Citrus Sinensis ID: 036628

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----
PNPFLPQKLQDFDYFVVVDFEATCDKKIPHPQEIIEFPSVIVSGVTGQITVCFQIYALFLHDNWQQHMGVTPTNFAVVTWSDWDCQVMLESECRFKNIPKPSYFNRWINLRVPFSKGDVRCNLKEAVELGWHGRVHCGLDDSMNIARLLAVIMQRGFKFSITKSLTTPQDITQDSVMTWNRHHQFLVRQRKCTFQHTSRDPAEVEEFRYCFCGAKSFKKIIRKPGPKCGSFFFGCGNLTPNKGACCNYFHSATA
cccccccccccccEEEEEEEEEEccccccccccEEEEEEEEEEccccEEEEEEEEEEHHHHHHHHHHHcccccccEEEEccccHHHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHcccEEEEEcccccccccccccccccccccccccccccccccccccccccccccHHEEccccccccEEccccccccccEEEccccccccccccccEEEccc
cccccccccccccEEEEEEEEEccccccccccEEEEccEEEEEccccHHHHHHHHHHHHHHHHHHHHHccccccEEEEEcccccHHHHHHHHHHHccccccHHHHHHHHHHHHHcccccHHHHHHHccccEcccccccccHHHHHHHHHHHHHHcccEEEEEcccccccccccccccccccccccccccccccccccccccccccccccEEcccccccEEEEccccccccEEEcccccccccccccccEEEccc
pnpflpqklqdfdyFVVVDFEatcdkkiphpqeiiefpsvivsgvTGQITVCFQIYALFLhdnwqqhmgvtptnfaVVTWSDWDCQVMLEsecrfknipkpsyfnrwinlrvpfskgdvrcNLKEAVELgwhgrvhcglddSMNIARLLAVIMQRGFKFSitkslttpqditqdsVMTWNRHHQFLvrqrkctfqhtsrdpaeveeFRYCFCGAKSFkkiirkpgpkcgsfffgcgnltpnkgaccnyfhsata
pnpflpqklqdfDYFVVVDFEATCDKKIPHPQEIIEFPSVIVSGVTGQITVCFQIYALFLHDNWQQHMGVTPTNFAVVTWSDWDCQVMLESECRfknipkpsyfnrwINLRVPFSKGDVRCNLKEAVELGWHGRVHCGLDDSMNIARLLAVIMQRGFKFSitkslttpqditqdSVMTWNRHHQFlvrqrkctfqhtsrdpaeveeFRYCFCGAKSFKKIIRKPGPKCGSFFFGCGNLTPNKGACCNYFHSATA
PNPFLPQKLQDFDYFVVVDFEATCDKKIPHPQEIIEFPSVIVSGVTGQITVCFQIYALFLHDNWQQHMGVTPTNFAVVTWSDWDCQVMLESECRFKNIPKPSYFNRWINLRVPFSKGDVRCNLKEAVELGWHGRVHCGLDDSMNIARLLAVIMQRGFKFSITKSLTTPQDITQDSVMTWNRHHQFLVRQRKCTFQHTSRDPAEVEEFRYCFCGAKSFKKIIRKPGPKCGSFFFGCGNLTPNKGACCNYFHSATA
*******KLQDFDYFVVVDFEATCDKKIPHPQEIIEFPSVIVSGVTGQITVCFQIYALFLHDNWQQHMGVTPTNFAVVTWSDWDCQVMLESECRFKNIPKPSYFNRWINLRVPFSKGDVRCNLKEAVELGWHGRVHCGLDDSMNIARLLAVIMQRGFKFSITKSLTTPQDITQDSVMTWNRHHQFLVRQRKCTFQHTSRDPAEVEEFRYCFCGAKSFKKIIRKPGPKCGSFFFGCGNLTPNKGACCNYFH****
**********DFDYFVVVDFEATCDKKIPHPQEIIEFPSVIVSGVTGQITVCFQIYALFLHDNWQQHMGVTPTNFAVVTWSDWDCQVMLESECRFKNIPKPSYFNRWINLRVPFSKGDVRCNLKEAVELGWHGRVHCGLDDSMNIARLLAVIMQRGFKFSITKSLTTPQDIT*******************************VEEFRYCFCG***************GSFFFGCGNLTPNKGACCNYFHSAT*
PNPFLPQKLQDFDYFVVVDFEATCDKKIPHPQEIIEFPSVIVSGVTGQITVCFQIYALFLHDNWQQHMGVTPTNFAVVTWSDWDCQVMLESECRFKNIPKPSYFNRWINLRVPFSKGDVRCNLKEAVELGWHGRVHCGLDDSMNIARLLAVIMQRGFKFSITKSLTTPQDITQDSVMTWNRHHQFLVRQRKCTFQHTSRDPAEVEEFRYCFCGAKSFKKIIRKPGPKCGSFFFGCGNLTPNKGACCNYFHSATA
*****PQKLQDFDYFVVVDFEATCDKKIPHPQEIIEFPSVIVSGVTGQITVCFQIYALFLHDNWQQHMGVTPTNFAVVTWSDWDCQVMLESECRFKNIPKPSYFNRWINLRVPFSKGDVRCNLKEAVELGWHGRVHCGLDDSMNIARLLAVIMQRGFKFSITKSLTT************************CTFQHTSRDPAEVEEFRYCFCGAKSFKKIIRKPGPKCGSFFFGCGNLTPNKGACCNYFHSAT*
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
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oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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PNPFLPQKLQDFDYFVVVDFEATCDKKIPHPQEIIEFPSVIVSGVTGQITVCFQIYALFLHDNWQQHMGVTPTNFAVVTWSDWDCQVMLESECRFKNIPKPSYFNRWINLRVPFSKGDVRCNLKEAVELGWHGRVHCGLDDSMNIARLLAVIMQRGFKFSITKSLTTPQDITQDSVMTWNRHHQFLVRQRKCTFQHTSRDPAEVEEFRYCFCGAKSFKKIIRKPGPKCGSFFFGCGNLTPNKGACCNYFHSATA
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 ?
Query254 2.2.26 [Sep-21-2011]
Q8C460337 ERI1 exoribonuclease 3 OS yes no 0.622 0.468 0.328 2e-21
A6QLH5337 ERI1 exoribonuclease 3 OS yes no 0.606 0.456 0.324 5e-21
O43414337 ERI1 exoribonuclease 3 OS yes no 0.606 0.456 0.324 5e-21
A8K979 691 ERI1 exoribonuclease 2 OS no no 0.614 0.225 0.336 2e-20
Q5HZL1 687 ERI1 exoribonuclease 2 OS N/A no 0.622 0.229 0.324 1e-17
Q5BKS4 688 ERI1 exoribonuclease 2 OS no no 0.645 0.238 0.310 2e-17
Q8IV48349 3'-5' exoribonuclease 1 O no no 0.645 0.469 0.280 9e-15
Q7TMF2345 3'-5' exoribonuclease 1 O no no 0.649 0.478 0.272 1e-14
Q5FVR4345 3'-5' exoribonuclease 1 O no no 0.649 0.478 0.272 6e-14
Q502M8 555 ERI1 exoribonuclease 2 OS no no 0.594 0.272 0.298 8e-13
>sp|Q8C460|ERI3_MOUSE ERI1 exoribonuclease 3 OS=Mus musculus GN=Eri3 PE=1 SV=1 Back     alignment and function desciption
 Score =  102 bits (255), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 66/201 (32%), Positives = 92/201 (45%), Gaps = 43/201 (21%)

Query: 3   PFLPQKLQDFDYFVVVDFEATCDKKIPHPQEIIEFPSVIVSGVTGQITVCFQIYA----- 57
           PF PQ+   + YF+V+DFEATCDK   HPQEIIEFP + ++G T +I   F +Y      
Sbjct: 137 PFPPQR---YHYFLVLDFEATCDKPQIHPQEIIEFPILKLNGRTMEIESTFHMYVQPVVH 193

Query: 58  ---------------------------LFLHDNWQQHMGVTPTNFA--VVTWSDWDCQVM 88
                                      L   D W    G+   N     VT  DWD +VM
Sbjct: 194 PQLTPFCTELTGIIQAMVDGQPSLQQVLERVDEWMAKEGLLDPNVKSIFVTCGDWDLKVM 253

Query: 89  LESECRFKNIPKPSYFNRWINLRVPFS------KGDVRCNLKEAVELGWHGRVHCGLDDS 142
           L  +C +  +P   YF +WINL+  +S        +   ++ + + L   GR H G+DD 
Sbjct: 254 LPGQCHYLGLPVADYFKQWINLKKAYSFAMGCWPKNGLLDMNKGLSLQHIGRPHSGIDDC 313

Query: 143 MNIARLLAVIMQRGFKFSITK 163
            NIA ++  +  RGF F  T 
Sbjct: 314 KNIANIMKTLAYRGFIFKQTS 334

Mus musculus (taxid: 10090)
EC: 3EC: .EC: 1EC: .EC: -EC: .EC: -
>sp|A6QLH5|ERI3_BOVIN ERI1 exoribonuclease 3 OS=Bos taurus GN=ERI3 PE=2 SV=1 Back     alignment and function description
>sp|O43414|ERI3_HUMAN ERI1 exoribonuclease 3 OS=Homo sapiens GN=ERI3 PE=1 SV=2 Back     alignment and function description
>sp|A8K979|ERI2_HUMAN ERI1 exoribonuclease 2 OS=Homo sapiens GN=ERI2 PE=2 SV=2 Back     alignment and function description
>sp|Q5HZL1|ERI2_XENLA ERI1 exoribonuclease 2 OS=Xenopus laevis GN=eri2 PE=2 SV=1 Back     alignment and function description
>sp|Q5BKS4|ERI2_MOUSE ERI1 exoribonuclease 2 OS=Mus musculus GN=Eri2 PE=2 SV=1 Back     alignment and function description
>sp|Q8IV48|ERI1_HUMAN 3'-5' exoribonuclease 1 OS=Homo sapiens GN=ERI1 PE=1 SV=3 Back     alignment and function description
>sp|Q7TMF2|ERI1_MOUSE 3'-5' exoribonuclease 1 OS=Mus musculus GN=Eri1 PE=1 SV=2 Back     alignment and function description
>sp|Q5FVR4|ERI1_RAT 3'-5' exoribonuclease 1 OS=Rattus norvegicus GN=Eri1 PE=2 SV=1 Back     alignment and function description
>sp|Q502M8|ERI2_DANRE ERI1 exoribonuclease 2 OS=Danio rerio GN=eri2 PE=2 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 ?
Query254
356548831 414 PREDICTED: uncharacterized protein LOC10 0.960 0.589 0.512 4e-72
449458085 414 PREDICTED: 3'-5' exoribonuclease 1-like 0.956 0.586 0.524 4e-72
359487133 415 PREDICTED: uncharacterized protein LOC10 0.929 0.568 0.529 4e-71
296087843 520 unnamed protein product [Vitis vinifera] 0.929 0.453 0.529 4e-71
356556782 414 PREDICTED: uncharacterized protein LOC10 0.960 0.589 0.508 8e-71
357515343 415 ERI1 exoribonuclease [Medicago truncatul 0.944 0.578 0.517 6e-70
225435848 425 PREDICTED: uncharacterized protein LOC10 0.984 0.588 0.501 7e-70
255578253 409 conserved hypothetical protein [Ricinus 0.940 0.584 0.519 9e-69
224072947 399 predicted protein [Populus trichocarpa] 0.917 0.583 0.505 2e-68
118489625 409 unknown [Populus trichocarpa x Populus d 0.921 0.572 0.503 7e-68
>gi|356548831|ref|XP_003542802.1| PREDICTED: uncharacterized protein LOC100811151 [Glycine max] Back     alignment and taxonomy information
 Score =  277 bits (708), Expect = 4e-72,   Method: Compositional matrix adjust.
 Identities = 146/285 (51%), Positives = 178/285 (62%), Gaps = 41/285 (14%)

Query: 7   QKLQDFDYFVVVDFEATCDK-KIPHPQEIIEFPSVIVSGVTGQITVCFQIY--------- 56
           ++ Q+F YFVV+DFEATCDK K PHPQEIIEFPSVIVS +TGQ+  CFQ Y         
Sbjct: 132 EQYQEFQYFVVIDFEATCDKDKNPHPQEIIEFPSVIVSSITGQLEACFQTYVRPTCNQLL 191

Query: 57  -----------------------ALFLHDNWQQHMGVTPTNFAVVTWSDWDCQVMLESEC 93
                                  AL  HD W +  G+  +NFAVVTWS+WDC+VMLESEC
Sbjct: 192 SDFCKDLTGIQQIQVDRGVTLSEALLRHDKWLEKKGIKNSNFAVVTWSNWDCRVMLESEC 251

Query: 94  RFKNIPKPSYFNRWINLRVPFSK--GDVRCNLKEAVE---LGWHGRVHCGLDDSMNIARL 148
           RFK I KP YFNRWINLR+PF +  G V+CNLKEAVE   L W GR HCGLDD+ N ARL
Sbjct: 252 RFKKIRKPPYFNRWINLRIPFREVFGAVKCNLKEAVEIAGLAWQGRAHCGLDDAKNTARL 311

Query: 149 LAVIMQRGFKFSITKSLTTPQDITQDSVMTWNRHHQFLVRQRKCTFQHTSRDPAEVEEFR 208
           LA++M RGFKFSIT S+      T D  + W +  +  +    C ++        V+   
Sbjct: 312 LALLMHRGFKFSITNSIMWQ---TADRPLMWKQSPEQPIVFPHCPYKAKDITTPVVQYHP 368

Query: 209 YCFCGAKSFKKIIRKPGPKCGSFFFGCGNLTPNKGACCNYFHSAT 253
           +CFCG KS + ++RKPGPK GS FFGCGN T  +GA C+YF  A+
Sbjct: 369 FCFCGVKSSRGMVRKPGPKQGSLFFGCGNWTATRGARCHYFEWAS 413

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|449458085|ref|XP_004146778.1| PREDICTED: 3'-5' exoribonuclease 1-like [Cucumis sativus] gi|449511572|ref|XP_004163993.1| PREDICTED: 3'-5' exoribonuclease 1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|359487133|ref|XP_003633521.1| PREDICTED: uncharacterized protein LOC100853630 [Vitis vinifera] Back     alignment and taxonomy information
>gi|296087843|emb|CBI35099.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|356556782|ref|XP_003546701.1| PREDICTED: uncharacterized protein LOC100780340 [Glycine max] Back     alignment and taxonomy information
>gi|357515343|ref|XP_003627960.1| ERI1 exoribonuclease [Medicago truncatula] gi|355521982|gb|AET02436.1| ERI1 exoribonuclease [Medicago truncatula] gi|388515457|gb|AFK45790.1| unknown [Medicago truncatula] Back     alignment and taxonomy information
>gi|225435848|ref|XP_002262814.1| PREDICTED: uncharacterized protein LOC100263388 [Vitis vinifera] Back     alignment and taxonomy information
>gi|255578253|ref|XP_002529994.1| conserved hypothetical protein [Ricinus communis] gi|223530517|gb|EEF32399.1| conserved hypothetical protein [Ricinus communis] Back     alignment and taxonomy information
>gi|224072947|ref|XP_002303940.1| predicted protein [Populus trichocarpa] gi|222841372|gb|EEE78919.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|118489625|gb|ABK96614.1| unknown [Populus trichocarpa x Populus deltoides] 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 ?
Query254
UNIPROTKB|A8K979 691 ERI2 "ERI1 exoribonuclease 2" 0.354 0.130 0.442 2e-24
UNIPROTKB|E1BJE4 689 ERI2 "Uncharacterized protein" 0.492 0.181 0.371 1.7e-23
UNIPROTKB|F1P8R6 658 ERI2 "Uncharacterized protein" 0.354 0.136 0.410 1.4e-22
WB|WBGene00019724266 M02B7.2 [Caenorhabditis elegan 0.409 0.390 0.377 7.4e-22
MGI|MGI:1918401 688 Eri2 "exoribonuclease 2" [Mus 0.350 0.129 0.458 1.3e-21
RGD|1583889 687 Eri2 "ERI1 exoribonuclease fam 0.354 0.131 0.442 3.9e-21
WB|WBGene00019825266 R02D3.8 [Caenorhabditis elegan 0.409 0.390 0.359 4.6e-19
UNIPROTKB|E1BVJ4241 ERI2 "Uncharacterized protein" 0.346 0.365 0.419 7.6e-19
DICTYBASE|DDB_G0283113220 eriA "RNA exonuclease" [Dictyo 0.358 0.413 0.288 3.5e-17
ZFIN|ZDB-GENE-050522-292 555 zgc:111991 "zgc:111991" [Danio 0.523 0.239 0.323 1.1e-15
UNIPROTKB|A8K979 ERI2 "ERI1 exoribonuclease 2" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
 Score = 166 (63.5 bits), Expect = 2.0e-24, Sum P(3) = 2.0e-24
 Identities = 42/95 (44%), Positives = 54/95 (56%)

Query:    76 AVVTWSDWDCQVMLESECRFKNIPKPSYFNRWINLRVPFSKGDVRC--NLKEAV-ELG-- 130
             A VTWSDWD  V LE EC+ K + KP + N WI+LR  +     R    L  A+ E+G  
Sbjct:   148 AFVTWSDWDLGVCLEYECKRKQLLKPVFLNSWIDLRATYKLFYRRKPKGLSGALQEVGIE 207

Query:   131 WHGRVHCGLDDSMNIARLLAVIMQRGFKFSITKSL 165
             + GR H GLDDS N A L   +++ G    IT+SL
Sbjct:   208 FSGREHSGLDDSRNTALLAWKMIRDGCVMKITRSL 242
GO:0003676 "nucleic acid binding" evidence=IEA
GO:0005622 "intracellular" evidence=IEA
GO:0008270 "zinc ion binding" evidence=IEA
GO:0004527 "exonuclease activity" evidence=IEA
UNIPROTKB|E1BJE4 ERI2 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|F1P8R6 ERI2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
WB|WBGene00019724 M02B7.2 [Caenorhabditis elegans (taxid:6239)] Back     alignment and assigned GO terms
MGI|MGI:1918401 Eri2 "exoribonuclease 2" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
RGD|1583889 Eri2 "ERI1 exoribonuclease family member 2" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
WB|WBGene00019825 R02D3.8 [Caenorhabditis elegans (taxid:6239)] Back     alignment and assigned GO terms
UNIPROTKB|E1BVJ4 ERI2 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0283113 eriA "RNA exonuclease" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-050522-292 zgc:111991 "zgc:111991" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

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

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query254
cd06133176 cd06133, ERI-1_3'hExo_like, DEDDh 3'-5' exonucleas 3e-32
PTZ00315 582 PTZ00315, PTZ00315, 2'-phosphotransferase; Provisi 6e-17
COG5018210 COG5018, KapD, Inhibitor of the KinA pathway to sp 8e-07
pfam00929161 pfam00929, RNase_T, Exonuclease 2e-05
smart00479169 smart00479, EXOIII, exonuclease domain in DNA-poly 2e-04
PRK07748207 PRK07748, PRK07748, sporulation inhibitor KapD; Pr 8e-04
>gnl|CDD|99836 cd06133, ERI-1_3'hExo_like, DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins Back     alignment and domain information 
 Score =  115 bits (291), Expect = 3e-32
 Identities = 58/176 (32%), Positives = 87/176 (49%), Gaps = 37/176 (21%)

Query: 15  FVVVDFEATCDKKIP---HPQEIIEFPSVIVSGVTGQITVCFQIY-----ALFLHDNWQQ 66
           ++V+DFEATC +      +P EIIE  +V+V   T +I   F  Y        L D   +
Sbjct: 1   YLVIDFEATCWEGNSKPDYPNEIIEIGAVLVDVKTKEIIDTFSSYVKPVINPKLSDFCTE 60

Query: 67  HMGVTPT-----------------------NFAVVTWSDWDCQVMLESECRFKNIPKPSY 103
             G+T                          +A VTW DWD + +L+++C++K I  P +
Sbjct: 61  LTGITQEDVDNAPSFPEVLKEFLEWLGKNGKYAFVTWGDWDLKDLLQNQCKYKIINLPPF 120

Query: 104 FNRWINLRVPFSK---GDVRCNLKEAVE-LGWH--GRVHCGLDDSMNIARLLAVIM 153
           F +WI+L+  F+K      R  L +A+E LG    GR H GLDD+ NIAR+L  ++
Sbjct: 121 FRQWIDLKKEFAKFYGLKKRTGLSKALEYLGLEFEGRHHRGLDDARNIARILKRLL 176

This subfamily is composed of Caenorhabditis elegans ERI-1, human 3' exonuclease (3'hExo), Drosophila exonuclease snipper (snp), and similar proteins from eukaryotes and bacteria. These are DEDDh-type DnaQ-like 3'-5' exonucleases containing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. ERI-1 has been implicated in the degradation of small interfering RNAs (RNAi). 3'hExo participates in the degradation of histone mRNAs. Snp is a non-essential exonuclease that efficiently degrades structured RNA and DNA substrates as long as there is a minimum of 2 nucleotides in the 3' overhang to initiate degradation. Snp is not a functional homolog of either ERI-1 or 3'hExo. Length = 176
>gnl|CDD|240356 PTZ00315, PTZ00315, 2'-phosphotransferase; Provisional Back     alignment and domain information
>gnl|CDD|227351 COG5018, KapD, Inhibitor of the KinA pathway to sporulation, predicted exonuclease [General function prediction only] Back     alignment and domain information
>gnl|CDD|216200 pfam00929, RNase_T, Exonuclease Back     alignment and domain information
>gnl|CDD|214685 smart00479, EXOIII, exonuclease domain in DNA-polymerase alpha and epsilon chain, ribonuclease T and other exonucleases Back     alignment and domain information
>gnl|CDD|236087 PRK07748, PRK07748, sporulation inhibitor KapD; Provisional Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 254
KOG0542280 consensus Predicted exonuclease [Replication, reco 100.0
PTZ00315 582 2'-phosphotransferase; Provisional 99.97
PRK07748207 sporulation inhibitor KapD; Provisional 99.94
COG5018210 KapD Inhibitor of the KinA pathway to sporulation, 99.93
PRK06722281 exonuclease; Provisional 99.93
cd06133176 ERI-1_3'hExo_like DEDDh 3'-5' exonuclease domain o 99.91
smart00479169 EXOIII exonuclease domain in DNA-polymerase alpha 99.88
PRK06807313 DNA polymerase III subunit epsilon; Validated 99.87
cd06131167 DNA_pol_III_epsilon_Ecoli_like DEDDh 3'-5' exonucl 99.86
PRK08517257 DNA polymerase III subunit epsilon; Provisional 99.85
TIGR01406225 dnaQ_proteo DNA polymerase III, epsilon subunit, P 99.85
PRK06063313 DNA polymerase III subunit epsilon; Provisional 99.84
cd06130156 DNA_pol_III_epsilon_like an uncharacterized bacter 99.84
PRK06195309 DNA polymerase III subunit epsilon; Validated 99.83
PRK05711240 DNA polymerase III subunit epsilon; Provisional 99.83
PRK09145202 DNA polymerase III subunit epsilon; Validated 99.83
PRK05168211 ribonuclease T; Provisional 99.83
PRK07740244 hypothetical protein; Provisional 99.82
PRK07942232 DNA polymerase III subunit epsilon; Provisional 99.82
cd06134189 RNaseT DEDDh 3'-5' exonuclease domain of RNase T. 99.82
TIGR00573217 dnaq exonuclease, DNA polymerase III, epsilon subu 99.8
COG2176 1444 PolC DNA polymerase III, alpha subunit (gram-posit 99.8
PRK07883 557 hypothetical protein; Validated 99.8
PRK07247195 DNA polymerase III subunit epsilon; Validated 99.8
TIGR01298200 RNaseT ribonuclease T. in gamma-subdivision Proteo 99.79
PRK06310250 DNA polymerase III subunit epsilon; Validated 99.79
cd06127159 DEDDh DEDDh 3'-5' exonuclease domain family. DEDDh 99.78
cd06135173 Orn DEDDh 3'-5' exonuclease domain of oligoribonuc 99.76
PRK07246 820 bifunctional ATP-dependent DNA helicase/DNA polyme 99.76
PRK08074 928 bifunctional ATP-dependent DNA helicase/DNA polyme 99.76
PRK06309232 DNA polymerase III subunit epsilon; Validated 99.76
TIGR01405 1213 polC_Gram_pos DNA polymerase III, alpha chain, Gra 99.76
cd06136177 TREX1_2 DEDDh 3'-5' exonuclease domain of three pr 99.76
PRK09146239 DNA polymerase III subunit epsilon; Validated 99.75
TIGR01407 850 dinG_rel DnaQ family exonuclease/DinG family helic 99.74
PRK05601377 DNA polymerase III subunit epsilon; Validated 99.74
cd06138183 ExoI_N N-terminal DEDDh 3'-5' exonuclease domain o 99.7
PF00929164 RNase_T: Exonuclease; InterPro: IPR013520 This ent 99.69
PRK09182294 DNA polymerase III subunit epsilon; Validated 99.65
PRK07983219 exodeoxyribonuclease X; Provisional 99.63
PRK00448 1437 polC DNA polymerase III PolC; Validated 99.62
PRK05359181 oligoribonuclease; Provisional 99.61
COG0847243 DnaQ DNA polymerase III, epsilon subunit and relat 99.6
PRK11779 476 sbcB exonuclease I; Provisional 99.55
cd06137161 DEDDh_RNase DEDDh 3'-5' exonuclease domain of the 99.5
cd06144152 REX4_like DEDDh 3'-5' exonuclease domain of RNA ex 99.46
PF0683945 zf-GRF: GRF zinc finger; InterPro: IPR010666 Zinc 99.44
cd06149157 ISG20 DEDDh 3'-5' exonuclease domain of Interferon 99.39
cd06145150 REX1_like DEDDh 3'-5' exonuclease domain of RNA ex 99.33
PHA02570220 dexA exonuclease; Provisional 99.28
cd0612596 DnaQ_like_exo DnaQ-like (or DEDD) 3'-5' exonucleas 99.0
COG1949184 Orn Oligoribonuclease (3'-5' exoribonuclease) [RNA 98.39
PF13482164 RNase_H_2: RNase_H superfamily; PDB: 1TKD_A 1TK5_A 98.38
cd05160199 DEDDy_DNA_polB_exo DEDDy 3'-5' exonuclease domain 98.14
KOG1956758 consensus DNA topoisomerase III alpha [Replication 97.9
cd05782208 DNA_polB_like1_exo Uncharacterized bacterial subgr 97.72
cd05781188 DNA_polB_B3_exo DEDDy 3'-5' exonuclease domain of 97.62
KOG3242208 consensus Oligoribonuclease (3'->5' exoribonucleas 97.6
cd05780195 DNA_polB_Kod1_like_exo DEDDy 3'-5' exonuclease dom 97.42
KOG0304239 consensus mRNA deadenylase subunit [RNA processing 97.31
PF04857262 CAF1: CAF1 family ribonuclease; InterPro: IPR00694 97.28
TIGR03491457 RecB family nuclease, putative, TM0106 family. Mem 97.17
COG3359278 Predicted exonuclease [DNA replication, recombinat 97.16
PF10108209 DNA_pol_B_exo2: Predicted 3'-5' exonuclease relate 97.05
PRK05755 880 DNA polymerase I; Provisional 96.73
COG2925 475 SbcB Exonuclease I [DNA replication, recombination 96.31
cd05783204 DNA_polB_B1_exo DEDDy 3'-5' exonuclease domain of 95.69
cd05779204 DNA_polB_epsilon_exo DEDDy 3'-5' exonuclease domai 95.08
cd06139193 DNA_polA_I_Ecoli_like_exo DEDDy 3'-5' exonuclease 94.62
cd05785207 DNA_polB_like2_exo Uncharacterized bacterial subgr 94.32
cd06143174 PAN2_exo DEDDh 3'-5' exonuclease domain of the euk 93.21
COG5228299 POP2 mRNA deadenylase subunit [RNA processing and 92.65
cd05777230 DNA_polB_delta_exo DEDDy 3'-5' exonuclease domain 91.84
KOG2249280 consensus 3'-5' exonuclease [Replication, recombin 90.69
PF03104325 DNA_pol_B_exo1: DNA polymerase family B, exonuclea 88.79
cd05784193 DNA_polB_II_exo DEDDy 3'-5' exonuclease domain of 85.79
KOG1798 2173 consensus DNA polymerase epsilon, catalytic subuni 85.36
smart00486 471 POLBc DNA polymerase type-B family. DNA polymerase 83.93
PHA02563 630 DNA polymerase; Provisional 83.52
PTZ00166 1054 DNA polymerase delta catalytic subunit; Provisiona 82.47
PF0139639 zf-C4_Topoisom: Topoisomerase DNA binding C4 zinc 82.1
>KOG0542 consensus Predicted exonuclease [Replication, recombination and repair] Back     alignment and domain information 
Probab=100.00  E-value=7.4e-40  Score=288.49  Aligned_cols=162  Identities=38%  Similarity=0.671  Sum_probs=141.0

Q ss_pred             CCCCCCeEEEEEEeecCCC-CC-CCCCcEEEEceEEEEc-CCCeEEEEEEEe----------------------------
Q 036628            8 KLQDFDYFVVVDFEATCDK-KI-PHPQEIIEFPSVIVSG-VTGQITVCFQIY----------------------------   56 (254)
Q Consensus         8 ~~q~~~~fvViDlEtTg~~-~~-~~~~EIIEIgAV~vD~-~~g~iv~~F~~~----------------------------   56 (254)
                      .+|+|||++||||||||++ +. .+.+|||||+||++|. ++++|.++||+|                            
T Consensus        51 ~~q~fdYLliiDFEaTC~e~~~~~~~~EIIEfP~V~l~~~~~~~Ie~eF~qYVrP~~np~LS~fC~~lTgI~Q~tVD~a~  130 (280)
T KOG0542|consen   51 LSQPFDYLLILDFEATCEEGNKPHYVQEIIEFPAVLLDNTETSIIEDEFHQYVRPVENPRLSDFCTSLTGIQQETVDEAP  130 (280)
T ss_pred             ccCccceEEEEeeeeeccccCCCCcchheeecceeEeeccchhhHHHHHHhhcCcccCchHHHHHHHhhCchHhhhccCC
Confidence            4589999999999999999 44 3689999999996665 556666699999                            


Q ss_pred             ----ehhhHHHHhhhcCCC--CCCeEEEEcCcccHHHHHHHHHHHcCCCCCCCCchhhhhHHHhcC--CC-C---cccHH
Q 036628           57 ----ALFLHDNWQQHMGVT--PTNFAVVTWSDWDCQVMLESECRFKNIPKPSYFNRWINLRVPFSK--GD-V---RCNLK  124 (254)
Q Consensus        57 ----vl~~f~~wl~~~gi~--~~~~~~vt~g~fD~~~fL~~e~~~~gi~~P~~~~~~iDlr~~f~~--~~-~---~~~L~  124 (254)
                          |+.+|..||.+.++.  +++++|||||+|||..||+.||++++|.+|.||++|||+|+.|..  ++ .   ..+|.
T Consensus       131 ~f~~vl~~f~~Wlr~~~~~~k~~~~Afvtdg~wDl~~~l~~qck~~~i~~P~~f~qwInirk~yk~~y~~~~~t~it~mL  210 (280)
T KOG0542|consen  131 TFPQVLSEFDSWLRKDSLGDKNGKFAFVTDGDWDLWVFLQYQCKLKNIRIPAFFNQWINIRKIYKNFYNRPAPTNITGML  210 (280)
T ss_pred             CHHHHHHHHHHHHHHhhcccccCceEEEeCchhhHHHHHHHHHHHhcCCCcHHHHHHhHHHHHHHHHhcCccccCHHHHH
Confidence                578999999987654  379999999999999999999999999999999999999999988  33 2   24678


Q ss_pred             HHhcCCCCCCCCchHHHHHHHHHHHHHHHHcCCccCcC--cccccCC
Q 036628          125 EAVELGWHGRVHCGLDDSMNIARLLAVIMQRGFKFSIT--KSLTTPQ  169 (254)
Q Consensus       125 ~~l~i~~eG~~HrALdDA~ntA~l~~~ll~~g~~f~~~--~~~~~~~  169 (254)
                      +++|++++|++|+|||||+|+|+|+.+|+++|++|+||  .++...+
T Consensus       211 e~~gL~f~Gr~HsGiDDa~Nia~I~~kM~~dg~~~~In~~~~~~~~q  257 (280)
T KOG0542|consen  211 EHYGLQFEGRAHSGIDDARNIARIAQKMIRDGAEFRINELCDLWERQ  257 (280)
T ss_pred             HHhCCcccCCcccCchhHHHHHHHHHHHHhCCcEEEechhhhhcccC
Confidence            88999999999999999999999999999999999999  4444443

>PTZ00315 2'-phosphotransferase; Provisional Back     alignment and domain information
>PRK07748 sporulation inhibitor KapD; Provisional Back     alignment and domain information
>COG5018 KapD Inhibitor of the KinA pathway to sporulation, predicted exonuclease [General function prediction only] Back     alignment and domain information
>PRK06722 exonuclease; Provisional Back     alignment and domain information
>cd06133 ERI-1_3'hExo_like DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins Back     alignment and domain information
>smart00479 EXOIII exonuclease domain in DNA-polymerase alpha and epsilon chain, ribonuclease T and other exonucleases Back     alignment and domain information
>PRK06807 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>cd06131 DNA_pol_III_epsilon_Ecoli_like DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins Back     alignment and domain information
>PRK08517 DNA polymerase III subunit epsilon; Provisional Back     alignment and domain information
>TIGR01406 dnaQ_proteo DNA polymerase III, epsilon subunit, Proteobacterial Back     alignment and domain information
>PRK06063 DNA polymerase III subunit epsilon; Provisional Back     alignment and domain information
>cd06130 DNA_pol_III_epsilon_like an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III Back     alignment and domain information
>PRK06195 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK05711 DNA polymerase III subunit epsilon; Provisional Back     alignment and domain information
>PRK09145 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK05168 ribonuclease T; Provisional Back     alignment and domain information
>PRK07740 hypothetical protein; Provisional Back     alignment and domain information
>PRK07942 DNA polymerase III subunit epsilon; Provisional Back     alignment and domain information
>cd06134 RNaseT DEDDh 3'-5' exonuclease domain of RNase T Back     alignment and domain information
>TIGR00573 dnaq exonuclease, DNA polymerase III, epsilon subunit family Back     alignment and domain information
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair] Back     alignment and domain information
>PRK07883 hypothetical protein; Validated Back     alignment and domain information
>PRK07247 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>TIGR01298 RNaseT ribonuclease T Back     alignment and domain information
>PRK06310 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>cd06127 DEDDh DEDDh 3'-5' exonuclease domain family Back     alignment and domain information
>cd06135 Orn DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins Back     alignment and domain information
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK06309 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>TIGR01405 polC_Gram_pos DNA polymerase III, alpha chain, Gram-positive type Back     alignment and domain information
>cd06136 TREX1_2 DEDDh 3'-5' exonuclease domain of three prime repair exonuclease (TREX)1, TREX2, and similar proteins Back     alignment and domain information
>PRK09146 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative Back     alignment and domain information
>PRK05601 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>cd06138 ExoI_N N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins Back     alignment and domain information
>PF00929 RNase_T: Exonuclease; InterPro: IPR013520 This entry includes a variety of exonuclease proteins, such as ribonuclease T [] and the epsilon subunit of DNA polymerase III Back     alignment and domain information
>PRK09182 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK07983 exodeoxyribonuclease X; Provisional Back     alignment and domain information
>PRK00448 polC DNA polymerase III PolC; Validated Back     alignment and domain information
>PRK05359 oligoribonuclease; Provisional Back     alignment and domain information
>COG0847 DnaQ DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair] Back     alignment and domain information
>PRK11779 sbcB exonuclease I; Provisional Back     alignment and domain information
>cd06137 DEDDh_RNase DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonucleases PAN2, RNA exonuclease (REX)-1,-3, and -4, ISG20, and similar proteins Back     alignment and domain information
>cd06144 REX4_like DEDDh 3'-5' exonuclease domain of RNA exonuclease 4, XPMC2, Interferon Stimulated Gene product of 20 kDa, and similar proteins Back     alignment and domain information
>PF06839 zf-GRF: GRF zinc finger; InterPro: IPR010666 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule Back     alignment and domain information
>cd06149 ISG20 DEDDh 3'-5' exonuclease domain of Interferon Stimulated Gene product of 20 kDa, and similar proteins Back     alignment and domain information
>cd06145 REX1_like DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins Back     alignment and domain information
>PHA02570 dexA exonuclease; Provisional Back     alignment and domain information
>cd06125 DnaQ_like_exo DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily Back     alignment and domain information
>COG1949 Orn Oligoribonuclease (3'-5' exoribonuclease) [RNA processing and modification] Back     alignment and domain information
>PF13482 RNase_H_2: RNase_H superfamily; PDB: 1TKD_A 1TK5_A 2AJQ_F 1T8E_A 1T7P_A 1SKR_A 1X9W_A 1TK8_A 1TK0_A 1SL2_A Back     alignment and domain information
>cd05160 DEDDy_DNA_polB_exo DEDDy 3'-5' exonuclease domain of family-B DNA polymerases Back     alignment and domain information
>KOG1956 consensus DNA topoisomerase III alpha [Replication, recombination and repair] Back     alignment and domain information
>cd05782 DNA_polB_like1_exo Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases Back     alignment and domain information
>cd05781 DNA_polB_B3_exo DEDDy 3'-5' exonuclease domain of Sulfurisphaera ohwakuensis DNA polymerase B3 and similar archaeal family-B DNA polymerases Back     alignment and domain information
>KOG3242 consensus Oligoribonuclease (3'->5' exoribonuclease) [RNA processing and modification] Back     alignment and domain information
>cd05780 DNA_polB_Kod1_like_exo DEDDy 3'-5' exonuclease domain of Pyrococcus kodakaraensis Kod1 and similar archaeal family-B DNA polymerases Back     alignment and domain information
>KOG0304 consensus mRNA deadenylase subunit [RNA processing and modification] Back     alignment and domain information
>PF04857 CAF1: CAF1 family ribonuclease; InterPro: IPR006941 CAF1 is an RNase of the DEDD superfamily, and a subunit of the Ccr4-Not complex that mediates 3' to 5' mRNA deadenylation Back     alignment and domain information
>TIGR03491 RecB family nuclease, putative, TM0106 family Back     alignment and domain information
>COG3359 Predicted exonuclease [DNA replication, recombination, and repair] Back     alignment and domain information
>PF10108 DNA_pol_B_exo2: Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; InterPro: IPR019288 This entry represents various prokaryotic 3'-5' exonucleases and hypothetical proteins Back     alignment and domain information
>PRK05755 DNA polymerase I; Provisional Back     alignment and domain information
>COG2925 SbcB Exonuclease I [DNA replication, recombination, and repair] Back     alignment and domain information
>cd05783 DNA_polB_B1_exo DEDDy 3'-5' exonuclease domain of Sulfolobus solfataricus DNA polymerase B1 and similar archaeal family-B DNA polymerases Back     alignment and domain information
>cd05779 DNA_polB_epsilon_exo DEDDy 3'-5' exonuclease domain of eukaryotic DNA polymerase epsilon, a family-B DNA polymerase Back     alignment and domain information
>cd06139 DNA_polA_I_Ecoli_like_exo DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases Back     alignment and domain information
>cd05785 DNA_polB_like2_exo Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases Back     alignment and domain information
>cd06143 PAN2_exo DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonuclease PAN2 Back     alignment and domain information
>COG5228 POP2 mRNA deadenylase subunit [RNA processing and modification] Back     alignment and domain information
>cd05777 DNA_polB_delta_exo DEDDy 3'-5' exonuclease domain of eukaryotic DNA polymerase delta, a family-B DNA polymerase Back     alignment and domain information
>KOG2249 consensus 3'-5' exonuclease [Replication, recombination and repair] Back     alignment and domain information
>PF03104 DNA_pol_B_exo1: DNA polymerase family B, exonuclease domain Several related DNA polymerases were too dissimilar to be included Back     alignment and domain information
>cd05784 DNA_polB_II_exo DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases Back     alignment and domain information
>KOG1798 consensus DNA polymerase epsilon, catalytic subunit A [Replication, recombination and repair] Back     alignment and domain information
>smart00486 POLBc DNA polymerase type-B family Back     alignment and domain information
>PHA02563 DNA polymerase; Provisional Back     alignment and domain information
>PTZ00166 DNA polymerase delta catalytic subunit; Provisional Back     alignment and domain information
>PF01396 zf-C4_Topoisom: Topoisomerase DNA binding C4 zinc finger; InterPro: IPR013498 DNA topoisomerases regulate the number of topological links between two DNA strands (i 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 ?
Query254
2xri_A224 Crystal Structure Of Human Eri1 Exoribonuclease 3 L 4e-22
1zbh_A299 3'-End Specific Recognition Of Histone Mrna Stem-Lo 9e-15
1zbu_A349 Crystal Structure Of Full-Length 3'-Exonuclease Len 1e-14
4hxh_B303 Structure Of Mrna Stem-loop, Human Stem-loop Bindin 1e-14
1w0h_A204 Crystallographic Structure Of The Nuclease Domain O 3e-14
3cg7_A308 Crystal Structure Of Cell-Death Related Nuclease 4 3e-06
>pdb|2XRI|A Chain A, Crystal Structure Of Human Eri1 Exoribonuclease 3 Length = 224 Back     alignment and structure 
Iteration: 1

 Score =  101 bits (252), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 63/193 (32%), Positives = 89/193 (46%), Gaps = 40/193 (20%)
Query: 10  QDFDYFVVVDFEATCDKKIPHPQEIIEFPSVIVSGVTGQITVCFQIYA------------ 57
           Q + YF+V+DFEATCDK   HPQEIIEFP + ++G T +I   F +Y             
Sbjct: 28  QRYHYFLVLDFEATCDKPQIHPQEIIEFPILKLNGRTMEIESTFHMYVQPVVHPQLTPFC 87
Query: 58  --------------------LFLHDNWQQHMGVTPTNFA--VVTWSDWDCQVMLESECRF 95
                               L   D W    G+   N     VT  DWD +VML  +C++
Sbjct: 88  TELTGIIQAMVDGQPSLQQVLERVDEWMAKEGLLDPNVKSIFVTCGDWDLKVMLPGQCQY 147
Query: 96  KNIPKPSYFNRWINLRVPFS------KGDVRCNLKEAVELGWHGRVHCGLDDSMNIARLL 149
             +P   YF +WINL+  +S        +   ++ + + L   GR H G+DD  NIA ++
Sbjct: 148 LGLPVADYFKQWINLKKAYSFAMGCWPKNGLLDMNKGLSLQHIGRPHSGIDDCKNIANIM 207
Query: 150 AVIMQRGFKFSIT 162
             +  RGF F  T
Sbjct: 208 KTLAYRGFIFKQT 220
>pdb|1ZBH|A Chain A, 3'-End Specific Recognition Of Histone Mrna Stem-Loop By 3'- Exonuclease Length = 299 Back     alignment and structure
>pdb|1ZBU|A Chain A, Crystal Structure Of Full-Length 3'-Exonuclease Length = 349 Back     alignment and structure
>pdb|4HXH|B Chain B, Structure Of Mrna Stem-loop, Human Stem-loop Binding Protein And 3'hexo Ternary Complex Length = 303 Back     alignment and structure
>pdb|1W0H|A Chain A, Crystallographic Structure Of The Nuclease Domain Of 3'hexo, A Deddh Family Member, Bound To Ramp Length = 204 Back     alignment and structure
>pdb|3CG7|A Chain A, Crystal Structure Of Cell-Death Related Nuclease 4 (Crn-4) Length = 308 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 ?
Query254
1zbh_A299 3'-5' exonuclease ERI1; histone mRNA 3'-END-specif 7e-44
1zbu_A349 ERI-1 homolog, 3'-5' exonuclease ERI1; hydrolase; 5e-43
1w0h_A204 3'-5' exonuclease ERI1; nuclease domain, hydrolase 2e-42
2xri_A224 ERI1 exoribonuclease 3; hydrolase, metal binding; 5e-42
3cg7_A308 CRN-4, cell death-related nuclease 4; hydrolase, a 1e-41
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-08
>1zbh_A 3'-5' exonuclease ERI1; histone mRNA 3'-END-specific recognition, structures of 3'- exonuclease and ITS RNA complex, hydrolase/RNA complex; HET: AMP; 3.00A {Homo sapiens} Length = 299 Back     alignment and structure
 Score =  149 bits (377), Expect = 7e-44
 Identities = 51/215 (23%), Positives = 86/215 (40%), Gaps = 42/215 (19%)

Query: 10  QDFDYFVVVDFEATCD--KKIPHPQEIIEFPSVIVSGVTGQITVCFQIY----------- 56
             +DY  ++DFEATC+         EIIEFP V+++  T +I   FQ Y           
Sbjct: 75  SYYDYICIIDFEATCEEGNPPEFVHEIIEFPVVLLNTHTLEIEDTFQQYVRPEINTQLSD 134

Query: 57  ---------------------ALFLHDNW-QQHMGVTPTNFAVVTWSDWDCQVMLESECR 94
                                 L    +  +     T   ++++T   WD    L  +C+
Sbjct: 135 FCISLTGITQDQVDRADTFPQVLKKVIDLMKLKELGTKYKYSLLTDGSWDMSKFLNIQCQ 194

Query: 95  FKNIPKPSYFNRWINLRVPFSK----GDVRCNLKEAVE---LGWHGRVHCGLDDSMNIAR 147
              +  P +  +WIN+R  +         +  L   +E   + + GR +CGLDDS NIAR
Sbjct: 195 LSRLKYPPFAKKWINIRKSYGNFYKVPRSQTKLTIMLEKLGMDYDGRPNCGLDDSKNIAR 254

Query: 148 LLAVIMQRGFKFSITKSLTTPQDITQDSVMTWNRH 182
           +   ++Q G +  I + +   Q ++  S +     
Sbjct: 255 IAVRMLQDGCELRINEKMHAGQLMSVSSSLPIEGT 289
>1zbu_A ERI-1 homolog, 3'-5' exonuclease ERI1; hydrolase; HET: AMP; 3.00A {Homo sapiens} Length = 349 Back     alignment and structure
>1w0h_A 3'-5' exonuclease ERI1; nuclease domain, hydrolase; HET: AMP; 1.59A {Homo sapiens} SCOP: c.55.3.5 Length = 204 Back     alignment and structure
>2xri_A ERI1 exoribonuclease 3; hydrolase, metal binding; 2.15A {Homo sapiens} Length = 224 Back     alignment and structure
>3cg7_A CRN-4, cell death-related nuclease 4; hydrolase, apoptosis, 3'-5' exonuclease, deddh; 2.50A {Caenorhabditis elegans} PDB: 3cm5_A 3cm6_A Length = 308 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 ?
Query254
3cg7_A308 CRN-4, cell death-related nuclease 4; hydrolase, a 99.98
2xri_A224 ERI1 exoribonuclease 3; hydrolase, metal binding; 99.96
1w0h_A204 3'-5' exonuclease ERI1; nuclease domain, hydrolase 99.96
1zbh_A299 3'-5' exonuclease ERI1; histone mRNA 3'-END-specif 99.96
1zbu_A349 ERI-1 homolog, 3'-5' exonuclease ERI1; hydrolase; 99.95
2gui_A194 DNA polymerase III epsilon subunit; DNA polymerase 99.88
2p1j_A186 POLIII, DNA polymerase III POLC-type; structural g 99.88
2f96_A224 Ribonuclease T; RNAse, RNT, RNAse T, tRNA hydrolas 99.86
3v9w_A235 Ribonuclease T; DEDD nucleases family, EXO-nucleas 99.82
3mxm_B242 Three prime repair exonuclease 1; RNAse H-like fol 99.82
1y97_A238 Three prime repair exonuclease 2; TREX2, hydrolase 99.82
3u3y_B314 Three prime repair exonuclease 1; RNAse H fold, 3' 99.78
2igi_A180 Oligoribonuclease; RNAse, exoribonuclease, exonucl 99.77
2gbz_A194 Oligoribonuclease; ORN, deddh, structural genomics 99.72
2qxf_A 482 Exodeoxyribonuclease I; alpha-beta domain, DNAQ su 99.7
3tr8_A186 Oligoribonuclease; transcription, hydrolase; 2.50A 99.69
1wlj_A189 Interferon stimulated gene 20KDA; exoribonuclease, 99.64
4hec_A190 Putative uncharacterized protein; ssgcid, structur 98.38
4gmj_B285 CCR4-NOT transcription complex subunit 7; mRNA dec 98.07
2d5r_A252 CCR4-NOT transcription complex subunit 7; poly(A) 97.79
2kfn_A 605 Klenow fragment of DNA polymerase I; complex (poly 97.63
2p51_A333 SPCC18.06C protein; DEDD nuclease fold, hydrolase, 97.55
1x9m_A 698 DNA polymerase; DNA ploymerase, N-2-acetylaminoflu 97.55
1uoc_A289 POP2; hydrolase, DEDD nuclease, mRNA degradation, 97.47
1qht_A 775 Protein (DNA polymerase); archaea, hyperthermostab 96.29
3iay_A 919 DNA polymerase delta catalytic subunit; protein-DN 94.39
2gv9_A 1193 DNA polymerase; polymerase alpha fold, transferase 93.05
1s5j_A 847 DNA polymerase I; replication, disulfide bonds, tr 92.39
1noy_A388 Protein (DNA polymerase (E.C.2.7.7.7)); exonucleas 92.32
4dfk_A 540 DNA polymerase I, thermostable; DNA polymerase, tr 87.33
2py5_A 575 DNA polymerase; protein-DNA complex, replication, 82.67
>3cg7_A CRN-4, cell death-related nuclease 4; hydrolase, apoptosis, 3'-5' exonuclease, deddh; 2.50A {Caenorhabditis elegans} PDB: 3cm5_A 3cm6_A Back     alignment and structure
Probab=99.98  E-value=9e-32  Score=246.03  Aligned_cols=214  Identities=23%  Similarity=0.302  Sum_probs=160.1

Q ss_pred             CCCCCCeEEEEEEeecCCC-CCCCCCcEEEEceEEEEcCCCeEEE--EEEEe----------------------------
Q 036628            8 KLQDFDYFVVVDFEATCDK-KIPHPQEIIEFPSVIVSGVTGQITV--CFQIY----------------------------   56 (254)
Q Consensus         8 ~~q~~~~fvViDlEtTg~~-~~~~~~EIIEIgAV~vD~~~g~iv~--~F~~~----------------------------   56 (254)
                      ..+.|++|||||+||||++ ...+++||||||||++|.++|+|++  +|++|                            
T Consensus        14 ~~~~~~~~vviD~ETTGl~~~~d~~~eIIEIgaV~vd~~~g~i~~~~~f~~lV~P~~~p~i~~~~~~ltGIt~e~v~~ap   93 (308)
T 3cg7_A           14 QHCPFDTLLILDFETTSDAANQDYPCEVIQFAIVAYDVPNDKIREDISFNKYVKPVLNRTLTKNCVDFTGIPQRSIDTAD   93 (308)
T ss_dssp             CCCCCSEEEEEEEEECCBTTBCSCCCCEEEEEEEEEETTTTEEEEEEEEEEECBCSSBCSCCHHHHHHHCCCHHHHHTSC
T ss_pred             ccCCCCeEEEEEeecCCCCCCCCCCCCeEEEEEEEEEcCCCEEeeccceeeEECCCCCCCCCHHHHHHcCCCHHHHhcCC
Confidence            3468999999999999987 2223459999999999987999998  99999                            


Q ss_pred             ----ehhhHHHHhhhcCCCCCCeEEEEcCcccHHHHHHHHHHHcCCCCCCCCchhhhhHHHhcC-----C-------CCc
Q 036628           57 ----ALFLHDNWQQHMGVTPTNFAVVTWSDWDCQVMLESECRFKNIPKPSYFNRWINLRVPFSK-----G-------DVR  120 (254)
Q Consensus        57 ----vl~~f~~wl~~~gi~~~~~~~vt~g~fD~~~fL~~e~~~~gi~~P~~~~~~iDlr~~f~~-----~-------~~~  120 (254)
                          |+++|.+|+++..+..++.+||+||+||++.||+++|+++|+++|.+++.|+|++++++.     .       +++
T Consensus        94 ~~~evl~~f~~~l~~~~lvahn~~lv~~g~fD~~~fL~~~~~~~g~~~p~~~~~~iDt~~l~~~~~~~~~~~~~~~~~~L  173 (308)
T 3cg7_A           94 TFDVVYEQFQQWLITLGLEEGKFAFVCDSRQDLWRIAQYQMKLSNIQMPAFFRQYINLYKIFTNEMDRMGPKELSATTNI  173 (308)
T ss_dssp             BHHHHHHHHHHHHHHHCCCTTSEEEEESSSHHHHTHHHHHHHHTTCCCCGGGSEEEEHHHHHHHHHHHHCCCCCCCCSHH
T ss_pred             CHHHHHHHHHHHHHhCCcCCcceEEeccCcccHHHHHHHHHHHcCCCCchhhcceeeHHHHHHHHhccccccccccCcCH
Confidence                356778888877777788999999999954799999999999999777889999877654     2       235


Q ss_pred             ccHHHHhcCCCCCCCCchHHHHHHHHHHHHHHHHcCCccCcCcccccCCCCCCCcccccccccc----------chhccc
Q 036628          121 CNLKEAVELGWHGRVHCGLDDSMNIARLLAVIMQRGFKFSITKSLTTPQDITQDSVMTWNRHHQ----------FLVRQR  190 (254)
Q Consensus       121 ~~L~~~l~i~~eG~~HrALdDA~ntA~l~~~ll~~g~~f~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~  190 (254)
                      .+|.+++|++++|++|||++||++||+|+.+|++++..+++++.+....   +++..+-+..+.          ++-+..
T Consensus       174 ~~l~~~~gi~~~~~~HrAl~DA~ata~l~~~l~~~~~~~~i~~~~~~s~---~~~~~~~~~~~~w~~~~~~~~~~~~~~~  250 (308)
T 3cg7_A          174 GKMNEYYDLPTIGRAHDAMDDCLNIATILQRMINMGAKVTVNELLTCCA---SWRRQPLVYNKEWRSSFMDAGKIFERVL  250 (308)
T ss_dssp             HHHHHHTTCCCCSCTTCHHHHHHHHHHHHHHHHHTTCCCCCCEEEESCC---GGGSSCCCCCTTGGGCHHHHHHHHHHHS
T ss_pred             HHHHHHcCCCCCCCCcCHHHHHHHHHHHHHHHHHcCCCCChHHHHhhcC---CccccccccCcccccchHHHHHHHHHhc
Confidence            6788899999999899999999999999999999999999999987653   223322222222          111111


Q ss_pred             ccccCCCCC-CCCCCcceeeeecCcccccceeccCCCCCC
Q 036628          191 KCTFQHTSR-DPAEVEEFRYCFCGAKSFKKIIRKPGPKCG  229 (254)
Q Consensus       191 ~~~~~~~~~-~~~~~~~~~~c~cg~~~~~~~~~~~gp~~g  229 (254)
                      |....+-.. .........||||+..+..+     ||-|+
T Consensus       251 p~~~~~~~~~~~~~~~~~~~~~c~~~~~~~-----~~~~~  285 (308)
T 3cg7_A          251 PLVVTTIRAGDFRLEMYGVCRYCRKGMDVC-----GTSHQ  285 (308)
T ss_dssp             SCEEEECCGGGCCGGGTTBCTTTCCBTTTT-----TSSCS
T ss_pred             ccceeeeeccccchhhcccCCcCCCccccc-----ccccC
Confidence            222222111 12222234799999998666     77766
>2xri_A ERI1 exoribonuclease 3; hydrolase, metal binding; 2.15A {Homo sapiens} Back     alignment and structure
>1w0h_A 3'-5' exonuclease ERI1; nuclease domain, hydrolase; HET: AMP; 1.59A {Homo sapiens} SCOP: c.55.3.5 Back     alignment and structure
>1zbh_A 3'-5' exonuclease ERI1; histone mRNA 3'-END-specific recognition, structures of 3'- exonuclease and ITS RNA complex, hydrolase/RNA complex; HET: AMP; 3.00A {Homo sapiens} Back     alignment and structure
>1zbu_A ERI-1 homolog, 3'-5' exonuclease ERI1; hydrolase; HET: AMP; 3.00A {Homo sapiens} Back     alignment and structure
>2gui_A DNA polymerase III epsilon subunit; DNA polymerase proofreading domain, transferase; HET: DNA U5P; 1.60A {Escherichia coli} SCOP: c.55.3.5 PDB: 1j54_A* 1j53_A* 2ido_A* 2xy8_A* Back     alignment and structure
>2p1j_A POLIII, DNA polymerase III POLC-type; structural genomics, exonuclease, PSI-2, protein structure initiative; HET: DNA; 2.50A {Thermotoga maritima MSB8} Back     alignment and structure
>2f96_A Ribonuclease T; RNAse, RNT, RNAse T, tRNA hydrolase, SAD, PS protein structure initiative, midwest center for structural genomics; 2.09A {Pseudomonas aeruginosa} SCOP: c.55.3.5 Back     alignment and structure
>3v9w_A Ribonuclease T; DEDD nucleases family, EXO-nucleases, hydrolase-DNA complex; HET: DNA; 1.70A {Escherichia coli} PDB: 3ngy_A 3v9u_A* 3ngz_A* 3va3_A* 3v9z_A* 3nh0_A 3nh2_A 3nh1_A* 3v9s_A* 3v9x_A* 3va0_A* 2is3_A Back     alignment and structure
>3mxm_B Three prime repair exonuclease 1; RNAse H-like fold, polyproline type II helix, hydrolase-DNA; HET: DNA; 1.75A {Mus musculus} SCOP: c.55.3.5 PDB: 3mxj_B 2ioc_B 3mxi_B* 3b6o_A* 2o4g_A* 3b6p_A* 2o4i_A 2oa8_A Back     alignment and structure
>1y97_A Three prime repair exonuclease 2; TREX2, hydrolase; 2.50A {Homo sapiens} SCOP: c.55.3.5 Back     alignment and structure
>3u3y_B Three prime repair exonuclease 1; RNAse H fold, 3' exonuclease, homodimer, hydrolase-DNA compl; HET: BU1; 2.28A {Mus musculus} PDB: 3u6f_B* Back     alignment and structure
>2igi_A Oligoribonuclease; RNAse, exoribonuclease, exonuclease, hydrolase, mRNA decay; 1.70A {Escherichia coli} SCOP: c.55.3.5 PDB: 1yta_A 1j9a_A Back     alignment and structure
>2gbz_A Oligoribonuclease; ORN, deddh, structural genomics, hydrolase; 2.30A {Xanthomonas campestris PV} Back     alignment and structure
>2qxf_A Exodeoxyribonuclease I; alpha-beta domain, DNAQ superfamily, SH3-like domain, produc structure, DNA damage, DNA repair, exonuclease; HET: TMP; 1.50A {Escherichia coli} SCOP: c.55.3.5 PDB: 1fxx_A* 3c94_A 3c95_A 3hl8_A* 3hp9_A* Back     alignment and structure
>3tr8_A Oligoribonuclease; transcription, hydrolase; 2.50A {Coxiella burnetii} Back     alignment and structure
>1wlj_A Interferon stimulated gene 20KDA; exoribonuclease, hydrolase; HET: U5P; 1.90A {Homo sapiens} SCOP: c.55.3.5 Back     alignment and structure
>4hec_A Putative uncharacterized protein; ssgcid, structural genomics, SEA structural genomics center for infectious disease, unknown; 1.80A {Mycobacterium tuberculosis} Back     alignment and structure
>4gmj_B CCR4-NOT transcription complex subunit 7; mRNA decay, deadenylase, RNA bindin; HET: GOL; 2.70A {Homo sapiens} Back     alignment and structure
>2d5r_A CCR4-NOT transcription complex subunit 7; poly(A) deadenylase, antiproliferative protein, transcription; 2.50A {Homo sapiens} SCOP: c.55.3.9 Back     alignment and structure
>2kfn_A Klenow fragment of DNA polymerase I; complex (polymerase/DNA), exonuclease, transferase, transferase/DNA complex; HET: US1; 2.03A {Escherichia coli} SCOP: c.55.3.5 e.8.1.1 PDB: 1d9f_A* 1d9d_A* 1krp_A* 1ksp_A* 1qsl_A* 1kfs_A* 2kfz_A* 2kzm_A* 2kzz_A* 1dpi_A* 1kfd_A* 1kln_A* 1d8y_A* Back     alignment and structure
>2p51_A SPCC18.06C protein; DEDD nuclease fold, hydrolase, gene regulation; 1.40A {Schizosaccharomyces pombe} PDB: 3g0z_A 3g10_A Back     alignment and structure
>1x9m_A DNA polymerase; DNA ploymerase, N-2-acetylaminofluorene, replication block, mutagenesis, transferase/electron transport/DNA complex; HET: DNA 2DT 8FG; 2.10A {Enterobacteria phage T7} SCOP: c.55.3.5 e.8.1.1 PDB: 1skr_A* 1skw_A* 1sl0_A* 1sks_A* 1sl2_A* 1t7p_A* 1t8e_A* 1tk0_A* 1tk5_A* 1tk8_A* 1tkd_A* 1sl1_A* 1x9s_A* 1x9w_A* 1zyq_A* 2ajq_A* Back     alignment and structure
>1uoc_A POP2; hydrolase, DEDD nuclease, mRNA degradation, poly(A) tail, transcription regulation, repressor, phosphorylation.; 2.3A {Saccharomyces cerevisiae} SCOP: c.55.3.9 Back     alignment and structure
>1qht_A Protein (DNA polymerase); archaea, hyperthermostable, family B polymer alpha family polymerase, transferase; 2.10A {Thermococcus SP} SCOP: c.55.3.5 e.8.1.1 PDB: 1tgo_A 2xhb_A* 2vwj_A* 2vwk_A* 1wns_A* 1wn7_A 1qqc_A* 4ahc_A* 4ail_C* 3a2f_A* 2jgu_A* 1d5a_A Back     alignment and structure
>3iay_A DNA polymerase delta catalytic subunit; protein-DNA complex, DNA replication, DNA-BI DNA-directed DNA polymerase, exonuclease, hydrolase; HET: DNA DOC DCP; 2.00A {Saccharomyces cerevisiae} Back     alignment and structure
>2gv9_A DNA polymerase; polymerase alpha fold, transferase; HET: DNA; 2.68A {Human herpesvirus 1} PDB: 1dml_B* Back     alignment and structure
>1s5j_A DNA polymerase I; replication, disulfide bonds, transferase; HET: DNA; 2.40A {Sulfolobus solfataricus} SCOP: c.55.3.5 e.8.1.1 Back     alignment and structure
>1noy_A Protein (DNA polymerase (E.C.2.7.7.7)); exonuclease, DNA-binding, complex (nucleotidyltransferase/DNA); HET: DNA; 2.20A {Enterobacteria phage T4} SCOP: c.55.3.5 PDB: 1noz_A* Back     alignment and structure
>4dfk_A DNA polymerase I, thermostable; DNA polymerase, transferase-DNA complex; HET: DNA DOC 0L5; 1.65A {Thermus aquaticus} PDB: 1jxe_A* 3ktq_A* 3lwl_A* 3lwm_A* 3m8s_A* 3m8r_A* 3oju_A* 3rr7_A* 3rr8_A* 3rrg_A* 3ojs_A* 3rtv_A* 3sv3_A* 3sv4_A* 3syz_A* 3sz2_A* 3t3f_A* 4df4_A* 4df8_A* 4dfj_A* ... Back     alignment and structure
>2py5_A DNA polymerase; protein-DNA complex, replication, transferase/DNA complex; HET: DNA; 1.60A {Bacillus phage PHI29} SCOP: c.55.3.5 e.8.1.1 PDB: 1xhz_A* 1xhx_A* 2ex3_A* 1xi1_A* 2pyj_A* 2pyl_A* 2pzs_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 254
d1w0ha_200 c.55.3.5 (A:) Exonuclease ERI1 {Human (Homo sapien 7e-20
>d1w0ha_ c.55.3.5 (A:) Exonuclease ERI1 {Human (Homo sapiens) [TaxId: 9606]} Length = 200 Back     information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Ribonuclease H-like
family: DnaQ-like 3'-5' exonuclease
domain: Exonuclease ERI1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 82.7 bits (203), Expect = 7e-20
 Identities = 51/196 (26%), Positives = 83/196 (42%), Gaps = 42/196 (21%)

Query: 12  FDYFVVVDFEATCDKKIPHPQ--EIIEFPSVIVSGVTGQITVCFQIY------------A 57
           +DY  ++DFEATC++  P     EIIEFP V+++  T +I   FQ Y             
Sbjct: 5   YDYICIIDFEATCEEGNPPEFVHEIIEFPVVLLNTHTLEIEDTFQQYVRPEINTQLSDFC 64

Query: 58  LFLHDNWQQHMG---------------------VTPTNFAVVTWSDWDCQVMLESECRFK 96
           + L    Q  +                       T   ++++T   WD    L  +C+  
Sbjct: 65  ISLTGITQDQVDRADTFPQVLKKVIDWMKLKELGTKYKYSLLTDGSWDMSKFLNIQCQLS 124

Query: 97  NIPKPSYFNRWINLRVPFSKGDVRC-------NLKEAVELGWHGRVHCGLDDSMNIARLL 149
            +  P +  +WIN+R  +               + E + + + GR HCGLDDS NIAR+ 
Sbjct: 125 RLKYPPFAKKWINIRKSYGNFYKVPRSQTKLTIMLEKLGMDYDGRPHCGLDDSKNIARIA 184

Query: 150 AVIMQRGFKFSITKSL 165
             ++Q G +  I + +
Sbjct: 185 VRMLQDGCELRINEKM 200

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query254
d1w0ha_200 Exonuclease ERI1 {Human (Homo sapiens) [TaxId: 960 99.97
d2guia1174 N-terminal exonuclease domain of the epsilon subun 99.83
d3b6oa1226 Three prime repair exonuclease 1, TREX1 {Mouse (Mu 99.75
d2f96a1202 Ribonuclease T {Pseudomonas aeruginosa [TaxId: 287 99.74
d1y97a1228 Three prime repair exonuclease 2, TREX2 {Human (Ho 99.71
d1wlja_173 Interferon-stimulated gene 20 kDa protein, ISG20 { 99.67
d2igia1180 Oligoribonuclease {Escherichia coli [TaxId: 562]} 99.63
d2qxfa1 467 Exonuclease I {Escherichia coli K12 (Escherichia c 99.58
d2d5ra1252 CCR4-NOT transcription complex subunit 7, CAF1 {Hu 98.3
d1uoca_286 Pop2 RNase D domain {Baker's yeast (Saccharomyces 97.44
d1x9ma1204 Exonuclease domain of T7 DNA polymerase {Bacteriop 96.97
d1kfsa1195 Exonuclease domain of prokaryotic DNA polymerase { 95.06
d2hhva1171 Exonuclease domain of prokaryotic DNA polymerase { 93.68
d1tgoa1347 Exonuclease domain of family B DNA polymerases {Ar 92.28
d1yt3a3193 Ribonuclease D, catalytic domain {Escherichia coli 90.92
>d1w0ha_ c.55.3.5 (A:) Exonuclease ERI1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Ribonuclease H-like
family: DnaQ-like 3'-5' exonuclease
domain: Exonuclease ERI1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=5.3e-31  Score=220.22  Aligned_cols=156  Identities=32%  Similarity=0.638  Sum_probs=134.0

Q ss_pred             CCCCeEEEEEEeecCCCC--CCCCCcEEEEceEEEEcCCCeEEEEEEEe-------------------------------
Q 036628           10 QDFDYFVVVDFEATCDKK--IPHPQEIIEFPSVIVSGVTGQITVCFQIY-------------------------------   56 (254)
Q Consensus        10 q~~~~fvViDlEtTg~~~--~~~~~EIIEIgAV~vD~~~g~iv~~F~~~-------------------------------   56 (254)
                      .-|++|||||+||||.++  .+..+||||||||++|.++++++++|++|                               
T Consensus         3 ~~~~~~iv~D~EtT~~~~~~~~~~~~Iieigav~~d~~~~~~~~~f~~~v~P~~~~~i~~~~~~itgit~e~l~~~~~~~   82 (200)
T d1w0ha_           3 SYYDYICIIDFEATCEEGNPPEFVHEIIEFPVVLLNTHTLEIEDTFQQYVRPEINTQLSDFCISLTGITQDQVDRADTFP   82 (200)
T ss_dssp             CSSSEEEECCCEECCCTTCCTTSCCCEEEEEEEEEETTTCSEEEEEEEEBCCSSSCSCCHHHHHHHCCCHHHHHTSBCHH
T ss_pred             CCCCEEEEEEEecCCCCCCCCCCCCcEEEEEEEEEECCCCeEEEEEEEEEecCccccCCHHHHHHHCCCHHHhhhhhhhH
Confidence            458999999999998772  34678999999999999999999999999                               


Q ss_pred             -ehhhHHHHhhhcCC-CCCCeEEEEcCcccHHHHHHHHHHHcCCCCCCCCchhhhhHHHhcC-------CCCcccHHHHh
Q 036628           57 -ALFLHDNWQQHMGV-TPTNFAVVTWSDWDCQVMLESECRFKNIPKPSYFNRWINLRVPFSK-------GDVRCNLKEAV  127 (254)
Q Consensus        57 -vl~~f~~wl~~~gi-~~~~~~~vt~g~fD~~~fL~~e~~~~gi~~P~~~~~~iDlr~~f~~-------~~~~~~L~~~l  127 (254)
                       ++.+|.+|+....+ ..+.+.+++|+.+|+..||+.+|++.++++|.++..++|+++.+..       +.++..|++++
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~L~~~~~~~~~~~p~~~~~~~d~~~~~~~~~~~~~~~~~L~~l~~~~  162 (200)
T d1w0ha_          83 QVLKKVIDWMKLKELGTKYKYSLLTDGSWDMSKFLNIQCQLSRLKYPPFAKKWINIRKSYGNFYKVPRSQTKLTIMLEKL  162 (200)
T ss_dssp             HHHHHHHHHHHHTTBTTTBCEEEEESSTTTTHHHHHHHHHHHTCCCCGGGSEEEEHHHHHHHHHTCCGGGCSHHHHHHHT
T ss_pred             hHHHHHHHHhcCCcEEeeeeeeeccchhhhHHHHHHHHHHhccCCCcccccceeeHHhHhhhhccccccchHHHHHHHHc
Confidence             34567777776543 3456889999999878999999999999999888899999886654       23466788999


Q ss_pred             cCCCCCCCCchHHHHHHHHHHHHHHHHcCCccCcCccc
Q 036628          128 ELGWHGRVHCGLDDSMNIARLLAVIMQRGFKFSITKSL  165 (254)
Q Consensus       128 ~i~~eG~~HrALdDA~ntA~l~~~ll~~g~~f~~~~~~  165 (254)
                      |++++|++|+|++||++||+|+.+|+++|.++++|++|
T Consensus       163 gi~~~~~aH~Al~Da~~~a~v~~~ll~~g~~~~i~~~~  200 (200)
T d1w0ha_         163 GMDYDGRPHCGLDDSKNIARIAVRMLQDGCELRINEKM  200 (200)
T ss_dssp             TCCCCSCTTCHHHHHHHHHHHHHHHHHTTCCCCCCEEC
T ss_pred             CCCCCCCCcChHHHHHHHHHHHHHHHHcCCCCCCCCCC
Confidence            99999899999999999999999999999999999975
>d2guia1 c.55.3.5 (A:7-180) N-terminal exonuclease domain of the epsilon subunit of DNA polymerase III {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d3b6oa1 c.55.3.5 (A:9-234) Three prime repair exonuclease 1, TREX1 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2f96a1 c.55.3.5 (A:19-220) Ribonuclease T {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d1y97a1 c.55.3.5 (A:1-228) Three prime repair exonuclease 2, TREX2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1wlja_ c.55.3.5 (A:) Interferon-stimulated gene 20 kDa protein, ISG20 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2igia1 c.55.3.5 (A:1-180) Oligoribonuclease {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2qxfa1 c.55.3.5 (A:8-474) Exonuclease I {Escherichia coli K12 (Escherichia coli K-12) [TaxId: 83333]} Back     information, alignment and structure
>d2d5ra1 c.55.3.9 (A:11-262) CCR4-NOT transcription complex subunit 7, CAF1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1uoca_ c.55.3.9 (A:) Pop2 RNase D domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1x9ma1 c.55.3.5 (A:1-210) Exonuclease domain of T7 DNA polymerase {Bacteriophage T7 [TaxId: 10760]} Back     information, alignment and structure
>d1kfsa1 c.55.3.5 (A:324-518) Exonuclease domain of prokaryotic DNA polymerase {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2hhva1 c.55.3.5 (A:298-468) Exonuclease domain of prokaryotic DNA polymerase {Bacillus stearothermophilus, newly identified strain as yet unnamed [TaxId: 1422]} Back     information, alignment and structure
>d1tgoa1 c.55.3.5 (A:1-347) Exonuclease domain of family B DNA polymerases {Archaeon Thermococcus gorgonarius [TaxId: 71997]} Back     information, alignment and structure
>d1yt3a3 c.55.3.5 (A:1-193) Ribonuclease D, catalytic domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure