Psyllid ID: psy4875

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100
Protein Sequence
LKFLTLLCPLVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIPSRECPSIFAWEIRDRLLQEGVCSNDNIP
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHHcccccHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHcccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHHHHcccccHHHHHHHHHHcccccccccccHHcccccHHHHHHHHHHcccccccccc
Coil and Loop (DISEMBL)
lkfltllcplvhryyetgsirpraiggskprvATAEVVSKIShykrecpsiFAWEIRDRLLQegvcsndnipsrecpsiFAWEIRDRLLQegvcsndnip
Flexible Loop (DISEMBL)
lkfltllcPLVHRyyetgsirpraiggskprVATAEVVSkishykrecpSIFAWEIRDRLLQEgvcsndnipsrecPSIFAWEIRDRLLqegvcsndnip
Low Complexity Region (SEG)
LKFLTLLCPLVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIPSRECPSIFAWEIRDRLLQEGVCSNDNIP
Disordered region (IsUnstruct)
**FLTLLCPLVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIPSRECPSIFAWEIRDRLLQEGVC******
Disordered Region (DISOPRED)
*KFLTLLCPLVHRYYETGS*****************VVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIPSR**************************
Disordered Region (DISEMBL)
LKFLTLLCPLVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIPSRECPSIFAWEIRDRLLQEGVCSNDNIP
Disordered Region (DISPRO)
LKFLTLLCPLVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIPSRECPSIFAWEIRDRLLQEG********
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
LKFLTLLCPLVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIPSRECPSIFAWEIRDRLLQEGVCSNDNIP
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	100	2.2.26 [Sep-21-2011]
O18381	857	Paired box protein Pax-6	yes	N/A	0.64	0.074	0.906	2e-28
P55864	422	Paired box protein Pax-6	N/A	N/A	0.64	0.151	0.875	1e-27
P63015	422	Paired box protein Pax-6	yes	N/A	0.64	0.151	0.875	2e-27
P26367	422	Paired box protein Pax-6	yes	N/A	0.64	0.151	0.875	2e-27
Q1LZF1	422	Paired box protein Pax-6	yes	N/A	0.64	0.151	0.875	2e-27
P63016	422	Paired box protein Pax-6	yes	N/A	0.64	0.151	0.875	2e-27
P47238	416	Paired box protein Pax-6	N/A	N/A	0.64	0.153	0.875	2e-27
P26630	437	Paired box protein Pax-6	yes	N/A	0.64	0.146	0.859	4e-27
O73917	437	Paired box protein Pax-6	N/A	N/A	0.64	0.146	0.843	4e-27
A0JMA6	458	Paired box protein Pax-8	no	N/A	0.64	0.139	0.703	1e-21

>sp|O18381|PAX6_DROME Paired box protein Pax-6 OS=Drosophila melanogaster GN=ey PE=2 SV=3

 Score =  124 bits (311), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 58/64 (90%), Positives = 61/64 (95%)

Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYYETGSIRPRAIGGSKPRVATAEVVSKIS YKRECPSIFAWEIRDRLLQE VC+ND
Sbjct: 108 ILGRYYETGSIRPRAIGGSKPRVATAEVVSKISQYKRECPSIFAWEIRDRLLQENVCTND 167

Query: 70  NIPS 73
           NIPS
Sbjct: 168 NIPS 171

Involved in eye morphogenesis.
Drosophila melanogaster (taxid: 7227)

>sp|P55864|PAX6_XENLA Paired box protein Pax-6 OS=Xenopus laevis GN=pax6 PE=2 SV=1

 Score =  122 bits (305), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 56/64 (87%), Positives = 61/64 (95%)

Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYYETGSIRPRAIGGSKPRVAT EVV+KI+HYKRECPSIFAWEIRDRLL EGVC+ND
Sbjct: 56  ILGRYYETGSIRPRAIGGSKPRVATPEVVNKIAHYKRECPSIFAWEIRDRLLSEGVCTND 115

Query: 70  NIPS 73
           NIPS
Sbjct: 116 NIPS 119

May be a transcription factor with important functions in eye and nasal development.

Xenopus laevis (taxid: 8355)

>sp|P63015|PAX6_MOUSE Paired box protein Pax-6 OS=Mus musculus GN=Pax6 PE=1 SV=1

 Score =  120 bits (302), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 56/64 (87%), Positives = 60/64 (93%)

Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYYETGSIRPRAIGGSKPRVAT EVVSKI+ YKRECPSIFAWEIRDRLL EGVC+ND
Sbjct: 56  ILGRYYETGSIRPRAIGGSKPRVATPEVVSKIAQYKRECPSIFAWEIRDRLLSEGVCTND 115

Query: 70  NIPS 73
           NIPS
Sbjct: 116 NIPS 119

Transcription factor with important functions in the development of the eye, nose, central nervous system and pancreas. Required for the differentiation of pancreatic islet alpha cells. Competes with PAX4 in binding to a common element in the glucagon, insulin and somatostatin promoters. Regulates specification of the ventral neuron subtypes by establishing the correct progenitor domains.

Mus musculus (taxid: 10090)

>sp|P26367|PAX6_HUMAN Paired box protein Pax-6 OS=Homo sapiens GN=PAX6 PE=1 SV=2

 Score =  120 bits (302), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 56/64 (87%), Positives = 60/64 (93%)

Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYYETGSIRPRAIGGSKPRVAT EVVSKI+ YKRECPSIFAWEIRDRLL EGVC+ND
Sbjct: 56  ILGRYYETGSIRPRAIGGSKPRVATPEVVSKIAQYKRECPSIFAWEIRDRLLSEGVCTND 115

Query: 70  NIPS 73
           NIPS
Sbjct: 116 NIPS 119

Transcription factor with important functions in the development of the eye, nose, central nervous system and pancreas. Required for the differentiation of pancreatic islet alpha cells (By similarity). Competes with PAX4 in binding to a common element in the glucagon, insulin and somatostatin promoters. Regulates specification of the ventral neuron subtypes by establishing the correct progenitor domains (By similarity). Isoform 5a appears to function as a molecular switch that specifies target genes.

Homo sapiens (taxid: 9606)

>sp|Q1LZF1|PAX6_BOVIN Paired box protein Pax-6 OS=Bos taurus GN=PAX6 PE=2 SV=1

 Score =  120 bits (302), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 56/64 (87%), Positives = 60/64 (93%)

Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYYETGSIRPRAIGGSKPRVAT EVVSKI+ YKRECPSIFAWEIRDRLL EGVC+ND
Sbjct: 56  ILGRYYETGSIRPRAIGGSKPRVATPEVVSKIAQYKRECPSIFAWEIRDRLLSEGVCTND 115

Query: 70  NIPS 73
           NIPS
Sbjct: 116 NIPS 119

Transcription factor with important functions in the development of the eye, nose, central nervous system and pancreas. Required for the differentiation of pancreatic islet alpha cells. Competes with PAX4 in binding to a common element in the glucagon, insulin and somatostatin promoters. Regulates specification of the ventral neuron subtypes by establishing the correct progenitor domains.

Bos taurus (taxid: 9913)

>sp|P63016|PAX6_RAT Paired box protein Pax-6 OS=Rattus norvegicus GN=Pax6 PE=2 SV=1

 Score =  120 bits (302), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 56/64 (87%), Positives = 60/64 (93%)

Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYYETGSIRPRAIGGSKPRVAT EVVSKI+ YKRECPSIFAWEIRDRLL EGVC+ND
Sbjct: 56  ILGRYYETGSIRPRAIGGSKPRVATPEVVSKIAQYKRECPSIFAWEIRDRLLSEGVCTND 115

Query: 70  NIPS 73
           NIPS
Sbjct: 116 NIPS 119

Transcription factor with important functions in the development of the eye, nose, central nervous system and pancreas. Required for the differentiation of pancreatic islet alpha cells. Competes with PAX4 in binding to a common element in the glucagon, insulin and somatostatin promoters (By similarity). Regulates specification of the ventral neuron subtypes by establishing the correct progenitor domains.

Rattus norvegicus (taxid: 10116)

>sp|P47238|PAX6_COTJA Paired box protein Pax-6 OS=Coturnix coturnix japonica GN=PAX6 PE=2 SV=1

 Score =  120 bits (301), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 56/64 (87%), Positives = 60/64 (93%)

Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYYETGSIRPRAIGGSKPRVAT EVVSKI+ YKRECPSIFAWEIRDRLL EGVC+ND
Sbjct: 56  ILGRYYETGSIRPRAIGGSKPRVATPEVVSKIAQYKRECPSIFAWEIRDRLLSEGVCTND 115

Query: 70  NIPS 73
           NIPS
Sbjct: 116 NIPS 119

May be a transcription factor with important functions in eye and nasal development.

Coturnix coturnix japonica (taxid: 93934)

>sp|P26630|PAX6_DANRE Paired box protein Pax-6 OS=Danio rerio GN=pax6a PE=2 SV=1

 Score =  119 bits (299), Expect = 4e-27,   Method: Composition-based stats.
 Identities = 55/64 (85%), Positives = 59/64 (92%)

Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYYETGSIRPRAIGGSKPRVAT EVV KI+ YKRECPSIFAWEIRDRLL EGVC+ND
Sbjct: 75  ILGRYYETGSIRPRAIGGSKPRVATPEVVGKIAQYKRECPSIFAWEIRDRLLSEGVCTND 134

Query: 70  NIPS 73
           NIPS
Sbjct: 135 NIPS 138

Transcription factor expressed in spatially restricted regions of the neural tube during embryonic development.

Danio rerio (taxid: 7955)

>sp|O73917|PAX6_ORYLA Paired box protein Pax-6 OS=Oryzias latipes GN=pax6 PE=2 SV=1

 Score =  119 bits (299), Expect = 4e-27,   Method: Composition-based stats.
 Identities = 54/64 (84%), Positives = 60/64 (93%)

Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYYETGSIRPRAIGGSKPRVAT EVV+KI+ YKRECPSIFAWEIRDRLL EG+C+ND
Sbjct: 75  ILGRYYETGSIRPRAIGGSKPRVATPEVVAKIAQYKRECPSIFAWEIRDRLLSEGICTND 134

Query: 70  NIPS 73
           NIPS
Sbjct: 135 NIPS 138

May be a transcription factor with important functions in eye and nasal development.

Oryzias latipes (taxid: 8090)

>sp|A0JMA6|PAX8_XENTR Paired box protein Pax-8 (Fragment) OS=Xenopus tropicalis GN=pax8 PE=2 SV=2

 Score =  102 bits (253), Expect = 1e-21,   Method: Composition-based stats.
 Identities = 45/64 (70%), Positives = 53/64 (82%)

Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYYETGSIRP  IGGSKP+VAT +VV KI  YKR+ P++FAWEIRDRLL EGVC ND
Sbjct: 70  ILGRYYETGSIRPGVIGGSKPKVATPKVVEKIGDYKRQNPTMFAWEIRDRLLAEGVCDND 129

Query: 70  NIPS 73
            +PS
Sbjct: 130 TVPS 133

Probable transcription factor. Involved in kidney development, acting synergistically with lhx1/lim-1 to establish the pronephric primordium in late gastrulae/early neurulae.

Xenopus tropicalis (taxid: 8364)

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	100
328719783	613	PREDICTED: paired box protein Pax-6-like	0.64	0.104	0.937	2e-28
328719785	594	PREDICTED: paired box protein Pax-6-like	0.64	0.107	0.937	2e-28
195402299	906	eyeless [Drosophila virilis] gi|19415595	0.64	0.070	0.906	7e-28
263359659	909	hypothetical protein DVIR88_6g0032 [Dros	0.64	0.070	0.906	8e-28
380013541	537	PREDICTED: proton-coupled amino acid tra	0.64	0.119	0.906	9e-28
195450767	951	GK13702 [Drosophila willistoni] gi|19416	0.64	0.067	0.906	1e-27
340728299	826	PREDICTED: paired box protein Pax-6-like	0.64	0.077	0.906	1e-27
195133952	891	GI14081 [Drosophila mojavensis] gi|19391	0.64	0.071	0.906	2e-27
194768292	900	GF22818 [Drosophila ananassae] gi|190618	0.64	0.071	0.906	2e-27
350403203	796	PREDICTED: paired box protein Pax-6-like	0.64	0.080	0.906	2e-27

>gi|328719783|ref|XP_003246858.1| PREDICTED: paired box protein Pax-6-like isoform 1 [Acyrthosiphon pisum] gi|328719787|ref|XP_003246860.1| PREDICTED: paired box protein Pax-6-like isoform 3 [Acyrthosiphon pisum]

 Score =  129 bits (325), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 60/64 (93%), Positives = 62/64 (96%)

Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYYETGSIRPRAIGGSKPRVATAEVVSKIS YKRECPSIFAWEIRDRLLQEGVCSND
Sbjct: 124 ILGRYYETGSIRPRAIGGSKPRVATAEVVSKISQYKRECPSIFAWEIRDRLLQEGVCSND 183

Query: 70  NIPS 73
           NIPS
Sbjct: 184 NIPS 187

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328719785|ref|XP_003246859.1| PREDICTED: paired box protein Pax-6-like isoform 2 [Acyrthosiphon pisum]

 Score =  129 bits (325), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 60/64 (93%), Positives = 62/64 (96%)

Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYYETGSIRPRAIGGSKPRVATAEVVSKIS YKRECPSIFAWEIRDRLLQEGVCSND
Sbjct: 105 ILGRYYETGSIRPRAIGGSKPRVATAEVVSKISQYKRECPSIFAWEIRDRLLQEGVCSND 164

Query: 70  NIPS 73
           NIPS
Sbjct: 165 NIPS 168

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195402299|ref|XP_002059744.1| eyeless [Drosophila virilis] gi|194155958|gb|EDW71142.1| eyeless [Drosophila virilis]

 Score =  127 bits (320), Expect = 7e-28,   Method: Composition-based stats.
 Identities = 58/64 (90%), Positives = 61/64 (95%)

Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYYETGSIRPRAIGGSKPRVATAEVVSKIS YKRECPSIFAWEIRDRLLQE VC+ND
Sbjct: 151 ILGRYYETGSIRPRAIGGSKPRVATAEVVSKISQYKRECPSIFAWEIRDRLLQESVCTND 210

Query: 70  NIPS 73
           NIPS
Sbjct: 211 NIPS 214

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|263359659|gb|ACY70495.1| hypothetical protein DVIR88_6g0032 [Drosophila virilis]

 Score =  127 bits (319), Expect = 8e-28,   Method: Composition-based stats.
 Identities = 58/64 (90%), Positives = 61/64 (95%)

Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYYETGSIRPRAIGGSKPRVATAEVVSKIS YKRECPSIFAWEIRDRLLQE VC+ND
Sbjct: 151 ILGRYYETGSIRPRAIGGSKPRVATAEVVSKISQYKRECPSIFAWEIRDRLLQESVCTND 210

Query: 70  NIPS 73
           NIPS
Sbjct: 211 NIPS 214

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380013541|ref|XP_003690812.1| PREDICTED: proton-coupled amino acid transporter 2-like [Apis florea]

 Score =  127 bits (319), Expect = 9e-28,   Method: Composition-based stats.
 Identities = 58/64 (90%), Positives = 61/64 (95%)

Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYYETGSIRPRAIGGSKPRVATAEVVSKIS YK ECPSIFAWEIRDRLLQEGVC+ND
Sbjct: 365 ILGRYYETGSIRPRAIGGSKPRVATAEVVSKISLYKSECPSIFAWEIRDRLLQEGVCTND 424

Query: 70  NIPS 73
           NIPS
Sbjct: 425 NIPS 428

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195450767|ref|XP_002072624.1| GK13702 [Drosophila willistoni] gi|194168709|gb|EDW83610.1| GK13702 [Drosophila willistoni]

 Score =  126 bits (317), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 58/64 (90%), Positives = 61/64 (95%)

Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYYETGSIRPRAIGGSKPRVATAEVVSKIS YKRECPSIFAWEIRDRLLQE VC+ND
Sbjct: 151 ILGRYYETGSIRPRAIGGSKPRVATAEVVSKISQYKRECPSIFAWEIRDRLLQENVCTND 210

Query: 70  NIPS 73
           NIPS
Sbjct: 211 NIPS 214

Source: Drosophila willistoni

Species: Drosophila willistoni

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340728299|ref|XP_003402463.1| PREDICTED: paired box protein Pax-6-like [Bombus terrestris]

 Score =  126 bits (317), Expect = 1e-27,   Method: Composition-based stats.
 Identities = 58/64 (90%), Positives = 61/64 (95%)

Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYYETGSIRPRAIGGSKPRVATAEVVSKIS YK ECPSIFAWEIRDRLLQEGVC+ND
Sbjct: 337 ILGRYYETGSIRPRAIGGSKPRVATAEVVSKISLYKSECPSIFAWEIRDRLLQEGVCTND 396

Query: 70  NIPS 73
           NIPS
Sbjct: 397 NIPS 400

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195133952|ref|XP_002011402.1| GI14081 [Drosophila mojavensis] gi|193912025|gb|EDW10892.1| GI14081 [Drosophila mojavensis]

 Score =  126 bits (316), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 58/64 (90%), Positives = 61/64 (95%)

Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYYETGSIRPRAIGGSKPRVATAEVVSKIS YKRECPSIFAWEIRDRLLQE VC+ND
Sbjct: 150 ILGRYYETGSIRPRAIGGSKPRVATAEVVSKISQYKRECPSIFAWEIRDRLLQENVCTND 209

Query: 70  NIPS 73
           NIPS
Sbjct: 210 NIPS 213

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194768292|ref|XP_001966246.1| GF22818 [Drosophila ananassae] gi|190618548|gb|EDV34072.1| GF22818 [Drosophila ananassae]

 Score =  126 bits (316), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 58/64 (90%), Positives = 61/64 (95%)

Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYYETGSIRPRAIGGSKPRVATAEVVSKIS YKRECPSIFAWEIRDRLLQE VC+ND
Sbjct: 152 ILGRYYETGSIRPRAIGGSKPRVATAEVVSKISQYKRECPSIFAWEIRDRLLQENVCTND 211

Query: 70  NIPS 73
           NIPS
Sbjct: 212 NIPS 215

Source: Drosophila ananassae

Species: Drosophila ananassae

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350403203|ref|XP_003486730.1| PREDICTED: paired box protein Pax-6-like [Bombus impatiens]

 Score =  126 bits (316), Expect = 2e-27,   Method: Composition-based stats.
 Identities = 58/64 (90%), Positives = 61/64 (95%)

Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYYETGSIRPRAIGGSKPRVATAEVVSKIS YK ECPSIFAWEIRDRLLQEGVC+ND
Sbjct: 301 ILGRYYETGSIRPRAIGGSKPRVATAEVVSKISLYKSECPSIFAWEIRDRLLQEGVCTND 360

Query: 70  NIPS 73
           NIPS
Sbjct: 361 NIPS 364

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

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	100
UNIPROTKB|F1M6K5	210	Pax6 "Paired box protein Pax-6	0.64	0.304	0.875	1.5e-26
UNIPROTKB|F1NF66	422	PAX6 "Paired box protein Pax-6	0.64	0.151	0.875	1.5e-26
UNIPROTKB|F1NXF3	436	PAX6 "Paired box protein Pax-6	0.64	0.146	0.875	1.5e-26
UNIPROTKB|F1NXF7	186	PAX6 "Paired box protein Pax-6	0.64	0.344	0.875	1.5e-26
UNIPROTKB|Q1LZF1	422	PAX6 "Paired box protein Pax-6	0.64	0.151	0.875	1.5e-26
UNIPROTKB|G3V3Q9	377	PAX6 "Paired box protein Pax-6	0.64	0.169	0.875	1.5e-26
UNIPROTKB|P26367	422	PAX6 "Paired box protein Pax-6	0.64	0.151	0.875	1.5e-26
UNIPROTKB|F2Z5M7	422	PAX6 "Uncharacterized protein"	0.64	0.151	0.875	1.5e-26
MGI|MGI:97490	422	Pax6 "paired box gene 6" [Mus	0.64	0.151	0.875	1.5e-26
RGD|3258	422	Pax6 "paired box 6" [Rattus no	0.64	0.151	0.875	1.5e-26

UNIPROTKB|F1M6K5 Pax6 "Paired box protein Pax-6" [Rattus norvegicus (taxid:10116)]

 Score = 299 (110.3 bits), Expect = 1.5e-26, P = 1.5e-26
 Identities = 56/64 (87%), Positives = 60/64 (93%)

Query:    10 LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
             ++ RYYETGSIRPRAIGGSKPRVAT EVVSKI+ YKRECPSIFAWEIRDRLL EGVC+ND
Sbjct:    29 ILGRYYETGSIRPRAIGGSKPRVATPEVVSKIAQYKRECPSIFAWEIRDRLLSEGVCTND 88

Query:    70 NIPS 73
             NIPS
Sbjct:    89 NIPS 92

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

GO:0005634 "nucleus" evidence=IEA

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

GO:0007275 "multicellular organismal development" evidence=IEA

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

UNIPROTKB|F1NF66 PAX6 "Paired box protein Pax-6" [Gallus gallus (taxid:9031)]

 Score = 299 (110.3 bits), Expect = 1.5e-26, P = 1.5e-26
 Identities = 56/64 (87%), Positives = 60/64 (93%)

Query:    10 LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
             ++ RYYETGSIRPRAIGGSKPRVAT EVVSKI+ YKRECPSIFAWEIRDRLL EGVC+ND
Sbjct:    56 ILGRYYETGSIRPRAIGGSKPRVATPEVVSKIAQYKRECPSIFAWEIRDRLLSEGVCTND 115

Query:    70 NIPS 73
             NIPS
Sbjct:   116 NIPS 119

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:0007275 "multicellular organismal development" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|F1NXF3 PAX6 "Paired box protein Pax-6" [Gallus gallus (taxid:9031)]

 Score = 299 (110.3 bits), Expect = 1.5e-26, P = 1.5e-26
 Identities = 56/64 (87%), Positives = 60/64 (93%)

Query:    10 LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
             ++ RYYETGSIRPRAIGGSKPRVAT EVVSKI+ YKRECPSIFAWEIRDRLL EGVC+ND
Sbjct:    70 ILGRYYETGSIRPRAIGGSKPRVATPEVVSKIAQYKRECPSIFAWEIRDRLLSEGVCTND 129

Query:    70 NIPS 73
             NIPS
Sbjct:   130 NIPS 133

GO:0000790 "nuclear chromatin" evidence=IEA

GO:0000979 "RNA polymerase II core promoter sequence-specific DNA binding" evidence=IEA

GO:0000981 "sequence-specific DNA binding RNA polymerase II transcription factor activity" evidence=IEA

GO:0001568 "blood vessel development" evidence=IEA

GO:0001709 "cell fate determination" evidence=IEA

GO:0001764 "neuron migration" evidence=IEA

GO:0002052 "positive regulation of neuroblast proliferation" evidence=IEA

GO:0002088 "lens development in camera-type eye" evidence=IEA

GO:0003322 "pancreatic A cell development" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0007224 "smoothened signaling pathway" evidence=IEA

GO:0007411 "axon guidance" evidence=IEA

GO:0007435 "salivary gland morphogenesis" evidence=IEA

GO:0008134 "transcription factor binding" evidence=IEA

GO:0009611 "response to wounding" evidence=IEA

GO:0009950 "dorsal/ventral axis specification" evidence=IEA

GO:0019901 "protein kinase binding" evidence=IEA

GO:0021778 "oligodendrocyte cell fate specification" evidence=IEA

GO:0021796 "cerebral cortex regionalization" evidence=IEA

GO:0021797 "forebrain anterior/posterior pattern specification" evidence=IEA

GO:0021798 "forebrain dorsal/ventral pattern formation" evidence=IEA

GO:0021902 "commitment of neuronal cell to specific neuron type in forebrain" evidence=IEA

GO:0021905 "forebrain-midbrain boundary formation" evidence=IEA

GO:0021912 "regulation of transcription from RNA polymerase II promoter involved in spinal cord motor neuron fate specification" evidence=IEA

GO:0021913 "regulation of transcription from RNA polymerase II promoter involved in ventral spinal cord interneuron specification" evidence=IEA

GO:0021918 "regulation of transcription from RNA polymerase II promoter involved in somatic motor neuron fate commitment" evidence=IEA

GO:0021983 "pituitary gland development" evidence=IEA

GO:0023019 "signal transduction involved in regulation of gene expression" evidence=IEA

GO:0030216 "keratinocyte differentiation" evidence=IEA

GO:0030334 "regulation of cell migration" evidence=IEA

GO:0030858 "positive regulation of epithelial cell differentiation" evidence=IEA

GO:0031625 "ubiquitin protein ligase binding" evidence=IEA

GO:0032808 "lacrimal gland development" evidence=IEA

GO:0033365 "protein localization to organelle" evidence=IEA

GO:0035035 "histone acetyltransferase binding" evidence=IEA

GO:0042462 "eye photoreceptor cell development" evidence=IEA

GO:0042593 "glucose homeostasis" evidence=IEA

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

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

GO:0048505 "regulation of timing of cell differentiation" evidence=IEA

GO:0048596 "embryonic camera-type eye morphogenesis" evidence=IEA

GO:0048708 "astrocyte differentiation" evidence=IEA

GO:0050680 "negative regulation of epithelial cell proliferation" evidence=IEA

GO:0061072 "iris morphogenesis" evidence=IEA

GO:0061303 "cornea development in camera-type eye" evidence=IEA

GO:0070410 "co-SMAD binding" evidence=IEA

GO:0070412 "R-SMAD binding" evidence=IEA

GO:0071837 "HMG box domain binding" evidence=IEA

UNIPROTKB|F1NXF7 PAX6 "Paired box protein Pax-6" [Gallus gallus (taxid:9031)]

 Score = 299 (110.3 bits), Expect = 1.5e-26, P = 1.5e-26
 Identities = 56/64 (87%), Positives = 60/64 (93%)

Query:    10 LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
             ++ RYYETGSIRPRAIGGSKPRVAT EVVSKI+ YKRECPSIFAWEIRDRLL EGVC+ND
Sbjct:    52 ILGRYYETGSIRPRAIGGSKPRVATPEVVSKIAQYKRECPSIFAWEIRDRLLSEGVCTND 111

Query:    70 NIPS 73
             NIPS
Sbjct:   112 NIPS 115

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:0007275 "multicellular organismal development" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|Q1LZF1 PAX6 "Paired box protein Pax-6" [Bos taurus (taxid:9913)]

 Score = 299 (110.3 bits), Expect = 1.5e-26, P = 1.5e-26
 Identities = 56/64 (87%), Positives = 60/64 (93%)

Query:    10 LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
             ++ RYYETGSIRPRAIGGSKPRVAT EVVSKI+ YKRECPSIFAWEIRDRLL EGVC+ND
Sbjct:    56 ILGRYYETGSIRPRAIGGSKPRVATPEVVSKIAQYKRECPSIFAWEIRDRLLSEGVCTND 115

Query:    70 NIPS 73
             NIPS
Sbjct:   116 NIPS 119

GO:0016567 "protein ubiquitination" evidence=ISS

GO:0050768 "negative regulation of neurogenesis" evidence=ISS

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0071837 "HMG box domain binding" evidence=IEA

GO:0070412 "R-SMAD binding" evidence=IEA

GO:0070410 "co-SMAD binding" evidence=IEA

GO:0061303 "cornea development in camera-type eye" evidence=IEA

GO:0061072 "iris morphogenesis" evidence=IEA

GO:0050680 "negative regulation of epithelial cell proliferation" evidence=IEA

GO:0048708 "astrocyte differentiation" evidence=IEA

GO:0048596 "embryonic camera-type eye morphogenesis" evidence=IEA

GO:0048505 "regulation of timing of cell differentiation" 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:0042593 "glucose homeostasis" evidence=IEA

GO:0042462 "eye photoreceptor cell development" evidence=IEA

GO:0035035 "histone acetyltransferase binding" evidence=IEA

GO:0033365 "protein localization to organelle" evidence=IEA

GO:0032808 "lacrimal gland development" evidence=IEA

GO:0031625 "ubiquitin protein ligase binding" evidence=IEA

GO:0030858 "positive regulation of epithelial cell differentiation" evidence=IEA

GO:0030334 "regulation of cell migration" evidence=IEA

GO:0030216 "keratinocyte differentiation" evidence=IEA

GO:0023019 "signal transduction involved in regulation of gene expression" evidence=IEA

GO:0021983 "pituitary gland development" evidence=IEA

GO:0021918 "regulation of transcription from RNA polymerase II promoter involved in somatic motor neuron fate commitment" evidence=IEA

GO:0021913 "regulation of transcription from RNA polymerase II promoter involved in ventral spinal cord interneuron specification" evidence=IEA

GO:0021912 "regulation of transcription from RNA polymerase II promoter involved in spinal cord motor neuron fate specification" evidence=IEA

GO:0021905 "forebrain-midbrain boundary formation" evidence=IEA

GO:0021902 "commitment of neuronal cell to specific neuron type in forebrain" evidence=IEA

GO:0021798 "forebrain dorsal/ventral pattern formation" evidence=IEA

GO:0021797 "forebrain anterior/posterior pattern specification" evidence=IEA

GO:0021796 "cerebral cortex regionalization" evidence=IEA

GO:0021778 "oligodendrocyte cell fate specification" evidence=IEA

GO:0019901 "protein kinase binding" evidence=IEA

GO:0009950 "dorsal/ventral axis specification" evidence=IEA

GO:0009611 "response to wounding" evidence=IEA

GO:0008134 "transcription factor binding" evidence=IEA

GO:0007435 "salivary gland morphogenesis" evidence=IEA

GO:0007411 "axon guidance" evidence=IEA

GO:0007224 "smoothened signaling pathway" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0003322 "pancreatic A cell development" evidence=IEA

GO:0002088 "lens development in camera-type eye" evidence=IEA

GO:0002052 "positive regulation of neuroblast proliferation" evidence=IEA

GO:0001764 "neuron migration" evidence=IEA

GO:0001709 "cell fate determination" evidence=IEA

GO:0001568 "blood vessel development" evidence=IEA

GO:0000981 "sequence-specific DNA binding RNA polymerase II transcription factor activity" evidence=IEA

GO:0000979 "RNA polymerase II core promoter sequence-specific DNA binding" evidence=IEA

GO:0000790 "nuclear chromatin" evidence=IEA

UNIPROTKB|G3V3Q9 PAX6 "Paired box protein Pax-6" [Homo sapiens (taxid:9606)]

 Score = 299 (110.3 bits), Expect = 1.5e-26, P = 1.5e-26
 Identities = 56/64 (87%), Positives = 60/64 (93%)

Query:    10 LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
             ++ RYYETGSIRPRAIGGSKPRVAT EVVSKI+ YKRECPSIFAWEIRDRLL EGVC+ND
Sbjct:    11 ILGRYYETGSIRPRAIGGSKPRVATPEVVSKIAQYKRECPSIFAWEIRDRLLSEGVCTND 70

Query:    70 NIPS 73
             NIPS
Sbjct:    71 NIPS 74

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:0007275 "multicellular organismal development" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|P26367 PAX6 "Paired box protein Pax-6" [Homo sapiens (taxid:9606)]

 Score = 299 (110.3 bits), Expect = 1.5e-26, P = 1.5e-26
 Identities = 56/64 (87%), Positives = 60/64 (93%)

Query:    10 LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
             ++ RYYETGSIRPRAIGGSKPRVAT EVVSKI+ YKRECPSIFAWEIRDRLL EGVC+ND
Sbjct:    56 ILGRYYETGSIRPRAIGGSKPRVATPEVVSKIAQYKRECPSIFAWEIRDRLLSEGVCTND 115

Query:    70 NIPS 73
             NIPS
Sbjct:   116 NIPS 119

GO:0001709 "cell fate determination" evidence=IEA

GO:0001764 "neuron migration" evidence=IEA

GO:0002052 "positive regulation of neuroblast proliferation" evidence=IEA

GO:0002088 "lens development in camera-type eye" evidence=IEA

GO:0003680 "AT DNA binding" evidence=IEA

GO:0003690 "double-stranded DNA binding" evidence=IEA

GO:0007224 "smoothened signaling pathway" evidence=IEA

GO:0007411 "axon guidance" evidence=IEA

GO:0007435 "salivary gland morphogenesis" evidence=IEA

GO:0009950 "dorsal/ventral axis specification" evidence=IEA

GO:0021778 "oligodendrocyte cell fate specification" evidence=IEA

GO:0021796 "cerebral cortex regionalization" evidence=IEA

GO:0021797 "forebrain anterior/posterior pattern specification" evidence=IEA

GO:0021798 "forebrain dorsal/ventral pattern formation" evidence=IEA

GO:0021902 "commitment of neuronal cell to specific neuron type in forebrain" evidence=IEA

GO:0021905 "forebrain-midbrain boundary formation" evidence=IEA

GO:0021912 "regulation of transcription from RNA polymerase II promoter involved in spinal cord motor neuron fate specification" evidence=IEA

GO:0021913 "regulation of transcription from RNA polymerase II promoter involved in ventral spinal cord interneuron specification" evidence=IEA

GO:0021918 "regulation of transcription from RNA polymerase II promoter involved in somatic motor neuron fate commitment" evidence=IEA

GO:0021983 "pituitary gland development" evidence=IEA

GO:0023019 "signal transduction involved in regulation of gene expression" evidence=IEA

GO:0030216 "keratinocyte differentiation" evidence=IEA

GO:0030334 "regulation of cell migration" evidence=IEA

GO:0030858 "positive regulation of epithelial cell differentiation" evidence=IEA

GO:0030902 "hindbrain development" evidence=IEA

GO:0031625 "ubiquitin protein ligase binding" evidence=IEA

GO:0032808 "lacrimal gland development" evidence=IEA

GO:0033365 "protein localization to organelle" evidence=IEA

GO:0042462 "eye photoreceptor cell development" evidence=IEA

GO:0042660 "positive regulation of cell fate specification" evidence=IEA

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

GO:0048505 "regulation of timing of cell differentiation" evidence=IEA

GO:0048596 "embryonic camera-type eye morphogenesis" evidence=IEA

GO:0048708 "astrocyte differentiation" evidence=IEA

GO:0050680 "negative regulation of epithelial cell proliferation" evidence=IEA

GO:0070410 "co-SMAD binding" evidence=IEA

GO:0071837 "HMG box domain binding" evidence=IEA

GO:0042593 "glucose homeostasis" evidence=IMP

GO:0061072 "iris morphogenesis" evidence=IMP

GO:0061303 "cornea development in camera-type eye" evidence=IMP

GO:0001568 "blood vessel development" evidence=IMP

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0050768 "negative regulation of neurogenesis" evidence=ISS

GO:0048663 "neuron fate commitment" evidence=NAS

GO:0009611 "response to wounding" evidence=IEP

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

GO:0007601 "visual perception" evidence=TAS

GO:0003677 "DNA binding" evidence=TAS

GO:0009887 "organ morphogenesis" evidence=TAS

GO:0007417 "central nervous system development" evidence=TAS

GO:0001654 "eye development" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

GO:0070412 "R-SMAD binding" evidence=IPI

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

GO:0000790 "nuclear chromatin" evidence=IDA

GO:0000981 "sequence-specific DNA binding RNA polymerase II transcription factor activity" evidence=IDA

GO:0000979 "RNA polymerase II core promoter sequence-specific DNA binding" evidence=IDA

GO:0003322 "pancreatic A cell development" evidence=IMP

GO:0010628 "positive regulation of gene expression" evidence=IMP

GO:0006366 "transcription from RNA polymerase II promoter" evidence=IMP

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

GO:0008134 "transcription factor binding" evidence=ISS

GO:0019901 "protein kinase binding" evidence=ISS

GO:0035035 "histone acetyltransferase binding" evidence=ISS

GO:0016567 "protein ubiquitination" evidence=ISS

GO:0005730 "nucleolus" evidence=IDA

UNIPROTKB|F2Z5M7 PAX6 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 299 (110.3 bits), Expect = 1.5e-26, P = 1.5e-26
 Identities = 56/64 (87%), Positives = 60/64 (93%)

Query:    10 LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
             ++ RYYETGSIRPRAIGGSKPRVAT EVVSKI+ YKRECPSIFAWEIRDRLL EGVC+ND
Sbjct:    56 ILGRYYETGSIRPRAIGGSKPRVATPEVVSKIAQYKRECPSIFAWEIRDRLLSEGVCTND 115

Query:    70 NIPS 73
             NIPS
Sbjct:   116 NIPS 119

GO:0071837 "HMG box domain binding" evidence=IEA

GO:0070412 "R-SMAD binding" evidence=IEA

GO:0070410 "co-SMAD binding" evidence=IEA

GO:0061303 "cornea development in camera-type eye" evidence=IEA

GO:0061072 "iris morphogenesis" evidence=IEA

GO:0050680 "negative regulation of epithelial cell proliferation" evidence=IEA

GO:0048708 "astrocyte differentiation" evidence=IEA

GO:0048596 "embryonic camera-type eye morphogenesis" evidence=IEA

GO:0048505 "regulation of timing of cell differentiation" 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:0042593 "glucose homeostasis" evidence=IEA

GO:0042462 "eye photoreceptor cell development" evidence=IEA

GO:0035035 "histone acetyltransferase binding" evidence=IEA

GO:0033365 "protein localization to organelle" evidence=IEA

GO:0032808 "lacrimal gland development" evidence=IEA

GO:0031625 "ubiquitin protein ligase binding" evidence=IEA

GO:0030858 "positive regulation of epithelial cell differentiation" evidence=IEA

GO:0030334 "regulation of cell migration" evidence=IEA

GO:0030216 "keratinocyte differentiation" evidence=IEA

GO:0023019 "signal transduction involved in regulation of gene expression" evidence=IEA

GO:0021983 "pituitary gland development" evidence=IEA

GO:0021918 "regulation of transcription from RNA polymerase II promoter involved in somatic motor neuron fate commitment" evidence=IEA

GO:0021913 "regulation of transcription from RNA polymerase II promoter involved in ventral spinal cord interneuron specification" evidence=IEA

GO:0021912 "regulation of transcription from RNA polymerase II promoter involved in spinal cord motor neuron fate specification" evidence=IEA

GO:0021905 "forebrain-midbrain boundary formation" evidence=IEA

GO:0021902 "commitment of neuronal cell to specific neuron type in forebrain" evidence=IEA

GO:0021798 "forebrain dorsal/ventral pattern formation" evidence=IEA

GO:0021797 "forebrain anterior/posterior pattern specification" evidence=IEA

GO:0021796 "cerebral cortex regionalization" evidence=IEA

GO:0021778 "oligodendrocyte cell fate specification" evidence=IEA

GO:0019901 "protein kinase binding" evidence=IEA

GO:0009950 "dorsal/ventral axis specification" evidence=IEA

GO:0009611 "response to wounding" evidence=IEA

GO:0008134 "transcription factor binding" evidence=IEA

GO:0007435 "salivary gland morphogenesis" evidence=IEA

GO:0007411 "axon guidance" evidence=IEA

GO:0007224 "smoothened signaling pathway" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0003322 "pancreatic A cell development" evidence=IEA

GO:0002088 "lens development in camera-type eye" evidence=IEA

GO:0002052 "positive regulation of neuroblast proliferation" evidence=IEA

GO:0001764 "neuron migration" evidence=IEA

GO:0001709 "cell fate determination" evidence=IEA

GO:0001568 "blood vessel development" evidence=IEA

GO:0000981 "sequence-specific DNA binding RNA polymerase II transcription factor activity" evidence=IEA

GO:0000979 "RNA polymerase II core promoter sequence-specific DNA binding" evidence=IEA

GO:0000790 "nuclear chromatin" evidence=IEA

MGI|MGI:97490 Pax6 "paired box gene 6" [Mus musculus (taxid:10090)]

 Score = 299 (110.3 bits), Expect = 1.5e-26, P = 1.5e-26
 Identities = 56/64 (87%), Positives = 60/64 (93%)

Query:    10 LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
             ++ RYYETGSIRPRAIGGSKPRVAT EVVSKI+ YKRECPSIFAWEIRDRLL EGVC+ND
Sbjct:    56 ILGRYYETGSIRPRAIGGSKPRVATPEVVSKIAQYKRECPSIFAWEIRDRLLSEGVCTND 115

Query:    70 NIPS 73
             NIPS
Sbjct:   116 NIPS 119

GO:0000790 "nuclear chromatin" evidence=ISO;IDA

GO:0000979 "RNA polymerase II core promoter sequence-specific DNA binding" evidence=ISO;IDA

GO:0000981 "sequence-specific DNA binding RNA polymerase II transcription factor activity" evidence=ISO;IDA

GO:0001568 "blood vessel development" evidence=ISO

GO:0001709 "cell fate determination" evidence=IMP

GO:0001764 "neuron migration" evidence=ISO;IMP

GO:0002052 "positive regulation of neuroblast proliferation" evidence=IMP

GO:0002088 "lens development in camera-type eye" evidence=IMP

GO:0003322 "pancreatic A cell development" evidence=ISO;IMP

GO:0003677 "DNA binding" evidence=IDA

GO:0003680 "AT DNA binding" evidence=ISO

GO:0003690 "double-stranded DNA binding" evidence=ISO

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

GO:0005515 "protein binding" evidence=IPI

GO:0005622 "intracellular" evidence=IDA

GO:0005634 "nucleus" evidence=ISO;IDA

GO:0005667 "transcription factor complex" evidence=TAS

GO:0005737 "cytoplasm" evidence=ISO

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

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

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

GO:0006366 "transcription from RNA polymerase II promoter" evidence=ISO;IMP

GO:0007224 "smoothened signaling pathway" evidence=IDA

GO:0007275 "multicellular organismal development" evidence=IEA

GO:0007409 "axonogenesis" evidence=IMP

GO:0007411 "axon guidance" evidence=IMP

GO:0007420 "brain development" evidence=ISO;IMP

GO:0007435 "salivary gland morphogenesis" evidence=IMP

GO:0008134 "transcription factor binding" evidence=IPI

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

GO:0009950 "dorsal/ventral axis specification" evidence=IMP

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

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

GO:0010468 "regulation of gene expression" evidence=IMP

GO:0010628 "positive regulation of gene expression" evidence=ISO;IMP

GO:0019901 "protein kinase binding" evidence=IPI

GO:0021543 "pallium development" evidence=IMP

GO:0021778 "oligodendrocyte cell fate specification" evidence=IMP

GO:0021796 "cerebral cortex regionalization" evidence=IMP

GO:0021797 "forebrain anterior/posterior pattern specification" evidence=IMP

GO:0021798 "forebrain dorsal/ventral pattern formation" evidence=IMP

GO:0021902 "commitment of neuronal cell to specific neuron type in forebrain" evidence=IMP

GO:0021905 "forebrain-midbrain boundary formation" evidence=IMP

GO:0021912 "regulation of transcription from RNA polymerase II promoter involved in spinal cord motor neuron fate specification" evidence=IMP

GO:0021913 "regulation of transcription from RNA polymerase II promoter involved in ventral spinal cord interneuron specification" evidence=IMP

GO:0021918 "regulation of transcription from RNA polymerase II promoter involved in somatic motor neuron fate commitment" evidence=IMP

GO:0021983 "pituitary gland development" evidence=IMP

GO:0023019 "signal transduction involved in regulation of gene expression" evidence=IDA

GO:0030154 "cell differentiation" evidence=IMP

GO:0030216 "keratinocyte differentiation" evidence=IMP

GO:0030334 "regulation of cell migration" evidence=IMP

GO:0030858 "positive regulation of epithelial cell differentiation" evidence=IMP

GO:0030900 "forebrain development" evidence=IMP

GO:0030902 "hindbrain development" evidence=ISO

GO:0031625 "ubiquitin protein ligase binding" evidence=IPI

GO:0032808 "lacrimal gland development" evidence=IMP

GO:0033365 "protein localization to organelle" evidence=IMP

GO:0035035 "histone acetyltransferase binding" evidence=IDA

GO:0042462 "eye photoreceptor cell development" evidence=IMP

GO:0042593 "glucose homeostasis" evidence=ISO

GO:0042660 "positive regulation of cell fate specification" evidence=ISO

GO:0043010 "camera-type eye development" evidence=IGI;IMP

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

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

GO:0044424 "intracellular part" evidence=IDA

GO:0045165 "cell fate commitment" evidence=IGI;IMP

GO:0045664 "regulation of neuron differentiation" evidence=ISO

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

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

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

GO:0048505 "regulation of timing of cell differentiation" evidence=IMP

GO:0048596 "embryonic camera-type eye morphogenesis" evidence=IGI

GO:0048708 "astrocyte differentiation" evidence=IMP

GO:0050678 "regulation of epithelial cell proliferation" evidence=ISO

GO:0050680 "negative regulation of epithelial cell proliferation" evidence=IMP

GO:0050767 "regulation of neurogenesis" evidence=ISO;IMP

GO:0061072 "iris morphogenesis" evidence=ISO

GO:0061303 "cornea development in camera-type eye" evidence=ISO

GO:0070410 "co-SMAD binding" evidence=IDA

GO:0070412 "R-SMAD binding" evidence=ISO;IDA

GO:0071837 "HMG box domain binding" evidence=IPI

RGD|3258 Pax6 "paired box 6" [Rattus norvegicus (taxid:10116)]

 Score = 299 (110.3 bits), Expect = 1.5e-26, P = 1.5e-26
 Identities = 56/64 (87%), Positives = 60/64 (93%)

Query:    10 LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
             ++ RYYETGSIRPRAIGGSKPRVAT EVVSKI+ YKRECPSIFAWEIRDRLL EGVC+ND
Sbjct:    56 ILGRYYETGSIRPRAIGGSKPRVATPEVVSKIAQYKRECPSIFAWEIRDRLLSEGVCTND 115

Query:    70 NIPS 73
             NIPS
Sbjct:   116 NIPS 119

GO:0000790 "nuclear chromatin" evidence=ISO;IDA

GO:0000979 "RNA polymerase II core promoter sequence-specific DNA binding" evidence=ISO;IC

GO:0000981 "sequence-specific DNA binding RNA polymerase II transcription factor activity" evidence=ISO;IC

GO:0001568 "blood vessel development" evidence=IEA;ISO

GO:0001709 "cell fate determination" evidence=IEA;ISO

GO:0001764 "neuron migration" evidence=ISO;IMP

GO:0002052 "positive regulation of neuroblast proliferation" evidence=IEA;ISO

GO:0002088 "lens development in camera-type eye" evidence=IEA;ISO

GO:0003322 "pancreatic A cell development" evidence=ISO;IMP

GO:0003677 "DNA binding" evidence=IEA;ISO

GO:0003680 "AT DNA binding" evidence=IDA

GO:0003690 "double-stranded DNA binding" evidence=IDA

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

GO:0004842 "ubiquitin-protein ligase activity" evidence=ISS

GO:0005622 "intracellular" evidence=ISO

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

GO:0005737 "cytoplasm" evidence=IEA;ISO

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

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

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

GO:0006366 "transcription from RNA polymerase II promoter" evidence=ISO;IMP

GO:0007224 "smoothened signaling pathway" evidence=IEA;ISO

GO:0007275 "multicellular organismal development" evidence=IEA

GO:0007409 "axonogenesis" evidence=ISO

GO:0007411 "axon guidance" evidence=IEA;ISO

GO:0007417 "central nervous system development" evidence=IEP

GO:0007420 "brain development" evidence=ISO;IMP

GO:0007435 "salivary gland morphogenesis" evidence=IEA;ISO

GO:0008134 "transcription factor binding" evidence=IEA;ISO

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

GO:0009611 "response to wounding" evidence=IEA;ISO

GO:0009950 "dorsal/ventral axis specification" evidence=IEA;ISO

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

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

GO:0010468 "regulation of gene expression" evidence=ISO

GO:0010628 "positive regulation of gene expression" evidence=ISO;IMP

GO:0016567 "protein ubiquitination" evidence=ISS

GO:0019901 "protein kinase binding" evidence=IEA;ISO

GO:0021543 "pallium development" evidence=ISO

GO:0021778 "oligodendrocyte cell fate specification" evidence=IEA;ISO

GO:0021796 "cerebral cortex regionalization" evidence=IEA;ISO

GO:0021797 "forebrain anterior/posterior pattern specification" evidence=IEA;ISO

GO:0021798 "forebrain dorsal/ventral pattern formation" evidence=IEA;ISO

GO:0021902 "commitment of neuronal cell to specific neuron type in forebrain" evidence=IEA;ISO

GO:0021905 "forebrain-midbrain boundary formation" evidence=IEA;ISO

GO:0021912 "regulation of transcription from RNA polymerase II promoter involved in spinal cord motor neuron fate specification" evidence=IEA;ISO

GO:0021913 "regulation of transcription from RNA polymerase II promoter involved in ventral spinal cord interneuron specification" evidence=IEA;ISO

GO:0021918 "regulation of transcription from RNA polymerase II promoter involved in somatic motor neuron fate commitment" evidence=IEA;ISO

GO:0021983 "pituitary gland development" evidence=IEA;ISO

GO:0023019 "signal transduction involved in regulation of gene expression" evidence=IEA;ISO

GO:0030154 "cell differentiation" evidence=ISO

GO:0030216 "keratinocyte differentiation" evidence=IEA;ISO

GO:0030334 "regulation of cell migration" evidence=IEA;ISO

GO:0030858 "positive regulation of epithelial cell differentiation" evidence=IEA;ISO

GO:0030900 "forebrain development" evidence=ISO

GO:0030902 "hindbrain development" evidence=IDA

GO:0031625 "ubiquitin protein ligase binding" evidence=IEA;ISO

GO:0032808 "lacrimal gland development" evidence=IEA;ISO

GO:0033365 "protein localization to organelle" evidence=IEA;ISO

GO:0035035 "histone acetyltransferase binding" evidence=IEA;ISO

GO:0042462 "eye photoreceptor cell development" evidence=IEA;ISO

GO:0042593 "glucose homeostasis" evidence=IEA;ISO

GO:0042660 "positive regulation of cell fate specification" evidence=IMP

GO:0043010 "camera-type eye development" evidence=ISO

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

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

GO:0044424 "intracellular part" evidence=ISO

GO:0045165 "cell fate commitment" evidence=ISO

GO:0045664 "regulation of neuron differentiation" evidence=IDA

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

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

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

GO:0048505 "regulation of timing of cell differentiation" evidence=IEA;ISO

GO:0048596 "embryonic camera-type eye morphogenesis" evidence=IEA;ISO

GO:0048708 "astrocyte differentiation" evidence=IEA;ISO

GO:0050678 "regulation of epithelial cell proliferation" evidence=IMP

GO:0050680 "negative regulation of epithelial cell proliferation" evidence=IEA;ISO

GO:0050767 "regulation of neurogenesis" evidence=ISO;IMP

GO:0050768 "negative regulation of neurogenesis" evidence=ISS

GO:0061072 "iris morphogenesis" evidence=IEA;ISO

GO:0061303 "cornea development in camera-type eye" evidence=IEA;ISO

GO:0070410 "co-SMAD binding" evidence=IEA;ISO

GO:0070412 "R-SMAD binding" evidence=IEA;ISO

GO:0071837 "HMG box domain binding" evidence=IEA;ISO

GO:0005730 "nucleolus" evidence=ISO

---

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)
P47240	PAX8_CANFA	No assigned EC number	0.7031	0.64	0.1394	yes	N/A
Q5R9M8	PAX8_PONAB	No assigned EC number	0.7377	0.61	0.1334	yes	N/A
O18381	PAX6_DROME	No assigned EC number	0.9062	0.64	0.0746	yes	N/A
P63016	PAX6_RAT	No assigned EC number	0.875	0.64	0.1516	yes	N/A
P63015	PAX6_MOUSE	No assigned EC number	0.875	0.64	0.1516	yes	N/A
Q1LZF1	PAX6_BOVIN	No assigned EC number	0.875	0.64	0.1516	yes	N/A
P26367	PAX6_HUMAN	No assigned EC number	0.875	0.64	0.1516	yes	N/A
P26630	PAX6_DANRE	No assigned EC number	0.8593	0.64	0.1464	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	100
cd00131	128	cd00131, PAX, Paired Box domain	3e-34
pfam00292	125	pfam00292, PAX, 'Paired box' domain	6e-34
smart00351	125	smart00351, PAX, Paired Box domain	6e-33

>gnl|CDD|238076 cd00131, PAX, Paired Box domain

 Score =  114 bits (286), Expect = 3e-34
 Identities = 48/61 (78%), Positives = 51/61 (83%)

Query: 13  RYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIP 72
           RYYETGSIRP AIGGSKPRVAT EVV KI  YK+E P +FAWEIRDRLLQEGVC   N+P
Sbjct: 56  RYYETGSIRPGAIGGSKPRVATPEVVKKIEIYKQENPGMFAWEIRDRLLQEGVCDKSNVP 115

Query: 73  S 73
           S
Sbjct: 116 S 116

Length = 128

>gnl|CDD|109353 pfam00292, PAX, 'Paired box' domain

 Score =  112 bits (283), Expect = 6e-34
 Identities = 48/61 (78%), Positives = 51/61 (83%)

Query: 13  RYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIP 72
           RY ETGSIRP  IGGSKP+VAT EVV KI+ YKRE P IFAWEIRDRLL EGVC NDN+P
Sbjct: 56  RYQETGSIRPGVIGGSKPKVATPEVVKKIAEYKRENPGIFAWEIRDRLLAEGVCDNDNVP 115

Query: 73  S 73
           S
Sbjct: 116 S 116

Length = 125

>gnl|CDD|128645 smart00351, PAX, Paired Box domain

 Score =  110 bits (277), Expect = 6e-33
 Identities = 47/62 (75%), Positives = 52/62 (83%)

Query: 13  RYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIP 72
           RYYETGSIRP AIGGSKP+VAT +VV KI+ YK+E P IFAWEIRDRLL EGVC  DN+P
Sbjct: 56  RYYETGSIRPGAIGGSKPKVATPKVVKKIADYKQENPGIFAWEIRDRLLSEGVCDKDNVP 115

Query: 73  SR 74
           S 
Sbjct: 116 SV 117

Length = 125

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	100
KOG3517|consensus	334		100.0
PF00292	125	PAX: 'Paired box' domain; InterPro: IPR001523 The	100.0
KOG3862|consensus	327		99.94
KOG3517|consensus	334		99.88
PF00292	125	PAX: 'Paired box' domain; InterPro: IPR001523 The	99.87
KOG0849|consensus	354		99.8
KOG3862|consensus	327		99.73
cd00131	128	PAX Paired Box domain	99.57
smart00351	125	PAX Paired Box domain.	99.54
KOG0849|consensus	354		99.3
PF13565	77	HTH_32: Homeodomain-like domain	97.34
cd00131	128	PAX Paired Box domain	97.24
smart00351	125	PAX Paired Box domain.	97.18
PF13551	112	HTH_29: Winged helix-turn helix	96.22
COG3415	138	Transposase and inactivated derivatives [DNA repli	95.32
PF01710	119	HTH_Tnp_IS630: Transposase; InterPro: IPR002622 Tr	87.56

>KOG3517|consensus

Probab=100.00  E-value=9.2e-35  Score=220.56  Aligned_cols=91  Identities=47%  Similarity=0.719  Sum_probs=85.1

Q ss_pred             cccchHHHhhhHhhcccccccccCCCCCCcCcHHHHHHHHHHHhhCCCcchhhhhccccccccccccCCCCCCCcchhHH
Q psy4875           3 FLTLLCPLVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIPSRECPSIFAW   82 (100)
Q Consensus         3 ~~gcvskiL~r~~etGsi~Pg~iGGskP~~~s~~~vskIl~~~~e~psif~~eIR~rL~~~gvc~~~~~ps~ss~~rFaw   82 (100)
                      -||||||||.||.|||+|.||+||||||+++||.+|..|..+++..|+||+|||||||+.+|||++.|+||++||+|+..
T Consensus        49 SHGCVSKILaRy~EtGsIlPGaIGGSkPRVTTP~VV~~IR~~Kq~DPGIFAWEIRDRLlsdgiCDk~NvPSVSSISRILR  128 (334)
T KOG3517|consen   49 SHGCVSKILARYNETGSILPGAIGGSKPRVTTPKVVKYIRSLKQRDPGIFAWEIRDRLLSDGICDKYNVPSVSSISRILR  128 (334)
T ss_pred             ccchHHHHHHHhccCCcccccccCCCCCccCChhHHHHHHHhhccCCceeeehhhhhhhhcccccccCCcchHHHHHHHH
Confidence            49999999999999999999999999999999999999999999999999999999999999999999999999999776


Q ss_pred             HHHHHHhhcCC
Q psy4875          83 EIRDRLLQEGV   93 (100)
Q Consensus        83 eir~~l~~~g~   93 (100)
                      +.-..|.++|-
T Consensus       129 NKiGsLaqqg~  139 (334)
T KOG3517|consen  129 NKIGSLAQQGT  139 (334)
T ss_pred             hhhcccccCCC
Confidence            66666666654

>PF00292 PAX: 'Paired box' domain; InterPro: IPR001523 The paired box is a conserved 124 amino acid N-terminal domain of unknown function that usually, but not always, precedes a homeobox domain (see IPR001356 from INTERPRO) [, ]

Probab=100.00  E-value=1.3e-34  Score=200.03  Aligned_cols=79  Identities=57%  Similarity=0.932  Sum_probs=61.6

Q ss_pred             cccchHHHhhhHhhcccccccccCCCCCCcCcHHHHHHHHHHHhhCCCcchhhhhccccccccccccCCCCCCCcchhH
Q psy4875           3 FLTLLCPLVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIPSRECPSIFA   81 (100)
Q Consensus         3 ~~gcvskiL~r~~etGsi~Pg~iGGskP~~~s~~~vskIl~~~~e~psif~~eIR~rL~~~gvc~~~~~ps~ss~~rFa   81 (100)
                      -||||||||+||+|||+++||++||+||+++||+++.+|.+|++++|+||+||||++|+++|||++.++||+|||||+.
T Consensus        46 s~gcVsKIl~Ry~eTGsi~Pg~iGGskprv~tp~v~~~I~~~k~enP~ifawEiR~~L~~~gvc~~~~~PsvssInRil  124 (125)
T PF00292_consen   46 SHGCVSKILSRYRETGSIRPGPIGGSKPRVATPEVVEKIEQYKRENPTIFAWEIRDRLIADGVCDRSNVPSVSSINRIL  124 (125)
T ss_dssp             -HHHHHHHHHHHHHHS-SS----S----SSS-HCHHHHHHHHHHH-TTS-HHHHHHHHHHTTSS-TTTS--HHHHHHHH
T ss_pred             chhHHHHHHHHHHHhcccCcccccCCCCCCCChHHHHHHHHHHhcCCCcchHHHHHHHHHcCCCCCCCCCCHHHHHHhh
Confidence            4899999999999999999999999999999999999999999999999999999999999999999999999999854

Paired box genes are expressed in alternate segments of the developing fruit fly, the observed grouping of segments into pairs depending on the position of the segment in the segmental array, and not on the identity of the segment as in the case of homeotic genes. This implies that the genes affect different processes from those altered by homeotic genes.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 6PAX_A 1K78_E 1MDM_A 2K27_A 1PDN_C.

>KOG3862|consensus

Probab=99.94  E-value=7.5e-28  Score=184.00  Aligned_cols=87  Identities=53%  Similarity=0.877  Sum_probs=82.2

Q ss_pred             cccchHHHhhhHhhcccccccccCCCCCCcCcHHHHHHHHHHHhhCCCcchhhhhccccccccccccCCCCCCCcchhHH
Q psy4875           3 FLTLLCPLVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIPSRECPSIFAW   82 (100)
Q Consensus         3 ~~gcvskiL~r~~etGsi~Pg~iGGskP~~~s~~~vskIl~~~~e~psif~~eIR~rL~~~gvc~~~~~ps~ss~~rFaw   82 (100)
                      -||||||||+|||||||++||.+||+||+++|+.+|++|..|++++|.+|+||||++|+.++||+..++|+||++++   
T Consensus        54 ShGcvSkil~r~yEtgS~~pg~iggsk~KvAtp~Vvk~i~~~k~~n~~mfaweiR~~l~~~~ic~~d~vpsVssinr---  130 (327)
T KOG3862|consen   54 SHGCVSKILGRYYETGSIRPGVIGGSKPKVATPKVVKKIALYKRQNPTMFAWEIRDRLLAEPICDNDTVPSVSSINR---  130 (327)
T ss_pred             ccCCchhHHHHHHHhcCcccCCCCCCccccccchHHHHHHHHhhcCcchhhhhhhhhhhcccccCCCCCchHHHHHH---
Confidence            59999999999999999999999999999999999999999999999999999999999999999999999999998   


Q ss_pred             HHHHHHhhcC
Q psy4875          83 EIRDRLLQEG   92 (100)
Q Consensus        83 eir~~l~~~g   92 (100)
                      .+|...++.-
T Consensus       131 i~r~~~~~~~  140 (327)
T KOG3862|consen  131 IIRTKVQQKQ  140 (327)
T ss_pred             HHHHhhhhcc
Confidence            6676666543

>KOG3517|consensus

Probab=99.88  E-value=2.8e-24  Score=163.49  Aligned_cols=92  Identities=34%  Similarity=0.477  Sum_probs=87.1

Q ss_pred             HHhhhHhhcccccccc---------cCCCCCCcC------cHHHHHHHHHHHhhCCCcchhhh---hccccccccccccC
Q psy4875           9 PLVHRYYETGSIRPRA---------IGGSKPRVA------TAEVVSKISHYKRECPSIFAWEI---RDRLLQEGVCSNDN   70 (100)
Q Consensus         9 kiL~r~~etGsi~Pg~---------iGGskP~~~------s~~~vskIl~~~~e~psif~~eI---R~rL~~~gvc~~~~   70 (100)
                      ++|+..+-+|++.|-+         -=|.|||++      +|+||+|||.+|.||++|.++.|   |+|+.++.|++-+.
T Consensus         9 NQLGGVFVNGRPLPna~RlrIVELarlGiRPCDISRQLrvSHGCVSKILaRy~EtGsIlPGaIGGSkPRVTTP~VV~~IR   88 (334)
T KOG3517|consen    9 NQLGGVFVNGRPLPNAIRLRIVELARLGIRPCDISRQLRVSHGCVSKILARYNETGSILPGAIGGSKPRVTTPKVVKYIR   88 (334)
T ss_pred             hhccceeEcCccCcchhhhhHHHHHHcCCCccchhhhhhhccchHHHHHHHhccCCcccccccCCCCCccCChhHHHHHH
Confidence            6899999999999976         358999976      69999999999999999999999   89999999999999


Q ss_pred             CCCCCCcchhHHHHHHHHhhcCCCCCCCCC
Q psy4875          71 IPSRECPSIFAWEIRDRLLQEGVCSNDNIP  100 (100)
Q Consensus        71 ~ps~ss~~rFaweir~~l~~~g~c~~~~~p  100 (100)
                      .++..+|.+|||||||||+.+|+||+.|||
T Consensus        89 ~~Kq~DPGIFAWEIRDRLlsdgiCDk~NvP  118 (334)
T KOG3517|consen   89 SLKQRDPGIFAWEIRDRLLSDGICDKYNVP  118 (334)
T ss_pred             HhhccCCceeeehhhhhhhhcccccccCCc
Confidence            999999999999999999999999999998

>PF00292 PAX: 'Paired box' domain; InterPro: IPR001523 The paired box is a conserved 124 amino acid N-terminal domain of unknown function that usually, but not always, precedes a homeobox domain (see IPR001356 from INTERPRO) [, ]

Probab=99.87  E-value=7.7e-24  Score=146.35  Aligned_cols=92  Identities=37%  Similarity=0.538  Sum_probs=69.9

Q ss_pred             HHhhhHhhccccccc---------ccCCCCCCc------CcHHHHHHHHHHHhhCCCcchhhh---hccccccccccccC
Q psy4875           9 PLVHRYYETGSIRPR---------AIGGSKPRV------ATAEVVSKISHYKRECPSIFAWEI---RDRLLQEGVCSNDN   70 (100)
Q Consensus         9 kiL~r~~etGsi~Pg---------~iGGskP~~------~s~~~vskIl~~~~e~psif~~eI---R~rL~~~gvc~~~~   70 (100)
                      ++|++-|.+|++.|.         +..|.+||.      ++|+||+||+.+|+||+++.|+.|   ++|++++.+..++.
T Consensus         6 NqlGg~~~nGrPLp~~~R~rIvela~~G~rp~~Isr~l~Vs~gcVsKIl~Ry~eTGsi~Pg~iGGskprv~tp~v~~~I~   85 (125)
T PF00292_consen    6 NQLGGVFINGRPLPNELRQRIVELAKEGVRPCDISRQLRVSHGCVSKILSRYRETGSIRPGPIGGSKPRVATPEVVEKIE   85 (125)
T ss_dssp             -TTS-EEETTSSS-HHHHHHHHHHHHTT--HHHHHHHHT--HHHHHHHHHHHHHHS-SS----S----SSS-HCHHHHHH
T ss_pred             cccCceeeCCccCcHHHHHHHHHHhhhcCCHHHHHHHHccchhHHHHHHHHHHHhcccCcccccCCCCCCCChHHHHHHH
Confidence            579999999999994         678999986      479999999999999999999998   79999999999999


Q ss_pred             CCCCCCcchhHHHHHHHHhhcCCCCCCCCC
Q psy4875          71 IPSRECPSIFAWEIRDRLLQEGVCSNDNIP  100 (100)
Q Consensus        71 ~ps~ss~~rFaweir~~l~~~g~c~~~~~p  100 (100)
                      .++.++|++|+||||++|+++|+|+++++|
T Consensus        86 ~~k~enP~ifawEiR~~L~~~gvc~~~~~P  115 (125)
T PF00292_consen   86 QYKRENPTIFAWEIRDRLIADGVCDRSNVP  115 (125)
T ss_dssp             HHHHH-TTS-HHHHHHHHHHTTSS-TTTS-
T ss_pred             HHHhcCCCcchHHHHHHHHHcCCCCCCCCC
Confidence            999999999999999999999999999998

Paired box genes are expressed in alternate segments of the developing fruit fly, the observed grouping of segments into pairs depending on the position of the segment in the segmental array, and not on the identity of the segment as in the case of homeotic genes. This implies that the genes affect different processes from those altered by homeotic genes.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 6PAX_A 1K78_E 1MDM_A 2K27_A 1PDN_C.

>KOG0849|consensus

Probab=99.80  E-value=1.5e-20  Score=148.10  Aligned_cols=77  Identities=55%  Similarity=0.946  Sum_probs=74.7

Q ss_pred             cccchHHHhhhHhhcccccccccCCCCCC-cCcHHHHHHHHHHHhhCCCcchhhhhccccccccccccCCCCCCCcch
Q psy4875           3 FLTLLCPLVHRYYETGSIRPRAIGGSKPR-VATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIPSRECPSI   79 (100)
Q Consensus         3 ~~gcvskiL~r~~etGsi~Pg~iGGskP~-~~s~~~vskIl~~~~e~psif~~eIR~rL~~~gvc~~~~~ps~ss~~r   79 (100)
                      -||||||||+||++||+|+|+.+||++|+ +.+++++.+|++|++++|++|+||||++|+.+++|+..++|+++++++
T Consensus        44 s~~~~~~il~r~~~~~~i~p~~i~~~~~~~~~t~~~~~~i~~~k~~~P~~~~~~ir~~l~~~~~~~~~t~Ps~ssi~r  121 (354)
T KOG0849|consen   44 SHGCVSKILNRYYRTGSIRPGGIGGSKPRIVATPEVEAKIEQYKRENPAMFAWEIRDQLLHEGLCTQATLPSVSSINR  121 (354)
T ss_pred             hhHHHHhhhcccccccccccccccccccCCCCCchhHHHHHHHHhcCCcccchhhhhcccCcccccCCCCCChhhhhH
Confidence            48999999999999999999999999998 899999999999999999999999999999999999999999888887

>KOG3862|consensus

Probab=99.73  E-value=4.7e-19  Score=135.85  Aligned_cols=92  Identities=34%  Similarity=0.492  Sum_probs=86.8

Q ss_pred             HHhhhHhhccccccc---------ccCCCCCCcC------cHHHHHHHHHHHhhCCCcchhhh---hccccccccccccC
Q psy4875           9 PLVHRYYETGSIRPR---------AIGGSKPRVA------TAEVVSKISHYKRECPSIFAWEI---RDRLLQEGVCSNDN   70 (100)
Q Consensus         9 kiL~r~~etGsi~Pg---------~iGGskP~~~------s~~~vskIl~~~~e~psif~~eI---R~rL~~~gvc~~~~   70 (100)
                      ++|+..+-+|+++|-         +.-|.+||.+      +|+||+|||-+|.|++||.++.|   +++++++.|++++.
T Consensus        14 NQLGGvFVNGRPlpd~Vr~rIv~La~~gvrpcdisrQl~vShGcvSkil~r~yEtgS~~pg~iggsk~KvAtp~Vvk~i~   93 (327)
T KOG3862|consen   14 NQLGGVFVNGRPLPDVVRQRIVELAQNGVRPCDISRQLRVSHGCVSKILGRYYETGSIRPGVIGGSKPKVATPKVVKKIA   93 (327)
T ss_pred             hhccceeecCccCchHHHHHHHHHHHcCCcchhHHHHHhhccCCchhHHHHHHHhcCcccCCCCCCccccccchHHHHHH
Confidence            689999999999984         5789999965      79999999999999999999998   79999999999999


Q ss_pred             CCCCCCcchhHHHHHHHHhhcCCCCCCCCC
Q psy4875          71 IPSRECPSIFAWEIRDRLLQEGVCSNDNIP  100 (100)
Q Consensus        71 ~ps~ss~~rFaweir~~l~~~g~c~~~~~p  100 (100)
                      .++..++.||+||||++|+++++|+.+++|
T Consensus        94 ~~k~~n~~mfaweiR~~l~~~~ic~~d~vp  123 (327)
T KOG3862|consen   94 LYKRQNPTMFAWEIRDRLLAEPICDNDTVP  123 (327)
T ss_pred             HHhhcCcchhhhhhhhhhhcccccCCCCCc
Confidence            999999999999999999999999999987

>cd00131 PAX Paired Box domain

Probab=99.57  E-value=2.2e-15  Score=103.95  Aligned_cols=78  Identities=62%  Similarity=0.995  Sum_probs=74.0

Q ss_pred             ccchHHHhhhHhhcccccccccCCCCCCcCcHHHHHHHHHHHhhCCCcchhhhhccccccccccccCCCCCCCcchhH
Q psy4875           4 LTLLCPLVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIPSRECPSIFA   81 (100)
Q Consensus         4 ~gcvskiL~r~~etGsi~Pg~iGGskP~~~s~~~vskIl~~~~e~psif~~eIR~rL~~~gvc~~~~~ps~ss~~rFa   81 (100)
                      .++|.+++.||.|||++.|+..||.+|+..++..+..|+.+..++|+++++||++.|.+.|+|...+.||++++++|+
T Consensus        47 ~~tV~r~i~r~~e~G~v~pk~~gg~rpr~~~~~~~~~i~~~v~~~p~~Tl~El~~~L~~~gv~~~~~~~s~stI~R~L  124 (128)
T cd00131          47 HGCVSKILNRYYETGSIRPGAIGGSKPRVATPEVVKKIEIYKQENPGMFAWEIRDRLLQEGVCDKSNVPSVSSINRIL  124 (128)
T ss_pred             HHHHHHHHHHHHHcCCcCCCCCCCCCCCcCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHcCCcccCCCCCHHHHHHHH
Confidence            468999999999999999999999999999999999999999999999999999999999999999999999999985

>smart00351 PAX Paired Box domain

Probab=99.54  E-value=8e-15  Score=100.54  Aligned_cols=78  Identities=60%  Similarity=0.994  Sum_probs=74.5

Q ss_pred             ccchHHHhhhHhhcccccccccCCCCCCcCcHHHHHHHHHHHhhCCCcchhhhhccccccccccccCCCCCCCcchhH
Q psy4875           4 LTLLCPLVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIPSRECPSIFA   81 (100)
Q Consensus         4 ~gcvskiL~r~~etGsi~Pg~iGGskP~~~s~~~vskIl~~~~e~psif~~eIR~rL~~~gvc~~~~~ps~ss~~rFa   81 (100)
                      ..+|+|++.||.+||++.|++.||.+|+..++.++..|+.+..++|+++++||++.|.+.||+...++|+.+++++|+
T Consensus        47 ~~tV~kwi~r~~~~G~~~pk~~gg~rp~~~~~~~~~~I~~~~~~~p~~t~~el~~~L~~~gv~~~~~~Ps~sti~~~l  124 (125)
T smart00351       47 HGCVSKILGRYYETGSIRPGAIGGSKPKVATPKVVKKIADYKQENPGIFAWEIRDRLLSEGVCDKDNVPSVSSINRIL  124 (125)
T ss_pred             HHHHHHHHHHHHHcCCcCCcCCCCCCCCccCHHHHHHHHHHHHHCCCCCHHHHHHHHHHcCCCcCCCCCChhhHHHhh
Confidence            468999999999999999999999999999999999999999999999999999999999999999999999999864

>KOG0849|consensus

Probab=99.30  E-value=3.9e-13  Score=106.19  Aligned_cols=96  Identities=31%  Similarity=0.360  Sum_probs=78.2

Q ss_pred             cchHHHhhhHhhcccccc------cccCCCCCCcC------cHHHHHHHHHHHhhCCCcchhhh---hcc-ccccccccc
Q psy4875           5 TLLCPLVHRYYETGSIRP------RAIGGSKPRVA------TAEVVSKISHYKRECPSIFAWEI---RDR-LLQEGVCSN   68 (100)
Q Consensus         5 gcvskiL~r~~etGsi~P------g~iGGskP~~~------s~~~vskIl~~~~e~psif~~eI---R~r-L~~~gvc~~   68 (100)
                      ||.+.++..+.|.....+      ++.-|.+|+++      +++||++||++|+++++|.+..|   +++ ++++.+..+
T Consensus         3 ~n~~~~~f~~~~~~~~~~r~~~~~~a~~~~~~~~~~~~l~vs~~~~~~il~r~~~~~~i~p~~i~~~~~~~~~t~~~~~~   82 (354)
T KOG0849|consen    3 VNQLGGVFINGRPLPNHTRQKIVEMAHKGIRPCVISRQLKVSHGCVSKILNRYYRTGSIRPGGIGGSKPRIVATPEVEAK   82 (354)
T ss_pred             cccCCcccccCCCCCCchhhccccccccccCcccchhhhhhhhHHHHhhhcccccccccccccccccccCCCCCchhHHH
Confidence            344444444444444333      34566777764      69999999999999999999999   455 889999999


Q ss_pred             cCCCCCCCcchhHHHHHHHHhhcCCCCCCCCC
Q psy4875          69 DNIPSRECPSIFAWEIRDRLLQEGVCSNDNIP  100 (100)
Q Consensus        69 ~~~ps~ss~~rFaweir~~l~~~g~c~~~~~p  100 (100)
                      +..++.++|.+|+||||++|+.+++|++.++|
T Consensus        83 i~~~k~~~P~~~~~~ir~~l~~~~~~~~~t~P  114 (354)
T KOG0849|consen   83 IEQYKRENPAMFAWEIRDQLLHEGLCTQATLP  114 (354)
T ss_pred             HHHHHhcCCcccchhhhhcccCcccccCCCCC
Confidence            99999999999999999999999999999887

>PF13565 HTH_32: Homeodomain-like domain

Probab=97.34  E-value=0.00032  Score=43.18  Aligned_cols=68  Identities=28%  Similarity=0.347  Sum_probs=51.4

Q ss_pred             hHHHhhhHhhcc-----cccccccCCCCCCcCcHHHHHHHHHHHhhCCCcchhhhhcccccc-ccccccCCCCCCCcch
Q psy4875           7 LCPLVHRYYETG-----SIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQE-GVCSNDNIPSRECPSI   79 (100)
Q Consensus         7 vskiL~r~~etG-----si~Pg~iGGskP~~~s~~~vskIl~~~~e~psif~~eIR~rL~~~-gvc~~~~~ps~ss~~r   79 (100)
                      |++.+.||.++|     ...++.-.| +|+. +++....|+....++|...+.+|.+.|.+. |+-.   .+|.+++.+
T Consensus         2 v~rw~~ry~~~G~~gL~~~~~~~~~G-rp~~-~~e~~~~i~~~~~~~p~wt~~~i~~~L~~~~g~~~---~~S~~tv~R   75 (77)
T PF13565_consen    2 VYRWLKRYREEGLEGLKDRKRRPRPG-RPRK-DPEQRERIIALIEEHPRWTPREIAEYLEEEFGISV---RVSRSTVYR   75 (77)
T ss_pred             HHHHHHHHHhhCchhhhcccccCCCC-CCCC-cHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCC---CccHhHHHH
Confidence            688999999999     755566666 4444 788889999999999999999999988876 4321   235555554

>cd00131 PAX Paired Box domain

Probab=97.24  E-value=0.00018  Score=49.53  Aligned_cols=69  Identities=43%  Similarity=0.622  Sum_probs=50.4

Q ss_pred             cCcHHHHHHHHHHHhhCCCcchhhh---hccccccccccccCCCCCCCcchhHHHHHHHHhhcCCCCCCCCC
Q psy4875          32 VATAEVVSKISHYKRECPSIFAWEI---RDRLLQEGVCSNDNIPSRECPSIFAWEIRDRLLQEGVCSNDNIP  100 (100)
Q Consensus        32 ~~s~~~vskIl~~~~e~psif~~eI---R~rL~~~gvc~~~~~ps~ss~~rFaweir~~l~~~g~c~~~~~p  100 (100)
                      .++...|.+++++|++++++.+.-.   +++..++.....+...-.+++..++|||++.|.++|+|.+++.|
T Consensus        44 ~Vs~~tV~r~i~r~~e~G~v~pk~~gg~rpr~~~~~~~~~i~~~v~~~p~~Tl~El~~~L~~~gv~~~~~~~  115 (128)
T cd00131          44 RVSHGCVSKILNRYYETGSIRPGAIGGSKPRVATPEVVKKIEIYKQENPGMFAWEIRDRLLQEGVCDKSNVP  115 (128)
T ss_pred             CcCHHHHHHHHHHHHHcCCcCCCCCCCCCCCcCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHcCCcccCCCC
Confidence            3578999999999999999887654   35544433222222224588999999999999999999766554

>smart00351 PAX Paired Box domain

Probab=97.18  E-value=0.00026  Score=48.37  Aligned_cols=69  Identities=42%  Similarity=0.580  Sum_probs=52.4

Q ss_pred             cCcHHHHHHHHHHHhhCCCcchhhh---hccccccccccccCCCCCCCcchhHHHHHHHHhhcCCCCCCCCC
Q psy4875          32 VATAEVVSKISHYKRECPSIFAWEI---RDRLLQEGVCSNDNIPSRECPSIFAWEIRDRLLQEGVCSNDNIP  100 (100)
Q Consensus        32 ~~s~~~vskIl~~~~e~psif~~eI---R~rL~~~gvc~~~~~ps~ss~~rFaweir~~l~~~g~c~~~~~p  100 (100)
                      .+++..|.+++.+|+++++..+.-.   +++.+++.....+.....+++..++|||++.|.++|+|...++|
T Consensus        44 gvs~~tV~kwi~r~~~~G~~~pk~~gg~rp~~~~~~~~~~I~~~~~~~p~~t~~el~~~L~~~gv~~~~~~P  115 (125)
T smart00351       44 CVSHGCVSKILGRYYETGSIRPGAIGGSKPKVATPKVVKKIADYKQENPGIFAWEIRDRLLSEGVCDKDNVP  115 (125)
T ss_pred             CcCHHHHHHHHHHHHHcCCcCCcCCCCCCCCccCHHHHHHHHHHHHHCCCCCHHHHHHHHHHcCCCcCCCCC
Confidence            3578999999999999998877422   34444443333333335688999999999999999999998887

>PF13551 HTH_29: Winged helix-turn helix

Probab=96.22  E-value=0.0068  Score=38.95  Aligned_cols=70  Identities=21%  Similarity=0.262  Sum_probs=48.0

Q ss_pred             hHHHhhhHhhcc--cccc-cccCCCCCCcCcHHHHHHHHHHHhhCC-----CcchhhhhccccccccccccCCCCCCCcc
Q psy4875           7 LCPLVHRYYETG--SIRP-RAIGGSKPRVATAEVVSKISHYKRECP-----SIFAWEIRDRLLQEGVCSNDNIPSRECPS   78 (100)
Q Consensus         7 vskiL~r~~etG--si~P-g~iGGskP~~~s~~~vskIl~~~~e~p-----sif~~eIR~rL~~~gvc~~~~~ps~ss~~   78 (100)
                      |.+.+.+|.++|  .+.+ +.-+|..+...++++...|.++..++|     ..++.+|.+.|++...-.   .+|.+++.
T Consensus        29 v~r~~~~~~~~G~~~l~~~~~~~g~~~~~l~~~~~~~l~~~~~~~p~~g~~~~t~~~l~~~l~~~~~~~---~~s~~ti~  105 (112)
T PF13551_consen   29 VYRWLKRYREGGIEGLLPRKPRGGRPRKRLSEEQRAQLIELLRENPPEGRSRWTLEELAEWLIEEEFGI---DVSPSTIR  105 (112)
T ss_pred             HHHHHHHHHcccHHHHHhccccCCCCCCCCCHHHHHHHHHHHHHCCCCCCCcccHHHHHHHHHHhccCc---cCCHHHHH
Confidence            688999999999  7777 455554333489999999999999988     355566777764433211   12555555


Q ss_pred             h
Q psy4875          79 I   79 (100)
Q Consensus        79 r   79 (100)
                      +
T Consensus       106 r  106 (112)
T PF13551_consen  106 R  106 (112)
T ss_pred             H
Confidence            4

>COG3415 Transposase and inactivated derivatives [DNA replication, recombination, and repair]

Probab=95.32  E-value=0.017  Score=40.59  Aligned_cols=57  Identities=28%  Similarity=0.253  Sum_probs=44.1

Q ss_pred             HHHhhhHhhcccccccccCCCCCCcCcHHHHHHHHHHHhhCCCcchhhhhcccc-cccc
Q psy4875           8 CPLVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLL-QEGV   65 (100)
Q Consensus         8 skiL~r~~etGsi~Pg~iGGskP~~~s~~~vskIl~~~~e~psif~~eIR~rL~-~~gv   65 (100)
                      =+-++||.+||+..|...||.+|+..++..+.-++..-++.. .+..+++..|. +.||
T Consensus        39 y~wv~r~~e~G~~l~~~~~~GrP~kl~~~q~~~l~e~~~~k~-wTl~~~~~~l~~e~gv   96 (138)
T COG3415          39 YRWVRRYRETGLDLPPKPRKGRPRKLSEEQLEILLERLREKD-WTLKELVEELGLEFGV   96 (138)
T ss_pred             HHHHHHhccccccccCccCCCCCcccCHHHHHHHHHHHhccc-chHHHHHHHHhhhcCe
Confidence            356899999999999999999999999998888888766644 55555566644 4565

>PF01710 HTH_Tnp_IS630: Transposase; InterPro: IPR002622 Transposase proteins are necessary for efficient DNA transposition

Probab=87.56  E-value=0.45  Score=31.96  Aligned_cols=59  Identities=22%  Similarity=0.278  Sum_probs=41.8

Q ss_pred             hHHHhhhHhhcccccccccCCCCCCcCcHHHHHHHHHHHhhCCCcchhhhhccccccccccccCCCCCCCcchhHH
Q psy4875           7 LCPLVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIPSRECPSIFAW   82 (100)
Q Consensus         7 vskiL~r~~etGsi~Pg~iGGskP~~~s~~~vskIl~~~~e~psif~~eIR~rL~~~gvc~~~~~ps~ss~~rFaw   82 (100)
                      |-+-+. ..+||+..|++-|+.  +.    ..+.+..+-.++|+++..||-.+|   ||       +.+++++|..
T Consensus        35 v~~W~k-~~~~G~~~~k~r~~~--Ki----d~~~L~~~v~~~pd~tl~Ela~~l---~V-------s~~ti~~~Lk   93 (119)
T PF01710_consen   35 VYRWLK-RKETGDLEPKPRGRK--KI----DRDELKALVEENPDATLRELAERL---GV-------SPSTIWRALK   93 (119)
T ss_pred             HHHHHH-hcccccccccccccc--cc----cHHHHHHHHHHCCCcCHHHHHHHc---CC-------CHHHHHHHHH
Confidence            344566 678999999987765  22    245678888999999999997765   33       5566666543

This entry includes insertion sequences from Synechocystis sp. (strain PCC 6803) three of which are characterised as homologous to bacterial IS5- and IS4- and to several members of the IS630-Tc1-mariner superfamily []. More information about these proteins can be found at Protein of the Month: Transposase [].

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	100
6pax_A	133	Crystal Structure Of The Human Pax-6 Paired Domain-		3e-27
2k27_A	159	Solution Structure Of Human Pax8 Paired Box Domain		2e-22
1k78_A	149	Pax5(1-149)+ets-1(331-440)+dna Length = 149		4e-21
1pdn_C	128	Crystal Structure Of A Paired Domain-Dna Complex At		2e-17

>pdb|6PAX|A Chain A, Crystal Structure Of The Human Pax-6 Paired Domain-Dna Complex Reveals A General Model For Pax Protein-Dna Interactions Length = 133

Iteration: 1
 Score =  116 bits (291), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 54/64 (84%), Positives = 59/64 (92%)
Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYY TGSIRPRAIGGSKPRVAT EVVSKI+ YK+ECPSIFAWEIRDRLL EGVC+ND
Sbjct: 53  ILGRYYATGSIRPRAIGGSKPRVATPEVVSKIAQYKQECPSIFAWEIRDRLLSEGVCTND 112
Query: 70  NIPS 73
           NIPS
Sbjct: 113 NIPS 116

>pdb|2K27|A Chain A, Solution Structure Of Human Pax8 Paired Box Domain Length = 159

Iteration: 1
 Score =  100 bits (248), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 45/64 (70%), Positives = 53/64 (82%)
Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYYETGSIRP  IGGSKP+VAT +VV KI  YKR+ P++FAWEIRDRLL EGVC ND
Sbjct: 61  ILGRYYETGSIRPGVIGGSKPKVATPKVVEKIGDYKRQNPTMFAWEIRDRLLAEGVCDND 120
Query: 70  NIPS 73
            +PS
Sbjct: 121 TVPS 124

>pdb|1K78|A Chain A, Pax5(1-149)+ets-1(331-440)+dna Length = 149

Iteration: 1
 Score = 96.3 bits (238), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 43/64 (67%), Positives = 53/64 (82%)
Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYYETGSI+P  IGGSKP+VAT +VV KI+ YKR+ P++FAWEIRDRLL E VC ND
Sbjct: 68  ILGRYYETGSIKPGVIGGSKPKVATPKVVEKIAEYKRQNPTMFAWEIRDRLLAERVCDND 127
Query: 70  NIPS 73
            +PS
Sbjct: 128 TVPS 131

>pdb|1PDN|C Chain C, Crystal Structure Of A Paired Domain-Dna Complex At 2.5 Angstroms Resolution Reveals Structural Basis For Pax Developmental Mutations Length = 128

Iteration: 1
 Score = 84.0 bits (206), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 36/64 (56%), Positives = 49/64 (76%)
Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           +++RY ETGSIRP  IGGSKPR+AT E+ ++I  YKR  P +F+WEIR++L++EGVC   
Sbjct: 53  ILNRYQETGSIRPGVIGGSKPRIATPEIENRIEEYKRSSPGMFSWEIREKLIREGVCDRS 112
Query: 70  NIPS 73
             PS
Sbjct: 113 TAPS 116

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	100
1pdn_C	128	Protein (PRD paired); protein-DNA complex, double	3e-20
2k27_A	159	Paired box protein PAX-8; paired domain, solution	9e-19
1k78_A	149	Paired box protein PAX5; paired domain, ETS domain	9e-19
1ic8_A	194	Hepatocyte nuclear factor 1-alpha; transcription r	2e-05
2h8r_A	221	Hepatocyte nuclear factor 1-beta; trasncription fa	2e-04

>1pdn_C Protein (PRD paired); protein-DNA complex, double helix, PAX, paired domain, DNA-binding protein, gene regulation/DNA complex; HET: DNA; 2.50A {Drosophila melanogaster} SCOP: a.4.1.5 Length = 128

 Score = 77.8 bits (191), Expect = 3e-20
 Identities = 36/65 (55%), Positives = 49/65 (75%)

Query: 9   PLVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSN 68
            +++RY ETGSIRP  IGGSKPR+AT E+ ++I  YKR  P +F+WEIR++L++EGVC  
Sbjct: 52  KILNRYQETGSIRPGVIGGSKPRIATPEIENRIEEYKRSSPGMFSWEIREKLIREGVCDR 111

Query: 69  DNIPS 73
              PS
Sbjct: 112 STAPS 116

>2k27_A Paired box protein PAX-8; paired domain, solution structure, triple frequency, 3D NMR, induced FIT, alternative splicing, developmental protein; NMR {Homo sapiens} Length = 159

 Score = 74.9 bits (183), Expect = 9e-19
 Identities = 45/64 (70%), Positives = 53/64 (82%)

Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYYETGSIRP  IGGSKP+VAT +VV KI  YKR+ P++FAWEIRDRLL EGVC ND
Sbjct: 61  ILGRYYETGSIRPGVIGGSKPKVATPKVVEKIGDYKRQNPTMFAWEIRDRLLAEGVCDND 120

Query: 70  NIPS 73
            +PS
Sbjct: 121 TVPS 124

>1k78_A Paired box protein PAX5; paired domain, ETS domain, transcription factor, transcription/DNA complex; 2.25A {Homo sapiens} SCOP: a.4.1.5 a.4.1.5 PDB: 1mdm_A 6pax_A Length = 149

 Score = 74.4 bits (182), Expect = 9e-19
 Identities = 43/64 (67%), Positives = 53/64 (82%)

Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           ++ RYYETGSI+P  IGGSKP+VAT +VV KI+ YKR+ P++FAWEIRDRLL E VC ND
Sbjct: 68  ILGRYYETGSIKPGVIGGSKPKVATPKVVEKIAEYKRQNPTMFAWEIRDRLLAERVCDND 127

Query: 70  NIPS 73
            +PS
Sbjct: 128 TVPS 131

>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 Length = 194

 Score = 40.6 bits (94), Expect = 2e-05
 Identities = 6/39 (15%), Positives = 15/39 (38%)

Query: 35 AEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIPS 73
          A   + +    +E P   A  ++  L Q  +   + + +
Sbjct: 14 AHQKAVVETLLQEDPWRVAKMVKSYLQQHNIPQREVVDT 52

>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo, protein-DNA, human disease; 3.20A {Homo sapiens} Length = 221

 Score = 37.7 bits (86), Expect = 2e-04
 Identities = 9/86 (10%), Positives = 25/86 (29%), Gaps = 20/86 (23%)

Query: 35  AEVVSKISHYKRECPSIFAWEIRDRLLQEGVC--------------------SNDNIPSR 74
           AE  +++     E P   A  I+  + Q  +                         + ++
Sbjct: 15  AEQRAEVDRMLSEDPWRAAKMIKGYMQQHNIPQREVVDVTGLNQSHLSQHLNKGTPMKTQ 74

Query: 75  ECPSIFAWEIRDRLLQEGVCSNDNIP 100
           +  +++ W +R +       +     
Sbjct: 75  KRAALYTWYVRKQREILRQFNQTVQS 100

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	100
1pdn_C	128	Protein (PRD paired); protein-DNA complex, double	97.88
1k78_A	149	Paired box protein PAX5; paired domain, ETS domain	97.86
2k27_A	159	Paired box protein PAX-8; paired domain, solution	97.76
1ic8_A	194	Hepatocyte nuclear factor 1-alpha; transcription r	93.62
1u78_A	141	TC3 transposase, transposable element TC3 transpos	92.34
2pjp_A	121	Selenocysteine-specific elongation factor; SELB, p	91.29
3hot_A	345	Transposable element mariner, complete CDS; protei	81.24

>1pdn_C Protein (PRD paired); protein-DNA complex, double helix, PAX, paired domain, DNA-binding protein, gene regulation/DNA complex; HET: DNA; 2.50A {Drosophila melanogaster} SCOP: a.4.1.5

Probab=97.88  E-value=5.7e-06  Score=52.92  Aligned_cols=75  Identities=49%  Similarity=0.926  Sum_probs=58.2

Q ss_pred             cchHHHhhhHhhcccccccccCCCCCCcCcHHHHHHHHHHHhhCCCcchhhhhccccccccccccCCCCCCCcch
Q psy4875           5 TLLCPLVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIPSRECPSI   79 (100)
Q Consensus         5 gcvskiL~r~~etGsi~Pg~iGGskP~~~s~~~vskIl~~~~e~psif~~eIR~rL~~~gvc~~~~~ps~ss~~r   79 (100)
                      .-|++.+.+|.++|...|...+|.+|...+++....|+.+..++|...+++|..+|.+.|+......++.+++.+
T Consensus        48 ~Tv~~w~~~~~~~g~~~~~~~~g~~~~~l~~~~~~~i~~~~~~~~~~s~~~i~~~l~~~g~~~~~~~~s~~tv~r  122 (128)
T 1pdn_C           48 GCVSKILNRYQETGSIRPGVIGGSKPRIATPEIENRIEEYKRSSPGMFSWEIREKLIREGVCDRSTAPSVSAISR  122 (128)
T ss_dssp             HHHHHHHHHHHHHCCSSCCCCSCCCCCSSCSTHHHHHHHTTTTCTTCCHHHHHHHHHHTSSSCSTTCCCHHHHHH
T ss_pred             HHHHHHHHHHHhhCCcccccCCCCCCCcCCHHHHHHHHHHHHhCcchHHHHHHHHHHHcCCccccCCcCHHHHHH
Confidence            358899999999999988887776788888888899999999999999999999987767632111235455444

>1k78_A Paired box protein PAX5; paired domain, ETS domain, transcription factor, transcription/DNA complex; 2.25A {Homo sapiens} SCOP: a.4.1.5 a.4.1.5 PDB: 1mdm_A 6pax_A

Probab=97.86  E-value=1.7e-05  Score=53.10  Aligned_cols=75  Identities=57%  Similarity=0.992  Sum_probs=59.4

Q ss_pred             cchHHHhhhHhhcccccccccCCCCCCcCcHHHHHHHHHHHhhCCCcchhhhhccccccccccccCCCCCCCcch
Q psy4875           5 TLLCPLVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIPSRECPSI   79 (100)
Q Consensus         5 gcvskiL~r~~etGsi~Pg~iGGskP~~~s~~~vskIl~~~~e~psif~~eIR~rL~~~gvc~~~~~ps~ss~~r   79 (100)
                      ..|++.+.+|.++|.+.|...+|.+|...+++....|..+..++|...+++|..+|.+.++|.....+|.+++.+
T Consensus        63 ~TV~rw~~~~~~~G~~~~~~r~gr~~~~~~~~~~~~I~~~~~~~~~~s~~~i~~~l~~~~~~~~g~~~S~sTV~r  137 (149)
T 1k78_A           63 GCVSKILGRYYETGSIKPGVIGGSKPKVATPKVVEKIAEYKRQNPTMFAWEIRDRLLAERVCDNDTVPSVSSINR  137 (149)
T ss_dssp             HHHHHHHHHHHHHSCCCCCCCCCCCCSSSCHHHHHHHHHHHHHCTTCCHHHHHHHHHHTTSSCTTTSCCHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCccCCCCCCCCCCCHHHHHHHHHHHHhCcchhHHHHHHHHHHhcccccCCCcCHHHHHH
Confidence            458899999999999988887886677888999999999999999999999999987776544222335555544

>2k27_A Paired box protein PAX-8; paired domain, solution structure, triple frequency, 3D NMR, induced FIT, alternative splicing, developmental protein; NMR {Homo sapiens}

Probab=97.76  E-value=9.9e-06  Score=55.01  Aligned_cols=75  Identities=60%  Similarity=1.031  Sum_probs=59.9

Q ss_pred             cchHHHhhhHhhcccccccccCCCCCCcCcHHHHHHHHHHHhhCCCcchhhhhccccccccccccCCCCCCCcch
Q psy4875           5 TLLCPLVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIPSRECPSI   79 (100)
Q Consensus         5 gcvskiL~r~~etGsi~Pg~iGGskP~~~s~~~vskIl~~~~e~psif~~eIR~rL~~~gvc~~~~~ps~ss~~r   79 (100)
                      .-|++.+.+|.++|...|...+|.+|...+++....|+++..++|...+++|..+|.+.+++.....++.+++.+
T Consensus        56 ~TV~rwl~r~~~~G~~~~~~r~gr~~~~~~~~~~~~I~~~~~~~~~~s~~~i~~~l~~~~~~~~~~~~S~sTV~r  130 (159)
T 2k27_A           56 GCVSKILGRYYETGSIRPGVIGGSKPKVATPKVVEKIGDYKRQNPTMFAWEIRDRLLAEGVCDNDTVPSVSSINR  130 (159)
T ss_dssp             HHHHHHHCCSSTTSCCCCCCCCCCCCCCCCTTHHHHHHHHHHHCSSSCHHHHHHHHHHHTCSCTTTSCCHHHHHH
T ss_pred             HHHHHHHHHHHhcCCccCCCCCCCCCCCCCHHHHHHHHHHHHHCccchHHHHHHHHHHhcccccCCccCHHHHHH
Confidence            358899999999999988887786677778888899999999999999999999998777654333345555554

>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=93.62  E-value=0.0041  Score=44.76  Aligned_cols=46  Identities=15%  Similarity=0.035  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHHhhCCCcchhhhhccccccccccc----cCCCCCCCcchh
Q psy4875          35 AEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSN----DNIPSRECPSIF   80 (100)
Q Consensus        35 ~~~vskIl~~~~e~psif~~eIR~rL~~~gvc~~----~~~ps~ss~~rF   80 (100)
                      ++++.+|.+|++++|.+++|+|++.+...|+...    ..-++.++++++
T Consensus        14 ~~~~~~ie~~~~e~p~~l~~~Ik~~l~~~gitQ~~lA~~~GiSqs~ISr~   63 (194)
T 1ic8_A           14 AHQKAVVETLLQEDPWRVAKMVKSYLQQHNIPQREVVDTTGLNQSHLSQH   63 (194)
T ss_dssp             HHHHHHHHHHTTSCHHHHHHHHHHHHHHTTCCHHHHHHHHCCCHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHcCCCHHHHHHHhCCChHHHHHH
Confidence            5799999999999999999999999988887532    333566666654

>1u78_A TC3 transposase, transposable element TC3 transposase; transposon DNA, bipartite DNA-binding, HTH- motif, DNA binding protein/DNA complex; 2.69A {Caenorhabditis elegans} SCOP: a.4.1.2 a.4.1.2

Probab=92.34  E-value=0.13  Score=32.97  Aligned_cols=51  Identities=10%  Similarity=0.093  Sum_probs=39.0

Q ss_pred             cchHHHhhhHhhcccccccccCCCCCCcCcHHHHHHHHHHHhhCCCcchhhhhccc
Q psy4875           5 TLLCPLVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRL   60 (100)
Q Consensus         5 gcvskiL~r~~etGsi~Pg~iGGskP~~~s~~~vskIl~~~~e~psif~~eIR~rL   60 (100)
                      ..|.+.+.+|.++|...+   .| +|...++.....|+.. .++|...+.+|..+|
T Consensus        37 ~Tv~r~~~~~~~~g~~~~---~g-r~~~l~~~~~~~i~~~-~~~~~~s~~~i~~~l   87 (141)
T 1u78_A           37 HCIRVYLKDPVSYGTSKR---AP-RRKALSVRDERNVIRA-ASNSCKTARDIRNEL   87 (141)
T ss_dssp             HHHHHHHHSGGGTTCCCC---CC-CCCSSCHHHHHHHHHH-HHHCCCCHHHHHHHT
T ss_pred             HHHHHHHHcccccCCcCC---CC-CCCcCCHHHHHHHHHH-HhCCCCCHHHHHHHH
Confidence            357889999998886644   33 5666788888888887 677888888888776

>2pjp_A Selenocysteine-specific elongation factor; SELB, protein-RNA complex, elongation factor, winged- helix, bulge, translation/RNA complex; 2.30A {Escherichia coli}

Probab=91.29  E-value=0.051  Score=35.40  Aligned_cols=54  Identities=22%  Similarity=0.234  Sum_probs=47.5

Q ss_pred             hHHHhhhHhhcccccccccCCCCCCcCcHHHHHHHHHHHhhCCCcchhhhhccc
Q psy4875           7 LCPLVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRL   60 (100)
Q Consensus         7 vskiL~r~~etGsi~Pg~iGGskP~~~s~~~vskIl~~~~e~psif~~eIR~rL   60 (100)
                      +.++|..+.++|.+.|-..+..-........+..|.++..+++.|++.|.|+.+
T Consensus        37 ~~~~l~~l~~~G~l~~i~~~~~~~~~~~~~~~~~l~~~~~~~~~it~ae~Rd~l   90 (121)
T 2pjp_A           37 MRLTLRQAAQQGIITAIVKDRYYRNDRIVEFANMIRDLDQECGSTCAADFRDRL   90 (121)
T ss_dssp             HHHHHHHHHHTTSEEEEETTEEEEHHHHHHHHHHHHHHHHHHSSEEHHHHHHHH
T ss_pred             HHHHHHHHHHCCCEEEecCCceECHHHHHHHHHHHHHHHHHCCCccHHHHHHHH
Confidence            346889999999999988887766677788999999999999999999999987

>3hot_A Transposable element mariner, complete CDS; protein-DNA complex, synaptic complex, transposase, inverted DNA, DNA binding protein-DNA complex; HET: 5IU; 3.25A {Drosophila mauritiana} PDB: 3hos_A*

Probab=81.24  E-value=2.3  Score=30.94  Aligned_cols=50  Identities=12%  Similarity=0.190  Sum_probs=36.0

Q ss_pred             chHHHhhhHhhcc--cccccccCCCCCCcCcHHHHHHHHHHHhhCCCcchhhhhccc
Q psy4875           6 LLCPLVHRYYETG--SIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRL   60 (100)
Q Consensus         6 cvskiL~r~~etG--si~Pg~iGGskP~~~s~~~vskIl~~~~e~psif~~eIR~rL   60 (100)
                      -|.+.+.+|.+ |  ++.+...+| +|+..+++   .|.+...++|.....+|...|
T Consensus        45 tv~~w~~r~~~-g~~~l~~~~r~g-rp~~~~~~---~i~~~v~~~~~~t~~~ia~~l   96 (345)
T 3hot_A           45 TCERWFQRFKS-GDFDVDDKEHGK-PPKRYEDA---ELQALLDEDDAQTQKQLAEQL   96 (345)
T ss_dssp             HHHHHHHHHTT-CCCCCSCCCCCC-CCCSSCHH---HHHHHHHHCSCCCHHHHHHHT
T ss_pred             HHHHHHHHHhC-CCccccCCCCCC-CCCcccHH---HHHHHHHhCccchHHHHHHHH
Confidence            46788999987 6  477888888 77777664   344445788988888886554

---

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	100
d1k78a2	61	a.4.1.5 (A:82-142) Pax-5 {Human (Homo sapiens) [Ta	2e-27
d6paxa2	65	a.4.1.5 (A:69-133) Pax-6 {Human (Homo sapiens) [Ta	1e-26
d1pdnc_	123	a.4.1.5 (C:) Paired protein (prd) {Fruit fly (Dros	5e-19

>d1k78a2 a.4.1.5 (A:82-142) Pax-5 {Human (Homo sapiens) [TaxId: 9606]} Length = 61

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Paired domain
domain: Pax-5
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 93.1 bits (232), Expect = 2e-27
 Identities = 34/49 (69%), Positives = 41/49 (83%)

Query: 25 IGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIPS 73
          IGGSKP+VAT +VV KI+ YKR+ P++FAWEIRDRLL E VC ND +PS
Sbjct: 2  IGGSKPKVATPKVVEKIAEYKRQNPTMFAWEIRDRLLAERVCDNDTVPS 50

>d6paxa2 a.4.1.5 (A:69-133) Pax-6 {Human (Homo sapiens) [TaxId: 9606]} Length = 65

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Paired domain
domain: Pax-6
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 90.9 bits (226), Expect = 1e-26
 Identities = 42/48 (87%), Positives = 45/48 (93%)

Query: 26 GGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIPS 73
          GGSKPRVAT EVVSKI+ YK+ECPSIFAWEIRDRLL EGVC+NDNIPS
Sbjct: 1  GGSKPRVATPEVVSKIAQYKQECPSIFAWEIRDRLLSEGVCTNDNIPS 48

>d1pdnc_ a.4.1.5 (C:) Paired protein (prd) {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 123

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

 Score = 73.4 bits (180), Expect = 5e-19
 Identities = 36/65 (55%), Positives = 49/65 (75%)

Query: 10  LVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSND 69
           +++RY ETGSIRP  IGGSKPR+AT E+ ++I  YKR  P +F+WEIR++L++EGVC   
Sbjct: 52  ILNRYQETGSIRPGVIGGSKPRIATPEIENRIEEYKRSSPGMFSWEIREKLIREGVCDRS 111

Query: 70  NIPSR 74
             PS 
Sbjct: 112 TAPSV 116

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	100
d1k78a2	61	Pax-5 {Human (Homo sapiens) [TaxId: 9606]}	99.92
d6paxa2	65	Pax-6 {Human (Homo sapiens) [TaxId: 9606]}	99.92
d1pdnc_	123	Paired protein (prd) {Fruit fly (Drosophila melano	99.78
d1k78a2	61	Pax-5 {Human (Homo sapiens) [TaxId: 9606]}	99.63
d6paxa2	65	Pax-6 {Human (Homo sapiens) [TaxId: 9606]}	99.6
d1pdnc_	123	Paired protein (prd) {Fruit fly (Drosophila melano	99.08
d1k78a1	63	Pax-5 {Human (Homo sapiens) [TaxId: 9606]}	98.05
d1k78a1	63	Pax-5 {Human (Homo sapiens) [TaxId: 9606]}	96.62

>d1k78a2 a.4.1.5 (A:82-142) Pax-5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Paired domain
domain: Pax-5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=5.7e-27  Score=141.06  Aligned_cols=58  Identities=59%  Similarity=0.994  Sum_probs=55.8

Q ss_pred             ccCCCCCCcCcHHHHHHHHHHHhhCCCcchhhhhccccccccccccCCCCCCCcchhH
Q psy4875          24 AIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIPSRECPSIFA   81 (100)
Q Consensus        24 ~iGGskP~~~s~~~vskIl~~~~e~psif~~eIR~rL~~~gvc~~~~~ps~ss~~rFa   81 (100)
                      .||||||+++||+++.+|.+|++|||+||+||||++|+++|+|++.++||+||+||..
T Consensus         1 vIGGSKPrvaTP~V~~kI~~yK~enP~iFaWEIRd~Li~egiC~~~nvPSvSsInRil   58 (61)
T d1k78a2           1 VIGGSKPKVATPKVVEKIAEYKRQNPTMFAWEIRDRLLAERVCDNDTVPSVSSINRII   58 (61)
T ss_dssp             CCCCCCCSSSCHHHHHHHHHHHHHCTTCCHHHHHHHHHHTTSSCTTTSCCHHHHHHHH
T ss_pred             CCCCCCCCcCCHHHHHHHHHHHhcCCcccHHHHHHHHHHcCCCCCCCCCchHHHHHHh
Confidence            4899999999999999999999999999999999999999999999999999999843

>d6paxa2 a.4.1.5 (A:69-133) Pax-6 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Paired domain
domain: Pax-6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=4e-26  Score=138.74  Aligned_cols=61  Identities=70%  Similarity=1.123  Sum_probs=57.1

Q ss_pred             CCCCCCcCcHHHHHHHHHHHhhCCCcchhhhhccccccccccccCCCCCCCcchhHHHHHHHHh
Q psy4875          26 GGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIPSRECPSIFAWEIRDRLL   89 (100)
Q Consensus        26 GGskP~~~s~~~vskIl~~~~e~psif~~eIR~rL~~~gvc~~~~~ps~ss~~rFaweir~~l~   89 (100)
                      |||||+++||+++.+|.+|++++|+||+||||++|+.+|||++.++||+||+||   .+|.+..
T Consensus         1 GGSKPrvaTP~V~~kI~~yK~enP~iFaWEIRd~Li~egiC~~~~vPSvSsInR---ilR~~~~   61 (65)
T d6paxa2           1 GGSKPRVATPEVVSKIAQYKQECPSIFAWEIRDRLLSEGVCTNDNIPSVSSINR---VLRNLAS   61 (65)
T ss_dssp             SCCCCSSSCHHHHHHHHHHHHHCTTCCHHHHHHHHHHTTSSCTTTCCCHHHHHH---HHHHHHH
T ss_pred             CCCCcCcCCHHHHHHHHHHHHhCCccchHHHHHHHHHcCCCCCCCCCchHHHHH---HHHHhhh
Confidence            899999999999999999999999999999999999999999999999999998   5555543

>d1pdnc_ a.4.1.5 (C:) Paired protein (prd) {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

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

Probab=99.78  E-value=1.2e-20  Score=126.67  Aligned_cols=78  Identities=47%  Similarity=0.879  Sum_probs=75.7

Q ss_pred             cccchHHHhhhHhhcccccccccCCCCCCcCcHHHHHHHHHHHhhCCCcchhhhhccccccccccccCCCCCCCcchh
Q psy4875           3 FLTLLCPLVHRYYETGSIRPRAIGGSKPRVATAEVVSKISHYKRECPSIFAWEIRDRLLQEGVCSNDNIPSRECPSIF   80 (100)
Q Consensus         3 ~~gcvskiL~r~~etGsi~Pg~iGGskP~~~s~~~vskIl~~~~e~psif~~eIR~rL~~~gvc~~~~~ps~ss~~rF   80 (100)
                      -++||+||+.||.+||++.|++.||.+|+..+++++..|..+..++|++++|||+++|+.+|+|...++||+|+|+|+
T Consensus        45 S~~tV~k~l~r~~~~G~~~~~~~~~~rpr~~t~~~~~~I~~~~~~~P~~t~~El~~~L~~egv~~~~~~pSvStI~Ri  122 (123)
T d1pdnc_          45 SHGCVSKILNRYQETGSIRPGVIGGSKPRIATPEIENRIEEYKRSSPGMFSWEIREKLIREGVCDRSTAPSVSAISRL  122 (123)
T ss_dssp             CHHHHHHHHHHHHHHCCSSCCCCSCCCCCSSCSTHHHHHHHTTTTCTTCCHHHHHHHHHHTSSSCSTTCCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHccCCcCcCCCCCCCCCCCCHHHHHHHHHHHHhCCCccHHHHHHHHHHcCCCCCCCCCChhhHhhc
Confidence            378999999999999999999999999999999999999999999999999999999999999999999999999986

>d1k78a2 a.4.1.5 (A:82-142) Pax-5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Paired domain
domain: Pax-5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=5.8e-18  Score=101.36  Aligned_cols=44  Identities=43%  Similarity=0.798  Sum_probs=43.2

Q ss_pred             hccccccccccccCCCCCCCcchhHHHHHHHHhhcCCCCCCCCC
Q psy4875          57 RDRLLQEGVCSNDNIPSRECPSIFAWEIRDRLLQEGVCSNDNIP  100 (100)
Q Consensus        57 R~rL~~~gvc~~~~~ps~ss~~rFaweir~~l~~~g~c~~~~~p  100 (100)
                      ++|++++.|+.++..|+.++|++||||||++|+++|+|+++|+|
T Consensus         6 KPrvaTP~V~~kI~~yK~enP~iFaWEIRd~Li~egiC~~~nvP   49 (61)
T d1k78a2           6 KPKVATPKVVEKIAEYKRQNPTMFAWEIRDRLLAERVCDNDTVP   49 (61)
T ss_dssp             CCSSSCHHHHHHHHHHHHHCTTCCHHHHHHHHHHTTSSCTTTSC
T ss_pred             CCCcCCHHHHHHHHHHHhcCCcccHHHHHHHHHHcCCCCCCCCC
Confidence            79999999999999999999999999999999999999999998

>d6paxa2 a.4.1.5 (A:69-133) Pax-6 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Paired domain
domain: Pax-6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.60  E-value=1.7e-17  Score=100.38  Aligned_cols=44  Identities=61%  Similarity=1.043  Sum_probs=43.0

Q ss_pred             hccccccccccccCCCCCCCcchhHHHHHHHHhhcCCCCCCCCC
Q psy4875          57 RDRLLQEGVCSNDNIPSRECPSIFAWEIRDRLLQEGVCSNDNIP  100 (100)
Q Consensus        57 R~rL~~~gvc~~~~~ps~ss~~rFaweir~~l~~~g~c~~~~~p  100 (100)
                      ++|++++.|+.++..|+.++|++||||||++|+++|+|+++|||
T Consensus         4 KPrvaTP~V~~kI~~yK~enP~iFaWEIRd~Li~egiC~~~~vP   47 (65)
T d6paxa2           4 KPRVATPEVVSKIAQYKQECPSIFAWEIRDRLLSEGVCTNDNIP   47 (65)
T ss_dssp             CCSSSCHHHHHHHHHHHHHCTTCCHHHHHHHHHHTTSSCTTTCC
T ss_pred             CcCcCCHHHHHHHHHHHHhCCccchHHHHHHHHHcCCCCCCCCC
Confidence            78999999999999999999999999999999999999999998

>d1pdnc_ a.4.1.5 (C:) Paired protein (prd) {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

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

Probab=99.08  E-value=1.2e-11  Score=82.05  Aligned_cols=92  Identities=29%  Similarity=0.473  Sum_probs=79.3

Q ss_pred             HHhhhHhhccccccc---------ccCCCCCC------cCcHHHHHHHHHHHhhCCCcchhhh---hccccccccccccC
Q psy4875           9 PLVHRYYETGSIRPR---------AIGGSKPR------VATAEVVSKISHYKRECPSIFAWEI---RDRLLQEGVCSNDN   70 (100)
Q Consensus         9 kiL~r~~etGsi~Pg---------~iGGskP~------~~s~~~vskIl~~~~e~psif~~eI---R~rL~~~gvc~~~~   70 (100)
                      ++|++-|.+|.+.|.         .-.|..++      .+++.+|.+|+.+|++++++.+...   +++.+++.+...+.
T Consensus         5 n~~gg~~~~GrpLs~dlR~rIv~~~~~G~s~r~iA~~~~VS~~tV~k~l~r~~~~G~~~~~~~~~~rpr~~t~~~~~~I~   84 (123)
T d1pdnc_           5 NQLGGVFINGRPLPNNIRLKIVEMAADGIRPCVISRQLRVSHGCVSKILNRYQETGSIRPGVIGGSKPRIATPEIENRIE   84 (123)
T ss_dssp             CTTSCEEETTSCCCHHHHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHHHHHHHCCSSCCCCSCCCCCSSCSTHHHHHH
T ss_pred             ccCCCcccCCcCCCHHHHHHHHHHHHhcCCHHHHHHHHCcCHHHHHHHHHHHHccCCcCcCCCCCCCCCCCCHHHHHHHH
Confidence            468888999999884         35677665      3589999999999999999998876   56778888888777


Q ss_pred             CCCCCCcchhHHHHHHHHhhcCCCCCCCCC
Q psy4875          71 IPSRECPSIFAWEIRDRLLQEGVCSNDNIP  100 (100)
Q Consensus        71 ~ps~ss~~rFaweir~~l~~~g~c~~~~~p  100 (100)
                      ....++|..++|||+++|..+|+|+.+++|
T Consensus        85 ~~~~~~P~~t~~El~~~L~~egv~~~~~~p  114 (123)
T d1pdnc_          85 EYKRSSPGMFSWEIREKLIREGVCDRSTAP  114 (123)
T ss_dssp             HTTTTCTTCCHHHHHHHHHHTSSSCSTTCC
T ss_pred             HHHHhCCCccHHHHHHHHHHcCCCCCCCCC
Confidence            788899999999999999999999999887

>d1k78a1 a.4.1.5 (A:19-81) Pax-5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Paired domain
domain: Pax-5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.05  E-value=5.2e-07  Score=53.49  Aligned_cols=21  Identities=43%  Similarity=0.725  Sum_probs=19.8

Q ss_pred             cccchHHHhhhHhhccccccc
Q psy4875           3 FLTLLCPLVHRYYETGSIRPR   23 (100)
Q Consensus         3 ~~gcvskiL~r~~etGsi~Pg   23 (100)
                      -|+||+|++.||+|||+++||
T Consensus        43 S~s~v~k~l~r~reTG~i~PG   63 (63)
T d1k78a1          43 SHGCVSKILGRYYETGSIKPG   63 (63)
T ss_dssp             CHHHHHHHHHHHHHHSCCCCC
T ss_pred             CHHHHHHHHHHHHHhcCCCCC
Confidence            479999999999999999997

>d1k78a1 a.4.1.5 (A:19-81) Pax-5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Paired domain
domain: Pax-5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.62  E-value=0.00017  Score=42.21  Aligned_cols=46  Identities=26%  Similarity=0.166  Sum_probs=37.5

Q ss_pred             HHhhhHhhccccccc---------ccCCCCCCc------CcHHHHHHHHHHHhhCCCcchh
Q psy4875           9 PLVHRYYETGSIRPR---------AIGGSKPRV------ATAEVVSKISHYKRECPSIFAW   54 (100)
Q Consensus         9 kiL~r~~etGsi~Pg---------~iGGskP~~------~s~~~vskIl~~~~e~psif~~   54 (100)
                      ++|++-|-+|.+.|.         ...|.+++.      +|+.+|+|++++|+||++|.|+
T Consensus         3 n~~gg~~~~GrPls~DLR~Riv~~~~~G~s~r~aA~rf~VS~s~v~k~l~r~reTG~i~PG   63 (63)
T d1k78a1           3 NQLGGVFVNGRPLPDVVRQRIVELAHQGVRPCDISRQLRVSHGCVSKILGRYYETGSIKPG   63 (63)
T ss_dssp             CTTSCBCCTTSCCCHHHHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHHHHHHHHSCCCCC
T ss_pred             CCCCccccCCCcCCHHHHHHHHHHHHcCCCHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCC
Confidence            467888888988885         247777763      5899999999999999999774