Psyllid ID: psy16796

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160------
Protein Sequence
MIASQERQQRSYFIPSSIMIQLFCNKTIEEEEEEEEEEEEEKEEEEEEEEENTRTEEMNERKENINKKKEEEKKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEGEDEEEEEEGEEEAKEQEQKQVGVIEKEKNKE
Secondary Structure (PSIPRED)
ccccHHHHccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccHHHHHHHHHHHHHccccccccHHHHHHHHHHccccccHHHHcccccHHHHHccHHHHHccHHHHHHHHHHcccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHEEccccccccccccccccccccccccHHHHHHHHHHHHHcccccHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
miasqerqqrsyfipssIMIQLFCNKTIEEEEEEEEEEEEEKEEEEEEEEENTRTEEMNERKENINKKKEeekknglprrlrTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVakeeeegedeeeeeegEEEAKEQEQKQVGVIEKEKNKE
Flexible Loop (DISEMBL)
miasqerqqrsyfipssimIQLFCNKTIEEEEeeeeeeeeekeeeeeeeeentrteemnerkeninkkkeeekknglprrlrTAYTNTQLLELEKEFhfnkylcrpRRIEIaasldlterqsdCKYYVAKEeeegedeeeeeegeeeakeqeqkqvgviekeknke
Low Complexity Region (SEG)
MIASQERQQRSYFIPSSIMIQLFCNKTIeeeeeeeeeeeeekeeeeeeeeentrteemnerkeninkkkeeekknGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYvakeeeegedeeeeeegeeeakeqeqkqvgvIEKEKNKE
Disordered region (IsUnstruct)
*********************************************************************************RTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYV**************************************
Disordered Region (DISOPRED)
***********************************************************************************AYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYV**************************************
Disordered Region (DISEMBL)
*********RSYFIPSSIMIQLFCNKTI***********************************NINKKKEEEKKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYV**************************************
Disordered Region (DISPRO)
****************************************************TRTEEMNERKEN*****************RTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEGED*****************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MIASQERQQRSYFIPSSIMIxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYxxxxxxxxxxxxxxxxxxxxxxxxxxxxVGVIEKEKNKE
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	166	2.2.26 [Sep-21-2011]
P31264	782	Homeotic protein probosci	yes	N/A	0.415	0.088	0.739	7e-24
P14652	356	Homeobox protein Hox-B2 O	yes	N/A	0.307	0.143	0.843	7e-20
O42365	363	Homeobox protein Hox-A2b	yes	N/A	0.307	0.140	0.823	2e-19
O42367	390	Homeobox protein Hox-B2a	no	N/A	0.259	0.110	0.953	2e-19
Q0VCS4	372	Homeobox protein Hox-A2 O	no	N/A	0.301	0.134	0.84	2e-19
Q6IEI0	415	Homeobox protein Hox-B2a	N/A	N/A	0.259	0.103	0.953	2e-19
P0C1T1	354	Homeobox protein Hox-B2 O	yes	N/A	0.277	0.129	0.830	3e-19
P31245	372	Homeobox protein Hox-A2 O	no	N/A	0.301	0.134	0.84	3e-19
O43364	376	Homeobox protein Hox-A2 O	no	N/A	0.301	0.132	0.84	3e-19
Q9IA20	363	Homeobox protein Hox-A2 O	N/A	N/A	0.307	0.140	0.823	3e-19

>sp|P31264|HMPB_DROME Homeotic protein proboscipedia OS=Drosophila melanogaster GN=pb PE=2 SV=2

 Score =  109 bits (273), Expect = 7e-24,   Method: Compositional matrix adjust.
 Identities = 51/69 (73%), Positives = 54/69 (78%)

Query: 53  TRTEEMNERKENINKKKEEEKKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIA 112
           T  +  N   +  N   E   +NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIA
Sbjct: 173 TSRKSSNNNNQGDNSITEFVPENGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIA 232

Query: 113 ASLDLTERQ 121
           ASLDLTERQ
Sbjct: 233 ASLDLTERQ 241

Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis. Controls development of mouthparts, and labial and maxillary palps.
Drosophila melanogaster (taxid: 7227)

>sp|P14652|HXB2_HUMAN Homeobox protein Hox-B2 OS=Homo sapiens GN=HOXB2 PE=1 SV=1

 Score = 96.3 bits (238), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 43/51 (84%), Positives = 44/51 (86%)

Query: 71  EEKKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
            E   G  RRLRTAYTNTQLLELEKEFHFNKYLCRPRR+EIAA LDLTERQ
Sbjct: 136 PEAGGGGARRLRTAYTNTQLLELEKEFHFNKYLCRPRRVEIAALLDLTERQ 186

Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis.

Homo sapiens (taxid: 9606)

>sp|O42365|HXA2B_DANRE Homeobox protein Hox-A2b OS=Danio rerio GN=hoxa2b PE=2 SV=2

 Score = 95.1 bits (235), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 42/51 (82%), Positives = 45/51 (88%)

Query: 71  EEKKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
            +  +G  RRLRTAYTNTQLLELEKEFHFNKYLCRPRR+EIAA LDLTERQ
Sbjct: 126 SDGGSGATRRLRTAYTNTQLLELEKEFHFNKYLCRPRRVEIAALLDLTERQ 176

Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis.

Danio rerio (taxid: 7955)

>sp|O42367|HXB2A_DANRE Homeobox protein Hox-B2a OS=Danio rerio GN=hoxb2a PE=2 SV=2

 Score = 94.7 bits (234), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 41/43 (95%), Positives = 42/43 (97%)

Query: 79  RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           RRLRTAYTNTQLLELEKEFHFNKYLCRPRR+EIAA LDLTERQ
Sbjct: 159 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRVEIAALLDLTERQ 201

Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis. Plays an important role in the patterning of hindbrain and pharyngeal arches.

Danio rerio (taxid: 7955)

>sp|Q0VCS4|HXA2_BOVIN Homeobox protein Hox-A2 OS=Bos taurus GN=HOXA2 PE=2 SV=1

 Score = 94.7 bits (234), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 42/50 (84%), Positives = 44/50 (88%)

Query: 72  EKKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           +   G  RRLRTAYTNTQLLELEKEFHFNKYLCRPRR+EIAA LDLTERQ
Sbjct: 133 DGSGGGSRRLRTAYTNTQLLELEKEFHFNKYLCRPRRVEIAALLDLTERQ 182

Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis.

Bos taurus (taxid: 9913)

>sp|Q6IEI0|HXB2A_TAKRU Homeobox protein Hox-B2a OS=Takifugu rubripes GN=hoxb2a PE=3 SV=1

 Score = 94.7 bits (234), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 41/43 (95%), Positives = 42/43 (97%)

Query: 79  RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           RRLRTAYTNTQLLELEKEFHFNKYLCRPRR+EIAA LDLTERQ
Sbjct: 174 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRVEIAALLDLTERQ 216

Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis.

Takifugu rubripes (taxid: 31033)

>sp|P0C1T1|HXB2_MOUSE Homeobox protein Hox-B2 OS=Mus musculus GN=Hoxb2 PE=2 SV=1

 Score = 94.4 bits (233), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 44/53 (83%), Positives = 45/53 (84%), Gaps = 7/53 (13%)

Query: 76  GLP-------RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           GLP       RRLRTAYTNTQLLELEKEFHFNKYLCRPRR+EIAA LDLTERQ
Sbjct: 132 GLPECGGSGSRRLRTAYTNTQLLELEKEFHFNKYLCRPRRVEIAALLDLTERQ 184

Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis.

Mus musculus (taxid: 10090)

>sp|P31245|HXA2_MOUSE Homeobox protein Hox-A2 OS=Mus musculus GN=Hoxa2 PE=2 SV=1

 Score = 94.4 bits (233), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 42/50 (84%), Positives = 44/50 (88%)

Query: 72  EKKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           +   G  RRLRTAYTNTQLLELEKEFHFNKYLCRPRR+EIAA LDLTERQ
Sbjct: 133 DGSGGGSRRLRTAYTNTQLLELEKEFHFNKYLCRPRRVEIAALLDLTERQ 182

Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis.

Mus musculus (taxid: 10090)

>sp|O43364|HXA2_HUMAN Homeobox protein Hox-A2 OS=Homo sapiens GN=HOXA2 PE=1 SV=1

 Score = 94.4 bits (233), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 42/50 (84%), Positives = 44/50 (88%)

Query: 72  EKKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           +   G  RRLRTAYTNTQLLELEKEFHFNKYLCRPRR+EIAA LDLTERQ
Sbjct: 137 DGSGGGSRRLRTAYTNTQLLELEKEFHFNKYLCRPRRVEIAALLDLTERQ 186

Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis.

Homo sapiens (taxid: 9606)

>sp|Q9IA20|HXA2_HETFR Homeobox protein Hox-A2 OS=Heterodontus francisci GN=HOXA2 PE=3 SV=1

 Score = 94.4 bits (233), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 42/51 (82%), Positives = 44/51 (86%)

Query: 71  EEKKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
            +   G  RRLRTAYTNTQLLELEKEFHFNKYLCRPRR+EIAA LDLTERQ
Sbjct: 123 PDNTGGGSRRLRTAYTNTQLLELEKEFHFNKYLCRPRRVEIAALLDLTERQ 173

Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis.

Heterodontus francisci (taxid: 7792)

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	166
242011846	535	proboscipedia, putative [Pediculus human	0.506	0.157	0.614	5e-24
156551129	918	PREDICTED: hypothetical protein LOC10012	0.445	0.080	0.689	1e-23
328700892	905	PREDICTED: hypothetical protein LOC10016	0.445	0.081	0.630	1e-23
45553273	777	proboscipedia, isoform B [Drosophila mel	0.367	0.078	0.819	1e-23
195498941	784	GE25834 [Drosophila yakuba] gi|194182839	0.367	0.077	0.819	2e-23
60678586	758	Dbuz\pb-PB [Drosophila buzzatii]	0.367	0.080	0.819	2e-23
347972357	789	AGAP004648-PA [Anopheles gambiae str. PE	0.548	0.115	0.553	5e-23
45553271	777	proboscipedia, isoform C [Drosophila mel	0.367	0.078	0.819	1e-22
60678585	758	Dbuz\pb-PC [Drosophila buzzatii]	0.367	0.080	0.819	1e-22
167234210	654	maxillopedia [Tribolium castaneum] gi|27	0.325	0.082	0.888	1e-22

>gi|242011846|ref|XP_002426655.1| proboscipedia, putative [Pediculus humanus corporis] gi|212510819|gb|EEB13917.1| proboscipedia, putative [Pediculus humanus corporis]

 Score =  115 bits (289), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 59/96 (61%), Positives = 70/96 (72%), Gaps = 12/96 (12%)

Query: 67  KKKEEEKKN--GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDC 124
           K+KEE KKN  GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ   
Sbjct: 2   KRKEENKKNQNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQVKV 61

Query: 125 KY----------YVAKEEEEGEDEEEEEEGEEEAKE 150
            +           ++K+ E+GE+ ++   G + +K 
Sbjct: 62  WFQNRRMKHKRQSLSKQGEDGEEIKDSPTGGKGSKS 97

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156551129|ref|XP_001603788.1| PREDICTED: hypothetical protein LOC100120119 [Nasonia vitripennis]

 Score =  114 bits (285), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 51/74 (68%), Positives = 57/74 (77%)

Query: 48  EEEENTRTEEMNERKENINKKKEEEKKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPR 107
           ++       E    KE    +K  +++NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPR
Sbjct: 188 QDASGVNVPEYPWMKEKKTTRKSSQQENGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPR 247

Query: 108 RIEIAASLDLTERQ 121
           RIEIAASLDLTERQ
Sbjct: 248 RIEIAASLDLTERQ 261

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328700892|ref|XP_001945225.2| PREDICTED: hypothetical protein LOC100169134 [Acyrthosiphon pisum]

 Score =  114 bits (285), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 53/84 (63%), Positives = 64/84 (76%), Gaps = 10/84 (11%)

Query: 71  EEKKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKY---- 126
           +EK+NGLPRRLRTAYTNTQLLELEKEFHF+KYLCRPRRIEIAASLDLTERQ    +    
Sbjct: 202 DEKQNGLPRRLRTAYTNTQLLELEKEFHFSKYLCRPRRIEIAASLDLTERQVKVWFQNRR 261

Query: 127 ------YVAKEEEEGEDEEEEEEG 144
                  + K+ E+G+D++ +  G
Sbjct: 262 MKHKRQTINKQGEDGDDKDSQSSG 285

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|45553273|ref|NP_996163.1| proboscipedia, isoform B [Drosophila melanogaster] gi|45446404|gb|AAS65120.1| proboscipedia, isoform B [Drosophila melanogaster]

 Score =  114 bits (285), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 50/61 (81%), Positives = 53/61 (86%)

Query: 61  RKENINKKKEEEKKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTER 120
           +  N N + +   KNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTER
Sbjct: 176 KSSNNNNQGDNSIKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTER 235

Query: 121 Q 121
           Q
Sbjct: 236 Q 236

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195498941|ref|XP_002096738.1| GE25834 [Drosophila yakuba] gi|194182839|gb|EDW96450.1| GE25834 [Drosophila yakuba]

 Score =  114 bits (284), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 50/61 (81%), Positives = 53/61 (86%)

Query: 61  RKENINKKKEEEKKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTER 120
           +  N N + +   KNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTER
Sbjct: 176 KSSNNNNQGDNSIKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTER 235

Query: 121 Q 121
           Q
Sbjct: 236 Q 236

Source: Drosophila yakuba

Species: Drosophila yakuba

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|60678586|gb|AAX33662.1| Dbuz\pb-PB [Drosophila buzzatii]

 Score =  114 bits (284), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 50/61 (81%), Positives = 53/61 (86%)

Query: 61  RKENINKKKEEEKKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTER 120
           +  N N + +   KNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTER
Sbjct: 152 KSSNNNNQGDNSIKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTER 211

Query: 121 Q 121
           Q
Sbjct: 212 Q 212

Source: Drosophila buzzatii

Species: Drosophila buzzatii

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|347972357|ref|XP_001688961.2| AGAP004648-PA [Anopheles gambiae str. PEST] gi|333469403|gb|EDO63635.2| AGAP004648-PA [Anopheles gambiae str. PEST]

 Score =  112 bits (280), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 52/94 (55%), Positives = 69/94 (73%), Gaps = 3/94 (3%)

Query: 75  NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYY---VAKE 131
           NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ    +    +  +
Sbjct: 181 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQVKVWFQNRRMKHK 240

Query: 132 EEEGEDEEEEEEGEEEAKEQEQKQVGVIEKEKNK 165
            +     +++E G+++ K + ++ +G++    +K
Sbjct: 241 RQTLSKTDDDESGKDDLKGEHEQLIGIVSDSNSK 274

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|45553271|ref|NP_996162.1| proboscipedia, isoform C [Drosophila melanogaster] gi|45446403|gb|AAS65119.1| proboscipedia, isoform C [Drosophila melanogaster]

 Score =  111 bits (277), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 50/61 (81%), Positives = 53/61 (86%)

Query: 61  RKENINKKKEEEKKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTER 120
           +  N N + E   +NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTER
Sbjct: 176 KSSNNNNQAEFVPENGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTER 235

Query: 121 Q 121
           Q
Sbjct: 236 Q 236

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|60678585|gb|AAX33661.1| Dbuz\pb-PC [Drosophila buzzatii]

 Score =  111 bits (277), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 50/61 (81%), Positives = 53/61 (86%)

Query: 61  RKENINKKKEEEKKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTER 120
           +  N N + E   +NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTER
Sbjct: 152 KSSNNNNQAEFVPENGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTER 211

Query: 121 Q 121
           Q
Sbjct: 212 Q 212

Source: Drosophila buzzatii

Species: Drosophila buzzatii

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|167234210|ref|NP_001107807.1| maxillopedia [Tribolium castaneum] gi|270002809|gb|EEZ99256.1| proboscipedia [Tribolium castaneum]

 Score =  111 bits (277), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 48/54 (88%), Positives = 52/54 (96%)

Query: 68  KKEEEKKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           +K  +++NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ
Sbjct: 125 RKSSQQENGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 178

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	166
FB|FBgn0051481	782	pb "proboscipedia" [Drosophila	0.277	0.058	1.0	7.8e-19
ZFIN|ZDB-GENE-990415-98	363	hoxa2b "homeo box A2b" [Danio	0.277	0.126	0.913	1.5e-17
RGD|2319509	305	Hoxb2 "homeobox B2" [Rattus no	0.277	0.150	0.913	1.6e-17
UNIPROTKB|F6UWJ9	342	HOXB2 "Uncharacterized protein	0.277	0.134	0.913	2.4e-17
UNIPROTKB|F1RWG7	353	HOXB2 "Uncharacterized protein	0.277	0.130	0.913	2.9e-17
UNIPROTKB|E1BGM6	354	HOXB2 "Uncharacterized protein	0.277	0.129	0.913	2.9e-17
UNIPROTKB|P14652	356	HOXB2 "Homeobox protein Hox-B2	0.277	0.129	0.913	3e-17
UNIPROTKB|F1MD21	372	HOXA2 "Homeobox protein Hox-A2	0.277	0.123	0.913	3.8e-17
UNIPROTKB|Q0VCS4	372	HOXA2 "Homeobox protein Hox-A2	0.277	0.123	0.913	3.8e-17
MGI|MGI:96174	372	Hoxa2 "homeobox A2" [Mus muscu	0.277	0.123	0.913	3.8e-17

FB|FBgn0051481 pb "proboscipedia" [Drosophila melanogaster (taxid:7227)]

 Score = 237 (88.5 bits), Expect = 7.8e-19, P = 7.8e-19
 Identities = 46/46 (100%), Positives = 46/46 (100%)

Query:    76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
             GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ
Sbjct:   196 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 241

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

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=ISS

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

GO:0007381 "specification of segmental identity, labial segment" evidence=IMP;NAS

GO:0007382 "specification of segmental identity, maxillary segment" evidence=IMP;NAS

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

GO:0048728 "proboscis development" evidence=IMP

ZFIN|ZDB-GENE-990415-98 hoxa2b "homeo box A2b" [Danio rerio (taxid:7955)]

 Score = 217 (81.4 bits), Expect = 1.5e-17, P = 1.5e-17
 Identities = 42/46 (91%), Positives = 43/46 (93%)

Query:    76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
             G  RRLRTAYTNTQLLELEKEFHFNKYLCRPRR+EIAA LDLTERQ
Sbjct:   131 GATRRLRTAYTNTQLLELEKEFHFNKYLCRPRRVEIAALLDLTERQ 176

GO:0003677 "DNA binding" evidence=IEA

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

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

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

GO:0005634 "nucleus" evidence=IEA

GO:0007275 "multicellular organismal development" evidence=IEA

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

RGD|2319509 Hoxb2 "homeobox B2" [Rattus norvegicus (taxid:10116)]

 Score = 214 (80.4 bits), Expect = 1.6e-17, P = 1.6e-17
 Identities = 42/46 (91%), Positives = 43/46 (93%)

Query:    76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
             G  RRLRTAYTNTQLLELEKEFHFNKYLCRPRR+EIAA LDLTERQ
Sbjct:   125 GGARRLRTAYTNTQLLELEKEFHFNKYLCRPRRVEIAALLDLTERQ 170

GO:0002011 "morphogenesis of an epithelial sheet" evidence=ISO

GO:0009952 "anterior/posterior pattern specification" evidence=ISO

GO:0009953 "dorsal/ventral pattern formation" evidence=ISO

GO:0021569 "rhombomere 3 development" evidence=ISO

GO:0021570 "rhombomere 4 development" evidence=ISO

GO:0021612 "facial nerve structural organization" evidence=ISO

GO:0048704 "embryonic skeletal system morphogenesis" evidence=ISO

GO:0048705 "skeletal system morphogenesis" evidence=ISO

GO:0048857 "neural nucleus development" evidence=ISO

UNIPROTKB|F6UWJ9 HOXB2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 214 (80.4 bits), Expect = 2.4e-17, P = 2.4e-17
 Identities = 42/46 (91%), Positives = 43/46 (93%)

Query:    76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
             G  RRLRTAYTNTQLLELEKEFHFNKYLCRPRR+EIAA LDLTERQ
Sbjct:   137 GGARRLRTAYTNTQLLELEKEFHFNKYLCRPRRVEIAALLDLTERQ 182

GO:0005634 "nucleus" evidence=IEA

GO:0007275 "multicellular organismal development" evidence=IEA

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

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

UNIPROTKB|F1RWG7 HOXB2 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 214 (80.4 bits), Expect = 2.9e-17, P = 2.9e-17
 Identities = 42/46 (91%), Positives = 43/46 (93%)

Query:    76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
             G  RRLRTAYTNTQLLELEKEFHFNKYLCRPRR+EIAA LDLTERQ
Sbjct:   139 GGARRLRTAYTNTQLLELEKEFHFNKYLCRPRRVEIAALLDLTERQ 184

GO:0005634 "nucleus" evidence=IEA

GO:0048857 "neural nucleus development" evidence=IEA

GO:0048704 "embryonic skeletal system morphogenesis" evidence=IEA

GO:0021612 "facial nerve structural organization" evidence=IEA

GO:0021570 "rhombomere 4 development" evidence=IEA

GO:0021569 "rhombomere 3 development" evidence=IEA

GO:0009953 "dorsal/ventral pattern formation" evidence=IEA

GO:0009952 "anterior/posterior pattern specification" evidence=IEA

GO:0002011 "morphogenesis of an epithelial sheet" evidence=IEA

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

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

UNIPROTKB|E1BGM6 HOXB2 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 214 (80.4 bits), Expect = 2.9e-17, P = 2.9e-17
 Identities = 42/46 (91%), Positives = 43/46 (93%)

Query:    76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
             G  RRLRTAYTNTQLLELEKEFHFNKYLCRPRR+EIAA LDLTERQ
Sbjct:   138 GGARRLRTAYTNTQLLELEKEFHFNKYLCRPRRVEIAALLDLTERQ 183

GO:0005634 "nucleus" evidence=IEA

GO:0048857 "neural nucleus development" evidence=IEA

GO:0048704 "embryonic skeletal system morphogenesis" evidence=IEA

GO:0021612 "facial nerve structural organization" evidence=IEA

GO:0021570 "rhombomere 4 development" evidence=IEA

GO:0021569 "rhombomere 3 development" evidence=IEA

GO:0009953 "dorsal/ventral pattern formation" evidence=IEA

GO:0009952 "anterior/posterior pattern specification" evidence=IEA

GO:0002011 "morphogenesis of an epithelial sheet" evidence=IEA

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

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

UNIPROTKB|P14652 HOXB2 "Homeobox protein Hox-B2" [Homo sapiens (taxid:9606)]

 Score = 214 (80.4 bits), Expect = 3.0e-17, P = 3.0e-17
 Identities = 42/46 (91%), Positives = 43/46 (93%)

Query:    76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
             G  RRLRTAYTNTQLLELEKEFHFNKYLCRPRR+EIAA LDLTERQ
Sbjct:   141 GGARRLRTAYTNTQLLELEKEFHFNKYLCRPRRVEIAALLDLTERQ 186

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

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

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

GO:0002011 "morphogenesis of an epithelial sheet" evidence=IEA

GO:0009952 "anterior/posterior pattern specification" evidence=IEA

GO:0009953 "dorsal/ventral pattern formation" evidence=IEA

GO:0021569 "rhombomere 3 development" evidence=IEA

GO:0021570 "rhombomere 4 development" evidence=IEA

GO:0021612 "facial nerve structural organization" evidence=IEA

GO:0048704 "embryonic skeletal system morphogenesis" evidence=IEA

GO:0048857 "neural nucleus development" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0007275 "multicellular organismal development" evidence=TAS

GO:0008015 "blood circulation" evidence=TAS

UNIPROTKB|F1MD21 HOXA2 "Homeobox protein Hox-A2" [Bos taurus (taxid:9913)]

 Score = 214 (80.4 bits), Expect = 3.8e-17, P = 3.8e-17
 Identities = 42/46 (91%), Positives = 43/46 (93%)

Query:    76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
             G  RRLRTAYTNTQLLELEKEFHFNKYLCRPRR+EIAA LDLTERQ
Sbjct:   137 GGSRRLRTAYTNTQLLELEKEFHFNKYLCRPRRVEIAALLDLTERQ 182

GO:0005634 "nucleus" evidence=IEA

GO:0048703 "embryonic viscerocranium morphogenesis" evidence=IEA

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

GO:0045665 "negative regulation of neuron differentiation" evidence=IEA

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

GO:0042474 "middle ear morphogenesis" evidence=IEA

GO:0035284 "brain segmentation" evidence=IEA

GO:0021658 "rhombomere 3 morphogenesis" evidence=IEA

GO:0021568 "rhombomere 2 development" evidence=IEA

GO:0009953 "dorsal/ventral pattern formation" evidence=IEA

GO:0009952 "anterior/posterior pattern specification" evidence=IEA

GO:0008045 "motor neuron axon guidance" evidence=IEA

GO:0007379 "segment specification" evidence=IEA

GO:0002076 "osteoblast development" evidence=IEA

GO:0001709 "cell fate determination" evidence=IEA

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

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

UNIPROTKB|Q0VCS4 HOXA2 "Homeobox protein Hox-A2" [Bos taurus (taxid:9913)]

 Score = 214 (80.4 bits), Expect = 3.8e-17, P = 3.8e-17
 Identities = 42/46 (91%), Positives = 43/46 (93%)

Query:    76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
             G  RRLRTAYTNTQLLELEKEFHFNKYLCRPRR+EIAA LDLTERQ
Sbjct:   137 GGSRRLRTAYTNTQLLELEKEFHFNKYLCRPRRVEIAALLDLTERQ 182

GO:0005634 "nucleus" evidence=IEA

GO:0007275 "multicellular organismal development" evidence=IEA

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

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

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

MGI|MGI:96174 Hoxa2 "homeobox A2" [Mus musculus (taxid:10090)]

 Score = 214 (80.4 bits), Expect = 3.8e-17, P = 3.8e-17
 Identities = 42/46 (91%), Positives = 43/46 (93%)

Query:    76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
             G  RRLRTAYTNTQLLELEKEFHFNKYLCRPRR+EIAA LDLTERQ
Sbjct:   137 GGSRRLRTAYTNTQLLELEKEFHFNKYLCRPRRVEIAALLDLTERQ 182

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

GO:0001709 "cell fate determination" evidence=IMP

GO:0002076 "osteoblast development" evidence=IGI

GO:0003677 "DNA binding" evidence=IEA

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

GO:0005634 "nucleus" evidence=IDA

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

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

GO:0007275 "multicellular organismal development" evidence=IEA

GO:0007379 "segment specification" evidence=IMP

GO:0007389 "pattern specification process" evidence=IMP

GO:0008045 "motor neuron axon guidance" evidence=IMP

GO:0009952 "anterior/posterior pattern specification" evidence=IMP

GO:0009953 "dorsal/ventral pattern formation" evidence=IGI;IMP

GO:0021568 "rhombomere 2 development" evidence=IMP

GO:0021569 "rhombomere 3 development" evidence=IGI

GO:0021658 "rhombomere 3 morphogenesis" evidence=IMP

GO:0035284 "brain segmentation" evidence=IMP

GO:0042474 "middle ear morphogenesis" evidence=IGI;IMP

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

GO:0045165 "cell fate commitment" evidence=IMP

GO:0045665 "negative regulation of neuron differentiation" evidence=IGI;IMP

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

GO:0048703 "embryonic viscerocranium morphogenesis" evidence=IMP

GO:0048704 "embryonic skeletal system morphogenesis" evidence=IGI

---

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)
P31264	HMPB_DROME	No assigned EC number	0.7391	0.4156	0.0882	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	166
pfam00046	57	pfam00046, Homeobox, Homeobox domain	1e-11
smart00389	57	smart00389, HOX, Homeodomain	3e-10
cd00086	59	cd00086, homeodomain, Homeodomain; DNA binding dom	6e-09
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	2e-06
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	6e-06
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	2e-05
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	3e-05
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	4e-05
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	7e-04
pfam02459	548	pfam02459, Adeno_terminal, Adenoviral DNA terminal	0.001
pfam00183	529	pfam00183, HSP90, Hsp90 protein	0.002
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	0.003
pfam02459	548	pfam02459, Adeno_terminal, Adenoviral DNA terminal	0.003
pfam14181	155	pfam14181, YqfQ, YqfQ-like protein	0.003
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	0.004
pfam02459	548	pfam02459, Adeno_terminal, Adenoviral DNA terminal	0.004
pfam02459	548	pfam02459, Adeno_terminal, Adenoviral DNA terminal	0.004
pfam02724	583	pfam02724, CDC45, CDC45-like protein	0.004

>gnl|CDD|200956 pfam00046, Homeobox, Homeobox domain

 Score = 56.7 bits (138), Expect = 1e-11
 Identities = 24/43 (55%), Positives = 27/43 (62%)

Query: 79  RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           RR RT +T  QL ELEKEF  N+Y     R E+A  L LTERQ
Sbjct: 1   RRKRTTFTPEQLEELEKEFEKNRYPSAEEREELAKKLGLTERQ 43

Length = 57

>gnl|CDD|197696 smart00389, HOX, Homeodomain

 Score = 52.6 bits (127), Expect = 3e-10
 Identities = 24/44 (54%), Positives = 28/44 (63%)

Query: 78  PRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
            RR RT++T  QL ELEKEF  N Y  R  R E+A  L L+ERQ
Sbjct: 1   KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQ 44

DNA-binding factors that are involved in the transcriptional regulation of key developmental processes. Length = 57

>gnl|CDD|238039 cd00086, homeodomain, Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner

 Score = 49.5 bits (119), Expect = 6e-09
 Identities = 25/43 (58%), Positives = 27/43 (62%)

Query: 79  RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           RR RT +T  QL ELEKEF  N Y  R  R E+A  L LTERQ
Sbjct: 1   RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQ 43

Length = 59

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 46.5 bits (110), Expect = 2e-06
 Identities = 24/29 (82%), Positives = 25/29 (86%)

Query: 29  EEEEEEEEEEEEEKEEEEEEEEENTRTEE 57
           EEEEEEEEEEEEE+EEEEEEEEE    EE
Sbjct: 864 EEEEEEEEEEEEEEEEEEEEEEEEEENEE 892

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 45.0 bits (106), Expect = 6e-06
 Identities = 23/31 (74%), Positives = 26/31 (83%)

Query: 29  EEEEEEEEEEEEEKEEEEEEEEENTRTEEMN 59
           EEEEEEEEEEEEE+EEEEEEEEE    E ++
Sbjct: 865 EEEEEEEEEEEEEEEEEEEEEEEEENEEPLS 895

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 43.4 bits (102), Expect = 2e-05
 Identities = 23/35 (65%), Positives = 27/35 (77%)

Query: 29  EEEEEEEEEEEEEKEEEEEEEEENTRTEEMNERKE 63
           EEEEEEEEEEEEE+EEEEEEE E   + E  E ++
Sbjct: 869 EEEEEEEEEEEEEEEEEEEEENEEPLSLEWPETRQ 903

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 43.1 bits (101), Expect = 3e-05
 Identities = 21/29 (72%), Positives = 23/29 (79%)

Query: 29  EEEEEEEEEEEEEKEEEEEEEEENTRTEE 57
           + EEEEEEEEEEE+EEEEEEEEE    E 
Sbjct: 862 DSEEEEEEEEEEEEEEEEEEEEEEEEEEN 890

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 42.3 bits (99), Expect = 4e-05
 Identities = 22/31 (70%), Positives = 24/31 (77%)

Query: 30  EEEEEEEEEEEEKEEEEEEEEENTRTEEMNE 60
           + EEEEEEEEEE+EEEEEEEEE    EE  E
Sbjct: 862 DSEEEEEEEEEEEEEEEEEEEEEEEEEENEE 892

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 38.8 bits (90), Expect = 7e-04
 Identities = 20/31 (64%), Positives = 23/31 (74%)

Query: 33  EEEEEEEEEKEEEEEEEEENTRTEEMNERKE 63
           + EEEEEEE+EEEEEEEEE    EE  E +E
Sbjct: 862 DSEEEEEEEEEEEEEEEEEEEEEEEEEENEE 892

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|217049 pfam02459, Adeno_terminal, Adenoviral DNA terminal protein

 Score = 37.7 bits (88), Expect = 0.001
 Identities = 22/29 (75%), Positives = 23/29 (79%)

Query: 29  EEEEEEEEEEEEEKEEEEEEEEENTRTEE 57
            EEEEEEEEE  E+EEEEEEEEE T  EE
Sbjct: 305 PEEEEEEEEEVPEEEEEEEEEEERTFEEE 333

This protein is covalently attached to the terminii of replicating DNA in vivo. Length = 548

>gnl|CDD|215774 pfam00183, HSP90, Hsp90 protein

 Score = 37.4 bits (87), Expect = 0.002
 Identities = 24/54 (44%), Positives = 39/54 (72%)

Query: 20 IQLFCNKTIEEEEEEEEEEEEEKEEEEEEEEENTRTEEMNERKENINKKKEEEK 73
          I L+  K +E+E  +EEEEEE++E++EEEE+   + EE++E +E   KKK+ +K
Sbjct: 23 IYLWVEKEVEKEVPDEEEEEEKEEKKEEEEKTTDKEEEVDEEEEKEEKKKKTKK 76

Length = 529

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 36.9 bits (85), Expect = 0.003
 Identities = 34/126 (26%), Positives = 55/126 (43%), Gaps = 3/126 (2%)

Query: 30  EEEEEEEEEEEEKEEEEEEEEENTRTEEMNERKENINKKKEEEKKNGLPRRLRTAYTNTQ 89
           E E E +E+E+E E +  E+ E    E    + E+  + +  EK     +    A     
Sbjct: 769 ETEAEGKEDEDEGEIQAGEDGEMKGDEGAEGKVEHEGETEAGEKDEHEGQSETQADDTEV 828

Query: 90  LLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEGEDEEEEEEGEEEAK 149
             E  ++    +     ++ E           SD      +EEEE E+EEEEEE EEE +
Sbjct: 829 KDETGEQELNAENQGEAKQDEKGVD---GGGGSDGGDSEEEEEEEEEEEEEEEEEEEEEE 885

Query: 150 EQEQKQ 155
           E+E+ +
Sbjct: 886 EEEENE 891

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|217049 pfam02459, Adeno_terminal, Adenoviral DNA terminal protein

 Score = 36.9 bits (86), Expect = 0.003
 Identities = 21/29 (72%), Positives = 22/29 (75%)

Query: 29  EEEEEEEEEEEEEKEEEEEEEEENTRTEE 57
           E EEEEEEEEE  +EEEEEEEEE    EE
Sbjct: 304 EPEEEEEEEEEVPEEEEEEEEEEERTFEE 332

This protein is covalently attached to the terminii of replicating DNA in vivo. Length = 548

>gnl|CDD|222581 pfam14181, YqfQ, YqfQ-like protein

 Score = 35.9 bits (83), Expect = 0.003
 Identities = 16/58 (27%), Positives = 28/58 (48%)

Query: 18  IMIQLFCNKTIEEEEEEEEEEEEEKEEEEEEEEENTRTEEMNERKENINKKKEEEKKN 75
           I  +L  +   EEE EEE  +E E+E+  E + E+   ++    K    K+K + +  
Sbjct: 87  IFRELSSSDDEEEETEEESTDETEQEDPPETKTESKEKKKREVPKPKTEKEKPKTEPK 144

The YqfQ-like protein family includes the B. subtilis YqfQ protein, also known as VrrA, which is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 146 and 237 amino acids in length. There are two conserved sequence motifs: QYGP and PKLY. Length = 155

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 36.5 bits (84), Expect = 0.004
 Identities = 34/137 (24%), Positives = 56/137 (40%), Gaps = 10/137 (7%)

Query: 29  EEEEEEEEEEEEEKEEEEEEEEENTRTEEMNERKENINKKKEEEKKNGLPRRLRTAYTNT 88
            E E E + +E E E E E E +    E   +  E+   K +E  +  +     T     
Sbjct: 753 HEVETEGDRKETEHEGETEAEGKEDEDEGEIQAGEDGEMKGDEGAEGKVEHEGETEAGEK 812

Query: 89  QLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYV----------AKEEEEGEDE 138
              E + E   +    +    E   + +        +  V          ++EEEE E+E
Sbjct: 813 DEHEGQSETQADDTEVKDETGEQELNAENQGEAKQDEKGVDGGGGSDGGDSEEEEEEEEE 872

Query: 139 EEEEEGEEEAKEQEQKQ 155
           EEEEE EEE +E+E+++
Sbjct: 873 EEEEEEEEEEEEEEEEE 889

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|217049 pfam02459, Adeno_terminal, Adenoviral DNA terminal protein

 Score = 36.5 bits (85), Expect = 0.004
 Identities = 21/27 (77%), Positives = 21/27 (77%)

Query: 29  EEEEEEEEEEEEEKEEEEEEEEENTRT 55
            E EEEEEEEEE  EEEEEEEEE  RT
Sbjct: 303 PEPEEEEEEEEEVPEEEEEEEEEEERT 329

This protein is covalently attached to the terminii of replicating DNA in vivo. Length = 548

>gnl|CDD|217049 pfam02459, Adeno_terminal, Adenoviral DNA terminal protein

 Score = 36.2 bits (84), Expect = 0.004
 Identities = 17/32 (53%), Positives = 18/32 (56%)

Query: 29  EEEEEEEEEEEEEKEEEEEEEEENTRTEEMNE 60
              E EEEEEEEE+  EEEEEEE        E
Sbjct: 301 SPPEPEEEEEEEEEVPEEEEEEEEEEERTFEE 332

This protein is covalently attached to the terminii of replicating DNA in vivo. Length = 548

>gnl|CDD|217203 pfam02724, CDC45, CDC45-like protein

 Score = 36.5 bits (85), Expect = 0.004
 Identities = 12/58 (20%), Positives = 33/58 (56%)

Query: 29  EEEEEEEEEEEEEKEEEEEEEEENTRTEEMNERKENINKKKEEEKKNGLPRRLRTAYT 86
           ++EE +EE+EE  K E++E+++++   +++  R+ ++ +++   +       L   Y 
Sbjct: 129 DDEESDEEDEESSKSEDDEDDDDDDDDDDIATRERSLERRRRRREWEEKRAELEFYYY 186

CDC45 is an essential gene required for initiation of DNA replication in S. cerevisiae, forming a complex with MCM5/CDC46. Homologues of CDC45 have been identified in human, mouse and smut fungus among others. Length = 583

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	166
KOG0842|consensus	307		99.73
KOG0489|consensus	261		99.72
KOG0850|consensus	245		99.7
KOG0487|consensus	308		99.69
KOG0843|consensus	197		99.69
KOG0488|consensus	309		99.65
KOG0484|consensus	125		99.65
TIGR01565	58	homeo_ZF_HD homeobox domain, ZF-HD class. This mod	99.63
KOG0492|consensus	246		99.62
KOG0485|consensus	268		99.54
KOG0848|consensus	317		99.51
KOG2251|consensus	228		99.51
PF00046	57	Homeobox: Homeobox domain not present here.; Inter	99.48
KOG0493|consensus	342		99.45
KOG0494|consensus	332		99.45
KOG0491|consensus	194		99.38
smart00389	56	HOX Homeodomain. DNA-binding factors that are invo	99.36
COG5576	156	Homeodomain-containing transcription factor [Trans	99.34
cd00086	59	homeodomain Homeodomain; DNA binding domains invol	99.28
KOG0844|consensus	408		99.26
KOG0486|consensus	351		99.26
KOG4577|consensus	383		99.22
KOG0483|consensus	198		99.17
KOG0490|consensus	235		99.14
KOG3802|consensus	398		99.01
KOG0847|consensus	288		99.01
KOG0849|consensus	354		98.82
KOG1168|consensus	385		98.3
KOG2252|consensus	558		98.07
KOG0490|consensus	235		98.0
KOG0775|consensus	304		97.94
PF05920	40	Homeobox_KN: Homeobox KN domain; InterPro: IPR0084	97.73
KOG0774|consensus	334		97.31
KOG1146|consensus	1406		97.15
PF11569	56	Homez: Homeodomain leucine-zipper encoding, Homez;	94.97
KOG0773|consensus	342		94.02
KOG3623|consensus	1007		93.89
PF04218	53	CENP-B_N: CENP-B N-terminal DNA-binding domain; In	87.62

>KOG0842|consensus

Probab=99.73  E-value=1.7e-18  Score=147.66  Aligned_cols=68  Identities=25%  Similarity=0.426  Sum_probs=60.2

Q ss_pred             cCCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccCCchhhh
Q psy16796         74 KNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEGEDEEEE  141 (166)
Q Consensus        74 ~~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~~~~~~~  141 (166)
                      ..+++||.|..||..|+.+||+.|..++|+++++|++||..|+||++||||||||+|-|=+..+.+..
T Consensus       149 ~~~~kRKrRVLFSqAQV~ELERRFrqQRYLSAPERE~LA~~LrLT~TQVKIWFQNrRYK~KR~~~dk~  216 (307)
T KOG0842|consen  149 GKRKKRKRRVLFSQAQVYELERRFRQQRYLSAPEREHLASSLRLTPTQVKIWFQNRRYKTKRQQKDKA  216 (307)
T ss_pred             ccccccccccccchhHHHHHHHHHHhhhccccHhHHHHHHhcCCCchheeeeeecchhhhhhhhhhhh
Confidence            34567888999999999999999999999999999999999999999999999998877666554443

>KOG0489|consensus

Probab=99.72  E-value=7.3e-19  Score=147.45  Aligned_cols=66  Identities=53%  Similarity=0.739  Sum_probs=58.9

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccCCchhh
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEGEDEEE  140 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~~~~~~  140 (166)
                      ....||.||.||..||.+||+.|+.|+|+++..|.+||..|+|+++||||||||+|+|.+..+.+.
T Consensus       156 ~~~~kR~RtayT~~QllELEkEFhfN~YLtR~RRiEiA~~L~LtErQIKIWFQNRRMK~Kk~~k~~  221 (261)
T KOG0489|consen  156 GGKSKRRRTAFTRYQLLELEKEFHFNKYLTRSRRIEIAHALNLTERQIKIWFQNRRMKWKKENKAK  221 (261)
T ss_pred             cCCCCCCCcccchhhhhhhhhhhccccccchHHHHHHHhhcchhHHHHHHHHHHHHHHHHHhhccc
Confidence            356789999999999999999999999999999999999999999999999999777766544443

>KOG0850|consensus

Probab=99.70  E-value=5.1e-18  Score=138.99  Aligned_cols=62  Identities=34%  Similarity=0.478  Sum_probs=57.4

Q ss_pred             hhhcCCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccc
Q psy16796         71 EEKKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEE  132 (166)
Q Consensus        71 ~~~~~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~k  132 (166)
                      .+++++|.|++||+|+..||..|.+.|+.+.|+-.++|.+||..||||.+||||||||+|.|
T Consensus       115 ~Ngk~KK~RKPRTIYSS~QLqaL~rRFQkTQYLALPERAeLAAsLGLTQTQVKIWFQNrRSK  176 (245)
T KOG0850|consen  115 PNGKGKKVRKPRTIYSSLQLQALNRRFQQTQYLALPERAELAASLGLTQTQVKIWFQNRRSK  176 (245)
T ss_pred             cCCCcccccCCcccccHHHHHHHHHHHhhcchhcCcHHHHHHHHhCCchhHhhhhhhhhHHH
Confidence            45667888999999999999999999999999999999999999999999999999996543

>KOG0487|consensus

Probab=99.69  E-value=7.6e-18  Score=143.79  Aligned_cols=61  Identities=39%  Similarity=0.597  Sum_probs=57.2

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccC
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEG  135 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~  135 (166)
                      .+..|++|+.||..|+.+||+.|-.|.|++...|.+|++.|+||++||||||||+|+|++.
T Consensus       232 ~~~~RKKRcPYTK~QtlELEkEFlfN~YitkeKR~ElSr~lNLTeRQVKIWFQNRRMK~KK  292 (308)
T KOG0487|consen  232 ARRGRKKRCPYTKHQTLELEKEFLFNMYITKEKRLELSRTLNLTERQVKIWFQNRRMKEKK  292 (308)
T ss_pred             ccccccccCCchHHHHHHHHHHHHHHHHHhHHHHHHHHHhcccchhheeeeehhhhhHHhh
Confidence            3567888999999999999999999999999999999999999999999999999988764

>KOG0843|consensus

Probab=99.69  E-value=8.5e-18  Score=133.40  Aligned_cols=65  Identities=34%  Similarity=0.517  Sum_probs=61.2

Q ss_pred             CCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccCCchhh
Q psy16796         76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEGEDEEE  140 (166)
Q Consensus        76 ~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~~~~~~  140 (166)
                      .+++|.||.||..||..||.+|..++|....+|..||..|+|++.||||||||+|.|.+...++.
T Consensus       100 ~~~kr~RT~ft~~Ql~~LE~~F~~~~Yvvg~eR~~LA~~L~LsetQVkvWFQNRRtk~kr~~~e~  164 (197)
T KOG0843|consen  100 MRPKRIRTAFTPEQLLKLEHAFEGNQYVVGAERKQLAQSLSLSETQVKVWFQNRRTKHKRMQQED  164 (197)
T ss_pred             cCCCccccccCHHHHHHHHHHHhcCCeeechHHHHHHHHcCCChhHhhhhhhhhhHHHHHHHHHh
Confidence            37889999999999999999999999999999999999999999999999999999988777764

>KOG0488|consensus

Probab=99.65  E-value=4.6e-17  Score=139.67  Aligned_cols=65  Identities=38%  Similarity=0.507  Sum_probs=58.3

Q ss_pred             hcCCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccc--ccccccCCc
Q psy16796         73 KKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYV--AKEEEEGED  137 (166)
Q Consensus        73 ~~~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN--~k~ke~~~~  137 (166)
                      ..++|+|+.||.||..||..||+.|++..|++...|..||..||||..|||+||||  +|||+.-.+
T Consensus       167 ~~pkK~RksRTaFT~~Ql~~LEkrF~~QKYLS~~DR~~LA~~LgLTdaQVKtWfQNRRtKWKrq~a~  233 (309)
T KOG0488|consen  167 STPKKRRKSRTAFSDHQLFELEKRFEKQKYLSVADRIELAASLGLTDAQVKTWFQNRRTKWKRQTAE  233 (309)
T ss_pred             CCCcccccchhhhhHHHHHHHHHHHHHhhcccHHHHHHHHHHcCCchhhHHHHHhhhhHHHHHHHHh
Confidence            34478889999999999999999999999999999999999999999999999999  566665433

>KOG0484|consensus

Probab=99.65  E-value=2.5e-17  Score=120.67  Aligned_cols=59  Identities=34%  Similarity=0.423  Sum_probs=55.2

Q ss_pred             cCCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccc
Q psy16796         74 KNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEE  132 (166)
Q Consensus        74 ~~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~k  132 (166)
                      ..++.||-||.||..||.+||+.|...|||+++.|++||..+.|++.+|||||||+|.|
T Consensus        13 ekrKQRRIRTTFTS~QLkELErvF~ETHYPDIYTREEiA~kidLTEARVQVWFQNRRAK   71 (125)
T KOG0484|consen   13 EKRKQRRIRTTFTSAQLKELERVFAETHYPDIYTREEIALKIDLTEARVQVWFQNRRAK   71 (125)
T ss_pred             HHHHhhhhhhhhhHHHHHHHHHHHHhhcCCcchhHHHHHHhhhhhHHHHHHHHHhhHHH
Confidence            34678899999999999999999999999999999999999999999999999997744

>TIGR01565 homeo_ZF_HD homeobox domain, ZF-HD class

Probab=99.63  E-value=3.4e-16  Score=103.89  Aligned_cols=52  Identities=17%  Similarity=0.100  Sum_probs=50.7

Q ss_pred             CCcccCCCHHHHHHHHHHhhhcCC----CCHHHHHHHHHHcCCCCCCccccccccc
Q psy16796         79 RRLRTAYTNTQLLELEKEFHFNKY----LCRPRRIEIAASLDLTERQSDCKYYVAK  130 (166)
Q Consensus        79 rr~Rt~fT~~Ql~~Le~~F~~~~y----p~~~~R~~LA~~LgLse~qVkVWFQN~k  130 (166)
                      +|.||.||..|+..|+..|+.++|    |+...|.+||..|||++++|+|||||.|
T Consensus         2 kR~RT~Ft~~Q~~~Le~~fe~~~y~~~~~~~~~r~~la~~lgl~~~vvKVWfqN~k   57 (58)
T TIGR01565         2 KRRRTKFTAEQKEKMRDFAEKLGWKLKDKRREEVREFCEEIGVTRKVFKVWMHNNK   57 (58)
T ss_pred             CCCCCCCCHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHhCCCHHHeeeecccCC
Confidence            788999999999999999999999    9999999999999999999999999976

This model represents a class of homoebox domain that differs substantially from the typical homoebox domain described in pfam model pfam00046. It is found in both C4 and C3 plants.

>KOG0492|consensus

Probab=99.62  E-value=1.8e-16  Score=128.48  Aligned_cols=64  Identities=33%  Similarity=0.474  Sum_probs=58.1

Q ss_pred             hcCCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccCC
Q psy16796         73 KKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEGE  136 (166)
Q Consensus        73 ~~~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~~  136 (166)
                      .+.+..|++||.||..||..||+.|...+|+++.+|.+++..|.||++||||||||+|.|.+.-
T Consensus       139 rKhk~nRkPRtPFTtqQLlaLErkfrekqYLSiaEraefSsSL~LTeTqVKIWFQNRRAKaKRl  202 (246)
T KOG0492|consen  139 RKHKPNRKPRTPFTTQQLLALERKFREKQYLSIAERAEFSSSLELTETQVKIWFQNRRAKAKRL  202 (246)
T ss_pred             cccCCCCCCCCCCCHHHHHHHHHHHhHhhhhhHHHHHhhhhhhhhhhhheehhhhhhhHHHHHH
Confidence            3456678899999999999999999999999999999999999999999999999999665543

>KOG0485|consensus

Probab=99.54  E-value=2e-15  Score=123.26  Aligned_cols=58  Identities=31%  Similarity=0.484  Sum_probs=53.8

Q ss_pred             CCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccc--ccccc
Q psy16796         76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYV--AKEEE  133 (166)
Q Consensus        76 ~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN--~k~ke  133 (166)
                      .++++.||+|+..|+..||..|+..+|++..+|..||.+|.|+++||||||||  +|||.
T Consensus       102 ~RKKktRTvFSraQV~qLEs~Fe~krYLSsaeRa~LA~sLqLTETQVKIWFQNRRnKwKR  161 (268)
T KOG0485|consen  102 DRKKKTRTVFSRAQVFQLESTFELKRYLSSAERAGLAASLQLTETQVKIWFQNRRNKWKR  161 (268)
T ss_pred             cccccchhhhhHHHHHHHHHHHHHHhhhhHHHHhHHHHhhhhhhhhhhhhhhhhhHHHHH
Confidence            46788999999999999999999999999999999999999999999999999  45554

>KOG0848|consensus

Probab=99.51  E-value=3e-15  Score=125.20  Aligned_cols=59  Identities=39%  Similarity=0.580  Sum_probs=53.7

Q ss_pred             CCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        76 ~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      +.+-+-|.+||.+|+.+||+.|..++|+++..+.+||..|||++|||||||||+|.||-
T Consensus       197 RTkDKYRvVYTDhQRLELEKEfh~SryITirRKSELA~~LgLsERQVKIWFQNRRAKER  255 (317)
T KOG0848|consen  197 RTKDKYRVVYTDHQRLELEKEFHTSRYITIRRKSELAATLGLSERQVKIWFQNRRAKER  255 (317)
T ss_pred             ecccceeEEecchhhhhhhhhhccccceeeehhHHHHHhhCccHhhhhHhhhhhhHHHH
Confidence            34445689999999999999999999999999999999999999999999999887653

>KOG2251|consensus

Probab=99.51  E-value=1.1e-14  Score=118.85  Aligned_cols=60  Identities=28%  Similarity=0.272  Sum_probs=56.5

Q ss_pred             hcCCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccc
Q psy16796         73 KKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEE  132 (166)
Q Consensus        73 ~~~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~k  132 (166)
                      ..+++.||.||.||..|+.+||..|...+||+...|++||.+|+|.+.+|+|||.|+|.|
T Consensus        32 ~~pRkqRRERTtFtr~QlevLe~LF~kTqYPDv~~rEelAlklnLpeSrVqVWFKNRRAK   91 (228)
T KOG2251|consen   32 SGPRKQRRERTTFTRKQLEVLEALFAKTQYPDVFMREELALKLNLPESRVQVWFKNRRAK   91 (228)
T ss_pred             ccchhcccccceecHHHHHHHHHHHHhhcCccHHHHHHHHHHhCCchhhhhhhhccccch
Confidence            456788999999999999999999999999999999999999999999999999998743

>PF00046 Homeobox: Homeobox domain not present here

Probab=99.48  E-value=8.8e-15  Score=95.19  Aligned_cols=54  Identities=37%  Similarity=0.470  Sum_probs=51.3

Q ss_pred             CCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccc
Q psy16796         79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEE  132 (166)
Q Consensus        79 rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~k  132 (166)
                      |+.|+.||..|+..|+..|..++||+...+..||..|||+..+|++||+|+|.+
T Consensus         1 kr~r~~~t~~q~~~L~~~f~~~~~p~~~~~~~la~~l~l~~~~V~~WF~nrR~k   54 (57)
T PF00046_consen    1 KRKRTRFTKEQLKVLEEYFQENPYPSKEEREELAKELGLTERQVKNWFQNRRRK   54 (57)
T ss_dssp             SSSSSSSSHHHHHHHHHHHHHSSSCHHHHHHHHHHHHTSSHHHHHHHHHHHHHH
T ss_pred             CcCCCCCCHHHHHHHHHHHHHhccccccccccccccccccccccccCHHHhHHH
Confidence            578999999999999999999999999999999999999999999999997754

; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....

>KOG0493|consensus

Probab=99.45  E-value=3.2e-14  Score=118.94  Aligned_cols=55  Identities=38%  Similarity=0.530  Sum_probs=52.0

Q ss_pred             CCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccc
Q psy16796         78 PRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEE  132 (166)
Q Consensus        78 ~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~k  132 (166)
                      -+|+||.||..||..|...|..|+|++...|..||..|+|.+.||||||||.|.|
T Consensus       246 eKRPRTAFtaeQL~RLK~EF~enRYlTEqRRQ~La~ELgLNEsQIKIWFQNKRAK  300 (342)
T KOG0493|consen  246 EKRPRTAFTAEQLQRLKAEFQENRYLTEQRRQELAQELGLNESQIKIWFQNKRAK  300 (342)
T ss_pred             hcCccccccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhCcCHHHhhHHhhhhhhh
Confidence            3689999999999999999999999999999999999999999999999997654

>KOG0494|consensus

Probab=99.45  E-value=4e-14  Score=118.22  Aligned_cols=58  Identities=29%  Similarity=0.278  Sum_probs=52.1

Q ss_pred             CCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccc--ccccc
Q psy16796         77 LPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVA--KEEEE  134 (166)
Q Consensus        77 k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~--k~ke~  134 (166)
                      ++|+.||.||..|+..||..|...+||+.+.|+-||..+.|++.+|+|||||+  ||++.
T Consensus       140 kRRh~RTiFT~~Qle~LEkaFkeaHYPDv~Are~la~ktelpEDRIqVWfQNRRAKWRk~  199 (332)
T KOG0494|consen  140 KRRHFRTIFTSYQLEELEKAFKEAHYPDVYAREMLADKTELPEDRIQVWFQNRRAKWRKT  199 (332)
T ss_pred             ccccccchhhHHHHHHHHHHHhhccCccHHHHHHHhhhccCchhhhhHHhhhhhHHhhhh
Confidence            44455999999999999999999999999999999999999999999999994  45543

>KOG0491|consensus

Probab=99.38  E-value=2.7e-14  Score=112.28  Aligned_cols=59  Identities=32%  Similarity=0.501  Sum_probs=55.5

Q ss_pred             CCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccC
Q psy16796         77 LPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEG  135 (166)
Q Consensus        77 k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~  135 (166)
                      ++++.||+|+..|+..|+..|+..+|++.++|.+||..|+|++.|||.||||+|+|++.
T Consensus        99 ~r~K~Rtvfs~~ql~~l~~rFe~QrYLS~~e~~ELan~L~LS~~QVKTWFQNrRMK~Kk  157 (194)
T KOG0491|consen   99 RRRKARTVFSDPQLSGLEKRFERQRYLSTPERQELANALSLSETQVKTWFQNRRMKHKK  157 (194)
T ss_pred             HhhhhcccccCccccccHHHHhhhhhcccHHHHHHHHHhhhhHHHHHHHHHHHHHHHHH
Confidence            45678999999999999999999999999999999999999999999999999988764

>smart00389 HOX Homeodomain

Probab=99.36  E-value=3.8e-13  Score=86.65  Aligned_cols=54  Identities=44%  Similarity=0.543  Sum_probs=50.5

Q ss_pred             CcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         80 RLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        80 r~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      +.|+.|+..|+..|+..|..++||+...+..||..+||+..+|++||+|+|.+.
T Consensus         2 k~r~~~~~~~~~~L~~~f~~~~~P~~~~~~~la~~~~l~~~qV~~WF~nrR~~~   55 (56)
T smart00389        2 RKRTSFTPEQLEELEKEFQKNPYPSREEREELAAKLGLSERQVKVWFQNRRAKW   55 (56)
T ss_pred             CCCCcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHCcCHHHHHHhHHHHhhcc
Confidence            567889999999999999999999999999999999999999999999987543

DNA-binding factors that are involved in the transcriptional regulation of key developmental processes

>COG5576 Homeodomain-containing transcription factor [Transcription]

Probab=99.34  E-value=6.6e-13  Score=104.05  Aligned_cols=64  Identities=23%  Similarity=0.389  Sum_probs=56.8

Q ss_pred             CCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccCCchh
Q psy16796         76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEGEDEE  139 (166)
Q Consensus        76 ~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~~~~~  139 (166)
                      +..++.|++.|..|+..|++.|..++||+...|..|+..|+|+++-|||||||+|.++++.-+.
T Consensus        49 ~~~~~~r~R~t~~Q~~vL~~~F~i~p~Ps~~~r~~L~~~lnm~~ksVqIWFQNkR~~~k~~~~~  112 (156)
T COG5576          49 SPPKSKRRRTTDEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQIWFQNKRAKEKKKRSG  112 (156)
T ss_pred             CcCcccceechHHHHHHHHHHhccCCCCCHHHHHHHHHhcCCChhhhhhhhchHHHHHHHhccc
Confidence            4567778889999999999999999999999999999999999999999999977666555444

>cd00086 homeodomain Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner

Probab=99.28  E-value=1.6e-12  Score=84.22  Aligned_cols=54  Identities=44%  Similarity=0.519  Sum_probs=50.4

Q ss_pred             CcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         80 RLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        80 r~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      +.|+.|+..++..|+..|..++||+...+..||..+||+..+|++||+|+|.+.
T Consensus         2 ~~r~~~~~~~~~~Le~~f~~~~~P~~~~~~~la~~~~l~~~qV~~WF~nrR~~~   55 (59)
T cd00086           2 RKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKL   55 (59)
T ss_pred             CCCCcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence            467899999999999999999999999999999999999999999999977554

>KOG0844|consensus

Probab=99.26  E-value=1.3e-12  Score=111.32  Aligned_cols=60  Identities=38%  Similarity=0.577  Sum_probs=56.2

Q ss_pred             CCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccCC
Q psy16796         77 LPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEGE  136 (166)
Q Consensus        77 k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~~  136 (166)
                      .-||-||.||..|+..||+.|-+-.|.+++.|-+||..|+|++..|||||||+|+|.+..
T Consensus       180 qmRRYRTAFTReQIaRLEKEFyrENYVSRprRcELAAaLNLPEtTIKVWFQNRRMKDKRQ  239 (408)
T KOG0844|consen  180 QMRRYRTAFTREQIARLEKEFYRENYVSRPRRCELAAALNLPETTIKVWFQNRRMKDKRQ  239 (408)
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHhccccCchhhhHHHhhCCCcceeehhhhhchhhhhhh
Confidence            357889999999999999999999999999999999999999999999999999987653

>KOG0486|consensus

Probab=99.26  E-value=2.2e-12  Score=110.05  Aligned_cols=80  Identities=30%  Similarity=0.278  Sum_probs=64.2

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccCCchhhhhhchHHHHHHhhh
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEGEDEEEEEEGEEEAKEQEQK  154 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~~~~~~~~~~~~~a~~~~~~  154 (166)
                      -.|+||-||+||.+||.+||..|.+|+||+...|++||..++|++.+|+|||.|+|.|--..|--++   ++.||-+=+-
T Consensus       109 i~KqrrQrthFtSqqlqele~tF~rNrypdMstrEEIavwtNlTE~rvrvwfknrrakwrkrErN~~---ae~~k~~f~~  185 (351)
T KOG0486|consen  109 ISKQRRQRTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKRERNQQ---AELAKGGFGP  185 (351)
T ss_pred             hhhhhhhhhhhHHHHHHHHHHHHhhccCCccchhhHHHhhccccchhhhhhcccchhhhhhhhhhHH---HHhhhcCCcc
Confidence            3478999999999999999999999999999999999999999999999999996655444433333   2355555444


Q ss_pred             hhc
Q psy16796        155 QVG  157 (166)
Q Consensus       155 ~~~  157 (166)
                      +++
T Consensus       186 ~~~  188 (351)
T KOG0486|consen  186 QFL  188 (351)
T ss_pred             ccc
Confidence            443

>KOG4577|consensus

Probab=99.22  E-value=5.9e-12  Score=106.70  Aligned_cols=58  Identities=21%  Similarity=0.253  Sum_probs=55.0

Q ss_pred             CCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccC
Q psy16796         78 PRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEG  135 (166)
Q Consensus        78 ~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~  135 (166)
                      .+|+||.+|..||..|..+|...+.|.+..|+.|+..+||.-+.|||||||+|.||+.
T Consensus       167 nKRPRTTItAKqLETLK~AYn~SpKPARHVREQLsseTGLDMRVVQVWFQNRRAKEKR  224 (383)
T KOG4577|consen  167 NKRPRTTITAKQLETLKQAYNTSPKPARHVREQLSSETGLDMRVVQVWFQNRRAKEKR  224 (383)
T ss_pred             cCCCcceeeHHHHHHHHHHhcCCCchhHHHHHHhhhccCcceeehhhhhhhhhHHHHh
Confidence            4889999999999999999999999999999999999999999999999998887764

>KOG0483|consensus

Probab=99.17  E-value=2.3e-11  Score=98.66  Aligned_cols=64  Identities=25%  Similarity=0.236  Sum_probs=56.1

Q ss_pred             CcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccc--ccccccCCchhhhhh
Q psy16796         80 RLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYV--AKEEEEGEDEEEEEE  143 (166)
Q Consensus        80 r~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN--~k~ke~~~~~~~~~~  143 (166)
                      +...+||..|+..||..|+...|+.+..+..||..|||.++||.|||||  +|||-+.-|-+..-+
T Consensus        52 ~kk~Rlt~eQ~~~LE~~F~~~~~L~p~~K~~LAk~LgL~pRQVavWFQNRRARwK~kqlE~d~~~L  117 (198)
T KOG0483|consen   52 GKKRRLTSEQVKFLEKSFESEKKLEPERKKKLAKELGLQPRQVAVWFQNRRARWKTKQLEKDYESL  117 (198)
T ss_pred             cccccccHHHHHHhHHhhccccccChHHHHHHHHhhCCChhHHHHHHhhccccccchhhhhhHHHH
Confidence            3445699999999999999999999999999999999999999999999  667777666666555

>KOG0490|consensus

Probab=99.14  E-value=2e-11  Score=98.51  Aligned_cols=60  Identities=23%  Similarity=0.190  Sum_probs=54.9

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      ..+.|+.||.|+..|+.+|++.|...|||+...|..||..+++++..|+|||||++.+.-
T Consensus        57 ~~~~rr~rt~~~~~ql~~ler~f~~~h~Pd~~~r~~la~~~~~~e~rVqvwFqnrrak~r  116 (235)
T KOG0490|consen   57 KFSKRCARCKFTISQLDELERAFEKVHLPCFACRECLALLLTGDEFRVQVWFQNRRAKDR  116 (235)
T ss_pred             hccccccCCCCCcCHHHHHHHhhcCCCcCccchHHHHhhcCCCCeeeeehhhhhhcHhhh
Confidence            456789999999999999999999999999999999999999999999999999665443

>KOG3802|consensus

Probab=99.01  E-value=3.2e-10  Score=99.49  Aligned_cols=62  Identities=23%  Similarity=0.161  Sum_probs=57.6

Q ss_pred             CCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccCCch
Q psy16796         77 LPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEGEDE  138 (166)
Q Consensus        77 k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~~~~  138 (166)
                      ++|++||.+.......||.+|..|..|+..+...||..|+|....|+|||+|+|-|++.-..
T Consensus       293 RkRKKRTSie~~vr~aLE~~F~~npKPt~qEIt~iA~~L~leKEVVRVWFCNRRQkeKR~~~  354 (398)
T KOG3802|consen  293 RKRKKRTSIEVNVRGALEKHFLKNPKPTSQEITHIAESLQLEKEVVRVWFCNRRQKEKRITP  354 (398)
T ss_pred             cccccccceeHHHHHHHHHHHHhCCCCCHHHHHHHHHHhccccceEEEEeeccccccccCCC
Confidence            67888999999999999999999999999999999999999999999999998888776443

>KOG0847|consensus

Probab=99.01  E-value=9.1e-11  Score=96.31  Aligned_cols=56  Identities=30%  Similarity=0.532  Sum_probs=52.0

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccc
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAK  130 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k  130 (166)
                      .++++..|..|+..|+..|+..|+...|+-..+|.+||..+|+++.||+|||||+|
T Consensus       164 dG~rk~srPTf~g~qi~~le~~feqtkylaG~~ra~lA~~lgmteSqvkVWFQNRR  219 (288)
T KOG0847|consen  164 NGQRKQSRPTFTGHQIYQLERKFEQTKYLAGADRAQLAQELNMTESQVKVWFQNRR  219 (288)
T ss_pred             CccccccCCCccchhhhhhhhhhhhhhcccchhHHHhhccccccHHHHHHHHhcch
Confidence            45667778899999999999999999999999999999999999999999999954

>KOG0849|consensus

Probab=98.82  E-value=1.8e-09  Score=94.41  Aligned_cols=57  Identities=25%  Similarity=0.229  Sum_probs=53.0

Q ss_pred             cCCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccc
Q psy16796         74 KNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAK  130 (166)
Q Consensus        74 ~~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k  130 (166)
                      ..++.+|.||.|+..|+..|+..|..++||+...|+.||..++|++.+|+|||+|++
T Consensus       172 ~~~~~rr~rtsft~~Q~~~le~~f~rt~yP~i~~Re~La~~i~l~e~riqvwf~nrr  228 (354)
T KOG0849|consen  172 LQRGGRRNRTSFSPSQLEALEECFQRTPYPDIVGRETLAKETGLPEPRVQVWFQNRR  228 (354)
T ss_pred             ccccccccccccccchHHHHHHHhcCCCCCchhhHHHHhhhccCCchHHHHHHhhhh
Confidence            345667889999999999999999999999999999999999999999999999955

>KOG1168|consensus

Probab=98.30  E-value=2.4e-07  Score=79.00  Aligned_cols=57  Identities=21%  Similarity=0.243  Sum_probs=52.1

Q ss_pred             CCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccc
Q psy16796         76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEE  132 (166)
Q Consensus        76 ~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~k  132 (166)
                      .-++|+||.+..-.-+.||++|..++-|+......+|.+|.|-.-.|+|||+|||.|
T Consensus       307 ~ekKRKRTSIAAPEKRsLEayFavQPRPS~EkIAaIAekLDLKKNVVRVWFCNQRQK  363 (385)
T KOG1168|consen  307 GEKKRKRTSIAAPEKRSLEAYFAVQPRPSGEKIAAIAEKLDLKKNVVRVWFCNQRQK  363 (385)
T ss_pred             cccccccccccCcccccHHHHhccCCCCchhHHHHHHHhhhhhhceEEEEeeccHHH
Confidence            346788999999999999999999999999999999999999999999999998844

>KOG2252|consensus

Probab=98.07  E-value=2.6e-06  Score=77.68  Aligned_cols=65  Identities=18%  Similarity=0.178  Sum_probs=55.7

Q ss_pred             CCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccc--ccccccCCchhh
Q psy16796         76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYV--AKEEEEGEDEEE  140 (166)
Q Consensus        76 ~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN--~k~ke~~~~~~~  140 (166)
                      -..+++|++||..|...|..+|..+.+|+......|+.+|+|....|..||-|  +|...++-+++.
T Consensus       418 ~~~KKPRlVfTd~QkrTL~aiFke~~RPS~Emq~tIS~qL~L~~sTV~NfFmNaRRRsl~~~~~dd~  484 (558)
T KOG2252|consen  418 LQTKKPRLVFTDIQKRTLQAIFKENKRPSREMQETISQQLNLELSTVINFFMNARRRSLDKKVDDDS  484 (558)
T ss_pred             ccCCCceeeecHHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCcHHHHHHHHHhhhhhccccccccCc
Confidence            34677899999999999999999999999999999999999999999999999  443444444443

>KOG0490|consensus

Probab=98.00  E-value=3.4e-06  Score=67.92  Aligned_cols=61  Identities=28%  Similarity=0.296  Sum_probs=55.8

Q ss_pred             cCCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         74 KNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        74 ~~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      ...+.++.|+.|+..|+..|...|..+++|+...+..|+..+|++.+.|+|||||.+.+..
T Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~~~~~~l~~~~~~~~~~~q~~~~~~~~~~~  209 (235)
T KOG0490|consen  149 SNKKPRRPRTTFTENQLEVLETVFRATPKPDADDREQLAEETGLSERVIQVWFQNRRAKLR  209 (235)
T ss_pred             CccccCCCccccccchhHhhhhcccCCCCCchhhHHHHHHhcCCChhhhhhhcccHHHHHH
Confidence            4467788999999999999999999999999999999999999999999999999776553

>KOG0775|consensus

Probab=97.94  E-value=7.3e-06  Score=69.38  Aligned_cols=53  Identities=19%  Similarity=0.148  Sum_probs=44.9

Q ss_pred             CcccCCCHH---------HHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccc
Q psy16796         80 RLRTAYTNT---------QLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEE  132 (166)
Q Consensus        80 r~Rt~fT~~---------Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~k  132 (166)
                      -+||.....         -+..|..-|..++||++.++.+||..+||+..||-.||.|+|.+
T Consensus       169 lPrTIWDGEet~yCFKekSR~~LrewY~~~~YPsp~eKReLA~aTgLt~tQVsNWFKNRRQR  230 (304)
T KOG0775|consen  169 LPRTIWDGEETVYCFKEKSRSLLREWYLQNPYPSPREKRELAEATGLTITQVSNWFKNRRQR  230 (304)
T ss_pred             CCCccccCceeeeehhHhhHHHHHHHHhcCCCCChHHHHHHHHHhCCchhhhhhhhhhhhhh
Confidence            357765544         45688888999999999999999999999999999999996644

>PF05920 Homeobox_KN: Homeobox KN domain; InterPro: IPR008422 This entry represents a homeobox transcription factor KN domain conserved from fungi to human and plants []

Probab=97.73  E-value=3.6e-06  Score=51.78  Aligned_cols=32  Identities=22%  Similarity=0.321  Sum_probs=27.0

Q ss_pred             hcCCCCHHHHHHHHHHcCCCCCCccccccccc
Q psy16796         99 FNKYLCRPRRIEIAASLDLTERQSDCKYYVAK  130 (166)
Q Consensus        99 ~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k  130 (166)
                      .++||+..++..||..+||+..||..||-|+|
T Consensus         7 ~nPYPs~~ek~~L~~~tgls~~Qi~~WF~NaR   38 (40)
T PF05920_consen    7 HNPYPSKEEKEELAKQTGLSRKQISNWFINAR   38 (40)
T ss_dssp             TSGS--HHHHHHHHHHHTS-HHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHcCCCHHHHHHHHHHhH
Confidence            47899999999999999999999999999965

; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3K2A_B 2LK2_A 1X2N_A 2DMN_A.

>KOG0774|consensus

Probab=97.31  E-value=0.00022  Score=60.42  Aligned_cols=53  Identities=21%  Similarity=0.230  Sum_probs=48.2

Q ss_pred             CCCcccCCCHHHHHHHHHHhh---hcCCCCHHHHHHHHHHcCCCCCCccccccccc
Q psy16796         78 PRRLRTAYTNTQLLELEKEFH---FNKYLCRPRRIEIAASLDLTERQSDCKYYVAK  130 (166)
Q Consensus        78 ~rr~Rt~fT~~Ql~~Le~~F~---~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k  130 (166)
                      .||+|..|+..-...|...|.   .|+||+...+++||.+.+++..||-.||.|.+
T Consensus       188 arRKRRNFsK~aTeiLneyF~~h~~nPYPSee~K~eLAkqCnItvsQvsnwfgnkr  243 (334)
T KOG0774|consen  188 ARRKRRNFSKQATEILNEYFYSHLSNPYPSEEAKEELAKQCNITVSQVSNWFGNKR  243 (334)
T ss_pred             HHHhhcccchhHHHHHHHHHHHhcCCCCCcHHHHHHHHHHcCceehhhccccccce
Confidence            366788999999999999997   57899999999999999999999999999944

>KOG1146|consensus

Probab=97.15  E-value=0.00022  Score=70.81  Aligned_cols=55  Identities=15%  Similarity=0.146  Sum_probs=51.1

Q ss_pred             CCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccc
Q psy16796         78 PRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEE  132 (166)
Q Consensus        78 ~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~k  132 (166)
                      +|+.|+.++..||..|...|....||.....+.|...++|..+.|+|||||.+.+
T Consensus       903 r~a~~~~~~d~qlk~i~~~~~~q~~~~~~~~E~l~~~~~~~~~~i~vw~qna~~~  957 (1406)
T KOG1146|consen  903 RRAYRTQESDLQLKIIKACYEAQRTPTMQECEVLEEPIGLPKRVIQVWFQNARAK  957 (1406)
T ss_pred             hhhhccchhHHHHHHHHHHHhhccCChHHHHHhhcccccCCcchhHHhhhhhhhh
Confidence            5678999999999999999999999999999999999999999999999996643

>PF11569 Homez: Homeodomain leucine-zipper encoding, Homez; PDB: 2YS9_A

Probab=94.97  E-value=0.0071  Score=39.87  Aligned_cols=40  Identities=15%  Similarity=0.056  Sum_probs=30.2

Q ss_pred             HHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccc
Q psy16796         90 LLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVA  129 (166)
Q Consensus        90 l~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~  129 (166)
                      +..|+.+|...+++.-.....|+...+|+..||+.||--+
T Consensus        10 ~~pL~~Yy~~h~~L~E~DL~~L~~kS~ms~qqVr~WFa~~   49 (56)
T PF11569_consen   10 IQPLEDYYLKHKQLQEEDLDELCDKSRMSYQQVRDWFAER   49 (56)
T ss_dssp             -HHHHHHHHHT----TTHHHHHHHHTT--HHHHHHHHHHH
T ss_pred             hHHHHHHHHHcCCccHhhHHHHHHHHCCCHHHHHHHHHHh
Confidence            4579999999999999999999999999999999999763

>KOG0773|consensus

Probab=94.02  E-value=0.059  Score=46.52  Aligned_cols=64  Identities=16%  Similarity=0.096  Sum_probs=48.1

Q ss_pred             CCcccCCCHHHHHHHHHH-hh--hcCCCCHHHHHHHHHHcCCCCCCcccccccccccccCCchhhhh
Q psy16796         79 RRLRTAYTNTQLLELEKE-FH--FNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEGEDEEEEE  142 (166)
Q Consensus        79 rr~Rt~fT~~Ql~~Le~~-F~--~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~~~~~~~~  142 (166)
                      .|++..|.......|..- |+  ..+||+......||..+||+..||-.||-|+|.+.--+.-+.+=
T Consensus       240 ~r~~~~lP~~a~~ilr~Wl~~h~~~PYPse~~K~~La~~TGLs~~Qv~NWFINaR~R~w~p~~~~~~  306 (342)
T KOG0773|consen  240 WRPQRGLPKEAVSILRAWLFEHLLHPYPSDDEKLMLAKQTGLSRPQVSNWFINARVRLWKPMIEEMY  306 (342)
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhccCCCCcchhccccchhcCCCcccCCchhhhcccccCCchHHHHH
Confidence            344456767766666643 22  24699999999999999999999999999988777766655443

>KOG3623|consensus

Probab=93.89  E-value=0.029  Score=53.59  Aligned_cols=46  Identities=15%  Similarity=0.070  Sum_probs=41.8

Q ss_pred             HHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccC
Q psy16796         90 LLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEG  135 (166)
Q Consensus        90 l~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~  135 (166)
                      +..|.+.|..|.+|+..+...+|...||+.+.|++||++.+.++-.
T Consensus       568 ~sllkayyaln~~ps~eelskia~qvglp~~vvk~wfE~~~a~e~s  613 (1007)
T KOG3623|consen  568 TSLLKAYYALNGLPSEEELSKIAQQVGLPFAVVKAWFEDEEAEEMS  613 (1007)
T ss_pred             HHHHHHHHHhcCCCCHHHHHHHHHHhcccHHHHHHHHHhhhhhhhh
Confidence            7789999999999999999999999999999999999997665543

>PF04218 CENP-B_N: CENP-B N-terminal DNA-binding domain; InterPro: IPR006695 Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere

Probab=87.62  E-value=0.67  Score=29.68  Aligned_cols=45  Identities=18%  Similarity=0.214  Sum_probs=34.7

Q ss_pred             CCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccc
Q psy16796         79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYV  128 (166)
Q Consensus        79 rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN  128 (166)
                      ++.|..+|-.+-..+-..++...     ....||..+|++..+|.-|..|
T Consensus         1 krkR~~LTl~eK~~iI~~~e~g~-----s~~~ia~~fgv~~sTv~~I~K~   45 (53)
T PF04218_consen    1 KRKRKSLTLEEKLEIIKRLEEGE-----SKRDIAREFGVSRSTVSTILKN   45 (53)
T ss_dssp             SSSSSS--HHHHHHHHHHHHCTT------HHHHHHHHT--CCHHHHHHHC
T ss_pred             CCCCccCCHHHHHHHHHHHHcCC-----CHHHHHHHhCCCHHHHHHHHHh
Confidence            46788899999888888887776     5778999999999999999988

Within the N-terminal 125 residues, there is a DNA-binding region, which binds to a corresponding 17bp CENP-B box sequence. CENP-B dimers either bind two separate DNA molecules or alternatively, they may bind two CENP-B boxes on one DNA molecule, with the intervening stretch of DNA forming a loop structure. The CENP-B DNA-binding domain consists of two repeating domains, RP1 and RP2. This family corresponds to RP1 has been shown to consist of four helices in a helix-turn-helix structure [].; GO: 0003677 DNA binding, 0000775 chromosome, centromeric region; PDB: 1BW6_A 1HLV_A 2ELH_A.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	166
2h1k_A	63	Crystal Structure Of The Pdx1 Homeodomain In Comple		8e-12
1b72_A	97	Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX Le		1e-11
2r5y_A	88	Structure Of ScrEXD COMPLEX BOUND TO A CONSENSUS HO		2e-11
1ahd_P	68	Determination Of The Nmr Solution Structure Of An A		3e-10
9ant_A	62	Antennapedia Homeodomain-Dna Complex Length = 62		3e-10
1b8i_A	81	Structure Of The Homeotic UbxEXDDNA TERNARY COMPLEX		4e-10
1hom_A	68	Determination Of The Three-Dimensional Structure Of		1e-09
1san_A	62	The Des(1-6)antennapedia Homeodomain: Comparison Of		2e-09
1ftz_A	70	Nuclear Magnetic Resonance Solution Structure Of Th		3e-09
2m34_A	71	Nmr Structure Of The Homeodomain Transcription Fact		3e-07
2lp0_A	60	The Solution Structure Of Homeodomain-Protein Compl		3e-07
1puf_A	77	Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bo		5e-07
1jgg_A	60	Even-Skipped Homeodomain Complexed To At-Rich Dna L		2e-06
2dmt_A	80	Solution Structure Of The Homeobox Domain Of Homeob		1e-05
2djn_A	70	The Solution Structure Of The Homeobox Domain Of Hu		1e-04
2ld5_A	67	Solution Nmr-Derived Complex Structure Of Hoxa13 Dn		2e-04
2l7z_A	73	Nmr Structure Of A13 Homedomain Length = 73		2e-04
2cra_A	70	Solution Structure Of The Homeobox Domain Of Human		2e-04
1zq3_P	68	Nmr Solution Structure Of The Bicoid Homeodomain Bo		3e-04

>pdb|2H1K|A Chain A, Crystal Structure Of The Pdx1 Homeodomain In Complex With Dna Length = 63

Iteration: 1
 Score = 66.2 bits (160), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 31/46 (67%), Positives = 36/46 (78%)
Query: 76  GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           G  +R RTAYT  QLLELEKEF FNKY+ RPRR+E+A  L+LTER 
Sbjct: 1   GSNKRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERH 46

>pdb|1B72|A Chain A, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX Length = 97

Iteration: 1
 Score = 65.9 bits (159), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 31/46 (67%), Positives = 35/46 (76%)
Query: 76  GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           G P  LRT +T  QL ELEKEFHFNKYL R RR+EIAA+L+L E Q
Sbjct: 32  GSPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQ 77

>pdb|2R5Y|A Chain A, Structure Of ScrEXD COMPLEX BOUND TO A CONSENSUS HOX-Exd Site Length = 88

Iteration: 1
 Score = 65.1 bits (157), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 32/46 (69%), Positives = 36/46 (78%)
Query: 76  GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           G  +R RT+YT  Q LELEKEFHFN+YL R RRIEIA +L LTERQ
Sbjct: 26  GETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQ 71

>pdb|1AHD|P Chain P, Determination Of The Nmr Solution Structure Of An Antennapedia Homeodomain-Dna Complex Length = 68

Iteration: 1
 Score = 60.8 bits (146), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 30/43 (69%), Positives = 33/43 (76%)
Query: 79  RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           +R R  YT  Q LELEKEFHFN+YL R RRIEIA +L LTERQ
Sbjct: 3   KRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQ 45

>pdb|9ANT|A Chain A, Antennapedia Homeodomain-Dna Complex Length = 62

Iteration: 1
 Score = 60.8 bits (146), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 30/43 (69%), Positives = 33/43 (76%)
Query: 79  RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           +R R  YT  Q LELEKEFHFN+YL R RRIEIA +L LTERQ
Sbjct: 4   KRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQ 46

>pdb|1B8I|A Chain A, Structure Of The Homeotic UbxEXDDNA TERNARY COMPLEX Length = 81

Iteration: 1
 Score = 60.5 bits (145), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 31/46 (67%), Positives = 33/46 (71%)
Query: 76  GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           GL RR R  YT  Q LELEKEFH N YL R RRIE+A +L LTERQ
Sbjct: 18  GLRRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQ 63

>pdb|1HOM|A Chain A, Determination Of The Three-Dimensional Structure Of The Antennapedia Homeodomain From Drosophila In Solution By 1h Nuclear Magnetic Resonance Spectroscopy Length = 68

Iteration: 1
 Score = 58.9 bits (141), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 30/45 (66%), Positives = 34/45 (75%)
Query: 77  LPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           + +R R  YT  Q LELEKEFHFN+YL R RRIEIA +L LTERQ
Sbjct: 1   MRKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQ 45

>pdb|1SAN|A Chain A, The Des(1-6)antennapedia Homeodomain: Comparison Of The Nmr Solution Structure And The Dna Binding Affinity With The Intact Antennapedia Homeodomain Length = 62

Iteration: 1
 Score = 58.2 bits (139), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 28/38 (73%), Positives = 30/38 (78%)
Query: 84  AYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
            YT  Q LELEKEFHFN+YL R RRIEIA +L LTERQ
Sbjct: 2   TYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQ 39

>pdb|1FTZ|A Chain A, Nuclear Magnetic Resonance Solution Structure Of The Fushi Tarazu Homeodomain From Drosophila And Comparison With The Antennapedia Homeodomain Length = 70

Iteration: 1
 Score = 57.8 bits (138), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 27/43 (62%), Positives = 33/43 (76%)
Query: 79  RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           +R R  YT  Q LELEKEFHFN+Y+ R RRI+IA +L L+ERQ
Sbjct: 4   KRTRQTYTRYQTLELEKEFHFNRYITRRRRIDIANALSLSERQ 46

>pdb|2M34|A Chain A, Nmr Structure Of The Homeodomain Transcription Factor Gbx1 From Homo Sapiens Length = 71

Iteration: 1
 Score = 51.2 bits (121), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 27/46 (58%), Positives = 32/46 (69%)
Query: 76  GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           G  RR RTA+T+ QLLELEKEFH  KYL    R +IA +L L+E Q
Sbjct: 5   GKSRRRRTAFTSEQLLELEKEFHCKKYLSLTERSQIAHALKLSEVQ 50

>pdb|2LP0|A Chain A, The Solution Structure Of Homeodomain-Protein Complex Length = 60

Iteration: 1
 Score = 50.8 bits (120), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 27/43 (62%), Positives = 30/43 (69%)
Query: 79  RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           R+ R  YT  Q LELEKEF FN YL R RR E+A  L+LTERQ
Sbjct: 2   RKKRCPYTKYQTLELEKEFLFNMYLTRDRRYEVARVLNLTERQ 44

>pdb|1PUF|A Chain A, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound To Dna Length = 77

Iteration: 1
 Score = 50.4 bits (119), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 27/43 (62%), Positives = 30/43 (69%)
Query: 79  RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           R+ R  YT  Q LELEKEF FN YL R RR E+A  L+LTERQ
Sbjct: 14  RKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQ 56

>pdb|1JGG|A Chain A, Even-Skipped Homeodomain Complexed To At-Rich Dna Length = 60

Iteration: 1
 Score = 48.1 bits (113), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 24/41 (58%), Positives = 29/41 (70%)
Query: 79  RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTE 119
           RR RTA+T  QL  LEKEF+   Y+ RPRR E+AA L+L E
Sbjct: 2   RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPE 42

>pdb|2DMT|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox Protein Barh-Like 1 Length = 80

Iteration: 1
 Score = 45.4 bits (106), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 23/48 (47%), Positives = 29/48 (60%)
Query: 79  RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKY 126
           RR RT +T  QL+ LEK F   KYL  P RI++A SL L++ Q    Y
Sbjct: 18  RRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVKTWY 65

>pdb|2DJN|A Chain A, The Solution Structure Of The Homeobox Domain Of Human Homeobox Protein Dlx-5 Length = 70

Iteration: 1
 Score = 42.4 bits (98), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 20/43 (46%), Positives = 28/43 (65%)
Query: 79  RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           R+ RT Y++ QL  L++ F   +YL  P R E+AASL LT+ Q
Sbjct: 8   RKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQ 50

>pdb|2LD5|A Chain A, Solution Nmr-Derived Complex Structure Of Hoxa13 Dna Binding Domain Bound To Dna Length = 67

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 19/43 (44%), Positives = 30/43 (69%)
Query: 79  RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           R+ R  YT  QL ELE+E+  NK++ + +R  I+A+ +L+ERQ
Sbjct: 2   RKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQ 44

>pdb|2L7Z|A Chain A, Nmr Structure Of A13 Homedomain Length = 73

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 19/43 (44%), Positives = 30/43 (69%)
Query: 79  RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           R+ R  YT  QL ELE+E+  NK++ + +R  I+A+ +L+ERQ
Sbjct: 8   RKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQ 50

>pdb|2CRA|A Chain A, Solution Structure Of The Homeobox Domain Of Human Homeo Box B13 Length = 70

Iteration: 1
 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 18/43 (41%), Positives = 30/43 (69%)
Query: 79  RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           R+ R  Y+  QL ELE+E+  NK++ + +R +I+A+  L+ERQ
Sbjct: 8   RKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQ 50

>pdb|1ZQ3|P Chain P, Nmr Solution Structure Of The Bicoid Homeodomain Bound To The Consensus Dna Binding Site Taatcc Length = 68

Iteration: 1
 Score = 40.8 bits (94), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 19/44 (43%), Positives = 28/44 (63%)
Query: 78  PRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           PRR RT +T++Q+ ELE+ F   +YL  PR  +++A L L   Q
Sbjct: 2   PRRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQ 45

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	166
1wh5_A	80	ZF-HD homeobox family protein; structural genomics	99.73
1wh7_A	80	ZF-HD homeobox family protein; homeobox domain, st	99.73
2dmt_A	80	Homeobox protein BARH-like 1; homeobox domain, thr	99.72
2cra_A	70	Homeobox protein HOX-B13; DNA-binding, transcripti	99.71
2djn_A	70	Homeobox protein DLX-5; structural genomics, NPPSF	99.71
2kt0_A	84	Nanog, homeobox protein nanog; homeodomain, struct	99.71
2h1k_A	63	IPF-1, pancreatic and duodenal homeobox 1, homeodo	99.71
2vi6_A	62	Homeobox protein nanog; homeodomain, DNA-binding,	99.71
1nk2_P	77	Homeobox protein VND; homeodomain, DNA-binding pro	99.7
2da2_A	70	Alpha-fetoprotein enhancer binding protein; homeob	99.7
2dmu_A	70	Homeobox protein goosecoid; homeobox domain, three	99.7
2hdd_A	61	Protein (engrailed homeodomain Q50K); DNA binding,	99.69
3a01_A	93	Homeodomain-containing protein; homeodomain, prote	99.69
3rkq_A	58	Homeobox protein NKX-2.5; helix-turn-helix, DNA bi	99.69
1bw5_A	66	ISL-1HD, insulin gene enhancer protein ISL-1; DNA-	99.69
2cue_A	80	Paired box protein PAX6; homeobox domain, transcri	99.69
2l7z_A	73	Homeobox protein HOX-A13; gene regulation; NMR {Ho	99.69
1ig7_A	58	Homeotic protein MSX-1; helix-turn-helix, transcri	99.69
2da1_A	70	Alpha-fetoprotein enhancer binding protein; homeob	99.69
2m0c_A	75	Homeobox protein aristaless-like 4; structural gen	99.69
2dms_A	80	Homeobox protein OTX2; homeobox domain, three heli	99.69
1wi3_A	71	DNA-binding protein SATB2; homeodomain, helix-turn	99.69
2da3_A	80	Alpha-fetoprotein enhancer binding protein; homeob	99.68
1akh_A	61	Protein (mating-type protein A-1); complex (TWO DN	99.68
2dmq_A	80	LIM/homeobox protein LHX9; homeobox domain, three	99.68
1puf_A	77	HOX-1.7, homeobox protein HOX-A9; homeodomian, pro	99.68
1zq3_P	68	PRD-4, homeotic bicoid protein; protein-DNA comple	99.68
1ahd_P	68	Antennapedia protein mutant; DNA binding protein/D	99.67
2e1o_A	70	Homeobox protein PRH; DNA binding protein, structu	99.67
1jgg_A	60	Segmentation protein EVEN-skipped; homeodomain, pr	99.67
1b8i_A	81	Ultrabithorax, protein (ultrabithorax homeotic pro	99.67
1ftt_A	68	TTF-1 HD, thyroid transcription factor 1 homeodoma	99.67
2k40_A	67	Homeobox expressed in ES cells 1; thermostable hom	99.66
1fjl_A	81	Paired protein; DNA-binding protein, paired BOX, t	99.66
1b72_A	97	Protein (homeobox protein HOX-B1); homeodomain, DN	99.66
1yz8_P	68	Pituitary homeobox 2; DNA binding protein, transcr	99.66
2da4_A	80	Hypothetical protein DKFZP686K21156; homeobox doma	99.66
2r5y_A	88	Homeotic protein sex combs reduced; homeodomain; H	99.65
3nar_A	96	ZHX1, zinc fingers and homeoboxes protein 1; corep	99.64
2ly9_A	74	Zinc fingers and homeoboxes protein 1; structural	99.63
3a02_A	60	Homeobox protein aristaless; homeodomain, developm	99.63
2dn0_A	76	Zinc fingers and homeoboxes protein 3; triple home	99.62
2hi3_A	73	Homeodomain-only protein; transcription; NMR {Mus	99.62
1uhs_A	72	HOP, homeodomain only protein; structural genomics	99.62
2da5_A	75	Zinc fingers and homeoboxes protein 3; homeobox do	99.62
2ecc_A	76	Homeobox and leucine zipper protein homez; homeobo	99.61
1puf_B	73	PRE-B-cell leukemia transcription factor-1; homeod	99.61
3a03_A	56	T-cell leukemia homeobox protein 2; homeodomain, d	99.61
1du6_A	64	PBX1, homeobox protein PBX1; homeodomain, gene reg	99.61
1x2n_A	73	Homeobox protein pknox1; homeobox domain, structur	99.6
1au7_A	146	Protein PIT-1, GHF-1; complex (DNA-binding protein	99.59
1lfb_A	99	Liver transcription factor (LFB1); transcription r	99.59
2cuf_A	95	FLJ21616 protein; homeobox domain, hepatocyte tran	99.59
1e3o_C	160	Octamer-binding transcription factor 1; transcript	99.58
3d1n_I	151	POU domain, class 6, transcription factor 1; prote	99.57
2e19_A	64	Transcription factor 8; homeobox domain, structura	99.57
1b72_B	87	Protein (PBX1); homeodomain, DNA, complex, DNA-bin	99.57
2cqx_A	72	LAG1 longevity assurance homolog 5; homeodomain, D	99.56
2da6_A	102	Hepatocyte nuclear factor 1-beta; homeobox domain,	99.56
2ecb_A	89	Zinc fingers and homeoboxes protein 1; homeobox do	99.56
1mnm_C	87	Protein (MAT alpha-2 transcriptional repressor); t	99.55
2dmn_A	83	Homeobox protein TGIF2LX; TGFB-induced factor 2-li	99.55
2xsd_C	164	POU domain, class 3, transcription factor 1; trans	99.55
1k61_A	60	Mating-type protein alpha-2; protein-DNA complex,	99.54
2l9r_A	69	Homeobox protein NKX-3.1; structural genomics, nor	99.54
2d5v_A	164	Hepatocyte nuclear factor 6; transcription factor,	99.54
2dmp_A	89	Zinc fingers and homeoboxes protein 2; homeobox do	99.53
3l1p_A	155	POU domain, class 5, transcription factor 1; POU,	99.53
1le8_B	83	Mating-type protein alpha-2; matalpha2, isothermal	99.52
3nau_A	66	Zinc fingers and homeoboxes protein 2; ZHX2, corep	99.51
1x2m_A	64	LAG1 longevity assurance homolog 6; homeobox domai	99.49
1ic8_A	194	Hepatocyte nuclear factor 1-alpha; transcription r	99.4
3k2a_A	67	Homeobox protein MEIS2; homeobox domain, DNA-bindi	99.36
2h8r_A	221	Hepatocyte nuclear factor 1-beta; trasncription fa	99.35
2da7_A	71	Zinc finger homeobox protein 1B; homeobox domain,	99.26
1mh3_A	421	Maltose binding-A1 homeodomain protein chimera; MA	99.19
2lk2_A	89	Homeobox protein TGIF1; NESG, structural genomics,	99.01
2nzz_A	37	Penetratin conjugated GAS (374-394) peptide; confo	97.86
2ys9_A	70	Homeobox and leucine zipper protein homez; homeodo	90.17

>1wh5_A ZF-HD homeobox family protein; structural genomics, zinc finger homeobox family protein, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} SCOP: a.4.1.1

Probab=99.73  E-value=1e-18  Score=121.55  Aligned_cols=59  Identities=12%  Similarity=-0.000  Sum_probs=54.8

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhh----cCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHF----NKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~----~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      .++++|.||.||..|+..|+..|..    ++||+...|..||..|||++++|+|||||+|.|-
T Consensus        14 ~~~~rR~Rt~ft~~Ql~~Le~~f~~~~~~~~yp~~~~r~~La~~lgL~~~~VkvWFqNrRaK~   76 (80)
T 1wh5_A           14 GGIRKRHRTKFTAEQKERMLALAERIGWRIQRQDDEVIQRFCQETGVPRQVLKVWLHNNKHSG   76 (80)
T ss_dssp             CCCSCCCSCCCCHHHHHHHHHHHHHHTSCCCTTTHHHHHHHHHHSCCCHHHHHHHHHHHSSSS
T ss_pred             CCCCCCCCccCCHHHHHHHHHHHHhccCcCCCcCHHHHHHHHHHhCCCcccccCCccccCcCC
Confidence            4567889999999999999999999    9999999999999999999999999999976653

>1wh7_A ZF-HD homeobox family protein; homeobox domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: a.4.1.1

Probab=99.73  E-value=1.5e-18  Score=120.82  Aligned_cols=59  Identities=15%  Similarity=0.080  Sum_probs=54.1

Q ss_pred             cCCCCCCcccCCCHHHHHHHHHHhhh-----cCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         74 KNGLPRRLRTAYTNTQLLELEKEFHF-----NKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        74 ~~~k~rr~Rt~fT~~Ql~~Le~~F~~-----~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      ...+++|.||.||..|+..|+ .|..     ++||+...|..||..|||++++|+|||||+|.|-
T Consensus        13 ~~~~~rR~Rt~ft~~Ql~~Le-~F~~~~~w~~~yp~~~~r~~La~~lgL~e~qVkvWFqNrR~k~   76 (80)
T 1wh7_A           13 SGGTTKRFRTKFTAEQKEKML-AFAERLGWRIQKHDDVAVEQFCAETGVRRQVLKIWMHNNKNSG   76 (80)
T ss_dssp             CCCCSSCCCCCCCHHHHHHHH-HHHHHHTSCCCSSTTHHHHHHHHHSCCCHHHHHHHHHTTSCCS
T ss_pred             CCCCCCCCCccCCHHHHHHHH-HHHHHcCcCCCCCCHHHHHHHHHHhCcCcCcccccccccccCC
Confidence            345678899999999999999 8999     9999999999999999999999999999977653

>2dmt_A Homeobox protein BARH-like 1; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.72  E-value=2.1e-18  Score=119.37  Aligned_cols=60  Identities=40%  Similarity=0.522  Sum_probs=55.1

Q ss_pred             cCCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         74 KNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        74 ~~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      ..++.++.||.||..|+..|+..|..++||+...|..||..|||++.+|+|||||+|.+.
T Consensus        13 ~~~~~rr~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~LA~~l~L~~~qV~vWFqNRR~k~   72 (80)
T 2dmt_A           13 KAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVKTWYQNRRMKW   72 (80)
T ss_dssp             CCCCCCCSCCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHhCCCHHHeeeccHHHHHHh
Confidence            456778899999999999999999999999999999999999999999999999955443

>2cra_A Homeobox protein HOX-B13; DNA-binding, transcription regulation, helix-turn-helix, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1

Probab=99.71  E-value=3.3e-18  Score=115.49  Aligned_cols=61  Identities=31%  Similarity=0.474  Sum_probs=55.2

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccC
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEG  135 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~  135 (166)
                      .+..++.|+.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+...
T Consensus         4 ~~~~rr~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~LA~~l~l~~~qV~~WFqNRR~k~kk   64 (70)
T 2cra_A            4 GSSGRKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQITIWFQNRRVKEKK   64 (70)
T ss_dssp             SCCCCCSCCCSCHHHHHHHHHHHHHCSSCCHHHHHHHHHHTCCCHHHHHHHHHHHHHTTTS
T ss_pred             CCCCCCCCCcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHCCCHHHhhHhhHhHHHHhcc
Confidence            4567889999999999999999999999999999999999999999999999996655443

>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.71  E-value=3.4e-18  Score=115.45  Aligned_cols=59  Identities=34%  Similarity=0.482  Sum_probs=54.2

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      ..+.++.|+.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+.
T Consensus         4 ~~~~rr~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~   62 (70)
T 2djn_A            4 GSSGRKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQVKIWFQNKRSKI   62 (70)
T ss_dssp             CCCCCCSSCSSCHHHHHHHHHHHTTCSSCCHHHHHHHHHHSSCCHHHHHHHHHHHHHTC
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhhhh
Confidence            45678899999999999999999999999999999999999999999999999955443

>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics, protein structure initiative, PSI, center for eukaryotic structural genomics; NMR {Homo sapiens}

Probab=99.71  E-value=3.1e-18  Score=119.22  Aligned_cols=62  Identities=23%  Similarity=0.300  Sum_probs=56.3

Q ss_pred             cCCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccC
Q psy16796         74 KNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEG  135 (166)
Q Consensus        74 ~~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~  135 (166)
                      ...+.++.||.||..|+..|+..|..++||+...|..||..|||++.+|+|||||+|.+...
T Consensus        18 ~~~~~rr~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~La~~l~l~~~qV~vWFqNRR~k~kk   79 (84)
T 2kt0_A           18 VPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQVKTWFQNQRMKSKR   79 (84)
T ss_dssp             CCSCSCCCSSCCCHHHHHHHHHHHHHSSSCCHHHHHHHHHHTTCCHHHHHHHHHHHHHTTTS
T ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence            34567889999999999999999999999999999999999999999999999996665443

>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain; protein-DNA complex, transcription/DNA complex; 2.42A {Mesocricetus auratus}

Probab=99.71  E-value=1.3e-18  Score=115.33  Aligned_cols=58  Identities=52%  Similarity=0.749  Sum_probs=52.0

Q ss_pred             CCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         77 LPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        77 k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      ..++.|+.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+..
T Consensus         2 ~~rr~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~LA~~l~l~~~qV~~WFqNrR~k~k   59 (63)
T 2h1k_A            2 SNKRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHIKIWFQNRRMKWK   59 (63)
T ss_dssp             ---CCCCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCcCHHHHHHHHHHHhcCCCcCHHHHHHHHHHhCcCHHHhhHHHHhhhhhhh
Confidence            3578899999999999999999999999999999999999999999999999775543

>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription, transcription facto developmental protein, transcription regulation, NUC homeobox; 2.6A {Mus musculus}

Probab=99.71  E-value=2.2e-18  Score=113.68  Aligned_cols=58  Identities=22%  Similarity=0.378  Sum_probs=49.4

Q ss_pred             CCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         77 LPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        77 k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      +.++.||.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+..
T Consensus         2 ~~rr~Rt~ft~~q~~~Le~~F~~~~yp~~~~r~~LA~~l~l~~~qV~~WFqNrR~k~k   59 (62)
T 2vi6_A            2 TKQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQRMKCK   59 (62)
T ss_dssp             ------CCCCHHHHHHHHHHHHHCSCCCHHHHHHHHHHHTCCHHHHHHHHHHHHHTCG
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCHHHhhHHhHHhhcchh
Confidence            4678899999999999999999999999999999999999999999999999776543

>1nk2_P Homeobox protein VND; homeodomain, DNA-binding protein, embryonic development, complex (homeodomain/DNA); HET: DNA; NMR {Drosophila melanogaster} SCOP: a.4.1.1 PDB: 1nk3_P* 1vnd_A 1qry_A

Probab=99.70  E-value=2.7e-18  Score=118.04  Aligned_cols=61  Identities=26%  Similarity=0.389  Sum_probs=55.7

Q ss_pred             cCCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         74 KNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        74 ~~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      .+.++++.|+.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+..
T Consensus         5 ~~~~~rr~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNRR~k~k   65 (77)
T 1nk2_P            5 LPNKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHRYKTK   65 (77)
T ss_dssp             CSCCCCCCCCCCCHHHHHHHHHHHHHCSCCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCccCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHhCCCHHHHHHHhHHhhcchh
Confidence            3556788899999999999999999999999999999999999999999999999775543

>2da2_A Alpha-fetoprotein enhancer binding protein; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics; NMR {Homo sapiens}

Probab=99.70  E-value=6.4e-18  Score=113.89  Aligned_cols=60  Identities=23%  Similarity=0.233  Sum_probs=55.0

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      .++.++.|+.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+..
T Consensus         4 ~~~~rr~Rt~ft~~q~~~Le~~F~~~~yp~~~~r~~LA~~l~l~~~qV~~WFqNrR~k~k   63 (70)
T 2da2_A            4 GSSGRSSRTRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQNARQKAR   63 (70)
T ss_dssp             SCCSCCCCCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHSCCCHHHHHHHHHHHHHHHC
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHcCCCcCHHHHHHHHHHhCCCHHHhHHhhHhhhHHHh
Confidence            456788999999999999999999999999999999999999999999999999665543

>2dmu_A Homeobox protein goosecoid; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.70  E-value=5e-18  Score=114.53  Aligned_cols=57  Identities=28%  Similarity=0.344  Sum_probs=53.1

Q ss_pred             CCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccc
Q psy16796         76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEE  132 (166)
Q Consensus        76 ~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~k  132 (166)
                      +..++.|+.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+
T Consensus         5 ~~~rr~Rt~ft~~q~~~Le~~F~~~~yp~~~~r~~LA~~l~l~~~qV~~WFqNrR~k   61 (70)
T 2dmu_A            5 SSGRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVEVWFKNRRAK   61 (70)
T ss_dssp             TSSCCCCCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHccCCCCHHHHHHHHHHHCCCHHHeehcccccccc
Confidence            456889999999999999999999999999999999999999999999999995543

>2hdd_A Protein (engrailed homeodomain Q50K); DNA binding, complex (DNA binding protein/DNA), transcription/DNA complex; HET: DNA; 1.90A {Drosophila melanogaster} SCOP: a.4.1.1 PDB: 1hdd_C* 2jwt_A 3hdd_A 1p7j_A* 1p7i_A* 2hos_A 2hot_A 1du0_A* 1ztr_A 1enh_A 2p81_A

Probab=99.69  E-value=3.1e-18  Score=112.62  Aligned_cols=56  Identities=32%  Similarity=0.507  Sum_probs=50.0

Q ss_pred             CCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         78 PRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        78 ~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      +++.||.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+.
T Consensus         3 ~rr~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~   58 (61)
T 2hdd_A            3 EKRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFKNKRAKI   58 (61)
T ss_dssp             ----CCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCHHHHHHHHHHHHccCCCCHHHHHHHHHHHCcCHHHHHHHhhhhcccc
Confidence            57889999999999999999999999999999999999999999999999977654

>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex, DNA-binding, homeobox, NUC developmental protein; 2.70A {Drosophila melanogaster}

Probab=99.69  E-value=2.5e-18  Score=122.45  Aligned_cols=62  Identities=29%  Similarity=0.411  Sum_probs=55.6

Q ss_pred             cCCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccC
Q psy16796         74 KNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEG  135 (166)
Q Consensus        74 ~~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~  135 (166)
                      .+.+.++.||.||..|+..|+..|..++||+...|..||..|||++.+|+|||||+|.+...
T Consensus        13 ~~~~~rr~Rt~ft~~Ql~~Le~~F~~~~yp~~~~r~~LA~~l~L~~~qV~vWFqNRR~k~kr   74 (93)
T 3a01_A           13 TPPKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQVKTWFQNRRTKWRR   74 (93)
T ss_dssp             CCCCCCCCCCCCCHHHHHHHHHHHHHCSCCCHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCcCCCHHHHHHHHHHHHcCCCcCHHHHHHHHHHhCCChhhcccccHhhhhhhhh
Confidence            34567889999999999999999999999999999999999999999999999996654433

>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus, transcription-DNA CO; 1.70A {Homo sapiens}

Probab=99.69  E-value=4.9e-18  Score=109.96  Aligned_cols=56  Identities=29%  Similarity=0.481  Sum_probs=52.7

Q ss_pred             CCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         78 PRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        78 ~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      +++.|+.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+.
T Consensus         2 ~rr~Rt~~t~~q~~~Le~~F~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~   57 (58)
T 3rkq_A            2 RRKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQNRRYKS   57 (58)
T ss_dssp             CCCCCCCCCHHHHHHHHHHHTTCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHH
T ss_pred             cCCCCCCcCHHHHHHHHHHHHHcCCCCHHHHHHHHHHhCcCHHHHHHhhHHhhccC
Confidence            46789999999999999999999999999999999999999999999999988654

>1bw5_A ISL-1HD, insulin gene enhancer protein ISL-1; DNA-binding protein, homeodomain, LIM domain; NMR {Rattus norvegicus} SCOP: a.4.1.1

Probab=99.69  E-value=6.9e-18  Score=112.61  Aligned_cols=59  Identities=15%  Similarity=0.125  Sum_probs=54.4

Q ss_pred             CCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccC
Q psy16796         77 LPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEG  135 (166)
Q Consensus        77 k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~  135 (166)
                      ++++.||.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+...
T Consensus         2 k~rr~Rt~ft~~q~~~Le~~F~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~kk   60 (66)
T 1bw5_A            2 KTTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKDKK   60 (66)
T ss_dssp             CCSCCCCCCSHHHHHHHHHHHHHCSCCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHCSS
T ss_pred             CCCCCCCCCCHHHHHHHHHHHhcCCCcCHHHHHHHHHHHCcCHHHHHHHhHHHHHHHhH
Confidence            46889999999999999999999999999999999999999999999999997765543

>2cue_A Paired box protein PAX6; homeobox domain, transcription factor, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1

Probab=99.69  E-value=5.3e-18  Score=117.37  Aligned_cols=60  Identities=28%  Similarity=0.320  Sum_probs=55.0

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      ....++.|+.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+..
T Consensus         4 ~~~~rr~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~LA~~l~l~~~qV~vWFqNRR~k~k   63 (80)
T 2cue_A            4 GSSGQRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSNRRAKWR   63 (80)
T ss_dssp             CCSSCCCCCCSCHHHHHHHHHHHTTCSSCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCccCHHHHHHHHHHHhccCCCCHHHHHHHHHHhCCCHHHhhHHHHHHHHHHH
Confidence            345788999999999999999999999999999999999999999999999999775543

>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens} PDB: 2ld5_A*

Probab=99.69  E-value=9e-18  Score=114.41  Aligned_cols=62  Identities=32%  Similarity=0.440  Sum_probs=56.0

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccCC
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEGE  136 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~~  136 (166)
                      ..+.++.|+.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+....
T Consensus         4 ~~~~rr~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~LA~~l~l~~~qV~vWFqNRR~k~kk~   65 (73)
T 2l7z_A            4 MLEGRKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEKKV   65 (73)
T ss_dssp             SSCCCCCCCCSCHHHHHHHHHHHHHTSCCCHHHHHHHHHHHTSCSHHHHHHHHHHHHHHTTS
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHhhCCCcCHHHHHHHHHHHCCCHHHHHHHHHHHhHHHHHH
Confidence            34568899999999999999999999999999999999999999999999999977655443

>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA complex; 2.20A {Mus musculus} SCOP: a.4.1.1

Probab=99.69  E-value=4.9e-18  Score=110.42  Aligned_cols=55  Identities=36%  Similarity=0.549  Sum_probs=51.9

Q ss_pred             CCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        79 rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      |+.|+.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+.
T Consensus         1 rr~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~   55 (58)
T 1ig7_A            1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQVKIWFQNRRAKA   55 (58)
T ss_dssp             CCCCCCCCHHHHHHHHHHHHHCSCCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHHhcCCCcCHHHHHHHHHHHCcCHHHhhhhhhHhhhhh
Confidence            5789999999999999999999999999999999999999999999999977553

>2da1_A Alpha-fetoprotein enhancer binding protein; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics; NMR {Homo sapiens}

Probab=99.69  E-value=5.2e-18  Score=114.33  Aligned_cols=60  Identities=22%  Similarity=0.182  Sum_probs=54.8

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      ..++++.|+.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+..
T Consensus         4 ~~~~rr~Rt~ft~~q~~~Le~~F~~~~yp~~~~r~~LA~~l~l~~~qV~~WFqNrR~k~k   63 (70)
T 2da1_A            4 GSSGKRPRTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIKHWFRNTLFKER   63 (70)
T ss_dssp             SCCCCSCSCCCCHHHHHHHHHHHHHCSSCCTTHHHHHHHHHCCCHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHhCCCHHHHHHHhhhhhHHHh
Confidence            456788999999999999999999999999999999999999999999999999664443

>2m0c_A Homeobox protein aristaless-like 4; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens}

Probab=99.69  E-value=7.6e-18  Score=114.57  Aligned_cols=60  Identities=33%  Similarity=0.356  Sum_probs=55.1

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      .+++++.||.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+..
T Consensus         6 ~~~~rr~Rt~ft~~q~~~Le~~F~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~k   65 (75)
T 2m0c_A            6 KGKKRRNRTTFTSYQLEELEKVFQKTHYPDVYAREQLAMRTDLTEARVQVWFQNRRAKWR   65 (75)
T ss_dssp             CSCCCSCSCSSCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHT
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHhCCCHHHHHHHhHHHHHHHH
Confidence            456788899999999999999999999999999999999999999999999999665544

>2dms_A Homeobox protein OTX2; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.69  E-value=8.1e-18  Score=116.33  Aligned_cols=59  Identities=27%  Similarity=0.268  Sum_probs=54.6

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      .++.++.|+.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+.
T Consensus         4 ~~~~rr~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNRR~k~   62 (80)
T 2dms_A            4 GSSGRRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKC   62 (80)
T ss_dssp             CCCCCCCCSSCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHTTCCHHHHHHHHHHHHTHH
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHccCCCCHHHHHHHHHHHCcCHHHhhhhhHHHhHHh
Confidence            35678899999999999999999999999999999999999999999999999966543

>1wi3_A DNA-binding protein SATB2; homeodomain, helix-turn-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Homo sapiens} SCOP: a.4.1.1

Probab=99.69  E-value=7.8e-18  Score=113.99  Aligned_cols=57  Identities=19%  Similarity=0.067  Sum_probs=53.9

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhh-cCCCCHHHHHHHHHHcCCCCCCcccccccccc
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHF-NKYLCRPRRIEIAASLDLTERQSDCKYYVAKE  131 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~-~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~  131 (166)
                      .+.++|.||.|+..||..|+..|+. ++||+...|..||..|||++++|+|||||+|-
T Consensus         4 ~~~~kR~RT~~s~eQL~~Lqs~f~~~~~yPd~~~r~~La~~tGL~~~~IqVWFQNrR~   61 (71)
T 1wi3_A            4 GSSGPRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIKFFQNQRY   61 (71)
T ss_dssp             CCCCCCCCCCCCSHHHHHHHHHHHHHCSCCCHHHHHHHHHHSCCCHHHHHHHHHHHHH
T ss_pred             CCCCCCCCccCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHhhcccee
Confidence            4578999999999999999999999 99999999999999999999999999999763

>2da3_A Alpha-fetoprotein enhancer binding protein; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics; NMR {Homo sapiens}

Probab=99.68  E-value=6.4e-18  Score=116.40  Aligned_cols=61  Identities=23%  Similarity=0.238  Sum_probs=55.6

Q ss_pred             cCCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         74 KNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        74 ~~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      ...+.++.||.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+..
T Consensus        13 ~~~~~rr~Rt~ft~~Ql~~Le~~f~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~k   73 (80)
T 2da3_A           13 EPQRDKRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQVWFQNTRARER   73 (80)
T ss_dssp             CCCCCTTCCSSCCTTTHHHHHHHHHHCSSCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHCcCHHHhHHHhHHHHHhHh
Confidence            3466788999999999999999999999999999999999999999999999999665443

>1akh_A Protein (mating-type protein A-1); complex (TWO DNA-binding proteins/DNA), complex, DNA- binding protein, DNA; HET: DNA; 2.50A {Saccharomyces cerevisiae} SCOP: a.4.1.1 PDB: 1f43_A 1yrn_A*

Probab=99.68  E-value=4.5e-18  Score=111.64  Aligned_cols=58  Identities=14%  Similarity=0.100  Sum_probs=47.1

Q ss_pred             CCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        76 ~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      ++.++.|+.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+.
T Consensus         3 ~k~rr~Rt~ft~~q~~~Le~~f~~~~yp~~~~r~~La~~~~l~~~qV~~WFqNrR~k~   60 (61)
T 1akh_A            3 EKSPKGKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRS   60 (61)
T ss_dssp             ---------CCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHC
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHhCCCcCHHHHHHHHHHHCcCHHHHHHHHHHHHhcc
Confidence            4568889999999999999999999999999999999999999999999999987653

>2dmq_A LIM/homeobox protein LHX9; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.68  E-value=7.8e-18  Score=116.17  Aligned_cols=59  Identities=20%  Similarity=0.238  Sum_probs=54.4

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      ..+.++.||.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+.
T Consensus         4 ~~~~rr~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~   62 (80)
T 2dmq_A            4 GSSGKRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNARAKF   62 (80)
T ss_dssp             CCCCCCCCCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHTCCCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHhCCCHHHhhHccHHHHHHH
Confidence            34578899999999999999999999999999999999999999999999999977443

>1puf_A HOX-1.7, homeobox protein HOX-A9; homeodomian, protein-DNA complex, HOX hexapeptide, TALE homeodomain, homeodomain interaction; 1.90A {Mus musculus} SCOP: a.4.1.1 PDB: 1san_A

Probab=99.68  E-value=9e-18  Score=115.39  Aligned_cols=60  Identities=45%  Similarity=0.589  Sum_probs=55.1

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      .+..++.|+.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+..
T Consensus        10 ~~~~rr~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~LA~~l~l~~~qV~vWFqNRR~k~k   69 (77)
T 1puf_A           10 ARSTRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWFQNRRMKMK   69 (77)
T ss_dssp             CCTTSCCCCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHhccCCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence            456788999999999999999999999999999999999999999999999999775543

>1zq3_P PRD-4, homeotic bicoid protein; protein-DNA complex, double helix, helix-turn-helix; NMR {Drosophila melanogaster} SCOP: a.4.1.1

Probab=99.68  E-value=6.9e-18  Score=113.41  Aligned_cols=56  Identities=34%  Similarity=0.555  Sum_probs=52.8

Q ss_pred             CCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         78 PRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        78 ~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      +++.||.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+.
T Consensus         2 ~rr~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNRR~k~   57 (68)
T 1zq3_P            2 PRRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKNRRRRH   57 (68)
T ss_dssp             CSCCSCCCCHHHHHHHHHHHTTCSSCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHH
T ss_pred             cCCCCCCcCHHHHHHHHHHHhcCCCcCHHHHHHHHHHhCcCHHHhhHhhHHHHHHH
Confidence            57889999999999999999999999999999999999999999999999977543

>1ahd_P Antennapedia protein mutant; DNA binding protein/DNA; HET: DNA; NMR {Drosophila melanogaster} SCOP: a.4.1.1 PDB: 2hoa_A 1hom_A 1ftz_A

Probab=99.67  E-value=2.9e-18  Score=115.38  Aligned_cols=56  Identities=54%  Similarity=0.709  Sum_probs=52.3

Q ss_pred             CCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         78 PRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        78 ~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      +++.||.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+.
T Consensus         2 ~rr~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~La~~l~l~~~qV~vWFqNRR~k~   57 (68)
T 1ahd_P            2 RKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKW   57 (68)
T ss_dssp             CSCTTCCCCHHHHHHHHHHHHHCSSCCTTHHHHHHHHHTCCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCcCHHHHHHHHHHHccCCCCCHHHHHHHHHHHCcCHhhhhHHhHHHHhHH
Confidence            47889999999999999999999999999999999999999999999999966543

>2e1o_A Homeobox protein PRH; DNA binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.4.1.1

Probab=99.67  E-value=1.5e-17  Score=112.30  Aligned_cols=57  Identities=32%  Similarity=0.475  Sum_probs=52.7

Q ss_pred             CCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccc
Q psy16796         76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEE  132 (166)
Q Consensus        76 ~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~k  132 (166)
                      ...++.|+.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+
T Consensus         5 ~~~~r~R~~ft~~q~~~Le~~F~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k   61 (70)
T 2e1o_A            5 SSGKGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNRRAK   61 (70)
T ss_dssp             CCCCCCCCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHHcCCCcCHHHHHHHHHHHCCCHHHhhHhhHhhHhh
Confidence            356778999999999999999999999999999999999999999999999996543

>1jgg_A Segmentation protein EVEN-skipped; homeodomain, protein-DNA complex, transcription/DNA complex; 2.00A {Drosophila melanogaster} SCOP: a.4.1.1

Probab=99.67  E-value=9.8e-18  Score=109.90  Aligned_cols=55  Identities=44%  Similarity=0.625  Sum_probs=51.4

Q ss_pred             CCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        79 rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      ++.||.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+.
T Consensus         2 rr~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~   56 (60)
T 1jgg_A            2 RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIKVWFQNRRMKD   56 (60)
T ss_dssp             -CCCCCCCHHHHHHHHHHHHHCSCCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHCcCHHHHHHhhHHHHhHh
Confidence            5789999999999999999999999999999999999999999999999977554

>1b8i_A Ultrabithorax, protein (ultrabithorax homeotic protein IV); DNA binding, homeodomain, homeotic proteins, development, specificity; HET: DNA; 2.40A {Drosophila melanogaster} SCOP: a.4.1.1 PDB: 9ant_A*

Probab=99.67  E-value=1e-17  Score=116.30  Aligned_cols=61  Identities=52%  Similarity=0.680  Sum_probs=50.8

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccC
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEG  135 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~  135 (166)
                      .+..++.||.||..|+..|+..|..++||+...|..||..|||++++|+|||||+|.+...
T Consensus        17 ~~~~rr~Rt~ft~~Ql~~Le~~F~~~~yp~~~~r~~LA~~l~l~~~qV~vWFqNRR~k~kk   77 (81)
T 1b8i_A           17 NGLRRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQIKIWFQNRRMKLKK   77 (81)
T ss_dssp             -------CCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHT
T ss_pred             CCCCCCCCcccCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCHHHHHHHhHHhhhhhhh
Confidence            3456889999999999999999999999999999999999999999999999997765443

>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding protein; NMR {Rattus norvegicus} SCOP: a.4.1.1

Probab=99.67  E-value=1.3e-17  Score=112.05  Aligned_cols=56  Identities=29%  Similarity=0.455  Sum_probs=52.3

Q ss_pred             CCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         78 PRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        78 ~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      +++.|+.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+.
T Consensus         2 ~rr~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~LA~~l~l~~~qV~~WFqNRR~k~   57 (68)
T 1ftt_A            2 RRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNHRYKM   57 (68)
T ss_dssp             CSSSCSSCCHHHHHHHHHHHHHSSSCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCccCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCHHHhHHHhHHHhhhh
Confidence            47889999999999999999999999999999999999999999999999966443

>2k40_A Homeobox expressed in ES cells 1; thermostable homeodomain variant, DNA binding protein, developmental protein, disease mutation, DNA-binding; NMR {Homo sapiens}

Probab=99.66  E-value=1.3e-17  Score=111.50  Aligned_cols=59  Identities=25%  Similarity=0.261  Sum_probs=53.8

Q ss_pred             CCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccCC
Q psy16796         78 PRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEGE  136 (166)
Q Consensus        78 ~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~~  136 (166)
                      .|+.|+.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+....
T Consensus         1 ~rr~Rt~ft~~q~~~Le~~F~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~kr~   59 (67)
T 2k40_A            1 GRRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQIWFQNRRAKLKRS   59 (67)
T ss_dssp             CCCCSCCCCHHHHHHHHHHHTTCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHCS
T ss_pred             CcCCCCCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHCcCHHHhhHhhHhHHHHHhHh
Confidence            36789999999999999999999999999999999999999999999999976555443

>1fjl_A Paired protein; DNA-binding protein, paired BOX, transcription regulation; HET: DNA; 2.00A {Drosophila melanogaster} SCOP: a.4.1.1 PDB: 3a01_B

Probab=99.66  E-value=2e-17  Score=114.53  Aligned_cols=58  Identities=29%  Similarity=0.354  Sum_probs=53.2

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccc
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEE  132 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~k  132 (166)
                      .++.++.|+.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+
T Consensus        15 ~~~~rr~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~LA~~l~l~~~qV~~WFqNrR~k   72 (81)
T 1fjl_A           15 KRKQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQVWFQNRRAR   72 (81)
T ss_dssp             --CCCCCCCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHH
T ss_pred             cCCCCCCCCCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHCcCHHHHHHHHHHHhhh
Confidence            4567889999999999999999999999999999999999999999999999997743

>1b72_A Protein (homeobox protein HOX-B1); homeodomain, DNA, complex, DNA-binding protein, protein/DNA complex; HET: DNA; 2.35A {Homo sapiens} SCOP: a.4.1.1

Probab=99.66  E-value=1.7e-17  Score=118.70  Aligned_cols=58  Identities=53%  Similarity=0.803  Sum_probs=50.6

Q ss_pred             CCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        76 ~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      +.+++.||.||..|+..|+..|..++||+...|..||..|||++++|+|||||+|.+.
T Consensus        32 ~~~rr~Rt~ft~~Ql~~Le~~F~~~~yp~~~~r~~LA~~l~l~~~qV~vWFqNRR~k~   89 (97)
T 1b72_A           32 GSPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQVKIWFQNRRMKQ   89 (97)
T ss_dssp             -----CCCCCCHHHHHHHHHHHTTCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCcCcCHHHHHHHHHHHhccCCCCHHHHHHHHHHhCCCHHHhHHHHHHHhHHH
Confidence            5678889999999999999999999999999999999999999999999999977543

>1yz8_P Pituitary homeobox 2; DNA binding protein, transcription/DNA complex; NMR {Homo sapiens} SCOP: a.4.1.1 PDB: 2l7f_P 2lkx_A* 2l7m_P

Probab=99.66  E-value=7.4e-18  Score=113.17  Aligned_cols=56  Identities=34%  Similarity=0.398  Sum_probs=52.9

Q ss_pred             CCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccc
Q psy16796         77 LPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEE  132 (166)
Q Consensus        77 k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~k  132 (166)
                      ++++.|+.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+
T Consensus         2 ~~rr~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k   57 (68)
T 1yz8_P            2 SQRRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAK   57 (68)
T ss_dssp             CSSCSCCCCCHHHHHHHHHHHTTCSSCCTTTTTHHHHHTTSCHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHccCCCCHHHHHHHHHHHCcCHHHHHHHHHHHhHH
Confidence            56889999999999999999999999999999999999999999999999997644

>2da4_A Hypothetical protein DKFZP686K21156; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.66  E-value=7.6e-18  Score=116.45  Aligned_cols=59  Identities=15%  Similarity=0.168  Sum_probs=54.5

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhc----CCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFN----KYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~----~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      .+++++.||.||..|+..|+..|..+    +||+...+..||..|||++.+|+|||||+|.+.
T Consensus         5 ~~~~rr~Rt~ft~~Q~~~Le~~F~~~~~~~~yp~~~~r~~La~~lgL~~~qV~vWFqNrR~k~   67 (80)
T 2da4_A            5 SSGALQDRTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVRTWIGNRRRKY   67 (80)
T ss_dssp             CCCCCCSSCCCCHHHHHHHHHHHTTTTTCCSHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHhCCCCCCCcCHHHHHHHHHHhCCCHHHhhHhHHHHHHHH
Confidence            45678899999999999999999999    999999999999999999999999999966443

>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A {Drosophila melanogaster} PDB: 2r5z_A*

Probab=99.65  E-value=2.2e-17  Score=116.11  Aligned_cols=60  Identities=55%  Similarity=0.748  Sum_probs=51.2

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      .+..++.||.||..|+..|+..|..++||+...|..||..|||++++|+|||||+|.+..
T Consensus        25 ~~~~rr~Rt~ft~~Ql~~Le~~F~~~~yp~~~~r~~La~~l~l~~~qV~vWFqNRR~k~k   84 (88)
T 2r5y_A           25 NGETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWK   84 (88)
T ss_dssp             ------CCCCCCHHHHHHHHHHHTTCSSCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCCcCHHHHHHHHHHHhccCCCCHHHHHHHHHHhCcCHHHhhHHhHHHHHHhH
Confidence            345788999999999999999999999999999999999999999999999999775543

>3nar_A ZHX1, zinc fingers and homeoboxes protein 1; corepressor, homeodomain, structural genomics, oxford production facility, OPPF, transcription; 2.60A {Homo sapiens}

Probab=99.64  E-value=3.7e-17  Score=116.83  Aligned_cols=61  Identities=11%  Similarity=-0.024  Sum_probs=52.5

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccC
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEG  135 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~  135 (166)
                      ....++.|+.||..|+..|+..|..++||+...|..||..|||++++|+|||||+|.+.+.
T Consensus        22 ~~~~~r~Rt~ft~~Ql~~Le~~F~~~~yp~~~~r~~LA~~l~L~~~qV~vWFqNRR~k~kk   82 (96)
T 3nar_A           22 KSGSTGKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDIVSWFGDTRYAWKN   82 (96)
T ss_dssp             -----CCSSSSCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHTT
T ss_pred             CCCCCCCCccCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHhCCCHHHeeecchhhhhHhhh
Confidence            3445778999999999999999999999999999999999999999999999997765543

>2ly9_A Zinc fingers and homeoboxes protein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens}

Probab=99.63  E-value=7.3e-17  Score=109.76  Aligned_cols=59  Identities=17%  Similarity=0.153  Sum_probs=54.0

Q ss_pred             CCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccC
Q psy16796         77 LPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEG  135 (166)
Q Consensus        77 k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~  135 (166)
                      ..++.|+.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+...
T Consensus         5 ~~~~~Rt~ft~~Ql~~Le~~F~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~kk   63 (74)
T 2ly9_A            5 DSFGIRAKKTKEQLAELKVSYLKNQFPHDSEIIRLMKITGLTKGEIKKWFSDTRYNQRN   63 (74)
T ss_dssp             CCCCTTCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHTTT
T ss_pred             CCCCCCcCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHhCcCHHHeeeCChhHhHHHHh
Confidence            35778999999999999999999999999999999999999999999999997765443

>3a02_A Homeobox protein aristaless; homeodomain, developmental protein, DNA-binding, N gene regulation; 1.00A {Drosophila melanogaster} PDB: 3lnq_A 3cmy_A

Probab=99.63  E-value=4.1e-17  Score=106.93  Aligned_cols=54  Identities=28%  Similarity=0.276  Sum_probs=48.3

Q ss_pred             cccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         81 LRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        81 ~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      +|+.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+..
T Consensus         2 ~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~r   55 (60)
T 3a02_A            2 SHMTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWR   55 (60)
T ss_dssp             ---CCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHC
T ss_pred             CCcccCHHHHHHHHHHHHcCCCcCHHHHHHHHHHHCcCHHHHHHHhhhhhhhhH
Confidence            589999999999999999999999999999999999999999999999775543

>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein, KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.62  E-value=9.1e-17  Score=110.09  Aligned_cols=58  Identities=12%  Similarity=0.114  Sum_probs=52.8

Q ss_pred             CCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccC
Q psy16796         78 PRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEG  135 (166)
Q Consensus        78 ~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~  135 (166)
                      +.+.|+.||..|+..|+..|..++||+...|..||..|||++++|+|||||+|.+...
T Consensus         8 ~~~~R~~ft~~Ql~~Le~~F~~~~yp~~~~r~~La~~~~l~~~qV~~WFqNrR~k~kk   65 (76)
T 2dn0_A            8 ASIYKNKKSHEQLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRKWFSDRRYHCRN   65 (76)
T ss_dssp             CCCCCCCCCHHHHHHHHHHHHHSSSCCSHHHHHHHHHHCCCHHHHHHHHHHHHHHSSS
T ss_pred             CCCCCccCCHHHHHHHHHHHhcCCCcCHHHHHHHHHHhCCChHHhhHHhHHHhHHHHH
Confidence            4556899999999999999999999999999999999999999999999996655544

>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP: a.4.1.1

Probab=99.62  E-value=9.8e-17  Score=109.15  Aligned_cols=55  Identities=27%  Similarity=0.110  Sum_probs=50.9

Q ss_pred             CCcccCCCHHHHHHHHHHhhh-cCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         79 RRLRTAYTNTQLLELEKEFHF-NKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        79 rr~Rt~fT~~Ql~~Le~~F~~-~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      ++.|+.||..|+..|+..|.. ++||+...+..||..|||++++|+|||||+|.+.
T Consensus         3 ~k~Rt~ft~~Q~~~Le~~F~~~~~yp~~~~r~~LA~~~~l~~~qV~~WFqNRR~k~   58 (73)
T 2hi3_A            3 AQTVSGPTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEW   58 (73)
T ss_dssp             CSCCSSCCHHHHHHHHHHHHHTTSSCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence            567899999999999999995 9999999999999999999999999999977443

>1uhs_A HOP, homeodomain only protein; structural genomics, cardiac development, riken structural genomics/proteomics initiative, RSGI, transcription; NMR {Mus musculus} SCOP: a.4.1.1

Probab=99.62  E-value=9e-17  Score=108.94  Aligned_cols=55  Identities=27%  Similarity=0.108  Sum_probs=50.8

Q ss_pred             CCcccCCCHHHHHHHHHHhhh-cCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         79 RRLRTAYTNTQLLELEKEFHF-NKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        79 rr~Rt~fT~~Ql~~Le~~F~~-~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      .+.|+.||..|+..|+..|.. ++||+...+..||..|||++++|+|||||+|.+.
T Consensus         2 ~k~Rt~ft~~Q~~~Le~~F~~~~~yp~~~~r~~LA~~l~l~~~qV~~WFqNRR~k~   57 (72)
T 1uhs_A            2 SEGAATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEW   57 (72)
T ss_dssp             CCCCCCCCHHHHHHHHHHHHSSCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHH
T ss_pred             CCCCccCCHHHHHHHHHHHHccCCCCCHHHHHHHHHHHCcCHHHhhHHhHHHHHHH
Confidence            467899999999999999996 9999999999999999999999999999977443

>2da5_A Zinc fingers and homeoboxes protein 3; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.62  E-value=1.2e-16  Score=109.33  Aligned_cols=54  Identities=17%  Similarity=0.134  Sum_probs=49.8

Q ss_pred             CcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         80 RLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        80 r~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      +.|+.||..|+..|+..|..++||+...|..||..|||++++|+|||||+|.+.
T Consensus         9 ~kr~~~t~~Ql~~Le~~F~~~~yp~~~~r~~LA~~l~l~~~qV~~WFqNRR~k~   62 (75)
T 2da5_A            9 TKYKERAPEQLRALESSFAQNPLPLDEELDRLRSETKMTRREIDSWFSERRKKV   62 (75)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHCCCHHHHHHHHHHHTTHH
T ss_pred             CCCccCCHHHHHHHHHHHhccCCCCHHHHHHHHHHhCCCHHHhhHhhHHHHHHH
Confidence            456789999999999999999999999999999999999999999999976544

>2ecc_A Homeobox and leucine zipper protein homez; homeobox domain, transcription factor, leucine zipper- containing factor, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1

Probab=99.61  E-value=1.5e-16  Score=110.00  Aligned_cols=53  Identities=13%  Similarity=-0.010  Sum_probs=49.2

Q ss_pred             CcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccc
Q psy16796         80 RLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEE  132 (166)
Q Consensus        80 r~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~k  132 (166)
                      ..|+.||..|+..|+..|..++||+..+|..||..|||+++||+|||||+|.+
T Consensus         5 ~~r~kfT~~Ql~~Le~~F~~~~YPs~~er~~LA~~tgLte~qIkvWFqNrR~k   57 (76)
T 2ecc_A            5 SSGKRKTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQWFGDTRYA   57 (76)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHTCCCHHHHHHHHHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCcCHHHhhHHhHhhHHH
Confidence            34667999999999999999999999999999999999999999999997654

>1puf_B PRE-B-cell leukemia transcription factor-1; homeodomian, protein-DNA complex, HOX hexapeptide, TALE homeodomain, homeodomain interaction; 1.90A {Homo sapiens} SCOP: a.4.1.1 PDB: 1b8i_B* 2r5y_B* 2r5z_B*

Probab=99.61  E-value=9.1e-17  Score=109.09  Aligned_cols=59  Identities=19%  Similarity=0.168  Sum_probs=53.4

Q ss_pred             CCCcccCCCHHHHHHHHHHh---hhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccCC
Q psy16796         78 PRRLRTAYTNTQLLELEKEF---HFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEGE  136 (166)
Q Consensus        78 ~rr~Rt~fT~~Ql~~Le~~F---~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~~  136 (166)
                      +|+.|+.||..|+..|+..|   ..++||+...+..||..+||++.||+|||||+|.+....
T Consensus         1 ~rr~R~~ft~~q~~~Le~~f~~~~~~~yP~~~~r~~La~~~~L~~~qV~~WFqNrR~r~kk~   62 (73)
T 1puf_B            1 ARRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKN   62 (73)
T ss_dssp             CCCCCCCCCHHHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHC
T ss_pred             CCCCCCcCCHHHHHHHHHHHHHhccCCCcCHHHHHHHHHHHCcCHHHHHHHHHHHHhhcccc
Confidence            36789999999999999999   899999999999999999999999999999966554433

>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental protein, DNA-binding, N gene regulation; 1.54A {Homo sapiens}

Probab=99.61  E-value=7.8e-17  Score=104.38  Aligned_cols=51  Identities=29%  Similarity=0.475  Sum_probs=46.8

Q ss_pred             cCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         83 TAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        83 t~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      |.||..|+..|+..|..++||+...|..||..|||++++|+|||||+|.+.
T Consensus         2 T~ft~~Ql~~Le~~F~~~~yp~~~~r~~LA~~l~l~~~qV~~WFqNRR~k~   52 (56)
T 3a03_A            2 TSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQVKTWFQNRRTKW   52 (56)
T ss_dssp             --CCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHH
T ss_pred             CccCHHHHHHHHHHHHhcCCcCHHHHHHHHHHhCcCHHHhhHhhHHhhhhh
Confidence            689999999999999999999999999999999999999999999977553

>1du6_A PBX1, homeobox protein PBX1; homeodomain, gene regulation; NMR {Mus musculus} SCOP: a.4.1.1

Probab=99.61  E-value=1.7e-16  Score=105.08  Aligned_cols=57  Identities=14%  Similarity=0.028  Sum_probs=53.3

Q ss_pred             CCCcccCCCHHHHHHHHHHh---hhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         78 PRRLRTAYTNTQLLELEKEF---HFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        78 ~rr~Rt~fT~~Ql~~Le~~F---~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      +++.|+.||..|+..|+..|   ..++||+..++..||..|||++.||+|||||+|.+..
T Consensus         3 ~rr~R~~ft~~q~~~Le~~f~~~~~~~yp~~~~r~~La~~~~L~~~qV~~WFqNrR~r~k   62 (64)
T 1du6_A            3 GHIEGRHMNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYK   62 (64)
T ss_dssp             CCCCCCSSTTTHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHTSCHHHHHHHHHHHTTTSS
T ss_pred             CCCCCCcCCHHHHHHHHHHHHHcccCCCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHhc
Confidence            57789999999999999999   8999999999999999999999999999999776654

>1x2n_A Homeobox protein pknox1; homeobox domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.4.1.1

Probab=99.60  E-value=2.6e-16  Score=106.85  Aligned_cols=59  Identities=15%  Similarity=0.102  Sum_probs=53.4

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhh---cCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHF---NKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~---~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      .++.++.|+.|+..|+..|+..|..   ++||+..++..||..+||++.||+|||||+|.+.
T Consensus         4 ~~~~rr~R~~~~~~q~~~Le~~f~~~~~~~yp~~~~r~~La~~~~L~~~qV~~WFqNrR~r~   65 (73)
T 1x2n_A            4 GSSGKNKRGVLPKHATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQVNNWFINARRRI   65 (73)
T ss_dssp             CSSSCCSSCCCCHHHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCcCCHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHCcCHHHHHHHhHHHHhhc
Confidence            3456788999999999999999986   9999999999999999999999999999966543

>1au7_A Protein PIT-1, GHF-1; complex (DNA-binding protein/DNA), pituitary, CPHD, POU domain, transcription factor, transcription/DNA complex; HET: DNA; 2.30A {Rattus norvegicus} SCOP: a.4.1.1 a.35.1.1

Probab=99.59  E-value=3e-16  Score=120.13  Aligned_cols=60  Identities=18%  Similarity=0.209  Sum_probs=52.2

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      .+++||.||.||..|+..|+..|..++||+...|..||..|||++++|+|||||+|.+..
T Consensus        84 ~~~~rr~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~LA~~l~L~~~qV~vWFqNRR~k~k  143 (146)
T 1au7_A           84 NERKRKRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNLEKEVVRVWFCNRRQREK  143 (146)
T ss_dssp             -----CCCCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHTT
T ss_pred             CCCCCCCCcCccHHHHHHHHHHHHHcCCCCHHHHHHHHHHhCCChhhchhhhHhhhhhhh
Confidence            456788899999999999999999999999999999999999999999999999776544

>1lfb_A Liver transcription factor (LFB1); transcription regulation; 2.80A {Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A

Probab=99.59  E-value=2.5e-16  Score=113.76  Aligned_cols=63  Identities=17%  Similarity=0.120  Sum_probs=52.3

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHH------------------cC---CCCCCcccccccccccc
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAAS------------------LD---LTERQSDCKYYVAKEEE  133 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~------------------Lg---Lse~qVkVWFQN~k~ke  133 (166)
                      .++.||.|+.||..|+..|+..|..++||+...|..||..                  ||   |++.+|+|||||+|.++
T Consensus         6 ~~k~rr~Rt~ft~~Ql~~LE~~F~~~~yP~~~~R~eLA~~~n~~~~~~~g~~~~~~~~lg~~~lse~qV~vWFqNRR~k~   85 (99)
T 1lfb_A            6 TKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVSPSQAQGLGSNLVTEVRVYNWFANRRKEE   85 (99)
T ss_dssp             -------CCCCCHHHHHHHHHHHTTCSSCCHHHHHHHHHHHHHHHHTTTTCCTTCTTTTGGGCCCHHHHHHHHHHHHHTT
T ss_pred             CCCCCCCCcCcCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhccccccccccccccccccCccccCcceeeeccHHHHHHH
Confidence            3567889999999999999999999999999999999999                  98   99999999999988766


Q ss_pred             cCCc
Q psy16796        134 EGED  137 (166)
Q Consensus       134 ~~~~  137 (166)
                      +..-
T Consensus        86 k~k~   89 (99)
T 1lfb_A           86 AFRH   89 (99)
T ss_dssp             SCCC
T ss_pred             HHhc
Confidence            5543

>2cuf_A FLJ21616 protein; homeobox domain, hepatocyte transcription factor, structural genomics, loop insertion, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1

Probab=99.59  E-value=2.1e-16  Score=112.58  Aligned_cols=59  Identities=22%  Similarity=0.211  Sum_probs=54.6

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcC---------------CCCCCcccccccccccc
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLD---------------LTERQSDCKYYVAKEEE  133 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~Lg---------------Lse~qVkVWFQN~k~ke  133 (166)
                      .++++|.|+.||..|+..|+..|..++||+...|..||..|+               |++.+|+|||||+|.+.
T Consensus         4 ~~~~rr~R~~ft~~ql~~Le~~F~~~~yP~~~~r~~lA~~l~~~~~~~~~~~~~~~~ls~~qV~~WFqNRR~k~   77 (95)
T 2cuf_A            4 GSSGRGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLERVTSLKVYNWFANRRKEI   77 (95)
T ss_dssp             SSCCCCCSCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHHCCTTCCCCTTTCCCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCcCCHHHHHHHHHHHhcCCCCCHHHHHHHHHHHCchhhcccccccccCcCCHHHHHHHHHHHHHHH
Confidence            456788999999999999999999999999999999999999               99999999999977443

>1e3o_C Octamer-binding transcription factor 1; transcription factor, POU domain, dimer, DNA binding; 1.9A {Homo sapiens} SCOP: a.4.1.1 a.35.1.1 PDB: 1gt0_C 1hf0_A* 1cqt_A* 1o4x_A 1oct_C* 1pou_A 1pog_A 1hdp_A

Probab=99.58  E-value=3.5e-16  Score=121.29  Aligned_cols=59  Identities=20%  Similarity=0.205  Sum_probs=51.6

Q ss_pred             CCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        76 ~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      .++||.||.||..|+..|+..|..++||+...|..||..|||++++|+|||||+|.+.+
T Consensus        99 ~~~rr~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~LA~~l~L~~~qV~vWFqNRR~k~k  157 (160)
T 1e3o_C           99 SRRRKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEVIRVWFSNRRQKEK  157 (160)
T ss_dssp             -----CCCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHT
T ss_pred             CCCCcCccccCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHCCChHHhhHhhHHhhhhhh
Confidence            46788999999999999999999999999999999999999999999999999776654

>3d1n_I POU domain, class 6, transcription factor 1; protein-DNA complex, helix-turn-helix (HTH), DNA-binding, homeobox, nucleus, transcription regulation; 2.51A {Homo sapiens}

Probab=99.57  E-value=6.6e-16  Score=118.52  Aligned_cols=60  Identities=17%  Similarity=0.176  Sum_probs=55.5

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      .+++||.|+.||..|+..|+..|..++||+...|..||..|||++++|+|||||+|.+.+
T Consensus        90 ~~~~rr~Rt~ft~~q~~~Le~~F~~~~yp~~~~r~~LA~~l~L~~~qV~vWFqNrR~k~K  149 (151)
T 3d1n_I           90 PSKKRKRRTSFTPQAIEALNAYFEKNPLPTGQEITEMAKELNYDREVVRVWFSNRRQTLK  149 (151)
T ss_dssp             CCCCCCCCCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHT
T ss_pred             CCCCCCCCcccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHCCCHHHhHHHHHHHHhccC
Confidence            456788999999999999999999999999999999999999999999999999776543

>2e19_A Transcription factor 8; homeobox domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.57  E-value=5.3e-16  Score=103.57  Aligned_cols=53  Identities=13%  Similarity=0.020  Sum_probs=49.3

Q ss_pred             ccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         82 RTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        82 Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      +..++..|+..|+..|..++||+...|..||..|||++++|+|||||+|.|+.
T Consensus         7 ~~~p~~~Ql~~Le~~F~~~~yp~~~~r~~LA~~l~L~e~qVqvWFqNRRak~~   59 (64)
T 2e19_A            7 GQPPLKNLLSLLKAYYALNAQPSAEELSKIADSVNLPLDVVKKWFEKMQAGQI   59 (64)
T ss_dssp             CCCCCHHHHHHHHHHHTTCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHTCS
T ss_pred             CCCccHHHHHHHHHHHhcCCCcCHHHHHHHHHHhCcChhhcCcchhcccCCCC
Confidence            45567999999999999999999999999999999999999999999888765

>1b72_B Protein (PBX1); homeodomain, DNA, complex, DNA-binding protein, protein/DNA complex; HET: DNA; 2.35A {Homo sapiens} SCOP: a.4.1.1 PDB: 1lfu_P

Probab=99.57  E-value=5e-16  Score=108.65  Aligned_cols=59  Identities=19%  Similarity=0.145  Sum_probs=52.9

Q ss_pred             CCcccCCCHHHHHHHHHHh---hhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccCCc
Q psy16796         79 RRLRTAYTNTQLLELEKEF---HFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEGED  137 (166)
Q Consensus        79 rr~Rt~fT~~Ql~~Le~~F---~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~~~  137 (166)
                      |+.|+.||..|+..|+..|   ..++||+..++..||..|||++.||+|||||+|.+.....
T Consensus         2 rr~R~~ft~~q~~~Le~~f~~h~~~~yp~~~~r~~La~~~~l~~~qV~~WFqNrR~r~kk~~   63 (87)
T 1b72_B            2 RRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNI   63 (87)
T ss_dssp             -CCCCCCCHHHHHHHHHHHHTTTTSCCCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHCG
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHhhhcc
Confidence            6789999999999999999   8999999999999999999999999999999765554443

>2cqx_A LAG1 longevity assurance homolog 5; homeodomain, DNA binding domain, transcription, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.4.1.1

Probab=99.56  E-value=3e-16  Score=107.00  Aligned_cols=57  Identities=19%  Similarity=0.233  Sum_probs=51.6

Q ss_pred             CCCcccCCCHHHHHHHHHHh-hhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         78 PRRLRTAYTNTQLLELEKEF-HFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        78 ~rr~Rt~fT~~Ql~~Le~~F-~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      ..+.|.+++..|+..||..| ..++||+...|..||..|||+++||+|||||+|.+..
T Consensus         8 g~k~r~r~~~~ql~~LE~~F~~~~~yp~~~~r~~LA~~l~l~e~qVqvWFqNRR~k~r   65 (72)
T 2cqx_A            8 GIKDSPVNKVEPNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQCWFRHRRNQDK   65 (72)
T ss_dssp             CCCCCCCSCSCSTTHHHHHHHHTCSSCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHS
T ss_pred             CCCCCCCCCHHHHHHHHHHHHhcCCCcCHHHHHHHHHHhCCChhhcchhhhhcccCCC
Confidence            45567788999999999999 9999999999999999999999999999999776654

>2da6_A Hepatocyte nuclear factor 1-beta; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.56  E-value=7.7e-16  Score=111.81  Aligned_cols=59  Identities=17%  Similarity=0.130  Sum_probs=54.7

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHc---------------------CCCCCCcccccccccccc
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASL---------------------DLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~L---------------------gLse~qVkVWFQN~k~ke  133 (166)
                      .++.||.|+.|+..|+..|+..|..++||+...|..||..|                     +|++.+|+|||||+|.+.
T Consensus         3 ~~~~Rr~Rt~ft~~ql~~Le~~F~~~~yPs~~~Re~LA~~ln~~~c~q~g~~~~~~~GL~~~~lte~~V~~WFqNRR~k~   82 (102)
T 2da6_A            3 SGSSGRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSNLVTEVRVYNWFANRRKEE   82 (102)
T ss_dssp             TCCSCCCCCCCCHHHHHHHHHHHTTCSSCCHHHHHHHHHHHHHHHHHHTSCCTTCGGGGGGGCCCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCccCCHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHhhhcccccccchhcccccccccccceeeeecchHHHH
Confidence            45678899999999999999999999999999999999999                     799999999999988554

>2ecb_A Zinc fingers and homeoboxes protein 1; homeobox domain, transcription factor, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1

Probab=99.56  E-value=8.4e-16  Score=109.07  Aligned_cols=50  Identities=24%  Similarity=0.218  Sum_probs=47.1

Q ss_pred             CCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         84 AYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        84 ~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      .||..||..|+..|..++||+...|..||..|||+++||+|||||+|.+.
T Consensus        17 ~~t~~Ql~~Le~~F~~~~yp~~~~r~~LA~~lgLte~qVkvWFqNRR~k~   66 (89)
T 2ecb_A           17 EKTAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREIDAWFTEKKKSK   66 (89)
T ss_dssp             CCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHTCCCHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHhCcChHHCeecccccchHH
Confidence            79999999999999999999999999999999999999999999966443

>1mnm_C Protein (MAT alpha-2 transcriptional repressor); transcription regulation, transcriptional repression, DNA- binding protein; HET: DNA; 2.25A {Saccharomyces cerevisiae} SCOP: a.4.1.1

Probab=99.55  E-value=9.1e-16  Score=107.58  Aligned_cols=57  Identities=18%  Similarity=0.078  Sum_probs=52.7

Q ss_pred             CCCCcccCCCHHHHHHHHHHhhh---cCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         77 LPRRLRTAYTNTQLLELEKEFHF---NKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        77 k~rr~Rt~fT~~Ql~~Le~~F~~---~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      .+++.|+.||..|+..|+..|..   ++||+..++..||..+||++.||+|||||+|.+.
T Consensus        26 ~~~k~r~~ft~~q~~~Le~~f~~~~~~~yP~~~~r~~La~~~gL~~~qV~~WFqNrR~r~   85 (87)
T 1mnm_C           26 TKPYRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKE   85 (87)
T ss_dssp             SSCCTTCCCCHHHHHHHHHHHHHTTSSCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCcCCHHHHHHHHHHHHHhCCCCCcCHHHHHHHHHHHCcCHHHHHHHHHHHHhhc
Confidence            35666999999999999999999   9999999999999999999999999999977654

>2dmn_A Homeobox protein TGIF2LX; TGFB-induced factor 2-like protein, X-linked TGF(beta) induced transcription factor 2-like protein, TGIF-like on the X; NMR {Homo sapiens}

Probab=99.55  E-value=1.1e-15  Score=106.63  Aligned_cols=59  Identities=8%  Similarity=0.043  Sum_probs=53.1

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhh---cCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHF---NKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~---~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      ..+.++.|+.|+..|+..|+..|..   ++||+..+|..||..+||++.||+|||||+|.+.
T Consensus         4 ~~~~rk~R~~~s~~q~~~L~~~f~~~~~~pYPs~~~r~~LA~~~gLs~~qV~~WFqNrR~r~   65 (83)
T 2dmn_A            4 GSSGKKRKGNLPAESVKILRDWMYKHRFKAYPSEEEKQMLSEKTNLSLLQISNWFINARRRI   65 (83)
T ss_dssp             CCCCCCCCSSCCHHHHHHHHHHHHHTTTTCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHT
T ss_pred             CCCCCCCCCcCCHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHCcCHHHhhHHhhhhHhhh
Confidence            3456788999999999999999987   6999999999999999999999999999976554

>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA complex, SOX; 2.05A {Mus musculus}

Probab=99.55  E-value=6.1e-16  Score=120.59  Aligned_cols=61  Identities=20%  Similarity=0.147  Sum_probs=47.4

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccC
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEG  135 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~  135 (166)
                      .+++||.||.||..|+..|+..|..++||+...|..||..|||++++|+|||||+|.|...
T Consensus        96 ~~~~rr~Rt~ft~~Ql~~LE~~F~~~~yp~~~~r~~LA~~l~L~~~qV~vWFqNRR~k~kr  156 (164)
T 2xsd_C           96 QGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEKEVVRVWFCNRRQKEKR  156 (164)
T ss_dssp             ----------CCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTB
T ss_pred             cccCCCCceeccHHHHHHHHHHHhcCCCCCHHHHHHHHHHHCCChhhhhhhhHHhhHHHhh
Confidence            4567889999999999999999999999999999999999999999999999996654443

>1k61_A Mating-type protein alpha-2; protein-DNA complex, homeodomain, hoogsteen base PAIR, transcription/DNA complex; HET: 5IU; 2.10A {Synthetic} SCOP: a.4.1.1

Probab=99.54  E-value=1.2e-15  Score=99.82  Aligned_cols=52  Identities=19%  Similarity=0.129  Sum_probs=49.2

Q ss_pred             ccCCCHHHHHHHHHHhhh---cCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         82 RTAYTNTQLLELEKEFHF---NKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        82 Rt~fT~~Ql~~Le~~F~~---~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      |+.||..|+..|+..|..   ++||+..++..||..+||++.||++||||+|.+.
T Consensus         2 r~~ft~~q~~~Le~~f~~~~~~~yp~~~~r~~La~~~gl~~~qV~~WFqNrR~r~   56 (60)
T 1k61_A            2 GHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKE   56 (60)
T ss_dssp             CCSCCHHHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
T ss_pred             cCcCCHHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHCcCHHHHHHHHHHHHccc
Confidence            689999999999999999   9999999999999999999999999999977554

>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens}

Probab=99.54  E-value=1.3e-15  Score=103.33  Aligned_cols=55  Identities=31%  Similarity=0.508  Sum_probs=49.8

Q ss_pred             ccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccCC
Q psy16796         82 RTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEGE  136 (166)
Q Consensus        82 Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~~  136 (166)
                      -..+|..|+..|+..|..++||+...|..||..|||++++|+|||||+|.+....
T Consensus         8 ~~~~t~~ql~~LE~~F~~~~yp~~~~r~~LA~~l~Lte~qVqvWFqNRRak~kr~   62 (69)
T 2l9r_A            8 HSHMSHTQVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRK   62 (69)
T ss_dssp             CCCCCHHHHHHHHHHHHHCSCCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHSCCS
T ss_pred             CCcCCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCChhheeecchhhhhhhhhh
Confidence            3578999999999999999999999999999999999999999999976655443

>2d5v_A Hepatocyte nuclear factor 6; transcription factor, transcription-DNA complex; 2.00A {Rattus norvegicus} PDB: 1s7e_A

Probab=99.54  E-value=1.5e-15  Score=117.69  Aligned_cols=61  Identities=21%  Similarity=0.251  Sum_probs=51.7

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccC
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEG  135 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~  135 (166)
                      ..++||.|+.||..|+..|+..|..++||+...|..||..|||++++|+|||||+|.+.+.
T Consensus        94 ~~~~rr~Rt~ft~~q~~~Le~~F~~~~yp~~~~r~~la~~l~L~~~qV~~WFqNrR~r~k~  154 (164)
T 2d5v_A           94 GNTPKKPRLVFTDVQRRTLHAIFKENKRPSKELQITISQQLGLELSTVSNFFMNARRRSLD  154 (164)
T ss_dssp             ------CCCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHTSSC
T ss_pred             CCCCCCCCCcCCHHHHHHHHHHHhcCCCCCHHHHHHHHHHHCcCHHHhhhcChhhhccccc
Confidence            4467889999999999999999999999999999999999999999999999996665543

>2dmp_A Zinc fingers and homeoboxes protein 2; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.53  E-value=2.2e-15  Score=106.40  Aligned_cols=54  Identities=15%  Similarity=0.166  Sum_probs=49.2

Q ss_pred             cCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccCC
Q psy16796         83 TAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEGE  136 (166)
Q Consensus        83 t~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~~  136 (166)
                      ..||..||..|+..|..++||+...|..||..|||++++|+|||||+|.|....
T Consensus        18 k~~t~~Ql~~Le~~F~~~~yp~~~~r~~La~~~~l~~~qV~vWFqNRR~k~r~~   71 (89)
T 2dmp_A           18 KEKTQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDSWFSERRKLRDSM   71 (89)
T ss_dssp             CCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHTS
T ss_pred             ccCCHHHHHHHHHHHccCCCCCHHHHHHHHHHhCCCHHhccHhhHhHHHHHHHH
Confidence            349999999999999999999999999999999999999999999977665443

>3l1p_A POU domain, class 5, transcription factor 1; POU, transcription factor DNA complex, pore, stem cells; HET: DNA; 2.80A {Mus musculus} PDB: 1ocp_A

Probab=99.53  E-value=1.4e-15  Score=117.34  Aligned_cols=59  Identities=19%  Similarity=0.140  Sum_probs=54.8

Q ss_pred             CCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        76 ~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      ++++|.||.||..|+..|+..|..++||+...|..||..|||++++|+|||||+|.+.+
T Consensus        94 ~~~rr~Rt~ft~~Q~~~Le~~F~~~~yps~~~r~~LA~~l~L~~~qV~vWFqNRR~k~K  152 (155)
T 3l1p_A           94 QARKRKRTSIENRVRWSLETMFLKSPKPSLQQITHIANQLGLEKDVVRVWFSNRRQKGK  152 (155)
T ss_dssp             CCSCCCCCCCCHHHHHHHHTTTTTCSCCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             cCCCCCCcccCHHHHHHHHHHHccCCCCCHHHHHHHHHHcCCChhheeecccccccccc
Confidence            46778899999999999999999999999999999999999999999999999876543

>1le8_B Mating-type protein alpha-2; matalpha2, isothermal titration calorimetry, protein-DNA complex, transcription/DNA complex; 2.30A {Saccharomyces cerevisiae} SCOP: a.4.1.1 PDB: 1akh_B* 1apl_C* 1yrn_B*

Probab=99.52  E-value=2.4e-15  Score=104.73  Aligned_cols=56  Identities=18%  Similarity=0.106  Sum_probs=50.0

Q ss_pred             CcccCCCHHHHHHHHHHhhh---cCCCCHHHHHHHHHHcCCCCCCcccccccccccccC
Q psy16796         80 RLRTAYTNTQLLELEKEFHF---NKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEG  135 (166)
Q Consensus        80 r~Rt~fT~~Ql~~Le~~F~~---~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~  135 (166)
                      +.|++||..|+..|+..|..   ++||+...+..||..+||++.||+|||||+|.+...
T Consensus         4 krr~rft~~q~~~Le~~f~~h~~~~yP~~~~r~~La~~~gLt~~qV~~WFqNrR~r~kk   62 (83)
T 1le8_B            4 YRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVAARRAKEKT   62 (83)
T ss_dssp             -CCCCCCHHHHHHHHHHHHHTSSSCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHTT
T ss_pred             CCCCCCCHHHHHHHHHHHHhhCCCCCcCHHHHHHHHHHHCCCHHHcccccHHHHccccc
Confidence            34667999999999999999   999999999999999999999999999996655444

>3nau_A Zinc fingers and homeoboxes protein 2; ZHX2, corepressor, homeodomain, domain swapping, structural oxford protein production facility, OPPF; 2.70A {Homo sapiens}

Probab=99.51  E-value=2.7e-15  Score=100.98  Aligned_cols=47  Identities=11%  Similarity=0.102  Sum_probs=44.7

Q ss_pred             CHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccc
Q psy16796         86 TNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEE  132 (166)
Q Consensus        86 T~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~k  132 (166)
                      |..|+..|+..|..++||+..+|..||..|||++++|+|||||+|.+
T Consensus        12 ~~~Ql~~LE~~F~~~~YPs~~er~eLA~~tgLt~~qVkvWFqNRR~k   58 (66)
T 3nau_A           12 TKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKKWFSDHRYR   58 (66)
T ss_dssp             CHHHHHHHHHHHHGGGSCCHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhcCCCCCHHHHHHHHHHhCcCHHHhhHhcccchhh
Confidence            68999999999999999999999999999999999999999997743

>1x2m_A LAG1 longevity assurance homolog 6; homeobox domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: a.4.1.1

Probab=99.49  E-value=3.3e-15  Score=100.06  Aligned_cols=48  Identities=21%  Similarity=0.161  Sum_probs=43.5

Q ss_pred             HHHHHHHHHHh-hhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         87 NTQLLELEKEF-HFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        87 ~~Ql~~Le~~F-~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      ..|+..||..| ..++||+...|..||..|||+++||+|||||+|.+.+
T Consensus         9 ~~~~~~LE~~F~~~~~yp~~~~r~~LA~~l~LterQVkvWFqNRR~k~k   57 (64)
T 1x2m_A            9 AQPNAILEKVFTAITKHPDEKRLEGLSKQLDWDVRSIQRWFRQRRNQEK   57 (64)
T ss_dssp             SCHHHHHHHHHHTTCSSCCHHHHHHHHHHHCSCHHHHHHHHHHHHHHSC
T ss_pred             chHHHHHHHHHHHcCCCcCHHHHHHHHHHhCCCHHHHHHHHHHHHhccC
Confidence            34799999999 6799999999999999999999999999999876654

>1ic8_A Hepatocyte nuclear factor 1-alpha; transcription regulation, DNA-binding, POU domain, diabetes, disease mutation, MODY3, transcription/DNA comple; 2.60A {Homo sapiens} SCOP: a.4.1.1 a.35.1.1

Probab=99.40  E-value=1.6e-14  Score=115.60  Aligned_cols=60  Identities=17%  Similarity=0.131  Sum_probs=52.6

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcC---------------------CCCCCcccccccccccc
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLD---------------------LTERQSDCKYYVAKEEE  133 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~Lg---------------------Lse~qVkVWFQN~k~ke  133 (166)
                      .++.||.|+.|+..|+..|+..|..++||+...|..||..++                     |++.+|+|||||+|.+.
T Consensus       112 ~~k~rr~R~~ft~~ql~~Le~~F~~~~yp~~~~Re~la~~~~~~~~~~~G~~~~~~~glg~~~lte~~V~~WFqNRR~~~  191 (194)
T 1ic8_A          112 TKKGRRNRFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVSPSQAQGLGSNLVTEVRVYNWFANRRKEE  191 (194)
T ss_dssp             -----CCCCCCCHHHHHHHHHHHHHHCCCCTTTTHHHHHHHHHHHHHHSSCCCTTCCTTGGGCCCHHHHHHHHHHHHHHC
T ss_pred             cccCCCCCcccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHhCchhhccccccccccccccccccCccccchhchhhhhhh
Confidence            456789999999999999999999999999999999999999                     99999999999988765


Q ss_pred             c
Q psy16796        134 E  134 (166)
Q Consensus       134 ~  134 (166)
                      +
T Consensus       192 k  192 (194)
T 1ic8_A          192 A  192 (194)
T ss_dssp             C
T ss_pred             h
Confidence            4

>3k2a_A Homeobox protein MEIS2; homeobox domain, DNA-binding, transcription, nucleus, phosphoprotein, DNA bindi protein; 1.95A {Homo sapiens} SCOP: a.4.1.1

Probab=99.36  E-value=1.1e-13  Score=92.76  Aligned_cols=53  Identities=11%  Similarity=0.078  Sum_probs=46.7

Q ss_pred             cCCCHHHHHHHHHHhh---hcCCCCHHHHHHHHHHcCCCCCCcccccccccccccC
Q psy16796         83 TAYTNTQLLELEKEFH---FNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEG  135 (166)
Q Consensus        83 t~fT~~Ql~~Le~~F~---~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~  135 (166)
                      ..|+..|+..|+..|.   .++||+..++..||..+||++.||++||||+|.+...
T Consensus         3 g~f~~~~~~~L~~~f~~h~~~pyp~~~~r~~La~~~~l~~~qV~~WFqNrR~r~kk   58 (67)
T 3k2a_A            3 GIFPKVATNIMRAWLFQHLTHPYPSEEQKKQLAQDTGLTILQVNNWFINARRRIVQ   58 (67)
T ss_dssp             ---CHHHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHS
T ss_pred             CcCCHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHhCcCHHHhhhhhHHHHHHHhH
Confidence            3799999999999999   9999999999999999999999999999997765543

>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo, protein-DNA, human disease; 3.20A {Homo sapiens}

Probab=99.35  E-value=1.5e-13  Score=111.75  Aligned_cols=60  Identities=18%  Similarity=0.153  Sum_probs=52.9

Q ss_pred             cCCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcC---------------------CCCCCccccccccccc
Q psy16796         74 KNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLD---------------------LTERQSDCKYYVAKEE  132 (166)
Q Consensus        74 ~~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~Lg---------------------Lse~qVkVWFQN~k~k  132 (166)
                      ..++.||.|+.|+..|+..|+..|..++||+..+|..||..+|                     |++.+|+|||||+|.+
T Consensus       138 ~~~k~RR~R~~ft~~ql~~Le~~F~~~~YP~~~~ReeLA~~~n~~~~~~rg~~~~~~~~L~~~~lte~~V~~WFqNRR~~  217 (221)
T 2h8r_A          138 TNKKMRRNRFKWGPASQQILYQAYDRQKNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSNLVTEVRVYNWFANRRKE  217 (221)
T ss_dssp             ----CCCCCCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHHHHHTTCCSTTGGGGTTSCCCHHHHHHHHHHHHTT
T ss_pred             ccCCCCCCCcCCCHHHHHHHHHHHHcCCCCCHHHHHHHHHHHChhhhcccccccchhccccccccCHHHHHHHhHHhhhh
Confidence            4567889999999999999999999999999999999999987                     8999999999998866


Q ss_pred             c
Q psy16796        133 E  133 (166)
Q Consensus       133 e  133 (166)
                      +
T Consensus       218 ~  218 (221)
T 2h8r_A          218 E  218 (221)
T ss_dssp             C
T ss_pred             h
Confidence            5

>2da7_A Zinc finger homeobox protein 1B; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.26  E-value=8.6e-13  Score=89.58  Aligned_cols=45  Identities=11%  Similarity=0.085  Sum_probs=43.1

Q ss_pred             HHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccc
Q psy16796         87 NTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKE  131 (166)
Q Consensus        87 ~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~  131 (166)
                      ..|+..|+.+|..|++|+..++..||..+||+.++|+|||||+|.
T Consensus        14 k~ql~~Lk~yF~~n~~Ps~eei~~LA~~lgL~~~VVrVWFqNrRa   58 (71)
T 2da7_A           14 KDHMSVLKAYYAMNMEPNSDELLKISIAVGLPQEFVKEWFEQRKV   58 (71)
T ss_dssp             THHHHHHHHHHHHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCHHHHHHHHhhccc
Confidence            578999999999999999999999999999999999999999874

>1mh3_A Maltose binding-A1 homeodomain protein chimera; MATA1, binding cooperativity, maltose binding protein, MBP, sugar binding, DNA binding protein; 2.10A {Escherichia coli} SCOP: a.4.1.1 c.94.1.1 PDB: 1mh4_A 1le8_A

Probab=99.19  E-value=2.5e-12  Score=109.33  Aligned_cols=55  Identities=16%  Similarity=0.109  Sum_probs=51.7

Q ss_pred             CCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        79 rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      ++.++.|+..|+..|+..|+.++||+...|..||..+||+++||+|||||+|.|.
T Consensus       366 ~~~~~~~~~~q~~~Le~~f~~~~yp~~~~~~~la~~~~l~~~qv~~wf~n~r~~~  420 (421)
T 1mh3_A          366 TAAAAAISPQARAFLEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRS  420 (421)
T ss_dssp             HHHHCSSCHHHHHHHHHHHHHCSCCCHHHHHHHHHHHTSCHHHHHHHHHHHHCCC
T ss_pred             hhhhhhhcchHHHHHHHHHhcCCCcCHHHHHHHHHHHCcCHHHhhHhhhhccccc
Confidence            4568899999999999999999999999999999999999999999999988764

>2lk2_A Homeobox protein TGIF1; NESG, structural genomics, northeast structural genomics CON PSI-biology, transcription; NMR {Homo sapiens}

Probab=99.01  E-value=6.9e-11  Score=83.72  Aligned_cols=51  Identities=12%  Similarity=0.051  Sum_probs=46.6

Q ss_pred             cCCCHHHHHHHHHHhhh---cCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         83 TAYTNTQLLELEKEFHF---NKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        83 t~fT~~Ql~~Le~~F~~---~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      ..|+..++..|..-|..   ++||+..+|..||..+||++.||++||||+|.+.
T Consensus        10 ~~l~~~~~~iL~~W~~~h~~npYPs~~ek~~LA~~tgLt~~QV~~WF~NrR~R~   63 (89)
T 2lk2_A           10 HMLPKESVQILRDWLYEHRYNAYPSEQEKALLSQQTHLSTLQVCNWFINARRRL   63 (89)
T ss_dssp             CCCCHHHHHHHHHHHHHTSGGGSCCHHHHHHHHHHSSSCHHHHHHHHHHHHHHH
T ss_pred             ccCCHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHh
Confidence            46889999999999987   9999999999999999999999999999976544

>2nzz_A Penetratin conjugated GAS (374-394) peptide; conformational analysis, G protein, GAS subunit, A2A adenosine receptor, cell-penetrating peptides; NMR {Synthetic} PDB: 2o00_A

Probab=97.86  E-value=2.6e-06  Score=50.79  Aligned_cols=20  Identities=10%  Similarity=-0.092  Sum_probs=14.9

Q ss_pred             CCcccccccccccccCCchh
Q psy16796        120 RQSDCKYYVAKEEEEGEDEE  139 (166)
Q Consensus       120 ~qVkVWFQN~k~ke~~~~~~  139 (166)
                      +||+|||||+|.|-+...-+
T Consensus         1 rQVkIWFQNRRaK~Kk~~~~   20 (37)
T 2nzz_A            1 RQIKIWFQNRRMKWKKRVFN   20 (37)
T ss_dssp             CCTTTTTTCSHHHHTSSHHH
T ss_pred             CCceeccHHHHHHHHHHhHH
Confidence            58999999977666555444

>2ys9_A Homeobox and leucine zipper protein homez; homeodomain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=90.17  E-value=0.087  Score=35.24  Aligned_cols=40  Identities=13%  Similarity=0.094  Sum_probs=36.6

Q ss_pred             HHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccc
Q psy16796         89 QLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYV  128 (166)
Q Consensus        89 Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN  128 (166)
                      -...|+.+|...+.+.......|+.+.+|+..||+-||--
T Consensus        17 ~~e~L~~Yy~~hk~L~EeDl~~L~~kskms~qqvkdwFa~   56 (70)
T 2ys9_A           17 DIQPLERYWAAHQQLRETDIPQLSQASRLSTQQVLDWFDS   56 (70)
T ss_dssp             CCHHHHHHHHHTCCCCTTHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             cchHHHHHHHHhcccchhhHHHHHHHhCCCHHHHHHHHHh
Confidence            3578999999999999999999999999999999999943

---

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	166
d1b72a_	88	a.4.1.1 (A:) Homeobox protein hox-b1 {Human (Homo	9e-10
d1pufa_	77	a.4.1.1 (A:) Homeobox protein hox-a9 {Mouse (Mus m	4e-09
d2cuea1	68	a.4.1.1 (A:7-74) Paired box protein pax6 {Human (H	5e-09
d9anta_	56	a.4.1.1 (A:) Antennapedia Homeodomain {Drosophila	1e-08
d2e1oa1	57	a.4.1.1 (A:8-64) Homeobox protein prh {Human (Homo	3e-08
d1p7ia_	53	a.4.1.1 (A:) Engrailed Homeodomain {Drosophila mel	6e-08
d2craa1	58	a.4.1.1 (A:7-64) Homeobox protein hox-b13 {Human (	1e-07
d1ig7a_	58	a.4.1.1 (A:) Msx-1 homeodomain {Mouse (Mus musculu	2e-07
d1fjla_	65	a.4.1.1 (A:) Paired protein {Fruit fly (Drosophila	2e-07
d2cufa1	82	a.4.1.1 (A:8-89) Homeobox-containing protein 1, HM	3e-07
d1s7ea1	50	a.4.1.1 (A:103-152) Hepatocyte nuclear factor 6 {M	4e-07
d1jgga_	57	a.4.1.1 (A:) Even-skipped homeodomain {Fruit fly (	5e-07
d1bw5a_	66	a.4.1.1 (A:) Insulin gene enhancer protein isl-1 {	8e-07
d1yz8p1	60	a.4.1.1 (P:1-60) Pituitary homeobox 2 {Human (Homo	9e-07
d1zq3p1	67	a.4.1.1 (P:2-68) Homeotic bicoid protein {Fruit fl	2e-06
d1vnda_	77	a.4.1.1 (A:) VND/NK-2 protein {Fruit fly (Drosophi	1e-05
d1x2na1	62	a.4.1.1 (A:6-67) Homeobox protein pknox1 {Human (H	2e-05
d1le8a_	53	a.4.1.1 (A:) Mating type protein A1 Homeodomain {B	2e-05
d1au7a1	58	a.4.1.1 (A:103-160) Pit-1 POU homeodomain {Rat (Ra	3e-05
d1ftta_	68	a.4.1.1 (A:) Thyroid transcription factor 1 homeod	5e-05
d1ocpa_	67	a.4.1.1 (A:) Oct-3 POU Homeodomain {Mouse (Mus mus	9e-05
d1e3oc1	57	a.4.1.1 (C:104-160) Oct-1 POU Homeodomain {Human (	1e-04
d1wi3a_	71	a.4.1.1 (A:) DNA-binding protein SATB2 {Human (Hom	1e-04
d1x2ma1	52	a.4.1.1 (A:8-59) Lag1 longevity assurance homolog	4e-04
d1pufb_	73	a.4.1.1 (B:) pbx1 {Human (Homo sapiens) [TaxId: 96	6e-04
d1uhsa_	72	a.4.1.1 (A:) Homeodomain-only protein, Hop {Mouse	7e-04
d1k61a_	60	a.4.1.1 (A:) mat alpha2 Homeodomain {Baker's yeast	8e-04
d2cqxa1	59	a.4.1.1 (A:8-66) LAG1 longevity assurance homolog	0.002

>d1b72a_ a.4.1.1 (A:) Homeobox protein hox-b1 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Homeobox protein hox-b1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 50.8 bits (121), Expect = 9e-10
 Identities = 34/64 (53%), Positives = 40/64 (62%)

Query: 58  MNERKENINKKKEEEKKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDL 117
           M  ++      K  E   G P  LRT +T  QL ELEKEFHFNKYL R RR+EIAA+L+L
Sbjct: 7   MKVKRNPPKTAKVSEPGLGSPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLEL 66

Query: 118 TERQ 121
            E Q
Sbjct: 67  NETQ 70

>d1pufa_ a.4.1.1 (A:) Homeobox protein hox-a9 {Mouse (Mus musculus) [TaxId: 10090]} Length = 77

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Homeobox protein hox-a9
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 48.7 bits (116), Expect = 4e-09
 Identities = 27/44 (61%), Positives = 30/44 (68%)

Query: 78  PRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
            R+ R  YT  Q LELEKEF FN YL R RR E+A  L+LTERQ
Sbjct: 13  TRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQ 56

>d2cuea1 a.4.1.1 (A:7-74) Paired box protein pax6 {Human (Homo sapiens) [TaxId: 9606]} Length = 68

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Paired box protein pax6
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.2 bits (115), Expect = 5e-09
 Identities = 17/43 (39%), Positives = 24/43 (55%)

Query: 79  RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           +R RT++T  Q+  LEKEF    Y     R  +AA +DL E +
Sbjct: 2   QRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEAR 44

>d9anta_ a.4.1.1 (A:) Antennapedia Homeodomain {Drosophila melanogaster [TaxId: 7227]} Length = 56

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Antennapedia Homeodomain
species: Drosophila melanogaster [TaxId: 7227]

 Score = 46.7 bits (111), Expect = 1e-08
 Identities = 29/40 (72%), Positives = 31/40 (77%)

Query: 82  RTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           R  YT  Q LELEKEFHFN+YL R RRIEIA +L LTERQ
Sbjct: 1   RQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQ 40

>d2e1oa1 a.4.1.1 (A:8-64) Homeobox protein prh {Human (Homo sapiens) [TaxId: 9606]} Length = 57

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Homeobox protein prh
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.0 bits (109), Expect = 3e-08
 Identities = 18/43 (41%), Positives = 26/43 (60%)

Query: 79  RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           +  +  ++N Q +ELEK+F   KYL  P R  +A  L L+ERQ
Sbjct: 1   KGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQ 43

>d1p7ia_ a.4.1.1 (A:) Engrailed Homeodomain {Drosophila melanogaster [TaxId: 7227]} Length = 53

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Engrailed Homeodomain
species: Drosophila melanogaster [TaxId: 7227]

 Score = 44.9 bits (106), Expect = 6e-08
 Identities = 18/42 (42%), Positives = 29/42 (69%)

Query: 80  RLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           R RTA+++ QL  L++EF+ N+YL   RR ++++ L L E Q
Sbjct: 1   RPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQ 42

>d2craa1 a.4.1.1 (A:7-64) Homeobox protein hox-b13 {Human (Homo sapiens) [TaxId: 9606]} Length = 58

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Homeobox protein hox-b13
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.1 bits (104), Expect = 1e-07
 Identities = 18/43 (41%), Positives = 30/43 (69%)

Query: 79  RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           R+ R  Y+  QL ELE+E+  NK++ + +R +I+A+  L+ERQ
Sbjct: 2   RKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQ 44

>d1ig7a_ a.4.1.1 (A:) Msx-1 homeodomain {Mouse (Mus musculus) [TaxId: 10090]} Length = 58

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Msx-1 homeodomain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 43.8 bits (103), Expect = 2e-07
 Identities = 20/43 (46%), Positives = 27/43 (62%)

Query: 79  RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           R+ RT +T  QLL LE++F   +YL    R E ++SL LTE Q
Sbjct: 1   RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQ 43

>d1fjla_ a.4.1.1 (A:) Paired protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 65

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Paired protein
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score = 43.7 bits (103), Expect = 2e-07
 Identities = 17/44 (38%), Positives = 25/44 (56%)

Query: 78  PRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
            RR RT ++ +QL ELE+ F   +Y     R E+A   +LTE +
Sbjct: 2   QRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEAR 45

>d2cufa1 a.4.1.1 (A:8-89) Homeobox-containing protein 1, HMBOX1 (Flj21616) {Human (Homo sapiens) [TaxId: 9606]} Length = 82

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Homeobox-containing protein 1, HMBOX1 (Flj21616)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.9 bits (103), Expect = 3e-07
 Identities = 12/47 (25%), Positives = 21/47 (44%)

Query: 79  RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCK 125
           R  R  +    L  +E  F+ N+Y    +R EIA + +   ++   K
Sbjct: 1   RGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKK 47

>d1s7ea1 a.4.1.1 (A:103-152) Hepatocyte nuclear factor 6 {Mouse (Mus musculus) [TaxId: 10090]} Length = 50

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Hepatocyte nuclear factor 6
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 42.5 bits (100), Expect = 4e-07
 Identities = 11/40 (27%), Positives = 16/40 (40%)

Query: 82  RTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           R  +T+ Q   L   F  NK   +  +I I+  L L    
Sbjct: 2   RLVFTDVQRRTLHAIFKENKRPSKELQITISQQLGLELST 41

>d1jgga_ a.4.1.1 (A:) Even-skipped homeodomain {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 57

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Even-skipped homeodomain
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score = 42.6 bits (100), Expect = 5e-07
 Identities = 23/42 (54%), Positives = 28/42 (66%)

Query: 80  RLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           R RTA+T  QL  LEKEF+   Y+ RPRR E+AA L+L E  
Sbjct: 1   RYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPEST 42

>d1bw5a_ a.4.1.1 (A:) Insulin gene enhancer protein isl-1 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 66

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Insulin gene enhancer protein isl-1
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 42.1 bits (99), Expect = 8e-07
 Identities = 9/44 (20%), Positives = 15/44 (34%)

Query: 78  PRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
             R+RT     QL  L   +  N       + ++     L+ R 
Sbjct: 3   TTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRV 46

>d1yz8p1 a.4.1.1 (P:1-60) Pituitary homeobox 2 {Human (Homo sapiens) [TaxId: 9606]} Length = 60

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Pituitary homeobox 2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.9 bits (98), Expect = 9e-07
 Identities = 19/43 (44%), Positives = 25/43 (58%)

Query: 79  RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           RR RT +T+ QL +LE  F  N+Y     R EIA   +LTE +
Sbjct: 2   RRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEAR 44

>d1zq3p1 a.4.1.1 (P:2-68) Homeotic bicoid protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 67

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Homeotic bicoid protein
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score = 41.1 bits (96), Expect = 2e-06
 Identities = 19/44 (43%), Positives = 28/44 (63%)

Query: 78  PRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           PRR RT +T++Q+ ELE+ F   +YL  PR  +++A L L   Q
Sbjct: 1   PRRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQ 44

>d1vnda_ a.4.1.1 (A:) VND/NK-2 protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 77

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: VND/NK-2 protein
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score = 39.6 bits (92), Expect = 1e-05
 Identities = 16/44 (36%), Positives = 23/44 (52%)

Query: 78  PRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
            R+ R  +T  Q  ELE+ F   +YL  P R  +A+ + LT  Q
Sbjct: 9   KRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQ 52

>d1x2na1 a.4.1.1 (A:6-67) Homeobox protein pknox1 {Human (Homo sapiens) [TaxId: 9606]} Length = 62

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Homeobox protein pknox1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.6 bits (90), Expect = 2e-05
 Identities = 8/46 (17%), Positives = 14/46 (30%), Gaps = 3/46 (6%)

Query: 79  RRLRTAYTNTQLLELEKEF---HFNKYLCRPRRIEIAASLDLTERQ 121
           +  R          +         + Y     + +IAA  +LT  Q
Sbjct: 3   KNKRGVLPKHATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQ 48

>d1le8a_ a.4.1.1 (A:) Mating type protein A1 Homeodomain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 53

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Mating type protein A1 Homeodomain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 37.9 bits (88), Expect = 2e-05
 Identities = 8/40 (20%), Positives = 17/40 (42%)

Query: 82  RTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           +++ +      LE+ F   + L    + E+A    +T  Q
Sbjct: 1   KSSISPQARAFLEQVFRRKQSLNSKEKEEVAKKCGITPLQ 40

>d1au7a1 a.4.1.1 (A:103-160) Pit-1 POU homeodomain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 58

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Pit-1 POU homeodomain
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 37.6 bits (87), Expect = 3e-05
 Identities = 8/42 (19%), Positives = 16/42 (38%)

Query: 80  RLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           + RT  +      LE+ F  +        + +A  L+L +  
Sbjct: 1   KRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNLEKEV 42

>d1ftta_ a.4.1.1 (A:) Thyroid transcription factor 1 homeodomain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 68

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Thyroid transcription factor 1 homeodomain
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 37.6 bits (87), Expect = 5e-05
 Identities = 16/43 (37%), Positives = 24/43 (55%)

Query: 79  RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           R+ R  ++  Q+ ELE+ F   KYL  P R  +A+ + LT  Q
Sbjct: 3   RKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQ 45

>d1ocpa_ a.4.1.1 (A:) Oct-3 POU Homeodomain {Mouse (Mus musculus) [TaxId: 10090]} Length = 67

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Oct-3 POU Homeodomain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.9 bits (85), Expect = 9e-05
 Identities = 11/43 (25%), Positives = 15/43 (34%)

Query: 79  RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           +R RT+  N     LE  F         +   IA  L L +  
Sbjct: 9   KRKRTSIENRVRWSLETMFLKCPKPSLQQITHIANQLGLEKDV 51

>d1e3oc1 a.4.1.1 (C:104-160) Oct-1 POU Homeodomain {Human (Homo sapiens) [TaxId: 9606]} Length = 57

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Oct-1 POU Homeodomain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.1 bits (83), Expect = 1e-04
 Identities = 10/40 (25%), Positives = 16/40 (40%)

Query: 82  RTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
           RT+      + LEK F  N+         IA  L++ +  
Sbjct: 2   RTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEV 41

>d1wi3a_ a.4.1.1 (A:) DNA-binding protein SATB2 {Human (Homo sapiens) [TaxId: 9606]} Length = 71

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: DNA-binding protein SATB2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.6 bits (84), Expect = 1e-04
 Identities = 11/45 (24%), Positives = 17/45 (37%), Gaps = 1/45 (2%)

Query: 78  PRRLRTAYTNTQLLELEKEFH-FNKYLCRPRRIEIAASLDLTERQ 121
             R RT  +   L  L+   H    Y  +     ++A LDL +  
Sbjct: 7   GPRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHT 51

>d1x2ma1 a.4.1.1 (A:8-59) Lag1 longevity assurance homolog 6, LASS6 {Mouse (Mus musculus) [TaxId: 10090]} Length = 52

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Lag1 longevity assurance homolog 6, LASS6
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 34.3 bits (79), Expect = 4e-04
 Identities = 10/37 (27%), Positives = 13/37 (35%), Gaps = 1/37 (2%)

Query: 86  TNTQLLELEKEF-HFNKYLCRPRRIEIAASLDLTERQ 121
           T      LEK F    K+    R   ++  LD   R 
Sbjct: 1   TAQPNAILEKVFTAITKHPDEKRLEGLSKQLDWDVRS 37

>d1pufb_ a.4.1.1 (B:) pbx1 {Human (Homo sapiens) [TaxId: 9606]} Length = 73

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: pbx1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.6 bits (79), Expect = 6e-04
 Identities = 10/46 (21%), Positives = 15/46 (32%), Gaps = 3/46 (6%)

Query: 79  RRLRTAYTNTQLLELEK---EFHFNKYLCRPRRIEIAASLDLTERQ 121
           RR R  +       L +       N Y     + E+A    +T  Q
Sbjct: 2   RRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQ 47

>d1uhsa_ a.4.1.1 (A:) Homeodomain-only protein, Hop {Mouse (Mus musculus) [TaxId: 10090]} Length = 72

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Homeodomain-only protein, Hop
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 34.6 bits (79), Expect = 7e-04
 Identities = 14/44 (31%), Positives = 17/44 (38%), Gaps = 1/44 (2%)

Query: 79  RRLRTAYTNTQLLELEKEFHF-NKYLCRPRRIEIAASLDLTERQ 121
                  T  Q+  LE  F+  NK+        IAA   LTE Q
Sbjct: 2   SEGAATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQ 45

>d1k61a_ a.4.1.1 (A:) mat alpha2 Homeodomain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 60

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: mat alpha2 Homeodomain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 34.0 bits (78), Expect = 8e-04
 Identities = 9/40 (22%), Positives = 14/40 (35%), Gaps = 3/40 (7%)

Query: 85  YTNTQLLELEKEFHFNK---YLCRPRRIEIAASLDLTERQ 121
           +T   +  LE  F  N    YL       +  +  L+  Q
Sbjct: 5   FTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQ 44

>d2cqxa1 a.4.1.1 (A:8-66) LAG1 longevity assurance homolog 5, LASS5 {Mouse (Mus musculus) [TaxId: 10090]} Length = 59

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: LAG1 longevity assurance homolog 5, LASS5
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 33.2 bits (76), Expect = 0.002
 Identities = 10/41 (24%), Positives = 14/41 (34%), Gaps = 1/41 (2%)

Query: 82  RTAYTNTQLLELEKEF-HFNKYLCRPRRIEIAASLDLTERQ 121
                      LEK F    KY    R   ++  LD + R+
Sbjct: 5   SPVNKVEPNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRK 45

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	166
d1p7ia_	53	Engrailed Homeodomain {Drosophila melanogaster [Ta	99.78
d2craa1	58	Homeobox protein hox-b13 {Human (Homo sapiens) [Ta	99.77
d1vnda_	77	VND/NK-2 protein {Fruit fly (Drosophila melanogast	99.75
d1zq3p1	67	Homeotic bicoid protein {Fruit fly (Drosophila mel	99.75
d1ig7a_	58	Msx-1 homeodomain {Mouse (Mus musculus) [TaxId: 10	99.75
d9anta_	56	Antennapedia Homeodomain {Drosophila melanogaster	99.74
d1pufa_	77	Homeobox protein hox-a9 {Mouse (Mus musculus) [Tax	99.74
d1jgga_	57	Even-skipped homeodomain {Fruit fly (Drosophila me	99.73
d2e1oa1	57	Homeobox protein prh {Human (Homo sapiens) [TaxId:	99.73
d1b72a_	88	Homeobox protein hox-b1 {Human (Homo sapiens) [Tax	99.73
d1ftta_	68	Thyroid transcription factor 1 homeodomain {Rat (R	99.72
d2cuea1	68	Paired box protein pax6 {Human (Homo sapiens) [Tax	99.72
d1fjla_	65	Paired protein {Fruit fly (Drosophila melanogaster	99.71
d1bw5a_	66	Insulin gene enhancer protein isl-1 {Rat (Rattus n	99.68
d1yz8p1	60	Pituitary homeobox 2 {Human (Homo sapiens) [TaxId:	99.67
d1s7ea1	50	Hepatocyte nuclear factor 6 {Mouse (Mus musculus)	99.67
d1ocpa_	67	Oct-3 POU Homeodomain {Mouse (Mus musculus) [TaxId	99.67
d1uhsa_	72	Homeodomain-only protein, Hop {Mouse (Mus musculus	99.67
d1le8a_	53	Mating type protein A1 Homeodomain {Baker's yeast	99.67
d1wh7a_	80	ZF-HD homeobox protein At4g24660 {Thale cress (Ara	99.66
d1wi3a_	71	DNA-binding protein SATB2 {Human (Homo sapiens) [T	99.65
d1au7a1	58	Pit-1 POU homeodomain {Rat (Rattus norvegicus) [Ta	99.63
d2cufa1	82	Homeobox-containing protein 1, HMBOX1 (Flj21616) {	99.6
d1e3oc1	57	Oct-1 POU Homeodomain {Human (Homo sapiens) [TaxId	99.58
d2ecba1	76	Zinc fingers and homeoboxes protein 1, ZHX1 {Human	99.52
d1pufb_	73	pbx1 {Human (Homo sapiens) [TaxId: 9606]}	99.49
d1lfba_	78	Hepatocyte nuclear factor 1a (LFB1/HNF1) {Rat (Rat	99.48
d2ecca1	76	Homeobox-leucine zipper protein Homez {Human (Homo	99.47
d1x2ma1	52	Lag1 longevity assurance homolog 6, LASS6 {Mouse (	99.45
d2cqxa1	59	LAG1 longevity assurance homolog 5, LASS5 {Mouse (	99.39
d1k61a_	60	mat alpha2 Homeodomain {Baker's yeast (Saccharomyc	99.34
d1x2na1	62	Homeobox protein pknox1 {Human (Homo sapiens) [Tax	99.34

>d1p7ia_ a.4.1.1 (A:) Engrailed Homeodomain {Drosophila melanogaster [TaxId: 7227]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Engrailed Homeodomain
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.78  E-value=2.3e-20  Score=119.15  Aligned_cols=53  Identities=36%  Similarity=0.559  Sum_probs=50.8

Q ss_pred             CcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccc
Q psy16796         80 RLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEE  132 (166)
Q Consensus        80 r~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~k  132 (166)
                      |+||.||..|+..|+..|..++||+...|..||..|||++.+|+|||||+|.|
T Consensus         1 R~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~LA~~lgL~~~qV~vWFqNrRaK   53 (53)
T d1p7ia_           1 RPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNARAK   53 (53)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHC
T ss_pred             CCCccCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHhCCChHHhhhcccccCCC
Confidence            57999999999999999999999999999999999999999999999998764

>d2craa1 a.4.1.1 (A:7-64) Homeobox protein hox-b13 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Homeobox protein hox-b13
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=4.4e-20  Score=120.01  Aligned_cols=56  Identities=34%  Similarity=0.540  Sum_probs=52.7

Q ss_pred             CCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        79 rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      |+.||.||..|+..|+..|..++||+...|..||..|||++.+|+|||||+|.+..
T Consensus         2 rr~Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~LA~~l~l~~~qV~vWFqNrR~k~k   57 (58)
T d2craa1           2 RKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQITIWFQNRRVKEK   57 (58)
T ss_dssp             CCSCCCSCHHHHHHHHHHHHHCSSCCHHHHHHHHHHTCCCHHHHHHHHHHHHHTTT
T ss_pred             CCCCCCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHcCCCHHHeeecccchhhhcc
Confidence            67799999999999999999999999999999999999999999999999876643

>d1vnda_ a.4.1.1 (A:) VND/NK-2 protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: VND/NK-2 protein
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.75  E-value=1.3e-19  Score=123.93  Aligned_cols=64  Identities=25%  Similarity=0.360  Sum_probs=57.5

Q ss_pred             hcCCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccccCC
Q psy16796         73 KKNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEEGE  136 (166)
Q Consensus        73 ~~~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~~~  136 (166)
                      +.+.++++.||+||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+....
T Consensus         4 g~p~k~rr~Rt~ft~~Q~~~Le~~F~~~~yP~~~~r~~LA~~l~l~~~qV~~WFqNrR~k~kr~   67 (77)
T d1vnda_           4 GLPNKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHRYKTKRA   67 (77)
T ss_dssp             CCSSSSCSSCCCCCTTHHHHHHHHHHHCSCCCHHHHHHHHHHHTCCHHHHHHHHHHSSSSCSSS
T ss_pred             CCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHhCCChhhhhhcchhHHHHHHHH
Confidence            3445678889999999999999999999999999999999999999999999999977765543

>d1zq3p1 a.4.1.1 (P:2-68) Homeotic bicoid protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Homeotic bicoid protein
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.75  E-value=8e-20  Score=121.89  Aligned_cols=56  Identities=34%  Similarity=0.555  Sum_probs=52.5

Q ss_pred             CCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         78 PRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        78 ~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      |||.||+||..|+..|+..|..++||+...|..||..|||++++|+|||||+|.+.
T Consensus         1 Prr~Rt~ft~~Ql~~Le~~F~~~~yp~~~~r~~LA~~l~l~~~~V~iWFqNrR~k~   56 (67)
T d1zq3p1           1 PRRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKNRRRRH   56 (67)
T ss_dssp             CSCCSCCCCHHHHHHHHHHHTTCSSCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCcCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHhCCCccceeeccccHHHhH
Confidence            46789999999999999999999999999999999999999999999999977544

>d1ig7a_ a.4.1.1 (A:) Msx-1 homeodomain {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Msx-1 homeodomain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.75  E-value=9.4e-20  Score=118.22  Aligned_cols=55  Identities=36%  Similarity=0.549  Sum_probs=51.8

Q ss_pred             CCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        79 rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      ||+|+.||..|+..|+..|..++||+...|..||..|||++.+|+|||||+|.+.
T Consensus         1 rr~Rt~ft~~Ql~~Le~~F~~~~yP~~~~r~~LA~~l~l~~~~V~~WFqNrR~k~   55 (58)
T d1ig7a_           1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQVKIWFQNRRAKA   55 (58)
T ss_dssp             CCCCCCCCHHHHHHHHHHHHHCSCCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHhCCChhheeecCcchHhHh
Confidence            5689999999999999999999999999999999999999999999999977553

>d9anta_ a.4.1.1 (A:) Antennapedia Homeodomain {Drosophila melanogaster [TaxId: 7227]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Antennapedia Homeodomain
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.74  E-value=1.3e-19  Score=116.98  Aligned_cols=53  Identities=55%  Similarity=0.743  Sum_probs=50.1

Q ss_pred             ccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         82 RTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        82 Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      ||.||..|+..|+..|..++||+...|..||..|||++++|+|||||+|.+.+
T Consensus         1 Rt~ft~~Q~~~Le~~F~~~~yp~~~~r~~LA~~l~l~~~~V~iWFQNrRak~k   53 (56)
T d9anta_           1 RQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWK   53 (56)
T ss_dssp             CCCCCHHHHHHHHHHHTTCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCChhHeeeccccchhhhh
Confidence            79999999999999999999999999999999999999999999999776543

>d1pufa_ a.4.1.1 (A:) Homeobox protein hox-a9 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Homeobox protein hox-a9
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.74  E-value=2.7e-19  Score=122.40  Aligned_cols=60  Identities=45%  Similarity=0.589  Sum_probs=54.6

Q ss_pred             CCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         75 NGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        75 ~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      .+..++.||+||..|+..|+..|..++||+...|..||..|||++.+|+|||||+|.+..
T Consensus        10 ~~~~rr~Rt~ft~~Ql~~Le~~F~~~~yPs~~~r~~LA~~l~l~~~qV~iWFqNrR~k~k   69 (77)
T d1pufa_          10 ARSTRKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWFQNRRMKMK   69 (77)
T ss_dssp             CCTTSCCCCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHH
T ss_pred             cCcCCCCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHhCCCHHHhhhhhhhhHHHHH
Confidence            345678899999999999999999999999999999999999999999999999875443

>d1jgga_ a.4.1.1 (A:) Even-skipped homeodomain {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Even-skipped homeodomain
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.73  E-value=1.9e-19  Score=116.41  Aligned_cols=54  Identities=43%  Similarity=0.607  Sum_probs=51.1

Q ss_pred             CcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         80 RLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        80 r~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      |.||.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+.
T Consensus         1 R~Rt~fT~~Ql~~Le~~F~~~~yp~~~~r~~LA~~lgl~~~qV~vWFqNrR~k~   54 (57)
T d1jgga_           1 RYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIKVWFQNRRMKD   54 (57)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHCSCCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHhCCChhHhhhcchhhhhhh
Confidence            579999999999999999999999999999999999999999999999977553

>d2e1oa1 a.4.1.1 (A:8-64) Homeobox protein prh {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Homeobox protein prh
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=2.3e-19  Score=116.05  Aligned_cols=55  Identities=33%  Similarity=0.486  Sum_probs=51.7

Q ss_pred             CCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        79 rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      +++|+.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+.
T Consensus         1 k~~R~~ft~~Q~~~Le~~F~~n~yp~~~~r~~LA~~l~L~~~qV~~WFqNrR~k~   55 (57)
T d2e1oa1           1 KGGQVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNRRAKW   55 (57)
T ss_dssp             CCCCCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             CCCCccCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCHHHhhHhhhhhhhhc
Confidence            4679999999999999999999999999999999999999999999999977543

>d1b72a_ a.4.1.1 (A:) Homeobox protein hox-b1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Homeobox protein hox-b1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=3.2e-19  Score=124.82  Aligned_cols=60  Identities=52%  Similarity=0.754  Sum_probs=50.6

Q ss_pred             cCCCCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         74 KNGLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        74 ~~~k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      ....+++.|+.||..|+..|+..|..++||+...|..||..|||++++|+|||||+|.+.
T Consensus        23 ~~~~~kr~Rt~ft~~Ql~~Le~~F~~n~yPs~~~r~~LA~~l~l~~~~V~vWFqNrR~k~   82 (88)
T d1b72a_          23 GLGSPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQVKIWFQNRRMKQ   82 (88)
T ss_dssp             -------CCCCCCHHHHHHHHHHHTTCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCcCCCHHHHHHHHHHHHhCCCCchHHHHHHHHHcCCCHHHeeeccHhHHHHH
Confidence            345568889999999999999999999999999999999999999999999999977443

>d1ftta_ a.4.1.1 (A:) Thyroid transcription factor 1 homeodomain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Thyroid transcription factor 1 homeodomain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.72  E-value=5.1e-19  Score=118.26  Aligned_cols=56  Identities=29%  Similarity=0.455  Sum_probs=52.3

Q ss_pred             CCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         78 PRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        78 ~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      +|+.||.||..|+..|+..|..++||+...|..||..|||++.+|+|||||+|.+.
T Consensus         2 krr~Rt~ft~~Ql~~Le~~F~~~~yPs~~~r~~LA~~l~L~~~~V~~WFqNrR~k~   57 (68)
T d1ftta_           2 RRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNHRYKM   57 (68)
T ss_dssp             CSSSCSSCCHHHHHHHHHHHHHSSSCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHhCCCccceeeecccHHHHH
Confidence            46789999999999999999999999999999999999999999999999966444

>d2cuea1 a.4.1.1 (A:7-74) Paired box protein pax6 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Paired box protein pax6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=5.3e-19  Score=118.16  Aligned_cols=56  Identities=30%  Similarity=0.360  Sum_probs=52.4

Q ss_pred             CCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        79 rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      +|+||.||..|+..|+..|..++||+...|..||..|||++.+|+|||||++.+..
T Consensus         2 rR~Rt~ft~~Ql~~Le~~F~~n~yP~~~~r~~LA~~l~L~~~~V~~WFqNrR~k~k   57 (68)
T d2cuea1           2 QRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSNRRAKWR   57 (68)
T ss_dssp             CCCCCCSCHHHHHHHHHHHTTCSSCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             CCCCCcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHhCcChhheeecCcchhHHHH
Confidence            67899999999999999999999999999999999999999999999999775543

>d1fjla_ a.4.1.1 (A:) Paired protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Paired protein
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.71  E-value=6.4e-19  Score=116.75  Aligned_cols=56  Identities=30%  Similarity=0.368  Sum_probs=52.8

Q ss_pred             CCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccc
Q psy16796         77 LPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEE  132 (166)
Q Consensus        77 k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~k  132 (166)
                      +.|+.||.||..|+..|+..|..++||+..++..||..|||++.+|+|||||+|.+
T Consensus         1 k~rr~Rt~ft~~Q~~~Le~~F~~n~yPs~~~r~~LA~~lgl~~~~V~~WFqNrR~k   56 (65)
T d1fjla_           1 KQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQVWFQNRRAR   56 (65)
T ss_dssp             CCCCCCCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHcCCCChHHHHHHHHHhCCCHHHhhHhhhhHHHH
Confidence            35788999999999999999999999999999999999999999999999997744

>d1bw5a_ a.4.1.1 (A:) Insulin gene enhancer protein isl-1 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Insulin gene enhancer protein isl-1
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.68  E-value=4.4e-18  Score=113.00  Aligned_cols=58  Identities=16%  Similarity=0.133  Sum_probs=54.1

Q ss_pred             CCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         77 LPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        77 k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      +.+|.||.||..|+..|+..|..|+||+...+..||..|||++.+|+|||||+|.+.+
T Consensus         2 k~kR~Rt~~t~~Q~~~Le~~F~~n~~Ps~~~~~~LA~~l~l~~~~V~~WFqNrR~k~k   59 (66)
T d1bw5a_           2 KTTRVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKDK   59 (66)
T ss_dssp             CCSCCCCCCSHHHHHHHHHHHHHCSCCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHCS
T ss_pred             CCCCCCcCcCHHHHHHHHHHHHHCCCCCHHHHHHHHHHcCcCHHHhhhhhHhHHHHHH
Confidence            4688999999999999999999999999999999999999999999999999775543

>d1yz8p1 a.4.1.1 (P:1-60) Pituitary homeobox 2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Pituitary homeobox 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.67  E-value=9.4e-19  Score=114.14  Aligned_cols=55  Identities=35%  Similarity=0.393  Sum_probs=52.0

Q ss_pred             CCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        79 rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      ||.||.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+.
T Consensus         2 rr~Rt~ft~~Q~~~Le~~F~~~~yP~~~~r~~LA~~l~l~~~~V~~WFqNrR~k~   56 (60)
T d1yz8p1           2 RRQRTHFTSQQLQQLEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKW   56 (60)
T ss_dssp             SCSCCCCCHHHHHHHHHHHTTCSSCCTTTTTHHHHHTTSCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHHHHcCCCChHHHHHHHHHHCCChHHHHHHhHHHHHHH
Confidence            6789999999999999999999999999999999999999999999999977543

>d1s7ea1 a.4.1.1 (A:103-152) Hepatocyte nuclear factor 6 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Hepatocyte nuclear factor 6
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.67  E-value=5.5e-18  Score=106.54  Aligned_cols=50  Identities=24%  Similarity=0.234  Sum_probs=48.6

Q ss_pred             cccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccc
Q psy16796         81 LRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAK  130 (166)
Q Consensus        81 ~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k  130 (166)
                      +||.||..|+..|+..|..++||+...+..||..|||++.+|+|||||+|
T Consensus         1 PRt~ft~~Q~~~Le~~F~~n~~P~~~~~~~LA~~l~l~~~~V~~WFqNrR   50 (50)
T d1s7ea1           1 PRLVFTDVQRRTLHAIFKENKRPSKELQITISQQLGLELSTVSNFFMNAR   50 (50)
T ss_dssp             CCSCCCHHHHHHHHHHTTSSCSSTHHHHHHHHTTSCSSSHHHHHHHHHCC
T ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCcCHHHhhhcCCcCc
Confidence            58999999999999999999999999999999999999999999999975

>d1ocpa_ a.4.1.1 (A:) Oct-3 POU Homeodomain {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Oct-3 POU Homeodomain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.67  E-value=7.4e-18  Score=112.24  Aligned_cols=58  Identities=19%  Similarity=0.141  Sum_probs=53.5

Q ss_pred             CCCCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         77 LPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        77 k~rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      .+++.||.||..|+..|+..|..++||+..++..||..|||++.+|+|||||+|.+.+
T Consensus         7 ~~rr~Rt~~t~~q~~~Le~~F~~n~~P~~~~r~~La~~~~l~~~~V~~WFqNrR~k~K   64 (67)
T d1ocpa_           7 ARKRKRTSIENRVRWSLETMFLKCPKPSLQQITHIANQLGLEKDVVRVWFCNRRQKGK   64 (67)
T ss_dssp             CSSSCCSSCCHHHHHHHHHHHSSCSCCCHHHHHHHHHHHTCCHHHHHHHHHHHHSSSS
T ss_pred             ccCCCCCCCCHHHHHHHHHHHHHccCCCHHHHHHHHHHHcCCHHHHHHHhHHHHHHHh
Confidence            4577899999999999999999999999999999999999999999999999766543

>d1uhsa_ a.4.1.1 (A:) Homeodomain-only protein, Hop {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Homeodomain-only protein, Hop
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.67  E-value=5.3e-18  Score=114.47  Aligned_cols=54  Identities=28%  Similarity=0.136  Sum_probs=50.5

Q ss_pred             CCcccCCCHHHHHHHHHHhhh-cCCCCHHHHHHHHHHcCCCCCCccccccccccc
Q psy16796         79 RRLRTAYTNTQLLELEKEFHF-NKYLCRPRRIEIAASLDLTERQSDCKYYVAKEE  132 (166)
Q Consensus        79 rr~Rt~fT~~Ql~~Le~~F~~-~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~k  132 (166)
                      ++.|+.||..|+..|+..|.. +.||+...|..||..|||++++|+|||||+|.+
T Consensus         2 ~~~r~~fT~~Ql~~Le~~F~~~n~yP~~~~r~~LA~~lgL~~~~VqvWFqNrRak   56 (72)
T d1uhsa_           2 SEGAATMTEDQVEILEYNFNKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAE   56 (72)
T ss_dssp             CCCCCCCCHHHHHHHHHHHHSSCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHHHHccccCCHHHHHHHHHHhCCCHHHHHHHHHHHHHH
Confidence            678999999999999999986 789999999999999999999999999997744

>d1le8a_ a.4.1.1 (A:) Mating type protein A1 Homeodomain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Mating type protein A1 Homeodomain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.67  E-value=7.4e-18  Score=107.35  Aligned_cols=52  Identities=15%  Similarity=0.146  Sum_probs=49.8

Q ss_pred             ccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         82 RTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        82 Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      ||.||+.|+..|+..|..++||+...+..||..+||++.+|+|||||+|.+.
T Consensus         1 Rt~~s~~q~~~Le~~F~~~~~P~~~~~~~LA~~lgl~~~qV~~WFqNrR~k~   52 (53)
T d1le8a_           1 KSSISPQARAFLEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRS   52 (53)
T ss_dssp             CCCCCHHHHHHHHHHHHHCSCCCHHHHHHHHHHTTSCHHHHHHHHHHHHHTT
T ss_pred             CCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHCCCHHHHHHHHHhhhhcc
Confidence            7899999999999999999999999999999999999999999999987664

>d1wh7a_ a.4.1.1 (A:) ZF-HD homeobox protein At4g24660 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: ZF-HD homeobox protein At4g24660
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.66  E-value=2.3e-17  Score=113.25  Aligned_cols=58  Identities=14%  Similarity=0.017  Sum_probs=52.5

Q ss_pred             cCCCCCCcccCCCHHHHHHHHHHhhh----cCCCCHHHHHHHHHHcCCCCCCcccccccccc
Q psy16796         74 KNGLPRRLRTAYTNTQLLELEKEFHF----NKYLCRPRRIEIAASLDLTERQSDCKYYVAKE  131 (166)
Q Consensus        74 ~~~k~rr~Rt~fT~~Ql~~Le~~F~~----~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~  131 (166)
                      ...+.||.||.||..|+..|+..|+.    ++||+...+..||..|||++.+|+|||||+|.
T Consensus        13 ~~~~~kR~Rt~ft~~Q~~~L~~~fe~~~~~~~~p~~~~~~~la~~~gl~~~~i~vWFqN~R~   74 (80)
T d1wh7a_          13 SGGTTKRFRTKFTAEQKEKMLAFAERLGWRIQKHDDVAVEQFCAETGVRRQVLKIWMHNNKN   74 (80)
T ss_dssp             CCCCSSCCCCCCCHHHHHHHHHHHHHHTSCCCSSTTHHHHHHHHHSCCCHHHHHHHHHTTSC
T ss_pred             CccCCCCccccCCHHHHHHHHHHHHHhcccccCcCHHHHHHHHHHHCCCHHHeeeecccCcC
Confidence            34556789999999999999999986    78999999999999999999999999999664

>d1wi3a_ a.4.1.1 (A:) DNA-binding protein SATB2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: DNA-binding protein SATB2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.65  E-value=2.3e-17  Score=110.78  Aligned_cols=60  Identities=20%  Similarity=0.129  Sum_probs=52.8

Q ss_pred             CCCCcccCCCHHHHHHHHHHhh-hcCCCCHHHHHHHHHHcCCCCCCcccccccccc--cccCC
Q psy16796         77 LPRRLRTAYTNTQLLELEKEFH-FNKYLCRPRRIEIAASLDLTERQSDCKYYVAKE--EEEGE  136 (166)
Q Consensus        77 k~rr~Rt~fT~~Ql~~Le~~F~-~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~--ke~~~  136 (166)
                      ..++.|+.||..|+..|+..|. .++||+..++..||..|||+.++|+|||||+|.  |+.||
T Consensus         6 ~~~r~R~~~t~~Q~~~Le~~F~~~~~~P~~~~~~~La~~lgl~~~qV~~WFqNrR~k~kk~~p   68 (71)
T d1wi3a_           6 SGPRSRTKISLEALGILQSFIHDVGLYPDQEAIHTLSAQLDLPKHTIIKFFQNQRYHVKHSGP   68 (71)
T ss_dssp             CCCCCCCCCCSHHHHHHHHHHHHHCSCCCHHHHHHHHHHSCCCHHHHHHHHHHHHHHCCSSCS
T ss_pred             CCCCCCccCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhCCCHHHHHHHhHhhHhhhcccCC
Confidence            4567899999999999999997 589999999999999999999999999999544  44444

>d1au7a1 a.4.1.1 (A:103-160) Pit-1 POU homeodomain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Pit-1 POU homeodomain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.63  E-value=2.9e-17  Score=106.37  Aligned_cols=54  Identities=17%  Similarity=0.194  Sum_probs=50.9

Q ss_pred             CcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         80 RLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        80 r~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      |.||.|+..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+.
T Consensus         1 r~Rt~~s~~q~~~Le~~F~~~~~P~~~~~~~La~~l~l~~~~V~~WFqNrR~k~   54 (58)
T d1au7a1           1 KRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNLEKEVVRVWFCNRRQRE   54 (58)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHT
T ss_pred             CCCCCCCHHHHHHHHHHHHHccCCCHHHHHHHHHHhCCCHHHHHHHHHHHhHHH
Confidence            468999999999999999999999999999999999999999999999977554

>d2cufa1 a.4.1.1 (A:8-89) Homeobox-containing protein 1, HMBOX1 (Flj21616) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Homeobox-containing protein 1, HMBOX1 (Flj21616)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.60  E-value=4.4e-17  Score=112.24  Aligned_cols=53  Identities=23%  Similarity=0.248  Sum_probs=49.5

Q ss_pred             CCcccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcC---------------CCCCCcccccccccc
Q psy16796         79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLD---------------LTERQSDCKYYVAKE  131 (166)
Q Consensus        79 rr~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~Lg---------------Lse~qVkVWFQN~k~  131 (166)
                      |+.|+.||..|+..|+..|..++||+...|..||..+|               |++.+|+|||||+|.
T Consensus         1 Rr~R~~ft~~Ql~~LE~~F~~n~yP~~~~R~~LA~~~~~~~~~~~~~~~~~~~l~~~~V~vWFqNRR~   68 (82)
T d2cufa1           1 RGSRFTWRKECLAVMESYFNENQYPDEAKREEIANACNAVIQKPGKKLSDLERVTSLKVYNWFANRRK   68 (82)
T ss_dssp             CCCSCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHHCCTTCCCCTTTCCCHHHHHHHHHHHHH
T ss_pred             CcCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhccccccccccchhccCCCHHHHHHHHhhhHH
Confidence            57899999999999999999999999999999999875               999999999999773

>d1e3oc1 a.4.1.1 (C:104-160) Oct-1 POU Homeodomain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Oct-1 POU Homeodomain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.58  E-value=1.7e-16  Score=102.37  Aligned_cols=54  Identities=20%  Similarity=0.195  Sum_probs=50.4

Q ss_pred             cccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         81 LRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        81 ~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      .||.|+..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+.+
T Consensus         1 kRT~~~~~q~~~Le~~F~~~~~P~~~~~~~LA~~lgL~~~qV~~WFqNrR~k~k   54 (57)
T d1e3oc1           1 KRTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEVIRVWFSNRRQKEK   54 (57)
T ss_dssp             CCCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHT
T ss_pred             CCCCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence            489999999999999999999999999999999999999999999999775543

>d2ecba1 a.4.1.1 (A:8-83) Zinc fingers and homeoboxes protein 1, ZHX1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Zinc fingers and homeoboxes protein 1, ZHX1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.52  E-value=1.4e-15  Score=103.10  Aligned_cols=51  Identities=24%  Similarity=0.214  Sum_probs=47.1

Q ss_pred             CCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         84 AYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        84 ~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      .+|..|+..|+..|..++||+...+..||..|||++.+|+|||||+|.+..
T Consensus        10 ~~T~~Q~~~Le~~F~~~~~P~~~~r~~LA~~l~l~~~~V~~WFqNrR~r~k   60 (76)
T d2ecba1          10 EKTAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREIDAWFTEKKKSKA   60 (76)
T ss_dssp             CCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHTCCCHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHhCCCHHHHHHhHHHHHHHHH
Confidence            358999999999999999999999999999999999999999999775543

>d1pufb_ a.4.1.1 (B:) pbx1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: pbx1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.49  E-value=2.7e-15  Score=100.95  Aligned_cols=56  Identities=20%  Similarity=0.175  Sum_probs=50.7

Q ss_pred             CCcccCCCHHHHHHHHHHhhh---cCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         79 RRLRTAYTNTQLLELEKEFHF---NKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        79 rr~Rt~fT~~Ql~~Le~~F~~---~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      |+.|+.||..|+..|+..|..   ++||+...+..||..+||+..||++||||+|.+..
T Consensus         2 rk~R~~~t~~q~~~Le~~f~~~~~~pYPs~~~k~~La~~~gl~~~qv~~WF~N~R~r~k   60 (73)
T d1pufb_           2 RRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYK   60 (73)
T ss_dssp             CCCCCCCCHHHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHCcCHHHhHHHHHHHHHHhc
Confidence            567899999999999999974   88999999999999999999999999999665543

>d1lfba_ a.4.1.1 (A:) Hepatocyte nuclear factor 1a (LFB1/HNF1) {Rat (Rattus rattus) [TaxId: 10117]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Hepatocyte nuclear factor 1a (LFB1/HNF1)
species: Rat (Rattus rattus) [TaxId: 10117]

Probab=99.48  E-value=3.1e-15  Score=102.15  Aligned_cols=54  Identities=15%  Similarity=0.100  Sum_probs=49.6

Q ss_pred             ccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcC---------------------CCCCCcccccccccccccC
Q psy16796         82 RTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLD---------------------LTERQSDCKYYVAKEEEEG  135 (166)
Q Consensus        82 Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~Lg---------------------Lse~qVkVWFQN~k~ke~~  135 (166)
                      |++||+.|+..|+..|..++||+...|..||..|+                     |++.+|++||||+|.+.+.
T Consensus         1 R~~~tp~Ql~~Le~~F~~n~yPs~~~Re~LA~~ln~~~~~~~~~~~~~~~~~~~~~vt~~~V~~WF~NRR~~~kr   75 (78)
T d1lfba_           1 RFKWGPASQQILFQAYERQKNPSKEERETLVEECNRAECIQRGVSPSQAQGLGSNLVTEVRVYNWFANRRKEEAF   75 (78)
T ss_dssp             CCCCCHHHHHHHHHHHTTCSSCCHHHHHHHHHHHHHHHHTTTTCCTTCTTTTGGGCCCHHHHHHHHHHHHHTTSC
T ss_pred             CccCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhchhhhccccccccccccccccCCCHHHHHHHHHHHHHHHHH
Confidence            68999999999999999999999999999999994                     8899999999998876553

>d2ecca1 a.4.1.1 (A:1-76) Homeobox-leucine zipper protein Homez {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Homeobox-leucine zipper protein Homez
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.47  E-value=6.9e-15  Score=99.62  Aligned_cols=52  Identities=13%  Similarity=-0.009  Sum_probs=47.9

Q ss_pred             cccCCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHcCCCCCCccccccccccc
Q psy16796         81 LRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKYYVAKEE  132 (166)
Q Consensus        81 ~Rt~fT~~Ql~~Le~~F~~~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~k  132 (166)
                      .+..||..|+..|+..|..++||+..++..||..|||++.+|++||||+|.+
T Consensus         6 ~~~r~T~eQ~~~Le~~F~~n~~Ps~~~~~~La~~~gL~~~qV~~WF~NrR~k   57 (76)
T d2ecca1           6 SGKRKTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQWFGDTRYA   57 (76)
T ss_dssp             CCCCCCHHHHHHHHHHHHHCSSCCHHHHHHHHHHTCCCHHHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            3456899999999999999999999999999999999999999999996644

>d1x2ma1 a.4.1.1 (A:8-59) Lag1 longevity assurance homolog 6, LASS6 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Lag1 longevity assurance homolog 6, LASS6
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.45  E-value=4.3e-15  Score=94.03  Aligned_cols=49  Identities=22%  Similarity=0.156  Sum_probs=44.5

Q ss_pred             CHHHHHHHHHHhhh-cCCCCHHHHHHHHHHcCCCCCCccccccccccccc
Q psy16796         86 TNTQLLELEKEFHF-NKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEEE  134 (166)
Q Consensus        86 T~~Ql~~Le~~F~~-~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke~  134 (166)
                      |..|+..|+..|.. ++||+...+..||..|||++++|+|||||+|.+++
T Consensus         1 T~~q~~iLE~~F~~~~~~P~~~~~~~LA~~~~ls~~qV~~WFqNrR~k~k   50 (52)
T d1x2ma1           1 TAQPNAILEKVFTAITKHPDEKRLEGLSKQLDWDVRSIQRWFRQRRNQEK   50 (52)
T ss_dssp             SSCHHHHHHHHHHTTCSSCCHHHHHHHHHHHCSCHHHHHHHHHHHHHHSC
T ss_pred             ChhHHHHHHHHHHHcCCCcCHHHHHHHHHHHCcCHHHHHHHHHhhhcccC
Confidence            46789999999976 78999999999999999999999999999886653

>d2cqxa1 a.4.1.1 (A:8-66) LAG1 longevity assurance homolog 5, LASS5 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: LAG1 longevity assurance homolog 5, LASS5
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.39  E-value=1.1e-14  Score=94.31  Aligned_cols=54  Identities=20%  Similarity=0.234  Sum_probs=48.4

Q ss_pred             CcccCCCHHHHHHHHHHhhh-cCCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         80 RLRTAYTNTQLLELEKEFHF-NKYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        80 r~Rt~fT~~Ql~~Le~~F~~-~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      +.++.|+..+...|+..|.. ++||+...+..||..|||++++|++||||+|.++
T Consensus         3 k~~~~~k~~~~~iLE~~F~~~~~yPs~~~~~~LA~~lgls~~qV~~WFqNrR~k~   57 (59)
T d2cqxa1           3 KDSPVNKVEPNDTLEKVFVSVTKYPDEKRLKGLSKQLDWSVRKIQCWFRHRRNQD   57 (59)
T ss_dssp             CCCCCSCSCSTTHHHHHHHHTCSSCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCccccHHHHHHHHHcCCCcCHHHHHHHHHHHCcCHHHHHHHHHhhhccc
Confidence            45677888899999999986 6899999999999999999999999999988553

>d1k61a_ a.4.1.1 (A:) mat alpha2 Homeodomain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: mat alpha2 Homeodomain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.34  E-value=9.1e-14  Score=90.09  Aligned_cols=50  Identities=20%  Similarity=0.143  Sum_probs=45.6

Q ss_pred             CCCHHHHHHHHHHhhhc---CCCCHHHHHHHHHHcCCCCCCcccccccccccc
Q psy16796         84 AYTNTQLLELEKEFHFN---KYLCRPRRIEIAASLDLTERQSDCKYYVAKEEE  133 (166)
Q Consensus        84 ~fT~~Ql~~Le~~F~~~---~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~ke  133 (166)
                      +||..|+..|+..|..+   +||+..++..||..+||++.||++||||+|.+.
T Consensus         4 Rft~~q~~~L~~~f~~~~~~pyPs~~e~~~La~~~gL~~~qV~~WF~N~R~r~   56 (60)
T d1k61a_           4 RFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKE   56 (60)
T ss_dssp             SCCHHHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHCcCHHHHhHHhHhhcccc
Confidence            49999999999999765   699999999999999999999999999977543

>d1x2na1 a.4.1.1 (A:6-67) Homeobox protein pknox1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Homeodomain
domain: Homeobox protein pknox1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.34  E-value=1.4e-13  Score=89.82  Aligned_cols=53  Identities=17%  Similarity=0.145  Sum_probs=48.5

Q ss_pred             CCcccCCCHHHHHHHHHHhhh---cCCCCHHHHHHHHHHcCCCCCCcccccccccc
Q psy16796         79 RRLRTAYTNTQLLELEKEFHF---NKYLCRPRRIEIAASLDLTERQSDCKYYVAKE  131 (166)
Q Consensus        79 rr~Rt~fT~~Ql~~Le~~F~~---~~yp~~~~R~~LA~~LgLse~qVkVWFQN~k~  131 (166)
                      ++.|+.|+..++..|+..|..   ++||+..++..||..+||+..||++||+|+|.
T Consensus         3 krkR~~~~~~~~~iL~~wf~~~~~nPyPs~~e~~~La~~~~l~~~qI~~WF~N~R~   58 (62)
T d1x2na1           3 KNKRGVLPKHATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQVNNWFINARR   58 (62)
T ss_dssp             CCSSCCCCHHHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHTCCHHHHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhccCCCcCHHHHHHHHHHHCcCHHHhHHHHHHHHH
Confidence            456789999999999999985   78999999999999999999999999999763