Citrus Sinensis ID: 015482

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400------
MELSSSFASLVSDNISFSSAISPFPLQSSLKTLKLTKPTSQNLRILAVAVEPQQDLPHNSPQKLLKELAERKKVTSPKKKVPPKKFILRPPLDDKKLVDRFLKSPQLSLKSFPLLSSCLPPSRLNNADQTWIDEYLLEAKQALGYSLEPSDQLGDDNPAKHFDTLLYLAFQHPFCERNKARHVRAGHSRLCFLGQFVLELAFCEFFLQRYPRESPAPMRERVFGLIGRRNLPKWIKAASLQNLIFPFDEMDRLIRKEREPPVKSVFWALFGAIYLCFGFPEVYRVLFEVFGMDPEDKECQPKLRRQLEDVDYVSVEFEGNKLTWQDVAAYKPPEDALFAQPRLFRACVPPGMHRFRGNLWDFDSRPQVMQTLGYPLVVQDRIPEITEARNIELGLGLQVALSCVLY
ccccccccccccccccccccccccccccccccccccccccccEEEEEEEEccccccccccHHHHHHHHHHHccccccccccccccccccccccHHHHHHHHHccccccccccccccccccccccccccHHHHHHHHHHHHHHHccccccccccccccccccHHHHHHHHHccccccccccccccccccccccHHHHHHHHHHHHHHHHHccccccccHHHHHHHHcccccHHHHHHHcccccEEccccHHHHccccccccHHHHHHHHHHHHHHHcccHHHHHHHHHHHHccccccccccHHHHHccccccccHHHHHHHHcccccccEEEcccccccccccEEEEEEccccEEccccccccccHHHHHHHHcccccccccccHHHHHHccccccccccccccccc
ccccccccccccccccEccccccccHHHHHHcccccccccccEEEEEEEEccccccccccHHHHHHHHHHHHccccccccccccEEEEcccccHHHHHHHHHccHHHHHccccHHHHcccccccccccccccHHHHHHHHHHHccccccccccccccHHHHHHHHHHHHHccccHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHcccccEEEEcccccccccccccHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHcccccHHHHcHHHHHHHccccEEEEEEccccccHEcHHHccccHHHcccccHHHHccccccccccccccccccccHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHcc
MELSSSFaslvsdnisfssaispfplqsslktlkltkptsqnLRILAVAvepqqdlphnspQKLLKELAERkkvtspkkkvppkkfilrpplddkklVDRFlkspqlslksfpllssclppsrlnnadQTWIDEYLLEAKQAlgyslepsdqlgddnpakhfDTLLYLAFQHpfcernkarhvraghsrlcFLGQFVLELAFCEFFlqryprespapmRERVFGligrrnlpkWIKAASLQNLIFPFDEMDRLirkereppvkSVFWALFGAIYLCFGFPEVYRVLFEVfgmdpedkecqpkLRRQLEDVDYVSVefegnkltwqdvaaykppedalfaqprlfracvppgmhrfrgnlwdfdsrpqvmqtlgyplvvqdripeITEARNIELGLGLQVALSCVLY
MELSSSFASLVSDNISFSSAISPFPLQSSLKTLKLTKPTSQNLRILAVAvepqqdlphnsPQKLLKELAerkkvtspkkkvppkkfilrpplddkklVDRFLKSPQLSLKSFPLLSSCLPPSRLNNADQTWIDEYLLEAKQALGYSLEPSDQLGDDNPAKHFDTLLYLAFQHPFCERNKARHVRAGHSRLCFLGQFVLELAFCEFFLQryprespapMRERVFGLIGRRNLPKWIKAASLQNLIFPFDEMDRLIRKEREPPVKSVFWALFGAIYLCFGFPEVYRVLFEVFGMDPEDKECQPKLRRQLEDVDYVSVEFEGNKLTWQDVAAYKPPEDALFAQPRLFRACVPPGMHRFRGNLWDFDSRPQVMQTLGYPLVVQDRIPEITEARNIELGLGLQvalscvly
MELSSSFASLVSDNISFSSAISPFplqsslktlkltkptsqNLRILAVAVEPQQDLPHNSPQKLLKELAERkkvtspkkkvppkkFILRPPLDDKKLVDRflkspqlslksfpllssclppsRLNNADQTWIDEYLLEAKQALGYSLEPSDQLGDDNPAKHFDTLLYLAFQHPFCERNKARHVRAGHSRLCFLGQFVLELAFCEFFLQRYPRESPAPMRERVFGLIGRRNLPKWIKAASLQNLIFPFDEMDRLIRKEREPPVKSVFWALFGAIYLCFGFPEVYRVLFEVFGMDPEDKECQPKLRRQLEDVDYVSVEFEGNKLTWQDVAAYKPPEDALFAQPRLFRACVPPGMHRFRGNLWDFDSRPQVMQTLGYPLVVQDRIPEITEARNIELGLGLQVALSCVLY
*******************************************RILAV************************************************LVDRFLK**QLSLKSFPLLSSCLPPSRLNNADQTWIDEYLLEAKQALGYSL***********AKHFDTLLYLAFQHPFCERNKARHVRAGHSRLCFLGQFVLELAFCEFFLQRYPRE**APMRERVFGLIGRRNLPKWIKAASLQNLIFPFDEMDRLIRKEREPPVKSVFWALFGAIYLCFGFPEVYRVLFEVFGMDP****C**KLRRQLEDVDYVSVEFEGNKLTWQDVAAYKPPEDALFAQPRLFRACVPPGMHRFRGNLWDFDSRPQVMQTLGYPLVVQDRIPEITEARNIELGLGLQVALSCVL*
***************SFSSAISPFPLQSSLKTLKLTKPTSQNLRILAVAV*************************************LRPPLDDKKLVDRFLKSPQLSLKSFPLLSSCL**************EYLLEAKQALGYSLEPSDQLGDDNPAKHFDTLLYLAFQHPFCER*****VR*GHSRLCFLGQFVLELAFCEFFLQRYPRESPAPMRERVFGLIGRRNLPKWIKAASLQNLIFPFDEMD****KEREPPVKSVFWALFGAIYLCFGFPEVYRVLFEVFGMDPEDKECQPKLRRQLEDVDYVSVEFEGNKLTWQDVAAYKPPEDALFAQPRLFRACVPPGMHRFRGNLWDFDSRPQVMQTLGYPLVVQDRIPEITEARNIELGLGLQVALSCVLY
*********LVSDNISFSSAISPFPLQSSLKTLKLTKPTSQNLRILAVAVEPQQDLPHNSPQKLLKELAER**********PPKKFILRPPLDDKKLVDRFLKSPQLSLKSFPLLSSCLPPSRLNNADQTWIDEYLLEAKQALGYSLEPSDQLGDDNPAKHFDTLLYLAFQHPFCERNKARHVRAGHSRLCFLGQFVLELAFCEFFLQRYPRESPAPMRERVFGLIGRRNLPKWIKAASLQNLIFPFDEMDRLIRKEREPPVKSVFWALFGAIYLCFGFPEVYRVLFEVFGMDPEDKECQPKLRRQLEDVDYVSVEFEGNKLTWQDVAAYKPPEDALFAQPRLFRACVPPGMHRFRGNLWDFDSRPQVMQTLGYPLVVQDRIPEITEARNIELGLGLQVALSCVLY
***************SFSSAISPFPLQSSLKTLKLTKPTSQNLRILAVAVEPQQDLPHNSPQKLLKELAERKKVTSPKKKVPPKKFILRPPLDDKKLVDRFLKSPQLSLKSFPLLSSCLPPSRLNNADQTWIDEYLLEAKQALGYSLEPSDQLGDDNPAKHFDTLLYLAFQHPFCERNKARHVRAGHSRLCFLGQFVLELAFCEFFLQRYPRESPAPMRERVFGLIGRRNLPKWIKAASLQNLIFPFDEMDRLIRKEREPPVKSVFWALFGAIYLCFGFPEVYRVLFEVFGMDPEDKECQPKLRRQLEDVDYVSVEFEGNKLTWQDVAAYKPPEDALFAQPRLFRACVPPGMHRFRGNLWDFDSRPQVMQTLGYPLVVQDRIPEITEARNIELGLGLQVALSCVLY
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
SSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
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MELSSSFASLVSDNISFSSAISPFPLQSSLKTLKLTKPTSQNLRILAVAVEPQQDLPHNSPQKLLKELAERKKVTSPKKKVPPKKFILRPPLDDKKLVDRFLKSPQLSLKSFPLLSSCLPPSRLNNADQTWIDEYLLEAKQALGYSLEPSDQLGDDNPAKHFDTLLYLAFQHPFCERNKARHVRAGHSRLCFLGQFVLELAFCEFFLQRYPRESPAPMRERVFGLIGRRNLPKWIKAASLQNLIFPFDEMDRLIRKEREPPVKSVFWALFGAIYLCFGFPEVYRVLFEVFGMDPEDKECQPKLRRQLEDVDYVSVEFEGNKLTWQDVAAYKPPEDALFAQPRLFRACVPPGMHRFRGNLWDFDSRPQVMQTLGYPLVVQDRIPEITEARNIELGLGLQVALSCVLY
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query406 2.2.26 [Sep-21-2011]
Q5L0Q3246 Ribonuclease 3 OS=Geobaci yes no 0.305 0.504 0.282 7e-05
A9VT87245 Ribonuclease 3 OS=Bacillu yes no 0.312 0.518 0.275 9e-05
Q7UGZ7266 Ribonuclease 3 OS=Rhodopi no no 0.273 0.417 0.300 0.0001
Q5GTI3243 Ribonuclease 3 OS=Wolbach yes no 0.298 0.497 0.243 0.0001
Q819V8245 Ribonuclease 3 OS=Bacillu yes no 0.312 0.518 0.267 0.0001
B7HDX2245 Ribonuclease 3 OS=Bacillu yes no 0.312 0.518 0.267 0.0001
B7IUK8245 Ribonuclease 3 OS=Bacillu yes no 0.312 0.518 0.267 0.0001
Q03K17229 Ribonuclease 3 OS=Strepto yes no 0.307 0.545 0.275 0.0002
C0MCR4230 Ribonuclease 3 OS=Strepto N/A no 0.307 0.543 0.275 0.0002
Q6HEW6245 Ribonuclease 3 OS=Bacillu yes no 0.312 0.518 0.267 0.0002
>sp|Q5L0Q3|RNC_GEOKA Ribonuclease 3 OS=Geobacillus kaustophilus (strain HTA426) GN=rnc PE=3 SV=1 Back     alignment and function desciption
 Score = 48.9 bits (115), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 35/124 (28%), Positives = 53/124 (42%)

Query: 163 DTLLYLAFQHPFCERNKARHVRAGHSRLCFLGQFVLELAFCEFFLQRYPRESPAPMRERV 222
           + LL  AF H        R +   + RL FLG  VLEL   ++  Q++P  S   + +  
Sbjct: 32  EKLLIQAFTHSSYVNEHRRRLHEDNERLEFLGDAVLELTVSQYLFQKFPHMSEGQLTKLR 91

Query: 223 FGLIGRRNLPKWIKAASLQNLIFPFDEMDRLIRKEREPPVKSVFWALFGAIYLCFGFPEV 282
             ++   +L K+  A S   L+      +    + R   +  VF A  GA+YL  G   V
Sbjct: 92  AAIVCEPSLVKFANALSFGELVLLGKGEELTGGRTRPALLADVFEAFIGALYLDQGMDAV 151

Query: 283 YRVL 286
            R L
Sbjct: 152 IRFL 155
Digests double-stranded RNA. Involved in the processing of primary rRNA transcript to yield the immediate precursors to the large and small rRNAs (23S and 16S). Also processes some mRNAs, and tRNAs when they are encoded in the rRNA operon.
Geobacillus kaustophilus (strain HTA426) (taxid: 235909)
EC: 3EC: .EC: 1EC: .EC: 2EC: 6EC: .EC: 3
>sp|A9VT87|RNC_BACWK Ribonuclease 3 OS=Bacillus weihenstephanensis (strain KBAB4) GN=rnc PE=3 SV=1 Back     alignment and function description
>sp|Q7UGZ7|RNC_RHOBA Ribonuclease 3 OS=Rhodopirellula baltica (strain SH1) GN=rnc PE=3 SV=2 Back     alignment and function description
>sp|Q5GTI3|RNC_WOLTR Ribonuclease 3 OS=Wolbachia sp. subsp. Brugia malayi (strain TRS) GN=rnc PE=3 SV=1 Back     alignment and function description
>sp|Q819V8|RNC_BACCR Ribonuclease 3 OS=Bacillus cereus (strain ATCC 14579 / DSM 31) GN=rnc PE=3 SV=1 Back     alignment and function description
>sp|B7HDX2|RNC_BACC4 Ribonuclease 3 OS=Bacillus cereus (strain B4264) GN=rnc PE=3 SV=1 Back     alignment and function description
>sp|B7IUK8|RNC_BACC2 Ribonuclease 3 OS=Bacillus cereus (strain G9842) GN=rnc PE=3 SV=1 Back     alignment and function description
>sp|Q03K17|RNC_STRTD Ribonuclease 3 OS=Streptococcus thermophilus (strain ATCC BAA-491 / LMD-9) GN=rnc PE=3 SV=1 Back     alignment and function description
>sp|C0MCR4|RNC_STRS7 Ribonuclease 3 OS=Streptococcus equi subsp. zooepidemicus (strain H70) GN=rnc PE=3 SV=1 Back     alignment and function description
>sp|Q6HEW6|RNC_BACHK Ribonuclease 3 OS=Bacillus thuringiensis subsp. konkukian (strain 97-27) GN=rnc PE=3 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query406
255584888 532 RNA binding protein, putative [Ricinus c 0.980 0.748 0.802 0.0
449510992 534 PREDICTED: LOW QUALITY PROTEIN: uncharac 0.992 0.754 0.774 0.0
224074235 535 predicted protein [Populus trichocarpa] 0.982 0.745 0.784 0.0
449448248 533 PREDICTED: uncharacterized protein LOC10 0.992 0.756 0.766 0.0
225438954 542 PREDICTED: uncharacterized protein LOC10 0.990 0.741 0.792 0.0
15235580 537 Ribonuclease III family protein [Arabido 0.908 0.687 0.814 1e-178
297798116 537 ribonuclease III family protein [Arabido 0.908 0.687 0.814 1e-178
357453661 544 Ribonuclease [Medicago truncatula] gi|35 0.975 0.727 0.761 1e-171
356496965 525 PREDICTED: uncharacterized protein LOC10 0.960 0.742 0.747 1e-171
356541663 540 PREDICTED: uncharacterized protein LOC10 0.891 0.670 0.801 1e-171
>gi|255584888|ref|XP_002533159.1| RNA binding protein, putative [Ricinus communis] gi|223527031|gb|EEF29218.1| RNA binding protein, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  672 bits (1733), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 330/411 (80%), Positives = 362/411 (88%), Gaps = 13/411 (3%)

Query: 1   MELSSSFASLVS-DNISFSSAISPFPLQSSLKTLKLTKPTS--QNLRILAVAVEPQQ--D 55
           MELSSSF        ISF+S+ SPF LQ  LK     KP     NLR+LAVA++P Q  +
Sbjct: 1   MELSSSFTHFTKISEISFTSSFSPFALQIHLK-----KPIKFPPNLRVLAVAIDPPQPQE 55

Query: 56  LPHNSPQKLLKELAERKKVTSPKKKVPPKKFILRPPLDDKKLVDRFLKSPQLSLKSFPLL 115
           LP NSPQ+LLKELAERKK+TSPKKKVPPK+FIL+PPLDDKKL  RFL SPQLSLK FPLL
Sbjct: 56  LPQNSPQRLLKELAERKKITSPKKKVPPKRFILKPPLDDKKLAQRFLNSPQLSLKQFPLL 115

Query: 116 SSCLPPSRLNNADQTWIDEYLLEAKQALGYSLEPSDQLGDDNPAKHFDTLLYLAFQHPFC 175
           SSCLP SRLN+ D+TWIDEYLLEAKQALGYSLEPSD  GDDNPAK FDTLLYLAFQHP C
Sbjct: 116 SSCLPSSRLNSVDKTWIDEYLLEAKQALGYSLEPSDNFGDDNPAKQFDTLLYLAFQHPSC 175

Query: 176 ERNKARHVRAGHSRLCFLGQFVLELAFCEFFLQRYPRESPAPMRERVFGLIGRRNLPKWI 235
           ER  ARHV+ GHSRLCFLGQ+VLELAFCEFFLQRYPRESPAPMRERVF LIG+RNLPKWI
Sbjct: 176 ERTNARHVKYGHSRLCFLGQYVLELAFCEFFLQRYPRESPAPMRERVFALIGKRNLPKWI 235

Query: 236 KAASLQNLIFPFDEMDRLIRKEREPPVKSVFWALFGAIYLCFGFPEVYRVLFEVFGMDPE 295
           KAASLQNLIFP+D++D+L+RK+REPPVKSVFWALFGAIYLCFG PEVYRVLFEVFGMDPE
Sbjct: 236 KAASLQNLIFPYDDIDKLLRKDREPPVKSVFWALFGAIYLCFGMPEVYRVLFEVFGMDPE 295

Query: 296 DKECQPKLRRQLEDVDYVSVEFEGNKLTWQDVAAYKPPEDALFAQPRLFRACVPPGMHRF 355
            ++CQPKLRRQLEDVDYVSVEFEGNKL+WQDVAAYKPPEDALFA PRLFRACVPPGMHRF
Sbjct: 296 AEDCQPKLRRQLEDVDYVSVEFEGNKLSWQDVAAYKPPEDALFAHPRLFRACVPPGMHRF 355

Query: 356 RGNLWDFDSRPQVMQTLGYPLVVQDRIPEITEARNIELGLGLQVALSCVLY 406
           RGN+WD+DSRP+VM+TLGYPL + DRIP+ITEARNIELGLGLQ+   C L+
Sbjct: 356 RGNIWDYDSRPKVMKTLGYPLAMSDRIPDITEARNIELGLGLQL---CFLH 403

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|449510992|ref|XP_004163832.1| PREDICTED: LOW QUALITY PROTEIN: uncharacterized protein LOC101231265 [Cucumis sativus] Back     alignment and taxonomy information
>gi|224074235|ref|XP_002304313.1| predicted protein [Populus trichocarpa] gi|222841745|gb|EEE79292.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|449448248|ref|XP_004141878.1| PREDICTED: uncharacterized protein LOC101207336 [Cucumis sativus] Back     alignment and taxonomy information
>gi|225438954|ref|XP_002284222.1| PREDICTED: uncharacterized protein LOC100254381 [Vitis vinifera] Back     alignment and taxonomy information
>gi|15235580|ref|NP_195467.1| Ribonuclease III family protein [Arabidopsis thaliana] gi|4468817|emb|CAB38218.1| putative protein [Arabidopsis thaliana] gi|7270733|emb|CAB80416.1| putative protein [Arabidopsis thaliana] gi|95147308|gb|ABF57289.1| At4g37510 [Arabidopsis thaliana] gi|332661403|gb|AEE86803.1| Ribonuclease III family protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|297798116|ref|XP_002866942.1| ribonuclease III family protein [Arabidopsis lyrata subsp. lyrata] gi|297312778|gb|EFH43201.1| ribonuclease III family protein [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|357453661|ref|XP_003597111.1| Ribonuclease [Medicago truncatula] gi|357482679|ref|XP_003611626.1| Ribonuclease [Medicago truncatula] gi|355486159|gb|AES67362.1| Ribonuclease [Medicago truncatula] gi|355512961|gb|AES94584.1| Ribonuclease [Medicago truncatula] Back     alignment and taxonomy information
>gi|356496965|ref|XP_003517335.1| PREDICTED: uncharacterized protein LOC100814070 [Glycine max] Back     alignment and taxonomy information
>gi|356541663|ref|XP_003539293.1| PREDICTED: uncharacterized protein LOC100809155 [Glycine max] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query406
TAIR|locus:2126397 537 AT4G37510 [Arabidopsis thalian 0.977 0.739 0.692 1.7e-146
TIGR_CMR|BA_3987245 BA_3987 "ribonuclease III" [Ba 0.312 0.518 0.267 0.00043
TAIR|locus:2126397 AT4G37510 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1431 (508.8 bits), Expect = 1.7e-146, P = 1.7e-146
 Identities = 281/406 (69%), Positives = 308/406 (75%)

Query:     4 SSSFASLVSDN---ISFSSAISPFXXXXXXXXXXXXXXXXXNLRILAVAVEPQQDLPHNS 60
             SSS   + S +   ISFSS+IS F                 NLRI A      Q LP +S
Sbjct:     9 SSSLLRICSSSAPEISFSSSISQFPSKTQSILTKSRFQ---NLRICASVTAETQGLPRDS 65

Query:    61 PQKLLKELAERXXXXXXXXXXXXXXFILRPPLDDKKLVDRXXXXXXXXXXXXXXXXXXXX 120
             PQ+LLKELA+R              FILRPPLDDKKL +R                    
Sbjct:    66 PQRLLKELAQRKTATGPKKKVPPKRFILRPPLDDKKLAERFLNSPQLSLKSFPLLSSCLP 125

Query:   121 XXRLNNADQTWIDEYLLEAKQALGYSLEPSDQLGDDNPAKHFDTLLYLAFQHPFCERNKA 180
               +LNNAD+TWIDEYLLE KQALGYSLEPS+ LGDDNPAKHFDTLLYLAFQHP C+R +A
Sbjct:   126 SSKLNNADKTWIDEYLLEVKQALGYSLEPSESLGDDNPAKHFDTLLYLAFQHPSCDRARA 185

Query:   181 RHVRAGHSRLCFLGQFVLELAFCEFFLQRYPRESPAPMRERVFGLIGRRNLPKWIKAASL 240
             RHV+ GHSRL FLGQ+VLELA  EFFLQRYPRESP PMRERVF LIG+R LPKWIKAASL
Sbjct:   186 RHVKNGHSRLWFLGQYVLELALTEFFLQRYPRESPGPMRERVFALIGKRYLPKWIKAASL 245

Query:   241 QNLIFPFDEMDRLIRKEREPPVKSVFWALFGAIYLCFGFPEVYRVLFEVFGMDPEDKECQ 300
             QNLIFP+D+MD+LIRKEREPPVKSVFWALFGAIYLCFG PEVYRVLFEVFGMDP+  ECQ
Sbjct:   246 QNLIFPYDDMDKLIRKEREPPVKSVFWALFGAIYLCFGMPEVYRVLFEVFGMDPDADECQ 305

Query:   301 PKLRRQLEDVDYVSVEFEGNKLTWQDVAAYKPPEDALFAQPRLFRACVPPGMHRFRGNLW 360
             P+ RRQLEDVDYVSVEFEG KL WQD+A YKPPEDALFA PRLFRACVPPGMHRFRGN+W
Sbjct:   306 PRSRRQLEDVDYVSVEFEGKKLGWQDIATYKPPEDALFAHPRLFRACVPPGMHRFRGNIW 365

Query:   361 DFDSRPQVMQTLGYPLVVQDRIPEITEARNIELGLGLQVALSCVLY 406
             DFDS+P+VMQTLGYPL + DRI EITEARNIELGLGLQ+   C L+
Sbjct:   366 DFDSKPKVMQTLGYPLTMNDRIKEITEARNIELGLGLQL---CFLH 408
GO:0003723 "RNA binding" evidence=IEA;ISS
GO:0004525 "ribonuclease III activity" evidence=IEA;ISS
GO:0006396 "RNA processing" evidence=IEA;ISS
GO:0009507 "chloroplast" evidence=ISM
GO:0010027 "thylakoid membrane organization" evidence=RCA
GO:0010267 "production of ta-siRNAs involved in RNA interference" evidence=RCA
GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA
GO:0035196 "production of miRNAs involved in gene silencing by miRNA" evidence=RCA
GO:0051607 "defense response to virus" evidence=RCA
TIGR_CMR|BA_3987 BA_3987 "ribonuclease III" [Bacillus anthracis str. Ames (taxid:198094)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query406
cd00593133 cd00593, RIBOc, RIBOc 2e-23
smart00535129 smart00535, RIBOc, Ribonuclease III family 3e-22
pfam0063691 pfam00636, Ribonuclease_3, Ribonuclease III domain 3e-06
COG0571235 COG0571, Rnc, dsRNA-specific ribonuclease [Transcr 2e-05
TIGR02191220 TIGR02191, RNaseIII, ribonuclease III, bacterial 0.004
>gnl|CDD|238333 cd00593, RIBOc, RIBOc Back     alignment and domain information 
 Score = 94.2 bits (235), Expect = 2e-23
 Identities = 37/133 (27%), Positives = 55/133 (41%), Gaps = 3/133 (2%)

Query: 164 TLLYLAFQHPFCERNKARHVRAGHSRLCFLGQFVLELAFCEFFLQRYPRESPAPMRERVF 223
           +LL  A  HP        H R  + RL FLG  VLEL   E+  +++P  S   +     
Sbjct: 1   SLLLEALTHPSYANE---HGRFNNERLEFLGDAVLELVVTEYLFKKFPDLSEGDLTRLRS 57

Query: 224 GLIGRRNLPKWIKAASLQNLIFPFDEMDRLIRKEREPPVKSVFWALFGAIYLCFGFPEVY 283
            L+    L +  +   L   +      ++   + R   +  VF AL GAIYL  GF    
Sbjct: 58  ALVSNETLARLARELGLGKYLRLGKGEEKSGGRLRPKILADVFEALIGAIYLDGGFEAAR 117

Query: 284 RVLFEVFGMDPED 296
           + L  + G   E+
Sbjct: 118 KFLLRLLGPLIEE 130

Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in post-transcriptional control of mRNA stability and translational efficiency. It is involved in the processing of ribosomal RNA precursors. Prokaryotic RNAse III also plays a role in the maturation of tRNA precursors and in the processing of phage and plasmid transcripts. Eukaryotic RNase III's participate (through direct cleavage) in rRNA processing, in processing of small nucleolar RNAs (snoRNAs) and snRNA's (components of the spliceosome). In eukaryotes RNase III or RNaseIII like enzymes such as Dicer are involved in RNAi (RNA interference) and miRNA (micro-RNA) gene silencing. Length = 133
>gnl|CDD|197778 smart00535, RIBOc, Ribonuclease III family Back     alignment and domain information
>gnl|CDD|216036 pfam00636, Ribonuclease_3, Ribonuclease III domain Back     alignment and domain information
>gnl|CDD|223644 COG0571, Rnc, dsRNA-specific ribonuclease [Transcription] Back     alignment and domain information
>gnl|CDD|233772 TIGR02191, RNaseIII, ribonuclease III, bacterial Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 406
COG0571235 Rnc dsRNA-specific ribonuclease [Transcription] 100.0
PRK12371235 ribonuclease III; Reviewed 100.0
PRK14718 467 ribonuclease III; Provisional 100.0
PRK12372 413 ribonuclease III; Reviewed 100.0
PRK00102229 rnc ribonuclease III; Reviewed 100.0
TIGR02191220 RNaseIII ribonuclease III, bacterial. This family 100.0
PF14622128 Ribonucleas_3_3: Ribonuclease-III-like; PDB: 1O0W_ 99.97
smart00535129 RIBOc Ribonuclease III family. 99.96
cd00593133 RIBOc RIBOc. Ribonuclease III C terminal domain. T 99.96
KOG1817533 consensus Ribonuclease [RNA processing and modific 99.94
PF00636114 Ribonuclease_3: Ribonuclease III domain; InterPro: 99.89
KOG1817 533 consensus Ribonuclease [RNA processing and modific 99.64
KOG0701 1606 consensus dsRNA-specific nuclease Dicer and relate 99.54
KOG3769333 consensus Ribonuclease III domain proteins [Transl 99.42
KOG07011606 consensus dsRNA-specific nuclease Dicer and relate 99.21
COG1939132 Ribonuclease III family protein [Replication, reco 97.89
PF11469120 Ribonucleas_3_2: Ribonuclease III; InterPro: IPR02 89.25
PHA02701183 ORF020 dsRNA-binding PKR inhibitor; Provisional 88.67
>COG0571 Rnc dsRNA-specific ribonuclease [Transcription] Back     alignment and domain information 
Probab=100.00  E-value=2.8e-43  Score=336.62  Aligned_cols=186  Identities=26%  Similarity=0.349  Sum_probs=171.8

Q ss_pred             HHHHHHHHHhCCCCCCCCCCCCCCCCCChHHHHHHHhcCCCcccccccCCCCCchHHHHHHHHHHHHHHHHHHHhhCCCC
Q 015482          134 EYLLEAKQALGYSLEPSDQLGDDNPAKHFDTLLYLAFQHPFCERNKARHVRAGHSRLCFLGQFVLELAFCEFFLQRYPRE  213 (406)
Q Consensus       134 e~l~~l~~~LGy~F~~~~~~~~~~~~~~~~~LL~~ALTH~S~~~~~~~~~~~nnERLEFLGDaVL~lvvs~~Lf~~yP~~  213 (406)
                      ..+..+++.+||.|+|             ++||.+||||+||.+++.  ...||||||||||+||+++|+++||++||+.
T Consensus         6 ~~~~~l~~~lg~~f~~-------------~~lL~~AltH~S~~~e~~--~~~~nERLEFLGDavL~l~vae~Lf~~yP~~   70 (235)
T COG0571           6 KKLEALEKKLGYTFKD-------------KELLEQALTHRSYANEHK--AVENNERLEFLGDAVLGLVVAEYLFKKYPNL   70 (235)
T ss_pred             HHHHHHHHHhCCCcCC-------------HHHHHHHhcCcchhcccc--CCcchHHHHhhHHHHHHHHHHHHHHHHCCCC
Confidence            3567899999999999             899999999999998632  5679999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHcCcchHHHHHHHcCCCcccCcCchhhhhcccCCCChHHhHHHHHHHHHHHhcCHHHHHHHHHHhhCCC
Q 015482          214 SPAPMRERVFGLIGRRNLPKWIKAASLQNLIFPFDEMDRLIRKEREPPVKSVFWALFGAIYLCFGFPEVYRVLFEVFGMD  293 (406)
Q Consensus       214 ~eG~Ls~~Rs~lVsn~~La~lA~~lGL~~~I~~~~~~~~~~~~~~~KiLADvfEALIGAIYlD~G~~~a~~fl~~~~~~~  293 (406)
                      +||.||++|+.+||+.+|+.+|+.+||++||+.++|+...+++.+++++||+|||+|||||+|+|++.|++|+.++|.+.
T Consensus        71 ~EG~Ls~~ra~lV~~~~La~ia~~l~l~~~l~lg~ge~~~gg~~~~silaD~~EAligAiylD~g~~~~~~~i~~l~~~~  150 (235)
T COG0571          71 PEGELSKLRAALVSEESLAEIARELGLGDYLRLGKGEEKSGGRRRESILADAFEALIGAIYLDSGLEAARKFILKLFLPR  150 (235)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHhCccchhhccCChhhcCCCCchhHHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999665


Q ss_pred             CC----------CCc-hHHHHhhc-CCCCceEEEeeeCCccccccccccCCCchhhhcCCcceeeccCCCc
Q 015482          294 PE----------DKE-CQPKLRRQ-LEDVDYVSVEFEGNKLTWQDVAAYKPPEDALFAQPRLFRACVPPGM  352 (406)
Q Consensus       294 i~----------~Kt-Lqe~lq~~-~~~p~Y~~i~~~G~~~s~~d~~~~~~p~~~Lf~h~rlf~~~~~~g~  352 (406)
                      ++          .|+ ||||+|++ +..|.|+++.++|+                  +|.+.|.+.|..+.
T Consensus       151 ~~~~~~~~~~~D~Kt~LQe~~q~~~~~~p~Y~~v~~~g~------------------~h~~~F~v~v~v~~  203 (235)
T COG0571         151 LEEIDAGDQFKDPKTRLQELLQAQGLVLPEYRLVKEEGP------------------AHDKEFTVEVAVGG  203 (235)
T ss_pred             HhhccccccccChhHHHHHHHHhcCCCCCeEEEeeccCC------------------CCCceEEEEEEECC
Confidence            44          278 99999999 99999999999884                  89999988776554

>PRK12371 ribonuclease III; Reviewed Back     alignment and domain information
>PRK14718 ribonuclease III; Provisional Back     alignment and domain information
>PRK12372 ribonuclease III; Reviewed Back     alignment and domain information
>PRK00102 rnc ribonuclease III; Reviewed Back     alignment and domain information
>TIGR02191 RNaseIII ribonuclease III, bacterial Back     alignment and domain information
>PF14622 Ribonucleas_3_3: Ribonuclease-III-like; PDB: 1O0W_A 2A11_A 3N3W_B Back     alignment and domain information
>smart00535 RIBOc Ribonuclease III family Back     alignment and domain information
>cd00593 RIBOc RIBOc Back     alignment and domain information
>KOG1817 consensus Ribonuclease [RNA processing and modification] Back     alignment and domain information
>PF00636 Ribonuclease_3: Ribonuclease III domain; InterPro: IPR000999 Prokaryotic ribonuclease III (3 Back     alignment and domain information
>KOG1817 consensus Ribonuclease [RNA processing and modification] Back     alignment and domain information
>KOG0701 consensus dsRNA-specific nuclease Dicer and related ribonucleases [RNA processing and modification] Back     alignment and domain information
>KOG3769 consensus Ribonuclease III domain proteins [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG0701 consensus dsRNA-specific nuclease Dicer and related ribonucleases [RNA processing and modification] Back     alignment and domain information
>COG1939 Ribonuclease III family protein [Replication, recombination, and repair] Back     alignment and domain information
>PF11469 Ribonucleas_3_2: Ribonuclease III; InterPro: IPR021568 This archaeal family of proteins has no known function Back     alignment and domain information
>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query406
1o0w_A252 Crystal Structure Of Ribonuclease Iii (Tm1102) From 5e-05
>pdb|1O0W|A Chain A, Crystal Structure Of Ribonuclease Iii (Tm1102) From Thermotoga Maritima At 2.0 A Resolution Length = 252 Back     alignment and structure 
Iteration: 1

 Score = 45.4 bits (106), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 41/138 (29%), Positives = 64/138 (46%), Gaps = 22/138 (15%)
Query: 163 DTLLYLAFQHP--FCERNKA-RHVRAGHSRLCFLGQFVLELAFCEFFLQRYP-------- 211
           + LL+ A  H     E+N+A R     + +L FLG  VLEL  CE   ++YP        
Sbjct: 35  EELLFRALCHSSYANEQNQAGRKDVESNEKLEFLGDAVLELFVCEILYKKYPEAEVGDLA 94
Query: 212 RESPAPMRERVFGLIGRR-NLPKWIKAASLQNLIFPFDEMDRLIRKEREPPVKSVFWALF 270
           R   A   E V  ++ R+ NL K+         +F     ++   ++R+  +   F AL 
Sbjct: 95  RVKSAAASEEVLAMVSRKMNLGKF---------LFLGKGEEKTGGRDRDSILADAFEALL 145
Query: 271 GAIYLCFGFPEVYRVLFE 288
            AIYL  G+ ++ + LFE
Sbjct: 146 AAIYLDQGYEKI-KELFE 162

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query406
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-08
3rv1_A246 K. polysporus DCR1; RNAse III enzyme, RNA binding 4e-05
3c4b_A265 Endoribonuclease dicer; RNAse, dsRNA binding prote 1e-04
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
 Score = 55.2 bits (132), Expect = 2e-08
 Identities = 74/508 (14%), Positives = 135/508 (26%), Gaps = 149/508 (29%)

Query: 2   ELSSSFASLVSDNISFSSAISPFPLQSSLKTLKLTKPTSQNLRILAVAVEP--QQDLP-- 57
              S  +    D+I     +S   +  +L+        S+   ++   VE   + +    
Sbjct: 41  MPKSILSKEEIDHI----IMSKDAVSGTLRLFWTLL--SKQEEMVQKFVEEVLRINYKFL 94

Query: 58  -------HNSPQKLLKELAERKKVTSPKKKVPPKKFILRPPLDDKKLVDRFLKSPQLSLK 110
                     P  + +   E++       +V  K  + R     K      L+   L L+
Sbjct: 95  MSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLK------LRQALLELR 148

Query: 111 SFPLLS---------SCLPPSRLNNADQT--------WI-------DEYLLEAKQALGYS 146
               +          + +      +            W+        E +LE  Q L Y 
Sbjct: 149 PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQ 208

Query: 147 LEPSDQLGDDNPA--------------------KHFDTLLYL----------AFQHPFCE 176
           ++P+     D+ +                     + + LL L          AF    C+
Sbjct: 209 IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLS-CK 267

Query: 177 -----RNKA----------RHVRAGHSRLCFLGQFVLELAFCEFF---LQRYPRE----S 214
                R K            H+   H  +      V  L   ++     Q  PRE    +
Sbjct: 268 ILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL-LLKYLDCRPQDLPREVLTTN 326

Query: 215 PAPMRERVFGLIGRRNLPKWIKAASLQNLIFPFDEMDRLIRKEREPPVKSVFWALFGAIY 274
           P     R   +I            S++      D +      +           L   I 
Sbjct: 327 P-----RRLSIIA----------ESIR------DGLATWDNWK-----HVNCDKLTTIIE 360

Query: 275 LCFGF--PEVYRVLFEVFGMDPEDKECQPKLRRQL-EDVDYVSVEFEGNKLTWQDVAAYK 331
                  P  YR +F+   + P        L   +  DV    V    NKL    +   +
Sbjct: 361 SSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQ 420

Query: 332 PPEDALFAQPRLFRACVP----PGMHR--------FRG-NLWDFDSRPQV----MQTLGY 374
           P E  +          V       +HR         +  +  D    P +       +G+
Sbjct: 421 PKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDL-IPPYLDQYFYSHIGH 479

Query: 375 PLVVQDRIPEITEARNIELGLG-LQVAL 401
            L   +    +T  R + L    L+  +
Sbjct: 480 HLKNIEHPERMTLFRMVFLDFRFLEQKI 507
>3rv1_A K. polysporus DCR1; RNAse III enzyme, RNA binding protein; 1.98A {Vanderwaltozyma polyspora} Length = 246 Back     alignment and structure
>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 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query406
3n3w_A248 Ribonuclease III; nuclease domain, ribonuclase III 100.0
1o0w_A252 Ribonuclease III, RNAse III; TM1102, structural ge 100.0
2nug_A221 Ribonuclease III, RNAse III; dsRNA, RNA interferen 100.0
2a11_A242 Ribonuclease III, RNAse III; nuclease domain, stru 100.0
3o2r_A170 Ribonuclease III; structural genomics, center for 100.0
3c4b_A265 Endoribonuclease dicer; RNAse, dsRNA binding prote 100.0
3rv0_A341 K. polysporus DCR1; RNAse III enzyme, RNA binding 100.0
3rv1_A246 K. polysporus DCR1; RNAse III enzyme, RNA binding 99.98
2qvw_A756 GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral 99.95
2qvw_A 756 GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral 99.95
1u61_A138 Hypothetical protein; structural genomics, PSI, pr 99.87
2gsl_A137 Hypothetical protein; alpha-helical protein, struc 99.82
2dmy_A97 Spermatid perinuclear RNA-binding protein; DSRM do 95.0
3adj_A76 F21M12.9 protein; HYL1, miRNA processing, RNA bind 94.79
2b7t_A73 Double-stranded RNA-specific editase 1; RNA editin 94.63
2khx_A85 Ribonuclease 3; drosha, RNA binding domain, hydrol 94.57
3adg_A73 F21M12.9 protein; HYL1, miRNA processing mechanism 94.53
1di2_A69 XLRBPA, double stranded RNA binding protein A; pro 94.49
2dix_A84 Interferon-inducible double stranded RNA- dependen 94.28
1uhz_A89 Staufen (RNA binding protein) homolog 2; DSRM, sta 94.22
3adl_A88 RISC-loading complex subunit tarbp2; TRBP2, miRNA 93.95
1t4o_A117 Ribonuclease III; RNT1P, DSRBD, RNA-binding, hydro 93.79
2cpn_A89 TAR RNA-binding protein 2; double-stranded RNA bin 93.79
3llh_A90 RISC-loading complex subunit tarbp2; DSRBD, DSRM, 93.79
1ekz_A76 DSRBDIII, maternal effect protein (staufen); struc 93.6
1t4n_A94 Ribonuclease III; DSRBD, RNA-binding, hydrolase; N 93.31
2l2n_A103 Hyponastic leave 1; DSRBD, miRNA, RNA binding prot 92.93
1x49_A97 Interferon-induced, double-stranded RNA- activated 92.93
2l33_A91 Interleukin enhancer-binding factor 3; structural 92.6
1whq_A99 RNA helicase A; double-stranded RNA binding domain 92.36
1uil_A113 Double-stranded RNA-binding motif; structural geno 90.12
1qu6_A179 Protein kinase PKR; dsRNA-binding domain, solution 85.83
1whn_A128 Hypothetical protein riken cDNA 2310016K04; double 85.71
1x47_A98 DGCR8 protein; structural genomics, DSRM domain, N 84.87
1ztd_A133 Hypothetical protein PFU-631545-001; structural ge 84.16
2ljh_A114 Double-stranded RNA-specific editase ADAR; DSRBD, 84.02
1x48_A88 Interferon-induced, double-stranded RNA- activated 81.14
3p1x_A75 Interleukin enhancer-binding factor 3; structural 80.31
>3n3w_A Ribonuclease III; nuclease domain, ribonuclase III, IDP90862, csgid, structura genomics; 2.21A {Campylobacter jejuni subsp} Back     alignment and structure
Probab=100.00  E-value=4.1e-40  Score=316.14  Aligned_cols=180  Identities=19%  Similarity=0.283  Sum_probs=132.1

Q ss_pred             HHHHHHHhCCCCCCCCCCCCCCCCCChHHHHHHHhcCCCcccccccCCCCCchHHHHHHHHHHHHHHHHHHHhhCCCCCh
Q 015482          136 LLEAKQALGYSLEPSDQLGDDNPAKHFDTLLYLAFQHPFCERNKARHVRAGHSRLCFLGQFVLELAFCEFFLQRYPRESP  215 (406)
Q Consensus       136 l~~l~~~LGy~F~~~~~~~~~~~~~~~~~LL~~ALTH~S~~~~~~~~~~~nnERLEFLGDaVL~lvvs~~Lf~~yP~~~e  215 (406)
                      +..++++|||+|+|             ++||.+||||+||.++      .||||||||||+||+++|+++||.+||+.++
T Consensus        28 l~~le~~lgy~F~~-------------~~LL~~AlTH~S~~~~------~~neRLefLGDavL~~~v~~~L~~~~p~~~e   88 (248)
T 3n3w_A           28 IEKLEQSLTYEFKD-------------KNLLIHALTHKSFKKS------YNNERLEFLGDAVLDLVVGEYLFHKFAKDAE   88 (248)
T ss_dssp             HHHHHHHHTCCCSS-------------HHHHHHHTBCTTSBTT------BCSHHHHHHHHHHHHHHHHHHHHHHTTTCSC
T ss_pred             HHHHHHHHCCCCCC-------------HHHHHHHhcCcCCCCC------CCcHHHHHHHHHHHHHHHHHHHHHhCCCCCH
Confidence            57899999999998             8999999999999763      6999999999999999999999999999999


Q ss_pred             hhHHHHHHHHcCcchHHHHHHHcCCCcccCcCchhhhhcccCCCChHHhHHHHHHHHHHHhcCHHHHHHHHHHhhCCCCC
Q 015482          216 APMRERVFGLIGRRNLPKWIKAASLQNLIFPFDEMDRLIRKEREPPVKSVFWALFGAIYLCFGFPEVYRVLFEVFGMDPE  295 (406)
Q Consensus       216 G~Ls~~Rs~lVsn~~La~lA~~lGL~~~I~~~~~~~~~~~~~~~KiLADvfEALIGAIYlD~G~~~a~~fl~~~~~~~i~  295 (406)
                      |.|+.+|+.+|||++|+.+|+++||++||+.++++...+++.+++++||+|||+|||||+|+|++.|++|+.+++.+.++
T Consensus        89 g~Ls~~r~~lVs~~~La~~a~~lgL~~~l~~~~~e~~~~g~~~~~~lad~fEAliGAiyld~G~~~~~~~i~~~~~~~l~  168 (248)
T 3n3w_A           89 GDLSKLRAALVNEKSFAKIANSLNLGDFILMSVAEENNGGKEKPSILSDALEAIIGAIHLEAGFEFAKTIALRLIEKNFP  168 (248)
T ss_dssp             CCHHHHHHHHHSHHHHHHHHHHTTGGGTCBCCHHHHHTTGGGCHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHCHHHHHHHHHHcCcHHHhhcCchhhhcCCCCCccHHHHHHHHHHHHHHHHCChHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999988777777789999999999999999999999999999999865443


Q ss_pred             C----------Cc-hHHHHhhc-CCCCceEEEeeeCCccccccccccCCCchhhhcCCcceeeccCCCc
Q 015482          296 D----------KE-CQPKLRRQ-LEDVDYVSVEFEGNKLTWQDVAAYKPPEDALFAQPRLFRACVPPGM  352 (406)
Q Consensus       296 ~----------Kt-Lqe~lq~~-~~~p~Y~~i~~~G~~~s~~d~~~~~~p~~~Lf~h~rlf~~~~~~g~  352 (406)
                      .          |+ |||++|++ ...|.|++++++|+                  +|.+.|.+.|..+.
T Consensus       169 ~~~~~~~~~dpks~LqE~~q~~~~~~p~Y~~~~~~Gp------------------~h~~~F~v~v~v~g  219 (248)
T 3n3w_A          169 QIDAKILIKDYKTKLQEITQGKIGQTPQYETVRAFGP------------------DHLKQFEIALMLDG  219 (248)
T ss_dssp             ---------------------------------------------------------------------
T ss_pred             HhhccccccCHHHHHHHHHHHcCCCCCceEEeeccCC------------------CCCceEEEEEEECC
Confidence            2          77 99999988 78899999988884                  67788877775554
>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 Back     alignment and structure
>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 Back     alignment and structure
>2a11_A Ribonuclease III, RNAse III; nuclease domain, structural genomic protein structure initiative; 2.10A {Mycobacterium tuberculosis} Back     alignment and structure
>3o2r_A Ribonuclease III; structural genomics, center for structural genomics of infec diseases, csgid, nuclease domain, ribonuclase III; HET: MLZ; 1.25A {Campylobacter jejuni subsp} PDB: 3o2r_B* Back     alignment and structure
>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 Back     alignment and structure
>3rv0_A K. polysporus DCR1; RNAse III enzyme, RNA binding protein; 2.29A {Vanderwaltozyma polyspora} Back     alignment and structure
>3rv1_A K. polysporus DCR1; RNAse III enzyme, RNA binding protein; 1.98A {Vanderwaltozyma polyspora} Back     alignment and structure
>2qvw_A GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral twin, hydrolase; 3.00A {Giardia intestinalis} PDB: 2ffl_A Back     alignment and structure
>2qvw_A GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral twin, hydrolase; 3.00A {Giardia intestinalis} PDB: 2ffl_A Back     alignment and structure
>1u61_A Hypothetical protein; structural genomics, PSI, protein STRU initiative, midwest center for structural genomics, MCSG, U function; 2.15A {Bacillus cereus} SCOP: a.149.1.1 Back     alignment and structure
>2gsl_A Hypothetical protein; alpha-helical protein, structural genomics, PSI, protein STR initiative; 2.60A {Fusobacterium nucleatum subsp} Back     alignment and structure
>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 Back     alignment and structure
>3adj_A F21M12.9 protein; HYL1, miRNA processing, RNA binding protein, gene regulation; 3.00A {Arabidopsis thaliana} PDB: 2l2m_A Back     alignment and structure
>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 Back     alignment and structure
>2khx_A Ribonuclease 3; drosha, RNA binding domain, hydrolase, gene regulation, NUCL protein, gene regulation,nuclear protein; NMR {Homo sapiens} Back     alignment and structure
>3adg_A F21M12.9 protein; HYL1, miRNA processing mechanism, RNA binding protein, gene regulation; 1.70A {Arabidopsis thaliana} PDB: 3adi_A Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>3adl_A RISC-loading complex subunit tarbp2; TRBP2, miRNA processing, gene regulation-RNA complex; 2.20A {Homo sapiens} Back     alignment and structure
>1t4o_A Ribonuclease III; RNT1P, DSRBD, RNA-binding, hydrolase; 2.50A {Saccharomyces cerevisiae} SCOP: d.50.1.1 PDB: 1t4l_B 2lbs_B Back     alignment and structure
>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 Back     alignment and structure
>3llh_A RISC-loading complex subunit tarbp2; DSRBD, DSRM, microrna, RNA binding protein; 2.14A {Homo sapiens} Back     alignment and structure
>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 Back     alignment and structure
>1t4n_A Ribonuclease III; DSRBD, RNA-binding, hydrolase; NMR {Saccharomyces cerevisiae} SCOP: d.50.1.1 Back     alignment and structure
>2l2n_A Hyponastic leave 1; DSRBD, miRNA, RNA binding protein, plant protein; NMR {Arabidopsis thaliana} Back     alignment and structure
>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 Back     alignment and structure
>2l33_A Interleukin enhancer-binding factor 3; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, DRBM; NMR {Homo sapiens} Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>1qu6_A Protein kinase PKR; dsRNA-binding domain, solution structure, transferase; NMR {Homo sapiens} SCOP: d.50.1.1 d.50.1.1 Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>1ztd_A Hypothetical protein PFU-631545-001; structural genomics, southeast collaboratory for structural genomics, secsg; 2.00A {Pyrococcus furiosus} SCOP: a.149.1.2 Back     alignment and structure
>2ljh_A Double-stranded RNA-specific editase ADAR; DSRBD, DSRBM, editing, hydrolase; NMR {Drosophila melanogaster} Back     alignment and structure
>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 Back     alignment and structure
>3p1x_A Interleukin enhancer-binding factor 3; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 1.90A {Homo sapiens} Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 406
d1o0wa1169 a.149.1.1 (A:-1-167) RNase III endonuclease cataly 3e-10
d1u61a_127 a.149.1.1 (A:) Hypothetical protein BC0111 {Bacill 3e-05
>d1o0wa1 a.149.1.1 (A:-1-167) RNase III endonuclease catalytic domain {Thermotoga maritima [TaxId: 2336]} Length = 169 Back     information, alignment and structure

class: All alpha proteins
fold: RNase III domain-like
superfamily: RNase III domain-like
family: RNase III catalytic domain-like
domain: RNase III endonuclease catalytic domain
species: Thermotoga maritima [TaxId: 2336]

 Score = 56.4 bits (135), Expect = 3e-10
 Identities = 30/129 (23%), Positives = 51/129 (39%), Gaps = 3/129 (2%)

Query: 165 LLYLAFQHP---FCERNKARHVRAGHSRLCFLGQFVLELAFCEFFLQRYPRESPAPMRER 221
           LL+ A  H      +    R     + +L FLG  VLEL  CE   ++YP      +   
Sbjct: 27  LLFRALCHSSYANEQNQAGRKDVESNEKLEFLGDAVLELFVCEILYKKYPEAEVGDLARV 86

Query: 222 VFGLIGRRNLPKWIKAASLQNLIFPFDEMDRLIRKEREPPVKSVFWALFGAIYLCFGFPE 281
                    L    +  +L   +F     ++   ++R+  +   F AL  AIYL  G+ +
Sbjct: 87  KSAAASEEVLAMVSRKMNLGKFLFLGKGEEKTGGRDRDSILADAFEALLAAIYLDQGYEK 146

Query: 282 VYRVLFEVF 290
           +  +  + F
Sbjct: 147 IKELFEQEF 155
>d1u61a_ a.149.1.1 (A:) Hypothetical protein BC0111 {Bacillus cereus [TaxId: 1396]} Length = 127 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query406
d1o0wa1169 RNase III endonuclease catalytic domain {Thermotog 100.0
d2nuga1148 RNase III endonuclease catalytic domain {Aquifex a 100.0
d1u61a_127 Hypothetical protein BC0111 {Bacillus cereus [TaxI 99.87
d2nuga268 RNase III, C-terminal domain {Aquifex aeolicus [Ta 95.36
d1o0wa269 RNase III, C-terminal domain {Thermotoga maritima 94.34
d1di2a_69 Double-stranded RNA-binding protein A, second dsRB 93.61
d1uhza_89 staufen homolog 2 {Mouse (Mus musculus) [TaxId: 10 92.71
d2cpna176 TAR RNA-binding protein 2 {Human (Homo sapiens) [T 92.31
d1qu6a190 dsRNA-dependent protein kinase pkr {Human (Homo sa 90.88
d2dixa173 Interferon-inducible double stranded RNA-dependent 90.77
d1t4oa_81 RNase III, C-terminal domain {Baker's yeast (Sacch 89.63
d1whqa_99 ATP-dependent RNA helicase A, Dhx9 {Mouse (Mus mus 89.23
d1x49a185 dsRNA-dependent protein kinase pkr {Mouse (Mus mus 86.34
d1uila_113 ATP-dependent RNA helicase A, Dhx9 {Mouse (Mus mus 86.18
d1ekza_76 Staufen, domain III {Fruit fly (Drosophila melanog 85.11
d1ztda1124 Hypothetical protein PF0609 {Pyrococcus furiosus [ 84.48
>d2nuga1 a.149.1.1 (A:3-150) RNase III endonuclease catalytic domain {Aquifex aeolicus [TaxId: 63363]} Back     information, alignment and structure
>d1u61a_ a.149.1.1 (A:) Hypothetical protein BC0111 {Bacillus cereus [TaxId: 1396]} Back     information, alignment and structure
>d2nuga2 d.50.1.1 (A:151-218) RNase III, C-terminal domain {Aquifex aeolicus [TaxId: 63363]} Back     information, alignment and structure
>d1o0wa2 d.50.1.1 (A:168-236) RNase III, C-terminal domain {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d1di2a_ d.50.1.1 (A:) Double-stranded RNA-binding protein A, second dsRBD {Xenopus laevis [TaxId: 8355]} Back     information, alignment and structure
>d1uhza_ d.50.1.1 (A:) staufen homolog 2 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2cpna1 d.50.1.1 (A:150-225) TAR RNA-binding protein 2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1qu6a1 d.50.1.1 (A:1-90) dsRNA-dependent protein kinase pkr {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2dixa1 d.50.1.1 (A:7-79) Interferon-inducible double stranded RNA-dependent protein kinase activator A {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1t4oa_ d.50.1.1 (A:) RNase III, C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1whqa_ d.50.1.1 (A:) ATP-dependent RNA helicase A, Dhx9 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1x49a1 d.50.1.1 (A:8-92) dsRNA-dependent protein kinase pkr {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1uila_ d.50.1.1 (A:) ATP-dependent RNA helicase A, Dhx9 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1ekza_ d.50.1.1 (A:) Staufen, domain III {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Back     information, alignment and structure
>d1ztda1 a.149.1.2 (A:2-125) Hypothetical protein PF0609 {Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure