Psyllid ID: psy14249

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60
Protein Sequence
MSAHQQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPTY
Secondary Structure (PSIPRED)
cccccccccccccccccccHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
MSAHQQQKTAKEQRIRRPMNAFMVWAKVERKkladenpdlhnADLSKMLARILLTCAPTY
Flexible Loop (DISEMBL)
msahqqqktakeqrirrpmnAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPTY
Low Complexity Region (SEG)
MSAHQQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPTY
Disordered region (IsUnstruct)
*******************NAFMVWAKVER*************DLSKMLARILLTC****
Disordered Region (DISOPRED)
*******************NAFMVWAKVERKK****NPDLHNADLSKMLARILLTCA***
Disordered Region (DISEMBL)
**************IRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPTY
Disordered Region (DISPRO)
**************IRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCA***
Transmembrane Helix (TMHMM)
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Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSAHQQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPTY
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	60	2.2.26 [Sep-21-2011]
P40657	784	Putative transcription fa	yes	N/A	0.883	0.067	0.773	2e-17
Q90ZH9	377	Transcription factor Sox-	N/A	N/A	0.733	0.116	0.727	3e-13
O42601	373	Transcription factor Sox-	N/A	N/A	0.733	0.117	0.727	3e-13
A5D8R3	373	Transcription factor Sox-	N/A	N/A	0.733	0.117	0.727	3e-13
Q3KQ35	380	Transcription factor Sox-	N/A	N/A	0.733	0.115	0.727	4e-13
Q8AWH3	383	Transcription factor Sox-	no	N/A	0.666	0.104	0.8	5e-13
Q61473	419	Transcription factor SOX-	yes	N/A	0.733	0.105	0.727	5e-13
Q9H6I2	414	Transcription factor SOX-	yes	N/A	0.666	0.096	0.8	1e-12
P43680	377	Transcription factor SOX-	no	N/A	0.766	0.122	0.739	1e-12
P40646	380	Transcription factor SOX-	no	N/A	0.7	0.110	0.761	2e-12

>sp|P40657|SOX15_DROME Putative transcription factor SOX-15 OS=Drosophila melanogaster GN=Sox15 PE=2 SV=2

 Score = 87.8 bits (216), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 41/53 (77%), Positives = 45/53 (84%)

Query: 6   QQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAP 58
           Q K+AKE RIRRPMNAFMVWAK+ERKKLADENPDLHNADLSKML +   +  P
Sbjct: 206 QSKSAKESRIRRPMNAFMVWAKIERKKLADENPDLHNADLSKMLGKKWRSLTP 258

Drosophila melanogaster (taxid: 7227)

>sp|Q90ZH9|S17AB_XENLA Transcription factor Sox-17-alpha-B OS=Xenopus laevis GN=sox17a-b PE=1 SV=1

 Score = 73.6 bits (179), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 32/44 (72%), Positives = 38/44 (86%)

Query: 8  KTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          ++  E RIRRPMNAFMVWAK ERK+LA +NPDLHNA+LSKML +
Sbjct: 51 RSKAEGRIRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGK 94

Transcription activator. Binds to the DNA sequence 5'-AACAAT-3'. All of the sox17 proteins are required for embryonic endoderm development and gastrulation movements, and show some redundancy in function. In addition, the sox17 proteins have distinct but overlapping roles in later gut development. Acts downstream of vegt-signaling in endoderm differentiation to induce a range of endodermal genes both directly (including endodermin and dhh/chh) and indirectly. Also represses wnt-responsive genes to inhibit wnt/beta-catenin signaling.

Xenopus laevis (taxid: 8355)

>sp|O42601|S17B1_XENLA Transcription factor Sox-17-beta.1 OS=Xenopus laevis GN=sox17b.1 PE=1 SV=1

 Score = 73.6 bits (179), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 32/44 (72%), Positives = 38/44 (86%)

Query: 8  KTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          ++  E RIRRPMNAFMVWAK ERK+LA +NPDLHNA+LSKML +
Sbjct: 51 RSKAEGRIRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGK 94

Transcription activator. Doesn't appear to bind to the consensus 5'-AACAAT-3' DNA binding site, but binds 5'-ATTGTT-3'. All of the sox17 proteins are required for embryonic endoderm development and gastrulation movements, and show some redundancy in function. In addition, the sox17 proteins have distinct but overlapping roles in later gut development. Acts downstream of vegt-signaling in endoderm differentiation to induce a range of endodermal genes both directly and indirectly. Also represses wnt-responsive genes to inhibit wnt/beta-catenin-mediated signaling.

Xenopus laevis (taxid: 8355)

>sp|A5D8R3|S17B3_XENLA Transcription factor Sox-17-beta.3 OS=Xenopus laevis GN=sox17b.3 PE=2 SV=1

 Score = 73.6 bits (179), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 32/44 (72%), Positives = 38/44 (86%)

Query: 8  KTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          ++  E RIRRPMNAFMVWAK ERK+LA +NPDLHNA+LSKML +
Sbjct: 51 RSKAEARIRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGK 94

Transcription activator. Doesn't appear to bind to the consensus 5'-AACAAT-3' DNA binding site, but binds 5'-ATTGTT-3'. All of the sox17 proteins are required for embryonic endoderm development and gastrulation movements, and show some redundancy in function. In addition, the sox17 proteins have distinct but overlapping roles in later gut development. Acts downstream of vegt-signaling in endoderm differentiation to induce a range of endodermal genes both directly and indirectly. Also represses wnt-responsive genes to inhibit wnt/beta-catenin-mediated signaling.

Xenopus laevis (taxid: 8355)

>sp|Q3KQ35|S17AA_XENLA Transcription factor Sox-17-alpha-A OS=Xenopus laevis GN=sox17a-a PE=1 SV=1

 Score = 73.6 bits (179), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 32/44 (72%), Positives = 38/44 (86%)

Query: 8  KTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          ++  E RIRRPMNAFMVWAK ERK+LA +NPDLHNA+LSKML +
Sbjct: 54 RSKAEARIRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGK 97

Transcriptional activator. Binds to the DNA sequence 5'-AACAAT-3' (By similarity). All of the sox17 proteins are required for embryonic endoderm development and gastrulation movements, and show some redundancy in function. In addition, the sox17 proteins have distinct but overlapping roles in later gut development. Acts downstream of vegt-signaling in endoderm differentiation to induce a range of endodermal genes both directly (including endodermin and dhh/chh) and indirectly. Also represses wnt-responsive genes to inhibit wnt/beta-catenin signaling.

Xenopus laevis (taxid: 8355)

>sp|Q8AWH3|SX17A_XENTR Transcription factor Sox-17-alpha OS=Xenopus tropicalis GN=sox17a PE=2 SV=1

 Score = 73.2 bits (178), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 32/40 (80%), Positives = 36/40 (90%)

Query: 12 EQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          E RIRRPMNAFMVWAK ERK+LA +NPDLHNA+LSKML +
Sbjct: 58 EARIRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGK 97

Transcription activator. Binds to the DNA sequence 5'-AACAAT-3'. All of the sox17 proteins are required for embryonic endoderm development and gastrulation movements, and show some redundancy in function. In addition, the sox17 proteins have distinct but overlapping roles in later gut development. Acts downstream of vegt-signaling in endoderm differentiation to induce a range of endodermal genes both directly (including endodermin and dhh/chh) and indirectly. Also represses wnt-responsive genes to inhibit wnt/beta-catenin signaling.

Xenopus tropicalis (taxid: 8364)

>sp|Q61473|SOX17_MOUSE Transcription factor SOX-17 OS=Mus musculus GN=Sox17 PE=1 SV=1

 Score = 72.8 bits (177), Expect = 5e-13,   Method: Composition-based stats.
 Identities = 32/44 (72%), Positives = 37/44 (84%)

Query: 8   KTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
           +   E RIRRPMNAFMVWAK ERK+LA +NPDLHNA+LSKML +
Sbjct: 61  RAKAESRIRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGK 104

Acts as transcription regulator that binds target promoter DNA and bends the DNA. Binds to the sequences 5'-AACAAT-'3 or 5'-AACAAAG-3'. Modulates transcriptional regulation via WNT3A. Inhibits Wnt signaling. Promotes degradation of activated CTNNB1. Plays a key role in the regulation of embryonic development. Required for normal looping of the embryonic heart tube. Required for normal development of the definitive gut endoderm. Probable transcriptional activator in the premeiotic germ cells. Isoform 2 (T-SOX17) shows no DNA-binding activity.

Mus musculus (taxid: 10090)

>sp|Q9H6I2|SOX17_HUMAN Transcription factor SOX-17 OS=Homo sapiens GN=SOX17 PE=1 SV=1

 Score = 72.0 bits (175), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 32/40 (80%), Positives = 36/40 (90%)

Query: 12  EQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
           E RIRRPMNAFMVWAK ERK+LA +NPDLHNA+LSKML +
Sbjct: 65  ESRIRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGK 104

Acts as transcription regulator that binds target promoter DNA and bends the DNA. Binds to the sequences 5'-AACAAT-'3 or 5'-AACAAAG-3'. Modulates transcriptional regulation via WNT3A. Inhibits Wnt signaling. Promotes degradation of activated CTNNB1. Plays a key role in the regulation of embryonic development. Required for normal looping of the embryonic heart tube. Required for normal development of the definitive gut endoderm. Probable transcriptional activator in the premeiotic germ cells.

Homo sapiens (taxid: 9606)

>sp|P43680|SOX18_MOUSE Transcription factor SOX-18 OS=Mus musculus GN=Sox18 PE=1 SV=3

 Score = 71.6 bits (174), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 34/46 (73%), Positives = 40/46 (86%)

Query: 6   QQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
           +++TA E RIRRPMNAFMVWAK ERK+LA +NPDLHNA LSKML +
Sbjct: 70  ERQTADELRIRRPMNAFMVWAKDERKRLAQQNPDLHNAVLSKMLGK 115

Binds to the consensus sequence 5'-AACAAAG-3' and is able to trans-activate transcription via this site.

Mus musculus (taxid: 10090)

>sp|P40646|SOX7_MOUSE Transcription factor SOX-7 OS=Mus musculus GN=Sox7 PE=1 SV=2

 Score = 71.2 bits (173), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 32/42 (76%), Positives = 37/42 (88%)

Query: 10 AKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          + E RIRRPMNAFMVWAK ERK+LA +NPDLHNA+LSKML +
Sbjct: 40 SSESRIRRPMNAFMVWAKDERKRLAVQNPDLHNAELSKMLGK 81

Transcriptional repressor. Binds to the DNA sequence 5'-AACAAT-3'.

Mus musculus (taxid: 10090)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	60
307197010	162	Putative transcription factor SOX-15 [Ha	0.816	0.302	0.857	4e-17
158300620	203	AGAP012033-PA [Anopheles gambiae str. PE	0.85	0.251	0.803	5e-17
312378359	485	hypothetical protein AND_10133 [Anophele	0.916	0.113	0.763	7e-17
332020348	157	Putative transcription factor SOX-15 [Ac	0.75	0.286	0.888	2e-16
194754393	784	GF12898 [Drosophila ananassae] gi|190620	0.95	0.072	0.736	2e-16
170052999	275	conserved hypothetical protein [Culex qu	0.833	0.181	0.86	2e-16
322790179	215	hypothetical protein SINV_00958 [Solenop	0.75	0.209	0.888	3e-16
157110163	201	hypothetical protein AaeL_AAEL000792 [Ae	0.85	0.253	0.823	3e-16
195430136	784	GK21748 [Drosophila willistoni] gi|19415	0.933	0.071	0.75	4e-16
357604574	189	putative sox17/18 [Danaus plexippus]	0.816	0.259	0.857	5e-16

>gi|307197010|gb|EFN78382.1| Putative transcription factor SOX-15 [Harpegnathos saltator]

 Score = 92.0 bits (227), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 42/49 (85%), Positives = 44/49 (89%)

Query: 2   SAHQQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLA 50
              Q Q++ KEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLA
Sbjct: 107 GGSQAQRSLKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLA 155

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|158300620|ref|XP_552176.3| AGAP012033-PA [Anopheles gambiae str. PEST] gi|157013248|gb|EAL38783.3| AGAP012033-PA [Anopheles gambiae str. PEST]

 Score = 91.7 bits (226), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 41/51 (80%), Positives = 44/51 (86%)

Query: 1   MSAHQQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
           +  H   K+AKE RIRRPMNAFMVWAKVERKKLADENPDLHNADLSKML +
Sbjct: 151 LGPHGGLKSAKEARIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLGK 201

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|312378359|gb|EFR24959.1| hypothetical protein AND_10133 [Anopheles darlingi]

 Score = 91.3 bits (225), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 42/55 (76%), Positives = 45/55 (81%)

Query: 1   MSAHQQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLT 55
           +  H   K+AKE RIRRPMNAFMVWAKVERKKLADENPDLHNADLSKML +   T
Sbjct: 259 LGPHGTLKSAKEARIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLGKYTST 313

Source: Anopheles darlingi

Species: Anopheles darlingi

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332020348|gb|EGI60770.1| Putative transcription factor SOX-15 [Acromyrmex echinatior]

 Score = 90.1 bits (222), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 40/45 (88%), Positives = 43/45 (95%)

Query: 7   QKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
           Q++ KEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKML +
Sbjct: 111 QRSLKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLGK 155

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194754393|ref|XP_001959479.1| GF12898 [Drosophila ananassae] gi|190620777|gb|EDV36301.1| GF12898 [Drosophila ananassae]

 Score = 89.7 bits (221), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 42/57 (73%), Positives = 46/57 (80%)

Query: 2   SAHQQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAP 58
           S   Q K+AKE RIRRPMNAFMVWAK+ERKKLADENPDLHNADLSKML +   +  P
Sbjct: 207 SGGTQSKSAKESRIRRPMNAFMVWAKIERKKLADENPDLHNADLSKMLGKKWRSLTP 263

Source: Drosophila ananassae

Species: Drosophila ananassae

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170052999|ref|XP_001862475.1| conserved hypothetical protein [Culex quinquefasciatus] gi|167873697|gb|EDS37080.1| conserved hypothetical protein [Culex quinquefasciatus]

 Score = 89.7 bits (221), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 43/50 (86%), Positives = 44/50 (88%)

Query: 1   MSAHQQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLA 50
           M  H   K+AKE RIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLA
Sbjct: 185 MGPHATLKSAKEARIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLA 234

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322790179|gb|EFZ15178.1| hypothetical protein SINV_00958 [Solenopsis invicta]

 Score = 89.0 bits (219), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 40/45 (88%), Positives = 42/45 (93%)

Query: 7   QKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
           Q++ KEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKML  
Sbjct: 169 QRSLKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLGE 213

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157110163|ref|XP_001650978.1| hypothetical protein AaeL_AAEL000792 [Aedes aegypti] gi|108883929|gb|EAT48154.1| AAEL000792-PA [Aedes aegypti]

 Score = 89.0 bits (219), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 42/51 (82%), Positives = 44/51 (86%)

Query: 1   MSAHQQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
           M  H   K+AKE RIRRPMNAFMVWAKVERKKLADENPDLHNADLSKML +
Sbjct: 149 MGPHGALKSAKEARIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLGK 199

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195430136|ref|XP_002063112.1| GK21748 [Drosophila willistoni] gi|194159197|gb|EDW74098.1| GK21748 [Drosophila willistoni]

 Score = 89.0 bits (219), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 42/56 (75%), Positives = 46/56 (82%)

Query: 3   AHQQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAP 58
           A  Q K+AKE RIRRPMNAFMVWAK+ERKKLADENPDLHNADLSKML +   +  P
Sbjct: 212 AGSQSKSAKESRIRRPMNAFMVWAKIERKKLADENPDLHNADLSKMLGKKWRSLTP 267

Source: Drosophila willistoni

Species: Drosophila willistoni

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357604574|gb|EHJ64239.1| putative sox17/18 [Danaus plexippus]

 Score = 88.6 bits (218), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 42/49 (85%), Positives = 43/49 (87%)

Query: 6   QQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILL 54
           Q K  KE RIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLA  L+
Sbjct: 110 QAKALKEARIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLALSLI 158

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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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	60
FB|FBgn0005613	784	Sox15 "Sox box protein 15" [Dr	0.766	0.058	0.869	2.3e-16
MGI|MGI:103559	377	Sox18 "SRY-box containing gene	0.766	0.122	0.739	5.3e-13
RGD|1311718	377	Sox18 "SRY (sex determining re	0.766	0.122	0.739	5.3e-13
UNIPROTKB|O42342	362	sox7 "Transcription factor Sox	0.966	0.160	0.593	7.8e-13
UNIPROTKB|Q28GD5	362	sox7 "Transcription factor Sox	0.966	0.160	0.593	7.8e-13
UNIPROTKB|Q3KQ35	380	sox17a-a "Transcription factor	0.8	0.126	0.7	9e-13
UNIPROTKB|P35713	384	SOX18 "Transcription factor SO	0.766	0.119	0.717	1.2e-12
UNIPROTKB|Q8AWH3	383	sox17a "Transcription factor S	0.8	0.125	0.7	1.5e-12
UNIPROTKB|O42601	373	sox17b.1 "Transcription factor	0.8	0.128	0.7	1.8e-12
UNIPROTKB|Q90ZH9	377	sox17a-b "Transcription factor	0.85	0.135	0.627	1.9e-12

FB|FBgn0005613 Sox15 "Sox box protein 15" [Drosophila melanogaster (taxid:7227)]

 Score = 214 (80.4 bits), Expect = 2.3e-16, P = 2.3e-16
 Identities = 40/46 (86%), Positives = 43/46 (93%)

Query:     6 QQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
             Q K+AKE RIRRPMNAFMVWAK+ERKKLADENPDLHNADLSKML +
Sbjct:   206 QSKSAKESRIRRPMNAFMVWAKIERKKLADENPDLHNADLSKMLGK 251

GO:0005634 "nucleus" evidence=ISS;IDA;NAS

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

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

GO:0035220 "wing disc development" evidence=IGI;IMP

GO:0043066 "negative regulation of apoptotic process" evidence=IMP

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IMP

GO:0008285 "negative regulation of cell proliferation" evidence=IMP

GO:0022416 "chaeta development" evidence=IGI;IMP

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IGI

MGI|MGI:103559 Sox18 "SRY-box containing gene 18" [Mus musculus (taxid:10090)]

 Score = 177 (67.4 bits), Expect = 5.3e-13, P = 5.3e-13
 Identities = 34/46 (73%), Positives = 40/46 (86%)

Query:     6 QQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
             +++TA E RIRRPMNAFMVWAK ERK+LA +NPDLHNA LSKML +
Sbjct:    70 ERQTADELRIRRPMNAFMVWAKDERKRLAQQNPDLHNAVLSKMLGK 115

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=ISO

GO:0000790 "nuclear chromatin" evidence=ISO

GO:0000978 "RNA polymerase II core promoter proximal region sequence-specific DNA binding" evidence=ISO

GO:0001077 "RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription" evidence=ISO

GO:0001525 "angiogenesis" evidence=IGI

GO:0001568 "blood vessel development" evidence=IMP

GO:0001570 "vasculogenesis" evidence=IGI

GO:0001701 "in utero embryonic development" evidence=IMP

GO:0001942 "hair follicle development" evidence=IMP

GO:0001944 "vasculature development" evidence=IMP

GO:0001945 "lymph vessel development" evidence=IMP

GO:0001946 "lymphangiogenesis" evidence=ISO;IMP

GO:0003677 "DNA binding" evidence=IDA

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

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=ISO;IC;IDA

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

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

GO:0007507 "heart development" evidence=IMP

GO:0022405 "hair cycle process" evidence=ISO

GO:0035050 "embryonic heart tube development" evidence=IGI

GO:0042789 "mRNA transcription from RNA polymerase II promoter" evidence=ISO

GO:0043565 "sequence-specific DNA binding" evidence=IDA

GO:0044212 "transcription regulatory region DNA binding" evidence=ISO;IDA

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IDA

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

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

GO:0048469 "cell maturation" evidence=IDA

GO:0048866 "stem cell fate specification" evidence=IDA

GO:0060214 "endocardium formation" evidence=IGI

GO:0060836 "lymphatic endothelial cell differentiation" evidence=IMP

GO:0060956 "endocardial cell differentiation" evidence=IGI

GO:0061028 "establishment of endothelial barrier" evidence=ISO

GO:0072091 "regulation of stem cell proliferation" evidence=IDA

RGD|1311718 Sox18 "SRY (sex determining region Y)-box 18" [Rattus norvegicus (taxid:10116)]

 Score = 177 (67.4 bits), Expect = 5.3e-13, P = 5.3e-13
 Identities = 34/46 (73%), Positives = 40/46 (86%)

Query:     6 QQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
             +++TA E RIRRPMNAFMVWAK ERK+LA +NPDLHNA LSKML +
Sbjct:    70 ERQTADELRIRRPMNAFMVWAKDERKRLAQQNPDLHNAVLSKMLGK 115

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=ISO

GO:0000790 "nuclear chromatin" evidence=ISO

GO:0000978 "RNA polymerase II core promoter proximal region sequence-specific DNA binding" evidence=ISO

GO:0001077 "RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription" evidence=ISO

GO:0001525 "angiogenesis" evidence=IEA;ISO

GO:0001568 "blood vessel development" evidence=ISO

GO:0001570 "vasculogenesis" evidence=IEA;ISO

GO:0001701 "in utero embryonic development" evidence=IEA;ISO

GO:0001942 "hair follicle development" evidence=IEA;ISO

GO:0001944 "vasculature development" evidence=ISO

GO:0001945 "lymph vessel development" evidence=ISO

GO:0001946 "lymphangiogenesis" evidence=IEA;ISO

GO:0003674 "molecular_function" evidence=ND

GO:0003677 "DNA binding" evidence=ISO

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

GO:0005575 "cellular_component" evidence=ND

GO:0005634 "nucleus" evidence=IEA;ISO

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

GO:0007507 "heart development" evidence=ISO

GO:0008150 "biological_process" evidence=ND

GO:0022405 "hair cycle process" evidence=ISO

GO:0035050 "embryonic heart tube development" evidence=IEA;ISO

GO:0042789 "mRNA transcription from RNA polymerase II promoter" evidence=ISO

GO:0043534 "blood vessel endothelial cell migration" evidence=IEA;ISO

GO:0043565 "sequence-specific DNA binding" evidence=IEA;ISO

GO:0044212 "transcription regulatory region DNA binding" evidence=IEA;ISO

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IEA;ISO

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

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

GO:0048469 "cell maturation" evidence=IEA;ISO

GO:0048866 "stem cell fate specification" evidence=IEA;ISO

GO:0060214 "endocardium formation" evidence=IEA;ISO

GO:0060836 "lymphatic endothelial cell differentiation" evidence=IEA;ISO

GO:0060956 "endocardial cell differentiation" evidence=IEA;ISO

GO:0061028 "establishment of endothelial barrier" evidence=IEA;ISO

GO:0072091 "regulation of stem cell proliferation" evidence=IEA;ISO

UNIPROTKB|O42342 sox7 "Transcription factor Sox-7" [Xenopus laevis (taxid:8355)]

 Score = 175 (66.7 bits), Expect = 7.8e-13, P = 7.8e-13
 Identities = 35/59 (59%), Positives = 44/59 (74%)

Query:     1 MSAHQQ-QKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAP 58
             +S H+  ++   E RIRRPMNAFMVWAK ERK+LA +NPDLHNA+LSKML +     +P
Sbjct:    27 LSPHRSPREKGSETRIRRPMNAFMVWAKDERKRLAVQNPDLHNAELSKMLGKSWKALSP 85

GO:0001706 "endoderm formation" evidence=IMP

GO:0005634 "nucleus" evidence=ISS

GO:0007507 "heart development" evidence=IMP

GO:0030178 "negative regulation of Wnt receptor signaling pathway" evidence=IMP

GO:0043565 "sequence-specific DNA binding" evidence=IDA

GO:0044212 "transcription regulatory region DNA binding" evidence=IDA

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

GO:0048793 "pronephros development" evidence=ISS

UNIPROTKB|Q28GD5 sox7 "Transcription factor Sox-7" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 175 (66.7 bits), Expect = 7.8e-13, P = 7.8e-13
 Identities = 35/59 (59%), Positives = 44/59 (74%)

Query:     1 MSAHQQ-QKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAP 58
             +S H+  ++   E RIRRPMNAFMVWAK ERK+LA +NPDLHNA+LSKML +     +P
Sbjct:    27 LSPHRSPREKGSETRIRRPMNAFMVWAKDERKRLAVQNPDLHNAELSKMLGKSWKALSP 85

GO:0001706 "endoderm formation" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0007507 "heart development" evidence=ISS

GO:0043565 "sequence-specific DNA binding" evidence=ISS

GO:0044212 "transcription regulatory region DNA binding" evidence=ISS

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

GO:0048793 "pronephros development" evidence=IMP

UNIPROTKB|Q3KQ35 sox17a-a "Transcription factor Sox-17-alpha-A" [Xenopus laevis (taxid:8355)]

 Score = 175 (66.7 bits), Expect = 9.0e-13, P = 9.0e-13
 Identities = 35/50 (70%), Positives = 41/50 (82%)

Query:     2 SAHQQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
             SA+ + K   E RIRRPMNAFMVWAK ERK+LA +NPDLHNA+LSKML +
Sbjct:    50 SANSRSKA--EARIRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGK 97

GO:0005634 "nucleus" evidence=IDA

GO:0007440 "foregut morphogenesis" evidence=IMP

GO:0007442 "hindgut morphogenesis" evidence=IMP

GO:0007492 "endoderm development" evidence=IMP

GO:0007494 "midgut development" evidence=IMP

GO:0008013 "beta-catenin binding" evidence=IDA

GO:0008285 "negative regulation of cell proliferation" evidence=IDA

GO:0042074 "cell migration involved in gastrulation" evidence=IMP

GO:0043565 "sequence-specific DNA binding" evidence=ISS

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

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

GO:0090090 "negative regulation of canonical Wnt receptor signaling pathway" evidence=IDA

UNIPROTKB|P35713 SOX18 "Transcription factor SOX-18" [Homo sapiens (taxid:9606)]

 Score = 174 (66.3 bits), Expect = 1.2e-12, P = 1.2e-12
 Identities = 33/46 (71%), Positives = 39/46 (84%)

Query:     6 QQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
             +++ A E RIRRPMNAFMVWAK ERK+LA +NPDLHNA LSKML +
Sbjct:    76 ERQAADESRIRRPMNAFMVWAKDERKRLAQQNPDLHNAVLSKMLGK 121

GO:0001701 "in utero embryonic development" evidence=IEA

GO:0001942 "hair follicle development" evidence=IEA

GO:0048469 "cell maturation" evidence=IEA

GO:0048866 "stem cell fate specification" evidence=IEA

GO:0072091 "regulation of stem cell proliferation" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

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

GO:0044212 "transcription regulatory region DNA binding" evidence=IDA

GO:0061028 "establishment of endothelial barrier" evidence=IMP

GO:0001525 "angiogenesis" evidence=IEP

GO:0043534 "blood vessel endothelial cell migration" evidence=IEP

GO:0001946 "lymphangiogenesis" evidence=IMP

GO:0022405 "hair cycle process" evidence=IMP

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IDA

GO:0000978 "RNA polymerase II core promoter proximal region sequence-specific DNA binding" evidence=IDA

GO:0000790 "nuclear chromatin" evidence=IDA

GO:0001077 "RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription" evidence=IDA

GO:0042789 "mRNA transcription from RNA polymerase II promoter" evidence=IDA

GO:0003151 "outflow tract morphogenesis" evidence=ISS

GO:0001947 "heart looping" evidence=ISS

GO:0001570 "vasculogenesis" evidence=ISS

GO:0001944 "vasculature development" evidence=ISS

GO:0035050 "embryonic heart tube development" evidence=ISS

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=ISS

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

GO:0060214 "endocardium formation" evidence=ISS

GO:0060836 "lymphatic endothelial cell differentiation" evidence=ISS

GO:0060956 "endocardial cell differentiation" evidence=ISS

UNIPROTKB|Q8AWH3 sox17a "Transcription factor Sox-17-alpha" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 173 (66.0 bits), Expect = 1.5e-12, P = 1.5e-12
 Identities = 35/50 (70%), Positives = 41/50 (82%)

Query:     2 SAHQQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
             SA+ + K   E RIRRPMNAFMVWAK ERK+LA +NPDLHNA+LSKML +
Sbjct:    50 SANSRGKA--EARIRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGK 97

GO:0005634 "nucleus" evidence=ISS

GO:0007492 "endoderm development" evidence=ISS

GO:0008013 "beta-catenin binding" evidence=ISS

GO:0043565 "sequence-specific DNA binding" evidence=ISS

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

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

UNIPROTKB|O42601 sox17b.1 "Transcription factor Sox-17-beta.1" [Xenopus laevis (taxid:8355)]

 Score = 172 (65.6 bits), Expect = 1.8e-12, P = 1.8e-12
 Identities = 35/50 (70%), Positives = 40/50 (80%)

Query:     2 SAHQQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
             SA  + K   E RIRRPMNAFMVWAK ERK+LA +NPDLHNA+LSKML +
Sbjct:    47 SADSRSKA--EGRIRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGK 94

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IMP

GO:0005634 "nucleus" evidence=IDA

GO:0007492 "endoderm development" evidence=IMP

GO:0007494 "midgut development" evidence=IMP

GO:0008013 "beta-catenin binding" evidence=IDA

GO:0030178 "negative regulation of Wnt receptor signaling pathway" evidence=IGI

GO:0043565 "sequence-specific DNA binding" evidence=IDA

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

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

UNIPROTKB|Q90ZH9 sox17a-b "Transcription factor Sox-17-alpha-B" [Xenopus laevis (taxid:8355)]

 Score = 172 (65.6 bits), Expect = 1.9e-12, P = 1.9e-12
 Identities = 32/51 (62%), Positives = 40/51 (78%)

Query:     1 MSAHQQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
             + +    ++  E RIRRPMNAFMVWAK ERK+LA +NPDLHNA+LSKML +
Sbjct:    44 LKSDANSRSKAEGRIRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGK 94

GO:0005634 "nucleus" evidence=ISS

GO:0007442 "hindgut morphogenesis" evidence=IMP

GO:0007492 "endoderm development" evidence=IMP

GO:0007494 "midgut development" evidence=IMP

GO:0008013 "beta-catenin binding" evidence=ISS

GO:0042074 "cell migration involved in gastrulation" evidence=IMP

GO:0043565 "sequence-specific DNA binding" evidence=IDA

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

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

---

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)
Q9H6I2	SOX17_HUMAN	No assigned EC number	0.8	0.6666	0.0966	yes	N/A
Q6GLH8	S17B2_XENTR	No assigned EC number	0.8	0.6666	0.1072	yes	N/A
P40657	SOX15_DROME	No assigned EC number	0.7735	0.8833	0.0676	yes	N/A
Q6F2F0	S17B3_XENTR	No assigned EC number	0.8	0.6666	0.1063	yes	N/A
Q61473	SOX17_MOUSE	No assigned EC number	0.7272	0.7333	0.1050	yes	N/A
Q8AWH2	S17B1_XENTR	No assigned EC number	0.8	0.6666	0.1063	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	60
cd01388	72	cd01388, SOX-TCF_HMG-box, SOX-TCF_HMG-box, class I	1e-11
pfam00505	69	pfam00505, HMG_box, HMG (high mobility group) box	3e-09
smart00398	70	smart00398, HMG, high mobility group	6e-08
cd00084	66	cd00084, HMG-box, High Mobility Group (HMG)-box is	7e-08
cd01390	66	cd01390, HMGB-UBF_HMG-box, HMGB-UBF_HMG-box, class	3e-05
cd01389	77	cd01389, MATA_HMG-box, MATA_HMG-box, class I membe	5e-05

>gnl|CDD|238684 cd01388, SOX-TCF_HMG-box, SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins

 Score = 53.1 bits (128), Expect = 1e-11
 Identities = 17/38 (44%), Positives = 25/38 (65%)

Query: 14 RIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
           I+RPMNAFM+++K  R+K+  E P   N  +SK+L  
Sbjct: 1  HIKRPMNAFMLFSKRHRRKVLQEYPLKENRAISKILGD 38

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. Length = 72

>gnl|CDD|189580 pfam00505, HMG_box, HMG (high mobility group) box

 Score = 46.8 bits (112), Expect = 3e-09
 Identities = 16/38 (42%), Positives = 27/38 (71%)

Query: 15 IRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARI 52
           +RP++AF ++++ +R KL  ENP L NA++SK+L   
Sbjct: 1  PKRPLSAFFLFSQEQRAKLKAENPGLKNAEISKILGEK 38

Length = 69

>gnl|CDD|197700 smart00398, HMG, high mobility group

 Score = 43.8 bits (104), Expect = 6e-08
 Identities = 18/38 (47%), Positives = 28/38 (73%)

Query: 14 RIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          + +RPM+AFM++++  R K+  ENPDL NA++SK L  
Sbjct: 1  KPKRPMSAFMLFSQENRAKIKAENPDLSNAEISKKLGE 38

Length = 70

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

 Score = 43.4 bits (103), Expect = 7e-08
 Identities = 11/37 (29%), Positives = 24/37 (64%)

Query: 15 IRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
           +RP++A+ ++++  R ++  ENP L   ++SK+L  
Sbjct: 1  PKRPLSAYFLFSQEHRAEVKAENPGLSVGEISKILGE 37

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

>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 = 36.8 bits (86), Expect = 3e-05
 Identities = 12/36 (33%), Positives = 25/36 (69%)

Query: 16 RRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          +RP++A+ ++++ +R KL  ENPD    +++K+L  
Sbjct: 2  KRPLSAYFLFSQEQRPKLKKENPDASVTEVTKILGE 37

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

>gnl|CDD|238685 cd01389, MATA_HMG-box, MATA_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins

 Score = 36.5 bits (85), Expect = 5e-05
 Identities = 14/38 (36%), Positives = 26/38 (68%)

Query: 14 RIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          +I RP NAF+++ + +  +L  ENP L N ++S+++ R
Sbjct: 1  KIPRPRNAFILYRQDKHAQLKTENPGLTNNEISRIIGR 38

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. Length = 77

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	60
cd01389	77	MATA_HMG-box MATA_HMG-box, class I member of the H	99.81
PTZ00199	94	high mobility group protein; Provisional	99.8
KOG0527|consensus	331		99.8
cd01388	72	SOX-TCF_HMG-box SOX-TCF_HMG-box, class I member of	99.8
cd01390	66	HMGB-UBF_HMG-box HMGB-UBF_HMG-box, class II and II	99.73
PF00505	69	HMG_box: HMG (high mobility group) box; InterPro:	99.72
smart00398	70	HMG high mobility group.	99.69
cd00084	66	HMG-box High Mobility Group (HMG)-box is found in	99.68
COG5648	211	NHP6B Chromatin-associated proteins containing the	99.66
KOG0381|consensus	96		99.57
PF09011	73	HMG_box_2: HMG-box domain; InterPro: IPR015101 Thi	99.52
KOG0528|consensus	511		99.51
KOG0526|consensus	615		99.34
KOG3248|consensus	421		99.33
KOG2746|consensus	683		98.89
KOG4715|consensus	410		98.79
PF04690	170	YABBY: YABBY protein; InterPro: IPR006780 YABBY pr	97.99
PF04769	201	MAT_Alpha1: Mating-type protein MAT alpha 1; Inter	97.95
PF08073	55	CHDNT: CHDNT (NUC034) domain; InterPro: IPR012958	97.54
PF06382	183	DUF1074: Protein of unknown function (DUF1074); In	96.94
PF06244	122	DUF1014: Protein of unknown function (DUF1014); In	94.67
COG5648	211	NHP6B Chromatin-associated proteins containing the	92.2
PF14887	85	HMG_box_5: HMG (high mobility group) box 5; PDB: 1	84.74
KOG3223|consensus	221		81.2
PF09164	68	VitD-bind_III: Vitamin D binding protein, domain I	80.68

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

Probab=99.81  E-value=3.9e-20  Score=101.53  Aligned_cols=46  Identities=33%  Similarity=0.670  Sum_probs=44.3

Q ss_pred             CCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         14 RIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        14 ~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      +||||+||||||+++.|..|+.+||++++.|||++||++|+.|+++
T Consensus         1 ~~kRP~naf~lf~~~~r~~~~~~~p~~~~~eisk~~g~~Wk~ls~e   46 (77)
T cd01389           1 KIPRPRNAFILYRQDKHAQLKTENPGLTNNEISRIIGRMWRSESPE   46 (77)
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCCHH
Confidence            5899999999999999999999999999999999999999999864

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=99.80  E-value=1.1e-19  Score=103.69  Aligned_cols=53  Identities=26%  Similarity=0.433  Sum_probs=49.4

Q ss_pred             ccccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCC--HHHHHHHHHHHhhcCCCC
Q psy14249          7 QKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLH--NADLSKMLARILLTCAPT   59 (60)
Q Consensus         7 ~~~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~--~~eisk~lg~~W~~l~~~   59 (60)
                      .+.++++.||||+||||+|++++|..|..+||+++  +.+|+++||++|+.|+++
T Consensus        15 k~~kdp~~PKrP~sAY~~F~~~~R~~i~~~~P~~~~~~~evsk~ige~Wk~ls~e   69 (94)
T PTZ00199         15 RKKKDPNAPKRALSAYMFFAKEKRAEIIAENPELAKDVAAVGKMVGEAWNKLSEE   69 (94)
T ss_pred             CCCCCCCCCCCCCcHHHHHHHHHHHHHHHHCcCCcccHHHHHHHHHHHHHcCCHH
Confidence            45688999999999999999999999999999986  899999999999999864

>KOG0527|consensus

Probab=99.80  E-value=3.6e-20  Score=124.63  Aligned_cols=53  Identities=42%  Similarity=0.741  Sum_probs=49.9

Q ss_pred             ccccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249          7 QKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus         7 ~~~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      ..++...+|||||||||+|++.+|.+|.++||++++.||||.||.+||.|+++
T Consensus        55 ~~k~~~~hIKRPMNAFMVWSq~~RRkma~qnP~mHNSEISK~LG~~WK~Lse~  107 (331)
T KOG0527|consen   55 KDKTSTDRIKRPMNAFMVWSQGQRRKLAKQNPKMHNSEISKRLGAEWKLLSEE  107 (331)
T ss_pred             cCCCCccccCCCcchhhhhhHHHHHHHHHhCcchhhHHHHHHHHHHHhhcCHh
Confidence            35677899999999999999999999999999999999999999999999876

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

Probab=99.80  E-value=1.1e-19  Score=98.72  Aligned_cols=46  Identities=37%  Similarity=0.562  Sum_probs=44.2

Q ss_pred             CCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         14 RIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        14 ~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      ++|||+||||+|++++|.+++.+||++++.|||++||++|+.|+++
T Consensus         1 ~iKrP~naf~~F~~~~r~~~~~~~p~~~~~eisk~l~~~Wk~ls~~   46 (72)
T cd01388           1 HIKRPMNAFMLFSKRHRRKVLQEYPLKENRAISKILGDRWKALSNE   46 (72)
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcCCHH
Confidence            5899999999999999999999999999999999999999999864

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.

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

Probab=99.73  E-value=7.9e-18  Score=88.84  Aligned_cols=45  Identities=27%  Similarity=0.532  Sum_probs=43.4

Q ss_pred             CCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         15 IRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        15 pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      ||||+||||+|++++|..++.++|++++.+|++.||++|++|+++
T Consensus         1 Pkrp~saf~~f~~~~r~~~~~~~p~~~~~~i~~~~~~~W~~ls~~   45 (66)
T cd01390           1 PKRPLSAYFLFSQEQRPKLKKENPDASVTEVTKILGEKWKELSEE   45 (66)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCCHH
Confidence            799999999999999999999999999999999999999999864

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.

>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=99.72  E-value=6e-18  Score=90.09  Aligned_cols=45  Identities=44%  Similarity=0.719  Sum_probs=41.3

Q ss_pred             CCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         15 IRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        15 pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      ||||+|||++|+++++..|+.+||+++..+|+++||++|++|+++
T Consensus         1 PkrP~~af~lf~~~~~~~~k~~~p~~~~~~i~~~~~~~W~~l~~~   45 (69)
T PF00505_consen    1 PKRPPNAFMLFCKEKRAKLKEENPDLSNKEISKILAQMWKNLSEE   45 (69)
T ss_dssp             SSSS--HHHHHHHHHHHHHHHHSTTSTHHHHHHHHHHHHHCSHHH
T ss_pred             CcCCCCHHHHHHHHHHHHHHHHhcccccccchhhHHHHHhcCCHH
Confidence            799999999999999999999999999999999999999999763

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

>smart00398 HMG high mobility group

Probab=99.69  E-value=6.4e-17  Score=85.68  Aligned_cols=46  Identities=39%  Similarity=0.632  Sum_probs=44.0

Q ss_pred             CCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         14 RIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        14 ~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      .||||+||||+|+++.|..+..++|++++.+|+++||++|+.|+++
T Consensus         1 ~pkrp~~~y~~f~~~~r~~~~~~~~~~~~~~i~~~~~~~W~~l~~~   46 (70)
T smart00398        1 KPKRPMSAFMLFSQENRAKIKAENPDLSNAEISKKLGERWKLLSEE   46 (70)
T ss_pred             CcCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHcCCHH
Confidence            4899999999999999999999999999999999999999999864

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

Probab=99.68  E-value=9.3e-17  Score=84.21  Aligned_cols=45  Identities=24%  Similarity=0.549  Sum_probs=43.3

Q ss_pred             CCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         15 IRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        15 pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      ||||+||||+|+++.|..++.++|+++..+|++.+|++|+.|+++
T Consensus         1 pkrp~~af~~f~~~~~~~~~~~~~~~~~~~i~~~~~~~W~~l~~~   45 (66)
T cd00084           1 PKRPLSAYFLFSQEHRAEVKAENPGLSVGEISKILGEMWKSLSEE   45 (66)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCCHH
Confidence            799999999999999999999999999999999999999999864

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

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

Probab=99.66  E-value=1.8e-16  Score=101.23  Aligned_cols=53  Identities=21%  Similarity=0.443  Sum_probs=50.5

Q ss_pred             ccccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249          7 QKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus         7 ~~~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      .+.++++.||||+||||+|+.++|+.|+.++|++++.+|+++||+.|++|+++
T Consensus        63 r~k~dpN~PKRp~sayf~y~~~~R~ei~~~~p~l~~~e~~k~~~e~WK~Ltd~  115 (211)
T COG5648          63 RKKKDPNGPKRPLSAYFLYSAENRDEIRKENPKLTFGEVGKLLSEKWKELTDE  115 (211)
T ss_pred             HHhcCCCCCCCchhHHHHHHHHHHHHHHHhCCCCChHHHHHHHHHHHHhccHh
Confidence            46689999999999999999999999999999999999999999999999875

>KOG0381|consensus

Probab=99.57  E-value=4.6e-15  Score=83.59  Aligned_cols=47  Identities=30%  Similarity=0.543  Sum_probs=45.1

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         13 QRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        13 ~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      +.||||++||++|+.++|..++.+||+++..||++++|++|++|+++
T Consensus        21 ~~pkrp~sa~~~f~~~~~~~~k~~~p~~~~~~v~k~~g~~W~~l~~~   67 (96)
T KOG0381|consen   21 QAPKRPLSAFFLFSSEQRSKIKAENPGLSVGEVAKALGEMWKNLAEE   67 (96)
T ss_pred             CCCCCCCcHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHH
Confidence            48999999999999999999999999999999999999999999875

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

Probab=99.52  E-value=1.7e-14  Score=78.40  Aligned_cols=48  Identities=17%  Similarity=0.278  Sum_probs=40.4

Q ss_pred             CCCCCCCChHHHHHHHHHHHHHHhh-CCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         12 EQRIRRPMNAFMVWAKVERKKLADE-NPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        12 ~~~pKRP~naf~lf~~~~r~~i~~~-~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      |++||||+|||+||+.+.+..++.+ .+.....|+++.+|+.|++||++
T Consensus         1 p~kpK~~~say~lF~~~~~~~~k~~G~~~~~~~e~~k~~~~~Wk~Ls~~   49 (73)
T PF09011_consen    1 PKKPKRPPSAYNLFMKEMRKEVKEEGGQKQSFREVMKEISERWKSLSEE   49 (73)
T ss_dssp             SSS--SSSSHHHHHHHHHHHHHHHHT-T-SSHHHHHHHHHHHHHHS-HH
T ss_pred             CcCCCCCCCHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHHhcCHH
Confidence            5789999999999999999999999 78888999999999999999864

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 ....

>KOG0528|consensus

Probab=99.51  E-value=4.3e-15  Score=103.65  Aligned_cols=52  Identities=46%  Similarity=0.792  Sum_probs=48.3

Q ss_pred             cccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249          8 KTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus         8 ~~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      ....+.++||||||||.|.++.|.+|...+|++.+.+|||+||..|+.|+..
T Consensus       319 ~~ss~PHIKRPMNAFMVWAkDERRKILqA~PDMHNSnISKILGSRWKaMSN~  370 (511)
T KOG0528|consen  319 RASSEPHIKRPMNAFMVWAKDERRKILQAFPDMHNSNISKILGSRWKAMSNT  370 (511)
T ss_pred             cCCCCccccCCcchhhcccchhhhhhhhcCccccccchhHHhcccccccccc
Confidence            3456789999999999999999999999999999999999999999999865

>KOG0526|consensus

Probab=99.34  E-value=1.3e-12  Score=92.58  Aligned_cols=53  Identities=15%  Similarity=0.367  Sum_probs=49.6

Q ss_pred             cccccccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCC
Q psy14249          4 HQQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAP   58 (60)
Q Consensus         4 ~~~~~~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~   58 (60)
                      +.+++.++|+.|||+++|||+|.+..|..|+.+  +++.+||+|.+|++|+.|++
T Consensus       525 k~~kk~kdpnapkra~sa~m~w~~~~r~~ik~d--gi~~~dv~kk~g~~wk~ms~  577 (615)
T KOG0526|consen  525 KKGKKKKDPNAPKRATSAYMLWLNASRESIKED--GISVGDVAKKAGEKWKQMSA  577 (615)
T ss_pred             cCcccCCCCCCCccchhHHHHHHHhhhhhHhhc--CchHHHHHHHHhHHHhhhcc
Confidence            346788999999999999999999999999998  99999999999999999985

>KOG3248|consensus

Probab=99.33  E-value=1.4e-12  Score=88.68  Aligned_cols=49  Identities=31%  Similarity=0.467  Sum_probs=45.7

Q ss_pred             cCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCC
Q psy14249         10 AKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAP   58 (60)
Q Consensus        10 ~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~   58 (60)
                      ....++|+|+||||||++|+|.+|.++.......+|.++||+.|.+|+-
T Consensus       187 ~KkphiKKPLNAFmlyMKEmRa~vvaEctlKeSAaiNqiLGrRWH~LSr  235 (421)
T KOG3248|consen  187 AKKPHIKKPLNAFMLYMKEMRAKVVAECTLKESAAINQILGRRWHALSR  235 (421)
T ss_pred             ccCccccccHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHhHHHhhhhH
Confidence            3667899999999999999999999999988899999999999999974

>KOG2746|consensus

Probab=98.89  E-value=6.4e-10  Score=80.26  Aligned_cols=52  Identities=33%  Similarity=0.606  Sum_probs=48.0

Q ss_pred             cccCCCCCCCCChHHHHHHHHHH--HHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249          8 KTAKEQRIRRPMNAFMVWAKVER--KKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus         8 ~~~~~~~pKRP~naf~lf~~~~r--~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      .+.+++++.||||||++|++.+|  ..+...||+..+..|++|||+.|-.|.+.
T Consensus       175 nkr~k~HirrPMnaf~ifskrhr~~g~vhq~~pn~DNrtIskiLgewWytL~~~  228 (683)
T KOG2746|consen  175 NKRDKDHIRRPMNAFHIFSKRHRGEGRVHQRHPNQDNRTISKILGEWWYTLGPN  228 (683)
T ss_pred             CcCcchhhhhhhHHHHHHHhhcCCccchhccCccccchhHHHHHhhhHhhhCch
Confidence            44678899999999999999999  89999999999999999999999999764

>KOG4715|consensus

Probab=98.79  E-value=6.8e-09  Score=70.54  Aligned_cols=52  Identities=13%  Similarity=0.348  Sum_probs=47.3

Q ss_pred             cccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249          8 KTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus         8 ~~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      ..+.+..|-+|+-.||.|++..+++|+..||++...||.|++|.||..|+.+
T Consensus        58 ~pkpPkppekpl~pymrySrkvWd~VkA~nPe~kLWeiGK~Ig~mW~dLpd~  109 (410)
T KOG4715|consen   58 RPKPPKPPEKPLMPYMRYSRKVWDQVKASNPELKLWEIGKIIGGMWLDLPDE  109 (410)
T ss_pred             CCCCCCCCCcccchhhHHhhhhhhhhhccCcchHHHHHHHHHHHHHhhCcch
Confidence            3456777888999999999999999999999999999999999999999764

>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=97.99  E-value=2.9e-05  Score=48.72  Aligned_cols=48  Identities=19%  Similarity=0.266  Sum_probs=42.5

Q ss_pred             cCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCC
Q psy14249         10 AKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCA   57 (60)
Q Consensus        10 ~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~   57 (60)
                      +.+.+-.|-++||-.|+++.-..|++++|++++.|.=+.++..|+..+
T Consensus       117 kPPEKRqR~psaYn~f~k~ei~rik~~~p~ishkeaFs~aAknW~h~p  164 (170)
T PF04690_consen  117 KPPEKRQRVPSAYNRFMKEEIQRIKAENPDISHKEAFSAAAKNWAHFP  164 (170)
T ss_pred             CCccccCCCchhHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhCc
Confidence            344555677999999999999999999999999999999999998764

>PF04769 MAT_Alpha1: Mating-type protein MAT alpha 1; InterPro: IPR006856 This family includes Saccharomyces cerevisiae (Baker's yeast) mating type protein alpha 1 (P01365 from SWISSPROT)

Probab=97.95  E-value=2.5e-05  Score=50.03  Aligned_cols=44  Identities=25%  Similarity=0.508  Sum_probs=36.4

Q ss_pred             cccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhc
Q psy14249          8 KTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLT   55 (60)
Q Consensus         8 ~~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~   55 (60)
                      ......+.+||+|+||+|    |.......|+....++|.+|+..|..
T Consensus        37 ~~~~~~~~kr~lN~Fm~F----Rsyy~~~~~~~~Qk~~S~~l~~lW~~   80 (201)
T PF04769_consen   37 RKRSPEKAKRPLNGFMAF----RSYYSPIFPPLPQKELSGILTKLWEK   80 (201)
T ss_pred             ccccccccccchhHHHHH----HHHHHhhcCCcCHHHHHHHHHHHHhC
Confidence            344566789999999999    45555778899999999999999975

MAT alpha 1 is a transcription activator that activates mating-type alpha-specific genes with the help of the MADS-box containing MCM1 transcription factor, which together bind cooperatively to PQ elements upstream of alpha-specific genes. The MCM1-MATalpha1 complex is required for the proper DNA-bending that is needed for transcriptional activation []. Alpha 1 interacts in vivo with STE12, linking expression of alpha-specific genes to the alpha-pheromone (IPR006742 from INTERPRO) response pathway [].; GO: 0000772 mating pheromone activity, 0003677 DNA binding, 0045895 positive regulation of transcription, mating-type specific, 0005634 nucleus

>PF08073 CHDNT: CHDNT (NUC034) domain; InterPro: IPR012958 The CHD N-terminal domain is found in PHD/RING fingers and chromo domain-associated helicases []

Probab=97.54  E-value=0.0003  Score=36.94  Aligned_cols=40  Identities=18%  Similarity=0.232  Sum_probs=35.8

Q ss_pred             ChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCC
Q psy14249         19 MNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAP   58 (60)
Q Consensus        19 ~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~   58 (60)
                      ++.|=+|.+..|+.|.+.||++..+.|-.+++.+|++.+.
T Consensus        13 lt~yK~Fsq~vRP~l~~~NPk~~~sKl~~l~~AKwrEF~~   52 (55)
T PF08073_consen   13 LTNYKAFSQHVRPLLAKANPKAPMSKLMMLLQAKWREFQE   52 (55)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCcHHHHHHHHHHHHHHHHh
Confidence            3567789999999999999999999999999999997543

; GO: 0003677 DNA binding, 0005524 ATP binding, 0008270 zinc ion binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus

>PF06382 DUF1074: Protein of unknown function (DUF1074); InterPro: IPR024460 This family consists of several proteins which appear to be specific to Insecta

Probab=96.94  E-value=0.0014  Score=41.53  Aligned_cols=37  Identities=24%  Similarity=0.268  Sum_probs=33.4

Q ss_pred             ChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         19 MNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        19 ~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      -|||+-|.+++|.+    |.++...|+....+.+|..|+++
T Consensus        83 nnaYLNFLReFRrk----h~~L~p~dlI~~AAraW~rLSe~  119 (183)
T PF06382_consen   83 NNAYLNFLREFRRK----HCGLSPQDLIQRAARAWCRLSEA  119 (183)
T ss_pred             chHHHHHHHHHHHH----ccCCCHHHHHHHHHHHHHhCCHH
Confidence            58999999988875    89999999999999999999864

The function of this family is unknown.

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

Probab=94.67  E-value=0.14  Score=30.66  Aligned_cols=47  Identities=21%  Similarity=0.293  Sum_probs=39.4

Q ss_pred             CCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCC
Q psy14249         11 KEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCA   57 (60)
Q Consensus        11 ~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~   57 (60)
                      +.+..+|=.-||--|...+=+.|+.++|++..+.+-.+|-.+|..-+
T Consensus        69 drHPErR~KAAy~afeE~~Lp~lK~E~PgLrlsQ~kq~l~K~w~KSP  115 (122)
T PF06244_consen   69 DRHPERRMKAAYKAFEERRLPELKEENPGLRLSQYKQMLWKEWQKSP  115 (122)
T ss_pred             CCCcchhHHHHHHHHHHHHhHHHHhhCCCchHHHHHHHHHHHHhcCC
Confidence            33444455578999999999999999999999999999999997643

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

Probab=92.20  E-value=0.059  Score=34.97  Aligned_cols=48  Identities=15%  Similarity=0.232  Sum_probs=42.6

Q ss_pred             CCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         12 EQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        12 ~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      ...+++|.-.|+-+..+.|.++...+|+..-.++.+++|..|++|+++
T Consensus       141 k~~~~~~~~~~~e~~~~~r~~~~~~~~~~~~~e~~k~~~~~w~el~~s  188 (211)
T COG5648         141 KLPNKAPIGPFIENEPKIRPKVEGPSPDKALVEETKIISKAWSELDES  188 (211)
T ss_pred             ccCCCCCCchhhhccHHhccccCCCCcchhhhHHhhhhhhhhhhhChh
Confidence            345677888888999999999999999999999999999999999875

>PF14887 HMG_box_5: HMG (high mobility group) box 5; PDB: 1L8Y_A 1L8Z_A 2HDZ_A

Probab=84.74  E-value=3.8  Score=23.04  Aligned_cols=43  Identities=9%  Similarity=0.071  Sum_probs=33.0

Q ss_pred             CCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCC
Q psy14249         15 IRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAP   58 (60)
Q Consensus        15 pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~   58 (60)
                      |-.|.+|-=+|.+.......+.++.-...+.. .+...|++|+.
T Consensus         4 PE~PKt~qe~Wqq~vi~dYla~~~~dr~K~~k-am~~~W~~me~   46 (85)
T PF14887_consen    4 PETPKTAQEIWQQSVIGDYLAKFRNDRKKALK-AMEAQWSQMEK   46 (85)
T ss_dssp             S----THHHHHHHHHHHHHHHHTTSTHHHHHH-HHHHHHHTTGG
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHhhHhHHHHHH-HHHHHHHHhhh
Confidence            55677888899999999888899888777755 99999999863

>KOG3223|consensus

Probab=81.20  E-value=1.8  Score=28.16  Aligned_cols=45  Identities=20%  Similarity=0.320  Sum_probs=38.5

Q ss_pred             CCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcC
Q psy14249         12 EQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTC   56 (60)
Q Consensus        12 ~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l   56 (60)
                      .+.-||=.-||.-|-..+=+.|+.++|++..++.-.+|-.+|..-
T Consensus       162 rHPEkRmrAA~~afEe~~LPrLK~e~P~lrlsQ~Kqll~Kew~Ks  206 (221)
T KOG3223|consen  162 RHPEKRMRAAFKAFEEARLPRLKKENPGLRLSQYKQLLKKEWQKS  206 (221)
T ss_pred             cChHHHHHHHHHHHHHhhchhhhhcCCCccHHHHHHHHHHHHhhC
Confidence            444456677899999999999999999999999999999999754

>PF09164 VitD-bind_III: Vitamin D binding protein, domain III; InterPro: IPR015247 This domain is predominantly found in Vitamin D binding proteins, and adopts a multihelical structure

Probab=80.68  E-value=7.1  Score=21.18  Aligned_cols=32  Identities=22%  Similarity=0.432  Sum_probs=25.7

Q ss_pred             hHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHH
Q psy14249         20 NAFMVWAKVERKKLADENPDLHNADLSKMLAR   51 (60)
Q Consensus        20 naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~   51 (60)
                      |-|.-|.+.-.+.++...|+++..+|..++.+
T Consensus         9 ~tFtEyKKrL~e~l~~k~P~at~~~l~~lve~   40 (68)
T PF09164_consen    9 NTFTEYKKRLAERLRAKLPDATPTELKELVEK   40 (68)
T ss_dssp             S-HHHHHHHHHHHHHHH-TTS-HHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHCCCCCHHHHHHHHHH
Confidence            56889999999999999999999999877654

It is required for formation of an actin 'clamp', allowing the protein to bind to actin []. ; PDB: 1MA9_A 1KW2_A 1KXP_D 1J7E_A 1J78_A 1LOT_A.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	60
3f27_D	83	Structure Of Sox17 Bound To Dna Length = 83		4e-13
2yul_A	82	Solution Structure Of The Hmg Box Of Human Transcri		8e-13
4a3n_A	71	Crystal Structure Of Hmg-Box Of Human Sox17 Length		2e-12
4euw_A	106	Crystal Structure Of A Hmg Domain Of Transcription		7e-10
3u2b_C	79	Structure Of The Sox4 Hmg Domain Bound To Dna Lengt		2e-09
2le4_A	81	Solution Structure Of The Hmg Box Dna-Binding Domai		3e-09
1o4x_B	88	Ternary Complex Of The Dna Binding Domains Of The O		4e-09
1gt0_D	80	Crystal Structure Of A PouHMGDNA TERNARY COMPLEX Le		4e-09
1i11_A	81	Solution Structure Of The Dna Binding Domain, Sox-5		2e-08
1hrz_A	76	The 3d Structure Of The Human Sry-Dna Complex Solve		3e-07
2gzk_A	159	Structure Of A Complex Of Tandem Hmg Boxes And Dna		3e-07
1j46_A	85	3d Solution Nmr Structure Of The Wild Type Hmg-Box		3e-07
1j47_A	85	3d Solution Nmr Structure Of The M9i Mutant Of The		1e-06

>pdb|3F27|D Chain D, Structure Of Sox17 Bound To Dna Length = 83

Iteration: 1
 Score = 69.7 bits (169), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 31/38 (81%), Positives = 35/38 (92%)
Query: 14 RIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          RIRRPMNAFMVWAK ERK+LA +NPDLHNA+LSKML +
Sbjct: 6  RIRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGK 43

>pdb|2YUL|A Chain A, Solution Structure Of The Hmg Box Of Human Transcription Factor Sox-17 Length = 82

Iteration: 1
 Score = 68.6 bits (166), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 30/43 (69%), Positives = 36/43 (83%)
Query: 9  TAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          ++    IRRPMNAFMVWAK ERK+LA +NPDLHNA+LSKML +
Sbjct: 2  SSGSSGIRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGK 44

>pdb|4A3N|A Chain A, Crystal Structure Of Hmg-Box Of Human Sox17 Length = 71

Iteration: 1
 Score = 67.4 bits (163), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 30/37 (81%), Positives = 34/37 (91%)
Query: 15 IRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          IRRPMNAFMVWAK ERK+LA +NPDLHNA+LSKML +
Sbjct: 3  IRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGK 39

>pdb|4EUW|A Chain A, Crystal Structure Of A Hmg Domain Of Transcription Factor Sox-9 Bound To Dna (Sox-9DNA) FROM HOMO SAPIENS AT 2.77 A RESOLUTION Length = 106

Iteration: 1
 Score = 58.9 bits (141), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 25/46 (54%), Positives = 35/46 (76%)
Query: 7  QKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARI 52
          Q +  +  ++RPMNAFMVWA+  R+KLAD+ P LHNA+LSK L ++
Sbjct: 22 QSSKNKPHVKRPMNAFMVWAQAARRKLADQYPHLHNAELSKTLGKL 67

>pdb|3U2B|C Chain C, Structure Of The Sox4 Hmg Domain Bound To Dna Length = 79

Iteration: 1
 Score = 57.4 bits (137), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 21/37 (56%), Positives = 34/37 (91%)
Query: 15 IRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          I+RPMNAFMVW+++ER+K+ +++PD+HNA++SK L +
Sbjct: 3  IKRPMNAFMVWSQIERRKIMEQSPDMHNAEISKRLGK 39

>pdb|2LE4|A Chain A, Solution Structure Of The Hmg Box Dna-Binding Domain Of Human Stem Cell Transcription Factor Sox2 Length = 81

Iteration: 1
 Score = 56.6 bits (135), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 21/37 (56%), Positives = 32/37 (86%)
Query: 14 RIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLA 50
          R++RPMNAFMVW++ +R+K+A ENP +HN+++SK L 
Sbjct: 3  RVKRPMNAFMVWSRGQRRKMAQENPKMHNSEISKRLG 39

>pdb|1O4X|B Chain B, Ternary Complex Of The Dna Binding Domains Of The Oct1 And Sox2 Transcription Factors With A 19mer Oligonucleotide From The Hoxb1 Regulatory Element Length = 88

Iteration: 1
 Score = 56.6 bits (135), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 21/37 (56%), Positives = 32/37 (86%)
Query: 14 RIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLA 50
          R++RPMNAFMVW++ +R+K+A ENP +HN+++SK L 
Sbjct: 7  RVKRPMNAFMVWSRGQRRKMAQENPKMHNSEISKRLG 43

>pdb|1GT0|D Chain D, Crystal Structure Of A PouHMGDNA TERNARY COMPLEX Length = 80

Iteration: 1
 Score = 56.6 bits (135), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 21/37 (56%), Positives = 32/37 (86%)
Query: 14 RIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLA 50
          R++RPMNAFMVW++ +R+K+A ENP +HN+++SK L 
Sbjct: 2  RVKRPMNAFMVWSRGQRRKMAQENPKMHNSEISKRLG 38

>pdb|1I11|A Chain A, Solution Structure Of The Dna Binding Domain, Sox-5 Hmg Box From Mouse Length = 81

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 22/36 (61%), Positives = 30/36 (83%)
Query: 15 IRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLA 50
          I+RPMNAFMVWAK ER+K+    PD+HN+++SK+L 
Sbjct: 5  IKRPMNAFMVWAKDERRKILQAFPDMHNSNISKILG 40

>pdb|1HRZ|A Chain A, The 3d Structure Of The Human Sry-Dna Complex Solved By Multi-Dimensional Heteronuclear-Edited And-Filtered Nmr Length = 76

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 19/37 (51%), Positives = 31/37 (83%)
Query: 14 RIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLA 50
          R++RPMNAF+VW++ +R+K+A ENP + N+++SK L 
Sbjct: 4  RVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLG 40

>pdb|2GZK|A Chain A, Structure Of A Complex Of Tandem Hmg Boxes And Dna Length = 159

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 19/39 (48%), Positives = 32/39 (82%)
Query: 12 EQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLA 50
          + R++RPMNAF+VW++ +R+K+A ENP + N+++SK L 
Sbjct: 2  QDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLG 40

>pdb|1J46|A Chain A, 3d Solution Nmr Structure Of The Wild Type Hmg-Box Domain Of The Human Male Sex Determining Factor Sry Complexed To Dna Length = 85

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 19/39 (48%), Positives = 32/39 (82%)
Query: 12 EQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLA 50
          + R++RPMNAF+VW++ +R+K+A ENP + N+++SK L 
Sbjct: 2  QDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLG 40

>pdb|1J47|A Chain A, 3d Solution Nmr Structure Of The M9i Mutant Of The Hmg-Box Domain Of The Human Male Sex Determining Factor Sry Complexed To Dna Length = 85

Iteration: 1
 Score = 48.5 bits (114), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 18/39 (46%), Positives = 32/39 (82%)
Query: 12 EQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLA 50
          + R++RP+NAF+VW++ +R+K+A ENP + N+++SK L 
Sbjct: 2  QDRVKRPINAFIVWSRDQRRKMALENPRMRNSEISKQLG 40

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	60
1wz6_A	82	HMG-box transcription factor BBX; bobby SOX homolo	4e-19
2e6o_A	87	HMG box-containing protein 1; HMG-box domain, HMG-	6e-19
3f27_D	83	Transcription factor SOX-17; protein-DNA complex,	1e-17
4euw_A	106	Transcription factor SOX-9; protein-DNA complex, H	2e-17
1hry_A	76	Human SRY; DNA, DNA-binding protein, DNA binding p	2e-17
4a3n_A	71	Transcription factor SOX-17; 2.40A {Homo sapiens}	7e-17
1i11_A	81	Transcription factor SOX-5; HMG BOX, DNA bending,	1e-16
1j46_A	85	SRY, sex-determining region Y protein; MALE sex de	3e-16
1gt0_D	80	Transcription factor SOX-2; POU factors, SOX prote	3e-16
3u2b_C	79	Transcription factor SOX-4; HMG domain, transcript	1e-15
1wgf_A	90	Upstream binding factor 1; transcription factor, D	2e-15
2lef_A	86	LEF-1 HMG, protein (lymphoid enhancer-binding fact	4e-15
2gzk_A	159	Sex-determining region on Y / HMGB1; protein-DNA c	3e-13
2gzk_A	159	Sex-determining region on Y / HMGB1; protein-DNA c	5e-08
2cs1_A	92	PMS1 protein homolog 1; DNA mismatch repair protei	9e-11
2crj_A	92	SWI/SNF-related matrix-associated actin- dependent	1e-09
1hme_A	77	High mobility group protein fragment-B; DNA-bindin	2e-09
1wxl_A	73	Single-strand recognition protein; FACT, SSRP1, HM	3e-09
3nm9_A	73	HMG-D, high mobility group protein D; DNA bending,	1e-08
2co9_A	102	Thymus high mobility group box protein TOX; TOX pr	1e-07
1cg7_A	93	Protein (NON histone protein 6 A); HMG BOX, DNA be	3e-07
1k99_A	99	Upstream binding factor 1; alpha-helix, L-shape, D	4e-07
2d7l_A	81	WD repeat and HMG-box DNA binding protein 1; high	1e-06
2lhj_A	97	High mobility group protein homolog NHP1; structur	2e-06
2yrq_A	173	High mobility group protein B1; HMG box domain, DN	4e-06
1ckt_A	71	High mobility group 1 protein; high-mobility group	1e-04
1aab_A	83	High mobility group protein; HMG-BOX, DNA-binding;	1e-04
2eqz_A	86	High mobility group protein B3; HMG-box domain, mo	2e-04
3tmm_A	238	Transcription factor A, mitochondrial; HMG, high m	7e-04

>1wz6_A HMG-box transcription factor BBX; bobby SOX homolog, HMG_BOX domain, structural genomics, NPPSFA, riken structural genomics/proteomics initiative; NMR {Mus musculus} Length = 82

 Score = 71.9 bits (177), Expect = 4e-19
 Identities = 16/43 (37%), Positives = 25/43 (58%)

Query: 9  TAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          ++     RRPMNAF+++ K  R  +  E+P L N   +K+LA 
Sbjct: 2  SSGSSGARRPMNAFLLFCKRHRSLVRQEHPRLDNRGATKILAD 44

>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} Length = 87

 Score = 71.7 bits (176), Expect = 6e-19
 Identities = 15/50 (30%), Positives = 23/50 (46%)

Query: 2  SAHQQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          S+          + +RPMNAFM++AK  R +     P   N  +S +L  
Sbjct: 5  SSGGTVSATSPNKCKRPMNAFMLFAKKYRVEYTQMYPGKDNRAISVILGD 54

>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} PDB: 2yul_A Length = 83

 Score = 68.0 bits (167), Expect = 1e-17
 Identities = 31/42 (73%), Positives = 36/42 (85%)

Query: 10 AKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          +   RIRRPMNAFMVWAK ERK+LA +NPDLHNA+LSKML +
Sbjct: 2  SFTSRIRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGK 43

>4euw_A Transcription factor SOX-9; protein-DNA complex, HMG domain, activator, DNA-binding, NUC transcription; HET: DNA; 2.77A {Homo sapiens} Length = 106

 Score = 68.2 bits (167), Expect = 2e-17
 Identities = 25/47 (53%), Positives = 34/47 (72%)

Query: 5  QQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
            Q +  +  ++RPMNAFMVWA+  R+KLAD+ P LHNA+LSK L +
Sbjct: 20 YFQSSKNKPHVKRPMNAFMVWAQAARRKLADQYPHLHNAELSKTLGK 66

>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* Length = 76

 Score = 67.2 bits (165), Expect = 2e-17
 Identities = 19/40 (47%), Positives = 32/40 (80%)

Query: 12 EQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          + R++RPMNAF+VW++ +R+K+A ENP + N+++SK L  
Sbjct: 2  QDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGY 41

>4a3n_A Transcription factor SOX-17; 2.40A {Homo sapiens} Length = 71

 Score = 66.1 bits (162), Expect = 7e-17
 Identities = 30/37 (81%), Positives = 34/37 (91%)

Query: 15 IRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          IRRPMNAFMVWAK ERK+LA +NPDLHNA+LSKML +
Sbjct: 3  IRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGK 39

>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 Length = 81

 Score = 65.3 bits (160), Expect = 1e-16
 Identities = 22/40 (55%), Positives = 30/40 (75%)

Query: 12 EQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
             I+RPMNAFMVWAK ER+K+    PD+HN+++SK+L  
Sbjct: 2  SPHIKRPMNAFMVWAKDERRKILQAFPDMHNSNISKILGS 41

>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 Length = 85

 Score = 64.5 bits (158), Expect = 3e-16
 Identities = 19/40 (47%), Positives = 32/40 (80%)

Query: 12 EQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          + R++RPMNAF+VW++ +R+K+A ENP + N+++SK L  
Sbjct: 2  QDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGY 41

>1gt0_D Transcription factor SOX-2; POU factors, SOX proteins; 2.6A {Mus musculus} SCOP: a.21.1.1 PDB: 2le4_A 1o4x_B Length = 80

 Score = 64.5 bits (158), Expect = 3e-16
 Identities = 21/38 (55%), Positives = 32/38 (84%)

Query: 14 RIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          R++RPMNAFMVW++ +R+K+A ENP +HN+++SK L  
Sbjct: 2  RVKRPMNAFMVWSRGQRRKMAQENPKMHNSEISKRLGA 39

>3u2b_C Transcription factor SOX-4; HMG domain, transcriptional regulation, transcription-DNA CO; HET: DNA; 2.40A {Mus musculus} Length = 79

 Score = 63.0 bits (154), Expect = 1e-15
 Identities = 21/37 (56%), Positives = 34/37 (91%)

Query: 15 IRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          I+RPMNAFMVW+++ER+K+ +++PD+HNA++SK L +
Sbjct: 3  IKRPMNAFMVWSQIERRKIMEQSPDMHNAEISKRLGK 39

>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 Length = 90

 Score = 62.4 bits (152), Expect = 2e-15
 Identities = 13/47 (27%), Positives = 33/47 (70%)

Query: 5  QQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          Q+      ++ +RP++A  ++++ +R++L +E P+L  ++L+++LAR
Sbjct: 11 QEGGKGGSEKPKRPVSAMFIFSEEKRRQLQEERPELSESELTRLLAR 57

>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 Length = 86

 Score = 61.9 bits (151), Expect = 4e-15
 Identities = 12/37 (32%), Positives = 24/37 (64%)

Query: 15 IRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          I++P+NAFM++ K  R  +  E+    +A ++++L R
Sbjct: 3  IKKPLNAFMLYMKEMRANVVAESTLKESAAINQILGR 39

>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 Length = 159

 Score = 59.1 bits (143), Expect = 3e-13
 Identities = 19/40 (47%), Positives = 32/40 (80%)

Query: 12 EQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          + R++RPMNAF+VW++ +R+K+A ENP + N+++SK L  
Sbjct: 2  QDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGY 41

>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 Length = 159

 Score = 45.2 bits (107), Expect = 5e-08
 Identities = 13/48 (27%), Positives = 23/48 (47%)

Query: 4   HQQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
             ++K       +RP +AF ++    R K+  E+P L   D++K L  
Sbjct: 78  ETKKKFKDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGE 125

>2cs1_A PMS1 protein homolog 1; DNA mismatch repair protein PMS1, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 92

 Score = 50.9 bits (122), Expect = 9e-11
 Identities = 9/43 (20%), Positives = 20/43 (46%)

Query: 9  TAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          ++    I++PM+A  ++ +  R +   ENP     D +  +  
Sbjct: 2  SSGSSGIKKPMSASALFVQDHRPQFLIENPKTSLEDATLQIEE 44

>2crj_A SWI/SNF-related matrix-associated actin- dependent regulator of chromatin subfamily...; structural DNA-binding protein BRAF35, DNA-bending; NMR {Mus musculus} Length = 92

 Score = 48.1 bits (115), Expect = 1e-09
 Identities = 8/37 (21%), Positives = 20/37 (54%)

Query: 14 RIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLA 50
            + P+  ++ +    R+++   +PDL   +++KML 
Sbjct: 7  GPKAPVTGYVRFLNERREQIRTRHPDLPFPEITKMLG 43

>1hme_A High mobility group protein fragment-B; DNA-binding; NMR {Rattus norvegicus} SCOP: a.21.1.1 PDB: 1hmf_A 1nhm_A 1nhn_A 1hsm_A 1hsn_A 1j3c_A 1j3d_A 2yqi_A Length = 77

 Score = 47.2 bits (113), Expect = 2e-09
 Identities = 12/35 (34%), Positives = 20/35 (57%)

Query: 16 RRPMNAFMVWAKVERKKLADENPDLHNADLSKMLA 50
          +RP +AF ++    R K+  E+P L   D++K L 
Sbjct: 8  KRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLG 42

>1wxl_A Single-strand recognition protein; FACT, SSRP1, HMG, DNA binding protein; NMR {Drosophila melanogaster} Length = 73

 Score = 46.5 bits (111), Expect = 3e-09
 Identities = 10/36 (27%), Positives = 18/36 (50%)

Query: 16 RRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          +R   AFM+W    R+ +  ENP +   +++K    
Sbjct: 5  KRATTAFMLWLNDTRESIKRENPGIKVTEIAKKGGE 40

>3nm9_A HMG-D, high mobility group protein D; DNA bending, non-sequence-specific, HMG chromosomal protein; HET: DNA; 2.85A {Drosophila melanogaster} PDB: 1e7j_A* 1hma_A 1qrv_A* Length = 73

 Score = 45.4 bits (108), Expect = 1e-08
 Identities = 9/36 (25%), Positives = 20/36 (55%)

Query: 16 RRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          +RP++A+ +W    R+ +  ENP +   +++K    
Sbjct: 5  KRPLSAYALWLNSARESIKRENPGIKVTEVAKRGGE 40

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

 Score = 43.2 bits (102), Expect = 1e-07
 Identities = 7/36 (19%), Positives = 23/36 (63%)

Query: 16 RRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          ++P++A+ ++ +  +  +  +NP+    ++SK++A 
Sbjct: 19 QKPVSAYALFFRDTQAAIKGQNPNATFGEVSKIVAS 54

>1cg7_A Protein (NON histone protein 6 A); HMG BOX, DNA bending, DNA recognition, chromatin, DNA binding protein; NMR {Saccharomyces cerevisiae} SCOP: a.21.1.1 PDB: 1j5n_A 1lwm_A Length = 93

 Score = 41.9 bits (99), Expect = 3e-07
 Identities = 11/36 (30%), Positives = 19/36 (52%)

Query: 16 RRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          +R ++A+M +A   R  +  ENPD+    + K L  
Sbjct: 22 KRALSAYMFFANENRDIVRSENPDITFGQVGKKLGE 57

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

 Score = 41.6 bits (98), Expect = 4e-07
 Identities = 10/36 (27%), Positives = 23/36 (63%)

Query: 16 RRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          ++P+  +  +   +R K A  +P++ N DL+K+L++
Sbjct: 12 KKPLTPYFRFFMEKRAKYAKLHPEMSNLDLTKILSK 47

>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} Length = 81

 Score = 40.2 bits (93), Expect = 1e-06
 Identities = 11/37 (29%), Positives = 17/37 (45%), Gaps = 1/37 (2%)

Query: 16 RRPMNAFMVWAKVERKKLADENPDLHN-ADLSKMLAR 51
           RP   F +W +  R  +  +NPD  + AD+ K    
Sbjct: 7  GRPKTGFQMWLEENRSNILSDNPDFSDEADIIKEGMI 43

>2lhj_A High mobility group protein homolog NHP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid; NMR {Babesia bovis} Length = 97

 Score = 39.7 bits (93), Expect = 2e-06
 Identities = 11/40 (27%), Positives = 24/40 (60%), Gaps = 2/40 (5%)

Query: 14 RIRRPMNAFMVWAKVERKKLADENPDLHN--ADLSKMLAR 51
            +R ++++M +AK +R ++  ENP++    A + KM+  
Sbjct: 22 APKRALSSYMFFAKEKRVEIIAENPEIAKDVAAIGKMIGA 61

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

 Score = 40.4 bits (94), Expect = 4e-06
 Identities = 13/48 (27%), Positives = 23/48 (47%)

Query: 4   HQQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
             ++K       +RP +AF ++    R K+  E+P L   D++K L  
Sbjct: 91  ETKKKFKDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGE 138

>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 Length = 71

 Score = 35.1 bits (81), Expect = 1e-04
 Identities = 7/37 (18%), Positives = 19/37 (51%), Gaps = 2/37 (5%)

Query: 16 RRPMNAFMVWAKVERKKLADENPDLHN--ADLSKMLA 50
          R  M+++  + +  R++   ++PD     ++ SK  +
Sbjct: 3  RGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCS 39

>1aab_A High mobility group protein; HMG-BOX, DNA-binding; NMR {Rattus norvegicus} SCOP: a.21.1.1 Length = 83

 Score = 35.0 bits (81), Expect = 1e-04
 Identities = 7/37 (18%), Positives = 21/37 (56%), Gaps = 2/37 (5%)

Query: 16 RRPMNAFMVWAKVERKKLADENPD--LHNADLSKMLA 50
          R  M+++  + +  R++   ++PD  ++ ++ SK  +
Sbjct: 9  RGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCS 45

>2eqz_A High mobility group protein B3; HMG-box domain, mobility group protein 2A, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 86

 Score = 35.0 bits (81), Expect = 2e-04
 Identities = 8/37 (21%), Positives = 20/37 (54%), Gaps = 2/37 (5%)

Query: 16 RRPMNAFMVWAKVERKKLADENPDLHN--ADLSKMLA 50
          +  M+A+  + +  R++   +NP++    A+ SK  +
Sbjct: 17 KGKMSAYAFFVQTCREEHKKKNPEVPVNFAEFSKKCS 53

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

 Score = 34.4 bits (78), Expect = 7e-04
 Identities = 7/46 (15%), Positives = 23/46 (50%)

Query: 5  QQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLA 50
          +   +      ++P+++++ ++K +      +NPD    +L + +A
Sbjct: 32 RGSSSVLASCPKKPVSSYLRFSKEQLPIFKAQNPDAKTTELIRRIA 77

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	60
2e6o_A	87	HMG box-containing protein 1; HMG-box domain, HMG-	99.86
1wgf_A	90	Upstream binding factor 1; transcription factor, D	99.86
1k99_A	99	Upstream binding factor 1; alpha-helix, L-shape, D	99.86
2d7l_A	81	WD repeat and HMG-box DNA binding protein 1; high	99.85
2crj_A	92	SWI/SNF-related matrix-associated actin- dependent	99.85
1hme_A	77	High mobility group protein fragment-B; DNA-bindin	99.85
1hry_A	76	Human SRY; DNA, DNA-binding protein, DNA binding p	99.85
3nm9_A	73	HMG-D, high mobility group protein D; DNA bending,	99.85
2co9_A	102	Thymus high mobility group box protein TOX; TOX pr	99.84
2eqz_A	86	High mobility group protein B3; HMG-box domain, mo	99.84
1i11_A	81	Transcription factor SOX-5; HMG BOX, DNA bending,	99.84
1j46_A	85	SRY, sex-determining region Y protein; MALE sex de	99.83
3u2b_C	79	Transcription factor SOX-4; HMG domain, transcript	99.83
4a3n_A	71	Transcription factor SOX-17; 2.40A {Homo sapiens}	99.83
3f27_D	83	Transcription factor SOX-17; protein-DNA complex,	99.83
1wz6_A	82	HMG-box transcription factor BBX; bobby SOX homolo	99.83
1wxl_A	73	Single-strand recognition protein; FACT, SSRP1, HM	99.82
2cs1_A	92	PMS1 protein homolog 1; DNA mismatch repair protei	99.82
4euw_A	106	Transcription factor SOX-9; protein-DNA complex, H	99.82
2lef_A	86	LEF-1 HMG, protein (lymphoid enhancer-binding fact	99.82
1gt0_D	80	Transcription factor SOX-2; POU factors, SOX prote	99.82
1ckt_A	71	High mobility group 1 protein; high-mobility group	99.81
1aab_A	83	High mobility group protein; HMG-BOX, DNA-binding;	99.81
1cg7_A	93	Protein (NON histone protein 6 A); HMG BOX, DNA be	99.81
2lhj_A	97	High mobility group protein homolog NHP1; structur	99.8
2gzk_A	159	Sex-determining region on Y / HMGB1; protein-DNA c	99.76
2yrq_A	173	High mobility group protein B1; HMG box domain, DN	99.76
2yrq_A	173	High mobility group protein B1; HMG box domain, DN	99.74
3fgh_A	67	Transcription factor A, mitochondrial; HMG domain,	99.7
1v64_A	108	Nucleolar transcription factor 1; DNA binding, str	99.7
2cto_A	93	Novel protein; high mobility group box domain, hel	99.69
2yuk_A	90	Myeloid/lymphoid or mixed-lineage leukemia protein	99.69
1l8y_A	91	Upstream binding factor 1; HUBF, HMG box 5, DNA bi	99.68
2gzk_A	159	Sex-determining region on Y / HMGB1; protein-DNA c	99.67
3tq6_A	214	Transcription factor A, mitochondrial; transcripti	99.67
3tmm_A	238	Transcription factor A, mitochondrial; HMG, high m	99.66
1v63_A	101	Nucleolar transcription factor 1; DNA binding, str	99.63
3tmm_A	238	Transcription factor A, mitochondrial; HMG, high m	99.51
3tq6_A	214	Transcription factor A, mitochondrial; transcripti	99.51

>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=99.86  E-value=4.2e-22  Score=110.79  Aligned_cols=53  Identities=26%  Similarity=0.372  Sum_probs=50.0

Q ss_pred             ccccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249          7 QKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus         7 ~~~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      .+.+++++||||+||||||++++|..|+.++|++++.||+++||++|++|+++
T Consensus        10 ~~~kdp~~pKrP~~af~lf~~~~r~~~~~~~P~~~~~eisk~lg~~Wk~ls~e   62 (87)
T 2e6o_A           10 VSATSPNKCKRPMNAFMLFAKKYRVEYTQMYPGKDNRAISVILGDRWKKMKNE   62 (87)
T ss_dssp             CCCCCCSSCCCCCCHHHHHHHHTHHHHHHHCTTSCHHHHHHHHHHHHHHSCHH
T ss_pred             CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCCHH
Confidence            46679999999999999999999999999999999999999999999999864

>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=99.86  E-value=4.9e-22  Score=111.18  Aligned_cols=54  Identities=22%  Similarity=0.561  Sum_probs=50.4

Q ss_pred             cccccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249          6 QQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus         6 ~~~~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      ..+.+++++||||+||||||++++|..|+.+||++++.||+++||++|++|+++
T Consensus        12 ~k~~kdp~~pKrP~say~lF~~~~r~~~k~~~P~~~~~eisk~lg~~Wk~ls~e   65 (90)
T 1wgf_A           12 EGGKGGSEKPKRPVSAMFIFSEEKRRQLQEERPELSESELTRLLARMWNDLSEK   65 (90)
T ss_dssp             CCCSSCCCCCCCCCCHHHHHHHHTHHHHHHHCTTSCHHHHHHHHHHHHHHSCHH
T ss_pred             CcCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCCHH
Confidence            345679999999999999999999999999999999999999999999999864

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

Probab=99.86  E-value=8e-22  Score=112.20  Aligned_cols=53  Identities=19%  Similarity=0.359  Sum_probs=50.6

Q ss_pred             ccccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249          7 QKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus         7 ~~~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      .+.++++.||||+|||||||++.|..|+.++|++++.|||++||++|++|+++
T Consensus         3 kk~kdp~~PKRP~saf~lF~~~~r~~ik~~~P~~~~~eisk~lg~~Wk~ls~e   55 (99)
T 1k99_A            3 KLKKHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMSNLDLTKILSKKYKELPEK   55 (99)
T ss_dssp             CCCSSSSSCCCSCCHHHHHHHHHHHHHHTTCTTSCSHHHHHHHHHHHHHSCST
T ss_pred             CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCCHH
Confidence            46689999999999999999999999999999999999999999999999986

>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=99.85  E-value=9.8e-22  Score=108.88  Aligned_cols=50  Identities=22%  Similarity=0.385  Sum_probs=47.0

Q ss_pred             cCCCCCCCCChHHHHHHHHHHHHHHhhCCCCC-HHHHHHHHHHHhhcCCCC
Q psy14249         10 AKEQRIRRPMNAFMVWAKVERKKLADENPDLH-NADLSKMLARILLTCAPT   59 (60)
Q Consensus        10 ~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~-~~eisk~lg~~W~~l~~~   59 (60)
                      ++++.||||+||||+|++++|..|+.+||+++ +.|||++||++|++|+++
T Consensus         1 ~~~~~PKRP~say~lF~~e~R~~ik~~~P~~~~~~eisK~lge~Wk~ls~e   51 (81)
T 2d7l_A            1 GSSGSSGRPKTGFQMWLEENRSNILSDNPDFSDEADIIKEGMIRFRVLSTE   51 (81)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHHHHHHCTTCCSHHHHHHHHHHHHSSSCHH
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHHcCCHH
Confidence            36789999999999999999999999999998 999999999999999863

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

Probab=99.85  E-value=2.2e-21  Score=108.83  Aligned_cols=51  Identities=18%  Similarity=0.394  Sum_probs=49.0

Q ss_pred             ccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249          9 TAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus         9 ~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      .+++++||||+||||+|++++|..|+.+||++++.|||++||++|++|+++
T Consensus         2 ~kdp~~pKrP~~af~lF~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~e   52 (92)
T 2crj_A            2 SSGSSGPKAPVTGYVRFLNERREQIRTRHPDLPFPEITKMLGAEWSKLQPA   52 (92)
T ss_dssp             CCCCSSSCCCCCHHHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHTCCTT
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcCCHH
Confidence            468999999999999999999999999999999999999999999999975

>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=99.85  E-value=1.2e-21  Score=106.32  Aligned_cols=51  Identities=25%  Similarity=0.396  Sum_probs=48.7

Q ss_pred             ccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249          9 TAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus         9 ~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      .++++.||||+||||+|++++|..|+.+||++++.|||++||++|++|+++
T Consensus         1 kkdp~~pKrP~saf~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~~   51 (77)
T 1hme_A            1 FKDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAAD   51 (77)
T ss_dssp             CCCSSCCCCCCCTTHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHSCGG
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCCHH
Confidence            368999999999999999999999999999999999999999999999875

>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=99.85  E-value=6.2e-22  Score=107.24  Aligned_cols=49  Identities=39%  Similarity=0.716  Sum_probs=45.4

Q ss_pred             CCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         11 KEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        11 ~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      ++++||||+||||||++++|..|+.+||++++.|||++||++|++|+++
T Consensus         1 dp~~pkrP~~af~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~~   49 (76)
T 1hry_A            1 VQDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEA   49 (76)
T ss_dssp             --CCCCCCCCHHHHHHHHHHHHHHHHCSCCSSSHHHHHHHHHHHTCCHH
T ss_pred             CcCCCCCCCCHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHhHHHhCCHH
Confidence            5789999999999999999999999999999999999999999999864

>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=99.85  E-value=2.7e-21  Score=104.39  Aligned_cols=47  Identities=19%  Similarity=0.486  Sum_probs=44.9

Q ss_pred             CCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCC
Q psy14249         12 EQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAP   58 (60)
Q Consensus        12 ~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~   58 (60)
                      .+.||||+||||+||+++|..|+.+||++++.||+++||++|++|++
T Consensus         1 s~~PKrP~say~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~   47 (73)
T 3nm9_A            1 SDKPKRPLSAYALWLNSARESIKRENPGIKVTEVAKRGGELWRAMKD   47 (73)
T ss_dssp             CCCCCCCCCHHHHHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHHCSC
T ss_pred             CccCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcCCc
Confidence            36899999999999999999999999999999999999999999975

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

Probab=99.84  E-value=1.6e-21  Score=111.32  Aligned_cols=54  Identities=15%  Similarity=0.336  Sum_probs=50.3

Q ss_pred             cccccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249          6 QQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus         6 ~~~~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      ..+.++++.||||+||||||++++|..|+.+||++++.||+++||++|++|+++
T Consensus         9 kk~~kdp~~pKrP~say~lF~~~~r~~i~~~~P~~~~~eisk~lg~~Wk~ls~e   62 (102)
T 2co9_A            9 KKKKKDPNEPQKPVSAYALFFRDTQAAIKGQNPNATFGEVSKIVASMWDGLGEE   62 (102)
T ss_dssp             CSSCCCCCSCCCCCCHHHHTHHHHHHHHHHHCTTSCHHHHHHHHHHHHTTCCHH
T ss_pred             CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHccCCHH
Confidence            345679999999999999999999999999999999999999999999999864

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

Probab=99.84  E-value=2.6e-21  Score=107.26  Aligned_cols=57  Identities=16%  Similarity=0.241  Sum_probs=51.7

Q ss_pred             ccccccccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCC--HHHHHHHHHHHhhcCCCC
Q psy14249          3 AHQQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLH--NADLSKMLARILLTCAPT   59 (60)
Q Consensus         3 ~~~~~~~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~--~~eisk~lg~~W~~l~~~   59 (60)
                      +......++++.||||+||||+|++++|..|+.+||+++  +.||+++||++|++|+++
T Consensus         4 g~~~~~~kdp~~PKrP~say~lF~~~~r~~~k~~~p~~~~~~~eisk~lg~~Wk~ls~~   62 (86)
T 2eqz_A            4 GSSGMAKGDPKKPKGKMSAYAFFVQTCREEHKKKNPEVPVNFAEFSKKCSERWKTMSGK   62 (86)
T ss_dssp             CCSSCSSCCSSSCCCCCCHHHHHHHHHHHHHHHHCTTSCCCHHHHHHHHHHHHHSSCHH
T ss_pred             CCCCCCCCCCCCCCCCCcHHHHHHHHHHHHHHHHCCCCCCcHHHHHHHHHHHHHhCCHH
Confidence            445566789999999999999999999999999999997  699999999999999864

>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=99.84  E-value=4.5e-21  Score=105.11  Aligned_cols=48  Identities=46%  Similarity=0.774  Sum_probs=45.6

Q ss_pred             CCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         12 EQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        12 ~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      .++||||+||||||++++|..|+.++|++++.|||++||++|++|+++
T Consensus         2 ~~~pkRP~naf~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~e   49 (81)
T 1i11_A            2 SPHIKRPMNAFMVWAKDERRKILQAFPDMHNSNISKILGSRWKAMTNL   49 (81)
T ss_dssp             -CCSCCSCCHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHHHTTSCSG
T ss_pred             cCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHhhhhhCCHH
Confidence            578999999999999999999999999999999999999999999875

>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=99.83  E-value=4.2e-21  Score=106.25  Aligned_cols=48  Identities=40%  Similarity=0.742  Sum_probs=46.1

Q ss_pred             CCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         12 EQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        12 ~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      +++||||+||||||++++|..|+.+||++++.|||++||++|++|+++
T Consensus         2 p~~pKRP~~af~lf~~~~r~~~~~~~P~~~~~eisk~lg~~Wk~ls~e   49 (85)
T 1j46_A            2 QDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEA   49 (85)
T ss_dssp             CCCCCCCCCHHHHHHHHHHHHHHHHSTTSCHHHHHHHHHHHHTTSCHH
T ss_pred             cCcCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCHH
Confidence            689999999999999999999999999999999999999999999864

>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=99.83  E-value=3.5e-21  Score=104.81  Aligned_cols=47  Identities=45%  Similarity=0.861  Sum_probs=44.9

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         13 QRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        13 ~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      ++||||+||||||++++|..|+.++|++++.|||++||++|++|+++
T Consensus         1 G~iKRP~naf~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~~   47 (79)
T 3u2b_C            1 GHIKRPMNAFMVWSQIERRKIMEQSPDMHNAEISKRLGKRWKLLKDS   47 (79)
T ss_dssp             CCCCCCCCHHHHHHHHHHHHHHTTSTTSCHHHHHHHHHHHHHHSCHH
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCCHH
Confidence            57999999999999999999999999999999999999999999864

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

Probab=99.83  E-value=3e-21  Score=103.05  Aligned_cols=47  Identities=64%  Similarity=0.953  Sum_probs=41.8

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         13 QRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        13 ~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      ++||||+||||||++++|..|+.++|++++.|||++||++|++|+++
T Consensus         1 gk~krP~~af~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~~   47 (71)
T 4a3n_A            1 GSIRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGKSWKALTLA   47 (71)
T ss_dssp             ----CCCCHHHHHHHHHHHHHHTTCTTSCHHHHHHHHHHHHHHSCHH
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhcCCHH
Confidence            47999999999999999999999999999999999999999999864

>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=99.83  E-value=4e-21  Score=105.48  Aligned_cols=49  Identities=63%  Similarity=0.932  Sum_probs=43.7

Q ss_pred             CCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         11 KEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        11 ~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      .+++||||+||||||++++|..|+.+||++++.|||++||++|++|+++
T Consensus         3 ~~~~pKrP~~af~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~~   51 (83)
T 3f27_D            3 FTSRIRRPMNAFMVWAKDERKRLAQQNPDLHNAELSKMLGKSWKALTLA   51 (83)
T ss_dssp             ----CCCCCCHHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHSCHH
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhcCCHH
Confidence            4678999999999999999999999999999999999999999999864

>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=99.83  E-value=4.8e-21  Score=105.20  Aligned_cols=51  Identities=33%  Similarity=0.548  Sum_probs=48.0

Q ss_pred             ccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249          9 TAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus         9 ~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      ..++++||||+||||||++++|..|+.+||++++.|||++||++|++|+++
T Consensus         2 ~~~~~~pkrP~~af~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~~   52 (82)
T 1wz6_A            2 SSGSSGARRPMNAFLLFCKRHRSLVRQEHPRLDNRGATKILADWWAVLDPK   52 (82)
T ss_dssp             CSSCCCSCCCCCHHHHHHHHHHHHHHHHCSSSCTTHHHHHHHHHHHTCCHH
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCCHH
Confidence            357889999999999999999999999999999999999999999999864

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

Probab=99.82  E-value=1.9e-20  Score=101.01  Aligned_cols=45  Identities=22%  Similarity=0.438  Sum_probs=43.9

Q ss_pred             CCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcC
Q psy14249         12 EQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTC   56 (60)
Q Consensus        12 ~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l   56 (60)
                      |+.||||+||||+|++++|..|+.+||++++.|||++||++|++|
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            578999999999999999999999999999999999999999999

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

Probab=99.82  E-value=1.1e-20  Score=105.98  Aligned_cols=51  Identities=20%  Similarity=0.307  Sum_probs=48.0

Q ss_pred             ccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249          9 TAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus         9 ~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      ..++++||||+||||+|++++|..|+.+||++++.||+++||++|++|+++
T Consensus         2 ~~~p~~pKrP~say~lF~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~e   52 (92)
T 2cs1_A            2 SSGSSGIKKPMSASALFVQDHRPQFLIENPKTSLEDATLQIEELWKTLSEE   52 (92)
T ss_dssp             CCCCSSSCCCCCHHHHHHHHHHHHHHHHCCSSCHHHHHHHHHHHHHSSCHH
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhcCCHH
Confidence            357889999999999999999999999999999999999999999999864

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

Probab=99.82  E-value=1.1e-20  Score=108.60  Aligned_cols=54  Identities=46%  Similarity=0.789  Sum_probs=45.6

Q ss_pred             cccccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249          6 QQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus         6 ~~~~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      .+..+++++||||+|||||||+++|..|+.++|++++.|||++||++|++|+++
T Consensus        21 ~~~~k~~~~pKRP~naf~lF~~~~r~~~k~~~P~~~~~eisk~lg~~Wk~ls~e   74 (106)
T 4euw_A           21 FQSSKNKPHVKRPMNAFMVWAQAARRKLADQYPHLHNAELSKTLGKLWRLLNES   74 (106)
T ss_dssp             -------CCCCCCCCHHHHHHHHHHHHHHHHCTTSCHHHHHHHHHHHHTTCCHH
T ss_pred             hhccCCCCcCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcCCHH
Confidence            346688999999999999999999999999999999999999999999999864

>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=99.82  E-value=1.3e-20  Score=104.31  Aligned_cols=47  Identities=26%  Similarity=0.434  Sum_probs=44.8

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         13 QRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        13 ~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      .+||||+||||||++++|..|+.+||++++.|||++||++|++|+++
T Consensus         1 ~~pKRP~naf~lf~~~~r~~~~~~~P~~~~~eisk~lg~~Wk~ls~e   47 (86)
T 2lef_A            1 MHIKKPLNAFMLYMKEMRANVVAESTLKESAAINQILGRRWHALSRE   47 (86)
T ss_dssp             CCCCCCCCHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHTTSCHH
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhcCCHH
Confidence            37999999999999999999999999999999999999999999864

>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=99.82  E-value=1.2e-20  Score=103.04  Aligned_cols=47  Identities=47%  Similarity=0.844  Sum_probs=44.9

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         13 QRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        13 ~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      ++||||+||||+|++++|..|+.++|++++.|||++||++|++|+++
T Consensus         1 ~~pkrP~~af~lf~~~~r~~~~~~~p~~~~~eisk~lg~~Wk~ls~e   47 (80)
T 1gt0_D            1 DRVKRPMNAFMVWSRGQRRKMAQENPKMHNSEISKRLGAEWKLLSET   47 (80)
T ss_dssp             CCCCCCCCHHHHHHHHHHHHHHTTSTTSCHHHHHHHHHHHHTTSCHH
T ss_pred             CcCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCCHH
Confidence            47999999999999999999999999999999999999999999864

>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=99.81  E-value=4.5e-20  Score=98.65  Aligned_cols=46  Identities=17%  Similarity=0.294  Sum_probs=43.7

Q ss_pred             CCCCCChHHHHHHHHHHHHHHhhCCCCCH--HHHHHHHHHHhhcCCCC
Q psy14249         14 RIRRPMNAFMVWAKVERKKLADENPDLHN--ADLSKMLARILLTCAPT   59 (60)
Q Consensus        14 ~pKRP~naf~lf~~~~r~~i~~~~P~~~~--~eisk~lg~~W~~l~~~   59 (60)
                      +||||+||||+|++++|..|+.+||++++  .||+++||++|++|+++
T Consensus         1 kPKrP~say~~F~~~~r~~~~~~~p~~~~~~~eisk~lg~~Wk~ls~~   48 (71)
T 1ckt_A            1 KPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAK   48 (71)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHHHHCTTCCCCHHHHHHHHHHHHHTCCTT
T ss_pred             CcCCCCCHHHHHHHHHHHHHHHHCCCCCCcHHHHHHHHHHHHhhCCHH
Confidence            58999999999999999999999999975  99999999999999986

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

Probab=99.81  E-value=1.1e-20  Score=104.02  Aligned_cols=51  Identities=16%  Similarity=0.294  Sum_probs=48.0

Q ss_pred             ccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCC--HHHHHHHHHHHhhcCCCC
Q psy14249          9 TAKEQRIRRPMNAFMVWAKVERKKLADENPDLH--NADLSKMLARILLTCAPT   59 (60)
Q Consensus         9 ~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~--~~eisk~lg~~W~~l~~~   59 (60)
                      .++++.||||+||||+|++++|..|+.+||+++  +.||+++||++|++|+++
T Consensus         2 kkdp~~PKrP~say~lF~~~~r~~~~~~~p~~~~~~~eisk~lg~~Wk~ls~~   54 (83)
T 1aab_A            2 KGDPKKPRGKMSSYAFFVQTSREEHKKKHPDASVNFSEFSKKCSERWKTMSAK   54 (83)
T ss_dssp             CCCTTCCCCCCCHHHHHHHHHHHHHTTSCTTTCCCSSSSHHHHHHHHTTSCTT
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCcHHHHHHHHHHHHHhCCHH
Confidence            468999999999999999999999999999997  599999999999999875

>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=99.81  E-value=2.8e-21  Score=108.67  Aligned_cols=53  Identities=25%  Similarity=0.426  Sum_probs=49.5

Q ss_pred             ccccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249          7 QKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus         7 ~~~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      .+.++++.||||+||||||++++|..|+.+||++++.|||++||++|++|+++
T Consensus        13 k~~kdp~~pKrP~saf~lF~~~~r~~~~~~~P~~~~~eisk~lg~~Wk~ls~e   65 (93)
T 1cg7_A           13 RKKKDPNAPKRALSAYMFFANENRDIVRSENPDITFGQVGKKLGEKWKALTPE   65 (93)
T ss_dssp             CCCCCSSCCCSCCCHHHHHHHHHTSTTTTTCTTSCHHHHTTTHHHHHHTTHHH
T ss_pred             CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCCHH
Confidence            45578999999999999999999999999999999999999999999999753

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

Probab=99.80  E-value=6.1e-21  Score=107.84  Aligned_cols=53  Identities=21%  Similarity=0.395  Sum_probs=50.0

Q ss_pred             ccccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCC--HHHHHHHHHHHhhcCCCC
Q psy14249          7 QKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLH--NADLSKMLARILLTCAPT   59 (60)
Q Consensus         7 ~~~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~--~~eisk~lg~~W~~l~~~   59 (60)
                      .+.++++.||||+||||||++++|..|+.+||+++  +.|||++||++|++|+++
T Consensus        15 k~~kdp~~pKrP~say~lF~~~~r~~~k~~~p~~~~~~~eisk~lg~~Wk~ls~e   69 (97)
T 2lhj_A           15 KAKKDPNAPKRALSSYMFFAKEKRVEIIAENPEIAKDVAAIGKMIGAAWNALSDE   69 (97)
T ss_dssp             CTTSCCCCCCCCCCSSTHHHHGGGGGHHHHCTTSTTCSSHHHHHHHHTSSSSCST
T ss_pred             cCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCccHHHHHHHHHHHHHhCCHH
Confidence            35578999999999999999999999999999999  999999999999999986

>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=99.76  E-value=6.4e-19  Score=106.05  Aligned_cols=53  Identities=26%  Similarity=0.411  Sum_probs=49.5

Q ss_pred             ccccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249          7 QKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus         7 ~~~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      .+.++++.||||+||||+||+++|..|+.+||+++++||+++||++|++|+++
T Consensus        81 k~~kdp~~pKrp~say~lf~~~~r~~~~~~~p~~~~~ei~k~lg~~Wk~ls~~  133 (159)
T 2gzk_A           81 KKFKDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAAD  133 (159)
T ss_dssp             GGSCCTTCCCCCCCHHHHHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHHSCHH
T ss_pred             ccccccccccccccccchhhHhhHHHHHHhCCCCCHHHHHHHHHHHHHhCCHH
Confidence            34578999999999999999999999999999999999999999999999864

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

Probab=99.76  E-value=1.3e-18  Score=106.14  Aligned_cols=52  Identities=27%  Similarity=0.409  Sum_probs=49.2

Q ss_pred             cccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249          8 KTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus         8 ~~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      +.++++.||||+||||||++++|..|+.+||++++.||+++||++|++|+++
T Consensus        95 ~~kdp~~pKrP~saf~lf~~~~r~~~~~~~p~~~~~ei~k~lg~~Wk~ls~~  146 (173)
T 2yrq_A           95 KFKDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAAD  146 (173)
T ss_dssp             SCCCSSSCCCCCCHHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHSCGG
T ss_pred             cccCCccccCcccHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCCHH
Confidence            4468999999999999999999999999999999999999999999999875

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

Probab=99.74  E-value=2.8e-18  Score=104.63  Aligned_cols=55  Identities=15%  Similarity=0.262  Sum_probs=50.3

Q ss_pred             ccccccCCCCCCCCChHHHHHHHHHHHHHHhhCCC--CCHHHHHHHHHHHhhcCCCC
Q psy14249          5 QQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPD--LHNADLSKMLARILLTCAPT   59 (60)
Q Consensus         5 ~~~~~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~--~~~~eisk~lg~~W~~l~~~   59 (60)
                      .....++++.||||+||||+|++++|..|+.+||+  +++.||+++||++|++|+++
T Consensus         6 ~k~~k~dp~~PKrp~say~lF~~~~r~~~k~~~p~~~~~~~eisk~lg~~Wk~ls~~   62 (173)
T 2yrq_A            6 SGMGKGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAK   62 (173)
T ss_dssp             CSSSSCCSSSCCCCCCHHHHHHHHHHHHHHHHCTTCCCCHHHHHHHHHHHHHHSCHH
T ss_pred             CCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHhCCHH
Confidence            34456799999999999999999999999999999  68999999999999999864

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

Probab=99.70  E-value=4.7e-18  Score=90.15  Aligned_cols=43  Identities=14%  Similarity=0.246  Sum_probs=39.5

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         13 QRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        13 ~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      ++||||+||||+|++++|..++.++|    .||+++||++|++|+++
T Consensus         1 g~PKrP~say~~F~~~~r~~~k~~~p----~ei~k~lg~~Wk~ls~~   43 (67)
T 3fgh_A            1 GKPKRPRSAYNVYVAERFQEAKGDSP----QEKLKTVKENWKNLSDS   43 (67)
T ss_dssp             CCCCCCCCHHHHHHHHHHHHHCSSSH----HHHHHHHHHHHHTCCHH
T ss_pred             CcCCCCCCHHHHHHHHHHHHHHhcCH----HHHHHHHHHHHhhCCHH
Confidence            57999999999999999999998776    79999999999999864

>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=99.70  E-value=9.9e-18  Score=96.66  Aligned_cols=51  Identities=12%  Similarity=0.153  Sum_probs=46.3

Q ss_pred             ccccccCCCCC-CCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249          5 QQQKTAKEQRI-RRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus         5 ~~~~~~~~~~p-KRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      .+.+.++++.| |||+||||+||+++|..|+    ++++.||+++||++|++|+++
T Consensus         7 ~~kk~kd~~~P~KrP~say~lF~~e~r~~~k----~~~~~eisk~lg~~Wk~Ls~~   58 (108)
T 1v64_A            7 GQLKDKFDGRPTKPPPNSYSLYCAELMANMK----DVPSTERMVLCSQQWKLLSQK   58 (108)
T ss_dssp             CCSSCCTTTSCCCCCSSHHHHHHHHHHHHCT----TSCHHHHHHHHHHHHHHSCHH
T ss_pred             cccccCCCCCCCCCCCCHHHHHHHHHHHHHh----CCCHHHHHHHHHHHHHhCCHH
Confidence            45677899999 9999999999999999987    789999999999999999864

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

Probab=99.69  E-value=4.7e-18  Score=96.33  Aligned_cols=50  Identities=10%  Similarity=0.095  Sum_probs=46.0

Q ss_pred             cccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHH---HHHhhcCCCC
Q psy14249          8 KTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKML---ARILLTCAPT   59 (60)
Q Consensus         8 ~~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~l---g~~W~~l~~~   59 (60)
                      .....++||||+||||+|++++|.+|+.+  ++++.||+++|   |++|++|+++
T Consensus         4 ~~~~~~~PKRP~sAf~lF~~e~R~~ik~e--~~~~~eisK~l~~cGe~Wk~ls~e   56 (93)
T 2cto_A            4 GSSGMPNRKASRNAYYFFVQEKIPELRRR--GLPVARVADAIPYCSSDWALLREE   56 (93)
T ss_dssp             CCCCCCCCCSSCCHHHHHHHTTHHHHHHH--TCCCSSHHHHTGGGHHHHHHSCHH
T ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHHHHcCCHH
Confidence            35678899999999999999999999998  89999999999   9999999863

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

Probab=99.69  E-value=3.4e-19  Score=100.65  Aligned_cols=49  Identities=12%  Similarity=0.173  Sum_probs=45.2

Q ss_pred             ccccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCC--HHHHHHHHHHHhhcCCCC
Q psy14249          7 QKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLH--NADLSKMLARILLTCAPT   59 (60)
Q Consensus         7 ~~~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~--~~eisk~lg~~W~~l~~~   59 (60)
                      ...++++.||||+|||||||+++|.+|+.+||+++  ++||+    ++|++|+++
T Consensus        15 k~~kDpnaPKRp~sAf~lf~~e~R~kik~enP~~s~~~~eIs----e~Wk~ls~e   65 (90)
T 2yuk_A           15 KWEKEEALGEMATVAPVLYTNINFPNLKEEFPDWTTRVKQIA----KLWRKASSQ   65 (90)
T ss_dssp             HHHHHHHHGGGCSSSHHHHHHHHCTTHHHHCCSHHHHHHHHH----HHHHHSCHH
T ss_pred             hccCCCCCCCCCccHHHHHHHHhHHHHHHHCcCccchHHHHH----HHHHcCCHH
Confidence            34578999999999999999999999999999999  99999    999999864

>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=99.68  E-value=5.9e-17  Score=91.65  Aligned_cols=46  Identities=9%  Similarity=0.049  Sum_probs=44.0

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         13 QRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        13 ~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      +.||||++|||||+++.|..++.++|+ +++||++.||++|++|+++
T Consensus         3 ~kPKrP~SAy~lf~~~~r~~~k~~~p~-~~~evsK~lGe~Wk~ls~~   48 (91)
T 1l8y_A            3 KLPESPKRAEEIWQQSVIGDYLARFKN-DRVKALKAMEMTWNNMEKK   48 (91)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHHHHHTTS-THHHHHHHHHHHHHTTGGG
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHhcCCHH
Confidence            689999999999999999999999999 9999999999999999864

>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=99.67  E-value=4.9e-17  Score=97.77  Aligned_cols=48  Identities=40%  Similarity=0.742  Sum_probs=45.8

Q ss_pred             CCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         12 EQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        12 ~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      +++||||+||||+|+++.|.+|+.+||++++.|||++||++|++|+++
T Consensus         2 ~~~~Krp~~af~~~~~~~~~ki~~~~P~~~~~eisk~lg~~Wk~ls~~   49 (159)
T 2gzk_A            2 QDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEA   49 (159)
T ss_dssp             TTCCCCCCCHHHHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHSCHH
T ss_pred             cCCCCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhhHH
Confidence            678999999999999999999999999999999999999999999863

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

Probab=99.67  E-value=2.5e-17  Score=103.87  Aligned_cols=50  Identities=14%  Similarity=0.302  Sum_probs=46.8

Q ss_pred             cCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         10 AKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        10 ~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      ..++.||||+||||+|++++|..|+.+||++++.|||++||++|++|+++
T Consensus         5 ~~p~~PKrP~say~lF~~~~r~~~k~~~P~~~~~eisk~lge~Wk~Ls~~   54 (214)
T 3tq6_A            5 VLASCPKKPVSSYLRFSKEQLPIFKAQNPDAKTTELIRRIAQRWRELPDS   54 (214)
T ss_dssp             HHHHSCCCCCCHHHHHHHHHHHHHHHHCTTSCHHHHHHHHHHHHHHSCHH
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHccCHH
Confidence            34678999999999999999999999999999999999999999999863

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

Probab=99.66  E-value=2.6e-17  Score=105.16  Aligned_cols=51  Identities=14%  Similarity=0.306  Sum_probs=47.7

Q ss_pred             ccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249          9 TAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus         9 ~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      ..+++.||||+||||+|++++|..|+.+||++++.||+++||++|++|+++
T Consensus        36 ~~~p~~PKrP~say~lF~~e~r~~~k~~~P~~~~~eisk~lge~Wk~Ls~~   86 (238)
T 3tmm_A           36 SVLASCPKKPVSSYLRFSKEQLPIFKAQNPDAKTTELIRRIAQRWRELPDS   86 (238)
T ss_dssp             CHHHHSCCCCCCHHHHHHHHHHHHHHHHSTTSCHHHHHHHHHHHHHHSCHH
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhCCHH
Confidence            356789999999999999999999999999999999999999999999863

>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=99.63  E-value=2.2e-16  Score=90.05  Aligned_cols=49  Identities=10%  Similarity=0.087  Sum_probs=41.5

Q ss_pred             ccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249          9 TAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus         9 ~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      .....+||||+||||+|+++++.  ..+++++++.||+++||++|++|+++
T Consensus         3 s~~~~~PKrP~say~lF~~e~~~--~p~~~~~~~~eisK~lge~Wk~ls~~   51 (101)
T 1v63_A            3 SGSSGPKKPPMNGYQKFSQELLS--NGELNHLPLKERMVEIGSRWQRISQS   51 (101)
T ss_dssp             CCCCSSCCCCSSSHHHHHHHHHH--HCTTTTSCHHHHHHHHHHHHTTSCHH
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHh--CCCCCCCCHHHHHHHHHHHHHhCCHH
Confidence            35567899999999999999975  34556688999999999999999864

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

Probab=99.51  E-value=1.8e-15  Score=96.63  Aligned_cols=47  Identities=13%  Similarity=0.193  Sum_probs=42.5

Q ss_pred             ccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249          9 TAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus         9 ~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      .++++.||||+|||||||+++|..|+.++|+    ||+++||++|++|+++
T Consensus       141 ~kdp~~PKrP~say~lF~~e~r~~~k~~~p~----ei~k~lg~~Wk~ls~~  187 (238)
T 3tmm_A          141 LTLLGKPKRPRSAYNVYVAERFQEAKGDSPQ----EKLKTVKENWKNLSDS  187 (238)
T ss_dssp             HHHTTCCCCCCCHHHHHHHHHTTTSCCSSHH----HHHHHHHHHHHTCCTT
T ss_pred             hcccCCCCCCCcHHHHHHHHHHHHHhccCHH----HHHHHHHHHHHhCCHH
Confidence            3579999999999999999999998877664    9999999999999986

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

Probab=99.51  E-value=9.7e-16  Score=96.60  Aligned_cols=46  Identities=13%  Similarity=0.207  Sum_probs=41.5

Q ss_pred             cCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         10 AKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        10 ~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      ++++.||||+||||+||+++|..|+.++|+    ||+++||++|++|+++
T Consensus       110 kdp~~PKrP~say~lF~~e~r~~~k~~~p~----ei~k~lg~~Wk~ls~~  155 (214)
T 3tq6_A          110 TLLGKPKRPRSAYNVYVAERFQEAKGDSPQ----EKLKTVKENWKNLSDS  155 (214)
T ss_dssp             HHTTCCCCCCCHHHHHHHHHTTTSSCSSHH----HHHHHHHHHHHTCCHH
T ss_pred             ccccCcccccchhhhhHHHHHHhhccCCHH----HHHHHHHHHHHcCCHH
Confidence            579999999999999999999998877664    9999999999999864

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	60
d1gt0d_	80	a.21.1.1 (D:) Sox-2 {Mouse (Mus musculus) [TaxId:	7e-10
d1i11a_	70	a.21.1.1 (A:) Sox-5 {Mouse (Mus musculus) [TaxId:	2e-08
d1j46a_	85	a.21.1.1 (A:) SRY {Human (Homo sapiens) [TaxId: 96	2e-08
d2lefa_	86	a.21.1.1 (A:) Lymphoid enhancer-binding factor, LE	6e-08
d1wgfa_	90	a.21.1.1 (A:) Nucleolar transcription factor 1 (Up	3e-07
d1qrva_	73	a.21.1.1 (A:) HMG-D {Drosophila melanogaster [TaxI	5e-07
d1hsma_	79	a.21.1.1 (A:) High mobility group protein 1, HMG1	2e-06
d1lwma_	93	a.21.1.1 (A:) NHP6a {Baker's yeast (Saccharomyces	1e-05
d1ckta_	71	a.21.1.1 (A:) High mobility group protein 1, HMG1	2e-05
d1k99a_	91	a.21.1.1 (A:) Nucleolar transcription factor 1 (Up	5e-05
d1v63a_	101	a.21.1.1 (A:) Nucleolar transcription factor 1 (Up	3e-04
d1v64a_	108	a.21.1.1 (A:) Nucleolar transcription factor 1 (Up	0.004

>d1gt0d_ a.21.1.1 (D:) Sox-2 {Mouse (Mus musculus) [TaxId: 10090]} Length = 80

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

 Score = 47.1 bits (112), Expect = 7e-10
 Identities = 21/45 (46%), Positives = 33/45 (73%)

Query: 14 RIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAP 58
          R++RPMNAFMVW++ +R+K+A ENP +HN+++SK L       + 
Sbjct: 2  RVKRPMNAFMVWSRGQRRKMAQENPKMHNSEISKRLGAEWKLLSE 46

>d1i11a_ a.21.1.1 (A:) Sox-5 {Mouse (Mus musculus) [TaxId: 10090]} Length = 70

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

 Score = 43.3 bits (102), Expect = 2e-08
 Identities = 22/38 (57%), Positives = 30/38 (78%)

Query: 14 RIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
           I+RPMNAFMVWAK ER+K+    PD+HN+++SK+L  
Sbjct: 2  HIKRPMNAFMVWAKDERRKILQAFPDMHNSNISKILGS 39

>d1j46a_ a.21.1.1 (A:) SRY {Human (Homo sapiens) [TaxId: 9606]} Length = 85

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

 Score = 43.7 bits (103), Expect = 2e-08
 Identities = 19/40 (47%), Positives = 32/40 (80%)

Query: 12 EQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          + R++RPMNAF+VW++ +R+K+A ENP + N+++SK L  
Sbjct: 2  QDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGY 41

>d2lefa_ a.21.1.1 (A:) Lymphoid enhancer-binding factor, LEF1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

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]

 Score = 42.5 bits (100), Expect = 6e-08
 Identities = 12/38 (31%), Positives = 24/38 (63%)

Query: 15 IRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARI 52
          I++P+NAFM++ K  R  +  E+    +A ++++L R 
Sbjct: 3  IKKPLNAFMLYMKEMRANVVAESTLKESAAINQILGRR 40

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

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

 Score = 40.7 bits (95), Expect = 3e-07
 Identities = 13/47 (27%), Positives = 33/47 (70%)

Query: 5  QQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          Q+      ++ +RP++A  ++++ +R++L +E P+L  ++L+++LAR
Sbjct: 11 QEGGKGGSEKPKRPVSAMFIFSEEKRRQLQEERPELSESELTRLLAR 57

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

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

 Score = 39.8 bits (93), Expect = 5e-07
 Identities = 10/38 (26%), Positives = 22/38 (57%)

Query: 14 RIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          + +RP++A+M+W    R+ +  ENP +   +++K    
Sbjct: 3  KPKRPLSAYMLWLNSARESIKRENPGIKVTEVAKRGGE 40

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

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

 Score = 38.7 bits (90), Expect = 2e-06
 Identities = 12/36 (33%), Positives = 20/36 (55%)

Query: 16 RRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
          +RP +AF ++    R K+  E+P L   D++K L  
Sbjct: 4  KRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGE 39

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

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

 Score = 36.8 bits (85), Expect = 1e-05
 Identities = 12/45 (26%), Positives = 21/45 (46%)

Query: 5  QQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKML 49
            +K       +R ++A+M +A   R  +  ENPD+    + K L
Sbjct: 11 TTRKKKDPNAPKRALSAYMFFANENRDIVRSENPDITFGQVGKKL 55

>d1ckta_ a.21.1.1 (A:) High mobility group protein 1, HMG1 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 71

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]

 Score = 35.6 bits (82), Expect = 2e-05
 Identities = 8/47 (17%), Positives = 24/47 (51%), Gaps = 2/47 (4%)

Query: 14 RIRRPMNAFMVWAKVERKKLADENPD--LHNADLSKMLARILLTCAP 58
          + R  M+++  + +  R++   ++PD  ++ ++ SK  +    T + 
Sbjct: 1  KPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSA 47

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

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

 Score = 34.9 bits (80), Expect = 5e-05
 Identities = 9/35 (25%), Positives = 20/35 (57%)

Query: 14 RIRRPMNAFMVWAKVERKKLADENPDLHNADLSKM 48
            ++P+  +  +   +R K A  +P++ N DL+K+
Sbjct: 10 FPKKPLTPYFRFFMEKRAKYAKLHPEMSNLDLTKI 44

>d1v63a_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1) {Mouse (Mus musculus) [TaxId: 10090]} Length = 101

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

 Score = 33.3 bits (76), Expect = 3e-04
 Identities = 3/44 (6%), Positives = 12/44 (27%), Gaps = 2/44 (4%)

Query: 8  KTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
           +      + PMN +  +++         +      +    +  
Sbjct: 2  SSGSSGPKKPPMNGYQKFSQELLSNGELNHLP--LKERMVEIGS 43

>d1v64a_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1) {Mouse (Mus musculus) [TaxId: 10090]} Length = 108

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

 Score = 30.3 bits (68), Expect = 0.004
 Identities = 5/51 (9%), Positives = 20/51 (39%), Gaps = 4/51 (7%)

Query: 1  MSAHQQQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLAR 51
           S+ Q +     +  + P N++ ++       +     D+ + +   + ++
Sbjct: 4  GSSGQLKDKFDGRPTKPPPNSYSLYCAELMANM----KDVPSTERMVLCSQ 50

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	60
d1i11a_	70	Sox-5 {Mouse (Mus musculus) [TaxId: 10090]}	99.86
d1gt0d_	80	Sox-2 {Mouse (Mus musculus) [TaxId: 10090]}	99.84
d1j46a_	85	SRY {Human (Homo sapiens) [TaxId: 9606]}	99.84
d2lefa_	86	Lymphoid enhancer-binding factor, LEF1 {Mouse (Mus	99.83
d1qrva_	73	HMG-D {Drosophila melanogaster [TaxId: 7227]}	99.81
d1wgfa_	90	Nucleolar transcription factor 1 (Upstream binding	99.81
d1hsma_	79	High mobility group protein 1, HMG1 {Hamster (Cric	99.81
d1k99a_	91	Nucleolar transcription factor 1 (Upstream binding	99.8
d1lwma_	93	NHP6a {Baker's yeast (Saccharomyces cerevisiae) [T	99.79
d1ckta_	71	High mobility group protein 1, HMG1 {Rat (Rattus n	99.78
d1v63a_	101	Nucleolar transcription factor 1 (Upstream binding	99.6
d1v64a_	108	Nucleolar transcription factor 1 (Upstream binding	99.54
d1kxpd3	69	Vitamin D binding protein {Human (Homo sapiens) [T	81.94

>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=99.86  E-value=4.1e-22  Score=106.16  Aligned_cols=47  Identities=47%  Similarity=0.789  Sum_probs=45.1

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         13 QRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        13 ~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      .+||||+|||||||+++|..|+.++|++++.|||++||++|++|+++
T Consensus         1 p~iKRP~nay~lf~~~~r~~i~~~~p~~~~~eisk~lg~~Wk~ls~~   47 (70)
T d1i11a_           1 PHIKRPMNAFMVWAKDERRKILQAFPDMHNSNISKILGSRWKAMTNL   47 (70)
T ss_dssp             CCSCCSCCHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHHHTTSCSG
T ss_pred             CcCCCCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCHH
Confidence            37899999999999999999999999999999999999999999975

>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=99.84  E-value=7.7e-22  Score=107.64  Aligned_cols=47  Identities=47%  Similarity=0.844  Sum_probs=45.1

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         13 QRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        13 ~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      ++||||+||||||++++|..|+.+||++++.|||++||++|++|+++
T Consensus         1 ~kiKRP~nAy~lF~~~~r~~~~~~~p~~~~~eisk~~g~~W~~l~~e   47 (80)
T d1gt0d_           1 DRVKRPMNAFMVWSRGQRRKMAQENPKMHNSEISKRLGAEWKLLSET   47 (80)
T ss_dssp             CCCCCCCCHHHHHHHHHHHHHHTTSTTSCHHHHHHHHHHHHTTSCHH
T ss_pred             CCCCCCCcHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHCcCCHH
Confidence            57999999999999999999999999999999999999999999864

>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=99.84  E-value=1.7e-21  Score=106.93  Aligned_cols=48  Identities=40%  Similarity=0.742  Sum_probs=45.9

Q ss_pred             CCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         12 EQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        12 ~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      .++||||+||||||++++|..|+.+||++++.|||++||++|++|+++
T Consensus         2 ~~~iKRP~nay~lF~~~~r~~i~~~~p~~~~~eisk~ig~~W~~L~~e   49 (85)
T d1j46a_           2 QDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEA   49 (85)
T ss_dssp             CCCCCCCCCHHHHHHHHHHHHHHHHSTTSCHHHHHHHHHHHHTTSCHH
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHhcCCHH
Confidence            478999999999999999999999999999999999999999999864

>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=99.83  E-value=2.2e-21  Score=106.74  Aligned_cols=46  Identities=26%  Similarity=0.451  Sum_probs=44.6

Q ss_pred             CCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         14 RIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        14 ~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      +||||+||||||+++.|..|..+||++++.+||++||++|++|+++
T Consensus         2 hikRP~naf~lF~~~~r~~~~~~~P~~~~~~Isk~lg~~Wk~ls~~   47 (86)
T d2lefa_           2 HIKKPLNAFMLYMKEMRANVVAESTLKESAAINQILGRRWHALSRE   47 (86)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHTTSCHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhCCHH
Confidence            7999999999999999999999999999999999999999999874

>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=99.81  E-value=1.7e-20  Score=100.32  Aligned_cols=46  Identities=22%  Similarity=0.531  Sum_probs=44.0

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCC
Q psy14249         13 QRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAP   58 (60)
Q Consensus        13 ~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~   58 (60)
                      ++||||+||||+|++++|..|+.+||++++.||+++||++|++|++
T Consensus         2 n~PKrP~say~lf~~~~r~~~k~~~p~~~~~eisk~l~~~Wk~~~e   47 (73)
T d1qrva_           2 DKPKRPLSAYMLWLNSARESIKRENPGIKVTEVAKRGGELWRAMKD   47 (73)
T ss_dssp             CSCCCCCCHHHHHHHHHHHHHHHTSTTCCHHHHHHHHHHHHHHCSC
T ss_pred             ccCCCCCcHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHhcChhH
Confidence            6899999999999999999999999999999999999999998853

>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=99.81  E-value=1.2e-20  Score=104.04  Aligned_cols=53  Identities=23%  Similarity=0.560  Sum_probs=49.5

Q ss_pred             ccccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249          7 QKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus         7 ~~~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      ...++++.||||+|||||||+++|..|+.+||++++.||+++||++|+.|+++
T Consensus        13 ~~~~~~~~PKrP~say~lF~~e~r~~~~~~~p~~~~~ei~k~l~~~W~~Ls~~   65 (90)
T d1wgfa_          13 GGKGGSEKPKRPVSAMFIFSEEKRRQLQEERPELSESELTRLLARMWNDLSEK   65 (90)
T ss_dssp             CCSSCCCCCCCCCCHHHHHHHHTHHHHHHHCTTSCHHHHHHHHHHHHHHSCHH
T ss_pred             CCCCCCCCCCCCCcHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhCCHH
Confidence            35578999999999999999999999999999999999999999999999864

>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=99.81  E-value=1.2e-20  Score=102.04  Aligned_cols=47  Identities=28%  Similarity=0.448  Sum_probs=45.4

Q ss_pred             CCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         13 QRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        13 ~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      +.||||+||||+|++++|..|+.+||++++.||+++||++|++|+++
T Consensus         1 NaPKrP~say~~f~~~~r~~i~~~~p~~~~~ei~k~~~~~W~~ls~~   47 (79)
T d1hsma_           1 NAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAAD   47 (79)
T ss_dssp             CCCCCCCCSHHHHHHHHHHHHHHHCTTCCTTTHHHHHHHHHHTSCST
T ss_pred             CcCCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhHHhcCCHH
Confidence            57999999999999999999999999999999999999999999986

>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=99.80  E-value=5e-20  Score=101.61  Aligned_cols=54  Identities=19%  Similarity=0.340  Sum_probs=50.9

Q ss_pred             ccccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCCC
Q psy14249          7 QKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPTY   60 (60)
Q Consensus         7 ~~~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~~   60 (60)
                      +..++++.||||+||||+|++++|..|+.+||++++.||+++||+.|+.|+++.
T Consensus         3 k~kk~p~~PKrP~say~lf~~~~r~~~~~~~p~~~~~ev~k~l~~~W~~ls~~e   56 (91)
T d1k99a_           3 KLKKHPDFPKKPLTPYFRFFMEKRAKYAKLHPEMSNLDLTKILSKKYKELPEKK   56 (91)
T ss_dssp             CCCSSSSSCCCSCCHHHHHHHHHHHHHHTTCTTSCSHHHHHHHHHHHHHSCSTT
T ss_pred             CCCCCCCCCCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHhHhcCCCHHH
Confidence            456889999999999999999999999999999999999999999999999863

>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=99.79  E-value=6.1e-20  Score=101.96  Aligned_cols=54  Identities=24%  Similarity=0.418  Sum_probs=50.2

Q ss_pred             cccccCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249          6 QQKTAKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus         6 ~~~~~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      ..+.++++.||||+||||+|++++|..|+.++|++++.||++.||++|++|+++
T Consensus        12 ~k~~k~p~~PKrP~saf~lF~~e~r~~ik~~~p~~~~~ei~k~l~~~W~~ls~~   65 (93)
T d1lwma_          12 TRKKKDPNAPKRALSAYMFFANENRDIVRSENPDITFGQVGKKLGEKWKALTPE   65 (93)
T ss_dssp             CSCCCCSSCCCCCCCHHHHHHHHHHHHHHHHCTTSCHHHHHHHHHHHHHTSCHH
T ss_pred             ccCCCCcCCCCCCCCHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHhCCHH
Confidence            446678899999999999999999999999999999999999999999999864

>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=99.78  E-value=2.4e-19  Score=95.04  Aligned_cols=46  Identities=17%  Similarity=0.319  Sum_probs=43.1

Q ss_pred             CCCCCChHHHHHHHHHHHHHHhhCCC--CCHHHHHHHHHHHhhcCCCC
Q psy14249         14 RIRRPMNAFMVWAKVERKKLADENPD--LHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        14 ~pKRP~naf~lf~~~~r~~i~~~~P~--~~~~eisk~lg~~W~~l~~~   59 (60)
                      +||||+||||+|++++|..|+.+||+  +.+.+|+++||++|++|+++
T Consensus         1 KPKrP~say~~f~~~~r~~~k~~~p~~~~~~~ei~k~~~~~Wk~ls~~   48 (71)
T d1ckta_           1 KPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAK   48 (71)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHHHHCTTCCCCHHHHHHHHHHHHHTCCTT
T ss_pred             CcCCCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHcCCCHH
Confidence            58999999999999999999999996  55899999999999999986

>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=99.60  E-value=2.2e-16  Score=88.03  Aligned_cols=48  Identities=8%  Similarity=0.041  Sum_probs=41.6

Q ss_pred             cCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         10 AKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        10 ~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      .....+|||+||||+||+++|..+..++  +++.||+++||++|++|+++
T Consensus         4 ~~~~p~KrP~~ay~~F~~e~r~~~~~~~--~~~~ei~k~~g~~Wk~ls~~   51 (101)
T d1v63a_           4 GSSGPKKPPMNGYQKFSQELLSNGELNH--LPLKERMVEIGSRWQRISQS   51 (101)
T ss_dssp             CCCSSCCCCSSSHHHHHHHHHHHCTTTT--SCHHHHHHHHHHHHTTSCHH
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHhhCCHH
Confidence            3456689999999999999999987655  56999999999999999864

>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=99.54  E-value=2.5e-15  Score=84.77  Aligned_cols=46  Identities=7%  Similarity=0.089  Sum_probs=39.9

Q ss_pred             cCCCCCCCCChHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCC
Q psy14249         10 AKEQRIRRPMNAFMVWAKVERKKLADENPDLHNADLSKMLARILLTCAPT   59 (60)
Q Consensus        10 ~~~~~pKRP~naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~~W~~l~~~   59 (60)
                      .+...+|||+||||||++++|..    +|++++.||+++||++|++|+++
T Consensus        13 ~~~~p~K~P~~ay~lF~~~~r~~----~~~~~~~e~~k~ig~~W~~Ls~~   58 (108)
T d1v64a_          13 FDGRPTKPPPNSYSLYCAELMAN----MKDVPSTERMVLCSQQWKLLSQK   58 (108)
T ss_dssp             TTTSCCCCCSSHHHHHHHHHHHH----CTTSCHHHHHHHHHHHHHHSCHH
T ss_pred             CCCCCCCCCCcHHHHHHHHHHHH----ccCCCHHHHHHHHHHHHccCCHH
Confidence            45566788999999999998864    68999999999999999999864

>d1kxpd3 a.126.1.1 (D:405-473) Vitamin D binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Serum albumin-like
superfamily: Serum albumin-like
family: Serum albumin-like
domain: Vitamin D binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.94  E-value=1.9  Score=21.40  Aligned_cols=32  Identities=25%  Similarity=0.455  Sum_probs=28.0

Q ss_pred             hHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHH
Q psy14249         20 NAFMVWAKVERKKLADENPDLHNADLSKMLAR   51 (60)
Q Consensus        20 naf~lf~~~~r~~i~~~~P~~~~~eisk~lg~   51 (60)
                      +.|..|.+.-.+.++...|+++..+|...+..
T Consensus         9 ~tFte~kkkL~e~lr~k~P~as~~~l~~mVek   40 (69)
T d1kxpd3           9 NTFTEYKKKLAERLKAKLPDATPKELAKLVNK   40 (69)
T ss_dssp             SCHHHHHHHHHHHHHHHCTTSCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhhCCCCCHHHHHHHHHH
Confidence            56899999999999999999999999876654