Citrus Sinensis ID: 028091

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----
MEFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDRMRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQVCLKFSSSFFSLLISQRP
cccccccccccccccccccccEEEEEccccccccEEEEEEccEEEEEEEEcccccccccccccccEEEEEEEEEEcccccccccccccccHHHHHHHHHHHHHHHHHccccccccEEEEEEEEEEccccHHHHHHHHHHHHHHHcccccccEEEEEEEEEEccEEEEEccccccccccccEEEEEEcccccEEEEEEEEcccHHHHHHHHHccc
cEEEEcccccccccccccEEEEEEEEcEccccccEEEEEcccEEEEEEEEccccccccccccccccEEEEEEcccccccccccccccccHHHHHHHHHHHcccccccccccccccEEEEEEEEEcccccccHHHHHHHHHHHHHccccccccEEEEEEEEEccEEEEcccccHHHcccccccEEEEccHcHEEEEEEcccccHHHHHHHHHccc
mefvspeglrldgrrptEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAvygprevqnksqqmSDQALVRCEYSmanfstgdrmrkpkgdrrsTEISLVIRQTMEACIlthlmprsQIDIFVQVLqadggtrsACINAATLAlqdagipmrdivtscsagylnstplldlnyvedsaggpdvtvgilptLDKVTLLQVCLKFSSSFFSLLISQRP
mefvspeglrldgrrpteMRQLRAEIGnvakadgsavFEMGNTKVIAAVYgprevqnksqqmsdqALVRCEYSManfstgdrmrkpkgdrrsTEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQVCLKFSSSffsllisqrp
MEFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDRMRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQVClkfsssffsllisQRP
********************************DGSAVFEMGNTKVIAAVYG*****************RC************************ISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQVCLKFSSSFFSLLI****
MEFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGP**************LVRCEYSMA**********************VIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQVCLKFSSSFFSLLIS***
MEFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPRE*********DQALVRCEYSMANFSTG*************EISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQVCLKFSSSFFSLLISQRP
MEFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDRMRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQVCLKFSSSFFSLLISQR*
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MEFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDRMRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQVCLKFSSSFFSLLISQRP
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 ?
Query214 2.2.26 [Sep-21-2011]
Q921I9245 Exosome complex component yes no 0.920 0.804 0.565 3e-64
Q7YRA3245 Exosome complex component yes no 0.920 0.804 0.560 1e-63
Q9NPD3245 Exosome complex component yes no 0.920 0.804 0.560 2e-63
Q5JIR6249 Probable exosome complex yes no 0.915 0.787 0.497 2e-52
B6YSI2249 Probable exosome complex yes no 0.915 0.787 0.497 2e-51
Q8U0L9250 Probable exosome complex yes no 0.915 0.784 0.497 2e-51
Q975G8243 Probable exosome complex yes no 0.925 0.814 0.487 3e-51
C5A2B9249 Probable exosome complex yes no 0.957 0.823 0.470 4e-51
Q8TYC1239 Probable exosome complex yes no 0.906 0.811 0.507 6e-51
Q9V119249 Probable exosome complex yes no 0.915 0.787 0.487 1e-50
>sp|Q921I9|EXOS4_MOUSE Exosome complex component RRP41 OS=Mus musculus GN=Exosc4 PE=2 SV=3 Back     alignment and function desciption
 Score =  244 bits (623), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 112/198 (56%), Positives = 155/198 (78%), Gaps = 1/198 (0%)

Query: 1   MEFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQ-NKS 59
           +E +S +G R+DGRR  E+R+++A +G  A+ADGSA  E GNTK +A VYGP E++ ++S
Sbjct: 4   LELLSDQGYRIDGRRAGELRKIQARMGVFAQADGSAYIEQGNTKALAVVYGPHEIRGSRS 63

Query: 60  QQMSDQALVRCEYSMANFSTGDRMRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDI 119
           + + D+ALV C+YS A FSTG+R R+P GDR+S E+ L +RQT EA ILT L PRSQIDI
Sbjct: 64  RALPDRALVNCQYSSATFSTGERKRRPHGDRKSCEMGLQLRQTFEAAILTQLHPRSQIDI 123

Query: 120 FVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLLDLNYVEDSAGGP 179
           +VQVLQADGGT +AC+NAATLA+ DAGIPMRD V +CSAG+++ T L DL++VE++AGGP
Sbjct: 124 YVQVLQADGGTYAACVNAATLAVMDAGIPMRDFVCACSAGFVDGTALADLSHVEEAAGGP 183

Query: 180 DVTVGILPTLDKVTLLQV 197
            + + +LP   ++ LL++
Sbjct: 184 QLALALLPASGQIALLEM 201
Non-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. The catalytic inactive RNA exosome core complex of 9 subunits (Exo-9) is proposed to play a pivotal role in the binding and presentation of RNA for ribonucleolysis, and to serve as a scaffold for the association with catalytic subunits and accessory proteins or complexes. EXOSC4 binds to ARE-containing RNAs.
Mus musculus (taxid: 10090)
>sp|Q7YRA3|EXOS4_BOVIN Exosome complex component RRP41 OS=Bos taurus GN=EXOSC4 PE=2 SV=3 Back     alignment and function description
>sp|Q9NPD3|EXOS4_HUMAN Exosome complex component RRP41 OS=Homo sapiens GN=EXOSC4 PE=1 SV=3 Back     alignment and function description
>sp|Q5JIR6|ECX1_PYRKO Probable exosome complex exonuclease 1 OS=Pyrococcus kodakaraensis (strain ATCC BAA-918 / JCM 12380 / KOD1) GN=TK1634 PE=3 SV=1 Back     alignment and function description
>sp|B6YSI2|ECX1_THEON Probable exosome complex exonuclease 1 OS=Thermococcus onnurineus (strain NA1) GN=TON_0030 PE=3 SV=1 Back     alignment and function description
>sp|Q8U0L9|ECX1_PYRFU Probable exosome complex exonuclease 1 OS=Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1) GN=PF1568 PE=3 SV=1 Back     alignment and function description
>sp|Q975G8|ECX1_SULTO Probable exosome complex exonuclease 1 OS=Sulfolobus tokodaii (strain DSM 16993 / JCM 10545 / NBRC 100140 / 7) GN=STK_04430 PE=3 SV=2 Back     alignment and function description
>sp|C5A2B9|ECX1_THEGJ Probable exosome complex exonuclease 1 OS=Thermococcus gammatolerans (strain DSM 15229 / JCM 11827 / EJ3) GN=TGAM_2036 PE=3 SV=1 Back     alignment and function description
>sp|Q8TYC1|ECX1_METKA Probable exosome complex exonuclease 1 OS=Methanopyrus kandleri (strain AV19 / DSM 6324 / JCM 9639 / NBRC 100938) GN=MK0381 PE=3 SV=1 Back     alignment and function description
>sp|Q9V119|ECX1_PYRAB Probable exosome complex exonuclease 1 OS=Pyrococcus abyssi (strain GE5 / Orsay) GN=PYRAB06100 PE=1 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query214
225454436241 PREDICTED: exosome complex component RRP 0.962 0.854 0.902 1e-105
255579328241 Exosome complex exonuclease RRP41, putat 0.962 0.854 0.893 1e-103
357512489241 Exosome complex exonuclease RRP41 [Medic 0.939 0.834 0.905 1e-103
356562860241 PREDICTED: exosome complex component RRP 0.920 0.817 0.908 1e-102
224130470241 predicted protein [Populus trichocarpa] 0.962 0.854 0.883 1e-102
356573193241 PREDICTED: exosome complex component RRP 0.920 0.817 0.903 1e-101
449451735241 PREDICTED: exosome complex component RRP 0.962 0.854 0.873 1e-101
255644780190 unknown [Glycine max] 0.883 0.994 0.910 3e-98
294464242243 unknown [Picea sitchensis] 0.981 0.864 0.785 1e-93
357132600242 PREDICTED: exosome complex component RRP 0.981 0.867 0.792 1e-91
>gi|225454436|ref|XP_002280302.1| PREDICTED: exosome complex component RRP41 [Vitis vinifera] gi|147867252|emb|CAN81194.1| hypothetical protein VITISV_022853 [Vitis vinifera] gi|297745390|emb|CBI40470.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  385 bits (988), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 186/206 (90%), Positives = 193/206 (93%)

Query: 1   MEFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQ 60
           MEFVSPEGLRLDGRRP EMRQ+R EIG VAKADGSA FEMGNTKVIAAVYGPREV+N+SQ
Sbjct: 1   MEFVSPEGLRLDGRRPMEMRQIRGEIGAVAKADGSAFFEMGNTKVIAAVYGPREVENRSQ 60

Query: 61  QMSDQALVRCEYSMANFSTGDRMRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIF 120
           Q+SDQALVRCEY+MANFSTGDRMRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIF
Sbjct: 61  QISDQALVRCEYTMANFSTGDRMRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIF 120

Query: 121 VQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLLDLNYVEDSAGGPD 180
           VQVLQADGGTRSACINAATLAL DAGIPMRD+VTSCSAGYLNSTPLLDLNYVEDSAGGPD
Sbjct: 121 VQVLQADGGTRSACINAATLALADAGIPMRDLVTSCSAGYLNSTPLLDLNYVEDSAGGPD 180

Query: 181 VTVGILPTLDKVTLLQVCLKFSSSFF 206
           VTVGILP LDKVTLLQ+  K     F
Sbjct: 181 VTVGILPKLDKVTLLQMDAKLPMDIF 206

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255579328|ref|XP_002530509.1| Exosome complex exonuclease RRP41, putative [Ricinus communis] gi|223529966|gb|EEF31893.1| Exosome complex exonuclease RRP41, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|357512489|ref|XP_003626533.1| Exosome complex exonuclease RRP41 [Medicago truncatula] gi|355501548|gb|AES82751.1| Exosome complex exonuclease RRP41 [Medicago truncatula] Back     alignment and taxonomy information
>gi|356562860|ref|XP_003549686.1| PREDICTED: exosome complex component RRP41-like [Glycine max] Back     alignment and taxonomy information
>gi|224130470|ref|XP_002320845.1| predicted protein [Populus trichocarpa] gi|118489833|gb|ABK96716.1| unknown [Populus trichocarpa x Populus deltoides] gi|222861618|gb|EEE99160.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356573193|ref|XP_003554748.1| PREDICTED: exosome complex component RRP41-like [Glycine max] Back     alignment and taxonomy information
>gi|449451735|ref|XP_004143616.1| PREDICTED: exosome complex component RRP41-like [Cucumis sativus] gi|449516461|ref|XP_004165265.1| PREDICTED: exosome complex component RRP41-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|255644780|gb|ACU22892.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|294464242|gb|ADE77635.1| unknown [Picea sitchensis] Back     alignment and taxonomy information
>gi|357132600|ref|XP_003567917.1| PREDICTED: exosome complex component RRP41-like [Brachypodium distachyon] 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 ?
Query214
TAIR|locus:2076710241 RRP41 "AT3G61620" [Arabidopsis 0.915 0.813 0.833 1.5e-81
MGI|MGI:1923576245 Exosc4 "exosome component 4" [ 0.920 0.804 0.565 1.2e-58
RGD|1310986245 Exosc4 "exosome component 4" [ 0.920 0.804 0.565 1.2e-58
UNIPROTKB|Q7YRA3245 EXOSC4 "Exosome complex compon 0.920 0.804 0.560 5.1e-58
UNIPROTKB|E2RIM3245 EXOSC4 "Uncharacterized protei 0.920 0.804 0.560 5.1e-58
UNIPROTKB|Q9NPD3245 EXOSC4 "Exosome complex compon 0.920 0.804 0.560 5.1e-58
UNIPROTKB|F1RSL0245 EXOSC4 "Uncharacterized protei 0.920 0.804 0.550 7.5e-57
ZFIN|ZDB-GENE-040426-1702245 exosc4 "exosome component 4" [ 0.920 0.804 0.545 1.2e-56
FB|FBgn0032487246 Ski6 "Ski6" [Drosophila melano 0.897 0.780 0.467 5.6e-45
WB|WBGene00007201240 exos-4.1 [Caenorhabditis elega 0.915 0.816 0.416 8.7e-40
TAIR|locus:2076710 RRP41 "AT3G61620" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 818 (293.0 bits), Expect = 1.5e-81, P = 1.5e-81
 Identities = 165/198 (83%), Positives = 179/198 (90%)

Query:     1 MEFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQ 60
             ME+V+PEGLRLDGRR  EMRQ+ AE+G V+KADGSAVFEMGNTKVIAAVYGPRE+QNKSQ
Sbjct:     1 MEYVNPEGLRLDGRRFNEMRQIVAEVGVVSKADGSAVFEMGNTKVIAAVYGPREIQNKSQ 60

Query:    61 QM-SDQALVRCEYSMANFSTGDRMRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDI 119
             Q  +D A+V CEYSMA FSTGDR R+ K DRRSTE+SLVIRQTMEACILT LMP SQIDI
Sbjct:    61 QKKNDHAVVLCEYSMAQFSTGDR-RRQKFDRRSTELSLVIRQTMEACILTELMPHSQIDI 119

Query:   120 FVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLLDLNYVEDSAGGP 179
             F+QVLQADGGTRSACINAATLAL DAGIPMRD+  SCSAGYLNSTPLLDLNYVEDSAGG 
Sbjct:   120 FLQVLQADGGTRSACINAATLALADAGIPMRDLAVSCSAGYLNSTPLLDLNYVEDSAGGA 179

Query:   180 DVTVGILPTLDKVTLLQV 197
             DVTVGILP LDKV+LLQ+
Sbjct:   180 DVTVGILPKLDKVSLLQM 197
GO:0000175 "3'-5'-exoribonuclease activity" evidence=ISS
GO:0003723 "RNA binding" evidence=IEA;ISS
GO:0005737 "cytoplasm" evidence=ISM
GO:0006396 "RNA processing" evidence=IEA;ISS
GO:0005829 "cytosol" evidence=IDA
MGI|MGI:1923576 Exosc4 "exosome component 4" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
RGD|1310986 Exosc4 "exosome component 4" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|Q7YRA3 EXOSC4 "Exosome complex component RRP41" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|E2RIM3 EXOSC4 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|Q9NPD3 EXOSC4 "Exosome complex component RRP41" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|F1RSL0 EXOSC4 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-040426-1702 exosc4 "exosome component 4" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
FB|FBgn0032487 Ski6 "Ski6" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
WB|WBGene00007201 exos-4.1 [Caenorhabditis elegans (taxid:6239)] 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

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q8TYC1ECX1_METKA3, ., 1, ., 1, 3, ., -0.50760.90650.8117yesno
B8I1A8RNPH_CLOCE2, ., 7, ., 7, ., 5, 60.32240.91120.8125yesno
O42872RRP41_SCHPONo assigned EC number0.45680.91580.8099yesno
Q9YC03ECX1_AERPE3, ., 1, ., 1, 3, ., -0.430.92990.8089yesno
A1RST0ECX1_PYRIL3, ., 1, ., 1, 3, ., -0.43710.92990.8089yesno
A3MUP1ECX1_PYRCJ3, ., 1, ., 1, 3, ., -0.46230.92990.8089yesno
Q975G8ECX1_SULTO3, ., 1, ., 1, 3, ., -0.48740.92520.8148yesno
A9A5C9ECX1_NITMS3, ., 1, ., 1, 3, ., -0.43140.91580.8032yesno
A4WM67ECX1_PYRAR3, ., 1, ., 1, 3, ., -0.44220.92990.8089yesno
Q8ZVM9ECX1_PYRAE3, ., 1, ., 1, 3, ., -0.45220.92990.8089yesno
Q9NPD3EXOS4_HUMANNo assigned EC number0.56060.92050.8040yesno
Q7YRA3EXOS4_BOVINNo assigned EC number0.56060.92050.8040yesno
Q921I9EXOS4_MOUSENo assigned EC number0.56560.92050.8040yesno
C5A2B9ECX1_THEGJ3, ., 1, ., 1, 3, ., -0.47080.95790.8232yesno
Q17533EXOS4_CAEELNo assigned EC number0.41620.91580.8166yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer3.1.13LOW CONFIDENCE prediction!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
GSVIVG00026977001
SubName- Full=Putative uncharacterized protein (Chromosome chr15 scaffold_40, whole genome shotgun sequence); (241 aa)
(Vitis vinifera)
Predicted Functional Partners:
GSVIVG00023648001
SubName- Full=Chromosome chr7 scaffold_31, whole genome shotgun sequence; (320 aa)
• ••••• 0.991
GSVIVG00032741001
SubName- Full=Chromosome chr4 scaffold_6, whole genome shotgun sequence; (287 aa)
• ••••••0.987
GSVIVG00031795001
SubName- Full=Chromosome chr18 scaffold_59, whole genome shotgun sequence; (431 aa)
• ••••• 0.985
GSVIVG00016075001
SubName- Full=Chromosome chr17 scaffold_12, whole genome shotgun sequence; (237 aa)
• ••••• 0.983
GSVIVG00026698001
SubName- Full=Chromosome chr4 scaffold_39, whole genome shotgun sequence; (200 aa)
  ••••• 0.979
GSVIVG00019329001
SubName- Full=Chromosome chr7 scaffold_20, whole genome shotgun sequence; (943 aa)
   •••• 0.943
GSVIVG00020457001
SubName- Full=Chromosome chr5 scaffold_2, whole genome shotgun sequence; (208 aa)
•  •    0.864
GSVIVG00032429001
SubName- Full=Chromosome chr4 scaffold_6, whole genome shotgun sequence; (243 aa)
  ••••••0.830
GSVIVG00019030001
SubName- Full=Chromosome chr15 scaffold_19, whole genome shotgun sequence; (103 aa)
•       0.798
GSVIVG00014313001
SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (358 aa)
•  •  • 0.783

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query214
cd11370226 cd11370, RNase_PH_RRP41, RRP41 subunit of eukaryot 1e-126
PRK03983244 PRK03983, PRK03983, exosome complex exonuclease Rr 6e-86
cd11366214 cd11366, RNase_PH_archRRP41, RRP41 subunit of arch 3e-78
COG0689230 COG0689, Rph, RNase PH [Translation, ribosomal str 4e-77
TIGR02065230 TIGR02065, ECX1, archaeal exosome-like complex exo 1e-76
cd11371210 cd11371, RNase_PH_MTR3, MTR3 subunit of eukaryotic 1e-56
pfam01138129 pfam01138, RNase_PH, 3' exoribonuclease family, do 1e-44
cd11358218 cd11358, RNase_PH, RNase PH-like 3'-5' exoribonucl 2e-42
cd11372199 cd11372, RNase_PH_RRP46, RRP46 subunit of eukaryot 3e-39
cd11362227 cd11362, RNase_PH_bact, Ribonuclease PH 9e-29
PRK00173238 PRK00173, rph, ribonuclease PH; Reviewed 3e-28
TIGR01966236 TIGR01966, RNasePH, ribonuclease PH 6e-27
TIGR02696 719 TIGR02696, pppGpp_PNP, guanosine pentaphosphate sy 3e-11
cd11365256 cd11365, RNase_PH_archRRP42, RRP42 subunit of arch 3e-10
TIGR03591 684 TIGR03591, polynuc_phos, polyribonucleotide nucleo 9e-10
COG1185 692 COG1185, Pnp, Polyribonucleotide nucleotidyltransf 1e-09
PLN00207 891 PLN00207, PLN00207, polyribonucleotide nucleotidyl 2e-09
PRK04282271 PRK04282, PRK04282, exosome complex RNA-binding pr 2e-08
PRK11824 693 PRK11824, PRK11824, polynucleotide phosphorylase/p 3e-08
COG2123272 COG2123, COG2123, RNase PH-related exoribonuclease 1e-07
cd11364223 cd11364, RNase_PH_PNPase_2, Polyribonucleotide nuc 3e-07
cd11368259 cd11368, RNase_PH_RRP45, RRP45 subunit of eukaryot 1e-06
pfam0372568 pfam03725, RNase_PH_C, 3' exoribonuclease family, 3e-06
cd11369261 cd11369, RNase_PH_RRP43, RRP43 subunit of eukaryot 4e-06
cd11367272 cd11367, RNase_PH_RRP42, RRP42 subunit of eukaryot 3e-04
>gnl|CDD|206775 cd11370, RNase_PH_RRP41, RRP41 subunit of eukaryotic exosome Back     alignment and domain information 
 Score =  353 bits (909), Expect = e-126
 Identities = 134/190 (70%), Positives = 157/190 (82%)

Query: 8   GLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQAL 67
           GLRLDGRRP E+R++R  IG  + ADGSA  E GNTKV+AAVYGP E +N+SQ + D+A+
Sbjct: 1   GLRLDGRRPNELRRIRCRIGVFSSADGSAYLEQGNTKVLAAVYGPHEPRNRSQALHDRAV 60

Query: 68  VRCEYSMANFSTGDRMRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIFVQVLQAD 127
           V CEYSMA FSTG+R R+ KGDRRSTE+SL IRQT EA ILTHL PRSQIDI+VQVLQAD
Sbjct: 61  VNCEYSMATFSTGERKRRGKGDRRSTELSLAIRQTFEAVILTHLYPRSQIDIYVQVLQAD 120

Query: 128 GGTRSACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLLDLNYVEDSAGGPDVTVGILP 187
           GG  +ACINAATLAL DAGIPM+D V +CSAGYL+STPLLDLNY+E+S   PD+TV +LP
Sbjct: 121 GGLLAACINAATLALIDAGIPMKDYVCACSAGYLDSTPLLDLNYLEESGDLPDLTVAVLP 180

Query: 188 TLDKVTLLQV 197
             DKV LLQ+
Sbjct: 181 KSDKVVLLQM 190

The RRP41 subunit of eukaryotic exosome is a member of the RNase_PH family, named after the bacterial Ribonuclease PH, a 3'-5' exoribonuclease. Structurally all members of this family form hexameric rings (trimers of Rrp41-Rrp45, Rrp46-Rrp43, and Mtr3-Rrp42 dimers). The eukaryotic exosome core is composed of six individually encoded RNase PH-like subunits and three additional proteins (Rrp4, Csl4 and Rrp40) that form a stable cap and contain RNA-binding domains. The RNase PH-like subunits are no longer phosphorolytic enzymes, the exosome directly associates with Rrp44 and Rrp6, hydrolytic exoribonucleases related to bacterial RNase II/R and RNase D. The exosome plays an important role in RNA turnover. It plays a crucial role in the maturation of stable RNA species such as rRNA, snRNA and snoRNA, quality control of mRNA, and the degradation of RNA processing by-products and non-coding transcripts. Length = 226
>gnl|CDD|235187 PRK03983, PRK03983, exosome complex exonuclease Rrp41; Provisional Back     alignment and domain information
>gnl|CDD|206771 cd11366, RNase_PH_archRRP41, RRP41 subunit of archaeal exosome Back     alignment and domain information
>gnl|CDD|223761 COG0689, Rph, RNase PH [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|131120 TIGR02065, ECX1, archaeal exosome-like complex exonuclease 1 Back     alignment and domain information
>gnl|CDD|206776 cd11371, RNase_PH_MTR3, MTR3 subunit of eukaryotic exosome Back     alignment and domain information
>gnl|CDD|216323 pfam01138, RNase_PH, 3' exoribonuclease family, domain 1 Back     alignment and domain information
>gnl|CDD|206766 cd11358, RNase_PH, RNase PH-like 3'-5' exoribonucleases Back     alignment and domain information
>gnl|CDD|206777 cd11372, RNase_PH_RRP46, RRP46 subunit of eukaryotic exosome Back     alignment and domain information
>gnl|CDD|206767 cd11362, RNase_PH_bact, Ribonuclease PH Back     alignment and domain information
>gnl|CDD|178914 PRK00173, rph, ribonuclease PH; Reviewed Back     alignment and domain information
>gnl|CDD|131021 TIGR01966, RNasePH, ribonuclease PH Back     alignment and domain information
>gnl|CDD|131743 TIGR02696, pppGpp_PNP, guanosine pentaphosphate synthetase I/polynucleotide phosphorylase Back     alignment and domain information
>gnl|CDD|206770 cd11365, RNase_PH_archRRP42, RRP42 subunit of archaeal exosome Back     alignment and domain information
>gnl|CDD|234271 TIGR03591, polynuc_phos, polyribonucleotide nucleotidyltransferase Back     alignment and domain information
>gnl|CDD|224106 COG1185, Pnp, Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|215104 PLN00207, PLN00207, polyribonucleotide nucleotidyltransferase; Provisional Back     alignment and domain information
>gnl|CDD|235268 PRK04282, PRK04282, exosome complex RNA-binding protein Rrp42; Provisional Back     alignment and domain information
>gnl|CDD|236995 PRK11824, PRK11824, polynucleotide phosphorylase/polyadenylase; Provisional Back     alignment and domain information
>gnl|CDD|225034 COG2123, COG2123, RNase PH-related exoribonuclease [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|206769 cd11364, RNase_PH_PNPase_2, Polyribonucleotide nucleotidyltransferase, repeat 2 Back     alignment and domain information
>gnl|CDD|206773 cd11368, RNase_PH_RRP45, RRP45 subunit of eukaryotic exosome Back     alignment and domain information
>gnl|CDD|217696 pfam03725, RNase_PH_C, 3' exoribonuclease family, domain 2 Back     alignment and domain information
>gnl|CDD|206774 cd11369, RNase_PH_RRP43, RRP43 subunit of eukaryotic exosome Back     alignment and domain information
>gnl|CDD|206772 cd11367, RNase_PH_RRP42, RRP42 subunit of eukaryotic exosome Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 214
TIGR02065230 ECX1 archaeal exosome-like complex exonuclease 1. 100.0
PRK03983244 exosome complex exonuclease Rrp41; Provisional 100.0
KOG1068245 consensus Exosomal 3'-5' exoribonuclease complex, 100.0
PRK00173238 rph ribonuclease PH; Reviewed 100.0
TIGR01966236 RNasePH ribonuclease PH. This bacterial enzyme, ri 100.0
COG0689230 Rph RNase PH [Translation, ribosomal structure and 100.0
COG2123272 RNase PH-related exoribonuclease [Translation, rib 100.0
PRK04282271 exosome complex RNA-binding protein Rrp42; Provisi 100.0
TIGR03591 684 polynuc_phos polyribonucleotide nucleotidyltransfe 100.0
PRK11824 693 polynucleotide phosphorylase/polyadenylase; Provis 100.0
KOG1614291 consensus Exosomal 3'-5' exoribonuclease complex, 100.0
TIGR02696 719 pppGpp_PNP guanosine pentaphosphate synthetase I/p 100.0
PLN00207 891 polyribonucleotide nucleotidyltransferase; Provisi 100.0
KOG1069217 consensus Exosomal 3'-5' exoribonuclease complex, 100.0
KOG1612288 consensus Exosomal 3'-5' exoribonuclease complex, 100.0
TIGR03591 684 polynuc_phos polyribonucleotide nucleotidyltransfe 100.0
KOG1613298 consensus Exosomal 3'-5' exoribonuclease complex, 100.0
PF01138132 RNase_PH: 3' exoribonuclease family, domain 1 This 99.98
PRK11824 693 polynucleotide phosphorylase/polyadenylase; Provis 99.97
KOG1067 760 consensus Predicted RNA-binding polyribonucleotide 99.94
PLN00207 891 polyribonucleotide nucleotidyltransferase; Provisi 99.94
COG1185 692 Pnp Polyribonucleotide nucleotidyltransferase (pol 99.92
TIGR02696 719 pppGpp_PNP guanosine pentaphosphate synthetase I/p 99.81
COG1185 692 Pnp Polyribonucleotide nucleotidyltransferase (pol 99.74
KOG1067 760 consensus Predicted RNA-binding polyribonucleotide 99.54
PF0372568 RNase_PH_C: 3' exoribonuclease family, domain 2 Th 99.33
>TIGR02065 ECX1 archaeal exosome-like complex exonuclease 1 Back     alignment and domain information 
Probab=100.00  E-value=2.8e-53  Score=347.96  Aligned_cols=210  Identities=47%  Similarity=0.761  Sum_probs=198.0

Q ss_pred             ccCCCCCcCCCCCCCCCcceEEEECCCCCCCeeEEEEeCCeEEEEEEECCccccccccCCCCceEEEEEEeecCCCcccc
Q 028091            3 FVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDR   82 (214)
Q Consensus         3 ~~~~~~~R~DgR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~V~~~V~gp~e~~~~~~~~~~~g~l~v~v~~~~~~~~~~   82 (214)
                      +|+++++|+|||.++|+|++++++|++++++|||++++|+|+|+|+|+||.+.+.+..+.|++|.++|+++++||++.++
T Consensus         2 ~~~~~~~R~DGR~~~e~R~~~~~~g~~~~a~GSa~~~~G~T~Vl~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~a~~~~   81 (230)
T TIGR02065         2 LILEDGVRLDGRKPDELRPIKIEAGVLKNADGSAYVEFGGTKIIAAVYGPREMHPRHLQLPDRAVLRVRYHMAPFSTDER   81 (230)
T ss_pred             cccCCCcCCCCCCcccccCeEEEECCCCCCCeEEEEEECCcEEEEEEeCCCccccccccCCCceEEEEEEEeCCcccCCc
Confidence            67899999999999999999999999999999999999999999999999988776666789999999999999998765


Q ss_pred             cCCCCCCcchHHHHHHHHHHHHHhhccCCCCCceEEEEEEEEecCCChHHHHHHHHHHHHHhCCCCCCCceEEEEEEeeC
Q 028091           83 MRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGYLN  162 (214)
Q Consensus        83 ~~~~~~~~~~~~l~~~l~~~l~~~i~~~~~p~~~i~i~v~Vl~~dG~l~~a~~~A~~~AL~~~gIp~~~~~~~vt~~~~~  162 (214)
                      ++ +.+++++.+++++|+++|++++.++.||++.|+|.++||++||++++|++||+++||.|+||||+++++++|+++++
T Consensus        82 ~~-~~~~~~~~~~s~~l~~~l~~~i~~~~~p~~~i~i~v~vl~~DG~~~~aai~aa~lAL~dagIp~~~~v~avtv~~~~  160 (230)
T TIGR02065        82 KR-PGPSRREIEISKVIREALEPAILLEQFPRTAIDVFIEVLQADAGTRCAGLTAASLALADAGIPMRDLVVGVAVGKVD  160 (230)
T ss_pred             cC-CCCCccHHHHHHHHHHHHHHHhChhhcCCeEEEEEEEEEEcCCCHHHHHHHHHHHHHHHcCCccccceeeEEEEEEC
Confidence            43 44678888999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CeEEEeCChhhhhcCCCcEEEEEcCCCCcEEEEEEeeccCHHHHHHHHhcC
Q 028091          163 STPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQVCLKFSSSFFSLLISQR  213 (214)
Q Consensus       163 ~~~l~DPt~~Ee~~~~~~~tv~~~~~~~~i~~~~~~G~~~~~~~~~~~~~~  213 (214)
                      +.+++|||.+||+.+.+.++|+++++.++|+++++.|.++.++++++++.|
T Consensus       161 ~~~v~Dpt~~Ee~~~~~~l~va~~~~~~~i~~i~~~g~~~~e~~~~~l~~a  211 (230)
T TIGR02065       161 GVVVLDLNEEEDMYGEADMPVAMMPKLGEITLLQLDGDMTPDEFRQALDLA  211 (230)
T ss_pred             CeEEECCCHHHhhcCCCceEEEEeCCCCCEEEEEEecCcCHHHHHHHHHHH
Confidence            999999999999999999999988888999999999999999999999875

This family contains the archaeal protein orthologous to the eukaryotic exosome protein Rrp41. It is somewhat more distantly related to the bacterial protein ribonuclease PH. An exosome-like complex has been demonstrated experimentally for the Archaea in Sulfolobus solfataricus, so members of this family are designated exosome complex exonuclease 1, after usage in SwissProt.
>PRK03983 exosome complex exonuclease Rrp41; Provisional Back     alignment and domain information
>KOG1068 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp41 and related exoribonucleases [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PRK00173 rph ribonuclease PH; Reviewed Back     alignment and domain information
>TIGR01966 RNasePH ribonuclease PH Back     alignment and domain information
>COG0689 Rph RNase PH [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>COG2123 RNase PH-related exoribonuclease [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PRK04282 exosome complex RNA-binding protein Rrp42; Provisional Back     alignment and domain information
>TIGR03591 polynuc_phos polyribonucleotide nucleotidyltransferase Back     alignment and domain information
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional Back     alignment and domain information
>KOG1614 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp45 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>TIGR02696 pppGpp_PNP guanosine pentaphosphate synthetase I/polynucleotide phosphorylase Back     alignment and domain information
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional Back     alignment and domain information
>KOG1069 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp46 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG1612 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp42 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>TIGR03591 polynuc_phos polyribonucleotide nucleotidyltransferase Back     alignment and domain information
>KOG1613 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp43 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PF01138 RNase_PH: 3' exoribonuclease family, domain 1 This Prosite family only includes Ribonuclease PH; InterPro: IPR001247 The PH (phosphorolytic) domain is responsible for 3'-5' exoribonuclease activity, although in some proteins this domain has lost its catalytic function Back     alignment and domain information
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional Back     alignment and domain information
>KOG1067 consensus Predicted RNA-binding polyribonucleotide nucleotidyltransferase [General function prediction only] Back     alignment and domain information
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional Back     alignment and domain information
>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>TIGR02696 pppGpp_PNP guanosine pentaphosphate synthetase I/polynucleotide phosphorylase Back     alignment and domain information
>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG1067 consensus Predicted RNA-binding polyribonucleotide nucleotidyltransferase [General function prediction only] Back     alignment and domain information
>PF03725 RNase_PH_C: 3' exoribonuclease family, domain 2 This Prosite family only includes Ribonuclease PH; InterPro: IPR015847 The PH (phosphorolytic) domain is responsible for 3'-5' exoribonuclease activity, although in some proteins this domain has lost its catalytic function 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 ?
Query214
2nn6_B249 Structure Of The Human Rna Exosome Composed Of Rrp4 2e-64
2pnz_A249 Crystal Structure Of The P. Abyssi Exosome Rnase Ph 1e-51
3l7z_B245 Crystal Structure Of The S. Solfataricus Archaeal E 2e-50
2br2_B248 Rnase Ph Core Of The Archaeal Exosome Length = 248 2e-50
2je6_B250 Structure Of A 9-Subunit Archaeal Exosome Length = 2e-49
2wnr_B240 The Structure Of Methanothermobacter Thermautotroph 5e-46
2ba0_F258 Archaeal Exosome Core Length = 258 4e-44
3m7n_D258 Archaeoglobus Fulgidus Exosome With Rna Bound To Th 4e-44
4ifd_B248 Crystal Structure Of An 11-subunit Eukaryotic Exoso 1e-35
2wp8_B246 Yeast Rrp44 Nuclease Length = 246 2e-35
1r6m_A239 Crystal Structure Of The Trna Processing Enzyme Rna 2e-18
1r6l_A239 Crystal Structure Of The Trna Processing Enzyme Rna 2e-17
1udn_A255 Crystal Structure Of The Trna Processing Enzyme Rna 3e-15
2nn6_D237 Structure Of The Human Rna Exosome Composed Of Rrp4 8e-15
2nn6_F272 Structure Of The Human Rna Exosome Composed Of Rrp4 9e-15
1udq_A255 Crystal Structure Of The Trna Processing Enzyme Rna 1e-14
1udo_A255 Crystal Structure Of The Trna Processing Enzyme Rna 2e-14
1uds_A255 Crystal Structure Of The Trna Processing Enzyme Rna 3e-14
3dd6_A255 Crystal Structure Of Rph, An Exoribonuclease From B 3e-14
3hkm_A246 Crystal Structure Of Rice(Oryza Sativa) Rrp46 Lengt 1e-12
1oyp_A245 Crystal Structure Of The Phosphorolytic Exoribonucl 3e-12
1oys_A245 Crystal Structure Of The Phosphorolytic Exoribonucl 5e-12
3b4t_A262 Crystal Structure Of Mycobacterium Tuberculosis Rna 9e-12
3krn_A222 Crystal Structure Of C. Elegans Cell-Death-Related 3e-11
4ifd_D245 Crystal Structure Of An 11-subunit Eukaryotic Exoso 4e-09
1e3p_A 757 Tungstate Derivative Of Streptomyces Antibioticus P 2e-07
4am3_A 717 Crystal Structure Of C. Crescentus Pnpase Bound To 4e-06
4aid_A 726 Crystal Structure Of C. Crescentus Pnpase Bound To 7e-06
4aim_A 726 Crystal Structure Of C. Crescentus Pnpase Bound To 8e-06
3h1c_A549 Crystal Structure Of Polynucleotide Phosphorylase ( 1e-05
3gcm_A549 Crystal Structure Of E. Coli Polynucleotide Phospho 1e-05
3cdj_A559 Crystal Structure Of The E. Coli KhS1 DOMAIN TRUNCA 1e-05
1e3h_A 757 Semet Derivative Of Streptomyces Antibioticus Pnpas 2e-05
3cdi_A 723 Crystal Structure Of E. Coli Pnpase Length = 723 2e-05
3u1k_A630 Crystal Structure Of Human Pnpase Length = 630 3e-05
2nn6_C278 Structure Of The Human Rna Exosome Composed Of Rrp4 1e-04
3l7z_A271 Crystal Structure Of The S. Solfataricus Archaeal E 3e-04
2br2_A275 Rnase Ph Core Of The Archaeal Exosome Length = 275 6e-04
2je6_A277 Structure Of A 9-Subunit Archaeal Exosome Length = 6e-04
>pdb|2NN6|B Chain B, Structure Of The Human Rna Exosome Composed Of Rrp41, Rrp45, Rrp46, Rrp43, Mtr3, Rrp42, Csl4, Rrp4, And Rrp40 Length = 249 Back     alignment and structure 
Iteration: 1

 Score =  241 bits (615), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 111/198 (56%), Positives = 155/198 (78%), Gaps = 1/198 (0%)
Query: 1   MEFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQ-NKS 59
           +E +S +G R+DGRR  E+R+++A +G  A+ADGSA  E GNTK +A VYGP E++ +++
Sbjct: 8   LELLSDQGYRVDGRRAGELRKIQARMGVFAQADGSAYIEQGNTKALAVVYGPHEIRGSRA 67
Query: 60  QQMSDQALVRCEYSMANFSTGDRMRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDI 119
           + + D+ALV C+YS A FSTG+R R+P GDR+S E+ L +RQT EA ILT L PRSQIDI
Sbjct: 68  RALPDRALVNCQYSSATFSTGERKRRPHGDRKSCEMGLQLRQTFEAAILTQLHPRSQIDI 127
Query: 120 FVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLLDLNYVEDSAGGP 179
           +VQVLQADGGT +AC+NAATLA+ DAGIPMRD V +CSAG+++ T L DL++VE++AGGP
Sbjct: 128 YVQVLQADGGTYAACVNAATLAVLDAGIPMRDFVCACSAGFVDGTALADLSHVEEAAGGP 187
Query: 180 DVTVGILPTLDKVTLLQV 197
            + + +LP   ++ LL++
Sbjct: 188 QLALALLPASGQIALLEM 205
>pdb|2PNZ|A Chain A, Crystal Structure Of The P. Abyssi Exosome Rnase Ph Ring Complexed With Udp And Gmp Length = 249 Back     alignment and structure
>pdb|3L7Z|B Chain B, Crystal Structure Of The S. Solfataricus Archaeal Exosome Length = 245 Back     alignment and structure
>pdb|2BR2|B Chain B, Rnase Ph Core Of The Archaeal Exosome Length = 248 Back     alignment and structure
>pdb|2JE6|B Chain B, Structure Of A 9-Subunit Archaeal Exosome Length = 250 Back     alignment and structure
>pdb|2WNR|B Chain B, The Structure Of Methanothermobacter Thermautotrophicus Exosome Core Assembly Length = 240 Back     alignment and structure
>pdb|2BA0|F Chain F, Archaeal Exosome Core Length = 258 Back     alignment and structure
>pdb|3M7N|D Chain D, Archaeoglobus Fulgidus Exosome With Rna Bound To The Active Site Length = 258 Back     alignment and structure
>pdb|4IFD|B Chain B, Crystal Structure Of An 11-subunit Eukaryotic Exosome Complex Bound To Rna Length = 248 Back     alignment and structure
>pdb|2WP8|B Chain B, Yeast Rrp44 Nuclease Length = 246 Back     alignment and structure
>pdb|1R6M|A Chain A, Crystal Structure Of The Trna Processing Enzyme Rnase Ph From Pseudomonas Aeruginosa In Complex With Phosphate Length = 239 Back     alignment and structure
>pdb|1R6L|A Chain A, Crystal Structure Of The Trna Processing Enzyme Rnase Ph From Pseudomonas Aeruginosa Length = 239 Back     alignment and structure
>pdb|1UDN|A Chain A, Crystal Structure Of The Trna Processing Enzyme Rnase Ph From Aquifex Aeolicus Length = 255 Back     alignment and structure
>pdb|2NN6|D Chain D, Structure Of The Human Rna Exosome Composed Of Rrp41, Rrp45, Rrp46, Rrp43, Mtr3, Rrp42, Csl4, Rrp4, And Rrp40 Length = 237 Back     alignment and structure
>pdb|2NN6|F Chain F, Structure Of The Human Rna Exosome Composed Of Rrp41, Rrp45, Rrp46, Rrp43, Mtr3, Rrp42, Csl4, Rrp4, And Rrp40 Length = 272 Back     alignment and structure
>pdb|1UDQ|A Chain A, Crystal Structure Of The Trna Processing Enzyme Rnase Ph T125a Mutant From Aquifex Aeolicus Length = 255 Back     alignment and structure
>pdb|1UDO|A Chain A, Crystal Structure Of The Trna Processing Enzyme Rnase Ph R86a Mutant From Aquifex Aeolicus Length = 255 Back     alignment and structure
>pdb|1UDS|A Chain A, Crystal Structure Of The Trna Processing Enzyme Rnase Ph R126a Mutant From Aquifex Aeolicus Length = 255 Back     alignment and structure
>pdb|3DD6|A Chain A, Crystal Structure Of Rph, An Exoribonuclease From Bacillus Anthracis At 1.7 A Resolution Length = 255 Back     alignment and structure
>pdb|3HKM|A Chain A, Crystal Structure Of Rice(Oryza Sativa) Rrp46 Length = 246 Back     alignment and structure
>pdb|1OYP|A Chain A, Crystal Structure Of The Phosphorolytic Exoribonuclease Rnase Ph From Bacillus Subtilis Length = 245 Back     alignment and structure
>pdb|1OYS|A Chain A, Crystal Structure Of The Phosphorolytic Exoribonuclease Rnase Ph From Bacillus Subtilis Length = 245 Back     alignment and structure
>pdb|3B4T|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Rnase Ph, The Mycobacterium Tuberculosis Structural Genomics Consortium Target Rv1340 Length = 262 Back     alignment and structure
>pdb|3KRN|A Chain A, Crystal Structure Of C. Elegans Cell-Death-Related Nuclease 5(Crn-5) Length = 222 Back     alignment and structure
>pdb|4IFD|D Chain D, Crystal Structure Of An 11-subunit Eukaryotic Exosome Complex Bound To Rna Length = 245 Back     alignment and structure
>pdb|1E3P|A Chain A, Tungstate Derivative Of Streptomyces Antibioticus Pnpase Gpsi Enzyme Length = 757 Back     alignment and structure
>pdb|4AM3|A Chain A, Crystal Structure Of C. Crescentus Pnpase Bound To Rna Length = 717 Back     alignment and structure
>pdb|4AID|A Chain A, Crystal Structure Of C. Crescentus Pnpase Bound To Rnase E Recognition Peptide Length = 726 Back     alignment and structure
>pdb|4AIM|A Chain A, Crystal Structure Of C. Crescentus Pnpase Bound To Rnase E Recognition Peptide Length = 726 Back     alignment and structure
>pdb|3H1C|A Chain A, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase) Core Bound To Rnase E And Tungstate Length = 549 Back     alignment and structure
>pdb|3GCM|A Chain A, Crystal Structure Of E. Coli Polynucleotide Phosphorylase Bound To Rna And Rnase E Length = 549 Back     alignment and structure
>pdb|3CDJ|A Chain A, Crystal Structure Of The E. Coli KhS1 DOMAIN TRUNCATED Pnpase Length = 559 Back     alignment and structure
>pdb|1E3H|A Chain A, Semet Derivative Of Streptomyces Antibioticus PnpaseGPSI Enzyme Length = 757 Back     alignment and structure
>pdb|3CDI|A Chain A, Crystal Structure Of E. Coli Pnpase Length = 723 Back     alignment and structure
>pdb|3U1K|A Chain A, Crystal Structure Of Human Pnpase Length = 630 Back     alignment and structure
>pdb|2NN6|C Chain C, Structure Of The Human Rna Exosome Composed Of Rrp41, Rrp45, Rrp46, Rrp43, Mtr3, Rrp42, Csl4, Rrp4, And Rrp40 Length = 278 Back     alignment and structure
>pdb|3L7Z|A Chain A, Crystal Structure Of The S. Solfataricus Archaeal Exosome Length = 271 Back     alignment and structure
>pdb|2BR2|A Chain A, Rnase Ph Core Of The Archaeal Exosome Length = 275 Back     alignment and structure
>pdb|2JE6|A Chain A, Structure Of A 9-Subunit Archaeal Exosome Length = 277 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 ?
Query214
2nn6_B249 Exosome complex exonuclease RRP41; RNA, exosome, P 1e-100
2wp8_B246 Exosome complex component SKI6; nucleus, hydrolase 2e-94
2wnr_B240 Probable exosome complex exonuclease 1; phosphate 1e-93
2po1_A249 Probable exosome complex exonuclease 1; RNAse PH, 4e-93
2je6_B250 RRP41, exosome complex exonuclease 1; nuclease, hy 3e-85
3m7n_D258 Probable exosome complex exonuclease 1; exosome, R 1e-82
2nn6_F272 MTR3, exosome component 6; RNA, exosome, PM/SCL, p 6e-79
2nn6_D237 Exosome complex exonuclease RRP46; RNA, exosome, P 2e-75
3hkm_A246 OS03G0854200 protein; RNAse PH domain, phosphoryla 2e-72
3krn_A222 Protein C14A4.5, confirmed by transcript evidence; 1e-70
3dd6_A255 Ribonuclease PH; exoribonuclease, tRNA maturation, 2e-69
1udn_A255 Ribonuclease PH, RNAse PH; transferase, riken stru 4e-67
1r6l_A239 Ribonuclease PH; beta-alpha-beta-alpha fold, hexam 2e-65
3b4t_A262 Ribonuclease PH; RNAse, tRNA nucleotidyltransferas 1e-62
1oys_A245 Ribonuclease PH; transferase, tRNA processing; 2.4 1e-53
2po1_B277 Probable exosome complex exonuclease 2; RNAse PH, 2e-42
2wnr_A271 Probable exosome complex exonuclease 2; phosphate 4e-42
3m7n_G259 Probable exosome complex exonuclease 2; exosome, R 1e-38
2je6_A277 RRP42, exosome complex exonuclease 2; nuclease, hy 4e-38
2nn6_C278 Exosome complex exonuclease RRP43; RNA, exosome, P 8e-32
2nn6_E305 Exosome complex exonuclease RRP42; RNA, exosome, P 3e-28
2nn6_A358 Polymyositis/scleroderma autoantigen 1; RNA, exoso 6e-25
2wp8_A305 Exosome complex component RRP45; nucleus, hydrolas 5e-23
3u1k_A 630 Polyribonucleotide nucleotidyltransferase 1, MITO; 8e-11
3gme_A549 Polyribonucleotide nucleotidyltransferase; protein 9e-09
4aid_A 726 Polyribonucleotide nucleotidyltransferase; transfe 1e-08
3cdi_A 723 Polynucleotide phosphorylase; mRNA turnover, RNAse 2e-08
1e3p_A 757 Guanosine pentaphosphate synthetase; polyribonucle 2e-08
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 8e-05
>2nn6_B Exosome complex exonuclease RRP41; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: d.14.1.4 d.101.1.1 Length = 249 Back     alignment and structure
 Score =  289 bits (741), Expect = e-100
 Identities = 111/213 (52%), Positives = 157/213 (73%), Gaps = 1/213 (0%)

Query: 1   MEFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQN-KS 59
           +E +S +G R+DGRR  E+R+++A +G  A+ADGSA  E GNTK +A VYGP E++  ++
Sbjct: 8   LELLSDQGYRVDGRRAGELRKIQARMGVFAQADGSAYIEQGNTKALAVVYGPHEIRGSRA 67

Query: 60  QQMSDQALVRCEYSMANFSTGDRMRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDI 119
           + + D+ALV C+YS A FSTG+R R+P GDR+S E+ L +RQT EA ILT L PRSQIDI
Sbjct: 68  RALPDRALVNCQYSSATFSTGERKRRPHGDRKSCEMGLQLRQTFEAAILTQLHPRSQIDI 127

Query: 120 FVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLLDLNYVEDSAGGP 179
           +VQVLQADGGT +AC+NAATLA+ DAGIPMRD V +CSAG+++ T L DL++VE++AGGP
Sbjct: 128 YVQVLQADGGTYAACVNAATLAVLDAGIPMRDFVCACSAGFVDGTALADLSHVEEAAGGP 187

Query: 180 DVTVGILPTLDKVTLLQVCLKFSSSFFSLLISQ 212
            + + +LP   ++ LL++  +        ++  
Sbjct: 188 QLALALLPASGQIALLEMDARLHEDHLERVLEA 220
>2wp8_B Exosome complex component SKI6; nucleus, hydrolase, RNA-binding, exonucle binding, mitochondrion, rRNA processing; 3.00A {Saccharomyces cerevisiae} Length = 246 Back     alignment and structure
>2wnr_B Probable exosome complex exonuclease 1; phosphate binding, 3'-5' exoribonuclease, hydrolase; 2.65A {Methanothermobacter thermautotrophicusorganism_taxid} Length = 240 Back     alignment and structure
>2po1_A Probable exosome complex exonuclease 1; RNAse PH, hydrolase/hydrolase/RNA complex; 1.94A {Pyrococcus abyssi} PDB: 2po0_A* 2pnz_A 2po2_A* Length = 249 Back     alignment and structure
>2je6_B RRP41, exosome complex exonuclease 1; nuclease, hydrolase, exonuclease, phosphorolytic, exoribonuclease, RNA degradation; HET: 1PE; 1.6A {Sulfolobus solfataricus} SCOP: d.14.1.4 d.101.1.1 PDB: 2jea_B* 2jeb_B* 2br2_B 2c37_B* 2c38_B* 2c39_B* 3l7z_B Length = 250 Back     alignment and structure
>3m7n_D Probable exosome complex exonuclease 1; exosome, RNA, exonuclease, hydrolase, nuclease, hydrolase-RN; 2.40A {Archaeoglobus fulgidus} PDB: 3m85_D 2ba0_F 2ba1_E Length = 258 Back     alignment and structure
>2nn6_F MTR3, exosome component 6; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: d.14.1.4 d.101.1.1 Length = 272 Back     alignment and structure
>2nn6_D Exosome complex exonuclease RRP46; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: d.14.1.4 d.101.1.1 Length = 237 Back     alignment and structure
>3hkm_A OS03G0854200 protein; RNAse PH domain, phosphorylase, hydrolase; 1.98A {Oryza sativa japonica group} Length = 246 Back     alignment and structure
>3krn_A Protein C14A4.5, confirmed by transcript evidence; RNAse PH domain, homodimer, exosome, cell-death-related DNAS hydrolase; 3.92A {Caenorhabditis elegans} Length = 222 Back     alignment and structure
>3dd6_A Ribonuclease PH; exoribonuclease, tRNA maturation, RNAse PH., transferase; 1.70A {Bacillus anthracis} Length = 255 Back     alignment and structure
>1udn_A Ribonuclease PH, RNAse PH; transferase, riken structural genomics/proteomics initiative structural genomics; 2.30A {Aquifex aeolicus} SCOP: d.14.1.4 d.101.1.1 PDB: 1udq_A 1uds_A 1udo_A Length = 255 Back     alignment and structure
>1r6l_A Ribonuclease PH; beta-alpha-beta-alpha fold, hexamer, phosphate bound, transf; HET: NHE; 1.90A {Pseudomonas aeruginosa} SCOP: d.14.1.4 d.101.1.1 PDB: 1r6m_A Length = 239 Back     alignment and structure
>3b4t_A Ribonuclease PH; RNAse, tRNA nucleotidyltransferase, RPHA, STRU genomics, TBSGC; 2.10A {Mycobacterium tuberculosis} Length = 262 Back     alignment and structure
>1oys_A Ribonuclease PH; transferase, tRNA processing; 2.40A {Bacillus subtilis} SCOP: d.14.1.4 d.101.1.1 PDB: 1oyp_A 1oyr_A Length = 245 Back     alignment and structure
>2po1_B Probable exosome complex exonuclease 2; RNAse PH, hydrolase/hydrolase/RNA complex; 1.94A {Pyrococcus abyssi} PDB: 2po0_B* 2pnz_B 2po2_B* Length = 277 Back     alignment and structure
>2wnr_A Probable exosome complex exonuclease 2; phosphate binding, 3'-5' exoribonuclease, hydrolase; 2.65A {Methanothermobacter thermautotrophicusorganism_taxid} Length = 271 Back     alignment and structure
>3m7n_G Probable exosome complex exonuclease 2; exosome, RNA, exonuclease, hydrolase, nuclease, hydrolase-RN; 2.40A {Archaeoglobus fulgidus} PDB: 2ba1_H 2ba0_I 3m85_G Length = 259 Back     alignment and structure
>2je6_A RRP42, exosome complex exonuclease 2; nuclease, hydrolase, exonuclease, phosphorolytic, exoribonuclease, RNA degradation; HET: 1PE; 1.6A {Sulfolobus solfataricus} SCOP: d.14.1.4 d.101.1.1 PDB: 2jea_A* 2jeb_A* 2br2_A 2c37_A* 2c38_A* 2c39_A* 3l7z_A Length = 277 Back     alignment and structure
>2nn6_C Exosome complex exonuclease RRP43; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: d.14.1.4 d.101.1.1 Length = 278 Back     alignment and structure
>2nn6_E Exosome complex exonuclease RRP42; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: d.14.1.4 d.101.1.1 Length = 305 Back     alignment and structure
>2nn6_A Polymyositis/scleroderma autoantigen 1; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: d.14.1.4 d.101.1.1 Length = 358 Back     alignment and structure
>2wp8_A Exosome complex component RRP45; nucleus, hydrolase, RNA-binding, exonucle binding, mitochondrion, rRNA processing; 3.00A {Saccharomyces cerevisiae} Length = 305 Back     alignment and structure
>3u1k_A Polyribonucleotide nucleotidyltransferase 1, MITO; RNAse PH, KH domain, exoribonuclease; HET: CIT; 2.13A {Homo sapiens} Length = 630 Back     alignment and structure
>3gme_A Polyribonucleotide nucleotidyltransferase; protein-RNA complex, cytoplasm, nucleotidyltransferase, RNA- binding, transferase, hydrolase; 2.40A {Escherichia coli E24377A} PDB: 3gll_A 3gcm_A 3h1c_A 3cdj_A Length = 549 Back     alignment and structure
>4aid_A Polyribonucleotide nucleotidyltransferase; transferase-peptide complex; 2.60A {Caulobacter vibrioides} PDB: 4aim_A 4am3_A Length = 726 Back     alignment and structure
>3cdi_A Polynucleotide phosphorylase; mRNA turnover, RNAse, RNA degradation, kinase, transferase; 2.60A {Escherichia coli} PDB: 1sro_A Length = 723 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 Length = 757 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 ?
Query214
2wnr_B240 Probable exosome complex exonuclease 1; phosphate 100.0
2nn6_B249 Exosome complex exonuclease RRP41; RNA, exosome, P 100.0
2po1_A249 Probable exosome complex exonuclease 1; RNAse PH, 100.0
2wp8_B246 Exosome complex component SKI6; nucleus, hydrolase 100.0
2je6_B250 RRP41, exosome complex exonuclease 1; nuclease, hy 100.0
3m7n_D258 Probable exosome complex exonuclease 1; exosome, R 100.0
2nn6_F272 MTR3, exosome component 6; RNA, exosome, PM/SCL, p 100.0
3dd6_A255 Ribonuclease PH; exoribonuclease, tRNA maturation, 100.0
3b4t_A262 Ribonuclease PH; RNAse, tRNA nucleotidyltransferas 100.0
1udn_A255 Ribonuclease PH, RNAse PH; transferase, riken stru 100.0
1oys_A245 Ribonuclease PH; transferase, tRNA processing; 2.4 100.0
2nn6_D237 Exosome complex exonuclease RRP46; RNA, exosome, P 100.0
1r6l_A239 Ribonuclease PH; beta-alpha-beta-alpha fold, hexam 100.0
3m7n_G259 Probable exosome complex exonuclease 2; exosome, R 100.0
2po1_B277 Probable exosome complex exonuclease 2; RNAse PH, 100.0
2wnr_A271 Probable exosome complex exonuclease 2; phosphate 100.0
2je6_A277 RRP42, exosome complex exonuclease 2; nuclease, hy 100.0
3hkm_A246 OS03G0854200 protein; RNAse PH domain, phosphoryla 100.0
2nn6_C278 Exosome complex exonuclease RRP43; RNA, exosome, P 100.0
3gme_A549 Polyribonucleotide nucleotidyltransferase; protein 100.0
2nn6_E305 Exosome complex exonuclease RRP42; RNA, exosome, P 100.0
2wp8_A305 Exosome complex component RRP45; nucleus, hydrolas 100.0
2nn6_A358 Polymyositis/scleroderma autoantigen 1; RNA, exoso 100.0
4aid_A 726 Polyribonucleotide nucleotidyltransferase; transfe 100.0
3u1k_A630 Polyribonucleotide nucleotidyltransferase 1, MITO; 100.0
1e3p_A 757 Guanosine pentaphosphate synthetase; polyribonucle 100.0
3cdi_A 723 Polynucleotide phosphorylase; mRNA turnover, RNAse 100.0
3krn_A222 Protein C14A4.5, confirmed by transcript evidence; 100.0
3u1k_A 630 Polyribonucleotide nucleotidyltransferase 1, MITO; 100.0
3gme_A 549 Polyribonucleotide nucleotidyltransferase; protein 99.96
3cdi_A 723 Polynucleotide phosphorylase; mRNA turnover, RNAse 99.96
4aid_A 726 Polyribonucleotide nucleotidyltransferase; transfe 99.96
1e3p_A 757 Guanosine pentaphosphate synthetase; polyribonucle 99.95
>2wnr_B Probable exosome complex exonuclease 1; phosphate binding, 3'-5' exoribonuclease, hydrolase; 2.65A {Methanothermobacter thermautotrophicusorganism_taxid} Back     alignment and structure
Probab=100.00  E-value=5.7e-56  Score=365.02  Aligned_cols=212  Identities=43%  Similarity=0.705  Sum_probs=195.9

Q ss_pred             CcccCCCCCcCCCCCCCCCcceEEEECCCCCCCeeEEEEeCCeEEEEEEECCccccccccCCCCceEEEEEEeecCCCcc
Q 028091            1 MEFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTG   80 (214)
Q Consensus         1 ~~~~~~~~~R~DgR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~V~~~V~gp~e~~~~~~~~~~~g~l~v~v~~~~~~~~   80 (214)
                      ||+++++++|+|||+++|+|++++++|++++++|||+|++|+|+|+|+|+||.+..++..+.|++|.|.++|+++|++++
T Consensus         8 ~~~~l~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vl~~V~gp~e~~~~~~~~~~~g~l~~~~~~~p~a~~   87 (240)
T 2wnr_B            8 DQLKTSPSVREDGRAFDELRPLKIEAGILERADGSSYLEFGGNKILVAVYGPREAQIRKLQRPDRAVIRCRYNMAPFSVE   87 (240)
T ss_dssp             -------CCCTTSCCTTCCCCEEEEESCCSSSSEEEEEEETTEEEEEEEEEEEECCSSSSCCSSSCEEEEEEEECTTSSS
T ss_pred             eEeecccCccCCCCCcCCccCeEEEeCCCCCCCEEEEEEECCeEEEEEEEcCCCCCcccccCCCcEEEEEEEEeCCCCcC
Confidence            78899999999999999999999999999999999999999999999999998876655567899999999999999998


Q ss_pred             cccCCCCCCcchHHHHHHHHHHHHHhhccCCCCCceEEEEEEEEecCCChHHHHHHHHHHHHHhCCCCCCCceEEEEEEe
Q 028091           81 DRMRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGY  160 (214)
Q Consensus        81 ~~~~~~~~~~~~~~l~~~l~~~l~~~i~~~~~p~~~i~i~v~Vl~~dG~l~~a~~~A~~~AL~~~gIp~~~~~~~vt~~~  160 (214)
                      +++ .+.+++++.+++++|+++|+++++++.||+|+|+|+++||++|||+++|+++|+++||+|+||||+++|+++|+|+
T Consensus        88 ~~~-~~~~~~~~~~l~~ll~r~l~~~i~l~~~p~~~I~i~~~VL~~dG~~~~a~i~aa~~AL~da~iP~~~~v~avs~g~  166 (240)
T 2wnr_B           88 ERK-RPGPDRRSVEISKITAEALRPALILEKFPRSVIDVFIEVLEAEGGTRCAGITAASVALADAGIPMRDMVVACAAGK  166 (240)
T ss_dssp             SCC-CSSCCHHHHHHHHHHHHHHGGGBCGGGSTTEEEEEEEEEEECCSCHHHHHHHHHHHHHHHTTCCBSSCCEEEEEEE
T ss_pred             Ccc-CCCCChhHHHHHHHHHHHHHHhcCHHHCCCcEEEEEEEEEeCCCCHHHHHHHHHHHHHHHcCCccccceeeEEEEE
Confidence            875 5678899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eCCeEEEeCChhhhhcCCCcEEEEEcCCCCcEEEEEEeeccCHHHHHHHHhcC
Q 028091          161 LNSTPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQVCLKFSSSFFSLLISQR  213 (214)
Q Consensus       161 ~~~~~l~DPt~~Ee~~~~~~~tv~~~~~~~~i~~~~~~G~~~~~~~~~~~~~~  213 (214)
                      +++.+++||+.+||..+++.++|+++++.|+|++++++|+++.+++++++++|
T Consensus       167 ~~~~~l~Dp~~~Ee~~~~~~~~v~~~~~~~~i~~lq~~g~~~~~~l~~~l~~A  219 (240)
T 2wnr_B          167 VGDQVVLDLSEEEDKEGQADVPVAILPRTREITLLQSDGNLTPEEFERALDLA  219 (240)
T ss_dssp             SSSSEEESCCSHHHHSCSEEEEEEEETTTTEEEEEEEEECBCHHHHHHHHHHH
T ss_pred             ECCEEEeCCCHHHhccCCceEEEEEECCCCCEEEEEEEcccCHHHHHHHHHHH
Confidence            99999999999999999999999977889999999999999999999999876
>2nn6_B Exosome complex exonuclease RRP41; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: d.14.1.4 d.101.1.1 Back     alignment and structure
>2po1_A Probable exosome complex exonuclease 1; RNAse PH, hydrolase/hydrolase/RNA complex; 1.94A {Pyrococcus abyssi} PDB: 2po0_A* 2pnz_A 2po2_A* Back     alignment and structure
>2wp8_B Exosome complex component SKI6; nucleus, hydrolase, RNA-binding, exonucle binding, mitochondrion, rRNA processing; 3.00A {Saccharomyces cerevisiae} Back     alignment and structure
>2je6_B RRP41, exosome complex exonuclease 1; nuclease, hydrolase, exonuclease, phosphorolytic, exoribonuclease, RNA degradation; HET: 1PE; 1.6A {Sulfolobus solfataricus} SCOP: d.14.1.4 d.101.1.1 PDB: 2jea_B* 2jeb_B* 2br2_B 2c37_B* 2c38_B* 2c39_B* 3l7z_B Back     alignment and structure
>3m7n_D Probable exosome complex exonuclease 1; exosome, RNA, exonuclease, hydrolase, nuclease, hydrolase-RN; 2.40A {Archaeoglobus fulgidus} PDB: 3m85_D 2ba0_F 2ba1_E Back     alignment and structure
>2nn6_F MTR3, exosome component 6; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: d.14.1.4 d.101.1.1 Back     alignment and structure
>3dd6_A Ribonuclease PH; exoribonuclease, tRNA maturation, RNAse PH., transferase; 1.70A {Bacillus anthracis} Back     alignment and structure
>3b4t_A Ribonuclease PH; RNAse, tRNA nucleotidyltransferase, RPHA, STRU genomics, TBSGC; 2.10A {Mycobacterium tuberculosis} Back     alignment and structure
>1udn_A Ribonuclease PH, RNAse PH; transferase, riken structural genomics/proteomics initiative structural genomics; 2.30A {Aquifex aeolicus} SCOP: d.14.1.4 d.101.1.1 PDB: 1udq_A 1uds_A 1udo_A Back     alignment and structure
>1oys_A Ribonuclease PH; transferase, tRNA processing; 2.40A {Bacillus subtilis} SCOP: d.14.1.4 d.101.1.1 PDB: 1oyp_A 1oyr_A Back     alignment and structure
>2nn6_D Exosome complex exonuclease RRP46; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: d.14.1.4 d.101.1.1 Back     alignment and structure
>1r6l_A Ribonuclease PH; beta-alpha-beta-alpha fold, hexamer, phosphate bound, transf; HET: NHE; 1.90A {Pseudomonas aeruginosa} SCOP: d.14.1.4 d.101.1.1 PDB: 1r6m_A Back     alignment and structure
>3m7n_G Probable exosome complex exonuclease 2; exosome, RNA, exonuclease, hydrolase, nuclease, hydrolase-RN; 2.40A {Archaeoglobus fulgidus} PDB: 2ba1_H 2ba0_I 3m85_G Back     alignment and structure
>2po1_B Probable exosome complex exonuclease 2; RNAse PH, hydrolase/hydrolase/RNA complex; 1.94A {Pyrococcus abyssi} PDB: 2po0_B* 2pnz_B 2po2_B* Back     alignment and structure
>2wnr_A Probable exosome complex exonuclease 2; phosphate binding, 3'-5' exoribonuclease, hydrolase; 2.65A {Methanothermobacter thermautotrophicusorganism_taxid} Back     alignment and structure
>2je6_A RRP42, exosome complex exonuclease 2; nuclease, hydrolase, exonuclease, phosphorolytic, exoribonuclease, RNA degradation; HET: 1PE; 1.6A {Sulfolobus solfataricus} SCOP: d.14.1.4 d.101.1.1 PDB: 2jea_A* 2jeb_A* 2br2_A 2c37_A* 2c38_A* 2c39_A* 3l7z_A Back     alignment and structure
>3hkm_A OS03G0854200 protein; RNAse PH domain, phosphorylase, hydrolase; 1.98A {Oryza sativa japonica group} Back     alignment and structure
>2nn6_C Exosome complex exonuclease RRP43; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: d.14.1.4 d.101.1.1 Back     alignment and structure
>3gme_A Polyribonucleotide nucleotidyltransferase; protein-RNA complex, cytoplasm, nucleotidyltransferase, RNA- binding, transferase, hydrolase; 2.40A {Escherichia coli E24377A} PDB: 3gll_A 3gcm_A 3h1c_A 3cdj_A Back     alignment and structure
>2nn6_E Exosome complex exonuclease RRP42; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: d.14.1.4 d.101.1.1 Back     alignment and structure
>2wp8_A Exosome complex component RRP45; nucleus, hydrolase, RNA-binding, exonucle binding, mitochondrion, rRNA processing; 3.00A {Saccharomyces cerevisiae} Back     alignment and structure
>2nn6_A Polymyositis/scleroderma autoantigen 1; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: d.14.1.4 d.101.1.1 Back     alignment and structure
>4aid_A Polyribonucleotide nucleotidyltransferase; transferase-peptide complex; 2.60A {Caulobacter vibrioides} PDB: 4aim_A 4am3_A Back     alignment and structure
>3u1k_A Polyribonucleotide nucleotidyltransferase 1, MITO; RNAse PH, KH domain, exoribonuclease; HET: CIT; 2.13A {Homo sapiens} 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
>3cdi_A Polynucleotide phosphorylase; mRNA turnover, RNAse, RNA degradation, kinase, transferase; 2.60A {Escherichia coli} PDB: 1sro_A Back     alignment and structure
>3krn_A Protein C14A4.5, confirmed by transcript evidence; RNAse PH domain, homodimer, exosome, cell-death-related DNAS hydrolase; 3.92A {Caenorhabditis elegans} Back     alignment and structure
>3u1k_A Polyribonucleotide nucleotidyltransferase 1, MITO; RNAse PH, KH domain, exoribonuclease; HET: CIT; 2.13A {Homo sapiens} Back     alignment and structure
>3gme_A Polyribonucleotide nucleotidyltransferase; protein-RNA complex, cytoplasm, nucleotidyltransferase, RNA- binding, transferase, hydrolase; 2.40A {Escherichia coli E24377A} PDB: 3gll_A 3gcm_A 3h1c_A 3cdj_A 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
>4aid_A Polyribonucleotide nucleotidyltransferase; transferase-peptide complex; 2.60A {Caulobacter vibrioides} PDB: 4aim_A 4am3_A 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

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 214
d2nn6b1145 d.14.1.4 (B:6-150) Exosome complex exonuclease RRP 9e-37
d2je6b1148 d.14.1.4 (B:8-155) Exosome complex exonuclease 1, 2e-36
d2ba0d1144 d.14.1.4 (D:10-153) Exosome complex exonuclease 1, 9e-35
d2ba0g1176 d.14.1.4 (G:3-178) Exosome complex exonuclease 2,E 1e-32
d2nn6e1187 d.14.1.4 (E:5-191) Exosome complex exonuclease RRP 2e-32
d2nn6c1181 d.14.1.4 (C:7-187) Exosome complex exonuclease RRP 4e-32
d1e3ha3137 d.14.1.4 (A:346-482) Polynucleotide phosphorylase/ 2e-31
d1r6la1151 d.14.1.4 (A:1-151) Ribonuclease PH, domain 1 {Pseu 6e-31
d2nn6a1184 d.14.1.4 (A:1-184) Exosome complex exonuclease RRP 4e-29
d2nn6f1147 d.14.1.4 (F:29-175) Exosome complex exonuclease MT 7e-29
d2nn6d1122 d.14.1.4 (D:25-146) Exosome complex exonuclease RR 9e-29
d1udsa1149 d.14.1.4 (A:2-150) Ribonuclease PH, domain 1 {Aqui 4e-28
d1oysa1151 d.14.1.4 (A:1-151) Ribonuclease PH, domain 1 {Baci 1e-27
d2je6a1191 d.14.1.4 (A:1-191) Exosome complex exonuclease 2,E 8e-26
d1e3ha2149 d.14.1.4 (A:3-151) Polynucleotide phosphorylase/gu 2e-20
d2nn6f295 d.101.1.1 (F:176-270) Exosome complex exonuclease 3e-11
d2ba0g279 d.101.1.1 (G:179-257) Exosome complex exonuclease 2e-08
d2je6b286 d.101.1.1 (B:156-241) Exosome complex exonuclease 5e-08
d2nn6b290 d.101.1.1 (B:151-240) Exosome complex exonuclease 1e-07
d2ba0d299 d.101.1.1 (D:154-252) Exosome complex exonuclease 3e-05
d2nn6d289 d.101.1.1 (D:147-235) Exosome complex exonuclease 9e-05
d1udsa2105 d.101.1.1 (A:151-255) Ribonuclease PH, domain 2 {A 1e-04
d2nn6c289 d.101.1.1 (C:188-276) Exosome complex exonuclease 5e-04
d2je6a284 d.101.1.1 (A:192-275) Exosome complex exonuclease 0.001
d2nn6e294 d.101.1.1 (E:192-285) Exosome complex exonuclease 0.002
>d2nn6b1 d.14.1.4 (B:6-150) Exosome complex exonuclease RRP41 {Human (Homo sapiens) [TaxId: 9606]} Length = 145 Back     information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Exosome complex exonuclease RRP41
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  123 bits (310), Expect = 9e-37
 Identities = 87/145 (60%), Positives = 115/145 (79%), Gaps = 1/145 (0%)

Query: 4   VSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQ-NKSQQM 62
           +S +G R+DGRR  E+R+++A +G  A+ADGSA  E GNTK +A VYGP E++ ++++ +
Sbjct: 1   LSDQGYRVDGRRAGELRKIQARMGVFAQADGSAYIEQGNTKALAVVYGPHEIRGSRARAL 60

Query: 63  SDQALVRCEYSMANFSTGDRMRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIFVQ 122
            D+ALV C+YS A FSTG+R R+P GDR+S E+ L +RQT EA ILT L PRSQIDI+VQ
Sbjct: 61  PDRALVNCQYSSATFSTGERKRRPHGDRKSCEMGLQLRQTFEAAILTQLHPRSQIDIYVQ 120

Query: 123 VLQADGGTRSACINAATLALQDAGI 147
           VLQADGGT +AC+NAATLA+ DAGI
Sbjct: 121 VLQADGGTYAACVNAATLAVLDAGI 145
>d2je6b1 d.14.1.4 (B:8-155) Exosome complex exonuclease 1, ECX1 {Sulfolobus solfataricus [TaxId: 2287]} Length = 148 Back     information, alignment and structure
>d2ba0d1 d.14.1.4 (D:10-153) Exosome complex exonuclease 1, ECX1 {Archaeoglobus fulgidus [TaxId: 2234]} Length = 144 Back     information, alignment and structure
>d2ba0g1 d.14.1.4 (G:3-178) Exosome complex exonuclease 2,ECX2 {Archaeoglobus fulgidus [TaxId: 2234]} Length = 176 Back     information, alignment and structure
>d2nn6e1 d.14.1.4 (E:5-191) Exosome complex exonuclease RRP42 {Human (Homo sapiens) [TaxId: 9606]} Length = 187 Back     information, alignment and structure
>d2nn6c1 d.14.1.4 (C:7-187) Exosome complex exonuclease RRP43 {Human (Homo sapiens) [TaxId: 9606]} Length = 181 Back     information, alignment and structure
>d1e3ha3 d.14.1.4 (A:346-482) Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 1 and 4 {Streptomyces antibioticus [TaxId: 1890]} Length = 137 Back     information, alignment and structure
>d1r6la1 d.14.1.4 (A:1-151) Ribonuclease PH, domain 1 {Pseudomonas aeruginosa [TaxId: 287]} Length = 151 Back     information, alignment and structure
>d2nn6a1 d.14.1.4 (A:1-184) Exosome complex exonuclease RRP45 {Human (Homo sapiens) [TaxId: 9606]} Length = 184 Back     information, alignment and structure
>d2nn6f1 d.14.1.4 (F:29-175) Exosome complex exonuclease MTR3 {Human (Homo sapiens) [TaxId: 9606]} Length = 147 Back     information, alignment and structure
>d2nn6d1 d.14.1.4 (D:25-146) Exosome complex exonuclease RRP46 {Human (Homo sapiens) [TaxId: 9606]} Length = 122 Back     information, alignment and structure
>d1udsa1 d.14.1.4 (A:2-150) Ribonuclease PH, domain 1 {Aquifex aeolicus [TaxId: 63363]} Length = 149 Back     information, alignment and structure
>d1oysa1 d.14.1.4 (A:1-151) Ribonuclease PH, domain 1 {Bacillus subtilis [TaxId: 1423]} Length = 151 Back     information, alignment and structure
>d2je6a1 d.14.1.4 (A:1-191) Exosome complex exonuclease 2,ECX2 {Sulfolobus solfataricus [TaxId: 2287]} Length = 191 Back     information, alignment and structure
>d1e3ha2 d.14.1.4 (A:3-151) Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 1 and 4 {Streptomyces antibioticus [TaxId: 1890]} Length = 149 Back     information, alignment and structure
>d2nn6f2 d.101.1.1 (F:176-270) Exosome complex exonuclease MTR3 {Human (Homo sapiens) [TaxId: 9606]} Length = 95 Back     information, alignment and structure
>d2ba0g2 d.101.1.1 (G:179-257) Exosome complex exonuclease 2, ECX2 {Archaeoglobus fulgidus [TaxId: 2234]} Length = 79 Back     information, alignment and structure
>d2je6b2 d.101.1.1 (B:156-241) Exosome complex exonuclease 1, ECX1 {Sulfolobus solfataricus [TaxId: 2287]} Length = 86 Back     information, alignment and structure
>d2nn6b2 d.101.1.1 (B:151-240) Exosome complex exonuclease RRP41 {Human (Homo sapiens) [TaxId: 9606]} Length = 90 Back     information, alignment and structure
>d2ba0d2 d.101.1.1 (D:154-252) Exosome complex exonuclease 1, ECX1 {Archaeoglobus fulgidus [TaxId: 2234]} Length = 99 Back     information, alignment and structure
>d2nn6d2 d.101.1.1 (D:147-235) Exosome complex exonuclease RRP46 {Human (Homo sapiens) [TaxId: 9606]} Length = 89 Back     information, alignment and structure
>d1udsa2 d.101.1.1 (A:151-255) Ribonuclease PH, domain 2 {Aquifex aeolicus [TaxId: 63363]} Length = 105 Back     information, alignment and structure
>d2nn6c2 d.101.1.1 (C:188-276) Exosome complex exonuclease RRP43 {Human (Homo sapiens) [TaxId: 9606]} Length = 89 Back     information, alignment and structure
>d2je6a2 d.101.1.1 (A:192-275) Exosome complex exonuclease 2, ECX2 {Sulfolobus solfataricus [TaxId: 2287]} Length = 84 Back     information, alignment and structure
>d2nn6e2 d.101.1.1 (E:192-285) Exosome complex exonuclease RRP42 {Human (Homo sapiens) [TaxId: 9606]} Length = 94 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 ?
Query214
d2je6b1148 Exosome complex exonuclease 1, ECX1 {Sulfolobus so 100.0
d2nn6b1145 Exosome complex exonuclease RRP41 {Human (Homo sap 100.0
d2ba0d1144 Exosome complex exonuclease 1, ECX1 {Archaeoglobus 100.0
d1udsa1149 Ribonuclease PH, domain 1 {Aquifex aeolicus [TaxId 100.0
d1r6la1151 Ribonuclease PH, domain 1 {Pseudomonas aeruginosa 100.0
d1oysa1151 Ribonuclease PH, domain 1 {Bacillus subtilis [TaxI 100.0
d1e3ha3137 Polynucleotide phosphorylase/guanosine pentaphosph 100.0
d2ba0g1176 Exosome complex exonuclease 2,ECX2 {Archaeoglobus 100.0
d2nn6e1187 Exosome complex exonuclease RRP42 {Human (Homo sap 99.98
d2je6a1191 Exosome complex exonuclease 2,ECX2 {Sulfolobus sol 99.98
d2nn6d1122 Exosome complex exonuclease RRP46 {Human (Homo sap 99.97
d2nn6c1181 Exosome complex exonuclease RRP43 {Human (Homo sap 99.97
d2nn6f1147 Exosome complex exonuclease MTR3 {Human (Homo sapi 99.97
d2nn6a1184 Exosome complex exonuclease RRP45 {Human (Homo sap 99.97
d1e3ha2149 Polynucleotide phosphorylase/guanosine pentaphosph 99.91
d2ba0g279 Exosome complex exonuclease 2, ECX2 {Archaeoglobus 99.64
d2je6a284 Exosome complex exonuclease 2, ECX2 {Sulfolobus so 99.57
d2nn6e294 Exosome complex exonuclease RRP42 {Human (Homo sap 99.53
d2nn6b290 Exosome complex exonuclease RRP41 {Human (Homo sap 99.51
d2je6b286 Exosome complex exonuclease 1, ECX1 {Sulfolobus so 99.5
d2nn6a2118 Exosome complex exonuclease RRP45 {Human (Homo sap 99.49
d2nn6c289 Exosome complex exonuclease RRP43 {Human (Homo sap 99.49
d2nn6d289 Exosome complex exonuclease RRP46 {Human (Homo sap 99.48
d1r6la288 Ribonuclease PH, domain 2 {Pseudomonas aeruginosa 99.3
d2nn6f295 Exosome complex exonuclease MTR3 {Human (Homo sapi 99.18
d2ba0d299 Exosome complex exonuclease 1, ECX1 {Archaeoglobus 99.14
d1oysa286 Ribonuclease PH, domain 2 {Bacillus subtilis [TaxI 98.99
d1udsa2105 Ribonuclease PH, domain 2 {Aquifex aeolicus [TaxId 98.92
d1e3ha696 Polynucleotide phosphorylase/guanosine pentaphosph 97.15
d1e3ha5111 Polynucleotide phosphorylase/guanosine pentaphosph 96.83
>d2je6b1 d.14.1.4 (B:8-155) Exosome complex exonuclease 1, ECX1 {Sulfolobus solfataricus [TaxId: 2287]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Ribonuclease PH domain 1-like
domain: Exosome complex exonuclease 1, ECX1
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=100.00  E-value=4.3e-40  Score=249.91  Aligned_cols=145  Identities=48%  Similarity=0.851  Sum_probs=135.0

Q ss_pred             cccCCCCCcCCCCCCCCCcceEEEECCCCCCCeeEEEEeCCeEEEEEEECCccccccccCCCCceEEEEEEeecCCCccc
Q 028091            2 EFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGD   81 (214)
Q Consensus         2 ~~~~~~~~R~DgR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~V~~~V~gp~e~~~~~~~~~~~g~l~v~v~~~~~~~~~   81 (214)
                      .++.++|+|+|||.++|+|++++++|++++++|||++++|+|+|+|+|+||.+...+..+.++++.++++++++|+++..
T Consensus         4 ~~i~~~g~R~DGR~~~e~R~i~i~~g~l~~adGSa~v~~G~T~Vl~~V~gp~e~~~~~~~~~~~~~~~v~~~~~~~~~~~   83 (148)
T d2je6b1           4 KLILDDGKRTDGRKPDELRSIKIELGVLKNADGSAIFEMGNTKAIAAVYGPKEMHPRHLSLPDRAVLRVRYHMTPFSTDE   83 (148)
T ss_dssp             CSBCTTSCBTTSCCTTCCCCEEEEESCCSSSSEEEEEEETTEEEEEEEEEEEECSSGGGSCSSSCEEEEEEEECTTSSSS
T ss_pred             eEecCCCccCCCCCCCCccCeEEEECCCCCCCEEEEEEcCCccEEeecccCccccchhhcCCcceEEEEEEEeccccccc
Confidence            36889999999999999999999999999999999999999999999999998887777789999999999999999876


Q ss_pred             ccCCCCCCcchHHHHHHHHHHHHHhhccCCCCCceEEEEEEEEecCCChHHHHHHHHHHHHHhCCC
Q 028091           82 RMRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGI  147 (214)
Q Consensus        82 ~~~~~~~~~~~~~l~~~l~~~l~~~i~~~~~p~~~i~i~v~Vl~~dG~l~~a~~~A~~~AL~~~gI  147 (214)
                      +. .+....++.+++++|+++|+++++++.||++.|+|+++||++|||+++|++||+++||+|+||
T Consensus        84 ~~-~~~~~~~~~el~~~l~~~l~~~i~~~~~p~~~i~v~v~VL~~DG~~~~a~i~aa~~AL~daGI  148 (148)
T d2je6b1          84 RK-NPAPSRREIELSKVIREALESAVLVELFPRTAIDVFTEILQADAGSRLVSLMAASLALADAGI  148 (148)
T ss_dssp             CC-CSSCCHHHHHHHHHHHHHHHTTBCGGGSTTEEEEEEEEEEECSSCHHHHHHHHHHHHHHHTTC
T ss_pred             cc-cccccchhHHHHHHHHHHhhccccHHHcCCEEEEEEEEEEEcCCCHHHHHHHHHHHHHHHcCC
Confidence            53 345667788999999999999999999999999999999999999999999999999999997
>d2nn6b1 d.14.1.4 (B:6-150) Exosome complex exonuclease RRP41 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ba0d1 d.14.1.4 (D:10-153) Exosome complex exonuclease 1, ECX1 {Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d1udsa1 d.14.1.4 (A:2-150) Ribonuclease PH, domain 1 {Aquifex aeolicus [TaxId: 63363]} Back     information, alignment and structure
>d1r6la1 d.14.1.4 (A:1-151) Ribonuclease PH, domain 1 {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d1oysa1 d.14.1.4 (A:1-151) Ribonuclease PH, domain 1 {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure
>d1e3ha3 d.14.1.4 (A:346-482) Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 1 and 4 {Streptomyces antibioticus [TaxId: 1890]} Back     information, alignment and structure
>d2ba0g1 d.14.1.4 (G:3-178) Exosome complex exonuclease 2,ECX2 {Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d2nn6e1 d.14.1.4 (E:5-191) Exosome complex exonuclease RRP42 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2je6a1 d.14.1.4 (A:1-191) Exosome complex exonuclease 2,ECX2 {Sulfolobus solfataricus [TaxId: 2287]} Back     information, alignment and structure
>d2nn6d1 d.14.1.4 (D:25-146) Exosome complex exonuclease RRP46 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2nn6c1 d.14.1.4 (C:7-187) Exosome complex exonuclease RRP43 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2nn6f1 d.14.1.4 (F:29-175) Exosome complex exonuclease MTR3 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2nn6a1 d.14.1.4 (A:1-184) Exosome complex exonuclease RRP45 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1e3ha2 d.14.1.4 (A:3-151) Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 1 and 4 {Streptomyces antibioticus [TaxId: 1890]} Back     information, alignment and structure
>d2ba0g2 d.101.1.1 (G:179-257) Exosome complex exonuclease 2, ECX2 {Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d2je6a2 d.101.1.1 (A:192-275) Exosome complex exonuclease 2, ECX2 {Sulfolobus solfataricus [TaxId: 2287]} Back     information, alignment and structure
>d2nn6e2 d.101.1.1 (E:192-285) Exosome complex exonuclease RRP42 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2nn6b2 d.101.1.1 (B:151-240) Exosome complex exonuclease RRP41 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2je6b2 d.101.1.1 (B:156-241) Exosome complex exonuclease 1, ECX1 {Sulfolobus solfataricus [TaxId: 2287]} Back     information, alignment and structure
>d2nn6a2 d.101.1.1 (A:185-302) Exosome complex exonuclease RRP45 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2nn6c2 d.101.1.1 (C:188-276) Exosome complex exonuclease RRP43 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2nn6d2 d.101.1.1 (D:147-235) Exosome complex exonuclease RRP46 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1r6la2 d.101.1.1 (A:152-239) Ribonuclease PH, domain 2 {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d2nn6f2 d.101.1.1 (F:176-270) Exosome complex exonuclease MTR3 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ba0d2 d.101.1.1 (D:154-252) Exosome complex exonuclease 1, ECX1 {Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d1oysa2 d.101.1.1 (A:152-237) Ribonuclease PH, domain 2 {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure
>d1udsa2 d.101.1.1 (A:151-255) Ribonuclease PH, domain 2 {Aquifex aeolicus [TaxId: 63363]} Back     information, alignment and structure
>d1e3ha6 d.101.1.1 (A:483-578) Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 2 and 5 {Streptomyces antibioticus [TaxId: 1890]} Back     information, alignment and structure
>d1e3ha5 d.101.1.1 (A:152-262) Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 2 and 5 {Streptomyces antibioticus [TaxId: 1890]} Back     information, alignment and structure