Citrus Sinensis ID: 029695

---

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-------19
Protein Sequence
MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHLIKSASMKRAAASVPEA
Secondary Structure (PSIPRED)
cccccccccccccccEEEEcEEEEEcccccccccccccccccccccccccccccEEcccccHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEcccccccccccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccEEEEEEEEEEcccccccccEEEHHccccccccccccccccEEccccHHHHcccccccccccccccccccccccccccccccHHHHcccccccccccccEEEccEEEEEcccccccccEEEcccccEcccccccccccccccHHHHHHHcccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
msfigtqqkckvcektvypveqlsadgvvyhkscfkcshckgtlklsnyssmegvlyckphfeQLFKEsgnfnknfqspaksaekltpeltrspskaasmfsgtqekcascsktvyplekVAVENQAYHKtcfkcshggcsispsnyaALEGILYCKHHFSQLFKEKGSYNHLIKSASMKRAAASVPEA
Flexible Loop (DISEMBL)
msfigtqqkckvceKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHLIKSASmkraaasvpea
Low Complexity Region (SEG)
MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHLIKSASMKRAAASVPEA
Disordered region (IsUnstruct)
*****TQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFK****************************************CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHLI***************
Disordered Region (DISOPRED)
**FIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKE**N**KNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGS********************
Disordered Region (DISEMBL)
********KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKESGNFNKNFQS******************************ASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHLIK**************
Disordered Region (DISPRO)
******QQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKES***N*N********************K*****SGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHLIK**************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHLIKSASMKRAAASVPEA
Positional Conservation
no confident homologs detected

---

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	189	2.2.26 [Sep-21-2011]
P29675	219	Pollen-specific protein S	N/A	no	0.910	0.785	0.566	2e-55
P50461	194	Cysteine and glycine-rich	yes	no	0.867	0.845	0.331	2e-19
Q4U4S6	3784	Xin actin-binding repeat-	yes	no	0.328	0.016	0.52	3e-19
P50462	194	Cysteine and glycine-rich	no	no	0.867	0.845	0.331	4e-19
Q4U0T9	194	Cysteine and glycine-rich	no	no	0.867	0.845	0.326	2e-18
P50463	194	Cysteine and glycine-rich	yes	no	0.867	0.845	0.326	3e-18
Q4KM31	128	LIM domain-containing pro	no	no	0.375	0.554	0.507	5e-18
Q8BGB5	128	LIM domain-containing pro	no	no	0.375	0.554	0.492	6e-18
Q1LZA7	128	LIM domain-containing pro	no	no	0.375	0.554	0.492	1e-17
Q9BT23	127	LIM domain-containing pro	no	no	0.375	0.559	0.492	1e-17

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

 Score =  214 bits (546), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 98/173 (56%), Positives = 131/173 (75%), Gaps = 1/173 (0%)

Query: 2   SFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPH 61
           SF GT QKC VCEKTVY V++L A+  VYHK+CF+C HC  TLKLSN++S +GV+YC+ H
Sbjct: 3   SFTGTTQKCTVCEKTVYLVDKLVANQRVYHKACFRCHHCNSTLKLSNFNSFDGVVYCRHH 62

Query: 62  FEQLFKESGNFNKNFQ-SPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEK 120
           F+QLFK +G+  K+F  +P    E+   + T+S ++ +S F GT++KC +C+K VYP+E+
Sbjct: 63  FDQLFKRTGSLEKSFDGTPKFKPERTFSQETQSANRLSSFFEGTRDKCNACAKIVYPIER 122

Query: 121 VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHL 173
           V V+  AYH+ CFKC HGGC+ISPSNY A EG LYCKHH  QLFK+KG+Y+ L
Sbjct: 123 VKVDGTAYHRACFKCCHGGCTISPSNYIAHEGRLYCKHHHIQLFKKKGNYSQL 175

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

>sp|P50461|CSRP3_HUMAN Cysteine and glycine-rich protein 3 OS=Homo sapiens GN=CSRP3 PE=1 SV=1

 Score = 95.1 bits (235), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 61/184 (33%), Positives = 89/184 (48%), Gaps = 20/184 (10%)

Query: 1   MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60
           M   G   KC  CEKTVY  E++  +G  +HK+CF C  C+  L  +  ++ E  +YCK 
Sbjct: 1   MPNWGGGAKCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCKV 60

Query: 61  HFEQLFKESG----------------NFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGT 104
            + + +   G                +    FQ   K A  +T   T +PSK  + F G 
Sbjct: 61  CYGRRYGPKGIGYGQGAGCLSTDTGEHLGLQFQQSPKPARSVT---TSNPSKFTAKF-GE 116

Query: 105 QEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLF 164
            EKC  C K+VY  EKV    + +HKTCF+C+  G S+  +N    +G LYCK  +++ F
Sbjct: 117 SEKCPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCKVCYAKNF 176

Query: 165 KEKG 168
              G
Sbjct: 177 GPTG 180

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

Homo sapiens (taxid: 9606)

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

 Score = 95.1 bits (235), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 39/75 (52%), Positives = 55/75 (73%)

Query: 2    SFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPH 61
            +F+  ++ C +C+KTVYP+E L AD   +HKSCF+C HC   L L NY+S+ G +YCKPH
Sbjct: 3249 AFLSDKEICIICQKTVYPMECLIADKQNFHKSCFRCHHCSSKLSLGNYASLHGRIYCKPH 3308

Query: 62   FEQLFKESGNFNKNF 76
            F+QLFK  GN+++ F
Sbjct: 3309 FKQLFKSKGNYDEGF 3323

Protects actin filaments from depolymerization.

Mus musculus (taxid: 10090)

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

 Score = 94.4 bits (233), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 61/184 (33%), Positives = 89/184 (48%), Gaps = 20/184 (10%)

Query: 1   MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60
           M   G   KC  CEKTVY  E++  +G  +HK+CF C  C+  L  +  ++ E  +YCK 
Sbjct: 1   MPNWGGGAKCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCKV 60

Query: 61  HFEQLFKESG----------------NFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGT 104
            + + +   G                +    FQ   K A   T   T +PSK ++ F G 
Sbjct: 61  CYGRRYGPKGIGFGQGAGCLSTDTGEHLGLQFQQSPKPARAAT---TSNPSKFSAKF-GE 116

Query: 105 QEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLF 164
            EKC  C K+VY  EKV    + +HKTCF+C+  G S+  +N    +G LYCK  +++ F
Sbjct: 117 SEKCPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCKVCYAKNF 176

Query: 165 KEKG 168
              G
Sbjct: 177 GPTG 180

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

Mus musculus (taxid: 10090)

>sp|Q4U0T9|CSRP3_BOVIN Cysteine and glycine-rich protein 3 OS=Bos taurus GN=CSRP3 PE=2 SV=1

 Score = 91.7 bits (226), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 60/184 (32%), Positives = 87/184 (47%), Gaps = 20/184 (10%)

Query: 1   MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60
           M   G   KC  CEKTVY  E++  +G  +HK+CF C  C+  L  +  ++ E  +YCK 
Sbjct: 1   MPNWGGGAKCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCKV 60

Query: 61  HFEQLFKESG----------------NFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGT 104
            + + +   G                +    FQ   K A   T   + +PSK A    G 
Sbjct: 61  CYGRRYGPKGIGYGQGAGCLSTDTGEHLGLQFQQSPKQARSAT--TSSNPSKFAKF--GE 116

Query: 105 QEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLF 164
            EKC  C K+VY  EKV    + +HKTCF+C+  G S+  +N    +G LYCK  +++ F
Sbjct: 117 SEKCPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCKVCYAKNF 176

Query: 165 KEKG 168
              G
Sbjct: 177 GPTG 180

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

Bos taurus (taxid: 9913)

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

 Score = 91.7 bits (226), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 60/184 (32%), Positives = 88/184 (47%), Gaps = 20/184 (10%)

Query: 1   MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60
           M   G   KC  C+KTVY  E++  +G  +HK+CF C  C+  L  +  ++ E  +YCK 
Sbjct: 1   MPNWGGGAKCGACDKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCKV 60

Query: 61  HFEQLFKESG----------------NFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGT 104
            + + +   G                +    FQ   K A   T   T +PSK ++ F G 
Sbjct: 61  CYGRKYGPKGIGFGQGAGCLSTDTGEHLGLQFQQSPKPARAAT---TSNPSKFSAKF-GE 116

Query: 105 QEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLF 164
            EKC  C K+VY  EKV    + +HKTCF C+  G S+  +N    +G LYCK  +++ F
Sbjct: 117 SEKCPRCGKSVYAAEKVMGGGKPWHKTCFPCAICGKSLESTNVTDKDGELYCKVCYAKNF 176

Query: 165 KEKG 168
              G
Sbjct: 177 GPTG 180

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

Rattus norvegicus (taxid: 10116)

>sp|Q4KM31|LIMD2_RAT LIM domain-containing protein 2 OS=Rattus norvegicus GN=Limd2 PE=2 SV=1

 Score = 90.5 bits (223), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 36/71 (50%), Positives = 51/71 (71%)

Query: 6   TQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQL 65
            ++ C  C+KTVYP+E+L AD +++H SCF C HC   L L +Y++M G  YCKPHF+QL
Sbjct: 37  VKETCAACQKTVYPMERLVADKLIFHNSCFCCKHCHTKLSLGSYAAMHGEFYCKPHFQQL 96

Query: 66  FKESGNFNKNF 76
           FK  GN+++ F
Sbjct: 97  FKSKGNYDEGF 107

Rattus norvegicus (taxid: 10116)

>sp|Q8BGB5|LIMD2_MOUSE LIM domain-containing protein 2 OS=Mus musculus GN=Limd2 PE=2 SV=1

 Score = 90.5 bits (223), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 35/71 (49%), Positives = 51/71 (71%)

Query: 6   TQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQL 65
            ++ C  C+KTVYP+E+L AD +++H SCF C HC   L L +Y++M G  YC+PHF+QL
Sbjct: 37  VKETCAACQKTVYPMERLVADKLIFHNSCFCCKHCHTKLSLGSYAAMHGEFYCRPHFQQL 96

Query: 66  FKESGNFNKNF 76
           FK  GN+++ F
Sbjct: 97  FKSKGNYDEGF 107

Mus musculus (taxid: 10090)

>sp|Q1LZA7|LIMD2_BOVIN LIM domain-containing protein 2 OS=Bos taurus GN=LIMD2 PE=2 SV=1

 Score = 89.4 bits (220), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 35/71 (49%), Positives = 51/71 (71%)

Query: 6   TQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQL 65
            ++ C  C+KTVYP+E+L AD +++H SCF C HC   L L +Y+++ G  YCKPHF+QL
Sbjct: 37  VKETCAACQKTVYPMERLVADKLIFHSSCFCCKHCHTKLSLGSYAALHGEFYCKPHFQQL 96

Query: 66  FKESGNFNKNF 76
           FK  GN+++ F
Sbjct: 97  FKSKGNYDEGF 107

Bos taurus (taxid: 9913)

>sp|Q9BT23|LIMD2_HUMAN LIM domain-containing protein 2 OS=Homo sapiens GN=LIMD2 PE=1 SV=1

 Score = 89.4 bits (220), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 35/71 (49%), Positives = 51/71 (71%)

Query: 6   TQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQL 65
            ++ C  C+KTVYP+E+L AD +++H SCF C HC   L L +Y+++ G  YCKPHF+QL
Sbjct: 36  VKETCAACQKTVYPMERLVADKLIFHNSCFCCKHCHTKLSLGSYAALHGEFYCKPHFQQL 95

Query: 66  FKESGNFNKNF 76
           FK  GN+++ F
Sbjct: 96  FKSKGNYDEGF 106

Homo sapiens (taxid: 9606)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	189
225449230	189	PREDICTED: pollen-specific protein SF3 i	1.0	1.0	0.931	2e-98
449441328	189	PREDICTED: pollen-specific protein SF3-l	1.0	1.0	0.920	3e-98
255579126	189	Pollen-specific protein SF3, putative [R	1.0	1.0	0.920	3e-97
260619528	189	LIM1 [Hevea brasiliensis]	1.0	1.0	0.915	2e-96
224109388	189	predicted protein [Populus trichocarpa]	1.0	1.0	0.899	2e-96
5932420	189	LIM domain protein WLIM2 [Nicotiana taba	1.0	1.0	0.910	5e-96
117950171	189	LIM domain protein WLIM2a [Populus tremu	1.0	1.0	0.888	3e-95
224101093	189	predicted protein [Populus trichocarpa]	1.0	1.0	0.888	8e-95
118485508	189	unknown [Populus trichocarpa]	1.0	1.0	0.878	9e-94
388501992	189	unknown [Lotus japonicus] gi|388521363|g	1.0	1.0	0.867	4e-93

>gi|225449230|ref|XP_002279922.1| PREDICTED: pollen-specific protein SF3 isoform 1 [Vitis vinifera] gi|147859521|emb|CAN81425.1| hypothetical protein VITISV_014590 [Vitis vinifera] gi|296086105|emb|CBI31546.3| unnamed protein product [Vitis vinifera]

 Score =  363 bits (932), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 176/189 (93%), Positives = 182/189 (96%)

Query: 1   MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60
           MSFIGTQQKCK C KTVYPVEQLSADGVVYHKSCFKCSHC GTLKLSNYSSMEGVLYCKP
Sbjct: 1   MSFIGTQQKCKACLKTVYPVEQLSADGVVYHKSCFKCSHCNGTLKLSNYSSMEGVLYCKP 60

Query: 61  HFEQLFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEK 120
           HFEQLFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCA+C KT YPLEK
Sbjct: 61  HFEQLFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCATCGKTAYPLEK 120

Query: 121 VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHLIKSASMK 180
           V VE+QAYHK+CFKCSHGGC ISPSNYAALEGILYCKHHF+QLFKEKGSYNHLIKSASMK
Sbjct: 121 VTVESQAYHKSCFKCSHGGCPISPSNYAALEGILYCKHHFAQLFKEKGSYNHLIKSASMK 180

Query: 181 RAAASVPEA 189
           R+AASVP+A
Sbjct: 181 RSAASVPDA 189

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449441328|ref|XP_004138434.1| PREDICTED: pollen-specific protein SF3-like [Cucumis sativus] gi|449516649|ref|XP_004165359.1| PREDICTED: pollen-specific protein SF3-like [Cucumis sativus]

 Score =  362 bits (930), Expect = 3e-98,   Method: Compositional matrix adjust.
 Identities = 174/189 (92%), Positives = 183/189 (96%)

Query: 1   MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60
           MSFIGTQQKCK CEKTVYPVEQLSADGV YHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP
Sbjct: 1   MSFIGTQQKCKACEKTVYPVEQLSADGVSYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60

Query: 61  HFEQLFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEK 120
           HFEQLFKE+GNFNKNFQSPAKSAEKLTPELTRSPSKAA MFSGTQ+KCA+C KTVYPLEK
Sbjct: 61  HFEQLFKETGNFNKNFQSPAKSAEKLTPELTRSPSKAAGMFSGTQDKCATCGKTVYPLEK 120

Query: 121 VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHLIKSASMK 180
           V VE+Q+YHK+CFKCSHGGC++SPSNYAALEGILYCKHHFSQLFKEKGSYNHLIKSASMK
Sbjct: 121 VTVESQSYHKSCFKCSHGGCALSPSNYAALEGILYCKHHFSQLFKEKGSYNHLIKSASMK 180

Query: 181 RAAASVPEA 189
           R+AA VPEA
Sbjct: 181 RSAAPVPEA 189

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255579126|ref|XP_002530411.1| Pollen-specific protein SF3, putative [Ricinus communis] gi|223530060|gb|EEF31981.1| Pollen-specific protein SF3, putative [Ricinus communis]

 Score =  359 bits (921), Expect = 3e-97,   Method: Compositional matrix adjust.
 Identities = 174/189 (92%), Positives = 181/189 (95%)

Query: 1   MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60
           MSF GTQQKCK CEKTVYP+E LSADGV YHKSCFKC HCKGTLKLSNYSSMEGV+YCKP
Sbjct: 1   MSFTGTQQKCKACEKTVYPMELLSADGVPYHKSCFKCFHCKGTLKLSNYSSMEGVVYCKP 60

Query: 61  HFEQLFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEK 120
           HFEQLFKE+GNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCA+C KT YPLEK
Sbjct: 61  HFEQLFKETGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCATCGKTAYPLEK 120

Query: 121 VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHLIKSASMK 180
           V VE+QAYHK+CFKCSHGGCSISPSNYAALEG+LYCKHHFSQLFKEKGSYNHLIKSASMK
Sbjct: 121 VTVESQAYHKSCFKCSHGGCSISPSNYAALEGVLYCKHHFSQLFKEKGSYNHLIKSASMK 180

Query: 181 RAAASVPEA 189
           RAAASVPEA
Sbjct: 181 RAAASVPEA 189

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|260619528|gb|ACX47456.1| LIM1 [Hevea brasiliensis]

 Score =  357 bits (915), Expect = 2e-96,   Method: Compositional matrix adjust.
 Identities = 173/189 (91%), Positives = 180/189 (95%)

Query: 1   MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60
           MSF GTQQKCK CEKTVYP+E LSADGV YHKSCFKC HCKGTLKLSNYSSMEGVLYCKP
Sbjct: 1   MSFTGTQQKCKACEKTVYPMELLSADGVPYHKSCFKCFHCKGTLKLSNYSSMEGVLYCKP 60

Query: 61  HFEQLFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEK 120
           HFEQLFKE+GNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCA+C KT YPLEK
Sbjct: 61  HFEQLFKETGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCATCGKTAYPLEK 120

Query: 121 VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHLIKSASMK 180
           V VE+QAYHK+CFKCSHGGCS+SPSNYAALEG+LYCKHHFSQLFKEKGSYNHLIK ASMK
Sbjct: 121 VTVESQAYHKSCFKCSHGGCSLSPSNYAALEGVLYCKHHFSQLFKEKGSYNHLIKCASMK 180

Query: 181 RAAASVPEA 189
           RAAASVPEA
Sbjct: 181 RAAASVPEA 189

Source: Hevea brasiliensis

Species: Hevea brasiliensis

Genus: Hevea

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224109388|ref|XP_002315180.1| predicted protein [Populus trichocarpa] gi|118488763|gb|ABK96192.1| unknown [Populus trichocarpa] gi|222864220|gb|EEF01351.1| predicted protein [Populus trichocarpa]

 Score =  356 bits (914), Expect = 2e-96,   Method: Compositional matrix adjust.
 Identities = 170/189 (89%), Positives = 180/189 (95%)

Query: 1   MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60
           MSF GTQQKCK CEKTVYP+E LSADGV YHK+CFKC HCKGTLKLSNYSSMEGVLYCKP
Sbjct: 1   MSFTGTQQKCKACEKTVYPMELLSADGVAYHKTCFKCFHCKGTLKLSNYSSMEGVLYCKP 60

Query: 61  HFEQLFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEK 120
           HFEQLFKE+GNFNKNFQSPAKSAEKL PELTRSPSKAASMFSGTQEKCA+C KT YPLEK
Sbjct: 61  HFEQLFKETGNFNKNFQSPAKSAEKLNPELTRSPSKAASMFSGTQEKCATCGKTAYPLEK 120

Query: 121 VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHLIKSASMK 180
           V VE+QAYHK+CFKCSHGGC+I+PSNYAALEG+LYCKHHFSQLFKEKGSYNHLIKSA+MK
Sbjct: 121 VTVESQAYHKSCFKCSHGGCAITPSNYAALEGVLYCKHHFSQLFKEKGSYNHLIKSATMK 180

Query: 181 RAAASVPEA 189
           RAAASVPEA
Sbjct: 181 RAAASVPEA 189

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|5932420|gb|AAD56951.1|AF184886_1 LIM domain protein WLIM2 [Nicotiana tabacum] gi|1841464|emb|CAA71891.1| LIM-domain SF3 protein [Nicotiana tabacum]

 Score =  355 bits (911), Expect = 5e-96,   Method: Compositional matrix adjust.
 Identities = 172/189 (91%), Positives = 179/189 (94%)

Query: 1   MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60
           MSFIGTQQKCK CEKTVYPVE LSADGV YHKSCFKCSHCKGTLKLSN+SSMEGVLYCKP
Sbjct: 1   MSFIGTQQKCKACEKTVYPVELLSADGVNYHKSCFKCSHCKGTLKLSNFSSMEGVLYCKP 60

Query: 61  HFEQLFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEK 120
           HFEQLFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAA MFSGTQEKCA+C KT YPLEK
Sbjct: 61  HFEQLFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAAGMFSGTQEKCATCGKTAYPLEK 120

Query: 121 VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHLIKSASMK 180
           V VENQ+YHKTCFKCSHGGCS+SPSNYAAL GILYCK HFSQLFKEKGSYNHLIKSASMK
Sbjct: 121 VTVENQSYHKTCFKCSHGGCSLSPSNYAALNGILYCKPHFSQLFKEKGSYNHLIKSASMK 180

Query: 181 RAAASVPEA 189
           R AA+VP++
Sbjct: 181 RPAATVPDS 189

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|117950171|gb|ABK58469.1| LIM domain protein WLIM2a [Populus tremula x Populus alba]

 Score =  352 bits (904), Expect = 3e-95,   Method: Compositional matrix adjust.
 Identities = 168/189 (88%), Positives = 179/189 (94%)

Query: 1   MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60
           MSF GTQQKCK CEKTVYP+E LSADGV YHKSCFKC HCKGTLKLSNYSSMEGVLYCKP
Sbjct: 1   MSFTGTQQKCKACEKTVYPMELLSADGVAYHKSCFKCFHCKGTLKLSNYSSMEGVLYCKP 60

Query: 61  HFEQLFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEK 120
           HF+QLFKE+GNFNKNFQSPAK+AEKLTPELTRSPSKAA MFSGTQEKCA+C KT YPLEK
Sbjct: 61  HFDQLFKETGNFNKNFQSPAKTAEKLTPELTRSPSKAAGMFSGTQEKCATCGKTAYPLEK 120

Query: 121 VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHLIKSASMK 180
           V VE+QAYHK+CFKCSHGGC+I+PS+YAALEG+LYCKHHFSQLFKEKGSYNHLIKSASMK
Sbjct: 121 VTVESQAYHKSCFKCSHGGCAITPSSYAALEGVLYCKHHFSQLFKEKGSYNHLIKSASMK 180

Query: 181 RAAASVPEA 189
           RAAA VPEA
Sbjct: 181 RAAAPVPEA 189

Source: Populus tremula x Populus alba

Species: Populus tremula x Populus alba

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224101093|ref|XP_002312139.1| predicted protein [Populus trichocarpa] gi|118485190|gb|ABK94456.1| unknown [Populus trichocarpa] gi|222851959|gb|EEE89506.1| predicted protein [Populus trichocarpa]

 Score =  351 bits (900), Expect = 8e-95,   Method: Compositional matrix adjust.
 Identities = 168/189 (88%), Positives = 177/189 (93%)

Query: 1   MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60
           MSF GTQQKCK CEKTVYP+E LS DGV YHKSCFKC HCKGTLKLSNYSSMEGVLYCKP
Sbjct: 1   MSFTGTQQKCKACEKTVYPMELLSTDGVAYHKSCFKCFHCKGTLKLSNYSSMEGVLYCKP 60

Query: 61  HFEQLFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEK 120
           HF+QLFKE+GNFNKNFQSPAKSAEKLTPELTRSPSKAA MFSGTQEKCA+C KT YPLEK
Sbjct: 61  HFDQLFKETGNFNKNFQSPAKSAEKLTPELTRSPSKAAGMFSGTQEKCATCGKTAYPLEK 120

Query: 121 VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHLIKSASMK 180
           V VE+QAYHK+CFKCSHGGC+I+PSNYAALEG+LYCKHHFSQLFKEKGSYNHLIK ASMK
Sbjct: 121 VTVESQAYHKSCFKCSHGGCAITPSNYAALEGVLYCKHHFSQLFKEKGSYNHLIKCASMK 180

Query: 181 RAAASVPEA 189
           RAAA VPEA
Sbjct: 181 RAAAPVPEA 189

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118485508|gb|ABK94608.1| unknown [Populus trichocarpa]

 Score =  348 bits (892), Expect = 9e-94,   Method: Compositional matrix adjust.
 Identities = 166/189 (87%), Positives = 175/189 (92%)

Query: 1   MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60
           MSF GTQQKCK CEKTVYP+E LS DGV YHKSCFKC HCKGTLKLSNYSSMEGVLYCKP
Sbjct: 1   MSFTGTQQKCKACEKTVYPMELLSTDGVAYHKSCFKCFHCKGTLKLSNYSSMEGVLYCKP 60

Query: 61  HFEQLFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEK 120
           H +QLFKE+GNFNKNFQSPAKSAEKLTPELTRSPSKAA MFSGTQEKCA+C KT YPLEK
Sbjct: 61  HLDQLFKETGNFNKNFQSPAKSAEKLTPELTRSPSKAAGMFSGTQEKCATCGKTAYPLEK 120

Query: 121 VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHLIKSASMK 180
           V  E+QAYHK+CFKCSHGGC+I+PSNYAALEG+LYCKHHFSQLFKEKGSYNHLIK ASMK
Sbjct: 121 VTAESQAYHKSCFKCSHGGCAITPSNYAALEGVLYCKHHFSQLFKEKGSYNHLIKCASMK 180

Query: 181 RAAASVPEA 189
           RAAA VPEA
Sbjct: 181 RAAAPVPEA 189

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388501992|gb|AFK39062.1| unknown [Lotus japonicus] gi|388521363|gb|AFK48743.1| unknown [Lotus japonicus]

 Score =  345 bits (886), Expect = 4e-93,   Method: Compositional matrix adjust.
 Identities = 164/189 (86%), Positives = 177/189 (93%)

Query: 1   MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60
           MSF+GTQQKCK CEKTVYPV+QLSADG  YHK+CF+CSHCKGTLKLSNYSSMEGVLYCKP
Sbjct: 1   MSFLGTQQKCKACEKTVYPVDQLSADGTSYHKACFRCSHCKGTLKLSNYSSMEGVLYCKP 60

Query: 61  HFEQLFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEK 120
           H+EQLFKE+G F KNFQSPAK A+K TPELTRSPSKAA MFSGTQEKCA+C KT YPLEK
Sbjct: 61  HYEQLFKETGTFKKNFQSPAKLADKNTPELTRSPSKAAGMFSGTQEKCATCGKTAYPLEK 120

Query: 121 VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHLIKSASMK 180
           V VE+QAYHK+CFKCSHGGC I+PSNYAALEGILYCKHHFSQLFKEKGSYNHLIKSAS+K
Sbjct: 121 VTVESQAYHKSCFKCSHGGCPITPSNYAALEGILYCKHHFSQLFKEKGSYNHLIKSASIK 180

Query: 181 RAAASVPEA 189
           RAAASVPE+
Sbjct: 181 RAAASVPES 189

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	189
TAIR|locus:2061171	200	WLIM2a "WLIM2a" [Arabidopsis t	1.0	0.945	0.789	9.1e-84
TAIR|locus:2198210	205	PLIM2b "PLIM2b" [Arabidopsis t	0.952	0.878	0.646	1.3e-68
TAIR|locus:2050735	226	PLIM2a "PLIM2a" [Arabidopsis t	0.968	0.809	0.648	2.4e-67
TAIR|locus:2098871	213	PLIM2c "PLIM2c" [Arabidopsis t	0.962	0.854	0.597	4.7e-64
TAIR|locus:2012798	190	WLIM1 "AT1G10200" [Arabidopsis	0.915	0.910	0.594	2.2e-57
MGI|MGI:1330824	194	Csrp3 "cysteine and glycine-ri	0.846	0.824	0.355	4.3e-22
UNIPROTKB|P50461	194	CSRP3 "Cysteine and glycine-ri	0.846	0.824	0.333	5.5e-22
UNIPROTKB|E2R9P5	194	CSRP3 "Uncharacterized protein	0.846	0.824	0.333	9e-22
UNIPROTKB|D2SQP3	194	CSRP3 "Cysteine and glycine-ri	0.846	0.824	0.327	1.9e-21
RGD|71092	194	Csrp3 "cysteine and glycine-ri	0.846	0.824	0.35	1.9e-21

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

 Score = 839 (300.4 bits), Expect = 9.1e-84, P = 9.1e-84
 Identities = 150/190 (78%), Positives = 170/190 (89%)

Query:     1 MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60
             MSF GTQQKC+ CEKTVYPVE LSADG+ YHK+CFKCSHCK  L+LSNYSSMEGV+YC+P
Sbjct:     1 MSFTGTQQKCRACEKTVYPVELLSADGISYHKACFKCSHCKSRLQLSNYSSMEGVVYCRP 60

Query:    61 HFEQLFKESGNFNKNFQSPAKS-AEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLE 119
             HFEQLFKESG+F+KNFQSPAK   +K TPEL R+PS+ A MFSGTQ+KCA+C+KTVYP+E
Sbjct:    61 HFEQLFKESGSFSKNFQSPAKPLTDKPTPELNRTPSRLAGMFSGTQDKCATCTKTVYPIE 120

Query:   120 KVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHLIKSASM 179
             KV VE+Q YHK+CFKCSHGGC ISPSNYAALEGILYCKHHF+QLFKEKGSYNHLIKSAS+
Sbjct:   121 KVTVESQCYHKSCFKCSHGGCPISPSNYAALEGILYCKHHFAQLFKEKGSYNHLIKSASI 180

Query:   180 KRAAASVPEA 189
             KRA A+   A
Sbjct:   181 KRATAAATAA 190

GO:0008270 "zinc ion binding" evidence=IEA

GO:0051015 "actin filament binding" evidence=IDA

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

GO:0000271 "polysaccharide biosynthetic process" evidence=RCA

GO:0006944 "cellular membrane fusion" evidence=RCA

GO:0009825 "multidimensional cell growth" evidence=RCA

GO:0009932 "cell tip growth" evidence=RCA

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

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

GO:0048767 "root hair elongation" evidence=RCA

GO:0071555 "cell wall organization" evidence=RCA

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

 Score = 696 (250.1 bits), Expect = 1.3e-68, P = 1.3e-68
 Identities = 119/184 (64%), Positives = 158/184 (85%)

Query:     1 MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60
             MSF GT  KC VC+KTVY V+ LS +G+ YHKSCF+C+HCKGTL++SNYSSM+GVLYCK 
Sbjct:     1 MSFTGTLDKCNVCDKTVYVVDMLSIEGMPYHKSCFRCTHCKGTLQMSNYSSMDGVLYCKT 60

Query:    61 HFEQLFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEK 120
             HFEQLFKESGNF+KNFQ P K+ EK  PELTR+PSK +S+F GTQ+KCA+C KTVYPLEK
Sbjct:    61 HFEQLFKESGNFSKNFQ-PGKT-EK--PELTRTPSKISSIFCGTQDKCAACEKTVYPLEK 116

Query:   121 VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHLIKSASMK 180
             + +E + +HKTCF+C+HGGC+++ S+YA+L+ +LYC+HHF+QLF EKG+Y H++++A+ +
Sbjct:   117 IQMEGECFHKTCFRCAHGGCTLTHSSYASLDSVLYCRHHFNQLFMEKGNYAHVLQAANHR 176

Query:   181 RAAA 184
             R A+
Sbjct:   177 RTAS 180

GO:0005737 "cytoplasm" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

GO:0051015 "actin filament binding" evidence=IDA

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

GO:0006944 "cellular membrane fusion" evidence=RCA

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

 Score = 684 (245.8 bits), Expect = 2.4e-67, P = 2.4e-67
 Identities = 120/185 (64%), Positives = 151/185 (81%)

Query:     1 MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60
             MSF GT  KCK C+KTVY ++ L+ +G  YHKSCF+C+HCKGTL +SNYSSM+GVLYCKP
Sbjct:     1 MSFTGTLDKCKACDKTVYVMDLLTLEGNTYHKSCFRCTHCKGTLVISNYSSMDGVLYCKP 60

Query:    61 HFEQLFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEK 120
             HFEQLFKESGN++KNFQ  A   EK    LTR+PSK +S FSGTQ+KCA+C KTVYPLEK
Sbjct:    61 HFEQLFKESGNYSKNFQ--AGKTEKPNDHLTRTPSKLSSFFSGTQDKCATCKKTVYPLEK 118

Query:   121 VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHLIKSASMK 180
             V +E ++YHKTCF+C+H GC ++ S+YA+L G+LYCK HF+QLF EKGSYNH+ ++A+  
Sbjct:   119 VTMEGESYHKTCFRCTHSGCPLTHSSYASLNGVLYCKVHFNQLFLEKGSYNHVHQAAANH 178

Query:   181 RAAAS 185
             R +AS
Sbjct:   179 RRSAS 183

GO:0005737 "cytoplasm" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

GO:0051015 "actin filament binding" evidence=IDA

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

GO:0006944 "cellular membrane fusion" evidence=RCA

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

 Score = 653 (234.9 bits), Expect = 4.7e-64, P = 4.7e-64
 Identities = 110/184 (59%), Positives = 152/184 (82%)

Query:     2 SFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPH 61
             +F GT  KCK C+KTVY ++ ++ +G+ YHKSCF+CSHC GTL + NYSSM+GVLYCK H
Sbjct:     3 AFTGTTDKCKACDKTVYVMDLMTLEGMPYHKSCFRCSHCNGTLVICNYSSMDGVLYCKTH 62

Query:    62 FEQLFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKV 121
             FEQLFKESGNF+KNFQ+  K+ EK + + T++P++ +S FSGTQ+KCA+C KTVYPLEK+
Sbjct:    63 FEQLFKESGNFSKNFQTAGKT-EK-SNDATKAPNRLSSFFSGTQDKCAACKKTVYPLEKM 120

Query:   122 AVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHLIKSASMKR 181
              +E ++YHKTCF+C+H GC ++ S+YAAL+G+LYCK HFSQLF EKG+YNH++++A+  R
Sbjct:   121 TMEGESYHKTCFRCAHSGCPLTHSSYAALDGVLYCKVHFSQLFLEKGNYNHVLQAAANHR 180

Query:   182 AAAS 185
              + +
Sbjct:   181 RSTA 184

GO:0005737 "cytoplasm" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

GO:0051015 "actin filament binding" evidence=IDA

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

GO:0006944 "cellular membrane fusion" evidence=RCA

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

 Score = 590 (212.7 bits), Expect = 2.2e-57, P = 2.2e-57
 Identities = 104/175 (59%), Positives = 130/175 (74%)

Query:     1 MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60
             M+F GT QKC  C+KTVY V++L+AD  VYHK+CF+C HCKGTLKLSNY+S EGVLYC+P
Sbjct:     1 MAFAGTTQKCMACDKTVYLVDKLTADNRVYHKACFRCHHCKGTLKLSNYNSFEGVLYCRP 60

Query:    61 HFEQLFKESGNFNKNFQSPAKSAEKLTPELTRSPS--KAASMFSGTQEKCASCSKTVYPL 118
             HF+Q FK +G+  K+F+   K  +   P     P+  K ++MF GT+EKC  C KTVYP+
Sbjct:    61 HFDQNFKRTGSLEKSFEGTPKIGKPDRPLEGERPAGTKVSNMFGGTREKCVGCDKTVYPI 120

Query:   119 EKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHL 173
             EKV+V    YHK+CFKC+HGGC+ISPSNY A EG LYCKHH  QL KEKG+ + L
Sbjct:   121 EKVSVNGTLYHKSCFKCTHGGCTISPSNYIAHEGKLYCKHHHIQLIKEKGNLSQL 175

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

GO:0005737 "cytoplasm" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

GO:0051015 "actin filament binding" evidence=IDA

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

GO:0006944 "cellular membrane fusion" evidence=RCA

MGI|MGI:1330824 Csrp3 "cysteine and glycine-rich protein 3" [Mus musculus (taxid:10090)]

 Score = 257 (95.5 bits), Expect = 4.3e-22, P = 4.3e-22
 Identities = 64/180 (35%), Positives = 91/180 (50%)

Query:     5 GTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCK----- 59
             G   KC  CEKTVY  E++  +G  +HK+CF C  C+  L  +  ++ E  +YCK     
Sbjct:     5 GGGAKCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCKVCYGR 64

Query:    60 ---PH---FEQ----LFKESG-NFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKC 108
                P    F Q    L  ++G +    FQ   K A   T   T +PSK ++ F G  EKC
Sbjct:    65 RYGPKGIGFGQGAGCLSTDTGEHLGLQFQQSPKPARAAT---TSNPSKFSAKF-GESEKC 120

Query:   109 ASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKG 168
               C K+VY  EKV    + +HKTCF+C+  G S+  +N    +G LYCK  +++ F   G
Sbjct:   121 PRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCKVCYAKNFGPTG 180

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

GO:0003300 "cardiac muscle hypertrophy" evidence=ISO

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=ISO

GO:0005737 "cytoplasm" evidence=ISO

GO:0005856 "cytoskeleton" evidence=IEA

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

GO:0007275 "multicellular organismal development" evidence=IEA

GO:0007517 "muscle organ development" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0008307 "structural constituent of muscle" evidence=ISO;IMP

GO:0030018 "Z disc" evidence=ISO;IDA

GO:0030154 "cell differentiation" evidence=IEA

GO:0031433 "telethonin binding" evidence=ISO;IPI

GO:0033365 "protein localization to organelle" evidence=ISO;IMP

GO:0035995 "detection of muscle stretch" evidence=ISO;IMP

GO:0042805 "actinin binding" evidence=IDA

GO:0046872 "metal ion binding" evidence=IEA

GO:0048738 "cardiac muscle tissue development" evidence=IGI

GO:0055003 "cardiac myofibril assembly" evidence=IMP

GO:0060048 "cardiac muscle contraction" evidence=ISO;IMP

UNIPROTKB|P50461 CSRP3 "Cysteine and glycine-rich protein 3" [Homo sapiens (taxid:9606)]

 Score = 256 (95.2 bits), Expect = 5.5e-22, P = 5.5e-22
 Identities = 60/180 (33%), Positives = 88/180 (48%)

Query:     5 GTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQ 64
             G   KC  CEKTVY  E++  +G  +HK+CF C  C+  L  +  ++ E  +YCK  + +
Sbjct:     5 GGGAKCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCKVCYGR 64

Query:    65 LFKESG----------------NFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKC 108
              +   G                +    FQ   K A  +T   T +PSK  + F G  EKC
Sbjct:    65 RYGPKGIGYGQGAGCLSTDTGEHLGLQFQQSPKPARSVT---TSNPSKFTAKF-GESEKC 120

Query:   109 ASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKG 168
               C K+VY  EKV    + +HKTCF+C+  G S+  +N    +G LYCK  +++ F   G
Sbjct:   121 PRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCKVCYAKNFGPTG 180

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005856 "cytoskeleton" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0007519 "skeletal muscle tissue development" evidence=TAS

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

GO:0060048 "cardiac muscle contraction" evidence=IMP

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

GO:0030018 "Z disc" evidence=IDA

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

GO:0031433 "telethonin binding" evidence=IDA;IPI

GO:0055003 "cardiac myofibril assembly" evidence=ISS

GO:0042805 "actinin binding" evidence=ISS

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

GO:0003300 "cardiac muscle hypertrophy" evidence=IMP

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

GO:0048738 "cardiac muscle tissue development" evidence=ISS

UNIPROTKB|E2R9P5 CSRP3 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 254 (94.5 bits), Expect = 9.0e-22, P = 9.0e-22
 Identities = 60/180 (33%), Positives = 87/180 (48%)

Query:     5 GTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQ 64
             G   KC  CEKTVY  E++  +G  +HK+CF C  C+  L  +  ++ E  +YCK  + +
Sbjct:     5 GGGAKCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCKVCYGR 64

Query:    65 LFKESG----------------NFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKC 108
              +   G                +    FQ   K A   T   T +PSK  + F G  EKC
Sbjct:    65 RYGPKGIGYGQGAGCLSTDTGEHLGLQFQQSPKPARSAT---TSNPSKFTAKF-GESEKC 120

Query:   109 ASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKG 168
               C K+VY  EKV    + +HKTCF+C+  G S+  +N    +G LYCK  +++ F   G
Sbjct:   121 PRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCKVCYAKNFGPTG 180

GO:0060048 "cardiac muscle contraction" evidence=IEA

GO:0055003 "cardiac myofibril assembly" evidence=IEA

GO:0042805 "actinin binding" evidence=IEA

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

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

GO:0031433 "telethonin binding" evidence=IEA

GO:0030018 "Z disc" evidence=IEA

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

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

GO:0003300 "cardiac muscle hypertrophy" evidence=IEA

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

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|D2SQP3 CSRP3 "Cysteine and glycine-rich protein 3" [Sus scrofa (taxid:9823)]

 Score = 251 (93.4 bits), Expect = 1.9e-21, P = 1.9e-21
 Identities = 59/180 (32%), Positives = 87/180 (48%)

Query:     5 GTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQ 64
             G   KC  C+KTVY  E++  +G  +HK+CF C  C+  L  +  ++ E  +YCK  + +
Sbjct:     5 GGGAKCGACDKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCKVCYGR 64

Query:    65 LFKESG----------------NFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKC 108
              +   G                +    FQ   K A   T   T +PSK  + F G  EKC
Sbjct:    65 RYGPKGIGYGQGAGCLSTDTGEHLGLQFQQSPKPARSAT---TSNPSKFTAKF-GESEKC 120

Query:   109 ASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKG 168
               C K+VY  EKV    + +HKTCF+C+  G S+  +N    +G LYCK  +++ F   G
Sbjct:   121 PRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCKVCYAKNFGPTG 180

GO:0060048 "cardiac muscle contraction" evidence=IEA

GO:0055003 "cardiac myofibril assembly" evidence=IEA

GO:0042805 "actinin binding" evidence=IEA

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

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

GO:0031433 "telethonin binding" evidence=IEA

GO:0030018 "Z disc" evidence=IEA

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

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

GO:0003300 "cardiac muscle hypertrophy" evidence=IEA

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

GO:0008270 "zinc ion binding" evidence=IEA

RGD|71092 Csrp3 "cysteine and glycine-rich protein 3 (cardiac LIM protein)" [Rattus norvegicus (taxid:10116)]

 Score = 251 (93.4 bits), Expect = 1.9e-21, P = 1.9e-21
 Identities = 63/180 (35%), Positives = 90/180 (50%)

Query:     5 GTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCK----- 59
             G   KC  C+KTVY  E++  +G  +HK+CF C  C+  L  +  ++ E  +YCK     
Sbjct:     5 GGGAKCGACDKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCKVCYGR 64

Query:    60 ---PH---FEQ----LFKESG-NFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKC 108
                P    F Q    L  ++G +    FQ   K A   T   T +PSK ++ F G  EKC
Sbjct:    65 KYGPKGIGFGQGAGCLSTDTGEHLGLQFQQSPKPARAAT---TSNPSKFSAKF-GESEKC 120

Query:   109 ASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKG 168
               C K+VY  EKV    + +HKTCF C+  G S+  +N    +G LYCK  +++ F   G
Sbjct:   121 PRCGKSVYAAEKVMGGGKPWHKTCFPCAICGKSLESTNVTDKDGELYCKVCYAKNFGPTG 180

GO:0001974 "blood vessel remodeling" evidence=IEP

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

GO:0003300 "cardiac muscle hypertrophy" evidence=IEA;ISO

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005856 "cytoskeleton" evidence=IEA

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

GO:0007517 "muscle organ development" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

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

GO:0030018 "Z disc" evidence=IEA;ISO;IDA

GO:0030154 "cell differentiation" evidence=IEA

GO:0031433 "telethonin binding" evidence=IEA;ISO

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

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

GO:0042805 "actinin binding" evidence=IEA;ISO

GO:0048738 "cardiac muscle tissue development" evidence=ISO

GO:0055003 "cardiac myofibril assembly" evidence=IEA;ISO

GO:0060048 "cardiac muscle contraction" evidence=IEA;ISO

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P50461	CSRP3_HUMAN	No assigned EC number	0.3315	0.8677	0.8453	yes	no
P50463	CSRP3_RAT	No assigned EC number	0.3260	0.8677	0.8453	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	189
cd09440	63	cd09440, LIM1_SF3, The first Lim domain of pollen	9e-40
cd09441	61	cd09441, LIM2_SF3, The second Lim domain of pollen	8e-34
cd09358	53	cd09358, LIM_Mical_like, The LIM domain of Mical (	5e-25
cd09440	63	cd09440, LIM1_SF3, The first Lim domain of pollen	4e-23
cd09441	61	cd09441, LIM2_SF3, The second Lim domain of pollen	9e-22
cd09358	53	cd09358, LIM_Mical_like, The LIM domain of Mical (	5e-21
cd09442	53	cd09442, LIM_Eplin_like, The Lim domain of Epithel	6e-18
cd09445	53	cd09445, LIM_Mical_like_2, This domain belongs to	1e-16
cd09485	53	cd09485, LIM_Eplin_alpha_beta, The Lim domain of E	6e-16
cd09439	55	cd09439, LIM_Mical, The LIM domain of Mical (molec	3e-15
cd09486	53	cd09486, LIM_Eplin_like_1, a LIM domain subfamily	2e-14
cd09485	53	cd09485, LIM_Eplin_alpha_beta, The Lim domain of E	1e-13
cd09442	53	cd09442, LIM_Eplin_like, The Lim domain of Epithel	3e-13
pfam00412	58	pfam00412, LIM, LIM domain	6e-12
cd09447	53	cd09447, LIM_LASP, The LIM domain of LIM and SH3 P	9e-12
cd09445	53	cd09445, LIM_Mical_like_2, This domain belongs to	2e-11
pfam00412	58	pfam00412, LIM, LIM domain	3e-11
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	6e-11
cd09486	53	cd09486, LIM_Eplin_like_1, a LIM domain subfamily	7e-11
smart00132	54	smart00132, LIM, Zinc-binding domain present in Li	2e-10
cd09443	55	cd09443, LIM_Ltd-1, The LIM domain of LIM and tran	2e-10
cd09439	55	cd09439, LIM_Mical, The LIM domain of Mical (molec	5e-10
cd09447	53	cd09447, LIM_LASP, The LIM domain of LIM and SH3 P	6e-10
cd09443	55	cd09443, LIM_Ltd-1, The LIM domain of LIM and tran	6e-09
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	6e-09
cd09326	53	cd09326, LIM_CRP_like, The LIM domains of Cysteine	6e-09
cd09404	54	cd09404, LIM1_MLP84B_like, The LIM domain of Mlp84	6e-09
cd08368	53	cd08368, LIM, LIM is a small protein-protein inter	1e-08
cd09401	53	cd09401, LIM_TLP_like, The LIM domains of thymus L	1e-07
cd09444	55	cd09444, LIM_Mical_like_1, This domain belongs to	3e-07
cd09482	54	cd09482, LIM2_CRP3, The second LIM domain of Cyste	3e-07
cd09403	54	cd09403, LIM2_CRP, The second LIM domain of Cystei	7e-07
cd09326	53	cd09326, LIM_CRP_like, The LIM domains of Cysteine	8e-07
cd09482	54	cd09482, LIM2_CRP3, The second LIM domain of Cyste	8e-07
cd09359	53	cd09359, LIM_LASP_like, The LIM domain of LIM and	8e-07
cd09403	54	cd09403, LIM2_CRP, The second LIM domain of Cystei	2e-06
cd09446	53	cd09446, LIM_N_RAP, The LIM domain of N-RAP	3e-06
cd09402	53	cd09402, LIM1_CRP, The first LIM domain of Cystein	5e-06
cd09364	53	cd09364, LIM1_LIMK, The first LIM domain of LIMK (	5e-06
cd09479	56	cd09479, LIM1_CRP1, The first LIM domain of Cystei	6e-06
cd09481	54	cd09481, LIM1_CRP3, The first LIM domain of Cystei	7e-06
cd09400	61	cd09400, LIM_like_1, LIM domain in proteins of unk	9e-06
cd09359	53	cd09359, LIM_LASP_like, The LIM domain of LIM and	1e-05
cd09364	53	cd09364, LIM1_LIMK, The first LIM domain of LIMK (	1e-05
cd09400	61	cd09400, LIM_like_1, LIM domain in proteins of unk	1e-05
cd09401	53	cd09401, LIM_TLP_like, The LIM domains of thymus L	3e-05
cd09840	54	cd09840, LIM2_CRP2, The second LIM domain of Cyste	4e-05
cd09840	54	cd09840, LIM2_CRP2, The second LIM domain of Cyste	7e-05
cd09404	54	cd09404, LIM1_MLP84B_like, The LIM domain of Mlp84	1e-04
cd09444	55	cd09444, LIM_Mical_like_1, This domain belongs to	1e-04
cd09446	53	cd09446, LIM_N_RAP, The LIM domain of N-RAP	1e-04
cd09481	54	cd09481, LIM1_CRP3, The first LIM domain of Cystei	1e-04
cd09480	55	cd09480, LIM1_CRP2, The first LIM domain of Cystei	1e-04
cd09462	74	cd09462, LIM1_LIMK1, The first LIM domain of LIMK1	3e-04
cd09478	54	cd09478, LIM_CRIP, The LIM domain of Cysteine-Rich	4e-04
cd09477	54	cd09477, LIM2_TLP, The second LIM domain of thymus	4e-04
cd09476	54	cd09476, LIM1_TLP, The first LIM domain of thymus	5e-04
cd09402	53	cd09402, LIM1_CRP, The first LIM domain of Cystein	0.001
cd09476	54	cd09476, LIM1_TLP, The first LIM domain of thymus	0.001
cd09478	54	cd09478, LIM_CRIP, The LIM domain of Cysteine-Rich	0.002
cd09475	59	cd09475, LIM2_Lhx9, The second LIM domain of Lhx9	0.002
cd09463	53	cd09463, LIM1_LIMK2, The first LIM domain of LIMK2	0.002
cd09424	58	cd09424, LIM2_FHL1, The second LIM domain of Four	0.002
cd09479	56	cd09479, LIM1_CRP1, The first LIM domain of Cystei	0.003
cd09462	74	cd09462, LIM1_LIMK1, The first LIM domain of LIMK1	0.003
cd09477	54	cd09477, LIM2_TLP, The second LIM domain of thymus	0.003
cd09361	52	cd09361, LIM1_Enigma_like, The first LIM domain of	0.003
cd09377	59	cd09377, LIM2_Lhx2_Lhx9, The second LIM domain of	0.003
cd09474	59	cd09474, LIM2_Lhx2, The second LIM domain of Lhx2	0.003
cd09427	58	cd09427, LIM2_FHL3, The second LIM domain of Four	0.004

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

 Score =  129 bits (326), Expect = 9e-40
 Identities = 57/63 (90%), Positives = 60/63 (95%)

Query: 6  TQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQL 65
          T QKCK C+KTVY V+QLSADGVVYHKSCF+CSHCKGTLKLSNYSSMEGVLYCKPHFEQL
Sbjct: 1  TTQKCKACDKTVYLVDQLSADGVVYHKSCFRCSHCKGTLKLSNYSSMEGVLYCKPHFEQL 60

Query: 66 FKE 68
          FKE
Sbjct: 61 FKE 63

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

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

 Score =  114 bits (286), Expect = 8e-34
 Identities = 48/61 (78%), Positives = 53/61 (86%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEK 167
           C +C KTVYP+EKV VE  +YHK+CFKCSHGGC+ISPSNYAA EG LYCKHH SQLFKEK
Sbjct: 1   CVACGKTVYPIEKVTVEGTSYHKSCFKCSHGGCTISPSNYAAHEGRLYCKHHHSQLFKEK 60

Query: 168 G 168
           G
Sbjct: 61  G 61

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

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

 Score = 91.6 bits (228), Expect = 5e-25
 Identities = 37/53 (69%), Positives = 45/53 (84%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHF 62
          C VC KTVYP+E+L ADG ++HKSCF+CSHC  TL+L NY+S+EG LYCKPHF
Sbjct: 1  CAVCGKTVYPMERLVADGKLFHKSCFRCSHCNKTLRLGNYASLEGKLYCKPHF 53

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

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

 Score = 87.1 bits (216), Expect = 4e-23
 Identities = 32/63 (50%), Positives = 48/63 (76%)

Query: 104 TQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQL 163
           T +KC +C KTVY +++++ +   YHK+CF+CSH   ++  SNY+++EG+LYCK HF QL
Sbjct: 1   TTQKCKACDKTVYLVDQLSADGVVYHKSCFRCSHCKGTLKLSNYSSMEGVLYCKPHFEQL 60

Query: 164 FKE 166
           FKE
Sbjct: 61  FKE 63

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

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

 Score = 83.3 bits (206), Expect = 9e-22
 Identities = 36/61 (59%), Positives = 44/61 (72%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKES 69
          C  C KTVYP+E+++ +G  YHKSCFKCSH   T+  SNY++ EG LYCK H  QLFKE 
Sbjct: 1  CVACGKTVYPIEKVTVEGTSYHKSCFKCSHGGCTISPSNYAAHEGRLYCKHHHSQLFKEK 60

Query: 70 G 70
          G
Sbjct: 61 G 61

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

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

 Score = 81.2 bits (201), Expect = 5e-21
 Identities = 28/53 (52%), Positives = 39/53 (73%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHF 160
           CA C KTVYP+E++  + + +HK+CF+CSH   ++   NYA+LEG LYCK HF
Sbjct: 1   CAVCGKTVYPMERLVADGKLFHKSCFRCSHCNKTLRLGNYASLEGKLYCKPHF 53

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

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

 Score = 73.3 bits (180), Expect = 6e-18
 Identities = 31/53 (58%), Positives = 39/53 (73%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHF 62
          C VC+K VYP+E+L AD   +HKSCF+C HC   L L NY+S+ G +YCKPHF
Sbjct: 1  CTVCQKRVYPMERLIADKQNFHKSCFRCEHCNSKLSLGNYASLHGRIYCKPHF 53

The Lim domain of Epithelial Protein Lost in Neoplasm (Eplin) like proteins: This family contains Epithelial Protein Lost in Neoplasm in Neoplasm (Eplin), xin actin-binding repeat-containing protein 2 (XIRP2) and a group of protein with unknown function. The members of this family all contain a single LIM domain. Epithelial Protein Lost in Neoplasm is a cytoskeleton-associated tumor suppressor whose expression inversely correlates with cell growth, motility, invasion and cancer mortality. Eplin interacts and stabilizes F-actin filaments and stress fibers, which correlates with its ability to suppress anchorage independent growth. In epithelial cells, Eplin is required for formation of the F-actin adhesion belt by binding to the E-cadherin-catenin complex through alpha-catenin. Eplin is expressed in two isoforms, a longer Eplin-beta and a shorter Eplin-alpha. Eplin-alpha mRNA is detected in various tissues and cell lines, but is absent or down regulated in cancer cells. Xirp2 contains a LIM domain and Xin re peats for binding to and stabilising F-actin. Xirp2 is expressed in muscles and is significantly induced in the heart in response to systemic administration of angiotensin II. Xirp2 is an important effector of the Ang II signaling pathway in the heart. The expression of Xirp2 is activated by myocyte enhancer factor (MEF)2A, whose transcriptional activity is stimulated by angiotersin II. Thus, Xirp2 plays important pathological roles in the angiotensin II induced hypertension. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 53

>gnl|CDD|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 = 70.2 bits (172), Expect = 1e-16
 Identities = 27/53 (50%), Positives = 36/53 (67%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHF 62
          C+ C K VY +E++ A+  +YHK+CF+C  C   LK+ NY S EG LYCK HF
Sbjct: 1  CRSCGKPVYKMEEIIAEKHIYHKNCFRCKDCNKQLKVDNYQSHEGNLYCKVHF 53

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

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

 Score = 68.4 bits (167), Expect = 6e-16
 Identities = 29/53 (54%), Positives = 39/53 (73%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHF 62
          C  C+KTVYP+E+L A+  +YH SCF+CS+C   L L  Y+S+ G +YCKPHF
Sbjct: 1  CVSCQKTVYPLERLVANQQIYHNSCFRCSYCNTKLSLGTYASLHGNIYCKPHF 53

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

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

 Score = 66.6 bits (163), Expect = 3e-15
 Identities = 29/55 (52%), Positives = 40/55 (72%), Gaps = 2/55 (3%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYS--SMEGVLYCKPHF 62
          C  C+K VY +E+LSA+G+ +H+SCFKCS+C  TL+L  Y+    +G  YCKPHF
Sbjct: 1  CYFCKKRVYVMERLSAEGLFFHRSCFKCSYCGTTLRLGAYAFDRDDGKFYCKPHF 55

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

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

 Score = 64.2 bits (156), Expect = 2e-14
 Identities = 29/53 (54%), Positives = 38/53 (71%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHF 62
          C  C+KTVYP+E+L AD +V+H SCF C HC   L L +Y+++ G  YCKPHF
Sbjct: 1  CSSCQKTVYPMERLVADKLVFHNSCFCCKHCNAKLSLGSYAALHGEFYCKPHF 53

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

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

 Score = 62.2 bits (151), Expect = 1e-13
 Identities = 27/53 (50%), Positives = 35/53 (66%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHF 160
           C SC KTVYPLE++    Q YH +CF+CS+    +S   YA+L G +YCK HF
Sbjct: 1   CVSCQKTVYPLERLVANQQIYHNSCFRCSYCNTKLSLGTYASLHGNIYCKPHF 53

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

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

 Score = 61.0 bits (148), Expect = 3e-13
 Identities = 25/53 (47%), Positives = 35/53 (66%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHF 160
           C  C K VYP+E++  + Q +HK+CF+C H    +S  NYA+L G +YCK HF
Sbjct: 1   CTVCQKRVYPMERLIADKQNFHKSCFRCEHCNSKLSLGNYASLHGRIYCKPHF 53

The Lim domain of Epithelial Protein Lost in Neoplasm (Eplin) like proteins: This family contains Epithelial Protein Lost in Neoplasm in Neoplasm (Eplin), xin actin-binding repeat-containing protein 2 (XIRP2) and a group of protein with unknown function. The members of this family all contain a single LIM domain. Epithelial Protein Lost in Neoplasm is a cytoskeleton-associated tumor suppressor whose expression inversely correlates with cell growth, motility, invasion and cancer mortality. Eplin interacts and stabilizes F-actin filaments and stress fibers, which correlates with its ability to suppress anchorage independent growth. In epithelial cells, Eplin is required for formation of the F-actin adhesion belt by binding to the E-cadherin-catenin complex through alpha-catenin. Eplin is expressed in two isoforms, a longer Eplin-beta and a shorter Eplin-alpha. Eplin-alpha mRNA is detected in various tissues and cell lines, but is absent or down regulated in cancer cells. Xirp2 contains a LIM domain and Xin re peats for binding to and stabilising F-actin. Xirp2 is expressed in muscles and is significantly induced in the heart in response to systemic administration of angiotensin II. Xirp2 is an important effector of the Ang II signaling pathway in the heart. The expression of Xirp2 is activated by myocyte enhancer factor (MEF)2A, whose transcriptional activity is stimulated by angiotersin II. Thus, Xirp2 plays important pathological roles in the angiotensin II induced hypertension. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 53

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

 Score = 57.7 bits (140), Expect = 6e-12
 Identities = 21/58 (36%), Positives = 32/58 (55%), Gaps = 1/58 (1%)

Query: 108 CASCSKTVYPLEKV-AVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLF 164
           CA C K +Y  E V     + +H  CF+C+  G  + P ++   +G LYCKH + +LF
Sbjct: 1   CAGCGKPIYDRELVRRALGKVWHPECFRCAVCGKPLGPGDFFEKDGKLYCKHDYFKLF 58

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

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

 Score = 57.0 bits (138), Expect = 9e-12
 Identities = 23/53 (43%), Positives = 29/53 (54%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHF 62
          C  C KTVYP E+L+    ++HK CFKC  C  TL + NY       YC  H+
Sbjct: 1  CARCGKTVYPTEKLNCLDKIWHKGCFKCEVCGMTLNMKNYKGYNKKPYCNAHY 53

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

>gnl|CDD|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 = 56.3 bits (136), Expect = 2e-11
 Identities = 24/53 (45%), Positives = 30/53 (56%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHF 160
           C SC K VY +E++  E   YHK CF+C      +   NY + EG LYCK HF
Sbjct: 1   CRSCGKPVYKMEEIIAEKHIYHKNCFRCKDCNKQLKVDNYQSHEGNLYCKVHF 53

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

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

 Score = 56.2 bits (136), Expect = 3e-11
 Identities = 21/58 (36%), Positives = 31/58 (53%), Gaps = 1/58 (1%)

Query: 10 CKVCEKTVYPVEQLS-ADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
          C  C K +Y  E +  A G V+H  CF+C+ C   L   ++   +G LYCK  + +LF
Sbjct: 1  CAGCGKPIYDRELVRRALGKVWHPECFRCAVCGKPLGPGDFFEKDGKLYCKHDYFKLF 58

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

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

 Score = 55.1 bits (133), Expect = 6e-11
 Identities = 22/54 (40%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 9  KCKVCEKTVYPVEQ-LSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPH 61
          KC  C K +Y  E+ L A G V+H  CFKC+ C   L    +   +G LYCK  
Sbjct: 1  KCAGCGKPIYGTERVLRALGKVWHPECFKCATCGKPLSGDTFFEKDGKLYCKDC 54

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

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

 Score = 55.0 bits (132), Expect = 7e-11
 Identities = 25/53 (47%), Positives = 34/53 (64%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHF 160
           C+SC KTVYP+E++  +   +H +CF C H    +S  +YAAL G  YCK HF
Sbjct: 1   CSSCQKTVYPMERLVADKLVFHNSCFCCKHCNAKLSLGSYAALHGEFYCKPHF 53

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

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

 Score = 53.5 bits (129), Expect = 2e-10
 Identities = 20/54 (37%), Positives = 28/54 (51%), Gaps = 1/54 (1%)

Query: 107 KCASCSKTVYPLEKV-AVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHH 159
           KCA C K +Y  E+V     + +H  CFKC+  G  +S   +   +G LYCK  
Sbjct: 1   KCAGCGKPIYGTERVLRALGKVWHPECFKCATCGKPLSGDTFFEKDGKLYCKDC 54

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

>gnl|CDD|188827 cd09443, LIM_Ltd-1, The LIM domain of LIM and transglutaminase domains protein (Ltd-1)

 Score = 54.0 bits (130), Expect = 2e-10
 Identities = 23/54 (42%), Positives = 28/54 (51%), Gaps = 2/54 (3%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYS--SMEGVLYCKPH 61
          C  C KT YP E +  DG  YHK CFKC  C   L L  ++    +G +YC  H
Sbjct: 1  CPRCGKTAYPAESVDKDGTFYHKGCFKCRECGTRLSLKTFTFVQGDGEVYCARH 54

The LIM domain of LIM and transglutaminase domains protein (Ltd-1): This family includes mouse Ky protein and Caenorhabditis elegans Ltd-1 protein. The members of this family consists a N-terminal Lim domain and a C-terminal transglutaminase domain. The mouse Ky protein has putative function in muscle development. The mouse with ky mutant exhibits combined posterior and lateral curvature of the spine. The Ltd-1 gene in C. elegans is expressed in developing hypodermal cells from the twofold stage embryo through adulthood. These data define the ltd-1 gene as a novel marker for C. elegans epithelial cell development. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 55

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

 Score = 52.7 bits (127), Expect = 5e-10
 Identities = 22/55 (40%), Positives = 33/55 (60%), Gaps = 2/55 (3%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYA--ALEGILYCKHHF 160
           C  C K VY +E+++ E   +H++CFKCS+ G ++    YA    +G  YCK HF
Sbjct: 1   CYFCKKRVYVMERLSAEGLFFHRSCFKCSYCGTTLRLGAYAFDRDDGKFYCKPHF 55

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

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

 Score = 52.4 bits (126), Expect = 6e-10
 Identities = 22/53 (41%), Positives = 30/53 (56%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHF 160
           CA C KTVYP EK+   ++ +HK CFKC   G +++  NY       YC  H+
Sbjct: 1   CARCGKTVYPTEKLNCLDKIWHKGCFKCEVCGMTLNMKNYKGYNKKPYCNAHY 53

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

>gnl|CDD|188827 cd09443, LIM_Ltd-1, The LIM domain of LIM and transglutaminase domains protein (Ltd-1)

 Score = 49.7 bits (119), Expect = 6e-09
 Identities = 21/54 (38%), Positives = 26/54 (48%), Gaps = 2/54 (3%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYA--ALEGILYCKHH 159
           C  C KT YP E V  +   YHK CFKC   G  +S   +     +G +YC  H
Sbjct: 1   CPRCGKTAYPAESVDKDGTFYHKGCFKCRECGTRLSLKTFTFVQGDGEVYCARH 54

The LIM domain of LIM and transglutaminase domains protein (Ltd-1): This family includes mouse Ky protein and Caenorhabditis elegans Ltd-1 protein. The members of this family consists a N-terminal Lim domain and a C-terminal transglutaminase domain. The mouse Ky protein has putative function in muscle development. The mouse with ky mutant exhibits combined posterior and lateral curvature of the spine. The Ltd-1 gene in C. elegans is expressed in developing hypodermal cells from the twofold stage embryo through adulthood. These data define the ltd-1 gene as a novel marker for C. elegans epithelial cell development. As in other LIM domains, this domain family is 50-60 amino acids in size and shares two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein. Length = 55

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

 Score = 49.6 bits (119), Expect = 6e-09
 Identities = 18/53 (33%), Positives = 25/53 (47%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHF 62
          C  C K +   E L A G  +H  CFKCS C   L   ++   +G  YC+  +
Sbjct: 1  CAGCGKPIEGRELLRALGKKWHPECFKCSVCGKPLGGDSFYEKDGKPYCEKCY 53

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

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

 Score = 49.5 bits (119), Expect = 6e-09
 Identities = 20/50 (40%), Positives = 29/50 (58%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCK 59
          C  C K+VY  E++ A G  +HKSCF C+ C   L  +  +  +G +YCK
Sbjct: 1  CPRCGKSVYAAEEVIAAGKSWHKSCFTCAVCNKRLDSTTLAEHDGEIYCK 50

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

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

 Score = 49.8 bits (119), Expect = 6e-09
 Identities = 24/52 (46%), Positives = 29/52 (55%)

Query: 9  KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60
          KC  C K+VY  E+  A G  +HK CFKC  C   L  +N +  EG LYCK 
Sbjct: 1  KCPKCGKSVYAAEERLAGGYKWHKMCFKCGMCNKLLDSTNCAEHEGELYCKQ 52

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

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

 Score = 48.8 bits (117), Expect = 1e-08
 Identities = 15/53 (28%), Positives = 25/53 (47%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHF 160
           CA C K +   E +    + +H  CFKCS  G  +   ++   +G  YC+  +
Sbjct: 1   CAGCGKPIEGRELLRALGKKWHPECFKCSVCGKPLGGDSFYEKDGKPYCEKCY 53

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

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

 Score = 45.8 bits (109), Expect = 1e-07
 Identities = 20/51 (39%), Positives = 26/51 (50%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60
          C  C K VY  E+ ++ G  +HK C +C  CK TL    +S  EG  YC  
Sbjct: 1  CPKCGKPVYFAEKKTSLGRDWHKPCLRCEKCKKTLTPGQHSEHEGKPYCNK 51

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

>gnl|CDD|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 = 45.1 bits (107), Expect = 3e-07
 Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 2/55 (3%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSME--GVLYCKPHF 62
          C  C + V+ V++   DG +YH++CF+C  C  TL   +Y +    G   C  H 
Sbjct: 1  CAACGQHVHLVQRHLVDGKLYHRNCFRCKECSSTLLPGSYKAGPEPGTFVCTHHH 55

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

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

 Score = 45.0 bits (106), Expect = 3e-07
 Identities = 21/50 (42%), Positives = 29/50 (58%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCK 157
           C  C K+VY  EKV    + +HKTCF+C+  G S+  +     +G LYCK
Sbjct: 1   CPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTTVTDKDGELYCK 50

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

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

 Score = 44.1 bits (104), Expect = 7e-07
 Identities = 19/50 (38%), Positives = 29/50 (58%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCK 157
           C  C K+VY  EK+    + +HK CF+C+  G S+  +  A  +G +YCK
Sbjct: 1   CPRCGKSVYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLADKDGEIYCK 50

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

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

 Score = 44.1 bits (105), Expect = 8e-07
 Identities = 17/50 (34%), Positives = 28/50 (56%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCK 157
           C  C K+VY  E+V    +++HK+CF C+     +  +  A  +G +YCK
Sbjct: 1   CPRCGKSVYAAEEVIAAGKSWHKSCFTCAVCNKRLDSTTLAEHDGEIYCK 50

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

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

 Score = 44.2 bits (104), Expect = 8e-07
 Identities = 19/50 (38%), Positives = 31/50 (62%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCK 59
          C  C K+VY  E++   G  +HK+CF+C+ C  +L+ +  +  +G LYCK
Sbjct: 1  CPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTTVTDKDGELYCK 50

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

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

 Score = 44.2 bits (104), Expect = 8e-07
 Identities = 21/53 (39%), Positives = 30/53 (56%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHF 62
          C  C K VYP E+++     +HK+CF C  CK TL ++NY   +   YC  H+
Sbjct: 1  CARCGKIVYPTEKVNCLDKTWHKACFHCEVCKMTLNMNNYKGYQKKPYCNAHY 53

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

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

 Score = 43.3 bits (102), Expect = 2e-06
 Identities = 18/50 (36%), Positives = 31/50 (62%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCK 59
          C  C K+VY  E++   G  +HK+CF+C+ C  +L+ +  +  +G +YCK
Sbjct: 1  CPRCGKSVYAAEKIIGAGKPWHKNCFRCAKCGKSLESTTLADKDGEIYCK 50

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

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

 Score = 42.6 bits (100), Expect = 3e-06
 Identities = 19/52 (36%), Positives = 29/52 (55%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPH 61
          C  C   VYP E+++     +HK+CF C  CK  L ++N+ S +   YC+ H
Sbjct: 1  CARCGYGVYPAEKINCIDQTWHKACFHCEVCKMMLTVNNFVSHQKKPYCQAH 52

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

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

 Score = 41.9 bits (98), Expect = 5e-06
 Identities = 21/50 (42%), Positives = 30/50 (60%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCK 59
          C  CEKTVY  E++  +G  +HKSCF C  C+  L  +  ++ E  +YCK
Sbjct: 1  CGACEKTVYHAEEVQCEGRSFHKSCFLCMVCRKNLDSTTVAAHEDEIYCK 50

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

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

 Score = 41.7 bits (98), Expect = 5e-06
 Identities = 21/54 (38%), Positives = 28/54 (51%), Gaps = 3/54 (5%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSN-YAALEGILYCKHHF 160
           CA C   +   + V   NQ +H  CF+CS   CS S SN Y   +G LYC+  +
Sbjct: 1   CAGCRGKILDSQYVQALNQDWHCDCFRCSV--CSDSLSNWYFEKDGKLYCRKDY 52

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

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

 Score = 41.9 bits (98), Expect = 6e-06
 Identities = 22/52 (42%), Positives = 31/52 (59%)

Query: 8  QKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCK 59
          +KC VC+KTVY  E++  +G  +HKSCF C  CK  L  +  +     +YCK
Sbjct: 1  KKCGVCQKTVYFAEEVQCEGRSFHKSCFLCMVCKKNLDSTTVAVHGEEIYCK 52

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

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

 Score = 41.7 bits (97), Expect = 7e-06
 Identities = 21/51 (41%), Positives = 31/51 (60%)

Query: 9  KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCK 59
          KC  CEKTVY  E++  +G  +HK+CF C  C+  L  +  ++ E  +YCK
Sbjct: 1  KCGACEKTVYHAEEIQCNGRSFHKTCFICMACRKALDSTTVAAHESEIYCK 51

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

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

 Score = 41.3 bits (97), Expect = 9e-06
 Identities = 20/51 (39%), Positives = 31/51 (60%)

Query: 106 EKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYC 156
           E CASC   V+  E++ +E + YH+TCFKC+  G  ++P ++   E   YC
Sbjct: 3   EPCASCGLPVFLAERLLIEGKVYHRTCFKCARCGVQLTPGSFYETEYGSYC 53

LIM domain in proteins of unknown function: LIM domains are identified in a diverse group of proteins with wide variety of biological functions, including gene expression regulation, cell fate determination, cytoskeleton organization, tumor formation, and development. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. They perform their functions through interactions with other protein partners. The LIM domains are 50-60 amino acids in size and share two characteristic highly conserved zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. The consensus sequence of LIM domain has been defined as C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16, 21)-C-x(2,3)-[CHD] (where X denotes any amino acid). Length = 61

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

 Score = 40.7 bits (95), Expect = 1e-05
 Identities = 20/53 (37%), Positives = 29/53 (54%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHF 160
           CA C K VYP EKV   ++ +HK CF C     +++ +NY   +   YC  H+
Sbjct: 1   CARCGKIVYPTEKVNCLDKTWHKACFHCEVCKMTLNMNNYKGYQKKPYCNAHY 53

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

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

 Score = 40.9 bits (96), Expect = 1e-05
 Identities = 15/53 (28%), Positives = 25/53 (47%), Gaps = 1/53 (1%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHF 62
          C  C   +   + + A    +H  CF+CS C  +L  + Y   +G LYC+  +
Sbjct: 1  CAGCRGKILDSQYVQALNQDWHCDCFRCSVCSDSLS-NWYFEKDGKLYCRKDY 52

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

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

 Score = 40.9 bits (96), Expect = 1e-05
 Identities = 18/50 (36%), Positives = 26/50 (52%)

Query: 9  KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYC 58
           C  C   V+  E+L  +G VYH++CFKC+ C   L   ++   E   YC
Sbjct: 4  PCASCGLPVFLAERLLIEGKVYHRTCFKCARCGVQLTPGSFYETEYGSYC 53

LIM domain in proteins of unknown function: LIM domains are identified in a diverse group of proteins with wide variety of biological functions, including gene expression regulation, cell fate determination, cytoskeleton organization, tumor formation, and development. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. They perform their functions through interactions with other protein partners. The LIM domains are 50-60 amino acids in size and share two characteristic highly conserved zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. The consensus sequence of LIM domain has been defined as C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16, 21)-C-x(2,3)-[CHD] (where X denotes any amino acid). Length = 61

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

 Score = 39.6 bits (93), Expect = 3e-05
 Identities = 16/51 (31%), Positives = 24/51 (47%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKH 158
           C  C K VY  EK     + +HK C +C     +++P  ++  EG  YC  
Sbjct: 1   CPKCGKPVYFAEKKTSLGRDWHKPCLRCEKCKKTLTPGQHSEHEGKPYCNK 51

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

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

 Score = 39.3 bits (91), Expect = 4e-05
 Identities = 18/50 (36%), Positives = 30/50 (60%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCK 59
          C  C  +VY  E++   G  +HK+CF+C+ C  +L+ +  +  EG +YCK
Sbjct: 1  CSRCGDSVYAAEKIMGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCK 50

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

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

 Score = 38.9 bits (90), Expect = 7e-05
 Identities = 18/50 (36%), Positives = 28/50 (56%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCK 157
           C+ C  +VY  EK+    + +HK CF+C+  G S+  +     EG +YCK
Sbjct: 1   CSRCGDSVYAAEKIMGAGKPWHKNCFRCAKCGKSLESTTLTEKEGEIYCK 50

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

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

 Score = 38.2 bits (89), Expect = 1e-04
 Identities = 21/51 (41%), Positives = 26/51 (50%)

Query: 107 KCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCK 157
           KC  C K+VY  E+       +HK CFKC      +  +N A  EG LYCK
Sbjct: 1   KCPKCGKSVYAAEERLAGGYKWHKMCFKCGMCNKLLDSTNCAEHEGELYCK 51

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|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 = 38.2 bits (89), Expect = 1e-04
 Identities = 17/55 (30%), Positives = 30/55 (54%), Gaps = 2/55 (3%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALE--GILYCKHHF 160
           CA+C + V+ +++  V+ + YH+ CF+C     ++ P +Y A    G   C HH 
Sbjct: 1   CAACGQHVHLVQRHLVDGKLYHRNCFRCKECSSTLLPGSYKAGPEPGTFVCTHHH 55

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

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

 Score = 38.4 bits (89), Expect = 1e-04
 Identities = 18/52 (34%), Positives = 28/52 (53%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHH 159
           CA C   VYP EK+   +Q +HK CF C      ++ +N+ + +   YC+ H
Sbjct: 1   CARCGYGVYPAEKINCIDQTWHKACFHCEVCKMMLTVNNFVSHQKKPYCQAH 52

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

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

 Score = 37.8 bits (87), Expect = 1e-04
 Identities = 20/51 (39%), Positives = 30/51 (58%)

Query: 107 KCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCK 157
           KC +C KTVY  E++    +++HKTCF C     ++  +  AA E  +YCK
Sbjct: 1   KCGACEKTVYHAEEIQCNGRSFHKTCFICMACRKALDSTTVAAHESEIYCK 51

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

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

 Score = 38.4 bits (89), Expect = 1e-04
 Identities = 19/51 (37%), Positives = 28/51 (54%)

Query: 9  KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCK 59
          KC  C +TVY  E++  DG  +HK CF C  C+  L  +  +  +  +YCK
Sbjct: 1  KCGACGRTVYHAEEVQCDGRSFHKCCFLCMVCRKNLDSTTVAIHDQEIYCK 51

The first LIM domain of Cysteine Rich Protein 2 (CRP2): The CRP family members include CRP1, CRP2, CRP3/MLP and TLP. CRP1, CRP2 and CRP3 share a conserved nuclear targeting signal (K/R-K/R-Y-G-P-K), which supports the fact that these proteins function not only in the cytoplasm but also in the nucleus. CRPs control regulatory pathways during cellular differentiation, and involve in complex transcription circuits, and the organization as well as the arrangement of the myofibrillar/cytoskeletal network. CRP2 specifically binds to protein inhibitor of activated STAT-1 (PIAS1) and a novel human protein designed CRP2BP (for CRP2 binding partner). PIAS1 specifically inhibits the STAT-1 pathway and CRP2BP is homologous to members of the histone acetyltransferase family raising the possibility that CRP2 is a modulator of cytokine-controlled pathways or is functionally active in the transcriptional regulatory network. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 55

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

 Score = 37.6 bits (87), Expect = 3e-04
 Identities = 18/53 (33%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHF 160
           CASC +++Y  + +   N  +H  CF+C   G S+S   Y   +G L+CK  +
Sbjct: 22  CASCGQSIYDGQYLQALNSDWHADCFRCCECGASLSHWYYEK-DGRLFCKKDY 73

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

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

 Score = 36.8 bits (85), Expect = 4e-04
 Identities = 18/51 (35%), Positives = 28/51 (54%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKH 158
           C  C K VY  E+V    + +H+ C KC   G +++P ++A  +G  YC H
Sbjct: 1   CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTPGSHAEHDGKPYCNH 51

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

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

 Score = 36.5 bits (84), Expect = 4e-04
 Identities = 17/49 (34%), Positives = 26/49 (53%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYC 58
          C  C K VY  E++ + G  +H+ C +C  CK TL    ++  +G  YC
Sbjct: 1  CPGCGKPVYFAEKVMSLGRNWHRPCLRCQRCKKTLTAGGHAEHDGSPYC 49

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

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

 Score = 36.5 bits (84), Expect = 5e-04
 Identities = 18/49 (36%), Positives = 27/49 (55%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYC 58
          C  C+KTVY  E++S+ G  +H+ C KC  C   L    ++  +G  YC
Sbjct: 1  CPRCDKTVYFAEKVSSLGKNWHRFCLKCERCSKILSPGGHAEHDGKPYC 49

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

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

 Score = 35.3 bits (81), Expect = 0.001
 Identities = 20/50 (40%), Positives = 30/50 (60%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCK 157
           C +C KTVY  E+V  E +++HK+CF C     ++  +  AA E  +YCK
Sbjct: 1   CGACEKTVYHAEEVQCEGRSFHKSCFLCMVCRKNLDSTTVAAHEDEIYCK 50

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

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

 Score = 35.3 bits (81), Expect = 0.001
 Identities = 19/49 (38%), Positives = 26/49 (53%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYC 156
           C  C KTVY  EKV+   + +H+ C KC      +SP  +A  +G  YC
Sbjct: 1   CPRCDKTVYFAEKVSSLGKNWHRFCLKCERCSKILSPGGHAEHDGKPYC 49

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

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

 Score = 34.5 bits (79), Expect = 0.002
 Identities = 17/49 (34%), Positives = 28/49 (57%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYC 58
          C  C+K VY  E++++ G  +H+ C KC  C  TL   +++  +G  YC
Sbjct: 1  CPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTPGSHAEHDGKPYC 49

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

>gnl|CDD|188859 cd09475, LIM2_Lhx9, The second LIM domain of Lhx9

 Score = 35.4 bits (81), Expect = 0.002
 Identities = 20/57 (35%), Positives = 30/57 (52%), Gaps = 2/57 (3%)

Query: 8  QKCKVCEKTVYPVEQ-LSADGVVYHKSCFKCSHCKGTLKLSNYSSM-EGVLYCKPHF 62
          Q+C  C   +   E  + A   VYH SCF C+ C  TL   ++  M + ++YC+ HF
Sbjct: 3  QRCARCHLGISASEMVMRARESVYHLSCFTCTTCNKTLTTGDHFGMKDNLVYCRAHF 59

The second LIM domain of Lhx9: Lhx9 belongs to the LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs, such as the pituitary gland and the pancreas. Lhx9 is highly homologous to Lhx2. It is expressed in several regions of the developing mouse brain, the spinal cord, the pancreas, in limb mesenchyme, and in the urogenital region. Lhx9 plays critical roles in gonad development. Homozygous mice lacking functional Lhx9 alleles exhibit numerous urogenital defects, such as gonadal agenesis, infertility, and undetectable levels of testosterone and estradiol coupled with high FSH levels. Lhx9 null mice have reduced levels of the Sf1 nuclear receptor that is required for gonadogenesis, and recent studies have shown that Lhx9 is able to activate the Sf1/FtzF1 gene. Lhx9 null mice are phenotypically female, even those that are genotypically male. 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 = 59

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

 Score = 34.8 bits (80), Expect = 0.002
 Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 3/54 (5%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSN-YAALEGILYCKHHF 160
           C  C   +       V  +A+H +CF+CS   C    +N Y   +G LYC  H+
Sbjct: 1   CTGCGGRIQDSFHYRVVQEAWHNSCFQCSV--CQDLLTNWYYEKDGKLYCHKHY 52

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

>gnl|CDD|188808 cd09424, LIM2_FHL1, The second LIM domain of Four and a half LIM domains protein 1 (FHL1)

 Score = 35.1 bits (81), Expect = 0.002
 Identities = 20/58 (34%), Positives = 29/58 (50%), Gaps = 1/58 (1%)

Query: 10 CKVCEKTVYPVEQ-LSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
          CK C K +   +Q +   G V+HK CF CS+CK  +   ++       YC P  E+ F
Sbjct: 1  CKGCYKDILAGDQNVEYKGNVWHKDCFTCSNCKQPIGTKSFFPKGEDFYCVPCHEKKF 58

The second LIM domain of Four and a half LIM domains protein 1 (FHL1): FHL1 is heavily expressed in skeletal and cardiac muscles. It plays important roles in muscle growth, differentiation, and sarcomere assembly by acting as a modulator of transcription factors. Defects in FHL1 gene are responsible for a number of Muscular dystrophy-like muscle disorders. It has been detected that FHL1 binds to Myosin-binding protein C, regulating myosin filament formation and sarcomere assembly. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 58

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

 Score = 34.6 bits (79), Expect = 0.003
 Identities = 19/52 (36%), Positives = 29/52 (55%)

Query: 106 EKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCK 157
           +KC  C KTVY  E+V  E +++HK+CF C     ++  +  A     +YCK
Sbjct: 1   KKCGVCQKTVYFAEEVQCEGRSFHKSCFLCMVCKKNLDSTTVAVHGEEIYCK 52

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

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

 Score = 34.9 bits (80), Expect = 0.003
 Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHF 62
          C  C +++Y  + L A    +H  CF+C  C  +L    Y   +G L+CK  +
Sbjct: 22 CASCGQSIYDGQYLQALNSDWHADCFRCCECGASLS-HWYYEKDGRLFCKKDY 73

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

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

 Score = 34.2 bits (78), Expect = 0.003
 Identities = 15/49 (30%), Positives = 24/49 (48%)

Query: 108 CASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYC 156
           C  C K VY  EKV    + +H+ C +C     +++   +A  +G  YC
Sbjct: 1   CPGCGKPVYFAEKVMSLGRNWHRPCLRCQRCKKTLTAGGHAEHDGSPYC 49

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

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

 Score = 34.3 bits (79), Expect = 0.003
 Identities = 14/40 (35%), Positives = 20/40 (50%)

Query: 23 LSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHF 62
          L A G  +H   F CSHC  +L    +   +G LYC+  +
Sbjct: 13 LVALGRSWHPEEFTCSHCHCSLAEIGFVEEKGSLYCELCY 52

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

>gnl|CDD|188763 cd09377, LIM2_Lhx2_Lhx9, The second LIM domain of Lhx2 and Lhx9 family

 Score = 34.2 bits (79), Expect = 0.003
 Identities = 12/35 (34%), Positives = 22/35 (62%), Gaps = 1/35 (2%)

Query: 29 VYHKSCFKCSHCKGTLKLSNYSSM-EGVLYCKPHF 62
          V+H +CF C+ C   L   ++  M +G++YC+ H+
Sbjct: 25 VFHLNCFTCATCNKPLTKGDHFGMRDGLVYCRLHY 59

The second LIM domain of Lhx2 and Lhx9 family: Lhx2 and Lhx9 are highly homologous LHX regulatory proteins. They belong to the LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs, such as the pituitary gland and the pancreas. Although Lhx2 and Lhx9 are highly homologous, they seems to play regulatory roles in different organs. In animals, Lhx2 plays important roles in eye, cerebral cortex, limb, the olfactory organs, and erythrocyte development. Lhx2 gene knockout mice exhibit impaired patterning of the cortical hem and the telencephalon of the developing brain, and a lack of development in olfactory structures. Lhx9 is expressed in several regions of the developing mouse brain, the spinal cord, the pancreas, in limb mesenchyme, and in the urogenital region. Lhx9 plays critical roles in gonad development. Homozygous mice lacking functional Lhx9 alleles exhibit numerous urogenital defects, such as gonadal agenesis, infertility, and undetectable levels of testosterone and estradiol coupled with high FSH levels. Lhx9 null mice are phenotypically female, even those that are genotypically male. 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 = 59

>gnl|CDD|188858 cd09474, LIM2_Lhx2, The second LIM domain of Lhx2

 Score = 34.3 bits (78), Expect = 0.003
 Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 2/57 (3%)

Query: 8  QKCKVCEKTVYPVEQ-LSADGVVYHKSCFKCSHCKGTLKLSNYSSM-EGVLYCKPHF 62
          Q+C  C   +   E  + A  +VYH +CF C+ C   L   ++  M + ++YC+ HF
Sbjct: 3  QRCARCHLGISASEMVMRARDLVYHLNCFTCTTCNKMLTTGDHFGMKDNLVYCRLHF 59

The second LIM domain of Lhx2: Lhx2 belongs to the LHX protein family, which features two tandem N-terminal LIM domains and a C-terminal DNA binding homeodomain. Members of LHX family are found in the nucleus and act as transcription factors or cofactors. LHX proteins are critical for the development of specialized cells in multiple tissue types, including the nervous system, skeletal muscle, the heart, the kidneys, and endocrine organs, such as the pituitary gland and the pancreas. In animals, Lhx2 plays important roles in eye, cerebral cortex, limb, the olfactory organs, and erythrocyte development. Lhx2 gene knockout mice exhibit impaired patterning of the cortical hem and the telencephalon of the developing brain, and a lack of development in olfactory structures. The Lhx2 protein has been shown to bind to the mouse M71 olfactory receptor promoter. Similar to 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 = 59

>gnl|CDD|188811 cd09427, LIM2_FHL3, The second LIM domain of Four and a half LIM domains protein 3 (FHL3)

 Score = 34.1 bits (78), Expect = 0.004
 Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 1/56 (1%)

Query: 9  KCKVCEKTVYP-VEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFE 63
          KC  C KTV P   +L  +G  +H+ CF C  C+  +   ++   +   YC P +E
Sbjct: 3  KCVACGKTVMPGSRKLEYEGQTWHEHCFICHGCEQPIGSRSFIPDKDEHYCVPCYE 58

The second LIM domain of Four and a half LIM domains protein 3 (FHL3): FHL3 is highly expressed in the skeleton and cardiac muscles and possesses the transactivation and repression activities. FHL3 interacts with many transcription factors, such as CREB, BKLF/KLF3, CtBP2, MyoD, and MZF_1. Moreover, FHL3 interacts with alpha- and beta-subunits of the muscle alpha7beta1 integrin receptor. FHL3 was also proved to possess the auto-activation ability and was confirmed that the second zinc finger motif in fourth LIM domain was responsible for the auto-activation of FHL3. LIM domains are 50-60 amino acids in size and share two characteristic zinc finger motifs. The two zinc fingers contain eight conserved residues, mostly cysteines and histidines, which coordinately bond to two zinc atoms. LIM domains function as adaptors or scaffolds to support the assembly of multimeric protein complexes. Length = 58

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	189
KOG1701	468	consensus Focal adhesion adaptor protein Paxillin	99.94
KOG1701	468	consensus Focal adhesion adaptor protein Paxillin	99.9
KOG1700	200	consensus Regulatory protein MLP and related LIM p	99.87
KOG4577	383	consensus Transcription factor LIM3, contains LIM	99.85
KOG2272	332	consensus Focal adhesion protein PINCH-1, contains	99.83
KOG1044	670	consensus Actin-binding LIM Zn-finger protein Lima	99.81
KOG2272	332	consensus Focal adhesion protein PINCH-1, contains	99.8
KOG1703	479	consensus Adaptor protein Enigma and related PDZ-L	99.8
KOG1703	479	consensus Adaptor protein Enigma and related PDZ-L	99.77
KOG1044	670	consensus Actin-binding LIM Zn-finger protein Lima	99.75
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.62
PF00412	58	LIM: LIM domain; InterPro: IPR001781 Zinc finger (	99.58
KOG4577	383	consensus Transcription factor LIM3, contains LIM	99.55
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.85
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	98.74
KOG1700	200	consensus Regulatory protein MLP and related LIM p	98.46
KOG1702	264	consensus Nebulin repeat protein [Cytoskeleton]	98.38
KOG1702	264	consensus Nebulin repeat protein [Cytoskeleton]	98.12
KOG0490	235	consensus Transcription factor, contains HOX domai	97.85
KOG0490	235	consensus Transcription factor, contains HOX domai	94.93
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	89.27
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	88.42
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	86.63
PRK14890	59	putative Zn-ribbon RNA-binding protein; Provisiona	85.95
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	85.55
PF14471	51	DUF4428: Domain of unknown function (DUF4428)	82.84
PF08394	37	Arc_trans_TRASH: Archaeal TRASH domain; InterPro:	82.75
PF09943	101	DUF2175: Uncharacterized protein conserved in arch	82.48
PF13240	23	zinc_ribbon_2: zinc-ribbon domain	82.33
PF11781	36	RRN7: RNA polymerase I-specific transcription init	80.13

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

Probab=99.94  E-value=4.3e-29  Score=202.32  Aligned_cols=137  Identities=23%  Similarity=0.526  Sum_probs=120.9

Q ss_pred             CCcccccCceecccc-eEEeCCccccccCcccccccccCCCCCccccCCeecchhhHHhhhcCCCCCCCCCCCCCCCcCC
Q 029695            7 QQKCKVCEKTVYPVE-QLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKESGNFNKNFQSPAKSAEK   85 (189)
Q Consensus         7 ~~~C~~C~~~I~~~~-~~~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~~   85 (189)
                      ..+|.+|+|.|+... .+.||++.||..||+|..|++.|.+..||.+|+++||+.||.+..                   
T Consensus       274 ~~iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~v~~k~~CE~cyq~tl-------------------  334 (468)
T KOG1701|consen  274 FGICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQVDGKPYCEGCYQDTL-------------------  334 (468)
T ss_pred             hhhhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccccccCCcccchHHHHHHH-------------------
Confidence            348999999997554 389999999999999999999999999999999999999998766                   


Q ss_pred             CCccccCCcccccccCCCCCCCCCcCCcccccccceeccCccccccccccccCCCCCCCCCeec-cCCccccHhHHHhhh
Q 029695           86 LTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAA-LEGILYCKHHFSQLF  164 (189)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~l~~~~~~~-~~g~~~C~~c~~~~~  164 (189)
                                          .+|..|+++|.+. ++.+.|+.||+.||+|.+|++.|++..|+. .++++||..||.++|
T Consensus       335 --------------------ekC~~Cg~~I~d~-iLrA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kf  393 (468)
T KOG1701|consen  335 --------------------EKCNKCGEPIMDR-ILRALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKF  393 (468)
T ss_pred             --------------------HHHhhhhhHHHHH-HHHhcccccCCCceEEEEeccccCCccccccCCCceeeehhhhhhc
Confidence                                7999999999886 478999999999999999999999998875 468999999999999


Q ss_pred             cCCCC-CCcccCchHHHHHh
Q 029695          165 KEKGS-YNHLIKSASMKRAA  183 (189)
Q Consensus       165 ~~k~~-~~~~~~~~~~~r~~  183 (189)
                      ++||+ +..-|-+.+-+-++
T Consensus       394 APrCs~C~~PI~P~~G~~et  413 (468)
T KOG1701|consen  394 APRCSVCGNPILPRDGKDET  413 (468)
T ss_pred             CcchhhccCCccCCCCCcce
Confidence            99998 66666655544433

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

Probab=99.90  E-value=3.1e-25  Score=180.03  Aligned_cols=125  Identities=27%  Similarity=0.669  Sum_probs=112.0

Q ss_pred             CCCCCCcccccCceecccceEEeCCccccccCcccccccccCCCCCccc-cCCeecchhhHHhhhcCCCCCCCCCCCCCC
Q 029695            3 FIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSS-MEGVLYCKPHFEQLFKESGNFNKNFQSPAK   81 (189)
Q Consensus         3 ~~~~~~~C~~C~~~I~~~~~~~~~g~~~H~~CF~C~~C~~~L~~~~~~~-~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~   81 (189)
                      |..+..+|..|++.|. +.+|.|+|+.||+.||+|-.|++.|++..|.+ .++++||..||++.|+              
T Consensus       330 yq~tlekC~~Cg~~I~-d~iLrA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfA--------------  394 (468)
T KOG1701|consen  330 YQDTLEKCNKCGEPIM-DRILRALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFA--------------  394 (468)
T ss_pred             HHHHHHHHhhhhhHHH-HHHHHhcccccCCCceEEEEeccccCCccccccCCCceeeehhhhhhcC--------------
Confidence            3456679999999994 67899999999999999999999999999985 5999999999999998              


Q ss_pred             CcCCCCccccCCcccccccCCCCCCCCCcCCccccccc------ceeccCccccccccccccCCCCCCCC----CeeccC
Q 029695           82 SAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLE------KVAVENQAYHKTCFKCSHGGCSISPS----NYAALE  151 (189)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~------~v~~~g~~~H~~Cf~C~~C~~~l~~~----~~~~~~  151 (189)
                                              ++|+.|+++|++.+      +|+++++.||.+|++|+.|+..|+.+    ..|..|
T Consensus       395 ------------------------PrCs~C~~PI~P~~G~~etvRvvamdr~fHv~CY~CEDCg~~LS~e~e~qgCyPld  450 (468)
T KOG1701|consen  395 ------------------------PRCSVCGNPILPRDGKDETVRVVAMDRDFHVNCYKCEDCGLLLSSEEEGQGCYPLD  450 (468)
T ss_pred             ------------------------cchhhccCCccCCCCCcceEEEEEccccccccceehhhcCccccccCCCCcceecc
Confidence                                    99999999999765      47899999999999999999999842    588999


Q ss_pred             CccccHhHHHhhhcC
Q 029695          152 GILYCKHHFSQLFKE  166 (189)
Q Consensus       152 g~~~C~~c~~~~~~~  166 (189)
                      |.++|+.|..++...
T Consensus       451 ~HllCk~Ch~~Rl~~  465 (468)
T KOG1701|consen  451 GHLLCKTCHLKRLQA  465 (468)
T ss_pred             Cceeechhhhhhhcc
Confidence            999999999887654

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

Probab=99.87  E-value=1.3e-22  Score=154.62  Aligned_cols=186  Identities=52%  Similarity=0.898  Sum_probs=153.1

Q ss_pred             CCCCCCCCcccccCceecccceEEeCCccccccCcccccccccCCCCCccccCCeecchhhHHhhhcCCC-CCCCCCCCC
Q 029695            1 MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKESG-NFNKNFQSP   79 (189)
Q Consensus         1 ~~~~~~~~~C~~C~~~I~~~~~~~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~c~~~~~~~~~-~~~~~~~~~   79 (189)
                      |++++....|..|++.|+..+.+..+|..||+.||+|..|.+.|....+.+.++.+||+.+|..++++.+ ..++.|+..
T Consensus         1 ~~~~~~~~kc~~c~k~vy~~e~~~~~g~~~hk~c~~c~~~~k~l~~~~~~~~e~~~yc~~~~~~~~~~~~~~~~~~~~~~   80 (200)
T KOG1700|consen    1 SSFTGTTDKCNACGKTVYFVEKVQKDGVDFHKECFKCEKCKKTLTLSGYSEHEGVPYCKNCHVAQFGPKGGGFGKGFQKA   80 (200)
T ss_pred             CCcccccchhhhccCcchHHHHHhccCcchhhhHHhccccccccccccccccccccccccchHhhhCccccccccccccc
Confidence            7788899999999999999999999999999999999999999999999999999999998777777553 555554431


Q ss_pred             CCC--cCCCCccccCCcccccccCCCCCCCCCcCCcccccccceeccCccccccccccccCCCCCCCCCeeccCCccccH
Q 029695           80 AKS--AEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCK  157 (189)
Q Consensus        80 ~~~--~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~  157 (189)
                      ...  +.................+.++...|..|.+.+++.+.+...+..||..||+|+.|+..|..+.+...+|.+||.
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~c~~c~k~vy~~Ek~~~~~~~~hk~cfrc~~~~~~ls~~~~~~~~g~l~~~  160 (200)
T KOG1700|consen   81 GGLGKDGKSLNESKPNQSAKFQVFAGEKEKCARCQKTVYPLEKVTGNGLEFHKSCFRCTHCGKKLSPKNYAALEGVLYCK  160 (200)
T ss_pred             CCCCcccccccccccccchhHHhhhccccccccccceeeehHHHhhhhhhhhhhheeecccccccCCcchhhcCCccccc
Confidence            111  111112222333345566778889999999999999989999999999999999999999999999999999999


Q ss_pred             hHHHhhhcCCCCCCcccCchHHHHHhhCC
Q 029695          158 HHFSQLFKEKGSYNHLIKSASMKRAAASV  186 (189)
Q Consensus       158 ~c~~~~~~~k~~~~~~~~~~~~~r~~~~~  186 (189)
                      .++..+|..+..+.++...+..++.+...
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  189 (200)
T KOG1700|consen  161 HHFAQLFKGKGNYNEGFGARENKEAAAAA  189 (200)
T ss_pred             hhhheeecCCCcccccchhhhhhhhhhhh
Confidence            99999999999988888877777765543

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

Probab=99.85  E-value=2.2e-23  Score=161.56  Aligned_cols=125  Identities=26%  Similarity=0.536  Sum_probs=112.4

Q ss_pred             CCCcccccCceecccceEEeCCccccccCcccccccccCCCCCccccCCeecchhhHHhhhcCCCCCCCCCCCCCCCcCC
Q 029695            6 TQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKESGNFNKNFQSPAKSAEK   85 (189)
Q Consensus         6 ~~~~C~~C~~~I~~~~~~~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~~   85 (189)
                      ..++|+.|.+.|.+.-++.++++.||..|++|+.|..+|... .+.++|.+||+.+|.++|+                  
T Consensus        32 eip~CagC~q~IlDrFilKvl~R~wHs~CLkCs~C~~qL~dr-CFsR~~s~yCkedFfKrfG------------------   92 (383)
T KOG4577|consen   32 EIPICAGCDQHILDRFILKVLDRHWHSSCLKCSDCHDQLADR-CFSREGSVYCKEDFFKRFG------------------   92 (383)
T ss_pred             ccccccchHHHHHHHHHHHHHhhhhhhhhcchhhhhhHHHHH-HhhcCCceeehHHHHHHhC------------------
Confidence            578999999999877778999999999999999999999885 6689999999999999999                  


Q ss_pred             CCccccCCcccccccCCCCCCCCCcCCcccccccce-eccCccccccccccccCCCCCCCC-Cee-ccCCccccHhHHHh
Q 029695           86 LTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKV-AVENQAYHKTCFKCSHGGCSISPS-NYA-ALEGILYCKHHFSQ  162 (189)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v-~~~g~~~H~~Cf~C~~C~~~l~~~-~~~-~~~g~~~C~~c~~~  162 (189)
                                          .+|..|.+.|.+...| .+.+..||..||.|..|+++|..+ .|| +.|+++.|+.+|+.
T Consensus        93 --------------------TKCsaC~~GIpPtqVVRkAqd~VYHl~CF~C~iC~R~L~TGdEFYLmeD~rLvCK~DYE~  152 (383)
T KOG4577|consen   93 --------------------TKCSACQEGIPPTQVVRKAQDFVYHLHCFACFICKRQLATGDEFYLMEDARLVCKDDYET  152 (383)
T ss_pred             --------------------CcchhhcCCCChHHHHHHhhcceeehhhhhhHhhhcccccCCeeEEeccceeehhhhHHH
Confidence                                9999999999998865 589999999999999999999987 555 56799999999998


Q ss_pred             hhcCCCC
Q 029695          163 LFKEKGS  169 (189)
Q Consensus       163 ~~~~k~~  169 (189)
                      .-...+.
T Consensus       153 Ak~k~~~  159 (383)
T KOG4577|consen  153 AKQKHCN  159 (383)
T ss_pred             HHhcccc
Confidence            7666654

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

Probab=99.83  E-value=4.3e-22  Score=151.95  Aligned_cols=117  Identities=22%  Similarity=0.528  Sum_probs=109.2

Q ss_pred             CCCcccccCceecccceEEeCCccccccCcccccccccCCCCCccccCCeecchhhHHhhhcCCCCCCCCCCCCCCCcCC
Q 029695            6 TQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKESGNFNKNFQSPAKSAEK   85 (189)
Q Consensus         6 ~~~~C~~C~~~I~~~~~~~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~~   85 (189)
                      +.++|..|.++| +...+.++|+.||.+.|+|+.|-+++-+...|++.|.+||+.+|.++|+                  
T Consensus       194 gipiCgaC~rpI-eervi~amgKhWHveHFvCa~CekPFlGHrHYEkkGlaYCe~h~~qLfG------------------  254 (332)
T KOG2272|consen  194 GIPICGACRRPI-EERVIFAMGKHWHVEHFVCAKCEKPFLGHRHYEKKGLAYCETHYHQLFG------------------  254 (332)
T ss_pred             CCcccccccCch-HHHHHHHhccccchhheeehhcCCcccchhhhhhcCchhHHHHHHHHhh------------------
Confidence            568999999999 5778999999999999999999999988889999999999999999999                  


Q ss_pred             CCccccCCcccccccCCCCCCCCCcCCcccccccceeccCccccccccccccCCCCCCCC-CeeccCCccccHhHHHh
Q 029695           86 LTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPS-NYAALEGILYCKHHFSQ  162 (189)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~l~~~-~~~~~~g~~~C~~c~~~  162 (189)
                                          ..|..|+++|.+ +.+.++++.|-++||+|+.|.+.|... +|+..|-.|.|+.||.+
T Consensus       255 --------------------~~CF~C~~~i~G-~vv~al~KawCv~cf~Cs~Cdkkl~~K~Kf~E~DmkP~CKkCy~r  311 (332)
T KOG2272|consen  255 --------------------NLCFICNRVIGG-DVVSALNKAWCVECFSCSTCDKKLTQKNKFYEFDMKPVCKKCYDR  311 (332)
T ss_pred             --------------------hhheecCCccCc-cHHHHhhhhhccccccccccccccccccceeeeccchHHHHHHhh
Confidence                                899999999966 568999999999999999999999976 79999999999999974

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

Probab=99.81  E-value=3.8e-20  Score=155.27  Aligned_cols=161  Identities=21%  Similarity=0.455  Sum_probs=121.3

Q ss_pred             CCcccccCceecccceEEeCCccccccCcccccccccCCCCCcccc-CCeecchhhHHhhh-cCC-CCCCCCCCCCCCC-
Q 029695            7 QQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSM-EGVLYCKPHFEQLF-KES-GNFNKNFQSPAKS-   82 (189)
Q Consensus         7 ~~~C~~C~~~I~~~~~~~~~g~~~H~~CF~C~~C~~~L~~~~~~~~-~g~~yC~~c~~~~~-~~~-~~~~~~~~~~~~~-   82 (189)
                      ...|.+|.+.- .++++.+.++.||..||.|..|+..|..+.|+.+ +..+|+.....+.. +.. .+++++++...++ 
T Consensus        16 ~i~c~~c~~kc-~gevlrv~d~~fhi~cf~c~~cg~~la~~gff~k~~~~~ygt~~c~~~~~gevvsa~gktyh~~cf~c   94 (670)
T KOG1044|consen   16 GIKCDKCRKKC-SGEVLRVNDNHFHINCFQCKKCGRNLAEGGFFTKPENRLYGTDDCRAFVEGEVVSTLGKTYHPKCFSC   94 (670)
T ss_pred             ceehhhhCCcc-ccceeEeeccccceeeeeccccCCCcccccceecccceeecccchhhhccceeEecccceecccccee
Confidence            34799999999 6999999999999999999999999999999876 45677763332221 111 2556666655543 


Q ss_pred             ----cCCCCcccc------------CCcccccccCCCCCCCCCcCCcccccccceeccCccccccccccccCCCCCCCCC
Q 029695           83 ----AEKLTPELT------------RSPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSN  146 (189)
Q Consensus        83 ----~~~~~~~~~------------~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~l~~~~  146 (189)
                          .|.++.+..            ......++....+...|++|++.|..++.+.++++.||..||+|..|...|.++ 
T Consensus        95 s~ck~pf~~g~~vt~~gk~~~c~~c~~~~~~~p~~~~~ps~cagc~~~lk~gq~llald~qwhv~cfkc~~c~~vL~ge-  173 (670)
T KOG1044|consen   95 STCKSPFKSGDKVTFSGKECLCQTCSQPMPVSPAESYGPSTCAGCGEELKNGQALLALDKQWHVSCFKCKSCSAVLNGE-  173 (670)
T ss_pred             cccCCCCCCCCeeeecchhhhhhhhcCcccCCcccccCCccccchhhhhhccceeeeeccceeeeeeehhhhcccccce-
Confidence                122222211            011111222233558899999999988888999999999999999999998885 


Q ss_pred             eeccCCccccHhHHHhhhcCCCC
Q 029695          147 YAALEGILYCKHHFSQLFKEKGS  169 (189)
Q Consensus       147 ~~~~~g~~~C~~c~~~~~~~k~~  169 (189)
                      |+..||.|||+.+|.+.||.||.
T Consensus       174 y~skdg~pyce~dy~~~fgvkc~  196 (670)
T KOG1044|consen  174 YMSKDGVPYCEKDYQAKFGVKCE  196 (670)
T ss_pred             eeccCCCcchhhhhhhhcCeehH
Confidence            89999999999999999999997

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

Probab=99.80  E-value=5.3e-22  Score=151.47  Aligned_cols=118  Identities=22%  Similarity=0.607  Sum_probs=108.5

Q ss_pred             CCCcccccCceecccce-EEeCCccccccCcccccccccCCCCCccccCCeecchhhHHhhhcCCCCCCCCCCCCCCCcC
Q 029695            6 TQQKCKVCEKTVYPVEQ-LSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKESGNFNKNFQSPAKSAE   84 (189)
Q Consensus         6 ~~~~C~~C~~~I~~~~~-~~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~   84 (189)
                      ....|.+|.......+. +..+|..||..||.|+.|-.+|.++.|++.+|+.||+.+|..+|+                 
T Consensus        11 ~~~~C~RC~~gF~~~e~~vns~ge~wH~~CFvCAQCf~pf~~g~~~efEgRkYCEhDF~~Lfa-----------------   73 (332)
T KOG2272|consen   11 ANMVCERCRDGFEPAEKIVNSNGELWHEQCFVCAQCFRPFPDGIFYEFEGRKYCEHDFHVLFA-----------------   73 (332)
T ss_pred             HHHHHHHHhccCCchhhhhccCchhhHHHHHHHHHhcCcCCCceeEEecCcccccccchhhhc-----------------
Confidence            45679999998876664 788999999999999999999999999999999999999999998                 


Q ss_pred             CCCccccCCcccccccCCCCCCCCCcCCcccccccceeccCccccccccccccCCCCCCCCCeeccCCccccHhHHHh
Q 029695           85 KLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQ  162 (189)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~  162 (189)
                                           |-|+.|++-|.+. .|.+++.+||+.||+|..|++.|.+..|+...|+.+|..|..+
T Consensus        74 ---------------------PcC~kC~EFiiGr-VikamnnSwHp~CF~Cd~Cn~~Lad~gf~rnqgr~LC~~Cn~k  129 (332)
T KOG2272|consen   74 ---------------------PCCGKCGEFIIGR-VIKAMNNSWHPACFRCDLCNKHLADQGFYRNQGRALCRECNQK  129 (332)
T ss_pred             ---------------------hhhcccccchhhH-HHHhhccccCcccchhHHHHHHHhhhhhHhhcchHHhhhhhhh
Confidence                                 9999999999876 4889999999999999999999999889988999999999766

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

Probab=99.80  E-value=5.7e-20  Score=157.43  Aligned_cols=125  Identities=24%  Similarity=0.570  Sum_probs=116.3

Q ss_pred             CCCcccccCceecccceEEeCCccccccCcccccccccCCCCCccccCCeecchhhHHhhhcCCCCCCCCCCCCCCCcCC
Q 029695            6 TQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKESGNFNKNFQSPAKSAEK   85 (189)
Q Consensus         6 ~~~~C~~C~~~I~~~~~~~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~~   85 (189)
                      ..+.|..|...|.....+.++++.||+.+|.|..|...+....+...+|++||..||.+.+.                  
T Consensus       302 ~~p~c~~c~~~i~~~~~i~~~~~~~h~~~~~c~~~~~~~~~~~~~~~~g~~~c~~~~~~~~~------------------  363 (479)
T KOG1703|consen  302 TRPLCLSCNQKIRSVKVIVALGKEWHPEHFSCEVCAIVILDGGPRELDGKILCHECFHAPFR------------------  363 (479)
T ss_pred             ccccccccccCcccceeEeeccccccccceeeccccccccCCCccccCCCccHHHHHHHhhC------------------
Confidence            45899999999954488999999999999999999999999989999999999999999998                  


Q ss_pred             CCccccCCcccccccCCCCCCCCCcCCcccccccceeccCccccccccccccCCCCCCCCCeeccCCccccHhHHHhhhc
Q 029695           86 LTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFK  165 (189)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~  165 (189)
                                          +.|.+|+++|.+. .|.+.++.||++||.|..|++.+....|+..+|.+||+.||.++++
T Consensus       364 --------------------p~C~~C~~~i~~~-~v~a~~~~wH~~cf~C~~C~~~~~~~~~~~~~~~pyce~~~~~~~~  422 (479)
T KOG1703|consen  364 --------------------PNCKRCLLPILEE-GVCALGRLWHPECFVCADCGKPLKNSSFFESDGEPYCEDHYKKLFT  422 (479)
T ss_pred             --------------------ccccccCCchHHh-HhhhccCeechhceeeecccCCCCCCcccccCCccchhhhHhhhcc
Confidence                                9999999999885 4888899999999999999999999999999999999999999999


Q ss_pred             CCCC
Q 029695          166 EKGS  169 (189)
Q Consensus       166 ~k~~  169 (189)
                      +++.
T Consensus       423 ~~~~  426 (479)
T KOG1703|consen  423 TKCD  426 (479)
T ss_pred             ccch
Confidence            8875

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

Probab=99.77  E-value=6.2e-20  Score=157.19  Aligned_cols=117  Identities=27%  Similarity=0.640  Sum_probs=107.7

Q ss_pred             CCCCcccccCceecccceEEeCCccccccCcccccccccCCCCCccccCCeecchhhHHhhhcCCCCCCCCCCCCCCCcC
Q 029695            5 GTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKESGNFNKNFQSPAKSAE   84 (189)
Q Consensus         5 ~~~~~C~~C~~~I~~~~~~~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~   84 (189)
                      ...+.|.+|.++| .++.|.+.++.||++||.|..|+++|....|++.++.+||+.||.+++.                 
T Consensus       361 ~~~p~C~~C~~~i-~~~~v~a~~~~wH~~cf~C~~C~~~~~~~~~~~~~~~pyce~~~~~~~~-----------------  422 (479)
T KOG1703|consen  361 PFRPNCKRCLLPI-LEEGVCALGRLWHPECFVCADCGKPLKNSSFFESDGEPYCEDHYKKLFT-----------------  422 (479)
T ss_pred             hhCccccccCCch-HHhHhhhccCeechhceeeecccCCCCCCcccccCCccchhhhHhhhcc-----------------
Confidence            3568999999999 5788888899999999999999999999999999999999999999997                 


Q ss_pred             CCCccccCCcccccccCCCCCCCCCcCCcccccccc-eeccCccccccccccccCCCCCCCCCeeccCCccccHhHH
Q 029695           85 KLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEK-VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHF  160 (189)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~-v~~~g~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~  160 (189)
                                           ++|..|.++|..... +.+++..||..||+|..|...|..+.|+...++++|..|+
T Consensus       423 ---------------------~~~~~~~~p~~~~~~~ie~~~~~~h~~~F~c~~c~~~l~~~~~~~~~~~p~c~~~~  478 (479)
T KOG1703|consen  423 ---------------------TKCDYCKKPVEFGSRQIEADGSPFHGDCFRCANCMKKLTKKTFFETLDKPLCQKHF  478 (479)
T ss_pred             ---------------------ccchhccchhHhhhhHhhccCccccccceehhhhhccccCCceeecCCccccccCC
Confidence                                 789999999874443 8899999999999999999999999999999999999875

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

Probab=99.75  E-value=3.1e-19  Score=149.89  Aligned_cols=116  Identities=25%  Similarity=0.513  Sum_probs=107.1

Q ss_pred             CCCcccccCceecccceEEeCCccccccCcccccccccCCCCCccccCCeecchhhHHhhhcCCCCCCCCCCCCCCCcCC
Q 029695            6 TQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKESGNFNKNFQSPAKSAEK   85 (189)
Q Consensus         6 ~~~~C~~C~~~I~~~~~~~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~c~~~~~~~~~~~~~~~~~~~~~~~~   85 (189)
                      +...|++|++.|..+..+.|+++.||..||+|..|+..|.+ .|+.+||.+||+.||.+.|+                  
T Consensus       132 ~ps~cagc~~~lk~gq~llald~qwhv~cfkc~~c~~vL~g-ey~skdg~pyce~dy~~~fg------------------  192 (670)
T KOG1044|consen  132 GPSTCAGCGEELKNGQALLALDKQWHVSCFKCKSCSAVLNG-EYMSKDGVPYCEKDYQAKFG------------------  192 (670)
T ss_pred             CCccccchhhhhhccceeeeeccceeeeeeehhhhcccccc-eeeccCCCcchhhhhhhhcC------------------
Confidence            56789999999999999999999999999999999999977 59999999999999999998                  


Q ss_pred             CCccccCCcccccccCCCCCCCCCcCCcccccccceeccCccccccccccccCCCCCCCC-CeeccCCccccHhHHH
Q 029695           86 LTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPS-NYAALEGILYCKHHFS  161 (189)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~l~~~-~~~~~~g~~~C~~c~~  161 (189)
                                          .+|..|.+-|.+. .+.+.|++||+.|-+|+.|+..++.+ .++..+..++-..|-.
T Consensus       193 --------------------vkc~~c~~fisgk-vLqag~kh~HPtCARCsRCgqmF~eGEEMYlQGs~iWHP~C~q  248 (670)
T KOG1044|consen  193 --------------------VKCEECEKFISGK-VLQAGDKHFHPTCARCSRCGQMFGEGEEMYLQGSEIWHPDCKQ  248 (670)
T ss_pred             --------------------eehHHhhhhhhhh-hhhccCcccCcchhhhhhhccccccchheeeccccccCCcccc
Confidence                                9999999999876 47899999999999999999999987 7899899999888853

>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=99.62  E-value=4.5e-16  Score=95.97  Aligned_cols=57  Identities=35%  Similarity=0.817  Sum_probs=52.9

Q ss_pred             ccccCceecccceE-EeCCccccccCcccccccccCCCCCccccCCeecchhhHHhhh
Q 029695           10 CKVCEKTVYPVEQL-SADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF   66 (189)
Q Consensus        10 C~~C~~~I~~~~~~-~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~c~~~~~   66 (189)
                      |.+|+++|.+.+.+ .++|+.||++||+|+.|+++|.+..|+..+|++||+.||.++|
T Consensus         1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~f   58 (58)
T PF00412_consen    1 CARCGKPIYGTEIVIKAMGKFWHPECFKCSKCGKPLNDGDFYEKDGKPYCKDCYQKRF   58 (58)
T ss_dssp             BTTTSSBESSSSEEEEETTEEEETTTSBETTTTCBTTTSSEEEETTEEEEHHHHHHHT
T ss_pred             CCCCCCCccCcEEEEEeCCcEEEccccccCCCCCccCCCeeEeECCEEECHHHHhhhC
Confidence            78999999877765 7999999999999999999999988999999999999999875

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

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

Probab=99.58  E-value=1.7e-15  Score=93.32  Aligned_cols=57  Identities=33%  Similarity=0.767  Sum_probs=53.1

Q ss_pred             CCcCCcccccccce-eccCccccccccccccCCCCCCCCCeeccCCccccHhHHHhhh
Q 029695          108 CASCSKTVYPLEKV-AVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLF  164 (189)
Q Consensus       108 C~~C~~~I~~~~~v-~~~g~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~  164 (189)
                      |++|+++|.+.+.+ .++|+.||++||+|..|+++|..+.++..+|++||..||.++|
T Consensus         1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~f   58 (58)
T PF00412_consen    1 CARCGKPIYGTEIVIKAMGKFWHPECFKCSKCGKPLNDGDFYEKDGKPYCKDCYQKRF   58 (58)
T ss_dssp             BTTTSSBESSSSEEEEETTEEEETTTSBETTTTCBTTTSSEEEETTEEEEHHHHHHHT
T ss_pred             CCCCCCCccCcEEEEEeCCcEEEccccccCCCCCccCCCeeEeECCEEECHHHHhhhC
Confidence            78999999988765 6999999999999999999999988999999999999999886

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

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

Probab=99.55  E-value=3.5e-16  Score=121.77  Aligned_cols=81  Identities=26%  Similarity=0.459  Sum_probs=75.7

Q ss_pred             CCCCCcCCcccccccceeccCccccccccccccCCCCCCCCCeeccCCccccHhHHHhhhcCCCC-CCcccCchHHHHHh
Q 029695          105 QEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGS-YNHLIKSASMKRAA  183 (189)
Q Consensus       105 ~~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~k~~-~~~~~~~~~~~r~~  183 (189)
                      .++|++|++.|.+..++.++++.||..|++|+.|+.+|... ++.++|.+||+++|.++||+||. +++||++++++|.+
T Consensus        33 ip~CagC~q~IlDrFilKvl~R~wHs~CLkCs~C~~qL~dr-CFsR~~s~yCkedFfKrfGTKCsaC~~GIpPtqVVRkA  111 (383)
T KOG4577|consen   33 IPICAGCDQHILDRFILKVLDRHWHSSCLKCSDCHDQLADR-CFSREGSVYCKEDFFKRFGTKCSACQEGIPPTQVVRKA  111 (383)
T ss_pred             cccccchHHHHHHHHHHHHHhhhhhhhhcchhhhhhHHHHH-HhhcCCceeehHHHHHHhCCcchhhcCCCChHHHHHHh
Confidence            38999999999998777899999999999999999999874 88899999999999999999998 99999999999999


Q ss_pred             hCC
Q 029695          184 ASV  186 (189)
Q Consensus       184 ~~~  186 (189)
                      ++.
T Consensus       112 qd~  114 (383)
T KOG4577|consen  112 QDF  114 (383)
T ss_pred             hcc
Confidence            863

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

Probab=98.85  E-value=1.9e-09  Score=60.44  Aligned_cols=37  Identities=43%  Similarity=0.771  Sum_probs=33.5

Q ss_pred             cccccCceeccc-ceEEeCCccccccCcccccccccCC
Q 029695            9 KCKVCEKTVYPV-EQLSADGVVYHKSCFKCSHCKGTLK   45 (189)
Q Consensus         9 ~C~~C~~~I~~~-~~~~~~g~~~H~~CF~C~~C~~~L~   45 (189)
                      +|.+|+++|.+. ..+.++++.||++||+|..|+++|.
T Consensus         1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L~   38 (39)
T smart00132        1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPLG   38 (39)
T ss_pred             CccccCCcccCCcEEEEeCCccccccCCCCcccCCcCc
Confidence            589999999776 6689999999999999999999985

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

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

Probab=98.74  E-value=6.4e-09  Score=58.23  Aligned_cols=37  Identities=32%  Similarity=0.674  Sum_probs=32.8

Q ss_pred             CCCcCCcccccc-cceeccCccccccccccccCCCCCC
Q 029695          107 KCASCSKTVYPL-EKVAVENQAYHKTCFKCSHGGCSIS  143 (189)
Q Consensus       107 ~C~~C~~~I~~~-~~v~~~g~~~H~~Cf~C~~C~~~l~  143 (189)
                      +|.+|+++|.+. ..+.+.++.||+.||+|..|+++|.
T Consensus         1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~~L~   38 (39)
T smart00132        1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGKPLG   38 (39)
T ss_pred             CccccCCcccCCcEEEEeCCccccccCCCCcccCCcCc
Confidence            489999999987 4477899999999999999999875

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

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

Probab=98.46  E-value=4.5e-08  Score=74.92  Aligned_cols=70  Identities=54%  Similarity=1.206  Sum_probs=61.6

Q ss_pred             CCCCCCcccccCceecccceEEeCCccccccCcccccccccCCCCCccccCCeecchhhHHhhhcCCCCC
Q 029695            3 FIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKESGNF   72 (189)
Q Consensus         3 ~~~~~~~C~~C~~~I~~~~~~~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~c~~~~~~~~~~~   72 (189)
                      +.+....|..|.+.+++.+.+...+..||+.||+|+.|+..|+..++...++.+||...+.+++.....+
T Consensus       104 ~~g~~~~c~~c~k~vy~~Ek~~~~~~~~hk~cfrc~~~~~~ls~~~~~~~~g~l~~~~~~~~~~~~~~~~  173 (200)
T KOG1700|consen  104 FAGEKEKCARCQKTVYPLEKVTGNGLEFHKSCFRCTHCGKKLSPKNYAALEGVLYCKHHFAQLFKGKGNY  173 (200)
T ss_pred             hhccccccccccceeeehHHHhhhhhhhhhhheeecccccccCCcchhhcCCccccchhhheeecCCCcc
Confidence            3456789999999999999999999999999999999999999999999999999998887776544433

>KOG1702 consensus Nebulin repeat protein [Cytoskeleton]

Probab=98.38  E-value=4.4e-08  Score=73.54  Aligned_cols=75  Identities=29%  Similarity=0.649  Sum_probs=63.1

Q ss_pred             CCCCcCCcccccccceeccCccccccccccccCCCCCCCCCeeccCCccccHhHHHhhhcCCCCCCcccCchHHHHHhhC
Q 029695          106 EKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHLIKSASMKRAAAS  185 (189)
Q Consensus       106 ~~C~~C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~~~~k~~~~~~~~~~~~~r~~~~  185 (189)
                      ..|..|++.+++.+.+..+++.||..||+|+.|+.+|....+...|.++||..+|.+..     .......+++.|..++
T Consensus         5 ~n~~~cgk~vYPvE~v~cldk~whk~cfkce~c~mtlnmKnyKgy~kkpycn~hYpkq~-----at~~adTPEm~Rik~n   79 (264)
T KOG1702|consen    5 CNREDCGKTVYPVEEVKCLDKVWHKQCFKCEVCGMTLNMKNYKGYDKKPYCNPHYPKQV-----ATVMADTPEMRRIKEN   79 (264)
T ss_pred             chhhhhccccccHHHHhhHHHHHHHHhheeeeccCChhhhhccccccCCCcCcccccce-----eeeecCCHHHHHHHhh
Confidence            56788999999999999999999999999999999999988888999999999998655     3445556666666554

>KOG1702 consensus Nebulin repeat protein [Cytoskeleton]

Probab=98.12  E-value=2e-07  Score=70.05  Aligned_cols=61  Identities=39%  Similarity=0.817  Sum_probs=54.9

Q ss_pred             CCcccccCceecccceEEeCCccccccCcccccccccCCCCCccccCCeecchhhHHhhhc
Q 029695            7 QQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFK   67 (189)
Q Consensus         7 ~~~C~~C~~~I~~~~~~~~~g~~~H~~CF~C~~C~~~L~~~~~~~~~g~~yC~~c~~~~~~   67 (189)
                      ...|..|++.+++.+.|.-+++.||+.||+|..|+.+|.-.+|-..+.++||..+|.+..+
T Consensus         4 k~n~~~cgk~vYPvE~v~cldk~whk~cfkce~c~mtlnmKnyKgy~kkpycn~hYpkq~a   64 (264)
T KOG1702|consen    4 KCNREDCGKTVYPVEEVKCLDKVWHKQCFKCEVCGMTLNMKNYKGYDKKPYCNPHYPKQVA   64 (264)
T ss_pred             cchhhhhccccccHHHHhhHHHHHHHHhheeeeccCChhhhhccccccCCCcCccccccee
Confidence            3457899999999999999999999999999999999998888888999999999976543

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

Probab=97.85  E-value=3.4e-06  Score=65.84  Aligned_cols=111  Identities=22%  Similarity=0.486  Sum_probs=86.6

Q ss_pred             cCceecccceEEeCCccccccCcccccccccCC--CCCccccCCeecchhhHHh--hhcCCCCCCCCCCCCCCCcCCCCc
Q 029695           13 CEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLK--LSNYSSMEGVLYCKPHFEQ--LFKESGNFNKNFQSPAKSAEKLTP   88 (189)
Q Consensus        13 C~~~I~~~~~~~~~g~~~H~~CF~C~~C~~~L~--~~~~~~~~g~~yC~~c~~~--~~~~~~~~~~~~~~~~~~~~~~~~   88 (189)
                      |+..|.+...+.+.+..||..|..|..|...|.  ...|.. +|..||..+|..  .+.                     
T Consensus         2 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~~d~~~~~~~~---------------------   59 (235)
T KOG0490|consen    2 CGRQILDRYLLRVLDRYWHASCLKCAECDNPLGVGDTCFSK-DGSIYCKRDYQREFKFS---------------------   59 (235)
T ss_pred             CCccccchHHhhcccHHHHHHHHhhhhhcchhccCCCcccC-CCcccccccchhhhhcc---------------------
Confidence            677786666678889999999999999999997  444555 999999999987  333                     


Q ss_pred             cccCCcccccccCCCCCCCCCcCCcccccccce-eccCccccccccccccCCCCCCCC-CeeccC-CccccHhHHHhh
Q 029695           89 ELTRSPSKAASMFSGTQEKCASCSKTVYPLEKV-AVENQAYHKTCFKCSHGGCSISPS-NYAALE-GILYCKHHFSQL  163 (189)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~~C~~C~~~I~~~~~v-~~~g~~~H~~Cf~C~~C~~~l~~~-~~~~~~-g~~~C~~c~~~~  163 (189)
                                       .+|.+|...|...+.+ .+..+. |.-||.|..|...+... .+.+.+ -+.+|...+.+.
T Consensus        60 -----------------~rr~rt~~~~~ql~~ler~f~~~-h~Pd~~~r~~la~~~~~~e~rVqvwFqnrrak~r~~~  119 (235)
T KOG0490|consen   60 -----------------KRCARCKFTISQLDELERAFEKV-HLPCFACRECLALLLTGDEFRVQVWFQNRRAKDRKEE  119 (235)
T ss_pred             -----------------ccccCCCCCcCHHHHHHHhhcCC-CcCccchHHHHhhcCCCCeeeeehhhhhhcHhhhhhh
Confidence                             7899999998766654 355666 99999999998876654 555555 488998887543

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

Probab=94.93  E-value=0.014  Score=45.37  Aligned_cols=63  Identities=19%  Similarity=0.585  Sum_probs=49.8

Q ss_pred             CCcccccccceeccCccccccccccccCCCCCC--CCCeeccCCccccHhHHHh--hhcCCCC-CCccc
Q 029695          111 CSKTVYPLEKVAVENQAYHKTCFKCSHGGCSIS--PSNYAALEGILYCKHHFSQ--LFKEKGS-YNHLI  174 (189)
Q Consensus       111 C~~~I~~~~~v~~~g~~~H~~Cf~C~~C~~~l~--~~~~~~~~g~~~C~~c~~~--~~~~k~~-~~~~~  174 (189)
                      |+..|.+...+.+.+..||..|..|..|...+.  ...|.. +|..||...+..  .++.++. ..-.+
T Consensus         2 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~~d~~~~~~~~~rr~rt~~~~   69 (235)
T KOG0490|consen    2 CGRQILDRYLLRVLDRYWHASCLKCAECDNPLGVGDTCFSK-DGSIYCKRDYQREFKFSKRCARCKFTI   69 (235)
T ss_pred             CCccccchHHhhcccHHHHHHHHhhhhhcchhccCCCcccC-CCcccccccchhhhhccccccCCCCCc
Confidence            677787776667779999999999999999998  334555 999999999998  6777766 44433

>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B

Probab=89.27  E-value=0.49  Score=29.30  Aligned_cols=33  Identities=18%  Similarity=0.348  Sum_probs=16.6

Q ss_pred             cccccccccCCCCCccccCCeecchhhHHhhhc
Q 029695           35 FKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFK   67 (189)
Q Consensus        35 F~C~~C~~~L~~~~~~~~~g~~yC~~c~~~~~~   67 (189)
                      ++|+.|..-|...-....=+..||..|..+.++
T Consensus         8 LrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~   40 (65)
T PF14835_consen    8 LRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG   40 (65)
T ss_dssp             TS-SSS-S--SS-B---SSS--B-TTTGGGGTT
T ss_pred             cCCcHHHHHhcCCceeccCccHHHHHHhHHhcC
Confidence            678888888876533445567889999877666

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=88.42  E-value=0.39  Score=28.68  Aligned_cols=28  Identities=29%  Similarity=0.600  Sum_probs=21.7

Q ss_pred             CCCCcCCccccccc-cee--ccCcccccccc
Q 029695          106 EKCASCSKTVYPLE-KVA--VENQAYHKTCF  133 (189)
Q Consensus       106 ~~C~~C~~~I~~~~-~v~--~~g~~~H~~Cf  133 (189)
                      .+|..|+++|.+.+ .|.  .=+..||++|+
T Consensus         6 ~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~   36 (54)
T PF14446_consen    6 CKCPVCGKKFKDGDDIVVCPECGAPYHRDCW   36 (54)
T ss_pred             ccChhhCCcccCCCCEEECCCCCCcccHHHH
Confidence            78999999997544 333  45788999988

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

Probab=86.63  E-value=0.53  Score=31.76  Aligned_cols=30  Identities=27%  Similarity=0.420  Sum_probs=22.7

Q ss_pred             CCCCCcCCcccccccc-eeccCccccccccc
Q 029695          105 QEKCASCSKTVYPLEK-VAVENQAYHKTCFK  134 (189)
Q Consensus       105 ~~~C~~C~~~I~~~~~-v~~~g~~~H~~Cf~  134 (189)
                      ...|+.|+++|..... +...|..+|..|++
T Consensus        78 ~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   78 STKCSVCGKPLGNSVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence            4789999999986543 34677888988863

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

>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional

Probab=85.95  E-value=0.8  Score=27.81  Aligned_cols=30  Identities=27%  Similarity=0.691  Sum_probs=20.3

Q ss_pred             CCCCcccccCceecccce-EEeCCccccccCcccccccccC
Q 029695            5 GTQQKCKVCEKTVYPVEQ-LSADGVVYHKSCFKCSHCKGTL   44 (189)
Q Consensus         5 ~~~~~C~~C~~~I~~~~~-~~~~g~~~H~~CF~C~~C~~~L   44 (189)
                      ...++|..|+..|.+.+. +.          |.|-.|+..+
T Consensus         5 ~~~~~CtSCg~~i~~~~~~~~----------F~CPnCG~~~   35 (59)
T PRK14890          5 MEPPKCTSCGIEIAPREKAVK----------FLCPNCGEVI   35 (59)
T ss_pred             ccCccccCCCCcccCCCccCE----------eeCCCCCCee
Confidence            345678888888865542 22          7788887763

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

Probab=85.55  E-value=0.65  Score=31.35  Aligned_cols=30  Identities=33%  Similarity=0.504  Sum_probs=17.4

Q ss_pred             CCCcccccCceecccce-EEeCCccccccCc
Q 029695            6 TQQKCKVCEKTVYPVEQ-LSADGVVYHKSCF   35 (189)
Q Consensus         6 ~~~~C~~C~~~I~~~~~-~~~~g~~~H~~CF   35 (189)
                      ....|..|+++|..... +-..|..+|..|+
T Consensus        77 ~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~  107 (109)
T PF10367_consen   77 ESTKCSVCGKPLGNSVFVVFPCGHVVHYSCI  107 (109)
T ss_pred             CCCCccCcCCcCCCceEEEeCCCeEEecccc
Confidence            34567777777754333 3444556676665

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

>PF14471 DUF4428: Domain of unknown function (DUF4428)

Probab=82.84  E-value=0.9  Score=26.81  Aligned_cols=29  Identities=28%  Similarity=0.675  Sum_probs=22.8

Q ss_pred             ccccccccCCCCC-ccccCCeecchhhHHhh
Q 029695           36 KCSHCKGTLKLSN-YSSMEGVLYCKPHFEQL   65 (189)
Q Consensus        36 ~C~~C~~~L~~~~-~~~~~g~~yC~~c~~~~   65 (189)
                      .|..|+..+.--. +-..|| ..|..|+.++
T Consensus         1 ~C~iCg~kigl~~~~k~~DG-~iC~~C~~Kl   30 (51)
T PF14471_consen    1 KCAICGKKIGLFKRFKIKDG-YICKDCLKKL   30 (51)
T ss_pred             CCCccccccccccceeccCc-cchHHHHHHh
Confidence            4888999887633 556777 7999999887

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

Probab=82.75  E-value=0.8  Score=25.11  Aligned_cols=28  Identities=25%  Similarity=0.548  Sum_probs=19.4

Q ss_pred             CCcCCcccccccc-eeccCcccccccccc
Q 029695          108 CASCSKTVYPLEK-VAVENQAYHKTCFKC  135 (189)
Q Consensus       108 C~~C~~~I~~~~~-v~~~g~~~H~~Cf~C  135 (189)
                      |.-|+++|.+... +...++.||--|-.|
T Consensus         1 Cd~CG~~I~~eP~~~k~~~~~y~fCC~tC   29 (37)
T PF08394_consen    1 CDYCGGEITGEPIVVKIGNKVYYFCCPTC   29 (37)
T ss_pred             CCccCCcccCCEEEEEECCeEEEEECHHH
Confidence            6778888886543 467888888655444

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

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

Probab=82.48  E-value=0.36  Score=32.69  Aligned_cols=32  Identities=25%  Similarity=0.516  Sum_probs=22.9

Q ss_pred             CCCCcCCcccccccceec-cCcccccccccccc
Q 029695          106 EKCASCSKTVYPLEKVAV-ENQAYHKTCFKCSH  137 (189)
Q Consensus       106 ~~C~~C~~~I~~~~~v~~-~g~~~H~~Cf~C~~  137 (189)
                      -+|..|+++|..++.+++ .+..-|..||+=..
T Consensus         3 WkC~iCg~~I~~gqlFTF~~kG~VH~~C~~~~~   35 (101)
T PF09943_consen    3 WKCYICGKPIYEGQLFTFTKKGPVHYECFREKA   35 (101)
T ss_pred             eEEEecCCeeeecceEEEecCCcEeHHHHHHHH
Confidence            468888888888887653 34667888886543

>PF13240 zinc_ribbon_2: zinc-ribbon domain

Probab=82.33  E-value=0.72  Score=22.42  Aligned_cols=8  Identities=25%  Similarity=0.916  Sum_probs=4.6

Q ss_pred             ccccCcee
Q 029695           10 CKVCEKTV   17 (189)
Q Consensus        10 C~~C~~~I   17 (189)
                      |..|+..|
T Consensus         2 Cp~CG~~~    9 (23)
T PF13240_consen    2 CPNCGAEI    9 (23)
T ss_pred             CcccCCCC
Confidence            55555555

>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[]

Probab=80.13  E-value=1  Score=24.48  Aligned_cols=24  Identities=25%  Similarity=0.509  Sum_probs=18.1

Q ss_pred             cccccccccCCCCCccccCCeecchhhH
Q 029695           35 FKCSHCKGTLKLSNYSSMEGVLYCKPHF   62 (189)
Q Consensus        35 F~C~~C~~~L~~~~~~~~~g~~yC~~c~   62 (189)
                      +.|..|+..    .|...+|..||..|-
T Consensus         9 ~~C~~C~~~----~~~~~dG~~yC~~cG   32 (36)
T PF11781_consen    9 EPCPVCGSR----WFYSDDGFYYCDRCG   32 (36)
T ss_pred             CcCCCCCCe----EeEccCCEEEhhhCc
Confidence            457888765    377889999998774

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	189
2d8y_A	91	Solution Structure Of The Lim Domain Of Epithelial		3e-18
2d8y_A	91	Solution Structure Of The Lim Domain Of Epithelial		1e-14
1b8t_A	192	Solution Structure Of The Chicken Crp1 Length = 192		7e-14
1cxx_A	113	Mutant R122a Of Quail Cysteine And Glycine-Rich Pro		2e-08
1qli_A	113	Quail Cysteine And Glycine-Rich Protein, Nmr, 15 Mi		3e-08
2o13_A	58	Solution Structure Of The C-Terminal Lim Domain Of		2e-06
2o13_A	58	Solution Structure Of The C-Terminal Lim Domain Of		2e-06
2o10_A	60	Solution Structure Of The N-Terminal Lim Domain Of		3e-06
2o10_A	60	Solution Structure Of The N-Terminal Lim Domain Of		3e-04
1ctl_A	85	Structure Of The Carboxy-Terminal Lim Domain From T		4e-06
2cu8_A	76	Solution Structure Of The Lim Domain Of Human Cyste		2e-05
2cu8_A	76	Solution Structure Of The Lim Domain Of Human Cyste		9e-04
2co8_A	82	Solution Structures Of The Lim Domain Of Human Nedd		2e-05
2co8_A	82	Solution Structures Of The Lim Domain Of Human Nedd		4e-04
1a7i_A	81	Amino-Terminal Lim Domain From Quail Cysteine And G		4e-05
1iml_A	76	Cysteine Rich Intestinal Protein, Nmr, 48 Structure		9e-05

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

Iteration: 1
 Score = 87.8 bits (216), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 38/77 (49%), Positives = 53/77 (68%)
Query: 7  QQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
          ++ C  C+KTVYP+E+L A+  V+H SCF+CS+C   L L  Y+S+ G +YCKPHF QLF
Sbjct: 15 RETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLF 74
Query: 67 KESGNFNKNFQSPAKSA 83
          K  GN+++ F S   S 
Sbjct: 75 KSKGNYDEGFGSGPSSG 91

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

Iteration: 1
 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 33/73 (45%), Positives = 47/73 (64%)
Query: 105 QEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLF 164
           +E C  C KTVYP+E++    Q +H +CF+CS+    +S   YA+L G +YCK HF+QLF
Sbjct: 15  RETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHFNQLF 74
Query: 165 KEKGSYNHLIKSA 177
           K KG+Y+    S 
Sbjct: 75  KSKGNYDEGFGSG 87

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

Iteration: 1
 Score = 73.2 bits (178), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 50/178 (28%), Positives = 79/178 (44%), Gaps = 20/178 (11%)
Query: 5   GTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQ 64
           G  +KC VC+K VY  E++  +G  +HKSCF C  CK  L  +  +     +YCK  + +
Sbjct: 5   GGGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCYGK 64
Query: 65  ---------------LFKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCA 109
                          L  + G          +S     P  +R   K      G  + C 
Sbjct: 65  KYGPKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKV-----GGSDGCP 119
Query: 110 SCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEK 167
            C + VY  EKV    +++HK+CF+C+  G S+  +  A  +G +YCK  +++ F  K
Sbjct: 120 RCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPK 177

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

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 32/90 (35%), Positives = 46/90 (51%), Gaps = 1/90 (1%)
Query: 79  PAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHG 138
           P  S     P    + SK A  F G  EKC++C  +VY  EKV    + +HK CF+C+  
Sbjct: 11  PESSPSPHRPTTNPNTSKFAQKFGGA-EKCSACGDSVYAAEKVIGAGKPWHKNCFRCAKC 69
Query: 139 GCSISPSNYAALEGILYCKHHFSQLFKEKG 168
           G S+  +     EG +YCK  +++ F  KG
Sbjct: 70  GKSLESTTLTEKEGEIYCKGCYAKNFGPKG 99

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

Iteration: 1
 Score = 55.1 bits (131), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 32/90 (35%), Positives = 45/90 (50%), Gaps = 1/90 (1%)
Query: 79  PAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHG 138
           P  S     P    + SK A  F G  EKC+ C  +VY  EKV    + +HK CF+C+  
Sbjct: 11  PESSPSPHRPTTNPNTSKFAQKFGGA-EKCSRCGDSVYAAEKVIGAGKPWHKNCFRCAKC 69
Query: 139 GCSISPSNYAALEGILYCKHHFSQLFKEKG 168
           G S+  +     EG +YCK  +++ F  KG
Sbjct: 70  GKSLESTTLTEKEGEIYCKGCYAKNFGPKG 99

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 22/58 (37%), Positives = 36/58 (62%)
Query: 9  KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
          KC  C K+VY  E++   G  +HK+CF+C+ C  +L+ +N +  +G LYCK  + + F
Sbjct: 1  KCPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCKVCYAKNF 58

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 24/58 (41%), Positives = 35/58 (60%)
Query: 107 KCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLF 164
           KC  C K+VY  EKV    + +HKTCF+C+  G S+  +N    +G LYCK  +++ F
Sbjct: 1   KCPRCGKSVYAAEKVMGGGKPWHKTCFRCAICGKSLESTNVTDKDGELYCKVCYAKNF 58

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 21/51 (41%), Positives = 31/51 (60%)
Query: 9  KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCK 59
          KC  CEKTVY  E++  +G  +HK+CF C  C+  L  +  ++ E  +YCK
Sbjct: 3  KCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCK 53

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

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 20/51 (39%), Positives = 30/51 (58%)
Query: 107 KCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCK 157
           KC +C KTVY  E++    +++HKTCF C     ++  +  AA E  +YCK
Sbjct: 3   KCGACEKTVYHAEEIQCNGRSFHKTCFHCMACRKALDSTTVAAHESEIYCK 53

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

Iteration: 1
 Score = 47.8 bits (112), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 37/65 (56%)
Query: 103 GTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQ 162
           G  + C  C + VY  EKV    +++HK+CF+C+  G S+  +  A  +G +YCK  +++
Sbjct: 6   GGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAK 65
Query: 163 LFKEK 167
            F  K
Sbjct: 66  NFGPK 70

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 24/59 (40%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 9  KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYC-KPHFEQLF 66
          KC  C+KTVY  E++S+ G  +HK C KC  C  TL    ++  +G  +C KP +  LF
Sbjct: 11 KCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLF 69

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

Iteration: 1
 Score = 40.0 bits (92), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 22/59 (37%), Positives = 33/59 (55%), Gaps = 1/59 (1%)
Query: 107 KCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYC-KHHFSQLF 164
           KC  C KTVY  EKV+   + +HK C KC     +++P  +A  +G  +C K  ++ LF
Sbjct: 11  KCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKPCYATLF 69

>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 = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 32/62 (51%), Gaps = 2/62 (3%)
Query: 5  GTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSM--EGVLYCKPHF 62
          G    C +C + +Y +E+L  +G  +H+SCF+C  C+ TL    Y     +G  YC  H 
Sbjct: 13 GAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQHL 72
Query: 63 EQ 64
           Q
Sbjct: 73 PQ 74

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

Iteration: 1
 Score = 40.8 bits (94), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 21/72 (29%), Positives = 34/72 (47%), Gaps = 2/72 (2%)
Query: 93  SPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYA--AL 150
           S S      +G  + CA C + +Y LE++ V    +H++CF+C     ++ P  Y     
Sbjct: 3   SGSSGQHQEAGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPG 62
Query: 151 EGILYCKHHFSQ 162
           +G  YC  H  Q
Sbjct: 63  DGHFYCLQHLPQ 74

>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 = 44.3 bits (103), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 21/70 (30%), Positives = 34/70 (48%)
Query: 1  MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60
          M   G   KC  C +TVY  E++  DG  +H+ CF C  C+  L  +  +  +  +YCK 
Sbjct: 1  MPNWGGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKS 60
Query: 61 HFEQLFKESG 70
           + + +   G
Sbjct: 61 CYGKKYGPKG 70

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 23/63 (36%), Positives = 33/63 (52%), Gaps = 1/63 (1%)
Query: 107 KCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHH-FSQLFK 165
           KC  C K VY  E+V    + +H+ C KC   G +++   +A  EG  YC H  +S +F 
Sbjct: 2   KCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFG 61
Query: 166 EKG 168
            KG
Sbjct: 62  PKG 64

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	189
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	1e-47
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	2e-17
1b8t_A	192	Protein (CRP1); LIM domain, muscle differentiation	9e-16
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	3e-29
2d8y_A	91	Eplin protein; LIM domain, epithelial protein LOST	1e-26
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	3e-25
1a7i_A	81	QCRP2 (LIM1); LIM domain containing proteins, meta	2e-22
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	5e-25
2cu8_A	76	Cysteine-rich protein 2; CRP2, CRIP2, ESP1 protein	4e-24
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	3e-22
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	8e-22
2co8_A	82	NEDD9 interacting protein with calponin homology a	1e-21
2co8_A	82	NEDD9 interacting protein with calponin homology a	9e-21
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	5e-17
3f6q_B	72	LIM and senescent cell antigen-like-containing dom	3e-14
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	2e-16
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	8e-09
2xjy_A	131	Rhombotin-2; oncoprotein, T-cell leukemia, proto-o	5e-06
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	5e-15
1g47_A	77	Pinch protein; LIM domain, Zn finger, cell adhesio	7e-13
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	5e-15
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	2e-08
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	3e-13
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	2e-07
2rgt_A	169	Fusion of LIM/homeobox protein LHX3, linker, INSU	7e-05
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	5e-12
1rut_X	188	Flinc4, fusion protein of LMO4 protein and LIM dom	5e-07
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	9e-12
1x63_A	82	Skeletal muscle LIM-protein 1; LIM domain, four an	5e-09
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	9e-12
1wyh_A	72	SLIM 2, skeletal muscle LIM-protein 2; structural	5e-09
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	4e-11
1x4k_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	3e-08
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	4e-11
2jtn_A	182	LIM domain-binding protein 1, LIM/homeobox protein	2e-04
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	1e-10
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	3e-08
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	1e-10
2l3k_A	123	Rhombotin-2, linker, LIM domain-binding protein 1;	2e-09
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	1e-09
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	2e-07
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	2e-09
1nyp_A	66	Pinch protein; LIM domain, protein recognition, ce	1e-08
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	3e-09
2dj7_A	80	Actin-binding LIM protein 3; LIM domain, Zn bindin	8e-08
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	1e-08
2ehe_A	82	Four and A half LIM domains 3; FHL-3, skeletal mus	1e-08
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	2e-08
2d8z_A	70	Four and A half LIM domains 2; skeletal muscle LIM	4e-08
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	2e-08
2cur_A	69	Skeletal muscle LIM-protein 1; four and A half LIM	3e-08
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	2e-08
2l4z_A	123	DNA endonuclease RBBP8, LIM domain transcription L	8e-07
2cuq_A	80	Four and A half LIM domains 3; structural genomics	2e-08
2cuq_A	80	Four and A half LIM domains 3; structural genomics	4e-07
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	3e-08
1x62_A	79	C-terminal LIM domain protein 1; PDZ and LIM domai	3e-07
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	3e-08
1x3h_A	80	Leupaxin; paxillin family, protein-protein interac	7e-07
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	4e-08
1x4l_A	72	Skeletal muscle LIM-protein 3; LIM domain, structu	5e-06
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	7e-08
1x64_A	89	Alpha-actinin-2 associated LIM protein; LIM domain	3e-07
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	9e-08
2dar_A	90	PDZ and LIM domain protein 5; enigma homolog prote	4e-06
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	2e-07
2d8x_A	70	Protein pinch; LIM domain, pinch protein, structur	2e-06
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	2e-07
2egq_A	77	FHL1 protein; LIM domain, four and A half LIM doma	9e-07
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	2e-07
1m3v_A	122	FLIN4, fusion of the LIM interacting domain of LDB	1e-06
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	4e-07
2dlo_A	81	Thyroid receptor-interacting protein 6; LIM domain	5e-06
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	3e-06
1x68_A	76	FHL5 protein; four-and-A-half LIM protein 5, zinc	4e-05
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	1e-05
1x6a_A	81	LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc fi	4e-04
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	3e-05
1j2o_A	114	FLIN2, fusion of rhombotin-2 and LIM domain-bindin	4e-05
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	4e-05
1zfo_A	31	LAsp-1; LIM domain, zinc-finger, metal-binding pro	2e-04
2cor_A	79	Pinch protein; LIM domain, particularly interestin	1e-04

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

 Score =  153 bits (388), Expect = 1e-47
 Identities = 50/178 (28%), Positives = 80/178 (44%), Gaps = 10/178 (5%)

Query: 1   MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60
           M   G  +KC VC+K VY  E++  +G  +HKSCF C  CK  L  +  +     +YCK 
Sbjct: 1   MPNWGGGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKS 60

Query: 61  HFEQLFKESGNFNKNFQSPA----------KSAEKLTPELTRSPSKAASMFSGTQEKCAS 110
            + + +   G                    K  E  +   T   +   +   G  + C  
Sbjct: 61  CYGKKYGPKGKGKGMGAGTLSTDKGESLGIKYEEGQSHRPTNPNASRMAQKVGGSDGCPR 120

Query: 111 CSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKG 168
           C + VY  EKV    +++HK+CF+C+  G S+  +  A  +G +YCK  +++ F  KG
Sbjct: 121 CGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKG 178

>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 = 75.4 bits (185), Expect = 2e-17
 Identities = 21/69 (30%), Positives = 36/69 (52%)

Query: 3   FIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHF 62
            +G    C  C + VY  E++   G  +HKSCF+C+ C  +L+ +  +  +G +YCK  +
Sbjct: 111 KVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCFRCAKCGKSLESTTLADKDGEIYCKGCY 170

Query: 63  EQLFKESGN 71
            + F   G 
Sbjct: 171 AKNFGPKGF 179

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

 Score = 70.8 bits (173), Expect = 9e-16
 Identities = 21/80 (26%), Positives = 34/80 (42%)

Query: 101 FSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHF 160
             G  +KC  C K VY  E+V  E  ++HK+CF C     ++  +  A     +YCK  +
Sbjct: 3   NWGGGKKCGVCQKAVYFAEEVQCEGSSFHKSCFLCMVCKKNLDSTTVAVHGDEIYCKSCY 62

Query: 161 SQLFKEKGSYNHLIKSASMK 180
            + +  KG    +       
Sbjct: 63  GKKYGPKGKGKGMGAGTLST 82

>2d8y_A Eplin protein; LIM domain, epithelial protein LOST in neoplasm, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 91

 Score =  102 bits (256), Expect = 3e-29
 Identities = 38/81 (46%), Positives = 53/81 (65%)

Query: 3  FIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHF 62
              ++ C  C+KTVYP+E+L A+  V+H SCF+CS+C   L L  Y+S+ G +YCKPHF
Sbjct: 11 QAPARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHGRIYCKPHF 70

Query: 63 EQLFKESGNFNKNFQSPAKSA 83
           QLFK  GN+++ F S   S 
Sbjct: 71 NQLFKSKGNYDEGFGSGPSSG 91

>2d8y_A Eplin protein; LIM domain, epithelial protein LOST in neoplasm, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 91

 Score = 96.5 bits (240), Expect = 1e-26
 Identities = 34/79 (43%), Positives = 49/79 (62%)

Query: 93  SPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEG 152
           S S      +  +E C  C KTVYP+E++    Q +H +CF+CS+    +S   YA+L G
Sbjct: 3   SGSSGMKFQAPARETCVECQKTVYPMERLLANQQVFHISCFRCSYCNNKLSLGTYASLHG 62

Query: 153 ILYCKHHFSQLFKEKGSYN 171
            +YCK HF+QLFK KG+Y+
Sbjct: 63  RIYCKPHFNQLFKSKGNYD 81

>1a7i_A QCRP2 (LIM1); LIM domain containing proteins, metal-binding protein, zinc finger; NMR {Coturnix japonica} SCOP: g.39.1.3 g.39.1.3 PDB: 2o10_A Length = 81

 Score = 92.5 bits (230), Expect = 3e-25
 Identities = 21/79 (26%), Positives = 37/79 (46%), Gaps = 1/79 (1%)

Query: 1  MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKP 60
          M   G   KC  C +TVY  E++  DG  +H+ CF C  C+  L  +  +  +  +YCK 
Sbjct: 1  MPNWGGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKS 60

Query: 61 HFEQLFKESG-NFNKNFQS 78
           + + +   G  + +   +
Sbjct: 61 CYGKKYGPKGYGYGQGAGT 79

>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 = 85.2 bits (211), Expect = 2e-22
 Identities = 19/69 (27%), Positives = 35/69 (50%)

Query: 101 FSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHF 160
             G   KC +C +TVY  E+V  + +++H+ CF C     ++  +  A  +  +YCK  +
Sbjct: 3   NWGGGNKCGACGRTVYHAEEVQCDGRSFHRCCFLCMVCRKNLDSTTVAIHDAEVYCKSCY 62

Query: 161 SQLFKEKGS 169
            + +  KG 
Sbjct: 63  GKKYGPKGY 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 = 91.7 bits (228), Expect = 5e-25
 Identities = 25/71 (35%), Positives = 36/71 (50%), Gaps = 1/71 (1%)

Query: 2  SFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYC-KP 60
             G   KC  C+KTVY  E++S+ G  +HK C KC  C  TL    ++  +G  +C KP
Sbjct: 4  GSSGMASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFCHKP 63

Query: 61 HFEQLFKESGN 71
           +  LF    +
Sbjct: 64 CYATLFGSGPS 74

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

 Score = 89.4 bits (222), Expect = 4e-24
 Identities = 26/74 (35%), Positives = 38/74 (51%), Gaps = 1/74 (1%)

Query: 97  AASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYC 156
            +S  SG   KC  C KTVY  EKV+   + +HK C KC     +++P  +A  +G  +C
Sbjct: 1   GSSGSSGMASKCPKCDKTVYFAEKVSSLGKDWHKFCLKCERCSKTLTPGGHAEHDGKPFC 60

Query: 157 -KHHFSQLFKEKGS 169
            K  ++ LF    S
Sbjct: 61  HKPCYATLFGSGPS 74

>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 = 84.3 bits (209), Expect = 3e-22
 Identities = 25/75 (33%), Positives = 37/75 (49%), Gaps = 1/75 (1%)

Query: 107 KCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKH-HFSQLFK 165
           KC  C K VY  E+V    + +H+ C KC   G +++   +A  EG  YC H  +S +F 
Sbjct: 2   KCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFG 61

Query: 166 EKGSYNHLIKSASMK 180
            KG      +S + K
Sbjct: 62  PKGFGRGGAESHTFK 76

>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 = 83.2 bits (206), Expect = 8e-22
 Identities = 22/64 (34%), Positives = 33/64 (51%), Gaps = 1/64 (1%)

Query: 9  KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCK-PHFEQLFK 67
          KC  C+K VY  E++++ G  +H+ C KC  C  TL    ++  EG  YC  P +  +F 
Sbjct: 2  KCPKCDKEVYFAERVTSLGKDWHRPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFG 61

Query: 68 ESGN 71
            G 
Sbjct: 62 PKGF 65

>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 = 83.1 bits (205), Expect = 1e-21
 Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 2/71 (2%)

Query: 3  FIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSM--EGVLYCKP 60
            G    C +C + +Y +E+L  +G  +H+SCF+C  C+ TL    Y     +G  YC  
Sbjct: 11 EAGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPGDGHFYCLQ 70

Query: 61 HFEQLFKESGN 71
          H  Q      +
Sbjct: 71 HLPQTDSGPSS 81

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

 Score = 80.8 bits (199), Expect = 9e-21
 Identities = 22/79 (27%), Positives = 35/79 (44%), Gaps = 2/79 (2%)

Query: 93  SPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAAL-- 150
           S S      +G  + CA C + +Y LE++ V    +H++CF+C     ++ P  Y     
Sbjct: 3   SGSSGQHQEAGAGDLCALCGEHLYVLERLCVNGHFFHRSCFRCHTCEATLWPGGYEQHPG 62

Query: 151 EGILYCKHHFSQLFKEKGS 169
           +G  YC  H  Q      S
Sbjct: 63  DGHFYCLQHLPQTDSGPSS 81

>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 = 70.9 bits (174), Expect = 5e-17
 Identities = 18/59 (30%), Positives = 31/59 (52%), Gaps = 1/59 (1%)

Query: 9  KCKVCEKTVYPVEQ-LSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
           C+ C+    P E+ ++++G +YH+ CF C+ C        +   EG  YC+  F+ LF
Sbjct: 13 TCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLF 71

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

 Score = 63.6 bits (155), Expect = 3e-14
 Identities = 19/61 (31%), Positives = 24/61 (39%), Gaps = 1/61 (1%)

Query: 105 QEKCASCSKTVYPLEK-VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQL 163
              C  C     P EK V    + YH+ CF C+          +   EG  YC+H F  L
Sbjct: 11  SATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQML 70

Query: 164 F 164
           F
Sbjct: 71  F 71

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

 Score = 70.9 bits (174), Expect = 2e-16
 Identities = 31/164 (18%), Positives = 48/164 (29%), Gaps = 40/164 (24%)

Query: 9   KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYS--SMEGVLYCKPHFEQLF 66
            C  C++ +     L A    +H+ C  C  C   L           G   C+  + +LF
Sbjct: 4   TCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLF 63

Query: 67  KESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKV-AVEN 125
                                               G    CASC K +   E    V++
Sbjct: 64  ------------------------------------GQDGLCASCDKRIRAYEMTMRVKD 87

Query: 126 QAYHKTCFKCSHGGCSISP-SNYAALEGILYCKHHFSQLFKEKG 168
           + YH  CFKC+           Y  +   + C+    +  K  G
Sbjct: 88  KVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIYEWTKING 131

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

 Score = 50.9 bits (122), Expect = 8e-09
 Identities = 17/68 (25%), Positives = 28/68 (41%), Gaps = 2/68 (2%)

Query: 5   GTQQKCKVCEKTVYPVEQ-LSADGVVYHKSCFKCSHCKGTLKL-SNYSSMEGVLYCKPHF 62
           G    C  C+K +   E  +     VYH  CFKC+ C+    +   Y  +   + C+   
Sbjct: 64  GQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDI 123

Query: 63  EQLFKESG 70
            +  K +G
Sbjct: 124 YEWTKING 131

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

 Score = 43.2 bits (102), Expect = 5e-06
 Identities = 13/67 (19%), Positives = 25/67 (37%), Gaps = 2/67 (2%)

Query: 104 TQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSIS--PSNYAALEGILYCKHHFS 161
           +   C  C + +     +   +Q +H+ C  C   GC +           G   C+  + 
Sbjct: 1   SLLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYL 60

Query: 162 QLFKEKG 168
           +LF + G
Sbjct: 61  RLFGQDG 67

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

 Score = 65.9 bits (161), Expect = 5e-15
 Identities = 18/62 (29%), Positives = 31/62 (50%), Gaps = 1/62 (1%)

Query: 6  TQQKCKVCEKTVYPVEQ-LSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQ 64
              C+ C+    P E+ ++++G +YH+ CF C+ C        +   EG  YC+  F+ 
Sbjct: 10 ASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQM 69

Query: 65 LF 66
          LF
Sbjct: 70 LF 71

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

 Score = 60.1 bits (146), Expect = 7e-13
 Identities = 19/62 (30%), Positives = 24/62 (38%), Gaps = 1/62 (1%)

Query: 104 TQEKCASCSKTVYPLEK-VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQ 162
               C  C     P EK V    + YH+ CF C+          +   EG  YC+H F  
Sbjct: 10  ASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPEGLFYEFEGRKYCEHDFQM 69

Query: 163 LF 164
           LF
Sbjct: 70  LF 71

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

 Score = 67.4 bits (165), Expect = 5e-15
 Identities = 25/159 (15%), Positives = 47/159 (29%), Gaps = 41/159 (25%)

Query: 9   KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKE 68
           +C  C++ ++  E   A+   +H   F C  C   L    Y  +     CKP + +    
Sbjct: 5   RCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNH-- 62

Query: 69  SGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKVAV-ENQA 127
                                                  C  C   + P  +     N +
Sbjct: 63  ------------------------------------AVVCQGCHNAIDPEVQRVTYNNFS 86

Query: 128 YHKT--CFKCSHGGCSISPSNYAALEGILYCKHHFSQLF 164
           +H +  CF CS     +    +  +EG+++C     +  
Sbjct: 87  WHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKRM 125

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

 Score = 50.1 bits (120), Expect = 2e-08
 Identities = 13/61 (21%), Positives = 23/61 (37%)

Query: 107 KCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKE 166
           +CA C + ++  E    ENQ +H   F C      ++   Y  +     CK  + +    
Sbjct: 5   RCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAV 64

Query: 167 K 167
            
Sbjct: 65  V 65

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

 Score = 63.7 bits (155), Expect = 3e-13
 Identities = 32/162 (19%), Positives = 49/162 (30%), Gaps = 42/162 (25%)

Query: 9   KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKE 68
            C  C++ +     L A    +H  C KCS C   L    +S     +YCK  F + F  
Sbjct: 8   MCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFS-RGESVYCKDDFFKRF-- 64

Query: 69  SGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKV-AVENQA 127
                                                 KCA+C   + P + V   ++  
Sbjct: 65  ------------------------------------GTKCAACQLGIPPTQVVRRAQDFV 88

Query: 128 YHKTCFKCSHGGCSISP--SNYAALEGILYCKHHFSQLFKEK 167
           YH  CF C      ++     Y   +  L CK  +    +  
Sbjct: 89  YHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAKQGG 130

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

 Score = 47.9 bits (114), Expect = 2e-07
 Identities = 23/131 (17%), Positives = 32/131 (24%), Gaps = 42/131 (32%)

Query: 9   KCKVCEKTVYPVEQ-LSADGVVYHKSCFKCSHCKGTLKL--SNYSSMEGVLYCKPHFEQL 65
           KC  C+  + P +    A   VYH  CF C  CK  L      Y   +  L CK  +E  
Sbjct: 67  KCAACQLGIPPTQVVRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETA 126

Query: 66  FKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKVAVEN 125
                                                  Q        +      VA   
Sbjct: 127 K--------------------------------------QGGSGGSGGSGGGTPMVAASP 148

Query: 126 QAYHKTCFKCS 136
           +  H    + +
Sbjct: 149 E-RHDGGLQAN 158

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

 Score = 40.6 bits (95), Expect = 7e-05
 Identities = 14/66 (21%), Positives = 27/66 (40%), Gaps = 1/66 (1%)

Query: 102 SGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFS 161
           +     CA C + +     +   ++ +H  C KCS     ++   ++     +YCK  F 
Sbjct: 3   TPEIPMCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCFSR-GESVYCKDDFF 61

Query: 162 QLFKEK 167
           + F  K
Sbjct: 62  KRFGTK 67

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

 Score = 60.8 bits (147), Expect = 5e-12
 Identities = 32/164 (19%), Positives = 54/164 (32%), Gaps = 40/164 (24%)

Query: 8   QKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYS--SMEGVLYCKPHFEQL 65
           ++C  C   +     L A    +H  C KCS C+  L     S  +  G++ C+  + +L
Sbjct: 6   KRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYIRL 65

Query: 66  FKESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKV-AVE 124
           F                                    G    C++C +++   E V   +
Sbjct: 66  F------------------------------------GNSGACSACGQSIPASELVMRAQ 89

Query: 125 NQAYHKTCFKCSHGGCSISP-SNYAALEGILYCKHHFSQLFKEK 167
              YH  CF CS     + P   +  + G L+C+H         
Sbjct: 90  GNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEHDRPTALING 133

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

 Score = 46.9 bits (111), Expect = 5e-07
 Identities = 18/66 (27%), Positives = 27/66 (40%), Gaps = 2/66 (3%)

Query: 3   FIGTQQKCKVCEKTVYPVEQ-LSADGVVYHKSCFKCSHCKGTLKL-SNYSSMEGVLYCKP 60
             G    C  C +++   E  + A G VYH  CF CS C+  L     +  + G L+C+ 
Sbjct: 65  LFGNSGACSACGQSIPASELVMRAQGNVYHLKCFTCSTCRNRLVPGDRFHYINGSLFCEH 124

Query: 61  HFEQLF 66
                 
Sbjct: 125 DRPTAL 130

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

 Score = 57.4 bits (139), Expect = 9e-12
 Identities = 20/59 (33%), Positives = 28/59 (47%), Gaps = 1/59 (1%)

Query: 9  KCKVCEKTVYPVEQ-LSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
          KCK C K +   +Q +   G V+HK CF CS+CK  +   ++       YC    E  F
Sbjct: 17 KCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKF 75

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

 Score = 50.1 bits (120), Expect = 5e-09
 Identities = 16/64 (25%), Positives = 24/64 (37%), Gaps = 1/64 (1%)

Query: 107 KCASCSKTVYPLEK-VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFK 165
           KC  C K +   ++ V  +   +HK CF CS+    I   ++       YC       F 
Sbjct: 17  KCKGCFKAIVAGDQNVEYKGTVWHKDCFTCSNCKQVIGTGSFFPKGEDFYCVTCHETKFA 76

Query: 166 EKGS 169
              S
Sbjct: 77  SGPS 80

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

 Score = 57.0 bits (138), Expect = 9e-12
 Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 1/59 (1%)

Query: 9  KCKVCEKTVYPVEQ-LSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
           C  C +TV P  + L   G  +H+ CF CS C+  L   ++   +G  YC P +E  F
Sbjct: 7  GCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKF 65

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

 Score = 50.1 bits (120), Expect = 5e-09
 Identities = 16/64 (25%), Positives = 28/64 (43%), Gaps = 1/64 (1%)

Query: 107 KCASCSKTVYPLEK-VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFK 165
            C++C +TV P  + +    Q +H+ CF CS     +   ++   +G  YC   +   F 
Sbjct: 7   GCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFA 66

Query: 166 EKGS 169
              S
Sbjct: 67  SGPS 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 = 55.5 bits (134), Expect = 4e-11
 Identities = 14/59 (23%), Positives = 30/59 (50%), Gaps = 1/59 (1%)

Query: 9  KCKVCEKTVYPVEQ-LSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
           C+ C+KT+ P  + +   G  +H++CF C  C+  +   ++   +   +C P +E+  
Sbjct: 7  GCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFCVPCYEKQH 65

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

 Score = 47.8 bits (114), Expect = 3e-08
 Identities = 15/73 (20%), Positives = 28/73 (38%), Gaps = 4/73 (5%)

Query: 98  ASMFSGTQEKCASCSKTVYPLEK-VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYC 156
            S  S     C  C KT+ P  + +  +  ++H+TCF C      I   ++   +   +C
Sbjct: 1   GSSGS---SGCQECKKTIMPGTRKMEYKGSSWHETCFICHRCQQPIGTKSFIPKDNQNFC 57

Query: 157 KHHFSQLFKEKGS 169
              + +      S
Sbjct: 58  VPCYEKQHASGPS 70

>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 = 58.0 bits (140), Expect = 4e-11
 Identities = 32/157 (20%), Positives = 48/157 (30%), Gaps = 42/157 (26%)

Query: 9   KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKE 68
            C  C++ +     L A    +H  C KCS C   L    + S    +YCK  F + F  
Sbjct: 62  MCAGCDQHILDRFILKALDRHWHSKCLKCSDCHVPLAERCF-SRGESVYCKDDFFKRF-- 118

Query: 69  SGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKV-AVENQA 127
                                                 KCA+C   + P + V   ++  
Sbjct: 119 ------------------------------------GTKCAACQLGIPPTQVVRRAQDFV 142

Query: 128 YHKTCFKCSHGGCSISP--SNYAALEGILYCKHHFSQ 162
           YH  CF C      ++     Y   +  L CK  +  
Sbjct: 143 YHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYET 179

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

 Score = 39.5 bits (92), Expect = 2e-04
 Identities = 18/101 (17%), Positives = 34/101 (33%), Gaps = 1/101 (0%)

Query: 67  KESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQ 126
            E        ++    A     +   S     S  +     CA C + +     +   ++
Sbjct: 22  DEDERLITRLENTQFDAANGIDDEGGSGGHMGSGGTPEIPMCAGCDQHILDRFILKALDR 81

Query: 127 AYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFKEK 167
            +H  C KCS     ++   ++     +YCK  F + F  K
Sbjct: 82  HWHSKCLKCSDCHVPLAERCFSR-GESVYCKDDFFKRFGTK 121

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

 Score = 55.1 bits (133), Expect = 1e-10
 Identities = 18/131 (13%), Positives = 35/131 (26%), Gaps = 40/131 (30%)

Query: 9   KCKVCEKTVYPVEQ-LSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFK 67
            C  C K +    + +      +H +CF+C+ C   L    + + +  + C     +   
Sbjct: 7   GCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDS 66

Query: 68  ESGNFNKNFQSPAKSAEKLTPELTRSPSKAASMFSGTQEKCASCSKTVYPLEKV-AVENQ 126
                                                  KC  C K +   ++    +  
Sbjct: 67  --------------------------------------PKCKGCFKAIVAGDQNVEYKGT 88

Query: 127 AYHKTCFKCSH 137
            +HK CF    
Sbjct: 89  VWHKDCFSGPS 99

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

 Score = 48.6 bits (116), Expect = 3e-08
 Identities = 14/62 (22%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 107 KCASCSKTVYPLEK-VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFK 165
            C  C K +    K V  +N+ +H TCF+C+     ++   + A +  + C    ++   
Sbjct: 7   GCVECRKPIGADSKEVHYKNRFWHDTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDS 66

Query: 166 EK 167
            K
Sbjct: 67  PK 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 = 51.7 bits (124), Expect = 1e-09
 Identities = 15/59 (25%), Positives = 26/59 (44%), Gaps = 1/59 (1%)

Query: 9  KCKVCEKTVYPVEQ-LSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
           C  C + V      + A   V+H  CF CS C+  L+  ++ ++E   YC+  +    
Sbjct: 7  GCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVATL 65

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

 Score = 45.5 bits (108), Expect = 2e-07
 Identities = 14/64 (21%), Positives = 24/64 (37%), Gaps = 1/64 (1%)

Query: 102 SGTQEKCASCSKTVYPLEK-VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHF 160
           S     C  C + V      V   ++ +H  CF CS     +   ++ A+E   YC+  +
Sbjct: 2   SSGSSGCGGCGEDVVGDGAGVVALDRVFHVGCFVCSTCRAQLRGQHFYAVERRAYCEGCY 61

Query: 161 SQLF 164
               
Sbjct: 62  VATL 65

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

 Score = 50.7 bits (122), Expect = 2e-09
 Identities = 15/58 (25%), Positives = 27/58 (46%), Gaps = 1/58 (1%)

Query: 9  KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
           C  C + +     ++A G  +H   F C+ C+       +   +G+ YC+ H+ QLF
Sbjct: 7  ICGACRRPIEG-RVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLF 63

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

 Score = 48.4 bits (116), Expect = 1e-08
 Identities = 15/67 (22%), Positives = 27/67 (40%), Gaps = 4/67 (5%)

Query: 98  ASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCK 157
            SM       C +C + +     V    + +H   F C+          +   +G+ YC+
Sbjct: 1   GSMGVP---ICGACRRPIEG-RVVNAMGKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCE 56

Query: 158 HHFSQLF 164
            H++QLF
Sbjct: 57  THYNQLF 63

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

 Score = 50.5 bits (121), Expect = 3e-09
 Identities = 19/58 (32%), Positives = 27/58 (46%), Gaps = 1/58 (1%)

Query: 9  KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
           C  C++ +   + L A    +H SCFKC  C   L    Y S +GV YC+  +   F
Sbjct: 17 HCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILT-GEYISKDGVPYCESDYHAQF 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 = 47.0 bits (112), Expect = 8e-08
 Identities = 16/77 (20%), Positives = 32/77 (41%), Gaps = 1/77 (1%)

Query: 93  SPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEG 152
           S S    +       CA C + +   + +   ++ +H +CFKC      ++   Y + +G
Sbjct: 3   SGSSGKPIKIRGPSHCAGCKEEIKHGQSLLALDKQWHVSCFKCQTCSVILT-GEYISKDG 61

Query: 153 ILYCKHHFSQLFKEKGS 169
           + YC+  +   F    S
Sbjct: 62  VPYCESDYHAQFGSGPS 78

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

 Score = 49.0 bits (117), Expect = 1e-08
 Identities = 13/65 (20%), Positives = 27/65 (41%), Gaps = 1/65 (1%)

Query: 106 EKCASCSKTVYPLEK-VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLF 164
             CA C + +    + +  E++ +H+ CF+C     S++   +   +  L C   +   F
Sbjct: 16  NTCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELLCNDCYCSAF 75

Query: 165 KEKGS 169
               S
Sbjct: 76  SSGPS 80

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

 Score = 49.0 bits (117), Expect = 1e-08
 Identities = 12/59 (20%), Positives = 26/59 (44%), Gaps = 1/59 (1%)

Query: 9  KCKVCEKTVYPVEQ-LSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
           C  C++ +    + L  +   +H+ CF+C  C+ +L    ++  +  L C   +   F
Sbjct: 17 TCAECQQLIGHDSRELFYEDRHFHEGCFRCCRCQRSLADEPFTCQDSELLCNDCYCSAF 75

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

 Score = 48.1 bits (115), Expect = 2e-08
 Identities = 14/58 (24%), Positives = 26/58 (44%), Gaps = 1/58 (1%)

Query: 9  KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
           C  C+K +     ++     +HK CF C+ C+  L    +++ +   YC   F  L+
Sbjct: 7  GCVQCKKPITT-GGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCLNCFCDLY 63

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

 Score = 47.3 bits (113), Expect = 4e-08
 Identities = 18/70 (25%), Positives = 26/70 (37%), Gaps = 4/70 (5%)

Query: 98  ASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCK 157
            S  S     C  C K +     V    Q +HK CF C+     +S   + A +   YC 
Sbjct: 1   GSSGSS---GCVQCKKPITT-GGVTYREQPWHKECFVCTACRKQLSGQRFTARDDFAYCL 56

Query: 158 HHFSQLFKEK 167
           + F  L+   
Sbjct: 57  NCFCDLYASG 66

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

 Score = 48.2 bits (115), Expect = 2e-08
 Identities = 12/58 (20%), Positives = 22/58 (37%), Gaps = 1/58 (1%)

Query: 9  KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
           C  C K +     ++     +H  CF C  C   L    ++++E   YC   ++   
Sbjct: 7  GCVKCNKAITS-GGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYKNFV 63

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

 Score = 47.8 bits (114), Expect = 3e-08
 Identities = 14/68 (20%), Positives = 25/68 (36%), Gaps = 1/68 (1%)

Query: 102 SGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFS 161
           S     C  C+K +     +  ++Q +H  CF C      ++   + A+E   YC   + 
Sbjct: 2   SSGSSGCVKCNKAITS-GGITYQDQPWHADCFVCVTCSKKLAGQRFTAVEDQYYCVDCYK 60

Query: 162 QLFKEKGS 169
                  S
Sbjct: 61  NFVSGPSS 68

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

 Score = 49.3 bits (117), Expect = 2e-08
 Identities = 17/64 (26%), Positives = 28/64 (43%), Gaps = 2/64 (3%)

Query: 5   GTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSME--GVLYCKPHF 62
            + ++C  C   +     L A    +H  C KCS C+  L     SS    G++ C+  +
Sbjct: 59  LSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDY 118

Query: 63  EQLF 66
            +LF
Sbjct: 119 IRLF 122

>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 = 8e-07
 Identities = 12/65 (18%), Positives = 28/65 (43%), Gaps = 2/65 (3%)

Query: 102 SGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSIS--PSNYAALEGILYCKHH 159
             + ++CA C   +     +   +  +H  C KCS     +    ++     G++ C++ 
Sbjct: 58  GLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRND 117

Query: 160 FSQLF 164
           + +LF
Sbjct: 118 YIRLF 122

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

 Score = 48.1 bits (115), Expect = 2e-08
 Identities = 15/58 (25%), Positives = 27/58 (46%), Gaps = 1/58 (1%)

Query: 9  KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
          +C  C KT+     ++     +H+ C  C+ C+  L    ++S +   YC   F +LF
Sbjct: 17 RCARCSKTLTQ-GGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELF 73

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

 Score = 45.0 bits (107), Expect = 4e-07
 Identities = 16/62 (25%), Positives = 28/62 (45%), Gaps = 1/62 (1%)

Query: 106 EKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLFK 165
            +CA CSKT+     V   +Q +H+ C  C+     ++   + + +   YC   F +LF 
Sbjct: 16  PRCARCSKTLTQ-GGVTYRDQPWHRECLVCTGCQTPLAGQQFTSRDEDPYCVACFGELFA 74

Query: 166 EK 167
             
Sbjct: 75  SG 76

>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 = 48.2 bits (115), Expect = 3e-08
 Identities = 12/59 (20%), Positives = 21/59 (35%), Gaps = 1/59 (1%)

Query: 9  KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFK 67
           C  C   +     +       H  C+ C+ C   LK   +  +E  +YC+ H  +   
Sbjct: 17 MCDKCGTGIVG-VFVKLRDRHRHPECYVCTDCGTNLKQKGHFFVEDQIYCEKHARERVS 74

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

 Score = 45.1 bits (107), Expect = 3e-07
 Identities = 13/77 (16%), Positives = 27/77 (35%), Gaps = 4/77 (5%)

Query: 91  TRSPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAAL 150
             S S   +        C  C   +     V + ++  H  C+ C+  G ++    +  +
Sbjct: 4   GSSGSIGNAQKL---PMCDKCGTGIVG-VFVKLRDRHRHPECYVCTDCGTNLKQKGHFFV 59

Query: 151 EGILYCKHHFSQLFKEK 167
           E  +YC+ H  +     
Sbjct: 60  EDQIYCEKHARERVSGP 76

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

 Score = 48.1 bits (115), Expect = 3e-08
 Identities = 16/58 (27%), Positives = 26/58 (44%), Gaps = 1/58 (1%)

Query: 9  KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
          KC  C + V     LSA   V+H  CF C  C  +    ++  ++G  +C+ H+    
Sbjct: 17 KCGGCNRPVLE-NYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHHRR 73

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

 Score = 44.3 bits (105), Expect = 7e-07
 Identities = 14/58 (24%), Positives = 26/58 (44%), Gaps = 1/58 (1%)

Query: 107 KCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLF 164
           KC  C++ V     ++  +  +H  CF C     S S  ++  L+G  +C+ H+    
Sbjct: 17  KCGGCNRPVLE-NYLSAMDTVWHPECFVCGDCFTSFSTGSFFELDGRPFCELHYHHRR 73

>1x4l_A Skeletal muscle LIM-protein 3; LIM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 72

 Score = 47.5 bits (113), Expect = 4e-08
 Identities = 10/61 (16%), Positives = 21/61 (34%), Gaps = 3/61 (4%)

Query: 9  KCKVCEKTVYPVEQ---LSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQL 65
           C  C   +  +     +S +   +H  CF C  C  +L    + +    + C    + +
Sbjct: 7  GCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGKDI 66

Query: 66 F 66
           
Sbjct: 67 S 67

>1x4l_A Skeletal muscle LIM-protein 3; LIM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Length = 72

 Score = 42.1 bits (99), Expect = 5e-06
 Identities = 11/62 (17%), Positives = 21/62 (33%), Gaps = 3/62 (4%)

Query: 106 EKCASCSKTVYPLEK---VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQ 162
             CA C+  +  L     ++ E + +H  CF C     S+    +      + C      
Sbjct: 6   SGCAGCTNPISGLGGTKYISFEERQWHNDCFNCKKCSLSLVGRGFLTERDDILCPDCGKD 65

Query: 163 LF 164
           + 
Sbjct: 66  IS 67

>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 = 47.1 bits (112), Expect = 7e-08
 Identities = 17/58 (29%), Positives = 22/58 (37%), Gaps = 1/58 (1%)

Query: 9  KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
           C  C   +     + A     H  CF C+ C   LK   Y  +EG LYC+ H     
Sbjct: 27 LCDKCGSGIVG-AVVKARDKYRHPECFVCADCNLNLKQKGYFFVEGELYCETHARART 83

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

 Score = 45.6 bits (108), Expect = 3e-07
 Identities = 14/75 (18%), Positives = 25/75 (33%), Gaps = 1/75 (1%)

Query: 93  SPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEG 152
           +     +  +     C  C   +     V   ++  H  CF C+    ++    Y  +EG
Sbjct: 13  TKVHGGAGSAQRMPLCDKCGSGIVG-AVVKARDKYRHPECFVCADCNLNLKQKGYFFVEG 71

Query: 153 ILYCKHHFSQLFKEK 167
            LYC+ H        
Sbjct: 72  ELYCETHARARTSGP 86

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

 Score = 47.0 bits (112), Expect = 9e-08
 Identities = 18/58 (31%), Positives = 28/58 (48%), Gaps = 1/58 (1%)

Query: 9  KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
           C  C + +     L A G  +H   F C+HCK T+    +   +G LYC+  +E+ F
Sbjct: 27 MCAHCNQVIRG-PFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFF 83

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

 Score = 42.4 bits (100), Expect = 4e-06
 Identities = 12/58 (20%), Positives = 28/58 (48%), Gaps = 1/58 (1%)

Query: 107 KCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQLF 164
            CA C++ +     +    +++H   F C+H   +++   +   +G LYC+  + + F
Sbjct: 27  MCAHCNQVIRG-PFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFF 83

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

 Score = 45.9 bits (109), Expect = 2e-07
 Identities = 12/58 (20%), Positives = 21/58 (36%), Gaps = 1/58 (1%)

Query: 9  KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
           C  C + +     + A    +H  CF+C  C+  L    +    G   C+P   +  
Sbjct: 7  GCHQCGEFIIG-RVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNREK 63

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

 Score = 42.8 bits (101), Expect = 2e-06
 Identities = 11/68 (16%), Positives = 23/68 (33%), Gaps = 1/68 (1%)

Query: 102 SGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFS 161
           S     C  C + +     +   N ++H  CF+C      ++   +    G   C+   +
Sbjct: 2   SSGSSGCHQCGEFIIG-RVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHN 60

Query: 162 QLFKEKGS 169
           +      S
Sbjct: 61  REKASGPS 68

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

 Score = 45.9 bits (109), Expect = 2e-07
 Identities = 13/61 (21%), Positives = 24/61 (39%), Gaps = 4/61 (6%)

Query: 9  KCKVCEKTVYPV----EQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQ 64
          KC  C+  +         ++ +G  +H  CF C  C   L    +   +  +YC    ++
Sbjct: 17 KCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYCPDCAKK 76

Query: 65 L 65
          L
Sbjct: 77 L 77

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

 Score = 44.0 bits (104), Expect = 9e-07
 Identities = 16/62 (25%), Positives = 27/62 (43%), Gaps = 4/62 (6%)

Query: 106 EKCASCSKTVYPLEK----VAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFS 161
           +KCA C   +    K    VA E Q++H  CF C     +++   +   +  +YC     
Sbjct: 16  KKCAGCKNPITGFGKGSSVVAYEGQSWHDYCFHCKKCSVNLANKRFVFHQEQVYCPDCAK 75

Query: 162 QL 163
           +L
Sbjct: 76  KL 77

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

 Score = 46.9 bits (111), Expect = 2e-07
 Identities = 18/67 (26%), Positives = 30/67 (44%), Gaps = 2/67 (2%)

Query: 6  TQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYS--SMEGVLYCKPHFE 63
          + ++C  C   +     L A    +H  C KCS C+  L     S  +  G++ C+  + 
Sbjct: 4  SWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRNDYI 63

Query: 64 QLFKESG 70
          +LF  SG
Sbjct: 64 RLFGNSG 70

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

 Score = 45.0 bits (106), Expect = 1e-06
 Identities = 14/73 (19%), Positives = 29/73 (39%), Gaps = 2/73 (2%)

Query: 102 SGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSN--YAALEGILYCKHH 159
           S + ++CA C   +     +   +  +H  C KCS     +           G++ C++ 
Sbjct: 2   SLSWKRCAGCGGKIADRFLLYAMDSYWHSRCLKCSSCQAQLGDIGTSSYTKSGMILCRND 61

Query: 160 FSQLFKEKGSYNH 172
           + +LF   G+   
Sbjct: 62  YIRLFGNSGAGGS 74

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

 Score = 45.1 bits (107), Expect = 4e-07
 Identities = 17/65 (26%), Positives = 27/65 (41%), Gaps = 2/65 (3%)

Query: 3  FIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYS-SMEGVLYCKPH 61
          ++ T +KC  C + +     L A G  YH  CF C  C   L    ++      ++C   
Sbjct: 11 YVATLEKCATCSQPILD-RILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDATSQIHCIED 69

Query: 62 FEQLF 66
          F + F
Sbjct: 70 FHRKF 74

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

 Score = 42.0 bits (99), Expect = 5e-06
 Identities = 18/73 (24%), Positives = 29/73 (39%), Gaps = 2/73 (2%)

Query: 93  SPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISPSNYA-ALE 151
           S S     +  T EKCA+CS+ +     +    +AYH  CF C      +    +     
Sbjct: 3   SGSSGEGCYVATLEKCATCSQPILD-RILRAMGKAYHPGCFTCVVCHRGLDGIPFTVDAT 61

Query: 152 GILYCKHHFSQLF 164
             ++C   F + F
Sbjct: 62  SQIHCIEDFHRKF 74

>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 = 42.5 bits (100), Expect = 3e-06
 Identities = 10/64 (15%), Positives = 22/64 (34%), Gaps = 3/64 (4%)

Query: 9  KCKVCEKTVYPVEQ---LSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQL 65
           C  C K +  +     +      +H  CF C  C  +L    + +    ++C+     +
Sbjct: 7  GCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCGSGM 66

Query: 66 FKES 69
            + 
Sbjct: 67 DTDI 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 = 39.5 bits (92), Expect = 4e-05
 Identities = 12/64 (18%), Positives = 26/64 (40%), Gaps = 3/64 (4%)

Query: 106 EKCASCSKTVYPL---EKVAVENQAYHKTCFKCSHGGCSISPSNYAALEGILYCKHHFSQ 162
             C +CSK +  L   + +  ++  +H  CF C     S+    +      ++C+   S 
Sbjct: 6   SGCVACSKPISGLTGAKFICFQDSQWHSECFNCGKCSVSLVGKGFLTQNKEIFCQKCGSG 65

Query: 163 LFKE 166
           +  +
Sbjct: 66  MDTD 69

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

 Score = 41.3 bits (97), Expect = 1e-05
 Identities = 13/60 (21%), Positives = 20/60 (33%), Gaps = 3/60 (5%)

Query: 9  KCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKL--SNYSSMEGVLYCKPHFEQLF 66
           C  C   +     + A    YH  CF C  CK  ++   +        LYC     ++ 
Sbjct: 17 FCHGCSLLMTG-PFMVAGEFKYHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVV 75

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

 Score = 36.7 bits (85), Expect = 4e-04
 Identities = 15/60 (25%), Positives = 21/60 (35%), Gaps = 3/60 (5%)

Query: 107 KCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSISP--SNYAALEGILYCKHHFSQLF 164
            C  CS  +     VA E + YH  CF C      I    +        LYC    +++ 
Sbjct: 17  FCHGCSLLMTGPFMVAGEFK-YHPECFACMSCKVIIEDGDAYALVQHATLYCGKCHNEVV 75

>1j2o_A FLIN2, fusion of rhombotin-2 and LIM domain-binding protein 1; LIM-interaction-domain (LID), metal binding protein; NMR {Mus musculus} SCOP: g.39.1.3 g.39.1.3 Length = 114

 Score = 40.4 bits (94), Expect = 3e-05
 Identities = 14/69 (20%), Positives = 24/69 (34%), Gaps = 2/69 (2%)

Query: 5  GTQQKCKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYS--SMEGVLYCKPHF 62
          G+   C  C++ +     L A    +H+ C  C  C   L           G   C+  +
Sbjct: 1  GSLLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDY 60

Query: 63 EQLFKESGN 71
           +L    G+
Sbjct: 61 LRLGGSGGH 69

>1j2o_A FLIN2, fusion of rhombotin-2 and LIM domain-binding protein 1; LIM-interaction-domain (LID), metal binding protein; NMR {Mus musculus} SCOP: g.39.1.3 g.39.1.3 Length = 114

 Score = 40.4 bits (94), Expect = 4e-05
 Identities = 13/68 (19%), Positives = 24/68 (35%), Gaps = 2/68 (2%)

Query: 103 GTQEKCASCSKTVYPLEKVAVENQAYHKTCFKCSHGGCSIS--PSNYAALEGILYCKHHF 160
           G+   C  C + +     +   +Q +H+ C  C   GC +           G   C+  +
Sbjct: 1   GSLLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDY 60

Query: 161 SQLFKEKG 168
            +L    G
Sbjct: 61  LRLGGSGG 68

>1zfo_A LAsp-1; LIM domain, zinc-finger, metal-binding protein; NMR {Sus scrofa} SCOP: g.39.1.4 Length = 31

 Score = 38.5 bits (89), Expect = 4e-05
 Identities = 14/27 (51%), Positives = 17/27 (62%)

Query: 107 KCASCSKTVYPLEKVAVENQAYHKTCF 133
            CA C K VYP EKV   ++ +HK CF
Sbjct: 5   NCARCGKIVYPTEKVNCLDKFWHKACF 31

>1zfo_A LAsp-1; LIM domain, zinc-finger, metal-binding protein; NMR {Sus scrofa} SCOP: g.39.1.4 Length = 31

 Score = 36.6 bits (84), Expect = 2e-04
 Identities = 11/28 (39%), Positives = 16/28 (57%)

Query: 8  QKCKVCEKTVYPVEQLSADGVVYHKSCF 35
            C  C K VYP E+++     +HK+CF
Sbjct: 4  PNCARCGKIVYPTEKVNCLDKFWHKACF 31

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

 Score = 38.6 bits (90), Expect = 1e-04
 Identities = 14/57 (24%), Positives = 26/57 (45%), Gaps = 2/57 (3%)

Query: 10 CKVCEKTVYPVEQLSADGVVYHKSCFKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF 66
          C+ C   +   + L      YH   F C++C   L  ++   ++G LYC P  +++ 
Sbjct: 18 CQKCHAIIDE-QPLIFKNDPYHPDHFNCANCGKELT-ADARELKGELYCLPCHDKMG 72

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

No hit with probability above 80.00

---

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	189
d2d8ya2	42	g.39.1.3 (A:44-85) Eplin, LIMA1 {Human (Homo sapie	4e-17
d2d8ya2	42	g.39.1.3 (A:44-85) Eplin, LIMA1 {Human (Homo sapie	1e-14
d2co8a2	36	g.39.1.3 (A:8-43) Nedd9 interacting protein with c	2e-11
d2co8a2	36	g.39.1.3 (A:8-43) Nedd9 interacting protein with c	2e-10
d2d8ya1	35	g.39.1.3 (A:9-43) Eplin, LIMA1 {Human (Homo sapien	7e-11
d2d8ya1	35	g.39.1.3 (A:9-43) Eplin, LIMA1 {Human (Homo sapien	2e-09
d1b8ta3	43	g.39.1.3 (A:101-143) Cysteine-rich (intestinal) pr	6e-10
d1b8ta3	43	g.39.1.3 (A:101-143) Cysteine-rich (intestinal) pr	1e-09
d1zfoa_	30	g.39.1.4 (A:) LASP-1 {Pig (Sus scrofa) [TaxId: 982	6e-05
d1zfoa_	30	g.39.1.4 (A:) LASP-1 {Pig (Sus scrofa) [TaxId: 982	0.001
d1b8ta1	35	g.39.1.3 (A:1-35) Cysteine-rich (intestinal) prote	1e-04
d1b8ta1	35	g.39.1.3 (A:1-35) Cysteine-rich (intestinal) prote	8e-04
d2cu8a1	30	g.39.1.3 (A:8-37) Cysteine-rich (intestinal) prote	2e-04
d2cu8a1	30	g.39.1.3 (A:8-37) Cysteine-rich (intestinal) prote	5e-04

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

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

 Score = 69.3 bits (170), Expect = 4e-17
 Identities = 21/41 (51%), Positives = 29/41 (70%)

Query: 36 KCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKESGNFNKNF 76
          +CS+C   L L  Y+S+ G +YCKPHF QLFK  GN+++ F
Sbjct: 1  RCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNYDEGF 41

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

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

 Score = 62.8 bits (153), Expect = 1e-14
 Identities = 19/38 (50%), Positives = 27/38 (71%)

Query: 134 KCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYN 171
           +CS+    +S   YA+L G +YCK HF+QLFK KG+Y+
Sbjct: 1   RCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNYD 38

>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 = 54.0 bits (130), Expect = 2e-11
 Identities = 11/31 (35%), Positives = 19/31 (61%)

Query: 5  GTQQKCKVCEKTVYPVEQLSADGVVYHKSCF 35
          G    C +C + +Y +E+L  +G  +H+SCF
Sbjct: 6  GAGDLCALCGEHLYVLERLCVNGHFFHRSCF 36

>d2co8a2 g.39.1.3 (A:8-43) Nedd9 interacting protein with calponin homology, NICAL (MICAL1) {Human (Homo sapiens) [TaxId: 9606]} Length = 36

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: Nedd9 interacting protein with calponin homology, NICAL (MICAL1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.3 bits (123), Expect = 2e-10
 Identities = 11/32 (34%), Positives = 20/32 (62%)

Query: 102 SGTQEKCASCSKTVYPLEKVAVENQAYHKTCF 133
           +G  + CA C + +Y LE++ V    +H++CF
Sbjct: 5   AGAGDLCALCGEHLYVLERLCVNGHFFHRSCF 36

>d2d8ya1 g.39.1.3 (A:9-43) Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]} Length = 35

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

 Score = 52.8 bits (127), Expect = 7e-11
 Identities = 15/31 (48%), Positives = 22/31 (70%)

Query: 5  GTQQKCKVCEKTVYPVEQLSADGVVYHKSCF 35
            ++ C  C+KTVYP+E+L A+  V+H SCF
Sbjct: 5  PARETCVECQKTVYPMERLLANQQVFHISCF 35

>d2d8ya1 g.39.1.3 (A:9-43) Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]} Length = 35

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

 Score = 48.6 bits (116), Expect = 2e-09
 Identities = 13/32 (40%), Positives = 20/32 (62%)

Query: 102 SGTQEKCASCSKTVYPLEKVAVENQAYHKTCF 133
           +  +E C  C KTVYP+E++    Q +H +CF
Sbjct: 4   APARETCVECQKTVYPMERLLANQQVFHISCF 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 = 50.6 bits (121), Expect = 6e-10
 Identities = 14/41 (34%), Positives = 23/41 (56%), Gaps = 1/41 (2%)

Query: 93  SPSKAASMFSGTQEKCASCSKTVYPLEKVAVENQAYHKTCF 133
           + S+ A    G+ + C  C + VY  EKV    +++HK+CF
Sbjct: 4   NASRMAQKVGGS-DGCPRCGQAVYAAEKVIGAGKSWHKSCF 43

>d1b8ta3 g.39.1.3 (A:101-143) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]} Length = 43

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

 Score = 49.9 bits (119), Expect = 1e-09
 Identities = 12/34 (35%), Positives = 17/34 (50%)

Query: 2  SFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCF 35
            +G    C  C + VY  E++   G  +HKSCF
Sbjct: 10 QKVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCF 43

>d1zfoa_ g.39.1.4 (A:) LASP-1 {Pig (Sus scrofa) [TaxId: 9823]} Length = 30

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LASP-1
domain: LASP-1
species: Pig (Sus scrofa) [TaxId: 9823]

 Score = 36.8 bits (85), Expect = 6e-05
 Identities = 14/27 (51%), Positives = 17/27 (62%)

Query: 107 KCASCSKTVYPLEKVAVENQAYHKTCF 133
            CA C K VYP EKV   ++ +HK CF
Sbjct: 4   NCARCGKIVYPTEKVNCLDKFWHKACF 30

>d1zfoa_ g.39.1.4 (A:) LASP-1 {Pig (Sus scrofa) [TaxId: 9823]} Length = 30

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LASP-1
domain: LASP-1
species: Pig (Sus scrofa) [TaxId: 9823]

 Score = 32.9 bits (75), Expect = 0.001
 Identities = 11/28 (39%), Positives = 16/28 (57%)

Query: 8  QKCKVCEKTVYPVEQLSADGVVYHKSCF 35
            C  C K VYP E+++     +HK+CF
Sbjct: 3  PNCARCGKIVYPTEKVNCLDKFWHKACF 30

>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 = 35.7 bits (82), Expect = 1e-04
 Identities = 16/35 (45%), Positives = 22/35 (62%)

Query: 1  MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCF 35
          M   G  +KC VC+K VY  E++  +G  +HKSCF
Sbjct: 1  MPNWGGGKKCGVCQKAVYFAEEVQCEGSSFHKSCF 35

>d1b8ta1 g.39.1.3 (A:1-35) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]} Length = 35

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

 Score = 33.7 bits (77), Expect = 8e-04
 Identities = 14/31 (45%), Positives = 19/31 (61%)

Query: 103 GTQEKCASCSKTVYPLEKVAVENQAYHKTCF 133
           G  +KC  C K VY  E+V  E  ++HK+CF
Sbjct: 5   GGGKKCGVCQKAVYFAEEVQCEGSSFHKSCF 35

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

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

 Score = 34.8 bits (80), Expect = 2e-04
 Identities = 13/26 (50%), Positives = 18/26 (69%)

Query: 9  KCKVCEKTVYPVEQLSADGVVYHKSC 34
          KC  C+KTVY  E++S+ G  +HK C
Sbjct: 4  KCPKCDKTVYFAEKVSSLGKDWHKFC 29

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

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

 Score = 34.0 bits (78), Expect = 5e-04
 Identities = 13/27 (48%), Positives = 16/27 (59%)

Query: 106 EKCASCSKTVYPLEKVAVENQAYHKTC 132
            KC  C KTVY  EKV+   + +HK C
Sbjct: 3   SKCPKCDKTVYFAEKVSSLGKDWHKFC 29

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	189
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	98.73
d2d8ya2	42	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	98.49
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	98.4
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	98.39
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.39
d1g47a2	35	Pinch (particularly interesting new Cys-His) prote	98.39
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.24
d1b8ta3	43	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.21
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.19
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	98.15
d1b8ta4	49	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	98.14
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	98.12
d2co8a2	36	Nedd9 interacting protein with calponin homology,	98.05
d2co8a2	36	Nedd9 interacting protein with calponin homology,	98.04
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	97.99
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.96
d1x3ha1	35	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	97.95
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	97.92
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	97.91
d2dara2	45	PDZ and LIM domain protein 5, Enigma {Human (Homo	97.9
d1imla2	48	Cysteine-rich (intestinal) protein, CRP, CRIP {Rat	97.89
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.88
d1b8ta2	65	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.84
d2d8ya1	35	Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}	97.82
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	97.81
d2cu8a1	30	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.79
d1zfoa_	30	LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}	97.76
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	97.74
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.66
d2d8za2	32	Four and a half LIM domains protein 2, FHL2 {Human	97.64
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.61
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	97.55
d2dj7a1	31	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.53
d1x3ha2	32	Leupaxin {Human (Homo sapiens) [TaxId: 9606]}	97.52
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.51
d1x63a1	37	Four and a half LIM domains protein 1, FHL-1 {Huma	97.51
d2dloa1	35	Thyroid receptor interacting protein 6, TRIP6 {Hum	97.47
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.44
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	97.43
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	97.43
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	97.4
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.4
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.38
d2cuqa1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.35
d2dj7a2	36	Actin-binding LIM protein 3, abLIM-3 {Human (Homo	97.31
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	97.3
d1u5sb2	35	Pinch (particularly interesting new Cys-His) prote	97.27
d2dara1	32	PDZ and LIM domain protein 5, Enigma {Human (Homo	97.23
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.23
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	97.2
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	97.18
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	97.12
d2cu8a2	33	Cysteine-rich (intestinal) protein, CRP, CRIP {Hum	97.12
d1rutx1	30	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	97.06
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	97.05
d1j2oa1	30	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	97.03
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	97.02
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	97.0
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	96.99
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	96.91
d2cuqa2	35	Four and a half LIM domains 3, FHL3 {Human (Homo s	96.89
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	96.88
d1x4ka1	32	Four and a half LIM domains protein 2, FHL2 {Human	96.85
d1u5sb1	31	Pinch (particularly interesting new Cys-His) prote	96.81
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	96.81
d1wyha1	32	Four and a half LIM domains 3, FHL3 {Human (Homo s	96.8
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	96.79
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	96.79
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	96.78
d1ibia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	96.78
d1x62a2	35	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	96.68
d1ibia2	31	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	96.67
d1b8ta1	35	Cysteine-rich (intestinal) protein, CRP, CRIP {Chi	96.48
d2d8za1	26	Four and a half LIM domains protein 2, FHL2 {Human	96.46
d2d8xa2	26	Pinch (particularly interesting new Cys-His) prote	96.41
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	96.37
d2cura2	26	Four and a half LIM domains protein 1, FHL-1 {Huma	96.32
d1x4ka2	27	Four and a half LIM domains protein 2, FHL2 {Human	96.29
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	96.26
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	96.23
d1wyha2	27	Four and a half LIM domains 3, FHL3 {Human (Homo s	96.22
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	95.97
d2cura1	31	Four and a half LIM domains protein 1, FHL-1 {Huma	95.97
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	95.95
d1v6ga1	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	95.92
d1g47a1	35	Pinch (particularly interesting new Cys-His) prote	95.8
d1x4la1	29	Four and a half LIM domains protein 2, FHL2 {Human	95.78
d1x61a2	32	Thyroid receptor interacting protein 6, TRIP6 {Hum	95.73
d2dloa2	33	Thyroid receptor interacting protein 6, TRIP6 {Hum	95.71
d1a7ia2	32	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	95.62
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	95.46
d1x64a1	45	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	95.42
d1x64a2	31	PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus m	95.39
d1x6aa1	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	95.24
d1x63a2	32	Four and a half LIM domains protein 1, FHL-1 {Huma	95.2
d1wiga1	32	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	95.17
d1x68a1	29	Four and a half LIM domains protein 5, FHL-5 {Huma	94.9
d1a7ia1	28	Cysteine-rich (intestinal) protein, CRP, CRIP {Jap	94.83
d2cupa3	27	Four and a half LIM domains protein 1, FHL-1 {Huma	94.57
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	94.45
d1x62a1	31	PDZ and LIM domain protein 1 Elfin {Human (Homo sa	94.3
d1rutx2	34	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	93.7
d1wiga2	41	Actin-binding LIM protein 2, abLIM2 {Human (Homo s	93.42
d1x6aa2	34	Lim domain kinase 2 {Human (Homo sapiens) [TaxId:	93.34
d2d8xa1	32	Pinch (particularly interesting new Cys-His) prote	92.97
d2cupa2	31	Four and a half LIM domains protein 1, FHL-1 {Huma	91.46
d1x61a1	27	Thyroid receptor interacting protein 6, TRIP6 {Hum	90.02
d2cora2	35	Pinch (particularly interesting new Cys-His) prote	89.37
d2cora1	31	Pinch (particularly interesting new Cys-His) prote	85.79
d1rutx4	33	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	85.2
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	84.19
d1j2oa2	33	Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 1	80.71

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

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

Probab=98.73  E-value=3.3e-09  Score=56.18  Aligned_cols=41  Identities=46%  Similarity=0.872  Sum_probs=35.7

Q ss_pred             CCCCCCCCCCCCCEECCCCCCCCHHHHHHHHCCCCCCCCCC
Q ss_conf             01657888889980012990042868873636998977436
Q 029695          134 KCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGSYNHLI  174 (189)
Q Consensus       134 ~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~f~~k~~~~~~~  174 (189)
                      +|..|++.|..+.|...+|.+||..||.++|++|+.+|++.
T Consensus         1 rC~~C~~~Ls~~~yas~~G~lYCkpHf~qLF~~kGny~~gf   41 (42)
T d2d8ya2           1 RCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNYDEGF   41 (42)
T ss_dssp             BCTTTCCBCCTTTCCCSSSCCCCHHHHHHHSCCCSCCCSCC
T ss_pred             CCCCCCCCCCCCCCHHHCCEECCHHHHHHHHHHHCCCCCCC
T ss_conf             96768889058753633897545988999977306777778

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

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

Probab=98.49  E-value=3.4e-08  Score=51.64  Aligned_cols=41  Identities=51%  Similarity=1.179  Sum_probs=37.7

Q ss_pred             CCCCCCCCCCCCCCCCCCCEECCHHHHHHHHCCCCCCCCCC
Q ss_conf             34456565778982125993113201776525777777898
Q 029695           36 KCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKESGNFNKNF   76 (189)
Q Consensus        36 ~C~~C~~~L~~~~~~~~~g~~~C~~c~~~~~~~~~~~~~~~   76 (189)
                      +|..|+..|....|++.+|.+||++||.++|.+++++++.|
T Consensus         1 rC~~C~~~Ls~~~yas~~G~lYCkpHf~qLF~~kGny~~gf   41 (42)
T d2d8ya2           1 RCSYCNNKLSLGTYASLHGRIYCKPHFNQLFKSKGNYDEGF   41 (42)
T ss_dssp             BCTTTCCBCCTTTCCCSSSCCCCHHHHHHHSCCCSCCCSCC
T ss_pred             CCCCCCCCCCCCCCHHHCCEECCHHHHHHHHHHHCCCCCCC
T ss_conf             96768889058753633897545988999977306777778

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

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

Probab=98.40  E-value=4e-08  Score=51.36  Aligned_cols=33  Identities=30%  Similarity=0.722  Sum_probs=21.2

Q ss_pred             CCCCCCCCCCCCCCCCCCCCEECCHHHHHHHHC
Q ss_conf             434456565778982125993113201776525
Q 029695           35 FKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFK   67 (189)
Q Consensus        35 f~C~~C~~~L~~~~~~~~~g~~~C~~c~~~~~~   67 (189)
                      |+|+.|+++|.+..|++.+|++||+.||+++|+
T Consensus         1 F~C~~C~~~f~~~~F~e~~G~pYCe~~Y~~lFA   33 (35)
T d1g47a2           1 FVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFA   33 (35)
T ss_dssp             CCCTTTCCCCGGGCSEEETTEEECHHHHHHHCC
T ss_pred             CCCCCCCCCCCCCCEEEECCEECCHHHHHHHCC
T ss_conf             988879498899994778998537676886647

>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=98.39  E-value=2.8e-08  Score=52.03  Aligned_cols=27  Identities=26%  Similarity=0.732  Sum_probs=23.6

Q ss_pred             CCCCCCCCCCCCCCCEECCCCCCCCCCC
Q ss_conf             8798679653246311024732221261
Q 029695          106 EKCASCSKTVYPLEKVAVENQAYHKTCF  133 (189)
Q Consensus       106 ~~C~~C~~~i~~~~~i~~~~~~~H~~Cf  133 (189)
                      ++|..|+++|.+. .|++.++.||++||
T Consensus         9 pkC~~C~~~I~g~-~v~Al~~~wHpeCF   35 (35)
T d1x3ha1           9 PKCGGCNRPVLEN-YLSAMDTVWHPECF   35 (35)
T ss_dssp             CBCTTTCCBCCSS-CEEETTEEECTTTC
T ss_pred             HHHHHCCCCCCCH-HEEECCCCCCCCCC
T ss_conf             3124369825262-02606895383639

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

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

Probab=98.39  E-value=8.5e-08  Score=49.87  Aligned_cols=42  Identities=26%  Similarity=0.572  Sum_probs=26.0

Q ss_pred             CCCCCCCCCCCCCEECCCCCCCCHHHHHHHHCCCCC-CCCCCC
Q ss_conf             016578888899800129900428688736369989-774368
Q 029695          134 KCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGS-YNHLIK  175 (189)
Q Consensus       134 ~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~f~~k~~-~~~~~~  175 (189)
                      +|..|++.|++......|+.+||..||.++|+||+. +-+|..
T Consensus         1 KC~~C~k~Lds~t~~ehdg~~YCk~CY~k~fGPKG~g~G~gaG   43 (49)
T d1b8ta4           1 RCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKGFGFGQGAG   43 (49)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHTCCCCCCCCCCCC
T ss_pred             CHHHCCCCCCCCCCCCCCCCCCCHHHHHHCCCCCCCCCCCCCC
T ss_conf             9223087147773115699513355453321887537556734

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

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

Probab=98.39  E-value=4.2e-08  Score=51.23  Aligned_cols=34  Identities=29%  Similarity=0.606  Sum_probs=32.4

Q ss_pred             CCCCCCCCCCCCCCEECCCCCCCCHHHHHHHHCC
Q ss_conf             1016578888899800129900428688736369
Q 029695          133 FKCSHGGCSISPSNYAALEGILYCKHHFSQLFKE  166 (189)
Q Consensus       133 f~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~f~~  166 (189)
                      |+|..|++++..+.|+..+|++||+.||.++|+|
T Consensus         1 F~C~~C~~~f~~~~F~e~~G~pYCe~~Y~~lFAP   34 (35)
T d1g47a2           1 FVCAQCFQQFPEGLFYEFEGRKYCEHDFQMLFAP   34 (35)
T ss_dssp             CCCTTTCCCCGGGCSEEETTEEECHHHHHHHCCC
T ss_pred             CCCCCCCCCCCCCCEEEECCEECCHHHHHHHCCC
T ss_conf             9888794988999947789985376768866479

>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=98.24  E-value=2.1e-07  Score=48.12  Aligned_cols=31  Identities=39%  Similarity=0.920  Sum_probs=25.7

Q ss_pred             CCCCCCCCCCCCCCCCCCEECCCCCCCCCCC
Q ss_conf             9988798679653246311024732221261
Q 029695          103 GTQEKCASCSKTVYPLEKVAVENQAYHKTCF  133 (189)
Q Consensus       103 ~~~~~C~~C~~~i~~~~~i~~~~~~~H~~Cf  133 (189)
                      ++..+|..|++.++..|++.+.|+.||+.||
T Consensus        13 g~~~kC~~C~k~VY~~E~~~~~g~~~Hk~CF   43 (43)
T d1b8ta3          13 GGSDGCPRCGQAVYAAEKVIGAGKSWHKSCF   43 (43)
T ss_dssp             CCCEECTTTSCEECSSSCEEETTEEECTTTC
T ss_pred             CCCCCCCCCCCEEEHHHHHHCCCCCCCCCCC
T ss_conf             8898675679996688986628971054879

>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=98.21  E-value=2.8e-07  Score=47.52  Aligned_cols=33  Identities=36%  Similarity=0.826  Sum_probs=30.1

Q ss_pred             CCCCCCCCCCCCCEECCCCEEEECCCCCCCCCC
Q ss_conf             888877543467200036218738930134674
Q 029695            3 FIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCF   35 (189)
Q Consensus         3 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   35 (189)
                      ..++...|..|++.|+..|.+.++|+.||+.||
T Consensus        11 ~~g~~~kC~~C~k~VY~~E~~~~~g~~~Hk~CF   43 (43)
T d1b8ta3          11 KVGGSDGCPRCGQAVYAAEKVIGAGKSWHKSCF   43 (43)
T ss_dssp             CCCCCEECTTTSCEECSSSCEEETTEEECTTTC
T ss_pred             CCCCCCCCCCCCCEEEHHHHHHCCCCCCCCCCC
T ss_conf             368898675679996688986628971054879

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

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

Probab=98.19  E-value=3.8e-07  Score=46.97  Aligned_cols=36  Identities=22%  Similarity=0.544  Sum_probs=27.4

Q ss_pred             CCCCCCCCCCCCCCCCCCCEECCHHHHHHHHCCCCC
Q ss_conf             344565657789821259931132017765257777
Q 029695           36 KCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKESGN   71 (189)
Q Consensus        36 ~C~~C~~~L~~~~~~~~~g~~~C~~c~~~~~~~~~~   71 (189)
                      .|..|++.|......+.++++||+.||.++|+|++.
T Consensus         1 ~C~~C~K~LdS~~~~eh~~e~YCk~CY~k~fGPkG~   36 (65)
T d1b8ta2           1 LCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGK   36 (65)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHHSCCCC
T ss_pred             CCHHCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCC
T ss_conf             900108735777403679955354440454188720

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

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

Probab=98.15  E-value=4.2e-07  Score=46.78  Aligned_cols=36  Identities=33%  Similarity=0.632  Sum_probs=21.7

Q ss_pred             CCCCCCCCCCCCCEECCCCCCCC-HHHHHHHHCCCCC
Q ss_conf             01657888889980012990042-8688736369989
Q 029695          134 KCSHGGCSISPSNYAALEGILYC-KHHFSQLFKEKGS  169 (189)
Q Consensus       134 ~C~~C~~~l~~~~~~~~~g~~~C-~~c~~~~f~~k~~  169 (189)
                      +|..|++.|++......|+.||| ..||.++|+||+.
T Consensus         1 kC~~C~K~L~sg~~aeHdg~pYC~k~CY~~~FGPkG~   37 (48)
T d1imla2           1 KCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGF   37 (48)
T ss_dssp             BCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCCCS
T ss_pred             CCHHCCCCCCCCCHHHCCCCCCCCCCCHHHCCCCCCC
T ss_conf             9211076768887131188445266413102478865

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

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

Probab=98.14  E-value=5.2e-07  Score=46.35  Aligned_cols=36  Identities=25%  Similarity=0.689  Sum_probs=32.6

Q ss_pred             CCCCCCCCCCCCCCCCCCCEECCHHHHHHHHCCCCC
Q ss_conf             344565657789821259931132017765257777
Q 029695           36 KCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFKESGN   71 (189)
Q Consensus        36 ~C~~C~~~L~~~~~~~~~g~~~C~~c~~~~~~~~~~   71 (189)
                      +|..|++.|......++++++||+.||.++|+|++.
T Consensus         1 KC~~C~k~Lds~t~~ehdg~~YCk~CY~k~fGPKG~   36 (49)
T d1b8ta4           1 RCAKCGKSLESTTLADKDGEIYCKGCYAKNFGPKGF   36 (49)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHTCCCCC
T ss_pred             CHHHCCCCCCCCCCCCCCCCCCCHHHHHHCCCCCCC
T ss_conf             922308714777311569951335545332188753

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

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

Probab=98.12  E-value=2.8e-07  Score=47.53  Aligned_cols=27  Identities=37%  Similarity=0.792  Sum_probs=25.0

Q ss_pred             CCCCCCCCCCCCCCCEECCCCCCCCCCC
Q ss_conf             8798679653246311024732221261
Q 029695          106 EKCASCSKTVYPLEKVAVENQAYHKTCF  133 (189)
Q Consensus       106 ~~C~~C~~~i~~~~~i~~~~~~~H~~Cf  133 (189)
                      ++|..|+++|... .|++.+..||.+||
T Consensus         9 ~~C~~Ckk~It~G-GvtY~dqpWHkeCF   35 (35)
T d2cuqa2           9 PRCARCSKTLTQG-GVTYRDQPWHRECL   35 (35)
T ss_dssp             CCCTTTCCCCCSC-CEESSSSEECTTTC
T ss_pred             HHHHHCCCCCCCC-CEEECCCCCHHHHC
T ss_conf             8886617800348-65236876413109

>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=98.05  E-value=7.4e-07  Score=45.67  Aligned_cols=31  Identities=35%  Similarity=0.958  Sum_probs=23.0

Q ss_pred             CCCCCCCCCCCCCCCCCCEECCCCCCCCCCC
Q ss_conf             9988798679653246311024732221261
Q 029695          103 GTQEKCASCSKTVYPLEKVAVENQAYHKTCF  133 (189)
Q Consensus       103 ~~~~~C~~C~~~i~~~~~i~~~~~~~H~~Cf  133 (189)
                      ++..+|..|++.+++.|++.+.|+.||++||
T Consensus         6 g~~~~C~~C~K~VY~~Erl~a~g~~yHk~CF   36 (36)
T d2co8a2           6 GAGDLCALCGEHLYVLERLCVNGHFFHRSCF   36 (36)
T ss_dssp             CSSCBCSSSCCBCCTTTBCCBTTBCCBTTTC
T ss_pred             CCCCCCCCCCCEEEEEEEEEECCCEECCCCC
T ss_conf             8887351569998664488726817000509

>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=98.04  E-value=1e-06  Score=44.99  Aligned_cols=33  Identities=33%  Similarity=0.859  Sum_probs=30.9

Q ss_pred             CCCCCCCCCCCCCEECCCCEEEECCCCCCCCCC
Q ss_conf             888877543467200036218738930134674
Q 029695            3 FIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCF   35 (189)
Q Consensus         3 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   35 (189)
                      -+++..+|..|++.|++.+++.++|+.||..||
T Consensus         4 ~~g~~~~C~~C~K~VY~~Erl~a~g~~yHk~CF   36 (36)
T d2co8a2           4 EAGAGDLCALCGEHLYVLERLCVNGHFFHRSCF   36 (36)
T ss_dssp             CCCSSCBCSSSCCBCCTTTBCCBTTBCCBTTTC
T ss_pred             CCCCCCCCCCCCCEEEEEEEEEECCCEECCCCC
T ss_conf             688887351569998664488726817000509

>d2dara2 g.39.1.3 (A:8-52) PDZ and LIM domain protein 5, Enigma {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.99  E-value=1.1e-06  Score=44.88  Aligned_cols=30  Identities=17%  Similarity=0.380  Sum_probs=25.4

Q ss_pred             CCCCCCCCCCCCCCCCCCEECCCCCCCCCCC
Q ss_conf             9988798679653246311024732221261
Q 029695          103 GTQEKCASCSKTVYPLEKVAVENQAYHKTCF  133 (189)
Q Consensus       103 ~~~~~C~~C~~~i~~~~~i~~~~~~~H~~Cf  133 (189)
                      ...+.|+.|+++|.+. .|++.|+.||+++|
T Consensus        16 ~r~P~C~~C~~pI~g~-~vtAlgk~WHPEhF   45 (45)
T d2dara2          16 KRTPMCAHCNQVIRGP-FLVALGKSWHPEEF   45 (45)
T ss_dssp             TCCCBBSSSCCBCCSC-EEEETTEEECTTTC
T ss_pred             CCCEECCCCCCCCCCC-EEEECCCCCCCCCC
T ss_conf             8782620159902481-05415884286879

>d2d8ya1 g.39.1.3 (A:9-43) Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.96  E-value=1.8e-06  Score=43.98  Aligned_cols=28  Identities=46%  Similarity=1.128  Sum_probs=18.5

Q ss_pred             CCCCCCCCCCCCCCCEECCCCCCCCCCC
Q ss_conf             8798679653246311024732221261
Q 029695          106 EKCASCSKTVYPLEKVAVENQAYHKTCF  133 (189)
Q Consensus       106 ~~C~~C~~~i~~~~~i~~~~~~~H~~Cf  133 (189)
                      .+|..|++.+++.|++.+.|+.||.+||
T Consensus         8 ~kC~~C~K~VY~~E~~~a~g~~~Hk~CF   35 (35)
T d2d8ya1           8 ETCVECQKTVYPMERLLANQQVFHISCF   35 (35)
T ss_dssp             CBCTTTCCBCCTTSEEECSSSEEETTTC
T ss_pred             CCCCCCCCEEEEEEEEECCCEEHHHCCC
T ss_conf             6221379998621167638836101409

>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=97.95  E-value=1.6e-06  Score=44.19  Aligned_cols=30  Identities=37%  Similarity=0.617  Sum_probs=26.9

Q ss_pred             CCCCCCCCCCCEECCCCEEEECCCCCCCCCC
Q ss_conf             8877543467200036218738930134674
Q 029695            5 GTQQKCKVCEKTVYPVEQLSADGVVYHKSCF   35 (189)
Q Consensus         5 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   35 (189)
                      -..++|..|+++| .++.+.++++.||++||
T Consensus         6 ~fapkC~~C~~~I-~g~~v~Al~~~wHpeCF   35 (35)
T d1x3ha1           6 MFSPKCGGCNRPV-LENYLSAMDTVWHPECF   35 (35)
T ss_dssp             CCSCBCTTTCCBC-CSSCEEETTEEECTTTC
T ss_pred             HHCHHHHHCCCCC-CCHHEEECCCCCCCCCC
T ss_conf             8583124369825-26202606895383639

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

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

Probab=97.92  E-value=1.2e-06  Score=44.76  Aligned_cols=28  Identities=32%  Similarity=0.769  Sum_probs=23.4

Q ss_pred             CCCCCCCCCCCCCCC-EECCCCCCCCCCC
Q ss_conf             879867965324631-1024732221261
Q 029695          106 EKCASCSKTVYPLEK-VAVENQAYHKTCF  133 (189)
Q Consensus       106 ~~C~~C~~~i~~~~~-i~~~~~~~H~~Cf  133 (189)
                      ++|..|+++|.+..+ +.+.++.||.+||
T Consensus         9 ~~C~~C~k~I~~G~k~veykg~~WHe~CF   37 (37)
T d1x63a1           9 PKCKGCFKAIVAGDQNVEYKGTVWHKDCF   37 (37)
T ss_dssp             CBCSSSCCBCCSSSCEEECSSCEEETTTC
T ss_pred             CCCCCCCCCCCCCCEEEEECCCCCHHCCC
T ss_conf             34213798127898576717863100009

>d1zfoa_ g.39.1.4 (A:) LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LASP-1
domain: LASP-1
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=97.91  E-value=2.1e-06  Score=43.66  Aligned_cols=28  Identities=50%  Similarity=1.033  Sum_probs=20.6

Q ss_pred             CCCCCCCCCCCCCCCEECCCCCCCCCCC
Q ss_conf             8798679653246311024732221261
Q 029695          106 EKCASCSKTVYPLEKVAVENQAYHKTCF  133 (189)
Q Consensus       106 ~~C~~C~~~i~~~~~i~~~~~~~H~~Cf  133 (189)
                      +.|++|++.+++.|.+...++.||+.||
T Consensus         3 ~~CaRC~k~VYp~Ekl~ClDk~WHK~CF   30 (30)
T d1zfoa_           3 PNCARCGKIVYPTEKVNCLDKFWHKACF   30 (30)
T ss_dssp             CBCSSSCSBCCGGGCCCSSSSCCCGGGC
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHCCC
T ss_conf             7432347720337886136887753149

>d2dara2 g.39.1.3 (A:8-52) PDZ and LIM domain protein 5, Enigma {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.90  E-value=2.7e-06  Score=43.16  Aligned_cols=32  Identities=22%  Similarity=0.294  Sum_probs=27.9

Q ss_pred             CCCCCCCCCCCCCEECCCCEEEECCCCCCCCCC
Q ss_conf             888877543467200036218738930134674
Q 029695            3 FIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCF   35 (189)
Q Consensus         3 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   35 (189)
                      -....+.|..|+++| .+..+.++|+.||+++|
T Consensus        14 ~~~r~P~C~~C~~pI-~g~~vtAlgk~WHPEhF   45 (45)
T d2dara2          14 AGKRTPMCAHCNQVI-RGPFLVALGKSWHPEEF   45 (45)
T ss_dssp             TTTCCCBBSSSCCBC-CSCEEEETTEEECTTTC
T ss_pred             CCCCCEECCCCCCCC-CCCEEEECCCCCCCCCC
T ss_conf             788782620159902-48105415884286879

>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=97.89  E-value=2.7e-06  Score=43.15  Aligned_cols=36  Identities=33%  Similarity=0.715  Sum_probs=32.4

Q ss_pred             CCCCCCCCCCCCCCCCCCCEECC-HHHHHHHHCCCCC
Q ss_conf             34456565778982125993113-2017765257777
Q 029695           36 KCSHCKGTLKLSNYSSMEGVLYC-KPHFEQLFKESGN   71 (189)
Q Consensus        36 ~C~~C~~~L~~~~~~~~~g~~~C-~~c~~~~~~~~~~   71 (189)
                      +|..|++.|..+...+.+++||| +.||.++|+|++.
T Consensus         1 kC~~C~K~L~sg~~aeHdg~pYC~k~CY~~~FGPkG~   37 (48)
T d1imla2           1 KCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGF   37 (48)
T ss_dssp             BCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCCCS
T ss_pred             CCHHCCCCCCCCCHHHCCCCCCCCCCCHHHCCCCCCC
T ss_conf             9211076768887131188445266413102478865

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

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

Probab=97.88  E-value=2.4e-06  Score=43.37  Aligned_cols=28  Identities=46%  Similarity=0.859  Sum_probs=14.0

Q ss_pred             CCCCCCCCEECCCCEEEECCCCCCCCCC
Q ss_conf             7543467200036218738930134674
Q 029695            8 QKCKVCEKTVYPVEQLSADGVVYHKSCF   35 (189)
Q Consensus         8 ~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   35 (189)
                      +.|++|++.|+..+.+...|+.||..|+
T Consensus         3 ~~CprC~K~VYfaEk~~~lgk~WHk~Cl   30 (30)
T d2cu8a1           3 SKCPKCDKTVYFAEKVSSLGKDWHKFCL   30 (30)
T ss_dssp             CBCTTTCCBCCTTTEEEETTEEEETTTC
T ss_pred             CCCCCCCCCEEEHHHHCCCCCCCCCCCC
T ss_conf             7577888815437763057854242629

>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=97.84  E-value=4e-06  Score=42.40  Aligned_cols=47  Identities=17%  Similarity=0.271  Sum_probs=39.0

Q ss_pred             CCCCCCCCCCCCCEECCCCCCCCHHHHHHHHCCCCC-CCCCCCCHHHH
Q ss_conf             016578888899800129900428688736369989-77436805788
Q 029695          134 KCSHGGCSISPSNYAALEGILYCKHHFSQLFKEKGS-YNHLIKSASMK  180 (189)
Q Consensus       134 ~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~f~~k~~-~~~~~~~~~~~  180 (189)
                      .|..|++.|++......++.+||..||.++|+||+. +-.|...+++-
T Consensus         1 ~C~~C~K~LdS~~~~eh~~e~YCk~CY~k~fGPkG~G~G~gag~l~~d   48 (65)
T d1b8ta2           1 LCMVCKKNLDSTTVAVHGDEIYCKSCYGKKYGPKGKGKGMGAGTLSTD   48 (65)
T ss_dssp             BCTTTCCBCCSSSEEEETTEEEEHHHHHHHHSCCCCCCCCCCCCCCCC
T ss_pred             CCHHCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCEEEEC
T ss_conf             900108735777403679955354440454188720556665234615

>d2d8ya1 g.39.1.3 (A:9-43) Eplin, LIMA1 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.82  E-value=4e-06  Score=42.38  Aligned_cols=32  Identities=47%  Similarity=0.946  Sum_probs=29.6

Q ss_pred             CCCCCCCCCCCCEECCCCEEEECCCCCCCCCC
Q ss_conf             88877543467200036218738930134674
Q 029695            4 IGTQQKCKVCEKTVYPVEQLSADGVVYHKSCF   35 (189)
Q Consensus         4 ~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   35 (189)
                      .+....|..|++.|+..+.+.++|+.||..||
T Consensus         4 ~p~~~kC~~C~K~VY~~E~~~a~g~~~Hk~CF   35 (35)
T d2d8ya1           4 APARETCVECQKTVYPMERLLANQQVFHISCF   35 (35)
T ss_dssp             SSSSCBCTTTCCBCCTTSEEECSSSEEETTTC
T ss_pred             CCCCCCCCCCCCEEEEEEEEECCCEEHHHCCC
T ss_conf             98876221379998621167638836101409

>d2d8za2 g.39.1.3 (A:33-64) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.81  E-value=4.4e-06  Score=42.18  Aligned_cols=31  Identities=23%  Similarity=0.568  Sum_probs=19.3

Q ss_pred             CCCCCCCCCCCCEECCCCCCCCHHHHHHHHC
Q ss_conf             1657888889980012990042868873636
Q 029695          135 CSHGGCSISPSNYAALEGILYCKHHFSQLFK  165 (189)
Q Consensus       135 C~~C~~~l~~~~~~~~~g~~~C~~c~~~~f~  165 (189)
                      |..|+++|.+..|+++|++|||..||..+|+
T Consensus         2 C~~C~~~L~GQry~~rd~~PyC~~Cf~~lfA   32 (32)
T d2d8za2           2 CTACRKQLSGQRFTARDDFAYCLNCFCDLYA   32 (32)
T ss_dssp             CSSSCCBCTTSCCEESSSSEECHHHHHHHTC
T ss_pred             CCCCCCCCCCCEEEECCCCEEHHHHHHHHCC
T ss_conf             6557863567655604898540776575429

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

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

Probab=97.79  E-value=4e-06  Score=42.37  Aligned_cols=29  Identities=45%  Similarity=0.835  Sum_probs=26.9

Q ss_pred             CCCCCCCCCCCCCCCCEECCCCCCCCCCC
Q ss_conf             88798679653246311024732221261
Q 029695          105 QEKCASCSKTVYPLEKVAVENQAYHKTCF  133 (189)
Q Consensus       105 ~~~C~~C~~~i~~~~~i~~~~~~~H~~Cf  133 (189)
                      .+.|.+|++.++..|.+...|+.||+.|+
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
T ss_conf             87577888815437763057854242629

>d1zfoa_ g.39.1.4 (A:) LASP-1 {Pig (Sus scrofa) [TaxId: 9823]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LASP-1
domain: LASP-1
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=97.76  E-value=3.2e-06  Score=42.79  Aligned_cols=28  Identities=39%  Similarity=0.922  Sum_probs=26.7

Q ss_pred             CCCCCCCCEECCCCEEEECCCCCCCCCC
Q ss_conf             7543467200036218738930134674
Q 029695            8 QKCKVCEKTVYPVEQLSADGVVYHKSCF   35 (189)
Q Consensus         8 ~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   35 (189)
                      +.|++|++.+++.+.+...++.||..||
T Consensus         3 ~~CaRC~k~VYp~Ekl~ClDk~WHK~CF   30 (30)
T d1zfoa_           3 PNCARCGKIVYPTEKVNCLDKFWHKACF   30 (30)
T ss_dssp             CBCSSSCSBCCGGGCCCSSSSCCCGGGC
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHCCC
T ss_conf             7432347720337886136887753149

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

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

Probab=97.74  E-value=6.6e-06  Score=41.39  Aligned_cols=31  Identities=16%  Similarity=0.585  Sum_probs=20.6

Q ss_pred             CCCCCCCCCCCCCCCCCCCEECCHHHHHHHH
Q ss_conf             3445656577898212599311320177652
Q 029695           36 KCSHCKGTLKLSNYSSMEGVLYCKPHFEQLF   66 (189)
Q Consensus        36 ~C~~C~~~L~~~~~~~~~g~~~C~~c~~~~~   66 (189)
                      .|..|..++....|++.+|+|||+.+|+++.
T Consensus         1 VC~~C~~PF~~~~Fy~~~g~PyCe~HyH~~~   31 (32)
T d1x3ha2           1 VCGDCFTSFSTGSFFELDGRPFCELHYHHRR   31 (32)
T ss_dssp             BCSSSCCBSCSSCCEESSSCEECHHHHHHHH
T ss_pred             CCCCCCCCCCCCCEEEECCCCCHHHHHHHHC
T ss_conf             9573579589997676899223677636445

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

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

Probab=97.66  E-value=1.1e-05  Score=40.35  Aligned_cols=32  Identities=19%  Similarity=0.476  Sum_probs=21.8

Q ss_pred             CCCCCCCCCCCCCEECCCCCCCCHHHHHHHHC
Q ss_conf             01657888889980012990042868873636
Q 029695          134 KCSHGGCSISPSNYAALEGILYCKHHFSQLFK  165 (189)
Q Consensus       134 ~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~f~  165 (189)
                      .|..|+++|.+..|..+|..+||.+||..+|+
T Consensus         1 vCt~Ck~~LaGqrFTSrde~pYC~~Cfg~LfA   32 (32)
T d2cuqa1           1 VCTGCQTPLAGQQFTSRDEDPYCVACFGELFA   32 (32)
T ss_dssp             BCSSSCCBCTTCCEEECSSSEEEHHHHHHHTT
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCC
T ss_conf             96666763567745357997329997675509

>d2d8za2 g.39.1.3 (A:33-64) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.64  E-value=1e-05  Score=40.51  Aligned_cols=32  Identities=22%  Similarity=0.626  Sum_probs=29.2

Q ss_pred             CCCCCCCCCCCCCCCCCCCEECCHHHHHHHHC
Q ss_conf             34456565778982125993113201776525
Q 029695           36 KCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFK   67 (189)
Q Consensus        36 ~C~~C~~~L~~~~~~~~~g~~~C~~c~~~~~~   67 (189)
                      .|..|..+|.++.|..+++.|||..||.++|+
T Consensus         1 ~C~~C~~~L~GQry~~rd~~PyC~~Cf~~lfA   32 (32)
T d2d8za2           1 VCTACRKQLSGQRFTARDDFAYCLNCFCDLYA   32 (32)
T ss_dssp             BCSSSCCBCTTSCCEESSSSEECHHHHHHHTC
T ss_pred             CCCCCCCCCCCCEEEECCCCEEHHHHHHHHCC
T ss_conf             96557863567655604898540776575429

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

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

Probab=97.61  E-value=1.1e-05  Score=40.46  Aligned_cols=29  Identities=34%  Similarity=0.792  Sum_probs=13.4

Q ss_pred             CCCCCCCCCCCCCCCCCCEECCHHHHHHHH
Q ss_conf             445656577898212599311320177652
Q 029695           37 CSHCKGTLKLSNYSSMEGVLYCKPHFEQLF   66 (189)
Q Consensus        37 C~~C~~~L~~~~~~~~~g~~~C~~c~~~~~   66 (189)
                      |..|+..|.. .|..++|.|||+.+|+..|
T Consensus         2 C~~C~~vL~g-EYm~kdG~PyCe~DY~~~F   30 (31)
T d2dj7a1           2 CQTCSVILTG-EYISKDGVPYCESDYHAQF   30 (31)
T ss_dssp             CSSSCCBCSS-CCEEETTEEECTTHHHHHT
T ss_pred             CCCCCCCCCC-EEECCCCCCCCHHHHHHHC
T ss_conf             3020746110-1316799723088878752

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

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

Probab=97.55  E-value=1.5e-05  Score=39.77  Aligned_cols=28  Identities=18%  Similarity=0.433  Sum_probs=21.2

Q ss_pred             CCCCCCCCCCCCCCCCEECCCCCCCCCC
Q ss_conf             8879867965324631102473222126
Q 029695          105 QEKCASCSKTVYPLEKVAVENQAYHKTC  132 (189)
Q Consensus       105 ~~~C~~C~~~i~~~~~i~~~~~~~H~~C  132 (189)
                      ...|++|+++|.++..+.+.++.||.+|
T Consensus         3 ~~~CaGC~~~I~DRflL~a~Dr~WH~~C   30 (30)
T d1j2oa1           3 LLTCGGCQQNIGDRYFLKAIDQYWHEDC   30 (30)
T ss_dssp             CBCBSSSCSCBCSSEEEECSSSEECTTT
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHCCC
T ss_conf             7502788982148999998887770389

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

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

Probab=97.53  E-value=1.9e-05  Score=39.33  Aligned_cols=31  Identities=23%  Similarity=0.644  Sum_probs=27.9

Q ss_pred             CCCCCCCCCCCCCEECCCCCCCCHHHHHHHHC
Q ss_conf             01657888889980012990042868873636
Q 029695          134 KCSHGGCSISPSNYAALEGILYCKHHFSQLFK  165 (189)
Q Consensus       134 ~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~f~  165 (189)
                      +|..|++.|... |...||.|||+.+|..+||
T Consensus         1 kC~~C~~vL~gE-Ym~kdG~PyCe~DY~~~FG   31 (31)
T d2dj7a1           1 KCQTCSVILTGE-YISKDGVPYCESDYHAQFG   31 (31)
T ss_dssp             BCSSSCCBCSSC-CEEETTEEECTTHHHHHTT
T ss_pred             CCCCCCCCCCCE-EECCCCCCCCHHHHHHHCC
T ss_conf             930207461101-3167997230888787529

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

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

Probab=97.52  E-value=2.3e-05  Score=38.99  Aligned_cols=32  Identities=22%  Similarity=0.445  Sum_probs=28.6

Q ss_pred             CCCCCCCCCCCCCEECCCCCCCCHHHHHHHHC
Q ss_conf             01657888889980012990042868873636
Q 029695          134 KCSHGGCSISPSNYAALEGILYCKHHFSQLFK  165 (189)
Q Consensus       134 ~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~f~  165 (189)
                      +|..|.++..++.|+..+|+|||+.||.++.|
T Consensus         1 VC~~C~~PF~~~~Fy~~~g~PyCe~HyH~~~G   32 (32)
T d1x3ha2           1 VCGDCFTSFSTGSFFELDGRPFCELHYHHRRG   32 (32)
T ss_dssp             BCSSSCCBSCSSCCEESSSCEECHHHHHHHHS
T ss_pred             CCCCCCCCCCCCCEEEECCCCCHHHHHHHHCC
T ss_conf             95735795899976768992236776364459

>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=97.51  E-value=2e-05  Score=39.24  Aligned_cols=28  Identities=39%  Similarity=0.812  Sum_probs=20.2

Q ss_pred             CCCCCCCCCCCCCCCCEECCCCCCCCCCC
Q ss_conf             88798679653246311024732221261
Q 029695          105 QEKCASCSKTVYPLEKVAVENQAYHKTCF  133 (189)
Q Consensus       105 ~~~C~~C~~~i~~~~~i~~~~~~~H~~Cf  133 (189)
                      ..+|..|+.+|.+. .+.+.|+.||+.||
T Consensus         8 lEkC~~C~~~I~dr-iLrA~Gk~yHP~CF   35 (35)
T d2dloa1           8 LEKCATCSQPILDR-ILRAMGKAYHPGCF   35 (35)
T ss_dssp             CCBCTTTCCBCCSC-CEEETTEEECTTTC
T ss_pred             HHHHHHHCHHHHHH-HHHHHCCCCCCCCC
T ss_conf             99999836599999-99994788898879

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

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

Probab=97.51  E-value=1.8e-05  Score=39.43  Aligned_cols=31  Identities=39%  Similarity=0.776  Sum_probs=27.0

Q ss_pred             CCCCCCCCCCCEECCCCE-EEECCCCCCCCCC
Q ss_conf             887754346720003621-8738930134674
Q 029695            5 GTQQKCKVCEKTVYPVEQ-LSADGVVYHKSCF   35 (189)
Q Consensus         5 ~~~~~C~~C~~~I~~~~~-~~~~~~~~H~~Cf   35 (189)
                      ...++|..|+++|.++.+ |...++.||..||
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
T ss_conf             42734213798127898576717863100009

>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=97.47  E-value=3e-05  Score=38.47  Aligned_cols=32  Identities=34%  Similarity=0.811  Sum_probs=28.0

Q ss_pred             CCCCCCCCCCCCCEECCCCEEEECCCCCCCCCC
Q ss_conf             888877543467200036218738930134674
Q 029695            3 FIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCF   35 (189)
Q Consensus         3 ~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   35 (189)
                      |.....+|..|++.|. ...+.+.|+.||+.||
T Consensus         4 y~~tlEkC~~C~~~I~-driLrA~Gk~yHP~CF   35 (35)
T d2dloa1           4 YVATLEKCATCSQPIL-DRILRAMGKAYHPGCF   35 (35)
T ss_dssp             CCSSCCBCTTTCCBCC-SCCEEETTEEECTTTC
T ss_pred             HHHHHHHHHHHCHHHH-HHHHHHHCCCCCCCCC
T ss_conf             8989999998365999-9999994788898879

>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=97.44  E-value=3.3e-05  Score=38.26  Aligned_cols=30  Identities=20%  Similarity=0.596  Sum_probs=21.5

Q ss_pred             CCCCCCCCCCCCCCCCCEECCCCCCCCCCC
Q ss_conf             988798679653246311024732221261
Q 029695          104 TQEKCASCSKTVYPLEKVAVENQAYHKTCF  133 (189)
Q Consensus       104 ~~~~C~~C~~~i~~~~~i~~~~~~~H~~Cf  133 (189)
                      +...|++|+..|.....+.+.++.||..||
T Consensus         7 g~~~CagCg~eik~gQaL~ALdkqWH~~CF   36 (36)
T d2dj7a2           7 GPSHCAGCKEEIKHGQSLLALDKQWHVSCF   36 (36)
T ss_dssp             SCSCCTTTCCCCSSSCCEEETTEEECTTTC
T ss_pred             CCCCCCCCCHHHHCCCEEEEEECCEEEEEC
T ss_conf             873334214456477034433022233009

>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=97.43  E-value=3.3e-05  Score=38.24  Aligned_cols=35  Identities=46%  Similarity=0.927  Sum_probs=27.6

Q ss_pred             CCCCCCCCCCCCCCCEECCCCEEEECCCCCCCCCC
Q ss_conf             99888877543467200036218738930134674
Q 029695            1 MSFIGTQQKCKVCEKTVYPVEQLSADGVVYHKSCF   35 (189)
Q Consensus         1 ~~~~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   35 (189)
                      |+--++...|..|.+.++.++-+...|++||..||
T Consensus         1 mpn~ggg~kcg~c~ktvy~aeevqc~g~sfhk~cf   35 (35)
T d1b8ta1           1 MPNWGGGKKCGVCQKAVYFAEEVQCEGSSFHKSCF   35 (35)
T ss_dssp             CCCCCCCEECTTTCCEECSSCCEEETTEEECTTTC
T ss_pred             CCCCCCCCEECCCCCEEEEEEEEEECCCCCCCCCC
T ss_conf             98567876205444347660325416830021349

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

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

Probab=97.43  E-value=2.4e-05  Score=38.88  Aligned_cols=26  Identities=31%  Similarity=0.705  Sum_probs=23.0

Q ss_pred             CCCCCCCCCCCCCCCEECCCCCCCCCC
Q ss_conf             879867965324631102473222126
Q 029695          106 EKCASCSKTVYPLEKVAVENQAYHKTC  132 (189)
Q Consensus       106 ~~C~~C~~~i~~~~~i~~~~~~~H~~C  132 (189)
                      .+|..|++.|.+ +.+.+.++.||++|
T Consensus        16 ~~C~~C~~~ItG-~V~~Ag~~~yHP~C   41 (41)
T d1v6ga1          16 TRCFSCDQFIEG-EVVSALGKTYHPDC   41 (41)
T ss_dssp             CBCTTTCCBCCS-CCEEETTEEECTTT
T ss_pred             CCCCCCCCEEEE-EEEEECCCCCCCCC
T ss_conf             601242587123-22671473468999

>d2dara1 g.39.1.3 (A:53-84) PDZ and LIM domain protein 5, Enigma {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.40  E-value=3.8e-05  Score=38.00  Aligned_cols=31  Identities=23%  Similarity=0.650  Sum_probs=16.8

Q ss_pred             CCCCCCCCCCCCEECCCCCCCCHHHHHHHHC
Q ss_conf             1657888889980012990042868873636
Q 029695          135 CSHGGCSISPSNYAALEGILYCKHHFSQLFK  165 (189)
Q Consensus       135 C~~C~~~l~~~~~~~~~g~~~C~~c~~~~f~  165 (189)
                      |..|+.+|...+|+...|.+||+.||.+.|+
T Consensus         2 Ca~C~~sL~d~gFVEE~g~lYCe~Cye~ffA   32 (32)
T d2dara1           2 CAHCKNTMAYIGFVEEKGALYCELCYEKFFA   32 (32)
T ss_dssp             CSSSCCBCSSSCBEESSSCEECHHHHHHHTS
T ss_pred             CCCCCCCHHHCCEEEECCCEEHHHHHHHHCC
T ss_conf             4300465766151644685848998998629

>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=97.40  E-value=2.7e-05  Score=38.64  Aligned_cols=28  Identities=18%  Similarity=0.507  Sum_probs=19.6

Q ss_pred             CCCCCCCCCCCCCCCEECCCCCCCCCCC
Q ss_conf             8798679653246311024732221261
Q 029695          106 EKCASCSKTVYPLEKVAVENQAYHKTCF  133 (189)
Q Consensus       106 ~~C~~C~~~i~~~~~i~~~~~~~H~~Cf  133 (189)
                      ..|++|+++|.++..+.+.++.||.+|.
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
T ss_conf             6337998963223200015110534109

>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=97.38  E-value=2.6e-05  Score=38.70  Aligned_cols=30  Identities=30%  Similarity=0.848  Sum_probs=24.5

Q ss_pred             CCCCCCCCCCCCCCCCCCCCEECCHHHHHH
Q ss_conf             434456565778982125993113201776
Q 029695           35 FKCSHCKGTLKLSNYSSMEGVLYCKPHFEQ   64 (189)
Q Consensus        35 f~C~~C~~~L~~~~~~~~~g~~~C~~c~~~   64 (189)
                      |+|+.|++.|.......++|.+||+.||.+
T Consensus         1 frca~cgk~lestt~adkdgeiyck~cyak   30 (31)
T d1ibia2           1 FRCAKCGKSLESTTLTEKEGEIYCKGCYAK   30 (31)
T ss_dssp             EECSSSCCEECSSCSEEETTEEECHHHHHH
T ss_pred             CCCCCCCCCCCCCEEECCCCCEEEEEEEEC
T ss_conf             940201686542065536873897564615

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

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

Probab=97.35  E-value=4e-05  Score=37.88  Aligned_cols=32  Identities=28%  Similarity=0.635  Sum_probs=29.3

Q ss_pred             CCCCCCCCCCCCCCCCCCCEECCHHHHHHHHC
Q ss_conf             34456565778982125993113201776525
Q 029695           36 KCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFK   67 (189)
Q Consensus        36 ~C~~C~~~L~~~~~~~~~g~~~C~~c~~~~~~   67 (189)
                      .|..|+.+|.++.|.+++..|||..||-++|+
T Consensus         1 vCt~Ck~~LaGqrFTSrde~pYC~~Cfg~LfA   32 (32)
T d2cuqa1           1 VCTGCQTPLAGQQFTSRDEDPYCVACFGELFA   32 (32)
T ss_dssp             BCSSSCCBCTTCCEEECSSSEEEHHHHHHHTT
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCC
T ss_conf             96666763567745357997329997675509

>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=97.31  E-value=5.5e-05  Score=37.27  Aligned_cols=32  Identities=28%  Similarity=0.510  Sum_probs=29.0

Q ss_pred             CCCCCCCCCCCCEECCCCEEEECCCCCCCCCC
Q ss_conf             88877543467200036218738930134674
Q 029695            4 IGTQQKCKVCEKTVYPVEQLSADGVVYHKSCF   35 (189)
Q Consensus         4 ~~~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   35 (189)
                      ..++..|..|+..|..+..+.++++.||..||
T Consensus         5 ~~g~~~CagCg~eik~gQaL~ALdkqWH~~CF   36 (36)
T d2dj7a2           5 IRGPSHCAGCKEEIKHGQSLLALDKQWHVSCF   36 (36)
T ss_dssp             CSSCSCCTTTCCCCSSSCCEEETTEEECTTTC
T ss_pred             CCCCCCCCCCCHHHHCCCEEEEEECCEEEEEC
T ss_conf             54873334214456477034433022233009

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

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

Probab=97.30  E-value=5.9e-05  Score=37.12  Aligned_cols=33  Identities=30%  Similarity=0.745  Sum_probs=20.0

Q ss_pred             CCCCCCCCCCCCCCCCCCCCEECCHHHHHHHHC
Q ss_conf             434456565778982125993113201776525
Q 029695           35 FKCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFK   67 (189)
Q Consensus        35 f~C~~C~~~L~~~~~~~~~g~~~C~~c~~~~~~   67 (189)
                      |.|+.|.+++-+...+++.|..||+.+|+++|+
T Consensus         1 FvCA~CekPF~G~rhyE~~g~ayCe~Hy~qLfg   33 (35)
T d1u5sb2           1 FVCAKCEKPFLGHRHYERKGLAYCETHYNQLFG   33 (35)
T ss_dssp             CBCTTTCCBCSSSCCEEETTEEECHHHHHHHCS
T ss_pred             CCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHC
T ss_conf             934434885678432651672389999999842

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

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

Probab=97.27  E-value=6.1e-05  Score=37.06  Aligned_cols=34  Identities=26%  Similarity=0.598  Sum_probs=30.6

Q ss_pred             CCCCCCCCCCCCCCEECCCCCCCCHHHHHHHHCC
Q ss_conf             1016578888899800129900428688736369
Q 029695          133 FKCSHGGCSISPSNYAALEGILYCKHHFSQLFKE  166 (189)
Q Consensus       133 f~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~f~~  166 (189)
                      |+|..|.++.-+...+...|..||+.||.++|+.
T Consensus         1 FvCA~CekPF~G~rhyE~~g~ayCe~Hy~qLfg~   34 (35)
T d1u5sb2           1 FVCAKCEKPFLGHRHYERKGLAYCETHYNQLFGD   34 (35)
T ss_dssp             CBCTTTCCBCSSSCCEEETTEEECHHHHHHHCSC
T ss_pred             CCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHCC
T ss_conf             9344348856784326516723899999998426

>d2dara1 g.39.1.3 (A:53-84) PDZ and LIM domain protein 5, Enigma {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.23  E-value=7.3e-05  Score=36.72  Aligned_cols=32  Identities=34%  Similarity=0.915  Sum_probs=28.7

Q ss_pred             CCCCCCCCCCCCCCCCCCCEECCHHHHHHHHC
Q ss_conf             34456565778982125993113201776525
Q 029695           36 KCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFK   67 (189)
Q Consensus        36 ~C~~C~~~L~~~~~~~~~g~~~C~~c~~~~~~   67 (189)
                      .|+.|+.+|.+..|.+.+|.+||+.||++.|+
T Consensus         1 nCa~C~~sL~d~gFVEE~g~lYCe~Cye~ffA   32 (32)
T d2dara1           1 NCAHCKNTMAYIGFVEEKGALYCELCYEKFFA   32 (32)
T ss_dssp             BCSSSCCBCSSSCBEESSSCEECHHHHHHHTS
T ss_pred             CCCCCCCCHHHCCEEEECCCEEHHHHHHHHCC
T ss_conf             94300465766151644685848998998629

>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=97.23  E-value=7.5e-05  Score=36.66  Aligned_cols=31  Identities=35%  Similarity=0.821  Sum_probs=16.3

Q ss_pred             CCCCCCCCCCCCCCCCCCCEECC-HHHHHHHH
Q ss_conf             34456565778982125993113-20177652
Q 029695           36 KCSHCKGTLKLSNYSSMEGVLYC-KPHFEQLF   66 (189)
Q Consensus        36 ~C~~C~~~L~~~~~~~~~g~~~C-~~c~~~~~   66 (189)
                      +|..|++.|..+..++.+|+||| .+||..+|
T Consensus         1 kCekC~ktL~~G~HaEH~gkPYC~~PCY~aLF   32 (33)
T d2cu8a2           1 KCERCSKTLTPGGHAEHDGKPFCHKPCYATLF   32 (33)
T ss_dssp             BCSSSCCBCCTTSCEEETTEEECTTTHHHHHS
T ss_pred             CCHHCCCCCCCCCCCCCCCCCCCCCCHHHHHC
T ss_conf             93200352589872123797675760278652

>d1ibia1 g.39.1.3 (A:117-144) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

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

Probab=97.20  E-value=5.7e-05  Score=37.20  Aligned_cols=27  Identities=37%  Similarity=0.899  Sum_probs=17.3

Q ss_pred             CCCCCCCCEECCCCEEEECCCCCCCCC
Q ss_conf             754346720003621873893013467
Q 029695            8 QKCKVCEKTVYPVEQLSADGVVYHKSC   34 (189)
Q Consensus         8 ~~C~~C~~~I~~~~~~~~~~~~~H~~C   34 (189)
                      ..|++|++.++..+++...|+.||..|
T Consensus         2 d~CpRC~~~VyaAEkviGaG~~WHk~C   28 (28)
T d1ibia1           2 EKCSRCGDSVYAAEKVIGAGKPWHKNC   28 (28)
T ss_dssp             EECTTTSSEESSSSCEESSSSEECSSC
T ss_pred             CCCCCCCHHHHHHHHHHCCCCCCCCCC
T ss_conf             747544025778998862897444478

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

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

Probab=97.12  E-value=0.00012  Score=35.77  Aligned_cols=31  Identities=10%  Similarity=0.327  Sum_probs=18.3

Q ss_pred             CCCCCCCCCCCCEECCCCCCCCHHHHHHHHC
Q ss_conf             1657888889980012990042868873636
Q 029695          135 CSHGGCSISPSNYAALEGILYCKHHFSQLFK  165 (189)
Q Consensus       135 C~~C~~~l~~~~~~~~~g~~~C~~c~~~~f~  165 (189)
                      |..|+.+++...|+.+++..||..||.+.|+
T Consensus         2 C~~C~qPIGtksfipk~~~~yCvpCyE~kfA   32 (32)
T d1x4ka1           2 CHRCQQPIGTKSFIPKDNQNFCVPCYEKQHA   32 (32)
T ss_dssp             CSSSCCCCCSSSEEEETTEEEEHHHHHHHTS
T ss_pred             CCCCCCCCCCCCCCCCCCCCEEEECCHHHCC
T ss_conf             5524584456553307887067421043259

>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=97.12  E-value=9.3e-05  Score=36.24  Aligned_cols=32  Identities=25%  Similarity=0.619  Sum_probs=28.8

Q ss_pred             CCCCCCCCCCCCCEECCCCCCCCH-HHHHHHHC
Q ss_conf             016578888899800129900428-68873636
Q 029695          134 KCSHGGCSISPSNYAALEGILYCK-HHFSQLFK  165 (189)
Q Consensus       134 ~C~~C~~~l~~~~~~~~~g~~~C~-~c~~~~f~  165 (189)
                      +|+.|++.|..+.....+|.+||. .||..+||
T Consensus         1 kCekC~ktL~~G~HaEH~gkPYC~~PCY~aLFG   33 (33)
T d2cu8a2           1 KCERCSKTLTPGGHAEHDGKPFCHKPCYATLFG   33 (33)
T ss_dssp             BCSSSCCBCCTTSCEEETTEEECTTTHHHHHSC
T ss_pred             CCHHCCCCCCCCCCCCCCCCCCCCCCHHHHHCC
T ss_conf             932003525898721237976757602786529

>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=97.06  E-value=0.00011  Score=35.88  Aligned_cols=29  Identities=21%  Similarity=0.400  Sum_probs=25.2

Q ss_pred             CCCCCCCCCEECCCCEEEECCCCCCCCCC
Q ss_conf             77543467200036218738930134674
Q 029695            7 QQKCKVCEKTVYPVEQLSADGVVYHKSCF   35 (189)
Q Consensus         7 ~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   35 (189)
                      ...|++|++.|.+..++.+.++.||..|+
T Consensus         2 ~~~CaGC~~~I~DRflL~v~dr~WH~~CL   30 (30)
T d1rutx1           2 WKRCAGCGGKIADRFLLYAMDSYWHSRCL   30 (30)
T ss_dssp             CCBBTTTCCBCCCSEEEEETTEEECGGGC
T ss_pred             CCCCCCCCCCCCHHHHHCCCHHHHHHHHC
T ss_conf             56337998963223200015110534109

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

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

Probab=97.05  E-value=0.00014  Score=35.44  Aligned_cols=31  Identities=19%  Similarity=0.475  Sum_probs=17.8

Q ss_pred             CCCCCCCCCCCCEECCCCCCCCHHHHHHHHC
Q ss_conf             1657888889980012990042868873636
Q 029695          135 CSHGGCSISPSNYAALEGILYCKHHFSQLFK  165 (189)
Q Consensus       135 C~~C~~~l~~~~~~~~~g~~~C~~c~~~~f~  165 (189)
                      |..|+.+++...|+..++..||..||.+.|+
T Consensus         2 C~~C~qPIGtkSFip~~~~~yCvpCYE~kfA   32 (32)
T d1wyha1           2 CSGCEQPLGSRSFVPDKGAHYCVPCYENKFA   32 (32)
T ss_dssp             CTTTCCBTTTSCEEEETTEEEEHHHHHHHTS
T ss_pred             CCCCCCCCCCCCCCCCCCCEEEEECCCCCCC
T ss_conf             6544584355220317896788763010159

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

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

Probab=97.03  E-value=0.00015  Score=35.37  Aligned_cols=30  Identities=23%  Similarity=0.467  Sum_probs=25.5

Q ss_pred             CCCCCCCCCCCEECCCCEEEECCCCCCCCC
Q ss_conf             887754346720003621873893013467
Q 029695            5 GTQQKCKVCEKTVYPVEQLSADGVVYHKSC   34 (189)
Q Consensus         5 ~~~~~C~~C~~~I~~~~~~~~~~~~~H~~C   34 (189)
                      |....|++|++.|.+..++.+.++.||..|
T Consensus         1 G~~~~CaGC~~~I~DRflL~a~Dr~WH~~C   30 (30)
T d1j2oa1           1 GSLLTCGGCQQNIGDRYFLKAIDQYWHEDC   30 (30)
T ss_dssp             CCCBCBSSSCSCBCSSEEEECSSSEECTTT
T ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHCCC
T ss_conf             997502788982148999998887770389

>d1x4la1 g.39.1.3 (A:8-36) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=97.00  E-value=0.00011  Score=35.90  Aligned_cols=26  Identities=31%  Similarity=0.876  Sum_probs=18.0

Q ss_pred             CCCCCCCCCCCC---CEECCCCCCCCCCC
Q ss_conf             986796532463---11024732221261
Q 029695          108 CASCSKTVYPLE---KVAVENQAYHKTCF  133 (189)
Q Consensus       108 C~~C~~~i~~~~---~i~~~~~~~H~~Cf  133 (189)
                      |+.|.++|.+..   .|.++++.||.+||
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
T ss_conf             97557753235772588750100244579

>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=96.99  E-value=0.00033  Score=33.76  Aligned_cols=28  Identities=21%  Similarity=0.514  Sum_probs=25.4

Q ss_pred             CCCCCCCCCCCCCCCCEECCCCCCCCCCC
Q ss_conf             88798679653246311024732221261
Q 029695          105 QEKCASCSKTVYPLEKVAVENQAYHKTCF  133 (189)
Q Consensus       105 ~~~C~~C~~~i~~~~~i~~~~~~~H~~Cf  133 (189)
                      .+.|..|+..|.+. .+.++++.+|++||
T Consensus        18 LP~CdkCg~GIVG~-~VK~rDK~rHPeCf   45 (45)
T d1x64a1          18 MPLCDKCGSGIVGA-VVKARDKYRHPECF   45 (45)
T ss_dssp             CCBCTTTCCBCCSC-CEESSSCEECTTTC
T ss_pred             CCCCCCCCCCCEEE-EEEECCCCCCCCCC
T ss_conf             76236337972878-99735646898879

>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=96.91  E-value=0.00014  Score=35.47  Aligned_cols=27  Identities=30%  Similarity=0.790  Sum_probs=18.2

Q ss_pred             CCCCCCCCCCCCCCE-ECCCCCCCCCCC
Q ss_conf             798679653246311-024732221261
Q 029695          107 KCASCSKTVYPLEKV-AVENQAYHKTCF  133 (189)
Q Consensus       107 ~C~~C~~~i~~~~~i-~~~~~~~H~~Cf  133 (189)
                      .|++|++.|.+.|.| .+++..||.+||
T Consensus         4 ~Ca~C~~~I~~~e~VmRA~~~VyHl~CF   31 (31)
T d1rutx3           4 ACSACGQSIPASELVMRAQGNVYHLKCF   31 (31)
T ss_dssp             ECTTTCCEECTTSEEEEETTEEECGGGC
T ss_pred             CCCCCCCCCCHHHHHEECCCCEEEECCC
T ss_conf             0500058678668520013645500149

>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=96.89  E-value=0.00019  Score=34.85  Aligned_cols=29  Identities=21%  Similarity=0.544  Sum_probs=24.6

Q ss_pred             CCCCCCCCCCEECCCCEEEECCCCCCCCCC
Q ss_conf             877543467200036218738930134674
Q 029695            6 TQQKCKVCEKTVYPVEQLSADGVVYHKSCF   35 (189)
Q Consensus         6 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   35 (189)
                      .+..|..|++.|. ..-+...++.||.+||
T Consensus         7 fa~~C~~Ckk~It-~GGvtY~dqpWHkeCF   35 (35)
T d2cuqa2           7 FAPRCARCSKTLT-QGGVTYRDQPWHRECL   35 (35)
T ss_dssp             SSCCCTTTCCCCC-SCCEESSSSEECTTTC
T ss_pred             HHHHHHHCCCCCC-CCCEEECCCCCHHHHC
T ss_conf             8888866178003-4865236876413109

>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=96.88  E-value=0.00012  Score=35.78  Aligned_cols=27  Identities=15%  Similarity=0.346  Sum_probs=19.4

Q ss_pred             CCCCCCCCCCCCCCCCEECCCCCCCCCC
Q ss_conf             8879867965324631102473222126
Q 029695          105 QEKCASCSKTVYPLEKVAVENQAYHKTC  132 (189)
Q Consensus       105 ~~~C~~C~~~i~~~~~i~~~~~~~H~~C  132 (189)
                      .++|+.|.++|.+. .+++.++.||++.
T Consensus         5 ~p~C~~C~~PI~~~-~vtAlgk~WHpEH   31 (31)
T d1u5sb1           5 VPICGACRRPIEGR-VVNAMGKQWHVEH   31 (31)
T ss_dssp             CCEETTTTEECCSC-EECCTTSBEETTT
T ss_pred             CCCHHHCCCCHHHH-HHHHHCCCCCCCC
T ss_conf             73323127841636-7664056467898

>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=96.85  E-value=0.00025  Score=34.35  Aligned_cols=32  Identities=16%  Similarity=0.558  Sum_probs=28.8

Q ss_pred             CCCCCCCCCCCCCCCCCCCEECCHHHHHHHHC
Q ss_conf             34456565778982125993113201776525
Q 029695           36 KCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFK   67 (189)
Q Consensus        36 ~C~~C~~~L~~~~~~~~~g~~~C~~c~~~~~~   67 (189)
                      .|..|..++....|..+++..||..||++.|+
T Consensus         1 ~C~~C~qPIGtksfipk~~~~yCvpCyE~kfA   32 (32)
T d1x4ka1           1 ICHRCQQPIGTKSFIPKDNQNFCVPCYEKQHA   32 (32)
T ss_dssp             CCSSSCCCCCSSSEEEETTEEEEHHHHHHHTS
T ss_pred             CCCCCCCCCCCCCCCCCCCCCEEEECCHHHCC
T ss_conf             95524584456553307887067421043259

>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=96.81  E-value=0.00019  Score=34.82  Aligned_cols=27  Identities=19%  Similarity=0.404  Sum_probs=24.0

Q ss_pred             CCCCCCCCCCEECCCCEEEECCCCCCCC
Q ss_conf             8775434672000362187389301346
Q 029695            6 TQQKCKVCEKTVYPVEQLSADGVVYHKS   33 (189)
Q Consensus         6 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~   33 (189)
                      +.+.|+.|.++| .++.+.++|+.||++
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
T ss_conf             773323127841-636766405646789

>d1wyha2 g.39.1.3 (A:8-34) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=96.81  E-value=0.00018  Score=34.95  Aligned_cols=26  Identities=38%  Similarity=0.924  Sum_probs=16.6

Q ss_pred             CCCCCCEECCCC-EEEECCCCCCCCCC
Q ss_conf             434672000362-18738930134674
Q 029695           10 CKVCEKTVYPVE-QLSADGVVYHKSCF   35 (189)
Q Consensus        10 C~~C~~~I~~~~-~~~~~~~~~H~~Cf   35 (189)
                      |..|.+.|+++. ++...|..||..||
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
T ss_conf             953214155784011126861332439

>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=96.80  E-value=0.00028  Score=34.10  Aligned_cols=32  Identities=31%  Similarity=0.717  Sum_probs=28.7

Q ss_pred             CCCCCCCCCCCCCCCCCCCEECCHHHHHHHHC
Q ss_conf             34456565778982125993113201776525
Q 029695           36 KCSHCKGTLKLSNYSSMEGVLYCKPHFEQLFK   67 (189)
Q Consensus        36 ~C~~C~~~L~~~~~~~~~g~~~C~~c~~~~~~   67 (189)
                      .|..|.+++....|..+++..||.+||++.|+
T Consensus         1 ~C~~C~qPIGtkSFip~~~~~yCvpCYE~kfA   32 (32)
T d1wyha1           1 LCSGCEQPLGSRSFVPDKGAHYCVPCYENKFA   32 (32)
T ss_dssp             BCTTTCCBTTTSCEEEETTEEEEHHHHHHHTS
T ss_pred             CCCCCCCCCCCCCCCCCCCCEEEEECCCCCCC
T ss_conf             96544584355220317896788763010159

>d1x4ka2 g.39.1.3 (A:8-34) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=96.79  E-value=0.00023  Score=34.46  Aligned_cols=26  Identities=35%  Similarity=0.965  Sum_probs=17.1

Q ss_pred             CCCCCCEECCCC-EEEECCCCCCCCCC
Q ss_conf             434672000362-18738930134674
Q 029695           10 CKVCEKTVYPVE-QLSADGVVYHKSCF   35 (189)
Q Consensus        10 C~~C~~~I~~~~-~~~~~~~~~H~~Cf   35 (189)
                      |..|.+.|+++. ++...|..||..||
T Consensus         1 C~~C~ktiMPGsrKme~kG~~WHEtCF   27 (27)
T d1x4ka2           1 CQECKKTIMPGTRKMEYKGSSWHETCF   27 (27)
T ss_dssp             BSSSCCCCCSSSCEEEETTEEEETTTT
T ss_pred             CCCCCCCCCCCCEEECCCCCCCCCCCC
T ss_conf             955555215785020024772331329

>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=96.79  E-value=0.00022  Score=34.58  Aligned_cols=26  Identities=31%  Similarity=0.847  Sum_probs=18.8

Q ss_pred             CCCCCCCCCCCC---CEECCCCCCCCCCC
Q ss_conf             986796532463---11024732221261
Q 029695          108 CASCSKTVYPLE---KVAVENQAYHKTCF  133 (189)
Q Consensus       108 C~~C~~~i~~~~---~i~~~~~~~H~~Cf  133 (189)
                      |..|.++|.+..   .|.++++.||.+||
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
T ss_conf             96545653155771588750200123469

>d2d8xa2 g.39.1.3 (A:8-32) 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=96.78  E-value=0.00023  Score=34.50  Aligned_cols=25  Identities=24%  Similarity=0.707  Sum_probs=15.1

Q ss_pred             CCCCCCCCCCCCCEECCCCCCCCCCC
Q ss_conf             98679653246311024732221261
Q 029695          108 CASCSKTVYPLEKVAVENQAYHKTCF  133 (189)
Q Consensus       108 C~~C~~~i~~~~~i~~~~~~~H~~Cf  133 (189)
                      |..|+..|.++ .|.+.+..||++||
T Consensus         1 c~kcgefiigr-vikamn~~whp~cf   25 (26)
T d2d8xa2           1 CHQCGEFIIGR-VIKAMNNSWHPECF   25 (26)
T ss_dssp             CSSSCCBCCSC-CEEETTEEECTTTS
T ss_pred             CCCCCCCHHHH-HHHHHHCCCCCCCC
T ss_conf             98544332689-99998646785335

>d1ibia1 g.39.1.3 (A:117-144) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

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

Probab=96.78  E-value=0.00018  Score=34.94  Aligned_cols=27  Identities=44%  Similarity=0.950  Sum_probs=25.0

Q ss_pred             CCCCCCCCCCCCCCCEECCCCCCCCCC
Q ss_conf             879867965324631102473222126
Q 029695          106 EKCASCSKTVYPLEKVAVENQAYHKTC  132 (189)
Q Consensus       106 ~~C~~C~~~i~~~~~i~~~~~~~H~~C  132 (189)
                      .+|.+|++.++..|.+.-.|+.||+.|
T Consensus         2 d~CpRC~~~VyaAEkviGaG~~WHk~C   28 (28)
T d1ibia1           2 EKCSRCGDSVYAAEKVIGAGKPWHKNC   28 (28)
T ss_dssp             EECTTTSSEESSSSCEESSSSEECSSC
T ss_pred             CCCCCCCHHHHHHHHHHCCCCCCCCCC
T ss_conf             747544025778998862897444478

>d1x62a2 g.39.1.3 (A:8-42) PDZ and LIM domain protein 1 Elfin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 1 Elfin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.68  E-value=0.00036  Score=33.59  Aligned_cols=28  Identities=18%  Similarity=0.546  Sum_probs=24.5

Q ss_pred             CCCCCCCCCCCCCCCCEECCCCCCCCCCC
Q ss_conf             88798679653246311024732221261
Q 029695          105 QEKCASCSKTVYPLEKVAVENQAYHKTCF  133 (189)
Q Consensus       105 ~~~C~~C~~~i~~~~~i~~~~~~~H~~Cf  133 (189)
                      .+.|..|+..|.+. .+.++++.+|++||
T Consensus         8 lp~CdkCg~GIVG~-~VK~rDk~rHPeCf   35 (35)
T d1x62a2           8 LPMCDKCGTGIVGV-FVKLRDRHRHPECY   35 (35)
T ss_dssp             CCCCSSSCCCCCSS-CEECSSCEECTTTT
T ss_pred             CCCCCCCCCCCEEE-EEEECCCCCCCCCC
T ss_conf             75135347871768-99842435788879

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

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

Probab=96.67  E-value=0.00029  Score=34.06  Aligned_cols=30  Identities=30%  Similarity=0.762  Sum_probs=27.0

Q ss_pred             CCCCCCCCCCCCCCEECCCCCCCCHHHHHH
Q ss_conf             101657888889980012990042868873
Q 029695          133 FKCSHGGCSISPSNYAALEGILYCKHHFSQ  162 (189)
Q Consensus       133 f~C~~C~~~l~~~~~~~~~g~~~C~~c~~~  162 (189)
                      |+|..|++.|.+......||.+||..||.+
T Consensus         1 frca~cgk~lestt~adkdgeiyck~cyak   30 (31)
T d1ibia2           1 FRCAKCGKSLESTTLTEKEGEIYCKGCYAK   30 (31)
T ss_dssp             EECSSSCCEECSSCSEEETTEEECHHHHHH
T ss_pred             CCCCCCCCCCCCCEEECCCCCEEEEEEEEC
T ss_conf             940201686542065536873897564615

>d1b8ta1 g.39.1.3 (A:1-35) Cysteine-rich (intestinal) protein, CRP, CRIP {Chicken (Gallus gallus) [TaxId: 9031]}

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

Probab=96.48  E-value=0.00043  Score=33.26  Aligned_cols=31  Identities=45%  Similarity=0.958  Sum_probs=28.0

Q ss_pred             CCCCCCCCCCCCCCCCCCEECCCCCCCCCCC
Q ss_conf             9988798679653246311024732221261
Q 029695          103 GTQEKCASCSKTVYPLEKVAVENQAYHKTCF  133 (189)
Q Consensus       103 ~~~~~C~~C~~~i~~~~~i~~~~~~~H~~Cf  133 (189)
                      ++..+|..|.+.++..|-+...++.||+.||
T Consensus         5 ggg~kcg~c~ktvy~aeevqc~g~sfhk~cf   35 (35)
T d1b8ta1           5 GGGKKCGVCQKAVYFAEEVQCEGSSFHKSCF   35 (35)
T ss_dssp             CCCEECTTTCCEECSSCCEEETTEEECTTTC
T ss_pred             CCCCEECCCCCEEEEEEEEEECCCCCCCCCC
T ss_conf             7876205444347660325416830021349

>d2dloa2 g.39.1.3 (A:43-75) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=96.37  E-value=0.001  Score=31.59  Aligned_cols=32  Identities=13%  Similarity=0.274  Sum_probs=19.6

Q ss_pred             CCCCCCCCCCCCCEECC-CCCCCCHHHHHHHHC
Q ss_conf             01657888889980012-990042868873636
Q 029695          134 KCSHGGCSISPSNYAAL-EGILYCKHHFSQLFK  165 (189)
Q Consensus       134 ~C~~C~~~l~~~~~~~~-~g~~~C~~c~~~~f~  165 (189)
                      .|..|++.|.+..|... ++++||..+|.++|+
T Consensus         1 tCvvC~~~LDGvPFtvD~~n~i~Cv~DyHrkfA   33 (33)
T d2dloa2           1 TCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFA   33 (33)
T ss_dssp             BCSSSCCBCTTSCEECCTTCCCEEHHHHHHHTT
T ss_pred             CEEECCCCCCCCCEEECCCCCEEEHHHHHHHCC
T ss_conf             944818614888577758997766225243339

>d1x4ka2 g.39.1.3 (A:8-34) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=96.29  E-value=0.00065  Score=32.48  Aligned_cols=26  Identities=35%  Similarity=0.938  Sum_probs=22.8

Q ss_pred             CCCCCCCCCCCCC-EECCCCCCCCCCC
Q ss_conf             9867965324631-1024732221261
Q 029695          108 CASCSKTVYPLEK-VAVENQAYHKTCF  133 (189)
Q Consensus       108 C~~C~~~i~~~~~-i~~~~~~~H~~Cf  133 (189)
                      |..|.+.|.+..+ +.+.|..||..||
T Consensus         1 C~~C~ktiMPGsrKme~kG~~WHEtCF   27 (27)
T d1x4ka2           1 CQECKKTIMPGTRKMEYKGSSWHETCF   27 (27)
T ss_dssp             BSSSCCCCCSSSCEEEETTEEEETTTT
T ss_pred             CCCCCCCCCCCCEEECCCCCCCCCCCC
T ss_conf             955555215785020024772331329

>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=96.26  E-value=0.00087  Score=31.90  Aligned_cols=29  Identities=34%  Similarity=0.799  Sum_probs=25.0

Q ss_pred             CCCCCCCCCEECCCCE-EEECCCCCCCCCC
Q ss_conf             7754346720003621-8738930134674
Q 029695            7 QQKCKVCEKTVYPVEQ-LSADGVVYHKSCF   35 (189)
Q Consensus         7 ~~~C~~C~~~I~~~~~-~~~~~~~~H~~Cf   35 (189)
                      ...|.+|++.|.+.+. +.+.+..||.+||
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
T ss_conf             760500058678668520013645500149

>d1a7ia2 g.39.1.3 (A:36-67) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

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

Probab=96.23  E-value=0.00066  Score=32.44  Aligned_cols=31  Identities=16%  Similarity=0.428  Sum_probs=15.0

Q ss_pred             CCCCCCCCCCCCEECCCCCCCCHHHHHHHHC
Q ss_conf             1657888889980012990042868873636
Q 029695          135 CSHGGCSISPSNYAALEGILYCKHHFSQLFK  165 (189)
Q Consensus       135 C~~C~~~l~~~~~~~~~g~~~C~~c~~~~f~  165 (189)
                      |..|++.|++......++.+||..||.+.||
T Consensus         2 C~~C~K~LdStTva~h~~eiYCKsCygkkyg   32 (32)
T d1a7ia2           2 CMVCRKNLDSTTVAIHDAEVYCKSCYGKKYG   32 (32)
T ss_dssp             CSSSCCEECSSCCEEETTEEECSHHHHHHCC
T ss_pred             CHHHHHCCCCCEEEEECCEEEEHHHCCCCCC
T ss_conf             1665430675335540663773111265479

>d1wyha2 g.39.1.3 (A:8-34) Four and a half LIM domains 3, FHL3 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=96.22  E-value=0.00088  Score=31.87  Aligned_cols=26  Identities=35%  Similarity=0.919  Sum_probs=22.8

Q ss_pred             CCCCCCCCCCCCC-EECCCCCCCCCCC
Q ss_conf             9867965324631-1024732221261
Q 029695          108 CASCSKTVYPLEK-VAVENQAYHKTCF  133 (189)
Q Consensus       108 C~~C~~~i~~~~~-i~~~~~~~H~~Cf  133 (189)
                      |..|.+.|.+..+ +...|..||..||
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
T ss_conf             953214155784011126861332439

>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=95.97  E-value=0.0015  Score=30.86  Aligned_cols=27  Identities=19%  Similarity=0.523  Sum_probs=13.8

Q ss_pred             CCCCCCCCCCCCEECCCCCCCCHHHHH
Q ss_conf             165788888998001299004286887
Q 029695          135 CSHGGCSISPSNYAALEGILYCKHHFS  161 (189)
Q Consensus       135 C~~C~~~l~~~~~~~~~g~~~C~~c~~  161 (189)
                      |..|++.|.+..|...++++||-+||.
T Consensus         2 C~~C~K~Lag~rFTa~eDq~yCVdCYK   28 (31)
T d2cura1           2 CVTCSKKLAGQRFTAVEDQYYCVDCYK   28 (31)
T ss_dssp             CTTTCCBCTTSCEEECSSCEEEHHHHH
T ss_pred             CCCCCCHHCCCEEEEECCEEEEEEEEC
T ss_conf             423541103744677626599856540

>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=95.97  E-value=0.0019  Score=30.38  Aligned_cols=29  Identities=21%  Similarity=0.608  Sum_probs=26.2

Q ss_pred             CCCCCCCCCCCCCCCCCCCEECCHHHHHH
Q ss_conf             34456565778982125993113201776
Q 029695           36 KCSHCKGTLKLSNYSSMEGVLYCKPHFEQ   64 (189)
Q Consensus        36 ~C~~C~~~L~~~~~~~~~g~~~C~~c~~~   64 (189)
                      .|..|++.|.+..|...+.++||.+||..
T Consensus         1 vC~~C~K~Lag~rFTa~eDq~yCVdCYK~   29 (31)
T d2cura1           1 VCVTCSKKLAGQRFTAVEDQYYCVDCYKN   29 (31)
T ss_dssp             BCTTTCCBCTTSCEEECSSCEEEHHHHHH
T ss_pred             CCCCCCCHHCCCEEEEECCEEEEEEEECC
T ss_conf             94235411037446776265998565403

>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=95.95  E-value=0.0016  Score=30.69  Aligned_cols=27  Identities=44%  Similarity=1.089  Sum_probs=19.1

Q ss_pred             CCCCCCCEECCCCEEEECCCCCCCCCC
Q ss_conf             543467200036218738930134674
Q 029695            9 KCKVCEKTVYPVEQLSADGVVYHKSCF   35 (189)
Q Consensus         9 ~C~~C~~~I~~~~~~~~~~~~~H~~Cf   35 (189)
                      .|..|.+.++.++-+..+|++||..||
T Consensus         2 kcg~c~ktvy~aeevqc~grsfhk~cf   28 (28)
T d1a7ia1           2 KCGACGRTVYHAEEVQCDGRSFHRCCF   28 (28)
T ss_dssp             BCSSSCCBCSSTTEEEETTEEEESSSE
T ss_pred             CCCCCCCEEEEEEEEEECCCEECCCCC
T ss_conf             455455457662005416811021449

>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=95.92  E-value=0.0017  Score=30.57  Aligned_cols=27  Identities=33%  Similarity=0.695  Sum_probs=24.4

Q ss_pred             CCCCCCCCCEECCCCEEEECCCCCCCCC
Q ss_conf             7754346720003621873893013467
Q 029695            7 QQKCKVCEKTVYPVEQLSADGVVYHKSC   34 (189)
Q Consensus         7 ~~~C~~C~~~I~~~~~~~~~~~~~H~~C   34 (189)
                      ...|..|.+.| .++.+.+.++.||++|
T Consensus        15 G~~C~~C~~~I-tG~V~~Ag~~~yHP~C   41 (41)
T d1v6ga1          15 GTRCFSCDQFI-EGEVVSALGKTYHPDC   41 (41)
T ss_dssp             CCBCTTTCCBC-CSCCEEETTEEECTTT
T ss_pred             CCCCCCCCCEE-EEEEEEECCCCCCCCC
T ss_conf             86012425871-2322671473468999

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

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

Probab=95.80  E-value=0.0028  Score=29.62  Aligned_cols=27  Identities=33%  Similarity=0.769  Sum_probs=16.1

Q ss_pred             CCCCCCCCCCCCCCC-EECCCCCCCCCC
Q ss_conf             879867965324631-102473222126
Q 029695          106 EKCASCSKTVYPLEK-VAVENQAYHKTC  132 (189)
Q Consensus       106 ~~C~~C~~~i~~~~~-i~~~~~~~H~~C  132 (189)
                      ..|.+|+....+.|+ |..+|..||..|
T Consensus         8 ~~C~RC~~gF~p~EkiVNSnGEl~H~qC   35 (35)
T d1g47a1           8 ATCERCKGGFAPAEKIVNSNGELYHEQC   35 (35)
T ss_dssp             CBCSSSCCBCCSTTTCEEETTEEECTTT
T ss_pred             HHHHHHCCCCCCHHHHHCCCCCCCCCCC
T ss_conf             9998871579816775058870535669

>d1x4la1 g.39.1.3 (A:8-36) Four and a half LIM domains protein 2, FHL2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=95.78  E-value=0.0018  Score=30.44  Aligned_cols=26  Identities=23%  Similarity=0.667  Sum_probs=21.5

Q ss_pred             CCCCCCEECCC---CEEEECCCCCCCCCC
Q ss_conf             43467200036---218738930134674
Q 029695           10 CKVCEKTVYPV---EQLSADGVVYHKSCF   35 (189)
Q Consensus        10 C~~C~~~I~~~---~~~~~~~~~~H~~Cf   35 (189)
                      |..|.++|..-   .+++.+++.||..||
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
T ss_conf             97557753235772588750100244579

>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=95.73  E-value=0.0024  Score=29.95  Aligned_cols=29  Identities=24%  Similarity=0.644  Sum_probs=21.5

Q ss_pred             CCCCCCCCCCCCCCCCCCCEECCHHHHHH
Q ss_conf             34456565778982125993113201776
Q 029695           36 KCSHCKGTLKLSNYSSMEGVLYCKPHFEQ   64 (189)
Q Consensus        36 ~C~~C~~~L~~~~~~~~~g~~~C~~c~~~   64 (189)
                      .|..|+..|.++.|+..+.+.||++||..
T Consensus         1 vC~tC~~kLRGqpFYAvekkayCE~CYi~   29 (32)
T d1x61a2           1 VCSTCRAQLRGQHFYAVERRAYCEGCYVA   29 (32)
T ss_dssp             BCSSSCCBCTTSCEEESSSCEEEHHHHHH
T ss_pred             CEEEECCEECCCCCEEEECCCCCCCEEEE
T ss_conf             93580745158803586211035630666

>d2dloa2 g.39.1.3 (A:43-75) Thyroid receptor interacting protein 6, TRIP6 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=95.71  E-value=0.0025  Score=29.84  Aligned_cols=32  Identities=19%  Similarity=0.464  Sum_probs=27.2

Q ss_pred             CCCCCCCCCCCCCCC-CCCCEECCHHHHHHHHC
Q ss_conf             344565657789821-25993113201776525
Q 029695           36 KCSHCKGTLKLSNYS-SMEGVLYCKPHFEQLFK   67 (189)
Q Consensus        36 ~C~~C~~~L~~~~~~-~~~g~~~C~~c~~~~~~   67 (189)
                      +|..|+..|.+..|. ..++++||..+|++.|+
T Consensus         1 tCvvC~~~LDGvPFtvD~~n~i~Cv~DyHrkfA   33 (33)
T d2dloa2           1 TCVVCHRGLDGIPFTVDATSQIHCIEDFHRKFA   33 (33)
T ss_dssp             BCSSSCCBCTTSCEECCTTCCCEEHHHHHHHTT
T ss_pred             CEEECCCCCCCCCEEECCCCCEEEHHHHHHHCC
T ss_conf             944818614888577758997766225243339

>d1a7ia2 g.39.1.3 (A:36-67) Cysteine-rich (intestinal) protein, CRP, CRIP {Japanese quail (Coturnix coturnix japonica), CRP2 [TaxId: 93934]}

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

Probab=95.62  E-value=0.0022  Score=30.07  Aligned_cols=31  Identities=19%  Similarity=0.596  Sum_probs=26.8

Q ss_pred             CCCCCCCCCCCCCCCCCCEECCHHHHHHHHC
Q ss_conf             4456565778982125993113201776525
Q 029695           37 CSHCKGTLKLSNYSSMEGVLYCKPHFEQLFK   67 (189)
Q Consensus        37 C~~C~~~L~~~~~~~~~g~~~C~~c~~~~~~   67 (189)
                      |-.|++.|....-...++.+||+.||-+.++
T Consensus         2 C~~C~K~LdStTva~h~~eiYCKsCygkkyg   32 (32)
T d1a7ia2           2 CMVCRKNLDSTTVAIHDAEVYCKSCYGKKYG   32 (32)
T ss_dssp             CSSSCCEECSSCCEEETTEEECSHHHHHHCC
T ss_pred             CHHHHHCCCCCEEEEECCEEEEHHHCCCCCC
T ss_conf             1665430675335540663773111265479

>d1x64a2 g.39.1.3 (A:53-83) PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 3, PDLIM3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.46  E-value=0.0039  Score=29.00  Aligned_cols=27  Identities=41%  Similarity=0.843  Sum_probs=13.2

Q ss_pred             CCCCCCCCCCCCCCCCCCEECCHHHHH
Q ss_conf             445656577898212599311320177
Q 029695           37 CSHCKGTLKLSNYSSMEGVLYCKPHFE   63 (189)
Q Consensus        37 C~~C~~~L~~~~~~~~~g~~~C~~c~~   63 (189)
                      |+.|+..|.+..++..++++||+.+..
T Consensus         2 C~dCg~NLKqrG~Ffv~~~lyCE~HAr   28 (31)
T d1x64a2           2 CADCNLNLKQKGYFFVEGELYCETHAR   28 (31)
T ss_dssp             CSSSCCCTTTSCCEEETTEEECHHHHH
T ss_pred             CCCCCCCHHHCCEEEECCEEEEHHHHH
T ss_conf             631053831354488544886212222

>d1x64a1 g.39.1.3 (A:8-52) PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 3, PDLIM3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.42  E-value=0.0046  Score=28.64  Aligned_cols=29  Identities=21%  Similarity=0.422  Sum_probs=25.5

Q ss_pred             CCCCCCCCCCEECCCCEEEECCCCCCCCCC
Q ss_conf             877543467200036218738930134674
Q 029695            6 TQQKCKVCEKTVYPVEQLSADGVVYHKSCF   35 (189)
Q Consensus         6 ~~~~C~~C~~~I~~~~~~~~~~~~~H~~Cf   35 (189)
                      ..+.|.+|+--| -+..+.+.++.+|++||
T Consensus        17 kLP~CdkCg~GI-VG~~VK~rDK~rHPeCf   45 (45)
T d1x64a1          17 RMPLCDKCGSGI-VGAVVKARDKYRHPECF   45 (45)
T ss_dssp             SCCBCTTTCCBC-CSCCEESSSCEECTTTC
T ss_pred             CCCCCCCCCCCC-EEEEEEECCCCCCCCCC
T ss_conf             276236337972-87899735646898879

>d1x64a2 g.39.1.3 (A:53-83) PDZ and LIM domain protein 3, PDLIM3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 3, PDLIM3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.39  E-value=0.0039  Score=28.99  Aligned_cols=30  Identities=27%  Similarity=0.557  Sum_probs=25.8

Q ss_pred             CCCCCCCCCCCCCEECCCCCCCCHHHHHHH
Q ss_conf             016578888899800129900428688736
Q 029695          134 KCSHGGCSISPSNYAALEGILYCKHHFSQL  163 (189)
Q Consensus       134 ~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~  163 (189)
                      .|+.|+..|...++++.++++||+.|...+
T Consensus         1 vC~dCg~NLKqrG~Ffv~~~lyCE~HAr~R   30 (31)
T d1x64a2           1 VCADCNLNLKQKGYFFVEGELYCETHARAR   30 (31)
T ss_dssp             CCSSSCCCTTTSCCEEETTEEECHHHHHHH
T ss_pred             CCCCCCCCHHHCCEEEECCEEEEHHHHHCC
T ss_conf             963105383135448854488621222223

>d1x6aa1 g.39.1.3 (A:8-41) Lim domain kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=95.24  E-value=0.0027  Score=29.69  Aligned_cols=26  Identities=27%  Similarity=0.484  Sum_probs=20.8

Q ss_pred             CCCCCCCCCCCCCCCEECCCCCCCCCC
Q ss_conf             879867965324631102473222126
Q 029695          106 EKCASCSKTVYPLEKVAVENQAYHKTC  132 (189)
Q Consensus       106 ~~C~~C~~~i~~~~~i~~~~~~~H~~C  132 (189)
                      ..|.+|...|.+. .+++.+..||++|
T Consensus         9 e~C~~C~~~itGp-vMvAG~~K~HPEC   34 (34)
T d1x6aa1           9 EFCHGCSLLMTGP-FMVAGEFKYHPEC   34 (34)
T ss_dssp             CBCTTTCCBCCSC-CBCCTTCCBCTTS
T ss_pred             HHHHHHHHHCCCC-EEEECCCCCCCCC
T ss_conf             8865147662466-0561354468998

>d1x63a2 g.39.1.3 (A:45-76) Four and a half LIM domains protein 1, FHL-1 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=95.20  E-value=0.0057  Score=28.23  Aligned_cols=31  Identities=19%  Similarity=0.350  Sum_probs=19.5

Q ss_pred             CCCCCCCCCCCCEECCCCCCCCHHHHHHHHC
Q ss_conf             1657888889980012990042868873636
Q 029695          135 CSHGGCSISPSNYAALEGILYCKHHFSQLFK  165 (189)
Q Consensus       135 C~~C~~~l~~~~~~~~~g~~~C~~c~~~~f~  165 (189)
                      |+.|+..++++.|+..+...||..|....|+
T Consensus         2 cs~ckq~igsgsffpkg~d~ycvtche~kfa   32 (32)
T d1x63a2           2 CSNCKQVIGTGSFFPKGEDFYCVTCHETKFA   32 (32)
T ss_dssp             CSSSCCCCTTSCEEEETTEEEEHHHHHHHTS
T ss_pred             CCHHHHHCCCCCCCCCCCCEEEEEEECCCCC
T ss_conf             1312432025642479982799874110149

>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=95.17  E-value=0.004  Score=28.91  Aligned_cols=27  Identities=26%  Similarity=0.621  Sum_probs=19.7

Q ss_pred             CCCCCCCCCCCCCCCCEECCCCCCCCCC
Q ss_conf             8879867965324631102473222126
Q 029695          105 QEKCASCSKTVYPLEKVAVENQAYHKTC  132 (189)
Q Consensus       105 ~~~C~~C~~~i~~~~~i~~~~~~~H~~C  132 (189)
                      ...|..|.+.|.+. .+.+.++.||+.|
T Consensus         5 ssgC~~C~~~ItGk-VLEAG~khYHP~C   31 (32)
T d1wiga1           5 SSGCDSCEKYITGR-VLEAGEKHYHPSC   31 (32)
T ss_dssp             CCSCSSSCCCCSSC-CBCCSSCCBCTTT
T ss_pred             CCHHHHHHHHHHHH-HHHCCCCCCCCCC
T ss_conf             51136666341114-6334564568888

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

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

Probab=94.90  E-value=0.0051  Score=28.46  Aligned_cols=26  Identities=23%  Similarity=0.678  Sum_probs=21.1

Q ss_pred             CCCCCCEECCC---CEEEECCCCCCCCCC
Q ss_conf             43467200036---218738930134674
Q 029695           10 CKVCEKTVYPV---EQLSADGVVYHKSCF   35 (189)
Q Consensus        10 C~~C~~~I~~~---~~~~~~~~~~H~~Cf   35 (189)
                      |..|.++|...   .+++.+++.||.+||
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
T ss_conf             96545653155771588750200123469

>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=94.83  E-value=0.0058  Score=28.20  Aligned_cols=28  Identities=39%  Similarity=1.055  Sum_probs=25.0

Q ss_pred             CCCCCCCCCCCCCCCEECCCCCCCCCCC
Q ss_conf             8798679653246311024732221261
Q 029695          106 EKCASCSKTVYPLEKVAVENQAYHKTCF  133 (189)
Q Consensus       106 ~~C~~C~~~i~~~~~i~~~~~~~H~~Cf  133 (189)
                      .+|..|.+.++-.|-+..+++.||+.||
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
T ss_conf             9455455457662005416811021449

>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=94.57  E-value=0.0073  Score=27.76  Aligned_cols=26  Identities=23%  Similarity=0.645  Sum_probs=11.4

Q ss_pred             CCCCCCEECCCCE-EEECCCCCCCCCC
Q ss_conf             4346720003621-8738930134674
Q 029695           10 CKVCEKTVYPVEQ-LSADGVVYHKSCF   35 (189)
Q Consensus        10 C~~C~~~I~~~~~-~~~~~~~~H~~Cf   35 (189)
                      |..|.++|-...+ +...++.||..||
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
T ss_conf             954447767563775422222134569

>d1x62a1 g.39.1.3 (A:43-73) PDZ and LIM domain protein 1 Elfin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 1 Elfin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.45  E-value=0.0036  Score=29.11  Aligned_cols=27  Identities=30%  Similarity=0.644  Sum_probs=13.8

Q ss_pred             CCCCCCCCCCCCCCCCCCEECCHHHHH
Q ss_conf             445656577898212599311320177
Q 029695           37 CSHCKGTLKLSNYSSMEGVLYCKPHFE   63 (189)
Q Consensus        37 C~~C~~~L~~~~~~~~~g~~~C~~c~~   63 (189)
                      |+.|+..|.+..++..++++||+.+..
T Consensus         2 C~dCg~NLKqrG~Ffve~~lyCE~HAr   28 (31)
T d1x62a1           2 CTDCGTNLKQKGHFFVEDQIYCEKHAR   28 (31)
T ss_dssp             CSSSCCCHHHHCCEESSSCEECHHHHH
T ss_pred             CCCCCCCHHHCCEEEECCEEEHHHHHH
T ss_conf             631054831344378544775154465

>d1x62a1 g.39.1.3 (A:43-73) PDZ and LIM domain protein 1 Elfin {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: PDZ and LIM domain protein 1 Elfin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.30  E-value=0.0039  Score=28.96  Aligned_cols=30  Identities=20%  Similarity=0.485  Sum_probs=25.4

Q ss_pred             CCCCCCCCCCCCCEECCCCCCCCHHHHHHH
Q ss_conf             016578888899800129900428688736
Q 029695          134 KCSHGGCSISPSNYAALEGILYCKHHFSQL  163 (189)
Q Consensus       134 ~C~~C~~~l~~~~~~~~~g~~~C~~c~~~~  163 (189)
                      .|+.|...|...++++.++++||+.|...+
T Consensus         1 vC~dCg~NLKqrG~Ffve~~lyCE~HAr~r   30 (31)
T d1x62a1           1 VCTDCGTNLKQKGHFFVEDQIYCEKHARER   30 (31)
T ss_dssp             SCSSSCCCHHHHCCEESSSCEECHHHHHHH
T ss_pred             CCCCCCCCHHHCCEEEECCEEEHHHHHHHC
T ss_conf             963105483134437854477515446522

>d1rutx2 g.39.1.3 (X:49-82) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

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

Probab=93.70  E-value=0.0055  Score=28.32  Aligned_cols=31  Identities=19%  Similarity=0.536  Sum_probs=18.3

Q ss_pred             CCCCCCCCCCC--CEECCCCCCCCHHHHHHHHC
Q ss_conf             16578888899--80012990042868873636
Q 029695          135 CSHGGCSISPS--NYAALEGILYCKHHFSQLFK  165 (189)
Q Consensus       135 C~~C~~~l~~~--~~~~~~g~~~C~~c~~~~f~  165 (189)
                      |+.|+..|...  ..+...|.++|..+|.++||
T Consensus         2 CscC~~~LgeiG~s~ytk~~mILCk~DY~rlFG   34 (34)
T d1rutx2           2 CSSCQAQLGDIGTSSYTKSGMILCRNDYIRLFG   34 (34)
T ss_dssp             CTTTCCBHHHHCSEEEEETTEEECHHHHHHHHS
T ss_pred             CCCHHCCHHHCCCHHEECCCEEEECHHHHHHCC
T ss_conf             760215742204400114777998126787559

>d1wiga2 g.39.1.3 (A:33-73) Actin-binding LIM protein 2, abLIM2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=93.42  E-value=0.013  Score=26.61  Aligned_cols=26  Identities=19%  Similarity=0.498  Sum_probs=13.0

Q ss_pred             CCCCCCCCCCCCCE-ECCCCCCCCCCC
Q ss_conf             98679653246311-024732221261
Q 029695          108 CASCSKTVYPLEKV-AVENQAYHKTCF  133 (189)
Q Consensus       108 C~~C~~~i~~~~~i-~~~~~~~H~~Cf  133 (189)
                      |.+|++.+...|-+ .....+|||.|=
T Consensus         2 C~rC~~mF~EGEEMYLQGs~IWHP~C~   28 (41)
T d1wiga2           2 CVRCGQMFAEGEEMYLQGSSIWHPACR   28 (41)
T ss_dssp             CSSSCCCCCSSCCCEEETTEEECTTHH
T ss_pred             CCHHHCCCCCCCEEEECCCCEECCCCC
T ss_conf             113315345521046627840377655

>d1x6aa2 g.39.1.3 (A:42-75) Lim domain kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=93.34  E-value=0.025  Score=25.39  Aligned_cols=31  Identities=26%  Similarity=0.575  Sum_probs=19.4

Q ss_pred             CCCCCCCCCCCCC-CEECCC-CCCCCHHHHHHH
Q ss_conf             1016578888899-800129-900428688736
Q 029695          133 FKCSHGGCSISPS-NYAALE-GILYCKHHFSQL  163 (189)
Q Consensus       133 f~C~~C~~~l~~~-~~~~~~-g~~~C~~c~~~~  163 (189)
                      |.|..|+..+..+ .|...+ ..+||..||.+.
T Consensus         1 F~C~~C~~fIgdgdsyaLVerskLYCG~Cy~~~   33 (34)
T d1x6aa2           1 FACMSCKVIIEDGDAYALVQHATLYCGKCHNEV   33 (34)
T ss_dssp             CBCTTTCCBCCTTSCEEECSSSCEEEHHHHHHH
T ss_pred             CCCCCCCCEEECCCEEEEEEECEEEEECCHHCC
T ss_conf             932344358706855777751405443021142

>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=92.97  E-value=0.027  Score=25.22  Aligned_cols=29  Identities=10%  Similarity=0.298  Sum_probs=20.9

Q ss_pred             CCCCCCCCCCCCCEECCCCCCCCHHHHHH
Q ss_conf             01657888889980012990042868873
Q 029695          134 KCSHGGCSISPSNYAALEGILYCKHHFSQ  162 (189)
Q Consensus       134 ~C~~C~~~l~~~~~~~~~g~~~C~~c~~~  162 (189)
                      +|..|+..|...+|+...|+.+|+.|..+
T Consensus         1 rC~~C~~~LAD~GFvKnagR~LCrpch~r   29 (32)
T d2d8xa1           1 RCDLCQEVLADIGFVKNAGRHLCRPCHNR   29 (32)
T ss_dssp             BCSSSCCBCSSSCCEEETTEEECHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHCCCCCCCCHHHHH
T ss_conf             94598869887213640663015401100

>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=91.46  E-value=0.041  Score=24.39  Aligned_cols=27  Identities=15%  Similarity=0.513  Sum_probs=17.3

Q ss_pred             CCCCCCCCCCCCCCCCCCCEECCHHHH
Q ss_conf             344565657789821259931132017
Q 029695           36 KCSHCKGTLKLSNYSSMEGVLYCKPHF   62 (189)
Q Consensus        36 ~C~~C~~~L~~~~~~~~~g~~~C~~c~   62 (189)
                      +|+.|..+|....|..++++++|..|.
T Consensus         1 RCaKC~hpLA~E~F~aKd~kI~C~Kc~   27 (31)
T d2cupa2           1 RCAKCLHPLANETFVAKDNKILCNKCT   27 (31)
T ss_dssp             CCSSSCCCTTSSCCEEETTEEECHHHH
T ss_pred             CCHHHCCCCCCCCCCCCCCEEEECCCC
T ss_conf             903436401038423258817525534

>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=90.02  E-value=0.072  Score=23.30  Aligned_cols=26  Identities=27%  Similarity=0.663  Sum_probs=12.8

Q ss_pred             CCCCCCCCCCCC-CEECCCCCCCCCCC
Q ss_conf             986796532463-11024732221261
Q 029695          108 CASCSKTVYPLE-KVAVENQAYHKTCF  133 (189)
Q Consensus       108 C~~C~~~i~~~~-~i~~~~~~~H~~Cf  133 (189)
                      |.+|+..+.+.. .+.+.++.||..||
T Consensus         1 cggcgedvvgdgagvvaldrvfhvgcf   27 (27)
T d1x61a1           1 CGGCGEDVVGDGAGVVALDRVFHVGCF   27 (27)
T ss_dssp             CSSSCSCCCSSSCCEECSSSEECTTTC
T ss_pred             CCCCCCCCCCCCCCEEEEEEEEEECCC
T ss_conf             987655414477446888546873129

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

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

Probab=89.37  E-value=0.13  Score=22.19  Aligned_cols=30  Identities=20%  Similarity=0.409  Sum_probs=22.0

Q ss_pred             CCCCCCCCCCCCCCCCCCEECCCCCCCCCCC
Q ss_conf             9988798679653246311024732221261
Q 029695          103 GTQEKCASCSKTVYPLEKVAVENQAYHKTCF  133 (189)
Q Consensus       103 ~~~~~C~~C~~~i~~~~~i~~~~~~~H~~Cf  133 (189)
                      .+...|..|...|-.. -+.+++..||+..|
T Consensus         6 lGk~vC~KCh~iIdd~-pL~Fr~d~YHp~HF   35 (35)
T d2cora2           6 LGKYICQKCHAIIDEQ-PLIFKNDPYHPDHF   35 (35)
T ss_dssp             CCCCBCTTTCCBCCSC-CCCCSSSCCCTTTS
T ss_pred             HHHHHHHHHHHHHHCC-CCEECCCCCCCCCC
T ss_conf             1068899877654047-50203888887879

>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=85.79  E-value=0.21  Score=21.20  Aligned_cols=26  Identities=31%  Similarity=0.807  Sum_probs=12.9

Q ss_pred             CCCCCCCCCCCCCCCCCCEECCHHHHH
Q ss_conf             445656577898212599311320177
Q 029695           37 CSHCKGTLKLSNYSSMEGVLYCKPHFE   63 (189)
Q Consensus        37 C~~C~~~L~~~~~~~~~g~~~C~~c~~   63 (189)
                      |+.|++.|... -.+..|.+||.+|..
T Consensus         2 C~~Cgkeltad-ArEl~geLyCLpChd   27 (31)
T d2cora1           2 CANCGKELTAD-ARELKGELYCLPCHD   27 (31)
T ss_dssp             CSSSCCBCCTT-CEEETTEEECHHHHH
T ss_pred             CCCCCCCCCHH-HHHHCCCEEEEECCC
T ss_conf             33214445535-787568788875454

>d1rutx4 g.39.1.3 (X:114-146) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

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

Probab=85.20  E-value=0.16  Score=21.77  Aligned_cols=25  Identities=28%  Similarity=0.821  Sum_probs=10.3

Q ss_pred             CCCCCCCCCCC-CCCCCCCEECCHHH
Q ss_conf             44565657789-82125993113201
Q 029695           37 CSHCKGTLKLS-NYSSMEGVLYCKPH   61 (189)
Q Consensus        37 C~~C~~~L~~~-~~~~~~g~~~C~~c   61 (189)
                      |+.|...|..+ .|...+|.+||+.+
T Consensus         2 C~tC~n~LVPGDRFHyvNG~lfCE~D   27 (33)
T d1rutx4           2 CSTCRNRLVPGDRFHYINGSLFCEHD   27 (33)
T ss_dssp             CTTTCCBCCTTCEEEEETTEEEEGGG
T ss_pred             CCCCCCCCCCCCEEEEECCEEEEECC
T ss_conf             41201422577506785677987358

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.19  E-value=0.59  Score=19.19  Aligned_cols=30  Identities=17%  Similarity=0.440  Sum_probs=12.4

Q ss_pred             CCCCCCCCCCCCCCCCCCCCEECCHHHHHH
Q ss_conf             434456565778982125993113201776
Q 029695           35 FKCSHCKGTLKLSNYSSMEGVLYCKPHFEQ   64 (189)
Q Consensus        35 f~C~~C~~~L~~~~~~~~~g~~~C~~c~~~   64 (189)
                      +.|..|...+........-|-.||..|..+
T Consensus        23 l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~   52 (97)
T d1jm7b_          23 LRCSRCTNILREPVCLGGCEHIFCSNCVSD   52 (97)
T ss_dssp             TSCSSSCSCCSSCBCCCSSSCCBCTTTGGG
T ss_pred             CCCCCCCCHHHCCCEECCCCCCHHHHHHHH
T ss_conf             899258722112746588999302999999

>d1j2oa2 g.39.1.3 (A:31-63) Rhombotin-2 (Lmo2) {Mouse (Mus musculus) [TaxId: 10090]}

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

Probab=80.71  E-value=0.61  Score=19.15  Aligned_cols=29  Identities=17%  Similarity=0.468  Sum_probs=15.7

Q ss_pred             CCCCCCCCCCCC--CEECCCCCCCCHHHHHH
Q ss_conf             016578888899--80012990042868873
Q 029695          134 KCSHGGCSISPS--NYAALEGILYCKHHFSQ  162 (189)
Q Consensus       134 ~C~~C~~~l~~~--~~~~~~g~~~C~~c~~~  162 (189)
                      .|..|.+.|+..  ..+...+.++|..+|.+
T Consensus         2 kC~cC~cRLGEVG~tlytk~nliLCkrDYlR   32 (33)
T d1j2oa2           2 SCDLCGCRLGEVGRRLYYKLGRKLCRRDYLR   32 (33)
T ss_dssp             CCSSSCSCCCCSSSCCCCBTTBCCCHHHHHH
T ss_pred             CCCCCCCCCCCHHHHHHHHCCEEEEHHHHHC
T ss_conf             4565366501133678854365566023413