Citrus Sinensis ID: 027837

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------22
Protein Sequence
MSSSTPAALSPDHLSSSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRGLLLPAANQLHLGHPFFTPQNLLEEIRNVPANMLMINPPNPADQSVMPVRVVDHQEIPKSPVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMPSDQPVKKTSVRQQQEGEDAMIKDGFFAPAANVGVTPY
Secondary Structure (PSIPRED)
cccccccccccccccccccEEEEEcccccEEEEEcccccccccEEEEEccccccccccccccccccccccccccccccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHccccccHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccEEEEEEEccccEEEEEEcccHHHccEEEEEccccccEEEEcccccccccccccccccccccccccccHccccccccccccccccccccccccccccccccccccccccccHHcccccHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccccEccccccccccccccccHHccccccccccccccccHccccccc
Coil and Loop (DISEMBL)
mssstpaalspdhlssseqlcyvhctfcdtvlavsvpctslfktvtvrcghctnlLSVNMRglllpaanqlhlghpfftpqNLLEEIrnvpanmlminppnpadqsvmpvrvvdhqeipkspvvnrppekrqrvpsaYNRFIKDEIQrikagnpdisHREAFSAAAKnwahfphihfglmpsdqpvkktSVRQQQEGedamikdgffapaanvgvtpy
Flexible Loop (DISEMBL)
mssstpaalspdhlsSSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRGLLLPAANQLHLGHPFFTPQNLLEEIRNVPANMLMINPPNPADQSVMPVRVVDHQeipkspvvnrppekrqrvpsaynrfIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMPSDQPVKKTSVRQQQEGEdamikdgffapaanvgvtpy
Low Complexity Region (SEG)
MSSSTPAALSPDHLSSSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRGLLLPAANQLHLGHPFFTPQNLLEEIRNVPANMLMINPPNPADQSVMPVRVVDHQEIPKSPVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMPSDQPVKKTSVRQQQEGEDAMIKDGFFAPAANVGVTPY
Disordered region (IsUnstruct)
******************QLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRGLLLPAANQLHLGHPFFTPQNLLEEIRNVPANMLMI******************************************RFIKDEIQRIK*****I*HREAFSAAAKNWAHFPHIHFGLM**************************************
Disordered Region (DISOPRED)
**************SSSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRGLLLPAA**********************************************************************NRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPH*******************************FFAPAANVGVTP*
Disordered Region (DISEMBL)
***************SSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRGLLLPAANQLHLGHPFFTPQNLLEEIRNVPANMLMINPPNPADQSVMPVRVVDHQEIPKSPVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMPSDQ************GEDAMIKDGFFAPAANVGVTPY
Disordered Region (DISPRO)
*************LSSSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRGLLLPAA*****************************************************PVVNRPP*KRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMPS*****************************NVGVTPY
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSSSTPAALSPDHLSSSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRGLLLPAANQLHLGHPFFTPQNLLEEIRNVPANMLMINPPNPADQSVMPVRVVDHQEIPKSPVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMPSDQPVKKTSVRQQQEGEDAMIKDGFFAPAANVGVTPY
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	218	2.2.26 [Sep-21-2011]
O22152	229	Axial regulator YABBY 1 O	yes	no	0.967	0.921	0.694	4e-77
Q9XFB1	240	Axial regulator YABBY 3 O	no	no	0.944	0.858	0.650	3e-68
Q0JBF0	266	Protein YABBY 5 OS=Oryza	yes	no	0.995	0.815	0.520	2e-62
Q01JG2	266	Protein YABBY 5 OS=Oryza	N/A	no	0.995	0.815	0.520	2e-62
Q6H668	256	Protein YABBY 4 OS=Oryza	no	no	0.935	0.796	0.569	2e-58
A2X7Q3	256	Protein YABBY 4 OS=Oryza	N/A	no	0.935	0.796	0.569	2e-58
Q8GW46	164	Axial regulator YABBY 5 O	no	no	0.697	0.926	0.568	5e-46
Q2QM17	207	Protein YABBY 6 OS=Oryza	no	no	0.743	0.782	0.487	2e-43
Q9XFB0	184	Putative axial regulator	no	no	0.816	0.967	0.507	2e-42
Q10FZ7	186	Protein YABBY 2 OS=Oryza	no	no	0.688	0.806	0.548	2e-41

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

 Score =  287 bits (734), Expect = 4e-77,   Method: Compositional matrix adjust.
 Identities = 152/219 (69%), Positives = 176/219 (80%), Gaps = 8/219 (3%)

Query: 7   AALSPDHLSSSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRGLLLP 66
           A  SPDH S S+ LCYV C FC T+LAV+VP TSLFKTVTVRCG CTNLLSVNMR  +LP
Sbjct: 12  AVCSPDHFSPSDHLCYVQCNFCQTILAVNVPYTSLFKTVTVRCGCCTNLLSVNMRSYVLP 71

Query: 67  AANQLHLG---HPFFTPQNLLEEIRNVPANMLMINPPNPADQSVMPVRVVDHQ--EIPKS 121
           A+NQL L    H +F PQ++LEE+R+ P+NM M+        + +P  +  HQ  EIPK+
Sbjct: 72  ASNQLQLQLGPHSYFNPQDILEELRDAPSNMNMMMMNQHPTMNDIPSFMDLHQQHEIPKA 131

Query: 122 PVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMP 181
           P VNRPPEKRQRVPSAYNRFIK+EIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGL+P
Sbjct: 132 PPVNRPPEKRQRVPSAYNRFIKEEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLVP 191

Query: 182 SDQPVKKTSVRQQQEGEDAMI-KDGFFAP-AANVGVTPY 218
            +QPVKKT++  QQEGED M+ K+GF+AP AANVGVTPY
Sbjct: 192 DNQPVKKTNM-PQQEGEDNMVMKEGFYAPAAANVGVTPY 229

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|Q9XFB1|YAB3_ARATH Axial regulator YABBY 3 OS=Arabidopsis thaliana GN=YAB3 PE=1 SV=1

 Score =  258 bits (658), Expect = 3e-68,   Method: Compositional matrix adjust.
 Identities = 149/229 (65%), Positives = 171/229 (74%), Gaps = 23/229 (10%)

Query: 8   ALSPDHLSSSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSV--NMRGLLL 65
           A  PDH SS++QLCYVHC+FCDTVLAVSVP +SLFKTVTVRCGHC+NLLSV  +MR LLL
Sbjct: 13  AFPPDHFSSTDQLCYVHCSFCDTVLAVSVPPSSLFKTVTVRCGHCSNLLSVTVSMRALLL 72

Query: 66  PAANQLHLGHPFFTPQ------NLLEEIR----NVPANMLM---INPPNPADQSVMPVR- 111
           P+ + L  GH F  P       NLLEE+R    N+  NM+M    +  +P +  VM  R 
Sbjct: 73  PSVSNL--GHSFLPPPPPPPPPNLLEEMRSGGQNINMNMMMSHHASAHHPNEHLVMATRN 130

Query: 112 --VVDH-QEIPKSPVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKN 168
              VDH QE+P+ P  NRPPEKRQRVPSAYNRFIK+EIQRIKAGNPDISHREAFSAAAKN
Sbjct: 131 GRSVDHLQEMPRPPPANRPPEKRQRVPSAYNRFIKEEIQRIKAGNPDISHREAFSAAAKN 190

Query: 169 WAHFPHIHFGLMPSDQPVKKTSVRQQQEGEDAMI-KDGFFAPAANVGVT 216
           WAHFPHIHFGLM    P KK +VR QQEGED M+ ++GF+  AANVGV 
Sbjct: 191 WAHFPHIHFGLMADHPPTKKANVR-QQEGEDGMMGREGFYGSAANVGVA 238

Involved in the abaxial cell fate determination during embryogenesis and organogenesis. Contributes to the repression of KNOX genes (STM, KNAT1/BP and KNAT2) to avoid ectopic meristems. Binds DNA without sequence specificity.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  238 bits (607), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 139/267 (52%), Positives = 161/267 (60%), Gaps = 50/267 (18%)

Query: 1   MSSSTPAALSPDHLS-----------SSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRC 49
           M SS P   S DHLS             EQLCYVHC FCDT+LAV VPC+SLFKTVTVRC
Sbjct: 1   MMSSAPETFSLDHLSQHQQQQPPPLAEQEQLCYVHCNFCDTILAVGVPCSSLFKTVTVRC 60

Query: 50  GHCTNLLSVNMRGLLLPAA----NQLHLGHPFFTP---QNLLEEI--RNVPANMLMI--- 97
           GHC NLLSVN+RGLLLPAA    NQL  G    +P     LL+E+     PA+++     
Sbjct: 61  GHCANLLSVNLRGLLLPAAASTANQLPFGQALLSPTSPHGLLDEVPSFQAPASLMTEQAS 120

Query: 98  ---------------NPPNPADQSVMPVRVVDHQEIPK-SPVVNRPPEKRQRVPSAYNRF 141
                          N P  +  S          + PK +P  NR  EKRQRVPSAYNRF
Sbjct: 121 PNVSSITSSNSSCANNAPATSMASAANKATQREPQQPKNAPSANRTSEKRQRVPSAYNRF 180

Query: 142 IKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMPSDQPVKKTSVRQQQ-EGEDA 200
           IKDEIQRIKA NPDI+HREAFSAAAKNWAHFPHIHFGLMP DQ +KKT ++ Q   GE  
Sbjct: 181 IKDEIQRIKASNPDITHREAFSAAAKNWAHFPHIHFGLMP-DQGLKKTGIQSQDGAGECM 239

Query: 201 MIKDGFF---------APAANVGVTPY 218
           + KDG +           A+++GVTP+
Sbjct: 240 LFKDGLYAAAAAAAAATAASSMGVTPF 266

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 =  238 bits (607), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 139/267 (52%), Positives = 161/267 (60%), Gaps = 50/267 (18%)

Query: 1   MSSSTPAALSPDHLS-----------SSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRC 49
           M SS P   S DHLS             EQLCYVHC FCDT+LAV VPC+SLFKTVTVRC
Sbjct: 1   MMSSAPETFSLDHLSQHQQQQPPPLAEQEQLCYVHCNFCDTILAVGVPCSSLFKTVTVRC 60

Query: 50  GHCTNLLSVNMRGLLLPAA----NQLHLGHPFFTP---QNLLEEI--RNVPANMLMI--- 97
           GHC NLLSVN+RGLLLPAA    NQL  G    +P     LL+E+     PA+++     
Sbjct: 61  GHCANLLSVNLRGLLLPAAASTANQLPFGQALLSPTSPHGLLDEVPSFQAPASLMTEQAS 120

Query: 98  ---------------NPPNPADQSVMPVRVVDHQEIPK-SPVVNRPPEKRQRVPSAYNRF 141
                          N P  +  S          + PK +P  NR  EKRQRVPSAYNRF
Sbjct: 121 PNVSSITSSNSSCANNAPATSMASAANKATQREPQQPKNAPSANRTSEKRQRVPSAYNRF 180

Query: 142 IKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMPSDQPVKKTSVRQQQ-EGEDA 200
           IKDEIQRIKA NPDI+HREAFSAAAKNWAHFPHIHFGLMP DQ +KKT ++ Q   GE  
Sbjct: 181 IKDEIQRIKASNPDITHREAFSAAAKNWAHFPHIHFGLMP-DQGLKKTGIQSQDGAGECM 239

Query: 201 MIKDGFF---------APAANVGVTPY 218
           + KDG +           A+++GVTP+
Sbjct: 240 LFKDGLYAAAAAAAAATAASSMGVTPF 266

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

Oryza sativa subsp. indica (taxid: 39946)

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

 Score =  225 bits (574), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 140/246 (56%), Positives = 163/246 (66%), Gaps = 42/246 (17%)

Query: 12  DHLSS---SEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRGLLLPAA 68
           DHL++   +EQLCYVHC  CDT+LAV VPC+SLFKTVTVRCGHC NLLSVN+RGLLLPA 
Sbjct: 14  DHLAAPSPTEQLCYVHCNCCDTILAVGVPCSSLFKTVTVRCGHCANLLSVNLRGLLLPAP 73

Query: 69  -----NQLHLGHPFFTP---QNLLEEIRNVPANMLMINPPN------------------P 102
                NQLH G    +P     LL+E+     ++LM    +                  P
Sbjct: 74  APAPANQLHFGPSLLSPTSPHGLLDEVAFQTPSLLMEQAASASLSSITGRSSSSCASNAP 133

Query: 103 ADQSVMPVRVVDHQ-EIPKSP--VVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHR 159
           A Q + P + V  + E+PK+     NRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHR
Sbjct: 134 AMQ-MPPAKPVQQEPELPKNAPASANRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHR 192

Query: 160 EAFSAAAKNWAHFPHIHFGLMPSDQPVKKTSVRQQQEGEDAMIKDGFF-------APAAN 212
           EAFSAAAKNWAHFPHIHFGLMP DQ  KKT  + Q   ED ++KD  +       A AAN
Sbjct: 193 EAFSAAAKNWAHFPHIHFGLMP-DQGFKKT-FKPQDGSEDILLKDSLYAAAAAAAAAAAN 250

Query: 213 VGVTPY 218
           +GVTP+
Sbjct: 251 MGVTPF 256

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 =  225 bits (574), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 140/246 (56%), Positives = 163/246 (66%), Gaps = 42/246 (17%)

Query: 12  DHLSS---SEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRGLLLPAA 68
           DHL++   +EQLCYVHC  CDT+LAV VPC+SLFKTVTVRCGHC NLLSVN+RGLLLPA 
Sbjct: 14  DHLAAPSPTEQLCYVHCNCCDTILAVGVPCSSLFKTVTVRCGHCANLLSVNLRGLLLPAP 73

Query: 69  -----NQLHLGHPFFTP---QNLLEEIRNVPANMLMINPPN------------------P 102
                NQLH G    +P     LL+E+     ++LM    +                  P
Sbjct: 74  APAPANQLHFGPSLLSPTSPHGLLDEVAFQTPSLLMEQAASASLSSITGRSSSSCASNAP 133

Query: 103 ADQSVMPVRVVDHQ-EIPKSP--VVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHR 159
           A Q + P + V  + E+PK+     NRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHR
Sbjct: 134 AMQ-MPPAKPVQQEPELPKNAPASANRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHR 192

Query: 160 EAFSAAAKNWAHFPHIHFGLMPSDQPVKKTSVRQQQEGEDAMIKDGFF-------APAAN 212
           EAFSAAAKNWAHFPHIHFGLMP DQ  KKT  + Q   ED ++KD  +       A AAN
Sbjct: 193 EAFSAAAKNWAHFPHIHFGLMP-DQGFKKT-FKPQDGSEDILLKDSLYAAAAAAAAAAAN 250

Query: 213 VGVTPY 218
           +GVTP+
Sbjct: 251 MGVTPF 256

Oryza sativa subsp. indica (taxid: 39946)

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

 Score =  184 bits (466), Expect = 5e-46,   Method: Compositional matrix adjust.
 Identities = 96/169 (56%), Positives = 114/169 (67%), Gaps = 17/169 (10%)

Query: 12  DHLSSSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRGLLLPAANQL 71
           + + ++EQLCY+ C FC+ +LAV+VPC+SLF  VTVRCGHCTNL SVNM      AA   
Sbjct: 3   NSVMATEQLCYIPCNFCNIILAVNVPCSSLFDIVTVRCGHCTNLWSVNM------AAALQ 56

Query: 72  HLGHPFFTPQNLLEEIRNVPANMLMINPPNPADQSVMPVRVVDHQEIPKSPVVNRPPEKR 131
            L  P F   N       VP         +    + +P R+   + I +  +VNRPPEKR
Sbjct: 57  SLSRPNFQATNYA-----VPEY-----GSSSRSHTKIPSRI-STRTITEQRIVNRPPEKR 105

Query: 132 QRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLM 180
           QRVPSAYN+FIK+EIQRIKA NPDISHREAFS AAKNWAHFPHIHFGLM
Sbjct: 106 QRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLM 154

Arabidopsis thaliana (taxid: 3702)

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

 Score =  175 bits (444), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 95/195 (48%), Positives = 118/195 (60%), Gaps = 33/195 (16%)

Query: 14  LSSSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRGLL--------- 64
           ++ +EQ+CYVHC FC+T+LAVSVP  S+   VTVRCGHCTNLLSVN+RGL+         
Sbjct: 5   IAPAEQVCYVHCNFCNTILAVSVPGNSMLNIVTVRCGHCTNLLSVNLRGLMHSAPALQDH 64

Query: 65  ---------LPAANQLHLGHP--FFTPQNLLEEIRNVPANMLMINPPNPADQSVMPVRVV 113
                    L    +   G+P   F+  +   ++R  PA   M++      Q    +   
Sbjct: 65  HHHHLQESGLSGCFRDQSGYPEFGFSAASSSSKLRLPPAAAAMVSYSQQNQQLEQALHA- 123

Query: 114 DHQEIPKSPVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 173
                       RPPEKRQRVPSAYNRFIK+EI+RIKA NPDISHREAFS AAKNWAH+P
Sbjct: 124 ------------RPPEKRQRVPSAYNRFIKEEIRRIKANNPDISHREAFSTAAKNWAHYP 171

Query: 174 HIHFGLMPSDQPVKK 188
           +IHFGL P  +  KK
Sbjct: 172 NIHFGLSPGHEGGKK 186

Oryza sativa subsp. japonica (taxid: 39947)

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

 Score =  172 bits (435), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 98/193 (50%), Positives = 124/193 (64%), Gaps = 15/193 (7%)

Query: 16  SSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMR-GLLLPAANQLHLG 74
           SSE++CYVHC+FC T+LAVSVP  SLF  VTVRCGHCTNLLS+N+   L   +A  +H  
Sbjct: 6   SSERVCYVHCSFCTTILAVSVPYASLFTLVTVRCGHCTNLLSLNIGVSLHQTSAPPIHQD 65

Query: 75  HPFFTPQNLLEEIRNVPANMLMINPPNPADQSVMPVRVVDHQEIPKSPVVNRPPEKRQRV 134
                    L+  R    +++       + +S   +     +E P+ P + RPPEKRQRV
Sbjct: 66  ---------LQPHRQHTTSLVTRKDCASSSRSTNNLSENIDREAPRMPPI-RPPEKRQRV 115

Query: 135 PSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMPSDQPVKKTSVRQQ 194
           PSAYNRFIK+EIQRIKA NP+ISHREAFS AAKNWAHFPHIHFGL   D   K   + Q 
Sbjct: 116 PSAYNRFIKEEIQRIKACNPEISHREAFSTAAKNWAHFPHIHFGL-KLDGNKKGKQLDQS 174

Query: 195 QEGEDAMIKDGFF 207
             G+ +   +G++
Sbjct: 175 VAGQKS---NGYY 184

Involved in the abaxial cell fate determination during embryogenesis and organogenesis.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  169 bits (427), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 90/164 (54%), Positives = 107/164 (65%), Gaps = 14/164 (8%)

Query: 18  EQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRGLL--LPAANQLHLGH 75
           E +CYVHC FC+T+ AVSVP  S+   VTVRCGHCT+LLSVN+RGL+  LPA + L    
Sbjct: 10  EHVCYVHCNFCNTIFAVSVPSNSMLNIVTVRCGHCTSLLSVNLRGLVQALPAEDHLQ--- 66

Query: 76  PFFTPQNLLEEIRNVPANMLMINPPNPADQSVMPVRVVDHQEIPKSPVVNRPPEKRQRVP 135
                 NL     +   N       +   +  M     D + +    +  RPPEKRQRVP
Sbjct: 67  -----DNLKMHNMSFRENYSEYGSSSRYGRVPMMFSKNDTEHM----LHVRPPEKRQRVP 117

Query: 136 SAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGL 179
           SAYNRFIK+EI+RIKA NPDISHREAFS AAKNWAHFP+IHFGL
Sbjct: 118 SAYNRFIKEEIRRIKANNPDISHREAFSTAAKNWAHFPNIHFGL 161

Oryza sativa subsp. japonica (taxid: 39947)

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	218
225453975	210	PREDICTED: axial regulator YABBY 1 [Viti	0.958	0.995	0.831	4e-94
147839790	210	hypothetical protein VITISV_031595 [Viti	0.958	0.995	0.826	7e-94
444247303	210	transcription factor YABBY1 [Vitis pseud	0.958	0.995	0.826	8e-93
41745624	211	YABBY-like transcription factor GRAMINIF	0.967	1.0	0.802	3e-91
224129954	212	predicted protein [Populus trichocarpa]	0.958	0.985	0.811	4e-91
356496338	215	PREDICTED: axial regulator YABBY 1-like	0.935	0.948	0.809	4e-90
224067680	210	predicted protein [Populus trichocarpa]	0.958	0.995	0.791	5e-89
356506384	216	PREDICTED: axial regulator YABBY 1-like	0.926	0.935	0.797	7e-89
255646070	216	unknown [Glycine max]	0.926	0.935	0.792	4e-88
225426944	211	PREDICTED: axial regulator YABBY 1 [Viti	0.963	0.995	0.757	7e-84

>gi|225453975|ref|XP_002280334.1| PREDICTED: axial regulator YABBY 1 [Vitis vinifera] gi|296089181|emb|CBI38884.3| unnamed protein product [Vitis vinifera]

 Score =  349 bits (896), Expect = 4e-94,   Method: Compositional matrix adjust.
 Identities = 182/219 (83%), Positives = 197/219 (89%), Gaps = 10/219 (4%)

Query: 1   MSSSTPAALSPDHLS-SSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVN 59
           MSSS+  A SPDHLS +S+QLCYVHC FCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVN
Sbjct: 1   MSSSS--AFSPDHLSPTSDQLCYVHCNFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVN 58

Query: 60  MRGLLLPAANQLHLGHPFFTPQNLLEEIRNVPANMLMINPPNPADQSVMPVRVVDHQEIP 119
           MRGLLLPAANQLHLGH  F+P N+LEEIR+ P++ML IN PNP +++VMPVR VD  EIP
Sbjct: 59  MRGLLLPAANQLHLGHSLFSPHNILEEIRSPPSSML-INQPNP-NEAVMPVRGVD--EIP 114

Query: 120 KSPVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGL 179
           K PVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNP ISHREAFSAAAKNWAHFPHIHFGL
Sbjct: 115 KPPVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPGISHREAFSAAAKNWAHFPHIHFGL 174

Query: 180 MPSDQPVKKTSVRQQQEGEDAMIKDGFFAPAANVGVTPY 218
           MP DQPVKK +VR QQEGED ++KDGFFAP ANVGV+PY
Sbjct: 175 MP-DQPVKKANVR-QQEGEDMLMKDGFFAP-ANVGVSPY 210

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147839790|emb|CAN70458.1| hypothetical protein VITISV_031595 [Vitis vinifera]

 Score =  348 bits (894), Expect = 7e-94,   Method: Compositional matrix adjust.
 Identities = 181/219 (82%), Positives = 196/219 (89%), Gaps = 10/219 (4%)

Query: 1   MSSSTPAALSPDHLS-SSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVN 59
           MSSS+  A SPDHLS +S+QLCYVHC FCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVN
Sbjct: 1   MSSSS--AFSPDHLSPTSDQLCYVHCNFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVN 58

Query: 60  MRGLLLPAANQLHLGHPFFTPQNLLEEIRNVPANMLMINPPNPADQSVMPVRVVDHQEIP 119
           MRGLLLPAANQLHLGH  F+P NJLEEIR+ P++ML  N PNP +++VMPVR VD  EIP
Sbjct: 59  MRGLLLPAANQLHLGHSLFSPHNJLEEIRSPPSSML-TNQPNP-NEAVMPVRGVD--EIP 114

Query: 120 KSPVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGL 179
           K PVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNP ISHREAFSAAAKNWAHFPHIHFGL
Sbjct: 115 KPPVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPGISHREAFSAAAKNWAHFPHIHFGL 174

Query: 180 MPSDQPVKKTSVRQQQEGEDAMIKDGFFAPAANVGVTPY 218
           MP DQPVKK +VR QQEGED ++KDGFFAP ANVGV+PY
Sbjct: 175 MP-DQPVKKANVR-QQEGEDMLMKDGFFAP-ANVGVSPY 210

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|444247303|gb|AGD94962.1| transcription factor YABBY1 [Vitis pseudoreticulata]

 Score =  345 bits (885), Expect = 8e-93,   Method: Compositional matrix adjust.
 Identities = 181/219 (82%), Positives = 195/219 (89%), Gaps = 10/219 (4%)

Query: 1   MSSSTPAALSPDHLS-SSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVN 59
           MSSS+  A SPDHLS +S+QLCYVHC FCDT LAVSVPCTSLFKTVTVRCGHCTNLLSVN
Sbjct: 1   MSSSS--AFSPDHLSPTSDQLCYVHCNFCDTALAVSVPCTSLFKTVTVRCGHCTNLLSVN 58

Query: 60  MRGLLLPAANQLHLGHPFFTPQNLLEEIRNVPANMLMINPPNPADQSVMPVRVVDHQEIP 119
           MRGLLLPAANQLHLGH  F+P NLLEEIR+ P++ML  N PNP +++VMPVR VD  EIP
Sbjct: 59  MRGLLLPAANQLHLGHSPFSPHNLLEEIRSPPSSML-TNQPNP-NEAVMPVRGVD--EIP 114

Query: 120 KSPVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGL 179
           K PVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNP ISHREAFSAAAKNWAHFPHIHFGL
Sbjct: 115 KPPVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPGISHREAFSAAAKNWAHFPHIHFGL 174

Query: 180 MPSDQPVKKTSVRQQQEGEDAMIKDGFFAPAANVGVTPY 218
           MP DQPVKK +VR QQEGED ++KDGFFAP ANVGV+PY
Sbjct: 175 MP-DQPVKKANVR-QQEGEDMLMKDGFFAP-ANVGVSPY 210

Source: Vitis pseudoreticulata

Species: Vitis pseudoreticulata

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|41745624|gb|AAS10177.1| YABBY-like transcription factor GRAMINIFOLIA [Antirrhinum majus]

 Score =  340 bits (871), Expect = 3e-91,   Method: Compositional matrix adjust.
 Identities = 175/218 (80%), Positives = 190/218 (87%), Gaps = 7/218 (3%)

Query: 1   MSSSTPAALSPDHLSSSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNM 60
           MSSS+  A    H++ SEQLCYVHC FCDTVLAVSVPCTSL KTVTVRCGHCTNLLSVNM
Sbjct: 1   MSSSSAFAPDHHHITPSEQLCYVHCNFCDTVLAVSVPCTSLIKTVTVRCGHCTNLLSVNM 60

Query: 61  RGLLLPAANQLHLGHPFFTPQNLLEEIRNVPANMLMINPPNPADQSVMPVRVVDHQEIPK 120
           RGLLLPAANQLHLGH FF+PQNLLEEIRN P+N+LM N PNP D S+MPVR +D  E+PK
Sbjct: 61  RGLLLPAANQLHLGHSFFSPQNLLEEIRNSPSNLLM-NQPNPND-SMMPVRGLD--ELPK 116

Query: 121 SPVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLM 180
            PV NRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLM
Sbjct: 117 PPVANRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLM 176

Query: 181 PSDQPVKKTSVRQQQEGEDAMIKDGFFAPAANVGVTPY 218
           P DQPVKK +V  +Q G+D ++KDGF AP ANVGV+PY
Sbjct: 177 P-DQPVKKPNV-CRQHGDDVLMKDGFLAP-ANVGVSPY 211

Source: Antirrhinum majus

Species: Antirrhinum majus

Genus: Antirrhinum

Family: Plantaginaceae

Order: Lamiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224129954|ref|XP_002320712.1| predicted protein [Populus trichocarpa] gi|222861485|gb|EEE99027.1| predicted protein [Populus trichocarpa]

 Score =  339 bits (870), Expect = 4e-91,   Method: Compositional matrix adjust.
 Identities = 177/218 (81%), Positives = 192/218 (88%), Gaps = 9/218 (4%)

Query: 3   SSTPAALSPDHLSSSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRG 62
           +S+ AA SPDHLSSS+QLCYVHC FCDTVLAVSVPC+SLFKTVTVRCGHCTNL SVNMR 
Sbjct: 2   ASSSAAFSPDHLSSSDQLCYVHCNFCDTVLAVSVPCSSLFKTVTVRCGHCTNLFSVNMRS 61

Query: 63  LLLPAANQLHLGHPFFTPQ-NLLEEIRNVPAN-MLMINPPNPADQSVMPVRVVDHQEIPK 120
           LL PAANQ +LGH FF PQ N+LE +R+  A   LMIN PNP ++SVMP+R V  +EIPK
Sbjct: 62  LL-PAANQFYLGHGFFNPQINILEGMRSTGAPPSLMINQPNP-NESVMPIRGV--EEIPK 117

Query: 121 SPVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLM 180
            PVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLM
Sbjct: 118 PPVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLM 177

Query: 181 PSDQPVKKTSVRQQQEGEDAMIKDGFFAPAANVGVTPY 218
           P DQPVKKT+VR QQEGED ++KDGFFAP ANVGVTPY
Sbjct: 178 P-DQPVKKTNVR-QQEGEDVLMKDGFFAP-ANVGVTPY 212

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356496338|ref|XP_003517025.1| PREDICTED: axial regulator YABBY 1-like [Glycine max]

 Score =  336 bits (861), Expect = 4e-90,   Method: Compositional matrix adjust.
 Identities = 170/210 (80%), Positives = 180/210 (85%), Gaps = 6/210 (2%)

Query: 11  PD-HLSSSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRGLLLPAAN 69
           PD HLS S+QLCYVHC FCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRGLLLP+AN
Sbjct: 10  PDQHLSPSDQLCYVHCNFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRGLLLPSAN 69

Query: 70  QLHLGHPFFTPQNLLEEIRNVPA-NMLMINPPNPADQSVMPVRVVDHQEIPKSPVVNRPP 128
           QLHLGH FFTPQNLLEEIRN P+ NM+M   PNP D  VM       +E PK P  NRPP
Sbjct: 70  QLHLGHSFFTPQNLLEEIRNAPSTNMMMNQLPNPNDL-VMSTMRGGPEETPKPPSANRPP 128

Query: 129 EKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMPSDQPVKK 188
           EKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMP +QPVKK
Sbjct: 129 EKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMPDNQPVKK 188

Query: 189 TSVRQQQEGEDAMIKDGFFAPAANVGVTPY 218
            +VR  QE ED ++KDGFFAP ANVGV+PY
Sbjct: 189 ANVR--QEAEDVLMKDGFFAP-ANVGVSPY 215

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224067680|ref|XP_002302524.1| predicted protein [Populus trichocarpa] gi|222844250|gb|EEE81797.1| predicted protein [Populus trichocarpa]

 Score =  332 bits (852), Expect = 5e-89,   Method: Compositional matrix adjust.
 Identities = 171/216 (79%), Positives = 186/216 (86%), Gaps = 7/216 (3%)

Query: 3   SSTPAALSPDHLSSSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRG 62
           SS+ AA  PDHLSSSEQLCYVHC FCDTVLAVSVPCTSL+KTV VRCGHCTNLLSV+M G
Sbjct: 2   SSSSAAFGPDHLSSSEQLCYVHCNFCDTVLAVSVPCTSLYKTVAVRCGHCTNLLSVSMHG 61

Query: 63  LLLPAANQLHLGHPFFTPQNLLEEIRNVPANMLMINPPNPADQSVMPVRVVDHQEIPKSP 122
           LL PAANQ +LGH FF PQN+LEEIRN     L+IN P+P ++SV+P R V  +EIPK P
Sbjct: 62  LL-PAANQFYLGHGFFNPQNILEEIRNGAPPNLLINQPHP-NESVIPFRGV--EEIPKPP 117

Query: 123 VVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMPS 182
           +VNRPPEKR RVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMP 
Sbjct: 118 MVNRPPEKRHRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMP- 176

Query: 183 DQPVKKTSVRQQQEGEDAMIKDGFFAPAANVGVTPY 218
           DQPVKK +VR QQEGED ++ D FFA AANVGVTPY
Sbjct: 177 DQPVKKANVR-QQEGEDVLMTDEFFA-AANVGVTPY 210

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356506384|ref|XP_003521963.1| PREDICTED: axial regulator YABBY 1-like [Glycine max]

 Score =  332 bits (851), Expect = 7e-89,   Method: Compositional matrix adjust.
 Identities = 165/207 (79%), Positives = 177/207 (85%), Gaps = 5/207 (2%)

Query: 13  HLSSSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRGLLLPAANQLH 72
           HLS S+QLCYVHC FCDTVLAVSVPCTSLFK VTVRCGHCTNLLSVNMRGLLLP+ANQLH
Sbjct: 14  HLSPSDQLCYVHCNFCDTVLAVSVPCTSLFKNVTVRCGHCTNLLSVNMRGLLLPSANQLH 73

Query: 73  LGHPFFTPQNLLEEIRNVPANMLMINP-PNPADQSVMPVRVVDHQEIPKSPVVNRPPEKR 131
           LGH FFTPQNL+EEIRN P+  +M+N  PNP D  VM       +E PK P  NRPPEKR
Sbjct: 74  LGHTFFTPQNLMEEIRNAPSTNIMMNQLPNPNDL-VMSTMRGGPEETPKPPSANRPPEKR 132

Query: 132 QRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMPSDQPVKKTSV 191
           QRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMP +QPVKK +V
Sbjct: 133 QRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMPDNQPVKKANV 192

Query: 192 RQQQEGEDAMIKDGFFAPAANVGVTPY 218
           R  QE ED ++KDGFFAP ANVGV+PY
Sbjct: 193 R--QEAEDVLMKDGFFAP-ANVGVSPY 216

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255646070|gb|ACU23522.1| unknown [Glycine max]

 Score =  329 bits (844), Expect = 4e-88,   Method: Compositional matrix adjust.
 Identities = 164/207 (79%), Positives = 176/207 (85%), Gaps = 5/207 (2%)

Query: 13  HLSSSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRGLLLPAANQLH 72
           HLS S+QLCYVHC FCDTVLAVSVPCTSLFK VTVRCGHCTNLLSVNMRGLLLP+ANQLH
Sbjct: 14  HLSPSDQLCYVHCNFCDTVLAVSVPCTSLFKNVTVRCGHCTNLLSVNMRGLLLPSANQLH 73

Query: 73  LGHPFFTPQNLLEEIRNVPANMLMINP-PNPADQSVMPVRVVDHQEIPKSPVVNRPPEKR 131
           LGH FFTPQNL+EEIRN P+  +M+N  PNP D  VM       +E PK P  NRPPEKR
Sbjct: 74  LGHTFFTPQNLMEEIRNAPSTNIMMNQLPNPNDL-VMNTMRGGPEETPKPPSANRPPEKR 132

Query: 132 QRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMPSDQPVKKTSV 191
           QRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMP +Q VKK +V
Sbjct: 133 QRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMPDNQSVKKANV 192

Query: 192 RQQQEGEDAMIKDGFFAPAANVGVTPY 218
           R  QE ED ++KDGFFAP ANVGV+PY
Sbjct: 193 R--QEAEDVLMKDGFFAP-ANVGVSPY 216

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225426944|ref|XP_002266233.1| PREDICTED: axial regulator YABBY 1 [Vitis vinifera] gi|297741152|emb|CBI31883.3| unnamed protein product [Vitis vinifera]

 Score =  315 bits (808), Expect = 7e-84,   Method: Compositional matrix adjust.
 Identities = 166/219 (75%), Positives = 182/219 (83%), Gaps = 9/219 (4%)

Query: 1   MSSSTPAALSPDHLSSSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNM 60
           MSSS+   LS DHL  SEQLCYVHC  CDTVLAVSVPCTSLFKTVTVRCGHCTNLL VN+
Sbjct: 1   MSSSS--TLSLDHLPPSEQLCYVHCNICDTVLAVSVPCTSLFKTVTVRCGHCTNLLPVNL 58

Query: 61  RGLLLPAANQLHLGHPFFTP-QNLLEEIRNVPANMLMINPPNPADQSVMPVRVVDHQEIP 119
           RGLLLP+ANQLHLGH FF+P  NLLEEI N P+   +IN     D SV      D  E+P
Sbjct: 59  RGLLLPSANQLHLGHAFFSPSHNLLEEIPN-PSPNFLINQTTANDFSVSARGGAD--ELP 115

Query: 120 KSPVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGL 179
           + PV+NRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDI+HREAFSAAAKNWAHFPHIHFGL
Sbjct: 116 RPPVINRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDITHREAFSAAAKNWAHFPHIHFGL 175

Query: 180 MPSDQPVKKTSVRQQQEGEDAMIKDGFFAPAANVGVTPY 218
           MP DQ +KKT+VR QQEGED ++KDGFFA +ANVGV+PY
Sbjct: 176 MP-DQTMKKTNVR-QQEGEDVLMKDGFFA-SANVGVSPY 211

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	218
TAIR|locus:2005492	229	AFO "AT2G45190" [Arabidopsis t	0.990	0.943	0.694	1.3e-77
TAIR|locus:2126931	240	YAB3 "YABBY3" [Arabidopsis tha	0.729	0.662	0.607	2.1e-45
TAIR|locus:2066311	164	YAB5 "YABBY5" [Arabidopsis tha	0.330	0.439	0.767	6.7e-45
TAIR|locus:2826731	184	YAB2 "YABBY2" [Arabidopsis tha	0.711	0.842	0.567	1.4e-41
UNIPROTKB|Q7XIM7	169	YAB1 "Protein YABBY 1" [Oryza	0.701	0.905	0.491	1.7e-34
TAIR|locus:2028020	231	INO "INNER NO OUTER" [Arabidop	0.756	0.714	0.482	2.2e-34
UNIPROTKB|Q76EJ0	194	DL "Protein DROOPING LEAF" [Or	0.655	0.737	0.484	6e-32
TAIR|locus:2026418	181	CRC "AT1G69180" [Arabidopsis t	0.270	0.325	0.677	4.2e-30

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

 Score = 781 (280.0 bits), Expect = 1.3e-77, P = 1.3e-77
 Identities = 157/226 (69%), Positives = 183/226 (80%)

Query:     1 MSSSTPAALSPDHLSSSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNM 60
             MSS + A  SPDH S S+ LCYV C FC T+LAV+VP TSLFKTVTVRCG CTNLLSVNM
Sbjct:     6 MSSPSSAVCSPDHFSPSDHLCYVQCNFCQTILAVNVPYTSLFKTVTVRCGCCTNLLSVNM 65

Query:    61 RGLLLPAANQLHL--G-HPFFTPQNLLEEIRNVPANM-LMINPPNPADQSVMPVRVVDHQ 116
             R  +LPA+NQL L  G H +F PQ++LEE+R+ P+NM +M+   +P    + P  +  HQ
Sbjct:    66 RSYVLPASNQLQLQLGPHSYFNPQDILEELRDAPSNMNMMMMNQHPTMNDI-PSFMDLHQ 124

Query:   117 --EIPKSPVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPH 174
               EIPK+P VNRPPEKRQRVPSAYNRFIK+EIQRIKAGNPDISHREAFSAAAKNWAHFPH
Sbjct:   125 QHEIPKAPPVNRPPEKRQRVPSAYNRFIKEEIQRIKAGNPDISHREAFSAAAKNWAHFPH 184

Query:   175 IHFGLMPSDQPVKKTSVRQQQEGEDAMI-KDGFFAPAA-NVGVTPY 218
             IHFGL+P +QPVKKT++  QQEGED M+ K+GF+APAA NVGVTPY
Sbjct:   185 IHFGLVPDNQPVKKTNM-PQQEGEDNMVMKEGFYAPAAANVGVTPY 229

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 = 477 (173.0 bits), Expect = 2.1e-45, P = 2.1e-45
 Identities = 107/176 (60%), Positives = 126/176 (71%)

Query:    56 LSVNMRGLLLPAANQL-HL---GHPFFTPQNLLEEIR----NVPANMLM---INPPNPAD 104
             ++V+MR LLLP+ + L H      P   P NLLEE+R    N+  NM+M    +  +P +
Sbjct:    63 VTVSMRALLLPSVSNLGHSFLPPPPPPPPPNLLEEMRSGGQNINMNMMMSHHASAHHPNE 122

Query:   105 QSVMPVR---VVDH-QEIPKSPVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHRE 160
               VM  R    VDH QE+P+ P  NRPPEKRQRVPSAYNRFIK+EIQRIKAGNPDISHRE
Sbjct:   123 HLVMATRNGRSVDHLQEMPRPPPANRPPEKRQRVPSAYNRFIKEEIQRIKAGNPDISHRE 182

Query:   161 AFSAAAKNWAHFPHIHFGLMPSDQPVKKTSVRQQQEGEDAMI-KDGFFAPAANVGV 215
             AFSAAAKNWAHFPHIHFGLM    P KK +VRQQ EGED M+ ++GF+  AANVGV
Sbjct:   183 AFSAAAKNWAHFPHIHFGLMADHPPTKKANVRQQ-EGEDGMMGREGFYGSAANVGV 237

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

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

 Score = 299 (110.3 bits), Expect = 6.7e-45, Sum P(2) = 6.7e-45
 Identities = 56/73 (76%), Positives = 63/73 (86%)

Query:   108 MPVRVVDHQEIPKSPVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAK 167
             +P R+   + I +  +VNRPPEKRQRVPSAYN+FIK+EIQRIKA NPDISHREAFS AAK
Sbjct:    83 IPSRI-STRTITEQRIVNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAK 141

Query:   168 NWAHFPHIHFGLM 180
             NWAHFPHIHFGLM
Sbjct:   142 NWAHFPHIHFGLM 154

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

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

 Score = 441 (160.3 bits), Expect = 1.4e-41, P = 1.4e-41
 Identities = 93/164 (56%), Positives = 113/164 (68%)

Query:    16 SSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRGLLLPAANQLHLGH 75
             SSE++CYVHC+FC T+LAVSVP  SLF  VTVRCGHCTNLLS+N+ G+ L   +   + H
Sbjct:     6 SSERVCYVHCSFCTTILAVSVPYASLFTLVTVRCGHCTNLLSLNI-GVSLHQTSAPPI-H 63

Query:    76 PFFTPQNLLEEIRNVPANMLMINPPNPADQSVMPVRVVDHQEIPKSPVVNRPPEKRQRVP 135
                 P       R    +++       + +S   +     +E P+ P + RPPEKRQRVP
Sbjct:    64 QDLQPH------RQHTTSLVTRKDCASSSRSTNNLSENIDREAPRMPPI-RPPEKRQRVP 116

Query:   136 SAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGL 179
             SAYNRFIK+EIQRIKA NP+ISHREAFS AAKNWAHFPHIHFGL
Sbjct:   117 SAYNRFIKEEIQRIKACNPEISHREAFSTAAKNWAHFPHIHFGL 160

GO:0005634 "nucleus" evidence=ISM

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

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

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

 Score = 374 (136.7 bits), Expect = 1.7e-34, P = 1.7e-34
 Identities = 84/171 (49%), Positives = 105/171 (61%)

Query:    16 SSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRGLLLPAANQLHLGH 75
             +SE +CYV+C +C+T+L V+VP    +  VTVRCGHCT +LS++    L P        H
Sbjct:     6 TSEHVCYVNCNYCNTILVVNVPNNCSYNIVTVRCGHCTMVLSMD----LAPF-------H 54

Query:    76 PFFTPQNLLEEIRNVPANMLM---INPPNPADQSVMPVRVVDHQEIPKSPVVNRPPEKRQ 132
                T Q+   + R    N      I   N    + M       Q++  SP+  RPPEKRQ
Sbjct:    55 QARTVQDHQVQNRGFQGNNFGSYDIASRNQRTSTAMYPMPTSQQQV--SPI--RPPEKRQ 110

Query:   133 RVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMPSD 183
             RVPSAYNRFIK+EIQRIK  NP+ISHREAFSAAAKNWAH P +HFGL  +D
Sbjct:   111 RVPSAYNRFIKEEIQRIKTSNPEISHREAFSAAAKNWAHLPRLHFGLSVAD 161

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 = 373 (136.4 bits), Expect = 2.2e-34, P = 2.2e-34
 Identities = 82/170 (48%), Positives = 103/170 (60%)

Query:    19 QLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVN-MRGLLLPAANQLHLGHPF 77
             Q+C+V C FC T+L VSVP TSL   VTVRCGHCT+LLSVN M+   +P      L H  
Sbjct:    20 QICHVQCGFCTTILLVSVPFTSLSMVVTVRCGHCTSLLSVNLMKASFIPLHLLASLSHLD 79

Query:    78 FTPQNLLEEIRNVPANMLMINPPNPADQSVMPVRVVDHQEIPKS---PVVNRPPEKRQRV 134
              T +  +     V      +N       + + V   D+++   S    VVN+PPEKRQR 
Sbjct:    80 ETGKEEVAATDGVEEEAWKVNQEKENSPTTL-VSSSDNEDEDVSRVYQVVNKPPEKRQRA 138

Query:   135 PSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMPSDQ 184
             PSAYN FIK+EI+R+KA NP ++H+EAFS AAKNWAHFP  H     SDQ
Sbjct:   139 PSAYNCFIKEEIRRLKAQNPSMAHKEAFSLAAKNWAHFPPAHNKRAASDQ 188

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 = 350 (128.3 bits), Expect = 6.0e-32, P = 6.0e-32
 Identities = 77/159 (48%), Positives = 97/159 (61%)

Query:    12 DHLSSSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRGLLLPAANQL 71
             D +S SE LCYV CT+C+TVLAV VPC  L  TVTV+CGHC NL  ++ R  ++   +  
Sbjct:     2 DLVSPSEHLCYVRCTYCNTVLAVGVPCKRLMDTVTVKCGHCNNLSFLSPRPPMVQPLSPT 61

Query:    72 HLGHPFFTPQNLLEEIRNVPANMLMINPPNPADQSVMPVRVVDHQEIPKSPVVNRPPEKR 131
                HP    Q    + R         N P P    V P     ++  P++P V +PPEK+
Sbjct:    62 D--HPLGPFQGPCTDCRR--------NQPLPL---VSPT---SNEGSPRAPFVVKPPEKK 105

Query:   132 QRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWA 170
              R+PSAYNRF+++EIQRIKA  PDI HREAFS AAKNWA
Sbjct:   106 HRLPSAYNRFMREEIQRIKAAKPDIPHREAFSMAAKNWA 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 = 221 (82.9 bits), Expect = 4.2e-30, Sum P(2) = 4.2e-30
 Identities = 40/59 (67%), Positives = 48/59 (81%)

Query:   114 DHQEIPKSPVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHF 172
             D    P  P V +PPEK+QR+PSAYNRF++DEIQRIK+ NP+I HREAFSAAAKNWA +
Sbjct:    98 DQPPSPSPPFVVKPPEKKQRLPSAYNRFMRDEIQRIKSANPEIPHREAFSAAAKNWAKY 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

---

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)
O22152	YAB1_ARATH	No assigned EC number	0.6940	0.9678	0.9213	yes	no
Q0JBF0	YAB5_ORYSJ	No assigned EC number	0.5205	0.9954	0.8157	yes	no
Q01JG2	YAB5_ORYSI	No assigned EC number	0.5205	0.9954	0.8157	N/A	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	218
pfam04690	170	pfam04690, YABBY, YABBY protein	1e-80
cd01390	66	cd01390, HMGB-UBF_HMG-box, HMGB-UBF_HMG-box, class	2e-04
cd00084	66	cd00084, HMG-box, High Mobility Group (HMG)-box is	4e-04

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

 Score =  237 bits (607), Expect = 1e-80
 Identities = 103/171 (60%), Positives = 116/171 (67%), Gaps = 3/171 (1%)

Query: 11  PDHLSSSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRGLLLPAANQ 70
                SSE +CYVHC FC T+LAVSVP TSLF  VTVRCGHCTNLLSVN+          
Sbjct: 1   MSVFFSSEHVCYVHCNFCTTILAVSVPYTSLFNIVTVRCGHCTNLLSVNLMMRSHLLPAL 60

Query: 71  LHLGHPFFTP--QNLLEEIRNVPANMLMINPPNPADQSVMPVRVVDHQEIPKSPVVNRPP 128
            HL         QNL    +N  +NM+  +  +    S   +     +E+P+ P VNRPP
Sbjct: 61  SHLDETGKPELLQNLGVHGQNFNSNMMKSHSAS-TSVSSYMMSDNQDEEMPRVPPVNRPP 119

Query: 129 EKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGL 179
           EKRQRVPSAYNRFIK+EIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGL
Sbjct: 120 EKRQRVPSAYNRFIKEEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGL 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 = 38.0 bits (89), Expect = 2e-04
 Identities = 12/37 (32%), Positives = 18/37 (48%)

Query: 133 RVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNW 169
           R  SAY  F +++  ++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 = 37.2 bits (87), Expect = 4e-04
 Identities = 12/37 (32%), Positives = 17/37 (45%)

Query: 133 RVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNW 169
           R  SAY  F ++    +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	218
PF04690	170	YABBY: YABBY protein; InterPro: IPR006780 YABBY pr	100.0
PF09011	73	HMG_box_2: HMG-box domain; InterPro: IPR015101 Thi	98.17
cd01390	66	HMGB-UBF_HMG-box HMGB-UBF_HMG-box, class II and II	97.74
cd00084	66	HMG-box High Mobility Group (HMG)-box is found in	97.68
cd01388	72	SOX-TCF_HMG-box SOX-TCF_HMG-box, class I member of	97.66
PF00505	69	HMG_box: HMG (high mobility group) box; InterPro:	97.65
smart00398	70	HMG high mobility group.	97.55
cd01389	77	MATA_HMG-box MATA_HMG-box, class I member of the H	97.5
PTZ00199	94	high mobility group protein; Provisional	97.38
PF06244	122	DUF1014: Protein of unknown function (DUF1014); In	96.61
KOG0381	96	consensus HMG box-containing protein [General func	96.34
PF11331	46	DUF3133: Protein of unknown function (DUF3133); In	93.47
KOG3223	221	consensus Uncharacterized conserved protein [Funct	93.19
KOG4684	275	consensus Uncharacterized conserved protein, conta	84.15
TIGR02098	38	MJ0042_CXXC MJ0042 family finger-like domain. This	80.17

>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=1.5e-83  Score=540.24  Aligned_cols=167  Identities=66%  Similarity=1.101  Sum_probs=130.4

Q ss_pred             CCCCCCCCceeEeeCCCcceeEEcccCCCCCcceeeeecCCcCCcccccccccCCccccccccCCCCCCCcchHHhhhcC
Q 027837           11 PDHLSSSEQLCYVHCTFCDTVLAVSVPCTSLFKTVTVRCGHCTNLLSVNMRGLLLPAANQLHLGHPFFTPQNLLEEIRNV   90 (218)
Q Consensus        11 ~d~l~~~E~lCYV~CnfCnTILaVsVPcssL~~~VTVRCGHCtnLLSVNmr~ll~p~~~q~~~~~~~~~~~~~~~e~~~~   90 (218)
                      ||+++++|||||||||||||||||||||+|||+|||||||||+|||||||++++++.+.|++++++++.+..  ++....
T Consensus         1 ~~~~~~sE~lCYVhCnFC~TiLaVsVP~ssL~~~VTVRCGHCtNLLSVNm~~~~~~~~~~~~l~~~~~~~~~--~~~~~~   78 (170)
T PF04690_consen    1 MDLFSPSEQLCYVHCNFCNTILAVSVPCSSLLKTVTVRCGHCTNLLSVNMRALLQPLPSQDHLQHSLLPPQS--QELQFQ   78 (170)
T ss_pred             CCccCCCCcEEEEEcCCcCeEEEEecchhhhhhhhceeccCccceeeeeccccccCCCcccchhcccccccc--cccccc
Confidence            677788999999999999999999999999999999999999999999999999888888776665543321  111110


Q ss_pred             ccccc---cCCCCCCCCCCCCCccccCCCCCCCCCCCCCCCcccCCCchhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 027837           91 PANML---MINPPNPADQSVMPVRVVDHQEIPKSPVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAK  167 (218)
Q Consensus        91 ~~~~~---~~~~~~~~~ss~~~~~~~~~~~~p~~p~v~KPPEKRQR~pSayN~fmK~ei~riK~~~P~i~hkEaFs~aAk  167 (218)
                      .....   .+..++.+..+........+++.|+.++|+||||||||+|||||+||||||||||++||||+|||||++|||
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pr~~~v~kPPEKRqR~psaYn~f~k~ei~rik~~~p~ishkeaFs~aAk  158 (170)
T PF04690_consen   79 PENFGSNSSSSSSSSSSSSSSSMSFSEEEEIPRAPPVNKPPEKRQRVPSAYNRFMKEEIQRIKAENPDISHKEAFSAAAK  158 (170)
T ss_pred             ccccccccccCCCccccccccccCccccccccccccccCCccccCCCchhHHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Confidence            01100   111110111101011123356889988899999999999999999999999999999999999999999999


Q ss_pred             hhccCCcccccc
Q 027837          168 NWAHFPHIHFGL  179 (218)
Q Consensus       168 nW~~~PhihfGL  179 (218)
                      ||||+|||||||
T Consensus       159 nW~h~phihfgl  170 (170)
T PF04690_consen  159 NWAHFPHIHFGL  170 (170)
T ss_pred             hhhhCcccccCC
Confidence            999999999998

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

Probab=98.17  E-value=2.7e-06  Score=61.07  Aligned_cols=45  Identities=33%  Similarity=0.622  Sum_probs=38.3

Q ss_pred             CcccCCCchhhhHHHHHHHHHHHhc-CCCCCHHHHHHHHHHhhccC
Q 027837          128 PEKRQRVPSAYNRFIKDEIQRIKAG-NPDISHREAFSAAAKNWAHF  172 (218)
Q Consensus       128 PEKRQR~pSayN~fmK~ei~riK~~-~P~i~hkEaFs~aAknW~~~  172 (218)
                      |.|-.|.+|||+.||++.+.++|+. .+.++.+|++..++..|+..
T Consensus         1 p~kpK~~~say~lF~~~~~~~~k~~G~~~~~~~e~~k~~~~~Wk~L   46 (73)
T PF09011_consen    1 PKKPKRPPSAYNLFMKEMRKEVKEEGGQKQSFREVMKEISERWKSL   46 (73)
T ss_dssp             SSS--SSSSHHHHHHHHHHHHHHHHT-T-SSHHHHHHHHHHHHHHS
T ss_pred             CcCCCCCCCHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHHhc
Confidence            5666899999999999999999999 88899999999999999975

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=97.74  E-value=6.2e-05  Score=51.47  Aligned_cols=41  Identities=29%  Similarity=0.479  Sum_probs=38.5

Q ss_pred             CCCchhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccC
Q 027837          132 QRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHF  172 (218)
Q Consensus       132 QR~pSayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~  172 (218)
                      .|-++||..|+++....+++++|+++..|....++..|+..
T Consensus         2 krp~saf~~f~~~~r~~~~~~~p~~~~~~i~~~~~~~W~~l   42 (66)
T cd01390           2 KRPLSAYFLFSQEQRPKLKKENPDASVTEVTKILGEKWKEL   42 (66)
T ss_pred             CCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhC
Confidence            36789999999999999999999999999999999999975

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.

>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=8.6e-05  Score=50.17  Aligned_cols=42  Identities=29%  Similarity=0.412  Sum_probs=39.0

Q ss_pred             CCCchhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCC
Q 027837          132 QRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP  173 (218)
Q Consensus       132 QR~pSayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~P  173 (218)
                      .|-+++|..|++++...+++.+|+++..|....+++.|+..+
T Consensus         2 krp~~af~~f~~~~~~~~~~~~~~~~~~~i~~~~~~~W~~l~   43 (66)
T cd00084           2 KRPLSAYFLFSQEHRAEVKAENPGLSVGEISKILGEMWKSLS   43 (66)
T ss_pred             CCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCC
Confidence            467899999999999999999999999999999999999753

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

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

Probab=97.66  E-value=8.5e-05  Score=53.18  Aligned_cols=41  Identities=17%  Similarity=0.272  Sum_probs=38.4

Q ss_pred             CCCchhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccC
Q 027837          132 QRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHF  172 (218)
Q Consensus       132 QR~pSayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~  172 (218)
                      .|-++||..|+++.-.+|++++|+++..|.-+.++..|+..
T Consensus         3 KrP~naf~~F~~~~r~~~~~~~p~~~~~eisk~l~~~Wk~l   43 (72)
T cd01388           3 KRPMNAFMLFSKRHRRKVLQEYPLKENRAISKILGDRWKAL   43 (72)
T ss_pred             CCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcC
Confidence            46789999999999999999999999999999999999865

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=97.65  E-value=7.6e-05  Score=51.57  Aligned_cols=41  Identities=32%  Similarity=0.619  Sum_probs=36.9

Q ss_pred             CCCchhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccC
Q 027837          132 QRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHF  172 (218)
Q Consensus       132 QR~pSayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~  172 (218)
                      .|-++||..|+++....||+++|+++..|.-+.+++.|+..
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            47899999999999999999999999999999999999974

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 ....

>smart00398 HMG high mobility group

Probab=97.55  E-value=0.00019  Score=49.03  Aligned_cols=42  Identities=31%  Similarity=0.501  Sum_probs=39.0

Q ss_pred             CCCchhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCC
Q 027837          132 QRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP  173 (218)
Q Consensus       132 QR~pSayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~P  173 (218)
                      .|-+++|..|+++....+++++|+++..|....++..|+..+
T Consensus         3 krp~~~y~~f~~~~r~~~~~~~~~~~~~~i~~~~~~~W~~l~   44 (70)
T smart00398        3 KRPMSAFMLFSQENRAKIKAENPDLSNAEISKKLGERWKLLS   44 (70)
T ss_pred             CCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHcCC
Confidence            467899999999999999999999999999999999999753

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

Probab=97.50  E-value=0.00022  Score=51.49  Aligned_cols=42  Identities=19%  Similarity=0.371  Sum_probs=39.4

Q ss_pred             CCCchhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCC
Q 027837          132 QRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP  173 (218)
Q Consensus       132 QR~pSayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~P  173 (218)
                      .|-++||-.|+++....|+++||++++.|.-+.++..|+..+
T Consensus         3 kRP~naf~lf~~~~r~~~~~~~p~~~~~eisk~~g~~Wk~ls   44 (77)
T cd01389           3 PRPRNAFILYRQDKHAQLKTENPGLTNNEISRIIGRMWRSES   44 (77)
T ss_pred             CCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCC
Confidence            578999999999999999999999999999999999999754

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=97.38  E-value=0.00041  Score=52.84  Aligned_cols=48  Identities=25%  Similarity=0.438  Sum_probs=41.7

Q ss_pred             CCCcccCCCchhhhHHHHHHHHHHHhcCCCCC--HHHHHHHHHHhhccCC
Q 027837          126 RPPEKRQRVPSAYNRFIKDEIQRIKAGNPDIS--HREAFSAAAKNWAHFP  173 (218)
Q Consensus       126 KPPEKRQR~pSayN~fmK~ei~riK~~~P~i~--hkEaFs~aAknW~~~P  173 (218)
                      +.|.+-.|-+|||..|+++.-..|+++||+++  -.|.-+.++..|+..+
T Consensus        18 kdp~~PKrP~sAY~~F~~~~R~~i~~~~P~~~~~~~evsk~ige~Wk~ls   67 (94)
T PTZ00199         18 KDPNAPKRALSAYMFFAKEKRAEIIAENPELAKDVAAVGKMVGEAWNKLS   67 (94)
T ss_pred             CCCCCCCCCCcHHHHHHHHHHHHHHHHCcCCcccHHHHHHHHHHHHHcCC
Confidence            45666678899999999999999999999986  5788889999999764

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

Probab=96.61  E-value=0.0024  Score=52.17  Aligned_cols=50  Identities=26%  Similarity=0.531  Sum_probs=44.8

Q ss_pred             CCCCCCcccCCCchhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCCc
Q 027837          123 VVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPH  174 (218)
Q Consensus       123 ~v~KPPEKRQR~pSayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~Ph  174 (218)
                      .+-|.||||-+  -||..|--.+|.+||++||++.+-+-=-..=|.|..+|.
T Consensus        67 ~~drHPErR~K--AAy~afeE~~Lp~lK~E~PgLrlsQ~kq~l~K~w~KSPe  116 (122)
T PF06244_consen   67 PIDRHPERRMK--AAYKAFEERRLPELKEENPGLRLSQYKQMLWKEWQKSPE  116 (122)
T ss_pred             CCCCCcchhHH--HHHHHHHHHHhHHHHhhCCCchHHHHHHHHHHHHhcCCC
Confidence            35789999875  599999999999999999999999888888999999874

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

Probab=96.34  E-value=0.008  Score=44.42  Aligned_cols=43  Identities=30%  Similarity=0.442  Sum_probs=39.3

Q ss_pred             ccCCCchhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccC
Q 027837          130 KRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHF  172 (218)
Q Consensus       130 KRQR~pSayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~  172 (218)
                      .-+|-+|||..|+.+.-.+||++||+++..|.=+.+..+|...
T Consensus        22 ~pkrp~sa~~~f~~~~~~~~k~~~p~~~~~~v~k~~g~~W~~l   64 (96)
T KOG0381|consen   22 APKRPLSAFFLFSSEQRSKIKAENPGLSVGEVAKALGEMWKNL   64 (96)
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcC
Confidence            4577888999999999999999999999999999999999875

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

Probab=93.47  E-value=0.041  Score=38.46  Aligned_cols=38  Identities=29%  Similarity=0.733  Sum_probs=29.5

Q ss_pred             EeeCCCcceeEEcccCCCCCcc---eeeeecCCcCCccccccc
Q 027837           22 YVHCTFCDTVLAVSVPCTSLFK---TVTVRCGHCTNLLSVNMR   61 (218)
Q Consensus        22 YV~CnfCnTILaVsVPcssL~~---~VTVRCGHCtnLLSVNmr   61 (218)
                      ||-|.-|...|-  +|-..+..   .-.+|||.|+.++++.++
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            788999987665  57775443   568999999999988753

>KOG3223 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.19  E-value=0.053  Score=48.33  Aligned_cols=50  Identities=30%  Similarity=0.532  Sum_probs=43.7

Q ss_pred             CCCCcccCCCchhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCCccc
Q 027837          125 NRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIH  176 (218)
Q Consensus       125 ~KPPEKRQR~pSayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~Phih  176 (218)
                      -|-||||=|.  ||--|=..++-|||.++|+++|-+-=-..-|.|...|-=-
T Consensus       161 drHPEkRmrA--A~~afEe~~LPrLK~e~P~lrlsQ~Kqll~Kew~KsPDNP  210 (221)
T KOG3223|consen  161 DRHPEKRMRA--AFKAFEEARLPRLKKENPGLRLSQYKQLLKKEWQKSPDNP  210 (221)
T ss_pred             ccChHHHHHH--HHHHHHHhhchhhhhcCCCccHHHHHHHHHHHHhhCCCCh
Confidence            4899999885  8999999999999999999999987777788899887533

>KOG4684 consensus Uncharacterized conserved protein, contains C4-type Zn-finger [General function prediction only]

Probab=84.15  E-value=1.1  Score=41.10  Aligned_cols=16  Identities=38%  Similarity=0.922  Sum_probs=10.7

Q ss_pred             eeeeecCCcCCccccc
Q 027837           44 TVTVRCGHCTNLLSVN   59 (218)
Q Consensus        44 ~VTVRCGHCtnLLSVN   59 (218)
                      .+-|+||||++..--|
T Consensus       168 gcRV~CgHC~~tFLfn  183 (275)
T KOG4684|consen  168 GCRVKCGHCNETFLFN  183 (275)
T ss_pred             ceEEEecCccceeehh
Confidence            3778888887765444

>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain

Probab=80.17  E-value=1.8  Score=27.51  Aligned_cols=35  Identities=29%  Similarity=0.573  Sum_probs=24.4

Q ss_pred             EeeCCCcceeEEcccCCCCCc-ceeeeecCCcCCcccc
Q 027837           22 YVHCTFCDTVLAVSVPCTSLF-KTVTVRCGHCTNLLSV   58 (218)
Q Consensus        22 YV~CnfCnTILaVsVPcssL~-~~VTVRCGHCtnLLSV   58 (218)
                      .+.|..|.+..-|..  +.+- +...|||++|.+.+.+
T Consensus         2 ~~~CP~C~~~~~v~~--~~~~~~~~~v~C~~C~~~~~~   37 (38)
T TIGR02098         2 RIQCPNCKTSFRVVD--SQLGANGGKVRCGKCGHVWYA   37 (38)
T ss_pred             EEECCCCCCEEEeCH--HHcCCCCCEEECCCCCCEEEe
Confidence            368999999877653  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.

---

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	218
3tmm_A	238	Transcription factor A, mitochondrial; HMG, high m	3e-06
3tq6_A	214	Transcription factor A, mitochondrial; transcripti	6e-06
2yrq_A	173	High mobility group protein B1; HMG box domain, DN	7e-05
2yrq_A	173	High mobility group protein B1; HMG box domain, DN	2e-04
1k99_A	99	Upstream binding factor 1; alpha-helix, L-shape, D	1e-04
2co9_A	102	Thymus high mobility group box protein TOX; TOX pr	3e-04
1cg7_A	93	Protein (NON histone protein 6 A); HMG BOX, DNA be	6e-04
1hme_A	77	High mobility group protein fragment-B; DNA-bindin	7e-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 = 45.6 bits (107), Expect = 3e-06
 Identities = 14/48 (29%), Positives = 21/48 (43%)

Query: 126 RPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 173
                 ++  S+Y RF K+++   KA NPD    E     A+ W   P
Sbjct: 37  VLASCPKKPVSSYLRFSKEQLPIFKAQNPDAKTTELIRRIAQRWRELP 84

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

 Score = 44.7 bits (105), Expect = 6e-06
 Identities = 14/48 (29%), Positives = 21/48 (43%)

Query: 126 RPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 173
                 ++  S+Y RF K+++   KA NPD    E     A+ W   P
Sbjct: 5   VLASCPKKPVSSYLRFSKEQLPIFKAQNPDAKTTELIRRIAQRWRELP 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 = 40.7 bits (95), Expect = 7e-05
 Identities = 11/62 (17%), Positives = 22/62 (35%)

Query: 108 MPVRVVDHQEIPKSPVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAK 167
                       ++    + P   +R PSA+  F  +   +IK  +P +S  +      +
Sbjct: 79  EREMKTYIPPKGETKKKFKDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGE 138

Query: 168 NW 169
            W
Sbjct: 139 MW 140

>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 = 39.6 bits (92), Expect = 2e-04
 Identities = 11/56 (19%), Positives = 23/56 (41%), Gaps = 2/56 (3%)

Query: 120 KSPVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPD--ISHREAFSAAAKNWAHFP 173
            S +    P+K +   S+Y  F++   +  K  +PD  ++  E     ++ W    
Sbjct: 5   SSGMGKGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMS 60

>1k99_A Upstream binding factor 1; alpha-helix, L-shape, DNA binding protein; NMR {Homo sapiens} SCOP: a.21.1.1 Length = 99

 Score = 38.9 bits (91), Expect = 1e-04
 Identities = 7/45 (15%), Positives = 22/45 (48%)

Query: 125 NRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNW 169
            + P+  ++  + Y RF  ++  +    +P++S+ +     +K +
Sbjct: 5   KKHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMSNLDLTKILSKKY 49

>2co9_A Thymus high mobility group box protein TOX; TOX protein, HMG box domain, structural genomics, NPPSFA; NMR {Mus musculus} Length = 102

 Score = 37.8 bits (88), Expect = 3e-04
 Identities = 14/44 (31%), Positives = 20/44 (45%)

Query: 126 RPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNW 169
           + P + Q+  SAY  F +D    IK  NP+ +  E     A  W
Sbjct: 13  KDPNEPQKPVSAYALFFRDTQAAIKGQNPNATFGEVSKIVASMW 56

>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 Length = 93

 Score = 36.9 bits (86), Expect = 6e-04
 Identities = 11/44 (25%), Positives = 20/44 (45%)

Query: 126 RPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNW 169
           + P   +R  SAY  F  +    +++ NPDI+  +      + W
Sbjct: 16  KDPNAPKRALSAYMFFANENRDIVRSENPDITFGQVGKKLGEKW 59

>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 Length = 77

 Score = 36.1 bits (84), Expect = 7e-04
 Identities = 11/44 (25%), Positives = 20/44 (45%)

Query: 126 RPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNW 169
           + P   +R PSA+  F  +   +IK  +P +S  +      + W
Sbjct: 2   KDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMW 45

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

No hit with probability above 80.00

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	218
d1k99a_	91	a.21.1.1 (A:) Nucleolar transcription factor 1 (Up	6e-05
d1hsma_	79	a.21.1.1 (A:) High mobility group protein 1, HMG1	4e-04
d1qrva_	73	a.21.1.1 (A:) HMG-D {Drosophila melanogaster [TaxI	8e-04
d1wgfa_	90	a.21.1.1 (A:) Nucleolar transcription factor 1 (Up	0.001
d1lwma_	93	a.21.1.1 (A:) NHP6a {Baker's yeast (Saccharomyces	0.003

>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 = 38.4 bits (89), Expect = 6e-05
 Identities = 8/48 (16%), Positives = 23/48 (47%)

Query: 126 RPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 173
           + P+  ++  + Y RF  ++  +    +P++S+ +     +K +   P
Sbjct: 6   KHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMSNLDLTKILSKKYKELP 53

>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 = 36.0 bits (83), Expect = 4e-04
 Identities = 12/49 (24%), Positives = 21/49 (42%), Gaps = 4/49 (8%)

Query: 125 NRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 173
           N P    +R PSA+  F  +   +IK  +P +S  +      + W +  
Sbjct: 1   NAP----KRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTA 45

>d1qrva_ a.21.1.1 (A:) HMG-D {Drosophila melanogaster [TaxId: 7227]} Length = 73

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

 Score = 34.8 bits (80), Expect = 8e-04
 Identities = 12/45 (26%), Positives = 18/45 (40%), Gaps = 4/45 (8%)

Query: 125 NRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNW 169
           ++P     R  SAY  ++    + IK  NP I   E      + W
Sbjct: 2   DKPK----RPLSAYMLWLNSARESIKRENPGIKVTEVAKRGGELW 42

>d1wgfa_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1) {Mouse (Mus musculus) [TaxId: 10090]} Length = 90

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]

 Score = 34.6 bits (79), Expect = 0.001
 Identities = 12/51 (23%), Positives = 23/51 (45%)

Query: 119 PKSPVVNRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNW 169
           P         EK +R  SA   F +++ ++++   P++S  E     A+ W
Sbjct: 9   PSQEGGKGGSEKPKRPVSAMFIFSEEKRRQLQEERPELSESELTRLLARMW 59

>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 = 33.3 bits (76), Expect = 0.003
 Identities = 11/44 (25%), Positives = 20/44 (45%)

Query: 126 RPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNW 169
           + P   +R  SAY  F  +    +++ NPDI+  +      + W
Sbjct: 16  KDPNAPKRALSAYMFFANENRDIVRSENPDITFGQVGKKLGEKW 59

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	218
d1k99a_	91	Nucleolar transcription factor 1 (Upstream binding	97.18
d1wgfa_	90	Nucleolar transcription factor 1 (Upstream binding	97.18
d1lwma_	93	NHP6a {Baker's yeast (Saccharomyces cerevisiae) [T	97.03
d1hsma_	79	High mobility group protein 1, HMG1 {Hamster (Cric	96.62
d1qrva_	73	HMG-D {Drosophila melanogaster [TaxId: 7227]}	96.43
d1gt0d_	80	Sox-2 {Mouse (Mus musculus) [TaxId: 10090]}	96.35
d1j46a_	85	SRY {Human (Homo sapiens) [TaxId: 9606]}	96.3
d1ckta_	71	High mobility group protein 1, HMG1 {Rat (Rattus n	96.26
d2lefa_	86	Lymphoid enhancer-binding factor, LEF1 {Mouse (Mus	95.74
d1i11a_	70	Sox-5 {Mouse (Mus musculus) [TaxId: 10090]}	95.66
d1v64a_	108	Nucleolar transcription factor 1 (Upstream binding	94.56
d1v63a_	101	Nucleolar transcription factor 1 (Upstream binding	92.5

>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=97.18  E-value=0.00031  Score=44.16  Aligned_cols=49  Identities=16%  Similarity=0.381  Sum_probs=44.6

Q ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCC
Q ss_conf             8998546888525459899999898812999997899999998211498
Q 027837          125 NRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP  173 (218)
Q Consensus       125 ~KPPEKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~P  173 (218)
                      .|.|++-.|-+|||..|+++....|++.+|+++..|.-+.++..|+..+
T Consensus         5 kk~p~~PKrP~say~lf~~~~r~~~~~~~p~~~~~ev~k~l~~~W~~ls   53 (91)
T d1k99a_           5 KKHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMSNLDLTKILSKKYKELP   53 (91)
T ss_dssp             CSSSSSCCCSCCHHHHHHHHHHHHHHTTCTTSCSHHHHHHHHHHHHHSC
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCC
T ss_conf             7997989999869999999999999988789999999999981716799

>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=97.18  E-value=0.00034  Score=43.91  Aligned_cols=48  Identities=23%  Similarity=0.367  Sum_probs=41.9

Q ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCC
Q ss_conf             998546888525459899999898812999997899999998211498
Q 027837          126 RPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP  173 (218)
Q Consensus       126 KPPEKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~P  173 (218)
                      +.|.+..|-+|||.+|+++..++|++++|++++.|.-..++..|+..+
T Consensus        16 ~~~~~PKrP~say~lF~~e~r~~~~~~~p~~~~~ei~k~l~~~W~~Ls   63 (90)
T d1wgfa_          16 GGSEKPKRPVSAMFIFSEEKRRQLQEERPELSESELTRLLARMWNDLS   63 (90)
T ss_dssp             SCCCCCCCCCCHHHHHHHHTHHHHHHHCTTSCHHHHHHHHHHHHHHSC
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCC
T ss_conf             998989999769999999999999985889878999999999998499

>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=97.03  E-value=0.00061  Score=42.37  Aligned_cols=49  Identities=22%  Similarity=0.457  Sum_probs=43.9

Q ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCC
Q ss_conf             8998546888525459899999898812999997899999998211498
Q 027837          125 NRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP  173 (218)
Q Consensus       125 ~KPPEKRQRvpsayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~P  173 (218)
                      .|.|.+.-|-+|||.+|+++....||+++|++++.|.-..++..|+..+
T Consensus        15 ~k~p~~PKrP~saf~lF~~e~r~~ik~~~p~~~~~ei~k~l~~~W~~ls   63 (93)
T d1lwma_          15 KKDPNAPKRALSAYMFFANENRDIVRSENPDITFGQVGKKLGEKWKALT   63 (93)
T ss_dssp             CCCSSCCCCCCCHHHHHHHHHHHHHHHHCTTSCHHHHHHHHHHHHHTSC
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCC
T ss_conf             7996889999879999999999999875889868999999999998399

>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=96.62  E-value=0.00078  Score=41.70  Aligned_cols=41  Identities=24%  Similarity=0.410  Sum_probs=38.4

Q ss_pred             CCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCC
Q ss_conf             88525459899999898812999997899999998211498
Q 027837          133 RVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP  173 (218)
Q Consensus       133 RvpsayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~P  173 (218)
                      |-+|||.+|+++....|++++|+++..|..+.++..|+..+
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
T ss_conf             99869999999999999988889989999999951875499

>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=96.43  E-value=0.0023  Score=38.77  Aligned_cols=40  Identities=28%  Similarity=0.410  Sum_probs=37.5

Q ss_pred             CCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCC
Q ss_conf             8885254598999998988129999978999999982114
Q 027837          132 QRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAH  171 (218)
Q Consensus       132 QRvpsayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~  171 (218)
                      .|-+|||.+|+++.-+.||+++|+++..|.-+.++..|+.
T Consensus         5 KrP~say~lf~~~~r~~~k~~~p~~~~~eisk~l~~~Wk~   44 (73)
T d1qrva_           5 KRPLSAYMLWLNSARESIKRENPGIKVTEVAKRGGELWRA   44 (73)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHTSTTCCHHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCC
T ss_conf             8998599999999999999886899999999999998648

>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=96.35  E-value=0.0033  Score=37.85  Aligned_cols=44  Identities=14%  Similarity=0.342  Sum_probs=40.1

Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCC
Q ss_conf             46888525459899999898812999997899999998211498
Q 027837          130 KRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP  173 (218)
Q Consensus       130 KRQRvpsayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~P  173 (218)
                      |--|-+|||-+|+++.-.+|++++|++.+.|.=+.++..|+..+
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
T ss_conf             79999869999999999999988679889999999999987487

>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=96.30  E-value=0.0033  Score=37.81  Aligned_cols=42  Identities=17%  Similarity=0.360  Sum_probs=39.0

Q ss_pred             CCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCC
Q ss_conf             888525459899999898812999997899999998211498
Q 027837          132 QRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP  173 (218)
Q Consensus       132 QRvpsayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~P  173 (218)
                      -|-+|||..|+++.-..|++++|+++..|.=+.++..|+..+
T Consensus         6 KRP~nay~lF~~~~r~~i~~~~p~~~~~eisk~ig~~W~~L~   47 (85)
T d1j46a_           6 KRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLT   47 (85)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHHSTTSCHHHHHHHHHHHHTTSC
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCC
T ss_conf             899979999999999999998606889999999979996399

>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=96.26  E-value=0.0036  Score=37.58  Aligned_cols=42  Identities=19%  Similarity=0.365  Sum_probs=37.6

Q ss_pred             CCCCHHHHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHCCCC
Q ss_conf             888525459899999898812999--997899999998211498
Q 027837          132 QRVPSAYNRFIKDEIQRIKAGNPD--ISHREAFSAAAKNWAHFP  173 (218)
Q Consensus       132 QRvpsayN~fmK~ei~riK~~~P~--i~hkEaFs~aAknW~~~P  173 (218)
                      .|-+|||..|+++.-..||+.+|+  +.+.|.-+.++..|+..+
T Consensus         3 KrP~say~~f~~~~r~~~k~~~p~~~~~~~ei~k~~~~~Wk~ls   46 (71)
T d1ckta_           3 RGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMS   46 (71)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHHCTTCCCCHHHHHHHHHHHHHTCC
T ss_pred             CCCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCC
T ss_conf             89997999999999999998887877779999999999886899

>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=95.74  E-value=0.0074  Score=35.67  Aligned_cols=41  Identities=10%  Similarity=0.180  Sum_probs=37.6

Q ss_pred             CCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCC
Q ss_conf             88525459899999898812999997899999998211498
Q 027837          133 RVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP  173 (218)
Q Consensus       133 RvpsayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~P  173 (218)
                      |-++||-+|+++.-++|++++|+++..|.=+.++..|+..+
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
T ss_conf             99979999999999999988889988999999999998199

>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=95.66  E-value=0.0097  Score=34.95  Aligned_cols=41  Identities=22%  Similarity=0.379  Sum_probs=38.0

Q ss_pred             CCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCC
Q ss_conf             88525459899999898812999997899999998211498
Q 027837          133 RVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP  173 (218)
Q Consensus       133 RvpsayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~P  173 (218)
                      |-+|||-.|+++.-++|+.++|+++..|.-+.++..|+..+
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
T ss_conf             99989999999999999998606878999999988987489

>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=94.56  E-value=0.024  Score=32.56  Aligned_cols=38  Identities=13%  Similarity=0.406  Sum_probs=31.8

Q ss_pred             CCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf             885254598999998988129999978999999982114985
Q 027837          133 RVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPH  174 (218)
Q Consensus       133 RvpsayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~Ph  174 (218)
                      |-++||.+|+++..+.    .|+++.+|..+.++..|+..+.
T Consensus        20 ~P~~ay~lF~~~~r~~----~~~~~~~e~~k~ig~~W~~Ls~   57 (108)
T d1v64a_          20 PPPNSYSLYCAELMAN----MKDVPSTERMVLCSQQWKLLSQ   57 (108)
T ss_dssp             CCSSHHHHHHHHHHHH----CTTSCHHHHHHHHHHHHHHSCH
T ss_pred             CCCCHHHHHHHHHHHH----CCCCCHHHHHHHHHHHHCCCCH
T ss_conf             9996899999999988----3278899999999998844999

>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=92.50  E-value=0.061  Score=30.00  Aligned_cols=39  Identities=10%  Similarity=0.346  Sum_probs=33.5

Q ss_pred             CCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf             85254598999998988129999978999999982114985
Q 027837          134 VPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPH  174 (218)
Q Consensus       134 vpsayN~fmK~ei~riK~~~P~i~hkEaFs~aAknW~~~Ph  174 (218)
                      -++||.+|+++.++.++..+  ++.+|.-+.++..|+..+.
T Consensus        12 P~~ay~~F~~e~r~~~~~~~--~~~~ei~k~~g~~Wk~ls~   50 (101)
T d1v63a_          12 PMNGYQKFSQELLSNGELNH--LPLKERMVEIGSRWQRISQ   50 (101)
T ss_dssp             CSSSHHHHHHHHHHHCTTTT--SCHHHHHHHHHHHHTTSCH
T ss_pred             CCCHHHHHHHHHHHHHHHCC--CCHHHHHHHHHHHHHHCCH
T ss_conf             99899999999999977069--8999999999999861999