Citrus Sinensis ID: 020417

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320------
MSFSKICLSRFAPLGSPNSLSAFPFSLPVPLTRAHKLTCAQHISCSCSASSSSSSSSTHQKGASTRWRPMCLYFTQGKCTMMDDVMHLEKFNHDISRDLQVDAAAFQHKCSQDLDFFLVLDLEGKIEILEFPVLMIDAKTMAFVDLFHRFVRPSKMSEQHINKYIEGKYGKFGVDRVWHDTALPFKEVIQQFEAWLIQHHLWEKGRGGHLKRAAFATCGNWDLKTKVPDQCKVSQIKLPPYFMEWINLKDVFYNFYKPRKSEATGMMGMMKNRQVPMFGSHHLGIDDTKNITRVLQRMLADGARVQITARRNPDSRNVQYLFEDRI
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHccccccccHHHHHHHHHcHHHHHHHHHHHHHcccccccccEEEEEEEEEccEEEEEEEEEEEccccEEEEEEEEEEcccccccccccHHHHHHcccccccHHHHHccccHHHHHHHHHHHHHHccccccccccccccEEEEEcccHHHHccHHHHHHHcccccccccHHHHHHHHHHHHHccccccccccHHHHHHHccccccccccccHHHHHHHHHHHHHHHHcccEEEEcccccccccccccEEcccc
ccccccEEEEEccccccccccccccccccccccccccccccEcccccccccccccccHHccccccccccEEEEEEcccccccccHHHHHHHHHHccccccccccHccccccccccEEEEEEEcEEEEEEEEcEEEEEcccccHHHHHHHHcccccccccccHHHHHHHHHHcccEEHHccccccHHHHHHHHHHHHHHcccccccccccccEEEEEEcccccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHcccccccccHHHHHHHccccccccccccccHHHHHHHHHHHHHHcccEEEEEccccccccccEEEEcccc
msfskiclsrfaplgspnslsafpfslpvpltrahkltcaqhiscscsassssssssthqkgastrwrpmclyftqgkctmmddvmhlekFNHDISRDLQVDAAAFQHKCSQDLDFFLVLDLEgkieilefpvlmIDAKTMAFVDLFHrfvrpskmseQHINKYIEgkygkfgvdrvwhdtalpFKEVIQQFEAWLIQHHLwekgrgghlkRAAFATcgnwdlktkvpdqckvsqiklppyfMEWINLKDVfynfykprkseatgmmgmmknrqvpmfgshhlgiddtKNITRVLQRMLADGARVQitarrnpdsrnvqyLFEDRI
MSFSKICLSRFAPLGSPNSLSAFPFSLPVPLTRAHKLTCAQHISCscsassssssssthqkgastrwrpMCLYFTQGKCTMMDDVMHLEKFNHDISRDLQVDAAAFQHKCSQDLDFFLVLDLEGKIEILEFPVLMIDAKTMAFVDLFHRFvrpskmseQHINKYIEGKYGKFGVDRVWHDTALPFKEVIQQFEAWLIQHHLWEKGRGGHLKRAAFATCGNWDLKTKVPDQCKVSQIKLPPYFMEWINLKDVFYNFYKPRKSEATGMMGMMKNRQVPMFGSHHLGIDDTKNITRVLQRMLADGarvqitarrnpdsrnvqylfedri
MSFSKICLSRFAPLGSPNSLSAFPFSLPVPLTRAHKLTCAQHIscscsassssssssTHQKGASTRWRPMCLYFTQGKCTMMDDVMHLEKFNHDISRDLQVDAAAFQHKCSQDLDFFLVLDLEGKIEILEFPVLMIDAKTMAFVDLFHRFVRPSKMSEQHINKYIEGKYGKFGVDRVWHDTALPFKEVIQQFEAWLIQHHLWEKGRGGHLKRAAFATCGNWDLKTKVPDQCKVSQIKLPPYFMEWINLKDVFYNFYKPRKSEATGMMGMMKNRQVPMFGSHHLGIDDTKNITRVLQRMLADGARVQITARRNPDSRNVQYLFEDRI
*****ICLSRFAPL****SLSAFPFSLPVPLTRAHKLTCAQHISCS*******************RWRPMCLYFTQGKCTMMDDVMHLEKFNHDISRDLQVDAAAFQHKCSQDLDFFLVLDLEGKIEILEFPVLMIDAKTMAFVDLFHRFVRPSKMSEQHINKYIEGKYGKFGVDRVWHDTALPFKEVIQQFEAWLIQHHLWEKGRGGHLKRAAFATCGNWDLKTKVPDQCKVSQIKLPPYFMEWINLKDVFYNFYKP****************VPMFGSHHLGIDDTKNITRVLQRMLADGARVQI*******************
***********************************************************************LYFTQGKCTMMDDVMHLEKFNH******************QDLDFFLVLDLEGKIEILEFPVLMIDAKTMAFVDLFHRFVRPSKMSEQHINKYIEGKYGKFGVDRVWHDTALPFKEVIQQFEAWLIQHHLWEKGRGGHLKRAAFATCGNWDLKTKVPDQCKVSQIKLPPYFMEWINLKDVFYNFYKPRKSEATGMMGMMKNRQVPMFGSHHLGIDDTKNITRVLQRMLADGARVQITARRNPD*RNVQ*LFEDRI
MSFSKICLSRFAPLGSPNSLSAFPFSLPVPLTRAHKLTCAQ************************RWRPMCLYFTQGKCTMMDDVMHLEKFNHDISRDLQVDAAAFQHKCSQDLDFFLVLDLEGKIEILEFPVLMIDAKTMAFVDLFHRFVRPSKMSEQHINKYIEGKYGKFGVDRVWHDTALPFKEVIQQFEAWLIQHHLWEKGRGGHLKRAAFATCGNWDLKTKVPDQCKVSQIKLPPYFMEWINLKDVFYNFYKPRKSEATGMMGMMKNRQVPMFGSHHLGIDDTKNITRVLQRMLADGARVQITARRNPDSRNVQYLFEDRI
**FSKICLSRFAPLGSPNSLSAFPFSLPVPLTRAHKLTC**************************RWRPMCLYFTQGKCTMMDDVMHLEKFNHDISRDLQVDAA*FQHKCSQDLDFFLVLDLEGKIEILEFPVLMIDAKTMAFVDLFHRFVRPSKMSEQHINKYIEGKYGKFGVDRVWHDTALPFKEVIQQFEAWLIQHHLWEKGRGGHLKRAAFATCGNWDLKTKVPDQCKVSQIKLPPYFMEWINLKDVFYNFYKPRKSEATGMMGMMKNRQVPMFGSHHLGIDDTKNITRVLQRMLADGARVQITARRNPDSRNVQYLFE*R*
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
SSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MSFSKICLSRFAPLGSPNSLSAFPFSLPVPLTRAHKLTCAQHISCSCSASSSSSSSSTHQKGASTRWRPMCLYFTQGKCTMMDDVMHLEKFNHDISRDLQVDAAAFQHKCSQDLDFFLVLDLEGKIEILEFPVLMIDAKTMAFVDLFHRFVRPSKMSEQHINKYIEGKYGKFGVDRVWHDTALPFKEVIQQFEAWLIQHHLWEKGRGGHLKRAAFATCGNWDLKTKVPDQCKVSQIKLPPYFMEWINLKDVFYNFYKPRKSEATGMMGMMKNRQVPMFGSHHLGIDDTKNITRVLQRMLADGARVQITARRNPDSRNVQYLFEDRI
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 ?
Query326 2.2.26 [Sep-21-2011]
Q8W566337 Uncharacterized exonuclea yes no 0.960 0.928 0.572 1e-106
Q7TMF2345 3'-5' exoribonuclease 1 O yes no 0.555 0.524 0.291 3e-20
Q5FVR4345 3'-5' exoribonuclease 1 O yes no 0.555 0.524 0.291 4e-20
Q8IV48349 3'-5' exoribonuclease 1 O yes no 0.549 0.512 0.284 4e-20
A6QLH5337 ERI1 exoribonuclease 3 OS no no 0.588 0.569 0.279 8e-18
O43414337 ERI1 exoribonuclease 3 OS no no 0.539 0.522 0.287 1e-17
Q8C460337 ERI1 exoribonuclease 3 OS no no 0.539 0.522 0.287 2e-17
Q5HZL1 687 ERI1 exoribonuclease 2 OS N/A no 0.656 0.311 0.247 3e-17
Q502M8 555 ERI1 exoribonuclease 2 OS no no 0.576 0.338 0.266 2e-16
A8K979 691 ERI1 exoribonuclease 2 OS no no 0.628 0.296 0.264 3e-15
>sp|Q8W566|Y3514_ARATH Uncharacterized exonuclease domain-containing protein At3g15140 OS=Arabidopsis thaliana GN=At3g15140 PE=2 SV=1 Back     alignment and function desciption
 Score =  385 bits (988), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 193/337 (57%), Positives = 244/337 (72%), Gaps = 24/337 (7%)

Query: 5   KICLSRFAPLGSPNSLSAFPFSLPVPLTRAH--KLTC------------AQHISCSCSAS 50
           ++ LSR +P           FS P  L  AH  ++ C            +   S S S+S
Sbjct: 9   RVSLSRISPFRDTR------FSYPATLALAHTKRIMCNSSHSVSPSPSPSDFSSSSSSSS 62

Query: 51  SSSSSSSTHQKGASTRWRPMCLYFTQGKCTMMDDVMHLEKFNHDISRDLQVDAAAFQHKC 110
           SS S+ S  +   + RWRPMCLY+T GKCT MDD  HLE FNHD S++L+V AA  + K 
Sbjct: 63  SSPSTFSLMETSENARWRPMCLYYTHGKCTKMDDPAHLEIFNHDCSKELRVAAADLERKK 122

Query: 111 SQDLDFFLVLDLEGKIEILEFPVLMIDAKTMAFVDLFHRFVRPSKMSEQHINKYIEGKYG 170
           SQ+ +FFLV+DLEGK+EILEFP+L++DAKTM  VDLFHRFVRP+KMSEQ INKYIEGKYG
Sbjct: 123 SQEFNFFLVIDLEGKVEILEFPILIVDAKTMEVVDLFHRFVRPTKMSEQAINKYIEGKYG 182

Query: 171 KFGVDRVWHDTALPFKEVIQQFEAWLIQHHLWEKGRGGHLKRAAFATCGNWDLKTKVPDQ 230
           + GVDRVWHDTA+PFK+V+++FE WL +H LW+K     L  AAF TCGNWD+KTK+P+Q
Sbjct: 183 ELGVDRVWHDTAIPFKQVVEEFEVWLAEHDLWDKDTDWGLNDAAFVTCGNWDIKTKIPEQ 242

Query: 231 CKVSQIKLPPYFMEWINLKDVFYNFYKPRKSEATGMMGMMKNRQVPMFGSHHLGIDDTKN 290
           C VS I LPPYFMEWINLKDV+ NFY     EA GM+ MM+   + + GSHHLGIDDTKN
Sbjct: 243 CVVSNINLPPYFMEWINLKDVYLNFY---GREARGMVSMMRQCGIKLMGSHHLGIDDTKN 299

Query: 291 ITRVLQRMLADGARVQITARRNPDS-RNVQYLFEDRI 326
           ITRV+QRML++GA +++TARR+  + RNV++LF++RI
Sbjct: 300 ITRVVQRMLSEGAVLKLTARRSKSNMRNVEFLFKNRI 336

Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 1EC: .EC: -EC: .EC: -
>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|Q8IV48|ERI1_HUMAN 3'-5' exoribonuclease 1 OS=Homo sapiens GN=ERI1 PE=1 SV=3 Back     alignment and function description
>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|Q8C460|ERI3_MOUSE ERI1 exoribonuclease 3 OS=Mus musculus GN=Eri3 PE=1 SV=1 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|Q502M8|ERI2_DANRE ERI1 exoribonuclease 2 OS=Danio rerio GN=eri2 PE=2 SV=1 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

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 ?
Query326
225461547319 PREDICTED: uncharacterized exonuclease d 0.972 0.993 0.681 1e-122
302142955256 unnamed protein product [Vitis vinifera] 0.779 0.992 0.786 1e-117
255564549329 exonuclease, putative [Ricinus communis] 0.803 0.796 0.742 1e-114
224115354261 predicted protein [Populus trichocarpa] 0.797 0.996 0.709 1e-109
357516489308 Exonuclease domain-containing protein, p 0.791 0.837 0.709 1e-109
449456609325 PREDICTED: uncharacterized exonuclease d 0.800 0.803 0.683 1e-108
195621024330 histone mRNA exonuclease 1 [Zea mays] 0.990 0.978 0.569 1e-106
356517082299 PREDICTED: uncharacterized exonuclease d 0.886 0.966 0.66 1e-106
212722758330 uncharacterized protein LOC100193112 [Ze 0.990 0.978 0.566 1e-106
357145920337 PREDICTED: uncharacterized exonuclease d 0.963 0.931 0.579 1e-106
>gi|225461547|ref|XP_002282697.1| PREDICTED: uncharacterized exonuclease domain-containing protein At3g15140 [Vitis vinifera] Back     alignment and taxonomy information
 Score =  443 bits (1140), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 223/327 (68%), Positives = 251/327 (76%), Gaps = 10/327 (3%)

Query: 1   MSFSKICLSRFAPLGSPNSLSAFPFSLPVPLTRAHKLTCAQHISCSCSASSSSSSSSTHQ 60
           M+F ++   R+   GS +SL  +  S           T +  IS   +   S  S  T  
Sbjct: 1   MAFYRVSPFRY---GSLSSLIPYVSSPSSLSPPVRTFTLSASIS---TPHPSPPSLLTAS 54

Query: 61  KGASTRWRPMCLYFTQGKCTMMDDVMHLEKFNHDISRDLQVDAAAFQHKCSQDLDFFLVL 120
             AS RWRPMCLY+TQGKCT MDD  HLE FNH+ SR+LQV+AA FQH  SQ LDFFLVL
Sbjct: 55  PKASDRWRPMCLYYTQGKCTKMDDPTHLETFNHNCSRELQVNAANFQHLQSQHLDFFLVL 114

Query: 121 DLEGKIEILEFPVLMIDAKTMAFVDLFHRFVRPSKMSEQHINKYIEGKYGKFGVDRVWHD 180
           DLEGKIEILEFPVLMI+AKTM  VDLFHRFVRPS+MSEQ IN+YIEGKYGK GVDRVWHD
Sbjct: 115 DLEGKIEILEFPVLMINAKTMDVVDLFHRFVRPSEMSEQRINEYIEGKYGKLGVDRVWHD 174

Query: 181 TALPFKEVIQQFEAWLIQHHLWEKGRGGHLKRAAFATCGNWDLKTKVPDQCKVSQIKLPP 240
           T++PFKEVIQQFEAWL QHHLW K  GG L +AAF TCGNWDLKTKVP QCKVS++KLPP
Sbjct: 175 TSIPFKEVIQQFEAWLTQHHLWTKEMGGRLDQAAFVTCGNWDLKTKVPQQCKVSKMKLPP 234

Query: 241 YFMEWINLKDVFYNFYKPRKSEATGMMGMMKNRQVPMFGSHHLGIDDTKNITRVLQRMLA 300
           YFMEWINLKDV+ NFYK R   ATGMM MMK  Q+P+ GSHHLGIDDTKNI RVLQRMLA
Sbjct: 235 YFMEWINLKDVYLNFYKRR---ATGMMTMMKELQIPLLGSHHLGIDDTKNIARVLQRMLA 291

Query: 301 DGARVQITARRNPDS-RNVQYLFEDRI 326
           DGA +QITARRN DS  NV++LF++RI
Sbjct: 292 DGALLQITARRNADSPENVEFLFKNRI 318

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|302142955|emb|CBI20250.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|255564549|ref|XP_002523270.1| exonuclease, putative [Ricinus communis] gi|223537483|gb|EEF39109.1| exonuclease, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|224115354|ref|XP_002317011.1| predicted protein [Populus trichocarpa] gi|222860076|gb|EEE97623.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|357516489|ref|XP_003628533.1| Exonuclease domain-containing protein, putative [Medicago truncatula] gi|355522555|gb|AET03009.1| Exonuclease domain-containing protein, putative [Medicago truncatula] Back     alignment and taxonomy information
>gi|449456609|ref|XP_004146041.1| PREDICTED: uncharacterized exonuclease domain-containing protein At3g15140-like [Cucumis sativus] gi|449510343|ref|XP_004163638.1| PREDICTED: uncharacterized exonuclease domain-containing protein At3g15140-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|195621024|gb|ACG32342.1| histone mRNA exonuclease 1 [Zea mays] Back     alignment and taxonomy information
>gi|356517082|ref|XP_003527219.1| PREDICTED: uncharacterized exonuclease domain-containing protein At3g15140-like [Glycine max] Back     alignment and taxonomy information
>gi|212722758|ref|NP_001131746.1| uncharacterized protein LOC100193112 [Zea mays] gi|194692414|gb|ACF80291.1| unknown [Zea mays] gi|413944431|gb|AFW77080.1| histone mRNA exonuclease 1 [Zea mays] Back     alignment and taxonomy information
>gi|357145920|ref|XP_003573813.1| PREDICTED: uncharacterized exonuclease domain-containing protein At3g15140-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 ?
Query326
TAIR|locus:2083636337 AT3G15140 "AT3G15140" [Arabido 0.797 0.771 0.659 2e-97
UNIPROTKB|Q5ZL01327 ERI1 "Uncharacterized protein" 0.524 0.522 0.329 2.4e-21
ZFIN|ZDB-GENE-050522-39337 eri1 "exoribonuclease 1" [Dani 0.518 0.501 0.309 2.4e-21
WB|WBGene00019825266 R02D3.8 [Caenorhabditis elegan 0.601 0.736 0.301 3.9e-21
MGI|MGI:1914526345 Eri1 "exoribonuclease 1" [Mus 0.527 0.498 0.315 1e-20
UNIPROTKB|E2QU14349 ERI1 "Uncharacterized protein" 0.527 0.492 0.315 1.3e-20
UNIPROTKB|Q8IV48349 ERI1 "3'-5' exoribonuclease 1" 0.527 0.492 0.315 1.3e-20
UNIPROTKB|I3LQQ1313 ERI1 "Uncharacterized protein" 0.527 0.549 0.309 1.7e-20
RGD|1308378345 Eri1 "exoribonuclease 1" [Ratt 0.527 0.498 0.309 1.7e-20
UNIPROTKB|Q32LA2349 THEX1 "Uncharacterized protein 0.527 0.492 0.309 2.1e-20
TAIR|locus:2083636 AT3G15140 "AT3G15140" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 968 (345.8 bits), Expect = 2.0e-97, P = 2.0e-97
 Identities = 174/264 (65%), Positives = 216/264 (81%)

Query:    64 STRWRPMCLYFTQGKCTMMDDVMHLEKFNHDISRDLQVDAAAFQHKCSQDLDFFLVLDLE 123
             + RWRPMCLY+T GKCT MDD  HLE FNHD S++L+V AA  + K SQ+ +FFLV+DLE
Sbjct:    76 NARWRPMCLYYTHGKCTKMDDPAHLEIFNHDCSKELRVAAADLERKKSQEFNFFLVIDLE 135

Query:   124 GKIEILEFPVLMIDAKTMAFVDLFHRFVRPSKMSEQHINKYIEGKYGKFGVDRVWHDTAL 183
             GK+EILEFP+L++DAKTM  VDLFHRFVRP+KMSEQ INKYIEGKYG+ GVDRVWHDTA+
Sbjct:   136 GKVEILEFPILIVDAKTMEVVDLFHRFVRPTKMSEQAINKYIEGKYGELGVDRVWHDTAI 195

Query:   184 PFKEVIQQFEAWLIQHHLWEKGRGGHLKRAAFATCGNWDLKTKVPDQCKVSQIKLPPYFM 243
             PFK+V+++FE WL +H LW+K     L  AAF TCGNWD+KTK+P+QC VS I LPPYFM
Sbjct:   196 PFKQVVEEFEVWLAEHDLWDKDTDWGLNDAAFVTCGNWDIKTKIPEQCVVSNINLPPYFM 255

Query:   244 EWINLKDVFYNFYKPRKSEATGMMGMMKNRQVPMFGSHHLGIDDTKNITRVLQRMLADGA 303
             EWINLKDV+ NFY     EA GM+ MM+   + + GSHHLGIDDTKNITRV+QRML++GA
Sbjct:   256 EWINLKDVYLNFYG---REARGMVSMMRQCGIKLMGSHHLGIDDTKNITRVVQRMLSEGA 312

Query:   304 RVQITARRNPDS-RNVQYLFEDRI 326
              +++TARR+  + RNV++LF++RI
Sbjct:   313 VLKLTARRSKSNMRNVEFLFKNRI 336
GO:0004527 "exonuclease activity" evidence=ISS
GO:0005622 "intracellular" evidence=ISS
GO:0005739 "mitochondrion" evidence=IDA
GO:0009220 "pyrimidine ribonucleotide biosynthetic process" evidence=RCA
UNIPROTKB|Q5ZL01 ERI1 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-050522-39 eri1 "exoribonuclease 1" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
WB|WBGene00019825 R02D3.8 [Caenorhabditis elegans (taxid:6239)] Back     alignment and assigned GO terms
MGI|MGI:1914526 Eri1 "exoribonuclease 1" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|E2QU14 ERI1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|Q8IV48 ERI1 "3'-5' exoribonuclease 1" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|I3LQQ1 ERI1 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
RGD|1308378 Eri1 "exoribonuclease 1" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|Q32LA2 THEX1 "Uncharacterized protein" [Bos taurus (taxid:9913)] 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) ?
Q8W566Y3514_ARATH3, ., 1, ., -, ., -0.57270.96010.9287yesno

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 ?
Query326
cd06133176 cd06133, ERI-1_3'hExo_like, DEDDh 3'-5' exonucleas 4e-47
PTZ00315 582 PTZ00315, PTZ00315, 2'-phosphotransferase; Provisi 9e-24
COG5018210 COG5018, KapD, Inhibitor of the KinA pathway to sp 3e-13
smart00479169 smart00479, EXOIII, exonuclease domain in DNA-poly 4e-06
>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 =  156 bits (397), Expect = 4e-47
 Identities = 61/195 (31%), Positives = 99/195 (50%), Gaps = 31/195 (15%)

Query: 117 FLVLDLEGKI-----------EILEFPVLMIDAKTMAFVDLFHRFVRPSKMSEQHINKYI 165
           +LV+D E              EI+E   +++D KT   +D F  +V+P    +  ++ + 
Sbjct: 1   YLVIDFEATCWEGNSKPDYPNEIIEIGAVLVDVKTKEIIDTFSSYVKPVINPK--LSDFC 58

Query: 166 EGKYGKF-GVDRVWHDTALPFKEVIQQFEAWLIQHHLWEKGRGGHLKRAAFATCGNWDLK 224
                +  G+ +   D A  F EV+++F  WL ++            + AF T G+WDLK
Sbjct: 59  T----ELTGITQEDVDNAPSFPEVLKEFLEWLGKN-----------GKYAFVTWGDWDLK 103

Query: 225 TKVPDQCKVSQIKLPPYFMEWINLKDVFYNFYKPRKSEATGMMGMMKNRQVPMFGSHHLG 284
             + +QCK   I LPP+F +WI+LK  F  FY  +K   TG+   ++   +   G HH G
Sbjct: 104 DLLQNQCKYKIINLPPFFRQWIDLKKEFAKFYGLKK--RTGLSKALEYLGLEFEGRHHRG 161

Query: 285 IDDTKNITRVLQRML 299
           +DD +NI R+L+R+L
Sbjct: 162 LDDARNIARILKRLL 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|214685 smart00479, EXOIII, exonuclease domain in DNA-polymerase alpha and epsilon chain, ribonuclease T and other exonucleases Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 326
COG2176 1444 PolC DNA polymerase III, alpha subunit (gram-posit 100.0
KOG0542280 consensus Predicted exonuclease [Replication, reco 100.0
PTZ00315 582 2'-phosphotransferase; Provisional 100.0
PRK07748207 sporulation inhibitor KapD; Provisional 100.0
PRK06722281 exonuclease; Provisional 100.0
TIGR01405 1213 polC_Gram_pos DNA polymerase III, alpha chain, Gra 100.0
cd06133176 ERI-1_3'hExo_like DEDDh 3'-5' exonuclease domain o 100.0
PRK06195 309 DNA polymerase III subunit epsilon; Validated 99.97
smart00479169 EXOIII exonuclease domain in DNA-polymerase alpha 99.97
cd06130156 DNA_pol_III_epsilon_like an uncharacterized bacter 99.97
PRK00448 1437 polC DNA polymerase III PolC; Validated 99.97
TIGR01406225 dnaQ_proteo DNA polymerase III, epsilon subunit, P 99.97
PRK06807 313 DNA polymerase III subunit epsilon; Validated 99.97
COG5018210 KapD Inhibitor of the KinA pathway to sporulation, 99.97
PRK05711240 DNA polymerase III subunit epsilon; Provisional 99.97
cd06131167 DNA_pol_III_epsilon_Ecoli_like DEDDh 3'-5' exonucl 99.97
PRK08517257 DNA polymerase III subunit epsilon; Provisional 99.97
PRK07247195 DNA polymerase III subunit epsilon; Validated 99.96
PRK07740244 hypothetical protein; Provisional 99.96
TIGR00573217 dnaq exonuclease, DNA polymerase III, epsilon subu 99.96
PRK06063 313 DNA polymerase III subunit epsilon; Provisional 99.96
PRK07942232 DNA polymerase III subunit epsilon; Provisional 99.96
PRK09145202 DNA polymerase III subunit epsilon; Validated 99.96
PRK09146239 DNA polymerase III subunit epsilon; Validated 99.96
PRK05168211 ribonuclease T; Provisional 99.96
PRK06310250 DNA polymerase III subunit epsilon; Validated 99.95
PRK07246 820 bifunctional ATP-dependent DNA helicase/DNA polyme 99.95
PRK07883 557 hypothetical protein; Validated 99.95
PRK06309232 DNA polymerase III subunit epsilon; Validated 99.95
PRK08074 928 bifunctional ATP-dependent DNA helicase/DNA polyme 99.95
cd06134189 RNaseT DEDDh 3'-5' exonuclease domain of RNase T. 99.95
cd06136177 TREX1_2 DEDDh 3'-5' exonuclease domain of three pr 99.95
TIGR01298200 RNaseT ribonuclease T. in gamma-subdivision Proteo 99.94
TIGR01407 850 dinG_rel DnaQ family exonuclease/DinG family helic 99.94
PRK05601 377 DNA polymerase III subunit epsilon; Validated 99.94
cd06127159 DEDDh DEDDh 3'-5' exonuclease domain family. DEDDh 99.94
PRK07983219 exodeoxyribonuclease X; Provisional 99.94
cd06138183 ExoI_N N-terminal DEDDh 3'-5' exonuclease domain o 99.93
cd06135173 Orn DEDDh 3'-5' exonuclease domain of oligoribonuc 99.92
cd06137161 DEDDh_RNase DEDDh 3'-5' exonuclease domain of the 99.92
COG0847243 DnaQ DNA polymerase III, epsilon subunit and relat 99.92
cd06145150 REX1_like DEDDh 3'-5' exonuclease domain of RNA ex 99.91
cd06144152 REX4_like DEDDh 3'-5' exonuclease domain of RNA ex 99.91
PF00929164 RNase_T: Exonuclease; InterPro: IPR013520 This ent 99.91
cd06149157 ISG20 DEDDh 3'-5' exonuclease domain of Interferon 99.9
PRK09182294 DNA polymerase III subunit epsilon; Validated 99.88
PRK05359181 oligoribonuclease; Provisional 99.87
PRK11779 476 sbcB exonuclease I; Provisional 99.83
cd05160199 DEDDy_DNA_polB_exo DEDDy 3'-5' exonuclease domain 98.98
PHA02570220 dexA exonuclease; Provisional 98.93
cd06143174 PAN2_exo DEDDh 3'-5' exonuclease domain of the euk 98.75
KOG2249280 consensus 3'-5' exonuclease [Replication, recombin 98.67
cd0612596 DnaQ_like_exo DnaQ-like (or DEDD) 3'-5' exonucleas 98.63
COG2925 475 SbcB Exonuclease I [DNA replication, recombination 98.31
cd05782208 DNA_polB_like1_exo Uncharacterized bacterial subgr 98.18
COG1949184 Orn Oligoribonuclease (3'-5' exoribonuclease) [RNA 98.11
KOG0304239 consensus mRNA deadenylase subunit [RNA processing 98.1
KOG3242208 consensus Oligoribonuclease (3'->5' exoribonucleas 98.04
cd05780195 DNA_polB_Kod1_like_exo DEDDy 3'-5' exonuclease dom 97.98
cd05781188 DNA_polB_B3_exo DEDDy 3'-5' exonuclease domain of 97.93
PF13482164 RNase_H_2: RNase_H superfamily; PDB: 1TKD_A 1TK5_A 97.87
PF10108209 DNA_pol_B_exo2: Predicted 3'-5' exonuclease relate 97.87
KOG2248380 consensus 3'-5' exonuclease [Replication, recombin 97.82
PF04857262 CAF1: CAF1 family ribonuclease; InterPro: IPR00694 97.34
PRK05755 880 DNA polymerase I; Provisional 97.29
cd05779204 DNA_polB_epsilon_exo DEDDy 3'-5' exonuclease domai 97.0
TIGR03491457 RecB family nuclease, putative, TM0106 family. Mem 96.99
cd06139193 DNA_polA_I_Ecoli_like_exo DEDDy 3'-5' exonuclease 96.81
cd05777230 DNA_polB_delta_exo DEDDy 3'-5' exonuclease domain 96.68
cd05783204 DNA_polB_B1_exo DEDDy 3'-5' exonuclease domain of 96.64
COG5228299 POP2 mRNA deadenylase subunit [RNA processing and 96.04
smart00486 471 POLBc DNA polymerase type-B family. DNA polymerase 95.96
cd05785207 DNA_polB_like2_exo Uncharacterized bacterial subgr 95.62
cd05784193 DNA_polB_II_exo DEDDy 3'-5' exonuclease domain of 95.59
PRK05762 786 DNA polymerase II; Reviewed 95.42
cd05778231 DNA_polB_zeta_exo inactive DEDDy 3'-5' exonuclease 95.18
KOG4793318 consensus Three prime repair exonuclease [Replicat 95.04
PF13017213 Maelstrom: piRNA pathway germ-plasm component 94.92
PTZ00166 1054 DNA polymerase delta catalytic subunit; Provisiona 94.59
COG3359278 Predicted exonuclease [DNA replication, recombinat 93.71
PF03104325 DNA_pol_B_exo1: DNA polymerase family B, exonuclea 91.02
cd05776234 DNA_polB_alpha_exo inactive DEDDy 3'-5' exonucleas 90.14
cd00007155 35EXOc 3'-5' exonuclease. The 35EXOc domain is res 89.36
PHA02528 881 43 DNA polymerase; Provisional 89.35
TIGR00592 1172 pol2 DNA polymerase (pol2). This family is based o 88.48
KOG1798 2173 consensus DNA polymerase epsilon, catalytic subuni 87.37
PHA03036 1004 DNA polymerase; Provisional 82.68
smart00474172 35EXOc 3'-5' exonuclease. 3\' -5' exonuclease proo 81.93
PHA02524 498 43A DNA polymerase subunit A; Provisional 80.49
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair] Back     alignment and domain information 
Probab=100.00  E-value=5.5e-44  Score=377.56  Aligned_cols=208  Identities=18%  Similarity=0.230  Sum_probs=190.3

Q ss_pred             cccCCccccCccchhhhhhcCCCcceeeechh---h----hcccCCCCC--CeEEEEEeccC------CceeeeeEEEEE
Q 020417           73 YFTQGKCTMMDDVMHLEKFNHDISRDLQVDAA---A----FQHKCSQDL--DFFLVLDLEGK------IEILEFPVLMID  137 (326)
Q Consensus        73 ~~dhg~~q~~~~a~~~~~~~~~~~~~~~v~~~---~----~~~~~~~~~--~~~vVfDlETT------~EIIEIgAVkvD  137 (326)
                      -|||||||+||+++++++ ++++|.+||+|++   |    +.|+.++.+  .+|||||+|||      ++||||||||| 
T Consensus       371 ITDh~~VqafP~~y~~ak-K~giK~IyG~EanlvdD~vpiv~N~~d~~l~datyVVfDiETTGLs~~~d~iIE~aAvKi-  448 (1444)
T COG2176         371 ITDHGVVQAFPEAYKAAK-KYGIKAIYGLEANLVDDGVPIVYNPDDQKLDDATYVVFDIETTGLSPVYDEIIEIAAVKI-  448 (1444)
T ss_pred             EecCcchhhchHHHHhhh-hcCceEEEeeeeeeccCCCceecCccccccccccEEEEEeecCCcCcccchhhhheeeee-
Confidence            499999999999999998 5899999999997   3    338888887  47999999999      99999999999 


Q ss_pred             cCCCeEEeEEeecccCCcCCCCCcChhhhcccccCCCCHHHHhCCCCHHHHHHHHHHHHHhCcccccccCCCCcceEEEE
Q 020417          138 AKTMAFVDLFHRFVRPSKMSEQHINKYIEGKYGKFGVDRVWHDTALPFKEVIQQFEAWLIQHHLWEKGRGGHLKRAAFAT  217 (326)
Q Consensus       138 ~k~geiid~F~~fVrP~~~p~~~Is~~it~LTgi~GIt~e~V~~Ap~f~eVl~~F~~fl~~~~Lv~~~~~~~~~~~~~a~  217 (326)
                       ++|+++|+|+.||+|..    +||.++++||   ||||+||.+|+++++||++|.+|+++++             .|||
T Consensus       449 -kng~iId~f~~Fi~P~~----pl~~~~telT---gITdeml~~a~~i~~vL~kf~~~~~d~I-------------lVAH  507 (1444)
T COG2176         449 -KNGRIIDKFQFFIKPGR----PLSATITELT---GITDEMLENAPEIEEVLEKFREFIGDSI-------------LVAH  507 (1444)
T ss_pred             -eCCcchHHHHHhcCCCC----cCchhhhhcc---ccCHHHHcCCccHHHHHHHHHHHhcCcE-------------EEec
Confidence             89999999999999998    5999999998   9999999999999999999999999985             4699


Q ss_pred             cCcccHHHHHHHHHHHhCCCCCCCCccHhhHHHHHHhhcCCCcCCCCCHHHHHHhcCCCCCCCCCChHHHHHHHHHHHHH
Q 020417          218 CGNWDLKTKVPDQCKVSQIKLPPYFMEWINLKDVFYNFYKPRKSEATGMMGMMKNRQVPMFGSHHLGIDDTKNITRVLQR  297 (326)
Q Consensus       218 ng~fDl~~fL~~~~~~~gi~~p~~~~~~iDl~~l~~~~~~~~~~~~~~L~~l~k~lgI~~~g~hHrAldDA~~tA~I~~~  297 (326)
                      |++||++ ||+.++.+.|+..  +-+++||+..+.+.++|..+  +++|+.+++.||+.++ +||||++||++||+||..
T Consensus       508 NasFD~g-Fl~~~~~k~~~~~--~~~pvIDTL~lar~L~P~~k--sh~Lg~l~kk~~v~le-~hHRA~yDaeat~~vf~~  581 (1444)
T COG2176         508 NASFDMG-FLNTNYEKYGLEP--LTNPVIDTLELARALNPEFK--SHRLGTLCKKLGVELE-RHHRADYDAEATAKVFFV  581 (1444)
T ss_pred             cCccchh-HHHHHHHHhCCcc--ccCchhhHHHHHHHhChhhh--hcchHHHHHHhCccHH-HhhhhhhhHHHHHHHHHH
Confidence            9999999 9999999988875  56899999999999998887  9999999999999994 899999999999999999


Q ss_pred             HHHcCCcccccc
Q 020417          298 MLADGARVQITA  309 (326)
Q Consensus       298 ll~~g~~~~it~  309 (326)
                      |+++.....|+.
T Consensus       582 f~~~~ke~Gi~~  593 (1444)
T COG2176         582 FLKDLKEKGITN  593 (1444)
T ss_pred             HHHHHHHhchhh
Confidence            988765555543

>KOG0542 consensus Predicted exonuclease [Replication, recombination and repair] Back     alignment and domain information
>PTZ00315 2'-phosphotransferase; Provisional Back     alignment and domain information
>PRK07748 sporulation inhibitor KapD; Provisional Back     alignment and domain information
>PRK06722 exonuclease; Provisional Back     alignment and domain information
>TIGR01405 polC_Gram_pos DNA polymerase III, alpha chain, Gram-positive type 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
>PRK06195 DNA polymerase III subunit epsilon; Validated 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
>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
>PRK00448 polC DNA polymerase III PolC; Validated Back     alignment and domain information
>TIGR01406 dnaQ_proteo DNA polymerase III, epsilon subunit, Proteobacterial Back     alignment and domain information
>PRK06807 DNA polymerase III subunit epsilon; Validated 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
>PRK05711 DNA polymerase III subunit epsilon; Provisional 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
>PRK07247 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK07740 hypothetical protein; Provisional Back     alignment and domain information
>TIGR00573 dnaq exonuclease, DNA polymerase III, epsilon subunit family Back     alignment and domain information
>PRK06063 DNA polymerase III subunit epsilon; Provisional Back     alignment and domain information
>PRK07942 DNA polymerase III subunit epsilon; Provisional Back     alignment and domain information
>PRK09145 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK09146 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK05168 ribonuclease T; Provisional Back     alignment and domain information
>PRK06310 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK07883 hypothetical protein; Validated Back     alignment and domain information
>PRK06309 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
>cd06134 RNaseT DEDDh 3'-5' exonuclease domain of RNase T 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
>TIGR01298 RNaseT ribonuclease T 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
>cd06127 DEDDh DEDDh 3'-5' exonuclease domain family Back     alignment and domain information
>PRK07983 exodeoxyribonuclease X; Provisional 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
>cd06135 Orn DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins 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
>COG0847 DnaQ DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair] 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
>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
>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
>cd06149 ISG20 DEDDh 3'-5' exonuclease domain of Interferon Stimulated Gene product of 20 kDa, and similar proteins Back     alignment and domain information
>PRK09182 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK05359 oligoribonuclease; Provisional Back     alignment and domain information
>PRK11779 sbcB exonuclease I; Provisional 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
>PHA02570 dexA exonuclease; Provisional Back     alignment and domain information
>cd06143 PAN2_exo DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonuclease PAN2 Back     alignment and domain information
>KOG2249 consensus 3'-5' exonuclease [Replication, recombination and repair] Back     alignment and domain information
>cd06125 DnaQ_like_exo DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily Back     alignment and domain information
>COG2925 SbcB Exonuclease I [DNA 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
>COG1949 Orn Oligoribonuclease (3'-5' exoribonuclease) [RNA processing and modification] Back     alignment and domain information
>KOG0304 consensus mRNA deadenylase subunit [RNA processing and modification] 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
>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
>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
>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
>KOG2248 consensus 3'-5' exonuclease [Replication, recombination and repair] 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
>PRK05755 DNA polymerase I; Provisional 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
>TIGR03491 RecB family nuclease, putative, TM0106 family 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
>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
>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
>COG5228 POP2 mRNA deadenylase subunit [RNA processing and modification] Back     alignment and domain information
>smart00486 POLBc DNA polymerase type-B family 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
>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
>PRK05762 DNA polymerase II; Reviewed Back     alignment and domain information
>cd05778 DNA_polB_zeta_exo inactive DEDDy 3'-5' exonuclease domain of eukaryotic DNA polymerase zeta, a family-B DNA polymerase Back     alignment and domain information
>KOG4793 consensus Three prime repair exonuclease [Replication, recombination and repair] Back     alignment and domain information
>PF13017 Maelstrom: piRNA pathway germ-plasm component Back     alignment and domain information
>PTZ00166 DNA polymerase delta catalytic subunit; Provisional Back     alignment and domain information
>COG3359 Predicted exonuclease [DNA 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
>cd05776 DNA_polB_alpha_exo inactive DEDDy 3'-5' exonuclease domain of eukaryotic DNA polymerase alpha, a family-B DNA polymerase Back     alignment and domain information
>cd00007 35EXOc 3'-5' exonuclease Back     alignment and domain information
>PHA02528 43 DNA polymerase; Provisional Back     alignment and domain information
>TIGR00592 pol2 DNA polymerase (pol2) Back     alignment and domain information
>KOG1798 consensus DNA polymerase epsilon, catalytic subunit A [Replication, recombination and repair] Back     alignment and domain information
>PHA03036 DNA polymerase; Provisional Back     alignment and domain information
>smart00474 35EXOc 3'-5' exonuclease Back     alignment and domain information
>PHA02524 43A DNA polymerase subunit A; Provisional Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query326
1zbh_A299 3'-End Specific Recognition Of Histone Mrna Stem-Lo 4e-19
1w0h_A204 Crystallographic Structure Of The Nuclease Domain O 5e-19
4hxh_B303 Structure Of Mrna Stem-loop, Human Stem-loop Bindin 6e-19
2xri_A224 Crystal Structure Of Human Eri1 Exoribonuclease 3 L 1e-18
1zbu_A349 Crystal Structure Of Full-Length 3'-Exonuclease Len 1e-17
3cg7_A308 Crystal Structure Of Cell-Death Related Nuclease 4 1e-13
>pdb|1ZBH|A Chain A, 3'-End Specific Recognition Of Histone Mrna Stem-Loop By 3'- Exonuclease Length = 299 Back     alignment and structure 
Iteration: 1

 Score = 92.0 bits (227), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 58/211 (27%), Positives = 104/211 (49%), Gaps = 32/211 (15%)
Query: 115 DFFLVLDLEGKIE----------ILEFPVLMIDAKTMAFVDLFHRFVRPSKMSEQHINKY 164
           D+  ++D E   E          I+EFPV++++  T+   D F ++VRP           
Sbjct: 78  DYICIIDFEATCEEGNPPEFVHEIIEFPVVLLNTHTLEIEDTFQQYVRPE---------- 127
Query: 165 IEGKYGKF-----GVDRVWHDTALPFKEVIQQFEAWLIQHHLWEKGRGGHLKRAAFATCG 219
           I  +   F     G+ +   D A  F +V+++    +    L      G   + +  T G
Sbjct: 128 INTQLSDFCISLTGITQDQVDRADTFPQVLKKVIDLMKLKEL------GTKYKYSLLTDG 181
Query: 220 NWDLKTKVPDQCKVSQIKLPPYFMEWINLKDVFYNFYKPRKSEATGMMGMMKNRQVPMFG 279
           +WD+   +  QC++S++K PP+  +WIN++  + NFYK  +S+ T +  M++   +   G
Sbjct: 182 SWDMSKFLNIQCQLSRLKYPPFAKKWINIRKSYGNFYKVPRSQ-TKLTIMLEKLGMDYDG 240
Query: 280 SHHLGIDDTKNITRVLQRMLADGARVQITAR 310
             + G+DD+KNI R+  RML DG  ++I  +
Sbjct: 241 RPNCGLDDSKNIARIAVRMLQDGCELRINEK 271
>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|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|2XRI|A Chain A, Crystal Structure Of Human Eri1 Exoribonuclease 3 Length = 224 Back     alignment and structure
>pdb|1ZBU|A Chain A, Crystal Structure Of Full-Length 3'-Exonuclease Length = 349 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 ?
Query326
2xri_A224 ERI1 exoribonuclease 3; hydrolase, metal binding; 8e-55
1w0h_A204 3'-5' exonuclease ERI1; nuclease domain, hydrolase 2e-50
1zbh_A299 3'-5' exonuclease ERI1; histone mRNA 3'-END-specif 1e-49
1zbu_A349 ERI-1 homolog, 3'-5' exonuclease ERI1; hydrolase; 2e-48
3cg7_A308 CRN-4, cell death-related nuclease 4; hydrolase, a 4e-45
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-07
>2xri_A ERI1 exoribonuclease 3; hydrolase, metal binding; 2.15A {Homo sapiens} Length = 224 Back     alignment and structure
 Score =  177 bits (450), Expect = 8e-55
 Identities = 61/229 (26%), Positives = 103/229 (44%), Gaps = 22/229 (9%)

Query: 92  NHDISRDLQVDAAAFQHKC--SQDLDFFLVLDLE--------GKIEILEFPVLMIDAKTM 141
           +H    DL  +   FQ      Q   +FLVLD E           EI+EFP+L ++ +TM
Sbjct: 6   HHSSGVDLGTENLYFQSMSFPPQRYHYFLVLDFEATCDKPQIHPQEIIEFPILKLNGRTM 65

Query: 142 AFVDLFHRFVRPSKMSEQHINKYIEGKYGKFGVDRVWHDTALPFKEVIQQFEAWLIQHHL 201
                FH +V+P  +    +  +     G   + +   D     ++V+++ + W+ +  L
Sbjct: 66  EIESTFHMYVQP--VVHPQLTPFCTELTG---IIQAMVDGQPSLQQVLERVDEWMAKEGL 120

Query: 202 WEKGRGGHLKRAAFATCGNWDLKTKVPDQCKVSQIKLPPYFMEWINLKDVFYNFYKPRKS 261
                     ++ F TCG+WDLK  +P QC+   + +  YF +WINLK  +         
Sbjct: 121 L-----DPNVKSIFVTCGDWDLKVMLPGQCQYLGLPVADYFKQWINLKKAYSFAMGCWPK 175

Query: 262 EATGMMGMMKNRQVPMFGSHHLGIDDTKNITRVLQRMLADGARVQITAR 310
              G++ M K   +   G  H GIDD KNI  +++ +   G   + T++
Sbjct: 176 --NGLLDMNKGLSLQHIGRPHSGIDDCKNIANIMKTLAYRGFIFKQTSK 222
>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
>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
>1zbu_A ERI-1 homolog, 3'-5' exonuclease ERI1; hydrolase; HET: AMP; 3.00A {Homo sapiens} Length = 349 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 ?
Query326
1w0h_A204 3'-5' exonuclease ERI1; nuclease domain, hydrolase 100.0
2xri_A224 ERI1 exoribonuclease 3; hydrolase, metal binding; 100.0
3cg7_A308 CRN-4, cell death-related nuclease 4; hydrolase, a 100.0
1zbh_A299 3'-5' exonuclease ERI1; histone mRNA 3'-END-specif 100.0
1zbu_A349 ERI-1 homolog, 3'-5' exonuclease ERI1; hydrolase; 100.0
2p1j_A186 POLIII, DNA polymerase III POLC-type; structural g 99.98
2gui_A194 DNA polymerase III epsilon subunit; DNA polymerase 99.97
3mxm_B242 Three prime repair exonuclease 1; RNAse H-like fol 99.97
2f96_A224 Ribonuclease T; RNAse, RNT, RNAse T, tRNA hydrolas 99.96
1y97_A238 Three prime repair exonuclease 2; TREX2, hydrolase 99.96
3u3y_B314 Three prime repair exonuclease 1; RNAse H fold, 3' 99.96
3v9w_A235 Ribonuclease T; DEDD nucleases family, EXO-nucleas 99.95
2igi_A180 Oligoribonuclease; RNAse, exoribonuclease, exonucl 99.94
1wlj_A189 Interferon stimulated gene 20KDA; exoribonuclease, 99.93
2gbz_A194 Oligoribonuclease; ORN, deddh, structural genomics 99.92
2qxf_A 482 Exodeoxyribonuclease I; alpha-beta domain, DNAQ su 99.92
3tr8_A186 Oligoribonuclease; transcription, hydrolase; 2.50A 99.91
4hec_A190 Putative uncharacterized protein; ssgcid, structur 98.6
4gmj_B285 CCR4-NOT transcription complex subunit 7; mRNA dec 98.42
2kfn_A 605 Klenow fragment of DNA polymerase I; complex (poly 98.37
2d5r_A252 CCR4-NOT transcription complex subunit 7; poly(A) 98.12
2p51_A333 SPCC18.06C protein; DEDD nuclease fold, hydrolase, 98.1
1uoc_A289 POP2; hydrolase, DEDD nuclease, mRNA degradation, 97.95
1x9m_A 698 DNA polymerase; DNA ploymerase, N-2-acetylaminoflu 97.83
1qht_A 775 Protein (DNA polymerase); archaea, hyperthermostab 97.28
3iay_A 919 DNA polymerase delta catalytic subunit; protein-DN 97.0
2gv9_A 1193 DNA polymerase; polymerase alpha fold, transferase 96.62
1noy_A388 Protein (DNA polymerase (E.C.2.7.7.7)); exonucleas 96.5
1s5j_A 847 DNA polymerase I; replication, disulfide bonds, tr 96.0
3qex_A 903 DNA polymerase, GP43; difluorotoluene nucleoside; 94.73
3k59_A 786 POL II, DNA polymerase II; protein-DNA complex, DN 93.25
3d45_A507 Poly(A)-specific ribonuclease PARN; CAP analogue, 91.83
2a1r_A430 Poly(A)-specific ribonuclease PARN; DEDD, nuclease 91.28
4dfk_A 540 DNA polymerase I, thermostable; DNA polymerase, tr 89.26
1vk0_A206 Hypothetical protein; homohexamer, AT5G06450, stru 80.39
>1w0h_A 3'-5' exonuclease ERI1; nuclease domain, hydrolase; HET: AMP; 1.59A {Homo sapiens} SCOP: c.55.3.5 Back     alignment and structure
Probab=100.00  E-value=1.1e-37  Score=277.74  Aligned_cols=188  Identities=30%  Similarity=0.595  Sum_probs=165.5

Q ss_pred             CCCCeEEEEEeccC----------CceeeeeEEEEEcCCCeEEeEEeecccCCcCCCCCcChhhhcccccCCCCHHHHhC
Q 020417          112 QDLDFFLVLDLEGK----------IEILEFPVLMIDAKTMAFVDLFHRFVRPSKMSEQHINKYIEGKYGKFGVDRVWHDT  181 (326)
Q Consensus       112 ~~~~~~vVfDlETT----------~EIIEIgAVkvD~k~geiid~F~~fVrP~~~p~~~Is~~it~LTgi~GIt~e~V~~  181 (326)
                      +.+++|||||+|||          ++|||||||++|.++|+++++|++||+|...+  +|+++++++|   |||++||++
T Consensus         7 ~~~~~~vviD~ETTGl~~~~~~~~~~Iieigav~~~~~~g~i~~~f~~lv~P~~~~--~i~~~~~~i~---GIt~~~l~~   81 (204)
T 1w0h_A            7 SYYDYICIIDFEATCEEGNPPEFVHEIIEFPVVLLNTHTLEIEDTFQQYVRPEINT--QLSDFCISLT---GITQDQVDR   81 (204)
T ss_dssp             CSSSEEEECCCEECCCTTCCTTSCCCEEEEEEEEEETTTCSEEEEEEEEBCCSSSC--SCCHHHHHHH---CCCHHHHHT
T ss_pred             CCcCEEEEEEEecCCcCCCCCCCCCcEEEEEEEEEECCCCEEeeeeeeEECCCCCC--ccCHHHHHHh---CCCHHHHhC
Confidence            56789999999999          37999999999976899999999999999854  5999999996   999999999


Q ss_pred             CCCHHHHHHHHHHHHHhCcccccccCCCCcceEEEEcCcccHHHHHHHHHHHhCCCCCCCCccHhhHHHHHHhhcCCCcC
Q 020417          182 ALPFKEVIQQFEAWLIQHHLWEKGRGGHLKRAAFATCGNWDLKTKVPDQCKVSQIKLPPYFMEWINLKDVFYNFYKPRKS  261 (326)
Q Consensus       182 Ap~f~eVl~~F~~fl~~~~Lv~~~~~~~~~~~~~a~ng~fDl~~fL~~~~~~~gi~~p~~~~~~iDl~~l~~~~~~~~~~  261 (326)
                      ||+|++|+++|.+|+++..+.      ....++|+||++||++.||+++|++.|++.|.++..|+|++.+++.+++... 
T Consensus        82 ~~~~~~v~~~~~~~l~~~~~~------~~~~~lv~hn~~fD~~~~L~~~~~~~~~~~p~~~~~~~dt~~l~~~~~~~~~-  154 (204)
T 1w0h_A           82 ADTFPQVLKKVIDWMKLKELG------TKYKYSLLTDGSWDMSKFLNIQCQLSRLKYPPFAKKWINIRKSYGNFYKVPR-  154 (204)
T ss_dssp             SBCHHHHHHHHHHHHHHTTBT------TTBCEEEEESSTTTTHHHHHHHHHHHTCCCCGGGSEEEEHHHHHHHHHTCCG-
T ss_pred             CCCHHHHHHHHHHHHHhcCCC------CCCcEEEEEECcchHHHHHHHHHHHhCCCCcccccceEEHHHHHHHHhCCCC-
Confidence            999999999999999987531      1234688999999994499999999999988655689999999998877531 


Q ss_pred             CCCCHHHHHHhcCCCCCCCCCChHHHHHHHHHHHHHHHHcCCcccccccc
Q 020417          262 EATGMMGMMKNRQVPMFGSHHLGIDDTKNITRVLQRMLADGARVQITARR  311 (326)
Q Consensus       262 ~~~~L~~l~k~lgI~~~g~hHrAldDA~~tA~I~~~ll~~g~~~~it~~~  311 (326)
                      ..++|.+++++||++.+|++|||++||++||+|+.+|++++..+.|+|+.
T Consensus       155 ~~~~L~~l~~~~gi~~~~~~H~Al~Da~~ta~l~~~l~~~~~~~~i~~~~  204 (204)
T 1w0h_A          155 SQTKLTIMLEKLGMDYDGRPHCGLDDSKNIARIAVRMLQDGCELRINEKM  204 (204)
T ss_dssp             GGCSHHHHHHHTTCCCCSCTTCHHHHHHHHHHHHHHHHHTTCCCCCCEEC
T ss_pred             ccchHHHHHHHcCCCCCCCccCcHHHHHHHHHHHHHHHHCCCeeeecCcC
Confidence            25899999999999998789999999999999999999999999999863
>2xri_A ERI1 exoribonuclease 3; hydrolase, metal binding; 2.15A {Homo sapiens} 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 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
>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
>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
>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
>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
>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
>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
>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
>1wlj_A Interferon stimulated gene 20KDA; exoribonuclease, hydrolase; HET: U5P; 1.90A {Homo sapiens} SCOP: c.55.3.5 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
>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
>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
>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
>2p51_A SPCC18.06C protein; DEDD nuclease fold, hydrolase, gene regulation; 1.40A {Schizosaccharomyces pombe} PDB: 3g0z_A 3g10_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
>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
>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
>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
>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
>3qex_A DNA polymerase, GP43; difluorotoluene nucleoside; HET: DNA DOC DGT; 1.73A {Enterobacteria phage RB69} PDB: 3qei_A* 3qer_A* 3qes_A* 3qet_A* 3qep_A* 3qew_A* 3qev_A* 3s9h_A* 3sq0_A* 4dtn_A* 4dto_A* 4dtp_A* 4dtr_A* 4dts_A* 4dtu_A* 4dtx_A* 4e3s_A* 4fjm_A* 4fjl_A* 3spz_A* ... Back     alignment and structure
>3k59_A POL II, DNA polymerase II; protein-DNA complex, DNA damage, DNA repair, DNA-binding; HET: DNA DOC DCP; 1.92A {Escherichia coli} PDB: 3k57_A* 3k58_A* 3k5l_A* 3k5m_A* 3k5n_A* 3k5o_A* 3maq_A* 1q8i_A* Back     alignment and structure
>3d45_A Poly(A)-specific ribonuclease PARN; CAP analogue, exonuclease, hydrolase, magnesium, metal nonsense-mediated mRNA decay, nucleus; HET: 7MG GDP; 3.00A {Mus musculus} Back     alignment and structure
>2a1r_A Poly(A)-specific ribonuclease PARN; DEDD, nuclease domain, hydrolase-RNA complex; 2.60A {Homo sapiens} PDB: 2a1s_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
>1vk0_A Hypothetical protein; homohexamer, AT5G06450, struc genomics, protein structure initiative, center for eukaryot structural genomics, CESG; 2.10A {Arabidopsis thaliana} SCOP: c.55.3.5 PDB: 2q3s_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 326
d1w0ha_200 c.55.3.5 (A:) Exonuclease ERI1 {Human (Homo sapien 3e-16
>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 = 73.8 bits (180), Expect = 3e-16
 Identities = 57/206 (27%), Positives = 103/206 (50%), Gaps = 22/206 (10%)

Query: 115 DFFLVLDLE----------GKIEILEFPVLMIDAKTMAFVDLFHRFVRPSKMSEQHINKY 164
           D+  ++D E             EI+EFPV++++  T+   D F ++VRP   ++      
Sbjct: 6   DYICIIDFEATCEEGNPPEFVHEIIEFPVVLLNTHTLEIEDTFQQYVRPEINTQLS---- 61

Query: 165 IEGKYGKFGVDRVWHDTALPFKEVIQQFEAWLIQHHLWEKGRGGHLKRAAFATCGNWDLK 224
            +      G+ +   D A  F +V+++   W+    L  K       + +  T G+WD+ 
Sbjct: 62  -DFCISLTGITQDQVDRADTFPQVLKKVIDWMKLKELGTK------YKYSLLTDGSWDMS 114

Query: 225 TKVPDQCKVSQIKLPPYFMEWINLKDVFYNFYKPRKSEATGMMGMMKNRQVPMFGSHHLG 284
             +  QC++S++K PP+  +WIN++  + NFYK  +   T +  M++   +   G  H G
Sbjct: 115 KFLNIQCQLSRLKYPPFAKKWINIRKSYGNFYKVPR-SQTKLTIMLEKLGMDYDGRPHCG 173

Query: 285 IDDTKNITRVLQRMLADGARVQITAR 310
           +DD+KNI R+  RML DG  ++I  +
Sbjct: 174 LDDSKNIARIAVRMLQDGCELRINEK 199

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query326
d1w0ha_200 Exonuclease ERI1 {Human (Homo sapiens) [TaxId: 960 100.0
d2guia1174 N-terminal exonuclease domain of the epsilon subun 99.96
d3b6oa1226 Three prime repair exonuclease 1, TREX1 {Mouse (Mu 99.94
d1wlja_173 Interferon-stimulated gene 20 kDa protein, ISG20 { 99.92
d1y97a1228 Three prime repair exonuclease 2, TREX2 {Human (Ho 99.91
d2f96a1202 Ribonuclease T {Pseudomonas aeruginosa [TaxId: 287 99.85
d2qxfa1 467 Exonuclease I {Escherichia coli K12 (Escherichia c 99.81
d2igia1180 Oligoribonuclease {Escherichia coli [TaxId: 562]} 99.58
d2d5ra1252 CCR4-NOT transcription complex subunit 7, CAF1 {Hu 98.41
d1uoca_286 Pop2 RNase D domain {Baker's yeast (Saccharomyces 97.91
d1x9ma1204 Exonuclease domain of T7 DNA polymerase {Bacteriop 96.93
d1tgoa1347 Exonuclease domain of family B DNA polymerases {Ar 96.11
d1kfsa1195 Exonuclease domain of prokaryotic DNA polymerase { 95.17
d1q8ia1388 Exonuclease domain of family B DNA polymerases {Es 93.22
d1s5ja1410 Exonuclease domain of family B DNA polymerases {Su 90.88
d1yt3a3193 Ribonuclease D, catalytic domain {Escherichia coli 86.05
d1vk0a_206 Hypothetical protein AT5G06450 {Thale-cress (Arabi 80.63
>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=100.00  E-value=2e-36  Score=264.01  Aligned_cols=187  Identities=30%  Similarity=0.608  Sum_probs=168.1

Q ss_pred             CCCeEEEEEeccC----------CceeeeeEEEEEcCCCeEEeEEeecccCCcCCCCCcChhhhcccccCCCCHHHHhCC
Q 020417          113 DLDFFLVLDLEGK----------IEILEFPVLMIDAKTMAFVDLFHRFVRPSKMSEQHINKYIEGKYGKFGVDRVWHDTA  182 (326)
Q Consensus       113 ~~~~~vVfDlETT----------~EIIEIgAVkvD~k~geiid~F~~fVrP~~~p~~~Is~~it~LTgi~GIt~e~V~~A  182 (326)
                      =|++|||||+|||          ++|||||||++|.++++++++|+.+|+|....  ++++.++++|   |||++++.+|
T Consensus         4 ~~~~~iv~D~EtT~~~~~~~~~~~~Iieigav~~d~~~~~~~~~f~~~v~P~~~~--~i~~~~~~it---git~e~l~~~   78 (200)
T d1w0ha_           4 YYDYICIIDFEATCEEGNPPEFVHEIIEFPVVLLNTHTLEIEDTFQQYVRPEINT--QLSDFCISLT---GITQDQVDRA   78 (200)
T ss_dssp             SSSEEEECCCEECCCTTCCTTSCCCEEEEEEEEEETTTCSEEEEEEEEBCCSSSC--SCCHHHHHHH---CCCHHHHHTS
T ss_pred             CCCEEEEEEEecCCCCCCCCCCCCcEEEEEEEEEECCCCeEEEEEEEEEecCccc--cCCHHHHHHH---CCCHHHhhhh
Confidence            4689999999997          67999999999998999999999999998754  6999999986   9999999999


Q ss_pred             CCHHHHHHHHHHHHHhCcccccccCCCCcceEEEEcCcccHHHHHHHHHHHhCCCCCCCCccHhhHHHHHHhhcCCCcCC
Q 020417          183 LPFKEVIQQFEAWLIQHHLWEKGRGGHLKRAAFATCGNWDLKTKVPDQCKVSQIKLPPYFMEWINLKDVFYNFYKPRKSE  262 (326)
Q Consensus       183 p~f~eVl~~F~~fl~~~~Lv~~~~~~~~~~~~~a~ng~fDl~~fL~~~~~~~gi~~p~~~~~~iDl~~l~~~~~~~~~~~  262 (326)
                      +++.+|+++|.+|+.+..++..      ..+.+++|+.+|...||+.+|++.+++.|.+...++|++.++...++..+ .
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~d~~~~L~~~~~~~~~~~p~~~~~~~d~~~~~~~~~~~~~-~  151 (200)
T d1w0ha_          79 DTFPQVLKKVIDWMKLKELGTK------YKYSLLTDGSWDMSKFLNIQCQLSRLKYPPFAKKWINIRKSYGNFYKVPR-S  151 (200)
T ss_dssp             BCHHHHHHHHHHHHHHTTBTTT------BCEEEEESSTTTTHHHHHHHHHHHTCCCCGGGSEEEEHHHHHHHHHTCCG-G
T ss_pred             hhhHhHHHHHHHHhcCCcEEee------eeeeeccchhhhHHHHHHHHHHhccCCCcccccceeeHHhHhhhhccccc-c
Confidence            9999999999999999876542      35788999999887799999999999999878889999999888776543 3


Q ss_pred             CCCHHHHHHhcCCCCCCCCCChHHHHHHHHHHHHHHHHcCCcccccccc
Q 020417          263 ATGMMGMMKNRQVPMFGSHHLGIDDTKNITRVLQRMLADGARVQITARR  311 (326)
Q Consensus       263 ~~~L~~l~k~lgI~~~g~hHrAldDA~~tA~I~~~ll~~g~~~~it~~~  311 (326)
                      ..+|.+|+++||++.+|++|+|++||++||+|+.+|+++|+.++|+++.
T Consensus       152 ~~~L~~l~~~~gi~~~~~aH~Al~Da~~~a~v~~~ll~~g~~~~i~~~~  200 (200)
T d1w0ha_         152 QTKLTIMLEKLGMDYDGRPHCGLDDSKNIARIAVRMLQDGCELRINEKM  200 (200)
T ss_dssp             GCSHHHHHHHTTCCCCSCTTCHHHHHHHHHHHHHHHHHTTCCCCCCEEC
T ss_pred             chHHHHHHHHcCCCCCCCCcChHHHHHHHHHHHHHHHHcCCCCCCCCCC
Confidence            6899999999999998889999999999999999999999999998763
>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
>d1wlja_ c.55.3.5 (A:) Interferon-stimulated gene 20 kDa protein, ISG20 {Human (Homo sapiens) [TaxId: 9606]} 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
>d2f96a1 c.55.3.5 (A:19-220) Ribonuclease T {Pseudomonas aeruginosa [TaxId: 287]} 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
>d2igia1 c.55.3.5 (A:1-180) Oligoribonuclease {Escherichia coli [TaxId: 562]} 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
>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
>d1kfsa1 c.55.3.5 (A:324-518) Exonuclease domain of prokaryotic DNA polymerase {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1q8ia1 c.55.3.5 (A:2-389) Exonuclease domain of family B DNA polymerases {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1s5ja1 c.55.3.5 (A:40-449) Exonuclease domain of family B DNA polymerases {Sulfolobus solfataricus [TaxId: 2287]} 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
>d1vk0a_ c.55.3.5 (A:) Hypothetical protein AT5G06450 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]} Back     information, alignment and structure