Psyllid ID: psy14233

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120--
Protein Sequence
MSGDGLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRSGQVNERDVPVENIPMTPTGPSVTVNTSKRFSFIRRSSIGLPRSYEQQ
Secondary Structure (PSIPRED)
ccccHHHHHHHHHHHHHcccccEEEEEccccccccEEEEEEEEccEEEEEEEccccHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccEEEccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccHHHHHHHHHHHHccccccEEEEEEcccccccEEEEEEEEccccEEEEcccccHHHHHHHHHHHHHHHHHHcccccHHHcccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
MSGDGLVKAFLNEWCqknskqpefdvraagpkHRQRFLCELRIAgigyvgagnstnkkdaqtNAAKDFVQYLVRSgqvnerdvpvenipmtptgpsvtvntskrFSFIrrssiglprsyeqq
Flexible Loop (DISEMBL)
MSGDGLVKAFLNEWcqknskqpefdvraagPKHRQRFLCELRIAGIGyvgagnstnkkdAQTNAAKDFVQYLVRSgqvnerdvpvenipmtptgpsvtvntskrfsfirrssiglprsyeqq
Low Complexity Region (SEG)
MSGDGLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRSGQVNERDVPVENIPMTPTGPSVTVNTSKrfsfirrssiGLPRSYEQQ
Disordered region (IsUnstruct)
*****LVKAFLNEWCQ***************KHRQRFLCELRIAGIGYVGAG************AKDFVQYLVRSG**********************************************
Disordered Region (DISOPRED)
*****LV**FLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYV*************NAAKDFVQYLVRSGQ*********************************************
Disordered Region (DISEMBL)
MSGDGLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRSGQVNERDVPVENIPMTPTGPSVTVNTSKRFSFIRRSSIG********
Disordered Region (DISPRO)
***DGLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRSGQVNERDVPVEN***********************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSGDGLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRSGQVNERDVPVENIPMTPTGPSVTVNTSKRFSFIRRSSIGLPRSYEQQ
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	122	2.2.26 [Sep-21-2011]
P24785	1293	Dosage compensation regul	yes	N/A	0.655	0.061	0.562	4e-23
Q68FK8	1262	ATP-dependent RNA helicas	N/A	N/A	0.606	0.058	0.576	1e-22
Q28141	1287	ATP-dependent RNA helicas	yes	N/A	0.754	0.071	0.510	3e-22
O70133	1380	ATP-dependent RNA helicas	yes	N/A	0.655	0.057	0.535	8e-22
Q5R874	1269	ATP-dependent RNA helicas	yes	N/A	0.778	0.074	0.49	1e-21
Q08211	1270	ATP-dependent RNA helicas	yes	N/A	0.778	0.074	0.49	1e-21
Q22307	1301	Probable ATP-dependent RN	yes	N/A	0.672	0.063	0.552	7e-19

>sp|P24785|MLE_DROME Dosage compensation regulator OS=Drosophila melanogaster GN=mle PE=2 SV=2

 Score =  106 bits (264), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 45/80 (56%), Positives = 62/80 (77%)

Query: 7  VKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAK 66
          +K+FL ++C K+  +P+FD+R  GPK+RQRFLCE+R+    Y+G GNSTNKKDA+ NA +
Sbjct: 3  IKSFLYQFCAKSQIEPKFDIRQTGPKNRQRFLCEVRVEPNTYIGVGNSTNKKDAEKNACR 62

Query: 67 DFVQYLVRSGQVNERDVPVE 86
          DFV YLVR G++N  DVP +
Sbjct: 63 DFVNYLVRVGKLNTNDVPAD 82

Required in males for dosage compensation of X chromosome linked genes. Mle, msl-1 and msl-3 are colocalized on X chromosome. Each of the msl proteins requires all the other msls for wild-type X-chromosome binding. Probably unwinds double-stranded DNA and RNA in a 3' to 5' direction.
Drosophila melanogaster (taxid: 7227)
EC: 3EC: .EC: 6EC: .EC: 4EC: .EC: 1EC: 3

>sp|Q68FK8|DHX9_XENLA ATP-dependent RNA helicase A-like protein OS=Xenopus laevis GN=dhx9 PE=2 SV=1

 Score =  105 bits (261), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 45/78 (57%), Positives = 59/78 (75%)

Query: 7  VKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAK 66
          +K FL  WC K    P +++RAAG K+RQ+F+CE+RI G  Y+G GNSTNKKDAQTN+A+
Sbjct: 4  IKNFLYAWCGKKKLTPNYEIRAAGNKNRQKFMCEVRIDGFNYIGMGNSTNKKDAQTNSAR 63

Query: 67 DFVQYLVRSGQVNERDVP 84
          DFV YLVR G++   +VP
Sbjct: 64 DFVNYLVRVGEMRSDEVP 81

Component of the coding region determinant (CRD)-mediated complex that promotes mRNA stability. May unwind double-stranded DNA and RNA in a 3' to 5' direction.

Xenopus laevis (taxid: 8355)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|Q28141|DHX9_BOVIN ATP-dependent RNA helicase A OS=Bos taurus GN=DHX9 PE=2 SV=1

 Score =  103 bits (257), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 48/94 (51%), Positives = 63/94 (67%), Gaps = 2/94 (2%)

Query: 5  GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNA 64
          G VK FL  WC K    P +++RA G K+RQ+F+CE+R+ G  Y G GNSTNKKDAQ+NA
Sbjct: 2  GDVKNFLYAWCGKRKMTPSYEIRAVGNKNRQKFMCEVRVEGYNYTGMGNSTNKKDAQSNA 61

Query: 65 AKDFVQYLVRSGQVNERDVPVENIPMTPTGPSVT 98
          A+DFV YLVR  ++   +VP   + + P  PS T
Sbjct: 62 ARDFVNYLVRINELKSEEVPA--VGVAPPTPSAT 93

Component of the CRD-mediated complex that promotes MYC mRNA stability. Unwinds double-stranded DNA and RNA in a 3' to 5' direction. Alteration of secondary structure may subsequently influence interactions with proteins or other nucleic acids. Functions as a transcriptional activator. Involved with LARP6 in the stabilization of type I collagen mRNAs for CO1A1 and CO1A2.

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|O70133|DHX9_MOUSE ATP-dependent RNA helicase A OS=Mus musculus GN=Dhx9 PE=1 SV=2

 Score =  102 bits (254), Expect = 8e-22,   Method: Compositional matrix adjust.
 Identities = 45/84 (53%), Positives = 58/84 (69%)

Query: 5  GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNA 64
          G +K FL  WC K    P +++RA G K+RQ+F+CE+R+ G  Y G GNSTNKKDAQ+NA
Sbjct: 2  GDIKNFLYAWCGKRKMTPAYEIRAVGNKNRQKFMCEVRVEGFNYAGMGNSTNKKDAQSNA 61

Query: 65 AKDFVQYLVRSGQVNERDVPVENI 88
          A+DFV YLVR  +V   +VP   I
Sbjct: 62 ARDFVNYLVRINEVKSEEVPAVGI 85

Component of the CRD-mediated complex that promotes MYC mRNA stability. Unwinds double-stranded DNA and RNA in a 3' to 5' direction. Alterations of secondary structure may subsequently influence interactions with proteins or other nucleic acids. Functions as a transcriptional activator. Involved with LARP6 in the stabilization of type I collagen mRNAs for CO1A1 and CO1A2.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|Q5R874|DHX9_PONAB ATP-dependent RNA helicase A OS=Pongo abelii GN=DHX9 PE=2 SV=1

 Score =  102 bits (253), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 49/100 (49%), Positives = 65/100 (65%), Gaps = 5/100 (5%)

Query: 5   GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNA 64
           G VK FL  WC K    P +++RA G K+RQ+F+CE+++ G  Y G GNSTNKKDAQ+NA
Sbjct: 2   GDVKNFLYAWCGKRKMTPSYEIRAVGNKNRQKFMCEVQVEGYNYTGMGNSTNKKDAQSNA 61

Query: 65  AKDFVQYLVRSGQVNERDVPVENI----PMTPTGPSVTVN 100
           A+DFV YLVR  ++   +VP   +    P+T T P  T N
Sbjct: 62  ARDFVNYLVRINEIKSEEVPAFGVASPPPLTDT-PDTTAN 100

Component of the CRD-mediated complex that promotes MYC mRNA stability. Unwinds double-stranded DNA and RNA in a 3' to 5' direction. Alteration of secondary structure may subsequently influence interactions with proteins or other nucleic acids. Functions as a transcriptional activator. Involved with LARP6 in the stabilization of type I collagen mRNAs for CO1A1 and CO1A2.

Pongo abelii (taxid: 9601)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|Q08211|DHX9_HUMAN ATP-dependent RNA helicase A OS=Homo sapiens GN=DHX9 PE=1 SV=4

 Score =  102 bits (253), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 49/100 (49%), Positives = 65/100 (65%), Gaps = 5/100 (5%)

Query: 5   GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNA 64
           G VK FL  WC K    P +++RA G K+RQ+F+CE+++ G  Y G GNSTNKKDAQ+NA
Sbjct: 2   GDVKNFLYAWCGKRKMTPSYEIRAVGNKNRQKFMCEVQVEGYNYTGMGNSTNKKDAQSNA 61

Query: 65  AKDFVQYLVRSGQVNERDVPVENI----PMTPTGPSVTVN 100
           A+DFV YLVR  ++   +VP   +    P+T T P  T N
Sbjct: 62  ARDFVNYLVRINEIKSEEVPAFGVASPPPLTDT-PDTTAN 100

Unwinds double-stranded DNA and RNA in a 3' to 5' direction. Alteration of secondary structure may subsequently influence interactions with proteins or other nucleic acids. Functions as a transcriptional activator. Component of the CRD-mediated complex that promotes MYC mRNA stability. Involved with LARP6 in the stabilization of type I collagen mRNAs for CO1A1 and CO1A2.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|Q22307|DHX9_CAEEL Probable ATP-dependent RNA helicase A OS=Caenorhabditis elegans GN=rha-1 PE=2 SV=3

 Score = 92.4 bits (228), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 47/85 (55%), Positives = 55/85 (64%), Gaps = 3/85 (3%)

Query: 1  MSGDGLVKAFLNEWCQKNSK-QPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKD 59
          MS D  VK FL  W  KN    P +D ++     RQRF CELRI G GY   GNSTNKKD
Sbjct: 1  MSRD--VKEFLYAWLGKNKYGNPTYDTKSETRSGRQRFKCELRITGFGYTAFGNSTNKKD 58

Query: 60 AQTNAAKDFVQYLVRSGQVNERDVP 84
          A TNAA+DF QYLVR G++ + D+P
Sbjct: 59 AATNAAQDFCQYLVREGKMQQSDIP 83

Unwinds double-stranded DNA and RNA in a 3' to 5' direction. Generates multiple secondary structures that influence RNA-binding proteins (By similarity). Transcriptional regulator that controls germline mitosis and development via histone modification.

Caenorhabditis elegans (taxid: 6239)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

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	122
307197483	1243	Dosage compensation regulator [Harpegnat	0.786	0.077	0.645	4e-30
307176984	1243	Dosage compensation regulator [Camponotu	0.704	0.069	0.686	5e-30
332030651	1202	Dosage compensation regulator [Acromyrme	0.844	0.085	0.609	2e-29
350402053	1234	PREDICTED: dosage compensation regulator	0.762	0.075	0.623	7e-29
328785633	1232	PREDICTED: dosage compensation regulator	0.655	0.064	0.7	1e-28
380020062	1239	PREDICTED: LOW QUALITY PROTEIN: dosage c	0.655	0.064	0.7	1e-28
66510919	1239	PREDICTED: dosage compensation regulator	0.655	0.064	0.7	1e-28
383854376	1244	PREDICTED: dosage compensation regulator	0.778	0.076	0.628	1e-28
340714916	1236	PREDICTED: dosage compensation regulator	0.655	0.064	0.687	1e-27
345488712	1259	PREDICTED: dosage compensation regulator	0.672	0.065	0.670	1e-27

>gi|307197483|gb|EFN78717.1| Dosage compensation regulator [Harpegnathos saltator]

 Score =  135 bits (339), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 62/96 (64%), Positives = 74/96 (77%)

Query: 5   GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNA 64
           G +K+F ++WC KN+K+P+FDVR  GPKHRQRFLCELRI+G  YVGAGNSTNKKDAQ NA
Sbjct: 2   GDIKSFFHQWCGKNAKEPQFDVRPTGPKHRQRFLCELRISGFDYVGAGNSTNKKDAQGNA 61

Query: 65  AKDFVQYLVRSGQVNERDVPVENIPMTPTGPSVTVN 100
           AKD+V YLVR+G+VN  DVP E +    T     VN
Sbjct: 62  AKDYVNYLVRTGRVNPNDVPREALTTQATSNDGIVN 97

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307176984|gb|EFN66290.1| Dosage compensation regulator [Camponotus floridanus]

 Score =  134 bits (338), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 59/86 (68%), Positives = 70/86 (81%)

Query: 5  GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNA 64
          G +K+F ++WC KN K+P+FDVR  GPKHRQRFLCELR+ G  YVGAGNSTNKKDAQ NA
Sbjct: 2  GDIKSFFHQWCAKNGKEPQFDVRPTGPKHRQRFLCELRVPGFDYVGAGNSTNKKDAQGNA 61

Query: 65 AKDFVQYLVRSGQVNERDVPVENIPM 90
          AKD+V YLVR+ +VN  DVP ENI +
Sbjct: 62 AKDYVNYLVRTNRVNSNDVPRENITL 87

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332030651|gb|EGI70339.1| Dosage compensation regulator [Acromyrmex echinatior]

 Score =  133 bits (334), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 64/105 (60%), Positives = 78/105 (74%), Gaps = 2/105 (1%)

Query: 5   GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNA 64
           G +K+F ++WC KN K+P+FDVR  GPKHRQRFLCELRI G  YVGAGNSTNKKDAQ NA
Sbjct: 2   GDIKSFFHQWCAKNGKEPQFDVRPTGPKHRQRFLCELRIPGFDYVGAGNSTNKKDAQGNA 61

Query: 65  AKDFVQYLVRSGQVNERDVPVE-NIP-MTPTGPSVTVNTSKRFSF 107
           A+D+V YLVR+ +VN  DVP +  IP MTP    + V+T  +  F
Sbjct: 62  ARDYVNYLVRTNRVNPNDVPKDAGIPTMTPDAIKIEVSTPIKSVF 106

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350402053|ref|XP_003486351.1| PREDICTED: dosage compensation regulator-like [Bombus impatiens]

 Score =  131 bits (329), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 58/93 (62%), Positives = 71/93 (76%)

Query: 5  GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNA 64
          G +K+F ++WC KN K+P+FDVR  GPKHRQRFLCELR+ G  YVGAGNST+KKDAQ NA
Sbjct: 2  GDIKSFFHQWCAKNCKEPQFDVRPTGPKHRQRFLCELRVPGFDYVGAGNSTSKKDAQGNA 61

Query: 65 AKDFVQYLVRSGQVNERDVPVENIPMTPTGPSV 97
          AKD+V YLVRSG VN  DVP +   +   G ++
Sbjct: 62 AKDYVNYLVRSGHVNADDVPKDTQSILQQGTTI 94

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328785633|ref|XP_003250627.1| PREDICTED: dosage compensation regulator isoform 1 [Apis mellifera]

 Score =  130 bits (327), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 56/80 (70%), Positives = 66/80 (82%)

Query: 5  GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNA 64
          G +K+F ++WC KNSK+P+FDVR  GPKHR RFLCELR+ G  YVGAGNSTNKKDAQ NA
Sbjct: 2  GDIKSFFHQWCTKNSKEPQFDVRQTGPKHRHRFLCELRVPGFDYVGAGNSTNKKDAQGNA 61

Query: 65 AKDFVQYLVRSGQVNERDVP 84
          A+D+V YLVR+G VN  DVP
Sbjct: 62 ARDYVNYLVRTGHVNPNDVP 81

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380020062|ref|XP_003693917.1| PREDICTED: LOW QUALITY PROTEIN: dosage compensation regulator-like [Apis florea]

 Score =  130 bits (327), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 56/80 (70%), Positives = 66/80 (82%)

Query: 5  GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNA 64
          G +K+F ++WC KNSK+P+FDVR  GPKHR RFLCELR+ G  YVGAGNSTNKKDAQ NA
Sbjct: 2  GDIKSFFHQWCTKNSKEPQFDVRQTGPKHRHRFLCELRVPGFDYVGAGNSTNKKDAQGNA 61

Query: 65 AKDFVQYLVRSGQVNERDVP 84
          A+D+V YLVR+G VN  DVP
Sbjct: 62 ARDYVNYLVRTGHVNPNDVP 81

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|66510919|ref|XP_396525.2| PREDICTED: dosage compensation regulator isoform 2 [Apis mellifera]

 Score =  130 bits (327), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 56/80 (70%), Positives = 66/80 (82%)

Query: 5  GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNA 64
          G +K+F ++WC KNSK+P+FDVR  GPKHR RFLCELR+ G  YVGAGNSTNKKDAQ NA
Sbjct: 2  GDIKSFFHQWCTKNSKEPQFDVRQTGPKHRHRFLCELRVPGFDYVGAGNSTNKKDAQGNA 61

Query: 65 AKDFVQYLVRSGQVNERDVP 84
          A+D+V YLVR+G VN  DVP
Sbjct: 62 ARDYVNYLVRTGHVNPNDVP 81

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383854376|ref|XP_003702697.1| PREDICTED: dosage compensation regulator-like [Megachile rotundata]

 Score =  130 bits (326), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 61/97 (62%), Positives = 72/97 (74%), Gaps = 2/97 (2%)

Query: 5  GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNA 64
          G +K+FL++WC KN K+P+FDVR  G KHRQRFLCELRI G  YVGAGNSTNKKDAQ NA
Sbjct: 2  GDIKSFLHQWCAKNGKEPQFDVRPTGLKHRQRFLCELRIPGFDYVGAGNSTNKKDAQGNA 61

Query: 65 AKDFVQYLVRSGQVNERDVP--VENIPMTPTGPSVTV 99
          A+D+V YLVR+G VN  DVP  + NI      P + V
Sbjct: 62 ARDYVNYLVRTGHVNSNDVPRDMNNIQPQNVAPMIKV 98

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340714916|ref|XP_003395968.1| PREDICTED: dosage compensation regulator-like [Bombus terrestris]

 Score =  127 bits (318), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 55/80 (68%), Positives = 65/80 (81%)

Query: 5  GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNA 64
          G +K+F ++WC KN K+P+FD+R  GPKHRQRFLCELR+ G  YVGAGNST+KKDAQ NA
Sbjct: 2  GDIKSFFHQWCAKNCKEPQFDIRPTGPKHRQRFLCELRVPGFDYVGAGNSTSKKDAQGNA 61

Query: 65 AKDFVQYLVRSGQVNERDVP 84
          AKD+V YLVRS  VN  DVP
Sbjct: 62 AKDYVNYLVRSRHVNADDVP 81

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345488712|ref|XP_001604965.2| PREDICTED: dosage compensation regulator-like isoform 1 [Nasonia vitripennis]

 Score =  126 bits (317), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 55/82 (67%), Positives = 66/82 (80%)

Query: 5  GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNA 64
          G +KAFL++WC KNS +P F+VR  GPKHRQRFLCELR+ G  YV  GNSTNKKDAQ NA
Sbjct: 2  GDIKAFLHQWCAKNSTEPSFEVRPTGPKHRQRFLCELRVNGYDYVAVGNSTNKKDAQGNA 61

Query: 65 AKDFVQYLVRSGQVNERDVPVE 86
          ++DFV YLVR G+VN +DVP +
Sbjct: 62 SRDFVNYLVRIGKVNAKDVPAD 83

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

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	122
UNIPROTKB|F1S665	161	F1S665 "Uncharacterized protei	0.721	0.546	0.534	1.3e-22
ZFIN|ZDB-GENE-070912-171	1271	dhx9 "DEAH (Asp-Glu-Ala-His) b	0.729	0.070	0.522	1.7e-21
UNIPROTKB|E2RNT3	1276	DHX9 "Uncharacterized protein"	0.754	0.072	0.521	2.7e-21
UNIPROTKB|I3LHZ6	1274	DHX9 "Uncharacterized protein"	0.721	0.069	0.534	3.5e-21
UNIPROTKB|G5E5N3	1287	DHX9 "ATP-dependent RNA helica	0.754	0.071	0.521	4.5e-21
UNIPROTKB|Q28141	1287	DHX9 "ATP-dependent RNA helica	0.811	0.076	0.48	4.5e-21
FB|FBgn0002774	1293	mle "maleless" [Drosophila mel	0.655	0.061	0.562	4.6e-21
UNIPROTKB|Q5R874	1269	DHX9 "ATP-dependent RNA helica	0.778	0.074	0.49	7.3e-21
UNIPROTKB|Q08211	1270	DHX9 "ATP-dependent RNA helica	0.778	0.074	0.49	7.3e-21
UNIPROTKB|Q68FK8	1262	dhx9 "ATP-dependent RNA helica	0.639	0.061	0.576	9.2e-21

UNIPROTKB|F1S665 F1S665 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 262 (97.3 bits), Expect = 1.3e-22, P = 1.3e-22
 Identities = 47/88 (53%), Positives = 60/88 (68%)

Query:     5 GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNA 64
             G VK FL  WC K    P +++RA G K+RQ+F+CE+R+ G  Y G GNSTNKKDAQ+NA
Sbjct:     2 GDVKNFLYAWCGKRKMTPSYEIRAVGNKNRQKFMCEVRVEGYNYTGMGNSTNKKDAQSNA 61

Query:    65 AKDFVQYLVRSGQVNERDVPVENIPMTP 92
             A+DFV YLVR  +V   +VP   +  TP
Sbjct:    62 ARDFVNYLVRINEVKSEEVPTMGVAPTP 89

GO:0003725 "double-stranded RNA binding" evidence=IEA

ZFIN|ZDB-GENE-070912-171 dhx9 "DEAH (Asp-Glu-Ala-His) box polypeptide 9" [Danio rerio (taxid:7955)]

 Score = 265 (98.3 bits), Expect = 1.7e-21, P = 1.7e-21
 Identities = 47/90 (52%), Positives = 65/90 (72%)

Query:     7 VKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAK 66
             +K FL  WC K    P +D+RAAG K+RQ+F+CE+R+    Y+G GNSTNKKDAQ+NAA+
Sbjct:     4 IKNFLYAWCGKKKLTPNYDIRAAGNKNRQKFMCEVRVESYSYIGMGNSTNKKDAQSNAAR 63

Query:    67 DFVQYLVRSGQVNERDVPVENIPMTPTGPS 96
             DFV YLVR+ +++  +VP   + + P GPS
Sbjct:    64 DFVNYLVRTKEISPGEVPALGVSV-PDGPS 92

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0004386 "helicase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0003725 "double-stranded RNA binding" evidence=IEA

GO:0008026 "ATP-dependent helicase activity" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

UNIPROTKB|E2RNT3 DHX9 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 263 (97.6 bits), Expect = 2.7e-21, P = 2.7e-21
 Identities = 49/94 (52%), Positives = 64/94 (68%)

Query:     5 GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNA 64
             G VK FL  WC K    P +++RA G K+RQ+F+CE+R+ G  Y+G GNSTNKKDAQ+NA
Sbjct:     2 GDVKNFLYAWCGKRKMTPSYEIRAVGNKNRQKFMCEVRVEGYNYIGMGNSTNKKDAQSNA 61

Query:    65 AKDFVQYLVRSGQVNERDVPVENIPMTPTGPSVT 98
             A+DFV YLVR  +V   +VP   I + P  P +T
Sbjct:    62 ARDFVNYLVRINEVKSEEVPA--IGVAPPPPPLT 93

GO:0070937 "CRD-mediated mRNA stability complex" evidence=IEA

GO:0070934 "CRD-mediated mRNA stabilization" evidence=IEA

GO:0034605 "cellular response to heat" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0007623 "circadian rhythm" evidence=IEA

GO:0005813 "centrosome" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0001085 "RNA polymerase II transcription factor binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0008026 "ATP-dependent helicase activity" evidence=IEA

GO:0003725 "double-stranded RNA binding" evidence=IEA

UNIPROTKB|I3LHZ6 DHX9 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 262 (97.3 bits), Expect = 3.5e-21, P = 3.5e-21
 Identities = 47/88 (53%), Positives = 60/88 (68%)

Query:     5 GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNA 64
             G VK FL  WC K    P +++RA G K+RQ+F+CE+R+ G  Y G GNSTNKKDAQ+NA
Sbjct:     2 GDVKNFLYAWCGKRKMTPSYEIRAVGNKNRQKFMCEVRVEGYNYTGMGNSTNKKDAQSNA 61

Query:    65 AKDFVQYLVRSGQVNERDVPVENIPMTP 92
             A+DFV YLVR  +V   +VP   +  TP
Sbjct:    62 ARDFVNYLVRINEVKSEEVPTMGVAPTP 89

GO:0005524 "ATP binding" evidence=IEA

GO:0008026 "ATP-dependent helicase activity" evidence=IEA

GO:0003725 "double-stranded RNA binding" evidence=IEA

UNIPROTKB|G5E5N3 DHX9 "ATP-dependent RNA helicase A" [Bos taurus (taxid:9913)]

 Score = 261 (96.9 bits), Expect = 4.5e-21, P = 4.5e-21
 Identities = 49/94 (52%), Positives = 63/94 (67%)

Query:     5 GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNA 64
             G VK FL  WC K    P +++RA G K+RQ+F+CE+R+ G  Y G GNSTNKKDAQ+NA
Sbjct:     2 GDVKNFLYAWCGKRKMTPSYEIRAVGNKNRQKFMCEVRVEGYNYTGMGNSTNKKDAQSNA 61

Query:    65 AKDFVQYLVRSGQVNERDVPVENIPMTPTGPSVT 98
             A+DFV YLVR  ++   +VP   I + P  PS T
Sbjct:    62 ARDFVNYLVRINELKSEEVPA--IGVAPPTPSAT 93

GO:0070937 "CRD-mediated mRNA stability complex" evidence=IEA

GO:0070934 "CRD-mediated mRNA stabilization" evidence=IEA

GO:0034605 "cellular response to heat" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0007623 "circadian rhythm" evidence=IEA

GO:0005813 "centrosome" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0001085 "RNA polymerase II transcription factor binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0008026 "ATP-dependent helicase activity" evidence=IEA

GO:0003725 "double-stranded RNA binding" evidence=IEA

UNIPROTKB|Q28141 DHX9 "ATP-dependent RNA helicase A" [Bos taurus (taxid:9913)]

 Score = 261 (96.9 bits), Expect = 4.5e-21, P = 4.5e-21
 Identities = 48/100 (48%), Positives = 66/100 (66%)

Query:     5 GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNA 64
             G VK FL  WC K    P +++RA G K+RQ+F+CE+R+ G  Y G GNSTNKKDAQ+NA
Sbjct:     2 GDVKNFLYAWCGKRKMTPSYEIRAVGNKNRQKFMCEVRVEGYNYTGMGNSTNKKDAQSNA 61

Query:    65 AKDFVQYLVRSGQVNERDVPVENI-PMTPTGPSVTVNTSK 103
             A+DFV YLVR  ++   +VP   + P TP+    +  T++
Sbjct:    62 ARDFVNYLVRINELKSEEVPAVGVAPPTPSATDSSDTTAE 101

GO:0070937 "CRD-mediated mRNA stability complex" evidence=ISS

GO:0030529 "ribonucleoprotein complex" evidence=ISS

GO:0005730 "nucleolus" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0008026 "ATP-dependent helicase activity" evidence=IEA

GO:0003725 "double-stranded RNA binding" evidence=IEA

FB|FBgn0002774 mle "maleless" [Drosophila melanogaster (taxid:7227)]

 Score = 261 (96.9 bits), Expect = 4.6e-21, P = 4.6e-21
 Identities = 45/80 (56%), Positives = 62/80 (77%)

Query:     7 VKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAK 66
             +K+FL ++C K+  +P+FD+R  GPK+RQRFLCE+R+    Y+G GNSTNKKDA+ NA +
Sbjct:     3 IKSFLYQFCAKSQIEPKFDIRQTGPKNRQRFLCEVRVEPNTYIGVGNSTNKKDAEKNACR 62

Query:    67 DFVQYLVRSGQVNERDVPVE 86
             DFV YLVR G++N  DVP +
Sbjct:    63 DFVNYLVRVGKLNTNDVPAD 82

GO:0005700 "polytene chromosome" evidence=IDA

GO:0008026 "ATP-dependent helicase activity" evidence=IEA;TAS

GO:0003682 "chromatin binding" evidence=IDA

GO:0000785 "chromatin" evidence=IDA

GO:0007549 "dosage compensation" evidence=NAS;IMP;TAS

GO:0009047 "dosage compensation by hyperactivation of X chromosome" evidence=NAS

GO:0045433 "male courtship behavior, veined wing generated song production" evidence=IGI

GO:0016456 "X chromosome located dosage compensation complex, transcription activating" evidence=NAS;TAS

GO:0005694 "chromosome" evidence=NAS

GO:0005634 "nucleus" evidence=IDA;NAS

GO:0003725 "double-stranded RNA binding" evidence=IEA;ISS

GO:0004386 "helicase activity" evidence=ISS

GO:0016457 "dosage compensation complex assembly involved in dosage compensation by hyperactivation of X chromosome" evidence=TAS

GO:0003724 "RNA helicase activity" evidence=NAS

GO:0005524 "ATP binding" evidence=IEA

GO:0048675 "axon extension" evidence=IMP

GO:0008340 "determination of adult lifespan" evidence=IMP

GO:0000805 "X chromosome" evidence=IDA

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

GO:0005665 "DNA-directed RNA polymerase II, core complex" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|Q5R874 DHX9 "ATP-dependent RNA helicase A" [Pongo abelii (taxid:9601)]

 Score = 259 (96.2 bits), Expect = 7.3e-21, P = 7.3e-21
 Identities = 49/100 (49%), Positives = 65/100 (65%)

Query:     5 GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNA 64
             G VK FL  WC K    P +++RA G K+RQ+F+CE+++ G  Y G GNSTNKKDAQ+NA
Sbjct:     2 GDVKNFLYAWCGKRKMTPSYEIRAVGNKNRQKFMCEVQVEGYNYTGMGNSTNKKDAQSNA 61

Query:    65 AKDFVQYLVRSGQVNERDVPVENI----PMTPTGPSVTVN 100
             A+DFV YLVR  ++   +VP   +    P+T T P  T N
Sbjct:    62 ARDFVNYLVRINEIKSEEVPAFGVASPPPLTDT-PDTTAN 100

GO:0030529 "ribonucleoprotein complex" evidence=ISS

GO:0070937 "CRD-mediated mRNA stability complex" evidence=ISS

UNIPROTKB|Q08211 DHX9 "ATP-dependent RNA helicase A" [Homo sapiens (taxid:9606)]

 Score = 259 (96.2 bits), Expect = 7.3e-21, P = 7.3e-21
 Identities = 49/100 (49%), Positives = 65/100 (65%)

Query:     5 GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNA 64
             G VK FL  WC K    P +++RA G K+RQ+F+CE+++ G  Y G GNSTNKKDAQ+NA
Sbjct:     2 GDVKNFLYAWCGKRKMTPSYEIRAVGNKNRQKFMCEVQVEGYNYTGMGNSTNKKDAQSNA 61

Query:    65 AKDFVQYLVRSGQVNERDVPVENI----PMTPTGPSVTVN 100
             A+DFV YLVR  ++   +VP   +    P+T T P  T N
Sbjct:    62 ARDFVNYLVRINEIKSEEVPAFGVASPPPLTDT-PDTTAN 100

GO:0003725 "double-stranded RNA binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0007623 "circadian rhythm" evidence=IEA

GO:0034605 "cellular response to heat" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0005813 "centrosome" evidence=IDA

GO:0070937 "CRD-mediated mRNA stability complex" evidence=IDA

GO:0070934 "CRD-mediated mRNA stabilization" evidence=IMP

GO:0030529 "ribonucleoprotein complex" evidence=IDA

GO:0003724 "RNA helicase activity" evidence=TAS

GO:0004003 "ATP-dependent DNA helicase activity" evidence=TAS

GO:0004004 "ATP-dependent RNA helicase activity" evidence=TAS

GO:0005737 "cytoplasm" evidence=TAS

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

GO:0005654 "nucleoplasm" evidence=TAS

GO:0008380 "RNA splicing" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0001085 "RNA polymerase II transcription factor binding" evidence=IPI

UNIPROTKB|Q68FK8 dhx9 "ATP-dependent RNA helicase A-like protein" [Xenopus laevis (taxid:8355)]

 Score = 258 (95.9 bits), Expect = 9.2e-21, P = 9.2e-21
 Identities = 45/78 (57%), Positives = 59/78 (75%)

Query:     7 VKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAK 66
             +K FL  WC K    P +++RAAG K+RQ+F+CE+RI G  Y+G GNSTNKKDAQTN+A+
Sbjct:     4 IKNFLYAWCGKKKLTPNYEIRAAGNKNRQKFMCEVRIDGFNYIGMGNSTNKKDAQTNSAR 63

Query:    67 DFVQYLVRSGQVNERDVP 84
             DFV YLVR G++   +VP
Sbjct:    64 DFVNYLVRVGEMRSDEVP 81

GO:0070937 "CRD-mediated mRNA stability complex" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P24785	MLE_DROME	3, ., 6, ., 4, ., 1, 3	0.5625	0.6557	0.0618	yes	N/A
O70133	DHX9_MOUSE	3, ., 6, ., 4, ., 1, 3	0.5357	0.6557	0.0579	yes	N/A
Q22307	DHX9_CAEEL	3, ., 6, ., 4, ., 1, 3	0.5529	0.6721	0.0630	yes	N/A
Q28141	DHX9_BOVIN	3, ., 6, ., 4, ., 1, 3	0.5106	0.7540	0.0714	yes	N/A

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.1.3.16	LOW CONFIDENCE prediction!

---

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	122
smart00358	67	smart00358, DSRM, Double-stranded RNA binding moti	5e-20
cd00048	68	cd00048, DSRM, Double-stranded RNA binding motif	3e-17
pfam00035	66	pfam00035, dsrm, Double-stranded RNA binding motif	1e-14
PHA03103	183	PHA03103, PHA03103, double-strand RNA-binding prot	5e-07
TIGR02191	220	TIGR02191, RNaseIII, ribonuclease III, bacterial	2e-05
PRK00102	229	PRK00102, rnc, ribonuclease III; Reviewed	3e-05
COG0571	235	COG0571, Rnc, dsRNA-specific ribonuclease [Transcr	4e-05
PRK12371	235	PRK12371, PRK12371, ribonuclease III; Reviewed	0.004

>gnl|CDD|214634 smart00358, DSRM, Double-stranded RNA binding motif

 Score = 76.9 bits (190), Expect = 5e-20
 Identities = 22/66 (33%), Positives = 36/66 (54%), Gaps = 2/66 (3%)

Query: 8  KAFLNEWCQKNSKQPEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAK 66
          K+ L E  QK    PE++ V+  GP H  RF   +++ G    G G  ++KK+A+  AA+
Sbjct: 2  KSLLQELAQKRKLPPEYELVKEEGPDHAPRFTVTVKVGGK-RTGEGEGSSKKEAKQRAAE 60

Query: 67 DFVQYL 72
            ++ L
Sbjct: 61 AALRSL 66

Length = 67

>gnl|CDD|238007 cd00048, DSRM, Double-stranded RNA binding motif

 Score = 69.6 bits (171), Expect = 3e-17
 Identities = 25/67 (37%), Positives = 37/67 (55%), Gaps = 3/67 (4%)

Query: 8  KAFLNEWCQKNSK-QPEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAA 65
          K+ L E  QK  K  PE++ V   GP H  RF  E+ + G    G G  ++KK+A+ NAA
Sbjct: 3  KSLLQELAQKRGKPLPEYELVEEEGPDHAPRFTVEVTVGGK-ITGEGEGSSKKEAKQNAA 61

Query: 66 KDFVQYL 72
          +  ++ L
Sbjct: 62 EAALRKL 68

Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III, RNases H1, and dsRNA dependent adenosine deaminases. Length = 68

>gnl|CDD|215670 pfam00035, dsrm, Double-stranded RNA binding motif

 Score = 62.7 bits (153), Expect = 1e-14
 Identities = 23/66 (34%), Positives = 34/66 (51%), Gaps = 2/66 (3%)

Query: 8  KAFLNEWCQKNSKQPEF-DVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAK 66
          K+ L E CQK   +P +  V   GP H   F   + + G  Y G G  ++KK+A+  AA+
Sbjct: 2  KSLLQELCQKKGPKPPYEYVEEEGPPHSPTFTVTVTVNGKKY-GTGTGSSKKEAKQLAAE 60

Query: 67 DFVQYL 72
            +Q L
Sbjct: 61 KALQKL 66

Sequences gathered for seed by HMM_iterative_training Putative motif shared by proteins that bind to dsRNA. At least some DSRM proteins seem to bind to specific RNA targets. Exemplified by Staufen, which is involved in localisation of at least five different mRNAs in the early Drosophila embryo. Also by interferon-induced protein kinase in humans, which is part of the cellular response to dsRNA. Length = 66

>gnl|CDD|222987 PHA03103, PHA03103, double-strand RNA-binding protein; Provisional

 Score = 45.9 bits (109), Expect = 5e-07
 Identities = 22/56 (39%), Positives = 34/56 (60%), Gaps = 1/56 (1%)

Query: 11  LNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAK 66
           +NE+CQ  S+    ++ ++GP H   F   + I+GI +  A  ST KK+A+ NAAK
Sbjct: 115 INEYCQITSRDWSINITSSGPSHSPTFTASVIISGIKFKPAIGST-KKEAKNNAAK 169

Length = 183

>gnl|CDD|233772 TIGR02191, RNaseIII, ribonuclease III, bacterial

 Score = 41.8 bits (99), Expect = 2e-05
 Identities = 22/59 (37%), Positives = 31/59 (52%), Gaps = 3/59 (5%)

Query: 11  LNEWCQKNSKQ-PEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKD 67
           L EW Q   K  PE+  ++  GP H + F  E+ + G    G G   +KK+A+ NAAK 
Sbjct: 158 LQEWAQARGKPLPEYRLIKEEGPDHDKEFTVEVSVNG-EPYGEGKGKSKKEAEQNAAKA 215

This family consists of bacterial examples of ribonuclease III. This enzyme cleaves double-stranded rRNA. It is involved in processing ribosomal RNA precursors. It is found even in minimal genones such as Mycoplasma genitalium and Buchnera aphidicola, and in some cases has been shown to be an essential gene. These bacterial proteins contain a double-stranded RNA binding motif (pfam00035) and a ribonuclease III domain (pfam00636). Eukaryotic homologs tend to be much longer proteins with additional domains, localized to the nucleus, and not included in this family [Transcription, RNA processing]. Length = 220

>gnl|CDD|234633 PRK00102, rnc, ribonuclease III; Reviewed

 Score = 40.9 bits (97), Expect = 3e-05
 Identities = 21/59 (35%), Positives = 30/59 (50%), Gaps = 5/59 (8%)

Query: 11  LNEWCQKNSK-QPEFD-VRAAGPKHRQRFLCELRIAGIGY-VGAGNSTNKKDAQTNAAK 66
           L E  Q      PE++ V+  GP H + F  E+ + G     G G+S  KK+A+  AAK
Sbjct: 164 LQELLQGRGLPLPEYELVKEEGPAHDKEFTVEVTVNGKELGEGTGSS--KKEAEQAAAK 220

Length = 229

>gnl|CDD|223644 COG0571, Rnc, dsRNA-specific ribonuclease [Transcription]

 Score = 40.7 bits (96), Expect = 4e-05
 Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 3/63 (4%)

Query: 7   VKAFLNEWCQKNSKQ-PEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNA 64
            K  L E  Q      PE+  V+  GP H + F  E+ + G   +G G   +KK+A+  A
Sbjct: 163 PKTRLQELLQAQGLVLPEYRLVKEEGPAHDKEFTVEVAVGGK-ELGTGKGRSKKEAEQAA 221

Query: 65  AKD 67
           A+ 
Sbjct: 222 AEQ 224

Length = 235

>gnl|CDD|171444 PRK12371, PRK12371, ribonuclease III; Reviewed

 Score = 35.1 bits (81), Expect = 0.004
 Identities = 20/61 (32%), Positives = 27/61 (44%), Gaps = 5/61 (8%)

Query: 8   KAFLNEWC-QKNSKQPEFDV-RAAGPKHRQRFLCELRIAGIG-YVGAGNSTNKKDAQTNA 64
           K  L EW   +    P + V   +GP H  RF  E+ + G     G G S  K+ A+  A
Sbjct: 164 KTELQEWAHAQFGVTPVYRVDSRSGPDHDPRFTVEVEVKGFAPETGEGRS--KRAAEQVA 221

Query: 65  A 65
           A
Sbjct: 222 A 222

Length = 235

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	122
cd00048	68	DSRM Double-stranded RNA binding motif. Binding is	99.8
PHA02701	183	ORF020 dsRNA-binding PKR inhibitor; Provisional	99.79
PHA03103	183	double-strand RNA-binding protein; Provisional	99.78
smart00358	67	DSRM Double-stranded RNA binding motif.	99.77
PRK12371	235	ribonuclease III; Reviewed	99.74
PF00035	67	dsrm: Double-stranded RNA binding motif; InterPro:	99.74
PRK14718	467	ribonuclease III; Provisional	99.68
COG0571	235	Rnc dsRNA-specific ribonuclease [Transcription]	99.67
PRK12372	413	ribonuclease III; Reviewed	99.66
KOG3732|consensus	339		99.6
PRK00102	229	rnc ribonuclease III; Reviewed	99.6
TIGR02191	220	RNaseIII ribonuclease III, bacterial. This family	99.58
PF14709	80	DND1_DSRM: double strand RNA binding domain from D	99.58
KOG3732|consensus	339		99.43
KOG4334|consensus	650		99.15
KOG1817|consensus	533		98.78
KOG2777|consensus	542		98.72
KOG0921|consensus	1282		98.39
PF03368	90	Dicer_dimer: Dicer dimerisation domain; InterPro:	98.3
KOG3769|consensus	333		97.85
PF14954	252	LIX1: Limb expression 1	95.53
KOG2334|consensus	477		93.62
KOG3792|consensus	816		91.05
KOG2777|consensus	542		89.12
KOG4334|consensus	650		88.88
PF02169	92	LPP20: LPP20 lipoprotein; InterPro: IPR002217 A ma	88.53
KOG0921|consensus	1282		86.72
KOG3792|consensus	816		83.14

>cd00048 DSRM Double-stranded RNA binding motif

Probab=99.80  E-value=5.8e-19  Score=109.50  Aligned_cols=66  Identities=35%  Similarity=0.607  Sum_probs=61.4

Q ss_pred             ChHHHHHHHHHhc-CCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHH
Q psy14233          6 LVKAFLNEWCQKN-SKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYL   72 (122)
Q Consensus         6 n~ks~L~E~~qk~-~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L   72 (122)
                      |||+.|+||||++ +..|.|++ ...|++|.+.|+|.|.|+|. +++.|.|.|||+|++.||+.||+.|
T Consensus         1 ~p~~~L~e~~~~~~~~~~~y~~~~~~g~~~~~~f~~~v~i~~~-~~~~g~g~sKk~Ak~~AA~~al~~L   68 (68)
T cd00048           1 NPKSLLQELAQKRGKPLPEYELVEEEGPDHAPRFTVEVTVGGK-ITGEGEGSSKKEAKQNAAEAALRKL   68 (68)
T ss_pred             ChHHHHHHHHHHcCCCCCeEEEeeeeCCCCCCeEEEEEEECCE-EEEEeecCCHHHHHHHHHHHHHHhC
Confidence            7999999999999 89999998 57899999999999999996 4799999999999999999999875

Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III, RNases H1, and dsRNA dependent adenosine deaminases.

>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional

Probab=99.79  E-value=6.7e-19  Score=131.40  Aligned_cols=71  Identities=25%  Similarity=0.394  Sum_probs=63.3

Q ss_pred             CCChHHHHHHHHHhcCCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHHc
Q psy14233          4 DGLVKAFLNEWCQKNSKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRS   75 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~   75 (122)
                      ..|||+.||||||+++..+.|.+ ...||+|.+.|++.|.|+|.. ++.|.|+|||+|||+||+.||+.|...
T Consensus       107 ~~DpKS~LQE~~Q~~~~~l~Y~li~~~GpdH~~~Ftv~V~V~g~~-~g~G~G~SKKeAEQ~AAk~AL~~L~~~  178 (183)
T PHA02701        107 TLNPVSAVNEFCMRTHRPLEFCETRSGGHDHCPLFTCTIVVSGKV-VATASGCSKKLARHAACADALTILINN  178 (183)
T ss_pred             CCCccHHHHHHHHhcCCCCeEEEEEeECCCCCceEEEEEEECCEE-EEEEEeCCHHHHHHHHHHHHHHHHHhh
Confidence            46999999999999955448986 467999999999999999975 899999999999999999999999643

>PHA03103 double-strand RNA-binding protein; Provisional

Probab=99.78  E-value=1.7e-18  Score=129.57  Aligned_cols=70  Identities=29%  Similarity=0.461  Sum_probs=62.4

Q ss_pred             CCChHHHHHHHHHhcCCCceEEEEeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVR   74 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~~~~p~Y~~~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~   74 (122)
                      ..|||+.||||||+++....|.+...||+|.+.|++.|.|+|.. ++.|.|+|||+|||+||+.||..|..
T Consensus       108 ~kNpKS~LQE~~Qk~~~~~y~~i~~~Gp~H~p~F~v~V~I~g~~-~g~G~G~SKKeAEQ~AAk~AL~~L~~  177 (183)
T PHA03103        108 DKNPCTVINEYCQITSRDWSINITSSGPSHSPTFTASVIISGIK-FKPAIGSTKKEAKNNAAKLAMDKILN  177 (183)
T ss_pred             cCChhHHHHHHHHHhCCCeEEEEEeeCCCCCceEEEEEEECCEE-EEEeeeCCHHHHHHHHHHHHHHHHHh
Confidence            36899999999999955555566678999999999999999975 79999999999999999999999964

>smart00358 DSRM Double-stranded RNA binding motif

Probab=99.77  E-value=3.4e-18  Score=106.26  Aligned_cols=65  Identities=34%  Similarity=0.640  Sum_probs=59.7

Q ss_pred             hHHHHHHHHHhcCCCceEEEE-eeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHH
Q psy14233          7 VKAFLNEWCQKNSKQPEFDVR-AAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYL   72 (122)
Q Consensus         7 ~ks~L~E~~qk~~~~p~Y~~~-~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L   72 (122)
                      ||+.|+||||+++..|.|++. ..|++|.+.|+|.|.|+|. +++.|.|.|||+|++.||+.||+.|
T Consensus         1 p~~~L~e~~~~~~~~~~y~~~~~~g~~~~~~f~~~v~i~~~-~~~~g~g~sKk~Ak~~AA~~al~~L   66 (67)
T smart00358        1 PKSLLQELAQKRGLPPEYELVKEEGPDHAPRFTVTVKVGGE-YTGEGEGSSKKEAKQRAAEAALRSL   66 (67)
T ss_pred             CchHHHHHHHHCCCCCEEEEEeeeCCCCCCcEEEEEEECCE-EEEEeccCCHHHHHHHHHHHHHHhc
Confidence            789999999999449999986 4799999999999999997 4799999999999999999999987

>PRK12371 ribonuclease III; Reviewed

Probab=99.74  E-value=1.2e-17  Score=129.17  Aligned_cols=70  Identities=26%  Similarity=0.453  Sum_probs=64.5

Q ss_pred             CCChHHHHHHHHHhc-CCCceEEEE-eeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKN-SKQPEFDVR-AAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVR   74 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~-~~~p~Y~~~-~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~   74 (122)
                      ..|||+.||||||+. +..|.|.+. ..||+|.+.|+|.|+|+|.. ++.|.|+|||+||+.||+.||+.|..
T Consensus       160 ~~d~Ks~LqE~~q~~~~~~p~Y~~~~~~Gp~h~~~F~v~v~v~~~~-~~~g~G~sKK~Ae~~AA~~al~~~~~  231 (235)
T PRK12371        160 RRDAKTELQEWAHAQFGVTPVYRVDSRSGPDHDPRFTVEVEVKGFA-PETGEGRSKRAAEQVAAEKMLEREGV  231 (235)
T ss_pred             cCCHHHHHHHHHHhcCCCCCeEEEEEeecCCCCCeEEEEEEECCEE-EEEeeeCCHHHHHHHHHHHHHHHhhh
Confidence            469999999999998 789999975 77999999999999999985 79999999999999999999999853

>PF00035 dsrm: Double-stranded RNA binding motif; InterPro: IPR001159 The DsRBD domain is found in a variety of RNA-binding proteins with different structures and exhibiting a diversity of functions []

Probab=99.74  E-value=2.4e-17  Score=102.84  Aligned_cols=65  Identities=42%  Similarity=0.705  Sum_probs=56.6

Q ss_pred             hHHHHHHHHHhcCCCceEEE-EeeCCCCC-ccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHH
Q psy14233          7 VKAFLNEWCQKNSKQPEFDV-RAAGPKHR-QRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYL   72 (122)
Q Consensus         7 ~ks~L~E~~qk~~~~p~Y~~-~~~Gp~h~-~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L   72 (122)
                      ||+.|+|||++++..|.|.. ...+++|. +.|.|.|.|+|.. ++.|.|.|||+|++.||+.||+.|
T Consensus         1 ~~~~L~e~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~i~~~~-~~~g~g~sKk~Ak~~AA~~al~~L   67 (67)
T PF00035_consen    1 PKSRLNEYCQKNKFPPPYYYIEEEGPSHHRPRFICTVYIDGKE-YGEGEGSSKKEAKQQAAKKALQKL   67 (67)
T ss_dssp             HHHHHHHHHHHCTSSEEEEEEEEESSSSSSEEEEEEEEETTEE-EEEEEESSHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCCCCEEEEEEeCCCCCCceEEEEEEECCEE-EeEeccCCHHHHHHHHHHHHHHhC
Confidence            79999999999977776664 45565555 8999999999985 789999999999999999999987

It is involved in localisation of at least five different mRNAs in the early Drosophila embryo and by interferon-induced protein kinase in humans, which is part of the cellular response to dsRNA.; GO: 0003725 double-stranded RNA binding, 0005622 intracellular; PDB: 1EKZ_A 1STU_A 1QU6_A 2L2M_A 3ADJ_A 1WHN_A 3LLH_B 2B7V_A 2L3J_A 1UHZ_A ....

>PRK14718 ribonuclease III; Provisional

Probab=99.68  E-value=1.9e-16  Score=131.53  Aligned_cols=70  Identities=23%  Similarity=0.357  Sum_probs=64.6

Q ss_pred             CCChHHHHHHHHHhc-CCCceEEEE-eeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKN-SKQPEFDVR-AAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~-~~~p~Y~~~-~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      ..|||+.||||||++ +..|+|.+. +.||+|.+.|.+.|+|+|..++|.|.|.|||+|||.||+.||+.|.
T Consensus       150 ~kDyKS~LQE~~Qk~~~~~PeY~li~esGPdH~k~F~V~V~v~g~~~~G~G~G~SKKeAEQ~AAk~AL~kL~  221 (467)
T PRK14718        150 GKDAKTLLQEYLQGHKIALPTYTVVATHGAAHNQQFEVECTVPKLDIKVSGSGASRRAAEQAAAKKALDEVT  221 (467)
T ss_pred             ccCHHHHHHHHHHhcCCCCCeeEEeeeecCCCCCeEEEEEEECCeeeEEEEEcCCHHHHHHHHHHHHHHHhc
Confidence            469999999999999 788999974 6899999999999999996556999999999999999999999996

>COG0571 Rnc dsRNA-specific ribonuclease [Transcription]

Probab=99.67  E-value=3.1e-16  Score=121.55  Aligned_cols=70  Identities=29%  Similarity=0.395  Sum_probs=64.8

Q ss_pred             CCChHHHHHHHHHhc-CCCceEEEE-eeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKN-SKQPEFDVR-AAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVR   74 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~-~~~p~Y~~~-~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~   74 (122)
                      ..|||+.||||||.+ +..|.|.+. ..||+|++.|++.|.|+|.. +|.|.|+|||+|||.||+.||..|..
T Consensus       160 ~~D~Kt~LQe~~q~~~~~~p~Y~~v~~~g~~h~~~F~v~v~v~~~~-~g~G~G~skk~AEq~AA~~al~~l~~  231 (235)
T COG0571         160 FKDPKTRLQELLQAQGLVLPEYRLVKEEGPAHDKEFTVEVAVGGKE-LGTGKGRSKKEAEQAAAEQALKKLGV  231 (235)
T ss_pred             ccChhHHHHHHHHhcCCCCCeEEEeeccCCCCCceEEEEEEECCee-EEEecccCHHHHHHHHHHHHHHHhcc
Confidence            479999999999999 889999985 56999999999999999974 89999999999999999999999964

>PRK12372 ribonuclease III; Reviewed

Probab=99.66  E-value=5.5e-16  Score=127.77  Aligned_cols=71  Identities=23%  Similarity=0.361  Sum_probs=65.0

Q ss_pred             CCChHHHHHHHHHhc-CCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKN-SKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVR   74 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~-~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~   74 (122)
                      ..|||+.||||||++ +..|+|.+ ...||+|++.|++.|+|+|..+.+.|.|.|||+|||.||+.||+.|..
T Consensus       150 ~~D~KS~LQE~~Q~~~~~~P~Y~lv~e~Gp~h~~~F~V~V~v~g~~~~g~G~G~SKKeAEQ~AAr~AL~kL~~  222 (413)
T PRK12372        150 GKDAKTLLQEYLQGHKIALPTYTVVATHGAAHNQQFEVECTVPKLDVKVSGSGASRRAAEQAAAKKALDEVMA  222 (413)
T ss_pred             cCCHHHHHHHHHHhcCCCCCeeEEeeeecCCCCceEEEEEEECCeEEEEEEEeCCHHHHHHHHHHHHHHHHhc
Confidence            469999999999999 78899997 478999999999999999965568999999999999999999999973

>KOG3732|consensus

Probab=99.60  E-value=5.1e-15  Score=118.98  Aligned_cols=69  Identities=26%  Similarity=0.348  Sum_probs=64.7

Q ss_pred             CCCChHHHHHHHHHhc-CCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          3 GDGLVKAFLNEWCQKN-SKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         3 ~~~n~ks~L~E~~qk~-~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      +..||+++|+|+||++ |..|+|++ .+.|++|.+.|++.|.|.+.  ...|.|.|||.||++||..+|..|.
T Consensus       140 ~~~NPI~~L~e~~q~k~~k~P~yelv~E~G~~~~rEFv~q~sv~~~--~~~GkG~sKKiAKRnAAeamLe~l~  210 (339)
T KOG3732|consen  140 QVLNPIGRLQELAQAKKWKLPEYELVQESGVPHRREFVIQCSVENF--TEEGKGPSKKIAKRNAAEAMLESLG  210 (339)
T ss_pred             cccChHHHHHHHHHHhCCCCCceEEEeccCCCccceEEEEEEecce--eeecCCchHHHHHHHHHHHHHHHhc
Confidence            4689999999999999 99999998 58899999999999999995  6999999999999999999999995

>PRK00102 rnc ribonuclease III; Reviewed

Probab=99.60  E-value=6.8e-15  Score=111.91  Aligned_cols=69  Identities=30%  Similarity=0.469  Sum_probs=63.5

Q ss_pred             CCChHHHHHHHHHhc-CCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKN-SKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~-~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      ..|||+.|+||||+. +..|.|.+ ...|+.|.+.|+|.|+++|. ++|.|.|.|||+||+.||+.||+.|.
T Consensus       157 ~~~pk~~L~e~~~~~~~~~p~y~~~~~~g~~~~~~f~~~v~i~~~-~~~~g~g~skk~Ae~~AA~~Al~~l~  227 (229)
T PRK00102        157 VKDYKTRLQELLQGRGLPLPEYELVKEEGPAHDKEFTVEVTVNGK-ELGEGTGSSKKEAEQAAAKQALKKLK  227 (229)
T ss_pred             cCCHHHHHHHHHHHcCCCCCceEEeeccCCCCCceEEEEEEECCE-EEEEeeeCCHHHHHHHHHHHHHHHHh
Confidence            579999999999998 67899987 46799999999999999997 58999999999999999999999985

>TIGR02191 RNaseIII ribonuclease III, bacterial

Probab=99.58  E-value=1e-14  Score=110.05  Aligned_cols=68  Identities=34%  Similarity=0.536  Sum_probs=62.2

Q ss_pred             CCChHHHHHHHHHhc-CCCceEEEE-eeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKN-SKQPEFDVR-AAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYL   72 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~-~~~p~Y~~~-~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L   72 (122)
                      ..|||+.|+||||++ +..|.|++. ..|++|.+.|.|.|.++|. +++.|.|.|||+|++.||+.||+.|
T Consensus       151 ~~~pk~~L~e~~~~~~~~~p~y~~~~~~g~~~~~~f~~~v~~~~~-~~~~g~g~skk~A~~~AA~~Al~~l  220 (220)
T TIGR02191       151 LKDYKTALQEWAQARGKPLPEYRLIKEEGPDHDKEFTVEVSVNGE-PYGEGKGKSKKEAEQNAAKAALEKL  220 (220)
T ss_pred             cCChHHHHHHHHHHcCCCCceEEEecccCCCCCceEEEEEEECCE-EEEEeeeCCHHHHHHHHHHHHHHhC
Confidence            579999999999998 678999985 6699999999999999997 4899999999999999999999875

This family consists of bacterial examples of ribonuclease III. This enzyme cleaves double-stranded rRNA. It is involved in processing ribosomal RNA precursors. It is found even in minimal genones such as Mycoplasma genitalium and Buchnera aphidicola, and in some cases has been shown to be an essential gene. These bacterial proteins contain a double-stranded RNA binding motif (pfam00035) and a ribonuclease III domain (pfam00636). Eukaryotic homologs tend to be much longer proteins with additional domains, localized to the nucleus, and not included in this family.

>PF14709 DND1_DSRM: double strand RNA binding domain from DEAD END PROTEIN 1

Probab=99.58  E-value=6.7e-15  Score=96.98  Aligned_cols=68  Identities=37%  Similarity=0.595  Sum_probs=58.5

Q ss_pred             CChHHHHHHHHHhc-CCCceEEEE-eeCCCCCccEEEEEEECCEEEE---------EeEeccCHHHHHHHHHHHHHHHH
Q psy14233          5 GLVKAFLNEWCQKN-SKQPEFDVR-AAGPKHRQRFLCELRIAGIGYV---------GAGNSTNKKDAQTNAAKDFVQYL   72 (122)
Q Consensus         5 ~n~ks~L~E~~qk~-~~~p~Y~~~-~~Gp~h~~~F~~~V~v~g~~~~---------g~G~G~SKK~Aeq~AA~~Al~~L   72 (122)
                      +++++.|+|+|+++ |+.|.|++. ..||+|.+.|.++|.|.+..+-         +.---.+||+|+..||+.||+.|
T Consensus         1 k~a~~~L~elC~k~~W~~P~y~l~~~~Gp~~~~~F~ykV~i~~~~~~~~~~~~~~~p~~~~~~~k~Ak~~AA~~~L~~L   79 (80)
T PF14709_consen    1 KSAVSLLNELCQKNKWGPPVYELVSESGPDHRKLFLYKVVIPGLEYPFEGSIECFGPTKPSSTKKEAKESAAQQALQAL   79 (80)
T ss_pred             CCHHHHHHHHHHhcCCCCCeEEEEeccCCCccEEEEEEEEEcCCCCCCcceEEEccCCCcCccHHHHHHHHHHHHHHhc
Confidence            47999999999999 999999985 7899999999999999886521         12334789999999999999987

>KOG3732|consensus

Probab=99.43  E-value=6.7e-13  Score=106.82  Aligned_cols=70  Identities=23%  Similarity=0.400  Sum_probs=64.9

Q ss_pred             CChHHHHHHHHHhcCCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHHcC
Q psy14233          5 GLVKAFLNEWCQKNSKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRSG   76 (122)
Q Consensus         5 ~n~ks~L~E~~qk~~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~~   76 (122)
                      ++|+|.|||+|.+++..|.|++ .+.||.|.+.|+++|.|+.  |.+.|.|+|||.||+.||..+|..|...-
T Consensus        38 KS~IS~l~E~~~r~~~~v~fevl~eeGp~H~~~fv~rvtvg~--~~a~GeG~sKK~AKh~AA~~~L~~lk~l~  108 (339)
T KOG3732|consen   38 KSPISLLQEYGLRRGLTPVYEVLREEGPPHMPNFVFRVTVGE--ITATGEGKSKKLAKHRAAEALLKELKKLP  108 (339)
T ss_pred             CChHHHHHHHHHHhCCCcceeeeeccCCccCCCeEEEEEEee--eEEecCCCchhHHHHHHHHHHHHHHhcCC
Confidence            7899999999999999999998 4689999999999999986  57999999999999999999999998643

>KOG4334|consensus

Probab=99.15  E-value=1.6e-11  Score=103.23  Aligned_cols=107  Identities=19%  Similarity=0.224  Sum_probs=81.2

Q ss_pred             CChHHHHHHHHHhc-CCCceEEEEeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHHcCCCCCCCC
Q psy14233          5 GLVKAFLNEWCQKN-SKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRSGQVNERDV   83 (122)
Q Consensus         5 ~n~ks~L~E~~qk~-~~~p~Y~~~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~~~~~~~~~   83 (122)
                      +..+..|+||+|+. ...|.|++.+.. .....|.+.|.+|+.. ||.|.|.|||.|+..||+.+|+.|.-.=....++.
T Consensus       375 ks~vCiLhEy~q~~lk~~pvyef~e~~-n~stpysa~v~~d~~~-yGsG~g~sKK~Ak~~AAR~tLeiLIPd~~~~~~n~  452 (650)
T KOG4334|consen  375 KSKVCILHEYAQQCLKSLPVYEFAEND-NNSTPYSAGVLPDLFP-YGSGVGASKKTAKLVAARDTLEILIPDLRVSEDNV  452 (650)
T ss_pred             ceeeehHHHHHHHHhhhcceeehhhcc-CCCCcccccccccccc-cccccccchHHHHHHHHHHHHHHhcchhhhccccc
Confidence            45677899999998 889999986533 5677899999999976 89999999999999999999999963211111111


Q ss_pred             CCCCCCCCCCCCCcccCCCCceeeeecccCCCCcccc
Q psy14233         84 PVENIPMTPTGPSVTVNTSKRFSFIRRSSIGLPRSYE  120 (122)
Q Consensus        84 p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~  120 (122)
                         +-.++.    .-+.-+..+++|+.++|++||++|
T Consensus       453 ---~d~k~~----~~~k~q~~le~F~~I~Iedprv~e  482 (650)
T KOG4334|consen  453 ---CDGKVE----EDGKQQGFLELFKKIKIEDPRVVE  482 (650)
T ss_pred             ---cccccc----ccccchhHHHHhhcccccCchHHH
Confidence               111211    223356789999999999999987

>KOG1817|consensus

Probab=98.78  E-value=3e-08  Score=82.76  Aligned_cols=69  Identities=23%  Similarity=0.331  Sum_probs=61.2

Q ss_pred             CChHHHHHHHHHhcC-------CCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHH
Q psy14233          5 GLVKAFLNEWCQKNS-------KQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVR   74 (122)
Q Consensus         5 ~n~ks~L~E~~qk~~-------~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~   74 (122)
                      .|||+.|+.+|...+       ..|.|.+ ...||.+++.|++.|+++|+. +|.|.|+|-|.|+..||++||+.+..
T Consensus       427 ndpkskLqq~cl~~rys~~~epdip~y~V~~~~gpa~~r~y~Vavyf~gkr-lat~~G~nik~Ae~rAA~~ALe~~~~  503 (533)
T KOG1817|consen  427 NDPKSKLQQCCLTLRYSLGGEPDIPLYKVLGAKGPANDRNYKVAVYFKGKR-LATGVGSNIKQAEMRAAMQALENLKM  503 (533)
T ss_pred             cCcHHHHHHHHHHHhcccCCCCCCceEEEecccCCCCCCceEEEEEECCEE-EeeccCchHhHHHHHHHHHHHHHHHh
Confidence            689999999998862       2577776 467999999999999999986 79999999999999999999999964

>KOG2777|consensus

Probab=98.72  E-value=3.7e-08  Score=83.98  Aligned_cols=66  Identities=26%  Similarity=0.385  Sum_probs=58.3

Q ss_pred             CCChHHHHHHHHHhcCCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHHc
Q psy14233          4 DGLVKAFLNEWCQKNSKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRS   75 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~   75 (122)
                      ..||++.|+|+++    .+.|++ ...||.|.+.|.|.|.|||.. +..| |.|||+|++.||+.||+.|...
T Consensus        89 ~~npv~ll~e~~~----~~~~~~~~~~~~~~~~~F~~~~~vdg~~-~~~~-~~sKk~ak~~aa~~al~~l~~~  155 (542)
T KOG2777|consen   89 GKNPVSLLHELAN----GLFFDFVNESGPQHAPKFVMSVVVDGRW-FEGG-GRSKKEAKQEAAMAALQVLFKI  155 (542)
T ss_pred             cCCchHHHHHHhc----ccceeeeccCCCCCCceEEEEEEECCEE-ccCC-CcchHHHHHHHHHHHHHHHHhc
Confidence            4799999999998    688887 478999999999999999985 3445 9999999999999999999753

>KOG0921|consensus

Probab=98.39  E-value=9.1e-07  Score=79.47  Aligned_cols=85  Identities=54%  Similarity=0.917  Sum_probs=77.9

Q ss_pred             CChHHHHHHHHHhcCCCceEEEEeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHHcCCCCCCCCC
Q psy14233          5 GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRSGQVNERDVP   84 (122)
Q Consensus         5 ~n~ks~L~E~~qk~~~~p~Y~~~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~~~~~~~~~p   84 (122)
                      +|-|..|..||.|+...|.|++...++....+|.|.|.+.+..+.+.|...+||+|+..||+..++.|..+|+.+.++.|
T Consensus         1 ~d~k~fly~~~~k~~~~p~~d~~~~~~~~rqrf~ce~~~~~~~~~~~~~stnkKda~knac~dfv~ylvr~Gk~n~~d~p   80 (1282)
T KOG0921|consen    1 RDVKEFLYAWLGKNKYGPTYDIRSEGRKGRQRFLCEVRVEGFGYTAVGNSTNKKDAATNAAQDFCQYLVREGKMQQSDIP   80 (1282)
T ss_pred             CcHHHHHHHHHhhhccCcceehhhhcccchhheeeeeeccCCcceeeecccccchhhHHHHHHHHHHhhhhccccccCCc
Confidence            46789999999999877999999889999999999999998877899999999999999999999999999999999998


Q ss_pred             CCCCC
Q psy14233         85 VENIP   89 (122)
Q Consensus        85 ~~~~~   89 (122)
                      ...+.
T Consensus        81 ~~~s~   85 (1282)
T KOG0921|consen   81 TLTSS   85 (1282)
T ss_pred             ccccc
Confidence            77643

>PF03368 Dicer_dimer: Dicer dimerisation domain; InterPro: IPR005034 This domain is found in members of the Dicer protein family of dsRNA nucleases

Probab=98.30  E-value=8.2e-06  Score=54.56  Aligned_cols=73  Identities=26%  Similarity=0.497  Sum_probs=49.7

Q ss_pred             HHHHHHHHHhc-C-----CCceEEEEeeCCCCCccEEEEEEECC----EEEEEeEeccCHHHHHHHHHHHHHHHHHHcCC
Q psy14233          8 KAFLNEWCQKN-S-----KQPEFDVRAAGPKHRQRFLCELRIAG----IGYVGAGNSTNKKDAQTNAAKDFVQYLVRSGQ   77 (122)
Q Consensus         8 ks~L~E~~qk~-~-----~~p~Y~~~~~Gp~h~~~F~~~V~v~g----~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~~~   77 (122)
                      ++.|+.||++. .     ..|.|.+...+.    .|.|+|.+-.    +.+.|. .-.||+.||+.||-+|+..|.+.|.
T Consensus         2 i~lL~~yC~~Lp~d~~~~~~P~~~~~~~~~----~~~c~v~LP~~~pi~~i~g~-~~~sk~~AK~sAAf~Ac~~L~~~g~   76 (90)
T PF03368_consen    2 ISLLNRYCSTLPSDSFTNLKPEFEIEKIGS----GFICTVILPINSPIRSIEGP-PMRSKKLAKRSAAFEACKKLHEAGE   76 (90)
T ss_dssp             HHHHHHHHTTSSS-TT--SS-EEEEEE--G-----EEEEEE--TT-SS--EEEE---SSHHHHHHHHHHHHHHHHHHH-S
T ss_pred             HHHHHHHHhcCCCCCCccCCceEEEEEcCC----cEEEEEECCCCCCCCeEEcc-ccccHHHHHHHHHHHHHHHHHHcCC
Confidence            57899999996 3     479999876443    8999999732    123455 5689999999999999999999999


Q ss_pred             CCCCCCCC
Q psy14233         78 VNERDVPV   85 (122)
Q Consensus        78 ~~~~~~p~   85 (122)
                      ++..-.|.
T Consensus        77 ldd~L~P~   84 (90)
T PF03368_consen   77 LDDHLLPI   84 (90)
T ss_dssp             -TTTS--H
T ss_pred             CccccCCC
Confidence            88876554

This entry represents a dsRNA-binding domain. RNA interference (RNAi) is an ancient gene-silencing process that plays a fundamental role in diverse eukaryotic functions including viral defence, chromatin remodelling, genome rearrangement, developmental timing, brain morphogenesis, and stem cell maintenance. All RNAi pathways require the multidomain ribonuclease Dicer, which initiates RNAi by cleaving double-stranded RNA (dsRNA) substrates into small fragments ~25 nuleotides in length. A typical eukaryotic Dicer consists of a helicase domain (PDOC51192 from PROSITEDOC), a domain of unknown function, and a PAZ domain (PDOC50821 from PROSITEDOC) at the amino (N)-terminus as well as two ribonuclease III domains (PDOC00448 from PROSITEDOC) and a dsRNA-binding domain (dsRBD) (PDOC50137 from PROSITEDOC) at the carboxy (C)-terminus. The domain of unknown function of ~100 amino acids is predicted to adopt the canonical alpha-beta-beta-beta-alpha-fold found in all dsRBDs [, , , ].; GO: 0016891 endoribonuclease activity, producing 5'-phosphomonoesters; PDB: 2KOU_A.

>KOG3769|consensus

Probab=97.85  E-value=2.3e-05  Score=63.02  Aligned_cols=70  Identities=20%  Similarity=0.300  Sum_probs=61.2

Q ss_pred             CCCChHHHHHHHHHhc-CCCceEEEE-eeC-CCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          3 GDGLVKAFLNEWCQKN-SKQPEFDVR-AAG-PKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         3 ~~~n~ks~L~E~~qk~-~~~p~Y~~~-~~G-p~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      ...+|...|-++|+++ ...|++.+. +.| ....+.|.+.++-|.+ .+|.|.|.|-|.|++.||..||.+|.
T Consensus       230 ql~~P~~~L~~lckr~~l~epe~Rll~esGr~S~~PvyvVgiYs~kk-llGqG~Gesl~~A~e~AA~dAL~k~y  302 (333)
T KOG3769|consen  230 QLQWPRRLLSRLCKRRGLKEPESRLLAESGRNSAEPVYVVGIYSGKK-LLGQGQGESLKLAEEQAARDALIKLY  302 (333)
T ss_pred             cccchHHHHHHHHHHcCCCCchhHHHHHhccCccCceEEEEeecCch-hhccCcchHHHHHHHHHHHHHHHHHH
Confidence            3458999999999999 689999974 444 4678899999998886 58999999999999999999999996

>PF14954 LIX1: Limb expression 1

Probab=95.53  E-value=0.032  Score=43.40  Aligned_cols=67  Identities=25%  Similarity=0.346  Sum_probs=45.6

Q ss_pred             CCChHHHHHHHHHhc-CCCceE---E--EEeeCCCCCccEEEEEEECCEEEEEe-EeccCHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKN-SKQPEF---D--VRAAGPKHRQRFLCELRIAGIGYVGA-GNSTNKKDAQTNAAKDFVQ   70 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~-~~~p~Y---~--~~~~Gp~h~~~F~~~V~v~g~~~~g~-G~G~SKK~Aeq~AA~~Al~   70 (122)
                      ..|-+..|||+=|.. .....+   .  +-+..|...+-|+|-|++-|-.-+|. -.-.||-+|++.||+.||-
T Consensus        20 ~vnvV~~LqeFWq~Kq~r~a~~~~~~lv~YEs~ps~~ppyVcyVTLPGGSCFGnfq~C~tkAEARR~AAKiALm   93 (252)
T PF14954_consen   20 DVNVVEALQEFWQMKQSRGADLKSEALVVYESVPSPSPPYVCYVTLPGGSCFGNFQNCPTKAEARRSAAKIALM   93 (252)
T ss_pred             cchHHHHHHHHHHHHHhccccCCCCCeeeeeccCCCCCCeEEEEeCCCCCccCccccCCcHHHHHhhhHHHHHH
Confidence            357889999987765 211111   1  12556778889999999965211222 3457999999999999984

>KOG2334|consensus

Probab=93.62  E-value=0.024  Score=47.90  Aligned_cols=68  Identities=22%  Similarity=0.192  Sum_probs=56.6

Q ss_pred             CCCChHHHHHHHHHhc-CCCceEEEEeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          3 GDGLVKAFLNEWCQKN-SKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         3 ~~~n~ks~L~E~~qk~-~~~p~Y~~~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      +...||..|..||-+. ...|.|++...   -++.|.+.+.++|+.+...=+-.+||-|+|.||..+|..+.
T Consensus       373 ~~~~~k~~l~~~~~~~~~~~~~ye~~~~---~d~lf~si~~~~~~~~~ssi~~~n~k~aeq~aa~~~l~~s~  441 (477)
T KOG2334|consen  373 KWDTPKMVLADLCVKTKANGPVYETVQR---TDKLFSSIATARGQKYNSSIWSPNKKSAEQDAAIVALRKSN  441 (477)
T ss_pred             CCCCHHHHHHHhhhhhcCCCcchhhhhh---hhhhhHHHhhhhhhhhhccccCcchhhHHHHHHHHHHHhcC
Confidence            3468999999999998 78999998763   57789999999998655555668999999999999988764

>KOG3792|consensus

Probab=91.05  E-value=0.24  Score=44.33  Aligned_cols=62  Identities=23%  Similarity=0.218  Sum_probs=48.1

Q ss_pred             CChHHHHHHHHHhcCCCceEEE-EeeC-CCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHH
Q psy14233          5 GLVKAFLNEWCQKNSKQPEFDV-RAAG-PKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYL   72 (122)
Q Consensus         5 ~n~ks~L~E~~qk~~~~p~Y~~-~~~G-p~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L   72 (122)
                      +++...|+|-    ..--.|++ .+.| -.|.++|+..|.++|+  .+.|-+.+|+-|+..||.-|++.+
T Consensus       506 K~vsd~L~Ek----~rg~k~El~set~~gs~~~R~v~gV~rvG~--~akG~~~~gd~a~~~a~Lca~~pt  569 (816)
T KOG3792|consen  506 KLVSDELAEK----RRGDKYELPSETGTGSHDKRFVKGVMRVGI--LAKGLLLNGDRAVELALLCAEKPT  569 (816)
T ss_pred             cchhHHHhhh----ccccceecccccCCCCCCceeeeeeeeeeh--hhccccccchHHHHHHHHhccCcc
Confidence            4555556554    23456776 3444 6899999999999996  589999999999999999888755

>KOG2777|consensus

Probab=89.12  E-value=0.24  Score=42.93  Aligned_cols=49  Identities=20%  Similarity=0.416  Sum_probs=41.9

Q ss_pred             CCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHHc
Q psy14233         20 KQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRS   75 (122)
Q Consensus        20 ~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~   75 (122)
                      ..+.|.. .+.||.|.+.|.+.|.|+|..+  .     ||.|+..||+.|++.+...
T Consensus         8 ~~~~~~~~~q~~p~~~p~~~~~~~v~~~~~--~-----~k~~~~~~a~~~~~~~~~~   57 (542)
T KOG2777|consen    8 PGLQYNLVSQTGPVHAPLFPFSVEVNGQEF--P-----KKKAKQRAAEKALRVFLQF   57 (542)
T ss_pred             cccccccccccCCCCCCcccceEEeccccc--c-----cccccchhhhHHHHHHhhc
Confidence            3478875 5889999999999999999752  2     9999999999999999753

>KOG4334|consensus

Probab=88.88  E-value=2.4  Score=36.86  Aligned_cols=66  Identities=14%  Similarity=0.146  Sum_probs=45.6

Q ss_pred             CCChHHHHHHHHHhc--CCCceEEEEeeC-CCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKN--SKQPEFDVRAAG-PKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~--~~~p~Y~~~~~G-p~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      .-.|-..|.+..+++  |.......+..| ......|++.  + |+ ....+...+|++++|.|.+..|+.|.
T Consensus       489 ~psPy~iL~~cl~Rn~g~~d~~ik~E~i~~~nqkse~im~--~-Gk-ht~~~~cknkr~gkQlASQ~ilq~lH  557 (650)
T KOG4334|consen  489 IPSPYNILRDCLSRNLGWNDLVIKKEMIGNGNQKSEVIMI--L-GK-HTEEAECKNKRQGKQLASQRILQKLH  557 (650)
T ss_pred             CCCHHHHHHHHHHhhcCCcceeeeeeccCCCCccceeEee--e-cc-ceeeeeeechhHHHHHHHHHHHHHhC
Confidence            346778899999888  444444433222 2344445543  3 54 36889999999999999999999874

>PF02169 LPP20: LPP20 lipoprotein; InterPro: IPR002217 A major antigen has been recognised in Helicobacter pylori, a protein with an apparent molecular weight of 20,000 and mass 18,283 kDa []

Probab=88.53  E-value=0.43  Score=30.80  Aligned_cols=27  Identities=11%  Similarity=0.293  Sum_probs=22.8

Q ss_pred             EEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233         47 GYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus        47 ~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      .++|.|.|.+.+.|++.|-..+.+.|.
T Consensus        13 ~l~a~G~~~~~~~A~~~A~~~la~~i~   39 (92)
T PF02169_consen   13 YLYAVGSGSSREQAKQDALANLAEQIS   39 (92)
T ss_pred             EEEEEEcccChHHHHHHHHHHHHHhee
Confidence            368999999999999988888888774

DNA sequence analysis revealed a 525 bp gene, encoding a 175-amino acid residue product with a typical 21-residue lipoprotein signal peptide and consensus prolipoprotein processing site []. Results of experimental work with Lpp20 are consistent with it being a nonessential lipoprotein []. Prokaryotic membrane lipoproteins are synthesised with precursor signal peptides that are cleaved by specific peptidases (signal peptidase II). The enzyme recognises a conserved sequence, cutting upstream of a cysteine residue to which a glyceride-fatty acid lipid is attached [].; GO: 0009279 cell outer membrane

>KOG0921|consensus

Probab=86.72  E-value=0.26  Score=45.53  Aligned_cols=70  Identities=30%  Similarity=0.362  Sum_probs=59.4

Q ss_pred             CChHHHHHHHHHhcCCCceEEEEeeCCCCCccEEEEEEEC----CEEEEEeEeccCHHHHHHHHHHHHHHHHHH
Q psy14233          5 GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIA----GIGYVGAGNSTNKKDAQTNAAKDFVQYLVR   74 (122)
Q Consensus         5 ~n~ks~L~E~~qk~~~~p~Y~~~~~Gp~h~~~F~~~V~v~----g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~   74 (122)
                      .|.|..|+++-|+......|+....|++|.+.|+.+..+-    .....+.+.|++||.|...+|...+..|..
T Consensus       167 eN~K~~ln~~~q~~~~~~~y~~~~~g~~~~~s~~~e~si~v~~~~~~~~~~~~gsnkk~~~~~ca~s~vrqm~h  240 (1282)
T KOG0921|consen  167 ENAKKALNEYLQKMRIQDNYKYTIVGPEHVRSFEAEASIYVPQLNRNLVAKETGSNKKVAEASCALSLVRQLFH  240 (1282)
T ss_pred             chhHHHHhHHHhhhhhccccceeecCCccccchhhhHHHhhhhhchhhhhhhccccceecCcchHHHHHHHHHH
Confidence            5889999999999966999999989999999999987752    222358899999999999999998888763

>KOG3792|consensus

Probab=83.14  E-value=0.71  Score=41.41  Aligned_cols=64  Identities=22%  Similarity=0.253  Sum_probs=48.3

Q ss_pred             ChHHHHHHHHHhcCCCceEE------E-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHH
Q psy14233          6 LVKAFLNEWCQKNSKQPEFD------V-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYL   72 (122)
Q Consensus         6 n~ks~L~E~~qk~~~~p~Y~------~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L   72 (122)
                      |+...+.-+-+. +....|+      + ...+|.|.++|+.+|.+||..  ....|.|||.|+-.||..-|+..
T Consensus       371 d~nak~mhl~gr-RhrLQYk~kv~p~Lvv~t~P~~~~~~t~e~r~~~~~--~~a~gps~~~~~wh~~~k~lq~~  441 (816)
T KOG3792|consen  371 DPNAKEMHLKGR-RHRLQYKQKVDPDLVVDTKPSHRPRRTMEVRVNGLP--AEAEGPSKKTAKWHAARKRLQNE  441 (816)
T ss_pred             CcchHHhhhhcc-cccceeccccCCCceeccCCcccchhhhhhhhcCCc--cccCCcccccchHHHHHHHhhcc
Confidence            344444433332 3456776      4 578999999999999999975  56668999999999999888876

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	122
1whq_A	99	Solution Structure Of The N-Terminal Dsrbd From Hyp		2e-25
3vyy_A	91	Structural Insights Into Risc Assembly Facilitated		3e-22
2ez6_A	221	Crystal Structure Of Aquifex Aeolicus Rnase Iii (d4		5e-04
1yyk_A	221	Crystal Structure Of Rnase Iii From Aquifex Aeolicu		5e-04
1yz9_A	221	Crystal Structure Of Rnase Iii Mutant E110q From Aq		6e-04
1yyo_A	221	Crystal Structure Of Rnase Iii Mutant E110k From Aq		6e-04
1rc7_A	220	Crystal Structure Of Rnase Iii Mutant E110k From Aq		6e-04

>pdb|1WHQ|A Chain A, Solution Structure Of The N-Terminal Dsrbd From Hypothetical Protein Bab28848 Length = 99

Iteration: 1
 Score =  110 bits (275), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 50/95 (52%), Positives = 64/95 (67%)
Query: 2  SGDGLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQ 61
          SG   +K FL  WC K    P +++RA G K+RQ+F+CE+R+ G  Y G GNSTNKKDAQ
Sbjct: 3  SGSSGIKNFLYAWCGKRKMTPAYEIRAVGNKNRQKFMCEVRVEGFNYAGMGNSTNKKDAQ 62
Query: 62 TNAAKDFVQYLVRSGQVNERDVPVENIPMTPTGPS 96
          +NAA+DFV YLVR  +V   +VP   I   P+GPS
Sbjct: 63 SNAARDFVNYLVRINEVKSEEVPAVGIVPPPSGPS 97

>pdb|3VYY|A Chain A, Structural Insights Into Risc Assembly Facilitated By Dsrna Binding Domains Of Human Rna Helicase A (dhx9) Length = 91

Iteration: 1
 Score =  100 bits (248), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 44/88 (50%), Positives = 59/88 (67%)
Query: 5  GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNA 64
          G VK FL  WC K    P +++RA G K+RQ+F+CE+++ G  Y G GNSTNKKDAQ+NA
Sbjct: 2  GDVKNFLYAWCGKRKMTPSYEIRAVGNKNRQKFMCEVQVEGYNYTGMGNSTNKKDAQSNA 61
Query: 65 AKDFVQYLVRSGQVNERDVPVENIPMTP 92
          A+DFV YLVR  ++   +VP   +   P
Sbjct: 62 ARDFVNYLVRINEIKSEEVPAFGVASPP 89

>pdb|2EZ6|A Chain A, Crystal Structure Of Aquifex Aeolicus Rnase Iii (d44n) Complexed With Product Of Double-stranded Rna Processing Length = 221

Iteration: 1
 Score = 39.3 bits (90), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 24/70 (34%), Positives = 39/70 (55%), Gaps = 4/70 (5%)
Query: 8   KAFLNEWCQKNSKQ-PEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAA 65
           K  L E  QK  K+ PE+  +   GP H+++F+ E +I     +G G S  KK+A+  AA
Sbjct: 153 KTILQEITQKRWKERPEYRLISVEGPHHKKKFIVEAKIKEYRTLGEGKS--KKEAEQRAA 210
Query: 66  KDFVQYLVRS 75
           ++ ++ L  S
Sbjct: 211 EELIKLLEES 220

>pdb|1YYK|A Chain A, Crystal Structure Of Rnase Iii From Aquifex Aeolicus Complexed With Double-Stranded Rna At 2.5-Angstrom Resolution Length = 221

Iteration: 1
 Score = 39.3 bits (90), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 24/70 (34%), Positives = 39/70 (55%), Gaps = 4/70 (5%)
Query: 8   KAFLNEWCQKNSKQ-PEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAA 65
           K  L E  QK  K+ PE+  +   GP H+++F+ E +I     +G G S  KK+A+  AA
Sbjct: 153 KTILQEITQKRWKERPEYRLISVEGPHHKKKFIVEAKIKEYRTLGEGKS--KKEAEQRAA 210
Query: 66  KDFVQYLVRS 75
           ++ ++ L  S
Sbjct: 211 EELIKLLEES 220

>pdb|1YZ9|A Chain A, Crystal Structure Of Rnase Iii Mutant E110q From Aquifex Aeolicus Complexed With Double Stranded Rna At 2.1- Angstrom Resolution Length = 221

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 24/70 (34%), Positives = 39/70 (55%), Gaps = 4/70 (5%)
Query: 8   KAFLNEWCQKNSKQ-PEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAA 65
           K  L E  QK  K+ PE+  +   GP H+++F+ E +I     +G G S  KK+A+  AA
Sbjct: 153 KTILQEITQKRWKERPEYRLISVEGPHHKKKFIVEAKIKEYRTLGEGKS--KKEAEQRAA 210
Query: 66  KDFVQYLVRS 75
           ++ ++ L  S
Sbjct: 211 EELIKLLEES 220

>pdb|1YYO|A Chain A, Crystal Structure Of Rnase Iii Mutant E110k From Aquifex Aeolicus Complexed With Double-stranded Rna At 2.9- Angstrom Resolution Length = 221

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 24/70 (34%), Positives = 39/70 (55%), Gaps = 4/70 (5%)
Query: 8   KAFLNEWCQKNSKQ-PEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAA 65
           K  L E  QK  K+ PE+  +   GP H+++F+ E +I     +G G S  KK+A+  AA
Sbjct: 153 KTILQEITQKRWKERPEYRLISVEGPHHKKKFIVEAKIKEYRTLGEGKS--KKEAEQRAA 210
Query: 66  KDFVQYLVRS 75
           ++ ++ L  S
Sbjct: 211 EELIKLLEES 220

>pdb|1RC7|A Chain A, Crystal Structure Of Rnase Iii Mutant E110k From Aquifex Aeolicus Complexed With Ds-Rna At 2.15 Angstrom Resolution Length = 220

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 24/70 (34%), Positives = 39/70 (55%), Gaps = 4/70 (5%)
Query: 8   KAFLNEWCQKNSKQ-PEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAA 65
           K  L E  QK  K+ PE+  +   GP H+++F+ E +I     +G G S  KK+A+  AA
Sbjct: 153 KTILQEITQKRWKERPEYRLISVEGPHHKKKFIVEAKIKEYRTLGEGKS--KKEAEQRAA 210
Query: 66  KDFVQYLVRS 75
           ++ ++ L  S
Sbjct: 211 EELIKLLEES 220

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	122
1whq_A	99	RNA helicase A; double-stranded RNA binding domain	3e-39
2l2n_A	103	Hyponastic leave 1; DSRBD, miRNA, RNA binding prot	1e-14
2dix_A	84	Interferon-inducible double stranded RNA- dependen	2e-14
1uil_A	113	Double-stranded RNA-binding motif; structural geno	2e-14
1x49_A	97	Interferon-induced, double-stranded RNA- activated	5e-14
3llh_A	90	RISC-loading complex subunit tarbp2; DSRBD, DSRM,	9e-14
1ekz_A	76	DSRBDIII, maternal effect protein (staufen); struc	3e-13
3adj_A	76	F21M12.9 protein; HYL1, miRNA processing, RNA bind	2e-12
3adl_A	88	RISC-loading complex subunit tarbp2; TRBP2, miRNA	3e-12
3adg_A	73	F21M12.9 protein; HYL1, miRNA processing mechanism	3e-12
1di2_A	69	XLRBPA, double stranded RNA binding protein A; pro	4e-12
1uhz_A	89	Staufen (RNA binding protein) homolog 2; DSRM, sta	2e-11
2cpn_A	89	TAR RNA-binding protein 2; double-stranded RNA bin	1e-10
1qu6_A	179	Protein kinase PKR; dsRNA-binding domain, solution	2e-10
1qu6_A	179	Protein kinase PKR; dsRNA-binding domain, solution	4e-10
2nug_A	221	Ribonuclease III, RNAse III; dsRNA, RNA interferen	4e-10
1whn_A	128	Hypothetical protein riken cDNA 2310016K04; double	2e-09
1x47_A	98	DGCR8 protein; structural genomics, DSRM domain, N	8e-09
2a11_A	242	Ribonuclease III, RNAse III; nuclease domain, stru	1e-08
1x48_A	88	Interferon-induced, double-stranded RNA- activated	3e-08
2khx_A	85	Ribonuclease 3; drosha, RNA binding domain, hydrol	3e-08
3c4b_A	265	Endoribonuclease dicer; RNAse, dsRNA binding prote	4e-08
2yt4_A	232	Protein DGCR8; DSRBD, RNA binding domain, RNA bind	4e-08
2yt4_A	232	Protein DGCR8; DSRBD, RNA binding domain, RNA bind	4e-05
3n3w_A	248	Ribonuclease III; nuclease domain, ribonuclase III	4e-08
2b7v_A	71	Double-stranded RNA-specific editase 1; RNA editin	4e-08
2dmy_A	97	Spermatid perinuclear RNA-binding protein; DSRM do	9e-08
3p1x_A	75	Interleukin enhancer-binding factor 3; structural	2e-07
1o0w_A	252	Ribonuclease III, RNAse III; TM1102, structural ge	2e-07
2ljh_A	114	Double-stranded RNA-specific editase ADAR; DSRBD,	6e-07
2b7t_A	73	Double-stranded RNA-specific editase 1; RNA editin	6e-07
2l3j_A	236	Double-stranded RNA-specific editase 1; editing, d	7e-07
2l3j_A	236	Double-stranded RNA-specific editase 1; editing, d	4e-06
3rv0_A	341	K. polysporus DCR1; RNAse III enzyme, RNA binding	4e-06
2l33_A	91	Interleukin enhancer-binding factor 3; structural	4e-06
1t4o_A	117	Ribonuclease III; RNT1P, DSRBD, RNA-binding, hydro	8e-05
1t4n_A	94	Ribonuclease III; DSRBD, RNA-binding, hydrolase; N	7e-04
2qvw_A	756	GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral	8e-04

>1whq_A RNA helicase A; double-stranded RNA binding domain, DSRBD, DSRM, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Mus musculus} SCOP: d.50.1.1 PDB: 2rs6_A Length = 99

 Score =  126 bits (317), Expect = 3e-39
 Identities = 48/90 (53%), Positives = 62/90 (68%)

Query: 7  VKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAK 66
          +K FL  WC K    P +++RA G K+RQ+F+CE+R+ G  Y G GNSTNKKDAQ+NAA+
Sbjct: 8  IKNFLYAWCGKRKMTPAYEIRAVGNKNRQKFMCEVRVEGFNYAGMGNSTNKKDAQSNAAR 67

Query: 67 DFVQYLVRSGQVNERDVPVENIPMTPTGPS 96
          DFV YLVR  +V   +VP   I   P+GPS
Sbjct: 68 DFVNYLVRINEVKSEEVPAVGIVPPPSGPS 97

>2l2n_A Hyponastic leave 1; DSRBD, miRNA, RNA binding protein, plant protein; NMR {Arabidopsis thaliana} Length = 103

 Score = 63.7 bits (155), Expect = 1e-14
 Identities = 19/79 (24%), Positives = 39/79 (49%), Gaps = 1/79 (1%)

Query: 8  KAFLNEWCQKNSKQ-PEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAK 66
          K+ L E+ QK     P +++   GP H+  F   + + G+ Y       N+K A+ +AA+
Sbjct: 20 KSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNSLPGFFNRKAAEQSAAE 79

Query: 67 DFVQYLVRSGQVNERDVPV 85
            ++ L +S ++++     
Sbjct: 80 VALRELAKSSELSQCVSQP 98

>2dix_A Interferon-inducible double stranded RNA- dependent protein kinase activator A; structure genomics, DSRM domain, hypothetical protein PRKRA; NMR {Homo sapiens} SCOP: d.50.1.1 Length = 84

 Score = 62.3 bits (152), Expect = 2e-14
 Identities = 17/66 (25%), Positives = 27/66 (40%), Gaps = 3/66 (4%)

Query: 8  KAFLNEWCQKNSKQPEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAK 66
             L+E+  K    P ++  R+    H   F   + +  I   G G S  KK A+  AA+
Sbjct: 11 IQVLHEYGMKTKNIPVYECERSDVQIHVPTFTFRVTVGDITCTGEGTS--KKLAKHRAAE 68

Query: 67 DFVQYL 72
            +  L
Sbjct: 69 AAINIL 74

>1uil_A Double-stranded RNA-binding motif; structural genomics, DSRM, riken structural genomics/proteomics initiative, RSGI RNA binding protein; NMR {Mus musculus} SCOP: d.50.1.1 PDB: 2rs7_A Length = 113

 Score = 63.2 bits (153), Expect = 2e-14
 Identities = 23/73 (31%), Positives = 33/73 (45%), Gaps = 4/73 (5%)

Query: 8   KAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRI----AGIGYVGAGNSTNKKDAQTN 63
           KA LN++ QK   Q E+     GP H + F+ E+ I     G       + +NKK A  +
Sbjct: 29  KARLNQYFQKEKIQGEYKYTQVGPDHNRSFIAEMTIYIKQLGRRIFAREHGSNKKLAAQS 88

Query: 64  AAKDFVQYLVRSG 76
            A   V+ L   G
Sbjct: 89  CALSLVRQLYHLG 101

>1x49_A Interferon-induced, double-stranded RNA- activated protein kinase; structure genomics, DSRM domain, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.50.1.1 Length = 97

 Score = 62.0 bits (151), Expect = 5e-14
 Identities = 17/76 (22%), Positives = 34/76 (44%), Gaps = 2/76 (2%)

Query: 8  KAFLNEWCQKNSKQPEF-DVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAK 66
             LN++ Q +     + ++  +GP H +RF  ++ I    +       +K++A+  AAK
Sbjct: 17 MDKLNKYRQMHGVAITYKELSTSGPPHDRRFTFQVLIDEKEF-PEAKGRSKQEARNAAAK 75

Query: 67 DFVQYLVRSGQVNERD 82
            V  L    +V+   
Sbjct: 76 LAVDILDNENKVDCHT 91

>3llh_A RISC-loading complex subunit tarbp2; DSRBD, DSRM, microrna, RNA binding protein; 2.14A {Homo sapiens} Length = 90

 Score = 60.8 bits (148), Expect = 9e-14
 Identities = 18/74 (24%), Positives = 33/74 (44%), Gaps = 3/74 (4%)

Query: 8  KAFLNEWCQKNSKQPEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAK 66
           + L E+  +  K P +D ++A G  H+  F   + +      G G S  KK A+  AA+
Sbjct: 17 ISLLQEYGTRIGKTPVYDLLKAEGQAHQPNFTFRVTVGDTSCTGQGPS--KKAAKHKAAE 74

Query: 67 DFVQYLVRSGQVNE 80
            +++L     +  
Sbjct: 75 VALKHLKGGSMLEP 88

>1ekz_A DSRBDIII, maternal effect protein (staufen); structure, protein/RNA, protein DSRBD, RNA hairpin; NMR {Drosophila melanogaster} SCOP: d.50.1.1 PDB: 1stu_A Length = 76

 Score = 59.3 bits (144), Expect = 3e-13
 Identities = 17/66 (25%), Positives = 29/66 (43%), Gaps = 3/66 (4%)

Query: 8  KAFLNEWCQKNSKQPEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAK 66
           + ++E   K +    F  +R  GP H + F+    +  I   G GN   KK ++  AA+
Sbjct: 10 ISQVHEIGIKRNMTVHFKVLREEGPAHMKNFITACIVGSIVTEGEGNG--KKVSKKRAAE 67

Query: 67 DFVQYL 72
            +  L
Sbjct: 68 KMLVEL 73

>3adj_A F21M12.9 protein; HYL1, miRNA processing, RNA binding protein, gene regulation; 3.00A {Arabidopsis thaliana} PDB: 2l2m_A Length = 76

 Score = 57.3 bits (139), Expect = 2e-12
 Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 5/71 (7%)

Query: 5  GLVKAFLNEWCQKNSK-QPEFD-VRAAGPKHRQRFLCELRIAGIGYVGA-GNSTNKKDAQ 61
          GL K  L E+ QK +   P +   +        +F C + I GI Y GA   +  KKDA+
Sbjct: 4  GLCKNLLQEYAQKMNYAIPLYQCQKVETLGRVTQFTCTVEIGGIKYTGAATRT--KKDAE 61

Query: 62 TNAAKDFVQYL 72
           +A +  +  +
Sbjct: 62 ISAGRTALLAI 72

>3adl_A RISC-loading complex subunit tarbp2; TRBP2, miRNA processing, gene regulation-RNA complex; 2.20A {Homo sapiens} Length = 88

 Score = 56.9 bits (138), Expect = 3e-12
 Identities = 20/67 (29%), Positives = 32/67 (47%), Gaps = 4/67 (5%)

Query: 8  KAFLNEWCQKNSKQ-PEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAA 65
             L E   +   + PE+ V + +GP HR+ F    R+     +G+G S  KK A+ NAA
Sbjct: 18 VGALQELVVQKGWRLPEYTVTQESGPAHRKEFTMTCRVERFIEIGSGTS--KKLAKRNAA 75

Query: 66 KDFVQYL 72
             +  +
Sbjct: 76 AKMLLRV 82

>3adg_A F21M12.9 protein; HYL1, miRNA processing mechanism, RNA binding protein, gene regulation; 1.70A {Arabidopsis thaliana} PDB: 3adi_A Length = 73

 Score = 56.5 bits (137), Expect = 3e-12
 Identities = 18/66 (27%), Positives = 33/66 (50%), Gaps = 1/66 (1%)

Query: 8  KAFLNEWCQKNSKQ-PEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAK 66
          K+ L E+ QK     P +++   GP H+  F   + + G+ Y       N+K A+ +AA+
Sbjct: 6  KSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNSLPGFFNRKAAEQSAAE 65

Query: 67 DFVQYL 72
            ++ L
Sbjct: 66 VALREL 71

>1di2_A XLRBPA, double stranded RNA binding protein A; protein-RNA complex, protein-RNA interactions, RNA-bining protein; 1.90A {Xenopus laevis} SCOP: d.50.1.1 Length = 69

 Score = 56.0 bits (136), Expect = 4e-12
 Identities = 17/67 (25%), Positives = 30/67 (44%), Gaps = 4/67 (5%)

Query: 8  KAFLNEWCQKNSKQ-PEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAA 65
             L E   +   + PE+ V + +GP H++ F    R+      G+G S  K+ A+  AA
Sbjct: 3  VGSLQELAVQKGWRLPEYTVAQESGPPHKREFTITCRVETFVETGSGTS--KQVAKRVAA 60

Query: 66 KDFVQYL 72
          +  +   
Sbjct: 61 EKLLTKF 67

>1uhz_A Staufen (RNA binding protein) homolog 2; DSRM, staufen homolog 2, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.50.1.1 Length = 89

 Score = 54.6 bits (132), Expect = 2e-11
 Identities = 15/67 (22%), Positives = 32/67 (47%), Gaps = 4/67 (5%)

Query: 8  KAFLNEWCQKNSKQ-PEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAA 65
           + L +  Q   ++ P++  +   G   R+ F+ ++++      G G +  KK A+ NAA
Sbjct: 9  ISRLAQIQQARKEKEPDYILLSERGMPRRREFVMQVKVGNEVATGTGPN--KKIAKKNAA 66

Query: 66 KDFVQYL 72
          +  +  L
Sbjct: 67 EAMLLQL 73

>2cpn_A TAR RNA-binding protein 2; double-stranded RNA binding domain, DSRBD, DSRM., structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.50.1.1 Length = 89

 Score = 53.1 bits (128), Expect = 1e-10
 Identities = 20/67 (29%), Positives = 32/67 (47%), Gaps = 4/67 (5%)

Query: 8  KAFLNEWCQKNSKQ-PEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAA 65
             L E   +   + PE+ V + +GP HR+ F    R+     +G+G S  KK A+ NAA
Sbjct: 19 VGALQELVVQKGWRLPEYTVTQESGPAHRKEFTMTCRVERFIEIGSGTS--KKLAKRNAA 76

Query: 66 KDFVQYL 72
             +  +
Sbjct: 77 AKMLLRV 83

>1qu6_A Protein kinase PKR; dsRNA-binding domain, solution structure, transferase; NMR {Homo sapiens} SCOP: d.50.1.1 d.50.1.1 Length = 179

 Score = 54.5 bits (131), Expect = 2e-10
 Identities = 20/66 (30%), Positives = 34/66 (51%), Gaps = 2/66 (3%)

Query: 8  KAFLNEWCQKNSKQPEF-DVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAK 66
             LN + QK     ++ ++  +GP H +RF  ++ I G  +   G   +KK+A+  AAK
Sbjct: 16 MEELNTYRQKQGVVLKYQELPNSGPPHDRRFTFQVIIDGREF-PEGEGRSKKEAKNAAAK 74

Query: 67 DFVQYL 72
            V+ L
Sbjct: 75 LAVEIL 80

>1qu6_A Protein kinase PKR; dsRNA-binding domain, solution structure, transferase; NMR {Homo sapiens} SCOP: d.50.1.1 d.50.1.1 Length = 179

 Score = 53.4 bits (128), Expect = 4e-10
 Identities = 13/59 (22%), Positives = 25/59 (42%), Gaps = 1/59 (1%)

Query: 8   KAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAK 66
              +N   QK      ++  A+G    + F  + ++    Y   G  + K++A+  AAK
Sbjct: 107 IGLINRIAQKKRLTVNYEQCASGVHGPEGFHYKCKMGQKEY-SIGTGSTKQEAKQLAAK 164

>2nug_A Ribonuclease III, RNAse III; dsRNA, RNA interference, endonucleolytic cleavage, hydrolase/RNA complex; 1.70A {Aquifex aeolicus} SCOP: a.149.1.1 d.50.1.1 PDB: 1yyw_A 2nue_A 2nuf_A 1yyk_A 1yz9_A 1yyo_A 2ez6_A 1rc7_A 1i4s_A 1jfz_A 1rc5_A Length = 221

 Score = 54.1 bits (131), Expect = 4e-10
 Identities = 23/67 (34%), Positives = 38/67 (56%), Gaps = 4/67 (5%)

Query: 8   KAFLNEWCQKNSKQ-PEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAA 65
           K  L E  QK  K+ PE+ +    GP H+++F+ E +I     +G G S  KK+A+  AA
Sbjct: 153 KTILQEITQKRWKERPEYRLISVEGPHHKKKFIVEAKIKEYRTLGEGKS--KKEAEQRAA 210

Query: 66  KDFVQYL 72
           ++ ++ L
Sbjct: 211 EELIKLL 217

>1whn_A Hypothetical protein riken cDNA 2310016K04; double-stranded RNA binding domain, DSRBD, DSRM, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.50.1.1 Length = 128

 Score = 50.7 bits (121), Expect = 2e-09
 Identities = 14/66 (21%), Positives = 25/66 (37%), Gaps = 3/66 (4%)

Query: 8  KAFLNEWCQKNSKQ-PEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAK 66
          K  L EWC++     P ++         + F   + +A   Y       +KK A+  AA 
Sbjct: 29 KMCLLEWCRREKLPQPVYETVQRT--IDRMFCSVVTVAEQKYQSTLWDKSKKLAEQTAAI 86

Query: 67 DFVQYL 72
            ++  
Sbjct: 87 VCLRSQ 92

>1x47_A DGCR8 protein; structural genomics, DSRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.50.1.1 Length = 98

 Score = 48.3 bits (115), Expect = 8e-09
 Identities = 16/66 (24%), Positives = 31/66 (46%), Gaps = 1/66 (1%)

Query: 8  KAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKD 67
             L+E+ Q+  K              + F   + I G+ Y G+G +++KK A+  AA+ 
Sbjct: 19 VCILHEYMQRVLKVRPVYNFFECENPSEPFGASVTIDGVTY-GSGTASSKKLAKNKAARA 77

Query: 68 FVQYLV 73
           ++ L+
Sbjct: 78 TLEILI 83

>2a11_A Ribonuclease III, RNAse III; nuclease domain, structural genomic protein structure initiative; 2.10A {Mycobacterium tuberculosis} Length = 242

 Score = 49.9 bits (120), Expect = 1e-08
 Identities = 18/66 (27%), Positives = 28/66 (42%), Gaps = 2/66 (3%)

Query: 8   KAFLNEWCQKNSKQ-PEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAK 66
           K  L E         P + V + GP H + F   + +    Y G+G   +KK+A+  AA 
Sbjct: 165 KTSLQELTAARGLGAPSYLVTSTGPDHDKEFTAVVVVMDSEY-GSGVGRSKKEAEQKAAA 223

Query: 67  DFVQYL 72
              + L
Sbjct: 224 AAWKAL 229

>1x48_A Interferon-induced, double-stranded RNA- activated protein kinase; structure genomics, DSRM domain, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.50.1.1 Length = 88

 Score = 47.0 bits (111), Expect = 3e-08
 Identities = 19/65 (29%), Positives = 34/65 (52%), Gaps = 1/65 (1%)

Query: 11 LNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQ 70
          +N + QK      ++      +  QRF+C+ +I    Y G G+   K++A+  AAK+  Q
Sbjct: 12 VNSFAQKKKLSVNYEQCEPNSELPQRFICKCKIGQTMY-GTGSGVTKQEAKQLAAKEAYQ 70

Query: 71 YLVRS 75
           L++S
Sbjct: 71 KLLKS 75

>2khx_A Ribonuclease 3; drosha, RNA binding domain, hydrolase, gene regulation, NUCL protein, gene regulation,nuclear protein; NMR {Homo sapiens} Length = 85

 Score = 46.6 bits (111), Expect = 3e-08
 Identities = 13/72 (18%), Positives = 27/72 (37%), Gaps = 8/72 (11%)

Query: 8  KAFLNEWCQKNSKQPEFD-------VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDA 60
          K+ L + C     + +         ++  GP H + +   +   G    G G   + + A
Sbjct: 4  KSQLQQCCLTLRTEGKEPDIPLYKTLQTVGPSHARTYTVAVYFKGERI-GCGKGPSIQQA 62

Query: 61 QTNAAKDFVQYL 72
          +  AA D ++  
Sbjct: 63 EMGAAMDALEKY 74

>3c4b_A Endoribonuclease dicer; RNAse, dsRNA binding protein, ATP-binding, endonuclease, HEL hydrolase, nucleotide-binding, phosphoprotein, RN binding; HET: MSE; 1.68A {Mus musculus} PDB: 3c4t_A 2eb1_A Length = 265

 Score = 49.0 bits (117), Expect = 4e-08
 Identities = 11/66 (16%), Positives = 27/66 (40%), Gaps = 5/66 (7%)

Query: 8   KAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGY-VGAGNSTNKKDAQTNAAK 66
           ++ + E  +   +  +F        +  +    + + G G   G G S   + A++ AA+
Sbjct: 200 RSPVRELLEMEPETAKFSPA--ERTYDGKVRVTVEVVGKGKFKGVGRS--YRIAKSAAAR 255

Query: 67  DFVQYL 72
             ++ L
Sbjct: 256 RALRSL 261

>2yt4_A Protein DGCR8; DSRBD, RNA binding domain, RNA binding protein; 2.60A {Homo sapiens} Length = 232

 Score = 48.6 bits (115), Expect = 4e-08
 Identities = 18/115 (15%), Positives = 45/115 (39%), Gaps = 1/115 (0%)

Query: 8   KAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKD 67
              L+E+ Q+  K              + F   + I G+ Y G+G +++KK A+  AA+ 
Sbjct: 25  VCILHEYMQRVLKVRPVYNFFECENPSEPFGASVTIDGVTY-GSGTASSKKLAKNKAARA 83

Query: 68  FVQYLVRSGQVNERDVPVENIPMTPTGPSVTVNTSKRFSFIRRSSIGLPRSYEQQ 122
            ++ L+        +   ++         +++  S+ +    ++ +  P     +
Sbjct: 84  TLEILIPDFVKQTSEEKPKDSEELEYFNHISIEDSRVYELTSKAGLLSPYQILHE 138

>2yt4_A Protein DGCR8; DSRBD, RNA binding domain, RNA binding protein; 2.60A {Homo sapiens} Length = 232

 Score = 40.1 bits (93), Expect = 4e-05
 Identities = 11/63 (17%), Positives = 23/63 (36%), Gaps = 3/63 (4%)

Query: 11  LNEWCQKNSKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFV 69
           L+E  ++N    +  +     P   Q+    +        G     NK+  +  A++  +
Sbjct: 136 LHECLKRNHGMGDTSIKFEVVPGKNQKSEYVMACGKHTVRGWCK--NKRVGKQLASQKIL 193

Query: 70  QYL 72
           Q L
Sbjct: 194 QLL 196

>3n3w_A Ribonuclease III; nuclease domain, ribonuclase III, IDP90862, csgid, structura genomics; 2.21A {Campylobacter jejuni subsp} Length = 248

 Score = 48.7 bits (117), Expect = 4e-08
 Identities = 24/68 (35%), Positives = 33/68 (48%), Gaps = 5/68 (7%)

Query: 8   KAFLNEWCQKNSKQ-PEFD-VRAAGPKHRQRFLCELRIAGIGYV-GAGNSTNKKDAQTNA 64
           K  L E  Q    Q P+++ VRA GP H ++F   L + G         S  KK+AQ  A
Sbjct: 180 KTKLQEITQGKIGQTPQYETVRAFGPDHLKQFEIALMLDGKELARAIAGS--KKEAQQMA 237

Query: 65  AKDFVQYL 72
           AK  ++ L
Sbjct: 238 AKIALEKL 245

>2b7v_A Double-stranded RNA-specific editase 1; RNA editing, RNA-binding protein, hydrolase; NMR {Rattus norvegicus} SCOP: d.50.1.1 PDB: 2l2k_B Length = 71

 Score = 45.7 bits (109), Expect = 4e-08
 Identities = 14/66 (21%), Positives = 27/66 (40%), Gaps = 5/66 (7%)

Query: 8  KAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKD 67
             LNE            +  +G  H + F+  + + G  + G+G +  KK A+  AA+ 
Sbjct: 7  VMILNELRPGLKYD---FLSESGESHAKSFVMSVVVDGQFFEGSGRN--KKLAKARAAQS 61

Query: 68 FVQYLV 73
           +  + 
Sbjct: 62 ALATVF 67

>2dmy_A Spermatid perinuclear RNA-binding protein; DSRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.50.1.1 Length = 97

 Score = 45.6 bits (108), Expect = 9e-08
 Identities = 16/72 (22%), Positives = 29/72 (40%), Gaps = 5/72 (6%)

Query: 4  DGLVKAFLNEWCQKN--SKQPEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDA 60
          D      +N   + N      ++  +  +GP H   F   + + G  Y  +G S  KK A
Sbjct: 12 DSKAIDLMNALMRLNQIRPGLQYKLLSQSGPVHAPVFTMSVDVDGTTYEASGPS--KKTA 69

Query: 61 QTNAAKDFVQYL 72
          + + A   +Q +
Sbjct: 70 KLHVAVKVLQAM 81

>3p1x_A Interleukin enhancer-binding factor 3; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 1.90A {Homo sapiens} Length = 75

 Score = 44.6 bits (106), Expect = 2e-07
 Identities = 18/66 (27%), Positives = 33/66 (50%), Gaps = 7/66 (10%)

Query: 8  KAFLNEWCQKNSKQPEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAK 66
             LNE  +      +++ +   G  H +RF+ E+ + G  + GAG++  KK A+  AA 
Sbjct: 10 VMELNEKRRG----LKYELISETGGSHDKRFVMEVEVDGQKFQGAGSN--KKVAKAYAAL 63

Query: 67 DFVQYL 72
            ++ L
Sbjct: 64 AALEKL 69

>1o0w_A Ribonuclease III, RNAse III; TM1102, structural genomics, JCSG, PSI, protein structure initiative, joint center for structural genomics; 2.00A {Thermotoga maritima} SCOP: a.149.1.1 d.50.1.1 Length = 252

 Score = 46.4 bits (111), Expect = 2e-07
 Identities = 19/67 (28%), Positives = 29/67 (43%), Gaps = 3/67 (4%)

Query: 8   KAFLNEWCQKNSKQ-PEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAA 65
           K  L E  Q   K  PE+ + R       + F+ E+R+ G      G    KK+A+  AA
Sbjct: 182 KTALQEIVQSEHKVPPEYILVRTEKNDGDRIFVVEVRVNGKTI-ATGKGRTKKEAEKEAA 240

Query: 66  KDFVQYL 72
           +   + L
Sbjct: 241 RIAYEKL 247

>2ljh_A Double-stranded RNA-specific editase ADAR; DSRBD, DSRBM, editing, hydrolase; NMR {Drosophila melanogaster} Length = 114

 Score = 44.1 bits (104), Expect = 6e-07
 Identities = 14/59 (23%), Positives = 23/59 (38%), Gaps = 3/59 (5%)

Query: 16  QKNSKQPEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV 73
            +      +      GP H   F   + + G  Y+G G S  KK A+  AA   ++  +
Sbjct: 44  NELRHGLIYKLESQTGPVHAPLFTISVEVDGQKYLGQGRS--KKVARIEAAATALRSFI 100

>2b7t_A Double-stranded RNA-specific editase 1; RNA editing, RNA-binding protein, hydrolase; NMR {Rattus norvegicus} SCOP: d.50.1.1 PDB: 2l3c_A Length = 73

 Score = 42.6 bits (101), Expect = 6e-07
 Identities = 13/45 (28%), Positives = 25/45 (55%), Gaps = 2/45 (4%)

Query: 30 GPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVR 74
          GP H   F+  + + G  + G+G +  KK A+ +AA+  ++  V+
Sbjct: 29 GPVHAPLFVMSVEVNGQVFEGSGPT--KKKAKLHAAEKALRSFVQ 71

>2l3j_A Double-stranded RNA-specific editase 1; editing, dsRNA recognition, DSRBM, hydrolase-RNA complex; NMR {Rattus norvegicus} Length = 236

 Score = 45.3 bits (106), Expect = 7e-07
 Identities = 17/91 (18%), Positives = 37/91 (40%), Gaps = 11/91 (12%)

Query: 15 CQKNSKQ--------PEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAA 65
            KN+           ++  +   GP H   F+  + + G  + G+G +  KK A+ +AA
Sbjct: 5  LPKNALMQLNEIKPGLQYMLLSQTGPVHAPLFVMSVEVNGQVFEGSGPT--KKKAKLHAA 62

Query: 66 KDFVQYLVRSGQVNERDVPVENIPMTPTGPS 96
          +  ++  V+    +E  + +       T  +
Sbjct: 63 EKALRSFVQFPNASEAHLAMGRTLSVNTDFT 93

>2l3j_A Double-stranded RNA-specific editase 1; editing, dsRNA recognition, DSRBM, hydrolase-RNA complex; NMR {Rattus norvegicus} Length = 236

 Score = 43.0 bits (100), Expect = 4e-06
 Identities = 14/66 (21%), Positives = 29/66 (43%), Gaps = 7/66 (10%)

Query: 8   KAFLNEWCQKNSKQPEF-DVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAK 66
              LNE         ++  +  +G  H + F+  + + G  + G+G +  KK A+  AA+
Sbjct: 164 VMILNELRP----GLKYDFLSESGESHAKSFVMSVVVDGQFFEGSGRN--KKLAKARAAQ 217

Query: 67  DFVQYL 72
             +  +
Sbjct: 218 SALATV 223

>3rv0_A K. polysporus DCR1; RNAse III enzyme, RNA binding protein; 2.29A {Vanderwaltozyma polyspora} Length = 341

 Score = 43.2 bits (102), Expect = 4e-06
 Identities = 16/66 (24%), Positives = 24/66 (36%), Gaps = 5/66 (7%)

Query: 8   KAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGY-VGAGNSTNKKDAQTNAAK 66
           K  L E  Q N    +   R         F  E++I  I      GNS   ++A+  AA 
Sbjct: 257 KNELAELLQINKLGHKLHYR--KLTEMPPFRVEVKIGDILLDEAEGNS--IREAEHRAAM 312

Query: 67  DFVQYL 72
             ++  
Sbjct: 313 KVLEND 318

>2l33_A Interleukin enhancer-binding factor 3; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, DRBM; NMR {Homo sapiens} Length = 91

 Score = 41.3 bits (97), Expect = 4e-06
 Identities = 18/63 (28%), Positives = 33/63 (52%), Gaps = 7/63 (11%)

Query: 11 LNEWCQKNSKQPEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFV 69
          LNE      +  +++ +   G  H +RF+ E+ + G  + GAG++  KK A+  AA   +
Sbjct: 23 LNEK----RRGLKYELISETGGSHDKRFVMEVEVDGQKFQGAGSN--KKVAKAYAALAAL 76

Query: 70 QYL 72
          + L
Sbjct: 77 EKL 79

>1t4o_A Ribonuclease III; RNT1P, DSRBD, RNA-binding, hydrolase; 2.50A {Saccharomyces cerevisiae} SCOP: d.50.1.1 PDB: 1t4l_B 2lbs_B Length = 117

 Score = 38.5 bits (89), Expect = 8e-05
 Identities = 12/60 (20%), Positives = 19/60 (31%)

Query: 8  KAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKD 67
          K  L       S +  +             + E R+     +G G   N K A   AA++
Sbjct: 11 KRQLYSLIGYASLRLHYVTVKKPTAVDPNSIVECRVGDGTVLGTGVGRNIKIAGIRAAEN 70

>1t4n_A Ribonuclease III; DSRBD, RNA-binding, hydrolase; NMR {Saccharomyces cerevisiae} SCOP: d.50.1.1 Length = 94

 Score = 35.3 bits (81), Expect = 7e-04
 Identities = 12/60 (20%), Positives = 19/60 (31%)

Query: 8  KAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKD 67
          K  L       S +  +             + E R+     +G G   N K A   AA++
Sbjct: 9  KRQLYSLIGYASLRLHYVTVKKPTAVDPNSIVECRVGDGTVLGTGVGRNIKIAGIRAAEN 68

>2qvw_A GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral twin, hydrolase; 3.00A {Giardia intestinalis} PDB: 2ffl_A Length = 756

 Score = 36.9 bits (85), Expect = 8e-04
 Identities = 5/64 (7%), Positives = 11/64 (17%), Gaps = 3/64 (4%)

Query: 8   KAFLNEWCQKNSKQ-PEFDV-RAAGPKHRQRFLCELRIAGIGYV-GAGNSTNKKDAQTNA 64
               ++          EF        +      C  R++ +                   
Sbjct: 450 VTKASKRVCMGEAGAHEFRSLVDYACEQGISVFCSSRVSTMFLERLRDIPAEDMLDWYRL 509

Query: 65  AKDF 68
              F
Sbjct: 510 GIQF 513

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	122
1whq_A	99	RNA helicase A; double-stranded RNA binding domain	99.93
3adg_A	73	F21M12.9 protein; HYL1, miRNA processing mechanism	99.9
3adj_A	76	F21M12.9 protein; HYL1, miRNA processing, RNA bind	99.89
1uhz_A	89	Staufen (RNA binding protein) homolog 2; DSRM, sta	99.88
3llh_A	90	RISC-loading complex subunit tarbp2; DSRBD, DSRM,	99.88
2dix_A	84	Interferon-inducible double stranded RNA- dependen	99.88
1di2_A	69	XLRBPA, double stranded RNA binding protein A; pro	99.88
3adl_A	88	RISC-loading complex subunit tarbp2; TRBP2, miRNA	99.87
2cpn_A	89	TAR RNA-binding protein 2; double-stranded RNA bin	99.87
1x49_A	97	Interferon-induced, double-stranded RNA- activated	99.87
1x48_A	88	Interferon-induced, double-stranded RNA- activated	99.87
2l2n_A	103	Hyponastic leave 1; DSRBD, miRNA, RNA binding prot	99.87
2khx_A	85	Ribonuclease 3; drosha, RNA binding domain, hydrol	99.87
1uil_A	113	Double-stranded RNA-binding motif; structural geno	99.86
1t4n_A	94	Ribonuclease III; DSRBD, RNA-binding, hydrolase; N	99.86
1ekz_A	76	DSRBDIII, maternal effect protein (staufen); struc	99.86
2b7t_A	73	Double-stranded RNA-specific editase 1; RNA editin	99.86
1t4o_A	117	Ribonuclease III; RNT1P, DSRBD, RNA-binding, hydro	99.84
2dmy_A	97	Spermatid perinuclear RNA-binding protein; DSRM do	99.84
1x47_A	98	DGCR8 protein; structural genomics, DSRM domain, N	99.82
2l33_A	91	Interleukin enhancer-binding factor 3; structural	99.81
2ljh_A	114	Double-stranded RNA-specific editase ADAR; DSRBD,	99.81
1whn_A	128	Hypothetical protein riken cDNA 2310016K04; double	99.8
2b7v_A	71	Double-stranded RNA-specific editase 1; RNA editin	99.79
1qu6_A	179	Protein kinase PKR; dsRNA-binding domain, solution	99.77
3p1x_A	75	Interleukin enhancer-binding factor 3; structural	99.74
1o0w_A	252	Ribonuclease III, RNAse III; TM1102, structural ge	99.73
2nug_A	221	Ribonuclease III, RNAse III; dsRNA, RNA interferen	99.72
2yt4_A	232	Protein DGCR8; DSRBD, RNA binding domain, RNA bind	99.69
1qu6_A	179	Protein kinase PKR; dsRNA-binding domain, solution	99.69
2a11_A	242	Ribonuclease III, RNAse III; nuclease domain, stru	99.65
3n3w_A	248	Ribonuclease III; nuclease domain, ribonuclase III	99.63
2l3j_A	236	Double-stranded RNA-specific editase 1; editing, d	99.6
2l3j_A	236	Double-stranded RNA-specific editase 1; editing, d	99.57
2yt4_A	232	Protein DGCR8; DSRBD, RNA binding domain, RNA bind	99.54
3rv0_A	341	K. polysporus DCR1; RNAse III enzyme, RNA binding	99.32
3c4b_A	265	Endoribonuclease dicer; RNAse, dsRNA binding prote	99.22
2kou_A	102	Dicer-like protein 4; ATP-binding, endonuclease, h	98.12
2db2_A	119	KIAA0890 protein; DSRM domain, structural genomics	96.93
3htx_A	950	HEN1; HEN1, small RNA methyltransferase, protein-R	96.15

>1whq_A RNA helicase A; double-stranded RNA binding domain, DSRBD, DSRM, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Mus musculus} SCOP: d.50.1.1 PDB: 2rs6_A

Probab=99.93  E-value=8.4e-26  Score=153.35  Aligned_cols=86  Identities=52%  Similarity=0.972  Sum_probs=79.4

Q ss_pred             CCCCChHHHHHHHHHhcCCCceEEEEeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHHcCCCCCC
Q psy14233          2 SGDGLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRSGQVNER   81 (122)
Q Consensus         2 ~~~~n~ks~L~E~~qk~~~~p~Y~~~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~~~~~~~   81 (122)
                      ++..|||+.||||||+++..|+|++...||+|.++|+|.|.|+|..+++.|.|+|||+|||.||+.||+.|...+.+..+
T Consensus         3 ~g~~d~Kt~LqE~~Qk~~~~P~Y~~~~~Gp~H~~~F~~~V~v~g~~~~~~G~G~SKK~Aeq~AA~~AL~~L~~~~~~~~~   82 (99)
T 1whq_A            3 SGSSGIKNFLYAWCGKRKMTPAYEIRAVGNKNRQKFMCEVRVEGFNYAGMGNSTNKKDAQSNAARDFVNYLVRINEVKSE   82 (99)
T ss_dssp             CCCCSSHHHHHHHHHHTTCCCEEEEEEEECSSSEEEEEEEECTTCSCCEEEEESSHHHHHHHHHHHHHHHHHHHTSSCTT
T ss_pred             CCCCCHHHHHHHHHHHCCCCCeEEEeeecCCCCCeEEEEEEECCeEEEEEeccCCHHHHHHHHHHHHHHHHHhhCCCCcc
Confidence            67899999999999999778999997789999999999999999324799999999999999999999999999999999


Q ss_pred             CCCCCC
Q psy14233         82 DVPVEN   87 (122)
Q Consensus        82 ~~p~~~   87 (122)
                      +.|...
T Consensus        83 ~~P~~~   88 (99)
T 1whq_A           83 EVPAVG   88 (99)
T ss_dssp             TSCCCC
T ss_pred             cCCCcC
Confidence            999865

>3adg_A F21M12.9 protein; HYL1, miRNA processing mechanism, RNA binding protein, gene regulation; 1.70A {Arabidopsis thaliana} PDB: 3adi_A

Probab=99.90  E-value=1.2e-23  Score=134.92  Aligned_cols=70  Identities=26%  Similarity=0.419  Sum_probs=64.2

Q ss_pred             CCCChHHHHHHHHHhc-CCCceEEEEeeCCCCCccEEEEEEECCEEEEEeEec-cCHHHHHHHHHHHHHHHHH
Q psy14233          3 GDGLVKAFLNEWCQKN-SKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNS-TNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         3 ~~~n~ks~L~E~~qk~-~~~p~Y~~~~~Gp~h~~~F~~~V~v~g~~~~g~G~G-~SKK~Aeq~AA~~Al~~L~   73 (122)
                      |..|||+.||||||++ +..|.|++...||+|++.|+|.|.|+|.. ++.|.| .|||+||+.||+.||+.|.
T Consensus         1 ~~~d~Kt~LqE~~q~~~~~~p~Y~~~~~Gp~h~~~F~~~v~v~g~~-~~~G~G~~sKK~Aeq~AA~~al~~L~   72 (73)
T 3adg_A            1 GSHVFKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVR-YNSLPGFFNRKAAEQSAAEVALRELA   72 (73)
T ss_dssp             -CCSHHHHHHHHHHHTTCCCCEEEEEEESSTTSCEEEEEEEETTEE-EECCSCBSSHHHHHHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHcCCCCCEEEEEeECCCCCCeEEEEEEECCEE-EEeeeccCCHHHHHHHHHHHHHHHhh
Confidence            4689999999999999 77899998766999999999999999974 799999 9999999999999999883

>3adj_A F21M12.9 protein; HYL1, miRNA processing, RNA binding protein, gene regulation; 3.00A {Arabidopsis thaliana} PDB: 2l2m_A

Probab=99.89  E-value=7.3e-23  Score=132.31  Aligned_cols=68  Identities=26%  Similarity=0.436  Sum_probs=63.5

Q ss_pred             CChHHHHHHHHHhc-CCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          5 GLVKAFLNEWCQKN-SKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         5 ~n~ks~L~E~~qk~-~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      .|||+.||||||++ +..|.|++ ...||+|++.|+|.|.|+|.. ++.|.|+|||+||+.||+.||+.|.
T Consensus         4 ~n~Kt~LqE~~q~~~~~~p~Y~~~~~~Gp~h~~~F~~~v~v~g~~-~~~G~G~sKK~Aeq~AA~~al~~L~   73 (76)
T 3adj_A            4 GLCKNLLQEYAQKMNYAIPLYQCQKVETLGRVTQFTCTVEIGGIK-YTGAATRTKKDAEISAGRTALLAIQ   73 (76)
T ss_dssp             HHHHHHHHHHHHTTTCCCCEEEEEEEECSSSCEEEEEEEEETTEE-EECCCBSSHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHhCCCCCeEEEeeccCCCCCCcEEEEEEECCEE-EEEeccCCHHHHHHHHHHHHHHHHh
Confidence            68999999999999 67899997 578999999999999999974 7999999999999999999999995

>1uhz_A Staufen (RNA binding protein) homolog 2; DSRM, staufen homolog 2, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.50.1.1

Probab=99.88  E-value=3e-22  Score=133.38  Aligned_cols=70  Identities=27%  Similarity=0.381  Sum_probs=64.8

Q ss_pred             CCCCChHHHHHHHHHhc-CCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          2 SGDGLVKAFLNEWCQKN-SKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         2 ~~~~n~ks~L~E~~qk~-~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      ++..|||+.||||||++ +..|.|++ ...||+|++.|+|.|.|+|.  ++.|.|.|||+||+.||+.||+.|.
T Consensus         3 ~~~~d~Kt~LqE~~Q~~~~~~P~Y~~~~~~Gp~H~~~F~~~v~v~g~--~~~G~G~SKK~Aeq~AA~~AL~~L~   74 (89)
T 1uhz_A            3 SGSSGPISRLAQIQQARKEKEPDYILLSERGMPRRREFVMQVKVGNE--VATGTGPNKKIAKKNAAEAMLLQLG   74 (89)
T ss_dssp             CSSSCHHHHHHHHHHHTTSCCCEEEEEEEESCSTTCEEEEEEEETTE--EEEEEESSHHHHHHHHHHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHHHhCCCCCeEEEEEeECCCCCCeEEEEEEECCE--EEEEeeCCHHHHHHHHHHHHHHHHh
Confidence            46789999999999999 67899997 56899999999999999995  6999999999999999999999994

>3llh_A RISC-loading complex subunit tarbp2; DSRBD, DSRM, microrna, RNA binding protein; 2.14A {Homo sapiens}

Probab=99.88  E-value=2.1e-22  Score=134.19  Aligned_cols=73  Identities=22%  Similarity=0.359  Sum_probs=58.8

Q ss_pred             CCChHHHHHHHHHhcCCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHHcCCC
Q psy14233          4 DGLVKAFLNEWCQKNSKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRSGQV   78 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~~~~   78 (122)
                      ..|||+.||||||+++..|.|++ ...||+|+++|+|.|.|+|.  ++.|.|+|||+||+.||+.||+.|...+.+
T Consensus        13 ~kd~Ks~LqE~~q~~~~~p~Y~~~~~~Gp~H~~~F~~~v~v~g~--~~~G~G~SKK~Aeq~AA~~aL~~L~~~~~~   86 (90)
T 3llh_A           13 GKTPISLLQEYGTRIGKTPVYDLLKAEGQAHQPNFTFRVTVGDT--SCTGQGPSKKAAKHKAAEVALKHLKGGSML   86 (90)
T ss_dssp             CCCHHHHHHHHHHHTTCCCEEEEEEEC-----CCEEEEEEETTE--EEEEEESSHHHHHHHHHHHHHHHHC-----
T ss_pred             CCCHHHHHHHHHHhcCCCCEEEEEEeECCCCCCcEEEEEEECCE--EEEEEeCCHHHHHHHHHHHHHHHHHhcccc
Confidence            57999999999999877899997 57899999999999999996  599999999999999999999999765443

>2dix_A Interferon-inducible double stranded RNA- dependent protein kinase activator A; structure genomics, DSRM domain, hypothetical protein PRKRA; NMR {Homo sapiens} SCOP: d.50.1.1

Probab=99.88  E-value=5.7e-22  Score=130.56  Aligned_cols=69  Identities=22%  Similarity=0.262  Sum_probs=64.1

Q ss_pred             CCChHHHHHHHHHhcCCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKNSKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVR   74 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~   74 (122)
                      ..|||+.||||||+++..|.|++ .+.||+|.++|+|.|.|+| . ++.|.|.|||+||+.||+.||+.|..
T Consensus         7 ~~d~Ks~LqE~~q~~~~~p~Y~~~~~~Gp~h~~~F~~~v~v~~-~-~~~G~G~SKK~Aeq~AA~~aL~~L~~   76 (84)
T 2dix_A            7 GKTPIQVLHEYGMKTKNIPVYECERSDVQIHVPTFTFRVTVGD-I-TCTGEGTSKKLAKHRAAEAAINILKA   76 (84)
T ss_dssp             CCCHHHHHHHHHHHTTCCCEEEEEEEECSSSSCEEEEEEEETT-E-EEEECSSCTTHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHcCCCCeEEEEEeECCCCCCeEEEEEEECC-E-EEEeeeCCHHHHHHHHHHHHHHHHhc
Confidence            47999999999999977899997 5689999999999999999 4 69999999999999999999999964

>1di2_A XLRBPA, double stranded RNA binding protein A; protein-RNA complex, protein-RNA interactions, RNA-bining protein; 1.90A {Xenopus laevis} SCOP: d.50.1.1

Probab=99.88  E-value=3.6e-22  Score=126.60  Aligned_cols=66  Identities=26%  Similarity=0.441  Sum_probs=61.3

Q ss_pred             ChHHHHHHHHHhc-CCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          6 LVKAFLNEWCQKN-SKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         6 n~ks~L~E~~qk~-~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      .||+.||||||++ +..|.|++ ...||+|++.|+|.|.|+|.  ++.|.|.|||+||+.||+.||+.|.
T Consensus         1 ~p~s~LqE~~q~~~~~~p~Y~~~~~~Gp~h~~~F~~~v~v~~~--~~~G~G~sKK~Aeq~AA~~al~~L~   68 (69)
T 1di2_A            1 MPVGSLQELAVQKGWRLPEYTVAQESGPPHKREFTITCRVETF--VETGSGTSKQVAKRVAAEKLLTKFK   68 (69)
T ss_dssp             CHHHHHHHHHHHHTCCCCEEEEEEEESCGGGCEEEEEEEETTE--EEEEEESSHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHcCCCCCEEEEEEeECCCCCCeEEEEEEECCE--EEEeecCCHHHHHHHHHHHHHHHHh
Confidence            3899999999999 67899997 56899999999999999995  6999999999999999999999984

>3adl_A RISC-loading complex subunit tarbp2; TRBP2, miRNA processing, gene regulation-RNA complex; 2.20A {Homo sapiens}

Probab=99.87  E-value=9.5e-22  Score=130.72  Aligned_cols=68  Identities=28%  Similarity=0.425  Sum_probs=63.6

Q ss_pred             CCChHHHHHHHHHhc-CCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKN-SKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~-~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      ..|||+.||||||++ +..|.|++ ...||+|.+.|+|.|.|+|.  ++.|.|+|||+||+.||+.||+.|.
T Consensus        14 ~~d~Ks~LqE~~Q~~~~~~P~Y~~~~~~Gp~H~~~F~~~v~v~g~--~~~G~G~SKK~Aeq~AA~~AL~~L~   83 (88)
T 3adl_A           14 GSHEVGALQELVVQKGWRLPEYTVTQESGPAHRKEFTMTCRVERF--IEIGSGTSKKLAKRNAAAKMLLRVH   83 (88)
T ss_dssp             TCCHHHHHHHHHHHTTCCCCEEEEEEEESCTTSCEEEEEEEETTE--EEEEEESSHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHcCCCCCEEEEEEeECCCCCCeEEEEEEECCE--EEEEeeCCHHHHHHHHHHHHHHHHH
Confidence            479999999999999 67899997 56899999999999999995  6999999999999999999999995

>2cpn_A TAR RNA-binding protein 2; double-stranded RNA binding domain, DSRBD, DSRM., structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.50.1.1

Probab=99.87  E-value=6.9e-22  Score=131.59  Aligned_cols=69  Identities=28%  Similarity=0.415  Sum_probs=63.9

Q ss_pred             CCChHHHHHHHHHhc-CCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKN-SKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVR   74 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~-~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~   74 (122)
                      ..|||+.||||||++ +..|.|++ ...||+|.+.|+|.|.|+|.  ++.|.|.|||+||+.||+.||+.|..
T Consensus        15 ~~d~Kt~LqE~~Qk~~~~~P~Y~~~~~~Gp~h~~~F~~~v~i~g~--~~~G~G~SKK~Aeq~AA~~AL~~L~~   85 (89)
T 2cpn_A           15 ECNPVGALQELVVQKGWRLPEYTVTQESGPAHRKEFTMTCRVERF--IEIGSGTSKKLAKRNAAAKMLLRVSG   85 (89)
T ss_dssp             CCCHHHHHHHHHHHHTCCCCEEEEEEEECCSSSCEEEEEEEETTE--EEEEEESSHHHHHHHHHHHHHHHHHS
T ss_pred             CCCHHHHHHHHHHHcCCCCCeEEEEeeECCCCCCeEEEEEEECCE--EEEeeeCCHHHHHHHHHHHHHHHHHh
Confidence            469999999999999 77899997 57899999999999999995  69999999999999999999999963

>1x49_A Interferon-induced, double-stranded RNA- activated protein kinase; structure genomics, DSRM domain, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.50.1.1

Probab=99.87  E-value=5.4e-22  Score=134.07  Aligned_cols=73  Identities=23%  Similarity=0.317  Sum_probs=65.0

Q ss_pred             CCChHHHHHHHHHhcCCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHHcCC
Q psy14233          4 DGLVKAFLNEWCQKNSKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRSGQ   77 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~~~   77 (122)
                      ..|||+.||||||+++..|.|++ ...||+|.+.|+|.|.|+|+. ++.|.|.|||+|||.||+.||+.|..+..
T Consensus        13 ~~n~Kt~LqE~~Q~~~~~p~Y~~~~~~Gp~H~~~F~v~v~i~g~~-~~~G~G~SKK~Aeq~AA~~AL~~L~~~~~   86 (97)
T 1x49_A           13 PGFYMDKLNKYRQMHGVAITYKELSTSGPPHDRRFTFQVLIDEKE-FPEAKGRSKQEARNAAAKLAVDILDNENK   86 (97)
T ss_dssp             TTHHHHHHHHHHHHHTCCEEEEEEEEESCSSSCEEEEEEEESSCC-CCCEEESSHHHHHHHHHHHHHHHHTTTCC
T ss_pred             CCCHHHHHHHHHHHcCCCCeEEEEEeeCCCCCCcEEEEEEECCEE-EEEEeeCCHHHHHHHHHHHHHHHHHhhcC
Confidence            46999999999999954599996 578999999999999999974 79999999999999999999999964433

>1x48_A Interferon-induced, double-stranded RNA- activated protein kinase; structure genomics, DSRM domain, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.50.1.1

Probab=99.87  E-value=1.5e-21  Score=129.66  Aligned_cols=72  Identities=26%  Similarity=0.432  Sum_probs=64.9

Q ss_pred             CCCCChHHHHHHHHHhcCCCceEEEEeeCCCCCc-cEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHHc
Q psy14233          2 SGDGLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQ-RFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRS   75 (122)
Q Consensus         2 ~~~~n~ks~L~E~~qk~~~~p~Y~~~~~Gp~h~~-~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~   75 (122)
                      ++..|||+.||||||+++..+.|+ ...||+|++ +|+|.|.|+|.. ++.|.|.|||+|||.||+.||+.|...
T Consensus         3 ~~~~d~Kt~LqE~~Q~~~~~~~Y~-~~~Gp~H~~~~F~~~v~v~g~~-~~~G~G~SKK~Aeq~AA~~AL~~L~~~   75 (88)
T 1x48_A            3 SGSSGYIGLVNSFAQKKKLSVNYE-QCEPNSELPQRFICKCKIGQTM-YGTGSGVTKQEAKQLAAKEAYQKLLKS   75 (88)
T ss_dssp             SSSSCHHHHHHHHHHHTTCCEEEE-ECCCSSSSSCCEEEEEEESSCE-EEEEEESSHHHHHHHHHHHHHHHHHHS
T ss_pred             CCCCCHHHHHHHHHHHcCCCCeeE-EeeCCCCCCceEEEEEEECCEE-EEEeecCCHHHHHHHHHHHHHHHHHhc
Confidence            346799999999999995566999 888999999 799999999974 799999999999999999999999753

>2l2n_A Hyponastic leave 1; DSRBD, miRNA, RNA binding protein, plant protein; NMR {Arabidopsis thaliana}

Probab=99.87  E-value=5.6e-22  Score=135.23  Aligned_cols=74  Identities=24%  Similarity=0.372  Sum_probs=64.3

Q ss_pred             CCCChHHHHHHHHHhc-CCCceEEEEeeCCCCCccEEEEEEECCEEEEEeEec-cCHHHHHHHHHHHHHHHHHHcCC
Q psy14233          3 GDGLVKAFLNEWCQKN-SKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNS-TNKKDAQTNAAKDFVQYLVRSGQ   77 (122)
Q Consensus         3 ~~~n~ks~L~E~~qk~-~~~p~Y~~~~~Gp~h~~~F~~~V~v~g~~~~g~G~G-~SKK~Aeq~AA~~Al~~L~~~~~   77 (122)
                      ...|||+.||||||++ +..|.|++...||+|++.|+|.|.|+|.. ++.|.| +|||+||+.||+.||+.|..++.
T Consensus        15 ~~~d~Kt~LqE~~Q~~~~~~P~Y~~~~~Gp~H~~~F~~~V~v~g~~-~~~G~G~~SKK~Aeq~AA~~AL~~L~~~~~   90 (103)
T 2l2n_A           15 NCYVFKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVR-YNSLPGFFNRKAAEQSAAEVALRELAKSSE   90 (103)
T ss_dssp             ----CTTHHHHHHHHTTCCCCEEEEEEESCSSSCEEEEEEEETTEE-EECCSCBSSHHHHHHHHHHHHHHHHHHHC-
T ss_pred             CCCCHHHHHHHHHHHcCCCCCeEEEEeEcCCCCCeEEEEEEECCEE-EEEeecCCCHHHHHHHHHHHHHHHHhcccc
Confidence            3579999999999999 67899998767999999999999999974 799999 99999999999999999986544

>2khx_A Ribonuclease 3; drosha, RNA binding domain, hydrolase, gene regulation, NUCL protein, gene regulation,nuclear protein; NMR {Homo sapiens}

Probab=99.87  E-value=1.9e-22  Score=133.34  Aligned_cols=68  Identities=21%  Similarity=0.396  Sum_probs=61.8

Q ss_pred             CChHHHHHHHHHh-----c-CCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          5 GLVKAFLNEWCQK-----N-SKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         5 ~n~ks~L~E~~qk-----~-~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      .|||+.||||||+     + +..|.|++ .+.||+|++.|+|.|.|+|.. ++.|.|+|||+||+.||+.||+.|.
T Consensus         1 ~d~Kt~LQE~~Q~~~~~~~~~~~p~Y~~~~~~Gp~H~~~F~v~V~v~g~~-~~~G~G~SKK~AEq~AA~~AL~~L~   75 (85)
T 2khx_A            1 NDPKSQLQQCCLTLRTEGKEPDIPLYKTLQTVGPSHARTYTVAVYFKGER-IGCGKGPSIQQAEMGAAMDALEKYN   75 (85)
T ss_dssp             CCSCHHHHHHHHHCCCSSSCCCCCCEEECCCCCSSSCCCEEEEEEETTEE-CCCEEESSHHHHHHHHHHHHHTTCC
T ss_pred             CCHHHHHHHHHhhhhhhcCCCCCceEEEEEeECCCCCCcEEEEEEECCEE-EEEEeeCCHHHHHHHHHHHHHHHHh
Confidence            5899999999998     3 56899998 468999999999999999974 7999999999999999999999874

>1uil_A Double-stranded RNA-binding motif; structural genomics, DSRM, riken structural genomics/proteomics initiative, RSGI RNA binding protein; NMR {Mus musculus} SCOP: d.50.1.1 PDB: 2rs7_A

Probab=99.86  E-value=2.2e-21  Score=134.35  Aligned_cols=76  Identities=29%  Similarity=0.401  Sum_probs=68.5

Q ss_pred             CChHHHHHHHHHhcCCCceEEEEeeCCCCCccEEEEEEE-----CCEEEEEeEeccCHHHHHHHHHHHHHHHHHHcCCCC
Q psy14233          5 GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRI-----AGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRSGQVN   79 (122)
Q Consensus         5 ~n~ks~L~E~~qk~~~~p~Y~~~~~Gp~h~~~F~~~V~v-----~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~~~~~   79 (122)
                      .|||+.||||||+++..|.|++...||+|.++|+|.|.|     +|. +++.|.|+|||+||+.||+.||+.|...+.+.
T Consensus        26 ~d~Kt~LqE~~Qk~~~~p~Y~~~~~Gp~H~~~F~~~V~v~~~~~~~~-~~~~G~G~SKK~AEq~AA~~AL~~L~~~~~ie  104 (113)
T 1uil_A           26 ENAKARLNQYFQKEKIQGEYKYTQVGPDHNRSFIAEMTIYIKQLGRR-IFAREHGSNKKLAAQSCALSLVRQLYHLGVIE  104 (113)
T ss_dssp             HHHHHHHHHHHHHSCCCCCCEEEEESCSTTCEEEEEEEEEETTTTEE-EEEECCCSSHHHHHHHHHHHHHHHHHHHTSSC
T ss_pred             CCHHHHHHHHHHHCCCCCeEEEeeECCCCCCcEEEEEEEeeeccCCE-EEEEEeeCCHHHHHHHHHHHHHHHHHhcCCcc
Confidence            489999999999994499999878899999999999999     465 58999999999999999999999999877766


Q ss_pred             CC
Q psy14233         80 ER   81 (122)
Q Consensus        80 ~~   81 (122)
                      ..
T Consensus       105 ~~  106 (113)
T 1uil_A          105 AY  106 (113)
T ss_dssp             CC
T ss_pred             cc
Confidence            54

>1t4n_A Ribonuclease III; DSRBD, RNA-binding, hydrolase; NMR {Saccharomyces cerevisiae} SCOP: d.50.1.1

Probab=99.86  E-value=4.4e-22  Score=133.99  Aligned_cols=70  Identities=19%  Similarity=0.065  Sum_probs=63.8

Q ss_pred             CCChHHHHHHHHHhcCCCceEEEEeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~~~~p~Y~~~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      ..|||+.||||||+.+..|.|++...||+|++.|++.|.|+|...+|.|.|+|||+|||.||+.||..|.
T Consensus         5 ~~D~KT~LQE~~Q~~~~~p~Y~v~~~GpdH~k~F~v~v~i~~~~~~g~G~G~SKK~AEQ~AA~~AL~~l~   74 (94)
T 1t4n_A            5 DMNAKRQLYSLIGYASLRLHYVTVKKPTAVDPNSIVECRVGDGTVLGTGVGRNIKIAGIRAAENALRDKK   74 (94)
T ss_dssp             CHHHHHHHHHHTCSSSSCCEEEECCCCSSSCCSEEEEEECSSSCEEEEEEESSHHHHHHHHHHHHHHCHH
T ss_pred             CCCchHHHHHHHcCCCCCCEEEEeeeCCCCCCeEEEEEEECCEEEEEEEEeCCHHHHHHHHHHHHHHHHH
Confidence            4699999999999987789999976699999999999999996137999999999999999999999886

>1ekz_A DSRBDIII, maternal effect protein (staufen); structure, protein/RNA, protein DSRBD, RNA hairpin; NMR {Drosophila melanogaster} SCOP: d.50.1.1 PDB: 1stu_A

Probab=99.86  E-value=2.9e-22  Score=129.28  Aligned_cols=67  Identities=24%  Similarity=0.299  Sum_probs=62.1

Q ss_pred             CCChHHHHHHHHHhc-CCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKN-SKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~-~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      ..|||+.||||||++ +. |.|++ ...||+|.+.|+|.|.|+| . ++.|.|+|||+||+.||+.||+.|.
T Consensus         6 ~~d~ks~LqE~~q~~~~~-p~Y~~~~~~Gp~h~~~F~~~v~i~~-~-~~~G~G~sKK~Aeq~AA~~aL~~L~   74 (76)
T 1ekz_A            6 KKSPISQVHEIGIKRNMT-VHFKVLREEGPAHMKNFITACIVGS-I-VTEGEGNGKKVSKKRAAEKMLVELQ   74 (76)
T ss_dssp             CSCHHHHHHHHHHHTTCC-CEEEESSSCCSSSCSCSSEEEEETT-E-EEEECCCSTTSSSHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHcCCC-CEEEEEEeECCCCCCcEEEEEEECC-E-EEEEeeCCHHHHHHHHHHHHHHHHh
Confidence            479999999999999 55 99998 4789999999999999999 4 7999999999999999999999984

>2b7t_A Double-stranded RNA-specific editase 1; RNA editing, RNA-binding protein, hydrolase; NMR {Rattus norvegicus} SCOP: d.50.1.1 PDB: 2l3c_A

Probab=99.86  E-value=2.2e-21  Score=124.36  Aligned_cols=68  Identities=22%  Similarity=0.311  Sum_probs=62.2

Q ss_pred             CCChHHHHHHHHHhcCCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKNSKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVR   74 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~   74 (122)
                      ..|||+.||||||+ +..|.|++ ...||+|+++|++.|.|+|.. + .|.|+|||+||+.||+.||+.|..
T Consensus         3 ~~d~Ks~Lqe~~q~-~~~p~Y~~~~~~Gp~h~~~F~~~v~v~g~~-~-~G~G~SKK~Aeq~AA~~al~~L~~   71 (73)
T 2b7t_A            3 PVLPKNALMQLNEI-KPGLQYMLLSQTGPVHAPLFVMSVEVNGQV-F-EGSGPTKKKAKLHAAEKALRSFVQ   71 (73)
T ss_dssp             SSSSHHHHHHHHHH-CSCCEEEEEEEECSSSSCEEEEEEESSSSE-E-EEEESSHHHHHHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHcC-CCCceEEEEEeeCCCCCCeEEEEEEECCEE-E-EeecCCHHHHHHHHHHHHHHHHhc
Confidence            46999999999996 78999997 568999999999999999975 4 899999999999999999999963

>1t4o_A Ribonuclease III; RNT1P, DSRBD, RNA-binding, hydrolase; 2.50A {Saccharomyces cerevisiae} SCOP: d.50.1.1 PDB: 1t4l_B 2lbs_B

Probab=99.84  E-value=5.9e-21  Score=132.90  Aligned_cols=70  Identities=19%  Similarity=0.065  Sum_probs=63.6

Q ss_pred             CCChHHHHHHHHHhcCCCceEEEEeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~~~~p~Y~~~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      ..|||+.||||||+.+..|.|.+...||+|++.|++.|.|+|...+|.|.|.|||+|||.||+.||..|.
T Consensus         7 ~~D~KT~LQE~~Q~~~~~P~Y~vv~~GPdH~k~F~v~V~i~g~~~~g~G~G~SKK~AEQ~AA~~AL~~l~   76 (117)
T 1t4o_A            7 DMNAKRQLYSLIGYASLRLHYVTVKKPTAVDPNSIVECRVGDGTVLGTGVGRNIKIAGIRAAENALRDKK   76 (117)
T ss_dssp             CTTHHHHHHHHHCCGGGCCEEEEEECCCSSCCCEEEEEECTTCCEEEEEEESSHHHHHHHHHHHHHHCHH
T ss_pred             CCCchHHHHHHHcCCCCCCEEEEeeeCCCCCCeEEEEEEECCEEEEEEEEeCCHHHHHHHHHHHHHHHHH
Confidence            4699999999999976789999866699999999999999996137999999999999999999999887

>2dmy_A Spermatid perinuclear RNA-binding protein; DSRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.50.1.1

Probab=99.84  E-value=1.6e-20  Score=126.72  Aligned_cols=67  Identities=18%  Similarity=0.193  Sum_probs=62.0

Q ss_pred             CCChHHHHHHHHHhcCCCceEEEE-eeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKNSKQPEFDVR-AAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~~~~p~Y~~~-~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      ..|||+.||||||++ ..|.|++. +.||+|+++|++.|.|+|.. + .|.|.|||+||+.||+.||+.|.
T Consensus        15 ~~d~Kt~LqE~~Q~~-~~p~Y~~~~~~Gp~H~~~F~~~v~v~g~~-~-~G~G~SKK~Aeq~AA~~aL~~L~   82 (97)
T 2dmy_A           15 AIDLMNALMRLNQIR-PGLQYKLLSQSGPVHAPVFTMSVDVDGTT-Y-EASGPSKKTAKLHVAVKVLQAMG   82 (97)
T ss_dssp             SSSCTHHHHHHHHHS-CSCCCEEEEEESCSSSCEEEEEEEETTEE-E-EEEESSHHHHHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHhcC-CCceEEEEEeeCCCCCCeEEEEEEECCEE-E-EEeeCCHHHHHHHHHHHHHHHhC
Confidence            579999999999996 78999985 68999999999999999985 5 89999999999999999999993

>1x47_A DGCR8 protein; structural genomics, DSRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.50.1.1

Probab=99.82  E-value=7.5e-20  Score=123.66  Aligned_cols=68  Identities=24%  Similarity=0.425  Sum_probs=61.9

Q ss_pred             CCCChHHHHHHHHHhc-CCCceEEEE-eeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          3 GDGLVKAFLNEWCQKN-SKQPEFDVR-AAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         3 ~~~n~ks~L~E~~qk~-~~~p~Y~~~-~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      ...|||+.||||||++ +..|.|++. ..||+  +.|+|.|.|+|.. ++.|.|.|||+||+.||+.||+.|.
T Consensus        14 ~~kd~Kt~LqE~~Q~~~~~~P~Y~~~~~~Gp~--~~F~~~V~v~g~~-~~~G~G~SKK~Aeq~AA~~AL~~L~   83 (98)
T 1x47_A           14 NGKSEVCILHEYMQRVLKVRPVYNFFECENPS--EPFGASVTIDGVT-YGSGTASSKKLAKNKAARATLEILI   83 (98)
T ss_dssp             TCCCHHHHHHHHHHHHTCSCCEEEEEECSSSS--CCEEEEEEETTEE-EEEEEESSHHHHHHHHHHHHHHHHC
T ss_pred             CCCCHHHHHHHHHHHcCCCCCeEEEEEeECCC--CcEEEEEEECCEE-EEEeeeCCHHHHHHHHHHHHHHHHH
Confidence            4579999999999999 678999985 57887  9999999999974 7999999999999999999999995

>2l33_A Interleukin enhancer-binding factor 3; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, DRBM; NMR {Homo sapiens}

Probab=99.81  E-value=6.7e-20  Score=122.64  Aligned_cols=66  Identities=26%  Similarity=0.343  Sum_probs=61.3

Q ss_pred             CChHHHHHHHHHhcCCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          5 GLVKAFLNEWCQKNSKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         5 ~n~ks~L~E~~qk~~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      .++|+.||||||+++ .|.|++ .+.||+|+++|+|.|.|+|.. + .|.|+|||+|||.||+.||+.|.
T Consensus        14 ~~~K~~LqEl~Qk~~-~p~Y~~v~~~Gp~H~~~F~v~V~v~g~~-~-~G~G~SKK~AEq~AA~~AL~~L~   80 (91)
T 2l33_A           14 KHGKNPVMELNEKRR-GLKYELISETGGSHDKRFVMEVEVDGQK-F-QGAGSNKKVAKAYAALAALEKLF   80 (91)
T ss_dssp             SSTTCHHHHHHHHCS-SCEEEEEEEEECSSCEEEEEEEEETTEE-E-EEEESSHHHHHHHHHHHHHHHHC
T ss_pred             cCCCCHHHHHHHhCC-CCeEEEEEeeCCCCCCeEEEEEEECCEE-E-EeeeCCHHHHHHHHHHHHHHHHh
Confidence            589999999999998 999997 568999999999999999975 4 89999999999999999999994

>2ljh_A Double-stranded RNA-specific editase ADAR; DSRBD, DSRBM, editing, hydrolase; NMR {Drosophila melanogaster}

Probab=99.81  E-value=1.5e-19  Score=125.43  Aligned_cols=65  Identities=23%  Similarity=0.304  Sum_probs=59.9

Q ss_pred             CCCChHHHHHHHHHhcCCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          3 GDGLVKAFLNEWCQKNSKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         3 ~~~n~ks~L~E~~qk~~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      ...|||+.||||||+    |.|++ .+.||+|+++|+|.|.|+|.. + .|.|.|||+|||.||+.||+.|.
T Consensus        35 ~~kd~Ks~LQE~~q~----p~Y~~v~~~Gp~H~k~F~v~V~v~g~~-~-~G~G~SKK~AEq~AA~~AL~~L~  100 (114)
T 2ljh_A           35 QPKNTVAMLNELRHG----LIYKLESQTGPVHAPLFTISVEVDGQK-Y-LGQGRSKKVARIEAAATALRSFI  100 (114)
T ss_dssp             CCSCHHHHHHHHCSC----CEEEEEEEECCSSSCEEEEEEEETTEE-E-EEEESSHHHHHHHHHHHHHHHHC
T ss_pred             CCCCHHHHHHHHccC----CeEEEEEeeCCCCCCeEEEEEEECCEE-E-EeeeCCHHHHHHHHHHHHHHHHH
Confidence            467999999999985    99997 568999999999999999986 5 89999999999999999999995

>1whn_A Hypothetical protein riken cDNA 2310016K04; double-stranded RNA binding domain, DSRBD, DSRM, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.50.1.1

Probab=99.80  E-value=5.3e-19  Score=124.86  Aligned_cols=67  Identities=21%  Similarity=0.204  Sum_probs=62.3

Q ss_pred             CCChHHHHHHHHHhc-CCCceEEEEeeCCCCCccEEEEEEECCEEEEEeEec-cCHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKN-SKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNS-TNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~-~~~p~Y~~~~~Gp~h~~~F~~~V~v~g~~~~g~G~G-~SKK~Aeq~AA~~Al~~L~   73 (122)
                      ..|||+.||||||++ +..|.|++...  +|.+.|+|.|.|+|.. ++.|.| .|||+|||.||+.||+.|.
T Consensus        25 ~~d~Kt~LQE~~Qk~~~~~P~Y~~v~~--~H~~~F~v~V~v~g~~-~g~G~G~~SKK~AEQ~AA~~AL~~L~   93 (128)
T 1whn_A           25 QITPKMCLLEWCRREKLPQPVYETVQR--TIDRMFCSVVTVAEQK-YQSTLWDKSKKLAEQTAAIVCLRSQG   93 (128)
T ss_dssp             TCCHHHHHHHHHHHTTCCCCCCCEEEC--SSSCCEEEEEEETTEE-EEESSCBSSHHHHHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHcCCCCCeEEEEee--cCCCcEEEEEEECCEE-EEEEeccCCHHHHHHHHHHHHHHHHh
Confidence            579999999999999 78899998765  8999999999999975 799999 9999999999999999995

>2b7v_A Double-stranded RNA-specific editase 1; RNA editing, RNA-binding protein, hydrolase; NMR {Rattus norvegicus} SCOP: d.50.1.1 PDB: 2l2k_B

Probab=99.79  E-value=7.7e-19  Score=111.80  Aligned_cols=66  Identities=23%  Similarity=0.268  Sum_probs=59.7

Q ss_pred             CCCChHHHHHHHHHhcCCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHH
Q psy14233          3 GDGLVKAFLNEWCQKNSKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVR   74 (122)
Q Consensus         3 ~~~n~ks~L~E~~qk~~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~   74 (122)
                      +..||++.|||||    ..|.|++ ...||+|++.|+|.|.|+|..  ..|.|+|||+|||.||+.||+.|..
T Consensus         2 ~~knp~s~L~E~~----~~p~Y~~~~~~Gp~h~~~F~~~v~v~~~~--~~G~G~SKK~Aeq~AA~~al~~L~~   68 (71)
T 2b7v_A            2 SGKNPVMILNELR----PGLKYDFLSESGESHAKSFVMSVVVDGQF--FEGSGRNKKLAKARAAQSALATVFN   68 (71)
T ss_dssp             CSSCHHHHHHHHC----CSCEEEEEECCCCTTTCCEEEEEECSSCE--EEEEESSHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHhC----CCCEEEEEEeECCCCCceEEEEEEECCEE--EEEeeCCHHHHHHHHHHHHHHHHHh
Confidence            4689999999995    6799997 568999999999999999974  4899999999999999999999975

>1qu6_A Protein kinase PKR; dsRNA-binding domain, solution structure, transferase; NMR {Homo sapiens} SCOP: d.50.1.1 d.50.1.1

Probab=99.77  E-value=4.8e-19  Score=130.31  Aligned_cols=72  Identities=29%  Similarity=0.403  Sum_probs=65.0

Q ss_pred             CCChHHHHHHHHHhcCCCceEEEE-eeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHHcC
Q psy14233          4 DGLVKAFLNEWCQKNSKQPEFDVR-AAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRSG   76 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~~~~p~Y~~~-~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~~   76 (122)
                      ..|||+.||||||+++..|.|++. ..||+|.+.|+|.|.|+|.. ++.|.|.|||+||+.||+.||+.|...+
T Consensus        12 ~~n~ks~LqE~~q~~~~~p~Y~~~~~~Gp~h~~~F~~~v~v~g~~-~~~G~G~sKK~Aeq~AA~~al~~L~~~~   84 (179)
T 1qu6_A           12 AGFFMEELNTYRQKQGVVLKYQELPNSGPPHDRRFTFQVIIDGRE-FPEGEGRSKKEAKNAAAKLAVEILNKEK   84 (179)
T ss_dssp             SCSHHHHHHHHHHHHTCCCEEEEEESCBTTTBCCEEEEEESSSSC-CCEEECCSSHHHHHHHHHHHHHHHHSCC
T ss_pred             CCCHHHHHHHHHHhCCCCCeEEEeeccCCCCCCeEEEEEEECCEE-EEecCCCCHHHHHHHHHHHHHHHHhccc
Confidence            469999999999999555999974 68999999999999999974 7999999999999999999999997543

>3p1x_A Interleukin enhancer-binding factor 3; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 1.90A {Homo sapiens}

Probab=99.74  E-value=1.8e-17  Score=106.85  Aligned_cols=66  Identities=26%  Similarity=0.309  Sum_probs=56.2

Q ss_pred             CCCChHHHHHHHHHhcCCCceEEEE-eeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHH
Q psy14233          3 GDGLVKAFLNEWCQKNSKQPEFDVR-AAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVR   74 (122)
Q Consensus         3 ~~~n~ks~L~E~~qk~~~~p~Y~~~-~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~   74 (122)
                      +.+||.+.|+|++    ..|.|++. +.||+|+++|++.|.|+|.. + .|.|+|||+|||.||+.||+.|..
T Consensus         5 ~~K~pl~~L~q~~----~~p~Y~~~~~~Gp~H~~~F~~~v~v~g~~-~-~G~G~SKK~Aeq~AA~~al~~L~~   71 (75)
T 3p1x_A            5 HGKNPVMELNEKR----RGLKYELISETGGSHDKRFVMEVEVDGQK-F-QGAGSNKKVAKAYAALAALEKLFP   71 (75)
T ss_dssp             -CCCHHHHHHHHS----TTCCEEEEEEESCTTSCEEEEEEEETTEE-E-EEEESSHHHHHHHHHHHHHHHHCT
T ss_pred             CCCCHHHHHHHcC----CCCEEEEEEeeCCCCCceEEEEEEECCEE-E-EEEECCHHHHHHHHHHHHHHHHHc
Confidence            3567777777664    68999984 68999999999999999975 4 899999999999999999999943

>1o0w_A Ribonuclease III, RNAse III; TM1102, structural genomics, JCSG, PSI, protein structure initiative, joint center for structural genomics; 2.00A {Thermotoga maritima} SCOP: a.149.1.1 d.50.1.1

Probab=99.73  E-value=1.7e-17  Score=127.72  Aligned_cols=70  Identities=24%  Similarity=0.308  Sum_probs=64.2

Q ss_pred             CCChHHHHHHHHHhc-CCCceEEEE-eeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKN-SKQPEFDVR-AAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVR   74 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~-~~~p~Y~~~-~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~   74 (122)
                      ..|||+.||||||++ +..|+|++. +.||+|.+.|+|.|.|+|+. ++.|.|.|||+||+.||+.||+.|..
T Consensus       178 ~~dpkt~LqE~~q~~~~~~p~Y~~~~~~Gp~h~~~F~v~v~v~g~~-~~~G~G~SKK~Aeq~AA~~AL~~L~~  249 (252)
T 1o0w_A          178 LFDYKTALQEIVQSEHKVPPEYILVRTEKNDGDRIFVVEVRVNGKT-IATGKGRTKKEAEKEAARIAYEKLLK  249 (252)
T ss_dssp             CSCHHHHHHHHHHHHHSSCCEEEEEEEECCTTSCEEEEEEEETTEE-EEEEEESSHHHHHHHHHHHHHHHHC-
T ss_pred             ccCHHHHHHHHHHHcCCCCceEEEEeeeCCCCCCeEEEEEEECCEE-EEEEeeCCHHHHHHHHHHHHHHHHhh
Confidence            469999999999999 779999974 68999999999999999975 79999999999999999999999953

>2nug_A Ribonuclease III, RNAse III; dsRNA, RNA interference, endonucleolytic cleavage, hydrolase/RNA complex; 1.70A {Aquifex aeolicus} SCOP: a.149.1.1 d.50.1.1 PDB: 1yyw_A 2nue_A 2nuf_A 1yyk_A 1yz9_A 1yyo_A 2ez6_A 1rc7_A 1i4s_A 1jfz_A 1rc5_A

Probab=99.72  E-value=1.9e-17  Score=124.94  Aligned_cols=68  Identities=29%  Similarity=0.550  Sum_probs=63.4

Q ss_pred             CCChHHHHHHHHHhc-CCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKN-SKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~-~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      ..|||+.||||||++ +..|.|++ ...||+|.+.|+|.|.|+|+  ++.|.|.|||+||+.||+.||+.|.
T Consensus       149 ~~~pks~LqE~~q~~~~~~p~Y~~~~~~G~~h~~~F~v~v~v~~~--~~~G~G~skK~Ae~~AA~~AL~~L~  218 (221)
T 2nug_A          149 KKDYKTILQEITQKRWKERPEYRLISVEGPHHKKKFIVEAKIKEY--RTLGEGKSKKEAEQRAAEELIKLLE  218 (221)
T ss_dssp             CCCHHHHHHHHHHHHHSCCCEEEEEEEESCGGGCEEEEEEEETTE--EEEEEESSHHHHHHHHHHHHHHHHC
T ss_pred             ccCHHHHHHHHHHHcCCCCceEEEEEeeCCCCCceEEEEEEECCE--EEEEecCCHHHHHHHHHHHHHHHhh
Confidence            479999999999999 78899997 57899999999999999996  6999999999999999999999984

>2yt4_A Protein DGCR8; DSRBD, RNA binding domain, RNA binding protein; 2.60A {Homo sapiens}

Probab=99.69  E-value=1.2e-16  Score=122.25  Aligned_cols=68  Identities=24%  Similarity=0.419  Sum_probs=62.2

Q ss_pred             CCChHHHHHHHHHhc-CCCceEEEE-eeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKN-SKQPEFDVR-AAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVR   74 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~-~~~p~Y~~~-~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~   74 (122)
                      ..|||+.||||||++ +..|.|++. ..||+  +.|+|.|.|+|.. ++.|.|.|||+||+.||+.||..|..
T Consensus        21 ~kd~ks~LqE~~q~~~~~~p~Y~~~~~~Gp~--~~F~~~v~v~g~~-~~~G~G~SKK~Aeq~AA~~aL~~L~~   90 (232)
T 2yt4_A           21 GKSEVCILHEYMQRVLKVRPVYNFFECENPS--EPFGASVTIDGVT-YGSGTASSKKLAKNKAARATLEILIP   90 (232)
T ss_dssp             TSCHHHHHHHHHHHTTCCCCEEEEEECSCTT--SCEEEEEEETTEE-EEEEEESSHHHHHHHHHHHHHHHHST
T ss_pred             CCCHHHHHHHHHHHcCCCCCeEEEEeeECCC--CcEEEEEEECCEE-EeecCCCCHHHHHHHHHHHHHHHHHh
Confidence            579999999999999 678999985 67887  9999999999975 79999999999999999999999954

>1qu6_A Protein kinase PKR; dsRNA-binding domain, solution structure, transferase; NMR {Homo sapiens} SCOP: d.50.1.1 d.50.1.1

Probab=99.69  E-value=5.7e-17  Score=119.21  Aligned_cols=71  Identities=18%  Similarity=0.212  Sum_probs=64.9

Q ss_pred             CCChHHHHHHHHHhcCCCceEEEEeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHHc
Q psy14233          4 DGLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRS   75 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~~~~p~Y~~~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~   75 (122)
                      ..||+++||||||+++..+.|++...||+|.+.|+|+|.|+|.. ++.|.|.|||+||+.||+.||..|...
T Consensus       103 ~~n~~~~L~E~~qk~~~~~~Y~~~~~G~~h~~~F~~~v~v~~~~-~~~g~g~sKK~Ak~~AA~~al~~L~~~  173 (179)
T 1qu6_A          103 MGNYIGLINRIAQKKRLTVNYEQCASGVHGPEGFHYKCKMGQKE-YSIGTGSTKQEAKQLAAKLAYLQILSE  173 (179)
T ss_dssp             CCCCHHHHHHHHHHSCCEEEEEEEEECSSSSSEEEEEEEEETTB-CCEEEESSHHHHHHHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHhcCCcceEEecCcCCCCCCeEEEEEEECCEE-EeeEEECCHHHHHHHHHHHHHHHHhcc
Confidence            46999999999999955669998889999999999999999975 699999999999999999999999764

>2a11_A Ribonuclease III, RNAse III; nuclease domain, structural genomic protein structure initiative; 2.10A {Mycobacterium tuberculosis}

Probab=99.65  E-value=8.8e-18  Score=128.26  Aligned_cols=72  Identities=24%  Similarity=0.254  Sum_probs=0.0

Q ss_pred             CCChHHHHHHHHHhc-CCCceEEEEeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHHcC
Q psy14233          4 DGLVKAFLNEWCQKN-SKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRSG   76 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~-~~~p~Y~~~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~~   76 (122)
                      ..|||+.||||||++ +..|+|++...||+|.+.|+|.|+|+|+ +++.|.|.|||+||+.||+.||+.|..++
T Consensus       161 ~~dpkt~Lqe~~q~~~~~~p~Y~~~~~Gp~h~~~F~v~v~v~g~-~~~~G~G~skk~Ae~~AA~~AL~~L~~~~  233 (242)
T 2a11_A          161 GLDWKTSLQELTAARGLGAPSYLVTSTGPDHDKEFTAVVVVMDS-EYGSGVGRSKKEAEQKAAAAAWKALEVLD  233 (242)
T ss_dssp             --------------------------------------------------------------------------
T ss_pred             cCChHHHHHHHHHHhCCCCCeEEEeccCCCCCCeEEEEEEECCE-EEEEeeeCCHHHHHHHHHHHHHHHHhhcc
Confidence            369999999999999 6789999866999999999999999997 47999999999999999999999997543

>3n3w_A Ribonuclease III; nuclease domain, ribonuclase III, IDP90862, csgid, structura genomics; 2.21A {Campylobacter jejuni subsp}

Probab=99.63  E-value=1.7e-17  Score=127.73  Aligned_cols=69  Identities=30%  Similarity=0.350  Sum_probs=0.0

Q ss_pred             CCChHHHHHHHHHhc-CCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKN-SKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~-~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      ..|||+.||||||++ +..|.|++ ...||+|.+.|+|.|.|+|+. ++.|.|.|||+||+.||+.||+.|.
T Consensus       176 ~~dpks~LqE~~q~~~~~~p~Y~~~~~~Gp~h~~~F~v~v~v~g~~-~~~G~G~SKK~Aeq~AA~~AL~~L~  246 (248)
T 3n3w_A          176 IKDYKTKLQEITQGKIGQTPQYETVRAFGPDHLKQFEIALMLDGKE-LARAIAGSKKEAQQMAAKIALEKLG  246 (248)
T ss_dssp             ------------------------------------------------------------------------
T ss_pred             ccCHHHHHHHHHHHcCCCCCceEEeeccCCCCCceEEEEEEECCEE-EEEeeeCCHHHHHHHHHHHHHHHHH
Confidence            479999999999999 68899997 478999999999999999974 7999999999999999999999885

>2l3j_A Double-stranded RNA-specific editase 1; editing, dsRNA recognition, DSRBM, hydrolase-RNA complex; NMR {Rattus norvegicus}

Probab=99.60  E-value=3.4e-15  Score=114.18  Aligned_cols=66  Identities=23%  Similarity=0.266  Sum_probs=59.3

Q ss_pred             CCChHHHHHHHHHhcCCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHHc
Q psy14233          4 DGLVKAFLNEWCQKNSKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRS   75 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~   75 (122)
                      ..|||++||||    +..|.|++ ...||+|.+.|+|.|.|+|..  ..|.|+|||+|||.||+.||+.|...
T Consensus       160 ~~d~ks~LqE~----~~~p~Y~~~~~~Gp~h~~~F~~~v~v~~~~--~~G~G~sKK~Aeq~AA~~al~~L~~~  226 (236)
T 2l3j_A          160 GKNPVMILNEL----RPGLKYDFLSESGESHAKSFVMSVVVDGQF--FEGSGRNKKLAKARAAQSALATVFNL  226 (236)
T ss_dssp             SCCHHHHHHHH----CCCEEEEEECCSSSSSSCCEEEEEEETTEE--EEEEESSHHHHHHHHHHHHHHHHTTC
T ss_pred             CCCHHHHHHhc----CCCCcEEEEEeeCCCCCCeEEEEEEECCEE--EEeeeCCHHHHHHHHHHHHHHHHccc
Confidence            36999999999    57899997 468999999999999999974  48999999999999999999999643

>2l3j_A Double-stranded RNA-specific editase 1; editing, dsRNA recognition, DSRBM, hydrolase-RNA complex; NMR {Rattus norvegicus}

Probab=99.57  E-value=1.3e-14  Score=111.04  Aligned_cols=70  Identities=23%  Similarity=0.295  Sum_probs=62.6

Q ss_pred             CCCChHHHHHHHHHhcCCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHHc
Q psy14233          3 GDGLVKAFLNEWCQKNSKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRS   75 (122)
Q Consensus         3 ~~~n~ks~L~E~~qk~~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~   75 (122)
                      +..|||+.|++|++. +..|.|++ ...||+|.++|++.|.|+|..  +.|.|.|||+||+.||+.||+.|...
T Consensus         2 ~~~~~K~~l~~l~e~-~~~p~Y~~~~~~Gp~H~~~F~~~v~v~g~~--~~G~G~SKK~Aeq~AA~~al~~l~~~   72 (236)
T 2l3j_A            2 GPVLPKNALMQLNEI-KPGLQYMLLSQTGPVHAPLFVMSVEVNGQV--FEGSGPTKKKAKLHAAEKALRSFVQF   72 (236)
T ss_dssp             CCCCTHHHHHHHHHH-CSSCEEEEEEEESCTTSCEEEEEEEETTEE--EEEEESHHHHHHHHHHHHHHHHHTTC
T ss_pred             CCCCCcCHHHHHhhc-CCCceEEEEeccCCCCCCeEEEEEEECCEE--EEEecCChHHHHHHHHHHHHHHHHhc
Confidence            567999999999976 67899998 468999999999999999975  48999999999999999999999753

>2yt4_A Protein DGCR8; DSRBD, RNA binding domain, RNA binding protein; 2.60A {Homo sapiens}

Probab=99.54  E-value=1e-14  Score=111.39  Aligned_cols=66  Identities=17%  Similarity=0.168  Sum_probs=53.4

Q ss_pred             CCChHHHHHHHHHhc-CCCceEE--E-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKN-SKQPEFD--V-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVR   74 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~-~~~p~Y~--~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~   74 (122)
                      ..|||+.||| |+++ +..|.|+  + ...||+|.+.|+|.|.  +  +++.|.|.|||+||+.||+.||+.|..
T Consensus       129 ~~d~kt~LqE-~~~~~~~~p~Y~~~~~~~~Gp~h~~~F~~~v~--~--~~~~G~G~sKK~Aeq~AA~~aL~~L~~  198 (232)
T 2yt4_A          129 LLSPYQILHE-CLKRNHGMGDTSIKFEVVPGKNQKSEYVMACG--K--HTVRGWCKNKRVGKQLASQKILQLLHP  198 (232)
T ss_dssp             CCCHHHHHHH-HHHTSSSCCCEEEECC------CCEEEEEEET--T--EEEEEEESSHHHHHHHHHHHHHHHHST
T ss_pred             CCChhHHHHH-HHHcCCCCCceEEEEeecCCCCCCCEEEEEEE--E--EEEEEEeCCHHHHHHHHHHHHHHHHHh
Confidence            4699999999 8888 7889999  4 4689999999999886  5  369999999999999999999999953

>3rv0_A K. polysporus DCR1; RNAse III enzyme, RNA binding protein; 2.29A {Vanderwaltozyma polyspora}

Probab=99.32  E-value=1.3e-13  Score=110.63  Aligned_cols=65  Identities=20%  Similarity=0.191  Sum_probs=0.0

Q ss_pred             CCChHHHHHHHHHhc-CC-CceEEEE-eeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKN-SK-QPEFDVR-AAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVR   74 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~-~~-~p~Y~~~-~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~   74 (122)
                      ..|||+.||||||++ +. .|.|++. ..||     |++.|+|+|+. +|.|.|.|||+|||.||+.||+.|..
T Consensus       253 ~~d~Kt~LqE~~Q~~~~~~~~~Y~~~~~~Gp-----F~v~v~i~~~~-~g~G~G~SKK~AEq~AA~~AL~~L~~  320 (341)
T 3rv0_A          253 NKNAKNELAELLQINKLGHKLHYRKLTEMPP-----FRVEVKIGDIL-LDEAEGNSIREAEHRAAMKVLENDEL  320 (341)
T ss_dssp             --------------------------------------------------------------------------
T ss_pred             ccCHHHHHHHHHHHcCCCCCceEEEEeccCC-----EEEEEEECCEE-EEEEEeCCHHHHHHHHHHHHHHHhhh
Confidence            369999999999998 44 5799974 5564     99999999974 79999999999999999999999974

>3c4b_A Endoribonuclease dicer; RNAse, dsRNA binding protein, ATP-binding, endonuclease, HEL hydrolase, nucleotide-binding, phosphoprotein, RN binding; HET: MSE; 1.68A {Mus musculus} PDB: 3c4t_A 2eb1_A

Probab=99.22  E-value=3.2e-11  Score=92.70  Aligned_cols=65  Identities=15%  Similarity=0.188  Sum_probs=48.1

Q ss_pred             hHHHHHHHHHhcCCCceEEEEeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHH
Q psy14233          7 VKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVR   74 (122)
Q Consensus         7 ~ks~L~E~~qk~~~~p~Y~~~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~   74 (122)
                      ||+.|+||++.....+.|.  ..++.|.+.|++.|.|+|.. +|.|.|.|||+|||.||+.||+.|..
T Consensus       199 ~k~~l~el~~~~~~~~~~~--~~~~~~~~~f~v~v~v~~~~-~~~G~G~SkK~Aeq~AA~~AL~~l~~  263 (265)
T 3c4b_A          199 PRSPVRELLEMEPETAKFS--PAERTYDGKVRVTVEVVGKG-KFKGVGRSYRIAKSAAARRALRSLKA  263 (265)
T ss_dssp             CCCHHHHHHHHCTTTEEEC--CCEECTTSCEEEEEEETTTE-EEEEEESSHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHhccCCceee--eccccCCCcEEEEEEEecce-EEEEeeCCHHHHHHHHHHHHHHHHhh
Confidence            4444444444442223332  23346899999999999975 79999999999999999999999964

>2kou_A Dicer-like protein 4; ATP-binding, endonuclease, helicase, hydrolase, nuclease, nucleotide-binding, nucleus, RNA- binding; NMR {Arabidopsis thaliana}

Probab=98.12  E-value=2e-05  Score=52.97  Aligned_cols=79  Identities=16%  Similarity=0.308  Sum_probs=60.3

Q ss_pred             CCChHHHHHHHHHhc-C-----CCceEEEEeeCCCCCccEEEEEEECC----EEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKN-S-----KQPEFDVRAAGPKHRQRFLCELRIAG----IGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~-~-----~~p~Y~~~~~Gp~h~~~F~~~V~v~g----~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      ..+.++.|+.||++. .     ..|.|.+..... ....| |+|.+-.    +.+.|.-. .||+.||+.||-+|+..|.
T Consensus         3 ~~sAi~lL~~yC~~Lp~d~~~~~~P~~~~~~~~~-~~~~~-c~v~LP~~splr~i~g~~~-~sk~~AK~sAAf~Ac~~L~   79 (102)
T 2kou_A            3 GGSSISMMYKYCSRLPHDEFFQPKPEFQFKPVDE-FGGTI-CRITLPANAPISEIESSLL-PSTEAAKKDACLKAVHELH   79 (102)
T ss_dssp             CSHHHHHHHHHHTTSSSCTTCCSSCEEEEEECCG-GGCEE-EEEECCTTCSSCCEEEEEE-SSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCccccCccceEEEeEeec-CCCeE-EEEECCCCCCCCeeeCCcc-ccHHHHHHHHHHHHHHHHH
Confidence            357889999999997 2     479999754321 23467 9988632    12456666 9999999999999999999


Q ss_pred             HcCCCCCCCCCC
Q psy14233         74 RSGQVNERDVPV   85 (122)
Q Consensus        74 ~~~~~~~~~~p~   85 (122)
                      +.|.++..-+|.
T Consensus        80 ~~G~Ldd~LlP~   91 (102)
T 2kou_A           80 NLGVLNDFLLPD   91 (102)
T ss_dssp             HHCSCTTTSCCH
T ss_pred             HCCCCccccCCC
Confidence            999998876664

>2db2_A KIAA0890 protein; DSRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=96.93  E-value=0.0037  Score=42.78  Aligned_cols=79  Identities=20%  Similarity=0.140  Sum_probs=56.4

Q ss_pred             CCChHHHHHHHHHhc-CC--CceEEE--EeeCCCCCccEEEEEEEC--CEEEEEeEeccCHHHHHHHHHHHHHHHHHHcC
Q psy14233          4 DGLVKAFLNEWCQKN-SK--QPEFDV--RAAGPKHRQRFLCELRIA--GIGYVGAGNSTNKKDAQTNAAKDFVQYLVRSG   76 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~-~~--~p~Y~~--~~~Gp~h~~~F~~~V~v~--g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~~   76 (122)
                      .-.||++|+...|.- ..  .-.|.+  ...|   .+.=.|.+.+.  -. +..+|.|+.|-+||..||-.||+.|...|
T Consensus        16 Fp~PKnLL~~ViqrA~~ss~~kd~l~~~~t~g---~k~K~~tl~l~WP~~-mef~a~G~rK~eAE~kAAA~AC~kLK~Lg   91 (119)
T 2db2_A           16 FPQPKNLLNSVIGRALGISHAKDKLVYVHTNG---PKKKKVTLHIKWPKS-VEVEGYGSKKIDAERQAAAAACQLFKGWG   91 (119)
T ss_dssp             CSCHHHHHHHHHHHHTTHHHHHHHEEEEECCS---SSSEEEEEEECSSSC-EEEEEEESSHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCChHHHHHHHHHHHHccCchhhheeEEeecC---CceeEEEEEecCCCc-EEEEeeccchHHHHHHHHHHHHHHHHHcC
Confidence            348999999998886 31  223322  1223   22235555553  32 35688999999999999999999999999


Q ss_pred             CCCCCCCCCC
Q psy14233         77 QVNERDVPVE   86 (122)
Q Consensus        77 ~~~~~~~p~~   86 (122)
                      .+...+.|..
T Consensus        92 ll~p~n~pl~  101 (119)
T 2db2_A           92 LLGPRNELFD  101 (119)
T ss_dssp             SSCTTCCCCC
T ss_pred             ccCCCCCcch
Confidence            9999888754

>3htx_A HEN1; HEN1, small RNA methyltransferase, protein-RNA complex; HET: SAH; 3.10A {Arabidopsis thaliana}

Probab=96.15  E-value=0.0085  Score=53.43  Aligned_cols=66  Identities=23%  Similarity=0.331  Sum_probs=48.5

Q ss_pred             CChHHHHHHHHHhcCCCceEEEEe------eC------CCCC-ccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHH
Q psy14233          5 GLVKAFLNEWCQKNSKQPEFDVRA------AG------PKHR-QRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQY   71 (122)
Q Consensus         5 ~n~ks~L~E~~qk~~~~p~Y~~~~------~G------p~h~-~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~   71 (122)
                      ..||..+++   |.+..+.|.+++      .|      |... -.|.|.+-+-+.. +-.+.-+-||+|||.||+.||++
T Consensus        17 ~~pk~~~~q---~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~lp~~~-~~~~~~~~kkd~eq~aa~~al~~   92 (950)
T 3htx_A           17 PTPKAIIHQ---KFGAKASYTVEEVHDSSQSGCPGLAIPQKGPCLYRCHLQLPEFS-VVSNVFKKKKDSEQSAAELALDK   92 (950)
T ss_dssp             CCCHHHHHH---TTGGGSEEEEEEECCSCSCCCTTCCSCCCCCCEEEEEEECSSCE-EECCCBSCHHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHH---HhCcceeeeehhhhcccCCCCCccccCCCCCeeEEEEeeCCCce-EecchhhccccHHHHHHHHHHHH
Confidence            378888763   445669997742      11      1222 2799999987764 34799999999999999999999


Q ss_pred             HHH
Q psy14233         72 LVR   74 (122)
Q Consensus        72 L~~   74 (122)
                      |..
T Consensus        93 ~g~   95 (950)
T 3htx_A           93 LGI   95 (950)
T ss_dssp             TTS
T ss_pred             hCC
Confidence            854

---

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	122
d1whqa_	99	d.50.1.1 (A:) ATP-dependent RNA helicase A, Dhx9 {	2e-23
d1uila_	113	d.50.1.1 (A:) ATP-dependent RNA helicase A, Dhx9 {	4e-16
d1t4oa_	81	d.50.1.1 (A:) RNase III, C-terminal domain {Baker'	2e-12
d1x48a1	76	d.50.1.1 (A:8-83) dsRNA-dependent protein kinase p	4e-12
d1x49a1	85	d.50.1.1 (A:8-92) dsRNA-dependent protein kinase p	3e-11
d2nuga2	68	d.50.1.1 (A:151-218) RNase III, C-terminal domain	5e-11
d1o0wa2	69	d.50.1.1 (A:168-236) RNase III, C-terminal domain	8e-11
d1x47a1	85	d.50.1.1 (A:8-92) Dgcr8 protein {Human (Homo sapie	1e-10
d1ekza_	76	d.50.1.1 (A:) Staufen, domain III {Fruit fly (Dros	3e-09
d1qu6a1	90	d.50.1.1 (A:1-90) dsRNA-dependent protein kinase p	3e-09
d1qu6a2	89	d.50.1.1 (A:91-179) dsRNA-dependent protein kinase	5e-09
d2b7va1	71	d.50.1.1 (A:1-71) dsRNA-specific editase 1 {Rat (R	4e-08
d2dixa1	73	d.50.1.1 (A:7-79) Interferon-inducible double stra	1e-07
d1di2a_	69	d.50.1.1 (A:) Double-stranded RNA-binding protein	6e-07
d1whna_	128	d.50.1.1 (A:) tRNA-dihydrouridine synthase 2-like,	7e-07
d2dmya1	84	d.50.1.1 (A:8-91) Spermatid perinuclear RNA-bindin	1e-06
d2b7ta1	73	d.50.1.1 (A:1-73) dsRNA-specific editase 1 {Rat (R	9e-06
d2cpna1	76	d.50.1.1 (A:150-225) TAR RNA-binding protein 2 {Hu	6e-05
d1uhza_	89	d.50.1.1 (A:) staufen homolog 2 {Mouse (Mus muscul	7e-04

>d1whqa_ d.50.1.1 (A:) ATP-dependent RNA helicase A, Dhx9 {Mouse (Mus musculus) [TaxId: 10090]} Length = 99

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: ATP-dependent RNA helicase A, Dhx9
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 84.8 bits (209), Expect = 2e-23
 Identities = 50/95 (52%), Positives = 64/95 (67%)

Query: 2  SGDGLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQ 61
          SG   +K FL  WC K    P +++RA G K+RQ+F+CE+R+ G  Y G GNSTNKKDAQ
Sbjct: 3  SGSSGIKNFLYAWCGKRKMTPAYEIRAVGNKNRQKFMCEVRVEGFNYAGMGNSTNKKDAQ 62

Query: 62 TNAAKDFVQYLVRSGQVNERDVPVENIPMTPTGPS 96
          +NAA+DFV YLVR  +V   +VP   I   P+GPS
Sbjct: 63 SNAARDFVNYLVRINEVKSEEVPAVGIVPPPSGPS 97

>d1uila_ d.50.1.1 (A:) ATP-dependent RNA helicase A, Dhx9 {Mouse (Mus musculus) [TaxId: 10090]} Length = 113

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: ATP-dependent RNA helicase A, Dhx9
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 66.6 bits (162), Expect = 4e-16
 Identities = 23/77 (29%), Positives = 34/77 (44%), Gaps = 4/77 (5%)

Query: 8   KAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIA----GIGYVGAGNSTNKKDAQTN 63
           KA LN++ QK   Q E+     GP H + F+ E+ I     G       + +NKK A  +
Sbjct: 29  KARLNQYFQKEKIQGEYKYTQVGPDHNRSFIAEMTIYIKQLGRRIFAREHGSNKKLAAQS 88

Query: 64  AAKDFVQYLVRSGQVNE 80
            A   V+ L   G +  
Sbjct: 89  CALSLVRQLYHLGVIEA 105

>d1t4oa_ d.50.1.1 (A:) RNase III, C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 81

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: RNase III, C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 56.2 bits (135), Expect = 2e-12
 Identities = 12/65 (18%), Positives = 21/65 (32%)

Query: 8  KAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKD 67
          K  L       S +  +             + E R+     +G G   N K A   AA++
Sbjct: 9  KRQLYSLIGYASLRLHYVTVKKPTAVDPNSIVECRVGDGTVLGTGVGRNIKIAGIRAAEN 68

Query: 68 FVQYL 72
           ++  
Sbjct: 69 ALRDK 73

>d1x48a1 d.50.1.1 (A:8-83) dsRNA-dependent protein kinase pkr {Mouse (Mus musculus) [TaxId: 10090]} Length = 76

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: dsRNA-dependent protein kinase pkr
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 55.4 bits (133), Expect = 4e-12
 Identities = 19/68 (27%), Positives = 34/68 (50%), Gaps = 1/68 (1%)

Query: 8  KAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKD 67
             +N + QK      ++      +  QRF+C+ +I    Y G G+   K++A+  AAK+
Sbjct: 2  IGLVNSFAQKKKLSVNYEQCEPNSELPQRFICKCKIGQTMY-GTGSGVTKQEAKQLAAKE 60

Query: 68 FVQYLVRS 75
            Q L++S
Sbjct: 61 AYQKLLKS 68

>d1x49a1 d.50.1.1 (A:8-92) dsRNA-dependent protein kinase pkr {Mouse (Mus musculus) [TaxId: 10090]} Length = 85

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: dsRNA-dependent protein kinase pkr
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 53.1 bits (127), Expect = 3e-11
 Identities = 19/84 (22%), Positives = 34/84 (40%), Gaps = 4/84 (4%)

Query: 1  MSGD--GLVKAFLNEWCQKNSKQPEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNK 57
          M+ D  G     LN++ Q +     +  +  +GP H +RF     +            +K
Sbjct: 1  MASDTPGFYMDKLNKYRQMHGVAITYKELSTSGPPHDRRF-TFQVLIDEKEFPEAKGRSK 59

Query: 58 KDAQTNAAKDFVQYLVRSGQVNER 81
          ++A+  AAK  V  L    +V+  
Sbjct: 60 QEARNAAAKLAVDILDNENKVDCH 83

>d2nuga2 d.50.1.1 (A:151-218) RNase III, C-terminal domain {Aquifex aeolicus [TaxId: 63363]} Length = 68

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: RNase III, C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

 Score = 52.3 bits (125), Expect = 5e-11
 Identities = 23/67 (34%), Positives = 38/67 (56%), Gaps = 4/67 (5%)

Query: 8  KAFLNEWCQKNSKQ-PEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAA 65
          K  L E  QK  K+ PE+  +   GP H+++F+ E +I     +G G S  KK+A+  AA
Sbjct: 3  KTILQEITQKRWKERPEYRLISVEGPHHKKKFIVEAKIKEYRTLGEGKS--KKEAEQRAA 60

Query: 66 KDFVQYL 72
          ++ ++ L
Sbjct: 61 EELIKLL 67

>d1o0wa2 d.50.1.1 (A:168-236) RNase III, C-terminal domain {Thermotoga maritima [TaxId: 2336]} Length = 69

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: RNase III, C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

 Score = 51.8 bits (124), Expect = 8e-11
 Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 3/68 (4%)

Query: 8  KAFLNEWCQKNSK-QPEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAA 65
          K  L E  Q   K  PE+  VR       + F+ E+R+ G      G    KK+A+  AA
Sbjct: 3  KTALQEIVQSEHKVPPEYILVRTEKNDGDRIFVVEVRVNGKTI-ATGKGRTKKEAEKEAA 61

Query: 66 KDFVQYLV 73
          +   + L+
Sbjct: 62 RIAYEKLL 69

>d1x47a1 d.50.1.1 (A:8-92) Dgcr8 protein {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: Dgcr8 protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.5 bits (123), Expect = 1e-10
 Identities = 16/66 (24%), Positives = 31/66 (46%), Gaps = 1/66 (1%)

Query: 8  KAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKD 67
             L+E+ Q+  K              + F   + I G+ Y G+G +++KK A+  AA+ 
Sbjct: 12 VCILHEYMQRVLKVRPVYNFFECENPSEPFGASVTIDGVTY-GSGTASSKKLAKNKAARA 70

Query: 68 FVQYLV 73
           ++ L+
Sbjct: 71 TLEILI 76

>d1ekza_ d.50.1.1 (A:) Staufen, domain III {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 76

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: Staufen, domain III
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score = 48.1 bits (114), Expect = 3e-09
 Identities = 15/66 (22%), Positives = 27/66 (40%), Gaps = 3/66 (4%)

Query: 8  KAFLNEWCQKNSKQPEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAK 66
           + ++E   K +    F  +R  GP H + F+    +     V  G    KK ++  AA+
Sbjct: 10 ISQVHEIGIKRNMTVHFKVLREEGPAHMKNFITACIV--GSIVTEGEGNGKKVSKKRAAE 67

Query: 67 DFVQYL 72
            +  L
Sbjct: 68 KMLVEL 73

>d1qu6a1 d.50.1.1 (A:1-90) dsRNA-dependent protein kinase pkr {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: dsRNA-dependent protein kinase pkr
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.1 bits (114), Expect = 3e-09
 Identities = 24/76 (31%), Positives = 38/76 (50%), Gaps = 5/76 (6%)

Query: 1  MSGD---GLVKAFLNEWCQKNSKQPEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTN 56
          M+GD   G     LN + QK     ++  +  +GP H +RF  ++ I G  +   G   +
Sbjct: 6  MAGDLSAGFFMEELNTYRQKQGVVLKYQELPNSGPPHDRRFTFQVIIDGREFPE-GEGRS 64

Query: 57 KKDAQTNAAKDFVQYL 72
          KK+A+  AAK  V+ L
Sbjct: 65 KKEAKNAAAKLAVEIL 80

>d1qu6a2 d.50.1.1 (A:91-179) dsRNA-dependent protein kinase pkr {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: dsRNA-dependent protein kinase pkr
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.5 bits (112), Expect = 5e-09
 Identities = 13/65 (20%), Positives = 26/65 (40%), Gaps = 1/65 (1%)

Query: 8  KAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKD 67
             +N   QK      ++  A+G    + F  + ++ G      G  + K++A+  AAK 
Sbjct: 17 IGLINRIAQKKRLTVNYEQCASGVHGPEGFHYKCKM-GQKEYSIGTGSTKQEAKQLAAKL 75

Query: 68 FVQYL 72
              +
Sbjct: 76 AYLQI 80

>d2b7va1 d.50.1.1 (A:1-71) dsRNA-specific editase 1 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 71

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: dsRNA-specific editase 1
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 44.8 bits (106), Expect = 4e-08
 Identities = 15/66 (22%), Positives = 30/66 (45%), Gaps = 7/66 (10%)

Query: 8  KAFLNEWCQKNSKQPEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAK 66
             LNE         ++D +  +G  H + F+  + + G  + G+G +  KK A+  AA+
Sbjct: 7  VMILNELRPG----LKYDFLSESGESHAKSFVMSVVVDGQFFEGSGRN--KKLAKARAAQ 60

Query: 67 DFVQYL 72
            +  +
Sbjct: 61 SALATV 66

>d2dixa1 d.50.1.1 (A:7-79) Interferon-inducible double stranded RNA-dependent protein kinase activator A {Human (Homo sapiens) [TaxId: 9606]} Length = 73

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: Interferon-inducible double stranded RNA-dependent protein kinase activator A
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.9 bits (103), Expect = 1e-07
 Identities = 16/66 (24%), Positives = 25/66 (37%), Gaps = 3/66 (4%)

Query: 8  KAFLNEWCQKNSKQPEFDVRA-AGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAK 66
             L+E+  K    P ++        H   F   + +  I   G G S  KK A+  AA+
Sbjct: 5  IQVLHEYGMKTKNIPVYECERSDVQIHVPTFTFRVTVGDITCTGEGTS--KKLAKHRAAE 62

Query: 67 DFVQYL 72
            +  L
Sbjct: 63 AAINIL 68

>d1di2a_ d.50.1.1 (A:) Double-stranded RNA-binding protein A, second dsRBD {Xenopus laevis [TaxId: 8355]} Length = 69

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: Double-stranded RNA-binding protein A, second dsRBD
species: Xenopus laevis [TaxId: 8355]

 Score = 41.6 bits (97), Expect = 6e-07
 Identities = 16/67 (23%), Positives = 31/67 (46%), Gaps = 4/67 (5%)

Query: 8  KAFLNEWCQKNSKQ-PEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAA 65
             L E   +   + PE+   + +GP H++ F    R+    +V  G+ T+K+ A+  AA
Sbjct: 3  VGSLQELAVQKGWRLPEYTVAQESGPPHKREFTITCRV--ETFVETGSGTSKQVAKRVAA 60

Query: 66 KDFVQYL 72
          +  +   
Sbjct: 61 EKLLTKF 67

>d1whna_ d.50.1.1 (A:) tRNA-dihydrouridine synthase 2-like, Dus2l (2310016k04Rik) {Mouse (Mus musculus) [TaxId: 10090]} Length = 128

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: tRNA-dihydrouridine synthase 2-like, Dus2l (2310016k04Rik)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 42.8 bits (100), Expect = 7e-07
 Identities = 15/74 (20%), Positives = 27/74 (36%), Gaps = 2/74 (2%)

Query: 8   KAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKD 67
           K  L EWC++                 + F   + +A   Y       +KK A+  AA  
Sbjct: 29  KMCLLEWCRREKLPQPVY-ETVQRTIDRMFCSVVTVAEQKYQSTLWDKSKKLAEQTAAIV 87

Query: 68  FVQYL-VRSGQVNE 80
            ++   +  G++ E
Sbjct: 88  CLRSQGLPEGRLGE 101

>d2dmya1 d.50.1.1 (A:8-91) Spermatid perinuclear RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 84

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: Spermatid perinuclear RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.4 bits (97), Expect = 1e-06
 Identities = 15/63 (23%), Positives = 27/63 (42%), Gaps = 7/63 (11%)

Query: 11 LNEWCQKNSKQPEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFV 69
          LN+         ++  +  +GP H   F   + + G  Y  +G S  KK A+ + A   +
Sbjct: 18 LNQIRP----GLQYKLLSQSGPVHAPVFTMSVDVDGTTYEASGPS--KKTAKLHVAVKVL 71

Query: 70 QYL 72
          Q +
Sbjct: 72 QAM 74

>d2b7ta1 d.50.1.1 (A:1-73) dsRNA-specific editase 1 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 73

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: dsRNA-specific editase 1
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 38.7 bits (90), Expect = 9e-06
 Identities = 16/65 (24%), Positives = 31/65 (47%), Gaps = 7/65 (10%)

Query: 11 LNEWCQKNSKQPEFD-VRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFV 69
          LNE         ++  +   GP H   F+  + + G  + G+G +  KK A+ +AA+  +
Sbjct: 13 LNEIK----PGLQYMLLSQTGPVHAPLFVMSVEVNGQVFEGSGPT--KKKAKLHAAEKAL 66

Query: 70 QYLVR 74
          +  V+
Sbjct: 67 RSFVQ 71

>d2cpna1 d.50.1.1 (A:150-225) TAR RNA-binding protein 2 {Human (Homo sapiens) [TaxId: 9606]} Length = 76

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: TAR RNA-binding protein 2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.7 bits (84), Expect = 6e-05
 Identities = 11/65 (16%), Positives = 21/65 (32%)

Query: 8  KAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKD 67
             L E   +   +              R    +      ++  G+ T+KK A+ NAA  
Sbjct: 12 VGALQELVVQKGWRLPEYTVTQESGPAHRKEFTMTCRVERFIEIGSGTSKKLAKRNAAAK 71

Query: 68 FVQYL 72
           +  +
Sbjct: 72 MLLRV 76

>d1uhza_ d.50.1.1 (A:) staufen homolog 2 {Mouse (Mus musculus) [TaxId: 10090]} Length = 89

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: staufen homolog 2
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 34.1 bits (77), Expect = 7e-04
 Identities = 13/65 (20%), Positives = 26/65 (40%)

Query: 8  KAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKD 67
           + L +  Q   ++    +  +     +R    +++     V  G   NKK A+ NAA+ 
Sbjct: 9  ISRLAQIQQARKEKEPDYILLSERGMPRRREFVMQVKVGNEVATGTGPNKKIAKKNAAEA 68

Query: 68 FVQYL 72
           +  L
Sbjct: 69 MLLQL 73

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	122
d1whqa_	99	ATP-dependent RNA helicase A, Dhx9 {Mouse (Mus mus	99.94
d1o0wa2	69	RNase III, C-terminal domain {Thermotoga maritima	99.89
d1x48a1	76	dsRNA-dependent protein kinase pkr {Mouse (Mus mus	99.88
d2dixa1	73	Interferon-inducible double stranded RNA-dependent	99.88
d2nuga2	68	RNase III, C-terminal domain {Aquifex aeolicus [Ta	99.88
d1x49a1	85	dsRNA-dependent protein kinase pkr {Mouse (Mus mus	99.87
d2cpna1	76	TAR RNA-binding protein 2 {Human (Homo sapiens) [T	99.87
d1uila_	113	ATP-dependent RNA helicase A, Dhx9 {Mouse (Mus mus	99.87
d1uhza_	89	staufen homolog 2 {Mouse (Mus musculus) [TaxId: 10	99.87
d1qu6a2	89	dsRNA-dependent protein kinase pkr {Human (Homo sa	99.87
d1qu6a1	90	dsRNA-dependent protein kinase pkr {Human (Homo sa	99.86
d1di2a_	69	Double-stranded RNA-binding protein A, second dsRB	99.86
d1x47a1	85	Dgcr8 protein {Human (Homo sapiens) [TaxId: 9606]}	99.84
d1ekza_	76	Staufen, domain III {Fruit fly (Drosophila melanog	99.83
d1whna_	128	tRNA-dihydrouridine synthase 2-like, Dus2l (231001	99.78
d2b7va1	71	dsRNA-specific editase 1 {Rat (Rattus norvegicus)	99.77
d1t4oa_	81	RNase III, C-terminal domain {Baker's yeast (Sacch	99.77
d2dmya1	84	Spermatid perinuclear RNA-binding protein {Human (	99.69
d2b7ta1	73	dsRNA-specific editase 1 {Rat (Rattus norvegicus)	99.68

>d1whqa_ d.50.1.1 (A:) ATP-dependent RNA helicase A, Dhx9 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: ATP-dependent RNA helicase A, Dhx9
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.94  E-value=3.6e-27  Score=158.49  Aligned_cols=95  Identities=53%  Similarity=0.969  Sum_probs=84.9

Q ss_pred             CCCCChHHHHHHHHHhcCCCceEEEEeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHHcCCCCCC
Q psy14233          2 SGDGLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRSGQVNER   81 (122)
Q Consensus         2 ~~~~n~ks~L~E~~qk~~~~p~Y~~~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~~~~~~~   81 (122)
                      ++..|||+.||||||+++..|.|++.+.|++|.++|.|.|.|+|..+++.|.|.|||+||+.||+.||+.|...+.+..+
T Consensus         3 ~~~~~~Ks~LqE~~qk~k~~P~Y~~~~~G~~h~~~F~~~v~v~g~~~~~~g~g~sKK~AEq~AA~~al~~L~~~~~~~~~   82 (99)
T d1whqa_           3 SGSSGIKNFLYAWCGKRKMTPAYEIRAVGNKNRQKFMCEVRVEGFNYAGMGNSTNKKDAQSNAARDFVNYLVRINEVKSE   82 (99)
T ss_dssp             CCCCSSHHHHHHHHHHTTCCCEEEEEEEECSSSEEEEEEEECTTCSCCEEEEESSHHHHHHHHHHHHHHHHHHHTSSCTT
T ss_pred             CCCccHHHHHHHHHHhCCCCCeEEEecccCCCCceEEEEEEeccccceeccCCccHHHHHHHHHHHHHHHHHHcCCCChh
Confidence            67899999999999999667999998889999999999999999777799999999999999999999999999999999


Q ss_pred             CCCCCCCCCCCCCCC
Q psy14233         82 DVPVENIPMTPTGPS   96 (122)
Q Consensus        82 ~~p~~~~~~~~~~~~   96 (122)
                      ++|......++.+|+
T Consensus        83 ~~P~~~~~~~~~~p~   97 (99)
T d1whqa_          83 EVPAVGIVPPPSGPS   97 (99)
T ss_dssp             TSCCCCCCCCCCCTT
T ss_pred             hCCCCCCCCCCCCCC
Confidence            999877545554443

>d1o0wa2 d.50.1.1 (A:168-236) RNase III, C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: RNase III, C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.89  E-value=2.9e-23  Score=130.09  Aligned_cols=66  Identities=27%  Similarity=0.384  Sum_probs=62.4

Q ss_pred             ChHHHHHHHHHhc-CCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHH
Q psy14233          6 LVKAFLNEWCQKN-SKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYL   72 (122)
Q Consensus         6 n~ks~L~E~~qk~-~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L   72 (122)
                      |||+.||||||++ +..|.|++ ...||+|.+.|++.|.|+|.. ++.|.|+|||+||+.||+.||+.|
T Consensus         1 d~Ks~LqE~~Qk~~~~~P~Y~~~~~~g~~h~~~F~~~v~v~~~~-~~~g~g~sKK~Aeq~AA~~aL~~L   68 (69)
T d1o0wa2           1 DYKTALQEIVQSEHKVPPEYILVRTEKNDGDRIFVVEVRVNGKT-IATGKGRTKKEAEKEAARIAYEKL   68 (69)
T ss_dssp             CHHHHHHHHHHHHHSSCCEEEEEEEECCTTSCEEEEEEEETTEE-EEEEEESSHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHcCCCCCEEEEEEeeCCCCCceEEEEEEECCEE-EEEEEeCCHHHHHHHHHHHHHHHh
Confidence            8999999999999 89999997 567999999999999999985 799999999999999999999987

>d1x48a1 d.50.1.1 (A:8-83) dsRNA-dependent protein kinase pkr {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: dsRNA-dependent protein kinase pkr
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.88  E-value=1.8e-22  Score=129.27  Aligned_cols=68  Identities=26%  Similarity=0.436  Sum_probs=63.9

Q ss_pred             hHHHHHHHHHhcCCCceEEEEeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHHc
Q psy14233          7 VKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRS   75 (122)
Q Consensus         7 ~ks~L~E~~qk~~~~p~Y~~~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~   75 (122)
                      |+++||||||+++..+.|.+.+.||+|.+.|+|.|.|+|+. ++.|.|.|||+||+.||+.||+.|..+
T Consensus         1 Y~s~L~E~~Qk~~~~~~~~~~~~G~~h~~~F~~~v~v~~~~-~~~g~G~sKK~Aeq~AA~~Al~~L~~~   68 (76)
T d1x48a1           1 YIGLVNSFAQKKKLSVNYEQCEPNSELPQRFICKCKIGQTM-YGTGSGVTKQEAKQLAAKEAYQKLLKS   68 (76)
T ss_dssp             HHHHHHHHHHHTTCCEEEEECCCSSSSSCCEEEEEEESSCE-EEEEEESSHHHHHHHHHHHHHHHHHHS
T ss_pred             ChHHHHHHHHHhCCCCccccCCcCCCCCCcEEEEEEECCEE-eCCcCccHHHHHHHHHHHHHHHHHHcc
Confidence            79999999999977888988888999999999999999986 699999999999999999999999875

>d2dixa1 d.50.1.1 (A:7-79) Interferon-inducible double stranded RNA-dependent protein kinase activator A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: Interferon-inducible double stranded RNA-dependent protein kinase activator A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.88  E-value=2e-22  Score=127.81  Aligned_cols=70  Identities=23%  Similarity=0.302  Sum_probs=64.1

Q ss_pred             CCChHHHHHHHHHhcCCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHHc
Q psy14233          4 DGLVKAFLNEWCQKNSKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRS   75 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~   75 (122)
                      .+||++.||||||+++..|.|++ ...||+|++.|+|.|.|++.  ++.|.|+|||+||+.||+.||+.|...
T Consensus         1 gK~Pis~L~E~~qk~~~~p~y~~~~~~Gp~h~~~F~~~v~v~~~--~~~g~g~sKK~Aeq~AA~~al~~L~~~   71 (73)
T d2dixa1           1 GKTPIQVLHEYGMKTKNIPVYECERSDVQIHVPTFTFRVTVGDI--TCTGEGTSKKLAKHRAAEAAINILKAN   71 (73)
T ss_dssp             CCCHHHHHHHHHHHTTCCCEEEEEEEECSSSSCEEEEEEEETTE--EEEECSSCTTHHHHHHHHHHHHHHHHT
T ss_pred             CcCHHHHHHHHHHhCCCCCEEEEeeeeCCCCCcEEEEEEEEEEE--EEEeccccHHHHHHHHHHHHHHHHHhc
Confidence            37999999999999966999997 57899999999999999985  589999999999999999999999753

>d2nuga2 d.50.1.1 (A:151-218) RNase III, C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: RNase III, C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=99.88  E-value=1.7e-22  Score=126.49  Aligned_cols=65  Identities=31%  Similarity=0.588  Sum_probs=61.2

Q ss_pred             ChHHHHHHHHHhc-CCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHH
Q psy14233          6 LVKAFLNEWCQKN-SKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYL   72 (122)
Q Consensus         6 n~ks~L~E~~qk~-~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L   72 (122)
                      |||+.||||||++ +..|.|++ ...||+|++.|+|.|.|+|.  .+.|.|+|||+||+.||+.||+.|
T Consensus         1 d~Ks~LqE~~q~~~~~~P~Y~~~~~~g~~h~~~F~~~v~v~~~--~~~g~g~sKK~Aeq~AA~~aL~~L   67 (68)
T d2nuga2           1 DYKTILQEITQKRWKERPEYRLISVEGPHHKKKFIVEAKIKEY--RTLGEGKSKKEAEQRAAEELIKLL   67 (68)
T ss_dssp             CHHHHHHHHHHHHHSCCCEEEEEEEESCGGGCEEEEEEEETTE--EEEEEESSHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHcCCCCCEEEEEEeeCCCCCcEEEEEEEECCE--EEEEecCCHHHHHHHHHHHHHHHh
Confidence            8999999999999 89999996 67899999999999999995  489999999999999999999988

>d1x49a1 d.50.1.1 (A:8-92) dsRNA-dependent protein kinase pkr {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: dsRNA-dependent protein kinase pkr
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.87  E-value=1.3e-22  Score=132.32  Aligned_cols=76  Identities=24%  Similarity=0.316  Sum_probs=67.8

Q ss_pred             CCChHHHHHHHHHhcCCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHHcCCCCC
Q psy14233          4 DGLVKAFLNEWCQKNSKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRSGQVNE   80 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~~~~~~   80 (122)
                      ..|||++||||||+++..|.|.+ ...||+|++.|+|.|.|+|.. ++.|.|.|||+||+.||+.||+.|..++.++.
T Consensus         6 ~~~yk~~L~E~~Qk~~~~~~y~~~~~~Gp~h~~~F~~~v~v~g~~-~~~g~g~sKK~Aeq~AA~~aL~~L~~~~~~~s   82 (85)
T d1x49a1           6 PGFYMDKLNKYRQMHGVAITYKELSTSGPPHDRRFTFQVLIDEKE-FPEAKGRSKQEARNAAAKLAVDILDNENKVDC   82 (85)
T ss_dssp             TTHHHHHHHHHHHHHTCCEEEEEEEEESCSSSCEEEEEEEESSCC-CCCEEESSHHHHHHHHHHHHHHHHTTTCCCCS
T ss_pred             chhHHHHHHHHHHhcCCCCeEEEEEecCCCCCceEEEEEecCceE-eeccccccHHHHHHHHHHHHHHHHHHcCcccc
Confidence            35999999999999966899987 578999999999999999985 69999999999999999999999977655543

>d2cpna1 d.50.1.1 (A:150-225) TAR RNA-binding protein 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: TAR RNA-binding protein 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.87  E-value=6.1e-22  Score=126.32  Aligned_cols=67  Identities=28%  Similarity=0.437  Sum_probs=62.2

Q ss_pred             CCChHHHHHHHHHhc-CCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKN-SKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYL   72 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~-~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L   72 (122)
                      ..|||+.||||||++ +..|.|++ ...|++|.+.|.|.|.|++.  .+.|.|+|||+||+.||+.||+.|
T Consensus         8 ~~npks~LqE~~q~~~~~~P~Y~~~~~~g~~h~~~F~~~v~v~~~--~~~g~G~SKK~Aeq~AA~~aL~~L   76 (76)
T d2cpna1           8 ECNPVGALQELVVQKGWRLPEYTVTQESGPAHRKEFTMTCRVERF--IEIGSGTSKKLAKRNAAAKMLLRV   76 (76)
T ss_dssp             CCCHHHHHHHHHHHHTCCCCEEEEEEEECCSSSCEEEEEEEETTE--EEEEEESSHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHcCCCCCEEEEeeeeccCCCccEEEEEEecce--eeccccccHHHHHHHHHHHHHHhC
Confidence            579999999999999 78899997 57899999999999999985  599999999999999999999987

>d1uila_ d.50.1.1 (A:) ATP-dependent RNA helicase A, Dhx9 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: ATP-dependent RNA helicase A, Dhx9
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.87  E-value=5.2e-22  Score=135.90  Aligned_cols=77  Identities=30%  Similarity=0.413  Sum_probs=69.6

Q ss_pred             CChHHHHHHHHHhcCCCceEEEEeeCCCCCccEEEEEEEC----CEEEEEeEeccCHHHHHHHHHHHHHHHHHHcCCCCC
Q psy14233          5 GLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIA----GIGYVGAGNSTNKKDAQTNAAKDFVQYLVRSGQVNE   80 (122)
Q Consensus         5 ~n~ks~L~E~~qk~~~~p~Y~~~~~Gp~h~~~F~~~V~v~----g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~~~~~~   80 (122)
                      .|||+.||||||+++..|.|++...||+|.++|+|+|.|+    +..+++.|.|.|||+|||.||+.||+.|...|.+.+
T Consensus        26 ~n~Ks~LqE~~Qk~k~~p~Y~i~~~Gp~H~~~F~~~v~i~~~~~~~~~~~~G~G~sKK~AEq~AA~~~l~~L~~~g~i~~  105 (113)
T d1uila_          26 ENAKARLNQYFQKEKIQGEYKYTQVGPDHNRSFIAEMTIYIKQLGRRIFAREHGSNKKLAAQSCALSLVRQLYHLGVIEA  105 (113)
T ss_dssp             HHHHHHHHHHHHHSCCCCCCEEEEESCSTTCEEEEEEEEEETTTTEEEEEECCCSSHHHHHHHHHHHHHHHHHHHTSSCC
T ss_pred             cCHHHHHHHHHHhCCCCCceEEeeeccCCCCeEEEEEEEeeeccCCeEEeecccchHHHHHHHHHHHHHHHHHHcCCcCc
Confidence            4899999999999976799999888999999999999993    334689999999999999999999999999988775


Q ss_pred             C
Q psy14233         81 R   81 (122)
Q Consensus        81 ~   81 (122)
                      .
T Consensus       106 ~  106 (113)
T d1uila_         106 Y  106 (113)
T ss_dssp             C
T ss_pred             C
Confidence            4

>d1uhza_ d.50.1.1 (A:) staufen homolog 2 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: staufen homolog 2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.87  E-value=8.1e-22  Score=129.60  Aligned_cols=70  Identities=26%  Similarity=0.349  Sum_probs=64.8

Q ss_pred             CCCCChHHHHHHHHHhc-CCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          2 SGDGLVKAFLNEWCQKN-SKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         2 ~~~~n~ks~L~E~~qk~-~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      |+..||++.||||||++ +..|.|++ ...|++|.+.|+|.|.|+|..  ..|.|.|||+||+.||+.||+.|.
T Consensus         3 ~~~~~P~s~LqE~~Q~~~~~~P~Y~~~~~~g~~h~~~F~~~v~v~~~~--~~g~g~SKK~Ae~~AA~~aL~~l~   74 (89)
T d1uhza_           3 SGSSGPISRLAQIQQARKEKEPDYILLSERGMPRRREFVMQVKVGNEV--ATGTGPNKKIAKKNAAEAMLLQLG   74 (89)
T ss_dssp             CSSSCHHHHHHHHHHHTTSCCCEEEEEEEESCSTTCEEEEEEEETTEE--EEEEESSHHHHHHHHHHHHHHHHT
T ss_pred             CCCCCcHHHHHHHHHhcCCCCCEEEeccccccCCceeEEEEEEEeeee--ccccchHHHHHHHHHHHHHHHHhC
Confidence            57889999999999999 89999997 578999999999999999974  589999999999999999999994

>d1qu6a2 d.50.1.1 (A:91-179) dsRNA-dependent protein kinase pkr {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: dsRNA-dependent protein kinase pkr
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.87  E-value=3e-22  Score=131.55  Aligned_cols=72  Identities=18%  Similarity=0.206  Sum_probs=66.7

Q ss_pred             CCChHHHHHHHHHhcCCCceEEEEeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHHcC
Q psy14233          4 DGLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRSG   76 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~~~~p~Y~~~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~~   76 (122)
                      ..|||++||||||+++..|.|++.+.|++|.+.|.|.|.|+|+. ++.|.|+|||+||+.||+.||..|..+.
T Consensus        13 ~~n~~s~L~E~~Qk~~~~~~y~~~~~g~~h~~~F~~~v~i~g~~-~~~g~G~sKK~Akq~AA~~Al~~L~~~~   84 (89)
T d1qu6a2          13 MGNYIGLINRIAQKKRLTVNYEQCASGVHGPEGFHYKCKMGQKE-YSIGTGSTKQEAKQLAAKLAYLQILSEE   84 (89)
T ss_dssp             CCCCHHHHHHHHHHSCCEEEEEEEEECSSSSSEEEEEEEEETTB-CCEEEESSHHHHHHHHHHHHHHHHHHCC
T ss_pred             ccCHHHHHHHHHHhcCCCcceeeeccCCCCCCceEEEEEECCcc-ccccccchHHHHHHHHHHHHHHHHHccC
Confidence            56999999999999966789998888999999999999999985 6999999999999999999999998753

>d1qu6a1 d.50.1.1 (A:1-90) dsRNA-dependent protein kinase pkr {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: dsRNA-dependent protein kinase pkr
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.86  E-value=2.6e-22  Score=132.19  Aligned_cols=71  Identities=30%  Similarity=0.416  Sum_probs=64.8

Q ss_pred             CChHHHHHHHHHhcCCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHHcC
Q psy14233          5 GLVKAFLNEWCQKNSKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVRSG   76 (122)
Q Consensus         5 ~n~ks~L~E~~qk~~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~~~   76 (122)
                      .|||+.||||||+++..|.|.+ ...||+|++.|+|.|.|+|.. ++.|.|.|||+||+.||+.||+.|..+.
T Consensus        13 ~~y~s~LqE~~Qk~~~~p~y~~~~~~Gp~h~~~F~v~v~v~~~~-~~~g~G~sKK~Aeq~AA~~aL~~L~~~~   84 (90)
T d1qu6a1          13 GFFMEELNTYRQKQGVVLKYQELPNSGPPHDRRFTFQVIIDGRE-FPEGEGRSKKEAKNAAAKLAVEILNKEK   84 (90)
T ss_dssp             CSHHHHHHHHHHHHTCCCEEEEEESCBTTTBCCEEEEEESSSSC-CCEEECCSSHHHHHHHHHHHHHHHHSCC
T ss_pred             CCHHHHHHHHHHHhCCCCcEEEEEeeCCCCCceEEEEEEECcee-eeccCCCcHHHHHHHHHHHHHHHHHhhC
Confidence            4789999999999977899987 578999999999999999975 6999999999999999999999997643

>d1di2a_ d.50.1.1 (A:) Double-stranded RNA-binding protein A, second dsRBD {Xenopus laevis [TaxId: 8355]}

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: Double-stranded RNA-binding protein A, second dsRBD
species: Xenopus laevis [TaxId: 8355]

Probab=99.86  E-value=1.1e-21  Score=123.20  Aligned_cols=65  Identities=26%  Similarity=0.434  Sum_probs=60.5

Q ss_pred             hHHHHHHHHHhc-CCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          7 VKAFLNEWCQKN-SKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         7 ~ks~L~E~~qk~-~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      ||+.||||||++ +..|.|++ .+.||+|++.|+|.|.|+|.  .+.|.|+|||+||+.||+.||+.|.
T Consensus         2 Pv~~LqE~~q~~~~~~P~Y~~~~~~G~~h~~~F~~~v~v~~~--~~~g~g~sKK~Aeq~AA~~aL~~L~   68 (69)
T d1di2a_           2 PVGSLQELAVQKGWRLPEYTVAQESGPPHKREFTITCRVETF--VETGSGTSKQVAKRVAAEKLLTKFK   68 (69)
T ss_dssp             HHHHHHHHHHHHTCCCCEEEEEEEESCGGGCEEEEEEEETTE--EEEEEESSHHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHcCCCCCeEEEEEeeCCCCCcceEEEEEEeeE--EEecCcCcHHHHHHHHHHHHHHHhc
Confidence            899999999999 88999997 47799999999999999996  4689999999999999999999985

>d1x47a1 d.50.1.1 (A:8-92) Dgcr8 protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: Dgcr8 protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=1.6e-20  Score=122.23  Aligned_cols=69  Identities=22%  Similarity=0.363  Sum_probs=61.1

Q ss_pred             CCCChHHHHHHHHHhc-CCCceEEEEeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          3 GDGLVKAFLNEWCQKN-SKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         3 ~~~n~ks~L~E~~qk~-~~~p~Y~~~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      ..+|||+.||||||+. +..|.|.+.. +.+|...|.|.|.|+|.. ++.|.|.|||+||+.||+.||+.|.
T Consensus         7 ~~K~p~s~LqE~~Qk~~~~~p~Y~~~~-~~g~~~~F~~~v~i~g~~-~~~g~G~sKK~Aeq~AA~~AL~~L~   76 (85)
T d1x47a1           7 NGKSEVCILHEYMQRVLKVRPVYNFFE-CENPSEPFGASVTIDGVT-YGSGTASSKKLAKNKAARATLEILI   76 (85)
T ss_dssp             TCCCHHHHHHHHHHHHTCSCCEEEEEE-CSSSSCCEEEEEEETTEE-EEEEEESSHHHHHHHHHHHHHHHHC
T ss_pred             CCcCHHHHHHHHHHHhCCCCCCeEEEe-cCCCCCCEEEEEEECCEE-EecCCcchHHHHHHHHHHHHHHHHH
Confidence            4689999999999999 8899999864 334566799999999986 6999999999999999999999993

>d1ekza_ d.50.1.1 (A:) Staufen, domain III {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: Staufen, domain III
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.83  E-value=2.1e-21  Score=124.04  Aligned_cols=68  Identities=25%  Similarity=0.340  Sum_probs=62.4

Q ss_pred             CCChHHHHHHHHHhcCCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKNSKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      ..||++.||||||+++..|.|++ ...||+|++.|+|.|.|++.  ++.|.|.|||+||+.||+.||+.|.
T Consensus         6 ~k~Pvs~L~E~~q~~~~~~~y~~~~~~G~~h~~~F~~~v~v~~~--~~~g~G~SKK~Aeq~AA~~al~~L~   74 (76)
T d1ekza_           6 KKSPISQVHEIGIKRNMTVHFKVLREEGPAHMKNFITACIVGSI--VTEGEGNGKKVSKKRAAEKMLVELQ   74 (76)
T ss_dssp             CSCHHHHHHHHHHHTTCCCEEEESSSCCSSSCSCSSEEEEETTE--EEEECCCSTTSSSHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHhCCCCCeEEEEEeeCCCCCeEEEEEEEEeee--EeeeccCcHHHHHHHHHHHHHHHHH
Confidence            57999999999999955699997 56799999999999999985  5899999999999999999999985

>d1whna_ d.50.1.1 (A:) tRNA-dihydrouridine synthase 2-like, Dus2l (2310016k04Rik) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: tRNA-dihydrouridine synthase 2-like, Dus2l (2310016k04Rik)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.78  E-value=9.5e-19  Score=121.81  Aligned_cols=68  Identities=21%  Similarity=0.193  Sum_probs=60.4

Q ss_pred             CCCChHHHHHHHHHhc-CCCceEEEEeeCCCCCccEEEEEEECCEEEEEeEec-cCHHHHHHHHHHHHHHHHH
Q psy14233          3 GDGLVKAFLNEWCQKN-SKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNS-TNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         3 ~~~n~ks~L~E~~qk~-~~~p~Y~~~~~Gp~h~~~F~~~V~v~g~~~~g~G~G-~SKK~Aeq~AA~~Al~~L~   73 (122)
                      ...|||+.||||||++ +..|.|++...  .|++.|+|.|.|+|+. ++.+.| +|||+||++||+.||+.|.
T Consensus        24 ~~~~pKs~LqE~~Qk~~~~~P~Y~~~~~--~~~~~F~~~V~v~g~~-~~s~~g~~SKK~AEq~AA~~AL~~Lg   93 (128)
T d1whna_          24 PQITPKMCLLEWCRREKLPQPVYETVQR--TIDRMFCSVVTVAEQK-YQSTLWDKSKKLAEQTAAIVCLRSQG   93 (128)
T ss_dssp             TTCCHHHHHHHHHHHTTCCCCCCCEEEC--SSSCCEEEEEEETTEE-EEESSCBSSHHHHHHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHhcCCCCCeEEEeec--ccCCCCEEEEEECCeE-eeccCCcccHHHHHHHHHHHHHHHhC
Confidence            4689999999999999 89999998765  4788999999999986 576665 8999999999999999994

>d2b7va1 d.50.1.1 (A:1-71) dsRNA-specific editase 1 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: dsRNA-specific editase 1
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.77  E-value=6.4e-19  Score=111.19  Aligned_cols=66  Identities=23%  Similarity=0.270  Sum_probs=59.2

Q ss_pred             CCCChHHHHHHHHHhcCCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHH
Q psy14233          3 GDGLVKAFLNEWCQKNSKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVR   74 (122)
Q Consensus         3 ~~~n~ks~L~E~~qk~~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~   74 (122)
                      ..+||++.|||||++    +.|++ ...||+|.+.|+|.|.|+|..  ..|.|.|||+||++||+.||+.|..
T Consensus         2 ~~Knpv~~L~E~~~~----~~y~~~~~~G~~h~~~F~~~v~v~~~~--~~g~G~SKK~Ak~~AA~~aL~~L~~   68 (71)
T d2b7va1           2 SGKNPVMILNELRPG----LKYDFLSESGESHAKSFVMSVVVDGQF--FEGSGRNKKLAKARAAQSALATVFN   68 (71)
T ss_dssp             CSSCHHHHHHHHCCS----CEEEEEECCCCTTTCCEEEEEECSSCE--EEEEESSHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHccC----CeEEEeeeeCCCCCCeEEEEEEECCEE--EEecCCCHHHHHHHHHHHHHHHHHc
Confidence            368999999999975    68997 578999999999999999986  3789999999999999999999964

>d1t4oa_ d.50.1.1 (A:) RNase III, C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: RNase III, C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.77  E-value=5.4e-19  Score=113.96  Aligned_cols=71  Identities=18%  Similarity=0.056  Sum_probs=60.3

Q ss_pred             CCChHHHHHHHHHhcCCCceEEEEeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKNSKQPEFDVRAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVR   74 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~~~~p~Y~~~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~   74 (122)
                      .+|+|+.|+||||+.+..|.|++...|++|...|++.|.|.+..+++.|.|.|||+|||.||+.||+.+..
T Consensus         5 d~~~K~~L~e~~~~~g~~P~Y~~~~~~~~~~~~f~v~~~v~~~~~~~~g~g~SKK~AEq~AA~~aL~~~~~   75 (81)
T d1t4oa_           5 DMNAKRQLYSLIGYASLRLHYVTVKKPTAVDPNSIVECRVGDGTVLGTGVGRNIKIAGIRAAENALRDKKM   75 (81)
T ss_dssp             CTTHHHHHHHHHCCGGGCCEEEEEECCCSSCCCEEEEEECTTCCEEEEEEESSHHHHHHHHHHHHHHCHHH
T ss_pred             ccCHHHHHHHHHhcCCCCcEEEEeccCCCCCCCEEEEEEEecCceEEecccchhhHHHHHHHHHHHHhccH
Confidence            57999999999999976799999776666667788888775434579999999999999999999998763

>d2dmya1 d.50.1.1 (A:8-91) Spermatid perinuclear RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: Spermatid perinuclear RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.69  E-value=9.5e-17  Score=104.07  Aligned_cols=64  Identities=19%  Similarity=0.195  Sum_probs=56.1

Q ss_pred             CCChHHHHHHHHHhcCCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHH
Q psy14233          4 DGLVKAFLNEWCQKNSKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLV   73 (122)
Q Consensus         4 ~~n~ks~L~E~~qk~~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~   73 (122)
                      ..||++.|+|+.    ..|+|++ ..+||+|++.|+|.|.|+|..  ..|.|.|||+||+.||+.||+.|.
T Consensus        11 ~~n~~~~L~e~~----~~~~Y~~~~~~Gp~h~~~F~~~v~v~g~~--~~g~G~SKK~Aeq~AA~~aL~~L~   75 (84)
T d2dmya1          11 LMNALMRLNQIR----PGLQYKLLSQSGPVHAPVFTMSVDVDGTT--YEASGPSKKTAKLHVAVKVLQAMG   75 (84)
T ss_dssp             CTHHHHHHHHHS----CSCCCEEEEEESCSSSCEEEEEEEETTEE--EEEEESSHHHHHHHHHHHHHHHHT
T ss_pred             ccCHHHHHHHhC----CCCeEEEEEeeCCCCCCeEEEEEEECCEE--EEcCCCCHHHHHHHHHHHHHHHhC
Confidence            467888888863    5689997 578999999999999999975  478999999999999999999994

>d2b7ta1 d.50.1.1 (A:1-73) dsRNA-specific editase 1 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Double-stranded RNA-binding domain (dsRBD)
domain: dsRNA-specific editase 1
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.68  E-value=8.4e-17  Score=101.73  Aligned_cols=67  Identities=22%  Similarity=0.316  Sum_probs=54.6

Q ss_pred             CChHHHHHHHHHhcCCCceEEE-EeeCCCCCccEEEEEEECCEEEEEeEeccCHHHHHHHHHHHHHHHHHH
Q psy14233          5 GLVKAFLNEWCQKNSKQPEFDV-RAAGPKHRQRFLCELRIAGIGYVGAGNSTNKKDAQTNAAKDFVQYLVR   74 (122)
Q Consensus         5 ~n~ks~L~E~~qk~~~~p~Y~~-~~~Gp~h~~~F~~~V~v~g~~~~g~G~G~SKK~Aeq~AA~~Al~~L~~   74 (122)
                      .+||+.|+++.+ .+..|.|++ .+.|++|++.|+|.|.|+|+. + .|.|+|||+||++||+.||+.|.+
T Consensus         4 ~~pK~~l~~L~e-~~~~~~y~~~~~~G~~h~~~F~~~v~v~~~~-~-~g~G~SKK~Aeq~AA~~aL~~l~~   71 (73)
T d2b7ta1           4 VLPKNALMQLNE-IKPGLQYMLLSQTGPVHAPLFVMSVEVNGQV-F-EGSGPTKKKAKLHAAEKALRSFVQ   71 (73)
T ss_dssp             SSSHHHHHHHHH-HCSCCEEEEEEEECSSSSCEEEEEEESSSSE-E-EEEESSHHHHHHHHHHHHHHHHHT
T ss_pred             CCCcCHHHHHHh-cCCCCEEEEEEeeCCCCCceEEEEEEECCEE-E-EcCCCcHHHHHHHHHHHHHHHHhh
Confidence            355666655533 246689997 467999999999999999975 3 899999999999999999999853