Citrus Sinensis ID: 032564

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------14
Protein Sequence
MAAAFQSLSWQDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPTNKATEERVVNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQPKLDDASGNRLMSRTALRNK
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHccccccccccccccccccccccccccccHHHHHccc
Secondary Structure Prediction (SSPRO)
cccHHcccccccccHHcccccccccccccccccccccccccccccccccccccccccccHHHcccccHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccccccccccccccccccccccccccccHHHHccc
Coil and Loop (DISEMBL)
maaafqslswqdvhhhqapsyaspecridlgssskcnnkisamrtptnkateervvnrppekrqrvpsAYNQFIKEEIQRIkannpdishREAFSTAAknwahfphiHFGLmleannqpklddasgnrlMSRTALRNK
Flexible Loop (DISEMBL)
MAAAFqslswqdvhHHQAPSYASPECRIDlgssskcnnkisamrtptnkateervvnrppekrqrvpsaYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQPklddasgnrlmsrtalrnk
Low Complexity Region (SEG)
MAAAFQSLSWQDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPTNKATEERVVNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQPKLDDASGNRLMSRTALRNK
Disordered region (IsUnstruct)
************************************************************************FI*****************EAFSTAAKNWAHFPHIHFGLMLE************************
Disordered Region (DISOPRED)
***AFQS*****************************************************************FIKEEIQRIKANNPDISHREAFSTAAKNWAHFP**************************R******
Disordered Region (DISEMBL)
**********************SPECRIDLGSSSKCNNKISAM***********************PSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQPKLDDASGNRLMSRTALRNK
Disordered Region (DISPRO)
*******************************************************VNRP**KRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLE************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAAAFQSLSWQDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPTNKATEERVVNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQPKLDDASGNRLMSRTALRNK
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	138	2.2.26 [Sep-21-2011]
Q8GW46	164	Axial regulator YABBY 5 O	yes	no	0.818	0.689	0.719	3e-40
Q8L556	313	Protein YABBY 3 OS=Oryza	no	no	0.449	0.198	0.870	2e-27
Q9XFB0	184	Putative axial regulator	no	no	0.492	0.369	0.823	2e-27
Q6H668	256	Protein YABBY 4 OS=Oryza	no	no	0.557	0.300	0.662	8e-27
A2X7Q3	256	Protein YABBY 4 OS=Oryza	N/A	no	0.557	0.300	0.662	8e-27
O22152	229	Axial regulator YABBY 1 O	no	no	0.449	0.270	0.875	9e-27
Q10FZ7	186	Protein YABBY 2 OS=Oryza	no	no	0.681	0.505	0.642	1e-26
Q2QM17	207	Protein YABBY 6 OS=Oryza	no	no	0.557	0.371	0.714	2e-25
Q0JBF0	266	Protein YABBY 5 OS=Oryza	no	no	0.731	0.379	0.568	3e-25
Q01JG2	266	Protein YABBY 5 OS=Oryza	N/A	no	0.731	0.379	0.568	3e-25

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

 Score =  163 bits (413), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 87/121 (71%), Positives = 96/121 (79%), Gaps = 8/121 (6%)

Query: 1   MAAAFQSLSWQDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPTNKATEERVVNRPP 60
           MAAA QSLS  +    QA +YA PE     GSSS+ + KI + R  T   TE+R+VNRPP
Sbjct: 51  MAAALQSLSRPNF---QATNYAVPE----YGSSSRSHTKIPS-RISTRTITEQRIVNRPP 102

Query: 61  EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQPK 120
           EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLE+N Q K
Sbjct: 103 EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLESNKQAK 162

Query: 121 L 121
           +
Sbjct: 163 I 163

Arabidopsis thaliana (taxid: 3702)

>sp|Q8L556|YAB3_ORYSJ Protein YABBY 3 OS=Oryza sativa subsp. japonica GN=YAB3 PE=2 SV=1

 Score =  120 bits (302), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 54/62 (87%), Positives = 57/62 (91%)

Query: 51  TEERVVNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFG 110
           T   V+NRPPEKRQRVPSAYN+FIK+EIQRIKA NPDISHREAFS AAKNWAHFPHIHFG
Sbjct: 207 TNTAVINRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFG 266

Query: 111 LM 112
           LM
Sbjct: 267 LM 268

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 =  120 bits (301), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 56/68 (82%), Positives = 60/68 (88%)

Query: 58  RPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANN 117
           RPPEKRQRVPSAYN+FIKEEIQRIKA NP+ISHREAFSTAAKNWAHFPHIHFGL L+ N 
Sbjct: 107 RPPEKRQRVPSAYNRFIKEEIQRIKACNPEISHREAFSTAAKNWAHFPHIHFGLKLDGNK 166

Query: 118 QPKLDDAS 125
           + K  D S
Sbjct: 167 KGKQLDQS 174

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

Arabidopsis thaliana (taxid: 3702)

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

 Score =  119 bits (297), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 57/86 (66%), Positives = 63/86 (73%), Gaps = 9/86 (10%)

Query: 36  CNNKISAMRTPTNKATEER---------VVNRPPEKRQRVPSAYNQFIKEEIQRIKANNP 86
           C +   AM+ P  K  ++            NRPPEKRQRVPSAYN+FIK+EIQRIKA NP
Sbjct: 128 CASNAPAMQMPPAKPVQQEPELPKNAPASANRPPEKRQRVPSAYNRFIKDEIQRIKAGNP 187

Query: 87  DISHREAFSTAAKNWAHFPHIHFGLM 112
           DISHREAFS AAKNWAHFPHIHFGLM
Sbjct: 188 DISHREAFSAAAKNWAHFPHIHFGLM 213

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 =  119 bits (297), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 57/86 (66%), Positives = 63/86 (73%), Gaps = 9/86 (10%)

Query: 36  CNNKISAMRTPTNKATEER---------VVNRPPEKRQRVPSAYNQFIKEEIQRIKANNP 86
           C +   AM+ P  K  ++            NRPPEKRQRVPSAYN+FIK+EIQRIKA NP
Sbjct: 128 CASNAPAMQMPPAKPVQQEPELPKNAPASANRPPEKRQRVPSAYNRFIKDEIQRIKAGNP 187

Query: 87  DISHREAFSTAAKNWAHFPHIHFGLM 112
           DISHREAFS AAKNWAHFPHIHFGLM
Sbjct: 188 DISHREAFSAAAKNWAHFPHIHFGLM 213

Oryza sativa subsp. indica (taxid: 39946)

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

 Score =  118 bits (296), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 56/64 (87%), Positives = 59/64 (92%), Gaps = 2/64 (3%)

Query: 56  VNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEA 115
           VNRPPEKRQRVPSAYN+FIKEEIQRIKA NPDISHREAFS AAKNWAHFPHIHFGL+   
Sbjct: 134 VNRPPEKRQRVPSAYNRFIKEEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLV--P 191

Query: 116 NNQP 119
           +NQP
Sbjct: 192 DNQP 195

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

 Score =  118 bits (295), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 63/98 (64%), Positives = 77/98 (78%), Gaps = 4/98 (4%)

Query: 29  DLGSSSKCNNKISAMRTPTNKATEERVVNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDI 88
           + GSSS+   ++  M +  +  TE  +  RPPEKRQRVPSAYN+FIKEEI+RIKANNPDI
Sbjct: 82  EYGSSSR-YGRVPMMFSKND--TEHMLHVRPPEKRQRVPSAYNRFIKEEIRRIKANNPDI 138

Query: 89  SHREAFSTAAKNWAHFPHIHFGLMLEANNQPKLDDASG 126
           SHREAFSTAAKNWAHFP+IHFGL    +++ KLD+A G
Sbjct: 139 SHREAFSTAAKNWAHFPNIHFGLGSHESSK-KLDEAIG 175

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 =  114 bits (285), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 55/77 (71%), Positives = 62/77 (80%)

Query: 48  NKATEERVVNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHI 107
           N+  E+ +  RPPEKRQRVPSAYN+FIKEEI+RIKANNPDISHREAFSTAAKNWAH+P+I
Sbjct: 114 NQQLEQALHARPPEKRQRVPSAYNRFIKEEIRRIKANNPDISHREAFSTAAKNWAHYPNI 173

Query: 108 HFGLMLEANNQPKLDDA 124
           HFGL        KL D 
Sbjct: 174 HFGLSPGHEGGKKLVDV 190

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 =  113 bits (283), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 66/116 (56%), Positives = 75/116 (64%), Gaps = 15/116 (12%)

Query: 12  DVHHHQAPS-----YASPECRIDLGSSSKCNNKISA--MRTPTNKATEER--------VV 56
           +V   QAP+      ASP       S+S C N   A  M +  NKAT+            
Sbjct: 104 EVPSFQAPASLMTEQASPNVSSITSSNSSCANNAPATSMASAANKATQREPQQPKNAPSA 163

Query: 57  NRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLM 112
           NR  EKRQRVPSAYN+FIK+EIQRIKA+NPDI+HREAFS AAKNWAHFPHIHFGLM
Sbjct: 164 NRTSEKRQRVPSAYNRFIKDEIQRIKASNPDITHREAFSAAAKNWAHFPHIHFGLM 219

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 =  113 bits (283), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 66/116 (56%), Positives = 75/116 (64%), Gaps = 15/116 (12%)

Query: 12  DVHHHQAPS-----YASPECRIDLGSSSKCNNKISA--MRTPTNKATEER--------VV 56
           +V   QAP+      ASP       S+S C N   A  M +  NKAT+            
Sbjct: 104 EVPSFQAPASLMTEQASPNVSSITSSNSSCANNAPATSMASAANKATQREPQQPKNAPSA 163

Query: 57  NRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLM 112
           NR  EKRQRVPSAYN+FIK+EIQRIKA+NPDI+HREAFS AAKNWAHFPHIHFGLM
Sbjct: 164 NRTSEKRQRVPSAYNRFIKDEIQRIKASNPDITHREAFSAAAKNWAHFPHIHFGLM 219

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

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	138
225445565	185	PREDICTED: axial regulator YABBY 5 [Viti	0.971	0.724	0.818	2e-58
224087122	188	predicted protein [Populus trichocarpa]	0.971	0.712	0.826	4e-56
351724725	186	uncharacterized protein LOC100499942 [Gl	0.971	0.720	0.797	1e-55
356548475	186	PREDICTED: axial regulator YABBY 5-like	0.971	0.720	0.789	2e-55
255638088	186	unknown [Glycine max]	0.971	0.720	0.782	1e-54
357478135	191	YABBY protein [Medicago truncatula] gi|3	0.978	0.706	0.755	1e-52
217073506	191	unknown [Medicago truncatula] gi|3884906	0.978	0.706	0.755	1e-52
255572533	185	Axial regulator YABBY5, putative [Ricinu	0.963	0.718	0.784	5e-51
302399149	188	YABBY domain class transcription factor	0.978	0.718	0.782	1e-49
449464626	193	PREDICTED: axial regulator YABBY 5-like	0.971	0.694	0.731	6e-49

>gi|225445565|ref|XP_002285328.1| PREDICTED: axial regulator YABBY 5 [Vitis vinifera] gi|297738980|emb|CBI28225.3| unnamed protein product [Vitis vinifera]

 Score =  230 bits (586), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 113/138 (81%), Positives = 121/138 (87%), Gaps = 4/138 (2%)

Query: 1   MAAAFQSLSWQDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPTNKATEERVVNRPP 60
           MAAAFQSLSWQDV   QAP+Y SP+ RIDLGSSSKCN K+ AMR P +  +EER+VNRPP
Sbjct: 52  MAAAFQSLSWQDV---QAPNYTSPDYRIDLGSSSKCNTKM-AMRAPASNISEERIVNRPP 107

Query: 61  EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQPK 120
           EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLE NNQPK
Sbjct: 108 EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLETNNQPK 167

Query: 121 LDDASGNRLMSRTALRNK 138
           LD+ S   LMS+ ALRNK
Sbjct: 168 LDEGSEKHLMSKAALRNK 185

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224087122|ref|XP_002308074.1| predicted protein [Populus trichocarpa] gi|222854050|gb|EEE91597.1| predicted protein [Populus trichocarpa]

 Score =  222 bits (565), Expect = 4e-56,   Method: Compositional matrix adjust.
 Identities = 114/138 (82%), Positives = 120/138 (86%), Gaps = 4/138 (2%)

Query: 1   MAAAFQSLSWQDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPT-NKATEERVVNRP 59
           MAAAFQSLSWQD    QA +Y S + RIDLGSSSKCNNKIS MRTP  N  T+ERVVNRP
Sbjct: 53  MAAAFQSLSWQD--QVQASNYNSHDYRIDLGSSSKCNNKIS-MRTPAANIVTQERVVNRP 109

Query: 60  PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQP 119
           PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLE NNQ 
Sbjct: 110 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLETNNQT 169

Query: 120 KLDDASGNRLMSRTALRN 137
           K+DD S  RLMSR+AL+N
Sbjct: 170 KVDDGSEKRLMSRSALQN 187

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351724725|ref|NP_001238347.1| uncharacterized protein LOC100499942 [Glycine max] gi|255627893|gb|ACU14291.1| unknown [Glycine max]

 Score =  221 bits (562), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 110/138 (79%), Positives = 116/138 (84%), Gaps = 4/138 (2%)

Query: 1   MAAAFQSLSWQDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPTNKATEERVVNRPP 60
           MAAAFQSLSWQDV   Q P   +PE RID GS+SKCNN+I AMR PT   TEERVVNRPP
Sbjct: 53  MAAAFQSLSWQDV---QGPGQCNPEYRIDTGSTSKCNNRI-AMRAPTTHVTEERVVNRPP 108

Query: 61  EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQPK 120
           EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLE+NNQ K
Sbjct: 109 EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLESNNQAK 168

Query: 121 LDDASGNRLMSRTALRNK 138
           +D+ S   LM R AL NK
Sbjct: 169 MDNVSEKHLMPRAALLNK 186

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356548475|ref|XP_003542627.1| PREDICTED: axial regulator YABBY 5-like [Glycine max]

 Score =  219 bits (559), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 109/138 (78%), Positives = 117/138 (84%), Gaps = 4/138 (2%)

Query: 1   MAAAFQSLSWQDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPTNKATEERVVNRPP 60
           MAAAFQSLSWQDV   Q   + +PE RID GS+SKCNN+I AMR PT   TEERVVNRPP
Sbjct: 53  MAAAFQSLSWQDV---QGSGHCNPEYRIDTGSTSKCNNRI-AMRAPTTHVTEERVVNRPP 108

Query: 61  EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQPK 120
           EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLE+NNQ K
Sbjct: 109 EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLESNNQVK 168

Query: 121 LDDASGNRLMSRTALRNK 138
           +++ S   LMSR AL NK
Sbjct: 169 MENVSEKHLMSRAALLNK 186

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255638088|gb|ACU19358.1| unknown [Glycine max]

 Score =  217 bits (552), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 108/138 (78%), Positives = 116/138 (84%), Gaps = 4/138 (2%)

Query: 1   MAAAFQSLSWQDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPTNKATEERVVNRPP 60
           MAAAFQSLSWQDV   Q   + +PE RID GS+SKCNN+I AMR PT   TEERVVNRPP
Sbjct: 53  MAAAFQSLSWQDV---QGSGHCNPEYRIDTGSTSKCNNRI-AMRAPTTHVTEERVVNRPP 108

Query: 61  EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQPK 120
           EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLE+NNQ K
Sbjct: 109 EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLESNNQVK 168

Query: 121 LDDASGNRLMSRTALRNK 138
           +++     LMSR AL NK
Sbjct: 169 MENVFEKHLMSRAALLNK 186

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357478135|ref|XP_003609353.1| YABBY protein [Medicago truncatula] gi|355510408|gb|AES91550.1| YABBY protein [Medicago truncatula]

 Score =  210 bits (535), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 105/139 (75%), Positives = 117/139 (84%), Gaps = 4/139 (2%)

Query: 1   MAAAFQSLSWQDVHHHQAPSYA-SPECRIDLGSSSKCNNKISAMRTPTNKATEERVVNRP 59
           MAAAFQSLSWQDV   QAPS+  +PE RI   S+ KCN++I+    PT   TEERVVNRP
Sbjct: 56  MAAAFQSLSWQDV---QAPSHCMNPEYRIRTSSTPKCNDRIAMRSAPTTHVTEERVVNRP 112

Query: 60  PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQP 119
           PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLE+NNQ 
Sbjct: 113 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLESNNQA 172

Query: 120 KLDDASGNRLMSRTALRNK 138
           ++++ S  RLMSR+AL NK
Sbjct: 173 QIENVSEKRLMSRSALMNK 191

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|217073506|gb|ACJ85113.1| unknown [Medicago truncatula] gi|388490620|gb|AFK33376.1| unknown [Medicago truncatula]

 Score =  210 bits (535), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 105/139 (75%), Positives = 116/139 (83%), Gaps = 4/139 (2%)

Query: 1   MAAAFQSLSWQDVHHHQAPSYA-SPECRIDLGSSSKCNNKISAMRTPTNKATEERVVNRP 59
           MAAAFQSLSWQDV   QAPS+  +PE RI   S+ KCN++I+    PT   TEERVVNRP
Sbjct: 56  MAAAFQSLSWQDV---QAPSHCMNPEYRIRTSSTPKCNDRIAMRSAPTTHVTEERVVNRP 112

Query: 60  PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQP 119
           PEKRQRVPSAYNQFIKEEIQRIK NNPDISHREAFSTAAKNWAHFPHIHFGLMLE+NNQ 
Sbjct: 113 PEKRQRVPSAYNQFIKEEIQRIKVNNPDISHREAFSTAAKNWAHFPHIHFGLMLESNNQA 172

Query: 120 KLDDASGNRLMSRTALRNK 138
           K+++ S  RLMSR+AL NK
Sbjct: 173 KIENVSEKRLMSRSALMNK 191

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255572533|ref|XP_002527201.1| Axial regulator YABBY5, putative [Ricinus communis] gi|223533466|gb|EEF35214.1| Axial regulator YABBY5, putative [Ricinus communis]

 Score =  205 bits (521), Expect = 5e-51,   Method: Compositional matrix adjust.
 Identities = 109/139 (78%), Positives = 117/139 (84%), Gaps = 6/139 (4%)

Query: 1   MAAAFQSLSWQDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPT-NKATEERVVNRP 59
           MAAAFQSLSWQD    QAPS+ SP+ RI+LGSSSKCNN+IS MR P  +   EERVVNRP
Sbjct: 52  MAAAFQSLSWQDF---QAPSHNSPDYRIELGSSSKCNNRIS-MRAPAPHNIAEERVVNRP 107

Query: 60  PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQP 119
           PEKRQRVPSAYNQFIKEEIQRIKANNP+ISHREAFSTAAKNWAH+PHIHFGL L  N+Q 
Sbjct: 108 PEKRQRVPSAYNQFIKEEIQRIKANNPEISHREAFSTAAKNWAHYPHIHFGLTLN-NHQT 166

Query: 120 KLDDASGNRLMSRTALRNK 138
           KLDDAS   LMSR AL NK
Sbjct: 167 KLDDASEKHLMSRAALYNK 185

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302399149|gb|ADL36869.1| YABBY domain class transcription factor [Malus x domestica]

 Score =  200 bits (509), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 108/138 (78%), Positives = 112/138 (81%), Gaps = 3/138 (2%)

Query: 1   MAAAFQSLSWQDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPT-NKATEERVVNRP 59
           MAAAFQS SWQDV   Q  +Y S   RIDLGSSSKCN K +A R PT +  TEER VNRP
Sbjct: 52  MAAAFQSPSWQDVQA-QNYNYNSQNYRIDLGSSSKCNKK-NATRDPTSDHVTEERGVNRP 109

Query: 60  PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQP 119
           PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQ 
Sbjct: 110 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQA 169

Query: 120 KLDDASGNRLMSRTALRN 137
           KLD+     LMSR AL N
Sbjct: 170 KLDNDPEKHLMSRAALLN 187

Source: Malus x domestica

Species: Malus x domestica

Genus: Malus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449464626|ref|XP_004150030.1| PREDICTED: axial regulator YABBY 5-like [Cucumis sativus]

 Score =  198 bits (503), Expect = 6e-49,   Method: Compositional matrix adjust.
 Identities = 106/145 (73%), Positives = 111/145 (76%), Gaps = 11/145 (7%)

Query: 1   MAAAFQSLSWQDVHHHQAPSYASPEC-----RIDLGSSSKCNNKISAM--RTPTNKATEE 53
           MAAAF SLSWQDV   Q PSY    C     + D GSSSKCNN ++ M  R PT    EE
Sbjct: 53  MAAAFHSLSWQDV---QVPSYNLYGCNGADFQGDFGSSSKCNNNVNKMEIRVPTTIPAEE 109

Query: 54  RVVNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLML 113
           RVVNRPPEKRQRVPSAYNQFIKEEIQRIKA+NP+ISHREAFSTAAKNWAHFP IHFGLML
Sbjct: 110 RVVNRPPEKRQRVPSAYNQFIKEEIQRIKASNPEISHREAFSTAAKNWAHFPRIHFGLML 169

Query: 114 EANNQPKLDDASGNRLMSRTALRNK 138
           E NNQ KLDD S  RLM R AL NK
Sbjct: 170 ETNNQVKLDDGS-ERLMPRAALLNK 193

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	138
TAIR|locus:2066311	164	YAB5 "YABBY5" [Arabidopsis tha	0.818	0.689	0.719	1.3e-38
TAIR|locus:2826731	184	YAB2 "YABBY2" [Arabidopsis tha	0.804	0.603	0.591	1e-27
TAIR|locus:2005492	229	AFO "AT2G45190" [Arabidopsis t	0.449	0.270	0.875	2.5e-26
TAIR|locus:2126931	240	YAB3 "YABBY3" [Arabidopsis tha	0.420	0.241	0.913	1.1e-25
UNIPROTKB|Q7XIM7	169	YAB1 "Protein YABBY 1" [Oryza	0.543	0.443	0.653	2.1e-22
TAIR|locus:2028020	231	INO "INNER NO OUTER" [Arabidop	0.398	0.238	0.745	3.1e-19
TAIR|locus:2026418	181	CRC "AT1G69180" [Arabidopsis t	0.514	0.392	0.540	2.3e-16
UNIPROTKB|Q76EJ0	194	DL "Protein DROOPING LEAF" [Or	0.521	0.371	0.546	9.8e-16

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

 Score = 413 (150.4 bits), Expect = 1.3e-38, P = 1.3e-38
 Identities = 87/121 (71%), Positives = 96/121 (79%)

Query:     1 MAAAFQSLSWQDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPTNKATEERVVNRPP 60
             MAAA QSLS  +    QA +YA PE     GSSS+ + KI + R  T   TE+R+VNRPP
Sbjct:    51 MAAALQSLSRPNF---QATNYAVPE----YGSSSRSHTKIPS-RISTRTITEQRIVNRPP 102

Query:    61 EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQPK 120
             EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLE+N Q K
Sbjct:   103 EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLESNKQAK 162

Query:   121 L 121
             +
Sbjct:   163 I 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

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

 Score = 310 (114.2 bits), Expect = 1.0e-27, P = 1.0e-27
 Identities = 68/115 (59%), Positives = 79/115 (68%)

Query:    11 QDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPTNKATEERVVNRPPEKRQRVPSAY 70
             QD+  H+  +  S   R D  SSS+  N +S       +A     + RPPEKRQRVPSAY
Sbjct:    64 QDLQPHRQHT-TSLVTRKDCASSSRSTNNLS--ENIDREAPRMPPI-RPPEKRQRVPSAY 119

Query:    71 NQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQPKLDDAS 125
             N+FIKEEIQRIKA NP+ISHREAFSTAAKNWAHFPHIHFGL L+ N + K  D S
Sbjct:   120 NRFIKEEIQRIKACNPEISHREAFSTAAKNWAHFPHIHFGLKLDGNKKGKQLDQS 174

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

 Score = 297 (109.6 bits), Expect = 2.5e-26, P = 2.5e-26
 Identities = 56/64 (87%), Positives = 59/64 (92%)

Query:    56 VNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEA 115
             VNRPPEKRQRVPSAYN+FIKEEIQRIKA NPDISHREAFS AAKNWAHFPHIHFGL+   
Sbjct:   134 VNRPPEKRQRVPSAYNRFIKEEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLV--P 191

Query:   116 NNQP 119
             +NQP
Sbjct:   192 DNQP 195

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 = 291 (107.5 bits), Expect = 1.1e-25, P = 1.1e-25
 Identities = 53/58 (91%), Positives = 55/58 (94%)

Query:    57 NRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLE 114
             NRPPEKRQRVPSAYN+FIKEEIQRIKA NPDISHREAFS AAKNWAHFPHIHFGLM +
Sbjct:   147 NRPPEKRQRVPSAYNRFIKEEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLMAD 204

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

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

 Score = 260 (96.6 bits), Expect = 2.1e-22, P = 2.1e-22
 Identities = 49/75 (65%), Positives = 57/75 (76%)

Query:    37 NNKISAMRTPTNKATEERVVNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFST 96
             N + S    P   + ++    RPPEKRQRVPSAYN+FIKEEIQRIK +NP+ISHREAFS 
Sbjct:    83 NQRTSTAMYPMPTSQQQVSPIRPPEKRQRVPSAYNRFIKEEIQRIKTSNPEISHREAFSA 142

Query:    97 AAKNWAHFPHIHFGL 111
             AAKNWAH P +HFGL
Sbjct:   143 AAKNWAHLPRLHFGL 157

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 = 230 (86.0 bits), Expect = 3.1e-19, P = 3.1e-19
 Identities = 41/55 (74%), Positives = 48/55 (87%)

Query:    54 RVVNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIH 108
             +VVN+PPEKRQR PSAYN FIKEEI+R+KA NP ++H+EAFS AAKNWAHFP  H
Sbjct:   126 QVVNKPPEKRQRAPSAYNCFIKEEIRRLKAQNPSMAHKEAFSLAAKNWAHFPPAH 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

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

 Score = 203 (76.5 bits), Expect = 2.3e-16, P = 2.3e-16
 Identities = 40/74 (54%), Positives = 55/74 (74%)

Query:    31 GSSSKCNNKISAMRTPTNKATEERVVNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISH 90
             GSSS  ++  S+ + P+        V +PPEK+QR+PSAYN+F+++EIQRIK+ NP+I H
Sbjct:    86 GSSSSSSSSTSSDQPPSPSPP---FVVKPPEKKQRLPSAYNRFMRDEIQRIKSANPEIPH 142

Query:    91 REAFSTAAKNWAHF 104
             REAFS AAKNWA +
Sbjct:   143 REAFSAAAKNWAKY 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

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

 Score = 197 (74.4 bits), Expect = 9.8e-16, P = 9.8e-16
 Identities = 41/75 (54%), Positives = 52/75 (69%)

Query:    31 GSSSKCN-NKISAMRTPTNKATEERV--VNRPPEKRQRVPSAYNQFIKEEIQRIKANNPD 87
             G  + C  N+   + +PT+     R   V +PPEK+ R+PSAYN+F++EEIQRIKA  PD
Sbjct:    70 GPCTDCRRNQPLPLVSPTSNEGSPRAPFVVKPPEKKHRLPSAYNRFMREEIQRIKAAKPD 129

Query:    88 ISHREAFSTAAKNWA 102
             I HREAFS AAKNWA
Sbjct:   130 IPHREAFSMAAKNWA 144


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.315   0.125   0.375    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      138       138   0.00091  102 3  11 23  0.44    31
                                                     30  0.45    33


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  8
  No. of states in DFA:  597 (63 KB)
  Total size of DFA:  151 KB (2091 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  16.86u 0.07s 16.93t   Elapsed:  00:00:01
  Total cpu time:  16.86u 0.07s 16.93t   Elapsed:  00:00:01
  Start:  Thu May  9 16:23:10 2013   End:  Thu May  9 16:23:11 2013

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

GO:0048366 "leaf development" evidence=IMP

GO:0048440 "carpel development" evidence=IMP

---

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)
Q8GW46	YAB5_ARATH	No assigned EC number	0.7190	0.8188	0.6890	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: GSVIVG00016935001 SubName- Full=Chromosome chr11 scaffold_13, whole genome shotgun sequence; (185 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	138
pfam04690	170	pfam04690, YABBY, YABBY protein	3e-39
cd01390	66	cd01390, HMGB-UBF_HMG-box, HMGB-UBF_HMG-box, class	0.004

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

 Score =  129 bits (326), Expect = 3e-39
 Identities = 53/56 (94%), Positives = 54/56 (96%)

Query: 56  VNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGL 111
           VNRPPEKRQRVPSAYN+FIKEEIQRIKA NPDISHREAFS AAKNWAHFPHIHFGL
Sbjct: 115 VNRPPEKRQRVPSAYNRFIKEEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGL 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 = 33.4 bits (77), Expect = 0.004
 Identities = 13/37 (35%), Positives = 18/37 (48%)

Query: 65  RVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNW 101
           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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	138
PF04690	170	YABBY: YABBY protein; InterPro: IPR006780 YABBY pr	100.0
PF09011	73	HMG_box_2: HMG-box domain; InterPro: IPR015101 Thi	98.62
cd01390	66	HMGB-UBF_HMG-box HMGB-UBF_HMG-box, class II and II	98.34
cd00084	66	HMG-box High Mobility Group (HMG)-box is found in	98.24
PF00505	69	HMG_box: HMG (high mobility group) box; InterPro:	98.24
smart00398	70	HMG high mobility group.	98.21
cd01388	72	SOX-TCF_HMG-box SOX-TCF_HMG-box, class I member of	98.21
cd01389	77	MATA_HMG-box MATA_HMG-box, class I member of the H	98.21
PTZ00199	94	high mobility group protein; Provisional	98.18
KOG0381	96	consensus HMG box-containing protein [General func	97.41
PF06244	122	DUF1014: Protein of unknown function (DUF1014); In	96.98
KOG3223	221	consensus Uncharacterized conserved protein [Funct	93.45
COG5648	211	NHP6B Chromatin-associated proteins containing the	82.98

>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-37  Score=245.63  Aligned_cols=66  Identities=76%  Similarity=1.227  Sum_probs=60.3

Q ss_pred             CCCCccccc-ccCCCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCCccccc
Q 032564           46 PTNKATEER-VVNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGL  111 (138)
Q Consensus        46 ~~~~~~~~~-~~~kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~~~~g~  111 (138)
                      ..+.+.++. .++||||||||+|||||+|||+||+|||++||+|+|||||++||+||||+|||||||
T Consensus       104 ~~~~~~pr~~~v~kPPEKRqR~psaYn~f~k~ei~rik~~~p~ishkeaFs~aAknW~h~phihfgl  170 (170)
T PF04690_consen  104 SEEEEIPRAPPVNKPPEKRQRVPSAYNRFMKEEIQRIKAENPDISHKEAFSAAAKNWAHFPHIHFGL  170 (170)
T ss_pred             cccccccccccccCCccccCCCchhHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhCcccccCC
Confidence            344556654 569999999999999999999999999999999999999999999999999999997

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

Probab=98.62  E-value=7.9e-08  Score=64.07  Aligned_cols=46  Identities=35%  Similarity=0.634  Sum_probs=39.0

Q ss_pred             CCCCCCCCchHHHHHHHHHHHHHhh-CCCCCHHHHHHHHHHhhccCC
Q 032564           60 PEKRQRVPSAYNQFIKEEIQRIKAN-NPDISHREAFSTAAKNWAHFP  105 (138)
Q Consensus        60 peK~~R~PSAYN~FmKeEIqRiKa~-nP~isHKEaFs~AAkNWa~~P  105 (138)
                      |.|++|.+|||+.||++.+..++.. .+.+++.|++..++..|+..+
T Consensus         1 p~kpK~~~say~lF~~~~~~~~k~~G~~~~~~~e~~k~~~~~Wk~Ls   47 (73)
T PF09011_consen    1 PKKPKRPPSAYNLFMKEMRKEVKEEGGQKQSFREVMKEISERWKSLS   47 (73)
T ss_dssp             SSS--SSSSHHHHHHHHHHHHHHHHT-T-SSHHHHHHHHHHHHHHS-
T ss_pred             CcCCCCCCCHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHHhcC
Confidence            6788999999999999999999999 889999999999999999854

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=98.34  E-value=1.5e-06  Score=55.03  Aligned_cols=44  Identities=30%  Similarity=0.471  Sum_probs=40.9

Q ss_pred             CCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           63 RQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        63 ~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      ++|.+|+|..||++....+++.+|+++..|+...++..|+..+.
T Consensus         1 Pkrp~saf~~f~~~~r~~~~~~~p~~~~~~i~~~~~~~W~~ls~   44 (66)
T cd01390           1 PKRPLSAYFLFSQEQRPKLKKENPDASVTEVTKILGEKWKELSE   44 (66)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCCH
Confidence            46889999999999999999999999999999999999998653

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=98.24  E-value=3.4e-06  Score=52.74  Aligned_cols=44  Identities=30%  Similarity=0.416  Sum_probs=40.9

Q ss_pred             CCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           63 RQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        63 ~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      ++|.+|+|..|++++...++..+|+++..|+.+.+++.|+..+.
T Consensus         1 pkrp~~af~~f~~~~~~~~~~~~~~~~~~~i~~~~~~~W~~l~~   44 (66)
T cd00084           1 PKRPLSAYFLFSQEHRAEVKAENPGLSVGEISKILGEMWKSLSE   44 (66)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCCH
Confidence            46789999999999999999999999999999999999998654

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

>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=98.24  E-value=2.3e-06  Score=54.75  Aligned_cols=43  Identities=33%  Similarity=0.613  Sum_probs=38.5

Q ss_pred             CCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032564           63 RQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  105 (138)
Q Consensus        63 ~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P  105 (138)
                      ++|.+|+|..|+++....|+++||+++..|+-+.++..|+..+
T Consensus         1 PkrP~~af~lf~~~~~~~~k~~~p~~~~~~i~~~~~~~W~~l~   43 (69)
T PF00505_consen    1 PKRPPNAFMLFCKEKRAKLKEENPDLSNKEISKILAQMWKNLS   43 (69)
T ss_dssp             SSSS--HHHHHHHHHHHHHHHHSTTSTHHHHHHHHHHHHHCSH
T ss_pred             CcCCCCHHHHHHHHHHHHHHHHhcccccccchhhHHHHHhcCC
Confidence            4789999999999999999999999999999999999999854

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=98.21  E-value=3.8e-06  Score=53.03  Aligned_cols=45  Identities=33%  Similarity=0.515  Sum_probs=41.8

Q ss_pred             CCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           62 KRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        62 K~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      +++|.+|+|..|+++....+++.+|+++..|..+.++..|+..+.
T Consensus         1 ~pkrp~~~y~~f~~~~r~~~~~~~~~~~~~~i~~~~~~~W~~l~~   45 (70)
T smart00398        1 KPKRPMSAFMLFSQENRAKIKAENPDLSNAEISKKLGERWKLLSE   45 (70)
T ss_pred             CcCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHcCCH
Confidence            467899999999999999999999999999999999999998654

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

Probab=98.21  E-value=3.6e-06  Score=55.92  Aligned_cols=43  Identities=16%  Similarity=0.297  Sum_probs=40.4

Q ss_pred             CCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           64 QRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        64 ~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      +|.||||..|+++....|+++||+++..|.-+.++..|+..+.
T Consensus         3 KrP~naf~~F~~~~r~~~~~~~p~~~~~eisk~l~~~Wk~ls~   45 (72)
T cd01388           3 KRPMNAFMLFSKRHRRKVLQEYPLKENRAISKILGDRWKALSN   45 (72)
T ss_pred             CCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcCCH
Confidence            6889999999999999999999999999999999999998653

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.

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

Probab=98.21  E-value=3.5e-06  Score=56.47  Aligned_cols=45  Identities=18%  Similarity=0.348  Sum_probs=42.0

Q ss_pred             CCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           62 KRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        62 K~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      +.+|-++||-.|+++....|+++||++++.|.-+.++..|+..+.
T Consensus         1 ~~kRP~naf~lf~~~~r~~~~~~~p~~~~~eisk~~g~~Wk~ls~   45 (77)
T cd01389           1 KIPRPRNAFILYRQDKHAQLKTENPGLTNNEISRIIGRMWRSESP   45 (77)
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCCH
Confidence            457899999999999999999999999999999999999998654

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=98.18  E-value=5e-06  Score=58.83  Aligned_cols=50  Identities=26%  Similarity=0.450  Sum_probs=45.0

Q ss_pred             CCCCCCCCCCCchHHHHHHHHHHHHHhhCCCCC--HHHHHHHHHHhhccCCC
Q 032564           57 NRPPEKRQRVPSAYNQFIKEEIQRIKANNPDIS--HREAFSTAAKNWAHFPH  106 (138)
Q Consensus        57 ~kppeK~~R~PSAYN~FmKeEIqRiKa~nP~is--HKEaFs~AAkNWa~~P~  106 (138)
                      .+.|.+++|.+|||..||++.-..|+++||+++  ..|..+.++..|+..+.
T Consensus        17 ~kdp~~PKrP~sAY~~F~~~~R~~i~~~~P~~~~~~~evsk~ige~Wk~ls~   68 (94)
T PTZ00199         17 KKDPNAPKRALSAYMFFAKEKRAEIIAENPELAKDVAAVGKMVGEAWNKLSE   68 (94)
T ss_pred             CCCCCCCCCCCcHHHHHHHHHHHHHHHHCcCCcccHHHHHHHHHHHHHcCCH
Confidence            456789999999999999999999999999987  68899999999998764

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

Probab=97.41  E-value=0.00047  Score=47.13  Aligned_cols=46  Identities=28%  Similarity=0.441  Sum_probs=42.3

Q ss_pred             CCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           61 EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        61 eK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      ..++|-+|||..|+.+.-.+||++||+++..|.-+.+..+|.....
T Consensus        21 ~~pkrp~sa~~~f~~~~~~~~k~~~p~~~~~~v~k~~g~~W~~l~~   66 (96)
T KOG0381|consen   21 QAPKRPLSAFFLFSSEQRSKIKAENPGLSVGEVAKALGEMWKNLAE   66 (96)
T ss_pred             CCCCCCCcHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCH
Confidence            4678899999999999999999999999999999999999987544

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

Probab=96.98  E-value=0.00093  Score=51.03  Aligned_cols=53  Identities=26%  Similarity=0.518  Sum_probs=47.4

Q ss_pred             ccCCCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCCccc
Q 032564           55 VVNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHF  109 (138)
Q Consensus        55 ~~~kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~~~~  109 (138)
                      .+.+.||||-  --||..|.-.+|.+||++||++.+-.---..=+.|..+|+++|
T Consensus        67 ~~drHPErR~--KAAy~afeE~~Lp~lK~E~PgLrlsQ~kq~l~K~w~KSPeNP~  119 (122)
T PF06244_consen   67 PIDRHPERRM--KAAYKAFEERRLPELKEENPGLRLSQYKQMLWKEWQKSPENPF  119 (122)
T ss_pred             CCCCCcchhH--HHHHHHHHHHHhHHHHhhCCCchHHHHHHHHHHHHhcCCCCCc
Confidence            4556677664  5699999999999999999999999999999999999999998

>KOG3223 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.45  E-value=0.099  Score=43.89  Aligned_cols=52  Identities=31%  Similarity=0.580  Sum_probs=46.8

Q ss_pred             CCCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCCcccc
Q 032564           57 NRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFG  110 (138)
Q Consensus        57 ~kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~~~~g  110 (138)
                      -+-||||=|  -||--|=..++.|||.+||++.|-+-=-+.-+.|...|.++|.
T Consensus       161 drHPEkRmr--AA~~afEe~~LPrLK~e~P~lrlsQ~Kqll~Kew~KsPDNP~N  212 (221)
T KOG3223|consen  161 DRHPEKRMR--AAFKAFEEARLPRLKKENPGLRLSQYKQLLKKEWQKSPDNPFN  212 (221)
T ss_pred             ccChHHHHH--HHHHHHHHhhchhhhhcCCCccHHHHHHHHHHHHhhCCCChhh
Confidence            377888766  4999999999999999999999998888889999999999995

>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]

Probab=82.98  E-value=3  Score=34.99  Aligned_cols=47  Identities=23%  Similarity=0.443  Sum_probs=43.3

Q ss_pred             CCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccC
Q 032564           58 RPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHF  104 (138)
Q Consensus        58 kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~  104 (138)
                      +-|--++|--|||-.|..+.=.+|+..+|+++.-|.=+.+.+.|+..
T Consensus        66 ~dpN~PKRp~sayf~y~~~~R~ei~~~~p~l~~~e~~k~~~e~WK~L  112 (211)
T COG5648          66 KDPNGPKRPLSAYFLYSAENRDEIRKENPKLTFGEVGKLLSEKWKEL  112 (211)
T ss_pred             cCCCCCCCchhHHHHHHHHHHHHHHHhCCCCChHHHHHHHHHHHHhc
Confidence            45667889999999999999999999999999999999999999975

---

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	138
3tmm_A	238	Transcription factor A, mitochondrial; HMG, high m	9e-05

>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 = 39.8 bits (92), Expect = 9e-05
 Identities = 16/74 (21%), Positives = 25/74 (33%)

Query: 32  SSSKCNNKISAMRTPTNKATEERVVNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHR 91
           SS               +       +      ++  S+Y +F KE++   KA NPD    
Sbjct: 11  SSGLVPRGSHMASMTGGQQMGRGSSSVLASCPKKPVSSYLRFSKEQLPIFKAQNPDAKTT 70

Query: 92  EAFSTAAKNWAHFP 105
           E     A+ W   P
Sbjct: 71  ELIRRIAQRWRELP 84

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	138
3nm9_A	73	HMG-D, high mobility group protein D; DNA bending,	98.5
1hme_A	77	High mobility group protein fragment-B; DNA-bindin	98.45
1wz6_A	82	HMG-box transcription factor BBX; bobby SOX homolo	98.4
1wxl_A	73	Single-strand recognition protein; FACT, SSRP1, HM	98.36
2crj_A	92	SWI/SNF-related matrix-associated actin- dependent	98.35
2cs1_A	92	PMS1 protein homolog 1; DNA mismatch repair protei	98.34
1wgf_A	90	Upstream binding factor 1; transcription factor, D	98.33
1hry_A	76	Human SRY; DNA, DNA-binding protein, DNA binding p	98.32
1j46_A	85	SRY, sex-determining region Y protein; MALE sex de	98.3
2co9_A	102	Thymus high mobility group box protein TOX; TOX pr	98.29
2e6o_A	87	HMG box-containing protein 1; HMG-box domain, HMG-	98.28
1ckt_A	71	High mobility group 1 protein; high-mobility group	98.27
2eqz_A	86	High mobility group protein B3; HMG-box domain, mo	98.24
3f27_D	83	Transcription factor SOX-17; protein-DNA complex,	98.24
1i11_A	81	Transcription factor SOX-5; HMG BOX, DNA bending,	98.23
1k99_A	99	Upstream binding factor 1; alpha-helix, L-shape, D	98.23
4a3n_A	71	Transcription factor SOX-17; 2.40A {Homo sapiens}	98.21
1gt0_D	80	Transcription factor SOX-2; POU factors, SOX prote	98.2
4euw_A	106	Transcription factor SOX-9; protein-DNA complex, H	98.18
2gzk_A	159	Sex-determining region on Y / HMGB1; protein-DNA c	98.12
3u2b_C	79	Transcription factor SOX-4; HMG domain, transcript	98.08
1aab_A	83	High mobility group protein; HMG-BOX, DNA-binding;	98.08
2lef_A	86	LEF-1 HMG, protein (lymphoid enhancer-binding fact	98.07
2yrq_A	173	High mobility group protein B1; HMG box domain, DN	98.06
2d7l_A	81	WD repeat and HMG-box DNA binding protein 1; high	98.04
2lhj_A	97	High mobility group protein homolog NHP1; structur	98.02
1cg7_A	93	Protein (NON histone protein 6 A); HMG BOX, DNA be	97.97
2yrq_A	173	High mobility group protein B1; HMG box domain, DN	97.89
3tq6_A	214	Transcription factor A, mitochondrial; transcripti	97.74
3tmm_A	238	Transcription factor A, mitochondrial; HMG, high m	97.68
1l8y_A	91	Upstream binding factor 1; HUBF, HMG box 5, DNA bi	97.63
3fgh_A	67	Transcription factor A, mitochondrial; HMG domain,	97.52
2gzk_A	159	Sex-determining region on Y / HMGB1; protein-DNA c	97.51
1v63_A	101	Nucleolar transcription factor 1; DNA binding, str	97.28
1v64_A	108	Nucleolar transcription factor 1; DNA binding, str	97.01
2yuk_A	90	Myeloid/lymphoid or mixed-lineage leukemia protein	96.92
3tmm_A	238	Transcription factor A, mitochondrial; HMG, high m	96.62
3tq6_A	214	Transcription factor A, mitochondrial; transcripti	96.58
2cto_A	93	Novel protein; high mobility group box domain, hel	95.66

>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=98.50  E-value=2.5e-07  Score=60.39  Aligned_cols=46  Identities=26%  Similarity=0.434  Sum_probs=42.9

Q ss_pred             CCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           61 EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        61 eK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      .+++|.+|||..|+++.-..|+++||+++..|+-+.++..|+..+.
T Consensus         2 ~~PKrP~say~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~   47 (73)
T 3nm9_A            2 DKPKRPLSAYALWLNSARESIKRENPGIKVTEVAKRGGELWRAMKD   47 (73)
T ss_dssp             CCCCCCCCHHHHHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHHCSC
T ss_pred             ccCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcCCc
Confidence            4688999999999999999999999999999999999999998653

>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=98.45  E-value=3.7e-07  Score=59.65  Aligned_cols=49  Identities=24%  Similarity=0.436  Sum_probs=45.0

Q ss_pred             CCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           58 RPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        58 kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      +-|.+++|.+|||..|+++.-..|+++||++++.|..+.++..|+..+.
T Consensus         2 kdp~~pKrP~saf~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~   50 (77)
T 1hme_A            2 KDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAA   50 (77)
T ss_dssp             CCSSCCCCCCCTTHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHSCG
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCCH
Confidence            3577889999999999999999999999999999999999999997543

>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=98.40  E-value=5.2e-07  Score=59.85  Aligned_cols=49  Identities=20%  Similarity=0.304  Sum_probs=45.5

Q ss_pred             CCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           58 RPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        58 kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      .++.+++|.+|||..|+++.-..|+++||++++.|.-+.++..|+..+.
T Consensus         3 ~~~~~pkrP~~af~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~   51 (82)
T 1wz6_A            3 SGSSGARRPMNAFLLFCKRHRSLVRQEHPRLDNRGATKILADWWAVLDP   51 (82)
T ss_dssp             SSCCCSCCCCCHHHHHHHHHHHHHHHHCSSSCTTHHHHHHHHHHHTCCH
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCCH
Confidence            4678899999999999999999999999999999999999999998653

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

Probab=98.36  E-value=8.6e-07  Score=57.82  Aligned_cols=45  Identities=20%  Similarity=0.422  Sum_probs=42.6

Q ss_pred             CCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccC
Q 032564           60 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHF  104 (138)
Q Consensus        60 peK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~  104 (138)
                      |.+++|.+|||..|+++.-..|+++||+++..|.-+.++..|+..
T Consensus         1 P~~pKrP~say~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~l   45 (73)
T 1wxl_A            1 SHMPKRATTAFMLWLNDTRESIKRENPGIKVTEIAKKGGEMWKEL   45 (73)
T ss_dssp             CCCCCCCCCHHHHHHHHHHHHHHHHSTTCCHHHHHHHHHHHHHTC
T ss_pred             CccCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhh
Confidence            567899999999999999999999999999999999999999975

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

Probab=98.35  E-value=1.2e-06  Score=59.61  Aligned_cols=49  Identities=16%  Similarity=0.398  Sum_probs=45.4

Q ss_pred             CCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           58 RPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        58 kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      +-|.+++|.+|||..|+++.-..|+++||+++..|.-+.++..|+..+.
T Consensus         3 kdp~~pKrP~~af~lF~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~   51 (92)
T 2crj_A            3 SGSSGPKAPVTGYVRFLNERREQIRTRHPDLPFPEITKMLGAEWSKLQP   51 (92)
T ss_dssp             CCCSSSCCCCCHHHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHTCCT
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcCCH
Confidence            4578899999999999999999999999999999999999999998654

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

Probab=98.34  E-value=1e-06  Score=60.05  Aligned_cols=48  Identities=17%  Similarity=0.248  Sum_probs=44.6

Q ss_pred             CCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           59 PPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        59 ppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      .|.+++|.+|||..|+++.-..|+++||+++..|.-+.++..|+..+.
T Consensus         4 ~p~~pKrP~say~lF~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~   51 (92)
T 2cs1_A            4 GSSGIKKPMSASALFVQDHRPQFLIENPKTSLEDATLQIEELWKTLSE   51 (92)
T ss_dssp             CCSSSCCCCCHHHHHHHHHHHHHHHHCCSSCHHHHHHHHHHHHHSSCH
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhcCCH
Confidence            567889999999999999999999999999999999999999998654

>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=98.33  E-value=1.6e-06  Score=58.97  Aligned_cols=50  Identities=24%  Similarity=0.380  Sum_probs=45.7

Q ss_pred             CCCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           57 NRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        57 ~kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      .+.|.+++|.+|||..|+++.-..|+++||++++.|.-+.++..|+..+.
T Consensus        15 ~kdp~~pKrP~say~lF~~~~r~~~k~~~P~~~~~eisk~lg~~Wk~ls~   64 (90)
T 1wgf_A           15 KGGSEKPKRPVSAMFIFSEEKRRQLQEERPELSESELTRLLARMWNDLSE   64 (90)
T ss_dssp             SSCCCCCCCCCCHHHHHHHHTHHHHHHHCTTSCHHHHHHHHHHHHHHSCH
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCCH
Confidence            35677889999999999999999999999999999999999999998653

>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=98.32  E-value=8.3e-07  Score=57.82  Aligned_cols=46  Identities=13%  Similarity=0.355  Sum_probs=42.7

Q ss_pred             CCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032564           60 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  105 (138)
Q Consensus        60 peK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P  105 (138)
                      |.+++|-+|||..|+++.-..|+++||+++..|.-+.++..|+..+
T Consensus         2 p~~pkrP~~af~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls   47 (76)
T 1hry_A            2 QDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLT   47 (76)
T ss_dssp             -CCCCCCCCHHHHHHHHHHHHHHHHCSCCSSSHHHHHHHHHHHTCC
T ss_pred             cCCCCCCCCHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHhHHHhCC
Confidence            5678999999999999999999999999999999999999999864

>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=98.30  E-value=1.3e-06  Score=58.51  Aligned_cols=47  Identities=13%  Similarity=0.350  Sum_probs=43.6

Q ss_pred             CCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           60 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        60 peK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      |.+++|.+|||..|+++.-..|+++||++++.|.-+.++..|+..+.
T Consensus         2 p~~pKRP~~af~lf~~~~r~~~~~~~P~~~~~eisk~lg~~Wk~ls~   48 (85)
T 1j46_A            2 QDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTE   48 (85)
T ss_dssp             CCCCCCCCCHHHHHHHHHHHHHHHHSTTSCHHHHHHHHHHHHTTSCH
T ss_pred             cCcCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCH
Confidence            56788999999999999999999999999999999999999998643

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

Probab=98.29  E-value=1.5e-06  Score=60.47  Aligned_cols=50  Identities=26%  Similarity=0.469  Sum_probs=45.7

Q ss_pred             CCCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           57 NRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        57 ~kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      .+.|.+++|.+|||..|+++.-..|+++||+++..|+-+.++..|+..+.
T Consensus        12 ~kdp~~pKrP~say~lF~~~~r~~i~~~~P~~~~~eisk~lg~~Wk~ls~   61 (102)
T 2co9_A           12 KKDPNEPQKPVSAYALFFRDTQAAIKGQNPNATFGEVSKIVASMWDGLGE   61 (102)
T ss_dssp             CCCCCSCCCCCCHHHHTHHHHHHHHHHHCTTSCHHHHHHHHHHHHTTCCH
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHccCCH
Confidence            35677889999999999999999999999999999999999999998654

>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=98.28  E-value=1.2e-06  Score=59.05  Aligned_cols=50  Identities=18%  Similarity=0.265  Sum_probs=45.3

Q ss_pred             CCCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           57 NRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        57 ~kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      .+.|.+++|.++||..|+++.-..|++++|++++.|.-+.++..|+..+.
T Consensus        12 ~kdp~~pKrP~~af~lf~~~~r~~~~~~~P~~~~~eisk~lg~~Wk~ls~   61 (87)
T 2e6o_A           12 ATSPNKCKRPMNAFMLFAKKYRVEYTQMYPGKDNRAISVILGDRWKKMKN   61 (87)
T ss_dssp             CCCCSSCCCCCCHHHHHHHHTHHHHHHHCTTSCHHHHHHHHHHHHHHSCH
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCCH
Confidence            34567889999999999999999999999999999999999999997543

>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=98.27  E-value=1.6e-06  Score=55.64  Aligned_cols=44  Identities=23%  Similarity=0.354  Sum_probs=40.8

Q ss_pred             CCCCCCchHHHHHHHHHHHHHhhCCCCCH--HHHHHHHHHhhccCC
Q 032564           62 KRQRVPSAYNQFIKEEIQRIKANNPDISH--REAFSTAAKNWAHFP  105 (138)
Q Consensus        62 K~~R~PSAYN~FmKeEIqRiKa~nP~isH--KEaFs~AAkNWa~~P  105 (138)
                      |++|.+|||..|+++.-..|+++||+++.  .|.-+.++..|+..+
T Consensus         1 kPKrP~say~~F~~~~r~~~~~~~p~~~~~~~eisk~lg~~Wk~ls   46 (71)
T 1ckt_A            1 KPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMS   46 (71)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHHHHCTTCCCCHHHHHHHHHHHHHTCC
T ss_pred             CcCCCCCHHHHHHHHHHHHHHHHCCCCCCcHHHHHHHHHHHHhhCC
Confidence            57899999999999999999999999976  999999999998754

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

Probab=98.24  E-value=2.8e-06  Score=57.01  Aligned_cols=48  Identities=23%  Similarity=0.412  Sum_probs=43.5

Q ss_pred             CCCCCCCCCCchHHHHHHHHHHHHHhhCCCCC--HHHHHHHHHHhhccCC
Q 032564           58 RPPEKRQRVPSAYNQFIKEEIQRIKANNPDIS--HREAFSTAAKNWAHFP  105 (138)
Q Consensus        58 kppeK~~R~PSAYN~FmKeEIqRiKa~nP~is--HKEaFs~AAkNWa~~P  105 (138)
                      +-|.+++|.+|||..|+++.-..|+++||+++  ..|.-+.++..|+..+
T Consensus        11 kdp~~PKrP~say~lF~~~~r~~~k~~~p~~~~~~~eisk~lg~~Wk~ls   60 (86)
T 2eqz_A           11 GDPKKPKGKMSAYAFFVQTCREEHKKKNPEVPVNFAEFSKKCSERWKTMS   60 (86)
T ss_dssp             CCSSSCCCCCCHHHHHHHHHHHHHHHHCTTSCCCHHHHHHHHHHHHHSSC
T ss_pred             CCCCCCCCCCcHHHHHHHHHHHHHHHHCCCCCCcHHHHHHHHHHHHHhCC
Confidence            45677899999999999999999999999997  4999999999999854

>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=98.24  E-value=1.9e-06  Score=56.93  Aligned_cols=46  Identities=24%  Similarity=0.459  Sum_probs=41.1

Q ss_pred             CCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032564           60 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  105 (138)
Q Consensus        60 peK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P  105 (138)
                      +.+.+|.+|||..|+++.-..|++++|++++.|.-+.++..|+..+
T Consensus         4 ~~~pKrP~~af~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls   49 (83)
T 3f27_D            4 TSRIRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGKSWKALT   49 (83)
T ss_dssp             ---CCCCCCHHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHSC
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhcCC
Confidence            5678899999999999999999999999999999999999998754

>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=98.23  E-value=2.5e-06  Score=56.38  Aligned_cols=46  Identities=17%  Similarity=0.326  Sum_probs=42.8

Q ss_pred             CCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           61 EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        61 eK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      .+.+|.+|||..|+++.-..|++++|++++.|.-+.++..|+..+.
T Consensus         3 ~~pkRP~naf~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~   48 (81)
T 1i11_A            3 PHIKRPMNAFMVWAKDERRKILQAFPDMHNSNISKILGSRWKAMTN   48 (81)
T ss_dssp             CCSCCSCCHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHHHTTSCS
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHhhhhhCCH
Confidence            4678999999999999999999999999999999999999998653

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

Probab=98.23  E-value=1.8e-06  Score=60.06  Aligned_cols=49  Identities=16%  Similarity=0.374  Sum_probs=45.4

Q ss_pred             CCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           58 RPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        58 kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      +.|.+++|.+|||..|+++.-..|+++||+++..|.-+.++..|+..+.
T Consensus         6 kdp~~PKRP~saf~lF~~~~r~~ik~~~P~~~~~eisk~lg~~Wk~ls~   54 (99)
T 1k99_A            6 KHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMSNLDLTKILSKKYKELPE   54 (99)
T ss_dssp             SSSSSCCCSCCHHHHHHHHHHHHHHTTCTTSCSHHHHHHHHHHHHHSCS
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCCH
Confidence            4677889999999999999999999999999999999999999998654

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

Probab=98.21  E-value=2.1e-06  Score=54.75  Aligned_cols=44  Identities=25%  Similarity=0.458  Sum_probs=39.2

Q ss_pred             CCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032564           62 KRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  105 (138)
Q Consensus        62 K~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P  105 (138)
                      |.+|.+|||..|+++.-..|++++|++++.|.-+.++..|+..+
T Consensus         2 k~krP~~af~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls   45 (71)
T 4a3n_A            2 SIRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGKSWKALT   45 (71)
T ss_dssp             ---CCCCHHHHHHHHHHHHHHTTCTTSCHHHHHHHHHHHHHHSC
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhcCC
Confidence            56889999999999999999999999999999999999998754

>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=98.20  E-value=3.1e-06  Score=55.70  Aligned_cols=46  Identities=13%  Similarity=0.361  Sum_probs=42.5

Q ss_pred             CCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           61 EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        61 eK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      ++++|.+|||..|+++.-..|++++|+++..|.-+.++..|+..+.
T Consensus         1 ~~pkrP~~af~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~   46 (80)
T 1gt0_D            1 DRVKRPMNAFMVWSRGQRRKMAQENPKMHNSEISKRLGAEWKLLSE   46 (80)
T ss_dssp             CCCCCCCCHHHHHHHHHHHHHHTTSTTSCHHHHHHHHHHHHTTSCH
T ss_pred             CcCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCCH
Confidence            3678999999999999999999999999999999999999997653

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

Probab=98.18  E-value=3.4e-06  Score=59.23  Aligned_cols=50  Identities=14%  Similarity=0.272  Sum_probs=43.5

Q ss_pred             CCCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           57 NRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        57 ~kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      .+.+.+++|.++||..|+++.-..|++++|++++.|.-+.++..|+..+.
T Consensus        24 ~k~~~~pKRP~naf~lF~~~~r~~~k~~~P~~~~~eisk~lg~~Wk~ls~   73 (106)
T 4euw_A           24 SKNKPHVKRPMNAFMVWAQAARRKLADQYPHLHNAELSKTLGKLWRLLNE   73 (106)
T ss_dssp             ----CCCCCCCCHHHHHHHHHHHHHHHHCTTSCHHHHHHHHHHHHTTCCH
T ss_pred             cCCCCcCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcCCH
Confidence            45678899999999999999999999999999999999999999988653

>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=98.12  E-value=5.5e-06  Score=60.39  Aligned_cols=49  Identities=24%  Similarity=0.420  Sum_probs=44.9

Q ss_pred             CCCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032564           57 NRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  105 (138)
Q Consensus        57 ~kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P  105 (138)
                      .+.|.+++|.+|||..||++.-..|+++||+++..|..+.++..|+..+
T Consensus        83 ~kdp~~pKrp~say~lf~~~~r~~~~~~~p~~~~~ei~k~lg~~Wk~ls  131 (159)
T 2gzk_A           83 FKDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTA  131 (159)
T ss_dssp             SCCTTCCCCCCCHHHHHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHHSC
T ss_pred             ccccccccccccccchhhHhhHHHHHHhCCCCCHHHHHHHHHHHHHhCC
Confidence            3456778999999999999999999999999999999999999999754

>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=98.08  E-value=6.2e-06  Score=53.82  Aligned_cols=44  Identities=20%  Similarity=0.352  Sum_probs=41.1

Q ss_pred             CCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032564           62 KRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  105 (138)
Q Consensus        62 K~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P  105 (138)
                      +.+|-+|||..|+++.-..|++++|++++.|.-+.++..|+..+
T Consensus         2 ~iKRP~naf~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls   45 (79)
T 3u2b_C            2 HIKRPMNAFMVWSQIERRKIMEQSPDMHNAEISKRLGKRWKLLK   45 (79)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHHTTSTTSCHHHHHHHHHHHHHHSC
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCC
Confidence            46789999999999999999999999999999999999999754

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

Probab=98.08  E-value=2.5e-06  Score=56.62  Aligned_cols=49  Identities=22%  Similarity=0.382  Sum_probs=43.9

Q ss_pred             CCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCH--HHHHHHHHHhhccCCC
Q 032564           58 RPPEKRQRVPSAYNQFIKEEIQRIKANNPDISH--REAFSTAAKNWAHFPH  106 (138)
Q Consensus        58 kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isH--KEaFs~AAkNWa~~P~  106 (138)
                      +-|.+++|.+|||..|+++.-..|+++||+++.  .|.-+.++..|+..+.
T Consensus         3 kdp~~PKrP~say~lF~~~~r~~~~~~~p~~~~~~~eisk~lg~~Wk~ls~   53 (83)
T 1aab_A            3 GDPKKPRGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSA   53 (83)
T ss_dssp             CCTTCCCCCCCHHHHHHHHHHHHHTTSCTTTCCCSSSSHHHHHHHHTTSCT
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCcHHHHHHHHHHHHHhCCH
Confidence            357788999999999999999999999999975  9999999999997543

>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=98.07  E-value=7e-06  Score=54.94  Aligned_cols=45  Identities=11%  Similarity=0.192  Sum_probs=41.9

Q ss_pred             CCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           62 KRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        62 K~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      +.+|.+|||..|+++.-..|+++||++++.|.-+.++..|+..+.
T Consensus         2 ~pKRP~naf~lf~~~~r~~~~~~~P~~~~~eisk~lg~~Wk~ls~   46 (86)
T 2lef_A            2 HIKKPLNAFMLYMKEMRANVVAESTLKESAAINQILGRRWHALSR   46 (86)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHTTSCH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhcCCH
Confidence            568899999999999999999999999999999999999997653

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

Probab=98.06  E-value=7.5e-06  Score=60.71  Aligned_cols=49  Identities=24%  Similarity=0.436  Sum_probs=44.8

Q ss_pred             CCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           58 RPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        58 kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      +-|.+++|.+|||..|+++....|+++||+++..|..+.++..|+..+.
T Consensus        97 kdp~~pKrP~saf~lf~~~~r~~~~~~~p~~~~~ei~k~lg~~Wk~ls~  145 (173)
T 2yrq_A           97 KDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAA  145 (173)
T ss_dssp             CCSSSCCCCCCHHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHSCG
T ss_pred             cCCccccCcccHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCCH
Confidence            3567788999999999999999999999999999999999999998653

>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=98.04  E-value=1.1e-05  Score=54.92  Aligned_cols=47  Identities=15%  Similarity=0.328  Sum_probs=43.2

Q ss_pred             CCCCCCCCchHHHHHHHHHHHHHhhCCCCC-HHHHHHHHHHhhccCCC
Q 032564           60 PEKRQRVPSAYNQFIKEEIQRIKANNPDIS-HREAFSTAAKNWAHFPH  106 (138)
Q Consensus        60 peK~~R~PSAYN~FmKeEIqRiKa~nP~is-HKEaFs~AAkNWa~~P~  106 (138)
                      +.+++|.+|||..|+++.-..|+.+||+++ ..|.-+.++..|+..+.
T Consensus         3 ~~~PKRP~say~lF~~e~R~~ik~~~P~~~~~~eisK~lge~Wk~ls~   50 (81)
T 2d7l_A            3 SGSSGRPKTGFQMWLEENRSNILSDNPDFSDEADIIKEGMIRFRVLST   50 (81)
T ss_dssp             CCCSSCCCCHHHHHHHHHHHHHHHHCTTCCSHHHHHHHHHHHHSSSCH
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHHcCCH
Confidence            456789999999999999999999999998 99999999999998654

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

Probab=98.02  E-value=2.3e-06  Score=58.70  Aligned_cols=51  Identities=25%  Similarity=0.402  Sum_probs=46.1

Q ss_pred             cCCCCCCCCCCCchHHHHHHHHHHHHHhhCCCCC--HHHHHHHHHHhhccCCC
Q 032564           56 VNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDIS--HREAFSTAAKNWAHFPH  106 (138)
Q Consensus        56 ~~kppeK~~R~PSAYN~FmKeEIqRiKa~nP~is--HKEaFs~AAkNWa~~P~  106 (138)
                      ..+.|.+++|.+|||..|+++.-..|+++||+++  ..|.-+.++..|+..+.
T Consensus        16 ~~kdp~~pKrP~say~lF~~~~r~~~k~~~p~~~~~~~eisk~lg~~Wk~ls~   68 (97)
T 2lhj_A           16 AKKDPNAPKRALSSYMFFAKEKRVEIIAENPEIAKDVAAIGKMIGAAWNALSD   68 (97)
T ss_dssp             TTSCCCCCCCCCCSSTHHHHGGGGGHHHHCTTSTTCSSHHHHHHHHTSSSSCS
T ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCccHHHHHHHHHHHHHhCCH
Confidence            3456788899999999999999999999999999  99999999999998543

>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=97.97  E-value=1.8e-06  Score=59.04  Aligned_cols=49  Identities=24%  Similarity=0.482  Sum_probs=45.0

Q ss_pred             CCCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032564           57 NRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  105 (138)
Q Consensus        57 ~kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P  105 (138)
                      .+.|.+++|.+|||..|+++.-..|+++||+++..|.-+.++..|+..+
T Consensus        15 ~kdp~~pKrP~saf~lF~~~~r~~~~~~~P~~~~~eisk~lg~~Wk~ls   63 (93)
T 1cg7_A           15 KKDPNAPKRALSAYMFFANENRDIVRSENPDITFGQVGKKLGEKWKALT   63 (93)
T ss_dssp             CCCSSCCCSCCCHHHHHHHHHTSTTTTTCTTSCHHHHTTTHHHHHHTTH
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCC
Confidence            3567788999999999999999999999999999999999999999754

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

Probab=97.89  E-value=2.4e-05  Score=57.95  Aligned_cols=49  Identities=20%  Similarity=0.391  Sum_probs=44.6

Q ss_pred             CCCCCCCCCCchHHHHHHHHHHHHHhhCCC--CCHHHHHHHHHHhhccCCC
Q 032564           58 RPPEKRQRVPSAYNQFIKEEIQRIKANNPD--ISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        58 kppeK~~R~PSAYN~FmKeEIqRiKa~nP~--isHKEaFs~AAkNWa~~P~  106 (138)
                      +.|.+++|.+|||..||++....|++.||+  ++..|+.+.++..|+..+.
T Consensus        11 ~dp~~PKrp~say~lF~~~~r~~~k~~~p~~~~~~~eisk~lg~~Wk~ls~   61 (173)
T 2yrq_A           11 GDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSA   61 (173)
T ss_dssp             CCSSSCCCCCCHHHHHHHHHHHHHHHHCTTCCCCHHHHHHHHHHHHHHSCH
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHhCCH
Confidence            457788999999999999999999999999  6899999999999987654

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

Probab=97.74  E-value=2.7e-05  Score=60.55  Aligned_cols=47  Identities=30%  Similarity=0.522  Sum_probs=43.7

Q ss_pred             CCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           60 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        60 peK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      |.+++|.+|||..||++....|+++||+++..|+.+.++..|+..+.
T Consensus         7 p~~PKrP~say~lF~~~~r~~~k~~~P~~~~~eisk~lge~Wk~Ls~   53 (214)
T 3tq6_A            7 ASCPKKPVSSYLRFSKEQLPIFKAQNPDAKTTELIRRIAQRWRELPD   53 (214)
T ss_dssp             HHSCCCCCCHHHHHHHHHHHHHHHHCTTSCHHHHHHHHHHHHHHSCH
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHccCH
Confidence            56788999999999999999999999999999999999999998654

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

Probab=97.68  E-value=3.6e-05  Score=60.69  Aligned_cols=50  Identities=28%  Similarity=0.468  Sum_probs=45.0

Q ss_pred             CCCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           57 NRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        57 ~kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      .+-|.+++|.+|||..||++....|+++||+++..|+.+.++..|+..+.
T Consensus        36 ~~~p~~PKrP~say~lF~~e~r~~~k~~~P~~~~~eisk~lge~Wk~Ls~   85 (238)
T 3tmm_A           36 SVLASCPKKPVSSYLRFSKEQLPIFKAQNPDAKTTELIRRIAQRWRELPD   85 (238)
T ss_dssp             CHHHHSCCCCCCHHHHHHHHHHHHHHHHSTTSCHHHHHHHHHHHHHHSCH
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhCCH
Confidence            33467889999999999999999999999999999999999999998643

>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=97.63  E-value=9.4e-05  Score=52.53  Aligned_cols=44  Identities=11%  Similarity=0.142  Sum_probs=41.1

Q ss_pred             CCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032564           61 EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  105 (138)
Q Consensus        61 eK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P  105 (138)
                      .|++|.+|||+.||.+....+++.+|+ +..|+-+.++..|+...
T Consensus         3 ~kPKrP~SAy~lf~~~~r~~~k~~~p~-~~~evsK~lGe~Wk~ls   46 (91)
T 1l8y_A            3 KLPESPKRAEEIWQQSVIGDYLARFKN-DRVKALKAMEMTWNNME   46 (91)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHHHHHTTS-THHHHHHHHHHHHHTTG
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHhcCC
Confidence            478899999999999999999999999 99999999999999854

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

Probab=97.52  E-value=7.4e-05  Score=47.68  Aligned_cols=40  Identities=35%  Similarity=0.679  Sum_probs=36.4

Q ss_pred             CCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032564           62 KRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  105 (138)
Q Consensus        62 K~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P  105 (138)
                      +++|.+|||..||++.-..|+..+|    .|..+.++..|+..+
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            5789999999999999999999887    599999999999854

>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=97.51  E-value=0.00018  Score=52.35  Aligned_cols=47  Identities=13%  Similarity=0.350  Sum_probs=43.8

Q ss_pred             CCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           60 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        60 peK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      |.+.+|-++||-.|++++-.+|+..||+++..|+.+.++..|+..+.
T Consensus         2 ~~~~Krp~~af~~~~~~~~~ki~~~~P~~~~~eisk~lg~~Wk~ls~   48 (159)
T 2gzk_A            2 QDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTE   48 (159)
T ss_dssp             TTCCCCCCCHHHHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHSCH
T ss_pred             cCCCCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhhH
Confidence            57888999999999999999999999999999999999999997654

>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=97.28  E-value=0.00035  Score=48.74  Aligned_cols=46  Identities=11%  Similarity=0.320  Sum_probs=37.0

Q ss_pred             CCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           59 PPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        59 ppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      -+.+++|.+|||..||++.+.  ...+++++..|+.+.++..|+..+.
T Consensus         5 ~~~~PKrP~say~lF~~e~~~--~p~~~~~~~~eisK~lge~Wk~ls~   50 (101)
T 1v63_A            5 SSGPKKPPMNGYQKFSQELLS--NGELNHLPLKERMVEIGSRWQRISQ   50 (101)
T ss_dssp             CCSSCCCCSSSHHHHHHHHHH--HCTTTTSCHHHHHHHHHHHHTTSCH
T ss_pred             CCCCCCCCCCHHHHHHHHHHh--CCCCCCCCHHHHHHHHHHHHHhCCH
Confidence            356678889999999999954  3345568889999999999998654

>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=97.01  E-value=0.00074  Score=47.70  Aligned_cols=45  Identities=16%  Similarity=0.422  Sum_probs=39.3

Q ss_pred             CCCCCC-CCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           58 RPPEKR-QRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        58 kppeK~-~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      +-+.++ +|.+|||..||++.-..|+    +++..|..+.++..|+..+.
T Consensus        12 kd~~~P~KrP~say~lF~~e~r~~~k----~~~~~eisk~lg~~Wk~Ls~   57 (108)
T 1v64_A           12 KFDGRPTKPPPNSYSLYCAELMANMK----DVPSTERMVLCSQQWKLLSQ   57 (108)
T ss_dssp             CTTTSCCCCCSSHHHHHHHHHHHHCT----TSCHHHHHHHHHHHHHHSCH
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHh----CCCHHHHHHHHHHHHHhCCH
Confidence            445566 8899999999999999888    89999999999999998654

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

Probab=96.92  E-value=0.00015  Score=51.11  Aligned_cols=44  Identities=16%  Similarity=0.192  Sum_probs=36.1

Q ss_pred             CCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032564           60 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  105 (138)
Q Consensus        60 peK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P  105 (138)
                      |..++|.||||-.||.++-..||++||+++  +.|..+++.|+..+
T Consensus        20 pnaPKRp~sAf~lf~~e~R~kik~enP~~s--~~~~eIse~Wk~ls   63 (90)
T 2yuk_A           20 EALGEMATVAPVLYTNINFPNLKEEFPDWT--TRVKQIAKLWRKAS   63 (90)
T ss_dssp             HHHGGGCSSSHHHHHHHHCTTHHHHCCSHH--HHHHHHHHHHHHSC
T ss_pred             CCCCCCCccHHHHHHHHhHHHHHHHCcCcc--chHHHHHHHHHcCC
Confidence            345688999999999999999999999995  34555669998754

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

Probab=96.62  E-value=0.00045  Score=54.42  Aligned_cols=44  Identities=32%  Similarity=0.575  Sum_probs=38.6

Q ss_pred             CCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           59 PPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        59 ppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      .|.+++|.+|||..||++....|+.++|+    |+.+.++..|+..+.
T Consensus       143 dp~~PKrP~say~lF~~e~r~~~k~~~p~----ei~k~lg~~Wk~ls~  186 (238)
T 3tmm_A          143 LLGKPKRPRSAYNVYVAERFQEAKGDSPQ----EKLKTVKENWKNLSD  186 (238)
T ss_dssp             HTTCCCCCCCHHHHHHHHHTTTSCCSSHH----HHHHHHHHHHHTCCT
T ss_pred             ccCCCCCCCcHHHHHHHHHHHHHhccCHH----HHHHHHHHHHHhCCH
Confidence            35678999999999999999999988876    999999999998643

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

Probab=96.58  E-value=0.00049  Score=53.45  Aligned_cols=44  Identities=32%  Similarity=0.575  Sum_probs=38.7

Q ss_pred             CCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           59 PPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        59 ppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      .|.+++|.+|||..||++....|+.++|+    |+.+.++..|+..+.
T Consensus       111 dp~~PKrP~say~lF~~e~r~~~k~~~p~----ei~k~lg~~Wk~ls~  154 (214)
T 3tq6_A          111 LLGKPKRPRSAYNVYVAERFQEAKGDSPQ----EKLKTVKENWKNLSD  154 (214)
T ss_dssp             HTTCCCCCCCHHHHHHHHHTTTSSCSSHH----HHHHHHHHHHHTCCH
T ss_pred             cccCcccccchhhhhHHHHHHhhccCCHH----HHHHHHHHHHHcCCH
Confidence            46678899999999999999999988876    999999999998653

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

Probab=95.66  E-value=0.0054  Score=43.04  Aligned_cols=44  Identities=18%  Similarity=0.402  Sum_probs=38.2

Q ss_pred             CCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHH---HHhhccCC
Q 032564           60 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTA---AKNWAHFP  105 (138)
Q Consensus        60 peK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~A---AkNWa~~P  105 (138)
                      +.+++|.+|||..||++.-.+||.+  +++..|.=+.+   +..|+...
T Consensus         8 ~~~PKRP~sAf~lF~~e~R~~ik~e--~~~~~eisK~l~~cGe~Wk~ls   54 (93)
T 2cto_A            8 MPNRKASRNAYYFFVQEKIPELRRR--GLPVARVADAIPYCSSDWALLR   54 (93)
T ss_dssp             CCCCCSSCCHHHHHHHTTHHHHHHH--TCCCSSHHHHTGGGHHHHHHSC
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHHHHcCC
Confidence            3457889999999999999999998  78889988888   99998753

---

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	138
d1lwma_	93	a.21.1.1 (A:) NHP6a {Baker's yeast (Saccharomyces	0.004

>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 = 32.6 bits (74), Expect = 0.004
 Identities = 15/59 (25%), Positives = 23/59 (38%)

Query: 43  MRTPTNKATEERVVNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNW 101
           M TP           + P   +R  SAY  F  E    +++ NPDI+  +      + W
Sbjct: 1   MVTPREPKKRTTRKKKDPNAPKRALSAYMFFANENRDIVRSENPDITFGQVGKKLGEKW 59

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	138
d1wgfa_	90	Nucleolar transcription factor 1 (Upstream binding	98.55
d1lwma_	93	NHP6a {Baker's yeast (Saccharomyces cerevisiae) [T	98.49
d1k99a_	91	Nucleolar transcription factor 1 (Upstream binding	98.47
d1qrva_	73	HMG-D {Drosophila melanogaster [TaxId: 7227]}	98.43
d1hsma_	79	High mobility group protein 1, HMG1 {Hamster (Cric	98.41
d1ckta_	71	High mobility group protein 1, HMG1 {Rat (Rattus n	98.32
d1gt0d_	80	Sox-2 {Mouse (Mus musculus) [TaxId: 10090]}	98.19
d1j46a_	85	SRY {Human (Homo sapiens) [TaxId: 9606]}	98.18
d1i11a_	70	Sox-5 {Mouse (Mus musculus) [TaxId: 10090]}	97.94
d2lefa_	86	Lymphoid enhancer-binding factor, LEF1 {Mouse (Mus	97.79
d1v64a_	108	Nucleolar transcription factor 1 (Upstream binding	97.43
d1v63a_	101	Nucleolar transcription factor 1 (Upstream binding	97.31

>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=98.55  E-value=8.2e-08  Score=63.45  Aligned_cols=49  Identities=24%  Similarity=0.382  Sum_probs=44.6

Q ss_pred             CCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           58 RPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        58 kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      +.+.+++|.+|+|..||++..++|+++||++++.|+.+.++..|+..+.
T Consensus        16 ~~~~~PKrP~say~lF~~e~r~~~~~~~p~~~~~ei~k~l~~~W~~Ls~   64 (90)
T d1wgfa_          16 GGSEKPKRPVSAMFIFSEEKRRQLQEERPELSESELTRLLARMWNDLSE   64 (90)
T ss_dssp             SCCCCCCCCCCHHHHHHHHTHHHHHHHCTTSCHHHHHHHHHHHHHHSCH
T ss_pred             CCCCCCCCCCcHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhCCH
Confidence            4566778899999999999999999999999999999999999998654

>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=98.49  E-value=2.2e-07  Score=62.21  Aligned_cols=51  Identities=24%  Similarity=0.445  Sum_probs=46.6

Q ss_pred             cCCCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           56 VNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        56 ~~kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      ..+.|.+++|-+|||..||++....|++.+|++++.|+.+.++..|+..++
T Consensus        14 ~~k~p~~PKrP~saf~lF~~e~r~~ik~~~p~~~~~ei~k~l~~~W~~ls~   64 (93)
T d1lwma_          14 KKKDPNAPKRALSAYMFFANENRDIVRSENPDITFGQVGKKLGEKWKALTP   64 (93)
T ss_dssp             CCCCSSCCCCCCCHHHHHHHHHHHHHHHHCTTSCHHHHHHHHHHHHHTSCH
T ss_pred             CCCCcCCCCCCCCHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhCCH
Confidence            445678889999999999999999999999999999999999999998654

>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=98.47  E-value=1.2e-07  Score=62.67  Aligned_cols=50  Identities=16%  Similarity=0.372  Sum_probs=46.2

Q ss_pred             CCCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           57 NRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        57 ~kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      .+.|.+++|.+|+|..||++....|++.+|+++..|+.+.++..|+..+.
T Consensus         5 kk~p~~PKrP~say~lf~~~~r~~~~~~~p~~~~~ev~k~l~~~W~~ls~   54 (91)
T d1k99a_           5 KKHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMSNLDLTKILSKKYKELPE   54 (91)
T ss_dssp             CSSSSSCCCSCCHHHHHHHHHHHHHHTTCTTSCSHHHHHHHHHHHHHSCS
T ss_pred             CCCCCCCCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHhHhcCCCH
Confidence            45688889999999999999999999999999999999999999998654

>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=98.43  E-value=2.2e-07  Score=59.67  Aligned_cols=43  Identities=28%  Similarity=0.438  Sum_probs=40.6

Q ss_pred             CCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhcc
Q 032564           61 EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAH  103 (138)
Q Consensus        61 eK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~  103 (138)
                      .+++|-+|||..||++.-+.|+++||++++.|+-+.++..|+.
T Consensus         2 n~PKrP~say~lf~~~~r~~~k~~~p~~~~~eisk~l~~~Wk~   44 (73)
T d1qrva_           2 DKPKRPLSAYMLWLNSARESIKRENPGIKVTEVAKRGGELWRA   44 (73)
T ss_dssp             CSCCCCCCHHHHHHHHHHHHHHHTSTTCCHHHHHHHHHHHHHH
T ss_pred             ccCCCCCcHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHhcC
Confidence            4678899999999999999999999999999999999999984

>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=98.41  E-value=1.2e-07  Score=61.40  Aligned_cols=44  Identities=25%  Similarity=0.409  Sum_probs=41.0

Q ss_pred             CCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           63 RQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        63 ~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      ++|.+|||..||++....|+++||++++.|+.+.++..|+..+.
T Consensus         3 PKrP~say~~f~~~~r~~i~~~~p~~~~~ei~k~~~~~W~~ls~   46 (79)
T d1hsma_           3 PKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAA   46 (79)
T ss_dssp             CCCCCCSHHHHHHHHHHHHHHHCTTCCTTTHHHHHHHHHHTSCS
T ss_pred             CCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhHHhcCCH
Confidence            46789999999999999999999999999999999999998654

>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=98.32  E-value=6.4e-07  Score=56.75  Aligned_cols=45  Identities=20%  Similarity=0.373  Sum_probs=40.9

Q ss_pred             CCCCCCchHHHHHHHHHHHHHhhCCC--CCHHHHHHHHHHhhccCCC
Q 032564           62 KRQRVPSAYNQFIKEEIQRIKANNPD--ISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        62 K~~R~PSAYN~FmKeEIqRiKa~nP~--isHKEaFs~AAkNWa~~P~  106 (138)
                      |++|.+|||..||++.-..|++.||+  +++.|+.+.++..|+..+.
T Consensus         1 KPKrP~say~~f~~~~r~~~k~~~p~~~~~~~ei~k~~~~~Wk~ls~   47 (71)
T d1ckta_           1 KPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSA   47 (71)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHHHHCTTCCCCHHHHHHHHHHHHHTCCT
T ss_pred             CcCCCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHcCCCH
Confidence            57899999999999999999999996  6678999999999998654

>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=98.19  E-value=1.5e-06  Score=57.24  Aligned_cols=46  Identities=13%  Similarity=0.361  Sum_probs=43.0

Q ss_pred             CCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           61 EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        61 eK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      +|.+|.+|||-+|+++.-.+|+++||++++.|.=+.++..|+..+.
T Consensus         1 ~kiKRP~nAy~lF~~~~r~~~~~~~p~~~~~eisk~~g~~W~~l~~   46 (80)
T d1gt0d_           1 DRVKRPMNAFMVWSRGQRRKMAQENPKMHNSEISKRLGAEWKLLSE   46 (80)
T ss_dssp             CCCCCCCCHHHHHHHHHHHHHHTTSTTSCHHHHHHHHHHHHTTSCH
T ss_pred             CCCCCCCcHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHCcCCH
Confidence            4788999999999999999999999999999999999999998653

>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=98.18  E-value=1.5e-06  Score=57.33  Aligned_cols=46  Identities=13%  Similarity=0.359  Sum_probs=42.9

Q ss_pred             CCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           61 EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        61 eK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      ++.+|.+|||..|+++.-..|+++||++++.|+=+.++..|+..+.
T Consensus         3 ~~iKRP~nay~lF~~~~r~~i~~~~p~~~~~eisk~ig~~W~~L~~   48 (85)
T d1j46a_           3 DRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTE   48 (85)
T ss_dssp             CCCCCCCCHHHHHHHHHHHHHHHHSTTSCHHHHHHHHHHHHTTSCH
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHhcCCH
Confidence            4678999999999999999999999999999999999999998654

>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=97.94  E-value=9.5e-06  Score=51.64  Aligned_cols=44  Identities=18%  Similarity=0.340  Sum_probs=40.8

Q ss_pred             CCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           63 RQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        63 ~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      -+|-+|||-.|+++.-++|++++|++++.|+-+.++..|+..++
T Consensus         3 iKRP~nay~lf~~~~r~~i~~~~p~~~~~eisk~lg~~Wk~ls~   46 (70)
T d1i11a_           3 IKRPMNAFMVWAKDERRKILQAFPDMHNSNISKILGSRWKAMTN   46 (70)
T ss_dssp             SCCSCCHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHHHTTSCS
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCH
Confidence            46789999999999999999999999999999999999998654

>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=97.79  E-value=2.2e-05  Score=51.68  Aligned_cols=43  Identities=12%  Similarity=0.214  Sum_probs=39.8

Q ss_pred             CCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           64 QRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        64 ~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      +|-++||-.|+++.-+.|+++||++++.|+=+.++..|+..+.
T Consensus         4 kRP~naf~lF~~~~r~~~~~~~P~~~~~~Isk~lg~~Wk~ls~   46 (86)
T d2lefa_           4 KKPLNAFMLYMKEMRANVVAESTLKESAAINQILGRRWHALSR   46 (86)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHTTSCH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCCH
Confidence            4678999999999999999999999999999999999998654

>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=97.43  E-value=7.1e-05  Score=50.70  Aligned_cols=40  Identities=18%  Similarity=0.438  Sum_probs=33.7

Q ss_pred             CCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           63 RQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        63 ~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      ++|.+|||..||++..+    ..|+++.+|+++.++..|+..+.
T Consensus        18 ~K~P~~ay~lF~~~~r~----~~~~~~~~e~~k~ig~~W~~Ls~   57 (108)
T d1v64a_          18 TKPPPNSYSLYCAELMA----NMKDVPSTERMVLCSQQWKLLSQ   57 (108)
T ss_dssp             CCCCSSHHHHHHHHHHH----HCTTSCHHHHHHHHHHHHHHSCH
T ss_pred             CCCCCcHHHHHHHHHHH----HccCCCHHHHHHHHHHHHccCCH
Confidence            44557999999998654    56899999999999999998664

>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=97.31  E-value=9.7e-05  Score=48.96  Aligned_cols=42  Identities=14%  Similarity=0.371  Sum_probs=36.0

Q ss_pred             CCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564           63 RQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  106 (138)
Q Consensus        63 ~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~  106 (138)
                      ++|-+|+|..||++.++.|+..+  ++..|+-+.++..|+..+.
T Consensus         9 ~KrP~~ay~~F~~e~r~~~~~~~--~~~~ei~k~~g~~Wk~ls~   50 (101)
T d1v63a_           9 KKPPMNGYQKFSQELLSNGELNH--LPLKERMVEIGSRWQRISQ   50 (101)
T ss_dssp             CCCCSSSHHHHHHHHHHHCTTTT--SCHHHHHHHHHHHHTTSCH
T ss_pred             CCCCCCHHHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHhhCCH
Confidence            35678999999999999988666  4679999999999998754