCCCCCSSSCEEEETTEEEEHHHHSCCS
T ss_pred             HHHhHhCCcCccccCEec-cceEEECCceeCccCCccccCCCCCCCCCEEEeCCCCEEChhhhcccC
Confidence            344556789999999995 889999999999999999999999986666665665 69999997754

>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=99.10  E-value=1.4e-11  Score=102.99  Aligned_cols=109  Identities=12%  Similarity=0.029  Sum_probs=79.0

Q ss_pred             cccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCC-CCCceEEccCCcccccchhhhhccCC
Q 017657          171 HYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEP-QDTAYVALDDGRKLCLECLDSAIMDT  249 (368)
Q Consensus       171 ~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~-~~~~f~~~~dg~~~C~~C~~~~v~~~  249 (368)
                      ++.++|..|+++|.+..  ++.+.++          .||+.||+|..|++.|. .+..|+ ..+|++||..||.++....
T Consensus         3 ~~~~~C~~C~~~I~~~~--~~~a~~~----------~wH~~CF~C~~C~~~L~~~~~~~~-~~~g~~yC~~cy~~~f~~~   69 (122)
T 1m3v_A            3 LSWKRCAGCGGKIADRF--LLYAMDS----------YWHSRCLKCSSCQAQLGDIGTSSY-TKSGMILCRNDYIRLFGNS   69 (122)
T ss_dssp             SCCCCBSSSSSCCCSSC--CEEETTE----------EECHHHHCCSSSCCCTTTSEECCE-EETTEEECHHHHHHHHCCC
T ss_pred             CCCCCCcccCCEeCCcE--EEEECCc----------eeHhhCCCcCCCCCcccccCCeEE-EECCeeecHHHHHHHcCCC
Confidence            56789999999999642  5777764          46999999999999985 245677 5699999999999954333


Q ss_pred             CCCCcchHhHHHHHHHhccccccccchhhHhHHHHHhhhcCCCCCCCCCcccCCcccccceeee
Q 017657          250 NECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGEKNGYYHMPETRGLCLSEEQTVT  313 (368)
Q Consensus       250 ~~C~~c~~~I~~f~e~~~~~i~~~~p~~lv~~~aLn~~~~~e~~g~~~~~~~~G~~~~E~~~~~  313 (368)
                      ..|+.|.++|.           ...      +.++++    .......|...+|..||..|+..
T Consensus        70 ~~C~~C~~~I~-----------~~~------~~~~g~----~~l~g~~f~~~~~~~yC~~~~~~  112 (122)
T 1m3v_A           70 GAGGSGGHMGS-----------GGD------VMVVGE----PTLMGGEFGDEDERLITRLENTQ  112 (122)
T ss_dssp             CSSSCSSCCSC-----------CEE------SSSSSS----SSCCSCTTCCTTCCCCEECTTTT
T ss_pred             CccccCCCCcC-----------chh------eEEcCC----cCCCCCccEecCCEeEccCcchh
Confidence            39999996554           211      112222    22334467799999999988753

>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=99.05  E-value=5.5e-11  Score=95.60  Aligned_cols=91  Identities=20%  Similarity=0.391  Sum_probs=69.7

Q ss_pred             cccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccCCC
Q 017657          171 HYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTN  250 (368)
Q Consensus       171 ~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~  250 (368)
                      ++.++|..|+++|... +.++.+.++          .||..||+|..|++.| .+..|+ ..+|++||..||.+  ...+
T Consensus         3 ~~~~~C~~C~~~I~~~-~~~~~a~~~----------~~H~~CF~C~~C~~~L-~~~~~~-~~~g~~yC~~cy~~--~~~~   67 (101)
T 2cup_A            3 SGSSGCVECRKPIGAD-SKEVHYKNR----------FWHDTCFRCAKCLHPL-ANETFV-AKDNKILCNKCTTR--EDSP   67 (101)
T ss_dssp             SCCCBCSSSCCBCCSS-SCEEEETTE----------EEETTTCCCSSSCCCT-TSSCCE-EETTEEECHHHHTT--CCCC
T ss_pred             CCCCcCcccCCcccCC-ceEEEECcc----------ChhhcCCcccccCCCC-CcCeeE-CcCCEEEChhHhhh--hcCC
Confidence            5678999999999742 236777764          4699999999999999 466676 46999999999998  5789


Q ss_pred             CCCcchHhHHHHHHHhccccccccchhhHhHHHHHhhhcCC
Q 017657          251 ECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGE  291 (368)
Q Consensus       251 ~C~~c~~~I~~f~e~~~~~i~~~~p~~lv~~~aLn~~~~~e  291 (368)
                      +|..|.++|..         .+++      +.|+++.||.+
T Consensus        68 ~C~~C~~~I~~---------~~~~------~~a~~~~~H~~   93 (101)
T 2cup_A           68 KCKGCFKAIVA---------GDQN------VEYKGTVWHKD   93 (101)
T ss_dssp             BCSSSCCBCCS---------SSCE------EESSSCEEETT
T ss_pred             ccccCCCcccc---------CCeE------EEeCCcchHHh
Confidence            99999954420         0233      46788888765

>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=99.02  E-value=1.7e-10  Score=88.17  Aligned_cols=72  Identities=18%  Similarity=0.355  Sum_probs=58.7

Q ss_pred             ccccccccccCccccCC-CCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccC
Q 017657          170 EHYHPKCDVCKHFIPSN-HGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMD  248 (368)
Q Consensus       170 ~~f~p~C~~C~~~I~~~-~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~  248 (368)
                      ++|.++|..|+++|.+. ++.++.+.++          .||+.||+|..|++.|. +..|+ ..+|++||..||.+  .+
T Consensus         2 ~~~~~~C~~C~~~I~~~g~~~~~~a~~~----------~wH~~CF~C~~C~~~L~-~~~f~-~~~g~~yC~~cy~~--~f   67 (76)
T 1x68_A            2 SSGSSGCVACSKPISGLTGAKFICFQDS----------QWHSECFNCGKCSVSLV-GKGFL-TQNKEIFCQKCGSG--MD   67 (76)
T ss_dssp             TTCCCCCTTTCCCCCTTTTCCEEEETTE----------EEEGGGCBCTTTCCBCS-SSCEE-EETTEEEETTTTCC--CC
T ss_pred             CccCCCCccCCCcccCCCCceeEEECCc----------ccCcccCChhhCCCcCC-CCceE-eECCEEECHHHhhh--hh
Confidence            46899999999999961 1246777764          46999999999999984 66777 46999999999998  67


Q ss_pred             CCCCCcc
Q 017657          249 TNECQPL  255 (368)
Q Consensus       249 ~~~C~~c  255 (368)
                      .+.|+++
T Consensus        68 ~~~C~~~   74 (76)
T 1x68_A           68 TDISGPS   74 (76)
T ss_dssp             CCSSSSS
T ss_pred             CCcCCCC
Confidence            8899875

>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=99.00  E-value=1.6e-10  Score=103.55  Aligned_cols=67  Identities=13%  Similarity=0.305  Sum_probs=54.2

Q ss_pred             ccccCCcccccC-ceEeecCceecCCCcccCCCCCCCC-CceeeccCCcccccccccccccccccccCc
Q 017657          115 ICAGCNNEIGHG-RFLNCLDVFWHPECFCCHACHQPIT-DIEFSTSENRPYHKSCYREHYHPKCDVCKH  181 (368)
Q Consensus       115 ~C~~C~~~I~~g-~~v~a~g~~wH~~CF~C~~C~~~L~-~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~  181 (368)
                      +|.+|+++|... .++.++++.||+.||+|..|+++|. +..|+..++++||+.||.+++.++|...+.
T Consensus        71 ~C~~C~~~I~~~e~~i~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~g~~yC~~c~~~~~~~~~~~~g~  139 (188)
T 1rut_X           71 ACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALINGHLNSGG  139 (188)
T ss_dssp             ECTTTCCEECTTSEEEEETTEEECGGGCBCTTTCCBCCTTCEEEEETTEEEEGGGCCTTTC--------
T ss_pred             ccccCCCccccCcEEEEcCCCEEeCCCCeECCCCCCCCCCCeEEEECCeEECHHHHHHHhcccccccCC
Confidence            799999999654 4788999999999999999999995 567999999999999999999999987765

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

Probab=98.98  E-value=1.2e-10  Score=97.93  Aligned_cols=61  Identities=21%  Similarity=0.398  Sum_probs=54.6

Q ss_pred             ccccCCcccccC-ceEeecCceecCCCcccCCCCCCCC-CceeeccCCccccccccccccccc
Q 017657          115 ICAGCNNEIGHG-RFLNCLDVFWHPECFCCHACHQPIT-DIEFSTSENRPYHKSCYREHYHPK  175 (368)
Q Consensus       115 ~C~~C~~~I~~g-~~v~a~g~~wH~~CF~C~~C~~~L~-~~~f~~~dg~~yC~~cy~~~f~p~  175 (368)
                      +|.+|+++|... .++.++++.||++||+|..|+++|. +..|+..++++||+.||.++|+++
T Consensus        68 ~C~~C~~~I~~~e~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~C~~c~~~~~~~~  130 (131)
T 2xjy_A           68 LCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIYEWTKIN  130 (131)
T ss_dssp             ECTTTCCEECTTSEEEEETTEEEEGGGCBCTTTCCBCCTTCEEEEETTEEEEGGGHHHHHHHH
T ss_pred             ChhhcCCccCccceeEeeCCceECccCcccCCCCCCCCCCCEEEEECCEEEcHHHHHHHhhcc
Confidence            899999999643 5789999999999999999999994 677999999999999999887653

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

Probab=98.97  E-value=5.9e-10  Score=87.99  Aligned_cols=76  Identities=14%  Similarity=0.280  Sum_probs=60.6

Q ss_pred             cccccccccccccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccc
Q 017657          161 RPYHKSCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLE  240 (368)
Q Consensus       161 ~~yC~~cy~~~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~  240 (368)
                      ...+...+...+.++|..|+++|.+   ..+.+.++          .||+.||+|..|++.|. +..|+ ..+|++||..
T Consensus        13 ~~~~~~~~~~~~~~~C~~C~~~I~~---~~v~a~~~----------~~H~~CF~C~~C~~~L~-~~~f~-~~~g~~yC~~   77 (90)
T 2dar_A           13 VQRAEHIPAGKRTPMCAHCNQVIRG---PFLVALGK----------SWHPEEFNCAHCKNTMA-YIGFV-EEKGALYCEL   77 (90)
T ss_dssp             CBCCEEECTTTCCCBBSSSCCBCCS---CEEEETTE----------EECTTTCBCSSSCCBCS-SSCBE-ESSSCEECHH
T ss_pred             hhhcccCCCCCCCCCCccCCCEecc---eEEEECCc----------cccccCCccCCCCCCCC-CCEeE-eECCEEECHH
Confidence            3445555677889999999999974   36777765          46999999999999995 56676 5799999999


Q ss_pred             hhhhhccCCCCCC
Q 017657          241 CLDSAIMDTNECQ  253 (368)
Q Consensus       241 C~~~~v~~~~~C~  253 (368)
                      ||.+  .+.++|+
T Consensus        78 cy~~--~f~~~c~   88 (90)
T 2dar_A           78 CYEK--FFASGPS   88 (90)
T ss_dssp             HHHH--HTSCCCC
T ss_pred             HHHH--HcCCCCC
Confidence            9998  4667775

>1wig_A KIAA1808 protein; LIM domain, zinc finger, metal-binding protein, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=98.96  E-value=3.8e-10  Score=85.78  Aligned_cols=63  Identities=21%  Similarity=0.424  Sum_probs=52.0

Q ss_pred             ccccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhc
Q 017657          170 EHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAI  246 (368)
Q Consensus       170 ~~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v  246 (368)
                      .+|+++|..|+++|.+.   +|.+.+          .+||+.||+|..|++.|..+..|+ ..++++||..|+.++.
T Consensus         2 s~~~~~C~~C~~~I~~~---~v~a~~----------~~wH~~CF~C~~C~~~L~~~~~f~-~~~~~~yC~~C~~~~~   64 (73)
T 1wig_A            2 SSGSSGCDSCEKYITGR---VLEAGE----------KHYHPSCALCVRCGQMFAEGEEMY-LQGSSIWHPACRQAAR   64 (73)
T ss_dssp             CCSCCSCSSSCCCCSSC---CBCCSS----------CCBCTTTSCCSSSCCCCCSSCCCE-EETTEEECTTHHHHTS
T ss_pred             CcCcCCcccCCCEecCe---eEEeCC----------CCCCCCcCEeCCCCCCCCCCCeeE-eeCCEEEChHHChHhh
Confidence            36789999999999963   566665          357999999999999996577777 5699999999998753

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

Probab=98.93  E-value=7.4e-10  Score=82.86  Aligned_cols=66  Identities=17%  Similarity=0.397  Sum_probs=54.0

Q ss_pred             cccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccCCC
Q 017657          171 HYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTN  250 (368)
Q Consensus       171 ~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~  250 (368)
                      ++.++|..|+++|.++   .+.+.++          .||..||+|..|++.|. +..|+ ..++++||..||.+  .+.+
T Consensus         3 ~~~~~C~~C~~~I~~~---~~~a~~~----------~~H~~CF~C~~C~~~L~-~~~~~-~~~~~~yC~~cy~~--~f~~   65 (69)
T 2cur_A            3 SGSSGCVKCNKAITSG---GITYQDQ----------PWHADCFVCVTCSKKLA-GQRFT-AVEDQYYCVDCYKN--FVSG   65 (69)
T ss_dssp             CCCCCCSSSCCCCCTT---CEEETTE----------EECTTTTBCTTTCCBCT-TSCEE-ECSSCEEEHHHHHH--HHTC
T ss_pred             CCcCCCcccCCEeCcc---eEEECcc----------ccccCcCEECCCCCCCC-CCccE-eECCEEECHHHhHH--HhcC
Confidence            5678999999999853   5777764          46999999999999984 66776 56999999999998  4566


Q ss_pred             CCC
Q 017657          251 ECQ  253 (368)
Q Consensus       251 ~C~  253 (368)
                      .|.
T Consensus        66 ~C~   68 (69)
T 2cur_A           66 PSS   68 (69)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            775

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

Probab=98.93  E-value=7.6e-10  Score=83.32  Aligned_cols=69  Identities=17%  Similarity=0.437  Sum_probs=55.3

Q ss_pred             ccccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccCC
Q 017657          170 EHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDT  249 (368)
Q Consensus       170 ~~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~  249 (368)
                      ++|+++|..|+++|.+.+ .++.+.++          .||..||+|..|++.|. +..|+ ..+|++||..||.+  .+.
T Consensus         2 ~~~~~~C~~C~~~I~~~~-~~~~a~~~----------~~H~~CF~C~~C~~~L~-~~~~~-~~~~~~yC~~cy~~--~f~   66 (72)
T 1x4k_A            2 SSGSSGCQECKKTIMPGT-RKMEYKGS----------SWHETCFICHRCQQPIG-TKSFI-PKDNQNFCVPCYEK--QHA   66 (72)
T ss_dssp             CSCCCCBSSSCCCCCSSS-CEEEETTE----------EEETTTTCCSSSCCCCC-SSSEE-EETTEEEEHHHHHH--HTS
T ss_pred             CccCCCCccCCCcccCCc-eEEEECcC----------eecccCCcccccCCccC-CCccC-ccCCeEECHHHHhH--HhC
Confidence            468899999999999632 36777764          46999999999999985 44676 46999999999998  466


Q ss_pred             CCCC
Q 017657          250 NECQ  253 (368)
Q Consensus       250 ~~C~  253 (368)
                      +.|+
T Consensus        67 ~~C~   70 (72)
T 1x4k_A           67 SGPS   70 (72)
T ss_dssp             SCCC
T ss_pred             CCCC
Confidence            7775

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

Probab=98.91  E-value=7.5e-10  Score=82.97  Aligned_cols=67  Identities=19%  Similarity=0.391  Sum_probs=54.1

Q ss_pred             ccccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccCC
Q 017657          170 EHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDT  249 (368)
Q Consensus       170 ~~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~  249 (368)
                      +++.++|..|+++|.++   .+.+.++          .||+.||+|..|++.| .+..|+ ..++++||..||.+  ...
T Consensus         2 ~~~~~~C~~C~~~I~~~---~~~a~~~----------~~H~~CF~C~~C~~~L-~~~~~~-~~~~~~yC~~cy~~--~f~   64 (70)
T 2d8z_A            2 SSGSSGCVQCKKPITTG---GVTYREQ----------PWHKECFVCTACRKQL-SGQRFT-ARDDFAYCLNCFCD--LYA   64 (70)
T ss_dssp             CCCCCBCSSSCCBCCSS---EEESSSS----------EEETTTSBCSSSCCBC-TTSCCE-ESSSSEECHHHHHH--HTC
T ss_pred             CCCCCCCcccCCeeccc---eEEECcc----------ccCCCCCccCCCCCcC-CcCceE-eeCCeEECHHHHHH--Hhc
Confidence            35789999999999853   4666654          4699999999999998 466776 46999999999988  466


Q ss_pred             CCCC
Q 017657          250 NECQ  253 (368)
Q Consensus       250 ~~C~  253 (368)
                      ++|.
T Consensus        65 ~~c~   68 (70)
T 2d8z_A           65 SGPS   68 (70)
T ss_dssp             CCCT
T ss_pred             cccC
Confidence            7775

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

Probab=98.89  E-value=9.8e-10  Score=82.71  Aligned_cols=69  Identities=19%  Similarity=0.417  Sum_probs=54.4

Q ss_pred             ccccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccCC
Q 017657          170 EHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDT  249 (368)
Q Consensus       170 ~~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~  249 (368)
                      +++.++|..|+++|.... .++.+.++          .||..||+|..|++.|. +..|+ ..+|++||..||.+  .+.
T Consensus         2 ~~~~~~C~~C~~~I~~~~-~~~~a~~~----------~~H~~CF~C~~C~~~L~-~~~~~-~~~~~~yC~~cy~~--~f~   66 (72)
T 1wyh_A            2 SSGSSGCSACGETVMPGS-RKLEYGGQ----------TWHEHCFLCSGCEQPLG-SRSFV-PDKGAHYCVPCYEN--KFA   66 (72)
T ss_dssp             CCCCCBCSSSCCBCCSSS-CEECSTTC----------CEETTTCBCTTTCCBTT-TSCEE-EETTEEEEHHHHHH--HTS
T ss_pred             CccCCCCccCCCccccCc-cEEEECcc----------ccCcccCeECCCCCcCC-CCccC-CcCCeEECHHHHHH--Hcc
Confidence            467899999999999531 35555543          57999999999999985 45676 46999999999988  567


Q ss_pred             CCCC
Q 017657          250 NECQ  253 (368)
Q Consensus       250 ~~C~  253 (368)
                      ++|+
T Consensus        67 ~~C~   70 (72)
T 1wyh_A           67 SGPS   70 (72)
T ss_dssp             CCCC
T ss_pred             CcCC
Confidence            7775

>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=98.88  E-value=2.8e-10  Score=100.21  Aligned_cols=110  Identities=15%  Similarity=0.204  Sum_probs=79.5

Q ss_pred             cccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccCCCCC
Q 017657          173 HPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNEC  252 (368)
Q Consensus       173 ~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~~C  252 (368)
                      .++|..|+++|.+.  .++.+.++          .||..||+|..|++.|. +..|  ..||++||..||.+  .+.+.|
T Consensus         6 ~~~C~~C~~~I~~~--~~~~a~~~----------~wH~~CF~C~~C~~~L~-~~~f--~~~g~~yC~~~y~~--~f~~~C   68 (169)
T 2rgt_A            6 IPMCAGCDQHILDR--FILKALDR----------HWHSKCLKCSDCHVPLA-ERCF--SRGESVYCKDDFFK--RFGTKC   68 (169)
T ss_dssp             -CBBSSSSSBCCSS--SCEECSSC----------EECTTTSBCTTTCCBCC-SCCE--ESSSCEECHHHHHH--HHSCBC
T ss_pred             CCccccCCCccCCc--EEEEECCc----------EEccccCccCCCCCcCC-CCCc--ccCCeeeecccccc--cccccc
Confidence            57999999999864  25666654          46999999999999984 4445  36999999999998  457899


Q ss_pred             CcchHhHHHHHHHhccccccccchhhHhHHHHHhhhcCCC---------C--CCCCCcccCCcccccceeeee
Q 017657          253 QPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGEK---------N--GYYHMPETRGLCLSEEQTVTT  314 (368)
Q Consensus       253 ~~c~~~I~~f~e~~~~~i~~~~p~~lv~~~aLn~~~~~e~---------~--g~~~~~~~~G~~~~E~~~~~~  314 (368)
                      ..|.+.|..          .+. +    +.|+++.||.+.         .  |...+...+|..||+.+|...
T Consensus        69 ~~C~~~I~~----------~~~-v----~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~~C~~c~~~~  126 (169)
T 2rgt_A           69 AACQLGIPP----------TQV-V----RRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETA  126 (169)
T ss_dssp             TTTCCBCCT----------TSE-E----EEETTEEEEGGGCBCTTTCCBCCTTCEEEECTTSCEEEHHHHHHH
T ss_pred             cccccccCC----------CcE-E----EEcCCceEeeCCCcCCCCCCCCCCCCceEEccCCeEECHHHHHHH
Confidence            999854421          111 0    357888887652         1  333345678999999998543

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

Probab=98.88  E-value=1.8e-09  Score=81.43  Aligned_cols=68  Identities=15%  Similarity=0.321  Sum_probs=52.9

Q ss_pred             cccccccccCccccCC-CCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccCC
Q 017657          171 HYHPKCDVCKHFIPSN-HGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDT  249 (368)
Q Consensus       171 ~f~p~C~~C~~~I~~~-~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~  249 (368)
                      ++.++|..|+++|.+. +..++.+.++          +||+.||+|..|++.|. +..|+ ..+|++||..||.+  +..
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~~~a~~~----------~wH~~CF~C~~C~~~L~-~~~f~-~~~g~~yC~~c~~~--~~~   68 (72)
T 1x4l_A            3 SGSSGCAGCTNPISGLGGTKYISFEER----------QWHNDCFNCKKCSLSLV-GRGFL-TERDDILCPDCGKD--ISG   68 (72)
T ss_dssp             SCSCSBTTTTBCCCCSSSCSCEECSSC----------EECTTTCBCSSSCCBCT-TSCCE-ECSSSEECHHHHHT--CCC
T ss_pred             CCCCCCcCCCccccCCCCcceEEECCc----------ccCcccCEeccCCCcCC-CCccE-eECCEEEChhHcCc--ccC
Confidence            4678999999999961 1246776654          46999999999999984 66776 47999999999987  344


Q ss_pred             CCC
Q 017657          250 NEC  252 (368)
Q Consensus       250 ~~C  252 (368)
                      +++
T Consensus        69 p~~   71 (72)
T 1x4l_A           69 PSS   71 (72)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            443

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

Probab=98.85  E-value=2.8e-09  Score=81.29  Aligned_cols=69  Identities=14%  Similarity=0.288  Sum_probs=54.8

Q ss_pred             ccccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCccccc-chhhhhccC
Q 017657          170 EHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCL-ECLDSAIMD  248 (368)
Q Consensus       170 ~~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~-~C~~~~v~~  248 (368)
                      ..+.++|..|+++|....  .+.+.++          .||+.||+|..|++.|. +..|+ ..++++||. .||.+  .+
T Consensus         6 ~~~~~~C~~C~~~I~~~~--~v~a~~~----------~~H~~CF~C~~C~~~L~-~~~~~-~~~g~~yC~~~cy~~--~f   69 (76)
T 2cu8_A            6 SGMASKCPKCDKTVYFAE--KVSSLGK----------DWHKFCLKCERCSKTLT-PGGHA-EHDGKPFCHKPCYAT--LF   69 (76)
T ss_dssp             CCCCCBCTTTCCBCCTTT--EEEETTE----------EEETTTCBCSSSCCBCC-TTSCE-EETTEEECTTTHHHH--HS
T ss_pred             CCCCCCCcCCCCEeECCe--EEEECCe----------EeeCCCCCCCCCCCccC-CCceE-eECCEEecchHHHHH--hc
Confidence            456889999999999532  5777664          46999999999999995 55676 469999999 79988  46


Q ss_pred             CCCCCc
Q 017657          249 TNECQP  254 (368)
Q Consensus       249 ~~~C~~  254 (368)
                      .++|.+
T Consensus        70 ~~kc~g   75 (76)
T 2cu8_A           70 GSGPSS   75 (76)
T ss_dssp             CSSCSC
T ss_pred             ccccCC
Confidence            677753

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

Probab=98.84  E-value=1.9e-09  Score=88.88  Aligned_cols=100  Identities=11%  Similarity=0.041  Sum_probs=72.0

Q ss_pred             cccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCC-CCceEEccCCcccccchhhhhccCCCC
Q 017657          173 HPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQ-DTAYVALDDGRKLCLECLDSAIMDTNE  251 (368)
Q Consensus       173 ~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~-~~~f~~~~dg~~~C~~C~~~~v~~~~~  251 (368)
                      .++|..|+++|.+.  .++.+.++          .||+.||+|..|++.|.. +..|+ ..+|++||..||.+  .+.+.
T Consensus         3 ~~~C~~C~~~I~~~--~~~~a~~~----------~wH~~CF~C~~C~~~L~~~g~~~~-~~~g~~yC~~~y~~--~f~~~   67 (114)
T 1j2o_A            3 LLTCGGCQQNIGDR--YFLKAIDQ----------YWHEDCLSCDLCGCRLGEVGRRLY-YKLGRKLCRRDYLR--LGGSG   67 (114)
T ss_dssp             CBCBSSSCSCBCSS--EEEECSSS----------EECTTTCCCSSSCSCCCCSSSCCC-CBTTBCCCHHHHHH--HHTSC
T ss_pred             CCCCcCCCCeeCCc--EEEEECch----------hHHHhcCcccccCCchhcCCCeeE-EECCeeechHHHHH--HhCcc
Confidence            47899999999853  25666654          479999999999999863 45776 57999999999998  45778


Q ss_pred             CCcchHhHHHHHHHhccccccccchhhHhHHHHHhhhcCCCCCCCCCcccCCcccccceee
Q 017657          252 CQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGEKNGYYHMPETRGLCLSEEQTV  312 (368)
Q Consensus       252 C~~c~~~I~~f~e~~~~~i~~~~p~~lv~~~aLn~~~~~e~~g~~~~~~~~G~~~~E~~~~  312 (368)
                      |..|..         +..+.           +     .........|...+|..||..++.
T Consensus        68 c~~c~~---------~~~~~-----------~-----~~~~~~g~~f~~~~~~~~C~~~~~  103 (114)
T 1j2o_A           68 GHMGSG---------GDVMV-----------V-----GEPTLMGGEFGDEDERLITRLENT  103 (114)
T ss_dssp             CSSCBS---------CSCCC-----------S-----SCSSTTSSBCCCSSSCCCEEEECT
T ss_pred             cCcCCC---------CceeE-----------c-----CCccCCCCeeEEcCCEeecchhhh
Confidence            887751         11111           0     112222336779999999998875

>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=98.83  E-value=2.3e-09  Score=81.72  Aligned_cols=68  Identities=16%  Similarity=0.252  Sum_probs=55.0

Q ss_pred             ccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCccccc-chhhhhccCCCCC
Q 017657          174 PKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCL-ECLDSAIMDTNEC  252 (368)
Q Consensus       174 p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~-~C~~~~v~~~~~C  252 (368)
                      |+|..|+++|...  ..+.+.++          .||..||+|..|++.|.. ..|+ ..+|++||. .||.+  .+.++|
T Consensus         1 p~C~~C~~~I~~~--~~v~a~~~----------~~H~~CF~C~~C~~~L~~-~~~~-~~~g~~yC~~~cy~~--~f~~~C   64 (76)
T 1iml_A            1 PKCPKCDKEVYFA--ERVTSLGK----------DWHRPCLKCEKCGKTLTS-GGHA-EHEGKPYCNHPCYSA--MFGPKG   64 (76)
T ss_dssp             CBCTTTSSBCCGG--GEEEETTE----------EEETTTCBCTTTCCBCCT-TTEE-EETTEEEETTTHHHH--HSSCCC
T ss_pred             CcCCCCCCEEECc--eEEEECCc----------cccCCCCCccccCccCCC-CceE-CcCCeEeeCHHHHHH--HhCccC
Confidence            6899999999843  25666654          469999999999999854 4676 469999999 69998  578899


Q ss_pred             CcchH
Q 017657          253 QPLYL  257 (368)
Q Consensus       253 ~~c~~  257 (368)
                      ..|..
T Consensus        65 ~~C~~   69 (76)
T 1iml_A           65 FGRGG   69 (76)
T ss_dssp             SSCCC
T ss_pred             CCcCC
Confidence            99873

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

Probab=98.83  E-value=2.8e-09  Score=80.24  Aligned_cols=64  Identities=14%  Similarity=0.257  Sum_probs=51.9

Q ss_pred             cccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhcc
Q 017657          171 HYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIM  247 (368)
Q Consensus       171 ~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~  247 (368)
                      ++.++|..|+++|.+.. .++.+.++          .||..||+|..|++.| .+..|+ ..++++||..||.+++.
T Consensus         3 ~~~~~C~~C~~~I~~~~-~~~~a~~~----------~~H~~CF~C~~C~~~L-~~~~~~-~~~~~~yC~~cy~~~~~   66 (72)
T 1x61_A            3 SGSSGCGGCGEDVVGDG-AGVVALDR----------VFHVGCFVCSTCRAQL-RGQHFY-AVERRAYCEGCYVATLE   66 (72)
T ss_dssp             SCCCCCSSSCSCCCSSS-CCEECSSS----------EECTTTCBCSSSCCBC-TTSCEE-ESSSCEEEHHHHHHHHH
T ss_pred             CCCCCCccCCCccCCCc-eEEEECCC----------eEcccCCcccccCCcC-CcCcCE-eeCCeEECHHHHHHHHc
Confidence            46889999999998631 35667654          4699999999999999 577787 46999999999998654

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

Probab=98.80  E-value=2.5e-09  Score=79.26  Aligned_cols=61  Identities=18%  Similarity=0.395  Sum_probs=49.0

Q ss_pred             ccccccccCccccCCCCcceEEccccccccccCCCCcc--CCCCccCCCCCcCCCCCceEEccCCcccc-cchhhhh
Q 017657          172 YHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEH--DGTPRCCSCERMEPQDTAYVALDDGRKLC-LECLDSA  245 (368)
Q Consensus       172 f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H--~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C-~~C~~~~  245 (368)
                      |+++|..|+++|.+. +..+.+.++          +||  +.||+|..|++.| .+..|+ ..+|++|| ..|+.++
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 HAVVCQGCHNAIDPE-VQRVTYNNF----------SWHASTECFLCSCCSKCL-IGQKFM-PVEGMVFCSVECKKRM   64 (65)
T ss_dssp             -CEECTTTSSEECTT-SCEEEETTE----------EEETTTTTSBCTTTCCBC-TTSCCE-EETTEEESSHHHHHTT
T ss_pred             CcCCCcCCCCeeccC-ceEEEECCC----------ccCCCCCCEECCCCCCcC-CCCceE-EECCEEecCHHHhhhh
Confidence            578999999999953 136777764          469  9999999999998 466777 46999999 9999763

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

Probab=98.79  E-value=2.1e-09  Score=79.68  Aligned_cols=61  Identities=16%  Similarity=0.260  Sum_probs=49.7

Q ss_pred             ccccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhh
Q 017657          170 EHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSA  245 (368)
Q Consensus       170 ~~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~  245 (368)
                      +++.++|..|+++|.+   ..+.+.++          .||+.||+|..|++.|. +..|+ ..+|++||..||.++
T Consensus         2 ~~~~~~C~~C~~~I~~---~~~~a~~~----------~~H~~CF~C~~C~~~L~-~~~~~-~~~g~~yC~~~y~~~   62 (66)
T 1nyp_A            2 SMGVPICGACRRPIEG---RVVNAMGK----------QWHVEHFVCAKCEKPFL-GHRHY-ERKGLAYCETHYNQL   62 (66)
T ss_dssp             CCCCCEETTTTEECCS---CEECCTTS----------BEETTTCBCTTTCCBCS-SSCCE-EETTEEECHHHHHHH
T ss_pred             CcCCCCCcccCCEecc---eEEEECcc----------ccccCcCEECCCCCCCC-CCceE-eECCcEECHHHHHHH
Confidence            4678999999999984   35666553          57999999999999984 56676 469999999999874

>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=98.79  E-value=2.2e-09  Score=82.90  Aligned_cols=69  Identities=14%  Similarity=0.233  Sum_probs=48.9

Q ss_pred             ccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccCCCC
Q 017657          172 YHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNE  251 (368)
Q Consensus       172 f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~~  251 (368)
                      ..++|..|+++|....  .+.+.++          .||+.||+|..|++.|. +..|+ ..++++||..||.+  .+.++
T Consensus         6 ~~~~C~~C~~~I~~~~--~~~a~~~----------~~H~~CF~C~~C~~~L~-~~~~~-~~~~~~yC~~cy~~--~f~~~   69 (81)
T 1a7i_A            6 GGNKCGACGRTVYHAE--EVQCDGR----------SFHRCCFLCMVCRKNLD-STTVA-IHDAEVYCKSCYGK--KYGPK   69 (81)
T ss_dssp             --CBCSSSCCBCSSTT--EEEETTE----------EEESSSEECSSSCCEEC-SSCCE-EETTEEECSHHHHH--HCC--
T ss_pred             CCCcCcCcCccccCce--eEEeCCc----------ccccccCccCCCCCCCC-CCCeE-eeCCEEECHHHHHH--HhCCc
Confidence            4689999999997533  5777664          46999999999999985 44576 45999999999998  57889


Q ss_pred             CCcch
Q 017657          252 CQPLY  256 (368)
Q Consensus       252 C~~c~  256 (368)
                      |.+|.
T Consensus        70 c~gcg   74 (81)
T 1a7i_A           70 GYGYG   74 (81)
T ss_dssp             -----
T ss_pred             ccccC
Confidence            98886

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

Probab=98.78  E-value=3e-09  Score=79.69  Aligned_cols=65  Identities=17%  Similarity=0.371  Sum_probs=51.7

Q ss_pred             ccccccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhh
Q 017657          168 YREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSA  245 (368)
Q Consensus       168 y~~~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~  245 (368)
                      |..++.++|..|+++|.+.+ .++.+.+.          .||..||+|..|++.|..+ .|+ ..+|++||..||.++
T Consensus         6 y~~~~~~~C~~C~~~i~~~e-~~~~~~~~----------~~H~~CF~C~~C~~~L~~~-~~~-~~~g~~yC~~~y~~l   70 (72)
T 3f6q_B            6 FQGSASATCERCKGGFAPAE-KIVNSNGE----------LYHEQCFVCAQCFQQFPEG-LFY-EFEGRKYCEHDFQML   70 (72)
T ss_dssp             CCCCTTCBCTTTCCBCCTTC-EEEEETTE----------EEETTTSSCTTTCCCCGGG-CCE-EETTEEECHHHHHHH
T ss_pred             ccCcCCccchhcCccccCCc-eEEEeCcC----------eeCcCCCcccCCCCCCCCC-CeE-eECCeEeCHHHHHHh
Confidence            34578899999999999643 34566654          4699999999999998655 666 468999999999874

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

Probab=98.78  E-value=3.6e-09  Score=80.62  Aligned_cols=68  Identities=16%  Similarity=0.280  Sum_probs=52.4

Q ss_pred             cccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccCCC
Q 017657          171 HYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTN  250 (368)
Q Consensus       171 ~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~  250 (368)
                      .+.++|..|+++|.+. +.++.+.++          .||..||+|..|++.|..+ .|+ ..+|++||..||.+  .+.+
T Consensus         9 ~~~~~C~~C~~~I~~~-~~~~~a~~~----------~~H~~CF~C~~C~~~L~~~-~~~-~~~g~~yC~~~y~~--~f~~   73 (77)
T 1g47_A            9 LASATCERCKGGFAPA-EKIVNSNGE----------LYHEQCFVCAQCFQQFPEG-LFY-EFEGRKYCEHDFQM--LFAP   73 (77)
T ss_dssp             CCCCBCSSSCCBCCST-TTCEEETTE----------EECTTTCCCTTTCCCCGGG-CSE-EETTEEECHHHHHH--HCCC
T ss_pred             CCCCCchhcCCccCCC-ceEEEeCcc----------EeccccCeECCCCCCCCCC-CeE-eECCeEeCHHHHHH--Hhhc
Confidence            4678999999999753 235677765          4699999999999998554 566 46999999999988  4566


Q ss_pred             CCC
Q 017657          251 ECQ  253 (368)
Q Consensus       251 ~C~  253 (368)
                      .|.
T Consensus        74 ~C~   76 (77)
T 1g47_A           74 CWI   76 (77)
T ss_dssp             C--
T ss_pred             ccC
Confidence            664

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

Probab=98.73  E-value=8.9e-09  Score=77.08  Aligned_cols=60  Identities=25%  Similarity=0.512  Sum_probs=49.3

Q ss_pred             ccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhc
Q 017657          172 YHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAI  246 (368)
Q Consensus       172 f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v  246 (368)
                      +.++|..|+++|.++   ++.+.++          .||+.||+|..|++.|.. ..|+ ..+|++||..||.++.
T Consensus         4 ~~~~C~~C~~~I~~~---~~~a~~~----------~~H~~CF~C~~C~~~L~~-~~f~-~~~g~~yC~~c~~~~~   63 (70)
T 2d8x_A            4 GSSGCHQCGEFIIGR---VIKAMNN----------SWHPECFRCDLCQEVLAD-IGFV-KNAGRHLCRPCHNREK   63 (70)
T ss_dssp             CSSBCSSSCCBCCSC---CEEETTE----------EECTTTSBCSSSCCBCSS-SCCE-EETTEEECHHHHHHHH
T ss_pred             CCCcCccCCCEecce---EEEECcc----------cccccCCEeCCCCCcCCC-CccE-eECCeEECHHHhhhhc
Confidence            568999999999853   6777765          369999999999999854 4666 4699999999998853

>2dj7_A Actin-binding LIM protein 3; LIM domain, Zn binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=98.73  E-value=1e-08  Score=79.22  Aligned_cols=64  Identities=17%  Similarity=0.263  Sum_probs=51.5

Q ss_pred             cccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccCCCCC
Q 017657          173 HPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNEC  252 (368)
Q Consensus       173 ~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~~C  252 (368)
                      .++|..|+++|...  .++.+.++          .||+.||+|..|++.|. + .|+ ..+|++||..||.+  .+.+.|
T Consensus        15 ~~~C~~C~~~I~~~--~~v~a~~~----------~wH~~CF~C~~C~~~L~-~-~~~-~~~g~~yC~~~y~~--~fg~~C   77 (80)
T 2dj7_A           15 PSHCAGCKEEIKHG--QSLLALDK----------QWHVSCFKCQTCSVILT-G-EYI-SKDGVPYCESDYHA--QFGSGP   77 (80)
T ss_dssp             CSCCTTTCCCCSSS--CCEEETTE----------EECTTTCBCSSSCCBCS-S-CCE-EETTEEECTTHHHH--HTTCCS
T ss_pred             CCCCcCcCCeeCCC--eEEEECCc----------ccccccCCcCcCCCCcC-C-CeE-EECCEEECHHHHHH--HcCCCC
Confidence            57899999999853  26777764          46999999999999885 4 576 56999999999998  466777


Q ss_pred             C
Q 017657          253 Q  253 (368)
Q Consensus       253 ~  253 (368)
                      .
T Consensus        78 ~   78 (80)
T 2dj7_A           78 S   78 (80)
T ss_dssp             T
T ss_pred             C
Confidence            5

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

Probab=98.68  E-value=1e-08  Score=85.86  Aligned_cols=63  Identities=19%  Similarity=0.197  Sum_probs=51.2

Q ss_pred             ccccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCC-CCCceEEccCCcccccchhhhh
Q 017657          170 EHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEP-QDTAYVALDDGRKLCLECLDSA  245 (368)
Q Consensus       170 ~~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~-~~~~f~~~~dg~~~C~~C~~~~  245 (368)
                      ..+.++|..|+++|.+.  .++.+.++          .||..||+|..|++.|. .+..|+ ..+|++||..||.++
T Consensus        58 ~~~~~~C~~C~~~I~~~--~~v~a~~~----------~wH~~CF~C~~C~~~L~~~g~~f~-~~dg~~yC~~cy~~~  121 (123)
T 2l4z_A           58 GLSWKRCAGCGGKIADR--FLLYAMDS----------YWHSRCLKCSSCQAQLGDIGTSSY-TKSGMILCRNDYIRL  121 (123)
T ss_dssp             CSSCSBBSSSSSBCCSS--SEEEETTE----------EEETTTSBCTTTCCBGGGTTCCCB-CSSSCCBCHHHHHHH
T ss_pred             CccCCcCcCCCCCcCCc--EEEEeCCc----------EEcccccCcCcCCCcccccCCceE-EECCEEeCHHHhhhh
Confidence            45678999999999963  25777764          46999999999999985 356776 579999999999874

>2d8y_A Eplin protein; LIM domain, epithelial protein LOST in neoplasm, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=98.68  E-value=1.4e-08  Score=80.22  Aligned_cols=69  Identities=14%  Similarity=0.199  Sum_probs=53.8

Q ss_pred             cccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccCCC
Q 017657          171 HYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTN  250 (368)
Q Consensus       171 ~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~  250 (368)
                      ...++|..|+++|.+..  .+.+.++          .||..||+|..|++.|..+ .|+ ..++++||..||.+  .+.+
T Consensus        13 ~~~~~C~~C~~~I~~~~--~v~a~~~----------~~H~~CF~C~~C~~~L~~~-~~~-~~~g~~yC~~~y~~--~f~~   76 (91)
T 2d8y_A           13 PARETCVECQKTVYPME--RLLANQQ----------VFHISCFRCSYCNNKLSLG-TYA-SLHGRIYCKPHFNQ--LFKS   76 (91)
T ss_dssp             SSSCBCTTTCCBCCTTS--EEECSSS----------EEETTTCBCTTTCCBCCTT-TCC-CSSSCCCCHHHHHH--HSCC
T ss_pred             CCCCcCccCCCccCCce--eEEECCC----------EECCCCCeeCCCCCCCCCC-CcE-eECCEEECHHHHHH--HhCC
Confidence            35789999999998642  5665553          4799999999999998544 466 57999999999998  4677


Q ss_pred             CCCcc
Q 017657          251 ECQPL  255 (368)
Q Consensus       251 ~C~~c  255 (368)
                      +|..+
T Consensus        77 kc~~~   81 (91)
T 2d8y_A           77 KGNYD   81 (91)
T ss_dssp             CSCCC
T ss_pred             CcCcc
Confidence            77643

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

Probab=98.68  E-value=1.6e-08  Score=77.91  Aligned_cols=64  Identities=20%  Similarity=0.374  Sum_probs=49.9

Q ss_pred             cccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccCCC
Q 017657          171 HYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTN  250 (368)
Q Consensus       171 ~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~  250 (368)
                      .+.++|..|+++|.+.   .+.+.++          .||+.||+|..|++.|. +..|  ..+|++||..||.+  .+++
T Consensus        13 ~~~~~C~~C~~~I~~~---~v~a~~~----------~~H~~CF~C~~C~~~L~-~~~f--~~~g~~yC~~cy~~--~f~p   74 (79)
T 2cor_A           13 LGKYICQKCHAIIDEQ---PLIFKND----------PYHPDHFNCANCGKELT-ADAR--ELKGELYCLPCHDK--MGVS   74 (79)
T ss_dssp             CCCCBCTTTCCBCCSC---CCCCSSS----------CCCTTTSBCSSSCCBCC-TTCE--EETTEEECHHHHHT--TSCC
T ss_pred             cCCCCCccCCCEecce---EEEECcc----------eeCCCCCEeCCCCCccC-CCCE--eECCEEeCHHHHHH--hCCC
Confidence            4678999999999953   4666653          57999999999999985 4444  46999999999998  4455


Q ss_pred             CC
Q 017657          251 EC  252 (368)
Q Consensus       251 ~C  252 (368)
                      .+
T Consensus        75 ~~   76 (79)
T 2cor_A           75 GP   76 (79)
T ss_dssp             SS
T ss_pred             CC
Confidence            44

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

Probab=98.64  E-value=1.8e-08  Score=79.17  Aligned_cols=64  Identities=19%  Similarity=0.346  Sum_probs=49.9

Q ss_pred             ccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhccCCCC
Q 017657          172 YHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNE  251 (368)
Q Consensus       172 f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~~  251 (368)
                      ..++|..|+++|.+.   ++.+.++          .||..||+|..|++.|. +..|+. .++.+||..||.++  +.++
T Consensus        24 ~~~~C~~C~~~I~~~---~~~a~~~----------~~H~~CF~C~~C~~~L~-~~~~~~-~~g~~yC~~~y~~~--f~p~   86 (89)
T 1x64_A           24 RMPLCDKCGSGIVGA---VVKARDK----------YRHPECFVCADCNLNLK-QKGYFF-VEGELYCETHARAR--TSGP   86 (89)
T ss_dssp             SCCBCTTTCCBCCSC---CEESSSC----------EECTTTCCCSSSCCCTT-TSCCEE-ETTEEECHHHHHHH--SSSC
T ss_pred             cCCCcccCCCEeccc---EEEECCc----------eECccCCEecCCCCCCC-CCCeEe-ECCEEECHHHHHHH--hCCC
Confidence            367899999999963   5666653          46999999999999985 445664 59999999999884  4454


Q ss_pred             C
Q 017657          252 C  252 (368)
Q Consensus       252 C  252 (368)
                      +
T Consensus        87 ~   87 (89)
T 1x64_A           87 S   87 (89)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=98.59  E-value=3.6e-08  Score=76.42  Aligned_cols=61  Identities=23%  Similarity=0.363  Sum_probs=47.1

Q ss_pred             cccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEE-ccCCcccccchhhhhc
Q 017657          173 HPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVA-LDDGRKLCLECLDSAI  246 (368)
Q Consensus       173 ~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~-~~dg~~~C~~C~~~~v  246 (368)
                      .++|..|+++|....  .+.+.++          .||..||+|..|++.|. +..|+. ..||++||..||.++.
T Consensus        15 ~~~C~~C~~~I~~~e--~v~a~~~----------~wH~~CF~C~~C~~~L~-~~~~~~~~~~g~~yC~~~y~~~~   76 (82)
T 2co8_A           15 GDLCALCGEHLYVLE--RLCVNGH----------FFHRSCFRCHTCEATLW-PGGYEQHPGDGHFYCLQHLPQTD   76 (82)
T ss_dssp             SCBCSSSCCBCCTTT--BCCBTTB----------CCBTTTCBCSSSCCBCC-TTSEECCTTTCCCEETTTCCCCC
T ss_pred             CCCCcccCCCcccce--EEEECCC----------eeCCCcCEEcCCCCCcC-CCceeEeCcCCEEEChHHHHhhh
Confidence            578999999997532  4555543          57999999999999984 455653 3699999999998743

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

Probab=98.59  E-value=1e-08  Score=78.80  Aligned_cols=59  Identities=19%  Similarity=0.383  Sum_probs=48.4

Q ss_pred             cccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCCCCceEEccCCcccccchhhhhc
Q 017657          173 HPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQDTAYVALDDGRKLCLECLDSAI  246 (368)
Q Consensus       173 ~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v  246 (368)
                      .++|..|+++|.++   ++.+.++          .||..||+|..|++.|. +..|+ ..++++||..||.+++
T Consensus        15 ~~~C~~C~~~I~~~---~~~a~~~----------~~H~~CF~C~~C~~~L~-~~~~~-~~~g~~yC~~cy~~~~   73 (79)
T 1x62_A           15 LPMCDKCGTGIVGV---FVKLRDR----------HRHPECYVCTDCGTNLK-QKGHF-FVEDQIYCEKHARERV   73 (79)
T ss_dssp             CCCCSSSCCCCCSS---CEECSSC----------EECTTTTSCSSSCCCHH-HHCCE-ESSSCEECHHHHHHHH
T ss_pred             CCccccCCCCccCc---EEEECcc----------eeCcCcCeeCCCCCCCC-CCCeE-eECCEEECHHHHHHHh
Confidence            67999999999963   5777654          46999999999999884 55676 4699999999998853

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

Probab=97.48  E-value=2.7e-05  Score=49.17  Aligned_cols=29  Identities=41%  Similarity=0.930  Sum_probs=27.0

Q ss_pred             CCccccCCcccccCceEeecCceecCCCc
Q 017657          113 YRICAGCNNEIGHGRFLNCLDVFWHPECF  141 (368)
Q Consensus       113 ~~~C~~C~~~I~~g~~v~a~g~~wH~~CF  141 (368)
                      .+.|..|++.|+..+.+.+.|+.||..||
T Consensus         3 ~~~C~~C~k~Vy~~Ek~~~~g~~~Hk~CF   31 (31)
T 1zfo_A            3 NPNCARCGKIVYPTEKVNCLDKFWHKACF   31 (31)
T ss_dssp             CCBCSSSCSBCCGGGCCCSSSSCCCGGGC
T ss_pred             CCcCCccCCEEecceeEEECCeEecccCC
Confidence            46899999999999999999999999998

>1q0v_A Hydrophilic protein; has cysteine rich putative zinc finger esential for function;...; stable, non-interacting alpha-helices; NMR {Saccharomyces cerevisiae} SCOP: j.105.1.1 PDB: 1q0w_A

Probab=93.43  E-value=0.06  Score=41.14  Aligned_cols=46  Identities=46%  Similarity=0.526  Sum_probs=32.3

Q ss_pred             CCcchHHHHHHHhhhhhhhccCC--C--cc--------CCcccccchHHHHHHHHhhc
Q 017657           42 EQENEDIDRAIALSLLEENQKGE--N--VI--------DKESQVEEDEQLARAIQESL   87 (368)
Q Consensus        42 ~~~~e~~~~aia~sl~e~~~~~~--~--~~--------~~~~~~~edE~lar~lqes~   87 (368)
                      +.+.|||.+||++||.|-...+.  .  +.        ......++|++|..+|..|+
T Consensus         9 ~~eDeDLkrAieLSL~Es~~~~~~~~yvp~~~~~~~~~~~~~~edeD~DLKAAIaASL   66 (81)
T 1q0v_A            9 EDEEELIRKAIELSLKESRNSASSEPIVPVVESKNEVKRQEIEEEEDPDLKAAIQESL   66 (81)
T ss_dssp             SSHHHHHHHHHHHHHHCCCCCSCCCCCCCCCCCCCCCCCCCCCCCSCHHHHHHHHHHH
T ss_pred             cCchHHHHHHHHHhHHHHcCCCCCCCCCCCCCCCCCCCCCCCCcccCHHHHHHHHHHH
Confidence            56789999999999987643321  1  00        11123678999999999986

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=81.60  E-value=0.35  Score=39.03  Aligned_cols=88  Identities=20%  Similarity=0.437  Sum_probs=54.5

Q ss_pred             ccCCccccccccccc--ccccccccCccccCCCCcceEEccccccccccCCCCccCCCCccCCCCCcCCC----CCceEE
Q 017657          157 TSENRPYHKSCYREH--YHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTPRCCSCERMEPQ----DTAYVA  230 (368)
Q Consensus       157 ~~dg~~yC~~cy~~~--f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf~C~~C~r~l~~----~~~f~~  230 (368)
                      ..=|..||..|..+.  ....|..|.+.+....  +.. .   |         .-..-..|..|...+..    +...+.
T Consensus        30 ~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~--l~~-l---~---------i~~~~~~C~iC~~~~~~~~~~~~~~~~   94 (133)
T 4ap4_A           30 TECGHVFCSQCLRDSLKNANTCPTCRKKINHKR--YHP-I---Y---------IGSGTVSCPICMDGYSEIVQNGRLIVS   94 (133)
T ss_dssp             ETTCCEEEHHHHHHHHTTCSBCTTTCCBCTTTC--EEE-C---B---------CSSSSCBCTTTCCBHHHHHHTTCCEEE
T ss_pred             cCCCChhhHHHHHHHHHhCCCCCCCCCcCcccc--ccc-c---c---------cCCCCCCCCCCCCccccccccCcceEe
Confidence            345667777776543  2458999999887643  211 1   1         12334678888765421    222245


Q ss_pred             ccCCcccccchhhhhccCCCCCCcchHhH
Q 017657          231 LDDGRKLCLECLDSAIMDTNECQPLYLDI  259 (368)
Q Consensus       231 ~~dg~~~C~~C~~~~v~~~~~C~~c~~~I  259 (368)
                      ..=|..+|..|..+.......|--|..+|
T Consensus        95 ~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~  123 (133)
T 4ap4_A           95 TECGHVFCSQCLRDSLKNANTCPTCRKKI  123 (133)
T ss_dssp             ETTSBEEEHHHHHHHHHHCSBCTTTCCBC
T ss_pred             CCCCChhhHHHHHHHHHcCCCCCCCCCcC
Confidence            56789999999987666666777777433

>2klz_A Ataxin-3; UIM, ubiquitin-binding, hydrolase, neurodegenerati nucleus, phosphoprotein, spinocerebellar ataxia, transcript transcription regulation; NMR {Homo sapiens}

Probab=80.52  E-value=0.65  Score=31.79  Aligned_cols=39  Identities=41%  Similarity=0.538  Sum_probs=28.4

Q ss_pred             CCcchHHHHHHHhhhhhhhccCCCccCCcccccchHHHHHHHHhhccCCC
Q 017657           42 EQENEDIDRAIALSLLEENQKGENVIDKESQVEEDEQLARAIQESLNLES   91 (368)
Q Consensus        42 ~~~~e~~~~aia~sl~e~~~~~~~~~~~~~~~~edE~lar~lqes~~~~s   91 (368)
                      +.|.||+.+|+|+|..|.+.           .++.-.|.|+||-|+.-.+
T Consensus         4 dEDEedlqrALalSRQE~dm-----------EDeeadLrrAiqLSmQGss   42 (52)
T 2klz_A            4 DEDEEDLQRALALSRQEIDM-----------EDEEADLRRAIQLSMQGSS   42 (52)
T ss_dssp             HHHHHHHHHHHHHHHHHHCC-----------SSSHHHHHHHHHHHHTTCC
T ss_pred             ccchHHHHHHHHHHHHHhcc-----------chhHHHHHHHHHHHhhccc
Confidence            56778999999999765432           2234489999999976655

---

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	368
d2dara2	45	g.39.1.3 (A:8-52) PDZ and LIM domain protein 5, En	7e-05
d1rutx1	30	g.39.1.3 (X:19-48) LIM only 4 (Lmo4) {Mouse (Mus m	0.003
d2dj7a2	36	g.39.1.3 (A:8-43) Actin-binding LIM protein 3, abL	0.004

>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 = 37.8 bits (88), Expect = 7e-05
 Identities = 17/36 (47%), Positives = 18/36 (50%), Gaps = 3/36 (8%)

Query: 108 QFPEGYR--ICAGCNNEIGHGRFLNCLDVFWHPECF 141
             P G R  +CA CN  I  G FL  L   WHPE F
Sbjct: 11  HIPAGKRTPMCAHCNQVI-RGPFLVALGKSWHPEEF 45

>d1rutx1 g.39.1.3 (X:19-48) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]} Length = 30

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]

 Score = 32.8 bits (75), Expect = 0.003
 Identities = 10/28 (35%), Positives = 15/28 (53%)

Query: 113 YRICAGCNNEIGHGRFLNCLDVFWHPEC 140
           ++ CAGC  +I     L  +D +WH  C
Sbjct: 2   WKRCAGCGGKIADRFLLYAMDSYWHSRC 29

>d2dj7a2 g.39.1.3 (A:8-43) Actin-binding LIM protein 3, abLIM-3 {Human (Homo sapiens) [TaxId: 9606]} Length = 36

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

 Score = 32.5 bits (74), Expect = 0.004
 Identities = 15/26 (57%), Positives = 16/26 (61%)

Query: 116 CAGCNNEIGHGRFLNCLDVFWHPECF 141
           CAGC  EI HG+ L  LD  WH  CF
Sbjct: 11  CAGCKEEIKHGQSLLALDKQWHVSCF 36

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	368
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.66
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	98.54
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	98.46
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.38
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.22
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.11
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.08
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	98.05
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	98.05
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.87
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	97.85
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	97.84
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.82
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.74
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.74
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	97.74
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	97.73
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	97.68
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	97.66
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.65
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.61
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.55
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.54
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.46
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	97.42
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.37
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.35
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	97.35
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	97.31
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	97.29
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.28
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	97.28
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	97.27
d2co8a2	36	Nedd9 interacting protein with calponin homology,	97.27
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	97.25
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	97.2
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	97.11
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.07
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	97.07
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	97.04
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	96.99
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	96.99
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	96.99
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	96.91
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	96.9
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	96.89
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	96.87
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	96.84
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	96.68
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	96.67
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	96.62
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	96.6
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	96.57
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.46
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	96.44
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	96.37
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	96.27
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	96.19
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	96.18
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	96.16
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	96.13
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	95.95
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	95.94
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	95.9
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	95.78
d2cora1	31	Pinch (particularly interesting new Cys-His) prote	95.67
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	95.65
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	95.57
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	95.45
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	95.42
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	95.35
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	95.12
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	95.07
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	95.07
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	95.06
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	95.06
d1x61a1	27	Thyroid receptor interacting protein 6, TRIP6 {Hum	95.05
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	94.96
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	94.87
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	94.76
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	94.74
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	94.43
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	94.41
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	94.3
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	93.98
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	93.55
d1v6ga2	40	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	93.42
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	92.47
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	92.45
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	91.49
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	91.37
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	91.16
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	90.83
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	90.57
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	90.34
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	89.62
d1rutx2	34	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	89.52
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	89.33
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	88.6
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	88.5
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	88.02
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	87.85
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	87.82
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	86.72
d1rutx4	33	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	86.49
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	86.1
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	85.91
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	83.74
d1x68a2	34	Four and a half LIM domains protein 5, FHL-5 {Huma	82.26
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	80.67
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	80.59
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	80.25

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

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

Probab=98.66  E-value=6.5e-09  Score=66.22  Aligned_cols=33  Identities=36%  Similarity=0.908  Sum_probs=30.3

Q ss_pred             CCCCCCCccccCCcccccCceEeecCceecCCCc
Q 017657          108 QFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECF  141 (368)
Q Consensus       108 ~~~~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF  141 (368)
                      |...++++|.+|+++| .|++|+|+|+.|||+||
T Consensus         3 Y~~~fapkC~~C~~~I-~g~~v~Al~~~wHpeCF   35 (35)
T d1x3ha1           3 FLAMFSPKCGGCNRPV-LENYLSAMDTVWHPECF   35 (35)
T ss_dssp             CCCCCSCBCTTTCCBC-CSSCEEETTEEECTTTC
T ss_pred             HHHHhChhhhhcCCcc-cchheeecCCccCcccC
Confidence            4556889999999999 79999999999999998

>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=98.54  E-value=5.6e-09  Score=66.45  Aligned_cols=34  Identities=26%  Similarity=0.560  Sum_probs=33.0

Q ss_pred             cccCCCCCCCCCceeeccCCcccccccccccccc
Q 017657          141 FCCHACHQPITDIEFSTSENRPYHKSCYREHYHP  174 (368)
Q Consensus       141 F~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p  174 (368)
                      |+|+.|+++|.+..|++++|+|||+.||.++|+|
T Consensus         1 F~C~~C~~~f~~~~F~e~~G~pYCe~~Y~~lFAP   34 (35)
T d1g47a2           1 FVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAP   34 (35)
T ss_dssp             CCCTTTCCCCGGGCSEEETTEEECHHHHHHHCCC
T ss_pred             CCCCCCcCCCCCCCeEEECCEecChHhHHhhcCC
Confidence            7999999999999999999999999999999987

>d2dara2 g.39.1.3 (A:8-52) PDZ and LIM domain protein 5, Enigma {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 5, Enigma
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.38  E-value=7.8e-08  Score=63.59  Aligned_cols=30  Identities=47%  Similarity=0.901  Sum_probs=27.9

Q ss_pred             CCCCccccCCcccccCceEeecCceecCCCc
Q 017657          111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECF  141 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF  141 (368)
                      ...++|+.|+++| .|++|+|+|+.|||+||
T Consensus        16 ~r~P~C~~C~~pI-~g~~vtAlgk~WHPEhF   45 (45)
T d2dara2          16 KRTPMCAHCNQVI-RGPFLVALGKSWHPEEF   45 (45)
T ss_dssp             TCCCBBSSSCCBC-CSCEEEETTEEECTTTC
T ss_pred             CCCeeccccCCcc-cCceeeecCCccCcCCC
Confidence            3568999999999 89999999999999998

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

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

Probab=98.22  E-value=2.9e-07  Score=58.36  Aligned_cols=35  Identities=17%  Similarity=0.276  Sum_probs=30.4

Q ss_pred             ccccccccccccccCccccCCCCcceEEccccccccccCCCCccCCCC
Q 017657          166 SCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTP  213 (368)
Q Consensus       166 ~cy~~~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf  213 (368)
                      .||.++|+|+|.+|+++|.++   +|++.+.          +||+.||
T Consensus         1 ~DY~~~fapkC~~C~~~I~g~---~v~Al~~----------~wHpeCF   35 (35)
T d1x3ha1           1 KDFLAMFSPKCGGCNRPVLEN---YLSAMDT----------VWHPECF   35 (35)
T ss_dssp             CCCCCCCSCBCTTTCCBCCSS---CEEETTE----------EECTTTC
T ss_pred             CcHHHHhChhhhhcCCcccch---heeecCC----------ccCcccC
Confidence            479999999999999999975   6999875          4699998

>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=98.11  E-value=5.3e-07  Score=56.04  Aligned_cols=35  Identities=29%  Similarity=0.860  Sum_probs=31.3

Q ss_pred             ccccccccccccccCccccCCCCcceEEccccccccccCCCCccCCCC
Q 017657          166 SCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTP  213 (368)
Q Consensus       166 ~cy~~~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf  213 (368)
                      .||.++|+++|..|+++|+.   |-|+|+++||          |..||
T Consensus         1 PCyE~kfa~~C~~Ckk~It~---GGvtY~dqpW----------HkeCF   35 (35)
T d2cuqa2           1 PCYENKFAPRCARCSKTLTQ---GGVTYRDQPW----------HRECL   35 (35)
T ss_dssp             CCCCCCSSCCCTTTCCCCCS---CCEESSSSEE----------CTTTC
T ss_pred             CchHHHHHHHHhhcCCcccc---CceeecCCcc----------hhhhC
Confidence            48999999999999999995   5699999984          99997

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

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

Probab=98.08  E-value=3.7e-07  Score=61.78  Aligned_cols=41  Identities=20%  Similarity=0.462  Sum_probs=37.5

Q ss_pred             ccCCCCCCCCCceeeccCCcccccccccccccccccccCcc
Q 017657          142 CCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHF  182 (368)
Q Consensus       142 ~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~  182 (368)
                      +|..|++.|.......+|++|||+.||.++|+|++...+..
T Consensus         1 KC~~C~k~Lds~t~~ehdg~~YCk~CY~k~fGPKG~g~G~g   41 (49)
T d1b8ta4           1 RCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKGFGFGQG   41 (49)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHTCCCCCCCCCC
T ss_pred             ChhhcCCccCCCcccccCCcccchhhhhhccCCCccCcccC
Confidence            68999999998899999999999999999999999887643

>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=98.05  E-value=1.6e-06  Score=54.09  Aligned_cols=32  Identities=31%  Similarity=0.759  Sum_probs=29.4

Q ss_pred             CCCCCCccccCCcccccCceEeecCceecCCCc
Q 017657          109 FPEGYRICAGCNNEIGHGRFLNCLDVFWHPECF  141 (368)
Q Consensus       109 ~~~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF  141 (368)
                      +..+..+|..|+++| ..+++.|+|+.|||.||
T Consensus         4 y~~tlEkC~~C~~~I-~driLrA~Gk~yHP~CF   35 (35)
T d2dloa1           4 YVATLEKCATCSQPI-LDRILRAMGKAYHPGCF   35 (35)
T ss_dssp             CCSSCCBCTTTCCBC-CSCCEEETTEEECTTTC
T ss_pred             HHHHHHHHHHhchHH-HHHHHHHhCCCCCCCCC
Confidence            456789999999999 78999999999999998

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

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

Probab=98.05  E-value=7.6e-07  Score=53.84  Aligned_cols=29  Identities=38%  Similarity=0.826  Sum_probs=26.4

Q ss_pred             CCCCccccCCcccccCceEeecCceecCCC
Q 017657          111 EGYRICAGCNNEIGHGRFLNCLDVFWHPEC  140 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~C  140 (368)
                      .+.++|+.|++|| .+++|+++|+.||+++
T Consensus         3 mg~p~C~~C~~PI-~~~~vtAlgk~WHpEH   31 (31)
T d1u5sb1           3 MGVPICGACRRPI-EGRVVNAMGKQWHVEH   31 (31)
T ss_dssp             CCCCEETTTTEEC-CSCEECCTTSBEETTT
T ss_pred             cCCcchhhcCCch-hhhHhhhhccccCCCC
Confidence            4678999999999 7999999999999974

>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=97.87  E-value=1.3e-06  Score=57.13  Aligned_cols=34  Identities=18%  Similarity=0.464  Sum_probs=32.3

Q ss_pred             ccCCCCCCCCCceeeccCCccccccccccccccc
Q 017657          142 CCHACHQPITDIEFSTSENRPYHKSCYREHYHPK  175 (368)
Q Consensus       142 ~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~  175 (368)
                      +|..|++.|+..+|+..+|.+||+.||.++|.++
T Consensus         1 rC~~C~~~Ls~~~yas~~G~lYCkpHf~qLF~~k   34 (42)
T d2d8ya2           1 RCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSK   34 (42)
T ss_dssp             BCTTTCCBCCTTTCCCSSSCCCCHHHHHHHSCCC
T ss_pred             CcCcCCCCccCCcchhhCCEeccHHHHHHHHHhh
Confidence            6999999999999999999999999999999886

>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=97.85  E-value=1.6e-06  Score=52.93  Aligned_cols=32  Identities=22%  Similarity=0.711  Sum_probs=29.5

Q ss_pred             ccCCCCCCCCCceeeccCCccccccccccccc
Q 017657          142 CCHACHQPITDIEFSTSENRPYHKSCYREHYH  173 (368)
Q Consensus       142 ~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~  173 (368)
                      .|..|+++|+++.|.++|++|||-.||.++|+
T Consensus         1 ~C~~C~~~L~GQry~~rd~~PyC~~Cf~~lfA   32 (32)
T d2d8za2           1 VCTACRKQLSGQRFTARDDFAYCLNCFCDLYA   32 (32)
T ss_dssp             BCSSSCCBCTTSCCEESSSSEECHHHHHHHTC
T ss_pred             CcccCCccccCceeeecCCCeehHHhhHhhcC
Confidence            48899999999999999999999999998874

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

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

Probab=97.84  E-value=3.2e-06  Score=53.84  Aligned_cols=37  Identities=24%  Similarity=0.436  Sum_probs=31.6

Q ss_pred             ccccccccccccccCccccCCCCcceEEccccccccccCCCCccCCCC
Q 017657          166 SCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTP  213 (368)
Q Consensus       166 ~cy~~~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf  213 (368)
                      .||.+.|+++|..|+++|.+. +..++|++          .+||+.||
T Consensus         1 kCy~~~~a~~C~~C~k~I~~G-~k~veykg----------~~WHe~CF   37 (37)
T d1x63a1           1 KCTTREDSPKCKGCFKAIVAG-DQNVEYKG----------TVWHKDCF   37 (37)
T ss_dssp             CCCSCCCSCBCSSSCCBCCSS-SCEEECSS----------CEEETTTC
T ss_pred             CccccccCcccccCCCccCCC-CeEeEeCC----------ccchhccC
Confidence            489999999999999999865 36788886          46899998

>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=97.82  E-value=5.8e-06  Score=51.11  Aligned_cols=31  Identities=52%  Similarity=1.031  Sum_probs=28.5

Q ss_pred             CCCCccccCCcccccCceEeecCceecCCCc
Q 017657          111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECF  141 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF  141 (368)
                      .+...|++|++.|-.|+.+.++++.||.+||
T Consensus         6 ~g~~~CagCg~eik~gQaL~ALdkqWH~~CF   36 (36)
T d2dj7a2           6 RGPSHCAGCKEEIKHGQSLLALDKQWHVSCF   36 (36)
T ss_dssp             SSCSCCTTTCCCCSSSCCEEETTEEECTTTC
T ss_pred             cCCccccccchhhhCCceeeeeecceeeeeC
Confidence            3567899999999889999999999999998

>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=97.74  E-value=3e-06  Score=51.09  Aligned_cols=32  Identities=25%  Similarity=0.869  Sum_probs=29.5

Q ss_pred             ccCCCCCCCCCceeeccCCccccccccccccc
Q 017657          142 CCHACHQPITDIEFSTSENRPYHKSCYREHYH  173 (368)
Q Consensus       142 ~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~  173 (368)
                      .|..|+++|+++.|..+|.+|||-.||-++|+
T Consensus         1 vCt~Ck~~LaGqrFTSrde~pYC~~Cfg~LfA   32 (32)
T d2cuqa1           1 VCTGCQTPLAGQQFTSRDEDPYCVACFGELFA   32 (32)
T ss_dssp             BCSSSCCBCTTCCEEECSSSEEEHHHHHHHTT
T ss_pred             CccccCccccCCccccCCCCccHHHHhHhhcC
Confidence            48999999999999999999999999988763

>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=97.74  E-value=8.4e-06  Score=48.95  Aligned_cols=29  Identities=21%  Similarity=0.542  Sum_probs=26.9

Q ss_pred             CCccccCCcccccCceEeecCceecCCCc
Q 017657          113 YRICAGCNNEIGHGRFLNCLDVFWHPECF  141 (368)
Q Consensus       113 ~~~C~~C~~~I~~g~~v~a~g~~wH~~CF  141 (368)
                      .+.|++|+++++..+.++++|+.||..|+
T Consensus         2 ~~~CprC~K~VYfaEk~~~lgk~WHk~Cl   30 (30)
T d2cu8a1           2 ASKCPKCDKTVYFAEKVSSLGKDWHKFCL   30 (30)
T ss_dssp             CCBCTTTCCBCCTTTEEEETTEEEETTTC
T ss_pred             CCcCCCCCCceeeHHhhccCCcccccccC
Confidence            46899999999999999999999999985

>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=97.74  E-value=3.4e-06  Score=50.03  Aligned_cols=28  Identities=43%  Similarity=0.980  Sum_probs=26.8

Q ss_pred             CccccCCcccccCceEeecCceecCCCc
Q 017657          114 RICAGCNNEIGHGRFLNCLDVFWHPECF  141 (368)
Q Consensus       114 ~~C~~C~~~I~~g~~v~a~g~~wH~~CF  141 (368)
                      +.|++|++.+++.+.++++++.||..||
T Consensus         3 ~~CaRC~k~VYp~Ekl~ClDk~WHK~CF   30 (30)
T d1zfoa_           3 PNCARCGKIVYPTEKVNCLDKFWHKACF   30 (30)
T ss_dssp             CBCSSSCSBCCGGGCCCSSSSCCCGGGC
T ss_pred             CcccccCCccccHHHhhhhHHHHhhccC
Confidence            6799999999999999999999999998

>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=97.73  E-value=2.9e-06  Score=52.01  Aligned_cols=31  Identities=19%  Similarity=0.500  Sum_probs=28.5

Q ss_pred             ccCCCCCCCCCceeeccCCcccccccccccc
Q 017657          142 CCHACHQPITDIEFSTSENRPYHKSCYREHY  172 (368)
Q Consensus       142 ~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f  172 (368)
                      +|..|.+|+.+..|++.||+|||+.+|+++.
T Consensus         1 VC~~C~~PF~~~~Fy~~~g~PyCe~HyH~~~   31 (32)
T d1x3ha2           1 VCGDCFTSFSTGSFFELDGRPFCELHYHHRR   31 (32)
T ss_dssp             BCSSSCCBSCSSCCEESSSCEECHHHHHHHH
T ss_pred             CcCccCCcCCCCCeEeECCccchHHhhhhhc
Confidence            5899999999999999999999999998763

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

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

Probab=97.68  E-value=1.5e-05  Score=50.62  Aligned_cols=33  Identities=30%  Similarity=0.693  Sum_probs=29.1

Q ss_pred             CCCCCCccccCCcccccC-ceEeecCceecCCCc
Q 017657          109 FPEGYRICAGCNNEIGHG-RFLNCLDVFWHPECF  141 (368)
Q Consensus       109 ~~~~~~~C~~C~~~I~~g-~~v~a~g~~wH~~CF  141 (368)
                      ....+..|.+|+++|..| +.|.+.|+.||..||
T Consensus         4 ~~~~a~~C~~C~k~I~~G~k~veykg~~WHe~CF   37 (37)
T d1x63a1           4 TREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCF   37 (37)
T ss_dssp             SCCCSCBCSSSCCBCCSSSCEEECSSCEEETTTC
T ss_pred             ccccCcccccCCCccCCCCeEeEeCCccchhccC
Confidence            445789999999999876 679999999999998

>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=97.66  E-value=4.8e-06  Score=55.57  Aligned_cols=35  Identities=29%  Similarity=0.702  Sum_probs=32.5

Q ss_pred             ccCCCCCCCCCceeeccCCcccc-cccccccccccc
Q 017657          142 CCHACHQPITDIEFSTSENRPYH-KSCYREHYHPKC  176 (368)
Q Consensus       142 ~C~~C~~~L~~~~f~~~dg~~yC-~~cy~~~f~p~C  176 (368)
                      +|..|++.|.......+|++||| +.||..+|+|+=
T Consensus         1 kC~~C~K~L~sg~~aeHdg~pYC~k~CY~~~FGPkG   36 (48)
T d1imla2           1 KCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKG   36 (48)
T ss_dssp             BCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCCC
T ss_pred             CchhcCcCcCCCChhhcCCcccccccchhhccCCCc
Confidence            68999999999999999999999 789999999973

>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=97.65  E-value=1.6e-05  Score=52.44  Aligned_cols=31  Identities=23%  Similarity=0.518  Sum_probs=29.1

Q ss_pred             CCCCccccCCcccccCceEeecCceecCCCc
Q 017657          111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECF  141 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF  141 (368)
                      .+...|..|++.|+..+.+.+.|+.||..||
T Consensus        13 g~~~kC~~C~k~VY~~E~~~~~g~~~Hk~CF   43 (43)
T d1b8ta3          13 GGSDGCPRCGQAVYAAEKVIGAGKSWHKSCF   43 (43)
T ss_dssp             CCCEECTTTSCEECSSSCEEETTEEECTTTC
T ss_pred             CCCCcCccCCCEeeHHHHhhcCCCccccCCC
Confidence            4678999999999999999999999999998

>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=97.61  E-value=6.8e-06  Score=49.44  Aligned_cols=31  Identities=26%  Similarity=0.649  Sum_probs=27.4

Q ss_pred             ccCCCCCCCCCceeeccCCccccccccccccc
Q 017657          142 CCHACHQPITDIEFSTSENRPYHKSCYREHYH  173 (368)
Q Consensus       142 ~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~  173 (368)
                      +|..|++.|.+ +|..+||.|||+.||+.+|+
T Consensus         1 kC~~C~~vL~g-EYm~kdG~PyCe~DY~~~FG   31 (31)
T d2dj7a1           1 KCQTCSVILTG-EYISKDGVPYCESDYHAQFG   31 (31)
T ss_dssp             BCSSSCCBCSS-CCEEETTEEECTTHHHHHTT
T ss_pred             CccccCccccc-eeecCCCCcccHHHHHHhcC
Confidence            58899999976 78889999999999998874

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

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

Probab=97.55  E-value=3.3e-05  Score=47.80  Aligned_cols=34  Identities=24%  Similarity=0.389  Sum_probs=28.7

Q ss_pred             cCCCCCCCccccCCcccccCceEeecCceecCCCc
Q 017657          107 IQFPEGYRICAGCNNEIGHGRFLNCLDVFWHPECF  141 (368)
Q Consensus       107 ~~~~~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF  141 (368)
                      .+...++..|..|+++| ..--|+..++.||.+||
T Consensus         2 CyE~kfa~~C~~Ckk~I-t~GGvtY~dqpWHkeCF   35 (35)
T d2cuqa2           2 CYENKFAPRCARCSKTL-TQGGVTYRDQPWHRECL   35 (35)
T ss_dssp             CCCCCSSCCCTTTCCCC-CSCCEESSSSEECTTTC
T ss_pred             chHHHHHHHHhhcCCcc-ccCceeecCCcchhhhC
Confidence            45667889999999999 45567889999999998

>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=97.54  E-value=5.1e-06  Score=49.07  Aligned_cols=30  Identities=27%  Similarity=0.721  Sum_probs=28.0

Q ss_pred             cccCCCCCCCCCceeeccCCcccccccccc
Q 017657          141 FCCHACHQPITDIEFSTSENRPYHKSCYRE  170 (368)
Q Consensus       141 F~C~~C~~~L~~~~f~~~dg~~yC~~cy~~  170 (368)
                      |+|+.|++.|........||.+||+.||.+
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            899999999999899999999999999965

>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=97.46  E-value=5.1e-05  Score=47.54  Aligned_cols=31  Identities=19%  Similarity=0.400  Sum_probs=29.0

Q ss_pred             CCCCccccCCcccccCceEeecCceecCCCc
Q 017657          111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECF  141 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF  141 (368)
                      +....|..|++.++.-+.+.+.|+.||..||
T Consensus         5 p~~~kC~~C~K~VY~~E~~~a~g~~~Hk~CF   35 (35)
T d2d8ya1           5 PARETCVECQKTVYPMERLLANQQVFHISCF   35 (35)
T ss_dssp             SSSCBCTTTCCBCCTTSEEECSSSEEETTTC
T ss_pred             CCCcccccCCCEEeeeeeEecCCeehhhccC
Confidence            4568899999999999999999999999998

>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=97.42  E-value=1.4e-05  Score=48.75  Aligned_cols=34  Identities=18%  Similarity=0.515  Sum_probs=31.6

Q ss_pred             cccCCCCCCCCCceeeccCCcccccccccccccc
Q 017657          141 FCCHACHQPITDIEFSTSENRPYHKSCYREHYHP  174 (368)
Q Consensus       141 F~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p  174 (368)
                      |+|+.|.+|+-+...+.+.|..||+.+|.++|+.
T Consensus         1 FvCA~CekPF~G~rhyE~~g~ayCe~Hy~qLfg~   34 (35)
T d1u5sb2           1 FVCAKCEKPFLGHRHYERKGLAYCETHYNQLFGD   34 (35)
T ss_dssp             CBCTTTCCBCSSSCCEEETTEEECHHHHHHHCSC
T ss_pred             CcccccCCccCCchhhhhcCchHHHHHHHHHhcc
Confidence            7899999999999999999999999999999864

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

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

Probab=97.37  E-value=5e-05  Score=47.13  Aligned_cols=35  Identities=23%  Similarity=0.544  Sum_probs=29.0

Q ss_pred             cccccccccccccccCccccCCCCcceEEccccccccccCCCCccCCCC
Q 017657          165 KSCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTP  213 (368)
Q Consensus       165 ~~cy~~~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf  213 (368)
                      +.||... ..+|.+|+++|.+   .++.+.+++|          |++||
T Consensus         1 E~Cy~~t-lEkC~~C~~~I~d---riLrA~Gk~y----------HP~CF   35 (35)
T d2dloa1           1 EGCYVAT-LEKCATCSQPILD---RILRAMGKAY----------HPGCF   35 (35)
T ss_dssp             CCCCCSS-CCBCTTTCCBCCS---CCEEETTEEE----------CTTTC
T ss_pred             ChhHHHH-HHHHHHhchHHHH---HHHHHhCCCC----------CCCCC
Confidence            3577654 7899999999995   5799998875          99998

>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=97.35  E-value=1.7e-05  Score=56.47  Aligned_cols=37  Identities=27%  Similarity=0.619  Sum_probs=33.7

Q ss_pred             ccCCCCCCCCCceeeccCCcccccccccccccccccc
Q 017657          142 CCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDV  178 (368)
Q Consensus       142 ~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~  178 (368)
                      .|..|++.|.......+++.+||+.||.++|+|+=..
T Consensus         1 ~C~~C~K~LdS~~~~eh~~e~YCk~CY~k~fGPkG~G   37 (65)
T d1b8ta2           1 LCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKG   37 (65)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHHSCCCCC
T ss_pred             CchhcCCccCCCccccCCCcccchhhhccccCCCccc
Confidence            3889999999999999999999999999999998554

>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=97.35  E-value=6.6e-05  Score=45.84  Aligned_cols=30  Identities=33%  Similarity=0.791  Sum_probs=27.9

Q ss_pred             CCCCccccCCcccccCceEeecCceecCCCc
Q 017657          111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECF  141 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF  141 (368)
                      +..++|.+|+..| .|.++.+.++.+||+||
T Consensus         6 qklp~CdkCg~GI-VG~~VK~rDk~rHPeCf   35 (35)
T d1x62a2           6 QKLPMCDKCGTGI-VGVFVKLRDRHRHPECY   35 (35)
T ss_dssp             CCCCCCSSSCCCC-CSSCEECSSCEECTTTT
T ss_pred             ccCccccccCCCc-EeEEEEeccccCCCCCC
Confidence            4578999999999 89999999999999998

>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=97.31  E-value=5.2e-05  Score=46.15  Aligned_cols=31  Identities=19%  Similarity=0.546  Sum_probs=27.0

Q ss_pred             ccCCCCCcCCCCCceEEccCCcccccchhhhhc
Q 017657          214 RCCSCERMEPQDTAYVALDDGRKLCLECLDSAI  246 (368)
Q Consensus       214 ~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v  246 (368)
                      .|..|+++| .|++|+ ..|+++||..||+++.
T Consensus         1 ~C~~C~~~L-~GQry~-~rd~~PyC~~Cf~~lf   31 (32)
T d2d8za2           1 VCTACRKQL-SGQRFT-ARDDFAYCLNCFCDLY   31 (32)
T ss_dssp             BCSSSCCBC-TTSCCE-ESSSSEECHHHHHHHT
T ss_pred             CcccCCccc-cCceee-ecCCCeehHHhhHhhc
Confidence            488899998 799998 6899999999999853

>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=97.29  E-value=9.6e-05  Score=44.28  Aligned_cols=28  Identities=39%  Similarity=1.131  Sum_probs=24.1

Q ss_pred             CCccccCCcccccCceEeecCceecCCC
Q 017657          113 YRICAGCNNEIGHGRFLNCLDVFWHPEC  140 (368)
Q Consensus       113 ~~~C~~C~~~I~~g~~v~a~g~~wH~~C  140 (368)
                      ...|++|+++|.+.-+++++++.||..|
T Consensus         3 ~~~CaGC~~~I~DRflL~a~Dr~WH~~C   30 (30)
T d1j2oa1           3 LLTCGGCQQNIGDRYFLKAIDQYWHEDC   30 (30)
T ss_dssp             CBCBSSSCSCBCSSEEEECSSSEECTTT
T ss_pred             CcccCCCCCcchHHHHHHHHHHHHhcCC
Confidence            4579999999966666899999999987

>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=97.28  E-value=6.3e-05  Score=45.24  Aligned_cols=28  Identities=36%  Similarity=1.025  Sum_probs=24.2

Q ss_pred             CccccCCcccccCceEeecCceecCCCc
Q 017657          114 RICAGCNNEIGHGRFLNCLDVFWHPECF  141 (368)
Q Consensus       114 ~~C~~C~~~I~~g~~v~a~g~~wH~~CF  141 (368)
                      ..|++|+++|.+.-++.++++.||..|.
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            5799999999666668999999999884

>d1v6ga1 g.39.1.3 (A:1-41) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.28  E-value=7e-05  Score=48.23  Aligned_cols=34  Identities=21%  Similarity=0.460  Sum_probs=28.8

Q ss_pred             ccccccccccccccCccccCCCCcceEEccccccccccCCCCccCCC
Q 017657          166 SCYREHYHPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGT  212 (368)
Q Consensus       166 ~cy~~~f~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~C  212 (368)
                      .||+++|+.+|..|.++|+++   ++++.++.          ||+.|
T Consensus         8 ~DYq~~fG~~C~~C~~~ItG~---V~~Ag~~~----------yHP~C   41 (41)
T d1v6ga1           8 LDYQRLYGTRCFSCDQFIEGE---VVSALGKT----------YHPDC   41 (41)
T ss_dssp             SCGGGSCCCBCTTTCCBCCSC---CEEETTEE----------ECTTT
T ss_pred             ccHHHHhCcccccccCEeeee---eeEecCcc----------cCCCC
Confidence            589999999999999999975   68887754          58876

>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=97.27  E-value=0.00011  Score=47.67  Aligned_cols=31  Identities=32%  Similarity=0.817  Sum_probs=28.8

Q ss_pred             CCCCCccccCCcccccCceEeecCceecCCCc
Q 017657          110 PEGYRICAGCNNEIGHGRFLNCLDVFWHPECF  141 (368)
Q Consensus       110 ~~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF  141 (368)
                      .+..++|.+|+..| .|.++.+.++.+||+||
T Consensus        15 ~QkLP~CdkCg~GI-VG~~VK~rDK~rHPeCf   45 (45)
T d1x64a1          15 AQRMPLCDKCGSGI-VGAVVKARDKYRHPECF   45 (45)
T ss_dssp             CCSCCBCTTTCCBC-CSCCEESSSCEECTTTC
T ss_pred             cccCccccccCCCc-EEEEEEeccccCCCCCC
Confidence            35689999999999 89999999999999998

>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=97.27  E-value=7.2e-05  Score=47.05  Aligned_cols=32  Identities=25%  Similarity=0.444  Sum_probs=29.5

Q ss_pred             CCCCCccccCCcccccCceEeecCceecCCCc
Q 017657          110 PEGYRICAGCNNEIGHGRFLNCLDVFWHPECF  141 (368)
Q Consensus       110 ~~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF  141 (368)
                      +.....|..|++.++.-+.+.+.|+.||..||
T Consensus         5 ~g~~~~C~~C~K~VY~~Erl~a~g~~yHk~CF   36 (36)
T d2co8a2           5 AGAGDLCALCGEHLYVLERLCVNGHFFHRSCF   36 (36)
T ss_dssp             CCSSCBCSSSCCBCCTTTBCCBTTBCCBTTTC
T ss_pred             CCCCCcccccCCEEeeeeEEEecCcEeccccC
Confidence            34678999999999999999999999999998

>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=97.25  E-value=3.4e-05  Score=46.57  Aligned_cols=31  Identities=23%  Similarity=0.654  Sum_probs=28.5

Q ss_pred             ccCCCCCCCCCceeeccCCcccccccccccc
Q 017657          142 CCHACHQPITDIEFSTSENRPYHKSCYREHY  172 (368)
Q Consensus       142 ~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f  172 (368)
                      .|+.|+.+|.+.+|....|..||+.||.+.|
T Consensus         1 nCa~C~~sL~d~gFVEE~g~lYCe~Cye~ff   31 (32)
T d2dara1           1 NCAHCKNTMAYIGFVEEKGALYCELCYEKFF   31 (32)
T ss_dssp             BCSSSCCBCSSSCBEESSSCEECHHHHHHHT
T ss_pred             CcccccccHhhcceeeecCcEeHHHHHHHhc
Confidence            3899999999999999999999999998765

>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=97.20  E-value=9.1e-05  Score=43.52  Aligned_cols=26  Identities=38%  Similarity=1.078  Sum_probs=22.9

Q ss_pred             cccCCcccc---cCceEeecCceecCCCc
Q 017657          116 CAGCNNEIG---HGRFLNCLDVFWHPECF  141 (368)
Q Consensus       116 C~~C~~~I~---~g~~v~a~g~~wH~~CF  141 (368)
                      |+.|.+||.   .+.+|+..++.||..||
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            889999993   24889999999999998

>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=97.11  E-value=6e-05  Score=47.35  Aligned_cols=32  Identities=22%  Similarity=0.415  Sum_probs=27.2

Q ss_pred             CccCCCCCcCCCCCceEEccCCcccccchhhhhc
Q 017657          213 PRCCSCERMEPQDTAYVALDDGRKLCLECLDSAI  246 (368)
Q Consensus       213 f~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v  246 (368)
                      |+|+.|++++. +..|+ ..||++||..||+.+.
T Consensus         1 F~C~~C~~~f~-~~~F~-e~~G~pYCe~~Y~~lF   32 (35)
T d1g47a2           1 FVCAQCFQQFP-EGLFY-EFEGRKYCEHDFQMLF   32 (35)
T ss_dssp             CCCTTTCCCCG-GGCSE-EETTEEECHHHHHHHC
T ss_pred             CCCCCCcCCCC-CCCeE-EECCEecChHhHHhhc
Confidence            78999999995 66777 4699999999999854

>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=97.07  E-value=6.6e-05  Score=45.41  Aligned_cols=32  Identities=19%  Similarity=0.625  Sum_probs=28.5

Q ss_pred             ccCCCCCCCCCceeeccCCccccc-cccccccc
Q 017657          142 CCHACHQPITDIEFSTSENRPYHK-SCYREHYH  173 (368)
Q Consensus       142 ~C~~C~~~L~~~~f~~~dg~~yC~-~cy~~~f~  173 (368)
                      +|..|++.|.......++|+|||. .||..+|+
T Consensus         1 kCekC~ktL~~G~HaEH~gkPYC~~PCY~aLFG   33 (33)
T d2cu8a2           1 KCERCSKTLTPGGHAEHDGKPFCHKPCYATLFG   33 (33)
T ss_dssp             BCSSSCCBCCTTSCEEETTEEECTTTHHHHHSC
T ss_pred             CchhcccccCCCCccccCCCcCcCcchHHhhcC
Confidence            588999999999999999999996 59988764

>d1v6ga1 g.39.1.3 (A:1-41) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.04  E-value=0.00015  Score=46.61  Aligned_cols=31  Identities=26%  Similarity=0.538  Sum_probs=28.2

Q ss_pred             CCCCCCccccCCcccccCceEeecCceecCCC
Q 017657          109 FPEGYRICAGCNNEIGHGRFLNCLDVFWHPEC  140 (368)
Q Consensus       109 ~~~~~~~C~~C~~~I~~g~~v~a~g~~wH~~C  140 (368)
                      ...+...|..|++.| .|++|.|.++.|||+|
T Consensus        11 q~~fG~~C~~C~~~I-tG~V~~Ag~~~yHP~C   41 (41)
T d1v6ga1          11 QRLYGTRCFSCDQFI-EGEVVSALGKTYHPDC   41 (41)
T ss_dssp             GGSCCCBCTTTCCBC-CSCCEEETTEEECTTT
T ss_pred             HHHhCcccccccCEe-eeeeeEecCcccCCCC
Confidence            336788999999999 8999999999999998

>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=96.99  E-value=6.3e-05  Score=44.30  Aligned_cols=30  Identities=23%  Similarity=0.578  Sum_probs=24.4

Q ss_pred             CccCCCCCcCCCCCceEEccCCcccccchhhh
Q 017657          213 PRCCSCERMEPQDTAYVALDDGRKLCLECLDS  244 (368)
Q Consensus       213 f~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~  244 (368)
                      |+|..|++.|....  +..+||.+||+.||.+
T Consensus         1 frca~cgk~lestt--~adkdgeiyck~cyak   30 (31)
T d1ibia2           1 FRCAKCGKSLESTT--LTEKEGEIYCKGCYAK   30 (31)
T ss_dssp             EECSSSCCEECSSC--SEEETTEEECHHHHHH
T ss_pred             CccccccCccccce--eeccCCcEEEeeeeec
Confidence            68999999874433  4578999999999975

>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=96.99  E-value=5.1e-05  Score=46.25  Aligned_cols=24  Identities=25%  Similarity=0.295  Sum_probs=21.8

Q ss_pred             cCCCCCCCCCcccCCcccccceeee
Q 017657          289 DGEKNGYYHMPETRGLCLSEEQTVT  313 (368)
Q Consensus       289 ~~e~~g~~~~~~~~G~~~~E~~~~~  313 (368)
                      |++|.|+.|| |++|++|||.||+.
T Consensus         7 ekPF~G~rhy-E~~g~ayCe~Hy~q   30 (35)
T d1u5sb2           7 EKPFLGHRHY-ERKGLAYCETHYNQ   30 (35)
T ss_dssp             CCBCSSSCCE-EETTEEECHHHHHH
T ss_pred             CCccCCchhh-hhcCchHHHHHHHH
Confidence            6788999998 99999999999974

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

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

Probab=96.99  E-value=7.9e-05  Score=45.01  Aligned_cols=32  Identities=31%  Similarity=0.770  Sum_probs=29.2

Q ss_pred             ccCCCCCCCCCceeeccCCccccccccccccc
Q 017657          142 CCHACHQPITDIEFSTSENRPYHKSCYREHYH  173 (368)
Q Consensus       142 ~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~  173 (368)
                      .|..|.+||+.++|..+++..||-.||.+.|+
T Consensus         1 ~C~~C~qPIGtksfipk~~~~yCvpCyE~kfA   32 (32)
T d1x4ka1           1 ICHRCQQPIGTKSFIPKDNQNFCVPCYEKQHA   32 (32)
T ss_dssp             CCSSSCCCCCSSSEEEETTEEEEHHHHHHHTS
T ss_pred             CcccccCcccccccccCCCCceEeecchhhcC
Confidence            38899999999999999999999999998764

>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=96.91  E-value=8.9e-05  Score=44.70  Aligned_cols=32  Identities=25%  Similarity=0.726  Sum_probs=29.0

Q ss_pred             ccCCCCCCCCCceeeccCCccccccccccccc
Q 017657          142 CCHACHQPITDIEFSTSENRPYHKSCYREHYH  173 (368)
Q Consensus       142 ~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~  173 (368)
                      .|..|.+||+.++|...++..||-.||.++|+
T Consensus         1 ~C~~C~qPIGtkSFip~~~~~yCvpCYE~kfA   32 (32)
T d1wyha1           1 LCSGCEQPLGSRSFVPDKGAHYCVPCYENKFA   32 (32)
T ss_dssp             BCTTTCCBTTTSCEEEETTEEEEHHHHHHHTS
T ss_pred             CcccccCcccccccccCCCcEEEEeccccccC
Confidence            38899999999999999999999999998764

>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=96.90  E-value=0.00011  Score=43.57  Aligned_cols=29  Identities=24%  Similarity=0.745  Sum_probs=27.0

Q ss_pred             ccCCCCCCCCCceeeccCCcccccccccc
Q 017657          142 CCHACHQPITDIEFSTSENRPYHKSCYRE  170 (368)
Q Consensus       142 ~C~~C~~~L~~~~f~~~dg~~yC~~cy~~  170 (368)
                      .|..|+++|+++.|...++++||-+||+.
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            48999999999999999999999999974

>d1x4ka2 g.39.1.3 (A:8-34) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=96.89  E-value=0.00028  Score=40.47  Aligned_cols=26  Identities=35%  Similarity=0.851  Sum_probs=23.6

Q ss_pred             cccCCcccccC-ceEeecCceecCCCc
Q 017657          116 CAGCNNEIGHG-RFLNCLDVFWHPECF  141 (368)
Q Consensus       116 C~~C~~~I~~g-~~v~a~g~~wH~~CF  141 (368)
                      |..|.+.|.+| +.+...|..||..||
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            78999999887 678899999999998

>d1x68a1 g.39.1.3 (A:8-36) Four and a half LIM domains protein 5, FHL-5 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 5, FHL-5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.84  E-value=0.00022  Score=41.82  Aligned_cols=26  Identities=38%  Similarity=1.030  Sum_probs=22.5

Q ss_pred             cccCCccccc---CceEeecCceecCCCc
Q 017657          116 CAGCNNEIGH---GRFLNCLDVFWHPECF  141 (368)
Q Consensus       116 C~~C~~~I~~---g~~v~a~g~~wH~~CF  141 (368)
                      |..|.+||.-   +.+|+..++.||.+||
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            7899999932   3789999999999998

>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=96.68  E-value=0.0004  Score=41.98  Aligned_cols=31  Identities=23%  Similarity=0.595  Sum_probs=28.8

Q ss_pred             CCCCccccCCcccccCceEeecCceecCCCc
Q 017657          111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECF  141 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF  141 (368)
                      .+...|+.|.+.++..+-|.+.|++||..||
T Consensus         5 ggg~kcg~c~ktvy~aeevqc~g~sfhk~cf   35 (35)
T d1b8ta1           5 GGGKKCGVCQKAVYFAEEVQCEGSSFHKSCF   35 (35)
T ss_dssp             CCCEECTTTCCEECSSCCEEETTEEECTTTC
T ss_pred             CCCceeccccceEeeeeeeeecCcccccccC
Confidence            4678999999999999999999999999998

>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=96.67  E-value=0.00042  Score=40.17  Aligned_cols=27  Identities=19%  Similarity=0.525  Sum_probs=24.8

Q ss_pred             CccccCCcccccCceEeecCceecCCC
Q 017657          114 RICAGCNNEIGHGRFLNCLDVFWHPEC  140 (368)
Q Consensus       114 ~~C~~C~~~I~~g~~v~a~g~~wH~~C  140 (368)
                      ..|.+|++.++..+.|.-.|+.||..|
T Consensus         2 d~CpRC~~~VyaAEkviGaG~~WHk~C   28 (28)
T d1ibia1           2 EKCSRCGDSVYAAEKVIGAGKPWHKNC   28 (28)
T ss_dssp             EECTTTSSEESSSSCEESSSSEECSSC
T ss_pred             CcCcccchhHHHHHHHhcCCCccccCC
Confidence            479999999999999999999999987

>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=96.62  E-value=0.00015  Score=43.25  Aligned_cols=31  Identities=26%  Similarity=0.703  Sum_probs=28.0

Q ss_pred             cCCCCCCCCCceeeccCCccccccccccccc
Q 017657          143 CHACHQPITDIEFSTSENRPYHKSCYREHYH  173 (368)
Q Consensus       143 C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~  173 (368)
                      |..|++.|.......+++.+||+.||.+.|+
T Consensus         2 C~~C~K~LdStTva~h~~eiYCKsCygkkyg   32 (32)
T d1a7ia2           2 CMVCRKNLDSTTVAIHDAEVYCKSCYGKKYG   32 (32)
T ss_dssp             CSSSCCEECSSCCEEETTEEECSHHHHHHCC
T ss_pred             chhhhhccCcceeeeecceEEehhhccccCC
Confidence            7889999999999999999999999987653

>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=96.60  E-value=0.00066  Score=38.94  Aligned_cols=27  Identities=26%  Similarity=0.668  Sum_probs=25.8

Q ss_pred             ccccCCcccccCceEeecCceecCCCc
Q 017657          115 ICAGCNNEIGHGRFLNCLDVFWHPECF  141 (368)
Q Consensus       115 ~C~~C~~~I~~g~~v~a~g~~wH~~CF  141 (368)
                      .|+.|.+.++..+-|.+.|++||..||
T Consensus         2 kcg~c~ktvy~aeevqc~grsfhk~cf   28 (28)
T d1a7ia1           2 KCGACGRTVYHAEEVQCDGRSFHRCCF   28 (28)
T ss_dssp             BCSSSCCBCSSTTEEEETTEEEESSSE
T ss_pred             ccccccceEeeeeeeeecCceeccccC
Confidence            699999999999999999999999998

>d1wyha2 g.39.1.3 (A:8-34) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=96.57  E-value=0.00057  Score=39.08  Aligned_cols=26  Identities=35%  Similarity=0.862  Sum_probs=23.4

Q ss_pred             cccCCcccccC-ceEeecCceecCCCc
Q 017657          116 CAGCNNEIGHG-RFLNCLDVFWHPECF  141 (368)
Q Consensus       116 C~~C~~~I~~g-~~v~a~g~~wH~~CF  141 (368)
                      |..|.+.|.+| +.+...|..||..||
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            78899999887 668899999999998

>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=0.00042  Score=41.17  Aligned_cols=29  Identities=28%  Similarity=0.733  Sum_probs=26.6

Q ss_pred             ccCCCCCCCCCceeeccCCcccccccccc
Q 017657          142 CCHACHQPITDIEFSTSENRPYHKSCYRE  170 (368)
Q Consensus       142 ~C~~C~~~L~~~~f~~~dg~~yC~~cy~~  170 (368)
                      .|..|+..|.++.|+..+.+.||+.||..
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

>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=96.44  E-value=0.0009  Score=40.59  Aligned_cols=33  Identities=21%  Similarity=0.508  Sum_probs=30.2

Q ss_pred             CccCCCCCcCCCCCceEEccCCcccccchhhhh
Q 017657          213 PRCCSCERMEPQDTAYVALDDGRKLCLECLDSA  245 (368)
Q Consensus       213 f~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~  245 (368)
                      |.|.+|+..+..++.|..++..++||..||.+.
T Consensus         1 F~C~~C~~fIgdgdsyaLVerskLYCG~Cy~~~   33 (34)
T d1x6aa2           1 FACMSCKVIIEDGDAYALVQHATLYCGKCHNEV   33 (34)
T ss_dssp             CBCTTTCCBCCTTSCEEECSSSCEEEHHHHHHH
T ss_pred             CcccccccEEecCceEEEEeeceeeeecchhcc
Confidence            689999999999999999999999999999864

>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=96.27  E-value=0.0011  Score=39.19  Aligned_cols=29  Identities=17%  Similarity=0.700  Sum_probs=25.1

Q ss_pred             ccCCCCCcCCCCCceEEccCCcccccchhhh
Q 017657          214 RCCSCERMEPQDTAYVALDDGRKLCLECLDS  244 (368)
Q Consensus       214 ~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~  244 (368)
                      .|.+|.+.| .|.+|... +.+.||.+||+.
T Consensus         1 vC~~C~K~L-ag~rFTa~-eDq~yCVdCYK~   29 (31)
T d2cura1           1 VCVTCSKKL-AGQRFTAV-EDQYYCVDCYKN   29 (31)
T ss_dssp             BCTTTCCBC-TTSCEEEC-SSCEEEHHHHHH
T ss_pred             Ccccccchh-cCceeEEe-cceEEEeeeecc
Confidence            489999998 79999865 779999999986

>d1rutx3 g.39.1.3 (X:83-113) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.18  E-value=0.00095  Score=40.21  Aligned_cols=29  Identities=21%  Similarity=0.622  Sum_probs=24.7

Q ss_pred             CCccccCCcccccCce-EeecCceecCCCc
Q 017657          113 YRICAGCNNEIGHGRF-LNCLDVFWHPECF  141 (368)
Q Consensus       113 ~~~C~~C~~~I~~g~~-v~a~g~~wH~~CF  141 (368)
                      ...|++|++.|...+. .++.+..||..||
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            3579999999977665 5799999999998

>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=96.16  E-value=0.0014  Score=39.19  Aligned_cols=31  Identities=16%  Similarity=0.533  Sum_probs=26.4

Q ss_pred             ccCCCCCcCCCCCceEEccCCcccccchhhhhc
Q 017657          214 RCCSCERMEPQDTAYVALDDGRKLCLECLDSAI  246 (368)
Q Consensus       214 ~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v  246 (368)
                      .|..|.++| .|++|. ..|..+||..||..+.
T Consensus         1 vCt~Ck~~L-aGqrFT-Srde~pYC~~Cfg~Lf   31 (32)
T d2cuqa1           1 VCTGCQTPL-AGQQFT-SRDEDPYCVACFGELF   31 (32)
T ss_dssp             BCSSSCCBC-TTCCEE-ECSSSEEEHHHHHHHT
T ss_pred             CccccCccc-cCCccc-cCCCCccHHHHhHhhc
Confidence            488999998 799997 4799999999998753

>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=96.13  E-value=0.0016  Score=38.56  Aligned_cols=28  Identities=36%  Similarity=0.815  Sum_probs=25.8

Q ss_pred             CCCccccCCcccccCceEeecCceecCCC
Q 017657          112 GYRICAGCNNEIGHGRFLNCLDVFWHPEC  140 (368)
Q Consensus       112 ~~~~C~~C~~~I~~g~~v~a~g~~wH~~C  140 (368)
                      +..-|..|.+.| .|+++.+.++.|||.|
T Consensus         4 gssgC~~C~~~I-tGkVLEAG~khYHP~C   31 (32)
T d1wiga1           4 GSSGCDSCEKYI-TGRVLEAGEKHYHPSC   31 (32)
T ss_dssp             SCCSCSSSCCCC-SSCCBCCSSCCBCTTT
T ss_pred             ccchhhhhhhhh-hhhhhhccccccCCCC
Confidence            566799999999 8999999999999988

>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=95.95  E-value=0.00092  Score=40.70  Aligned_cols=32  Identities=16%  Similarity=0.465  Sum_probs=27.8

Q ss_pred             ccCCCCCCCCCceeec-cCCccccccccccccc
Q 017657          142 CCHACHQPITDIEFST-SENRPYHKSCYREHYH  173 (368)
Q Consensus       142 ~C~~C~~~L~~~~f~~-~dg~~yC~~cy~~~f~  173 (368)
                      +|..|++.|.+..|.. .++++||-.||+++|+
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            5889999999999987 4779999999998763

>d2cupa3 g.39.1.3 (A:8-34) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=95.94  E-value=0.0024  Score=36.34  Aligned_cols=26  Identities=35%  Similarity=0.988  Sum_probs=22.0

Q ss_pred             cccCCcccccC-ceEeecCceecCCCc
Q 017657          116 CAGCNNEIGHG-RFLNCLDVFWHPECF  141 (368)
Q Consensus       116 C~~C~~~I~~g-~~v~a~g~~wH~~CF  141 (368)
                      |.-|.+||+.. .-+...++.||..||
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            78899999643 557889999999998

>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=95.90  E-value=0.00091  Score=39.59  Aligned_cols=29  Identities=17%  Similarity=0.382  Sum_probs=25.9

Q ss_pred             ccCCCCCCCCCceeeccCCcccccccccc
Q 017657          142 CCHACHQPITDIEFSTSENRPYHKSCYRE  170 (368)
Q Consensus       142 ~C~~C~~~L~~~~f~~~dg~~yC~~cy~~  170 (368)
                      .|+.|+..|..+++|..++++||+.+...
T Consensus         1 vC~dCg~NLKqrG~Ffv~~~lyCE~HAr~   29 (31)
T d1x64a2           1 VCADCNLNLKQKGYFFVEGELYCETHARA   29 (31)
T ss_dssp             CCSSSCCCTTTSCCEEETTEEECHHHHHH
T ss_pred             CccccccChhhcceEEeccEEeehhhhhc
Confidence            48999999999999999999999988654

>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=95.78  E-value=0.0024  Score=41.65  Aligned_cols=28  Identities=18%  Similarity=0.330  Sum_probs=23.1

Q ss_pred             cccccccCccccCCCCcceEEccccccccccCCCCccCCCC
Q 017657          173 HPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTP  213 (368)
Q Consensus       173 ~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf  213 (368)
                      .|+|..|+++|.+.   +|++.++.          ||++||
T Consensus        18 ~P~C~~C~~pI~g~---~vtAlgk~----------WHPEhF   45 (45)
T d2dara2          18 TPMCAHCNQVIRGP---FLVALGKS----------WHPEEF   45 (45)
T ss_dssp             CCBBSSSCCBCCSC---EEEETTEE----------ECTTTC
T ss_pred             CeeccccCCcccCc---eeeecCCc----------cCcCCC
Confidence            68999999999964   79999764          577776

>d2cora1 g.39.1.3 (A:43-73) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=95.67  E-value=0.003  Score=37.12  Aligned_cols=28  Identities=29%  Similarity=0.718  Sum_probs=23.8

Q ss_pred             ccCCCCCcCCCCCceEEccCCcccccchhhh
Q 017657          214 RCCSCERMEPQDTAYVALDDGRKLCLECLDS  244 (368)
Q Consensus       214 ~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~  244 (368)
                      .|..|++.++.+.+-.   +|.+||++|+++
T Consensus         1 nC~~CgkeltadArEl---~geLyCLpChdK   28 (31)
T d2cora1           1 NCANCGKELTADAREL---KGELYCLPCHDK   28 (31)
T ss_dssp             BCSSSCCBCCTTCEEE---TTEEECHHHHHT
T ss_pred             CccccccccchhHHHh---cCCEEEEecccc
Confidence            3889999998777643   899999999998

>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=95.65  E-value=0.003  Score=38.32  Aligned_cols=29  Identities=24%  Similarity=0.482  Sum_probs=23.6

Q ss_pred             ccCCCCCcCCCCCceEEccCCcccccchhhh
Q 017657          214 RCCSCERMEPQDTAYVALDDGRKLCLECLDS  244 (368)
Q Consensus       214 ~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~  244 (368)
                      +|..|.+++. +..|+.+ ||++||..+|++
T Consensus         1 VC~~C~~PF~-~~~Fy~~-~g~PyCe~HyH~   29 (32)
T d1x3ha2           1 VCGDCFTSFS-TGSFFEL-DGRPFCELHYHH   29 (32)
T ss_dssp             BCSSSCCBSC-SSCCEES-SSCEECHHHHHH
T ss_pred             CcCccCCcCC-CCCeEeE-CCccchHHhhhh
Confidence            5899999995 5556644 999999999986

>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=95.57  E-value=0.0029  Score=36.96  Aligned_cols=28  Identities=18%  Similarity=0.305  Sum_probs=21.7

Q ss_pred             ccccCccccCCC-CcceEEccccccccccCCCCccCCCC
Q 017657          176 CDVCKHFIPSNH-GGLIEYRAHPFWVQKYCPSHEHDGTP  213 (368)
Q Consensus       176 C~~C~~~I~~~~-~~~i~~~~~pfw~~~yC~~h~H~~Cf  213 (368)
                      |..|.+||++-. .++|++.+          ++||..||
T Consensus         1 C~~C~kPItg~gg~kyisFE~----------R~WH~~CF   29 (29)
T d1x4la1           1 CAGCTNPISGLGGTKYISFEE----------RQWHNDCF   29 (29)
T ss_dssp             BTTTTBCCCCSSSCSCEECSS----------CEECTTTC
T ss_pred             CCccCCcccccCCceEEEeec----------ccccccCC
Confidence            788999999753 34788876          46799997

>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=95.45  E-value=0.0035  Score=38.09  Aligned_cols=31  Identities=16%  Similarity=0.395  Sum_probs=27.7

Q ss_pred             ccCCCCCcCCCCCceEEccCCcccccchhhhh
Q 017657          214 RCCSCERMEPQDTAYVALDDGRKLCLECLDSA  245 (368)
Q Consensus       214 ~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~  245 (368)
                      .|..|++.| .|.+|....++++||.++|++.
T Consensus         1 tCvvC~~~L-DGvPFtvD~~n~i~Cv~DyHrk   31 (33)
T d2dloa2           1 TCVVCHRGL-DGIPFTVDATSQIHCIEDFHRK   31 (33)
T ss_dssp             BCSSSCCBC-TTSCEECCTTCCCEEHHHHHHH
T ss_pred             CeeEcCccc-CCCcEEEcCCCCEeehhhhhhh
Confidence            488999988 7999998899999999999874

>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=95.42  E-value=0.0049  Score=37.32  Aligned_cols=32  Identities=28%  Similarity=0.641  Sum_probs=28.1

Q ss_pred             CCCCCCCccccCCcccccCceEeecCceecCCC
Q 017657          108 QFPEGYRICAGCNNEIGHGRFLNCLDVFWHPEC  140 (368)
Q Consensus       108 ~~~~~~~~C~~C~~~I~~g~~v~a~g~~wH~~C  140 (368)
                      |.+.+...|.+|.+.| .|.++.+....|||+|
T Consensus         3 Yw~kfge~C~~C~~~i-tGpvMvAG~~K~HPEC   34 (34)
T d1x6aa1           3 YWGKFGEFCHGCSLLM-TGPFMVAGEFKYHPEC   34 (34)
T ss_dssp             SSCCSSCBCTTTCCBC-CSCCBCCTTCCBCTTS
T ss_pred             HHHHHHHHhhhhHhhc-ccceeeecccccCCCC
Confidence            4556889999999977 7999999999999998

>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=95.35  E-value=0.0036  Score=37.94  Aligned_cols=29  Identities=10%  Similarity=0.276  Sum_probs=21.7

Q ss_pred             ccccccccccccccCccccCCCCcceEEcccc
Q 017657          166 SCYREHYHPKCDVCKHFIPSNHGGLIEYRAHP  197 (368)
Q Consensus       166 ~cy~~~f~p~C~~C~~~I~~~~~~~i~~~~~p  197 (368)
                      .+|+.+|+..|..|...|++.   ++.+-.+.
T Consensus         1 kdYw~kfge~C~~C~~~itGp---vMvAG~~K   29 (34)
T d1x6aa1           1 KDYWGKFGEFCHGCSLLMTGP---FMVAGEFK   29 (34)
T ss_dssp             CCSSCCSSCBCTTTCCBCCSC---CBCCTTCC
T ss_pred             CcHHHHHHHHhhhhHhhcccc---eeeecccc
Confidence            378999999999999999853   34444443

>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=95.12  E-value=0.0027  Score=37.19  Aligned_cols=31  Identities=23%  Similarity=0.475  Sum_probs=27.6

Q ss_pred             ccCCCCCCCCCceeeccCCcccccccccccc
Q 017657          142 CCHACHQPITDIEFSTSENRPYHKSCYREHY  172 (368)
Q Consensus       142 ~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f  172 (368)
                      +|+.|++.|+...|+..+...||-.|....|
T Consensus         1 tcs~ckq~igsgsffpkg~d~ycvtche~kf   31 (32)
T d1x63a2           1 TCSNCKQVIGTGSFFPKGEDFYCVTCHETKF   31 (32)
T ss_dssp             CCSSSCCCCTTSCEEEETTEEEEHHHHHHHT
T ss_pred             CcchhhhhcccccccCCCCcEEEEEeecccc
Confidence            5889999999999999999999999987665

>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=95.07  E-value=0.006  Score=40.60  Aligned_cols=36  Identities=25%  Similarity=0.413  Sum_probs=27.5

Q ss_pred             ccCCCCCcCCCCCceEEccCCcccccchhhhhccCCCCCC
Q 017657          214 RCCSCERMEPQDTAYVALDDGRKLCLECLDSAIMDTNECQ  253 (368)
Q Consensus       214 ~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~~~~~C~  253 (368)
                      +|..|.+.|.... . ..+|+++||+.||.+  .+.++..
T Consensus         1 KC~~C~k~Lds~t-~-~ehdg~~YCk~CY~k--~fGPKG~   36 (49)
T d1b8ta4           1 RCAKCGKSLESTT-L-ADKDGEIYCKGCYAK--NFGPKGF   36 (49)
T ss_dssp             BCTTTCCBCCSSS-E-EEETTEEEEHHHHHH--HTCCCCC
T ss_pred             ChhhcCCccCCCc-c-cccCCcccchhhhhh--ccCCCcc
Confidence            5999999996544 3 358999999999998  4555543

>d1x61a2 g.39.1.3 (A:35-66) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=95.07  E-value=0.0057  Score=36.18  Aligned_cols=29  Identities=21%  Similarity=0.589  Sum_probs=25.0

Q ss_pred             ccCCCCCcCCCCCceEEccCCcccccchhhh
Q 017657          214 RCCSCERMEPQDTAYVALDDGRKLCLECLDS  244 (368)
Q Consensus       214 ~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~  244 (368)
                      .|..|+..| +|+.|+.+ +.+.||..||-.
T Consensus         1 vC~tC~~kL-RGqpFYAv-ekkayCE~CYi~   29 (32)
T d1x61a2           1 VCSTCRAQL-RGQHFYAV-ERRAYCEGCYVA   29 (32)
T ss_dssp             BCSSSCCBC-TTSCEEES-SSCEEEHHHHHH
T ss_pred             CeeEeCcee-cCCcceEe-eccccccceeee
Confidence            488999888 89999987 889999999854

>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=95.06  E-value=0.0035  Score=40.42  Aligned_cols=32  Identities=22%  Similarity=0.495  Sum_probs=25.9

Q ss_pred             ccCCCCCcCCCCCceEEccCCcccccchhhhhcc
Q 017657          214 RCCSCERMEPQDTAYVALDDGRKLCLECLDSAIM  247 (368)
Q Consensus       214 ~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~v~  247 (368)
                      +|..|++.|..+ .|.. .+|.+||+.||..+++
T Consensus         1 rC~~C~~~Ls~~-~yas-~~G~lYCkpHf~qLF~   32 (42)
T d2d8ya2           1 RCSYCNNKLSLG-TYAS-LHGRIYCKPHFNQLFK   32 (42)
T ss_dssp             BCTTTCCBCCTT-TCCC-SSSCCCCHHHHHHHSC
T ss_pred             CcCcCCCCccCC-cchh-hCCEeccHHHHHHHHH
Confidence            699999998554 5664 5999999999998654

>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=95.06  E-value=0.001  Score=39.44  Aligned_cols=29  Identities=21%  Similarity=0.371  Sum_probs=25.8

Q ss_pred             ccCCCCCCCCCceeeccCCcccccccccc
Q 017657          142 CCHACHQPITDIEFSTSENRPYHKSCYRE  170 (368)
Q Consensus       142 ~C~~C~~~L~~~~f~~~dg~~yC~~cy~~  170 (368)
                      .|+.|+..|..+++|..++++||+.+...
T Consensus         1 vC~dCg~NLKqrG~Ffve~~lyCE~HAr~   29 (31)
T d1x62a1           1 VCTDCGTNLKQKGHFFVEDQIYCEKHARE   29 (31)
T ss_dssp             SCSSSCCCHHHHCCEESSSCEECHHHHHH
T ss_pred             CccccccChhhcceEEeccEEehhhhhhh
Confidence            48999999999999999999999988654

>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=95.05  E-value=0.0078  Score=33.65  Aligned_cols=26  Identities=38%  Similarity=0.991  Sum_probs=22.5

Q ss_pred             cccCCccc-ccCceEeecCceecCCCc
Q 017657          116 CAGCNNEI-GHGRFLNCLDVFWHPECF  141 (368)
Q Consensus       116 C~~C~~~I-~~g~~v~a~g~~wH~~CF  141 (368)
                      |.+|++.+ .+|.-+.++++.||..||
T Consensus         1 cggcgedvvgdgagvvaldrvfhvgcf   27 (27)
T d1x61a1           1 CGGCGEDVVGDGAGVVALDRVFHVGCF   27 (27)
T ss_dssp             CSSSCSCCCSSSCCEECSSSEECTTTC
T ss_pred             CCCcccccccCCcceEEEeeeEEeccC
Confidence            88999976 456778999999999998

>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=94.96  E-value=0.00079  Score=40.34  Aligned_cols=28  Identities=18%  Similarity=0.245  Sum_probs=24.6

Q ss_pred             cCCCCCCcchHhHHHHHHHhccccccccchhhHhHHHHHhhhcCC
Q 017657          247 MDTNECQPLYLDIQEFYESIHMKLEQQIPLLLVERQALNEARDGE  291 (368)
Q Consensus       247 ~~~~~C~~c~~~I~~f~e~~~~~i~~~~p~~lv~~~aLn~~~~~e  291 (368)
                      |+.+.|++|.           .||.+++      +.||++.|+.|
T Consensus         3 mg~p~C~~C~-----------~PI~~~~------vtAlgk~WHpE   30 (31)
T d1u5sb1           3 MGVPICGACR-----------RPIEGRV------VNAMGKQWHVE   30 (31)
T ss_dssp             CCCCEETTTT-----------EECCSCE------ECCTTSBEETT
T ss_pred             cCCcchhhcC-----------CchhhhH------hhhhccccCCC
Confidence            7889999999           6777888      89999999876

>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=94.87  E-value=0.0065  Score=36.14  Aligned_cols=29  Identities=21%  Similarity=0.536  Sum_probs=23.6

Q ss_pred             ccCCCCCcCCCCCceEEccCCcccccchhhhh
Q 017657          214 RCCSCERMEPQDTAYVALDDGRKLCLECLDSA  245 (368)
Q Consensus       214 ~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~  245 (368)
                      +|..|+++|  ...|+ -+||.+||..+|++.
T Consensus         1 kC~~C~~vL--~gEYm-~kdG~PyCe~DY~~~   29 (31)
T d2dj7a1           1 KCQTCSVIL--TGEYI-SKDGVPYCESDYHAQ   29 (31)
T ss_dssp             BCSSSCCBC--SSCCE-EETTEEECTTHHHHH
T ss_pred             CccccCccc--cceee-cCCCCcccHHHHHHh
Confidence            589999988  34566 579999999999873

>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=94.76  E-value=0.0045  Score=36.07  Aligned_cols=28  Identities=21%  Similarity=0.332  Sum_probs=21.4

Q ss_pred             ccccCccccCCC-CcceEEccccccccccCCCCccCCCC
Q 017657          176 CDVCKHFIPSNH-GGLIEYRAHPFWVQKYCPSHEHDGTP  213 (368)
Q Consensus       176 C~~C~~~I~~~~-~~~i~~~~~pfw~~~yC~~h~H~~Cf  213 (368)
                      |..|.+||++-. ..+|.+..          +|||.+||
T Consensus         1 C~~C~kPItg~gG~k~isFed----------R~WH~~CF   29 (29)
T d1x68a1           1 CVACSKPISGLTGAKFICFQD----------SQWHSECF   29 (29)
T ss_dssp             CTTTCCCCCTTTTCCEEEETT----------EEEEGGGC
T ss_pred             CccccccccccCCceEEEeeh----------hhcccccC
Confidence            788999998753 34788876          46799887

>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=94.74  E-value=0.008  Score=35.95  Aligned_cols=30  Identities=20%  Similarity=0.588  Sum_probs=25.3

Q ss_pred             ccCCCCCcCCCCCceEEccCCcccccchhhhh
Q 017657          214 RCCSCERMEPQDTAYVALDDGRKLCLECLDSA  245 (368)
Q Consensus       214 ~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~  245 (368)
                      .|+.|.+.+ .+..|+. .+|.+||..||++-
T Consensus         1 nCa~C~~sL-~d~gFVE-E~g~lYCe~Cye~f   30 (32)
T d2dara1           1 NCAHCKNTM-AYIGFVE-EKGALYCELCYEKF   30 (32)
T ss_dssp             BCSSSCCBC-SSSCBEE-SSSCEECHHHHHHH
T ss_pred             CcccccccH-hhcceee-ecCcEeHHHHHHHh
Confidence            388899988 6888984 69999999999873

>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=94.43  E-value=0.011  Score=38.87  Aligned_cols=30  Identities=20%  Similarity=0.573  Sum_probs=24.6

Q ss_pred             ccCCCCCcCCCCCceEEccCCcccc-cchhhhh
Q 017657          214 RCCSCERMEPQDTAYVALDDGRKLC-LECLDSA  245 (368)
Q Consensus       214 ~C~~C~r~l~~~~~f~~~~dg~~~C-~~C~~~~  245 (368)
                      +|..|++.|..+.  ...+|+++|| +.||..+
T Consensus         1 kC~~C~K~L~sg~--~aeHdg~pYC~k~CY~~~   31 (48)
T d1imla2           1 KCEKCGKTLTSGG--HAEHEGKPYCNHPCYSAM   31 (48)
T ss_dssp             BCTTTCCBCCTTT--EEEETTEEEETTTHHHHH
T ss_pred             CchhcCcCcCCCC--hhhcCCcccccccchhhc
Confidence            5899999996554  4578999999 8899884

>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=94.41  E-value=0.01  Score=35.48  Aligned_cols=30  Identities=17%  Similarity=0.668  Sum_probs=23.4

Q ss_pred             ccCCCCCcCCCCCceEEccCCcccccchhhhh
Q 017657          214 RCCSCERMEPQDTAYVALDDGRKLCLECLDSA  245 (368)
Q Consensus       214 ~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~  245 (368)
                      .|..|++++ ....|+ -+++..||..||++.
T Consensus         1 ~C~~C~qPI-Gtksfi-pk~~~~yCvpCyE~k   30 (32)
T d1x4ka1           1 ICHRCQQPI-GTKSFI-PKDNQNFCVPCYEKQ   30 (32)
T ss_dssp             CCSSSCCCC-CSSSEE-EETTEEEEHHHHHHH
T ss_pred             CcccccCcc-cccccc-cCCCCceEeecchhh
Confidence            388999877 345566 579999999999974

>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=94.30  E-value=0.012  Score=35.15  Aligned_cols=30  Identities=27%  Similarity=0.774  Sum_probs=23.4

Q ss_pred             ccCCCCCcCCCCCceEEccCCcccccchhhhh
Q 017657          214 RCCSCERMEPQDTAYVALDDGRKLCLECLDSA  245 (368)
Q Consensus       214 ~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~  245 (368)
                      .|.+|++++ ....|+. +++..||..||++.
T Consensus         1 ~C~~C~qPI-GtkSFip-~~~~~yCvpCYE~k   30 (32)
T d1wyha1           1 LCSGCEQPL-GSRSFVP-DKGAHYCVPCYENK   30 (32)
T ss_dssp             BCTTTCCBT-TTSCEEE-ETTEEEEHHHHHHH
T ss_pred             CcccccCcc-ccccccc-CCCcEEEEeccccc
Confidence            388999977 3455664 68899999999974

>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=93.55  E-value=0.018  Score=32.64  Aligned_cols=27  Identities=22%  Similarity=0.434  Sum_probs=19.7

Q ss_pred             ccccCccccCCCCcceEEccccccccccCCCCccCCCC
Q 017657          176 CDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTP  213 (368)
Q Consensus       176 C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf  213 (368)
                      |..|.+||... ++-+.++++          +||+.||
T Consensus         1 c~ecrkpigad-~ke~h~knr----------~wh~~cf   27 (27)
T d2cupa3           1 CVECRKPIGAD-SKEVHYKNR----------FWHDTCF   27 (27)
T ss_dssp             CSSSCCBCCSS-SCEEEETTE----------EEETTTC
T ss_pred             CccccCCcCcc-hHHhhcccc----------ccccccC
Confidence            67799999765 355666653          5799998

>d1v6ga2 g.39.1.3 (A:42-81) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.42  E-value=0.017  Score=35.94  Aligned_cols=31  Identities=16%  Similarity=0.383  Sum_probs=26.7

Q ss_pred             CccCCCCCcCCCCCceEEccCCcccccchhhh
Q 017657          213 PRCCSCERMEPQDTAYVALDDGRKLCLECLDS  244 (368)
Q Consensus       213 f~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~  244 (368)
                      |.|..|.+++|.|++. ++.....+|..|...
T Consensus         1 FvC~vCr~pFP~GDRV-TFnGKeC~CQ~Cs~p   31 (40)
T d1v6ga2           1 FVCAVCRLPFPPGDRV-TFNGKECMCQKCSLP   31 (40)
T ss_dssp             SSCSSSCCCCCSSSCE-EEETTEEEEHHHHSC
T ss_pred             CcccccCCCCCCCCeE-EEcCceeehhhcCCC
Confidence            7899999999999985 577888999999764

>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=92.47  E-value=0.03  Score=33.49  Aligned_cols=30  Identities=23%  Similarity=0.643  Sum_probs=23.5

Q ss_pred             ccCCCCCcCCCCCceEEccCCcccccc-hhhhh
Q 017657          214 RCCSCERMEPQDTAYVALDDGRKLCLE-CLDSA  245 (368)
Q Consensus       214 ~C~~C~r~l~~~~~f~~~~dg~~~C~~-C~~~~  245 (368)
                      +|..|.+.|..|..  ..++|++||.. ||..+
T Consensus         1 kCekC~ktL~~G~H--aEH~gkPYC~~PCY~aL   31 (33)
T d2cu8a2           1 KCERCSKTLTPGGH--AEHDGKPFCHKPCYATL   31 (33)
T ss_dssp             BCSSSCCBCCTTSC--EEETTEEECTTTHHHHH
T ss_pred             CchhcccccCCCCc--cccCCCcCcCcchHHhh
Confidence            58899999977764  46799999954 98753

>d1wiga1 g.39.1.3 (A:1-32) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.45  E-value=0.023  Score=33.38  Aligned_cols=26  Identities=27%  Similarity=0.658  Sum_probs=19.9

Q ss_pred             ccccccCccccCCCCcceEEccccccccccCCCCccCCC
Q 017657          174 PKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGT  212 (368)
Q Consensus       174 p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~C  212 (368)
                      .-|..|.++|++.   ++++-+          +|||+.|
T Consensus         6 sgC~~C~~~ItGk---VLEAG~----------khYHP~C   31 (32)
T d1wiga1           6 SGCDSCEKYITGR---VLEAGE----------KHYHPSC   31 (32)
T ss_dssp             CSCSSSCCCCSSC---CBCCSS----------CCBCTTT
T ss_pred             chhhhhhhhhhhh---hhhccc----------cccCCCC
Confidence            4599999999974   576654          5789887

>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=91.49  E-value=0.043  Score=33.40  Aligned_cols=28  Identities=18%  Similarity=0.146  Sum_probs=21.9

Q ss_pred             ccccccCccccCCCCcceEEccccccccccCCCCccCCCC
Q 017657          174 PKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTP  213 (368)
Q Consensus       174 p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf  213 (368)
                      ..|.+|++.|...  +.+.+.+          ++||.+||
T Consensus         9 ~~CagCg~eik~g--QaL~ALd----------kqWH~~CF   36 (36)
T d2dj7a2           9 SHCAGCKEEIKHG--QSLLALD----------KQWHVSCF   36 (36)
T ss_dssp             SCCTTTCCCCSSS--CCEEETT----------EEECTTTC
T ss_pred             ccccccchhhhCC--ceeeeee----------cceeeeeC
Confidence            4799999999863  4677775          46899998

>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=91.37  E-value=0.038  Score=38.67  Aligned_cols=30  Identities=23%  Similarity=0.525  Sum_probs=24.1

Q ss_pred             ccCCCCCcCCCCCceEEccCCcccccchhhhh
Q 017657          214 RCCSCERMEPQDTAYVALDDGRKLCLECLDSA  245 (368)
Q Consensus       214 ~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~  245 (368)
                      .|..|.+.|..+.  +..+++.+||+.||.+.
T Consensus         1 ~C~~C~K~LdS~~--~~eh~~e~YCk~CY~k~   30 (65)
T d1b8ta2           1 LCMVCKKNLDSTT--VAVHGDEIYCKSCYGKK   30 (65)
T ss_dssp             BCTTTCCBCCSSS--EEEETTEEEEHHHHHHH
T ss_pred             CchhcCCccCCCc--cccCCCcccchhhhccc
Confidence            3889999985444  45789999999999884

>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=91.16  E-value=0.028  Score=33.23  Aligned_cols=29  Identities=24%  Similarity=0.635  Sum_probs=26.4

Q ss_pred             ccCCCCCCCCCceeeccCCcccccccccc
Q 017657          142 CCHACHQPITDIEFSTSENRPYHKSCYRE  170 (368)
Q Consensus       142 ~C~~C~~~L~~~~f~~~dg~~yC~~cy~~  170 (368)
                      +|..|...|.+.+|....|+.+|..|..+
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            58999999999999999999999999654

>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=90.83  E-value=0.056  Score=32.56  Aligned_cols=28  Identities=25%  Similarity=0.425  Sum_probs=22.1

Q ss_pred             cccccccCccccCCCCcceEEccccccccccCCCCccCCCC
Q 017657          173 HPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTP  213 (368)
Q Consensus       173 ~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf  213 (368)
                      .|.|..|+..|.+.   ++.++++.          .|++||
T Consensus         8 lp~CdkCg~GIVG~---~VK~rDk~----------rHPeCf   35 (35)
T d1x62a2           8 LPMCDKCGTGIVGV---FVKLRDRH----------RHPECY   35 (35)
T ss_dssp             CCCCSSSCCCCCSS---CEECSSCE----------ECTTTT
T ss_pred             CccccccCCCcEeE---EEEecccc----------CCCCCC
Confidence            68999999999964   57777643          599987

>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=90.57  E-value=0.041  Score=32.46  Aligned_cols=29  Identities=28%  Similarity=0.633  Sum_probs=22.7

Q ss_pred             cCCCCCcCCCCCceEEccCCcccccchhhhh
Q 017657          215 CCSCERMEPQDTAYVALDDGRKLCLECLDSA  245 (368)
Q Consensus       215 C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~  245 (368)
                      |-.|.+.|....  +..+++.+||+.||.+.
T Consensus         2 C~~C~K~LdStT--va~h~~eiYCKsCygkk   30 (32)
T d1a7ia2           2 CMVCRKNLDSTT--VAIHDAEVYCKSCYGKK   30 (32)
T ss_dssp             CSSSCCEECSSC--CEEETTEEECSHHHHHH
T ss_pred             chhhhhccCcce--eeeecceEEehhhcccc
Confidence            778999884433  45689999999999863

>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=90.34  E-value=0.06  Score=34.50  Aligned_cols=28  Identities=25%  Similarity=0.387  Sum_probs=22.5

Q ss_pred             cccccccCccccCCCCcceEEccccccccccCCCCccCCCC
Q 017657          173 HPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTP  213 (368)
Q Consensus       173 ~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf  213 (368)
                      .|.|..|+..|.+.   ++.++++.          +|++||
T Consensus        18 LP~CdkCg~GIVG~---~VK~rDK~----------rHPeCf   45 (45)
T d1x64a1          18 MPLCDKCGSGIVGA---VVKARDKY----------RHPECF   45 (45)
T ss_dssp             CCBCTTTCCBCCSC---CEESSSCE----------ECTTTC
T ss_pred             CccccccCCCcEEE---EEEecccc----------CCCCCC
Confidence            68999999999964   57777654          499997

>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=89.62  E-value=0.059  Score=31.45  Aligned_cols=27  Identities=22%  Similarity=0.640  Sum_probs=24.3

Q ss_pred             ccCCCCCCCCCceeeccCCcccccccc
Q 017657          142 CCHACHQPITDIEFSTSENRPYHKSCY  168 (368)
Q Consensus       142 ~C~~C~~~L~~~~f~~~dg~~yC~~cy  168 (368)
                      +|+.|-.||....|...|+++.|..|.
T Consensus         1 RCaKC~hpLA~E~F~aKd~kI~C~Kc~   27 (31)
T d2cupa2           1 RCAKCLHPLANETFVAKDNKILCNKCT   27 (31)
T ss_dssp             CCSSSCCCTTSSCCEEETTEEECHHHH
T ss_pred             CchhhccccccCcccccCCeEeecccc
Confidence            588999999999999999999998874

>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=89.52  E-value=0.023  Score=34.24  Aligned_cols=32  Identities=13%  Similarity=0.254  Sum_probs=26.4

Q ss_pred             ccCCCCCCCC--CceeeccCCccccccccccccc
Q 017657          142 CCHACHQPIT--DIEFSTSENRPYHKSCYREHYH  173 (368)
Q Consensus       142 ~C~~C~~~L~--~~~f~~~dg~~yC~~cy~~~f~  173 (368)
                      +|.-|+..|.  +...+.+.|.+.|+.+|.++|+
T Consensus         1 KCscC~~~LgeiG~s~ytk~~mILCk~DY~rlFG   34 (34)
T d1rutx2           1 KCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG   34 (34)
T ss_dssp             BCTTTCCBHHHHCSEEEEETTEEECHHHHHHHHS
T ss_pred             CCcchhcChhhccchheecCCEEEEchhHHHhcC
Confidence            4778888886  4677889999999999998874

>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=89.33  E-value=0.1  Score=29.52  Aligned_cols=27  Identities=26%  Similarity=0.474  Sum_probs=20.8

Q ss_pred             ccccCccccCCCCcceEEccccccccccCCCCccCCCC
Q 017657          176 CDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTP  213 (368)
Q Consensus       176 C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf  213 (368)
                      |..|.+.|.+.. ..++|++.          .||..||
T Consensus         1 C~~C~ktiMPGs-rKme~kG~----------~WHEtCF   27 (27)
T d1x4ka2           1 CQECKKTIMPGT-RKMEYKGS----------SWHETCF   27 (27)
T ss_dssp             BSSSCCCCCSSS-CEEEETTE----------EEETTTT
T ss_pred             CccccccccCCc-eeecccCC----------ccccccC
Confidence            788999998753 56788874          4699987

>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=88.60  E-value=0.059  Score=32.12  Aligned_cols=29  Identities=17%  Similarity=0.304  Sum_probs=21.3

Q ss_pred             ccccccCccccCCCCcceEEccccccccccCCCCccCCCC
Q 017657          174 PKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTP  213 (368)
Q Consensus       174 p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf  213 (368)
                      -.|..|++.|..++ -++.++++.          ||..||
T Consensus         3 g~Ca~C~~~I~~~e-~VmRA~~~V----------yHl~CF   31 (31)
T d1rutx3           3 GACSACGQSIPASE-LVMRAQGNV----------YHLKCF   31 (31)
T ss_dssp             EECTTTCCEECTTS-EEEEETTEE----------ECGGGC
T ss_pred             cccccccCcCChhH-hheecccce----------eeeccC
Confidence            36999999999875 455566554          588887

>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=88.50  E-value=0.17  Score=30.60  Aligned_cols=30  Identities=30%  Similarity=0.501  Sum_probs=26.1

Q ss_pred             CCCCccccCCcccccCceEeecCceecCCCc
Q 017657          111 EGYRICAGCNNEIGHGRFLNCLDVFWHPECF  141 (368)
Q Consensus       111 ~~~~~C~~C~~~I~~g~~v~a~g~~wH~~CF  141 (368)
                      .+.-+|.+|...| +.+-+.+.|..|||..|
T Consensus         6 lGk~vC~KCh~iI-dd~pL~Fr~d~YHp~HF   35 (35)
T d2cora2           6 LGKYICQKCHAII-DEQPLIFKNDPYHPDHF   35 (35)
T ss_dssp             CCCCBCTTTCCBC-CSCCCCCSSSCCCTTTS
T ss_pred             hhhHHHHHHHhhh-hcCcceecCCCCCCCCC
Confidence            4668899999999 67888999999999877

>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=88.02  E-value=0.12  Score=32.38  Aligned_cols=28  Identities=25%  Similarity=0.669  Sum_probs=20.7

Q ss_pred             ccccCCcccccCceE-eecCceecCCCcc
Q 017657          115 ICAGCNNEIGHGRFL-NCLDVFWHPECFC  142 (368)
Q Consensus       115 ~C~~C~~~I~~g~~v-~a~g~~wH~~CF~  142 (368)
                      .|.+|++....|+-+ .-.+..|||.|-.
T Consensus         1 ~C~rC~~mF~EGEEMYLQGs~IWHP~C~~   29 (41)
T d1wiga2           1 LCVRCGQMFAEGEEMYLQGSSIWHPACRQ   29 (41)
T ss_dssp             CCSSSCCCCCSSCCCEEETTEEECTTHHH
T ss_pred             CcchhhccccccceeeecCCceeCCcccc
Confidence            489999988777544 4456789998854

>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=87.85  E-value=0.25  Score=29.76  Aligned_cols=29  Identities=17%  Similarity=0.576  Sum_probs=23.9

Q ss_pred             CCCccccCCcccccC-ceEeecCceecCCC
Q 017657          112 GYRICAGCNNEIGHG-RFLNCLDVFWHPEC  140 (368)
Q Consensus       112 ~~~~C~~C~~~I~~g-~~v~a~g~~wH~~C  140 (368)
                      ....|.+|+....+. .+|+..|..||..|
T Consensus         6 ~~~~C~RC~~gF~p~EkiVNSnGEl~H~qC   35 (35)
T d1g47a1           6 ASATCERCKGGFAPAEKIVNSNGELYHEQC   35 (35)
T ss_dssp             CCCBCSSSCCBCCSTTTCEEETTEEECTTT
T ss_pred             HHHHHHHHccCCCchHHhhcCCCccccccC
Confidence            457899999987654 66889999999987

>d2d8xa1 g.39.1.3 (A:33-64) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=87.82  E-value=0.12  Score=30.40  Aligned_cols=29  Identities=34%  Similarity=0.850  Sum_probs=24.3

Q ss_pred             ccCCCCCcCCCCCceEEccCCcccccchhhh
Q 017657          214 RCCSCERMEPQDTAYVALDDGRKLCLECLDS  244 (368)
Q Consensus       214 ~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~  244 (368)
                      +|..|...| .+..|+. ..|+.+|.+|+.+
T Consensus         1 rC~~C~~~L-AD~GFvK-nagR~LCrpch~r   29 (32)
T d2d8xa1           1 RCDLCQEVL-ADIGFVK-NAGRHLCRPCHNR   29 (32)
T ss_dssp             BCSSSCCBC-SSSCCEE-ETTEEECHHHHHH
T ss_pred             CchHHHhHH-HHhhhhh-cccccccchhhhh
Confidence            588999888 6888884 6999999999864

>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=86.72  E-value=0.18  Score=29.23  Aligned_cols=30  Identities=13%  Similarity=0.593  Sum_probs=22.8

Q ss_pred             ccCCCCCcCCCCCceEEccCCcccccchhhhh
Q 017657          214 RCCSCERMEPQDTAYVALDDGRKLCLECLDSA  245 (368)
Q Consensus       214 ~C~~C~r~l~~~~~f~~~~dg~~~C~~C~~~~  245 (368)
                      .|+.|...+..| .|+. +....||..|++..
T Consensus         1 tcs~ckq~igsg-sffp-kg~d~ycvtche~k   30 (32)
T d1x63a2           1 TCSNCKQVIGTG-SFFP-KGEDFYCVTCHETK   30 (32)
T ss_dssp             CCSSSCCCCTTS-CEEE-ETTEEEEHHHHHHH
T ss_pred             Ccchhhhhcccc-cccC-CCCcEEEEEeeccc
Confidence            489999988554 4554 57789999999864

>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=86.49  E-value=0.17  Score=29.76  Aligned_cols=27  Identities=11%  Similarity=0.304  Sum_probs=22.3

Q ss_pred             ccCCCCCCCC-CceeeccCCcccccccc
Q 017657          142 CCHACHQPIT-DIEFSTSENRPYHKSCY  168 (368)
Q Consensus       142 ~C~~C~~~L~-~~~f~~~dg~~yC~~cy  168 (368)
                      +|+.|...|. +..|...+|.+||+.+-
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            5889988885 56788899999999873

>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=86.10  E-value=0.34  Score=35.93  Aligned_cols=45  Identities=13%  Similarity=0.284  Sum_probs=28.4

Q ss_pred             cccCCCCCCCCCceeeccCCcccccccccccccccccccCccccC
Q 017657          141 FCCHACHQPITDIEFSTSENRPYHKSCYREHYHPKCDVCKHFIPS  185 (368)
Q Consensus       141 F~C~~C~~~L~~~~f~~~dg~~yC~~cy~~~f~p~C~~C~~~I~~  185 (368)
                      ++|..|...+........-|..||..|..+.+..+|..|..++..
T Consensus        23 l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~~~CP~Cr~~~~~   67 (97)
T d1jm7b_          23 LRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVCYTPAWI   67 (97)
T ss_dssp             TSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTTTBCSSSCCBCSC
T ss_pred             CCCccCCchhhcCceeCCCCCchhHHHHHHHHhccccccCCcCch
Confidence            456666665544322224577788888776666678888777654

>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=85.91  E-value=0.14  Score=28.96  Aligned_cols=27  Identities=19%  Similarity=0.386  Sum_probs=19.6

Q ss_pred             ccccCccccCCCCcceEEccccccccccCCCCccCCCC
Q 017657          176 CDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTP  213 (368)
Q Consensus       176 C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf  213 (368)
                      |..|.+.|.+.. ..++|.+          +.||..||
T Consensus         1 C~~C~ktiMPGs-rKmey~G----------~sWHE~CF   27 (27)
T d1wyha2           1 CSACGETVMPGS-RKLEYGG----------QTWHEHCF   27 (27)
T ss_dssp             CSSSCCBCCSSS-CEECSTT----------CCEETTTC
T ss_pred             CccccceecCCc-ccccccC----------cccccccC
Confidence            778999998753 4566665          45799998

>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=83.74  E-value=0.23  Score=29.99  Aligned_cols=23  Identities=17%  Similarity=0.595  Sum_probs=17.9

Q ss_pred             cccccccCccccCCCCcceEEccccc
Q 017657          173 HPKCDVCKHFIPSNHGGLIEYRAHPF  198 (368)
Q Consensus       173 ~p~C~~C~~~I~~~~~~~i~~~~~pf  198 (368)
                      ...|..|...|.+.   .+.+++.||
T Consensus         8 k~vC~KCh~iIdd~---pL~Fr~d~Y   30 (35)
T d2cora2           8 KYICQKCHAIIDEQ---PLIFKNDPY   30 (35)
T ss_dssp             CCBCTTTCCBCCSC---CCCCSSSCC
T ss_pred             hHHHHHHHhhhhcC---cceecCCCC
Confidence            45799999999864   588888775

>d1x68a2 g.39.1.3 (A:37-70) Four and a half LIM domains protein 5, FHL-5 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 5, FHL-5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.26  E-value=0.3  Score=28.69  Aligned_cols=26  Identities=19%  Similarity=0.512  Sum_probs=22.6

Q ss_pred             cCCCCCCCCCceeeccCCcccccccc
Q 017657          143 CHACHQPITDIEFSTSENRPYHKSCY  168 (368)
Q Consensus       143 C~~C~~~L~~~~f~~~dg~~yC~~cy  168 (368)
                      |..|+..|.++.|...+..++|..|-
T Consensus         2 cgkcsvslvg~gfltq~~~i~c~~cg   27 (34)
T d1x68a2           2 CGKCSVSLVGKGFLTQNKEIFCQKCG   27 (34)
T ss_dssp             CTTTCCBCSSSCEEEETTEEEETTTT
T ss_pred             CccceEEEEeeeeeeccCcEEehhcC
Confidence            77889999999999988889988874

>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=80.67  E-value=0.37  Score=30.74  Aligned_cols=29  Identities=10%  Similarity=0.126  Sum_probs=21.3

Q ss_pred             cccccccCccccCCCCcceEEccccccccccCCCCccCCCC
Q 017657          173 HPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTP  213 (368)
Q Consensus       173 ~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf  213 (368)
                      .++|..|++.+-..+  .+.+.++.          ||..||
T Consensus        15 ~~kC~~C~k~VY~~E--~~~~~g~~----------~Hk~CF   43 (43)
T d1b8ta3          15 SDGCPRCGQAVYAAE--KVIGAGKS----------WHKSCF   43 (43)
T ss_dssp             CEECTTTSCEECSSS--CEEETTEE----------ECTTTC
T ss_pred             CCcCccCCCEeeHHH--HhhcCCCc----------cccCCC
Confidence            468999999887643  56777765          499987

>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=80.59  E-value=0.38  Score=29.31  Aligned_cols=29  Identities=10%  Similarity=0.076  Sum_probs=21.1

Q ss_pred             cccccccCccccCCCCcceEEccccccccccCCCCccCCCC
Q 017657          173 HPKCDVCKHFIPSNHGGLIEYRAHPFWVQKYCPSHEHDGTP  213 (368)
Q Consensus       173 ~p~C~~C~~~I~~~~~~~i~~~~~pfw~~~yC~~h~H~~Cf  213 (368)
                      ..+|..|++.+-.-+  .+.+.++.          ||..||
T Consensus         7 ~~kC~~C~K~VY~~E--~~~a~g~~----------~Hk~CF   35 (35)
T d2d8ya1           7 RETCVECQKTVYPME--RLLANQQV----------FHISCF   35 (35)
T ss_dssp             SCBCTTTCCBCCTTS--EEECSSSE----------EETTTC
T ss_pred             CcccccCCCEEeeee--eEecCCee----------hhhccC
Confidence            468999999887633  56676654          488887

>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=80.25  E-value=0.25  Score=29.55  Aligned_cols=30  Identities=27%  Similarity=0.589  Sum_probs=22.1

Q ss_pred             cccCCCCCCCCC-ceeec-cCCcccccccccc
Q 017657          141 FCCHACHQPITD-IEFST-SENRPYHKSCYRE  170 (368)
Q Consensus       141 F~C~~C~~~L~~-~~f~~-~dg~~yC~~cy~~  170 (368)
                      |.|..|+.-|.+ ..|.. ...++||..||.+
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            678888888864 34554 4567899999875