Psyllid ID: psy405

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60------
Protein Sequence
MAKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCTA
Secondary Structure (PSIPRED)
ccccccccccHHHHHHHHHHHHHHHHHHHcccccccccccccEEcHHHHHHHHHHHcccccHHccc
Secondary Structure Prediction (SSPRO)
ccHHcccccccHHHHHHHHHHHHHHHHHHccccccccccccccEEEHHHHHHHHHHccccEEEccc
Coil and Loop (DISEMBL)
makvtkkdgdAYFKEKESFLRDLQHfhetrgtpcrhvpkiggkeIDLYLLYCLVtsnggwvkkcta
Flexible Loop (DISEMBL)
makvtkkdgdayfkEKESFLRDLQHfhetrgtpcrhvpkIGGKEIDLYLLYCLvtsnggwvkkcta
Low Complexity Region (SEG)
MAKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCTA
Disordered region (IsUnstruct)
******************FLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKK***
Disordered Region (DISOPRED)
*****************SFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCTA
Disordered Region (DISEMBL)
********GDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCTA
Disordered Region (DISPRO)
****TKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCT*
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCTA
Positional Conservation
no confident homologs detected

---

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	66	2.2.26 [Sep-21-2011]
Q68CP9	1835	AT-rich interactive domai	yes	N/A	0.939	0.033	0.419	6e-08
Q8IVW6	561	AT-rich interactive domai	no	N/A	0.878	0.103	0.442	8e-07
Q9Z1N7	568	AT-rich interactive domai	no	N/A	0.878	0.102	0.442	9e-07
Q5XGD9	541	AT-rich interactive domai	no	N/A	0.787	0.096	0.472	2e-06
Q6GQD7	539	AT-rich interactive domai	N/A	N/A	0.787	0.096	0.472	2e-06
Q99856	593	AT-rich interactive domai	no	N/A	0.787	0.087	0.454	6e-06
Q62431	601	AT-rich interactive domai	no	N/A	0.787	0.086	0.471	1e-05
A2BEA6	570	AT-rich interactive domai	no	N/A	0.742	0.085	0.428	3e-05
A6PWV5	409	AT-rich interactive domai	no	N/A	0.787	0.127	0.490	4e-05
A6NKF2	412	AT-rich interactive domai	no	N/A	0.787	0.126	0.490	4e-05

>sp|Q68CP9|ARID2_HUMAN AT-rich interactive domain-containing protein 2 OS=Homo sapiens GN=ARID2 PE=1 SV=2

 Score = 56.2 bits (134), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 26/62 (41%), Positives = 40/62 (64%)

Query: 1  MAKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
          MA  T K      ++  +FL +L+ FH +RG+P + +P +GGKE+DL+ LY  VT+ GG+
Sbjct: 1  MANSTGKAPPDERRKGLAFLDELRQFHHSRGSPFKKIPAVGGKELDLHGLYTRVTTLGGF 60

Query: 61 VK 62
           K
Sbjct: 61 AK 62

Involved in transcriptional activation and repression of select genes by chromatin remodeling (alteration of DNA-nucleosome topology). Required for the stability of the SWI/SNF chromatin remodeling complex SWI/SNF-B (PBAF). May be involved in targeting the complex to different genes. May be involved in regulating transcriptional activation of cardiac genes.
Homo sapiens (taxid: 9606)

>sp|Q8IVW6|ARI3B_HUMAN AT-rich interactive domain-containing protein 3B OS=Homo sapiens GN=ARID3B PE=1 SV=2

 Score = 52.4 bits (124), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 27/61 (44%), Positives = 38/61 (62%), Gaps = 3/61 (4%)

Query: 2   AKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWV 61
           AK+ + DGD    E++ FL DL  F + RGTP   +P +  + +DLY+LY LVT  GG V
Sbjct: 207 AKLYELDGDP---ERKEFLDDLFVFMQKRGTPINRIPIMAKQILDLYMLYKLVTEKGGLV 263

Query: 62  K 62
           +
Sbjct: 264 E 264

Transcription factor which may be involved in neuroblastoma growth and malignant transformation. Favors nuclear targeting of ARID3A.

Homo sapiens (taxid: 9606)

>sp|Q9Z1N7|ARI3B_MOUSE AT-rich interactive domain-containing protein 3B OS=Mus musculus GN=Arid3b PE=2 SV=1

 Score = 52.4 bits (124), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 27/61 (44%), Positives = 38/61 (62%), Gaps = 3/61 (4%)

Query: 2   AKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWV 61
           AK+ + DGD    E++ FL DL  F + RGTP   +P +  + +DLY+LY LVT  GG V
Sbjct: 205 AKLYELDGDP---ERKEFLDDLFIFMQKRGTPINRIPIMAKQILDLYMLYKLVTEKGGLV 261

Query: 62  K 62
           +
Sbjct: 262 E 262

Transcription factor involved in the production of cranial mesenchymal tissues. Favors nuclear targeting of ARID3A.

Mus musculus (taxid: 10090)

>sp|Q5XGD9|ARI3A_XENTR AT-rich interactive domain-containing protein 3A OS=Xenopus tropicalis GN=arid3a PE=2 SV=1

 Score = 50.8 bits (120), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 26/55 (47%), Positives = 33/55 (60%), Gaps = 3/55 (5%)

Query: 8   DGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVK 62
           DGD   KE   FL DL  F + RGTP   +P +  + +DLY+LY LVT  GG V+
Sbjct: 210 DGDPKRKE---FLDDLFSFMQKRGTPVNRIPIMAKQVLDLYMLYVLVTEKGGLVE 261

Transcription factor required for smad1 and smad2-mediated responses to TGFbeta during mesoderm induction.

Xenopus tropicalis (taxid: 8364)

>sp|Q6GQD7|ARI3A_XENLA AT-rich interactive domain-containing protein 3A OS=Xenopus laevis GN=arid3a PE=2 SV=1

 Score = 50.8 bits (120), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 26/55 (47%), Positives = 33/55 (60%), Gaps = 3/55 (5%)

Query: 8   DGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVK 62
           DGD   KE   FL DL  F + RGTP   +P +  + +DLY+LY LVT  GG V+
Sbjct: 207 DGDPKRKE---FLDDLFSFMQKRGTPVNRIPIMAKQVLDLYMLYVLVTEKGGLVE 258

Transcription factor required for smad1 and smad2-mediated responses to TGFbeta during mesoderm induction.

Xenopus laevis (taxid: 8355)

>sp|Q99856|ARI3A_HUMAN AT-rich interactive domain-containing protein 3A OS=Homo sapiens GN=ARID3A PE=1 SV=2

 Score = 49.3 bits (116), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 25/55 (45%), Positives = 33/55 (60%), Gaps = 3/55 (5%)

Query: 8   DGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVK 62
           DGD   KE   FL DL  F + RGTP   +P +  + +DL++LY LVT  GG V+
Sbjct: 236 DGDPKRKE---FLDDLFSFMQKRGTPVNRIPIMAKQVLDLFMLYVLVTEKGGLVE 287

Transcription factor which may be involved in the control of cell cycle progression by the RB1/E2F1 pathway and in B-cell differentiation.

Homo sapiens (taxid: 9606)

>sp|Q62431|ARI3A_MOUSE AT-rich interactive domain-containing protein 3A OS=Mus musculus GN=Arid3a PE=1 SV=1

 Score = 48.5 bits (114), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 25/53 (47%), Positives = 33/53 (62%), Gaps = 1/53 (1%)

Query: 10  DAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVK 62
           DA  K KE FL DL  F + RGTP   +P +  + +DL++LY LVT  GG V+
Sbjct: 241 DADPKRKE-FLDDLFSFMQKRGTPVNRIPIMAKQVLDLFMLYVLVTEKGGLVE 292

Transcription factor involved in B-cell differentiation. Binds a VH promoter proximal site necessary for induced mu-heavy-chain transcription. Binds the minor groove of a restricted ATC sequence that is sufficient for nuclear matrix association. This sequence motif is present in matrix-associating regions (MARS) proximal to the promoter and flanking E mu. Activates E mu-driven transcription by binding these sites. May be involved in the control of cell cycle progression by the RB1/E2F1 pathway.

Mus musculus (taxid: 10090)

>sp|A2BEA6|ARI3A_DANRE AT-rich interactive domain-containing protein 3A OS=Danio rerio GN=arid3a PE=1 SV=1

 Score = 47.0 bits (110), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 21/49 (42%), Positives = 31/49 (63%)

Query: 14  KEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVK 62
           ++++ FL DL  F + RGTP   +P +  + +DLY LY LVT  GG V+
Sbjct: 233 EKRKEFLDDLFSFMQKRGTPVNRIPIMAKQVLDLYTLYKLVTEKGGLVE 281

Transcription factor.

Danio rerio (taxid: 7955)

>sp|A6PWV5|ARI3C_MOUSE AT-rich interactive domain-containing protein 3C OS=Mus musculus GN=Arid3c PE=2 SV=2

 Score = 47.0 bits (110), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 26/53 (49%), Positives = 33/53 (62%), Gaps = 1/53 (1%)

Query: 10  DAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVK 62
           DA  K KE FL DL  F + RGTP   VP +  + +DLY L+ LVT+ GG V+
Sbjct: 108 DADPKRKE-FLDDLFSFMQKRGTPVNRVPIMAKQVLDLYALFRLVTAKGGLVE 159

Mus musculus (taxid: 10090)

>sp|A6NKF2|ARI3C_HUMAN AT-rich interactive domain-containing protein 3C OS=Homo sapiens GN=ARID3C PE=2 SV=1

 Score = 47.0 bits (110), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 26/53 (49%), Positives = 33/53 (62%), Gaps = 1/53 (1%)

Query: 10  DAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVK 62
           DA  K KE FL DL  F + RGTP   VP +  + +DLY L+ LVT+ GG V+
Sbjct: 111 DADPKRKE-FLDDLFSFMQKRGTPVNRVPIMAKQVLDLYALFRLVTAKGGLVE 162

Homo sapiens (taxid: 9606)

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	66
328697850	1510	PREDICTED: hypothetical protein LOC10016	0.939	0.041	0.709	2e-18
189236343	1548	PREDICTED: similar to AGAP006990-PA [Tri	0.939	0.040	0.645	1e-17
380017148	1814	PREDICTED: uncharacterized protein LOC10	0.939	0.034	0.629	2e-17
328791607	1812	PREDICTED: hypothetical protein LOC72431	0.939	0.034	0.629	2e-17
270005461	87	hypothetical protein TcasGA2_TC007519 [T	0.984	0.747	0.630	4e-17
350417762	1832	PREDICTED: hypothetical protein LOC10074	0.939	0.033	0.612	5e-17
340729344	1822	PREDICTED: AT-rich interactive domain-co	0.939	0.034	0.612	5e-17
383855680	1829	PREDICTED: uncharacterized protein LOC10	0.939	0.033	0.580	7e-17
328794480	73	PREDICTED: AT-rich interactive domain-co	0.939	0.849	0.629	2e-16
307167222	122	AT-rich interactive domain-containing pr	0.954	0.516	0.619	1e-15

>gi|328697850|ref|XP_001945762.2| PREDICTED: hypothetical protein LOC100161479 [Acyrthosiphon pisum]

 Score = 96.3 bits (238), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 44/62 (70%), Positives = 48/62 (77%)

Query: 1  MAKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
          MA V  KD   Y +EK SFLRDLQHFH+TRGTP R  PKI GK+IDLYLLY LVT+ GGW
Sbjct: 1  MANVLNKDPANYAREKASFLRDLQHFHDTRGTPSRVSPKIDGKDIDLYLLYVLVTAQGGW 60

Query: 61 VK 62
          VK
Sbjct: 61 VK 62

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|189236343|ref|XP_975398.2| PREDICTED: similar to AGAP006990-PA [Tribolium castaneum]

 Score = 94.0 bits (232), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 40/62 (64%), Positives = 48/62 (77%)

Query: 1  MAKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
          MAK+  K+   Y KE++ FLRDL HFHETRGTP R  P +GGKE+DL+LLY LVTS GGW
Sbjct: 1  MAKIPDKNAATYPKERDGFLRDLHHFHETRGTPFRRPPILGGKEVDLHLLYTLVTSQGGW 60

Query: 61 VK 62
          +K
Sbjct: 61 IK 62

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380017148|ref|XP_003692524.1| PREDICTED: uncharacterized protein LOC100871810 [Apis florea]

 Score = 93.2 bits (230), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 39/62 (62%), Positives = 51/62 (82%)

Query: 1  MAKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
          MAK+  KD   Y +E+E+FL+DL+HFHETRGTP +  PKI GK+IDLYLLY +VT++GGW
Sbjct: 1  MAKILNKDPVTYERERENFLKDLRHFHETRGTPFKKNPKINGKDIDLYLLYVVVTAHGGW 60

Query: 61 VK 62
          +K
Sbjct: 61 IK 62

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328791607|ref|XP_001120115.2| PREDICTED: hypothetical protein LOC724311 [Apis mellifera]

 Score = 93.2 bits (230), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 39/62 (62%), Positives = 51/62 (82%)

Query: 1  MAKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
          MAK+  KD   Y +E+E+FL+DL+HFHETRGTP +  PKI GK+IDLYLLY +VT++GGW
Sbjct: 1  MAKILNKDPVTYERERENFLKDLRHFHETRGTPFKKNPKINGKDIDLYLLYVVVTAHGGW 60

Query: 61 VK 62
          +K
Sbjct: 61 IK 62

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270005461|gb|EFA01909.1| hypothetical protein TcasGA2_TC007519 [Tribolium castaneum]

 Score = 92.0 bits (227), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 41/65 (63%), Positives = 49/65 (75%)

Query: 1  MAKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
          MAK+  K+   Y KE++ FLRDL HFHETRGTP R  P +GGKE+DL+LLY LVTS GGW
Sbjct: 1  MAKIPDKNAATYPKERDGFLRDLHHFHETRGTPFRRPPILGGKEVDLHLLYTLVTSQGGW 60

Query: 61 VKKCT 65
          +K C 
Sbjct: 61 IKVCV 65

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350417762|ref|XP_003491582.1| PREDICTED: hypothetical protein LOC100743907 [Bombus impatiens]

 Score = 91.7 bits (226), Expect = 5e-17,   Method: Composition-based stats.
 Identities = 38/62 (61%), Positives = 51/62 (82%)

Query: 1  MAKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
          MAK+  KD   Y +E+++FL+DL+HFHETRGTP +  PKI GK+IDLYLLY +VT++GGW
Sbjct: 1  MAKILNKDPVTYERERDNFLKDLRHFHETRGTPFKKNPKINGKDIDLYLLYVVVTAHGGW 60

Query: 61 VK 62
          +K
Sbjct: 61 IK 62

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340729344|ref|XP_003402964.1| PREDICTED: AT-rich interactive domain-containing protein 2-like [Bombus terrestris]

 Score = 91.7 bits (226), Expect = 5e-17,   Method: Composition-based stats.
 Identities = 38/62 (61%), Positives = 51/62 (82%)

Query: 1  MAKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
          MAK+  KD   Y +E+++FL+DL+HFHETRGTP +  PKI GK+IDLYLLY +VT++GGW
Sbjct: 1  MAKILNKDPVTYERERDNFLKDLRHFHETRGTPFKKNPKINGKDIDLYLLYVVVTAHGGW 60

Query: 61 VK 62
          +K
Sbjct: 61 IK 62

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383855680|ref|XP_003703338.1| PREDICTED: uncharacterized protein LOC100876726 [Megachile rotundata]

 Score = 91.3 bits (225), Expect = 7e-17,   Method: Composition-based stats.
 Identities = 36/62 (58%), Positives = 51/62 (82%)

Query: 1  MAKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
          MAK+  KD   Y +E+++FL+DL+HFHETRGTP +  PK+ GK+IDLYLLY +VT++GGW
Sbjct: 1  MAKILNKDPVTYERERDNFLKDLRHFHETRGTPFKKTPKVNGKDIDLYLLYVVVTAHGGW 60

Query: 61 VK 62
          ++
Sbjct: 61 IR 62

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328794480|ref|XP_001123150.2| PREDICTED: AT-rich interactive domain-containing protein 3A-like [Apis mellifera]

 Score = 90.1 bits (222), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 39/62 (62%), Positives = 51/62 (82%)

Query: 1  MAKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
          MAK+  KD   Y +E+E+FL+DL+HFHETRGTP +  PKI GK+IDLYLLY +VT++GGW
Sbjct: 1  MAKILNKDPVTYERERENFLKDLRHFHETRGTPFKKNPKINGKDIDLYLLYVVVTAHGGW 60

Query: 61 VK 62
          +K
Sbjct: 61 IK 62

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307167222|gb|EFN60926.1| AT-rich interactive domain-containing protein 2 [Camponotus floridanus]

 Score = 87.0 bits (214), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 39/63 (61%), Positives = 51/63 (80%)

Query: 1  MAKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
          MAK+  KD   Y KE+E+FL+DL+HFHETRGT  +  PKI GK+IDLYLLY +VT++GGW
Sbjct: 1  MAKILNKDPVTYEKERENFLKDLRHFHETRGTLFKKTPKINGKDIDLYLLYVVVTAHGGW 60

Query: 61 VKK 63
          +K+
Sbjct: 61 IKR 63

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	66
ZFIN|ZDB-GENE-030131-6311	1573	arid2 "AT rich interactive dom	0.939	0.039	0.435	4.1e-07
FB|FBgn0042085	1688	Bap170 "Brahma associated prot	0.696	0.027	0.565	7.2e-07
UNIPROTKB|E1C9H0	1831	ARID2 "Uncharacterized protein	0.939	0.033	0.419	7.8e-07
UNIPROTKB|Q68CP9	1835	ARID2 "AT-rich interactive dom	0.939	0.033	0.419	1.3e-06
UNIPROTKB|E2RFI5	560	ARID3B "Uncharacterized protei	0.878	0.103	0.442	2.2e-06
RGD|1306335	560	Arid3b "AT rich interactive do	0.878	0.103	0.442	2.2e-06
UNIPROTKB|Q8IVW6	561	ARID3B "AT-rich interactive do	0.878	0.103	0.442	2.2e-06
MGI|MGI:1930768	568	Arid3b "AT rich interactive do	0.878	0.102	0.442	2.2e-06
UNIPROTKB|E1BI80	553	ARID3B "Uncharacterized protei	0.878	0.104	0.426	9.4e-06
UNIPROTKB|F1NL47	559	ARID3B "Uncharacterized protei	0.878	0.103	0.426	9.5e-06

ZFIN|ZDB-GENE-030131-6311 arid2 "AT rich interactive domain 2 (ARID, RFX-like)" [Danio rerio (taxid:7955)]

 Score = 131 (51.2 bits), Expect = 4.1e-07, P = 4.1e-07
 Identities = 27/62 (43%), Positives = 40/62 (64%)

Query:     1 MAKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
             MA  T K+     ++ ++FL +L+ FH +RG+P + VP +GGKE+DL  LY  V S GG+
Sbjct:     1 MANSTGKNLPEQRRKGQAFLDELRQFHHSRGSPFKKVPVVGGKELDLGALYVRVVSLGGF 60

Query:    61 VK 62
              K
Sbjct:    61 AK 62

GO:0003677 "DNA binding" evidence=IEA

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

GO:0005622 "intracellular" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

FB|FBgn0042085 Bap170 "Brahma associated protein 170kD" [Drosophila melanogaster (taxid:7227)]

 Score = 129 (50.5 bits), Expect = 7.2e-07, P = 7.2e-07
 Identities = 26/46 (56%), Positives = 29/46 (63%)

Query:    17 ESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVK 62
             E F RDLQ FHE RGTP     +I GK +DLY LY  VT  GG+ K
Sbjct:    67 EEFWRDLQQFHERRGTPLTQPARISGKHVDLYKLYNEVTERGGFNK 112

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

GO:0005515 "protein binding" evidence=IPI

GO:0035060 "brahma complex" evidence=IDA

GO:0003713 "transcription coactivator activity" evidence=IC

GO:0003677 "DNA binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006911 "phagocytosis, engulfment" evidence=IMP

GO:0005700 "polytene chromosome" evidence=IDA

GO:0007480 "imaginal disc-derived leg morphogenesis" evidence=IGI;IMP

GO:0031936 "negative regulation of chromatin silencing" evidence=IGI

GO:0050821 "protein stabilization" evidence=IMP

GO:0008587 "imaginal disc-derived wing margin morphogenesis" evidence=IMP

GO:0008586 "imaginal disc-derived wing vein morphogenesis" evidence=IMP

GO:0042059 "negative regulation of epidermal growth factor receptor signaling pathway" evidence=IGI

UNIPROTKB|E1C9H0 ARID2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 129 (50.5 bits), Expect = 7.8e-07, P = 7.8e-07
 Identities = 26/62 (41%), Positives = 41/62 (66%)

Query:     1 MAKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
             MA  T K+     ++  +FL +L+ FH +RG+P + +P +GGKE+DL+ LY  VT+ GG+
Sbjct:     1 MANSTGKNHADQRRKGLAFLDELRQFHHSRGSPFKKIPVVGGKELDLHALYTRVTTLGGF 60

Query:    61 VK 62
              K
Sbjct:    61 GK 62

GO:0003677 "DNA binding" evidence=IEA

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

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006337 "nucleosome disassembly" evidence=IEA

UNIPROTKB|Q68CP9 ARID2 "AT-rich interactive domain-containing protein 2" [Homo sapiens (taxid:9606)]

 Score = 127 (49.8 bits), Expect = 1.3e-06, P = 1.3e-06
 Identities = 26/62 (41%), Positives = 40/62 (64%)

Query:     1 MAKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
             MA  T K      ++  +FL +L+ FH +RG+P + +P +GGKE+DL+ LY  VT+ GG+
Sbjct:     1 MANSTGKAPPDERRKGLAFLDELRQFHHSRGSPFKKIPAVGGKELDLHGLYTRVTTLGGF 60

Query:    61 VK 62
              K
Sbjct:    61 AK 62

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

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

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

GO:0016568 "chromatin modification" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0006337 "nucleosome disassembly" evidence=IDA

UNIPROTKB|E2RFI5 ARID3B "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 119 (46.9 bits), Expect = 2.2e-06, P = 2.2e-06
 Identities = 27/61 (44%), Positives = 38/61 (62%)

Query:     2 AKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWV 61
             AK+ + DGD    E++ FL DL  F + RGTP   +P +  + +DLY+LY LVT  GG V
Sbjct:   208 AKLYELDGDP---ERKEFLDDLFIFMQKRGTPINRIPIMAKQILDLYMLYKLVTEKGGLV 264

Query:    62 K 62
             +
Sbjct:   265 E 265

GO:0005622 "intracellular" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

RGD|1306335 Arid3b "AT rich interactive domain 3B (Bright like)" [Rattus norvegicus (taxid:10116)]

 Score = 119 (46.9 bits), Expect = 2.2e-06, P = 2.2e-06
 Identities = 27/61 (44%), Positives = 38/61 (62%)

Query:     2 AKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWV 61
             AK+ + DGD    E++ FL DL  F + RGTP   +P +  + +DLY+LY LVT  GG V
Sbjct:   199 AKLYELDGDP---ERKEFLDDLFIFMQKRGTPINRIPIMAKQILDLYMLYKLVTEKGGLV 255

Query:    62 K 62
             +
Sbjct:   256 E 256

GO:0003677 "DNA binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

UNIPROTKB|Q8IVW6 ARID3B "AT-rich interactive domain-containing protein 3B" [Homo sapiens (taxid:9606)]

 Score = 119 (46.9 bits), Expect = 2.2e-06, P = 2.2e-06
 Identities = 27/61 (44%), Positives = 38/61 (62%)

Query:     2 AKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWV 61
             AK+ + DGD    E++ FL DL  F + RGTP   +P +  + +DLY+LY LVT  GG V
Sbjct:   207 AKLYELDGDP---ERKEFLDDLFVFMQKRGTPINRIPIMAKQILDLYMLYKLVTEKGGLV 263

Query:    62 K 62
             +
Sbjct:   264 E 264

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

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

GO:0003677 "DNA binding" evidence=NAS

GO:0005634 "nucleus" evidence=NAS

GO:0008150 "biological_process" evidence=ND

MGI|MGI:1930768 Arid3b "AT rich interactive domain 3B (BRIGHT-like)" [Mus musculus (taxid:10090)]

 Score = 119 (46.9 bits), Expect = 2.2e-06, P = 2.2e-06
 Identities = 27/61 (44%), Positives = 38/61 (62%)

Query:     2 AKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWV 61
             AK+ + DGD    E++ FL DL  F + RGTP   +P +  + +DLY+LY LVT  GG V
Sbjct:   205 AKLYELDGDP---ERKEFLDDLFIFMQKRGTPINRIPIMAKQILDLYMLYKLVTEKGGLV 261

Query:    62 K 62
             +
Sbjct:   262 E 262

GO:0003677 "DNA binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

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

GO:0007275 "multicellular organismal development" evidence=IEA

UNIPROTKB|E1BI80 ARID3B "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 113 (44.8 bits), Expect = 9.4e-06, P = 9.4e-06
 Identities = 26/61 (42%), Positives = 37/61 (60%)

Query:     2 AKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWV 61
             AK+ + D D    E++ FL DL  F + RGTP   +P +  + +DLY+LY LVT  GG V
Sbjct:   205 AKLYELDSDP---ERKEFLDDLFVFMQKRGTPINRIPIMAKQILDLYMLYKLVTEKGGLV 261

Query:    62 K 62
             +
Sbjct:   262 E 262

GO:0005622 "intracellular" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|F1NL47 ARID3B "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 113 (44.8 bits), Expect = 9.5e-06, P = 9.5e-06
 Identities = 26/61 (42%), Positives = 37/61 (60%)

Query:     2 AKVTKKDGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWV 61
             AK+ + D D    E++ FL DL  F + RGTP   +P +  + +DLY+LY LVT  GG V
Sbjct:   215 AKLYELDSDP---ERKEFLDDLFIFMQKRGTPINRIPIMAKQILDLYMLYKLVTEKGGLV 271

Query:    62 K 62
             +
Sbjct:   272 E 272

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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	66
pfam01388	90	pfam01388, ARID, ARID/BRIGHT DNA binding domain	2e-15
smart01014	88	smart01014, ARID, ARID/BRIGHT DNA binding domain	3e-15
smart00501	93	smart00501, BRIGHT, BRIGHT, ARID (A/T-rich interac	1e-12

>gnl|CDD|216473 pfam01388, ARID, ARID/BRIGHT DNA binding domain

 Score = 63.4 bits (155), Expect = 2e-15
 Identities = 27/49 (55%), Positives = 31/49 (63%)

Query: 14 KEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVK 62
           EKE+FL  L  F E RGTP   +P IGGK +DLY LY LV   GG+ K
Sbjct: 3  PEKENFLDRLAKFMERRGTPLDKIPVIGGKPLDLYKLYRLVQKLGGFEK 51

This domain is know as ARID for AT-Rich Interaction Domain, and also known as the BRIGHT domain. Length = 90

>gnl|CDD|198082 smart01014, ARID, ARID/BRIGHT DNA binding domain

 Score = 63.0 bits (154), Expect = 3e-15
 Identities = 25/49 (51%), Positives = 31/49 (63%)

Query: 14 KEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVK 62
          +E+E FL  L+ F E RGTP   +P IGGK +DLY LY  V   GG+ K
Sbjct: 1  RERELFLDRLRKFMEKRGTPLDKIPVIGGKPLDLYRLYRAVQKRGGFDK 49

Members of the recently discovered ARID (AT-rich interaction domain) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans. ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. Length = 88

>gnl|CDD|128777 smart00501, BRIGHT, BRIGHT, ARID (A/T-rich interaction domain) domain

 Score = 56.5 bits (137), Expect = 1e-12
 Identities = 23/51 (45%), Positives = 31/51 (60%)

Query: 14 KEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKC 64
          +E+  FL  L  F E RG+P + +P IGGK +DLY LY LV   GG+ +  
Sbjct: 1  RERVLFLDRLYKFMEERGSPLKKIPVIGGKPLDLYRLYRLVQERGGYDQVT 51

DNA-binding domain containing a helix-turn-helix structure. Length = 93

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	66
smart00501	93	BRIGHT BRIGHT, ARID (A/T-rich interaction domain)	99.81
PF01388	92	ARID: ARID/BRIGHT DNA binding domain; InterPro: IP	99.79
KOG2744|consensus	512		99.55
KOG2510|consensus	532		98.65

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

Probab=99.81  E-value=2.3e-20  Score=111.94  Aligned_cols=51  Identities=45%  Similarity=0.812  Sum_probs=49.2

Q ss_pred             hHHHHHHHHHHHHHhcCCCCCCCceecCeecchhhHHHHHHhcCcccceec
Q psy405           15 EKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCT   65 (66)
Q Consensus        15 ~~~~Fl~~L~~F~~~rg~p~~~~P~i~gk~lDL~~Ly~~V~~~GG~~~Vt~   65 (66)
                      +++.|+++|.+||+++|+|+.++|+|+|++||||+||.+|+++||+++||.
T Consensus         2 ~~~~F~~~L~~F~~~~g~~~~~~P~i~g~~vdL~~Ly~~V~~~GG~~~v~~   52 (93)
T smart00501        2 ERVLFLDRLYKFMEERGSPLKKIPVIGGKPLDLYRLYRLVQERGGYDQVTK   52 (93)
T ss_pred             cHHHHHHHHHHHHHHcCCcCCcCCeECCEeCcHHHHHHHHHHccCHHHHcC
Confidence            678999999999999999999999999999999999999999999999984

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

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

Probab=99.79  E-value=7.1e-20  Score=108.88  Aligned_cols=55  Identities=49%  Similarity=0.824  Sum_probs=49.9

Q ss_pred             cchHhHHHHHHHHHHHHHhcCCCCCCCceecCeecchhhHHHHHHhcCcccceec
Q psy405           11 AYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCT   65 (66)
Q Consensus        11 ~~~~~~~~Fl~~L~~F~~~rg~p~~~~P~i~gk~lDL~~Ly~~V~~~GG~~~Vt~   65 (66)
                      ....+++.|++.|.+||+++|+++.++|.|+|++||||+||.+|.++||+++||.
T Consensus         2 ~~~~~~~~F~~~L~~f~~~~g~~~~~~P~i~g~~vDL~~Ly~~V~~~GG~~~V~~   56 (92)
T PF01388_consen    2 ANTREREQFLEQLREFHESRGTPIDRPPVIGGKPVDLYKLYKAVMKRGGFDKVTK   56 (92)
T ss_dssp             SSCHHHHHHHHHHHHHHHHTTSSSSS-SEETTSE-SHHHHHHHHHHHTSHHHHHH
T ss_pred             CcchHHHHHHHHHHHHHHHcCCCCCCCCcCCCEeCcHHHHHHHHHhCcCcccCcc
Confidence            3568899999999999999999999999999999999999999999999999974

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

>KOG2744|consensus

Probab=99.55  E-value=3.1e-15  Score=112.27  Aligned_cols=54  Identities=43%  Similarity=0.712  Sum_probs=51.2

Q ss_pred             chHhHHHHHHHHHHHHHhcCCCCCCCceecCeecchhhHHHHHHhcCcccceec
Q psy405           12 YFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCT   65 (66)
Q Consensus        12 ~~~~~~~Fl~~L~~F~~~rg~p~~~~P~i~gk~lDL~~Ly~~V~~~GG~~~Vt~   65 (66)
                      ...+++.||++|+.||+++|+|++++|+|+|++||||.||.+|+++||+++|+.
T Consensus       160 ~~~~~eeF~~dl~~f~~~~~~~~~~iPii~~~~ldL~~Ly~lV~s~GG~~~V~~  213 (512)
T KOG2744|consen  160 VPKSSEEFMEDLRRFMKKRGTKVKSIPIIGGQPLDLHWLYALVTSRGGLDEVTN  213 (512)
T ss_pred             ccccHHHHHHHHHHHHHHhCCcceeccccCCCcchHHHHHHHHhcCCchhHhhh
Confidence            345899999999999999999999999999999999999999999999999975

>KOG2510|consensus

Probab=98.65  E-value=2.5e-08  Score=75.29  Aligned_cols=53  Identities=32%  Similarity=0.622  Sum_probs=50.8

Q ss_pred             hHhHHHHHHHHHHHHHhcCCCCCCCceecCeecchhhHHHHHHhcCcccceec
Q psy405           13 FKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCT   65 (66)
Q Consensus        13 ~~~~~~Fl~~L~~F~~~rg~p~~~~P~i~gk~lDL~~Ly~~V~~~GG~~~Vt~   65 (66)
                      ..+++.++++|+.|++++.+|++-.|.++.|+||||+||..|.++||+..|+.
T Consensus       291 qp~r~~wvDR~raF~ee~~Sp~t~~p~~gakPldl~rlYvsvke~gg~~~v~k  343 (532)
T KOG2510|consen  291 QPERKEWVDRLRAFTEERASPMTNLPAVGAKPLDLYRLYVSVKEIGGLTQVNK  343 (532)
T ss_pred             CcchhhHHHHHHHHHHhhcCcccccccccccchhHHHHHHHHHHhccceeecc
Confidence            57889999999999999999999999999999999999999999999999975

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	66
2kk0_A	145	Solution Structure Of Dead Ringer-Like Protein 1 (A		3e-07
1c20_A	128	Solution Structure Of The Dna-Binding Domain From T		2e-05
1kqq_A	139	Solution Structure Of The Dead Ringer Arid-Dna Comp		3e-05

>pdb|2KK0|A Chain A, Solution Structure Of Dead Ringer-Like Protein 1 (At-Rich Interactive Domain-Containing Protein 3a) From Homo Sapiens, Northeast Structural Genomics Consortium (Nesg) Target Hr4394c Length = 145

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 25/55 (45%), Positives = 33/55 (60%), Gaps = 3/55 (5%)
Query: 8  DGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVK 62
          DGD   KE   FL DL  F + RGTP   +P +  + +DL++LY LVT  GG V+
Sbjct: 30 DGDPKRKE---FLDDLFSFMQKRGTPVNRIPIMAKQVLDLFMLYVLVTEKGGLVE 81

>pdb|1C20|A Chain A, Solution Structure Of The Dna-Binding Domain From The Dead Ringer Protein Length = 128

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 20/47 (42%), Positives = 28/47 (59%)
Query: 15 EKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWV 61
          +++ FL DL  F + RGTP   +P +    +DLY LY LV + GG V
Sbjct: 22 KRKEFLDDLFSFMQKRGTPINRLPIMAKSVLDLYELYNLVIARGGLV 68

>pdb|1KQQ|A Chain A, Solution Structure Of The Dead Ringer Arid-Dna Complex Length = 139

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/47 (42%), Positives = 28/47 (59%)
Query: 15 EKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWV 61
          +++ FL DL  F + RGTP   +P +    +DLY LY LV + GG V
Sbjct: 24 KRKEFLDDLFSFMQKRGTPINRLPIMAKSVLDLYELYNLVIARGGLV 70

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	66
1ig6_A	107	MRF-2, modulator recognition factor 2; DNA binding	3e-16
2rq5_A	121	Protein jumonji; developmental protein, nucleus, r	3e-16
1kkx_A	123	Transcription regulatory protein ADR6; ARID, DNA-b	7e-16
2lm1_A	107	Lysine-specific demethylase LID; structural genomi	4e-15
2eqy_A	122	RBP2 like, jumonji, at rich interactive domain 1B;	2e-14
2jxj_A	96	Histone demethylase jarid1A; ARID domain, chromati	4e-14
2li6_A	116	SWI/SNF chromatin-remodeling complex subunit SWI1;	4e-14
2jrz_A	117	Histone demethylase jarid1C; bright/ARID domain, h	4e-14
2cxy_A	125	BAF250B subunit, HBAF250B; DNA-binding domain, str	1e-12
1c20_A	128	DEAD ringer protein; DNA-binding domain, ARID, AT-	3e-12
2kk0_A	145	AT-rich interactive domain-containing protein 3A;	2e-11

>1ig6_A MRF-2, modulator recognition factor 2; DNA binding protein, DNA-binding motif, protein-DNA interaction; NMR {Homo sapiens} SCOP: a.4.3.1 PDB: 2oeh_A Length = 107

 Score = 65.7 bits (160), Expect = 3e-16
 Identities = 13/47 (27%), Positives = 27/47 (57%)

Query: 14 KEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
           ++++FL  L  + + R TP   +P +G K+I+L+ ++      GG+
Sbjct: 2  ADEQAFLVALYKYMKERKTPIERIPYLGFKQINLWTMFQAAQKLGGY 48

>2rq5_A Protein jumonji; developmental protein, nucleus, repressor, transcription, transcription regulation; NMR {Mus musculus} Length = 121

 Score = 66.0 bits (161), Expect = 3e-16
 Identities = 12/50 (24%), Positives = 22/50 (44%)

Query: 13 FKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVK 62
          +      L  ++    ++G     +P IGG E+DL   + L+   GG  +
Sbjct: 10 WGPNVQRLACIKKHLRSQGITMDELPLIGGCELDLACFFRLINEMGGMQQ 59

>1kkx_A Transcription regulatory protein ADR6; ARID, DNA-binding domain, DNA binding protein; NMR {Saccharomyces cerevisiae} SCOP: a.4.3.1 PDB: 1kn5_A Length = 123

 Score = 65.0 bits (158), Expect = 7e-16
 Identities = 17/47 (36%), Positives = 28/47 (59%)

Query: 14 KEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
          K+ E F++ L    + R  P + +P+IG ++I+L+ LY LV   GG 
Sbjct: 17 KQYELFMKSLIENCKKRNMPLQSIPEIGNRKINLFYLYMLVQKFGGA 63

>2lm1_A Lysine-specific demethylase LID; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Drosophila melanogaster} Length = 107

 Score = 63.0 bits (153), Expect = 4e-15
 Identities = 16/55 (29%), Positives = 29/55 (52%), Gaps = 1/55 (1%)

Query: 10 DAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKC 64
          +A  + K +FL  +  F E +G+  + +P +  K +DLY L+ +V   GG  +  
Sbjct: 10 EAKTRVKLNFLDQIAKFWELQGSSLK-IPMVERKALDLYTLHRIVQEEGGMEQTT 63

>2eqy_A RBP2 like, jumonji, at rich interactive domain 1B; ARID domain, structural genomics, NPPSFA; NMR {Mus musculus} Length = 122

 Score = 61.5 bits (149), Expect = 2e-14
 Identities = 16/53 (30%), Positives = 29/53 (54%), Gaps = 1/53 (1%)

Query: 8  DGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
           G+A  + K +FL  +  + E +G+  + +P +  K +DL+ L  LV   GG+
Sbjct: 6  SGEAQTRVKLNFLDQIAKYWELQGSTLK-IPHVERKILDLFQLNKLVAEEGGF 57

>2jxj_A Histone demethylase jarid1A; ARID domain, chromatin regulator, developmental protein, dioxygenase, iron, metal-binding, nucleus, oxidoreductase; NMR {Homo sapiens} Length = 96

 Score = 59.9 bits (145), Expect = 4e-14
 Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 1/56 (1%)

Query: 9  GDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKC 64
          G    + +  FL  L  F E +G+  + +P +  K +DLY L  +V S GG+    
Sbjct: 1  GPLGSRVRLDFLDQLAKFWELQGSTLK-IPVVERKILDLYALSKIVASKGGFEMVT 55

>2li6_A SWI/SNF chromatin-remodeling complex subunit SWI1; ligand binding, DNA binding protein; NMR {Saccharomyces cerevisiae} Length = 116

 Score = 60.4 bits (146), Expect = 4e-14
 Identities = 17/47 (36%), Positives = 28/47 (59%)

Query: 14 KEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
          K+ E F++ L    + R  P + +P+IG ++I+L+ LY LV   GG 
Sbjct: 18 KQYELFMKSLIENCKKRNMPLQSIPEIGNRKINLFYLYMLVQKFGGA 64

>2jrz_A Histone demethylase jarid1C; bright/ARID domain, helical, structural genomics, structural genomics consortium, SGC, oxidoreductase; NMR {Homo sapiens} PDB: 2yqe_A Length = 117

 Score = 60.3 bits (146), Expect = 4e-14
 Identities = 14/51 (27%), Positives = 28/51 (54%), Gaps = 1/51 (1%)

Query: 10 DAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
          +A  + K ++L  +  F E +G+  + +P +  + +DLY L  +V   GG+
Sbjct: 6  EAQTRVKLNYLDQIAKFWEIQGSSLK-IPNVERRILDLYSLSKIVVEEGGY 55

>2cxy_A BAF250B subunit, HBAF250B; DNA-binding domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.60A {Homo sapiens} PDB: 2eh9_A 1ryu_A Length = 125

 Score = 56.6 bits (136), Expect = 1e-12
 Identities = 16/47 (34%), Positives = 25/47 (53%)

Query: 14 KEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
           E++ ++     F E RG+P   +P +G K +DL+ LY  V   GG 
Sbjct: 20 PERKLWVDRYLTFMEERGSPVSSLPAVGKKPLDLFRLYVCVKEIGGL 66

>1c20_A DEAD ringer protein; DNA-binding domain, ARID, AT-rich interaction domain, DNA- binding protein; NMR {Drosophila melanogaster} SCOP: a.4.3.1 PDB: 1kqq_A Length = 128

 Score = 56.3 bits (135), Expect = 3e-12
 Identities = 19/46 (41%), Positives = 27/46 (58%)

Query: 15 EKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
          +++ FL DL  F + RGTP   +P +    +DLY LY LV + GG 
Sbjct: 22 KRKEFLDDLFSFMQKRGTPINRLPIMAKSVLDLYELYNLVIARGGL 67

>2kk0_A AT-rich interactive domain-containing protein 3A; DEAD ringer, AT-rich interaction domain, NESG, ARID, cytopla binding, nucleus, phosphoprotein; NMR {Homo sapiens} Length = 145

 Score = 54.4 bits (130), Expect = 2e-11
 Identities = 19/46 (41%), Positives = 29/46 (63%)

Query: 15 EKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
          +++ FL DL  F + RGTP   +P +  + +DL++LY LVT  GG 
Sbjct: 34 KRKEFLDDLFSFMQKRGTPVNRIPIMAKQVLDLFMLYVLVTEKGGL 79

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	66
2jxj_A	96	Histone demethylase jarid1A; ARID domain, chromati	99.85
2li6_A	116	SWI/SNF chromatin-remodeling complex subunit SWI1;	99.83
2eqy_A	122	RBP2 like, jumonji, at rich interactive domain 1B;	99.82
1ig6_A	107	MRF-2, modulator recognition factor 2; DNA binding	99.81
1kkx_A	123	Transcription regulatory protein ADR6; ARID, DNA-b	99.81
2rq5_A	121	Protein jumonji; developmental protein, nucleus, r	99.81
2jrz_A	117	Histone demethylase jarid1C; bright/ARID domain, h	99.8
2lm1_A	107	Lysine-specific demethylase LID; structural genomi	99.8
1c20_A	128	DEAD ringer protein; DNA-binding domain, ARID, AT-	99.8
2cxy_A	125	BAF250B subunit, HBAF250B; DNA-binding domain, str	99.79
2kk0_A	145	AT-rich interactive domain-containing protein 3A;	99.78
2do5_A	58	Splicing factor 3B subunit 2; SAP domain, structur	80.09

>2jxj_A Histone demethylase jarid1A; ARID domain, chromatin regulator, developmental protein, dioxygenase, iron, metal-binding, nucleus, oxidoreductase; NMR {Homo sapiens}

Probab=99.85  E-value=6.1e-22  Score=118.75  Aligned_cols=56  Identities=30%  Similarity=0.488  Sum_probs=53.0

Q ss_pred             CccchHhHHHHHHHHHHHHHhcCCCCCCCceecCeecchhhHHHHHHhcCcccceec
Q psy405            9 GDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCT   65 (66)
Q Consensus         9 ~~~~~~~~~~Fl~~L~~F~~~rg~p~~~~P~i~gk~lDL~~Ly~~V~~~GG~~~Vt~   65 (66)
                      +|+.+++++.|+++|.+||+++|+|+ ++|+|+||+||||+||.+|+++|||++||.
T Consensus         1 ~p~~~r~~~~F~~~L~~F~~~~g~~l-~~P~i~gk~lDL~~Ly~~V~~~GG~~~V~~   56 (96)
T 2jxj_A            1 GPLGSRVRLDFLDQLAKFWELQGSTL-KIPVVERKILDLYALSKIVASKGGFEMVTK   56 (96)
T ss_dssp             CCCSSHHHHHHHHHHHHHHHHHTCCC-CCCEETTEECCCHHHHHHHHHHHTTHHHHH
T ss_pred             CchhhHHHHHHHHHHHHHHHHcCCCC-CCCcCCCEeccHHHHHHHHHHcCCHHHHcc
Confidence            46788999999999999999999999 699999999999999999999999999973

>2li6_A SWI/SNF chromatin-remodeling complex subunit SWI1; ligand binding, DNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=99.83  E-value=3.2e-21  Score=119.47  Aligned_cols=58  Identities=29%  Similarity=0.508  Sum_probs=54.6

Q ss_pred             CCccchHhHHHHHHHHHHHHHhcCCCCCCCceecCeecchhhHHHHHHhcCcccceec
Q psy405            8 DGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCT   65 (66)
Q Consensus         8 ~~~~~~~~~~~Fl~~L~~F~~~rg~p~~~~P~i~gk~lDL~~Ly~~V~~~GG~~~Vt~   65 (66)
                      ..+..+++++.|++.|.+||+++|+|+.++|+|+|++||||+||.+|.++|||++||.
T Consensus        12 ~~e~~~~~~~~F~~~L~~F~~~~G~pl~~~P~i~gk~lDL~~Ly~~V~~~GG~~~V~~   69 (116)
T 2li6_A           12 STELNNKQYELFMKSLIENCKKRNMPLQSIPEIGNRKINLFYLYMLVQKFGGADQVTR   69 (116)
T ss_dssp             CSSSSHHHHHHHHHHHHHHHHTTTSCCSSCCCCBSCCCSTTHHHHHHHHHTSHHHHHH
T ss_pred             cccccchhHHHHHHHHHHHHHHcCCCCCCCceECCEeecHHHHHHHHHHhcCHHHccc
Confidence            4566788999999999999999999999999999999999999999999999999984

>2eqy_A RBP2 like, jumonji, at rich interactive domain 1B; ARID domain, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.82  E-value=7.4e-21  Score=118.89  Aligned_cols=56  Identities=30%  Similarity=0.609  Sum_probs=52.7

Q ss_pred             CccchHhHHHHHHHHHHHHHhcCCCCCCCceecCeecchhhHHHHHHhcCcccceec
Q psy405            9 GDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCT   65 (66)
Q Consensus         9 ~~~~~~~~~~Fl~~L~~F~~~rg~p~~~~P~i~gk~lDL~~Ly~~V~~~GG~~~Vt~   65 (66)
                      -++.+++++.|+++|.+||++||+|+ ++|+|+||+||||+||++|+++|||++||.
T Consensus         7 le~~~~~~~~Fl~~L~~F~~~rG~~l-~~P~i~gk~lDLy~Ly~~V~~~GG~~~V~~   62 (122)
T 2eqy_A            7 GEAQTRVKLNFLDQIAKYWELQGSTL-KIPHVERKILDLFQLNKLVAEEGGFAVVCK   62 (122)
T ss_dssp             CCCSHHHHHHHHHHHHHHHHHHTCCC-CCCBSSSSBCCHHHHHHHHHHHTCHHHHHH
T ss_pred             ccccchHHHHHHHHHHHHHHHcCCCC-CCCeECCEeccHHHHHHHHHHccCHHHHcC
Confidence            45678999999999999999999999 799999999999999999999999999984

>1ig6_A MRF-2, modulator recognition factor 2; DNA binding protein, DNA-binding motif, protein-DNA interaction; NMR {Homo sapiens} SCOP: a.4.3.1 PDB: 2oeh_A

Probab=99.81  E-value=6.5e-21  Score=116.37  Aligned_cols=52  Identities=25%  Similarity=0.527  Sum_probs=50.1

Q ss_pred             HhHHHHHHHHHHHHHhcCCCCCCCceecCeecchhhHHHHHHhcCcccceec
Q psy405           14 KEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCT   65 (66)
Q Consensus        14 ~~~~~Fl~~L~~F~~~rg~p~~~~P~i~gk~lDL~~Ly~~V~~~GG~~~Vt~   65 (66)
                      ++++.|+++|.+||+++|+|+.++|+|+|++||||+||.+|+++|||++||.
T Consensus         2 ~e~~~Fl~~L~~F~~~rg~~~~~~P~i~gk~lDL~~Ly~~V~~~GG~~~V~~   53 (107)
T 1ig6_A            2 ADEQAFLVALYKYMKERKTPIERIPYLGFKQINLWTMFQAAQKLGGYETITA   53 (107)
T ss_dssp             HHHHHHHHHHHHHHHTTTCCGGGCCCSSSSSCCHHHHHHHHHHTTHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHcCCCCCcCceECCEeecHHHHHHHHHHhcCHHHhcc
Confidence            6789999999999999999999999999999999999999999999999973

>1kkx_A Transcription regulatory protein ADR6; ARID, DNA-binding domain, DNA binding protein; NMR {Saccharomyces cerevisiae} SCOP: a.4.3.1 PDB: 1kn5_A

Probab=99.81  E-value=7e-21  Score=119.52  Aligned_cols=58  Identities=29%  Similarity=0.504  Sum_probs=52.2

Q ss_pred             CCccchHhHHHHHHHHHHHHHhcCCCCCCCceecCeecchhhHHHHHHhcCcccceec
Q psy405            8 DGDAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCT   65 (66)
Q Consensus         8 ~~~~~~~~~~~Fl~~L~~F~~~rg~p~~~~P~i~gk~lDL~~Ly~~V~~~GG~~~Vt~   65 (66)
                      .-.+.+++++.|++.|.+||+++|+|+.++|+|+|++||||+||.+|+++|||++||.
T Consensus        11 ~~~~~~~~~~~Fl~~L~~F~~~rG~pl~~~P~i~gk~lDL~~Ly~~V~~~GG~~~V~~   68 (123)
T 1kkx_A           11 HHGSNNKQYELFMKSLIENCKKRNMPLQSIPEIGNRKINLFYLYMLVQKFGGADQVTR   68 (123)
T ss_dssp             ----CCCHHHHHHHHHHHHHHHTTCSSSSCCCCSSSSCCTTHHHHHHTTTSCHHHHTT
T ss_pred             ccCCcchhHHHHHHHHHHHHHHcCCCCCcCceECCEeecHHHHHHHHHHhcCHHhccc
Confidence            3456778999999999999999999999999999999999999999999999999984

>2rq5_A Protein jumonji; developmental protein, nucleus, repressor, transcription, transcription regulation; NMR {Mus musculus}

Probab=99.81  E-value=1.7e-20  Score=117.74  Aligned_cols=51  Identities=24%  Similarity=0.399  Sum_probs=48.7

Q ss_pred             hHHHHHHHHHHHHHhcCCCCCCCceecCeecchhhHHHHHHhcCcccceec
Q psy405           15 EKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCT   65 (66)
Q Consensus        15 ~~~~Fl~~L~~F~~~rg~p~~~~P~i~gk~lDL~~Ly~~V~~~GG~~~Vt~   65 (66)
                      ....|+++|.+||+++|+|++++|+|+|++||||+||+.|+++|||++||.
T Consensus        12 ~~~~Fl~~L~~F~~~rGtpl~~~P~i~gk~lDL~~Ly~~V~~~GG~~~Vt~   62 (121)
T 2rq5_A           12 PNVQRLACIKKHLRSQGITMDELPLIGGCELDLACFFRLINEMGGMQQVTD   62 (121)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCSSCCEETTEECCHHHHHHHHHHTTSHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCCCCCCCcCCCEeccHHHHHHHHHHcCcHHHhcc
Confidence            456899999999999999999999999999999999999999999999984

>2jrz_A Histone demethylase jarid1C; bright/ARID domain, helical, structural genomics, structural genomics consortium, SGC, oxidoreductase; NMR {Homo sapiens} PDB: 2yqe_A

Probab=99.80  E-value=1.7e-20  Score=116.47  Aligned_cols=54  Identities=28%  Similarity=0.587  Sum_probs=50.9

Q ss_pred             cchHhHHHHHHHHHHHHHhcCCCCCCCceecCeecchhhHHHHHHhcCcccceec
Q psy405           11 AYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCT   65 (66)
Q Consensus        11 ~~~~~~~~Fl~~L~~F~~~rg~p~~~~P~i~gk~lDL~~Ly~~V~~~GG~~~Vt~   65 (66)
                      +.+++++.|+++|.+||+++|+|+. +|+|+|++||||+||.+|+++|||++||.
T Consensus         7 ~~~r~~~~Fl~~L~~F~~~rG~~l~-~P~i~gk~lDL~~Ly~~V~~~GG~~~V~~   60 (117)
T 2jrz_A            7 AQTRVKLNYLDQIAKFWEIQGSSLK-IPNVERRILDLYSLSKIVVEEGGYEAICK   60 (117)
T ss_dssp             TSTTTHHHHHHHHHHHHHTTTSCCC-CCEETTEECCHHHHHHHHHHHTCHHHHHH
T ss_pred             cchhHHHHHHHHHHHHHHHcCCCCC-CCeECCEeecHHHHHHHHHHccCHHHhcc
Confidence            4678899999999999999999995 99999999999999999999999999984

>2lm1_A Lysine-specific demethylase LID; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Drosophila melanogaster}

Probab=99.80  E-value=2e-20  Score=113.95  Aligned_cols=55  Identities=29%  Similarity=0.532  Sum_probs=51.1

Q ss_pred             ccchHhHHHHHHHHHHHHHhcCCCCCCCceecCeecchhhHHHHHHhcCcccceec
Q psy405           10 DAYFKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCT   65 (66)
Q Consensus        10 ~~~~~~~~~Fl~~L~~F~~~rg~p~~~~P~i~gk~lDL~~Ly~~V~~~GG~~~Vt~   65 (66)
                      ++.+++++.|+++|.+||+++|+|+. +|+|+|++||||+||.+|+++||+++||.
T Consensus        10 ~~~~~~~~~F~~~L~~F~~~~g~~l~-~P~i~gk~vdL~~Ly~~V~~~GG~~~V~~   64 (107)
T 2lm1_A           10 EAKTRVKLNFLDQIAKFWELQGSSLK-IPMVERKALDLYTLHRIVQEEGGMEQTTK   64 (107)
T ss_dssp             CCSSHHHHHHHHHHHHHHTTTCCCCS-CCCTTTSSCCHHHHHHHHHHHTCHHHHHH
T ss_pred             cCCchHHHHHHHHHHHHHHHcCCCCC-CCeECCEeecHHHHHHHHHHhcCHHHhcc
Confidence            34568899999999999999999995 99999999999999999999999999973

>1c20_A DEAD ringer protein; DNA-binding domain, ARID, AT-rich interaction domain, DNA- binding protein; NMR {Drosophila melanogaster} SCOP: a.4.3.1 PDB: 1kqq_A

Probab=99.80  E-value=2.8e-20  Score=116.74  Aligned_cols=52  Identities=38%  Similarity=0.681  Sum_probs=50.4

Q ss_pred             HhHHHHHHHHHHHHHhcCCCCCCCceecCeecchhhHHHHHHhcCcccceec
Q psy405           14 KEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCT   65 (66)
Q Consensus        14 ~~~~~Fl~~L~~F~~~rg~p~~~~P~i~gk~lDL~~Ly~~V~~~GG~~~Vt~   65 (66)
                      ++++.|+++|.+||+++|+|+.++|+|+|++||||+||.+|+++|||++||.
T Consensus        21 ~~~~~Fl~~L~~F~~~rG~~l~~~P~i~gk~vDL~~Ly~~V~~~GG~~~V~~   72 (128)
T 1c20_A           21 PKRKEFLDDLFSFMQKRGTPINRLPIMAKSVLDLYELYNLVIARGGLVDVIN   72 (128)
T ss_dssp             HHHHHHHHHHHHHHTTTSSCSSCCCEETTEECCHHHHHHHHHHHTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCCCccceeECCEeecHHHHHHHHHHhcCHHHcCc
Confidence            7999999999999999999999999999999999999999999999999983

>2cxy_A BAF250B subunit, HBAF250B; DNA-binding domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.60A {Homo sapiens} PDB: 2eh9_A 1ryu_A

Probab=99.79  E-value=4.2e-20  Score=115.67  Aligned_cols=52  Identities=31%  Similarity=0.600  Sum_probs=49.0

Q ss_pred             HhHHHHHHHHHHHHHhcCCCCCCCceecCeecchhhHHHHHHhcCcccceec
Q psy405           14 KEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCT   65 (66)
Q Consensus        14 ~~~~~Fl~~L~~F~~~rg~p~~~~P~i~gk~lDL~~Ly~~V~~~GG~~~Vt~   65 (66)
                      .+++.|+++|.+||+++|+|+.++|+|+||+||||+||.+|+++|||++||.
T Consensus        20 ~~~~~Fl~~L~~F~~~rG~~~~~~P~i~gk~lDL~~Ly~~V~~~GG~~~V~~   71 (125)
T 2cxy_A           20 PERKLWVDRYLTFMEERGSPVSSLPAVGKKPLDLFRLYVCVKEIGGLAQVNK   71 (125)
T ss_dssp             TTHHHHHHHHHHHHHHTTCCCCBCCEETTEECCHHHHHHHHHHHTSHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHcCCCCCCCeeECCEeecHHHHHHHHHHcCCHHHhcc
Confidence            4566799999999999999999999999999999999999999999999973

>2kk0_A AT-rich interactive domain-containing protein 3A; DEAD ringer, AT-rich interaction domain, NESG, ARID, cytopla binding, nucleus, phosphoprotein; NMR {Homo sapiens}

Probab=99.78  E-value=1.1e-19  Score=116.45  Aligned_cols=52  Identities=38%  Similarity=0.757  Sum_probs=49.6

Q ss_pred             HhHHHHHHHHHHHHHhcCCCCCCCceecCeecchhhHHHHHHhcCcccceec
Q psy405           14 KEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCT   65 (66)
Q Consensus        14 ~~~~~Fl~~L~~F~~~rg~p~~~~P~i~gk~lDL~~Ly~~V~~~GG~~~Vt~   65 (66)
                      .+++.|+++|.+||+++|+|+.++|+|+|++||||+||.+|+++|||++||.
T Consensus        33 ~~~~~Fl~~L~~F~~~rG~pl~~~P~i~gk~vDL~~Ly~~V~~~GG~~~V~~   84 (145)
T 2kk0_A           33 PKRKEFLDDLFSFMQKRGTPVNRIPIMAKQVLDLFMLYVLVTEKGGLVEVIN   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCCSSCCEETTEECCHHHHHHHHHHHTCHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHcCCCCccceeECCEEecHHHHHHHHHHhCCHHHhcc
Confidence            4589999999999999999999999999999999999999999999999983

>2do5_A Splicing factor 3B subunit 2; SAP domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=80.09  E-value=1.8  Score=23.33  Aligned_cols=26  Identities=19%  Similarity=0.327  Sum_probs=21.5

Q ss_pred             hHHHHHHHHHHHHHhcCCCCCCCceec
Q psy405           15 EKESFLRDLQHFHETRGTPCRHVPKIG   41 (66)
Q Consensus        15 ~~~~Fl~~L~~F~~~rg~p~~~~P~i~   41 (66)
                      .+++.++.|+.|+.+.|.-++ -|.+.
T Consensus        30 ~REElvdRLk~Y~~QtGi~ln-kP~~~   55 (58)
T 2do5_A           30 NREELVERLQSYTRQTGIVLN-RPSGP   55 (58)
T ss_dssp             CHHHHHHHHHHHHHHHCCCCC-CTTCS
T ss_pred             cHHHHHHHHHHHhhccceeec-CCCCC
Confidence            478899999999999999888 44443

---

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	66
d1ig6a_	107	a.4.3.1 (A:) MRF-2 DNA-binding domain {Human (Homo	2e-14
d1kkxa_	102	a.4.3.1 (A:) Transcription regulator Adr6 (Swi1) {	2e-14
d1ryua_	120	a.4.3.1 (A:) SWI-SNF complex protein p270, SMARCF1	6e-14
d1c20a_	128	a.4.3.1 (A:) DNA-binding domain from the dead ring	7e-14

>d1ig6a_ a.4.3.1 (A:) MRF-2 DNA-binding domain {Human (Homo sapiens) [TaxId: 9606]} Length = 107

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

 Score = 59.9 bits (145), Expect = 2e-14
 Identities = 13/46 (28%), Positives = 27/46 (58%)

Query: 15 EKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
          ++++FL  L  + + R TP   +P +G K+I+L+ ++      GG+
Sbjct: 3  DEQAFLVALYKYMKERKTPIERIPYLGFKQINLWTMFQAAQKLGGY 48

>d1kkxa_ a.4.3.1 (A:) Transcription regulator Adr6 (Swi1) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 102

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: ARID-like
family: ARID domain
domain: Transcription regulator Adr6 (Swi1)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 59.5 bits (144), Expect = 2e-14
 Identities = 17/49 (34%), Positives = 29/49 (59%)

Query: 14 KEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVK 62
          K+ E F++ L    + R  P + +P+IG ++I+L+ LY LV   GG  +
Sbjct: 3  KQYELFMKSLIENCKKRNMPLQSIPEIGNRKINLFYLYMLVQKFGGADQ 51

>d1ryua_ a.4.3.1 (A:) SWI-SNF complex protein p270, SMARCF1 {Human (Homo sapiens) [TaxId: 9606]} Length = 120

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: ARID-like
family: ARID domain
domain: SWI-SNF complex protein p270, SMARCF1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 59.1 bits (143), Expect = 6e-14
 Identities = 14/46 (30%), Positives = 23/46 (50%)

Query: 15 EKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
          E++ ++     F E +     ++P +G K +DLY LY  V   GG 
Sbjct: 20 ERKMWVDRYLAFTEEKAMGMTNLPAVGRKPLDLYRLYVSVKEIGGL 65

>d1c20a_ a.4.3.1 (A:) DNA-binding domain from the dead ringer protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 128

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

 Score = 59.2 bits (143), Expect = 7e-14
 Identities = 19/47 (40%), Positives = 27/47 (57%)

Query: 14 KEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGW 60
           +++ FL DL  F + RGTP   +P +    +DLY LY LV + GG 
Sbjct: 21 PKRKEFLDDLFSFMQKRGTPINRLPIMAKSVLDLYELYNLVIARGGL 67

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	66
d1ryua_	120	SWI-SNF complex protein p270, SMARCF1 {Human (Homo	99.81
d1ig6a_	107	MRF-2 DNA-binding domain {Human (Homo sapiens) [Ta	99.81
d1kkxa_	102	Transcription regulator Adr6 (Swi1) {Baker's yeast	99.8
d1c20a_	128	DNA-binding domain from the dead ringer protein {F	99.79

>d1ryua_ a.4.3.1 (A:) SWI-SNF complex protein p270, SMARCF1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: ARID-like
family: ARID domain
domain: SWI-SNF complex protein p270, SMARCF1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=8.6e-21  Score=116.93  Aligned_cols=53  Identities=26%  Similarity=0.466  Sum_probs=50.1

Q ss_pred             hHhHHHHHHHHHHHHHhcCCCCCCCceecCeecchhhHHHHHHhcCcccceec
Q psy405           13 FKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCT   65 (66)
Q Consensus        13 ~~~~~~Fl~~L~~F~~~rg~p~~~~P~i~gk~lDL~~Ly~~V~~~GG~~~Vt~   65 (66)
                      ..+++.|++.|.+||+++|+|+.++|+|+||+||||+||..|+++|||++||.
T Consensus        18 ~~e~~~Fl~~L~~F~~~rg~~~~~~P~i~gr~vDL~~Ly~~V~~~GG~~~V~~   70 (120)
T d1ryua_          18 EPERKMWVDRYLAFTEEKAMGMTNLPAVGRKPLDLYRLYVSVKEIGGLTQVNK   70 (120)
T ss_dssp             CHHHHHHHHHHHHHHHHTTSCSSCCSCCSSSSCCHHHHHHHHHHHTCTTGGGT
T ss_pred             cHHHHHHHHHHHHHHHHCCCCCCcCCeECCeeccHHHHHHHHHHhcCHHhhcc
Confidence            35678899999999999999999999999999999999999999999999984

>d1ig6a_ a.4.3.1 (A:) MRF-2 DNA-binding domain {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.81  E-value=5.1e-21  Score=115.83  Aligned_cols=52  Identities=25%  Similarity=0.527  Sum_probs=50.1

Q ss_pred             HhHHHHHHHHHHHHHhcCCCCCCCceecCeecchhhHHHHHHhcCcccceec
Q psy405           14 KEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCT   65 (66)
Q Consensus        14 ~~~~~Fl~~L~~F~~~rg~p~~~~P~i~gk~lDL~~Ly~~V~~~GG~~~Vt~   65 (66)
                      .+++.|++.|.+||+++|+|+.++|+|+|++||||+||.+|+++|||++||.
T Consensus         2 ~e~~~Fl~~L~~F~~~rg~~~~~~P~i~gk~vDL~~Ly~~V~~~GG~~~V~~   53 (107)
T d1ig6a_           2 ADEQAFLVALYKYMKERKTPIERIPYLGFKQINLWTMFQAAQKLGGYETITA   53 (107)
T ss_dssp             HHHHHHHHHHHHHHHTTTCCGGGCCCSSSSSCCHHHHHHHHHHTTHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHcCCCCCcCCeECCccccHHHHHHHHHHhCChhhccc
Confidence            5789999999999999999999999999999999999999999999999984

>d1kkxa_ a.4.3.1 (A:) Transcription regulator Adr6 (Swi1) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: ARID-like
family: ARID domain
domain: Transcription regulator Adr6 (Swi1)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.80  E-value=9.3e-21  Score=114.03  Aligned_cols=53  Identities=32%  Similarity=0.558  Sum_probs=50.5

Q ss_pred             hHhHHHHHHHHHHHHHhcCCCCCCCceecCeecchhhHHHHHHhcCcccceec
Q psy405           13 FKEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCT   65 (66)
Q Consensus        13 ~~~~~~Fl~~L~~F~~~rg~p~~~~P~i~gk~lDL~~Ly~~V~~~GG~~~Vt~   65 (66)
                      +.+.+.|++.|.+||++||+|+.++|+|+|++||||+||.+|+++|||++||-
T Consensus         2 ~~~~e~F~~~L~~f~~~rg~~~~~~P~i~gk~vDL~~Ly~~V~~~GG~~~V~~   54 (102)
T d1kkxa_           2 NKQYELFMKSLIENCKKRNMPLQSIPEIGNRKINLFYLYMLVQKFGGADQVTR   54 (102)
T ss_dssp             CCHHHHHHHHHHHHHHHTTCSSSSCCCCSSSSCCTTHHHHHHTTTSCHHHHTT
T ss_pred             chHHHHHHHHHHHHHHHcCCCCCcCCeECCeeeeHHHHHHHHHHHcChHHhcc
Confidence            46789999999999999999999999999999999999999999999999984

>d1c20a_ a.4.3.1 (A:) DNA-binding domain from the dead ringer protein {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

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

Probab=99.79  E-value=2.2e-20  Score=115.97  Aligned_cols=52  Identities=38%  Similarity=0.681  Sum_probs=49.7

Q ss_pred             HhHHHHHHHHHHHHHhcCCCCCCCceecCeecchhhHHHHHHhcCcccceec
Q psy405           14 KEKESFLRDLQHFHETRGTPCRHVPKIGGKEIDLYLLYCLVTSNGGWVKKCT   65 (66)
Q Consensus        14 ~~~~~Fl~~L~~F~~~rg~p~~~~P~i~gk~lDL~~Ly~~V~~~GG~~~Vt~   65 (66)
                      ++++.|++.|.+||+++|+|+.++|+|+||+||||+||.+|+++||+++||.
T Consensus        21 ~er~~F~~~L~~f~~~rg~~~~~~P~i~gk~vDL~~Ly~~V~~~GG~~~V~~   72 (128)
T d1c20a_          21 PKRKEFLDDLFSFMQKRGTPINRLPIMAKSVLDLYELYNLVIARGGLVDVIN   72 (128)
T ss_dssp             HHHHHHHHHHHHHHTTTSSCSSCCCEETTEECCHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCccCcCCeECCeeccHHHHHHHHHHhcCHHHhcc
Confidence            5688999999999999999999999999999999999999999999999974