Psyllid ID: psy11691

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-
Protein Sequence
MGVRPRPRHHKHYQRSYLGGAVVNALDFGSGVAAARYLFHSIDLGDQLTNSNTDNPLSLPGVDVPQKTTSPAHREPGAPRAPSQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLTDPLRSSDRPDGHHAIGDDRYHAELNSDKSTNLLTDSEPSTHCDSNLVTASVESTNMERNMDNDDLNILNKCTTDDDKVNSVQNSIRFFDNPAPTKPKPDMKQYNAIMMISIY
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHcccccccccccccccccccccccccccccccEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccEEHHcccccccccEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHcccEEEEEEEEEEcccccccccEEEHHcccccccccccccccccEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcEEcccccccccccccccccEEEEEEEc
Coil and Loop (DISEMBL)
mgvrprprhhkhyqrsyLGGAVVNALDFGSGVAAARYLFHsidlgdqltnsntdnplslpgvdvpqkttspahrepgaprapsqppstlpgslklnscslcgEKVYLAQRFAFNARLFHRtcfkcarcqsQLTCINAYethtgqfccevcpdeeersltdplrssdrpdghhaigddryhaelnsdkstnlltdsepsthcdsnlvtasvestnmernmdnddlnilnkcttdddkvnSVQNSIrffdnpaptkpkpdmkqyNAIMMISIY
Flexible Loop (DISEMBL)
mgvrprprhhkhyqrsYLGGAVVNALDFGSGVAAARYLFHSIDLGDQLTNSNTDNPLSLPGVDVPQKTTspahrepgaprapsqppsTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSltdplrssdrpdgHHAIGDDRYHAELNSDKSTNlltdsepsthcdsNLVTASVESTNMERNMDNDDLNILNKCTTDDDKVNSVQNsirffdnpaptkpkpdmkqynAIMMISIY
Low Complexity Region (SEG)
MGVRPRPRHHKHYQRSYLGGAVVNALDFGSGVAAARYLFHSIDLGDQLTNSNTDNPLSLPGVDVPQKTTSPAHREPGAPRAPSQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLTDPLRSSDRPDGHHAIGDDRYHAELNSDKSTNLLTDSEPSTHCDSNLVTASVESTNMERNMDNDDLNILNKCTTDDDKVNSVQNSIRFFDNPAPTKPKPDMKQYNAIMMISIY
Disordered region (IsUnstruct)
************YQRSYLGGAVVNALDFGSGVAAARYLFHSIDLGD***********************************************KLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC*************************************************************************************************************************
Disordered Region (DISOPRED)
******P**HKHYQRSYLGG********************************************************************************CGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCP*****************************************************************************************************************IMMISIY
Disordered Region (DISEMBL)
*************QRSYLGGAVVNALDFGSGVAAARYLFHSIDLGDQLTNSNTDNPLSLPGVDVPQ***********************PGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCP*****************DGHHAIGDDRYHAELNSDKSTNLLTDSEPSTHCDSNLVTASVESTNMERNMDNDDLNILNKCTTDDDKVNSVQNSIRFFDNPAPTKPKPDMKQYNAIMMISIY
Disordered Region (DISPRO)
*************QRSYLGGAVVNALDFGSGVAAARYLFHSIDL***************************************************NSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC**********************************************************************************************************PDMKQYNAIMMISIY
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGVRPRPRHHKHYQRSYLGGAVVNALDFGSGVAAARYLFHSIDLGDQLTNSNTDNPLSLPGVDVPQKTTSPAHREPGAPRAPSQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLTDPLRSSDRPDGHHAIGDDRYHAELNSDKSTNLLTDSEPSTHCDSNLVTASVESTNMERNMDNDDLNILNKCTTDDDKVNSVQNSIRFFDNPAPTKPKPDMKQYNAIMMISIY
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	271	2.2.26 [Sep-21-2011]
F1MH07	1070	Protein-methionine sulfox	yes	N/A	0.369	0.093	0.327	3e-09
Q8TDZ2	1067	Protein-methionine sulfox	yes	N/A	0.313	0.079	0.351	6e-09
Q8IY33	904	MICAL-like protein 2 OS=H	no	N/A	0.228	0.068	0.411	6e-07
Q8VDP3	1048	Protein-methionine sulfox	yes	N/A	0.332	0.085	0.288	1e-06
Q8CJ19	1993	Protein-methionine sulfox	no	N/A	0.221	0.030	0.359	2e-06
Q7RTP6	2002	Protein-methionine sulfox	no	N/A	0.221	0.029	0.359	2e-06
Q8BGT6	870	MICAL-like protein 1 OS=M	no	N/A	0.202	0.063	0.378	3e-06
G3MWR8	1960	Protein-methionine sulfox	no	N/A	0.221	0.030	0.359	4e-06
Q8N3F8	863	MICAL-like protein 1 OS=H	no	N/A	0.206	0.064	0.406	4e-06
F1QWK4	1673	Protein-methionine sulfox	yes	N/A	0.188	0.030	0.365	2e-05

>sp|F1MH07|MICA1_BOVIN Protein-methionine sulfoxide oxidase MICAL1 OS=Bos taurus GN=MICAL1 PE=2 SV=1

 Score = 62.4 bits (150), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 36/110 (32%), Positives = 54/110 (49%), Gaps = 10/110 (9%)

Query: 67  KTTSPAHREPGAPRA--PSQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFK 124
           K  +P+  EP  P+   P  PPS    +   + C+LCG+ +Y+ +R   + R FHR+CF+
Sbjct: 664 KAETPSTEEPPVPKPDEPMTPPSQQQDASAEDLCALCGQHLYILERLCADGRFFHRSCFR 723

Query: 125 CARCQSQLTCINAYETHTGQ---FCCEVCPD---EEERSLTDPLRSSDRP 168
           C  C++ L     Y  H G    +C +  P    EE+ S   P  S D P
Sbjct: 724 CHICEATL-WPGGYRQHPGDGYLYCLQHLPQTGHEEDSSDRGP-ESQDLP 771

Monooxygenase that promotes depolymerization of F-actin by mediating oxidation of specific methionine residues on actin. Acts by modifying actin subunits through the addition of oxygen to form methionine-sulfoxide, leading to promote actin filament severing and prevent repolymerization. Acts as a cytoskeletal regulator that connects NEDD9 to intermediate filaments. Also acts as a negative regulator of apoptosis via its interaction with STK38 and STK38L; acts by antagonizing STK38 and STK38L activation by MST1/STK4.
Bos taurus (taxid: 9913)
EC: 1EC: .EC: 1EC: 4EC: .EC: 1EC: 3EC: .EC: -

>sp|Q8TDZ2|MICA1_HUMAN Protein-methionine sulfoxide oxidase MICAL1 OS=Homo sapiens GN=MICAL1 PE=1 SV=2

 Score = 61.6 bits (148), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 33/94 (35%), Positives = 46/94 (48%), Gaps = 9/94 (9%)

Query: 68  TTSPAHREPGAP-RAPSQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCA 126
           T  P   EPG P   PSQ      G L    C+LCGE +Y+ +R   N   FHR+CF+C 
Sbjct: 670 TEVPPDPEPGVPLTPPSQHQEAGAGDL----CALCGEHLYVLERLCVNGHFFHRSCFRCH 725

Query: 127 RCQSQLTCINAYETHTGQ---FCCEVCPDEEERS 157
            C++ L     YE H G    +C +  P  + ++
Sbjct: 726 TCEATL-WPGGYEQHPGDGHFYCLQHLPQTDHKA 758

Monooxygenase that promotes depolymerization of F-actin by mediating oxidation of specific methionine residues on actin. Acts by modifying actin subunits through the addition of oxygen to form methionine-sulfoxide, leading to promote actin filament severing and prevent repolymerization (Probable). Acts as a cytoskeletal regulator that connects NEDD9 to intermediate filaments. Also acts as a negative regulator of apoptosis via its interaction with STK38 and STK38L; acts by antagonizing STK38 and STK38L activation by MST1/STK4.

Homo sapiens (taxid: 9606)

EC: 1

EC: .

EC: 1

EC: 4

EC: .

EC: 1

EC: 3

EC: .

EC: -

>sp|Q8IY33|MILK2_HUMAN MICAL-like protein 2 OS=Homo sapiens GN=MICALL2 PE=1 SV=1

 Score = 54.7 bits (130), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 28/68 (41%), Positives = 39/68 (57%), Gaps = 6/68 (8%)

Query: 85  PPST---LPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYET- 140
           PP T   L GSL  ++C +CG+ V+L QR   + RL+HR+CF+C +C   L    AY+  
Sbjct: 172 PPKTDQALAGSLVSSTCGVCGKHVHLVQRHLADGRLYHRSCFRCKQCSCTLHS-GAYKAT 230

Query: 141 -HTGQFCC 147
              G F C
Sbjct: 231 GEPGTFVC 238

May be a cytoskeletal regulator.

Homo sapiens (taxid: 9606)

>sp|Q8VDP3|MICA1_MOUSE Protein-methionine sulfoxide oxidase MICAL1 OS=Mus musculus GN=Mical1 PE=1 SV=1

 Score = 54.3 bits (129), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 30/104 (28%), Positives = 48/104 (46%), Gaps = 14/104 (13%)

Query: 66  QKTTSPAHRE-PGAPRAPSQPPSTLPGSLKLNS---------CSLCGEKVYLAQRFAFNA 115
           Q+T +    E P     P   PS  P + +L+          C LCG+ +Y+ +RF  + 
Sbjct: 641 QRTRAKVDEETPSTEEPPVSEPSMSPNTPELSEHQEAGAEELCELCGKHLYILERFCVDG 700

Query: 116 RLFHRTCFKCARCQSQLTCINAYETHTGQ---FCCEVCPDEEER 156
             FHR+CF C  C++ L     Y  H G    +C +  P E+++
Sbjct: 701 HFFHRSCFCCHTCEATL-WPGGYGQHPGDGHFYCLQHLPQEDQK 743

Monooxygenase that promotes depolymerization of F-actin by mediating oxidation of specific methionine residues on actin. Acts by modifying actin subunits through the addition of oxygen to form methionine-sulfoxide, leading to promote actin filament severing and prevent repolymerization. Acts as a cytoskeletal regulator that connects NEDD9 to intermediate filaments (By similarity). Also acts as a negative regulator of apoptosis via its interaction with STK38 and STK38L; acts by antagonizing STK38 and STK38L activation by MST1/STK4.

Mus musculus (taxid: 10090)

EC: 1

EC: .

EC: 1

EC: 4

EC: .

EC: 1

EC: 3

EC: .

EC: -

>sp|Q8CJ19|MICA3_MOUSE Protein-methionine sulfoxide oxidase MICAL3 OS=Mus musculus GN=Mical3 PE=1 SV=2

 Score = 53.1 bits (126), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 23/64 (35%), Positives = 36/64 (56%), Gaps = 4/64 (6%)

Query: 86  PSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTC-INAYETHTGQ 144
           P  L GS   ++C  C ++VY+ +R +   + FHR+CFKC  C + L     AY+   G+
Sbjct: 755 PQNLGGS---DTCYFCQKRVYVMERLSAEGKFFHRSCFKCEYCATTLRLSAYAYDIEDGK 811

Query: 145 FCCE 148
           F C+
Sbjct: 812 FYCK 815

Monooxygenase that promotes depolymerization of F-actin by mediating oxidation of specific methionine residues on actin. Acts by modifying actin subunits through the addition of oxygen to form methionine-sulfoxide, leading to promote actin filament severing and prevent repolymerization. Involved in exocytic vesicles tethering and fusion: the monooxygenase activity is required for this process.

Mus musculus (taxid: 10090)

EC: 1

EC: .

EC: 1

EC: 4

EC: .

EC: 1

EC: 3

EC: .

EC: -

>sp|Q7RTP6|MICA3_HUMAN Protein-methionine sulfoxide oxidase MICAL3 OS=Homo sapiens GN=MICAL3 PE=1 SV=2

 Score = 53.1 bits (126), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 23/64 (35%), Positives = 36/64 (56%), Gaps = 4/64 (6%)

Query: 86  PSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTC-INAYETHTGQ 144
           P  L GS   ++C  C ++VY+ +R +   + FHR+CFKC  C + L     AY+   G+
Sbjct: 755 PQNLGGS---DTCYFCQKRVYVMERLSAEGKFFHRSCFKCEYCATTLRLSAYAYDIEDGK 811

Query: 145 FCCE 148
           F C+
Sbjct: 812 FYCK 815

Monooxygenase that promotes depolymerization of F-actin by mediating oxidation of specific methionine residues on actin. Acts by modifying actin subunits through the addition of oxygen to form methionine-sulfoxide, leading to promote actin filament severing and prevent repolymerization (By similarity). Involved in exocytic vesicles tethering and fusion: the monooxygenase activity is required for this process.

Homo sapiens (taxid: 9606)

EC: 1

EC: .

EC: 1

EC: 4

EC: .

EC: 1

EC: 3

EC: .

EC: -

>sp|Q8BGT6|MILK1_MOUSE MICAL-like protein 1 OS=Mus musculus GN=Micall1 PE=1 SV=3

 Score = 52.8 bits (125), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 25/66 (37%), Positives = 37/66 (56%), Gaps = 11/66 (16%)

Query: 84  QPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYET--H 141
           QPPS+        +C+ CG++V+L QR+    RL+HR CF+C +C S L    +Y +   
Sbjct: 159 QPPSS--------ACAACGQRVHLVQRYLAEGRLYHRHCFRCRQCSSTL-VPGSYSSGPE 209

Query: 142 TGQFCC 147
            G F C
Sbjct: 210 EGTFVC 215

May be a cytoskeletal regulator.

Mus musculus (taxid: 10090)

>sp|G3MWR8|MICA3_BOVIN Protein-methionine sulfoxide oxidase MICAL3 OS=Bos taurus GN=MICAL3 PE=3 SV=1

 Score = 52.4 bits (124), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 23/64 (35%), Positives = 35/64 (54%), Gaps = 4/64 (6%)

Query: 86  PSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTC-INAYETHTGQ 144
           P  L GS   ++C  C ++VY+ +R +   + FHR+CFKC  C + L     AY    G+
Sbjct: 755 PQNLGGS---DTCYFCQKRVYVMERLSAEGKFFHRSCFKCEHCATTLRLSAYAYALEDGK 811

Query: 145 FCCE 148
           F C+
Sbjct: 812 FYCK 815

Monooxygenase that promotes depolymerization of F-actin by mediating oxidation of specific methionine residues on actin. Acts by modifying actin subunits through the addition of oxygen to form methionine-sulfoxide, leading to promote actin filament severing and prevent repolymerization. Involved in exocytic vesicles tethering and fusion: the monooxygenase activity is required for this process.

Bos taurus (taxid: 9913)

EC: 1

EC: .

EC: 1

EC: 4

EC: .

EC: 1

EC: 3

EC: .

EC: -

>sp|Q8N3F8|MILK1_HUMAN MICAL-like protein 1 OS=Homo sapiens GN=MICALL1 PE=1 SV=2

 Score = 52.0 bits (123), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 24/59 (40%), Positives = 33/59 (55%), Gaps = 3/59 (5%)

Query: 91  GSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYET--HTGQFCC 147
           G    ++C+ C + V+L QR+  + RL+HR CF+C RC S L    AYE     G F C
Sbjct: 157 GQTPSSTCAACQQHVHLVQRYLADGRLYHRHCFRCRRCSSTL-LPGAYENGPEEGTFVC 214

May be a cytoskeletal regulator.

Homo sapiens (taxid: 9606)

>sp|F1QWK4|MCA3B_DANRE Protein-methionine sulfoxide oxidase mical3b OS=Danio rerio GN=mical3b PE=2 SV=2

 Score = 50.1 bits (118), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 19/52 (36%), Positives = 30/52 (57%), Gaps = 1/52 (1%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCIN-AYETHTGQFCCE 148
           C  CG +VY+ +R +   + FHR+CF+C  C S +   N  Y+   G+F C+
Sbjct: 793 CYFCGRRVYVMERLSAEGKFFHRSCFQCDHCSSTIRLSNYTYDQLHGKFYCK 844

Monooxygenase that promotes depolymerization of F-actin by mediating oxidation of specific methionine residues on actin. Acts by modifying actin subunits through the addition of oxygen to form methionine-sulfoxide, leading to promote actin filament severing and prevent repolymerization. Involved in exocytic vesicles tethering and fusion: the monooxygenase activity is required for this process.

Danio rerio (taxid: 7955)

EC: 1

EC: .

EC: 1

EC: 4

EC: .

EC: 1

EC: 3

EC: .

EC: -

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	271
189240639	987	PREDICTED: similar to MICAL-like CG11259	0.357	0.098	0.436	1e-15
340718062	1099	PREDICTED: hypothetical protein LOC10064	0.369	0.090	0.378	2e-15
350420891	1096	PREDICTED: hypothetical protein LOC10074	0.321	0.079	0.413	3e-15
270013585	926	hypothetical protein TcasGA2_TC012205 [T	0.276	0.080	0.493	3e-15
157114944	1079	hypothetical protein AaeL_AAEL007011 [Ae	0.254	0.063	0.514	9e-15
328700197	765	PREDICTED: hypothetical protein LOC10016	0.221	0.078	0.55	1e-14
328790600	1062	PREDICTED: LOW QUALITY PROTEIN: hypothet	0.280	0.071	0.441	1e-14
383858085	1084	PREDICTED: uncharacterized protein LOC10	0.276	0.069	0.460	1e-14
380023178	1087	PREDICTED: uncharacterized protein LOC10	0.295	0.073	0.432	2e-14
332027292	1029	MICAL-like protein 2 [Acromyrmex echinat	0.302	0.079	0.465	4e-14

>gi|189240639|ref|XP_001809361.1| PREDICTED: similar to MICAL-like CG11259-PA [Tribolium castaneum]

 Score = 89.7 bits (221), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 45/103 (43%), Positives = 59/103 (57%), Gaps = 6/103 (5%)

Query: 69  TSPAHR--EPGAPRAPSQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCA 126
           TSP H    P +   P++      G ++   C+ CG  V++A+R      L+HRTCF+CA
Sbjct: 127 TSPDHGLVSPASTSPPTKVAFAGAGKVRREPCAKCGLPVFIAERLNVGKLLYHRTCFRCA 186

Query: 127 RCQSQLTCINAYETHTGQFCCEVCPDEE----ERSLTDPLRSS 165
           RC SQLT  N YET    FCCE CPDEE     RSL+D  +S+
Sbjct: 187 RCSSQLTLANYYETENSDFCCETCPDEESQVLSRSLSDEEKSA 229

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340718062|ref|XP_003397491.1| PREDICTED: hypothetical protein LOC100649179 [Bombus terrestris]

 Score = 89.0 bits (219), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 39/103 (37%), Positives = 59/103 (57%), Gaps = 3/103 (2%)

Query: 52  NTDNPLSLPGVDVPQKTTSPAHREPGAPRAPSQPPSTLPGSLKLNSCSLCGEKVYLAQRF 111
           N  +P  +P     + T +   R      +P +  +T  GS++ + C +CG  ++LA++ 
Sbjct: 110 NGSSPARIPA---SRTTETVEERITQVSESPKEKEATCLGSMRKDVCVVCGFPIFLAEKL 166

Query: 112 AFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEE 154
                 +HRTCF+CARC +QLT  N YET  GQ+CCE CPDE+
Sbjct: 167 VLAHVAYHRTCFRCARCNNQLTIGNYYETEEGQYCCETCPDED 209

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350420891|ref|XP_003492663.1| PREDICTED: hypothetical protein LOC100744222 [Bombus impatiens]

 Score = 88.6 bits (218), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 36/87 (41%), Positives = 53/87 (60%)

Query: 68  TTSPAHREPGAPRAPSQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCAR 127
           T +   R      +P +  +T  GS++ + C +CG  ++LA++       +HRTCF+CAR
Sbjct: 123 TETVEERITQVSESPKEKEATCLGSMRKDVCVVCGFPIFLAEKLVLAHVTYHRTCFRCAR 182

Query: 128 CQSQLTCINAYETHTGQFCCEVCPDEE 154
           C +QLT  N YET  GQ+CCE CPDE+
Sbjct: 183 CNNQLTIGNYYETEEGQYCCETCPDED 209

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270013585|gb|EFA10033.1| hypothetical protein TcasGA2_TC012205 [Tribolium castaneum]

 Score = 88.2 bits (217), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 39/79 (49%), Positives = 50/79 (63%), Gaps = 4/79 (5%)

Query: 91  GSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           G ++   C+ CG  V++A+R      L+HRTCF+CARC SQLT  N YET    FCCE C
Sbjct: 135 GKVRREPCAKCGLPVFIAERLNVGKLLYHRTCFRCARCSSQLTLANYYETENSDFCCETC 194

Query: 151 PDEE----ERSLTDPLRSS 165
           PDEE     RSL+D  +S+
Sbjct: 195 PDEESQVLSRSLSDEEKSA 213

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157114944|ref|XP_001652498.1| hypothetical protein AaeL_AAEL007011 [Aedes aegypti] gi|108877128|gb|EAT41353.1| AAEL007011-PA [Aedes aegypti]

 Score = 86.7 bits (213), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 36/70 (51%), Positives = 46/70 (65%), Gaps = 1/70 (1%)

Query: 86  PSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHT-GQ 144
           P+   G  K   C  CG  V+ A+R +F  +LFHR+C KCARC +QLT  + YET T G+
Sbjct: 139 PTAFVGVPKREPCRKCGNPVFFAERISFEQKLFHRSCLKCARCGAQLTLGSFYETETDGE 198

Query: 145 FCCEVCPDEE 154
           +CCE CPDEE
Sbjct: 199 YCCETCPDEE 208

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328700197|ref|XP_001949567.2| PREDICTED: hypothetical protein LOC100161003 [Acyrthosiphon pisum]

 Score = 86.7 bits (213), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 33/60 (55%), Positives = 42/60 (70%)

Query: 95  LNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEE 154
           +  C +C + V+LAQR   +  LFHRTCFKCARC + L+  N YET  G++CCE CPDEE
Sbjct: 42  VGGCRVCNQSVFLAQRLLISGHLFHRTCFKCARCAALLSVANYYETQDGKYCCETCPDEE 101

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328790600|ref|XP_396410.4| PREDICTED: LOW QUALITY PROTEIN: hypothetical protein LOC412959 [Apis mellifera]

 Score = 86.3 bits (212), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 34/77 (44%), Positives = 50/77 (64%), Gaps = 1/77 (1%)

Query: 78  APRAPSQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINA 137
            P +P +  ++  G ++ + C +CG  ++LA++       +HRTCF+CARC +QLT  N 
Sbjct: 133 VPESPKEKEASYLG-MRKDRCVVCGLPIFLAEKLVLARVAYHRTCFRCARCNNQLTIGNY 191

Query: 138 YETHTGQFCCEVCPDEE 154
           YET  GQ+CCE CPDEE
Sbjct: 192 YETEEGQYCCETCPDEE 208

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383858085|ref|XP_003704533.1| PREDICTED: uncharacterized protein LOC100881207 [Megachile rotundata]

 Score = 85.9 bits (211), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 35/76 (46%), Positives = 50/76 (65%), Gaps = 1/76 (1%)

Query: 79  PRAPSQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAY 138
           P +P +  + L   ++ + C++CG  V+LA++       +HRTCF+CARC +QLT  N Y
Sbjct: 134 PESPKEK-AALGQGMRRDPCAVCGLPVFLAEKLVLGHVAYHRTCFRCARCNNQLTLGNYY 192

Query: 139 ETHTGQFCCEVCPDEE 154
           ET  GQ+CCE CPDEE
Sbjct: 193 ETEKGQYCCETCPDEE 208

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380023178|ref|XP_003695403.1| PREDICTED: uncharacterized protein LOC100866046 [Apis florea]

 Score = 85.5 bits (210), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 35/81 (43%), Positives = 51/81 (62%), Gaps = 1/81 (1%)

Query: 74  REPGAPRAPSQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLT 133
           R    P +P +  ++  G ++ + C +CG  ++LA++       +HRTCF+CARC +QLT
Sbjct: 129 RITQVPDSPKEKEASYLG-MRKDRCVVCGLPIFLAEKLVLARVAYHRTCFRCARCNNQLT 187

Query: 134 CINAYETHTGQFCCEVCPDEE 154
             N YET  GQ+CCE CPDEE
Sbjct: 188 IGNYYETEEGQYCCETCPDEE 208

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332027292|gb|EGI67376.1| MICAL-like protein 2 [Acromyrmex echinatior]

 Score = 84.7 bits (208), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 40/86 (46%), Positives = 54/86 (62%), Gaps = 4/86 (4%)

Query: 78  APRAPSQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINA 137
            P +P Q   +  G ++ + C+ CG  V+LA++       +HRTCF+CARC +QLT  N 
Sbjct: 133 VPESPKQKVGSRLG-MRRDPCAACGLPVFLAEKLLIARAPYHRTCFRCARCCNQLTPGNY 191

Query: 138 YETHTGQFCCEVCPDEEERSLTDPLR 163
           YET  GQ+CCE CPDEEE   TD +R
Sbjct: 192 YETEEGQYCCETCPDEEE---TDSVR 214

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	271
FB|FBgn0036333	1010	MICAL-like "MICAL-like" [Droso	0.608	0.163	0.295	3.9e-15
UNIPROTKB|F1MH07	1070	MICAL1 "Protein-methionine sul	0.387	0.098	0.324	5.7e-08
RGD|1565018	206	Crip3 "cysteine-rich protein 3	0.350	0.461	0.31	7.9e-08
UNIPROTKB|Q8TDZ2	1067	MICAL1 "Protein-methionine sul	0.313	0.079	0.351	1.6e-07
UNIPROTKB|F1NWZ2	193	CSRP3 "Uncharacterized protein	0.276	0.388	0.302	2.9e-07
UNIPROTKB|F6REL8	883	MICALL2 "Uncharacterized prote	0.402	0.123	0.336	3.7e-07
UNIPROTKB|Q8IY33	904	MICALL2 "MICAL-like protein 2"	0.335	0.100	0.340	5e-07
UNIPROTKB|Q6Q6R5	217	CRIP3 "Cysteine-rich protein 3	0.335	0.419	0.336	5.8e-07
UNIPROTKB|F1PCD9	964	MICAL1 "Uncharacterized protei	0.409	0.115	0.330	7e-07
UNIPROTKB|F1RIV6	981	MICALL2 "Uncharacterized prote	0.416	0.115	0.319	7.2e-07

FB|FBgn0036333 MICAL-like "MICAL-like" [Drosophila melanogaster (taxid:7227)]

 Score = 204 (76.9 bits), Expect = 3.9e-15, P = 3.9e-15
 Identities = 52/176 (29%), Positives = 81/176 (46%)

Query:    71 PAHREP-GAPRAPSQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQ 129
             P   EP G    P Q    + G  + + C  C   V+LA+R     R +HRTC KCARC 
Sbjct:   122 PKPEEPLGEESEPPQKVMHIVGMPRRDKCQKCNLPVFLAERVLVGKRAYHRTCLKCARCS 181

Query:   130 SQLTCINAYETHTGQ-FCCEVCPDEEERSLTDPLR----SSDRPDGHHAIGDDRYHAELN 184
             S LT  + YET     +CCE CPDEE    +D L+    ++D P+    +     ++E  
Sbjct:   182 SLLTPGSFYETEVNNIYCCETCPDEESEPESDILKLKTTTTDSPNDKQMVAQSSDYSEAE 241

Query:   185 SDKSTNLLTDSEPSTHCDSNLVTASVESTNMERNMDNDDLNILNKCTTDDDKVNSV 240
              DK  +L  +   +T    N    S    N +   +   +N +N   +++ K++ +
Sbjct:   242 -DKQEDLEDNDIRTTDKPENFQPPS----NKDEQNNELTINPVNPILSEERKISFI 292

GO:0003779 "actin binding" evidence=ISS

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1MH07 MICAL1 "Protein-methionine sulfoxide oxidase MICAL1" [Bos taurus (taxid:9913)]

 Score = 154 (59.3 bits), Expect = 5.7e-08, P = 5.7e-08
 Identities = 38/117 (32%), Positives = 58/117 (49%)

Query:    60 PGVDVPQKTTSPAHREPGAPRA--PSQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNARL 117
             P ++V  K  +P+  EP  P+   P  PPS    +   + C+LCG+ +Y+ +R   + R 
Sbjct:   659 PRLEV--KAETPSTEEPPVPKPDEPMTPPSQQQDASAEDLCALCGQHLYILERLCADGRF 716

Query:   118 FHRTCFKCARCQSQLTCINAYETHTGQ---FCCEVCPD---EEERSLTDPLRSSDRP 168
             FHR+CF+C  C++ L     Y  H G    +C +  P    EE+ S   P  S D P
Sbjct:   717 FHRSCFRCHICEATLWP-GGYRQHPGDGYLYCLQHLPQTGHEEDSSDRGP-ESQDLP 771

GO:0016709 "oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD(P)H as one donor, and incorporation of one atom of oxygen" evidence=ISS

GO:0071949 "FAD binding" evidence=ISS

GO:0003779 "actin binding" evidence=ISS

GO:0055114 "oxidation-reduction process" evidence=ISS

GO:0030042 "actin filament depolymerization" evidence=ISS

GO:0005856 "cytoskeleton" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0043154 "negative regulation of cysteine-type endopeptidase activity involved in apoptotic process" evidence=IEA

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

GO:0017124 "SH3 domain binding" evidence=IEA

GO:0001933 "negative regulation of protein phosphorylation" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

RGD|1565018 Crip3 "cysteine-rich protein 3" [Rattus norvegicus (taxid:10116)]

 Score = 138 (53.6 bits), Expect = 7.9e-08, P = 7.9e-08
 Identities = 31/100 (31%), Positives = 43/100 (43%)

Query:    52 NTDNPLSLPGVDVPQKTTSPAHREPGAPRAPSQPP--STLPGSLKLNSCSLCGEKVYLAQ 109
             N  +P     + +     SP     G PRA   PP   T  G   L  C  CG+ VY A+
Sbjct:    78 NPPSPPPASSISLSPSNFSPPRPRTGLPRAKKSPPYLKTFTGETSL--CPGCGDPVYFAE 135

Query:   110 RFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEV 149
             +     R +HR C +C RC+  LT   ++  H G   C +
Sbjct:   136 KVMSLGRNWHRPCLRCQRCRKTLTA-GSHAEHDGMPYCHI 174

GO:0005737 "cytoplasm" evidence=ISO

GO:0008270 "zinc ion binding" evidence=IEA

GO:0042098 "T cell proliferation" evidence=ISO

GO:0005634 "nucleus" evidence=ISO

UNIPROTKB|Q8TDZ2 MICAL1 "Protein-methionine sulfoxide oxidase MICAL1" [Homo sapiens (taxid:9606)]

 Score = 150 (57.9 bits), Expect = 1.6e-07, P = 1.6e-07
 Identities = 33/94 (35%), Positives = 46/94 (48%)

Query:    68 TTSPAHREPGAPRAP-SQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCA 126
             T  P   EPG P  P SQ      G L    C+LCGE +Y+ +R   N   FHR+CF+C 
Sbjct:   670 TEVPPDPEPGVPLTPPSQHQEAGAGDL----CALCGEHLYVLERLCVNGHFFHRSCFRCH 725

Query:   127 RCQSQLTCINAYETHTGQ---FCCEVCPDEEERS 157
              C++ L     YE H G    +C +  P  + ++
Sbjct:   726 TCEATLWP-GGYEQHPGDGHFYCLQHLPQTDHKA 758

GO:0008270 "zinc ion binding" evidence=IEA

GO:0001933 "negative regulation of protein phosphorylation" evidence=IEA

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

GO:0043154 "negative regulation of cysteine-type endopeptidase activity involved in apoptotic process" evidence=IEA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005882 "intermediate filament" evidence=NAS

GO:0007010 "cytoskeleton organization" evidence=NAS

GO:0007165 "signal transduction" evidence=NAS

GO:0005515 "protein binding" evidence=IPI

GO:0017124 "SH3 domain binding" evidence=IPI

GO:0071949 "FAD binding" evidence=IDA

GO:0030042 "actin filament depolymerization" evidence=IDA

GO:0016709 "oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD(P)H as one donor, and incorporation of one atom of oxygen" evidence=IDA

GO:0055114 "oxidation-reduction process" evidence=IDA

GO:0003779 "actin binding" evidence=IDA

UNIPROTKB|F1NWZ2 CSRP3 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 132 (51.5 bits), Expect = 2.9e-07, P = 2.9e-07
 Identities = 23/76 (30%), Positives = 38/76 (50%)

Query:    75 EPGAPRAPSQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTC 134
             +P  P  P+ P       + ++ C  CG+ VY A++     + +H+TCF+CA C   L  
Sbjct:    97 KPARPSTPTNPSKFAKKMVDVDKCPRCGKSVYAAEKIMGGGKPWHKTCFRCAICGKSLES 156

Query:   135 INAYETHTGQFCCEVC 150
              N  +   G+  C+VC
Sbjct:   157 TNVTDKD-GELYCKVC 171

GO:0008270 "zinc ion binding" evidence=IEA

GO:0002026 "regulation of the force of heart contraction" evidence=IEA

GO:0003300 "cardiac muscle hypertrophy" evidence=IEA

GO:0006874 "cellular calcium ion homeostasis" evidence=IEA

GO:0008307 "structural constituent of muscle" evidence=IEA

GO:0030018 "Z disc" evidence=IEA

GO:0031433 "telethonin binding" evidence=IEA

GO:0033365 "protein localization to organelle" evidence=IEA

GO:0035995 "detection of muscle stretch" evidence=IEA

GO:0042805 "actinin binding" evidence=IEA

GO:0055003 "cardiac myofibril assembly" evidence=IEA

GO:0060048 "cardiac muscle contraction" evidence=IEA

UNIPROTKB|F6REL8 MICALL2 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 146 (56.5 bits), Expect = 3.7e-07, P = 3.7e-07
 Identities = 39/116 (33%), Positives = 51/116 (43%)

Query:    65 PQKTTSPAHREPGAPRAPSQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFK 124
             P  T     R+ G    P Q      G    +SC +CG+ V+L QR   + RL+HR CF+
Sbjct:   153 PVSTNRTVQRKDGGTEGPPQKAGQAAGGSLNSSCGVCGQHVHLMQRHLADGRLYHRGCFR 212

Query:   125 CARCQSQLTCINAYET--HTGQFCCEVC-PDEEERSLTDPLRSSDRPDGHHAIGDD 177
             C +C S L    AY      G F C    P+    S T P  +S R   H A+  D
Sbjct:   213 CKQCSSTLHS-GAYRATGEPGVFICSSHHPETTSASPTLPSLASRR---HGAMSMD 264

GO:0032432 "actin filament bundle" evidence=IEA

GO:0006897 "endocytosis" evidence=IEA

GO:0005923 "tight junction" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|Q8IY33 MICALL2 "MICAL-like protein 2" [Homo sapiens (taxid:9606)]

 Score = 145 (56.1 bits), Expect = 5.0e-07, P = 5.0e-07
 Identities = 32/94 (34%), Positives = 45/94 (47%)

Query:    56 PLSLPGVDVPQKTTSPAHREPGAPRAPSQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNA 115
             P   P +   Q       R  GA   P +    L GSL  ++C +CG+ V+L QR   + 
Sbjct:   146 PARKPPLSPAQTNPVVQRRNEGAGGPPPKTDQALAGSLVSSTCGVCGKHVHLVQRHLADG 205

Query:   116 RLFHRTCFKCARCQSQLTCINAYET--HTGQFCC 147
             RL+HR+CF+C +C   L    AY+     G F C
Sbjct:   206 RLYHRSCFRCKQCSCTLHS-GAYKATGEPGTFVC 238

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005923 "tight junction" evidence=IEA

GO:0006897 "endocytosis" evidence=IEA

GO:0032432 "actin filament bundle" evidence=IEA

UNIPROTKB|Q6Q6R5 CRIP3 "Cysteine-rich protein 3" [Homo sapiens (taxid:9606)]

 Score = 133 (51.9 bits), Expect = 5.8e-07, P = 5.8e-07
 Identities = 33/98 (33%), Positives = 41/98 (41%)

Query:    56 PLSLPGVDVPQKTTS--PAHREPGAPRAPSQPP--STLPGSLKLNSCSLCGEKVYLAQRF 111
             P   PG   P   +S  P     G P+    PP   T  G   L  C  CGE VY A++ 
Sbjct:    80 PTPSPGCTTPLSPSSFSPPRPRTGLPQGKKSPPHMKTFTGETSL--CPGCGEPVYFAEKV 137

Query:   112 AFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEV 149
                 R +HR C +C RC   LT   ++  H G   C V
Sbjct:   138 MSLGRNWHRPCLRCQRCHKTLTA-GSHAEHDGVPYCHV 174

GO:0008270 "zinc ion binding" evidence=IEA

GO:0042098 "T cell proliferation" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|F1PCD9 MICAL1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 144 (55.7 bits), Expect = 7.0e-07, P = 7.0e-07
 Identities = 40/121 (33%), Positives = 56/121 (46%)

Query:    60 PGVDVPQKTTSPAHREPGAPRA--PSQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNARL 117
             P ++   KT  P+  EP  P +  P  PPS    +   + C+LCGE +Y+ +R   + R 
Sbjct:   580 PRLEGEAKT--PSTEEPPVPESGVPPTPPSQHQEAGAGDLCALCGEHLYILERLCADGRF 637

Query:   118 FHRTCFKCARCQSQLTCINAYETHT--GQF-CCEVCPDE--EERSLTDPLRSSDRPDGHH 172
             FHR+CF+C  C++ L     Y  H   G F C +  P E  EE        S D P    
Sbjct:   638 FHRSCFRCHTCEATLWP-GGYRQHPEDGHFYCLQHLPQEGPEEDGGDQGPGSQDLPAAEE 696

Query:   173 A 173
             A
Sbjct:   697 A 697

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1RIV6 MICALL2 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 144 (55.7 bits), Expect = 7.2e-07, P = 7.2e-07
 Identities = 39/122 (31%), Positives = 59/122 (48%)

Query:    51 SNTDNPLSLP--GVDVPQKTTSPA-HREPGAPRAPSQP--PSTLPGSLKLNSCSLCGEKV 105
             S    PL  P  G  +   +T+P   R+ G    P +   P++ P S+   +C +CG+ V
Sbjct:   136 SQPARPLPTPARGQPLSPVSTNPTVPRKEGGTEGPPRKAGPASAPSSVS-GTCGICGQHV 194

Query:   106 YLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEE-ERSLTDPLRS 164
             +L QR   + RL+HR+CF+C +C S L    AY   TG+    VC     E +   P   
Sbjct:   195 HLVQRHLADGRLYHRSCFRCKQCSSTLHS-GAYRA-TGEPGVFVCSSHHPETASASPHGP 252

Query:   165 SD 166
             +D
Sbjct:   253 TD 254

GO:0032432 "actin filament bundle" evidence=IEA

GO:0006897 "endocytosis" evidence=IEA

GO:0005923 "tight junction" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	271
cd09400	61	cd09400, LIM_like_1, LIM domain in proteins of unk	1e-21
cd09358	53	cd09358, LIM_Mical_like, The LIM domain of Mical (	6e-12
cd09444	55	cd09444, LIM_Mical_like_1, This domain belongs to	3e-08
cd09401	53	cd09401, LIM_TLP_like, The LIM domains of thymus L	2e-07
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	8e-07
cd09439	55	cd09439, LIM_Mical, The LIM domain of Mical (molec	2e-06
cd09482	54	cd09482, LIM2_CRP3, The second LIM domain of Cyste	2e-06
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	3e-06
cd09404	54	cd09404, LIM1_MLP84B_like, The LIM domain of Mlp84	4e-06
cd09442	53	cd09442, LIM_Eplin_like, The Lim domain of Epithel	6e-06
cd09481	54	cd09481, LIM1_CRP3, The first LIM domain of Cystei	8e-06
cd09840	54	cd09840, LIM2_CRP2, The second LIM domain of Cyste	9e-06
pfam00412	58	pfam00412, LIM, LIM domain	1e-05
cd09445	53	cd09445, LIM_Mical_like_2, This domain belongs to	1e-05
cd09402	53	cd09402, LIM1_CRP, The first LIM domain of Cystein	1e-05
cd09403	54	cd09403, LIM2_CRP, The second LIM domain of Cystei	2e-05
cd09485	53	cd09485, LIM_Eplin_alpha_beta, The Lim domain of E	2e-05
cd09479	56	cd09479, LIM1_CRP1, The first LIM domain of Cystei	9e-05
cd09477	54	cd09477, LIM2_TLP, The second LIM domain of thymus	1e-04
cd09486	53	cd09486, LIM_Eplin_like_1, a LIM domain subfamily	1e-04
cd09440	63	cd09440, LIM1_SF3, The first Lim domain of pollen	1e-04
cd09326	53	cd09326, LIM_CRP_like, The LIM domains of Cysteine	1e-04
cd09349	87	cd09349, LIM1_Zyxin, The first LIM domain of Zyxin	2e-04
cd09394	55	cd09394, LIM1_Rga, The first LIM domain of Rga GTP	3e-04
cd09478	54	cd09478, LIM_CRIP, The LIM domain of Cysteine-Rich	4e-04
cd09443	55	cd09443, LIM_Ltd-1, The LIM domain of LIM and tran	4e-04
cd09441	61	cd09441, LIM2_SF3, The second Lim domain of pollen	5e-04
cd09480	55	cd09480, LIM1_CRP2, The first LIM domain of Cystei	0.002
cd09476	54	cd09476, LIM1_TLP, The first LIM domain of thymus	0.003
cd09446	53	cd09446, LIM_N_RAP, The LIM domain of N-RAP	0.004

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

 Score = 85.2 bits (211), Expect = 1e-21
 Identities = 32/61 (52%), Positives = 41/61 (67%)

Query: 94  KLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDE 153
           +   C+ CG  V+LA+R     +++HRTCFKCARC  QLT  + YET  G +CCE CPDE
Sbjct: 1   RREPCASCGLPVFLAERLLIEGKVYHRTCFKCARCGVQLTPGSFYETEYGSYCCETCPDE 60

Query: 154 E 154
           E
Sbjct: 61  E 61

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

 Score = 58.8 bits (143), Expect = 6e-12
 Identities = 18/52 (34%), Positives = 31/52 (59%), Gaps = 1/52 (1%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEV 149
           C++CG+ VY  +R   + +LFH++CF+C+ C   L   N Y +  G+  C+ 
Sbjct: 1   CAVCGKTVYPMERLVADGKLFHKSCFRCSHCNKTLRLGN-YASLEGKLYCKP 51

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

>gnl|CDD|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 = 48.6 bits (116), Expect = 3e-08
 Identities = 16/35 (45%), Positives = 23/35 (65%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQL 132
           C+ CG+ V+L QR   + +L+HR CF+C  C S L
Sbjct: 1   CAACGQHVHLVQRHLVDGKLYHRNCFRCKECSSTL 35

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 = 46.6 bits (111), Expect = 2e-07
 Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           C  CG+ VY A++     R +H+ C +C +C+  LT    +  H G+  C  C
Sbjct: 1   CPKCGKPVYFAEKKTSLGRDWHKPCLRCEKCKKTLTPGQ-HSEHEGKPYCNKC 52

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 = 44.7 bits (106), Expect = 8e-07
 Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 4/56 (7%)

Query: 97  SCSLCGEKVYLAQRFAFNA--RLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
            C+ CG+ +Y        A  +++H  CFKCA C   L+    +E   G+  C+ C
Sbjct: 1   KCAGCGKPIY-GTERVLRALGKVWHPECFKCATCGKPLSGDTFFE-KDGKLYCKDC 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|188823 cd09439, LIM_Mical, The LIM domain of Mical (molecule interacting with CasL)

 Score = 43.8 bits (104), Expect = 2e-06
 Identities = 18/52 (34%), Positives = 30/52 (57%), Gaps = 1/52 (1%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCIN-AYETHTGQFCCE 148
           C  C ++VY+ +R +     FHR+CFKC+ C + L     A++   G+F C+
Sbjct: 1   CYFCKKRVYVMERLSAEGLFFHRSCFKCSYCGTTLRLGAYAFDRDDGKFYCK 52

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

 Score = 43.5 bits (102), Expect = 2e-06
 Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           C  CG+ VY A++     + +H+TCF+CA C   L      +   G+  C+VC
Sbjct: 1   CPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTTVTDKD-GELYCKVC 52

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

 Score = 43.1 bits (102), Expect = 3e-06
 Identities = 16/53 (30%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           C+ CG+ +   +      + +H  CFKC+ C   L   + YE   G+  CE C
Sbjct: 1   CAGCGKPIEGRELLRALGKKWHPECFKCSVCGKPLGGDSFYE-KDGKPYCEKC 52

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

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

 Score = 42.9 bits (101), Expect = 4e-06
 Identities = 19/53 (35%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           C  CG+ VY A+        +H+ CFKC  C   L   N  E H G+  C+ C
Sbjct: 2   CPKCGKSVYAAEERLAGGYKWHKMCFKCGMCNKLLDSTNCAE-HEGELYCKQC 53

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

 Score = 42.5 bits (100), Expect = 6e-06
 Identities = 17/50 (34%), Positives = 30/50 (60%), Gaps = 1/50 (2%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCC 147
           C++C ++VY  +R   + + FH++CF+C  C S+L+  N    H G+  C
Sbjct: 1   CTVCQKRVYPMERLIADKQNFHKSCFRCEHCNSKLSLGNYASLH-GRIYC 49

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

 Score = 42.0 bits (98), Expect = 8e-06
 Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 1/53 (1%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           C  C + VY A+    N R FH+TCF C  C+  L        H  +  C+ C
Sbjct: 2   CGACEKTVYHAEEIQCNGRSFHKTCFICMACRKALDSTTV-AAHESEIYCKTC 53

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

 Score = 42.0 bits (98), Expect = 9e-06
 Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           CS CG+ VY A++     + +H+ CF+CA+C   L      E   G+  C+ C
Sbjct: 1   CSRCGDSVYAAEKIMGAGKPWHKNCFRCAKCGKSLESTTLTEKE-GEIYCKGC 52

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|215907 pfam00412, LIM, LIM domain

 Score = 41.9 bits (99), Expect = 1e-05
 Identities = 14/54 (25%), Positives = 26/54 (48%), Gaps = 2/54 (3%)

Query: 98  CSLCGEKVYLAQRF-AFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           C+ CG+ +Y  +       +++H  CF+CA C   L   + +E   G+  C+  
Sbjct: 1   CAGCGKPIYDRELVRRALGKVWHPECFRCAVCGKPLGPGDFFE-KDGKLYCKHD 53

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

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

 Score = 41.3 bits (97), Expect = 1e-05
 Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 1/52 (1%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEV 149
           C  CG+ VY  +       ++H+ CF+C  C  QL  ++ Y++H G   C+V
Sbjct: 1   CRSCGKPVYKMEEIIAEKHIYHKNCFRCKDCNKQLK-VDNYQSHEGNLYCKV 51

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

 Score = 41.5 bits (97), Expect = 1e-05
 Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           C  C + VY A+      R FH++CF C  C+  L        H  +  C+ C
Sbjct: 1   CGACEKTVYHAEEVQCEGRSFHKSCFLCMVCRKNLDSTTV-AAHEDEIYCKSC 52

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

 Score = 41.4 bits (97), Expect = 2e-05
 Identities = 16/53 (30%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           C  CG+ VY A++     + +H+ CF+CA+C   L      +   G+  C+ C
Sbjct: 1   CPRCGKSVYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLAD-KDGEIYCKGC 52

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

 Score = 40.6 bits (95), Expect = 2e-05
 Identities = 14/49 (28%), Positives = 26/49 (53%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFC 146
           C  C + VY  +R   N +++H +CF+C+ C ++L+       H   +C
Sbjct: 1   CVSCQKTVYPLERLVANQQIYHNSCFRCSYCNTKLSLGTYASLHGNIYC 49

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

 Score = 39.2 bits (91), Expect = 9e-05
 Identities = 16/55 (29%), Positives = 24/55 (43%), Gaps = 1/55 (1%)

Query: 96  NSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
             C +C + VY A+      R FH++CF C  C+  L        H  +  C+ C
Sbjct: 1   KKCGVCQKTVYFAEEVQCEGRSFHKSCFLCMVCKKNLDSTTV-AVHGEEIYCKSC 54

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 = 38.8 bits (90), Expect = 1e-04
 Identities = 19/52 (36%), Positives = 26/52 (50%), Gaps = 1/52 (1%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEV 149
           C  CG+ VY A++     R +HR C +C RC+  LT    +  H G   C V
Sbjct: 1   CPGCGKPVYFAEKVMSLGRNWHRPCLRCQRCKKTLTA-GGHAEHDGSPYCHV 51

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

 Score = 38.8 bits (90), Expect = 1e-04
 Identities = 17/51 (33%), Positives = 29/51 (56%), Gaps = 1/51 (1%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCE 148
           CS C + VY  +R   +  +FH +CF C  C ++L+ + +Y    G+F C+
Sbjct: 1   CSSCQKTVYPMERLVADKLVFHNSCFCCKHCNAKLS-LGSYAALHGEFYCK 50

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

 Score = 39.0 bits (91), Expect = 1e-04
 Identities = 11/35 (31%), Positives = 22/35 (62%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQL 132
           C  C + VYL  + + +  ++H++CF+C+ C+  L
Sbjct: 5   CKACDKTVYLVDQLSADGVVYHKSCFRCSHCKGTL 39

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

 Score = 38.7 bits (91), Expect = 1e-04
 Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           C  CG+ VY A+      + +H++CF CA C  +L      E H G+  C+ C
Sbjct: 1   CPRCGKSVYAAEEVIAAGKSWHKSCFTCAVCNKRLDSTTLAE-HDGEIYCKSC 52

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|188735 cd09349, LIM1_Zyxin, The first LIM domain of Zyxin

 Score = 38.7 bits (90), Expect = 2e-04
 Identities = 23/69 (33%), Positives = 32/69 (46%), Gaps = 6/69 (8%)

Query: 84  QPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNA--RLFHRTCFKCARCQSQLTCINAYETH 141
            PP+    + +L  C +CG+ +   Q  A  A   LFH TCF C +C+ QL     Y   
Sbjct: 22  HPPAAEAATNEL--CGICGQPLSRTQP-AVRALGHLFHVTCFTCHQCEQQLQGQQFYSLE 78

Query: 142 TGQFCCEVC 150
              + CE C
Sbjct: 79  GKPY-CEEC 86

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

>gnl|CDD|188780 cd09394, LIM1_Rga, The first LIM domain of Rga GTPase-Activating Proteins

 Score = 37.7 bits (88), Expect = 3e-04
 Identities = 11/37 (29%), Positives = 17/37 (45%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTC 134
           C  C E +     +      +H  CFKC +C  +L+C
Sbjct: 1   CVGCKESITEGHAYELGGDRWHIHCFKCYKCDKKLSC 37

The first LIM domain of Rga GTPase-Activating Proteins: The members of this family contain two tandem repeats of LIM domains and a Rho-type GTPase activating protein (RhoGap) domain. Rga activates GTPases during polarized morphogenesis. In yeast, a known regulating target of Rga is CDC42p, a small GTPase. The LIM domain is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 55

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

 Score = 37.2 bits (86), Expect = 4e-04
 Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 1/50 (2%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCC 147
           C  C ++VY A+R     + +HR C KC +C   LT   ++  H G+  C
Sbjct: 1   CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTP-GSHAEHDGKPYC 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|188827 cd09443, LIM_Ltd-1, The LIM domain of LIM and transglutaminase domains protein (Ltd-1)

 Score = 37.4 bits (87), Expect = 4e-04
 Identities = 12/36 (33%), Positives = 20/36 (55%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLT 133
           C  CG+  Y A+    +   +H+ CFKC  C ++L+
Sbjct: 1   CPRCGKTAYPAESVDKDGTFYHKGCFKCRECGTRLS 36

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

 Score = 37.1 bits (86), Expect = 5e-04
 Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 1/50 (2%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCC 147
           C  CG+ VY  ++       +H++CFKC+     ++  N Y  H G+  C
Sbjct: 1   CVACGKTVYPIEKVTVEGTSYHKSCFKCSHGGCTISPSN-YAAHEGRLYC 49

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

 Score = 35.3 bits (81), Expect = 0.002
 Identities = 17/53 (32%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           C  CG  VY A+    + R FH+ CF C  C+  L        H  +  C+ C
Sbjct: 2   CGACGRTVYHAEEVQCDGRSFHKCCFLCMVCRKNLDS-TTVAIHDQEIYCKSC 53

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

 Score = 34.9 bits (80), Expect = 0.003
 Identities = 17/54 (31%), Positives = 28/54 (51%), Gaps = 2/54 (3%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQ-FCCEVC 150
           C  C + VY A++ +   + +HR C KC RC   L+    +  H G+ +C + C
Sbjct: 1   CPRCDKTVYFAEKVSSLGKNWHRFCLKCERCSKILSP-GGHAEHDGKPYCHKPC 53

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 = 34.5 bits (79), Expect = 0.004
 Identities = 16/52 (30%), Positives = 28/52 (53%), Gaps = 1/52 (1%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEV 149
           C+ CG  VY A++     + +H+ CF C  C+  LT +N + +H  +  C+ 
Sbjct: 1   CARCGYGVYPAEKINCIDQTWHKACFHCEVCKMMLT-VNNFVSHQKKPYCQA 51

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	271
KOG2272|consensus	332		99.58
KOG1701|consensus	468		99.53
KOG1044|consensus	670		99.41
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.37
KOG1701|consensus	468		99.2
KOG1703|consensus	479		98.99
KOG4577|consensus	383		98.98
KOG2272|consensus	332		98.9
KOG1700|consensus	200		98.89
COG0722	351	AroG 3-deoxy-D-arabino-heptulosonate 7-phosphate (	98.73
KOG1702|consensus	264		98.64
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.6
KOG1700|consensus	200		98.59
KOG1703|consensus	479		98.54
TIGR00034	344	aroFGH phospho-2-dehydro-3-deoxyheptonate aldolase	98.37
PRK12756	348	phospho-2-dehydro-3-deoxyheptonate aldolase; Provi	98.36
PRK12755	353	phospho-2-dehydro-3-deoxyheptonate aldolase; Provi	98.33
PRK12822	356	phospho-2-dehydro-3-deoxyheptonate aldolase; Provi	98.31
PRK09261	349	phospho-2-dehydro-3-deoxyheptonate aldolase; Valid	98.23
KOG1044|consensus	670		98.18
KOG4577|consensus	383		97.76
PF00793	270	DAHP_synth_1: DAHP synthetase I family; InterPro:	96.63
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	89.46
PRK13398	266	3-deoxy-7-phosphoheptulonate synthase; Provisional	88.77
PRK13396	352	3-deoxy-7-phosphoheptulonate synthase; Provisional	87.9
KOG0490|consensus	235		85.51
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	85.08
PF09943	101	DUF2175: Uncharacterized protein conserved in arch	81.48

>KOG2272|consensus

Probab=99.58  E-value=9.4e-17  Score=146.89  Aligned_cols=109  Identities=21%  Similarity=0.413  Sum_probs=97.7

Q ss_pred             CCcCCCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccCC-----CCCCC
Q psy11691         91 GSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLTD-----PLRSS  165 (271)
Q Consensus        91 g~~~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~~-----rc~~~  165 (271)
                      -+.+++.|+.|+++| .++.|.+++.+||+.||+|..|++.|.+..|+.. .|+.+|..|.++..+.+.+     +|++.
T Consensus        69 ~~LfaPcC~kC~EFi-iGrVikamnnSwHp~CF~Cd~Cn~~Lad~gf~rn-qgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~  146 (332)
T KOG2272|consen   69 HVLFAPCCGKCGEFI-IGRVIKAMNNSWHPACFRCDLCNKHLADQGFYRN-QGRALCRECNQKEKAKGRGRYVCQKCHAH  146 (332)
T ss_pred             hhhhchhhcccccch-hhHHHHhhccccCcccchhHHHHHHHhhhhhHhh-cchHHhhhhhhhhcccccceeehhhhhhh
Confidence            345789999999999 7999999999999999999999999999999885 7999999999988776654     48887


Q ss_pred             CCCCCceeecCccccCCCCCCCCCCcccCCCCCCccccchhcchhhhhh
Q psy11691        166 DRPDGHHAIGDDRYHAELNSDKSTNLLTDSEPSTHCDSNLVTASVESTN  214 (271)
Q Consensus       166 ~~~~~~I~~gg~~YH~ecFs~ks~~ll~d~~p~~~c~~~~~~~~~e~~~  214 (271)
                      ++. +++++.|++||++||+            ++.|.++|++++||.-.
T Consensus       147 iD~-~~l~fr~d~yH~yHFk------------Ct~C~keL~sdaRevk~  182 (332)
T KOG2272|consen  147 IDE-QPLTFRGDPYHPYHFK------------CTTCGKELTSDAREVKG  182 (332)
T ss_pred             ccc-ccccccCCCCCcccee------------cccccccccchhhhhcc
Confidence            776 7899999999999999            99999999999998654

>KOG1701|consensus

Probab=99.53  E-value=7.2e-16  Score=148.96  Aligned_cols=102  Identities=24%  Similarity=0.390  Sum_probs=82.0

Q ss_pred             CCCcccccCceeecce-eEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccCCCCCCCCCC--CC
Q psy11691         94 KLNSCSLCGEKVYLAQ-RFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLTDPLRSSDRP--DG  170 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~E-rI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~~rc~~~~~~--~~  170 (271)
                      +...|.+|+|.|+..+ .+.||+++||..||+|..|+++|....||.. |+++||+.||+...    ++|..+.+.  +.
T Consensus       273 ~~~iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~v-~~k~~CE~cyq~tl----ekC~~Cg~~I~d~  347 (468)
T KOG1701|consen  273 YFGICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQV-DGKPYCEGCYQDTL----EKCNKCGEPIMDR  347 (468)
T ss_pred             hhhhhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhcccccccc-CCcccchHHHHHHH----HHHhhhhhHHHHH
Confidence            4568999999996444 3889999999999999999999999999997 79999999999653    333322221  12


Q ss_pred             ceeecCccccCCCCCCCCCCcccCCCCCCc
Q psy11691        171 HHAIGDDRYHAELNSDKSTNLLTDSEPSTH  200 (271)
Q Consensus       171 ~I~~gg~~YH~ecFs~ks~~ll~d~~p~~~  200 (271)
                      .+++.|+.||++||.|..|+-..|.||++.
T Consensus       348 iLrA~GkayHp~CF~Cv~C~r~ldgipFtv  377 (468)
T KOG1701|consen  348 ILRALGKAYHPGCFTCVVCARCLDGIPFTV  377 (468)
T ss_pred             HHHhcccccCCCceEEEEeccccCCccccc
Confidence            345889999999999998888888888753

>KOG1044|consensus

Probab=99.41  E-value=6.4e-14  Score=139.52  Aligned_cols=122  Identities=23%  Similarity=0.371  Sum_probs=88.7

Q ss_pred             hhhhhccCCccccccccC---Ccccc--ccccccCCCccCccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q psy11691         12 HYQRSYLGGAVVNALDFG---SGVAA--ARYLFHSIDLGDQLTNSNTDNPLSLPGVDVPQKTTSPAHREPGAPRAPSQPP   86 (271)
Q Consensus        12 ~~~~~~~~~~~~~~~g~g---~~~g~--~~~~~~s~d~g~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~ps~~~   86 (271)
                      +=||-|+.|+||+++|..   .++.|  +|.+|.   .|+.+++++. +.+...             -....+.   .|.
T Consensus        69 ~~c~~~~~gevvsa~gktyh~~cf~cs~ck~pf~---~g~~vt~~gk-~~~c~~-------------c~~~~~~---~p~  128 (670)
T KOG1044|consen   69 DDCRAFVEGEVVSTLGKTYHPKCFSCSTCKSPFK---SGDKVTFSGK-ECLCQT-------------CSQPMPV---SPA  128 (670)
T ss_pred             cchhhhccceeEecccceeccccceecccCCCCC---CCCeeeecch-hhhhhh-------------hcCcccC---Ccc
Confidence            559999999999999987   33333  455777   7889988773 211100             0111111   112


Q ss_pred             CCCCCCcCCCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccC
Q psy11691         87 STLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLT  159 (271)
Q Consensus        87 ~~~~g~~~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~  159 (271)
                      ..    .....|++|++.|..++.+.|+++.||..||+|..|+..|.+ .|..+ ||.+||+.||++.|...+
T Consensus       129 ~~----~~ps~cagc~~~lk~gq~llald~qwhv~cfkc~~c~~vL~g-ey~sk-dg~pyce~dy~~~fgvkc  195 (670)
T KOG1044|consen  129 ES----YGPSTCAGCGEELKNGQALLALDKQWHVSCFKCKSCSAVLNG-EYMSK-DGVPYCEKDYQAKFGVKC  195 (670)
T ss_pred             cc----cCCccccchhhhhhccceeeeeccceeeeeeehhhhcccccc-eeecc-CCCcchhhhhhhhcCeeh
Confidence            11    124679999999999999999999999999999999999977 56664 799999999998886433

>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=99.37  E-value=1.8e-13  Score=96.94  Aligned_cols=57  Identities=28%  Similarity=0.706  Sum_probs=51.2

Q ss_pred             ccccCceeecceeE-EeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcc
Q psy11691         98 CSLCGEKVYLAQRF-AFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEE  155 (271)
Q Consensus        98 Ca~Cgk~V~~~ErI-~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~  155 (271)
                      |++|++.|...+.+ .++|+.||++||+|..|++.|..+.|+.. ++.+||+.||.++|
T Consensus         1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~-~~~~~C~~c~~~~f   58 (58)
T PF00412_consen    1 CARCGKPIYGTEIVIKAMGKFWHPECFKCSKCGKPLNDGDFYEK-DGKPYCKDCYQKRF   58 (58)
T ss_dssp             BTTTSSBESSSSEEEEETTEEEETTTSBETTTTCBTTTSSEEEE-TTEEEEHHHHHHHT
T ss_pred             CCCCCCCccCcEEEEEeCCcEEEccccccCCCCCccCCCeeEeE-CCEEECHHHHhhhC
Confidence            88999999877775 69999999999999999999999998886 79999999997643

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 ....

>KOG1701|consensus

Probab=99.20  E-value=2.3e-12  Score=124.89  Aligned_cols=99  Identities=21%  Similarity=0.345  Sum_probs=81.8

Q ss_pred             CcccccCceeeccee-EEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccCCCCCCCCCC----CC
Q psy11691         96 NSCSLCGEKVYLAQR-FAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLTDPLRSSDRP----DG  170 (271)
Q Consensus        96 ~kCa~Cgk~V~~~Er-I~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~~rc~~~~~~----~~  170 (271)
                      .+|..|++.|  .|+ +.|+|+.||..||+|..|.+.|++..|....++++||..||.++|++.+..|..-|-+    ++
T Consensus       335 ekC~~Cg~~I--~d~iLrA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfAPrCs~C~~PI~P~~G~~e  412 (468)
T KOG1701|consen  335 EKCNKCGEPI--MDRILRALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFAPRCSVCGNPILPRDGKDE  412 (468)
T ss_pred             HHHhhhhhHH--HHHHHHhcccccCCCceEEEEeccccCCccccccCCCceeeehhhhhhcCcchhhccCCccCCCCCcc
Confidence            5688899998  454 6799999999999999999999999998766899999999999998877666554432    22


Q ss_pred             c--eeecCccccCCCCCCCCCCcccCCC
Q psy11691        171 H--HAIGDDRYHAELNSDKSTNLLTDSE  196 (271)
Q Consensus       171 ~--I~~gg~~YH~ecFs~ks~~ll~d~~  196 (271)
                      .  |.+++..||.+|..|..|.++...+
T Consensus       413 tvRvvamdr~fHv~CY~CEDCg~~LS~e  440 (468)
T KOG1701|consen  413 TVRVVAMDRDFHVNCYKCEDCGLLLSSE  440 (468)
T ss_pred             eEEEEEccccccccceehhhcCcccccc
Confidence            2  4579999999999999888877633

>KOG1703|consensus

Probab=98.99  E-value=6.2e-11  Score=117.29  Aligned_cols=95  Identities=19%  Similarity=0.301  Sum_probs=76.0

Q ss_pred             cCCCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccCCCCCC-CCCCCCc
Q psy11691         93 LKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLTDPLRS-SDRPDGH  171 (271)
Q Consensus        93 ~~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~~rc~~-~~~~~~~  171 (271)
                      .+++.|.+|++.| .++.|.+.++.||++||.|..|++.|....|+.. ++.+||+.||.+.+..+..-|.- ....+..
T Consensus       361 ~~~p~C~~C~~~i-~~~~v~a~~~~wH~~cf~C~~C~~~~~~~~~~~~-~~~pyce~~~~~~~~~~~~~~~~p~~~~~~~  438 (479)
T KOG1703|consen  361 PFRPNCKRCLLPI-LEEGVCALGRLWHPECFVCADCGKPLKNSSFFES-DGEPYCEDHYKKLFTTKCDYCKKPVEFGSRQ  438 (479)
T ss_pred             hhCccccccCCch-HHhHhhhccCeechhceeeecccCCCCCCccccc-CCccchhhhHhhhccccchhccchhHhhhhH
Confidence            3578999999999 6788889999999999999999999999999986 89999999999887644321211 1112345


Q ss_pred             eeecCccccCCCCCCCCC
Q psy11691        172 HAIGDDRYHAELNSDKST  189 (271)
Q Consensus       172 I~~gg~~YH~ecFs~ks~  189 (271)
                      |.+.|..||..||.|.-+
T Consensus       439 ie~~~~~~h~~~F~c~~c  456 (479)
T KOG1703|consen  439 IEADGSPFHGDCFRCANC  456 (479)
T ss_pred             hhccCccccccceehhhh
Confidence            678899999999996543

>KOG4577|consensus

Probab=98.98  E-value=8.3e-12  Score=116.37  Aligned_cols=103  Identities=18%  Similarity=0.283  Sum_probs=84.3

Q ss_pred             CCCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccCCCCCCCCCCCCcee
Q psy11691         94 KLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLTDPLRSSDRPDGHHA  173 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~~rc~~~~~~~~~I~  173 (271)
                      +.++|++|.+.|...-.+.++++.||..|++|..|..+|...-|..  ++..||+..+-++|...+..|...+-+...|+
T Consensus        32 eip~CagC~q~IlDrFilKvl~R~wHs~CLkCs~C~~qL~drCFsR--~~s~yCkedFfKrfGTKCsaC~~GIpPtqVVR  109 (383)
T KOG4577|consen   32 EIPICAGCDQHILDRFILKVLDRHWHSSCLKCSDCHDQLADRCFSR--EGSVYCKEDFFKRFGTKCSACQEGIPPTQVVR  109 (383)
T ss_pred             ccccccchHHHHHHHHHHHHHhhhhhhhhcchhhhhhHHHHHHhhc--CCceeehHHHHHHhCCcchhhcCCCChHHHHH
Confidence            4589999999994333357999999999999999999999876654  69999999999998887777877787776664


Q ss_pred             -ecCccccCCCCCCCCCCcccCCCCCCccccchhcchh
Q psy11691        174 -IGDDRYHAELNSDKSTNLLTDSEPSTHCDSNLVTASV  210 (271)
Q Consensus       174 -~gg~~YH~ecFs~ks~~ll~d~~p~~~c~~~~~~~~~  210 (271)
                       +.+..||.+||-            |.-|..+|+|+-+
T Consensus       110 kAqd~VYHl~CF~------------C~iC~R~L~TGdE  135 (383)
T KOG4577|consen  110 KAQDFVYHLHCFA------------CFICKRQLATGDE  135 (383)
T ss_pred             Hhhcceeehhhhh------------hHhhhcccccCCe
Confidence             778899999999            6667777766654

>KOG2272|consensus

Probab=98.90  E-value=1.2e-10  Score=107.24  Aligned_cols=94  Identities=19%  Similarity=0.210  Sum_probs=81.1

Q ss_pred             CCcccccCceeeccee-EEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccCCCCCCCCCCCCcee
Q psy11691         95 LNSCSLCGEKVYLAQR-FAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLTDPLRSSDRPDGHHA  173 (271)
Q Consensus        95 s~kCa~Cgk~V~~~Er-I~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~~rc~~~~~~~~~I~  173 (271)
                      +-.|.+|.....+.|. +...|.+||..||.|++|-.+|..+.|++. +|+.||+..+...|+|-..+|...+. |+.|.
T Consensus        12 ~~~C~RC~~gF~~~e~~vns~ge~wH~~CFvCAQCf~pf~~g~~~ef-EgRkYCEhDF~~LfaPcC~kC~EFii-GrVik   89 (332)
T KOG2272|consen   12 NMVCERCRDGFEPAEKIVNSNGELWHEQCFVCAQCFRPFPDGIFYEF-EGRKYCEHDFHVLFAPCCGKCGEFII-GRVIK   89 (332)
T ss_pred             HHHHHHHhccCCchhhhhccCchhhHHHHHHHHHhcCcCCCceeEEe-cCcccccccchhhhchhhcccccchh-hHHHH
Confidence            4569999999888887 567899999999999999999999999998 69999999999999998887777654 45677


Q ss_pred             ecCccccCCCCCCCCCC
Q psy11691        174 IGDDRYHAELNSDKSTN  190 (271)
Q Consensus       174 ~gg~~YH~ecFs~ks~~  190 (271)
                      +++.+||+.||.|.-++
T Consensus        90 amnnSwHp~CF~Cd~Cn  106 (332)
T KOG2272|consen   90 AMNNSWHPACFRCDLCN  106 (332)
T ss_pred             hhccccCcccchhHHHH
Confidence            89999999999964433

>KOG1700|consensus

Probab=98.89  E-value=3.8e-10  Score=100.56  Aligned_cols=108  Identities=20%  Similarity=0.366  Sum_probs=77.2

Q ss_pred             CcchhhhhccCCcc-ccccccCCc---cccccccccCCCccCccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q psy11691          9 HHKHYQRSYLGGAV-VNALDFGSG---VAAARYLFHSIDLGDQLTNSNTDNPLSLPGVDVPQKTTSPAHREPGAPRAPSQ   84 (271)
Q Consensus         9 ~~~~~~~~~~~~~~-~~~~g~g~~---~g~~~~~~~s~d~g~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~ps~   84 (271)
                      +-..||+.+++-++ ++++|||.|   ++.     +.+|.++.......                            +.+
T Consensus        53 e~~~yc~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~----------------------------~~~   99 (200)
T KOG1700|consen   53 EGVPYCKNCHVAQFGPKGGGFGKGFQKAGG-----LGKDGKSLNESKPN----------------------------QSA   99 (200)
T ss_pred             ccccccccchHhhhCcccccccccccccCC-----CCcccccccccccc----------------------------cch
Confidence            34689999887777 999999998   444     55552222222110                            001


Q ss_pred             CCCCCCCCcCCCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCC
Q psy11691         85 PPSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPD  152 (271)
Q Consensus        85 ~~~~~~g~~~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~  152 (271)
                      ......|  ....|..|.+.||+.|.+...+..||+.||+|..|+..|+.++|...+ +.+||..++.
T Consensus       100 ~~~~~~g--~~~~c~~c~k~vy~~Ek~~~~~~~~hk~cfrc~~~~~~ls~~~~~~~~-g~l~~~~~~~  164 (200)
T KOG1700|consen  100 KFQVFAG--EKEKCARCQKTVYPLEKVTGNGLEFHKSCFRCTHCGKKLSPKNYAALE-GVLYCKHHFA  164 (200)
T ss_pred             hHHhhhc--cccccccccceeeehHHHhhhhhhhhhhheeecccccccCCcchhhcC-Cccccchhhh
Confidence            1111112  247899999999999999999999999999999999999999998864 6666655444

>COG0722 AroG 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]

Probab=98.73  E-value=2.1e-09  Score=101.72  Aligned_cols=56  Identities=14%  Similarity=0.229  Sum_probs=45.2

Q ss_pred             CCCCCCCCCcccCCCCCCccc-cchhcchhhhhhcccCCCCCceEEecCCccCchhh
Q psy11691        182 ELNSDKSTNLLTDSEPSTHCD-SNLVTASVESTNMERNMDNDDLNILNKCTTDDDKV  237 (271)
Q Consensus       182 ecFs~ks~~ll~d~~p~~~c~-~~~~~~~~e~~~~~~~~d~~~~~i~~~c~~~~~~~  237 (271)
                      +..++..+..|..+.|.+.-. +++...|++..+|+.|.|||+|+||||||||||+-
T Consensus        12 ~~~~l~~p~~l~~~~pls~~~~~~v~~~R~~i~~Il~G~DdRLlvViGPCSiHD~~A   68 (351)
T COG0722          12 EIDPLITPAELKAEFPLSDEAAETVAQSRKEIEDILHGEDDRLLVVIGPCSIHDPEA   68 (351)
T ss_pred             cccCCCCHHHHHHhCCCCHHHHHHHHHHHHHHHHHhcCCCCcEEEEEeCCccCCHHH
Confidence            445566677788888885555 55556666999999999999999999999999974

>KOG1702|consensus

Probab=98.64  E-value=1.5e-09  Score=97.56  Aligned_cols=60  Identities=22%  Similarity=0.427  Sum_probs=55.0

Q ss_pred             CcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCccc
Q psy11691         96 NSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEER  156 (271)
Q Consensus        96 ~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~  156 (271)
                      ..|..|++.||+.|++..+++.||+.||+|..|+.+|+..+|... |.++||..+|....+
T Consensus         5 ~n~~~cgk~vYPvE~v~cldk~whk~cfkce~c~mtlnmKnyKgy-~kkpycn~hYpkq~a   64 (264)
T KOG1702|consen    5 CNREDCGKTVYPVEEVKCLDKVWHKQCFKCEVCGMTLNMKNYKGY-DKKPYCNPHYPKQVA   64 (264)
T ss_pred             chhhhhccccccHHHHhhHHHHHHHHhheeeeccCChhhhhcccc-ccCCCcCccccccee
Confidence            458899999999999999999999999999999999999999875 789999999987654

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

Probab=98.60  E-value=2.8e-08  Score=64.19  Aligned_cols=37  Identities=27%  Similarity=0.728  Sum_probs=33.4

Q ss_pred             cccccCceeecc-eeEEeeCceeccccccccccCCccC
Q psy11691         97 SCSLCGEKVYLA-QRFAFNARLFHRTCFKCARCQSQLT  133 (271)
Q Consensus        97 kCa~Cgk~V~~~-ErI~a~gk~wH~~CFrC~~C~k~L~  133 (271)
                      +|.+|++.|... ..+.+.++.||.+||+|..|+++|.
T Consensus         1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L~   38 (39)
T smart00132        1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPLG   38 (39)
T ss_pred             CccccCCcccCCcEEEEeCCccccccCCCCcccCCcCc
Confidence            599999999876 5678999999999999999999985

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

Probab=98.59  E-value=7.6e-09  Score=92.25  Aligned_cols=60  Identities=30%  Similarity=0.703  Sum_probs=55.1

Q ss_pred             CCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcc
Q psy11691         95 LNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEE  155 (271)
Q Consensus        95 s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~  155 (271)
                      ..+|..|++.||.++++...|..||+.||+|..|.+.|...++... ++.+||+.||...+
T Consensus         7 ~~kc~~c~k~vy~~e~~~~~g~~~hk~c~~c~~~~k~l~~~~~~~~-e~~~yc~~~~~~~~   66 (200)
T KOG1700|consen    7 TDKCNACGKTVYFVEKVQKDGVDFHKECFKCEKCKKTLTLSGYSEH-EGVPYCKNCHVAQF   66 (200)
T ss_pred             cchhhhccCcchHHHHHhccCcchhhhHHhcccccccccccccccc-ccccccccchHhhh
Confidence            4789999999999999999999999999999999999999999986 79999999875554

>KOG1703|consensus

Probab=98.54  E-value=2.3e-08  Score=99.17  Aligned_cols=92  Identities=15%  Similarity=0.165  Sum_probs=77.6

Q ss_pred             CCCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccCCCCCCCCCCCCcee
Q psy11691         94 KLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLTDPLRSSDRPDGHHA  173 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~~rc~~~~~~~~~I~  173 (271)
                      +.+.|..|...|...+.+.++++.||+.+|.|..|+..+..+.|... +|.+||..||...+.+.+.+|...+.. +.|.
T Consensus       302 ~~p~c~~c~~~i~~~~~i~~~~~~~h~~~~~c~~~~~~~~~~~~~~~-~g~~~c~~~~~~~~~p~C~~C~~~i~~-~~v~  379 (479)
T KOG1703|consen  302 TRPLCLSCNQKIRSVKVIVALGKEWHPEHFSCEVCAIVILDGGPREL-DGKILCHECFHAPFRPNCKRCLLPILE-EGVC  379 (479)
T ss_pred             ccccccccccCcccceeEeeccccccccceeeccccccccCCCcccc-CCCccHHHHHHHhhCccccccCCchHH-hHhh
Confidence            45899999999954377899999999999999999999999888664 799999999999888888877765553 3444


Q ss_pred             ecCccccCCCCCCC
Q psy11691        174 IGDDRYHAELNSDK  187 (271)
Q Consensus       174 ~gg~~YH~ecFs~k  187 (271)
                      +.+..||++||.|.
T Consensus       380 a~~~~wH~~cf~C~  393 (479)
T KOG1703|consen  380 ALGRLWHPECFVCA  393 (479)
T ss_pred             hccCeechhceeee
Confidence            55899999999975

>TIGR00034 aroFGH phospho-2-dehydro-3-deoxyheptonate aldolase

Probab=98.37  E-value=7.8e-08  Score=92.13  Aligned_cols=54  Identities=15%  Similarity=0.241  Sum_probs=46.3

Q ss_pred             CCCCCCCCcccCCCCC-CccccchhcchhhhhhcccCCCCCceEEecCCccCchh
Q psy11691        183 LNSDKSTNLLTDSEPS-THCDSNLVTASVESTNMERNMDNDDLNILNKCTTDDDK  236 (271)
Q Consensus       183 cFs~ks~~ll~d~~p~-~~c~~~~~~~~~e~~~~~~~~d~~~~~i~~~c~~~~~~  236 (271)
                      ..++.++..|.++.|. ..-..++...|.+..+|++|.|+|+|+|+|||||||++
T Consensus         8 ~~~l~~p~~l~~~~Pl~~~~~~~v~~~R~~i~~Il~g~d~rllvIvGPCSIhd~~   62 (344)
T TIGR00034         8 IDELLTPAELAAKFPLTPKQAANVAQSRQEIADIIAGKDDRLLVVIGPCSIHDPE   62 (344)
T ss_pred             cccCCCHHHHHHHCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEecCCCCCCHH
Confidence            4456677888888888 55667888888899999999999999999999999986

>PRK12756 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional

Probab=98.36  E-value=7.9e-08  Score=92.06  Aligned_cols=55  Identities=15%  Similarity=0.202  Sum_probs=46.9

Q ss_pred             CCCCCCCCcccCCCCC-CccccchhcchhhhhhcccCCCCCceEEecCCccCchhh
Q psy11691        183 LNSDKSTNLLTDSEPS-THCDSNLVTASVESTNMERNMDNDDLNILNKCTTDDDKV  237 (271)
Q Consensus       183 cFs~ks~~ll~d~~p~-~~c~~~~~~~~~e~~~~~~~~d~~~~~i~~~c~~~~~~~  237 (271)
                      ..++.++..|.++.|. ..-..++...|.+..+|++|+|||+|+|+|||||||++-
T Consensus        12 ~~~L~~P~~l~~~~Pl~~~~~~~v~~~R~~I~~Il~g~d~rllvIvGPCSIhd~~~   67 (348)
T PRK12756         12 IESLITPAELASEYPITPDVADHVTDSRRRIEKILNGEDPRLLVIIGPCSIHDTDA   67 (348)
T ss_pred             cccCCCHHHHHHhCCCCHHHHHHHHHHHHHHHHHhcCCCCceEEEecCCcCCCHHH
Confidence            4456778888888888 555577788888999999999999999999999999874

>PRK12755 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional

Probab=98.33  E-value=1e-07  Score=91.54  Aligned_cols=56  Identities=11%  Similarity=0.181  Sum_probs=47.5

Q ss_pred             CCCCCCCCCcccCCCCC-CccccchhcchhhhhhcccCCCCCceEEecCCccCchhh
Q psy11691        182 ELNSDKSTNLLTDSEPS-THCDSNLVTASVESTNMERNMDNDDLNILNKCTTDDDKV  237 (271)
Q Consensus       182 ecFs~ks~~ll~d~~p~-~~c~~~~~~~~~e~~~~~~~~d~~~~~i~~~c~~~~~~~  237 (271)
                      ...++.++..|.++.|. ..-..++...|.+..+|++|.|||+|+|+|||||||++-
T Consensus        13 ~~~~l~~p~~l~~~~P~~~~~~~~v~~~R~~i~~Il~g~d~rllvI~GPCSI~d~~~   69 (353)
T PRK12755         13 AEQPLITPEELKAELPLSEAAQAQVAASRQAIADILHGRDDRLLVVVGPCSIHDPEA   69 (353)
T ss_pred             ccccCCCHHHHHHhCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEeCCCCCCCHHH
Confidence            34556778888888888 556677888888999999999999999999999999973

>PRK12822 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional

Probab=98.31  E-value=1.2e-07  Score=90.94  Aligned_cols=54  Identities=17%  Similarity=0.189  Sum_probs=45.6

Q ss_pred             CCCCCCCCcccCCCCC-CccccchhcchhhhhhcccCCCCCceEEecCCccCchh
Q psy11691        183 LNSDKSTNLLTDSEPS-THCDSNLVTASVESTNMERNMDNDDLNILNKCTTDDDK  236 (271)
Q Consensus       183 cFs~ks~~ll~d~~p~-~~c~~~~~~~~~e~~~~~~~~d~~~~~i~~~c~~~~~~  236 (271)
                      ..++.++..|.++.|. ..-..++...|++..+|++|+|||+|+|+|||||||++
T Consensus        13 ~~~L~~P~~l~~~~Pl~~~~~~~v~~~R~~I~~Il~g~d~rllvIvGPCSIhd~~   67 (356)
T PRK12822         13 CGSLPSVAEILKEIPCSEETETWISQQRQDIRNILLGKDPRLLVIIGPCSIHDPQ   67 (356)
T ss_pred             cccCCCHHHHHHhCCCCHHHHHHHHHHHHHHHHHHcCCCCCeEEEEcCCcCCCHH
Confidence            3446677778888888 55557788888899999999999999999999999986

>PRK09261 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated

Probab=98.23  E-value=2.5e-07  Score=88.91  Aligned_cols=54  Identities=17%  Similarity=0.254  Sum_probs=47.0

Q ss_pred             CCCCCCCCcccCCCCC-CccccchhcchhhhhhcccCCCCCceEEecCCccCchh
Q psy11691        183 LNSDKSTNLLTDSEPS-THCDSNLVTASVESTNMERNMDNDDLNILNKCTTDDDK  236 (271)
Q Consensus       183 cFs~ks~~ll~d~~p~-~~c~~~~~~~~~e~~~~~~~~d~~~~~i~~~c~~~~~~  236 (271)
                      ..++.++.-|.++.|. ..-..++...|.+..+|++|.|+|+|+|+|||||||++
T Consensus        13 ~~~l~~p~~l~~~~p~~~~~~~~v~~~R~~i~~Il~g~d~rllvI~GPCSIed~e   67 (349)
T PRK09261         13 IKPLIPPAELKEELPLTEEAAETVARSRKEIHNILHGKDDRLLVVVGPCSIHDPK   67 (349)
T ss_pred             cccCCCHHHHHHhCCCCHHHHHHHHHHHHHHHHHHcCCCCCeEEEEcCCcCCCHH
Confidence            5567778888888888 55567788888899999999999999999999999997

>KOG1044|consensus

Probab=98.18  E-value=1.2e-06  Score=88.24  Aligned_cols=79  Identities=19%  Similarity=0.326  Sum_probs=64.7

Q ss_pred             CcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccCCCCCCCCCCCCceeec
Q psy11691         96 NSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLTDPLRSSDRPDGHHAIG  175 (271)
Q Consensus        96 ~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~~rc~~~~~~~~~I~~g  175 (271)
                      -.|..|++.- .+|++.+.++.||..||.|.+|++.|..+.|+...+.+.||..           .|...++ ++.|.+.
T Consensus        17 i~c~~c~~kc-~gevlrv~d~~fhi~cf~c~~cg~~la~~gff~k~~~~~ygt~-----------~c~~~~~-gevvsa~   83 (670)
T KOG1044|consen   17 IKCDKCRKKC-SGEVLRVNDNHFHINCFQCKKCGRNLAEGGFFTKPENRLYGTD-----------DCRAFVE-GEVVSTL   83 (670)
T ss_pred             eehhhhCCcc-ccceeEeeccccceeeeeccccCCCcccccceecccceeeccc-----------chhhhcc-ceeEecc
Confidence            5799999998 5999999999999999999999999999999987656777751           1222222 3577889


Q ss_pred             CccccCCCCCCC
Q psy11691        176 DDRYHAELNSDK  187 (271)
Q Consensus       176 g~~YH~ecFs~k  187 (271)
                      |..||+.||.|.
T Consensus        84 gktyh~~cf~cs   95 (670)
T KOG1044|consen   84 GKTYHPKCFSCS   95 (670)
T ss_pred             cceeccccceec
Confidence            999999999974

>KOG4577|consensus

Probab=97.76  E-value=3.7e-06  Score=79.11  Aligned_cols=62  Identities=23%  Similarity=0.441  Sum_probs=53.8

Q ss_pred             CCcccccCceeecceeE-EeeCceeccccccccccCCccCCc-CeeecCCCeeeccCCCCCccc
Q psy11691         95 LNSCSLCGEKVYLAQRF-AFNARLFHRTCFKCARCQSQLTCI-NAYETHTGQFCCEVCPDEEER  156 (271)
Q Consensus        95 s~kCa~Cgk~V~~~ErI-~a~gk~wH~~CFrC~~C~k~L~s~-~f~~~~dG~~yCk~CY~~~~~  156 (271)
                      ..+|..|.+.|.+.+.| .+.+..||..||-|..|+++|+.+ .||..+|.+.+|+..|+...+
T Consensus        92 GTKCsaC~~GIpPtqVVRkAqd~VYHl~CF~C~iC~R~L~TGdEFYLmeD~rLvCK~DYE~Ak~  155 (383)
T KOG4577|consen   92 GTKCSACQEGIPPTQVVRKAQDFVYHLHCFACFICKRQLATGDEFYLMEDARLVCKDDYETAKQ  155 (383)
T ss_pred             CCcchhhcCCCChHHHHHHhhcceeehhhhhhHhhhcccccCCeeEEeccceeehhhhHHHHHh
Confidence            47899999999888876 588999999999999999999987 577778999999998875543

>PF00793 DAHP_synth_1: DAHP synthetase I family; InterPro: IPR006218 Members of the 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthetase family catalyse the first step in aromatic amino acid biosynthesis from chorismate

Probab=96.63  E-value=0.0009  Score=62.41  Aligned_cols=23  Identities=17%  Similarity=0.343  Sum_probs=19.9

Q ss_pred             hcccCCCCCceEEecCCccCchh
Q psy11691        214 NMERNMDNDDLNILNKCTTDDDK  236 (271)
Q Consensus       214 ~~~~~~d~~~~~i~~~c~~~~~~  236 (271)
                      +|+.|.|+|+++|+|||||||.+
T Consensus         8 ~i~~G~~~~l~viaGPCsies~e   30 (270)
T PF00793_consen    8 DILIGKDKRLLVIAGPCSIESEE   30 (270)
T ss_dssp             TEEETTTSSEEEEEEESB-S-HH
T ss_pred             CeEecCCCceEEEEECCccCCHH
Confidence            89999999999999999999965

Class I includes bacterial and yeast enzymes; class II includes higher plants and various microorganisms (see IPR002480 from INTERPRO) []. The first step in the common pathway leading to the biosynthesis of aromatic compounds is the stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP). This reaction is catalyzed by DAHP synthase, a metal-activated enzyme, which in microorganisms is the target for negative-feedback regulation by pathway intermediates or by end products. In Escherichia coli there are three DAHP synthetase isoforms, each specifically inhibited by one of the three aromatic amino acids. The crystal structure of the phenylalanine-regulated form of DAHP synthetase shows the fold as is a (beta/alpha)8 barrel with several additional beta strands and alpha helices []. ; GO: 0009058 biosynthetic process; PDB: 3FS2_B 3STF_B 3FYP_D 3QQ1_A 3QPZ_C 3FYO_D 3STC_A 2QKF_D 3STE_C 3QQ0_A ....

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

Probab=89.46  E-value=0.31  Score=30.73  Aligned_cols=19  Identities=11%  Similarity=-0.087  Sum_probs=14.5

Q ss_pred             ceeecCccccCCCCCCCCC
Q psy11691        171 HHAIGDDRYHAELNSDKST  189 (271)
Q Consensus       171 ~I~~gg~~YH~ecFs~ks~  189 (271)
                      .+.+++..||++||.|..+
T Consensus        15 ~~~~~~~~~H~~Cf~C~~C   33 (39)
T smart00132       15 VLRALGKVWHPECFKCSKC   33 (39)
T ss_pred             EEEeCCccccccCCCCccc
Confidence            4456788999999995543

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.

>PRK13398 3-deoxy-7-phosphoheptulonate synthase; Provisional

Probab=88.77  E-value=0.25  Score=46.08  Aligned_cols=20  Identities=10%  Similarity=0.346  Sum_probs=16.3

Q ss_pred             cCCCCCceEEecCCccCchhh
Q psy11691        217 RNMDNDDLNILNKCTTDDDKV  237 (271)
Q Consensus       217 ~~~d~~~~~i~~~c~~~~~~~  237 (271)
                      -|-+ |+++|.|||||||.+.
T Consensus        23 ~g~~-~~~~iaGPCsie~~~~   42 (266)
T PRK13398         23 IGGE-EKIIIAGPCAVESEEQ   42 (266)
T ss_pred             EcCC-CEEEEEeCCcCCCHHH
Confidence            3444 9999999999999764

>PRK13396 3-deoxy-7-phosphoheptulonate synthase; Provisional

Probab=87.90  E-value=0.29  Score=47.63  Aligned_cols=25  Identities=4%  Similarity=0.252  Sum_probs=21.7

Q ss_pred             hhcccCCCCCceEEecCCccCchhh
Q psy11691        213 TNMERNMDNDDLNILNKCTTDDDKV  237 (271)
Q Consensus       213 ~~~~~~~d~~~~~i~~~c~~~~~~~  237 (271)
                      .++.-|-|+++++|.|||||||.+-
T Consensus        92 ~~v~iGg~~~l~vIAGPCsIEs~eq  116 (352)
T PRK13396         92 GPVPFGENHPVVVVAGPCSVENEEM  116 (352)
T ss_pred             CCeEecCCCeEEEEEeCCcccCHHH
Confidence            4577888999999999999999873

>KOG0490|consensus

Probab=85.51  E-value=0.15  Score=44.68  Aligned_cols=51  Identities=24%  Similarity=0.526  Sum_probs=39.4

Q ss_pred             cCceeecceeEEeeCceeccccccccccCCccC--CcCeeecCCCeeeccCCCCC
Q psy11691        101 CGEKVYLAQRFAFNARLFHRTCFKCARCQSQLT--CINAYETHTGQFCCEVCPDE  153 (271)
Q Consensus       101 Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~--s~~f~~~~dG~~yCk~CY~~  153 (271)
                      |+..|.....+...+..||..|..|..|...|.  ...| .. +|..||...|..
T Consensus         2 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-~g~~~~~~d~~~   54 (235)
T KOG0490|consen    2 CGRQILDRYLLRVLDRYWHASCLKCAECDNPLGVGDTCF-SK-DGSIYCKRDYQR   54 (235)
T ss_pred             CCccccchHHhhcccHHHHHHHHhhhhhcchhccCCCcc-cC-CCcccccccchh
Confidence            566664333455669999999999999999998  4334 33 799999999987

>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=85.08  E-value=0.58  Score=32.48  Aligned_cols=16  Identities=13%  Similarity=-0.014  Sum_probs=13.1

Q ss_pred             eecCccccCCCCCCCC
Q psy11691        173 AIGDDRYHAELNSDKS  188 (271)
Q Consensus       173 ~~gg~~YH~ecFs~ks  188 (271)
                      .++|..||++||.|..
T Consensus        16 ~~~~~~~H~~Cf~C~~   31 (58)
T PF00412_consen   16 KAMGKFWHPECFKCSK   31 (58)
T ss_dssp             EETTEEEETTTSBETT
T ss_pred             EeCCcEEEccccccCC
Confidence            4888999999999543

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 ....

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

Probab=81.48  E-value=0.67  Score=37.72  Aligned_cols=31  Identities=32%  Similarity=0.789  Sum_probs=25.8

Q ss_pred             cccccCceeecceeEEe-eCceeccccccccc
Q psy11691         97 SCSLCGEKVYLAQRFAF-NARLFHRTCFKCAR  127 (271)
Q Consensus        97 kCa~Cgk~V~~~ErI~a-~gk~wH~~CFrC~~  127 (271)
                      +|..|++.|+.+|..++ .+..-|-+||+=..
T Consensus         4 kC~iCg~~I~~gqlFTF~~kG~VH~~C~~~~~   35 (101)
T PF09943_consen    4 KCYICGKPIYEGQLFTFTKKGPVHYECFREKA   35 (101)
T ss_pred             EEEecCCeeeecceEEEecCCcEeHHHHHHHH
Confidence            69999999999998775 35889999997443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	271
2co8_A	82	Solution Structures Of The Lim Domain Of Human Nedd		2e-06
2o13_A	58	Solution Structure Of The C-Terminal Lim Domain Of		6e-05
1cxx_A	113	Mutant R122a Of Quail Cysteine And Glycine-Rich Pro		2e-04
2o10_A	60	Solution Structure Of The N-Terminal Lim Domain Of		3e-04
1qli_A	113	Quail Cysteine And Glycine-Rich Protein, Nmr, 15 Mi		3e-04
1a7i_A	81	Amino-Terminal Lim Domain From Quail Cysteine And G		3e-04

>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 = 49.7 bits (117), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTG 143
           C+LCGE +Y+ +R   N   FHR+CF+C  C++ L     YE H G
Sbjct: 18  CALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLW-PGGYEQHPG 62

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 19/53 (35%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           C  CG+ VY A++     + +H+TCF+CA C   L   N  +   G+  C+VC
Sbjct: 2   CPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDK-DGELYCKVC 53

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 23/76 (30%), Positives = 37/76 (48%), Gaps = 4/76 (5%)
Query: 78  APRAPSQPPSTLPGSLKLNS---CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTC 134
           +P  P+  P+T   + K      CS CG+ VY A++     + +H+ CF+CA+C   L  
Sbjct: 16  SPHRPTTNPNTSKFAQKFGGAEKCSACGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLES 75
Query: 135 INAYETHTGQFCCEVC 150
               E   G+  C+ C
Sbjct: 76  TTLTEKE-GEIYCKGC 90

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

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 19/53 (35%), Positives = 25/53 (47%), Gaps = 1/53 (1%)
Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           C  C + VY A+    N R FH+TCF C  C+  L        H  +  C+VC
Sbjct: 4   CGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTV-AAHESEIYCKVC 55

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

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/76 (30%), Positives = 37/76 (48%), Gaps = 4/76 (5%)
Query: 78  APRAPSQPPSTLPGSLKLNS---CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTC 134
           +P  P+  P+T   + K      CS CG+ VY A++     + +H+ CF+CA+C   L  
Sbjct: 16  SPHRPTTNPNTSKFAQKFGGAEKCSRCGDSVYAAEKVIGAGKPWHKNCFRCAKCGKSLES 75
Query: 135 INAYETHTGQFCCEVC 150
               E   G+  C+ C
Sbjct: 76  TTLTEKE-GEIYCKGC 90

>pdb|1A7I|A Chain A, Amino-Terminal Lim Domain From Quail Cysteine And Glycine- Rich Protein, Nmr, Minimized Average Structure Length = 81

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 19/55 (34%), Positives = 24/55 (43%), Gaps = 1/55 (1%)
Query: 96  NSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           N C  CG  VY A+    + R FHR CF C  C+  L        H  +  C+ C
Sbjct: 8   NKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTV-AIHDAEVYCKSC 61

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	271
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	3e-12
2co8_A	82	NEDD9 interacting protein with calponin homology a	8e-12
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	1e-10
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	1e-10
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	2e-10
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	6e-09
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	7e-08
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	1e-07
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	2e-07
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	1e-06
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	1e-06
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	2e-06
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	2e-05
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	2e-05
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	2e-05
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	3e-05
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	4e-05
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	4e-05
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	6e-05
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	8e-05
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	2e-04
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	4e-04
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	4e-04
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	4e-04
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	5e-04
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	5e-04
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	7e-04
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	9e-04

>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 = 60.2 bits (146), Expect = 3e-12
 Identities = 16/53 (30%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           C  C + VY  +R   N ++FH +CF+C+ C ++L+    Y +  G+  C+  
Sbjct: 18  CVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGT-YASLHGRIYCKPH 69

>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 = 58.8 bits (142), Expect = 8e-12
 Identities = 23/75 (30%), Positives = 33/75 (44%), Gaps = 5/75 (6%)

Query: 77  GAPRAPSQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCIN 136
           G+  +  Q      G L    C+LCGE +Y+ +R   N   FHR+CF+C  C++ L    
Sbjct: 1   GSSGSSGQHQEAGAGDL----CALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGG 56

Query: 137 -AYETHTGQFCCEVC 150
                  G F C   
Sbjct: 57  YEQHPGDGHFYCLQH 71

>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 = 55.9 bits (135), Expect = 1e-10
 Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 2/57 (3%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQ-FCCEVCPDE 153
           C  C + VY A++ +   + +H+ C KC RC   LT    +  H G+ FC + C   
Sbjct: 12  CPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGG-HAEHDGKPFCHKPCYAT 67

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

 Score = 55.4 bits (134), Expect = 1e-10
 Identities = 17/53 (32%), Positives = 24/53 (45%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           C  C ++VY A+R     + +HR C KC +C   LT     E     +C   C
Sbjct: 3   CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPC 55

>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 = 54.7 bits (132), Expect = 2e-10
 Identities = 19/55 (34%), Positives = 24/55 (43%), Gaps = 1/55 (1%)

Query: 96  NSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           N C  CG  VY A+    + R FHR CF C  C+  L        H  +  C+ C
Sbjct: 8   NKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTT-VAIHDAEVYCKSC 61

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

 Score = 53.5 bits (128), Expect = 6e-09
 Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           C +C + VY A+        FH++CF C  C+  L        H  +  C+ C
Sbjct: 10  CGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAV-HGDEIYCKSC 61

>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 = 50.4 bits (120), Expect = 7e-08
 Identities = 17/88 (19%), Positives = 31/88 (35%), Gaps = 1/88 (1%)

Query: 63  DVPQKTTSPAHREPGAPRAPSQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTC 122
           D  +                             + C  CG+ VY A++     + +H++C
Sbjct: 83  DKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSC 142

Query: 123 FKCARCQSQLTCINAYETHTGQFCCEVC 150
           F+CA+C   L      +   G+  C+ C
Sbjct: 143 FRCAKCGKSLESTTLAD-KDGEIYCKGC 169

>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 = 47.0 bits (112), Expect = 1e-07
 Identities = 17/55 (30%), Positives = 23/55 (41%), Gaps = 4/55 (7%)

Query: 98  CSLCGEKVYLAQRFAFNA--RLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           C  C      A++   N+   L+H  CF CA+C  Q      YE   G+  CE  
Sbjct: 14  CERCKGGFAPAEK-IVNSNGELYHEQCFVCAQCFQQFPEGLFYE-FEGRKYCEHD 66

>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 = 46.6 bits (111), Expect = 2e-07
 Identities = 17/55 (30%), Positives = 23/55 (41%), Gaps = 4/55 (7%)

Query: 98  CSLCGEKVYLAQRFAFNA--RLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           C  C      A++   N+   L+H  CF CA+C  Q      YE   G+  CE  
Sbjct: 14  CERCKGGFAPAEK-IVNSNGELYHEQCFVCAQCFQQFPEGLFYE-FEGRKYCEHD 66

>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 = 44.3 bits (105), Expect = 1e-06
 Identities = 18/61 (29%), Positives = 25/61 (40%), Gaps = 2/61 (3%)

Query: 91  GSLKLNSCSLCGEKVYLAQRF-AFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEV 149
           GS   + CS CGE V    R   +  + +H  CF C+ C+  L   +      G   C  
Sbjct: 1   GSSGSSGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVP-DKGAHYCVP 59

Query: 150 C 150
           C
Sbjct: 60  C 60

>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 = 45.1 bits (106), Expect = 2e-06
 Identities = 22/97 (22%), Positives = 30/97 (30%), Gaps = 6/97 (6%)

Query: 60  PGVDVPQKTTSPAHREP-----GAPRAPSQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFN 114
           PG D+ Q        +                    G L    C+ CG K+         
Sbjct: 21  PGADLSQYKMDVTVIDTKDGSQSKLGGGGSGGHMGSGGLSWKRCAGCGGKIADRFLLYAM 80

Query: 115 ARLFHRTCFKCARCQSQLTCINA-YETHTGQFCCEVC 150
              +H  C KC+ CQ+QL  I     T +G   C   
Sbjct: 81  DSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRND 117

>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 = 41.7 bits (98), Expect = 2e-05
 Identities = 18/76 (23%), Positives = 28/76 (36%), Gaps = 3/76 (3%)

Query: 76  PGAPRAP-SQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTC 134
               RAP ++       + ++  C  CG  +  A   A + +  H  CF CA C   L  
Sbjct: 5   SSGVRAPVTKVHGGAGSAQRMPLCDKCGSGIVGAVVKARD-KYRHPECFVCADCNLNLKQ 63

Query: 135 INAYETHTGQFCCEVC 150
              +    G+  CE  
Sbjct: 64  KGYFF-VEGELYCETH 78

>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 = 41.2 bits (97), Expect = 2e-05
 Identities = 10/54 (18%), Positives = 22/54 (40%), Gaps = 2/54 (3%)

Query: 98  CSLCGEKVYLAQRF-AFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           C  C + +    +   +   ++H+ CF C+ C+  +   + +      F C  C
Sbjct: 18  CKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFP-KGEDFYCVTC 70

>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 = 40.8 bits (96), Expect = 2e-05
 Identities = 16/61 (26%), Positives = 23/61 (37%), Gaps = 2/61 (3%)

Query: 91  GSLKLNSCSLCGEKVYLAQRF-AFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEV 149
           GS   + C  C + +    R   +    +H TCF C RCQ  +   +       Q  C  
Sbjct: 1   GSSGSSGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIP-KDNQNFCVP 59

Query: 150 C 150
           C
Sbjct: 60  C 60

>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 = 40.5 bits (95), Expect = 3e-05
 Identities = 15/68 (22%), Positives = 23/68 (33%), Gaps = 2/68 (2%)

Query: 83  SQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHT 142
           S    ++  + KL  C  CG  + +        R  H  C+ C  C + L     +    
Sbjct: 3   SGSSGSIGNAQKLPMCDKCGTGI-VGVFVKLRDRHRHPECYVCTDCGTNLKQKGHFF-VE 60

Query: 143 GQFCCEVC 150
            Q  CE  
Sbjct: 61  DQIYCEKH 68

>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 = 40.2 bits (94), Expect = 4e-05
 Identities = 16/56 (28%), Positives = 24/56 (42%), Gaps = 2/56 (3%)

Query: 96  NSCSLCGEKVYLAQRF-AFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           N+C+ C + +    R   +  R FH  CF+C RCQ  L     +     +  C  C
Sbjct: 16  NTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLAD-EPFTCQDSELLCNDC 70

>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 = 39.8 bits (93), Expect = 4e-05
 Identities = 16/74 (21%), Positives = 28/74 (37%), Gaps = 4/74 (5%)

Query: 91  GSLKLNSCSLCGEKV---YLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCC 147
           GS   + C  C + +     A+   F    +H  CF C +C   L     + T   +  C
Sbjct: 1   GSSGSSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVG-KGFLTQNKEIFC 59

Query: 148 EVCPDEEERSLTDP 161
           + C    +  ++ P
Sbjct: 60  QKCGSGMDTDISGP 73

>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 = 39.7 bits (93), Expect = 6e-05
 Identities = 19/75 (25%), Positives = 29/75 (38%), Gaps = 9/75 (12%)

Query: 78  APRAPSQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNA--RLFHRTCFKCARCQSQLTCI 135
                S  P  + G    + C+ C E++      +  A  + +H +CFKC  C   LT  
Sbjct: 1   GSSGSSGKPIKIRG---PSHCAGCKEEIK--HGQSLLALDKQWHVSCFKCQTCSVILT-- 53

Query: 136 NAYETHTGQFCCEVC 150
             Y +  G   CE  
Sbjct: 54  GEYISKDGVPYCESD 68

>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 = 39.3 bits (92), Expect = 8e-05
 Identities = 21/62 (33%), Positives = 29/62 (46%), Gaps = 4/62 (6%)

Query: 91  GSLKLNSCSLCGEKVYLAQRF--AFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCE 148
           GS   + C  CGE V        A + R+FH  CF C+ C++QL   + Y     +  CE
Sbjct: 1   GSSGSSGCGGCGEDVVGDGAGVVALD-RVFHVGCFVCSTCRAQLRGQHFYA-VERRAYCE 58

Query: 149 VC 150
            C
Sbjct: 59  GC 60

>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 = 38.6 bits (90), Expect = 2e-04
 Identities = 11/53 (20%), Positives = 20/53 (37%), Gaps = 1/53 (1%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           C  C + +      A   + +H  CF CA C+      +    +  +  C+ C
Sbjct: 18  CFSCDQFIEGEVVSALG-KTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKC 69

>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 = 38.2 bits (89), Expect = 4e-04
 Identities = 16/62 (25%), Positives = 25/62 (40%), Gaps = 4/62 (6%)

Query: 91  GSLKLNSCSLCGEKVYLAQRFAFNA--RLFHRTCFKCARCQSQLTCINAYETHTGQFCCE 148
           GS   + C  C + +  A     +   R +H TCF+CA+C   L     +     +  C 
Sbjct: 1   GSSGSSGCVECRKPI-GADSKEVHYKNRFWHDTCFRCAKCLHPLAN-ETFVAKDNKILCN 58

Query: 149 VC 150
            C
Sbjct: 59  KC 60

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

 Score = 38.4 bits (89), Expect = 4e-04
 Identities = 22/63 (34%), Positives = 28/63 (44%), Gaps = 5/63 (7%)

Query: 91  GSLKLNSCSLCGEKVYLAQRFAFNA--RLFHRTCFKCARCQSQLTCINA-YETHTGQFCC 147
           GSL    C+ CG K+    RF   A    +H  C KC+ CQ+QL  I     T +G   C
Sbjct: 1   GSLSWKRCAGCGGKIA--DRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILC 58

Query: 148 EVC 150
              
Sbjct: 59  RND 61

>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 = 36.9 bits (86), Expect = 4e-04
 Identities = 15/60 (25%), Positives = 22/60 (36%), Gaps = 2/60 (3%)

Query: 91  GSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           GS+ +  C  C   +      A   + +H   F CA+C+        YE   G   CE  
Sbjct: 1   GSMGVPICGACRRPIEGRVVNAMG-KQWHVEHFVCAKCEKPFLGHRHYE-RKGLAYCETH 58

>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 = 39.2 bits (91), Expect = 5e-04
 Identities = 23/63 (36%), Positives = 29/63 (46%), Gaps = 5/63 (7%)

Query: 91  GSLKLNSCSLCGEKVYLAQRFAFNA--RLFHRTCFKCARCQSQLTCINA-YETHTGQFCC 147
           GSL    C+ CG K+  A RF   A    +H  C KC+ CQ+QL  I     T +G   C
Sbjct: 1   GSLSWKRCAGCGGKI--ADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILC 58

Query: 148 EVC 150
              
Sbjct: 59  RND 61

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

 Score = 39.1 bits (91), Expect = 5e-04
 Identities = 16/86 (18%), Positives = 27/86 (31%), Gaps = 6/86 (6%)

Query: 67  KTTSPAHREPGAPRAPSQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNA--RLFHRTCFK 124
           + T             S       G+ ++  C+ C + +    RF   A  R +H  C K
Sbjct: 32  ENTQFDAANGIDDEGGSGGHMGSGGTPEIPMCAGCDQHI--LDRFILKALDRHWHSKCLK 89

Query: 125 CARCQSQLTCINAYETHTGQFCCEVC 150
           C+ C   L       +      C+  
Sbjct: 90  CSDCHVPLA--ERCFSRGESVYCKDD 113

>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 = 36.6 bits (85), Expect = 7e-04
 Identities = 13/60 (21%), Positives = 23/60 (38%), Gaps = 2/60 (3%)

Query: 91  GSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           GS   + C  C + +       +  + +H+ CF C  C+ QL+    +        C  C
Sbjct: 1   GSSGSSGCVQCKKPI-TTGGVTYREQPWHKECFVCTACRKQLSG-QRFTARDDFAYCLNC 58

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

 Score = 36.2 bits (84), Expect = 9e-04
 Identities = 13/60 (21%), Positives = 23/60 (38%), Gaps = 2/60 (3%)

Query: 91  GSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVC 150
           GS   + C  C + +  +    +  + +H  CF C  C  +L     +     Q+ C  C
Sbjct: 1   GSSGSSGCVKCNKAI-TSGGITYQDQPWHADCFVCVTCSKKLAG-QRFTAVEDQYYCVDC 58

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	271
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	99.78
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	99.73
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	99.67
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.66
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.65
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	99.65
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	99.64
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	99.63
2co8_A	82	NEDD9 interacting protein with calponin homology a	99.62
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	99.56
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	99.52
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.52
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	99.51
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	99.51
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	99.51
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	99.51
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	99.5
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	99.5
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	99.5
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	99.49
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	99.48
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	99.48
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	99.48
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	99.47
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	99.46
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	99.45
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	99.45
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	99.44
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	99.44
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	99.43
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	99.43
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	99.42
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	99.42
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	99.39
2cor_A	79	Pinch protein; LIM domain, particularly interestin	99.39
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	99.38
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	99.38
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	99.38
2cuq_A	80	Four and A half LIM domains 3; structural genomics	99.37
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	99.37
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	99.36
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	99.32
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	99.3
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	99.02
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	98.99
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	98.95
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	98.94
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	98.92
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	98.51
3tqk_A	346	Phospho-2-dehydro-3-deoxyheptonate aldolase; trans	98.11
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	98.1
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	97.95
1of8_A	370	Phospho-2-dehydro-3-deoxyheptonate aldolase, tyros	97.87
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	97.86
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	97.84
2cuq_A	80	Four and A half LIM domains 3; structural genomics	97.8
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	97.79
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	97.74
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	97.74
1n8f_A	350	DAHP synthetase; (beta/alpha)8 barrel, metal bindi	97.7
1v6g_A	81	Actin binding LIM protein 2; LIM domain, zinc bind	97.68
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	95.17
3fs2_A	298	2-dehydro-3-deoxyphosphooctonate aldolase; ssgcid,	95.07
3tml_A	288	2-dehydro-3-deoxyphosphooctonate aldolase; ssgcid,	94.49
3sz8_A	285	2-dehydro-3-deoxyphosphooctonate aldolase 2; ssgci	94.32
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	93.29
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	93.22
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	93.05
1wig_A	73	KIAA1808 protein; LIM domain, zinc finger, metal-b	92.69
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	92.33
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	92.3
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	92.28
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	91.91
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	91.88
2cor_A	79	Pinch protein; LIM domain, particularly interestin	91.55
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	91.53
2qkf_A	280	3-deoxy-D-manno-octulosonic acid 8- phosphate SYN;	91.46
2co8_A	82	NEDD9 interacting protein with calponin homology a	91.42
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	91.07
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	90.95
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	90.83
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	90.83
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	90.76
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	90.67
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	90.51
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	90.23
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	90.22
1o60_A	292	2-dehydro-3-deoxyphosphooctonate aldolase; structu	89.79
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	89.55
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	89.38
2iyb_E	65	Testin, TESS, TES; LIM domain, SH3-binding, tumour	89.12
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	87.47
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	84.25

>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=99.78  E-value=1.6e-19  Score=139.95  Aligned_cols=97  Identities=19%  Similarity=0.385  Sum_probs=85.3

Q ss_pred             CcCCCcccccCceeec-ceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccCCCCCCCCCCC-
Q psy11691         92 SLKLNSCSLCGEKVYL-AQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLTDPLRSSDRPD-  169 (271)
Q Consensus        92 ~~~s~kCa~Cgk~V~~-~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~~rc~~~~~~~-  169 (271)
                      +.++++|++|++.|+. ++.+.++++.||.+||+|..|+++|.+..|+.. ++.+||+.||.+.+.+....|...+.++ 
T Consensus         2 s~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~-~g~~yC~~cy~~~~~~~C~~C~~~I~~~~   80 (101)
T 2cup_A            2 SSGSSGCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAK-DNKILCNKCTTREDSPKCKGCFKAIVAGD   80 (101)
T ss_dssp             CSCCCBCSSSCCBCCSSSCEEEETTEEEETTTCCCSSSCCCTTSSCCEEE-TTEEECHHHHTTCCCCBCSSSCCBCCSSS
T ss_pred             CCCCCcCcccCCcccCCceEEEECccChhhcCCcccccCCCCCcCeeECc-CCEEEChhHhhhhcCCccccCCCccccCC
Confidence            3457899999999975 778999999999999999999999998889886 7999999999999998888888877765 


Q ss_pred             CceeecCccccCCCCCCCCC
Q psy11691        170 GHHAIGDDRYHAELNSDKST  189 (271)
Q Consensus       170 ~~I~~gg~~YH~ecFs~ks~  189 (271)
                      ..|.+.|..||++||.|..+
T Consensus        81 ~~~~a~~~~~H~~CF~C~~C  100 (101)
T 2cup_A           81 QNVEYKGTVWHKDCFSGPSS  100 (101)
T ss_dssp             CEEESSSCEEETTTCCCTTC
T ss_pred             eEEEeCCcchHHhCCCCCCC
Confidence            45778999999999997654

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

Probab=99.73  E-value=1.4e-18  Score=139.71  Aligned_cols=95  Identities=15%  Similarity=0.234  Sum_probs=84.4

Q ss_pred             CCCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccCCCCCCCCCCC-Cce
Q psy11691         94 KLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLTDPLRSSDRPD-GHH  172 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~~rc~~~~~~~-~~I  172 (271)
                      ++++|++|++.|+.++.+.++|+.||++||+|..|+++|.+..|+.. ||.+||+.||.+.+++....|+..+..+ ..+
T Consensus         2 ~~~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~-~g~~yC~~cy~~~~~~~C~~C~~~I~~~~~~~   80 (126)
T 2xqn_T            2 EKPRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMV-NDKPVCKPCYVKNHAVVCQGCHNAIDPEVQRV   80 (126)
T ss_dssp             CCCBBTTTSSBCCSSCEEEETTEEECGGGSBCTTTCCBCTTSEEEEE-TTEEEEHHHHHHHSCCBCTTTCSBCCTTSCEE
T ss_pred             cCCCCccCCCEeCCceEEeeCCCCccCCCCCcCCCCCCCCcCEEEeE-CCEEechHHhCcCcCccCcccCCcCCcCceEE
Confidence            46899999999988888999999999999999999999999889886 7999999999999999888888877764 457


Q ss_pred             eecCcccc--CCCCCCCCC
Q psy11691        173 AIGDDRYH--AELNSDKST  189 (271)
Q Consensus       173 ~~gg~~YH--~ecFs~ks~  189 (271)
                      .+.+..||  ++||.|..+
T Consensus        81 ~a~~~~~H~~~~CF~C~~C   99 (126)
T 2xqn_T           81 TYNNFSWHASTECFLCSCC   99 (126)
T ss_dssp             EETTEEEESSTTTSBCTTT
T ss_pred             ECCCCEeeCCCCCcCcCCC
Confidence            78999999  999995443

>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=99.67  E-value=1.2e-17  Score=143.73  Aligned_cols=101  Identities=21%  Similarity=0.284  Sum_probs=82.7

Q ss_pred             CCcCCCcccccCceeecceeEEeeCceeccccccccccCCccCC--cCeeecCCCeeeccCCCCCcccc--cCCCCCCCC
Q psy11691         91 GSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTC--INAYETHTGQFCCEVCPDEEERS--LTDPLRSSD  166 (271)
Q Consensus        91 g~~~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s--~~f~~~~dG~~yCk~CY~~~~~~--I~~rc~~~~  166 (271)
                      |+..++.|++|++.|+..+.+.++++.||++||+|..|+++|..  ..|+.. ++.+||+.||.+.+.+  ....|...+
T Consensus         1 g~l~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~-~g~~yC~~cy~~~~~~~~~C~~C~~~I   79 (188)
T 1rut_X            1 GSLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTK-SGMILCRNDYIRLFGNSGACSACGQSI   79 (188)
T ss_dssp             ---CCCBBTTTCCBCCCSEEEEETTEEECGGGCBCTTTCCBHHHHCSEEEEE-TTEEECHHHHHHHHSCCEECTTTCCEE
T ss_pred             CCCCCCcCccCCCEeCCceeEEecCcEecccCcccCCCCcccccCCceEEEe-CCccccccccccccccCCccccCCCcc
Confidence            34567899999999986667899999999999999999999986  578885 7999999999988887  677777766


Q ss_pred             CCCCc-eeecCccccCCCCCCCCCCcc
Q psy11691        167 RPDGH-HAIGDDRYHAELNSDKSTNLL  192 (271)
Q Consensus       167 ~~~~~-I~~gg~~YH~ecFs~ks~~ll  192 (271)
                      ...+. +.+.+..||++||.|..++-.
T Consensus        80 ~~~e~~i~a~~~~~H~~CF~C~~C~~~  106 (188)
T 1rut_X           80 PASELVMRAQGNVYHLKCFTCSTCRNR  106 (188)
T ss_dssp             CTTSEEEEETTEEECGGGCBCTTTCCB
T ss_pred             ccCcEEEEcCCCEEeCCCCeECCCCCC
Confidence            65443 568899999999998766433

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

Probab=99.66  E-value=2.2e-17  Score=133.32  Aligned_cols=93  Identities=18%  Similarity=0.227  Sum_probs=78.4

Q ss_pred             CCcccccCceeecceeEEeeCceeccccccccccCCccCC--cCeeecCCCeeeccCCCCCcccc--cCCCCCCCCCCCC
Q psy11691         95 LNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTC--INAYETHTGQFCCEVCPDEEERS--LTDPLRSSDRPDG  170 (271)
Q Consensus        95 s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s--~~f~~~~dG~~yCk~CY~~~~~~--I~~rc~~~~~~~~  170 (271)
                      .+.|++|+++|+..+.+.++++.||++||+|..|+++|..  ..|+.. ||.+||+.||.+.+++  ....|...+...+
T Consensus         2 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~-~g~~yC~~~y~~~~~~~~~C~~C~~~I~~~e   80 (131)
T 2xjy_A            2 LLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYK-LGRKLCRRDYLRLFGQDGLCASCDKRIRAYE   80 (131)
T ss_dssp             CCBBTTTCCBCCSSEEEEETTEEEETTTCBCTTTCCBCSSTTCCEEEE-TTEEECHHHHHHHHCCCEECTTTCCEECTTS
T ss_pred             cccCcCCCCEeCCcEEEEECCCcccHHHcccCcCCCccccCCCeEEEE-CCEEeecCchhhhCCCccChhhcCCccCccc
Confidence            3689999999986667899999999999999999999974  578885 7999999999998887  7777777666544


Q ss_pred             -ceeecCccccCCCCCCCC
Q psy11691        171 -HHAIGDDRYHAELNSDKS  188 (271)
Q Consensus       171 -~I~~gg~~YH~ecFs~ks  188 (271)
                       .+.+.+..||++||.|..
T Consensus        81 ~~~~a~~~~~H~~CF~C~~   99 (131)
T 2xjy_A           81 MTMRVKDKVYHLECFKCAA   99 (131)
T ss_dssp             EEEEETTEEEEGGGCBCTT
T ss_pred             eeEeeCCceECccCcccCC
Confidence             456899999999999443

>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=99.65  E-value=3.6e-17  Score=140.94  Aligned_cols=95  Identities=16%  Similarity=0.347  Sum_probs=79.2

Q ss_pred             CCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCccccc----------------
Q psy11691         95 LNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSL----------------  158 (271)
Q Consensus        95 s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I----------------  158 (271)
                      +++|.+|++.|+.++.+.++++.||++||+|..|+++|....|+.. |+.+||+.||.+.+++.                
T Consensus         7 ~~~C~~C~~~I~~~~~v~a~g~~wH~~CF~C~~C~~~L~~~~~~~~-~g~~yC~~cy~~~f~~~c~~c~~~~g~~~~~~~   85 (192)
T 1b8t_A            7 GKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVH-GDEIYCKSCYGKKYGPKGKGKGMGAGTLSTDKG   85 (192)
T ss_dssp             CEECTTTCCEECSSCCEEETTEEECTTTCBCTTTCCBCCSSSEEEE-TTEEEEHHHHHHHHSCCCCCCCCCCCCCCCCCC
T ss_pred             CCcCccCCCeecceeEEEeCCceecCCCCcCcccCCcCCCCeeEec-CCEeeChhhhHhhcCccccccccccccEecCCC
Confidence            5889999999998999999999999999999999999999999886 79999999998877654                


Q ss_pred             --------------------------------CCCCCCCCCCCCceeecCccccCCCCCCCCCC
Q psy11691        159 --------------------------------TDPLRSSDRPDGHHAIGDDRYHAELNSDKSTN  190 (271)
Q Consensus       159 --------------------------------~~rc~~~~~~~~~I~~gg~~YH~ecFs~ks~~  190 (271)
                                                      ...|...+..++.|++.|..||.+||.|..+.
T Consensus        86 ~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~  149 (192)
T 1b8t_A           86 ESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCG  149 (192)
T ss_dssp             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEECTTTSCEECSSSCEEETTEEECTTTCBCTTTC
T ss_pred             cccccccccccccCCCCcCccccccccCCCCcCCCCCCEecCcEEEecCCCccchhcCCccccC
Confidence                                            22344444445677889999999999955433

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

Probab=99.65  E-value=1.1e-16  Score=136.94  Aligned_cols=93  Identities=15%  Similarity=0.185  Sum_probs=79.9

Q ss_pred             CCCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccCCCCCCCCCCCCc-e
Q psy11691         94 KLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLTDPLRSSDRPDGH-H  172 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~~rc~~~~~~~~~-I  172 (271)
                      ..++|++|++.|+..+.+.++++.||++||+|..|+++|....| .. +|.+||+.||.+.+.+....|...+..++. +
T Consensus        59 ~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f-~~-~g~~yC~~~y~~~f~~kC~~C~~~I~~~~~v~  136 (182)
T 2jtn_A           59 EIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF-SR-GESVYCKDDFFKRFGTKCAACQLGIPPTQVVR  136 (182)
T ss_dssp             SCCBCBTSSSBCCCSEEEEETTEEECSSTTSCTTTCCCCSSCCE-EE-TTEEECHHHHHHTTSCCCTTTCCCCCSSCCCC
T ss_pred             CCCcCccCCCCccCceeEEecCCeEccccCccCCCCCccCCCce-eE-CCEeeecCccccccccccccCCCccCCCceEE
Confidence            46899999999987767889999999999999999999998776 44 799999999999999888888877766544 4


Q ss_pred             eecCccccCCCCCCCC
Q psy11691        173 AIGDDRYHAELNSDKS  188 (271)
Q Consensus       173 ~~gg~~YH~ecFs~ks  188 (271)
                      .+.+..||++||.|..
T Consensus       137 ~a~~~~~H~~CF~C~~  152 (182)
T 2jtn_A          137 RAQDFVYHLHCFACVV  152 (182)
T ss_dssp             EETTEECCTTTCCCTT
T ss_pred             ecCCCCEEeCCCcCCC
Confidence            5789999999999543

>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=99.64  E-value=1.7e-16  Score=136.77  Aligned_cols=129  Identities=21%  Similarity=0.425  Sum_probs=97.7

Q ss_pred             CCcchhhhhccCCcc-ccccccCCccccccccccCCCccCccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q psy11691          8 RHHKHYQRSYLGGAV-VNALDFGSGVAAARYLFHSIDLGDQLTNSNTDNPLSLPGVDVPQKTTSPAHREPGAPRAPSQPP   86 (271)
Q Consensus         8 ~~~~~~~~~~~~~~~-~~~~g~g~~~g~~~~~~~s~d~g~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~ps~~~   86 (271)
                      +.-+.||+.+|...+ ++++|+|.++|.     +.+|.+.+|..+++...    .       ..+      .....+...
T Consensus        52 ~~g~~yC~~cy~~~f~~~c~~c~~~~g~-----~~~~~~~~~~~~~~~~~----~-------~~p------~~~~~~~~~  109 (192)
T 1b8t_A           52 HGDEIYCKSCYGKKYGPKGKGKGMGAGT-----LSTDKGESLGIKYEEGQ----S-------HRP------TNPNASRMA  109 (192)
T ss_dssp             ETTEEEEHHHHHHHHSCCCCCCCCCCCC-----CCCCCCCCCCCCCCCCC----C-------CCC------CCCCCCCCC
T ss_pred             cCCEeeChhhhHhhcCcccccccccccc-----EecCCCccccccccccc----c-------cCC------CCcCccccc
Confidence            345789999999999 999999999998     89999888755442110    0       000      001111112


Q ss_pred             CCCCCCcCCCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccCCCC
Q psy11691         87 STLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLTDPL  162 (271)
Q Consensus        87 ~~~~g~~~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~~rc  162 (271)
                      ..+.   .+++|++|++.|+.++.|.++++.||.+||+|..|+++|..+.|+.. ++.+||+.||.+.+++....|
T Consensus       110 ~~~~---~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~-~g~~yC~~cy~~~f~~kc~~C  181 (192)
T 1b8t_A          110 QKVG---GSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADK-DGEIYCKGCYAKNFGPKGFGF  181 (192)
T ss_dssp             CCCC---CCEECTTTSCEECSSSCEEETTEEECTTTCBCTTTCCBCCSSSEEEE-TTEEEEHHHHHHHTCCCCCCC
T ss_pred             cccC---CCCcCCCCCCEecCcEEEecCCCccchhcCCccccCCCCCCCccccc-CCEEeCHHHHHHhcCCcCCCC
Confidence            1222   25889999999998899999999999999999999999999899885 799999999998887765433

>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=99.63  E-value=9.9e-17  Score=135.65  Aligned_cols=95  Identities=15%  Similarity=0.162  Sum_probs=80.5

Q ss_pred             CCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccCCCCCCCCCCCCce-e
Q psy11691         95 LNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLTDPLRSSDRPDGHH-A  173 (271)
Q Consensus        95 s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~~rc~~~~~~~~~I-~  173 (271)
                      .++|++|++.|+..+.+.++|+.||++||+|..|+++|....| .. ||.+||+.||.+.+++....|...+..++.+ .
T Consensus         6 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f-~~-~g~~yC~~~y~~~f~~~C~~C~~~I~~~~~v~~   83 (169)
T 2rgt_A            6 IPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF-SR-GESVYCKDDFFKRFGTKCAACQLGIPPTQVVRR   83 (169)
T ss_dssp             -CBBSSSSSBCCSSSCEECSSCEECTTTSBCTTTCCBCCSCCE-ES-SSCEECHHHHHHHHSCBCTTTCCBCCTTSEEEE
T ss_pred             CCccccCCCccCCcEEEEECCcEEccccCccCCCCCcCCCCCc-cc-CCeeeecccccccccccccccccccCCCcEEEE
Confidence            5889999999987667889999999999999999999998775 54 7999999999999988888787777665544 5


Q ss_pred             ecCccccCCCCCCCCCCc
Q psy11691        174 IGDDRYHAELNSDKSTNL  191 (271)
Q Consensus       174 ~gg~~YH~ecFs~ks~~l  191 (271)
                      +.+..||.+||.|..++.
T Consensus        84 a~~~~~H~~CF~C~~C~~  101 (169)
T 2rgt_A           84 AQDFVYHLHCFACVVCKR  101 (169)
T ss_dssp             ETTEEEEGGGCBCTTTCC
T ss_pred             cCCceEeeCCCcCCCCCC
Confidence            789999999999765443

>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=4.9e-16  Score=117.33  Aligned_cols=63  Identities=30%  Similarity=0.720  Sum_probs=57.1

Q ss_pred             CCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeec-CCCeeeccCCCCCcccc
Q psy11691         95 LNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYET-HTGQFCCEVCPDEEERS  157 (271)
Q Consensus        95 s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~-~dG~~yCk~CY~~~~~~  157 (271)
                      +++|.+|++.|+.+|++.++++.||++||+|..|+++|..+.|+.. +|+.+||+.||.+.+..
T Consensus        15 ~~~C~~C~~~I~~~e~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~g~~yC~~~y~~~~~~   78 (82)
T 2co8_A           15 GDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHLPQTDSG   78 (82)
T ss_dssp             SCBCSSSCCBCCTTTBCCBTTBCCBTTTCBCSSSCCBCCTTSEECCTTTCCCEETTTCCCCCCC
T ss_pred             CCCCcccCCCcccceEEEECCCeeCCCcCEEcCCCCCcCCCceeEeCcCCEEEChHHHHhhhcC
Confidence            5899999999999999999999999999999999999999998842 48999999999977653

>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=99.56  E-value=4.7e-15  Score=109.79  Aligned_cols=68  Identities=19%  Similarity=0.513  Sum_probs=60.5

Q ss_pred             CcCCCcccccCceeec---ceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccCC
Q psy11691         92 SLKLNSCSLCGEKVYL---AQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLTD  160 (271)
Q Consensus        92 ~~~s~kCa~Cgk~V~~---~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~~  160 (271)
                      ..++++|++|+++|+.   ++.+.++++.||++||+|..|+++|....|+.. ++.+||+.||.+.+.++..
T Consensus         2 ~~~~~~C~~C~~~I~~~g~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~-~g~~yC~~cy~~~f~~~C~   72 (76)
T 1x68_A            2 SSGSSGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQ-NKEIFCQKCGSGMDTDISG   72 (76)
T ss_dssp             TTCCCCCTTTCCCCCTTTTCCEEEETTEEEEGGGCBCTTTCCBCSSSCEEEE-TTEEEETTTTCCCCCCSSS
T ss_pred             CccCCCCccCCCcccCCCCceeEEECCcccCcccCChhhCCCcCCCCceEeE-CCEEECHHHhhhhhCCcCC
Confidence            4578999999999973   478999999999999999999999998889885 7999999999988887654

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

Probab=99.52  E-value=1.8e-15  Score=108.89  Aligned_cols=64  Identities=20%  Similarity=0.415  Sum_probs=57.4

Q ss_pred             CcCCCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccc
Q psy11691         92 SLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERS  157 (271)
Q Consensus        92 ~~~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~  157 (271)
                      ..++++|++|++.|+ ++.+.++++.||++||+|..|+++|.+..|+.. ++.+||+.||.+.+++
T Consensus         2 ~~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~-~g~~yC~~~y~~~f~~   65 (66)
T 1nyp_A            2 SMGVPICGACRRPIE-GRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYER-KGLAYCETHYNQLFGD   65 (66)
T ss_dssp             CCCCCEETTTTEECC-SCEECCTTSBEETTTCBCTTTCCBCSSSCCEEE-TTEEECHHHHHHHCSC
T ss_pred             CcCCCCCcccCCEec-ceEEEECccccccCcCEECCCCCCCCCCceEeE-CCcEECHHHHHHHhCC
Confidence            346789999999997 888999999999999999999999999899886 7999999999876654

>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=99.52  E-value=4.3e-15  Score=108.61  Aligned_cols=66  Identities=20%  Similarity=0.475  Sum_probs=57.9

Q ss_pred             CcCCCcccccCceeec---ceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCccccc
Q psy11691         92 SLKLNSCSLCGEKVYL---AQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSL  158 (271)
Q Consensus        92 ~~~s~kCa~Cgk~V~~---~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I  158 (271)
                      +.++++|++|++.|+.   .+.+.++++.||++||+|..|+++|....|+.. ++.+||+.||.+.+++.
T Consensus         2 s~~~~~C~~C~~~I~~~~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~f~~~-~g~~yC~~c~~~~~~p~   70 (72)
T 1x4l_A            2 SSGSSGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTE-RDDILCPDCGKDISGPS   70 (72)
T ss_dssp             CSCSCSBTTTTBCCCCSSSCSCEECSSCEECTTTCBCSSSCCBCTTSCCEEC-SSSEECHHHHHTCCCSS
T ss_pred             CCCCCCCcCCCccccCCCCcceEEECCcccCcccCEeccCCCcCCCCccEeE-CCEEEChhHcCcccCCC
Confidence            4467899999999975   356889999999999999999999998888875 79999999999877664

>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=99.51  E-value=3.7e-15  Score=108.38  Aligned_cols=65  Identities=28%  Similarity=0.568  Sum_probs=58.0

Q ss_pred             CcCCCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCccccc
Q psy11691         92 SLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSL  158 (271)
Q Consensus        92 ~~~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I  158 (271)
                      +..+++|++|++.|+ ++.+.++++.||++||+|..|+++|....|+.. ++.+||+.||.+.+.+.
T Consensus         2 s~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~-~g~~yC~~c~~~~~~~~   66 (70)
T 2d8x_A            2 SSGSSGCHQCGEFII-GRVIKAMNNSWHPECFRCDLCQEVLADIGFVKN-AGRHLCRPCHNREKASG   66 (70)
T ss_dssp             CCCSSBCSSSCCBCC-SCCEEETTEEECTTTSBCSSSCCBCSSSCCEEE-TTEEECHHHHHHHHCCC
T ss_pred             CCCCCcCccCCCEec-ceEEEECcccccccCCEeCCCCCcCCCCccEeE-CCeEECHHHhhhhcCCC
Confidence            456789999999996 678999999999999999999999999988875 79999999999776654

>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=99.51  E-value=4.8e-15  Score=107.97  Aligned_cols=67  Identities=22%  Similarity=0.509  Sum_probs=59.6

Q ss_pred             CcCCCcccccCceeecce-eEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccC
Q psy11691         92 SLKLNSCSLCGEKVYLAQ-RFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLT  159 (271)
Q Consensus        92 ~~~s~kCa~Cgk~V~~~E-rI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~  159 (271)
                      ..++++|++|++.|+..+ .+.++++.||.+||+|..|+++|..+.|+.. ++.+||+.||.+.+++..
T Consensus         2 ~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~-~~~~yC~~cy~~~f~~~C   69 (72)
T 1x4k_A            2 SSGSSGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPK-DNQNFCVPCYEKQHASGP   69 (72)
T ss_dssp             CSCCCCBSSSCCCCCSSSCEEEETTEEEETTTTCCSSSCCCCCSSSEEEE-TTEEEEHHHHHHHTSSCC
T ss_pred             CccCCCCccCCCcccCCceEEEECcCeecccCCcccccCCccCCCccCcc-CCeEECHHHHhHHhCCCC
Confidence            456799999999998765 6889999999999999999999999999886 799999999998777653

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

Probab=99.51  E-value=9.3e-15  Score=111.41  Aligned_cols=63  Identities=21%  Similarity=0.497  Sum_probs=56.7

Q ss_pred             CCCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCccccc
Q psy11691         94 KLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSL  158 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I  158 (271)
                      ...+|.+|++.|+ ++.+.++++.||.+||+|..|++.|..+.|+.. ++.+||+.||.+.|++.
T Consensus        24 ~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~-~g~~yC~~~y~~~f~p~   86 (89)
T 1x64_A           24 RMPLCDKCGSGIV-GAVVKARDKYRHPECFVCADCNLNLKQKGYFFV-EGELYCETHARARTSGP   86 (89)
T ss_dssp             SCCBCTTTCCBCC-SCCEESSSCEECTTTCCCSSSCCCTTTSCCEEE-TTEEECHHHHHHHSSSC
T ss_pred             cCCCcccCCCEec-ccEEEECCceECccCCEecCCCCCCCCCCeEeE-CCEEECHHHHHHHhCCC
Confidence            4689999999997 477999999999999999999999999889886 79999999999877654

>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=99.51  E-value=6.1e-15  Score=109.01  Aligned_cols=64  Identities=28%  Similarity=0.531  Sum_probs=58.5

Q ss_pred             CCCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeecc-CCCCCccccc
Q psy11691         94 KLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCE-VCPDEEERSL  158 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk-~CY~~~~~~I  158 (271)
                      ++++|++|++.|+.++.+.++++.||++||+|..|+++|....|+.. ++.+||+ .||.+.+.+.
T Consensus         8 ~~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~-~g~~yC~~~cy~~~f~~k   72 (76)
T 2cu8_A            8 MASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEH-DGKPFCHKPCYATLFGSG   72 (76)
T ss_dssp             CCCBCTTTCCBCCTTTEEEETTEEEETTTCBCSSSCCBCCTTSCEEE-TTEEECTTTHHHHHSCSS
T ss_pred             CCCCCcCCCCEeECCeEEEECCeEeeCCCCCCCCCCCccCCCceEeE-CCEEecchHHHHHhcccc
Confidence            46899999999998999999999999999999999999999889886 7999999 7999877654

>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=99.50  E-value=6e-15  Score=118.88  Aligned_cols=77  Identities=23%  Similarity=0.363  Sum_probs=65.7

Q ss_pred             CCcCCCcccccCceeecceeEEeeCceeccccccccccCCccC--CcCeeecCCCeeeccCCCCCcccc--cCCCCCCCC
Q psy11691         91 GSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLT--CINAYETHTGQFCCEVCPDEEERS--LTDPLRSSD  166 (271)
Q Consensus        91 g~~~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~--s~~f~~~~dG~~yCk~CY~~~~~~--I~~rc~~~~  166 (271)
                      |+..+++|++|++.|+..+.+.++++.||++||+|..|+++|.  +..|+.. ++.+||+.||.+.+++  ....|...+
T Consensus         1 gs~~~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~-~g~~yC~~cy~~~f~~~~~C~~C~~~I   79 (122)
T 1m3v_A            1 GSLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTK-SGMILCRNDYIRLFGNSGAGGSGGHMG   79 (122)
T ss_dssp             CCSCCCCBSSSSSCCCSSCCEEETTEEECHHHHCCSSSCCCTTTSEECCEEE-TTEEECHHHHHHHHCCCCSSSCSSCCS
T ss_pred             CCCCCCCCcccCCEeCCcEEEEECCceeHhhCCCcCCCCCcccccCCeEEEE-CCeeecHHHHHHHcCCCCccccCCCCc
Confidence            4566799999999998777799999999999999999999997  3578885 7999999999999887  666666655


Q ss_pred             CC
Q psy11691        167 RP  168 (271)
Q Consensus       167 ~~  168 (271)
                      ..
T Consensus        80 ~~   81 (122)
T 1m3v_A           80 SG   81 (122)
T ss_dssp             CC
T ss_pred             Cc
Confidence            54

>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=99.50  E-value=1.3e-14  Score=109.23  Aligned_cols=62  Identities=26%  Similarity=0.417  Sum_probs=56.2

Q ss_pred             CCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCccccc
Q psy11691         95 LNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSL  158 (271)
Q Consensus        95 s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I  158 (271)
                      .++|.+|++.|+.++.+.++++.||++||+|..|+++|.. .|+.. |+.+||+.||.+.|.+.
T Consensus        15 ~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~-~~~~~-~g~~yC~~~y~~~fg~~   76 (80)
T 2dj7_A           15 PSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILTG-EYISK-DGVPYCESDYHAQFGSG   76 (80)
T ss_dssp             CSCCTTTCCCCSSSCCEEETTEEECTTTCBCSSSCCBCSS-CCEEE-TTEEECTTHHHHHTTCC
T ss_pred             CCCCcCcCCeeCCCeEEEECCcccccccCCcCcCCCCcCC-CeEEE-CCEEECHHHHHHHcCCC
Confidence            5789999999998999999999999999999999999985 78875 79999999999877654

>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=99.50  E-value=6e-15  Score=107.11  Aligned_cols=67  Identities=21%  Similarity=0.418  Sum_probs=59.2

Q ss_pred             CCcCCCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccC
Q psy11691         91 GSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLT  159 (271)
Q Consensus        91 g~~~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~  159 (271)
                      |+.++++|.+|++.|. ++.+.++++.||++||+|..|+++|....|+.. ++.+||+.||.+.+++..
T Consensus         1 g~~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~-~~~~yC~~cy~~~f~~~c   67 (70)
T 2d8z_A            1 GSSGSSGCVQCKKPIT-TGGVTYREQPWHKECFVCTACRKQLSGQRFTAR-DDFAYCLNCFCDLYASGP   67 (70)
T ss_dssp             CCCCCCBCSSSCCBCC-SSEEESSSSEEETTTSBCSSSCCBCTTSCCEES-SSSEECHHHHHHHTCCCC
T ss_pred             CCCCCCCCcccCCeec-cceEEECccccCCCCCccCCCCCcCCcCceEee-CCeEECHHHHHHHhcccc
Confidence            4557899999999996 677999999999999999999999999889885 799999999998777653

>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=99.49  E-value=6.4e-15  Score=106.84  Aligned_cols=65  Identities=18%  Similarity=0.458  Sum_probs=57.9

Q ss_pred             CcCCCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCccccc
Q psy11691         92 SLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSL  158 (271)
Q Consensus        92 ~~~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I  158 (271)
                      +.++++|++|++.|+ ++.|.++++.||++||+|..|+++|.+..|+.. ++.+||+.||.+.+++.
T Consensus         2 s~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~-~~~~yC~~cy~~~f~~~   66 (69)
T 2cur_A            2 SSGSSGCVKCNKAIT-SGGITYQDQPWHADCFVCVTCSKKLAGQRFTAV-EDQYYCVDCYKNFVSGP   66 (69)
T ss_dssp             CCCCCCCSSSCCCCC-TTCEEETTEEECTTTTBCTTTCCBCTTSCEEEC-SSCEEEHHHHHHHHTCS
T ss_pred             CCCcCCCcccCCEeC-cceEEECccccccCcCEECCCCCCCCCCccEeE-CCEEECHHHhHHHhcCC
Confidence            456799999999996 678999999999999999999999998889885 79999999999776654

>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=99.48  E-value=1.5e-14  Score=110.53  Aligned_cols=64  Identities=22%  Similarity=0.488  Sum_probs=57.9

Q ss_pred             CCCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccC
Q psy11691         94 KLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLT  159 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~  159 (271)
                      +.++|++|++.| .++.|.++++.||++||+|..|+++|....|+.. ++.+||+.||.+.|++..
T Consensus        24 ~~~~C~~C~~~I-~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~f~~~-~g~~yC~~cy~~~f~~~c   87 (90)
T 2dar_A           24 RTPMCAHCNQVI-RGPFLVALGKSWHPEEFNCAHCKNTMAYIGFVEE-KGALYCELCYEKFFASGP   87 (90)
T ss_dssp             CCCBBSSSCCBC-CSCEEEETTEEECTTTCBCSSSCCBCSSSCBEES-SSCEECHHHHHHHTSCCC
T ss_pred             CCCCCccCCCEe-cceEEEECCccccccCCccCCCCCCCCCCEeEeE-CCEEECHHHHHHHcCCCC
Confidence            468999999999 4788999999999999999999999999899885 799999999998877654

>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=99.48  E-value=6.6e-15  Score=107.44  Aligned_cols=65  Identities=31%  Similarity=0.545  Sum_probs=56.9

Q ss_pred             CCcCCCcccccCceeecce-eEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCccc
Q psy11691         91 GSLKLNSCSLCGEKVYLAQ-RFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEER  156 (271)
Q Consensus        91 g~~~s~kCa~Cgk~V~~~E-rI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~  156 (271)
                      |+.++++|++|++.|+..+ .+.++++.||.+||+|..|+++|....|+.. ++.+||+.||.+.++
T Consensus         1 g~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~-~~~~yC~~cy~~~~~   66 (72)
T 1x61_A            1 GSSGSSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAV-ERRAYCEGCYVATLE   66 (72)
T ss_dssp             CCSCCCCCSSSCSCCCSSSCCEECSSSEECTTTCBCSSSCCBCTTSCEEES-SSCEEEHHHHHHHHH
T ss_pred             CCCCCCCCccCCCccCCCceEEEECCCeEcccCCcccccCCcCCcCcCEee-CCeEECHHHHHHHHc
Confidence            3456799999999998754 7899999999999999999999988889886 799999999986654

>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=99.48  E-value=8.8e-15  Score=106.57  Aligned_cols=66  Identities=24%  Similarity=0.571  Sum_probs=58.7

Q ss_pred             cCCCcccccCceeecc-eeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccC
Q psy11691         93 LKLNSCSLCGEKVYLA-QRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLT  159 (271)
Q Consensus        93 ~~s~kCa~Cgk~V~~~-ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~  159 (271)
                      .++++|.+|++.|+.+ +.+.++++.||.+||+|..|+++|..+.|+.. ++.+||+.||.+.+++..
T Consensus         3 ~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~-~~~~yC~~cy~~~f~~~C   69 (72)
T 1wyh_A            3 SGSSGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPD-KGAHYCVPCYENKFASGP   69 (72)
T ss_dssp             CCCCBCSSSCCBCCSSSCEECSTTCCEETTTCBCTTTCCBTTTSCEEEE-TTEEEEHHHHHHHTSCCC
T ss_pred             ccCCCCccCCCccccCccEEEECccccCcccCeECCCCCcCCCCccCCc-CCeEECHHHHHHHccCcC
Confidence            3578999999999875 67889999999999999999999999999886 799999999998777653

>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=99.47  E-value=2.2e-14  Score=105.95  Aligned_cols=66  Identities=27%  Similarity=0.521  Sum_probs=59.4

Q ss_pred             CcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeecc-CCCCCcccccCCCC
Q psy11691         96 NSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCE-VCPDEEERSLTDPL  162 (271)
Q Consensus        96 ~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk-~CY~~~~~~I~~rc  162 (271)
                      ++|++|++.|+.++.+.++++.||.+||+|..|+++|..+.|+.. ++.+||+ .||.+.+++....|
T Consensus         1 p~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~-~g~~yC~~~cy~~~f~~~C~~C   67 (76)
T 1iml_A            1 PKCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEH-EGKPYCNHPCYSAMFGPKGFGR   67 (76)
T ss_dssp             CBCTTTSSBCCGGGEEEETTEEEETTTCBCTTTCCBCCTTTEEEE-TTEEEETTTHHHHHSSCCCSSC
T ss_pred             CcCCCCCCEEECceEEEECCccccCCCCCccccCccCCCCceECc-CCeEeeCHHHHHHHhCccCCCc
Confidence            579999999988999999999999999999999999999999886 7999999 79998888765433

>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=99.46  E-value=1.3e-14  Score=108.51  Aligned_cols=64  Identities=28%  Similarity=0.625  Sum_probs=56.8

Q ss_pred             CCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccC
Q psy11691         95 LNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLT  159 (271)
Q Consensus        95 s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~  159 (271)
                      +++|.+|++.|+.++.+.++++.||++||+|..|+++|....|+.. ++.+||+.||.+.+.+..
T Consensus         7 ~~~C~~C~~~I~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~-~~~~yC~~cy~~~f~~~c   70 (81)
T 1a7i_A            7 GNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIH-DAEVYCKSCYGKKYGPKG   70 (81)
T ss_dssp             -CBCSSSCCBCSSTTEEEETTEEEESSSEECSSSCCEECSSCCEEE-TTEEECSHHHHHHCC---
T ss_pred             CCcCcCcCccccCceeEEeCCcccccccCccCCCCCCCCCCCeEee-CCEEECHHHHHHHhCCcc
Confidence            5899999999998999999999999999999999999999989886 799999999998777654

>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=99.45  E-value=1.6e-14  Score=107.81  Aligned_cols=62  Identities=23%  Similarity=0.472  Sum_probs=55.8

Q ss_pred             CCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCccccc
Q psy11691         95 LNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSL  158 (271)
Q Consensus        95 s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I  158 (271)
                      .++|++|++.|+ ++.+.++++.||.+||+|..|++.|....|+.. ++.+||+.||.+.+++.
T Consensus        15 ~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~-~g~~yC~~cy~~~~~p~   76 (79)
T 1x62_A           15 LPMCDKCGTGIV-GVFVKLRDRHRHPECYVCTDCGTNLKQKGHFFV-EDQIYCEKHARERVSGP   76 (79)
T ss_dssp             CCCCSSSCCCCC-SSCEECSSCEECTTTTSCSSSCCCHHHHCCEES-SSCEECHHHHHHHHSSC
T ss_pred             CCccccCCCCcc-CcEEEECcceeCcCcCeeCCCCCCCCCCCeEeE-CCEEECHHHHHHHhCCC
Confidence            588999999997 578999999999999999999999998889886 79999999999777653

>1wig_A KIAA1808 protein; LIM domain, zinc finger, metal-binding protein, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.45  E-value=2.4e-14  Score=105.78  Aligned_cols=64  Identities=17%  Similarity=0.439  Sum_probs=55.4

Q ss_pred             CCcCCCcccccCceeecceeEEeeCceeccccccccccCCccC-CcCeeecCCCeeeccCCCCCccc
Q psy11691         91 GSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLT-CINAYETHTGQFCCEVCPDEEER  156 (271)
Q Consensus        91 g~~~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~-s~~f~~~~dG~~yCk~CY~~~~~  156 (271)
                      |+.++++|++|+++|+ ++.|.++++.||++||+|..|+++|. ...|+.. ++.+||+.||...+.
T Consensus         1 ~s~~~~~C~~C~~~I~-~~~v~a~~~~wH~~CF~C~~C~~~L~~~~~f~~~-~~~~yC~~C~~~~~~   65 (73)
T 1wig_A            1 GSSGSSGCDSCEKYIT-GRVLEAGEKHYHPSCALCVRCGQMFAEGEEMYLQ-GSSIWHPACRQAART   65 (73)
T ss_dssp             CCCSCCSCSSSCCCCS-SCCBCCSSCCBCTTTSCCSSSCCCCCSSCCCEEE-TTEEECTTHHHHTSS
T ss_pred             CCcCcCCcccCCCEec-CeeEEeCCCCCCCCcCEeCCCCCCCCCCCeeEee-CCEEEChHHChHhhc
Confidence            4567899999999996 57889999999999999999999998 5567775 799999999986544

>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=99.44  E-value=4.3e-14  Score=114.95  Aligned_cols=63  Identities=25%  Similarity=0.454  Sum_probs=55.1

Q ss_pred             CcCCCcccccCceeecceeEEeeCceeccccccccccCCccC--CcCeeecCCCeeeccCCCCCcc
Q psy11691         92 SLKLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLT--CINAYETHTGQFCCEVCPDEEE  155 (271)
Q Consensus        92 ~~~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~--s~~f~~~~dG~~yCk~CY~~~~  155 (271)
                      ..++++|++|++.|+..+.+.++++.||++||+|..|+++|.  ...|+.. +|.+||+.||.+.|
T Consensus        58 ~~~~~~C~~C~~~I~~~~~v~a~~~~wH~~CF~C~~C~~~L~~~g~~f~~~-dg~~yC~~cy~~~F  122 (123)
T 2l4z_A           58 GLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTK-SGMILCRNDYIRLF  122 (123)
T ss_dssp             CSSCSBBSSSSSBCCSSSEEEETTEEEETTTSBCTTTCCBGGGTTCCCBCS-SSCCBCHHHHHHHC
T ss_pred             CccCCcCcCCCCCcCCcEEEEeCCcEEcccccCcCcCCCcccccCCceEEE-CCEEeCHHHhhhhc
Confidence            345799999999998777799999999999999999999997  3578885 79999999998655

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

Probab=99.44  E-value=2e-14  Score=105.98  Aligned_cols=64  Identities=27%  Similarity=0.416  Sum_probs=56.9

Q ss_pred             CCCcccccCceeeccee-EEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCccccc
Q psy11691         94 KLNSCSLCGEKVYLAQR-FAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSL  158 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~Er-I~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I  158 (271)
                      .+++|++|++.|+..++ +.++|+.||.+||+|..|+++|..+.|+.. +|.+||+.||.+.+++.
T Consensus        10 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~-~g~~yC~~~y~~~f~~~   74 (77)
T 1g47_A           10 ASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEF-EGRKYCEHDFQMLFAPC   74 (77)
T ss_dssp             CCCBCSSSCCBCCSTTTCEEETTEEECTTTCCCTTTCCCCGGGCSEEE-TTEEECHHHHHHHCCCC
T ss_pred             CCCCchhcCCccCCCceEEEeCccEeccccCeECCCCCCCCCCCeEeE-CCeEeCHHHHHHHhhcc
Confidence            35899999999987665 679999999999999999999999999886 79999999999877654

>2d8y_A Eplin protein; LIM domain, epithelial protein LOST in neoplasm, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=99.43  E-value=5.1e-14  Score=107.71  Aligned_cols=64  Identities=25%  Similarity=0.552  Sum_probs=58.7

Q ss_pred             CCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccC
Q psy11691         95 LNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLT  159 (271)
Q Consensus        95 s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~  159 (271)
                      .++|++|++.|+.++.+.++++.||.+||+|..|+++|..+.|+.. ++.+||+.||.+.+.+..
T Consensus        15 ~~~C~~C~~~I~~~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~-~g~~yC~~~y~~~f~~kc   78 (91)
T 2d8y_A           15 RETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASL-HGRIYCKPHFNQLFKSKG   78 (91)
T ss_dssp             SCBCTTTCCBCCTTSEEECSSSEEETTTCBCTTTCCBCCTTTCCCS-SSCCCCHHHHHHHSCCCS
T ss_pred             CCcCccCCCccCCceeEEECCCEECCCCCeeCCCCCCCCCCCcEeE-CCEEECHHHHHHHhCCCc
Confidence            5889999999998899999999999999999999999999888885 799999999998877654

>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=99.43  E-value=3.1e-14  Score=106.24  Aligned_cols=64  Identities=17%  Similarity=0.531  Sum_probs=57.4

Q ss_pred             CCCcccccCceeeccee-EEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCccccc
Q psy11691         94 KLNSCSLCGEKVYLAQR-FAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSL  158 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~Er-I~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I  158 (271)
                      ++++|++|++.|+.+++ +.++++.||++||+|..|+++|..+.|+.. ++.+||+.||.+.+++.
T Consensus        14 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~~~~~-~~~~yC~~cy~~~f~~~   78 (82)
T 1x63_A           14 DSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPK-GEDFYCVTCHETKFASG   78 (82)
T ss_dssp             CSCBCSSSCCBCCSSSCEEECSSCEEETTTCCCSSSCCCCTTSCEEEE-TTEEEEHHHHHHHTSCC
T ss_pred             cCCcCccCCcccccCceEEEECccccccccCchhhCCCccCCCccEee-CCEEECHHHHHHHhCCC
Confidence            46899999999987765 889999999999999999999999999886 79999999999777654

>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=99.42  E-value=3.7e-14  Score=102.51  Aligned_cols=61  Identities=28%  Similarity=0.445  Sum_probs=54.6

Q ss_pred             CCCcccccCceeeccee-EEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcc
Q psy11691         94 KLNSCSLCGEKVYLAQR-FAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEE  155 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~Er-I~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~  155 (271)
                      ..++|++|++.|+..++ +.++++.||++||+|..|+++|..+.|+.. +|.+||+.||.+.|
T Consensus        10 ~~~~C~~C~~~i~~~e~~~~~~~~~~H~~CF~C~~C~~~L~~~~~~~~-~g~~yC~~~y~~lf   71 (72)
T 3f6q_B           10 ASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEF-EGRKYCEHDFQMLF   71 (72)
T ss_dssp             TTCBCTTTCCBCCTTCEEEEETTEEEETTTSSCTTTCCCCGGGCCEEE-TTEEECHHHHHHHT
T ss_pred             CCccchhcCccccCCceEEEeCcCeeCcCCCcccCCCCCCCCCCeEeE-CCeEeCHHHHHHhh
Confidence            35789999999988886 579999999999999999999999888886 79999999998654

>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=99.42  E-value=1.2e-13  Score=103.21  Aligned_cols=65  Identities=25%  Similarity=0.490  Sum_probs=56.9

Q ss_pred             CCCcccccCceeec-ceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccC
Q psy11691         94 KLNSCSLCGEKVYL-AQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLT  159 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~-~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~  159 (271)
                      ++++|++|++.|+. ++.+.++++.||.+||+|..|+++|.+..|+.. ++.+||+.||.+.+++..
T Consensus        14 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~-~~~~~C~~c~~~~~~~~C   79 (82)
T 2ehe_A           14 FANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQ-DSELLCNDCYCSAFSSGP   79 (82)
T ss_dssp             CSCBCTTTCCBCCSSCCBCCCSSCCCBTTTSBCTTTCCBCSSCCEEEE-TTEEEETTTSSCCGGGSS
T ss_pred             cCCcCccCCCccccCcEEEEeCCccccccCCeecCCCCccCCCccEee-CCEEECHHHHhhhcCCCC
Confidence            46899999999974 445778999999999999999999999889886 799999999998877643

>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=99.39  E-value=7.7e-14  Score=103.66  Aligned_cols=64  Identities=20%  Similarity=0.428  Sum_probs=57.5

Q ss_pred             CCCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccC
Q psy11691         94 KLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLT  159 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~  159 (271)
                      ++++|++|+++|+ ++.|.++++.||.+||+|..|+++|..+.|+.. ++.+||+.||.+.++++.
T Consensus        14 ~~~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~-~~~~yC~~~y~~~f~~~C   77 (80)
T 1x3h_A           14 FSPKCGGCNRPVL-ENYLSAMDTVWHPECFVCGDCFTSFSTGSFFEL-DGRPFCELHYHHRRGSGP   77 (80)
T ss_dssp             CSCBCTTTCCBCC-SSCEEETTEEECTTTCBCSSSCCBSCSSCCEES-SSCEECHHHHHHHHSSSC
T ss_pred             cCCccccCCCeec-ceeEEECCCeEecCcCChhhCCCCCCCCcEEeE-CCEEECHHHHHHHcCCCC
Confidence            4689999999997 478999999999999999999999999889886 799999999998877654

>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=99.39  E-value=7.2e-14  Score=104.69  Aligned_cols=63  Identities=27%  Similarity=0.495  Sum_probs=55.8

Q ss_pred             CCCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccC
Q psy11691         94 KLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLT  159 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~  159 (271)
                      ..++|++|++.|+ ++.|.++++.||++||+|..|+++|....| .. ++.+||+.||.+.++++.
T Consensus        14 ~~~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~f-~~-~g~~yC~~cy~~~f~p~~   76 (79)
T 2cor_A           14 GKYICQKCHAIID-EQPLIFKNDPYHPDHFNCANCGKELTADAR-EL-KGELYCLPCHDKMGVSGP   76 (79)
T ss_dssp             CCCBCTTTCCBCC-SCCCCCSSSCCCTTTSBCSSSCCBCCTTCE-EE-TTEEECHHHHHTTSCCSS
T ss_pred             CCCCCccCCCEec-ceEEEECcceeCCCCCEeCCCCCccCCCCE-eE-CCEEeCHHHHHHhCCCCC
Confidence            3589999999997 778999999999999999999999998754 64 799999999998887753

>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=99.38  E-value=1.1e-13  Score=103.32  Aligned_cols=65  Identities=22%  Similarity=0.400  Sum_probs=56.8

Q ss_pred             CCCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccC
Q psy11691         94 KLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLT  159 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~  159 (271)
                      ++++|++|+++|+ ++.+.++++.||++||+|..|+++|.+..|+...++.+||+.||.+.+++..
T Consensus        14 ~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~~~g~~yC~~cy~~~f~~~C   78 (81)
T 2dlo_A           14 TLEKCATCSQPIL-DRILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFASGP   78 (81)
T ss_dssp             SCCBCTTTCCBCC-SCCEEETTEEECTTTCBCSSSCCBCTTSCEECCTTCCCEEHHHHHHHTTSSS
T ss_pred             CCCccccCCCeec-ceeEEECCccccHHhcCcccCCCccCCCeeEECCCCEEECHHHHHHHhcCcC
Confidence            4689999999996 6689999999999999999999999988787643689999999998877654

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

Probab=99.38  E-value=1.2e-13  Score=99.62  Aligned_cols=59  Identities=24%  Similarity=0.513  Sum_probs=52.8

Q ss_pred             CCCcccccCceeecc-eeEEeeCceec--cccccccccCCccCCcCeeecCCCeeec-cCCCCC
Q psy11691         94 KLNSCSLCGEKVYLA-QRFAFNARLFH--RTCFKCARCQSQLTCINAYETHTGQFCC-EVCPDE  153 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~-ErI~a~gk~wH--~~CFrC~~C~k~L~s~~f~~~~dG~~yC-k~CY~~  153 (271)
                      ++++|++|+++|+.+ +.|.++++.||  ++||+|..|+++|.+..|+.. +|.+|| +.||.+
T Consensus         1 fa~~C~~C~~~I~~~~~~v~a~~~~wH~~~~CF~C~~C~~~L~~~~f~~~-~g~~yC~~~C~~k   63 (65)
T 2iyb_E            1 HAVVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPV-EGMVFCSVECKKR   63 (65)
T ss_dssp             -CEECTTTSSEECTTSCEEEETTEEEETTTTTSBCTTTCCBCTTSCCEEE-TTEEESSHHHHHT
T ss_pred             CcCCCcCCCCeeccCceEEEECCCccCCCCCCEECCCCCCcCCCCceEEE-CCEEecCHHHhhh
Confidence            357899999999874 78999999999  999999999999999889886 799999 889874

>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=99.38  E-value=1.1e-13  Score=102.20  Aligned_cols=58  Identities=21%  Similarity=0.509  Sum_probs=52.5

Q ss_pred             CCCcccccCceeec----ceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCC
Q psy11691         94 KLNSCSLCGEKVYL----AQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPD  152 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~----~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~  152 (271)
                      ++++|++|++.|+.    .+.+.++++.||++||+|..|+++|.+..|+.. ++.+||+.||.
T Consensus        14 ~~~~C~~C~~~I~~~g~~~~~~~a~~~~~H~~CF~C~~C~~~L~~~~f~~~-~~~~yC~~cy~   75 (77)
T 2egq_A           14 VAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFH-QEQVYCPDCAK   75 (77)
T ss_dssp             CCCCCSSSCCCCCCCSSCCCEEEETTEEEETTTCBCSSSCCBCTTSCCCEE-TTEECCHHHHH
T ss_pred             hCccCcccCCcccCCCCCceeEEECcceeCcccCEehhcCCCCCCCccEeE-CCEEEChHHhc
Confidence            46899999999973    477999999999999999999999999889886 79999999986

>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=99.37  E-value=1.3e-13  Score=102.33  Aligned_cols=64  Identities=20%  Similarity=0.407  Sum_probs=57.0

Q ss_pred             CCCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCcccccC
Q psy11691         94 KLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEEERSLT  159 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I~  159 (271)
                      ++++|++|++.|. ++.|.++++.||.+||+|..|+++|....|+.. ++.+||+.||.+.+++..
T Consensus        14 ~~~~C~~C~~~I~-~~~v~a~~~~~H~~CF~C~~C~~~L~~~~~~~~-~~~~yC~~cy~~~f~~~c   77 (80)
T 2cuq_A           14 FAPRCARCSKTLT-QGGVTYRDQPWHRECLVCTGCQTPLAGQQFTSR-DEDPYCVACFGELFASGP   77 (80)
T ss_dssp             SSCCCTTTCCCCC-SCCEESSSSEECTTTCBCSSSCCBCTTCCEEEC-SSSEEEHHHHHHHTTCST
T ss_pred             cCCcCCCCCCEec-CcEEEECCchhhhhhCCcccCCCcCCCCeeEeE-CCEEECHHHHHHHcCCCC
Confidence            4689999999996 568999999999999999999999998889885 799999999998777653

>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=99.36  E-value=3.3e-13  Score=107.43  Aligned_cols=65  Identities=18%  Similarity=0.265  Sum_probs=57.9

Q ss_pred             CCcccccCceeecceeEEeeCceeccccccccccCCccCC--cCeeecCCCeeeccCCCCCcccccCC
Q psy11691         95 LNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTC--INAYETHTGQFCCEVCPDEEERSLTD  160 (271)
Q Consensus        95 s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s--~~f~~~~dG~~yCk~CY~~~~~~I~~  160 (271)
                      .++|++|+++|+..+.+.++++.||++||+|..|+++|..  ..|+.. |+.+||+.||.+.|++...
T Consensus         3 ~~~C~~C~~~I~~~~~~~a~~~~wH~~CF~C~~C~~~L~~~g~~~~~~-~g~~yC~~~y~~~f~~~c~   69 (114)
T 1j2o_A            3 LLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYK-LGRKLCRRDYLRLGGSGGH   69 (114)
T ss_dssp             CBCBSSSCSCBCSSEEEECSSSEECTTTCCCSSSCSCCCCSSSCCCCB-TTBCCCHHHHHHHHTSCCS
T ss_pred             CCCCcCCCCeeCCcEEEEECchhHHHhcCcccccCCchhcCCCeeEEE-CCeeechHHHHHHhCcccC
Confidence            5789999999987778999999999999999999999985  478885 7999999999998887643

>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=99.32  E-value=5.7e-13  Score=99.48  Aligned_cols=60  Identities=17%  Similarity=0.374  Sum_probs=52.6

Q ss_pred             CCCcccccCceeecceeEEeeCceeccccccccccCCccCCcCeeecCCCeeeccCCCCCc
Q psy11691         94 KLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEE  154 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~  154 (271)
                      ++++|++|++.|+ ++.|.++++.||++||+|..|+++|..+.++..+++.+||+.||.+.
T Consensus        14 ~~~~C~~C~~~I~-~~~v~a~~~~wH~~CF~C~~C~~~L~~~~~~~~~~~~~~C~~C~~~~   73 (81)
T 1v6g_A           14 YGTRCFSCDQFIE-GEVVSALGKTYHPDCFVCAVCRLPFPPGDRVTFNGKECMCQKCSLPV   73 (81)
T ss_dssp             CCCBCTTTCCBCC-SCCEEETTEEECTTTSSCSSSCCCCCSSSCEEEETTEEEEHHHHSCC
T ss_pred             hCCcCccccCEec-cceEEECCceeCccCCccccCCCCCCCCCEEEeCCCCEEChhhhccc
Confidence            4689999999997 78899999999999999999999999888877655568999999843

>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=99.30  E-value=3.3e-13  Score=100.62  Aligned_cols=63  Identities=16%  Similarity=0.304  Sum_probs=53.3

Q ss_pred             CCCcccccCceeecceeEEeeCceeccccccccccCCccCC-cCeeecCCCeeeccCCCCCcccc
Q psy11691         94 KLNSCSLCGEKVYLAQRFAFNARLFHRTCFKCARCQSQLTC-INAYETHTGQFCCEVCPDEEERS  157 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CFrC~~C~k~L~s-~~f~~~~dG~~yCk~CY~~~~~~  157 (271)
                      ++++|++|++.|+ ++.+.++++.||++||+|..|+++|.. ..|....++.+||+.||.+.+++
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            4689999999997 778999999999999999999999975 45552247999999999876653

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

Probab=99.02  E-value=5.1e-11  Score=95.85  Aligned_cols=59  Identities=22%  Similarity=0.503  Sum_probs=51.1

Q ss_pred             cccccCceeecce-eEEeeCceeccccccccccCCccC-CcCeeecCCCeeeccCCCCCccc
Q psy11691         97 SCSLCGEKVYLAQ-RFAFNARLFHRTCFKCARCQSQLT-CINAYETHTGQFCCEVCPDEEER  156 (271)
Q Consensus        97 kCa~Cgk~V~~~E-rI~a~gk~wH~~CFrC~~C~k~L~-s~~f~~~~dG~~yCk~CY~~~~~  156 (271)
                      +|.+|+++|+..| .+.++++.||.+||+|..|+++|. +..|+.. ++.+||+.||.+.++
T Consensus        68 ~C~~C~~~I~~~e~~~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~-~~~~~C~~c~~~~~~  128 (131)
T 2xjy_A           68 LCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLI-NSDIVCEQDIYEWTK  128 (131)
T ss_dssp             ECTTTCCEECTTSEEEEETTEEEEGGGCBCTTTCCBCCTTCEEEEE-TTEEEEGGGHHHHHH
T ss_pred             ChhhcCCccCccceeEeeCCceECccCcccCCCCCCCCCCCEEEEE-CCEEEcHHHHHHHhh
Confidence            8999999998766 578999999999999999999995 4558875 799999999986543

>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=98.99  E-value=2.5e-10  Score=97.97  Aligned_cols=60  Identities=22%  Similarity=0.513  Sum_probs=51.6

Q ss_pred             cccccCceeeccee-EEeeCceeccccccccccCCccCC-cCeeecCCCeeeccCCCCCcccc
Q psy11691         97 SCSLCGEKVYLAQR-FAFNARLFHRTCFKCARCQSQLTC-INAYETHTGQFCCEVCPDEEERS  157 (271)
Q Consensus        97 kCa~Cgk~V~~~Er-I~a~gk~wH~~CFrC~~C~k~L~s-~~f~~~~dG~~yCk~CY~~~~~~  157 (271)
                      +|.+|++.|+..+. +.++++.||++||+|..|++.|.. ..|+.. ++.+||+.||.+.+.+
T Consensus        71 ~C~~C~~~I~~~e~~i~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~-~g~~yC~~c~~~~~~~  132 (188)
T 1rut_X           71 ACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYI-NGSLFCEHDRPTALIN  132 (188)
T ss_dssp             ECTTTCCEECTTSEEEEETTEEECGGGCBCTTTCCBCCTTCEEEEE-TTEEEEGGGCCTTTC-
T ss_pred             ccccCCCccccCcEEEEcCCCEEeCCCCeECCCCCCCCCCCeEEEE-CCeEECHHHHHHHhcc
Confidence            79999999987665 689999999999999999999965 457775 7999999999977653

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

Probab=98.95  E-value=2.5e-10  Score=91.39  Aligned_cols=60  Identities=22%  Similarity=0.434  Sum_probs=51.9

Q ss_pred             CCCcccccCceeecce-eEEeeCceec--cccccccccCCccCCcCeeecCCCeeeccCCCCCc
Q psy11691         94 KLNSCSLCGEKVYLAQ-RFAFNARLFH--RTCFKCARCQSQLTCINAYETHTGQFCCEVCPDEE  154 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~E-rI~a~gk~wH--~~CFrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~  154 (271)
                      ++++|++|+++|...+ .|.++++.||  .+||+|..|+++|.+..|+.. ++.+||+.+|.+.
T Consensus        62 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~~~CF~C~~C~~~l~~~~f~~~-~~~~yC~~~~~~~  124 (126)
T 2xqn_T           62 HAVVCQGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPV-EGMVFCSVECKKR  124 (126)
T ss_dssp             SCCBCTTTCSBCCTTSCEEEETTEEEESSTTTSBCTTTCCBCTTSEEEEE-TTEEESSHHHHHS
T ss_pred             cCccCcccCCcCCcCceEEECCCCEeeCCCCCcCcCCCCCccCCCeeEeE-CCEEcchHHhhhh
Confidence            4589999999997644 5899999999  999999999999998888875 7999999766543

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

Probab=98.94  E-value=1.3e-10  Score=97.97  Aligned_cols=63  Identities=19%  Similarity=0.389  Sum_probs=53.2

Q ss_pred             CCCcccccCceeeccee-EEeeCceeccccccccccCCccCCc-CeeecCCCeeeccCCCCCccc
Q psy11691         94 KLNSCSLCGEKVYLAQR-FAFNARLFHRTCFKCARCQSQLTCI-NAYETHTGQFCCEVCPDEEER  156 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~Er-I~a~gk~wH~~CFrC~~C~k~L~s~-~f~~~~dG~~yCk~CY~~~~~  156 (271)
                      ++++|.+|++.|...+. +.++++.||.+||+|..|++.|..+ .|+...|+.+||+.||.+.++
T Consensus        64 f~~~C~~C~~~I~~~~~v~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~~C~~c~~~~~~  128 (169)
T 2rgt_A           64 FGTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAKQ  128 (169)
T ss_dssp             HSCBCTTTCCBCCTTSEEEEETTEEEEGGGCBCTTTCCBCCTTCEEEECTTSCEEEHHHHHHHHH
T ss_pred             ccccccccccccCCCcEEEEcCCceEeeCCCcCCCCCCCCCCCCceEEccCCeEECHHHHHHHhh
Confidence            45899999999987775 5799999999999999999999854 465545799999999986654

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

Probab=98.92  E-value=2.1e-10  Score=97.83  Aligned_cols=61  Identities=20%  Similarity=0.387  Sum_probs=51.5

Q ss_pred             CCCcccccCceeeccee-EEeeCceeccccccccccCCccCCc-CeeecCCCeeeccCCCCCc
Q psy11691         94 KLNSCSLCGEKVYLAQR-FAFNARLFHRTCFKCARCQSQLTCI-NAYETHTGQFCCEVCPDEE  154 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~Er-I~a~gk~wH~~CFrC~~C~k~L~s~-~f~~~~dG~~yCk~CY~~~  154 (271)
                      +.++|.+|++.|...+. +.+.++.||+.||+|..|+++|..+ .|+...++++||+.||.+.
T Consensus       118 f~~kC~~C~~~I~~~~~v~~a~~~~~H~~CF~C~~C~~~L~~g~~f~~~~~g~~yC~~cy~~~  180 (182)
T 2jtn_A          118 FGTKCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETA  180 (182)
T ss_dssp             TSCCCTTTCCCCCSSCCCCEETTEECCTTTCCCTTTCCCCCTTCEEEECTTSCEECHHHHHHH
T ss_pred             cccccccCCCccCCCceEEecCCCCEEeCCCcCCCCCCCCCCCCceEEccCCEEECHHHHHHh
Confidence            56899999999987665 5799999999999999999999864 4555457999999999743

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

Probab=98.51  E-value=2.2e-08  Score=63.35  Aligned_cols=29  Identities=28%  Similarity=0.808  Sum_probs=27.8

Q ss_pred             CCcccccCceeecceeEEeeCceeccccc
Q psy11691         95 LNSCSLCGEKVYLAQRFAFNARLFHRTCF  123 (271)
Q Consensus        95 s~kCa~Cgk~V~~~ErI~a~gk~wH~~CF  123 (271)
                      +++|++|+|.||++|++.++|+.||+.||
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            57899999999999999999999999998

>3tqk_A Phospho-2-dehydro-3-deoxyheptonate aldolase; transferase; 2.30A {Francisella tularensis}

Probab=98.11  E-value=2.6e-07  Score=87.21  Aligned_cols=53  Identities=13%  Similarity=0.168  Sum_probs=45.0

Q ss_pred             CCCCCCCcccCCCCC-CccccchhcchhhhhhcccCCCCCceEEecCCccCchh
Q psy11691        184 NSDKSTNLLTDSEPS-THCDSNLVTASVESTNMERNMDNDDLNILNKCTTDDDK  236 (271)
Q Consensus       184 Fs~ks~~ll~d~~p~-~~c~~~~~~~~~e~~~~~~~~d~~~~~i~~~c~~~~~~  236 (271)
                      .++.++..|.++.|. ..-..++...|.+..+|+.|.|||+|+|+|||||||++
T Consensus        11 ~~l~~P~~l~~~~Pls~~~~~~v~~~R~~i~~Il~G~d~rllVIaGPCSied~e   64 (346)
T 3tqk_A           11 KVLIPAEVLIQDIPLLKTSFETVRKSRKEIANIIHGNDDRVAVVVGPCSIHDPA   64 (346)
T ss_dssp             CCCCCHHHHHHHSCCCHHHHHHHHHHHHHHHHHHHTSSCSEEEEEECSSCSCHH
T ss_pred             ccCCCHHHHHHhCCCCHHHHHHHHHHHHHHHHHHcCCCCCEEEEEecCccCCHH
Confidence            356677778888888 55667777888899999999999999999999999975

>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=98.10  E-value=1.4e-06  Score=66.72  Aligned_cols=36  Identities=14%  Similarity=0.469  Sum_probs=32.2

Q ss_pred             CCCcccccCceeecce-eEEeeCceeccccccccccC
Q psy11691         94 KLNSCSLCGEKVYLAQ-RFAFNARLFHRTCFKCARCQ  129 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~E-rI~a~gk~wH~~CFrC~~C~  129 (271)
                      +.++|.+|++.|..++ .|.++++.||++||+|..|+
T Consensus        65 ~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C~  101 (101)
T 2cup_A           65 DSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFSGPSSG  101 (101)
T ss_dssp             CCCBCSSSCCBCCSSSCEEESSSCEEETTTCCCTTCC
T ss_pred             cCCccccCCCccccCCeEEEeCCcchHHhCCCCCCCC
Confidence            4689999999997665 68999999999999999996

>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=97.95  E-value=9.5e-06  Score=59.95  Aligned_cols=48  Identities=10%  Similarity=-0.039  Sum_probs=39.1

Q ss_pred             CCeeeccCCCCCcccccCCCCCCCCCCC-CceeecCccccCCCCCCCCC
Q psy11691        142 TGQFCCEVCPDEEERSLTDPLRSSDRPD-GHHAIGDDRYHAELNSDKST  189 (271)
Q Consensus       142 dG~~yCk~CY~~~~~~I~~rc~~~~~~~-~~I~~gg~~YH~ecFs~ks~  189 (271)
                      +|.+||+.||.+.+.++...|+..+.++ ..+.+.+..||++||.|..+
T Consensus         1 ~g~~yC~~~y~~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C   49 (82)
T 2ehe_A            1 GSSGSSGPCYDNTFANTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRC   49 (82)
T ss_dssp             CCCCCCCCCCCCCCSCBCTTTCCBCCSSCCBCCCSSCCCBTTTSBCTTT
T ss_pred             CCceechhHhCcccCCcCccCCCccccCcEEEEeCCccccccCCeecCC
Confidence            4789999999999999888888877743 44567899999999995443

>1of8_A Phospho-2-dehydro-3-deoxyheptonate aldolase, tyrosine-inhibited; beta-alpha-barrel, lyase, synthase, synthetase; HET: PEP G3P; 1.5A {Saccharomyces cerevisiae} SCOP: c.1.10.4 PDB: 1oab_A* 1of6_A* 1hfb_A* 1ofa_A* 1ofb_A 1ofo_A 1ofp_A 1ofq_A 1ofr_A* 1og0_A*

Probab=97.87  E-value=1.3e-06  Score=83.29  Aligned_cols=55  Identities=18%  Similarity=0.203  Sum_probs=44.9

Q ss_pred             CCCCCCCCCcccCCCCC-CccccchhcchhhhhhcccCCCCCceEEecCCccCchh
Q psy11691        182 ELNSDKSTNLLTDSEPS-THCDSNLVTASVESTNMERNMDNDDLNILNKCTTDDDK  236 (271)
Q Consensus       182 ecFs~ks~~ll~d~~p~-~~c~~~~~~~~~e~~~~~~~~d~~~~~i~~~c~~~~~~  236 (271)
                      ....+.++..|..+.|. ..-..++...|++..+|+.|.|+|+|+|+|||||||++
T Consensus        27 ~~~~l~~P~~l~~~~P~~~~~~~~v~~~r~~i~~Il~g~d~rllvIaGPCSIed~e   82 (370)
T 1of8_A           27 GYDPLASPALLQVQIPATPTSLETAKRGRREAIDIITGKDDRVLVIVGPCSIHDLE   82 (370)
T ss_dssp             EEECCCCHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTTSCCSEEEEEECSCCCCHH
T ss_pred             ccccCCCHHHHHHhCCCCHHHHHHHHHHHHHHHhhhcCCCCCeEEEEeCCcCCCHH
Confidence            34566677778888888 44556777777788999999999999999999999975

>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=97.86  E-value=1.9e-05  Score=57.48  Aligned_cols=48  Identities=8%  Similarity=-0.072  Sum_probs=39.4

Q ss_pred             CeeeccCCCCCcccccCCCCCCCCCC----CCceeecCccccCCCCCCCCCC
Q psy11691        143 GQFCCEVCPDEEERSLTDPLRSSDRP----DGHHAIGDDRYHAELNSDKSTN  190 (271)
Q Consensus       143 G~~yCk~CY~~~~~~I~~rc~~~~~~----~~~I~~gg~~YH~ecFs~ks~~  190 (271)
                      +.+||+.||.+.++++...|+..+..    .+.+.+.+..||++||.|..+.
T Consensus         2 ~~~yC~~cy~~~~~~~C~~C~~~I~~~g~~~~~~~a~~~~~H~~CF~C~~C~   53 (77)
T 2egq_A            2 SSGSSGDCYKNFVAKKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCS   53 (77)
T ss_dssp             CSSCCTTCCCSCCCCCCSSSCCCCCCCSSCCCEEEETTEEEETTTCBCSSSC
T ss_pred             CCeEchhHhchhhCccCcccCCcccCCCCCceeEEECcceeCcccCEehhcC
Confidence            67999999999999888888887774    3567789999999999955443

>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=97.84  E-value=1.5e-05  Score=58.76  Aligned_cols=46  Identities=11%  Similarity=-0.115  Sum_probs=38.7

Q ss_pred             CeeeccCCCCCcccccCCCCCCCCCCCCceeecCccccCCCCCCCCC
Q psy11691        143 GQFCCEVCPDEEERSLTDPLRSSDRPDGHHAIGDDRYHAELNSDKST  189 (271)
Q Consensus       143 G~~yCk~CY~~~~~~I~~rc~~~~~~~~~I~~gg~~YH~ecFs~ks~  189 (271)
                      +.+||+.||.+++++....|...+. ++.+.+.+..||++||.|..+
T Consensus         2 ~~~yC~~~y~~~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C   47 (81)
T 1x6a_A            2 SSGSSGKDYWGKFGEFCHGCSLLMT-GPFMVAGEFKYHPECFACMSC   47 (81)
T ss_dssp             CCCCCCCCSSCCSSCBCTTTCCBCC-SCCBCCTTCCBCTTSCBCTTT
T ss_pred             CCccchhHHhhhcCCcCccCCCCcC-ceEEEECCceeccccCCccCC
Confidence            5789999999999988888887776 567788999999999995443

>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=97.80  E-value=2.7e-05  Score=57.07  Aligned_cols=46  Identities=11%  Similarity=0.034  Sum_probs=38.5

Q ss_pred             CCeeeccCCCCCcccccCCCCCCCCCCCCceeecCccccCCCCCCCC
Q psy11691        142 TGQFCCEVCPDEEERSLTDPLRSSDRPDGHHAIGDDRYHAELNSDKS  188 (271)
Q Consensus       142 dG~~yCk~CY~~~~~~I~~rc~~~~~~~~~I~~gg~~YH~ecFs~ks  188 (271)
                      +|++||+.||.+.+.+....|+..+.. +.|.+.+..||++||.|..
T Consensus         1 gg~~yC~~cy~~~~~~~C~~C~~~I~~-~~v~a~~~~~H~~CF~C~~   46 (80)
T 2cuq_A            1 GSSGSSGPCYENKFAPRCARCSKTLTQ-GGVTYRDQPWHRECLVCTG   46 (80)
T ss_dssp             CCCCSCCCCCCCCSSCCCTTTCCCCCS-CCEESSSSEECTTTCBCSS
T ss_pred             CCcEEcHHHHccccCCcCCCCCCEecC-cEEEECCchhhhhhCCccc
Confidence            478999999999998888888877764 5678899999999999543

>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=97.79  E-value=2.5e-05  Score=57.52  Aligned_cols=47  Identities=6%  Similarity=0.011  Sum_probs=39.2

Q ss_pred             CeeeccCCCCCcccccCCCCCCCCCCCC-ceeecCccccCCCCCCCCC
Q psy11691        143 GQFCCEVCPDEEERSLTDPLRSSDRPDG-HHAIGDDRYHAELNSDKST  189 (271)
Q Consensus       143 G~~yCk~CY~~~~~~I~~rc~~~~~~~~-~I~~gg~~YH~ecFs~ks~  189 (271)
                      +.+||+.||.+.+.++..+|+..+.+++ .+.+.+..||++||.|..+
T Consensus         2 ~~~yC~~cy~~~~~~~C~~C~~~I~~~~~~~~a~~~~~H~~CF~C~~C   49 (82)
T 1x63_A            2 SSGSSGKCTTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNC   49 (82)
T ss_dssp             CSCCCCCCCSCCCSCBCSSSCCBCCSSSCEEECSSCEEETTTCCCSSS
T ss_pred             CCcCchhHHccccCCcCccCCcccccCceEEEECccccccccCchhhC
Confidence            6799999999999988888888777654 4678999999999995544

>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=97.74  E-value=3.2e-05  Score=57.04  Aligned_cols=47  Identities=11%  Similarity=-0.070  Sum_probs=37.7

Q ss_pred             CCeeeccCCCCCcccccCCCCCCCCCCCCceeecCccccCCCCCCCCCC
Q psy11691        142 TGQFCCEVCPDEEERSLTDPLRSSDRPDGHHAIGDDRYHAELNSDKSTN  190 (271)
Q Consensus       142 dG~~yCk~CY~~~~~~I~~rc~~~~~~~~~I~~gg~~YH~ecFs~ks~~  190 (271)
                      ||.+||+.||. .+.++...|...+. ++.+.+.+..||++||.|..++
T Consensus         2 ~g~~yC~~~y~-~~~~~C~~C~~~I~-~~~~~a~~~~~H~~CF~C~~C~   48 (81)
T 2dlo_A            2 SSGSSGEGCYV-ATLEKCATCSQPIL-DRILRAMGKAYHPGCFTCVVCH   48 (81)
T ss_dssp             CCCCCCCCCCC-SSCCBCTTTCCBCC-SCCEEETTEEECTTTCBCSSSC
T ss_pred             cCCEECHHHhh-cCCCccccCCCeec-ceeEEECCccccHHhcCcccCC
Confidence            68999999999 67777777777666 4577889999999999965443

>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=97.74  E-value=4.1e-05  Score=56.12  Aligned_cols=48  Identities=6%  Similarity=-0.265  Sum_probs=39.0

Q ss_pred             CCeeeccCCCCCcccccCCCCCCCCCCCCceeecCccccCCCCCCCCCC
Q psy11691        142 TGQFCCEVCPDEEERSLTDPLRSSDRPDGHHAIGDDRYHAELNSDKSTN  190 (271)
Q Consensus       142 dG~~yCk~CY~~~~~~I~~rc~~~~~~~~~I~~gg~~YH~ecFs~ks~~  190 (271)
                      ++++||+.||.+.+.+....|...+.. +.|.+.+..||++||.|..+.
T Consensus         1 gg~~yC~~~y~~~~~~~C~~C~~~I~~-~~v~a~~~~~H~~CF~C~~C~   48 (80)
T 1x3h_A            1 GSSGSSGKDFLAMFSPKCGGCNRPVLE-NYLSAMDTVWHPECFVCGDCF   48 (80)
T ss_dssp             CCCCCCCCCCCCCCSCBCTTTCCBCCS-SCEEETTEEECTTTCBCSSSC
T ss_pred             CCCccchhHHhhhcCCccccCCCeecc-eeEEECCCeEecCcCChhhCC
Confidence            378999999999998888878776664 567889999999999954433

>1n8f_A DAHP synthetase; (beta/alpha)8 barrel, metal binding protein; HET: PEP; 1.75A {Escherichia coli} SCOP: c.1.10.4 PDB: 1gg1_A 1kfl_A* 1qr7_A*

Probab=97.70  E-value=3.5e-06  Score=79.80  Aligned_cols=53  Identities=13%  Similarity=0.189  Sum_probs=42.8

Q ss_pred             CCCCCCCcccCCCCC-CccccchhcchhhhhhcccCCCCCceEEecCCccCchh
Q psy11691        184 NSDKSTNLLTDSEPS-THCDSNLVTASVESTNMERNMDNDDLNILNKCTTDDDK  236 (271)
Q Consensus       184 Fs~ks~~ll~d~~p~-~~c~~~~~~~~~e~~~~~~~~d~~~~~i~~~c~~~~~~  236 (271)
                      ..+.++..|.++.|. ..-.+++...|.+..+|+.|.|+|+|+|+|||||||++
T Consensus        14 ~~l~~p~~l~~~~p~~~~~~~~v~~~r~~i~~i~~G~d~rllvIaGPCsie~~e   67 (350)
T 1n8f_A           14 KELLPPVALLQKFPATENAANTVAHARKAIHKILKGNDDRLLVVIGPCSIHDPV   67 (350)
T ss_dssp             ECCCCHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTTSCCCEEEEEECSSCCCHH
T ss_pred             ccCCCHHHHHHhCCCCHHHHHHHHHHHHhHhceeeCCCCceEEEEeCCcCCCHH
Confidence            455667777777777 44456666677788899999999999999999999997

>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=97.68  E-value=2.9e-05  Score=57.26  Aligned_cols=46  Identities=4%  Similarity=-0.216  Sum_probs=38.6

Q ss_pred             CeeeccCCCCCcccccCCCCCCCCCCCCceeecCccccCCCCCCCCC
Q psy11691        143 GQFCCEVCPDEEERSLTDPLRSSDRPDGHHAIGDDRYHAELNSDKST  189 (271)
Q Consensus       143 G~~yCk~CY~~~~~~I~~rc~~~~~~~~~I~~gg~~YH~ecFs~ks~  189 (271)
                      ..+||+.||.+.+++....|...+. ++.+.+.+..||++||.|..+
T Consensus         2 ~~~yC~~dy~~~~~~~C~~C~~~I~-~~~v~a~~~~wH~~CF~C~~C   47 (81)
T 1v6g_A            2 SSGSSGLDYQRLYGTRCFSCDQFIE-GEVVSALGKTYHPDCFVCAVC   47 (81)
T ss_dssp             CCCCCCSCGGGSCCCBCTTTCCBCC-SCCEEETTEEECTTTSSCSSS
T ss_pred             CCCcchHHHHhHhCCcCccccCEec-cceEEECCceeCccCCccccC
Confidence            4689999999999988888887766 567889999999999995443

>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=95.17  E-value=0.011  Score=46.72  Aligned_cols=57  Identities=7%  Similarity=0.058  Sum_probs=39.3

Q ss_pred             cccccCceeec--ceeEEeeCceeccccc--------cccccCCccCC-------------cCeeecCCCeeeccCCCCC
Q psy11691         97 SCSLCGEKVYL--AQRFAFNARLFHRTCF--------KCARCQSQLTC-------------INAYETHTGQFCCEVCPDE  153 (271)
Q Consensus        97 kCa~Cgk~V~~--~ErI~a~gk~wH~~CF--------rC~~C~k~L~s-------------~~f~~~~dG~~yCk~CY~~  153 (271)
                      +|..|++.+..  ...+..+|+.|...||        +|..|++.+..             ..|+.. ++.+||+.||..
T Consensus        34 ~C~~C~~~L~~~~~~~~~~~g~~yC~~cy~~~f~~~~~C~~C~~~I~~~~~~~~g~~~l~g~~f~~~-~~~~yC~~~~~~  112 (122)
T 1m3v_A           34 KCSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFGNSGAGGSGGHMGSGGDVMVVGEPTLMGGEFGDE-DERLITRLENTQ  112 (122)
T ss_dssp             CCSSSCCCTTTSEECCEEETTEEECHHHHHHHHCCCCSSSCSSCCSCCEESSSSSSSSCCSCTTCCT-TCCCCEECTTTT
T ss_pred             CcCCCCCcccccCCeEEEECCeeecHHHHHHHcCCCCccccCCCCcCchheEEcCCcCCCCCccEec-CCEeEccCcchh
Confidence            47777777731  2346677888887776        68888776653             355554 688999999885


Q ss_pred             c
Q psy11691        154 E  154 (271)
Q Consensus       154 ~  154 (271)
                      .
T Consensus       113 ~  113 (122)
T 1m3v_A          113 F  113 (122)
T ss_dssp             T
T ss_pred             c
Confidence            4

>3fs2_A 2-dehydro-3-deoxyphosphooctonate aldolase; ssgcid, bruciellla melitensis, DAHP synthetase I, cytoplasm, lipopolysaccharide biosynthesis; HET: PG4; 1.85A {Brucella melitensis}

Probab=95.07  E-value=0.0084  Score=55.58  Aligned_cols=26  Identities=12%  Similarity=0.100  Sum_probs=23.4

Q ss_pred             hhhhcccCCCCCceEEecCCccCchh
Q psy11691        211 ESTNMERNMDNDDLNILNKCTTDDDK  236 (271)
Q Consensus       211 e~~~~~~~~d~~~~~i~~~c~~~~~~  236 (271)
                      +..+|+.|.|+|+++|.|||||||.+
T Consensus        30 ~~~~i~~G~~~~l~vIaGPCsies~e   55 (298)
T 3fs2_A           30 KVGNVTFSNSAPLALIAGPCQMETRD   55 (298)
T ss_dssp             EETTEEECTTSCCEEEEECSBCCCHH
T ss_pred             EECCEEECCCCceEEEEeCCcCCCHH
Confidence            34589999999999999999999986

>3tml_A 2-dehydro-3-deoxyphosphooctonate aldolase; ssgcid, structural genomics, seattle structural genomics CEN infectious disease; 1.90A {Burkholderia cenocepacia} PDB: 3t4c_A

Probab=94.49  E-value=0.015  Score=53.66  Aligned_cols=25  Identities=16%  Similarity=0.367  Sum_probs=22.6

Q ss_pred             hhhcccCCCCCceEEecCCccCchh
Q psy11691        212 STNMERNMDNDDLNILNKCTTDDDK  236 (271)
Q Consensus       212 ~~~~~~~~d~~~~~i~~~c~~~~~~  236 (271)
                      ..+|+.|.|+|+++|.|||||||.+
T Consensus         7 ~~~i~iG~~~~~~vIaGPCsie~~~   31 (288)
T 3tml_A            7 LCDFEVGLDQPFFLIAGTCVVESEQ   31 (288)
T ss_dssp             ETTEEESTTSCCEEEEECSBCCCHH
T ss_pred             ECCEEECCCCceEEEEeCCcCCCHH
Confidence            4578999999999999999999985

>3sz8_A 2-dehydro-3-deoxyphosphooctonate aldolase 2; ssgcid, structural genomics, seattle structural genomics CEN infectious disease; 2.05A {Burkholderia pseudomallei} PDB: 3tmq_A* 3und_A*

Probab=94.32  E-value=0.011  Score=54.42  Aligned_cols=23  Identities=0%  Similarity=-0.256  Sum_probs=21.2

Q ss_pred             hcccCCCCCceEEecCCccCchh
Q psy11691        214 NMERNMDNDDLNILNKCTTDDDK  236 (271)
Q Consensus       214 ~~~~~~d~~~~~i~~~c~~~~~~  236 (271)
                      ++..|.|+++++|.|||||||.+
T Consensus        12 ~~~~G~~~~~~viaGPCsie~~e   34 (285)
T 3sz8_A           12 GVTAGNSLPFVLFGGINVLESLD   34 (285)
T ss_dssp             TEEEETTSCCEEEEEEEECCCHH
T ss_pred             CceECCCCceEEEEeCCcCCCHH
Confidence            57889999999999999999986

>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=93.29  E-value=0.088  Score=39.13  Aligned_cols=21  Identities=10%  Similarity=-0.042  Sum_probs=16.6

Q ss_pred             CceeecCccccCCCCCCCCCC
Q psy11691        170 GHHAIGDDRYHAELNSDKSTN  190 (271)
Q Consensus       170 ~~I~~gg~~YH~ecFs~ks~~  190 (271)
                      +.|.+.|..||++||.|..+.
T Consensus        38 ~~v~a~~~~~H~~CF~C~~C~   58 (90)
T 2dar_A           38 PFLVALGKSWHPEEFNCAHCK   58 (90)
T ss_dssp             CEEEETTEEECTTTCBCSSSC
T ss_pred             eEEEECCccccccCCccCCCC
Confidence            567788999999999955443

>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=93.22  E-value=0.056  Score=37.69  Aligned_cols=22  Identities=9%  Similarity=-0.071  Sum_probs=16.7

Q ss_pred             CceeecCccccCCCCCCCCCCc
Q psy11691        170 GHHAIGDDRYHAELNSDKSTNL  191 (271)
Q Consensus       170 ~~I~~gg~~YH~ecFs~ks~~l  191 (271)
                      +.+.+.|..||++||.|..+..
T Consensus        18 ~~~~a~~~~~H~~CF~C~~C~~   39 (66)
T 1nyp_A           18 RVVNAMGKQWHVEHFVCAKCEK   39 (66)
T ss_dssp             CEECCTTSBEETTTCBCTTTCC
T ss_pred             eEEEECccccccCcCEECCCCC
Confidence            4567888999999999655443

>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=93.05  E-value=0.093  Score=37.63  Aligned_cols=21  Identities=5%  Similarity=-0.134  Sum_probs=16.6

Q ss_pred             CCceeecCccccCCCCCCCCC
Q psy11691        169 DGHHAIGDDRYHAELNSDKST  189 (271)
Q Consensus       169 ~~~I~~gg~~YH~ecFs~ks~  189 (271)
                      ++.|++.+..||++||.|..+
T Consensus        22 ~~~v~a~~~~~H~~CF~C~~C   42 (76)
T 2cu8_A           22 AEKVSSLGKDWHKFCLKCERC   42 (76)
T ss_dssp             TTEEEETTEEEETTTCBCSSS
T ss_pred             CeEEEECCeEeeCCCCCCCCC
Confidence            356788899999999995443

>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=92.69  E-value=0.17  Score=36.26  Aligned_cols=21  Identities=14%  Similarity=0.159  Sum_probs=16.2

Q ss_pred             CceeecCccccCCCCCCCCCC
Q psy11691        170 GHHAIGDDRYHAELNSDKSTN  190 (271)
Q Consensus       170 ~~I~~gg~~YH~ecFs~ks~~  190 (271)
                      +.|.+.|..||++||.|..++
T Consensus        18 ~~v~a~~~~wH~~CF~C~~C~   38 (73)
T 1wig_A           18 RVLEAGEKHYHPSCALCVRCG   38 (73)
T ss_dssp             CCBCCSSCCBCTTTSCCSSSC
T ss_pred             eeEEeCCCCCCCCcCEeCCCC
Confidence            456788899999999965443

>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=92.33  E-value=0.12  Score=36.38  Aligned_cols=20  Identities=10%  Similarity=0.086  Sum_probs=15.3

Q ss_pred             CceeecCccccCCCCCCCCC
Q psy11691        170 GHHAIGDDRYHAELNSDKST  189 (271)
Q Consensus       170 ~~I~~gg~~YH~ecFs~ks~  189 (271)
                      ..+.+.|..||++||.|..+
T Consensus        20 ~~~~a~~~~~H~~CF~C~~C   39 (72)
T 1wyh_A           20 RKLEYGGQTWHEHCFLCSGC   39 (72)
T ss_dssp             CEECSTTCCEETTTCBCTTT
T ss_pred             cEEEECccccCcccCeECCC
Confidence            45567889999999995443

>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=92.30  E-value=0.14  Score=35.99  Aligned_cols=21  Identities=5%  Similarity=-0.031  Sum_probs=16.0

Q ss_pred             CceeecCccccCCCCCCCCCC
Q psy11691        170 GHHAIGDDRYHAELNSDKSTN  190 (271)
Q Consensus       170 ~~I~~gg~~YH~ecFs~ks~~  190 (271)
                      ..+.+.|..||++||.|..+.
T Consensus        20 ~~~~a~~~~~H~~CF~C~~C~   40 (72)
T 1x4k_A           20 RKMEYKGSSWHETCFICHRCQ   40 (72)
T ss_dssp             CEEEETTEEEETTTTCCSSSC
T ss_pred             eEEEECcCeecccCCcccccC
Confidence            356788999999999965443

>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=92.28  E-value=0.15  Score=35.75  Aligned_cols=20  Identities=15%  Similarity=0.169  Sum_probs=15.6

Q ss_pred             CceeecCccccCCCCCCCCC
Q psy11691        170 GHHAIGDDRYHAELNSDKST  189 (271)
Q Consensus       170 ~~I~~gg~~YH~ecFs~ks~  189 (271)
                      +.+.+.+..||++||.|..+
T Consensus        18 ~~~~a~~~~~H~~CF~C~~C   37 (70)
T 2d8z_A           18 GGVTYREQPWHKECFVCTAC   37 (70)
T ss_dssp             SEEESSSSEEETTTSBCSSS
T ss_pred             ceEEECccccCCCCCccCCC
Confidence            35678889999999995543

>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=91.88  E-value=0.17  Score=35.51  Aligned_cols=21  Identities=10%  Similarity=-0.015  Sum_probs=16.4

Q ss_pred             CceeecCccccCCCCCCCCCC
Q psy11691        170 GHHAIGDDRYHAELNSDKSTN  190 (271)
Q Consensus       170 ~~I~~gg~~YH~ecFs~ks~~  190 (271)
                      +.+.+.+..||++||.|..+.
T Consensus        18 ~~~~a~~~~~H~~CF~C~~C~   38 (70)
T 2d8x_A           18 RVIKAMNNSWHPECFRCDLCQ   38 (70)
T ss_dssp             CCEEETTEEECTTTSBCSSSC
T ss_pred             eEEEECcccccccCCEeCCCC
Confidence            456788999999999965443

>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=91.55  E-value=0.21  Score=36.30  Aligned_cols=33  Identities=18%  Similarity=0.491  Sum_probs=22.6

Q ss_pred             CeeeccCCCCCcccccCCCCCCCCCCCCceeecCccccCCCCCCCC
Q psy11691        143 GQFCCEVCPDEEERSLTDPLRSSDRPDGHHAIGDDRYHAELNSDKS  188 (271)
Q Consensus       143 G~~yCk~CY~~~~~~I~~rc~~~~~~~~~I~~gg~~YH~ecFs~ks  188 (271)
                      +...|..|..    +|.+         +.|.+.|..||++||.|..
T Consensus        14 ~~~~C~~C~~----~I~~---------~~v~a~~~~~H~~CF~C~~   46 (79)
T 2cor_A           14 GKYICQKCHA----IIDE---------QPLIFKNDPYHPDHFNCAN   46 (79)
T ss_dssp             CCCBCTTTCC----BCCS---------CCCCCSSSCCCTTTSBCSS
T ss_pred             CCCCCccCCC----Eecc---------eEEEECcceeCCCCCEeCC
Confidence            3456766666    3432         4567889999999999543

>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=91.53  E-value=0.16  Score=36.38  Aligned_cols=19  Identities=16%  Similarity=0.190  Sum_probs=15.1

Q ss_pred             CceeecCccccCCCCCCCC
Q psy11691        170 GHHAIGDDRYHAELNSDKS  188 (271)
Q Consensus       170 ~~I~~gg~~YH~ecFs~ks  188 (271)
                      +.+.+.+..||++||.|..
T Consensus        22 ~~~~a~~~~wH~~CF~C~~   40 (76)
T 1x68_A           22 KFICFQDSQWHSECFNCGK   40 (76)
T ss_dssp             CEEEETTEEEEGGGCBCTT
T ss_pred             eeEEECCcccCcccCChhh
Confidence            4567889999999999543

>2qkf_A 3-deoxy-D-manno-octulosonic acid 8- phosphate SYN; manno-octulosonate, synthase, lipopolysaccharide, KDOP, KDO8 KDO8PS; 1.75A {Neisseria meningitidis serogroup B} PDB: 3stf_A 3qpy_A 3ste_A 3qpz_A 3qq0_A 3fyo_A* 3qq1_A 3fyp_A* 3stc_A 3stg_A 1phw_A 1g7v_A* 1gg0_A 1phq_A* 1d9e_A 1pl9_A* 1q3n_A* 1x6u_A* 1x8f_A 1g7u_A*

Probab=91.46  E-value=0.058  Score=49.17  Aligned_cols=24  Identities=0%  Similarity=-0.166  Sum_probs=21.4

Q ss_pred             hcccCCCCCceEEecCCccCchhh
Q psy11691        214 NMERNMDNDDLNILNKCTTDDDKV  237 (271)
Q Consensus       214 ~~~~~~d~~~~~i~~~c~~~~~~~  237 (271)
                      +++-|.|+|+++|.||||+||.+.
T Consensus         7 ~~~iG~~~~~~vIAGpc~~~~~e~   30 (280)
T 2qkf_A            7 DITLGNNSPFVLFGGINVLESLDS   30 (280)
T ss_dssp             TEEESTTSCCEEEEEEEECCCHHH
T ss_pred             CEEECCCCceEEEEecCCCCCHHH
Confidence            577899999999999999999863

>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=91.42  E-value=0.18  Score=36.90  Aligned_cols=20  Identities=5%  Similarity=0.061  Sum_probs=15.5

Q ss_pred             CceeecCccccCCCCCCCCC
Q psy11691        170 GHHAIGDDRYHAELNSDKST  189 (271)
Q Consensus       170 ~~I~~gg~~YH~ecFs~ks~  189 (271)
                      +.+++.+..||.+||.|..+
T Consensus        29 e~v~a~~~~wH~~CF~C~~C   48 (82)
T 2co8_A           29 ERLCVNGHFFHRSCFRCHTC   48 (82)
T ss_dssp             TBCCBTTBCCBTTTCBCSSS
T ss_pred             eEEEECCCeeCCCcCEEcCC
Confidence            45677889999999995443

>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=91.07  E-value=0.23  Score=36.30  Aligned_cols=36  Identities=14%  Similarity=0.275  Sum_probs=24.5

Q ss_pred             CeeeccCCCCCcccccCCCCCCCCCCCCceeecCccccCCCCCCCCCC
Q psy11691        143 GQFCCEVCPDEEERSLTDPLRSSDRPDGHHAIGDDRYHAELNSDKSTN  190 (271)
Q Consensus       143 G~~yCk~CY~~~~~~I~~rc~~~~~~~~~I~~gg~~YH~ecFs~ks~~  190 (271)
                      +...|..|..    +|.        .++.|.+.+..||++||.|..+.
T Consensus        14 ~~~~C~~C~~----~I~--------~~~~v~a~~~~wH~~CF~C~~C~   49 (80)
T 2dj7_A           14 GPSHCAGCKE----EIK--------HGQSLLALDKQWHVSCFKCQTCS   49 (80)
T ss_dssp             SCSCCTTTCC----CCS--------SSCCEEETTEEECTTTCBCSSSC
T ss_pred             CCCCCcCcCC----eeC--------CCeEEEECCcccccccCCcCcCC
Confidence            4556777766    443        23467788999999999955443

>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=90.95  E-value=0.22  Score=34.62  Aligned_cols=17  Identities=12%  Similarity=0.069  Sum_probs=13.6

Q ss_pred             eeecCccccCCCCCCCC
Q psy11691        172 HAIGDDRYHAELNSDKS  188 (271)
Q Consensus       172 I~~gg~~YH~ecFs~ks  188 (271)
                      +.+.|..||.+||.|..
T Consensus        28 ~~~~~~~~H~~CF~C~~   44 (72)
T 3f6q_B           28 VNSNGELYHEQCFVCAQ   44 (72)
T ss_dssp             EEETTEEEETTTSSCTT
T ss_pred             EEeCcCeeCcCCCcccC
Confidence            45788999999999543

>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=90.83  E-value=0.33  Score=34.13  Aligned_cols=20  Identities=10%  Similarity=-0.046  Sum_probs=15.4

Q ss_pred             CceeecCccccCCCCCCCCC
Q psy11691        170 GHHAIGDDRYHAELNSDKST  189 (271)
Q Consensus       170 ~~I~~gg~~YH~ecFs~ks~  189 (271)
                      ..+.+.+..||++||.|..+
T Consensus        20 ~~~~a~~~~~H~~CF~C~~C   39 (72)
T 1x61_A           20 AGVVALDRVFHVGCFVCSTC   39 (72)
T ss_dssp             CCEECSSSEECTTTCBCSSS
T ss_pred             eEEEECCCeEcccCCccccc
Confidence            35678899999999995443

>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=90.83  E-value=0.27  Score=36.44  Aligned_cols=21  Identities=10%  Similarity=0.004  Sum_probs=16.3

Q ss_pred             CceeecCccccCCCCCCCCCC
Q psy11691        170 GHHAIGDDRYHAELNSDKSTN  190 (271)
Q Consensus       170 ~~I~~gg~~YH~ecFs~ks~~  190 (271)
                      +.|.+.+..||.+||.|..+.
T Consensus        29 ~~v~a~~~~~H~~CF~C~~C~   49 (91)
T 2d8y_A           29 ERLLANQQVFHISCFRCSYCN   49 (91)
T ss_dssp             SEEECSSSEEETTTCBCTTTC
T ss_pred             eeEEECCCEECCCCCeeCCCC
Confidence            456788899999999965443

>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=90.76  E-value=0.2  Score=36.29  Aligned_cols=39  Identities=23%  Similarity=0.392  Sum_probs=26.9

Q ss_pred             CeeeccCCCCCcccccCCCCCCCCCCCCceeecCccccCCCCCCCCCCcccCCCCCCccccchh
Q psy11691        143 GQFCCEVCPDEEERSLTDPLRSSDRPDGHHAIGDDRYHAELNSDKSTNLLTDSEPSTHCDSNLV  206 (271)
Q Consensus       143 G~~yCk~CY~~~~~~I~~rc~~~~~~~~~I~~gg~~YH~ecFs~ks~~ll~d~~p~~~c~~~~~  206 (271)
                      ....|..|..    +|.+         +.+.+.+..||++||.            |..|...|.
T Consensus        14 ~~~~C~~C~~----~I~~---------~~~~a~~~~~H~~CF~------------C~~C~~~L~   52 (79)
T 1x62_A           14 KLPMCDKCGT----GIVG---------VFVKLRDRHRHPECYV------------CTDCGTNLK   52 (79)
T ss_dssp             CCCCCSSSCC----CCCS---------SCEECSSCEECTTTTS------------CSSSCCCHH
T ss_pred             CCCccccCCC----CccC---------cEEEECcceeCcCcCe------------eCCCCCCCC
Confidence            3456766666    4432         3567888999999999            566666664

>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=90.67  E-value=0.13  Score=36.78  Aligned_cols=21  Identities=5%  Similarity=-0.075  Sum_probs=15.3

Q ss_pred             CceeecCccccCCCCCCCCCC
Q psy11691        170 GHHAIGDDRYHAELNSDKSTN  190 (271)
Q Consensus       170 ~~I~~gg~~YH~ecFs~ks~~  190 (271)
                      +.+.+.|..||++||.|..+.
T Consensus        14 ~~v~a~~~~~H~~CF~C~~C~   34 (76)
T 1iml_A           14 ERVTSLGKDWHRPCLKCEKCG   34 (76)
T ss_dssp             GEEEETTEEEETTTCBCTTTC
T ss_pred             eEEEECCccccCCCCCccccC
Confidence            456677889999999955443

>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=90.51  E-value=0.37  Score=33.92  Aligned_cols=20  Identities=10%  Similarity=0.137  Sum_probs=15.3

Q ss_pred             CceeecCccccCCCCCCCCC
Q psy11691        170 GHHAIGDDRYHAELNSDKST  189 (271)
Q Consensus       170 ~~I~~gg~~YH~ecFs~ks~  189 (271)
                      +.+.+.+..||++||.|..+
T Consensus        22 ~~~~a~~~~wH~~CF~C~~C   41 (72)
T 1x4l_A           22 KYISFEERQWHNDCFNCKKC   41 (72)
T ss_dssp             SCEECSSCEECTTTCBCSSS
T ss_pred             ceEEECCcccCcccCEeccC
Confidence            35567889999999995443

>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=90.23  E-value=0.31  Score=35.96  Aligned_cols=19  Identities=16%  Similarity=-0.066  Sum_probs=13.5

Q ss_pred             ceeecCccccCCCCCCCCC
Q psy11691        171 HHAIGDDRYHAELNSDKST  189 (271)
Q Consensus       171 ~I~~gg~~YH~ecFs~ks~  189 (271)
                      .+.+.+..||++||.|..+
T Consensus        39 ~~~a~~~~~H~~CF~C~~C   57 (89)
T 1x64_A           39 VVKARDKYRHPECFVCADC   57 (89)
T ss_dssp             CEESSSCEECTTTCCCSSS
T ss_pred             EEEECCceECccCCEecCC
Confidence            3456678899999995443

>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=90.22  E-value=0.26  Score=34.45  Aligned_cols=19  Identities=21%  Similarity=0.226  Sum_probs=15.4

Q ss_pred             CceeecCccccCCCCCCCC
Q psy11691        170 GHHAIGDDRYHAELNSDKS  188 (271)
Q Consensus       170 ~~I~~gg~~YH~ecFs~ks  188 (271)
                      +.|.+.+..||++||.|..
T Consensus        18 ~~~~a~~~~~H~~CF~C~~   36 (69)
T 2cur_A           18 GGITYQDQPWHADCFVCVT   36 (69)
T ss_dssp             TCEEETTEEECTTTTBCTT
T ss_pred             ceEEECccccccCcCEECC
Confidence            4577889999999999543

>1o60_A 2-dehydro-3-deoxyphosphooctonate aldolase; structural genomics, transferase; 1.80A {Haemophilus influenzae} SCOP: c.1.10.4 PDB: 3e9a_A

Probab=89.79  E-value=0.1  Score=47.97  Aligned_cols=25  Identities=8%  Similarity=0.003  Sum_probs=22.0

Q ss_pred             hhcccCCCCCceEEecCCccCchhh
Q psy11691        213 TNMERNMDNDDLNILNKCTTDDDKV  237 (271)
Q Consensus       213 ~~~~~~~d~~~~~i~~~c~~~~~~~  237 (271)
                      .+++-|.|+|+++|.|||++||.+.
T Consensus         9 ~~~~iG~~~~~~vIAGpc~~~~~e~   33 (292)
T 1o60_A            9 GNIDVANDKPFVLFGGMNVLESRDM   33 (292)
T ss_dssp             TTEEECTTSCCEEEEEEEECCCHHH
T ss_pred             CCEEECCCCceEEEEecCCccCHHH
Confidence            4678899999999999999999863

>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=89.55  E-value=0.22  Score=36.04  Aligned_cols=20  Identities=5%  Similarity=-0.152  Sum_probs=15.8

Q ss_pred             CceeecCccccCCCCCCCCC
Q psy11691        170 GHHAIGDDRYHAELNSDKST  189 (271)
Q Consensus       170 ~~I~~gg~~YH~ecFs~ks~  189 (271)
                      +.+.+.+..||++||.|..+
T Consensus        21 ~~~~a~~~~~H~~CF~C~~C   40 (81)
T 1a7i_A           21 EEVQCDGRSFHRCCFLCMVC   40 (81)
T ss_dssp             TEEEETTEEEESSSEECSSS
T ss_pred             eeEEeCCcccccccCccCCC
Confidence            46678899999999995443

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

Probab=89.38  E-value=0.36  Score=34.31  Aligned_cols=17  Identities=12%  Similarity=0.022  Sum_probs=13.8

Q ss_pred             ceeecCccccCCCCCCC
Q psy11691        171 HHAIGDDRYHAELNSDK  187 (271)
Q Consensus       171 ~I~~gg~~YH~ecFs~k  187 (271)
                      .+.+.|..||++||.|.
T Consensus        27 ~~~a~~~~~H~~CF~C~   43 (77)
T 1g47_A           27 IVNSNGELYHEQCFVCA   43 (77)
T ss_dssp             CEEETTEEECTTTCCCT
T ss_pred             EEEeCccEeccccCeEC
Confidence            34688999999999944

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

Probab=89.12  E-value=0.25  Score=34.42  Aligned_cols=21  Identities=10%  Similarity=0.009  Sum_probs=16.5

Q ss_pred             CceeecCcccc--CCCCCCCCCC
Q psy11691        170 GHHAIGDDRYH--AELNSDKSTN  190 (271)
Q Consensus       170 ~~I~~gg~~YH--~ecFs~ks~~  190 (271)
                      +.+.+.|..||  ++||.|..++
T Consensus        17 ~~v~a~~~~wH~~~~CF~C~~C~   39 (65)
T 2iyb_E           17 QRVTYNNFSWHASTECFLCSCCS   39 (65)
T ss_dssp             CEEEETTEEEETTTTTSBCTTTC
T ss_pred             eEEEECCCccCCCCCCEECCCCC
Confidence            46778899999  9999965443

>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=87.47  E-value=0.43  Score=37.89  Aligned_cols=19  Identities=16%  Similarity=-0.017  Sum_probs=14.8

Q ss_pred             ceeecCccccCCCCCCCCC
Q psy11691        171 HHAIGDDRYHAELNSDKST  189 (271)
Q Consensus       171 ~I~~gg~~YH~ecFs~ks~  189 (271)
                      .+.+.|..||++||.|..|
T Consensus        76 ~v~a~~~~wH~~CF~C~~C   94 (123)
T 2l4z_A           76 LLYAMDSYWHSRCLKCSSC   94 (123)
T ss_dssp             EEEETTEEEETTTSBCTTT
T ss_pred             EEEeCCcEEcccccCcCcC
Confidence            3677889999999995443

>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=84.25  E-value=0.6  Score=36.12  Aligned_cols=24  Identities=13%  Similarity=-0.042  Sum_probs=18.3

Q ss_pred             ceeecCccccCCCCCCCCCCcccC
Q psy11691        171 HHAIGDDRYHAELNSDKSTNLLTD  194 (271)
Q Consensus       171 ~I~~gg~~YH~ecFs~ks~~ll~d  194 (271)
                      .+.+.+..||++||.|..+....+
T Consensus        18 ~~~a~~~~wH~~CF~C~~C~~~L~   41 (114)
T 1j2o_A           18 FLKAIDQYWHEDCLSCDLCGCRLG   41 (114)
T ss_dssp             EEECSSSEECTTTCCCSSSCSCCC
T ss_pred             EEEECchhHHHhcCcccccCCchh
Confidence            466788999999999976654443

---

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	271
d2d8ya1	35	g.39.1.3 (A:9-43) Eplin, LIMA1 {Human (Homo sapien	2e-05
d1b8ta3	43	g.39.1.3 (A:101-143) Cysteine-rich (intestinal) pr	3e-05
d2co8a2	36	g.39.1.3 (A:8-43) Nedd9 interacting protein with c	3e-05
d1b8ta1	35	g.39.1.3 (A:1-35) Cysteine-rich (intestinal) prote	0.001
d1a7ia1	28	g.39.1.3 (A:8-35) Cysteine-rich (intestinal) prote	0.002

>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 = 38.2 bits (89), Expect = 2e-05
 Identities = 10/26 (38%), Positives = 15/26 (57%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCF 123
           C  C + VY  +R   N ++FH +CF
Sbjct: 10  CVECQKTVYPMERLLANQQVFHISCF 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 = 38.3 bits (89), Expect = 3e-05
 Identities = 12/42 (28%), Positives = 21/42 (50%), Gaps = 3/42 (7%)

Query: 82  PSQPPSTLPGSLKLNSCSLCGEKVYLAQRFAFNARLFHRTCF 123
            S+    + GS     C  CG+ VY A++     + +H++CF
Sbjct: 5   ASRMAQKVGGSDG---CPRCGQAVYAAEKVIGAGKSWHKSCF 43

>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 = 38.2 bits (89), Expect = 3e-05
 Identities = 13/26 (50%), Positives = 18/26 (69%)

Query: 98  CSLCGEKVYLAQRFAFNARLFHRTCF 123
           C+LCGE +Y+ +R   N   FHR+CF
Sbjct: 11  CALCGEHLYVLERLCVNGHFFHRSCF 36

>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 = 33.4 bits (76), Expect = 0.001
 Identities = 9/28 (32%), Positives = 14/28 (50%)

Query: 96  NSCSLCGEKVYLAQRFAFNARLFHRTCF 123
             C +C + VY A+        FH++CF
Sbjct: 8   KKCGVCQKAVYFAEEVQCEGSSFHKSCF 35

>d1a7ia1 g.39.1.3 (A:8-35) 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 = 33.0 bits (75), Expect = 0.002
 Identities = 13/28 (46%), Positives = 15/28 (53%)

Query: 96  NSCSLCGEKVYLAQRFAFNARLFHRTCF 123
           N C  CG  VY A+    + R FHR CF
Sbjct: 1   NKCGACGRTVYHAEEVQCDGRSFHRCCF 28

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	271
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	99.06
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.86
d1of8a_	346	3-deoxy-D-arabino-heptulosonate-7-phosphate syntha	98.68
d1n8fa_	343	3-deoxy-D-arabino-heptulosonate-7-phosphate syntha	98.61
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	98.59
d2co8a2	36	Nedd9 interacting protein with calponin homology,	98.53
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	98.48
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.37
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	98.36
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	98.26
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	98.16
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	98.08
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	98.0
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.99
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	97.99
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.89
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.86
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.81
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	97.81
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	97.75
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.74
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.66
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.62
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.55
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.48
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.44
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.39
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.33
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	97.27
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.27
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	97.19
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	97.09
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.03
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	96.89
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	96.87
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	96.78
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	96.71
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	96.68
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	96.6
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	96.58
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	96.58
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	96.5
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	96.5
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	96.45
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	96.36
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	96.3
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	96.17
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	96.11
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	96.03
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	95.94
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	95.93
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	95.91
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	95.9
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	95.68
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	95.37
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	95.13
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	95.1
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	94.81
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	94.27
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	94.1
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	93.6
d1x61a1	27	Thyroid receptor interacting protein 6, TRIP6 {Hum	92.46
d2co8a1	33	Nedd9 interacting protein with calponin homology,	92.15
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	92.07
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	91.74
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	91.58
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	90.53
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	88.74
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	88.45
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	87.79
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	87.5
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	87.12
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	86.89
d2cora1	31	Pinch (particularly interesting new Cys-His) prote	85.15
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	84.81
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	84.69
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	83.34
d1x68a2	34	Four and a half LIM domains protein 5, FHL-5 {Huma	81.96
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	81.62

>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=99.06  E-value=1.6e-11  Score=88.58  Aligned_cols=38  Identities=24%  Similarity=0.269  Sum_probs=36.1

Q ss_pred             chhhhhccCCcc-ccccccCCccccccccccCCCccCccccCCC
Q psy11691         11 KHYQRSYLGGAV-VNALDFGSGVAAARYLFHSIDLGDQLTNSNT   53 (271)
Q Consensus        11 ~~~~~~~~~~~~-~~~~g~g~~~g~~~~~~~s~d~g~~~~~~~~   53 (271)
                      ++||++||++.| |||||||+|||+     ||||+|+++++.++
T Consensus        20 e~YCk~CY~k~fGPkG~G~G~gag~-----l~~d~g~~~g~~~~   58 (65)
T d1b8ta2          20 EIYCKSCYGKKYGPKGKGKGMGAGT-----LSTDKGESLGIKYE   58 (65)
T ss_dssp             EEEEHHHHHHHHSCCCCCCCCCCCC-----CCCCCCCCCCCCCC
T ss_pred             cccchhhhccccCCCccccccccce-----eeecccccCCcCCC
Confidence            799999999999 999999999999     99999999998763

>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=98.86  E-value=7.3e-10  Score=73.99  Aligned_cols=29  Identities=31%  Similarity=0.846  Sum_probs=28.2

Q ss_pred             CCcccccCceeecceeEEeeCceeccccc
Q psy11691         95 LNSCSLCGEKVYLAQRFAFNARLFHRTCF  123 (271)
Q Consensus        95 s~kCa~Cgk~V~~~ErI~a~gk~wH~~CF  123 (271)
                      +++|..|+|.||++|++.++|+.||+.||
T Consensus        15 ~~kC~~C~k~VY~~E~~~~~g~~~Hk~CF   43 (43)
T d1b8ta3          15 SDGCPRCGQAVYAAEKVIGAGKSWHKSCF   43 (43)
T ss_dssp             CEECTTTSCEECSSSCEEETTEEECTTTC
T ss_pred             CCcCccCCCEeeHHHHhhcCCCccccCCC
Confidence            59999999999999999999999999999

>d1of8a_ c.1.10.4 (A:) 3-deoxy-D-arabino-heptulosonate-7-phosphate synthase (DAHP synthase, AroG) {Baker's yeast (Saccharomyces cerevisiae), tyrosine-regulated isozyme [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: Class I DAHP synthetase
domain: 3-deoxy-D-arabino-heptulosonate-7-phosphate synthase (DAHP synthase, AroG)
species: Baker's yeast (Saccharomyces cerevisiae), tyrosine-regulated isozyme [TaxId: 4932]

Probab=98.68  E-value=5.7e-10  Score=102.91  Aligned_cols=55  Identities=18%  Similarity=0.208  Sum_probs=44.8

Q ss_pred             CCCCCCCCcccCCCCC-CccccchhcchhhhhhcccCCCCCceEEecCCccCchhh
Q psy11691        183 LNSDKSTNLLTDSEPS-THCDSNLVTASVESTNMERNMDNDDLNILNKCTTDDDKV  237 (271)
Q Consensus       183 cFs~ks~~ll~d~~p~-~~c~~~~~~~~~e~~~~~~~~d~~~~~i~~~c~~~~~~~  237 (271)
                      .+++.++..|.++.|. ..-..++...|++..+|++|+|||+|||||||||||++-
T Consensus         6 ~~~l~~P~~l~~~~P~s~~~~~~v~~~R~~I~~Il~g~D~RlLVIvGPCSIHD~~a   61 (346)
T d1of8a_           6 YDPLASPALLQVQIPATPTSLETAKRGRREAIDIITGKDDRVLVIVGPCSIHDLEA   61 (346)
T ss_dssp             EECCCCHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTTSCCSEEEEEECSCCCCHHH
T ss_pred             CcCCCCHHHHHHHCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEcCCcCCCHHH
Confidence            3455566677777777 455577788888999999999999999999999999973

>d1n8fa_ c.1.10.4 (A:) 3-deoxy-D-arabino-heptulosonate-7-phosphate synthase (DAHP synthase, AroG) {Escherichia coli, phenylalanine-regulated isozyme [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: Class I DAHP synthetase
domain: 3-deoxy-D-arabino-heptulosonate-7-phosphate synthase (DAHP synthase, AroG)
species: Escherichia coli, phenylalanine-regulated isozyme [TaxId: 562]

Probab=98.61  E-value=1.4e-09  Score=100.33  Aligned_cols=50  Identities=14%  Similarity=0.220  Sum_probs=40.5

Q ss_pred             CCCCcccCCCCC-CccccchhcchhhhhhcccCCCCCceEEecCCccCchh
Q psy11691        187 KSTNLLTDSEPS-THCDSNLVTASVESTNMERNMDNDDLNILNKCTTDDDK  236 (271)
Q Consensus       187 ks~~ll~d~~p~-~~c~~~~~~~~~e~~~~~~~~d~~~~~i~~~c~~~~~~  236 (271)
                      .++..|.++.|. ..-..++...|.+..+|++|.|||+|||||||||||++
T Consensus        10 ~~P~~l~~~~P~s~~~~~~V~~~R~~I~~Il~g~D~RlLVVvGPCSIHD~~   60 (343)
T d1n8fa_          10 LPPVALLQKFPATENAANTVAHARKAIHKILKGNDDRLLVVIGPCSIHDPV   60 (343)
T ss_dssp             CCHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTTSCCCEEEEEECSSCCCHH
T ss_pred             CCHHHHHHHCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEcCCcCCCHH
Confidence            344555566667 44556777888899999999999999999999999995

>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=98.59  E-value=1.1e-08  Score=65.33  Aligned_cols=29  Identities=34%  Similarity=0.808  Sum_probs=28.2

Q ss_pred             CCcccccCceeecceeEEeeCceeccccc
Q psy11691         95 LNSCSLCGEKVYLAQRFAFNARLFHRTCF  123 (271)
Q Consensus        95 s~kCa~Cgk~V~~~ErI~a~gk~wH~~CF  123 (271)
                      +++|..|+|.||+.|++.++|+.||++||
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            58999999999999999999999999998

>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=98.53  E-value=9.6e-09  Score=65.96  Aligned_cols=30  Identities=43%  Similarity=1.088  Sum_probs=28.7

Q ss_pred             CCCcccccCceeecceeEEeeCceeccccc
Q psy11691         94 KLNSCSLCGEKVYLAQRFAFNARLFHRTCF  123 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CF  123 (271)
                      .+++|..|+|.||+.|++.++|+.||++||
T Consensus         7 ~~~~C~~C~K~VY~~Erl~a~g~~yHk~CF   36 (36)
T d2co8a2           7 AGDLCALCGEHLYVLERLCVNGHFFHRSCF   36 (36)
T ss_dssp             SSCBCSSSCCBCCTTTBCCBTTBCCBTTTC
T ss_pred             CCCcccccCCEEeeeeEEEecCcEeccccC
Confidence            369999999999999999999999999999

>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=98.48  E-value=2.5e-08  Score=61.31  Aligned_cols=29  Identities=24%  Similarity=0.698  Sum_probs=27.4

Q ss_pred             CCcccccCceeecceeEEeeCceeccccc
Q psy11691         95 LNSCSLCGEKVYLAQRFAFNARLFHRTCF  123 (271)
Q Consensus        95 s~kCa~Cgk~V~~~ErI~a~gk~wH~~CF  123 (271)
                      +++|++|+|.||.+|++..+|+.||+.|+
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            47899999999999999999999999985

>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=98.37  E-value=6.6e-08  Score=61.60  Aligned_cols=29  Identities=24%  Similarity=0.533  Sum_probs=27.3

Q ss_pred             CCCcccccCceeecceeEEeeCceeccccc
Q psy11691         94 KLNSCSLCGEKVYLAQRFAFNARLFHRTCF  123 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CF  123 (271)
                      ++++|++|+++| .++.|.|+|+.||++||
T Consensus         7 fapkC~~C~~~I-~g~~v~Al~~~wHpeCF   35 (35)
T d1x3ha1           7 FSPKCGGCNRPV-LENYLSAMDTVWHPECF   35 (35)
T ss_dssp             CSCBCTTTCCBC-CSSCEEETTEEECTTTC
T ss_pred             hChhhhhcCCcc-cchheeecCCccCcccC
Confidence            679999999999 68899999999999998

>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=98.36  E-value=3.8e-08  Score=60.00  Aligned_cols=29  Identities=28%  Similarity=0.808  Sum_probs=27.5

Q ss_pred             CCcccccCceeecceeEEeeCceeccccc
Q psy11691         95 LNSCSLCGEKVYLAQRFAFNARLFHRTCF  123 (271)
Q Consensus        95 s~kCa~Cgk~V~~~ErI~a~gk~wH~~CF  123 (271)
                      ++.|++|++.||+.|.+...++.||+.||
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            36799999999999999999999999998

>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=98.26  E-value=1.4e-07  Score=56.60  Aligned_cols=28  Identities=32%  Similarity=0.809  Sum_probs=26.4

Q ss_pred             CCcccccCceeecceeEEeeCceecccc
Q psy11691         95 LNSCSLCGEKVYLAQRFAFNARLFHRTC  122 (271)
Q Consensus        95 s~kCa~Cgk~V~~~ErI~a~gk~wH~~C  122 (271)
                      +++|++|++.||.+|++.-.|+.||+.|
T Consensus         1 sd~CpRC~~~VyaAEkviGaG~~WHk~C   28 (28)
T d1ibia1           1 AEKCSRCGDSVYAAEKVIGAGKPWHKNC   28 (28)
T ss_dssp             CEECTTTSSEESSSSCEESSSSEECSSC
T ss_pred             CCcCcccchhHHHHHHHhcCCCccccCC
Confidence            4689999999999999999999999988

>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=98.16  E-value=3.9e-07  Score=58.66  Aligned_cols=31  Identities=16%  Similarity=0.556  Sum_probs=28.5

Q ss_pred             cCCCcccccCceeeccee-EEeeCceeccccc
Q psy11691         93 LKLNSCSLCGEKVYLAQR-FAFNARLFHRTCF  123 (271)
Q Consensus        93 ~~s~kCa~Cgk~V~~~Er-I~a~gk~wH~~CF  123 (271)
                      .++++|.+|+++|.++++ |.+.|+.||.+||
T Consensus         6 ~~a~~C~~C~k~I~~G~k~veykg~~WHe~CF   37 (37)
T d1x63a1           6 EDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCF   37 (37)
T ss_dssp             CCSCBCSSSCCBCCSSSCEEECSSCEEETTTC
T ss_pred             ccCcccccCCCccCCCCeEeEeCCccchhccC
Confidence            367999999999998886 8999999999998

>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=98.08  E-value=6.7e-07  Score=59.64  Aligned_cols=29  Identities=14%  Similarity=0.348  Sum_probs=27.1

Q ss_pred             CCCcccccCceeecceeEEeeCceeccccc
Q psy11691         94 KLNSCSLCGEKVYLAQRFAFNARLFHRTCF  123 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CF  123 (271)
                      .++.|+.|+++| .+..|.++|+.||++||
T Consensus        17 r~P~C~~C~~pI-~g~~vtAlgk~WHPEhF   45 (45)
T d2dara2          17 RTPMCAHCNQVI-RGPFLVALGKSWHPEEF   45 (45)
T ss_dssp             CCCBBSSSCCBC-CSCEEEETTEEECTTTC
T ss_pred             CCeeccccCCcc-cCceeeecCCccCcCCC
Confidence            569999999999 78899999999999998

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

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

Probab=97.99  E-value=4.4e-07  Score=55.15  Aligned_cols=30  Identities=30%  Similarity=0.767  Sum_probs=27.6

Q ss_pred             ccccccCCccCCcCeeecCCCeeeccCCCCC
Q psy11691        123 FKCARCQSQLTCINAYETHTGQFCCEVCPDE  153 (271)
Q Consensus       123 FrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~  153 (271)
                      |||..|++.|++...... ||.+||+.||.+
T Consensus         1 frca~cgk~lestt~adk-dgeiyck~cyak   30 (31)
T d1ibia2           1 FRCAKCGKSLESTTLTEK-EGEIYCKGCYAK   30 (31)
T ss_dssp             EECSSSCCEECSSCSEEE-TTEEECHHHHHH
T ss_pred             CccccccCccccceeecc-CCcEEEeeeeec
Confidence            899999999999999885 899999999963

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

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

Probab=97.99  E-value=3.4e-07  Score=58.24  Aligned_cols=34  Identities=29%  Similarity=0.328  Sum_probs=31.4

Q ss_pred             ccccccCCccCCcCeeecCCCeeeccCCCCCcccc
Q psy11691        123 FKCARCQSQLTCINAYETHTGQFCCEVCPDEEERS  157 (271)
Q Consensus       123 FrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~  157 (271)
                      |.|..|+++|...+|++. ||++||+.||.+.++|
T Consensus         1 F~C~~C~~~f~~~~F~e~-~G~pYCe~~Y~~lFAP   34 (35)
T d1g47a2           1 FVCAQCFQQFPEGLFYEF-EGRKYCEHDFQMLFAP   34 (35)
T ss_dssp             CCCTTTCCCCGGGCSEEE-TTEEECHHHHHHHCCC
T ss_pred             CCCCCCcCCCCCCCeEEE-CCEecChHhHHhhcCC
Confidence            789999999999999996 7999999999987765

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

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

Probab=97.89  E-value=7.1e-07  Score=60.67  Aligned_cols=30  Identities=17%  Similarity=0.277  Sum_probs=27.1

Q ss_pred             CcchhhhhccCCcc-ccccccCCccccccccccCCC
Q psy11691          9 HHKHYQRSYLGGAV-VNALDFGSGVAAARYLFHSID   43 (271)
Q Consensus         9 ~~~~~~~~~~~~~~-~~~~g~g~~~g~~~~~~~s~d   43 (271)
                      .-++||++||++.| |||||||.|||+     ||+.
T Consensus        18 dg~~YCk~CY~k~fGPKG~g~G~gaG~-----l~~~   48 (49)
T d1b8ta4          18 DGEIYCKGCYAKNFGPKGFGFGQGAGA-----LIHS   48 (49)
T ss_dssp             TTEEEEHHHHHHHTCCCCCCCCCCCCC-----CCCC
T ss_pred             CCcccchhhhhhccCCCccCcccCccc-----cccc
Confidence            34799999999999 999999999999     8764

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

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

Probab=97.86  E-value=9.8e-07  Score=59.97  Aligned_cols=34  Identities=21%  Similarity=0.542  Sum_probs=31.3

Q ss_pred             cccccCCccCCcCeeecCCCeeeccCCCCCccccc
Q psy11691        124 KCARCQSQLTCINAYETHTGQFCCEVCPDEEERSL  158 (271)
Q Consensus       124 rC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I  158 (271)
                      ||..|++.|++++.+++ |+++||+.||.+.|.|.
T Consensus         1 KC~~C~k~Lds~t~~eh-dg~~YCk~CY~k~fGPK   34 (49)
T d1b8ta4           1 RCAKCGKSLESTTLADK-DGEIYCKGCYAKNFGPK   34 (49)
T ss_dssp             BCTTTCCBCCSSSEEEE-TTEEEEHHHHHHHTCCC
T ss_pred             ChhhcCCccCCCccccc-CCcccchhhhhhccCCC
Confidence            69999999999999996 89999999999998765

>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=97.81  E-value=4e-06  Score=49.75  Aligned_cols=28  Identities=46%  Similarity=1.036  Sum_probs=26.7

Q ss_pred             CcccccCceeecceeEEeeCceeccccc
Q psy11691         96 NSCSLCGEKVYLAQRFAFNARLFHRTCF  123 (271)
Q Consensus        96 ~kCa~Cgk~V~~~ErI~a~gk~wH~~CF  123 (271)
                      .+|+.|.+.||.+|.+...|++||+.||
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

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

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

Probab=97.81  E-value=1.8e-06  Score=58.21  Aligned_cols=34  Identities=26%  Similarity=0.441  Sum_probs=31.2

Q ss_pred             cccccCCccCCcCeeecCCCeeec-cCCCCCccccc
Q psy11691        124 KCARCQSQLTCINAYETHTGQFCC-EVCPDEEERSL  158 (271)
Q Consensus       124 rC~~C~k~L~s~~f~~~~dG~~yC-k~CY~~~~~~I  158 (271)
                      ||..|++.|++++..++ |+++|| ++||...|.|.
T Consensus         1 kC~~C~K~L~sg~~aeH-dg~pYC~k~CY~~~FGPk   35 (48)
T d1imla2           1 KCEKCGKTLTSGGHAEH-EGKPYCNHPCYSAMFGPK   35 (48)
T ss_dssp             BCTTTCCBCCTTTEEEE-TTEEEETTTHHHHHSSCC
T ss_pred             CchhcCcCcCCCChhhc-CCcccccccchhhccCCC
Confidence            79999999999999998 799999 88999998764

>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=97.75  E-value=4.8e-06  Score=49.28  Aligned_cols=26  Identities=27%  Similarity=0.809  Sum_probs=24.3

Q ss_pred             ccccCceeeccee-EEeeCceeccccc
Q psy11691         98 CSLCGEKVYLAQR-FAFNARLFHRTCF  123 (271)
Q Consensus        98 Ca~Cgk~V~~~Er-I~a~gk~wH~~CF  123 (271)
                      |..|.+.|+++.+ +.+.|..||..||
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            8899999999986 8899999999998

>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=97.74  E-value=5.2e-06  Score=51.70  Aligned_cols=29  Identities=31%  Similarity=0.840  Sum_probs=27.7

Q ss_pred             CCcccccCceeecceeEEeeCceeccccc
Q psy11691         95 LNSCSLCGEKVYLAQRFAFNARLFHRTCF  123 (271)
Q Consensus        95 s~kCa~Cgk~V~~~ErI~a~gk~wH~~CF  123 (271)
                      ..+|..|.|.||.+|.+...|++||+.||
T Consensus         7 g~kcg~c~ktvy~aeevqc~g~sfhk~cf   35 (35)
T d1b8ta1           7 GKKCGVCQKAVYFAEEVQCEGSSFHKSCF   35 (35)
T ss_dssp             CEECTTTCCEECSSCCEEETTEEECTTTC
T ss_pred             CceeccccceEeeeeeeeecCcccccccC
Confidence            38999999999999999999999999998

>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=97.66  E-value=5.1e-06  Score=49.09  Aligned_cols=26  Identities=38%  Similarity=0.986  Sum_probs=24.2

Q ss_pred             ccccCceeeccee-EEeeCceeccccc
Q psy11691         98 CSLCGEKVYLAQR-FAFNARLFHRTCF  123 (271)
Q Consensus        98 Ca~Cgk~V~~~Er-I~a~gk~wH~~CF  123 (271)
                      |..|.|.|+++.+ +.+.|..||..||
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            8899999999986 7899999999998

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

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

Probab=97.62  E-value=1.7e-05  Score=49.98  Aligned_cols=29  Identities=24%  Similarity=0.550  Sum_probs=27.2

Q ss_pred             CCcccccCceeecceeEEeeCceeccccc
Q psy11691         95 LNSCSLCGEKVYLAQRFAFNARLFHRTCF  123 (271)
Q Consensus        95 s~kCa~Cgk~V~~~ErI~a~gk~wH~~CF  123 (271)
                      ...|++|++.|..++.+.++++.||.+||
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            46799999999999999999999999998

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

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

Probab=97.55  E-value=1.8e-05  Score=49.85  Aligned_cols=29  Identities=17%  Similarity=0.564  Sum_probs=25.8

Q ss_pred             CCCcccccCceeecceeEEeeCceeccccc
Q psy11691         94 KLNSCSLCGEKVYLAQRFAFNARLFHRTCF  123 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CF  123 (271)
                      ++.+|..|+|.| ....|.+.+..||++||
T Consensus         7 fa~~C~~Ckk~I-t~GGvtY~dqpWHkeCF   35 (35)
T d2cuqa2           7 FAPRCARCSKTL-TQGGVTYRDQPWHRECL   35 (35)
T ss_dssp             SSCCCTTTCCCC-CSCCEESSSSEECTTTC
T ss_pred             HHHHHhhcCCcc-ccCceeecCCcchhhhC
Confidence            579999999999 45569999999999998

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

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

Probab=97.48  E-value=1e-05  Score=50.08  Aligned_cols=31  Identities=32%  Similarity=0.493  Sum_probs=27.1

Q ss_pred             cccccCCccCCcCeeecCCCeeeccC-CCCCcc
Q psy11691        124 KCARCQSQLTCINAYETHTGQFCCEV-CPDEEE  155 (271)
Q Consensus       124 rC~~C~k~L~s~~f~~~~dG~~yCk~-CY~~~~  155 (271)
                      ||..|+++|..+...++ ||++||.. ||...|
T Consensus         1 kCekC~ktL~~G~HaEH-~gkPYC~~PCY~aLF   32 (33)
T d2cu8a2           1 KCERCSKTLTPGGHAEH-DGKPFCHKPCYATLF   32 (33)
T ss_dssp             BCSSSCCBCCTTSCEEE-TTEEECTTTHHHHHS
T ss_pred             CchhcccccCCCCcccc-CCCcCcCcchHHhhc
Confidence            69999999999999998 79999965 987543

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

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

Probab=97.44  E-value=7.9e-06  Score=58.34  Aligned_cols=34  Identities=15%  Similarity=0.380  Sum_probs=30.6

Q ss_pred             cccccCCccCCcCeeecCCCeeeccCCCCCccccc
Q psy11691        124 KCARCQSQLTCINAYETHTGQFCCEVCPDEEERSL  158 (271)
Q Consensus       124 rC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~I  158 (271)
                      .|..|++.|+++++.++ ++.+||+.||.+.|.|.
T Consensus         1 ~C~~C~K~LdS~~~~eh-~~e~YCk~CY~k~fGPk   34 (65)
T d1b8ta2           1 LCMVCKKNLDSTTVAVH-GDEIYCKSCYGKKYGPK   34 (65)
T ss_dssp             BCTTTCCBCCSSSEEEE-TTEEEEHHHHHHHHSCC
T ss_pred             CchhcCCccCCCccccC-CCcccchhhhccccCCC
Confidence            38999999999999998 68999999999998764

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

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

Probab=97.39  E-value=3.6e-05  Score=48.51  Aligned_cols=28  Identities=25%  Similarity=0.734  Sum_probs=23.9

Q ss_pred             CCcccccCceeecceeEEeeCceeccccc
Q psy11691         95 LNSCSLCGEKVYLAQRFAFNARLFHRTCF  123 (271)
Q Consensus        95 s~kCa~Cgk~V~~~ErI~a~gk~wH~~CF  123 (271)
                      ..+|..|+++| ....+.|.|+.||+.||
T Consensus         8 lEkC~~C~~~I-~driLrA~Gk~yHP~CF   35 (35)
T d2dloa1           8 LEKCATCSQPI-LDRILRAMGKAYHPGCF   35 (35)
T ss_dssp             CCBCTTTCCBC-CSCCEEETTEEECTTTC
T ss_pred             HHHHHHhchHH-HHHHHHHhCCCCCCCCC
Confidence            47899999999 23347899999999998

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

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

Probab=97.33  E-value=1e-05  Score=53.19  Aligned_cols=33  Identities=18%  Similarity=0.393  Sum_probs=29.6

Q ss_pred             cccccCCccCCcCeeecCCCeeeccCCCCCcccc
Q psy11691        124 KCARCQSQLTCINAYETHTGQFCCEVCPDEEERS  157 (271)
Q Consensus       124 rC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~~  157 (271)
                      ||..|++.|..++|... +|.+||++||...|.+
T Consensus         1 rC~~C~~~Ls~~~yas~-~G~lYCkpHf~qLF~~   33 (42)
T d2d8ya2           1 RCSYCNNKLSLGTYASL-HGRIYCKPHFNQLFKS   33 (42)
T ss_dssp             BCTTTCCBCCTTTCCCS-SSCCCCHHHHHHHSCC
T ss_pred             CcCcCCCCccCCcchhh-CCEeccHHHHHHHHHh
Confidence            79999999999999997 7999999999866653

>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=97.27  E-value=1.6e-05  Score=48.66  Aligned_cols=30  Identities=17%  Similarity=0.481  Sum_probs=27.0

Q ss_pred             ccccCCccCCcCeeecCCCeeeccCCCCCcc
Q psy11691        125 CARCQSQLTCINAYETHTGQFCCEVCPDEEE  155 (271)
Q Consensus       125 C~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~  155 (271)
                      |..|++.|++.....+ ++.+||+.||.+++
T Consensus         2 C~~C~K~LdStTva~h-~~eiYCKsCygkky   31 (32)
T d1a7ia2           2 CMVCRKNLDSTTVAIH-DAEVYCKSCYGKKY   31 (32)
T ss_dssp             CSSSCCEECSSCCEEE-TTEEECSHHHHHHC
T ss_pred             chhhhhccCcceeeee-cceEEehhhccccC
Confidence            8899999999999987 69999999998764

>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=97.19  E-value=6e-05  Score=46.20  Aligned_cols=27  Identities=11%  Similarity=0.294  Sum_probs=24.2

Q ss_pred             CCCcccccCceeecceeEEeeCceeccc
Q psy11691         94 KLNSCSLCGEKVYLAQRFAFNARLFHRT  121 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~ErI~a~gk~wH~~  121 (271)
                      ..+.|+.|.++| .++.+.++|+.||.+
T Consensus         4 g~p~C~~C~~PI-~~~~vtAlgk~WHpE   30 (31)
T d1u5sb1           4 GVPICGACRRPI-EGRVVNAMGKQWHVE   30 (31)
T ss_dssp             CCCEETTTTEEC-CSCEECCTTSBEETT
T ss_pred             CCcchhhcCCch-hhhHhhhhccccCCC
Confidence            478999999999 677899999999986

>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=97.03  E-value=0.00015  Score=44.17  Aligned_cols=28  Identities=21%  Similarity=0.457  Sum_probs=23.3

Q ss_pred             CcccccCceeecceeEEeeCceeccccc
Q psy11691         96 NSCSLCGEKVYLAQRFAFNARLFHRTCF  123 (271)
Q Consensus        96 ~kCa~Cgk~V~~~ErI~a~gk~wH~~CF  123 (271)
                      ..|++|+++|...-.+.+.++.||..|.
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            4699999999544457899999999995

>d1rutx3 g.39.1.3 (X:83-113) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.89  E-value=0.0002  Score=43.94  Aligned_cols=29  Identities=24%  Similarity=0.698  Sum_probs=25.7

Q ss_pred             CCcccccCceeeccee-EEeeCceeccccc
Q psy11691         95 LNSCSLCGEKVYLAQR-FAFNARLFHRTCF  123 (271)
Q Consensus        95 s~kCa~Cgk~V~~~Er-I~a~gk~wH~~CF  123 (271)
                      +..|++|++.|.+.|. +.+.++.||..||
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            3579999999999997 5689999999998

>d1j2oa1 g.39.1.3 (A:1-30) Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Rhombotin-2 (Lmo2)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.87  E-value=0.00026  Score=43.07  Aligned_cols=27  Identities=15%  Similarity=0.344  Sum_probs=22.5

Q ss_pred             CcccccCceeecceeEEeeCceecccc
Q psy11691         96 NSCSLCGEKVYLAQRFAFNARLFHRTC  122 (271)
Q Consensus        96 ~kCa~Cgk~V~~~ErI~a~gk~wH~~C  122 (271)
                      ..|++|+++|...-.+.+.++.||..|
T Consensus         4 ~~CaGC~~~I~DRflL~a~Dr~WH~~C   30 (30)
T d1j2oa1           4 LTCGGCQQNIGDRYFLKAIDQYWHEDC   30 (30)
T ss_dssp             BCBSSSCSCBCSSEEEECSSSEECTTT
T ss_pred             cccCCCCCcchHHHHHHHHHHHHhcCC
Confidence            569999999954444789999999988

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

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

Probab=96.78  E-value=9.5e-05  Score=45.52  Aligned_cols=31  Identities=23%  Similarity=0.506  Sum_probs=27.8

Q ss_pred             ccccCCccCCcCeeecCCCeeeccCCCCCccc
Q psy11691        125 CARCQSQLTCINAYETHTGQFCCEVCPDEEER  156 (271)
Q Consensus       125 C~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~  156 (271)
                      |..|+.+|...+|... ++..||.+||+++|+
T Consensus         2 C~~C~qPIGtksfipk-~~~~yCvpCyE~kfA   32 (32)
T d1x4ka1           2 CHRCQQPIGTKSFIPK-DNQNFCVPCYEKQHA   32 (32)
T ss_dssp             CSSSCCCCCSSSEEEE-TTEEEEHHHHHHHTS
T ss_pred             cccccCcccccccccC-CCCceEeecchhhcC
Confidence            8899999999999985 799999999997753

>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=96.71  E-value=0.00032  Score=42.10  Aligned_cols=26  Identities=27%  Similarity=0.737  Sum_probs=21.5

Q ss_pred             ccccCceee---cceeEEeeCceeccccc
Q psy11691         98 CSLCGEKVY---LAQRFAFNARLFHRTCF  123 (271)
Q Consensus        98 Ca~Cgk~V~---~~ErI~a~gk~wH~~CF  123 (271)
                      |+.|.|+|-   .+..|++.++.||..||
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            889999984   12258999999999998

>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=96.68  E-value=0.00017  Score=44.54  Aligned_cols=29  Identities=21%  Similarity=0.482  Sum_probs=26.3

Q ss_pred             cccccCCccCCcCeeecCCCeeeccCCCCC
Q psy11691        124 KCARCQSQLTCINAYETHTGQFCCEVCPDE  153 (271)
Q Consensus       124 rC~~C~k~L~s~~f~~~~dG~~yCk~CY~~  153 (271)
                      .|..|.+++.++.|+++ ||++||+.+|.+
T Consensus         1 VC~~C~~PF~~~~Fy~~-~g~PyCe~HyH~   29 (32)
T d1x3ha2           1 VCGDCFTSFSTGSFFEL-DGRPFCELHYHH   29 (32)
T ss_dssp             BCSSSCCBSCSSCCEES-SSCEECHHHHHH
T ss_pred             CcCccCCcCCCCCeEeE-CCccchHHhhhh
Confidence            48999999999999998 799999998864

>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=96.60  E-value=0.00021  Score=43.64  Aligned_cols=30  Identities=27%  Similarity=0.365  Sum_probs=25.1

Q ss_pred             cccccCCccCCcCeeecCCCeeeccCCCCCcc
Q psy11691        124 KCARCQSQLTCINAYETHTGQFCCEVCPDEEE  155 (271)
Q Consensus       124 rC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~  155 (271)
                      +|..|++.|.. .|... ||.|||+.+|+.+|
T Consensus         1 kC~~C~~vL~g-EYm~k-dG~PyCe~DY~~~F   30 (31)
T d2dj7a1           1 KCQTCSVILTG-EYISK-DGVPYCESDYHAQF   30 (31)
T ss_dssp             BCSSSCCBCSS-CCEEE-TTEEECTTHHHHHT
T ss_pred             CccccCccccc-eeecC-CCCcccHHHHHHhc
Confidence            69999999977 57664 89999999998654

>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=96.58  E-value=0.00096  Score=41.73  Aligned_cols=35  Identities=11%  Similarity=0.077  Sum_probs=27.2

Q ss_pred             CCCCCcccccCCCCCCCCCCCCceeecCccccCCCC
Q psy11691        149 VCPDEEERSLTDPLRSSDRPDGHHAIGDDRYHAELN  184 (271)
Q Consensus       149 ~CY~~~~~~I~~rc~~~~~~~~~I~~gg~~YH~ecF  184 (271)
                      +||+++|++.+..|+..+..+ -|++.+++||.+||
T Consensus         1 PCyE~kfa~~C~~Ckk~It~G-GvtY~dqpWHkeCF   35 (35)
T d2cuqa2           1 PCYENKFAPRCARCSKTLTQG-GVTYRDQPWHRECL   35 (35)
T ss_dssp             CCCCCCSSCCCTTTCCCCCSC-CEESSSSEECTTTC
T ss_pred             CchHHHHHHHHhhcCCccccC-ceeecCCcchhhhC
Confidence            589999988877776655543 56788889999998

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

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

Probab=96.58  E-value=0.00015  Score=44.54  Aligned_cols=30  Identities=20%  Similarity=0.505  Sum_probs=27.2

Q ss_pred             ccccCCccCCcCeeecCCCeeeccCCCCCcc
Q psy11691        125 CARCQSQLTCINAYETHTGQFCCEVCPDEEE  155 (271)
Q Consensus       125 C~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~  155 (271)
                      |..|++++.+.+|... ++.+||.+||+++|
T Consensus         2 C~~C~qPIGtkSFip~-~~~~yCvpCYE~kf   31 (32)
T d1wyha1           2 CSGCEQPLGSRSFVPD-KGAHYCVPCYENKF   31 (32)
T ss_dssp             CTTTCCBTTTSCEEEE-TTEEEEHHHHHHHT
T ss_pred             cccccCcccccccccC-CCcEEEEecccccc
Confidence            8899999999999985 79999999999765

>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=96.50  E-value=0.00017  Score=44.53  Aligned_cols=31  Identities=19%  Similarity=0.281  Sum_probs=27.0

Q ss_pred             cccccCCccCCcCeeecCCCeeeccCCCCCcc
Q psy11691        124 KCARCQSQLTCINAYETHTGQFCCEVCPDEEE  155 (271)
Q Consensus       124 rC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~  155 (271)
                      .|..|.++|.+..|... |+++||-.||+..|
T Consensus         1 ~C~~C~~~L~GQry~~r-d~~PyC~~Cf~~lf   31 (32)
T d2d8za2           1 VCTACRKQLSGQRFTAR-DDFAYCLNCFCDLY   31 (32)
T ss_dssp             BCSSSCCBCTTSCCEES-SSSEECHHHHHHHT
T ss_pred             CcccCCccccCceeeec-CCCeehHHhhHhhc
Confidence            38899999999998884 89999999998654

>d1v6ga1 g.39.1.3 (A:1-41) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Actin-binding LIM protein 2, abLIM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.50  E-value=0.00061  Score=44.20  Aligned_cols=28  Identities=14%  Similarity=0.363  Sum_probs=25.8

Q ss_pred             CCCcccccCceeecceeEEeeCceecccc
Q psy11691         94 KLNSCSLCGEKVYLAQRFAFNARLFHRTC  122 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~ErI~a~gk~wH~~C  122 (271)
                      +..+|..|++.| .++.|.+.++.||++|
T Consensus        14 fG~~C~~C~~~I-tG~V~~Ag~~~yHP~C   41 (41)
T d1v6ga1          14 YGTRCFSCDQFI-EGEVVSALGKTYHPDC   41 (41)
T ss_dssp             CCCBCTTTCCBC-CSCCEEETTEEECTTT
T ss_pred             hCcccccccCEe-eeeeeEecCcccCCCC
Confidence            458899999999 7999999999999998

>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=96.45  E-value=0.0016  Score=42.65  Aligned_cols=30  Identities=20%  Similarity=0.574  Sum_probs=26.7

Q ss_pred             cCCCcccccCceeecceeEEeeCceeccccc
Q psy11691         93 LKLNSCSLCGEKVYLAQRFAFNARLFHRTCF  123 (271)
Q Consensus        93 ~~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CF  123 (271)
                      ..-+.|.+|+--| .+-.+.+.++.+|++||
T Consensus        16 QkLP~CdkCg~GI-VG~~VK~rDK~rHPeCf   45 (45)
T d1x64a1          16 QRMPLCDKCGSGI-VGAVVKARDKYRHPECF   45 (45)
T ss_dssp             CSCCBCTTTCCBC-CSCCEESSSCEECTTTC
T ss_pred             ccCccccccCCCc-EEEEEEeccccCCCCCC
Confidence            3458899999998 58889999999999998

>d1x68a1 g.39.1.3 (A:8-36) Four and a half LIM domains protein 5, FHL-5 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Four and a half LIM domains protein 5, FHL-5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.36  E-value=0.00074  Score=40.39  Aligned_cols=26  Identities=27%  Similarity=0.695  Sum_probs=21.3

Q ss_pred             ccccCceeec---ceeEEeeCceeccccc
Q psy11691         98 CSLCGEKVYL---AQRFAFNARLFHRTCF  123 (271)
Q Consensus        98 Ca~Cgk~V~~---~ErI~a~gk~wH~~CF  123 (271)
                      |..|.|+|.-   +..|.+.++.||.+||
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            7889999841   2258999999999998

>d2cuqa1 g.39.1.3 (A:43-74) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=96.30  E-value=0.00027  Score=43.30  Aligned_cols=31  Identities=23%  Similarity=0.349  Sum_probs=27.1

Q ss_pred             cccccCCccCCcCeeecCCCeeeccCCCCCcc
Q psy11691        124 KCARCQSQLTCINAYETHTGQFCCEVCPDEEE  155 (271)
Q Consensus       124 rC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~  155 (271)
                      .|..|+++|.+..|... |..+||-.||.+.|
T Consensus         1 vCt~Ck~~LaGqrFTSr-de~pYC~~Cfg~Lf   31 (32)
T d2cuqa1           1 VCTGCQTPLAGQQFTSR-DEDPYCVACFGELF   31 (32)
T ss_dssp             BCSSSCCBCTTCCEEEC-SSSEEEHHHHHHHT
T ss_pred             CccccCccccCCccccC-CCCccHHHHhHhhc
Confidence            48999999999999885 78999999998654

>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=96.17  E-value=0.0011  Score=38.83  Aligned_cols=26  Identities=27%  Similarity=0.755  Sum_probs=21.6

Q ss_pred             ccccCceeecce-eEEeeCceeccccc
Q psy11691         98 CSLCGEKVYLAQ-RFAFNARLFHRTCF  123 (271)
Q Consensus        98 Ca~Cgk~V~~~E-rI~a~gk~wH~~CF  123 (271)
                      |.-|.|+|-... .+...++.||..||
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            788999995433 37889999999998

>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=96.11  E-value=0.0021  Score=40.13  Aligned_cols=33  Identities=9%  Similarity=-0.156  Sum_probs=22.5

Q ss_pred             CCCcccccCCCCCCCCCCCCceeecCccccCCCC
Q psy11691        151 PDEEERSLTDPLRSSDRPDGHHAIGDDRYHAELN  184 (271)
Q Consensus       151 Y~~~~~~I~~rc~~~~~~~~~I~~gg~~YH~ecF  184 (271)
                      |.+.|++++..|...+. ++.|.+.|..||++||
T Consensus         3 Y~~~fapkC~~C~~~I~-g~~v~Al~~~wHpeCF   35 (35)
T d1x3ha1           3 FLAMFSPKCGGCNRPVL-ENYLSAMDTVWHPECF   35 (35)
T ss_dssp             CCCCCSCBCTTTCCBCC-SSCEEETTEEECTTTC
T ss_pred             HHHHhChhhhhcCCccc-chheeecCCccCcccC
Confidence            55555555554544443 3578899999999998

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

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

Probab=96.03  E-value=0.00054  Score=42.52  Aligned_cols=33  Identities=27%  Similarity=0.520  Sum_probs=29.1

Q ss_pred             ccccccCCccCCcCeeecCCCeeeccCCCCCccc
Q psy11691        123 FKCARCQSQLTCINAYETHTGQFCCEVCPDEEER  156 (271)
Q Consensus       123 FrC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~~  156 (271)
                      |.|.+|.+++-+...++. .|..||+.+|...|.
T Consensus         1 FvCA~CekPF~G~rhyE~-~g~ayCe~Hy~qLfg   33 (35)
T d1u5sb2           1 FVCAKCEKPFLGHRHYER-KGLAYCETHYNQLFG   33 (35)
T ss_dssp             CBCTTTCCBCSSSCCEEE-TTEEECHHHHHHHCS
T ss_pred             CcccccCCccCCchhhhh-cCchHHHHHHHHHhc
Confidence            899999999999899996 699999999986554

>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=95.94  E-value=0.0013  Score=39.90  Aligned_cols=30  Identities=17%  Similarity=0.488  Sum_probs=25.8

Q ss_pred             CcCCCcccccCceeecceeEEeeCceecccc
Q psy11691         92 SLKLNSCSLCGEKVYLAQRFAFNARLFHRTC  122 (271)
Q Consensus        92 ~~~s~kCa~Cgk~V~~~ErI~a~gk~wH~~C  122 (271)
                      ++.+..|..|.++| .+..+.+.++.||+.|
T Consensus         2 ssgssgC~~C~~~I-tGkVLEAG~khYHP~C   31 (32)
T d1wiga1           2 SSGSSGCDSCEKYI-TGRVLEAGEKHYHPSC   31 (32)
T ss_dssp             CCSCCSCSSSCCCC-SSCCBCCSSCCBCTTT
T ss_pred             CCccchhhhhhhhh-hhhhhhccccccCCCC
Confidence            34467899999999 6778899999999998

>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=95.93  E-value=0.00058  Score=41.87  Aligned_cols=29  Identities=31%  Similarity=0.854  Sum_probs=26.2

Q ss_pred             cccccCCccCCcCeeecCCCeeeccCCCCC
Q psy11691        124 KCARCQSQLTCINAYETHTGQFCCEVCPDE  153 (271)
Q Consensus       124 rC~~C~k~L~s~~f~~~~dG~~yCk~CY~~  153 (271)
                      .|..|+.+|....|.+ +.|..||+.||++
T Consensus         1 nCa~C~~sL~d~gFVE-E~g~lYCe~Cye~   29 (32)
T d2dara1           1 NCAHCKNTMAYIGFVE-EKGALYCELCYEK   29 (32)
T ss_dssp             BCSSSCCBCSSSCBEE-SSSCEECHHHHHH
T ss_pred             CcccccccHhhcceee-ecCcEeHHHHHHH
Confidence            3899999999999999 5799999999984

>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=95.91  E-value=0.00079  Score=40.79  Aligned_cols=28  Identities=21%  Similarity=0.509  Sum_probs=25.2

Q ss_pred             cccccCCccCCcCeeecCCCeeeccCCCC
Q psy11691        124 KCARCQSQLTCINAYETHTGQFCCEVCPD  152 (271)
Q Consensus       124 rC~~C~k~L~s~~f~~~~dG~~yCk~CY~  152 (271)
                      .|..|+++|.+..|... +..+||-.||.
T Consensus         1 vC~~C~K~Lag~rFTa~-eDq~yCVdCYK   28 (31)
T d2cura1           1 VCVTCSKKLAGQRFTAV-EDQYYCVDCYK   28 (31)
T ss_dssp             BCTTTCCBCTTSCEEEC-SSCEEEHHHHH
T ss_pred             CcccccchhcCceeEEe-cceEEEeeeec
Confidence            48999999999999997 57899999986

>d2cora2 g.39.1.3 (A:8-42) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=95.90  E-value=0.0022  Score=39.90  Aligned_cols=30  Identities=20%  Similarity=0.545  Sum_probs=23.4

Q ss_pred             CCeeeccCCCCCcccccCCCCCCCCCCCCceeecCccccCCCC
Q psy11691        142 TGQFCCEVCPDEEERSLTDPLRSSDRPDGHHAIGDDRYHAELN  184 (271)
Q Consensus       142 dG~~yCk~CY~~~~~~I~~rc~~~~~~~~~I~~gg~~YH~ecF  184 (271)
                      -|+..|..|+.    .|.+         +.+++.|++||+++|
T Consensus         6 lGk~vC~KCh~----iIdd---------~pL~Fr~d~YHp~HF   35 (35)
T d2cora2           6 LGKYICQKCHA----IIDE---------QPLIFKNDPYHPDHF   35 (35)
T ss_dssp             CCCCBCTTTCC----BCCS---------CCCCCSSSCCCTTTS
T ss_pred             hhhHHHHHHHh----hhhc---------CcceecCCCCCCCCC
Confidence            36778888877    3332         688999999999997

>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=95.68  E-value=0.0041  Score=38.50  Aligned_cols=29  Identities=28%  Similarity=0.636  Sum_probs=26.0

Q ss_pred             CCCcccccCceeecceeEEeeCceeccccc
Q psy11691         94 KLNSCSLCGEKVYLAQRFAFNARLFHRTCF  123 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~ErI~a~gk~wH~~CF  123 (271)
                      .-+.|.+|+..| .+-.+.+.++.+|++||
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            457899999998 58889999999999998

>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=95.37  E-value=0.0011  Score=44.20  Aligned_cols=24  Identities=13%  Similarity=0.189  Sum_probs=20.8

Q ss_pred             cchhh-hhccCCcc-ccccccCCcccc
Q psy11691         10 HKHYQ-RSYLGGAV-VNALDFGSGVAA   34 (271)
Q Consensus        10 ~~~~~-~~~~~~~~-~~~~g~g~~~g~   34 (271)
                      -+.|| +.||++.| |+|||+|| +|.
T Consensus        19 g~pYC~k~CY~~~FGPkG~g~Gg-~gs   44 (48)
T d1imla2          19 GKPYCNHPCYSAMFGPKGFGRGG-AES   44 (48)
T ss_dssp             TEEEETTTHHHHHSSCCCSSCCC-SSS
T ss_pred             CcccccccchhhccCCCccccCC-ccc
Confidence            36899 99999999 99999994 555

>d1x61a2 g.39.1.3 (A:35-66) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=95.13  E-value=0.0023  Score=38.84  Aligned_cols=28  Identities=29%  Similarity=0.584  Sum_probs=25.3

Q ss_pred             cccccCCccCCcCeeecCCCeeeccCCCC
Q psy11691        124 KCARCQSQLTCINAYETHTGQFCCEVCPD  152 (271)
Q Consensus       124 rC~~C~k~L~s~~f~~~~dG~~yCk~CY~  152 (271)
                      .|..|+..|.+..|+.. +.+.||++||-
T Consensus         1 vC~tC~~kLRGqpFYAv-ekkayCE~CYi   28 (32)
T d1x61a2           1 VCSTCRAQLRGQHFYAV-ERRAYCEGCYV   28 (32)
T ss_dssp             BCSSSCCBCTTSCEEES-SSCEEEHHHHH
T ss_pred             CeeEeCceecCCcceEe-eccccccceee
Confidence            48899999999999997 69999999985

>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=95.10  E-value=0.0078  Score=37.52  Aligned_cols=15  Identities=13%  Similarity=-0.026  Sum_probs=12.9

Q ss_pred             CceeecCccccCCCC
Q psy11691        170 GHHAIGDDRYHAELN  184 (271)
Q Consensus       170 ~~I~~gg~~YH~ecF  184 (271)
                      ..+++.|++|||+||
T Consensus        21 riLrA~Gk~yHP~CF   35 (35)
T d2dloa1          21 RILRAMGKAYHPGCF   35 (35)
T ss_dssp             CCEEETTEEECTTTC
T ss_pred             HHHHHhCCCCCCCCC
Confidence            456789999999998

>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=94.81  E-value=0.0021  Score=39.68  Aligned_cols=32  Identities=22%  Similarity=0.238  Sum_probs=27.7

Q ss_pred             cccccCCccCCcCeeecCCCeeeccCCCCCcc
Q psy11691        124 KCARCQSQLTCINAYETHTGQFCCEVCPDEEE  155 (271)
Q Consensus       124 rC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~  155 (271)
                      .|..|++.|++..|....++++||-.+|.++|
T Consensus         1 tCvvC~~~LDGvPFtvD~~n~i~Cv~DyHrkf   32 (33)
T d2dloa2           1 TCVVCHRGLDGIPFTVDATSQIHCIEDFHRKF   32 (33)
T ss_dssp             BCSSSCCBCTTSCEECCTTCCCEEHHHHHHHT
T ss_pred             CeeEcCcccCCCcEEEcCCCCEeehhhhhhhc
Confidence            48999999999999876679999999887654

>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=94.27  E-value=0.017  Score=36.43  Aligned_cols=36  Identities=8%  Similarity=0.063  Sum_probs=26.4

Q ss_pred             CCCCCcccccCCCCCCCCCCC-CceeecCccccCCCC
Q psy11691        149 VCPDEEERSLTDPLRSSDRPD-GHHAIGDDRYHAELN  184 (271)
Q Consensus       149 ~CY~~~~~~I~~rc~~~~~~~-~~I~~gg~~YH~ecF  184 (271)
                      .||.+.++..+..|...+.+| +.+.+.|..||.+||
T Consensus         1 kCy~~~~a~~C~~C~k~I~~G~k~veykg~~WHe~CF   37 (37)
T d1x63a1           1 KCTTREDSPKCKGCFKAIVAGDQNVEYKGTVWHKDCF   37 (37)
T ss_dssp             CCCSCCCSCBCSSSCCBCCSSSCEEECSSCEEETTTC
T ss_pred             CccccccCcccccCCCccCCCCeEeEeCCccchhccC
Confidence            367777776666666666665 456799999999998

>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=94.10  E-value=0.004  Score=37.41  Aligned_cols=31  Identities=16%  Similarity=0.539  Sum_probs=26.5

Q ss_pred             cccccCCccCCcCeeecCCCeeeccCCCCCcc
Q psy11691        124 KCARCQSQLTCINAYETHTGQFCCEVCPDEEE  155 (271)
Q Consensus       124 rC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~~  155 (271)
                      .|+.|++.+.+++|+.. ...+||..|++.+|
T Consensus         1 tcs~ckq~igsgsffpk-g~d~ycvtche~kf   31 (32)
T d1x63a2           1 TCSNCKQVIGTGSFFPK-GEDFYCVTCHETKF   31 (32)
T ss_dssp             CCSSSCCCCTTSCEEEE-TTEEEEHHHHHHHT
T ss_pred             CcchhhhhcccccccCC-CCcEEEEEeecccc
Confidence            48999999999999986 57899999987544

>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=93.60  E-value=0.019  Score=37.58  Aligned_cols=30  Identities=13%  Similarity=0.190  Sum_probs=24.1

Q ss_pred             CCeeeccCCCCCcccccCCCCCCCCCCCCceeecCccccCCCC
Q psy11691        142 TGQFCCEVCPDEEERSLTDPLRSSDRPDGHHAIGDDRYHAELN  184 (271)
Q Consensus       142 dG~~yCk~CY~~~~~~I~~rc~~~~~~~~~I~~gg~~YH~ecF  184 (271)
                      ...+.|..|..    +|.+         ..|++.|..||+|||
T Consensus        16 ~r~P~C~~C~~----pI~g---------~~vtAlgk~WHPEhF   45 (45)
T d2dara2          16 KRTPMCAHCNQ----VIRG---------PFLVALGKSWHPEEF   45 (45)
T ss_dssp             TCCCBBSSSCC----BCCS---------CEEEETTEEECTTTC
T ss_pred             CCCeeccccCC----cccC---------ceeeecCCccCcCCC
Confidence            35688888877    7765         467899999999998

>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=92.46  E-value=0.029  Score=32.22  Aligned_cols=26  Identities=38%  Similarity=0.728  Sum_probs=21.2

Q ss_pred             ccccCceee-cceeEEeeCceeccccc
Q psy11691         98 CSLCGEKVY-LAQRFAFNARLFHRTCF  123 (271)
Q Consensus        98 Ca~Cgk~V~-~~ErI~a~gk~wH~~CF  123 (271)
                      |.+|++-|. .+..+.++++.||..||
T Consensus         1 cggcgedvvgdgagvvaldrvfhvgcf   27 (27)
T d1x61a1           1 CGGCGEDVVGDGAGVVALDRVFHVGCF   27 (27)
T ss_dssp             CSSSCSCCCSSSCCEECSSSEECTTTC
T ss_pred             CCCcccccccCCcceEEEeeeEEeccC
Confidence            889998773 33358899999999998

>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=92.15  E-value=0.053  Score=32.88  Aligned_cols=29  Identities=21%  Similarity=0.382  Sum_probs=25.0

Q ss_pred             cccccCCccCCcCeeec-CCCeeeccCCCC
Q psy11691        124 KCARCQSQLTCINAYET-HTGQFCCEVCPD  152 (271)
Q Consensus       124 rC~~C~k~L~s~~f~~~-~dG~~yCk~CY~  152 (271)
                      ||..|..+|..+.|..+ +||.+||..+..
T Consensus         1 rC~~CeatL~pG~Y~qhp~dghfyc~~hlp   30 (33)
T d2co8a1           1 RCHTCEATLWPGGYEQHPGDGHFYCLQHLP   30 (33)
T ss_dssp             BCSSSCCBCCTTSEECCTTTCCCEETTTCC
T ss_pred             CceeeeeEEccCcccCCCCCceEeeeeccC
Confidence            69999999999999765 589999988765

>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=92.07  E-value=0.011  Score=35.80  Aligned_cols=30  Identities=30%  Similarity=0.695  Sum_probs=26.5

Q ss_pred             cccccCCccCCcCeeecCCCeeeccCCCCCc
Q psy11691        124 KCARCQSQLTCINAYETHTGQFCCEVCPDEE  154 (271)
Q Consensus       124 rC~~C~k~L~s~~f~~~~dG~~yCk~CY~~~  154 (271)
                      ||..|+..|....|... -|+.+|.+|+.++
T Consensus         1 rC~~C~~~LAD~GFvKn-agR~LCrpch~re   30 (32)
T d2d8xa1           1 RCDLCQEVLADIGFVKN-AGRHLCRPCHNRE   30 (32)
T ss_dssp             BCSSSCCBCSSSCCEEE-TTEEECHHHHHHH
T ss_pred             CchHHHhHHHHhhhhhc-ccccccchhhhhc
Confidence            79999999999999885 6999999998754

>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=91.74  E-value=0.027  Score=33.72  Aligned_cols=28  Identities=21%  Similarity=0.593  Sum_probs=24.6

Q ss_pred             cccccCCccCCcCeeecCCCeeeccCCCC
Q psy11691        124 KCARCQSQLTCINAYETHTGQFCCEVCPD  152 (271)
Q Consensus       124 rC~~C~k~L~s~~f~~~~dG~~yCk~CY~  152 (271)
                      ||.+|-.+|..+.|... |+++.|..|-.
T Consensus         1 RCaKC~hpLA~E~F~aK-d~kI~C~Kc~s   28 (31)
T d2cupa2           1 RCAKCLHPLANETFVAK-DNKILCNKCTT   28 (31)
T ss_dssp             CCSSSCCCTTSSCCEEE-TTEEECHHHHT
T ss_pred             CchhhccccccCccccc-CCeEeeccccc
Confidence            79999999999999986 79999987754

>d1g47a1 g.39.1.3 (A:1-35) Pinch (particularly interesting new Cys-His) protein {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=91.58  E-value=0.049  Score=33.59  Aligned_cols=28  Identities=25%  Similarity=0.574  Sum_probs=24.3

Q ss_pred             CCcccccCceeeccee-EEeeCceecccc
Q psy11691         95 LNSCSLCGEKVYLAQR-FAFNARLFHRTC  122 (271)
Q Consensus        95 s~kCa~Cgk~V~~~Er-I~a~gk~wH~~C  122 (271)
                      .-.|.+|+....+.|+ |...|.+||..|
T Consensus         7 ~~~C~RC~~gF~p~EkiVNSnGEl~H~qC   35 (35)
T d1g47a1           7 SATCERCKGGFAPAEKIVNSNGELYHEQC   35 (35)
T ss_dssp             CCBCSSSCCBCCSTTTCEEETTEEECTTT
T ss_pred             HHHHHHHccCCCchHHhhcCCCccccccC
Confidence            4679999999988887 568899999988

>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=90.53  E-value=0.055  Score=34.47  Aligned_cols=28  Identities=18%  Similarity=0.516  Sum_probs=22.5

Q ss_pred             cccccCceeecceeE-EeeCceecccccc
Q psy11691         97 SCSLCGEKVYLAQRF-AFNARLFHRTCFK  124 (271)
Q Consensus        97 kCa~Cgk~V~~~ErI-~a~gk~wH~~CFr  124 (271)
                      .|.+|++..-.+|.+ .-.+..||+.|-.
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            499999999888864 5567899998853

>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=88.74  E-value=0.13  Score=32.91  Aligned_cols=32  Identities=6%  Similarity=-0.157  Sum_probs=20.0

Q ss_pred             CCCcccccCCCCCCCCCCCCceeecCccccCCC
Q psy11691        151 PDEEERSLTDPLRSSDRPDGHHAIGDDRYHAEL  183 (271)
Q Consensus       151 Y~~~~~~I~~rc~~~~~~~~~I~~gg~~YH~ec  183 (271)
                      |.++|...+..|...+ .++.+.+++..|||+|
T Consensus        10 Yq~~fG~~C~~C~~~I-tG~V~~Ag~~~yHP~C   41 (41)
T d1v6ga1          10 YQRLYGTRCFSCDQFI-EGEVVSALGKTYHPDC   41 (41)
T ss_dssp             GGGSCCCBCTTTCCBC-CSCCEEETTEEECTTT
T ss_pred             HHHHhCcccccccCEe-eeeeeEecCcccCCCC
Confidence            4444444443344434 3567789999999987

>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=88.45  E-value=0.086  Score=31.77  Aligned_cols=28  Identities=18%  Similarity=0.345  Sum_probs=21.8

Q ss_pred             CeeeccCCCCCcccccCCCCCCCCCCCCceeecCccccCCC
Q psy11691        143 GQFCCEVCPDEEERSLTDPLRSSDRPDGHHAIGDDRYHAEL  183 (271)
Q Consensus       143 G~~yCk~CY~~~~~~I~~rc~~~~~~~~~I~~gg~~YH~ec  183 (271)
                      +.+.|-.|..    ||.+         +.|.+.|+.||+||
T Consensus         4 g~p~C~~C~~----PI~~---------~~vtAlgk~WHpEH   31 (31)
T d1u5sb1           4 GVPICGACRR----PIEG---------RVVNAMGKQWHVEH   31 (31)
T ss_dssp             CCCEETTTTE----ECCS---------CEECCTTSBEETTT
T ss_pred             CCcchhhcCC----chhh---------hHhhhhccccCCCC
Confidence            5567877777    7776         46778999999986

>d1x6aa1 g.39.1.3 (A:8-41) Lim domain kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Lim domain kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.79  E-value=0.094  Score=32.11  Aligned_cols=28  Identities=14%  Similarity=0.214  Sum_probs=23.5

Q ss_pred             CCCcccccCceeecceeEEeeCceecccc
Q psy11691         94 KLNSCSLCGEKVYLAQRFAFNARLFHRTC  122 (271)
Q Consensus        94 ~s~kCa~Cgk~V~~~ErI~a~gk~wH~~C  122 (271)
                      +...|..|.+.| .+-.+.+....||++|
T Consensus         7 fge~C~~C~~~i-tGpvMvAG~~K~HPEC   34 (34)
T d1x6aa1           7 FGEFCHGCSLLM-TGPFMVAGEFKYHPEC   34 (34)
T ss_dssp             SSCBCTTTCCBC-CSCCBCCTTCCBCTTS
T ss_pred             HHHHhhhhHhhc-ccceeeecccccCCCC
Confidence            568899999976 4667778889999998

>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=85.15  E-value=0.11  Score=31.02  Aligned_cols=28  Identities=36%  Similarity=0.774  Sum_probs=22.3

Q ss_pred             cccccCCccCCcCeeecCCCeeeccCCCCC
Q psy11691        124 KCARCQSQLTCINAYETHTGQFCCEVCPDE  153 (271)
Q Consensus       124 rC~~C~k~L~s~~f~~~~dG~~yCk~CY~~  153 (271)
                      .|..|++.|..... +. .|..||-+|+.+
T Consensus         1 nC~~CgkeltadAr-El-~geLyCLpChdK   28 (31)
T d2cora1           1 NCANCGKELTADAR-EL-KGELYCLPCHDK   28 (31)
T ss_dssp             BCSSSCCBCCTTCE-EE-TTEEECHHHHHT
T ss_pred             CccccccccchhHH-Hh-cCCEEEEecccc
Confidence            38899999988654 44 599999999874

>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=84.81  E-value=0.15  Score=30.49  Aligned_cols=26  Identities=27%  Similarity=0.580  Sum_probs=22.1

Q ss_pred             cccccCCccCCcCeeecCCCeeeccCC
Q psy11691        124 KCARCQSQLTCINAYETHTGQFCCEVC  150 (271)
Q Consensus       124 rC~~C~k~L~s~~f~~~~dG~~yCk~C  150 (271)
                      .|..|+..|-...|+.. ++.+||+.|
T Consensus         1 vC~dCg~NLKqrG~Ffv-~~~lyCE~H   26 (31)
T d1x64a2           1 VCADCNLNLKQKGYFFV-EGELYCETH   26 (31)
T ss_dssp             CCSSSCCCTTTSCCEEE-TTEEECHHH
T ss_pred             CccccccChhhcceEEe-ccEEeehhh
Confidence            38999999999888876 689999865

>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=84.69  E-value=0.27  Score=31.82  Aligned_cols=27  Identities=22%  Similarity=0.047  Sum_probs=17.9

Q ss_pred             ccCCCCCCCCCCCCceeecCccccCCCC
Q psy11691        157 SLTDPLRSSDRPDGHHAIGDDRYHAELN  184 (271)
Q Consensus       157 ~I~~rc~~~~~~~~~I~~gg~~YH~ecF  184 (271)
                      +++++|.+.+. +..+.+.+.-||++||
T Consensus        19 P~CdkCg~GIV-G~~VK~rDK~rHPeCf   45 (45)
T d1x64a1          19 PLCDKCGSGIV-GAVVKARDKYRHPECF   45 (45)
T ss_dssp             CBCTTTCCBCC-SCCEESSSCEECTTTC
T ss_pred             ccccccCCCcE-EEEEEeccccCCCCCC
Confidence            45555555443 2345678889999998

>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=83.34  E-value=0.4  Score=29.24  Aligned_cols=27  Identities=15%  Similarity=0.085  Sum_probs=18.0

Q ss_pred             ccCCCCCCCCCCCCceeecCccccCCCC
Q psy11691        157 SLTDPLRSSDRPDGHHAIGDDRYHAELN  184 (271)
Q Consensus       157 ~I~~rc~~~~~~~~~I~~gg~~YH~ecF  184 (271)
                      +++++|.+.+. +..+.+.+.-+|++||
T Consensus         9 p~CdkCg~GIV-G~~VK~rDk~rHPeCf   35 (35)
T d1x62a2           9 PMCDKCGTGIV-GVFVKLRDRHRHPECY   35 (35)
T ss_dssp             CCCSSSCCCCC-SSCEECSSCEECTTTT
T ss_pred             ccccccCCCcE-eEEEEeccccCCCCCC
Confidence            45555655443 2345678888999997

>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=81.96  E-value=0.44  Score=28.60  Aligned_cols=28  Identities=18%  Similarity=0.566  Sum_probs=23.5

Q ss_pred             cccccCCccCCcCeeecCCCeeeccCCCC
Q psy11691        124 KCARCQSQLTCINAYETHTGQFCCEVCPD  152 (271)
Q Consensus       124 rC~~C~k~L~s~~f~~~~dG~~yCk~CY~  152 (271)
                      .|.+|+..|-...|..- ...++|..|-.
T Consensus         1 ncgkcsvslvg~gfltq-~~~i~c~~cgs   28 (34)
T d1x68a2           1 NCGKCSVSLVGKGFLTQ-NKEIFCQKCGS   28 (34)
T ss_dssp             BCTTTCCBCSSSCEEEE-TTEEEETTTTC
T ss_pred             CCccceEEEEeeeeeec-cCcEEehhcCC
Confidence            38899999999999874 57899999875

>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=81.62  E-value=0.23  Score=29.82  Aligned_cols=23  Identities=13%  Similarity=-0.022  Sum_probs=16.1

Q ss_pred             CCCCCCCCCcee-ecCccccCCCC
Q psy11691        162 LRSSDRPDGHHA-IGDDRYHAELN  184 (271)
Q Consensus       162 c~~~~~~~~~I~-~gg~~YH~ecF  184 (271)
                      |...+.+++.|| +++..||..||
T Consensus         8 C~~~I~~~e~VmRA~~~VyHl~CF   31 (31)
T d1rutx3           8 CGQSIPASELVMRAQGNVYHLKCF   31 (31)
T ss_dssp             TCCEECTTSEEEEETTEEECGGGC
T ss_pred             ccCcCChhHhheecccceeeeccC
Confidence            333444556765 78889999998