Citrus Sinensis ID: 029808

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------
Protein Sequence
MSSHMLNGQKSSATSNSNSNSNNNNSKASSYYPPPTAKYEDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAPSSSMPDAVSGSSLDNGSASPEEGSTINQLGGQGMFHPRHFIHSSLII
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHccccccccEEcccccHHHHHHHHHHHcccHHHHHccccHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccccccccccccHHHHccccccHHHHHHHHHHHHHHcccccEEEEEcccEEcHHHHHHHHHHcccHHHHHcHHHHHHHHHHccccccHHHHHHHHHHHHHHHHcHHcHEEEcccccccccccccccHHHcccccccccccccccccccccccccHHHcccEEEc
Coil and Loop (DISEMBL)
msshmlngqkssatsnsnsnsnnnnskassyyppptakyediaqSSDLFWATLEAFHKsfgdkfkvptvggkaldlHRLFVEVtsrgglgkvirdrrWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYyfrkeapsssmpdavsgssldngsaspeegstinqlggqgmfhprhfihsslii
Flexible Loop (DISEMBL)
msshmlngqkssatsnsnsnsnnnnSKASSYYPPPTAKYEDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLfvevtsrgglgkvirdrrwkeVVVVFnfpttitsasfVLRKYYLSLLYHFEQVYYFRKEAPSSSMPDAVSGSSLDNGSASPEEGSTINQLGGQGMFHPRHFIHSSLII
Low Complexity Region (SEG)
MSSHMLNGQkssatsnsnsnsnnnnskassYYPPPTAKYEDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAPSSSMPDAVSGSSLDNGSASPEEGSTINQLGGQGMFHPRHFIHSSLII
Disordered region (IsUnstruct)
*****************************************IAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFR***************************************************
Disordered Region (DISOPRED)
************************************************FWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVY*****************************************************I
Disordered Region (DISEMBL)
******************************YYPPPTAKYEDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEA*************************TINQLGGQGMFHPRHFIHSSLII
Disordered Region (DISPRO)
******************************YYPPPTAKYEDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFRKE**********************************GMFHPRHFIH***I*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSSHMLNGQKSSATSNSNSNSNNNNSKASSYYPPPTAKYEDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAPSSSMPDAVSGSSLDNGSASPEEGSTINQLGGQGMFHPRHFIHSSLII
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	187	2.2.26 [Sep-21-2011]
Q9LTT3	319	High mobility group B pro	yes	no	0.705	0.413	0.562	3e-36
Q9LG02	337	Putative high mobility gr	no	no	0.550	0.305	0.619	2e-33
Q9MAT6	448	High mobility group B pro	no	no	0.684	0.285	0.484	1e-31
Q9SGS2	338	High mobility group B pro	no	no	0.582	0.322	0.532	3e-29
Q68CP9	1835	AT-rich interactive domai	yes	no	0.534	0.054	0.415	3e-18
Q6GQD7	539	AT-rich interactive domai	N/A	no	0.352	0.122	0.439	4e-12
Q5XGD9	541	AT-rich interactive domai	no	no	0.352	0.121	0.439	6e-12
Q99856	593	AT-rich interactive domai	no	no	0.352	0.111	0.439	2e-11
A6PWV5	409	AT-rich interactive domai	no	no	0.422	0.193	0.423	2e-11
Q62431	601	AT-rich interactive domai	no	no	0.352	0.109	0.439	2e-11

>sp|Q9LTT3|HMG10_ARATH High mobility group B protein 10 OS=Arabidopsis thaliana GN=HMGB10 PE=2 SV=1

 Score =  151 bits (381), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 76/135 (56%), Positives = 92/135 (68%), Gaps = 3/135 (2%)

Query: 37  AKYEDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDR 96
           AKY+D+ ++S LFW  L AF        KVPTVGG  LDLHRLF+EVTSRGG+ +V++DR
Sbjct: 34  AKYDDLVRNSALFWEKLRAFLGLTSKTLKVPTVGGNTLDLHRLFIEVTSRGGIERVVKDR 93

Query: 97  RWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAPSSSMPDAVSG-SSLDN 155
           +WKEV+  F+FPTTITSASFVLRKYYL  L+  E VYY   E P SS+        SL N
Sbjct: 94  KWKEVIGAFSFPTTITSASFVLRKYYLKFLFQLEHVYYL--EKPVSSLQSTDEALKSLAN 151

Query: 156 GSASPEEGSTINQLG 170
            S +PEEG    Q+G
Sbjct: 152 ESPNPEEGIDEPQVG 166

Binds preferentially DNA with A/T-rich content.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9LG02|HMG11_ARATH Putative high mobility group B protein 11 OS=Arabidopsis thaliana GN=HMGB11 PE=3 SV=2

 Score =  141 bits (356), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 65/105 (61%), Positives = 82/105 (78%), Gaps = 2/105 (1%)

Query: 39  YEDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRW 98
           Y+DI ++ +LFW  L  FH+S   KFK+P VGGK+LDLHRLF EVTSRGGL KVI+DRR 
Sbjct: 30  YQDIVRNPELFWEMLRDFHESSDKKFKIPIVGGKSLDLHRLFNEVTSRGGLEKVIKDRRC 89

Query: 99  KEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAPSSS 143
           KEV+  FNF TTIT+++FVLRK YL +L+ FE +YYF  +AP S+
Sbjct: 90  KEVIDAFNFKTTITNSAFVLRKSYLKMLFEFEHLYYF--QAPLST 132

Binds preferentially DNA with A/T-rich content.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9MAT6|HMG15_ARATH High mobility group B protein 15 OS=Arabidopsis thaliana GN=HMGB15 PE=2 SV=1

 Score =  135 bits (341), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 63/130 (48%), Positives = 82/130 (63%), Gaps = 2/130 (1%)

Query: 35  PTAKYEDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIR 94
           P A YE +     LF  +LE  H   G KF VP +GG+ LDLH+LFVEVTSRGG+ K++ 
Sbjct: 21  PEATYEAVVADPRLFMTSLERLHSLLGTKFMVPIIGGRDLDLHKLFVEVTSRGGINKILN 80

Query: 95  DRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFRK--EAPSSSMPDAVSGSS 152
           +RRWKEV   F FP T T+AS+VLRKYY SLL ++EQ+Y+FR   + P  SM    +   
Sbjct: 81  ERRWKEVTATFVFPPTATNASYVLRKYYFSLLNNYEQIYFFRSNGQIPPDSMQSPSARPC 140

Query: 153 LDNGSASPEE 162
              G+  P +
Sbjct: 141 FIQGAIRPSQ 150

Binds preferentially DNA with A/T-rich content.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SGS2|HMGB9_ARATH High mobility group B protein 9 OS=Arabidopsis thaliana GN=HMGB9 PE=2 SV=1

 Score =  128 bits (321), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 58/109 (53%), Positives = 75/109 (68%)

Query: 32  YPPPTAKYEDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGK 91
           YP P A +E + + S +FW TL  FH     KF +P +GGK LDLH L+VEVT RGG  K
Sbjct: 27  YPEPLALHEVVVKDSSVFWDTLRRFHSIMSTKFMIPVIGGKELDLHVLYVEVTRRGGYEK 86

Query: 92  VIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAP 140
           V+ +++W+EV  VF F  T TSASFVLRK+YL+LL+H+EQV+ F    P
Sbjct: 87  VVVEKKWREVGGVFRFSATTTSASFVLRKHYLNLLFHYEQVHLFTARGP 135

Binds preferentially DNA with A/T-rich content.

Arabidopsis thaliana (taxid: 3702)

>sp|Q68CP9|ARID2_HUMAN AT-rich interactive domain-containing protein 2 OS=Homo sapiens GN=ARID2 PE=1 SV=2

 Score = 91.7 bits (226), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 44/106 (41%), Positives = 64/106 (60%), Gaps = 6/106 (5%)

Query: 34  PPTAKYEDIAQSSDLFWATLEAFHKSFGDKFK-VPTVGGKALDLHRLFVEVTSRGGLGKV 92
           PP  + + +A     F   L  FH S G  FK +P VGGK LDLH L+  VT+ GG  KV
Sbjct: 9   PPDERRKGLA-----FLDELRQFHHSRGSPFKKIPAVGGKELDLHGLYTRVTTLGGFAKV 63

Query: 93  IRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFRKE 138
               +W E+V  FNFP + ++A+F L++YYL  L  +E+V++F ++
Sbjct: 64  SEKNQWGEIVEEFNFPRSCSNAAFALKQYYLRYLEKYEKVHHFGED 109

Involved in transcriptional activation and repression of select genes by chromatin remodeling (alteration of DNA-nucleosome topology). Required for the stability of the SWI/SNF chromatin remodeling complex SWI/SNF-B (PBAF). May be involved in targeting the complex to different genes. May be involved in regulating transcriptional activation of cardiac genes.

Homo sapiens (taxid: 9606)

>sp|Q6GQD7|ARI3A_XENLA AT-rich interactive domain-containing protein 3A OS=Xenopus laevis GN=arid3a PE=2 SV=1

 Score = 71.2 bits (173), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 29/66 (43%), Positives = 44/66 (66%)

Query: 65  KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLS 124
           ++P +  + LDL+ L+V VT +GGL +VI  + W+E+    N PT+ITSA+F LR  Y+ 
Sbjct: 232 RIPIMAKQVLDLYMLYVLVTEKGGLVEVINKKLWREITKGLNLPTSITSAAFTLRTQYMK 291

Query: 125 LLYHFE 130
            LY +E
Sbjct: 292 YLYPYE 297

Transcription factor required for smad1 and smad2-mediated responses to TGFbeta during mesoderm induction.

Xenopus laevis (taxid: 8355)

>sp|Q5XGD9|ARI3A_XENTR AT-rich interactive domain-containing protein 3A OS=Xenopus tropicalis GN=arid3a PE=2 SV=1

 Score = 70.5 bits (171), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 29/66 (43%), Positives = 44/66 (66%)

Query: 65  KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLS 124
           ++P +  + LDL+ L+V VT +GGL +VI  + W+E+    N PT+ITSA+F LR  Y+ 
Sbjct: 235 RIPIMAKQVLDLYMLYVLVTEKGGLVEVINKKLWREITKGLNLPTSITSAAFTLRTQYMK 294

Query: 125 LLYHFE 130
            LY +E
Sbjct: 295 YLYPYE 300

Transcription factor required for smad1 and smad2-mediated responses to TGFbeta during mesoderm induction.

Xenopus tropicalis (taxid: 8364)

>sp|Q99856|ARI3A_HUMAN AT-rich interactive domain-containing protein 3A OS=Homo sapiens GN=ARID3A PE=1 SV=2

 Score = 68.9 bits (167), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 29/66 (43%), Positives = 43/66 (65%)

Query: 65  KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLS 124
           ++P +  + LDL  L+V VT +GGL +VI  + W+E+    N PT+ITSA+F LR  Y+ 
Sbjct: 261 RIPIMAKQVLDLFMLYVLVTEKGGLVEVINKKLWREITKGLNLPTSITSAAFTLRTQYMK 320

Query: 125 LLYHFE 130
            LY +E
Sbjct: 321 YLYPYE 326

Transcription factor which may be involved in the control of cell cycle progression by the RB1/E2F1 pathway and in B-cell differentiation.

Homo sapiens (taxid: 9606)

>sp|A6PWV5|ARI3C_MOUSE AT-rich interactive domain-containing protein 3C OS=Mus musculus GN=Arid3c PE=2 SV=2

 Score = 68.9 bits (167), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 36/85 (42%), Positives = 51/85 (60%), Gaps = 6/85 (7%)

Query: 47  DLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVF 105
           DLF     +F +  G    +VP +  + LDL+ LF  VT++GGL +VI  + W+EV    
Sbjct: 119 DLF-----SFMQKRGTPVNRVPIMAKQVLDLYALFRLVTAKGGLVEVINRKVWREVTRGL 173

Query: 106 NFPTTITSASFVLRKYYLSLLYHFE 130
           + PTTITSA+F LR  Y+  LY +E
Sbjct: 174 SLPTTITSAAFTLRTQYMKYLYPYE 198

Mus musculus (taxid: 10090)

>sp|Q62431|ARI3A_MOUSE AT-rich interactive domain-containing protein 3A OS=Mus musculus GN=Arid3a PE=1 SV=1

 Score = 68.6 bits (166), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 29/66 (43%), Positives = 43/66 (65%)

Query: 65  KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLS 124
           ++P +  + LDL  L+V VT +GGL +VI  + W+E+    N PT+ITSA+F LR  Y+ 
Sbjct: 266 RIPIMAKQVLDLFMLYVLVTEKGGLVEVINKKLWREITKGLNLPTSITSAAFTLRTQYMK 325

Query: 125 LLYHFE 130
            LY +E
Sbjct: 326 YLYPYE 331

Transcription factor involved in B-cell differentiation. Binds a VH promoter proximal site necessary for induced mu-heavy-chain transcription. Binds the minor groove of a restricted ATC sequence that is sufficient for nuclear matrix association. This sequence motif is present in matrix-associating regions (MARS) proximal to the promoter and flanking E mu. Activates E mu-driven transcription by binding these sites. May be involved in the control of cell cycle progression by the RB1/E2F1 pathway.

Mus musculus (taxid: 10090)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	187
224122224	316	high mobility group family [Populus tric	0.802	0.474	0.706	2e-55
255581935	313	transcription factor, putative [Ricinus	0.893	0.533	0.631	7e-54
225463518	331	PREDICTED: high mobility group B protein	0.780	0.441	0.621	8e-48
255646588	252	unknown [Glycine max]	0.754	0.559	0.537	3e-41
388505080	234	unknown [Medicago truncatula]	0.775	0.619	0.568	3e-41
357456009	274	AT-rich interactive domain-containing pr	0.775	0.529	0.568	4e-41
356517796	339	PREDICTED: LOW QUALITY PROTEIN: high mob	0.754	0.415	0.537	4e-41
388490562	185	unknown [Medicago truncatula]	0.775	0.783	0.568	4e-41
356508167	283	PREDICTED: LOW QUALITY PROTEIN: high mob	0.727	0.480	0.571	9e-41
298205254	483	unnamed protein product [Vitis vinifera]	0.844	0.327	0.529	2e-40

>gi|224122224|ref|XP_002330570.1| high mobility group family [Populus trichocarpa] gi|222872128|gb|EEF09259.1| high mobility group family [Populus trichocarpa]

 Score =  220 bits (561), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 106/150 (70%), Positives = 122/150 (81%)

Query: 20  NSNNNNSKASSYYPPPTAKYEDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRL 79
           +S + N ++   YPP TAKYEDIAQSSDLFW  L+AFH+SFG KF VPTVGGKALDLH L
Sbjct: 19  HSESINGQSFRSYPPATAKYEDIAQSSDLFWEKLKAFHQSFGTKFMVPTVGGKALDLHHL 78

Query: 80  FVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEA 139
           FVEVTSRGG+ KVI DR+WKEV+  FNFPTTITSASFVLRK+YLSLLYHFEQVY+F K+ 
Sbjct: 79  FVEVTSRGGIEKVITDRKWKEVITAFNFPTTITSASFVLRKHYLSLLYHFEQVYHFNKQI 138

Query: 140 PSSSMPDAVSGSSLDNGSASPEEGSTINQL 169
           P  S  DA++G SL NGSA+ EEG+  NQ 
Sbjct: 139 PLVSGTDAMNGRSLVNGSATLEEGAITNQF 168

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255581935|ref|XP_002531766.1| transcription factor, putative [Ricinus communis] gi|223528602|gb|EEF30622.1| transcription factor, putative [Ricinus communis]

 Score =  215 bits (547), Expect = 7e-54,   Method: Compositional matrix adjust.
 Identities = 108/171 (63%), Positives = 129/171 (75%), Gaps = 4/171 (2%)

Query: 1   MSSHMLNGQKSSATSNSNSNSNNNNSKASSYYPPPTAKYEDIAQSSDLFWATLEAFHKSF 60
           MS+H  N   +  ++     S   N ++   YP PTA++ED+ QSSDLFW  L++FHKSF
Sbjct: 1   MSTH--NPTATVISTQQEVQSETRNCQSFRSYPSPTAQFEDVVQSSDLFWEKLKSFHKSF 58

Query: 61  GDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRK 120
           G KF VPTVGGKALDLH LFVEVTSRGGL KV+RDR+WKEV+  FNFP+TITSASFVLRK
Sbjct: 59  GTKFMVPTVGGKALDLHHLFVEVTSRGGLEKVVRDRKWKEVIAAFNFPSTITSASFVLRK 118

Query: 121 YYLSLLYHFEQVYYFRKEAPSSSMPDAVSGSSLDNGSASPEEGSTINQLGG 171
           YYLSLLYHFEQVY F K+ PS S+ D V+G +L NGSA+  EG T+NQ  G
Sbjct: 119 YYLSLLYHFEQVYQFHKQVPSVSVSDDVNG-NLVNGSATV-EGVTVNQFPG 167

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225463518|ref|XP_002264357.1| PREDICTED: high mobility group B protein 10 [Vitis vinifera] gi|296090037|emb|CBI39856.3| unnamed protein product [Vitis vinifera]

 Score =  195 bits (495), Expect = 8e-48,   Method: Compositional matrix adjust.
 Identities = 92/148 (62%), Positives = 113/148 (76%), Gaps = 2/148 (1%)

Query: 32  YPPPTAKYEDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGK 91
           YP   A+Y+++ QS+DLFW TL+ FH+SFG KF VPT GGKALDLHRLFVEVTSRGGL K
Sbjct: 40  YPEAAAQYQEVVQSADLFWQTLKDFHRSFGTKFMVPTTGGKALDLHRLFVEVTSRGGLEK 99

Query: 92  VIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAPSSSMPDAVSGS 151
           VIRDR+WKEV  VF FPTTITSASFVLRKYYLSLL+H+EQVYYFRK++   SM D ++ S
Sbjct: 100 VIRDRKWKEVTTVFKFPTTITSASFVLRKYYLSLLHHYEQVYYFRKQSFPISMADPLNSS 159

Query: 152 SLDNGSASP--EEGSTINQLGGQGMFHP 177
            ++  + +P  ++ +T N L       P
Sbjct: 160 PINGSATTPVFQDSATTNDLPVSPRLQP 187

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255646588|gb|ACU23768.1| unknown [Glycine max]

 Score =  173 bits (439), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 78/145 (53%), Positives = 105/145 (72%), Gaps = 4/145 (2%)

Query: 27  KASSYYPPPTAKYEDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSR 86
           + +  YP PTA+Y+DI + ++LFW TL+AFHK+ G K+K+ TVGG  LDLHRLFVEVTSR
Sbjct: 33  RPTKLYPAPTARYQDIVRDANLFWGTLQAFHKTLGTKYKISTVGGTPLDLHRLFVEVTSR 92

Query: 87  GGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAPSSSMPD 146
           GG+ KVI DR+WKEV++ FNF  TIT+ASF++RK YLS+LYHFEQVYYF ++    + PD
Sbjct: 93  GGIEKVIVDRKWKEVILTFNFKDTITNASFMVRKSYLSMLYHFEQVYYFGRQGIPPTTPD 152

Query: 147 AVSGSSLDNGSASPEEGSTINQLGG 171
            +    +   S  P   +TI ++  
Sbjct: 153 LM----IRGQSCQPYSSTTIPEVAA 173

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388505080|gb|AFK40606.1| unknown [Medicago truncatula]

 Score =  173 bits (439), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 87/153 (56%), Positives = 108/153 (70%), Gaps = 8/153 (5%)

Query: 15  SNSNSNSNNNNSKASSYYPPPTAKYEDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKAL 74
             S S SN N       YPPPTA Y D+ + S+LF   L++FH S G K K+PT+GGK L
Sbjct: 18  CESESKSNTNP------YPPPTAPYSDLVRDSNLFQQKLQSFHDSLGTKLKIPTIGGKPL 71

Query: 75  DLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYY 134
           DLH LFVEVTSRGG+ KVI DR+WKEV++ FNF  TITS SF++RK YLSLLYHFEQ YY
Sbjct: 72  DLHHLFVEVTSRGGIEKVIVDRKWKEVIMSFNFRDTITSGSFMVRKTYLSLLYHFEQAYY 131

Query: 135 FRKEAPSSSMPDAVSGSSLDNGSASPEEGSTIN 167
           F K+ P S+ PDA+SG ++ N   +  +G+ IN
Sbjct: 132 FCKQVPPST-PDALSG-NVANSFTTNTDGAAIN 162

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357456009|ref|XP_003598285.1| AT-rich interactive domain-containing protein [Medicago truncatula] gi|355487333|gb|AES68536.1| AT-rich interactive domain-containing protein [Medicago truncatula]

 Score =  173 bits (438), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 87/153 (56%), Positives = 108/153 (70%), Gaps = 8/153 (5%)

Query: 15  SNSNSNSNNNNSKASSYYPPPTAKYEDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKAL 74
             S S SN N       YPPPTA Y D+ + S+LF   L++FH S G K K+PT+GGK L
Sbjct: 18  CESESKSNTNP------YPPPTAPYSDLVRDSNLFQQKLQSFHDSLGTKLKIPTIGGKPL 71

Query: 75  DLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYY 134
           DLH LFVEVTSRGG+ KVI DR+WKEV++ FNF  TITS SF++RK YLSLLYHFEQ YY
Sbjct: 72  DLHHLFVEVTSRGGIEKVIVDRKWKEVIMSFNFRDTITSGSFMVRKTYLSLLYHFEQAYY 131

Query: 135 FRKEAPSSSMPDAVSGSSLDNGSASPEEGSTIN 167
           F K+ P S+ PDA+SG ++ N   +  +G+ IN
Sbjct: 132 FCKQVPPST-PDALSG-NVANSFTTNTDGAAIN 162

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356517796|ref|XP_003527572.1| PREDICTED: LOW QUALITY PROTEIN: high mobility group B protein 10-like [Glycine max]

 Score =  172 bits (437), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 78/145 (53%), Positives = 105/145 (72%), Gaps = 4/145 (2%)

Query: 27  KASSYYPPPTAKYEDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSR 86
           + +  YP PTA+Y+DI + ++LFW TL+AFHK+ G K+K+ TVGG  LDLHRLFVEVTSR
Sbjct: 33  RPTKLYPAPTARYQDIVRDANLFWGTLQAFHKTLGTKYKISTVGGTPLDLHRLFVEVTSR 92

Query: 87  GGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAPSSSMPD 146
           GG+ KVI DR+WKEV++ FNF  TIT+ASF++RK YLS+LYHFEQVYYF ++    + PD
Sbjct: 93  GGIEKVIVDRKWKEVILTFNFKDTITNASFMVRKSYLSMLYHFEQVYYFGRQGIPPTTPD 152

Query: 147 AVSGSSLDNGSASPEEGSTINQLGG 171
            +    +   S  P   +TI ++  
Sbjct: 153 LM----IRGQSCQPYSSTTIPEVAA 173

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388490562|gb|AFK33347.1| unknown [Medicago truncatula]

 Score =  172 bits (437), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 87/153 (56%), Positives = 109/153 (71%), Gaps = 8/153 (5%)

Query: 15  SNSNSNSNNNNSKASSYYPPPTAKYEDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKAL 74
             S S SN N       YPPPTA Y D+ + S+LF   L++FH S G K K+PT+GGK+L
Sbjct: 18  CESESKSNTNP------YPPPTAPYSDLVRDSNLFQQKLQSFHDSLGTKLKIPTIGGKSL 71

Query: 75  DLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYY 134
           DLH LFVEVTSRGG+ KVI DR+WKEV++ FNF  TITS SF++RK YLSLLYHFEQ YY
Sbjct: 72  DLHHLFVEVTSRGGIEKVIVDRKWKEVIMSFNFRDTITSGSFMVRKTYLSLLYHFEQAYY 131

Query: 135 FRKEAPSSSMPDAVSGSSLDNGSASPEEGSTIN 167
           F K+ P S+ PDA+SG ++ N   +  +G+ IN
Sbjct: 132 FCKQVPPST-PDALSG-NVANSFTTNTDGAAIN 162

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356508167|ref|XP_003522831.1| PREDICTED: LOW QUALITY PROTEIN: high mobility group B protein 10-like [Glycine max]

 Score =  171 bits (434), Expect = 9e-41,   Method: Compositional matrix adjust.
 Identities = 80/140 (57%), Positives = 102/140 (72%), Gaps = 4/140 (2%)

Query: 32  YPPPTAKYEDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGK 91
           YP PTA+Y+DI + ++LFW TL+AFHK  G K+KV TVGG +LDLHRLFVEVTSRGG+ K
Sbjct: 41  YPAPTARYQDIVRDANLFWGTLQAFHKILGTKYKVATVGGTSLDLHRLFVEVTSRGGIEK 100

Query: 92  VIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAPSSSMPDAVSGS 151
           VI DR+WKEV++ FNF  TITSASFV+RK YLS+LYH+EQVYYF ++      PD +   
Sbjct: 101 VIVDRKWKEVILTFNFKDTITSASFVVRKSYLSMLYHYEQVYYFGRQGIPPPTPDLM--- 157

Query: 152 SLDNGSASPEEGSTINQLGG 171
            +   S  P   +TI ++  
Sbjct: 158 -IRGQSGQPYSSTTIPEVAA 176

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|298205254|emb|CBI17313.3| unnamed protein product [Vitis vinifera]

 Score =  171 bits (432), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 89/168 (52%), Positives = 114/168 (67%), Gaps = 10/168 (5%)

Query: 12  SATSNSNSNSNNNNSKASSY--YPPPTAKYEDIAQSSDLFWATLEAFHKSFGDKFKVPTV 69
           ++ S++N + +  N   S+Y  YPPP AKYEDI  S  LF  TLE  H   G KF +P +
Sbjct: 24  TSQSSANQSPSLRNETVSNYHPYPPPLAKYEDIVSSPKLFMGTLEKLHAVMGTKFMIPII 83

Query: 70  GGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHF 129
           GGK LDLHRLFVEVTSRGGL K+IR+RRWKEV  VF+FP+T T+ASFVLRKYY+SLL+H+
Sbjct: 84  GGKELDLHRLFVEVTSRGGLEKIIRERRWKEVTAVFSFPSTATNASFVLRKYYVSLLHHY 143

Query: 130 EQVYYFRKE--APSSSMPDAVSGSSL----DNGSASPEEGSTINQLGG 171
           EQ+Y+F+ +  AP S+  DA    S+     +G A P   S  +Q  G
Sbjct: 144 EQIYFFKAQGWAPISA--DASQSPSITPVPSHGLAEPVLPSPESQPAG 189

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	187
TAIR|locus:2088160	319	AT3G13350 [Arabidopsis thalian	0.711	0.416	0.559	1.7e-34
TAIR|locus:2020517	337	AT1G55650 [Arabidopsis thalian	0.550	0.305	0.619	1.4e-30
TAIR|locus:2010587	448	AT1G04880 [Arabidopsis thalian	0.807	0.337	0.437	7.9e-30
TAIR|locus:2199824	338	AT1G76110 [Arabidopsis thalian	0.582	0.322	0.532	1.9e-28
UNIPROTKB|E1C9H0	1831	ARID2 "Uncharacterized protein	0.481	0.049	0.472	4.1e-17
UNIPROTKB|Q68CP9	1835	ARID2 "AT-rich interactive dom	0.534	0.054	0.415	1.1e-16
ZFIN|ZDB-GENE-030131-6311	1573	arid2 "AT rich interactive dom	0.481	0.057	0.472	1.4e-14
MGI|MGI:1328360	601	Arid3a "AT rich interactive do	0.352	0.109	0.439	1.8e-12
UNIPROTKB|E1BGZ3	590	ARID3A "Uncharacterized protei	0.352	0.111	0.439	3.6e-12
UNIPROTKB|E2RFL8	1836	ARID2 "Uncharacterized protein	0.534	0.054	0.367	5.5e-12

TAIR|locus:2088160 AT3G13350 [Arabidopsis thaliana (taxid:3702)]

 Score = 374 (136.7 bits), Expect = 1.7e-34, P = 1.7e-34
 Identities = 75/134 (55%), Positives = 90/134 (67%)

Query:    37 AKYEDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDR 96
             AKY+D+ ++S LFW  L AF        KVPTVGG  LDLHRLF+EVTSRGG+ +V++DR
Sbjct:    34 AKYDDLVRNSALFWEKLRAFLGLTSKTLKVPTVGGNTLDLHRLFIEVTSRGGIERVVKDR 93

Query:    97 RWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAPSSSMPDAVSGSSLDNG 156
             +WKEV+  F+FPTTITSASFVLRKYYL  L+  E VYY  K   S    D     SL N 
Sbjct:    94 KWKEVIGAFSFPTTITSASFVLRKYYLKFLFQLEHVYYLEKPVSSLQSTDEAL-KSLANE 152

Query:   157 SASPEEGSTINQLG 170
             S +PEEG    Q+G
Sbjct:   153 SPNPEEGIDEPQVG 166

GO:0003677 "DNA binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

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

GO:0006333 "chromatin assembly or disassembly" evidence=RCA

TAIR|locus:2020517 AT1G55650 [Arabidopsis thaliana (taxid:3702)]

 Score = 337 (123.7 bits), Expect = 1.4e-30, P = 1.4e-30
 Identities = 65/105 (61%), Positives = 82/105 (78%)

Query:    39 YEDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRW 98
             Y+DI ++ +LFW  L  FH+S   KFK+P VGGK+LDLHRLF EVTSRGGL KVI+DRR 
Sbjct:    30 YQDIVRNPELFWEMLRDFHESSDKKFKIPIVGGKSLDLHRLFNEVTSRGGLEKVIKDRRC 89

Query:    99 KEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAPSSS 143
             KEV+  FNF TTIT+++FVLRK YL +L+ FE +YYF  +AP S+
Sbjct:    90 KEVIDAFNFKTTITNSAFVLRKSYLKMLFEFEHLYYF--QAPLST 132

GO:0003677 "DNA binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

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

GO:0009507 "chloroplast" evidence=IDA

TAIR|locus:2010587 AT1G04880 [Arabidopsis thaliana (taxid:3702)]

 Score = 330 (121.2 bits), Expect = 7.9e-30, P = 7.9e-30
 Identities = 67/153 (43%), Positives = 88/153 (57%)

Query:    35 PTAKYEDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIR 94
             P A YE +     LF  +LE  H   G KF VP +GG+ LDLH+LFVEVTSRGG+ K++ 
Sbjct:    21 PEATYEAVVADPRLFMTSLERLHSLLGTKFMVPIIGGRDLDLHKLFVEVTSRGGINKILN 80

Query:    95 DRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFRK--EAPSSSMPDAVSGSS 152
             +RRWKEV   F FP T T+AS+VLRKYY SLL ++EQ+Y+FR   + P  SM    +   
Sbjct:    81 ERRWKEVTATFVFPPTATNASYVLRKYYFSLLNNYEQIYFFRSNGQIPPDSMQSPSARPC 140

Query:   153 LDNGSASPEEGSTINQLGGQGMFHPRHFIHSSL 185
                G+  P +         Q   +   F+  SL
Sbjct:   141 FIQGAIRPSQELQALTFTPQPKINTAEFLGGSL 173

GO:0003677 "DNA binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0006333 "chromatin assembly or disassembly" evidence=RCA

TAIR|locus:2199824 AT1G76110 [Arabidopsis thaliana (taxid:3702)]

 Score = 317 (116.6 bits), Expect = 1.9e-28, P = 1.9e-28
 Identities = 58/109 (53%), Positives = 75/109 (68%)

Query:    32 YPPPTAKYEDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGK 91
             YP P A +E + + S +FW TL  FH     KF +P +GGK LDLH L+VEVT RGG  K
Sbjct:    27 YPEPLALHEVVVKDSSVFWDTLRRFHSIMSTKFMIPVIGGKELDLHVLYVEVTRRGGYEK 86

Query:    92 VIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAP 140
             V+ +++W+EV  VF F  T TSASFVLRK+YL+LL+H+EQV+ F    P
Sbjct:    87 VVVEKKWREVGGVFRFSATTTSASFVLRKHYLNLLFHYEQVHLFTARGP 135

GO:0003677 "DNA binding" evidence=IEA;IDA

GO:0005634 "nucleus" evidence=ISM;IDA

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

GO:0006355 "regulation of transcription, DNA-dependent" evidence=RCA;TAS

GO:0000165 "MAPK cascade" evidence=RCA

GO:0006333 "chromatin assembly or disassembly" evidence=RCA

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0009617 "response to bacterium" evidence=RCA

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=RCA

GO:0009867 "jasmonic acid mediated signaling pathway" evidence=RCA

GO:0009965 "leaf morphogenesis" evidence=RCA

GO:0010310 "regulation of hydrogen peroxide metabolic process" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

GO:0030154 "cell differentiation" evidence=RCA

GO:0031348 "negative regulation of defense response" evidence=RCA

GO:0035304 "regulation of protein dephosphorylation" evidence=RCA

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

UNIPROTKB|E1C9H0 ARID2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 221 (82.9 bits), Expect = 4.1e-17, Sum P(2) = 4.1e-17
 Identities = 43/91 (47%), Positives = 59/91 (64%)

Query:    49 FWATLEAFHKSFGDKFK-VPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNF 107
             F   L  FH S G  FK +P VGGK LDLH L+  VT+ GG GKV    +W E+V  FNF
Sbjct:    19 FLDELRQFHHSRGSPFKKIPVVGGKELDLHALYTRVTTLGGFGKVSEKNQWGEIVEEFNF 78

Query:   108 PTTITSASFVLRKYYLSLLYHFEQVYYFRKE 138
             P + ++A+F L++YYL  L  +E+V++F +E
Sbjct:    79 PRSCSNAAFALKQYYLRYLEKYEKVHHFGEE 109

GO:0003677 "DNA binding" evidence=IEA

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

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006337 "nucleosome disassembly" evidence=IEA

UNIPROTKB|Q68CP9 ARID2 "AT-rich interactive domain-containing protein 2" [Homo sapiens (taxid:9606)]

 Score = 212 (79.7 bits), Expect = 1.1e-16, Sum P(2) = 1.1e-16
 Identities = 44/106 (41%), Positives = 64/106 (60%)

Query:    34 PPTAKYEDIAQSSDLFWATLEAFHKSFGDKFK-VPTVGGKALDLHRLFVEVTSRGGLGKV 92
             PP  + + +A     F   L  FH S G  FK +P VGGK LDLH L+  VT+ GG  KV
Sbjct:     9 PPDERRKGLA-----FLDELRQFHHSRGSPFKKIPAVGGKELDLHGLYTRVTTLGGFAKV 63

Query:    93 IRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFRKE 138
                 +W E+V  FNFP + ++A+F L++YYL  L  +E+V++F ++
Sbjct:    64 SEKNQWGEIVEEFNFPRSCSNAAFALKQYYLRYLEKYEKVHHFGED 109

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

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

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

GO:0016568 "chromatin modification" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0006337 "nucleosome disassembly" evidence=IDA

ZFIN|ZDB-GENE-030131-6311 arid2 "AT rich interactive domain 2 (ARID, RFX-like)" [Danio rerio (taxid:7955)]

 Score = 201 (75.8 bits), Expect = 1.4e-14, P = 1.4e-14
 Identities = 43/91 (47%), Positives = 57/91 (62%)

Query:    49 FWATLEAFHKSFGDKFK-VPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNF 107
             F   L  FH S G  FK VP VGGK LDL  L+V V S GG  KV    +W E+V  F F
Sbjct:    19 FLDELRQFHHSRGSPFKKVPVVGGKELDLGALYVRVVSLGGFAKVSDKNQWVELVEDFQF 78

Query:   108 PTTITSASFVLRKYYLSLLYHFEQVYYFRKE 138
             P + ++A+FVL++YYL  L  +E+V++F +E
Sbjct:    79 PRSCSNAAFVLKQYYLRYLEKYEKVHHFGEE 109

GO:0003677 "DNA binding" evidence=IEA

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

GO:0005622 "intracellular" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

MGI|MGI:1328360 Arid3a "AT rich interactive domain 3A (BRIGHT-like)" [Mus musculus (taxid:10090)]

 Score = 154 (59.3 bits), Expect = 1.8e-12, Sum P(2) = 1.8e-12
 Identities = 29/66 (43%), Positives = 43/66 (65%)

Query:    65 KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLS 124
             ++P +  + LDL  L+V VT +GGL +VI  + W+E+    N PT+ITSA+F LR  Y+ 
Sbjct:   266 RIPIMAKQVLDLFMLYVLVTEKGGLVEVINKKLWREITKGLNLPTSITSAAFTLRTQYMK 325

Query:   125 LLYHFE 130
              LY +E
Sbjct:   326 YLYPYE 331

GO:0003677 "DNA binding" evidence=IDA

GO:0003682 "chromatin binding" evidence=IDA

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

GO:0005515 "protein binding" evidence=IPI

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IEA

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

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

GO:0042803 "protein homodimerization activity" evidence=IPI

GO:0045121 "membrane raft" evidence=ISO

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IGI

UNIPROTKB|E1BGZ3 ARID3A "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 154 (59.3 bits), Expect = 3.6e-12, Sum P(2) = 3.6e-12
 Identities = 29/66 (43%), Positives = 43/66 (65%)

Query:    65 KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLS 124
             ++P +  + LDL  L+V VT +GGL +VI  + W+E+    N PT+ITSA+F LR  Y+ 
Sbjct:   264 RIPIMAKQVLDLFMLYVLVTEKGGLVEVINKKLWREITKGLNLPTSITSAAFTLRTQYMK 323

Query:   125 LLYHFE 130
              LY +E
Sbjct:   324 YLYPYE 329

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0045121 "membrane raft" evidence=IEA

GO:0042803 "protein homodimerization activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

GO:0003682 "chromatin binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|E2RFL8 ARID2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 170 (64.9 bits), Expect = 5.5e-12, Sum P(2) = 5.5e-12
 Identities = 39/106 (36%), Positives = 58/106 (54%)

Query:    34 PPTAKYEDIAQSSDLFWATLEAFHKSFGDKFKV-PTVGGKALDLHRLFVEVTSRGGLGKV 92
             PP  + + +A     F   L  FH S G   ++ P VGG   DLH L  E    GG  KV
Sbjct:     9 PPDERRKGLA-----FLDELRQFHHSRGSPCQIIPAVGGNPPDLHGLKPESPPVGGFAKV 63

Query:    93 IRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFRKE 138
                 +W E+V  FNFP + ++A+F L++YYL  L  +E+V++F ++
Sbjct:    64 SEKNQWGEIVEEFNFPRSCSNAAFALKQYYLRYLEKYEKVHHFGED 109

GO:0006337 "nucleosome disassembly" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

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

GO:0005622 "intracellular" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: HMGB904 high mobility group family (301 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	187
smart00501	93	smart00501, BRIGHT, BRIGHT, ARID (A/T-rich interac	9e-31
smart01014	88	smart01014, ARID, ARID/BRIGHT DNA binding domain	4e-27
pfam01388	90	pfam01388, ARID, ARID/BRIGHT DNA binding domain	1e-23

>gnl|CDD|128777 smart00501, BRIGHT, BRIGHT, ARID (A/T-rich interaction domain) domain

 Score =  107 bits (269), Expect = 9e-31
 Identities = 35/93 (37%), Positives = 50/93 (53%), Gaps = 1/93 (1%)

Query: 44  QSSDLFWATLEAFHKSFGDK-FKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVV 102
           +   LF   L  F +  G    K+P +GGK LDL+RL+  V  RGG  +V +D++WKE+ 
Sbjct: 1   RERVLFLDRLYKFMEERGSPLKKIPVIGGKPLDLYRLYRLVQERGGYDQVTKDKKWKEIA 60

Query: 103 VVFNFPTTITSASFVLRKYYLSLLYHFEQVYYF 135
                P T TSA+  LRK+Y   L  +E+    
Sbjct: 61  RELGIPDTSTSAASSLRKHYERYLLPYERFLRG 93

DNA-binding domain containing a helix-turn-helix structure. Length = 93

>gnl|CDD|198082 smart01014, ARID, ARID/BRIGHT DNA binding domain

 Score = 98.1 bits (245), Expect = 4e-27
 Identities = 34/85 (40%), Positives = 47/85 (55%), Gaps = 1/85 (1%)

Query: 47  DLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVF 105
           +LF   L  F +  G    K+P +GGK LDL+RL+  V  RGG  KV + ++WK+V    
Sbjct: 4   ELFLDRLRKFMEKRGTPLDKIPVIGGKPLDLYRLYRAVQKRGGFDKVTKKKKWKQVAREL 63

Query: 106 NFPTTITSASFVLRKYYLSLLYHFE 130
             P + TSA   LRK+Y   L  +E
Sbjct: 64  GIPPSATSAGTSLRKHYEKYLLPYE 88

Members of the recently discovered ARID (AT-rich interaction domain) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans. ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. Length = 88

>gnl|CDD|216473 pfam01388, ARID, ARID/BRIGHT DNA binding domain

 Score = 88.8 bits (221), Expect = 1e-23
 Identities = 33/85 (38%), Positives = 45/85 (52%), Gaps = 1/85 (1%)

Query: 47  DLFWATLEAFHKSFG-DKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVF 105
           + F   L  F +  G    K+P +GGK LDL++L+  V   GG  KV + ++W+EV    
Sbjct: 6   ENFLDRLAKFMERRGTPLDKIPVIGGKPLDLYKLYRLVQKLGGFEKVTKSKKWREVAQKL 65

Query: 106 NFPTTITSASFVLRKYYLSLLYHFE 130
             P TITSAS  LR  Y   L  +E
Sbjct: 66  GIPPTITSASQELRSIYEKYLLPYE 90

This domain is know as ARID for AT-Rich Interaction Domain, and also known as the BRIGHT domain. Length = 90

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	187
smart00501	93	BRIGHT BRIGHT, ARID (A/T-rich interaction domain)	99.96
PF01388	92	ARID: ARID/BRIGHT DNA binding domain; InterPro: IP	99.94
KOG2744	512	consensus DNA-binding proteins Bright/BRCAA1/RBP1	99.82
KOG2510	532	consensus SWI-SNF chromatin-remodeling complex pro	99.5
smart00545	42	JmjN Small domain found in the jumonji family of t	95.53
PF00249	48	Myb_DNA-binding: Myb-like DNA-binding domain; Inte	89.11

>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain

Probab=99.96  E-value=6.6e-29  Score=183.03  Aligned_cols=91  Identities=40%  Similarity=0.652  Sum_probs=87.2

Q ss_pred             hcHHHHHHHHHHHHHhcCCCC-CCCeeCCeecchhhHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHH
Q 029808           44 QSSDLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYY  122 (187)
Q Consensus        44 ~~~~~Fl~~L~~F~~~rG~pl-~~P~I~gk~VDLy~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y  122 (187)
                      ++++.|+++|.+||+++|+++ ++|.|+|++||||+||.+|+++|||++|+++++|.+||++||+++++++++..||++|
T Consensus         1 ~~~~~F~~~L~~F~~~~g~~~~~~P~i~g~~vdL~~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y   80 (93)
T smart00501        1 RERVLFLDRLYKFMEERGSPLKKIPVIGGKPLDLYRLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHY   80 (93)
T ss_pred             CcHHHHHHHHHHHHHHcCCcCCcCCeECCEeCcHHHHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHH
Confidence            478999999999999999998 7999999999999999999999999999999999999999999988899999999999


Q ss_pred             HHhHHHHHHHHH
Q 029808          123 LSLLYHFEQVYY  134 (187)
Q Consensus       123 ~kyLl~fE~~~~  134 (187)
                      .+||++||+++.
T Consensus        81 ~k~L~~yE~~~~   92 (93)
T smart00501       81 ERYLLPFERFLR   92 (93)
T ss_pred             HHHhHHHHHHhh
Confidence            999999999863

DNA-binding domain containing a helix-turn-helix structure

>PF01388 ARID: ARID/BRIGHT DNA binding domain; InterPro: IPR001606 Members of the recently discovered ARID (AT-rich interaction domain; also known as BRIGHT domain)) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans

Probab=99.94  E-value=1.7e-27  Score=174.31  Aligned_cols=89  Identities=37%  Similarity=0.693  Sum_probs=82.2

Q ss_pred             hhhcHHHHHHHHHHHHHhcCCCC-CCCeeCCeecchhhHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHH
Q 029808           42 IAQSSDLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRK  120 (187)
Q Consensus        42 ~~~~~~~Fl~~L~~F~~~rG~pl-~~P~I~gk~VDLy~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~  120 (187)
                      .+++++.|++.|.+||+++|+++ ++|.|+|++||||+||.+|+++|||++|+++++|.+||++||+++..++.+..||+
T Consensus         3 ~~~~~~~F~~~L~~f~~~~g~~~~~~P~i~g~~vDL~~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~   82 (92)
T PF01388_consen    3 NTREREQFLEQLREFHESRGTPIDRPPVIGGKPVDLYKLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQ   82 (92)
T ss_dssp             SCHHHHHHHHHHHHHHHHTTSSSSS-SEETTSE-SHHHHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHcCCCCCCCCcCCCEeCcHHHHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHH
Confidence            35789999999999999999997 79999999999999999999999999999999999999999999988888899999


Q ss_pred             HHHHhHHHHH
Q 029808          121 YYLSLLYHFE  130 (187)
Q Consensus       121 ~Y~kyLl~fE  130 (187)
                      +|++||++||
T Consensus        83 ~Y~~~L~~fE   92 (92)
T PF01388_consen   83 HYEKYLLPFE   92 (92)
T ss_dssp             HHHHHTHHHH
T ss_pred             HHHHHhHhhC
Confidence            9999999998

ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure []. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. The ARID consensus and other structural features are common to both p270 and yeast SWI1, suggesting that p270 is a human counterpart of SWI1 []. The approximately 100-residue ARID sequence is present in a series of proteins strongly implicated in the regulation of cell growth, development, and tissue-specific gene expression. Although about a dozen ARID proteins can be identified from database searches, to date, only Bright (a regulator of B-cell-specific gene expression), dead ringer (a Drosophila melanogaster gene product required for normal development), and MRF-2 (which represses expression from the Cytomegalovirus enhancer) have been analyzed directly in regard to their DNA binding properties. Each binds preferentially to AT-rich sites. In contrast, p270 shows no sequence preference in its DNA binding activity, thereby demonstrating that AT-rich binding is not an intrinsic property of ARID domains and that ARID family proteins may be involved in a wider range of DNA interactions [].; GO: 0003677 DNA binding, 0005622 intracellular; PDB: 1C20_A 1KQQ_A 2JRZ_A 2LM1_A 2YQE_A 2JXJ_A 2EH9_A 2CXY_A 2LI6_A 1KN5_A ....

>KOG2744 consensus DNA-binding proteins Bright/BRCAA1/RBP1 and related proteins containing BRIGHT domain [Transcription]

Probab=99.82  E-value=5.7e-20  Score=171.34  Aligned_cols=105  Identities=46%  Similarity=0.769  Sum_probs=96.4

Q ss_pred             hhhcHHHHHHHHHHHHHhcCCCCC-CCeeCCeecchhhHHHHHHhhCCccccccccChHHHHHHhCCCC-CCCcHHHHHH
Q 029808           42 IAQSSDLFWATLEAFHKSFGDKFK-VPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPT-TITSASFVLR  119 (187)
Q Consensus        42 ~~~~~~~Fl~~L~~F~~~rG~pl~-~P~I~gk~VDLy~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~-~~t~a~~~Lk  119 (187)
                      ...+++.|+++|+.||+++|++++ +|+|+|+++|||+||.+|+++||+++|+.+++|++|...|.|+. ++|++++.||
T Consensus       160 ~~~~~eeF~~dl~~f~~~~~~~~~~iPii~~~~ldL~~Ly~lV~s~GG~~~V~~~k~Wrev~~~l~~pt~tiTsaaf~lr  239 (512)
T KOG2744|consen  160 VPKSSEEFMEDLRRFMKKRGTKVKSIPIIGGQPLDLHWLYALVTSRGGLDEVTNKKLWREVIDGLNFPTPTITSAAFTLR  239 (512)
T ss_pred             ccccHHHHHHHHHHHHHHhCCcceeccccCCCcchHHHHHHHHhcCCchhHhhhhhhHHHHhccccCCCcccchHHHHHH
Confidence            455999999999999999999995 99999999999999999999999999999999999999999999 9999999999


Q ss_pred             HHHHHhHHHHHHHHHhhccCCCCCCCC
Q 029808          120 KYYLSLLYHFEQVYYFRKEAPSSSMPD  146 (187)
Q Consensus       120 ~~Y~kyLl~fE~~~~~~~~~~~~~~~~  146 (187)
                      +.|.|+|++||+.+.+....+.+.|..
T Consensus       240 ~~y~K~L~~ye~~~~~~~~~pln~p~~  266 (512)
T KOG2744|consen  240 KQYLKLLFEYECEFEKNRHVPLNSPAE  266 (512)
T ss_pred             HHHHHHHHHHHHHHHHhccCCCCCccc
Confidence            999999999999998775444444443

>KOG2510 consensus SWI-SNF chromatin-remodeling complex protein [Chromatin structure and dynamics]

Probab=99.50  E-value=5.3e-14  Score=129.52  Aligned_cols=92  Identities=30%  Similarity=0.537  Sum_probs=86.1

Q ss_pred             hcHHHHHHHHHHHHHhcCCCC-CCCeeCCeecchhhHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHH
Q 029808           44 QSSDLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYY  122 (187)
Q Consensus        44 ~~~~~Fl~~L~~F~~~rG~pl-~~P~I~gk~VDLy~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y  122 (187)
                      .+++.+++.|+.|++++.+++ .+|.++.|+||||+||..|..+||+.+|+++|  +++|.-||     .++++.||++|
T Consensus       292 p~r~~wvDR~raF~ee~~Sp~t~~p~~gakPldl~rlYvsvke~gg~~~v~knk--rd~a~~lg-----ssaa~~l~k~y  364 (532)
T KOG2510|consen  292 PERKEWVDRLRAFTEERASPMTNLPAVGAKPLDLYRLYVSVKEIGGLTQVNKNK--RDLATNLG-----SSAASSLKKQY  364 (532)
T ss_pred             cchhhHHHHHHHHHHhhcCcccccccccccchhHHHHHHHHHHhccceeeccch--hhhhhccc-----hHHHHHHHHHH
Confidence            579999999999999999998 58999999999999999999999999999998  99999888     56899999999


Q ss_pred             HHhHHHHHHHHHhhccCCCC
Q 029808          123 LSLLYHFEQVYYFRKEAPSS  142 (187)
Q Consensus       123 ~kyLl~fE~~~~~~~~~~~~  142 (187)
                      .+||+.||+...+++++++.
T Consensus       365 ~~~lf~fec~f~Rg~e~p~~  384 (532)
T KOG2510|consen  365 IQYLFAFECKFERGEEPPPD  384 (532)
T ss_pred             HHHHHhhceeeeccCCCCHH
Confidence            99999999999999988763

>smart00545 JmjN Small domain found in the jumonji family of transcription factors

Probab=95.53  E-value=0.0051  Score=39.56  Aligned_cols=16  Identities=6%  Similarity=0.065  Sum_probs=14.5

Q ss_pred             CCCCccccCCCCCCCC
Q 029808           19 SNSNNNNSKASSYYPP   34 (187)
Q Consensus        19 ~~sgi~~i~pp~~w~P   34 (187)
                      -.+|||||+||++|+|
T Consensus        27 ~~yGi~KIvPP~~w~p   42 (42)
T smart00545       27 EKYGICKVVPPKSWKP   42 (42)
T ss_pred             hhCCEEEEECCCCCCc
Confidence            4689999999999987

To date, this domain always co-occurs with the JmjC domain (although the reverse is not true).

>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins

Probab=89.11  E-value=0.94  Score=28.83  Aligned_cols=39  Identities=23%  Similarity=0.310  Sum_probs=28.2

Q ss_pred             hhHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHHHHhH
Q 029808           77 HRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLL  126 (187)
Q Consensus        77 y~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y~kyL  126 (187)
                      -.|..+|...|.-       .|..||..++...    .+.+++..|.++|
T Consensus        10 ~~l~~~v~~~g~~-------~W~~Ia~~~~~~R----t~~qc~~~~~~~~   48 (48)
T PF00249_consen   10 EKLLEAVKKYGKD-------NWKKIAKRMPGGR----TAKQCRSRYQNLL   48 (48)
T ss_dssp             HHHHHHHHHSTTT-------HHHHHHHHHSSSS----THHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCCc-------HHHHHHHHcCCCC----CHHHHHHHHHhhC
Confidence            3566777776652       5999999999222    2448999999876

These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	187
2kk0_A	145	Solution Structure Of Dead Ringer-Like Protein 1 (A		1e-11
1c20_A	128	Solution Structure Of The Dna-Binding Domain From T		7e-10
1kqq_A	139	Solution Structure Of The Dead Ringer Arid-Dna Comp		3e-09
1ryu_A	120	Solution Structure Of The Swi1 Arid Length = 120		6e-08
2cxy_A	125	Crystal Structure Of The Hbaf250b At-Rich Interacti		5e-07
2lm1_A	107	Solution Nmr Structure Of Lysine-Specific Demethyla		4e-06
2jrz_A	117	Solution Structure Of The BrightARID DOMAIN FROM TH		6e-06
2yqe_A	100	Solution Structure Of The Arid Domain Of Jarid1d Pr		2e-05

>pdb|2KK0|A Chain A, Solution Structure Of Dead Ringer-Like Protein 1 (At-Rich Interactive Domain-Containing Protein 3a) From Homo Sapiens, Northeast Structural Genomics Consortium (Nesg) Target Hr4394c Length = 145

Iteration: 1
 Score = 65.9 bits (159), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 29/66 (43%), Positives = 43/66 (65%)
Query: 65  KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLS 124
           ++P +  + LDL  L+V VT +GGL +VI  + W+E+    N PT+ITSA+F LR  Y+ 
Sbjct: 55  RIPIMAKQVLDLFMLYVLVTEKGGLVEVINKKLWREITKGLNLPTSITSAAFTLRTQYMK 114
Query: 125 LLYHFE 130
            LY +E
Sbjct: 115 YLYPYE 120

>pdb|1C20|A Chain A, Solution Structure Of The Dna-Binding Domain From The Dead Ringer Protein Length = 128

Iteration: 1
 Score = 60.1 bits (144), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 26/66 (39%), Positives = 42/66 (63%)
Query: 65  KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLS 124
           ++P +    LDL+ L+  V +RGGL  VI  + W+E++   + P++ITSA+F LR  Y+ 
Sbjct: 43  RLPIMAKSVLDLYELYNLVIARGGLVDVINKKLWQEIIKGLHLPSSITSAAFTLRTQYMK 102
Query: 125 LLYHFE 130
            LY +E
Sbjct: 103 YLYPYE 108

>pdb|1KQQ|A Chain A, Solution Structure Of The Dead Ringer Arid-Dna Complex Length = 139

Iteration: 1
 Score = 57.8 bits (138), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 25/66 (37%), Positives = 41/66 (62%)
Query: 65  KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLS 124
           ++P +    LDL+ L+  V +RGGL  VI  + W+E++   + P++ITSA+  LR  Y+ 
Sbjct: 45  RLPIMAKSVLDLYELYNLVIARGGLVDVINKKLWQEIIKGLHLPSSITSAALTLRTQYMK 104
Query: 125 LLYHFE 130
            LY +E
Sbjct: 105 YLYPYE 110

>pdb|1RYU|A Chain A, Solution Structure Of The Swi1 Arid Length = 120

Iteration: 1
 Score = 53.9 bits (128), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 28/65 (43%), Positives = 42/65 (64%), Gaps = 1/65 (1%)
Query: 66  VPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSL 125
           +P VG K LDL+RL+V V   GGL +V ++++W+E+    N   T +SA+  L+K Y+  
Sbjct: 42  LPAVGRKPLDLYRLYVSVKEIGGLTQVNKNKKWRELATNLNV-GTSSSAASSLKKQYIQC 100
Query: 126 LYHFE 130
           LY FE
Sbjct: 101 LYAFE 105

>pdb|2CXY|A Chain A, Crystal Structure Of The Hbaf250b At-Rich Interaction Domain (Arid) Length = 125

Iteration: 1
 Score = 50.4 bits (119), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 29/75 (38%), Positives = 44/75 (58%), Gaps = 1/75 (1%)
Query: 66  VPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSL 125
           +P VG K LDL RL+V V   GGL +V ++++W+E+    N   T +SA+  L+K Y+  
Sbjct: 43  LPAVGKKPLDLFRLYVCVKEIGGLAQVNKNKKWRELATNLNV-GTSSSAASSLKKQYIQY 101
Query: 126 LYHFEQVYYFRKEAP 140
           L+ FE      +E P
Sbjct: 102 LFAFECKIERGEEPP 116

>pdb|2LM1|A Chain A, Solution Nmr Structure Of Lysine-Specific Demethylase Lid From Drosophila Melanogaster, Northeast Structural Genomics Consortium Target Fr824d Length = 107

Iteration: 1
 Score = 47.8 bits (112), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 26/82 (31%), Positives = 42/82 (51%), Gaps = 1/82 (1%)
Query: 49  FWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFP 108
           F   +  F +  G   K+P V  KALDL+ L   V   GG+ +  +DR+W +V     +P
Sbjct: 19  FLDQIAKFWELQGSSLKIPMVERKALDLYTLHRIVQEEGGMEQTTKDRKWAKVANRMQYP 78
Query: 109 TTITSASFVLRKYYLSLLYHFE 130
           ++  S    L+ +Y  +L+ FE
Sbjct: 79  SS-KSVGATLKAHYERILHPFE 99

>pdb|2JRZ|A Chain A, Solution Structure Of The BrightARID DOMAIN FROM THE HUMAN Jarid1c Protein Length = 117

Iteration: 1
 Score = 47.0 bits (110), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 25/75 (33%), Positives = 36/75 (48%), Gaps = 1/75 (1%)
Query: 56  FHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSAS 115
           F +  G   K+P V  + LDL+ L   V   GG   + +DRRW  V    N+P      S
Sbjct: 22  FWEIQGSSLKIPNVERRILDLYSLSKIVVEEGGYEAICKDRRWARVAQRLNYPPGKNIGS 81
Query: 116 FVLRKYYLSLLYHFE 130
             LR +Y  ++Y +E
Sbjct: 82  L-LRSHYERIVYPYE 95

>pdb|2YQE|A Chain A, Solution Structure Of The Arid Domain Of Jarid1d Protein Length = 100

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/78 (32%), Positives = 38/78 (48%), Gaps = 1/78 (1%)
Query: 53  LEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTIT 112
           +  F +  G   K+P V  K LDL+ L   V   GG   + +DRRW  V    ++P    
Sbjct: 18  IAKFWEIQGSSLKIPNVERKILDLYSLSKIVIEEGGYEAICKDRRWARVAQRLHYPPGKN 77
Query: 113 SASFVLRKYYLSLLYHFE 130
             S +LR +Y  ++Y +E
Sbjct: 78  IGS-LLRSHYERIIYPYE 94

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	187
2rq5_A	121	Protein jumonji; developmental protein, nucleus, r	5e-31
1ig6_A	107	MRF-2, modulator recognition factor 2; DNA binding	2e-27
2eqy_A	122	RBP2 like, jumonji, at rich interactive domain 1B;	2e-27
2lm1_A	107	Lysine-specific demethylase LID; structural genomi	4e-26
2cxy_A	125	BAF250B subunit, HBAF250B; DNA-binding domain, str	2e-25
2jrz_A	117	Histone demethylase jarid1C; bright/ARID domain, h	1e-24
2jxj_A	96	Histone demethylase jarid1A; ARID domain, chromati	2e-24
1c20_A	128	DEAD ringer protein; DNA-binding domain, ARID, AT-	1e-23
2kk0_A	145	AT-rich interactive domain-containing protein 3A;	2e-23
1kkx_A	123	Transcription regulatory protein ADR6; ARID, DNA-b	2e-20
2li6_A	116	SWI/SNF chromatin-remodeling complex subunit SWI1;	6e-19

>2rq5_A Protein jumonji; developmental protein, nucleus, repressor, transcription, transcription regulation; NMR {Mus musculus} Length = 121

 Score =  108 bits (271), Expect = 5e-31
 Identities = 19/98 (19%), Positives = 39/98 (39%), Gaps = 1/98 (1%)

Query: 46  SDLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVV 104
           +    A ++   +S G    ++P +GG  LDL   F  +   GG+ +V   ++W ++  +
Sbjct: 13  NVQRLACIKKHLRSQGITMDELPLIGGCELDLACFFRLINEMGGMQQVTDLKKWNKLADM 72

Query: 105 FNFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAPSS 142
              P T       L++ Y   L  ++ +          
Sbjct: 73  LRIPKTAQDRLAKLQEAYCQYLLSYDSLSPEEHRRLEK 110

>1ig6_A MRF-2, modulator recognition factor 2; DNA binding protein, DNA-binding motif, protein-DNA interaction; NMR {Homo sapiens} SCOP: a.4.3.1 PDB: 2oeh_A Length = 107

 Score = 98.8 bits (246), Expect = 2e-27
 Identities = 21/99 (21%), Positives = 40/99 (40%), Gaps = 1/99 (1%)

Query: 47  DLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVF 105
             F   L  + K       ++P +G K ++L  +F      GG   +   R+WK +    
Sbjct: 5   QAFLVALYKYMKERKTPIERIPYLGFKQINLWTMFQAAQKLGGYETITARRQWKHIYDEL 64

Query: 106 NFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAPSSSM 144
                 TSA+   R++Y  L+  +E+     ++ P   +
Sbjct: 65  GGNPGSTSAATCTRRHYERLILPYERFIKGEEDKPLPPI 103

>2eqy_A RBP2 like, jumonji, at rich interactive domain 1B; ARID domain, structural genomics, NPPSFA; NMR {Mus musculus} Length = 122

 Score = 99.3 bits (247), Expect = 2e-27
 Identities = 23/116 (19%), Positives = 44/116 (37%), Gaps = 3/116 (2%)

Query: 39  YEDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRW 98
            E   +    F   +  + +  G   K+P V  K LDL +L   V   GG   V +DR+W
Sbjct: 7   GEAQTRVKLNFLDQIAKYWELQGSTLKIPHVERKILDLFQLNKLVAEEGGFAVVCKDRKW 66

Query: 99  KEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAPSSSMPDAVSGSSLD 154
            ++     F     +    +R +Y  +L  +    +   ++        ++  + D
Sbjct: 67  TKIATKMGFAPG-KAVGSHIRGHYERILNPYNL--FLSGDSLRCLQKPNLTSDTKD 119

>2lm1_A Lysine-specific demethylase LID; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Drosophila melanogaster} Length = 107

 Score = 95.3 bits (237), Expect = 4e-26
 Identities = 27/92 (29%), Positives = 44/92 (47%), Gaps = 1/92 (1%)

Query: 40  EDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWK 99
           E   +    F   +  F +  G   K+P V  KALDL+ L   V   GG+ +  +DR+W 
Sbjct: 10  EAKTRVKLNFLDQIAKFWELQGSSLKIPMVERKALDLYTLHRIVQEEGGMEQTTKDRKWA 69

Query: 100 EVVVVFNFPTTITSASFVLRKYYLSLLYHFEQ 131
           +V     +P++  S    L+ +Y  +L+ FE 
Sbjct: 70  KVANRMQYPSS-KSVGATLKAHYERILHPFEV 100

>2cxy_A BAF250B subunit, HBAF250B; DNA-binding domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.60A {Homo sapiens} PDB: 2eh9_A 1ryu_A Length = 125

 Score = 94.4 bits (234), Expect = 2e-25
 Identities = 36/115 (31%), Positives = 56/115 (48%), Gaps = 3/115 (2%)

Query: 28  ASSYYPPPTAKYEDIAQS-SDLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTS 85
           + S     T  YE   +    L+      F +  G     +P VG K LDL RL+V V  
Sbjct: 3   SGSSGEKITKVYELGNEPERKLWVDRYLTFMEERGSPVSSLPAVGKKPLDLFRLYVCVKE 62

Query: 86  RGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAP 140
            GGL +V ++++W+E+    N  T+ +SA+  L+K Y+  L+ FE      +E P
Sbjct: 63  IGGLAQVNKNKKWRELATNLNVGTS-SSAASSLKKQYIQYLFAFECKIERGEEPP 116

>2jrz_A Histone demethylase jarid1C; bright/ARID domain, helical, structural genomics, structural genomics consortium, SGC, oxidoreductase; NMR {Homo sapiens} PDB: 2yqe_A Length = 117

 Score = 91.9 bits (228), Expect = 1e-24
 Identities = 27/107 (25%), Positives = 45/107 (42%), Gaps = 2/107 (1%)

Query: 40  EDIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWK 99
           E   +    +   +  F +  G   K+P V  + LDL+ L   V   GG   + +DRRW 
Sbjct: 6   EAQTRVKLNYLDQIAKFWEIQGSSLKIPNVERRILDLYSLSKIVVEEGGYEAICKDRRWA 65

Query: 100 EVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAPSSSMPD 146
            V    N+P    +   +LR +Y  ++Y +E  Y        ++ P 
Sbjct: 66  RVAQRLNYPPG-KNIGSLLRSHYERIVYPYEM-YQSGANLVCNTRPF 110

>2jxj_A Histone demethylase jarid1A; ARID domain, chromatin regulator, developmental protein, dioxygenase, iron, metal-binding, nucleus, oxidoreductase; NMR {Homo sapiens} Length = 96

 Score = 90.3 bits (224), Expect = 2e-24
 Identities = 24/83 (28%), Positives = 39/83 (46%), Gaps = 1/83 (1%)

Query: 49  FWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFP 108
           F   L  F +  G   K+P V  K LDL+ L   V S+GG   V ++++W +V     + 
Sbjct: 11  FLDQLAKFWELQGSTLKIPVVERKILDLYALSKIVASKGGFEMVTKEKKWSKVGSRLGYL 70

Query: 109 TTITSASFVLRKYYLSLLYHFEQ 131
                   +L+ +Y  +LY +E 
Sbjct: 71  PG-KGTGSLLKSHYERILYPYEL 92

>1c20_A DEAD ringer protein; DNA-binding domain, ARID, AT-rich interaction domain, DNA- binding protein; NMR {Drosophila melanogaster} SCOP: a.4.3.1 PDB: 1kqq_A Length = 128

 Score = 89.4 bits (221), Expect = 1e-23
 Identities = 32/106 (30%), Positives = 55/106 (51%), Gaps = 3/106 (2%)

Query: 46  SDLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVV 104
              F   L +F +  G    ++P +    LDL+ L+  V +RGGL  VI  + W+E++  
Sbjct: 23  RKEFLDDLFSFMQKRGTPINRLPIMAKSVLDLYELYNLVIARGGLVDVINKKLWQEIIKG 82

Query: 105 FNFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAPSSSMPDAVSG 150
            + P++ITSA+F LR  Y+  LY +E     +  +  + +  A+ G
Sbjct: 83  LHLPSSITSAAFTLRTQYMKYLYPYEC--EKKNLSTPAELQAAIDG 126

>2kk0_A AT-rich interactive domain-containing protein 3A; DEAD ringer, AT-rich interaction domain, NESG, ARID, cytopla binding, nucleus, phosphoprotein; NMR {Homo sapiens} Length = 145

 Score = 89.5 bits (221), Expect = 2e-23
 Identities = 38/139 (27%), Positives = 63/139 (45%), Gaps = 4/139 (2%)

Query: 16  NSNSNSNNNNSKASSYYPPPTAKYEDIAQSS-DLFWATLEAFHKSFGDKFKVP-TVGGKA 73
           + + +S+  +    +Y       YE         F   L +F +  G        +  + 
Sbjct: 4   HHHHHSHMPDHGDWTYEEQFKQLYELDGDPKRKEFLDDLFSFMQKRGTPVNRIPIMAKQV 63

Query: 74  LDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHFEQVY 133
           LDL  L+V VT +GGL +VI  + W+E+    N PT+ITSA+F LR  Y+  LY +E   
Sbjct: 64  LDLFMLYVLVTEKGGLVEVINKKLWREITKGLNLPTSITSAAFTLRTQYMKYLYPYEC-- 121

Query: 134 YFRKEAPSSSMPDAVSGSS 152
             R  +  + +  A+  + 
Sbjct: 122 EKRGLSNPNELQAAIDSNR 140

>1kkx_A Transcription regulatory protein ADR6; ARID, DNA-binding domain, DNA binding protein; NMR {Saccharomyces cerevisiae} SCOP: a.4.3.1 PDB: 1kn5_A Length = 123

 Score = 81.2 bits (200), Expect = 2e-20
 Identities = 22/108 (20%), Positives = 41/108 (37%), Gaps = 7/108 (6%)

Query: 47  DLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVF 105
           +LF  +L    K        +P +G + ++L  L++ V   GG  +V R ++W  V    
Sbjct: 20  ELFMKSLIENCKKRNMPLQSIPEIGNRKINLFYLYMLVQKFGGADQVTRTQQWSMVAQRL 79

Query: 106 NFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAPSSSMPDAVSGSSL 153
                       L   Y  +L  +E+ +   +E    +    +   SL
Sbjct: 80  QIS-----DYQQLESIYFRILLPYER-HMISQEGIKETQAKRILQPSL 121

>2li6_A SWI/SNF chromatin-remodeling complex subunit SWI1; ligand binding, DNA binding protein; NMR {Saccharomyces cerevisiae} Length = 116

 Score = 77.3 bits (190), Expect = 6e-19
 Identities = 20/96 (20%), Positives = 37/96 (38%), Gaps = 7/96 (7%)

Query: 47  DLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVF 105
           +LF  +L    K        +P +G + ++L  L++ V   GG  +V R ++W  V    
Sbjct: 21  ELFMKSLIENCKKRNMPLQSIPEIGNRKINLFYLYMLVQKFGGADQVTRTQQWSMVAQRL 80

Query: 106 NFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAPS 141
                       L   Y  +L  +E+ +   +E   
Sbjct: 81  QIS-----DYQQLESIYFRILLPYER-HMISQEGIK 110

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	187
1ig6_A	107	MRF-2, modulator recognition factor 2; DNA binding	99.97
2jxj_A	96	Histone demethylase jarid1A; ARID domain, chromati	99.96
2cxy_A	125	BAF250B subunit, HBAF250B; DNA-binding domain, str	99.96
2jrz_A	117	Histone demethylase jarid1C; bright/ARID domain, h	99.96
2eqy_A	122	RBP2 like, jumonji, at rich interactive domain 1B;	99.96
2lm1_A	107	Lysine-specific demethylase LID; structural genomi	99.95
2rq5_A	121	Protein jumonji; developmental protein, nucleus, r	99.95
1c20_A	128	DEAD ringer protein; DNA-binding domain, ARID, AT-	99.95
1kkx_A	123	Transcription regulatory protein ADR6; ARID, DNA-b	99.95
2kk0_A	145	AT-rich interactive domain-containing protein 3A;	99.94
2li6_A	116	SWI/SNF chromatin-remodeling complex subunit SWI1;	99.94
1ity_A	69	TRF1; helix-turn-helix, telomeres, DNA binding, MY	90.98
2elk_A	58	SPCC24B10.08C protein; hypothetical protein, struc	88.74
1gvd_A	52	MYB proto-oncogene protein; transcription, transcr	87.85
1x41_A	60	Transcriptional adaptor 2-like, isoform B; transcr	87.82
2dim_A	70	Cell division cycle 5-like protein; MYB_DNA-bindin	87.62
2ox0_A	381	JMJC domain-containing histone demethylation PROT;	87.27
1w0t_A	53	Telomeric repeat binding factor 1; telomere, DNA-b	86.92
1guu_A	52	C-MYB, MYB proto-oncogene protein; transcription,	86.54
2d9a_A	60	B-MYB, MYB-related protein B; DNA binding, structu	85.61
3sjm_A	64	Telomeric repeat-binding factor 2; human telomeric	84.69
2yum_A	75	ZZZ3 protein, zinc finger ZZ-type-containing prote	81.2

>1ig6_A MRF-2, modulator recognition factor 2; DNA binding protein, DNA-binding motif, protein-DNA interaction; NMR {Homo sapiens} SCOP: a.4.3.1 PDB: 2oeh_A

Probab=99.97  E-value=5.7e-32  Score=203.58  Aligned_cols=105  Identities=20%  Similarity=0.317  Sum_probs=99.7

Q ss_pred             hcHHHHHHHHHHHHHhcCCCC-CCCeeCCeecchhhHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHH
Q 029808           44 QSSDLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYY  122 (187)
Q Consensus        44 ~~~~~Fl~~L~~F~~~rG~pl-~~P~I~gk~VDLy~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y  122 (187)
                      ++++.|+++|.+||+++|+++ ++|.|+|++||||+||.+|+++|||++|+++++|.+||+.||++.+++++++.||++|
T Consensus         2 ~e~~~Fl~~L~~F~~~rg~~~~~~P~i~gk~lDL~~Ly~~V~~~GG~~~V~~~~~W~~Va~~lg~~~~~~s~~~~Lk~~Y   81 (107)
T 1ig6_A            2 ADEQAFLVALYKYMKERKTPIERIPYLGFKQINLWTMFQAAQKLGGYETITARRQWKHIYDELGGNPGSTSAATCTRRHY   81 (107)
T ss_dssp             HHHHHHHHHHHHHHHTTTCCGGGCCCSSSSSCCHHHHHHHHHHTTHHHHHHHHTTHHHHHHHHTCCTTCTTTTTTHHHHH
T ss_pred             chHHHHHHHHHHHHHHcCCCCCcCceECCEeecHHHHHHHHHHhcCHHHhcccCcHHHHHHHhCCCCCCCcHHHHHHHHH
Confidence            578999999999999999999 7999999999999999999999999999999999999999999998899999999999


Q ss_pred             HHhHHHHHHHHHhhccCCCCCCCCCCC
Q 029808          123 LSLLYHFEQVYYFRKEAPSSSMPDAVS  149 (187)
Q Consensus       123 ~kyLl~fE~~~~~~~~~~~~~~~~~~~  149 (187)
                      ++||++||+ +..++++.+.|++.|.+
T Consensus        82 ~k~L~~yE~-~~~~~~~~~~p~~~~~~  107 (107)
T 1ig6_A           82 ERLILPYER-FIKGEEDKPLPPIKPRK  107 (107)
T ss_dssp             HHHTTTTHH-HHHHHTSSSSCTTCSCC
T ss_pred             HHHHHHHHH-HHcCCCCCCCCCCCCCC
Confidence            999999999 55799999999998863

>2jxj_A Histone demethylase jarid1A; ARID domain, chromatin regulator, developmental protein, dioxygenase, iron, metal-binding, nucleus, oxidoreductase; NMR {Homo sapiens}

Probab=99.96  E-value=1.2e-29  Score=187.18  Aligned_cols=92  Identities=26%  Similarity=0.400  Sum_probs=87.4

Q ss_pred             hhhhcHHHHHHHHHHHHHhcCCCCCCCeeCCeecchhhHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHH
Q 029808           41 DIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRK  120 (187)
Q Consensus        41 d~~~~~~~Fl~~L~~F~~~rG~pl~~P~I~gk~VDLy~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~  120 (187)
                      +.+++++.|+++|.+||++||+++++|.|+||+||||+||.+|+++|||++|+++++|.+||+.||+++++ +++..||+
T Consensus         3 ~~~r~~~~F~~~L~~F~~~~g~~l~~P~i~gk~lDL~~Ly~~V~~~GG~~~V~~~~~W~~v~~~lg~~~~~-~~~~~Lk~   81 (96)
T 2jxj_A            3 LGSRVRLDFLDQLAKFWELQGSTLKIPVVERKILDLYALSKIVASKGGFEMVTKEKKWSKVGSRLGYLPGK-GTGSLLKS   81 (96)
T ss_dssp             CSSHHHHHHHHHHHHHHHHHTCCCCCCEETTEECCCHHHHHHHHHHHTTHHHHHHTTHHHHHHHHTCCSCS-CHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHHHHcCCCCCCCcCCCEeccHHHHHHHHHHcCCHHHHccCCcHHHHHHHhCCCCcC-cHHHHHHH
Confidence            45789999999999999999999999999999999999999999999999999999999999999999865 67889999


Q ss_pred             HHHHhHHHHHHHH
Q 029808          121 YYLSLLYHFEQVY  133 (187)
Q Consensus       121 ~Y~kyLl~fE~~~  133 (187)
                      +|++||++||++.
T Consensus        82 ~Y~k~L~~yE~~~   94 (96)
T 2jxj_A           82 HYERILYPYELFQ   94 (96)
T ss_dssp             HHTTTTHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999999975

>2cxy_A BAF250B subunit, HBAF250B; DNA-binding domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.60A {Homo sapiens} PDB: 2eh9_A 1ryu_A

Probab=99.96  E-value=4.6e-29  Score=192.69  Aligned_cols=99  Identities=32%  Similarity=0.546  Sum_probs=92.3

Q ss_pred             hhcHHHHHHHHHHHHHhcCCCC-CCCeeCCeecchhhHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHH
Q 029808           43 AQSSDLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKY  121 (187)
Q Consensus        43 ~~~~~~Fl~~L~~F~~~rG~pl-~~P~I~gk~VDLy~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~  121 (187)
                      ..+++.|+++|.+||++||+++ ++|.|+||+||||+||.+|+++|||++|+++++|.+||+.||++. ++++++.||++
T Consensus        19 ~~~~~~Fl~~L~~F~~~rG~~~~~~P~i~gk~lDL~~Ly~~V~~~GG~~~V~~~~~W~~Va~~lg~~~-~~s~~~~Lk~~   97 (125)
T 2cxy_A           19 EPERKLWVDRYLTFMEERGSPVSSLPAVGKKPLDLFRLYVCVKEIGGLAQVNKNKKWRELATNLNVGT-SSSAASSLKKQ   97 (125)
T ss_dssp             CTTHHHHHHHHHHHHHHTTCCCCBCCEETTEECCHHHHHHHHHHHTSHHHHHHHTCHHHHHHHTTSCS-SHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHcCCCCCCCeeECCEeecHHHHHHHHHHcCCHHHhcccCcHHHHHHHhCCCC-CCcHHHHHHHH
Confidence            3467789999999999999999 799999999999999999999999999999999999999999997 47899999999


Q ss_pred             HHHhHHHHHHHHHhhccCCCC
Q 029808          122 YLSLLYHFEQVYYFRKEAPSS  142 (187)
Q Consensus       122 Y~kyLl~fE~~~~~~~~~~~~  142 (187)
                      |++||++||+++.+++++|+.
T Consensus        98 Y~k~L~~yE~~~~~g~~~p~~  118 (125)
T 2cxy_A           98 YIQYLFAFECKIERGEEPPPE  118 (125)
T ss_dssp             HHHHTHHHHHHHHHCCCCCCS
T ss_pred             HHHHHHHHHHHHHcCCCCChh
Confidence            999999999999888876654

>2jrz_A Histone demethylase jarid1C; bright/ARID domain, helical, structural genomics, structural genomics consortium, SGC, oxidoreductase; NMR {Homo sapiens} PDB: 2yqe_A

Probab=99.96  E-value=5.2e-29  Score=190.51  Aligned_cols=93  Identities=26%  Similarity=0.458  Sum_probs=89.1

Q ss_pred             hhhhcHHHHHHHHHHHHHhcCCCCCCCeeCCeecchhhHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHH
Q 029808           41 DIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRK  120 (187)
Q Consensus        41 d~~~~~~~Fl~~L~~F~~~rG~pl~~P~I~gk~VDLy~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~  120 (187)
                      ..+++++.|+++|.+||+.||+++++|.|+|++||||+||.+|+++|||++|+++++|.+||+.||++++ +++++.||+
T Consensus         7 ~~~r~~~~Fl~~L~~F~~~rG~~l~~P~i~gk~lDL~~Ly~~V~~~GG~~~V~~~~~W~~Va~~lg~~~~-~~a~~~Lk~   85 (117)
T 2jrz_A            7 AQTRVKLNYLDQIAKFWEIQGSSLKIPNVERRILDLYSLSKIVVEEGGYEAICKDRRWARVAQRLNYPPG-KNIGSLLRS   85 (117)
T ss_dssp             TSTTTHHHHHHHHHHHHHTTTSCCCCCEETTEECCHHHHHHHHHHHTCHHHHHHTTTHHHHHHHTTCCTT-CTHHHHHHH
T ss_pred             cchhHHHHHHHHHHHHHHHcCCCCCCCeECCEeecHHHHHHHHHHccCHHHhcccCcHHHHHHHhCCCCC-CcHHHHHHH
Confidence            3578999999999999999999999999999999999999999999999999999999999999999987 889999999


Q ss_pred             HHHHhHHHHHHHHH
Q 029808          121 YYLSLLYHFEQVYY  134 (187)
Q Consensus       121 ~Y~kyLl~fE~~~~  134 (187)
                      +|++||++||++..
T Consensus        86 ~Y~k~L~~yE~~~~   99 (117)
T 2jrz_A           86 HYERIVYPYEMYQS   99 (117)
T ss_dssp             HHHHTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999999874

>2eqy_A RBP2 like, jumonji, at rich interactive domain 1B; ARID domain, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.96  E-value=8.7e-29  Score=190.61  Aligned_cols=92  Identities=23%  Similarity=0.415  Sum_probs=87.8

Q ss_pred             hhhhcHHHHHHHHHHHHHhcCCCCCCCeeCCeecchhhHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHH
Q 029808           41 DIAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRK  120 (187)
Q Consensus        41 d~~~~~~~Fl~~L~~F~~~rG~pl~~P~I~gk~VDLy~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~  120 (187)
                      ..+++++.|+++|.+||++||+++++|.|+||+||||+||.+|+++|||++|+++++|.+||+.||++++ +++++.||+
T Consensus         9 ~~~~~~~~Fl~~L~~F~~~rG~~l~~P~i~gk~lDLy~Ly~~V~~~GG~~~V~~~k~W~~V~~~lg~~~~-~~~~~~Lr~   87 (122)
T 2eqy_A            9 AQTRVKLNFLDQIAKYWELQGSTLKIPHVERKILDLFQLNKLVAEEGGFAVVCKDRKWTKIATKMGFAPG-KAVGSHIRG   87 (122)
T ss_dssp             CSHHHHHHHHHHHHHHHHHHTCCCCCCBSSSSBCCHHHHHHHHHHHTCHHHHHHTTTHHHHHHHTTCCSS-SHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHHcCCCCCCCeECCEeccHHHHHHHHHHccCHHHHcCCCcHHHHHHHhCCCCC-CcHHHHHHH
Confidence            4678999999999999999999999999999999999999999999999999999999999999999984 678899999


Q ss_pred             HHHHhHHHHHHHH
Q 029808          121 YYLSLLYHFEQVY  133 (187)
Q Consensus       121 ~Y~kyLl~fE~~~  133 (187)
                      +|++||++||++.
T Consensus        88 ~Y~k~L~~yE~~~  100 (122)
T 2eqy_A           88 HYERILNPYNLFL  100 (122)
T ss_dssp             HHHHTHHHHHHHH
T ss_pred             HHHHHhHHHHHHH
Confidence            9999999999965

>2lm1_A Lysine-specific demethylase LID; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Drosophila melanogaster}

Probab=99.95  E-value=5.4e-29  Score=187.02  Aligned_cols=91  Identities=29%  Similarity=0.472  Sum_probs=87.6

Q ss_pred             hhhcHHHHHHHHHHHHHhcCCCCCCCeeCCeecchhhHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHH
Q 029808           42 IAQSSDLFWATLEAFHKSFGDKFKVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKY  121 (187)
Q Consensus        42 ~~~~~~~Fl~~L~~F~~~rG~pl~~P~I~gk~VDLy~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~  121 (187)
                      .+++++.|+++|.+||+.+|+++++|.|+|++||||+||.+|+++|||++|+++++|.+||+.||++.+ +++++.||++
T Consensus        12 ~~~~~~~F~~~L~~F~~~~g~~l~~P~i~gk~vdL~~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~-~~~~~~lk~~   90 (107)
T 2lm1_A           12 KTRVKLNFLDQIAKFWELQGSSLKIPMVERKALDLYTLHRIVQEEGGMEQTTKDRKWAKVANRMQYPSS-KSVGATLKAH   90 (107)
T ss_dssp             SSHHHHHHHHHHHHHHTTTCCCCSCCCTTTSSCCHHHHHHHHHHHTCHHHHHHHTTHHHHHHHTTCCCC-HHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHHHcCCCCCCCeECCEeecHHHHHHHHHHhcCHHHhcccCcHHHHHHHhCCCCC-CcHHHHHHHH
Confidence            568899999999999999999999999999999999999999999999999999999999999999985 7899999999


Q ss_pred             HHHhHHHHHHHH
Q 029808          122 YLSLLYHFEQVY  133 (187)
Q Consensus       122 Y~kyLl~fE~~~  133 (187)
                      |++||++||++.
T Consensus        91 Y~k~L~~yE~~~  102 (107)
T 2lm1_A           91 YERILHPFEVYT  102 (107)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHH
Confidence            999999999986

>2rq5_A Protein jumonji; developmental protein, nucleus, repressor, transcription, transcription regulation; NMR {Mus musculus}

Probab=99.95  E-value=2.3e-28  Score=188.45  Aligned_cols=88  Identities=22%  Similarity=0.419  Sum_probs=84.8

Q ss_pred             cHHHHHHHHHHHHHhcCCCC-CCCeeCCeecchhhHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHHH
Q 029808           45 SSDLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYL  123 (187)
Q Consensus        45 ~~~~Fl~~L~~F~~~rG~pl-~~P~I~gk~VDLy~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y~  123 (187)
                      ....|+++|.+||++||+|+ ++|.|+|++||||+||.+|+++|||++|+++++|.+||+.||+|++++++++.||++|+
T Consensus        12 ~~~~Fl~~L~~F~~~rGtpl~~~P~i~gk~lDL~~Ly~~V~~~GG~~~Vt~~k~W~~Va~~lg~p~~~~sa~~~Lr~~Y~   91 (121)
T 2rq5_A           12 PNVQRLACIKKHLRSQGITMDELPLIGGCELDLACFFRLINEMGGMQQVTDLKKWNKLADMLRIPKTAQDRLAKLQEAYC   91 (121)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCSSCCEETTEECCHHHHHHHHHHTTSHHHHHHTTCHHHHHHHTCCCTTCSSHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCCCCCCCcCCCEeccHHHHHHHHHHcCcHHHhcccCcHHHHHHHhCCCCCcCcHHHHHHHHHH
Confidence            46789999999999999999 59999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhHHHHHHH
Q 029808          124 SLLYHFEQV  132 (187)
Q Consensus       124 kyLl~fE~~  132 (187)
                      +||++||++
T Consensus        92 k~L~~YE~~  100 (121)
T 2rq5_A           92 QYLLSYDSL  100 (121)
T ss_dssp             TTHHHHHHC
T ss_pred             HHhHHHHCc
Confidence            999999984

>1c20_A DEAD ringer protein; DNA-binding domain, ARID, AT-rich interaction domain, DNA- binding protein; NMR {Drosophila melanogaster} SCOP: a.4.3.1 PDB: 1kqq_A

Probab=99.95  E-value=2.5e-28  Score=189.17  Aligned_cols=92  Identities=33%  Similarity=0.577  Sum_probs=89.0

Q ss_pred             hhcHHHHHHHHHHHHHhcCCCC-CCCeeCCeecchhhHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHH
Q 029808           43 AQSSDLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKY  121 (187)
Q Consensus        43 ~~~~~~Fl~~L~~F~~~rG~pl-~~P~I~gk~VDLy~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~  121 (187)
                      .++++.|+++|.+||+++|+++ ++|.|+|++||||+||.+|+++|||++|+++++|.+||+.||++.+++++++.||++
T Consensus        20 ~~~~~~Fl~~L~~F~~~rG~~l~~~P~i~gk~vDL~~Ly~~V~~~GG~~~V~~~k~W~~Va~~lg~~~~~~sa~~~Lk~~   99 (128)
T 1c20_A           20 DPKRKEFLDDLFSFMQKRGTPINRLPIMAKSVLDLYELYNLVIARGGLVDVINKKLWQEIIKGLHLPSSITSAAFTLRTQ   99 (128)
T ss_dssp             CHHHHHHHHHHHHHHTTTSSCSSCCCEETTEECCHHHHHHHHHHHTCHHHHHHHTTHHHHHHHTCCCSSCCSHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHcCCCCccceeECCEeecHHHHHHHHHHhcCHHHcCccCcHHHHHHHhCCCCCCCcHHHHHHHH
Confidence            4789999999999999999999 799999999999999999999999999999999999999999999899999999999


Q ss_pred             HHHhHHHHHHHHH
Q 029808          122 YLSLLYHFEQVYY  134 (187)
Q Consensus       122 Y~kyLl~fE~~~~  134 (187)
                      |++||++||++..
T Consensus       100 Y~k~L~~yE~~~~  112 (128)
T 1c20_A          100 YMKYLYPYECEKK  112 (128)
T ss_dssp             HHHHTHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999999884

>1kkx_A Transcription regulatory protein ADR6; ARID, DNA-binding domain, DNA binding protein; NMR {Saccharomyces cerevisiae} SCOP: a.4.3.1 PDB: 1kn5_A

Probab=99.95  E-value=5.2e-28  Score=186.81  Aligned_cols=90  Identities=21%  Similarity=0.386  Sum_probs=83.9

Q ss_pred             chhhhhcHHHHHHHHHHHHHhcCCCC-CCCeeCCeecchhhHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHH
Q 029808           39 YEDIAQSSDLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFV  117 (187)
Q Consensus        39 ~~d~~~~~~~Fl~~L~~F~~~rG~pl-~~P~I~gk~VDLy~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~  117 (187)
                      +++.+++++.|+++|.+||+++|+|+ ++|.|+|++||||+||.+|+++|||++|+++++|.+||+.||+++     +..
T Consensus        12 ~~~~~~~~~~Fl~~L~~F~~~rG~pl~~~P~i~gk~lDL~~Ly~~V~~~GG~~~V~~~k~W~~Va~~lg~~~-----~~~   86 (123)
T 1kkx_A           12 HGSNNKQYELFMKSLIENCKKRNMPLQSIPEIGNRKINLFYLYMLVQKFGGADQVTRTQQWSMVAQRLQISD-----YQQ   86 (123)
T ss_dssp             ---CCCHHHHHHHHHHHHHHHTTCSSSSCCCCSSSSCCTTHHHHHHTTTSCHHHHTTSHHHHHHHHHHTCCC-----HHH
T ss_pred             cCCcchhHHHHHHHHHHHHHHcCCCCCcCceECCEeecHHHHHHHHHHhcCHHhccccccHHHHHHHHCCCh-----HHH
Confidence            34578899999999999999999999 799999999999999999999999999999999999999999997     679


Q ss_pred             HHHHHHHhHHHHHHHH
Q 029808          118 LRKYYLSLLYHFEQVY  133 (187)
Q Consensus       118 Lk~~Y~kyLl~fE~~~  133 (187)
                      ||++|++||++||+++
T Consensus        87 Lr~~Y~k~L~~yE~~~  102 (123)
T 1kkx_A           87 LESIYFRILLPYERHM  102 (123)
T ss_dssp             HHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            9999999999999955

>2kk0_A AT-rich interactive domain-containing protein 3A; DEAD ringer, AT-rich interaction domain, NESG, ARID, cytopla binding, nucleus, phosphoprotein; NMR {Homo sapiens}

Probab=99.94  E-value=1e-27  Score=189.59  Aligned_cols=90  Identities=37%  Similarity=0.635  Sum_probs=87.1

Q ss_pred             hcHHHHHHHHHHHHHhcCCCC-CCCeeCCeecchhhHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHH
Q 029808           44 QSSDLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYY  122 (187)
Q Consensus        44 ~~~~~Fl~~L~~F~~~rG~pl-~~P~I~gk~VDLy~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y  122 (187)
                      .+++.|+++|.+||+++|+|+ ++|.|+|++||||+||.+|+++|||++|+++++|.+||+.||++.+++++++.||++|
T Consensus        33 ~~~~~Fl~~L~~F~~~rG~pl~~~P~i~gk~vDL~~Ly~~V~~~GG~~~V~~~~~W~~Va~~lg~~~~~tsa~~~Lk~~Y  112 (145)
T 2kk0_A           33 PKRKEFLDDLFSFMQKRGTPVNRIPIMAKQVLDLFMLYVLVTEKGGLVEVINKKLWREITKGLNLPTSITSAAFTLRTQY  112 (145)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCCSSCCEETTEECCHHHHHHHHHHHTCHHHHHHHTCHHHHHHHTTCCTTSTTHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHcCCCCccceeECCEEecHHHHHHHHHHhCCHHHhcccCcHHHHHHHhCCCCCcCcHHHHHHHHH
Confidence            449999999999999999999 7999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhHHHHHHHH
Q 029808          123 LSLLYHFEQVY  133 (187)
Q Consensus       123 ~kyLl~fE~~~  133 (187)
                      ++||++||++.
T Consensus       113 ~k~L~~yE~~~  123 (145)
T 2kk0_A          113 MKYLYPYECEK  123 (145)
T ss_dssp             HHHSSHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999999985

>2li6_A SWI/SNF chromatin-remodeling complex subunit SWI1; ligand binding, DNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=99.94  E-value=2e-27  Score=181.40  Aligned_cols=91  Identities=22%  Similarity=0.412  Sum_probs=84.7

Q ss_pred             hhhcHHHHHHHHHHHHHhcCCCC-CCCeeCCeecchhhHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHH
Q 029808           42 IAQSSDLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRK  120 (187)
Q Consensus        42 ~~~~~~~Fl~~L~~F~~~rG~pl-~~P~I~gk~VDLy~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~  120 (187)
                      .+++++.|++.|.+||+++|+++ ++|.|+|++||||+||.+|+++|||++|+++++|.+||+.||+++     +..||.
T Consensus        16 ~~~~~~~F~~~L~~F~~~~G~pl~~~P~i~gk~lDL~~Ly~~V~~~GG~~~V~~~~~W~~Va~~lg~~~-----~~~Lr~   90 (116)
T 2li6_A           16 NNKQYELFMKSLIENCKKRNMPLQSIPEIGNRKINLFYLYMLVQKFGGADQVTRTQQWSMVAQRLQISD-----YQQLES   90 (116)
T ss_dssp             SHHHHHHHHHHHHHHHHTTTSCCSSCCCCBSCCCSTTHHHHHHHHHTSHHHHHHTTCHHHHHHHHTSCC-----TTHHHH
T ss_pred             cchhHHHHHHHHHHHHHHcCCCCCCCceECCEeecHHHHHHHHHHhcCHHHccccCcHHHHHHHhCCCh-----HHHHHH
Confidence            57899999999999999999999 799999999999999999999999999999999999999999997     459999


Q ss_pred             HHHHhHHHHHHHHHhhcc
Q 029808          121 YYLSLLYHFEQVYYFRKE  138 (187)
Q Consensus       121 ~Y~kyLl~fE~~~~~~~~  138 (187)
                      +|++||++||++. .+.+
T Consensus        91 ~Y~k~L~~yE~~~-~~~~  107 (116)
T 2li6_A           91 IYFRILLPYERHM-ISQE  107 (116)
T ss_dssp             HHHHHHSHHHHHH-HHTT
T ss_pred             HHHHHHHHHHHHH-hCcc
Confidence            9999999999955 4443

>1ity_A TRF1; helix-turn-helix, telomeres, DNA binding, MYB domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Homo sapiens} SCOP: a.4.1.4 PDB: 1iv6_A

Probab=90.98  E-value=0.31  Score=32.62  Aligned_cols=41  Identities=17%  Similarity=0.395  Sum_probs=30.9

Q ss_pred             hHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHHHHhHHH
Q 029808           78 RLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYH  128 (187)
Q Consensus        78 ~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y~kyLl~  128 (187)
                      .|...|.+.|-       +.|..||..|++...   .+.++|..|.++|.+
T Consensus        20 ~L~~~v~~~G~-------~~W~~Ia~~~~~~~R---t~~qcr~Rw~~~l~p   60 (69)
T 1ity_A           20 NLRSGVRKYGE-------GNWSKILLHYKFNNR---TSVMLKDRWRTMKKL   60 (69)
T ss_dssp             HHHHHHHHHCS-------SCHHHHHHHSCCSSC---CHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHCC-------CcHHHHHHHcCcCCC---CHHHHHHHHHHHcCC
Confidence            57788888872       379999999986322   234899999998865

>2elk_A SPCC24B10.08C protein; hypothetical protein, structural genomics, NPPSFA; NMR {Schizosaccharomyces pombe}

Probab=88.74  E-value=0.74  Score=29.84  Aligned_cols=39  Identities=18%  Similarity=0.190  Sum_probs=29.0

Q ss_pred             hHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHHHHhHH
Q 029808           78 RLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLY  127 (187)
Q Consensus        78 ~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y~kyLl  127 (187)
                      +|..+|.+.|-       +.|..||..++...+    +.+.|..|.++++
T Consensus        19 ~L~~~v~~~G~-------~~W~~IA~~~~~~Rt----~~qcr~r~~~~~~   57 (58)
T 2elk_A           19 LLIDACETLGL-------GNWADIADYVGNART----KEECRDHYLKTYI   57 (58)
T ss_dssp             HHHHHHHHTTT-------TCHHHHHHHHCSSCC----HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHCc-------CCHHHHHHHHCCCCC----HHHHHHHHHHHcc
Confidence            67778888771       379999999985432    3488999988763

>1gvd_A MYB proto-oncogene protein; transcription, transcription regulation, C-MYB, DNA binding, ION binding, nuclear protein; 1.45A {Mus musculus} SCOP: a.4.1.3 PDB: 1gv5_A 1mbg_A 1mbh_A

Probab=87.85  E-value=0.4  Score=30.15  Aligned_cols=39  Identities=21%  Similarity=0.265  Sum_probs=28.2

Q ss_pred             hHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHHHHhHHH
Q 029808           78 RLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYH  128 (187)
Q Consensus        78 ~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y~kyLl~  128 (187)
                      .|..+|.+.|-       +.|..||..|+  . .+  +.++|..|.++|.|
T Consensus        13 ~L~~~v~~~G~-------~~W~~Ia~~~~--~-Rt--~~qcr~Rw~~~L~P   51 (52)
T 1gvd_A           13 RLIKLVQKYGP-------KRWSVIAKHLK--G-RI--GKQCRERWHNHLNP   51 (52)
T ss_dssp             HHHHHHHHHCT-------TCHHHHHTTST--T-CC--HHHHHHHHHHTTSC
T ss_pred             HHHHHHHHHCc-------ChHHHHHHHcC--C-CC--HHHHHHHHHHHcCc
Confidence            46677777762       46999999984  2 22  34899999998853

>1x41_A Transcriptional adaptor 2-like, isoform B; transcriptional adaptor protein2, transcriptional activation, MYB domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1

Probab=87.82  E-value=1  Score=29.28  Aligned_cols=38  Identities=21%  Similarity=0.234  Sum_probs=27.8

Q ss_pred             hHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHHHHhHH
Q 029808           78 RLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLY  127 (187)
Q Consensus        78 ~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y~kyLl  127 (187)
                      +|..+|...|-       +.|..||..|+-   .+  +.++|..|.++|.
T Consensus        18 ~L~~~v~~~G~-------~~W~~Ia~~~~~---Rt--~~qcr~r~~~~l~   55 (60)
T 1x41_A           18 ALLEAVMDCGF-------GNWQDVANQMCT---KT--KEECEKHYMKYFS   55 (60)
T ss_dssp             HHHHHHHHTCT-------TCHHHHHHHHTT---SC--HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHCc-------CcHHHHHHHhCC---CC--HHHHHHHHHHHcc
Confidence            46667777761       379999999953   22  3489999999875

>2dim_A Cell division cycle 5-like protein; MYB_DNA-binding domain, cell cycle, DNA binding, spliceosome, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=87.62  E-value=0.42  Score=31.98  Aligned_cols=39  Identities=13%  Similarity=0.216  Sum_probs=28.7

Q ss_pred             hHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHHHHhHHH
Q 029808           78 RLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYH  128 (187)
Q Consensus        78 ~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y~kyLl~  128 (187)
                      .|..+|.+.|       .+.|..||..|+-   .  .+.++|..|.++|.|
T Consensus        19 ~L~~~v~~~G-------~~~W~~Ia~~l~~---R--t~~qcr~Rw~~~L~p   57 (70)
T 2dim_A           19 ILKAAVMKYG-------KNQWSRIASLLHR---K--SAKQCKARWYEWLDP   57 (70)
T ss_dssp             HHHHHHHHTC-------SSCHHHHHHHSTT---C--CHHHHHHHHHHTSCS
T ss_pred             HHHHHHHHHC-------cCCHHHHHHHhcC---C--CHHHHHHHHHHHcCC
Confidence            5777788777       2479999999862   1  234889999988854

>2ox0_A JMJC domain-containing histone demethylation PROT; double-stranded beta helix, demethylase, oxygenase, SGC, STR genomics, structural genomics consortium, oxidoreductase; HET: MLY ALY OGA; 1.95A {Homo sapiens} PDB: 2oq7_A* 2os2_A* 2ot7_A* 2oq6_A* 2vd7_A* 2ybk_A* 2ybp_A* 2ybs_A* 3njy_A* 3pdq_A* 3u4s_A* 2p5b_A* 2q8c_A* 2q8d_A* 2q8e_A* 2gp5_A* 2gp3_A* 2wwj_A* 2pxj_A* 2xml_A*

Probab=87.27  E-value=0.19  Score=44.87  Aligned_cols=20  Identities=5%  Similarity=0.074  Sum_probs=17.5

Q ss_pred             CCCCccccCCCCCCCCCCCC
Q 029808           19 SNSNNNNSKASSYYPPPTAK   38 (187)
Q Consensus        19 ~~sgi~~i~pp~~w~PPf~~   38 (187)
                      ..+|||||+||+.|+||...
T Consensus        62 ~~~GI~KIIPP~~W~p~~~~   81 (381)
T 2ox0_A           62 HRAGLAKVVPPKEWKPRASY   81 (381)
T ss_dssp             GGGSEEEECCCTTCCSCSCS
T ss_pred             cccCceeecCCccCCCcccc
Confidence            37999999999999999754

>1w0t_A Telomeric repeat binding factor 1; telomere, DNA-binding protein, homeodomain, mitosis, cell cycle; 2.00A {Homo sapiens} SCOP: a.4.1.4 PDB: 1ba5_A

Probab=86.92  E-value=1.1  Score=28.25  Aligned_cols=39  Identities=21%  Similarity=0.465  Sum_probs=28.8

Q ss_pred             hHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHHHHhH
Q 029808           78 RLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLL  126 (187)
Q Consensus        78 ~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y~kyL  126 (187)
                      .|...|.+.|.       +.|..||..|++... +  +.+++.-|.++|
T Consensus        12 ~L~~~v~~~G~-------~~W~~Ia~~~~~~~R-t--~~qcr~Rw~~~~   50 (53)
T 1w0t_A           12 NLRSGVRKYGE-------GNWSKILLHYKFNNR-T--SVMLKDRWRTMK   50 (53)
T ss_dssp             HHHHHHHHHCT-------TCHHHHHHHSCCSSC-C--HHHHHHHHHHHH
T ss_pred             HHHHHHHHHCc-------CCHHHHHHHcCCCCC-C--HHHHHHHHHHHH
Confidence            57778888872       379999999986422 2  348898888876

>1guu_A C-MYB, MYB proto-oncogene protein; transcription, transcription regulation, DNA binding, ION bindi proto-oncogene, nuclear protein, activator; 1.6A {Mus musculus} SCOP: a.4.1.3 PDB: 1mbe_A 1mbf_A

Probab=86.54  E-value=0.86  Score=28.51  Aligned_cols=39  Identities=18%  Similarity=0.215  Sum_probs=28.2

Q ss_pred             hHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHHHHhHHH
Q 029808           78 RLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYH  128 (187)
Q Consensus        78 ~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y~kyLl~  128 (187)
                      .|..+|...|-       ..|..||..|+-   .+  +.+++..|.++|.|
T Consensus        13 ~L~~~v~~~G~-------~~W~~Ia~~~~~---Rt--~~qcr~Rw~~~L~P   51 (52)
T 1guu_A           13 KLKKLVEQNGT-------DDWKVIANYLPN---RT--DVQCQHRWQKVLNP   51 (52)
T ss_dssp             HHHHHHHHHCS-------SCHHHHHHTSTT---CC--HHHHHHHHHHHHSC
T ss_pred             HHHHHHHHhCC-------CCHHHHHHHcCC---CC--HHHHHHHHHHHcCc
Confidence            46677777763       479999999842   22  34899999998853

>2d9a_A B-MYB, MYB-related protein B; DNA binding, structural genomics, unknown function, NPPSFA; NMR {Mus musculus}

Probab=85.61  E-value=0.83  Score=29.50  Aligned_cols=39  Identities=23%  Similarity=0.215  Sum_probs=27.7

Q ss_pred             hHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHHHHhHHH
Q 029808           78 RLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYH  128 (187)
Q Consensus        78 ~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y~kyLl~  128 (187)
                      .|..+|.+.|-       +.|..||..|.-   .+  +.++|..|.++|.|
T Consensus        18 ~L~~~v~~~G~-------~~W~~Ia~~~~~---Rt--~~qcr~Rw~~~l~p   56 (60)
T 2d9a_A           18 QLRALVRQFGQ-------QDWKFLASHFPN---RT--DQQCQYRWLRVLSG   56 (60)
T ss_dssp             HHHHHHHHTCT-------TCHHHHHHHCSS---SC--HHHHHHHHHHTSCS
T ss_pred             HHHHHHHHhCC-------CCHHHHHHHccC---CC--HHHHHHHHHHHcCC
Confidence            46667777662       479999999742   22  34899999988753

>3sjm_A Telomeric repeat-binding factor 2; human telomeric repeat binding protein 2, telomere, telomeri homeodomain proteins amino acid sequence; HET: DNA; 1.35A {Homo sapiens} PDB: 1xg1_A 1vfc_A 1vf9_A 1w0u_A

Probab=84.69  E-value=1.4  Score=29.24  Aligned_cols=40  Identities=13%  Similarity=0.306  Sum_probs=29.5

Q ss_pred             hHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHHHHhHH
Q 029808           78 RLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLY  127 (187)
Q Consensus        78 ~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y~kyLl  127 (187)
                      .|...|.+.|-       +.|..||..+.+... +  +.++|.-|..++.
T Consensus        21 ~L~~~V~~~G~-------~~W~~Ia~~~~~~~R-t--~~qcr~Rw~nl~k   60 (64)
T 3sjm_A           21 WVKAGVQKYGE-------GNWAAISKNYPFVNR-T--AVMIKDRWRTMKR   60 (64)
T ss_dssp             HHHHHHHHHCT-------TCHHHHHHHSCCSSC-C--HHHHHHHHHHHHH
T ss_pred             HHHHHHHccCC-------CchHHHHhhcCCCCC-C--HHHHHHHHHHHhc
Confidence            57778888872       269999999887643 2  3488998887764

>2yum_A ZZZ3 protein, zinc finger ZZ-type-containing protein 3; transcription, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=81.20  E-value=1.9  Score=28.96  Aligned_cols=44  Identities=11%  Similarity=0.112  Sum_probs=29.9

Q ss_pred             hHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHHHHhHHH
Q 029808           78 RLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYH  128 (187)
Q Consensus        78 ~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y~kyLl~  128 (187)
                      .|..+|...|--.  +..+.|..||..|+-   .+  ..+++..|.+||.+
T Consensus        18 ~L~~~v~~~g~~~--~~~~~W~~IA~~~~~---Rt--~~qcr~r~~~~l~~   61 (75)
T 2yum_A           18 KLEQLLIKYPPEE--VESRRWQKIADELGN---RT--AKQVASQVQKYFIK   61 (75)
T ss_dssp             HHHHHHHHSCCCS--CHHHHHHHHHHHHSS---SC--HHHHHHHHHHHHGG
T ss_pred             HHHHHHHHhCCCC--CCcccHHHHHHHhCC---CC--HHHHHHHHHHHHHH
Confidence            4666777777211  112589999999963   22  34899999999865

---

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	187
d1c20a_	128	a.4.3.1 (A:) DNA-binding domain from the dead ring	8e-30
d1ryua_	120	a.4.3.1 (A:) SWI-SNF complex protein p270, SMARCF1	5e-28
d1ig6a_	107	a.4.3.1 (A:) MRF-2 DNA-binding domain {Human (Homo	3e-27
d1kkxa_	102	a.4.3.1 (A:) Transcription regulator Adr6 (Swi1) {	5e-22

>d1c20a_ a.4.3.1 (A:) DNA-binding domain from the dead ringer protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 128

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: ARID-like
family: ARID domain
domain: DNA-binding domain from the dead ringer protein
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score =  104 bits (260), Expect = 8e-30
 Identities = 32/105 (30%), Positives = 55/105 (52%), Gaps = 3/105 (2%)

Query: 47  DLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVF 105
             F   L +F +  G    ++P +    LDL+ L+  V +RGGL  VI  + W+E++   
Sbjct: 24  KEFLDDLFSFMQKRGTPINRLPIMAKSVLDLYELYNLVIARGGLVDVINKKLWQEIIKGL 83

Query: 106 NFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAPSSSMPDAVSG 150
           + P++ITSA+F LR  Y+  LY +E     +  +  + +  A+ G
Sbjct: 84  HLPSSITSAAFTLRTQYMKYLYPYEC--EKKNLSTPAELQAAIDG 126

>d1ryua_ a.4.3.1 (A:) SWI-SNF complex protein p270, SMARCF1 {Human (Homo sapiens) [TaxId: 9606]} Length = 120

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: ARID-like
family: ARID domain
domain: SWI-SNF complex protein p270, SMARCF1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 99.6 bits (248), Expect = 5e-28
 Identities = 31/97 (31%), Positives = 51/97 (52%), Gaps = 2/97 (2%)

Query: 47  DLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVF 105
            ++     AF +        +P VG K LDL+RL+V V   GGL +V ++++W+E+    
Sbjct: 22  KMWVDRYLAFTEEKAMGMTNLPAVGRKPLDLYRLYVSVKEIGGLTQVNKNKKWRELATNL 81

Query: 106 NFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAPSS 142
           N  T+ +SA+  L+K Y+  LY FE      ++ P  
Sbjct: 82  NVGTS-SSAASSLKKQYIQCLYAFECKIERGEDPPPD 117

>d1ig6a_ a.4.3.1 (A:) MRF-2 DNA-binding domain {Human (Homo sapiens) [TaxId: 9606]} Length = 107

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: ARID-like
family: ARID domain
domain: MRF-2 DNA-binding domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 97.3 bits (242), Expect = 3e-27
 Identities = 22/101 (21%), Positives = 40/101 (39%), Gaps = 2/101 (1%)

Query: 47  DLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVF 105
             F   L  + K       ++P +G K ++L  +F      GG   +   R+WK +    
Sbjct: 5   QAFLVALYKYMKERKTPIERIPYLGFKQINLWTMFQAAQKLGGYETITARRQWKHIYDEL 64

Query: 106 NFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAP-SSSMP 145
                 TSA+   R++Y  L+  +E+     ++ P     P
Sbjct: 65  GGNPGSTSAATCTRRHYERLILPYERFIKGEEDKPLPPIKP 105

>d1kkxa_ a.4.3.1 (A:) Transcription regulator Adr6 (Swi1) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 102

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: ARID-like
family: ARID domain
domain: Transcription regulator Adr6 (Swi1)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 83.4 bits (206), Expect = 5e-22
 Identities = 20/95 (21%), Positives = 37/95 (38%), Gaps = 7/95 (7%)

Query: 47  DLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVF 105
           +LF  +L    K        +P +G + ++L  L++ V   GG  +V R ++W  V    
Sbjct: 6   ELFMKSLIENCKKRNMPLQSIPEIGNRKINLFYLYMLVQKFGGADQVTRTQQWSMVAQRL 65

Query: 106 NFPTTITSASFVLRKYYLSLLYHFEQVYYFRKEAP 140
                       L   Y  +L  +E+ +   +E  
Sbjct: 66  QIS-----DYQQLESIYFRILLPYER-HMISQEGI 94

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	187
d1ig6a_	107	MRF-2 DNA-binding domain {Human (Homo sapiens) [Ta	99.96
d1ryua_	120	SWI-SNF complex protein p270, SMARCF1 {Human (Homo	99.95
d1c20a_	128	DNA-binding domain from the dead ringer protein {F	99.95
d1kkxa_	102	Transcription regulator Adr6 (Swi1) {Baker's yeast	99.93
d1guua_	50	c-Myb, DNA-binding domain {Mouse (Mus musculus) [T	90.62
d1x41a1	47	Transcriptional adaptor 2-like, TADA2L, isoform b	86.67
d1w0ua_	55	Telomeric repeat binding factor 2, TRF2 {Human (Ho	85.43
d1gvda_	52	c-Myb, DNA-binding domain {Mouse (Mus musculus) [T	85.01
d2cu7a1	65	MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 960	82.62

>d1ig6a_ a.4.3.1 (A:) MRF-2 DNA-binding domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: ARID-like
family: ARID domain
domain: MRF-2 DNA-binding domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=3.9e-31  Score=197.70  Aligned_cols=104  Identities=20%  Similarity=0.304  Sum_probs=96.1

Q ss_pred             hcHHHHHHHHHHHHHhcCCCC-CCCeeCCeecchhhHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHH
Q 029808           44 QSSDLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYY  122 (187)
Q Consensus        44 ~~~~~Fl~~L~~F~~~rG~pl-~~P~I~gk~VDLy~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y  122 (187)
                      .+++.|+++|.+||++||+++ ++|.|+|++||||+||.+|+++|||++|+.+++|.+||++||++.++++++..||++|
T Consensus         2 ~e~~~Fl~~L~~F~~~rg~~~~~~P~i~gk~vDL~~Ly~~V~~~GG~~~V~~~~~W~~ia~~lg~~~~~~~~~~~Lk~~Y   81 (107)
T d1ig6a_           2 ADEQAFLVALYKYMKERKTPIERIPYLGFKQINLWTMFQAAQKLGGYETITARRQWKHIYDELGGNPGSTSAATCTRRHY   81 (107)
T ss_dssp             HHHHHHHHHHHHHHHTTTCCGGGCCCSSSSSCCHHHHHHHHHHTTHHHHHHHHTTHHHHHHHHTCCTTCTTTTTTHHHHH
T ss_pred             ccHHHHHHHHHHHHHHcCCCCCcCCeECCccccHHHHHHHHHHhCChhhccccccHHHHHHHhCCCCCCCCHHHHHHHHH
Confidence            478999999999999999998 7999999999999999999999999999999999999999999998899999999999


Q ss_pred             HHhHHHHHHHHHhhccCCCCCCCCCC
Q 029808          123 LSLLYHFEQVYYFRKEAPSSSMPDAV  148 (187)
Q Consensus       123 ~kyLl~fE~~~~~~~~~~~~~~~~~~  148 (187)
                      ++||++||+++ .+.++.+.++++|.
T Consensus        82 ~~~L~~yE~~~-~~~~~~~~p~~~~r  106 (107)
T d1ig6a_          82 ERLILPYERFI-KGEEDKPLPPIKPR  106 (107)
T ss_dssp             HHHTTTTHHHH-HHHTSSSSCTTCSC
T ss_pred             HHHHHHHHHHH-hcCCCCCCCCCCCC
Confidence            99999999966 55666677777664

>d1ryua_ a.4.3.1 (A:) SWI-SNF complex protein p270, SMARCF1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: ARID-like
family: ARID domain
domain: SWI-SNF complex protein p270, SMARCF1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=1.1e-29  Score=193.38  Aligned_cols=97  Identities=32%  Similarity=0.534  Sum_probs=91.1

Q ss_pred             hcHHHHHHHHHHHHHhcCCCC-CCCeeCCeecchhhHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHH
Q 029808           44 QSSDLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYY  122 (187)
Q Consensus        44 ~~~~~Fl~~L~~F~~~rG~pl-~~P~I~gk~VDLy~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y  122 (187)
                      .+++.|++.|.+||++||+++ ++|.|+||+||||+||.+|+++|||++|+++++|.+||+.||++. ++++++.||++|
T Consensus        19 ~e~~~Fl~~L~~F~~~rg~~~~~~P~i~gr~vDL~~Ly~~V~~~GG~~~V~~~~~W~~Va~~l~~~~-~~~~~~~Lk~~Y   97 (120)
T d1ryua_          19 PERKMWVDRYLAFTEEKAMGMTNLPAVGRKPLDLYRLYVSVKEIGGLTQVNKNKKWRELATNLNVGT-SSSAASSLKKQY   97 (120)
T ss_dssp             HHHHHHHHHHHHHHHHTTSCSSCCSCCSSSSCCHHHHHHHHHHHTCTTGGGTSSHHHHHHHHTTSCC-SSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCcCCeECCeeccHHHHHHHHHHhcCHHhhcccchHHHHHHHhCCCC-CCCHHHHHHHHH
Confidence            467789999999999999999 799999999999999999999999999999999999999999986 678999999999


Q ss_pred             HHhHHHHHHHHHhhccCCC
Q 029808          123 LSLLYHFEQVYYFRKEAPS  141 (187)
Q Consensus       123 ~kyLl~fE~~~~~~~~~~~  141 (187)
                      .+||++||+++.+++++|+
T Consensus        98 ~r~L~~yE~~~~~~~~~p~  116 (120)
T d1ryua_          98 IQCLYAFECKIERGEDPPP  116 (120)
T ss_dssp             HHHTTTTTTTTTTTTSCCC
T ss_pred             HHHHHHHHHHHHcCCCCCc
Confidence            9999999999988887654

>d1c20a_ a.4.3.1 (A:) DNA-binding domain from the dead ringer protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: ARID-like
family: ARID domain
domain: DNA-binding domain from the dead ringer protein
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.95  E-value=3.4e-28  Score=186.74  Aligned_cols=91  Identities=33%  Similarity=0.584  Sum_probs=87.1

Q ss_pred             hcHHHHHHHHHHHHHhcCCCC-CCCeeCCeecchhhHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHH
Q 029808           44 QSSDLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYY  122 (187)
Q Consensus        44 ~~~~~Fl~~L~~F~~~rG~pl-~~P~I~gk~VDLy~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y  122 (187)
                      .+++.|++.|.+||++||+++ ++|.|+||+||||+||.+|+++|||++|+.+++|.+||+.||++.+++++++.||.+|
T Consensus        21 ~er~~F~~~L~~f~~~rg~~~~~~P~i~gk~vDL~~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y  100 (128)
T d1c20a_          21 PKRKEFLDDLFSFMQKRGTPINRLPIMAKSVLDLYELYNLVIARGGLVDVINKKLWQEIIKGLHLPSSITSAAFTLRTQY  100 (128)
T ss_dssp             HHHHHHHHHHHHHHTTTSSCSSCCCEETTEECCHHHHHHHHHHHTCHHHHHHHTTHHHHHHHTCCCSSCCSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCccCcCCeECCeeccHHHHHHHHHHhcCHHHhcccccHHHHHHHhCCCCCCCcHHHHHHHHH
Confidence            468899999999999999999 7999999999999999999999999999999999999999999998899999999999


Q ss_pred             HHhHHHHHHHHH
Q 029808          123 LSLLYHFEQVYY  134 (187)
Q Consensus       123 ~kyLl~fE~~~~  134 (187)
                      .+||++||++..
T Consensus       101 ~k~L~~fE~~~~  112 (128)
T d1c20a_         101 MKYLYPYECEKK  112 (128)
T ss_dssp             HHHTHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999999753

>d1kkxa_ a.4.3.1 (A:) Transcription regulator Adr6 (Swi1) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: ARID-like
family: ARID domain
domain: Transcription regulator Adr6 (Swi1)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.93  E-value=4.8e-27  Score=174.09  Aligned_cols=88  Identities=22%  Similarity=0.408  Sum_probs=81.5

Q ss_pred             hcHHHHHHHHHHHHHhcCCCC-CCCeeCCeecchhhHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHH
Q 029808           44 QSSDLFWATLEAFHKSFGDKF-KVPTVGGKALDLHRLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYY  122 (187)
Q Consensus        44 ~~~~~Fl~~L~~F~~~rG~pl-~~P~I~gk~VDLy~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y  122 (187)
                      .+.+.|++.|.+||++||+++ ++|.|+|++||||+||.+|+++|||++|+++++|.+||++||++.     +.+||++|
T Consensus         3 ~~~e~F~~~L~~f~~~rg~~~~~~P~i~gk~vDL~~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~-----~~~lr~~Y   77 (102)
T d1kkxa_           3 KQYELFMKSLIENCKKRNMPLQSIPEIGNRKINLFYLYMLVQKFGGADQVTRTQQWSMVAQRLQISD-----YQQLESIY   77 (102)
T ss_dssp             CHHHHHHHHHHHHHHHTTCSSSSCCCCSSSSCCTTHHHHHHTTTSCHHHHTTSHHHHHHHHHHTCCC-----HHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCCCCcCCeECCeeeeHHHHHHHHHHHcChHHhcccCcHHHHHHHHCCCh-----HHHHHHHH
Confidence            578999999999999999999 799999999999999999999999999999999999999999874     45899999


Q ss_pred             HHhHHHHHHHHHhh
Q 029808          123 LSLLYHFEQVYYFR  136 (187)
Q Consensus       123 ~kyLl~fE~~~~~~  136 (187)
                      ++||++||+++...
T Consensus        78 ~~~L~~yE~~~~~~   91 (102)
T d1kkxa_          78 FRILLPYERHMISQ   91 (102)
T ss_dssp             HHHHHHHHHHSCTT
T ss_pred             HHHHHHHHHHHhCc
Confidence            99999999976333

>d1guua_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: c-Myb, DNA-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.62  E-value=0.14  Score=30.99  Aligned_cols=39  Identities=18%  Similarity=0.215  Sum_probs=28.7

Q ss_pred             hHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHHHHhHHH
Q 029808           78 RLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYH  128 (187)
Q Consensus        78 ~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y~kyLl~  128 (187)
                      .|...|.+.|.       +.|..||..|+-   .+  +.+++..|.+||.|
T Consensus        11 ~L~~~v~~~g~-------~~W~~Ia~~~~~---Rt--~~qcr~Rw~~~L~P   49 (50)
T d1guua_          11 KLKKLVEQNGT-------DDWKVIANYLPN---RT--DVQCQHRWQKVLNP   49 (50)
T ss_dssp             HHHHHHHHHCS-------SCHHHHHHTSTT---CC--HHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHCC-------CCHHHHHHHHCC---CC--HHHHHHHHHhhCCC
Confidence            56677887773       259999998852   22  44999999999854

>d1x41a1 a.4.1.1 (A:8-54) Transcriptional adaptor 2-like, TADA2L, isoform b {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Transcriptional adaptor 2-like, TADA2L, isoform b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.67  E-value=0.75  Score=27.23  Aligned_cols=36  Identities=22%  Similarity=0.266  Sum_probs=26.1

Q ss_pred             hHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHHHHh
Q 029808           78 RLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSL  125 (187)
Q Consensus        78 ~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y~ky  125 (187)
                      +|-.+|+..|       .+.|..||..|+--   +  +.+.+..|.+|
T Consensus        11 ~L~~~v~~~G-------~~nW~~Ia~~~~~R---t--~~Qcr~r~~~~   46 (47)
T d1x41a1          11 ALLEAVMDCG-------FGNWQDVANQMCTK---T--KEECEKHYMKY   46 (47)
T ss_dssp             HHHHHHHHTC-------TTCHHHHHHHHTTS---C--HHHHHHHHHHH
T ss_pred             HHHHHHHHHC-------CccHHHHHHHcCCC---C--HHHHHHHHHHh
Confidence            5667787766       23699999999832   2  44888888875

>d1w0ua_ a.4.1.4 (A:) Telomeric repeat binding factor 2, TRF2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: DNA-binding domain of telomeric protein
domain: Telomeric repeat binding factor 2, TRF2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.43  E-value=0.6  Score=28.55  Aligned_cols=40  Identities=13%  Similarity=0.335  Sum_probs=28.8

Q ss_pred             hHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHHHHhHH
Q 029808           78 RLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLY  127 (187)
Q Consensus        78 ~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y~kyLl  127 (187)
                      .|...|.+.|       .+.|..|+..+.+... +  +.+++.-|.+++.
T Consensus        12 ~L~~~V~~~G-------~~~W~~I~~~~~~~~R-t--~~q~k~Rwrn~~k   51 (55)
T d1w0ua_          12 WVKAGVQKYG-------EGNWAAISKNYPFVNR-T--AVMIKDRWRTMKR   51 (55)
T ss_dssp             HHHHHHHHHC-------TTCHHHHHHHSCCSSC-C--HHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-------CChHHHHHhhcCCCCc-C--HHHHHHHHHHHhc
Confidence            5677788877       1269999999887643 2  3489998887654

>d1gvda_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: c-Myb, DNA-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.01  E-value=0.33  Score=29.57  Aligned_cols=39  Identities=21%  Similarity=0.230  Sum_probs=28.2

Q ss_pred             hHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHHHHhHHH
Q 029808           78 RLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYH  128 (187)
Q Consensus        78 ~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y~kyLl~  128 (187)
                      +|-..|.+.|-       +.|..||..|+-   .+  +.+++.-|.+||.|
T Consensus        13 ~L~~~v~~~g~-------~~W~~Ia~~l~~---Rt--~~qc~~Rw~~~L~P   51 (52)
T d1gvda_          13 RLIKLVQKYGP-------KRWSVIAKHLKG---RI--GKQCRERWHNHLNP   51 (52)
T ss_dssp             HHHHHHHHHCT-------TCHHHHHTTSTT---CC--HHHHHHHHHHTTSC
T ss_pred             HHHHHHHHHCC-------CCHHHHHHHHCC---CC--HHHHHHHHHhhCCC
Confidence            56677777762       369999999852   22  34899999998854

>d2cu7a1 a.4.1.3 (A:8-72) MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: MYSM1 (KIAA1915)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.62  E-value=1.6  Score=26.99  Aligned_cols=39  Identities=13%  Similarity=0.235  Sum_probs=28.1

Q ss_pred             hHHHHHHhhCCccccccccChHHHHHHhCCCCCCCcHHHHHHHHHHHhHHHH
Q 029808           78 RLFVEVTSRGGLGKVIRDRRWKEVVVVFNFPTTITSASFVLRKYYLSLLYHF  129 (187)
Q Consensus        78 ~Ly~~V~~~GG~~~V~~~k~W~eVa~~Lglp~~~t~a~~~Lk~~Y~kyLl~f  129 (187)
                      .|..+|...|.        .|..||..|+- .  +  ..+++..|.++|.+-
T Consensus        12 ~l~~~~~~~G~--------~W~~Ia~~~~~-R--t--~~q~k~ry~~~~~~~   50 (65)
T d2cu7a1          12 LFEQGLAKFGR--------RWTKISKLIGS-R--T--VLQVKSYARQYFKNK   50 (65)
T ss_dssp             HHHHHHHHTCS--------CHHHHHHHHSS-S--C--HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcc--------hHHHHHHHcCC-C--C--HHHHHHHHHHHHHHH
Confidence            45666776663        69999999862 2  2  338999999888754