Citrus Sinensis ID: 029974

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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
MSLDLASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPLQDPQLQKQHINLEDSITKDCGSSSKCNKFSSAFETAEHETPRMPPIRQKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLDKAAAYAEGTQKSNGFY
Secondary Structure (PSIPRED)
cccccccccEEEEEcccccEEEEEEEcccccccEEEEEccccccccEEcccccccccccccccHHHccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHccccccccccccccccccHHHHHHHHHHcccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccEEEEEEccccEEEEEEcccHHHccEEEEEccccccEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHccccHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccccEEcccccccccccccccccccccccHHccccc
Coil and Loop (DISEMBL)
msldlaseRVCYVHCNYCNTILAVSVpcsslfnivtvrcGHCANLLNVNMVSAlqavplqdpqlqkqhinledsitkdcgssskcnkfssafetaehetprmppirqkrqrvpSAYNRFIKEEIQRikasnpdishREAFSTAAknwahfphihfglkldgnkqaKLDKAAAYaegtqksngfy
Flexible Loop (DISEMBL)
MSLDLASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPLQDPQLQKQHINLEDSITKDCGSSSKCNKFSSAFetaehetprmppirqkrqrvpSAYNRFIKEEIqrikasnpdiSHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLDKAAAyaegtqksngfy
Low Complexity Region (SEG)
MSLDLASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPLQDPQLQKQHINLEDSITKDCGSSSKCNKFSSAFETAEHETPRMPPIRQKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLDKAAAYAEGTQKSNGFY
Disordered region (IsUnstruct)
*******ERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPL***********************************************************FI******************AFSTAAKNWAHFPHIHFGLKLDG***********************
Disordered Region (DISOPRED)
****LASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVS******************************************************************FIKEEIQRIKASNPDISHREAFSTAAKNWAHFP******************************GF*
Disordered Region (DISEMBL)
MSLDLASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPLQDPQLQKQHINLEDSITKDCGSSSKCNKFSSA**********MPPIRQKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLDKAAAYAEGTQKSNGFY
Disordered Region (DISPRO)
******SERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVP*******************************************MPPIRQKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLD************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooohhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSLDLASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPLQDPQLQKQHINLEDSITKDCGSSSKCNKFSSAFETAEHETPRMPPIRQKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLDKAAAYAEGTQKSNGFY
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	184	2.2.26 [Sep-21-2011]
Q9XFB0	184	Putative axial regulator	yes	no	0.961	0.961	0.649	2e-60
Q8GW46	164	Axial regulator YABBY 5 O	no	no	0.836	0.939	0.616	3e-50
Q10FZ7	186	Protein YABBY 2 OS=Oryza	yes	no	0.945	0.935	0.554	4e-47
Q2QM17	207	Protein YABBY 6 OS=Oryza	no	no	0.989	0.879	0.485	5e-43
Q0JBF0	266	Protein YABBY 5 OS=Oryza	no	no	0.961	0.665	0.444	7e-43
Q01JG2	266	Protein YABBY 5 OS=Oryza	N/A	no	0.961	0.665	0.444	7e-43
Q7XIM7	169	Protein YABBY 1 OS=Oryza	no	no	0.853	0.928	0.540	4e-42
O22152	229	Axial regulator YABBY 1 O	no	no	0.951	0.764	0.507	4e-42
Q6H668	256	Protein YABBY 4 OS=Oryza	no	no	0.836	0.601	0.494	2e-40
A2X7Q3	256	Protein YABBY 4 OS=Oryza	N/A	no	0.836	0.601	0.494	2e-40

>sp|Q9XFB0|YAB2_ARATH Putative axial regulator YABBY 2 OS=Arabidopsis thaliana GN=YAB2 PE=2 SV=1

 Score =  231 bits (590), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 124/191 (64%), Positives = 144/191 (75%), Gaps = 14/191 (7%)

Query: 1   MSLDLASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQ---AV 57
           MS+D +SERVCYVHC++C TILAVSVP +SLF +VTVRCGHC NLL++N+  +L    A 
Sbjct: 1   MSVDFSSERVCYVHCSFCTTILAVSVPYASLFTLVTVRCGHCTNLLSLNIGVSLHQTSAP 60

Query: 58  PL-QDPQLQKQHINLEDSITKDCGSSSKCNKFSSAFETAEHETPRMPPIR--QKRQRVPS 114
           P+ QD Q  +QH        KDC SSS+     S  E  + E PRMPPIR  +KRQRVPS
Sbjct: 61  PIHQDLQPHRQHTT-SLVTRKDCASSSRSTNNLS--ENIDREAPRMPPIRPPEKRQRVPS 117

Query: 115 AYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAK-LDKAAAY 173
           AYNRFIKEEIQRIKA NP+ISHREAFSTAAKNWAHFPHIHFGLKLDGNK+ K LD++ A 
Sbjct: 118 AYNRFIKEEIQRIKACNPEISHREAFSTAAKNWAHFPHIHFGLKLDGNKKGKQLDQSVA- 176

Query: 174 AEGTQKSNGFY 184
               QKSNG+Y
Sbjct: 177 ---GQKSNGYY 184

Involved in the abaxial cell fate determination during embryogenesis and organogenesis.
Arabidopsis thaliana (taxid: 3702)

>sp|Q8GW46|YAB5_ARATH Axial regulator YABBY 5 OS=Arabidopsis thaliana GN=YAB5 PE=2 SV=1

 Score =  197 bits (502), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 103/167 (61%), Positives = 124/167 (74%), Gaps = 13/167 (7%)

Query: 5   LASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPLQDPQL 64
           +A+E++CY+ CN+CN ILAV+VPCSSLF+IVTVRCGHC NL +VNM +ALQ+  L  P  
Sbjct: 6   MATEQLCYIPCNFCNIILAVNVPCSSLFDIVTVRCGHCTNLWSVNMAAALQS--LSRPNF 63

Query: 65  QKQHINLEDSITKDCGSSSKCN-KFSSAFET---AEHETPRMPPIRQKRQRVPSAYNRFI 120
           Q  +  + +      GSSS+ + K  S   T    E      PP  +KRQRVPSAYN+FI
Sbjct: 64  QATNYAVPEY-----GSSSRSHTKIPSRISTRTITEQRIVNRPP--EKRQRVPSAYNQFI 116

Query: 121 KEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKL 167
           KEEIQRIKA+NPDISHREAFSTAAKNWAHFPHIHFGL L+ NKQAK+
Sbjct: 117 KEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLESNKQAKI 163

Arabidopsis thaliana (taxid: 3702)

>sp|Q10FZ7|YAB2_ORYSJ Protein YABBY 2 OS=Oryza sativa subsp. japonica GN=YAB2 PE=2 SV=1

 Score =  187 bits (475), Expect = 4e-47,   Method: Compositional matrix adjust.
 Identities = 102/184 (55%), Positives = 126/184 (68%), Gaps = 10/184 (5%)

Query: 6   ASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPLQD---P 62
           A E VCYVHCN+CNTI AVSVP +S+ NIVTVRCGHC +LL+VN+   +QA+P +D    
Sbjct: 8   APEHVCYVHCNFCNTIFAVSVPSNSMLNIVTVRCGHCTSLLSVNLRGLVQALPAEDHLQD 67

Query: 63  QLQKQHINLEDSITKDCGSSSKCNKFSSAFET--AEHETPRMPPIRQKRQRVPSAYNRFI 120
            L+  +++  ++ + + GSSS+  +    F     EH     PP  +KRQRVPSAYNRFI
Sbjct: 68  NLKMHNMSFRENYS-EYGSSSRYGRVPMMFSKNDTEHMLHVRPP--EKRQRVPSAYNRFI 124

Query: 121 KEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLDKAAAYAEGTQKS 180
           KEEI+RIKA+NPDISHREAFSTAAKNWAHFP+IHFGL        KLD+A   A   QK 
Sbjct: 125 KEEIRRIKANNPDISHREAFSTAAKNWAHFPNIHFGLG-SHESSKKLDEAIG-APSPQKV 182

Query: 181 NGFY 184
              Y
Sbjct: 183 QRLY 186

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q2QM17|YAB6_ORYSJ Protein YABBY 6 OS=Oryza sativa subsp. japonica GN=YAB6 PE=2 SV=1

 Score =  173 bits (439), Expect = 5e-43,   Method: Compositional matrix adjust.
 Identities = 101/208 (48%), Positives = 125/208 (60%), Gaps = 26/208 (12%)

Query: 1   MSLDLA-SERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVP- 58
           MS  +A +E+VCYVHCN+CNTILAVSVP +S+ NIVTVRCGHC NLL+VN+   + + P 
Sbjct: 1   MSAQIAPAEQVCYVHCNFCNTILAVSVPGNSMLNIVTVRCGHCTNLLSVNLRGLMHSAPA 60

Query: 59  LQDPQLQK-QHINLEDSITKDCG-------------------SSSKCNKFSSAFETAEHE 98
           LQD      Q   L        G                   +++    +S   +  E  
Sbjct: 61  LQDHHHHHLQESGLSGCFRDQSGYPEFGFSAASSSSKLRLPPAAAAMVSYSQQNQQLEQA 120

Query: 99  TPRMPPIRQKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLK 158
               PP  +KRQRVPSAYNRFIKEEI+RIKA+NPDISHREAFSTAAKNWAH+P+IHFGL 
Sbjct: 121 LHARPP--EKRQRVPSAYNRFIKEEIRRIKANNPDISHREAFSTAAKNWAHYPNIHFGLS 178

Query: 159 L--DGNKQAKLDKAAAYAEGTQKSNGFY 184
              +G K+         A  ++K  GFY
Sbjct: 179 PGHEGGKKLVDVDPIPTAPSSKKIQGFY 206

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q0JBF0|YAB5_ORYSJ Protein YABBY 5 OS=Oryza sativa subsp. japonica GN=YAB5 PE=2 SV=1

 Score =  173 bits (438), Expect = 7e-43,   Method: Compositional matrix adjust.
 Identities = 97/218 (44%), Positives = 119/218 (54%), Gaps = 41/218 (18%)

Query: 8   ERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNM----------------- 50
           E++CYVHCN+C+TILAV VPCSSLF  VTVRCGHCANLL+VN+                 
Sbjct: 29  EQLCYVHCNFCDTILAVGVPCSSLFKTVTVRCGHCANLLSVNLRGLLLPAAASTANQLPF 88

Query: 51  ----------------VSALQAVPLQDPQLQKQHINLEDSITKDCGSSSKCNKFSSAFET 94
                           V + QA      +    +++   S    C +++     +SA   
Sbjct: 89  GQALLSPTSPHGLLDEVPSFQAPASLMTEQASPNVSSITSSNSSCANNAPATSMASAANK 148

Query: 95  AEHETPRMPP-------IRQKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNW 147
           A    P+ P          +KRQRVPSAYNRFIK+EIQRIKASNPDI+HREAFS AAKNW
Sbjct: 149 ATQREPQQPKNAPSANRTSEKRQRVPSAYNRFIKDEIQRIKASNPDITHREAFSAAAKNW 208

Query: 148 AHFPHIHFGLKLD-GNKQAKLDKAAAYAEGTQKSNGFY 184
           AHFPHIHFGL  D G K+  +       E     +G Y
Sbjct: 209 AHFPHIHFGLMPDQGLKKTGIQSQDGAGECMLFKDGLY 246

May be involved in leaf cell growth and differentiation, rather than abaxial cell fate determination.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q01JG2|YAB5_ORYSI Protein YABBY 5 OS=Oryza sativa subsp. indica GN=YAB5 PE=2 SV=2

 Score =  173 bits (438), Expect = 7e-43,   Method: Compositional matrix adjust.
 Identities = 97/218 (44%), Positives = 119/218 (54%), Gaps = 41/218 (18%)

Query: 8   ERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNM----------------- 50
           E++CYVHCN+C+TILAV VPCSSLF  VTVRCGHCANLL+VN+                 
Sbjct: 29  EQLCYVHCNFCDTILAVGVPCSSLFKTVTVRCGHCANLLSVNLRGLLLPAAASTANQLPF 88

Query: 51  ----------------VSALQAVPLQDPQLQKQHINLEDSITKDCGSSSKCNKFSSAFET 94
                           V + QA      +    +++   S    C +++     +SA   
Sbjct: 89  GQALLSPTSPHGLLDEVPSFQAPASLMTEQASPNVSSITSSNSSCANNAPATSMASAANK 148

Query: 95  AEHETPRMPP-------IRQKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNW 147
           A    P+ P          +KRQRVPSAYNRFIK+EIQRIKASNPDI+HREAFS AAKNW
Sbjct: 149 ATQREPQQPKNAPSANRTSEKRQRVPSAYNRFIKDEIQRIKASNPDITHREAFSAAAKNW 208

Query: 148 AHFPHIHFGLKLD-GNKQAKLDKAAAYAEGTQKSNGFY 184
           AHFPHIHFGL  D G K+  +       E     +G Y
Sbjct: 209 AHFPHIHFGLMPDQGLKKTGIQSQDGAGECMLFKDGLY 246

May be involved in leaf cell growth and differentiation, rather than abaxial cell fate determination.

Oryza sativa subsp. indica (taxid: 39946)

>sp|Q7XIM7|YAB1_ORYSJ Protein YABBY 1 OS=Oryza sativa subsp. japonica GN=YAB1 PE=2 SV=1

 Score =  170 bits (431), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 87/161 (54%), Positives = 112/161 (69%), Gaps = 4/161 (2%)

Query: 1   MSLDLASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPLQ 60
           MS+   SE VCYV+CNYCNTIL V+VP +  +NIVTVRCGHC  +L++++    QA  +Q
Sbjct: 1   MSVQFTSEHVCYVNCNYCNTILVVNVPNNCSYNIVTVRCGHCTMVLSMDLAPFHQARTVQ 60

Query: 61  DPQLQKQHINLEDSITKDCGSSSKCNKFSSAFETAEHETPRMPPIR--QKRQRVPSAYNR 118
           D Q+Q +     +  + D  S ++  + S+A         ++ PIR  +KRQRVPSAYNR
Sbjct: 61  DHQVQNRGFQGNNFGSYDIASRNQ--RTSTAMYPMPTSQQQVSPIRPPEKRQRVPSAYNR 118

Query: 119 FIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKL 159
           FIKEEIQRIK SNP+ISHREAFS AAKNWAH P +HFGL +
Sbjct: 119 FIKEEIQRIKTSNPEISHREAFSAAAKNWAHLPRLHFGLSV 159

May play a role in floral meristem development and maintenance of stamens, rather than in determining polarity in floral organs.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|O22152|YAB1_ARATH Axial regulator YABBY 1 OS=Arabidopsis thaliana GN=YAB1 PE=1 SV=1

 Score =  170 bits (431), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 101/199 (50%), Positives = 121/199 (60%), Gaps = 24/199 (12%)

Query: 7   SERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPLQDPQLQK 66
           S+ +CYV CN+C TILAV+VP +SLF  VTVRCG C NLL+VNM S +  +P  + QLQ 
Sbjct: 22  SDHLCYVQCNFCQTILAVNVPYTSLFKTVTVRCGCCTNLLSVNMRSYV--LPASN-QLQL 78

Query: 67  Q-----HINLEDSIT--KDCGSS---------SKCNKFSSAFET-AEHETPRMPPIR--- 106
           Q     + N +D +   +D  S+            N   S  +   +HE P+ PP+    
Sbjct: 79  QLGPHSYFNPQDILEELRDAPSNMNMMMMNQHPTMNDIPSFMDLHQQHEIPKAPPVNRPP 138

Query: 107 QKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAK 166
           +KRQRVPSAYNRFIKEEIQRIKA NPDISHREAFS AAKNWAHFPHIHFGL  D     K
Sbjct: 139 EKRQRVPSAYNRFIKEEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLVPDNQPVKK 198

Query: 167 LDKAAAYAEGTQ-KSNGFY 184
            +      E       GFY
Sbjct: 199 TNMPQQEGEDNMVMKEGFY 217

Involved in the abaxial cell fate determination during embryogenesis and organogenesis. Required during flower formation and development, particularly for the patterning of floral organs. Positive regulator of class B (AP3 and PI) activity in whorls 2 and 3. Negative regulator of class B activity in whorl 1 and of SUP activity in whorl 3. Interacts with class A proteins (AP1, AP2 and LUG) to repress class C (AG) activity in whorls 1 and 2. Contributes to the repression of KNOX genes (STM, KNAT1/BP and KNAT2) to avoid ectopic meristems. Binds DNA without sequence specificity. In vitro, can compete and displace the AP1 protein binding to DNA containing CArG box.

Arabidopsis thaliana (taxid: 3702)

>sp|Q6H668|YAB4_ORYSJ Protein YABBY 4 OS=Oryza sativa subsp. japonica GN=YAB4 PE=2 SV=1

 Score =  164 bits (416), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 96/194 (49%), Positives = 109/194 (56%), Gaps = 40/194 (20%)

Query: 7   SERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSA------------- 53
           +E++CYVHCN C+TILAV VPCSSLF  VTVRCGHCANLL+VN+                
Sbjct: 22  TEQLCYVHCNCCDTILAVGVPCSSLFKTVTVRCGHCANLLSVNLRGLLLPAPAPAPANQL 81

Query: 54  ---------------LQAVPLQDPQLQKQHINLEDSITKDCGSSSKCNKFSSAFETA--- 95
                          L  V  Q P L  +        +    SSS C   + A +     
Sbjct: 82  HFGPSLLSPTSPHGLLDEVAFQTPSLLMEQAASASLSSITGRSSSSCASNAPAMQMPPAK 141

Query: 96  ----EHETPRMPPIR-----QKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKN 146
               E E P+  P       +KRQRVPSAYNRFIK+EIQRIKA NPDISHREAFS AAKN
Sbjct: 142 PVQQEPELPKNAPASANRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKN 201

Query: 147 WAHFPHIHFGLKLD 160
           WAHFPHIHFGL  D
Sbjct: 202 WAHFPHIHFGLMPD 215

Seems to be associated with phloem cell differentiation.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|A2X7Q3|YAB4_ORYSI Protein YABBY 4 OS=Oryza sativa subsp. indica GN=YAB4 PE=2 SV=1

 Score =  164 bits (416), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 96/194 (49%), Positives = 109/194 (56%), Gaps = 40/194 (20%)

Query: 7   SERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSA------------- 53
           +E++CYVHCN C+TILAV VPCSSLF  VTVRCGHCANLL+VN+                
Sbjct: 22  TEQLCYVHCNCCDTILAVGVPCSSLFKTVTVRCGHCANLLSVNLRGLLLPAPAPAPANQL 81

Query: 54  ---------------LQAVPLQDPQLQKQHINLEDSITKDCGSSSKCNKFSSAFETA--- 95
                          L  V  Q P L  +        +    SSS C   + A +     
Sbjct: 82  HFGPSLLSPTSPHGLLDEVAFQTPSLLMEQAASASLSSITGRSSSSCASNAPAMQMPPAK 141

Query: 96  ----EHETPRMPPIR-----QKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKN 146
               E E P+  P       +KRQRVPSAYNRFIK+EIQRIKA NPDISHREAFS AAKN
Sbjct: 142 PVQQEPELPKNAPASANRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKN 201

Query: 147 WAHFPHIHFGLKLD 160
           WAHFPHIHFGL  D
Sbjct: 202 WAHFPHIHFGLMPD 215

Oryza sativa subsp. indica (taxid: 39946)

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	184
427199347	181	YABBY2-like transcription factor YAB2 [M	0.956	0.972	0.814	4e-80
225436100	183	PREDICTED: putative axial regulator YABB	0.983	0.989	0.790	5e-79
118487174	191	unknown [Populus trichocarpa]	0.994	0.958	0.747	3e-74
224058941	185	predicted protein [Populus trichocarpa]	0.994	0.989	0.747	4e-74
255549657	190	Axial regulator YABBY2, putative [Ricinu	0.989	0.957	0.774	2e-71
351727853	183	uncharacterized protein LOC100500091 [Gl	0.961	0.967	0.721	3e-71
255638173	181	unknown [Glycine max]	0.956	0.972	0.714	3e-70
356550042	181	PREDICTED: putative axial regulator YABB	0.956	0.972	0.708	8e-70
356543672	179	PREDICTED: putative axial regulator YABB	0.951	0.977	0.707	5e-69
356550046	188	PREDICTED: putative axial regulator YABB	0.956	0.936	0.678	1e-68

>gi|427199347|gb|AFY26892.1| YABBY2-like transcription factor YAB2 [Morella rubra]

 Score =  302 bits (774), Expect = 4e-80,   Method: Compositional matrix adjust.
 Identities = 154/189 (81%), Positives = 166/189 (87%), Gaps = 13/189 (6%)

Query: 1   MSLDL--ASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVP 58
           MSLD+  ASERVCYVHCN+CNTILAVSVPCSSLF IVTVRCGHCANLL+VNM ++LQAVP
Sbjct: 1   MSLDMMMASERVCYVHCNFCNTILAVSVPCSSLFTIVTVRCGHCANLLSVNMGASLQAVP 60

Query: 59  LQDPQLQKQHINLEDSITKDCGSSSKCNKFSSAFETAEHETPRMPPIR--QKRQRVPSAY 116
            QD Q  KQH+     I++DCGSSSKCNKFS AFET EHE PRMPPIR  +KRQRVPSAY
Sbjct: 61  PQDSQ--KQHV-----ISEDCGSSSKCNKFS-AFETVEHEQPRMPPIRPPEKRQRVPSAY 112

Query: 117 NRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLDKAAAYAE- 175
           NRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLD+  A ++ 
Sbjct: 113 NRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLDQTLAGSDQ 172

Query: 176 GTQKSNGFY 184
           GTQ SNGFY
Sbjct: 173 GTQNSNGFY 181

Source: Morella rubra

Species: Morella rubra

Genus: Morella

Family: Myricaceae

Order: Fagales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225436100|ref|XP_002277937.1| PREDICTED: putative axial regulator YABBY 2 [Vitis vinifera] gi|296084019|emb|CBI24407.3| unnamed protein product [Vitis vinifera]

 Score =  298 bits (764), Expect = 5e-79,   Method: Compositional matrix adjust.
 Identities = 147/186 (79%), Positives = 162/186 (87%), Gaps = 5/186 (2%)

Query: 1   MSLDLASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPLQ 60
           MSLD+  ERVCYVHCN+CNTILAVSVPC+SLF IVTVRCGHCANLL+VNM + LQ VP Q
Sbjct: 1   MSLDITPERVCYVHCNFCNTILAVSVPCTSLFTIVTVRCGHCANLLSVNMGALLQTVPTQ 60

Query: 61  DPQLQKQHINLEDSITKDCGSSSKCNKFSSAFETAEHETPRMPPIR--QKRQRVPSAYNR 118
           D Q QKQ ++  D  ++DCGSSSKCNKFS AFE+AEHE PRMPPIR  +KRQRVPSAYNR
Sbjct: 61  DLQSQKQQLSCGDP-SEDCGSSSKCNKFS-AFESAEHEQPRMPPIRPPEKRQRVPSAYNR 118

Query: 119 FIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLDKAAAYAEGTQ 178
           FIKEEIQRIKASNPDI+HREAFSTAAKNWAHFPHIHFGLKLDGNKQ KLD+A A  EG  
Sbjct: 119 FIKEEIQRIKASNPDITHREAFSTAAKNWAHFPHIHFGLKLDGNKQGKLDQAFA-GEGPH 177

Query: 179 KSNGFY 184
           K++GFY
Sbjct: 178 KAHGFY 183

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118487174|gb|ABK95415.1| unknown [Populus trichocarpa]

 Score =  283 bits (723), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 139/186 (74%), Positives = 154/186 (82%), Gaps = 3/186 (1%)

Query: 1   MSLDLASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPLQ 60
           MSL+L SE VCYVHCN CNTILAVSVP SSLFNIVTVRCGHC NLL+VNM ++LQ +PLQ
Sbjct: 1   MSLELVSEPVCYVHCNLCNTILAVSVPSSSLFNIVTVRCGHCGNLLSVNMGASLQTLPLQ 60

Query: 61  DPQLQKQHINLEDSITKDCGSSSKCNKFSSAFETAEHETPRMPPIR--QKRQRVPSAYNR 118
           DPQ QK  +   + + K+ GSSSKCNK + A E+ EHE PRMP IR  +KRQRVPSAYNR
Sbjct: 61  DPQSQKLLLINSEDLNKNFGSSSKCNKVT-ASESTEHEPPRMPAIRPPEKRQRVPSAYNR 119

Query: 119 FIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLDKAAAYAEGTQ 178
           FIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLD NK AKLD  +   EGTQ
Sbjct: 120 FIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDSNKHAKLDHQSFAGEGTQ 179

Query: 179 KSNGFY 184
           K++G Y
Sbjct: 180 KTSGLY 185

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224058941|ref|XP_002299655.1| predicted protein [Populus trichocarpa] gi|222846913|gb|EEE84460.1| predicted protein [Populus trichocarpa]

 Score =  282 bits (722), Expect = 4e-74,   Method: Compositional matrix adjust.
 Identities = 139/186 (74%), Positives = 154/186 (82%), Gaps = 3/186 (1%)

Query: 1   MSLDLASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPLQ 60
           MSL+L SE VCYVHCN CNTILAVSVP SSLFNIVTVRCGHC NLL+VNM ++LQ +PLQ
Sbjct: 1   MSLELVSEPVCYVHCNLCNTILAVSVPSSSLFNIVTVRCGHCGNLLSVNMGASLQTLPLQ 60

Query: 61  DPQLQKQHINLEDSITKDCGSSSKCNKFSSAFETAEHETPRMPPIR--QKRQRVPSAYNR 118
           DPQ QK  +   + + K+ GSSSKCNK + A E+ EHE PRMP IR  +KRQRVPSAYNR
Sbjct: 61  DPQSQKLLLINSEDLNKNFGSSSKCNKVT-ASESTEHEPPRMPAIRPPEKRQRVPSAYNR 119

Query: 119 FIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLDKAAAYAEGTQ 178
           FIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLD NK AKLD  +   EGTQ
Sbjct: 120 FIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDSNKHAKLDHQSFAGEGTQ 179

Query: 179 KSNGFY 184
           K++G Y
Sbjct: 180 KTSGLY 185

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255549657|ref|XP_002515880.1| Axial regulator YABBY2, putative [Ricinus communis] gi|223545035|gb|EEF46549.1| Axial regulator YABBY2, putative [Ricinus communis]

 Score =  273 bits (699), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 144/186 (77%), Positives = 157/186 (84%), Gaps = 4/186 (2%)

Query: 1   MSLDLASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPLQ 60
           MSL+L SERVCYVHCN+CNTILAVSVP S+L  IVTVRCGH ANLL+VNM  +LQ  PLQ
Sbjct: 1   MSLELVSERVCYVHCNFCNTILAVSVPSSNLLTIVTVRCGHGANLLSVNMGGSLQTFPLQ 60

Query: 61  DPQLQKQHINLEDSITKDCGSSSKCNKFSSAFETAEHETPRMPPIR--QKRQRVPSAYNR 118
           DPQ QK  +N ED + KD GSSSKCNK +S FE+A++E PRMPPIR  +KRQRVPSAYNR
Sbjct: 61  DPQSQKVQLNSED-LNKDTGSSSKCNKVTS-FESADNEPPRMPPIRPPEKRQRVPSAYNR 118

Query: 119 FIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLDKAAAYAEGTQ 178
           FIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNK AK+D     AE TQ
Sbjct: 119 FIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKHAKIDHQTFGAESTQ 178

Query: 179 KSNGFY 184
           KSNG Y
Sbjct: 179 KSNGLY 184

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351727853|ref|NP_001236663.1| uncharacterized protein LOC100500091 [Glycine max] gi|255629073|gb|ACU14881.1| unknown [Glycine max]

 Score =  273 bits (697), Expect = 3e-71,   Method: Compositional matrix adjust.
 Identities = 137/190 (72%), Positives = 158/190 (83%), Gaps = 13/190 (6%)

Query: 1   MSLDL-ASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPL 59
           MS+++ A+ERVCYVHCN+CNTILAVSVP SSL  IVTVRCGHCANLL+VNM ++LQA P 
Sbjct: 1   MSMEMMATERVCYVHCNFCNTILAVSVPYSSLLTIVTVRCGHCANLLSVNMGASLQAFPP 60

Query: 60  QDPQLQKQHINLEDSITKDCGSSSKCNKFSSAFETAEHETPRMPPIR--QKRQRVPSAYN 117
           QDPQ  KQH++ ++  +K+ GSSSKC+K +  FE  EHE PR+PPIR  +KR RVPSAYN
Sbjct: 61  QDPQ--KQHLSFQEPSSKELGSSSKCSKIA-PFEAVEHELPRIPPIRPTEKRHRVPSAYN 117

Query: 118 RFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFG---LKLDGNKQAKLDKAAAYA 174
           RFIKEEIQRIKASNPDISHREAFS+AAKNWAHFPHIHFG   LKLDGNKQ KLD+     
Sbjct: 118 RFIKEEIQRIKASNPDISHREAFSSAAKNWAHFPHIHFGLKNLKLDGNKQEKLDQ----G 173

Query: 175 EGTQKSNGFY 184
           EG +KSNGFY
Sbjct: 174 EGAEKSNGFY 183

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255638173|gb|ACU19400.1| unknown [Glycine max]

 Score =  270 bits (689), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 135/189 (71%), Positives = 155/189 (82%), Gaps = 13/189 (6%)

Query: 1   MSLDL-ASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPL 59
           MS+D+ A+ERVCYVHCN+CNT LAVSVPCSSL  IVTVRCGHCANLL VNM ++LQ  P 
Sbjct: 1   MSMDMMATERVCYVHCNFCNTTLAVSVPCSSLLTIVTVRCGHCANLLTVNMGASLQTFPS 60

Query: 60  QDP-QLQKQHINLEDSITKDCGSSSKCNKFSSAFETAEHETPRMPPIR---QKRQRVPSA 115
           QD  QLQ+QH++++++ +K+ GSSSKC     +FET +HE     P     +KRQRVPSA
Sbjct: 61  QDTTQLQRQHLSVQEACSKELGSSSKCK----SFETVDHEQQPRIPPIRPPEKRQRVPSA 116

Query: 116 YNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLDKAAAYAE 175
           YNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLD+     +
Sbjct: 117 YNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLDQ----GD 172

Query: 176 GTQKSNGFY 184
           GTQKSNGFY
Sbjct: 173 GTQKSNGFY 181

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356550042|ref|XP_003543399.1| PREDICTED: putative axial regulator YABBY 2-like isoform 1 [Glycine max]

 Score =  268 bits (685), Expect = 8e-70,   Method: Compositional matrix adjust.
 Identities = 134/189 (70%), Positives = 154/189 (81%), Gaps = 13/189 (6%)

Query: 1   MSLDL-ASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPL 59
           MS+D+ A+ERVCYVHCN+CNT LAVSVPCSSL  IVTVRCGHCANLL VNM ++LQ  P 
Sbjct: 1   MSMDMMATERVCYVHCNFCNTTLAVSVPCSSLLTIVTVRCGHCANLLTVNMGASLQTFPS 60

Query: 60  QDP-QLQKQHINLEDSITKDCGSSSKCNKFSSAFETAEHETPRMPPIR---QKRQRVPSA 115
           QD  QLQ+QH++++++ +K+ GSSSKC      FET +H+     P     +KRQRVPSA
Sbjct: 61  QDTTQLQRQHLSVQEACSKELGSSSKCK----TFETVDHDQQPRIPPIRPPEKRQRVPSA 116

Query: 116 YNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLDKAAAYAE 175
           YNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLD+     +
Sbjct: 117 YNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLDQ----GD 172

Query: 176 GTQKSNGFY 184
           GTQKSNGFY
Sbjct: 173 GTQKSNGFY 181

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356543672|ref|XP_003540284.1| PREDICTED: putative axial regulator YABBY 2-like isoform 1 [Glycine max]

 Score =  265 bits (678), Expect = 5e-69,   Method: Compositional matrix adjust.
 Identities = 133/188 (70%), Positives = 153/188 (81%), Gaps = 13/188 (6%)

Query: 1   MSLDL-ASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPL 59
           MS+D+ A+ERVCYVHCN+CNT LAVSVPCSSL  IVTVRCGHCANLL VNM ++LQ  P 
Sbjct: 1   MSMDMMATERVCYVHCNFCNTTLAVSVPCSSLLTIVTVRCGHCANLLTVNMGASLQTFPS 60

Query: 60  QDPQLQKQHINLEDSITKDCGSSSKCNKFSSAFETAEHETPRMPPIR---QKRQRVPSAY 116
           QD   Q+QH++++++ +K+ GSSSKC     +FET +HE     P     +KRQRVPSAY
Sbjct: 61  QDT-TQRQHLSVQEACSKELGSSSKCK----SFETVDHEQQPRIPPIRPPEKRQRVPSAY 115

Query: 117 NRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLDKAAAYAEG 176
           NRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLD+     +G
Sbjct: 116 NRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLDQ----GDG 171

Query: 177 TQKSNGFY 184
           TQKSNGFY
Sbjct: 172 TQKSNGFY 179

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356550046|ref|XP_003543401.1| PREDICTED: putative axial regulator YABBY 2-like isoform 3 [Glycine max]

 Score =  264 bits (674), Expect = 1e-68,   Method: Compositional matrix adjust.
 Identities = 133/196 (67%), Positives = 154/196 (78%), Gaps = 20/196 (10%)

Query: 1   MSLDL-ASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPL 59
           MS+D+ A+ERVCYVHCN+CNT LAVSVPCSSL  IVTVRCGHCANLL VNM ++LQ  P 
Sbjct: 1   MSMDMMATERVCYVHCNFCNTTLAVSVPCSSLLTIVTVRCGHCANLLTVNMGASLQTFPS 60

Query: 60  QDP--------QLQKQHINLEDSITKDCGSSSKCNKFSSAFETAEHETPRMPPIR---QK 108
           QD         +LQ+QH++++++ +K+ GSSSKC      FET +H+     P     +K
Sbjct: 61  QDTTQRFSTVGKLQRQHLSVQEACSKELGSSSKCK----TFETVDHDQQPRIPPIRPPEK 116

Query: 109 RQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLD 168
           RQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLD
Sbjct: 117 RQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLD 176

Query: 169 KAAAYAEGTQKSNGFY 184
           +     +GTQKSNGFY
Sbjct: 177 Q----GDGTQKSNGFY 188

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	184
TAIR|locus:2826731	184	YAB2 "YABBY2" [Arabidopsis tha	0.956	0.956	0.666	4e-58
TAIR|locus:2066311	164	YAB5 "YABBY5" [Arabidopsis tha	0.836	0.939	0.616	3.7e-48
UNIPROTKB|Q7XIM7	169	YAB1 "Protein YABBY 1" [Oryza	0.864	0.940	0.542	5.9e-41
TAIR|locus:2028020	231	INO "INNER NO OUTER" [Arabidop	0.809	0.645	0.425	5.6e-29
UNIPROTKB|Q76EJ0	194	DL "Protein DROOPING LEAF" [Or	0.760	0.721	0.467	1.9e-28
TAIR|locus:2026418	181	CRC "AT1G69180" [Arabidopsis t	0.75	0.762	0.462	4.5e-27
TAIR|locus:2005492	229	AFO "AT2G45190" [Arabidopsis t	0.483	0.388	0.634	3.2e-26
TAIR|locus:2126931	240	YAB3 "YABBY3" [Arabidopsis tha	0.918	0.704	0.419	3.2e-26

TAIR|locus:2826731 YAB2 "YABBY2" [Arabidopsis thaliana (taxid:3702)]

 Score = 597 (215.2 bits), Expect = 4.0e-58, P = 4.0e-58
 Identities = 128/192 (66%), Positives = 148/192 (77%)

Query:     1 MSLDLASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNM-VSALQ--AV 57
             MS+D +SERVCYVHC++C TILAVSVP +SLF +VTVRCGHC NLL++N+ VS  Q  A 
Sbjct:     1 MSVDFSSERVCYVHCSFCTTILAVSVPYASLFTLVTVRCGHCTNLLSLNIGVSLHQTSAP 60

Query:    58 PL-QDPQLQKQHINLEDSIT-KDCGSSSKCNKFSSAFETAEHETPRMPPIR--QKRQRVP 113
             P+ QD Q  +QH      +T KDC SSS+     S  E  + E PRMPPIR  +KRQRVP
Sbjct:    61 PIHQDLQPHRQHTT--SLVTRKDCASSSRSTNNLS--ENIDREAPRMPPIRPPEKRQRVP 116

Query:   114 SAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAK-LDKAAA 172
             SAYNRFIKEEIQRIKA NP+ISHREAFSTAAKNWAHFPHIHFGLKLDGNK+ K LD++ A
Sbjct:   117 SAYNRFIKEEIQRIKACNPEISHREAFSTAAKNWAHFPHIHFGLKLDGNKKGKQLDQSVA 176

Query:   173 YAEGTQKSNGFY 184
                G QKSNG+Y
Sbjct:   177 ---G-QKSNGYY 184

GO:0005634 "nucleus" evidence=ISM

GO:0010158 "abaxial cell fate specification" evidence=IDA

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

TAIR|locus:2066311 YAB5 "YABBY5" [Arabidopsis thaliana (taxid:3702)]

 Score = 503 (182.1 bits), Expect = 3.7e-48, P = 3.7e-48
 Identities = 103/167 (61%), Positives = 124/167 (74%)

Query:     5 LASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPLQDPQL 64
             +A+E++CY+ CN+CN ILAV+VPCSSLF+IVTVRCGHC NL +VNM +ALQ+  L  P  
Sbjct:     6 MATEQLCYIPCNFCNIILAVNVPCSSLFDIVTVRCGHCTNLWSVNMAAALQS--LSRPNF 63

Query:    65 QKQHINLEDSITKDCGSSSKCN-KFSSAFET---AEHETPRMPPIRQKRQRVPSAYNRFI 120
             Q  +  + +      GSSS+ + K  S   T    E      PP  +KRQRVPSAYN+FI
Sbjct:    64 QATNYAVPEY-----GSSSRSHTKIPSRISTRTITEQRIVNRPP--EKRQRVPSAYNQFI 116

Query:   121 KEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKL 167
             KEEIQRIKA+NPDISHREAFSTAAKNWAHFPHIHFGL L+ NKQAK+
Sbjct:   117 KEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLESNKQAKI 163

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

GO:0006417 "regulation of translation" evidence=RCA

GO:0009657 "plastid organization" evidence=RCA

GO:0009965 "leaf morphogenesis" evidence=RCA

GO:0030154 "cell differentiation" evidence=RCA

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

UNIPROTKB|Q7XIM7 YAB1 "Protein YABBY 1" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 435 (158.2 bits), Expect = 5.9e-41, P = 5.9e-41
 Identities = 89/164 (54%), Positives = 114/164 (69%)

Query:     1 MSLDLASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPLQ 60
             MS+   SE VCYV+CNYCNTIL V+VP +  +NIVTVRCGHC  +L++++    QA  +Q
Sbjct:     1 MSVQFTSEHVCYVNCNYCNTILVVNVPNNCSYNIVTVRCGHCTMVLSMDLAPFHQARTVQ 60

Query:    61 DPQLQKQHINLEDSITKDCGSSSKCNKFSSAFETAEHETPRMPPIR--QKRQRVPSAYNR 118
             D Q+Q +     +  + D  S ++  + S+A         ++ PIR  +KRQRVPSAYNR
Sbjct:    61 DHQVQNRGFQGNNFGSYDIASRNQ--RTSTAMYPMPTSQQQVSPIRPPEKRQRVPSAYNR 118

Query:   119 FIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKL-DG 161
             FIKEEIQRIK SNP+ISHREAFS AAKNWAH P +HFGL + DG
Sbjct:   119 FIKEEIQRIKTSNPEISHREAFSAAAKNWAHLPRLHFGLSVADG 162

GO:0005634 "nucleus" evidence=IDA

GO:0048833 "specification of floral organ number" evidence=IMP

TAIR|locus:2028020 INO "INNER NO OUTER" [Arabidopsis thaliana (taxid:3702)]

 Score = 322 (118.4 bits), Expect = 5.6e-29, P = 5.6e-29
 Identities = 71/167 (42%), Positives = 102/167 (61%)

Query:     4 DLASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPLQD-- 61
             DL  + +C+V C +C TIL VSVP +SL  +VTVRCGHC +LL+VN++ A   +PL    
Sbjct:    16 DLPGQ-ICHVQCGFCTTILLVSVPFTSLSMVVTVRCGHCTSLLSVNLMKA-SFIPLHLLA 73

Query:    62 -----PQLQKQHINLEDSITKDCG--SSSKCNKFSSAFETAEHETPRMPPIRQ------- 107
                   +  K+ +   D + ++    +  K N  ++   ++++E   +  + Q       
Sbjct:    74 SLSHLDETGKEEVAATDGVEEEAWKVNQEKENSPTTLVSSSDNEDEDVSRVYQVVNKPPE 133

Query:   108 KRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIH 154
             KRQR PSAYN FIKEEI+R+KA NP ++H+EAFS AAKNWAHFP  H
Sbjct:   134 KRQRAPSAYNCFIKEEIRRLKAQNPSMAHKEAFSLAAKNWAHFPPAH 180

GO:0005634 "nucleus" evidence=ISM;IDA

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

GO:0009944 "polarity specification of adaxial/abaxial axis" evidence=IDA

GO:0048481 "ovule development" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

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

UNIPROTKB|Q76EJ0 DL "Protein DROOPING LEAF" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 317 (116.6 bits), Expect = 1.9e-28, P = 1.9e-28
 Identities = 71/152 (46%), Positives = 89/152 (58%)

Query:     1 MSLDLASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPLQ 60
             M L   SE +CYV C YCNT+LAV VPC  L + VTV+CGHC NL   + +S     P+ 
Sbjct:     1 MDLVSPSEHLCYVRCTYCNTVLAVGVPCKRLMDTVTVKCGHCNNL---SFLSPRP--PMV 55

Query:    61 DPQLQKQH-INLEDSITKDCGSSSKCNKFSSAFETAEHETPRMPPI---RQKRQRVPSAY 116
              P     H +        DC  +      S    T+   +PR P +    +K+ R+PSAY
Sbjct:    56 QPLSPTDHPLGPFQGPCTDCRRNQPLPLVSP---TSNEGSPRAPFVVKPPEKKHRLPSAY 112

Query:   117 NRFIKEEIQRIKASNPDISHREAFSTAAKNWA 148
             NRF++EEIQRIKA+ PDI HREAFS AAKNWA
Sbjct:   113 NRFMREEIQRIKAAKPDIPHREAFSMAAKNWA 144

GO:0010022 "meristem determinacy" evidence=IGI;IMP

GO:0048366 "leaf development" evidence=IMP

GO:0048440 "carpel development" evidence=IMP

TAIR|locus:2026418 CRC "AT1G69180" [Arabidopsis thaliana (taxid:3702)]

 Score = 304 (112.1 bits), Expect = 4.5e-27, P = 4.5e-27
 Identities = 67/145 (46%), Positives = 90/145 (62%)

Query:     7 SERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQA-VPLQDPQLQ 65
             +E + YV C+ CNTILAV +P   + + VTV+CGHC NL  +     LQ  V L    LQ
Sbjct:    18 AEHLYYVRCSICNTILAVGIPLKRMLDTVTVKCGHCGNLSFLTTTPPLQGHVSLT---LQ 74

Query:    66 KQHINLEDSITKDCGSSSKCNKFSSAFETAEHETPRMPPIRQKRQRVPSAYNRFIKEEIQ 125
              Q     D   K  GSSS  +  +S+ +      P +    +K+QR+PSAYNRF+++EIQ
Sbjct:    75 MQSFGGSD-YKK--GSSSSSSSSTSSDQPPSPSPPFVVKPPEKKQRLPSAYNRFMRDEIQ 131

Query:   126 RIKASNPDISHREAFSTAAKNWAHF 150
             RIK++NP+I HREAFS AAKNWA +
Sbjct:   132 RIKSANPEIPHREAFSAAAKNWAKY 156

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

GO:0005634 "nucleus" evidence=ISM

GO:0010254 "nectary development" evidence=IMP

GO:0048440 "carpel development" evidence=RCA;IMP

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

GO:0009944 "polarity specification of adaxial/abaxial axis" evidence=TAS

GO:0010582 "floral meristem determinacy" evidence=IGI

GO:0048479 "style development" evidence=IMP

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

GO:0009827 "plant-type cell wall modification" evidence=RCA

GO:0009860 "pollen tube growth" evidence=RCA

GO:0009886 "post-embryonic morphogenesis" evidence=RCA

GO:0009909 "regulation of flower development" evidence=RCA

GO:0010093 "specification of floral organ identity" evidence=RCA

GO:0031540 "regulation of anthocyanin biosynthetic process" evidence=RCA

GO:0048441 "petal development" evidence=RCA

GO:0048443 "stamen development" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

GO:0048507 "meristem development" evidence=RCA

TAIR|locus:2005492 AFO "AT2G45190" [Arabidopsis thaliana (taxid:3702)]

 Score = 296 (109.3 bits), Expect = 3.2e-26, P = 3.2e-26
 Identities = 59/93 (63%), Positives = 64/93 (68%)

Query:    96 EHETPRMPPIR---QKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPH 152
             +HE P+ PP+    +KRQRVPSAYNRFIKEEIQRIKA NPDISHREAFS AAKNWAHFPH
Sbjct:   125 QHEIPKAPPVNRPPEKRQRVPSAYNRFIKEEIQRIKAGNPDISHREAFSAAAKNWAHFPH 184

Query:   153 IHFGLKLDGNKQAKLDKAAAYAEGTQ-KSNGFY 184
             IHFGL  D     K +      E       GFY
Sbjct:   185 IHFGLVPDNQPVKKTNMPQQEGEDNMVMKEGFY 217

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

GO:0005634 "nucleus" evidence=ISM;TAS

GO:0009944 "polarity specification of adaxial/abaxial axis" evidence=ISS

GO:0009909 "regulation of flower development" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

GO:0010154 "fruit development" evidence=IMP

GO:0010158 "abaxial cell fate specification" evidence=IGI

GO:0010159 "specification of organ position" evidence=IMP

GO:0010093 "specification of floral organ identity" evidence=IMP

GO:0010450 "inflorescence meristem growth" evidence=IMP

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

GO:0009737 "response to abscisic acid stimulus" evidence=RCA

GO:0009793 "embryo development ending in seed dormancy" evidence=RCA

GO:0009845 "seed germination" evidence=RCA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010103 "stomatal complex morphogenesis" evidence=RCA

GO:0010162 "seed dormancy process" evidence=RCA

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=RCA

GO:0016226 "iron-sulfur cluster assembly" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

GO:0009933 "meristem structural organization" evidence=IMP

GO:0045165 "cell fate commitment" evidence=IMP

TAIR|locus:2126931 YAB3 "YABBY3" [Arabidopsis thaliana (taxid:3702)]

 Score = 296 (109.3 bits), Expect = 3.2e-26, P = 3.2e-26
 Identities = 76/181 (41%), Positives = 96/181 (53%)

Query:    13 VHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPLQDPQLQKQHINLE 72
             V C +C+ +L+V+V   +L        GH  + L          + L++ +   Q+IN+ 
Sbjct:    52 VRCGHCSNLLSVTVSMRALLLPSVSNLGH--SFLPPPPPPPPPNL-LEEMRSGGQNINMN 108

Query:    73 DSITKDCGSSSKCNKFSSAFE---TAEH--ETPRMPPIR---QKRQRVPSAYNRFIKEEI 124
               ++    +         A     + +H  E PR PP     +KRQRVPSAYNRFIKEEI
Sbjct:   109 MMMSHHASAHHPNEHLVMATRNGRSVDHLQEMPRPPPANRPPEKRQRVPSAYNRFIKEEI 168

Query:   125 QRIKASNPDISHREAFSTAAKNWAHFPHIHFGLKLDGNKQAKLDKAAAYAE-GTQKSNGF 183
             QRIKA NPDISHREAFS AAKNWAHFPHIHFGL  D     K +      E G     GF
Sbjct:   169 QRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMADHPPTKKANVRQQEGEDGMMGREGF 228

Query:   184 Y 184
             Y
Sbjct:   229 Y 229

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:0005515 "protein binding" evidence=IPI

GO:0010154 "fruit development" evidence=IMP

GO:0010158 "abaxial cell fate specification" evidence=IGI

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9XFB0	YAB2_ARATH	No assigned EC number	0.6492	0.9619	0.9619	yes	no
Q10FZ7	YAB2_ORYSJ	No assigned EC number	0.5543	0.9456	0.9354	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00017462001 SubName- Full=Chromosome chr6 scaffold_15, whole genome shotgun sequence; (183 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	184
pfam04690	170	pfam04690, YABBY, YABBY protein	1e-72
cd01390	66	cd01390, HMGB-UBF_HMG-box, HMGB-UBF_HMG-box, class	3e-04
cd00084	66	cd00084, HMG-box, High Mobility Group (HMG)-box is	5e-04

>gnl|CDD|113458 pfam04690, YABBY, YABBY protein

 Score =  216 bits (551), Expect = 1e-72
 Identities = 100/173 (57%), Positives = 117/173 (67%), Gaps = 19/173 (10%)

Query: 1   MSLDLASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVP-- 58
           MS+  +SE VCYVHCN+C TILAVSVP +SLFNIVTVRCGHC NLL+VN++     +P  
Sbjct: 1   MSVFFSSEHVCYVHCNFCTTILAVSVPYTSLFNIVTVRCGHCTNLLSVNLMMRSHLLPAL 60

Query: 59  -----------LQDPQLQKQHINLEDSITKDCGSSSKCNKFSSAFETAEHETPRMPP-IR 106
                      LQ+  +  Q+ N    +     S+S  +   S  +    E PR+PP  R
Sbjct: 61  SHLDETGKPELLQNLGVHGQNFNSNM-MKSHSASTSVSSYMMSDNQD--EEMPRVPPVNR 117

Query: 107 --QKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGL 157
             +KRQRVPSAYNRFIKEEIQRIKA NPDISHREAFS AAKNWAHFPHIHFGL
Sbjct: 118 PPEKRQRVPSAYNRFIKEEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGL 170

YABBY proteins are a group of plant-specific transcription involved in the specification of abaxial polarity in lateral organs. Length = 170

>gnl|CDD|238686 cd01390, HMGB-UBF_HMG-box, HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins

 Score = 37.2 bits (87), Expect = 3e-04
 Identities = 13/37 (35%), Positives = 18/37 (48%)

Query: 111 RVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNW 147
           R  SAY  F +E+  ++K  NPD S  E      + W
Sbjct: 3   RPLSAYFLFSQEQRPKLKKENPDASVTEVTKILGEKW 39

These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III members include nucleolar and mitochondrial transcription factors, UBF and mtTF1, which bind four-way DNA junctions. Length = 66

>gnl|CDD|238037 cd00084, HMG-box, High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors

 Score = 36.4 bits (85), Expect = 5e-04
 Identities = 13/37 (35%), Positives = 17/37 (45%)

Query: 111 RVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNW 147
           R  SAY  F +E    +KA NP +S  E      + W
Sbjct: 3   RPLSAYFLFSQEHRAEVKAENPGLSVGEISKILGEMW 39

HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I proteins bind DNA in a sequence specific fashion and contain a single HMG box. One group (SOX-TCF) includes transcription factors, TCF-1, -3, -4; and also SRY and LEF-1, which bind four-way DNA junctions and duplex DNA targets. The second group (MATA) includes fungal mating type gene products MC, MATA1 and Ste11. Class II and III proteins (HMGB-UBF) bind DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III members include nucleolar and mitochondrial transcription factors, UBF and mtTF1, which bind four-way DNA junctions. Length = 66

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	184
PF04690	170	YABBY: YABBY protein; InterPro: IPR006780 YABBY pr	100.0
PF09011	73	HMG_box_2: HMG-box domain; InterPro: IPR015101 Thi	98.05
cd01390	66	HMGB-UBF_HMG-box HMGB-UBF_HMG-box, class II and II	97.77
cd01388	72	SOX-TCF_HMG-box SOX-TCF_HMG-box, class I member of	97.71
PF00505	69	HMG_box: HMG (high mobility group) box; InterPro:	97.68
cd00084	66	HMG-box High Mobility Group (HMG)-box is found in	97.68
smart00398	70	HMG high mobility group.	97.62
cd01389	77	MATA_HMG-box MATA_HMG-box, class I member of the H	97.57
PTZ00199	94	high mobility group protein; Provisional	97.16
KOG0381	96	consensus HMG box-containing protein [General func	96.34
PF06244	122	DUF1014: Protein of unknown function (DUF1014); In	95.31
PF11331	46	DUF3133: Protein of unknown function (DUF3133); In	94.19
KOG3223	221	consensus Uncharacterized conserved protein [Funct	86.69
TIGR02098	38	MJ0042_CXXC MJ0042 family finger-like domain. This	80.77
PF13719	37	zinc_ribbon_5: zinc-ribbon domain	80.18

>PF04690 YABBY: YABBY protein; InterPro: IPR006780 YABBY proteins are a group of plant-specific transcription factors involved in the specification of abaxial polarity in lateral organs such as leaves and floral organs [, ]

Probab=100.00  E-value=1.2e-78  Score=499.41  Aligned_cols=157  Identities=64%  Similarity=0.999  Sum_probs=120.4

Q ss_pred             CCCCCCCCceeeeeCCccceeeeccccCCCccceeeeecccCCCcccccccccccCCCCCCchhhhhc-------CCCcc
Q 029974            1 MSLDLASERVCYVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANLLNVNMVSALQAVPLQDPQLQKQH-------INLED   73 (184)
Q Consensus         1 ms~~~~~E~lCYV~CnfC~TiLaVsVPcssL~~~VTVRCGHCtnLlSVNm~~ll~s~~~q~~~~~~~~-------~~~~~   73 (184)
                      |+.+.++|||||||||||||||||||||+|||+|||||||||+|||||||++++++++.|++..+...       ....+
T Consensus         1 ~~~~~~sE~lCYVhCnFC~TiLaVsVP~ssL~~~VTVRCGHCtNLLSVNm~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~   80 (170)
T PF04690_consen    1 MDLFSPSEQLCYVHCNFCNTILAVSVPCSSLLKTVTVRCGHCTNLLSVNMRALLQPLPSQDHLQHSLLPPQSQELQFQPE   80 (170)
T ss_pred             CCccCCCCcEEEEEcCCcCeEEEEecchhhhhhhhceeccCccceeeeeccccccCCCcccchhcccccccccccccccc
Confidence            67777899999999999999999999999999999999999999999999999999887765211110       00011


Q ss_pred             cccccCC---CCCcCCCCCCcccCCCCCCCCCCC-CC--ccCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhh
Q 029974           74 SITKDCG---SSSKCNKFSSAFETAEHETPRMPP-IR--QKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNW  147 (184)
Q Consensus        74 ~~~~~~~---sss~~~~~~~~~~~~~~e~p~~~~-~r--EKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW  147 (184)
                      .......   +++.+........+.+++.|+.++ +|  |||||+|||||+||||||||||++||||+|||||++|||||
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pr~~~v~kPPEKRqR~psaYn~f~k~ei~rik~~~p~ishkeaFs~aAknW  160 (170)
T PF04690_consen   81 NFGSNSSSSSSSSSSSSSSSMSFSEEEEIPRAPPVNKPPEKRQRVPSAYNRFMKEEIQRIKAENPDISHKEAFSAAAKNW  160 (170)
T ss_pred             ccccccccCCCccccccccccCccccccccccccccCCccccCCCchhHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhh
Confidence            1111111   111111100112233456677655 34  99999999999999999999999999999999999999999


Q ss_pred             ccCCcccccc
Q 029974          148 AHFPHIHFGL  157 (184)
Q Consensus       148 ~~~phihfGl  157 (184)
                      ||+|||||||
T Consensus       161 ~h~phihfgl  170 (170)
T PF04690_consen  161 AHFPHIHFGL  170 (170)
T ss_pred             hhCcccccCC
Confidence            9999999997

>PF09011 HMG_box_2: HMG-box domain; InterPro: IPR015101 This domain is predominantly found in Maelstrom homologue proteins

Probab=98.05  E-value=7.1e-06  Score=57.55  Aligned_cols=45  Identities=33%  Similarity=0.584  Sum_probs=37.4

Q ss_pred             ccCCCCchhhhHHHHHHHHHHHhh-CCCCCHHHHHHHHHHhhccCC
Q 029974          107 QKRQRVPSAYNRFIKEEIQRIKAS-NPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       107 EKRQRvpsayN~fmK~ei~riK~~-~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      .|..|.+|||+.||++.+.+++.. .+.++.+|++..++..|+..+
T Consensus         2 ~kpK~~~say~lF~~~~~~~~k~~G~~~~~~~e~~k~~~~~Wk~Ls   47 (73)
T PF09011_consen    2 KKPKRPPSAYNLFMKEMRKEVKEEGGQKQSFREVMKEISERWKSLS   47 (73)
T ss_dssp             SS--SSSSHHHHHHHHHHHHHHHHT-T-SSHHHHHHHHHHHHHHS-
T ss_pred             cCCCCCCCHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHHhcC
Confidence            345789999999999999999999 889999999999999999754

It has no known function. ; GO: 0005634 nucleus; PDB: 2EQZ_A 1V64_A 2CTO_A 1H5P_A 3TQ6_A 3FGH_A 3TMM_A 1J3X_A 2YRQ_A 1AAB_A ....

>cd01390 HMGB-UBF_HMG-box HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins

Probab=97.77  E-value=5.7e-05  Score=50.45  Aligned_cols=42  Identities=31%  Similarity=0.487  Sum_probs=39.2

Q ss_pred             CCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          110 QRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       110 QRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      .|-+|||..|+++....+++.+|+++..|....++..|+..+
T Consensus         2 krp~saf~~f~~~~r~~~~~~~p~~~~~~i~~~~~~~W~~ls   43 (66)
T cd01390           2 KRPLSAYFLFSQEQRPKLKKENPDASVTEVTKILGEKWKELS   43 (66)
T ss_pred             CCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCC
Confidence            367899999999999999999999999999999999999754

These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III members include nucleolar and mitochondrial transcription factors, UBF and mtTF1, which bind four-way DNA junctions.

>cd01388 SOX-TCF_HMG-box SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins

Probab=97.71  E-value=7.4e-05  Score=52.26  Aligned_cols=42  Identities=17%  Similarity=0.284  Sum_probs=39.2

Q ss_pred             CCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          110 QRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       110 QRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      .|-|+||..|+++.-.+|++++|+++..|.-+.++..|+..+
T Consensus         3 KrP~naf~~F~~~~r~~~~~~~p~~~~~eisk~l~~~Wk~ls   44 (72)
T cd01388           3 KRPMNAFMLFSKRHRRKVLQEYPLKENRAISKILGDRWKALS   44 (72)
T ss_pred             CCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcCC
Confidence            478999999999999999999999999999999999998754

These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and transcription factor-like proteins, TCF-1, -3, -4, and LEF-1. They appear to bind the minor groove of the A/T C A A A G/C-motif.

>PF00505 HMG_box: HMG (high mobility group) box; InterPro: IPR000910 High mobility group (HMG or HMGB) proteins are a family of relatively low molecular weight non-histone components in chromatin

Probab=97.68  E-value=7.5e-05  Score=50.43  Aligned_cols=41  Identities=34%  Similarity=0.636  Sum_probs=37.0

Q ss_pred             CCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccC
Q 029974          110 QRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHF  150 (184)
Q Consensus       110 QRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~  150 (184)
                      .|-++||..|+++....||+++|+++..|.-+.+++.|+..
T Consensus         2 krP~~af~lf~~~~~~~~k~~~p~~~~~~i~~~~~~~W~~l   42 (69)
T PF00505_consen    2 KRPPNAFMLFCKEKRAKLKEENPDLSNKEISKILAQMWKNL   42 (69)
T ss_dssp             SSS--HHHHHHHHHHHHHHHHSTTSTHHHHHHHHHHHHHCS
T ss_pred             cCCCCHHHHHHHHHHHHHHHHhcccccccchhhHHHHHhcC
Confidence            47899999999999999999999999999999999999875

HMG1 (also called HMG-T in fish) and HMG2 are two highly related proteins that bind single-stranded DNA preferentially and unwind double-stranded DNA. Although they have no sequence specificity, they have a high affinity for bent or distorted DNA, and bend linear DNA. HMG1 and HMG2 contain two DNA-binding HMG-box domains (A and B) that show structural and functional differences, and have a long acidic C-terminal domain rich in aspartic and glutamic acid residues. The acidic tail modulates the affinity of the tandem HMG boxes in HMG1 and 2 for a variety of DNA targets. HMG1 and 2 appear to play important architectural roles in the assembly of nucleoprotein complexes in a variety of biological processes, for example V(D)J recombination, the initiation of transcription, and DNA repair []. The profile in this entry describing the HMG-domains is much more general than the signature. In addition to the HMG1 and HMG2 proteins, HMG-domains occur in single or multiple copies in the following protein classes; the SOX family of transcription factors; SRY sex determining region Y protein and related proteins []; LEF1 lymphoid enhancer binding factor 1 []; SSRP recombination signal recognition protein; MTF1 mitochondrial transcription factor 1; UBF1/2 nucleolar transcription factors; Abf2 yeast ARS-binding factor []; and Saccharomyces cerevisiae transcription factors Ixr1, Rox1, Nhp6a, Nhp6b and Spp41.; GO: 0003677 DNA binding; PDB: 1I11_A 1J3C_A 1J3D_A 1WZ6_A 1WGF_A 2D7L_A 1GT0_D 3U2B_C 2CRJ_A 2CS1_A ....

>cd00084 HMG-box High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors

Probab=97.68  E-value=9.8e-05  Score=48.74  Aligned_cols=43  Identities=30%  Similarity=0.422  Sum_probs=39.7

Q ss_pred             CCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCc
Q 029974          110 QRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPH  152 (184)
Q Consensus       110 QRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~ph  152 (184)
                      .|-+|+|..|++++...+++.+|+++..|....+++.|+..+.
T Consensus         2 krp~~af~~f~~~~~~~~~~~~~~~~~~~i~~~~~~~W~~l~~   44 (66)
T cd00084           2 KRPLSAYFLFSQEHRAEVKAENPGLSVGEISKILGEMWKSLSE   44 (66)
T ss_pred             CCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCCH
Confidence            4678999999999999999999999999999999999997654

HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I proteins bind DNA in a sequence specific fashion and contain a single HMG box. One group (SOX-TCF) includes transcription factors, TCF-1, -3, -4; and also SRY and LEF-1, which bind four-way DNA junctions and duplex DNA targets. The second group (MATA) includes fungal mating type gene products MC, MATA1 and Ste11. Class II and III proteins (HMGB-UBF) bind DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III member

>smart00398 HMG high mobility group

Probab=97.62  E-value=0.00015  Score=48.38  Aligned_cols=44  Identities=32%  Similarity=0.493  Sum_probs=40.2

Q ss_pred             CCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCc
Q 029974          109 RQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPH  152 (184)
Q Consensus       109 RQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~ph  152 (184)
                      ..|-+|+|..|+++....+++.+|+++..|....++..|+..+.
T Consensus         2 pkrp~~~y~~f~~~~r~~~~~~~~~~~~~~i~~~~~~~W~~l~~   45 (70)
T smart00398        2 PKRPMSAFMLFSQENRAKIKAENPDLSNAEISKKLGERWKLLSE   45 (70)
T ss_pred             cCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHcCCH
Confidence            35688999999999999999999999999999999999997553

>cd01389 MATA_HMG-box MATA_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins

Probab=97.57  E-value=0.00018  Score=50.80  Aligned_cols=43  Identities=16%  Similarity=0.348  Sum_probs=40.3

Q ss_pred             CCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCc
Q 029974          110 QRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPH  152 (184)
Q Consensus       110 QRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~ph  152 (184)
                      .|-|+||-.|+++....|+++||++++.|.-+.++..|+..+.
T Consensus         3 kRP~naf~lf~~~~r~~~~~~~p~~~~~eisk~~g~~Wk~ls~   45 (77)
T cd01389           3 PRPRNAFILYRQDKHAQLKTENPGLTNNEISRIIGRMWRSESP   45 (77)
T ss_pred             CCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCCH
Confidence            5789999999999999999999999999999999999998654

These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include the fungal mating type gene products MC, MATA1 and Ste11.

>PTZ00199 high mobility group protein; Provisional

Probab=97.16  E-value=0.00092  Score=49.72  Aligned_cols=45  Identities=27%  Similarity=0.407  Sum_probs=39.1

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCC--HHHHHHHHHHhhccCCc
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDIS--HREAFSTAAKNWAHFPH  152 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~--hkEaF~~aA~nW~~~ph  152 (184)
                      +..|-+|||..|+++.-..|+++||+++  -.|.-+.++..|+..+.
T Consensus        22 ~PKrP~sAY~~F~~~~R~~i~~~~P~~~~~~~evsk~ige~Wk~ls~   68 (94)
T PTZ00199         22 APKRALSAYMFFAKEKRAEIIAENPELAKDVAAVGKMVGEAWNKLSE   68 (94)
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHHCcCCcccHHHHHHHHHHHHHcCCH
Confidence            4457899999999999999999999986  57888889999998663

>KOG0381 consensus HMG box-containing protein [General function prediction only]

Probab=96.34  E-value=0.0095  Score=42.97  Aligned_cols=45  Identities=29%  Similarity=0.429  Sum_probs=40.2

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCc
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPH  152 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~ph  152 (184)
                      ..+|-+|||..|+.+.-.+||++||+++..|.=+.+..+|.....
T Consensus        22 ~pkrp~sa~~~f~~~~~~~~k~~~p~~~~~~v~k~~g~~W~~l~~   66 (96)
T KOG0381|consen   22 APKRPLSAFFLFSSEQRSKIKAENPGLSVGEVAKALGEMWKNLAE   66 (96)
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCH
Confidence            456788999999999999999999999999999999999987543

>PF06244 DUF1014: Protein of unknown function (DUF1014); InterPro: IPR010422 This family consists of several hypothetical eukaryotic proteins of unknown function

Probab=95.31  E-value=0.023  Score=45.39  Aligned_cols=47  Identities=23%  Similarity=0.458  Sum_probs=42.5

Q ss_pred             ccCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCcccc
Q 029974          107 QKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHF  155 (184)
Q Consensus       107 EKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~phihf  155 (184)
                      |||-  --||..|--.+|.+||++||++.+-+-=-..=|.|..+|...|
T Consensus        73 ErR~--KAAy~afeE~~Lp~lK~E~PgLrlsQ~kq~l~K~w~KSPeNP~  119 (122)
T PF06244_consen   73 ERRM--KAAYKAFEERRLPELKEENPGLRLSQYKQMLWKEWQKSPENPF  119 (122)
T ss_pred             chhH--HHHHHHHHHHHhHHHHhhCCCchHHHHHHHHHHHHhcCCCCCc
Confidence            6654  5699999999999999999999999988889999999998876

>PF11331 DUF3133: Protein of unknown function (DUF3133); InterPro: IPR021480 This eukaryotic family of proteins has no known function

Probab=94.19  E-value=0.027  Score=38.37  Aligned_cols=38  Identities=26%  Similarity=0.725  Sum_probs=29.5

Q ss_pred             eeeCCccceeeeccccCCCccc---eeeeecccCCCccccccc
Q 029974           12 YVHCNYCNTILAVSVPCSSLFN---IVTVRCGHCANLLNVNMV   51 (184)
Q Consensus        12 YV~CnfC~TiLaVsVPcssL~~---~VTVRCGHCtnLlSVNm~   51 (184)
                      ||-|+-|..+|-  +|-+.++.   .-.+|||.|+.++++.++
T Consensus         6 Fv~C~~C~~lLq--lP~~~~~~~k~~~klrCGaCs~vl~~s~~   46 (46)
T PF11331_consen    6 FVVCSSCFELLQ--LPAKFSLSKKNQQKLRCGACSEVLSFSLP   46 (46)
T ss_pred             EeECccHHHHHc--CCCccCCCccceeEEeCCCCceeEEEecC
Confidence            788999977665  47775443   568999999999988653

>KOG3223 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.69  E-value=0.56  Score=41.01  Aligned_cols=49  Identities=27%  Similarity=0.493  Sum_probs=43.4

Q ss_pred             ccCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCcccccc
Q 029974          107 QKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGL  157 (184)
Q Consensus       107 EKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~phihfGl  157 (184)
                      |||-|  -||--|=..+|.|||.++|+++|-+-=-..-|.|...|...|.-
T Consensus       165 EkRmr--AA~~afEe~~LPrLK~e~P~lrlsQ~Kqll~Kew~KsPDNP~Nq  213 (221)
T KOG3223|consen  165 EKRMR--AAFKAFEEARLPRLKKENPGLRLSQYKQLLKKEWQKSPDNPFNQ  213 (221)
T ss_pred             HHHHH--HHHHHHHHhhchhhhhcCCCccHHHHHHHHHHHHhhCCCChhhH
Confidence            77766  59999999999999999999999987778889999999988753

>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain

Probab=80.77  E-value=1.5  Score=27.20  Aligned_cols=34  Identities=35%  Similarity=0.633  Sum_probs=24.1

Q ss_pred             eeCCccceeeeccccCCCcc-ceeeeecccCCCcccc
Q 029974           13 VHCNYCNTILAVSVPCSSLF-NIVTVRCGHCANLLNV   48 (184)
Q Consensus        13 V~CnfC~TiLaVsVPcssL~-~~VTVRCGHCtnLlSV   48 (184)
                      +.|..|.+..-|..  +.|- +...|+|++|.+.+.+
T Consensus         3 ~~CP~C~~~~~v~~--~~~~~~~~~v~C~~C~~~~~~   37 (38)
T TIGR02098         3 IQCPNCKTSFRVVD--SQLGANGGKVRCGKCGHVWYA   37 (38)
T ss_pred             EECCCCCCEEEeCH--HHcCCCCCEEECCCCCCEEEe
Confidence            68999999877653  2221 3347999999987754

This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.

>PF13719 zinc_ribbon_5: zinc-ribbon domain

Probab=80.18  E-value=1.2  Score=28.20  Aligned_cols=34  Identities=32%  Similarity=0.678  Sum_probs=25.4

Q ss_pred             eeCCccceeeeccccCCCc-cceeeeecccCCCcccc
Q 029974           13 VHCNYCNTILAVSVPCSSL-FNIVTVRCGHCANLLNV   48 (184)
Q Consensus        13 V~CnfC~TiLaVsVPcssL-~~~VTVRCGHCtnLlSV   48 (184)
                      ++|.-|.|.+.|  |=+.| -....|||++|.+.+.|
T Consensus         3 i~CP~C~~~f~v--~~~~l~~~~~~vrC~~C~~~f~v   37 (37)
T PF13719_consen    3 ITCPNCQTRFRV--PDDKLPAGGRKVRCPKCGHVFRV   37 (37)
T ss_pred             EECCCCCceEEc--CHHHcccCCcEEECCCCCcEeeC
Confidence            689999998865  44443 34679999999987654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	184
3tmm_A	238	Transcription factor A, mitochondrial; HMG, high m	4e-05
3tq6_A	214	Transcription factor A, mitochondrial; transcripti	1e-04
2yrq_A	173	High mobility group protein B1; HMG box domain, DN	3e-04

>3tmm_A Transcription factor A, mitochondrial; HMG, high mobility group, transcription, LSP1, mitochon transcription-DNA complex; HET: DNA; 2.50A {Homo sapiens} Length = 238

 Score = 41.7 bits (97), Expect = 4e-05
 Identities = 17/72 (23%), Positives = 28/72 (38%)

Query: 80  GSSSKCNKFSSAFETAEHETPRMPPIRQKRQRVPSAYNRFIKEEIQRIKASNPDISHREA 139
           G   + +  +S     +        +    ++  S+Y RF KE++   KA NPD    E 
Sbjct: 13  GLVPRGSHMASMTGGQQMGRGSSSVLASCPKKPVSSYLRFSKEQLPIFKAQNPDAKTTEL 72

Query: 140 FSTAAKNWAHFP 151
               A+ W   P
Sbjct: 73  IRRIAQRWRELP 84

>3tq6_A Transcription factor A, mitochondrial; transcription, transcription regulation, mitochondrion; HET: DNA BRU 1PE; 2.45A {Homo sapiens} Length = 214

 Score = 40.1 bits (93), Expect = 1e-04
 Identities = 15/42 (35%), Positives = 21/42 (50%)

Query: 110 QRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP 151
           ++  S+Y RF KE++   KA NPD    E     A+ W   P
Sbjct: 11  KKPVSSYLRFSKEQLPIFKAQNPDAKTTELIRRIAQRWRELP 52

>2yrq_A High mobility group protein B1; HMG box domain, DNA binding, helix-turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 173

 Score = 38.8 bits (90), Expect = 3e-04
 Identities = 13/72 (18%), Positives = 26/72 (36%)

Query: 76  TKDCGSSSKCNKFSSAFETAEHETPRMPPIRQKRQRVPSAYNRFIKEEIQRIKASNPDIS 135
                  ++  +    +   + ET +        +R PSA+  F  E   +IK  +P +S
Sbjct: 69  DMAKADKARYEREMKTYIPPKGETKKKFKDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLS 128

Query: 136 HREAFSTAAKNW 147
             +      + W
Sbjct: 129 IGDVAKKLGEMW 140

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	184
3nm9_A	73	HMG-D, high mobility group protein D; DNA bending,	97.81
1hme_A	77	High mobility group protein fragment-B; DNA-bindin	97.66
4a3n_A	71	Transcription factor SOX-17; 2.40A {Homo sapiens}	97.56
1ckt_A	71	High mobility group 1 protein; high-mobility group	97.56
1i11_A	81	Transcription factor SOX-5; HMG BOX, DNA bending,	97.53
1wz6_A	82	HMG-box transcription factor BBX; bobby SOX homolo	97.53
2cs1_A	92	PMS1 protein homolog 1; DNA mismatch repair protei	97.53
1hry_A	76	Human SRY; DNA, DNA-binding protein, DNA binding p	97.52
1gt0_D	80	Transcription factor SOX-2; POU factors, SOX prote	97.5
3f27_D	83	Transcription factor SOX-17; protein-DNA complex,	97.49
1wxl_A	73	Single-strand recognition protein; FACT, SSRP1, HM	97.48
1wgf_A	90	Upstream binding factor 1; transcription factor, D	97.47
1j46_A	85	SRY, sex-determining region Y protein; MALE sex de	97.45
2crj_A	92	SWI/SNF-related matrix-associated actin- dependent	97.43
2e6o_A	87	HMG box-containing protein 1; HMG-box domain, HMG-	97.43
3u2b_C	79	Transcription factor SOX-4; HMG domain, transcript	97.4
2co9_A	102	Thymus high mobility group box protein TOX; TOX pr	97.38
2eqz_A	86	High mobility group protein B3; HMG-box domain, mo	97.33
2lef_A	86	LEF-1 HMG, protein (lymphoid enhancer-binding fact	97.3
4euw_A	106	Transcription factor SOX-9; protein-DNA complex, H	97.23
1k99_A	99	Upstream binding factor 1; alpha-helix, L-shape, D	97.23
2d7l_A	81	WD repeat and HMG-box DNA binding protein 1; high	97.13
2gzk_A	159	Sex-determining region on Y / HMGB1; protein-DNA c	97.08
2yrq_A	173	High mobility group protein B1; HMG box domain, DN	97.04
1aab_A	83	High mobility group protein; HMG-BOX, DNA-binding;	96.98
2lhj_A	97	High mobility group protein homolog NHP1; structur	96.98
1cg7_A	93	Protein (NON histone protein 6 A); HMG BOX, DNA be	96.87
2yrq_A	173	High mobility group protein B1; HMG box domain, DN	96.74
3tq6_A	214	Transcription factor A, mitochondrial; transcripti	96.66
3tmm_A	238	Transcription factor A, mitochondrial; HMG, high m	96.56
1l8y_A	91	Upstream binding factor 1; HUBF, HMG box 5, DNA bi	96.45
3fgh_A	67	Transcription factor A, mitochondrial; HMG domain,	96.39
2gzk_A	159	Sex-determining region on Y / HMGB1; protein-DNA c	96.22
1v63_A	101	Nucleolar transcription factor 1; DNA binding, str	95.32
2yuk_A	90	Myeloid/lymphoid or mixed-lineage leukemia protein	93.83
1v64_A	108	Nucleolar transcription factor 1; DNA binding, str	93.76
3tmm_A	238	Transcription factor A, mitochondrial; HMG, high m	93.0
3tq6_A	214	Transcription factor A, mitochondrial; transcripti	92.91
2cto_A	93	Novel protein; high mobility group box domain, hel	89.32

>3nm9_A HMG-D, high mobility group protein D; DNA bending, non-sequence-specific, HMG chromosomal protein; HET: DNA; 2.85A {Drosophila melanogaster} SCOP: a.21.1.1 PDB: 1e7j_A* 1hma_A 1qrv_A*

Probab=97.81  E-value=2.9e-05  Score=53.21  Aligned_cols=44  Identities=27%  Similarity=0.420  Sum_probs=40.6

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      +..|-+|||..|+++.-..|++++|+++..|.-+.++..|+..+
T Consensus         3 ~PKrP~say~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls   46 (73)
T 3nm9_A            3 KPKRPLSAYALWLNSARESIKRENPGIKVTEVAKRGGELWRAMK   46 (73)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHHCS
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcCC
Confidence            34578999999999999999999999999999999999999865

>1hme_A High mobility group protein fragment-B; DNA-binding; NMR {Rattus norvegicus} SCOP: a.21.1.1 PDB: 1hmf_A 1nhm_A 1nhn_A 1hsm_A 1hsn_A 1j3c_A 1j3d_A 2yqi_A

Probab=97.66  E-value=6.6e-05  Score=51.48  Aligned_cols=44  Identities=25%  Similarity=0.402  Sum_probs=40.2

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      +..|-+|||..|+++.-..|++++|+++..|.-+.++..|+..+
T Consensus         6 ~pKrP~saf~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls   49 (77)
T 1hme_A            6 APKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTA   49 (77)
T ss_dssp             CCCCCCCTTHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHSC
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCC
Confidence            34578999999999999999999999999999999999999654

>4a3n_A Transcription factor SOX-17; 2.40A {Homo sapiens} SCOP: a.21.1.0

Probab=97.56  E-value=9.5e-05  Score=49.59  Aligned_cols=43  Identities=26%  Similarity=0.460  Sum_probs=38.6

Q ss_pred             CCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          109 RQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       109 RQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      -.|-+|||..|+++.-..|++++|++++.|.-+.++..|+..+
T Consensus         3 ~krP~~af~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls   45 (71)
T 4a3n_A            3 IRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGKSWKALT   45 (71)
T ss_dssp             --CCCCHHHHHHHHHHHHHHTTCTTSCHHHHHHHHHHHHHHSC
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhcCC
Confidence            4578999999999999999999999999999999999998643

>1ckt_A High mobility group 1 protein; high-mobility group domain, BENT DNA, protein-drug-DNA compl regulation-DNA complex; HET: DNA 5IU; 2.50A {Rattus norvegicus} SCOP: a.21.1.1 PDB: 1j3x_A

Probab=97.56  E-value=0.00012  Score=49.38  Aligned_cols=43  Identities=23%  Similarity=0.349  Sum_probs=38.9

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCCH--HHHHHHHHHhhccC
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDISH--REAFSTAAKNWAHF  150 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~h--kEaF~~aA~nW~~~  150 (184)
                      |..|-+|||..|+++.-+.|+++||+++.  .|.-+.++..|+..
T Consensus         1 kPKrP~say~~F~~~~r~~~~~~~p~~~~~~~eisk~lg~~Wk~l   45 (71)
T 1ckt_A            1 KPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTM   45 (71)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHHHHCTTCCCCHHHHHHHHHHHHHTC
T ss_pred             CcCCCCCHHHHHHHHHHHHHHHHCCCCCCcHHHHHHHHHHHHhhC
Confidence            34678999999999999999999999976  99999999999864

>1i11_A Transcription factor SOX-5; HMG BOX, DNA bending, DNA recognition, chromatin, DNA binding protein, DNA sequence specific, testis determining.; NMR {Mus musculus} SCOP: a.21.1.1

Probab=97.53  E-value=0.00015  Score=50.34  Aligned_cols=44  Identities=18%  Similarity=0.342  Sum_probs=40.2

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      +..|-+|||..|+++.-+.|++++|++++.|.-+.++..|+..+
T Consensus         4 ~pkRP~naf~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls   47 (81)
T 1i11_A            4 HIKRPMNAFMVWAKDERRKILQAFPDMHNSNISKILGSRWKAMT   47 (81)
T ss_dssp             CSCCSCCHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHHHTTSC
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHhhhhhCC
Confidence            34578999999999999999999999999999999999999754

>1wz6_A HMG-box transcription factor BBX; bobby SOX homolog, HMG_BOX domain, structural genomics, NPPSFA, riken structural genomics/proteomics initiative; NMR {Mus musculus}

Probab=97.53  E-value=0.00011  Score=51.10  Aligned_cols=44  Identities=23%  Similarity=0.345  Sum_probs=40.1

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      +..|-+|||..|+++.-..|++++|++++.|.-+.++..|+..+
T Consensus         7 ~pkrP~~af~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls   50 (82)
T 1wz6_A            7 GARRPMNAFLLFCKRHRSLVRQEHPRLDNRGATKILADWWAVLD   50 (82)
T ss_dssp             CSCCCCCHHHHHHHHHHHHHHHHCSSSCTTHHHHHHHHHHHTCC
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCC
Confidence            34568999999999999999999999999999999999999754

>2cs1_A PMS1 protein homolog 1; DNA mismatch repair protein PMS1, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.53  E-value=0.00014  Score=52.05  Aligned_cols=43  Identities=19%  Similarity=0.279  Sum_probs=39.6

Q ss_pred             CCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          109 RQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       109 RQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      ..|-+|||..|+++.-.+|+++||+++..|.-+.++..|+..+
T Consensus         8 pKrP~say~lF~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls   50 (92)
T 2cs1_A            8 IKKPMSASALFVQDHRPQFLIENPKTSLEDATLQIEELWKTLS   50 (92)
T ss_dssp             SCCCCCHHHHHHHHHHHHHHHHCCSSCHHHHHHHHHHHHHSSC
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhcCC
Confidence            3467999999999999999999999999999999999999754

>1hry_A Human SRY; DNA, DNA-binding protein, DNA binding protein/DNA complex; HET: DNA; NMR {Homo sapiens} SCOP: a.21.1.1 PDB: 1hrz_A*

Probab=97.52  E-value=0.00011  Score=50.20  Aligned_cols=44  Identities=14%  Similarity=0.343  Sum_probs=40.2

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      +..|-+|||..|+++.-+.|++++|+++..|.-+.++..|+..+
T Consensus         4 ~pkrP~~af~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls   47 (76)
T 1hry_A            4 RVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLT   47 (76)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHHHHCSCCSSSHHHHHHHHHHHTCC
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHhHHHhCC
Confidence            34578999999999999999999999999999999999999754

>1gt0_D Transcription factor SOX-2; POU factors, SOX proteins; 2.6A {Mus musculus} SCOP: a.21.1.1 PDB: 2le4_A 1o4x_B

Probab=97.50  E-value=0.00017  Score=49.84  Aligned_cols=44  Identities=14%  Similarity=0.345  Sum_probs=40.2

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      +-.|-+|||..|+++.-..|++++|+++..|.-+.++..|+..+
T Consensus         2 ~pkrP~~af~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls   45 (80)
T 1gt0_D            2 RVKRPMNAFMVWSRGQRRKMAQENPKMHNSEISKRLGAEWKLLS   45 (80)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHHTTSTTSCHHHHHHHHHHHHTTSC
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCC
Confidence            44678999999999999999999999999999999999999654

>3f27_D Transcription factor SOX-17; protein-DNA complex, HMG domain, endodermal, activator, DNA- nucleus, transcription regulation, transcrip complex; HET: DNA; 2.75A {Mus musculus} SCOP: a.21.1.1 PDB: 2yul_A

Probab=97.49  E-value=0.00014  Score=50.47  Aligned_cols=44  Identities=25%  Similarity=0.470  Sum_probs=39.8

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      |-.|-+|||..|+++.-..|++++|++++.|.-+.++..|+..+
T Consensus         6 ~pKrP~~af~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls   49 (83)
T 3f27_D            6 RIRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGKSWKALT   49 (83)
T ss_dssp             -CCCCCCHHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHSC
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhcCC
Confidence            45678999999999999999999999999999999999998754

>1wxl_A Single-strand recognition protein; FACT, SSRP1, HMG, DNA binding protein; NMR {Drosophila melanogaster}

Probab=97.48  E-value=0.00017  Score=49.31  Aligned_cols=42  Identities=21%  Similarity=0.446  Sum_probs=39.4

Q ss_pred             CCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccC
Q 029974          109 RQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHF  150 (184)
Q Consensus       109 RQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~  150 (184)
                      ..|-+|||..|+++.-..|+++||+++..|.-+.++..|+..
T Consensus         4 pKrP~say~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~l   45 (73)
T 1wxl_A            4 PKRATTAFMLWLNDTRESIKRENPGIKVTEIAKKGGEMWKEL   45 (73)
T ss_dssp             CCCCCCHHHHHHHHHHHHHHHHSTTCCHHHHHHHHHHHHHTC
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhh
Confidence            457899999999999999999999999999999999999975

>1wgf_A Upstream binding factor 1; transcription factor, DNA binding, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: a.21.1.1

Probab=97.47  E-value=0.00033  Score=49.98  Aligned_cols=45  Identities=24%  Similarity=0.406  Sum_probs=40.8

Q ss_pred             ccCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          107 QKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       107 EKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      .+..|-+|||..|+++.-..|+++||++++.|.-+.++..|+..+
T Consensus        19 ~~pKrP~say~lF~~~~r~~~k~~~P~~~~~eisk~lg~~Wk~ls   63 (90)
T 1wgf_A           19 EKPKRPVSAMFIFSEEKRRQLQEERPELSESELTRLLARMWNDLS   63 (90)
T ss_dssp             CCCCCCCCHHHHHHHHTHHHHHHHCTTSCHHHHHHHHHHHHHHSC
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCC
Confidence            445678999999999999999999999999999999999999743

>1j46_A SRY, sex-determining region Y protein; MALE sex determining factor, SRY, sex-reversal mutation; NMR {Homo sapiens} SCOP: a.21.1.1 PDB: 1j47_A

Probab=97.45  E-value=0.00022  Score=50.15  Aligned_cols=44  Identities=14%  Similarity=0.343  Sum_probs=40.2

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      +-.|-+|||..|+++.-+.|++++|++++.|.-+.++..|+..+
T Consensus         4 ~pKRP~~af~lf~~~~r~~~~~~~P~~~~~eisk~lg~~Wk~ls   47 (85)
T 1j46_A            4 RVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLT   47 (85)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHHHHSTTSCHHHHHHHHHHHHTTSC
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCC
Confidence            34578999999999999999999999999999999999999754

>2crj_A SWI/SNF-related matrix-associated actin- dependent regulator of chromatin subfamily...; structural DNA-binding protein BRAF35, DNA-bending; NMR {Mus musculus}

Probab=97.43  E-value=0.00023  Score=50.83  Aligned_cols=44  Identities=20%  Similarity=0.481  Sum_probs=40.1

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      +..|-+|||..|+++.-..|++++|+++..|.-+.++..|+..+
T Consensus         7 ~pKrP~~af~lF~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls   50 (92)
T 2crj_A            7 GPKAPVTGYVRFLNERREQIRTRHPDLPFPEITKMLGAEWSKLQ   50 (92)
T ss_dssp             SSCCCCCHHHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHTCC
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcCC
Confidence            34567899999999999999999999999999999999999754

>2e6o_A HMG box-containing protein 1; HMG-box domain, HMG-box transcription factor 1, high mobility group box transcription factor 1, structural genomics; NMR {Homo sapiens}

Probab=97.43  E-value=0.00016  Score=51.18  Aligned_cols=45  Identities=18%  Similarity=0.230  Sum_probs=40.9

Q ss_pred             ccCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          107 QKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       107 EKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      .+..|-++||..|+++.-++|++++|+++..|.-+.++..|+..+
T Consensus        16 ~~pKrP~~af~lf~~~~r~~~~~~~P~~~~~eisk~lg~~Wk~ls   60 (87)
T 2e6o_A           16 NKCKRPMNAFMLFAKKYRVEYTQMYPGKDNRAISVILGDRWKKMK   60 (87)
T ss_dssp             SSCCCCCCHHHHHHHHTHHHHHHHCTTSCHHHHHHHHHHHHHHSC
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCC
Confidence            445678999999999999999999999999999999999999754

>3u2b_C Transcription factor SOX-4; HMG domain, transcriptional regulation, transcription-DNA CO; HET: DNA; 2.40A {Mus musculus} SCOP: a.21.1.1

Probab=97.40  E-value=0.00019  Score=49.29  Aligned_cols=42  Identities=21%  Similarity=0.375  Sum_probs=39.1

Q ss_pred             CCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          110 QRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       110 QRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      .|-+|||..|+++.-..|++++|++++.|.-+.++..|+..+
T Consensus         4 KRP~naf~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls   45 (79)
T 3u2b_C            4 KRPMNAFMVWSQIERRKIMEQSPDMHNAEISKRLGKRWKLLK   45 (79)
T ss_dssp             CCCCCHHHHHHHHHHHHHHTTSTTSCHHHHHHHHHHHHHHSC
T ss_pred             CCCCCHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCC
Confidence            578999999999999999999999999999999999998644

>2co9_A Thymus high mobility group box protein TOX; TOX protein, HMG box domain, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=97.38  E-value=0.00022  Score=52.08  Aligned_cols=45  Identities=27%  Similarity=0.431  Sum_probs=40.8

Q ss_pred             ccCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          107 QKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       107 EKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      .+..|-+|||..|+++.-..|+++||+++..|.-+.++..|+..+
T Consensus        16 ~~pKrP~say~lF~~~~r~~i~~~~P~~~~~eisk~lg~~Wk~ls   60 (102)
T 2co9_A           16 NEPQKPVSAYALFFRDTQAAIKGQNPNATFGEVSKIVASMWDGLG   60 (102)
T ss_dssp             CSCCCCCCHHHHTHHHHHHHHHHHCTTSCHHHHHHHHHHHHTTCC
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHccCC
Confidence            344578999999999999999999999999999999999999764

>2eqz_A High mobility group protein B3; HMG-box domain, mobility group protein 2A, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.33  E-value=0.00028  Score=49.69  Aligned_cols=44  Identities=23%  Similarity=0.371  Sum_probs=38.8

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCCH--HHHHHHHHHhhccCC
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDISH--REAFSTAAKNWAHFP  151 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~h--kEaF~~aA~nW~~~p  151 (184)
                      +..|-+|||..|+++.-..|++++|+++.  .|.-+.++..|+..+
T Consensus        15 ~PKrP~say~lF~~~~r~~~k~~~p~~~~~~~eisk~lg~~Wk~ls   60 (86)
T 2eqz_A           15 KPKGKMSAYAFFVQTCREEHKKKNPEVPVNFAEFSKKCSERWKTMS   60 (86)
T ss_dssp             SCCCCCCHHHHHHHHHHHHHHHHCTTSCCCHHHHHHHHHHHHHSSC
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHHCCCCCCcHHHHHHHHHHHHHhCC
Confidence            34567899999999999999999999974  999999999998754

>2lef_A LEF-1 HMG, protein (lymphoid enhancer-binding factor); LEF1, HMG, TCR-A, transcription factor; HET: DNA; NMR {Mus musculus} SCOP: a.21.1.1

Probab=97.30  E-value=0.00041  Score=48.72  Aligned_cols=43  Identities=12%  Similarity=0.181  Sum_probs=39.7

Q ss_pred             CCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          109 RQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       109 RQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      -.|-+|||..|+++.-+.|++++|++++.|.-+.++..|+..+
T Consensus         3 pKRP~naf~lf~~~~r~~~~~~~P~~~~~eisk~lg~~Wk~ls   45 (86)
T 2lef_A            3 IKKPLNAFMLYMKEMRANVVAESTLKESAAINQILGRRWHALS   45 (86)
T ss_dssp             CCCCCCHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHTTSC
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhcCC
Confidence            3578999999999999999999999999999999999999654

>4euw_A Transcription factor SOX-9; protein-DNA complex, HMG domain, activator, DNA-binding, NUC transcription; HET: DNA; 2.77A {Homo sapiens}

Probab=97.23  E-value=0.00052  Score=50.59  Aligned_cols=45  Identities=16%  Similarity=0.278  Sum_probs=40.9

Q ss_pred             ccCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          107 QKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       107 EKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      .+-.|-+|||..|+++.-..|++++|++++.|.-+.++..|+..+
T Consensus        28 ~~pKRP~naf~lF~~~~r~~~k~~~P~~~~~eisk~lg~~Wk~ls   72 (106)
T 4euw_A           28 PHVKRPMNAFMVWAQAARRKLADQYPHLHNAELSKTLGKLWRLLN   72 (106)
T ss_dssp             CCCCCCCCHHHHHHHHHHHHHHHHCTTSCHHHHHHHHHHHHTTCC
T ss_pred             CcCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcCC
Confidence            445678999999999999999999999999999999999998754

>1k99_A Upstream binding factor 1; alpha-helix, L-shape, DNA binding protein; NMR {Homo sapiens} SCOP: a.21.1.1

Probab=97.23  E-value=0.00038  Score=50.78  Aligned_cols=44  Identities=18%  Similarity=0.354  Sum_probs=40.0

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      +..|-+|||..|+++.-..|++++|+++..|.-+.++..|+..+
T Consensus        10 ~PKRP~saf~lF~~~~r~~ik~~~P~~~~~eisk~lg~~Wk~ls   53 (99)
T 1k99_A           10 FPKKPLTPYFRFFMEKRAKYAKLHPEMSNLDLTKILSKKYKELP   53 (99)
T ss_dssp             SCCCSCCHHHHHHHHHHHHHHTTCTTSCSHHHHHHHHHHHHHSC
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCC
Confidence            34567999999999999999999999999999999999999643

>2d7l_A WD repeat and HMG-box DNA binding protein 1; high mobility group box domain, helix-turn-helix, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.13  E-value=0.00081  Score=47.93  Aligned_cols=43  Identities=16%  Similarity=0.345  Sum_probs=39.0

Q ss_pred             CCCCchhhhHHHHHHHHHHHhhCCCCC-HHHHHHHHHHhhccCC
Q 029974          109 RQRVPSAYNRFIKEEIQRIKASNPDIS-HREAFSTAAKNWAHFP  151 (184)
Q Consensus       109 RQRvpsayN~fmK~ei~riK~~~P~i~-hkEaF~~aA~nW~~~p  151 (184)
                      ..|-+|||..|+++.-..||++||+++ ..|.-+.++..|+..+
T Consensus         6 PKRP~say~lF~~e~R~~ik~~~P~~~~~~eisK~lge~Wk~ls   49 (81)
T 2d7l_A            6 SGRPKTGFQMWLEENRSNILSDNPDFSDEADIIKEGMIRFRVLS   49 (81)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHHHCTTCCSHHHHHHHHHHHHSSSC
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHHcCC
Confidence            346799999999999999999999998 9999999999998643

>2gzk_A Sex-determining region on Y / HMGB1; protein-DNA complex, HMG BOX, amphoterin, DNA/structural protein complex; NMR {Homo sapiens} SCOP: a.21.1.1 a.21.1.1

Probab=97.08  E-value=0.0007  Score=52.02  Aligned_cols=44  Identities=25%  Similarity=0.402  Sum_probs=40.2

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      +..|-+|||..|+++.-.+|++++|+++..|.-+.++..|+..+
T Consensus        88 ~pKrp~say~lf~~~~r~~~~~~~p~~~~~ei~k~lg~~Wk~ls  131 (159)
T 2gzk_A           88 APKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTA  131 (159)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHHSC
T ss_pred             cccccccccchhhHhhHHHHHHhCCCCCHHHHHHHHHHHHHhCC
Confidence            34578999999999999999999999999999999999998754

>2yrq_A High mobility group protein B1; HMG box domain, DNA binding, helix-turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.04  E-value=0.00073  Score=52.81  Aligned_cols=45  Identities=24%  Similarity=0.398  Sum_probs=40.8

Q ss_pred             ccCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          107 QKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       107 EKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      .+..|-+|||..|+++...+|++++|+++..|.-+.++..|+..+
T Consensus       100 ~~pKrP~saf~lf~~~~r~~~~~~~p~~~~~ei~k~lg~~Wk~ls  144 (173)
T 2yrq_A          100 NAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTA  144 (173)
T ss_dssp             SSCCCCCCHHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHSC
T ss_pred             ccccCcccHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCC
Confidence            345678899999999999999999999999999999999999754

>1aab_A High mobility group protein; HMG-BOX, DNA-binding; NMR {Rattus norvegicus} SCOP: a.21.1.1

Probab=96.98  E-value=0.00046  Score=48.06  Aligned_cols=43  Identities=23%  Similarity=0.373  Sum_probs=38.3

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCCH--HHHHHHHHHhhccC
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDISH--REAFSTAAKNWAHF  150 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~h--kEaF~~aA~nW~~~  150 (184)
                      +..|-+|||..|+++.-..|++++|+++.  .|.-+.++..|+..
T Consensus         7 ~PKrP~say~lF~~~~r~~~~~~~p~~~~~~~eisk~lg~~Wk~l   51 (83)
T 1aab_A            7 KPRGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTM   51 (83)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHTTSCTTTCCCSSSSHHHHHHHHTTS
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHCCCCCCcHHHHHHHHHHHHHhC
Confidence            34567899999999999999999999975  99999999999864

>2lhj_A High mobility group protein homolog NHP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid; NMR {Babesia bovis}

Probab=96.98  E-value=0.00069  Score=48.78  Aligned_cols=45  Identities=27%  Similarity=0.364  Sum_probs=40.9

Q ss_pred             ccCCCCchhhhHHHHHHHHHHHhhCCCCC--HHHHHHHHHHhhccCC
Q 029974          107 QKRQRVPSAYNRFIKEEIQRIKASNPDIS--HREAFSTAAKNWAHFP  151 (184)
Q Consensus       107 EKRQRvpsayN~fmK~ei~riK~~~P~i~--hkEaF~~aA~nW~~~p  151 (184)
                      .+..|-+|||..|+++.-.+|+++||+++  ..|.-+.++..|+..+
T Consensus        21 ~~pKrP~say~lF~~~~r~~~k~~~p~~~~~~~eisk~lg~~Wk~ls   67 (97)
T 2lhj_A           21 NAPKRALSSYMFFAKEKRVEIIAENPEIAKDVAAIGKMIGAAWNALS   67 (97)
T ss_dssp             CCCCCCCCSSTHHHHGGGGGHHHHCTTSTTCSSHHHHHHHHTSSSSC
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHCCCCCccHHHHHHHHHHHHHhCC
Confidence            44567899999999999999999999999  9999999999999754

>1cg7_A Protein (NON histone protein 6 A); HMG BOX, DNA bending, DNA recognition, chromatin, DNA binding protein; NMR {Saccharomyces cerevisiae} SCOP: a.21.1.1 PDB: 1j5n_A 1lwm_A

Probab=96.87  E-value=0.00025  Score=50.90  Aligned_cols=45  Identities=24%  Similarity=0.437  Sum_probs=40.7

Q ss_pred             ccCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          107 QKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       107 EKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      .+..|-+|||..|+++.-..|+++||+++..|.-+.++..|+..+
T Consensus        19 ~~pKrP~saf~lF~~~~r~~~~~~~P~~~~~eisk~lg~~Wk~ls   63 (93)
T 1cg7_A           19 NAPKRALSAYMFFANENRDIVRSENPDITFGQVGKKLGEKWKALT   63 (93)
T ss_dssp             SCCCSCCCHHHHHHHHHTSTTTTTCTTSCHHHHTTTHHHHHHTTH
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCC
Confidence            445678999999999999999999999999999999999999753

>2yrq_A High mobility group protein B1; HMG box domain, DNA binding, helix-turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.74  E-value=0.0019  Score=50.41  Aligned_cols=45  Identities=20%  Similarity=0.380  Sum_probs=39.9

Q ss_pred             ccCCCCchhhhHHHHHHHHHHHhhCCC--CCHHHHHHHHHHhhccCC
Q 029974          107 QKRQRVPSAYNRFIKEEIQRIKASNPD--ISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       107 EKRQRvpsayN~fmK~ei~riK~~~P~--i~hkEaF~~aA~nW~~~p  151 (184)
                      .+..|-+|||..|+++.-..|+++||+  ++-.|..+.++..|+..+
T Consensus        14 ~~PKrp~say~lF~~~~r~~~k~~~p~~~~~~~eisk~lg~~Wk~ls   60 (173)
T 2yrq_A           14 KKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMS   60 (173)
T ss_dssp             SSCCCCCCHHHHHHHHHHHHHHHHCTTCCCCHHHHHHHHHHHHHHSC
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHhCC
Confidence            344568899999999999999999999  689999999999998754

>3tq6_A Transcription factor A, mitochondrial; transcription, transcription regulation, mitochondrion; HET: DNA BRU 1PE; 2.45A {Homo sapiens}

Probab=96.66  E-value=0.0021  Score=52.64  Aligned_cols=44  Identities=34%  Similarity=0.571  Sum_probs=40.3

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      +..|-+|||..|+++....|+++||+++..|..+.++..|+..+
T Consensus         9 ~PKrP~say~lF~~~~r~~~k~~~P~~~~~eisk~lge~Wk~Ls   52 (214)
T 3tq6_A            9 CPKKPVSSYLRFSKEQLPIFKAQNPDAKTTELIRRIAQRWRELP   52 (214)
T ss_dssp             SCCCCCCHHHHHHHHHHHHHHHHCTTSCHHHHHHHHHHHHHHSC
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHccC
Confidence            34568999999999999999999999999999999999999765

>3tmm_A Transcription factor A, mitochondrial; HMG, high mobility group, transcription, LSP1, mitochon transcription-DNA complex; HET: DNA; 2.50A {Homo sapiens}

Probab=96.56  E-value=0.0023  Score=53.13  Aligned_cols=45  Identities=33%  Similarity=0.560  Sum_probs=41.5

Q ss_pred             ccCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          107 QKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       107 EKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      .+..|-+|||..|+++....|+++||+++..|..+.++..|+..+
T Consensus        40 ~~PKrP~say~lF~~e~r~~~k~~~P~~~~~eisk~lge~Wk~Ls   84 (238)
T 3tmm_A           40 SCPKKPVSSYLRFSKEQLPIFKAQNPDAKTTELIRRIAQRWRELP   84 (238)
T ss_dssp             HSCCCCCCHHHHHHHHHHHHHHHHSTTSCHHHHHHHHHHHHHHSC
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhCC
Confidence            566788999999999999999999999999999999999998754

>1l8y_A Upstream binding factor 1; HUBF, HMG box 5, DNA binding domain, DNA binding protein; NMR {Homo sapiens} SCOP: a.21.1.1 PDB: 1l8z_A 2hdz_A

Probab=96.45  E-value=0.0041  Score=46.07  Aligned_cols=42  Identities=12%  Similarity=0.135  Sum_probs=38.4

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccC
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHF  150 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~  150 (184)
                      |..|-+|||+.|+.+...++++++|+ ...|.-+.+...|+..
T Consensus         4 kPKrP~SAy~lf~~~~r~~~k~~~p~-~~~evsK~lGe~Wk~l   45 (91)
T 1l8y_A            4 LPESPKRAEEIWQQSVIGDYLARFKN-DRVKALKAMEMTWNNM   45 (91)
T ss_dssp             CCCCCCHHHHHHHHHHHHHHHHHTTS-THHHHHHHHHHHHHTT
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHhcC
Confidence            45678999999999999999999999 9999999999999874

>3fgh_A Transcription factor A, mitochondrial; HMG domain, mitochondrial transcription, activator, DNA- binding, mitochondrion, phosphoprotein; 1.35A {Homo sapiens}

Probab=96.39  E-value=0.0026  Score=42.56  Aligned_cols=40  Identities=35%  Similarity=0.660  Sum_probs=35.2

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      |..|-+|||..|+++.-..+|..+|    .|..+.++..|+..+
T Consensus         2 ~PKrP~say~~F~~~~r~~~k~~~p----~ei~k~lg~~Wk~ls   41 (67)
T 3fgh_A            2 KPKRPRSAYNVYVAERFQEAKGDSP----QEKLKTVKENWKNLS   41 (67)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHCSSSH----HHHHHHHHHHHHTCC
T ss_pred             cCCCCCCHHHHHHHHHHHHHHhcCH----HHHHHHHHHHHhhCC
Confidence            4467889999999999999999887    599999999999754

>2gzk_A Sex-determining region on Y / HMGB1; protein-DNA complex, HMG BOX, amphoterin, DNA/structural protein complex; NMR {Homo sapiens} SCOP: a.21.1.1 a.21.1.1

Probab=96.22  E-value=0.0063  Score=46.63  Aligned_cols=45  Identities=13%  Similarity=0.342  Sum_probs=40.8

Q ss_pred             ccCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          107 QKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       107 EKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      .+..|-++||-.|++++-.+|+.++|+++..|.-+.++..|+..+
T Consensus         3 ~~~Krp~~af~~~~~~~~~ki~~~~P~~~~~eisk~lg~~Wk~ls   47 (159)
T 2gzk_A            3 DRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLT   47 (159)
T ss_dssp             TCCCCCCCHHHHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHSC
T ss_pred             CCCCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhh
Confidence            355678999999999999999999999999999999999998654

>1v63_A Nucleolar transcription factor 1; DNA binding, structural genomics, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Mus musculus} SCOP: a.21.1.1

Probab=95.32  E-value=0.024  Score=41.43  Aligned_cols=41  Identities=12%  Similarity=0.357  Sum_probs=32.6

Q ss_pred             CCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          109 RQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       109 RQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      ..|-+|||..|+++.+.  +..+|+++..|.-+.++..|+..+
T Consensus         9 PKrP~say~lF~~e~~~--~p~~~~~~~~eisK~lge~Wk~ls   49 (101)
T 1v63_A            9 KKPPMNGYQKFSQELLS--NGELNHLPLKERMVEIGSRWQRIS   49 (101)
T ss_dssp             CCCCSSSHHHHHHHHHH--HCTTTTSCHHHHHHHHHHHHTTSC
T ss_pred             CCCCCCHHHHHHHHHHh--CCCCCCCCHHHHHHHHHHHHHhCC
Confidence            34578999999999964  344555788999999999999754

>2yuk_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens}

Probab=93.83  E-value=0.014  Score=42.97  Aligned_cols=42  Identities=17%  Similarity=0.195  Sum_probs=34.1

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      +..|.||||-.|+.++-.+||++||+++  +.|..+|+.|+..+
T Consensus        22 aPKRp~sAf~lf~~e~R~kik~enP~~s--~~~~eIse~Wk~ls   63 (90)
T 2yuk_A           22 LGEMATVAPVLYTNINFPNLKEEFPDWT--TRVKQIAKLWRKAS   63 (90)
T ss_dssp             HGGGCSSSHHHHHHHHCTTHHHHCCSHH--HHHHHHHHHHHHSC
T ss_pred             CCCCCccHHHHHHHHhHHHHHHHCcCcc--chHHHHHHHHHcCC
Confidence            3467899999999999999999999985  33555668898643

>1v64_A Nucleolar transcription factor 1; DNA binding, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: a.21.1.1

Probab=93.76  E-value=0.056  Score=39.93  Aligned_cols=39  Identities=18%  Similarity=0.488  Sum_probs=35.0

Q ss_pred             CCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCc
Q 029974          110 QRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPH  152 (184)
Q Consensus       110 QRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~ph  152 (184)
                      .|-+|||..|+++.-..||    +++..|.-+.++..|+..+.
T Consensus        19 KrP~say~lF~~e~r~~~k----~~~~~eisk~lg~~Wk~Ls~   57 (108)
T 1v64_A           19 KPPPNSYSLYCAELMANMK----DVPSTERMVLCSQQWKLLSQ   57 (108)
T ss_dssp             CCCSSHHHHHHHHHHHHCT----TSCHHHHHHHHHHHHHHSCH
T ss_pred             CCCCCHHHHHHHHHHHHHh----CCCHHHHHHHHHHHHHhCCH
Confidence            4678999999999999988    89999999999999998653

>3tmm_A Transcription factor A, mitochondrial; HMG, high mobility group, transcription, LSP1, mitochon transcription-DNA complex; HET: DNA; 2.50A {Homo sapiens}

Probab=93.00  E-value=0.024  Score=47.01  Aligned_cols=40  Identities=35%  Similarity=0.655  Sum_probs=35.3

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      +..|-+|||+.|+++...+||.++|+    |..+.++..|+..+
T Consensus       146 ~PKrP~say~lF~~e~r~~~k~~~p~----ei~k~lg~~Wk~ls  185 (238)
T 3tmm_A          146 KPKRPRSAYNVYVAERFQEAKGDSPQ----EKLKTVKENWKNLS  185 (238)
T ss_dssp             CCCCCCCHHHHHHHHHTTTSCCSSHH----HHHHHHHHHHHTCC
T ss_pred             CCCCCCcHHHHHHHHHHHHHhccCHH----HHHHHHHHHHHhCC
Confidence            44678999999999999999988876    89999999999754

>3tq6_A Transcription factor A, mitochondrial; transcription, transcription regulation, mitochondrion; HET: DNA BRU 1PE; 2.45A {Homo sapiens}

Probab=92.91  E-value=0.025  Score=46.19  Aligned_cols=40  Identities=35%  Similarity=0.655  Sum_probs=35.3

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      +..|-+|||+.|+++...+|+.++|+    |..+.++..|+..+
T Consensus       114 ~PKrP~say~lF~~e~r~~~k~~~p~----ei~k~lg~~Wk~ls  153 (214)
T 3tq6_A          114 KPKRPRSAYNVYVAERFQEAKGDSPQ----EKLKTVKENWKNLS  153 (214)
T ss_dssp             CCCCCCCHHHHHHHHHTTTSSCSSHH----HHHHHHHHHHHTCC
T ss_pred             CcccccchhhhhHHHHHHhhccCCHH----HHHHHHHHHHHcCC
Confidence            44678999999999999999988886    89999999999865

>2cto_A Novel protein; high mobility group box domain, helix-turn-helix, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=89.32  E-value=0.17  Score=37.05  Aligned_cols=40  Identities=20%  Similarity=0.458  Sum_probs=34.0

Q ss_pred             CCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHH---HHhhccC
Q 029974          109 RQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTA---AKNWAHF  150 (184)
Q Consensus       109 RQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~a---A~nW~~~  150 (184)
                      ..|-+|||..|+++.-.+||.+  +++-.|.=+..   ...|+..
T Consensus        11 PKRP~sAf~lF~~e~R~~ik~e--~~~~~eisK~l~~cGe~Wk~l   53 (93)
T 2cto_A           11 RKASRNAYYFFVQEKIPELRRR--GLPVARVADAIPYCSSDWALL   53 (93)
T ss_dssp             CCSSCCHHHHHHHTTHHHHHHH--TCCCSSHHHHTGGGHHHHHHS
T ss_pred             CCCCCCHHHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHHHHcC
Confidence            3467999999999999999998  78888877777   8999874

---

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	184
d1hsma_	79	a.21.1.1 (A:) High mobility group protein 1, HMG1	0.001
d1lwma_	93	a.21.1.1 (A:) NHP6a {Baker's yeast (Saccharomyces	0.004
d1k99a_	91	a.21.1.1 (A:) Nucleolar transcription factor 1 (Up	0.004

>d1hsma_ a.21.1.1 (A:) High mobility group protein 1, HMG1 {Hamster (Cricetulus griseus) [TaxId: 10029]} Length = 79

class: All alpha proteins
fold: HMG-box
superfamily: HMG-box
family: HMG-box
domain: High mobility group protein 1, HMG1
species: Hamster (Cricetulus griseus) [TaxId: 10029]

 Score = 34.4 bits (79), Expect = 0.001
 Identities = 11/41 (26%), Positives = 18/41 (43%)

Query: 111 RVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP 151
           R PSA+  F  E   +IK  +P +S  +      + W +  
Sbjct: 5   RPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTA 45

>d1lwma_ a.21.1.1 (A:) NHP6a {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 93

class: All alpha proteins
fold: HMG-box
superfamily: HMG-box
family: HMG-box
domain: NHP6a
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 32.9 bits (75), Expect = 0.004
 Identities = 17/57 (29%), Positives = 24/57 (42%), Gaps = 8/57 (14%)

Query: 99  TPRMPPIRQKRQ--------RVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNW 147
           TPR P  R  R+        R  SAY  F  E    +++ NPDI+  +      + W
Sbjct: 3   TPREPKKRTTRKKKDPNAPKRALSAYMFFANENRDIVRSENPDITFGQVGKKLGEKW 59

>d1k99a_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1) {Human (Homo sapiens) [TaxId: 9606]} Length = 91

class: All alpha proteins
fold: HMG-box
superfamily: HMG-box
family: HMG-box
domain: Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.0 bits (75), Expect = 0.004
 Identities = 8/44 (18%), Positives = 20/44 (45%)

Query: 108 KRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP 151
             ++  + Y RF  E+  +    +P++S+ +     +K +   P
Sbjct: 10  FPKKPLTPYFRFFMEKRAKYAKLHPEMSNLDLTKILSKKYKELP 53

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	184
d1wgfa_	90	Nucleolar transcription factor 1 (Upstream binding	97.86
d1hsma_	79	High mobility group protein 1, HMG1 {Hamster (Cric	97.8
d1qrva_	73	HMG-D {Drosophila melanogaster [TaxId: 7227]}	97.72
d1ckta_	71	High mobility group protein 1, HMG1 {Rat (Rattus n	97.68
d1k99a_	91	Nucleolar transcription factor 1 (Upstream binding	97.67
d1lwma_	93	NHP6a {Baker's yeast (Saccharomyces cerevisiae) [T	97.63
d1j46a_	85	SRY {Human (Homo sapiens) [TaxId: 9606]}	97.4
d1gt0d_	80	Sox-2 {Mouse (Mus musculus) [TaxId: 10090]}	97.4
d1i11a_	70	Sox-5 {Mouse (Mus musculus) [TaxId: 10090]}	97.14
d2lefa_	86	Lymphoid enhancer-binding factor, LEF1 {Mouse (Mus	97.07
d1v64a_	108	Nucleolar transcription factor 1 (Upstream binding	95.96
d1v63a_	101	Nucleolar transcription factor 1 (Upstream binding	95.75

>d1wgfa_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1) {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: HMG-box
superfamily: HMG-box
family: HMG-box
domain: Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.86  E-value=7.4e-06  Score=56.64  Aligned_cols=46  Identities=24%  Similarity=0.401  Sum_probs=41.0

Q ss_pred             ccCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCc
Q 029974          107 QKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPH  152 (184)
Q Consensus       107 EKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~ph  152 (184)
                      .+..|-+|||..|+++..++|++++|++++.|.-..++..|+..+.
T Consensus        19 ~~PKrP~say~lF~~e~r~~~~~~~p~~~~~ei~k~l~~~W~~Ls~   64 (90)
T d1wgfa_          19 EKPKRPVSAMFIFSEEKRRQLQEERPELSESELTRLLARMWNDLSE   64 (90)
T ss_dssp             CCCCCCCCHHHHHHHHTHHHHHHHCTTSCHHHHHHHHHHHHHHSCH
T ss_pred             CCCCCCCcHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhCCH
Confidence            3345678999999999999999999999999999999999998643

>d1hsma_ a.21.1.1 (A:) High mobility group protein 1, HMG1 {Hamster (Cricetulus griseus) [TaxId: 10029]}

class: All alpha proteins
fold: HMG-box
superfamily: HMG-box
family: HMG-box
domain: High mobility group protein 1, HMG1
species: Hamster (Cricetulus griseus) [TaxId: 10029]

Probab=97.80  E-value=8.5e-06  Score=55.21  Aligned_cols=41  Identities=27%  Similarity=0.430  Sum_probs=38.8

Q ss_pred             CCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          111 RVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       111 RvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      |-+|||..|+++....|++++|++++.|.-+.++..|+..+
T Consensus         5 rP~say~~f~~~~r~~i~~~~p~~~~~ei~k~~~~~W~~ls   45 (79)
T d1hsma_           5 RPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTA   45 (79)
T ss_dssp             CCCCSHHHHHHHHHHHHHHHCTTCCTTTHHHHHHHHHHTSC
T ss_pred             CCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhHHhcCC
Confidence            56899999999999999999999999999999999999865

>d1qrva_ a.21.1.1 (A:) HMG-D {Drosophila melanogaster [TaxId: 7227]}

class: All alpha proteins
fold: HMG-box
superfamily: HMG-box
family: HMG-box
domain: HMG-D
species: Drosophila melanogaster [TaxId: 7227]

Probab=97.72  E-value=2.3e-05  Score=52.53  Aligned_cols=42  Identities=29%  Similarity=0.417  Sum_probs=38.7

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhcc
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAH  149 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~  149 (184)
                      |..|-+|||..|+++.-+.||++||++++.|.-+.++..|+.
T Consensus         3 ~PKrP~say~lf~~~~r~~~k~~~p~~~~~eisk~l~~~Wk~   44 (73)
T d1qrva_           3 KPKRPLSAYMLWLNSARESIKRENPGIKVTEVAKRGGELWRA   44 (73)
T ss_dssp             SCCCCCCHHHHHHHHHHHHHHHTSTTCCHHHHHHHHHHHHHH
T ss_pred             cCCCCCcHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHhcC
Confidence            345679999999999999999999999999999999999984

>d1ckta_ a.21.1.1 (A:) High mobility group protein 1, HMG1 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: HMG-box
superfamily: HMG-box
family: HMG-box
domain: High mobility group protein 1, HMG1
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.68  E-value=3.4e-05  Score=51.07  Aligned_cols=44  Identities=20%  Similarity=0.378  Sum_probs=39.2

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCC--CCHHHHHHHHHHhhccCC
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPD--ISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~--i~hkEaF~~aA~nW~~~p  151 (184)
                      |..|-+|||..|+++.-++||++||+  +++.|.-+.++..|+..+
T Consensus         1 KPKrP~say~~f~~~~r~~~k~~~p~~~~~~~ei~k~~~~~Wk~ls   46 (71)
T d1ckta_           1 KPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMS   46 (71)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHHHHCTTCCCCHHHHHHHHHHHHHTCC
T ss_pred             CcCCCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHcCCC
Confidence            44578999999999999999999997  667899999999999865

>d1k99a_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: HMG-box
superfamily: HMG-box
family: HMG-box
domain: Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.67  E-value=2.5e-05  Score=53.97  Aligned_cols=45  Identities=18%  Similarity=0.353  Sum_probs=41.2

Q ss_pred             ccCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          107 QKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       107 EKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      ++..|-+|||..|+++....|++.+|+++..|.-+.++..|+..+
T Consensus         9 ~~PKrP~say~lf~~~~r~~~~~~~p~~~~~ev~k~l~~~W~~ls   53 (91)
T d1k99a_           9 DFPKKPLTPYFRFFMEKRAKYAKLHPEMSNLDLTKILSKKYKELP   53 (91)
T ss_dssp             SSCCCSCCHHHHHHHHHHHHHHTTCTTSCSHHHHHHHHHHHHHSC
T ss_pred             CCCCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHhHhcCCC
Confidence            455678999999999999999999999999999999999999754

>d1lwma_ a.21.1.1 (A:) NHP6a {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: HMG-box
superfamily: HMG-box
family: HMG-box
domain: NHP6a
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.63  E-value=5.3e-05  Score=52.92  Aligned_cols=46  Identities=24%  Similarity=0.419  Sum_probs=41.3

Q ss_pred             ccCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCc
Q 029974          107 QKRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPH  152 (184)
Q Consensus       107 EKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~ph  152 (184)
                      .+..|-+|||..|+++....||+++|++++.|.-..++..|+..+.
T Consensus        19 ~~PKrP~saf~lF~~e~r~~ik~~~p~~~~~ei~k~l~~~W~~ls~   64 (93)
T d1lwma_          19 NAPKRALSAYMFFANENRDIVRSENPDITFGQVGKKLGEKWKALTP   64 (93)
T ss_dssp             SCCCCCCCHHHHHHHHHHHHHHHHCTTSCHHHHHHHHHHHHHTSCH
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhCCH
Confidence            3445788999999999999999999999999999999999998653

>d1j46a_ a.21.1.1 (A:) SRY {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: HMG-box
superfamily: HMG-box
family: HMG-box
domain: SRY
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.40  E-value=0.00013  Score=50.25  Aligned_cols=45  Identities=13%  Similarity=0.338  Sum_probs=41.0

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCc
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPH  152 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~ph  152 (184)
                      |-.|-+|||..|+++.-..|+++||++++.|.=+.++..|+..+.
T Consensus         4 ~iKRP~nay~lF~~~~r~~i~~~~p~~~~~eisk~ig~~W~~L~~   48 (85)
T d1j46a_           4 RVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTE   48 (85)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHHHHSTTSCHHHHHHHHHHHHTTSCH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHhcCCH
Confidence            446789999999999999999999999999999999999998653

>d1gt0d_ a.21.1.1 (D:) Sox-2 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: HMG-box
superfamily: HMG-box
family: HMG-box
domain: Sox-2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.40  E-value=0.00013  Score=50.15  Aligned_cols=44  Identities=14%  Similarity=0.345  Sum_probs=40.9

Q ss_pred             cCCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          108 KRQRVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       108 KRQRvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      |-.|-+|||-.|+++.-++|++++|++++.|.=+.++..|+..+
T Consensus         2 kiKRP~nAy~lF~~~~r~~~~~~~p~~~~~eisk~~g~~W~~l~   45 (80)
T d1gt0d_           2 RVKRPMNAFMVWSRGQRRKMAQENPKMHNSEISKRLGAEWKLLS   45 (80)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHHTTSTTSCHHHHHHHHHHHHTTSC
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHCcCC
Confidence            45688999999999999999999999999999999999999755

>d1i11a_ a.21.1.1 (A:) Sox-5 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: HMG-box
superfamily: HMG-box
family: HMG-box
domain: Sox-5
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.14  E-value=0.00034  Score=46.40  Aligned_cols=41  Identities=20%  Similarity=0.370  Sum_probs=38.5

Q ss_pred             CCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          111 RVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       111 RvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      |-+|||-.|+++.-++|++++|++++.|.=+.++..|+..+
T Consensus         5 RP~nay~lf~~~~r~~i~~~~p~~~~~eisk~lg~~Wk~ls   45 (70)
T d1i11a_           5 RPMNAFMVWAKDERRKILQAFPDMHNSNISKILGSRWKAMT   45 (70)
T ss_dssp             CSCCHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHHHTTSC
T ss_pred             CCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCC
Confidence            67899999999999999999999999999999999999754

>d2lefa_ a.21.1.1 (A:) Lymphoid enhancer-binding factor, LEF1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: HMG-box
superfamily: HMG-box
family: HMG-box
domain: Lymphoid enhancer-binding factor, LEF1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.07  E-value=0.00039  Score=47.78  Aligned_cols=41  Identities=12%  Similarity=0.197  Sum_probs=38.2

Q ss_pred             CCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 029974          111 RVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP  151 (184)
Q Consensus       111 RvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~p  151 (184)
                      |-++||-.|+++.-++|+++||+++..|.=..++..|+..+
T Consensus         5 RP~naf~lF~~~~r~~~~~~~P~~~~~~Isk~lg~~Wk~ls   45 (86)
T d2lefa_           5 KPLNAFMLYMKEMRANVVAESTLKESAAINQILGRRWHALS   45 (86)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHTTSC
T ss_pred             CCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCC
Confidence            56799999999999999999999999999999999999754

>d1v64a_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1) {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: HMG-box
superfamily: HMG-box
family: HMG-box
domain: Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.96  E-value=0.0035  Score=44.27  Aligned_cols=38  Identities=16%  Similarity=0.419  Sum_probs=32.2

Q ss_pred             CCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCc
Q 029974          111 RVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPH  152 (184)
Q Consensus       111 RvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~ph  152 (184)
                      |-++||..|+++..+    ..|+++.+|.+..+++.|+..+.
T Consensus        20 ~P~~ay~lF~~~~r~----~~~~~~~~e~~k~ig~~W~~Ls~   57 (108)
T d1v64a_          20 PPPNSYSLYCAELMA----NMKDVPSTERMVLCSQQWKLLSQ   57 (108)
T ss_dssp             CCSSHHHHHHHHHHH----HCTTSCHHHHHHHHHHHHHHSCH
T ss_pred             CCCcHHHHHHHHHHH----HccCCCHHHHHHHHHHHHccCCH
Confidence            457999999998654    46899999999999999998664

>d1v63a_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1) {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: HMG-box
superfamily: HMG-box
family: HMG-box
domain: Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.75  E-value=0.0048  Score=42.65  Aligned_cols=40  Identities=13%  Similarity=0.341  Sum_probs=34.4

Q ss_pred             CCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCc
Q 029974          111 RVPSAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPH  152 (184)
Q Consensus       111 RvpsayN~fmK~ei~riK~~~P~i~hkEaF~~aA~nW~~~ph  152 (184)
                      |-++||..|+++-++.|+..+  ++.+|.-+.++..|+..+.
T Consensus        11 rP~~ay~~F~~e~r~~~~~~~--~~~~ei~k~~g~~Wk~ls~   50 (101)
T d1v63a_          11 PPMNGYQKFSQELLSNGELNH--LPLKERMVEIGSRWQRISQ   50 (101)
T ss_dssp             CCSSSHHHHHHHHHHHCTTTT--SCHHHHHHHHHHHHTTSCH
T ss_pred             CCCCHHHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHhhCCH
Confidence            357999999999999998766  4688999999999998654