Citrus Sinensis ID: 029070

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------20
Protein Sequence
MAAAFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEGEHEKTSVNANERVNGKQVDA
Secondary Structure (PSIPRED)
cccccccccccccccccEEEEcEEEEEcccccccccccccccccccccccccccccEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEcccccccccccccccccccccccccccccccccHHHHHHHHccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccEEEEEEEEEcccccccccEEEHcccccccccccccccccEcccccHHHHcccccccccccccccccccccccccccccccHHHccccccccccccccccEEEEEEEEEEcccccccccEEEHccccEccccccccccccccccHHHHHHcccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
maaafagtqqkcmacdktvYLVDKLtadnriyhkacfrchhckgtlklgnynsfegvlycrphfdqlfkrtgsldksfegtpkiakpekpidgekpnvakvstmfggtrekcvgckntvyptekvsvngtpyhkscfkcshggcvispsnyiahegrlYCKHHHNQlikekgnlsqlegehektsvnanervngkqvda
Flexible Loop (DISEMBL)
maaafagtqqkcmacdKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTgsldksfegtpkiakpekpidgekpnvAKVStmfggtrekcvgckNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLegehektsvnanervngkqvda
Low Complexity Region (SEG)
MAAAFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEGEHEKTSVNANERVNGKQVDA
Disordered region (IsUnstruct)
*******TQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRT*****************************VSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLI*******************************
Disordered Region (DISOPRED)
**********KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKE*****************************
Disordered Region (DISEMBL)
*********QKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEGEHEKTSVNANERVNGKQVDA
Disordered Region (DISPRO)
*********QKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTGSLDKS********************VAKVST**GGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEG********************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAAAFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEGEHEKTSVNANERVNGKQVDA
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	199	2.2.26 [Sep-21-2011]
P29675	219	Pollen-specific protein S	N/A	no	0.979	0.890	0.632	5e-71
Q4U4S6	3784	Xin actin-binding repeat-	yes	no	0.381	0.020	0.513	5e-19
Q62908	193	Cysteine and glycine-rich	yes	no	0.819	0.844	0.297	7e-17
P97314	193	Cysteine and glycine-rich	no	no	0.819	0.844	0.297	1e-16
Q9ERG0	753	LIM domain and actin-bind	no	no	0.366	0.096	0.452	1e-16
Q16527	193	Cysteine and glycine-rich	no	no	0.819	0.844	0.292	4e-16
Q32LE9	193	Cysteine and glycine-rich	no	no	0.819	0.844	0.292	4e-16
P50463	194	Cysteine and glycine-rich	no	no	0.748	0.768	0.321	4e-16
B0KYV5	756	LIM domain and actin-bind	no	no	0.386	0.101	0.441	4e-16
P50462	194	Cysteine and glycine-rich	no	no	0.748	0.768	0.315	5e-16

>sp|P29675|SF3_HELAN Pollen-specific protein SF3 OS=Helianthus annuus GN=SF3 PE=2 SV=1

 Score =  266 bits (681), Expect = 5e-71,   Method: Compositional matrix adjust.
 Identities = 124/196 (63%), Positives = 148/196 (75%), Gaps = 1/196 (0%)

Query: 4   AFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 63
           +F GT QKC  C+KTVYLVDKL A+ R+YHKACFRCHHC  TLKL N+NSF+GV+YCR H
Sbjct: 3   SFTGTTQKCTVCEKTVYLVDKLVANQRVYHKACFRCHHCNSTLKLSNFNSFDGVVYCRHH 62

Query: 64  FDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTE 123
           FDQLFKRTGSL+KSF+GTPK  KPE+    E  +  ++S+ F GTR+KC  C   VYP E
Sbjct: 63  FDQLFKRTGSLEKSFDGTPKF-KPERTFSQETQSANRLSSFFEGTRDKCNACAKIVYPIE 121

Query: 124 KVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEGEHEK 183
           +V V+GT YH++CFKC HGGC ISPSNYIAHEGRLYCKHHH QL K+KGN SQLE E   
Sbjct: 122 RVKVDGTAYHRACFKCCHGGCTISPSNYIAHEGRLYCKHHHIQLFKKKGNYSQLEVEETV 181

Query: 184 TSVNANERVNGKQVDA 199
            +   +E  N +  +A
Sbjct: 182 AAPAESETQNTETQNA 197

Could possibly involved in controlling pollen-specific processes such as male gamete maturation, pollen tube formation, or even fertilization.
Helianthus annuus (taxid: 4232)

>sp|Q4U4S6|XIRP2_MOUSE Xin actin-binding repeat-containing protein 2 OS=Mus musculus GN=Xirp2 PE=1 SV=1

 Score = 94.4 bits (233), Expect = 5e-19,   Method: Composition-based stats.
 Identities = 39/76 (51%), Positives = 52/76 (68%)

Query: 3    AAFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRP 62
            +AF   ++ C+ C KTVY ++ L AD + +HK+CFRCHHC   L LGNY S  G +YC+P
Sbjct: 3248 SAFLSDKEICIICQKTVYPMECLIADKQNFHKSCFRCHHCSSKLSLGNYASLHGRIYCKP 3307

Query: 63   HFDQLFKRTGSLDKSF 78
            HF QLFK  G+ D+ F
Sbjct: 3308 HFKQLFKSKGNYDEGF 3323

Protects actin filaments from depolymerization.

Mus musculus (taxid: 10090)

>sp|Q62908|CSRP2_RAT Cysteine and glycine-rich protein 2 OS=Rattus norvegicus GN=Csrp2 PE=2 SV=3

 Score = 87.0 bits (214), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 53/178 (29%), Positives = 84/178 (47%), Gaps = 15/178 (8%)

Query: 7   GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQ 66
           G   KC AC +TVY  +++  D R +H+ CF C  C+  L        +  +YC+  + +
Sbjct: 5   GGGNKCGACGRTVYHAEEVQCDGRTFHRCCFLCMVCRKNLDSTTVAIHDEEIYCKSCYGK 64

Query: 67  LFKRTGSLDKSFEGT------------PKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVG 114
            +   G       GT            P+ A+P +P     PN +K +  +GG  EKC  
Sbjct: 65  KYGPKGYGYGQGAGTLNMDRGERLGIKPESAQPHRPTT--NPNTSKFAQKYGGA-EKCSR 121

Query: 115 CKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKG 172
           C ++VY  EK+   G P+HK+CF+C+  G  +  +     EG +YCK  + +    KG
Sbjct: 122 CGDSVYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFGPKG 179

Drastically down-regulated in response to PDGF-BB or cell injury, that promote smooth muscle cell proliferation and dedifferentiation. Seems to play a role in the development of the embryonic vascular system.

Rattus norvegicus (taxid: 10116)

>sp|P97314|CSRP2_MOUSE Cysteine and glycine-rich protein 2 OS=Mus musculus GN=Csrp2 PE=1 SV=3

 Score = 86.3 bits (212), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 53/178 (29%), Positives = 84/178 (47%), Gaps = 15/178 (8%)

Query: 7   GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQ 66
           G   KC AC +TVY  +++  D R +H+ CF C  C+  L        +  +YC+  + +
Sbjct: 5   GGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDEEIYCKSCYGK 64

Query: 67  LFKRTGSLDKSFEGT------------PKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVG 114
            +   G       GT            P+ A+P +P     PN +K +  +GG  EKC  
Sbjct: 65  KYGPKGYGYGQGAGTLNMDRGERLGIKPESAQPHRPTT--NPNTSKFAQKYGGA-EKCSR 121

Query: 115 CKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKG 172
           C ++VY  EK+   G P+HK+CF+C+  G  +  +     EG +YCK  + +    KG
Sbjct: 122 CGDSVYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFGPKG 179

Drastically down-regulated in response to PDGF-BB or cell injury, that promote smooth muscle cell proliferation and dedifferentiation. Seems to play a role in the development of the embryonic vascular system.

Mus musculus (taxid: 10090)

>sp|Q9ERG0|LIMA1_MOUSE LIM domain and actin-binding protein 1 OS=Mus musculus GN=Lima1 PE=1 SV=3

 Score = 86.3 bits (212), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 33/73 (45%), Positives = 50/73 (68%)

Query: 6   AGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFD 65
           A  ++ C+ C KTVY +++L A+ +++H +CFRC +C   L LG Y S  G +YC+PHF+
Sbjct: 382 APAKESCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFN 441

Query: 66  QLFKRTGSLDKSF 78
           QLFK  G+ D+ F
Sbjct: 442 QLFKSKGNYDEGF 454

Binds to actin monomers and filaments. Increases the number and size of actin stress fibers and inhibits membrane ruffling. Inhibits actin filament depolymerization. Bundles actin filaments, delays filament nucleation and reduces formation of branched filaments.

Mus musculus (taxid: 10090)

>sp|Q16527|CSRP2_HUMAN Cysteine and glycine-rich protein 2 OS=Homo sapiens GN=CSRP2 PE=1 SV=3

 Score = 84.7 bits (208), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 52/178 (29%), Positives = 83/178 (46%), Gaps = 15/178 (8%)

Query: 7   GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQ 66
           G   KC AC +TVY  +++  D R +H+ CF C  C+  L        +  +YC+  + +
Sbjct: 5   GGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDEEIYCKSCYGK 64

Query: 67  LFKRTGSLDKSFEGT------------PKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVG 114
            +   G       GT            P+  +P +P     PN +K +  +GG  EKC  
Sbjct: 65  KYGPKGYGYGQGAGTLNMDRGERLGIKPESVQPHRPTT--NPNTSKFAQKYGGA-EKCSR 121

Query: 115 CKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKG 172
           C ++VY  EK+   G P+HK+CF+C+  G  +  +     EG +YCK  + +    KG
Sbjct: 122 CGDSVYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFGPKG 179

Drastically down-regulated in response to PDGF-BB or cell injury, that promote smooth muscle cell proliferation and dedifferentiation. Seems to play a role in the development of the embryonic vascular system.

Homo sapiens (taxid: 9606)

>sp|Q32LE9|CSRP2_BOVIN Cysteine and glycine-rich protein 2 OS=Bos taurus GN=CSRP2 PE=2 SV=3

 Score = 84.7 bits (208), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 52/178 (29%), Positives = 83/178 (46%), Gaps = 15/178 (8%)

Query: 7   GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQ 66
           G   KC AC +TVY  +++  D R +H+ CF C  C+  L        +  +YC+  + +
Sbjct: 5   GGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDEEIYCKSCYGK 64

Query: 67  LFKRTGSLDKSFEGT------------PKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVG 114
            +   G       GT            P+  +P +P     PN +K +  +GG  EKC  
Sbjct: 65  KYGPKGYGYGQGAGTLNMDRGERLGIKPESVQPHRPTT--NPNTSKFAQKYGGA-EKCSR 121

Query: 115 CKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKG 172
           C ++VY  EK+   G P+HK+CF+C+  G  +  +     EG +YCK  + +    KG
Sbjct: 122 CGDSVYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFGPKG 179

Drastically down-regulated in response to PDGF-BB or cell injury, that promote smooth muscle cell proliferation and dedifferentiation. Seems to play a role in the development of the embryonic vascular system.

Bos taurus (taxid: 9913)

>sp|P50463|CSRP3_RAT Cysteine and glycine-rich protein 3 OS=Rattus norvegicus GN=Csrp3 PE=1 SV=1

 Score = 84.3 bits (207), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 55/171 (32%), Positives = 78/171 (45%), Gaps = 22/171 (12%)

Query: 7   GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQ 66
           G   KC ACDKTVY  +++  + R +HK CF C  C+  L      + E  +YC+  + +
Sbjct: 5   GGGAKCGACDKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCKVCYGR 64

Query: 67  LFKRTG----------------SLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTRE 110
            +   G                 L   F+ +PK A+          N +K S  FG   E
Sbjct: 65  KYGPKGIGFGQGAGCLSTDTGEHLGLQFQQSPKPARAA-----TTSNPSKFSAKFG-ESE 118

Query: 111 KCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCK 161
           KC  C  +VY  EKV   G P+HK+CF C+  G  +  +N    +G LYCK
Sbjct: 119 KCPRCGKSVYAAEKVMGGGKPWHKTCFPCAICGKSLESTNVTDKDGELYCK 169

Positive regulator of myogenesis. Plays a crucial and specific role in the organization of cytosolic structures in cardiomyocytes. Could play a role in mechanical stretch sensing. May be a scaffold protein that promotes the assembly of interacting proteins at Z-line structures. It is essential for calcineurin anchorage to the Z line. Required for stress-induced calcineurin-NFAT activation.

Rattus norvegicus (taxid: 10116)

>sp|B0KYV5|LIMA1_PIG LIM domain and actin-binding protein 1 OS=Sus scrofa GN=LIMA1 PE=2 SV=1

 Score = 84.3 bits (207), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 34/77 (44%), Positives = 51/77 (66%)

Query: 6   AGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFD 65
           A  ++ C+ C KTVY +++L A+ +++H +CFRC +C   L LG Y S  G +YC+PHF+
Sbjct: 380 APARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFN 439

Query: 66  QLFKRTGSLDKSFEGTP 82
           QLFK  G+ D+ F   P
Sbjct: 440 QLFKSKGNYDEGFGHRP 456

Binds to actin monomers and filaments. Increases the number and size of actin stress fibers and inhibits membrane ruffling. Inhibits actin filament depolymerization. Bundles actin filaments, delays filament nucleation and reduces formation of branched filaments.

Sus scrofa (taxid: 9823)

>sp|P50462|CSRP3_MOUSE Cysteine and glycine-rich protein 3 OS=Mus musculus GN=Csrp3 PE=1 SV=1

 Score = 84.3 bits (207), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 54/171 (31%), Positives = 79/171 (46%), Gaps = 22/171 (12%)

Query: 7   GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQ 66
           G   KC AC+KTVY  +++  + R +HK CF C  C+  L      + E  +YC+  + +
Sbjct: 5   GGGAKCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCKVCYGR 64

Query: 67  LFKRTG----------------SLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTRE 110
            +   G                 L   F+ +PK A+          N +K S  FG   E
Sbjct: 65  RYGPKGIGFGQGAGCLSTDTGEHLGLQFQQSPKPARA-----ATTSNPSKFSAKFG-ESE 118

Query: 111 KCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCK 161
           KC  C  +VY  EKV   G P+HK+CF+C+  G  +  +N    +G LYCK
Sbjct: 119 KCPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCK 169

Positive regulator of myogenesis. Plays a crucial and specific role in the organization of cytosolic structures in cardiomyocytes. Could play a role in mechanical stretch sensing. May be a scaffold protein that promotes the assembly of interacting proteins at Z-line structures. It is essential for calcineurin anchorage to the Z line. Required for stress-induced calcineurin-NFAT activation.

Mus musculus (taxid: 10090)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	199
225458850	197	PREDICTED: pollen-specific protein SF3 [	0.974	0.984	0.877	2e-98
224129852	197	predicted protein [Populus trichocarpa]	0.974	0.984	0.882	2e-97
255538046	197	Pollen-specific protein SF3, putative [R	0.974	0.984	0.877	3e-97
117950169	197	LIM domain protein WLIM1b [Populus tremu	0.974	0.984	0.862	4e-97
18565112	197	transcription factor LIM [Populus kitaka	0.974	0.984	0.877	5e-97
117950167	197	LIM domain protein WLIM1a [Populus tremu	0.974	0.984	0.877	6e-97
224067200	197	predicted protein [Populus trichocarpa]	0.974	0.984	0.857	4e-96
18565124	193	transcription factor LIM [Nicotiana taba	0.939	0.968	0.893	5e-96
383081877	188	LIM transcription factor [Eucalyptus pyr	0.919	0.973	0.896	5e-96
5932413	193	LIM domain protein WLIM1 [Nicotiana taba	0.939	0.968	0.887	3e-95

>gi|225458850|ref|XP_002285355.1| PREDICTED: pollen-specific protein SF3 [Vitis vinifera] gi|147785329|emb|CAN72849.1| hypothetical protein VITISV_013939 [Vitis vinifera] gi|302142193|emb|CBI19396.3| unnamed protein product [Vitis vinifera]

 Score =  363 bits (932), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 172/196 (87%), Positives = 182/196 (92%), Gaps = 2/196 (1%)

Query: 4   AFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 63
           AFAGT QKCMACDKTVYLVDKLTADNR+YHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH
Sbjct: 2   AFAGTTQKCMACDKTVYLVDKLTADNRVYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 61

Query: 64  FDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTE 123
           FDQLFKRTGSLDKSFEGTPKI KPEKPID EKP   KVS+MF GTR+KCVGCKNTVYPTE
Sbjct: 62  FDQLFKRTGSLDKSFEGTPKIVKPEKPIDSEKPIANKVSSMFAGTRDKCVGCKNTVYPTE 121

Query: 124 KVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEGEHEK 183
           KV+VNGT YHKSCFKC+HGGC ISPSNYIAHEGRLYCKHHH QLIKEKGNLSQLEG+HEK
Sbjct: 122 KVTVNGTAYHKSCFKCTHGGCTISPSNYIAHEGRLYCKHHHTQLIKEKGNLSQLEGDHEK 181

Query: 184 TSVNANERVNGKQVDA 199
            +  ANE+VNG++V A
Sbjct: 182 DT--ANEKVNGREVAA 195

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224129852|ref|XP_002320687.1| predicted protein [Populus trichocarpa] gi|18565116|dbj|BAB84582.1| transcription factor LIM [Populus kitakamiensis] gi|222861460|gb|EEE99002.1| predicted protein [Populus trichocarpa] gi|225626277|gb|ACN97188.1| LIM transcription factor [Populus trichocarpa] gi|254047524|gb|ACT64134.1| transcription factor Lim1 [Populus deltoides] gi|254047526|gb|ACT64135.1| transcription factor Lim1 [Populus deltoides]

 Score =  360 bits (924), Expect = 2e-97,   Method: Compositional matrix adjust.
 Identities = 173/196 (88%), Positives = 179/196 (91%), Gaps = 2/196 (1%)

Query: 4   AFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 63
           AFAGT QKCMACDKTVYLVDKLTADNR YHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH
Sbjct: 2   AFAGTTQKCMACDKTVYLVDKLTADNRAYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 61

Query: 64  FDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTE 123
           FDQLFKRTGSLDKSFEGTPKI KPEKP+DGEKP   KVSTMF GTREKC GCKNTVYPTE
Sbjct: 62  FDQLFKRTGSLDKSFEGTPKIVKPEKPVDGEKPVSTKVSTMFAGTREKCFGCKNTVYPTE 121

Query: 124 KVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEGEHEK 183
           KVSVNGTPYHKSCFKC HGGC ISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEG+ EK
Sbjct: 122 KVSVNGTPYHKSCFKCIHGGCTISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEGDIEK 181

Query: 184 TSVNANERVNGKQVDA 199
            S+  N + NG++V A
Sbjct: 182 DSM--NNKTNGREVAA 195

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255538046|ref|XP_002510088.1| Pollen-specific protein SF3, putative [Ricinus communis] gi|223550789|gb|EEF52275.1| Pollen-specific protein SF3, putative [Ricinus communis]

 Score =  359 bits (921), Expect = 3e-97,   Method: Compositional matrix adjust.
 Identities = 172/196 (87%), Positives = 179/196 (91%), Gaps = 2/196 (1%)

Query: 4   AFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 63
           AFAGT QKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKL NYNSFEGVLYCRPH
Sbjct: 2   AFAGTTQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLSNYNSFEGVLYCRPH 61

Query: 64  FDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTE 123
           FDQLFKRTGSLDKSFEGTPKI K +KP DGEKPN AKVS+MFGGTR+KC GCKNTVYPTE
Sbjct: 62  FDQLFKRTGSLDKSFEGTPKIVKTDKPADGEKPNAAKVSSMFGGTRDKCFGCKNTVYPTE 121

Query: 124 KVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEGEHEK 183
           KV+VNGTPYHKSCFKC HGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEG+ EK
Sbjct: 122 KVTVNGTPYHKSCFKCIHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEGDVEK 181

Query: 184 TSVNANERVNGKQVDA 199
            S   N   NG++V A
Sbjct: 182 ESTTQN--ANGREVAA 195

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|117950169|gb|ABK58468.1| LIM domain protein WLIM1b [Populus tremula x Populus alba]

 Score =  359 bits (921), Expect = 4e-97,   Method: Compositional matrix adjust.
 Identities = 169/196 (86%), Positives = 180/196 (91%), Gaps = 2/196 (1%)

Query: 4   AFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 63
           AFAGT QKCMACDKTVYLVD+L ADNR+YHKACFRCHHC+GTLKLGNYNSFEGVLYCRPH
Sbjct: 2   AFAGTTQKCMACDKTVYLVDRLAADNRVYHKACFRCHHCRGTLKLGNYNSFEGVLYCRPH 61

Query: 64  FDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTE 123
           FDQLFKRTGSLDKSFEGTPKI KPEKP+DGEKP   KVSTMF GTR+KC GCKNTVYPTE
Sbjct: 62  FDQLFKRTGSLDKSFEGTPKIVKPEKPVDGEKPISTKVSTMFAGTRDKCFGCKNTVYPTE 121

Query: 124 KVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEGEHEK 183
           KVSVNGTPYHKSCFKC HGGC ISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEG+ EK
Sbjct: 122 KVSVNGTPYHKSCFKCIHGGCTISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEGDVEK 181

Query: 184 TSVNANERVNGKQVDA 199
            S+  N++ NG++V A
Sbjct: 182 DSM--NDKTNGREVSA 195

Source: Populus tremula x Populus alba

Species: Populus tremula x Populus alba

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18565112|dbj|BAB84581.1| transcription factor LIM [Populus kitakamiensis]

 Score =  358 bits (920), Expect = 5e-97,   Method: Compositional matrix adjust.
 Identities = 172/196 (87%), Positives = 179/196 (91%), Gaps = 2/196 (1%)

Query: 4   AFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 63
           AFAGT QKCMACDKTVYLVDKLTADNR YHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH
Sbjct: 2   AFAGTTQKCMACDKTVYLVDKLTADNRAYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 61

Query: 64  FDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTE 123
           FDQLFKRTGSLDKSFEGTPKI KPEKP+DGEKP   KVSTMF GTREKC GCKNTVYPTE
Sbjct: 62  FDQLFKRTGSLDKSFEGTPKIVKPEKPVDGEKPVSTKVSTMFAGTREKCFGCKNTVYPTE 121

Query: 124 KVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEGEHEK 183
           KVSVNGTPYHKSCFKC HGGC ISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEG+ EK
Sbjct: 122 KVSVNGTPYHKSCFKCIHGGCTISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEGDIEK 181

Query: 184 TSVNANERVNGKQVDA 199
            S+  + + NG++V A
Sbjct: 182 DSM--SNKTNGREVAA 195

Source: Populus kitakamiensis

Species: Populus sieboldii x Populus grandidentata

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|117950167|gb|ABK58467.1| LIM domain protein WLIM1a [Populus tremula x Populus alba]

 Score =  358 bits (919), Expect = 6e-97,   Method: Compositional matrix adjust.
 Identities = 172/196 (87%), Positives = 178/196 (90%), Gaps = 2/196 (1%)

Query: 4   AFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 63
           AFAGT QKCMACDKTVYLVDKLTADNR YHKACFRCHHCKG LKLGNYNSFEGVLYCRPH
Sbjct: 2   AFAGTTQKCMACDKTVYLVDKLTADNRAYHKACFRCHHCKGALKLGNYNSFEGVLYCRPH 61

Query: 64  FDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTE 123
           FDQLFKRTGSLDKSFEGTPKI KPEKP+DGEKP   KVSTMF GTREKC GCKNTVYPTE
Sbjct: 62  FDQLFKRTGSLDKSFEGTPKIVKPEKPVDGEKPVSTKVSTMFAGTREKCFGCKNTVYPTE 121

Query: 124 KVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEGEHEK 183
           KVSVNGTPYHKSCFKC HGGC ISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEG+ EK
Sbjct: 122 KVSVNGTPYHKSCFKCIHGGCTISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEGDIEK 181

Query: 184 TSVNANERVNGKQVDA 199
            S+  N + NG++V A
Sbjct: 182 DSM--NNKTNGREVAA 195

Source: Populus tremula x Populus alba

Species: Populus tremula x Populus alba

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224067200|ref|XP_002302405.1| predicted protein [Populus trichocarpa] gi|118483298|gb|ABK93551.1| unknown [Populus trichocarpa] gi|222844131|gb|EEE81678.1| predicted protein [Populus trichocarpa] gi|225626275|gb|ACN97187.1| LIM transcription factor [Populus trichocarpa]

 Score =  355 bits (912), Expect = 4e-96,   Method: Compositional matrix adjust.
 Identities = 168/196 (85%), Positives = 179/196 (91%), Gaps = 2/196 (1%)

Query: 4   AFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 63
           AFAGT QKCMACDKTVYLVD+L ADNR+YHKACFRCHHC+GTLKLGNYNSFEGVLYCRPH
Sbjct: 2   AFAGTTQKCMACDKTVYLVDRLAADNRVYHKACFRCHHCRGTLKLGNYNSFEGVLYCRPH 61

Query: 64  FDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTE 123
           FDQLFKRTGSLDKSFEGTPKI KPEKP+DGEKP   KVSTMF GTR+KC GCKNTVYPTE
Sbjct: 62  FDQLFKRTGSLDKSFEGTPKILKPEKPVDGEKPISTKVSTMFAGTRDKCFGCKNTVYPTE 121

Query: 124 KVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEGEHEK 183
           KVSVNGT YHKSCFKC HGGC ISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEG+ EK
Sbjct: 122 KVSVNGTSYHKSCFKCIHGGCTISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEGDVEK 181

Query: 184 TSVNANERVNGKQVDA 199
            S+  N++ NG++V A
Sbjct: 182 DSM--NDKTNGREVSA 195

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18565124|dbj|BAB84584.1| transcription factor LIM [Nicotiana tabacum]

 Score =  355 bits (912), Expect = 5e-96,   Method: Compositional matrix adjust.
 Identities = 167/187 (89%), Positives = 173/187 (92%)

Query: 4   AFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 63
           AFAGT QKCMACDKTVYLVDK TADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH
Sbjct: 2   AFAGTTQKCMACDKTVYLVDKFTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 61

Query: 64  FDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTE 123
           FDQLFK+TGSLDKSFEGTPKI KP+KPID EKP VAKV++MFGGTREKC GCK TVYPTE
Sbjct: 62  FDQLFKQTGSLDKSFEGTPKIVKPQKPIDSEKPQVAKVTSMFGGTREKCFGCKKTVYPTE 121

Query: 124 KVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEGEHEK 183
           KVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHH QLIKEKGNLS+LEG+HE 
Sbjct: 122 KVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHIQLIKEKGNLSKLEGDHEM 181

Query: 184 TSVNANE 190
            S    E
Sbjct: 182 NSTTTTE 188

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|383081877|dbj|BAM05591.1| LIM transcription factor [Eucalyptus pyrocarpa] gi|383081879|dbj|BAM05592.1| LIM transcription factor [Eucalyptus globulus subsp. globulus]

 Score =  355 bits (911), Expect = 5e-96,   Method: Compositional matrix adjust.
 Identities = 164/183 (89%), Positives = 177/183 (96%)

Query: 4   AFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 63
           AFAGT QKCMAC+KTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH
Sbjct: 2   AFAGTTQKCMACEKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 61

Query: 64  FDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTE 123
           FDQLFKRTGSL+KSFEGTPKIAKPEKPIDGE+P   KVS+MFGGTR+KCVGCK+TVYPTE
Sbjct: 62  FDQLFKRTGSLEKSFEGTPKIAKPEKPIDGERPAATKVSSMFGGTRDKCVGCKSTVYPTE 121

Query: 124 KVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEGEHEK 183
           KV+VNGTPYHKSCFKC+HGGCVISPSNY+AHEG+LYC+HHH QLIKEKGNLSQLEG+HEK
Sbjct: 122 KVTVNGTPYHKSCFKCTHGGCVISPSNYVAHEGKLYCRHHHTQLIKEKGNLSQLEGDHEK 181

Query: 184 TSV 186
            +V
Sbjct: 182 ETV 184

Source: Eucalyptus pyrocarpa

Species: Eucalyptus pyrocarpa

Genus: Eucalyptus

Family: Myrtaceae

Order: Myrtales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|5932413|gb|AAD56948.1|AF184109_1 LIM domain protein WLIM1 [Nicotiana tabacum]

 Score =  352 bits (904), Expect = 3e-95,   Method: Compositional matrix adjust.
 Identities = 166/187 (88%), Positives = 172/187 (91%)

Query: 4   AFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 63
           AFAGT QKCMACDKT YLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH
Sbjct: 2   AFAGTTQKCMACDKTAYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 61

Query: 64  FDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTE 123
           FDQLFK+TGSLDKSFEGTPKI KP+KPID  KP VAKV++MFGGTREKC GCK TVYPTE
Sbjct: 62  FDQLFKQTGSLDKSFEGTPKIVKPQKPIDSGKPQVAKVTSMFGGTREKCFGCKKTVYPTE 121

Query: 124 KVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEGEHEK 183
           KVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHH QLIKEKGNLS+LEG+HE 
Sbjct: 122 KVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHIQLIKEKGNLSKLEGDHEM 181

Query: 184 TSVNANE 190
            S    E
Sbjct: 182 NSTTTTE 188

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

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	199
TAIR|locus:2012798	190	WLIM1 "AT1G10200" [Arabidopsis	0.914	0.957	0.846	2.9e-87
TAIR|locus:2061171	200	WLIM2a "WLIM2a" [Arabidopsis t	0.859	0.855	0.596	4.8e-55
TAIR|locus:2050735	226	PLIM2a "PLIM2a" [Arabidopsis t	0.894	0.787	0.502	1.1e-50
TAIR|locus:2198210	205	PLIM2b "PLIM2b" [Arabidopsis t	0.904	0.878	0.481	5.8e-50
TAIR|locus:2098871	213	PLIM2c "PLIM2c" [Arabidopsis t	0.959	0.896	0.472	9.5e-50
DICTYBASE|DDB_G0290575	472	DDB_G0290575 "LIM-type zinc fi	0.608	0.256	0.425	7.3e-24
RGD|61950	193	Csrp2 "cysteine and glycine-ri	0.819	0.844	0.297	1.2e-19
UNIPROTKB|Q62908	193	Csrp2 "Cysteine and glycine-ri	0.819	0.844	0.297	1.2e-19
MGI|MGI:1202907	193	Csrp2 "cysteine and glycine-ri	0.819	0.844	0.297	1.5e-19
UNIPROTKB|G3V9V9	193	Csrp2 "Cysteine and glycine-ri	0.819	0.844	0.297	1.5e-19

TAIR|locus:2012798 WLIM1 "AT1G10200" [Arabidopsis thaliana (taxid:3702)]

 Score = 872 (312.0 bits), Expect = 2.9e-87, P = 2.9e-87
 Identities = 154/182 (84%), Positives = 164/182 (90%)

Query:     4 AFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 63
             AFAGT QKCMACDKTVYLVDKLTADNR+YHKACFRCHHCKGTLKL NYNSFEGVLYCRPH
Sbjct:     2 AFAGTTQKCMACDKTVYLVDKLTADNRVYHKACFRCHHCKGTLKLSNYNSFEGVLYCRPH 61

Query:    64 FDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTE 123
             FDQ FKRTGSL+KSFEGTPKI KP++P++GE+P   KVS MFGGTREKCVGC  TVYP E
Sbjct:    62 FDQNFKRTGSLEKSFEGTPKIGKPDRPLEGERPAGTKVSNMFGGTREKCVGCDKTVYPIE 121

Query:   124 KVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEGEHEK 183
             KVSVNGT YHKSCFKC+HGGC ISPSNYIAHEG+LYCKHHH QLIKEKGNLSQLEG  E 
Sbjct:   122 KVSVNGTLYHKSCFKCTHGGCTISPSNYIAHEGKLYCKHHHIQLIKEKGNLSQLEGGGEN 181

Query:   184 TS 185
              +
Sbjct:   182 AA 183

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

GO:0051015 "actin filament binding" evidence=IDA

GO:0051017 "actin filament bundle assembly" evidence=IDA

GO:0006944 "cellular membrane fusion" evidence=RCA

TAIR|locus:2061171 WLIM2a "WLIM2a" [Arabidopsis thaliana (taxid:3702)]

 Score = 568 (205.0 bits), Expect = 4.8e-55, P = 4.8e-55
 Identities = 105/176 (59%), Positives = 128/176 (72%)

Query:     4 AFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 63
             +F GTQQKC AC+KTVY V+ L+AD   YHKACF+C HCK  L+L NY+S EGV+YCRPH
Sbjct:     2 SFTGTQQKCRACEKTVYPVELLSADGISYHKACFKCSHCKSRLQLSNYSSMEGVVYCRPH 61

Query:    64 FDQLFKRTGSLDKSFEGTPKIAKP--EKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYP 121
             F+QLFK +GS  K+F+ +P  AKP  +KP        ++++ MF GT++KC  C  TVYP
Sbjct:    62 FEQLFKESGSFSKNFQ-SP--AKPLTDKPTPELNRTPSRLAGMFSGTQDKCATCTKTVYP 118

Query:   122 TEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQL 177
              EKV+V    YHKSCFKCSHGGC ISPSNY A EG LYCKHH  QL KEKG+ + L
Sbjct:   119 IEKVTVESQCYHKSCFKCSHGGCPISPSNYAALEGILYCKHHFAQLFKEKGSYNHL 174

GO:0008270 "zinc ion binding" evidence=IEA

GO:0051015 "actin filament binding" evidence=IDA

GO:0051017 "actin filament bundle assembly" evidence=IDA

GO:0000271 "polysaccharide biosynthetic process" evidence=RCA

GO:0006944 "cellular membrane fusion" evidence=RCA

GO:0009825 "multidimensional cell growth" evidence=RCA

GO:0009932 "cell tip growth" evidence=RCA

GO:0010817 "regulation of hormone levels" evidence=RCA

GO:0043481 "anthocyanin accumulation in tissues in response to UV light" evidence=RCA

GO:0048767 "root hair elongation" evidence=RCA

GO:0071555 "cell wall organization" evidence=RCA

TAIR|locus:2050735 PLIM2a "PLIM2a" [Arabidopsis thaliana (taxid:3702)]

 Score = 527 (190.6 bits), Expect = 1.1e-50, P = 1.1e-50
 Identities = 93/185 (50%), Positives = 126/185 (68%)

Query:     4 AFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 63
             +F GT  KC ACDKTVY++D LT +   YHK+CFRC HCKGTL + NY+S +GVLYC+PH
Sbjct:     2 SFTGTLDKCKACDKTVYVMDLLTLEGNTYHKSCFRCTHCKGTLVISNYSSMDGVLYCKPH 61

Query:    64 FDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTE 123
             F+QLFK +G+  K+F+      K EKP D      +K+S+ F GT++KC  CK TVYP E
Sbjct:    62 FEQLFKESGNYSKNFQA----GKTEKPNDHLTRTPSKLSSFFSGTQDKCATCKKTVYPLE 117

Query:   124 KVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLS---QLEGE 180
             KV++ G  YHK+CF+C+H GC ++ S+Y +  G LYCK H NQL  EKG+ +   Q    
Sbjct:   118 KVTMEGESYHKTCFRCTHSGCPLTHSSYASLNGVLYCKVHFNQLFLEKGSYNHVHQAAAN 177

Query:   181 HEKTS 185
             H +++
Sbjct:   178 HRRSA 182

GO:0005737 "cytoplasm" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

GO:0051015 "actin filament binding" evidence=IDA

GO:0051017 "actin filament bundle assembly" evidence=IDA

GO:0006944 "cellular membrane fusion" evidence=RCA

TAIR|locus:2198210 PLIM2b "PLIM2b" [Arabidopsis thaliana (taxid:3702)]

 Score = 520 (188.1 bits), Expect = 5.8e-50, P = 5.8e-50
 Identities = 90/187 (48%), Positives = 130/187 (69%)

Query:     4 AFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 63
             +F GT  KC  CDKTVY+VD L+ +   YHK+CFRC HCKGTL++ NY+S +GVLYC+ H
Sbjct:     2 SFTGTLDKCNVCDKTVYVVDMLSIEGMPYHKSCFRCTHCKGTLQMSNYSSMDGVLYCKTH 61

Query:    64 FDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTE 123
             F+QLFK +G+  K+F+  P   K EKP     P+  K+S++F GT++KC  C+ TVYP E
Sbjct:    62 FEQLFKESGNFSKNFQ--P--GKTEKPELTRTPS--KISSIFCGTQDKCAACEKTVYPLE 115

Query:   124 KVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQ-LEGEHE 182
             K+ + G  +HK+CF+C+HGGC ++ S+Y + +  LYC+HH NQL  EKGN +  L+  + 
Sbjct:   116 KIQMEGECFHKTCFRCAHGGCTLTHSSYASLDSVLYCRHHFNQLFMEKGNYAHVLQAANH 175

Query:   183 KTSVNAN 189
             + + + N
Sbjct:   176 RRTASGN 182

GO:0005737 "cytoplasm" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

GO:0051015 "actin filament binding" evidence=IDA

GO:0051017 "actin filament bundle assembly" evidence=IDA

GO:0006944 "cellular membrane fusion" evidence=RCA

TAIR|locus:2098871 PLIM2c "PLIM2c" [Arabidopsis thaliana (taxid:3702)]

 Score = 518 (187.4 bits), Expect = 9.5e-50, P = 9.5e-50
 Identities = 95/201 (47%), Positives = 133/201 (66%)

Query:     3 AAFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRP 62
             AAF GT  KC ACDKTVY++D +T +   YHK+CFRC HC GTL + NY+S +GVLYC+ 
Sbjct:     2 AAFTGTTDKCKACDKTVYVMDLMTLEGMPYHKSCFRCSHCNGTLVICNYSSMDGVLYCKT 61

Query:    63 HFDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEK-PNVAKVSTMFGGTREKCVGCKNTVYP 121
             HF+QLFK +G+  K+F+      K EK  D  K PN  ++S+ F GT++KC  CK TVYP
Sbjct:    62 HFEQLFKESGNFSKNFQTA---GKTEKSNDATKAPN--RLSSFFSGTQDKCAACKKTVYP 116

Query:   122 TEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLS---QLE 178
              EK+++ G  YHK+CF+C+H GC ++ S+Y A +G LYCK H +QL  EKGN +   Q  
Sbjct:   117 LEKMTMEGESYHKTCFRCAHSGCPLTHSSYAALDGVLYCKVHFSQLFLEKGNYNHVLQAA 176

Query:   179 GEHEKTSVNANERVNGKQVDA 199
               H +++    ++   K+ +A
Sbjct:   177 ANHRRSTAE-EDKTEPKEDEA 196

GO:0005737 "cytoplasm" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

GO:0051015 "actin filament binding" evidence=IDA

GO:0051017 "actin filament bundle assembly" evidence=IDA

GO:0006944 "cellular membrane fusion" evidence=RCA

DICTYBASE|DDB_G0290575 DDB_G0290575 "LIM-type zinc finger-containing protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 278 (102.9 bits), Expect = 7.3e-24, P = 7.3e-24
 Identities = 60/141 (42%), Positives = 77/141 (54%)

Query:     7 GTQQKCMACDKTVYLVDKLTA----DNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRP 62
             GTQ+KC AC KTVYL +K+      D + +HK C +C HCK TL LGNY S  GV YC+P
Sbjct:     6 GTQEKCTACAKTVYLTEKIVVEDKEDKKTFHKLCLKCTHCKLTLSLGNYASLNGVFYCKP 65

Query:    63 HFDQLFKRTGSLDKSF-----------EGTPKIAKPEKPIDGEKPNVAK-----VSTMFG 106
             HF QLF   G+ D+ F           + TP       P++  K +  K     +S+ F 
Sbjct:    66 HFKQLFATKGNYDEGFGKSKHSEKWTPQATPTGTSSFIPVEESKSSEKKETPTTISSKFS 125

Query:   107 GTREKCVGCKNTVYPTEKVSV 127
             G+ EKC  C  TVY TEK+ V
Sbjct:   126 GSTEKCNLCNKTVYLTEKIVV 146

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0046872 "metal ion binding" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

RGD|61950 Csrp2 "cysteine and glycine-rich protein 2" [Rattus norvegicus (taxid:10116)]

 Score = 234 (87.4 bits), Expect = 1.2e-19, P = 1.2e-19
 Identities = 53/178 (29%), Positives = 87/178 (48%)

Query:     7 GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQ 66
             G   KC AC +TVY  +++  D R +H+ CF C  C+  L        +  +YC+  + +
Sbjct:     5 GGGNKCGACGRTVYHAEEVQCDGRTFHRCCFLCMVCRKNLDSTTVAIHDEEIYCKSCYGK 64

Query:    67 LFKRTG----------SLDKSFE-GT-PKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVG 114
              +   G          ++D+    G  P+ A+P +P     PN +K +  +GG  EKC  
Sbjct:    65 KYGPKGYGYGQGAGTLNMDRGERLGIKPESAQPHRPTTN--PNTSKFAQKYGGA-EKCSR 121

Query:   115 CKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKG 172
             C ++VY  EK+   G P+HK+CF+C+  G  +  +     EG +YCK  + +    KG
Sbjct:   122 CGDSVYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFGPKG 179

GO:0005634 "nucleus" evidence=IDA

GO:0007275 "multicellular organismal development" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0045445 "myoblast differentiation" evidence=IEP

UNIPROTKB|Q62908 Csrp2 "Cysteine and glycine-rich protein 2" [Rattus norvegicus (taxid:10116)]

 Score = 234 (87.4 bits), Expect = 1.2e-19, P = 1.2e-19
 Identities = 53/178 (29%), Positives = 87/178 (48%)

Query:     7 GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQ 66
             G   KC AC +TVY  +++  D R +H+ CF C  C+  L        +  +YC+  + +
Sbjct:     5 GGGNKCGACGRTVYHAEEVQCDGRTFHRCCFLCMVCRKNLDSTTVAIHDEEIYCKSCYGK 64

Query:    67 LFKRTG----------SLDKSFE-GT-PKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVG 114
              +   G          ++D+    G  P+ A+P +P     PN +K +  +GG  EKC  
Sbjct:    65 KYGPKGYGYGQGAGTLNMDRGERLGIKPESAQPHRPTTN--PNTSKFAQKYGGA-EKCSR 121

Query:   115 CKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKG 172
             C ++VY  EK+   G P+HK+CF+C+  G  +  +     EG +YCK  + +    KG
Sbjct:   122 CGDSVYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFGPKG 179

GO:0008270 "zinc ion binding" evidence=IEA

MGI|MGI:1202907 Csrp2 "cysteine and glycine-rich protein 2" [Mus musculus (taxid:10090)]

 Score = 233 (87.1 bits), Expect = 1.5e-19, P = 1.5e-19
 Identities = 53/178 (29%), Positives = 87/178 (48%)

Query:     7 GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQ 66
             G   KC AC +TVY  +++  D R +H+ CF C  C+  L        +  +YC+  + +
Sbjct:     5 GGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDEEIYCKSCYGK 64

Query:    67 LFKRTG----------SLDKSFE-GT-PKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVG 114
              +   G          ++D+    G  P+ A+P +P     PN +K +  +GG  EKC  
Sbjct:    65 KYGPKGYGYGQGAGTLNMDRGERLGIKPESAQPHRPTTN--PNTSKFAQKYGGA-EKCSR 121

Query:   115 CKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKG 172
             C ++VY  EK+   G P+HK+CF+C+  G  +  +     EG +YCK  + +    KG
Sbjct:   122 CGDSVYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFGPKG 179

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=ISO

GO:0007275 "multicellular organismal development" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0030154 "cell differentiation" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|G3V9V9 Csrp2 "Cysteine and glycine-rich protein 2, isoform CRA_b" [Rattus norvegicus (taxid:10116)]

 Score = 233 (87.1 bits), Expect = 1.5e-19, P = 1.5e-19
 Identities = 53/178 (29%), Positives = 87/178 (48%)

Query:     7 GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQ 66
             G   KC AC +TVY  +++  D R +H+ CF C  C+  L        +  +YC+  + +
Sbjct:     5 GGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDEEIYCKSCYGK 64

Query:    67 LFKRTG----------SLDKSFE-GT-PKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVG 114
              +   G          ++D+    G  P+ A+P +P     PN +K +  +GG  EKC  
Sbjct:    65 KYGPKGYGYGQGAGTLNMDRGERLGIKPESAQPHRPTTN--PNTSKFAQKYGGA-EKCSR 121

Query:   115 CKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKG 172
             C ++VY  EK+   G P+HK+CF+C+  G  +  +     EG +YCK  + +    KG
Sbjct:   122 CGDSVYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCKGCYAKNFGPKG 179

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)
P29675	SF3_HELAN	No assigned EC number	0.6326	0.9798	0.8904	N/A	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

Your Input: GSVIVG00014964001 SubName- Full=Putative uncharacterized protein (Chromosome chr18 scaffold_1, whole genome shotgun sequence); (197 aa) (Vitis vinifera)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	199
cd09440	63	cd09440, LIM1_SF3, The first Lim domain of pollen	2e-38
cd09441	61	cd09441, LIM2_SF3, The second Lim domain of pollen	7e-36
cd09358	53	cd09358, LIM_Mical_like, The LIM domain of Mical (	5e-24
cd09358	53	cd09358, LIM_Mical_like, The LIM domain of Mical (	2e-20
cd09440	63	cd09440, LIM1_SF3, The first Lim domain of pollen	1e-18
cd09442	53	cd09442, LIM_Eplin_like, The Lim domain of Epithel	8e-18
cd09441	61	cd09441, LIM2_SF3, The second Lim domain of pollen	6e-17
cd09485	53	cd09485, LIM_Eplin_alpha_beta, The Lim domain of E	3e-16
cd09439	55	cd09439, LIM_Mical, The LIM domain of Mical (molec	9e-15
cd09486	53	cd09486, LIM_Eplin_like_1, a LIM domain subfamily	8e-14
cd09445	53	cd09445, LIM_Mical_like_2, This domain belongs to	3e-13
pfam00412	58	pfam00412, LIM, LIM domain	8e-13
pfam00412	58	pfam00412, LIM, LIM domain	2e-11
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	2e-11
cd09485	53	cd09485, LIM_Eplin_alpha_beta, The Lim domain of E	6e-11
cd09442	53	cd09442, LIM_Eplin_like, The Lim domain of Epithel	2e-10
cd09447	53	cd09447, LIM_LASP, The LIM domain of LIM and SH3 P	3e-10
cd09443	55	cd09443, LIM_Ltd-1, The LIM domain of LIM and tran	9e-10
cd09439	55	cd09439, LIM_Mical, The LIM domain of Mical (molec	1e-09
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	2e-09
cd09443	55	cd09443, LIM_Ltd-1, The LIM domain of LIM and tran	4e-09
cd09445	53	cd09445, LIM_Mical_like_2, This domain belongs to	6e-09
cd09444	55	cd09444, LIM_Mical_like_1, This domain belongs to	1e-08
cd09401	53	cd09401, LIM_TLP_like, The LIM domains of thymus L	1e-08
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	2e-08
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	2e-08
cd09486	53	cd09486, LIM_Eplin_like_1, a LIM domain subfamily	1e-07
cd09446	53	cd09446, LIM_N_RAP, The LIM domain of N-RAP	2e-07
cd09447	53	cd09447, LIM_LASP, The LIM domain of LIM and SH3 P	3e-07
cd09359	53	cd09359, LIM_LASP_like, The LIM domain of LIM and	3e-07
cd09401	53	cd09401, LIM_TLP_like, The LIM domains of thymus L	7e-07
cd09326	53	cd09326, LIM_CRP_like, The LIM domains of Cysteine	1e-06
cd09482	54	cd09482, LIM2_CRP3, The second LIM domain of Cyste	1e-06
cd09400	61	cd09400, LIM_like_1, LIM domain in proteins of unk	2e-06
cd09403	54	cd09403, LIM2_CRP, The second LIM domain of Cystei	2e-06
cd09840	54	cd09840, LIM2_CRP2, The second LIM domain of Cyste	3e-06
cd09404	54	cd09404, LIM1_MLP84B_like, The LIM domain of Mlp84	3e-06
cd09477	54	cd09477, LIM2_TLP, The second LIM domain of thymus	3e-06
cd09359	53	cd09359, LIM_LASP_like, The LIM domain of LIM and	7e-06
cd09326	53	cd09326, LIM_CRP_like, The LIM domains of Cysteine	7e-06
cd09400	61	cd09400, LIM_like_1, LIM domain in proteins of unk	1e-05
cd09481	54	cd09481, LIM1_CRP3, The first LIM domain of Cystei	1e-05
cd09476	54	cd09476, LIM1_TLP, The first LIM domain of thymus	1e-05
cd09446	53	cd09446, LIM_N_RAP, The LIM domain of N-RAP	2e-05
cd09482	54	cd09482, LIM2_CRP3, The second LIM domain of Cyste	2e-05
cd09404	54	cd09404, LIM1_MLP84B_like, The LIM domain of Mlp84	2e-05
cd09481	54	cd09481, LIM1_CRP3, The first LIM domain of Cystei	3e-05
cd09364	53	cd09364, LIM1_LIMK, The first LIM domain of LIMK (	3e-05
cd09478	54	cd09478, LIM_CRIP, The LIM domain of Cysteine-Rich	5e-05
cd09478	54	cd09478, LIM_CRIP, The LIM domain of Cysteine-Rich	8e-05
cd09403	54	cd09403, LIM2_CRP, The second LIM domain of Cystei	9e-05
cd09476	54	cd09476, LIM1_TLP, The first LIM domain of thymus	1e-04
cd09402	53	cd09402, LIM1_CRP, The first LIM domain of Cystein	2e-04
cd09402	53	cd09402, LIM1_CRP, The first LIM domain of Cystein	2e-04
cd09840	54	cd09840, LIM2_CRP2, The second LIM domain of Cyste	3e-04
cd09379	55	cd09379, LIM2_AWH, The second LIM domain of Arrowh	3e-04
cd09480	55	cd09480, LIM1_CRP2, The first LIM domain of Cystei	3e-04
cd09444	55	cd09444, LIM_Mical_like_1, This domain belongs to	4e-04
cd09364	53	cd09364, LIM1_LIMK, The first LIM domain of LIMK (	4e-04
cd09463	53	cd09463, LIM1_LIMK2, The first LIM domain of LIMK2	4e-04
cd09479	56	cd09479, LIM1_CRP1, The first LIM domain of Cystei	5e-04
cd09479	56	cd09479, LIM1_CRP1, The first LIM domain of Cystei	7e-04
cd09477	54	cd09477, LIM2_TLP, The second LIM domain of thymus	0.001
cd09480	55	cd09480, LIM1_CRP2, The first LIM domain of Cystei	0.001
cd09462	74	cd09462, LIM1_LIMK1, The first LIM domain of LIMK1	0.001
cd09367	52	cd09367, LIM1_Lhx1_Lhx5, The first LIM domain of L	0.001
cd09462	74	cd09462, LIM1_LIMK1, The first LIM domain of LIMK1	0.003
cd09345	54	cd09345, LIM2_FHL, The second LIM domain of Four a	0.003

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

 Score =  126 bits (318), Expect = 2e-38
 Identities = 48/63 (76%), Positives = 55/63 (87%)

Query: 8  TQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQL 67
          T QKC ACDKTVYLVD+L+AD  +YHK+CFRC HCKGTLKL NY+S EGVLYC+PHF+QL
Sbjct: 1  TTQKCKACDKTVYLVDQLSADGVVYHKSCFRCSHCKGTLKLSNYSSMEGVLYCKPHFEQL 60

Query: 68 FKR 70
          FK 
Sbjct: 61 FKE 63

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

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

 Score =  119 bits (301), Expect = 7e-36
 Identities = 50/61 (81%), Positives = 52/61 (85%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEK 171
           CV C  TVYP EKV+V GT YHKSCFKCSHGGC ISPSNY AHEGRLYCKHHH+QL KEK
Sbjct: 1   CVACGKTVYPIEKVTVEGTSYHKSCFKCSHGGCTISPSNYAAHEGRLYCKHHHSQLFKEK 60

Query: 172 G 172
           G
Sbjct: 61  G 61

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

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

 Score = 89.3 bits (222), Expect = 5e-24
 Identities = 32/53 (60%), Positives = 41/53 (77%)

Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHF 64
          C  C KTVY +++L AD +++HK+CFRC HC  TL+LGNY S EG LYC+PHF
Sbjct: 1  CAVCGKTVYPMERLVADGKLFHKSCFRCSHCNKTLRLGNYASLEGKLYCKPHF 53

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

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

 Score = 80.0 bits (198), Expect = 2e-20
 Identities = 25/53 (47%), Positives = 33/53 (62%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHH 164
           C  C  TVYP E++  +G  +HKSCF+CSH    +   NY + EG+LYCK H 
Sbjct: 1   CAVCGKTVYPMERLVADGKLFHKSCFRCSHCNKTLRLGNYASLEGKLYCKPHF 53

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

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

 Score = 75.6 bits (186), Expect = 1e-18
 Identities = 32/63 (50%), Positives = 40/63 (63%)

Query: 108 TREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQL 167
           T +KC  C  TVY  +++S +G  YHKSCF+CSH    +  SNY + EG LYCK H  QL
Sbjct: 1   TTQKCKACDKTVYLVDQLSADGVVYHKSCFRCSHCKGTLKLSNYSSMEGVLYCKPHFEQL 60

Query: 168 IKE 170
            KE
Sbjct: 61  FKE 63

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

>gnl|CDD|188826 cd09442, LIM_Eplin_like, The Lim domain of Epithelial Protein Lost in Neoplasm (Eplin) like proteins

 Score = 73.3 bits (180), Expect = 8e-18
 Identities = 28/53 (52%), Positives = 36/53 (67%)

Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHF 64
          C  C K VY +++L AD + +HK+CFRC HC   L LGNY S  G +YC+PHF
Sbjct: 1  CTVCQKRVYPMERLIADKQNFHKSCFRCEHCNSKLSLGNYASLHGRIYCKPHF 53

The Lim domain of Epithelial Protein Lost in Neoplasm (Eplin) like proteins: This family contains Epithelial Protein Lost in Neoplasm in Neoplasm (Eplin), xin actin-binding repeat-containing protein 2 (XIRP2) and a group of protein with unknown function. The members of this family all contain a single LIM domain. Epithelial Protein Lost in Neoplasm is a cytoskeleton-associated tumor suppressor whose expression inversely correlates with cell growth, motility, invasion and cancer mortality. Eplin interacts and stabilizes F-actin filaments and stress fibers, which correlates with its ability to suppress anchorage independent growth. In epithelial cells, Eplin is required for formation of the F-actin adhesion belt by binding to the E-cadherin-catenin complex through alpha-catenin. Eplin is expressed in two isoforms, a longer Eplin-beta and a shorter Eplin-alpha. Eplin-alpha mRNA is detected in various tissues and cell lines, but is absent or down regulated in cancer cells. Xirp2 contains a LIM domain and Xin re peats for binding to and stabilising F-actin. Xirp2 is expressed in muscles and is significantly induced in the heart in response to systemic administration of angiotensin II. Xirp2 is an important effector of the Ang II signaling pathway in the heart. The expression of Xirp2 is activated by myocyte enhancer factor (MEF)2A, whose transcriptional activity is stimulated by angiotersin II. Thus, Xirp2 plays important pathological roles in the angiotensin II induced hypertension. 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|188825 cd09441, LIM2_SF3, The second Lim domain of pollen specific protein SF3

 Score = 71.3 bits (175), Expect = 6e-17
 Identities = 30/61 (49%), Positives = 40/61 (65%)

Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRT 71
          C+AC KTVY ++K+T +   YHK+CF+C H   T+   NY + EG LYC+ H  QLFK  
Sbjct: 1  CVACGKTVYPIEKVTVEGTSYHKSCFKCSHGGCTISPSNYAAHEGRLYCKHHHSQLFKEK 60

Query: 72 G 72
          G
Sbjct: 61 G 61

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

>gnl|CDD|188869 cd09485, LIM_Eplin_alpha_beta, The Lim domain of Epithelial Protein Lost in Neoplasm (Eplin)

 Score = 69.1 bits (169), Expect = 3e-16
 Identities = 27/53 (50%), Positives = 38/53 (71%)

Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHF 64
          C++C KTVY +++L A+ +IYH +CFRC +C   L LG Y S  G +YC+PHF
Sbjct: 1  CVSCQKTVYPLERLVANQQIYHNSCFRCSYCNTKLSLGTYASLHGNIYCKPHF 53

The Lim domain of Epithelial Protein Lost in Neoplasm (Eplin): Epithelial Protein Lost in Neoplasm is a cytoskeleton-associated tumor suppressor whose expression inversely correlates with cell growth, motility, invasion and cancer mortality. Eplin interacts and stabilizes F-actin filaments and stress fibers, which correlates with its ability to suppress anchorage independent growth. In epithelial cells, Eplin is required for formation of the F-actin adhesion belt by binding to the E-cadherin-catenin complex through alpha-catenin. Eplin is expressed in two isoforms, a longer Eplin-beta and a shorter Eplin-alpha. Eplin-alpha mRNA is detected in various tissues and cell lines, but is absent or down regulated in cancer cells. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 53

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

 Score = 65.4 bits (160), Expect = 9e-15
 Identities = 23/55 (41%), Positives = 38/55 (69%), Gaps = 2/55 (3%)

Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNY--NSFEGVLYCRPHF 64
          C  C K VY++++L+A+   +H++CF+C +C  TL+LG Y  +  +G  YC+PHF
Sbjct: 1  CYFCKKRVYVMERLSAEGLFFHRSCFKCSYCGTTLRLGAYAFDRDDGKFYCKPHF 55

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

>gnl|CDD|188870 cd09486, LIM_Eplin_like_1, a LIM domain subfamily on a group of proteins with unknown function

 Score = 62.7 bits (152), Expect = 8e-14
 Identities = 25/53 (47%), Positives = 35/53 (66%)

Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHF 64
          C +C KTVY +++L AD  ++H +CF C HC   L LG+Y +  G  YC+PHF
Sbjct: 1  CSSCQKTVYPMERLVADKLVFHNSCFCCKHCNAKLSLGSYAALHGEFYCKPHF 53

This model represents a LIM domain subfamily of Eplin-like family. This family shows highest homology to the LIM domains on Eplin and XIRP2 protein families. Epithelial Protein Lost in Neoplasm is a cytoskeleton-associated tumor suppressor whose expression inversely correlates with cell growth, motility, invasion and cancer mortality. Xirp2 is expressed in muscles and is an important effector of the Ang II signaling pathway in the heart. 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|188829 cd09445, LIM_Mical_like_2, This domain belongs to the LIM domain family which are found on Mical (molecule interacting with CasL) like proteins

 Score = 61.3 bits (149), Expect = 3e-13
 Identities = 27/53 (50%), Positives = 35/53 (66%)

Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHF 64
          C +C K VY ++++ A+  IYHK CFRC  C   LK+ NY S EG LYC+ HF
Sbjct: 1  CRSCGKPVYKMEEIIAEKHIYHKNCFRCKDCNKQLKVDNYQSHEGNLYCKVHF 53

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

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

 Score = 60.1 bits (146), Expect = 8e-13
 Identities = 20/57 (35%), Positives = 31/57 (54%), Gaps = 1/57 (1%)

Query: 112 CVGCKNTVYPTEKVS-VNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQL 167
           C GC   +Y  E V    G  +H  CF+C+  G  + P ++   +G+LYCKH + +L
Sbjct: 1   CAGCGKPIYDRELVRRALGKVWHPECFRCAVCGKPLGPGDFFEKDGKLYCKHDYFKL 57

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

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

 Score = 56.6 bits (137), Expect = 2e-11
 Identities = 19/58 (32%), Positives = 31/58 (53%), Gaps = 1/58 (1%)

Query: 12 CMACDKTVYLVDKLT-ADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF 68
          C  C K +Y  + +  A  +++H  CFRC  C   L  G++   +G LYC+  + +LF
Sbjct: 1  CAGCGKPIYDRELVRRALGKVWHPECFRCAVCGKPLGPGDFFEKDGKLYCKHDYFKLF 58

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

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

 Score = 56.6 bits (137), Expect = 2e-11
 Identities = 21/54 (38%), Positives = 29/54 (53%), Gaps = 1/54 (1%)

Query: 111 KCVGCKNTVYPTEKV-SVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHH 163
           KC GC   +Y TE+V    G  +H  CFKC+  G  +S   +   +G+LYCK  
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|188869 cd09485, LIM_Eplin_alpha_beta, The Lim domain of Epithelial Protein Lost in Neoplasm (Eplin)

 Score = 55.3 bits (133), Expect = 6e-11
 Identities = 23/52 (44%), Positives = 31/52 (59%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHH 163
           CV C+ TVYP E++  N   YH SCF+CS+    +S   Y +  G +YCK H
Sbjct: 1   CVSCQKTVYPLERLVANQQIYHNSCFRCSYCNTKLSLGTYASLHGNIYCKPH 52

The Lim domain of Epithelial Protein Lost in Neoplasm (Eplin): Epithelial Protein Lost in Neoplasm is a cytoskeleton-associated tumor suppressor whose expression inversely correlates with cell growth, motility, invasion and cancer mortality. Eplin interacts and stabilizes F-actin filaments and stress fibers, which correlates with its ability to suppress anchorage independent growth. In epithelial cells, Eplin is required for formation of the F-actin adhesion belt by binding to the E-cadherin-catenin complex through alpha-catenin. Eplin is expressed in two isoforms, a longer Eplin-beta and a shorter Eplin-alpha. Eplin-alpha mRNA is detected in various tissues and cell lines, but is absent or down regulated in cancer cells. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 53

>gnl|CDD|188826 cd09442, LIM_Eplin_like, The Lim domain of Epithelial Protein Lost in Neoplasm (Eplin) like proteins

 Score = 54.0 bits (130), Expect = 2e-10
 Identities = 22/52 (42%), Positives = 31/52 (59%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHH 163
           C  C+  VYP E++  +   +HKSCF+C H    +S  NY +  GR+YCK H
Sbjct: 1   CTVCQKRVYPMERLIADKQNFHKSCFRCEHCNSKLSLGNYASLHGRIYCKPH 52

The Lim domain of Epithelial Protein Lost in Neoplasm (Eplin) like proteins: This family contains Epithelial Protein Lost in Neoplasm in Neoplasm (Eplin), xin actin-binding repeat-containing protein 2 (XIRP2) and a group of protein with unknown function. The members of this family all contain a single LIM domain. Epithelial Protein Lost in Neoplasm is a cytoskeleton-associated tumor suppressor whose expression inversely correlates with cell growth, motility, invasion and cancer mortality. Eplin interacts and stabilizes F-actin filaments and stress fibers, which correlates with its ability to suppress anchorage independent growth. In epithelial cells, Eplin is required for formation of the F-actin adhesion belt by binding to the E-cadherin-catenin complex through alpha-catenin. Eplin is expressed in two isoforms, a longer Eplin-beta and a shorter Eplin-alpha. Eplin-alpha mRNA is detected in various tissues and cell lines, but is absent or down regulated in cancer cells. Xirp2 contains a LIM domain and Xin re peats for binding to and stabilising F-actin. Xirp2 is expressed in muscles and is significantly induced in the heart in response to systemic administration of angiotensin II. Xirp2 is an important effector of the Ang II signaling pathway in the heart. The expression of Xirp2 is activated by myocyte enhancer factor (MEF)2A, whose transcriptional activity is stimulated by angiotersin II. Thus, Xirp2 plays important pathological roles in the angiotensin II induced hypertension. 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|188831 cd09447, LIM_LASP, The LIM domain of LIM and SH3 Protein (LASP)

 Score = 53.5 bits (129), Expect = 3e-10
 Identities = 22/53 (41%), Positives = 30/53 (56%)

Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHF 64
          C  C KTVY  +KL   ++I+HK CF+C  C  TL + NY  +    YC  H+
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|188827 cd09443, LIM_Ltd-1, The LIM domain of LIM and transglutaminase domains protein (Ltd-1)

 Score = 52.0 bits (125), Expect = 9e-10
 Identities = 22/54 (40%), Positives = 28/54 (51%), Gaps = 2/54 (3%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNY--IAHEGRLYCKHH 163
           C  C  T YP E V  +GT YHK CFKC   G  +S   +  +  +G +YC  H
Sbjct: 1   CPRCGKTAYPAESVDKDGTFYHKGCFKCRECGTRLSLKTFTFVQGDGEVYCARH 54

The LIM domain of LIM and transglutaminase domains protein (Ltd-1): This family includes mouse Ky protein and Caenorhabditis elegans Ltd-1 protein. The members of this family consists a N-terminal Lim domain and a C-terminal transglutaminase domain. The mouse Ky protein has putative function in muscle development. The mouse with ky mutant exhibits combined posterior and lateral curvature of the spine. The Ltd-1 gene in C. elegans is expressed in developing hypodermal cells from the twofold stage embryo through adulthood. These data define the ltd-1 gene as a novel marker for C. elegans epithelial cell development. 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|188823 cd09439, LIM_Mical, The LIM domain of Mical (molecule interacting with CasL)

 Score = 51.9 bits (125), Expect = 1e-09
 Identities = 22/54 (40%), Positives = 30/54 (55%), Gaps = 2/54 (3%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAH--EGRLYCKHH 163
           C  CK  VY  E++S  G  +H+SCFKCS+ G  +    Y     +G+ YCK H
Sbjct: 1   CYFCKKRVYVMERLSAEGLFFHRSCFKCSYCGTTLRLGAYAFDRDDGKFYCKPH 54

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

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

 Score = 51.2 bits (123), Expect = 2e-09
 Identities = 15/53 (28%), Positives = 25/53 (47%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHH 164
           C GC   +   E +   G  +H  CFKCS  G  +   ++   +G+ YC+  +
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|188827 cd09443, LIM_Ltd-1, The LIM domain of LIM and transglutaminase domains protein (Ltd-1)

 Score = 50.5 bits (121), Expect = 4e-09
 Identities = 19/54 (35%), Positives = 25/54 (46%), Gaps = 2/54 (3%)

Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYN--SFEGVLYCRPH 63
          C  C KT Y  + +  D   YHK CF+C  C   L L  +     +G +YC  H
Sbjct: 1  CPRCGKTAYPAESVDKDGTFYHKGCFKCRECGTRLSLKTFTFVQGDGEVYCARH 54

The LIM domain of LIM and transglutaminase domains protein (Ltd-1): This family includes mouse Ky protein and Caenorhabditis elegans Ltd-1 protein. The members of this family consists a N-terminal Lim domain and a C-terminal transglutaminase domain. The mouse Ky protein has putative function in muscle development. The mouse with ky mutant exhibits combined posterior and lateral curvature of the spine. The Ltd-1 gene in C. elegans is expressed in developing hypodermal cells from the twofold stage embryo through adulthood. These data define the ltd-1 gene as a novel marker for C. elegans epithelial cell development. 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|188829 cd09445, LIM_Mical_like_2, This domain belongs to the LIM domain family which are found on Mical (molecule interacting with CasL) like proteins

 Score = 49.8 bits (119), Expect = 6e-09
 Identities = 21/52 (40%), Positives = 27/52 (51%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHH 163
           C  C   VY  E++      YHK+CF+C      +   NY +HEG LYCK H
Sbjct: 1   CRSCGKPVYKMEEIIAEKHIYHKNCFRCKDCNKQLKVDNYQSHEGNLYCKVH 52

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

>gnl|CDD|188828 cd09444, LIM_Mical_like_1, This domain belongs to the LIM domain family which are found on Mical (molecule interacting with CasL) like proteins

 Score = 49.3 bits (118), Expect = 1e-08
 Identities = 21/55 (38%), Positives = 29/55 (52%), Gaps = 2/55 (3%)

Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFE--GVLYCRPHF 64
          C AC + V+LV +   D ++YH+ CFRC  C  TL  G+Y +    G   C  H 
Sbjct: 1  CAACGQHVHLVQRHLVDGKLYHRNCFRCKECSSTLLPGSYKAGPEPGTFVCTHHH 55

The LIM domain on proteins of unknown function: This domain belongs to the LIM domain family which are found on Mical (molecule interacting with CasL) like proteins. Known members of the Mical-like family includes single LIM domain containing proteins, Mical (molecule interacting with CasL), pollen specific protein SF3, Eplin, xin actin-binding repeat-containing protein 2 (XIRP2), and Ltd-1. The members of this family function mainly at the cytoskeleton and focal adhesions. They interact with transcription factors or other signaling molecules to play roles in muscle development, neuronal differentiation, cell growth, and mobility. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 55

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

 Score = 48.9 bits (117), Expect = 1e-08
 Identities = 22/51 (43%), Positives = 27/51 (52%)

Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRP 62
          C  C K VY  +K T+  R +HK C RC  CK TL  G ++  EG  YC  
Sbjct: 1  CPKCGKPVYFAEKKTSLGRDWHKPCLRCEKCKKTLTPGQHSEHEGKPYCNK 51

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

 Score = 48.5 bits (116), Expect = 2e-08
 Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 1/54 (1%)

Query: 11 KCMACDKTVYLVDK-LTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 63
          KC  C K +Y  ++ L A  +++H  CF+C  C   L    +   +G LYC+  
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|188711 cd08368, LIM, LIM is a small protein-protein interaction domain, containing two zinc fingers

 Score = 48.5 bits (116), Expect = 2e-08
 Identities = 14/53 (26%), Positives = 23/53 (43%)

Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHF 64
          C  C K +   + L A  + +H  CF+C  C   L   ++   +G  YC   +
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|188870 cd09486, LIM_Eplin_like_1, a LIM domain subfamily on a group of proteins with unknown function

 Score = 46.1 bits (109), Expect = 1e-07
 Identities = 21/52 (40%), Positives = 28/52 (53%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHH 163
           C  C+ TVYP E++  +   +H SCF C H    +S  +Y A  G  YCK H
Sbjct: 1   CSSCQKTVYPMERLVADKLVFHNSCFCCKHCNAKLSLGSYAALHGEFYCKPH 52

This model represents a LIM domain subfamily of Eplin-like family. This family shows highest homology to the LIM domains on Eplin and XIRP2 protein families. Epithelial Protein Lost in Neoplasm is a cytoskeleton-associated tumor suppressor whose expression inversely correlates with cell growth, motility, invasion and cancer mortality. Xirp2 is expressed in muscles and is an important effector of the Ang II signaling pathway in the heart. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 53

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

 Score = 45.7 bits (108), Expect = 2e-07
 Identities = 17/53 (32%), Positives = 32/53 (60%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHH 164
           C  C   VYP EK++     +HK+CF C     +++ +N+++H+ + YC+ H+
Sbjct: 1   CARCGYGVYPAEKINCIDQTWHKACFHCEVCKMMLTVNNFVSHQKKPYCQAHN 53

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

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

 Score = 45.4 bits (108), Expect = 3e-07
 Identities = 21/53 (39%), Positives = 29/53 (54%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHH 164
           C  C  TVYPTEK++     +HK CFKC   G  ++  NY  +  + YC  H+
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 = 45.3 bits (107), Expect = 3e-07
 Identities = 21/53 (39%), Positives = 30/53 (56%)

Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHF 64
          C  C K VY  +K+   ++ +HKACF C  CK TL + NY  ++   YC  H+
Sbjct: 1  CARCGKIVYPTEKVNCLDKTWHKACFHCEVCKMTLNMNNYKGYQKKPYCNAHY 53

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

 Score = 44.3 bits (105), Expect = 7e-07
 Identities = 17/51 (33%), Positives = 24/51 (47%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKH 162
           C  C   VY  EK +  G  +HK C +C      ++P  +  HEG+ YC  
Sbjct: 1   CPKCGKPVYFAEKKTSLGRDWHKPCLRCEKCKKTLTPGQHSEHEGKPYCNK 51

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

 Score = 43.7 bits (104), Expect = 1e-06
 Identities = 16/50 (32%), Positives = 26/50 (52%)

Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCR 61
          C  C K+VY  +++ A  + +HK+CF C  C   L        +G +YC+
Sbjct: 1  CPRCGKSVYAAEEVIAAGKSWHKSCFTCAVCNKRLDSTTLAEHDGEIYCK 50

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

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

 Score = 43.8 bits (103), Expect = 1e-06
 Identities = 20/50 (40%), Positives = 28/50 (56%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCK 161
           C  C  +VY  EKV   G P+HK+CF+C+  G  +  +     +G LYCK
Sbjct: 1   CPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTTVTDKDGELYCK 50

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

>gnl|CDD|188784 cd09400, LIM_like_1, LIM domain in proteins of unknown function

 Score = 43.2 bits (102), Expect = 2e-06
 Identities = 18/52 (34%), Positives = 29/52 (55%)

Query: 109 REKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYC 160
           RE C  C   V+  E++ + G  YH++CFKC+  G  ++P ++   E   YC
Sbjct: 2   REPCASCGLPVFLAERLLIEGKVYHRTCFKCARCGVQLTPGSFYETEYGSYC 53

LIM domain in proteins of unknown function: 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. The 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 = 61

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

 Score = 42.9 bits (101), Expect = 2e-06
 Identities = 18/50 (36%), Positives = 28/50 (56%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCK 161
           C  C  +VY  EK+   G P+HK+CF+C+  G  +  +     +G +YCK
Sbjct: 1   CPRCGKSVYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLADKDGEIYCK 50

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

>gnl|CDD|188871 cd09840, LIM2_CRP2, The second LIM domain of Cysteine Rich Protein 2 (CRP2)

 Score = 42.8 bits (100), Expect = 3e-06
 Identities = 19/50 (38%), Positives = 29/50 (58%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCK 161
           C  C ++VY  EK+   G P+HK+CF+C+  G  +  +     EG +YCK
Sbjct: 1   CSRCGDSVYAAEKIMGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCK 50

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

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

 Score = 42.9 bits (101), Expect = 3e-06
 Identities = 22/54 (40%), Positives = 28/54 (51%)

Query: 111 KCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHH 164
           KC  C  +VY  E+    G  +HK CFKC     ++  +N   HEG LYCK  H
Sbjct: 1   KCPKCGKSVYAAEERLAGGYKWHKMCFKCGMCNKLLDSTNCAEHEGELYCKQCH 54

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

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

 Score = 42.7 bits (100), Expect = 3e-06
 Identities = 19/49 (38%), Positives = 26/49 (53%)

Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYC 60
          C  C K VY  +K+ +  R +H+ C RC  CK TL  G +   +G  YC
Sbjct: 1  CPGCGKPVYFAEKVMSLGRNWHRPCLRCQRCKKTLTAGGHAEHDGSPYC 49

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

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

 Score = 41.9 bits (98), Expect = 7e-06
 Identities = 19/53 (35%), Positives = 29/53 (54%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHH 164
           C  C   VYPTEKV+     +HK+CF C      ++ +NY  ++ + YC  H+
Sbjct: 1   CARCGKIVYPTEKVNCLDKTWHKACFHCEVCKMTLNMNNYKGYQKKPYCNAHY 53

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

 Score = 41.4 bits (98), Expect = 7e-06
 Identities = 18/50 (36%), Positives = 26/50 (52%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCK 161
           C  C  +VY  E+V   G  +HKSCF C+     +  +    H+G +YCK
Sbjct: 1   CPRCGKSVYAAEEVIAAGKSWHKSCFTCAVCNKRLDSTTLAEHDGEIYCK 50

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

>gnl|CDD|188784 cd09400, LIM_like_1, LIM domain in proteins of unknown function

 Score = 41.3 bits (97), Expect = 1e-05
 Identities = 16/50 (32%), Positives = 27/50 (54%)

Query: 11 KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYC 60
           C +C   V+L ++L  + ++YH+ CF+C  C   L  G++   E   YC
Sbjct: 4  PCASCGLPVFLAERLLIEGKVYHRTCFKCARCGVQLTPGSFYETEYGSYC 53

LIM domain in proteins of unknown function: 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. The 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 = 61

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

 Score = 41.3 bits (96), Expect = 1e-05
 Identities = 20/51 (39%), Positives = 28/51 (54%)

Query: 111 KCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCK 161
           KC  C+ TVY  E++  NG  +HK+CF C      +  +   AHE  +YCK
Sbjct: 1   KCGACEKTVYHAEEIQCNGRSFHKTCFICMACRKALDSTTVAAHESEIYCK 51

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

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

 Score = 41.1 bits (96), Expect = 1e-05
 Identities = 20/49 (40%), Positives = 27/49 (55%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYC 160
           C  C  TVY  EKVS  G  +H+ C KC     ++SP  +  H+G+ YC
Sbjct: 1   CPRCDKTVYFAEKVSSLGKNWHRFCLKCERCSKILSPGGHAEHDGKPYC 49

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

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

 Score = 40.7 bits (95), Expect = 2e-05
 Identities = 19/52 (36%), Positives = 28/52 (53%)

Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 63
          C  C   VY  +K+   ++ +HKACF C  CK  L + N+ S +   YC+ H
Sbjct: 1  CARCGYGVYPAEKINCIDQTWHKACFHCEVCKMMLTVNNFVSHQKKPYCQAH 52

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

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

 Score = 40.8 bits (95), Expect = 2e-05
 Identities = 18/50 (36%), Positives = 27/50 (54%)

Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCR 61
          C  C K+VY  +K+    + +HK CFRC  C  +L+       +G LYC+
Sbjct: 1  CPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTTVTDKDGELYCK 50

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

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

 Score = 40.5 bits (95), Expect = 2e-05
 Identities = 20/52 (38%), Positives = 26/52 (50%)

Query: 11 KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRP 62
          KC  C K+VY  ++  A    +HK CF+C  C   L   N    EG LYC+ 
Sbjct: 1  KCPKCGKSVYAAEERLAGGYKWHKMCFKCGMCNKLLDSTNCAEHEGELYCKQ 52

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

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

 Score = 40.1 bits (93), Expect = 3e-05
 Identities = 19/51 (37%), Positives = 29/51 (56%)

Query: 11 KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCR 61
          KC AC+KTVY  +++  + R +HK CF C  C+  L      + E  +YC+
Sbjct: 1  KCGACEKTVYHAEEIQCNGRSFHKTCFICMACRKALDSTTVAAHESEIYCK 51

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

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

 Score = 39.8 bits (93), Expect = 3e-05
 Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 3/54 (5%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSN-YIAHEGRLYCKHHH 164
           C GC+  +  ++ V      +H  CF+CS   C  S SN Y   +G+LYC+  +
Sbjct: 1   CAGCRGKILDSQYVQALNQDWHCDCFRCSV--CSDSLSNWYFEKDGKLYCRKDY 52

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

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

 Score = 39.1 bits (91), Expect = 5e-05
 Identities = 18/51 (35%), Positives = 28/51 (54%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKH 162
           C  C   VY  E+V+  G  +H+ C KC   G  ++P ++  H+G+ YC H
Sbjct: 1   CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTPGSHAEHDGKPYCNH 51

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

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

 Score = 38.7 bits (90), Expect = 8e-05
 Identities = 17/49 (34%), Positives = 28/49 (57%)

Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYC 60
          C  CDK VY  +++T+  + +H+ C +C  C  TL  G++   +G  YC
Sbjct: 1  CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTPGSHAEHDGKPYC 49

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

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

 Score = 38.7 bits (90), Expect = 9e-05
 Identities = 17/50 (34%), Positives = 27/50 (54%)

Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCR 61
          C  C K+VY  +K+    + +HK CFRC  C  +L+       +G +YC+
Sbjct: 1  CPRCGKSVYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLADKDGEIYCK 50

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

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

 Score = 38.0 bits (88), Expect = 1e-04
 Identities = 17/49 (34%), Positives = 27/49 (55%)

Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYC 60
          C  CDKTVY  +K+++  + +H+ C +C  C   L  G +   +G  YC
Sbjct: 1  CPRCDKTVYFAEKVSSLGKNWHRFCLKCERCSKILSPGGHAEHDGKPYC 49

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

>gnl|CDD|188786 cd09402, LIM1_CRP, The first LIM domain of Cysteine Rich Protein (CRP)

 Score = 38.0 bits (88), Expect = 2e-04
 Identities = 20/50 (40%), Positives = 26/50 (52%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCK 161
           C  C+ TVY  E+V   G  +HKSCF C      +  +   AHE  +YCK
Sbjct: 1   CGACEKTVYHAEEVQCEGRSFHKSCFLCMVCRKNLDSTTVAAHEDEIYCK 50

The first LIM domain of Cysteine Rich Protein (CRP): Cysteine-rich proteins (CRPs) are characterized by the presence of two LIM domains linked to a short glycine-rich repeats (GRRs). The CRP family members include CRP1, CRP2, CRP3/MLP. CRP1, CRP2 and CRP3 share a conserved nuclear targeting signal (K/R-K/R-Y-G-P-K), which supports the fact that these proteins function not only in the cytoplasm but also in the nucleus. CRPs control regulatory pathways during cellular differentiation, and involve in complex transcription control, and the organization as well as the arrangement of the myofibrillar/cytoskeletal network. It is evident that CRP1, CRP2, and CRP3/MLP are involved in promoting protein assembly along the actin-based cytoskeleton. Although members of the CRP family share common binding partners, they are also capable of recognizing different and specific targets. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly 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|188786 cd09402, LIM1_CRP, The first LIM domain of Cysteine Rich Protein (CRP)

 Score = 37.6 bits (87), Expect = 2e-04
 Identities = 18/50 (36%), Positives = 29/50 (58%)

Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCR 61
          C AC+KTVY  +++  + R +HK+CF C  C+  L      + E  +YC+
Sbjct: 1  CGACEKTVYHAEEVQCEGRSFHKSCFLCMVCRKNLDSTTVAAHEDEIYCK 50

The first LIM domain of Cysteine Rich Protein (CRP): Cysteine-rich proteins (CRPs) are characterized by the presence of two LIM domains linked to a short glycine-rich repeats (GRRs). The CRP family members include CRP1, CRP2, CRP3/MLP. CRP1, CRP2 and CRP3 share a conserved nuclear targeting signal (K/R-K/R-Y-G-P-K), which supports the fact that these proteins function not only in the cytoplasm but also in the nucleus. CRPs control regulatory pathways during cellular differentiation, and involve in complex transcription control, and the organization as well as the arrangement of the myofibrillar/cytoskeletal network. It is evident that CRP1, CRP2, and CRP3/MLP are involved in promoting protein assembly along the actin-based cytoskeleton. Although members of the CRP family share common binding partners, they are also capable of recognizing different and specific targets. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly 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|188871 cd09840, LIM2_CRP2, The second LIM domain of Cysteine Rich Protein 2 (CRP2)

 Score = 37.4 bits (86), Expect = 3e-04
 Identities = 17/50 (34%), Positives = 26/50 (52%)

Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCR 61
          C  C  +VY  +K+    + +HK CFRC  C  +L+       EG +YC+
Sbjct: 1  CSRCGDSVYAAEKIMGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCK 50

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

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

 Score = 37.4 bits (87), Expect = 3e-04
 Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 2/55 (3%)

Query: 12 CMACDKTVYLVDKL-TADNRIYHKACFRCHHCKGTLKLG-NYNSFEGVLYCRPHF 64
          C  C + +   D +  A + +YH ACF C  CK  L  G  +   E  + C+ H+
Sbjct: 1  CAKCSRNISASDWVRRARDHVYHLACFACDACKRQLSTGEEFALIEDRVLCKAHY 55

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

>gnl|CDD|188864 cd09480, LIM1_CRP2, The first LIM domain of Cysteine Rich Protein 2 (CRP2)

 Score = 37.3 bits (86), Expect = 3e-04
 Identities = 18/51 (35%), Positives = 27/51 (52%)

Query: 11 KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCR 61
          KC AC +TVY  +++  D R +HK CF C  C+  L        +  +YC+
Sbjct: 1  KCGACGRTVYHAEEVQCDGRSFHKCCFLCMVCRKNLDSTTVAIHDQEIYCK 51

The first LIM domain of Cysteine Rich Protein 2 (CRP2): The CRP family members include CRP1, CRP2, CRP3/MLP and TLP. CRP1, CRP2 and CRP3 share a conserved nuclear targeting signal (K/R-K/R-Y-G-P-K), which supports the fact that these proteins function not only in the cytoplasm but also in the nucleus. CRPs control regulatory pathways during cellular differentiation, and involve in complex transcription circuits, and the organization as well as the arrangement of the myofibrillar/cytoskeletal network. CRP2 specifically binds to protein inhibitor of activated STAT-1 (PIAS1) and a novel human protein designed CRP2BP (for CRP2 binding partner). PIAS1 specifically inhibits the STAT-1 pathway and CRP2BP is homologous to members of the histone acetyltransferase family raising the possibility that CRP2 is a modulator of cytokine-controlled pathways or is functionally active in the transcriptional regulatory network. 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|188828 cd09444, LIM_Mical_like_1, This domain belongs to the LIM domain family which are found on Mical (molecule interacting with CasL) like proteins

 Score = 36.6 bits (85), Expect = 4e-04
 Identities = 18/55 (32%), Positives = 27/55 (49%), Gaps = 2/55 (3%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIA--HEGRLYCKHHH 164
           C  C   V+  ++  V+G  YH++CF+C      + P +Y A    G   C HHH
Sbjct: 1   CAACGQHVHLVQRHLVDGKLYHRNCFRCKECSSTLLPGSYKAGPEPGTFVCTHHH 55

The LIM domain on proteins of unknown function: This domain belongs to the LIM domain family which are found on Mical (molecule interacting with CasL) like proteins. Known members of the Mical-like family includes single LIM domain containing proteins, Mical (molecule interacting with CasL), pollen specific protein SF3, Eplin, xin actin-binding repeat-containing protein 2 (XIRP2), and Ltd-1. The members of this family function mainly at the cytoskeleton and focal adhesions. They interact with transcription factors or other signaling molecules to play roles in muscle development, neuronal differentiation, cell growth, and mobility. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 55

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

 Score = 37.1 bits (86), Expect = 4e-04
 Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHF 64
          C  C   +     + A N+ +H  CFRC  C  +L    Y   +G LYCR  +
Sbjct: 1  CAGCRGKILDSQYVQALNQDWHCDCFRCSVCSDSLS-NWYFEKDGKLYCRKDY 52

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

>gnl|CDD|188847 cd09463, LIM1_LIMK2, The first LIM domain of LIMK2 (LIM domain Kinase 2)

 Score = 36.8 bits (85), Expect = 4e-04
 Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 3/54 (5%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSN-YIAHEGRLYCKHHH 164
           C GC   +  +    V    +H SCF+CS   C    +N Y   +G+LYC  H+
Sbjct: 1   CTGCGGRIQDSFHYRVVQEAWHNSCFQCSV--CQDLLTNWYYEKDGKLYCHKHY 52

The first LIM domain of LIMK2 (LIM domain Kinase 2): LIMK2 is a member of the LIMK protein family, which comprises LIMK1 and LIMK2. LIMK contains two LIM domains, a PDZ domain, and a kinase domain. LIMK is involved in the regulation of actin polymerization and microtubule disassembly. LIMK influences architecture of the actin cytoskeleton by regulating the activity of the cofilin family proteins cofilin1, cofilin2, and destrin. The mechanism of the activation is to phosphorylates cofilin on serine 3 and inactivates its actin-severing activity, altering the rate of actin depolymerization. LIMK activity is activated by phosphorylation of a threonine residue within the activation loop of the kinase by p21-activated kinases 1 and 4 and by Rho kinase. LIMKs can function in both cytoplasm and nucleus. Both LIMK1 and LIMK2 can act in the nucleus to suppress Rac/Cdc42-dependent cyclin D1 expression. LIMK2 is expressed in all tissues. While LIMK1 localizes mainly at focal adhesions, LIMK2 is found in cytoplasmic punctae, suggesting that they may have different cellular functions. The activity of LIM kinase 2 to regulate cofilin phosphorylation is inhibited by the direct binding of Par-3. LIMK2 activation promotes cell cycle progression. The phenotype of Limk2 knockout mice shows a defect in spermatogenesis. The LIM domains have been shown to play an important role in regulating kinase activity and likely also contribute to LIMK function by acting as sites of protein-to-protein interactions. All LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 53

>gnl|CDD|188863 cd09479, LIM1_CRP1, The first LIM domain of Cysteine Rich Protein 1 (CRP1)

 Score = 36.5 bits (84), Expect = 5e-04
 Identities = 18/52 (34%), Positives = 27/52 (51%)

Query: 10 QKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCR 61
          +KC  C KTVY  +++  + R +HK+CF C  CK  L           +YC+
Sbjct: 1  KKCGVCQKTVYFAEEVQCEGRSFHKSCFLCMVCKKNLDSTTVAVHGEEIYCK 52

The first LIM domain of Cysteine Rich Protein 1 (CRP1): Cysteine-rich proteins (CRPs) are characterized by the presence of two LIM domains linked to a short glycine-rich repeats (GRRs). The CRP family members include CRP1, CRP2, CRP3/MLP and TLP. CRP1, CRP2 and CRP3 share a conserved nuclear targeting signal (K/R-K/R-Y-G-P-K), which supports the fact that these proteins function not only in the cytoplasm but also in the nucleus. CRPs control regulatory pathways during cellular differentiation, and involve in complex transcription circuits, and the organization as well as the arrangement of the myofibrillar/cytoskeletal network. CRP1 can associate with the actin cytoskeleton and are capable of interacting with alpha-actinin and zyxin. CRP1 was shown to regulate actin filament bundling by interaction with alpha-actinin and direct binding to actin filaments. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 56

>gnl|CDD|188863 cd09479, LIM1_CRP1, The first LIM domain of Cysteine Rich Protein 1 (CRP1)

 Score = 36.1 bits (83), Expect = 7e-04
 Identities = 19/52 (36%), Positives = 26/52 (50%)

Query: 110 EKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCK 161
           +KC  C+ TVY  E+V   G  +HKSCF C      +  +    H   +YCK
Sbjct: 1   KKCGVCQKTVYFAEEVQCEGRSFHKSCFLCMVCKKNLDSTTVAVHGEEIYCK 52

The first LIM domain of Cysteine Rich Protein 1 (CRP1): Cysteine-rich proteins (CRPs) are characterized by the presence of two LIM domains linked to a short glycine-rich repeats (GRRs). The CRP family members include CRP1, CRP2, CRP3/MLP and TLP. CRP1, CRP2 and CRP3 share a conserved nuclear targeting signal (K/R-K/R-Y-G-P-K), which supports the fact that these proteins function not only in the cytoplasm but also in the nucleus. CRPs control regulatory pathways during cellular differentiation, and involve in complex transcription circuits, and the organization as well as the arrangement of the myofibrillar/cytoskeletal network. CRP1 can associate with the actin cytoskeleton and are capable of interacting with alpha-actinin and zyxin. CRP1 was shown to regulate actin filament bundling by interaction with alpha-actinin and direct binding to actin filaments. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 56

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

 Score = 35.8 bits (82), Expect = 0.001
 Identities = 16/49 (32%), Positives = 23/49 (46%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYC 160
           C GC   VY  EKV   G  +H+ C +C      ++   +  H+G  YC
Sbjct: 1   CPGCGKPVYFAEKVMSLGRNWHRPCLRCQRCKKTLTAGGHAEHDGSPYC 49

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

>gnl|CDD|188864 cd09480, LIM1_CRP2, The first LIM domain of Cysteine Rich Protein 2 (CRP2)

 Score = 35.3 bits (81), Expect = 0.001
 Identities = 18/51 (35%), Positives = 25/51 (49%)

Query: 111 KCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCK 161
           KC  C  TVY  E+V  +G  +HK CF C      +  +    H+  +YCK
Sbjct: 1   KCGACGRTVYHAEEVQCDGRSFHKCCFLCMVCRKNLDSTTVAIHDQEIYCK 51

The first LIM domain of Cysteine Rich Protein 2 (CRP2): The CRP family members include CRP1, CRP2, CRP3/MLP and TLP. CRP1, CRP2 and CRP3 share a conserved nuclear targeting signal (K/R-K/R-Y-G-P-K), which supports the fact that these proteins function not only in the cytoplasm but also in the nucleus. CRPs control regulatory pathways during cellular differentiation, and involve in complex transcription circuits, and the organization as well as the arrangement of the myofibrillar/cytoskeletal network. CRP2 specifically binds to protein inhibitor of activated STAT-1 (PIAS1) and a novel human protein designed CRP2BP (for CRP2 binding partner). PIAS1 specifically inhibits the STAT-1 pathway and CRP2BP is homologous to members of the histone acetyltransferase family raising the possibility that CRP2 is a modulator of cytokine-controlled pathways or is functionally active in the transcriptional regulatory network. 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|188846 cd09462, LIM1_LIMK1, The first LIM domain of LIMK1 (LIM domain Kinase 1)

 Score = 36.4 bits (84), Expect = 0.001
 Identities = 15/53 (28%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 112 CVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHH 164
           C  C  ++Y  + +    + +H  CF+C   G  +S   Y   +GRL+CK  +
Sbjct: 22  CASCGQSIYDGQYLQALNSDWHADCFRCCECGASLS-HWYYEKDGRLFCKKDY 73

The first LIM domain of LIMK1 (LIM domain Kinase 1): LIMK1 belongs to the LIMK protein family, which comprises LIMK1 and LIMK2. LIMK contains two LIM domains, a PDZ domain, and a kinase domain. LIMK is involved in the regulation of actin polymerization and microtubule disassembly. LIMK influences architecture of the actin cytoskeleton by regulating the activity of the cofilin family proteins cofilin1, cofilin2, and destrin. The mechanism of the activation is to phosphorylates cofilin on serine 3 and inactivates its actin-severing activity, and altering the rate of actin depolymerization. LIMKs can function in both cytoplasm and nucleus. Both LIMK1 and LIMK2 can act in the nucleus to suppress Rac/Cdc42-dependent cyclin D1 expression. LIMK1 is expressed in all tissues and is localized to focal adhesions in the cell. LIMK1 can form homodimers upon binding of HSP90 and is activated by Rho effector Rho kinase and MAPKAPK2. LIMK1 is important for normal central nervous system development, and its deletion has been implicated in the development of the human genetic disorder Williams syndrome. Moreover, LIMK1 up-regulates the promoter activity of urokinase type plasminogen activator and induces its mRNA and protein expression in breast cancer cells. The LIM domains have been shown to play an important role in regulating kinase activity and likely also contribute to LIMK function by acting as sites of protein-to-protein interactions. All LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 74

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

 Score = 35.5 bits (82), Expect = 0.001
 Identities = 21/55 (38%), Positives = 28/55 (50%), Gaps = 5/55 (9%)

Query: 12 CMACDKTVYLVDK--LTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHF 64
          C  CD+ +  +DK  L   +R +H  C +C  CK  L    + S EG LYCR  F
Sbjct: 1  CAGCDRPI--LDKFLLNVLDRAWHAKCVQCCDCKCPLTEKCF-SREGKLYCRNDF 52

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|188846 cd09462, LIM1_LIMK1, The first LIM domain of LIMK1 (LIM domain Kinase 1)

 Score = 34.9 bits (80), Expect = 0.003
 Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 12 CMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHF 64
          C +C +++Y    L A N  +H  CFRC  C  +L    Y   +G L+C+  +
Sbjct: 22 CASCGQSIYDGQYLQALNSDWHADCFRCCECGASLSHWYYEK-DGRLFCKKDY 73

The first LIM domain of LIMK1 (LIM domain Kinase 1): LIMK1 belongs to the LIMK protein family, which comprises LIMK1 and LIMK2. LIMK contains two LIM domains, a PDZ domain, and a kinase domain. LIMK is involved in the regulation of actin polymerization and microtubule disassembly. LIMK influences architecture of the actin cytoskeleton by regulating the activity of the cofilin family proteins cofilin1, cofilin2, and destrin. The mechanism of the activation is to phosphorylates cofilin on serine 3 and inactivates its actin-severing activity, and altering the rate of actin depolymerization. LIMKs can function in both cytoplasm and nucleus. Both LIMK1 and LIMK2 can act in the nucleus to suppress Rac/Cdc42-dependent cyclin D1 expression. LIMK1 is expressed in all tissues and is localized to focal adhesions in the cell. LIMK1 can form homodimers upon binding of HSP90 and is activated by Rho effector Rho kinase and MAPKAPK2. LIMK1 is important for normal central nervous system development, and its deletion has been implicated in the development of the human genetic disorder Williams syndrome. Moreover, LIMK1 up-regulates the promoter activity of urokinase type plasminogen activator and induces its mRNA and protein expression in breast cancer cells. The LIM domains have been shown to play an important role in regulating kinase activity and likely also contribute to LIMK function by acting as sites of protein-to-protein interactions. All LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 74

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

 Score = 34.6 bits (80), Expect = 0.003
 Identities = 14/50 (28%), Positives = 23/50 (46%), Gaps = 1/50 (2%)

Query: 112 CVGCKNTVYPTEK-VSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYC 160
           C  C   + P  K +   G  +H+ CF CS     I   ++I  + ++YC
Sbjct: 1   CKACGKAIMPGSKKMEYKGKFWHEKCFTCSECKKPIGTKSFIPKDDKIYC 50

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	199
KOG1701	468	consensus Focal adhesion adaptor protein Paxillin	99.92
KOG1701	468	consensus Focal adhesion adaptor protein Paxillin	99.89
KOG4577	383	consensus Transcription factor LIM3, contains LIM	99.88
KOG2272	332	consensus Focal adhesion protein PINCH-1, contains	99.87
KOG1700	200	consensus Regulatory protein MLP and related LIM p	99.82
KOG2272	332	consensus Focal adhesion protein PINCH-1, contains	99.81
KOG1703	479	consensus Adaptor protein Enigma and related PDZ-L	99.79
KOG1044	670	consensus Actin-binding LIM Zn-finger protein Lima	99.76
KOG1703	479	consensus Adaptor protein Enigma and related PDZ-L	99.75
KOG1044	670	consensus Actin-binding LIM Zn-finger protein Lima	99.75
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.61
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.51
KOG4577	383	consensus Transcription factor LIM3, contains LIM	99.07
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.87
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.61
KOG1700	200	consensus Regulatory protein MLP and related LIM p	98.25
KOG1702	264	consensus Nebulin repeat protein [Cytoskeleton]	97.95
KOG1702	264	consensus Nebulin repeat protein [Cytoskeleton]	97.86
KOG0490	235	consensus Transcription factor, contains HOX domai	97.79
KOG0490	235	consensus Transcription factor, contains HOX domai	88.93
PF09943	101	DUF2175: Uncharacterized protein conserved in arch	86.62
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	86.19

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

Probab=99.92  E-value=5.4e-27  Score=192.64  Aligned_cols=127  Identities=21%  Similarity=0.533  Sum_probs=114.2

Q ss_pred             CccccccCceeecce-eEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccCCCCCCCCCCCCccCC
Q 029070            9 QQKCMACDKTVYLVD-KLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTGSLDKSFEGTPKIAKP   87 (199)
Q Consensus         9 ~~~C~~C~~~I~~~~-~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~~   87 (199)
                      ..+|.+|+|.|.... .+.||++.||..||+|..|++.|.++.||.+++++||+.||+...                   
T Consensus       274 ~~iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~v~~k~~CE~cyq~tl-------------------  334 (468)
T KOG1701|consen  274 FGICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQVDGKPYCEGCYQDTL-------------------  334 (468)
T ss_pred             hhhhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccccccCCcccchHHHHHHH-------------------
Confidence            358999999997544 489999999999999999999999999999999999999999877                   


Q ss_pred             CCCCCCCCCCcccccccCCCCCCCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeeee-CCccccHhHHHh
Q 029070           88 EKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAH-EGRLYCKHHHNQ  166 (199)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~-~g~~yC~~c~~~  166 (199)
                                            .+|..|++.|++. ++.+.|+.||+.||+|.+|.+.|++..|.+. ++++||..||.+
T Consensus       335 ----------------------ekC~~Cg~~I~d~-iLrA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~  391 (468)
T KOG1701|consen  335 ----------------------EKCNKCGEPIMDR-ILRALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHK  391 (468)
T ss_pred             ----------------------HHHhhhhhHHHHH-HHHhcccccCCCceEEEEeccccCCccccccCCCceeeehhhhh
Confidence                                  6999999999743 3679999999999999999999999888654 799999999999


Q ss_pred             HhcCCCCCCCc
Q 029070          167 LIKEKGNLSQL  177 (199)
Q Consensus       167 ~~~~k~~~~~~  177 (199)
                      +|++||.....
T Consensus       392 kfAPrCs~C~~  402 (468)
T KOG1701|consen  392 KFAPRCSVCGN  402 (468)
T ss_pred             hcCcchhhccC
Confidence            99999986554

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

Probab=99.89  E-value=2e-24  Score=177.60  Aligned_cols=121  Identities=27%  Similarity=0.655  Sum_probs=108.6

Q ss_pred             CccccccCceeecceeEEeCCcccccccceeccCcccccCCccccc-CCcccccccHHHHhhccCCCCCCCCCCCCccCC
Q 029070            9 QQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSF-EGVLYCRPHFDQLFKRTGSLDKSFEGTPKIAKP   87 (199)
Q Consensus         9 ~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~-~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~~   87 (199)
                      ..+|..|++.| .+..+.|+|+.||+.||+|..|++.|++..|.+. ++++||..||++.|+                  
T Consensus       334 lekC~~Cg~~I-~d~iLrA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfA------------------  394 (468)
T KOG1701|consen  334 LEKCNKCGEPI-MDRILRALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFA------------------  394 (468)
T ss_pred             HHHHhhhhhHH-HHHHHHhcccccCCCceEEEEeccccCCccccccCCCceeeehhhhhhcC------------------
Confidence            45799999999 4778999999999999999999999999999764 799999999999998                  


Q ss_pred             CCCCCCCCCCcccccccCCCCCCCCcCCCceEecCc------ceeecCccccccCeecccCCCCCCC----CCeeeeCCc
Q 029070           88 EKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTE------KVSVNGTPYHKSCFKCSHGGCVISP----SNYIAHEGR  157 (199)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~------~v~~~~~~~H~~Cf~C~~C~~~l~~----~~~~~~~g~  157 (199)
                                            ++|+.|+++|.+.+      +|+++++.||.+|++|..|+..|+.    ...|..||.
T Consensus       395 ----------------------PrCs~C~~PI~P~~G~~etvRvvamdr~fHv~CY~CEDCg~~LS~e~e~qgCyPld~H  452 (468)
T KOG1701|consen  395 ----------------------PRCSVCGNPILPRDGKDETVRVVAMDRDFHVNCYKCEDCGLLLSSEEEGQGCYPLDGH  452 (468)
T ss_pred             ----------------------cchhhccCCccCCCCCcceEEEEEccccccccceehhhcCccccccCCCCcceeccCc
Confidence                                  99999999998753      4789999999999999999999983    357899999


Q ss_pred             cccHhHHHhHhcC
Q 029070          158 LYCKHHHNQLIKE  170 (199)
Q Consensus       158 ~yC~~c~~~~~~~  170 (199)
                      ++|+.|+.++...
T Consensus       453 llCk~Ch~~Rl~~  465 (468)
T KOG1701|consen  453 LLCKTCHLKRLQA  465 (468)
T ss_pred             eeechhhhhhhcc
Confidence            9999999988654

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

Probab=99.88  E-value=5.3e-25  Score=172.66  Aligned_cols=146  Identities=26%  Similarity=0.549  Sum_probs=121.6

Q ss_pred             CCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccCCCCCCCCCCCCccCC
Q 029070            8 TQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTGSLDKSFEGTPKIAKP   87 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~~   87 (199)
                      +.++|++|++.|...-++.++++.||..|++|+.|..+|.+. .|.++|.+||+++|.++|+                  
T Consensus        32 eip~CagC~q~IlDrFilKvl~R~wHs~CLkCs~C~~qL~dr-CFsR~~s~yCkedFfKrfG------------------   92 (383)
T KOG4577|consen   32 EIPICAGCDQHILDRFILKVLDRHWHSSCLKCSDCHDQLADR-CFSREGSVYCKEDFFKRFG------------------   92 (383)
T ss_pred             ccccccchHHHHHHHHHHHHHhhhhhhhhcchhhhhhHHHHH-HhhcCCceeehHHHHHHhC------------------
Confidence            679999999999755567999999999999999999999854 5569999999999999998                  


Q ss_pred             CCCCCCCCCCcccccccCCCCCCCCcCCCceEecCccee-ecCccccccCeecccCCCCCC-CCCee-eeCCccccHhHH
Q 029070           88 EKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKVS-VNGTPYHKSCFKCSHGGCVIS-PSNYI-AHEGRLYCKHHH  164 (199)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~-~~~~~~H~~Cf~C~~C~~~l~-~~~~~-~~~g~~yC~~c~  164 (199)
                                            .+|..|...|.+.+.|. +.+..||..||.|..|+++|. +++|| +.|+++.|+.+|
T Consensus        93 ----------------------TKCsaC~~GIpPtqVVRkAqd~VYHl~CF~C~iC~R~L~TGdEFYLmeD~rLvCK~DY  150 (383)
T KOG4577|consen   93 ----------------------TKCSACQEGIPPTQVVRKAQDFVYHLHCFACFICKRQLATGDEFYLMEDARLVCKDDY  150 (383)
T ss_pred             ----------------------CcchhhcCCCChHHHHHHhhcceeehhhhhhHhhhcccccCCeeEEeccceeehhhhH
Confidence                                  89999999999998665 889999999999999999998 44565 558999999999


Q ss_pred             HhHhcCCCCCCCcCCcccccccccccCCCCcccC
Q 029070          165 NQLIKEKGNLSQLEGEHEKTSVNANERVNGKQVD  198 (199)
Q Consensus       165 ~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~  198 (199)
                      ++.....++  .+.+....+|  .++.|..||++
T Consensus       151 E~Ak~k~~~--~l~gd~~nKR--PRTTItAKqLE  180 (383)
T KOG4577|consen  151 ETAKQKHCN--ELEGDASNKR--PRTTITAKQLE  180 (383)
T ss_pred             HHHHhcccc--ccccccccCC--CcceeeHHHHH
Confidence            987655443  4444444443  46677777764

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

Probab=99.87  E-value=7.8e-24  Score=163.43  Aligned_cols=165  Identities=19%  Similarity=0.330  Sum_probs=127.8

Q ss_pred             CCccccccCceeeccee-EEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccCCCCCCCCCCCCccC
Q 029070            8 TQQKCMACDKTVYLVDK-LTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTGSLDKSFEGTPKIAK   86 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~~-~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~   86 (199)
                      ....|.+|..-..+.+. +...|..||..||+|++|-.+|.++.|++.+|+.||+.+|+.+|+|.+..+..|+....+..
T Consensus        11 ~~~~C~RC~~gF~~~e~~vns~ge~wH~~CFvCAQCf~pf~~g~~~efEgRkYCEhDF~~LfaPcC~kC~EFiiGrVika   90 (332)
T KOG2272|consen   11 ANMVCERCRDGFEPAEKIVNSNGELWHEQCFVCAQCFRPFPDGIFYEFEGRKYCEHDFHVLFAPCCGKCGEFIIGRVIKA   90 (332)
T ss_pred             HHHHHHHHhccCCchhhhhccCchhhHHHHHHHHHhcCcCCCceeEEecCcccccccchhhhchhhcccccchhhHHHHh
Confidence            35689999998887774 68899999999999999999999999999999999999999999998766555543333333


Q ss_pred             CCCCCCCC----------------------------------------------------------------CC-Ccc--
Q 029070           87 PEKPIDGE----------------------------------------------------------------KP-NVA--   99 (199)
Q Consensus        87 ~~~~~~~~----------------------------------------------------------------~~-~~~--   99 (199)
                      +.-+|+..                                                                .. ...  
T Consensus        91 mnnSwHp~CF~Cd~Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~~~l~fr~d~yH~yHFkCt~C~  170 (332)
T KOG2272|consen   91 MNNSWHPACFRCDLCNKHLADQGFYRNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDEQPLTFRGDPYHPYHFKCTTCG  170 (332)
T ss_pred             hccccCcccchhHHHHHHHhhhhhHhhcchHHhhhhhhhhcccccceeehhhhhhhcccccccccCCCCCccceeccccc
Confidence            33333221                                                                00 000  


Q ss_pred             ---------------cccccCCCCCCCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHH
Q 029070          100 ---------------KVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHH  164 (199)
Q Consensus       100 ---------------~~~~~~~~~~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~  164 (199)
                                     +.........++|..|.++|. ...|.+++++||.+.|+|+.|.+|+-+-+.+.+.|.+||+.+|
T Consensus       171 keL~sdaRevk~eLyClrChD~mgipiCgaC~rpIe-ervi~amgKhWHveHFvCa~CekPFlGHrHYEkkGlaYCe~h~  249 (332)
T KOG2272|consen  171 KELTSDAREVKGELYCLRCHDKMGIPICGACRRPIE-ERVIFAMGKHWHVEHFVCAKCEKPFLGHRHYEKKGLAYCETHY  249 (332)
T ss_pred             ccccchhhhhccceeccccccccCCcccccccCchH-HHHHHHhccccchhheeehhcCCcccchhhhhhcCchhHHHHH
Confidence                           001111234689999999996 2236699999999999999999999988999999999999999


Q ss_pred             HhHhcCCCC
Q 029070          165 NQLIKEKGN  173 (199)
Q Consensus       165 ~~~~~~k~~  173 (199)
                      .++||.-+-
T Consensus       250 ~qLfG~~CF  258 (332)
T KOG2272|consen  250 HQLFGNLCF  258 (332)
T ss_pred             HHHhhhhhe
Confidence            999987653

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

Probab=99.82  E-value=4.1e-21  Score=148.40  Aligned_cols=186  Identities=45%  Similarity=0.848  Sum_probs=151.3

Q ss_pred             ccCCCCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccC-CCCCCCCCCC
Q 029070            4 AFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTG-SLDKSFEGTP   82 (199)
Q Consensus         4 ~~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~-~~~~~~~~~~   82 (199)
                      ++.+....|..|++.|+..+.+...|..||..||+|..|.+.|....+..+++.+||..+|...+++.+ ...+++....
T Consensus         2 ~~~~~~~kc~~c~k~vy~~e~~~~~g~~~hk~c~~c~~~~k~l~~~~~~~~e~~~yc~~~~~~~~~~~~~~~~~~~~~~~   81 (200)
T KOG1700|consen    2 SFTGTTDKCNACGKTVYFVEKVQKDGVDFHKECFKCEKCKKTLTLSGYSEHEGVPYCKNCHVAQFGPKGGGFGKGFQKAG   81 (200)
T ss_pred             CcccccchhhhccCcchHHHHHhccCcchhhhHHhccccccccccccccccccccccccchHhhhCcccccccccccccC
Confidence            456677899999999999999999999999999999999999999999999999999998888888764 3344444322


Q ss_pred             CccCCCCCCCCCCCCcccccccCCCCCCCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeeeeCCccccHh
Q 029070           83 KIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKH  162 (199)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~  162 (199)
                      +......+.....+........+.+....|..|.+.+++.+.+...+..||..||+|..|+..|+...+....|.+||..
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~c~~c~k~vy~~Ek~~~~~~~~hk~cfrc~~~~~~ls~~~~~~~~g~l~~~~  161 (200)
T KOG1700|consen   82 GLGKDGKSLNESKPNQSAKFQVFAGEKEKCARCQKTVYPLEKVTGNGLEFHKSCFRCTHCGKKLSPKNYAALEGVLYCKH  161 (200)
T ss_pred             CCCcccccccccccccchhHHhhhccccccccccceeeehHHHhhhhhhhhhhheeecccccccCCcchhhcCCccccch
Confidence            22223333333333444455556677899999999999999999999999999999999999999989999999999999


Q ss_pred             HHHhHhcCCCCCCCcCCcccccccccc
Q 029070          163 HHNQLIKEKGNLSQLEGEHEKTSVNAN  189 (199)
Q Consensus       163 c~~~~~~~k~~~~~~~~~~~~~~~~~~  189 (199)
                      ++.+++..++.+..+.+.....+....
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~  188 (200)
T KOG1700|consen  162 HFAQLFKGKGNYNEGFGARENKEAAAA  188 (200)
T ss_pred             hhheeecCCCcccccchhhhhhhhhhh
Confidence            999999989988888777766654433

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

Probab=99.81  E-value=2.6e-21  Score=149.56  Aligned_cols=117  Identities=21%  Similarity=0.467  Sum_probs=107.9

Q ss_pred             CCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccCCCCCCCCCCCCccCC
Q 029070            8 TQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTGSLDKSFEGTPKIAKP   87 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~~   87 (199)
                      +.++|..|.++| ...+|.++|+.||.+.|+|+.|-+|+-+...|++.|.+||+.+|.++|+                  
T Consensus       194 gipiCgaC~rpI-eervi~amgKhWHveHFvCa~CekPFlGHrHYEkkGlaYCe~h~~qLfG------------------  254 (332)
T KOG2272|consen  194 GIPICGACRRPI-EERVIFAMGKHWHVEHFVCAKCEKPFLGHRHYEKKGLAYCETHYHQLFG------------------  254 (332)
T ss_pred             CCcccccccCch-HHHHHHHhccccchhheeehhcCCcccchhhhhhcCchhHHHHHHHHhh------------------
Confidence            468999999999 4778999999999999999999999998899999999999999999998                  


Q ss_pred             CCCCCCCCCCcccccccCCCCCCCCcCCCceEecCcceeecCccccccCeecccCCCCCCC-CCeeeeCCccccHhHHHh
Q 029070           88 EKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISP-SNYIAHEGRLYCKHHHNQ  166 (199)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~-~~~~~~~g~~yC~~c~~~  166 (199)
                                            ..|-.|++.|- ++.|.+.++.|.++||.|+.|.+.|.. ..|+..|-.|.|+.||.+
T Consensus       255 ----------------------~~CF~C~~~i~-G~vv~al~KawCv~cf~Cs~Cdkkl~~K~Kf~E~DmkP~CKkCy~r  311 (332)
T KOG2272|consen  255 ----------------------NLCFICNRVIG-GDVVSALNKAWCVECFSCSTCDKKLTQKNKFYEFDMKPVCKKCYDR  311 (332)
T ss_pred             ----------------------hhheecCCccC-ccHHHHhhhhhccccccccccccccccccceeeeccchHHHHHHhh
Confidence                                  89999999985 566889999999999999999999984 578899999999999973

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

Probab=99.79  E-value=1e-19  Score=158.08  Aligned_cols=128  Identities=23%  Similarity=0.578  Sum_probs=116.7

Q ss_pred             CCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccCCCCCCCCCCCCccCC
Q 029070            8 TQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTGSLDKSFEGTPKIAKP   87 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~~   87 (199)
                      ..+.|..|++.|...+.+.++++.||+.+|.|..|...|....|...+|.+||..||.+.++                  
T Consensus       302 ~~p~c~~c~~~i~~~~~i~~~~~~~h~~~~~c~~~~~~~~~~~~~~~~g~~~c~~~~~~~~~------------------  363 (479)
T KOG1703|consen  302 TRPLCLSCNQKIRSVKVIVALGKEWHPEHFSCEVCAIVILDGGPRELDGKILCHECFHAPFR------------------  363 (479)
T ss_pred             ccccccccccCcccceeEeeccccccccceeeccccccccCCCccccCCCccHHHHHHHhhC------------------
Confidence            35899999999964389999999999999999999999999999999999999999999987                  


Q ss_pred             CCCCCCCCCCcccccccCCCCCCCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhH
Q 029070           88 EKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQL  167 (199)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~  167 (199)
                                            ++|.+|.++|.+. .|.+.+..||++||.|..|+++|....|+..+|.+||+.||.++
T Consensus       364 ----------------------p~C~~C~~~i~~~-~v~a~~~~wH~~cf~C~~C~~~~~~~~~~~~~~~pyce~~~~~~  420 (479)
T KOG1703|consen  364 ----------------------PNCKRCLLPILEE-GVCALGRLWHPECFVCADCGKPLKNSSFFESDGEPYCEDHYKKL  420 (479)
T ss_pred             ----------------------ccccccCCchHHh-HhhhccCeechhceeeecccCCCCCCcccccCCccchhhhHhhh
Confidence                                  9999999999754 47788999999999999999999999999999999999999999


Q ss_pred             hcCCCCCCC
Q 029070          168 IKEKGNLSQ  176 (199)
Q Consensus       168 ~~~k~~~~~  176 (199)
                      ++.++.+..
T Consensus       421 ~~~~~~~~~  429 (479)
T KOG1703|consen  421 FTTKCDYCK  429 (479)
T ss_pred             ccccchhcc
Confidence            997775443

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

Probab=99.76  E-value=1.8e-19  Score=153.13  Aligned_cols=134  Identities=20%  Similarity=0.469  Sum_probs=113.4

Q ss_pred             CCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccCCCCCCCCCCCCccCC
Q 029070            8 TQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTGSLDKSFEGTPKIAKP   87 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~~   87 (199)
                      +...|++|++.|..+..+.|+++.||..||+|..|...|. +.|..++|.+||+.||+..|+                  
T Consensus       132 ~ps~cagc~~~lk~gq~llald~qwhv~cfkc~~c~~vL~-gey~skdg~pyce~dy~~~fg------------------  192 (670)
T KOG1044|consen  132 GPSTCAGCGEELKNGQALLALDKQWHVSCFKCKSCSAVLN-GEYMSKDGVPYCEKDYQAKFG------------------  192 (670)
T ss_pred             CCccccchhhhhhccceeeeeccceeeeeeehhhhccccc-ceeeccCCCcchhhhhhhhcC------------------
Confidence            4678999999999999999999999999999999999996 789999999999999999998                  


Q ss_pred             CCCCCCCCCCcccccccCCCCCCCCcCCCceEecCcceeecCccccccCeecccCCCCCC-CCCeeeeCCccccHhHHHh
Q 029070           88 EKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVIS-PSNYIAHEGRLYCKHHHNQ  166 (199)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~~g~~yC~~c~~~  166 (199)
                                            .+|..|.+.|.+. .+.+.+++||+.|-+|+.|+..+. +++-|+.+..+|-+.|-..
T Consensus       193 ----------------------vkc~~c~~fisgk-vLqag~kh~HPtCARCsRCgqmF~eGEEMYlQGs~iWHP~C~qa  249 (670)
T KOG1044|consen  193 ----------------------VKCEECEKFISGK-VLQAGDKHFHPTCARCSRCGQMFGEGEEMYLQGSEIWHPDCKQA  249 (670)
T ss_pred             ----------------------eehHHhhhhhhhh-hhhccCcccCcchhhhhhhccccccchheeeccccccCCccccc
Confidence                                  8999999999744 477999999999999999999998 5577888999999999765


Q ss_pred             HhcCCCCCCCcCCcccc
Q 029070          167 LIKEKGNLSQLEGEHEK  183 (199)
Q Consensus       167 ~~~~k~~~~~~~~~~~~  183 (199)
                      .-.++-....+....++
T Consensus       250 ~~tE~i~~~~rtst~Si  266 (670)
T KOG1044|consen  250 TKTEEILKPGRTSTESI  266 (670)
T ss_pred             cchhhcccCCCCCcccc
Confidence            54444333333333333

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

Probab=99.75  E-value=1.7e-19  Score=156.70  Aligned_cols=116  Identities=27%  Similarity=0.676  Sum_probs=107.2

Q ss_pred             CCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccCCCCCCCCCCCCccCC
Q 029070            8 TQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTGSLDKSFEGTPKIAKP   87 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~~   87 (199)
                      ..+.|.+|+++| .++.|.|.+..||++||+|..|+++|....|+..+|.+||+.||..++.                  
T Consensus       362 ~~p~C~~C~~~i-~~~~v~a~~~~wH~~cf~C~~C~~~~~~~~~~~~~~~pyce~~~~~~~~------------------  422 (479)
T KOG1703|consen  362 FRPNCKRCLLPI-LEEGVCALGRLWHPECFVCADCGKPLKNSSFFESDGEPYCEDHYKKLFT------------------  422 (479)
T ss_pred             hCccccccCCch-HHhHhhhccCeechhceeeecccCCCCCCcccccCCccchhhhHhhhcc------------------
Confidence            368899999999 5899999999999999999999999999999999999999999999986                  


Q ss_pred             CCCCCCCCCCcccccccCCCCCCCCcCCCceEecCcc-eeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHH
Q 029070           88 EKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEK-VSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHH  164 (199)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~-v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~  164 (199)
                                            .+|..|.++|..... +.+++..||..||+|..|.+.|.+..|+...++++|..|+
T Consensus       423 ----------------------~~~~~~~~p~~~~~~~ie~~~~~~h~~~F~c~~c~~~l~~~~~~~~~~~p~c~~~~  478 (479)
T KOG1703|consen  423 ----------------------TKCDYCKKPVEFGSRQIEADGSPFHGDCFRCANCMKKLTKKTFFETLDKPLCQKHF  478 (479)
T ss_pred             ----------------------ccchhccchhHhhhhHhhccCccccccceehhhhhccccCCceeecCCccccccCC
Confidence                                  799999998875544 7799999999999999999999999999999999999875

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

Probab=99.75  E-value=8.5e-19  Score=149.12  Aligned_cols=162  Identities=21%  Similarity=0.428  Sum_probs=114.4

Q ss_pred             ccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccC-CcccccccHHHHhhccC--CCCCCCCCCCCc-c
Q 029070           10 QKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFE-GVLYCRPHFDQLFKRTG--SLDKSFEGTPKI-A   85 (199)
Q Consensus        10 ~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~-g~~yC~~c~~~~~~~~~--~~~~~~~~~~~~-~   85 (199)
                      -.|..|.+.- .++++.+.++.||..||+|..|+..|..+.||.++ .++|+.........-..  ...+.+...-++ .
T Consensus        17 i~c~~c~~kc-~gevlrv~d~~fhi~cf~c~~cg~~la~~gff~k~~~~~ygt~~c~~~~~gevvsa~gktyh~~cf~cs   95 (670)
T KOG1044|consen   17 IKCDKCRKKC-SGEVLRVNDNHFHINCFQCKKCGRNLAEGGFFTKPENRLYGTDDCRAFVEGEVVSTLGKTYHPKCFSCS   95 (670)
T ss_pred             eehhhhCCcc-ccceeEeeccccceeeeeccccCCCcccccceecccceeecccchhhhccceeEecccceeccccceec
Confidence            4699999999 59999999999999999999999999999988775 46677633222111000  111111111111 1


Q ss_pred             CCCCCCCCCC--------------CCcccccccCCCCCCCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCe
Q 029070           86 KPEKPIDGEK--------------PNVAKVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNY  151 (199)
Q Consensus        86 ~~~~~~~~~~--------------~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~  151 (199)
                      ....|+....              .....+.+........|++|.+.|..++.+.++++.||..||+|..|...|.+ +|
T Consensus        96 ~ck~pf~~g~~vt~~gk~~~c~~c~~~~~~~p~~~~~ps~cagc~~~lk~gq~llald~qwhv~cfkc~~c~~vL~g-ey  174 (670)
T KOG1044|consen   96 TCKSPFKSGDKVTFSGKECLCQTCSQPMPVSPAESYGPSTCAGCGEELKNGQALLALDKQWHVSCFKCKSCSAVLNG-EY  174 (670)
T ss_pred             ccCCCCCCCCeeeecchhhhhhhhcCcccCCcccccCCccccchhhhhhccceeeeeccceeeeeeehhhhcccccc-ee
Confidence            1122221110              11111222222345799999999998888889999999999999999999987 88


Q ss_pred             eeeCCccccHhHHHhHhcCCCC
Q 029070          152 IAHEGRLYCKHHHNQLIKEKGN  173 (199)
Q Consensus       152 ~~~~g~~yC~~c~~~~~~~k~~  173 (199)
                      +..+|.|||+.+|.+.|+-||.
T Consensus       175 ~skdg~pyce~dy~~~fgvkc~  196 (670)
T KOG1044|consen  175 MSKDGVPYCEKDYQAKFGVKCE  196 (670)
T ss_pred             eccCCCcchhhhhhhhcCeehH
Confidence            9999999999999999998885

>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=99.61  E-value=5.4e-16  Score=96.78  Aligned_cols=57  Identities=28%  Similarity=0.803  Sum_probs=52.9

Q ss_pred             ccccCceeecceeE-EeCCcccccccceeccCcccccCCcccccCCcccccccHHHHh
Q 029070           12 CMACDKTVYLVDKL-TADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF   68 (199)
Q Consensus        12 C~~C~~~I~~~~~~-~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~   68 (199)
                      |.+|+++|..++.+ .++|+.||++||+|..|+++|.+..|+..+|++||+.||.++|
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            78999999877765 7999999999999999999999999999999999999998875

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

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

Probab=99.51  E-value=1.9e-14  Score=89.70  Aligned_cols=57  Identities=32%  Similarity=0.736  Sum_probs=52.8

Q ss_pred             CcCCCceEecCcce-eecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHh
Q 029070          112 CVGCKNTVYPTEKV-SVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLI  168 (199)
Q Consensus       112 C~~C~~~I~~~~~v-~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~  168 (199)
                      |.+|+++|.+.+.+ .+.++.||++||+|..|+++|..+.++..+|++||..||.++|
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            78999999988865 5999999999999999999999888999999999999999876

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

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

Probab=99.07  E-value=5.4e-12  Score=99.80  Aligned_cols=79  Identities=20%  Similarity=0.362  Sum_probs=70.4

Q ss_pred             CCCCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCC-CCCcCCccccccc
Q 029070          108 TREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGN-LSQLEGEHEKTSV  186 (199)
Q Consensus       108 ~~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~-~~~~~~~~~~~~~  186 (199)
                      ..++|++|.+.|.+...+.+++++||..|++|+.|+.+|.. ..+.++|.+||+.+|.++||.||. -++|+++..+.|.
T Consensus        32 eip~CagC~q~IlDrFilKvl~R~wHs~CLkCs~C~~qL~d-rCFsR~~s~yCkedFfKrfGTKCsaC~~GIpPtqVVRk  110 (383)
T KOG4577|consen   32 EIPICAGCDQHILDRFILKVLDRHWHSSCLKCSDCHDQLAD-RCFSREGSVYCKEDFFKRFGTKCSACQEGIPPTQVVRK  110 (383)
T ss_pred             ccccccchHHHHHHHHHHHHHhhhhhhhhcchhhhhhHHHH-HHhhcCCceeehHHHHHHhCCcchhhcCCCChHHHHHH
Confidence            45999999999987766679999999999999999999977 778999999999999999999998 7888888877664


Q ss_pred             c
Q 029070          187 N  187 (199)
Q Consensus       187 ~  187 (199)
                      .
T Consensus       111 A  111 (383)
T KOG4577|consen  111 A  111 (383)
T ss_pred             h
Confidence            3

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

Probab=98.87  E-value=1.4e-09  Score=61.69  Aligned_cols=37  Identities=32%  Similarity=0.726  Sum_probs=33.5

Q ss_pred             cccccCceeecc-eeEEeCCcccccccceeccCccccc
Q 029070           11 KCMACDKTVYLV-DKLTADNRIYHKACFRCHHCKGTLK   47 (199)
Q Consensus        11 ~C~~C~~~I~~~-~~~~~~~~~~H~~CF~C~~C~~~L~   47 (199)
                      +|.+|+++|..+ ..+.++++.||+.||+|..|+.+|.
T Consensus         1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L~   38 (39)
T smart00132        1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPLG   38 (39)
T ss_pred             CccccCCcccCCcEEEEeCCccccccCCCCcccCCcCc
Confidence            589999999766 6789999999999999999999985

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

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

Probab=98.61  E-value=2.7e-08  Score=56.29  Aligned_cols=37  Identities=32%  Similarity=0.714  Sum_probs=32.7

Q ss_pred             CCcCCCceEecC-cceeecCccccccCeecccCCCCCC
Q 029070          111 KCVGCKNTVYPT-EKVSVNGTPYHKSCFKCSHGGCVIS  147 (199)
Q Consensus       111 ~C~~C~~~I~~~-~~v~~~~~~~H~~Cf~C~~C~~~l~  147 (199)
                      +|.+|+++|.+. ..+.+.++.||+.||+|..|+++|.
T Consensus         1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L~   38 (39)
T smart00132        1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPLG   38 (39)
T ss_pred             CccccCCcccCCcEEEEeCCccccccCCCCcccCCcCc
Confidence            588999999887 4467899999999999999999885

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.

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

Probab=98.25  E-value=2.2e-07  Score=72.04  Aligned_cols=67  Identities=52%  Similarity=1.077  Sum_probs=59.3

Q ss_pred             CCCCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccC
Q 029070            6 AGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTG   72 (199)
Q Consensus         6 ~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~   72 (199)
                      .++...|..|.+.+++.+.+...+..||..||+|+.|+..|+.+.|...++.+||...+..++-...
T Consensus       105 ~g~~~~c~~c~k~vy~~Ek~~~~~~~~hk~cfrc~~~~~~ls~~~~~~~~g~l~~~~~~~~~~~~~~  171 (200)
T KOG1700|consen  105 AGEKEKCARCQKTVYPLEKVTGNGLEFHKSCFRCTHCGKKLSPKNYAALEGVLYCKHHFAQLFKGKG  171 (200)
T ss_pred             hccccccccccceeeehHHHhhhhhhhhhhheeecccccccCCcchhhcCCccccchhhheeecCCC
Confidence            3556789999999999999999999999999999999999999999999999999888777665443

>KOG1702 consensus Nebulin repeat protein [Cytoskeleton]

Probab=97.95  E-value=6e-07  Score=68.31  Aligned_cols=62  Identities=32%  Similarity=0.795  Sum_probs=55.9

Q ss_pred             CccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhc
Q 029070            9 QQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKR   70 (199)
Q Consensus         9 ~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~   70 (199)
                      ...|..|++.+++.+.+..+++.||..||.|..|+.+|.-..|-..+.++||..+|....++
T Consensus         4 k~n~~~cgk~vYPvE~v~cldk~whk~cfkce~c~mtlnmKnyKgy~kkpycn~hYpkq~at   65 (264)
T KOG1702|consen    4 KCNREDCGKTVYPVEEVKCLDKVWHKQCFKCEVCGMTLNMKNYKGYDKKPYCNPHYPKQVAT   65 (264)
T ss_pred             cchhhhhccccccHHHHhhHHHHHHHHhheeeeccCChhhhhccccccCCCcCcccccceee
Confidence            45688999999999999999999999999999999999988888889999999999765544

>KOG1702 consensus Nebulin repeat protein [Cytoskeleton]

Probab=97.86  E-value=7.6e-07  Score=67.75  Aligned_cols=59  Identities=32%  Similarity=0.648  Sum_probs=53.6

Q ss_pred             CCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHh
Q 029070          110 EKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLI  168 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~  168 (199)
                      ..|..|++.+++.|.|..+++.||..||+|..|+-+|....+.-.+.++||..+|.+..
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            67889999999999999999999999999999999999878878899999999997643

>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]

Probab=97.79  E-value=3.3e-06  Score=66.75  Aligned_cols=112  Identities=18%  Similarity=0.477  Sum_probs=86.1

Q ss_pred             ccCceeecceeEEeCCcccccccceeccCccccc--CCcccccCCcccccccHHH--HhhccCCCCCCCCCCCCccCCCC
Q 029070           14 ACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLK--LGNYNSFEGVLYCRPHFDQ--LFKRTGSLDKSFEGTPKIAKPEK   89 (199)
Q Consensus        14 ~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~--~~~f~~~~g~~yC~~c~~~--~~~~~~~~~~~~~~~~~~~~~~~   89 (199)
                      .|+..|.+...+.+.+..||..|..|..|...|.  ...|.. +|..||..+|..  .+.                    
T Consensus         1 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~~d~~~~~~~~--------------------   59 (235)
T KOG0490|consen    1 GCGRQILDRYLLRVLDRYWHASCLKCAECDNPLGVGDTCFSK-DGSIYCKRDYQREFKFS--------------------   59 (235)
T ss_pred             CCCccccchHHhhcccHHHHHHHHhhhhhcchhccCCCcccC-CCcccccccchhhhhcc--------------------
Confidence            3677775444567779999999999999999997  445666 999999999987  332                    


Q ss_pred             CCCCCCCCcccccccCCCCCCCCcCCCceEecCccee-ecCccccccCeecccCCCCCC-CCCeeee-CCccccHhHHHh
Q 029070           90 PIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKVS-VNGTPYHKSCFKCSHGGCVIS-PSNYIAH-EGRLYCKHHHNQ  166 (199)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~-~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~-~g~~yC~~c~~~  166 (199)
                                          .+|.+|...+...+.|. +..+. |.-||.|..|...+. ...+.+. +.+.+|..++.+
T Consensus        60 --------------------~rr~rt~~~~~ql~~ler~f~~~-h~Pd~~~r~~la~~~~~~e~rVqvwFqnrrak~r~~  118 (235)
T KOG0490|consen   60 --------------------KRCARCKFTISQLDELERAFEKV-HLPCFACRECLALLLTGDEFRVQVWFQNRRAKDRKE  118 (235)
T ss_pred             --------------------ccccCCCCCcCHHHHHHHhhcCC-CcCccchHHHHhhcCCCCeeeeehhhhhhcHhhhhh
Confidence                                78999999987666665 55555 999999999988665 4455444 558889888865


Q ss_pred             H
Q 029070          167 L  167 (199)
Q Consensus       167 ~  167 (199)
                      .
T Consensus       119 ~  119 (235)
T KOG0490|consen  119 E  119 (235)
T ss_pred             h
Confidence            4

>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]

Probab=88.93  E-value=0.1  Score=40.98  Aligned_cols=57  Identities=19%  Similarity=0.494  Sum_probs=44.1

Q ss_pred             CCceEecCcceeecCccccccCeecccCCCCCC--CCCeeeeCCccccHhHHHh--HhcCCC
Q 029070          115 CKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVIS--PSNYIAHEGRLYCKHHHNQ--LIKEKG  172 (199)
Q Consensus       115 C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~--~~~~~~~~g~~yC~~c~~~--~~~~k~  172 (199)
                      |+..|.+...+...+..||..|..|..|...+.  ...+.. +|..||...+..  .+..++
T Consensus         2 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~~d~~~~~~~~~rr   62 (235)
T KOG0490|consen    2 CGRQILDRYLLRVLDRYWHASCLKCAECDNPLGVGDTCFSK-DGSIYCKRDYQREFKFSKRC   62 (235)
T ss_pred             CCccccchHHhhcccHHHHHHHHhhhhhcchhccCCCcccC-CCcccccccchhhhhccccc
Confidence            566676655556679999999999999999997  434555 999999999987  555444

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

Probab=86.62  E-value=0.21  Score=34.17  Aligned_cols=32  Identities=25%  Similarity=0.556  Sum_probs=24.2

Q ss_pred             CCCcCCCceEecCccee-ecCccccccCeeccc
Q 029070          110 EKCVGCKNTVYPTEKVS-VNGTPYHKSCFKCSH  141 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~-~~~~~~H~~Cf~C~~  141 (199)
                      -+|..|+++|..++.++ ..+..-|..||+=..
T Consensus         3 WkC~iCg~~I~~gqlFTF~~kG~VH~~C~~~~~   35 (101)
T PF09943_consen    3 WKCYICGKPIYEGQLFTFTKKGPVHYECFREKA   35 (101)
T ss_pred             eEEEecCCeeeecceEEEecCCcEeHHHHHHHH
Confidence            47889999998888776 455778888887443

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=86.19  E-value=0.48  Score=28.63  Aligned_cols=39  Identities=26%  Similarity=0.548  Sum_probs=27.3

Q ss_pred             CCccccccCceeecce-eE--EeCCcccccccc----eecc--Ccccc
Q 029070            8 TQQKCMACDKTVYLVD-KL--TADNRIYHKACF----RCHH--CKGTL   46 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~-~~--~~~~~~~H~~CF----~C~~--C~~~L   46 (199)
                      ...+|..|+++|.+++ .|  ..=+..||.+|.    .|..  |+..+
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~g~C~~~~c~~~~   51 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKAGGCINYSCGTGF   51 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHHhhCCceEeccCCCCc
Confidence            4678999999996443 44  345788999997    5655  55544

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	199
2d8y_A	91	Solution Structure Of The Lim Domain Of Epithelial		5e-17
2d8y_A	91	Solution Structure Of The Lim Domain Of Epithelial		2e-12
1b8t_A	192	Solution Structure Of The Chicken Crp1 Length = 192		1e-11
1cxx_A	113	Mutant R122a Of Quail Cysteine And Glycine-Rich Pro		1e-09
1qli_A	113	Quail Cysteine And Glycine-Rich Protein, Nmr, 15 Mi		3e-09
2co8_A	82	Solution Structures Of The Lim Domain Of Human Nedd		5e-07
2co8_A	82	Solution Structures Of The Lim Domain Of Human Nedd		7e-04
2cu8_A	76	Solution Structure Of The Lim Domain Of Human Cyste		5e-06
2cu8_A	76	Solution Structure Of The Lim Domain Of Human Cyste		3e-04
1iml_A	76	Cysteine Rich Intestinal Protein, Nmr, 48 Structure		7e-06
1iml_A	76	Cysteine Rich Intestinal Protein, Nmr, 48 Structure		4e-04
2o13_A	58	Solution Structure Of The C-Terminal Lim Domain Of		9e-06
2o10_A	60	Solution Structure Of The N-Terminal Lim Domain Of		3e-05
1ctl_A	85	Structure Of The Carboxy-Terminal Lim Domain From T		2e-04

>pdb|2D8Y|A Chain A, Solution Structure Of The Lim Domain Of Epithelial Protein Lost In Neoplasm Length = 91

Iteration: 1
 Score = 84.0 bits (206), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 34/77 (44%), Positives = 51/77 (66%)
Query: 6  AGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFD 65
          A  ++ C+ C KTVY +++L A+ +++H +CFRC +C   L LG Y S  G +YC+PHF+
Sbjct: 12 APARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFN 71
Query: 66 QLFKRTGSLDKSFEGTP 82
          QLFK  G+ D+ F   P
Sbjct: 72 QLFKSKGNYDEGFGSGP 88

>pdb|2D8Y|A Chain A, Solution Structure Of The Lim Domain Of Epithelial Protein Lost In Neoplasm Length = 91

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 32/69 (46%), Positives = 42/69 (60%)
Query: 108 TREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQL 167
            RE CV C+ TVYP E++  N   +H SCF+CS+    +S   Y +  GR+YCK H NQL
Sbjct: 14  ARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQL 73
Query: 168 IKEKGNLSQ 176
            K KGN  +
Sbjct: 74  FKSKGNYDE 82

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

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 47/164 (28%), Positives = 74/164 (45%), Gaps = 10/164 (6%)
Query: 7   GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQ 66
           G  +KC  C K VY  +++  +   +HK+CF C  CK  L           +YC+  + +
Sbjct: 5   GGGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGK 64
Query: 67  LFKRTGSLDKSFEGTPKIAKPE----KPIDGEK-----PNVAKVSTMFGGTREKCVGCKN 117
            +   G       GT    K E    K  +G+      PN ++++   GG+ + C  C  
Sbjct: 65  KYGPKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGS-DGCPRCGQ 123
Query: 118 TVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCK 161
            VY  EKV   G  +HKSCF+C+  G  +  +     +G +YCK
Sbjct: 124 AVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCK 167

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

Iteration: 1
 Score = 59.3 bits (142), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 32/86 (37%), Positives = 46/86 (53%), Gaps = 3/86 (3%)
Query: 87  PEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVI 146
           P +P     PN +K +  FGG  EKC  C ++VY  EKV   G P+HK+CF+C+  G  +
Sbjct: 17  PHRPTT--NPNTSKFAQKFGGA-EKCSACGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSL 73
Query: 147 SPSNYIAHEGRLYCKHHHNQLIKEKG 172
             +     EG +YCK  + +    KG
Sbjct: 74  ESTTLTEKEGEIYCKGCYAKNFGPKG 99

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

Iteration: 1
 Score = 58.2 bits (139), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 32/86 (37%), Positives = 46/86 (53%), Gaps = 3/86 (3%)
Query: 87  PEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVI 146
           P +P     PN +K +  FGG  EKC  C ++VY  EKV   G P+HK+CF+C+  G  +
Sbjct: 17  PHRPTT--NPNTSKFAQKFGGA-EKCSRCGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSL 73
Query: 147 SPSNYIAHEGRLYCKHHHNQLIKEKG 172
             +     EG +YCK  + +    KG
Sbjct: 74  ESTTLTEKEGEIYCKGCYAKNFGPKG 99

>pdb|2CO8|A Chain A, Solution Structures Of The Lim Domain Of Human Nedd9 Interacting Protein With Calponin Homology And Lim Domains Length = 82

Iteration: 1
 Score = 50.8 bits (120), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 22/63 (34%), Positives = 34/63 (53%), Gaps = 2/63 (3%)
Query: 6  AGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSF--EGVLYCRPH 63
          AG    C  C + +Y++++L  +   +H++CFRCH C+ TL  G Y     +G  YC  H
Sbjct: 12 AGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQH 71
Query: 64 FDQ 66
            Q
Sbjct: 72 LPQ 74

>pdb|2CO8|A Chain A, Solution Structures Of The Lim Domain Of Human Nedd9 Interacting Protein With Calponin Homology And Lim Domains Length = 82

Iteration: 1
 Score = 40.0 bits (92), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 2/59 (3%)
Query: 107 GTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAH--EGRLYCKHH 163
           G  + C  C   +Y  E++ VNG  +H+SCF+C      + P  Y  H  +G  YC  H
Sbjct: 13  GAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQH 71

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

Iteration: 1
 Score = 47.8 bits (112), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 34/60 (56%), Gaps = 1/60 (1%)
Query: 10 QKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYC-RPHFDQLF 68
           KC  CDKTVY  +K+++  + +HK C +C  C  TL  G +   +G  +C +P +  LF
Sbjct: 10 SKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLF 69

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

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 20/51 (39%), Positives = 27/51 (52%)
Query: 110 EKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYC 160
            KC  C  TVY  EKVS  G  +HK C KC      ++P  +  H+G+ +C
Sbjct: 10  SKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFC 60

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

Iteration: 1
 Score = 47.0 bits (110), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 22/63 (34%), Positives = 33/63 (52%), Gaps = 1/63 (1%)
Query: 11 KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYC-RPHFDQLFK 69
          KC  CDK VY  +++T+  + +H+ C +C  C  TL  G +   EG  YC  P +  +F 
Sbjct: 2  KCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFG 61
Query: 70 RTG 72
            G
Sbjct: 62 PKG 64

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

Iteration: 1
 Score = 41.2 bits (95), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 19/52 (36%), Positives = 27/52 (51%)
Query: 111 KCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKH 162
           KC  C   VY  E+V+  G  +H+ C KC   G  ++   +  HEG+ YC H
Sbjct: 2   KCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNH 53

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

Iteration: 1
 Score = 46.6 bits (109), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 22/51 (43%), Positives = 30/51 (58%)
Query: 111 KCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCK 161
           KC  C  +VY  EKV   G P+HK+CF+C+  G  +  +N    +G LYCK
Sbjct: 1   KCPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCK 51

>pdb|2O10|A Chain A, Solution Structure Of The N-Terminal Lim Domain Of MlpCRP3 Length = 60

Iteration: 1
 Score = 44.7 bits (104), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/51 (39%), Positives = 28/51 (54%)
Query: 111 KCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCK 161
           KC  C+ TVY  E++  NG  +HK+CF C      +  +   AHE  +YCK
Sbjct: 3   KCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCK 53

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

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 20/55 (36%), Positives = 28/55 (50%)
Query: 107 GTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCK 161
           G  + C  C   VY  EKV   G  +HKSCF+C+  G  +  +     +G +YCK
Sbjct: 6   GGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCK 60

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	199
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	4e-47
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	1e-14
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	1e-28
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	4e-24
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	2e-24
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	3e-23
2co8_A	82	NEDD9 interacting protein with calponin homology a	3e-22
2co8_A	82	NEDD9 interacting protein with calponin homology a	1e-19
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	4e-22
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	6e-21
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	3e-20
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	2e-19
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	1e-17
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	9e-14
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	1e-16
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	4e-08
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	2e-06
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	3e-15
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	6e-13
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	1e-14
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	7e-09
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	7e-05
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	1e-13
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	2e-08
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	6e-12
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	9e-05
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	7e-12
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	1e-09
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	1e-11
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	9e-07
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	1e-04
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	2e-11
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	4e-10
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	3e-11
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	2e-09
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	6e-11
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	3e-08
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	5e-10
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	1e-09
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	3e-09
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	2e-08
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	3e-09
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	1e-08
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	4e-09
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	9e-09
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	6e-09
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	4e-08
2cuq_A	80	Four and A half LIM domains 3; structural genomics	1e-08
2cuq_A	80	Four and A half LIM domains 3; structural genomics	3e-07
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	1e-08
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	2e-08
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	2e-08
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	6e-08
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	2e-08
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	2e-08
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	2e-08
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	4e-07
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	3e-08
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	2e-06
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	3e-08
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	1e-07
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	4e-08
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	5e-08
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	1e-07
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	3e-07
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	2e-07
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	1e-05
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	2e-07
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	2e-06
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	5e-07
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	3e-06
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	1e-06
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	2e-06
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	1e-06
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	2e-04
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	7e-06
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	2e-05
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	2e-05
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	2e-04
2cor_A	79	Pinch protein; LIM domain, particularly interestin	5e-05
2cor_A	79	Pinch protein; LIM domain, particularly interestin	2e-04
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	8e-04
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	8e-04

>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 =  152 bits (384), Expect = 4e-47
 Identities = 45/178 (25%), Positives = 67/178 (37%), Gaps = 8/178 (4%)

Query: 4   AFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 63
              G  +KC  C K VY  +++  +   +HK+CF C  CK  L           +YC+  
Sbjct: 2   PNWGGGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSC 61

Query: 64  FDQLFKRTGSLDKSFEGTPKIAKPEK--------PIDGEKPNVAKVSTMFGGTREKCVGC 115
           + + +   G       GT    K E                  A       G  + C  C
Sbjct: 62  YGKKYGPKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRC 121

Query: 116 KNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGN 173
              VY  EKV   G  +HKSCF+C+  G  +  +     +G +YCK  + +    KG 
Sbjct: 122 GQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKGF 179

>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 = 68.1 bits (166), Expect = 1e-14
 Identities = 21/79 (26%), Positives = 32/79 (40%)

Query: 105 FGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHH 164
             G  +KC  C+  VY  E+V   G+ +HKSCF C      +  +    H   +YCK  +
Sbjct: 3   NWGGGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCY 62

Query: 165 NQLIKEKGNLSQLEGEHEK 183
            +    KG    +      
Sbjct: 63  GKKYGPKGKGKGMGAGTLS 81

>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 =  101 bits (253), Expect = 1e-28
 Identities = 34/84 (40%), Positives = 51/84 (60%)

Query: 2  AAAFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCR 61
              A  ++ C+ C KTVY +++L A+ +++H +CFRC +C   L LG Y S  G +YC+
Sbjct: 8  MKFQAPARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCK 67

Query: 62 PHFDQLFKRTGSLDKSFEGTPKIA 85
          PHF+QLFK  G+ D+ F   P   
Sbjct: 68 PHFNQLFKSKGNYDEGFGSGPSSG 91

>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 = 89.9 bits (223), Expect = 4e-24
 Identities = 32/78 (41%), Positives = 43/78 (55%)

Query: 99  AKVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRL 158
           +         RE CV C+ TVYP E++  N   +H SCF+CS+    +S   Y +  GR+
Sbjct: 5   SSGMKFQAPARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRI 64

Query: 159 YCKHHHNQLIKEKGNLSQ 176
           YCK H NQL K KGN  +
Sbjct: 65  YCKPHFNQLFKSKGNYDE 82

>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 = 90.2 bits (224), Expect = 2e-24
 Identities = 24/73 (32%), Positives = 39/73 (53%), Gaps = 1/73 (1%)

Query: 2  AAAFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYC- 60
          ++  +G   KC  CDKTVY  +K+++  + +HK C +C  C  TL  G +   +G  +C 
Sbjct: 2  SSGSSGMASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCH 61

Query: 61 RPHFDQLFKRTGS 73
          +P +  LF    S
Sbjct: 62 KPCYATLFGSGPS 74

>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 = 87.5 bits (217), Expect = 3e-23
 Identities = 24/73 (32%), Positives = 34/73 (46%), Gaps = 1/73 (1%)

Query: 102 STMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYC- 160
           S+   G   KC  C  TVY  EKVS  G  +HK C KC      ++P  +  H+G+ +C 
Sbjct: 2   SSGSSGMASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCH 61

Query: 161 KHHHNQLIKEKGN 173
           K  +  L     +
Sbjct: 62  KPCYATLFGSGPS 74

>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 = 85.0 bits (210), Expect = 3e-22
 Identities = 23/75 (30%), Positives = 35/75 (46%), Gaps = 2/75 (2%)

Query: 1  MAAAFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSF--EGVL 58
               AG    C  C + +Y++++L  +   +H++CFRCH C+ TL  G Y     +G  
Sbjct: 7  GQHQEAGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHF 66

Query: 59 YCRPHFDQLFKRTGS 73
          YC  H  Q      S
Sbjct: 67 YCLQHLPQTDSGPSS 81

>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 = 78.1 bits (192), Expect = 1e-19
 Identities = 21/80 (26%), Positives = 33/80 (41%), Gaps = 2/80 (2%)

Query: 96  PNVAKVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAH- 154
            + +       G  + C  C   +Y  E++ VNG  +H+SCF+C      + P  Y  H 
Sbjct: 2   SSGSSGQHQEAGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHP 61

Query: 155 -EGRLYCKHHHNQLIKEKGN 173
            +G  YC  H  Q      +
Sbjct: 62  GDGHFYCLQHLPQTDSGPSS 81

>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 = 84.4 bits (209), Expect = 4e-22
 Identities = 19/70 (27%), Positives = 32/70 (45%)

Query: 4  AFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPH 63
             G   KC AC +TVY  +++  D R +H+ CF C  C+  L        +  +YC+  
Sbjct: 2  PNWGGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSC 61

Query: 64 FDQLFKRTGS 73
          + + +   G 
Sbjct: 62 YGKKYGPKGY 71

>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 = 81.7 bits (202), Expect = 6e-21
 Identities = 20/67 (29%), Positives = 30/67 (44%)

Query: 107 GTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQ 166
           G   KC  C  TVY  E+V  +G  +H+ CF C      +  +    H+  +YCK  + +
Sbjct: 5   GGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGK 64

Query: 167 LIKEKGN 173
               KG 
Sbjct: 65  KYGPKGY 71

>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 = 79.7 bits (197), Expect = 3e-20
 Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 1/64 (1%)

Query: 111 KCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKH-HHNQLIK 169
           KC  C   VY  E+V+  G  +H+ C KC   G  ++   +  HEG+ YC H  ++ +  
Sbjct: 2   KCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFG 61

Query: 170 EKGN 173
            KG 
Sbjct: 62  PKGF 65

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

 Score = 77.8 bits (192), Expect = 2e-19
 Identities = 22/63 (34%), Positives = 33/63 (52%), Gaps = 1/63 (1%)

Query: 11 KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYC-RPHFDQLFK 69
          KC  CDK VY  +++T+  + +H+ C +C  C  TL  G +   EG  YC  P +  +F 
Sbjct: 2  KCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFG 61

Query: 70 RTG 72
            G
Sbjct: 62 PKG 64

>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 = 72.4 bits (178), Expect = 1e-17
 Identities = 18/59 (30%), Positives = 25/59 (42%), Gaps = 1/59 (1%)

Query: 11 KCMACDKTVYLVDK-LTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF 68
           C  C       +K + ++  +YH+ CF C  C      G +  FEG  YC   F  LF
Sbjct: 13 TCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 71

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

 Score = 62.8 bits (153), Expect = 9e-14
 Identities = 22/63 (34%), Positives = 27/63 (42%), Gaps = 1/63 (1%)

Query: 106 GGTREKCVGCKNTVYPTEK-VSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHH 164
           G     C  CK    P EK V+ NG  YH+ CF C+          +   EGR YC+H  
Sbjct: 8   GSASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDF 67

Query: 165 NQL 167
             L
Sbjct: 68  QML 70

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

 Score = 72.1 bits (177), Expect = 1e-16
 Identities = 29/166 (17%), Positives = 44/166 (26%), Gaps = 42/166 (25%)

Query: 11  KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFE--GVLYCRPHFDQLF 68
            C  C + +     L A ++ +H+ C  C  C   L       +   G   CR  + +LF
Sbjct: 4   TCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLF 63

Query: 69  KRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKV-SV 127
                                                 G    C  C   +   E    V
Sbjct: 64  --------------------------------------GQDGLCASCDKRIRAYEMTMRV 85

Query: 128 NGTPYHKSCFKCSHGGCVISP-SNYIAHEGRLYCKHHHNQLIKEKG 172
               YH  CFKC+           Y+     + C+    +  K  G
Sbjct: 86  KDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIYEWTKING 131

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

 Score = 49.0 bits (117), Expect = 4e-08
 Identities = 16/68 (23%), Positives = 29/68 (42%), Gaps = 2/68 (2%)

Query: 7   GTQQKCMACDKTVYLVDK-LTADNRIYHKACFRCHHCKGTLKLGN-YNSFEGVLYCRPHF 64
           G    C +CDK +   +  +   +++YH  CF+C  C+    +G+ Y      + C    
Sbjct: 64  GQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDI 123

Query: 65  DQLFKRTG 72
            +  K  G
Sbjct: 124 YEWTKING 131

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

 Score = 44.7 bits (106), Expect = 2e-06
 Identities = 13/67 (19%), Positives = 24/67 (35%), Gaps = 2/67 (2%)

Query: 108 TREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVIS--PSNYIAHEGRLYCKHHHN 165
           +   C GC+  +     +      +H+ C  C   GC +           GR  C+  + 
Sbjct: 1   SLLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYL 60

Query: 166 QLIKEKG 172
           +L  + G
Sbjct: 61  RLFGQDG 67

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

 Score = 66.7 bits (163), Expect = 3e-15
 Identities = 18/62 (29%), Positives = 25/62 (40%), Gaps = 1/62 (1%)

Query: 8  TQQKCMACDKTVYLVDK-LTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQ 66
              C  C       +K + ++  +YH+ CF C  C      G +  FEG  YC   F  
Sbjct: 10 ASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQM 69

Query: 67 LF 68
          LF
Sbjct: 70 LF 71

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

 Score = 60.9 bits (148), Expect = 6e-13
 Identities = 21/61 (34%), Positives = 26/61 (42%), Gaps = 1/61 (1%)

Query: 108 TREKCVGCKNTVYPTEK-VSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQ 166
               C  CK    P EK V+ NG  YH+ CF C+          +   EGR YC+H    
Sbjct: 10  ASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQM 69

Query: 167 L 167
           L
Sbjct: 70  L 70

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

 Score = 66.3 bits (162), Expect = 1e-14
 Identities = 28/159 (17%), Positives = 49/159 (30%), Gaps = 43/159 (27%)

Query: 11  KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKR 70
           +C  CD+ ++  +   A+N+ +H   F C  C   L    Y        C+P + +    
Sbjct: 5   RCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHA- 63

Query: 71  TGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEK-VSVNG 129
                                                    C GC N + P  + V+ N 
Sbjct: 64  ---------------------------------------VVCQGCHNAIDPEVQRVTYNN 84

Query: 130 TPYH--KSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQ 166
             +H    CF CS     +    ++  EG ++C     +
Sbjct: 85  FSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKK 123

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

 Score = 51.3 bits (123), Expect = 7e-09
 Identities = 10/61 (16%), Positives = 21/61 (34%)

Query: 111 KCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKE 170
           +C GC   ++  E        +H   F C     +++   Y+    +  CK  + +    
Sbjct: 5   RCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAV 64

Query: 171 K 171
            
Sbjct: 65  V 65

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

 Score = 40.1 bits (94), Expect = 7e-05
 Identities = 13/61 (21%), Positives = 24/61 (39%), Gaps = 3/61 (4%)

Query: 11  KCMACDKTVYLVDK-LTADNRIYHKA--CFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQL 67
            C  C   +    + +T +N  +H +  CF C  C   L    +   EG+++C     + 
Sbjct: 65  VCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKR 124

Query: 68  F 68
            
Sbjct: 125 M 125

>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 = 64.5 bits (157), Expect = 1e-13
 Identities = 32/160 (20%), Positives = 48/160 (30%), Gaps = 44/160 (27%)

Query: 11  KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKR 70
            C  CD+ +     L A +R +H  C +C  C   L      S    +YC+  F + F  
Sbjct: 8   MCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLA-ERCFSRGESVYCKDDFFKRF-- 64

Query: 71  TGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKV-SVNG 129
                                                   KC  C+  + PT+ V     
Sbjct: 65  --------------------------------------GTKCAACQLGIPPTQVVRRAQD 86

Query: 130 TPYHKSCFKCSHGGCVISP--SNYIAHEGRLYCKHHHNQL 167
             YH  CF C      ++     Y+  + RL CK  +   
Sbjct: 87  FVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETA 126

>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 = 50.6 bits (121), Expect = 2e-08
 Identities = 19/133 (14%), Positives = 32/133 (24%), Gaps = 44/133 (33%)

Query: 11  KCMACDKTVYLVDK-LTADNRIYHKACFRCHHCKGTLKLGN--YNSFEGVLYCRPHFDQL 67
           KC AC   +        A + +YH  CF C  CK  L  G+  Y   +  L C+  ++  
Sbjct: 67  KCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETA 126

Query: 68  FKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKVSV 127
                                                    +    G   +      +  
Sbjct: 127 K----------------------------------------QGGSGGSGGSG-GGTPMVA 145

Query: 128 NGTPYHKSCFKCS 140
                H    + +
Sbjct: 146 ASPERHDGGLQAN 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 = 60.7 bits (147), Expect = 6e-12
 Identities = 32/159 (20%), Positives = 48/159 (30%), Gaps = 44/159 (27%)

Query: 11  KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKR 70
            C  CD+ +     L A +R +H  C +C  C   L      S    +YC+  F + F  
Sbjct: 62  MCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLA-ERCFSRGESVYCKDDFFKRF-- 118

Query: 71  TGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKV-SVNG 129
                                                   KC  C+  + PT+ V     
Sbjct: 119 --------------------------------------GTKCAACQLGIPPTQVVRRAQD 140

Query: 130 TPYHKSCFKCSHGGCVISP--SNYIAHEGRLYCKHHHNQ 166
             YH  CF C      ++     Y+  + RL CK  +  
Sbjct: 141 FVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYET 179

>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 = 40.7 bits (95), Expect = 9e-05
 Identities = 11/58 (18%), Positives = 19/58 (32%), Gaps = 1/58 (1%)

Query: 110 EKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQL 167
             C GC   +     +      +H  C KCS     ++     +    +YCK    + 
Sbjct: 61  PMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLA-ERCFSRGESVYCKDDFFKR 117

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

 Score = 57.8 bits (140), Expect = 7e-12
 Identities = 17/59 (28%), Positives = 28/59 (47%), Gaps = 1/59 (1%)

Query: 11 KCMACDKTVYLVDK-LTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF 68
           C AC +TV    + L    + +H+ CF C  C+  L   ++   +G  YC P ++  F
Sbjct: 7  GCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKF 65

>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 = 51.6 bits (124), Expect = 1e-09
 Identities = 14/58 (24%), Positives = 24/58 (41%), Gaps = 1/58 (1%)

Query: 111 KCVGCKNTVYPTEK-VSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQL 167
            C  C  TV P  + +   G  +H+ CF CS     +   +++  +G  YC   +   
Sbjct: 7   GCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENK 64

>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 = 60.0 bits (145), Expect = 1e-11
 Identities = 32/166 (19%), Positives = 53/166 (31%), Gaps = 42/166 (25%)

Query: 10  QKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFE--GVLYCRPHFDQL 67
           ++C  C   +     L A +  +H  C +C  C+  L     +S+   G++ CR  + +L
Sbjct: 6   KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 65

Query: 68  FKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKV-S 126
           F                                      G    C  C  ++  +E V  
Sbjct: 66  F--------------------------------------GNSGACSACGQSIPASELVMR 87

Query: 127 VNGTPYHKSCFKCSHGGCVISP-SNYIAHEGRLYCKHHHNQLIKEK 171
             G  YH  CF CS     + P   +    G L+C+H     +   
Sbjct: 88  AQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALING 133

>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 = 46.2 bits (109), Expect = 9e-07
 Identities = 16/66 (24%), Positives = 26/66 (39%), Gaps = 2/66 (3%)

Query: 7   GTQQKCMACDKTVYLVDK-LTADNRIYHKACFRCHHCKGTLKLG-NYNSFEGVLYCRPHF 64
           G    C AC +++   +  + A   +YH  CF C  C+  L  G  ++   G L+C    
Sbjct: 67  GNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDR 126

Query: 65  DQLFKR 70
                 
Sbjct: 127 PTALIN 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 = 40.4 bits (94), Expect = 1e-04
 Identities = 12/65 (18%), Positives = 26/65 (40%), Gaps = 2/65 (3%)

Query: 110 EKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISP--SNYIAHEGRLYCKHHHNQL 167
           ++C GC   +     +    + +H  C KCS     +    ++     G + C++ + +L
Sbjct: 6   KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 65

Query: 168 IKEKG 172
               G
Sbjct: 66  FGNSG 70

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

 Score = 57.0 bits (138), Expect = 2e-11
 Identities = 16/59 (27%), Positives = 26/59 (44%), Gaps = 1/59 (1%)

Query: 11 KCMACDKTVYLVDK-LTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF 68
          KC  C K +   D+ +     ++HK CF C +CK  +  G++       YC    +  F
Sbjct: 17 KCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKF 75

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

 Score = 53.1 bits (128), Expect = 4e-10
 Identities = 18/58 (31%), Positives = 25/58 (43%), Gaps = 1/58 (1%)

Query: 111 KCVGCKNTVYPTEK-VSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQL 167
           KC GC   +   ++ V   GT +HK CF CS+   VI   ++       YC   H   
Sbjct: 17  KCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETK 74

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

 Score = 55.9 bits (135), Expect = 3e-11
 Identities = 12/59 (20%), Positives = 26/59 (44%), Gaps = 1/59 (1%)

Query: 11 KCMACDKTVYLVDK-LTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF 68
           C  C KT+    + +      +H+ CF CH C+  +   ++   +   +C P +++  
Sbjct: 7  GCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQH 65

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

 Score = 50.9 bits (122), Expect = 2e-09
 Identities = 13/58 (22%), Positives = 27/58 (46%), Gaps = 1/58 (1%)

Query: 111 KCVGCKNTVYPTEK-VSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQL 167
            C  CK T+ P  + +   G+ +H++CF C      I   ++I  + + +C   + + 
Sbjct: 7   GCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQ 64

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

 Score = 55.9 bits (135), Expect = 6e-11
 Identities = 24/133 (18%), Positives = 37/133 (27%), Gaps = 42/133 (31%)

Query: 11  KCMACDKTVYLVDK-LTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFK 69
            C+ C K +    K +   NR +H  CFRC  C   L    + + +  + C     +   
Sbjct: 7   GCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDS 66

Query: 70  RTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKV-SVN 128
                                                    KC GC   +   ++     
Sbjct: 67  ----------------------------------------PKCKGCFKAIVAGDQNVEYK 86

Query: 129 GTPYHKSCFKCSH 141
           GT +HK CF    
Sbjct: 87  GTVWHKDCFSGPS 99

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

 Score = 48.9 bits (117), Expect = 3e-08
 Identities = 12/62 (19%), Positives = 26/62 (41%), Gaps = 1/62 (1%)

Query: 111 KCVGCKNTVYPTEK-VSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIK 169
            CV C+  +    K V      +H +CF+C+     ++   ++A + ++ C     +   
Sbjct: 7   GCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDS 66

Query: 170 EK 171
            K
Sbjct: 67  PK 68

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

 Score = 50.8 bits (122), Expect = 3e-09
 Identities = 15/58 (25%), Positives = 25/58 (43%), Gaps = 1/58 (1%)

Query: 11 KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF 68
           C+ C K +     +T   + +HK CF C  C+  L    + + +   YC   F  L+
Sbjct: 7  GCVQCKKPI-TTGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLY 63

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

 Score = 48.1 bits (115), Expect = 2e-08
 Identities = 17/57 (29%), Positives = 25/57 (43%), Gaps = 1/57 (1%)

Query: 111 KCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQL 167
            CV CK  +  T  V+    P+HK CF C+     +S   + A +   YC +    L
Sbjct: 7   GCVQCKKPIT-TGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDL 62

>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 = 50.4 bits (121), Expect = 3e-09
 Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 1/58 (1%)

Query: 11 KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF 68
           C AC + +     + A  + +H   F C  C+       +   +G+ YC  H++QLF
Sbjct: 7  ICGACRRPIEG-RVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLF 63

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

 Score = 48.8 bits (117), Expect = 1e-08
 Identities = 14/57 (24%), Positives = 23/57 (40%), Gaps = 1/57 (1%)

Query: 111 KCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQL 167
            C  C+  +     V+  G  +H   F C+          +   +G  YC+ H+NQL
Sbjct: 7   ICGACRRPIE-GRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQL 62

>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 = 50.5 bits (121), Expect = 4e-09
 Identities = 15/57 (26%), Positives = 27/57 (47%), Gaps = 1/57 (1%)

Query: 111 KCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQL 167
            C GCK  +   + +      +H SCFKC     +++   YI+ +G  YC+  ++  
Sbjct: 17  HCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILT-GEYISKDGVPYCESDYHAQ 72

>2dj7_A Actin-binding LIM protein 3; LIM domain, Zn binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 80

 Score = 49.7 bits (119), Expect = 9e-09
 Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 1/58 (1%)

Query: 11 KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF 68
           C  C + +     L A ++ +H +CF+C  C   L  G Y S +GV YC   +   F
Sbjct: 17 HCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILT-GEYISKDGVPYCESDYHAQF 73

>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 = 50.0 bits (120), Expect = 6e-09
 Identities = 16/58 (27%), Positives = 29/58 (50%), Gaps = 1/58 (1%)

Query: 11 KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF 68
          KC  C++ V L + L+A + ++H  CF C  C  +   G++   +G  +C  H+    
Sbjct: 17 KCGGCNRPV-LENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHHRR 73

>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 = 48.1 bits (115), Expect = 4e-08
 Identities = 16/57 (28%), Positives = 25/57 (43%), Gaps = 1/57 (1%)

Query: 111 KCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQL 167
           KC GC   V     +S   T +H  CF C       S  ++   +GR +C+ H++  
Sbjct: 17  KCGGCNRPVL-ENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHHR 72

>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 = 49.6 bits (119), Expect = 1e-08
 Identities = 16/58 (27%), Positives = 27/58 (46%), Gaps = 1/58 (1%)

Query: 11 KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF 68
          +C  C KT+     +T  ++ +H+ C  C  C+  L    + S +   YC   F +LF
Sbjct: 17 RCARCSKTL-TQGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELF 73

>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 = 45.8 bits (109), Expect = 3e-07
 Identities = 11/58 (18%), Positives = 23/58 (39%), Gaps = 1/58 (1%)

Query: 110 EKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQL 167
            +C  C  T+     V+    P+H+ C  C+     ++   + + +   YC     +L
Sbjct: 16  PRCARCSKTLTQ-GGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGEL 72

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

 Score = 48.6 bits (116), Expect = 1e-08
 Identities = 14/61 (22%), Positives = 26/61 (42%), Gaps = 1/61 (1%)

Query: 11 KCMACDKTVYLVDK-LTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFK 69
           C  C + V      + A +R++H  CF C  C+  L+  ++ + E   YC   +    +
Sbjct: 7  GCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVATLE 66

Query: 70 R 70
           
Sbjct: 67 S 67

>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 = 48.6 bits (116), Expect = 2e-08
 Identities = 15/61 (24%), Positives = 21/61 (34%), Gaps = 1/61 (1%)

Query: 108 TREKCVGCKNTVYPTEK-VSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQ 166
               C GC   V      V      +H  CF CS     +   ++ A E R YC+  +  
Sbjct: 4   GSSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVA 63

Query: 167 L 167
            
Sbjct: 64  T 64

>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 = 49.0 bits (117), Expect = 2e-08
 Identities = 14/59 (23%), Positives = 26/59 (44%), Gaps = 1/59 (1%)

Query: 11 KCMACDKTVYLVDK-LTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF 68
           C  C + +    + L  ++R +H+ CFRC  C+ +L    +   +  L C   +   F
Sbjct: 17 TCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELLCNDCYCSAF 75

>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 = 47.5 bits (113), Expect = 6e-08
 Identities = 8/63 (12%), Positives = 20/63 (31%), Gaps = 1/63 (1%)

Query: 110 EKCVGCKNTVYPTEK-VSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLI 168
             C  C+  +    + +      +H+ CF+C      ++   +   +  L C   +    
Sbjct: 16  NTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELLCNDCYCSAF 75

Query: 169 KEK 171
              
Sbjct: 76  SSG 78

>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 = 48.5 bits (116), Expect = 2e-08
 Identities = 13/58 (22%), Positives = 23/58 (39%), Gaps = 1/58 (1%)

Query: 11 KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF 68
           C+ C+K +     +T  ++ +H  CF C  C   L    + + E   YC   +    
Sbjct: 7  GCVKCNKAI-TSGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFV 63

>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 = 48.2 bits (115), Expect = 2e-08
 Identities = 12/62 (19%), Positives = 23/62 (37%), Gaps = 1/62 (1%)

Query: 110 EKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIK 169
             CV C   +  +  ++    P+H  CF C      ++   + A E + YC   +   + 
Sbjct: 6   SGCVKCNKAIT-SGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFVS 64

Query: 170 EK 171
             
Sbjct: 65  GP 66

>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 = 48.6 bits (116), Expect = 2e-08
 Identities = 19/67 (28%), Positives = 23/67 (34%), Gaps = 1/67 (1%)

Query: 2  AAAFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCR 61
           A  A     C  C   +     + A ++  H  CF C  C   LK   Y   EG LYC 
Sbjct: 18 GAGSAQRMPLCDKCGSGIVGAV-VKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCE 76

Query: 62 PHFDQLF 68
           H     
Sbjct: 77 THARART 83

>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 = 45.2 bits (107), Expect = 4e-07
 Identities = 14/66 (21%), Positives = 19/66 (28%), Gaps = 1/66 (1%)

Query: 106 GGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHN 165
                 C  C + +     V       H  CF C+     +    Y   EG LYC+ H  
Sbjct: 22  AQRMPLCDKCGSGIV-GAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETHAR 80

Query: 166 QLIKEK 171
                 
Sbjct: 81  ARTSGP 86

>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 = 48.6 bits (116), Expect = 3e-08
 Identities = 16/59 (27%), Positives = 27/59 (45%), Gaps = 3/59 (5%)

Query: 11 KCMACDKTVYLVDK-LTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF 68
           C  C++ +      L A  + +H   F C HCK T+    +   +G LYC   +++ F
Sbjct: 27 MCAHCNQVI--RGPFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFF 83

>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 = 43.6 bits (103), Expect = 2e-06
 Identities = 11/57 (19%), Positives = 23/57 (40%), Gaps = 1/57 (1%)

Query: 111 KCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQL 167
            C  C   +     +   G  +H   F C+H    ++   ++  +G LYC+  + + 
Sbjct: 27  MCAHCNQVIRG-PFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKF 82

>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 = 47.8 bits (114), Expect = 3e-08
 Identities = 15/58 (25%), Positives = 24/58 (41%), Gaps = 1/58 (1%)

Query: 11 KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF 68
           C  C + + +   + A N  +H  CFRC  C+  L    +    G   CRP  ++  
Sbjct: 7  GCHQCGEFI-IGRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNREK 63

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

 Score = 46.3 bits (110), Expect = 1e-07
 Identities = 12/61 (19%), Positives = 23/61 (37%), Gaps = 1/61 (1%)

Query: 111 KCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKE 170
            C  C   +     +      +H  CF+C     V++   ++ + GR  C+  HN+    
Sbjct: 7   GCHQCGEFII-GRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNREKAS 65

Query: 171 K 171
            
Sbjct: 66  G 66

>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 = 49.0 bits (116), Expect = 4e-08
 Identities = 12/64 (18%), Positives = 27/64 (42%), Gaps = 2/64 (3%)

Query: 106 GGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVIS--PSNYIAHEGRLYCKHH 163
           G + ++C GC   +     +    + +H  C KCS     +    ++     G + C++ 
Sbjct: 58  GLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRND 117

Query: 164 HNQL 167
           + +L
Sbjct: 118 YIRL 121

>2l4z_A DNA endonuclease RBBP8, LIM domain transcription LMO4; protein-protein interaction, LIM-interaction DOM LMO4, RBBP8/CTIP, LIM-only protein; HET: DNA; NMR {Homo sapiens} Length = 123

 Score = 48.6 bits (115), Expect = 5e-08
 Identities = 15/65 (23%), Positives = 29/65 (44%), Gaps = 2/65 (3%)

Query: 6   AGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFE--GVLYCRPH 63
             + ++C  C   +     L A +  +H  C +C  C+  L     +S+   G++ CR  
Sbjct: 58  GLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRND 117

Query: 64  FDQLF 68
           + +LF
Sbjct: 118 YIRLF 122

>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 = 46.7 bits (111), Expect = 1e-07
 Identities = 14/60 (23%), Positives = 21/60 (35%), Gaps = 3/60 (5%)

Query: 11 KCMACDKTVYLVDK-LTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFK 69
           C  C   +  V   +   +R  H  C+ C  C   LK   +   E  +YC  H  +   
Sbjct: 17 MCDKCGTGI--VGVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEKHARERVS 74

>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 = 45.5 bits (108), Expect = 3e-07
 Identities = 12/70 (17%), Positives = 23/70 (32%), Gaps = 1/70 (1%)

Query: 102 STMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCK 161
           S         C  C   +     V +     H  C+ C+  G  +    +   E ++YC+
Sbjct: 8   SIGNAQKLPMCDKCGTGIVG-VFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCE 66

Query: 162 HHHNQLIKEK 171
            H  + +   
Sbjct: 67  KHARERVSGP 76

>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 = 46.0 bits (109), Expect = 2e-07
 Identities = 10/61 (16%), Positives = 21/61 (34%), Gaps = 3/61 (4%)

Query: 11 KCMACDKTVYLVDK---LTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQL 67
           C  C   +  +     ++ + R +H  CF C  C  +L    + +    + C      +
Sbjct: 7  GCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGKDI 66

Query: 68 F 68
           
Sbjct: 67 S 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 = 41.0 bits (96), Expect = 1e-05
 Identities = 11/61 (18%), Positives = 20/61 (32%), Gaps = 3/61 (4%)

Query: 110 EKCVGCKNTV---YPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQ 166
             C GC N +     T+ +S     +H  CF C      +    ++     + C      
Sbjct: 6   SGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGKD 65

Query: 167 L 167
           +
Sbjct: 66  I 66

>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 = 45.9 bits (109), Expect = 2e-07
 Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 4/62 (6%)

Query: 110 EKCVGCKNTVYP----TEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHN 165
           +KC GCKN +      +  V+  G  +H  CF C      ++   ++ H+ ++YC     
Sbjct: 16  KKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYCPDCAK 75

Query: 166 QL 167
           +L
Sbjct: 76  KL 77

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

 Score = 43.2 bits (102), Expect = 2e-06
 Identities = 13/61 (21%), Positives = 22/61 (36%), Gaps = 4/61 (6%)

Query: 11 KCMACDKTVYLVDK----LTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQ 66
          KC  C   +    K    +  + + +H  CF C  C   L    +   +  +YC     +
Sbjct: 17 KCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYCPDCAKK 76

Query: 67 L 67
          L
Sbjct: 77 L 77

>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 = 45.1 bits (107), Expect = 5e-07
 Identities = 17/65 (26%), Positives = 26/65 (40%), Gaps = 2/65 (3%)

Query: 5  FAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYN-SFEGVLYCRPH 63
          +  T +KC  C + + L   L A  + YH  CF C  C   L    +       ++C   
Sbjct: 11 YVATLEKCATCSQPI-LDRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIED 69

Query: 64 FDQLF 68
          F + F
Sbjct: 70 FHRKF 74

>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 = 42.7 bits (101), Expect = 3e-06
 Identities = 12/64 (18%), Positives = 22/64 (34%), Gaps = 2/64 (3%)

Query: 105 FGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSN-YIAHEGRLYCKHH 163
           +  T EKC  C   +     +   G  YH  CF C      +      +    +++C   
Sbjct: 11  YVATLEKCATCSQPILD-RILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIED 69

Query: 164 HNQL 167
            ++ 
Sbjct: 70  FHRK 73

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

 Score = 45.0 bits (106), Expect = 1e-06
 Identities = 16/68 (23%), Positives = 32/68 (47%), Gaps = 2/68 (2%)

Query: 8  TQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFE--GVLYCRPHFD 65
          + ++C  C   +     L A +  +H  C +C  C+  L     +S+   G++ CR  + 
Sbjct: 4  SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYI 63

Query: 66 QLFKRTGS 73
          +LF  +G+
Sbjct: 64 RLFGNSGA 71

>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 = 44.6 bits (105), Expect = 2e-06
 Identities = 11/62 (17%), Positives = 24/62 (38%), Gaps = 2/62 (3%)

Query: 108 TREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSN--YIAHEGRLYCKHHHN 165
           + ++C GC   +     +    + +H  C KCS     +           G + C++ + 
Sbjct: 4   SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYI 63

Query: 166 QL 167
           +L
Sbjct: 64  RL 65

>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 = 44.7 bits (105), Expect = 1e-06
 Identities = 14/69 (20%), Positives = 25/69 (36%), Gaps = 2/69 (2%)

Query: 107 GTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVIS--PSNYIAHEGRLYCKHHH 164
           G+   C GC+  +     +      +H+ C  C   GC +           GR  C+  +
Sbjct: 1   GSLLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDY 60

Query: 165 NQLIKEKGN 173
            +L    G+
Sbjct: 61  LRLGGSGGH 69

>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 = 38.9 bits (90), Expect = 2e-04
 Identities = 15/68 (22%), Positives = 25/68 (36%), Gaps = 2/68 (2%)

Query: 7  GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFE--GVLYCRPHF 64
          G+   C  C + +     L A ++ +H+ C  C  C   L       +   G   CR  +
Sbjct: 1  GSLLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDY 60

Query: 65 DQLFKRTG 72
           +L    G
Sbjct: 61 LRLGGSGG 68

>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 = 41.8 bits (98), Expect = 7e-06
 Identities = 11/61 (18%), Positives = 24/61 (39%), Gaps = 3/61 (4%)

Query: 11 KCMACDKTVYLVDK---LTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQL 67
           C+AC K +  +     +   +  +H  CF C  C  +L    + +    ++C+     +
Sbjct: 7  GCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCGSGM 66

Query: 68 F 68
           
Sbjct: 67 D 67

>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 = 40.2 bits (94), Expect = 2e-05
 Identities = 8/61 (13%), Positives = 21/61 (34%), Gaps = 3/61 (4%)

Query: 110 EKCVGCKNTVYP---TEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQ 166
             CV C   +      + +    + +H  CF C      +    ++     ++C+   + 
Sbjct: 6   SGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCGSG 65

Query: 167 L 167
           +
Sbjct: 66  M 66

>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 = 40.9 bits (96), Expect = 2e-05
 Identities = 14/61 (22%), Positives = 22/61 (36%), Gaps = 5/61 (8%)

Query: 11 KCMACDKTVYLVDK-LTADNRIYHKACFRCHHCKGTLKLGN--YNSFEGVLYCRPHFDQL 67
           C  C     +    + A    YH  CF C  CK  ++ G+         LYC    +++
Sbjct: 17 FCHGCSL--LMTGPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEV 74

Query: 68 F 68
           
Sbjct: 75 V 75

>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 = 37.8 bits (88), Expect = 2e-04
 Identities = 14/60 (23%), Positives = 22/60 (36%), Gaps = 3/60 (5%)

Query: 111 KCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISP--SNYIAHEGRLYCKHHHNQLI 168
            C GC   +     +      YH  CF C     +I    +  +     LYC   HN+++
Sbjct: 17  FCHGCSLLMTGPF-MVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVV 75

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

 Score = 39.4 bits (92), Expect = 5e-05
 Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 1/44 (2%)

Query: 25 LTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF 68
          L   N  YH   F C +C   L   +    +G LYC P  D++ 
Sbjct: 30 LIFKNDPYHPDHFNCANCGKELT-ADARELKGELYCLPCHDKMG 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 = 37.5 bits (87), Expect = 2e-04
 Identities = 14/62 (22%), Positives = 29/62 (46%), Gaps = 2/62 (3%)

Query: 106 GGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHN 165
           G  +  C  C + +   + +     PYH   F C++ G  ++ ++    +G LYC   H+
Sbjct: 12  GLGKYICQKC-HAIIDEQPLIFKNDPYHPDHFNCANCGKELT-ADARELKGELYCLPCHD 69

Query: 166 QL 167
           ++
Sbjct: 70  KM 71

>1v6g_A Actin binding LIM protein 2; LIM domain, zinc binding domain, ablim2, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 81

 Score = 36.3 bits (84), Expect = 8e-04
 Identities = 13/56 (23%), Positives = 19/56 (33%), Gaps = 2/56 (3%)

Query: 111 KCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSN-YIAHEGRLYCKHHHN 165
           +C  C   +   E VS  G  YH  CF C+       P +    +     C+    
Sbjct: 17  RCFSCDQFI-EGEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCSL 71

>1v6g_A Actin binding LIM protein 2; LIM domain, zinc binding domain, ablim2, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 81

 Score = 35.9 bits (83), Expect = 8e-04
 Identities = 12/54 (22%), Positives = 23/54 (42%), Gaps = 2/54 (3%)

Query: 11 KCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGN-YNSFEGVLYCRPH 63
          +C +CD+ +   + ++A  + YH  CF C  C+     G+          C+  
Sbjct: 17 RCFSCDQFI-EGEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKC 69

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	199
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	100.0
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.97
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.97
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.97
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.96
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.96
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.93
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.91
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	99.87
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.79
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.79
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.78
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.78
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.76
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.75
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	99.75
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.74
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.73
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	99.72
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	99.72
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.72
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	99.71
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	99.7
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	99.69
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	99.69
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	99.68
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	99.68
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	99.68
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.68
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	99.68
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	99.68
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.67
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.67
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	99.67
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	99.65
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.64
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.64
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	99.64
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.64
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	99.64
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	99.64
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.63
2cor_A	79	Pinch protein; LIM domain, particularly interestin	99.63
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	99.63
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	99.62
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.62
2co8_A	82	NEDD9 interacting protein with calponin homology a	99.62
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	99.62
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	99.62
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	99.61
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	99.61
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	99.61
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.61
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.61
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	99.6
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.6
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	99.6
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.6
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.6
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	99.59
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.59
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	99.58
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	99.58
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	99.58
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	99.58
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.57
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	99.57
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.55
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	99.54
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	99.54
2cor_A	79	Pinch protein; LIM domain, particularly interestin	99.53
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	99.53
2co8_A	82	NEDD9 interacting protein with calponin homology a	99.53
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	99.52
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.51
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.5
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	99.5
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.49
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	99.47
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.47
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	99.44
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.42
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.36
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.31
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	98.4
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	98.22
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	91.28
2kwj_A	114	Zinc finger protein DPF3; acetyl-lysine, transcrip	85.68
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	80.46

>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=100.00  E-value=1.9e-32  Score=210.63  Aligned_cols=164  Identities=26%  Similarity=0.566  Sum_probs=133.5

Q ss_pred             CCCCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccCCCCCCCCCCCCcc
Q 029070            6 AGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTGSLDKSFEGTPKIA   85 (199)
Q Consensus         6 ~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~   85 (199)
                      .++.++|..|+++|..++.+.++|+.||++||+|..|+++|.+..|+.++|++||+.||.+++++++......   .++.
T Consensus         4 ~~~~~~C~~C~~~I~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~f~~~c~~c~~~---~g~~   80 (192)
T 1b8t_A            4 WGGGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMG---AGTL   80 (192)
T ss_dssp             CCCCEECTTTCCEECSSCCEEETTEEECTTTCBCTTTCCBCCSSSEEEETTEEEEHHHHHHHHSCCCCCCCCC---CCCC
T ss_pred             CCCCCcCccCCCeecceeEEEeCCceecCCCCcCcccCCcCCCCeeEecCCEeeChhhhHhhcCccccccccc---cccE
Confidence            4567899999999987889999999999999999999999999999999999999999999999987543221   2333


Q ss_pred             CCCCCCCCCC------------CCcccccccCCCCCCCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeee
Q 029070           86 KPEKPIDGEK------------PNVAKVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIA  153 (199)
Q Consensus        86 ~~~~~~~~~~------------~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~  153 (199)
                      ..+++|+...            ...+.+...+ +..++|++|+++|.+.+.|.++++.||++||+|..|+++|..+.|+.
T Consensus        81 ~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~-~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~  159 (192)
T 1b8t_A           81 STDKGESLGIKYEEGQSHRPTNPNASRMAQKV-GGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLAD  159 (192)
T ss_dssp             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCEECTTTSCEECSSSCEEETTEEECTTTCBCTTTCCBCCSSSEEE
T ss_pred             ecCCCcccccccccccccCCCCcCcccccccc-CCCCcCCCCCCEecCcEEEecCCCccchhcCCccccCCCCCCCcccc
Confidence            4444443110            0011111111 23578999999999888888999999999999999999999888999


Q ss_pred             eCCccccHhHHHhHhcCCCC
Q 029070          154 HEGRLYCKHHHNQLIKEKGN  173 (199)
Q Consensus       154 ~~g~~yC~~c~~~~~~~k~~  173 (199)
                      .+|++||..||.++|++++.
T Consensus       160 ~~g~~yC~~cy~~~f~~kc~  179 (192)
T 1b8t_A          160 KDGEIYCKGCYAKNFGPKGF  179 (192)
T ss_dssp             ETTEEEEHHHHHHHTCCCCC
T ss_pred             cCCEEeCHHHHHHhcCCcCC
Confidence            99999999999999999997

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

Probab=99.97  E-value=2.9e-32  Score=197.39  Aligned_cols=124  Identities=23%  Similarity=0.465  Sum_probs=112.8

Q ss_pred             CccccccCceeecceeEEeCCcccccccceeccCcccccC--CcccccCCcccccccHHHHhhccCCCCCCCCCCCCccC
Q 029070            9 QQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKL--GNYNSFEGVLYCRPHFDQLFKRTGSLDKSFEGTPKIAK   86 (199)
Q Consensus         9 ~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~--~~f~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~   86 (199)
                      .++|.+|+++|...+++.|+++.||++||+|..|+.+|.+  ..|+.++|++||+.||.++++                 
T Consensus         2 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~-----------------   64 (131)
T 2xjy_A            2 LLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFG-----------------   64 (131)
T ss_dssp             CCBBTTTCCBCCSSEEEEETTEEEETTTCBCTTTCCBCSSTTCCEEEETTEEECHHHHHHHHC-----------------
T ss_pred             cccCcCCCCEeCCcEEEEECCCcccHHHcccCcCCCccccCCCeEEEECCEEeecCchhhhCC-----------------
Confidence            5789999999986667999999999999999999999964  579999999999999999997                 


Q ss_pred             CCCCCCCCCCCcccccccCCCCCC--CCcCCCceEecCcc-eeecCccccccCeecccCCCCCC-CCCeeeeCCccccHh
Q 029070           87 PEKPIDGEKPNVAKVSTMFGGTRE--KCVGCKNTVYPTEK-VSVNGTPYHKSCFKCSHGGCVIS-PSNYIAHEGRLYCKH  162 (199)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~--~C~~C~~~I~~~~~-v~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~~g~~yC~~  162 (199)
                                             +  +|.+|+++|.+.+. +.+.++.||++||+|..|+++|. +..|+..++++||..
T Consensus        65 -----------------------~~~~C~~C~~~I~~~e~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~C~~  121 (131)
T 2xjy_A           65 -----------------------QDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQ  121 (131)
T ss_dssp             -----------------------CCEECTTTCCEECTTSEEEEETTEEEEGGGCBCTTTCCBCCTTCEEEEETTEEEEGG
T ss_pred             -----------------------CccChhhcCCccCccceeEeeCCceECccCcccCCCCCCCCCCCEEEEECCEEEcHH
Confidence                                   6  99999999998664 66999999999999999999995 667999999999999


Q ss_pred             HHHhHhcCCC
Q 029070          163 HHNQLIKEKG  172 (199)
Q Consensus       163 c~~~~~~~k~  172 (199)
                      ||.++|+.+|
T Consensus       122 c~~~~~~~~~  131 (131)
T 2xjy_A          122 DIYEWTKING  131 (131)
T ss_dssp             GHHHHHHHHC
T ss_pred             HHHHHhhccC
Confidence            9999998764

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

Probab=99.97  E-value=1.6e-31  Score=192.24  Aligned_cols=121  Identities=23%  Similarity=0.563  Sum_probs=112.2

Q ss_pred             CCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccCCCCCCCCCCCCccCC
Q 029070            8 TQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTGSLDKSFEGTPKIAKP   87 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~~   87 (199)
                      ..++|.+|+++|..++++.++|+.||++||+|..|+++|.+..|+.++|++||+.||.++++                  
T Consensus         2 ~~~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~------------------   63 (126)
T 2xqn_T            2 EKPRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHA------------------   63 (126)
T ss_dssp             CCCBBTTTSSBCCSSCEEEETTEEECGGGSBCTTTCCBCTTSEEEEETTEEEEHHHHHHHSC------------------
T ss_pred             cCCCCccCCCEeCCceEEeeCCCCccCCCCCcCCCCCCCCcCEEEeECCEEechHHhCcCcC------------------
Confidence            35789999999987889999999999999999999999998899999999999999999997                  


Q ss_pred             CCCCCCCCCCcccccccCCCCCCCCcCCCceEecCcc-eeecCcccc--ccCeecccCCCCCCCCCeeeeCCccccHhHH
Q 029070           88 EKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEK-VSVNGTPYH--KSCFKCSHGGCVISPSNYIAHEGRLYCKHHH  164 (199)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~-v~~~~~~~H--~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~  164 (199)
                                            ++|++|+++|.+.+. |.++++.||  ++||+|..|+++|.+..|+..+|++||..++
T Consensus        64 ----------------------~~C~~C~~~I~~~~~~~~a~~~~~H~~~~CF~C~~C~~~l~~~~f~~~~~~~yC~~~~  121 (126)
T 2xqn_T           64 ----------------------VVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVEC  121 (126)
T ss_dssp             ----------------------CBCTTTCSBCCTTSCEEEETTEEEESSTTTSBCTTTCCBCTTSEEEEETTEEESSHHH
T ss_pred             ----------------------ccCcccCCcCCcCceEEECCCCEeeCCCCCcCcCCCCCccCCCeeEeECCEEcchHHh
Confidence                                  899999999997544 779999999  9999999999999988899999999999888


Q ss_pred             HhHh
Q 029070          165 NQLI  168 (199)
Q Consensus       165 ~~~~  168 (199)
                      .++|
T Consensus       122 ~~~f  125 (126)
T 2xqn_T          122 KKRM  125 (126)
T ss_dssp             HHSC
T ss_pred             hhhc
Confidence            7765

>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=99.97  E-value=2.3e-31  Score=203.88  Aligned_cols=126  Identities=22%  Similarity=0.533  Sum_probs=112.0

Q ss_pred             CCccccccCceeecceeEEeCCcccccccceeccCcccccC--CcccccCCcccccccHHHHhhccCCCCCCCCCCCCcc
Q 029070            8 TQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKL--GNYNSFEGVLYCRPHFDQLFKRTGSLDKSFEGTPKIA   85 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~--~~f~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~   85 (199)
                      ..++|.+|+++|...+++.|+++.||++||+|..|+.+|..  ..|+.++|++||+.||.++++                
T Consensus         4 ~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~cy~~~~~----------------   67 (188)
T 1rut_X            4 SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG----------------   67 (188)
T ss_dssp             CCCBBTTTCCBCCCSEEEEETTEEECGGGCBCTTTCCBHHHHCSEEEEETTEEECHHHHHHHHS----------------
T ss_pred             CCCcCccCCCEeCCceeEEecCcEecccCcccCCCCcccccCCceEEEeCCccccccccccccc----------------
Confidence            46899999999986667899999999999999999999986  679999999999999999997                


Q ss_pred             CCCCCCCCCCCCcccccccCCCCCC--CCcCCCceEecCcc-eeecCccccccCeecccCCCCCC-CCCeeeeCCccccH
Q 029070           86 KPEKPIDGEKPNVAKVSTMFGGTRE--KCVGCKNTVYPTEK-VSVNGTPYHKSCFKCSHGGCVIS-PSNYIAHEGRLYCK  161 (199)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~--~C~~C~~~I~~~~~-v~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~~g~~yC~  161 (199)
                                              +  +|.+|+++|.+.+. +.+.++.||+.||+|..|+++|. +..|+..++++||.
T Consensus        68 ------------------------~~~~C~~C~~~I~~~e~~i~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~g~~yC~  123 (188)
T 1rut_X           68 ------------------------NSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCE  123 (188)
T ss_dssp             ------------------------CCEECTTTCCEECTTSEEEEETTEEECGGGCBCTTTCCBCCTTCEEEEETTEEEEG
T ss_pred             ------------------------cCCccccCCCccccCcEEEEcCCCEEeCCCCeECCCCCCCCCCCeEEEECCeEECH
Confidence                                    5  79999999998765 56999999999999999999996 55788999999999


Q ss_pred             hHHHhHhcCCCC
Q 029070          162 HHHNQLIKEKGN  173 (199)
Q Consensus       162 ~c~~~~~~~k~~  173 (199)
                      .||.+++++++.
T Consensus       124 ~c~~~~~~~~~~  135 (188)
T 1rut_X          124 HDRPTALINGHL  135 (188)
T ss_dssp             GGCCTTTC----
T ss_pred             HHHHHHhccccc
Confidence            999999988885

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

Probab=99.96  E-value=2.4e-29  Score=191.73  Aligned_cols=122  Identities=25%  Similarity=0.518  Sum_probs=108.1

Q ss_pred             CCCCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccCCCCCCCCCCCCcc
Q 029070            6 AGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTGSLDKSFEGTPKIA   85 (199)
Q Consensus         6 ~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~   85 (199)
                      ....++|.+|+++|...+++.++++.||+.||+|..|+++|.+..| .++|++||+.||.++|+                
T Consensus        57 ~~~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f-~~~g~~yC~~~y~~~f~----------------  119 (182)
T 2jtn_A           57 TPEIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRFG----------------  119 (182)
T ss_dssp             CCSCCBCBTSSSBCCCSEEEEETTEEECSSTTSCTTTCCCCSSCCE-EETTEEECHHHHHHTTS----------------
T ss_pred             CCCCCcCccCCCCccCceeEEecCCeEccccCccCCCCCccCCCce-eECCEeeecCccccccc----------------
Confidence            4457899999999987667899999999999999999999998765 79999999999999998                


Q ss_pred             CCCCCCCCCCCCcccccccCCCCCCCCcCCCceEecCcc-eeecCccccccCeecccCCCCCCC-CCee-eeCCccccHh
Q 029070           86 KPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEK-VSVNGTPYHKSCFKCSHGGCVISP-SNYI-AHEGRLYCKH  162 (199)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~-v~~~~~~~H~~Cf~C~~C~~~l~~-~~~~-~~~g~~yC~~  162 (199)
                                              ++|.+|+++|.+.+. +.+.++.||+.||+|..|+++|.. ..|+ ..+|++||..
T Consensus       120 ------------------------~kC~~C~~~I~~~~~v~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~yC~~  175 (182)
T 2jtn_A          120 ------------------------TKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKA  175 (182)
T ss_dssp             ------------------------CCCTTTCCCCCSSCCCCEETTEECCTTTCCCTTTCCCCCTTCEEEECTTSCEECHH
T ss_pred             ------------------------cccccCCCccCCCceEEecCCCCEEeCCCcCCCCCCCCCCCCceEEccCCEEECHH
Confidence                                    899999999998765 469999999999999999999984 4555 4589999999


Q ss_pred             HHHhHh
Q 029070          163 HHNQLI  168 (199)
Q Consensus       163 c~~~~~  168 (199)
                      ||.++.
T Consensus       176 cy~~~~  181 (182)
T 2jtn_A          176 DYETAK  181 (182)
T ss_dssp             HHHHHT
T ss_pred             HHHHhh
Confidence            998763

>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=99.96  E-value=3.3e-29  Score=188.81  Aligned_cols=122  Identities=25%  Similarity=0.532  Sum_probs=108.3

Q ss_pred             CCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccCCCCCCCCCCCCccCC
Q 029070            8 TQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTGSLDKSFEGTPKIAKP   87 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~~   87 (199)
                      +.++|.+|+++|...+++.++|+.||+.||+|..|+++|.+..| .++|++||+.||.++++                  
T Consensus         5 ~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f-~~~g~~yC~~~y~~~f~------------------   65 (169)
T 2rgt_A            5 EIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRFG------------------   65 (169)
T ss_dssp             --CBBSSSSSBCCSSSCEECSSCEECTTTSBCTTTCCBCCSCCE-ESSSCEECHHHHHHHHS------------------
T ss_pred             CCCccccCCCccCCcEEEEECCcEEccccCccCCCCCcCCCCCc-ccCCeeeeccccccccc------------------
Confidence            46899999999986667899999999999999999999998765 79999999999999998                  


Q ss_pred             CCCCCCCCCCcccccccCCCCCCCCcCCCceEecCcce-eecCccccccCeecccCCCCCC-CCCee-eeCCccccHhHH
Q 029070           88 EKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKV-SVNGTPYHKSCFKCSHGGCVIS-PSNYI-AHEGRLYCKHHH  164 (199)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v-~~~~~~~H~~Cf~C~~C~~~l~-~~~~~-~~~g~~yC~~c~  164 (199)
                                            ++|.+|+++|.+.+.+ .+.+..||+.||+|..|+++|. +..|+ ..+|++||..||
T Consensus        66 ----------------------~~C~~C~~~I~~~~~v~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~~C~~c~  123 (169)
T 2rgt_A           66 ----------------------TKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADY  123 (169)
T ss_dssp             ----------------------CBCTTTCCBCCTTSEEEEETTEEEEGGGCBCTTTCCBCCTTCEEEECTTSCEEEHHHH
T ss_pred             ----------------------ccccccccccCCCcEEEEcCCceEeeCCCcCCCCCCCCCCCCceEEccCCeEECHHHH
Confidence                                  8999999999987764 5999999999999999999998 44554 458999999999


Q ss_pred             HhHhcC
Q 029070          165 NQLIKE  170 (199)
Q Consensus       165 ~~~~~~  170 (199)
                      .+++..
T Consensus       124 ~~~~~~  129 (169)
T 2rgt_A          124 ETAKQG  129 (169)
T ss_dssp             HHHHHC
T ss_pred             HHHhhc
Confidence            998765

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

Probab=99.93  E-value=1.3e-26  Score=160.27  Aligned_cols=97  Identities=26%  Similarity=0.608  Sum_probs=89.0

Q ss_pred             CCCccccccCceeec-ceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccCCCCCCCCCCCCcc
Q 029070            7 GTQQKCMACDKTVYL-VDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTGSLDKSFEGTPKIA   85 (199)
Q Consensus         7 ~~~~~C~~C~~~I~~-~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~   85 (199)
                      ...++|.+|+++|.. +++|.++++.||+.||+|..|+++|.+..|+.++|++||+.||.++++                
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~----------------   66 (101)
T 2cup_A            3 SGSSGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDS----------------   66 (101)
T ss_dssp             SCCCBCSSSCCBCCSSSCEEEETTEEEETTTCCCSSSCCCTTSSCCEEETTEEECHHHHTTCCC----------------
T ss_pred             CCCCcCcccCCcccCCceEEEECccChhhcCCcccccCCCCCcCeeECcCCEEEChhHhhhhcC----------------
Confidence            457899999999975 678999999999999999999999998889999999999999998887                


Q ss_pred             CCCCCCCCCCCCcccccccCCCCCCCCcCCCceEecCc-ceeecCccccccCeecccCC
Q 029070           86 KPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTE-KVSVNGTPYHKSCFKCSHGG  143 (199)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~-~v~~~~~~~H~~Cf~C~~C~  143 (199)
                                              ++|.+|+++|.+++ .|.++++.||++||+|..|+
T Consensus        67 ------------------------~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~  101 (101)
T 2cup_A           67 ------------------------PKCKGCFKAIVAGDQNVEYKGTVWHKDCFSGPSSG  101 (101)
T ss_dssp             ------------------------CBCSSSCCBCCSSSCEEESSSCEEETTTCCCTTCC
T ss_pred             ------------------------CccccCCCccccCCeEEEeCCcchHHhCCCCCCCC
Confidence                                    89999999999765 47799999999999999985

>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=99.91  E-value=2e-25  Score=159.46  Aligned_cols=114  Identities=18%  Similarity=0.308  Sum_probs=99.7

Q ss_pred             CCCccccccCceeecceeEEeCCcccccccceeccCcccccC--CcccccCCcccccccHHHHhhccCCCCCCCCCCCCc
Q 029070            7 GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKL--GNYNSFEGVLYCRPHFDQLFKRTGSLDKSFEGTPKI   84 (199)
Q Consensus         7 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~--~~f~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~   84 (199)
                      ...++|.+|+++|...+++.++++.||+.||+|..|+.+|.+  ..|+.++|++||+.||.++|+               
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~cy~~~f~---------------   67 (122)
T 1m3v_A            3 LSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG---------------   67 (122)
T ss_dssp             SCCCCBSSSSSCCCSSCCEEETTEEECHHHHCCSSSCCCTTTSEECCEEETTEEECHHHHHHHHC---------------
T ss_pred             CCCCCCcccCCEeCCcEEEEECCceeHhhCCCcCCCCCcccccCCeEEEECCeeecHHHHHHHcC---------------
Confidence            347899999999987667999999999999999999999973  579999999999999999998               


Q ss_pred             cCCCCCCCCCCCCcccccccCCCCCC--CCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeeeeCCccccHh
Q 029070           85 AKPEKPIDGEKPNVAKVSTMFGGTRE--KCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKH  162 (199)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~--~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~  162 (199)
                                               +  +|++|+++|.+.+ +++.++             .+|.++.|+.++++|||..
T Consensus        68 -------------------------~~~~C~~C~~~I~~~~-~~~~g~-------------~~l~g~~f~~~~~~~yC~~  108 (122)
T 1m3v_A           68 -------------------------NSGAGGSGGHMGSGGD-VMVVGE-------------PTLMGGEFGDEDERLITRL  108 (122)
T ss_dssp             -------------------------CCCSSSCSSCCSCCEE-SSSSSS-------------SSCCSCTTCCTTCCCCEEC
T ss_pred             -------------------------CCCccccCCCCcCchh-eEEcCC-------------cCCCCCccEecCCEeEccC
Confidence                                     6  9999999998755 555542             3577889999999999999


Q ss_pred             HHHhHhcCCCCC
Q 029070          163 HHNQLIKEKGNL  174 (199)
Q Consensus       163 c~~~~~~~k~~~  174 (199)
                      |+.+++.++++-
T Consensus       109 ~~~~~~~~~g~~  120 (122)
T 1m3v_A          109 ENTQFDAANGID  120 (122)
T ss_dssp             TTTTTTCCSCCC
T ss_pred             cchhchhhcCCC
Confidence            999999888863

>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=99.87  E-value=1.1e-22  Score=143.45  Aligned_cols=110  Identities=19%  Similarity=0.253  Sum_probs=91.3

Q ss_pred             CCCccccccCceeecceeEEeCCcccccccceeccCcccccC--CcccccCCcccccccHHHHhhccCCCCCCCCCCCCc
Q 029070            7 GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKL--GNYNSFEGVLYCRPHFDQLFKRTGSLDKSFEGTPKI   84 (199)
Q Consensus         7 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~--~~f~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~   84 (199)
                      ++.++|.+|+++|...+++.++++.||+.||+|..|+++|.+  ..|+.++|++||+.||.++|+               
T Consensus         1 g~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~~y~~~f~---------------   65 (114)
T 1j2o_A            1 GSLLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGG---------------   65 (114)
T ss_dssp             CCCBCBSSSCSCBCSSEEEECSSSEECTTTCCCSSSCSCCCCSSSCCCCBTTBCCCHHHHHHHHT---------------
T ss_pred             CcCCCCcCCCCeeCCcEEEEECchhHHHhcCcccccCCchhcCCCeeEEECCeeechHHHHHHhC---------------
Confidence            357899999999986668999999999999999999999985  579999999999999999998               


Q ss_pred             cCCCCCCCCCCCCcccccccCCCCCCCCcCCCceEecCcceeecCccccccCeecccCCCC-CCCCCeeeeCCccccHhH
Q 029070           85 AKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCV-ISPSNYIAHEGRLYCKHH  163 (199)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~-l~~~~~~~~~g~~yC~~c  163 (199)
                                               ++|..|..    .+ ++.              |+.+ |.++.|+..++++||..|
T Consensus        66 -------------------------~~c~~c~~----~~-~~~--------------~~~~~~~g~~f~~~~~~~~C~~~  101 (114)
T 1j2o_A           66 -------------------------SGGHMGSG----GD-VMV--------------VGEPTLMGGEFGDEDERLITRLE  101 (114)
T ss_dssp             -------------------------SCCSSCBS----CS-CCC--------------SSCSSTTSSBCCCSSSCCCEEEE
T ss_pred             -------------------------cccCcCCC----Cc-eeE--------------cCCccCCCCeeEEcCCEeecchh
Confidence                                     77776652    11 111              2344 567789999999999999


Q ss_pred             HHhHhcCCCCCC
Q 029070          164 HNQLIKEKGNLS  175 (199)
Q Consensus       164 ~~~~~~~k~~~~  175 (199)
                      +.++..++++.+
T Consensus       102 ~~~~~~~~g~~~  113 (114)
T 1j2o_A          102 NTQFDAANGIDD  113 (114)
T ss_dssp             CTTCCCTTSSCC
T ss_pred             hhccccccCCCC
Confidence            999988887654

>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=99.79  E-value=4.3e-20  Score=122.57  Aligned_cols=80  Identities=23%  Similarity=0.426  Sum_probs=73.2

Q ss_pred             CCcccccccHHHHhhccCCCCCCCCCCCCccCCCCCCCCCCCCcccccccCCCCCCCCcCCCceEecCcc-eeecCcccc
Q 029070           55 EGVLYCRPHFDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEK-VSVNGTPYH  133 (199)
Q Consensus        55 ~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~-v~~~~~~~H  133 (199)
                      ++.+||++||.++++                                        ++|++|+++|.+.+. |.+.++.||
T Consensus         1 ~~~~yC~~cy~~~~~----------------------------------------~~C~~C~~~I~~~~~~~~a~~~~~H   40 (82)
T 1x63_A            1 GSSGSSGKCTTREDS----------------------------------------PKCKGCFKAIVAGDQNVEYKGTVWH   40 (82)
T ss_dssp             CCSCCCCCCCSCCCS----------------------------------------CBCSSSCCBCCSSSCEEECSSCEEE
T ss_pred             CCCcCchhHHccccC----------------------------------------CcCccCCcccccCceEEEECccccc
Confidence            468999999988776                                        899999999997765 779999999


Q ss_pred             ccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCCC
Q 029070          134 KSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNL  174 (199)
Q Consensus       134 ~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~~  174 (199)
                      ++||+|..|+++|..+.|+..++++||..||.++|+++++.
T Consensus        41 ~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~~~~   81 (82)
T 1x63_A           41 KDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKFASGPSS   81 (82)
T ss_dssp             TTTCCCSSSCCCCTTSCEEEETTEEEEHHHHHHHTSCCCSC
T ss_pred             cccCchhhCCCccCCCccEeeCCEEECHHHHHHHhCCCCCC
Confidence            99999999999999888999999999999999999999864

>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=99.79  E-value=4.3e-20  Score=122.02  Aligned_cols=78  Identities=23%  Similarity=0.445  Sum_probs=72.0

Q ss_pred             CCcccccccHHHHhhccCCCCCCCCCCCCccCCCCCCCCCCCCcccccccCCCCCCCCcCCCceEecCcceeecCccccc
Q 029070           55 EGVLYCRPHFDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHK  134 (199)
Q Consensus        55 ~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~~~~~H~  134 (199)
                      +|++||+.||.++++                                        ++|++|+++|.+ +.|.++++.||+
T Consensus         1 gg~~yC~~~y~~~~~----------------------------------------~~C~~C~~~I~~-~~v~a~~~~~H~   39 (80)
T 1x3h_A            1 GSSGSSGKDFLAMFS----------------------------------------PKCGGCNRPVLE-NYLSAMDTVWHP   39 (80)
T ss_dssp             CCCCCCCCCCCCCCS----------------------------------------CBCTTTCCBCCS-SCEEETTEEECT
T ss_pred             CCCccchhHHhhhcC----------------------------------------CccccCCCeecc-eeEEECCCeEec
Confidence            478999999988776                                        899999999986 558899999999


Q ss_pred             cCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCC
Q 029070          135 SCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGN  173 (199)
Q Consensus       135 ~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~  173 (199)
                      .||+|..|+++|..+.|+..++++||+.||.++|++++.
T Consensus        40 ~CF~C~~C~~~L~~~~~~~~~~~~yC~~~y~~~f~~~C~   78 (80)
T 1x3h_A           40 ECFVCGDCFTSFSTGSFFELDGRPFCELHYHHRRGSGPS   78 (80)
T ss_dssp             TTCBCSSSCCBSCSSCCEESSSCEECHHHHHHHHSSSCC
T ss_pred             CcCChhhCCCCCCCCcEEeECCEEECHHHHHHHcCCCCC
Confidence            999999999999988899999999999999999999984

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

Probab=99.78  E-value=7.1e-20  Score=120.98  Aligned_cols=78  Identities=17%  Similarity=0.462  Sum_probs=72.0

Q ss_pred             CCcccccccHHHHhhccCCCCCCCCCCCCccCCCCCCCCCCCCcccccccCCCCCCCCcCCCceEecCcceeecCccccc
Q 029070           55 EGVLYCRPHFDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHK  134 (199)
Q Consensus        55 ~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~~~~~H~  134 (199)
                      +|++||+.||.++++                                        ++|++|+++|.+. .|.++++.||+
T Consensus         1 gg~~yC~~cy~~~~~----------------------------------------~~C~~C~~~I~~~-~v~a~~~~~H~   39 (80)
T 2cuq_A            1 GSSGSSGPCYENKFA----------------------------------------PRCARCSKTLTQG-GVTYRDQPWHR   39 (80)
T ss_dssp             CCCCSCCCCCCCCSS----------------------------------------CCCTTTCCCCCSC-CEESSSSEECT
T ss_pred             CCcEEcHHHHccccC----------------------------------------CcCCCCCCEecCc-EEEECCchhhh
Confidence            588999999988776                                        8999999999864 58899999999


Q ss_pred             cCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCC
Q 029070          135 SCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGN  173 (199)
Q Consensus       135 ~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~  173 (199)
                      +||+|..|+++|.+..|+..++++||..||.++|++++.
T Consensus        40 ~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~   78 (80)
T 2cuq_A           40 ECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELFASGPS   78 (80)
T ss_dssp             TTCBCSSSCCBCTTCCEEECSSSEEEHHHHHHHTTCSTT
T ss_pred             hhCCcccCCCcCCCCeeEeECCEEECHHHHHHHcCCCCC
Confidence            999999999999988899999999999999999999985

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

Probab=99.78  E-value=2.7e-20  Score=123.63  Aligned_cols=79  Identities=14%  Similarity=0.410  Sum_probs=71.9

Q ss_pred             CCcccccccHHHHhhccCCCCCCCCCCCCccCCCCCCCCCCCCcccccccCCCCCCCCcCCCceEecC-cceeecCcccc
Q 029070           55 EGVLYCRPHFDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPT-EKVSVNGTPYH  133 (199)
Q Consensus        55 ~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~-~~v~~~~~~~H  133 (199)
                      +|++||+.||.++++                                        ++|++|+++|.+. ..+.++++.||
T Consensus         1 ~g~~yC~~~y~~~~~----------------------------------------~~C~~C~~~I~~~~~~~~a~~~~~H   40 (82)
T 2ehe_A            1 GSSGSSGPCYDNTFA----------------------------------------NTCAECQQLIGHDSRELFYEDRHFH   40 (82)
T ss_dssp             CCCCCCCCCCCCCCS----------------------------------------CBCTTTCCBCCSSCCBCCCSSCCCB
T ss_pred             CCceechhHhCcccC----------------------------------------CcCccCCCccccCcEEEEeCCcccc
Confidence            589999999988887                                        8999999999954 44668999999


Q ss_pred             ccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCC
Q 029070          134 KSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGN  173 (199)
Q Consensus       134 ~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~  173 (199)
                      +.||+|..|+++|.+..|+..++++||..||.++|++++.
T Consensus        41 ~~CF~C~~C~~~L~~~~f~~~~~~~~C~~c~~~~~~~~C~   80 (82)
T 2ehe_A           41 EGCFRCCRCQRSLADEPFTCQDSELLCNDCYCSAFSSGPS   80 (82)
T ss_dssp             TTTSBCTTTCCBCSSCCEEEETTEEEETTTSSCCGGGSSC
T ss_pred             ccCCeecCCCCccCCCccEeeCCEEECHHHHhhhcCCCCC
Confidence            9999999999999988899999999999999999999885

>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=99.76  E-value=1.7e-19  Score=119.50  Aligned_cols=66  Identities=27%  Similarity=0.690  Sum_probs=58.1

Q ss_pred             ccCCCCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhh
Q 029070            4 AFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFK   69 (199)
Q Consensus         4 ~~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~   69 (199)
                      ++.+..++|..|+++|..++.+.++++.||++||+|..|+++|.+..|+.+++++||+.||.++++
T Consensus         2 ~~~~~~~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~   67 (81)
T 1a7i_A            2 PNWGGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYG   67 (81)
T ss_dssp             ------CBCSSSCCBCSSTTEEEETTEEEESSSEECSSSCCEECSSCCEEETTEEECSHHHHHHCC
T ss_pred             CCCCCCCcCcCcCccccCceeEEeCCcccccccCccCCCCCCCCCCCeEeeCCEEECHHHHHHHhC
Confidence            456778999999999987889999999999999999999999998899999999999999999998

>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=99.75  E-value=4.2e-19  Score=117.55  Aligned_cols=63  Identities=17%  Similarity=0.450  Sum_probs=57.4

Q ss_pred             CCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeeee-CCccccHhHHHhHhcCCCC
Q 029070          110 EKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAH-EGRLYCKHHHNQLIKEKGN  173 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~-~g~~yC~~c~~~~~~~k~~  173 (199)
                      ++|++|+++|.+ +.|.++++.||++||+|..|+++|.+..|+.. +|++||..||.++|++++.
T Consensus        16 ~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~g~~yC~~cy~~~f~~~C~   79 (81)
T 2dlo_A           16 EKCATCSQPILD-RILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFASGPS   79 (81)
T ss_dssp             CBCTTTCCBCCS-CCEEETTEEECTTTCBCSSSCCBCTTSCEECCTTCCCEEHHHHHHHTTSSSC
T ss_pred             CccccCCCeecc-eeEEECCccccHHhcCcccCCCccCCCeeEECCCCEEECHHHHHHHhcCcCC
Confidence            899999999985 45889999999999999999999998777766 7999999999999999984

>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=99.75  E-value=1.1e-18  Score=114.09  Aligned_cols=70  Identities=33%  Similarity=0.754  Sum_probs=64.4

Q ss_pred             cccCCCCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCccccc-ccHHHHhhccC
Q 029070            3 AAFAGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCR-PHFDQLFKRTG   72 (199)
Q Consensus         3 ~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~-~c~~~~~~~~~   72 (199)
                      ++|++..++|.+|+++|..++.|.++++.||+.||+|..|+++|.+..|+.+++++||+ .||.++|++++
T Consensus         3 ~~~~~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~~kc   73 (76)
T 2cu8_A            3 SGSSGMASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFGSGP   73 (76)
T ss_dssp             CSCCCCCCBCTTTCCBCCTTTEEEETTEEEETTTCBCSSSCCBCCTTSCEEETTEEECTTTHHHHHSCSSC
T ss_pred             cccCCCCCCCcCCCCEeECCeEEEECCeEeeCCCCCCCCCCCccCCCceEeECCEEecchHHHHHhccccc
Confidence            56777899999999999878999999999999999999999999988899999999999 79999998443

>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=99.74  E-value=8.9e-19  Score=114.56  Aligned_cols=60  Identities=35%  Similarity=0.871  Sum_probs=57.2

Q ss_pred             ccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCccccc-ccHHHHhh
Q 029070           10 QKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCR-PHFDQLFK   69 (199)
Q Consensus        10 ~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~-~c~~~~~~   69 (199)
                      ++|.+|+++|..++.|.++++.||+.||+|..|+++|.+..|+.++|++||. .||.++++
T Consensus         1 p~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~   61 (76)
T 1iml_A            1 PKCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFG   61 (76)
T ss_dssp             CBCTTTSSBCCGGGEEEETTEEEETTTCBCTTTCCBCCTTTEEEETTEEEETTTHHHHHSS
T ss_pred             CcCCCCCCEEECceEEEECCccccCCCCCccccCccCCCCceECcCCeEeeCHHHHHHHhC
Confidence            5799999999878999999999999999999999999998999999999999 69999998

>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=99.73  E-value=6.9e-19  Score=115.35  Aligned_cols=73  Identities=22%  Similarity=0.587  Sum_probs=65.9

Q ss_pred             CCcccccccHHHHhhccCCCCCCCCCCCCccCCCCCCCCCCCCcccccccCCCCCCCCcCCCceEec----CcceeecCc
Q 029070           55 EGVLYCRPHFDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYP----TEKVSVNGT  130 (199)
Q Consensus        55 ~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~----~~~v~~~~~  130 (199)
                      ++++||++||.++++                                        ++|++|+++|.+    .+.+.++++
T Consensus         1 g~~~yC~~cy~~~~~----------------------------------------~~C~~C~~~I~~~g~~~~~~~a~~~   40 (77)
T 2egq_A            1 GSSGSSGDCYKNFVA----------------------------------------KKCAGCKNPITGFGKGSSVVAYEGQ   40 (77)
T ss_dssp             CCSSCCTTCCCSCCC----------------------------------------CCCSSSCCCCCCCSSCCCEEEETTE
T ss_pred             CCCeEchhHhchhhC----------------------------------------ccCcccCCcccCCCCCceeEEECcc
Confidence            478999999988886                                        899999999995    355789999


Q ss_pred             cccccCeecccCCCCCCCCCeeeeCCccccHhHHHhH
Q 029070          131 PYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQL  167 (199)
Q Consensus       131 ~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~  167 (199)
                      .||+.||+|..|+++|.+..|+..++++||..||.++
T Consensus        41 ~~H~~CF~C~~C~~~L~~~~f~~~~~~~yC~~cy~~l   77 (77)
T 2egq_A           41 SWHDYCFHCKKCSVNLANKRFVFHQEQVYCPDCAKKL   77 (77)
T ss_dssp             EEETTTCBCSSSCCBCTTSCCCEETTEECCHHHHHHC
T ss_pred             eeCcccCEehhcCCCCCCCccEeECCEEEChHHhccC
Confidence            9999999999999999988899999999999999763

>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=99.72  E-value=7e-18  Score=114.09  Aligned_cols=74  Identities=43%  Similarity=1.055  Sum_probs=67.7

Q ss_pred             CCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccCCCCCCCCCC
Q 029070            8 TQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTGSLDKSFEGT   81 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~   81 (199)
                      ..++|..|+++|...+.|.++++.||+.||+|..|+++|.+..|+.+++++||+.||.+++++++++++.+...
T Consensus        14 ~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~kc~~~~g~g~~   87 (91)
T 2d8y_A           14 ARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNYDEGFGSG   87 (91)
T ss_dssp             SSCBCTTTCCBCCTTSEEECSSSEEETTTCBCTTTCCBCCTTTCCCSSSCCCCHHHHHHHSCCCSCCCSCCCCC
T ss_pred             CCCcCccCCCccCCceeEEECCCEECCCCCeeCCCCCCCCCCCcEeECCEEECHHHHHHHhCCCcCccCCcCCC
Confidence            46799999999987789999999999999999999999998889999999999999999999998877776543

>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=99.72  E-value=1.1e-17  Score=113.04  Aligned_cols=75  Identities=44%  Similarity=0.808  Sum_probs=69.8

Q ss_pred             CCCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCCCCCcCCcccc
Q 029070          109 REKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEGEHEK  183 (199)
Q Consensus       109 ~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~~~~~~~~~~~  183 (199)
                      ..+|..|+++|.+.+.|.++++.||+.||+|..|+++|....|+..++++||..||.++|++++.++++++....
T Consensus        15 ~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~kc~~~~g~g~~~~   89 (91)
T 2d8y_A           15 RETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNYDEGFGSGPS   89 (91)
T ss_dssp             SCBCTTTCCBCCTTSEEECSSSEEETTTCBCTTTCCBCCTTTCCCSSSCCCCHHHHHHHSCCCSCCCSCCCCCCC
T ss_pred             CCcCccCCCccCCceeEEECCCEECCCCCeeCCCCCCCCCCCcEeECCEEECHHHHHHHhCCCcCccCCcCCCCC
Confidence            489999999999888888999999999999999999999878999999999999999999999999999887644

>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=99.72  E-value=2.3e-18  Score=113.92  Aligned_cols=77  Identities=22%  Similarity=0.438  Sum_probs=67.9

Q ss_pred             CCcccccccHHHHhhccCCCCCCCCCCCCccCCCCCCCCCCCCcccccccCCCCCCCCcCCCceEecCcceeecCccccc
Q 029070           55 EGVLYCRPHFDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHK  134 (199)
Q Consensus        55 ~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~~~~~H~  134 (199)
                      ++.+||+.||.++++                                        ++|++|+++|. .+.|.++++.||+
T Consensus         1 g~~~yC~~~y~~~~~----------------------------------------~~C~~C~~~I~-~~~~~a~~~~~H~   39 (81)
T 1x6a_A            1 GSSGSSGKDYWGKFG----------------------------------------EFCHGCSLLMT-GPFMVAGEFKYHP   39 (81)
T ss_dssp             CCCCCCCCCSSCCSS----------------------------------------CBCTTTCCBCC-SCCBCCTTCCBCT
T ss_pred             CCCccchhHHhhhcC----------------------------------------CcCccCCCCcC-ceEEEECCceecc
Confidence            367999999988887                                        89999999999 5557899999999


Q ss_pred             cCeecccCCCCCCC-CCee-eeCCccccHhHHHhHhcCCC
Q 029070          135 SCFKCSHGGCVISP-SNYI-AHEGRLYCKHHHNQLIKEKG  172 (199)
Q Consensus       135 ~Cf~C~~C~~~l~~-~~~~-~~~g~~yC~~c~~~~~~~k~  172 (199)
                      +||+|..|+++|.. ..|. ..++++||..||.++|+++.
T Consensus        40 ~CF~C~~C~~~L~~g~~f~~~~~~~~~C~~c~~~~~~~~~   79 (81)
T 1x6a_A           40 ECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVVSGPS   79 (81)
T ss_dssp             TSCBCTTTCCBCCTTSCEEECSSSCEEEHHHHHHHHCTTS
T ss_pred             ccCCccCCCCccCCCCcEEEeeCCEEECHHHHHHHhcCCC
Confidence            99999999999974 5666 48999999999999998765

>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=99.71  E-value=6.5e-18  Score=111.55  Aligned_cols=65  Identities=26%  Similarity=0.599  Sum_probs=59.5

Q ss_pred             CCCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccC
Q 029070            7 GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTG   72 (199)
Q Consensus         7 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~   72 (199)
                      ...++|.+|+++|..+++|.++++.||++||+|..|+++|.+ .|+.+++++||+.||.++|++++
T Consensus        13 ~~~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~-~~~~~~g~~yC~~~y~~~fg~~C   77 (80)
T 2dj7_A           13 RGPSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTG-EYISKDGVPYCESDYHAQFGSGP   77 (80)
T ss_dssp             SSCSCCTTTCCCCSSSCCEEETTEEECTTTCBCSSSCCBCSS-CCEEETTEEECTTHHHHHTTCCS
T ss_pred             CCCCCCcCcCCeeCCCeEEEECCcccccccCCcCcCCCCcCC-CeEEECCEEECHHHHHHHcCCCC
Confidence            457899999999987899999999999999999999999985 69999999999999999998544

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

Probab=99.70  E-value=1.2e-17  Score=107.07  Aligned_cols=63  Identities=21%  Similarity=0.578  Sum_probs=58.5

Q ss_pred             CCCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhc
Q 029070            7 GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKR   70 (199)
Q Consensus         7 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~   70 (199)
                      ...++|.+|+++|. ++.|.++++.||++||+|..|+++|.+..|+.+++++||+.||.+++++
T Consensus         3 ~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~   65 (69)
T 2cur_A            3 SGSSGCVKCNKAIT-SGGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFVSG   65 (69)
T ss_dssp             CCCCCCSSSCCCCC-TTCEEETTEEECTTTTBCTTTCCBCTTSCEEECSSCEEEHHHHHHHHTC
T ss_pred             CCcCCCcccCCEeC-cceEEECccccccCcCEECCCCCCCCCCccEeECCEEECHHHhHHHhcC
Confidence            35789999999996 6789999999999999999999999988999999999999999999983

>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=99.69  E-value=8.1e-18  Score=106.96  Aligned_cols=62  Identities=24%  Similarity=0.507  Sum_probs=58.2

Q ss_pred             CCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhc
Q 029070            8 TQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKR   70 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~   70 (199)
                      ..++|.+|+++|. +++|.++++.||++||+|..|+++|.+..|+.++|++||+.||.++|++
T Consensus         4 ~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~   65 (66)
T 1nyp_A            4 GVPICGACRRPIE-GRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLFGD   65 (66)
T ss_dssp             CCCEETTTTEECC-SCEECCTTSBEETTTCBCTTTCCBCSSSCCEEETTEEECHHHHHHHCSC
T ss_pred             CCCCCcccCCEec-ceEEEECccccccCcCEECCCCCCCCCCceEeECCcEECHHHHHHHhCC
Confidence            3678999999997 8899999999999999999999999988999999999999999999874

>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=99.69  E-value=2e-17  Score=106.31  Aligned_cols=64  Identities=23%  Similarity=0.579  Sum_probs=58.9

Q ss_pred             CCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccC
Q 029070            8 TQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTG   72 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~   72 (199)
                      ..++|..|+++|. ++.|.++++.||++||+|..|+++|.+..|+.+++++||+.||.+++++++
T Consensus         4 ~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c   67 (70)
T 2d8z_A            4 GSSGCVQCKKPIT-TGGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLYASGP   67 (70)
T ss_dssp             CCCBCSSSCCBCC-SSEEESSSSEEETTTSBCSSSCCBCTTSCCEESSSSEECHHHHHHHTCCCC
T ss_pred             CCCCCcccCCeec-cceEEECccccCCCCCccCCCCCcCCcCceEeeCCeEECHHHHHHHhcccc
Confidence            4689999999996 678999999999999999999999998899999999999999999998443

>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=99.68  E-value=2.1e-17  Score=106.27  Aligned_cols=64  Identities=23%  Similarity=0.481  Sum_probs=59.5

Q ss_pred             CCCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhcc
Q 029070            7 GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRT   71 (199)
Q Consensus         7 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~   71 (199)
                      ++.++|..|+++|. +++|.++++.||++||+|..|+++|.+..|+.+++++||+.||.+++++.
T Consensus         3 ~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~   66 (70)
T 2d8x_A            3 SGSSGCHQCGEFII-GRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNREKASG   66 (70)
T ss_dssp             CCSSBCSSSCCBCC-SCCEEETTEEECTTTSBCSSSCCBCSSSCCEEETTEEECHHHHHHHHCCC
T ss_pred             CCCCcCccCCCEec-ceEEEECcccccccCCEeCCCCCcCCCCccEeECCeEECHHHhhhhcCCC
Confidence            55789999999996 78899999999999999999999999999999999999999999999843

>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=99.68  E-value=3e-17  Score=110.73  Aligned_cols=65  Identities=25%  Similarity=0.557  Sum_probs=60.0

Q ss_pred             CCCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccC
Q 029070            7 GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTG   72 (199)
Q Consensus         7 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~   72 (199)
                      ...++|.+|+++|. +++|.++++.||++||+|..|+++|.+..|+.+++++||+.||.++|++++
T Consensus        23 ~~~~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~c   87 (90)
T 2dar_A           23 KRTPMCAHCNQVIR-GPFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFFASGP   87 (90)
T ss_dssp             TCCCBBSSSCCBCC-SCEEEETTEEECTTTCBCSSSCCBCSSSCBEESSSCEECHHHHHHHTSCCC
T ss_pred             CCCCCCccCCCEec-ceEEEECCccccccCCccCCCCCCCCCCEeEeECCEEECHHHHHHHcCCCC
Confidence            34789999999994 889999999999999999999999998899999999999999999999554

>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=99.68  E-value=4.4e-17  Score=106.44  Aligned_cols=69  Identities=32%  Similarity=0.618  Sum_probs=63.0

Q ss_pred             CCCCCCCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeeeeCCccccH-hHHHhHhcCCCC
Q 029070          105 FGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCK-HHHNQLIKEKGN  173 (199)
Q Consensus       105 ~~~~~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~-~c~~~~~~~k~~  173 (199)
                      +.+..++|++|+++|.+.+.|.++++.||++||+|..|+++|.+..|+..++++||. .||.++|++++.
T Consensus         5 ~~~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~~kc~   74 (76)
T 2cu8_A            5 SSGMASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLFGSGPS   74 (76)
T ss_dssp             CCCCCCBCTTTCCBCCTTTEEEETTEEEETTTCBCSSSCCBCCTTSCEEETTEEECTTTHHHHHSCSSCS
T ss_pred             cCCCCCCCcCCCCEeECCeEEEECCeEeeCCCCCCCCCCCccCCCceEeECCEEecchHHHHHhcccccC
Confidence            334458999999999988888899999999999999999999988899999999999 799999999984

>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=99.68  E-value=1.1e-17  Score=109.29  Aligned_cols=62  Identities=18%  Similarity=0.439  Sum_probs=57.3

Q ss_pred             CCccccccCceeec---ceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhh
Q 029070            8 TQQKCMACDKTVYL---VDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFK   69 (199)
Q Consensus         8 ~~~~C~~C~~~I~~---~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~   69 (199)
                      ..++|.+|+++|..   .++|.++++.||++||+|..|+++|.+..|+.+++++||+.||.++++
T Consensus         4 ~~~~C~~C~~~I~~~g~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~   68 (76)
T 1x68_A            4 GSSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCGSGMDT   68 (76)
T ss_dssp             CCCCCTTTCCCCCTTTTCCEEEETTEEEEGGGCBCTTTCCBCSSSCEEEETTEEEETTTTCCCCC
T ss_pred             cCCCCccCCCcccCCCCceeEEECCcccCcccCChhhCCCcCCCCceEeECCEEECHHHhhhhhC
Confidence            36899999999973   378999999999999999999999998889999999999999998887

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

Probab=99.68  E-value=2.9e-17  Score=106.12  Aligned_cols=65  Identities=28%  Similarity=0.602  Sum_probs=59.6

Q ss_pred             CCccccccCceeecc-eeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccC
Q 029070            8 TQQKCMACDKTVYLV-DKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTG   72 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~-~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~   72 (199)
                      ..++|.+|+++|..+ +++.++++.||++||+|..|+++|.+..|+.+++++||+.||.+++++++
T Consensus         4 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C   69 (72)
T 1wyh_A            4 GSSGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFASGP   69 (72)
T ss_dssp             CCCBCSSSCCBCCSSSCEECSTTCCEETTTCBCTTTCCBTTTSCEEEETTEEEEHHHHHHHTSCCC
T ss_pred             cCCCCccCCCccccCccEEEECccccCcccCeECCCCCcCCCCccCCcCCeEECHHHHHHHccCcC
Confidence            467999999999874 78999999999999999999999999899999999999999999998544

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

Probab=99.68  E-value=1.9e-17  Score=108.38  Aligned_cols=68  Identities=26%  Similarity=0.591  Sum_probs=60.0

Q ss_pred             cCCCCccccccCceeecce-eEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccC
Q 029070            5 FAGTQQKCMACDKTVYLVD-KLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTG   72 (199)
Q Consensus         5 ~~~~~~~C~~C~~~I~~~~-~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~   72 (199)
                      .....++|.+|+++|...+ ++.++|+.||+.||+|..|+++|.++.|+.++|++||+.||.+++++++
T Consensus         7 ~~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~~C   75 (77)
T 1g47_A            7 NALASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAPCW   75 (77)
T ss_dssp             SCCCCCBCSSSCCBCCSTTTCEEETTEEECTTTCCCTTTCCCCGGGCSEEETTEEECHHHHHHHCCCC-
T ss_pred             cCCCCCCchhcCCccCCCceEEEeCccEeccccCeECCCCCCCCCCCeEeECCeEeCHHHHHHHhhccc
Confidence            3455789999999998544 6789999999999999999999999899999999999999999998443

>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=99.67  E-value=2e-17  Score=106.98  Aligned_cols=64  Identities=16%  Similarity=0.402  Sum_probs=58.4

Q ss_pred             CCCccccccCceeec---ceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhc
Q 029070            7 GTQQKCMACDKTVYL---VDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKR   70 (199)
Q Consensus         7 ~~~~~C~~C~~~I~~---~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~   70 (199)
                      ...++|.+|+++|..   .++|.++++.||++||+|..|+++|.+..|+.+++++||..||.++++|
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~p   69 (72)
T 1x4l_A            3 SGSSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGKDISGP   69 (72)
T ss_dssp             SCSCSBTTTTBCCCCSSSCSCEECSSCEECTTTCBCSSSCCBCTTSCCEECSSSEECHHHHHTCCCS
T ss_pred             CCCCCCcCCCccccCCCCcceEEECCcccCcccCEeccCCCcCCCCccEeECCEEEChhHcCcccCC
Confidence            457899999999974   3689999999999999999999999988899999999999999998874

>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=99.67  E-value=3.7e-17  Score=105.61  Aligned_cols=65  Identities=20%  Similarity=0.552  Sum_probs=59.4

Q ss_pred             CCccccccCceeecc-eeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccC
Q 029070            8 TQQKCMACDKTVYLV-DKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTG   72 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~-~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~   72 (199)
                      ..++|..|+++|..+ .+|.++++.||++||+|..|+++|.+..|+.+++++||+.||.+++++++
T Consensus         4 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C   69 (72)
T 1x4k_A            4 GSSGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQHASGP   69 (72)
T ss_dssp             CCCCBSSSCCCCCSSSCEEEETTEEEETTTTCCSSSCCCCCSSSEEEETTEEEEHHHHHHHTSSCC
T ss_pred             cCCCCccCCCcccCCceEEEECcCeecccCCcccccCCccCCCccCccCCeEECHHHHhHHhCCCC
Confidence            367999999999875 48999999999999999999999999999999999999999999998543

>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=99.67  E-value=2e-17  Score=108.90  Aligned_cols=65  Identities=20%  Similarity=0.388  Sum_probs=59.6

Q ss_pred             CCCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccC
Q 029070            7 GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTG   72 (199)
Q Consensus         7 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~   72 (199)
                      ...++|.+|+++|. +++|.++++.||+.||+|..|+++|.+..|+.+++++||+.||.+++++++
T Consensus        13 ~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~p~g   77 (79)
T 1x62_A           13 QKLPMCDKCGTGIV-GVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEKHARERVSGPS   77 (79)
T ss_dssp             CCCCCCSSSCCCCC-SSCEECSSCEECTTTTSCSSSCCCHHHHCCEESSSCEECHHHHHHHHSSCC
T ss_pred             CCCCccccCCCCcc-CcEEEECcceeCcCcCeeCCCCCCCCCCCeEeECCEEECHHHHHHHhCCCC
Confidence            34689999999997 578999999999999999999999998889999999999999999998654

>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=99.65  E-value=8.1e-17  Score=108.36  Aligned_cols=64  Identities=27%  Similarity=0.506  Sum_probs=58.9

Q ss_pred             CCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccC
Q 029070            8 TQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTG   72 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~   72 (199)
                      ..++|..|++.|. +++|.++++.||++||+|..|+++|.+..|+.+++++||+.||.++|++++
T Consensus        24 ~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~p~~   87 (89)
T 1x64_A           24 RMPLCDKCGSGIV-GAVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETHARARTSGPS   87 (89)
T ss_dssp             SCCBCTTTCCBCC-SCCEESSSCEECTTTCCCSSSCCCTTTSCCEEETTEEECHHHHHHHSSSCC
T ss_pred             cCCCcccCCCEec-ccEEEECCceECccCCEecCCCCCCCCCCeEeECCEEECHHHHHHHhCCCC
Confidence            4578999999997 688999999999999999999999998899999999999999999998544

>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=99.64  E-value=9.1e-17  Score=106.20  Aligned_cols=70  Identities=29%  Similarity=0.573  Sum_probs=57.5

Q ss_pred             CCCCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCC-CCCc
Q 029070          108 TREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGN-LSQL  177 (199)
Q Consensus       108 ~~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~-~~~~  177 (199)
                      ..++|..|+++|.+.+.|.+.++.||++||+|..|+++|....|+..++++||..||.++|++++. ..++
T Consensus         6 ~~~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~gcg~g   76 (81)
T 1a7i_A            6 GGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCYGKKYGPKGYGYGQG   76 (81)
T ss_dssp             --CBCSSSCCBCSSTTEEEETTEEEESSSEECSSSCCEECSSCCEEETTEEECSHHHHHHCC---------
T ss_pred             CCCcCcCcCccccCceeEEeCCcccccccCccCCCCCCCCCCCeEeeCCEEECHHHHHHHhCCcccccCCc
Confidence            348999999999888878899999999999999999999988899999999999999999999996 4433

>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=99.64  E-value=1.3e-16  Score=105.68  Aligned_cols=66  Identities=26%  Similarity=0.583  Sum_probs=60.1

Q ss_pred             CCccccccCceeecce-eEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccCC
Q 029070            8 TQQKCMACDKTVYLVD-KLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTGS   73 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~-~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~~   73 (199)
                      ..++|.+|+++|..++ +|.++++.||++||+|..|+++|.++.|+.+++++||+.||.++++++++
T Consensus        14 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~~~   80 (82)
T 1x63_A           14 DSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKFASGPS   80 (82)
T ss_dssp             CSCBCSSSCCBCCSSSCEEECSSCEEETTTCCCSSSCCCCTTSCEEEETTEEEEHHHHHHHTSCCCS
T ss_pred             cCCcCccCCcccccCceEEEECccccccccCchhhCCCccCCCccEeeCCEEECHHHHHHHhCCCCC
Confidence            3679999999997655 68999999999999999999999998999999999999999999996653

>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=99.64  E-value=1.7e-16  Score=104.65  Aligned_cols=64  Identities=23%  Similarity=0.597  Sum_probs=59.8

Q ss_pred             CCCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCC
Q 029070          109 REKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGN  173 (199)
Q Consensus       109 ~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~  173 (199)
                      .++|.+|+++|.+.+.|.++++.||++||+|..|+++|.+ .|+..++++||..||.++|++++.
T Consensus        15 ~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~-~~~~~~g~~yC~~~y~~~fg~~C~   78 (80)
T 2dj7_A           15 PSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTG-EYISKDGVPYCESDYHAQFGSGPS   78 (80)
T ss_dssp             CSCCTTTCCCCSSSCCEEETTEEECTTTCBCSSSCCBCSS-CCEEETTEEECTTHHHHHTTCCST
T ss_pred             CCCCcCcCCeeCCCeEEEECCcccccccCCcCcCCCCcCC-CeEEECCEEECHHHHHHHcCCCCC
Confidence            4899999999998888899999999999999999999986 689999999999999999999985

>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=99.64  E-value=1.8e-16  Score=104.51  Aligned_cols=63  Identities=24%  Similarity=0.634  Sum_probs=58.4

Q ss_pred             CCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhcc
Q 029070            8 TQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRT   71 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~   71 (199)
                      ..++|.+|+++|. ++.|.++++.||+.||+|..|+++|.++.|+.+++++||+.||.+++++.
T Consensus        14 ~~~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~~y~~~f~~~   76 (80)
T 1x3h_A           14 FSPKCGGCNRPVL-ENYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHHRRGSG   76 (80)
T ss_dssp             CSCBCTTTCCBCC-SSCEEETTEEECTTTCBCSSSCCBSCSSCCEESSSCEECHHHHHHHHSSS
T ss_pred             cCCccccCCCeec-ceeEEECCCeEecCcCChhhCCCCCCCCcEEeECCEEECHHHHHHHcCCC
Confidence            3679999999997 58899999999999999999999999889999999999999999999843

>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=99.64  E-value=1.4e-16  Score=102.96  Aligned_cols=62  Identities=23%  Similarity=0.554  Sum_probs=57.5

Q ss_pred             CCccccccCceeecc-eeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhh
Q 029070            8 TQQKCMACDKTVYLV-DKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFK   69 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~-~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~   69 (199)
                      ..++|.+|+++|... .++.++++.||+.||+|..|+++|.+..|+.+++++||+.||.++++
T Consensus         4 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~~~   66 (72)
T 1x61_A            4 GSSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVATLE   66 (72)
T ss_dssp             CCCCCSSSCSCCCSSSCCEECSSSEECTTTCBCSSSCCBCTTSCEEESSSCEEEHHHHHHHHH
T ss_pred             CCCCCccCCCccCCCceEEEECCCeEcccCCcccccCCcCCcCcCEeeCCeEECHHHHHHHHc
Confidence            468999999999864 48999999999999999999999988889999999999999999987

>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=99.64  E-value=6.8e-17  Score=106.81  Aligned_cols=76  Identities=20%  Similarity=0.440  Sum_probs=65.0

Q ss_pred             CcccccccHHHHhhccCCCCCCCCCCCCccCCCCCCCCCCCCcccccccCCCCCCCCcCCCceEecCcceeecCcccccc
Q 029070           56 GVLYCRPHFDQLFKRTGSLDKSFEGTPKIAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKS  135 (199)
Q Consensus        56 g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~~~~~H~~  135 (199)
                      ..+||+.||.++++                                        ++|++|+++|.+ +.|.++++.||++
T Consensus         2 ~~~yC~~dy~~~~~----------------------------------------~~C~~C~~~I~~-~~v~a~~~~wH~~   40 (81)
T 1v6g_A            2 SSGSSGLDYQRLYG----------------------------------------TRCFSCDQFIEG-EVVSALGKTYHPD   40 (81)
T ss_dssp             CCCCCCSCGGGSCC----------------------------------------CBCTTTCCBCCS-CCEEETTEEECTT
T ss_pred             CCCcchHHHHhHhC----------------------------------------CcCccccCEecc-ceEEECCceeCcc
Confidence            56899999999987                                        899999999984 5688999999999


Q ss_pred             CeecccCCCCCCCCCeeeeCC-ccccHhHHHhHhcCCC
Q 029070          136 CFKCSHGGCVISPSNYIAHEG-RLYCKHHHNQLIKEKG  172 (199)
Q Consensus       136 Cf~C~~C~~~l~~~~~~~~~g-~~yC~~c~~~~~~~k~  172 (199)
                      ||+|..|+++|..+.++..++ .+||..|+.+++...+
T Consensus        41 CF~C~~C~~~L~~~~~~~~~~~~~~C~~C~~~~~~~~~   78 (81)
T 1v6g_A           41 CFVCAVCRLPFPPGDRVTFNGKECMCQKCSLPVSVSGP   78 (81)
T ss_dssp             TSSCSSSCCCCCSSSCEEEETTEEEEHHHHSCCSSCCC
T ss_pred             CCccccCCCCCCCCCEEEeCCCCEEChhhhcccCCCCC
Confidence            999999999998666555555 5799999988776654

>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=99.63  E-value=2.3e-16  Score=104.23  Aligned_cols=64  Identities=25%  Similarity=0.518  Sum_probs=57.8

Q ss_pred             CCCccccccCceeecceeEEeCCcccccccceeccCcccccCCccccc-CCcccccccHHHHhhcc
Q 029070            7 GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSF-EGVLYCRPHFDQLFKRT   71 (199)
Q Consensus         7 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~-~g~~yC~~c~~~~~~~~   71 (199)
                      ...++|.+|+++|. +++|.++++.||+.||+|..|+++|.+..|+.. +|++||+.||.++|+++
T Consensus        13 ~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~g~~yC~~cy~~~f~~~   77 (81)
T 2dlo_A           13 ATLEKCATCSQPIL-DRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFASG   77 (81)
T ss_dssp             SSCCBCTTTCCBCC-SCCEEETTEEECTTTCBCSSSCCBCTTSCEECCTTCCCEEHHHHHHHTTSS
T ss_pred             cCCCccccCCCeec-ceeEEECCccccHHhcCcccCCCccCCCeeEECCCCEEECHHHHHHHhcCc
Confidence            45789999999997 678999999999999999999999998888876 78999999999999843

>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=99.63  E-value=9.9e-17  Score=105.57  Aligned_cols=64  Identities=25%  Similarity=0.480  Sum_probs=57.6

Q ss_pred             CCCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccC
Q 029070            7 GTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTG   72 (199)
Q Consensus         7 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~   72 (199)
                      ...++|.+|+++|. +++|.++++.||++||+|..|+++|.+.. +.++|++||+.||.++|+|..
T Consensus        13 ~~~~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~-f~~~g~~yC~~cy~~~f~p~~   76 (79)
T 2cor_A           13 LGKYICQKCHAIID-EQPLIFKNDPYHPDHFNCANCGKELTADA-RELKGELYCLPCHDKMGVSGP   76 (79)
T ss_dssp             CCCCBCTTTCCBCC-SCCCCCSSSCCCTTTSBCSSSCCBCCTTC-EEETTEEECHHHHHTTSCCSS
T ss_pred             cCCCCCccCCCEec-ceEEEECcceeCCCCCEeCCCCCccCCCC-EeECCEEeCHHHHHHhCCCCC
Confidence            44789999999997 88899999999999999999999999774 589999999999999998543

>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=99.63  E-value=2e-16  Score=100.45  Aligned_cols=61  Identities=23%  Similarity=0.442  Sum_probs=57.3

Q ss_pred             CCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCC
Q 029070          110 EKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEK  171 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k  171 (199)
                      ++|++|+++|. .+.|.+.++.||++||+|..|+++|.+..|+..+|.+||..||.++|++|
T Consensus         6 ~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~k   66 (66)
T 1nyp_A            6 PICGACRRPIE-GRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLFGDV   66 (66)
T ss_dssp             CEETTTTEECC-SCEECCTTSBEETTTCBCTTTCCBCSSSCCEEETTEEECHHHHHHHCSCC
T ss_pred             CCCcccCCEec-ceEEEECccccccCcCEECCCCCCCCCCceEeECCcEECHHHHHHHhCCC
Confidence            89999999998 55678999999999999999999999888999999999999999999986

>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=99.62  E-value=2.4e-16  Score=112.29  Aligned_cols=61  Identities=23%  Similarity=0.537  Sum_probs=55.8

Q ss_pred             CccccccCceeecceeEEeCCcccccccceeccCcccccC--CcccccCCcccccccHHHHhh
Q 029070            9 QQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKL--GNYNSFEGVLYCRPHFDQLFK   69 (199)
Q Consensus         9 ~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~--~~f~~~~g~~yC~~c~~~~~~   69 (199)
                      .++|.+|+++|....++.++++.||+.||+|..|+++|.+  ..|+.++|++||+.||.++|+
T Consensus        61 ~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~~g~~f~~~dg~~yC~~cy~~~Fg  123 (123)
T 2l4z_A           61 WKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG  123 (123)
T ss_dssp             CSBBSSSSSBCCSSSEEEETTEEEETTTSBCTTTCCBGGGTTCCCBCSSSCCBCHHHHHHHCC
T ss_pred             CCcCcCCCCCcCCcEEEEeCCcEEcccccCcCcCCCcccccCCceEEECCEEeCHHHhhhhcC
Confidence            5799999999986667999999999999999999999973  579999999999999999874

>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=99.62  E-value=2.9e-16  Score=103.44  Aligned_cols=64  Identities=25%  Similarity=0.560  Sum_probs=58.9

Q ss_pred             CCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccC
Q 029070            8 TQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTG   72 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~   72 (199)
                      ..++|.+|+++|. ++.|.++++.||++||+|..|+++|.+..|+.+++++||+.||.+++++++
T Consensus        14 ~~~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c   77 (80)
T 2cuq_A           14 FAPRCARCSKTLT-QGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELFASGP   77 (80)
T ss_dssp             SSCCCTTTCCCCC-SCCEESSSSEECTTTCBCSSSCCBCTTCCEEECSSSEEEHHHHHHHTTCST
T ss_pred             cCCcCCCCCCEec-CcEEEECCchhhhhhCCcccCCCcCCCCeeEeECCEEECHHHHHHHcCCCC
Confidence            4689999999996 578999999999999999999999998889999999999999999998554

>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=99.62  E-value=7.2e-17  Score=106.97  Aligned_cols=64  Identities=34%  Similarity=0.867  Sum_probs=57.9

Q ss_pred             CCCCccccccCceeecceeEEeCCcccccccceeccCcccccCCccc--ccCCcccccccHHHHhh
Q 029070            6 AGTQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYN--SFEGVLYCRPHFDQLFK   69 (199)
Q Consensus         6 ~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~--~~~g~~yC~~c~~~~~~   69 (199)
                      .++.++|.+|+++|+.++.|.++++.||+.||+|..|+++|....|+  .++|++||+.||.++++
T Consensus        12 ~~~~~~C~~C~~~I~~~e~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~   77 (82)
T 2co8_A           12 AGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQTDS   77 (82)
T ss_dssp             CCSSCBCSSSCCBCCTTTBCCBTTBCCBTTTCBCSSSCCBCCTTSEECCTTTCCCEETTTCCCCCC
T ss_pred             CCCCCCCcccCCCcccceEEEECCCeeCCCcCEEcCCCCCcCCCceeEeCcCCEEEChHHHHhhhc
Confidence            34578999999999888899999999999999999999999998887  57999999999987775

>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=99.62  E-value=1.7e-16  Score=102.86  Aligned_cols=61  Identities=16%  Similarity=0.295  Sum_probs=56.1

Q ss_pred             CCccccccCceeecceeEEeCCcccccccceeccCccccc-CCcccccCCcccccccHHHHhh
Q 029070            8 TQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLK-LGNYNSFEGVLYCRPHFDQLFK   69 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~-~~~f~~~~g~~yC~~c~~~~~~   69 (199)
                      ..++|.+|+++|. +++|.++++.||++||+|..|+++|. +..|+.+++++||..||.++++
T Consensus         4 ~~~~C~~C~~~I~-~~~v~a~~~~wH~~CF~C~~C~~~L~~~~~f~~~~~~~yC~~C~~~~~~   65 (73)
T 1wig_A            4 GSSGCDSCEKYIT-GRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWHPACRQAART   65 (73)
T ss_dssp             SCCSCSSSCCCCS-SCCBCCSSCCBCTTTSCCSSSCCCCCSSCCCEEETTEEECTTHHHHTSS
T ss_pred             CcCCcccCCCEec-CeeEEeCCCCCCCCcCEeCCCCCCCCCCCeeEeeCCEEEChHHChHhhc
Confidence            4689999999996 68899999999999999999999998 6679999999999999998876

>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=99.62  E-value=2.3e-16  Score=101.72  Aligned_cols=62  Identities=29%  Similarity=0.733  Sum_probs=57.0

Q ss_pred             CCccccccCceeeccee-EEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhh
Q 029070            8 TQQKCMACDKTVYLVDK-LTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFK   69 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~~-~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~   69 (199)
                      ..++|.+|+++|..++. +.++++.||+.||+|..|+++|.++.|+.++|++||+.||.++|+
T Consensus        10 ~~~~C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~lf~   72 (72)
T 3f6q_B           10 ASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA   72 (72)
T ss_dssp             TTCBCTTTCCBCCTTCEEEEETTEEEETTTSSCTTTCCCCGGGCCEEETTEEECHHHHHHHTC
T ss_pred             CCccchhcCccccCCceEEEeCcCeeCcCCCcccCCCCCCCCCCeEeECCeEeCHHHHHHhhC
Confidence            46799999999987774 689999999999999999999998899999999999999999874

>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=99.61  E-value=5.3e-16  Score=100.10  Aligned_cols=64  Identities=23%  Similarity=0.563  Sum_probs=59.6

Q ss_pred             CCCcCCCceEecC-cceeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCC
Q 029070          110 EKCVGCKNTVYPT-EKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGN  173 (199)
Q Consensus       110 ~~C~~C~~~I~~~-~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~  173 (199)
                      ++|..|+++|.+. +.+.+.++.||++||+|..|+++|....|+..++.+||..||.++|++++.
T Consensus         6 ~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~   70 (72)
T 1wyh_A            6 SGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFASGPS   70 (72)
T ss_dssp             CBCSSSCCBCCSSSCEECSTTCCEETTTCBCTTTCCBTTTSCEEEETTEEEEHHHHHHHTSCCCC
T ss_pred             CCCccCCCccccCccEEEECccccCcccCeECCCCCcCCCCccCCcCCeEECHHHHHHHccCcCC
Confidence            8999999999975 556799999999999999999999988899999999999999999999985

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

Probab=99.61  E-value=1.7e-15  Score=102.00  Aligned_cols=65  Identities=17%  Similarity=0.452  Sum_probs=59.7

Q ss_pred             CCCCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCC
Q 029070          108 TREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGN  173 (199)
Q Consensus       108 ~~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~  173 (199)
                      ..++|+.|+++|. .+.|.++++.||++||+|..|+++|.+..|+..++.+||..||.++|++++.
T Consensus        24 ~~~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~c~   88 (90)
T 2dar_A           24 RTPMCAHCNQVIR-GPFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFFASGPS   88 (90)
T ss_dssp             CCCBBSSSCCBCC-SCEEEETTEEECTTTCBCSSSCCBCSSSCBEESSSCEECHHHHHHHTSCCCC
T ss_pred             CCCCCccCCCEec-ceEEEECCccccccCCccCCCCCCCCCCEeEeECCEEECHHHHHHHcCCCCC
Confidence            3489999999996 4558899999999999999999999988899999999999999999999985

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

Probab=99.61  E-value=4.6e-16  Score=101.70  Aligned_cols=66  Identities=33%  Similarity=0.616  Sum_probs=58.4

Q ss_pred             CCCCcCCCceEecCcc-eeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCCC
Q 029070          109 REKCVGCKNTVYPTEK-VSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNL  174 (199)
Q Consensus       109 ~~~C~~C~~~I~~~~~-v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~~  174 (199)
                      .++|++|+++|.+.+. +.+.++.||++||+|..|+++|..+.|+..+|.+||..||.++|++++.+
T Consensus        11 ~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~~~C~~   77 (77)
T 1g47_A           11 SATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAPCWIL   77 (77)
T ss_dssp             CCBCSSSCCBCCSTTTCEEETTEEECTTTCCCTTTCCCCGGGCSEEETTEEECHHHHHHHCCCC---
T ss_pred             CCCchhcCCccCCCceEEEeCccEeccccCeECCCCCCCCCCCeEeECCeEeCHHHHHHHhhcccCC
Confidence            3899999999997665 56999999999999999999999878999999999999999999999853

>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=99.61  E-value=1.2e-16  Score=105.92  Aligned_cols=64  Identities=22%  Similarity=0.568  Sum_probs=58.0

Q ss_pred             CCccccccCceeec-ceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhcc
Q 029070            8 TQQKCMACDKTVYL-VDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRT   71 (199)
Q Consensus         8 ~~~~C~~C~~~I~~-~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~   71 (199)
                      ..++|.+|+++|.. +.++.++++.||+.||+|..|+++|.+..|+.+++++||+.||.++++++
T Consensus        14 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~~~~C~~c~~~~~~~~   78 (82)
T 2ehe_A           14 FANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELLCNDCYCSAFSSG   78 (82)
T ss_dssp             CSCBCTTTCCBCCSSCCBCCCSSCCCBTTTSBCTTTCCBCSSCCEEEETTEEEETTTSSCCGGGS
T ss_pred             cCCcCccCCCccccCcEEEEeCCccccccCCeecCCCCccCCCccEeeCCEEECHHHHhhhcCCC
Confidence            36799999999974 56789999999999999999999999889999999999999999999843

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

Probab=99.61  E-value=3.5e-16  Score=102.13  Aligned_cols=68  Identities=13%  Similarity=0.470  Sum_probs=61.8

Q ss_pred             CCCcCCCceEec---CcceeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCCCCCc
Q 029070          110 EKCVGCKNTVYP---TEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQL  177 (199)
Q Consensus       110 ~~C~~C~~~I~~---~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~~~~~  177 (199)
                      ++|++|+++|.+   .+.|.++++.||++||+|..|+++|.+..|+..++++||..||.++|++++..+.|
T Consensus         6 ~~C~~C~~~I~~~g~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~f~~~C~~~sg   76 (76)
T 1x68_A            6 SGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCGSGMDTDISGPSSG   76 (76)
T ss_dssp             CCCTTTCCCCCTTTTCCEEEETTEEEEGGGCBCTTTCCBCSSSCEEEETTEEEETTTTCCCCCCSSSSSCC
T ss_pred             CCCccCCCcccCCCCceeEEECCcccCcccCChhhCCCcCCCCceEeECCEEECHHHhhhhhCCcCCCCCC
Confidence            899999999995   35578999999999999999999999888999999999999999999999976543

>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=99.60  E-value=1e-15  Score=98.01  Aligned_cols=63  Identities=19%  Similarity=0.547  Sum_probs=58.7

Q ss_pred             CCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCC
Q 029070          110 EKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGN  173 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~  173 (199)
                      ++|..|+++|.+ +.|.+.++.||++||+|..|+++|.+..|+..++++||..||.++|++++.
T Consensus         6 ~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~   68 (69)
T 2cur_A            6 SGCVKCNKAITS-GGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFVSGPSS   68 (69)
T ss_dssp             CCCSSSCCCCCT-TCEEETTEEECTTTTBCTTTCCBCTTSCEEECSSCEEEHHHHHHHHTCSCC
T ss_pred             CCCcccCCEeCc-ceEEECccccccCcCEECCCCCCCCCCccEeECCEEECHHHhHHHhcCCCC
Confidence            899999999985 458899999999999999999999988899999999999999999999873

>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=99.60  E-value=7.5e-16  Score=100.51  Aligned_cols=67  Identities=30%  Similarity=0.636  Sum_probs=61.7

Q ss_pred             CCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeeeeCCccccH-hHHHhHhcCCCCCCC
Q 029070          110 EKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCK-HHHNQLIKEKGNLSQ  176 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~-~c~~~~~~~k~~~~~  176 (199)
                      ++|++|+++|.+.+.|.++++.||++||+|..|+++|..+.|+..+|.+||. .||.++|++++.-..
T Consensus         1 p~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~~~C~~C~   68 (76)
T 1iml_A            1 PKCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGFGRG   68 (76)
T ss_dssp             CBCTTTSSBCCGGGEEEETTEEEETTTCBCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCCCSSCC
T ss_pred             CcCCCCCCEEECceEEEECCccccCCCCCccccCccCCCCceECcCCeEeeCHHHHHHHhCccCCCcC
Confidence            5799999999988878899999999999999999999988899999999999 799999999997544

>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=99.60  E-value=1e-15  Score=98.26  Aligned_cols=63  Identities=25%  Similarity=0.535  Sum_probs=58.7

Q ss_pred             CCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCC
Q 029070          110 EKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGN  173 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~  173 (199)
                      ++|..|+++|.+. .|.+.++.||++||+|..|+++|.+..|+..++++||..||.++|++++.
T Consensus         6 ~~C~~C~~~I~~~-~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~c~   68 (70)
T 2d8z_A            6 SGCVQCKKPITTG-GVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLYASGPS   68 (70)
T ss_dssp             CBCSSSCCBCCSS-EEESSSSEEETTTSBCSSSCCBCTTSCCEESSSSEECHHHHHHHTCCCCT
T ss_pred             CCCcccCCeeccc-eEEECccccCCCCCccCCCCCcCCcCceEeeCCeEECHHHHHHHhccccC
Confidence            8999999999854 48899999999999999999999988899999999999999999999985

>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=99.60  E-value=4.2e-16  Score=119.28  Aligned_cols=62  Identities=27%  Similarity=0.739  Sum_probs=58.4

Q ss_pred             CCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHHHhh
Q 029070            8 TQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFK   69 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~   69 (199)
                      +.++|.+|+++|..++.|.++++.||++||+|..|+++|.+..|+.++|++||+.||.++|+
T Consensus       114 ~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~f~  175 (192)
T 1b8t_A          114 GSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFG  175 (192)
T ss_dssp             CCEECTTTSCEECSSSCEEETTEEECTTTCBCTTTCCBCCSSSEEEETTEEEEHHHHHHHTC
T ss_pred             CCCcCCCCCCEecCcEEEecCCCccchhcCCccccCCCCCCCcccccCCEEeCHHHHHHhcC
Confidence            35679999999987888999999999999999999999998899999999999999999998

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

Probab=99.60  E-value=1.1e-15  Score=98.68  Aligned_cols=64  Identities=22%  Similarity=0.556  Sum_probs=59.8

Q ss_pred             CCCcCCCceEecCc-ceeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCC
Q 029070          110 EKCVGCKNTVYPTE-KVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGN  173 (199)
Q Consensus       110 ~~C~~C~~~I~~~~-~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~  173 (199)
                      ++|++|+++|.+.+ .+.+.++.||++||+|..|+++|....|+..++.+||..||.++|++++.
T Consensus         6 ~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~f~~~C~   70 (72)
T 1x4k_A            6 SGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQHASGPS   70 (72)
T ss_dssp             CCBSSSCCCCCSSSCEEEETTEEEETTTTCCSSSCCCCCSSSEEEETTEEEEHHHHHHHTSSCCC
T ss_pred             CCCccCCCcccCCceEEEECcCeecccCCcccccCCccCCCccCccCCeEECHHHHhHHhCCCCC
Confidence            89999999999865 47799999999999999999999988899999999999999999999985

>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=99.59  E-value=3.8e-15  Score=100.09  Aligned_cols=64  Identities=22%  Similarity=0.451  Sum_probs=59.1

Q ss_pred             CCCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCC
Q 029070          109 REKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGN  173 (199)
Q Consensus       109 ~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~  173 (199)
                      .++|..|+++|.+ +.+.++++.||++||+|..|+++|....|+..++.+||..||.++|++|+.
T Consensus        25 ~~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~~f~p~~~   88 (89)
T 1x64_A           25 MPLCDKCGSGIVG-AVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETHARARTSGPSS   88 (89)
T ss_dssp             CCBCTTTCCBCCS-CCEESSSCEECTTTCCCSSSCCCTTTSCCEEETTEEECHHHHHHHSSSCCC
T ss_pred             CCCcccCCCEecc-cEEEECCceECccCCEecCCCCCCCCCCeEeECCEEECHHHHHHHhCCCCC
Confidence            4899999999996 458899999999999999999999988899999999999999999999874

>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=99.59  E-value=1.1e-15  Score=98.74  Aligned_cols=64  Identities=17%  Similarity=0.523  Sum_probs=58.1

Q ss_pred             CCCCcCCCceEec---CcceeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCC
Q 029070          109 REKCVGCKNTVYP---TEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKG  172 (199)
Q Consensus       109 ~~~C~~C~~~I~~---~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~  172 (199)
                      .++|.+|+++|.+   .+.|.++++.||++||+|..|+++|.+..|+..++++||..||.++|+++.
T Consensus         5 ~~~C~~C~~~I~~~~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~p~~   71 (72)
T 1x4l_A            5 SSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGKDISGPSS   71 (72)
T ss_dssp             SCSBTTTTBCCCCSSSCSCEECSSCEECTTTCBCSSSCCBCTTSCCEECSSSEECHHHHHTCCCSSC
T ss_pred             CCCCcCCCccccCCCCcceEEECCcccCcccCEeccCCCcCCCCccEeECCEEEChhHcCcccCCCC
Confidence            3899999999996   345779999999999999999999998889999999999999999998875

>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=99.58  E-value=2.5e-15  Score=96.43  Aligned_cols=64  Identities=19%  Similarity=0.486  Sum_probs=58.4

Q ss_pred             CCCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCC
Q 029070          109 REKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGN  173 (199)
Q Consensus       109 ~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~  173 (199)
                      .++|..|+++|.+ +.|.+.++.||++||+|..|+++|....|+..++++||..||.++|+++..
T Consensus         5 ~~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~~   68 (70)
T 2d8x_A            5 SSGCHQCGEFIIG-RVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNREKASGPS   68 (70)
T ss_dssp             SSBCSSSCCBCCS-CCEEETTEEECTTTSBCSSSCCBCSSSCCEEETTEEECHHHHHHHHCCCSC
T ss_pred             CCcCccCCCEecc-eEEEECcccccccCCEeCCCCCcCCCCccEeECCeEECHHHhhhhcCCCCC
Confidence            4899999999984 558899999999999999999999988888999999999999999998763

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

Probab=99.58  E-value=5.4e-16  Score=98.18  Aligned_cols=59  Identities=24%  Similarity=0.589  Sum_probs=53.9

Q ss_pred             CccccccCceeec-ceeEEeCCcccc--cccceeccCcccccCCcccccCCcccc-cccHHHH
Q 029070            9 QQKCMACDKTVYL-VDKLTADNRIYH--KACFRCHHCKGTLKLGNYNSFEGVLYC-RPHFDQL   67 (199)
Q Consensus         9 ~~~C~~C~~~I~~-~~~~~~~~~~~H--~~CF~C~~C~~~L~~~~f~~~~g~~yC-~~c~~~~   67 (199)
                      +++|.+|+++|.. ++.|.++++.||  ++||+|..|+++|.+..|+.++|++|| .+||.++
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            4689999999987 478999999999  999999999999998899999999999 8888654

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

Probab=99.58  E-value=5.3e-16  Score=102.03  Aligned_cols=64  Identities=17%  Similarity=0.427  Sum_probs=58.8

Q ss_pred             CCCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCC
Q 029070          109 REKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGN  173 (199)
Q Consensus       109 ~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~  173 (199)
                      .++|..|+++|.+ +.|.++++.||+.||+|..|+++|....|+..++++||..||.++|++|+.
T Consensus        15 ~~~C~~C~~~I~~-~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~p~g~   78 (79)
T 1x62_A           15 LPMCDKCGTGIVG-VFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEKHARERVSGPSS   78 (79)
T ss_dssp             CCCCSSSCCCCCS-SCEECSSCEECTTTTSCSSSCCCHHHHCCEESSSCEECHHHHHHHHSSCCC
T ss_pred             CCccccCCCCccC-cEEEECcceeCcCcCeeCCCCCCCCCCCeEeECCEEECHHHHHHHhCCCCC
Confidence            4899999999986 468899999999999999999999877889999999999999999999874

>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=99.58  E-value=2e-15  Score=106.07  Aligned_cols=66  Identities=20%  Similarity=0.448  Sum_probs=60.5

Q ss_pred             CCCCcCCCceEecCcceeecCccccccCeecccCCCCCCC--CCeeeeCCccccHhHHHhHhcCCCCC
Q 029070          109 REKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISP--SNYIAHEGRLYCKHHHNQLIKEKGNL  174 (199)
Q Consensus       109 ~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~--~~~~~~~g~~yC~~c~~~~~~~k~~~  174 (199)
                      .++|++|+++|.+.+.+.++++.||+.||+|..|+++|..  ..|+.++|++||..||.++|++++..
T Consensus         3 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~~y~~~f~~~c~~   70 (114)
T 1j2o_A            3 LLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLGGSGGHM   70 (114)
T ss_dssp             CBCBSSSCSCBCSSEEEECSSSEECTTTCCCSSSCSCCCCSSSCCCCBTTBCCCHHHHHHHHTSCCSS
T ss_pred             CCCCcCCCCeeCCcEEEEECchhHHHhcCcccccCCchhcCCCeeEEECCeeechHHHHHHhCcccCc
Confidence            4899999999997777889999999999999999999984  47999999999999999999999763

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

Probab=99.57  E-value=1.2e-15  Score=99.75  Aligned_cols=59  Identities=19%  Similarity=0.523  Sum_probs=54.2

Q ss_pred             CCccccccCceeec----ceeEEeCCcccccccceeccCcccccCCcccccCCcccccccHHH
Q 029070            8 TQQKCMACDKTVYL----VDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQ   66 (199)
Q Consensus         8 ~~~~C~~C~~~I~~----~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~   66 (199)
                      ..++|.+|+++|.+    .+.+.++++.||+.||+|..|+++|.+..|+.+++++||+.||.+
T Consensus        14 ~~~~C~~C~~~I~~~g~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~~~yC~~cy~~   76 (77)
T 2egq_A           14 VAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYCPDCAKK   76 (77)
T ss_dssp             CCCCCSSSCCCCCCCSSCCCEEEETTEEEETTTCBCSSSCCBCTTSCCCEETTEECCHHHHHH
T ss_pred             hCccCcccCCcccCCCCCceeEEECcceeCcccCEehhcCCCCCCCccEeECCEEEChHHhcc
Confidence            36899999999973    378999999999999999999999998889999999999999975

>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=99.55  E-value=3e-15  Score=98.82  Aligned_cols=62  Identities=23%  Similarity=0.482  Sum_probs=55.8

Q ss_pred             CCccccccCceeecceeEEeCCcccccccceeccCcccccC-Cccc-ccCCcccccccHHHHhhc
Q 029070            8 TQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKL-GNYN-SFEGVLYCRPHFDQLFKR   70 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~-~~f~-~~~g~~yC~~c~~~~~~~   70 (199)
                      ..++|.+|+++|. +++|.++++.||++||+|..|+++|.. ..|. .+++++||+.||.+++++
T Consensus        14 ~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~~~~~C~~c~~~~~~~   77 (81)
T 1x6a_A           14 FGEFCHGCSLLMT-GPFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVVSG   77 (81)
T ss_dssp             SSCBCTTTCCBCC-SCCBCCTTCCBCTTSCBCTTTCCBCCTTSCEEECSSSCEEEHHHHHHHHCT
T ss_pred             cCCcCccCCCCcC-ceEEEECCceeccccCCccCCCCccCCCCcEEEeeCCEEECHHHHHHHhcC
Confidence            4678999999997 888999999999999999999999975 4566 589999999999999984

>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=99.54  E-value=6.5e-15  Score=94.95  Aligned_cols=61  Identities=25%  Similarity=0.476  Sum_probs=56.0

Q ss_pred             CCCcCCCceEecCc-ceeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcC
Q 029070          110 EKCVGCKNTVYPTE-KVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKE  170 (199)
Q Consensus       110 ~~C~~C~~~I~~~~-~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~  170 (199)
                      ++|.+|+++|.+.+ .+.++++.||+.||+|..|+++|.+..|+..++.+||..||.++|..
T Consensus         6 ~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~~~~   67 (72)
T 1x61_A            6 SGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVATLES   67 (72)
T ss_dssp             CCCSSSCSCCCSSSCCEECSSSEECTTTCBCSSSCCBCTTSCEEESSSCEEEHHHHHHHHHT
T ss_pred             CCCccCCCccCCCceEEEECCCeEcccCCcccccCCcCCcCcCEeeCCeEECHHHHHHHHcc
Confidence            89999999999754 57799999999999999999999887899999999999999999863

>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=99.53  E-value=7e-15  Score=96.62  Aligned_cols=63  Identities=21%  Similarity=0.500  Sum_probs=56.5

Q ss_pred             CCCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCC
Q 029070          109 REKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGN  173 (199)
Q Consensus       109 ~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~  173 (199)
                      .++|..|+++|. .+.|.++++.||++||+|..|+++|.+.. +.++|.+||..||.++|+++..
T Consensus        15 ~~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~-f~~~g~~yC~~cy~~~f~p~~s   77 (79)
T 2cor_A           15 KYICQKCHAIID-EQPLIFKNDPYHPDHFNCANCGKELTADA-RELKGELYCLPCHDKMGVSGPS   77 (79)
T ss_dssp             CCBCTTTCCBCC-SCCCCCSSSCCCTTTSBCSSSCCBCCTTC-EEETTEEECHHHHHTTSCCSSC
T ss_pred             CCCCccCCCEec-ceEEEECcceeCCCCCEeCCCCCccCCCC-EeECCEEeCHHHHHHhCCCCCC
Confidence            389999999999 45588999999999999999999999765 5889999999999999998764

>1wig_A KIAA1808 protein; LIM domain, zinc finger, metal-binding protein, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.53  E-value=9.4e-15  Score=94.56  Aligned_cols=62  Identities=15%  Similarity=0.330  Sum_probs=56.2

Q ss_pred             CCCcCCCceEecCcceeecCccccccCeecccCCCCCC-CCCeeeeCCccccHhHHHhHhcCCC
Q 029070          110 EKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVIS-PSNYIAHEGRLYCKHHHNQLIKEKG  172 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~-~~~~~~~~g~~yC~~c~~~~~~~k~  172 (199)
                      ++|++|+++|.+ +.|.++++.||++||+|..|+++|. +..|+..++++||..||.+++.++.
T Consensus         6 ~~C~~C~~~I~~-~~v~a~~~~wH~~CF~C~~C~~~L~~~~~f~~~~~~~yC~~C~~~~~~~~~   68 (73)
T 1wig_A            6 SGCDSCEKYITG-RVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQGSSIWHPACRQAARTEDS   68 (73)
T ss_dssp             CSCSSSCCCCSS-CCBCCSSCCBCTTTSCCSSSCCCCCSSCCCEEETTEEECTTHHHHTSSSSC
T ss_pred             CCcccCCCEecC-eeEEeCCCCCCCCcCEeCCCCCCCCCCCeeEeeCCEEEChHHChHhhcccc
Confidence            899999999986 5578999999999999999999998 6788999999999999999887643

>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=99.53  E-value=3.7e-15  Score=98.66  Aligned_cols=63  Identities=30%  Similarity=0.693  Sum_probs=56.6

Q ss_pred             CCCCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCee--eeCCccccHhHHHhHhcC
Q 029070          108 TREKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYI--AHEGRLYCKHHHNQLIKE  170 (199)
Q Consensus       108 ~~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~--~~~g~~yC~~c~~~~~~~  170 (199)
                      ...+|.+|+++|.+.+.|.++++.||.+||+|..|+++|....|.  ..+|++||+.||.++|+.
T Consensus        14 ~~~~C~~C~~~I~~~e~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~   78 (82)
T 2co8_A           14 AGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQTDSG   78 (82)
T ss_dssp             SSCBCSSSCCBCCTTTBCCBTTBCCBTTTCBCSSSCCBCCTTSEECCTTTCCCEETTTCCCCCCC
T ss_pred             CCCCCcccCCCcccceEEEECCCeeCCCcCEEcCCCCCcCCCceeEeCcCCEEEChHHHHhhhcC
Confidence            348999999999988888899999999999999999999988877  469999999999887653

>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=99.52  E-value=6e-15  Score=94.92  Aligned_cols=61  Identities=34%  Similarity=0.699  Sum_probs=56.1

Q ss_pred             CCCCcCCCceEecCcc-eeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhc
Q 029070          109 REKCVGCKNTVYPTEK-VSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIK  169 (199)
Q Consensus       109 ~~~C~~C~~~I~~~~~-v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~  169 (199)
                      .++|++|+++|.+.+. +.+.++.||+.||+|..|+++|..+.|+..+|++||..||.++|+
T Consensus        11 ~~~C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~y~~lf~   72 (72)
T 3f6q_B           11 SATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA   72 (72)
T ss_dssp             TCBCTTTCCBCCTTCEEEEETTEEEETTTSSCTTTCCCCGGGCCEEETTEEECHHHHHHHTC
T ss_pred             CccchhcCccccCCceEEEeCcCeeCcCCCcccCCCCCCCCCCeEeECCeEeCHHHHHHhhC
Confidence            3899999999998876 469999999999999999999998788999999999999999885

>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=99.51  E-value=1.7e-14  Score=102.51  Aligned_cols=65  Identities=18%  Similarity=0.473  Sum_probs=59.6

Q ss_pred             CCCCcCCCceEecCcceeecCccccccCeecccCCCCCC--CCCeeeeCCccccHhHHHhHhcC--CCC
Q 029070          109 REKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVIS--PSNYIAHEGRLYCKHHHNQLIKE--KGN  173 (199)
Q Consensus       109 ~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~--~~~~~~~~g~~yC~~c~~~~~~~--k~~  173 (199)
                      .++|++|+++|.+.+.|.++++.||+.||+|..|+++|.  +..|+..+|++||..||.++|++  +|.
T Consensus         5 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~cy~~~f~~~~~C~   73 (122)
T 1m3v_A            5 WKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAGG   73 (122)
T ss_dssp             CCCBSSSSSCCCSSCCEEETTEEECHHHHCCSSSCCCTTTSEECCEEETTEEECHHHHHHHHCCCCSSS
T ss_pred             CCCCcccCCEeCCcEEEEECCceeHhhCCCcCCCCCcccccCCeEEEECCeeecHHHHHHHcCCCCccc
Confidence            389999999999887788999999999999999999997  35789999999999999999999  776

>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=99.50  E-value=1.5e-14  Score=99.38  Aligned_cols=68  Identities=16%  Similarity=0.455  Sum_probs=61.6

Q ss_pred             CCCCcCCCceEec-CcceeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCCCCC
Q 029070          109 REKCVGCKNTVYP-TEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQ  176 (199)
Q Consensus       109 ~~~C~~C~~~I~~-~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~~~~  176 (199)
                      .++|++|+++|.+ .+.|.++++.||+.||+|..|+++|.+..|+..+|++||..||.++|++++....
T Consensus         5 ~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~C~~C~   73 (101)
T 2cup_A            5 SSGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSPKCKGCF   73 (101)
T ss_dssp             CCBCSSSCCBCCSSSCEEEETTEEEETTTCCCSSSCCCTTSSCCEEETTEEECHHHHTTCCCCBCSSSC
T ss_pred             CCcCcccCCcccCCceEEEECccChhhcCCcccccCCCCCcCeeECcCCEEEChhHhhhhcCCccccCC
Confidence            3899999999985 5667899999999999999999999887899999999999999999999997443

>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=99.50  E-value=1.2e-14  Score=103.36  Aligned_cols=61  Identities=18%  Similarity=0.463  Sum_probs=55.9

Q ss_pred             CCCCcCCCceEecCcceeecCccccccCeecccCCCCCC--CCCeeeeCCccccHhHHHhHhc
Q 029070          109 REKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVIS--PSNYIAHEGRLYCKHHHNQLIK  169 (199)
Q Consensus       109 ~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~--~~~~~~~~g~~yC~~c~~~~~~  169 (199)
                      .++|++|+++|.+.+.+.++++.||+.||+|..|+++|.  +..|+.++|.+||..||.++|+
T Consensus        61 ~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~~g~~f~~~dg~~yC~~cy~~~Fg  123 (123)
T 2l4z_A           61 WKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG  123 (123)
T ss_dssp             CSBBSSSSSBCCSSSEEEETTEEEETTTSBCTTTCCBGGGTTCCCBCSSSCCBCHHHHHHHCC
T ss_pred             CCcCcCCCCCcCCcEEEEeCCcEEcccccCcCcCCCcccccCCceEEECCEEeCHHHhhhhcC
Confidence            389999999999776688999999999999999999997  4589999999999999999985

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

Probab=99.49  E-value=2e-14  Score=102.60  Aligned_cols=67  Identities=15%  Similarity=0.343  Sum_probs=62.1

Q ss_pred             CCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCCCCC
Q 029070          110 EKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQ  176 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~~~~  176 (199)
                      ++|++|+++|.+.+.+.++++.||++||+|..|+++|.+..|+..+|++||..||.++|++++....
T Consensus         4 ~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~   70 (126)
T 2xqn_T            4 PRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVVCQGCH   70 (126)
T ss_dssp             CBBTTTSSBCCSSCEEEETTEEECGGGSBCTTTCCBCTTSEEEEETTEEEEHHHHHHHSCCBCTTTC
T ss_pred             CCCccCCCEeCCceEEeeCCCCccCCCCCcCCCCCCCCcCEEEeECCEEechHHhCcCcCccCcccC
Confidence            8999999999987778899999999999999999999988899999999999999999999997433

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

Probab=99.47  E-value=3.1e-14  Score=89.97  Aligned_cols=58  Identities=26%  Similarity=0.684  Sum_probs=53.3

Q ss_pred             CCCcCCCceEecC-cceeecCcccc--ccCeecccCCCCCCCCCeeeeCCcccc-HhHHHhH
Q 029070          110 EKCVGCKNTVYPT-EKVSVNGTPYH--KSCFKCSHGGCVISPSNYIAHEGRLYC-KHHHNQL  167 (199)
Q Consensus       110 ~~C~~C~~~I~~~-~~v~~~~~~~H--~~Cf~C~~C~~~l~~~~~~~~~g~~yC-~~c~~~~  167 (199)
                      ++|++|+++|.+. +.|.++++.||  ++||+|..|+++|.+..|+..+|+||| .+||.++
T Consensus         3 ~~C~~C~~~I~~~~~~v~a~~~~wH~~~~CF~C~~C~~~L~~~~f~~~~g~~yC~~~C~~k~   64 (65)
T 2iyb_E            3 VVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKRM   64 (65)
T ss_dssp             EECTTTSSEECTTSCEEEETTEEEETTTTTSBCTTTCCBCTTSCCEEETTEEESSHHHHHTT
T ss_pred             CCCcCCCCeeccCceEEEECCCccCCCCCCEECCCCCCcCCCCceEEECCEEecCHHHhhhh
Confidence            7999999999974 56889999999  999999999999998889999999999 8999764

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

Probab=99.47  E-value=2.2e-14  Score=108.81  Aligned_cols=67  Identities=19%  Similarity=0.429  Sum_probs=60.0

Q ss_pred             CCCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCCCCC
Q 029070          109 REKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQ  176 (199)
Q Consensus       109 ~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~~~~  176 (199)
                      .++|.+|+++|.+.+.+.+.++.||+.||+|..|+++|.+..| .++|++||..||.++|+++|....
T Consensus        60 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f-~~~g~~yC~~~y~~~f~~kC~~C~  126 (182)
T 2jtn_A           60 IPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRFGTKCAACQ  126 (182)
T ss_dssp             CCBCBTSSSBCCCSEEEEETTEEECSSTTSCTTTCCCCSSCCE-EETTEEECHHHHHHTTSCCCTTTC
T ss_pred             CCcCccCCCCccCceeEEecCCeEccccCccCCCCCccCCCce-eECCEeeecCccccccccccccCC
Confidence            3899999999998766779999999999999999999998664 789999999999999999997443

>1v6g_A Actin binding LIM protein 2; LIM domain, zinc binding domain, ablim2, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.44  E-value=2.2e-14  Score=94.63  Aligned_cols=61  Identities=23%  Similarity=0.534  Sum_probs=53.2

Q ss_pred             CCccccccCceeecceeEEeCCcccccccceeccCcccccCCcccccCCc-ccccccHHHHhh
Q 029070            8 TQQKCMACDKTVYLVDKLTADNRIYHKACFRCHHCKGTLKLGNYNSFEGV-LYCRPHFDQLFK   69 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~-~yC~~c~~~~~~   69 (199)
                      ..++|..|+++|. +++|.++++.||++||+|..|+++|..+.|+..++. +||..||.+++.
T Consensus        14 ~~~~C~~C~~~I~-~~~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~~~~C~~C~~~~~~   75 (81)
T 1v6g_A           14 YGTRCFSCDQFIE-GEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCSLPVSV   75 (81)
T ss_dssp             CCCBCTTTCCBCC-SCCEEETTEEECTTTSSCSSSCCCCCSSSCEEEETTEEEEHHHHSCCSS
T ss_pred             hCCcCccccCEec-cceEEECCceeCccCCccccCCCCCCCCCEEEeCCCCEEChhhhcccCC
Confidence            3579999999997 789999999999999999999999998777766665 699999977664

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

Probab=99.42  E-value=1.8e-13  Score=98.29  Aligned_cols=64  Identities=19%  Similarity=0.432  Sum_probs=58.7

Q ss_pred             CCCcCCCceEecCcceeecCccccccCeecccCCCCCC--CCCeeeeCCccccHhHHHhHhcC--CCC
Q 029070          110 EKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVIS--PSNYIAHEGRLYCKHHHNQLIKE--KGN  173 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~--~~~~~~~~g~~yC~~c~~~~~~~--k~~  173 (199)
                      ++|++|+++|.+.+.|.++++.||++||+|..|+.+|.  +..|+..+|++||..||.++|++  ++.
T Consensus         3 ~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~~~~C~   70 (131)
T 2xjy_A            3 LTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCA   70 (131)
T ss_dssp             CBBTTTCCBCCSSEEEEETTEEEETTTCBCTTTCCBCSSTTCCEEEETTEEECHHHHHHHHCCCEECT
T ss_pred             ccCcCCCCEeCCcEEEEECCCcccHHHcccCcCCCccccCCCeEEEECCEEeecCchhhhCCCccChh
Confidence            79999999999776688999999999999999999996  35799999999999999999998  675

>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=99.36  E-value=5.6e-13  Score=99.85  Aligned_cols=65  Identities=18%  Similarity=0.420  Sum_probs=59.3

Q ss_pred             CCCcCCCceEecCcceeecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCCCC
Q 029070          110 EKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLS  175 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~~~  175 (199)
                      ++|.+|+++|.+.+.+.++++.||+.||+|..|+++|.+.. +..+|++||..||.++|+++|...
T Consensus         7 ~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~-f~~~g~~yC~~~y~~~f~~~C~~C   71 (169)
T 2rgt_A            7 PMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERC-FSRGESVYCKDDFFKRFGTKCAAC   71 (169)
T ss_dssp             CBBSSSSSBCCSSSCEECSSCEECTTTSBCTTTCCBCCSCC-EESSSCEECHHHHHHHHSCBCTTT
T ss_pred             CccccCCCccCCcEEEEECCcEEccccCccCCCCCcCCCCC-cccCCeeeeccccccccccccccc
Confidence            89999999999876678999999999999999999999866 478999999999999999999743

>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=99.31  E-value=7.4e-13  Score=100.86  Aligned_cols=64  Identities=17%  Similarity=0.452  Sum_probs=58.8

Q ss_pred             CCCcCCCceEecCcceeecCccccccCeecccCCCCCCC--CCeeeeCCccccHhHHHhHhcC--CCC
Q 029070          110 EKCVGCKNTVYPTEKVSVNGTPYHKSCFKCSHGGCVISP--SNYIAHEGRLYCKHHHNQLIKE--KGN  173 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~~~~~~~H~~Cf~C~~C~~~l~~--~~~~~~~g~~yC~~c~~~~~~~--k~~  173 (199)
                      ++|+.|+++|.+.+.+.++++.||++||+|..|+++|..  ..|+..+|++||..||.++|++  +|.
T Consensus         6 ~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~~g~~yC~~cy~~~~~~~~~C~   73 (188)
T 1rut_X            6 KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGACS   73 (188)
T ss_dssp             CBBTTTCCBCCCSEEEEETTEEECGGGCBCTTTCCBHHHHCSEEEEETTEEECHHHHHHHHSCCEECT
T ss_pred             CcCccCCCEeCCceeEEecCcEecccCcccCCCCcccccCCceEEEeCCccccccccccccccCCccc
Confidence            899999999997766789999999999999999999985  5899999999999999999998  575

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

Probab=98.40  E-value=7.1e-08  Score=51.28  Aligned_cols=29  Identities=38%  Similarity=0.912  Sum_probs=27.5

Q ss_pred             CccccccCceeecceeEEeCCcccccccc
Q 029070            9 QQKCMACDKTVYLVDKLTADNRIYHKACF   37 (199)
Q Consensus         9 ~~~C~~C~~~I~~~~~~~~~~~~~H~~CF   37 (199)
                      .++|..|++.|+..|.+.+.|+.||..||
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            56899999999999999999999999998

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

Probab=98.22  E-value=4e-07  Score=48.32  Aligned_cols=28  Identities=46%  Similarity=0.954  Sum_probs=26.9

Q ss_pred             CCCcCCCceEecCcceeecCccccccCe
Q 029070          110 EKCVGCKNTVYPTEKVSVNGTPYHKSCF  137 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~~~~~~~H~~Cf  137 (199)
                      ++|..|++.|++.|.+.+.++.||..||
T Consensus         4 ~~C~~C~k~Vy~~Ek~~~~g~~~Hk~CF   31 (31)
T 1zfo_A            4 PNCARCGKIVYPTEKVNCLDKFWHKACF   31 (31)
T ss_dssp             CBCSSSCSBCCGGGCCCSSSSCCCGGGC
T ss_pred             CcCCccCCEEecceeEEECCeEecccCC
Confidence            7999999999999999999999999998

>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD domain, histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens}

Probab=91.28  E-value=0.4  Score=32.37  Aligned_cols=97  Identities=19%  Similarity=0.362  Sum_probs=56.5

Q ss_pred             CCCCccccccCceeecceeEE--eCCcccccccceeccCcccccCCcccccCCcccccccHHHHhhccCCCCCCCCCCCC
Q 029070            6 AGTQQKCMACDKTVYLVDKLT--ADNRIYHKACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTGSLDKSFEGTPK   83 (199)
Q Consensus         6 ~~~~~~C~~C~~~I~~~~~~~--~~~~~~H~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~   83 (199)
                      ......|..|+..-...+.|.  .=++.||..|+.=..     .    ....+..+|..|                    
T Consensus         4 ~~~~~~C~~C~~~g~~~~ll~C~~C~~~~H~~Cl~~~~-----~----~~~~~~W~C~~C--------------------   54 (111)
T 2ysm_A            4 GSSGANCAVCDSPGDLLDQFFCTTCGQHYHGMCLDIAV-----T----PLKRAGWQCPEC--------------------   54 (111)
T ss_dssp             CCCCSCBTTTCCCCCTTTSEECSSSCCEECTTTTTCCC-----C----TTTSTTCCCTTT--------------------
T ss_pred             CCCCCCCcCCCCCCCCcCCeECCCCCCCcChHHhCCcc-----c----cccccCccCCcC--------------------
Confidence            345678999987632122232  225778888864321     1    123466777777                    


Q ss_pred             ccCCCCCCCCCCCCcccccccCCCCCCCCcCCCceEecCccee--ecCccccccCeecccCCCCCCCCCeeeeCCccccH
Q 029070           84 IAKPEKPIDGEKPNVAKVSTMFGGTREKCVGCKNTVYPTEKVS--VNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCK  161 (199)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~--~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~  161 (199)
                                                ..|..|++...+..++.  .=++.||..|..-     +|..    .-.+.-+|.
T Consensus        55 --------------------------~~C~~C~~~~~~~~ll~Cd~C~~~yH~~Cl~p-----pl~~----~P~g~W~C~   99 (111)
T 2ysm_A           55 --------------------------KVCQNCKQSGEDSKMLVCDTCDKGYHTFCLQP-----VMKS----VPTNGWKCK   99 (111)
T ss_dssp             --------------------------CCCTTTCCCSCCTTEEECSSSCCEEEGGGSSS-----CCSS----CCSSCCCCH
T ss_pred             --------------------------CcccccCccCCCCCeeECCCCCcHHhHHhcCC-----cccc----CCCCCcCCc
Confidence                                      46888887654434344  3367899998753     2321    123567898


Q ss_pred             hHHHh
Q 029070          162 HHHNQ  166 (199)
Q Consensus       162 ~c~~~  166 (199)
                      .|...
T Consensus       100 ~C~~c  104 (111)
T 2ysm_A          100 NCRIC  104 (111)
T ss_dssp             HHHCC
T ss_pred             CCcCc
Confidence            88654

>2kwj_A Zinc finger protein DPF3; acetyl-lysine, transcription regulation, nucleus, metal BIND protein; HET: ALY; NMR {Homo sapiens} PDB: 2kwk_A 2kwn_A* 2kwo_A*

Probab=85.68  E-value=0.69  Score=31.45  Aligned_cols=49  Identities=18%  Similarity=0.367  Sum_probs=29.5

Q ss_pred             CCCcCCCceEecCccee--ecCccccccCeecccCCCCCCCCCeeeeCCccccHhHHHhH
Q 029070          110 EKCVGCKNTVYPTEKVS--VNGTPYHKSCFKCSHGGCVISPSNYIAHEGRLYCKHHHNQL  167 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~--~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~  167 (199)
                      ..|..|++...+.+.|.  .=++.||..|..=     +|..    .-.|.-+|..|....
T Consensus        59 ~~C~~C~~~~~~~~ll~Cd~C~~~yH~~Cl~p-----pl~~----~P~g~W~C~~C~~~~  109 (114)
T 2kwj_A           59 KSCILCGTSENDDQLLFCDDCDRGYHMYCLNP-----PVAE----PPEGSWSCHLCWELL  109 (114)
T ss_dssp             CCCTTTTCCTTTTTEEECSSSCCEEETTTSSS-----CCSS----CCSSCCCCHHHHHHH
T ss_pred             CccCcccccCCCCceEEcCCCCccccccccCC-----CccC----CCCCCeECccccchh
Confidence            56888877644444444  2357799888652     2322    224567899886543

>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=80.46  E-value=1.6  Score=26.07  Aligned_cols=33  Identities=18%  Similarity=0.421  Sum_probs=24.0

Q ss_pred             cceeccCcccccCCcccccCCcccccccHHHHhh
Q 029070           36 CFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFK   69 (199)
Q Consensus        36 CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~   69 (199)
                      =+.|..|...+.+. ....=|..||..|..+.+.
T Consensus        15 ~~~C~IC~~~~~~p-~~~~CgH~fC~~Ci~~~~~   47 (66)
T 2ecy_A           15 KYKCEKCHLVLCSP-KQTECGHRFCESCMAALLS   47 (66)
T ss_dssp             CEECTTTCCEESSC-CCCSSSCCCCHHHHHHHHT
T ss_pred             CCCCCCCChHhcCe-eECCCCCHHHHHHHHHHHH
Confidence            37788888877643 3345688899999988763

---

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	199
d2d8ya2	42	g.39.1.3 (A:44-85) Eplin, LIMA1 {Human (Homo sapie	2e-15
d2d8ya2	42	g.39.1.3 (A:44-85) Eplin, LIMA1 {Human (Homo sapie	1e-13
d2co8a2	36	g.39.1.3 (A:8-43) Nedd9 interacting protein with c	9e-11
d2co8a2	36	g.39.1.3 (A:8-43) Nedd9 interacting protein with c	1e-08
d2d8ya1	35	g.39.1.3 (A:9-43) Eplin, LIMA1 {Human (Homo sapien	1e-10
d2d8ya1	35	g.39.1.3 (A:9-43) Eplin, LIMA1 {Human (Homo sapien	2e-08
d1b8ta3	43	g.39.1.3 (A:101-143) Cysteine-rich (intestinal) pr	3e-10
d1b8ta3	43	g.39.1.3 (A:101-143) Cysteine-rich (intestinal) pr	2e-09
d2cu8a1	30	g.39.1.3 (A:8-37) Cysteine-rich (intestinal) prote	7e-04
d2cu8a1	30	g.39.1.3 (A:8-37) Cysteine-rich (intestinal) prote	0.002
d1b8ta1	35	g.39.1.3 (A:1-35) Cysteine-rich (intestinal) prote	0.002
d1b8ta1	35	g.39.1.3 (A:1-35) Cysteine-rich (intestinal) prote	0.002
d1zfoa_	30	g.39.1.4 (A:) LASP-1 {Pig (Sus scrofa) [TaxId: 982	0.004
d1zfoa_	30	g.39.1.4 (A:) LASP-1 {Pig (Sus scrofa) [TaxId: 982	0.004
d1ibia1	28	g.39.1.3 (A:117-144) Cysteine-rich (intestinal) pr	0.004

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

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

 Score = 65.1 bits (159), Expect = 2e-15
 Identities = 21/41 (51%), Positives = 27/41 (65%)

Query: 38 RCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTGSLDKSF 78
          RC +C   L LG Y S  G +YC+PHF+QLFK  G+ D+ F
Sbjct: 1  RCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNYDEGF 41

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

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

 Score = 60.1 bits (146), Expect = 1e-13
 Identities = 17/39 (43%), Positives = 23/39 (58%)

Query: 138 KCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQ 176
           +CS+    +S   Y +  GR+YCK H NQL K KGN  +
Sbjct: 1   RCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNYDE 39

>d2co8a2 g.39.1.3 (A:8-43) Nedd9 interacting protein with calponin homology, NICAL (MICAL1) {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: Nedd9 interacting protein with calponin homology, NICAL (MICAL1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.5 bits (126), Expect = 9e-11
 Identities = 9/32 (28%), Positives = 19/32 (59%)

Query: 6  AGTQQKCMACDKTVYLVDKLTADNRIYHKACF 37
          AG    C  C + +Y++++L  +   +H++CF
Sbjct: 5  AGAGDLCALCGEHLYVLERLCVNGHFFHRSCF 36

>d2co8a2 g.39.1.3 (A:8-43) Nedd9 interacting protein with calponin homology, NICAL (MICAL1) {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: Nedd9 interacting protein with calponin homology, NICAL (MICAL1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.1 bits (112), Expect = 1e-08
 Identities = 12/32 (37%), Positives = 18/32 (56%)

Query: 106 GGTREKCVGCKNTVYPTEKVSVNGTPYHKSCF 137
            G  + C  C   +Y  E++ VNG  +H+SCF
Sbjct: 5   AGAGDLCALCGEHLYVLERLCVNGHFFHRSCF 36

>d2d8ya1 g.39.1.3 (A:9-43) Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]} Length = 35

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

 Score = 52.1 bits (125), Expect = 1e-10
 Identities = 12/32 (37%), Positives = 23/32 (71%)

Query: 6  AGTQQKCMACDKTVYLVDKLTADNRIYHKACF 37
          A  ++ C+ C KTVY +++L A+ +++H +CF
Sbjct: 4  APARETCVECQKTVYPMERLLANQQVFHISCF 35

>d2d8ya1 g.39.1.3 (A:9-43) Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]} Length = 35

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

 Score = 46.3 bits (110), Expect = 2e-08
 Identities = 15/31 (48%), Positives = 19/31 (61%)

Query: 107 GTREKCVGCKNTVYPTEKVSVNGTPYHKSCF 137
             RE CV C+ TVYP E++  N   +H SCF
Sbjct: 5   PARETCVECQKTVYPMERLLANQQVFHISCF 35

>d1b8ta3 g.39.1.3 (A:101-143) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]} Length = 43

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

 Score = 51.4 bits (123), Expect = 3e-10
 Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 1/42 (2%)

Query: 96  PNVAKVSTMFGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCF 137
           PN ++++   GG+ + C  C   VY  EKV   G  +HKSCF
Sbjct: 3   PNASRMAQKVGGS-DGCPRCGQAVYAAEKVIGAGKSWHKSCF 43

>d1b8ta3 g.39.1.3 (A:101-143) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]} Length = 43

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

 Score = 49.1 bits (117), Expect = 2e-09
 Identities = 11/36 (30%), Positives = 17/36 (47%)

Query: 2  AAAFAGTQQKCMACDKTVYLVDKLTADNRIYHKACF 37
           A   G    C  C + VY  +K+    + +HK+CF
Sbjct: 8  MAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCF 43

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

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

 Score = 33.6 bits (77), Expect = 7e-04
 Identities = 14/27 (51%), Positives = 15/27 (55%)

Query: 110 EKCVGCKNTVYPTEKVSVNGTPYHKSC 136
            KC  C  TVY  EKVS  G  +HK C
Sbjct: 3   SKCPKCDKTVYFAEKVSSLGKDWHKFC 29

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

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

 Score = 32.5 bits (74), Expect = 0.002
 Identities = 12/26 (46%), Positives = 18/26 (69%)

Query: 11 KCMACDKTVYLVDKLTADNRIYHKAC 36
          KC  CDKTVY  +K+++  + +HK C
Sbjct: 4  KCPKCDKTVYFAEKVSSLGKDWHKFC 29

>d1b8ta1 g.39.1.3 (A:1-35) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]} Length = 35

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

 Score = 32.6 bits (74), Expect = 0.002
 Identities = 11/31 (35%), Positives = 18/31 (58%)

Query: 7  GTQQKCMACDKTVYLVDKLTADNRIYHKACF 37
          G  +KC  C K VY  +++  +   +HK+CF
Sbjct: 5  GGGKKCGVCQKAVYFAEEVQCEGSSFHKSCF 35

>d1b8ta1 g.39.1.3 (A:1-35) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]} Length = 35

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

 Score = 32.6 bits (74), Expect = 0.002
 Identities = 14/31 (45%), Positives = 19/31 (61%)

Query: 107 GTREKCVGCKNTVYPTEKVSVNGTPYHKSCF 137
           G  +KC  C+  VY  E+V   G+ +HKSCF
Sbjct: 5   GGGKKCGVCQKAVYFAEEVQCEGSSFHKSCF 35

>d1zfoa_ g.39.1.4 (A:) LASP-1 {Pig (Sus scrofa) [TaxId: 9823]} Length = 30

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]

 Score = 31.8 bits (72), Expect = 0.004
 Identities = 11/28 (39%), Positives = 16/28 (57%)

Query: 10 QKCMACDKTVYLVDKLTADNRIYHKACF 37
            C  C K VY  +K+   ++ +HKACF
Sbjct: 3  PNCARCGKIVYPTEKVNCLDKFWHKACF 30

>d1zfoa_ g.39.1.4 (A:) LASP-1 {Pig (Sus scrofa) [TaxId: 9823]} Length = 30

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]

 Score = 31.8 bits (72), Expect = 0.004
 Identities = 13/27 (48%), Positives = 16/27 (59%)

Query: 111 KCVGCKNTVYPTEKVSVNGTPYHKSCF 137
            C  C   VYPTEKV+     +HK+CF
Sbjct: 4   NCARCGKIVYPTEKVNCLDKFWHKACF 30

>d1ibia1 g.39.1.3 (A:117-144) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]} Length = 28

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]

 Score = 31.4 bits (71), Expect = 0.004
 Identities = 14/27 (51%), Positives = 18/27 (66%)

Query: 110 EKCVGCKNTVYPTEKVSVNGTPYHKSC 136
           EKC  C ++VY  EKV   G P+HK+C
Sbjct: 2   EKCSRCGDSVYAAEKVIGAGKPWHKNC 28

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	199
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	99.14
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	99.01
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.87
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	98.8
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.8
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.78
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	98.74
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.73
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	98.61
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.59
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.56
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	98.55
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	98.5
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	98.49
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	98.49
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.48
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.47
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.46
d2co8a2	36	Nedd9 interacting protein with calponin homology,	98.46
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	98.45
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.44
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	98.44
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	98.42
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.42
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	98.41
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	98.4
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	98.39
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	98.37
d2co8a2	36	Nedd9 interacting protein with calponin homology,	98.34
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.33
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.32
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.31
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.3
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	98.28
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	98.27
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.25
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	98.23
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	98.2
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.19
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	98.17
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	98.17
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.16
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	98.15
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	98.15
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	98.15
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	98.13
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	98.12
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.11
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.1
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	98.09
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	98.08
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.08
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	98.08
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	98.05
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.04
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	98.03
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	98.01
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.93
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	97.87
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.86
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	97.85
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	97.84
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.82
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.82
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	97.78
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	97.77
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	97.76
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.75
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	97.75
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.73
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.72
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.69
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	97.68
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	97.64
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	97.64
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	97.63
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.61
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.61
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.59
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	97.59
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.57
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	97.56
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	97.49
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.49
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	97.49
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	97.43
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	97.43
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	97.38
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	97.37
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	97.33
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.3
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	97.3
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.12
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	97.11
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	97.1
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.03
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	97.01
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	96.97
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	96.92
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	96.92
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.85
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	96.74
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	96.54
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	96.49
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	96.46
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	96.21
d1x61a1	27	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.07
d1rutx2	34	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	95.92
d1rutx4	33	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	95.56
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	95.44
d2cora1	31	Pinch (particularly interesting new Cys-His) prote	95.43
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	95.41
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	95.39
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	95.38
d1x61a1	27	Thyroid receptor interacting protein 6, TRIP6 {Hum	95.37
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	95.32
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	95.29
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	95.11
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	94.79
d1rutx2	34	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	94.62
d1rutx4	33	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	94.59
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	94.26
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	94.15
d2cora1	31	Pinch (particularly interesting new Cys-His) prote	93.73
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	92.85
d1x68a2	34	Four and a half LIM domains protein 5, FHL-5 {Huma	92.27
d2co8a1	33	Nedd9 interacting protein with calponin homology,	90.7
d1j2oa2	33	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	90.66
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	90.17
d1x68a2	34	Four and a half LIM domains protein 5, FHL-5 {Huma	88.67
d1x4la2	30	Four and a half LIM domains protein 2, FHL2 {Human	88.67
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	88.09
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	87.05
d1v6ga2	40	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	86.2
d1x4la2	30	Four and a half LIM domains protein 2, FHL2 {Human	85.33
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	80.76
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	80.73

>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=99.14  E-value=1.9e-11  Score=67.31  Aligned_cols=42  Identities=43%  Similarity=0.712  Sum_probs=39.7

Q ss_pred             ecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCCCCCcCC
Q 029070          138 KCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGNLSQLEG  179 (199)
Q Consensus       138 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~~~~~~~  179 (199)
                      +|..|++.|+.+.|...+|.+||++||.++|++||++|++++
T Consensus         1 rC~~C~~~Ls~~~yas~~G~lYCkpHf~qLF~~kGny~~gfg   42 (42)
T d2d8ya2           1 RCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNYDEGFG   42 (42)
T ss_dssp             BCTTTCCBCCTTTCCCSSSCCCCHHHHHHHSCCCSCCCSCCC
T ss_pred             CcCcCCCCccCCcchhhCCEeccHHHHHHHHHhhcCCCCCCC
Confidence            689999999999999999999999999999999999999874

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

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

Probab=99.01  E-value=3.1e-11  Score=64.42  Aligned_cols=34  Identities=35%  Similarity=0.773  Sum_probs=32.7

Q ss_pred             ceeccCcccccCCcccccCCcccccccHHHHhhc
Q 029070           37 FRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKR   70 (199)
Q Consensus        37 F~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~   70 (199)
                      |+|+.|+++|.+..|++++|++||+.||.++|+|
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            8999999999999999999999999999999985

>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=98.87  E-value=3.4e-10  Score=60.40  Aligned_cols=30  Identities=33%  Similarity=0.734  Sum_probs=27.5

Q ss_pred             CCCccccccCceeecceeEEeCCcccccccc
Q 029070            7 GTQQKCMACDKTVYLVDKLTADNRIYHKACF   37 (199)
Q Consensus         7 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF   37 (199)
                      ..+++|.+|+++| .+++|.|+|+.||++||
T Consensus         6 ~fapkC~~C~~~I-~g~~v~Al~~~wHpeCF   35 (35)
T d1x3ha1           6 MFSPKCGGCNRPV-LENYLSAMDTVWHPECF   35 (35)
T ss_dssp             CCSCBCTTTCCBC-CSSCEEETTEEECTTTC
T ss_pred             HhChhhhhcCCcc-cchheeecCCccCcccC
Confidence            3478999999999 59999999999999998

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

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

Probab=98.80  E-value=1.2e-09  Score=59.90  Aligned_cols=41  Identities=51%  Similarity=1.167  Sum_probs=38.5

Q ss_pred             eeccCcccccCCcccccCCcccccccHHHHhhccCCCCCCC
Q 029070           38 RCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTGSLDKSF   78 (199)
Q Consensus        38 ~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~~~~~~~   78 (199)
                      +|..|+..|..++|...+|.+||+.||.++|+++++++++|
T Consensus         1 rC~~C~~~Ls~~~yas~~G~lYCkpHf~qLF~~kGny~~gf   41 (42)
T d2d8ya2           1 RCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNYDEGF   41 (42)
T ss_dssp             BCTTTCCBCCTTTCCCSSSCCCCHHHHHHHSCCCSCCCSCC
T ss_pred             CcCcCCCCccCCcchhhCCEeccHHHHHHHHHhhcCCCCCC
Confidence            68999999999999999999999999999999999888765

>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=98.80  E-value=1.3e-09  Score=60.27  Aligned_cols=32  Identities=19%  Similarity=0.327  Sum_probs=28.8

Q ss_pred             cCCCCccccccCceeecceeEEeCCcccccccc
Q 029070            5 FAGTQQKCMACDKTVYLVDKLTADNRIYHKACF   37 (199)
Q Consensus         5 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF   37 (199)
                      .++..++|..|+++| .+..|.|+|+.||++||
T Consensus        14 ~~~r~P~C~~C~~pI-~g~~vtAlgk~WHPEhF   45 (45)
T d2dara2          14 AGKRTPMCAHCNQVI-RGPFLVALGKSWHPEEF   45 (45)
T ss_dssp             TTTCCCBBSSSCCBC-CSCEEEETTEEECTTTC
T ss_pred             CCCCCeeccccCCcc-cCceeeecCCccCcCCC
Confidence            345679999999999 59999999999999998

>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=98.78  E-value=2.7e-10  Score=60.75  Aligned_cols=27  Identities=37%  Similarity=0.775  Sum_probs=24.7

Q ss_pred             CCCcCCCceEecCcceeecCccccccCe
Q 029070          110 EKCVGCKNTVYPTEKVSVNGTPYHKSCF  137 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~~~~~~~H~~Cf  137 (199)
                      ++|++|+++|.+ +.|+++++.||++||
T Consensus         9 pkC~~C~~~I~g-~~v~Al~~~wHpeCF   35 (35)
T d1x3ha1           9 PKCGGCNRPVLE-NYLSAMDTVWHPECF   35 (35)
T ss_dssp             CBCTTTCCBCCS-SCEEETTEEECTTTC
T ss_pred             hhhhhcCCcccc-hheeecCCccCcccC
Confidence            999999999974 458899999999998

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

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

Probab=98.74  E-value=1.8e-09  Score=57.44  Aligned_cols=34  Identities=26%  Similarity=0.530  Sum_probs=32.4

Q ss_pred             eecccCCCCCCCCCeeeeCCccccHhHHHhHhcC
Q 029070          137 FKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKE  170 (199)
Q Consensus       137 f~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~  170 (199)
                      |+|..|+++|....|+.++|+|||+.||.++|++
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            7899999999988999999999999999999986

>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=98.73  E-value=7.3e-09  Score=58.68  Aligned_cols=44  Identities=23%  Similarity=0.466  Sum_probs=38.8

Q ss_pred             ecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCC-CCCcCCcc
Q 029070          138 KCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGN-LSQLEGEH  181 (199)
Q Consensus       138 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~-~~~~~~~~  181 (199)
                      +|..|++.|++.....+|++|||+.||.++|++|+. +.++.+-.
T Consensus         1 KC~~C~k~Lds~t~~ehdg~~YCk~CY~k~fGPKG~g~G~gaG~l   45 (49)
T d1b8ta4           1 RCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKGFGFGQGAGAL   45 (49)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHTCCCCCCCCCCCCCC
T ss_pred             ChhhcCCccCCCcccccCCcccchhhhhhccCCCccCcccCcccc
Confidence            589999999988888999999999999999999997 66665544

>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=98.59  E-value=2.2e-09  Score=55.68  Aligned_cols=27  Identities=26%  Similarity=0.787  Sum_probs=25.3

Q ss_pred             CCCcCCCceEecCcceeecCccccccCe
Q 029070          110 EKCVGCKNTVYPTEKVSVNGTPYHKSCF  137 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~~~~~~~H~~Cf  137 (199)
                      ++|..|+++|..+. |++.+..||.+||
T Consensus         9 ~~C~~Ckk~It~GG-vtY~dqpWHkeCF   35 (35)
T d2cuqa2           9 PRCARCSKTLTQGG-VTYRDQPWHRECL   35 (35)
T ss_dssp             CCCTTTCCCCCSCC-EESSSSEECTTTC
T ss_pred             HHHhhcCCccccCc-eeecCCcchhhhC
Confidence            89999999998776 9999999999998

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

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

Probab=98.56  E-value=1.5e-08  Score=56.32  Aligned_cols=33  Identities=30%  Similarity=0.769  Sum_probs=30.0

Q ss_pred             cCCCCccccccCceeecceeEEeCCcccccccc
Q 029070            5 FAGTQQKCMACDKTVYLVDKLTADNRIYHKACF   37 (199)
Q Consensus         5 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF   37 (199)
                      ..++...|..|++.|+..|.+.+.|+.||..||
T Consensus        11 ~~g~~~kC~~C~k~VY~~E~~~~~g~~~Hk~CF   43 (43)
T d1b8ta3          11 KVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCF   43 (43)
T ss_dssp             CCCCCEECTTTSCEECSSSCEEETTEEECTTTC
T ss_pred             ccCCCCcCccCCCEeeHHHHhhcCCCccccCCC
Confidence            345578999999999999999999999999998

>d2d8za2 g.39.1.3 (A:33-64) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=98.55  E-value=1.2e-08  Score=52.04  Aligned_cols=32  Identities=22%  Similarity=0.563  Sum_probs=30.0

Q ss_pred             eeccCcccccCCcccccCCcccccccHHHHhh
Q 029070           38 RCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFK   69 (199)
Q Consensus        38 ~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~   69 (199)
                      .|..|.++|.++.|..+|++|||-.||..+||
T Consensus         1 ~C~~C~~~L~GQry~~rd~~PyC~~Cf~~lfA   32 (32)
T d2d8za2           1 VCTACRKQLSGQRFTARDDFAYCLNCFCDLYA   32 (32)
T ss_dssp             BCSSSCCBCTTSCCEESSSSEECHHHHHHHTC
T ss_pred             CcccCCccccCceeeecCCCeehHHhhHhhcC
Confidence            48899999999999999999999999999875

>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=98.50  E-value=2.3e-08  Score=50.11  Aligned_cols=29  Identities=41%  Similarity=0.887  Sum_probs=27.3

Q ss_pred             CccccccCceeecceeEEeCCcccccccc
Q 029070            9 QQKCMACDKTVYLVDKLTADNRIYHKACF   37 (199)
Q Consensus         9 ~~~C~~C~~~I~~~~~~~~~~~~~H~~CF   37 (199)
                      ++.|++|+++|+..|.+.++|+.||..|+
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            57899999999999999999999999985

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

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

Probab=98.49  E-value=3e-08  Score=51.54  Aligned_cols=32  Identities=31%  Similarity=0.750  Sum_probs=28.4

Q ss_pred             cCCCCccccccCceeecceeEEeCCcccccccc
Q 029070            5 FAGTQQKCMACDKTVYLVDKLTADNRIYHKACF   37 (199)
Q Consensus         5 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF   37 (199)
                      |-.+..+|..|+++|. +..+.|+|+.|||.||
T Consensus         4 y~~tlEkC~~C~~~I~-driLrA~Gk~yHP~CF   35 (35)
T d2dloa1           4 YVATLEKCATCSQPIL-DRILRAMGKAYHPGCF   35 (35)
T ss_dssp             CCSSCCBCTTTCCBCC-SCCEEETTEEECTTTC
T ss_pred             HHHHHHHHHHhchHHH-HHHHHHhCCCCCCCCC
Confidence            4456789999999994 7889999999999998

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

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

Probab=98.49  E-value=4.2e-08  Score=54.82  Aligned_cols=36  Identities=28%  Similarity=0.568  Sum_probs=33.7

Q ss_pred             ecccCCCCCCCCCeeeeCCcccc-HhHHHhHhcCCCC
Q 029070          138 KCSHGGCVISPSNYIAHEGRLYC-KHHHNQLIKEKGN  173 (199)
Q Consensus       138 ~C~~C~~~l~~~~~~~~~g~~yC-~~c~~~~~~~k~~  173 (199)
                      +|..|++.|+++....++++||| +.||.++|++|+.
T Consensus         1 kC~~C~K~L~sg~~aeHdg~pYC~k~CY~~~FGPkG~   37 (48)
T d1imla2           1 KCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGF   37 (48)
T ss_dssp             BCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCCCS
T ss_pred             CchhcCcCcCCCChhhcCCcccccccchhhccCCCcc
Confidence            58999999999999999999999 7799999999985

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

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

Probab=98.48  E-value=1.6e-07  Score=56.10  Aligned_cols=47  Identities=17%  Similarity=0.250  Sum_probs=40.1

Q ss_pred             ecccCCCCCCCCCeeeeCCccccHhHHHhHhcCCCC-CCCcCCccccc
Q 029070          138 KCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKEKGN-LSQLEGEHEKT  184 (199)
Q Consensus       138 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~k~~-~~~~~~~~~~~  184 (199)
                      .|..|++.|++.....++++|||+.||.++|++|+. +..+.+..+..
T Consensus         1 ~C~~C~K~LdS~~~~eh~~e~YCk~CY~k~fGPkG~G~G~gag~l~~d   48 (65)
T d1b8ta2           1 LCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTD   48 (65)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHHSCCCCCCCCCCCCCCCC
T ss_pred             CchhcCCccCCCccccCCCcccchhhhccccCCCccccccccceeeec
Confidence            388999999998999999999999999999999997 66666555444

>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=98.47  E-value=2.5e-08  Score=56.42  Aligned_cols=35  Identities=26%  Similarity=0.672  Sum_probs=32.8

Q ss_pred             eeccCcccccCCcccccCCcccccccHHHHhhccC
Q 029070           38 RCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTG   72 (199)
Q Consensus        38 ~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~   72 (199)
                      +|..|++.|.+.....+|+++||+.||.++|+|++
T Consensus         1 KC~~C~k~Lds~t~~ehdg~~YCk~CY~k~fGPKG   35 (49)
T d1b8ta4           1 RCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKG   35 (49)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHTCCCC
T ss_pred             ChhhcCCccCCCcccccCCcccchhhhhhccCCCc
Confidence            68999999999999999999999999999999765

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

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

Probab=98.46  E-value=5.8e-08  Score=53.83  Aligned_cols=30  Identities=43%  Similarity=0.874  Sum_probs=28.2

Q ss_pred             CCCCCcCCCceEecCcceeecCccccccCe
Q 029070          108 TREKCVGCKNTVYPTEKVSVNGTPYHKSCF  137 (199)
Q Consensus       108 ~~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf  137 (199)
                      ...+|..|++.|++.|++.+.++.||..||
T Consensus        14 ~~~kC~~C~k~VY~~E~~~~~g~~~Hk~CF   43 (43)
T d1b8ta3          14 GSDGCPRCGQAVYAAEKVIGAGKSWHKSCF   43 (43)
T ss_dssp             CCEECTTTSCEECSSSCEEETTEEECTTTC
T ss_pred             CCCcCccCCCEeeHHHHhhcCCCccccCCC
Confidence            348999999999999999999999999998

>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=98.46  E-value=2.8e-08  Score=52.58  Aligned_cols=32  Identities=28%  Similarity=0.930  Sum_probs=30.2

Q ss_pred             CCCCccccccCceeecceeEEeCCcccccccc
Q 029070            6 AGTQQKCMACDKTVYLVDKLTADNRIYHKACF   37 (199)
Q Consensus         6 ~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF   37 (199)
                      +++..+|..|++.|++.|.+.++|+.||..||
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            56688999999999999999999999999998

>d2d8za2 g.39.1.3 (A:33-64) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=98.45  E-value=6.2e-08  Score=49.33  Aligned_cols=32  Identities=19%  Similarity=0.335  Sum_probs=29.5

Q ss_pred             ecccCCCCCCCCCeeeeCCccccHhHHHhHhc
Q 029070          138 KCSHGGCVISPSNYIAHEGRLYCKHHHNQLIK  169 (199)
Q Consensus       138 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~  169 (199)
                      .|..|.++|.+.+|.++|++|||..||..+|+
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            37889999999999999999999999999874

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

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

Probab=98.44  E-value=4.2e-08  Score=50.27  Aligned_cols=31  Identities=19%  Similarity=0.609  Sum_probs=28.9

Q ss_pred             eeccCcccccCCcccccCCcccccccHHHHh
Q 029070           38 RCHHCKGTLKLGNYNSFEGVLYCRPHFDQLF   68 (199)
Q Consensus        38 ~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~   68 (199)
                      +|..|.+++.++.|++.+|+|||+.+|.++.
T Consensus         1 VC~~C~~PF~~~~Fy~~~g~PyCe~HyH~~~   31 (32)
T d1x3ha2           1 VCGDCFTSFSTGSFFELDGRPFCELHYHHRR   31 (32)
T ss_dssp             BCSSSCCBSCSSCCEESSSCEECHHHHHHHH
T ss_pred             CcCccCCcCCCCCeEeECCccchHHhhhhhc
Confidence            5899999999999999999999999998864

>d1zfoa_ g.39.1.4 (A:) LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LASP-1
domain: LASP-1
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=98.44  E-value=2.4e-08  Score=49.32  Aligned_cols=29  Identities=38%  Similarity=0.912  Sum_probs=27.6

Q ss_pred             CccccccCceeecceeEEeCCcccccccc
Q 029070            9 QQKCMACDKTVYLVDKLTADNRIYHKACF   37 (199)
Q Consensus         9 ~~~C~~C~~~I~~~~~~~~~~~~~H~~CF   37 (199)
                      ++.|++|++.|++.|.+.-+++.||..||
T Consensus         2 n~~CaRC~k~VYp~Ekl~ClDk~WHK~CF   30 (30)
T d1zfoa_           2 NPNCARCGKIVYPTEKVNCLDKFWHKACF   30 (30)
T ss_dssp             CCBCSSSCSBCCGGGCCCSSSSCCCGGGC
T ss_pred             CCcccccCCccccHHHhhhhHHHHhhccC
Confidence            47799999999999999999999999998

>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=98.42  E-value=6.8e-08  Score=50.87  Aligned_cols=31  Identities=35%  Similarity=0.973  Sum_probs=29.1

Q ss_pred             CCCccccccCceeecceeEEeCCcccccccc
Q 029070            7 GTQQKCMACDKTVYLVDKLTADNRIYHKACF   37 (199)
Q Consensus         7 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF   37 (199)
                      ....+|..|++.|+..|.+.++|+.||..||
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            4578999999999999999999999999998

>d2cuqa1 g.39.1.3 (A:43-74) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=98.42  E-value=4.5e-08  Score=49.18  Aligned_cols=32  Identities=28%  Similarity=0.581  Sum_probs=29.9

Q ss_pred             eeccCcccccCCcccccCCcccccccHHHHhh
Q 029070           38 RCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFK   69 (199)
Q Consensus        38 ~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~   69 (199)
                      .|..|+++|+++.|..+|..+||.+||..+|+
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            58999999999999999999999999998874

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

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

Probab=98.41  E-value=1.3e-08  Score=54.35  Aligned_cols=28  Identities=39%  Similarity=0.916  Sum_probs=26.1

Q ss_pred             CCCcCCCceEecCcc-eeecCccccccCe
Q 029070          110 EKCVGCKNTVYPTEK-VSVNGTPYHKSCF  137 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~-v~~~~~~~H~~Cf  137 (199)
                      ++|.+|.++|.++.+ |.+.++.||..||
T Consensus         9 ~~C~~C~k~I~~G~k~veykg~~WHe~CF   37 (37)
T d1x63a1           9 PKCKGCFKAIVAGDQNVEYKGTVWHKDCF   37 (37)
T ss_dssp             CBCSSSCCBCCSSSCEEECSSCEEETTTC
T ss_pred             cccccCCCccCCCCeEeEeCCccchhccC
Confidence            899999999998776 8899999999998

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

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

Probab=98.40  E-value=5.4e-08  Score=51.85  Aligned_cols=30  Identities=30%  Similarity=0.693  Sum_probs=27.3

Q ss_pred             CCccccccCceeecce-eEEeCCcccccccc
Q 029070            8 TQQKCMACDKTVYLVD-KLTADNRIYHKACF   37 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~-~~~~~~~~~H~~CF   37 (199)
                      .+++|.+|+++|.+++ .|++.|+.||..||
T Consensus         7 ~a~~C~~C~k~I~~G~k~veykg~~WHe~CF   37 (37)
T d1x63a1           7 DSPKCKGCFKAIVAGDQNVEYKGTVWHKDCF   37 (37)
T ss_dssp             CSCBCSSSCCBCCSSSCEEECSSCEEETTTC
T ss_pred             cCcccccCCCccCCCCeEeEeCCccchhccC
Confidence            4789999999998877 59999999999998

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

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

Probab=98.39  E-value=4.2e-08  Score=48.20  Aligned_cols=30  Identities=30%  Similarity=0.780  Sum_probs=28.3

Q ss_pred             ceeccCcccccCCcccccCCcccccccHHH
Q 029070           37 FRCHHCKGTLKLGNYNSFEGVLYCRPHFDQ   66 (199)
Q Consensus        37 F~C~~C~~~L~~~~f~~~~g~~yC~~c~~~   66 (199)
                      |+|+.|++.|.......+||++||+.||.+
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            899999999999999999999999999965

>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=98.37  E-value=6.4e-08  Score=48.70  Aligned_cols=28  Identities=18%  Similarity=0.293  Sum_probs=24.9

Q ss_pred             CCccccccCceeecceeEEeCCccccccc
Q 029070            8 TQQKCMACDKTVYLVDKLTADNRIYHKAC   36 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~C   36 (199)
                      +.++|+.|+++| .++.|.|+|++||++.
T Consensus         4 g~p~C~~C~~PI-~~~~vtAlgk~WHpEH   31 (31)
T d1u5sb1           4 GVPICGACRRPI-EGRVVNAMGKQWHVEH   31 (31)
T ss_dssp             CCCEETTTTEEC-CSCEECCTTSBEETTT
T ss_pred             CCcchhhcCCch-hhhHhhhhccccCCCC
Confidence            468899999999 5899999999999973

>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=98.34  E-value=1.2e-07  Score=50.09  Aligned_cols=31  Identities=39%  Similarity=0.902  Sum_probs=28.7

Q ss_pred             CCCCCCcCCCceEecCcceeecCccccccCe
Q 029070          107 GTREKCVGCKNTVYPTEKVSVNGTPYHKSCF  137 (199)
Q Consensus       107 ~~~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf  137 (199)
                      +...+|..|.+.+++.|++.+.++.||..||
T Consensus         6 g~~~~C~~C~K~VY~~Erl~a~g~~yHk~CF   36 (36)
T d2co8a2           6 GAGDLCALCGEHLYVLERLCVNGHFFHRSCF   36 (36)
T ss_dssp             CSSCBCSSSCCBCCTTTBCCBTTBCCBTTTC
T ss_pred             CCCCcccccCCEEeeeeEEEecCcEeccccC
Confidence            3458999999999999999999999999998

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

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

Probab=98.33  E-value=1.1e-07  Score=47.63  Aligned_cols=31  Identities=35%  Similarity=0.847  Sum_probs=28.0

Q ss_pred             eeccCcccccCCcccccCCcccccccHHHHhh
Q 029070           38 RCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFK   69 (199)
Q Consensus        38 ~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~   69 (199)
                      +|..|+..|. +.|..+||.|||+.||+..|+
T Consensus         1 kC~~C~~vL~-gEYm~kdG~PyCe~DY~~~FG   31 (31)
T d2dj7a1           1 KCQTCSVILT-GEYISKDGVPYCESDYHAQFG   31 (31)
T ss_dssp             BCSSSCCBCS-SCCEEETTEEECTTHHHHHTT
T ss_pred             CccccCcccc-ceeecCCCCcccHHHHHHhcC
Confidence            5899999996 789999999999999999874

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

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

Probab=98.32  E-value=1.7e-07  Score=46.99  Aligned_cols=31  Identities=23%  Similarity=0.603  Sum_probs=28.3

Q ss_pred             ecccCCCCCCCCCeeeeCCccccHhHHHhHhc
Q 029070          138 KCSHGGCVISPSNYIAHEGRLYCKHHHNQLIK  169 (199)
Q Consensus       138 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~  169 (199)
                      +|..|++.|.+ +|..+||.|||+.+|...|+
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            58899999988 89999999999999999885

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

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

Probab=98.31  E-value=2.1e-07  Score=47.59  Aligned_cols=32  Identities=19%  Similarity=0.405  Sum_probs=28.9

Q ss_pred             ecccCCCCCCCCCeeeeCCccccHhHHHhHhc
Q 029070          138 KCSHGGCVISPSNYIAHEGRLYCKHHHNQLIK  169 (199)
Q Consensus       138 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~  169 (199)
                      .|..|.+++.++.|++.+|+|||+.||.++.|
T Consensus         1 VC~~C~~PF~~~~Fy~~~g~PyCe~HyH~~~G   32 (32)
T d1x3ha2           1 VCGDCFTSFSTGSFFELDGRPFCELHYHHRRG   32 (32)
T ss_dssp             BCSSSCCBSCSSCCEESSSCEECHHHHHHHHS
T ss_pred             CcCccCCcCCCCCeEeECCccchHHhhhhhcC
Confidence            48899999999999999999999999988743

>d2cuqa1 g.39.1.3 (A:43-74) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=98.30  E-value=2.5e-07  Score=46.37  Aligned_cols=32  Identities=13%  Similarity=0.370  Sum_probs=29.7

Q ss_pred             ecccCCCCCCCCCeeeeCCccccHhHHHhHhc
Q 029070          138 KCSHGGCVISPSNYIAHEGRLYCKHHHNQLIK  169 (199)
Q Consensus       138 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~  169 (199)
                      .|..|+++|.+.+|..+|..|||..||..+|+
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            48899999999999999999999999999874

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

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

Probab=98.28  E-value=2.8e-07  Score=46.82  Aligned_cols=34  Identities=26%  Similarity=0.469  Sum_probs=31.8

Q ss_pred             eecccCCCCCCCCCeeeeCCccccHhHHHhHhcC
Q 029070          137 FKCSHGGCVISPSNYIAHEGRLYCKHHHNQLIKE  170 (199)
Q Consensus       137 f~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~~  170 (199)
                      |.|..|.+|+-+.+.+.+.|..||+.||.++|+.
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            7899999999988999999999999999999974

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

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

Probab=98.27  E-value=1.5e-07  Score=52.53  Aligned_cols=36  Identities=33%  Similarity=0.769  Sum_probs=33.1

Q ss_pred             eeccCcccccCCcccccCCcccc-cccHHHHhhccCC
Q 029070           38 RCHHCKGTLKLGNYNSFEGVLYC-RPHFDQLFKRTGS   73 (199)
Q Consensus        38 ~C~~C~~~L~~~~f~~~~g~~yC-~~c~~~~~~~~~~   73 (199)
                      +|..|++.|..+...++++++|| +.||.++|+|++.
T Consensus         1 kC~~C~K~L~sg~~aeHdg~pYC~k~CY~~~FGPkG~   37 (48)
T d1imla2           1 KCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGF   37 (48)
T ss_dssp             BCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCCCS
T ss_pred             CchhcCcCcCCCChhhcCCcccccccchhhccCCCcc
Confidence            68999999999999999999999 7899999998763

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

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

Probab=98.25  E-value=2.3e-07  Score=47.74  Aligned_cols=31  Identities=23%  Similarity=0.558  Sum_probs=28.5

Q ss_pred             CCCccccccCceeecceeEEeCCcccccccc
Q 029070            7 GTQQKCMACDKTVYLVDKLTADNRIYHKACF   37 (199)
Q Consensus         7 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF   37 (199)
                      .+...|++|++.|..+..+.|+++.||..||
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            3467899999999999999999999999998

>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=98.23  E-value=2.9e-07  Score=48.41  Aligned_cols=29  Identities=52%  Similarity=1.077  Sum_probs=27.7

Q ss_pred             CCCCcCCCceEecCcceeecCccccccCe
Q 029070          109 REKCVGCKNTVYPTEKVSVNGTPYHKSCF  137 (199)
Q Consensus       109 ~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf  137 (199)
                      ..+|..|++.+++.|++.+.|+.||..||
T Consensus         7 ~~kC~~C~K~VY~~E~~~a~g~~~Hk~CF   35 (35)
T d2d8ya1           7 RETCVECQKTVYPMERLLANQQVFHISCF   35 (35)
T ss_dssp             SCBCTTTCCBCCTTSEEECSSSEEETTTC
T ss_pred             CcccccCCCEEeeeeeEecCCeehhhccC
Confidence            48999999999999999999999999998

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

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

Probab=98.20  E-value=2.5e-07  Score=47.03  Aligned_cols=33  Identities=30%  Similarity=0.706  Sum_probs=31.4

Q ss_pred             ceeccCcccccCCcccccCCcccccccHHHHhh
Q 029070           37 FRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFK   69 (199)
Q Consensus        37 F~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~   69 (199)
                      |+|+.|.+|+-+...+++.|..||+.+|.++|+
T Consensus         1 FvCA~CekPF~G~rhyE~~g~ayCe~Hy~qLfg   33 (35)
T d1u5sb2           1 FVCAKCEKPFLGHRHYERKGLAYCETHYNQLFG   33 (35)
T ss_dssp             CBCTTTCCBCSSSCCEEETTEEECHHHHHHHCS
T ss_pred             CcccccCCccCCchhhhhcCchHHHHHHHHHhc
Confidence            899999999998899999999999999999986

>d2dara1 g.39.1.3 (A:53-84) PDZ and LIM domain protein 5, Enigma {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 5, Enigma
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.19  E-value=3.2e-07  Score=46.20  Aligned_cols=32  Identities=31%  Similarity=0.812  Sum_probs=29.3

Q ss_pred             eeccCcccccCCcccccCCcccccccHHHHhh
Q 029070           38 RCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFK   69 (199)
Q Consensus        38 ~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~   69 (199)
                      .|+.|+.+|.+..|.+..|.+||+.||++.++
T Consensus         1 nCa~C~~sL~d~gFVEE~g~lYCe~Cye~ffA   32 (32)
T d2dara1           1 NCAHCKNTMAYIGFVEEKGALYCELCYEKFFA   32 (32)
T ss_dssp             BCSSSCCBCSSSCBEESSSCEECHHHHHHHTS
T ss_pred             CcccccccHhhcceeeecCcEeHHHHHHHhcC
Confidence            38899999999999999999999999998764

>d1zfoa_ g.39.1.4 (A:) LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LASP-1
domain: LASP-1
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=98.17  E-value=2.8e-07  Score=45.42  Aligned_cols=28  Identities=46%  Similarity=0.954  Sum_probs=26.8

Q ss_pred             CCCcCCCceEecCcceeecCccccccCe
Q 029070          110 EKCVGCKNTVYPTEKVSVNGTPYHKSCF  137 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~~~~~~~H~~Cf  137 (199)
                      +.|++|++.+++.|.+...++.||..||
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            7899999999999999999999999998

>d1j2oa1 g.39.1.3 (A:1-30) Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Rhombotin-2 (Lmo2)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.17  E-value=5.7e-07  Score=45.00  Aligned_cols=29  Identities=21%  Similarity=0.421  Sum_probs=25.2

Q ss_pred             CCccccccCceeecceeEEeCCccccccc
Q 029070            8 TQQKCMACDKTVYLVDKLTADNRIYHKAC   36 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~C   36 (199)
                      +...|++|+++|.....+.++++.||..|
T Consensus         2 ~~~~CaGC~~~I~DRflL~a~Dr~WH~~C   30 (30)
T d1j2oa1           2 SLLTCGGCQQNIGDRYFLKAIDQYWHEDC   30 (30)
T ss_dssp             CCBCBSSSCSCBCSSEEEECSSSEECTTT
T ss_pred             CCcccCCCCCcchHHHHHHHHHHHHhcCC
Confidence            45679999999976667899999999987

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

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

Probab=98.16  E-value=1.7e-06  Score=51.48  Aligned_cols=36  Identities=19%  Similarity=0.512  Sum_probs=33.4

Q ss_pred             eeccCcccccCCcccccCCcccccccHHHHhhccCC
Q 029070           38 RCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFKRTGS   73 (199)
Q Consensus        38 ~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~~~~~   73 (199)
                      .|..|++.|.......+++++||+.||.++|+|++.
T Consensus         1 ~C~~C~K~LdS~~~~eh~~e~YCk~CY~k~fGPkG~   36 (65)
T d1b8ta2           1 LCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGK   36 (65)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHHSCCCC
T ss_pred             CchhcCCccCCCccccCCCcccchhhhccccCCCcc
Confidence            489999999999999999999999999999998764

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

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

Probab=98.15  E-value=6.6e-07  Score=45.13  Aligned_cols=32  Identities=22%  Similarity=0.550  Sum_probs=29.0

Q ss_pred             ecccCCCCCCCCCeeeeCCccccH-hHHHhHhc
Q 029070          138 KCSHGGCVISPSNYIAHEGRLYCK-HHHNQLIK  169 (199)
Q Consensus       138 ~C~~C~~~l~~~~~~~~~g~~yC~-~c~~~~~~  169 (199)
                      +|..|++.|..+.....+|+|||. +||..+|+
T Consensus         1 kCekC~ktL~~G~HaEH~gkPYC~~PCY~aLFG   33 (33)
T d2cu8a2           1 KCERCSKTLTPGGHAEHDGKPFCHKPCYATLFG   33 (33)
T ss_dssp             BCSSSCCBCCTTSCEEETTEEECTTTHHHHHSC
T ss_pred             CchhcccccCCCCccccCCCcCcCcchHHhhcC
Confidence            589999999999999999999995 59999885

>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=98.15  E-value=4.5e-07  Score=45.33  Aligned_cols=28  Identities=50%  Similarity=0.877  Sum_probs=26.6

Q ss_pred             CCCcCCCceEecCcceeecCccccccCe
Q 029070          110 EKCVGCKNTVYPTEKVSVNGTPYHKSCF  137 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~~~~~~~H~~Cf  137 (199)
                      ++|++|+++++..|.+...|+.||..|+
T Consensus         3 ~~CprC~K~VYfaEk~~~lgk~WHk~Cl   30 (30)
T d2cu8a1           3 SKCPKCDKTVYFAEKVSSLGKDWHKFCL   30 (30)
T ss_dssp             CBCTTTCCBCCTTTEEEETTEEEETTTC
T ss_pred             CcCCCCCCceeeHHhhccCCcccccccC
Confidence            7999999999999999999999999985

>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=98.15  E-value=6.8e-07  Score=46.33  Aligned_cols=32  Identities=31%  Similarity=0.740  Sum_probs=26.2

Q ss_pred             CCCCCCCCcCCCceEecCcceeecCccccccCe
Q 029070          105 FGGTREKCVGCKNTVYPTEKVSVNGTPYHKSCF  137 (199)
Q Consensus       105 ~~~~~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf  137 (199)
                      |..+..+|.+|+++|.+. .+.+.|+.||+.||
T Consensus         4 y~~tlEkC~~C~~~I~dr-iLrA~Gk~yHP~CF   35 (35)
T d2dloa1           4 YVATLEKCATCSQPILDR-ILRAMGKAYHPGCF   35 (35)
T ss_dssp             CCSSCCBCTTTCCBCCSC-CEEETTEEECTTTC
T ss_pred             HHHHHHHHHHhchHHHHH-HHHHhCCCCCCCCC
Confidence            334458999999999754 37799999999998

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

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

Probab=98.13  E-value=4.2e-07  Score=45.83  Aligned_cols=32  Identities=16%  Similarity=0.564  Sum_probs=29.6

Q ss_pred             eeccCcccccCCcccccCCcccccccHHHHhh
Q 029070           38 RCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFK   69 (199)
Q Consensus        38 ~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~   69 (199)
                      .|..|.++|+..+|..+++..||..||++.|+
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            48899999999999999999999999999874

>d1rutx1 g.39.1.3 (X:19-48) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.12  E-value=6.3e-07  Score=45.03  Aligned_cols=28  Identities=21%  Similarity=0.481  Sum_probs=24.8

Q ss_pred             ccccccCceeecceeEEeCCcccccccc
Q 029070           10 QKCMACDKTVYLVDKLTADNRIYHKACF   37 (199)
Q Consensus        10 ~~C~~C~~~I~~~~~~~~~~~~~H~~CF   37 (199)
                      ..|++|+++|.....+.++++.||..|+
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            5799999999766678999999999995

>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=98.11  E-value=6.4e-07  Score=49.21  Aligned_cols=28  Identities=18%  Similarity=0.433  Sum_probs=24.8

Q ss_pred             CCCCcCCCceEecCcceeecCccccccCe
Q 029070          109 REKCVGCKNTVYPTEKVSVNGTPYHKSCF  137 (199)
Q Consensus       109 ~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf  137 (199)
                      .++|+.|+++|.+. .|+++|+.||+++|
T Consensus        18 ~P~C~~C~~pI~g~-~vtAlgk~WHPEhF   45 (45)
T d2dara2          18 TPMCAHCNQVIRGP-FLVALGKSWHPEEF   45 (45)
T ss_dssp             CCBBSSSCCBCCSC-EEEETTEEECTTTC
T ss_pred             CeeccccCCcccCc-eeeecCCccCcCCC
Confidence            48999999999744 48899999999998

>d1wyha2 g.39.1.3 (A:8-34) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=98.10  E-value=4.7e-07  Score=43.23  Aligned_cols=26  Identities=38%  Similarity=0.784  Sum_probs=23.9

Q ss_pred             ccccCceeecce-eEEeCCcccccccc
Q 029070           12 CMACDKTVYLVD-KLTADNRIYHKACF   37 (199)
Q Consensus        12 C~~C~~~I~~~~-~~~~~~~~~H~~CF   37 (199)
                      |..|.+.|.++. .++..|.+||..||
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            789999999887 58999999999998

>d1x4ka2 g.39.1.3 (A:8-34) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=98.09  E-value=5.6e-07  Score=43.08  Aligned_cols=26  Identities=31%  Similarity=0.750  Sum_probs=24.0

Q ss_pred             ccccCceeecce-eEEeCCcccccccc
Q 029070           12 CMACDKTVYLVD-KLTADNRIYHKACF   37 (199)
Q Consensus        12 C~~C~~~I~~~~-~~~~~~~~~H~~CF   37 (199)
                      |..|.+.|.++. .++..|.+||..||
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            789999999887 59999999999998

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

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

Probab=98.08  E-value=9.6e-07  Score=43.27  Aligned_cols=30  Identities=27%  Similarity=0.681  Sum_probs=27.8

Q ss_pred             eecccCCCCCCCCCeeeeCCccccHhHHHh
Q 029070          137 FKCSHGGCVISPSNYIAHEGRLYCKHHHNQ  166 (199)
Q Consensus       137 f~C~~C~~~l~~~~~~~~~g~~yC~~c~~~  166 (199)
                      |+|..|++.|.+.....+||.+||+.||.+
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            799999999998888999999999999975

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

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

Probab=98.08  E-value=5.9e-07  Score=45.19  Aligned_cols=32  Identities=25%  Similarity=0.642  Sum_probs=29.7

Q ss_pred             eeccCcccccCCcccccCCcccccccHHHHhh
Q 029070           38 RCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFK   69 (199)
Q Consensus        38 ~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~   69 (199)
                      .|..|.++|+.++|..+++..||..||++.|+
T Consensus         1 ~C~~C~qPIGtkSFip~~~~~yCvpCYE~kfA   32 (32)
T d1wyha1           1 LCSGCEQPLGSRSFVPDKGAHYCVPCYENKFA   32 (32)
T ss_dssp             BCTTTCCBTTTSCEEEETTEEEEHHHHHHHTS
T ss_pred             CcccccCcccccccccCCCcEEEEeccccccC
Confidence            48899999999999999999999999999875

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

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

Probab=98.05  E-value=8.9e-07  Score=45.52  Aligned_cols=29  Identities=28%  Similarity=0.691  Sum_probs=27.1

Q ss_pred             CCCCcCCCceEecCcceeecCccccccCe
Q 029070          109 REKCVGCKNTVYPTEKVSVNGTPYHKSCF  137 (199)
Q Consensus       109 ~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf  137 (199)
                      ...|++|++.|..++.+.++++.||.+||
T Consensus         8 ~~~CagCg~eik~gQaL~ALdkqWH~~CF   36 (36)
T d2dj7a2           8 PSHCAGCKEEIKHGQSLLALDKQWHVSCF   36 (36)
T ss_dssp             CSCCTTTCCCCSSSCCEEETTEEECTTTC
T ss_pred             CccccccchhhhCCceeeeeecceeeeeC
Confidence            37899999999999889999999999998

>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=98.04  E-value=1.2e-06  Score=44.17  Aligned_cols=34  Identities=32%  Similarity=0.800  Sum_probs=31.0

Q ss_pred             ccCCCCccccccCceeecceeEEeCCcccccccc
Q 029070            4 AFAGTQQKCMACDKTVYLVDKLTADNRIYHKACF   37 (199)
Q Consensus         4 ~~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF   37 (199)
                      ...++..+|..|.+.|+..+.|...|++||..||
T Consensus         2 pn~ggg~kcg~c~ktvy~aeevqc~g~sfhk~cf   35 (35)
T d1b8ta1           2 PNWGGGKKCGVCQKAVYFAEEVQCEGSSFHKSCF   35 (35)
T ss_dssp             CCCCCCEECTTTCCEECSSCCEEETTEEECTTTC
T ss_pred             CccCCCceeccccceEeeeeeeeecCcccccccC
Confidence            4457788999999999999999999999999998

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

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

Probab=98.03  E-value=9.7e-07  Score=44.51  Aligned_cols=32  Identities=31%  Similarity=0.813  Sum_probs=28.8

Q ss_pred             eeccCcccccCCcccccCCccccc-ccHHHHhh
Q 029070           38 RCHHCKGTLKLGNYNSFEGVLYCR-PHFDQLFK   69 (199)
Q Consensus        38 ~C~~C~~~L~~~~f~~~~g~~yC~-~c~~~~~~   69 (199)
                      +|..|++.|..+...+++|++||. +||..+|+
T Consensus         1 kCekC~ktL~~G~HaEH~gkPYC~~PCY~aLFG   33 (33)
T d2cu8a2           1 KCERCSKTLTPGGHAEHDGKPFCHKPCYATLFG   33 (33)
T ss_dssp             BCSSSCCBCCTTSCEEETTEEECTTTHHHHHSC
T ss_pred             CchhcccccCCCCccccCCCcCcCcchHHhhcC
Confidence            589999999999999999999995 69998874

>d1rutx3 g.39.1.3 (X:83-113) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.93  E-value=2e-06  Score=43.39  Aligned_cols=28  Identities=32%  Similarity=0.763  Sum_probs=26.0

Q ss_pred             CCCcCCCceEecCccee-ecCccccccCe
Q 029070          110 EKCVGCKNTVYPTEKVS-VNGTPYHKSCF  137 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~-~~~~~~H~~Cf  137 (199)
                      ..|++|.+.|.+.|.|+ +.+..||..||
T Consensus         3 g~Ca~C~~~I~~~e~VmRA~~~VyHl~CF   31 (31)
T d1rutx3           3 GACSACGQSIPASELVMRAQGNVYHLKCF   31 (31)
T ss_dssp             EECTTTCCEECTTSEEEEETTEEECGGGC
T ss_pred             cccccccCcCChhHhheecccceeeeccC
Confidence            57999999999999876 99999999998

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

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

Probab=97.87  E-value=6.2e-06  Score=41.43  Aligned_cols=31  Identities=13%  Similarity=0.327  Sum_probs=28.9

Q ss_pred             cccCCCCCCCCCeeeeCCccccHhHHHhHhc
Q 029070          139 CSHGGCVISPSNYIAHEGRLYCKHHHNQLIK  169 (199)
Q Consensus       139 C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~  169 (199)
                      |..|+.+|....|..+++..||..||++.|+
T Consensus         2 C~~C~qPIGtksfipk~~~~yCvpCyE~kfA   32 (32)
T d1x4ka1           2 CHRCQQPIGTKSFIPKDNQNFCVPCYEKQHA   32 (32)
T ss_dssp             CSSSCCCCCSSSEEEETTEEEEHHHHHHHTS
T ss_pred             cccccCcccccccccCCCCceEeecchhhcC
Confidence            7889999999999999999999999999874

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

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

Probab=97.86  E-value=6e-06  Score=41.42  Aligned_cols=31  Identities=16%  Similarity=0.398  Sum_probs=28.9

Q ss_pred             cccCCCCCCCCCeeeeCCccccHhHHHhHhc
Q 029070          139 CSHGGCVISPSNYIAHEGRLYCKHHHNQLIK  169 (199)
Q Consensus       139 C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~  169 (199)
                      |..|+.+|....|..+++..||.+||+++|+
T Consensus         2 C~~C~qPIGtkSFip~~~~~yCvpCYE~kfA   32 (32)
T d1wyha1           2 CSGCEQPLGSRSFVPDKGAHYCVPCYENKFA   32 (32)
T ss_dssp             CTTTCCBTTTSCEEEETTEEEEHHHHHHHTS
T ss_pred             cccccCcccccccccCCCcEEEEeccccccC
Confidence            7889999999999999999999999999874

>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=97.85  E-value=4e-06  Score=41.85  Aligned_cols=28  Identities=18%  Similarity=0.427  Sum_probs=24.9

Q ss_pred             CCCCcCCCceEecCcceeecCccccccC
Q 029070          109 REKCVGCKNTVYPTEKVSVNGTPYHKSC  136 (199)
Q Consensus       109 ~~~C~~C~~~I~~~~~v~~~~~~~H~~C  136 (199)
                      ...|++|+++|.+...+.+.++.||..|
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            3789999999988777889999999987

>d2cura1 g.39.1.3 (A:33-63) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.84  E-value=3e-06  Score=41.90  Aligned_cols=29  Identities=21%  Similarity=0.540  Sum_probs=27.0

Q ss_pred             eeccCcccccCCcccccCCcccccccHHH
Q 029070           38 RCHHCKGTLKLGNYNSFEGVLYCRPHFDQ   66 (199)
Q Consensus        38 ~C~~C~~~L~~~~f~~~~g~~yC~~c~~~   66 (199)
                      .|..|++.|++..|...++++||.+||..
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            48999999999999999999999999975

>d1ibia1 g.39.1.3 (A:117-144) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

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

Probab=97.82  E-value=3.7e-06  Score=40.60  Aligned_cols=27  Identities=33%  Similarity=0.869  Sum_probs=25.2

Q ss_pred             ccccccCceeecceeEEeCCccccccc
Q 029070           10 QKCMACDKTVYLVDKLTADNRIYHKAC   36 (199)
Q Consensus        10 ~~C~~C~~~I~~~~~~~~~~~~~H~~C   36 (199)
                      .+|.+|++.|+..|.|.-.|+.||..|
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

>d1rutx3 g.39.1.3 (X:83-113) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.82  E-value=4.4e-06  Score=42.12  Aligned_cols=29  Identities=28%  Similarity=0.733  Sum_probs=26.0

Q ss_pred             CccccccCceeeccee-EEeCCcccccccc
Q 029070            9 QQKCMACDKTVYLVDK-LTADNRIYHKACF   37 (199)
Q Consensus         9 ~~~C~~C~~~I~~~~~-~~~~~~~~H~~CF   37 (199)
                      +..|.+|++.|.+.|. +.|.+..||..||
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            4579999999998885 6999999999998

>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=97.78  E-value=2.4e-06  Score=46.00  Aligned_cols=26  Identities=35%  Similarity=0.782  Sum_probs=23.4

Q ss_pred             CCCcCCCceEecCcceeecCccccccC
Q 029070          110 EKCVGCKNTVYPTEKVSVNGTPYHKSC  136 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~~~~~~~H~~C  136 (199)
                      .+|..|.+.|. ++.+.+.++.||+.|
T Consensus        16 ~~C~~C~~~It-G~V~~Ag~~~yHP~C   41 (41)
T d1v6ga1          16 TRCFSCDQFIE-GEVVSALGKTYHPDC   41 (41)
T ss_dssp             CBCTTTCCBCC-SCCEEETTEEECTTT
T ss_pred             cccccccCEee-eeeeEecCcccCCCC
Confidence            89999999996 666889999999998

>d1x4la1 g.39.1.3 (A:8-36) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.77  E-value=4.8e-06  Score=40.67  Aligned_cols=26  Identities=23%  Similarity=0.723  Sum_probs=22.6

Q ss_pred             ccccCceeec---ceeEEeCCcccccccc
Q 029070           12 CMACDKTVYL---VDKLTADNRIYHKACF   37 (199)
Q Consensus        12 C~~C~~~I~~---~~~~~~~~~~~H~~CF   37 (199)
                      |..|.++|..   +.+|...++.||..||
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            7899999953   3579999999999998

>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=97.75  E-value=6e-06  Score=42.49  Aligned_cols=28  Identities=25%  Similarity=0.676  Sum_probs=25.0

Q ss_pred             CccccccCceeecceeEEeCCcccccccc
Q 029070            9 QQKCMACDKTVYLVDKLTADNRIYHKACF   37 (199)
Q Consensus         9 ~~~C~~C~~~I~~~~~~~~~~~~~H~~CF   37 (199)
                      ++.|..|+++|. .--|...++.||.+||
T Consensus         8 a~~C~~Ckk~It-~GGvtY~dqpWHkeCF   35 (35)
T d2cuqa2           8 APRCARCSKTLT-QGGVTYRDQPWHRECL   35 (35)
T ss_dssp             SCCCTTTCCCCC-SCCEESSSSEECTTTC
T ss_pred             HHHHhhcCCccc-cCceeecCCcchhhhC
Confidence            689999999995 5667899999999998

>d2dara1 g.39.1.3 (A:53-84) PDZ and LIM domain protein 5, Enigma {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 5, Enigma
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.75  E-value=1.1e-05  Score=40.45  Aligned_cols=31  Identities=19%  Similarity=0.567  Sum_probs=28.1

Q ss_pred             cccCCCCCCCCCeeeeCCccccHhHHHhHhc
Q 029070          139 CSHGGCVISPSNYIAHEGRLYCKHHHNQLIK  169 (199)
Q Consensus       139 C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~  169 (199)
                      |+.|+.+|..-.|....|.+||+.||.+.|+
T Consensus         2 Ca~C~~sL~d~gFVEE~g~lYCe~Cye~ffA   32 (32)
T d2dara1           2 CAHCKNTMAYIGFVEEKGALYCELCYEKFFA   32 (32)
T ss_dssp             CSSSCCBCSSSCBEESSSCEECHHHHHHHTS
T ss_pred             cccccccHhhcceeeecCcEeHHHHHHHhcC
Confidence            7889999998899999999999999998764

>d2dloa2 g.39.1.3 (A:43-75) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.73  E-value=7.1e-06  Score=41.77  Aligned_cols=32  Identities=19%  Similarity=0.354  Sum_probs=28.2

Q ss_pred             eeccCcccccCCccccc-CCcccccccHHHHhh
Q 029070           38 RCHHCKGTLKLGNYNSF-EGVLYCRPHFDQLFK   69 (199)
Q Consensus        38 ~C~~C~~~L~~~~f~~~-~g~~yC~~c~~~~~~   69 (199)
                      +|..|++.|.+..|... ++++||.+||+++|+
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            58899999999999765 699999999999875

>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=97.72  E-value=6.3e-06  Score=41.28  Aligned_cols=28  Identities=18%  Similarity=0.558  Sum_probs=25.2

Q ss_pred             CCCcCCCceEecCcceeecCccccccCe
Q 029070          110 EKCVGCKNTVYPTEKVSVNGTPYHKSCF  137 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~~~~~~~H~~Cf  137 (199)
                      ..|++|+++|.+...+.+.++.||..|+
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            6899999999888777899999999984

>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=97.69  E-value=8.3e-06  Score=38.92  Aligned_cols=28  Identities=43%  Similarity=1.041  Sum_probs=26.4

Q ss_pred             ccccccCceeecceeEEeCCcccccccc
Q 029070           10 QKCMACDKTVYLVDKLTADNRIYHKACF   37 (199)
Q Consensus        10 ~~C~~C~~~I~~~~~~~~~~~~~H~~CF   37 (199)
                      ++|+.|.+.++..+.+...|++||..||
T Consensus         1 nkcg~c~ktvy~aeevqc~grsfhk~cf   28 (28)
T d1a7ia1           1 NKCGACGRTVYHAEEVQCDGRSFHRCCF   28 (28)
T ss_dssp             CBCSSSCCBCSSTTEEEETTEEEESSSE
T ss_pred             CccccccceEeeeeeeeecCceeccccC
Confidence            4799999999999999999999999998

>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=97.68  E-value=7.2e-06  Score=44.08  Aligned_cols=27  Identities=26%  Similarity=0.716  Sum_probs=25.0

Q ss_pred             CccccccCceeecceeEEeCCccccccc
Q 029070            9 QQKCMACDKTVYLVDKLTADNRIYHKAC   36 (199)
Q Consensus         9 ~~~C~~C~~~I~~~~~~~~~~~~~H~~C   36 (199)
                      ..+|..|++.| .+++|.|.++.|||.|
T Consensus        15 G~~C~~C~~~I-tG~V~~Ag~~~yHP~C   41 (41)
T d1v6ga1          15 GTRCFSCDQFI-EGEVVSALGKTYHPDC   41 (41)
T ss_dssp             CCBCTTTCCBC-CSCCEEETTEEECTTT
T ss_pred             CcccccccCEe-eeeeeEecCcccCCCC
Confidence            46899999999 5999999999999998

>d1x4ka2 g.39.1.3 (A:8-34) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.64  E-value=8.2e-06  Score=38.93  Aligned_cols=26  Identities=35%  Similarity=1.031  Sum_probs=23.4

Q ss_pred             CcCCCceEecCcc-eeecCccccccCe
Q 029070          112 CVGCKNTVYPTEK-VSVNGTPYHKSCF  137 (199)
Q Consensus       112 C~~C~~~I~~~~~-v~~~~~~~H~~Cf  137 (199)
                      |..|.+.|.|+.+ +.+.|..||..||
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            6789999999876 7799999999998

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

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

Probab=97.63  E-value=7.2e-06  Score=41.04  Aligned_cols=27  Identities=19%  Similarity=0.399  Sum_probs=23.0

Q ss_pred             CCCCcCCCceEecCcceeecCccccccC
Q 029070          109 REKCVGCKNTVYPTEKVSVNGTPYHKSC  136 (199)
Q Consensus       109 ~~~C~~C~~~I~~~~~v~~~~~~~H~~C  136 (199)
                      .++|+.|+++|.+ ..|.++++.||++.
T Consensus         5 ~p~C~~C~~PI~~-~~vtAlgk~WHpEH   31 (31)
T d1u5sb1           5 VPICGACRRPIEG-RVVNAMGKQWHVEH   31 (31)
T ss_dssp             CCEETTTTEECCS-CEECCTTSBEETTT
T ss_pred             CcchhhcCCchhh-hHhhhhccccCCCC
Confidence            4899999999985 44789999999863

>d1a7ia2 g.39.1.3 (A:36-67) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

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

Probab=97.61  E-value=9.5e-06  Score=40.24  Aligned_cols=30  Identities=17%  Similarity=0.603  Sum_probs=27.7

Q ss_pred             eccCcccccCCcccccCCcccccccHHHHh
Q 029070           39 CHHCKGTLKLGNYNSFEGVLYCRPHFDQLF   68 (199)
Q Consensus        39 C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~   68 (199)
                      |-.|++.|.+.....+++++||+.||.+.+
T Consensus         2 C~~C~K~LdStTva~h~~eiYCKsCygkky   31 (32)
T d1a7ia2           2 CMVCRKNLDSTTVAIHDAEVYCKSCYGKKY   31 (32)
T ss_dssp             CSSSCCEECSSCCEEETTEEECSHHHHHHC
T ss_pred             chhhhhccCcceeeeecceEEehhhccccC
Confidence            778999999999999999999999998876

>d1x61a2 g.39.1.3 (A:35-66) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.61  E-value=1.4e-05  Score=39.54  Aligned_cols=30  Identities=20%  Similarity=0.534  Sum_probs=27.3

Q ss_pred             eeccCcccccCCcccccCCcccccccHHHH
Q 029070           38 RCHHCKGTLKLGNYNSFEGVLYCRPHFDQL   67 (199)
Q Consensus        38 ~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~   67 (199)
                      .|..|+..|.++.|+..+.+.||+.||...
T Consensus         1 vC~tC~~kLRGqpFYAvekkayCE~CYi~t   30 (32)
T d1x61a2           1 VCSTCRAQLRGQHFYAVERRAYCEGCYVAT   30 (32)
T ss_dssp             BCSSSCCBCTTSCEEESSSCEEEHHHHHHH
T ss_pred             CeeEeCceecCCcceEeeccccccceeeee
Confidence            488999999999999999999999999754

>d1a7ia2 g.39.1.3 (A:36-67) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

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

Probab=97.59  E-value=1.4e-05  Score=39.59  Aligned_cols=31  Identities=16%  Similarity=0.338  Sum_probs=28.1

Q ss_pred             cccCCCCCCCCCeeeeCCccccHhHHHhHhc
Q 029070          139 CSHGGCVISPSNYIAHEGRLYCKHHHNQLIK  169 (199)
Q Consensus       139 C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~  169 (199)
                      |-.|++.|++.....+++.+||+.||.++|+
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            6789999998888999999999999999875

>d1wiga1 g.39.1.3 (A:1-32) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.59  E-value=1.2e-05  Score=39.61  Aligned_cols=29  Identities=28%  Similarity=0.619  Sum_probs=25.9

Q ss_pred             CCCccccccCceeecceeEEeCCccccccc
Q 029070            7 GTQQKCMACDKTVYLVDKLTADNRIYHKAC   36 (199)
Q Consensus         7 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~C   36 (199)
                      ++..-|..|.+.| .+.+++|.++.|||.|
T Consensus         3 sgssgC~~C~~~I-tGkVLEAG~khYHP~C   31 (32)
T d1wiga1           3 SGSSGCDSCEKYI-TGRVLEAGEKHYHPSC   31 (32)
T ss_dssp             CSCCSCSSSCCCC-SSCCBCCSSCCBCTTT
T ss_pred             Cccchhhhhhhhh-hhhhhhccccccCCCC
Confidence            3467799999999 5999999999999988

>d1wyha2 g.39.1.3 (A:8-34) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.57  E-value=1.2e-05  Score=38.25  Aligned_cols=26  Identities=35%  Similarity=0.961  Sum_probs=23.3

Q ss_pred             CcCCCceEecCcc-eeecCccccccCe
Q 029070          112 CVGCKNTVYPTEK-VSVNGTPYHKSCF  137 (199)
Q Consensus       112 C~~C~~~I~~~~~-v~~~~~~~H~~Cf  137 (199)
                      |..|.+.|.|+.+ +.+.|..||..||
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            7789999999876 7799999999998

>d1x68a1 g.39.1.3 (A:8-36) Four and a half LIM domains protein 5, FHL-5 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 5, FHL-5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.56  E-value=1.6e-05  Score=38.73  Aligned_cols=26  Identities=27%  Similarity=0.700  Sum_probs=22.4

Q ss_pred             ccccCceeec---ceeEEeCCcccccccc
Q 029070           12 CMACDKTVYL---VDKLTADNRIYHKACF   37 (199)
Q Consensus        12 C~~C~~~I~~---~~~~~~~~~~~H~~CF   37 (199)
                      |..|.+||..   ..+|...++.||.+||
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            7889999953   3579999999999998

>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=97.49  E-value=1.9e-05  Score=38.52  Aligned_cols=26  Identities=31%  Similarity=0.847  Sum_probs=22.0

Q ss_pred             CcCCCceEecC---cceeecCccccccCe
Q 029070          112 CVGCKNTVYPT---EKVSVNGTPYHKSCF  137 (199)
Q Consensus       112 C~~C~~~I~~~---~~v~~~~~~~H~~Cf  137 (199)
                      |+.|.+||.+.   ..|++.++.||..||
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            78999999853   248899999999998

>d1ibia1 g.39.1.3 (A:117-144) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

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

Probab=97.49  E-value=2.2e-05  Score=37.81  Aligned_cols=27  Identities=52%  Similarity=1.077  Sum_probs=25.1

Q ss_pred             CCCcCCCceEecCcceeecCccccccC
Q 029070          110 EKCVGCKNTVYPTEKVSVNGTPYHKSC  136 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~~~~~~~H~~C  136 (199)
                      .+|.+|++.++..|.|.-.|+.||..|
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            579999999999999999999999987

>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=97.49  E-value=3.7e-05  Score=38.91  Aligned_cols=29  Identities=17%  Similarity=0.418  Sum_probs=26.8

Q ss_pred             CCccccccCceeecceeEEeCCcccccccc
Q 029070            8 TQQKCMACDKTVYLVDKLTADNRIYHKACF   37 (199)
Q Consensus         8 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF   37 (199)
                      ..+.|.+|+.-| -+.++.+.++.+||+||
T Consensus         7 klp~CdkCg~GI-VG~~VK~rDk~rHPeCf   35 (35)
T d1x62a2           7 KLPMCDKCGTGI-VGVFVKLRDRHRHPECY   35 (35)
T ss_dssp             CCCCCSSSCCCC-CSSCEECSSCEECTTTT
T ss_pred             cCccccccCCCc-EeEEEEeccccCCCCCC
Confidence            478999999999 48999999999999998

>d2cupa3 g.39.1.3 (A:8-34) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.43  E-value=2.7e-05  Score=36.91  Aligned_cols=26  Identities=31%  Similarity=0.811  Sum_probs=22.0

Q ss_pred             ccccCceeecce-eEEeCCcccccccc
Q 029070           12 CMACDKTVYLVD-KLTADNRIYHKACF   37 (199)
Q Consensus        12 C~~C~~~I~~~~-~~~~~~~~~H~~CF   37 (199)
                      |..|.++|..+. .+...++.||..||
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            788999996443 48899999999998

>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=97.43  E-value=4.9e-05  Score=41.06  Aligned_cols=28  Identities=21%  Similarity=0.540  Sum_probs=26.3

Q ss_pred             CccccccCceeecceeEEeCCcccccccc
Q 029070            9 QQKCMACDKTVYLVDKLTADNRIYHKACF   37 (199)
Q Consensus         9 ~~~C~~C~~~I~~~~~~~~~~~~~H~~CF   37 (199)
                      .+.|.+|+--| -+.++.+.++.+|++||
T Consensus        18 LP~CdkCg~GI-VG~~VK~rDK~rHPeCf   45 (45)
T d1x64a1          18 MPLCDKCGSGI-VGAVVKARDKYRHPECF   45 (45)
T ss_dssp             CCBCTTTCCBC-CSCCEESSSCEECTTTC
T ss_pred             CccccccCCCc-EEEEEEeccccCCCCCC
Confidence            68999999999 49999999999999998

>d1x63a2 g.39.1.3 (A:45-76) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.38  E-value=3.2e-05  Score=37.74  Aligned_cols=32  Identities=22%  Similarity=0.560  Sum_probs=29.2

Q ss_pred             eeccCcccccCCcccccCCcccccccHHHHhh
Q 029070           38 RCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFK   69 (199)
Q Consensus        38 ~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~   69 (199)
                      +|+.|++.+..+.|+.++...||..|.+..|+
T Consensus         1 tcs~ckq~igsgsffpkg~d~ycvtche~kfa   32 (32)
T d1x63a2           1 TCSNCKQVIGTGSFFPKGEDFYCVTCHETKFA   32 (32)
T ss_dssp             CCSSSCCCCTTSCEEEETTEEEEHHHHHHHTS
T ss_pred             CcchhhhhcccccccCCCCcEEEEEeeccccC
Confidence            58999999999999999999999999987764

>d1x68a1 g.39.1.3 (A:8-36) Four and a half LIM domains protein 5, FHL-5 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 5, FHL-5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.37  E-value=3.3e-05  Score=37.57  Aligned_cols=26  Identities=23%  Similarity=0.732  Sum_probs=21.8

Q ss_pred             CcCCCceEecCc---ceeecCccccccCe
Q 029070          112 CVGCKNTVYPTE---KVSVNGTPYHKSCF  137 (199)
Q Consensus       112 C~~C~~~I~~~~---~v~~~~~~~H~~Cf  137 (199)
                      |..|.+||.+..   .|.+.++.||.+||
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            788999998632   37899999999998

>d1b8ta1 g.39.1.3 (A:1-35) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]}

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

Probab=97.30  E-value=6.7e-05  Score=37.67  Aligned_cols=30  Identities=43%  Similarity=0.915  Sum_probs=27.3

Q ss_pred             CCCCCcCCCceEecCcceeecCccccccCe
Q 029070          108 TREKCVGCKNTVYPTEKVSVNGTPYHKSCF  137 (199)
Q Consensus       108 ~~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf  137 (199)
                      +..+|..|.+.++-.|-|...++.||..||
T Consensus         6 gg~kcg~c~ktvy~aeevqc~g~sfhk~cf   35 (35)
T d1b8ta1           6 GGKKCGVCQKAVYFAEEVQCEGSSFHKSCF   35 (35)
T ss_dssp             CCEECTTTCCEECSSCCEEETTEEECTTTC
T ss_pred             CCceeccccceEeeeeeeeecCcccccccC
Confidence            347999999999988889999999999998

>d2cura1 g.39.1.3 (A:33-63) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.30  E-value=8.7e-05  Score=36.51  Aligned_cols=29  Identities=17%  Similarity=0.361  Sum_probs=26.6

Q ss_pred             ecccCCCCCCCCCeeeeCCccccHhHHHh
Q 029070          138 KCSHGGCVISPSNYIAHEGRLYCKHHHNQ  166 (199)
Q Consensus       138 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~  166 (199)
                      .|..|+++|.+.+|...+++.||-+||..
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            38899999999999999999999999975

>d2dloa2 g.39.1.3 (A:43-75) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.12  E-value=0.00019  Score=36.32  Aligned_cols=32  Identities=6%  Similarity=0.183  Sum_probs=27.6

Q ss_pred             ecccCCCCCCCCCeeee-CCccccHhHHHhHhc
Q 029070          138 KCSHGGCVISPSNYIAH-EGRLYCKHHHNQLIK  169 (199)
Q Consensus       138 ~C~~C~~~l~~~~~~~~-~g~~yC~~c~~~~~~  169 (199)
                      .|..|++.|.+-.|... ++++||-.+|.++|+
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            48889999999888655 799999999999874

>d1x64a2 g.39.1.3 (A:53-83) PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 3, PDLIM3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.11  E-value=0.0001  Score=36.23  Aligned_cols=29  Identities=38%  Similarity=0.686  Sum_probs=25.9

Q ss_pred             eeccCcccccCCcccccCCcccccccHHH
Q 029070           38 RCHHCKGTLKLGNYNSFEGVLYCRPHFDQ   66 (199)
Q Consensus        38 ~C~~C~~~L~~~~f~~~~g~~yC~~c~~~   66 (199)
                      .|+.|+..|....+|..++++||+.+...
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            48999999998899999999999988654

>d1x64a2 g.39.1.3 (A:53-83) PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 3, PDLIM3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.10  E-value=0.00024  Score=34.91  Aligned_cols=30  Identities=27%  Similarity=0.574  Sum_probs=26.7

Q ss_pred             ecccCCCCCCCCCeeeeCCccccHhHHHhH
Q 029070          138 KCSHGGCVISPSNYIAHEGRLYCKHHHNQL  167 (199)
Q Consensus       138 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~  167 (199)
                      .|+.|+..|....++..++++||+.|...+
T Consensus         1 vC~dCg~NLKqrG~Ffv~~~lyCE~HAr~R   30 (31)
T d1x64a2           1 VCADCNLNLKQKGYFFVEGELYCETHARAR   30 (31)
T ss_dssp             CCSSSCCCTTTSCCEEETTEEECHHHHHHH
T ss_pred             CccccccChhhcceEEeccEEeehhhhhcc
Confidence            388999999988899999999999998764

>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=97.03  E-value=0.00015  Score=34.46  Aligned_cols=27  Identities=44%  Similarity=1.056  Sum_probs=25.1

Q ss_pred             CCcCCCceEecCcceeecCccccccCe
Q 029070          111 KCVGCKNTVYPTEKVSVNGTPYHKSCF  137 (199)
Q Consensus       111 ~C~~C~~~I~~~~~v~~~~~~~H~~Cf  137 (199)
                      +|+.|.+.++-.|-|...++.||..||
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            699999999988889999999999998

>d1x63a2 g.39.1.3 (A:45-76) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.01  E-value=0.00035  Score=33.95  Aligned_cols=32  Identities=22%  Similarity=0.493  Sum_probs=28.8

Q ss_pred             ecccCCCCCCCCCeeeeCCccccHhHHHhHhc
Q 029070          138 KCSHGGCVISPSNYIAHEGRLYCKHHHNQLIK  169 (199)
Q Consensus       138 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~~~  169 (199)
                      .|+.|+..|..+.|+..+...||-.|++.+|+
T Consensus         1 tcs~ckq~igsgsffpkg~d~ycvtche~kfa   32 (32)
T d1x63a2           1 TCSNCKQVIGTGSFFPKGEDFYCVTCHETKFA   32 (32)
T ss_dssp             CCSSSCCCCTTSCEEEETTEEEEHHHHHHHTS
T ss_pred             CcchhhhhcccccccCCCCcEEEEEeeccccC
Confidence            48889999999999999999999999998874

>d1x62a2 g.39.1.3 (A:8-42) PDZ and LIM domain protein 1 Elfin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 1 Elfin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.97  E-value=0.00021  Score=36.05  Aligned_cols=27  Identities=19%  Similarity=0.461  Sum_probs=24.2

Q ss_pred             CCCcCCCceEecCcceeecCccccccCe
Q 029070          110 EKCVGCKNTVYPTEKVSVNGTPYHKSCF  137 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~~~~~~~H~~Cf  137 (199)
                      +.|..|+..|.+. .|.++++.+|++||
T Consensus         9 p~CdkCg~GIVG~-~VK~rDk~rHPeCf   35 (35)
T d1x62a2           9 PMCDKCGTGIVGV-FVKLRDRHRHPECY   35 (35)
T ss_dssp             CCCSSSCCCCCSS-CEECSSCEECTTTT
T ss_pred             ccccccCCCcEeE-EEEeccccCCCCCC
Confidence            8999999999855 38899999999997

>d1x64a1 g.39.1.3 (A:8-52) PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 3, PDLIM3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.92  E-value=0.00023  Score=38.35  Aligned_cols=28  Identities=21%  Similarity=0.430  Sum_probs=24.7

Q ss_pred             CCCCcCCCceEecCcceeecCccccccCe
Q 029070          109 REKCVGCKNTVYPTEKVSVNGTPYHKSCF  137 (199)
Q Consensus       109 ~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf  137 (199)
                      .+.|..|+..|.+. .|.++++.+|++||
T Consensus        18 LP~CdkCg~GIVG~-~VK~rDK~rHPeCf   45 (45)
T d1x64a1          18 MPLCDKCGSGIVGA-VVKARDKYRHPECF   45 (45)
T ss_dssp             CCBCTTTCCBCCSC-CEESSSCEECTTTC
T ss_pred             CccccccCCCcEEE-EEEeccccCCCCCC
Confidence            38999999999865 38899999999998

>d2cupa3 g.39.1.3 (A:8-34) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=96.92  E-value=0.0002  Score=33.84  Aligned_cols=26  Identities=31%  Similarity=0.793  Sum_probs=21.1

Q ss_pred             CcCCCceEecCcc-eeecCccccccCe
Q 029070          112 CVGCKNTVYPTEK-VSVNGTPYHKSCF  137 (199)
Q Consensus       112 C~~C~~~I~~~~~-v~~~~~~~H~~Cf  137 (199)
                      |..|.+||-.... +...++.||..||
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            6789999964332 7799999999998

>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=96.85  E-value=0.00037  Score=34.29  Aligned_cols=29  Identities=24%  Similarity=0.394  Sum_probs=26.2

Q ss_pred             ecccCCCCCCCCCeeeeCCccccHhHHHh
Q 029070          138 KCSHGGCVISPSNYIAHEGRLYCKHHHNQ  166 (199)
Q Consensus       138 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~  166 (199)
                      .|..|+..|.+..|+..+.+.||+.||-.
T Consensus         1 vC~tC~~kLRGqpFYAvekkayCE~CYi~   29 (32)
T d1x61a2           1 VCSTCRAQLRGQHFYAVERRAYCEGCYVA   29 (32)
T ss_dssp             BCSSSCCBCTTSCEEESSSCEEEHHHHHH
T ss_pred             CeeEeCceecCCcceEeeccccccceeee
Confidence            37889999999999999999999999964

>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=96.74  E-value=0.00013  Score=35.94  Aligned_cols=30  Identities=27%  Similarity=0.482  Sum_probs=26.1

Q ss_pred             eeccCcccccCCcccccCCcccccccHHHH
Q 029070           38 RCHHCKGTLKLGNYNSFEGVLYCRPHFDQL   67 (199)
Q Consensus        38 ~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~   67 (199)
                      .|+.|+..|....||..++++||+.+...+
T Consensus         1 vC~dCg~NLKqrG~Ffve~~lyCE~HAr~r   30 (31)
T d1x62a1           1 VCTDCGTNLKQKGHFFVEDQIYCEKHARER   30 (31)
T ss_dssp             SCSSSCCCHHHHCCEESSSCEECHHHHHHH
T ss_pred             CccccccChhhcceEEeccEEehhhhhhhc
Confidence            489999999988899999999999886543

>d1g47a1 g.39.1.3 (A:1-35) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=96.54  E-value=0.00076  Score=34.12  Aligned_cols=30  Identities=20%  Similarity=0.579  Sum_probs=25.8

Q ss_pred             CCCccccccCceeeccee-EEeCCccccccc
Q 029070            7 GTQQKCMACDKTVYLVDK-LTADNRIYHKAC   36 (199)
Q Consensus         7 ~~~~~C~~C~~~I~~~~~-~~~~~~~~H~~C   36 (199)
                      .....|.+|+.-+.+.+. |...|..||+.|
T Consensus         5 L~~~~C~RC~~gF~p~EkiVNSnGEl~H~qC   35 (35)
T d1g47a1           5 LASATCERCKGGFAPAEKIVNSNGELYHEQC   35 (35)
T ss_dssp             CCCCBCSSSCCBCCSTTTCEEETTEEECTTT
T ss_pred             HHHHHHHHHccCCCchHHhhcCCCccccccC
Confidence            356789999999988774 799999999987

>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=96.49  E-value=0.00023  Score=35.03  Aligned_cols=30  Identities=20%  Similarity=0.505  Sum_probs=26.1

Q ss_pred             ecccCCCCCCCCCeeeeCCccccHhHHHhH
Q 029070          138 KCSHGGCVISPSNYIAHEGRLYCKHHHNQL  167 (199)
Q Consensus       138 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~  167 (199)
                      .|+.|+..|....++..++++||+.|...+
T Consensus         1 vC~dCg~NLKqrG~Ffve~~lyCE~HAr~r   30 (31)
T d1x62a1           1 VCTDCGTNLKQKGHFFVEDQIYCEKHARER   30 (31)
T ss_dssp             SCSSSCCCHHHHCCEESSSCEECHHHHHHH
T ss_pred             CccccccChhhcceEEeccEEehhhhhhhc
Confidence            388899999877889999999999998765

>d2cupa2 g.39.1.3 (A:35-65) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=96.46  E-value=0.00045  Score=33.72  Aligned_cols=27  Identities=19%  Similarity=0.458  Sum_probs=25.1

Q ss_pred             eeccCcccccCCcccccCCcccccccH
Q 029070           38 RCHHCKGTLKLGNYNSFEGVLYCRPHF   64 (199)
Q Consensus        38 ~C~~C~~~L~~~~f~~~~g~~yC~~c~   64 (199)
                      +|+.|-.+|....|..+|++++|..|.
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            589999999999999999999999885

>d1x6aa1 g.39.1.3 (A:8-41) Lim domain kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Lim domain kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.21  E-value=0.0003  Score=35.50  Aligned_cols=26  Identities=27%  Similarity=0.525  Sum_probs=21.1

Q ss_pred             CCCcCCCceEecCcceeecCccccccC
Q 029070          110 EKCVGCKNTVYPTEKVSVNGTPYHKSC  136 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~~~~~~~H~~C  136 (199)
                      ..|..|...|. +-.+.+.+..||++|
T Consensus         9 e~C~~C~~~it-GpvMvAG~~K~HPEC   34 (34)
T d1x6aa1           9 EFCHGCSLLMT-GPFMVAGEFKYHPEC   34 (34)
T ss_dssp             CBCTTTCCBCC-SCCBCCTTCCBCTTS
T ss_pred             HHhhhhHhhcc-cceeeecccccCCCC
Confidence            89999999776 443558889999998

>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=96.07  E-value=0.0015  Score=30.27  Aligned_cols=26  Identities=31%  Similarity=0.686  Sum_probs=21.4

Q ss_pred             ccccCceeecc-eeEEeCCcccccccc
Q 029070           12 CMACDKTVYLV-DKLTADNRIYHKACF   37 (199)
Q Consensus        12 C~~C~~~I~~~-~~~~~~~~~~H~~CF   37 (199)
                      |.+|++.+..+ .-+.++++.||..||
T Consensus         1 cggcgedvvgdgagvvaldrvfhvgcf   27 (27)
T d1x61a1           1 CGGCGEDVVGDGAGVVALDRVFHVGCF   27 (27)
T ss_dssp             CSSSCSCCCSSSCCEECSSSEECTTTC
T ss_pred             CCCcccccccCCcceEEEeeeEEeccC
Confidence            78899988533 348999999999998

>d1rutx2 g.39.1.3 (X:49-82) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.92  E-value=0.0007  Score=34.01  Aligned_cols=32  Identities=25%  Similarity=0.631  Sum_probs=26.7

Q ss_pred             eeccCcccccC--CcccccCCcccccccHHHHhh
Q 029070           38 RCHHCKGTLKL--GNYNSFEGVLYCRPHFDQLFK   69 (199)
Q Consensus        38 ~C~~C~~~L~~--~~f~~~~g~~yC~~c~~~~~~   69 (199)
                      +|+-|+..|.+  .+.|.+.|.++|+.+|.++|+
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            47788888865  358889999999999999884

>d1rutx4 g.39.1.3 (X:114-146) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.56  E-value=0.0029  Score=31.12  Aligned_cols=26  Identities=27%  Similarity=0.824  Sum_probs=22.1

Q ss_pred             eeccCcccccCC-cccccCCccccccc
Q 029070           38 RCHHCKGTLKLG-NYNSFEGVLYCRPH   63 (199)
Q Consensus        38 ~C~~C~~~L~~~-~f~~~~g~~yC~~c   63 (199)
                      +|+.|...|..+ .|...+|.+||+.+
T Consensus         1 tC~tC~n~LVPGDRFHyvNG~lfCE~D   27 (33)
T d1rutx4           1 TCSTCRNRLVPGDRFHYINGSLFCEHD   27 (33)
T ss_dssp             BCTTTCCBCCTTCEEEEETTEEEEGGG
T ss_pred             CcccccccccCCceeEEecCEEEEecC
Confidence            588998888776 48889999999976

>d1g47a1 g.39.1.3 (A:1-35) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=95.44  E-value=0.0036  Score=31.54  Aligned_cols=27  Identities=44%  Similarity=0.908  Sum_probs=24.0

Q ss_pred             CCCcCCCceEecCcc-eeecCccccccC
Q 029070          110 EKCVGCKNTVYPTEK-VSVNGTPYHKSC  136 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~-v~~~~~~~H~~C  136 (199)
                      -.|.+|+....+.|. |...|..||..|
T Consensus         8 ~~C~RC~~gF~p~EkiVNSnGEl~H~qC   35 (35)
T d1g47a1           8 ATCERCKGGFAPAEKIVNSNGELYHEQC   35 (35)
T ss_dssp             CBCSSSCCBCCSTTTCEEETTEEECTTT
T ss_pred             HHHHHHccCCCchHHhhcCCCccccccC
Confidence            689999999999887 569999999987

>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=95.43  E-value=0.0062  Score=29.54  Aligned_cols=28  Identities=25%  Similarity=0.616  Sum_probs=22.8

Q ss_pred             ecccCCCCCCCCCeeeeCCccccHhHHHh
Q 029070          138 KCSHGGCVISPSNYIAHEGRLYCKHHHNQ  166 (199)
Q Consensus       138 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~  166 (199)
                      .|..|++.|.... ....|.+||.+|+.+
T Consensus         1 nC~~CgkeltadA-rEl~geLyCLpChdK   28 (31)
T d2cora1           1 NCANCGKELTADA-RELKGELYCLPCHDK   28 (31)
T ss_dssp             BCSSSCCBCCTTC-EEETTEEECHHHHHT
T ss_pred             CccccccccchhH-HHhcCCEEEEecccc
Confidence            3788999988744 577899999999876

>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=95.41  E-value=0.0026  Score=33.29  Aligned_cols=27  Identities=22%  Similarity=0.555  Sum_probs=20.6

Q ss_pred             cccccCceeecceeE-EeCCcccccccc
Q 029070           11 KCMACDKTVYLVDKL-TADNRIYHKACF   37 (199)
Q Consensus        11 ~C~~C~~~I~~~~~~-~~~~~~~H~~CF   37 (199)
                      .|.+|++.+..++-| .-.+..|||.|-
T Consensus         1 ~C~rC~~mF~EGEEMYLQGs~IWHP~C~   28 (41)
T d1wiga2           1 LCVRCGQMFAEGEEMYLQGSSIWHPACR   28 (41)
T ss_dssp             CCSSSCCCCCSSCCCEEETTEEECTTHH
T ss_pred             CcchhhccccccceeeecCCceeCCccc
Confidence            488999999888765 445677999884

>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=95.39  E-value=0.0044  Score=30.37  Aligned_cols=30  Identities=27%  Similarity=0.537  Sum_probs=27.0

Q ss_pred             eeccCcccccCCcccccCCcccccccHHHH
Q 029070           38 RCHHCKGTLKLGNYNSFEGVLYCRPHFDQL   67 (199)
Q Consensus        38 ~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~   67 (199)
                      +|..|...|.+..|....|+.+|.+|..+.
T Consensus         1 rC~~C~~~LAD~GFvKnagR~LCrpch~re   30 (32)
T d2d8xa1           1 RCDLCQEVLADIGFVKNAGRHLCRPCHNRE   30 (32)
T ss_dssp             BCSSSCCBCSSSCCEEETTEEECHHHHHHH
T ss_pred             CchHHHhHHHHhhhhhcccccccchhhhhc
Confidence            589999999999999999999999997653

>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=95.38  E-value=0.0037  Score=31.34  Aligned_cols=27  Identities=22%  Similarity=0.437  Sum_probs=24.3

Q ss_pred             CccccccCceeecceeEEeCCccccccc
Q 029070            9 QQKCMACDKTVYLVDKLTADNRIYHKAC   36 (199)
Q Consensus         9 ~~~C~~C~~~I~~~~~~~~~~~~~H~~C   36 (199)
                      ...|..|.+.| .+-+|.|.+..|||+|
T Consensus         8 ge~C~~C~~~i-tGpvMvAG~~K~HPEC   34 (34)
T d1x6aa1           8 GEFCHGCSLLM-TGPFMVAGEFKYHPEC   34 (34)
T ss_dssp             SCBCTTTCCBC-CSCCBCCTTCCBCTTS
T ss_pred             HHHhhhhHhhc-ccceeeecccccCCCC
Confidence            56899999988 4899999999999998

>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=95.37  E-value=0.004  Score=28.72  Aligned_cols=26  Identities=31%  Similarity=0.652  Sum_probs=20.9

Q ss_pred             CcCCCceEecCc-ceeecCccccccCe
Q 029070          112 CVGCKNTVYPTE-KVSVNGTPYHKSCF  137 (199)
Q Consensus       112 C~~C~~~I~~~~-~v~~~~~~~H~~Cf  137 (199)
                      |.+|+..+.... .+.+.++.||..||
T Consensus         1 cggcgedvvgdgagvvaldrvfhvgcf   27 (27)
T d1x61a1           1 CGGCGEDVVGDGAGVVALDRVFHVGCF   27 (27)
T ss_dssp             CSSSCSCCCSSSCCEECSSSEECTTTC
T ss_pred             CCCcccccccCCcceEEEeeeEEeccC
Confidence            678888876543 38899999999997

>d1x6aa2 g.39.1.3 (A:42-75) Lim domain kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Lim domain kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.32  E-value=0.0082  Score=30.00  Aligned_cols=31  Identities=29%  Similarity=0.640  Sum_probs=24.5

Q ss_pred             eecccCCCCCCC-CCeeee-CCccccHhHHHhH
Q 029070          137 FKCSHGGCVISP-SNYIAH-EGRLYCKHHHNQL  167 (199)
Q Consensus       137 f~C~~C~~~l~~-~~~~~~-~g~~yC~~c~~~~  167 (199)
                      |.|..|+.-|.. +.|... ..++||..||.+.
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            678899998874 466655 5899999999864

>d1wiga1 g.39.1.3 (A:1-32) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.29  E-value=0.0052  Score=29.94  Aligned_cols=26  Identities=23%  Similarity=0.578  Sum_probs=22.2

Q ss_pred             CCCcCCCceEecCcceeecCccccccC
Q 029070          110 EKCVGCKNTVYPTEKVSVNGTPYHKSC  136 (199)
Q Consensus       110 ~~C~~C~~~I~~~~~v~~~~~~~H~~C  136 (199)
                      .-|..|.+.|.+. .+.+.+++||+.|
T Consensus         6 sgC~~C~~~ItGk-VLEAG~khYHP~C   31 (32)
T d1wiga1           6 SGCDSCEKYITGR-VLEAGEKHYHPSC   31 (32)
T ss_dssp             CSCSSSCCCCSSC-CBCCSSCCBCTTT
T ss_pred             chhhhhhhhhhhh-hhhccccccCCCC
Confidence            6799999999744 4779999999988

>d1x6aa2 g.39.1.3 (A:42-75) Lim domain kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Lim domain kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.11  E-value=0.0056  Score=30.62  Aligned_cols=31  Identities=29%  Similarity=0.749  Sum_probs=25.2

Q ss_pred             ceeccCcccccCCc-ccccC-CcccccccHHHH
Q 029070           37 FRCHHCKGTLKLGN-YNSFE-GVLYCRPHFDQL   67 (199)
Q Consensus        37 F~C~~C~~~L~~~~-f~~~~-g~~yC~~c~~~~   67 (199)
                      |.|..|+.-+.++. |...+ .++||..||.+.
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            78999999998875 66554 689999999764

>d2cupa2 g.39.1.3 (A:35-65) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=94.79  E-value=0.012  Score=28.55  Aligned_cols=29  Identities=10%  Similarity=0.497  Sum_probs=25.3

Q ss_pred             ecccCCCCCCCCCeeeeCCccccHhHHHh
Q 029070          138 KCSHGGCVISPSNYIAHEGRLYCKHHHNQ  166 (199)
Q Consensus       138 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~  166 (199)
                      +|..|-.+|..+.|...|++++|..|..+
T Consensus         1 RCaKC~hpLA~E~F~aKd~kI~C~Kc~sr   29 (31)
T d2cupa2           1 RCAKCLHPLANETFVAKDNKILCNKCTTR   29 (31)
T ss_dssp             CCSSSCCCTTSSCCEEETTEEECHHHHTT
T ss_pred             CchhhccccccCcccccCCeEeecccccc
Confidence            57888899999999999999999998643

>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=94.62  E-value=0.0082  Score=29.99  Aligned_cols=32  Identities=19%  Similarity=0.412  Sum_probs=26.6

Q ss_pred             ecccCCCCCC--CCCeeeeCCccccHhHHHhHhc
Q 029070          138 KCSHGGCVIS--PSNYIAHEGRLYCKHHHNQLIK  169 (199)
Q Consensus       138 ~C~~C~~~l~--~~~~~~~~g~~yC~~c~~~~~~  169 (199)
                      +|+-|+..|.  +...+.+.|.++|+.+|.++|+
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            4777788776  4577899999999999999986

>d1rutx4 g.39.1.3 (X:114-146) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.59  E-value=0.01  Score=29.07  Aligned_cols=27  Identities=22%  Similarity=0.523  Sum_probs=21.8

Q ss_pred             ecccCCCCCC-CCCeeeeCCccccHhHH
Q 029070          138 KCSHGGCVIS-PSNYIAHEGRLYCKHHH  164 (199)
Q Consensus       138 ~C~~C~~~l~-~~~~~~~~g~~yC~~c~  164 (199)
                      .|+.|...|. +.+|...+|.+||+.+.
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            4788888876 56888999999998764

>d2cora2 g.39.1.3 (A:8-42) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=94.26  E-value=0.011  Score=29.73  Aligned_cols=31  Identities=23%  Similarity=0.349  Sum_probs=25.9

Q ss_pred             CCCCccccccCceeecceeEEeCCcccccccc
Q 029070            6 AGTQQKCMACDKTVYLVDKLTADNRIYHKACF   37 (199)
Q Consensus         6 ~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~CF   37 (199)
                      +.+.-+|.+|+..| ..+.+...+..||+..|
T Consensus         5 glGk~vC~KCh~iI-dd~pL~Fr~d~YHp~HF   35 (35)
T d2cora2           5 GLGKYICQKCHAII-DEQPLIFKNDPYHPDHF   35 (35)
T ss_dssp             CCCCCBCTTTCCBC-CSCCCCCSSSCCCTTTS
T ss_pred             chhhHHHHHHHhhh-hcCcceecCCCCCCCCC
Confidence            34567899999999 46788999999999876

>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=94.15  E-value=0.024  Score=27.68  Aligned_cols=30  Identities=23%  Similarity=0.564  Sum_probs=26.2

Q ss_pred             ecccCCCCCCCCCeeeeCCccccHhHHHhH
Q 029070          138 KCSHGGCVISPSNYIAHEGRLYCKHHHNQL  167 (199)
Q Consensus       138 ~C~~C~~~l~~~~~~~~~g~~yC~~c~~~~  167 (199)
                      +|..|...|..-.|....|+.+|.+|..+.
T Consensus         1 rC~~C~~~LAD~GFvKnagR~LCrpch~re   30 (32)
T d2d8xa1           1 RCDLCQEVLADIGFVKNAGRHLCRPCHNRE   30 (32)
T ss_dssp             BCSSSCCBCSSSCCEEETTEEECHHHHHHH
T ss_pred             CchHHHhHHHHhhhhhcccccccchhhhhc
Confidence            588999999988888889999999998763

>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=93.73  E-value=0.011  Score=28.70  Aligned_cols=27  Identities=33%  Similarity=0.813  Sum_probs=21.3

Q ss_pred             eccCcccccCCcccccCCcccccccHHH
Q 029070           39 CHHCKGTLKLGNYNSFEGVLYCRPHFDQ   66 (199)
Q Consensus        39 C~~C~~~L~~~~f~~~~g~~yC~~c~~~   66 (199)
                      |+.|++.|.. .-.+..|.+||.+|..+
T Consensus         2 C~~Cgkelta-dArEl~geLyCLpChdK   28 (31)
T d2cora1           2 CANCGKELTA-DARELKGELYCLPCHDK   28 (31)
T ss_dssp             CSSSCCBCCT-TCEEETTEEECHHHHHT
T ss_pred             ccccccccch-hHHHhcCCEEEEecccc
Confidence            7889999963 34567899999999754

>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=92.85  E-value=0.02  Score=29.77  Aligned_cols=28  Identities=21%  Similarity=0.463  Sum_probs=18.9

Q ss_pred             CCcCCCceEecCcc-eeecCccccccCee
Q 029070          111 KCVGCKNTVYPTEK-VSVNGTPYHKSCFK  138 (199)
Q Consensus       111 ~C~~C~~~I~~~~~-v~~~~~~~H~~Cf~  138 (199)
                      .|++|++....+|- ..-.+..||+.|-.
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            37788887766543 44667778887744

>d1x68a2 g.39.1.3 (A:37-70) Four and a half LIM domains protein 5, FHL-5 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 5, FHL-5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.27  E-value=0.028  Score=27.45  Aligned_cols=25  Identities=16%  Similarity=0.476  Sum_probs=23.0

Q ss_pred             eccCcccccCCcccccCCccccccc
Q 029070           39 CHHCKGTLKLGNYNSFEGVLYCRPH   63 (199)
Q Consensus        39 C~~C~~~L~~~~f~~~~g~~yC~~c   63 (199)
                      |-.|+.+|.+..|......++|.+|
T Consensus         2 cgkcsvslvg~gfltq~~~i~c~~c   26 (34)
T d1x68a2           2 CGKCSVSLVGKGFLTQNKEIFCQKC   26 (34)
T ss_dssp             CTTTCCBCSSSCEEEETTEEEETTT
T ss_pred             CccceEEEEeeeeeeccCcEEehhc
Confidence            6789999999999999999999988

>d2co8a1 g.39.1.3 (A:44-76) Nedd9 interacting protein with calponin homology, NICAL (MICAL1) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Nedd9 interacting protein with calponin homology, NICAL (MICAL1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.70  E-value=0.04  Score=27.04  Aligned_cols=29  Identities=28%  Similarity=0.684  Sum_probs=22.2

Q ss_pred             ecccCCCCCCCCCee--eeCCccccHhHHHh
Q 029070          138 KCSHGGCVISPSNYI--AHEGRLYCKHHHNQ  166 (199)
Q Consensus       138 ~C~~C~~~l~~~~~~--~~~g~~yC~~c~~~  166 (199)
                      +|..|...|..+.|.  ..||..||..|+.+
T Consensus         1 rC~~CeatL~pG~Y~qhp~dghfyc~~hlpq   31 (33)
T d2co8a1           1 RCHTCEATLWPGGYEQHPGDGHFYCLQHLPQ   31 (33)
T ss_dssp             BCSSSCCBCCTTSEECCTTTCCCEETTTCCC
T ss_pred             CceeeeeEEccCcccCCCCCceEeeeeccCC
Confidence            477888888877765  45899999988653

>d1j2oa2 g.39.1.3 (A:31-63) Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Rhombotin-2 (Lmo2)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.66  E-value=0.093  Score=25.52  Aligned_cols=30  Identities=23%  Similarity=0.366  Sum_probs=22.6

Q ss_pred             eeccCcccccC--CcccccCCcccccccHHHH
Q 029070           38 RCHHCKGTLKL--GNYNSFEGVLYCRPHFDQL   67 (199)
Q Consensus        38 ~C~~C~~~L~~--~~f~~~~g~~yC~~c~~~~   67 (199)
                      +|.-|+..|.+  ...|.+.+.++|+.+|.++
T Consensus         2 kC~cC~cRLGEVG~tlytk~nliLCkrDYlRl   33 (33)
T d1j2oa2           2 SCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRL   33 (33)
T ss_dssp             CCSSSCSCCCCSSSCCCCBTTBCCCHHHHHHH
T ss_pred             ccccccccccchhhHHHhhcceeeehhhhhcC
Confidence            56667667754  3478899999999999763

>d2cora2 g.39.1.3 (A:8-42) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=90.17  E-value=0.082  Score=26.44  Aligned_cols=28  Identities=21%  Similarity=0.562  Sum_probs=23.0

Q ss_pred             CCCCcCCCceEecCcceeecCccccccCe
Q 029070          109 REKCVGCKNTVYPTEKVSVNGTPYHKSCF  137 (199)
Q Consensus       109 ~~~C~~C~~~I~~~~~v~~~~~~~H~~Cf  137 (199)
                      ...|..|...|.+ +.+.+.+..||+..|
T Consensus         8 k~vC~KCh~iIdd-~pL~Fr~d~YHp~HF   35 (35)
T d2cora2           8 KYICQKCHAIIDE-QPLIFKNDPYHPDHF   35 (35)
T ss_dssp             CCBCTTTCCBCCS-CCCCCSSSCCCTTTS
T ss_pred             hHHHHHHHhhhhc-CcceecCCCCCCCCC
Confidence            3789999988865 458899999999876

>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=88.67  E-value=0.11  Score=25.24  Aligned_cols=26  Identities=8%  Similarity=0.505  Sum_probs=21.5

Q ss_pred             cccCCCCCCCCCeeeeCCccccHhHH
Q 029070          139 CSHGGCVISPSNYIAHEGRLYCKHHH  164 (199)
Q Consensus       139 C~~C~~~l~~~~~~~~~g~~yC~~c~  164 (199)
                      |..|+.+|.+..|...+..++|..|-
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            66778888888888888899998874

>d1x4la2 g.39.1.3 (A:37-66) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=88.67  E-value=0.087  Score=24.84  Aligned_cols=26  Identities=15%  Similarity=0.286  Sum_probs=22.8

Q ss_pred             eccCcccccCCcccccCCcccccccH
Q 029070           39 CHHCKGTLKLGNYNSFEGVLYCRPHF   64 (199)
Q Consensus        39 C~~C~~~L~~~~f~~~~g~~yC~~c~   64 (199)
                      |..|..+|.+..|...-+.++|.+|-
T Consensus         2 c~kcsvslvgrgflterddilc~dcg   27 (30)
T d1x4la2           2 CKKCSLSLVGRGFLTERDDILCPDCG   27 (30)
T ss_dssp             CSSSCCBCTTSCCEECSSSEECHHHH
T ss_pred             cceeeEEEEeeeccccccceeccccC
Confidence            77899999999998888899999885

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.09  E-value=0.13  Score=32.28  Aligned_cols=33  Identities=15%  Similarity=0.334  Sum_probs=22.8

Q ss_pred             ceeccCcccccCCcccccCCcccccccHHHHhh
Q 029070           37 FRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFK   69 (199)
Q Consensus        37 F~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~   69 (199)
                      ++|..|...|.+......=|..||..|..+.+.
T Consensus        23 l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~   55 (97)
T d1jm7b_          23 LRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG   55 (97)
T ss_dssp             TSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTT
T ss_pred             CCCccCCchhhcCceeCCCCCchhHHHHHHHHh
Confidence            678888888865433334588999999765443

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.05  E-value=0.21  Score=27.99  Aligned_cols=33  Identities=9%  Similarity=0.145  Sum_probs=24.0

Q ss_pred             ceeccCcccccCCcccccCCcccccccHHHHhh
Q 029070           37 FRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFK   69 (199)
Q Consensus        37 F~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~   69 (199)
                      +.|..|...+.+.......|..||..|..+-+.
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~   33 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVK   33 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHH
T ss_pred             CCCccCCchHHhcCccCCCCCcccHHHHHHHHh
Confidence            368888888864334446799999999877654

>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=86.20  E-value=0.27  Score=25.04  Aligned_cols=28  Identities=14%  Similarity=0.304  Sum_probs=12.8

Q ss_pred             eecccCCCCCCCC-CeeeeCCccccHhHH
Q 029070          137 FKCSHGGCVISPS-NYIAHEGRLYCKHHH  164 (199)
Q Consensus       137 f~C~~C~~~l~~~-~~~~~~g~~yC~~c~  164 (199)
                      |.|+.|++++..+ +....+..-.|..|-
T Consensus         1 FvC~vCr~pFP~GDRVTFnGKeC~CQ~Cs   29 (40)
T d1v6ga2           1 FVCAVCRLPFPPGDRVTFNGKECMCQKCS   29 (40)
T ss_dssp             SSCSSSCCCCCSSSCEEEETTEEEEHHHH
T ss_pred             CcccccCCCCCCCCeEEEcCceeehhhcC
Confidence            3455555555432 333334444555554

>d1x4la2 g.39.1.3 (A:37-66) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=85.33  E-value=0.32  Score=22.78  Aligned_cols=27  Identities=7%  Similarity=0.369  Sum_probs=21.5

Q ss_pred             cccCCCCCCCCCeeeeCCccccHhHHH
Q 029070          139 CSHGGCVISPSNYIAHEGRLYCKHHHN  165 (199)
Q Consensus       139 C~~C~~~l~~~~~~~~~g~~yC~~c~~  165 (199)
                      |..|..+|.+..|....+.++|.+|-.
T Consensus         2 c~kcsvslvgrgflterddilc~dcgk   28 (30)
T d1x4la2           2 CKKCSLSLVGRGFLTERDDILCPDCGK   28 (30)
T ss_dssp             CSSSCCBCTTSCCEECSSSEECHHHHH
T ss_pred             cceeeEEEEeeeccccccceeccccCc
Confidence            666778888888877778888998854

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=80.76  E-value=0.55  Score=28.77  Aligned_cols=34  Identities=21%  Similarity=0.358  Sum_probs=26.0

Q ss_pred             ccceeccCcccccCCcccccCCcccccccHHHHhh
Q 029070           35 ACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFK   69 (199)
Q Consensus        35 ~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~   69 (199)
                      .-+.|..|...+.+ .....=|..||..|..+.+.
T Consensus        22 ~~l~C~IC~~~~~~-pv~~~CgH~FC~~Ci~~~~~   55 (86)
T d1rmda2          22 KSISCQICEHILAD-PVETSCKHLFCRICILRCLK   55 (86)
T ss_dssp             HHTBCTTTCSBCSS-EEECTTSCEEEHHHHHHHHH
T ss_pred             cCcCCccCCcchhc-ceecCCCChhhHHHHHHHHh
Confidence            45889999888854 34455699999999987664

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=80.73  E-value=0.8  Score=27.28  Aligned_cols=35  Identities=9%  Similarity=0.095  Sum_probs=27.9

Q ss_pred             cccceeccCcccccCCcccccCCcccccccHHHHhh
Q 029070           34 KACFRCHHCKGTLKLGNYNSFEGVLYCRPHFDQLFK   69 (199)
Q Consensus        34 ~~CF~C~~C~~~L~~~~f~~~~g~~yC~~c~~~~~~   69 (199)
                      ++-|.|..|...+.+- ....-|..||..|..+.+.
T Consensus         5 P~~l~CpIc~~l~~dP-v~~~cGhtfc~~ci~~~l~   39 (80)
T d2c2la2           5 PDYLCGKISFELMREP-CITPSGITYDRKDIEEHLQ   39 (80)
T ss_dssp             CSTTBCTTTCSBCSSE-EECSSCCEEETTHHHHHHH
T ss_pred             CccccCcCcCchhhhh-cccCCcCeecHHHHHHHHh
Confidence            5678999999988754 4556799999999887664