Citrus Sinensis ID: 032204

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-----
Protein Sequence
MAAAFQSLSWQDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPTNKATEERVVNRRESPHSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQPKLDDASGNRLMSRTALRNK
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHccccccccccccccccccccHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccHHcccccccccccccccccccccHHHHHccc
Secondary Structure Prediction (SSPRO)
cccHHHcccccccHHccccccccccccccccccccccccccccccccccccccccccccccccccccHHcccccHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccccEEccccccccccccccccccccccHHcccccc
Coil and Loop (DISEMBL)
maaafqslswqdvhhhqapsyaspecridlgssskcnnkisamrtptnkateervvnrresphsttpekrqrvpsAYNQFIKEEIQRIkannpdishREAFSTAAknwahfphiHFGLmleannqpklddasgnrlMSRTALRNK
Flexible Loop (DISEMBL)
MAAAFqslswqdvhHHQAPSYASPECRIDlgssskcnnkisamrtptnkateervvnrresphsttpekrqrvpsaYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQPklddasgnrlmsrtalrnk
Low Complexity Region (SEG)
MAAAFQSLSWQDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPTNKATEERVVNRRESPHSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQPKLDDASGNRLMSRTALRNK
Disordered region (IsUnstruct)
********************************************************************************I*****************EAFSTAAKNWAHFPHIHFGLMLE************************
Disordered Region (DISOPRED)
***AFQS***********************************************************************QFIKEEIQRIKAN*PDISHREAFSTAAKNWAHFP**************************R******
Disordered Region (DISEMBL)
**********************SPECRIDLGSSSKCNNKISAM*****************************VPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQPKLDDASGNRLMSRTALRNK
Disordered Region (DISPRO)
**************************************************************HSTTP**RQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLE************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAAAFQSLSWQDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPTNKATEERVVNRRESPHSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQPKLDDASGNRLMSRTALRNK
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	145	2.2.26 [Sep-21-2011]
Q8GW46	164	Axial regulator YABBY 5 O	yes	no	0.779	0.689	0.671	4e-37
Q6H668	256	Protein YABBY 4 OS=Oryza	yes	no	0.579	0.328	0.651	5e-26
A2X7Q3	256	Protein YABBY 4 OS=Oryza	N/A	no	0.579	0.328	0.651	5e-26
Q9XFB0	184	Putative axial regulator	no	no	0.455	0.358	0.818	5e-26
Q0JBF0	266	Protein YABBY 5 OS=Oryza	no	no	0.744	0.406	0.568	8e-26
Q01JG2	266	Protein YABBY 5 OS=Oryza	N/A	no	0.744	0.406	0.568	8e-26
Q10FZ7	186	Protein YABBY 2 OS=Oryza	no	no	0.482	0.376	0.774	5e-25
Q8L556	313	Protein YABBY 3 OS=Oryza	no	no	0.620	0.287	0.591	9e-25
O22152	229	Axial regulator YABBY 1 O	no	no	0.455	0.288	0.779	2e-24
Q2QM17	207	Protein YABBY 6 OS=Oryza	no	no	0.475	0.333	0.753	4e-24

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

 Score =  153 bits (386), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 86/128 (67%), Positives = 95/128 (74%), Gaps = 15/128 (11%)

Query: 1   MAAAFQSLSWQDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPTNKATEERVVNRRE 60
           MAAA QSLS  +    QA +YA PE     GSSS+ + KI + R  T   TE+R+VNR  
Sbjct: 51  MAAALQSLSRPNF---QATNYAVPE----YGSSSRSHTKIPS-RISTRTITEQRIVNR-- 100

Query: 61  SPHSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLML 120
                 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLML
Sbjct: 101 -----PPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLML 155

Query: 121 EANNQPKL 128
           E+N Q K+
Sbjct: 156 ESNKQAKI 163

Arabidopsis thaliana (taxid: 3702)

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

 Score =  116 bits (290), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 56/86 (65%), Positives = 64/86 (74%), Gaps = 2/86 (2%)

Query: 36  CNNKISAMRTPTNKATEERVVNRRESPHSTT--PEKRQRVPSAYNQFIKEEIQRIKANNP 93
           C +   AM+ P  K  ++     + +P S    PEKRQRVPSAYN+FIK+EIQRIKA NP
Sbjct: 128 CASNAPAMQMPPAKPVQQEPELPKNAPASANRPPEKRQRVPSAYNRFIKDEIQRIKAGNP 187

Query: 94  DISHREAFSTAAKNWAHFPHIHFGLM 119
           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 =  116 bits (290), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 56/86 (65%), Positives = 64/86 (74%), Gaps = 2/86 (2%)

Query: 36  CNNKISAMRTPTNKATEERVVNRRESPHSTT--PEKRQRVPSAYNQFIKEEIQRIKANNP 93
           C +   AM+ P  K  ++     + +P S    PEKRQRVPSAYN+FIK+EIQRIKA NP
Sbjct: 128 CASNAPAMQMPPAKPVQQEPELPKNAPASANRPPEKRQRVPSAYNRFIKDEIQRIKAGNP 187

Query: 94  DISHREAFSTAAKNWAHFPHIHFGLM 119
           DISHREAFS AAKNWAHFPHIHFGLM
Sbjct: 188 DISHREAFSAAAKNWAHFPHIHFGLM 213

Oryza sativa subsp. indica (taxid: 39946)

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

 Score =  116 bits (290), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 54/66 (81%), Positives = 58/66 (87%)

Query: 67  PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQP 126
           PEKRQRVPSAYN+FIKEEIQRIKA NP+ISHREAFSTAAKNWAHFPHIHFGL L+ N + 
Sbjct: 109 PEKRQRVPSAYNRFIKEEIQRIKACNPEISHREAFSTAAKNWAHFPHIHFGLKLDGNKKG 168

Query: 127 KLDDAS 132
           K  D S
Sbjct: 169 KQLDQS 174

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

Arabidopsis thaliana (taxid: 3702)

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

 Score =  115 bits (288), Expect = 8e-26,   Method: Compositional matrix adjust.
 Identities = 66/116 (56%), Positives = 78/116 (67%), Gaps = 8/116 (6%)

Query: 12  DVHHHQAPS-----YASPECRIDLGSSSKCNNKISA--MRTPTNKATEERVVNRRESPHS 64
           +V   QAP+      ASP       S+S C N   A  M +  NKAT+      + +P +
Sbjct: 104 EVPSFQAPASLMTEQASPNVSSITSSNSSCANNAPATSMASAANKATQREPQQPKNAPSA 163

Query: 65  T-TPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLM 119
             T 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 =  115 bits (288), Expect = 8e-26,   Method: Compositional matrix adjust.
 Identities = 66/116 (56%), Positives = 78/116 (67%), Gaps = 8/116 (6%)

Query: 12  DVHHHQAPS-----YASPECRIDLGSSSKCNNKISA--MRTPTNKATEERVVNRRESPHS 64
           +V   QAP+      ASP       S+S C N   A  M +  NKAT+      + +P +
Sbjct: 104 EVPSFQAPASLMTEQASPNVSSITSSNSSCANNAPATSMASAANKATQREPQQPKNAPSA 163

Query: 65  T-TPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLM 119
             T 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)

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

 Score =  112 bits (281), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 55/71 (77%), Positives = 62/71 (87%), Gaps = 1/71 (1%)

Query: 63  HSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEA 122
           H   PEKRQRVPSAYN+FIKEEI+RIKANNPDISHREAFSTAAKNWAHFP+IHFGL    
Sbjct: 106 HVRPPEKRQRVPSAYNRFIKEEIRRIKANNPDISHREAFSTAAKNWAHFPNIHFGLGSHE 165

Query: 123 NNQPKLDDASG 133
           +++ KLD+A G
Sbjct: 166 SSK-KLDEAIG 175

Oryza sativa subsp. japonica (taxid: 39947)

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

 Score =  112 bits (279), Expect = 9e-25,   Method: Compositional matrix adjust.
 Identities = 58/98 (59%), Positives = 69/98 (70%), Gaps = 8/98 (8%)

Query: 30  LGSSSKC--NNKISAMRTPTNKATEERVVNRRESPHSTT------PEKRQRVPSAYNQFI 81
           + S++ C  NN  +A   P    ++ +   +  SP + T      PEKRQRVPSAYN+FI
Sbjct: 171 MASAASCRNNNSPAAAAAPPPPTSQGKAAAKEPSPRTNTAVINRPPEKRQRVPSAYNRFI 230

Query: 82  KEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLM 119
           K+EIQRIKA NPDISHREAFS AAKNWAHFPHIHFGLM
Sbjct: 231 KDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLM 268

Oryza sativa subsp. japonica (taxid: 39947)

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

 Score =  111 bits (277), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 53/68 (77%), Positives = 58/68 (85%), Gaps = 2/68 (2%)

Query: 59  RESPHSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGL 118
           +  P +  PEKRQRVPSAYN+FIKEEIQRIKA NPDISHREAFS AAKNWAHFPHIHFGL
Sbjct: 130 KAPPVNRPPEKRQRVPSAYNRFIKEEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGL 189

Query: 119 MLEANNQP 126
           +   +NQP
Sbjct: 190 V--PDNQP 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|Q2QM17|YAB6_ORYSJ Protein YABBY 6 OS=Oryza sativa subsp. japonica GN=YAB6 PE=2 SV=1

 Score =  109 bits (273), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 52/69 (75%), Positives = 57/69 (82%)

Query: 63  HSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEA 122
           H+  PEKRQRVPSAYN+FIKEEI+RIKANNPDISHREAFSTAAKNWAH+P+IHFGL    
Sbjct: 122 HARPPEKRQRVPSAYNRFIKEEIRRIKANNPDISHREAFSTAAKNWAHYPNIHFGLSPGH 181

Query: 123 NNQPKLDDA 131
               KL D 
Sbjct: 182 EGGKKLVDV 190

Oryza sativa subsp. japonica (taxid: 39947)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	145
225445565	185	PREDICTED: axial regulator YABBY 5 [Viti	0.924	0.724	0.772	1e-55
224087122	188	predicted protein [Populus trichocarpa]	0.924	0.712	0.779	4e-53
351724725	186	uncharacterized protein LOC100499942 [Gl	0.924	0.720	0.751	1e-52
356548475	186	PREDICTED: axial regulator YABBY 5-like	0.924	0.720	0.744	3e-52
255638088	186	unknown [Glycine max]	0.924	0.720	0.737	2e-51
217073506	191	unknown [Medicago truncatula] gi|3884906	0.931	0.706	0.712	1e-49
357478135	191	YABBY protein [Medicago truncatula] gi|3	0.931	0.706	0.712	1e-49
255572533	185	Axial regulator YABBY5, putative [Ricinu	0.917	0.718	0.739	4e-48
302399149	188	YABBY domain class transcription factor	0.931	0.718	0.737	1e-46
449464626	193	PREDICTED: axial regulator YABBY 5-like	0.924	0.694	0.690	4e-46

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

 Score =  221 bits (562), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 112/145 (77%), Positives = 120/145 (82%), Gaps = 11/145 (7%)

Query: 1   MAAAFQSLSWQDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPTNKATEERVVNRRE 60
           MAAAFQSLSWQDV   QAP+Y SP+ RIDLGSSSKCN K+ AMR P +  +EER+VNR  
Sbjct: 52  MAAAFQSLSWQDV---QAPNYTSPDYRIDLGSSSKCNTKM-AMRAPASNISEERIVNR-- 105

Query: 61  SPHSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLML 120
                 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLML
Sbjct: 106 -----PPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLML 160

Query: 121 EANNQPKLDDASGNRLMSRTALRNK 145
           E NNQPKLD+ S   LMS+ ALRNK
Sbjct: 161 ETNNQPKLDEGSEKHLMSKAALRNK 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 =  212 bits (540), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 113/145 (77%), Positives = 119/145 (82%), Gaps = 11/145 (7%)

Query: 1   MAAAFQSLSWQDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPT-NKATEERVVNRR 59
           MAAAFQSLSWQD    QA +Y S + RIDLGSSSKCNNKIS MRTP  N  T+ERVVNR 
Sbjct: 53  MAAAFQSLSWQD--QVQASNYNSHDYRIDLGSSSKCNNKIS-MRTPAANIVTQERVVNR- 108

Query: 60  ESPHSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLM 119
                  PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLM
Sbjct: 109 ------PPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLM 162

Query: 120 LEANNQPKLDDASGNRLMSRTALRN 144
           LE NNQ K+DD S  RLMSR+AL+N
Sbjct: 163 LETNNQTKVDDGSEKRLMSRSALQN 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 =  211 bits (536), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 109/145 (75%), Positives = 115/145 (79%), Gaps = 11/145 (7%)

Query: 1   MAAAFQSLSWQDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPTNKATEERVVNRRE 60
           MAAAFQSLSWQDV   Q P   +PE RID GS+SKCNN+I AMR PT   TEERVVNR  
Sbjct: 53  MAAAFQSLSWQDV---QGPGQCNPEYRIDTGSTSKCNNRI-AMRAPTTHVTEERVVNR-- 106

Query: 61  SPHSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLML 120
                 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLML
Sbjct: 107 -----PPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLML 161

Query: 121 EANNQPKLDDASGNRLMSRTALRNK 145
           E+NNQ K+D+ S   LM R AL NK
Sbjct: 162 ESNNQAKMDNVSEKHLMPRAALLNK 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 =  209 bits (532), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 108/145 (74%), Positives = 116/145 (80%), Gaps = 11/145 (7%)

Query: 1   MAAAFQSLSWQDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPTNKATEERVVNRRE 60
           MAAAFQSLSWQDV   Q   + +PE RID GS+SKCNN+I AMR PT   TEERVVNR  
Sbjct: 53  MAAAFQSLSWQDV---QGSGHCNPEYRIDTGSTSKCNNRI-AMRAPTTHVTEERVVNR-- 106

Query: 61  SPHSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLML 120
                 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLML
Sbjct: 107 -----PPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLML 161

Query: 121 EANNQPKLDDASGNRLMSRTALRNK 145
           E+NNQ K+++ S   LMSR AL NK
Sbjct: 162 ESNNQVKMENVSEKHLMSRAALLNK 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 =  207 bits (526), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 107/145 (73%), Positives = 115/145 (79%), Gaps = 11/145 (7%)

Query: 1   MAAAFQSLSWQDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPTNKATEERVVNRRE 60
           MAAAFQSLSWQDV   Q   + +PE RID GS+SKCNN+I AMR PT   TEERVVNR  
Sbjct: 53  MAAAFQSLSWQDV---QGSGHCNPEYRIDTGSTSKCNNRI-AMRAPTTHVTEERVVNR-- 106

Query: 61  SPHSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLML 120
                 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLML
Sbjct: 107 -----PPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLML 161

Query: 121 EANNQPKLDDASGNRLMSRTALRNK 145
           E+NNQ K+++     LMSR AL NK
Sbjct: 162 ESNNQVKMENVFEKHLMSRAALLNK 186

Source: Glycine max

Species: Glycine max

Genus: Glycine

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 =  200 bits (509), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 104/146 (71%), Positives = 115/146 (78%), Gaps = 11/146 (7%)

Query: 1   MAAAFQSLSWQDVHHHQAPSYA-SPECRIDLGSSSKCNNKISAMRTPTNKATEERVVNRR 59
           MAAAFQSLSWQDV   QAPS+  +PE RI   S+ KCN++I+    PT   TEERVVNR 
Sbjct: 56  MAAAFQSLSWQDV---QAPSHCMNPEYRIRTSSTPKCNDRIAMRSAPTTHVTEERVVNR- 111

Query: 60  ESPHSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLM 119
                  PEKRQRVPSAYNQFIKEEIQRIK NNPDISHREAFSTAAKNWAHFPHIHFGLM
Sbjct: 112 ------PPEKRQRVPSAYNQFIKEEIQRIKVNNPDISHREAFSTAAKNWAHFPHIHFGLM 165

Query: 120 LEANNQPKLDDASGNRLMSRTALRNK 145
           LE+NNQ K+++ S  RLMSR+AL NK
Sbjct: 166 LESNNQAKIENVSEKRLMSRSALMNK 191

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

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 =  200 bits (509), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 104/146 (71%), Positives = 116/146 (79%), Gaps = 11/146 (7%)

Query: 1   MAAAFQSLSWQDVHHHQAPSYA-SPECRIDLGSSSKCNNKISAMRTPTNKATEERVVNRR 59
           MAAAFQSLSWQDV   QAPS+  +PE RI   S+ KCN++I+    PT   TEERVVNR 
Sbjct: 56  MAAAFQSLSWQDV---QAPSHCMNPEYRIRTSSTPKCNDRIAMRSAPTTHVTEERVVNR- 111

Query: 60  ESPHSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLM 119
                  PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLM
Sbjct: 112 ------PPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLM 165

Query: 120 LEANNQPKLDDASGNRLMSRTALRNK 145
           LE+NNQ ++++ S  RLMSR+AL NK
Sbjct: 166 LESNNQAQIENVSEKRLMSRSALMNK 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 =  195 bits (496), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 108/146 (73%), Positives = 116/146 (79%), Gaps = 13/146 (8%)

Query: 1   MAAAFQSLSWQDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPT-NKATEERVVNRR 59
           MAAAFQSLSWQD    QAPS+ SP+ RI+LGSSSKCNN+IS MR P  +   EERVVNR 
Sbjct: 52  MAAAFQSLSWQDF---QAPSHNSPDYRIELGSSSKCNNRIS-MRAPAPHNIAEERVVNR- 106

Query: 60  ESPHSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLM 119
                  PEKRQRVPSAYNQFIKEEIQRIKANNP+ISHREAFSTAAKNWAH+PHIHFGL 
Sbjct: 107 ------PPEKRQRVPSAYNQFIKEEIQRIKANNPEISHREAFSTAAKNWAHYPHIHFGLT 160

Query: 120 LEANNQPKLDDASGNRLMSRTALRNK 145
           L  N+Q KLDDAS   LMSR AL NK
Sbjct: 161 LN-NHQTKLDDASEKHLMSRAALYNK 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 =  191 bits (484), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 107/145 (73%), Positives = 111/145 (76%), Gaps = 10/145 (6%)

Query: 1   MAAAFQSLSWQDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPT-NKATEERVVNRR 59
           MAAAFQS SWQDV   Q  +Y S   RIDLGSSSKCN K +A R PT +  TEER VNR 
Sbjct: 52  MAAAFQSPSWQDVQA-QNYNYNSQNYRIDLGSSSKCNKK-NATRDPTSDHVTEERGVNR- 108

Query: 60  ESPHSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLM 119
                  PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLM
Sbjct: 109 ------PPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLM 162

Query: 120 LEANNQPKLDDASGNRLMSRTALRN 144
           LEANNQ KLD+     LMSR AL N
Sbjct: 163 LEANNQAKLDNDPEKHLMSRAALLN 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 =  189 bits (479), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 105/152 (69%), Positives = 110/152 (72%), Gaps = 18/152 (11%)

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

Query: 54  RVVNRRESPHSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 113
           RVVNR        PEKRQRVPSAYNQFIKEEIQRIKA+NP+ISHREAFSTAAKNWAHFP 
Sbjct: 110 RVVNR-------PPEKRQRVPSAYNQFIKEEIQRIKASNPEISHREAFSTAAKNWAHFPR 162

Query: 114 IHFGLMLEANNQPKLDDASGNRLMSRTALRNK 145
           IHFGLMLE NNQ KLDD S  RLM R AL NK
Sbjct: 163 IHFGLMLETNNQVKLDDGS-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	145
TAIR|locus:2066311	164	YAB5 "YABBY5" [Arabidopsis tha	0.779	0.689	0.679	1.2e-35
TAIR|locus:2826731	184	YAB2 "YABBY2" [Arabidopsis tha	0.765	0.603	0.557	1.1e-25
TAIR|locus:2126931	240	YAB3 "YABBY3" [Arabidopsis tha	0.579	0.35	0.654	5.9e-25
TAIR|locus:2005492	229	AFO "AT2G45190" [Arabidopsis t	0.434	0.275	0.815	2.6e-24
UNIPROTKB|Q7XIM7	169	YAB1 "Protein YABBY 1" [Oryza	0.358	0.307	0.846	1e-20
TAIR|locus:2028020	231	INO "INNER NO OUTER" [Arabidop	0.441	0.277	0.625	5.3e-17
TAIR|locus:2026418	181	CRC "AT1G69180" [Arabidopsis t	0.310	0.248	0.711	3e-14
UNIPROTKB|Q76EJ0	194	DL "Protein DROOPING LEAF" [Or	0.296	0.221	0.767	7.9e-14

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

 Score = 385 (140.6 bits), Expect = 1.2e-35, P = 1.2e-35
 Identities = 87/128 (67%), Positives = 96/128 (75%)

Query:     1 MAAAFQSLSWQDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPTNKATEERVVNRRE 60
             MAAA QSLS  +    QA +YA PE     GSSS+ + KI + R  T   TE+R+VNR  
Sbjct:    51 MAAALQSLSRPNF---QATNYAVPE----YGSSSRSHTKIPS-RISTRTITEQRIVNR-- 100

Query:    61 SPHSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLML 120
              P    PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLML
Sbjct:   101 -P----PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLML 155

Query:   121 EANNQPKL 128
             E+N Q K+
Sbjct:   156 ESNKQAKI 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 = 291 (107.5 bits), Expect = 1.1e-25, P = 1.1e-25
 Identities = 68/122 (55%), Positives = 78/122 (63%)

Query:    11 QDVHHHQAPSYASPECRIDLGSSSKCNNKISAMRTPTNKATEERVVNRRESPHSTTPEKR 70
             QD+  H+  +  S   R D  SSS+  N +S           +R   R   P    PEKR
Sbjct:    64 QDLQPHRQHT-TSLVTRKDCASSSRSTNNLSE--------NIDREAPRM--PPIRPPEKR 112

Query:    71 QRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQPKLDD 130
             QRVPSAYN+FIKEEIQRIKA NP+ISHREAFSTAAKNWAHFPHIHFGL L+ N + K  D
Sbjct:   113 QRVPSAYNRFIKEEIQRIKACNPEISHREAFSTAAKNWAHFPHIHFGLKLDGNKKGKQLD 172

Query:   131 AS 132
              S
Sbjct:   173 QS 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:2126931 YAB3 "YABBY3" [Arabidopsis thaliana (taxid:3702)]

 Score = 284 (105.0 bits), Expect = 5.9e-25, P = 5.9e-25
 Identities = 55/84 (65%), Positives = 62/84 (73%)

Query:    38 NKISAMRTPTNKATEERVVNRRESPHSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISH 97
             N+   M T   ++ +      R  P +  PEKRQRVPSAYN+FIKEEIQRIKA NPDISH
Sbjct:   121 NEHLVMATRNGRSVDHLQEMPRPPPANRPPEKRQRVPSAYNRFIKEEIQRIKAGNPDISH 180

Query:    98 REAFSTAAKNWAHFPHIHFGLMLE 121
             REAFS AAKNWAHFPHIHFGLM +
Sbjct:   181 REAFSAAAKNWAHFPHIHFGLMAD 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

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

 Score = 278 (102.9 bits), Expect = 2.6e-24, P = 2.6e-24
 Identities = 53/65 (81%), Positives = 57/65 (87%)

Query:    62 PHSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLE 121
             P +  PEKRQRVPSAYN+FIKEEIQRIKA NPDISHREAFS AAKNWAHFPHIHFGL+  
Sbjct:   133 PVNRPPEKRQRVPSAYNRFIKEEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGLV-- 190

Query:   122 ANNQP 126
              +NQP
Sbjct:   191 PDNQP 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

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

 Score = 244 (91.0 bits), Expect = 1.0e-20, P = 1.0e-20
 Identities = 44/52 (84%), Positives = 48/52 (92%)

Query:    67 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGL 118
             PEKRQRVPSAYN+FIKEEIQRIK +NP+ISHREAFS AAKNWAH P +HFGL
Sbjct:   106 PEKRQRVPSAYNRFIKEEIQRIKTSNPEISHREAFSAAAKNWAHLPRLHFGL 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 = 209 (78.6 bits), Expect = 5.3e-17, P = 5.3e-17
 Identities = 40/64 (62%), Positives = 48/64 (75%)

Query:    52 EERVVNRRESPHSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHF 111
             E+  V+R     +  PEKRQR PSAYN FIKEEI+R+KA NP ++H+EAFS AAKNWAHF
Sbjct:   117 EDEDVSRVYQVVNKPPEKRQRAPSAYNCFIKEEIRRLKAQNPSMAHKEAFSLAAKNWAHF 176

Query:   112 PHIH 115
             P  H
Sbjct:   177 PPAH 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 = 183 (69.5 bits), Expect = 3.0e-14, P = 3.0e-14
 Identities = 32/45 (71%), Positives = 41/45 (91%)

Query:    67 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHF 111
             PEK+QR+PSAYN+F+++EIQRIK+ NP+I HREAFS AAKNWA +
Sbjct:   112 PEKKQRLPSAYNRFMRDEIQRIKSANPEIPHREAFSAAAKNWAKY 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 = 179 (68.1 bits), Expect = 7.9e-14, P = 7.9e-14
 Identities = 33/43 (76%), Positives = 38/43 (88%)

Query:    67 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWA 109
             PEK+ R+PSAYN+F++EEIQRIKA  PDI HREAFS AAKNWA
Sbjct:   102 PEKKHRLPSAYNRFMREEIQRIKAAKPDIPHREAFSMAAKNWA 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        0.314   0.124   0.368    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      145       145   0.00071  103 3  11 23  0.48    31
                                                     30  0.49    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:  602 (64 KB)
  Total size of DFA:  154 KB (2092 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:  19.13u 0.17s 19.30t   Elapsed:  00:00:01
  Total cpu time:  19.13u 0.17s 19.30t   Elapsed:  00:00:01
  Start:  Mon May 20 17:21:15 2013   End:  Mon May 20 17:21:16 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	0.6718	0.7793	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

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	145
pfam04690	170	pfam04690, YABBY, YABBY protein	7e-36
cd01390	66	cd01390, HMGB-UBF_HMG-box, HMGB-UBF_HMG-box, class	0.004

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

 Score =  121 bits (304), Expect = 7e-36
 Identities = 51/60 (85%), Positives = 53/60 (88%)

Query: 59  RESPHSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGL 118
           R  P +  PEKRQRVPSAYN+FIKEEIQRIKA NPDISHREAFS AAKNWAHFPHIHFGL
Sbjct: 111 RVPPVNRPPEKRQRVPSAYNRFIKEEIQRIKAGNPDISHREAFSAAAKNWAHFPHIHFGL 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 = 33.8 bits (78), Expect = 0.004
 Identities = 13/37 (35%), Positives = 18/37 (48%)

Query: 72  RVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNW 108
           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	145
PF04690	170	YABBY: YABBY protein; InterPro: IPR006780 YABBY pr	100.0
PF09011	73	HMG_box_2: HMG-box domain; InterPro: IPR015101 Thi	98.57
cd01390	66	HMGB-UBF_HMG-box HMGB-UBF_HMG-box, class II and II	98.31
cd00084	66	HMG-box High Mobility Group (HMG)-box is found in	98.21
PF00505	69	HMG_box: HMG (high mobility group) box; InterPro:	98.2
cd01388	72	SOX-TCF_HMG-box SOX-TCF_HMG-box, class I member of	98.19
smart00398	70	HMG high mobility group.	98.18
cd01389	77	MATA_HMG-box MATA_HMG-box, class I member of the H	98.18
PTZ00199	94	high mobility group protein; Provisional	98.09
KOG0381	96	consensus HMG box-containing protein [General func	97.35
PF06244	122	DUF1014: Protein of unknown function (DUF1014); In	97.03
KOG3223	221	consensus Uncharacterized conserved protein [Funct	93.52
COG5648	211	NHP6B Chromatin-associated proteins containing the	81.96

>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=4.6e-36  Score=238.32  Aligned_cols=66  Identities=73%  Similarity=1.163  Sum_probs=60.5

Q ss_pred             CCCCccccccc-cccCCCCCCCCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCCccccc
Q 032204           46 PTNKATEERVV-NRRESPHSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGL  118 (145)
Q Consensus        46 ~~~~~~~~~~~-~R~~~a~~~p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~~~~g~  118 (145)
                      ..+++.+++++ +|       |||||||+|||||+|||+||+|||++||+|+|||||++||+||||+|||||||
T Consensus       104 ~~~~~~pr~~~v~k-------PPEKRqR~psaYn~f~k~ei~rik~~~p~ishkeaFs~aAknW~h~phihfgl  170 (170)
T PF04690_consen  104 SEEEEIPRAPPVNK-------PPEKRQRVPSAYNRFMKEEIQRIKAENPDISHKEAFSAAAKNWAHFPHIHFGL  170 (170)
T ss_pred             cccccccccccccC-------CccccCCCchhHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhCcccccCC
Confidence            44556776665 67       99999999999999999999999999999999999999999999999999997

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

Probab=98.57  E-value=1e-07  Score=63.93  Aligned_cols=46  Identities=35%  Similarity=0.634  Sum_probs=38.8

Q ss_pred             CcccCCCCchhhHHHHHHHHHHHhh-CCCCCHHHHHHHHHHhhccCC
Q 032204           67 PEKRQRVPSAYNQFIKEEIQRIKAN-NPDISHREAFSTAAKNWAHFP  112 (145)
Q Consensus        67 ~eK~~R~PSAYN~FmKeEiqRiKa~-nP~isHKEaFs~AAkNWa~~P  112 (145)
                      |.|++|.+|||+.||++.+..++.. .+.++.+|+++.++..|+..+
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            5688999999999999999999999 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=98.31  E-value=1.8e-06  Score=55.06  Aligned_cols=44  Identities=30%  Similarity=0.471  Sum_probs=40.8

Q ss_pred             cCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           70 RQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        70 ~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      ++|.+|+|..||++....+++.+|+++..|+.+.++..|+..+.
T Consensus         1 Pkrp~saf~~f~~~~r~~~~~~~p~~~~~~i~~~~~~~W~~ls~   44 (66)
T cd01390           1 PKRPLSAYFLFSQEQRPKLKKENPDASVTEVTKILGEKWKELSE   44 (66)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCCH
Confidence            46789999999999999999999999999999999999998643

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=98.21  E-value=4.1e-06  Score=52.74  Aligned_cols=44  Identities=30%  Similarity=0.416  Sum_probs=40.8

Q ss_pred             cCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           70 RQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        70 ~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      ++|-+|+|..|++++...++..+|+++..|+.+.++..|+..+.
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=98.20  E-value=3e-06  Score=54.59  Aligned_cols=43  Identities=33%  Similarity=0.613  Sum_probs=38.4

Q ss_pred             cCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032204           70 RQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  112 (145)
Q Consensus        70 ~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P  112 (145)
                      ++|.+|+|..|+++....|++.||+++..|+-+.++..|+..+
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            4689999999999999999999999999999999999999843

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 ....

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

Probab=98.19  E-value=4.2e-06  Score=56.00  Aligned_cols=43  Identities=16%  Similarity=0.297  Sum_probs=40.3

Q ss_pred             CCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           71 QRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        71 ~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      +|.||||..|+++....|+++||+++..|.-+.++..|+..+.
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            6789999999999999999999999999999999999998653

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.

>smart00398 HMG high mobility group

Probab=98.18  E-value=4.6e-06  Score=53.04  Aligned_cols=45  Identities=33%  Similarity=0.515  Sum_probs=41.6

Q ss_pred             ccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           69 KRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        69 K~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      +++|.+|+|..|+++....+++.+|+++..|..+.++..|+..+.
T Consensus         1 ~pkrp~~~y~~f~~~~r~~~~~~~~~~~~~~i~~~~~~~W~~l~~   45 (70)
T smart00398        1 KPKRPMSAFMLFSQENRAKIKAENPDLSNAEISKKLGERWKLLSE   45 (70)
T ss_pred             CcCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHcCCH
Confidence            467899999999999999999999999999999999999998654

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

Probab=98.18  E-value=4.3e-06  Score=56.45  Aligned_cols=45  Identities=18%  Similarity=0.348  Sum_probs=41.8

Q ss_pred             ccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           69 KRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        69 K~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      +.+|-|+||-.|+++....|+++||++++.|.-+.++..|+..+.
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            357899999999999999999999999999999999999998653

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=98.09  E-value=9e-06  Score=57.94  Aligned_cols=49  Identities=27%  Similarity=0.441  Sum_probs=44.0

Q ss_pred             CCCcccCCCCchhhHHHHHHHHHHHhhCCCCC--HHHHHHHHHHhhccCCC
Q 032204           65 TTPEKRQRVPSAYNQFIKEEIQRIKANNPDIS--HREAFSTAAKNWAHFPH  113 (145)
Q Consensus        65 ~p~eK~~R~PSAYN~FmKeEiqRiKa~nP~is--HKEaFs~AAkNWa~~P~  113 (145)
                      +.|.+++|.+|||..||++.-..|+++||+++  ..|..+.++..|+..++
T Consensus        18 kdp~~PKrP~sAY~~F~~~~R~~i~~~~P~~~~~~~evsk~ige~Wk~ls~   68 (94)
T PTZ00199         18 KDPNAPKRALSAYMFFAKEKRAEIIAENPELAKDVAAVGKMVGEAWNKLSE   68 (94)
T ss_pred             CCCCCCCCCCcHHHHHHHHHHHHHHHHCcCCcccHHHHHHHHHHHHHcCCH
Confidence            36778899999999999999999999999987  68899999999998654

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

Probab=97.35  E-value=0.00059  Score=46.99  Aligned_cols=46  Identities=28%  Similarity=0.441  Sum_probs=42.0

Q ss_pred             cccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           68 EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        68 eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      ..++|-+|||..|+.+.-.+||.+||+++..|.-+.+..+|.....
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            3678899999999999999999999999999999999999988543

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

Probab=97.03  E-value=0.0008  Score=51.75  Aligned_cols=50  Identities=26%  Similarity=0.519  Sum_probs=44.8

Q ss_pred             CCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCCcccc
Q 032204           66 TPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFG  117 (145)
Q Consensus        66 p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~~~~g  117 (145)
                      .||||  .--||..|.-.+|.+||++||++.+-.---..=+.|..+|+|+|-
T Consensus        71 HPErR--~KAAy~afeE~~Lp~lK~E~PgLrlsQ~kq~l~K~w~KSPeNP~N  120 (122)
T PF06244_consen   71 HPERR--MKAAYKAFEERRLPELKEENPGLRLSQYKQMLWKEWQKSPENPFN  120 (122)
T ss_pred             Ccchh--HHHHHHHHHHHHhHHHHhhCCCchHHHHHHHHHHHHhcCCCCCcc
Confidence            45554  457999999999999999999999999999999999999999984

>KOG3223 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.52  E-value=0.094  Score=44.34  Aligned_cols=51  Identities=29%  Similarity=0.541  Sum_probs=45.7

Q ss_pred             CCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCCccccc
Q 032204           66 TPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGL  118 (145)
Q Consensus        66 p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~~~~g~  118 (145)
                      -||||=|  -||--|=..++.|||.+||++.|-+-=-+.-+.|..+|.++|.-
T Consensus       163 HPEkRmr--AA~~afEe~~LPrLK~e~P~lrlsQ~Kqll~Kew~KsPDNP~Nq  213 (221)
T KOG3223|consen  163 HPEKRMR--AAFKAFEEARLPRLKKENPGLRLSQYKQLLKKEWQKSPDNPFNQ  213 (221)
T ss_pred             ChHHHHH--HHHHHHHHhhchhhhhcCCCccHHHHHHHHHHHHhhCCCChhhH
Confidence            6777655  59999999999999999999999988888899999999999963

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

Probab=81.96  E-value=3.3  Score=35.02  Aligned_cols=47  Identities=23%  Similarity=0.429  Sum_probs=43.1

Q ss_pred             CCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032204           66 TPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  112 (145)
Q Consensus        66 p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P  112 (145)
                      -|--++|--|||-.|..+.=.+|+..+|+++.-|.=+.+.+.|+...
T Consensus        67 dpN~PKRp~sayf~y~~~~R~ei~~~~p~l~~~e~~k~~~e~WK~Lt  113 (211)
T COG5648          67 DPNGPKRPLSAYFLYSAENRDEIRKENPKLTFGEVGKLLSEKWKELT  113 (211)
T ss_pred             CCCCCCCchhHHHHHHHHHHHHHHHhCCCCChHHHHHHHHHHHHhcc
Confidence            46678899999999999999999999999999999999999999853

---

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

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	145
1wz6_A	82	HMG-box transcription factor BBX; bobby SOX homolo	98.59
2crj_A	92	SWI/SNF-related matrix-associated actin- dependent	98.49
3nm9_A	73	HMG-D, high mobility group protein D; DNA bending,	98.46
2cs1_A	92	PMS1 protein homolog 1; DNA mismatch repair protei	98.42
1hme_A	77	High mobility group protein fragment-B; DNA-bindin	98.38
2e6o_A	87	HMG box-containing protein 1; HMG-box domain, HMG-	98.33
1wxl_A	73	Single-strand recognition protein; FACT, SSRP1, HM	98.3
3f27_D	83	Transcription factor SOX-17; protein-DNA complex,	98.29
1hry_A	76	Human SRY; DNA, DNA-binding protein, DNA binding p	98.27
1wgf_A	90	Upstream binding factor 1; transcription factor, D	98.25
1j46_A	85	SRY, sex-determining region Y protein; MALE sex de	98.25
1ckt_A	71	High mobility group 1 protein; high-mobility group	98.24
1i11_A	81	Transcription factor SOX-5; HMG BOX, DNA bending,	98.22
2co9_A	102	Thymus high mobility group box protein TOX; TOX pr	98.22
4a3n_A	71	Transcription factor SOX-17; 2.40A {Homo sapiens}	98.18
2eqz_A	86	High mobility group protein B3; HMG-box domain, mo	98.17
1gt0_D	80	Transcription factor SOX-2; POU factors, SOX prote	98.17
1k99_A	99	Upstream binding factor 1; alpha-helix, L-shape, D	98.15
4euw_A	106	Transcription factor SOX-9; protein-DNA complex, H	98.14
3u2b_C	79	Transcription factor SOX-4; HMG domain, transcript	98.05
2lef_A	86	LEF-1 HMG, protein (lymphoid enhancer-binding fact	98.04
2gzk_A	159	Sex-determining region on Y / HMGB1; protein-DNA c	98.04
1aab_A	83	High mobility group protein; HMG-BOX, DNA-binding;	98.03
2yrq_A	173	High mobility group protein B1; HMG box domain, DN	98.0
2d7l_A	81	WD repeat and HMG-box DNA binding protein 1; high	98.0
2lhj_A	97	High mobility group protein homolog NHP1; structur	97.94
1cg7_A	93	Protein (NON histone protein 6 A); HMG BOX, DNA be	97.88
3tq6_A	214	Transcription factor A, mitochondrial; transcripti	97.83
2yrq_A	173	High mobility group protein B1; HMG box domain, DN	97.81
3tmm_A	238	Transcription factor A, mitochondrial; HMG, high m	97.63
1l8y_A	91	Upstream binding factor 1; HUBF, HMG box 5, DNA bi	97.59
2gzk_A	159	Sex-determining region on Y / HMGB1; protein-DNA c	97.53
3fgh_A	67	Transcription factor A, mitochondrial; HMG domain,	97.47
1v63_A	101	Nucleolar transcription factor 1; DNA binding, str	97.46
2yuk_A	90	Myeloid/lymphoid or mixed-lineage leukemia protein	96.9
1v64_A	108	Nucleolar transcription factor 1; DNA binding, str	96.85
3tmm_A	238	Transcription factor A, mitochondrial; HMG, high m	96.45
3tq6_A	214	Transcription factor A, mitochondrial; transcripti	96.41
2cto_A	93	Novel protein; high mobility group box domain, hel	96.23

>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=98.59  E-value=7.3e-08  Score=64.46  Aligned_cols=50  Identities=22%  Similarity=0.325  Sum_probs=47.2

Q ss_pred             CCCCCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032204           63 HSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  112 (145)
Q Consensus        63 ~~~p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P  112 (145)
                      |++++.+++|.+|||..|+++.-..|+++||++++.|.-+.++..|+..+
T Consensus         1 g~~~~~~pkrP~~af~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls   50 (82)
T 1wz6_A            1 GSSGSSGARRPMNAFLLFCKRHRSLVRQEHPRLDNRGATKILADWWAVLD   50 (82)
T ss_dssp             CCSSCCCSCCCCCHHHHHHHHHHHHHHHHCSSSCTTHHHHHHHHHHHTCC
T ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCC
Confidence            56789999999999999999999999999999999999999999999854

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

Probab=98.49  E-value=3.7e-07  Score=62.64  Aligned_cols=51  Identities=18%  Similarity=0.402  Sum_probs=47.2

Q ss_pred             CCCCCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           63 HSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        63 ~~~p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      |++.|.+++|.+|||..|+++.-..|+++||+++..|.-+.++..|+..+.
T Consensus         1 g~kdp~~pKrP~~af~lF~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~   51 (92)
T 2crj_A            1 GSSGSSGPKAPVTGYVRFLNERREQIRTRHPDLPFPEITKMLGAEWSKLQP   51 (92)
T ss_dssp             CCCCCSSSCCCCCHHHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHTCCT
T ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcCCH
Confidence            466788999999999999999999999999999999999999999998643

>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=98.46  E-value=3.2e-07  Score=60.31  Aligned_cols=45  Identities=27%  Similarity=0.440  Sum_probs=42.4

Q ss_pred             cccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032204           68 EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  112 (145)
Q Consensus        68 eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P  112 (145)
                      .+++|.+|||..|+++.-..|+++||+++..|+-+.++..|+..+
T Consensus         2 ~~PKrP~say~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls   46 (73)
T 3nm9_A            2 DKPKRPLSAYALWLNSARESIKRENPGIKVTEVAKRGGELWRAMK   46 (73)
T ss_dssp             CCCCCCCCHHHHHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHHCS
T ss_pred             ccCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcCC
Confidence            467899999999999999999999999999999999999999865

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

Probab=98.42  E-value=5.2e-07  Score=61.90  Aligned_cols=50  Identities=18%  Similarity=0.266  Sum_probs=45.7

Q ss_pred             CCCCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           64 STTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        64 ~~p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      +..+.+++|.+|||..|+++.-..|+++||+++..|.-+.++..|+..+.
T Consensus         2 ~~~p~~pKrP~say~lF~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~   51 (92)
T 2cs1_A            2 SSGSSGIKKPMSASALFVQDHRPQFLIENPKTSLEDATLQIEELWKTLSE   51 (92)
T ss_dssp             CCCCSSSCCCCCHHHHHHHHHHHHHHHHCCSSCHHHHHHHHHHHHHSSCH
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhcCCH
Confidence            44678899999999999999999999999999999999999999998543

>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=98.38  E-value=6.5e-07  Score=58.86  Aligned_cols=48  Identities=25%  Similarity=0.431  Sum_probs=44.5

Q ss_pred             CCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           66 TPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        66 p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      -|.+++|.+|||..|+++.-..|+++||++++.|..+.++..|+..+.
T Consensus         3 dp~~pKrP~saf~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~   50 (77)
T 1hme_A            3 DPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAA   50 (77)
T ss_dssp             CSSCCCCCCCTTHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHSCG
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCCH
Confidence            567889999999999999999999999999999999999999998543

>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=98.33  E-value=1e-06  Score=59.88  Aligned_cols=47  Identities=19%  Similarity=0.285  Sum_probs=43.7

Q ss_pred             CCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032204           66 TPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  112 (145)
Q Consensus        66 p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P  112 (145)
                      .+.+++|.++||..|+++.-..|++++|++++.|.-+.++..|+..+
T Consensus        14 dp~~pKrP~~af~lf~~~~r~~~~~~~P~~~~~eisk~lg~~Wk~ls   60 (87)
T 2e6o_A           14 SPNKCKRPMNAFMLFAKKYRVEYTQMYPGKDNRAISVILGDRWKKMK   60 (87)
T ss_dssp             CCSSCCCCCCHHHHHHHHTHHHHHHHCTTSCHHHHHHHHHHHHHHSC
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCC
Confidence            45678899999999999999999999999999999999999999854

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

Probab=98.30  E-value=1.3e-06  Score=57.36  Aligned_cols=45  Identities=20%  Similarity=0.422  Sum_probs=42.3

Q ss_pred             CcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccC
Q 032204           67 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHF  111 (145)
Q Consensus        67 ~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~  111 (145)
                      |.+++|.+|||..|+++.-..|+++||+++..|.-+.++..|+..
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            457889999999999999999999999999999999999999984

>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=98.29  E-value=1.1e-06  Score=58.40  Aligned_cols=47  Identities=23%  Similarity=0.434  Sum_probs=41.1

Q ss_pred             CCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032204           66 TPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  112 (145)
Q Consensus        66 p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P  112 (145)
                      .+.+.+|-+|||..|+++.-..|++++|++++.|.-+.++..|+..+
T Consensus         3 ~~~~pKrP~~af~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls   49 (83)
T 3f27_D            3 FTSRIRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGKSWKALT   49 (83)
T ss_dssp             ----CCCCCCHHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHSC
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhcCC
Confidence            46688999999999999999999999999999999999999998754

>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=98.27  E-value=1e-06  Score=57.81  Aligned_cols=46  Identities=13%  Similarity=0.355  Sum_probs=42.6

Q ss_pred             CcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032204           67 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  112 (145)
Q Consensus        67 ~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P  112 (145)
                      |.+.+|-+|||..|+++.-..|+++||+++..|.-+.++..|+..+
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            5678899999999999999999999999999999999999999854

>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=98.25  E-value=1.3e-06  Score=59.82  Aligned_cols=47  Identities=26%  Similarity=0.406  Sum_probs=43.8

Q ss_pred             CCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032204           66 TPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  112 (145)
Q Consensus        66 p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P  112 (145)
                      .|.+++|.+|||..|+++.-..|+++||++++.|.-+.++..|+..+
T Consensus        17 dp~~pKrP~say~lF~~~~r~~~k~~~P~~~~~eisk~lg~~Wk~ls   63 (90)
T 1wgf_A           17 GSEKPKRPVSAMFIFSEEKRRQLQEERPELSESELTRLLARMWNDLS   63 (90)
T ss_dssp             CCCCCCCCCCHHHHHHHHTHHHHHHHCTTSCHHHHHHHHHHHHHHSC
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCC
Confidence            56678899999999999999999999999999999999999999854

>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=98.25  E-value=1.9e-06  Score=58.13  Aligned_cols=46  Identities=13%  Similarity=0.355  Sum_probs=43.1

Q ss_pred             CcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032204           67 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  112 (145)
Q Consensus        67 ~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P  112 (145)
                      |.+++|-+|||..|+++.-..|+++||++++.|.-+.++..|+..+
T Consensus         2 p~~pKRP~~af~lf~~~~r~~~~~~~P~~~~~eisk~lg~~Wk~ls   47 (85)
T 1j46_A            2 QDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLT   47 (85)
T ss_dssp             CCCCCCCCCHHHHHHHHHHHHHHHHSTTSCHHHHHHHHHHHHTTSC
T ss_pred             cCcCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCC
Confidence            5678899999999999999999999999999999999999999854

>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=98.24  E-value=2e-06  Score=55.60  Aligned_cols=44  Identities=23%  Similarity=0.354  Sum_probs=40.7

Q ss_pred             ccCCCCchhhHHHHHHHHHHHhhCCCCCH--HHHHHHHHHhhccCC
Q 032204           69 KRQRVPSAYNQFIKEEIQRIKANNPDISH--REAFSTAAKNWAHFP  112 (145)
Q Consensus        69 K~~R~PSAYN~FmKeEiqRiKa~nP~isH--KEaFs~AAkNWa~~P  112 (145)
                      |++|.+|||..|+++.-..|++.||+++.  .|.-+.++..|+..+
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  999999999999754

>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=98.22  E-value=2.7e-06  Score=56.69  Aligned_cols=47  Identities=17%  Similarity=0.322  Sum_probs=42.8

Q ss_pred             CcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           67 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        67 ~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      +.+.+|-+|||..|+++.-..|++++|++++.|.-+.++..|+..+.
T Consensus         2 ~~~pkRP~naf~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~   48 (81)
T 1i11_A            2 SPHIKRPMNAFMVWAKDERRKILQAFPDMHNSNISKILGSRWKAMTN   48 (81)
T ss_dssp             -CCSCCSCCHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHHHTTSCS
T ss_pred             cCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHhhhhhCCH
Confidence            35678999999999999999999999999999999999999998543

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

Probab=98.22  E-value=2.1e-06  Score=60.09  Aligned_cols=48  Identities=27%  Similarity=0.469  Sum_probs=44.1

Q ss_pred             CCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           66 TPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        66 p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      .|.+++|.+|||..|+++.-..|+++||+++..|+-+.++..|+..+.
T Consensus        14 dp~~pKrP~say~lF~~~~r~~i~~~~P~~~~~eisk~lg~~Wk~ls~   61 (102)
T 2co9_A           14 DPNEPQKPVSAYALFFRDTQAAIKGQNPNATFGEVSKIVASMWDGLGE   61 (102)
T ss_dssp             CCCSCCCCCCHHHHTHHHHHHHHHHHCTTSCHHHHHHHHHHHHTTCCH
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHccCCH
Confidence            566788999999999999999999999999999999999999998643

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

Probab=98.18  E-value=2.6e-06  Score=54.75  Aligned_cols=44  Identities=25%  Similarity=0.458  Sum_probs=39.2

Q ss_pred             ccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032204           69 KRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  112 (145)
Q Consensus        69 K~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P  112 (145)
                      +.+|-+|||..|+++.-..|++.+|++++.|.-+.++..|+..+
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            56789999999999999999999999999999999999998754

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

Probab=98.17  E-value=3.3e-06  Score=57.12  Aligned_cols=47  Identities=23%  Similarity=0.432  Sum_probs=42.8

Q ss_pred             CCcccCCCCchhhHHHHHHHHHHHhhCCCCC--HHHHHHHHHHhhccCC
Q 032204           66 TPEKRQRVPSAYNQFIKEEIQRIKANNPDIS--HREAFSTAAKNWAHFP  112 (145)
Q Consensus        66 p~eK~~R~PSAYN~FmKeEiqRiKa~nP~is--HKEaFs~AAkNWa~~P  112 (145)
                      .|.+++|.+|||..|+++.-..|+++||+++  ..|.-+.++..|+..+
T Consensus        12 dp~~PKrP~say~lF~~~~r~~~k~~~p~~~~~~~eisk~lg~~Wk~ls   60 (86)
T 2eqz_A           12 DPKKPKGKMSAYAFFVQTCREEHKKKNPEVPVNFAEFSKKCSERWKTMS   60 (86)
T ss_dssp             CSSSCCCCCCHHHHHHHHHHHHHHHHCTTSCCCHHHHHHHHHHHHHSSC
T ss_pred             CCCCCCCCCcHHHHHHHHHHHHHHHHCCCCCCcHHHHHHHHHHHHHhCC
Confidence            4667889999999999999999999999997  4999999999999854

>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=98.17  E-value=3.1e-06  Score=56.08  Aligned_cols=45  Identities=13%  Similarity=0.367  Sum_probs=41.9

Q ss_pred             cccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032204           68 EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  112 (145)
Q Consensus        68 eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P  112 (145)
                      ++++|-+|||..|+++.-..|+++||+++..|.-+.++..|+..+
T Consensus         1 ~~pkrP~~af~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls   45 (80)
T 1gt0_D            1 DRVKRPMNAFMVWSRGQRRKMAQENPKMHNSEISKRLGAEWKLLS   45 (80)
T ss_dssp             CCCCCCCCHHHHHHHHHHHHHHTTSTTSCHHHHHHHHHHHHTTSC
T ss_pred             CcCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCC
Confidence            367889999999999999999999999999999999999999854

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

Probab=98.15  E-value=3.3e-06  Score=59.14  Aligned_cols=48  Identities=17%  Similarity=0.369  Sum_probs=44.6

Q ss_pred             CCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           66 TPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        66 p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      .|.+++|.+|||..|+++.-..|+++||+++..|.-+.++..|+..+.
T Consensus         7 dp~~PKRP~saf~lF~~~~r~~ik~~~P~~~~~eisk~lg~~Wk~ls~   54 (99)
T 1k99_A            7 HPDFPKKPLTPYFRFFMEKRAKYAKLHPEMSNLDLTKILSKKYKELPE   54 (99)
T ss_dssp             SSSSCCCSCCHHHHHHHHHHHHHHTTCTTSCSHHHHHHHHHHHHHSCS
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCCH
Confidence            577889999999999999999999999999999999999999998543

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

Probab=98.14  E-value=4.5e-06  Score=59.06  Aligned_cols=47  Identities=15%  Similarity=0.270  Sum_probs=42.7

Q ss_pred             CCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032204           66 TPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  112 (145)
Q Consensus        66 p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P  112 (145)
                      .+.+.+|-++||..|+++.-..|++++|++++.|.-+.++..|+..+
T Consensus        26 ~~~~pKRP~naf~lF~~~~r~~~k~~~P~~~~~eisk~lg~~Wk~ls   72 (106)
T 4euw_A           26 NKPHVKRPMNAFMVWAQAARRKLADQYPHLHNAELSKTLGKLWRLLN   72 (106)
T ss_dssp             --CCCCCCCCHHHHHHHHHHHHHHHHCTTSCHHHHHHHHHHHHTTCC
T ss_pred             CCCcCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcCC
Confidence            56788899999999999999999999999999999999999999854

>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=98.05  E-value=6.2e-06  Score=54.22  Aligned_cols=44  Identities=20%  Similarity=0.352  Sum_probs=41.0

Q ss_pred             ccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032204           69 KRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  112 (145)
Q Consensus        69 K~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P  112 (145)
                      +.+|-+|||..|+++.-..|++++|++++.|.-+.++..|+..+
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            45789999999999999999999999999999999999999754

>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=98.04  E-value=8.3e-06  Score=54.97  Aligned_cols=44  Identities=11%  Similarity=0.191  Sum_probs=41.3

Q ss_pred             ccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032204           69 KRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  112 (145)
Q Consensus        69 K~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P  112 (145)
                      +.+|-+|||..|+++.-..|+++||++++.|.-+.++..|+..+
T Consensus         2 ~pKRP~naf~lf~~~~r~~~~~~~P~~~~~eisk~lg~~Wk~ls   45 (86)
T 2lef_A            2 HIKKPLNAFMLYMKEMRANVVAESTLKESAAINQILGRRWHALS   45 (86)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHTTSC
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhcCC
Confidence            46789999999999999999999999999999999999999754

>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=98.04  E-value=7.5e-06  Score=60.08  Aligned_cols=47  Identities=26%  Similarity=0.446  Sum_probs=43.5

Q ss_pred             CCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032204           66 TPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  112 (145)
Q Consensus        66 p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P  112 (145)
                      .|.+++|.+|||..||++.-..|+.+||+++..|..+.++..|+..+
T Consensus        85 dp~~pKrp~say~lf~~~~r~~~~~~~p~~~~~ei~k~lg~~Wk~ls  131 (159)
T 2gzk_A           85 DPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTA  131 (159)
T ss_dssp             CTTCCCCCCCHHHHHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHHSC
T ss_pred             ccccccccccccchhhHhhHHHHHHhCCCCCHHHHHHHHHHHHHhCC
Confidence            46678899999999999999999999999999999999999999754

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

Probab=98.03  E-value=3.7e-06  Score=56.20  Aligned_cols=47  Identities=23%  Similarity=0.416  Sum_probs=43.1

Q ss_pred             CCcccCCCCchhhHHHHHHHHHHHhhCCCCCH--HHHHHHHHHhhccCC
Q 032204           66 TPEKRQRVPSAYNQFIKEEIQRIKANNPDISH--REAFSTAAKNWAHFP  112 (145)
Q Consensus        66 p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isH--KEaFs~AAkNWa~~P  112 (145)
                      .|.+++|.+|||..|+++.-..|+++||+++.  .|.-+.++..|+..+
T Consensus         4 dp~~PKrP~say~lF~~~~r~~~~~~~p~~~~~~~eisk~lg~~Wk~ls   52 (83)
T 1aab_A            4 DPKKPRGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMS   52 (83)
T ss_dssp             CTTCCCCCCCHHHHHHHHHHHHHTTSCTTTCCCSSSSHHHHHHHHTTSC
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCcHHHHHHHHHHHHHhCC
Confidence            57788999999999999999999999999975  999999999999854

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

Probab=98.00  E-value=1.1e-05  Score=60.32  Aligned_cols=48  Identities=25%  Similarity=0.431  Sum_probs=44.1

Q ss_pred             CCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           66 TPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        66 p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      .|.+++|.+|||..|+++....|+++||+++..|..+.++..|+..+.
T Consensus        98 dp~~pKrP~saf~lf~~~~r~~~~~~~p~~~~~ei~k~lg~~Wk~ls~  145 (173)
T 2yrq_A           98 DPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAA  145 (173)
T ss_dssp             CSSSCCCCCCHHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHSCG
T ss_pred             CCccccCcccHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCCH
Confidence            466788999999999999999999999999999999999999998543

>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=98.00  E-value=1.5e-05  Score=54.72  Aligned_cols=47  Identities=15%  Similarity=0.328  Sum_probs=43.0

Q ss_pred             CcccCCCCchhhHHHHHHHHHHHhhCCCCC-HHHHHHHHHHhhccCCC
Q 032204           67 PEKRQRVPSAYNQFIKEEIQRIKANNPDIS-HREAFSTAAKNWAHFPH  113 (145)
Q Consensus        67 ~eK~~R~PSAYN~FmKeEiqRiKa~nP~is-HKEaFs~AAkNWa~~P~  113 (145)
                      +.+++|.+|||..||++.-..|+.+||+++ ..|.-+.++..|+..+.
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            456788999999999999999999999998 99999999999998643

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

Probab=97.94  E-value=4.2e-06  Score=57.84  Aligned_cols=48  Identities=27%  Similarity=0.407  Sum_probs=44.2

Q ss_pred             CCcccCCCCchhhHHHHHHHHHHHhhCCCCC--HHHHHHHHHHhhccCCC
Q 032204           66 TPEKRQRVPSAYNQFIKEEIQRIKANNPDIS--HREAFSTAAKNWAHFPH  113 (145)
Q Consensus        66 p~eK~~R~PSAYN~FmKeEiqRiKa~nP~is--HKEaFs~AAkNWa~~P~  113 (145)
                      .|.+++|.+|||..|+++.-..|+++||+++  ..|.-+.++..|+..+.
T Consensus        19 dp~~pKrP~say~lF~~~~r~~~k~~~p~~~~~~~eisk~lg~~Wk~ls~   68 (97)
T 2lhj_A           19 DPNAPKRALSSYMFFAKEKRVEIIAENPEIAKDVAAIGKMIGAAWNALSD   68 (97)
T ss_dssp             CCCCCCCCCCSSTHHHHGGGGGHHHHCTTSTTCSSHHHHHHHHTSSSSCS
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCccHHHHHHHHHHHHHhCCH
Confidence            5677889999999999999999999999999  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=97.88  E-value=2.5e-06  Score=58.72  Aligned_cols=47  Identities=26%  Similarity=0.482  Sum_probs=43.6

Q ss_pred             CCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032204           66 TPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  112 (145)
Q Consensus        66 p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P  112 (145)
                      .+.+++|.+|||..|+++.-..|+++||+++..|.-+.++..|+..+
T Consensus        17 dp~~pKrP~saf~lF~~~~r~~~~~~~P~~~~~eisk~lg~~Wk~ls   63 (93)
T 1cg7_A           17 DPNAPKRALSAYMFFANENRDIVRSENPDITFGQVGKKLGEKWKALT   63 (93)
T ss_dssp             CSSCCCSCCCHHHHHHHHHTSTTTTTCTTSCHHHHTTTHHHHHHTTH
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCC
Confidence            56778899999999999999999999999999999999999999753

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

Probab=97.83  E-value=1.2e-05  Score=63.09  Aligned_cols=50  Identities=30%  Similarity=0.497  Sum_probs=45.4

Q ss_pred             CCCCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           64 STTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        64 ~~p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      ++.|.+++|.+|||..||++....|+.+||+++..|+.+.++..|+..+.
T Consensus         4 ~~~p~~PKrP~say~lF~~~~r~~~k~~~P~~~~~eisk~lge~Wk~Ls~   53 (214)
T 3tq6_A            4 SVLASCPKKPVSSYLRFSKEQLPIFKAQNPDAKTTELIRRIAQRWRELPD   53 (214)
T ss_dssp             CHHHHSCCCCCCHHHHHHHHHHHHHHHHCTTSCHHHHHHHHHHHHHHSCH
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHccCH
Confidence            34577889999999999999999999999999999999999999998643

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

Probab=97.81  E-value=4.1e-05  Score=57.16  Aligned_cols=48  Identities=21%  Similarity=0.411  Sum_probs=43.7

Q ss_pred             CCcccCCCCchhhHHHHHHHHHHHhhCCC--CCHHHHHHHHHHhhccCCC
Q 032204           66 TPEKRQRVPSAYNQFIKEEIQRIKANNPD--ISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        66 p~eK~~R~PSAYN~FmKeEiqRiKa~nP~--isHKEaFs~AAkNWa~~P~  113 (145)
                      .|.+++|.+|||..||++....|+..||+  ++..|+.+.++..|+..+.
T Consensus        12 dp~~PKrp~say~lF~~~~r~~~k~~~p~~~~~~~eisk~lg~~Wk~ls~   61 (173)
T 2yrq_A           12 DPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSA   61 (173)
T ss_dssp             CSSSCCCCCCHHHHHHHHHHHHHHHHCTTCCCCHHHHHHHHHHHHHHSCH
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHhCCH
Confidence            56788899999999999999999999999  6899999999999987643

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

Probab=97.63  E-value=5.2e-05  Score=60.25  Aligned_cols=47  Identities=30%  Similarity=0.510  Sum_probs=43.7

Q ss_pred             CCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032204           66 TPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  112 (145)
Q Consensus        66 p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P  112 (145)
                      .|.+++|.+|||..||++....|+.+||+++..|+.+.++..|+..+
T Consensus        38 ~p~~PKrP~say~lF~~e~r~~~k~~~P~~~~~eisk~lge~Wk~Ls   84 (238)
T 3tmm_A           38 LASCPKKPVSSYLRFSKEQLPIFKAQNPDAKTTELIRRIAQRWRELP   84 (238)
T ss_dssp             HHHSCCCCCCHHHHHHHHHHHHHHHHSTTSCHHHHHHHHHHHHHHSC
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhCC
Confidence            46678899999999999999999999999999999999999999854

>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=97.59  E-value=0.00011  Score=52.55  Aligned_cols=43  Identities=12%  Similarity=0.149  Sum_probs=40.6

Q ss_pred             cccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccC
Q 032204           68 EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHF  111 (145)
Q Consensus        68 eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~  111 (145)
                      .|++|.+|||+.||.+....+++.+|+ +..|+-+.++..|+..
T Consensus         3 ~kPKrP~SAy~lf~~~~r~~~k~~~p~-~~~evsK~lGe~Wk~l   45 (91)
T 1l8y_A            3 KLPESPKRAEEIWQQSVIGDYLARFKN-DRVKALKAMEMTWNNM   45 (91)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHHHHHTTS-THHHHHHHHHHHHHTT
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHhcC
Confidence            478889999999999999999999999 9999999999999985

>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=97.53  E-value=0.00016  Score=52.93  Aligned_cols=48  Identities=13%  Similarity=0.343  Sum_probs=44.0

Q ss_pred             CCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           66 TPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        66 p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      ++.+.+|-++||-.|++++-.+|+..||+++..|+.+.++..|+..+.
T Consensus         1 g~~~~Krp~~af~~~~~~~~~ki~~~~P~~~~~eisk~lg~~Wk~ls~   48 (159)
T 2gzk_A            1 VQDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTE   48 (159)
T ss_dssp             CTTCCCCCCCHHHHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHSCH
T ss_pred             CcCCCCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhhH
Confidence            367888999999999999999999999999999999999999997643

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

Probab=97.47  E-value=9.1e-05  Score=47.59  Aligned_cols=40  Identities=35%  Similarity=0.679  Sum_probs=36.2

Q ss_pred             ccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032204           69 KRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  112 (145)
Q Consensus        69 K~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P  112 (145)
                      +++|.+|||..||++.-..|+..+|    .|..+.++..|+..+
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            5688999999999999999999887    599999999999854

>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=97.46  E-value=0.0002  Score=50.42  Aligned_cols=48  Identities=13%  Similarity=0.322  Sum_probs=38.5

Q ss_pred             CCCCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           64 STTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        64 ~~p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      ++.+.+++|.+|||..||++.+.  ...+|+++..|+.+.++..|+..+.
T Consensus         3 s~~~~~PKrP~say~lF~~e~~~--~p~~~~~~~~eisK~lge~Wk~ls~   50 (101)
T 1v63_A            3 SGSSGPKKPPMNGYQKFSQELLS--NGELNHLPLKERMVEIGSRWQRISQ   50 (101)
T ss_dssp             CCCCSSCCCCSSSHHHHHHHHHH--HCTTTTSCHHHHHHHHHHHHTTSCH
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHh--CCCCCCCCHHHHHHHHHHHHHhCCH
Confidence            44567888899999999999954  3345568889999999999998543

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

Probab=96.90  E-value=0.00018  Score=51.05  Aligned_cols=44  Identities=16%  Similarity=0.192  Sum_probs=36.1

Q ss_pred             CcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032204           67 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  112 (145)
Q Consensus        67 ~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P  112 (145)
                      |..++|.||||-.||.++-..||.+||+++  +.|..+++.|+..+
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            345678999999999999999999999995  34555669998753

>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=96.85  E-value=0.00095  Score=47.50  Aligned_cols=44  Identities=16%  Similarity=0.423  Sum_probs=38.3

Q ss_pred             CCccc-CCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           66 TPEKR-QRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        66 p~eK~-~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      .+.++ +|.+|||..||++.-..|+    +++..|..+.++..|+..+.
T Consensus        13 d~~~P~KrP~say~lF~~e~r~~~k----~~~~~eisk~lg~~Wk~Ls~   57 (108)
T 1v64_A           13 FDGRPTKPPPNSYSLYCAELMANMK----DVPSTERMVLCSQQWKLLSQ   57 (108)
T ss_dssp             TTTSCCCCCSSHHHHHHHHHHHHCT----TSCHHHHHHHHHHHHHHSCH
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHh----CCCHHHHHHHHHHHHHhCCH
Confidence            34566 7899999999999999888    89999999999999998653

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

Probab=96.45  E-value=0.00064  Score=53.95  Aligned_cols=42  Identities=33%  Similarity=0.617  Sum_probs=37.5

Q ss_pred             CcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032204           67 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  112 (145)
Q Consensus        67 ~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P  112 (145)
                      +.+++|.+|||..||++....|+.++|+    |+.+.++..|+..+
T Consensus       144 p~~PKrP~say~lF~~e~r~~~k~~~p~----ei~k~lg~~Wk~ls  185 (238)
T 3tmm_A          144 LGKPKRPRSAYNVYVAERFQEAKGDSPQ----EKLKTVKENWKNLS  185 (238)
T ss_dssp             TTCCCCCCCHHHHHHHHHTTTSCCSSHH----HHHHHHHHHHHTCC
T ss_pred             cCCCCCCCcHHHHHHHHHHHHHhccCHH----HHHHHHHHHHHhCC
Confidence            4578899999999999999999988876    99999999999854

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

Probab=96.41  E-value=0.0007  Score=52.97  Aligned_cols=42  Identities=33%  Similarity=0.617  Sum_probs=37.6

Q ss_pred             CcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032204           67 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  112 (145)
Q Consensus        67 ~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P  112 (145)
                      +.+++|.+|||..||++....|+..+|+    |+.+.++..|+..+
T Consensus       112 p~~PKrP~say~lF~~e~r~~~k~~~p~----ei~k~lg~~Wk~ls  153 (214)
T 3tq6_A          112 LGKPKRPRSAYNVYVAERFQEAKGDSPQ----EKLKTVKENWKNLS  153 (214)
T ss_dssp             TTCCCCCCCHHHHHHHHHTTTSSCSSHH----HHHHHHHHHHHTCC
T ss_pred             ccCcccccchhhhhHHHHHHhhccCCHH----HHHHHHHHHHHcCC
Confidence            5678899999999999999999988876    99999999999854

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

Probab=96.23  E-value=0.003  Score=44.69  Aligned_cols=47  Identities=19%  Similarity=0.391  Sum_probs=41.2

Q ss_pred             CCCCCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHH---HHhhccC
Q 032204           63 HSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTA---AKNWAHF  111 (145)
Q Consensus        63 ~~~p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~A---AkNWa~~  111 (145)
                      ++..+.+++|.+|||..||++.-.+|+.+  +++..|.=+.+   +..|+..
T Consensus         4 ~~~~~~~PKRP~sAf~lF~~e~R~~ik~e--~~~~~eisK~l~~cGe~Wk~l   53 (93)
T 2cto_A            4 GSSGMPNRKASRNAYYFFVQEKIPELRRR--GLPVARVADAIPYCSSDWALL   53 (93)
T ss_dssp             CCCCCCCCCSSCCHHHHHHHTTHHHHHHH--TCCCSSHHHHTGGGHHHHHHS
T ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHHHHcC
Confidence            45566788999999999999999999998  78889988888   9999875

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	145
d1wgfa_	90	Nucleolar transcription factor 1 (Upstream binding	98.52
d1qrva_	73	HMG-D {Drosophila melanogaster [TaxId: 7227]}	98.4
d1k99a_	91	Nucleolar transcription factor 1 (Upstream binding	98.38
d1hsma_	79	High mobility group protein 1, HMG1 {Hamster (Cric	98.38
d1lwma_	93	NHP6a {Baker's yeast (Saccharomyces cerevisiae) [T	98.35
d1ckta_	71	High mobility group protein 1, HMG1 {Rat (Rattus n	98.27
d1gt0d_	80	Sox-2 {Mouse (Mus musculus) [TaxId: 10090]}	98.14
d1j46a_	85	SRY {Human (Homo sapiens) [TaxId: 9606]}	98.14
d1i11a_	70	Sox-5 {Mouse (Mus musculus) [TaxId: 10090]}	97.92
d2lefa_	86	Lymphoid enhancer-binding factor, LEF1 {Mouse (Mus	97.75
d1v63a_	101	Nucleolar transcription factor 1 (Upstream binding	97.55
d1v64a_	108	Nucleolar transcription factor 1 (Upstream binding	97.3

>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=98.52  E-value=7.1e-08  Score=64.21  Aligned_cols=48  Identities=25%  Similarity=0.401  Sum_probs=44.0

Q ss_pred             CCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           66 TPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        66 p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      .+.+++|-+|+|..||++..+.|++.||++++.|+.+.++..|+..++
T Consensus        17 ~~~~PKrP~say~lF~~e~r~~~~~~~p~~~~~ei~k~l~~~W~~Ls~   64 (90)
T d1wgfa_          17 GSEKPKRPVSAMFIFSEEKRRQLQEERPELSESELTRLLARMWNDLSE   64 (90)
T ss_dssp             CCCCCCCCCCHHHHHHHHTHHHHHHHCTTSCHHHHHHHHHHHHHHSCH
T ss_pred             CCCCCCCCCcHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhCCH
Confidence            466778899999999999999999999999999999999999998653

>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=98.40  E-value=2.6e-07  Score=59.79  Aligned_cols=43  Identities=28%  Similarity=0.438  Sum_probs=40.6

Q ss_pred             cccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhcc
Q 032204           68 EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAH  110 (145)
Q Consensus        68 eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~  110 (145)
                      .+++|-+|||..||++.-+.|+++||++++.|+-+.++..|+.
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

>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=98.38  E-value=2.4e-07  Score=61.70  Aligned_cols=49  Identities=16%  Similarity=0.362  Sum_probs=45.2

Q ss_pred             CCCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           65 TTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        65 ~p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      +.|.+++|.+|+|..||++....|++.+|+++..|+.+.++..|+..+.
T Consensus         6 k~p~~PKrP~say~lf~~~~r~~~~~~~p~~~~~ev~k~l~~~W~~ls~   54 (91)
T d1k99a_           6 KHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMSNLDLTKILSKKYKELPE   54 (91)
T ss_dssp             SSSSSCCCSCCHHHHHHHHHHHHHHTTCTTSCSHHHHHHHHHHHHHSCS
T ss_pred             CCCCCCCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHhHhcCCCH
Confidence            3678889999999999999999999999999999999999999998543

>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=98.38  E-value=1.6e-07  Score=61.31  Aligned_cols=44  Identities=25%  Similarity=0.409  Sum_probs=40.9

Q ss_pred             cCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           70 RQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        70 ~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      ++|-+|||..||++....|+++||++++.|+.+.++..|+..+.
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            46789999999999999999999999999999999999998653

>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=98.35  E-value=6.4e-07  Score=60.33  Aligned_cols=48  Identities=25%  Similarity=0.465  Sum_probs=44.5

Q ss_pred             CCcccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           66 TPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        66 p~eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      .|.+++|-+|+|..||++....|++.+|++++.|+.+.++..|+..++
T Consensus        17 ~p~~PKrP~saf~lF~~e~r~~ik~~~p~~~~~ei~k~l~~~W~~ls~   64 (93)
T d1lwma_          17 DPNAPKRALSAYMFFANENRDIVRSENPDITFGQVGKKLGEKWKALTP   64 (93)
T ss_dssp             CSSCCCCCCCHHHHHHHHHHHHHHHHCTTSCHHHHHHHHHHHHHTSCH
T ss_pred             CcCCCCCCCCHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhCCH
Confidence            567888999999999999999999999999999999999999998653

>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=98.27  E-value=8.7e-07  Score=56.50  Aligned_cols=45  Identities=20%  Similarity=0.373  Sum_probs=40.8

Q ss_pred             ccCCCCchhhHHHHHHHHHHHhhCCC--CCHHHHHHHHHHhhccCCC
Q 032204           69 KRQRVPSAYNQFIKEEIQRIKANNPD--ISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        69 K~~R~PSAYN~FmKeEiqRiKa~nP~--isHKEaFs~AAkNWa~~P~  113 (145)
                      |++|-+|||..||++.-..|++.||+  +++.|+.+.++..|+..+.
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            57889999999999999999999996  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=98.14  E-value=2e-06  Score=57.06  Aligned_cols=45  Identities=13%  Similarity=0.367  Sum_probs=42.4

Q ss_pred             cccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032204           68 EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  112 (145)
Q Consensus        68 eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P  112 (145)
                      +|.+|-+|||-+|+++.-.+|+++||++++.|.=+.++..|+..+
T Consensus         1 ~kiKRP~nAy~lF~~~~r~~~~~~~p~~~~~eisk~~g~~W~~l~   45 (80)
T d1gt0d_           1 DRVKRPMNAFMVWSRGQRRKMAQENPKMHNSEISKRLGAEWKLLS   45 (80)
T ss_dssp             CCCCCCCCHHHHHHHHHHHHHHTTSTTSCHHHHHHHHHHHHTTSC
T ss_pred             CCCCCCCcHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHCcCC
Confidence            477899999999999999999999999999999999999999854

>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=98.14  E-value=1.9e-06  Score=57.27  Aligned_cols=46  Identities=13%  Similarity=0.359  Sum_probs=42.8

Q ss_pred             cccCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           68 EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        68 eK~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      ++.+|-+|||..|+++.-..|+++||++++.|+=+.++..|+..+.
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            5678999999999999999999999999999999999999998643

>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=97.92  E-value=1.1e-05  Score=51.74  Aligned_cols=44  Identities=18%  Similarity=0.340  Sum_probs=40.7

Q ss_pred             cCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           70 RQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        70 ~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      -+|-+|||-.|+++.-++|++++|++++.|+-+.++..|+..++
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            35789999999999999999999999999999999999998654

>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=97.75  E-value=2.6e-05  Score=51.69  Aligned_cols=42  Identities=12%  Similarity=0.215  Sum_probs=39.3

Q ss_pred             CCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032204           71 QRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP  112 (145)
Q Consensus        71 ~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P  112 (145)
                      +|-++||-.|+++.-+.|+++||++++.|+=+.++..|+..+
T Consensus         4 kRP~naf~lF~~~~r~~~~~~~P~~~~~~Isk~lg~~Wk~ls   45 (86)
T d2lefa_           4 KKPLNAFMLYMKEMRANVVAESTLKESAAINQILGRRWHALS   45 (86)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHTTSC
T ss_pred             CCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCC
Confidence            467899999999999999999999999999999999999854

>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=97.55  E-value=4e-05  Score=51.30  Aligned_cols=42  Identities=14%  Similarity=0.371  Sum_probs=35.8

Q ss_pred             cCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           70 RQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        70 ~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      ++|-+|+|..||++.++.|+..+  ++..|+-+.++..|+..++
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            35678999999999999988665  5679999999999998654

>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=97.30  E-value=0.00012  Score=49.94  Aligned_cols=40  Identities=18%  Similarity=0.438  Sum_probs=33.4

Q ss_pred             cCCCCchhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032204           70 RQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH  113 (145)
Q Consensus        70 ~~R~PSAYN~FmKeEiqRiKa~nP~isHKEaFs~AAkNWa~~P~  113 (145)
                      ++|.+|||..||++..+    ..|+++.+|+++.++..|+..+.
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            34557999999998654    56899999999999999998654