Psyllid ID: psy4856

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-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650----
LKDLISNPSRKFYVFVNEHHYETYVEQEPGESVNDRNDRALRRVATWYVKYEEHLESAVRVILLSEDVRNRDLATQSGLLTSSIEGYISTLSNGEPLLDKLSKKEAVVETSVKDSLYPLHATPSEIHAGIKNQSLLQGSFQASRENFLEGQVNCEGYDKPILVQGREGLNRAIDGDTVAVRLLPESQWSAPLELVLEDEGSGEDEEGEDGKLIKGNKTVPPAERRPTGQIVGIIKRKWRQYCGILQPNPLAGSSRHLFVPAERKIPKIRVETRQIATLSGQRIVVAIDSWPRHSRYPQGHFVRALGPIGDKDTENEVLLLEHDVPHSKFSDLVLSYLPPMPWEKSTGRPWCSGTSIGLSQISTGVISVGLEQGFPSLLKPRTTFVFYDFPRTTRTNFILLFLFQAVYFSSGMLQQSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDKKASTALCYNLVSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDKKASTALCYNLPGCTDIDDALHCRPLPNGNIEVTYPSLGMSQSCKDIQACLLELGYNLNYRNRQAQYAGRASVALHTHLFFRRKSITEEEVARRTDLRHLDVCSVDPPGCTDIDDALHCRPLPNGNIEVTYPS
cccccccccccEEEEEccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHcccccEEEEEEccHHHHHHHHHcccccccHHHHHHccccccccHHHHHHHHHHHHcccccccccccccHHHHHHHHHcccEEEEEEEEEcccccEEEEEEccccccEEEEccccccccccccEEEEEEcccccccccccHHccccccccccccccccccccccccccccccccccEEEEEEEccccEEEEEccccccccccEEEEEcccccccEEEEcccHHHccccEEEEEEcccccccccccEEEEEEccccccccHHHHHHHHHcccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHccccccccHHHHHHHHHHHcccccHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccccccccHHHcccccccccccccccccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHccccccEEEEEcccccccccccEEEEEcccccEEEcccc
ccHHHccccccEEEEEcccccccEEEcccccccccccHHHHHHHHHHHHHHHHHcccccEEEEEEccHHHHHHHHHcccEEEEHHHHHHHccccHHHHHHHHccccHcccccccccccccccHHHHHHcccccEEEEEEEEEcccccEEEEEEcccccccEEEEccHHHHHcccccEEEEEEcccHcccccccEEEccccccccccccHHHHHHHcccccccccccccEEEEEEEccccHHEEEEcccccccccEEEEEEcccccccEEEEcccHHHHcccEEEEEEcccccccccccccEEEEccccccHHHHHHHHHHHccccccccHHHHHHcccccccccHHHHHHHHHccccEccccHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHccccccHHHccccccccccccccccHHHHHHHHHHHHHHHHHcccccccccHHcHHHHHHHHHHHcHHHcccccccccccccccHHHHHHHHHHHHHHHHHHcccccccHHccHHHHHHHHHcHHHHHHHHccccHcHcccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHccEEEEcccccEEEEEcccccccHHHHHHccccccccEEEEEcc
lkdlisnpsrkfYVFVNEHHYetyveqepgesvndrNDRALRRVATWYVKYEEHLESAVRVILLSEdvrnrdlatqsgllTSSIEGYIStlsngeplldklskKEAVVETsvkdslyplhatpseihagiknqsllQGSFQASRENFLEgqvncegydkpilvqgreglnraidgdtvavrllpesqwsaplelvledegsgedeegedgklikgnktvppaerrptgqivGIIKRKWRQycgilqpnplagssrhlfvpaerkipkiRVETRQIATLSGQRIVVAidswprhsrypqghfvralgpigdkdteNEVLLLehdvphskfsdlvlsylppmpwekstgrpwcsgtsiglsqISTGVISVgleqgfpsllkprttfvfydfprttrtNFILLFLFQAVYfssgmlqqsdfhhyglatpiythftspirRYADIIVHRLLAACIgadatypslldkkaSTALCYNLVSDfhhyglatpiythftspirRYADIIVHRLLAACIgadatypslldkkastalcynlpgctdiddalhcrplpngnievtypslgmsqsCKDIQACLLELGYNLNYRNRQAQYAGRASVALHTHLFFRRKSITEEEVARrtdlrhldvcsvdppgctdiddalhcrplpngnievtyps
lkdlisnpsrkFYVFVNEHHYEtyveqepgesvndrnDRALRRVATWYVKYEEHLESAVRVILLSEDVRNRDLATqsglltssIEGYISTLSNGEPLLDKLSKKEAVVETSVKDSLYPLHATPSEIHAGIKNQSLLQGSFQASRENFLEGQVNCEGYDKPILVQGREGLNRAIDGDTVAVRLlpesqwsapLELVLEDEgsgedeegedgklikgnktvppaerrptgqivGIIKRKWRQYCGILqpnplagssrhlfvpaerkipkirvetrqiatlsgqrIVVAIDSWPRHSRYPQGHFVRALGPIGDKDTENEVLLLEHDVPHSKFSDLVLSYLPPMPWEKSTGRPWCSGTSIGLSQISTGVISVGLEQGFPSLLKPRTTFVFYDFPRTTRTNFILLFLFQAVYFSSGMLQQSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDKKASTALCYNLVSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDKKASTALCYNLPGCTDIDDALHCRPLPNGNIEVTYPSLGMSQSCKDIQACLLELGYNLNYRNRQAQYAGRASVALHTHLffrrksiteeevarrtdlrhldvcsvDPPGCTDIDDALHCRPlpngnievtyps
LKDLISNPSRKFYVFVNEHHYETYVEQEPGESVNDRNDRALRRVATWYVKYEEHLESAVRVILLSEDVRNRDLATQSGLLTSSIEGYISTLSNGEPLLDKLSKKEAVVETSVKDSLYPLHATPSEIHAGIKNQSLLQGSFQASRENFLEGQVNCEGYDKPILVQGREGLNRAIDGDTVAVRLLPESQWSAPlelvledegsgedeegedgKLIKGNKTVPPAERRPTGQIVGIIKRKWRQYCGILQPNPLAGSSRHLFVPAERKIPKIRVETRQIATLSGQRIVVAIDSWPRHSRYPQGHFVRALGPIGDKDTENEVLLLEHDVPHSKFSDLVLSYLPPMPWEKSTGRPWCSGTSIGLSQISTGVISVGLEQGFPSLLKPRTTFVFYDFPRTTRTNFILLFLFQAVYFSSGMLQQSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDKKASTALCYNLVSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDKKASTALCYNLPGCTDIDDALHCRPLPNGNIEVTYPSLGMSQSCKDIQACLLELGYNLNYRNRQAQYAGRASVALHTHLFFRRKSITEEEVARRTDLRHLDVCSVDPPGCTDIDDALHCRPLPNGNIEVTYPS
**********KFYVFVNEHHYETYVE************RALRRVATWYVKYEEHLESAVRVILLSEDVRNRDLATQSGLLTSSIEGYISTLS**********************SLYPLHA****IHAGIKNQSLLQGSFQASRENFLEGQVNCEGYDKPILVQGREGLNRAIDGDTVAVRLLPESQWSAPLELV********************************GQIVGIIKRKWRQYCGILQPNPLAGSSRHLFVPAERKIPKIRVETRQIATLSGQRIVVAIDSWPRHSRYPQGHFVRALGPIGDKDTENEVLLLEHDVPHSKFSDLVLSYLPPMPWEKSTGRPWCSGTSIGLSQISTGVISVGLEQGFPSLLKPRTTFVFYDFPRTTRTNFILLFLFQAVYFSSGMLQQSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDKKASTALCYNLVSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDKKASTALCYNLPGCTDIDDALHCRPLPNGNIEVTYPSLGMSQSCKDIQACLLELGYNLNYRNRQAQYAGRASVALHTHLFFRRKSITEEEVARRTDLRHLDVCSVDPPGCTDIDDALHCRPLP**********
LKDL***PSRKFYVFVNEHHYETYVEQEPGESVNDRNDRALRRVATWYVKYEEHLESAVRVILLSEDVRNRDLATQSGLLTSSIEGYISTLSNGEP**********************LHATPSEIHAGIKNQSLLQGSFQASRENFLEGQVNCEGYDKPILVQGREGLNRAIDGDTVAVRLLPE********************************TVPPAERRPTGQIVGIIKRKWRQYCGILQPNPLAGSSRHLFVPAERKIPKIRVETRQIATLSGQRIVVAIDSWPRHSRYPQGHFVRALGPIGDKDTENEVLLLEHDVPHSKFSDLVLSYLPPMPWEKSTGRPWCSGTSIGLSQISTGVISVGLEQGFPSLLKPRTTFVFYDFPRTTRTNFILLFLFQAVYFSSGMLQQSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDKKASTALCYNLVSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDKKASTALCYNLPGCT*****L*CRPLPNGNIEVTYPSLGMSQSCKDIQACLLELGYNLNYRNRQAQYAGRASVALHTHLFFRRKSITEEEVARRTDLRHLDVCSVDPPGCTDIDDALHCRPLPNGNIEVTYP*
LKDLISNPSRKFYVFVNEHHYETY***********RNDRALRRVATWYVKYEEHLESAVRVILLSEDVRNRDLATQSGLLTSSIEGYISTLSNGEPLLDKLSKKEAVVETSVKDSLYPLHATPSEIHAGIKNQSLLQGSFQASRENFLEGQVNCEGYDKPILVQGREGLNRAIDGDTVAVRLLPESQWSAPLELVL*************GKLIKGNKTVPPAERRPTGQIVGIIKRKWRQYCGILQPNPLAGSSRHLFVPAERKIPKIRVETRQIATLSGQRIVVAIDSWPRHSRYPQGHFVRALGPIGDKDTENEVLLLEHDVPHSKFSDLVLSYLPPMPWEKSTGRPWCSGTSIGLSQISTGVISVGLEQGFPSLLKPRTTFVFYDFPRTTRTNFILLFLFQAVYFSSGMLQQSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDKKASTALCYNLVSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDKKASTALCYNLPGCTDIDDALHCRPLPNGNIEVTYPSLGMSQSCKDIQACLLELGYNLNYRNRQAQYAGRASVALHTHLFFRRKSITEEEVARRTDLRHLDVCSVDPPGCTDIDDALHCRPLPNGNIEVTYPS
LKDLISNPSRKFYVFVNEHHYETYVEQEPGESVNDRNDRALRRVATWYVKYEEHLESAVRVILLSEDVRNRDLATQSGLLTSSIEGYISTLSNGEPLLDKLSKKEA*****VKDSLYPLHATPSEIHAGIKNQSLLQGSFQASRENFLEGQVNCEGYDKPILVQGREGLNRAIDGDTVAVRLLPESQWSAPLELVLE**************************RRPTGQIVGIIKRKWRQYCGILQPNPLAGSSRHLFVPAERKIPKIRVETRQIATLSGQRIVVAIDSWPRHSRYPQGHFVRALGPIGDKDTENEVLLLEHDVPHSKFSDLVLSYLPPMPWEKSTGRPWCSGTSIGLSQISTGVISVGLEQGFPSLLKPRTTFVFYDFPRTTRTNFILLFLFQAVYFSSGMLQQSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDKKASTALCYNLVSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDKKASTALCYNLPGCTDIDDALHCRPLPNGNI*************KDIQACLLELGYNLNYRNRQAQYAGRASVALHTHLFFRRKSITEEEVARRTDLRHLDVCSVDPPGCTDIDDALHCRPLPNGNIEVTYPS
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LKDLISNPSRKFYVFVNEHHYETYVEQEPGESVNDRNDRALRRVATWYVKYEEHLESAVRVILLSEDVRNRDLATQSGLLTSSIEGYISTLSNGEPLLDKLSKKEAVVETSVKDSLYPLHATPSEIHAGIKNQSLLQGSFQASRENFLEGQVNCEGYDKPILVQGREGLNRAIDGDTVAVRLLPESQWSAPLELVLEDEGSGEDEEGEDGKLIKGNKTVPPAERRPTGQIVGIIKRKWRQYCGILQPNPLAGSSRHLFVPAERKIPKIRVETRQIATLSGQRIVVAIDSWPRHSRYPQGHFVRALGPIGDKDTENEVLLLEHDVPHSKFSDLVLSYLPPMPWEKSTGRPWCSGTSIGLSQISTGVISVGLEQGFPSLLKPRTTFVFYDFPRTTRTNFILLFLFQAVYFSSGMLQQSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDKKASTALCYNLVSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDKKASTALCYNLPGCTDIDDALHCRPLPNGNIEVTYPSLGMSQSCKDIQACLLELGYNLNYRNRQAQYAGRASVALHTHLFFRRKSITEEEVARRTDLRHLDVCSVDPPGCTDIDDALHCRPLPNGNIEVTYPS
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 ?
Query654 2.2.26 [Sep-21-2011]
Q9CSH3 958 Exosome complex exonuclea yes N/A 0.518 0.353 0.491 7e-94
Q9Y2L1 958 Exosome complex exonuclea yes N/A 0.518 0.353 0.488 7e-91
P37202 970 Exosome complex exonuclea yes N/A 0.510 0.344 0.406 3e-64
Q08162 1001 Exosome complex exonuclea yes N/A 0.518 0.338 0.364 7e-63
Q17632 961 Probable exosome complex yes N/A 0.501 0.341 0.389 1e-60
A2RV18 1057 DIS3-like exonuclease 1 O no N/A 0.495 0.306 0.308 8e-36
A0JN80 1053 DIS3-like exonuclease 1 O no N/A 0.506 0.314 0.282 7e-35
Q5U2P0 1054 DIS3-like exonuclease 1 O no N/A 0.496 0.308 0.292 2e-34
Q5R5N8 1054 DIS3-like exonuclease 1 O yes N/A 0.496 0.308 0.292 3e-34
Q8C0S1 1053 DIS3-like exonuclease 1 O no N/A 0.504 0.313 0.285 5e-34
>sp|Q9CSH3|RRP44_MOUSE Exosome complex exonuclease RRP44 OS=Mus musculus GN=Dis3 PE=2 SV=4 Back     alignment and function desciption
 Score =  345 bits (885), Expect = 7e-94,   Method: Compositional matrix adjust.
 Identities = 173/352 (49%), Positives = 237/352 (67%), Gaps = 13/352 (3%)

Query: 1   LKDLISNPSRKFYVFVNEHHYETYVEQEPGESVNDRNDRALRRVATWYVKYEEHL----- 55
           ++D+ +N  + FY F NEHH ETY+EQE GE+ NDRNDRA+R  A WY    EHL     
Sbjct: 109 IRDVTNNQEKHFYTFTNEHHKETYIEQEQGENANDRNDRAIRVAAKWY---NEHLKRVAA 165

Query: 56  ESAVRVILLSEDVRNRDLATQSGLLTSSIEGYISTLSNGEPLLDKLSK-KEAVVETSVKD 114
           +S ++VIL++ D +N++ A Q G+   + E Y+ +L+    L+D+L+   + + E     
Sbjct: 166 DSQLQVILITNDRKNKEKAVQEGIPAFTCEEYVKSLTANPELIDRLAYLSDEMNEIESGK 225

Query: 115 SLYPLHATPSEIHAGIKNQSLLQGSFQASRENFLEGQVNCEG---YDKPILVQGREGLNR 171
            ++  H   S++  GIK+ S LQG+F+ASREN+LE  V   G    +K IL+QG + LNR
Sbjct: 226 IIFSEHLPLSKLQQGIKSGSYLQGTFRASRENYLEATVWIHGDKEEEKEILIQGIKHLNR 285

Query: 172 AIDGDTVAVRLLPESQWSAPLELVLEDEGSGEDE-EGEDGKLIKGNKTVPPAERRPTGQI 230
           A+  D VAV LLP SQW AP  +VL+DEG  ED+ E ++ + +     V     RPTG++
Sbjct: 286 AVHEDIVAVELLPRSQWVAPSSVVLDDEGQNEDDVEKDEERELLLKTAVSEKMLRPTGRV 345

Query: 231 VGIIKRKWRQYCGILQPNPLAGSSRHLFVPAERKIPKIRVETRQIATLSGQRIVVAIDSW 290
           VGIIKR WR YCG+L  + +  S RHLF PA+++IP+IR+ETRQ + L G+RI+VAID W
Sbjct: 346 VGIIKRNWRPYCGMLSKSDIKESRRHLFTPADKRIPRIRIETRQASALEGRRIIVAIDGW 405

Query: 291 PRHSRYPQGHFVRALGPIGDKDTENEVLLLEHDVPHSKFSDLVLSYLPPMPW 342
           PR+SRYP GHFV+ LG +G+K+TE EVLLLEHDVPH  FS  VLS+LP MPW
Sbjct: 406 PRNSRYPNGHFVKNLGDVGEKETETEVLLLEHDVPHQPFSQAVLSFLPRMPW 457
Putative catalytic component of the RNA exosome complex which has 3'->5' exoribonuclease activity and participates in a multitude of cellular RNA processing and degradation events. In the nucleus, the RNA exosome complex is involved in proper maturation of stable RNA species such as rRNA, snRNA and snoRNA, in the elimination of RNA processing by-products and non-coding 'pervasive' transcripts, such as antisense RNA species and promoter-upstream transcripts (PROMPTs), and of mRNAs with processing defects, thereby limiting or excluding their export to the cytoplasm. The RNA exosome may be involved in Ig class switch recombination (CSR) and/or Ig variable region somatic hypermutation (SHM) by targeting AICDA deamination activity to transcribed dsDNA substrates. In the cytoplasm, the RNA exosome complex is involved in general mRNA turnover and specifically degrades inherently unstable mRNAs containing AU-rich elements (AREs) within their 3' untranslated regions, and in RNA surveillance pathways, preventing translation of aberrant mRNAs. It seems to be involved in degradation of histone mRNA. DIS3 has both 3'-5' exonuclease and endonuclease activities.
Mus musculus (taxid: 10090)
EC: 3EC: .EC: 1EC: .EC: 2EC: 6EC: .EC: -
>sp|Q9Y2L1|RRP44_HUMAN Exosome complex exonuclease RRP44 OS=Homo sapiens GN=DIS3 PE=1 SV=2 Back     alignment and function description
>sp|P37202|DIS3_SCHPO Exosome complex exonuclease dis3 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=dis3 PE=1 SV=1 Back     alignment and function description
>sp|Q08162|RRP44_YEAST Exosome complex exonuclease DIS3 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=DIS3 PE=1 SV=1 Back     alignment and function description
>sp|Q17632|RRP44_CAEEL Probable exosome complex exonuclease RRP44 OS=Caenorhabditis elegans GN=dis-3 PE=3 SV=2 Back     alignment and function description
>sp|A2RV18|DI3L1_DANRE DIS3-like exonuclease 1 OS=Danio rerio GN=dis3l PE=2 SV=1 Back     alignment and function description
>sp|A0JN80|DI3L1_BOVIN DIS3-like exonuclease 1 OS=Bos taurus GN=DIS3L PE=2 SV=2 Back     alignment and function description
>sp|Q5U2P0|DI3L1_RAT DIS3-like exonuclease 1 OS=Rattus norvegicus GN=Dis3l PE=2 SV=2 Back     alignment and function description
>sp|Q5R5N8|DI3L1_PONAB DIS3-like exonuclease 1 OS=Pongo abelii GN=DIS3L PE=2 SV=1 Back     alignment and function description
>sp|Q8C0S1|DI3L1_MOUSE DIS3-like exonuclease 1 OS=Mus musculus GN=Dis3l PE=2 SV=2 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 ?
Query654
156553452 985 PREDICTED: exosome complex exonuclease R 0.519 0.345 0.623 1e-126
307199462 977 Exosome complex exonuclease RRP44 [Harpe 0.521 0.349 0.606 1e-119
383860552 979 PREDICTED: exosome complex exonuclease R 0.529 0.353 0.590 1e-117
380015637 971 PREDICTED: exosome complex exonuclease R 0.521 0.351 0.590 1e-116
328786997 978 PREDICTED: exosome complex exonuclease R 0.521 0.348 0.581 1e-116
332019034 976 Exosome complex exonuclease RRP44 [Acrom 0.519 0.348 0.585 1e-116
312379668 991 hypothetical protein AND_08402 [Anophele 0.506 0.334 0.584 1e-112
119113846 967 AGAP005191-PA [Anopheles gambiae str. PE 0.510 0.345 0.573 1e-111
350401245 981 PREDICTED: exosome complex exonuclease R 0.518 0.345 0.569 1e-111
340720631 981 PREDICTED: exosome complex exonuclease R 0.512 0.341 0.565 1e-110
>gi|156553452|ref|XP_001601829.1| PREDICTED: exosome complex exonuclease RRP44-like [Nasonia vitripennis] Back     alignment and taxonomy information
 Score =  459 bits (1182), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 215/345 (62%), Positives = 278/345 (80%), Gaps = 5/345 (1%)

Query: 1   LKDLISNPSRKFYVFVNEHHYETYVEQEPGESVNDRNDRALRRVATWYVKYEEHLESAVR 60
           LK++I +PSRKFYVFVNEHH +TY+E++PGE VNDRNDRA+R VA WY  +    +  ++
Sbjct: 109 LKEIIGDPSRKFYVFVNEHHKDTYIERKPGEIVNDRNDRAIRTVAKWYNSHLSAQKINIK 168

Query: 61  VILLSEDVRNRDLATQSGLLTSSIEGYISTLSNGEPLLDKLSKKEAVVETSVKDSLYPLH 120
            ILL++D  N++ A ++G+  ++++ Y+S+L N   L+DKL++K+ V++   ++ L+P H
Sbjct: 169 AILLTDDEDNKNKAEEAGIPVATMKDYVSSLENAGFLVDKLARKDYVLDGEGREPLFPCH 228

Query: 121 ATPSEIHAGIKNQSLLQGSFQASRENFLEGQVNCEGYDKPILVQGREGLNRAIDGDTVAV 180
            +PS++H GIKN   LQG+F ASRENFLEG VNCE  +K +LVQGREGLNRA+DGDTVA+
Sbjct: 229 LSPSQLHEGIKNGKFLQGTFLASRENFLEGSVNCESIEKFVLVQGREGLNRAVDGDTVAI 288

Query: 181 RLLPESQWSAPLELVLEDEGSGEDEEG---EDGKLIKGNKTVPPAERRPTGQIVGIIKRK 237
            LLPE QWSAP +++L+DE   ED+ G   +D K++  NKTV PAE+ PTG+IVGII+RK
Sbjct: 289 ELLPEDQWSAPSDIILQDE--TEDDPGDVLDDEKILTENKTVAPAEKTPTGRIVGIIRRK 346

Query: 238 WRQYCGILQPNPLAGSSRHLFVPAERKIPKIRVETRQIATLSGQRIVVAIDSWPRHSRYP 297
           WRQYCGILQ + L  ++RHLFVPAERKIPK+R+ETRQ  TLS QRI+VAIDSWPR+SRYP
Sbjct: 347 WRQYCGILQRSALKENTRHLFVPAERKIPKVRIETRQAETLSKQRIIVAIDSWPRNSRYP 406

Query: 298 QGHFVRALGPIGDKDTENEVLLLEHDVPHSKFSDLVLSYLPPMPW 342
            GHFVRALG IGDKDTENEVLLLEHDVPHS+FSD VLS+LP +PW
Sbjct: 407 LGHFVRALGEIGDKDTENEVLLLEHDVPHSRFSDEVLSFLPKLPW 451

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota
>gi|307199462|gb|EFN80075.1| Exosome complex exonuclease RRP44 [Harpegnathos saltator] Back     alignment and taxonomy information
>gi|383860552|ref|XP_003705753.1| PREDICTED: exosome complex exonuclease RRP44-like [Megachile rotundata] Back     alignment and taxonomy information
>gi|380015637|ref|XP_003691806.1| PREDICTED: exosome complex exonuclease RRP44-like [Apis florea] Back     alignment and taxonomy information
>gi|328786997|ref|XP_397381.4| PREDICTED: exosome complex exonuclease RRP44-like [Apis mellifera] Back     alignment and taxonomy information
>gi|332019034|gb|EGI59568.1| Exosome complex exonuclease RRP44 [Acromyrmex echinatior] Back     alignment and taxonomy information
>gi|312379668|gb|EFR25868.1| hypothetical protein AND_08402 [Anopheles darlingi] Back     alignment and taxonomy information
>gi|119113846|ref|XP_314089.3| AGAP005191-PA [Anopheles gambiae str. PEST] gi|116128315|gb|EAA09476.3| AGAP005191-PA [Anopheles gambiae str. PEST] Back     alignment and taxonomy information
>gi|350401245|ref|XP_003486097.1| PREDICTED: exosome complex exonuclease RRP44-like [Bombus impatiens] Back     alignment and taxonomy information
>gi|340720631|ref|XP_003398737.1| PREDICTED: exosome complex exonuclease RRP44-like [Bombus terrestris] 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 ?
Query654
FB|FBgn0039183 983 Dis3 "Dis3" [Drosophila melano 0.515 0.342 0.515 4e-128
UNIPROTKB|E1BXX6 963 DIS3 "Uncharacterized protein" 0.519 0.353 0.450 2.4e-116
UNIPROTKB|E2RNY6 958 DIS3 "Uncharacterized protein" 0.522 0.356 0.461 2.8e-115
UNIPROTKB|F1N1R4 951 DIS3 "Uncharacterized protein" 0.522 0.359 0.467 7.3e-115
MGI|MGI:1919912 958 Dis3 "DIS3 mitotic control hom 0.522 0.356 0.469 1.5e-108
UNIPROTKB|Q9Y2L1 958 DIS3 "Exosome complex exonucle 0.522 0.356 0.467 6.4e-108
ZFIN|ZDB-GENE-080213-3 950 dis3 "DIS3 mitotic control hom 0.518 0.356 0.474 6.4e-108
RGD|1304646565 Dis3 "DIS3 mitotic control hom 0.518 0.6 0.475 2e-100
UNIPROTKB|F2Z2C0559 DIS3 "Exosome complex exonucle 0.522 0.611 0.467 1.8e-99
UNIPROTKB|F1RHF7 752 DIS3 "Uncharacterized protein" 0.347 0.301 0.506 6.9e-93
FB|FBgn0039183 Dis3 "Dis3" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
 Score = 927 (331.4 bits), Expect = 4.0e-128, Sum P(3) = 4.0e-128
 Identities = 185/359 (51%), Positives = 242/359 (67%)

Query:     3 DLISNPSRKFYVFVNEHHYETYVEQEPGESVNDRNDRALRRVATWY----------VKYE 52
             +++ + +R FYVFVNEHH ETY ++EP E+ NDRNDRA+R    WY           ++E
Sbjct:   109 EIVHDRTRNFYVFVNEHHKETYADREPDETANDRNDRAIRLATKWYDDHLQASQSSKEFE 168

Query:    53 EHLESAVRVILLSEDVRNRDLATQSGLLTSSIEGYISTLSNGEPLLDKLSKKEAVVETSV 112
                ++A RV+LL++D  NR  A   G+L ++   Y+ +L +   L+DKLS K      S 
Sbjct:   169 RSGKAATRVVLLTDDAANRAKAEAEGILVTTAAEYVKSLEDFPLLMDKLSHKTF---DSE 225

Query:   113 KDSL--YPLHATPSEIHAGIKNQSLLQGSFQASRENFLEGQVNCEGYDKPILVQGREGLN 170
             K+ L  YP H +  E+  G++   LLQG+FQASREN+LEG VN E ++K IL+QGRE LN
Sbjct:   226 KNGLPQYPPHLSMKELLEGLRQNKLLQGTFQASRENYLEGTVNVEKFEKGILIQGRESLN 285

Query:   171 RAIDGDTVAVRLLPESQWSAPXXXXXXXXXXXXXXXXXXXKLIKGNKTVPP-------AE 223
             RA+DGD VAV LLPE++WSAP                   +    N+ +         AE
Sbjct:   286 RAVDGDLVAVELLPEAEWSAPSEIVLEEKNVYADEVPSEERAKDENEMLNQVRAAALSAE 345

Query:   224 RRPTGQIVGIIKRKWRQYCGILQPNPLAGSSRHLFVPAERKIPKIRVETRQIATLSGQRI 283
             R PTG+IVGI++RKWRQYCGILQP+ +  ++RH+FVPA+RKIP+IR+ETRQ A L  QRI
Sbjct:   346 RTPTGRIVGIVRRKWRQYCGILQPSLIEDTNRHIFVPADRKIPRIRIETRQAAMLQNQRI 405

Query:   284 VVAIDSWPRHSRYPQGHFVRALGPIGDKDTENEVLLLEHDVPHSKFSDLVLSYLPPMPW 342
             +V ID+WPR+SRYP GHFVR+LGP+GD  TENEV+LLEHDVPH KFSD VLS+LP MPW
Sbjct:   406 IVTIDTWPRNSRYPHGHFVRSLGPLGDMATENEVILLEHDVPHCKFSDEVLSFLPKMPW 464
GO:0000177 "cytoplasmic exosome (RNase complex)" evidence=ISS
GO:0006397 "mRNA processing" evidence=ISS
GO:0000176 "nuclear exosome (RNase complex)" evidence=ISS;IDA
GO:0000175 "3'-5'-exoribonuclease activity" evidence=ISS
GO:0003723 "RNA binding" evidence=IEA
GO:0005652 "nuclear lamina" evidence=IDA
GO:0005634 "nucleus" evidence=IDA
GO:0071027 "nuclear RNA surveillance" evidence=IMP
GO:0010468 "regulation of gene expression" evidence=IMP
GO:0022008 "neurogenesis" evidence=IMP
UNIPROTKB|E1BXX6 DIS3 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|E2RNY6 DIS3 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|F1N1R4 DIS3 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
MGI|MGI:1919912 Dis3 "DIS3 mitotic control homolog (S. cerevisiae)" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|Q9Y2L1 DIS3 "Exosome complex exonuclease RRP44" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-080213-3 dis3 "DIS3 mitotic control homolog (S. cerevisiae)" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
RGD|1304646 Dis3 "DIS3 mitotic control homolog (S. cerevisiae)" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|F2Z2C0 DIS3 "Exosome complex exonuclease RRP44" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|F1RHF7 DIS3 "Uncharacterized protein" [Sus scrofa (taxid:9823)] 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 EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query654
cd09862182 cd09862, PIN_Rrp44, PIN domain of yeast exosome su 7e-34
COG0557 706 COG0557, VacB, Exoribonuclease R [Transcription] 1e-21
smart00955286 smart00955, RNB, This domain is the catalytic doma 2e-16
smart00955286 smart00955, RNB, This domain is the catalytic doma 4e-15
COG0557706 COG0557, VacB, Exoribonuclease R [Transcription] 8e-15
COG0557706 COG0557, VacB, Exoribonuclease R [Transcription] 5e-14
pfam00773322 pfam00773, RNB, RNB domain 6e-14
pfam00773322 pfam00773, RNB, RNB domain 6e-14
TIGR02063709 TIGR02063, RNase_R, ribonuclease R 2e-11
TIGR02063709 TIGR02063, RNase_R, ribonuclease R 2e-11
smart00955 286 smart00955, RNB, This domain is the catalytic doma 3e-10
COG0557 706 COG0557, VacB, Exoribonuclease R [Transcription] 1e-09
TIGR00358654 TIGR00358, 3_prime_RNase, VacB and RNase II family 3e-09
TIGR00358654 TIGR00358, 3_prime_RNase, VacB and RNase II family 4e-09
TIGR02063 709 TIGR02063, RNase_R, ribonuclease R 9e-09
pfam00773 322 pfam00773, RNB, RNB domain 2e-08
PRK05054644 PRK05054, PRK05054, exoribonuclease II; Provisiona 8e-07
PRK05054644 PRK05054, PRK05054, exoribonuclease II; Provisiona 8e-07
TIGR02063 709 TIGR02063, RNase_R, ribonuclease R 9e-07
PRK11642813 PRK11642, PRK11642, exoribonuclease R; Provisional 7e-06
PRK11642813 PRK11642, PRK11642, exoribonuclease R; Provisional 7e-06
TIGR02062639 TIGR02062, RNase_B, exoribonuclease II 4e-05
TIGR02062639 TIGR02062, RNase_B, exoribonuclease II 8e-05
COG4776645 COG4776, Rnb, Exoribonuclease II [Transcription] 1e-04
COG4776645 COG4776, Rnb, Exoribonuclease II [Transcription] 1e-04
smart00955 286 smart00955, RNB, This domain is the catalytic doma 0.003
cd09854125 cd09854, PIN_VapC-Smg6_family, PIN domains of VapC 0.003
>gnl|CDD|189032 cd09862, PIN_Rrp44, PIN domain of yeast exosome subunit Rrp44 endoribonuclease and other eukaryotic homologs Back     alignment and domain information 
 Score =  127 bits (321), Expect = 7e-34
 Identities = 45/88 (51%), Positives = 63/88 (71%), Gaps = 4/88 (4%)

Query: 1   LKDLISNPSRKFYVFVNEHHYETYVEQEPGESVNDRNDRALRRVATWYVKYEEHL-ESAV 59
           L+ LI +P ++FYVF NEHH ETYVE+EPGES+NDRNDRA+R    W   Y EHL + ++
Sbjct: 98  LRALIKDPDKRFYVFSNEHHRETYVEREPGESINDRNDRAIRVATKW---YSEHLPKLSI 154

Query: 60  RVILLSEDVRNRDLATQSGLLTSSIEGY 87
           +V+LL+ D  NR+ A + G+   +I+ Y
Sbjct: 155 KVVLLTNDRANREKAAEEGITAKTIKEY 182

PIN (PilT N terminus) domain of the Saccharomyces cerevisiae exosome subunit Rrp44 (Ribosomal RNA-processing protein 44 or Protein Dis3 homolog) and other similar eukaryotic homologs are included in this family. The eukaryotic exosome is a conserved macromolecular complex responsible for many RNA-processing and RNA-degradation reactions. It is composed of nine core subunits that directly binds Rrp44. The Rrp44 nuclease is the catalytic subunit of the exosome and has endonuclease activity in the PIN domain and an exoribonuclease activity in its RNase II-like region. Rrp44 binding to the exosome is mediated mainly by the PIN domain and by subunits Rrp41-Rrp45, and binding predictions indicate that the PIN domain active site is positioned on the outer surface of the exosome. These PIN domains are structural homologs of flap endonuclease-1 (FEN1)-like PIN domains, but lack the extensive arch/clamp region and the H3TH (helix-3-turn-helix) domain, an atypical helix-hairpin-helix-2-like region, seen in FEN1-like PIN domains. PIN domains within this subgroup contain four highly conserved acidic residues (putative metal-binding, active site residues) which cluster at the C-terminal end of the beta-sheet and form a negatively charged pocket near the center of the molecule. Recombinant Rrp44 was shown to possess manganese-dependent endonuclease activity in vitro that was abolished by point mutations in the putative metal binding residues of its PIN domain. Length = 182
>gnl|CDD|223631 COG0557, VacB, Exoribonuclease R [Transcription] Back     alignment and domain information
>gnl|CDD|214935 smart00955, RNB, This domain is the catalytic domain of ribonuclease II Back     alignment and domain information
>gnl|CDD|214935 smart00955, RNB, This domain is the catalytic domain of ribonuclease II Back     alignment and domain information
>gnl|CDD|223631 COG0557, VacB, Exoribonuclease R [Transcription] Back     alignment and domain information
>gnl|CDD|223631 COG0557, VacB, Exoribonuclease R [Transcription] Back     alignment and domain information
>gnl|CDD|216112 pfam00773, RNB, RNB domain Back     alignment and domain information
>gnl|CDD|216112 pfam00773, RNB, RNB domain Back     alignment and domain information
>gnl|CDD|233703 TIGR02063, RNase_R, ribonuclease R Back     alignment and domain information
>gnl|CDD|233703 TIGR02063, RNase_R, ribonuclease R Back     alignment and domain information
>gnl|CDD|214935 smart00955, RNB, This domain is the catalytic domain of ribonuclease II Back     alignment and domain information
>gnl|CDD|223631 COG0557, VacB, Exoribonuclease R [Transcription] Back     alignment and domain information
>gnl|CDD|232937 TIGR00358, 3_prime_RNase, VacB and RNase II family 3'-5' exoribonucleases Back     alignment and domain information
>gnl|CDD|232937 TIGR00358, 3_prime_RNase, VacB and RNase II family 3'-5' exoribonucleases Back     alignment and domain information
>gnl|CDD|233703 TIGR02063, RNase_R, ribonuclease R Back     alignment and domain information
>gnl|CDD|216112 pfam00773, RNB, RNB domain Back     alignment and domain information
>gnl|CDD|179920 PRK05054, PRK05054, exoribonuclease II; Provisional Back     alignment and domain information
>gnl|CDD|179920 PRK05054, PRK05054, exoribonuclease II; Provisional Back     alignment and domain information
>gnl|CDD|233703 TIGR02063, RNase_R, ribonuclease R Back     alignment and domain information
>gnl|CDD|236944 PRK11642, PRK11642, exoribonuclease R; Provisional Back     alignment and domain information
>gnl|CDD|236944 PRK11642, PRK11642, exoribonuclease R; Provisional Back     alignment and domain information
>gnl|CDD|131117 TIGR02062, RNase_B, exoribonuclease II Back     alignment and domain information
>gnl|CDD|131117 TIGR02062, RNase_B, exoribonuclease II Back     alignment and domain information
>gnl|CDD|227117 COG4776, Rnb, Exoribonuclease II [Transcription] Back     alignment and domain information
>gnl|CDD|227117 COG4776, Rnb, Exoribonuclease II [Transcription] Back     alignment and domain information
>gnl|CDD|214935 smart00955, RNB, This domain is the catalytic domain of ribonuclease II Back     alignment and domain information
>gnl|CDD|189024 cd09854, PIN_VapC-Smg6_family, PIN domains of VapC and Smg6 ribonucleases, ribosome assembly factor NOB1, rRNA-processing protein Fcf1, Archaeoglobus fulgidus AF0591 protein, and homologs Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 654
KOG2102|consensus941 100.0
PRK11642 813 exoribonuclease R; Provisional 100.0
TIGR00358654 3_prime_RNase VacB and RNase II family 3'-5' exori 100.0
TIGR02063709 RNase_R ribonuclease R. This family consists of an 100.0
PRK05054644 exoribonuclease II; Provisional 100.0
COG0557706 VacB Exoribonuclease R [Transcription] 100.0
TIGR02062639 RNase_B exoribonuclease II. This family consists o 100.0
COG4776645 Rnb Exoribonuclease II [Transcription] 100.0
PF00773325 RNB: RNB domain CAUTION: The Prosite pattern does 99.97
PF0820658 OB_RNB: Ribonuclease B OB domain; InterPro: IPR013 99.16
smart0035764 CSP Cold shock protein domain. RNA-binding domain 97.44
PF0820658 OB_RNB: Ribonuclease B OB domain; InterPro: IPR013 96.68
PF13638133 PIN_4: PIN domain; PDB: 2HWW_C 2HWX_A 2DOK_B 2HWY_ 96.6
cd0447183 S1_RNase_R S1_RNase_R: RNase R C-terminal S1 domai 96.55
cd0568673 S1_pNO40 S1_pNO40: pNO40 , S1-like RNA-binding dom 96.15
smart00670111 PINc Large family of predicted nucleotide-binding 95.47
PRK08582139 hypothetical protein; Provisional 95.34
PLN00207891 polyribonucleotide nucleotidyltransferase; Provisi 94.97
cd0568479 S1_DHX8_helicase S1_DHX8_helicase: The N-terminal 94.95
TIGR00448179 rpoE DNA-directed RNA polymerase (rpoE), archaeal 94.83
cd0445276 S1_IF2_alpha S1_IF2_alpha: The alpha subunit of tr 94.82
cd0568972 S1_RPS1_repeat_ec4 S1_RPS1_repeat_ec4: Ribosomal p 94.35
cd0569769 S1_Rrp5_repeat_hs5 S1_Rrp5_repeat_hs5: Rrp5 is a t 94.28
cd0570768 S1_Rrp5_repeat_sc11 S1_Rrp5_repeat_sc11: Rrp5 is a 94.27
PRK05807136 hypothetical protein; Provisional 94.19
TIGR02063 709 RNase_R ribonuclease R. This family consists of an 93.88
cd0570673 S1_Rrp5_repeat_sc10 S1_Rrp5_repeat_sc10: Rrp5 is a 93.81
cd0568568 S1_Tex S1_Tex: The C-terminal S1 domain of a trans 93.56
PRK07252120 hypothetical protein; Provisional 93.53
cd0569069 S1_RPS1_repeat_ec5 S1_RPS1_repeat_ec5: Ribosomal p 93.51
COG1098129 VacB Predicted RNA binding protein (contains ribos 93.31
cd0570877 S1_Rrp5_repeat_sc12 S1_Rrp5_repeat_sc12: Rrp5 is a 93.05
cd0446183 S1_Rrp5_repeat_hs8_sc7 S1_Rrp5_repeat_hs8_sc7: Rrp 92.96
smart0035764 CSP Cold shock protein domain. RNA-binding domain 92.7
cd0446099 S1_RpoE S1_RpoE: RpoE, S1-like RNA-binding domain. 92.55
cd0569870 S1_Rrp5_repeat_hs6_sc5 S1_Rrp5_repeat_hs6_sc5: Rrp 91.91
PTZ00248 319 eukaryotic translation initiation factor 2 subunit 91.72
cd0570472 S1_Rrp5_repeat_hs13 S1_Rrp5_repeat_hs13: Rrp5 is a 91.63
cd0570574 S1_Rrp5_repeat_hs14 S1_Rrp5_repeat_hs14: Rrp5 is a 91.62
cd0447268 S1_PNPase S1_PNPase: Polynucleotide phosphorylase 91.01
PHA0294588 interferon resistance protein; Provisional 90.13
PF0057574 S1: S1 RNA binding domain; InterPro: IPR003029 Rib 89.68
cd0569269 S1_RPS1_repeat_hs4 S1_RPS1_repeat_hs4: Ribosomal p 89.17
cd0447377 S1_RecJ_like S1_RecJ_like: The S1 domain of the ar 88.72
cd0569173 S1_RPS1_repeat_ec6 S1_RPS1_repeat_ec6: Ribosomal p 88.09
PRK08059123 general stress protein 13; Validated 87.34
COG0539 541 RpsA Ribosomal protein S1 [Translation, ribosomal 86.95
cd0569671 S1_Rrp5_repeat_hs4 S1_Rrp5_repeat_hs4: Rrp5 is a t 86.75
COG1095183 RPB7 DNA-directed RNA polymerase, subunit E' [Tran 86.41
PRK08563187 DNA-directed RNA polymerase subunit E'; Provisiona 85.73
PRK11824693 polynucleotide phosphorylase/polyadenylase; Provis 85.18
TIGR03591684 polynuc_phos polyribonucleotide nucleotidyltransfe 84.21
cd0568868 S1_RPS1_repeat_ec3 S1_RPS1_repeat_ec3: Ribosomal p 83.03
PRK11642 813 exoribonuclease R; Provisional 82.47
cd0570373 S1_Rrp5_repeat_hs12_sc9 S1_Rrp5_repeat_hs12_sc9: R 82.3
PRK07899 486 rpsA 30S ribosomal protein S1; Reviewed 81.92
>KOG2102|consensus Back     alignment and domain information 
Probab=100.00  E-value=3.5e-94  Score=843.35  Aligned_cols=583  Identities=37%  Similarity=0.584  Sum_probs=482.5

Q ss_pred             cccccCCC-CcEEEEecCccccccccCCCCCCccchhhHHHHHHHHHhHhhhhhhcc-CCeEEEEeCC---hhhHHHHhh
Q psy4856           2 KDLISNPS-RKFYVFVNEHHYETYVEQEPGESVNDRNDRALRRVATWYVKYEEHLES-AVRVILLSED---VRNRDLATQ   76 (654)
Q Consensus         2 r~l~~~~~-~~~~vF~Ne~~~~t~v~~~~~es~~drn~r~i~~aa~wY~~~~~Hl~~-~~~vvllt~d---~~~~~~a~~   76 (654)
                      +.++.+.. ++|++|+||+++.||+++.++|+.++||+|+++.++.||   ..|++. .++++++|+|   ..+..++..
T Consensus       105 ~~~~~~~~~~~~~~~~n~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~---~~h~~~~~~~~~~~~~d~~~~~~~~~~~~  181 (941)
T KOG2102|consen  105 RPLISADSTKRFILFHNEFSRSTFAERAKDESANDRNDRAIRPAANWY---DVHLPSLGPRVILVTTDVPSSVSRDNAVE  181 (941)
T ss_pred             ccccccccccceeecccCCCchhhcccccCCCcchhcccccccccccc---hhcccccCcceEEEeccchhhhhhhcccc
Confidence            44555554 999999999999999999999999999999999999999   999994 5779999999   666778889


Q ss_pred             cCcceeeHHHHHhhCCCCchhhhhhcccchhhccccCCCCCCCCCCHHHHHHhhhcCCeEEEEEEEecCCCceeEEeecC
Q psy4856          77 SGLLTSSIEGYISTLSNGEPLLDKLSKKEAVVETSVKDSLYPLHATPSEIHAGIKNQSLLQGSFQASRENFLEGQVNCEG  156 (654)
Q Consensus        77 ~gi~~~s~~~yv~~~~~~~~l~d~l~~~~~~~~~~~~~~~y~ehl~~~~l~~gik~g~l~~G~l~v~~~n~~egfV~~~~  156 (654)
                      .|+...++++|++.+...+.+.|.+.+........+.+.+|++|||++.+.+||++|++++|+|+++++|+.||||..++
T Consensus       182 ~~i~~~~~~~y~~~~~~~~~l~~~l~~~~~~~~~~~~k~~~~~~l~~~~~~~~~~~g~~~~g~l~i~~~n~~e~~v~~~~  261 (941)
T KOG2102|consen  182 HGIEPQTIKEYQKPLSPNHLLRDSLLQRVLESNFGSDKLLFSPYLPMAKIKAGIKSGRLVQGTLRISRKNLSEAFVRVQG  261 (941)
T ss_pred             cccchhhhhhhccccCcchhhhhhhhhhcccccccccceeeccccchhhHhhhhcccceeeceEEecccccccceeeccc
Confidence            99999999999999987788999998655433222347899999999999999999999999999999999999999999


Q ss_pred             CCcCeEecCCCCCCcCCCCCEEEEEEccCCCcCCccccccccC----CCCC-Ccccccc-ccccC--CCCCCCCCCCCce
Q psy4856         157 YDKPILVQGREGLNRAIDGDTVAVRLLPESQWSAPLELVLEDE----GSGE-DEEGEDG-KLIKG--NKTVPPAERRPTG  228 (654)
Q Consensus       157 ~~~dI~I~g~~~~NRAl~GD~V~Vellp~~~w~~~~~~~~~~~----~~~~-~~~~~~~-~~l~~--~~~~~~~~~~ptG  228 (654)
                      ...+|+|.|.+++|||++||+|+|+++|.++|......+..+.    ...+ .+..+|+ .....  .+........|+|
T Consensus       262 ~~~~v~i~G~~~~NRa~~gdvVavell~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~  341 (941)
T KOG2102|consen  262 LDHPVLICGSKDRNRALDGDVVAVELLPVDEWRVELSSIFLDSVKVSSNIKESDDEDEDGTLNLRGKAVLSDPLPVQPTG  341 (941)
T ss_pred             cCCceEEeCchhhhhhhcCCeEEEEeccchhccccchhhhcccccccccccccccccccccccccccccccccccccccc
Confidence            8889999999999999999999999999999953332222220    0000 0010111 10100  0011111135699


Q ss_pred             eEEEEEeecCceeeeeecCCCC-----CCCceEEEEeCCCCCCcEEEccc-cccccCCCEEEEEEeecCCCCCCccEEEE
Q psy4856         229 QIVGIIKRKWRQYCGILQPNPL-----AGSSRHLFVPAERKIPKIRVETR-QIATLSGQRIVVAIDSWPRHSRYPQGHFV  302 (654)
Q Consensus       229 kVVgIi~R~~r~~vG~l~~~~~-----~~~~~~l~vP~D~riP~I~I~t~-q~~~l~~~rvvV~Id~Wp~~s~~P~Ghiv  302 (654)
                      +||+|++|+|++|||.+.+...     +....++|+|.|+|+|+|+|+++ |+..+.+++++|.|+.||..|.||.||++
T Consensus       342 ~VV~il~r~~~~~~~~l~~~~~~~~~~~~~~~~~~~p~DkRvP~i~i~t~~~~~~~~~~~~~~~I~~W~~ts~~p~g~~v  421 (941)
T KOG2102|consen  342 KVVAILRRNWRQYVGGLLPLSEQALKGSSALIVLFIPSDKRVPLIRILTDDQAQDLIDKRIVAAIDRWPRTSLYPFGHLV  421 (941)
T ss_pred             eEEEEEecCceeeeccccCcccccccccccceeeeccccCCCCeeeccccccccchhceeEEEEecccccCCcccCceeh
Confidence            9999999999999998876543     24779999999999999999999 99999999999999999999999999999


Q ss_pred             EecCCCCChhhHHHHHhhcCCCCCCCCcHHHHhcCCC-CCCCCCC----C-C------ceeeeCCCCce---------ec
Q psy4856         303 RALGPIGDKDTENEVLLLEHDVPHSKFSDLVLSYLPP-MPWEKST----G-R------PWCSGTSIGLS---------QI  361 (654)
Q Consensus       303 ~~LG~~gd~~~E~~~iL~e~~i~~~~Fs~~vl~~l~~-~~~~i~~----~-R------~~~tIDp~~~~---------~l  361 (654)
                      +.||.+|+.++|+++||.+|++++.+|+++++.|+|. .+|.+++    + |      .+|+|||++|.         .+
T Consensus       422 ~~lG~i~~~~~e~~aLL~en~v~~~~f~~~~~~~lp~~~~~~~~~~~~~~~R~Dlr~~~i~~IDp~~~~dlDdAL~~~~l  501 (941)
T KOG2102|consen  422 RELGTIGDTETETEALLLENGVPHKPFSQALLDCLPRSHPWPITEEELQKLRKDLRDLLIFSIDPPGATDLDDALHVRNL  501 (941)
T ss_pred             hhccCcCCccchhhhhhhcCCCcccccCHHHHhcCCccCCCCcChHHhhhhhhhhhhceEEeecCCCccchhhhhheeec
Confidence            9999999999999999999999999999999999999 9999985    4 6      99999999998         46


Q ss_pred             cCCeEEEEEEe-ccCCccCCCc----------eeeec-c-----CCcchhhhHHHH------Hhh---------------
Q psy4856         362 STGVISVGLEQ-GFPSLLKPRT----------TFVFY-D-----FPRTTRTNFILL------FLF---------------  403 (654)
Q Consensus       362 ~~g~~~lgVHI-DVs~~V~~~s----------tsvYL-d-----LP~~Ls~~lcSL------la~---------------  403 (654)
                      +||+|+||||| ||||||+|||          ||||| +     ||+.|++++|||      +||               
T Consensus       502 ~nG~~evGVHIADVt~fV~pgs~lD~eA~~R~ttvyL~q~~i~MLP~~L~~~lcSL~~g~dr~aFSvvwel~~~~~i~~~  581 (941)
T KOG2102|consen  502 PNGNLEVGVHIADVTHFVKPGSALDREAARRGTTVYLVQKRIPMLPKLLSEELCSLRPGVDRLAFSVVWELDSDGSILKT  581 (941)
T ss_pred             CCCcEEEEEEeccchhhcCCCCccCHHHHhhcceEEeccccccCCchhhhhhheeccCCCceeeEEEEEEEcCCCceeec
Confidence            79999999999 9999999999          99999 7     999999999999      565               


Q ss_pred             ------------------h----------------------------------hhcccccCCC---------ccc-----
Q psy4856         404 ------------------Q----------------------------------AVYFSSGMLQ---------QSD-----  417 (654)
Q Consensus       404 ------------------q----------------------------------al~l~~pe~~---------~~d-----  417 (654)
                                        |                                  |+.+.++|..         +.+     
T Consensus       582 ~f~ksvI~s~~~lsye~Aq~~id~~~~~~~v~~~l~~l~~ia~~lr~~R~~~gal~l~~~e~~~~~d~~~~~p~~~e~~~  661 (941)
T KOG2102|consen  582 WFGKSVIRSKAALSYEEAQDILDTPNSSDPLTSSLRLLHEIAKILRQKRLDNGALLLRSPELRFLLDEEKPNPQDVEVKE  661 (941)
T ss_pred             eecchhcccchhhhHHHHHHHhcCCcccchhhhhHHHHHHHHHHHHHHHhccCCcccccHhHHhhhccCCCCccccceee
Confidence                              0                                  7777777711         111     


Q ss_pred             -------------HHHHHHHHHHHhcCCc--eeeeCCChH------HHHHHHHhhcC---------------------CC
Q psy4856         418 -------------FHHYGLATPIYTHFTS--PIRRYADII------VHRLLAACIGA---------------------DA  455 (654)
Q Consensus       418 -------------~AN~~vA~~~~~~~p~--l~R~h~~p~------l~~~l~~~~g~---------------------~~  455 (654)
                                   +||.+||++|.+.||.  ++|+||.|.      +.+++.. .|+                     .|
T Consensus       662 ~~~~n~lveEfmllaN~~vA~~I~~~f~~~alLR~hp~P~~~~~~~~~~~~~~-~g~~ld~sS~~~L~~Sl~r~~~~~~p  740 (941)
T KOG2102|consen  662 LTETNFLVEEFMLLANISVAEKILASFPSLALLRRHPSPPPENFKPLVSLCLE-LGFNLDTSSSKSLADSLDRIRDDDKP  740 (941)
T ss_pred             eehhhhHHHHHHHHHhHHHHHHHHHhCCchhhhccCCCCccccccHHHHHHHH-cCCCccccchHHHhhhHhhhcCCchH
Confidence                         4999999999999887  999998774      4444544 355                     24


Q ss_pred             chhHHHHHHhh--cc----cccc--cCCccccccCCCCCcccccCccccchhHHHHHHHHHHHhCCCCCCCccCHHHHHH
Q psy4856         456 TYPSLLDKKAS--TA----LCYN--LVSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDKKASTA  527 (654)
Q Consensus       456 ~~~~llr~l~~--m~----~~s~--s~~~~~H~gLa~~~YTHfTSPIRRY~DLivHR~L~a~l~~~~~~~~~~~~~~l~~  527 (654)
                      +++.++++|+.  |+    ||+|  +++.++|||||+++|||||||||||||++|||||++.....  .+...+...+..
T Consensus       741 ~~~~~l~~l~~r~m~~A~yf~sg~~~~~~~~HygLa~p~YTHFTsPiRRY~DIivHrqL~~~~~~~--~~~~~~~~~l~~  818 (941)
T KOG2102|consen  741 YLNTLLRILATRSMTRAVYFCSGSSDTPQFHHYGLASPLYTHFTSPIRRYADIIVHRQLAAAFLER--SPTAPDRPNLSS  818 (941)
T ss_pred             HHHHHHHHHHhhhhhceeEEeecccCcchhhchhhcccchhhccCcccccchHHHHHHHHHHhhcc--CccccccccHHH
Confidence            67777777765  65    7888  67789999999999999999999999999999999633322  222334445666


Q ss_pred             HHhcCCCCCCcCcccccCCCCCCCcccccCCccCccchhhHHHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHHHhhcccC
Q psy4856         528 LCYNLPGCTDIDDALHCRPLPNGNIEVTYPSLGMSQSCKDIQACLLELGYNLNYRNRQAQYAGRASVALHTHLFFRRKSI  607 (654)
Q Consensus       528 ~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ln~r~r~A~~aer~~~~l~~~~~l~~~~g  607 (654)
                      +|.                                               +||.|++.|+.|++++..+|.+.|++++ .
T Consensus       819 i~~-----------------------------------------------~~N~r~~~a~~a~~~S~~l~~~~~~k~~-~  850 (941)
T KOG2102|consen  819 LAA-----------------------------------------------NCNERKKAAKKAQEASTELYLCEYLKDK-Q  850 (941)
T ss_pred             HHh-----------------------------------------------hhhhhHHHHHHHHHhhHHHHHHHHHHhc-c
Confidence            666                                               9999999999999999999999999999 4


Q ss_pred             cccceEEEcccccceEEEECCCCcccccceeeec
Q psy4856         608 TEEEVARRTDLRHLDVCSVDPPGCTDIDDALHCR  641 (654)
Q Consensus       608 ~~~~~~~i~~~~~~g~~~v~~~~~~~~eg~vh~~  641 (654)
                      .... |+|++|.+-|+-++ ++-+ ++||.|+..
T Consensus       851 ~~~~-a~v~~V~~~~~~v~-ipe~-G~e~~v~l~  881 (941)
T KOG2102|consen  851 VLEE-AVVLFVRPNGIDVV-IPEY-GLEGRVYLD  881 (941)
T ss_pred             cccc-eEEEEEecCceEEE-Eccc-CceEEEEec
Confidence            5566 99999998887755 5544 489999998

>PRK11642 exoribonuclease R; Provisional Back     alignment and domain information
>TIGR00358 3_prime_RNase VacB and RNase II family 3'-5' exoribonucleases Back     alignment and domain information
>TIGR02063 RNase_R ribonuclease R Back     alignment and domain information
>PRK05054 exoribonuclease II; Provisional Back     alignment and domain information
>COG0557 VacB Exoribonuclease R [Transcription] Back     alignment and domain information
>TIGR02062 RNase_B exoribonuclease II Back     alignment and domain information
>COG4776 Rnb Exoribonuclease II [Transcription] Back     alignment and domain information
>PF00773 RNB: RNB domain CAUTION: The Prosite pattern does not correspond to this Pfam Back     alignment and domain information
>PF08206 OB_RNB: Ribonuclease B OB domain; InterPro: IPR013223 This domain includes the N-terminal OB domain found in ribonuclease B proteins in one or two copies Back     alignment and domain information
>smart00357 CSP Cold shock protein domain Back     alignment and domain information
>PF08206 OB_RNB: Ribonuclease B OB domain; InterPro: IPR013223 This domain includes the N-terminal OB domain found in ribonuclease B proteins in one or two copies Back     alignment and domain information
>PF13638 PIN_4: PIN domain; PDB: 2HWW_C 2HWX_A 2DOK_B 2HWY_B 2WP8_J Back     alignment and domain information
>cd04471 S1_RNase_R S1_RNase_R: RNase R C-terminal S1 domain Back     alignment and domain information
>cd05686 S1_pNO40 S1_pNO40: pNO40 , S1-like RNA-binding domain Back     alignment and domain information
>smart00670 PINc Large family of predicted nucleotide-binding domains Back     alignment and domain information
>PRK08582 hypothetical protein; Provisional Back     alignment and domain information
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional Back     alignment and domain information
>cd05684 S1_DHX8_helicase S1_DHX8_helicase: The N-terminal S1 domain of human ATP-dependent RNA helicase DHX8, a DEAH (Asp-Glu-Ala-His) box polypeptide Back     alignment and domain information
>TIGR00448 rpoE DNA-directed RNA polymerase (rpoE), archaeal and eukaryotic form Back     alignment and domain information
>cd04452 S1_IF2_alpha S1_IF2_alpha: The alpha subunit of translation Initiation Factor 2, S1-like RNA-binding domain Back     alignment and domain information
>cd05689 S1_RPS1_repeat_ec4 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain Back     alignment and domain information
>cd05697 S1_Rrp5_repeat_hs5 S1_Rrp5_repeat_hs5: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits Back     alignment and domain information
>cd05707 S1_Rrp5_repeat_sc11 S1_Rrp5_repeat_sc11: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits Back     alignment and domain information
>PRK05807 hypothetical protein; Provisional Back     alignment and domain information
>TIGR02063 RNase_R ribonuclease R Back     alignment and domain information
>cd05706 S1_Rrp5_repeat_sc10 S1_Rrp5_repeat_sc10: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits Back     alignment and domain information
>cd05685 S1_Tex S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa Back     alignment and domain information
>PRK07252 hypothetical protein; Provisional Back     alignment and domain information
>cd05690 S1_RPS1_repeat_ec5 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain Back     alignment and domain information
>COG1098 VacB Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>cd05708 S1_Rrp5_repeat_sc12 S1_Rrp5_repeat_sc12: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits Back     alignment and domain information
>cd04461 S1_Rrp5_repeat_hs8_sc7 S1_Rrp5_repeat_hs8_sc7: Rrp5 Homo sapiens S1 repeat 8 (hs8) and Saccharomyces cerevisiae S1 repeat 7 (sc7)-like domains Back     alignment and domain information
>smart00357 CSP Cold shock protein domain Back     alignment and domain information
>cd04460 S1_RpoE S1_RpoE: RpoE, S1-like RNA-binding domain Back     alignment and domain information
>cd05698 S1_Rrp5_repeat_hs6_sc5 S1_Rrp5_repeat_hs6_sc5: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits Back     alignment and domain information
>PTZ00248 eukaryotic translation initiation factor 2 subunit 1; Provisional Back     alignment and domain information
>cd05704 S1_Rrp5_repeat_hs13 S1_Rrp5_repeat_hs13: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits Back     alignment and domain information
>cd05705 S1_Rrp5_repeat_hs14 S1_Rrp5_repeat_hs14: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits Back     alignment and domain information
>cd04472 S1_PNPase S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain Back     alignment and domain information
>PHA02945 interferon resistance protein; Provisional Back     alignment and domain information
>PF00575 S1: S1 RNA binding domain; InterPro: IPR003029 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>cd05692 S1_RPS1_repeat_hs4 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain Back     alignment and domain information
>cd04473 S1_RecJ_like S1_RecJ_like: The S1 domain of the archaea-specific RecJ-like exonuclease Back     alignment and domain information
>cd05691 S1_RPS1_repeat_ec6 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain Back     alignment and domain information
>PRK08059 general stress protein 13; Validated Back     alignment and domain information
>COG0539 RpsA Ribosomal protein S1 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>cd05696 S1_Rrp5_repeat_hs4 S1_Rrp5_repeat_hs4: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits Back     alignment and domain information
>COG1095 RPB7 DNA-directed RNA polymerase, subunit E' [Transcription] Back     alignment and domain information
>PRK08563 DNA-directed RNA polymerase subunit E'; Provisional Back     alignment and domain information
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional Back     alignment and domain information
>TIGR03591 polynuc_phos polyribonucleotide nucleotidyltransferase Back     alignment and domain information
>cd05688 S1_RPS1_repeat_ec3 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain Back     alignment and domain information
>PRK11642 exoribonuclease R; Provisional Back     alignment and domain information
>cd05703 S1_Rrp5_repeat_hs12_sc9 S1_Rrp5_repeat_hs12_sc9: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits Back     alignment and domain information
>PRK07899 rpsA 30S ribosomal protein S1; Reviewed 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 ?
Query654
2wp8_J 977 Yeast Rrp44 Nuclease Length = 977 7e-60
2wp8_J977 Yeast Rrp44 Nuclease Length = 977 8e-14
2wp8_J977 Yeast Rrp44 Nuclease Length = 977 9e-12
2wp8_J 977 Yeast Rrp44 Nuclease Length = 977 5e-09
4ifd_J 1003 Crystal Structure Of An 11-subunit Eukaryotic Exoso 3e-59
4ifd_J1003 Crystal Structure Of An 11-subunit Eukaryotic Exoso 8e-14
4ifd_J1003 Crystal Structure Of An 11-subunit Eukaryotic Exoso 9e-12
4ifd_J 1003 Crystal Structure Of An 11-subunit Eukaryotic Exoso 5e-09
2vnu_D 760 Crystal Structure Of Sc Rrp44 Length = 760 4e-41
2vnu_D760 Crystal Structure Of Sc Rrp44 Length = 760 1e-13
2vnu_D760 Crystal Structure Of Sc Rrp44 Length = 760 1e-11
2vnu_D 760 Crystal Structure Of Sc Rrp44 Length = 760 4e-09
2ix0_A663 Rnase Ii Length = 663 1e-04
2ix0_A663 Rnase Ii Length = 663 1e-04
2ix1_A664 Rnase Ii D209n Mutant Length = 664 1e-04
2ix1_A664 Rnase Ii D209n Mutant Length = 664 1e-04
2id0_A644 Escherichia Coli Rnase Ii Length = 644 2e-04
>pdb|2WP8|J Chain J, Yeast Rrp44 Nuclease Length = 977 Back     alignment and structure 
Iteration: 1

 Score =  228 bits (582), Expect = 7e-60,   Method: Compositional matrix adjust.
 Identities = 134/387 (34%), Positives = 207/387 (53%), Gaps = 45/387 (11%)
Query: 6   SNPSRKFYVFVNEHHYETYVEQEPGESVNDRNDRALRRVATWYVKYEEHLES-AVRVILL 64
           S+  ++F VF NE    T+VE+ P E++NDRNDRA+R+   WY    EHL+   + V+L+
Sbjct: 115 SDDHKRFIVFHNEFSEHTFVERLPNETINDRNDRAIRKTCQWY---SEHLKPYDINVVLV 171
Query: 65  SEDVRNRDLAT---QSGLLTSSIEGYISTLSNGEPLLDKLSKKEAVVETSVKDSL----Y 117
           + D  NR+ AT   +S ++T S+  YI  L N + + D + + ++  +   +D+     +
Sbjct: 172 TNDRLNREAATKEVESNIITKSLVQYIELLPNADDIRDSIPQMDSFDKDLERDTFSDFTF 231
Query: 118 PLHATPSEIHAGIKNQSLLQGSFQASRENFLEGQVNCEGYDKPILVQGREGLNRAIDGDT 177
           P + + + +  G+KN  L QG+ Q S  NFLEG V+   + KP+L+ G++ LNRA +GD 
Sbjct: 232 PEYYSTARVMGGLKNGVLYQGNIQISEYNFLEGSVSLPRFSKPVLIVGQKNLNRAFNGDQ 291
Query: 178 VAVRLLPESQWSAPXX----------------------XXXXXXXXXXXXXXXXXKLIKG 215
           V V LLP+S+W AP                                         +L+  
Sbjct: 292 VIVELLPQSEWKAPSSIVLDSEHFDVNDNPDIEAGDDDDNNESSSNTTVISDKQRRLLAK 351
Query: 216 NKTVPPAERR--PTGQIVGIIKRKWRQYCGILQP---NPLAGSSRHLFVP-AERKIPKIR 269
           +  +    ++  PT ++V I +R WRQY G L P   +P + S++++FV   ++ +PK+R
Sbjct: 352 DAMIAQRSKKIQPTAKVVYIQRRSWRQYVGQLAPSSVDPQSSSTQNVFVILMDKCLPKVR 411
Query: 270 VETRQIATLSGQRIVVAIDSWPRHSRYPQGHFVRALGPIGDKDTENEVLLLEHDVPHSKF 329
           + TR+ A L  +RIV++IDSWP   +YP GHFVR LG I     E E LLLEHDV +  F
Sbjct: 412 IRTRRAAELLDKRIVISIDSWPTTHKYPLGHFVRDLGTIESAQAETEALLLEHDVEYRPF 471
Query: 330 SDLVLSYLPPMPWEKSTGRPWCSGTSI 356
           S  VL  LP      + G  W + T +
Sbjct: 472 SKKVLECLP------AEGHDWKAPTKL 492
>pdb|2WP8|J Chain J, Yeast Rrp44 Nuclease Length = 977 Back     alignment and structure
>pdb|2WP8|J Chain J, Yeast Rrp44 Nuclease Length = 977 Back     alignment and structure
>pdb|2WP8|J Chain J, Yeast Rrp44 Nuclease Length = 977 Back     alignment and structure
>pdb|4IFD|J Chain J, Crystal Structure Of An 11-subunit Eukaryotic Exosome Complex Bound To Rna Length = 1003 Back     alignment and structure
>pdb|4IFD|J Chain J, Crystal Structure Of An 11-subunit Eukaryotic Exosome Complex Bound To Rna Length = 1003 Back     alignment and structure
>pdb|4IFD|J Chain J, Crystal Structure Of An 11-subunit Eukaryotic Exosome Complex Bound To Rna Length = 1003 Back     alignment and structure
>pdb|4IFD|J Chain J, Crystal Structure Of An 11-subunit Eukaryotic Exosome Complex Bound To Rna Length = 1003 Back     alignment and structure
>pdb|2VNU|D Chain D, Crystal Structure Of Sc Rrp44 Length = 760 Back     alignment and structure
>pdb|2VNU|D Chain D, Crystal Structure Of Sc Rrp44 Length = 760 Back     alignment and structure
>pdb|2VNU|D Chain D, Crystal Structure Of Sc Rrp44 Length = 760 Back     alignment and structure
>pdb|2VNU|D Chain D, Crystal Structure Of Sc Rrp44 Length = 760 Back     alignment and structure
>pdb|2IX0|A Chain A, Rnase Ii Length = 663 Back     alignment and structure
>pdb|2IX0|A Chain A, Rnase Ii Length = 663 Back     alignment and structure
>pdb|2IX1|A Chain A, Rnase Ii D209n Mutant Length = 664 Back     alignment and structure
>pdb|2IX1|A Chain A, Rnase Ii D209n Mutant Length = 664 Back     alignment and structure
>pdb|2ID0|A Chain A, Escherichia Coli Rnase Ii Length = 644 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query654
2wp8_J 977 Exosome complex exonuclease DIS3; nucleus, hydrola 1e-112
2wp8_J977 Exosome complex exonuclease DIS3; nucleus, hydrola 1e-27
2wp8_J977 Exosome complex exonuclease DIS3; nucleus, hydrola 2e-27
2wp8_J 977 Exosome complex exonuclease DIS3; nucleus, hydrola 6e-16
2wp8_J 977 Exosome complex exonuclease DIS3; nucleus, hydrola 8e-06
2vnu_D 760 Exosome complex exonuclease RRP44; hydrolase-RNA c 8e-76
2vnu_D760 Exosome complex exonuclease RRP44; hydrolase-RNA c 7e-28
2vnu_D760 Exosome complex exonuclease RRP44; hydrolase-RNA c 2e-27
2vnu_D 760 Exosome complex exonuclease RRP44; hydrolase-RNA c 1e-16
2vnu_D 760 Exosome complex exonuclease RRP44; hydrolase-RNA c 4e-06
2r7d_A469 Ribonuclease II family protein; structural genomic 4e-15
2r7d_A469 Ribonuclease II family protein; structural genomic 6e-15
2r7d_A 469 Ribonuclease II family protein; structural genomic 4e-11
2r7d_A469 Ribonuclease II family protein; structural genomic 7e-04
2id0_A 644 Exoribonuclease 2; RNAse, exonuclease, hydrolyase, 3e-14
2id0_A644 Exoribonuclease 2; RNAse, exonuclease, hydrolyase, 8e-14
2id0_A644 Exoribonuclease 2; RNAse, exonuclease, hydrolyase, 8e-14
2id0_A 644 Exoribonuclease 2; RNAse, exonuclease, hydrolyase, 1e-06
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 8e-07
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 4e-04
>2wp8_J Exosome complex exonuclease DIS3; nucleus, hydrolase, RNA-binding, exonucle binding, mitochondrion, rRNA processing; 3.00A {Saccharomyces cerevisiae} Length = 977 Back     alignment and structure
 Score =  360 bits (926), Expect = e-112
 Identities = 132/383 (34%), Positives = 203/383 (53%), Gaps = 41/383 (10%)

Query: 1   LKDLI--SNPSRKFYVFVNEHHYETYVEQEPGESVNDRNDRALRRVATWYVKYEEHL-ES 57
           L+ L   S+  ++F VF NE    T+VE+ P E++NDRNDRA+R+   WY    EHL   
Sbjct: 108 LRTLCRDSDDHKRFIVFHNEFSEHTFVERLPNETINDRNDRAIRKTCQWY---SEHLKPY 164

Query: 58  AVRVILLSEDVRNRDLA---TQSGLLTSSIEGYISTLSNGEPLLDKLSKKEAVVETSVKD 114
            + V+L++ D  NR+ A    +S ++T S+  YI  L N + + D + + ++  +   +D
Sbjct: 165 DINVVLVTNDRLNREAATKEVESNIITKSLVQYIELLPNADDIRDSIPQMDSFDKDLERD 224

Query: 115 S----LYPLHATPSEIHAGIKNQSLLQGSFQASRENFLEGQVNCEGYDKPILVQGREGLN 170
           +     +P + + + +  G+KN  L QG+ Q S  NFLEG V+   + KP+L+ G++ LN
Sbjct: 225 TFSDFTFPEYYSTARVMGGLKNGVLYQGNIQISEYNFLEGSVSLPRFSKPVLIVGQKNLN 284

Query: 171 RAIDGDTVAVRLLPESQWSAPLELVLEDE-------------GSGEDEEGEDGKLIKGNK 217
           RA +GD V V LLP+S+W AP  +VL+ E                ++ E      +  +K
Sbjct: 285 RAFNGDQVIVELLPQSEWKAPSSIVLDSEHFDVNDNPDIEAGDDDDNNESSSNTTVISDK 344

Query: 218 TV-----------PPAERRPTGQIVGIIKRKWRQYCGILQPNPLA----GSSRHLFVPAE 262
                           + +PT ++V I +R WRQY G L P+ +      +     +  +
Sbjct: 345 QRRLLAKDAMIAQRSKKIQPTAKVVYIQRRSWRQYVGQLAPSSVDPQSSSTQNVFVILMD 404

Query: 263 RKIPKIRVETRQIATLSGQRIVVAIDSWPRHSRYPQGHFVRALGPIGDKDTENEVLLLEH 322
           + +PK+R+ TR+ A L  +RIV++IDSWP   +YP GHFVR LG I     E E LLLEH
Sbjct: 405 KCLPKVRIRTRRAAELLDKRIVISIDSWPTTHKYPLGHFVRDLGTIESAQAETEALLLEH 464

Query: 323 DVPHSKFSDLVLSYLPPMPWEKS 345
           DV +  FS  VL  LP    +  
Sbjct: 465 DVEYRPFSKKVLECLPAEGHDWK 487
>2wp8_J Exosome complex exonuclease DIS3; nucleus, hydrolase, RNA-binding, exonucle binding, mitochondrion, rRNA processing; 3.00A {Saccharomyces cerevisiae} Length = 977 Back     alignment and structure
>2wp8_J Exosome complex exonuclease DIS3; nucleus, hydrolase, RNA-binding, exonucle binding, mitochondrion, rRNA processing; 3.00A {Saccharomyces cerevisiae} Length = 977 Back     alignment and structure
>2wp8_J Exosome complex exonuclease DIS3; nucleus, hydrolase, RNA-binding, exonucle binding, mitochondrion, rRNA processing; 3.00A {Saccharomyces cerevisiae} Length = 977 Back     alignment and structure
>2wp8_J Exosome complex exonuclease DIS3; nucleus, hydrolase, RNA-binding, exonucle binding, mitochondrion, rRNA processing; 3.00A {Saccharomyces cerevisiae} Length = 977 Back     alignment and structure
>2vnu_D Exosome complex exonuclease RRP44; hydrolase-RNA complex, RNA degradation, RNA-binding, RNA Pro; HET: 1PE; 2.30A {Saccharomyces cerevisiae} SCOP: b.40.4.5 b.40.4.5 b.40.4.5 b.40.4.16 Length = 760 Back     alignment and structure
>2vnu_D Exosome complex exonuclease RRP44; hydrolase-RNA complex, RNA degradation, RNA-binding, RNA Pro; HET: 1PE; 2.30A {Saccharomyces cerevisiae} SCOP: b.40.4.5 b.40.4.5 b.40.4.5 b.40.4.16 Length = 760 Back     alignment and structure
>2vnu_D Exosome complex exonuclease RRP44; hydrolase-RNA complex, RNA degradation, RNA-binding, RNA Pro; HET: 1PE; 2.30A {Saccharomyces cerevisiae} SCOP: b.40.4.5 b.40.4.5 b.40.4.5 b.40.4.16 Length = 760 Back     alignment and structure
>2vnu_D Exosome complex exonuclease RRP44; hydrolase-RNA complex, RNA degradation, RNA-binding, RNA Pro; HET: 1PE; 2.30A {Saccharomyces cerevisiae} SCOP: b.40.4.5 b.40.4.5 b.40.4.5 b.40.4.16 Length = 760 Back     alignment and structure
>2vnu_D Exosome complex exonuclease RRP44; hydrolase-RNA complex, RNA degradation, RNA-binding, RNA Pro; HET: 1PE; 2.30A {Saccharomyces cerevisiae} SCOP: b.40.4.5 b.40.4.5 b.40.4.5 b.40.4.16 Length = 760 Back     alignment and structure
>2r7d_A Ribonuclease II family protein; structural genomics, PSI-2, structure initiative, northeast structural genomics consort NESG; 1.80A {Deinococcus radiodurans R1} SCOP: b.40.4.5 b.40.4.16 PDB: 2r7f_A Length = 469 Back     alignment and structure
>2r7d_A Ribonuclease II family protein; structural genomics, PSI-2, structure initiative, northeast structural genomics consort NESG; 1.80A {Deinococcus radiodurans R1} SCOP: b.40.4.5 b.40.4.16 PDB: 2r7f_A Length = 469 Back     alignment and structure
>2r7d_A Ribonuclease II family protein; structural genomics, PSI-2, structure initiative, northeast structural genomics consort NESG; 1.80A {Deinococcus radiodurans R1} SCOP: b.40.4.5 b.40.4.16 PDB: 2r7f_A Length = 469 Back     alignment and structure
>2r7d_A Ribonuclease II family protein; structural genomics, PSI-2, structure initiative, northeast structural genomics consort NESG; 1.80A {Deinococcus radiodurans R1} SCOP: b.40.4.5 b.40.4.16 PDB: 2r7f_A Length = 469 Back     alignment and structure
>2id0_A Exoribonuclease 2; RNAse, exonuclease, hydrolyase, mRNA decay, RNR family, hydrolase; 2.35A {Escherichia coli} SCOP: b.40.4.5 b.40.4.5 b.40.4.5 b.40.4.16 PDB: 2ix0_A* 2ix1_A Length = 644 Back     alignment and structure
>2id0_A Exoribonuclease 2; RNAse, exonuclease, hydrolyase, mRNA decay, RNR family, hydrolase; 2.35A {Escherichia coli} SCOP: b.40.4.5 b.40.4.5 b.40.4.5 b.40.4.16 PDB: 2ix0_A* 2ix1_A Length = 644 Back     alignment and structure
>2id0_A Exoribonuclease 2; RNAse, exonuclease, hydrolyase, mRNA decay, RNR family, hydrolase; 2.35A {Escherichia coli} SCOP: b.40.4.5 b.40.4.5 b.40.4.5 b.40.4.16 PDB: 2ix0_A* 2ix1_A Length = 644 Back     alignment and structure
>2id0_A Exoribonuclease 2; RNAse, exonuclease, hydrolyase, mRNA decay, RNR family, hydrolase; 2.35A {Escherichia coli} SCOP: b.40.4.5 b.40.4.5 b.40.4.5 b.40.4.16 PDB: 2ix0_A* 2ix1_A Length = 644 Back     alignment and structure
>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
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query654
2wp8_J977 Exosome complex exonuclease DIS3; nucleus, hydrola 100.0
2vnu_D760 Exosome complex exonuclease RRP44; hydrolase-RNA c 100.0
2id0_A644 Exoribonuclease 2; RNAse, exonuclease, hydrolyase, 100.0
2r7d_A469 Ribonuclease II family protein; structural genomic 100.0
2dok_A186 Telomerase-binding protein EST1A; telomerase-assoc 98.32
1luz_A88 Protein K3, protein K2; stranded anti-parallel bet 97.61
2ckz_B218 C25, DNA-directed RNA polymerase III 25 KD polypep 97.56
3ayh_B203 DNA-directed RNA polymerase III subunit RPC8; tran 97.31
1a62_A130 RHO; transcription termination, termination, RNA b 97.11
1kl9_A 182 Eukaryotic translation initiation factor 2 subuni; 97.04
2a19_A 175 EIF-2- alpha, eukaryotic translation initiation fa 96.88
3h0g_G172 DNA-directed RNA polymerase II subunit RPB7; trans 96.7
2c35_B172 Human RPB7, DNA-directed RNA polymerase II 19 kDa 96.69
4ayb_E180 DNA-directed RNA polymerase; transferase, multi-su 96.68
2b8k_G215 B16, DNA-directed RNA polymerase II 19 kDa polypep 96.43
1y14_B171 B16, RPB7, DNA-directed RNA polymerase II 19 kDa p 96.42
3bzc_A785 TEX; helix-turn-helix, helix-hairpin-helix, S1 dom 96.38
2eqs_A103 ATP-dependent RNA helicase DHX8; S1 domain, OB-fol 96.12
1go3_E187 DNA-directed RNA polymerase subunit E; transferase 95.72
2cqo_A119 Nucleolar protein of 40 kDa; S1 domain, OB-fold, s 95.71
2k52_A80 Uncharacterized protein MJ1198; metal-binding, zin 95.48
2k4k_A130 GSP13, general stress protein 13; cytoplasm, stres 95.15
1e3p_A757 Guanosine pentaphosphate synthetase; polyribonucle 94.73
2khj_A109 30S ribosomal protein S1; OB fold, acetylation, ph 94.54
2khi_A115 30S ribosomal protein S1; acetylation, phosphoprot 94.16
4aid_A726 Polyribonucleotide nucleotidyltransferase; transfe 92.9
2bh8_A101 1B11; transcription, molecular evolution, unique a 91.17
3cdi_A723 Polynucleotide phosphorylase; mRNA turnover, RNAse 89.83
1wi5_A119 RRP5 protein homolog; S1 domain, OB-fold, structur 89.1
3psf_A1030 Transcription elongation factor SPT6; nucleus; 2.5 88.44
3psi_A 1219 Transcription elongation factor SPT6; nucleus; 3.3 88.3
3k2z_A196 LEXA repressor; winged helix-turn-helix, SOS syste 80.72
>2wp8_J Exosome complex exonuclease DIS3; nucleus, hydrolase, RNA-binding, exonucle binding, mitochondrion, rRNA processing; 3.00A {Saccharomyces cerevisiae} Back     alignment and structure
Probab=100.00  E-value=8.6e-123  Score=1096.92  Aligned_cols=597  Identities=35%  Similarity=0.597  Sum_probs=482.9

Q ss_pred             CcccccCCC--CcEEEEecCccccccccCCCCCCccchhhHHHHHHHHHhHhhhhhhcc-CCeEEEEeCChhhHHHHhh-
Q psy4856           1 LKDLISNPS--RKFYVFVNEHHYETYVEQEPGESVNDRNDRALRRVATWYVKYEEHLES-AVRVILLSEDVRNRDLATQ-   76 (654)
Q Consensus         1 lr~l~~~~~--~~~~vF~Ne~~~~t~v~~~~~es~~drn~r~i~~aa~wY~~~~~Hl~~-~~~vvllt~d~~~~~~a~~-   76 (654)
                      ||+||+|++  |+||||+||||++|||+|++|||+|||||||||+||+||   ++||+. .++|||||||++|+++|++ 
T Consensus       108 l~~l~~~~~~~~~~~vF~ne~~~~t~~~~~~~es~~~r~~r~i~~~~~wy---~~hl~~~~~~vv~~t~d~~~~~~~~~~  184 (977)
T 2wp8_J          108 LRTLCRDSDDHKRFIVFHNEFSEHTFVERLPNETINDRNDRAIRKTCQWY---SEHLKPYDINVVLVTNDRLNREAATKE  184 (977)
T ss_dssp             HHHHHHTCCSSCEEEEECTTTBTTTCCC-------CCHHHHHHHHHHHHH---HHHHGGGTCEEEEEECC----------
T ss_pred             HHHHhcCcCcCceEEEEccccchhhcccCccCCChhhhhHHHHHHHHHHH---HHhccccCCCEEEEeCCHHHHHHHhhh
Confidence            689999999  999999999999999999999999999999999999999   999985 6899999999999999999 


Q ss_pred             --cCcceeeHHHHHhhCCCCchhhhhhcccch-h---hccccCCCCCCCCCCHHHHHHhhhcCCeEEEEEEEecCCCcee
Q psy4856          77 --SGLLTSSIEGYISTLSNGEPLLDKLSKKEA-V---VETSVKDSLYPLHATPSEIHAGIKNQSLLQGSFQASRENFLEG  150 (654)
Q Consensus        77 --~gi~~~s~~~yv~~~~~~~~l~d~l~~~~~-~---~~~~~~~~~y~ehl~~~~l~~gik~g~l~~G~l~v~~~n~~eg  150 (654)
                        +|+.++|+.|||++++++++|+|+|+.... +   ++.++++.+|+||||+++|.+||++|++++|+|++|++||.||
T Consensus       185 ~~~~~~~~s~~~y~~~~~~~~~l~d~~~~~~~~~~~~~~~~~~~~~f~~yl~~~~l~~~l~~g~l~~G~l~v~~~~~~eg  264 (977)
T 2wp8_J          185 VESNIITKSLVQYIELLPNADDIRDSIPQMDSFDKDLERDTFSDFTFPEYYSTARVMGGLKNGVLYQGNIQISEYNFLEG  264 (977)
T ss_dssp             -CCCSCEEEHHHHHHTSTTTTCCCCC------------------CCCCCCCCHHHHHHHHHTTSSEEEEEEECSSBTTEE
T ss_pred             ccCCcEEEEHHHHHHhccCcHHHHHHHhhhccccccccccccccCcCcCcCCHHHHHHHHHcCCEEEEEEEEccCCCccE
Confidence              999999999999999999999999976541 1   2223557899999999999999999999999999999999999


Q ss_pred             EEeecCCCcCeEecCCCCCCcCCCCCEEEEEEccCCCcCCccccccccCCCCCCcccc------------c---------
Q psy4856         151 QVNCEGYDKPILVQGREGLNRAIDGDTVAVRLLPESQWSAPLELVLEDEGSGEDEEGE------------D---------  209 (654)
Q Consensus       151 fV~~~~~~~dI~I~g~~~~NRAl~GD~V~Vellp~~~w~~~~~~~~~~~~~~~~~~~~------------~---------  209 (654)
                      ||.+++.++||||+|+.+||||||||+|+|+|+++++|..+++.+.+++...+++..+            +         
T Consensus       265 fV~~~~~~~DI~I~~~~~~n~A~~GD~V~V~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  344 (977)
T 2wp8_J          265 SVSLPRFSKPVLIVGQKNLNRAFNGDQVIVELLPQSEWKAPSSIVLDSEHFDVNDNPDIEAGDDDDNNESSSNTTVISDK  344 (977)
T ss_dssp             EECCTTCSSCEEEESHHHHTTCCTTCEEEEEECCGGGCBCCCSCCBCGGGSSTTCCCCCC------------CCCCCCHH
T ss_pred             EEEcCCCCCCEEEcChHHhhhCcCCCEEEEEEeccccccccccccccccccccccccccccccccccccccccccccchh
Confidence            9999987889999996699999999999999999999987765444333221111000            0         


Q ss_pred             c-ccccCCCC--CCCCCCCCceeEEEEEeecCceeeeeecCCCCC----CCceEEEEeCCCCCCcEEEccccccccCCCE
Q psy4856         210 G-KLIKGNKT--VPPAERRPTGQIVGIIKRKWRQYCGILQPNPLA----GSSRHLFVPAERKIPKIRVETRQIATLSGQR  282 (654)
Q Consensus       210 ~-~~l~~~~~--~~~~~~~ptGkVVgIi~R~~r~~vG~l~~~~~~----~~~~~l~vP~D~riP~I~I~t~q~~~l~~~r  282 (654)
                      + .++.++..  ....+++|+|+||+|++|+|++|||+|.+....    ..++++|+|.|+|||+|+|++++...+.|++
T Consensus       345 ~~~~~~~~~~~~~~~~~~~~eG~Vv~IleR~~~~~vG~l~~~~~~~~g~~~~~~~~~P~D~ri~~i~I~~~~~~~~~g~~  424 (977)
T 2wp8_J          345 QRRLLAKDAMIAQRSKKIQPTAKVVYIQRRSWRQYVGQLAPSSVDPQSSSTQNVFVILMDKCLPKVRIRTRRAAELLDKR  424 (977)
T ss_dssp             HHHHHHHHHHHHHHCSCCBCBEEEEEEEECCCCEEEEEECGGGCCTTCCSCEEEEEEESSTTSCCEEEEETTTTGGGGEE
T ss_pred             hhhhhhhhhhhccccCCCCceEEEEEEEEECCCeEEEEEEEecCcccCCccceEEEEECCCCCccEEeccccccccCCCE
Confidence            0 00000000  001345699999999999999999999875321    1345799999999999999999988899999


Q ss_pred             EEEEEeecCCCCCCccEEEEEecCCCCChhhHHHHHhhcCCCCCCCCcHHHHhcCCCC--CCCCC-------------C-
Q psy4856         283 IVVAIDSWPRHSRYPQGHFVRALGPIGDKDTENEVLLLEHDVPHSKFSDLVLSYLPPM--PWEKS-------------T-  346 (654)
Q Consensus       283 vvV~Id~Wp~~s~~P~Ghiv~~LG~~gd~~~E~~~iL~e~~i~~~~Fs~~vl~~l~~~--~~~i~-------------~-  346 (654)
                      |+|+|++||..+.+|.|||+++||..||+++|++++|.+|+||+.+||++|++||+..  +|.++             + 
T Consensus       425 vvv~I~~wp~~~~~p~G~iv~~LG~~~d~~~e~~~il~~~~l~~~~Fp~~vl~~~~~~~~~~~i~~~~~~~~~v~~~~~~  504 (977)
T 2wp8_J          425 IVISIDSWPTTHKYPLGHFVRDLGTIESAQAETEALLLEHDVEYRPFSKKVLECLPAEGHDWKAPTKLDDPEAVSKDPLL  504 (977)
T ss_dssp             EEEEEEECCTTCSSCEEEEEEEEEESSCSHHHHHHHHHHTTCCCSCCCHHHHTTSCTTGGGCCCCSSTTCHHHHHHCGGG
T ss_pred             EEEEEeeccCCCCCccEEEEEEeCCCCCcchhHHHHHHHcCCCcccCCHHHHHHHHhccccccccccccccccccccccc
Confidence            9999999999999999999999999999999999999999999988999999999998  88865             2 


Q ss_pred             -CC------ceeeeCCCCce---------eccCCeEEEEEEe-ccCCccCCCc----------eeeec-c-----CCcch
Q psy4856         347 -GR------PWCSGTSIGLS---------QISTGVISVGLEQ-GFPSLLKPRT----------TFVFY-D-----FPRTT  393 (654)
Q Consensus       347 -~R------~~~tIDp~~~~---------~l~~g~~~lgVHI-DVs~~V~~~s----------tsvYL-d-----LP~~L  393 (654)
                       +|      ++|||||++|+         ++++|+|+||||| ||||||+|||          ||||| +     ||+.|
T Consensus       505 ~~R~Dlr~l~~~TID~~~akDlDDAvsie~~~~G~~~lgVHIADVs~yV~~gS~LD~eA~~RgtSvYLpdrviPMLP~~L  584 (977)
T 2wp8_J          505 TKRKDLRDKLICSIDPPGCVDINDALHAKKLPNGNWEVGVHIADVTHFVKPGTALDAEGAARGTSVYLVDKRIDMLPMLL  584 (977)
T ss_dssp             GGCEECTTSCCEEEECTTCSCCCEEEEEEECTTSCEEEEEEEECHHHHSCSSSHHHHHHHHHCBCEEETTEEECSSCHHH
T ss_pred             ccceecccCcEEEECCCCCCcccceEEEEEcCCCcEEEEEEeccHHHeeCCCCHHHHHHHHcCCcEeCCCceEeCCChHH
Confidence             45      99999999998         3578999999999 9999999999          99999 7     99999


Q ss_pred             hhhHHHH------Hhh---------------------------------h------------------------------
Q psy4856         394 RTNFILL------FLF---------------------------------Q------------------------------  404 (654)
Q Consensus       394 s~~lcSL------la~---------------------------------q------------------------------  404 (654)
                      |+++|||      +||                                 |                              
T Consensus       585 S~~lcSL~pg~dRla~Sv~~~id~~G~i~~~~~~~svIrs~~rltY~~v~~~l~~~~~~~~l~~~L~~L~~la~~Lr~~R  664 (977)
T 2wp8_J          585 GTDLCSLKPYVDRFAFSVIWELDDSANIVNVNFMKSVIRSREAFSYEQAQLRIDDKTQNDELTMGMRALLKLSVKLKQKR  664 (977)
T ss_dssp             HTTTSSCCBTSEEEEEEEEEEECTTSCEEEEEEEEEEEEBSEEEEHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             hccccccCCCCceEEEEEEEEECCCCCEEEEEEEEEEEEecceEcHHHHHHHHhCCCcchHHHHHHHHHHHHHHHHHHHH
Confidence            9999999      454                                 0                              


Q ss_pred             ----hhcccccCCC---------ccc------------------HHHHHHHHHHHhc--CCceeeeCCChH------HHH
Q psy4856         405 ----AVYFSSGMLQ---------QSD------------------FHHYGLATPIYTH--FTSPIRRYADII------VHR  445 (654)
Q Consensus       405 ----al~l~~pe~~---------~~d------------------~AN~~vA~~~~~~--~p~l~R~h~~p~------l~~  445 (654)
                          ||+|++||.+         +.+                  +||++||+|+.++  .|++||+|+.|+      |.+
T Consensus       665 ~~~Gai~~~~pE~~~~ld~e~g~~~~i~~~~~~~a~~LIEE~MllAN~~vA~~l~~~~~~~~lyR~h~~P~~~kl~~l~~  744 (977)
T 2wp8_J          665 LEAGALNLASPEVKVHMDSETSDPNEVEIKKLLATNSLVEEFMLLANISVARKIYDAFPQTAMLRRHAAPPSTNFEILNE  744 (977)
T ss_dssp             HTTTCCCCCSHHHHTTSCCTTCCCCCSSCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCTTTCEEEEBCCCCGGGGHHHHH
T ss_pred             HhCCCcccCCCceEEEeccCCCceEEEEecCCCcHHHHHHHHHHHHHHHHHHHHHHhCCCCeEEEeCCCCCHHHHHHHHH
Confidence                7888888711         111                  4999999999985  688999999885      444


Q ss_pred             HHHHhhcC---------------------CCchhHHHHHH--hhcc----cccc--cCCccccccCCCCCcccccCcccc
Q psy4856         446 LLAACIGA---------------------DATYPSLLDKK--ASTA----LCYN--LVSDFHHYGLATPIYTHFTSPIRR  496 (654)
Q Consensus       446 ~l~~~~g~---------------------~~~~~~llr~l--~~m~----~~s~--s~~~~~H~gLa~~~YTHfTSPIRR  496 (654)
                      +++...|+                     ++.++.+++.|  ++|+    +++|  ++++.+|||||++.||||||||||
T Consensus       745 ~~~~~~G~~l~~~~~~~l~~~L~~~~~~~~~~~~~ll~~~~lrsm~~A~Y~~sg~~s~~~~gHfgLa~~~YtHfTSPIRR  824 (977)
T 2wp8_J          745 MLNTRKNMSISLESSKALADSLDRCVDPEDPYFNTLVRIMSTRCMMAAQYFYSGAYSYPDFRHYGLAVDIYTHFTSPIRR  824 (977)
T ss_dssp             HHHHHHSCCCCCSSHHHHHHHHHHCCCSSCTTHHHHHHHHHHTTSCCCEEEEGGGSCGGGSCBTTTTBSSCCCCSCTTTB
T ss_pred             HHHHccCCCCCCCCHHHHHHHHHHhhCCchHHHHHHHHHHHHHhccCceeecccccCCCCCCceecCCCCeeccCchHhh
Confidence            45443254                     13445566543  3465    3444  678999999999999999999999


Q ss_pred             chhHHHHHHHHHHHhCCCCCCCccCHHHHHHHHhcCCCCCCcCcccccCCCCCCCcccccCCccCccchhhHHHHHHHHh
Q psy4856         497 YADIIVHRLLAACIGADATYPSLLDKKASTALCYNLPGCTDIDDALHCRPLPNGNIEVTYPSLGMSQSCKDIQACLLELG  576 (654)
Q Consensus       497 Y~DLivHR~L~a~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  576 (654)
                      |+||+|||||+++|++++.+....+++.++.+|.                                              
T Consensus       825 Y~DLivHR~L~a~L~~~~~~~~~~~~~~l~~i~~----------------------------------------------  858 (977)
T 2wp8_J          825 YCDVVAHRQLAGAIGYEPLSLTHRDKNKMDMICR----------------------------------------------  858 (977)
T ss_dssp             HHHHHHHHHHHHHTTSSCCCGGGGCHHHHHHHHH----------------------------------------------
T ss_pred             HHHHHHHHHHHHHhcCCCCcccccCHHHHHHHHH----------------------------------------------
Confidence            9999999999999987765544456666766666                                              


Q ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHhhcccCcccceEEEcccccceEEEECCCCcccccceeeeccCC--CccEEec
Q psy4856         577 YNLNYRNRQAQYAGRASVALHTHLFFRRKSITEEEVARRTDLRHLDVCSVDPPGCTDIDDALHCRPLP--NGNIEVT  651 (654)
Q Consensus       577 ~~ln~r~r~A~~aer~~~~l~~~~~l~~~~g~~~~~~~i~~~~~~g~~~v~~~~~~~~eg~vh~~~~~--~~~~~~~  651 (654)
                       |||.++|+|++|||++.++|++.||+++ |+++. |+|+++.++|+| |+.+.+. +||+||+|.|+  ++||+|+
T Consensus       859 -~~s~~er~A~~aeR~~~~~~~~~~l~~~-ge~~~-g~V~~V~~~G~f-V~L~~~g-iEGlVhis~L~~~~d~y~fd  930 (977)
T 2wp8_J          859 -NINRKHRNAQFAGRASIEYYVGQVMRNN-ESTET-GYVIKVFNNGIV-VLVPKFG-VEGLIRLDNLTEDPNSAAFD  930 (977)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHHHHHHHHHT-TCEEE-EEEEEECSSEEE-EECTTTC-CEEEEEGGGTCSCGGGCEEE
T ss_pred             -HhCHHHHHHHHHHHHHHHHHHhhhhccc-ceEEE-EEEEEEcCCeEE-EEEcCCC-eEEEEEeccccCCCceeEEc
Confidence             9999999999999999999999999999 99999 999999999999 7777654 89999999998  9999986
>2vnu_D Exosome complex exonuclease RRP44; hydrolase-RNA complex, RNA degradation, RNA-binding, RNA Pro; HET: 1PE; 2.30A {Saccharomyces cerevisiae} SCOP: b.40.4.5 b.40.4.5 b.40.4.5 b.40.4.16 Back     alignment and structure
>2id0_A Exoribonuclease 2; RNAse, exonuclease, hydrolyase, mRNA decay, RNR family, hydrolase; 2.35A {Escherichia coli} SCOP: b.40.4.5 b.40.4.5 b.40.4.5 b.40.4.16 PDB: 2ix0_A* 2ix1_A Back     alignment and structure
>2r7d_A Ribonuclease II family protein; structural genomics, PSI-2, structure initiative, northeast structural genomics consort NESG; 1.80A {Deinococcus radiodurans R1} SCOP: b.40.4.5 b.40.4.16 PDB: 2r7f_A Back     alignment and structure
>2dok_A Telomerase-binding protein EST1A; telomerase-associated protein, unknown function; 1.80A {Homo sapiens} PDB: 2hww_A 2hwx_A Back     alignment and structure
>1luz_A Protein K3, protein K2; stranded anti-parallel beta barrel, viral protein; 1.80A {Vaccinia virus} SCOP: b.40.4.5 Back     alignment and structure
>2ckz_B C25, DNA-directed RNA polymerase III 25 KD polypeptide; multiprotein complex, nucleotidyltransferase, nuclear protein, hypothetical protein; 3.2A {Saccharomyces cerevisiae} Back     alignment and structure
>3ayh_B DNA-directed RNA polymerase III subunit RPC8; transcription; 2.19A {Schizosaccharomyces pombe} Back     alignment and structure
>1a62_A RHO; transcription termination, termination, RNA binding domain, transcription regulation, OB fold, F1-ATPase; 1.55A {Escherichia coli BL21} SCOP: a.140.3.1 b.40.4.5 PDB: 1a63_A 2a8v_A 1a8v_A Back     alignment and structure
>1kl9_A Eukaryotic translation initiation factor 2 subuni; OB fold, helical domain; 1.90A {Homo sapiens} SCOP: a.60.14.1 b.40.4.5 Back     alignment and structure
>2a19_A EIF-2- alpha, eukaryotic translation initiation factor 2 alpha; transferase, protein biosynthesis, protein synthesis transferase complex; HET: TPO ANP; 2.50A {Saccharomyces cerevisiae} PDB: 2a1a_A* 1q46_A Back     alignment and structure
>3h0g_G DNA-directed RNA polymerase II subunit RPB7; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} Back     alignment and structure
>2c35_B Human RPB7, DNA-directed RNA polymerase II 19 kDa polypeptide; transcription, nucleotidyltransferase; 2.70A {Homo sapiens} SCOP: b.40.4.5 d.230.1.1 Back     alignment and structure
>4ayb_E DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2y0s_E 4b1o_E 4b1p_T 2waq_E 2wb1_E 2pmz_E 3hkz_E Back     alignment and structure
>2b8k_G B16, DNA-directed RNA polymerase II 19 kDa polypeptide; DNA-dependent RNA polymerase, cellular RNA polymerase; 4.15A {Saccharomyces cerevisiae} SCOP: b.40.4.5 d.230.1.1 Back     alignment and structure
>1y14_B B16, RPB7, DNA-directed RNA polymerase II 19 kDa polypeptide; transferase; 2.30A {Saccharomyces cerevisiae} SCOP: b.40.4.5 d.230.1.1 PDB: 1nt9_G 1wcm_G 1pqv_G 1y1v_G 1y1w_G 1y1y_G 1y77_G* 2b63_G* 2ja5_G* 2ja6_G* 2ja7_G* 2ja8_G* 2r7z_G 2r92_G 2r93_G 2vum_G* 3fki_G 3h3v_H 3hou_G* 3hov_G* ... Back     alignment and structure
>3bzc_A TEX; helix-turn-helix, helix-hairpin-helix, S1 domain, YQGF domain, transcription, RNA binding protein; 2.27A {Pseudomonas aeruginosa} SCOP: a.60.2.6 a.60.2.6 a.294.1.1 b.40.4.5 c.55.3.13 PDB: 3bzk_A 2oce_A Back     alignment and structure
>2eqs_A ATP-dependent RNA helicase DHX8; S1 domain, OB-fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>1go3_E DNA-directed RNA polymerase subunit E; transferase, transferase, transcription; 1.75A {Methanococcus jannaschii} SCOP: b.40.4.5 d.230.1.1 Back     alignment and structure
>2cqo_A Nucleolar protein of 40 kDa; S1 domain, OB-fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2k52_A Uncharacterized protein MJ1198; metal-binding, zinc, zinc-finger, structural genomics, PSI-2, protein structure initiative; NMR {Methanocaldococcus jannaschii} Back     alignment and structure
>2k4k_A GSP13, general stress protein 13; cytoplasm, stress response, RNA binding protein; NMR {Bacillus subtilis} Back     alignment and structure
>1e3p_A Guanosine pentaphosphate synthetase; polyribonucleotide transferase, ATP-GTP diphosphotransferase RNA processing, RNA degradation; 2.5A {Streptomyces antibioticus} SCOP: a.4.9.1 b.40.4.5 d.14.1.4 d.14.1.4 d.52.3.1 d.101.1.1 d.101.1.1 PDB: 1e3h_A Back     alignment and structure
>2khj_A 30S ribosomal protein S1; OB fold, acetylation, phosphoprotein, ribonucleoprotein, RNA-binding; NMR {Escherichia coli} Back     alignment and structure
>2khi_A 30S ribosomal protein S1; acetylation, phosphoprotein, ribonucleoprotein, RNA-binding; NMR {Escherichia coli} Back     alignment and structure
>4aid_A Polyribonucleotide nucleotidyltransferase; transferase-peptide complex; 2.60A {Caulobacter vibrioides} PDB: 4aim_A 4am3_A Back     alignment and structure
>2bh8_A 1B11; transcription, molecular evolution, unique architecture, transcription regulation, phosphorylation; 1.9A {Escherichia coli} Back     alignment and structure
>3cdi_A Polynucleotide phosphorylase; mRNA turnover, RNAse, RNA degradation, kinase, transferase; 2.60A {Escherichia coli} PDB: 1sro_A Back     alignment and structure
>1wi5_A RRP5 protein homolog; S1 domain, OB-fold, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: b.40.4.5 Back     alignment and structure
>3psf_A Transcription elongation factor SPT6; nucleus; 2.59A {Saccharomyces cerevisiae} Back     alignment and structure
>3psi_A Transcription elongation factor SPT6; nucleus; 3.30A {Saccharomyces cerevisiae} Back     alignment and structure
>3k2z_A LEXA repressor; winged helix-turn-helix, SOS system, autoca cleavage, DNA damage, DNA repair, DNA replication, DNA-BIND hydrolase; 1.37A {Thermotoga maritima} 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 654
d2vnud195 b.40.4.5 (D:400-494) Exosome complex exonuclease R 3e-34
d2vnud3148 b.40.4.5 (D:252-399) Exosome complex exonuclease R 3e-34
d2vnud4416 b.40.4.16 (D:495-910) Exosome complex exonuclease 7e-18
d2vnud4416 b.40.4.16 (D:495-910) Exosome complex exonuclease 3e-17
d2vnud4 416 b.40.4.16 (D:495-910) Exosome complex exonuclease 1e-12
d2vnud4 416 b.40.4.16 (D:495-910) Exosome complex exonuclease 0.002
d2r7da2401 b.40.4.16 (A:3-403) Ribonuclease II family protein 3e-15
d2r7da2401 b.40.4.16 (A:3-403) Ribonuclease II family protein 1e-14
d2r7da2 401 b.40.4.16 (A:3-403) Ribonuclease II family protein 1e-07
d2r7da2401 b.40.4.16 (A:3-403) Ribonuclease II family protein 7e-05
d2ix0a4385 b.40.4.16 (A:173-557) Exoribonuclease 2, RNB {Esch 3e-14
d2ix0a4385 b.40.4.16 (A:173-557) Exoribonuclease 2, RNB {Esch 6e-14
d2ix0a4 385 b.40.4.16 (A:173-557) Exoribonuclease 2, RNB {Esch 2e-12
d2ix0a4 385 b.40.4.16 (A:173-557) Exoribonuclease 2, RNB {Esch 7e-04
d2ix0a190 b.40.4.5 (A:83-172) Exoribonuclease 2, RNB {Escher 8e-06
>d2vnud1 b.40.4.5 (D:400-494) Exosome complex exonuclease RRP44 {Saccharomyces cerevisiae [TaxId: 4932]} Length = 95 Back     information, alignment and structure

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Cold shock DNA-binding domain-like
domain: Exosome complex exonuclease RRP44
species: Saccharomyces cerevisiae [TaxId: 4932]

 Score =  123 bits (310), Expect = 3e-34
 Identities = 42/93 (45%), Positives = 56/93 (60%), Gaps = 4/93 (4%)

Query: 238 WRQYCGILQPNPLAGSSRH----LFVPAERKIPKIRVETRQIATLSGQRIVVAIDSWPRH 293
           WRQY G L P+ +   S        +  ++ +PK+R+ TR+ A L  +RIV++IDSWP  
Sbjct: 1   WRQYVGQLAPSSVDPQSSSTQNVFVILMDKCLPKVRIRTRRAAELLDKRIVISIDSWPTT 60

Query: 294 SRYPQGHFVRALGPIGDKDTENEVLLLEHDVPH 326
            +YP GHFVR LG I     E E LLLEHDV +
Sbjct: 61  HKYPLGHFVRDLGTIESAQAETEALLLEHDVEY 93
>d2vnud3 b.40.4.5 (D:252-399) Exosome complex exonuclease RRP44 {Saccharomyces cerevisiae [TaxId: 4932]} Length = 148 Back     information, alignment and structure
>d2vnud4 b.40.4.16 (D:495-910) Exosome complex exonuclease RRP44 {Saccharomyces cerevisiae [TaxId: 4932]} Length = 416 Back     information, alignment and structure
>d2vnud4 b.40.4.16 (D:495-910) Exosome complex exonuclease RRP44 {Saccharomyces cerevisiae [TaxId: 4932]} Length = 416 Back     information, alignment and structure
>d2vnud4 b.40.4.16 (D:495-910) Exosome complex exonuclease RRP44 {Saccharomyces cerevisiae [TaxId: 4932]} Length = 416 Back     information, alignment and structure
>d2vnud4 b.40.4.16 (D:495-910) Exosome complex exonuclease RRP44 {Saccharomyces cerevisiae [TaxId: 4932]} Length = 416 Back     information, alignment and structure
>d2r7da2 b.40.4.16 (A:3-403) Ribonuclease II family protein DR0020 {Deinococcus radiodurans [TaxId: 1299]} Length = 401 Back     information, alignment and structure
>d2r7da2 b.40.4.16 (A:3-403) Ribonuclease II family protein DR0020 {Deinococcus radiodurans [TaxId: 1299]} Length = 401 Back     information, alignment and structure
>d2r7da2 b.40.4.16 (A:3-403) Ribonuclease II family protein DR0020 {Deinococcus radiodurans [TaxId: 1299]} Length = 401 Back     information, alignment and structure
>d2r7da2 b.40.4.16 (A:3-403) Ribonuclease II family protein DR0020 {Deinococcus radiodurans [TaxId: 1299]} Length = 401 Back     information, alignment and structure
>d2ix0a4 b.40.4.16 (A:173-557) Exoribonuclease 2, RNB {Escherichia coli [TaxId: 562]} Length = 385 Back     information, alignment and structure
>d2ix0a4 b.40.4.16 (A:173-557) Exoribonuclease 2, RNB {Escherichia coli [TaxId: 562]} Length = 385 Back     information, alignment and structure
>d2ix0a4 b.40.4.16 (A:173-557) Exoribonuclease 2, RNB {Escherichia coli [TaxId: 562]} Length = 385 Back     information, alignment and structure
>d2ix0a4 b.40.4.16 (A:173-557) Exoribonuclease 2, RNB {Escherichia coli [TaxId: 562]} Length = 385 Back     information, alignment and structure
>d2ix0a1 b.40.4.5 (A:83-172) Exoribonuclease 2, RNB {Escherichia coli [TaxId: 562]} Length = 90 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 ?
Query654
d2r7da2401 Ribonuclease II family protein DR0020 {Deinococcus 100.0
d2vnud4416 Exosome complex exonuclease RRP44 {Saccharomyces c 100.0
d2ix0a4385 Exoribonuclease 2, RNB {Escherichia coli [TaxId: 5 100.0
d2vnud3148 Exosome complex exonuclease RRP44 {Saccharomyces c 99.95
d2vnud195 Exosome complex exonuclease RRP44 {Saccharomyces c 99.86
d2ix0a190 Exoribonuclease 2, RNB {Escherichia coli [TaxId: 5 99.43
d2ix0a279 Exoribonuclease 2, RNB {Escherichia coli [TaxId: 5 99.35
d2ix0a387 Exoribonuclease 2, RNB {Escherichia coli [TaxId: 5 98.09
d1go3e1106 C-terminal domain of RNA polymerase II subunit RBP 97.53
d1y14b191 C-terminal domain of RNA polymerase II subunit RBP 96.74
d2c35b194 C-terminal domain of RNA polymerase II subunit RBP 96.71
d2ix0a190 Exoribonuclease 2, RNB {Escherichia coli [TaxId: 5 96.7
d1kl9a286 Eukaryotic initiation factor 2alpha, eIF2alpha, N- 96.28
d2ix0a279 Exoribonuclease 2, RNB {Escherichia coli [TaxId: 5 95.99
d2ahob284 Eukaryotic initiation factor 2alpha, eIF2alpha, N- 95.85
d1sroa_76 S1 RNA-binding domain of polyribonucleotide phosph 95.09
d1e3pa262 S1 RNA-binding domain of polyribonucleotide phosph 94.94
d2vnud195 Exosome complex exonuclease RRP44 {Saccharomyces c 92.93
d2ba0a183 S1-domain of exosome complex RNA-binding protein 1 92.35
d3bzka494 Tex S1-domain {Pseudomonas aeruginosa [TaxId: 287] 91.5
d2z0sa188 S1-domain of exosome complex RNA-binding protein 1 90.73
d2je6i187 S1-domain of exosome complex RNA-binding protein 1 90.67
d1mjca_69 Major cold shock protein {Escherichia coli [TaxId: 86.55
d2nn6h195 S1-domain of Ribosomal RNA-processing protein 4, R 85.17
d1wi5a_119 S1-domain of RRP5 protein homolog (PDCD11, KIAA018 82.77
>d2r7da2 b.40.4.16 (A:3-403) Ribonuclease II family protein DR0020 {Deinococcus radiodurans [TaxId: 1299]} Back     information, alignment and structure
class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: RNB domain-like
domain: Ribonuclease II family protein DR0020
species: Deinococcus radiodurans [TaxId: 1299]

Probab=100.00  E-value=8.4e-45  Score=393.20  Aligned_cols=264  Identities=20%  Similarity=0.250  Sum_probs=208.1

Q ss_pred             CCEEEEEEeecCCCCCCccEEEEEecCCCCChhhHHHHHhhcCCC---CCCCCcHHHHhcCCCCCCCCCC-----CC---
Q psy4856         280 GQRIVVAIDSWPRHSRYPQGHFVRALGPIGDKDTENEVLLLEHDV---PHSKFSDLVLSYLPPMPWEKST-----GR---  348 (654)
Q Consensus       280 ~~rvvV~Id~Wp~~s~~P~Ghiv~~LG~~gd~~~E~~~iL~e~~i---~~~~Fs~~vl~~l~~~~~~i~~-----~R---  348 (654)
                      |++|.|++..+   ++.|.|+|+++||..++++++...++ +.|+   ...+||+.+..++....+.+++     +|   
T Consensus         7 ~~~v~ve~~~~---~~~~~~~i~~~lg~~~~~~~~~~~l~-~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~R~Dl   82 (401)
T d2r7da2           7 AQRTEVELLAR---GRADKSRVLRDLKLPETPEAAHALLL-RLGVWDEARTPYADRLRAALNAVELPVPDFDPAEERLDL   82 (401)
T ss_dssp             HHHHHHHHHHT---TSCSCCHHHHHTTCCCSHHHHHHHHH-HHTSSCTTCCCHHHHTTCCCSCCCCCCCCCCTTSCCEEC
T ss_pred             CCEEEEEEccc---CCCCCccchhhcCCCCCcchHHHHHH-HhCCCcccccCCcHHHHHHHhhccCCCCCcccccccccc
Confidence            45666666544   46899999999999999999887654 5554   2345898988888877766543     45   


Q ss_pred             ---ceeeeCCCCce---------eccCCeEEEEEEe-ccCCccCCCc----------eeeec-c-----CCcchhhhHHH
Q psy4856         349 ---PWCSGTSIGLS---------QISTGVISVGLEQ-GFPSLLKPRT----------TFVFY-D-----FPRTTRTNFIL  399 (654)
Q Consensus       349 ---~~~tIDp~~~~---------~l~~g~~~lgVHI-DVs~~V~~~s----------tsvYL-d-----LP~~Ls~~lcS  399 (654)
                         ++|||||++|+         .+++|+|+||||| |||+||++||          ||+|| +     ||+.|+++ ||
T Consensus        83 r~l~~~tID~~~a~D~DDAisie~~~~g~~~l~VHIADVs~~v~~~s~Ld~eA~~R~tSvYlp~~~~pMLP~~ls~~-~S  161 (401)
T d2r7da2          83 THLPTFAIDDEGNQDPDDAVGVEDLGGGLTRLWVHVADVAALVAPDSPLDLEARARGATLYLPDRTIGMLPDELVAK-AG  161 (401)
T ss_dssp             TTSCEEEEECTTCCCCCEEEEEEECSTTCEEEEEEEECGGGTCCTTSHHHHHHHHHCBCEECSSCEECSSCHHHHHH-HS
T ss_pred             ccCcEEEECCCCCcccccceeEEEcCCCcEEEEEeecchhhhccCCChHHHHHHHhCccccCCCCeeecCcHHHhcc-cc
Confidence               99999999998         3467899999999 9999999999          99999 7     99999976 99


Q ss_pred             H------Hhh------------------------------h------------------------------hhcccccCC
Q psy4856         400 L------FLF------------------------------Q------------------------------AVYFSSGML  413 (654)
Q Consensus       400 L------la~------------------------------q------------------------------al~l~~pe~  413 (654)
                      |      +||                              +                              |+.|+.|+.
T Consensus       162 L~~~~~r~als~~~~ld~~g~i~~~~~~~s~I~~~~ltY~~v~~~~~~~~~~l~~l~~~~~~l~~~R~~~gal~~~~~~~  241 (401)
T d2r7da2         162 LGLHEVSPALSICLDLDPDGNAEAVDVLLTRVKVQRLAYQEAQARLEAGEEPFVTLARLARASRRLREGEGALSIDLPEV  241 (401)
T ss_dssp             TTSSSSEEEEEEEEEECTTSCEEEEEEEEEEECEEEEEHHHHHHHHHTTCTTHHHHHHHHHHHHHHHHHTTCCCCCCCCE
T ss_pred             cccCccccccceEEEEccCCCcccceEEEEEEEEeeccHHHHHHHhhccchhHHHHHHHHHHHHHHHHhcCCcccccccc
Confidence            9      332                              0                              688888872


Q ss_pred             C-----------c---cc----------HHHHHHHHHHHh-cCCceeeeCCChHHHHHHHHhhcCCCchhHHHHHHhhcc
Q psy4856         414 Q-----------Q---SD----------FHHYGLATPIYT-HFTSPIRRYADIIVHRLLAACIGADATYPSLLDKKASTA  468 (654)
Q Consensus       414 ~-----------~---~d----------~AN~~vA~~~~~-~~p~l~R~h~~p~l~~~l~~~~g~~~~~~~llr~l~~m~  468 (654)
                      .           +   .+          +||.++|+++.+ ++|++||+|+.|+ .+      .....+..++...+.|.
T Consensus       242 ~~~~d~~~~~~~~~~~~~s~~lVeE~MilAN~~~A~~l~~~~~p~iyR~~~~p~-~~------~~~~~l~~~~~~~~~~~  314 (401)
T d2r7da2         242 RVKADETGASVFPLPKPEMRTVVQECMTLAGWGTAIFADDNEIPLPFATQDYPT-RE------VAGDTLPAMWARRKTLA  314 (401)
T ss_dssp             EEEEETTEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHTTCCCCEEEECCCS-SC------CCCCSHHHHHHHHHHCC
T ss_pred             eeeeccCCcccceeeccchhhhhHhHhhhcchhHHHHHhhccCCccccccCCCc-hh------hhhccHHHHHHhhhhcc
Confidence            2           0   01          499999999998 5899999999883 11      11223444444445565


Q ss_pred             cccccCCccccccCCCCCcccccCccccchhHHHHHHHHHHHhCCCCCCCccCHHHHHHHHhcCCCCCCcCcccccCCCC
Q psy4856         469 LCYNLVSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDKKASTALCYNLPGCTDIDDALHCRPLP  548 (654)
Q Consensus       469 ~~s~s~~~~~H~gLa~~~YTHfTSPIRRY~DLivHR~L~a~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~w~~~~~~~  548 (654)
                      ....++.+.+|||||++.|||||||||||+||+|||||+++|.+++    ..+.+.++.+|.                  
T Consensus       315 ~a~ys~~~~~H~gLgl~~YthfTSPIRRY~DLivhrqL~a~L~~~~----~~~~~~l~~~~~------------------  372 (401)
T d2r7da2         315 RTRFQPSPGPHHGMGLDLYAQATSPMRRYLDLVVHQQLRAFLAGRD----PLSSKVMAAHIA------------------  372 (401)
T ss_dssp             CEEEESSCCCBTTTTBSCCCCCSCTTTBHHHHHHHHHHHHHHTTCC----CCCHHHHHHHHH------------------
T ss_pred             eeeEcCCCCcChhccCCceeeeCChhhhhHHHHHHHHHHHHHcCCC----CCCHHHHHHHHH------------------
Confidence            1111578999999999999999999999999999999999998764    235666766666                  


Q ss_pred             CCCcccccCCccCccchhhHHHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHHHhhccc
Q psy4856         549 NGNIEVTYPSLGMSQSCKDIQACLLELGYNLNYRNRQAQYAGRASVALHTHLFFRRKS  606 (654)
Q Consensus       549 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ln~r~r~A~~aer~~~~l~~~~~l~~~~  606 (654)
                                                   ++|.+++.++++||++.++|++.||+++.
T Consensus       373 -----------------------------~~~~~~~~~~~~er~~~~~~~~~yl~~~p  401 (401)
T d2r7da2         373 -----------------------------ESQMNADATRQAERLSRRHHTLRFIAAQP  401 (401)
T ss_dssp             -----------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHTCT
T ss_pred             -----------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHhCc
Confidence                                         89999999999999999999999999863
>d2vnud4 b.40.4.16 (D:495-910) Exosome complex exonuclease RRP44 {Saccharomyces cerevisiae [TaxId: 4932]} Back     information, alignment and structure
>d2ix0a4 b.40.4.16 (A:173-557) Exoribonuclease 2, RNB {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2vnud3 b.40.4.5 (D:252-399) Exosome complex exonuclease RRP44 {Saccharomyces cerevisiae [TaxId: 4932]} Back     information, alignment and structure
>d2vnud1 b.40.4.5 (D:400-494) Exosome complex exonuclease RRP44 {Saccharomyces cerevisiae [TaxId: 4932]} Back     information, alignment and structure
>d2ix0a1 b.40.4.5 (A:83-172) Exoribonuclease 2, RNB {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2ix0a2 b.40.4.5 (A:4-82) Exoribonuclease 2, RNB {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2ix0a3 b.40.4.5 (A:558-644) Exoribonuclease 2, RNB {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1go3e1 b.40.4.5 (E:79-184) C-terminal domain of RNA polymerase II subunit RBP7 (RpoE) {Archaeon Methanococcus jannaschii [TaxId: 2190]} Back     information, alignment and structure
>d1y14b1 b.40.4.5 (B:81-171) C-terminal domain of RNA polymerase II subunit RBP7 (RpoE) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d2c35b1 b.40.4.5 (B:78-171) C-terminal domain of RNA polymerase II subunit RBP7 (RpoE) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ix0a1 b.40.4.5 (A:83-172) Exoribonuclease 2, RNB {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1kl9a2 b.40.4.5 (A:3-88) Eukaryotic initiation factor 2alpha, eIF2alpha, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ix0a2 b.40.4.5 (A:4-82) Exoribonuclease 2, RNB {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2ahob2 b.40.4.5 (B:1-84) Eukaryotic initiation factor 2alpha, eIF2alpha, N-terminal domain {Sulfolobus solfataricus [TaxId: 2287]} Back     information, alignment and structure
>d1sroa_ b.40.4.5 (A:) S1 RNA-binding domain of polyribonucleotide phosphorylase, PNPase {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1e3pa2 b.40.4.5 (A:656-717) S1 RNA-binding domain of polyribonucleotide phosphorylase, PNPase {Streptomyces antibioticus [TaxId: 1890]} Back     information, alignment and structure
>d2vnud1 b.40.4.5 (D:400-494) Exosome complex exonuclease RRP44 {Saccharomyces cerevisiae [TaxId: 4932]} Back     information, alignment and structure
>d2ba0a1 b.40.4.5 (A:53-135) S1-domain of exosome complex RNA-binding protein 1, ECR1 {Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d3bzka4 b.40.4.5 (A:637-730) Tex S1-domain {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d2z0sa1 b.40.4.5 (A:60-147) S1-domain of exosome complex RNA-binding protein 1, ECR1 {Aeropyrum pernix [TaxId: 56636]} Back     information, alignment and structure
>d2je6i1 b.40.4.5 (I:66-152) S1-domain of exosome complex RNA-binding protein 1, ECR1 {Sulfolobus solfataricus [TaxId: 2287]} Back     information, alignment and structure
>d1mjca_ b.40.4.5 (A:) Major cold shock protein {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2nn6h1 b.40.4.5 (H:73-167) S1-domain of Ribosomal RNA-processing protein 4, RRP4 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1wi5a_ b.40.4.5 (A:) S1-domain of RRP5 protein homolog (PDCD11, KIAA0185) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure