Psyllid ID: psy15548

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------11
Protein Sequence
MLKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRKAVQLL
Secondary Structure (PSIPRED)
cccccHHHHHHHHHHHHHHccccHHHHHHHcccccHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHccccHHHHcccccccHHHHHHHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
ccccccHHHHHHHHHHHHHccccHHHHHcccccccHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHcccHHHHHcccccccHHHHHHHHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
MLKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWfewldpsikktewsrEEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRKAVQLL
Flexible Loop (DISEMBL)
MLKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCkarwfewldpsikktewsreEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRKAVQLL
Low Complexity Region (SEG)
MLKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRKAVQLL
Disordered region (IsUnstruct)
****MTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRAR*******
Disordered Region (DISOPRED)
MLKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFL************
Disordered Region (DISEMBL)
MLKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRKAVQLL
Disordered Region (DISPRO)
***TMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRKA***L
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MLKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRKAVQLL
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	108	2.2.26 [Sep-21-2011]
A7SD85	805	Cell division cycle 5-rel	N/A	N/A	0.879	0.118	0.926	8e-49
Q2KJC1	802	Cell division cycle 5-lik	yes	N/A	0.851	0.114	0.945	6e-48
Q99459	802	Cell division cycle 5-lik	yes	N/A	0.851	0.114	0.945	6e-48
O08837	802	Cell division cycle 5-lik	yes	N/A	0.824	0.110	0.966	1e-47
Q6A068	802	Cell division cycle 5-lik	yes	N/A	0.824	0.110	0.966	2e-47
P92948	844	Cell division cycle 5-lik	yes	N/A	0.851	0.109	0.869	9e-44
P39964	757	Pre-mRNA-splicing factor	yes	N/A	0.824	0.117	0.853	8e-42
Q4P652	820	Pre-mRNA-splicing factor	N/A	N/A	0.851	0.112	0.815	1e-41
P0CO94	838	Pre-mRNA-splicing factor	yes	N/A	0.851	0.109	0.815	5e-41
Q7SAF6	779	Pre-mRNA-splicing factor	N/A	N/A	0.953	0.132	0.737	1e-40

>sp|A7SD85|CDC5L_NEMVE Cell division cycle 5-related protein OS=Nematostella vectensis GN=cdc5l PE=3 SV=1

 Score =  192 bits (487), Expect = 8e-49,   Method: Compositional matrix adjust.
 Identities = 88/95 (92%), Positives = 93/95 (97%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWSREEDEKLLHLA
Sbjct: 16  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEDEKLLHLA 75

Query: 69  KLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
           KLMPTQWRTIAP+IGRTAAQCLERYE+LL +A+ K
Sbjct: 76  KLMPTQWRTIAPLIGRTAAQCLERYEYLLDQAQAK 110

Involved in mRNA splicing and cell cycle control.
Nematostella vectensis (taxid: 45351)

>sp|Q2KJC1|CDC5L_BOVIN Cell division cycle 5-like protein OS=Bos taurus GN=CDC5L PE=2 SV=1

 Score =  189 bits (479), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 87/92 (94%), Positives = 90/92 (97%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWSREE+EKLLHLA
Sbjct: 16  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEKLLHLA 75

Query: 69  KLMPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100
           KLMPTQWRTIAPIIGRTAAQCLE YEFLL +A
Sbjct: 76  KLMPTQWRTIAPIIGRTAAQCLEHYEFLLDKA 107

DNA-binding protein involved in cell cycle control. May act as a transcription activator. Also seems to be involved in the second catalytic step of pre-mRNA splicing.

Bos taurus (taxid: 9913)

>sp|Q99459|CDC5L_HUMAN Cell division cycle 5-like protein OS=Homo sapiens GN=CDC5L PE=1 SV=2

 Score =  189 bits (479), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 87/92 (94%), Positives = 90/92 (97%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWSREE+EKLLHLA
Sbjct: 16  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEKLLHLA 75

Query: 69  KLMPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100
           KLMPTQWRTIAPIIGRTAAQCLE YEFLL +A
Sbjct: 76  KLMPTQWRTIAPIIGRTAAQCLEHYEFLLDKA 107

DNA-binding protein involved in cell cycle control. May act as a transcription activator. Also seems to be involved in the second catalytic step of pre-mRNA splicing.

Homo sapiens (taxid: 9606)

>sp|O08837|CDC5L_RAT Cell division cycle 5-like protein OS=Rattus norvegicus GN=Cdc5l PE=1 SV=2

 Score =  187 bits (475), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 86/89 (96%), Positives = 88/89 (98%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWSREE+EKLLHLA
Sbjct: 16  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEKLLHLA 75

Query: 69  KLMPTQWRTIAPIIGRTAAQCLERYEFLL 97
           KLMPTQWRTIAPIIGRTAAQCLE YEFLL
Sbjct: 76  KLMPTQWRTIAPIIGRTAAQCLEHYEFLL 104

DNA-binding protein involved in cell cycle control. May act as a transcription activator. Also seems to be involved in the second catalytic step of pre-mRNA splicing.

Rattus norvegicus (taxid: 10116)

>sp|Q6A068|CDC5L_MOUSE Cell division cycle 5-like protein OS=Mus musculus GN=Cdc5l PE=1 SV=2

 Score =  187 bits (475), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 86/89 (96%), Positives = 88/89 (98%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWSREE+EKLLHLA
Sbjct: 16  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEKLLHLA 75

Query: 69  KLMPTQWRTIAPIIGRTAAQCLERYEFLL 97
           KLMPTQWRTIAPIIGRTAAQCLE YEFLL
Sbjct: 76  KLMPTQWRTIAPIIGRTAAQCLEHYEFLL 104

DNA-binding protein involved in cell cycle control. May act as a transcription activator. Also seems to be involved in the second catalytic step of pre-mRNA splicing.

Mus musculus (taxid: 10090)

>sp|P92948|CDC5L_ARATH Cell division cycle 5-like protein OS=Arabidopsis thaliana GN=CDC5 PE=1 SV=2

 Score =  175 bits (443), Expect = 9e-44,   Method: Compositional matrix adjust.
 Identities = 80/92 (86%), Positives = 87/92 (94%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           DEILKAAVMKYGKNQW+RI+SLL RKSAKQCKARW+EWLDPSIKKTEW+REEDEKLLHLA
Sbjct: 15  DEILKAAVMKYGKNQWARISSLLVRKSAKQCKARWYEWLDPSIKKTEWTREEDEKLLHLA 74

Query: 69  KLMPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100
           KL+PTQWRTIAPI+GRT +QCLERYE LL  A
Sbjct: 75  KLLPTQWRTIAPIVGRTPSQCLERYEKLLDAA 106

Component of the MAC complex that probably regulates defense responses through transcriptional control and thereby is essential for plant innate immunity. Possesses a sequence specific DNA sequence 'CTCAGCG' binding activity. Involved in mRNA splicing and cell cycle control.

Arabidopsis thaliana (taxid: 3702)

>sp|P39964|CEF1_SCHPO Pre-mRNA-splicing factor cdc5 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=cdc5 PE=1 SV=1

 Score =  168 bits (426), Expect = 8e-42,   Method: Compositional matrix adjust.
 Identities = 76/89 (85%), Positives = 84/89 (94%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           DEILKAAV KYGKNQW+RI+SLL RK+ KQCKARW+EW+DPSIKKTEWSREEDEKLLHLA
Sbjct: 14  DEILKAAVSKYGKNQWARISSLLVRKTPKQCKARWYEWIDPSIKKTEWSREEDEKLLHLA 73

Query: 69  KLMPTQWRTIAPIIGRTAAQCLERYEFLL 97
           KL+PTQWRTIAPI+GRTA QCLERY+ LL
Sbjct: 74  KLLPTQWRTIAPIVGRTATQCLERYQKLL 102

Involved in mRNA splicing and cell cycle control.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q4P652|CEF1_USTMA Pre-mRNA-splicing factor CEF1 OS=Ustilago maydis (strain 521 / FGSC 9021) GN=CEF1 PE=3 SV=1

 Score =  167 bits (424), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 75/92 (81%), Positives = 85/92 (92%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           DEILKAA+ KYGKNQW+RI+SLL RK+ KQCKARW+EWLDPSIKKTEWS+EEDEKLLHLA
Sbjct: 16  DEILKAAISKYGKNQWARISSLLVRKTPKQCKARWYEWLDPSIKKTEWSKEEDEKLLHLA 75

Query: 69  KLMPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100
           KLMPTQWRTIAP++GRTA  CLERY+ LL +A
Sbjct: 76  KLMPTQWRTIAPLVGRTANHCLERYQKLLDQA 107

Involved in pre-mRNA splicing and cell cycle control.

Ustilago maydis (strain 521 / FGSC 9021) (taxid: 237631)

>sp|P0CO94|CEF1_CRYNJ Pre-mRNA-splicing factor CEF1 OS=Cryptococcus neoformans var. neoformans serotype D (strain JEC21 / ATCC MYA-565) GN=CEF1 PE=3 SV=1

 Score =  166 bits (419), Expect = 5e-41,   Method: Compositional matrix adjust.
 Identities = 75/92 (81%), Positives = 83/92 (90%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           DEILKAA+ KYGKNQW+RI+SLL RK+ KQCKARW+EWLDPSIKK EWS+ EDEKLLHLA
Sbjct: 15  DEILKAAISKYGKNQWARISSLLVRKTPKQCKARWYEWLDPSIKKVEWSKTEDEKLLHLA 74

Query: 69  KLMPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100
           KLMPTQWRTIAPI+GRTA QCLERY+ LL  A
Sbjct: 75  KLMPTQWRTIAPIVGRTATQCLERYQKLLDDA 106

Involved in pre-mRNA splicing and cell cycle control.

Cryptococcus neoformans var. neoformans serotype D (strain JEC21 / ATCC MYA-565) (taxid: 214684)

>sp|Q7SAF6|CEF1_NEUCR Pre-mRNA-splicing factor cef-1 OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) GN=cef-1 PE=3 SV=1

 Score =  165 bits (417), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 76/103 (73%), Positives = 86/103 (83%)

Query: 6   TIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLL 65
            I DEILKA+V KYG NQW+R++SLL RK+ KQCKARW EWLDPSIKK EWS+EEDEKLL
Sbjct: 11  NIEDEILKASVSKYGLNQWARVSSLLARKTPKQCKARWNEWLDPSIKKIEWSKEEDEKLL 70

Query: 66  HLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRKAVQLL 108
           HLAKLMPTQWRTIAPI+GRTA QCLERY+ LL  A ++    L
Sbjct: 71  HLAKLMPTQWRTIAPIVGRTANQCLERYQRLLDEAEQREASAL 113

Involved in pre-mRNA splicing and cell cycle control.

Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) (taxid: 367110)

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	108
312381448	934	hypothetical protein AND_06250 [Anophele	0.879	0.101	0.947	7e-49
347968934	932	AGAP002954-PA [Anopheles gambiae str. PE	0.879	0.101	0.947	8e-49
198467047	818	GA19946 [Drosophila pseudoobscura pseudo	0.879	0.116	0.957	9e-49
170038857	910	pre-mRNA-splicing factor cef-1 [Culex qu	0.879	0.104	0.947	1e-48
157123280	904	cell division control protein [Aedes aeg	0.879	0.105	0.947	2e-48
195375347	820	GJ12907 [Drosophila virilis] gi|19415362	0.879	0.115	0.947	2e-48
195135210	817	GI16655 [Drosophila mojavensis] gi|19391	0.879	0.116	0.947	2e-48
383861592	780	PREDICTED: cell division cycle 5-like pr	0.879	0.121	0.947	2e-48
307207948	788	Cell division cycle 5-like protein [Harp	0.879	0.120	0.947	2e-48
194864598	814	GG14664 [Drosophila erecta] gi|190652801	0.879	0.116	0.947	2e-48

>gi|312381448|gb|EFR27195.1| hypothetical protein AND_06250 [Anopheles darlingi]

 Score =  197 bits (501), Expect = 7e-49,   Method: Compositional matrix adjust.
 Identities = 90/95 (94%), Positives = 94/95 (98%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWSREEDEKLLHLA
Sbjct: 16  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEDEKLLHLA 75

Query: 69  KLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
           KLMPTQWRTIAPIIGRTAAQCLERYE+LL +A+RK
Sbjct: 76  KLMPTQWRTIAPIIGRTAAQCLERYEYLLDQAQRK 110

Source: Anopheles darlingi

Species: Anopheles darlingi

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|347968934|ref|XP_311945.4| AGAP002954-PA [Anopheles gambiae str. PEST] gi|333467774|gb|EAA08116.4| AGAP002954-PA [Anopheles gambiae str. PEST]

 Score =  197 bits (500), Expect = 8e-49,   Method: Compositional matrix adjust.
 Identities = 90/95 (94%), Positives = 94/95 (98%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWSREEDEKLLHLA
Sbjct: 16  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEDEKLLHLA 75

Query: 69  KLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
           KLMPTQWRTIAPIIGRTAAQCLERYE+LL +A+RK
Sbjct: 76  KLMPTQWRTIAPIIGRTAAQCLERYEYLLDQAQRK 110

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|198467047|ref|XP_001354233.2| GA19946 [Drosophila pseudoobscura pseudoobscura] gi|198149484|gb|EAL31286.2| GA19946 [Drosophila pseudoobscura pseudoobscura]

 Score =  197 bits (500), Expect = 9e-49,   Method: Compositional matrix adjust.
 Identities = 91/95 (95%), Positives = 94/95 (98%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWSREEDEKLLHLA
Sbjct: 16  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEDEKLLHLA 75

Query: 69  KLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
           KLMPTQWRTIAPIIGRTAAQCLERYEFLL +A+RK
Sbjct: 76  KLMPTQWRTIAPIIGRTAAQCLERYEFLLDQAQRK 110

Source: Drosophila pseudoobscura pseudoobscura

Species: Drosophila pseudoobscura

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170038857|ref|XP_001847264.1| pre-mRNA-splicing factor cef-1 [Culex quinquefasciatus] gi|167862455|gb|EDS25838.1| pre-mRNA-splicing factor cef-1 [Culex quinquefasciatus]

 Score =  197 bits (500), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 90/95 (94%), Positives = 94/95 (98%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWSREEDEKLLHLA
Sbjct: 16  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEDEKLLHLA 75

Query: 69  KLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
           KLMPTQWRTIAPIIGRTAAQCLERYE+LL +A+RK
Sbjct: 76  KLMPTQWRTIAPIIGRTAAQCLERYEYLLDQAQRK 110

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157123280|ref|XP_001660095.1| cell division control protein [Aedes aegypti] gi|108874447|gb|EAT38672.1| AAEL009469-PA [Aedes aegypti]

 Score =  196 bits (498), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 90/95 (94%), Positives = 94/95 (98%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWSREEDEKLLHLA
Sbjct: 16  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEDEKLLHLA 75

Query: 69  KLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
           KLMPTQWRTIAPIIGRTAAQCLERYE+LL +A+RK
Sbjct: 76  KLMPTQWRTIAPIIGRTAAQCLERYEYLLDQAQRK 110

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195375347|ref|XP_002046463.1| GJ12907 [Drosophila virilis] gi|194153621|gb|EDW68805.1| GJ12907 [Drosophila virilis]

 Score =  196 bits (498), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 90/95 (94%), Positives = 94/95 (98%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWSREEDEKLLHLA
Sbjct: 16  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEDEKLLHLA 75

Query: 69  KLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
           KLMPTQWRTIAPIIGRTAAQCLERYE+LL +A+RK
Sbjct: 76  KLMPTQWRTIAPIIGRTAAQCLERYEYLLDQAQRK 110

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195135210|ref|XP_002012027.1| GI16655 [Drosophila mojavensis] gi|193918291|gb|EDW17158.1| GI16655 [Drosophila mojavensis]

 Score =  196 bits (498), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 90/95 (94%), Positives = 94/95 (98%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWSREEDEKLLHLA
Sbjct: 16  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEDEKLLHLA 75

Query: 69  KLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
           KLMPTQWRTIAPIIGRTAAQCLERYE+LL +A+RK
Sbjct: 76  KLMPTQWRTIAPIIGRTAAQCLERYEYLLDQAQRK 110

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383861592|ref|XP_003706269.1| PREDICTED: cell division cycle 5-like protein [Megachile rotundata]

 Score =  196 bits (498), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 90/95 (94%), Positives = 94/95 (98%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA
Sbjct: 16  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 75

Query: 69  KLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
           KLMPTQWRTIAPIIGRTAAQCLERYE+LL +A++K
Sbjct: 76  KLMPTQWRTIAPIIGRTAAQCLERYEYLLDQAQKK 110

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307207948|gb|EFN85507.1| Cell division cycle 5-like protein [Harpegnathos saltator]

 Score =  196 bits (497), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 90/95 (94%), Positives = 94/95 (98%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA
Sbjct: 16  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 75

Query: 69  KLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
           KLMPTQWRTIAPIIGRTAAQCLERYE+LL +A++K
Sbjct: 76  KLMPTQWRTIAPIIGRTAAQCLERYEYLLDQAQKK 110

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194864598|ref|XP_001971018.1| GG14664 [Drosophila erecta] gi|190652801|gb|EDV50044.1| GG14664 [Drosophila erecta]

 Score =  196 bits (497), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 90/95 (94%), Positives = 94/95 (98%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWSREEDEKLLHLA
Sbjct: 16  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEDEKLLHLA 75

Query: 69  KLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
           KLMPTQWRTIAPIIGRTAAQCLERYE+LL +A+RK
Sbjct: 76  KLMPTQWRTIAPIIGRTAAQCLERYEYLLDQAQRK 110

Source: Drosophila erecta

Species: Drosophila erecta

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	108
WB|WBGene00008386	755	D1081.8 [Caenorhabditis elegan	0.888	0.127	0.916	1.1e-44
UNIPROTKB|Q2KJC1	802	CDC5L "Cell division cycle 5-l	0.879	0.118	0.915	9.4e-44
UNIPROTKB|E2RLP4	802	CDC5L "Uncharacterized protein	0.879	0.118	0.915	9.4e-44
UNIPROTKB|Q99459	802	CDC5L "Cell division cycle 5-l	0.879	0.118	0.915	9.4e-44
UNIPROTKB|F1RQS5	803	CDC5L "Uncharacterized protein	0.879	0.118	0.915	9.5e-44
MGI|MGI:1918952	802	Cdc5l "cell division cycle 5-l	0.879	0.118	0.905	2.6e-43
RGD|70892	802	Cdc5l "cell division cycle 5-l	0.879	0.118	0.905	2.6e-43
ZFIN|ZDB-GENE-040426-821	801	cdc5l "CDC5 cell division cycl	0.879	0.118	0.894	3.3e-43
UNIPROTKB|E1BWQ5	806	CDC5L "Uncharacterized protein	0.870	0.116	0.914	4.4e-43
UNIPROTKB|E1C6A9	807	CDC5L "Uncharacterized protein	0.870	0.116	0.914	4.4e-43

WB|WBGene00008386 D1081.8 [Caenorhabditis elegans (taxid:6239)]

 Score = 475 (172.3 bits), Expect = 1.1e-44, P = 1.1e-44
 Identities = 88/96 (91%), Positives = 92/96 (95%)

Query:     9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
             DEILKAA+MKYGKNQWSRIASLLHRKSAKQCKARWFEWLDP IKKTEWSREEDEKLLHLA
Sbjct:    16 DEILKAAIMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPGIKKTEWSREEDEKLLHLA 75

Query:    69 KLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRKA 104
             KLMPTQWRTIAPI+GRT+AQCLERYE LL  A+RKA
Sbjct:    76 KLMPTQWRTIAPIVGRTSAQCLERYEHLLDEAQRKA 111

GO:0003682 "chromatin binding" evidence=IEA

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

GO:0009790 "embryo development" evidence=IMP

GO:0001703 "gastrulation with mouth forming first" evidence=IMP

GO:0000003 "reproduction" evidence=IMP

GO:0051301 "cell division" evidence=IMP

GO:0000910 "cytokinesis" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0006974 "response to DNA damage stimulus" evidence=IMP

GO:0018996 "molting cycle, collagen and cuticulin-based cuticle" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0007281 "germ cell development" evidence=IMP

UNIPROTKB|Q2KJC1 CDC5L "Cell division cycle 5-like protein" [Bos taurus (taxid:9913)]

 Score = 468 (169.8 bits), Expect = 9.4e-44, P = 9.4e-44
 Identities = 87/95 (91%), Positives = 92/95 (96%)

Query:     9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
             DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWSREE+EKLLHLA
Sbjct:    16 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEKLLHLA 75

Query:    69 KLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
             KLMPTQWRTIAPIIGRTAAQCLE YEFLL +A ++
Sbjct:    76 KLMPTQWRTIAPIIGRTAAQCLEHYEFLLDKAAQR 110

GO:0000974 "Prp19 complex" evidence=ISS

GO:0000398 "mRNA splicing, via spliceosome" evidence=ISS

GO:0071987 "WD40-repeat domain binding" evidence=ISS

GO:0016607 "nuclear speck" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0071013 "catalytic step 2 spliceosome" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

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

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

GO:0003723 "RNA binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

UNIPROTKB|E2RLP4 CDC5L "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 468 (169.8 bits), Expect = 9.4e-44, P = 9.4e-44
 Identities = 87/95 (91%), Positives = 92/95 (96%)

Query:     9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
             DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWSREE+EKLLHLA
Sbjct:    16 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEKLLHLA 75

Query:    69 KLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
             KLMPTQWRTIAPIIGRTAAQCLE YEFLL +A ++
Sbjct:    76 KLMPTQWRTIAPIIGRTAAQCLEHYEFLLDKAAQR 110

GO:0071987 "WD40-repeat domain binding" evidence=IEA

GO:0071013 "catalytic step 2 spliceosome" evidence=IEA

GO:0016607 "nuclear speck" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0000974 "Prp19 complex" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|Q99459 CDC5L "Cell division cycle 5-like protein" [Homo sapiens (taxid:9606)]

 Score = 468 (169.8 bits), Expect = 9.4e-44, P = 9.4e-44
 Identities = 87/95 (91%), Positives = 92/95 (96%)

Query:     9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
             DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWSREE+EKLLHLA
Sbjct:    16 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEKLLHLA 75

Query:    69 KLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
             KLMPTQWRTIAPIIGRTAAQCLE YEFLL +A ++
Sbjct:    76 KLMPTQWRTIAPIIGRTAAQCLEHYEFLLDKAAQR 110

GO:0003682 "chromatin binding" evidence=IEA

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

GO:0007049 "cell cycle" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0003677 "DNA binding" evidence=NAS

GO:0005634 "nucleus" evidence=IDA;NAS

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

GO:0005515 "protein binding" evidence=IPI

GO:0000398 "mRNA splicing, via spliceosome" evidence=IC

GO:0071013 "catalytic step 2 spliceosome" evidence=IDA

GO:0000974 "Prp19 complex" evidence=IDA

GO:0071987 "WD40-repeat domain binding" evidence=IDA

GO:0016607 "nuclear speck" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

UNIPROTKB|F1RQS5 CDC5L "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 468 (169.8 bits), Expect = 9.5e-44, P = 9.5e-44
 Identities = 87/95 (91%), Positives = 92/95 (96%)

Query:     9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
             DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWSREE+EKLLHLA
Sbjct:    16 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEKLLHLA 75

Query:    69 KLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
             KLMPTQWRTIAPIIGRTAAQCLE YEFLL +A ++
Sbjct:    76 KLMPTQWRTIAPIIGRTAAQCLEHYEFLLDKAAQR 110

GO:0071987 "WD40-repeat domain binding" evidence=IEA

GO:0071013 "catalytic step 2 spliceosome" evidence=IEA

GO:0016607 "nuclear speck" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0000974 "Prp19 complex" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

MGI|MGI:1918952 Cdc5l "cell division cycle 5-like (S. pombe)" [Mus musculus (taxid:10090)]

 Score = 464 (168.4 bits), Expect = 2.6e-43, P = 2.6e-43
 Identities = 86/95 (90%), Positives = 91/95 (95%)

Query:     9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
             DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWSREE+EKLLHLA
Sbjct:    16 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEKLLHLA 75

Query:    69 KLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
             KLMPTQWRTIAPIIGRTAAQCLE YEFLL +  ++
Sbjct:    76 KLMPTQWRTIAPIIGRTAAQCLEHYEFLLDKTAQR 110

GO:0000398 "mRNA splicing, via spliceosome" evidence=ISO

GO:0000974 "Prp19 complex" evidence=ISO

GO:0003677 "DNA binding" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0003723 "RNA binding" evidence=ISO

GO:0005634 "nucleus" evidence=ISO

GO:0005681 "spliceosomal complex" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

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

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

GO:0006397 "mRNA processing" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0008380 "RNA splicing" evidence=ISO

GO:0016607 "nuclear speck" evidence=ISO

GO:0019904 "protein domain specific binding" evidence=ISO

GO:0071013 "catalytic step 2 spliceosome" evidence=ISO

GO:0071987 "WD40-repeat domain binding" evidence=ISO

RGD|70892 Cdc5l "cell division cycle 5-like" [Rattus norvegicus (taxid:10116)]

 Score = 464 (168.4 bits), Expect = 2.6e-43, P = 2.6e-43
 Identities = 86/95 (90%), Positives = 91/95 (95%)

Query:     9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
             DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWSREE+EKLLHLA
Sbjct:    16 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEKLLHLA 75

Query:    69 KLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
             KLMPTQWRTIAPIIGRTAAQCLE YEFLL +  ++
Sbjct:    76 KLMPTQWRTIAPIIGRTAAQCLEHYEFLLDKTAQR 110

GO:0000086 "G2/M transition of mitotic cell cycle" evidence=TAS

GO:0000398 "mRNA splicing, via spliceosome" evidence=IDA

GO:0000974 "Prp19 complex" evidence=ISO;ISS

GO:0003677 "DNA binding" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IDA

GO:0005634 "nucleus" evidence=ISO;IDA

GO:0005730 "nucleolus" evidence=IEA;ISO

GO:0005737 "cytoplasm" evidence=IEA

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

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

GO:0008380 "RNA splicing" evidence=IDA

GO:0016607 "nuclear speck" evidence=ISO;IDA

GO:0019904 "protein domain specific binding" evidence=IDA

GO:0071013 "catalytic step 2 spliceosome" evidence=IEA;ISO

GO:0071987 "WD40-repeat domain binding" evidence=ISO;ISS

ZFIN|ZDB-GENE-040426-821 cdc5l "CDC5 cell division cycle 5-like (S. pombe)" [Danio rerio (taxid:7955)]

 Score = 463 (168.0 bits), Expect = 3.3e-43, P = 3.3e-43
 Identities = 85/95 (89%), Positives = 92/95 (96%)

Query:     9 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
             DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWSREE+EKLLH+A
Sbjct:    16 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEKLLHMA 75

Query:    69 KLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
             KLMPTQWRTIAPIIGRTAAQCLE YE+LL +A ++
Sbjct:    76 KLMPTQWRTIAPIIGRTAAQCLEHYEYLLDKAAQR 110

GO:0003677 "DNA binding" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0051301 "cell division" evidence=IEA

UNIPROTKB|E1BWQ5 CDC5L "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 462 (167.7 bits), Expect = 4.4e-43, P = 4.4e-43
 Identities = 86/94 (91%), Positives = 91/94 (96%)

Query:    10 EILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAK 69
             EILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWSREE+EKLLHLAK
Sbjct:    18 EILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEKLLHLAK 77

Query:    70 LMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
             LMPTQWRTIAPIIGRTAAQCLE YEFLL +A ++
Sbjct:    78 LMPTQWRTIAPIIGRTAAQCLEHYEFLLDKAAQR 111

GO:0003677 "DNA binding" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

UNIPROTKB|E1C6A9 CDC5L "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 462 (167.7 bits), Expect = 4.4e-43, P = 4.4e-43
 Identities = 86/94 (91%), Positives = 91/94 (96%)

Query:    10 EILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAK 69
             EILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWSREE+EKLLHLAK
Sbjct:    18 EILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEKLLHLAK 77

Query:    70 LMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
             LMPTQWRTIAPIIGRTAAQCLE YEFLL +A ++
Sbjct:    78 LMPTQWRTIAPIIGRTAAQCLEHYEFLLDKAAQR 111

GO:0003677 "DNA binding" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

GO:0000974 "Prp19 complex" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0016607 "nuclear speck" evidence=IEA

GO:0071013 "catalytic step 2 spliceosome" evidence=IEA

GO:0071987 "WD40-repeat domain binding" evidence=IEA

---

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)
Q6C8F5	CEF1_YARLI	No assigned EC number	0.7391	0.8518	0.1279	yes	N/A
Q6CU65	CEF1_KLULA	No assigned EC number	0.5280	0.8240	0.1639	yes	N/A
P92948	CDC5L_ARATH	No assigned EC number	0.8695	0.8518	0.1090	yes	N/A
Q54WZ0	CDC5L_DICDI	No assigned EC number	0.7368	0.8796	0.1187	yes	N/A
Q6FUG1	CEF1_CANGA	No assigned EC number	0.5543	0.8518	0.1700	yes	N/A
O08837	CDC5L_RAT	No assigned EC number	0.9662	0.8240	0.1109	yes	N/A
A7SD85	CDC5L_NEMVE	No assigned EC number	0.9263	0.8796	0.1180	N/A	N/A
Q03654	CEF1_YEAST	No assigned EC number	0.5434	0.8518	0.1559	yes	N/A
Q6BLT3	CEF1_DEBHA	No assigned EC number	0.7391	0.8518	0.1377	yes	N/A
P39964	CEF1_SCHPO	No assigned EC number	0.8539	0.8240	0.1175	yes	N/A
Q6A068	CDC5L_MOUSE	No assigned EC number	0.9662	0.8240	0.1109	yes	N/A
Q99459	CDC5L_HUMAN	No assigned EC number	0.9456	0.8518	0.1147	yes	N/A
Q2KJC1	CDC5L_BOVIN	No assigned EC number	0.9456	0.8518	0.1147	yes	N/A
Q4WHG0	CEF1_ASPFU	No assigned EC number	0.7684	0.8796	0.1199	yes	N/A
P0CO94	CEF1_CRYNJ	No assigned EC number	0.8152	0.8518	0.1097	yes	N/A
C8VBH3	CEF1_EMENI	No assigned EC number	0.7684	0.8796	0.1201	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	108
cd11659	53	cd11659, SANT_CDC5_II, SANT/myb-like DNA-binding d	2e-30
COG5147	512	COG5147, REB1, Myb superfamily proteins, including	6e-29
pfam13921	59	pfam13921, Myb_DNA-bind_6, Myb-like DNA-binding do	5e-10
pfam00249	47	pfam00249, Myb_DNA-binding, Myb-like DNA-binding d	5e-10
PLN03212	249	PLN03212, PLN03212, Transcription repressor MYB5;	2e-09
smart00717	49	smart00717, SANT, SANT SWI3, ADA2, N-CoR and TFIII	1e-08
cd00167	45	cd00167, SANT, 'SWI3, ADA2, N-CoR and TFIIIB' DNA-	3e-08
PLN03091	459	PLN03091, PLN03091, hypothetical protein; Provisio	5e-07
pfam13921	59	pfam13921, Myb_DNA-bind_6, Myb-like DNA-binding do	2e-05
smart00717	49	smart00717, SANT, SANT SWI3, ADA2, N-CoR and TFIII	2e-05
pfam00249	47	pfam00249, Myb_DNA-binding, Myb-like DNA-binding d	1e-04
cd00167	45	cd00167, SANT, 'SWI3, ADA2, N-CoR and TFIIIB' DNA-	3e-04
PLN02940	382	PLN02940, PLN02940, riboflavin kinase	0.004

>gnl|CDD|212557 cd11659, SANT_CDC5_II, SANT/myb-like DNA-binding domain of Cell Division Cycle 5-Like Protein repeat II

 Score =  102 bits (255), Expect = 2e-30
 Identities = 44/52 (84%), Positives = 47/52 (90%)

Query: 49  PSIKKTEWSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRA 100
           PSIKKTEW+REEDEKLLHLAKL+PTQWRTIAPI+GRTA QCLERY  LL  A
Sbjct: 1   PSIKKTEWTREEDEKLLHLAKLLPTQWRTIAPIVGRTAQQCLERYNKLLDEA 52

In humans, cell division cycle 5-like protein (CDC5) functions in pre-mRNA splicing in cell cycle control. The DNA-binding, myb-like domain of CDC5 is a member of the SANT/myb group. SANT is named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. The SANT domain resembles the 3 alpha-helix bundle of DNA-binding Myb domains and is found in a diverse set of proteins. Length = 53

>gnl|CDD|227476 COG5147, REB1, Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]

 Score =  107 bits (270), Expect = 6e-29
 Identities = 46/86 (53%), Positives = 55/86 (63%), Gaps = 1/86 (1%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           DE LKA V K G N WS++ASLL   + KQ   RW   L+P +KK  WS EEDE+L+ L 
Sbjct: 28  DEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLD 87

Query: 69  KLMPTQWRTIAPII-GRTAAQCLERY 93
           K + TQW TIA     RTA QC+ERY
Sbjct: 88  KELGTQWSTIADYKDRRTAQQCVERY 113

Length = 512

>gnl|CDD|206092 pfam13921, Myb_DNA-bind_6, Myb-like DNA-binding domain

 Score = 50.8 bits (122), Expect = 5e-10
 Identities = 23/56 (41%), Positives = 31/56 (55%), Gaps = 2/56 (3%)

Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKL 64
          DE L   V KYG N W +IA  L R +   C+ RW   L P   +  W++EED++L
Sbjct: 6  DEKLLKLVEKYG-NDWKQIAEELGR-TPSACRDRWRRKLRPKRSRGPWTKEEDQRL 59

This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family. Length = 59

>gnl|CDD|215818 pfam00249, Myb_DNA-binding, Myb-like DNA-binding domain

 Score = 50.2 bits (121), Expect = 5e-10
 Identities = 18/39 (46%), Positives = 24/39 (61%)

Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWL 47
          DE+L  AV K+G   WS+IA  L  ++  QCK RW  +L
Sbjct: 9  DELLIEAVKKHGNGNWSKIAKHLPGRTDNQCKNRWNNYL 47

This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family. Length = 47

>gnl|CDD|178751 PLN03212, PLN03212, Transcription repressor MYB5; Provisional

 Score = 52.4 bits (125), Expect = 2e-09
 Identities = 29/81 (35%), Positives = 47/81 (58%), Gaps = 6/81 (7%)

Query: 9   DEILKAAVMKYGKNQWSRI---ASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLL 65
           DEIL + + K G+ +W  +   A LL  +  K C+ RW  +L PS+K+   + +E++ +L
Sbjct: 33  DEILVSFIKKEGEGRWRSLPKRAGLL--RCGKSCRLRWMNYLRPSVKRGGITSDEEDLIL 90

Query: 66  HLAKLMPTQWRTIA-PIIGRT 85
            L +L+  +W  IA  I GRT
Sbjct: 91  RLHRLLGNRWSLIAGRIPGRT 111

Length = 249

>gnl|CDD|197842 smart00717, SANT, SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains

 Score = 46.8 bits (112), Expect = 1e-08
 Identities = 20/41 (48%), Positives = 26/41 (63%)

Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDP 49
          DE+L   V KYGKN W +IA  L  ++A+QC+ RW   L P
Sbjct: 9  DELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWRNLLKP 49

Length = 49

>gnl|CDD|238096 cd00167, SANT, 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains

 Score = 46.0 bits (110), Expect = 3e-08
 Identities = 20/39 (51%), Positives = 25/39 (64%)

Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWL 47
          DE+L  AV KYGKN W +IA  L  ++ KQC+ RW   L
Sbjct: 7  DELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45

Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA. Length = 45

>gnl|CDD|215570 PLN03091, PLN03091, hypothetical protein; Provisional

 Score = 46.1 bits (109), Expect = 5e-07
 Identities = 26/80 (32%), Positives = 42/80 (52%), Gaps = 4/80 (5%)

Query: 9   DEILKAAVMKYGKNQWSRIASL--LHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLH 66
           DE L   + KYG   WS +     L R   K C+ RW  +L P +K+  +S++E+  ++ 
Sbjct: 22  DEKLLRHITKYGHGCWSSVPKQAGLQR-CGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80

Query: 67  LAKLMPTQWRTIAP-IIGRT 85
           L  ++  +W  IA  + GRT
Sbjct: 81  LHAVLGNRWSQIAAQLPGRT 100

Length = 459

>gnl|CDD|206092 pfam13921, Myb_DNA-bind_6, Myb-like DNA-binding domain

 Score = 38.8 bits (91), Expect = 2e-05
 Identities = 20/48 (41%), Positives = 28/48 (58%), Gaps = 1/48 (2%)

Query: 56  WSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
           W+ EEDEKLL L +     W+ IA  +GRT + C +R+   L R +R 
Sbjct: 1   WTEEEDEKLLKLVEKYGNDWKQIAEELGRTPSACRDRWRRKL-RPKRS 47

This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family. Length = 59

>gnl|CDD|197842 smart00717, SANT, SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains

 Score = 38.4 bits (90), Expect = 2e-05
 Identities = 22/49 (44%), Positives = 26/49 (53%), Gaps = 2/49 (4%)

Query: 53 KTEWSREEDEKLLHLAKLMPT-QWRTIAPIIG-RTAAQCLERYEFLLYR 99
          K EW+ EEDE L+ L K      W  IA  +  RTA QC ER+  LL  
Sbjct: 1  KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWRNLLKP 49

Length = 49

>gnl|CDD|215818 pfam00249, Myb_DNA-binding, Myb-like DNA-binding domain

 Score = 36.3 bits (85), Expect = 1e-04
 Identities = 16/43 (37%), Positives = 21/43 (48%), Gaps = 2/43 (4%)

Query: 53 KTEWSREEDEKLLHLAKLMPT-QWRTIAPII-GRTAAQCLERY 93
          +  W+ EEDE L+   K      W  IA  + GRT  QC  R+
Sbjct: 1  RGPWTPEEDELLIEAVKKHGNGNWSKIAKHLPGRTDNQCKNRW 43

This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family. Length = 47

>gnl|CDD|238096 cd00167, SANT, 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains

 Score = 35.6 bits (83), Expect = 3e-04
 Identities = 19/45 (42%), Positives = 22/45 (48%), Gaps = 2/45 (4%)

Query: 55 EWSREEDEKLLHL-AKLMPTQWRTIAPIIG-RTAAQCLERYEFLL 97
           W+ EEDE LL    K     W  IA  +  RT  QC ER+  LL
Sbjct: 1  PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45

Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA. Length = 45

>gnl|CDD|178528 PLN02940, PLN02940, riboflavin kinase

 Score = 34.8 bits (80), Expect = 0.004
 Identities = 23/83 (27%), Positives = 35/83 (42%), Gaps = 7/83 (8%)

Query: 1  MLKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREE 60
          +L T  IV ++LKA ++KYGK QW        R++ K       E     ++        
Sbjct: 22 LLNTDGIVSDVLKAFLVKYGK-QWDG------REAQKIVGKTPLEAAATVVEDYGLPCST 74

Query: 61 DEKLLHLAKLMPTQWRTIAPIIG 83
          DE    +  L+  QW  I  + G
Sbjct: 75 DEFNSEITPLLSEQWCNIKALPG 97

Length = 382

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	108
PLN03212	249	Transcription repressor MYB5; Provisional	100.0
PLN03091	459	hypothetical protein; Provisional	100.0
KOG0048|consensus	238		100.0
KOG0049|consensus	939		99.88
PF13921	60	Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB:	99.87
KOG0049|consensus	939		99.85
KOG0050|consensus	617		99.82
COG5147	512	REB1 Myb superfamily proteins, including transcrip	99.72
PF00249	48	Myb_DNA-binding: Myb-like DNA-binding domain; Inte	99.71
PF00249	48	Myb_DNA-binding: Myb-like DNA-binding domain; Inte	99.68
KOG0051|consensus	607		99.67
PLN03212	249	Transcription repressor MYB5; Provisional	99.6
PF13921	60	Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB:	99.55
KOG0048|consensus	238		99.53
smart00717	49	SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-bindi	99.52
smart00717	49	SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-bindi	99.5
cd00167	45	SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding do	99.49
KOG0051|consensus	607		99.47
PLN03091	459	hypothetical protein; Provisional	99.45
cd00167	45	SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding do	99.4
TIGR01557	57	myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF c	98.82
COG5147	512	REB1 Myb superfamily proteins, including transcrip	98.8
KOG0457|consensus	438		98.78
KOG0050|consensus	617		98.5
COG5259	531	RSC8 RSC chromatin remodeling complex subunit RSC8	98.44
TIGR01557	57	myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF c	98.34
PF13325	199	MCRS_N: N-terminal region of micro-spherule protei	98.31
KOG0457|consensus	438		98.28
TIGR02894	161	DNA_bind_RsfA transcription factor, RsfA family. I	98.28
KOG1279|consensus	506		98.16
PF13837	90	Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain;	97.93
PF08914	65	Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR0150	97.92
COG5114	432	Histone acetyltransferase complex SAGA/ADA, subuni	97.9
COG5259	531	RSC8 RSC chromatin remodeling complex subunit RSC8	97.9
KOG1279|consensus	506		97.81
PF13837	90	Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain;	97.81
PRK13923	170	putative spore coat protein regulator protein YlbO	97.62
PLN03142	1033	Probable chromatin-remodeling complex ATPase chain	97.54
TIGR02894	161	DNA_bind_RsfA transcription factor, RsfA family. I	97.49
PF08914	65	Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR0150	97.48
PF13873	78	Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain	97.41
PF13873	78	Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain	97.23
COG5114	432	Histone acetyltransferase complex SAGA/ADA, subuni	97.08
PRK13923	170	putative spore coat protein regulator protein YlbO	96.66
COG5118	507	BDP1 Transcription initiation factor TFIIIB, Bdp1	96.49
KOG4282|consensus	345		96.07
KOG2656|consensus	445		96.03
COG5118	507	BDP1 Transcription initiation factor TFIIIB, Bdp1	95.91
PF09111	118	SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain	95.76
PF09111	118	SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain	95.51
PF12776	96	Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain;	94.94
KOG4167|consensus	907		94.85
KOG4282|consensus	345		94.83
PF12776	96	Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain;	94.7
KOG1194|consensus	534		94.25
PF08281	54	Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013	93.72
KOG1194|consensus	534		93.53
smart00595	89	MADF subfamily of SANT domain.	92.78
PF13404	42	HTH_AsnC-type: AsnC-type helix-turn-helix domain;	92.71
PF13404	42	HTH_AsnC-type: AsnC-type helix-turn-helix domain;	92.69
KOG4468|consensus	782		91.46
PF09197	105	Rap1-DNA-bind: Rap1, DNA-binding; InterPro: IPR015	91.4
smart00595	89	MADF subfamily of SANT domain.	90.82
KOG4167|consensus	907		90.77
PF11035	344	SnAPC_2_like: Small nuclear RNA activating complex	90.68
PRK11179	153	DNA-binding transcriptional regulator AsnC; Provis	90.1
PF04545	50	Sigma70_r4: Sigma-70, region 4; InterPro: IPR00763	89.98
PRK11169	164	leucine-responsive transcriptional regulator; Prov	89.52
KOG2656|consensus	445		89.51
PF13325	199	MCRS_N: N-terminal region of micro-spherule protei	89.51
KOG4329|consensus	445		88.91
PRK11179	153	DNA-binding transcriptional regulator AsnC; Provis	88.82
PF01388	92	ARID: ARID/BRIGHT DNA binding domain; InterPro: IP	87.81
PRK11169	164	leucine-responsive transcriptional regulator; Prov	87.14
PF11626	87	Rap1_C: TRF2-interacting telomeric protein/Rap1 -	86.95
smart00501	93	BRIGHT BRIGHT, ARID (A/T-rich interaction domain)	86.61
PF08281	54	Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013	86.39
PF07750	162	GcrA: GcrA cell cycle regulator; InterPro: IPR0116	86.15
KOG2009|consensus	584		86.04
PF09420	164	Nop16: Ribosome biogenesis protein Nop16; InterPro	85.67
PF10545	85	MADF_DNA_bdg: Alcohol dehydrogenase transcription	85.58
KOG4329|consensus	445		85.45
PLN03142	1033	Probable chromatin-remodeling complex ATPase chain	85.1
TIGR02985	161	Sig70_bacteroi1 RNA polymerase sigma-70 factor, Ba	83.2
KOG4468|consensus	782		82.81
PF09420	164	Nop16: Ribosome biogenesis protein Nop16; InterPro	80.7
PF04504	98	DUF573: Protein of unknown function, DUF573; Inter	80.54
PF04504	98	DUF573: Protein of unknown function, DUF573; Inter	80.49
KOG0384|consensus	1373		80.42

>PLN03212 Transcription repressor MYB5; Provisional

Probab=100.00  E-value=6.5e-36  Score=207.78  Aligned_cols=102  Identities=26%  Similarity=0.491  Sum_probs=97.5

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHh-CCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCCcchhcccc
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLL-HRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAP   80 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~-~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~   80 (108)
                      .+||+|||++|+++|++||.++|..||..+ ++|++.||++||.++|+|.+++++||+|||++|++++..+|++|..||+
T Consensus        26 g~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~~~~GnKWs~IAk  105 (249)
T PLN03212         26 GPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRWSLIAG  105 (249)
T ss_pred             CCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHHHhccccHHHHHh
Confidence            489999999999999999988999999988 4999999999999999999999999999999999999999999999999


Q ss_pred             -ccCCCHHHHHHHHHHHHhHHHhh
Q psy15548         81 -IIGRTAAQCLERYEFLLYRARRK  103 (108)
Q Consensus        81 -~~gRt~~q~~~r~~~~~~~~~~~  103 (108)
                       |+|||+.+|++||..++++...+
T Consensus       106 ~LpGRTDnqIKNRWns~LrK~l~r  129 (249)
T PLN03212        106 RIPGRTDNEIKNYWNTHLRKKLLR  129 (249)
T ss_pred             hcCCCCHHHHHHHHHHHHhHHHHh
Confidence             99999999999999999887553

>PLN03091 hypothetical protein; Provisional

Probab=100.00  E-value=5.7e-34  Score=210.69  Aligned_cols=101  Identities=26%  Similarity=0.519  Sum_probs=97.4

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhC-CCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCCcchhcccc
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLH-RKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAP   80 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~-~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~   80 (108)
                      .+||+|||++|+++|.+||.++|..||..++ +|++.||++||.++|+|.+++++||+|||.+|++++..+|++|..||+
T Consensus        15 g~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~GnKWskIAk   94 (459)
T PLN03091         15 GLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQIAA   94 (459)
T ss_pred             CCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHhCcchHHHHH
Confidence            4899999999999999999999999999886 999999999999999999999999999999999999999999999999


Q ss_pred             -ccCCCHHHHHHHHHHHHhHHHh
Q psy15548         81 -IIGRTAAQCLERYEFLLYRARR  102 (108)
Q Consensus        81 -~~gRt~~q~~~r~~~~~~~~~~  102 (108)
                       |+|||+.+|++||+.++++.++
T Consensus        95 ~LPGRTDnqIKNRWnslLKKklr  117 (459)
T PLN03091         95 QLPGRTDNEIKNLWNSCLKKKLR  117 (459)
T ss_pred             hcCCCCHHHHHHHHHHHHHHHHH
Confidence             9999999999999999988765

>KOG0048|consensus

Probab=100.00  E-value=1.5e-33  Score=198.31  Aligned_cols=102  Identities=25%  Similarity=0.455  Sum_probs=98.7

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhC-CCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCCcchhcccc
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLH-RKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAP   80 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~-~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~   80 (108)
                      +|||+|||++|+++|.+||.++|..||+.++ +|+..+||.||.++|+|++++|.||+|||..|++++..+|++|+.||+
T Consensus        10 GpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrWs~IA~   89 (238)
T KOG0048|consen   10 GPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRWSLIAG   89 (238)
T ss_pred             CCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHHHHHHh
Confidence            7999999999999999999999999999999 999999999999999999999999999999999999999999999999


Q ss_pred             -ccCCCHHHHHHHHHHHHhHHHhh
Q psy15548         81 -IIGRTAAQCLERYEFLLYRARRK  103 (108)
Q Consensus        81 -~~gRt~~q~~~r~~~~~~~~~~~  103 (108)
                       +||||++.++++|+..+++...+
T Consensus        90 ~LPGRTDNeIKN~Wnt~lkkkl~~  113 (238)
T KOG0048|consen   90 RLPGRTDNEVKNHWNTHLKKKLLK  113 (238)
T ss_pred             hCCCcCHHHHHHHHHHHHHHHHHH
Confidence             99999999999999988777654

>KOG0049|consensus

Probab=99.88  E-value=1.2e-22  Score=156.06  Aligned_cols=102  Identities=26%  Similarity=0.441  Sum_probs=96.8

Q ss_pred             CCcHHHHHHHHHHHHHhCCC---CHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCC-cchhcc
Q psy15548          3 KTMTIVDEILKAAVMKYGKN---QWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMP-TQWRTI   78 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~~---~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g-~~W~~I   78 (108)
                      .||.|||.+|+.+|.....+   +|.+|-.+||||+..|...||...|+|++++|+||++||.+|+.+|.+|| ..|.+|
T Consensus       307 eWsEEed~kL~alV~~~~~nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~  386 (939)
T KOG0049|consen  307 EWSEEEDTKLIALVKITSINSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKV  386 (939)
T ss_pred             hcchhhhHHHHHHHHHhhccCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhH
Confidence            59999999999999987554   89999999999999999999999999999999999999999999999998 689999


Q ss_pred             cc-ccCCCHHHHHHHHHHHHhHHHhhh
Q psy15548         79 AP-IIGRTAAQCLERYEFLLYRARRKA  104 (108)
Q Consensus        79 a~-~~gRt~~q~~~r~~~~~~~~~~~~  104 (108)
                      -. +||||..||+.||.+.|....+++
T Consensus       387 R~~vPnRSdsQcR~RY~nvL~~s~K~~  413 (939)
T KOG0049|consen  387 RQAVPNRSDSQCRERYTNVLNRSAKVE  413 (939)
T ss_pred             HHhcCCccHHHHHHHHHHHHHHhhccC
Confidence            99 999999999999999999988775

>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A

Probab=99.87  E-value=7.8e-22  Score=111.72  Aligned_cols=60  Identities=40%  Similarity=0.803  Sum_probs=54.9

Q ss_pred             CcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHH
Q psy15548          4 TMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKL   64 (108)
Q Consensus         4 Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L   64 (108)
                      ||+|||++|+.+|..||. +|..||..||+||+.+|+.||...|.|..++++||++||..|
T Consensus         1 WT~eEd~~L~~~~~~~g~-~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L   60 (60)
T PF13921_consen    1 WTKEEDELLLELVKKYGN-DWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL   60 (60)
T ss_dssp             S-HHHHHHHHHHHHHHTS--HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHCc-CHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence            999999999999999995 999999999889999999999999999999999999999987

...

>KOG0049|consensus

Probab=99.85  E-value=1.6e-21  Score=149.88  Aligned_cols=96  Identities=26%  Similarity=0.410  Sum_probs=88.6

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCC-cchhcccc
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMP-TQWRTIAP   80 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~   80 (108)
                      .+||++||.+|..+|.+||..+|.+|-..+|||+..||++||.++|+...+.+.||-.||+.|+.+|..|| ++|.+||.
T Consensus       361 g~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~~V~~YG~g~WakcA~  440 (939)
T KOG0049|consen  361 GRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNVLNRSAKVERWTLVEDEQLLYAVKVYGKGNWAKCAM  440 (939)
T ss_pred             CCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHHHHHhhccCceeecchHHHHHHHHHHccchHHHHHH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999 79999999


Q ss_pred             -ccCCCH---HHHHHHHHHHH
Q psy15548         81 -IIGRTA---AQCLERYEFLL   97 (108)
Q Consensus        81 -~~gRt~---~q~~~r~~~~~   97 (108)
                       +++||.   ..|+.|+..+.
T Consensus       441 ~Lp~~t~~q~~rrR~R~~~~k  461 (939)
T KOG0049|consen  441 LLPKKTSRQLRRRRLRLIAAK  461 (939)
T ss_pred             HccccchhHHHHHHHHHHHHH
Confidence             888998   45666665443

>KOG0050|consensus

Probab=99.82  E-value=2e-20  Score=140.70  Aligned_cols=102  Identities=74%  Similarity=1.109  Sum_probs=97.8

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCCcchhccccc
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAPI   81 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~~   81 (108)
                      +-|+.-||+.|..+|.+||.+.|+.|++.++..++.||+.||..+++|.+++..||.+||++|+.+.......|.-|+.+
T Consensus         8 gvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrtIa~i   87 (617)
T KOG0050|consen    8 GVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRTIADI   87 (617)
T ss_pred             ceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccchHHHH
Confidence            46999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCHHHHHHHHHHHHhHHHhh
Q psy15548         82 IGRTAAQCLERYEFLLYRARRK  103 (108)
Q Consensus        82 ~gRt~~q~~~r~~~~~~~~~~~  103 (108)
                      +|||+.||-.||.+++......
T Consensus        88 ~gr~~~qc~eRy~~ll~~~~s~  109 (617)
T KOG0050|consen   88 MGRTSQQCLERYNNLLDVYVSY  109 (617)
T ss_pred             hhhhHHHHHHHHHHHHHHHHhh
Confidence            9999999999999999876654

>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]

Probab=99.72  E-value=9.8e-18  Score=127.61  Aligned_cols=101  Identities=47%  Similarity=0.656  Sum_probs=96.6

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCCcchhcccc-
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAP-   80 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-   80 (108)
                      +.|+..||+.|..+|..||.++|+.||..+..+++.+|+.||.++++|.++++.|+.+||..|+.+...+|..|+.||. 
T Consensus        21 gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~wstia~~  100 (512)
T COG5147          21 GSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWSTIADY  100 (512)
T ss_pred             CCCCCcchhHHHHHHhhcccccHHHHHHHhcccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCchhhhhccc
Confidence            4799999999999999999999999999999999999999999999999999999999999999999999999999999 


Q ss_pred             ccCCCHHHHHHHHHHHHhHHHh
Q psy15548         81 IIGRTAAQCLERYEFLLYRARR  102 (108)
Q Consensus        81 ~~gRt~~q~~~r~~~~~~~~~~  102 (108)
                      ++|||..+|.+||...+.....
T Consensus       101 ~d~rt~~~~~ery~~~~~~~~s  122 (512)
T COG5147         101 KDRRTAQQCVERYVNTLEDLSS  122 (512)
T ss_pred             cCccchHHHHHHHHHHhhhhhc
Confidence            7789999999999998877655

>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins

Probab=99.71  E-value=2.2e-17  Score=89.60  Aligned_cols=46  Identities=39%  Similarity=0.599  Sum_probs=41.8

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhC-CCCHHHHHHHhhhhc
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLH-RKSAKQCKARWFEWL   47 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~-~R~~~qc~~rw~~~l   47 (108)
                      .+||+|||++|.++|.+||.++|..||..|| +||+.||+.||++++
T Consensus         2 ~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~   48 (48)
T PF00249_consen    2 GPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL   48 (48)
T ss_dssp             -SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence            5899999999999999999866999999999 999999999999864

These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....

>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins

Probab=99.68  E-value=6.8e-17  Score=87.66  Aligned_cols=45  Identities=49%  Similarity=0.839  Sum_probs=40.6

Q ss_pred             ccCCCHHHHHHHHHHHhhCCcc-hhcccc-cc-CCCHHHHHHHHHHHH
Q psy15548         53 KTEWSREEDEKLLHLAKLMPTQ-WRTIAP-II-GRTAAQCLERYEFLL   97 (108)
Q Consensus        53 ~~~Wt~eEd~~L~~~v~~~g~~-W~~Ia~-~~-gRt~~q~~~r~~~~~   97 (108)
                      +++||++||+.|+++|.+||.+ |..||. ++ |||+.||++||++++
T Consensus         1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~   48 (48)
T PF00249_consen    1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL   48 (48)
T ss_dssp             S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence            4799999999999999999987 999999 98 999999999999874

These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....

>KOG0051|consensus

Probab=99.67  E-value=2.6e-16  Score=121.10  Aligned_cols=103  Identities=25%  Similarity=0.425  Sum_probs=90.0

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCC--cccCCCHHHHHHHHHHHh-------hC-
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSI--KKTEWSREEDEKLLHLAK-------LM-   71 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~--~~~~Wt~eEd~~L~~~v~-------~~-   71 (108)
                      ++||+||++.|..+|.++|. .|..|+..| ||.|..|++||+++..++.  ++++||.+|.+.|+.+|.       ++ 
T Consensus       385 g~wt~ee~eeL~~l~~~~g~-~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q  462 (607)
T KOG0051|consen  385 GKWTPEEEEELKKLVVEHGN-DWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREALQPQ  462 (607)
T ss_pred             CCCCcchHHHHHHHHHHhcc-cHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhhccc
Confidence            68999999999999999996 999999999 5999999999999999885  889999999999999994       23 


Q ss_pred             ------------------Ccchhcccc-ccCCCHHHHHHHHHHHHhHHHhhhhh
Q psy15548         72 ------------------PTQWRTIAP-IIGRTAAQCLERYEFLLYRARRKAVQ  106 (108)
Q Consensus        72 ------------------g~~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~~~~~~  106 (108)
                                        +-+|..|++ +..|+..||+.+|..++....-.+.+
T Consensus       463 ~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n~~~  516 (607)
T KOG0051|consen  463 ASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFNKRQ  516 (607)
T ss_pred             ccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhhccc
Confidence                              127999999 55699999999999988776554443

>PLN03212 Transcription repressor MYB5; Provisional

Probab=99.60  E-value=7.7e-16  Score=107.66  Aligned_cols=57  Identities=25%  Similarity=0.461  Sum_probs=52.7

Q ss_pred             CCCCcccCCCHHHHHHHHHHHhhCC-cchhcccc-c-cCCCHHHHHHHHHHHHhHHHhhh
Q psy15548         48 DPSIKKTEWSREEDEKLLHLAKLMP-TQWRTIAP-I-IGRTAAQCLERYEFLLYRARRKA  104 (108)
Q Consensus        48 ~~~~~~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~-~gRt~~q~~~r~~~~~~~~~~~~  104 (108)
                      .+++++++||+|||++|+++|++|| .+|..||+ + +|||+.||+.||.++|+|.++++
T Consensus        20 K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kg   79 (249)
T PLN03212         20 KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRG   79 (249)
T ss_pred             cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccC
Confidence            3568899999999999999999999 58999999 7 69999999999999999999876

>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A

Probab=99.55  E-value=2.3e-15  Score=84.97  Aligned_cols=48  Identities=38%  Similarity=0.638  Sum_probs=40.1

Q ss_pred             CCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHHHHhHHHhh
Q psy15548         56 WSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEFLLYRARRK  103 (108)
Q Consensus        56 Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~~~  103 (108)
                      ||++||..|+.+|..||.+|..||+ |+.||+.+|++||...+++.+++
T Consensus         1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~   49 (60)
T PF13921_consen    1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISR   49 (60)
T ss_dssp             S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTS
T ss_pred             CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccC
Confidence            9999999999999999999999999 64499999999999977765544

...

>KOG0048|consensus

Probab=99.53  E-value=4.5e-15  Score=104.55  Aligned_cols=57  Identities=19%  Similarity=0.288  Sum_probs=52.0

Q ss_pred             CCCcccCCCHHHHHHHHHHHhhCC-cchhcccc-cc-CCCHHHHHHHHHHHHhHHHhhhh
Q psy15548         49 PSIKKTEWSREEDEKLLHLAKLMP-TQWRTIAP-II-GRTAAQCLERYEFLLYRARRKAV  105 (108)
Q Consensus        49 ~~~~~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~~-gRt~~q~~~r~~~~~~~~~~~~~  105 (108)
                      +.+.+|+||+|||++|+++|++|| ++|..|++ +. ||++++||.||.++|+|.++++.
T Consensus         5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~   64 (238)
T KOG0048|consen    5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGN   64 (238)
T ss_pred             ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCC
Confidence            345579999999999999999999 57999999 76 99999999999999999999874

>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains

Probab=99.52  E-value=5.5e-14  Score=75.22  Aligned_cols=47  Identities=40%  Similarity=0.674  Sum_probs=43.7

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcC
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLD   48 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~   48 (108)
                      .+||++||..|..++..||..+|..||..||+||+.+|+.+|..++.
T Consensus         2 ~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~   48 (49)
T smart00717        2 GEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK   48 (49)
T ss_pred             CCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence            58999999999999999995599999999999999999999998654

>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains

Probab=99.50  E-value=3e-14  Score=76.25  Aligned_cols=46  Identities=50%  Similarity=0.811  Sum_probs=43.1

Q ss_pred             ccCCCHHHHHHHHHHHhhCC-cchhcccc-ccCCCHHHHHHHHHHHHh
Q psy15548         53 KTEWSREEDEKLLHLAKLMP-TQWRTIAP-IIGRTAAQCLERYEFLLY   98 (108)
Q Consensus        53 ~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~~gRt~~q~~~r~~~~~~   98 (108)
                      +++||++||..|+.++..+| .+|..||. +++||+.+|+.||..+++
T Consensus         1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~   48 (49)
T smart00717        1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK   48 (49)
T ss_pred             CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence            36899999999999999999 99999999 899999999999998765

>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains

Probab=99.49  E-value=1e-13  Score=73.06  Aligned_cols=44  Identities=43%  Similarity=0.731  Sum_probs=41.6

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhh
Q psy15548          3 KTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEW   46 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~   46 (108)
                      +||++||..|..++..||..+|..||..|++|++.+|+.+|.++
T Consensus         1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~   44 (45)
T cd00167           1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNL   44 (45)
T ss_pred             CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHh
Confidence            69999999999999999956999999999999999999999875

Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.

>KOG0051|consensus

Probab=99.47  E-value=9.1e-14  Score=107.25  Aligned_cols=100  Identities=23%  Similarity=0.342  Sum_probs=88.4

Q ss_pred             CCCcHHHHHHHHHHHHHhCC-----------------------CCHHHHHHHhCCCCHHHHHHHhhhhcCCCC-cccCCC
Q psy15548          2 LKTMTIVDEILKAAVMKYGK-----------------------NQWSRIASLLHRKSAKQCKARWFEWLDPSI-KKTEWS   57 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~-----------------------~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~-~~~~Wt   57 (108)
                      ..|+++||..|...|+.|-.                       +-|+.|...||.|+...++.+-++..+|.- .+|.||
T Consensus       309 ~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp~R~~~siy~~~rR~y~~FE~~rg~wt  388 (607)
T KOG0051|consen  309 KKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLPYRDRKSIYHHLRRAYTPFENKRGKWT  388 (607)
T ss_pred             hhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcCcccchhHHHHHHhcCCccccccCCCC
Confidence            57999999999999999811                       247889999999999999886655555544 899999


Q ss_pred             HHHHHHHHHHHhhCCcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548         58 REEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRAR  101 (108)
Q Consensus        58 ~eEd~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~  101 (108)
                      ++|++.|..++.++|+.|..|++++||.|..|++||.++....-
T Consensus       389 ~ee~eeL~~l~~~~g~~W~~Ig~~lgr~P~~crd~wr~~~~~g~  432 (607)
T KOG0051|consen  389 PEEEEELKKLVVEHGNDWKEIGKALGRMPMDCRDRWRQYVKCGS  432 (607)
T ss_pred             cchHHHHHHHHHHhcccHHHHHHHHccCcHHHHHHHHHhhcccc
Confidence            99999999999999999999999999999999999999998874

>PLN03091 hypothetical protein; Provisional

Probab=99.45  E-value=3.9e-14  Score=105.76  Aligned_cols=57  Identities=26%  Similarity=0.446  Sum_probs=52.1

Q ss_pred             CCCCcccCCCHHHHHHHHHHHhhCC-cchhcccc-c-cCCCHHHHHHHHHHHHhHHHhhh
Q psy15548         48 DPSIKKTEWSREEDEKLLHLAKLMP-TQWRTIAP-I-IGRTAAQCLERYEFLLYRARRKA  104 (108)
Q Consensus        48 ~~~~~~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~-~gRt~~q~~~r~~~~~~~~~~~~  104 (108)
                      .+.+++++||+|||++|+++|.+|| .+|..||+ + +|||+.||+.||.++|+|.++++
T Consensus         9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKg   68 (459)
T PLN03091          9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRG   68 (459)
T ss_pred             CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCC
Confidence            3568899999999999999999999 58999999 6 58999999999999999999876

>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains

Probab=99.40  E-value=4.1e-13  Score=70.68  Aligned_cols=43  Identities=47%  Similarity=0.782  Sum_probs=40.4

Q ss_pred             CCCHHHHHHHHHHHhhCC-cchhcccc-ccCCCHHHHHHHHHHHH
Q psy15548         55 EWSREEDEKLLHLAKLMP-TQWRTIAP-IIGRTAAQCLERYEFLL   97 (108)
Q Consensus        55 ~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~~gRt~~q~~~r~~~~~   97 (108)
                      +||++||..|+.++..+| .+|..||. +++||+.+|++||.+++
T Consensus         1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~   45 (45)
T cd00167           1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL   45 (45)
T ss_pred             CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence            599999999999999999 99999999 88999999999998763

Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.

>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class

Probab=98.82  E-value=1.7e-08  Score=56.43  Aligned_cols=46  Identities=20%  Similarity=0.280  Sum_probs=41.9

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCH---HHHHHHhC-CC-CHHHHHHHhhhhc
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQW---SRIASLLH-RK-SAKQCKARWFEWL   47 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W---~~Ia~~~~-~R-~~~qc~~rw~~~l   47 (108)
                      +.||+||...++++|+.+|.++|   ..|++.|. .+ |..||+.|++.+.
T Consensus         4 ~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~   54 (57)
T TIGR01557         4 VVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR   54 (57)
T ss_pred             CCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence            57999999999999999998899   99999886 56 9999999998764

This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.

>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]

Probab=98.80  E-value=5.3e-10  Score=85.74  Aligned_cols=95  Identities=28%  Similarity=0.554  Sum_probs=81.4

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCC--CCcccCCCHHHHHHHHHHHhhC--------
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDP--SIKKTEWSREEDEKLLHLAKLM--------   71 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~--~~~~~~Wt~eEd~~L~~~v~~~--------   71 (108)
                      .+||++|+..|...+..+|. .|..|...+ +|-+..|++||+.+..+  .+.+++||.+|+.+|...|...        
T Consensus       292 ~~wt~e~~~eL~~~~~~~~~-~w~~ig~~~-~rmp~~crd~wr~~~~~g~t~~~~~ws~eee~~l~~vv~e~~~~~~~~~  369 (512)
T COG5147         292 GKWTKEEEQELAKLVVEHGG-SWTEIGKLL-GRMPNDCRDRWRDYVKCGDTLKRNRWSIEEEELLDKVVNEMRLEAQQSS  369 (512)
T ss_pred             ccCccccccccccccccccc-hhhHhhhhh-ccCcHHHHHHHhhhccccCccCCCCCchhhhhhHHHHHHHHHHHHhhhh
Confidence            58999999999999999996 999999888 59999999999999888  5677899999999999887521        


Q ss_pred             Ccchhcccc-ccCCCHHHHHHHHHHHHh
Q psy15548         72 PTQWRTIAP-IIGRTAAQCLERYEFLLY   98 (108)
Q Consensus        72 g~~W~~Ia~-~~gRt~~q~~~r~~~~~~   98 (108)
                      ...|..|+. +.+|...+|+..+.....
T Consensus       370 ~~~~~li~~~~~~~~~~~~~~~~~~~~~  397 (512)
T COG5147         370 RILWLLIAQNIRNRLQHHCRDKYGVLIS  397 (512)
T ss_pred             hhhHHHHHHhhhccccCCCCCccccccc
Confidence            147999999 788888888877765544

>KOG0457|consensus

Probab=98.78  E-value=1.1e-08  Score=76.63  Aligned_cols=45  Identities=22%  Similarity=0.443  Sum_probs=43.2

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhc
Q psy15548          3 KTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWL   47 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l   47 (108)
                      -||++|+-+|+++++.||.|||..||.++++|+..+|+++|.+++
T Consensus        74 ~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~f  118 (438)
T KOG0457|consen   74 SWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHF  118 (438)
T ss_pred             CCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHH
Confidence            599999999999999999999999999999999999999998865

>KOG0050|consensus

Probab=98.50  E-value=7.6e-08  Score=73.57  Aligned_cols=54  Identities=37%  Similarity=0.487  Sum_probs=49.6

Q ss_pred             CcccCCCHHHHHHHHHHHhhCC-cchhcccc-ccCCCHHHHHHHHHHHHhHHHhhh
Q psy15548         51 IKKTEWSREEDEKLLHLAKLMP-TQWRTIAP-IIGRTAAQCLERYEFLLYRARRKA  104 (108)
Q Consensus        51 ~~~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~~~~  104 (108)
                      ++.|.|+..||+.|..+|.+|| +.|+.|++ +.-+|+.||+.||...++|.+++-
T Consensus         5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~t   60 (617)
T KOG0050|consen    5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKT   60 (617)
T ss_pred             EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhh
Confidence            4578999999999999999999 68999999 777999999999999999999864

>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]

Probab=98.44  E-value=3.4e-07  Score=69.37  Aligned_cols=43  Identities=19%  Similarity=0.392  Sum_probs=41.1

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhh
Q psy15548          3 KTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEW   46 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~   46 (108)
                      +||.+|..+|+++|+.||. +|.+||.++++++..||..|+.++
T Consensus       281 ~WS~qE~~LLLEGIe~ygD-dW~kVA~HVgtKt~EqCIl~FL~L  323 (531)
T COG5259         281 NWSRQELLLLLEGIEMYGD-DWDKVARHVGTKTKEQCILHFLQL  323 (531)
T ss_pred             cccHHHHHHHHHHHHHhhh-hHHHHHHHhCCCCHHHHHHHHHcC
Confidence            7999999999999999997 999999999999999999999764

>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class

Probab=98.34  E-value=1.5e-06  Score=48.59  Aligned_cols=46  Identities=13%  Similarity=0.385  Sum_probs=39.7

Q ss_pred             ccCCCHHHHHHHHHHHhhCCc-ch---hcccc-cc-CC-CHHHHHHHHHHHHh
Q psy15548         53 KTEWSREEDEKLLHLAKLMPT-QW---RTIAP-II-GR-TAAQCLERYEFLLY   98 (108)
Q Consensus        53 ~~~Wt~eEd~~L~~~v~~~g~-~W---~~Ia~-~~-gR-t~~q~~~r~~~~~~   98 (108)
                      +-.||+||...+++++..+|. +|   ..|++ +. .+ |..||+++.+.+..
T Consensus         3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~   55 (57)
T TIGR01557         3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRL   55 (57)
T ss_pred             CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHc
Confidence            457999999999999999996 99   99998 43 35 99999999987653

This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.

>PF13325 MCRS_N: N-terminal region of micro-spherule protein

Probab=98.31  E-value=7.4e-06  Score=56.36  Aligned_cols=96  Identities=17%  Similarity=0.218  Sum_probs=72.9

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCHHHHHHHhC---CCCHHHHHHHhhhhcCC----------------C-----CcccCCCH
Q psy15548          3 KTMTIVDEILKAAVMKYGKNQWSRIASLLH---RKSAKQCKARWFEWLDP----------------S-----IKKTEWSR   58 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~---~R~~~qc~~rw~~~l~~----------------~-----~~~~~Wt~   58 (108)
                      +|++++|-.|+.+|..-.  +-..|+..++   .-|...+..||+..|-.                .     ..+.+||.
T Consensus         1 rW~~~DDl~Li~av~~~~--~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS~   78 (199)
T PF13325_consen    1 RWKPEDDLLLINAVEQTN--DLESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFSK   78 (199)
T ss_pred             CCCchhhHHHHHHHHHhc--CHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCCH
Confidence            699999999999998744  6888887666   67899999999887532                1     23568999


Q ss_pred             HHHHHHHHHHhhCCc---chhcccc-----c-cCCCHHHHHHHHHHHHhHH
Q psy15548         59 EEDEKLLHLAKLMPT---QWRTIAP-----I-IGRTAAQCLERYEFLLYRA  100 (108)
Q Consensus        59 eEd~~L~~~v~~~g~---~W~~Ia~-----~-~gRt~~q~~~r~~~~~~~~  100 (108)
                      +|++.|.........   .+.+|-.     | ++||+.++.++|..+.+..
T Consensus        79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~  129 (199)
T PF13325_consen   79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYH  129 (199)
T ss_pred             HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhc
Confidence            999999997655432   4555432     2 5799999999999765443

>KOG0457|consensus

Probab=98.28  E-value=1.2e-06  Score=65.78  Aligned_cols=47  Identities=30%  Similarity=0.504  Sum_probs=41.9

Q ss_pred             CcccCCCHHHHHHHHHHHhhCC-cchhcccc-ccCCCHHHHHHHHHHHH
Q psy15548         51 IKKTEWSREEDEKLLHLAKLMP-TQWRTIAP-IIGRTAAQCLERYEFLL   97 (108)
Q Consensus        51 ~~~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~~gRt~~q~~~r~~~~~   97 (108)
                      +-...||.+|+.+|++++..|| +||..||. +-.||..+|+.+|.+++
T Consensus        70 i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~f  118 (438)
T KOG0457|consen   70 ILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHF  118 (438)
T ss_pred             CCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHH
Confidence            3346899999999999999999 89999999 66699999999998765

>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family

Probab=98.28  E-value=6.9e-07  Score=59.24  Aligned_cols=55  Identities=22%  Similarity=0.392  Sum_probs=46.5

Q ss_pred             cccCCCHHHHHHHHHHHhhC---Cc----chhccccccCCCHHHHHHHHHHHHhHHHhhhhh
Q psy15548         52 KKTEWSREEDEKLLHLAKLM---PT----QWRTIAPIIGRTAAQCLERYEFLLYRARRKAVQ  106 (108)
Q Consensus        52 ~~~~Wt~eEd~~L~~~v~~~---g~----~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~~~~~  106 (108)
                      +...||.|||.+|.+.|-.|   |+    -+.++++-+|||+..|.-||+..+++....+++
T Consensus         3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~RTsAACGFRWNs~VRkqY~~~i~   64 (161)
T TIGR02894         3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALNRTAAACGFRWNAYVRKQYEEAIE   64 (161)
T ss_pred             cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHcccHHHhcchHHHHHHHHHHHHHH
Confidence            46789999999999998655   32    577788888999999999999999998877754

In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.

>KOG1279|consensus

Probab=98.16  E-value=3.2e-06  Score=65.28  Aligned_cols=43  Identities=23%  Similarity=0.466  Sum_probs=40.9

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhh
Q psy15548          3 KTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEW   46 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~   46 (108)
                      .||.+|.-+|+++|+.||. +|.+||.++++||..||..++.+.
T Consensus       255 ~WT~qE~lLLLE~ie~y~d-dW~kVa~hVg~ks~eqCI~kFL~L  297 (506)
T KOG1279|consen  255 NWTEQETLLLLEAIEMYGD-DWNKVADHVGTKSQEQCILKFLRL  297 (506)
T ss_pred             CccHHHHHHHHHHHHHhcc-cHHHHHhccCCCCHHHHHHHHHhc
Confidence            6999999999999999997 999999999999999999999763

>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A

Probab=97.93  E-value=7.6e-06  Score=49.03  Aligned_cols=49  Identities=31%  Similarity=0.628  Sum_probs=35.8

Q ss_pred             cCCCHHHHHHHHHHHhh------CC--------cchhcccc-cc--C--CCHHHHHHHHHHHHhHHHh
Q psy15548         54 TEWSREEDEKLLHLAKL------MP--------TQWRTIAP-II--G--RTAAQCLERYEFLLYRARR  102 (108)
Q Consensus        54 ~~Wt~eEd~~L~~~v~~------~g--------~~W~~Ia~-~~--g--Rt~~q~~~r~~~~~~~~~~  102 (108)
                      ..||.+|...|++++..      ++        .-|..||. +.  |  ||+.||+++|.++.+...+
T Consensus         2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~   69 (90)
T PF13837_consen    2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKK   69 (90)
T ss_dssp             -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHC
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Confidence            47999999999998865      11        15999999 62  4  9999999999998876543

>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif

Probab=97.92  E-value=1.5e-05  Score=45.59  Aligned_cols=49  Identities=14%  Similarity=0.189  Sum_probs=33.3

Q ss_pred             CCCcHHHHHHHHHHHHHhCC--------CCHHHHHHHhC-CCCHHHHHHHhhhhcCCC
Q psy15548          2 LKTMTIVDEILKAAVMKYGK--------NQWSRIASLLH-RKSAKQCKARWFEWLDPS   50 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~--------~~W~~Ia~~~~-~R~~~qc~~rw~~~l~~~   50 (108)
                      +|||.+||..|+..|..+..        .-|.+++..-+ ++|..+-++||...|.+.
T Consensus         3 ~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~   60 (65)
T PF08914_consen    3 TPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGR   60 (65)
T ss_dssp             ----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT---
T ss_pred             CCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcc
Confidence            58999999999999976521        25999999888 899999999999988754

The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.

>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]

Probab=97.90  E-value=1.5e-05  Score=58.23  Aligned_cols=46  Identities=15%  Similarity=0.289  Sum_probs=43.3

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcC
Q psy15548          3 KTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLD   48 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~   48 (108)
                      -|+.+|+-+|+++....|-|||..||.+++.|+...|++||..++.
T Consensus        65 ~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~  110 (432)
T COG5114          65 GWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD  110 (432)
T ss_pred             CcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence            4999999999999999999999999999999999999999987654

>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]

Probab=97.90  E-value=9.4e-06  Score=61.71  Aligned_cols=44  Identities=27%  Similarity=0.491  Sum_probs=40.6

Q ss_pred             ccCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHHH
Q psy15548         53 KTEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEFL   96 (108)
Q Consensus        53 ~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~   96 (108)
                      ...||.+|..+|++++..||.+|.+||+ +-+||..||--||-++
T Consensus       279 dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~L  323 (531)
T COG5259         279 DKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQL  323 (531)
T ss_pred             cccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcC
Confidence            3589999999999999999999999999 7789999999999754

>KOG1279|consensus

Probab=97.81  E-value=2.4e-05  Score=60.55  Aligned_cols=45  Identities=20%  Similarity=0.521  Sum_probs=41.2

Q ss_pred             cccCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHHH
Q psy15548         52 KKTEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEFL   96 (108)
Q Consensus        52 ~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~   96 (108)
                      ....||.+|..+|++++..||.+|.+||. +-+||..||-.+|..+
T Consensus       252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~L  297 (506)
T KOG1279|consen  252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRL  297 (506)
T ss_pred             CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhc
Confidence            34689999999999999999999999999 8889999999998754

>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A

Probab=97.81  E-value=4.1e-05  Score=45.80  Aligned_cols=45  Identities=18%  Similarity=0.357  Sum_probs=33.2

Q ss_pred             CCCcHHHHHHHHHHHHH--h----C--C-----CCHHHHHHHhC----CCCHHHHHHHhhhh
Q psy15548          2 LKTMTIVDEILKAAVMK--Y----G--K-----NQWSRIASLLH----RKSAKQCKARWFEW   46 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~--~----g--~-----~~W~~Ia~~~~----~R~~~qc~~rw~~~   46 (108)
                      .+||.+|...|+.++..  +    +  .     .-|..||..|.    .||+.||+.+|.++
T Consensus         2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L   63 (90)
T PF13837_consen    2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNL   63 (90)
T ss_dssp             -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            37999999999999888  2    1  1     15999999875    79999999999875

>PRK13923 putative spore coat protein regulator protein YlbO; Provisional

Probab=97.62  E-value=4.3e-05  Score=51.39  Aligned_cols=56  Identities=18%  Similarity=0.372  Sum_probs=43.6

Q ss_pred             CcccCCCHHHHHHHHHHHhhCCc-------chhccccccCCCHHHHHHHHHHHHhHHHhhhhh
Q psy15548         51 IKKTEWSREEDEKLLHLAKLMPT-------QWRTIAPIIGRTAAQCLERYEFLLYRARRKAVQ  106 (108)
Q Consensus        51 ~~~~~Wt~eEd~~L~~~v~~~g~-------~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~~~~~  106 (108)
                      .+...||.|+|.+|-+.|-.|+.       -...++..++||+.+|..||+.+++.....+++
T Consensus         3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~rt~aac~fRwNs~vrk~Yee~I~   65 (170)
T PRK13923          3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALKRTAAACGFRWNSVVRKQYQEQIK   65 (170)
T ss_pred             chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHhhhHHHHHhHHHHHHHHHHHHHHH
Confidence            35678999999999888866652       234444567899999999999999988776654

>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional

Probab=97.54  E-value=0.0012  Score=55.29  Aligned_cols=101  Identities=20%  Similarity=0.245  Sum_probs=79.8

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHH-------Hhhhh------c---------------------
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKA-------RWFEW------L---------------------   47 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~-------rw~~~------l---------------------   47 (108)
                      .-||.-+=..++.+..+||..+-..||..|.+++..+++.       ||..+      +                     
T Consensus       825 ~~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~~  904 (1033)
T PLN03142        825 STWSRRDFNAFIRACEKYGRNDIKSIASEMEGKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAIG  904 (1033)
T ss_pred             CcccHHHHHHHHHHHHHhCHhHHHHHHHHhcCCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4599999999999999999999999999999999988864       22111      0                     


Q ss_pred             ----------------CCCCcccCCCHHHHHHHHHHHhhCC-cchhcccc-c------------cCCCHHHHHHHHHHHH
Q psy15548         48 ----------------DPSIKKTEWSREEDEKLLHLAKLMP-TQWRTIAP-I------------IGRTAAQCLERYEFLL   97 (108)
Q Consensus        48 ----------------~~~~~~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~------------~gRt~~q~~~r~~~~~   97 (108)
                                      -+..++..+|.+||.-|+-++.+|| .+|..|-. +            ..||+..+..|...++
T Consensus       905 ~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~  984 (1033)
T PLN03142        905 KKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLI  984 (1033)
T ss_pred             HHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHH
Confidence                            0223345699999999999999999 68988732 1            2699999999999998


Q ss_pred             hHHHh
Q psy15548         98 YRARR  102 (108)
Q Consensus        98 ~~~~~  102 (108)
                      +-..+
T Consensus       985 ~~~~~  989 (1033)
T PLN03142        985 RLIEK  989 (1033)
T ss_pred             HHHHH
Confidence            76644

>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family

Probab=97.49  E-value=0.00013  Score=48.57  Aligned_cols=67  Identities=16%  Similarity=0.290  Sum_probs=49.1

Q ss_pred             CCcHHHHHHHHHHHHHhCC------CCHHHHHHHhCCCCHHHHHHHhhhhcCCC--------------Cc--ccCCCHHH
Q psy15548          3 KTMTIVDEILKAAVMKYGK------NQWSRIASLLHRKSAKQCKARWFEWLDPS--------------IK--KTEWSREE   60 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~------~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~--------------~~--~~~Wt~eE   60 (108)
                      .||.|||.+|.+.|..|-.      ....+|+..+ +||+..|..||..++...              .+  .+.-|-++
T Consensus         6 AWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~~~i~~AKkqRk~~~~~~~~ltl~~   84 (161)
T TIGR02894         6 AWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYEEAIELAKKQRKELKREAGSLTLQD   84 (161)
T ss_pred             ccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHHHHHHHHHHHHhccccCcccCCHHH
Confidence            5999999999999999832      1588888888 699999999998776421              11  24566666


Q ss_pred             HHHHHHHHhh
Q psy15548         61 DEKLLHLAKL   70 (108)
Q Consensus        61 d~~L~~~v~~   70 (108)
                      ...+++.++.
T Consensus        85 vI~fLq~l~~   94 (161)
T TIGR02894        85 VISFLQNLKT   94 (161)
T ss_pred             HHHHHHHHHh
Confidence            6666655543

In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.

>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif

Probab=97.48  E-value=0.00015  Score=41.54  Aligned_cols=50  Identities=24%  Similarity=0.313  Sum_probs=31.1

Q ss_pred             ccCCCHHHHHHHHHHHhhCC--------c-chhcccc-cc-CCCHHHHHHHHHHHHhHHHh
Q psy15548         53 KTEWSREEDEKLLHLAKLMP--------T-QWRTIAP-II-GRTAAQCLERYEFLLYRARR  102 (108)
Q Consensus        53 ~~~Wt~eEd~~L~~~v~~~g--------~-~W~~Ia~-~~-gRt~~q~~~r~~~~~~~~~~  102 (108)
                      +.+||.+||..|+..|..+.        + =|.+++. .+ ++|-.+.++||...+.+...
T Consensus         2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~~   62 (65)
T PF08914_consen    2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRPR   62 (65)
T ss_dssp             -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT-----
T ss_pred             CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcccc
Confidence            45899999999999996542        1 3899988 66 89999999999888876544

The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.

>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain

Probab=97.41  E-value=0.00037  Score=40.77  Aligned_cols=51  Identities=29%  Similarity=0.442  Sum_probs=41.9

Q ss_pred             ccCCCHHHHHHHHHHHhhCCc-----------------chhcccc-c----c-CCCHHHHHHHHHHHHhHHHhh
Q psy15548         53 KTEWSREEDEKLLHLAKLMPT-----------------QWRTIAP-I----I-GRTAAQCLERYEFLLYRARRK  103 (108)
Q Consensus        53 ~~~Wt~eEd~~L~~~v~~~g~-----------------~W~~Ia~-~----~-gRt~~q~~~r~~~~~~~~~~~  103 (108)
                      ...||++|...|+++|..|..                 -|..|+. +    + .||..+++.+|.++.....++
T Consensus         2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~Kk~   75 (78)
T PF13873_consen    2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKAKKK   75 (78)
T ss_pred             CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHH
Confidence            457999999999999987631                 5999998 5    2 399999999999998776654

>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain

Probab=97.23  E-value=0.00068  Score=39.63  Aligned_cols=46  Identities=30%  Similarity=0.353  Sum_probs=38.7

Q ss_pred             CCCcHHHHHHHHHHHHHhCC----------------CCHHHHHHHhC-----CCCHHHHHHHhhhhc
Q psy15548          2 LKTMTIVDEILKAAVMKYGK----------------NQWSRIASLLH-----RKSAKQCKARWFEWL   47 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~----------------~~W~~Ia~~~~-----~R~~~qc~~rw~~~l   47 (108)
                      ..||++|...|+++|.+|..                .-|..|+..|.     .|+..+++..|.++.
T Consensus         3 ~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk   69 (78)
T PF13873_consen    3 PNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLK   69 (78)
T ss_pred             CCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence            46999999999999999832                25999998773     699999999998854

>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]

Probab=97.08  E-value=0.00052  Score=50.41  Aligned_cols=45  Identities=20%  Similarity=0.355  Sum_probs=40.6

Q ss_pred             cCCCHHHHHHHHHHHhhCC-cchhcccc-ccCCCHHHHHHHHHHHHh
Q psy15548         54 TEWSREEDEKLLHLAKLMP-TQWRTIAP-IIGRTAAQCLERYEFLLY   98 (108)
Q Consensus        54 ~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~~gRt~~q~~~r~~~~~~   98 (108)
                      ..|+.+|+.+|+++....| +||..||. +-.|+...|+++|..+..
T Consensus        64 e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~  110 (432)
T COG5114          64 EGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD  110 (432)
T ss_pred             CCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence            4699999999999999999 89999999 555999999999987765

>PRK13923 putative spore coat protein regulator protein YlbO; Provisional

Probab=96.66  E-value=0.0024  Score=43.06  Aligned_cols=45  Identities=18%  Similarity=0.369  Sum_probs=35.9

Q ss_pred             CCcHHHHHHHHHHHHHhCCC------CHHHHHHHhCCCCHHHHHHHhhhhcC
Q psy15548          3 KTMTIVDEILKAAVMKYGKN------QWSRIASLLHRKSAKQCKARWFEWLD   48 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~~------~W~~Ia~~~~~R~~~qc~~rw~~~l~   48 (108)
                      .||.|||.+|.+.|..|+..      -...++..+ +|++.+|..||..++.
T Consensus         7 awt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vr   57 (170)
T PRK13923          7 AWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVR   57 (170)
T ss_pred             hhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHH
Confidence            69999999999999998653      355555666 6999999999965544

>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]

Probab=96.49  E-value=0.0063  Score=45.78  Aligned_cols=43  Identities=28%  Similarity=0.349  Sum_probs=40.9

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhh
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFE   45 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~   45 (108)
                      .|||.+|-+++..+....|. +.+.||..+|+|+..|+...|.+
T Consensus       366 ~~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP~R~RkqIKaKfi~  408 (507)
T COG5118         366 LRWSKKEIEKFYKALSIWGT-DFSLISSLFPNRERKQIKAKFIK  408 (507)
T ss_pred             CcccHHHHHHHHHHHHHhcc-hHHHHHHhcCchhHHHHHHHHHH
Confidence            48999999999999999998 99999999999999999999965

>KOG4282|consensus

Probab=96.07  E-value=0.011  Score=43.85  Aligned_cols=50  Identities=28%  Similarity=0.557  Sum_probs=41.1

Q ss_pred             cCCCHHHHHHHHHHHhhC----------Ccchhcccc-cc--C--CCHHHHHHHHHHHHhHHHhh
Q psy15548         54 TEWSREEDEKLLHLAKLM----------PTQWRTIAP-II--G--RTAAQCLERYEFLLYRARRK  103 (108)
Q Consensus        54 ~~Wt~eEd~~L~~~v~~~----------g~~W~~Ia~-~~--g--Rt~~q~~~r~~~~~~~~~~~  103 (108)
                      ..|+.+|-..|+++....          +.-|..||+ +.  |  ||+.||+.+|.++.+...+.
T Consensus        55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~~  119 (345)
T KOG4282|consen   55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKKE  119 (345)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Confidence            689999999999986422          346999998 53  4  99999999999999887653

>KOG2656|consensus

Probab=96.03  E-value=0.019  Score=43.33  Aligned_cols=51  Identities=27%  Similarity=0.387  Sum_probs=45.2

Q ss_pred             cCCCHHHHHHHHHHHhhCCcchhcccc-c-----c-CCCHHHHHHHHHHHHhHHHhhh
Q psy15548         54 TEWSREEDEKLLHLAKLMPTQWRTIAP-I-----I-GRTAAQCLERYEFLLYRARRKA  104 (108)
Q Consensus        54 ~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~-----~-gRt~~q~~~r~~~~~~~~~~~~  104 (108)
                      ..||.+|-.-|.++.+.|.-.|..|+. .     . .||-..+++||+.+.+...+..
T Consensus       131 n~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr  188 (445)
T KOG2656|consen  131 NSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKAR  188 (445)
T ss_pred             ccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHHHHHHHHHHHHHHHcc
Confidence            579999999999999999999999997 5     2 3999999999999998877643

>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]

Probab=95.91  E-value=0.01  Score=44.73  Aligned_cols=44  Identities=20%  Similarity=0.271  Sum_probs=40.7

Q ss_pred             cCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHHHH
Q psy15548         54 TEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEFLL   97 (108)
Q Consensus        54 ~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~~   97 (108)
                      .+||..|-+++..++...|.+++.||. ||.|+..|++.+|.+--
T Consensus       366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Ee  410 (507)
T COG5118         366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEE  410 (507)
T ss_pred             CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHh
Confidence            479999999999999999999999999 99999999999997543

>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices

Probab=95.76  E-value=0.016  Score=36.96  Aligned_cols=52  Identities=29%  Similarity=0.330  Sum_probs=40.2

Q ss_pred             CCcccCCCHHHHHHHHHHHhhCCc----chhcccc-c------------cCCCHHHHHHHHHHHHhHHH
Q psy15548         50 SIKKTEWSREEDEKLLHLAKLMPT----QWRTIAP-I------------IGRTAAQCLERYEFLLYRAR  101 (108)
Q Consensus        50 ~~~~~~Wt~eEd~~L~~~v~~~g~----~W~~Ia~-~------------~gRt~~q~~~r~~~~~~~~~  101 (108)
                      +.++..+|.+||.-|+-++.+||-    .|..|-. +            ..||+..+..|...+++-..
T Consensus        46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i~  114 (118)
T PF09111_consen   46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLIE  114 (118)
T ss_dssp             TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHHH
T ss_pred             CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHHH
Confidence            566789999999999999999985    7877754 2            25999999999999887544

It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.

>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices

Probab=95.51  E-value=0.038  Score=35.19  Aligned_cols=44  Identities=18%  Similarity=0.339  Sum_probs=35.5

Q ss_pred             CCcHHHHHHHHHHHHHhCC---CCHHHHHHHh------------CCCCHHHHHHHhhhh
Q psy15548          3 KTMTIVDEILKAAVMKYGK---NQWSRIASLL------------HRKSAKQCKARWFEW   46 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~---~~W~~Ia~~~------------~~R~~~qc~~rw~~~   46 (108)
                      .+|.+||.-|+-.+.+||.   +.|..|-..+            ..||+..+..|-...
T Consensus        51 ~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tL  109 (118)
T PF09111_consen   51 VYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTL  109 (118)
T ss_dssp             SS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHH
T ss_pred             CcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHH
Confidence            5899999999999999999   8999998643            279999998887653

It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.

>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains

Probab=94.94  E-value=0.046  Score=32.75  Aligned_cols=46  Identities=26%  Similarity=0.336  Sum_probs=34.6

Q ss_pred             CCCHHHHHHHHHHHhhC---C-----c-----chhcccc-c---cC--CCHHHHHHHHHHHHhHH
Q psy15548         55 EWSREEDEKLLHLAKLM---P-----T-----QWRTIAP-I---IG--RTAAQCLERYEFLLYRA  100 (108)
Q Consensus        55 ~Wt~eEd~~L~~~v~~~---g-----~-----~W~~Ia~-~---~g--Rt~~q~~~r~~~~~~~~  100 (108)
                      .||++++..|++++.+.   |     +     .|..|+. |   +|  .|..||++||..+.+..
T Consensus         1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~y   65 (96)
T PF12776_consen    1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKDY   65 (96)
T ss_pred             CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHHH
Confidence            49999999999987321   2     1     4888887 5   34  68899999998776654

>KOG4167|consensus

Probab=94.85  E-value=0.066  Score=43.47  Aligned_cols=43  Identities=16%  Similarity=0.384  Sum_probs=39.1

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhh
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFE   45 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~   45 (108)
                      .+||+.|-.++.+++..|.. +...|+..++++|..||-+-|+.
T Consensus       620 d~WTp~E~~lF~kA~y~~~K-DF~~v~km~~~KtVaqCVeyYYt  662 (907)
T KOG4167|consen  620 DKWTPLERKLFNKALYTYSK-DFIFVQKMVKSKTVAQCVEYYYT  662 (907)
T ss_pred             ccccHHHHHHHHHHHHHhcc-cHHHHHHHhccccHHHHHHHHHH
Confidence            48999999999999999997 99999999999999999776543

>KOG4282|consensus

Probab=94.83  E-value=0.074  Score=39.37  Aligned_cols=46  Identities=20%  Similarity=0.188  Sum_probs=37.1

Q ss_pred             CCCcHHHHHHHHHHHHHh----CC-----CCHHHHHHHhC----CCCHHHHHHHhhhhc
Q psy15548          2 LKTMTIVDEILKAAVMKY----GK-----NQWSRIASLLH----RKSAKQCKARWFEWL   47 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~----g~-----~~W~~Ia~~~~----~R~~~qc~~rw~~~l   47 (108)
                      ..|+.+|-..|+.+....    ..     ..|..||..+.    .|++.||+.+|.++.
T Consensus        55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~  113 (345)
T KOG4282|consen   55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLK  113 (345)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence            479999999999988753    11     26999998654    699999999998764

>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains

Probab=94.70  E-value=0.11  Score=31.05  Aligned_cols=44  Identities=20%  Similarity=0.378  Sum_probs=34.2

Q ss_pred             CCcHHHHHHHHHHHHHh---C----C-----CCHHHHHHHhC-----CCCHHHHHHHhhhh
Q psy15548          3 KTMTIVDEILKAAVMKY---G----K-----NQWSRIASLLH-----RKSAKQCKARWFEW   46 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~---g----~-----~~W~~Ia~~~~-----~R~~~qc~~rw~~~   46 (108)
                      .||+++++.|++++...   |    .     ..|..|+..|.     ..+..||+.||...
T Consensus         1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~l   61 (96)
T PF12776_consen    1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTL   61 (96)
T ss_pred             CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHH
Confidence            59999999999988654   1    1     15999998775     45789999998764

>KOG1194|consensus

Probab=94.25  E-value=0.29  Score=37.88  Aligned_cols=50  Identities=14%  Similarity=0.174  Sum_probs=43.4

Q ss_pred             cccCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHHHHhHHH
Q psy15548         52 KKTEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEFLLYRAR  101 (108)
Q Consensus        52 ~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~  101 (108)
                      -...||.||-.++-.+...||.++.+|-+ +|.||-.++..-|....+...
T Consensus       186 ~~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK~~~  236 (534)
T KOG1194|consen  186 FPDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKKTRE  236 (534)
T ss_pred             CcccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHHHhh
Confidence            35689999999999999999999999999 999999999988776655543

>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription

Probab=93.72  E-value=0.17  Score=27.09  Aligned_cols=41  Identities=17%  Similarity=0.216  Sum_probs=29.5

Q ss_pred             HHHHHHHHHHHhhCCcchhccccccCCCHHHHHHHHHHHHh
Q psy15548         58 REEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLY   98 (108)
Q Consensus        58 ~eEd~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~r~~~~~~   98 (108)
                      ++++..++.+.-..|-++.+||...|.|...++.+....++
T Consensus        12 ~~~~r~i~~l~~~~g~s~~eIa~~l~~s~~~v~~~l~ra~~   52 (54)
T PF08281_consen   12 PERQREIFLLRYFQGMSYAEIAEILGISESTVKRRLRRARK   52 (54)
T ss_dssp             -HHHHHHHHHHHTS---HHHHHHHCTS-HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCcCHHHHHHHHCcCHHHHHHHHHHHHh
Confidence            35566677777788899999999999999999998876654

Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.

>KOG1194|consensus

Probab=93.53  E-value=0.2  Score=38.70  Aligned_cols=42  Identities=14%  Similarity=0.207  Sum_probs=38.2

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhh
Q psy15548          3 KTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFE   45 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~   45 (108)
                      -||.||--++.++...||. +..+|-..||.|+-.++..-|+.
T Consensus       189 ~WT~Ed~vlFe~aF~~~GK-~F~kIrq~LP~rsLaSlvqyYy~  230 (534)
T KOG1194|consen  189 EWTAEDIVLFEQAFQFFGK-DFHKIRQALPHRSLASLVQYYYS  230 (534)
T ss_pred             cchHHHHHHHHHHHHHhcc-cHHHHHHHccCccHHHHHHHHHH
Confidence            4999999999999999997 99999999999999988876654

>smart00595 MADF subfamily of SANT domain

Probab=92.78  E-value=0.18  Score=29.77  Aligned_cols=23  Identities=39%  Similarity=0.784  Sum_probs=20.5

Q ss_pred             CHHHHHHHhCCCCHHHHHHHhhhh
Q psy15548         23 QWSRIASLLHRKSAKQCKARWFEW   46 (108)
Q Consensus        23 ~W~~Ia~~~~~R~~~qc~~rw~~~   46 (108)
                      .|..||..|+. +..+|+.+|.+.
T Consensus        29 aW~~Ia~~l~~-~~~~~~~kw~~L   51 (89)
T smart00595       29 AWEEIAEELGL-SVEECKKRWKNL   51 (89)
T ss_pred             HHHHHHHHHCc-CHHHHHHHHHHH
Confidence            69999999975 999999999874

>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B

Probab=92.71  E-value=0.63  Score=24.02  Aligned_cols=38  Identities=16%  Similarity=0.205  Sum_probs=30.4

Q ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhh
Q psy15548          7 IVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFE   45 (108)
Q Consensus         7 eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~   45 (108)
                      +=|..|+.+....|.-.+.+||..++ =|+..|..|...
T Consensus         3 ~~D~~Il~~Lq~d~r~s~~~la~~lg-lS~~~v~~Ri~r   40 (42)
T PF13404_consen    3 ELDRKILRLLQEDGRRSYAELAEELG-LSESTVRRRIRR   40 (42)
T ss_dssp             HHHHHHHHHHHH-TTS-HHHHHHHHT-S-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCccHHHHHHHHC-cCHHHHHHHHHH
Confidence            45888999999999889999999995 799999999865

...

>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B

Probab=92.69  E-value=0.22  Score=25.81  Aligned_cols=38  Identities=24%  Similarity=0.282  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHhhCC-cchhccccccCCCHHHHHHHHHHH
Q psy15548         59 EEDEKLLHLAKLMP-TQWRTIAPIIGRTAAQCLERYEFL   96 (108)
Q Consensus        59 eEd~~L~~~v~~~g-~~W~~Ia~~~gRt~~q~~~r~~~~   96 (108)
                      +=|..|+.++...| ..+.+||+..|=|+..|..|...+
T Consensus         3 ~~D~~Il~~Lq~d~r~s~~~la~~lglS~~~v~~Ri~rL   41 (42)
T PF13404_consen    3 ELDRKILRLLQEDGRRSYAELAEELGLSESTVRRRIRRL   41 (42)
T ss_dssp             HHHHHHHHHHHH-TTS-HHHHHHHHTS-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCccHHHHHHHHCcCHHHHHHHHHHh
Confidence            45778888888877 589999999999999999998764

...

>KOG4468|consensus

Probab=91.46  E-value=0.36  Score=38.64  Aligned_cols=50  Identities=20%  Similarity=0.410  Sum_probs=40.9

Q ss_pred             ccCCCHHHHHHHHHHHhhCCcchhcccc-----------ccCCCHHHHHHHHHHHHhHHHh
Q psy15548         53 KTEWSREEDEKLLHLAKLMPTQWRTIAP-----------IIGRTAAQCLERYEFLLYRARR  102 (108)
Q Consensus        53 ~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-----------~~gRt~~q~~~r~~~~~~~~~~  102 (108)
                      +..||-.|.+-+..+++++|+++..|-.           ..-+|..|++.+|+..+.+..+
T Consensus        88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k  148 (782)
T KOG4468|consen   88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNK  148 (782)
T ss_pred             ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHh
Confidence            4589999999999999999999999832           2236888999999988776543

>PF09197 Rap1-DNA-bind: Rap1, DNA-binding; InterPro: IPR015280 Members of this entry, which are predominantly found in the yeast protein Rap1, assume a secondary structure consisting of a three-helix bundle and an N-terminal arm

Probab=91.40  E-value=0.75  Score=28.71  Aligned_cols=46  Identities=20%  Similarity=0.245  Sum_probs=33.6

Q ss_pred             CCcHHHHHHHHHHHHHh------------C------------------CCCHHHHHHHhCCCCHHHHHHHhhhhcC
Q psy15548          3 KTMTIVDEILKAAVMKY------------G------------------KNQWSRIASLLHRKSAKQCKARWFEWLD   48 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~------------g------------------~~~W~~Ia~~~~~R~~~qc~~rw~~~l~   48 (108)
                      ++|++||..|-..|.+|            |                  ..-....+...|.+|..+=++||+..+.
T Consensus         1 kfTA~dDY~Lc~~i~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~fF~~~~~~~p~HT~~sWRDR~RKfv~   76 (105)
T PF09197_consen    1 KFTADDDYALCKAIKKQFYRDIYQKDPDTGSSLISDGDSKEFIPKRDMRSFFKDLARKNPRHTENSWRDRYRKFVS   76 (105)
T ss_dssp             ---HHHHHHHHHHHHHHHHHHHHSB-TTSS-B----------------TTHHHHHHHHTTTS-HHHHHHHHHHTHH
T ss_pred             CCChHHHHHHHHHHHHHHHHHHHhhCcccccccccCCCccccccchhhHHHHHHHHHcCCccchhHHHHHHHHHHH
Confidence            68999999999999876            1                  1235677788889999999999988765

They contain an Arg-Asp-Arg-Lys sequence that interacts with an ACAregion in the 3, region of the DNA-binding site []. ; PDB: 1IGN_A 3UKG_A.

>smart00595 MADF subfamily of SANT domain

Probab=90.82  E-value=0.36  Score=28.47  Aligned_cols=28  Identities=32%  Similarity=0.616  Sum_probs=22.9

Q ss_pred             chhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548         74 QWRTIAPIIGRTAAQCLERYEFLLYRAR  101 (108)
Q Consensus        74 ~W~~Ia~~~gRt~~q~~~r~~~~~~~~~  101 (108)
                      -|..||.-+|-|..+|+.+|.++-....
T Consensus        29 aW~~Ia~~l~~~~~~~~~kw~~LR~~y~   56 (89)
T smart00595       29 AWEEIAEELGLSVEECKKRWKNLRDRYR   56 (89)
T ss_pred             HHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence            5999999666699999999998865543

>KOG4167|consensus

Probab=90.77  E-value=0.39  Score=39.25  Aligned_cols=43  Identities=19%  Similarity=0.325  Sum_probs=38.7

Q ss_pred             ccCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHH
Q psy15548         53 KTEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEF   95 (108)
Q Consensus        53 ~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~   95 (108)
                      ...||+.|-.++.+++-.|.+++..|++ ++++|-.||-.-|+.
T Consensus       619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYt  662 (907)
T KOG4167|consen  619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYT  662 (907)
T ss_pred             cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHH
Confidence            4579999999999999999999999999 899999999876654

>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like

Probab=90.68  E-value=1.1  Score=33.24  Aligned_cols=55  Identities=27%  Similarity=0.355  Sum_probs=43.6

Q ss_pred             ccCCCHHHHHHHHHHHhhC-Cc---chhcccc-ccCCCHHHHHHHHHHHHhHHHhhhhhc
Q psy15548         53 KTEWSREEDEKLLHLAKLM-PT---QWRTIAP-IIGRTAAQCLERYEFLLYRARRKAVQL  107 (108)
Q Consensus        53 ~~~Wt~eEd~~L~~~v~~~-g~---~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~~~~~~~  107 (108)
                      ...||.-|...|+.+++.. |.   +-.+|++ ++||+..++++--+.+..+..+..+|.
T Consensus        21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK~rvareaiqk   80 (344)
T PF11035_consen   21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLKGRVAREAIQK   80 (344)
T ss_pred             cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHHHHHHHHHHHH
Confidence            4589999999999988643 43   4567888 899999999998888877777766653

SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].

>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional

Probab=90.10  E-value=0.36  Score=31.66  Aligned_cols=42  Identities=17%  Similarity=0.121  Sum_probs=36.9

Q ss_pred             HHHHHHHHHHhhCC-cchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548         59 EEDEKLLHLAKLMP-TQWRTIAPIIGRTAAQCLERYEFLLYRA  100 (108)
Q Consensus        59 eEd~~L~~~v~~~g-~~W~~Ia~~~gRt~~q~~~r~~~~~~~~  100 (108)
                      +-|..|+.+++..| ..|++||+..|-|+..|+.|+..+....
T Consensus         9 ~~D~~Il~~Lq~d~R~s~~eiA~~lglS~~tV~~Ri~rL~~~G   51 (153)
T PRK11179          9 NLDRGILEALMENARTPYAELAKQFGVSPGTIHVRVEKMKQAG   51 (153)
T ss_pred             HHHHHHHHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCC
Confidence            56888999998887 5999999999999999999999887654

>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription

Probab=89.98  E-value=1.2  Score=23.37  Aligned_cols=41  Identities=12%  Similarity=0.135  Sum_probs=30.2

Q ss_pred             HHHHHHHHHhhCCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548         60 EDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRA  100 (108)
Q Consensus        60 Ed~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~  100 (108)
                      ++..++.+.=-.|.++.+||..+|-|...++.+....+++.
T Consensus         8 ~er~vi~~~y~~~~t~~eIa~~lg~s~~~V~~~~~~al~kL   48 (50)
T PF04545_consen    8 REREVIRLRYFEGLTLEEIAERLGISRSTVRRILKRALKKL   48 (50)
T ss_dssp             HHHHHHHHHHTST-SHHHHHHHHTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCHHHHHHHHCCcHHHHHHHHHHHHHHh
Confidence            34444444445667999999999999999999888877664

Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....

>PRK11169 leucine-responsive transcriptional regulator; Provisional

Probab=89.52  E-value=0.45  Score=31.55  Aligned_cols=44  Identities=18%  Similarity=0.189  Sum_probs=37.8

Q ss_pred             HHHHHHHHHHHhhCC-cchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548         58 REEDEKLLHLAKLMP-TQWRTIAPIIGRTAAQCLERYEFLLYRAR  101 (108)
Q Consensus        58 ~eEd~~L~~~v~~~g-~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~  101 (108)
                      .+-|.+|+.+++..| -.|++||+..|=|+..|..|+..+.+..+
T Consensus        13 D~~D~~IL~~Lq~d~R~s~~eiA~~lglS~~tv~~Ri~rL~~~Gv   57 (164)
T PRK11169         13 DRIDRNILNELQKDGRISNVELSKRVGLSPTPCLERVRRLERQGF   57 (164)
T ss_pred             HHHHHHHHHHhccCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCC
Confidence            456888999888887 59999999999999999999999877653

>KOG2656|consensus

Probab=89.51  E-value=0.19  Score=38.15  Aligned_cols=44  Identities=11%  Similarity=0.174  Sum_probs=38.5

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCHHHHHHH-----hCC-CCHHHHHHHhhhhc
Q psy15548          3 KTMTIVDEILKAAVMKYGKNQWSRIASL-----LHR-KSAKQCKARWFEWL   47 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~-----~~~-R~~~qc~~rw~~~l   47 (108)
                      -||++|-+.|.+++..|.- .|-.||..     ++. ||....++||+.+.
T Consensus       132 ~WskeETD~LF~lck~fDL-Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~  181 (445)
T KOG2656|consen  132 SWSKEETDYLFDLCKRFDL-RFFVIADRYDNQQYKKSRTVEDLKERYYSVC  181 (445)
T ss_pred             cccHHHHHHHHHHHHhcCe-eEEEEeeccchhhccccccHHHHHHHHHHHH
Confidence            3999999999999999997 88889876     564 99999999998753

>PF13325 MCRS_N: N-terminal region of micro-spherule protein

Probab=89.51  E-value=0.95  Score=31.40  Aligned_cols=45  Identities=9%  Similarity=0.137  Sum_probs=34.2

Q ss_pred             CCCcHHHHHHHHHHHHHhCC--CCHHHHHH-----HhCCCCHHHHHHHhhhh
Q psy15548          2 LKTMTIVDEILKAAVMKYGK--NQWSRIAS-----LLHRKSAKQCKARWFEW   46 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~--~~W~~Ia~-----~~~~R~~~qc~~rw~~~   46 (108)
                      ++||.+|++.|.........  ..+.+|-.     +-+.||+.+...+|+..
T Consensus        74 alfS~~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lm  125 (199)
T PF13325_consen   74 ALFSKEEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLM  125 (199)
T ss_pred             CCCCHHHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHH
Confidence            68999999999997766533  25666653     23379999999999874

>KOG4329|consensus

Probab=88.91  E-value=1  Score=34.05  Aligned_cols=44  Identities=11%  Similarity=0.132  Sum_probs=38.5

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCCCHHHHHH-HhCCCCHHHHHHHhhh
Q psy15548          1 MLKTMTIVDEILKAAVMKYGKNQWSRIAS-LLHRKSAKQCKARWFE   45 (108)
Q Consensus         1 ~~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~-~~~~R~~~qc~~rw~~   45 (108)
                      |.-||.+|-..+.+.++.||. +...|-. .+++|+...|-.-|+.
T Consensus       277 l~~wsEeEcr~FEegl~~yGK-DF~lIr~nkvrtRsvgElVeyYYl  321 (445)
T KOG4329|consen  277 LSGWSEEECRNFEEGLELYGK-DFHLIRANKVRTRSVGELVEYYYL  321 (445)
T ss_pred             cccCCHHHHHHHHHHHHHhcc-cHHHHHhcccccchHHHHHHHHHH
Confidence            356999999999999999997 9999965 7889999999887654

>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional

Probab=88.82  E-value=1.6  Score=28.61  Aligned_cols=43  Identities=14%  Similarity=0.154  Sum_probs=37.2

Q ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCC
Q psy15548          7 IVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPS   50 (108)
Q Consensus         7 eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~   50 (108)
                      +-|..|+.+....|.-.|++||+.+ |-++..|+.|+......+
T Consensus         9 ~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~G   51 (153)
T PRK11179          9 NLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAG   51 (153)
T ss_pred             HHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCC
Confidence            5688999999999988999999999 579999999998865443

>PF01388 ARID: ARID/BRIGHT DNA binding domain; InterPro: IPR001606 Members of the recently discovered ARID (AT-rich interaction domain; also known as BRIGHT domain)) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans

Probab=87.81  E-value=2.1  Score=25.40  Aligned_cols=38  Identities=32%  Similarity=0.442  Sum_probs=27.1

Q ss_pred             HHHHHHHHhCC-------CCHHHHHHHhCCC---C--HHHHHHHhhhhcC
Q psy15548         11 ILKAAVMKYGK-------NQWSRIASLLHRK---S--AKQCKARWFEWLD   48 (108)
Q Consensus        11 ~L~~~v~~~g~-------~~W~~Ia~~~~~R---~--~~qc~~rw~~~l~   48 (108)
                      .|..+|...|.       +.|..||..++--   +  ..+++..|..+|.
T Consensus        40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~   89 (92)
T PF01388_consen   40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLL   89 (92)
T ss_dssp             HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTH
T ss_pred             HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhH
Confidence            57778888775       3799999998621   1  3677888877764

ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure []. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. The ARID consensus and other structural features are common to both p270 and yeast SWI1, suggesting that p270 is a human counterpart of SWI1 []. The approximately 100-residue ARID sequence is present in a series of proteins strongly implicated in the regulation of cell growth, development, and tissue-specific gene expression. Although about a dozen ARID proteins can be identified from database searches, to date, only Bright (a regulator of B-cell-specific gene expression), dead ringer (a Drosophila melanogaster gene product required for normal development), and MRF-2 (which represses expression from the Cytomegalovirus enhancer) have been analyzed directly in regard to their DNA binding properties. Each binds preferentially to AT-rich sites. In contrast, p270 shows no sequence preference in its DNA binding activity, thereby demonstrating that AT-rich binding is not an intrinsic property of ARID domains and that ARID family proteins may be involved in a wider range of DNA interactions [].; GO: 0003677 DNA binding, 0005622 intracellular; PDB: 1C20_A 1KQQ_A 2JRZ_A 2LM1_A 2YQE_A 2JXJ_A 2EH9_A 2CXY_A 2LI6_A 1KN5_A ....

>PRK11169 leucine-responsive transcriptional regulator; Provisional

Probab=87.14  E-value=1.8  Score=28.67  Aligned_cols=44  Identities=14%  Similarity=0.117  Sum_probs=37.6

Q ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCC
Q psy15548          6 TIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPS   50 (108)
Q Consensus         6 ~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~   50 (108)
                      .+-|.+|+.+....|.-.|++||+.+ |-++..|+.|+.+....+
T Consensus        13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~G   56 (164)
T PRK11169         13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQG   56 (164)
T ss_pred             HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCC
Confidence            35688999999999988999999999 479999999998875544

>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []

Probab=86.95  E-value=0.56  Score=28.02  Aligned_cols=18  Identities=33%  Similarity=0.540  Sum_probs=10.4

Q ss_pred             CCCcccCCCHHHHHHHHH
Q psy15548         49 PSIKKTEWSREEDEKLLH   66 (108)
Q Consensus        49 ~~~~~~~Wt~eEd~~L~~   66 (108)
                      |....|-||+++|..|..
T Consensus        43 P~n~~GiWT~eDD~~L~~   60 (87)
T PF11626_consen   43 PDNMPGIWTPEDDEMLRS   60 (87)
T ss_dssp             -TT-TT---HHHHHHHTS
T ss_pred             CCCCCCCcCHHHHHHHHc
Confidence            455678999999999853

The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.

>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain

Probab=86.61  E-value=1.1  Score=26.87  Aligned_cols=39  Identities=26%  Similarity=0.364  Sum_probs=27.7

Q ss_pred             HHHHHHHHhCC-------CCHHHHHHHhCCC-----CHHHHHHHhhhhcCC
Q psy15548         11 ILKAAVMKYGK-------NQWSRIASLLHRK-----SAKQCKARWFEWLDP   49 (108)
Q Consensus        11 ~L~~~v~~~g~-------~~W~~Ia~~~~~R-----~~~qc~~rw~~~l~~   49 (108)
                      .|..+|.+.|.       ..|..||..++-.     ...+.+..|.++|.|
T Consensus        36 ~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~   86 (93)
T smart00501       36 RLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLP   86 (93)
T ss_pred             HHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHH
Confidence            57778888765       4799999998732     246667777776653

DNA-binding domain containing a helix-turn-helix structure

>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription

Probab=86.39  E-value=2.9  Score=22.10  Aligned_cols=39  Identities=18%  Similarity=0.068  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhh
Q psy15548          6 TIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEW   46 (108)
Q Consensus         6 ~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~   46 (108)
                      ++++..++.+..-.|. .+.+||..+ |.+...++.+..+.
T Consensus        12 ~~~~r~i~~l~~~~g~-s~~eIa~~l-~~s~~~v~~~l~ra   50 (54)
T PF08281_consen   12 PERQREIFLLRYFQGM-SYAEIAEIL-GISESTVKRRLRRA   50 (54)
T ss_dssp             -HHHHHHHHHHHTS----HHHHHHHC-TS-HHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCc-CHHHHHHHH-CcCHHHHHHHHHHH
Confidence            4566666667666675 999999999 58999998887653

Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.

>PF07750 GcrA: GcrA cell cycle regulator; InterPro: IPR011681 GcrA, together with CtrA (see IPR001789 from INTERPRO and IPR001867 from INTERPRO), form a master cell cycle regulator

Probab=86.15  E-value=2  Score=28.78  Aligned_cols=42  Identities=19%  Similarity=0.040  Sum_probs=33.6

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhh
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFE   45 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~   45 (108)
                      |-||.|..+.|.++... |. .=++||..|++.|...+.-+.++
T Consensus         1 M~Wtde~~~~L~~lw~~-G~-SasqIA~~lg~vsRnAViGk~hR   42 (162)
T PF07750_consen    1 MSWTDERVERLRKLWAE-GL-SASQIARQLGGVSRNAVIGKAHR   42 (162)
T ss_pred             CCCCHHHHHHHHHHHHc-CC-CHHHHHHHhCCcchhhhhhhhhc
Confidence            57999999999999965 54 79999999996666666666554

These bacterial regulators are involved in controlling the progression and asymmetric polar morphogenesis []. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA. The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes []. More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery [].

>KOG2009|consensus

Probab=86.04  E-value=1.3  Score=35.39  Aligned_cols=43  Identities=14%  Similarity=0.207  Sum_probs=40.0

Q ss_pred             ccCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHH
Q psy15548         53 KTEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEF   95 (108)
Q Consensus        53 ~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~   95 (108)
                      .++||..|-++...+....|.+.+.|+. +++|+..|++.+|..
T Consensus       409 ~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~  452 (584)
T KOG2009|consen  409 TDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKK  452 (584)
T ss_pred             cCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhh
Confidence            4689999999999999999999999999 999999999998864

>PF09420 Nop16: Ribosome biogenesis protein Nop16; InterPro: IPR019002 Nucleolar protein 16 (Nop16) is a protein involved in the biogenesis of the 60S ribosomal subunit

Probab=85.67  E-value=1.9  Score=28.77  Aligned_cols=46  Identities=17%  Similarity=0.125  Sum_probs=38.6

Q ss_pred             cccCCCHHHHHHHHHHHhhCCcchhcccc-c-cC---CCHHHHHHHHHHHH
Q psy15548         52 KKTEWSREEDEKLLHLAKLMPTQWRTIAP-I-IG---RTAAQCLERYEFLL   97 (108)
Q Consensus        52 ~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~-~g---Rt~~q~~~r~~~~~   97 (108)
                      ....-|..|..-+..++.+||.++..++. . ++   .|+.||+.+...+.
T Consensus       113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~k  163 (164)
T PF09420_consen  113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKYK  163 (164)
T ss_pred             CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHhc
Confidence            34578899999999999999999999998 4 34   89999998877653

>PF10545 MADF_DNA_bdg: Alcohol dehydrogenase transcription factor Myb/SANT-like; InterPro: IPR006578 The MADF (myb/SANT-like domain in Adf-1) domain is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats

Probab=85.58  E-value=0.7  Score=26.52  Aligned_cols=25  Identities=36%  Similarity=0.658  Sum_probs=20.6

Q ss_pred             CHHHHHHHhC-CCCHHHHHHHhhhhc
Q psy15548         23 QWSRIASLLH-RKSAKQCKARWFEWL   47 (108)
Q Consensus        23 ~W~~Ia~~~~-~R~~~qc~~rw~~~l   47 (108)
                      -|..||..++ .-+..+|+.+|.+.-
T Consensus        28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr   53 (85)
T PF10545_consen   28 AWQEIARELGKEFSVDDCKKRWKNLR   53 (85)
T ss_pred             HHHHHHHHHccchhHHHHHHHHHHHH
Confidence            6999999997 357889999998743

The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain []. MADF is related to the Myb DNA-binding domain (IPR001005 from INTERPRO). The retroviral oncogene v-myb, and its cellular counterpart c-myb, are nuclear DNA-binding proteins that specifically recognise the sequence YAAC(G/T)G. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains. Some proteins known to contain a MADF domain are listed below: Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3), which functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation.

>KOG4329|consensus

Probab=85.45  E-value=1.5  Score=33.21  Aligned_cols=44  Identities=20%  Similarity=0.321  Sum_probs=38.8

Q ss_pred             cCCCHHHHHHHHHHHhhCCcchhcccc--ccCCCHHHHHHHHHHHH
Q psy15548         54 TEWSREEDEKLLHLAKLMPTQWRTIAP--IIGRTAAQCLERYEFLL   97 (108)
Q Consensus        54 ~~Wt~eEd~~L~~~v~~~g~~W~~Ia~--~~gRt~~q~~~r~~~~~   97 (108)
                      ..||.+|-..+-+.++.||+++..|..  ++.|+-..|-.-|+...
T Consensus       278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlWK  323 (445)
T KOG4329|consen  278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLWK  323 (445)
T ss_pred             ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHhh
Confidence            579999999999999999999999987  78999999988765443

>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional

Probab=85.10  E-value=2  Score=36.62  Aligned_cols=46  Identities=13%  Similarity=0.251  Sum_probs=38.6

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCHHHHHHHh------------CCCCHHHHHHHhhhhcC
Q psy15548          3 KTMTIVDEILKAAVMKYGKNQWSRIASLL------------HRKSAKQCKARWFEWLD   48 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~------------~~R~~~qc~~rw~~~l~   48 (108)
                      .+|.|||.-|+-++.+||.++|..|-..+            ..||+..+..|-...+.
T Consensus       928 ~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~~  985 (1033)
T PLN03142        928 LYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLIR  985 (1033)
T ss_pred             cCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHHH
Confidence            48999999999999999999999996543            27999999998776554

>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1

Probab=83.20  E-value=2.7  Score=26.71  Aligned_cols=31  Identities=16%  Similarity=0.117  Sum_probs=25.8

Q ss_pred             CCcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548         71 MPTQWRTIAPIIGRTAAQCLERYEFLLYRAR  101 (108)
Q Consensus        71 ~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~  101 (108)
                      .|.+..+||...|.|...++.+.....+...
T Consensus       128 ~~~~~~eIA~~lgis~~tv~~~~~ra~~~Lr  158 (161)
T TIGR02985       128 EGKSYKEIAEELGISVKTVEYHISKALKELR  158 (161)
T ss_pred             cCCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence            4668999999999999999999888766543

This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.

>KOG4468|consensus

Probab=82.81  E-value=1.7  Score=34.95  Aligned_cols=44  Identities=14%  Similarity=0.256  Sum_probs=35.3

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCHHHHHHHh----------CCCCHHHHHHHhhhhc
Q psy15548          3 KTMTIVDEILKAAVMKYGKNQWSRIASLL----------HRKSAKQCKARWFEWL   47 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~----------~~R~~~qc~~rw~~~l   47 (108)
                      -||..|.+.+..++..+|. +...|-..+          .-+|..|++.+|++.+
T Consensus        90 aWt~~E~~~Ffdal~~~GK-dFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~  143 (782)
T KOG4468|consen   90 AWTHQEEESFFDALRQVGK-DFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLV  143 (782)
T ss_pred             ccchhhHHHHHHHHHHhcc-cHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHH
Confidence            5999999999999999997 888883322          2357789999987754

>PF09420 Nop16: Ribosome biogenesis protein Nop16; InterPro: IPR019002 Nucleolar protein 16 (Nop16) is a protein involved in the biogenesis of the 60S ribosomal subunit

Probab=80.70  E-value=5.1  Score=26.67  Aligned_cols=43  Identities=12%  Similarity=0.135  Sum_probs=34.3

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCHHHHHHHhC----CCCHHHHHHHhhhh
Q psy15548          3 KTMTIVDEILKAAVMKYGKNQWSRIASLLH----RKSAKQCKARWFEW   46 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~----~R~~~qc~~rw~~~   46 (108)
                      +-|..|..-+..+|++||. +....|.-..    ..|+.||+.+...+
T Consensus       116 ~ls~~e~~~i~~Li~KhGd-Dy~aMarD~KLN~~Q~T~~qlrrki~~~  162 (164)
T PF09420_consen  116 RLSEREIEYIEYLIEKHGD-DYKAMARDRKLNYMQHTPGQLRRKIRKY  162 (164)
T ss_pred             CCCHHHHHHHHHHHHHHCc-cHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence            4578899999999999996 9999886433    47889998877654

>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins

Probab=80.54  E-value=11  Score=23.07  Aligned_cols=66  Identities=15%  Similarity=0.252  Sum_probs=41.5

Q ss_pred             CCcHHHHHHHHHHHHHh----CC---CCHHHHHHHhC-----CCCHHHHHH-------HhhhhcCCCCcc---cCCCHHH
Q psy15548          3 KTMTIVDEILKAAVMKY----GK---NQWSRIASLLH-----RKSAKQCKA-------RWFEWLDPSIKK---TEWSREE   60 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~----g~---~~W~~Ia~~~~-----~R~~~qc~~-------rw~~~l~~~~~~---~~Wt~eE   60 (108)
                      -||++++-.|++++..|    |.   .++..+...+.     .=+..|+.+       +|.+.... ...   ..++..-
T Consensus         6 ~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~~~~~k-~~~g~~~~~~~~h   84 (98)
T PF04504_consen    6 LWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYRNAVKK-SKNGKDPSFSKPH   84 (98)
T ss_pred             CCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHhhh-cccCcCCCCCCHh
Confidence            59999999999999888    42   26666655543     224555554       44443333 122   2677788


Q ss_pred             HHHHHHHHh
Q psy15548         61 DEKLLHLAK   69 (108)
Q Consensus        61 d~~L~~~v~   69 (108)
                      |..+.++-+
T Consensus        85 d~~~f~Lsk   93 (98)
T PF04504_consen   85 DRRLFELSK   93 (98)
T ss_pred             HHHHHHHHH
Confidence            888877754

>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins

Probab=80.49  E-value=3.1  Score=25.44  Aligned_cols=48  Identities=15%  Similarity=0.153  Sum_probs=30.4

Q ss_pred             cCCCHHHHHHHHHHHhhC----Cc----chhcccc-cc-----CCCHHHHHHHHHHHHhHHH
Q psy15548         54 TEWSREEDEKLLHLAKLM----PT----QWRTIAP-II-----GRTAAQCLERYEFLLYRAR  101 (108)
Q Consensus        54 ~~Wt~eEd~~L~~~v~~~----g~----~W~~Ia~-~~-----gRt~~q~~~r~~~~~~~~~  101 (108)
                      ..||++++..|++++..|    |.    ++..+.. +.     .=|..|+.++...+.++..
T Consensus         5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~   66 (98)
T PF04504_consen    5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYR   66 (98)
T ss_pred             CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHH
Confidence            469999999999988554    62    4444333 22     1366777666666655543

>KOG0384|consensus

Probab=80.42  E-value=1.2  Score=38.44  Aligned_cols=26  Identities=23%  Similarity=0.340  Sum_probs=24.6

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCHHHHH
Q psy15548          3 KTMTIVDEILKAAVMKYGKNQWSRIA   28 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia   28 (108)
                      -|..++|..|+-+|-+||.++|..|-
T Consensus      1135 ~W~~e~Ds~LLiGI~khGygswe~Ir 1160 (1373)
T KOG0384|consen 1135 DWGSEDDSMLLIGIFKHGYGSWEAIR 1160 (1373)
T ss_pred             CCCchhhhhHhhhhhhcccccHHHhc
Confidence            59999999999999999999999985

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	108
2dim_A	70	Solution Structure Of The Myb_dna-Binding Domain Of		6e-23
2din_A	66	Solution Structure Of The Myb_dna-Binding Domain Of		2e-21
3zqc_A	131	Structure Of The Trichomonas Vaginalis Myb3 Dna-Bin		8e-12
1h88_C	159	Crystal Structure Of Ternary Protein-Dna Complex1 L		2e-10
1h8a_C	128	Crystal Structure Of Ternary Protein-Dna Complex3 L		4e-10
1a5j_A	110	Chicken B-Myb Dna Binding Domain, Repeat 2 And Repe		4e-10
1mse_C	105	Solution Structure Of A Specific Dna Complex Of The		9e-10
1gv2_A	105	Crystal Structure Of C-Myb R2r3 Length = 105		9e-10
3osf_A	126	The Structure Of Protozoan Parasite Trichomonas Vag		1e-09
2k9n_A	107	Solution Nmr Structure Of The R2r3 Dna Binding Doma		3e-07

>pdb|2DIM|A Chain A, Solution Structure Of The Myb_dna-Binding Domain Of Human Cell Division Cycle 5-Like Protein Length = 70

Iteration: 1
 Score =  102 bits (254), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 48/49 (97%), Positives = 49/49 (100%)
Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWS 57
          DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWS
Sbjct: 17 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWS 65

>pdb|2DIN|A Chain A, Solution Structure Of The Myb_dna-Binding Domain Of Human Cell Division Cycle 5-Like Protein Length = 66

Iteration: 1
 Score = 97.4 bits (241), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 46/54 (85%), Positives = 50/54 (92%)
Query: 50  SIKKTEWSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
           S KKTEWSREE+EKLLHLAKLMPTQWRTIAPIIGRTAAQCLE YEFLL +A ++
Sbjct: 6   SGKKTEWSREEEEKLLHLAKLMPTQWRTIAPIIGRTAAQCLEHYEFLLDKAAQR 59

>pdb|3ZQC|A Chain A, Structure Of The Trichomonas Vaginalis Myb3 Dna-Binding Domain Bound To A Promoter Sequence Reveals A Unique C- Terminal Beta-Hairpin Conformation Length = 131

Iteration: 1
 Score = 65.5 bits (158), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 32/87 (36%), Positives = 48/87 (55%), Gaps = 1/87 (1%)
Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
          D++++  V + G   W RI S L  +S KQC+ RWF  LDP++ K  W+ EEDE +    
Sbjct: 10 DDLIREYVKENGPQNWPRITSFLPNRSPKQCRERWFNHLDPAVVKHAWTPEEDETIFRNY 69
Query: 69 KLMPTQWRTIAPII-GRTAAQCLERYE 94
            + ++W  IA +I GRT      R+ 
Sbjct: 70 LKLGSKWSVIAKLIPGRTDNAIKNRWN 96

>pdb|1H88|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex1 Length = 159

Iteration: 1
 Score = 60.8 bits (146), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 34/91 (37%), Positives = 52/91 (57%), Gaps = 2/91 (2%)
Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           DE LK  V + G + W  IA+ L  ++  QC+ RW + L+P + K  W++EED++++ L 
Sbjct: 14  DEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNPELIKGPWTKEEDQRVIKLV 73
Query: 69  -KLMPTQWRTIAPII-GRTAAQCLERYEFLL 97
            K  P +W  IA  + GR   QC ER+   L
Sbjct: 74  QKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 104

>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3 Length = 128

Iteration: 1
 Score = 59.7 bits (143), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 32/92 (34%), Positives = 47/92 (51%), Gaps = 1/92 (1%)
Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           D+ +   V KYG  +WS IA  L  +  KQC+ RW   L+P +KKT W+ EED  +    
Sbjct: 35  DQRVIEHVQKYGPKRWSDIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAH 94
Query: 69  KLMPTQWRTIAPII-GRTAAQCLERYEFLLYR 99
           K +  +W  IA ++ GRT       +   + R
Sbjct: 95  KRLGNRWAEIAKLLPGRTDNAVKNHWNSTMRR 126

>pdb|1A5J|A Chain A, Chicken B-Myb Dna Binding Domain, Repeat 2 And Repeat3, Nmr, 32 Structures Length = 110

Iteration: 1
 Score = 59.7 bits (143), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 31/92 (33%), Positives = 48/92 (52%), Gaps = 1/92 (1%)
Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           D+ +   V KYG  QW+ IA  L  +  KQC+ RW   L+P +KK+ W+ EED  +    
Sbjct: 15  DQKVIELVKKYGTKQWTLIAKHLKGRLGKQCRERWHNHLNPEVKKSSWTEEEDRIIFEAH 74
Query: 69  KLMPTQWRTIAPII-GRTAAQCLERYEFLLYR 99
           K++  +W  IA ++ GRT       +   + R
Sbjct: 75  KVLGNRWAEIAKLLPGRTDNAVKNHWNSTIKR 106

>pdb|1MSE|C Chain C, Solution Structure Of A Specific Dna Complex Of The Myb Dna- Binding Domain With Cooperative Recognition Helices Length = 105

Iteration: 1
 Score = 58.5 bits (140), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 31/78 (39%), Positives = 44/78 (56%), Gaps = 1/78 (1%)
Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
          D+ +   V KYG  +WS IA  L  +  KQC+ RW   L+P +KKT W+ EED  +    
Sbjct: 12 DQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAH 71
Query: 69 KLMPTQWRTIAPII-GRT 85
          K +  +W  IA ++ GRT
Sbjct: 72 KRLGNRWAEIAKLLPGRT 89

>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3 Length = 105

Iteration: 1
 Score = 58.5 bits (140), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 31/78 (39%), Positives = 44/78 (56%), Gaps = 1/78 (1%)
Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
          D+ +   V KYG  +WS IA  L  +  KQC+ RW   L+P +KKT W+ EED  +    
Sbjct: 12 DQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAH 71
Query: 69 KLMPTQWRTIAPII-GRT 85
          K +  +W  IA ++ GRT
Sbjct: 72 KRLGNRWAEIAKLLPGRT 89

>pdb|3OSF|A Chain A, The Structure Of Protozoan Parasite Trichomonas Vaginalis Myb2 In Complex With Mre-2f-13 Dna Length = 126

Iteration: 1
 Score = 57.8 bits (138), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 33/86 (38%), Positives = 47/86 (54%), Gaps = 2/86 (2%)
Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           DE+LK AV ++G + W  IA+    ++A+QC+ RW  +L PSI  T W+ EED  L+   
Sbjct: 19  DEMLKRAVAQHGSD-WKMIAATFPNRNARQCRDRWKNYLAPSISHTPWTAEEDALLVQKI 77
Query: 69  KLMPTQWRTIAPII-GRTAAQCLERY 93
           +    QW  IA    GRT      R+
Sbjct: 78  QEYGRQWAIIAKFFPGRTDIHIKNRW 103

>pdb|2K9N|A Chain A, Solution Nmr Structure Of The R2r3 Dna Binding Domain Of Myb1 Protein From Protozoan Parasite Trichomonas Vaginalis Length = 107

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 25/92 (27%), Positives = 46/92 (50%)
Query: 12  LKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLM 71
           L+  VM+YG   W RI+ L+  ++ +QC+ RW  +++P+++   WS EED  L       
Sbjct: 12  LQQLVMRYGAKDWIRISQLMITRNPRQCRERWNNYINPALRTDPWSPEEDMLLDQKYAEY 71
Query: 72  PTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
             +W  I+  +   +   +     ++ R R K
Sbjct: 72  GPKWNKISKFLKNRSDNNIRNRWMMIARHRAK 103

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	108
2din_A	66	Cell division cycle 5-like protein; MYB_DNA-bindin	6e-27
2din_A	66	Cell division cycle 5-like protein; MYB_DNA-bindin	1e-07
2dim_A	70	Cell division cycle 5-like protein; MYB_DNA-bindin	3e-26
2dim_A	70	Cell division cycle 5-like protein; MYB_DNA-bindin	2e-09
1h89_C	159	C-MYB, MYB proto-oncogene protein; transcription/D	2e-23
1h89_C	159	C-MYB, MYB proto-oncogene protein; transcription/D	2e-22
1h89_C	159	C-MYB, MYB proto-oncogene protein; transcription/D	2e-06
1h89_C	159	C-MYB, MYB proto-oncogene protein; transcription/D	5e-05
2k9n_A	107	MYB24; R2R3 domain, DNA-binding, nucleus, DNA bind	9e-23
2k9n_A	107	MYB24; R2R3 domain, DNA-binding, nucleus, DNA bind	3e-06
3osg_A	126	MYB21; transcription-DNA complex, MYB2, R2R3 domai	5e-21
3osg_A	126	MYB21; transcription-DNA complex, MYB2, R2R3 domai	6e-08
1h8a_C	128	AMV V-MYB, MYB transforming protein; transcription	1e-19
1h8a_C	128	AMV V-MYB, MYB transforming protein; transcription	2e-15
3zqc_A	131	MYB3; transcription-DNA complex, DNA-binding prote	6e-19
1gv2_A	105	C-MYB, MYB proto-oncogene protein; transcription,	1e-18
1gv2_A	105	C-MYB, MYB proto-oncogene protein; transcription,	2e-04
2d9a_A	60	B-MYB, MYB-related protein B; DNA binding, structu	2e-11
2d9a_A	60	B-MYB, MYB-related protein B; DNA binding, structu	5e-09
1guu_A	52	C-MYB, MYB proto-oncogene protein; transcription,	3e-11
1guu_A	52	C-MYB, MYB proto-oncogene protein; transcription,	4e-09
1gvd_A	52	MYB proto-oncogene protein; transcription, transcr	3e-09
1gvd_A	52	MYB proto-oncogene protein; transcription, transcr	2e-06
2yus_A	79	SWI/SNF-related matrix-associated actin- dependent	4e-08
2yus_A	79	SWI/SNF-related matrix-associated actin- dependent	9e-04
2llk_A	73	Cyclin-D-binding MYB-like transcription factor 1;	9e-08
1x41_A	60	Transcriptional adaptor 2-like, isoform B; transcr	3e-06
1x41_A	60	Transcriptional adaptor 2-like, isoform B; transcr	5e-06
2cqr_A	73	RSGI RUH-043, DNAJ homolog subfamily C member 1; m	2e-05
2elk_A	58	SPCC24B10.08C protein; hypothetical protein, struc	1e-04
2cu7_A	72	KIAA1915 protein; nuclear protein, SANT domain, DN	1e-04
2ltp_A	89	Nuclear receptor corepressor 2; SMRT, TRAC, SGC, s	2e-04
1w0t_A	53	Telomeric repeat binding factor 1; telomere, DNA-b	4e-04
1w0t_A	53	Telomeric repeat binding factor 1; telomere, DNA-b	5e-04
1ity_A	69	TRF1; helix-turn-helix, telomeres, DNA binding, MY	4e-04
1ity_A	69	TRF1; helix-turn-helix, telomeres, DNA binding, MY	8e-04
1ign_A	246	Protein (RAP1); RAP1,yeast,telomeres,homoeodomain,	5e-04
1vf9_A	64	Telomeric repeat binding factor 2; MYB, helix-turn	5e-04
1vf9_A	64	Telomeric repeat binding factor 2; MYB, helix-turn	7e-04
1w0u_A	55	Telomeric repeat binding factor 2; telomere, DNA-b	7e-04

>2din_A Cell division cycle 5-like protein; MYB_DNA-binding domain, cell cycle, DNA binding, spliceosome, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 66

 Score = 93.3 bits (232), Expect = 6e-27
 Identities = 46/56 (82%), Positives = 50/56 (89%)

Query: 48  DPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRK 103
             S KKTEWSREE+EKLLHLAKLMPTQWRTIAPIIGRTAAQCLE YEFLL +A ++
Sbjct: 4   GSSGKKTEWSREEEEKLLHLAKLMPTQWRTIAPIIGRTAAQCLEHYEFLLDKAAQR 59

>2din_A Cell division cycle 5-like protein; MYB_DNA-binding domain, cell cycle, DNA binding, spliceosome, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 66

 Score = 44.0 bits (104), Expect = 1e-07
 Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 2/47 (4%)

Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTE 55
          +E L          QW  IA ++ R +A QC   +   LD + ++  
Sbjct: 17 EEKLLHLAKLMP-TQWRTIAPIIGR-TAAQCLEHYEFLLDKAAQRDS 61

>2dim_A Cell division cycle 5-like protein; MYB_DNA-binding domain, cell cycle, DNA binding, spliceosome, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 70

 Score = 91.6 bits (228), Expect = 3e-26
 Identities = 48/52 (92%), Positives = 49/52 (94%)

Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREE 60
          DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW+EWLDPSIKKTEWS   
Sbjct: 17 DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSGPS 68

>2dim_A Cell division cycle 5-like protein; MYB_DNA-binding domain, cell cycle, DNA binding, spliceosome, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 70

 Score = 48.8 bits (117), Expect = 2e-09
 Identities = 16/47 (34%), Positives = 21/47 (44%), Gaps = 2/47 (4%)

Query: 49 PSIKKTEWSREEDEKLLHL-AKLMPTQWRTIAPII-GRTAAQCLERY 93
           S K   W   EDE L     K    QW  IA ++  ++A QC  R+
Sbjct: 5  SSGKGGVWRNTEDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARW 51

>1h89_C C-MYB, MYB proto-oncogene protein; transcription/DNA; 2.45A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 a.4.1.3 PDB: 1h88_C Length = 159

 Score = 87.3 bits (217), Expect = 2e-23
 Identities = 33/87 (37%), Positives = 51/87 (58%), Gaps = 2/87 (2%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHL- 67
           DE LK  V + G + W  IA+ L  ++  QC+ RW + L+P + K  W++EED++++ L 
Sbjct: 14  DEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNPELIKGPWTKEEDQRVIKLV 73

Query: 68  AKLMPTQWRTIAPII-GRTAAQCLERY 93
            K  P +W  IA  + GR   QC ER+
Sbjct: 74  QKYGPKRWSVIAKHLKGRIGKQCRERW 100

>1h89_C C-MYB, MYB proto-oncogene protein; transcription/DNA; 2.45A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 a.4.1.3 PDB: 1h88_C Length = 159

 Score = 84.6 bits (210), Expect = 2e-22
 Identities = 31/86 (36%), Positives = 45/86 (52%), Gaps = 1/86 (1%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           D+ +   V KYG  +WS IA  L  +  KQC+ RW   L+P +KKT W+ EED  +    
Sbjct: 66  DQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAH 125

Query: 69  KLMPTQWRTIAPII-GRTAAQCLERY 93
           K +  +W  IA ++ GRT       +
Sbjct: 126 KRLGNRWAEIAKLLPGRTDNAIKNHW 151

>1h89_C C-MYB, MYB proto-oncogene protein; transcription/DNA; 2.45A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 a.4.1.3 PDB: 1h88_C Length = 159

 Score = 43.0 bits (102), Expect = 2e-06
 Identities = 19/45 (42%), Positives = 25/45 (55%), Gaps = 2/45 (4%)

Query: 51 IKKTEWSREEDEKLLHL-AKLMPTQWRTIAPII-GRTAAQCLERY 93
          + KT W+REEDEKL  L  +     W+ IA  +  RT  QC  R+
Sbjct: 4  LGKTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRW 48

>1h89_C C-MYB, MYB proto-oncogene protein; transcription/DNA; 2.45A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 a.4.1.3 PDB: 1h88_C Length = 159

 Score = 38.8 bits (91), Expect = 5e-05
 Identities = 12/43 (27%), Positives = 20/43 (46%), Gaps = 1/43 (2%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSI 51
           D I+  A  + G N+W+ IA LL  ++    K  W   +   +
Sbjct: 118 DRIIYQAHKRLG-NRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 159

>2k9n_A MYB24; R2R3 domain, DNA-binding, nucleus, DNA binding protein; NMR {Trichomonas vaginalis} PDB: 2kdz_A Length = 107

 Score = 83.7 bits (208), Expect = 9e-23
 Identities = 25/96 (26%), Positives = 46/96 (47%), Gaps = 1/96 (1%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           D  L+  VM+YG   W RI+ L+  ++ +QC+ RW  +++P+++   WS EED  L    
Sbjct: 9   DLKLQQLVMRYGAKDWIRISQLMITRNPRQCRERWNNYINPALRTDPWSPEEDMLLDQKY 68

Query: 69  KLMPTQWRTIAPII-GRTAAQCLERYEFLLYRARRK 103
                +W  I+  +  R+      R+  +     + 
Sbjct: 69  AEYGPKWNKISKFLKNRSDNNIRNRWMMIARHRAKH 104

>2k9n_A MYB24; R2R3 domain, DNA-binding, nucleus, DNA binding protein; NMR {Trichomonas vaginalis} PDB: 2kdz_A Length = 107

 Score = 41.4 bits (98), Expect = 3e-06
 Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 2/43 (4%)

Query: 53 KTEWSREEDEKLLHL-AKLMPTQWRTIAPII-GRTAAQCLERY 93
          K +++ EED KL  L  +     W  I+ ++  R   QC ER+
Sbjct: 1  KVKFTEEEDLKLQQLVMRYGAKDWIRISQLMITRNPRQCRERW 43

>3osg_A MYB21; transcription-DNA complex, MYB2, R2R3 domain, DNA binding PR transcription factor; 2.00A {Trichomonas vaginalis} PDB: 3osf_A Length = 126

 Score = 80.0 bits (198), Expect = 5e-21
 Identities = 32/78 (41%), Positives = 45/78 (57%), Gaps = 2/78 (2%)

Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
          DE+LK AV ++G + W  IA+    ++A+QC+ RW  +L PSI  T W+ EED  L+   
Sbjct: 19 DEMLKRAVAQHGSD-WKMIAATFPNRNARQCRDRWKNYLAPSISHTPWTAEEDALLVQKI 77

Query: 69 KLMPTQWRTIAPII-GRT 85
          +    QW  IA    GRT
Sbjct: 78 QEYGRQWAIIAKFFPGRT 95

>3osg_A MYB21; transcription-DNA complex, MYB2, R2R3 domain, DNA binding PR transcription factor; 2.00A {Trichomonas vaginalis} PDB: 3osf_A Length = 126

 Score = 46.5 bits (111), Expect = 6e-08
 Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 1/46 (2%)

Query: 49 PSIKKTEWSREEDEKLLHLAKLMPTQWRTIAPII-GRTAAQCLERY 93
           + KK +++ EEDE L        + W+ IA     R A QC +R+
Sbjct: 7  KAAKKQKFTPEEDEMLKRAVAQHGSDWKMIAATFPNRNARQCRDRW 52

>1h8a_C AMV V-MYB, MYB transforming protein; transcription/DNA; 2.23A {Avian myeloblastosis virus} SCOP: a.4.1.3 a.4.1.3 Length = 128

 Score = 76.4 bits (189), Expect = 1e-19
 Identities = 31/78 (39%), Positives = 44/78 (56%), Gaps = 1/78 (1%)

Query: 9   DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
           D+ +   V KYG  +WS IA  L  +  KQC+ RW   L+P +KKT W+ EED  +    
Sbjct: 35  DQRVIEHVQKYGPKRWSDIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAH 94

Query: 69  KLMPTQWRTIAPII-GRT 85
           K +  +W  IA ++ GRT
Sbjct: 95  KRLGNRWAEIAKLLPGRT 112

>1h8a_C AMV V-MYB, MYB transforming protein; transcription/DNA; 2.23A {Avian myeloblastosis virus} SCOP: a.4.1.3 a.4.1.3 Length = 128

 Score = 65.6 bits (161), Expect = 2e-15
 Identities = 22/69 (31%), Positives = 41/69 (59%), Gaps = 2/69 (2%)

Query: 27 IASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHL-AKLMPTQWRTIAPII-GR 84
          + +++  ++  QC+ RW + L+P + K  W++EED++++    K  P +W  IA  + GR
Sbjct: 1  MEAVIKNRTDVQCQHRWQKVLNPELNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKGR 60

Query: 85 TAAQCLERY 93
             QC ER+
Sbjct: 61 IGKQCRERW 69

>3zqc_A MYB3; transcription-DNA complex, DNA-binding protein, nucleus; 2.90A {Trichomonas vaginalis} Length = 131

 Score = 75.0 bits (185), Expect = 6e-19
 Identities = 31/78 (39%), Positives = 46/78 (58%), Gaps = 1/78 (1%)

Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
          D++++  V + G   W RI S L  +S KQC+ RWF  LDP++ K  W+ EEDE +    
Sbjct: 10 DDLIREYVKENGPQNWPRITSFLPNRSPKQCRERWFNHLDPAVVKHAWTPEEDETIFRNY 69

Query: 69 KLMPTQWRTIAPII-GRT 85
            + ++W  IA +I GRT
Sbjct: 70 LKLGSKWSVIAKLIPGRT 87

>1gv2_A C-MYB, MYB proto-oncogene protein; transcription, DNA binding, ION binding; 1.68A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 PDB: 1mse_C* 1msf_C* 1a5j_A 1idy_A 1idz_A 1mbj_A 1mbk_A Length = 105

 Score = 72.9 bits (180), Expect = 1e-18
 Identities = 31/78 (39%), Positives = 44/78 (56%), Gaps = 1/78 (1%)

Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA 68
          D+ +   V KYG  +WS IA  L  +  KQC+ RW   L+P +KKT W+ EED  +    
Sbjct: 12 DQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAH 71

Query: 69 KLMPTQWRTIAPII-GRT 85
          K +  +W  IA ++ GRT
Sbjct: 72 KRLGNRWAEIAKLLPGRT 89

>1gv2_A C-MYB, MYB proto-oncogene protein; transcription, DNA binding, ION binding; 1.68A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 PDB: 1mse_C* 1msf_C* 1a5j_A 1idy_A 1idz_A 1mbj_A 1mbk_A Length = 105

 Score = 36.4 bits (85), Expect = 2e-04
 Identities = 17/44 (38%), Positives = 26/44 (59%), Gaps = 2/44 (4%)

Query: 51 IKKTEWSREEDEKLLHL-AKLMPTQWRTIAPII-GRTAAQCLER 92
          + K  W++EED++++ L  K  P +W  IA  + GR   QC ER
Sbjct: 2  LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRER 45

>2d9a_A B-MYB, MYB-related protein B; DNA binding, structural genomics, unknown function, NPPSFA; NMR {Mus musculus} Length = 60

 Score = 53.8 bits (130), Expect = 2e-11
 Identities = 14/44 (31%), Positives = 23/44 (52%)

Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIK 52
          DE L+A V ++G+  W  +AS    ++ +QC+ RW   L     
Sbjct: 16 DEQLRALVRQFGQQDWKFLASHFPNRTDQQCQYRWLRVLSGPSS 59

>2d9a_A B-MYB, MYB-related protein B; DNA binding, structural genomics, unknown function, NPPSFA; NMR {Mus musculus} Length = 60

 Score = 47.6 bits (114), Expect = 5e-09
 Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 2/47 (4%)

Query: 49 PSIKKTEWSREEDEKLLHL-AKLMPTQWRTIAPII-GRTAAQCLERY 93
           S  K +W+ EEDE+L  L  +     W+ +A     RT  QC  R+
Sbjct: 4  GSSGKVKWTHEEDEQLRALVRQFGQQDWKFLASHFPNRTDQQCQYRW 50

>1guu_A C-MYB, MYB proto-oncogene protein; transcription, transcription regulation, DNA binding, ION bindi proto-oncogene, nuclear protein, activator; 1.6A {Mus musculus} SCOP: a.4.1.3 PDB: 1mbe_A 1mbf_A Length = 52

 Score = 53.3 bits (129), Expect = 3e-11
 Identities = 16/41 (39%), Positives = 24/41 (58%)

Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDP 49
          DE LK  V + G + W  IA+ L  ++  QC+ RW + L+P
Sbjct: 11 DEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNP 51

>1guu_A C-MYB, MYB proto-oncogene protein; transcription, transcription regulation, DNA binding, ION bindi proto-oncogene, nuclear protein, activator; 1.6A {Mus musculus} SCOP: a.4.1.3 PDB: 1mbe_A 1mbf_A Length = 52

 Score = 47.6 bits (114), Expect = 4e-09
 Identities = 19/45 (42%), Positives = 25/45 (55%), Gaps = 2/45 (4%)

Query: 51 IKKTEWSREEDEKLLHL-AKLMPTQWRTIAPII-GRTAAQCLERY 93
          + KT W+REEDEKL  L  +     W+ IA  +  RT  QC  R+
Sbjct: 1  LGKTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRW 45

>1gvd_A MYB proto-oncogene protein; transcription, transcription regulation, C-MYB, DNA binding, ION binding, nuclear protein; 1.45A {Mus musculus} SCOP: a.4.1.3 PDB: 1gv5_A 1mbg_A 1mbh_A Length = 52

 Score = 47.9 bits (115), Expect = 3e-09
 Identities = 18/41 (43%), Positives = 23/41 (56%)

Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDP 49
          D+ L   V KYG  +WS IA  L  +  KQC+ RW   L+P
Sbjct: 11 DQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNP 51

>1gvd_A MYB proto-oncogene protein; transcription, transcription regulation, C-MYB, DNA binding, ION binding, nuclear protein; 1.45A {Mus musculus} SCOP: a.4.1.3 PDB: 1gv5_A 1mbg_A 1mbh_A Length = 52

 Score = 41.0 bits (97), Expect = 2e-06
 Identities = 18/45 (40%), Positives = 27/45 (60%), Gaps = 2/45 (4%)

Query: 51 IKKTEWSREEDEKLLHL-AKLMPTQWRTIAPII-GRTAAQCLERY 93
          + K  W++EED++L+ L  K  P +W  IA  + GR   QC ER+
Sbjct: 1  LIKGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERW 45

>2yus_A SWI/SNF-related matrix-associated actin- dependent regulator of chromatin subfamily...; SWI/SNF complex 155 kDa subunit, BRG1-associated factor 155; NMR {Homo sapiens} Length = 79

 Score = 46.0 bits (109), Expect = 4e-08
 Identities = 10/48 (20%), Positives = 21/48 (43%), Gaps = 1/48 (2%)

Query: 47 LDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAPIIG-RTAAQCLERY 93
             +    EW+ +E   LL   ++    W  ++  +G RT  +C+  +
Sbjct: 12 SKGASAGREWTEQETLLLLEALEMYKDDWNKVSEHVGSRTQDECILHF 59

>2yus_A SWI/SNF-related matrix-associated actin- dependent regulator of chromatin subfamily...; SWI/SNF complex 155 kDa subunit, BRG1-associated factor 155; NMR {Homo sapiens} Length = 79

 Score = 34.5 bits (79), Expect = 9e-04
 Identities = 5/37 (13%), Positives = 17/37 (45%), Gaps = 1/37 (2%)

Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFE 45
            +L  A+  Y  + W++++  +  ++  +C   +  
Sbjct: 26 TLLLLEALEMYKDD-WNKVSEHVGSRTQDECILHFLR 61

>2llk_A Cyclin-D-binding MYB-like transcription factor 1; helix bundle, SGC, structural genomics consortium, NESG, NOR structural genomics consortium; NMR {Homo sapiens} Length = 73

 Score = 44.5 bits (105), Expect = 9e-08
 Identities = 14/63 (22%), Positives = 23/63 (36%)

Query: 31 LHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCL 90
          +H             +        +++ EE EKL  L       W TI   +GR+A+   
Sbjct: 1  MHHHHHHSSGRENLYFQGDRNHVGKYTPEEIEKLKELRIKHGNDWATIGAALGRSASSVK 60

Query: 91 ERY 93
          +R 
Sbjct: 61 DRC 63

>1x41_A Transcriptional adaptor 2-like, isoform B; transcriptional adaptor protein2, transcriptional activation, MYB domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1 Length = 60

 Score = 40.4 bits (95), Expect = 3e-06
 Identities = 9/42 (21%), Positives = 20/42 (47%)

Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPS 50
          +  L  AVM  G   W  +A+ +  K+ ++C+  + ++    
Sbjct: 16 EMALLEAVMDCGFGNWQDVANQMCTKTKEECEKHYMKYFSGP 57

>1x41_A Transcriptional adaptor 2-like, isoform B; transcriptional adaptor protein2, transcriptional activation, MYB domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1 Length = 60

 Score = 40.0 bits (94), Expect = 5e-06
 Identities = 10/46 (21%), Positives = 19/46 (41%), Gaps = 2/46 (4%)

Query: 50 SIKKTEWSREEDEKLLHLAKLMPTQ-WRTIAPIIG-RTAAQCLERY 93
          S     W+ +E+  LL          W+ +A  +  +T  +C + Y
Sbjct: 5  SSGDPSWTAQEEMALLEAVMDCGFGNWQDVANQMCTKTKEECEKHY 50

>2cqr_A RSGI RUH-043, DNAJ homolog subfamily C member 1; membrane protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3 Length = 73

 Score = 38.3 bits (89), Expect = 2e-05
 Identities = 10/55 (18%), Positives = 22/55 (40%), Gaps = 5/55 (9%)

Query: 48 DPSIKKTEWSREEDEKLLH-LAKL---MPTQWRTIAPII-GRTAAQCLERYEFLL 97
               +  W++ + + L   L +        W  IA  +  ++   C+ RY+ L+
Sbjct: 13 RARSAEEPWTQNQQKLLELALQQYPRGSSDCWDKIARCVPSKSKEDCIARYKLLV 67

>2elk_A SPCC24B10.08C protein; hypothetical protein, structural genomics, NPPSFA; NMR {Schizosaccharomyces pombe} Length = 58

 Score = 36.3 bits (84), Expect = 1e-04
 Identities = 13/49 (26%), Positives = 19/49 (38%), Gaps = 3/49 (6%)

Query: 48 DPSIKKTEWSREEDEKLLH-LAKLMPTQWRTIAPIIG--RTAAQCLERY 93
            S     W  +E+  L+     L    W  IA  +G  RT  +C + Y
Sbjct: 4  GSSGFDENWGADEELLLIDACETLGLGNWADIADYVGNARTKEECRDHY 52

>2cu7_A KIAA1915 protein; nuclear protein, SANT domain, DNA binding, regulation of transcription, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3 Length = 72

 Score = 36.3 bits (84), Expect = 1e-04
 Identities = 12/59 (20%), Positives = 19/59 (32%), Gaps = 1/59 (1%)

Query: 49  PSIKKTEWSREEDEKLLHLAKLMPTQWRTIAPIIG-RTAAQCLERYEFLLYRARRKAVQ 106
            S    +W+ EE E           +W  I+ +IG RT  Q             +  + 
Sbjct: 5   SSGYSVKWTIEEKELFEQGLAKFGRRWTKISKLIGSRTVLQVKSYARQYFKNKVKCGLD 63

>2ltp_A Nuclear receptor corepressor 2; SMRT, TRAC, SGC, structural genomics consortium, NESG, north structural genomics consortium; NMR {Homo sapiens} Length = 89

 Score = 36.1 bits (83), Expect = 2e-04
 Identities = 15/60 (25%), Positives = 31/60 (51%), Gaps = 6/60 (10%)

Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEW-----LDPSIKKTEWSREEDEK 63
              K  ++++G+N WS IA ++  K+  QCK  +F +     LD  +++ +   E++  
Sbjct: 24 MGTAKKGLLEHGRN-WSAIARMVGSKTVSQCKNFYFNYKKRQNLDEILQQHKLKMEKERN 82

>1w0t_A Telomeric repeat binding factor 1; telomere, DNA-binding protein, homeodomain, mitosis, cell cycle; 2.00A {Homo sapiens} SCOP: a.4.1.4 PDB: 1ba5_A Length = 53

 Score = 34.6 bits (80), Expect = 4e-04
 Identities = 12/37 (32%), Positives = 21/37 (56%), Gaps = 2/37 (5%)

Query: 9  DEILKAAVMKYGKNQWSRIASL--LHRKSAKQCKARW 43
          D+ L++ V KYG+  WS+I      + +++   K RW
Sbjct: 10 DKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRW 46

>1w0t_A Telomeric repeat binding factor 1; telomere, DNA-binding protein, homeodomain, mitosis, cell cycle; 2.00A {Homo sapiens} SCOP: a.4.1.4 PDB: 1ba5_A Length = 53

 Score = 34.6 bits (80), Expect = 5e-04
 Identities = 12/46 (26%), Positives = 17/46 (36%), Gaps = 4/46 (8%)

Query: 52 KKTEWSREEDEKLLHL-AKLMPTQWRTIA---PIIGRTAAQCLERY 93
          K+  W  EED+ L     K     W  I        RT+    +R+
Sbjct: 1  KRQAWLWEEDKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRW 46

>1ity_A TRF1; helix-turn-helix, telomeres, DNA binding, MYB domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Homo sapiens} SCOP: a.4.1.4 PDB: 1iv6_A Length = 69

 Score = 35.1 bits (81), Expect = 4e-04
 Identities = 12/37 (32%), Positives = 21/37 (56%), Gaps = 2/37 (5%)

Query: 9  DEILKAAVMKYGKNQWSRIASL--LHRKSAKQCKARW 43
          D+ L++ V KYG+  WS+I      + +++   K RW
Sbjct: 18 DKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRW 54

>1ity_A TRF1; helix-turn-helix, telomeres, DNA binding, MYB domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Homo sapiens} SCOP: a.4.1.4 PDB: 1iv6_A Length = 69

 Score = 34.4 bits (79), Expect = 8e-04
 Identities = 12/46 (26%), Positives = 17/46 (36%), Gaps = 4/46 (8%)

Query: 52 KKTEWSREEDEKLLHL-AKLMPTQWRTIA---PIIGRTAAQCLERY 93
          K+  W  EED+ L     K     W  I        RT+    +R+
Sbjct: 9  KRQAWLWEEDKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRW 54

>1ign_A Protein (RAP1); RAP1,yeast,telomeres,homoeodomain, DNA binding protein/DNA complex; HET: DNA; 2.25A {Saccharomyces cerevisiae} SCOP: a.4.1.6 a.4.1.6 PDB: 3ukg_A Length = 246

 Score = 36.9 bits (84), Expect = 5e-04
 Identities = 8/61 (13%), Positives = 24/61 (39%), Gaps = 1/61 (1%)

Query: 6  TIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLL 65
           I+D + K    +     +  I+  +   +    + R+  +L   ++   +  ++  KL+
Sbjct: 18 FILDVVRKNPTRRTTHTLYDEISHYVPNHTGNSIRHRFRVYLSKRLEYV-YEVDKFGKLV 76

Query: 66 H 66
           
Sbjct: 77 R 77

>1vf9_A Telomeric repeat binding factor 2; MYB, helix-turn-helix, telomere, DNA binding protein; NMR {Homo sapiens} SCOP: a.4.1.4 PDB: 1xg1_A 1vfc_A Length = 64

 Score = 34.7 bits (80), Expect = 5e-04
 Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 4/46 (8%)

Query: 52 KKTEWSREEDEKLLH-LAKLMPTQWRTIA---PIIGRTAAQCLERY 93
          KK +W+ EE E +   + K     W  I+   P + RTA    +R+
Sbjct: 10 KKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRW 55

>1vf9_A Telomeric repeat binding factor 2; MYB, helix-turn-helix, telomere, DNA binding protein; NMR {Homo sapiens} SCOP: a.4.1.4 PDB: 1xg1_A 1vfc_A Length = 64

 Score = 34.3 bits (79), Expect = 7e-04
 Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 2/37 (5%)

Query: 9  DEILKAAVMKYGKNQWSRIASL--LHRKSAKQCKARW 43
           E +KA V KYG+  W+ I+       ++A   K RW
Sbjct: 19 SEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRW 55

>1w0u_A Telomeric repeat binding factor 2; telomere, DNA-binding protein, homeodomain, mitosis, cell cycle, nuclear protein; 1.8A {Homo sapiens} SCOP: a.4.1.4 Length = 55

 Score = 34.2 bits (79), Expect = 7e-04
 Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 2/37 (5%)

Query: 9  DEILKAAVMKYGKNQWSRIASL--LHRKSAKQCKARW 43
           E +KA V KYG+  W+ I+       ++A   K RW
Sbjct: 10 SEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRW 46

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	108
2k9n_A	107	MYB24; R2R3 domain, DNA-binding, nucleus, DNA bind	100.0
1gv2_A	105	C-MYB, MYB proto-oncogene protein; transcription,	100.0
3zqc_A	131	MYB3; transcription-DNA complex, DNA-binding prote	100.0
3osg_A	126	MYB21; transcription-DNA complex, MYB2, R2R3 domai	100.0
1h8a_C	128	AMV V-MYB, MYB transforming protein; transcription	100.0
1h89_C	159	C-MYB, MYB proto-oncogene protein; transcription/D	100.0
1h89_C	159	C-MYB, MYB proto-oncogene protein; transcription/D	100.0
1h8a_C	128	AMV V-MYB, MYB transforming protein; transcription	99.93
2dim_A	70	Cell division cycle 5-like protein; MYB_DNA-bindin	99.92
1ign_A	246	Protein (RAP1); RAP1,yeast,telomeres,homoeodomain,	99.86
2din_A	66	Cell division cycle 5-like protein; MYB_DNA-bindin	99.85
2juh_A	121	Telomere binding protein TBP1; helix, nucleus, nuc	99.84
2llk_A	73	Cyclin-D-binding MYB-like transcription factor 1;	99.83
1guu_A	52	C-MYB, MYB proto-oncogene protein; transcription,	99.83
2d9a_A	60	B-MYB, MYB-related protein B; DNA binding, structu	99.83
1gvd_A	52	MYB proto-oncogene protein; transcription, transcr	99.83
2roh_A	122	RTBP1, telomere binding protein-1; plant, nucleus,	99.83
2d9a_A	60	B-MYB, MYB-related protein B; DNA binding, structu	99.83
1ity_A	69	TRF1; helix-turn-helix, telomeres, DNA binding, MY	99.81
2cu7_A	72	KIAA1915 protein; nuclear protein, SANT domain, DN	99.81
3sjm_A	64	Telomeric repeat-binding factor 2; human telomeric	99.81
1guu_A	52	C-MYB, MYB proto-oncogene protein; transcription,	99.81
2dim_A	70	Cell division cycle 5-like protein; MYB_DNA-bindin	99.8
1gvd_A	52	MYB proto-oncogene protein; transcription, transcr	99.8
1x41_A	60	Transcriptional adaptor 2-like, isoform B; transcr	99.8
1w0t_A	53	Telomeric repeat binding factor 1; telomere, DNA-b	99.78
1x41_A	60	Transcriptional adaptor 2-like, isoform B; transcr	99.78
1ity_A	69	TRF1; helix-turn-helix, telomeres, DNA binding, MY	99.78
2elk_A	58	SPCC24B10.08C protein; hypothetical protein, struc	99.78
2yum_A	75	ZZZ3 protein, zinc finger ZZ-type-containing prote	99.77
1w0t_A	53	Telomeric repeat binding factor 1; telomere, DNA-b	99.77
3sjm_A	64	Telomeric repeat-binding factor 2; human telomeric	99.77
2elk_A	58	SPCC24B10.08C protein; hypothetical protein, struc	99.75
2ckx_A	83	NGTRF1, telomere binding protein TBP1; nuclear pro	99.74
2yum_A	75	ZZZ3 protein, zinc finger ZZ-type-containing prote	99.73
2din_A	66	Cell division cycle 5-like protein; MYB_DNA-bindin	99.71
2cu7_A	72	KIAA1915 protein; nuclear protein, SANT domain, DN	99.7
2ltp_A	89	Nuclear receptor corepressor 2; SMRT, TRAC, SGC, s	99.52
3osg_A	126	MYB21; transcription-DNA complex, MYB2, R2R3 domai	99.68
1gv2_A	105	C-MYB, MYB proto-oncogene protein; transcription,	99.67
2yus_A	79	SWI/SNF-related matrix-associated actin- dependent	99.66
2cqr_A	73	RSGI RUH-043, DNAJ homolog subfamily C member 1; m	99.65
2k9n_A	107	MYB24; R2R3 domain, DNA-binding, nucleus, DNA bind	99.65
2llk_A	73	Cyclin-D-binding MYB-like transcription factor 1;	99.64
2aje_A	105	Telomere repeat-binding protein; DNA-binding, Trp,	99.64
2yus_A	79	SWI/SNF-related matrix-associated actin- dependent	99.63
3zqc_A	131	MYB3; transcription-DNA complex, DNA-binding prote	99.62
2cqr_A	73	RSGI RUH-043, DNAJ homolog subfamily C member 1; m	99.6
2ckx_A	83	NGTRF1, telomere binding protein TBP1; nuclear pro	99.58
2aje_A	105	Telomere repeat-binding protein; DNA-binding, Trp,	99.56
2juh_A	121	Telomere binding protein TBP1; helix, nucleus, nuc	99.55
2ltp_A	89	Nuclear receptor corepressor 2; SMRT, TRAC, SGC, s	99.31
1x58_A	62	Hypothetical protein 4930532D21RIK; MUS musculus a	99.54
2cjj_A	93	Radialis; plant development, DNA-binding protein,	99.51
2roh_A	122	RTBP1, telomere binding protein-1; plant, nucleus,	99.5
2cjj_A	93	Radialis; plant development, DNA-binding protein,	99.5
1ign_A	246	Protein (RAP1); RAP1,yeast,telomeres,homoeodomain,	99.49
2eqr_A	61	N-COR1, N-COR, nuclear receptor corepressor 1; SAN	99.42
1x58_A	62	Hypothetical protein 4930532D21RIK; MUS musculus a	99.4
2eqr_A	61	N-COR1, N-COR, nuclear receptor corepressor 1; SAN	99.35
2cqq_A	72	RSGI RUH-037, DNAJ homolog subfamily C member 1; m	99.25
1wgx_A	73	KIAA1903 protein; MYB DNA-binding domain, human cD	99.24
3hm5_A	93	DNA methyltransferase 1-associated protein 1; DNA	99.23
2cqq_A	72	RSGI RUH-037, DNAJ homolog subfamily C member 1; m	99.19
2xag_B	482	REST corepressor 1; amine oxidase, chromatin regul	99.14
2iw5_B	235	Protein corest, REST corepressor 1; oxidoreductase	99.11
2iw5_B	235	Protein corest, REST corepressor 1; oxidoreductase	99.11
1fex_A	59	TRF2-interacting telomeric RAP1 protein; helix tur	99.1
1wgx_A	73	KIAA1903 protein; MYB DNA-binding domain, human cD	99.1
1ofc_X	304	ISWI protein; nuclear protein, chromatin remodelin	99.02
4eef_G	74	F-HB80.4, designed hemagglutinin binding protein;	98.84
4eef_G	74	F-HB80.4, designed hemagglutinin binding protein;	98.77
2yqk_A	63	Arginine-glutamic acid dipeptide repeats protein;	98.71
3hm5_A	93	DNA methyltransferase 1-associated protein 1; DNA	98.7
1fex_A	59	TRF2-interacting telomeric RAP1 protein; helix tur	98.67
2yqk_A	63	Arginine-glutamic acid dipeptide repeats protein;	98.67
2crg_A	70	Metastasis associated protein MTA3; transcription	98.65
4a69_C	94	Nuclear receptor corepressor 2; transcription, hyd	98.6
2xag_B	482	REST corepressor 1; amine oxidase, chromatin regul	98.6
2lr8_A	70	CAsp8-associated protein 2; structural genomics, n	97.97
1ug2_A	95	2610100B20RIK gene product; hypothetical protein,	98.52
4iej_A	93	DNA methyltransferase 1-associated protein 1; DNA	98.48
2y9y_A	374	Imitation switch protein 1 (DEL_ATPase); transcrip	98.41
4a69_C	94	Nuclear receptor corepressor 2; transcription, hyd	98.37
2crg_A	70	Metastasis associated protein MTA3; transcription	98.33
4b4c_A	211	Chromodomain-helicase-DNA-binding protein 1; chrom	98.29
1ug2_A	95	2610100B20RIK gene product; hypothetical protein,	98.23
2ebi_A	86	DNA binding protein GT-1; DNA-binding domain, phos	98.07
2lr8_A	70	CAsp8-associated protein 2; structural genomics, n	97.32
2ebi_A	86	DNA binding protein GT-1; DNA-binding domain, phos	98.03
4iej_A	93	DNA methyltransferase 1-associated protein 1; DNA	97.85
1irz_A	64	ARR10-B; helix-turn-helix, DNA binding protein; NM	97.13
2xb0_X	270	Chromo domain-containing protein 1; hydrolase, DNA	96.99
4b4c_A	211	Chromodomain-helicase-DNA-binding protein 1; chrom	96.79
1ofc_X	304	ISWI protein; nuclear protein, chromatin remodelin	96.43
1irz_A	64	ARR10-B; helix-turn-helix, DNA binding protein; NM	96.31
2xb0_X	270	Chromo domain-containing protein 1; hydrolase, DNA	94.56
2y9y_A	374	Imitation switch protein 1 (DEL_ATPase); transcrip	94.07
2rq5_A	121	Protein jumonji; developmental protein, nucleus, r	91.25
2li6_A	116	SWI/SNF chromatin-remodeling complex subunit SWI1;	90.83
2jrz_A	117	Histone demethylase jarid1C; bright/ARID domain, h	87.59
2lm1_A	107	Lysine-specific demethylase LID; structural genomi	86.95
1ig6_A	107	MRF-2, modulator recognition factor 2; DNA binding	86.8
2jxj_A	96	Histone demethylase jarid1A; ARID domain, chromati	85.8
1kkx_A	123	Transcription regulatory protein ADR6; ARID, DNA-b	85.18
2cxy_A	125	BAF250B subunit, HBAF250B; DNA-binding domain, str	84.99
2p1m_A	160	SKP1-like protein 1A; F-BOX, leucine rich repeat,	84.35
2jvw_A	88	Uncharacterized protein; solution structure, alpha	83.89
2eqy_A	122	RBP2 like, jumonji, at rich interactive domain 1B;	83.37
2o8x_A	70	Probable RNA polymerase sigma-C factor; promoter r	83.19
1c20_A	128	DEAD ringer protein; DNA-binding domain, ARID, AT-	82.19
1ku3_A	73	Sigma factor SIGA; helix-turn-helix, transcription	81.24
2kk0_A	145	AT-rich interactive domain-containing protein 3A;	80.38
3v7d_A	169	Suppressor of kinetochore protein 1; WD 40 domain,	80.33

>2k9n_A MYB24; R2R3 domain, DNA-binding, nucleus, DNA binding protein; NMR {Trichomonas vaginalis} PDB: 2kdz_A

Probab=100.00  E-value=2.6e-40  Score=206.76  Aligned_cols=102  Identities=25%  Similarity=0.554  Sum_probs=98.3

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCCcchhcccc-
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAP-   80 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-   80 (108)
                      .+||+|||++|+++|..||.++|..||..||+||+.||++||.++|+|++++++||+|||..|+++|..||++|+.||+ 
T Consensus         2 ~~Wt~eED~~L~~~v~~~g~~~W~~Ia~~~~~Rt~~qcr~Rw~~~L~p~i~~~~WT~eEd~~L~~~~~~~G~~W~~Ia~~   81 (107)
T 2k9n_A            2 VKFTEEEDLKLQQLVMRYGAKDWIRISQLMITRNPRQCRERWNNYINPALRTDPWSPEEDMLLDQKYAEYGPKWNKISKF   81 (107)
T ss_dssp             CSSCHHHHHHHHHHHHHHCSSCHHHHHHHTTTSCHHHHHHHHHHHSSSCCTTCCCCHHHHHHHHHHHHHTCSCHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHCCCCHHHHhhhcCCCCHHHHHHHHHHHHcccccccccCHHHHHHHHHHHHHhCcCHHHHHHH
Confidence            6899999999999999999889999999999999999999999999999999999999999999999999999999999 


Q ss_pred             ccCCCHHHHHHHHHHHHhHHHhh
Q psy15548         81 IIGRTAAQCLERYEFLLYRARRK  103 (108)
Q Consensus        81 ~~gRt~~q~~~r~~~~~~~~~~~  103 (108)
                      |||||+.||++||..++++..+.
T Consensus        82 l~gRt~~~~k~rw~~l~r~~~~~  104 (107)
T 2k9n_A           82 LKNRSDNNIRNRWMMIARHRAKH  104 (107)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHSS
T ss_pred             CCCCCHHHHHHHHHHHHhhHHHh
Confidence            99999999999999999886553

>1gv2_A C-MYB, MYB proto-oncogene protein; transcription, DNA binding, ION binding; 1.68A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 PDB: 1mse_C* 1msf_C* 1a5j_A 1idy_A 1idz_A 1mbj_A 1mbk_A

Probab=100.00  E-value=8.3e-40  Score=203.67  Aligned_cols=99  Identities=32%  Similarity=0.569  Sum_probs=95.0

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCCcchhcccc-
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAP-   80 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-   80 (108)
                      .|||+|||++|+++|..||.++|..||..||+||+.||++||.++|+|.+++++||+|||..|+++|..||++|+.||+ 
T Consensus         5 ~~WT~eED~~L~~~v~~~g~~~W~~Ia~~l~~Rt~~qcr~Rw~~~l~p~~~~~~Wt~eEd~~L~~~~~~~G~~W~~Ia~~   84 (105)
T 1gv2_A            5 GPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAHKRLGNRWAEIAKL   84 (105)
T ss_dssp             SCCCHHHHHHHHHHHHHHCTTCHHHHHTTSTTCCHHHHHHHHHHTTCCCCCCCCCCHHHHHHHHHHHHHHSSCHHHHHTT
T ss_pred             CCCCHHHHHHHHHHHHHhCCCcHHHHhhhhcCCCHHHHHHHHHhccCCcccccCCCHHHHHHHHHHHHHhCCCHHHHHHH
Confidence            5899999999999999999889999999999999999999999999999999999999999999999999999999999 


Q ss_pred             ccCCCHHHHHHHHHHHHhHH
Q psy15548         81 IIGRTAAQCLERYEFLLYRA  100 (108)
Q Consensus        81 ~~gRt~~q~~~r~~~~~~~~  100 (108)
                      |||||+.||++||..++++.
T Consensus        85 l~gRt~~~~k~rw~~~~~~~  104 (105)
T 1gv2_A           85 LPGRTDNAIKNHWNSTMRRK  104 (105)
T ss_dssp             CTTCCHHHHHHHHHHHTC--
T ss_pred             cCCCCHHHHHHHHHHHHhcc
Confidence            99999999999999998764

>3zqc_A MYB3; transcription-DNA complex, DNA-binding protein, nucleus; 2.90A {Trichomonas vaginalis}

Probab=100.00  E-value=9.2e-40  Score=210.68  Aligned_cols=103  Identities=31%  Similarity=0.596  Sum_probs=99.7

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCCcchhcccc-
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAP-   80 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-   80 (108)
                      .|||+|||++|+.+|..||.++|..||..||+||+.||++||.++|+|.+++++||+|||..|+++|..||++|+.||+ 
T Consensus         3 g~Wt~eED~~L~~~v~~~g~~~W~~Ia~~~~~Rt~~qcr~Rw~~~l~p~~~~~~Wt~eEd~~L~~~~~~~G~~W~~Ia~~   82 (131)
T 3zqc_A            3 GPFTEAEDDLIREYVKENGPQNWPRITSFLPNRSPKQCRERWFNHLDPAVVKHAWTPEEDETIFRNYLKLGSKWSVIAKL   82 (131)
T ss_dssp             SSCCHHHHHHHHHHHHHHCSCCGGGGTTSCTTSCHHHHHHHHHHHTSTTCCCSCCCHHHHHHHHHHHHHSCSCHHHHTTT
T ss_pred             CCCCHHHHHHHHHHHHHhCcCCHHHHHHHHCCCCHHHHHHHHhhccCccccCCCCCHHHHHHHHHHHHHHCcCHHHHHHH
Confidence            6999999999999999999889999999999999999999999999999999999999999999999999999999999 


Q ss_pred             ccCCCHHHHHHHHHHHHhHHHhhh
Q psy15548         81 IIGRTAAQCLERYEFLLYRARRKA  104 (108)
Q Consensus        81 ~~gRt~~q~~~r~~~~~~~~~~~~  104 (108)
                      |+|||+.||++||++++++.++.+
T Consensus        83 l~gRt~~~~k~rw~~~l~~~~~~~  106 (131)
T 3zqc_A           83 IPGRTDNAIKNRWNSSISKRISTN  106 (131)
T ss_dssp             STTCCHHHHHHHHHHTTGGGCCCC
T ss_pred             cCCCCHHHHHHHHHHHHHHHhhcC
Confidence            999999999999999999987654

>3osg_A MYB21; transcription-DNA complex, MYB2, R2R3 domain, DNA binding PR transcription factor; 2.00A {Trichomonas vaginalis} PDB: 3osf_A

Probab=100.00  E-value=1.9e-38  Score=203.40  Aligned_cols=98  Identities=35%  Similarity=0.587  Sum_probs=95.2

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCCcchhcccc-
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAP-   80 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-   80 (108)
                      .+||+|||++|+++|..||. +|..||..||+|++.||++||.++|+|.+++++||+|||..|+++|.+||++|+.||+ 
T Consensus        12 ~~WT~eED~~L~~~v~~~G~-~W~~Ia~~~~~Rt~~qcr~Rw~~~l~p~~~~~~WT~eEd~~L~~~v~~~G~~W~~Ia~~   90 (126)
T 3osg_A           12 QKFTPEEDEMLKRAVAQHGS-DWKMIAATFPNRNARQCRDRWKNYLAPSISHTPWTAEEDALLVQKIQEYGRQWAIIAKF   90 (126)
T ss_dssp             CCCCHHHHHHHHHHHHHHTT-CHHHHHHTCTTCCHHHHHHHHHHHTSTTSCCSCCCHHHHHHHHHHHHHHCSCHHHHHTT
T ss_pred             CCCCHHHHHHHHHHHHHhCC-CHHHHHHHcCCCCHHHHHHHHhhhcccccccccCCHHHHHHHHHHHHHHCcCHHHHHHH
Confidence            58999999999999999997 9999999999999999999999999999999999999999999999999999999999 


Q ss_pred             ccCCCHHHHHHHHHHHHhHH
Q psy15548         81 IIGRTAAQCLERYEFLLYRA  100 (108)
Q Consensus        81 ~~gRt~~q~~~r~~~~~~~~  100 (108)
                      ++|||+.+|++||..++++.
T Consensus        91 l~gRt~~~~k~rw~~l~~k~  110 (126)
T 3osg_A           91 FPGRTDIHIKNRWVTISNKL  110 (126)
T ss_dssp             STTCCHHHHHHHHHHHHHHT
T ss_pred             cCCCCHHHHHHHHHHHHHhc
Confidence            99999999999999998764

>1h8a_C AMV V-MYB, MYB transforming protein; transcription/DNA; 2.23A {Avian myeloblastosis virus} SCOP: a.4.1.3 a.4.1.3

Probab=100.00  E-value=3e-38  Score=202.83  Aligned_cols=99  Identities=32%  Similarity=0.581  Sum_probs=95.3

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCCcchhcccc-
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAP-   80 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-   80 (108)
                      .|||+|||+.|+++|..||.++|..||..||+||+.||++||.++|+|.+++++||+|||..|++++.+||++|+.||+ 
T Consensus        28 ~~Wt~eED~~L~~~v~~~g~~~W~~Ia~~l~~Rt~~qcr~Rw~~~l~p~~~~~~WT~eEd~~L~~~~~~~G~~W~~Ia~~  107 (128)
T 1h8a_C           28 GPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAHKRLGNRWAEIAKL  107 (128)
T ss_dssp             SCCCHHHHHHHHHHHHHTCSCCHHHHHHHSSSCCHHHHHHHHHHTTCSSSCCSCCCHHHHHHHHHHHHHHCSCHHHHGGG
T ss_pred             CCCCHHHHHHHHHHHHHHCCCCHHHHHHHhcCCcHHHHHHHHHHhcccccccccCCHHHHHHHHHHHHHHCcCHHHHHHH
Confidence            5899999999999999999878999999999999999999999999999999999999999999999999999999999 


Q ss_pred             ccCCCHHHHHHHHHHHHhHH
Q psy15548         81 IIGRTAAQCLERYEFLLYRA  100 (108)
Q Consensus        81 ~~gRt~~q~~~r~~~~~~~~  100 (108)
                      +||||+.+|++||..++++.
T Consensus       108 l~gRt~~~~k~r~~~~~~~~  127 (128)
T 1h8a_C          108 LPGRTDNAVKNHWNSTMRRK  127 (128)
T ss_dssp             STTCCHHHHHHHHHTTTTC-
T ss_pred             CCCCCHHHHHHHHHHHHhcc
Confidence            99999999999999988764

>1h89_C C-MYB, MYB proto-oncogene protein; transcription/DNA; 2.45A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 a.4.1.3 PDB: 1h88_C

Probab=100.00  E-value=1.1e-35  Score=196.99  Aligned_cols=99  Identities=32%  Similarity=0.569  Sum_probs=95.3

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCCcchhcccc-
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAP-   80 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-   80 (108)
                      .|||+|||+.|+.+|..||.++|..||..||+||+.||+.||.++|+|.+++++||++||..|++++..||++|+.||+ 
T Consensus        59 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~l~~Rt~~qcr~Rw~~~l~p~~~~~~WT~eEd~~L~~~~~~~g~~W~~Ia~~  138 (159)
T 1h89_C           59 GPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAHKRLGNRWAEIAKL  138 (159)
T ss_dssp             SCCCHHHHHHHHHHHHHHCSCCHHHHHHTSTTCCHHHHHHHHHHTTCTTSCCSCCCHHHHHHHHHHHHHHCSCHHHHHTT
T ss_pred             CCCChHHHHHHHHHHHHhCcccHHHHHHHcCCCCHHHHHHHHHHHhCccccccCCChHHHHHHHHHHHHHCCCHHHHHHH
Confidence            5899999999999999999878999999999999999999999999999999999999999999999999999999999 


Q ss_pred             ccCCCHHHHHHHHHHHHhHH
Q psy15548         81 IIGRTAAQCLERYEFLLYRA  100 (108)
Q Consensus        81 ~~gRt~~q~~~r~~~~~~~~  100 (108)
                      |||||+.+|++||..++++.
T Consensus       139 l~gRt~~~~knr~~~~~r~~  158 (159)
T 1h89_C          139 LPGRTDNAIKNHWNSTMRRK  158 (159)
T ss_dssp             STTCCHHHHHHHHHTTTCC-
T ss_pred             CCCCCHHHHHHHHHHHHhcc
Confidence            99999999999999988753

>1h89_C C-MYB, MYB proto-oncogene protein; transcription/DNA; 2.45A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 a.4.1.3 PDB: 1h88_C

Probab=100.00  E-value=8.5e-37  Score=202.33  Aligned_cols=103  Identities=32%  Similarity=0.606  Sum_probs=63.6

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCCc-chhcccc
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPT-QWRTIAP   80 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g~-~W~~Ia~   80 (108)
                      .+||+|||+.|.++|..||.++|..||..||+|++.||++||.++|+|++++++||++||..|+.+|..||. +|..||.
T Consensus         7 ~~Wt~eED~~L~~~v~~~g~~~W~~Ia~~l~~Rt~~qcr~Rw~~~l~p~~~~~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~   86 (159)
T 1h89_C            7 TRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNPELIKGPWTKEEDQRVIKLVQKYGPKRWSVIAK   86 (159)
T ss_dssp             ------------------------------------CHHHHHHTTTCTTCCCSCCCHHHHHHHHHHHHHHCSCCHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCHHHHHHHcCCCCHHHHHHHHHHccCCCcCCCCCChHHHHHHHHHHHHhCcccHHHHHH
Confidence            489999999999999999988999999999999999999999999999999999999999999999999995 7999999


Q ss_pred             -ccCCCHHHHHHHHHHHHhHHHhhh
Q psy15548         81 -IIGRTAAQCLERYEFLLYRARRKA  104 (108)
Q Consensus        81 -~~gRt~~q~~~r~~~~~~~~~~~~  104 (108)
                       ++|||+.||++||.++++|.++++
T Consensus        87 ~l~~Rt~~qcr~Rw~~~l~p~~~~~  111 (159)
T 1h89_C           87 HLKGRIGKQCRERWHNHLNPEVKKT  111 (159)
T ss_dssp             TSTTCCHHHHHHHHHHTTCTTSCCS
T ss_pred             HcCCCCHHHHHHHHHHHhCcccccc
Confidence             999999999999999999877654

>1h8a_C AMV V-MYB, MYB transforming protein; transcription/DNA; 2.23A {Avian myeloblastosis virus} SCOP: a.4.1.3 a.4.1.3

Probab=99.93  E-value=2.6e-27  Score=151.81  Aligned_cols=78  Identities=28%  Similarity=0.661  Sum_probs=53.7

Q ss_pred             HHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCCc-chhcccc-ccCCCHHHHHHHHHHHHhHHHhhh
Q psy15548         27 IASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPT-QWRTIAP-IIGRTAAQCLERYEFLLYRARRKA  104 (108)
Q Consensus        27 Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g~-~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~~~~  104 (108)
                      ||+.||+||+.||+.||.++|+|++++++||+|||+.|+++|..||. +|..||. ++|||+.||++||.++++|.++++
T Consensus         1 Ia~~~~~Rt~~qC~~Rw~~~l~p~~~k~~Wt~eED~~L~~~v~~~g~~~W~~Ia~~l~~Rt~~qcr~Rw~~~l~p~~~~~   80 (128)
T 1h8a_C            1 MEAVIKNRTDVQCQHRWQKVLNPELNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKGRIGKQCRERWHNHLNPEVKKT   80 (128)
T ss_dssp             ---------------------CTTCCCSCCCHHHHHHHHHHHHHTCSCCHHHHHHHSSSCCHHHHHHHHHHTTCSSSCCS
T ss_pred             CccccCCCCHHHHHHHHHHhhCCCCCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHhcCCcHHHHHHHHHHhcccccccc
Confidence            78999999999999999999999999999999999999999999995 7999999 999999999999999999877654

>2dim_A Cell division cycle 5-like protein; MYB_DNA-binding domain, cell cycle, DNA binding, spliceosome, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.92  E-value=9.1e-26  Score=130.94  Aligned_cols=60  Identities=80%  Similarity=1.207  Sum_probs=58.3

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHH
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREED   61 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd   61 (108)
                      .+||+|||++|+++|.+||.++|..||..||+||+.||+.||.++|+|.+++++||++||
T Consensus        10 ~~Wt~eED~~L~~~v~~~G~~~W~~Ia~~l~~Rt~~qcr~Rw~~~L~p~i~~~~wt~eEd   69 (70)
T 2dim_A           10 GVWRNTEDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSGPSS   69 (70)
T ss_dssp             CCCCHHHHHHHHHHHHHTCSSCHHHHHHHSTTCCHHHHHHHHHHTSCSSSCCCCSCCSCC
T ss_pred             CCCCHHHHHHHHHHHHHHCcCCHHHHHHHhcCCCHHHHHHHHHHHcCCcccCCCCChHhc
Confidence            489999999999999999977999999999999999999999999999999999999997

>1ign_A Protein (RAP1); RAP1,yeast,telomeres,homoeodomain, DNA binding protein/DNA complex; HET: DNA; 2.25A {Saccharomyces cerevisiae} SCOP: a.4.1.6 a.4.1.6 PDB: 3ukg_A

Probab=99.86  E-value=5.6e-22  Score=137.08  Aligned_cols=99  Identities=17%  Similarity=0.230  Sum_probs=88.4

Q ss_pred             CCCcHHHHHHHHHHHHHhCCC-----CHHHHHHHhCCCCHHHHHHHhhhhcCCCCc------------------------
Q psy15548          2 LKTMTIVDEILKAAVMKYGKN-----QWSRIASLLHRKSAKQCKARWFEWLDPSIK------------------------   52 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~-----~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~------------------------   52 (108)
                      .+||+|||+.|+++|.++|..     .|++||..|||||+.||+.||+.+|.+.++                        
T Consensus         9 ~~FT~EED~~Ile~v~k~Gn~r~ghk~W~~IAk~LpGRT~nsIRnRw~~~L~~~ln~vy~~ded~~Li~d~~Gn~ikis~   88 (246)
T 1ign_A            9 ASFTDEEDEFILDVVRKNPTRRTTHTLYDEISHYVPNHTGNSIRHRFRVYLSKRLEYVYEVDKFGKLVRDDDGNLIKTKV   88 (246)
T ss_dssp             CCCCHHHHHHHHHHHHTSGGGTTCSHHHHHHTTTSTTSCHHHHHHHHHHTTGGGCCCEECBCTTSCBCBCTTSCBCEESS
T ss_pred             CCCCHHHHHHHHHHHHHhCcCccccccHHHHHHHcCCCCHHHHHHHHHHHHhhhcccccccCcchhhhhccCCCceeeec
Confidence            489999999999999999863     299999999999999999999999998886                        


Q ss_pred             -----ccCCCHHHHHHHHHHHhh-C--------------------------------Cc---------------------
Q psy15548         53 -----KTEWSREEDEKLLHLAKL-M--------------------------------PT---------------------   73 (108)
Q Consensus        53 -----~~~Wt~eEd~~L~~~v~~-~--------------------------------g~---------------------   73 (108)
                           +..||.+||-.|...+.+ +                                |.                     
T Consensus        89 lp~siK~rftaeeDy~L~~~i~~~f~~~~~~~d~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~gp  168 (246)
T 1ign_A           89 LPPSIKRKFSADEDYTLAIAVKKQFYRDLFQIDPDTGRSLITDEDTPTAIARRNMTMDPNHVPGSEPNFAAYRTQSRRGP  168 (246)
T ss_dssp             CCCCSCCCCCHHHHHHHHHHHHHHHHHHHHCBCSSSCCBCC-------------------------------CCCCCCCC
T ss_pred             cCccccCccchhccHHHHHHHHHHHhhhhhhcCccccccccccccchhhhhhhhcccCccccccCCcchhhhccccccCc
Confidence                 789999999999998865 1                                11                     


Q ss_pred             ----chhcccc-ccCCCHHHHHHHHHHHHhHH
Q psy15548         74 ----QWRTIAP-IIGRTAAQCLERYEFLLYRA  100 (108)
Q Consensus        74 ----~W~~Ia~-~~gRt~~q~~~r~~~~~~~~  100 (108)
                          .|..||+ +|+||..+.|+||..+++..
T Consensus       169 ~~~~~fk~ia~~~P~HT~~SWRdRyrKfl~~~  200 (246)
T 1ign_A          169 IAREFFKHFAEEHAAHTENAWRDRFRKFLLAY  200 (246)
T ss_dssp             CCTTHHHHHHHHTTTSCHHHHHHHHHHTHHHH
T ss_pred             chHHHHHHHHHHCCCCChhhHHHHHHHHHhhc
Confidence                6999999 99999999999999888765

>2din_A Cell division cycle 5-like protein; MYB_DNA-binding domain, cell cycle, DNA binding, spliceosome, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.85  E-value=7.3e-22  Score=113.19  Aligned_cols=60  Identities=77%  Similarity=1.128  Sum_probs=57.3

Q ss_pred             hcCCCCcccCCCHHHHHHHHHHHhhCCcchhccccccCCCHHHHHHHHHHHHhHHHhhhh
Q psy15548         46 WLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRARRKAV  105 (108)
Q Consensus        46 ~l~~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~~~~  105 (108)
                      +|+|.+++++||+|||.+|++++..+|.+|..||.++|||+.||++||.+++++.++++.
T Consensus         2 ~L~P~~~k~~WT~eED~~L~~~~~~~g~~W~~Ia~~~gRt~~qcr~Rw~~~l~~~~~~~~   61 (66)
T 2din_A            2 SSGSSGKKTEWSREEEEKLLHLAKLMPTQWRTIAPIIGRTAAQCLEHYEFLLDKAAQRDS   61 (66)
T ss_dssp             CCSSSSSCCCCCHHHHHHHHHHHHHCTTCHHHHHHHHSSCHHHHHHHHHHHHHHHHHSSS
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHcCCCHHHHhcccCcCHHHHHHHHHHHhChHhcCCC
Confidence            689999999999999999999999999999999999999999999999999999998763

>2juh_A Telomere binding protein TBP1; helix, nucleus, nuclear protein; NMR {Nicotiana glutinosa}

Probab=99.84  E-value=3.4e-21  Score=121.70  Aligned_cols=77  Identities=14%  Similarity=0.200  Sum_probs=72.1

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHh----CCCCHHHHHHHhhhhcC-----CCCccc-CCCHHHHHHHHHHHhhC
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLL----HRKSAKQCKARWFEWLD-----PSIKKT-EWSREEDEKLLHLAKLM   71 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~----~~R~~~qc~~rw~~~l~-----~~~~~~-~Wt~eEd~~L~~~v~~~   71 (108)
                      .|||+|||+.|+++|++||.++|+.|+..+    ++||..+|++||++++.     |.++++ +|+++|+..|+.+...+
T Consensus        18 ~~WT~EEd~~L~~gV~k~G~G~W~~Ia~~~~~~f~~RT~v~lKdRWrnllk~~~~~p~~krg~~~p~e~~~rv~~~h~~~   97 (121)
T 2juh_A           18 RPFSVAEVEALVEAVEHLGTGRWRDVKMRAFDNADHRTYVDLKDKWKTLVHTASIAPQQRRGEPVPQDLLDRVLAAHAYW   97 (121)
T ss_dssp             CCCCHHHHHHHHHHHHHHGGGCHHHHHHHHCSCCSSCCSHHHHHHHHHHHHHHHTCSTTCCCSCCCHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHCCCCHHHHHHHhccccCCCCHHHHHHHHHHHHhhhccCCcccCCCCCCHHHHHHHHHHHHHH
Confidence            589999999999999999999999999985    89999999999999987     888888 99999999999999999


Q ss_pred             Ccchhcc
Q psy15548         72 PTQWRTI   78 (108)
Q Consensus        72 g~~W~~I   78 (108)
                      |++|..-
T Consensus        98 gn~~~~~  104 (121)
T 2juh_A           98 SQQQGKQ  104 (121)
T ss_dssp             HHHHCCS
T ss_pred             ccchhcc
Confidence            9999773

>2llk_A Cyclin-D-binding MYB-like transcription factor 1; helix bundle, SGC, structural genomics consortium, NESG, NOR structural genomics consortium; NMR {Homo sapiens}

Probab=99.83  E-value=1.9e-21  Score=113.25  Aligned_cols=60  Identities=22%  Similarity=0.292  Sum_probs=46.7

Q ss_pred             HHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHHHHh
Q psy15548         38 QCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEFLLY   98 (108)
Q Consensus        38 qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~~~   98 (108)
                      ...-||.++|+|++++++||+|||++|++++.++|++|+.||+ + |||+.||++||..+.+
T Consensus         8 ~~~~~~~~~ldP~i~k~~wT~EED~~L~~l~~~~G~kW~~IA~~l-gRt~~q~knRw~~L~~   68 (73)
T 2llk_A            8 SSGRENLYFQGDRNHVGKYTPEEIEKLKELRIKHGNDWATIGAAL-GRSASSVKDRCRLMKD   68 (73)
T ss_dssp             -----------CCCCCCSSCHHHHHHHHHHHHHHSSCHHHHHHHH-TSCHHHHHHHHHHCSC
T ss_pred             ccCcceeeecCCCCCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence            4456899999999999999999999999999999999999999 8 9999999999987543

>1guu_A C-MYB, MYB proto-oncogene protein; transcription, transcription regulation, DNA binding, ION bindi proto-oncogene, nuclear protein, activator; 1.6A {Mus musculus} SCOP: a.4.1.3 PDB: 1mbe_A 1mbf_A

Probab=99.83  E-value=9.5e-21  Score=103.73  Aligned_cols=49  Identities=33%  Similarity=0.575  Sum_probs=47.1

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCC
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPS   50 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~   50 (108)
                      .+||+|||++|+++|..||.++|..||..||+||+.||+.||.++|+|+
T Consensus         4 ~~Wt~eED~~L~~~v~~~G~~~W~~Ia~~~~~Rt~~qcr~Rw~~~L~P~   52 (52)
T 1guu_A            4 TRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNPE   52 (52)
T ss_dssp             CCCCHHHHHHHHHHHHHHCSSCHHHHHHTSTTCCHHHHHHHHHHHHSCC
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCHHHHHHHcCCCCHHHHHHHHHHHcCcC
Confidence            5899999999999999999889999999999999999999999999984

>2d9a_A B-MYB, MYB-related protein B; DNA binding, structural genomics, unknown function, NPPSFA; NMR {Mus musculus}

Probab=99.83  E-value=1.6e-20  Score=105.69  Aligned_cols=51  Identities=29%  Similarity=0.558  Sum_probs=48.7

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCCc
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIK   52 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~   52 (108)
                      .+||+|||++|+++|.+||.++|..||..||+||+.||++||.++|+|.++
T Consensus         9 ~~Wt~eED~~L~~~v~~~G~~~W~~Ia~~~~~Rt~~qcr~Rw~~~l~p~i~   59 (60)
T 2d9a_A            9 VKWTHEEDEQLRALVRQFGQQDWKFLASHFPNRTDQQCQYRWLRVLSGPSS   59 (60)
T ss_dssp             SCCCHHHHHHHHHHHHHTCTTCHHHHHHHCSSSCHHHHHHHHHHTSCSSSC
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCHHHHHHHccCCCHHHHHHHHHHHcCCccC
Confidence            589999999999999999977999999999999999999999999999865

>1gvd_A MYB proto-oncogene protein; transcription, transcription regulation, C-MYB, DNA binding, ION binding, nuclear protein; 1.45A {Mus musculus} SCOP: a.4.1.3 PDB: 1gv5_A 1mbg_A 1mbh_A

Probab=99.83  E-value=1.1e-20  Score=103.57  Aligned_cols=49  Identities=37%  Similarity=0.609  Sum_probs=46.9

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCC
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPS   50 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~   50 (108)
                      .+||+|||++|+++|..||.++|..||..||+||+.||+.||.++|+|+
T Consensus         4 ~~Wt~eED~~L~~~v~~~G~~~W~~Ia~~~~~Rt~~qcr~Rw~~~L~P~   52 (52)
T 1gvd_A            4 GPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPE   52 (52)
T ss_dssp             CSCCHHHHHHHHHHHHHHCTTCHHHHHTTSTTCCHHHHHHHHHHTTSCC
T ss_pred             CCCCHHHHHHHHHHHHHHCcChHHHHHHHcCCCCHHHHHHHHHHHcCcC
Confidence            5899999999999999999878999999999999999999999999984

>2roh_A RTBP1, telomere binding protein-1; plant, nucleus, DNA binding protein; NMR {Oryza sativa}

Probab=99.83  E-value=1.9e-20  Score=118.45  Aligned_cols=73  Identities=16%  Similarity=0.265  Sum_probs=67.9

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHh----CCCCHHHHHHHhhhhc-----CCCCcccCCCHHH-HHHHHHHHhhC
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLL----HRKSAKQCKARWFEWL-----DPSIKKTEWSREE-DEKLLHLAKLM   71 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~----~~R~~~qc~~rw~~~l-----~~~~~~~~Wt~eE-d~~L~~~v~~~   71 (108)
                      .|||+|||+.|+++|++||.++|+.|+..+    ++||..+|++||++++     +|.++++.|+++| +..|+++...+
T Consensus        32 ~~WT~EEd~~L~~gV~k~G~g~W~~I~~~~~~~~~~RT~vdlKdRWrnllk~~~~~p~~kr~~~~p~e~~~~v~~~h~~~  111 (122)
T 2roh_A           32 RPFTVAEVELLVEAVEHLGTGRWRDVKFRAFENVHHRTYVDLKDKWKTLVHTASIAPQQRRGAPVPQELLDRVLAAQAYW  111 (122)
T ss_dssp             CCCCHHHHHHHHHHHHHHSSSCHHHHHHHHHSSSCCCCHHHHHHHHHHHHHHHHSCTTTCCCSSCCHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHCCCChHHHHHHhccccCCCCHHHHHHHHHHHHhhccCCccccCCCCCCHHHHHHHHHHHHHH
Confidence            589999999999999999999999999874    7999999999999998     8999999999999 88899999888


Q ss_pred             Ccc
Q psy15548         72 PTQ   74 (108)
Q Consensus        72 g~~   74 (108)
                      |+.
T Consensus       112 g~~  114 (122)
T 2roh_A          112 SVD  114 (122)
T ss_dssp             HSS
T ss_pred             hhH
Confidence            863

>2d9a_A B-MYB, MYB-related protein B; DNA binding, structural genomics, unknown function, NPPSFA; NMR {Mus musculus}

Probab=99.83  E-value=4.1e-21  Score=108.13  Aligned_cols=55  Identities=31%  Similarity=0.512  Sum_probs=51.4

Q ss_pred             CCCCcccCCCHHHHHHHHHHHhhCC-cchhcccc-ccCCCHHHHHHHHHHHHhHHHh
Q psy15548         48 DPSIKKTEWSREEDEKLLHLAKLMP-TQWRTIAP-IIGRTAAQCLERYEFLLYRARR  102 (108)
Q Consensus        48 ~~~~~~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~~  102 (108)
                      +|.+++++||+|||++|+++|.+|| ++|..||. |+|||+.||++||.++++|.++
T Consensus         3 ~p~~~k~~Wt~eED~~L~~~v~~~G~~~W~~Ia~~~~~Rt~~qcr~Rw~~~l~p~i~   59 (60)
T 2d9a_A            3 SGSSGKVKWTHEEDEQLRALVRQFGQQDWKFLASHFPNRTDQQCQYRWLRVLSGPSS   59 (60)
T ss_dssp             SCCCCCSCCCHHHHHHHHHHHHHTCTTCHHHHHHHCSSSCHHHHHHHHHHTSCSSSC
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHhCCCCHHHHHHHccCCCHHHHHHHHHHHcCCccC
Confidence            5778999999999999999999999 69999999 9999999999999999998753

>1ity_A TRF1; helix-turn-helix, telomeres, DNA binding, MYB domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Homo sapiens} SCOP: a.4.1.4 PDB: 1iv6_A

Probab=99.81  E-value=3e-20  Score=107.30  Aligned_cols=56  Identities=21%  Similarity=0.345  Sum_probs=52.6

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhC--CCCHHHHHHHhhhhcCCCCcccCCC
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLH--RKSAKQCKARWFEWLDPSIKKTEWS   57 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~--~R~~~qc~~rw~~~l~~~~~~~~Wt   57 (108)
                      .+||+|||+.|+++|.+||.++|..||..|+  +||+.||++||.++|+|.+.++..+
T Consensus        11 ~~WT~eED~~L~~~v~~~G~~~W~~Ia~~~~~~~Rt~~qcr~Rw~~~l~p~i~k~~~~   68 (69)
T 1ity_A           11 QAWLWEEDKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRWRTMKKLKLISSDSE   68 (69)
T ss_dssp             CCCCHHHHHHHHHHHHHHCSSCHHHHHHHSCCSSCCHHHHHHHHHHHHHTSCCCCCCC
T ss_pred             CCCCHHHHHHHHHHHHHHCCCcHHHHHHHcCcCCCCHHHHHHHHHHHcCCCCCCCCCC
Confidence            5899999999999999999889999999999  9999999999999999999887653

>2cu7_A KIAA1915 protein; nuclear protein, SANT domain, DNA binding, regulation of transcription, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3

Probab=99.81  E-value=2.4e-20  Score=108.55  Aligned_cols=59  Identities=19%  Similarity=0.175  Sum_probs=55.3

Q ss_pred             cCCCCcccCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHHHHhHHHhhhh
Q psy15548         47 LDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEFLLYRARRKAV  105 (108)
Q Consensus        47 l~~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~~~~~  105 (108)
                      .+|.+++++||+|||++|+++|..||.+|..||. |+|||+.||++||+.++++..+.++
T Consensus         3 ~~p~~~~~~WT~eEd~~l~~~~~~~G~~W~~Ia~~~~~Rt~~q~k~r~~~~l~~~~~~g~   62 (72)
T 2cu7_A            3 SGSSGYSVKWTIEEKELFEQGLAKFGRRWTKISKLIGSRTVLQVKSYARQYFKNKVKCGL   62 (72)
T ss_dssp             CCCSSCCCCCCHHHHHHHHHHHHHTCSCHHHHHHHHSSSCHHHHHHHHHHHHHHHSCSCT
T ss_pred             CCCCcCCCCCCHHHHHHHHHHHHHHCcCHHHHHHHcCCCCHHHHHHHHHHHHHHHHhcCC
Confidence            5788999999999999999999999999999999 9999999999999999999877654

>3sjm_A Telomeric repeat-binding factor 2; human telomeric repeat binding protein 2, telomere, telomeri homeodomain proteins amino acid sequence; HET: DNA; 1.35A {Homo sapiens} PDB: 1xg1_A 1vfc_A 1vf9_A 1w0u_A

Probab=99.81  E-value=3.9e-20  Score=105.33  Aligned_cols=51  Identities=27%  Similarity=0.399  Sum_probs=47.6

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhC--CCCHHHHHHHhhhhcCCCCc
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLH--RKSAKQCKARWFEWLDPSIK   52 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~--~R~~~qc~~rw~~~l~~~~~   52 (108)
                      .+||+|||+.|+++|.+||.++|..||+.+|  +||+.||++||++++.|+++
T Consensus        12 ~~WT~eED~~L~~~V~~~G~~~W~~Ia~~~~~~~Rt~~qcr~Rw~nl~k~glN   64 (64)
T 3sjm_A           12 QKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKRLGMN   64 (64)
T ss_dssp             CCCCHHHHHHHHHHHHHHCTTCHHHHHHHSCCSSCCHHHHHHHHHHHHHTTCC
T ss_pred             CCCCHHHHHHHHHHHHccCCCchHHHHhhcCCCCCCHHHHHHHHHHHhccCCC
Confidence            5899999999999999999889999999976  99999999999999988764

>1guu_A C-MYB, MYB proto-oncogene protein; transcription, transcription regulation, DNA binding, ION bindi proto-oncogene, nuclear protein, activator; 1.6A {Mus musculus} SCOP: a.4.1.3 PDB: 1mbe_A 1mbf_A

Probab=99.81  E-value=1.9e-20  Score=102.50  Aligned_cols=49  Identities=43%  Similarity=0.724  Sum_probs=45.5

Q ss_pred             CcccCCCHHHHHHHHHHHhhCCc-chhcccc-ccCCCHHHHHHHHHHHHhH
Q psy15548         51 IKKTEWSREEDEKLLHLAKLMPT-QWRTIAP-IIGRTAAQCLERYEFLLYR   99 (108)
Q Consensus        51 ~~~~~Wt~eEd~~L~~~v~~~g~-~W~~Ia~-~~gRt~~q~~~r~~~~~~~   99 (108)
                      +++++||+|||..|+++|..||. +|..||. |+|||+.||++||.++++|
T Consensus         1 i~~~~Wt~eED~~L~~~v~~~G~~~W~~Ia~~~~~Rt~~qcr~Rw~~~L~P   51 (52)
T 1guu_A            1 LGKTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNP   51 (52)
T ss_dssp             --CCCCCHHHHHHHHHHHHHHCSSCHHHHHHTSTTCCHHHHHHHHHHHHSC
T ss_pred             CCCCCCCHHHHHHHHHHHHHhCCCCHHHHHHHcCCCCHHHHHHHHHHHcCc
Confidence            36789999999999999999997 9999999 9999999999999999987

>2dim_A Cell division cycle 5-like protein; MYB_DNA-binding domain, cell cycle, DNA binding, spliceosome, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.80  E-value=2e-20  Score=108.29  Aligned_cols=57  Identities=30%  Similarity=0.380  Sum_probs=53.5

Q ss_pred             CCCCcccCCCHHHHHHHHHHHhhCC-cchhcccc-ccCCCHHHHHHHHHHHHhHHHhhh
Q psy15548         48 DPSIKKTEWSREEDEKLLHLAKLMP-TQWRTIAP-IIGRTAAQCLERYEFLLYRARRKA  104 (108)
Q Consensus        48 ~~~~~~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~~~~  104 (108)
                      .|.+++++||++||.+|+++|..|| ++|..||. |+|||+.||++||.++|+|.++++
T Consensus         4 ~~~~k~~~Wt~eED~~L~~~v~~~G~~~W~~Ia~~l~~Rt~~qcr~Rw~~~L~p~i~~~   62 (70)
T 2dim_A            4 GSSGKGGVWRNTEDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKT   62 (70)
T ss_dssp             CSCSTTCCCCHHHHHHHHHHHHHTCSSCHHHHHHHSTTCCHHHHHHHHHHTSCSSSCCC
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHCcCCHHHHHHHhcCCCHHHHHHHHHHHcCCcccCC
Confidence            4678899999999999999999999 79999999 999999999999999999988765

>1gvd_A MYB proto-oncogene protein; transcription, transcription regulation, C-MYB, DNA binding, ION binding, nuclear protein; 1.45A {Mus musculus} SCOP: a.4.1.3 PDB: 1gv5_A 1mbg_A 1mbh_A

Probab=99.80  E-value=3.1e-20  Score=101.69  Aligned_cols=49  Identities=35%  Similarity=0.684  Sum_probs=46.2

Q ss_pred             CcccCCCHHHHHHHHHHHhhCCc-chhcccc-ccCCCHHHHHHHHHHHHhH
Q psy15548         51 IKKTEWSREEDEKLLHLAKLMPT-QWRTIAP-IIGRTAAQCLERYEFLLYR   99 (108)
Q Consensus        51 ~~~~~Wt~eEd~~L~~~v~~~g~-~W~~Ia~-~~gRt~~q~~~r~~~~~~~   99 (108)
                      +++++||+|||..|+++|..||. +|..||. ++|||+.||++||.++|+|
T Consensus         1 l~k~~Wt~eED~~L~~~v~~~G~~~W~~Ia~~~~~Rt~~qcr~Rw~~~L~P   51 (52)
T 1gvd_A            1 LIKGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNP   51 (52)
T ss_dssp             CCCCSCCHHHHHHHHHHHHHHCTTCHHHHHTTSTTCCHHHHHHHHHHTTSC
T ss_pred             CCCCCCCHHHHHHHHHHHHHHCcChHHHHHHHcCCCCHHHHHHHHHHHcCc
Confidence            46899999999999999999996 7999999 9999999999999999987

>1x41_A Transcriptional adaptor 2-like, isoform B; transcriptional adaptor protein2, transcriptional activation, MYB domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1

Probab=99.80  E-value=1.6e-19  Score=101.63  Aligned_cols=50  Identities=18%  Similarity=0.385  Sum_probs=47.0

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCC
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSI   51 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~   51 (108)
                      .+||+|||++|+++|..||.++|..||..||+||+.||+.||.++|.+..
T Consensus         9 ~~WT~eED~~L~~~v~~~G~~~W~~Ia~~~~~Rt~~qcr~r~~~~l~~~~   58 (60)
T 1x41_A            9 PSWTAQEEMALLEAVMDCGFGNWQDVANQMCTKTKEECEKHYMKYFSGPS   58 (60)
T ss_dssp             SSSCHHHHHHHHHHHHHTCTTCHHHHHHHHTTSCHHHHHHHHHHHTTCSS
T ss_pred             CCCCHHHHHHHHHHHHHHCcCcHHHHHHHhCCCCHHHHHHHHHHHccCCC
Confidence            48999999999999999997799999999999999999999999998753

>1w0t_A Telomeric repeat binding factor 1; telomere, DNA-binding protein, homeodomain, mitosis, cell cycle; 2.00A {Homo sapiens} SCOP: a.4.1.4 PDB: 1ba5_A

Probab=99.78  E-value=3.5e-19  Score=97.86  Aligned_cols=47  Identities=26%  Similarity=0.413  Sum_probs=44.8

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhC--CCCHHHHHHHhhhhcC
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLH--RKSAKQCKARWFEWLD   48 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~--~R~~~qc~~rw~~~l~   48 (108)
                      .|||+|||+.|+++|..||.++|+.||..||  +||+.||++||.+++.
T Consensus         3 ~~WT~eEd~~L~~~v~~~G~~~W~~Ia~~~~~~~Rt~~qcr~Rw~~~~k   51 (53)
T 1w0t_A            3 QAWLWEEDKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRWRTMKK   51 (53)
T ss_dssp             CCCCHHHHHHHHHHHHHHCTTCHHHHHHHSCCSSCCHHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCCCHHHHHHHHHHHHc
Confidence            5899999999999999999889999999999  9999999999999865

>1x41_A Transcriptional adaptor 2-like, isoform B; transcriptional adaptor protein2, transcriptional activation, MYB domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1

Probab=99.78  E-value=2e-19  Score=101.24  Aligned_cols=53  Identities=19%  Similarity=0.367  Sum_probs=48.9

Q ss_pred             CCCCcccCCCHHHHHHHHHHHhhCC-cchhcccc-ccCCCHHHHHHHHHHHHhHH
Q psy15548         48 DPSIKKTEWSREEDEKLLHLAKLMP-TQWRTIAP-IIGRTAAQCLERYEFLLYRA  100 (108)
Q Consensus        48 ~~~~~~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~~gRt~~q~~~r~~~~~~~~  100 (108)
                      ++.+.+++||++||.+|+++|..|| ++|..||+ ++|||+.||++||.+++.+.
T Consensus         3 s~~~~~~~WT~eED~~L~~~v~~~G~~~W~~Ia~~~~~Rt~~qcr~r~~~~l~~~   57 (60)
T 1x41_A            3 SGSSGDPSWTAQEEMALLEAVMDCGFGNWQDVANQMCTKTKEECEKHYMKYFSGP   57 (60)
T ss_dssp             CCCCCCSSSCHHHHHHHHHHHHHTCTTCHHHHHHHHTTSCHHHHHHHHHHHTTCS
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHCcCcHHHHHHHhCCCCHHHHHHHHHHHccCC
Confidence            4678899999999999999999999 79999999 99999999999999988653

>1ity_A TRF1; helix-turn-helix, telomeres, DNA binding, MYB domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Homo sapiens} SCOP: a.4.1.4 PDB: 1iv6_A

Probab=99.78  E-value=1.3e-19  Score=104.62  Aligned_cols=58  Identities=19%  Similarity=0.234  Sum_probs=52.8

Q ss_pred             cCCCCcccCCCHHHHHHHHHHHhhCC-cchhcccc-cc--CCCHHHHHHHHHHHHhHHHhhh
Q psy15548         47 LDPSIKKTEWSREEDEKLLHLAKLMP-TQWRTIAP-II--GRTAAQCLERYEFLLYRARRKA  104 (108)
Q Consensus        47 l~~~~~~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~~--gRt~~q~~~r~~~~~~~~~~~~  104 (108)
                      .++...+++||+|||+.|+++|..|| ++|..||. ++  |||+.||++||.+++++.+.+.
T Consensus         4 ~~~~~~r~~WT~eED~~L~~~v~~~G~~~W~~Ia~~~~~~~Rt~~qcr~Rw~~~l~p~i~k~   65 (69)
T 1ity_A            4 KHRARKRQAWLWEEDKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRWRTMKKLKLISS   65 (69)
T ss_dssp             TTCSSSCCCCCHHHHHHHHHHHHHHCSSCHHHHHHHSCCSSCCHHHHHHHHHHHHHTSCCCC
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHCCCcHHHHHHHcCcCCCCHHHHHHHHHHHcCCCCCCC
Confidence            35667889999999999999999999 69999999 98  9999999999999999987654

>2elk_A SPCC24B10.08C protein; hypothetical protein, structural genomics, NPPSFA; NMR {Schizosaccharomyces pombe}

Probab=99.78  E-value=4.6e-19  Score=99.06  Aligned_cols=46  Identities=15%  Similarity=0.313  Sum_probs=43.6

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhC-CCCHHHHHHHhhhhc
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLH-RKSAKQCKARWFEWL   47 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~-~R~~~qc~~rw~~~l   47 (108)
                      .+||+|||++|+++|++||.++|..||..|| +||+.||+.||.+++
T Consensus        10 ~~WT~eED~~L~~~v~~~G~~~W~~IA~~~~~~Rt~~qcr~r~~~~~   56 (58)
T 2elk_A           10 ENWGADEELLLIDACETLGLGNWADIADYVGNARTKEECRDHYLKTY   56 (58)
T ss_dssp             CCCCHHHHHHHHHHHHHTTTTCHHHHHHHHCSSCCHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHHCcCCHHHHHHHHCCCCCHHHHHHHHHHHc
Confidence            4899999999999999999779999999999 999999999999875

>2yum_A ZZZ3 protein, zinc finger ZZ-type-containing protein 3; transcription, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.77  E-value=2.4e-19  Score=104.99  Aligned_cols=59  Identities=25%  Similarity=0.398  Sum_probs=54.8

Q ss_pred             CCCCcccCCCHHHHHHHHHHHhhCC------cchhcccc-ccCCCHHHHHHHHHHHHhHHHhhhhh
Q psy15548         48 DPSIKKTEWSREEDEKLLHLAKLMP------TQWRTIAP-IIGRTAAQCLERYEFLLYRARRKAVQ  106 (108)
Q Consensus        48 ~~~~~~~~Wt~eEd~~L~~~v~~~g------~~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~~~~~~  106 (108)
                      +|.+.+++||+|||.+|+++|..||      .+|..||. |+|||+.||++||++++.+.++.+..
T Consensus         3 ~p~~~~~~WT~eEd~~L~~~v~~~g~~~~~~~~W~~IA~~~~~Rt~~qcr~r~~~~l~~~~k~g~~   68 (75)
T 2yum_A            3 SGSSGNQLWTVEEQKKLEQLLIKYPPEEVESRRWQKIADELGNRTAKQVASQVQKYFIKLTKAGIP   68 (75)
T ss_dssp             CCCCCSSCCCHHHHHHHHHHHHHSCCCSCHHHHHHHHHHHHSSSCHHHHHHHHHHHHGGGSTTCSC
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHhCCCCCCcccHHHHHHHhCCCCHHHHHHHHHHHHHHHHhcCCC
Confidence            5778899999999999999999999      79999999 99999999999999999998887754

>1w0t_A Telomeric repeat binding factor 1; telomere, DNA-binding protein, homeodomain, mitosis, cell cycle; 2.00A {Homo sapiens} SCOP: a.4.1.4 PDB: 1ba5_A

Probab=99.77  E-value=3.4e-19  Score=97.90  Aligned_cols=47  Identities=23%  Similarity=0.358  Sum_probs=44.4

Q ss_pred             cccCCCHHHHHHHHHHHhhCC-cchhcccc-cc--CCCHHHHHHHHHHHHh
Q psy15548         52 KKTEWSREEDEKLLHLAKLMP-TQWRTIAP-II--GRTAAQCLERYEFLLY   98 (108)
Q Consensus        52 ~~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~~--gRt~~q~~~r~~~~~~   98 (108)
                      ++++||+|||+.|+++|..|| ++|..||. ++  |||+.||++||.++++
T Consensus         1 kr~~WT~eEd~~L~~~v~~~G~~~W~~Ia~~~~~~~Rt~~qcr~Rw~~~~k   51 (53)
T 1w0t_A            1 KRQAWLWEEDKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRWRTMKK   51 (53)
T ss_dssp             CCCCCCHHHHHHHHHHHHHHCTTCHHHHHHHSCCSSCCHHHHHHHHHHHHT
T ss_pred             CCCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCCCHHHHHHHHHHHHc
Confidence            368999999999999999999 69999999 88  9999999999999986

>3sjm_A Telomeric repeat-binding factor 2; human telomeric repeat binding protein 2, telomere, telomeri homeodomain proteins amino acid sequence; HET: DNA; 1.35A {Homo sapiens} PDB: 1xg1_A 1vfc_A 1vf9_A 1w0u_A

Probab=99.77  E-value=2e-19  Score=102.39  Aligned_cols=51  Identities=24%  Similarity=0.307  Sum_probs=46.4

Q ss_pred             CcccCCCHHHHHHHHHHHhhCC-cchhcccc-cc--CCCHHHHHHHHHHHHhHHH
Q psy15548         51 IKKTEWSREEDEKLLHLAKLMP-TQWRTIAP-II--GRTAAQCLERYEFLLYRAR  101 (108)
Q Consensus        51 ~~~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~~--gRt~~q~~~r~~~~~~~~~  101 (108)
                      .++++||+|||+.|+++|.+|| ++|..||+ ++  |||+.||++||.+++++.+
T Consensus         9 ~kk~~WT~eED~~L~~~V~~~G~~~W~~Ia~~~~~~~Rt~~qcr~Rw~nl~k~gl   63 (64)
T 3sjm_A            9 TKKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKRLGM   63 (64)
T ss_dssp             -CCCCCCHHHHHHHHHHHHHHCTTCHHHHHHHSCCSSCCHHHHHHHHHHHHHTTC
T ss_pred             CCCCCCCHHHHHHHHHHHHccCCCchHHHHhhcCCCCCCHHHHHHHHHHHhccCC
Confidence            4678999999999999999999 59999998 65  9999999999999998865

>2elk_A SPCC24B10.08C protein; hypothetical protein, structural genomics, NPPSFA; NMR {Schizosaccharomyces pombe}

Probab=99.75  E-value=1.8e-18  Score=96.64  Aligned_cols=50  Identities=22%  Similarity=0.411  Sum_probs=45.5

Q ss_pred             CCCCcccCCCHHHHHHHHHHHhhCC-cchhcccc-cc-CCCHHHHHHHHHHHH
Q psy15548         48 DPSIKKTEWSREEDEKLLHLAKLMP-TQWRTIAP-II-GRTAAQCLERYEFLL   97 (108)
Q Consensus        48 ~~~~~~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~~-gRt~~q~~~r~~~~~   97 (108)
                      +..+.+++||++||.+|+++|.+|| ++|..||+ ++ |||+.||++||.+++
T Consensus         4 ~~p~~~~~WT~eED~~L~~~v~~~G~~~W~~IA~~~~~~Rt~~qcr~r~~~~~   56 (58)
T 2elk_A            4 GSSGFDENWGADEELLLIDACETLGLGNWADIADYVGNARTKEECRDHYLKTY   56 (58)
T ss_dssp             CCCSCCCCCCHHHHHHHHHHHHHTTTTCHHHHHHHHCSSCCHHHHHHHHHHHT
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHCcCCHHHHHHHHCCCCCHHHHHHHHHHHc
Confidence            3456688999999999999999999 89999999 88 899999999998764

>2ckx_A NGTRF1, telomere binding protein TBP1; nuclear protein; 1.9A {Nicotiana tabacum} SCOP: a.4.1.3 PDB: 2qhb_A

Probab=99.74  E-value=1.5e-17  Score=98.96  Aligned_cols=68  Identities=15%  Similarity=0.244  Sum_probs=58.4

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHH----hCCCCHHHHHHHhhhhc-----CCCCcc-cCCCHHHHHHHHHHHh
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASL----LHRKSAKQCKARWFEWL-----DPSIKK-TEWSREEDEKLLHLAK   69 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~----~~~R~~~qc~~rw~~~l-----~~~~~~-~~Wt~eEd~~L~~~v~   69 (108)
                      -|||+|||+.|+++|++||.++|+.|+..    |++||+.+|++||++++     +|..++ .+.+++....++.+..
T Consensus         1 r~WT~eEd~~L~~gv~k~G~g~W~~I~~~~~~~~~~RT~~~lKdrWrnllk~~~~~p~~~~~~~~p~~~~~rv~~~~a   78 (83)
T 2ckx_A            1 RPFSVAEVEALVEAVEHLGTGRWRDVKMRAFDNADHRTYVDLKDKWKTLVHTASIAPQQRRGEPVPQDLLDRVLAAHA   78 (83)
T ss_dssp             CCCCHHHHHHHHHHHHHHCSSCHHHHHHHHCTTCTTSCHHHHHHHHHHHHHHHHSCGGGCCSSCCCHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHCCCCcHHHHHhhccccCCCCHHHHHHHHHHHHHhccCCcccccCCCCCHHHHHHHHHHHH
Confidence            38999999999999999999999999996    88999999999999987     565555 4777887787777653

>2yum_A ZZZ3 protein, zinc finger ZZ-type-containing protein 3; transcription, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.73  E-value=4.3e-18  Score=99.61  Aligned_cols=53  Identities=21%  Similarity=0.265  Sum_probs=48.6

Q ss_pred             CCCcHHHHHHHHHHHHHhCC-----CCHHHHHHHhCCCCHHHHHHHhhhhcCCCCccc
Q psy15548          2 LKTMTIVDEILKAAVMKYGK-----NQWSRIASLLHRKSAKQCKARWFEWLDPSIKKT   54 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~-----~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~   54 (108)
                      .+||+|||++|+++|..||.     ++|..||.+||+||+.||+.||+++|.+.++.|
T Consensus         9 ~~WT~eEd~~L~~~v~~~g~~~~~~~~W~~IA~~~~~Rt~~qcr~r~~~~l~~~~k~g   66 (75)
T 2yum_A            9 QLWTVEEQKKLEQLLIKYPPEEVESRRWQKIADELGNRTAKQVASQVQKYFIKLTKAG   66 (75)
T ss_dssp             SCCCHHHHHHHHHHHHHSCCCSCHHHHHHHHHHHHSSSCHHHHHHHHHHHHGGGSTTC
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCCCcccHHHHHHHhCCCCHHHHHHHHHHHHHHHHhcC
Confidence            48999999999999999995     699999999999999999999999998766554

>2din_A Cell division cycle 5-like protein; MYB_DNA-binding domain, cell cycle, DNA binding, spliceosome, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.71  E-value=3.1e-18  Score=97.94  Aligned_cols=51  Identities=22%  Similarity=0.258  Sum_probs=46.7

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCCccc
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKT   54 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~   54 (108)
                      .+||+|||++|+++|..||. +|..||. ++|||+.||+.||.++|+|.++++
T Consensus        10 ~~WT~eED~~L~~~~~~~g~-~W~~Ia~-~~gRt~~qcr~Rw~~~l~~~~~~~   60 (66)
T 2din_A           10 TEWSREEEEKLLHLAKLMPT-QWRTIAP-IIGRTAAQCLEHYEFLLDKAAQRD   60 (66)
T ss_dssp             CCCCHHHHHHHHHHHHHCTT-CHHHHHH-HHSSCHHHHHHHHHHHHHHHHHSS
T ss_pred             CCCCHHHHHHHHHHHHHcCC-CHHHHhc-ccCcCHHHHHHHHHHHhChHhcCC
Confidence            58999999999999999997 9999999 889999999999999998865543

>2cu7_A KIAA1915 protein; nuclear protein, SANT domain, DNA binding, regulation of transcription, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3

Probab=99.70  E-value=1.4e-17  Score=96.73  Aligned_cols=51  Identities=20%  Similarity=0.437  Sum_probs=46.7

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCCcc
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKK   53 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~   53 (108)
                      .+||+|||++|+++|..||. +|..||.+||+||+.||+.||..++.+..+.
T Consensus        10 ~~WT~eEd~~l~~~~~~~G~-~W~~Ia~~~~~Rt~~q~k~r~~~~l~~~~~~   60 (72)
T 2cu7_A           10 VKWTIEEKELFEQGLAKFGR-RWTKISKLIGSRTVLQVKSYARQYFKNKVKC   60 (72)
T ss_dssp             CCCCHHHHHHHHHHHHHTCS-CHHHHHHHHSSSCHHHHHHHHHHHHHHHSCS
T ss_pred             CCCCHHHHHHHHHHHHHHCc-CHHHHHHHcCCCCHHHHHHHHHHHHHHHHhc
Confidence            58999999999999999997 9999999999999999999999988765443

>2ltp_A Nuclear receptor corepressor 2; SMRT, TRAC, SGC, structural genomics consortium, NESG, north structural genomics consortium; NMR {Homo sapiens}

Probab=99.52  E-value=1.9e-18  Score=104.25  Aligned_cols=55  Identities=20%  Similarity=0.180  Sum_probs=51.5

Q ss_pred             hcCCCCcccCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHHHHhHH
Q psy15548         46 WLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEFLLYRA  100 (108)
Q Consensus        46 ~l~~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~~~~~  100 (108)
                      .++|++..++||++||.+|+++|..||.+|..||. ++|||+.||++||.+++++.
T Consensus         9 ~~~p~~~~~~WT~eEd~~l~~~~~~~G~~W~~IA~~l~gRt~~q~k~r~~~~lrk~   64 (89)
T 2ltp_A            9 SGRENLYFQGWTEEEMGTAKKGLLEHGRNWSAIARMVGSKTVSQCKNFYFNYKKRQ   64 (89)
Confidence            45778899999999999999999999999999999 99999999999999998765

>3osg_A MYB21; transcription-DNA complex, MYB2, R2R3 domain, DNA binding PR transcription factor; 2.00A {Trichomonas vaginalis} PDB: 3osf_A

Probab=99.68  E-value=1.6e-17  Score=105.90  Aligned_cols=57  Identities=28%  Similarity=0.419  Sum_probs=52.3

Q ss_pred             CCCCcccCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHHHHhHHHhhh
Q psy15548         48 DPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEFLLYRARRKA  104 (108)
Q Consensus        48 ~~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~~~~  104 (108)
                      .+..++++||+|||+.|+++|..||.+|..||. ++|||+.||++||.++++|.++++
T Consensus         6 ~~~~kk~~WT~eED~~L~~~v~~~G~~W~~Ia~~~~~Rt~~qcr~Rw~~~l~p~~~~~   63 (126)
T 3osg_A            6 LKAAKKQKFTPEEDEMLKRAVAQHGSDWKMIAATFPNRNARQCRDRWKNYLAPSISHT   63 (126)
T ss_dssp             -CBCSSCCCCHHHHHHHHHHHHHHTTCHHHHHHTCTTCCHHHHHHHHHHHTSTTSCCS
T ss_pred             cCCCCCCCCCHHHHHHHHHHHHHhCCCHHHHHHHcCCCCHHHHHHHHhhhcccccccc
Confidence            456788999999999999999999999999999 899999999999999999887654

>1gv2_A C-MYB, MYB proto-oncogene protein; transcription, DNA binding, ION binding; 1.68A {Mus musculus} SCOP: a.4.1.3 a.4.1.3 PDB: 1mse_C* 1msf_C* 1a5j_A 1idy_A 1idz_A 1mbj_A 1mbk_A

Probab=99.67  E-value=1.8e-17  Score=102.53  Aligned_cols=54  Identities=31%  Similarity=0.635  Sum_probs=50.0

Q ss_pred             CcccCCCHHHHHHHHHHHhhCCc-chhcccc-ccCCCHHHHHHHHHHHHhHHHhhh
Q psy15548         51 IKKTEWSREEDEKLLHLAKLMPT-QWRTIAP-IIGRTAAQCLERYEFLLYRARRKA  104 (108)
Q Consensus        51 ~~~~~Wt~eEd~~L~~~v~~~g~-~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~~~~  104 (108)
                      +.+++||+|||+.|+++|..||. +|..||. ++|||+.||++||.++++|.++++
T Consensus         2 l~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~l~~Rt~~qcr~Rw~~~l~p~~~~~   57 (105)
T 1gv2_A            2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKT   57 (105)
T ss_dssp             CCCSCCCHHHHHHHHHHHHHHCTTCHHHHHTTSTTCCHHHHHHHHHHTTCCCCCCC
T ss_pred             CCCCCCCHHHHHHHHHHHHHhCCCcHHHHhhhhcCCCHHHHHHHHHhccCCccccc
Confidence            67899999999999999999996 7999999 899999999999999999876654

>2yus_A SWI/SNF-related matrix-associated actin- dependent regulator of chromatin subfamily...; SWI/SNF complex 155 kDa subunit, BRG1-associated factor 155; NMR {Homo sapiens}

Probab=99.66  E-value=1.2e-16  Score=94.28  Aligned_cols=44  Identities=11%  Similarity=0.337  Sum_probs=42.4

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhh
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEW   46 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~   46 (108)
                      .+||+|||.+|+++|+.|| ++|..||.+|++||+.||+.||.++
T Consensus        19 ~~WT~eEd~~Ll~~v~~~G-~~W~~IA~~v~~RT~~qcr~r~~~~   62 (79)
T 2yus_A           19 REWTEQETLLLLEALEMYK-DDWNKVSEHVGSRTQDECILHFLRL   62 (79)
T ss_dssp             CCCCHHHHHHHHHHHHHSS-SCHHHHHHHHSSCCHHHHHHHHTTS
T ss_pred             CCcCHHHHHHHHHHHHHhC-CCHHHHHHHcCCCCHHHHHHHHHHh
Confidence            4899999999999999999 6999999999999999999999987

>2cqr_A RSGI RUH-043, DNAJ homolog subfamily C member 1; membrane protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3

Probab=99.65  E-value=1.7e-16  Score=92.25  Aligned_cols=51  Identities=20%  Similarity=0.511  Sum_probs=46.3

Q ss_pred             CCCcccCCCHHHHHHHHHHHhhCC----cchhcccc-ccCCCHHHHHHHHHHHHhH
Q psy15548         49 PSIKKTEWSREEDEKLLHLAKLMP----TQWRTIAP-IIGRTAAQCLERYEFLLYR   99 (108)
Q Consensus        49 ~~~~~~~Wt~eEd~~L~~~v~~~g----~~W~~Ia~-~~gRt~~q~~~r~~~~~~~   99 (108)
                      +...+++||++||.+|+.++..||    .+|..||. +||||+.||++||..++..
T Consensus        14 ~~~~~~~WT~eEd~~L~~al~~~g~~~~~rW~~IA~~vpGRT~~qcr~Ry~~L~~d   69 (73)
T 2cqr_A           14 ARSAEEPWTQNQQKLLELALQQYPRGSSDCWDKIARCVPSKSKEDCIARYKLLVSG   69 (73)
T ss_dssp             TTCSSCCCCHHHHHHHHHHHHHSCSSSHHHHHHHGGGCSSSCHHHHHHHHHHHHSS
T ss_pred             cccCCCCCCHHHHHHHHHHHHHcCCCCCchHHHHHHHcCCCCHHHHHHHHHHHHHc
Confidence            345678999999999999999999    68999999 9999999999999998764

>2k9n_A MYB24; R2R3 domain, DNA-binding, nucleus, DNA binding protein; NMR {Trichomonas vaginalis} PDB: 2kdz_A

Probab=99.65  E-value=5.3e-17  Score=100.83  Aligned_cols=52  Identities=33%  Similarity=0.515  Sum_probs=48.3

Q ss_pred             ccCCCHHHHHHHHHHHhhCCc-chhcccc-ccCCCHHHHHHHHHHHHhHHHhhh
Q psy15548         53 KTEWSREEDEKLLHLAKLMPT-QWRTIAP-IIGRTAAQCLERYEFLLYRARRKA  104 (108)
Q Consensus        53 ~~~Wt~eEd~~L~~~v~~~g~-~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~~~~  104 (108)
                      +++||+|||+.|+++|..||. +|..||. ++|||+.||+.||.++++|.++++
T Consensus         1 K~~Wt~eED~~L~~~v~~~g~~~W~~Ia~~~~~Rt~~qcr~Rw~~~L~p~i~~~   54 (107)
T 2k9n_A            1 KVKFTEEEDLKLQQLVMRYGAKDWIRISQLMITRNPRQCRERWNNYINPALRTD   54 (107)
T ss_dssp             CCSSCHHHHHHHHHHHHHHCSSCHHHHHHHTTTSCHHHHHHHHHHHSSSCCTTC
T ss_pred             CCCCCHHHHHHHHHHHHHHCCCCHHHHhhhcCCCCHHHHHHHHHHHHccccccc
Confidence            479999999999999999995 8999999 899999999999999999987654

>2llk_A Cyclin-D-binding MYB-like transcription factor 1; helix bundle, SGC, structural genomics consortium, NESG, NOR structural genomics consortium; NMR {Homo sapiens}

Probab=99.64  E-value=4.9e-16  Score=90.27  Aligned_cols=48  Identities=27%  Similarity=0.278  Sum_probs=42.7

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCCc
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIK   52 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~   52 (108)
                      .|||+|||++|+++|.+||. .|+.||+.| |||+.||+.||.. |....+
T Consensus        24 ~~wT~EED~~L~~l~~~~G~-kW~~IA~~l-gRt~~q~knRw~~-L~~~~~   71 (73)
T 2llk_A           24 GKYTPEEIEKLKELRIKHGN-DWATIGAAL-GRSASSVKDRCRL-MKDTCN   71 (73)
T ss_dssp             CSSCHHHHHHHHHHHHHHSS-CHHHHHHHH-TSCHHHHHHHHHH-CSCCCS
T ss_pred             CCCCHHHHHHHHHHHHHHCC-CHHHHHHHh-CCCHHHHHHHHHH-HHHHcc
Confidence            58999999999999999997 799999999 9999999999986 444433

>2aje_A Telomere repeat-binding protein; DNA-binding, Trp, MYB motif, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: a.4.1.3

Probab=99.64  E-value=2.2e-16  Score=97.48  Aligned_cols=70  Identities=19%  Similarity=0.230  Sum_probs=59.7

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHh----CCCCHHHHHHHhhhhc-----CCCCcccCCCHHHHHH-HHHHHhhC
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLL----HRKSAKQCKARWFEWL-----DPSIKKTEWSREEDEK-LLHLAKLM   71 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~----~~R~~~qc~~rw~~~l-----~~~~~~~~Wt~eEd~~-L~~~v~~~   71 (108)
                      .|||+|||+.|+++|++||.++|+.|+..+    ++||+.+|++||++++     +|.+++|.=+++|-.. ++++...+
T Consensus        14 ~~WT~EEd~~L~~gV~k~G~g~W~~I~~~~~~~f~~RT~v~lKdrWrnllk~~~~~p~~~rg~~~P~~~l~rv~~~~~~~   93 (105)
T 2aje_A           14 RPFSVAEVEALVQAVEKLGTGRWRDVKLCAFEDADHRTYVDLKDKWKTLVHTAKISPQQRRGEPVPQELLNRVLNAHGYW   93 (105)
T ss_dssp             CSCCHHHHHHHHHHHHHHCSSSHHHHHSSSSSSTTCCCHHHHHHHHHHHHHTTTCCTTTTTCCSCCCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHhCCCChHHHHHHhccccCCCCHHHHHHHHHHHHhhccCCcccccCCCCCHHHHHHHHHHHHHH
Confidence            589999999999999999999999999865    7999999999999988     6888888777777654 56655443

>2yus_A SWI/SNF-related matrix-associated actin- dependent regulator of chromatin subfamily...; SWI/SNF complex 155 kDa subunit, BRG1-associated factor 155; NMR {Homo sapiens}

Probab=99.63  E-value=2e-16  Score=93.34  Aligned_cols=47  Identities=21%  Similarity=0.488  Sum_probs=43.9

Q ss_pred             CCcccCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHHH
Q psy15548         50 SIKKTEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEFL   96 (108)
Q Consensus        50 ~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~   96 (108)
                      ...+++||++||.+|+++|..||.+|..||+ ++|||+.||+.||.++
T Consensus        15 ~~~~~~WT~eEd~~Ll~~v~~~G~~W~~IA~~v~~RT~~qcr~r~~~~   62 (79)
T 2yus_A           15 ASAGREWTEQETLLLLEALEMYKDDWNKVSEHVGSRTQDECILHFLRL   62 (79)
T ss_dssp             SCCSCCCCHHHHHHHHHHHHHSSSCHHHHHHHHSSCCHHHHHHHHTTS
T ss_pred             cccCCCcCHHHHHHHHHHHHHhCCCHHHHHHHcCCCCHHHHHHHHHHh
Confidence            3457899999999999999999999999999 8999999999999876

>3zqc_A MYB3; transcription-DNA complex, DNA-binding protein, nucleus; 2.90A {Trichomonas vaginalis}

Probab=99.62  E-value=2e-16  Score=101.42  Aligned_cols=57  Identities=25%  Similarity=0.370  Sum_probs=53.1

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHH
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSRE   59 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~e   59 (108)
                      .+||+|||+.|+.+|..||. +|..||..|||||+.||+.||..++.+.+..++|+.+
T Consensus        55 ~~Wt~eEd~~L~~~~~~~G~-~W~~Ia~~l~gRt~~~~k~rw~~~l~~~~~~~~~~~~  111 (131)
T 3zqc_A           55 HAWTPEEDETIFRNYLKLGS-KWSVIAKLIPGRTDNAIKNRWNSSISKRISTNSNHKE  111 (131)
T ss_dssp             SCCCHHHHHHHHHHHHHSCS-CHHHHTTTSTTCCHHHHHHHHHHTTGGGCCCCTTSCC
T ss_pred             CCCCHHHHHHHHHHHHHHCc-CHHHHHHHcCCCCHHHHHHHHHHHHHHHhhcCCCccc
Confidence            58999999999999999996 9999999999999999999999999998888887654

>2cqr_A RSGI RUH-043, DNAJ homolog subfamily C member 1; membrane protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3

Probab=99.60  E-value=4.3e-16  Score=90.53  Aligned_cols=47  Identities=23%  Similarity=0.400  Sum_probs=43.5

Q ss_pred             CCCcHHHHHHHHHHHHHhCC---CCHHHHHHHhCCCCHHHHHHHhhhhcC
Q psy15548          2 LKTMTIVDEILKAAVMKYGK---NQWSRIASLLHRKSAKQCKARWFEWLD   48 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~---~~W~~Ia~~~~~R~~~qc~~rw~~~l~   48 (108)
                      .+||++||.+|+.++..||.   ++|..||.+|||||..||+.||..++.
T Consensus        19 ~~WT~eEd~~L~~al~~~g~~~~~rW~~IA~~vpGRT~~qcr~Ry~~L~~   68 (73)
T 2cqr_A           19 EPWTQNQQKLLELALQQYPRGSSDCWDKIARCVPSKSKEDCIARYKLLVS   68 (73)
T ss_dssp             CCCCHHHHHHHHHHHHHSCSSSHHHHHHHGGGCSSSCHHHHHHHHHHHHS
T ss_pred             CCCCHHHHHHHHHHHHHcCCCCCchHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence            48999999999999999993   489999999999999999999998765

>2ckx_A NGTRF1, telomere binding protein TBP1; nuclear protein; 1.9A {Nicotiana tabacum} SCOP: a.4.1.3 PDB: 2qhb_A

Probab=99.58  E-value=1.3e-15  Score=90.51  Aligned_cols=46  Identities=22%  Similarity=0.321  Sum_probs=42.5

Q ss_pred             cCCCHHHHHHHHHHHhhCCc-chhcccc-----ccCCCHHHHHHHHHHHHhH
Q psy15548         54 TEWSREEDEKLLHLAKLMPT-QWRTIAP-----IIGRTAAQCLERYEFLLYR   99 (108)
Q Consensus        54 ~~Wt~eEd~~L~~~v~~~g~-~W~~Ia~-----~~gRt~~q~~~r~~~~~~~   99 (108)
                      .+||+|||+.|+++|.+||. +|+.|++     |+|||+.+|++||.++++.
T Consensus         1 r~WT~eEd~~L~~gv~k~G~g~W~~I~~~~~~~~~~RT~~~lKdrWrnllk~   52 (83)
T 2ckx_A            1 RPFSVAEVEALVEAVEHLGTGRWRDVKMRAFDNADHRTYVDLKDKWKTLVHT   52 (83)
T ss_dssp             CCCCHHHHHHHHHHHHHHCSSCHHHHHHHHCTTCTTSCHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHCCCCcHHHHHhhccccCCCCHHHHHHHHHHHHHh
Confidence            48999999999999999997 9999997     5799999999999999963

>2aje_A Telomere repeat-binding protein; DNA-binding, Trp, MYB motif, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: a.4.1.3

Probab=99.56  E-value=2.7e-15  Score=92.61  Aligned_cols=56  Identities=20%  Similarity=0.306  Sum_probs=49.1

Q ss_pred             CCCcccCCCHHHHHHHHHHHhhCCc-chhcccc-c----cCCCHHHHHHHHHHHHh-----HHHhhh
Q psy15548         49 PSIKKTEWSREEDEKLLHLAKLMPT-QWRTIAP-I----IGRTAAQCLERYEFLLY-----RARRKA  104 (108)
Q Consensus        49 ~~~~~~~Wt~eEd~~L~~~v~~~g~-~W~~Ia~-~----~gRt~~q~~~r~~~~~~-----~~~~~~  104 (108)
                      +...+++||+|||+.|+++|.+||. +|+.|++ +    +|||+.+|++||.++++     |.++++
T Consensus         9 ~rr~r~~WT~EEd~~L~~gV~k~G~g~W~~I~~~~~~~f~~RT~v~lKdrWrnllk~~~~~p~~~rg   75 (105)
T 2aje_A            9 QRRIRRPFSVAEVEALVQAVEKLGTGRWRDVKLCAFEDADHRTYVDLKDKWKTLVHTAKISPQQRRG   75 (105)
T ss_dssp             CCCCCCSCCHHHHHHHHHHHHHHCSSSHHHHHSSSSSSTTCCCHHHHHHHHHHHHHTTTCCTTTTTC
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhccccCCCCHHHHHHHHHHHHhhccCCcccccC
Confidence            4567899999999999999999996 9999998 5    79999999999999995     555544

>2juh_A Telomere binding protein TBP1; helix, nucleus, nuclear protein; NMR {Nicotiana glutinosa}

Probab=99.55  E-value=1.9e-15  Score=95.32  Aligned_cols=52  Identities=21%  Similarity=0.300  Sum_probs=47.6

Q ss_pred             cCCCCcccCCCHHHHHHHHHHHhhCCc-chhcccc-c----cCCCHHHHHHHHHHHHh
Q psy15548         47 LDPSIKKTEWSREEDEKLLHLAKLMPT-QWRTIAP-I----IGRTAAQCLERYEFLLY   98 (108)
Q Consensus        47 l~~~~~~~~Wt~eEd~~L~~~v~~~g~-~W~~Ia~-~----~gRt~~q~~~r~~~~~~   98 (108)
                      +.+...+++||+|||+.|+++|.+||. +|+.|++ +    +|||+.+|++||.++++
T Consensus        11 ~~~rr~r~~WT~EEd~~L~~gV~k~G~G~W~~Ia~~~~~~f~~RT~v~lKdRWrnllk   68 (121)
T 2juh_A           11 LSQRRIRRPFSVAEVEALVEAVEHLGTGRWRDVKMRAFDNADHRTYVDLKDKWKTLVH   68 (121)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHHHHGGGCHHHHHHHHCSCCSSCCSHHHHHHHHHHHH
T ss_pred             ccCCCCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHhccccCCCCHHHHHHHHHHHHh
Confidence            345667899999999999999999997 9999998 4    79999999999999998

>2ltp_A Nuclear receptor corepressor 2; SMRT, TRAC, SGC, structural genomics consortium, NESG, north structural genomics consortium; NMR {Homo sapiens}

Probab=99.31  E-value=4.2e-16  Score=93.93  Aligned_cols=47  Identities=23%  Similarity=0.407  Sum_probs=44.3

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCC
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDP   49 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~   49 (108)
                      .+||+|||++|+++|..||. +|..||..|||||+.||+.||.+++..
T Consensus        17 ~~WT~eEd~~l~~~~~~~G~-~W~~IA~~l~gRt~~q~k~r~~~~lrk   63 (89)
T 2ltp_A           17 QGWTEEEMGTAKKGLLEHGR-NWSAIARMVGSKTVSQCKNFYFNYKKR   63 (89)
Confidence            48999999999999999997 999999999999999999999988763

>1x58_A Hypothetical protein 4930532D21RIK; MUS musculus adult MALE testis cDNA, riken FULL-length enriched library, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.4.1.1

Probab=99.54  E-value=9.7e-15  Score=81.64  Aligned_cols=49  Identities=29%  Similarity=0.502  Sum_probs=45.0

Q ss_pred             CcccCCCHHHHHHHHHHHhhCCcchhccc---c-ccCCCHHHHHHHHHHHHhH
Q psy15548         51 IKKTEWSREEDEKLLHLAKLMPTQWRTIA---P-IIGRTAAQCLERYEFLLYR   99 (108)
Q Consensus        51 ~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia---~-~~gRt~~q~~~r~~~~~~~   99 (108)
                      .++.+||+|||+.|+++|++||.+|..|+   . ++|||..++++||+++.+.
T Consensus         6 ~~r~~WT~EE~~~L~~gV~k~G~~W~~I~~~y~f~~~RT~VdLKdk~r~L~k~   58 (62)
T 1x58_A            6 SGRKDFTKEEVNYLFHGVKTMGNHWNSILWSFPFQKGRRAVDLAHKYHRLISG   58 (62)
T ss_dssp             CCSSSCCHHHHHHHHHHHHHHCSCHHHHHHHSCCCTTCCHHHHHHHHHHHHTC
T ss_pred             CCCCCCCHHHHHHHHHHHHHHhHhHHHHHHhCCCccCcccchHHHHHHHHHhc
Confidence            46789999999999999999999999999   4 5799999999999999875

>2cjj_A Radialis; plant development, DNA-binding protein, MYB transcription FA DNA-binding, nuclear protein, floral asymmetry; 1.9A {Antirrhinum majus} SCOP: a.4.1.3

Probab=99.51  E-value=2.5e-14  Score=86.62  Aligned_cols=50  Identities=22%  Similarity=0.488  Sum_probs=45.1

Q ss_pred             cccCCCHHHHHHHHHHHhhCC----cchhcccc-ccCCCHHHHHHHHHHHHhHHH
Q psy15548         52 KKTEWSREEDEKLLHLAKLMP----TQWRTIAP-IIGRTAAQCLERYEFLLYRAR  101 (108)
Q Consensus        52 ~~~~Wt~eEd~~L~~~v~~~g----~~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~  101 (108)
                      ..++||++||.+|.+++..||    .+|..||. +||||+.+|++||..++....
T Consensus         7 ~~~~WT~eEd~~L~~al~~~~~~~~~rW~~IA~~vpGRT~~q~k~ry~~l~~dv~   61 (93)
T 2cjj_A            7 SGRPWSAKENKAFERALAVYDKDTPDRWANVARAVEGRTPEEVKKHYEILVEDIK   61 (93)
T ss_dssp             -CCSCCHHHHHHHHHHHHHSCTTCTTHHHHHHHHSTTCCHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHcCCCCCchHHHHHHHcCCCCHHHHHHHHHHHHHHHH
Confidence            467999999999999999996    68999999 999999999999999987753

>2roh_A RTBP1, telomere binding protein-1; plant, nucleus, DNA binding protein; NMR {Oryza sativa}

Probab=99.50  E-value=1.3e-14  Score=91.72  Aligned_cols=49  Identities=18%  Similarity=0.274  Sum_probs=44.7

Q ss_pred             CCcccCCCHHHHHHHHHHHhhCCc-chhcccc-c----cCCCHHHHHHHHHHHHh
Q psy15548         50 SIKKTEWSREEDEKLLHLAKLMPT-QWRTIAP-I----IGRTAAQCLERYEFLLY   98 (108)
Q Consensus        50 ~~~~~~Wt~eEd~~L~~~v~~~g~-~W~~Ia~-~----~gRt~~q~~~r~~~~~~   98 (108)
                      ...+++||+|||+.|+++|++||. +|+.|++ +    +|||+.+|++||.++++
T Consensus        28 rr~r~~WT~EEd~~L~~gV~k~G~g~W~~I~~~~~~~~~~RT~vdlKdRWrnllk   82 (122)
T 2roh_A           28 RRIRRPFTVAEVELLVEAVEHLGTGRWRDVKFRAFENVHHRTYVDLKDKWKTLVH   82 (122)
T ss_dssp             CCCCCCCCHHHHHHHHHHHHHHSSSCHHHHHHHHHSSSCCCCHHHHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHCCCChHHHHHHhccccCCCCHHHHHHHHHHHHh
Confidence            346789999999999999999996 9999998 4    79999999999999994

>2cjj_A Radialis; plant development, DNA-binding protein, MYB transcription FA DNA-binding, nuclear protein, floral asymmetry; 1.9A {Antirrhinum majus} SCOP: a.4.1.3

Probab=99.50  E-value=2.8e-14  Score=86.40  Aligned_cols=46  Identities=11%  Similarity=0.271  Sum_probs=42.4

Q ss_pred             CCCcHHHHHHHHHHHHHhC---CCCHHHHHHHhCCCCHHHHHHHhhhhc
Q psy15548          2 LKTMTIVDEILKAAVMKYG---KNQWSRIASLLHRKSAKQCKARWFEWL   47 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g---~~~W~~Ia~~~~~R~~~qc~~rw~~~l   47 (108)
                      .+||+|||++|.+++..||   .+.|..||..|||||..||+.||..++
T Consensus         9 ~~WT~eEd~~L~~al~~~~~~~~~rW~~IA~~vpGRT~~q~k~ry~~l~   57 (93)
T 2cjj_A            9 RPWSAKENKAFERALAVYDKDTPDRWANVARAVEGRTPEEVKKHYEILV   57 (93)
T ss_dssp             CSCCHHHHHHHHHHHHHSCTTCTTHHHHHHHHSTTCCHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCCCCchHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            4899999999999999997   357999999999999999999998864

>1ign_A Protein (RAP1); RAP1,yeast,telomeres,homoeodomain, DNA binding protein/DNA complex; HET: DNA; 2.25A {Saccharomyces cerevisiae} SCOP: a.4.1.6 a.4.1.6 PDB: 3ukg_A

Probab=99.49  E-value=1.9e-14  Score=99.54  Aligned_cols=54  Identities=26%  Similarity=0.436  Sum_probs=47.3

Q ss_pred             CCCcccCCCHHHHHHHHHHHhhCCcc------hhcccc-ccCCCHHHHHHHHHHHHhHHHh
Q psy15548         49 PSIKKTEWSREEDEKLLHLAKLMPTQ------WRTIAP-IIGRTAAQCLERYEFLLYRARR  102 (108)
Q Consensus        49 ~~~~~~~Wt~eEd~~L~~~v~~~g~~------W~~Ia~-~~gRt~~q~~~r~~~~~~~~~~  102 (108)
                      +.+++++||+|||+.|+++|.++|+.      |..||+ |+|||+.||++||..+|++.+.
T Consensus         4 ~~~~k~~FT~EED~~Ile~v~k~Gn~r~ghk~W~~IAk~LpGRT~nsIRnRw~~~L~~~ln   64 (246)
T 1ign_A            4 PSHNKASFTDEEDEFILDVVRKNPTRRTTHTLYDEISHYVPNHTGNSIRHRFRVYLSKRLE   64 (246)
T ss_dssp             ----CCCCCHHHHHHHHHHHHTSGGGTTCSHHHHHHTTTSTTSCHHHHHHHHHHTTGGGCC
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHhCcCccccccHHHHHHHcCCCCHHHHHHHHHHHHhhhcc
Confidence            34678899999999999999999875      999999 9999999999999999998764

>2eqr_A N-COR1, N-COR, nuclear receptor corepressor 1; SANT domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.42  E-value=4.7e-13  Score=75.18  Aligned_cols=46  Identities=28%  Similarity=0.299  Sum_probs=42.4

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhc
Q psy15548          1 MLKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWL   47 (108)
Q Consensus         1 ~~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l   47 (108)
                      +.+||+||++++.+++..||. +|..||..||+||..||..+|....
T Consensus        12 ~~~WT~eE~~~F~~~~~~~gk-~w~~Ia~~l~~rt~~~~v~~Yy~~K   57 (61)
T 2eqr_A           12 MNVWTDHEKEIFKDKFIQHPK-NFGLIASYLERKSVPDCVLYYYLTK   57 (61)
T ss_dssp             CCSCCHHHHHHHHHHHHHSTT-CHHHHHHHCTTSCHHHHHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHHHHHhCC-CHHHHHHHcCCCCHHHHHHHHHHhc
Confidence            358999999999999999996 9999999999999999999997643

>1x58_A Hypothetical protein 4930532D21RIK; MUS musculus adult MALE testis cDNA, riken FULL-length enriched library, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.4.1.1

Probab=99.40  E-value=3e-13  Score=75.58  Aligned_cols=46  Identities=13%  Similarity=0.182  Sum_probs=42.1

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHH---HhCCCCHHHHHHHhhhhcC
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIAS---LLHRKSAKQCKARWFEWLD   48 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~---~~~~R~~~qc~~rw~~~l~   48 (108)
                      -|||+|||+.|+++|++||. +|+.|+.   ++++||...++++|+++..
T Consensus         9 ~~WT~EE~~~L~~gV~k~G~-~W~~I~~~y~f~~~RT~VdLKdk~r~L~k   57 (62)
T 1x58_A            9 KDFTKEEVNYLFHGVKTMGN-HWNSILWSFPFQKGRRAVDLAHKYHRLIS   57 (62)
T ss_dssp             SSCCHHHHHHHHHHHHHHCS-CHHHHHHHSCCCTTCCHHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHHhH-hHHHHHHhCCCccCcccchHHHHHHHHHh
Confidence            48999999999999999998 9999995   6679999999999998654

>2eqr_A N-COR1, N-COR, nuclear receptor corepressor 1; SANT domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.35  E-value=1.1e-12  Score=73.67  Aligned_cols=47  Identities=17%  Similarity=0.268  Sum_probs=42.8

Q ss_pred             cccCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHHHHh
Q psy15548         52 KKTEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEFLLY   98 (108)
Q Consensus        52 ~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~~~   98 (108)
                      ..++||++|+.++++++..||.+|..||. ++|||..||..+|....+
T Consensus        11 ~~~~WT~eE~~~F~~~~~~~gk~w~~Ia~~l~~rt~~~~v~~Yy~~Kk   58 (61)
T 2eqr_A           11 FMNVWTDHEKEIFKDKFIQHPKNFGLIASYLERKSVPDCVLYYYLTKK   58 (61)
T ss_dssp             CCCSCCHHHHHHHHHHHHHSTTCHHHHHHHCTTSCHHHHHHHHHHHTC
T ss_pred             cCCCCCHHHHHHHHHHHHHhCCCHHHHHHHcCCCCHHHHHHHHHHhcC
Confidence            45799999999999999999999999999 999999999999876543

>2cqq_A RSGI RUH-037, DNAJ homolog subfamily C member 1; membrane protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3

Probab=99.25  E-value=8.3e-12  Score=72.20  Aligned_cols=50  Identities=24%  Similarity=0.402  Sum_probs=44.3

Q ss_pred             CCcccCCCHHHHHHHHHHHhhCC----cchhccccccCCCHHHHHHHHHHHHhH
Q psy15548         50 SIKKTEWSREEDEKLLHLAKLMP----TQWRTIAPIIGRTAAQCLERYEFLLYR   99 (108)
Q Consensus        50 ~~~~~~Wt~eEd~~L~~~v~~~g----~~W~~Ia~~~gRt~~q~~~r~~~~~~~   99 (108)
                      ....+.||.+||.+|..++..|+    .+|..||.++|||..+|+.||..+...
T Consensus         5 ~~~~~~WT~eE~k~fe~al~~~p~~t~~RW~~IA~~lgRt~~eV~~~y~~L~~d   58 (72)
T 2cqq_A            5 SSGAPEWTEEDLSQLTRSMVKFPGGTPGRWEKIAHELGRSVTDVTTKAKQLKDS   58 (72)
T ss_dssp             CCCCCCCCHHHHHHHHHHHHHSCTTCTTHHHHHHHHHTSCHHHHHHHHHHHHHS
T ss_pred             CCCCCCCCHHHHHHHHHHHHHCCCCCCcHHHHHHHHhCCCHHHHHHHHHHHHHh
Confidence            34568999999999999999997    589999995599999999999988765

>1wgx_A KIAA1903 protein; MYB DNA-binding domain, human cDNA, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: a.4.1.3

Probab=99.24  E-value=2.8e-11  Score=69.91  Aligned_cols=46  Identities=20%  Similarity=0.307  Sum_probs=42.6

Q ss_pred             CCcHHHHHHHHHHHHHhCC---CCHHHHHHHhCCCCHHHHHHHhhhhcC
Q psy15548          3 KTMTIVDEILKAAVMKYGK---NQWSRIASLLHRKSAKQCKARWFEWLD   48 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~---~~W~~Ia~~~~~R~~~qc~~rw~~~l~   48 (108)
                      +||.+|+.+|.+++..|+.   ++|..||..||+||..+|..||...+.
T Consensus        10 ~WT~eE~k~fe~ALa~~~~~tp~rWe~IA~~V~gKT~eE~~~hY~~l~~   58 (73)
T 1wgx_A           10 EWNEKELQKLHCAFASLPKHKPGFWSEVAAAVGSRSPEECQRKYMENPR   58 (73)
T ss_dssp             CCCHHHHHHHHHHHHHSCSSSSSHHHHHHHHTTTSCHHHHHHHHHHSSS
T ss_pred             CCCHHHHHHHHHHHHHCCCCCccHHHHHHHHcCCCCHHHHHHHHHHHHh
Confidence            7999999999999999986   479999999999999999999988654

>3hm5_A DNA methyltransferase 1-associated protein 1; DNA methylation, chromatin, structural genomics consortium, SGC, activator, chromatin regulator; HET: DNA; 1.80A {Homo sapiens}

Probab=99.23  E-value=1.8e-11  Score=73.79  Aligned_cols=62  Identities=16%  Similarity=0.326  Sum_probs=55.1

Q ss_pred             HHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCCcchhcccc-c-----cCCCHHHHHHHHHHHHhHHHhh
Q psy15548         38 QCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAP-I-----IGRTAAQCLERYEFLLYRARRK  103 (108)
Q Consensus        38 qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~-----~gRt~~q~~~r~~~~~~~~~~~  103 (108)
                      =+.++|..+|.+    ++||.||+..|++++++||.+|..|+. +     ++||..++++||..+.+.....
T Consensus        19 yt~eeY~~~L~~----~~WTkEETd~Lf~L~~~fdlRW~vI~DRy~~~~~~~Rt~EdLK~RyY~v~~~l~~~   86 (93)
T 3hm5_A           19 YSEQEYQLYLHD----DAWTKAETDHLFDLSRRFDLRFVVIHDRYDHQQFKKRSVEDLKERYYHICAKLANV   86 (93)
T ss_dssp             CCHHHHHHHTCB----TTBCHHHHHHHHHHHHHTTTCHHHHHHHSCTTTSCCCCHHHHHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHcCC----CCCCHHHHHHHHHHHHHhCCCeeeehhhhccCCCCCCCHHHHHHHHHHHHHHHHHh
Confidence            356788888875    799999999999999999999999999 7     4799999999999999887653

>2cqq_A RSGI RUH-037, DNAJ homolog subfamily C member 1; membrane protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.3

Probab=99.19  E-value=3.7e-11  Score=69.45  Aligned_cols=46  Identities=17%  Similarity=0.207  Sum_probs=41.3

Q ss_pred             CCCcHHHHHHHHHHHHHhCC---CCHHHHHHHhCCCCHHHHHHHhhhhcC
Q psy15548          2 LKTMTIVDEILKAAVMKYGK---NQWSRIASLLHRKSAKQCKARWFEWLD   48 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~---~~W~~Ia~~~~~R~~~qc~~rw~~~l~   48 (108)
                      .+||.|||++|.+++..|+.   +.|..||..+ |||..+|+.||..+..
T Consensus         9 ~~WT~eE~k~fe~al~~~p~~t~~RW~~IA~~l-gRt~~eV~~~y~~L~~   57 (72)
T 2cqq_A            9 PEWTEEDLSQLTRSMVKFPGGTPGRWEKIAHEL-GRSVTDVTTKAKQLKD   57 (72)
T ss_dssp             CCCCHHHHHHHHHHHHHSCTTCTTHHHHHHHHH-TSCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHCCCCCCcHHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence            47999999999999999984   4799999998 8999999999987644

>2xag_B REST corepressor 1; amine oxidase, chromatin regulator, histone inhibitor binding, methylation, nucleosome core, oxidoreductase; HET: FAD TCF; 3.10A {Homo sapiens} PDB: 2xaf_B* 2xah_B* 2xaj_B* 2xaq_B* 2xas_B*

Probab=99.14  E-value=2.3e-11  Score=91.66  Aligned_cols=46  Identities=15%  Similarity=0.237  Sum_probs=41.9

Q ss_pred             cCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHHHHhH
Q psy15548         54 TEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEFLLYR   99 (108)
Q Consensus        54 ~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~~~~   99 (108)
                      .+||.+|..++++++.+||.+|..||+ +..||..||+++|.++.++
T Consensus       381 ~~WT~eE~~~f~~al~~yGkdw~~IA~~VgTKT~~Qvk~fy~~~kkr  427 (482)
T 2xag_B          381 ARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKNFFVNYRRR  427 (482)
T ss_dssp             SCCCHHHHHHHHHHHHHHTTCHHHHHHHHSSCCHHHHHHHHHHTTTT
T ss_pred             CCCCHHHHHHHHHHHHHHCcCHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            479999999999999999999999999 7789999999999876554

>2iw5_B Protein corest, REST corepressor 1; oxidoreductase-transcription regulator complex, oxidoreductase/repressor complex, histone demethylase, FAD; HET: FAD; 2.57A {Homo sapiens} SCOP: a.4.1.3 PDB: 2uxn_B* 2uxx_B* 2y48_B* 2v1d_B* 2x0l_B*

Probab=99.11  E-value=4.1e-11  Score=82.32  Aligned_cols=49  Identities=14%  Similarity=0.194  Sum_probs=45.2

Q ss_pred             cccCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHHHHhHH
Q psy15548         52 KKTEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEFLLYRA  100 (108)
Q Consensus        52 ~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~~~~~  100 (108)
                      ..++||++|+..+++++..||++|..||+ +++||..||+++|++..++.
T Consensus       132 ~s~~WTeEE~~lFleAl~kYGKDW~~IAk~VgTKT~~QcKnfY~~~kKRl  181 (235)
T 2iw5_B          132 CNARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKNFFVNYRRRF  181 (235)
T ss_dssp             CCSSCCHHHHHHHHHHHHHHSSCHHHHHHHHSSCCHHHHHHHHHHTTTTT
T ss_pred             cCCCCCHHHHHHHHHHHHHHCcCHHHHHHHcCCCCHHHHHHHHHHHHHHh
Confidence            35799999999999999999999999999 89999999999999887763

>2iw5_B Protein corest, REST corepressor 1; oxidoreductase-transcription regulator complex, oxidoreductase/repressor complex, histone demethylase, FAD; HET: FAD; 2.57A {Homo sapiens} SCOP: a.4.1.3 PDB: 2uxn_B* 2uxx_B* 2y48_B* 2v1d_B* 2x0l_B*

Probab=99.11  E-value=1.4e-10  Score=79.68  Aligned_cols=46  Identities=22%  Similarity=0.312  Sum_probs=43.3

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcC
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLD   48 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~   48 (108)
                      .+||+||+..+++++..||. +|..||..|++||..||+.+|+++..
T Consensus       134 ~~WTeEE~~lFleAl~kYGK-DW~~IAk~VgTKT~~QcKnfY~~~kK  179 (235)
T 2iw5_B          134 ARWTTEEQLLAVQAIRKYGR-DFQAISDVIGNKSVVQVKNFFVNYRR  179 (235)
T ss_dssp             SSCCHHHHHHHHHHHHHHSS-CHHHHHHHHSSCCHHHHHHHHHHTTT
T ss_pred             CCCCHHHHHHHHHHHHHHCc-CHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence            48999999999999999996 99999999999999999999988764

>1fex_A TRF2-interacting telomeric RAP1 protein; helix turn helix, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Synthetic} SCOP: a.4.1.3

Probab=99.10  E-value=9.8e-11  Score=65.19  Aligned_cols=47  Identities=19%  Similarity=0.292  Sum_probs=42.9

Q ss_pred             CCCcHHHHHHHHHHHHHh--------CCCCHHHHHH-HhCCCCHHHHHHHhhhhcC
Q psy15548          2 LKTMTIVDEILKAAVMKY--------GKNQWSRIAS-LLHRKSAKQCKARWFEWLD   48 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~--------g~~~W~~Ia~-~~~~R~~~qc~~rw~~~l~   48 (108)
                      .|||+|||..|+..|..|        |..-|.++++ .+|++|-.+|++||...|.
T Consensus         3 ~~FT~edD~~L~~~v~~~~~~~~~~~Gn~iwk~la~~~~~~HtwqSwRdRy~k~l~   58 (59)
T 1fex_A            3 IAFTDADDVAILTYVKENARSPSSVTGNALWKAMEKSSLTQHSWQSLKDRYLKHLR   58 (59)
T ss_dssp             CCCCHHHHHHHHHHHHHTCCSTTTTTSSHHHHHHHHSCSSSCCSHHHHHHHHHHTC
T ss_pred             CCCCHHHHHHHHHHHHHhccccCCCccHHHHHHHHHhHCCCCCHHHHHHHHHHHcc
Confidence            589999999999999999        4447999999 8999999999999998775

>1wgx_A KIAA1903 protein; MYB DNA-binding domain, human cDNA, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: a.4.1.3

Probab=99.10  E-value=1.1e-10  Score=67.36  Aligned_cols=48  Identities=23%  Similarity=0.423  Sum_probs=42.7

Q ss_pred             cccCCCHHHHHHHHHHHhhCCc----chhcccc-ccCCCHHHHHHHHHHHHhH
Q psy15548         52 KKTEWSREEDEKLLHLAKLMPT----QWRTIAP-IIGRTAAQCLERYEFLLYR   99 (108)
Q Consensus        52 ~~~~Wt~eEd~~L~~~v~~~g~----~W~~Ia~-~~gRt~~q~~~r~~~~~~~   99 (108)
                      ....||.+|+.+|..++..|+.    +|..||. ++|||..+|+.||..+++.
T Consensus         7 ~~~~WT~eE~k~fe~ALa~~~~~tp~rWe~IA~~V~gKT~eE~~~hY~~l~~~   59 (73)
T 1wgx_A            7 GDKEWNEKELQKLHCAFASLPKHKPGFWSEVAAAVGSRSPEECQRKYMENPRG   59 (73)
T ss_dssp             SSSCCCHHHHHHHHHHHHHSCSSSSSHHHHHHHHTTTSCHHHHHHHHHHSSSS
T ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCccHHHHHHHHcCCCCHHHHHHHHHHHHhc
Confidence            3468999999999999999873    7999999 8999999999999988553

>1ofc_X ISWI protein; nuclear protein, chromatin remodeling factor, ATPase, SANT domain, nucleosome recognition; HET: GLC G4D; 1.9A {Drosophila melanogaster} SCOP: a.4.1.3 a.4.1.13 a.187.1.1 PDB: 2nog_A

Probab=99.02  E-value=2e-09  Score=77.17  Aligned_cols=101  Identities=18%  Similarity=0.152  Sum_probs=81.9

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhc---------------------------------
Q psy15548          1 MLKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWL---------------------------------   47 (108)
Q Consensus         1 ~~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l---------------------------------   47 (108)
                      +.-||..+...++.++.+||..+|..||..|+++|...++.-+ .++                                 
T Consensus       110 F~~W~rrdf~~Fi~a~~kyGr~~~~~IA~ev~~Kt~eEV~~Y~-~vFw~ry~ei~d~ek~~~~IE~gE~ki~r~~~~~~~  188 (304)
T 1ofc_X          110 FTAWTKRDFNQFIKANEKYGRDDIDNIAKDVEGKTPEEVIEYN-AVFWERCTELQDIERIMGQIERGEGKIQRRLSIKKA  188 (304)
T ss_dssp             CTTCCHHHHHHHHHHHHHHCTTCHHHHTTSSTTCCHHHHHHHH-HHHHHHGGGCTTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hcccCHHHHHHHHHHHHHhCHHHHHHHHHHhcCCCHHHHHHHH-HHHHHhHHHhccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3569999999999999999999999999999999998885432 211                                 


Q ss_pred             ------------------CCCCcccCCCHHHHHHHHHHHhhCC----cchhcccc-------------ccCCCHHHHHHH
Q psy15548         48 ------------------DPSIKKTEWSREEDEKLLHLAKLMP----TQWRTIAP-------------IIGRTAAQCLER   92 (108)
Q Consensus        48 ------------------~~~~~~~~Wt~eEd~~L~~~v~~~g----~~W~~Ia~-------------~~gRt~~q~~~r   92 (108)
                                        .+..+...||.+||..|+-++.+||    ++|..|..             +..||+.++..|
T Consensus       189 l~~Ki~~~~~P~~~L~i~y~~~k~k~yteeEDRfLL~~l~k~G~~~~g~we~Ir~~Ir~~p~FrFDwf~kSRTp~el~rR  268 (304)
T 1ofc_X          189 LDQKMSRYRAPFHQLRLQYGNNKGKNYTEIEDRFLVCMLHKLGFDKENVYEELRAAIRASPQFRFDWFIKSRTALELQRR  268 (304)
T ss_dssp             HHHHHHTCSSHHHHCCCCCTTCCCSSCCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHCGGGTTCHHHHTCCHHHHHHH
T ss_pred             HHHHHHHhcCcHHHhccccCCCCCCccCHHHHHHHHHHHHHhcCCCcchHHHHHHHHHhCcchhhhHHHhcCCHHHHHHH
Confidence                              0223446899999999999999988    58999852             236999999999


Q ss_pred             HHHHHhHHHh
Q psy15548         93 YEFLLYRARR  102 (108)
Q Consensus        93 ~~~~~~~~~~  102 (108)
                      ...+++-..+
T Consensus       269 c~tLi~~iek  278 (304)
T 1ofc_X          269 CNTLITLIER  278 (304)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999976544

>4eef_G F-HB80.4, designed hemagglutinin binding protein; immunoglobulin, fusion of virus membrane with membrane, membrane fusion, sialic acid, virion; HET: NAG BMA; 2.70A {Artificial gene}

Probab=98.84  E-value=3.8e-10  Score=64.78  Aligned_cols=42  Identities=12%  Similarity=0.237  Sum_probs=39.6

Q ss_pred             CCcHHHHHHHHHHHHHhCCC---CHHHHHHHhCCCCHHHHHHHhh
Q psy15548          3 KTMTIVDEILKAAVMKYGKN---QWSRIASLLHRKSAKQCKARWF   44 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~~---~W~~Ia~~~~~R~~~qc~~rw~   44 (108)
                      +||.+|+++|..++..|+.+   .|.+||..|||||..+|+.+|.
T Consensus        22 ~WT~eE~K~FE~ALa~yp~~tpdRWekIA~~VpGKT~eEVk~hY~   66 (74)
T 4eef_G           22 PWKFSENIAFEIALSFTNKDTPDRWKKVAQYVKGRTPEEVKKHYE   66 (74)
T ss_dssp             CCCTTHHHHHHHHTSSSCSSCCSSSTTTGGGSCSSCHHHHHGGGC
T ss_pred             CCCHHHHHHHHHHHHHCCCCCCcHHHHHHHHcCCCCHHHHHHHHH
Confidence            79999999999999999874   7999999999999999999985

>4eef_G F-HB80.4, designed hemagglutinin binding protein; immunoglobulin, fusion of virus membrane with membrane, membrane fusion, sialic acid, virion; HET: NAG BMA; 2.70A {Artificial gene}

Probab=98.77  E-value=2.2e-09  Score=61.64  Aligned_cols=43  Identities=21%  Similarity=0.461  Sum_probs=37.4

Q ss_pred             cccCCCHHHHHHHHHHHhhCCc----chhcccc-ccCCCHHHHHHHHH
Q psy15548         52 KKTEWSREEDEKLLHLAKLMPT----QWRTIAP-IIGRTAAQCLERYE   94 (108)
Q Consensus        52 ~~~~Wt~eEd~~L~~~v~~~g~----~W~~Ia~-~~gRt~~q~~~r~~   94 (108)
                      ..++||.+|++.|..++..|+.    +|.+||. +||||..+|+.+|.
T Consensus        19 ss~~WT~eE~K~FE~ALa~yp~~tpdRWekIA~~VpGKT~eEVk~hY~   66 (74)
T 4eef_G           19 SGRPWKFSENIAFEIALSFTNKDTPDRWKKVAQYVKGRTPEEVKKHYE   66 (74)
T ss_dssp             ---CCCTTHHHHHHHHTSSSCSSCCSSSTTTGGGSCSSCHHHHHGGGC
T ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCCcHHHHHHHHcCCCCHHHHHHHHH
Confidence            3568999999999999999974    7999999 99999999999885

>2yqk_A Arginine-glutamic acid dipeptide repeats protein; structure genomics, SANT domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.71  E-value=3.1e-08  Score=55.62  Aligned_cols=44  Identities=20%  Similarity=0.280  Sum_probs=40.2

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHH-HhCCCCHHHHHHHhhhh
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIAS-LLHRKSAKQCKARWFEW   46 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~-~~~~R~~~qc~~rw~~~   46 (108)
                      .+||+||-++..+++..||. +|..|+. .||+|+..+|...|...
T Consensus        10 ~~WT~eE~~~Fe~~l~~yGK-df~~I~~~~v~~Kt~~~~v~fYY~w   54 (63)
T 2yqk_A           10 KCWTEDEVKRFVKGLRQYGK-NFFRIRKELLPNKETGELITFYYYW   54 (63)
T ss_dssp             CSCCHHHHHHHHHHHHHTCS-CHHHHHHHSCTTSCHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHHHHHhCc-cHHHHHHHHcCCCcHHHHHHHHhcc
Confidence            48999999999999999997 9999999 59999999999888653

>3hm5_A DNA methyltransferase 1-associated protein 1; DNA methylation, chromatin, structural genomics consortium, SGC, activator, chromatin regulator; HET: DNA; 1.80A {Homo sapiens}

Probab=98.70  E-value=3.7e-08  Score=59.27  Aligned_cols=46  Identities=11%  Similarity=0.133  Sum_probs=41.9

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHh-----CCCCHHHHHHHhhhhcC
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLL-----HRKSAKQCKARWFEWLD   48 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~-----~~R~~~qc~~rw~~~l~   48 (108)
                      .+||.||++.|++++++|+. .|..|+..+     ++||..+++.||..+..
T Consensus        31 ~~WTkEETd~Lf~L~~~fdl-RW~vI~DRy~~~~~~~Rt~EdLK~RyY~v~~   81 (93)
T 3hm5_A           31 DAWTKAETDHLFDLSRRFDL-RFVVIHDRYDHQQFKKRSVEDLKERYYHICA   81 (93)
T ss_dssp             TTBCHHHHHHHHHHHHHTTT-CHHHHHHHSCTTTSCCCCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHhCC-CeeeehhhhccCCCCCCCHHHHHHHHHHHHH
Confidence            38999999999999999997 999999999     48999999999987643

>1fex_A TRF2-interacting telomeric RAP1 protein; helix turn helix, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Synthetic} SCOP: a.4.1.3

Probab=98.67  E-value=2.1e-08  Score=55.65  Aligned_cols=46  Identities=15%  Similarity=0.284  Sum_probs=40.3

Q ss_pred             ccCCCHHHHHHHHHHHhhC--------Cc-chhcccc--ccCCCHHHHHHHHHHHHh
Q psy15548         53 KTEWSREEDEKLLHLAKLM--------PT-QWRTIAP--IIGRTAAQCLERYEFLLY   98 (108)
Q Consensus        53 ~~~Wt~eEd~~L~~~v~~~--------g~-~W~~Ia~--~~gRt~~q~~~r~~~~~~   98 (108)
                      +.+||+|||..|++.|..+        |+ -|..+++  +|++|-.+|++||...|+
T Consensus         2 R~~FT~edD~~L~~~v~~~~~~~~~~~Gn~iwk~la~~~~~~HtwqSwRdRy~k~l~   58 (59)
T 1fex_A            2 RIAFTDADDVAILTYVKENARSPSSVTGNALWKAMEKSSLTQHSWQSLKDRYLKHLR   58 (59)
T ss_dssp             CCCCCHHHHHHHHHHHHHTCCSTTTTTSSHHHHHHHHSCSSSCCSHHHHHHHHHHTC
T ss_pred             CCCCCHHHHHHHHHHHHHhccccCCCccHHHHHHHHHhHCCCCCHHHHHHHHHHHcc
Confidence            5689999999999999888        42 6999998  789999999999988764

>2yqk_A Arginine-glutamic acid dipeptide repeats protein; structure genomics, SANT domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.67  E-value=5.7e-08  Score=54.56  Aligned_cols=49  Identities=10%  Similarity=0.213  Sum_probs=43.2

Q ss_pred             CCCcccCCCHHHHHHHHHHHhhCCcchhcccc--ccCCCHHHHHHHHHHHH
Q psy15548         49 PSIKKTEWSREEDEKLLHLAKLMPTQWRTIAP--IIGRTAAQCLERYEFLL   97 (108)
Q Consensus        49 ~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~--~~gRt~~q~~~r~~~~~   97 (108)
                      |.+...+||++|-.+..+++..||.+|..|++  +++||..+|...|....
T Consensus         5 p~~~~~~WT~eE~~~Fe~~l~~yGKdf~~I~~~~v~~Kt~~~~v~fYY~wK   55 (63)
T 2yqk_A            5 SSGIEKCWTEDEVKRFVKGLRQYGKNFFRIRKELLPNKETGELITFYYYWK   55 (63)
T ss_dssp             CCCCCCSCCHHHHHHHHHHHHHTCSCHHHHHHHSCTTSCHHHHHHHHHHHH
T ss_pred             CCcCCCCcCHHHHHHHHHHHHHhCccHHHHHHHHcCCCcHHHHHHHHhccc
Confidence            56677899999999999999999999999997  57899999998876443

>2crg_A Metastasis associated protein MTA3; transcription factor, helix turn helix, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.4.1.3

Probab=98.65  E-value=7e-08  Score=55.26  Aligned_cols=44  Identities=23%  Similarity=0.373  Sum_probs=40.5

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHH-HhCCCCHHHHHHHhhhh
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIAS-LLHRKSAKQCKARWFEW   46 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~-~~~~R~~~qc~~rw~~~   46 (108)
                      -+||+||-++..+++..||. +|..|+. .||+|+..+|...|...
T Consensus         9 ~~WT~eE~~~Fe~~l~~yGK-df~~I~~~~v~~Kt~~~~v~fYY~w   53 (70)
T 2crg_A            9 EEWSASEACLFEEALEKYGK-DFNDIRQDFLPWKSLTSIIEYYYMW   53 (70)
T ss_dssp             CCCCHHHHHHHHHHHHHTCS-CHHHHHHTTCSSSCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHhCc-cHHHHHHHHcCCCCHHHHHHHHHhh
Confidence            48999999999999999997 9999999 69999999999988653

>4a69_C Nuclear receptor corepressor 2; transcription, hydrolase; HET: I0P; 2.06A {Homo sapiens} PDB: 1xc5_A

Probab=98.60  E-value=1.1e-07  Score=57.46  Aligned_cols=44  Identities=23%  Similarity=0.289  Sum_probs=40.8

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhh
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEW   46 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~   46 (108)
                      -.||+||.+++.+++..||. +|..||..+|+||..+|-..|...
T Consensus        44 ~~WT~eE~~~F~~~~~~~gK-~F~~Ia~~l~~Kt~~~cV~~YY~~   87 (94)
T 4a69_C           44 NMWSEQEKETFREKFMQHPK-NFGLIASFLERKTVAECVLYYYLT   87 (94)
T ss_dssp             CCCCHHHHHHHHHHHHHSTT-CHHHHHHTCTTCCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCC-CHHHHHHHcCCCCHHHHHHHHhcc
Confidence            47999999999999999997 999999999999999999988653

>2xag_B REST corepressor 1; amine oxidase, chromatin regulator, histone inhibitor binding, methylation, nucleosome core, oxidoreductase; HET: FAD TCF; 3.10A {Homo sapiens} PDB: 2xaf_B* 2xah_B* 2xaj_B* 2xaq_B* 2xas_B*

Probab=98.60  E-value=7.8e-08  Score=72.61  Aligned_cols=45  Identities=22%  Similarity=0.321  Sum_probs=42.1

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhc
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWL   47 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l   47 (108)
                      .+||.+|-.++++++.+||. +|..||..|++||..||+.+|.++.
T Consensus       381 ~~WT~eE~~~f~~al~~yGk-dw~~IA~~VgTKT~~Qvk~fy~~~k  425 (482)
T 2xag_B          381 ARWTTEEQLLAVQAIRKYGR-DFQAISDVIGNKSVVQVKNFFVNYR  425 (482)
T ss_dssp             SCCCHHHHHHHHHHHHHHTT-CHHHHHHHHSSCCHHHHHHHHHHTT
T ss_pred             CCCCHHHHHHHHHHHHHHCc-CHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            48999999999999999997 9999999999999999999997653

>2lr8_A CAsp8-associated protein 2; structural genomics, northeast structural genomics consortiu PSI-biology, apoptosis; NMR {Homo sapiens}

Probab=97.97  E-value=7.9e-09  Score=58.29  Aligned_cols=48  Identities=19%  Similarity=0.351  Sum_probs=42.4

Q ss_pred             CCCHHHHHHHHHHHhhCCc---chhccccccCCCHHHHHHHHHHHHhHHHh
Q psy15548         55 EWSREEDEKLLHLAKLMPT---QWRTIAPIIGRTAAQCLERYEFLLYRARR  102 (108)
Q Consensus        55 ~Wt~eEd~~L~~~v~~~g~---~W~~Ia~~~gRt~~q~~~r~~~~~~~~~~  102 (108)
                      -||.|||..|+..+++-|.   .|..||..+|||+.|+.+||..+++-..+
T Consensus        16 lWTReeDR~IL~~cq~~G~s~~tfa~iA~~Lnks~~QV~~RF~~Lm~Lf~k   66 (70)
T 2lr8_A           16 LWTRNDDRVILLECQKRGPSSKTFAYLAAKLDKNPNQVSERFQQLMKLFEK   66 (70)
Confidence            6999999999999999886   89999993499999999999998875543

>1ug2_A 2610100B20RIK gene product; hypothetical protein, MYB-like DNA binding domain, structural genomics, riken structural genomics/proteomics initiative; NMR {Mus musculus} SCOP: a.4.1.3

Probab=98.52  E-value=1.5e-07  Score=55.97  Aligned_cols=48  Identities=19%  Similarity=0.355  Sum_probs=42.8

Q ss_pred             CCCHHHHHHHHHHHhhCCc---chhcccc-ccCCCHHHHHHHHHHHHhHHHh
Q psy15548         55 EWSREEDEKLLHLAKLMPT---QWRTIAP-IIGRTAAQCLERYEFLLYRARR  102 (108)
Q Consensus        55 ~Wt~eEd~~L~~~v~~~g~---~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~~  102 (108)
                      -||.+||..||...++-|.   .|..||+ +-+|++.|+++||+.+++-..+
T Consensus        35 lWTRe~DR~IL~~cQ~~G~s~~tFa~iA~~L~Nks~nqV~~RFq~Lm~Lf~~   86 (95)
T 1ug2_A           35 LWTREADRVILTMCQEQGAQPHTFSVISQQLGNKTPVEVSHRFRELMQLFHT   86 (95)
T ss_dssp             SSCHHHHHHHHHHHHHTTSCTTTHHHHHHHHSSCCHHHHHHHHHHHHHHHHH
T ss_pred             EeccccCHHHHHHHHhcCCChhHHHHHHHHHccCCHHHHHHHHHHHHHHHHH
Confidence            6999999999999999885   8999999 5679999999999999876544

>4iej_A DNA methyltransferase 1-associated protein 1; DNA methylation, chromatin regulator, repressor, structural joint center for structural genomics; HET: DNA; 1.45A {Homo sapiens} PDB: 3hm5_A*

Probab=98.48  E-value=4.7e-07  Score=54.29  Aligned_cols=59  Identities=17%  Similarity=0.340  Sum_probs=49.7

Q ss_pred             HhhhhcCCCCcccCCCHHHHHHHHHHHhhCCcchhcccc-cc-----CCCHHHHHHHHHHHHhHHHhhh
Q psy15548         42 RWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQWRTIAP-II-----GRTAAQCLERYEFLLYRARRKA  104 (108)
Q Consensus        42 rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~-----gRt~~q~~~r~~~~~~~~~~~~  104 (108)
                      .|..+|.    ...||.||...|+++++.|+-+|..|+. +.     +||..++++||..+.+..+...
T Consensus        23 EY~~~L~----~~~WT~eETd~LfdLc~~fdlRw~vI~DRy~~~~~~~RtvEdLK~RYY~V~~~l~~~r   87 (93)
T 4iej_A           23 EYQLYLH----DDAWTKAETDHLFDLSRRFDLRFVVIHDRYDHQQFKKRSVEDLKERYYHICAKLANVR   87 (93)
T ss_dssp             HHHHHTC----BTTBCHHHHHHHHHHHHHTTTCHHHHHHHCCTTTSCCCCHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHhC----CCCCCHHHHHHHHHHHHHcCCCeEEEeeccccCCCCCCCHHHHHHHHHHHHHHHHHhh
Confidence            3444554    3689999999999999999999999998 53     6999999999999998877643

>2y9y_A Imitation switch protein 1 (DEL_ATPase); transcription, nuclear protein complex, chromatin remodeling nucleosome remodeling; 3.25A {Saccharomyces cerevisiae} PDB: 2y9z_A

Probab=98.41  E-value=3.3e-06  Score=61.94  Aligned_cols=101  Identities=21%  Similarity=0.212  Sum_probs=81.1

Q ss_pred             CCCCcHHHHHHHHHHHHHhCCCCHHHHHHHhC-CCCHHHHHHHhhhhc--------------------------------
Q psy15548          1 MLKTMTIVDEILKAAVMKYGKNQWSRIASLLH-RKSAKQCKARWFEWL--------------------------------   47 (108)
Q Consensus         1 ~~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~-~R~~~qc~~rw~~~l--------------------------------   47 (108)
                      +.-||.-+=..++.++.+||.++-..||..|. ++|...++ +|..++                                
T Consensus       123 F~~WnrrDF~~FI~a~~kyGR~d~~~IA~ev~~~Kt~eEV~-~Y~~vFw~Ry~Ei~d~erii~~IEkgE~ki~r~~~~~~  201 (374)
T 2y9y_A          123 FTNWNKLEFRKFITVSGKYGRNSIQAIARELAPGKTLEEVR-AYAKAFWSNIERIEDYEKYLKIIENEEEKIKRVKMQQE  201 (374)
T ss_dssp             CCCSCHHHHHHHHHHHHHHCTTCHHHHHSSCCCSSSHHHHH-HHHHHHHHTCSSCSCCTTTHHHHHHHHHHHHHHHHHHH
T ss_pred             hcccCHHHHHHHHHHHHHhCHhHHHHHHHHHccCCCHHHHH-HHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35699999999999999999999999999998 99998887 554331                                


Q ss_pred             --------------------CCC-CcccCCCHHHHHHHHHHHhhCC----cchhccc-----------c--ccCCCHHHH
Q psy15548         48 --------------------DPS-IKKTEWSREEDEKLLHLAKLMP----TQWRTIA-----------P--IIGRTAAQC   89 (108)
Q Consensus        48 --------------------~~~-~~~~~Wt~eEd~~L~~~v~~~g----~~W~~Ia-----------~--~~gRt~~q~   89 (108)
                                          .++ .+...||.+||..|+-++-+||    ++|..|-           .  +..||+..+
T Consensus       202 ~L~~Ki~~y~~P~~~L~i~y~~~~~k~k~yteeEDRfLL~~l~k~G~~~~g~we~Ir~~Ir~~p~FrFDwF~kSRT~~EL  281 (374)
T 2y9y_A          202 ALRRKLSEYKNPFFDLKLKHPPSSNNKRTYSEEEDRFILLMLFKYGLDRDDVYELVRDEIRDCPLFELDFYFRSRTPVEL  281 (374)
T ss_dssp             HHHHHHTTCSSHHHHCCCSSCCCCSSCCCSCHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHCSGGGSCHHHHTCCHHHH
T ss_pred             HHHHHHHHccCCHHHceeccCCCCCCCCccCHHHHHHHHHHHHHhccCCCChHHHHHHHHHhCcchhhhHHHhcCCHHHH
Confidence                                011 1345799999999999998887    5798882           2  236999999


Q ss_pred             HHHHHHHHhHHHh
Q psy15548         90 LERYEFLLYRARR  102 (108)
Q Consensus        90 ~~r~~~~~~~~~~  102 (108)
                      ..|...+++-..+
T Consensus       282 ~rRc~tLi~~IeK  294 (374)
T 2y9y_A          282 ARRGNTLLQCLEK  294 (374)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999976544

>4a69_C Nuclear receptor corepressor 2; transcription, hydrolase; HET: I0P; 2.06A {Homo sapiens} PDB: 1xc5_A

Probab=98.37  E-value=5e-07  Score=54.50  Aligned_cols=44  Identities=25%  Similarity=0.413  Sum_probs=40.2

Q ss_pred             ccCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHHH
Q psy15548         53 KTEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEFL   96 (108)
Q Consensus        53 ~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~   96 (108)
                      ...||++|..++.+++..||.+|..|+. +++||..+|-..|...
T Consensus        43 ~~~WT~eE~~~F~~~~~~~gK~F~~Ia~~l~~Kt~~~cV~~YY~~   87 (94)
T 4a69_C           43 MNMWSEQEKETFREKFMQHPKNFGLIASFLERKTVAECVLYYYLT   87 (94)
T ss_dssp             TCCCCHHHHHHHHHHHHHSTTCHHHHHHTCTTCCHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHcCCCHHHHHHHcCCCCHHHHHHHHhcc
Confidence            3589999999999999999999999999 8999999999888644

>2crg_A Metastasis associated protein MTA3; transcription factor, helix turn helix, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.4.1.3

Probab=98.33  E-value=1e-06  Score=50.39  Aligned_cols=45  Identities=16%  Similarity=0.204  Sum_probs=40.2

Q ss_pred             cccCCCHHHHHHHHHHHhhCCcchhcccc--ccCCCHHHHHHHHHHH
Q psy15548         52 KKTEWSREEDEKLLHLAKLMPTQWRTIAP--IIGRTAAQCLERYEFL   96 (108)
Q Consensus        52 ~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~--~~gRt~~q~~~r~~~~   96 (108)
                      ...+||++|-.+..+++..||.+|..|++  +++||..+|...|...
T Consensus         7 ~~~~WT~eE~~~Fe~~l~~yGKdf~~I~~~~v~~Kt~~~~v~fYY~w   53 (70)
T 2crg_A            7 GMEEWSASEACLFEEALEKYGKDFNDIRQDFLPWKSLTSIIEYYYMW   53 (70)
T ss_dssp             SSCCCCHHHHHHHHHHHHHTCSCHHHHHHTTCSSSCHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHhCccHHHHHHHHcCCCCHHHHHHHHHhh
Confidence            34689999999999999999999999998  5789999999888743

>4b4c_A Chromodomain-helicase-DNA-binding protein 1; chromatin-remodeling, histone acetylation COMP chromatin regulation, transcription; 1.62A {Homo sapiens}

Probab=98.29  E-value=9.4e-06  Score=55.01  Aligned_cols=99  Identities=19%  Similarity=0.152  Sum_probs=71.8

Q ss_pred             CCCcHHHHHHHHHHHHHhC--CCCHHHHHHH--hCCCCHHHHHHHhhhh-------cC----------------------
Q psy15548          2 LKTMTIVDEILKAAVMKYG--KNQWSRIASL--LHRKSAKQCKARWFEW-------LD----------------------   48 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g--~~~W~~Ia~~--~~~R~~~qc~~rw~~~-------l~----------------------   48 (108)
                      ..||..|-..|++++.+||  .+.|..|+..  +.+++...+..-+..+       +.                      
T Consensus         8 ~~~t~~E~r~fira~~kfG~~~~r~~~I~~da~L~~Ks~~~v~~y~~~f~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (211)
T 4b4c_A            8 KGFSDAEIRRFIKSYKKFGGPLERLDAIARDAELVDKSETDLRRLGELVHNGCIKALKDSSSGTERTGGRLGKVKGPTFR   87 (211)
T ss_dssp             CCSCHHHHHHHHHHHTTCSSGGGCHHHHHHHTTCTTSCHHHHHHHHHHHHHHHHHHHC-----------------CCEEE
T ss_pred             CCCCHHHHHHHHHHHHHHCCchhHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccchhhh
Confidence            4799999999999999999  4689999975  5688876665422110       00                      


Q ss_pred             ------------------------------------------CCCcccCCCHHHHHHHHHHHhhCC-cchhcccc--cc-
Q psy15548         49 ------------------------------------------PSIKKTEWSREEDEKLLHLAKLMP-TQWRTIAP--II-   82 (108)
Q Consensus        49 ------------------------------------------~~~~~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~--~~-   82 (108)
                                                                +......||.+||..|+-++.+|| ++|..|-.  -. 
T Consensus        88 ~~~v~~nA~~il~R~~~l~~L~~~v~~~~~~~~~~~i~~~~~~~~~~~~W~~~~D~~LL~Gi~k~G~g~w~~Ir~D~~l~  167 (211)
T 4b4c_A           88 ISGVQVNAKLVISHEEELIPLHKSIPSDPEERKQYTIPCHTKAAHFDIDWGKEDDSNLLIGIYEYGYGSWEMIKMDPDLS  167 (211)
T ss_dssp             ETTEEEEHHHHHHHHHHHHHHHHHSCSSHHHHHTCCCCSCCCCCCSSSCCCHHHHHHHHHHHHHHCTTCHHHHHHCSSSS
T ss_pred             hcccchhHHHHHHhHHHHHHHHHHHHhchhhHHHcCcCCCCCCCCCCCCccHHHHHHHHHHHHHHCcCcHHHHHhChhcC
Confidence                                                      000123599999999999999999 89988754  11 


Q ss_pred             ----------C--CCHHHHHHHHHHHHhHH
Q psy15548         83 ----------G--RTAAQCLERYEFLLYRA  100 (108)
Q Consensus        83 ----------g--Rt~~q~~~r~~~~~~~~  100 (108)
                                .  +++..+..|..++++-.
T Consensus       168 ~~~k~~~~~~~k~p~a~~L~rR~~~Ll~~l  197 (211)
T 4b4c_A          168 LTHKILPDDPDKKPQAKQLQTRADYLIKLL  197 (211)
T ss_dssp             CTTTSSCSSTTSSCCHHHHHHHHHHHHHHH
T ss_pred             ccccccccccccCCChHHHHHHHHHHHHHH
Confidence                      2  35668999988777644

>1ug2_A 2610100B20RIK gene product; hypothetical protein, MYB-like DNA binding domain, structural genomics, riken structural genomics/proteomics initiative; NMR {Mus musculus} SCOP: a.4.1.3

Probab=98.23  E-value=4e-06  Score=49.80  Aligned_cols=46  Identities=17%  Similarity=0.241  Sum_probs=41.7

Q ss_pred             CCCcHHHHHHHHHHHHHhCC--CCHHHHHHHhCCCCHHHHHHHhhhhc
Q psy15548          2 LKTMTIVDEILKAAVMKYGK--NQWSRIASLLHRKSAKQCKARWFEWL   47 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~--~~W~~Ia~~~~~R~~~qc~~rw~~~l   47 (108)
                      +-||.|||..++....+-|.  .-|..||..+++|++.|+.+|++..+
T Consensus        34 vlWTRe~DR~IL~~cQ~~G~s~~tFa~iA~~L~Nks~nqV~~RFq~Lm   81 (95)
T 1ug2_A           34 VLWTREADRVILTMCQEQGAQPHTFSVISQQLGNKTPVEVSHRFRELM   81 (95)
T ss_dssp             SSSCHHHHHHHHHHHHHTTSCTTTHHHHHHHHSSCCHHHHHHHHHHHH
T ss_pred             EEeccccCHHHHHHHHhcCCChhHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            57999999999999999876  37999999999999999999998854

>2ebi_A DNA binding protein GT-1; DNA-binding domain, phosphorylation; HET: DNA; NMR {Arabidopsis thaliana} PDB: 2jmw_A*

Probab=98.07  E-value=2.4e-06  Score=50.45  Aligned_cols=50  Identities=20%  Similarity=0.532  Sum_probs=41.0

Q ss_pred             cccCCCHHHHHHHHHHHhhCC----------cchhcccc-cc----CCCHHHHHHHHHHHHhHHH
Q psy15548         52 KKTEWSREEDEKLLHLAKLMP----------TQWRTIAP-II----GRTAAQCLERYEFLLYRAR  101 (108)
Q Consensus        52 ~~~~Wt~eEd~~L~~~v~~~g----------~~W~~Ia~-~~----gRt~~q~~~r~~~~~~~~~  101 (108)
                      ....||.+|...|++++....          ..|..||. |.    .||+.||+.+|.++.+...
T Consensus         3 R~~~Wt~~Et~~Li~~~~e~~~~f~~~~~~~~~W~~Ia~~m~~~G~~rs~~qC~~K~~nL~k~Yk   67 (86)
T 2ebi_A            3 RAETWVQDETRSLIMFRRGMDGLFNTSKSNKHLWEQISSKMREKGFDRSPDMCTDKWRNLLKEFK   67 (86)
T ss_dssp             CSCCCCHHHHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHC
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHHccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Confidence            356899999999999986422          26999999 63    4999999999999988754

>2lr8_A CAsp8-associated protein 2; structural genomics, northeast structural genomics consortiu PSI-biology, apoptosis; NMR {Homo sapiens}

Probab=97.32  E-value=5.6e-07  Score=50.72  Aligned_cols=46  Identities=17%  Similarity=0.251  Sum_probs=41.1

Q ss_pred             CCCcHHHHHHHHHHHHHhCC--CCHHHHHHHhCCCCHHHHHHHhhhhcC
Q psy15548          2 LKTMTIVDEILKAAVMKYGK--NQWSRIASLLHRKSAKQCKARWFEWLD   48 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~--~~W~~Ia~~~~~R~~~qc~~rw~~~l~   48 (108)
                      +-||.|||..|+..+.+-|.  .-|..||..+ +|++.|+..||+..+.
T Consensus        15 vlWTReeDR~IL~~cq~~G~s~~tfa~iA~~L-nks~~QV~~RF~~Lm~   62 (70)
T 2lr8_A           15 ILWTRNDDRVILLECQKRGPSSKTFAYLAAKL-DKNPNQVSERFQQLMK   62 (70)
Confidence            57999999999999999886  3799999999 8999999999988654

>2ebi_A DNA binding protein GT-1; DNA-binding domain, phosphorylation; HET: DNA; NMR {Arabidopsis thaliana} PDB: 2jmw_A*

Probab=98.03  E-value=4.7e-06  Score=49.17  Aligned_cols=46  Identities=17%  Similarity=0.284  Sum_probs=38.5

Q ss_pred             CCCcHHHHHHHHHHHHHhCC---------CCHHHHHHHhC----CCCHHHHHHHhhhhc
Q psy15548          2 LKTMTIVDEILKAAVMKYGK---------NQWSRIASLLH----RKSAKQCKARWFEWL   47 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~---------~~W~~Ia~~~~----~R~~~qc~~rw~~~l   47 (108)
                      ..||.+|-..|+++......         ..|..||..|.    .||+.||+.+|.++.
T Consensus         5 ~~Wt~~Et~~Li~~~~e~~~~f~~~~~~~~~W~~Ia~~m~~~G~~rs~~qC~~K~~nL~   63 (86)
T 2ebi_A            5 ETWVQDETRSLIMFRRGMDGLFNTSKSNKHLWEQISSKMREKGFDRSPDMCTDKWRNLL   63 (86)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            57999999999999976321         26999999876    799999999998753

>4iej_A DNA methyltransferase 1-associated protein 1; DNA methylation, chromatin regulator, repressor, structural joint center for structural genomics; HET: DNA; 1.45A {Homo sapiens} PDB: 3hm5_A*

Probab=97.85  E-value=4.7e-05  Score=45.55  Aligned_cols=44  Identities=11%  Similarity=0.170  Sum_probs=40.4

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCHHHHHHHhC-----CCCHHHHHHHhhhhc
Q psy15548          3 KTMTIVDEILKAAVMKYGKNQWSRIASLLH-----RKSAKQCKARWFEWL   47 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~-----~R~~~qc~~rw~~~l   47 (108)
                      .||.||...|.+++..|.- .|..|+....     .||..++++||..+.
T Consensus        32 ~WT~eETd~LfdLc~~fdl-Rw~vI~DRy~~~~~~~RtvEdLK~RYY~V~   80 (93)
T 4iej_A           32 AWTKAETDHLFDLSRRFDL-RFVVIHDRYDHQQFKKRSVEDLKERYYHIC   80 (93)
T ss_dssp             TBCHHHHHHHHHHHHHTTT-CHHHHHHHCCTTTSCCCCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCC-CeEEEeeccccCCCCCCCHHHHHHHHHHHH
Confidence            7999999999999999997 9999999764     799999999998764

>1irz_A ARR10-B; helix-turn-helix, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: a.4.1.11

Probab=97.13  E-value=0.0024  Score=35.55  Aligned_cols=45  Identities=13%  Similarity=0.142  Sum_probs=38.6

Q ss_pred             CCCcHHHHHHHHHHHHHhCCC--CHHHHHHHhC--CCCHHHHHHHhhhh
Q psy15548          2 LKTMTIVDEILKAAVMKYGKN--QWSRIASLLH--RKSAKQCKARWFEW   46 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~--~W~~Ia~~~~--~R~~~qc~~rw~~~   46 (108)
                      +.||+|..+.+.++|+..|..  -++.|.+.|+  +.|..++..|.+.|
T Consensus         8 ~~WT~elH~~Fv~Av~~LG~~~AtPk~Il~~M~v~gLT~~~VkSHLQKY   56 (64)
T 1irz_A            8 VLWTHELHNKFLAAVDHLGVERAVPKKILDLMNVDKLTRENVASHLQKF   56 (64)
T ss_dssp             CSSCHHHHHHHHHHHHHHCTTTCCHHHHHHHHCCTTCCHHHHHHHHHHH
T ss_pred             CcCCHHHHHHHHHHHHHhCCCCCCcHHHHHHcCCCCCCHHHHHHHHHHH
Confidence            579999999999999999953  3889999887  78999998887654

>2xb0_X Chromo domain-containing protein 1; hydrolase, DNA-binding protein, transcription, chromatin REG; HET: GOL; 2.00A {Saccharomyces cerevisiae} PDB: 3ted_A

Probab=96.99  E-value=0.00063  Score=48.03  Aligned_cols=28  Identities=32%  Similarity=0.478  Sum_probs=26.2

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHH
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIAS   29 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~   29 (108)
                      +.|+.+||..|+.+|.+||.|+|..|..
T Consensus       169 c~W~~~dD~~LLvGIykyGyG~We~Ir~  196 (270)
T 2xb0_X          169 SNWTKEEDEKLLIGVFKYGYGSWTQIRD  196 (270)
T ss_dssp             SCCCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             CCcChHHHHHHHHHHHHHcCCcHHHHhc
Confidence            4699999999999999999999999985

>4b4c_A Chromodomain-helicase-DNA-binding protein 1; chromatin-remodeling, histone acetylation COMP chromatin regulation, transcription; 1.62A {Homo sapiens}

Probab=96.79  E-value=0.0012  Score=44.46  Aligned_cols=27  Identities=22%  Similarity=0.293  Sum_probs=25.7

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCHHHHHH
Q psy15548          3 KTMTIVDEILKAAVMKYGKNQWSRIAS   29 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~   29 (108)
                      .||++||..|+.+|.+||.++|..|-.
T Consensus       136 ~W~~~~D~~LL~Gi~k~G~g~w~~Ir~  162 (211)
T 4b4c_A          136 DWGKEDDSNLLIGIYEYGYGSWEMIKM  162 (211)
T ss_dssp             CCCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCcCcHHHHHh
Confidence            699999999999999999999999986

>1ofc_X ISWI protein; nuclear protein, chromatin remodeling factor, ATPase, SANT domain, nucleosome recognition; HET: GLC G4D; 1.9A {Drosophila melanogaster} SCOP: a.4.1.3 a.4.1.13 a.187.1.1 PDB: 2nog_A

Probab=96.43  E-value=0.0046  Score=44.30  Aligned_cols=46  Identities=17%  Similarity=0.286  Sum_probs=39.6

Q ss_pred             CCcHHHHHHHHHHHHHhCC---CCHHHHHH------------HhCCCCHHHHHHHhhhhcC
Q psy15548          3 KTMTIVDEILKAAVMKYGK---NQWSRIAS------------LLHRKSAKQCKARWFEWLD   48 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~---~~W~~Ia~------------~~~~R~~~qc~~rw~~~l~   48 (108)
                      .||.+||..|+-++.+||.   ++|..|..            ++..||+.++..|-..++.
T Consensus       214 ~yteeEDRfLL~~l~k~G~~~~g~we~Ir~~Ir~~p~FrFDwf~kSRTp~el~rRc~tLi~  274 (304)
T 1ofc_X          214 NYTEIEDRFLVCMLHKLGFDKENVYEELRAAIRASPQFRFDWFIKSRTALELQRRCNTLIT  274 (304)
T ss_dssp             SCCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHCGGGTTCHHHHTCCHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHhcCCCcchHHHHHHHHHhCcchhhhHHHhcCCHHHHHHHHHHHHH
Confidence            6999999999999999999   99999973            3447999999999876543

>1irz_A ARR10-B; helix-turn-helix, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: a.4.1.11

Probab=96.31  E-value=0.014  Score=32.39  Aligned_cols=48  Identities=13%  Similarity=0.134  Sum_probs=38.7

Q ss_pred             CcccCCCHHHHHHHHHHHhhCCcc---hhcccc-c--cCCCHHHHHHHHHHHHh
Q psy15548         51 IKKTEWSREEDEKLLHLAKLMPTQ---WRTIAP-I--IGRTAAQCLERYEFLLY   98 (108)
Q Consensus        51 ~~~~~Wt~eEd~~L~~~v~~~g~~---W~~Ia~-~--~gRt~~q~~~r~~~~~~   98 (108)
                      ..+-.||+|....++++|...|.+   +..|.+ |  +|.|..+|+++.+.+..
T Consensus         5 k~r~~WT~elH~~Fv~Av~~LG~~~AtPk~Il~~M~v~gLT~~~VkSHLQKYR~   58 (64)
T 1irz_A            5 KPRVLWTHELHNKFLAAVDHLGVERAVPKKILDLMNVDKLTRENVASHLQKFRV   58 (64)
T ss_dssp             CSSCSSCHHHHHHHHHHHHHHCTTTCCHHHHHHHHCCTTCCHHHHHHHHHHHHH
T ss_pred             CCCCcCCHHHHHHHHHHHHHhCCCCCCcHHHHHHcCCCCCCHHHHHHHHHHHHH
Confidence            345689999999999999999964   567777 3  57999999998776544

>2xb0_X Chromo domain-containing protein 1; hydrolase, DNA-binding protein, transcription, chromatin REG; HET: GOL; 2.00A {Saccharomyces cerevisiae} PDB: 3ted_A

Probab=94.56  E-value=0.018  Score=40.64  Aligned_cols=35  Identities=20%  Similarity=0.145  Sum_probs=27.3

Q ss_pred             CCCcHHHHHHHHHHHHHhCC--CCHHHHHH--HhCCCCH
Q psy15548          2 LKTMTIVDEILKAAVMKYGK--NQWSRIAS--LLHRKSA   36 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~--~~W~~Ia~--~~~~R~~   36 (108)
                      .+||.-|-..|++++.+||.  ..|..|+.  .|+.++.
T Consensus         4 ~~ltekEiR~l~Ra~~kfG~~~~R~e~I~~dA~L~~ks~   42 (270)
T 2xb0_X            4 GSIGESEVRALYKAILKFGNLKEILDELIADGTLPVKSF   42 (270)
T ss_dssp             CCCCHHHHHHHHHHHHHHSSCTTCHHHHHHTTSSCCCCH
T ss_pred             CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHhcccccCCH
Confidence            57999999999999999995  47888875  3445554

>2y9y_A Imitation switch protein 1 (DEL_ATPase); transcription, nuclear protein complex, chromatin remodeling nucleosome remodeling; 3.25A {Saccharomyces cerevisiae} PDB: 2y9z_A

Probab=94.07  E-value=0.094  Score=38.53  Aligned_cols=45  Identities=13%  Similarity=0.180  Sum_probs=37.8

Q ss_pred             CCcHHHHHHHHHHHHHhCC---CCHHHHHHH------------hCCCCHHHHHHHhhhhc
Q psy15548          3 KTMTIVDEILKAAVMKYGK---NQWSRIASL------------LHRKSAKQCKARWFEWL   47 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~---~~W~~Ia~~------------~~~R~~~qc~~rw~~~l   47 (108)
                      -||.+||.-|+-++.+||.   ++|..|-..            +..||+..+..|-..++
T Consensus       230 ~yteeEDRfLL~~l~k~G~~~~g~we~Ir~~Ir~~p~FrFDwF~kSRT~~EL~rRc~tLi  289 (374)
T 2y9y_A          230 TYSEEEDRFILLMLFKYGLDRDDVYELVRDEIRDCPLFELDFYFRSRTPVELARRGNTLL  289 (374)
T ss_dssp             CSCHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHCSGGGSCHHHHTCCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHhccCCCChHHHHHHHHHhCcchhhhHHHhcCCHHHHHHHHHHHH
Confidence            4899999999999999999   899999654            33799999998876543

>2rq5_A Protein jumonji; developmental protein, nucleus, repressor, transcription, transcription regulation; NMR {Mus musculus}

Probab=91.25  E-value=0.29  Score=30.32  Aligned_cols=56  Identities=16%  Similarity=0.297  Sum_probs=41.3

Q ss_pred             HHHHHHHHhCC-------CCHHHHHHHhCC-----CCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHh
Q psy15548         11 ILKAAVMKYGK-------NQWSRIASLLHR-----KSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAK   69 (108)
Q Consensus        11 ~L~~~v~~~g~-------~~W~~Ia~~~~~-----R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~   69 (108)
                      .|..+|.+.|.       +.|.+||..|+-     -.....+..|..+|.|-   ...+++|-..|.+-|.
T Consensus        46 ~Ly~~V~~~GG~~~Vt~~k~W~~Va~~lg~p~~~~sa~~~Lr~~Y~k~L~~Y---E~~~~~e~~~l~~~v~  113 (121)
T 2rq5_A           46 CFFRLINEMGGMQQVTDLKKWNKLADMLRIPKTAQDRLAKLQEAYCQYLLSY---DSLSPEEHRRLEKEVL  113 (121)
T ss_dssp             HHHHHHHHTTSHHHHHHTTCHHHHHHHTCCCTTCSSHHHHHHHHHHTTHHHH---HHCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCcHHHhcccCcHHHHHHHhCCCCCcCcHHHHHHHHHHHHhHHH---HCcCHHHHhhHHHHHH
Confidence            56677777765       489999999862     12567788999888753   3488899998887664

>2li6_A SWI/SNF chromatin-remodeling complex subunit SWI1; ligand binding, DNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=90.83  E-value=0.24  Score=30.30  Aligned_cols=39  Identities=33%  Similarity=0.498  Sum_probs=30.3

Q ss_pred             HHHHHHHHhCC-------CCHHHHHHHhCCCCHHHHHHHhhhhcCC
Q psy15548         11 ILKAAVMKYGK-------NQWSRIASLLHRKSAKQCKARWFEWLDP   49 (108)
Q Consensus        11 ~L~~~v~~~g~-------~~W~~Ia~~~~~R~~~qc~~rw~~~l~~   49 (108)
                      .|..+|...|.       +.|.+||..|+--.+..++..|..+|.|
T Consensus        53 ~Ly~~V~~~GG~~~V~~~~~W~~Va~~lg~~~~~~Lr~~Y~k~L~~   98 (116)
T 2li6_A           53 YLYMLVQKFGGADQVTRTQQWSMVAQRLQISDYQQLESIYFRILLP   98 (116)
T ss_dssp             HHHHHHHHHTSHHHHHHTTCHHHHHHHHTSCCTTHHHHHHHHHHSH
T ss_pred             HHHHHHHHhcCHHHccccCcHHHHHHHhCCChHHHHHHHHHHHHHH
Confidence            46677777765       3799999999855578888888888764

>2jrz_A Histone demethylase jarid1C; bright/ARID domain, helical, structural genomics, structural genomics consortium, SGC, oxidoreductase; NMR {Homo sapiens} PDB: 2yqe_A

Probab=87.59  E-value=1.4  Score=26.83  Aligned_cols=39  Identities=21%  Similarity=0.394  Sum_probs=28.9

Q ss_pred             HHHHHHHHhCC-------CCHHHHHHHhCCCC----HHHHHHHhhhhcCC
Q psy15548         11 ILKAAVMKYGK-------NQWSRIASLLHRKS----AKQCKARWFEWLDP   49 (108)
Q Consensus        11 ~L~~~v~~~g~-------~~W~~Ia~~~~~R~----~~qc~~rw~~~l~~   49 (108)
                      .|..+|...|.       +.|.+||..|+--.    ..+.+..|.++|.|
T Consensus        44 ~Ly~~V~~~GG~~~V~~~~~W~~Va~~lg~~~~~~a~~~Lk~~Y~k~L~~   93 (117)
T 2jrz_A           44 SLSKIVVEEGGYEAICKDRRWARVAQRLNYPPGKNIGSLLRSHYERIVYP   93 (117)
T ss_dssp             HHHHHHHHHTCHHHHHHTTTHHHHHHHTTCCTTCTHHHHHHHHHHHTTHH
T ss_pred             HHHHHHHHccCHHHhcccCcHHHHHHHhCCCCCCcHHHHHHHHHHHHHHH
Confidence            57778888775       37999999987322    56778888887754

>2lm1_A Lysine-specific demethylase LID; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Drosophila melanogaster}

Probab=86.95  E-value=0.85  Score=27.25  Aligned_cols=39  Identities=26%  Similarity=0.449  Sum_probs=27.7

Q ss_pred             HHHHHHHHhCC-------CCHHHHHHHhCCCC----HHHHHHHhhhhcCC
Q psy15548         11 ILKAAVMKYGK-------NQWSRIASLLHRKS----AKQCKARWFEWLDP   49 (108)
Q Consensus        11 ~L~~~v~~~g~-------~~W~~Ia~~~~~R~----~~qc~~rw~~~l~~   49 (108)
                      .|..+|.+.|.       +.|.+||..|+--.    ..+.+..|.++|.|
T Consensus        48 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~lk~~Y~k~L~~   97 (107)
T 2lm1_A           48 TLHRIVQEEGGMEQTTKDRKWAKVANRMQYPSSKSVGATLKAHYERILHP   97 (107)
T ss_dssp             HHHHHHHHHTCHHHHHHHTTHHHHHHHTTCCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHhcccCcHHHHHHHhCCCCCCcHHHHHHHHHHHHhHH
Confidence            56777777765       37999999997322    46777778776653

>1ig6_A MRF-2, modulator recognition factor 2; DNA binding protein, DNA-binding motif, protein-DNA interaction; NMR {Homo sapiens} SCOP: a.4.3.1 PDB: 2oeh_A

Probab=86.80  E-value=0.69  Score=27.71  Aligned_cols=39  Identities=23%  Similarity=0.330  Sum_probs=28.3

Q ss_pred             HHHHHHHHhCC-------CCHHHHHHHhCCC-----CHHHHHHHhhhhcCC
Q psy15548         11 ILKAAVMKYGK-------NQWSRIASLLHRK-----SAKQCKARWFEWLDP   49 (108)
Q Consensus        11 ~L~~~v~~~g~-------~~W~~Ia~~~~~R-----~~~qc~~rw~~~l~~   49 (108)
                      .|..+|...|.       +.|.+||..|+--     ...+++..|.++|.+
T Consensus        37 ~Ly~~V~~~GG~~~V~~~~~W~~Va~~lg~~~~~~s~~~~Lk~~Y~k~L~~   87 (107)
T 1ig6_A           37 TMFQAAQKLGGYETITARRQWKHIYDELGGNPGSTSAATCTRRHYERLILP   87 (107)
T ss_dssp             HHHHHHHHTTHHHHHHHHTTHHHHHHHHTCCTTCTTTTTTHHHHHHHHTTT
T ss_pred             HHHHHHHHhcCHHHhcccCcHHHHHHHhCCCCCCCcHHHHHHHHHHHHHHH
Confidence            46677777764       3799999998721     246788888888875

>2jxj_A Histone demethylase jarid1A; ARID domain, chromatin regulator, developmental protein, dioxygenase, iron, metal-binding, nucleus, oxidoreductase; NMR {Homo sapiens}

Probab=85.80  E-value=1.4  Score=25.78  Aligned_cols=39  Identities=26%  Similarity=0.373  Sum_probs=26.8

Q ss_pred             HHHHHHHHhCC-------CCHHHHHHHhCCC----CHHHHHHHhhhhcCC
Q psy15548         11 ILKAAVMKYGK-------NQWSRIASLLHRK----SAKQCKARWFEWLDP   49 (108)
Q Consensus        11 ~L~~~v~~~g~-------~~W~~Ia~~~~~R----~~~qc~~rw~~~l~~   49 (108)
                      .|..+|.+.|.       +.|.+||..|+--    ...+++..|.++|.|
T Consensus        40 ~Ly~~V~~~GG~~~V~~~~~W~~v~~~lg~~~~~~~~~~Lk~~Y~k~L~~   89 (96)
T 2jxj_A           40 ALSKIVASKGGFEMVTKEKKWSKVGSRLGYLPGKGTGSLLKSHYERILYP   89 (96)
T ss_dssp             HHHHHHHHHHTTHHHHHHTTHHHHHHHHTCCSCSCHHHHHHHHHTTTTHH
T ss_pred             HHHHHHHHcCCHHHHccCCcHHHHHHHhCCCCcCcHHHHHHHHHHHHHHH
Confidence            46666776653       4799999998721    256778888777653

>1kkx_A Transcription regulatory protein ADR6; ARID, DNA-binding domain, DNA binding protein; NMR {Saccharomyces cerevisiae} SCOP: a.4.3.1 PDB: 1kn5_A

Probab=85.18  E-value=0.49  Score=29.30  Aligned_cols=39  Identities=33%  Similarity=0.498  Sum_probs=29.1

Q ss_pred             HHHHHHHHhCC-------CCHHHHHHHhCCCCHHHHHHHhhhhcCC
Q psy15548         11 ILKAAVMKYGK-------NQWSRIASLLHRKSAKQCKARWFEWLDP   49 (108)
Q Consensus        11 ~L~~~v~~~g~-------~~W~~Ia~~~~~R~~~qc~~rw~~~l~~   49 (108)
                      .|..+|.+.|.       +.|.+||..|+--.+..++..|.++|.|
T Consensus        52 ~Ly~~V~~~GG~~~V~~~k~W~~Va~~lg~~~~~~Lr~~Y~k~L~~   97 (123)
T 1kkx_A           52 YLYMLVQKFGGADQVTRTQQWSMVAQRLQISDYQQLESIYFRILLP   97 (123)
T ss_dssp             HHHHHHTTTSCHHHHTTSHHHHHHHHHHTCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHhccccccHHHHHHHHCCChHHHHHHHHHHHHHH
Confidence            45666766654       3799999999855588888888887654

>2cxy_A BAF250B subunit, HBAF250B; DNA-binding domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.60A {Homo sapiens} PDB: 2eh9_A 1ryu_A

Probab=84.99  E-value=2.2  Score=26.27  Aligned_cols=39  Identities=23%  Similarity=0.414  Sum_probs=28.1

Q ss_pred             HHHHHHHHhCC-------CCHHHHHHHhCCCC----HHHHHHHhhhhcCC
Q psy15548         11 ILKAAVMKYGK-------NQWSRIASLLHRKS----AKQCKARWFEWLDP   49 (108)
Q Consensus        11 ~L~~~v~~~g~-------~~W~~Ia~~~~~R~----~~qc~~rw~~~l~~   49 (108)
                      .|..+|...|.       +.|.+||..|+--+    ..+++..|.++|.|
T Consensus        55 ~Ly~~V~~~GG~~~V~~~~~W~~Va~~lg~~~~~s~~~~Lk~~Y~k~L~~  104 (125)
T 2cxy_A           55 RLYVCVKEIGGLAQVNKNKKWRELATNLNVGTSSSAASSLKKQYIQYLFA  104 (125)
T ss_dssp             HHHHHHHHHTSHHHHHHHTCHHHHHHHTTSCSSHHHHHHHHHHHHHHTHH
T ss_pred             HHHHHHHHcCCHHHhcccCcHHHHHHHhCCCCCCcHHHHHHHHHHHHHHH
Confidence            56777777765       37999999987322    46778888877653

>2p1m_A SKP1-like protein 1A; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_A* 2p1o_A* 2p1p_A* 2p1q_A* 3c6n_A* 3c6o_A* 3c6p_A* 3ogk_A* 3ogl_A* 3ogm_A*

Probab=84.35  E-value=1.9  Score=27.55  Aligned_cols=36  Identities=19%  Similarity=0.465  Sum_probs=27.7

Q ss_pred             HHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHH
Q psy15548         24 WSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLH   66 (108)
Q Consensus        24 W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~   66 (108)
                      -..||..+.|+|+.+||..+.      + ...+|+||++.+.+
T Consensus       118 c~~vA~~ikgkt~eeir~~f~------I-~nd~t~eEe~~ir~  153 (160)
T 2p1m_A          118 CQTVADMIKGKTPEEIRTTFN------I-KNDFTPEEEEEVRR  153 (160)
T ss_dssp             HHHHHHTTTTCCHHHHHHHTT------C-CCCCCHHHHHHHHH
T ss_pred             HHHHHHHHcCCCHHHHHHHcC------C-CCCCCHHHHHHHHH
Confidence            467888999999999998652      1 22599999987654

>2jvw_A Uncharacterized protein; solution structure, alpha helical protein, structural GE unknown function, PSI-2, protein structure initiative; NMR {Vibrio fischeri}

Probab=83.89  E-value=1.6  Score=25.38  Aligned_cols=48  Identities=27%  Similarity=0.574  Sum_probs=33.5

Q ss_pred             HHHHHHHHHHhCCCCHHHHHHHhCCC------CHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHH
Q psy15548          9 DEILKAAVMKYGKNQWSRIASLLHRK------SAKQCKARWFEWLDPSIKKTEWSREEDEKLLHL   67 (108)
Q Consensus         9 d~~L~~~v~~~g~~~W~~Ia~~~~~R------~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~   67 (108)
                      +..|.++|+.||   |...+..++-+      +..+|-.-        +++.+|-.+..+.|.-.
T Consensus        18 E~ilt~Lv~~YG---W~~L~~~i~I~CF~~~PSikSSLKF--------LRKTpWAR~KVE~lYL~   71 (88)
T 2jvw_A           18 QKLLTELVEHYG---WEELSYMVNINCFKKDPSIKSSLKF--------LRKTDWARERVENIYLK   71 (88)
T ss_dssp             HHHHHHHHHHTC---HHHHHHHTTSSSTTSSCCHHHHHHH--------HHHSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC---HHHHHhhcccccCCCCCchHHHHHH--------HhcCHhHHHHHHHHHHH
Confidence            567889999998   99999988732      23332221        35679999888876543

>2eqy_A RBP2 like, jumonji, at rich interactive domain 1B; ARID domain, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=83.37  E-value=2.5  Score=25.88  Aligned_cols=39  Identities=21%  Similarity=0.423  Sum_probs=27.7

Q ss_pred             HHHHHHHHhCC-------CCHHHHHHHhCCCC----HHHHHHHhhhhcCC
Q psy15548         11 ILKAAVMKYGK-------NQWSRIASLLHRKS----AKQCKARWFEWLDP   49 (108)
Q Consensus        11 ~L~~~v~~~g~-------~~W~~Ia~~~~~R~----~~qc~~rw~~~l~~   49 (108)
                      .|..+|.+.|.       +.|.+|+..|+-.+    ..+.+..|.++|.|
T Consensus        46 ~Ly~~V~~~GG~~~V~~~k~W~~V~~~lg~~~~~~~~~~Lr~~Y~k~L~~   95 (122)
T 2eqy_A           46 QLNKLVAEEGGFAVVCKDRKWTKIATKMGFAPGKAVGSHIRGHYERILNP   95 (122)
T ss_dssp             HHHHHHHHHTCHHHHHHTTTHHHHHHHTTCCSSSHHHHHHHHHHHHTHHH
T ss_pred             HHHHHHHHccCHHHHcCCCcHHHHHHHhCCCCCCcHHHHHHHHHHHHhHH
Confidence            56777887775       37999999987322    35777788777653

>2o8x_A Probable RNA polymerase sigma-C factor; promoter recognition, transcription regulation, helix-turn-H motif, transcription; 3.00A {Mycobacterium tuberculosis}

Probab=83.19  E-value=1.7  Score=23.06  Aligned_cols=45  Identities=16%  Similarity=0.179  Sum_probs=32.4

Q ss_pred             CCCHHHHHHHHHHHhhCCcchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548         55 EWSREEDEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRA  100 (108)
Q Consensus        55 ~Wt~eEd~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~  100 (108)
                      ..++.+-. ++.+.-..|.+..+||...|-|...++.+....++..
T Consensus        15 ~L~~~~r~-il~l~~~~g~s~~eIA~~lgis~~tv~~~~~ra~~~l   59 (70)
T 2o8x_A           15 DLTTDQRE-ALLLTQLLGLSYADAAAVCGCPVGTIRSRVARARDAL   59 (70)
T ss_dssp             SSCHHHHH-HHHHHHTSCCCHHHHHHHHTSCHHHHHHHHHHHHHHH
T ss_pred             hCCHHHHH-HHHHHHHcCCCHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence            35555544 4445446788999999988999999988877666554

>1c20_A DEAD ringer protein; DNA-binding domain, ARID, AT-rich interaction domain, DNA- binding protein; NMR {Drosophila melanogaster} SCOP: a.4.3.1 PDB: 1kqq_A

Probab=82.19  E-value=3.2  Score=25.55  Aligned_cols=39  Identities=26%  Similarity=0.431  Sum_probs=28.8

Q ss_pred             HHHHHHHHhCC-------CCHHHHHHHhCCC-----CHHHHHHHhhhhcCC
Q psy15548         11 ILKAAVMKYGK-------NQWSRIASLLHRK-----SAKQCKARWFEWLDP   49 (108)
Q Consensus        11 ~L~~~v~~~g~-------~~W~~Ia~~~~~R-----~~~qc~~rw~~~l~~   49 (108)
                      .|..+|...|.       +.|.+||..|+--     ...+++..|.++|.|
T Consensus        56 ~Ly~~V~~~GG~~~V~~~k~W~~Va~~lg~~~~~~sa~~~Lk~~Y~k~L~~  106 (128)
T 1c20_A           56 ELYNLVIARGGLVDVINKKLWQEIIKGLHLPSSITSAAFTLRTQYMKYLYP  106 (128)
T ss_dssp             HHHHHHHHHTCHHHHHHHTTHHHHHHHTCCCSSCCSHHHHHHHHHHHHTHH
T ss_pred             HHHHHHHHhcCHHHcCccCcHHHHHHHhCCCCCCCcHHHHHHHHHHHHHHH
Confidence            56777777775       4799999998721     256778888888765

>1ku3_A Sigma factor SIGA; helix-turn-helix, transcription; 1.80A {Thermus aquaticus} SCOP: a.4.13.2 PDB: 1ku7_A 1rio_H 3n97_A*

Probab=81.24  E-value=2.3  Score=23.07  Aligned_cols=47  Identities=15%  Similarity=0.069  Sum_probs=33.4

Q ss_pred             CCCHHHHHHHHHHHhh---CCcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548         55 EWSREEDEKLLHLAKL---MPTQWRTIAPIIGRTAAQCLERYEFLLYRAR  101 (108)
Q Consensus        55 ~Wt~eEd~~L~~~v~~---~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~  101 (108)
                      .-++.|-+.|.-.+-.   .|.++.+||..+|-|...|+.+....++...
T Consensus        10 ~L~~~er~il~l~~~l~~~~~~s~~eIA~~l~is~~tV~~~~~ra~~kLr   59 (73)
T 1ku3_A           10 KLSEREAMVLKMRKGLIDGREHTLEEVGAYFGVTRERIRQIENKALRKLK   59 (73)
T ss_dssp             TSCHHHHHHHHHHHTTTTSSCCCHHHHHHHHTCCHHHHHHHHHHHHHHHH
T ss_pred             hCCHHHHHHHHHHHhcccCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence            3455555554443321   5789999999999999999988877776654

>2kk0_A AT-rich interactive domain-containing protein 3A; DEAD ringer, AT-rich interaction domain, NESG, ARID, cytopla binding, nucleus, phosphoprotein; NMR {Homo sapiens}

Probab=80.38  E-value=8.2  Score=24.29  Aligned_cols=52  Identities=21%  Similarity=0.300  Sum_probs=34.4

Q ss_pred             HHHHHHHHhCC-------CCHHHHHHHhCCC-----CHHHHHHHhhhhcCCC--CcccCCCHHHHH
Q psy15548         11 ILKAAVMKYGK-------NQWSRIASLLHRK-----SAKQCKARWFEWLDPS--IKKTEWSREEDE   62 (108)
Q Consensus        11 ~L~~~v~~~g~-------~~W~~Ia~~~~~R-----~~~qc~~rw~~~l~~~--~~~~~Wt~eEd~   62 (108)
                      .|..+|...|.       +.|.+||..|+--     ...+++..|.++|.|-  ..+|.=+++|-.
T Consensus        68 ~Ly~~V~~~GG~~~V~~~~~W~~Va~~lg~~~~~tsa~~~Lk~~Y~k~L~~yE~~~~g~~~p~~~~  133 (145)
T 2kk0_A           68 MLYVLVTEKGGLVEVINKKLWREITKGLNLPTSITSAAFTLRTQYMKYLYPYECEKRGLSNPNELQ  133 (145)
T ss_dssp             HHHHHHHHHTCHHHHHHHTCHHHHHHHTTCCTTSTTHHHHHHHHHHHHSSHHHHHHTCCCCHHHHH
T ss_pred             HHHHHHHHhCCHHHhcccCcHHHHHHHhCCCCCcCcHHHHHHHHHHHHHHHHHHHHhcCCCHHHHH
Confidence            56777777765       4799999998721     2567888898888762  223444444443

>3v7d_A Suppressor of kinetochore protein 1; WD 40 domain, phospho-peptide complex, E3 ubiquitin ligase, cell cycle, phospho binding protein, phosphorylation; HET: SEP; 2.31A {Saccharomyces cerevisiae} PDB: 1nex_A* 3mks_A*

Probab=80.33  E-value=3.1  Score=26.87  Aligned_cols=35  Identities=11%  Similarity=0.301  Sum_probs=27.6

Q ss_pred             HHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHH
Q psy15548         24 WSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLL   65 (108)
Q Consensus        24 W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~   65 (108)
                      -..||..+.|+|+.++|..+. +      ...+|+||++.+.
T Consensus       126 c~~vA~~ikgktpeeiR~~f~-I------~nd~t~eEe~~ir  160 (169)
T 3v7d_A          126 CKVVAEMIRGRSPEEIRRTFN-I------VNDFTPEEEAAIR  160 (169)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHT-C------CCCCCHHHHHHHH
T ss_pred             HHHHHHHHcCCCHHHHHHHcC-C------CCCCCHHHHHHHH
Confidence            577899999999999998662 1      2259999998764

---

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	108
d1igna1	86	a.4.1.6 (A:360-445) DNA-binding domain of rap1 {Ba	2e-11
d1igna1	86	a.4.1.6 (A:360-445) DNA-binding domain of rap1 {Ba	0.002
d1guua_	50	a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus	8e-10
d1guua_	50	a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus	2e-06
d1gvda_	52	a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus	2e-09
d1gvda_	52	a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus	3e-06
d2cu7a1	65	a.4.1.3 (A:8-72) MYSM1 (KIAA1915) {Human (Homo sap	3e-08
d2cu7a1	65	a.4.1.3 (A:8-72) MYSM1 (KIAA1915) {Human (Homo sap	5e-05
d2cjja1	63	a.4.1.3 (A:8-70) Radialis {Garden snapdragon (Anti	3e-07
d2cjja1	63	a.4.1.3 (A:8-70) Radialis {Garden snapdragon (Anti	1e-05
d1ug2a_	95	a.4.1.3 (A:) 2610100b20rik gene product {Mouse (Mu	4e-07
d1gv2a2	47	a.4.1.3 (A:144-190) c-Myb, DNA-binding domain {Mou	3e-06
d1gv2a2	47	a.4.1.3 (A:144-190) c-Myb, DNA-binding domain {Mou	0.001
d2ckxa1	83	a.4.1.3 (A:578-660) Telomere binding protein TBP1	5e-06
d2cqra1	60	a.4.1.3 (A:7-66) DnaJ homolog subfamily C member 1	2e-05
d2cqra1	60	a.4.1.3 (A:7-66) DnaJ homolog subfamily C member 1	0.002
d1xc5a1	68	a.4.1.3 (A:413-480) Nuclear receptor corepressor 2	2e-05
d1xc5a1	68	a.4.1.3 (A:413-480) Nuclear receptor corepressor 2	4e-05
d1x41a1	47	a.4.1.1 (A:8-54) Transcriptional adaptor 2-like, T	4e-05
d1x41a1	47	a.4.1.1 (A:8-54) Transcriptional adaptor 2-like, T	0.001
d2iw5b1	65	a.4.1.3 (B:376-440) REST corepressor 1, CoREST {Hu	8e-05
d2iw5b1	65	a.4.1.3 (B:376-440) REST corepressor 1, CoREST {Hu	7e-04
d1w0ua_	55	a.4.1.4 (A:) Telomeric repeat binding factor 2, TR	9e-05
d1w0ua_	55	a.4.1.4 (A:) Telomeric repeat binding factor 2, TR	1e-04
d1w0ta_	52	a.4.1.4 (A:) DNA-binding domain of human telomeric	2e-04
d1w0ta_	52	a.4.1.4 (A:) DNA-binding domain of human telomeric	0.002
d2cqqa1	59	a.4.1.3 (A:8-66) DnaJ homolog subfamily C member 1	0.001

>d1igna1 a.4.1.6 (A:360-445) DNA-binding domain of rap1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 86

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: DNA-binding domain of rap1
domain: DNA-binding domain of rap1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 53.4 bits (128), Expect = 2e-11
 Identities = 9/72 (12%), Positives = 25/72 (34%), Gaps = 6/72 (8%)

Query: 9  DEILKAAVMKYGKNQ-----WSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEK 63
          DE +   V K    +     +  I+  +   +    + R+  +L   ++      +  + 
Sbjct: 9  DEFILDVVRKNPTRRTTHTLYDEISHYVPNHTGNSIRHRFRVYLSKRLEYVYEVDKFGKL 68

Query: 64 LLHL-AKLMPTQ 74
          +      L+ T+
Sbjct: 69 VRDDDGNLIKTK 80

>d1igna1 a.4.1.6 (A:360-445) DNA-binding domain of rap1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 86

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: DNA-binding domain of rap1
domain: DNA-binding domain of rap1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 32.2 bits (73), Expect = 0.002
 Identities = 11/48 (22%), Positives = 21/48 (43%), Gaps = 7/48 (14%)

Query: 53 KTEWSREEDEKLLHLAKLMPTQ------WRTIAPII-GRTAAQCLERY 93
          K  ++ EEDE +L + +  PT+      +  I+  +   T      R+
Sbjct: 1  KASFTDEEDEFILDVVRKNPTRRTTHTLYDEISHYVPNHTGNSIRHRF 48

>d1guua_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 50

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: c-Myb, DNA-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 48.2 bits (115), Expect = 8e-10
 Identities = 16/41 (39%), Positives = 24/41 (58%)

Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDP 49
          DE LK  V + G + W  IA+ L  ++  QC+ RW + L+P
Sbjct: 9  DEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNP 49

>d1guua_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 50

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: c-Myb, DNA-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 39.4 bits (92), Expect = 2e-06
 Identities = 19/43 (44%), Positives = 24/43 (55%), Gaps = 2/43 (4%)

Query: 53 KTEWSREEDEKLLHL-AKLMPTQWRTIAPII-GRTAAQCLERY 93
          KT W+REEDEKL  L  +     W+ IA  +  RT  QC  R+
Sbjct: 1  KTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRW 43

>d1gvda_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 52

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: c-Myb, DNA-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 47.0 bits (112), Expect = 2e-09
 Identities = 18/41 (43%), Positives = 23/41 (56%)

Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDP 49
          D+ L   V KYG  +WS IA  L  +  KQC+ RW   L+P
Sbjct: 11 DQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNP 51

>d1gvda_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 52

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: c-Myb, DNA-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 38.9 bits (91), Expect = 3e-06
 Identities = 18/45 (40%), Positives = 27/45 (60%), Gaps = 2/45 (4%)

Query: 51 IKKTEWSREEDEKLLHL-AKLMPTQWRTIAPII-GRTAAQCLERY 93
          + K  W++EED++L+ L  K  P +W  IA  + GR   QC ER+
Sbjct: 1  LIKGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERW 45

>d2cu7a1 a.4.1.3 (A:8-72) MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: MYSM1 (KIAA1915)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.9 bits (106), Expect = 3e-08
 Identities = 10/55 (18%), Positives = 27/55 (49%), Gaps = 1/55 (1%)

Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEK 63
           E+ +  + K+G+  W++I+ L+  ++  Q K+   ++    +K        ++K
Sbjct: 10 KELFEQGLAKFGRR-WTKISKLIGSRTVLQVKSYARQYFKNKVKCGLDKETPNQK 63

>d2cu7a1 a.4.1.3 (A:8-72) MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: MYSM1 (KIAA1915)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.0 bits (83), Expect = 5e-05
 Identities = 10/52 (19%), Positives = 16/52 (30%), Gaps = 1/52 (1%)

Query: 56  WSREEDEKLLHLAKLMPTQWRTIAPII-GRTAAQCLERYEFLLYRARRKAVQ 106
           W+ EE E           +W  I+ +I  RT  Q             +  + 
Sbjct: 5   WTIEEKELFEQGLAKFGRRWTKISKLIGSRTVLQVKSYARQYFKNKVKCGLD 56

>d2cjja1 a.4.1.3 (A:8-70) Radialis {Garden snapdragon (Antirrhinum majus) [TaxId: 4151]} Length = 63

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Radialis
species: Garden snapdragon (Antirrhinum majus) [TaxId: 4151]

 Score = 41.8 bits (98), Expect = 3e-07
 Identities = 10/53 (18%), Positives = 25/53 (47%), Gaps = 4/53 (7%)

Query: 9  DEILKAAVMKYGK---NQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSR 58
          ++  + A+  Y K   ++W+ +A  +  ++ ++ K  +   L   IK  E  +
Sbjct: 9  NKAFERALAVYDKDTPDRWANVARAVEGRTPEEVKKHYE-ILVEDIKYIESGK 60

>d2cjja1 a.4.1.3 (A:8-70) Radialis {Garden snapdragon (Antirrhinum majus) [TaxId: 4151]} Length = 63

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Radialis
species: Garden snapdragon (Antirrhinum majus) [TaxId: 4151]

 Score = 38.0 bits (88), Expect = 1e-05
 Identities = 12/47 (25%), Positives = 22/47 (46%), Gaps = 5/47 (10%)

Query: 56 WSREEDEKLLHLAKL----MPTQWRTIAPII-GRTAAQCLERYEFLL 97
          WS +E++       +     P +W  +A  + GRT  +  + YE L+
Sbjct: 4  WSAKENKAFERALAVYDKDTPDRWANVARAVEGRTPEEVKKHYEILV 50

>d1ug2a_ a.4.1.3 (A:) 2610100b20rik gene product {Mouse (Mus musculus) [TaxId: 10090]} Length = 95

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: 2610100b20rik gene product
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 42.6 bits (100), Expect = 4e-07
 Identities = 15/74 (20%), Positives = 28/74 (37%), Gaps = 4/74 (5%)

Query: 28 ASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLM---PTQWRTIAPII-G 83
          A  L + S     A   +      K   W+RE D  +L + +     P  +  I+  +  
Sbjct: 8  AGALPKASEATVCANNSKVSSTGEKVVLWTREADRVILTMCQEQGAQPHTFSVISQQLGN 67

Query: 84 RTAAQCLERYEFLL 97
          +T  +   R+  L+
Sbjct: 68 KTPVEVSHRFRELM 81

>d1gv2a2 a.4.1.3 (A:144-190) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 47

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: c-Myb, DNA-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 39.0 bits (91), Expect = 3e-06
 Identities = 13/46 (28%), Positives = 21/46 (45%), Gaps = 1/46 (2%)

Query: 53 KTEWSREEDEKLLHLAKLMPTQWRTIAPII-GRTAAQCLERYEFLL 97
          KT W+ EED  +    K +  +W  IA ++ GRT       +   +
Sbjct: 1  KTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTM 46

>d1gv2a2 a.4.1.3 (A:144-190) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 47

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: c-Myb, DNA-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 32.1 bits (73), Expect = 0.001
 Identities = 11/39 (28%), Positives = 18/39 (46%), Gaps = 1/39 (2%)

Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWL 47
          D I+  A  +   N+W+ IA LL  ++    K  W   +
Sbjct: 9  DRIIYQAHKRL-GNRWAEIAKLLPGRTDNAIKNHWNSTM 46

>d2ckxa1 a.4.1.3 (A:578-660) Telomere binding protein TBP1 {Tobacco (Nicotiana tabacum) [TaxId: 4097]} Length = 83

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Telomere binding protein TBP1
species: Tobacco (Nicotiana tabacum) [TaxId: 4097]

 Score = 39.3 bits (91), Expect = 5e-06
 Identities = 13/73 (17%), Positives = 22/73 (30%), Gaps = 6/73 (8%)

Query: 9  DEILKAAVMKYGKNQWSRIASL----LHRKSAKQCKARWFEWLDPSIKKTEWSREED--E 62
           E L  AV   G  +W  +          ++    K +W   +  +    +  R E   +
Sbjct: 8  VEALVEAVEHLGTGRWRDVKMRAFDNADHRTYVDLKDKWKTLVHTASIAPQQRRGEPVPQ 67

Query: 63 KLLHLAKLMPTQW 75
           LL         W
Sbjct: 68 DLLDRVLAAHAYW 80

>d2cqra1 a.4.1.3 (A:7-66) DnaJ homolog subfamily C member 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 60

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: DnaJ homolog subfamily C member 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.3 bits (86), Expect = 2e-05
 Identities = 9/53 (16%), Positives = 20/53 (37%), Gaps = 5/53 (9%)

Query: 49 PSIKKTEWSREEDEKLLHLAKL----MPTQWRTIAPII-GRTAAQCLERYEFL 96
              +  W++ + + L    +         W  IA  +  ++   C+ RY+ L
Sbjct: 8  ARSAEEPWTQNQQKLLELALQQYPRGSSDCWDKIARCVPSKSKEDCIARYKLL 60

>d2cqra1 a.4.1.3 (A:7-66) DnaJ homolog subfamily C member 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 60

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: DnaJ homolog subfamily C member 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 31.9 bits (72), Expect = 0.002
 Identities = 11/38 (28%), Positives = 22/38 (57%), Gaps = 3/38 (7%)

Query: 9  DEILKAAVMKYGK---NQWSRIASLLHRKSAKQCKARW 43
           ++L+ A+ +Y +   + W +IA  +  KS + C AR+
Sbjct: 20 QKLLELALQQYPRGSSDCWDKIARCVPSKSKEDCIARY 57

>d1xc5a1 a.4.1.3 (A:413-480) Nuclear receptor corepressor 2 {Human (Homo sapiens) [TaxId: 9606]} Length = 68

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Nuclear receptor corepressor 2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.6 bits (87), Expect = 2e-05
 Identities = 11/38 (28%), Positives = 19/38 (50%), Gaps = 1/38 (2%)

Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEW 46
           E  +   M++ KN +  IAS L RK+  +C   ++  
Sbjct: 25 KETFREKFMQHPKN-FGLIASFLERKTVAECVLYYYLT 61

>d1xc5a1 a.4.1.3 (A:413-480) Nuclear receptor corepressor 2 {Human (Homo sapiens) [TaxId: 9606]} Length = 68

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Nuclear receptor corepressor 2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.8 bits (85), Expect = 4e-05
 Identities = 11/43 (25%), Positives = 17/43 (39%), Gaps = 1/43 (2%)

Query: 52 KKTEWSREEDEKLLHLAKLMPTQWRTIAPII-GRTAAQCLERY 93
              WS +E E         P  +  IA  +  +T A+C+  Y
Sbjct: 16 VMNMWSEQEKETFREKFMQHPKNFGLIASFLERKTVAECVLYY 58

>d1x41a1 a.4.1.1 (A:8-54) Transcriptional adaptor 2-like, TADA2L, isoform b {Human (Homo sapiens) [TaxId: 9606]} Length = 47

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Transcriptional adaptor 2-like, TADA2L, isoform b
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.1 bits (83), Expect = 4e-05
 Identities = 9/36 (25%), Positives = 18/36 (50%)

Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWF 44
          +  L  AVM  G   W  +A+ +  K+ ++C+  + 
Sbjct: 9  EMALLEAVMDCGFGNWQDVANQMCTKTKEECEKHYM 44

>d1x41a1 a.4.1.1 (A:8-54) Transcriptional adaptor 2-like, TADA2L, isoform b {Human (Homo sapiens) [TaxId: 9606]} Length = 47

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Transcriptional adaptor 2-like, TADA2L, isoform b
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 32.2 bits (73), Expect = 0.001
 Identities = 9/41 (21%), Positives = 18/41 (43%), Gaps = 2/41 (4%)

Query: 55 EWSREEDEKLLHL-AKLMPTQWRTIAPIIG-RTAAQCLERY 93
           W+ +E+  LL          W+ +A  +  +T  +C + Y
Sbjct: 3  SWTAQEEMALLEAVMDCGFGNWQDVANQMCTKTKEECEKHY 43

>d2iw5b1 a.4.1.3 (B:376-440) REST corepressor 1, CoREST {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: REST corepressor 1, CoREST
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.6 bits (82), Expect = 8e-05
 Identities = 8/55 (14%), Positives = 18/55 (32%), Gaps = 1/55 (1%)

Query: 52  KKTEWSREEDEKLLHLAKLMPTQWRTIAPII-GRTAAQCLERYEFLLYRARRKAV 105
               W+ EE    +   +     ++ I+ +I  ++  Q    +     R     V
Sbjct: 4   CNARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKNFFVNYRRRFNIDEV 58

>d2iw5b1 a.4.1.3 (B:376-440) REST corepressor 1, CoREST {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: REST corepressor 1, CoREST
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.3 bits (76), Expect = 7e-04
 Identities = 12/54 (22%), Positives = 23/54 (42%), Gaps = 4/54 (7%)

Query: 9  DEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEW---LDPSIKKTEWSRE 59
            +   A+ KYG++ +  I+ ++  KS  Q K  +  +    +      EW  E
Sbjct: 13 QLLAVQAIRKYGRD-FQAISDVIGNKSVVQVKNFFVNYRRRFNIDEVLQEWEAE 65

>d1w0ua_ a.4.1.4 (A:) Telomeric repeat binding factor 2, TRF2 {Human (Homo sapiens) [TaxId: 9606]} Length = 55

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: DNA-binding domain of telomeric protein
domain: Telomeric repeat binding factor 2, TRF2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.3 bits (81), Expect = 9e-05
 Identities = 14/50 (28%), Positives = 22/50 (44%), Gaps = 4/50 (8%)

Query: 52 KKTEWSREEDEKLLHLA-KLMPTQWRTIA---PIIGRTAAQCLERYEFLL 97
          KK +W+ EE E +     K     W  I+   P + RTA    +R+  + 
Sbjct: 1  KKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMK 50

>d1w0ua_ a.4.1.4 (A:) Telomeric repeat binding factor 2, TRF2 {Human (Homo sapiens) [TaxId: 9606]} Length = 55

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: DNA-binding domain of telomeric protein
domain: Telomeric repeat binding factor 2, TRF2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.3 bits (81), Expect = 1e-04
 Identities = 13/45 (28%), Positives = 20/45 (44%), Gaps = 2/45 (4%)

Query: 9  DEILKAAVMKYGKNQWSRIASL--LHRKSAKQCKARWFEWLDPSI 51
           E +KA V KYG+  W+ I+       ++A   K RW       +
Sbjct: 10 SEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKRLGM 54

>d1w0ta_ a.4.1.4 (A:) DNA-binding domain of human telomeric protein, hTRF1 {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: DNA-binding domain of telomeric protein
domain: DNA-binding domain of human telomeric protein, hTRF1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.1 bits (78), Expect = 2e-04
 Identities = 12/46 (26%), Positives = 17/46 (36%), Gaps = 4/46 (8%)

Query: 52 KKTEWSREEDEKLLHL-AKLMPTQWRTIA---PIIGRTAAQCLERY 93
          K+  W  EED+ L     K     W  I        RT+    +R+
Sbjct: 1  KRQAWLWEEDKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRW 46

>d1w0ta_ a.4.1.4 (A:) DNA-binding domain of human telomeric protein, hTRF1 {Human (Homo sapiens) [TaxId: 9606]} Length = 52

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: DNA-binding domain of telomeric protein
domain: DNA-binding domain of human telomeric protein, hTRF1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 32.2 bits (73), Expect = 0.002
 Identities = 12/41 (29%), Positives = 21/41 (51%), Gaps = 2/41 (4%)

Query: 9  DEILKAAVMKYGKNQWSRIASL--LHRKSAKQCKARWFEWL 47
          D+ L++ V KYG+  WS+I      + +++   K RW    
Sbjct: 10 DKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRWRTMK 50

>d2cqqa1 a.4.1.3 (A:8-66) DnaJ homolog subfamily C member 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 59

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: DnaJ homolog subfamily C member 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 32.5 bits (74), Expect = 0.001
 Identities = 12/47 (25%), Positives = 21/47 (44%), Gaps = 4/47 (8%)

Query: 54 TEWSREEDEKLLH-LAKL---MPTQWRTIAPIIGRTAAQCLERYEFL 96
           EW+ E+  +L   + K     P +W  IA  +GR+      + + L
Sbjct: 2  PEWTEEDLSQLTRSMVKFPGGTPGRWEKIAHELGRSVTDVTTKAKQL 48

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	108
d1igna1	86	DNA-binding domain of rap1 {Baker's yeast (Sacchar	99.87
d1gvda_	52	c-Myb, DNA-binding domain {Mouse (Mus musculus) [T	99.86
d1guua_	50	c-Myb, DNA-binding domain {Mouse (Mus musculus) [T	99.86
d1gvda_	52	c-Myb, DNA-binding domain {Mouse (Mus musculus) [T	99.83
d2ckxa1	83	Telomere binding protein TBP1 {Tobacco (Nicotiana	99.83
d1gv2a2	47	c-Myb, DNA-binding domain {Mouse (Mus musculus) [T	99.82
d1guua_	50	c-Myb, DNA-binding domain {Mouse (Mus musculus) [T	99.8
d1x41a1	47	Transcriptional adaptor 2-like, TADA2L, isoform b	99.79
d1w0ua_	55	Telomeric repeat binding factor 2, TRF2 {Human (Ho	99.78
d1gv2a2	47	c-Myb, DNA-binding domain {Mouse (Mus musculus) [T	99.77
d1w0ta_	52	DNA-binding domain of human telomeric protein, hTR	99.74
d1w0ua_	55	Telomeric repeat binding factor 2, TRF2 {Human (Ho	99.73
d1w0ta_	52	DNA-binding domain of human telomeric protein, hTR	99.73
d2cu7a1	65	MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 960	99.72
d1igna1	86	DNA-binding domain of rap1 {Baker's yeast (Sacchar	99.72
d1x41a1	47	Transcriptional adaptor 2-like, TADA2L, isoform b	99.7
d2cu7a1	65	MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 960	99.7
d2cjja1	63	Radialis {Garden snapdragon (Antirrhinum majus) [T	99.67
d2cqra1	60	DnaJ homolog subfamily C member 1 {Human (Homo sap	99.66
d2cqra1	60	DnaJ homolog subfamily C member 1 {Human (Homo sap	99.64
d2cjja1	63	Radialis {Garden snapdragon (Antirrhinum majus) [T	99.62
d2ckxa1	83	Telomere binding protein TBP1 {Tobacco (Nicotiana	99.55
d2iw5b1	65	REST corepressor 1, CoREST {Human (Homo sapiens) [	99.54
d2iw5b1	65	REST corepressor 1, CoREST {Human (Homo sapiens) [	99.52
d1ug2a_	95	2610100b20rik gene product {Mouse (Mus musculus) [	99.5
d1xc5a1	68	Nuclear receptor corepressor 2 {Human (Homo sapien	99.48
d1xc5a1	68	Nuclear receptor corepressor 2 {Human (Homo sapien	99.48
d1ug2a_	95	2610100b20rik gene product {Mouse (Mus musculus) [	99.31
d2cqqa1	59	DnaJ homolog subfamily C member 1 {Human (Homo sap	98.98
d2crga1	57	Metastasis associated protein MTA3 {Mouse (Mus mus	98.95
d2crga1	57	Metastasis associated protein MTA3 {Mouse (Mus mus	98.86
d2cqqa1	59	DnaJ homolog subfamily C member 1 {Human (Homo sap	98.82
d1wgxa_	73	Hypothetical protein C14orf106 (KIAA1903) {Human (	98.23
d1x58a1	49	Hypothetical protein 4930532d21rik {Mouse (Mus mus	98.22
d1irza_	64	Arr10-B {Thale cress (Arabidopsis thaliana) [TaxId	98.09
d1fexa_	59	Rap1 {Human (Homo sapiens) [TaxId: 9606]}	98.04
d1fexa_	59	Rap1 {Human (Homo sapiens) [TaxId: 9606]}	97.91
d1x58a1	49	Hypothetical protein 4930532d21rik {Mouse (Mus mus	97.81
d1irza_	64	Arr10-B {Thale cress (Arabidopsis thaliana) [TaxId	97.76
d1wgxa_	73	Hypothetical protein C14orf106 (KIAA1903) {Human (	96.78
d1ofcx1	52	SANT domain of the nucleosome remodeling ATPase IS	96.67
d1ofcx2	128	SLIDE domain of the nucleosome remodeling ATPase I	94.9
d1ofcx1	52	SANT domain of the nucleosome remodeling ATPase IS	94.8
d1ofcx2	128	SLIDE domain of the nucleosome remodeling ATPase I	94.7
d1kkxa_	102	Transcription regulator Adr6 (Swi1) {Baker's yeast	90.6
d1nexa1	70	Centromere DNA-binding protein complex Cbf3 subuni	89.88
d2cg4a1	63	Regulatory protein AsnC {Escherichia coli [TaxId:	89.76
d2cfxa1	63	Transcriptional regulator LrpC {Bacillus subtilis	89.22
d2cyya1	60	Putative transcriptional regulator PH1519 {Archaeo	88.09
d1i1ga1	60	LprA {Archaeon Pyrococcus furiosus [TaxId: 2261]}	86.4
d2cg4a1	63	Regulatory protein AsnC {Escherichia coli [TaxId:	86.3
d1igna2	149	DNA-binding domain of rap1 {Baker's yeast (Sacchar	86.2
d1ryua_	120	SWI-SNF complex protein p270, SMARCF1 {Human (Homo	86.06
d2cfxa1	63	Transcriptional regulator LrpC {Bacillus subtilis	85.9
d2cyya1	60	Putative transcriptional regulator PH1519 {Archaeo	85.2
d1rp3a2	71	Sigma factor sigma-28 (FliA) {Aquifex aeolicus [Ta	85.0
d1ig6a_	107	MRF-2 DNA-binding domain {Human (Homo sapiens) [Ta	84.1
d1kkxa_	102	Transcription regulator Adr6 (Swi1) {Baker's yeast	81.75
d1c20a_	128	DNA-binding domain from the dead ringer protein {F	81.19

>d1igna1 a.4.1.6 (A:360-445) DNA-binding domain of rap1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: DNA-binding domain of rap1
domain: DNA-binding domain of rap1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.87  E-value=1.5e-24  Score=128.73  Aligned_cols=67  Identities=10%  Similarity=0.073  Sum_probs=62.5

Q ss_pred             CCCcHHHHHHHHHHHHHhCCC-----CHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHH
Q psy15548          2 LKTMTIVDEILKAAVMKYGKN-----QWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLA   68 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~-----~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v   68 (108)
                      .+||+|||+.|+++|.+||..     +|..||..|||||+.||+.||.++|+|.+++++||++||.+|++..
T Consensus         2 ~~WT~eED~~L~~~v~~~g~~~~~~~~W~~IA~~lpgRt~~qcr~Rw~~~L~p~l~~~~~t~~ed~ll~d~~   73 (86)
T d1igna1           2 ASFTDEEDEFILDVVRKNPTRRTTHTLYDEISHYVPNHTGNSIRHRFRVYLSKRLEYVYEVDKFGKLVRDDD   73 (86)
T ss_dssp             CCCCHHHHHHHHHHHHTSGGGTTCSHHHHHHTTTSTTSCHHHHHHHHHHTTGGGCCCEECBCTTSCBCBCTT
T ss_pred             CCCCHHHHHHHHHHHHHhCcCcCCccCHHHHHHHcCCCCHHHHHHHHHHHcCccccCCCCCCchhHHHHHHh
Confidence            689999999999999999863     4999999999999999999999999999999999999999887654

>d1gvda_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: c-Myb, DNA-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.86  E-value=1.9e-22  Score=109.19  Aligned_cols=49  Identities=37%  Similarity=0.609  Sum_probs=47.2

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCC
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPS   50 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~   50 (108)
                      .|||+|||++|+++|.+||.++|..||+.||+||+.||++||.++|+|.
T Consensus         4 g~WT~eED~~L~~~v~~~g~~~W~~Ia~~l~~Rt~~qc~~Rw~~~L~P~   52 (52)
T d1gvda_           4 GPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPE   52 (52)
T ss_dssp             CSCCHHHHHHHHHHHHHHCTTCHHHHHTTSTTCCHHHHHHHHHHTTSCC
T ss_pred             CCCCHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHhhCCCC
Confidence            6999999999999999999889999999999999999999999999984

>d1guua_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: c-Myb, DNA-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.86  E-value=3.7e-22  Score=107.32  Aligned_cols=49  Identities=33%  Similarity=0.575  Sum_probs=47.1

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCC
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPS   50 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~   50 (108)
                      .+||+|||+.|+++|.+||.++|..||..|||||+.||++||.++|+|.
T Consensus         2 ~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~Rt~~qcr~Rw~~~L~P~   50 (50)
T d1guua_           2 TRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNPE   50 (50)
T ss_dssp             CCCCHHHHHHHHHHHHHHCSSCHHHHHHTSTTCCHHHHHHHHHHHHSCC
T ss_pred             CCCCHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHhhCCCC
Confidence            5899999999999999999889999999999999999999999999984

>d1gvda_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: c-Myb, DNA-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.83  E-value=1.4e-21  Score=105.81  Aligned_cols=49  Identities=35%  Similarity=0.684  Sum_probs=46.3

Q ss_pred             CcccCCCHHHHHHHHHHHhhCC-cchhcccc-ccCCCHHHHHHHHHHHHhH
Q psy15548         51 IKKTEWSREEDEKLLHLAKLMP-TQWRTIAP-IIGRTAAQCLERYEFLLYR   99 (108)
Q Consensus        51 ~~~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~~gRt~~q~~~r~~~~~~~   99 (108)
                      +.+|+||++||++|+++|.+|| ++|..||+ |+|||+.||++||.++|+|
T Consensus         1 l~rg~WT~eED~~L~~~v~~~g~~~W~~Ia~~l~~Rt~~qc~~Rw~~~L~P   51 (52)
T d1gvda_           1 LIKGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNP   51 (52)
T ss_dssp             CCCCSCCHHHHHHHHHHHHHHCTTCHHHHHTTSTTCCHHHHHHHHHHTTSC
T ss_pred             CCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHhhCCC
Confidence            4689999999999999999999 68999999 9999999999999999986

>d2ckxa1 a.4.1.3 (A:578-660) Telomere binding protein TBP1 {Tobacco (Nicotiana tabacum) [TaxId: 4097]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Telomere binding protein TBP1
species: Tobacco (Nicotiana tabacum) [TaxId: 4097]

Probab=99.83  E-value=3.2e-21  Score=113.67  Aligned_cols=71  Identities=18%  Similarity=0.298  Sum_probs=58.9

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCHHHHHHH----hCCCCHHHHHHHhhhhc-----CCCCcccCCCHHHHHHHHHHHhhCCc
Q psy15548          3 KTMTIVDEILKAAVMKYGKNQWSRIASL----LHRKSAKQCKARWFEWL-----DPSIKKTEWSREEDEKLLHLAKLMPT   73 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~----~~~R~~~qc~~rw~~~l-----~~~~~~~~Wt~eEd~~L~~~v~~~g~   73 (108)
                      |||+|||+.|+.+|++||.++|..|+..    +++||+.||++||+++|     .+..+++.|+++|   |+..|...+.
T Consensus         2 ~WT~eEd~~L~~~V~~~G~~~W~~I~~~~~~~~~~Rt~~qck~RWrn~l~~~~~~~~~~~~~~~p~e---ll~~v~~~~~   78 (83)
T d2ckxa1           2 PFSVAEVEALVEAVEHLGTGRWRDVKMRAFDNADHRTYVDLKDKWKTLVHTASIAPQQRRGEPVPQD---LLDRVLAAHA   78 (83)
T ss_dssp             CCCHHHHHHHHHHHHHHCSSCHHHHHHHHCTTCTTSCHHHHHHHHHHHHHHHHSCGGGCCSSCCCHH---HHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHCcccHHHHHHHHHhhccCCCHHHHHHHHHHHhhhhccCcccccCCCCCHH---HHHHHHHHHH
Confidence            8999999999999999999999999986    46999999999999987     4667788999877   4444444445


Q ss_pred             chh
Q psy15548         74 QWR   76 (108)
Q Consensus        74 ~W~   76 (108)
                      .|+
T Consensus        79 ~ws   81 (83)
T d2ckxa1          79 YWS   81 (83)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            665

>d1gv2a2 a.4.1.3 (A:144-190) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: c-Myb, DNA-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.82  E-value=4.8e-21  Score=101.55  Aligned_cols=46  Identities=28%  Similarity=0.516  Sum_probs=43.8

Q ss_pred             ccCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHHHHh
Q psy15548         53 KTEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEFLLY   98 (108)
Q Consensus        53 ~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~~~   98 (108)
                      +++||+|||+.|+++|++||++|+.||. |||||+.||++||.++++
T Consensus         1 K~~WT~eED~~L~~~v~~~G~~W~~Ia~~~~gRt~~~~knr~~~~lr   47 (47)
T d1gv2a2           1 KTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMR   47 (47)
T ss_dssp             CCCCCHHHHHHHHHHHHHHSSCHHHHHTTCTTCCHHHHHHHHHHHTC
T ss_pred             CCCCCHHHHHHHHHHHHHHhhHHHHHHhHcCCCCHHHHHHHHHHHcC
Confidence            4799999999999999999999999999 999999999999999874

>d1guua_ a.4.1.3 (A:) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: c-Myb, DNA-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.80  E-value=2e-20  Score=100.38  Aligned_cols=47  Identities=43%  Similarity=0.725  Sum_probs=44.5

Q ss_pred             ccCCCHHHHHHHHHHHhhCC-cchhcccc-ccCCCHHHHHHHHHHHHhH
Q psy15548         53 KTEWSREEDEKLLHLAKLMP-TQWRTIAP-IIGRTAAQCLERYEFLLYR   99 (108)
Q Consensus        53 ~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~~gRt~~q~~~r~~~~~~~   99 (108)
                      +++||++||+.|+++|..|| ++|..||. |+|||+.||++||.++|+|
T Consensus         1 k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~Rt~~qcr~Rw~~~L~P   49 (50)
T d1guua_           1 KTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNP   49 (50)
T ss_dssp             CCCCCHHHHHHHHHHHHHHCSSCHHHHHHTSTTCCHHHHHHHHHHHHSC
T ss_pred             CCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHhhCCC
Confidence            47899999999999999999 68999999 9999999999999999987

>d1x41a1 a.4.1.1 (A:8-54) Transcriptional adaptor 2-like, TADA2L, isoform b {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Transcriptional adaptor 2-like, TADA2L, isoform b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=1e-19  Score=96.33  Aligned_cols=45  Identities=20%  Similarity=0.463  Sum_probs=42.8

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhc
Q psy15548          3 KTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWL   47 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l   47 (108)
                      .||+|||++|+++|.+||.++|..||..||+||+.||+.||.+++
T Consensus         3 ~Wt~eEd~~L~~~v~~~G~~nW~~Ia~~~~~Rt~~Qcr~r~~~~f   47 (47)
T d1x41a1           3 SWTAQEEMALLEAVMDCGFGNWQDVANQMCTKTKEECEKHYMKYF   47 (47)
T ss_dssp             SSCHHHHHHHHHHHHHTCTTCHHHHHHHHTTSCHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHHCCccHHHHHHHcCCCCHHHHHHHHHHhC
Confidence            599999999999999999889999999999999999999998763

>d1w0ua_ a.4.1.4 (A:) Telomeric repeat binding factor 2, TRF2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: DNA-binding domain of telomeric protein
domain: Telomeric repeat binding factor 2, TRF2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=1.5e-19  Score=98.75  Aligned_cols=51  Identities=27%  Similarity=0.406  Sum_probs=46.9

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHH--hCCCCHHHHHHHhhhhcCCCCc
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASL--LHRKSAKQCKARWFEWLDPSIK   52 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~--~~~R~~~qc~~rw~~~l~~~~~   52 (108)
                      .|||+|||+.|+++|.+||.++|..||..  +++||+.||++||++++.++++
T Consensus         3 ~~WT~eEd~~L~~~V~~~G~~~W~~I~~~~~~~~Rt~~q~k~Rwrn~~k~~~N   55 (55)
T d1w0ua_           3 QKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKRLGMN   55 (55)
T ss_dssp             CCCCHHHHHHHHHHHHHHCTTCHHHHHHHSCCSSCCHHHHHHHHHHHHHTTCC
T ss_pred             CCCCHHHHHHHHHHHHHhCCChHHHHHhhcCCCCcCHHHHHHHHHHHhcCCCC
Confidence            58999999999999999998899999998  4599999999999999888764

>d1gv2a2 a.4.1.3 (A:144-190) c-Myb, DNA-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: c-Myb, DNA-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.77  E-value=2.9e-19  Score=94.54  Aligned_cols=45  Identities=24%  Similarity=0.415  Sum_probs=43.1

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhc
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWL   47 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l   47 (108)
                      .|||+|||+.|+++|.+||. +|+.||.+|||||+.||+.||+.++
T Consensus         2 ~~WT~eED~~L~~~v~~~G~-~W~~Ia~~~~gRt~~~~knr~~~~l   46 (47)
T d1gv2a2           2 TSWTEEEDRIIYQAHKRLGN-RWAEIAKLLPGRTDNAIKNHWNSTM   46 (47)
T ss_dssp             CCCCHHHHHHHHHHHHHHSS-CHHHHHTTCTTCCHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHHhh-HHHHHHhHcCCCCHHHHHHHHHHHc
Confidence            69999999999999999997 9999999999999999999999875

>d1w0ta_ a.4.1.4 (A:) DNA-binding domain of human telomeric protein, hTRF1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: DNA-binding domain of telomeric protein
domain: DNA-binding domain of human telomeric protein, hTRF1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.74  E-value=1.7e-18  Score=93.45  Aligned_cols=46  Identities=26%  Similarity=0.418  Sum_probs=42.7

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhC--CCCHHHHHHHhhhhc
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLH--RKSAKQCKARWFEWL   47 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~--~R~~~qc~~rw~~~l   47 (108)
                      .|||+|||+.|+++|.+||.++|..||..++  +||+.||++||+++.
T Consensus         3 ~~WT~eED~~L~~~v~~~G~~~W~~I~~~~~~~~Rt~~q~r~Rw~nl~   50 (52)
T d1w0ta_           3 QAWLWEEDKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRWRTMK   50 (52)
T ss_dssp             CCCCHHHHHHHHHHHHHHCTTCHHHHHHHSCCSSCCHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHCCCCHHHHHhhcCCCCCCHHHHHHHHHHHH
Confidence            5899999999999999999889999999865  999999999999864

>d1w0ua_ a.4.1.4 (A:) Telomeric repeat binding factor 2, TRF2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: DNA-binding domain of telomeric protein
domain: Telomeric repeat binding factor 2, TRF2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=8.1e-19  Score=95.74  Aligned_cols=51  Identities=24%  Similarity=0.350  Sum_probs=45.7

Q ss_pred             cccCCCHHHHHHHHHHHhhCC-cchhcccc-c--cCCCHHHHHHHHHHHHhHHHh
Q psy15548         52 KKTEWSREEDEKLLHLAKLMP-TQWRTIAP-I--IGRTAAQCLERYEFLLYRARR  102 (108)
Q Consensus        52 ~~~~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~--~gRt~~q~~~r~~~~~~~~~~  102 (108)
                      ++++||++||+.|+++|.+|| ++|..|++ +  +|||+.||++||.+++++.++
T Consensus         1 Kr~~WT~eEd~~L~~~V~~~G~~~W~~I~~~~~~~~Rt~~q~k~Rwrn~~k~~~N   55 (55)
T d1w0ua_           1 KKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKRLGMN   55 (55)
T ss_dssp             CCCCCCHHHHHHHHHHHHHHCTTCHHHHHHHSCCSSCCHHHHHHHHHHHHHTTCC
T ss_pred             CCCCCCHHHHHHHHHHHHHhCCChHHHHHhhcCCCCcCHHHHHHHHHHHhcCCCC
Confidence            367999999999999999999 59999998 4  489999999999999988653

>d1w0ta_ a.4.1.4 (A:) DNA-binding domain of human telomeric protein, hTRF1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: DNA-binding domain of telomeric protein
domain: DNA-binding domain of human telomeric protein, hTRF1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=2.1e-18  Score=93.07  Aligned_cols=47  Identities=23%  Similarity=0.365  Sum_probs=42.5

Q ss_pred             cccCCCHHHHHHHHHHHhhCCc-chhcccc-cc--CCCHHHHHHHHHHHHh
Q psy15548         52 KKTEWSREEDEKLLHLAKLMPT-QWRTIAP-II--GRTAAQCLERYEFLLY   98 (108)
Q Consensus        52 ~~~~Wt~eEd~~L~~~v~~~g~-~W~~Ia~-~~--gRt~~q~~~r~~~~~~   98 (108)
                      ++++||+|||+.|+++|.+||. +|+.|++ ++  |||+.||++||.++.+
T Consensus         1 kr~~WT~eED~~L~~~v~~~G~~~W~~I~~~~~~~~Rt~~q~r~Rw~nl~K   51 (52)
T d1w0ta_           1 KRQAWLWEEDKNLRSGVRKYGEGNWSKILLHYKFNNRTSVMLKDRWRTMKK   51 (52)
T ss_dssp             CCCCCCHHHHHHHHHHHHHHCTTCHHHHHHHSCCSSCCHHHHHHHHHHHHT
T ss_pred             CCCCCCHHHHHHHHHHHHHHCCCCHHHHHhhcCCCCCCHHHHHHHHHHHHC
Confidence            3689999999999999999994 9999998 54  8999999999999865

>d2cu7a1 a.4.1.3 (A:8-72) MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: MYSM1 (KIAA1915)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=2.9e-18  Score=96.46  Aligned_cols=55  Identities=18%  Similarity=0.351  Sum_probs=49.0

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCC
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWS   57 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt   57 (108)
                      ++||+|||.+|+++|..||. +|..||.+||+||+.||+.||..++.+..+.+.+.
T Consensus         3 ~~WT~eEd~~l~~~~~~~G~-~W~~Ia~~~~~Rt~~q~k~ry~~~~~~~~k~~~~~   57 (65)
T d2cu7a1           3 VKWTIEEKELFEQGLAKFGR-RWTKISKLIGSRTVLQVKSYARQYFKNKVKCGLDK   57 (65)
T ss_dssp             CCCCHHHHHHHHHHHHHTCS-CHHHHHHHHSSSCHHHHHHHHHHHHHHHSCSCTTC
T ss_pred             CCCCHHHHHHHHHHHHHhcc-hHHHHHHHcCCCCHHHHHHHHHHHHHHHHhcCCCC
Confidence            68999999999999999995 99999999999999999999999887665555443

>d1igna1 a.4.1.6 (A:360-445) DNA-binding domain of rap1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: DNA-binding domain of rap1
domain: DNA-binding domain of rap1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.72  E-value=1.6e-18  Score=102.41  Aligned_cols=52  Identities=23%  Similarity=0.386  Sum_probs=48.5

Q ss_pred             ccCCCHHHHHHHHHHHhhCCcc------hhcccc-ccCCCHHHHHHHHHHHHhHHHhhh
Q psy15548         53 KTEWSREEDEKLLHLAKLMPTQ------WRTIAP-IIGRTAAQCLERYEFLLYRARRKA  104 (108)
Q Consensus        53 ~~~Wt~eEd~~L~~~v~~~g~~------W~~Ia~-~~gRt~~q~~~r~~~~~~~~~~~~  104 (108)
                      +++||+|||+.|+++|..||..      |..||. |||||+.||++||.++|+|.++++
T Consensus         1 k~~WT~eED~~L~~~v~~~g~~~~~~~~W~~IA~~lpgRt~~qcr~Rw~~~L~p~l~~~   59 (86)
T d1igna1           1 KASFTDEEDEFILDVVRKNPTRRTTHTLYDEISHYVPNHTGNSIRHRFRVYLSKRLEYV   59 (86)
T ss_dssp             CCCCCHHHHHHHHHHHHTSGGGTTCSHHHHHHTTTSTTSCHHHHHHHHHHTTGGGCCCE
T ss_pred             CCCCCHHHHHHHHHHHHHhCcCcCCccCHHHHHHHcCCCCHHHHHHHHHHHcCccccCC
Confidence            4799999999999999999964      999999 999999999999999999998765

>d1x41a1 a.4.1.1 (A:8-54) Transcriptional adaptor 2-like, TADA2L, isoform b {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Transcriptional adaptor 2-like, TADA2L, isoform b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.70  E-value=7.7e-18  Score=88.99  Aligned_cols=42  Identities=21%  Similarity=0.477  Sum_probs=39.9

Q ss_pred             CCCHHHHHHHHHHHhhCC-cchhcccc-ccCCCHHHHHHHHHHH
Q psy15548         55 EWSREEDEKLLHLAKLMP-TQWRTIAP-IIGRTAAQCLERYEFL   96 (108)
Q Consensus        55 ~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~~gRt~~q~~~r~~~~   96 (108)
                      .||++||.+|+++|..|| ++|..||. ++|||+.||+.||.++
T Consensus         3 ~Wt~eEd~~L~~~v~~~G~~nW~~Ia~~~~~Rt~~Qcr~r~~~~   46 (47)
T d1x41a1           3 SWTAQEEMALLEAVMDCGFGNWQDVANQMCTKTKEECEKHYMKY   46 (47)
T ss_dssp             SSCHHHHHHHHHHHHHTCTTCHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHCCccHHHHHHHcCCCCHHHHHHHHHHh
Confidence            599999999999999999 58999999 8999999999999876

>d2cu7a1 a.4.1.3 (A:8-72) MYSM1 (KIAA1915) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: MYSM1 (KIAA1915)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.70  E-value=7.2e-18  Score=94.78  Aligned_cols=53  Identities=19%  Similarity=0.232  Sum_probs=48.7

Q ss_pred             ccCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHHHHhHHHhhhh
Q psy15548         53 KTEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEFLLYRARRKAV  105 (108)
Q Consensus        53 ~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~~~~~  105 (108)
                      ...||+|||.+|+++|..||.+|..||. |+|||+.||++||..++++..+.+.
T Consensus         2 ~~~WT~eEd~~l~~~~~~~G~~W~~Ia~~~~~Rt~~q~k~ry~~~~~~~~k~~~   55 (65)
T d2cu7a1           2 SVKWTIEEKELFEQGLAKFGRRWTKISKLIGSRTVLQVKSYARQYFKNKVKCGL   55 (65)
T ss_dssp             CCCCCHHHHHHHHHHHHHTCSCHHHHHHHHSSSCHHHHHHHHHHHHHHHSCSCT
T ss_pred             CCCCCHHHHHHHHHHHHHhcchHHHHHHHcCCCCHHHHHHHHHHHHHHHHhcCC
Confidence            3579999999999999999999999999 8999999999999999998776554

>d2cjja1 a.4.1.3 (A:8-70) Radialis {Garden snapdragon (Antirrhinum majus) [TaxId: 4151]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Radialis
species: Garden snapdragon (Antirrhinum majus) [TaxId: 4151]

Probab=99.67  E-value=4.1e-17  Score=91.15  Aligned_cols=45  Identities=13%  Similarity=0.281  Sum_probs=41.5

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCC---HHHHHHHhCCCCHHHHHHHhhhh
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQ---WSRIASLLHRKSAKQCKARWFEW   46 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~---W~~Ia~~~~~R~~~qc~~rw~~~   46 (108)
                      -|||+|||++|+++|..||.++   |..||..||+||+.||+.||..+
T Consensus         2 ~~WT~eEd~~L~~~v~~~~~~~~~~W~~Ia~~l~gRt~~qc~~r~~~L   49 (63)
T d2cjja1           2 RPWSAKENKAFERALAVYDKDTPDRWANVARAVEGRTPEEVKKHYEIL   49 (63)
T ss_dssp             CSCCHHHHHHHHHHHHHSCTTCTTHHHHHHHHSTTCCHHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHHHHHHCCCCchHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            3899999999999999999864   99999999999999999999653

>d2cqra1 a.4.1.3 (A:7-66) DnaJ homolog subfamily C member 1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: DnaJ homolog subfamily C member 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.66  E-value=5.2e-17  Score=89.89  Aligned_cols=44  Identities=25%  Similarity=0.402  Sum_probs=41.2

Q ss_pred             CCCcHHHHHHHHHHHHHhCCC---CHHHHHHHhCCCCHHHHHHHhhh
Q psy15548          2 LKTMTIVDEILKAAVMKYGKN---QWSRIASLLHRKSAKQCKARWFE   45 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~---~W~~Ia~~~~~R~~~qc~~rw~~   45 (108)
                      .+||+|||++|+++|..||.+   +|..||..||+||+.||+.||..
T Consensus        13 ~~WT~eEd~~L~~~v~~~~~~~~~~W~~IA~~l~~Rt~~qc~~R~~~   59 (60)
T d2cqra1          13 EPWTQNQQKLLELALQQYPRGSSDCWDKIARCVPSKSKEDCIARYKL   59 (60)
T ss_dssp             CCCCHHHHHHHHHHHHHSCSSSHHHHHHHGGGCSSSCHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHHHHHcCCccchHHHHHHHHcCCCCHHHHHHHHHH
Confidence            489999999999999999975   59999999999999999999975

>d2cqra1 a.4.1.3 (A:7-66) DnaJ homolog subfamily C member 1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: DnaJ homolog subfamily C member 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=1.7e-16  Score=87.74  Aligned_cols=49  Identities=20%  Similarity=0.536  Sum_probs=43.7

Q ss_pred             CCCCcccCCCHHHHHHHHHHHhhCCc----chhcccc-ccCCCHHHHHHHHHHH
Q psy15548         48 DPSIKKTEWSREEDEKLLHLAKLMPT----QWRTIAP-IIGRTAAQCLERYEFL   96 (108)
Q Consensus        48 ~~~~~~~~Wt~eEd~~L~~~v~~~g~----~W~~Ia~-~~gRt~~q~~~r~~~~   96 (108)
                      .+...+++||++||.+|+++|..||.    +|..||. ++|||+.||+.||..+
T Consensus         7 ~~~~~~~~WT~eEd~~L~~~v~~~~~~~~~~W~~IA~~l~~Rt~~qc~~R~~~L   60 (60)
T d2cqra1           7 RARSAEEPWTQNQQKLLELALQQYPRGSSDCWDKIARCVPSKSKEDCIARYKLL   60 (60)
T ss_dssp             TTTCSSCCCCHHHHHHHHHHHHHSCSSSHHHHHHHGGGCSSSCHHHHHHHHHHH
T ss_pred             cCCcCCCCcCHHHHHHHHHHHHHcCCccchHHHHHHHHcCCCCHHHHHHHHHHC
Confidence            34556789999999999999999985    6999999 9999999999999864

>d2cjja1 a.4.1.3 (A:8-70) Radialis {Garden snapdragon (Antirrhinum majus) [TaxId: 4151]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Radialis
species: Garden snapdragon (Antirrhinum majus) [TaxId: 4151]

Probab=99.62  E-value=4.6e-16  Score=86.77  Aligned_cols=48  Identities=23%  Similarity=0.515  Sum_probs=42.9

Q ss_pred             cCCCHHHHHHHHHHHhhCCc----chhcccc-ccCCCHHHHHHHHHHHHhHHH
Q psy15548         54 TEWSREEDEKLLHLAKLMPT----QWRTIAP-IIGRTAAQCLERYEFLLYRAR  101 (108)
Q Consensus        54 ~~Wt~eEd~~L~~~v~~~g~----~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~  101 (108)
                      .+||++||.+|+++|..||.    .|..||. ++|||+.||++||..++....
T Consensus         2 ~~WT~eEd~~L~~~v~~~~~~~~~~W~~Ia~~l~gRt~~qc~~r~~~L~~dik   54 (63)
T d2cjja1           2 RPWSAKENKAFERALAVYDKDTPDRWANVARAVEGRTPEEVKKHYEILVEDIK   54 (63)
T ss_dssp             CSCCHHHHHHHHHHHHHSCTTCTTHHHHHHHHSTTCCHHHHHHHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHHHHHHCCCCchHHHHHHHHcCCCCHHHHHHHHHHHHHHhh
Confidence            58999999999999999985    4999999 999999999999987766543

>d2ckxa1 a.4.1.3 (A:578-660) Telomere binding protein TBP1 {Tobacco (Nicotiana tabacum) [TaxId: 4097]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Telomere binding protein TBP1
species: Tobacco (Nicotiana tabacum) [TaxId: 4097]

Probab=99.55  E-value=2.2e-15  Score=88.21  Aligned_cols=47  Identities=23%  Similarity=0.331  Sum_probs=42.6

Q ss_pred             CCCHHHHHHHHHHHhhCCc-chhcccc-----ccCCCHHHHHHHHHHHHhHHH
Q psy15548         55 EWSREEDEKLLHLAKLMPT-QWRTIAP-----IIGRTAAQCLERYEFLLYRAR  101 (108)
Q Consensus        55 ~Wt~eEd~~L~~~v~~~g~-~W~~Ia~-----~~gRt~~q~~~r~~~~~~~~~  101 (108)
                      +||+|||..|+++|.+||. +|..|++     ++|||+.||++||.+++++..
T Consensus         2 ~WT~eEd~~L~~~V~~~G~~~W~~I~~~~~~~~~~Rt~~qck~RWrn~l~~~~   54 (83)
T d2ckxa1           2 PFSVAEVEALVEAVEHLGTGRWRDVKMRAFDNADHRTYVDLKDKWKTLVHTAS   54 (83)
T ss_dssp             CCCHHHHHHHHHHHHHHCSSCHHHHHHHHCTTCTTSCHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHCcccHHHHHHHHHhhccCCCHHHHHHHHHHHhhhhc
Confidence            8999999999999999994 9999986     368999999999999997654

>d2iw5b1 a.4.1.3 (B:376-440) REST corepressor 1, CoREST {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: REST corepressor 1, CoREST
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.54  E-value=7.7e-15  Score=82.15  Aligned_cols=46  Identities=22%  Similarity=0.312  Sum_probs=43.0

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcC
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLD   48 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~   48 (108)
                      .+||++||++|..++..||. +|..||.+||+||+.||+.+|.....
T Consensus         6 ~~WT~eE~~~f~~~~~~~G~-~w~~Ia~~~~~kt~~q~~~~y~~~~k   51 (65)
T d2iw5b1           6 ARWTTEEQLLAVQAIRKYGR-DFQAISDVIGNKSVVQVKNFFVNYRR   51 (65)
T ss_dssp             SSCCHHHHHHHHHHHHHHSS-CHHHHHHHHSSCCHHHHHHHHHHTTT
T ss_pred             CCCCHHHHHHHHHHHHHhCc-hHHHHHHHcCCCCHHHHHHHHHHHHh
Confidence            48999999999999999996 99999999999999999999988643

>d2iw5b1 a.4.1.3 (B:376-440) REST corepressor 1, CoREST {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: REST corepressor 1, CoREST
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.52  E-value=4.8e-15  Score=83.02  Aligned_cols=47  Identities=15%  Similarity=0.238  Sum_probs=43.8

Q ss_pred             ccCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHHHHhH
Q psy15548         53 KTEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEFLLYR   99 (108)
Q Consensus        53 ~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~~~~   99 (108)
                      ..+||++||.+|++++..||.+|..||. ++|||+.||+++|..+.+.
T Consensus         5 ~~~WT~eE~~~f~~~~~~~G~~w~~Ia~~~~~kt~~q~~~~y~~~~k~   52 (65)
T d2iw5b1           5 NARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKNFFVNYRRR   52 (65)
T ss_dssp             CSSCCHHHHHHHHHHHHHHSSCHHHHHHHHSSCCHHHHHHHHHHTTTT
T ss_pred             CCCCCHHHHHHHHHHHHHhCchHHHHHHHcCCCCHHHHHHHHHHHHhh
Confidence            4689999999999999999999999999 9999999999999987654

>d1ug2a_ a.4.1.3 (A:) 2610100b20rik gene product {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: 2610100b20rik gene product
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.50  E-value=3.7e-15  Score=88.39  Aligned_cols=71  Identities=20%  Similarity=0.240  Sum_probs=57.4

Q ss_pred             hCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHHHHHHhhCCcc---hhcccc-ccCCCHHHHHHHHHHHHhHHH
Q psy15548         31 LHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKLLHLAKLMPTQ---WRTIAP-IIGRTAAQCLERYEFLLYRAR  101 (108)
Q Consensus        31 ~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L~~~v~~~g~~---W~~Ia~-~~gRt~~q~~~r~~~~~~~~~  101 (108)
                      +|..+..++..++.+..+++.....||.|||..|++.++++|..   |..||+ ++|||+.||++||..+++-.-
T Consensus        11 ~p~~t~~~v~A~n~~~~s~G~~~~~WTrEEDriIL~~~q~~G~~~~tw~~Ia~~L~~Rs~~qvr~Rf~~Lm~lf~   85 (95)
T d1ug2a_          11 LPKASEATVCANNSKVSSTGEKVVLWTREADRVILTMCQEQGAQPHTFSVISQQLGNKTPVEVSHRFRELMQLFH   85 (95)
T ss_dssp             CCCCCCCCCCCCCCCCCCCCCCCSSSCHHHHHHHHHHHHHTTSCTTTHHHHHHHHSSCCHHHHHHHHHHHHHHHH
T ss_pred             CCCCCccccccccCccCCCCCccCCcCHHHHHHHHHHHHHcCCcHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHH
Confidence            34444445555555556666667789999999999999999976   999999 899999999999999987654

>d1xc5a1 a.4.1.3 (A:413-480) Nuclear receptor corepressor 2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Nuclear receptor corepressor 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=1e-14  Score=82.28  Aligned_cols=47  Identities=23%  Similarity=0.345  Sum_probs=42.8

Q ss_pred             cccCCCHHHHHHHHHHHhhCCcchhcccc-ccCCCHHHHHHHHHHHHh
Q psy15548         52 KKTEWSREEDEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLERYEFLLY   98 (108)
Q Consensus        52 ~~~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~~gRt~~q~~~r~~~~~~   98 (108)
                      ...+||++|+.+|++++..||.+|..||. ++|||..||+++|....+
T Consensus        16 ~~~~WT~eE~~~f~~~~~~~G~~w~~Ia~~~~~rt~~q~~~~yy~~kk   63 (68)
T d1xc5a1          16 VMNMWSEQEKETFREKFMQHPKNFGLIASFLERKTVAECVLYYYLTKK   63 (68)
T ss_dssp             TTTCCCTTTHHHHHHHHHHTTSCSSSHHHHTTTSCHHHHHHHHHHHTT
T ss_pred             CCCCCCHHHHHHHHHHHHHHCCcHHHHHHHcCCCCHHHHHHHHHHHHC
Confidence            44689999999999999999999999999 999999999999976543

>d1xc5a1 a.4.1.3 (A:413-480) Nuclear receptor corepressor 2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Nuclear receptor corepressor 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=9.1e-15  Score=82.55  Aligned_cols=45  Identities=22%  Similarity=0.267  Sum_probs=42.1

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhc
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWL   47 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l   47 (108)
                      .+||+|||++|..++..||. +|..||..||+||..||..+|+...
T Consensus        18 ~~WT~eE~~~f~~~~~~~G~-~w~~Ia~~~~~rt~~q~~~~yy~~k   62 (68)
T d1xc5a1          18 NMWSEQEKETFREKFMQHPK-NFGLIASFLERKTVAECVLYYYLTK   62 (68)
T ss_dssp             TCCCTTTHHHHHHHHHHTTS-CSSSHHHHTTTSCHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHHCC-cHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            48999999999999999996 9999999999999999999997643

>d1ug2a_ a.4.1.3 (A:) 2610100b20rik gene product {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: 2610100b20rik gene product
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.31  E-value=1.9e-12  Score=76.50  Aligned_cols=46  Identities=17%  Similarity=0.236  Sum_probs=42.0

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCC--HHHHHHHhCCCCHHHHHHHhhhhc
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQ--WSRIASLLHRKSAKQCKARWFEWL   47 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~--W~~Ia~~~~~R~~~qc~~rw~~~l   47 (108)
                      +.||.|||..|+..+.++|...  |..||..|++|++.||+.||..++
T Consensus        34 ~~WTrEEDriIL~~~q~~G~~~~tw~~Ia~~L~~Rs~~qvr~Rf~~Lm   81 (95)
T d1ug2a_          34 VLWTREADRVILTMCQEQGAQPHTFSVISQQLGNKTPVEVSHRFRELM   81 (95)
T ss_dssp             SSSCHHHHHHHHHHHHHTTSCTTTHHHHHHHHSSCCHHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHHHHHcCCcHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            5899999999999999999632  999999999999999999998754

>d2cqqa1 a.4.1.3 (A:8-66) DnaJ homolog subfamily C member 1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: DnaJ homolog subfamily C member 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.98  E-value=6.3e-10  Score=60.41  Aligned_cols=45  Identities=16%  Similarity=0.177  Sum_probs=40.9

Q ss_pred             CCCcHHHHHHHHHHHHHhCCC---CHHHHHHHhCCCCHHHHHHHhhhhc
Q psy15548          2 LKTMTIVDEILKAAVMKYGKN---QWSRIASLLHRKSAKQCKARWFEWL   47 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~---~W~~Ia~~~~~R~~~qc~~rw~~~l   47 (108)
                      .+||++|+.+|.+++.+|+.+   .|..||..| ||+..+|..||..+.
T Consensus         2 ~eWT~ee~~~le~Al~~~P~gt~~RW~~IA~~v-gkt~~ev~~~~k~l~   49 (59)
T d2cqqa1           2 PEWTEEDLSQLTRSMVKFPGGTPGRWEKIAHEL-GRSVTDVTTKAKQLK   49 (59)
T ss_dssp             CCCCHHHHHHHHHHHHHSCTTCTTHHHHHHHHH-TSCHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHCCCCCcHHHHHHHHHH-CCCHHHHHHHHHHHH
Confidence            479999999999999999864   699999999 799999999998754

>d2crga1 a.4.1.3 (A:8-64) Metastasis associated protein MTA3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Metastasis associated protein MTA3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.95  E-value=1.1e-09  Score=59.17  Aligned_cols=45  Identities=22%  Similarity=0.305  Sum_probs=40.7

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCHHHHHHH-hCCCCHHHHHHHhhhhc
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQWSRIASL-LHRKSAKQCKARWFEWL   47 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~-~~~R~~~qc~~rw~~~l   47 (108)
                      =.||+||-.++.+++..||. +|..|++. +|+||..||...|...-
T Consensus         2 d~WT~eE~~~F~~~~~~yGK-df~~I~~~~v~~Ks~~~~v~fYY~~K   47 (57)
T d2crga1           2 EEWSASEACLFEEALEKYGK-DFNDIRQDFLPWKSLTSIIEYYYMWK   47 (57)
T ss_dssp             CCCCHHHHHHHHHHHHHTCS-CHHHHHHTTCSSSCHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHcc-cHHHHHHHHcCCCCHHHHHHHHHHHh
Confidence            47999999999999999997 99999985 69999999999987643

>d2crga1 a.4.1.3 (A:8-64) Metastasis associated protein MTA3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Metastasis associated protein MTA3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.86  E-value=2.1e-09  Score=58.05  Aligned_cols=44  Identities=16%  Similarity=0.212  Sum_probs=39.7

Q ss_pred             cCCCHHHHHHHHHHHhhCCcchhcccc--ccCCCHHHHHHHHHHHH
Q psy15548         54 TEWSREEDEKLLHLAKLMPTQWRTIAP--IIGRTAAQCLERYEFLL   97 (108)
Q Consensus        54 ~~Wt~eEd~~L~~~v~~~g~~W~~Ia~--~~gRt~~q~~~r~~~~~   97 (108)
                      ..||++|..++.+++..||.+|..|++  +|+||..||.+.|....
T Consensus         2 d~WT~eE~~~F~~~~~~yGKdf~~I~~~~v~~Ks~~~~v~fYY~~K   47 (57)
T d2crga1           2 EEWSASEACLFEEALEKYGKDFNDIRQDFLPWKSLTSIIEYYYMWK   47 (57)
T ss_dssp             CCCCHHHHHHHHHHHHHTCSCHHHHHHTTCSSSCHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHcccHHHHHHHHcCCCCHHHHHHHHHHHh
Confidence            479999999999999999999999997  48999999999887543

>d2cqqa1 a.4.1.3 (A:8-66) DnaJ homolog subfamily C member 1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: DnaJ homolog subfamily C member 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.82  E-value=2.6e-09  Score=57.90  Aligned_cols=46  Identities=24%  Similarity=0.445  Sum_probs=40.3

Q ss_pred             cCCCHHHHHHHHHHHhhCC----cchhccccccCCCHHHHHHHHHHHHhH
Q psy15548         54 TEWSREEDEKLLHLAKLMP----TQWRTIAPIIGRTAAQCLERYEFLLYR   99 (108)
Q Consensus        54 ~~Wt~eEd~~L~~~v~~~g----~~W~~Ia~~~gRt~~q~~~r~~~~~~~   99 (108)
                      +.||.+|+..|..++.+|+    .+|..||...|||..+|..||..+...
T Consensus         2 ~eWT~ee~~~le~Al~~~P~gt~~RW~~IA~~vgkt~~ev~~~~k~l~e~   51 (59)
T d2cqqa1           2 PEWTEEDLSQLTRSMVKFPGGTPGRWEKIAHELGRSVTDVTTKAKQLKDS   51 (59)
T ss_dssp             CCCCHHHHHHHHHHHHHSCTTCTTHHHHHHHHHTSCHHHHHHHHHHHHHS
T ss_pred             CCCCHHHHHHHHHHHHHCCCCCcHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            5799999999999999997    479999993399999999999877543

>d1wgxa_ a.4.1.3 (A:) Hypothetical protein C14orf106 (KIAA1903) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Hypothetical protein C14orf106 (KIAA1903)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.23  E-value=2.7e-06  Score=46.58  Aligned_cols=47  Identities=19%  Similarity=0.285  Sum_probs=42.0

Q ss_pred             CCCcHHHHHHHHHHHHHhCC---CCHHHHHHHhCCCCHHHHHHHhhhhcC
Q psy15548          2 LKTMTIVDEILKAAVMKYGK---NQWSRIASLLHRKSAKQCKARWFEWLD   48 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~---~~W~~Ia~~~~~R~~~qc~~rw~~~l~   48 (108)
                      ..|+++|-.+|..++...+.   +.|..||..+++|++..|...|...+.
T Consensus         9 ~~W~e~ELqkLh~A~~SlPkh~~gfW~~VA~~VGtRSaeECQ~ky~~~~~   58 (73)
T d1wgxa_           9 KEWNEKELQKLHCAFASLPKHKPGFWSEVAAAVGSRSPEECQRKYMENPR   58 (73)
T ss_dssp             SCCCHHHHHHHHHHHHHSCSSSSSHHHHHHHHTTTSCHHHHHHHHHHSSS
T ss_pred             cccCHHHHHHHHHHHHhcCCCCCccHHHHHHHHccCCHHHHHHHHHhCcc
Confidence            37999999999999998765   589999999999999999999987654

>d1x58a1 a.4.1.1 (A:8-56) Hypothetical protein 4930532d21rik {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Hypothetical protein 4930532d21rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.22  E-value=1.3e-06  Score=43.82  Aligned_cols=44  Identities=30%  Similarity=0.509  Sum_probs=39.0

Q ss_pred             cCCCHHHHHHHHHHHhhCCcchhcccc-c---cCCCHHHHHHHHHHHH
Q psy15548         54 TEWSREEDEKLLHLAKLMPTQWRTIAP-I---IGRTAAQCLERYEFLL   97 (108)
Q Consensus        54 ~~Wt~eEd~~L~~~v~~~g~~W~~Ia~-~---~gRt~~q~~~r~~~~~   97 (108)
                      ..||.||..-|...|+.+|+.|..|-= +   +||+..++..+|..++
T Consensus         2 knft~eEv~YL~~GVK~~G~~WNsILWs~PF~~GR~~vdLA~Ky~~l~   49 (49)
T d1x58a1           2 KDFTKEEVNYLFHGVKTMGNHWNSILWSFPFQKGRRAVDLAHKYHRLI   49 (49)
T ss_dssp             SSCCHHHHHHHHHHHHHHCSCHHHHHHHSCCCTTCCHHHHHHHHHHHH
T ss_pred             CcccHHHHHHHHHHHHHhcchhhhhhhccCCCCCchhhHHHHHHHhhC
Confidence            479999999999999999999999854 3   6999999999998763

>d1irza_ a.4.1.11 (A:) Arr10-B {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: GARP response regulators
domain: Arr10-B
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.09  E-value=5.1e-06  Score=45.23  Aligned_cols=45  Identities=13%  Similarity=0.169  Sum_probs=37.6

Q ss_pred             CCCcHHHHHHHHHHHHHhCCCCH--HHHHHHh--CCCCHHHHHHHhhhh
Q psy15548          2 LKTMTIVDEILKAAVMKYGKNQW--SRIASLL--HRKSAKQCKARWFEW   46 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~~~W--~~Ia~~~--~~R~~~qc~~rw~~~   46 (108)
                      +.||+||.+.++.+|+.+|.+.|  ..|...|  +++|..||+.|.+.|
T Consensus         8 ~~WT~elH~~Fv~Av~~lG~~~atpk~I~~~m~v~~lT~~qV~SHlQKY   56 (64)
T d1irza_           8 VLWTHELHNKFLAAVDHLGVERAVPKKILDLMNVDKLTRENVASHLQKF   56 (64)
T ss_dssp             CSSCHHHHHHHHHHHHHHCTTTCCHHHHHHHHCCTTCCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHhCccccchHHHHHHcCCCCCCHHHHHHHHHHH
Confidence            57999999999999999997444  6788775  488999999887665

>d1fexa_ a.4.1.3 (A:) Rap1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Rap1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.04  E-value=3.5e-06  Score=45.22  Aligned_cols=47  Identities=17%  Similarity=0.262  Sum_probs=40.5

Q ss_pred             CCCcHHHHHHHHHHHHHhCC--------CCHHHHHH-HhCCCCHHHHHHHhhhhcC
Q psy15548          2 LKTMTIVDEILKAAVMKYGK--------NQWSRIAS-LLHRKSAKQCKARWFEWLD   48 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~g~--------~~W~~Ia~-~~~~R~~~qc~~rw~~~l~   48 (108)
                      .|||.|||+.|++.|..+..        .-|.+++. .+|.+|..+-++||...|.
T Consensus         3 ~~fT~eeD~~l~~yv~~~~~~~~~~~Gn~iwk~l~~~~~~~HtwQSwrdRY~K~L~   58 (59)
T d1fexa_           3 IAFTDADDVAILTYVKENARSPSSVTGNALWKAMEKSSLTQHSWQSLKDRYLKHLR   58 (59)
T ss_dssp             CCCCHHHHHHHHHHHHHTCCSTTTTTSSHHHHHHHHSCSSSCCSHHHHHHHHHHTC
T ss_pred             CCCCHHHHHHHHHHHHHhccCcCCccHHHHHHHHHHhcCCCCCHHHHHHHHHHHhc
Confidence            58999999999999999743        24999996 6789999999999988764

>d1fexa_ a.4.1.3 (A:) Rap1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Rap1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.91  E-value=7.8e-06  Score=43.79  Aligned_cols=46  Identities=15%  Similarity=0.293  Sum_probs=38.8

Q ss_pred             ccCCCHHHHHHHHHHHhhCCc---------chhcccc--ccCCCHHHHHHHHHHHHh
Q psy15548         53 KTEWSREEDEKLLHLAKLMPT---------QWRTIAP--IIGRTAAQCLERYEFLLY   98 (108)
Q Consensus        53 ~~~Wt~eEd~~L~~~v~~~g~---------~W~~Ia~--~~gRt~~q~~~r~~~~~~   98 (108)
                      +.+||.+||+.|+..|..+..         =|.++++  ++.+|-.+-++||...|+
T Consensus         2 R~~fT~eeD~~l~~yv~~~~~~~~~~~Gn~iwk~l~~~~~~~HtwQSwrdRY~K~L~   58 (59)
T d1fexa_           2 RIAFTDADDVAILTYVKENARSPSSVTGNALWKAMEKSSLTQHSWQSLKDRYLKHLR   58 (59)
T ss_dssp             CCCCCHHHHHHHHHHHHHTCCSTTTTTSSHHHHHHHHSCSSSCCSHHHHHHHHHHTC
T ss_pred             CCCCCHHHHHHHHHHHHHhccCcCCccHHHHHHHHHHhcCCCCCHHHHHHHHHHHhc
Confidence            468999999999999987642         3999885  789999999999987764

>d1x58a1 a.4.1.1 (A:8-56) Hypothetical protein 4930532d21rik {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Hypothetical protein 4930532d21rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.81  E-value=4.7e-05  Score=37.97  Aligned_cols=43  Identities=14%  Similarity=0.168  Sum_probs=38.9

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCHHHHHHHhC---CCCHHHHHHHhhhh
Q psy15548          3 KTMTIVDEILKAAVMKYGKNQWSRIASLLH---RKSAKQCKARWFEW   46 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~---~R~~~qc~~rw~~~   46 (108)
                      -||.||-.-|...|+.+|. .|+.|-=.+|   ||+......+|+..
T Consensus         3 nft~eEv~YL~~GVK~~G~-~WNsILWs~PF~~GR~~vdLA~Ky~~l   48 (49)
T d1x58a1           3 DFTKEEVNYLFHGVKTMGN-HWNSILWSFPFQKGRRAVDLAHKYHRL   48 (49)
T ss_dssp             SCCHHHHHHHHHHHHHHCS-CHHHHHHHSCCCTTCCHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhcc-hhhhhhhccCCCCCchhhHHHHHHHhh
Confidence            5999999999999999996 9999998877   99999999988763

>d1irza_ a.4.1.11 (A:) Arr10-B {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: GARP response regulators
domain: Arr10-B
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.76  E-value=3.6e-05  Score=41.74  Aligned_cols=48  Identities=13%  Similarity=0.149  Sum_probs=38.7

Q ss_pred             cccCCCHHHHHHHHHHHhhCCcchh---cccc---ccCCCHHHHHHHHHHHHhH
Q psy15548         52 KKTEWSREEDEKLLHLAKLMPTQWR---TIAP---IIGRTAAQCLERYEFLLYR   99 (108)
Q Consensus        52 ~~~~Wt~eEd~~L~~~v~~~g~~W~---~Ia~---~~gRt~~q~~~r~~~~~~~   99 (108)
                      .+-.||+|+...+++++..+|.+|.   .|..   ++|+|..||+.+-+.+.-.
T Consensus         6 ~R~~WT~elH~~Fv~Av~~lG~~~atpk~I~~~m~v~~lT~~qV~SHlQKYrl~   59 (64)
T d1irza_           6 PRVLWTHELHNKFLAAVDHLGVERAVPKKILDLMNVDKLTRENVASHLQKFRVA   59 (64)
T ss_dssp             SSCSSCHHHHHHHHHHHHHHCTTTCCHHHHHHHHCCTTCCHHHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHhCccccchHHHHHHcCCCCCCHHHHHHHHHHHHHH
Confidence            3457999999999999999998874   5655   3689999999887766443

>d1wgxa_ a.4.1.3 (A:) Hypothetical protein C14orf106 (KIAA1903) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: Hypothetical protein C14orf106 (KIAA1903)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.78  E-value=0.0019  Score=34.99  Aligned_cols=47  Identities=23%  Similarity=0.430  Sum_probs=39.2

Q ss_pred             CcccCCCHHHHHHHHHHHhhCC----cchhcccc-ccCCCHHHHHHHHHHHH
Q psy15548         51 IKKTEWSREEDEKLLHLAKLMP----TQWRTIAP-IIGRTAAQCLERYEFLL   97 (108)
Q Consensus        51 ~~~~~Wt~eEd~~L~~~v~~~g----~~W~~Ia~-~~gRt~~q~~~r~~~~~   97 (108)
                      ...+.|+++|-.+|-.++....    +-|..||. +-.||+..|...|..-+
T Consensus         6 t~d~~W~e~ELqkLh~A~~SlPkh~~gfW~~VA~~VGtRSaeECQ~ky~~~~   57 (73)
T d1wgxa_           6 SGDKEWNEKELQKLHCAFASLPKHKPGFWSEVAAAVGSRSPEECQRKYMENP   57 (73)
T ss_dssp             CSSSCCCHHHHHHHHHHHHHSCSSSSSHHHHHHHHTTTSCHHHHHHHHHHSS
T ss_pred             CcccccCHHHHHHHHHHHHhcCCCCCccHHHHHHHHccCCHHHHHHHHHhCc
Confidence            3456899999999999998776    36999999 55699999999997654

>d1ofcx1 a.4.1.3 (X:799-850) SANT domain of the nucleosome remodeling ATPase ISWI {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: SANT domain of the nucleosome remodeling ATPase ISWI
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=96.67  E-value=0.0015  Score=33.66  Aligned_cols=39  Identities=18%  Similarity=0.125  Sum_probs=35.9

Q ss_pred             CCcHHHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHH
Q psy15548          3 KTMTIVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKA   41 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~   41 (108)
                      -||.-|=..++.+.++||..+-..||..|.++|+..+..
T Consensus         1 ~WnrrdF~~Fi~a~ekyGR~d~~~Ia~e~~~Kt~eEV~~   39 (52)
T d1ofcx1           1 AWTKRDFNQFIKANEKYGRDDIDNIAKDVEGKTPEEVIE   39 (52)
T ss_dssp             TCCHHHHHHHHHHHHHHCTTCHHHHTTSSTTCCHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHhhHHHHHHHhcCCCHHHHHH
Confidence            399999999999999999989999999999999998754

>d1ofcx2 a.4.1.13 (X:851-978) SLIDE domain of the nucleosome remodeling ATPase ISWI {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: SLIDE domain
domain: SLIDE domain of the nucleosome remodeling ATPase ISWI
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=94.90  E-value=0.032  Score=33.59  Aligned_cols=45  Identities=16%  Similarity=0.279  Sum_probs=36.9

Q ss_pred             CCcHHHHHHHHHHHHHhCCCC---HHHHHHH------------hCCCCHHHHHHHhhhhc
Q psy15548          3 KTMTIVDEILKAAVMKYGKNQ---WSRIASL------------LHRKSAKQCKARWFEWL   47 (108)
Q Consensus         3 ~Wt~eEd~~L~~~v~~~g~~~---W~~Ia~~------------~~~R~~~qc~~rw~~~l   47 (108)
                      .+|.|||.-|+-++.+||.++   |..|-..            +.+||+..+..|-...+
T Consensus        51 ~yteeEDRfLl~~~~~~G~~~~~~~e~ir~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi  110 (128)
T d1ofcx2          51 NYTEIEDRFLVCMLHKLGFDKENVYEELRAAIRASPQFRFDWFIKSRTALELQRRCNTLI  110 (128)
T ss_dssp             SCCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHCGGGTTCHHHHTCCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHhcCCCccHHHHHHHHHHhCcchhhhhHhccCCHHHHHHHHHHHH
Confidence            479999999999999999987   9988543            22799999999876643

>d1ofcx1 a.4.1.3 (X:799-850) SANT domain of the nucleosome remodeling ATPase ISWI {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Myb/SANT domain
domain: SANT domain of the nucleosome remodeling ATPase ISWI
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=94.80  E-value=0.045  Score=27.81  Aligned_cols=37  Identities=16%  Similarity=0.418  Sum_probs=33.5

Q ss_pred             CCCHHHHHHHHHHHhhCC-cchhcccc-ccCCCHHHHHH
Q psy15548         55 EWSREEDEKLLHLAKLMP-TQWRTIAP-IIGRTAAQCLE   91 (108)
Q Consensus        55 ~Wt~eEd~~L~~~v~~~g-~~W~~Ia~-~~gRt~~q~~~   91 (108)
                      .|+.-|=..++.+..+|| .+-..||. +.|+|+..|+.
T Consensus         1 ~WnrrdF~~Fi~a~ekyGR~d~~~Ia~e~~~Kt~eEV~~   39 (52)
T d1ofcx1           1 AWTKRDFNQFIKANEKYGRDDIDNIAKDVEGKTPEEVIE   39 (52)
T ss_dssp             TCCHHHHHHHHHHHHHHCTTCHHHHTTSSTTCCHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHhhHHHHHHHhcCCCHHHHHH
Confidence            499999999999999999 58999999 88999999875

>d1ofcx2 a.4.1.13 (X:851-978) SLIDE domain of the nucleosome remodeling ATPase ISWI {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: SLIDE domain
domain: SLIDE domain of the nucleosome remodeling ATPase ISWI
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=94.70  E-value=0.027  Score=33.92  Aligned_cols=54  Identities=20%  Similarity=0.279  Sum_probs=42.4

Q ss_pred             CCcccCCCHHHHHHHHHHHhhCC-cc---hhcccc-c------------cCCCHHHHHHHHHHHHhHHHhh
Q psy15548         50 SIKKTEWSREEDEKLLHLAKLMP-TQ---WRTIAP-I------------IGRTAAQCLERYEFLLYRARRK  103 (108)
Q Consensus        50 ~~~~~~Wt~eEd~~L~~~v~~~g-~~---W~~Ia~-~------------~gRt~~q~~~r~~~~~~~~~~~  103 (108)
                      +.++..+|.+||.-|+-++..+| .+   |..|-. +            ..||+..+..|...+++-..+.
T Consensus        46 ~nk~k~yteeEDRfLl~~~~~~G~~~~~~~e~ir~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i~kE  116 (128)
T d1ofcx2          46 NNKGKNYTEIEDRFLVCMLHKLGFDKENVYEELRAAIRASPQFRFDWFIKSRTALELQRRCNTLITLIERE  116 (128)
T ss_dssp             TCCCSSCCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHCGGGTTCHHHHTCCHHHHHHHHHHHHHHHHHH
T ss_pred             ccCCCccCHHHHHHHHHHHHHhcCCCccHHHHHHHHHHhCcchhhhhHhccCCHHHHHHHHHHHHHHHHHH
Confidence            44555799999999999999998 44   877632 1            3699999999999998876554

>d1kkxa_ a.4.3.1 (A:) Transcription regulator Adr6 (Swi1) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: ARID-like
family: ARID domain
domain: Transcription regulator Adr6 (Swi1)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.60  E-value=0.067  Score=30.68  Aligned_cols=39  Identities=33%  Similarity=0.498  Sum_probs=29.9

Q ss_pred             HHHHHHHHhCC-------CCHHHHHHHhCCCCHHHHHHHhhhhcCC
Q psy15548         11 ILKAAVMKYGK-------NQWSRIASLLHRKSAKQCKARWFEWLDP   49 (108)
Q Consensus        11 ~L~~~v~~~g~-------~~W~~Ia~~~~~R~~~qc~~rw~~~l~~   49 (108)
                      .|..+|.++|.       ..|..||..|+.-...+.+..|.++|.|
T Consensus        38 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~lr~~Y~~~L~~   83 (102)
T d1kkxa_          38 YLYMLVQKFGGADQVTRTQQWSMVAQRLQISDYQQLESIYFRILLP   83 (102)
T ss_dssp             HHHHHHTTTSCHHHHTTSHHHHHHHHHHTCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcChHHhcccCcHHHHHHHHCCChHHHHHHHHHHHHHH
Confidence            46667777764       2599999999877888888888887654

>d1nexa1 a.157.1.1 (A:116-185) Centromere DNA-binding protein complex Cbf3 subunit D, CBF3D {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: Skp1 dimerisation domain-like
superfamily: Skp1 dimerisation domain-like
family: Skp1 dimerisation domain-like
domain: Centromere DNA-binding protein complex Cbf3 subunit D, CBF3D
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.88  E-value=0.2  Score=26.76  Aligned_cols=34  Identities=12%  Similarity=0.328  Sum_probs=26.9

Q ss_pred             HHHHHHHhCCCCHHHHHHHhhhhcCCCCcccCCCHHHHHHH
Q psy15548         24 WSRIASLLHRKSAKQCKARWFEWLDPSIKKTEWSREEDEKL   64 (108)
Q Consensus        24 W~~Ia~~~~~R~~~qc~~rw~~~l~~~~~~~~Wt~eEd~~L   64 (108)
                      -..||..+.|+|+.++|..+.       -...+|++|++.+
T Consensus        36 c~~vA~~ikgkt~eeiR~~f~-------I~~D~t~eEe~~i   69 (70)
T d1nexa1          36 CKVVAEMIRGRSPEEIRRTFN-------IVNDFTPEEEAAI   69 (70)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHT-------CCCCCCHHHHHTC
T ss_pred             HHHHHHHHccCCHHHHHHHhC-------CCCCCCHHHHHhc
Confidence            577999999999999998762       2347899998753

>d2cg4a1 a.4.5.32 (A:4-66) Regulatory protein AsnC {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Lrp/AsnC-like transcriptional regulator N-terminal domain
domain: Regulatory protein AsnC
species: Escherichia coli [TaxId: 562]

Probab=89.76  E-value=0.19  Score=25.93  Aligned_cols=42  Identities=17%  Similarity=0.105  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHhhCC-cchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548         59 EEDEKLLHLAKLMP-TQWRTIAPIIGRTAAQCLERYEFLLYRA  100 (108)
Q Consensus        59 eEd~~L~~~v~~~g-~~W~~Ia~~~gRt~~q~~~r~~~~~~~~  100 (108)
                      +=|..|+..++..+ .+..+||+..|-|...|..|...+.+..
T Consensus         5 ~~D~~IL~~L~~~~r~s~~eiA~~l~ls~~~v~~Ri~rL~~~G   47 (63)
T d2cg4a1           5 NLDRGILEALMGNARTAYAELAKQFGVSPETIHVRVEKMKQAG   47 (63)
T ss_dssp             HHHHHHHHHHHHCTTSCHHHHHHHHTSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCC
Confidence            34778888888877 5899999988999999999999887764

>d2cfxa1 a.4.5.32 (A:1-63) Transcriptional regulator LrpC {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Lrp/AsnC-like transcriptional regulator N-terminal domain
domain: Transcriptional regulator LrpC
species: Bacillus subtilis [TaxId: 1423]

Probab=89.22  E-value=0.2  Score=25.96  Aligned_cols=42  Identities=17%  Similarity=0.068  Sum_probs=35.3

Q ss_pred             HHHHHHHHHHhhCC-cchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548         59 EEDEKLLHLAKLMP-TQWRTIAPIIGRTAAQCLERYEFLLYRA  100 (108)
Q Consensus        59 eEd~~L~~~v~~~g-~~W~~Ia~~~gRt~~q~~~r~~~~~~~~  100 (108)
                      +=|..|+.+++..| ....+||+..|-|+..|..|...+.+..
T Consensus         5 ~~D~~IL~~L~~n~r~s~~~iA~~lgis~~tv~~Ri~~L~~~g   47 (63)
T d2cfxa1           5 QIDLNIIEELKKDSRLSMRELGRKIKLSPPSVTERVRQLESFG   47 (63)
T ss_dssp             HHHHHHHHHHHHCSCCCHHHHHHHHTCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCC
Confidence            34778888888877 4889999999999999999998887654

>d2cyya1 a.4.5.32 (A:5-64) Putative transcriptional regulator PH1519 {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Lrp/AsnC-like transcriptional regulator N-terminal domain
domain: Putative transcriptional regulator PH1519
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=88.09  E-value=0.3  Score=24.85  Aligned_cols=42  Identities=24%  Similarity=0.249  Sum_probs=35.8

Q ss_pred             HHHHHHHHHHhhCC-cchhccccccCCCHHHHHHHHHHHHhHH
Q psy15548         59 EEDEKLLHLAKLMP-TQWRTIAPIIGRTAAQCLERYEFLLYRA  100 (108)
Q Consensus        59 eEd~~L~~~v~~~g-~~W~~Ia~~~gRt~~q~~~r~~~~~~~~  100 (108)
                      +-|..|+..++..+ ..+.+||+..|-|...|..|...+.+..
T Consensus         3 ~~D~~Il~~L~~n~r~s~~eiA~~l~ls~~~v~~Ri~~L~~~g   45 (60)
T d2cyya1           3 EIDKKIIKILQNDGKAPLREISKITGLAESTIHERIRKLRESG   45 (60)
T ss_dssp             HHHHHHHHHHHHCTTCCHHHHHHHHCSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCC
Confidence            45778898888877 4899999988999999999999887765

>d1i1ga1 a.4.5.32 (A:2-61) LprA {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Lrp/AsnC-like transcriptional regulator N-terminal domain
domain: LprA
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=86.40  E-value=0.43  Score=24.29  Aligned_cols=41  Identities=17%  Similarity=0.230  Sum_probs=35.4

Q ss_pred             HHHHHHHHHhhCCc-chhccccccCCCHHHHHHHHHHHHhHH
Q psy15548         60 EDEKLLHLAKLMPT-QWRTIAPIIGRTAAQCLERYEFLLYRA  100 (108)
Q Consensus        60 Ed~~L~~~v~~~g~-~W~~Ia~~~gRt~~q~~~r~~~~~~~~  100 (108)
                      -|.+|+.++...|. ...+||+..|=|+..|..|...+.+..
T Consensus         4 ~D~kIl~~L~~n~r~s~~~lA~~~gls~~~v~~Ri~~L~~~g   45 (60)
T d1i1ga1           4 RDKIILEILEKDARTPFTEIAKKLGISETAVRKRVKALEEKG   45 (60)
T ss_dssp             HHHHHHHHHHHCTTCCHHHHHHHHTSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCC
Confidence            47888998888874 889999989999999999999888765

>d2cg4a1 a.4.5.32 (A:4-66) Regulatory protein AsnC {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Lrp/AsnC-like transcriptional regulator N-terminal domain
domain: Regulatory protein AsnC
species: Escherichia coli [TaxId: 562]

Probab=86.30  E-value=1.1  Score=22.78  Aligned_cols=41  Identities=15%  Similarity=0.152  Sum_probs=35.0

Q ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcC
Q psy15548          7 IVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLD   48 (108)
Q Consensus         7 eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~   48 (108)
                      +=|..|+.++...+.....+||+.++ -+...|..|..+...
T Consensus         5 ~~D~~IL~~L~~~~r~s~~eiA~~l~-ls~~~v~~Ri~rL~~   45 (63)
T d2cg4a1           5 NLDRGILEALMGNARTAYAELAKQFG-VSPETIHVRVEKMKQ   45 (63)
T ss_dssp             HHHHHHHHHHHHCTTSCHHHHHHHHT-SCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCHHHHHHHHC-cCHHHHHHHHHHHHH
Confidence            44888999999998889999999995 799999999887544

>d1igna2 a.4.1.6 (A:446-594) DNA-binding domain of rap1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: DNA-binding domain of rap1
domain: DNA-binding domain of rap1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=86.20  E-value=1.1  Score=27.00  Aligned_cols=18  Identities=33%  Similarity=0.047  Sum_probs=15.3

Q ss_pred             CCCcHHHHHHHHHHHHHh
Q psy15548          2 LKTMTIVDEILKAAVMKY   19 (108)
Q Consensus         2 ~~Wt~eEd~~L~~~v~~~   19 (108)
                      -+||+|||-.|--+|.++
T Consensus         2 ~kfTAeeDY~La~~iKkq   19 (149)
T d1igna2           2 RKFSADEDYTLAIAVKKQ   19 (149)
T ss_dssp             CCCCHHHHHHHHHHHHHH
T ss_pred             CccchhhHHHHHHHHHHH
Confidence            489999999999999653

>d1ryua_ a.4.3.1 (A:) SWI-SNF complex protein p270, SMARCF1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: ARID-like
family: ARID domain
domain: SWI-SNF complex protein p270, SMARCF1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.06  E-value=0.38  Score=28.10  Aligned_cols=39  Identities=23%  Similarity=0.387  Sum_probs=27.1

Q ss_pred             HHHHHHHHhCC-------CCHHHHHHHhCCC----CHHHHHHHhhhhcCC
Q psy15548         11 ILKAAVMKYGK-------NQWSRIASLLHRK----SAKQCKARWFEWLDP   49 (108)
Q Consensus        11 ~L~~~v~~~g~-------~~W~~Ia~~~~~R----~~~qc~~rw~~~l~~   49 (108)
                      .|..+|.++|.       +.|.+||..|+--    ...+++..|.++|.|
T Consensus        54 ~Ly~~V~~~GG~~~V~~~~~W~~Va~~l~~~~~~~~~~~Lk~~Y~r~L~~  103 (120)
T d1ryua_          54 RLYVSVKEIGGLTQVNKNKKWRELATNLNVGTSSSAASSLKKQYIQCLYA  103 (120)
T ss_dssp             HHHHHHHHHTCTTGGGTSSHHHHHHHHTTSCCSSHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHhcCHHhhcccchHHHHHHHhCCCCCCCHHHHHHHHHHHHHHH
Confidence            56777777765       3799999988621    134567778777765

>d2cfxa1 a.4.5.32 (A:1-63) Transcriptional regulator LrpC {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Lrp/AsnC-like transcriptional regulator N-terminal domain
domain: Transcriptional regulator LrpC
species: Bacillus subtilis [TaxId: 1423]

Probab=85.90  E-value=1  Score=22.97  Aligned_cols=43  Identities=9%  Similarity=0.019  Sum_probs=35.8

Q ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCCC
Q psy15548          7 IVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDPS   50 (108)
Q Consensus         7 eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~~   50 (108)
                      +=|..|+.+....+.-...+||+.+ |-++..|..|..+....+
T Consensus         5 ~~D~~IL~~L~~n~r~s~~~iA~~l-gis~~tv~~Ri~~L~~~g   47 (63)
T d2cfxa1           5 QIDLNIIEELKKDSRLSMRELGRKI-KLSPPSVTERVRQLESFG   47 (63)
T ss_dssp             HHHHHHHHHHHHCSCCCHHHHHHHH-TCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCC
Confidence            3478888889888888999999999 589999999998765543

>d2cyya1 a.4.5.32 (A:5-64) Putative transcriptional regulator PH1519 {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Lrp/AsnC-like transcriptional regulator N-terminal domain
domain: Putative transcriptional regulator PH1519
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=85.20  E-value=0.95  Score=22.79  Aligned_cols=42  Identities=12%  Similarity=0.132  Sum_probs=35.3

Q ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHhCCCCHHHHHHHhhhhcCC
Q psy15548          7 IVDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWFEWLDP   49 (108)
Q Consensus         7 eEd~~L~~~v~~~g~~~W~~Ia~~~~~R~~~qc~~rw~~~l~~   49 (108)
                      +-|.+|+.+....+.-.+.+||..++ -+...|..|..+....
T Consensus         3 ~~D~~Il~~L~~n~r~s~~eiA~~l~-ls~~~v~~Ri~~L~~~   44 (60)
T d2cyya1           3 EIDKKIIKILQNDGKAPLREISKITG-LAESTIHERIRKLRES   44 (60)
T ss_dssp             HHHHHHHHHHHHCTTCCHHHHHHHHC-SCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCHHHHHHHHC-cCHHHHHHHHHHHHHC
Confidence            45888999999988889999999995 6999999998776443

>d1rp3a2 a.4.13.2 (A:164-234) Sigma factor sigma-28 (FliA) {Aquifex aeolicus [TaxId: 63363]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors
family: Sigma4 domain
domain: Sigma factor sigma-28 (FliA)
species: Aquifex aeolicus [TaxId: 63363]

Probab=85.00  E-value=0.78  Score=23.54  Aligned_cols=41  Identities=15%  Similarity=0.146  Sum_probs=31.4

Q ss_pred             HHHHHHHHhhCCcchhccccccCCCHHHHHHHHHHHHhHHH
Q psy15548         61 DEKLLHLAKLMPTQWRTIAPIIGRTAAQCLERYEFLLYRAR  101 (108)
Q Consensus        61 d~~L~~~v~~~g~~W~~Ia~~~gRt~~q~~~r~~~~~~~~~  101 (108)
                      +..++.+.--.|-+..+||..+|-|...|+.+....++...
T Consensus        26 ~r~v~~l~~~~~~s~~eIA~~lgis~~tv~~~~~ra~~~Lr   66 (71)
T d1rp3a2          26 EKLVIQLIFYEELPAKEVAKILETSVSRVSQLKAKALERLR   66 (71)
T ss_dssp             HHHHHHHHHTSCCCHHHHHHHTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhHhCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence            34445555566778899999999999999999887776543

>d1ig6a_ a.4.3.1 (A:) MRF-2 DNA-binding domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: ARID-like
family: ARID domain
domain: MRF-2 DNA-binding domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.10  E-value=0.52  Score=26.87  Aligned_cols=39  Identities=23%  Similarity=0.324  Sum_probs=27.7

Q ss_pred             HHHHHHHHhCC-------CCHHHHHHHhCC-----CCHHHHHHHhhhhcCC
Q psy15548         11 ILKAAVMKYGK-------NQWSRIASLLHR-----KSAKQCKARWFEWLDP   49 (108)
Q Consensus        11 ~L~~~v~~~g~-------~~W~~Ia~~~~~-----R~~~qc~~rw~~~l~~   49 (108)
                      .|..+|...|.       +.|..||..|+.     -....++..|.++|.+
T Consensus        37 ~Ly~~V~~~GG~~~V~~~~~W~~ia~~lg~~~~~~~~~~~Lk~~Y~~~L~~   87 (107)
T d1ig6a_          37 TMFQAAQKLGGYETITARRQWKHIYDELGGNPGSTSAATCTRRHYERLILP   87 (107)
T ss_dssp             HHHHHHHHTTHHHHHHHHTTHHHHHHHHTCCTTCTTTTTTHHHHHHHHTTT
T ss_pred             HHHHHHHHhCChhhccccccHHHHHHHhCCCCCCCCHHHHHHHHHHHHHHH
Confidence            56777888774       359999999862     1245777788887765

>d1kkxa_ a.4.3.1 (A:) Transcription regulator Adr6 (Swi1) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: ARID-like
family: ARID domain
domain: Transcription regulator Adr6 (Swi1)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=81.75  E-value=0.69  Score=26.12  Aligned_cols=40  Identities=23%  Similarity=0.201  Sum_probs=30.2

Q ss_pred             HHHHHHhhCCc--------chhcccc-ccCCCHHHHHHHHHHHHhHHHh
Q psy15548         63 KLLHLAKLMPT--------QWRTIAP-IIGRTAAQCLERYEFLLYRARR  102 (108)
Q Consensus        63 ~L~~~v~~~g~--------~W~~Ia~-~~gRt~~q~~~r~~~~~~~~~~  102 (108)
                      .|..+|...|+        .|..|++ +---.+.+++..|..+|.+.-+
T Consensus        38 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~lr~~Y~~~L~~yE~   86 (102)
T d1kkxa_          38 YLYMLVQKFGGADQVTRTQQWSMVAQRLQISDYQQLESIYFRILLPYER   86 (102)
T ss_dssp             HHHHHHTTTSCHHHHTTSHHHHHHHHHHTCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcChHHhcccCcHHHHHHHHCCChHHHHHHHHHHHHHHHHH
Confidence            46677777774        5999999 4336677889999999888643

>d1c20a_ a.4.3.1 (A:) DNA-binding domain from the dead ringer protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: ARID-like
family: ARID domain
domain: DNA-binding domain from the dead ringer protein
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=81.19  E-value=1.8  Score=25.28  Aligned_cols=39  Identities=28%  Similarity=0.446  Sum_probs=27.6

Q ss_pred             HHHHHHHHhCC-------CCHHHHHHHhCC----CC-HHHHHHHhhhhcCC
Q psy15548         11 ILKAAVMKYGK-------NQWSRIASLLHR----KS-AKQCKARWFEWLDP   49 (108)
Q Consensus        11 ~L~~~v~~~g~-------~~W~~Ia~~~~~----R~-~~qc~~rw~~~l~~   49 (108)
                      .|..+|.+.|.       +.|.+||..|+.    .+ +.+++..|.++|.|
T Consensus        56 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~k~L~~  106 (128)
T d1c20a_          56 ELYNLVIARGGLVDVINKKLWQEIIKGLHLPSSITSAAFTLRTQYMKYLYP  106 (128)
T ss_dssp             HHHHHHHHHTCHHHHHHHTTHHHHHHHTCCCSSCCSHHHHHHHHHHHHTHH
T ss_pred             HHHHHHHHhcCHHHhcccccHHHHHHHhCCCCCCCcHHHHHHHHHHHHHHH
Confidence            57778888875       369999999872    12 45667777777764