Citrus Sinensis ID: 020198

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-------33
MASSPSHQTHIPLSSDPDGKPIDSVVPIHIVTNASQLPAEFLEPSSERQLVIGFDCEGVDLCRHGSLCIMQLAFPDAIYLVDAIQGGETVVKACKPALESSYITKVIHDCKRDSEALYFQFGIKLHNVVDTQIAYSLIEEQEGRKRSPDDYISFVGLLADPRYCGISYQEKEEVRVLLRQDPQFWTYRPLTELMVRAAADDVRFLPYIYHNMMKKLNQQSLWYLAVRGALYCRCFCINENDYVDWPPLPPVPGVRFIYVDYLIVEGDVPEEEILSILDVPPGKMGRIIGRRGSSILAIKESCNAEILIGGAKGPPDKDESLHVHCDVGV
cccccccccccccccccccccccccccEEEEEccccccHHHcccccccccEEEEEcccccccccccEEEEEEEEcccEEEEEEEccccccHHHHHHHHcccccEEEEEcccHHHHHHHHHHccccccccHHHHHHHHHHHHHccccccccHHHHHHHHcccccccccHHHHHHHHHHHcccccccccccccHHHHHHHHHcccHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHccccccccccccccccccccHHHHHHHHccccHHHHHHHcccccccccEEEccccccHHHHHHHHcHHHHcccccccccccccEEEEccccc
cccccccccccccccccccccccccccEEEEEccccccHHHHcccccccEEEEEEEcccccccccEEEEEEEEccccEEEEEcccccHHHHHHHHHHHccccEEEEEEccHHHHHHHHHHcccEEEccccHHHHHHHHHHHcccccccccEEcHHHHHHcHHHcccccHHHHHHHHHHHcccHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEEEcccHHccccccccccccccccHHHccccccccHHHHHHHccccccccEEEEcccccHHHHHHHHccEEEEEcccccccccccccEEEccccc
masspshqthiplssdpdgkpidsvvpihivtnasqlpaeflepsserqlvigfdcegvdlcrhgslcimqlafpDAIYLVDAIQGGETVVKACkpalessyITKVIHDCKRDSEALYFQFGIKLHNVVDTQIAYSLIEeqegrkrspddyISFVGlladprycgisyqEKEEVRVLLRqdpqfwtyrpLTELMVRAAADDVRFLPYIYHNMMKKLNQQSLWYLAVRGALYCRCfcinendyvdwpplppvpgvrfIYVDYLivegdvpeeeilsildvppgkmgriigrrGSSILAIKESCNAeiliggakgppdkdeslhvhcdvgv
masspshqthiplssdpdgkPIDSVVPIHIVTNASQLPAEFLEPSSERQLVIGFDCEGVDLCRHGSLCIMQLAFPDAIYLVDAIQGGETVVKACKPALESSYITKVIHDCKRDSEALYFQFGIKLHNVVDTQIAYSLIeeqegrkrspDDYISFVGLLADPRYCGISYQEKEEVRVLLRQDPQFWTYRPLTELMVRAAADDVRFLPYIYHNMMKKLNQQSLWYLAVRGALYCRCFCINENDYVDWPPLPPVPGVRFIYVDYLIVEGDVPEEEILSildvppgkmgrIIGRRGSSILAIKESCNAEILIGgakgppdkdeslhvhcdvgv
MASSPSHQTHIPLSSDPDGKPIDSVVPIHIVTNASQLPAEFLEPSSERQLVIGFDCEGVDLCRHGSLCIMQLAFPDAIYLVDAIQGGETVVKACKPALESSYITKVIHDCKRDSEALYFQFGIKLHNVVDTQIAYSLIEEQEGRKRSPDDYISFVGLLADPRYCGISYQEKEEVRVLLRQDPQFWTYRPLTELMVRAAADDVRFLPYIYHNMMKKLNQQSLWYLAVRGALYCRCFCINENDYVDWPPLPPVPGVRFIYVDYLIVEGDVPEEEILSILDVPPGKMGRIIGRRGSSILAIKESCNAEILIGGAKGPPDKDESLHVHCDVGV
************************VVPIHIVTNASQLPAEFLE***ERQLVIGFDCEGVDLCRHGSLCIMQLAFPDAIYLVDAIQGGETVVKACKPALESSYITKVIHDCKRDSEALYFQFGIKLHNVVDTQIAYSLIEE********DDYISFVGLLADPRYCGISYQEKEEVRVLLRQDPQFWTYRPLTELMVRAAADDVRFLPYIYHNMMKKLNQQSLWYLAVRGALYCRCFCINENDYVDWPPLPPVPGVRFIYVDYLIVEGDVPEEEILSILDVPPGKMGRIIGRRGSSILAIKESCNAEILIGG*******************
*************************VPIHIVTNASQLPAEFLEPSSERQLVIGFDCEGVDLCRHGSLCIMQLAFPDAIYLVDAIQGGETVVKACKPALESSYITKVIHDCKRDSEALYFQFGIKLHNVVDTQIAYSLIEEQEGRKRSPDDYISFVGLLADPRYCGISYQEKEEVRVLLRQDPQFWTYRPLTELMVRAAADDVRFLPYIYHNMMKKLNQQSLWYLAVRGALYCRCFCINENDYVDWPPLPPVPGVRFIYVDYLIVEGDVPEEEILSILDVPPGKMGRIIGRRGSSILAIKESCNAEILIGGAKGPPDKDESLHVHCDVGV
**************SDPDGKPIDSVVPIHIVTNASQLPAEFLEPSSERQLVIGFDCEGVDLCRHGSLCIMQLAFPDAIYLVDAIQGGETVVKACKPALESSYITKVIHDCKRDSEALYFQFGIKLHNVVDTQIAYSLIEEQEGRKRSPDDYISFVGLLADPRYCGISYQEKEEVRVLLRQDPQFWTYRPLTELMVRAAADDVRFLPYIYHNMMKKLNQQSLWYLAVRGALYCRCFCINENDYVDWPPLPPVPGVRFIYVDYLIVEGDVPEEEILSILDVPPGKMGRIIGRRGSSILAIKESCNAEILIGGAKGPPDKDESLHVHCDVGV
*****************DGKPIDSVVPIHIVTNASQLPAEFLEPSSERQLVIGFDCEGVDLCRHGSLCIMQLAFPDAIYLVDAIQGGETVVKACKPALESSYITKVIHDCKRDSEALYFQFGIKLHNVVDTQIAYSLIEEQEGRKRSPDDYISFVGLLADPRYCGISYQEKEEVRVLLRQDPQFWTYRPLTELMVRAAADDVRFLPYIYHNMMKKLNQQSLWYLAVRGALYCRCFCINENDYVDWPPLPPVPGVRFIYVDYLIVEGDVPEEEILSILDVPPGKMGRIIGRRGSSILAIKESCNAEILIGGAKGPPDKDESLHV*C**G*
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MASSPSHQTHIPLSSDPDGKPIDSVVPIHIVTNASQLPAEFLEPSSERQLVIGFDCEGVDLCRHGSLCIMQLAFPDAIYLVDAIQGGETVVKACKPALESSYITKVIHDCKRDSEALYFQFGIKLHNVVDTQIAYSLIEEQEGRKRSPDDYISFVGLLADPRYCGISYQEKEEVRVLLRQDPQFWTYRPLTELMVRAAADDVRFLPYIYHNMMKKLNQQSLWYLAVRGALYCRCFCINENDYVDWPPLPPVPGVRFIYVDYLIVEGDVPEEEILSILDVPPGKMGRIIGRRGSSILAIKESCNAEILIGGAKGPPDKDESLHVHCDVGV
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 ?
Query329 2.2.26 [Sep-21-2011]
Q8CDF7 570 Exonuclease 3'-5' domain- yes no 0.468 0.270 0.317 3e-14
Q8NHP7 514 Exonuclease 3'-5' domain- yes no 0.452 0.289 0.327 7e-14
Q6NRD5444 Exonuclease 3'-5' domain- N/A no 0.267 0.198 0.404 3e-10
Q0P3U3378 Exonuclease 3'-5' domain- yes no 0.434 0.378 0.303 2e-06
P56960 887 Exosome component 10 OS=M no no 0.498 0.184 0.263 2e-05
Q6G329406 Ribonuclease D OS=Bartone yes no 0.416 0.337 0.297 7e-05
Q01780 885 Exosome component 10 OS=H no no 0.422 0.157 0.269 0.0002
A5G127 392 Ribonuclease D OS=Acidiph yes no 0.398 0.334 0.246 0.0004
Q1QLI8382 Ribonuclease D OS=Nitroba yes no 0.215 0.185 0.333 0.0009
>sp|Q8CDF7|EXD1_MOUSE Exonuclease 3'-5' domain-containing protein 1 OS=Mus musculus GN=Exd1 PE=2 SV=1 Back     alignment and function desciption
 Score = 79.7 bits (195), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 52/164 (31%), Positives = 83/164 (50%), Gaps = 10/164 (6%)

Query: 47  ERQLVIGFDCEGVDLCRHGSLCIMQLAFPDAIYLVDA-IQGGETVVKACKPALESSYITK 105
           ++Q V+    EG ++CRHG LC +Q+A    +YL D  + G        +  LE   I K
Sbjct: 153 KKQSVLSVAAEGANVCRHGKLCWLQVATNSRVYLFDIFLLGSRAFNNGLQMILEDKRILK 212

Query: 106 VIHDCKRDSEALYFQFGIKLHNVVDTQIAYSLIEEQEGRKRSPDDYISFV-----GLLAD 160
           VIHDC+  S+ L  Q+GI L+NV DTQ+A  L    E     P+   +        L   
Sbjct: 213 VIHDCRWLSDCLSHQYGIMLNNVFDTQVADVLQFSMETGGFLPNCISTLQESLIRHLKVA 272

Query: 161 PRYCGISYQEKEEVRVLLRQDPQFWTYRPLTELMVRAAADDVRF 204
           PRY  + + E+ + R+  +++P+ W  RPL   +++  A +  +
Sbjct: 273 PRY--LFFLEERQKRI--QENPEIWLTRPLPPSLLKILALETTY 312

Mus musculus (taxid: 10090)
>sp|Q8NHP7|EXD1_HUMAN Exonuclease 3'-5' domain-containing protein 1 OS=Homo sapiens GN=EXD1 PE=2 SV=4 Back     alignment and function description
>sp|Q6NRD5|EXD1_XENLA Exonuclease 3'-5' domain-containing protein 1 OS=Xenopus laevis GN=exd1 PE=2 SV=1 Back     alignment and function description
>sp|Q0P3U3|EXD1_DANRE Exonuclease 3'-5' domain-containing protein 1 OS=Danio rerio GN=exd1 PE=2 SV=1 Back     alignment and function description
>sp|P56960|EXOSX_MOUSE Exosome component 10 OS=Mus musculus GN=Exosc10 PE=1 SV=2 Back     alignment and function description
>sp|Q6G329|RND_BARHE Ribonuclease D OS=Bartonella henselae (strain ATCC 49882 / Houston 1) GN=rnd PE=3 SV=1 Back     alignment and function description
>sp|Q01780|EXOSX_HUMAN Exosome component 10 OS=Homo sapiens GN=EXOSC10 PE=1 SV=2 Back     alignment and function description
>sp|A5G127|RND_ACICJ Ribonuclease D OS=Acidiphilium cryptum (strain JF-5) GN=rnd PE=3 SV=1 Back     alignment and function description
>sp|Q1QLI8|RND_NITHX Ribonuclease D OS=Nitrobacter hamburgensis (strain X14 / DSM 10229) GN=rnd PE=3 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 ?
Query329
225429426341 PREDICTED: uncharacterized protein LOC10 0.942 0.909 0.817 1e-150
255550866342 3'-5' exonuclease, putative [Ricinus com 0.939 0.903 0.785 1e-148
224142834331 predicted protein [Populus trichocarpa] 0.908 0.903 0.797 1e-145
224088954378 predicted protein [Populus trichocarpa] 0.945 0.822 0.715 1e-143
225442373336 PREDICTED: uncharacterized protein LOC10 0.939 0.919 0.769 1e-142
449450328340 PREDICTED: uncharacterized protein LOC10 0.942 0.911 0.752 1e-142
297743128367 unnamed protein product [Vitis vinifera] 0.939 0.841 0.769 1e-142
82621130338 3'-5' exonuclease domain-containing prot 0.872 0.849 0.789 1e-138
18400976341 3'-5' exonuclease and KH-I domain-contai 0.939 0.906 0.736 1e-136
297825683342 hypothetical protein ARALYDRAFT_481448 [ 0.939 0.903 0.733 1e-136
>gi|225429426|ref|XP_002276186.1| PREDICTED: uncharacterized protein LOC100259526 [Vitis vinifera] gi|147856945|emb|CAN82846.1| hypothetical protein VITISV_007988 [Vitis vinifera] gi|296081603|emb|CBI20608.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  537 bits (1384), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 264/323 (81%), Positives = 289/323 (89%), Gaps = 13/323 (4%)

Query: 1   MAS-SPSHQTHIPLSSDPDGKPIDS-----VVPIHIVTNASQLPAEFLEPSSERQLVIGF 54
           MAS SPS  T+IP+ SDP GKPID      +VPIHIVT  SQLP EFLEPS ER+LVIGF
Sbjct: 1   MASPSPSQPTYIPMPSDPGGKPIDHEGLLPLVPIHIVTLPSQLPIEFLEPSPERKLVIGF 60

Query: 55  DCEGVDLCRHGSLCIMQLAFPDAIYLVDAIQGGETVVKACKPALESSYITKVIHDCKRDS 114
           DCEGVDLCRHG+LCIMQ+AFPDAIYLVDAIQGGE ++KACKPALESSYITKVIHDCKRDS
Sbjct: 61  DCEGVDLCRHGTLCIMQIAFPDAIYLVDAIQGGEMLMKACKPALESSYITKVIHDCKRDS 120

Query: 115 EALYFQFGIKLHNVVDTQIAYSLIEEQEGRKRSPDDYISFVGLLADPRYCGISYQEKEEV 174
           EALYFQFGIKLHNVVDTQIAYSLIEEQEGRKR  DDYISFVGLLADPRYCG+SY EK+EV
Sbjct: 121 EALYFQFGIKLHNVVDTQIAYSLIEEQEGRKRLVDDYISFVGLLADPRYCGVSYLEKQEV 180

Query: 175 RVLLRQDPQFWTYRPLTELMVRAAADDVRFLPYIYHNMMKKLNQQSLWYLAVRGALYCRC 234
           R LLRQ+P FWT+RPL++LMVRAAADDVRFL YIYH MM+KLN++SLWYLAVRGALYCRC
Sbjct: 181 RDLLRQNPDFWTHRPLSDLMVRAAADDVRFLLYIYHKMMEKLNERSLWYLAVRGALYCRC 240

Query: 235 FCINENDYVDWPPLPPVPGVRFIYVDYLIVEGDVPEEEILSILDVPPGKMGRIIGRRGSS 294
           FCIN+NDY DWPPLPP+P       D LIVEG+ PEEEILS+L VPPGKMGR+IGRRG+S
Sbjct: 241 FCINDNDYADWPPLPPIP-------DNLIVEGNAPEEEILSVLHVPPGKMGRVIGRRGAS 293

Query: 295 ILAIKESCNAEILIGGAKGPPDK 317
           IL++KESCNAEILIGGAKGPPDK
Sbjct: 294 ILSVKESCNAEILIGGAKGPPDK 316

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255550866|ref|XP_002516481.1| 3'-5' exonuclease, putative [Ricinus communis] gi|223544301|gb|EEF45822.1| 3'-5' exonuclease, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|224142834|ref|XP_002324746.1| predicted protein [Populus trichocarpa] gi|222866180|gb|EEF03311.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224088954|ref|XP_002308585.1| predicted protein [Populus trichocarpa] gi|222854561|gb|EEE92108.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|225442373|ref|XP_002281479.1| PREDICTED: uncharacterized protein LOC100263418 [Vitis vinifera] Back     alignment and taxonomy information
>gi|449450328|ref|XP_004142915.1| PREDICTED: uncharacterized protein LOC101214970 [Cucumis sativus] gi|449522022|ref|XP_004168027.1| PREDICTED: uncharacterized protein LOC101223734 [Cucumis sativus] Back     alignment and taxonomy information
>gi|297743128|emb|CBI35995.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|82621130|gb|ABB86253.1| 3'-5' exonuclease domain-containing protein-like [Solanum tuberosum] Back     alignment and taxonomy information
>gi|18400976|ref|NP_565612.1| 3'-5' exonuclease and KH-I domain-containing protein [Arabidopsis thaliana] gi|13605561|gb|AAK32774.1|AF361606_1 At2g25910/F17H15.6 [Arabidopsis thaliana] gi|18491139|gb|AAL69538.1| At2g25910/F17H15.6 [Arabidopsis thaliana] gi|20197359|gb|AAC42241.2| expressed protein [Arabidopsis thaliana] gi|21554875|gb|AAM63716.1| unknown [Arabidopsis thaliana] gi|330252677|gb|AEC07771.1| 3'-5' exonuclease and KH-I domain-containing protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|297825683|ref|XP_002880724.1| hypothetical protein ARALYDRAFT_481448 [Arabidopsis lyrata subsp. lyrata] gi|297326563|gb|EFH56983.1| hypothetical protein ARALYDRAFT_481448 [Arabidopsis lyrata subsp. lyrata] 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 ?
Query329
TAIR|locus:2043555342 AT2G25910 [Arabidopsis thalian 0.939 0.903 0.733 2.6e-127
FB|FBgn0000562 1004 egl "egalitarian" [Drosophila 0.525 0.172 0.318 1.7e-18
DICTYBASE|DDB_G0282387390 DDB_G0282387 "3'-5' exonucleas 0.516 0.435 0.306 8.7e-17
GENEDB_PFALCIPARUM|MAL8P1.35406 MAL8P1.35 "exonuclease, putati 0.562 0.455 0.300 8.4e-16
UNIPROTKB|Q8IB75406 MAL8P1.35 "Exonuclease, putati 0.562 0.455 0.300 8.4e-16
UNIPROTKB|F1SSV1 568 LOC100621282 "Uncharacterized 0.471 0.272 0.327 4.6e-14
UNIPROTKB|E2RJB4 569 EXD1 "Uncharacterized protein" 0.483 0.279 0.329 6.2e-14
UNIPROTKB|Q8NHP7 514 EXD1 "Exonuclease 3'-5' domain 0.471 0.301 0.327 8.6e-14
MGI|MGI:3045306 570 Exd1 "exonuclease 3'-5' domain 0.471 0.271 0.327 1.1e-13
UNIPROTKB|B7Z839 572 EXD1 "cDNA FLJ55584" [Homo sap 0.471 0.270 0.327 1.1e-13
TAIR|locus:2043555 AT2G25910 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1250 (445.1 bits), Expect = 2.6e-127, P = 2.6e-127
 Identities = 237/323 (73%), Positives = 274/323 (84%)

Query:     2 ASSPSHQTHIPLSSDPDGK-PIDSV----VPIHIVTNASQLPAEFLEPSSERQLVIGFDC 56
             +SSP+   H+P+  +P G+ P        VPI+IVT+  QLPA+FL PS E++LVIGFDC
Sbjct:     3 SSSPTQLAHVPIPPEPGGRSPTQEANEPPVPIYIVTDPFQLPADFLNPSPEKKLVIGFDC 62

Query:    57 EGVDLCRHGSLCIMQLAFPDAIYLVDAIQGGETVVKACKPALESSYITKVIHDCKRDSEA 116
             EGVDLCRHG LCIMQ+AF +AIYLVD I+GGE ++KACKPALES+YITKVIHDCKRDSEA
Sbjct:    63 EGVDLCRHGKLCIMQIAFSNAIYLVDVIEGGEVIMKACKPALESNYITKVIHDCKRDSEA 122

Query:   117 LYFQFGIKLHNVVDTQIAYSLIEEQEGRKRSPDDYISFVGLLADPRYCGISYQEKEEVRV 176
             LYFQFGI+LHNVVDTQIAYSLIEEQEGR+R  DDYISFV LLADPRYCGISY+EKEEVRV
Sbjct:   123 LYFQFGIRLHNVVDTQIAYSLIEEQEGRRRPLDDYISFVSLLADPRYCGISYEEKEEVRV 182

Query:   177 LLRQDPQFWTYRPLTELMVRAAADDVRFLPYIYHNMMKKLNQQSLWYLAVRGALYCRCFC 236
             L+RQDP+FWTYRP+TELM+RAAADDVRFL Y+YH MM KLNQ+SLW+LAVRGALYCRC C
Sbjct:   183 LMRQDPKFWTYRPMTELMIRAAADDVRFLLYLYHKMMGKLNQRSLWHLAVRGALYCRCLC 242

Query:   237 -INENDYVDWPPLPPVPGVRFIYVDYLIVEGDVPEEEILSILDVPPGKMGRIIGRRGSSI 295
              +N+ D+ DWP +PP+P       D L  E    EEEILS+LDVPPGKMGR+IGR+G+SI
Sbjct:   243 CMNDADFADWPTVPPIP-------DNLKSEDQCLEEEILSVLDVPPGKMGRVIGRKGASI 295

Query:   296 LAIKESCN-AEILIGGAKGPPDK 317
             LAIKE+CN AEILIGGAKGPPDK
Sbjct:   296 LAIKEACNSAEILIGGAKGPPDK 318
GO:0003676 "nucleic acid binding" evidence=IEA;ISS
GO:0003723 "RNA binding" evidence=IEA
GO:0005622 "intracellular" evidence=ISS
GO:0005737 "cytoplasm" evidence=ISM
GO:0006139 "nucleobase-containing compound metabolic process" evidence=IEA
GO:0008408 "3'-5' exonuclease activity" evidence=IEA;ISS
GO:0006623 "protein targeting to vacuole" evidence=RCA
GO:0016192 "vesicle-mediated transport" evidence=RCA
FB|FBgn0000562 egl "egalitarian" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0282387 DDB_G0282387 "3'-5' exonuclease domain-containing protein" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
GENEDB_PFALCIPARUM|MAL8P1.35 MAL8P1.35 "exonuclease, putative" [Plasmodium falciparum (taxid:5833)] Back     alignment and assigned GO terms
UNIPROTKB|Q8IB75 MAL8P1.35 "Exonuclease, putative" [Plasmodium falciparum 3D7 (taxid:36329)] Back     alignment and assigned GO terms
UNIPROTKB|F1SSV1 LOC100621282 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|E2RJB4 EXD1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|Q8NHP7 EXD1 "Exonuclease 3'-5' domain-containing protein 1" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
MGI|MGI:3045306 Exd1 "exonuclease 3'-5' domain containing 1" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|B7Z839 EXD1 "cDNA FLJ55584" [Homo sapiens (taxid:9606)] 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 ?

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

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

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 ?
Query329
cd06148197 cd06148, Egl_like_exo, DEDDy 3'-5' exonuclease dom 2e-80
cd06142178 cd06142, RNaseD_exo, DEDDy 3'-5' exonuclease domai 2e-26
smart00474172 smart00474, 35EXOc, 3'-5' exonuclease 1e-22
pfam01612172 pfam01612, DNA_pol_A_exo1, 3'-5' exonuclease 1e-21
COG0349361 COG0349, Rnd, Ribonuclease D [Translation, ribosom 2e-13
cd06129161 cd06129, RNaseD_like, DEDDy 3'-5' exonuclease doma 2e-12
TIGR01388367 TIGR01388, rnd, ribonuclease D 7e-11
cd06146193 cd06146, mut-7_like_exo, DEDDy 3'-5' exonuclease d 7e-10
cd09018150 cd09018, DEDDy_polA_RNaseD_like_exo, DEDDy 3'-5' e 1e-08
cd06147192 cd06147, Rrp6p_like_exo, DEDDy 3'-5' exonuclease d 7e-08
PRK05755 880 PRK05755, PRK05755, DNA polymerase I; Provisional 2e-07
cd06141170 cd06141, WRN_exo, DEDDy 3'-5' exonuclease domain o 4e-07
cd06139193 cd06139, DNA_polA_I_Ecoli_like_exo, DEDDy 3'-5' ex 7e-05
cd06140178 cd06140, DNA_polA_I_Bacillus_like_exo, inactive DE 8e-05
pfam0001359 pfam00013, KH_1, KH domain 1e-04
cd0010564 cd00105, KH-I, K homology RNA-binding domain, type 2e-04
smart0032268 smart00322, KH, K homology RNA-binding domain 5e-04
PRK10829373 PRK10829, PRK10829, ribonuclease D; Provisional 0.001
PRK04163235 PRK04163, PRK04163, exosome complex RNA-binding pr 0.001
>gnl|CDD|99851 cd06148, Egl_like_exo, DEDDy 3'-5' exonuclease domain of Drosophila Egalitarian (Egl) and similar proteins Back     alignment and domain information 
 Score =  242 bits (620), Expect = 2e-80
 Identities = 89/198 (44%), Positives = 117/198 (59%), Gaps = 4/198 (2%)

Query: 41  FLEPSSERQLVIGFDCEGVDLCRHGSLCIMQLAFP-DAIYLVDAIQGGETVV-KACKPAL 98
                 ++Q VIG DCEGV+L R G LC++Q+A     IYL D ++ G  V     K  L
Sbjct: 2   EAIIHLKKQKVIGLDCEGVNLGRKGKLCLVQIATRTGQIYLFDILKLGSIVFINGLKDIL 61

Query: 99  ESSYITKVIHDCKRDSEALYFQFGIKLHNVVDTQIAYSLIEEQEGRKRSPDDYISFVGLL 158
           ES  I KVIHDC+RDS+ALY Q+GIKL+NV DTQ+A +L++EQE    +PD  IS V LL
Sbjct: 62  ESKKILKVIHDCRRDSDALYHQYGIKLNNVFDTQVADALLQEQETGGFNPDRVISLVQLL 121

Query: 159 ADPRYCGISYQEKEEVRVLLRQDPQFWTYRPLTELMVRAAADDVRFLPYIYHNMMKKLNQ 218
               Y  IS   KE+V+ L+R+DP+FW  RPLTE M+R AA DV  L  +Y+ M+  L  
Sbjct: 122 DKYLYISIS--LKEDVKKLMREDPKFWALRPLTEDMIRYAALDVLCLLPLYYAMLDALIS 179

Query: 219 QSLWYLAVRGALYCRCFC 236
           + L  +            
Sbjct: 180 KFLKAVFKYLNTERNLSE 197

The Egalitarian (Egl) protein subfamily is composed of Drosophila Egl and similar proteins. Egl is a component of an mRNA-binding complex which is required for oocyte specification. Egl contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain possessing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. The 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. The conservation of this subfamily throughout eukaryotes suggests that its members may be part of ancient RNA processing complexes that are likely to participate in the regulated processing of specific mRNAs. Some members of this subfamily do not have a completely conserved YX(3)D pattern at the ExoIII motif. Length = 197
>gnl|CDD|176654 cd06142, RNaseD_exo, DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins Back     alignment and domain information
>gnl|CDD|214681 smart00474, 35EXOc, 3'-5' exonuclease Back     alignment and domain information
>gnl|CDD|216604 pfam01612, DNA_pol_A_exo1, 3'-5' exonuclease Back     alignment and domain information
>gnl|CDD|223426 COG0349, Rnd, Ribonuclease D [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|176650 cd06129, RNaseD_like, DEDDy 3'-5' exonuclease domain of RNase D, WRN, and similar proteins Back     alignment and domain information
>gnl|CDD|130455 TIGR01388, rnd, ribonuclease D Back     alignment and domain information
>gnl|CDD|176655 cd06146, mut-7_like_exo, DEDDy 3'-5' exonuclease domain of Caenorhabditis elegans mut-7 and similar proteins Back     alignment and domain information
>gnl|CDD|176656 cd09018, DEDDy_polA_RNaseD_like_exo, DEDDy 3'-5' exonuclease domain of family-A DNA polymerases, RNase D, WRN, and similar proteins Back     alignment and domain information
>gnl|CDD|99850 cd06147, Rrp6p_like_exo, DEDDy 3'-5' exonuclease domain of yeast Rrp6p, human polymyositis/scleroderma autoantigen 100kDa, and similar proteins Back     alignment and domain information
>gnl|CDD|235591 PRK05755, PRK05755, DNA polymerase I; Provisional Back     alignment and domain information
>gnl|CDD|176653 cd06141, WRN_exo, DEDDy 3'-5' exonuclease domain of WRN and similar proteins Back     alignment and domain information
>gnl|CDD|176651 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
>gnl|CDD|176652 cd06140, DNA_polA_I_Bacillus_like_exo, inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases Back     alignment and domain information
>gnl|CDD|215657 pfam00013, KH_1, KH domain Back     alignment and domain information
>gnl|CDD|238053 cd00105, KH-I, K homology RNA-binding domain, type I Back     alignment and domain information
>gnl|CDD|197652 smart00322, KH, K homology RNA-binding domain Back     alignment and domain information
>gnl|CDD|236771 PRK10829, PRK10829, ribonuclease D; Provisional Back     alignment and domain information
>gnl|CDD|235233 PRK04163, PRK04163, exosome complex RNA-binding protein Rrp4; 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 329
PRK10829373 ribonuclease D; Provisional 100.0
COG0349361 Rnd Ribonuclease D [Translation, ribosomal structu 100.0
TIGR01388367 rnd ribonuclease D. This model describes ribonucle 99.97
cd06148197 Egl_like_exo DEDDy 3'-5' exonuclease domain of Dro 99.96
cd06146193 mut-7_like_exo DEDDy 3'-5' exonuclease domain of C 99.95
cd06129161 RNaseD_like DEDDy 3'-5' exonuclease domain of RNas 99.94
cd06141170 WRN_exo DEDDy 3'-5' exonuclease domain of WRN and 99.92
PF01612176 DNA_pol_A_exo1: 3'-5' exonuclease; InterPro: IPR00 99.91
KOG2206 687 consensus Exosome 3'-5' exoribonuclease complex, s 99.86
cd06142178 RNaseD_exo DEDDy 3'-5' exonuclease domain of Ribon 99.8
smart00474172 35EXOc 3'-5' exonuclease. 3\' -5' exonuclease proo 99.71
cd06147192 Rrp6p_like_exo DEDDy 3'-5' exonuclease domain of y 99.68
cd00007155 35EXOc 3'-5' exonuclease. The 35EXOc domain is res 99.63
cd09018150 DEDDy_polA_RNaseD_like_exo DEDDy 3'-5' exonuclease 99.6
cd06140178 DNA_polA_I_Bacillus_like_exo inactive DEDDy 3'-5' 99.6
PRK05755 880 DNA polymerase I; Provisional 99.59
cd06139193 DNA_polA_I_Ecoli_like_exo DEDDy 3'-5' exonuclease 99.5
PRK14975 553 bifunctional 3'-5' exonuclease/DNA polymerase; Pro 99.43
KOG2207617 consensus Predicted 3'-5' exonuclease [Replication 99.37
KOG2405458 consensus Predicted 3'-5' exonuclease [Replication 99.29
COG0749 593 PolA DNA polymerase I - 3'-5' exonuclease and poly 99.23
TIGR00593 887 pola DNA polymerase I. This family is based on the 99.05
cd06128151 DNA_polA_exo DEDDy 3'-5' exonuclease domain of fam 98.75
KOG2405 458 consensus Predicted 3'-5' exonuclease [Replication 98.02
KOG4373319 consensus Predicted 3'-5' exonuclease [General fun 97.97
cd0612596 DnaQ_like_exo DnaQ-like (or DEDD) 3'-5' exonucleas 97.1
PRK07740244 hypothetical protein; Provisional 96.16
PRK06063313 DNA polymerase III subunit epsilon; Provisional 95.95
cd0239665 PCBP_like_KH K homology RNA-binding domain, PCBP_l 95.76
cd0239462 vigilin_like_KH K homology RNA-binding domain_vigi 95.74
TIGR00573217 dnaq exonuclease, DNA polymerase III, epsilon subu 95.43
PRK07942232 DNA polymerase III subunit epsilon; Provisional 95.07
COG183776 Predicted RNA-binding protein (contains KH domain) 94.82
KOG2249280 consensus 3'-5' exonuclease [Replication, recombin 94.81
cd06137161 DEDDh_RNase DEDDh 3'-5' exonuclease domain of the 94.7
PRK07883 557 hypothetical protein; Validated 94.61
cd0239361 PNPase_KH Polynucleotide phosphorylase (PNPase) K 94.58
PF1301443 KH_3: KH domain 94.47
cd06144152 REX4_like DEDDh 3'-5' exonuclease domain of RNA ex 94.42
cd0010564 KH-I K homology RNA-binding domain, type I. KH bin 94.37
COG2176 1444 PolC DNA polymerase III, alpha subunit (gram-posit 94.19
PRK07246 820 bifunctional ATP-dependent DNA helicase/DNA polyme 94.02
cd06131167 DNA_pol_III_epsilon_Ecoli_like DEDDh 3'-5' exonucl 93.89
PRK0046875 hypothetical protein; Provisional 93.89
cd06149157 ISG20 DEDDh 3'-5' exonuclease domain of Interferon 93.82
PRK05711240 DNA polymerase III subunit epsilon; Provisional 93.32
TIGR01406225 dnaQ_proteo DNA polymerase III, epsilon subunit, P 93.14
TIGR01298200 RNaseT ribonuclease T. in gamma-subdivision Proteo 92.99
cd06145150 REX1_like DEDDh 3'-5' exonuclease domain of RNA ex 92.88
TIGR01405 1213 polC_Gram_pos DNA polymerase III, alpha chain, Gra 92.85
PRK06310250 DNA polymerase III subunit epsilon; Validated 92.58
smart0032269 KH K homology RNA-binding domain. 92.57
PRK08074 928 bifunctional ATP-dependent DNA helicase/DNA polyme 91.83
PRK0282177 hypothetical protein; Provisional 91.78
PRK06807313 DNA polymerase III subunit epsilon; Validated 91.54
PRK09146239 DNA polymerase III subunit epsilon; Validated 91.48
PRK08517257 DNA polymerase III subunit epsilon; Provisional 91.23
PRK05601377 DNA polymerase III subunit epsilon; Validated 90.71
PF0001360 KH_1: KH domain syndrome, contains KH motifs.; Int 90.42
cd05780195 DNA_polB_Kod1_like_exo DEDDy 3'-5' exonuclease dom 90.21
PRK06309232 DNA polymerase III subunit epsilon; Validated 90.19
cd06136177 TREX1_2 DEDDh 3'-5' exonuclease domain of three pr 90.11
cd05160199 DEDDy_DNA_polB_exo DEDDy 3'-5' exonuclease domain 90.06
cd06130156 DNA_pol_III_epsilon_like an uncharacterized bacter 89.83
PRK0106478 hypothetical protein; Provisional 89.79
cd06143174 PAN2_exo DEDDh 3'-5' exonuclease domain of the euk 89.59
TIGR01407 850 dinG_rel DnaQ family exonuclease/DinG family helic 88.87
PRK09145202 DNA polymerase III subunit epsilon; Validated 87.07
PRK05168211 ribonuclease T; Provisional 86.7
PRK07247195 DNA polymerase III subunit epsilon; Validated 85.28
PF13482164 RNase_H_2: RNase_H superfamily; PDB: 1TKD_A 1TK5_A 85.21
cd0213461 NusA_KH NusA_K homology RNA-binding domain (KH). N 82.44
PRK00448 1437 polC DNA polymerase III PolC; Validated 81.98
cd05785207 DNA_polB_like2_exo Uncharacterized bacterial subgr 81.53
PRK06195309 DNA polymerase III subunit epsilon; Validated 80.26
>PRK10829 ribonuclease D; Provisional Back     alignment and domain information 
Probab=100.00  E-value=1.2e-37  Score=301.43  Aligned_cols=251  Identities=20%  Similarity=0.190  Sum_probs=208.5

Q ss_pred             cEEEEeCCCCCCccccCCCcccceEEeeecCccccc-cCCceeEEEeecCCeeEEEecccchHHHHHhccccccccceee
Q 020198           27 PIHIVTNASQLPAEFLEPSSERQLVIGFDCEGVDLC-RHGSLCIMQLAFPDAIYLVDAIQGGETVVKACKPALESSYITK  105 (329)
Q Consensus        27 ~i~vV~t~~~L~~~~l~~~~~~~~~Ia~D~E~~~~~-~~g~l~llQLa~~~~~~liD~~~l~~~~~~~L~~lLed~~i~K  105 (329)
                      .|.+|+|+++|.+ +++. +.+.+.+|||+|+.+.. +++++|+|||++++++|+||+..+.+  ++.|+++|+|++|.|
T Consensus         2 ~~~~I~t~~~L~~-~~~~-l~~~~~lalDtEf~~~~ty~~~l~LiQl~~~~~~~LiD~l~~~d--~~~L~~ll~~~~ivK   77 (373)
T PRK10829          2 NYQMITTDDALAS-VCEA-ARAFPAIALDTEFVRTRTYYPQLGLIQLYDGEQLSLIDPLGITD--WSPFKALLRDPQVTK   77 (373)
T ss_pred             CcEEeCCHHHHHH-HHHH-HhcCCeEEEecccccCccCCCceeEEEEecCCceEEEecCCccc--hHHHHHHHcCCCeEE
Confidence            4789999999997 8887 68889999999999876 77899999999989999999998754  678999999999999


Q ss_pred             eeccccCccchhheecceeecccchhHHHHHHHHhHhcCCCCCCCeeeeeecccCCcccCCccchhHHHHHHHhcCCCCc
Q 020198          106 VIHDCKRDSEALYFQFGIKLHNVVDTQIAYSLIEEQEGRKRSPDDYISFVGLLADPRYCGISYQEKEEVRVLLRQDPQFW  185 (329)
Q Consensus       106 V~hd~k~Dl~~L~~~~Gi~l~~vfDt~lA~~LL~~~~~~~~l~~~~~sL~~L~~~~~~Lg~~l~~k~~~~~l~~~~~~~W  185 (329)
                      |+|++++|+..|++.+|+.+.++||||+|+++++.+.        .+||+.|++  ++||++++| ++.+       +||
T Consensus        78 V~H~~~~Dl~~l~~~~g~~p~~~fDTqiaa~~lg~~~--------~~gl~~Lv~--~~lgv~ldK-~~~~-------sDW  139 (373)
T PRK10829         78 FLHAGSEDLEVFLNAFGELPQPLIDTQILAAFCGRPL--------SCGFASMVE--EYTGVTLDK-SESR-------TDW  139 (373)
T ss_pred             EEeChHhHHHHHHHHcCCCcCCeeeHHHHHHHcCCCc--------cccHHHHHH--HHhCCccCc-cccc-------CCC
Confidence            9999999999998889999999999999999998641        368999999  999999984 4332       599


Q ss_pred             cccchHHHHHHhhcccceehHHHHHHHHHHhhhhcchheeecceeeeeee--eecCCCCCCCCCCCCCCcccccccccee
Q 020198          186 TYRPLTELMVRAAADDVRFLPYIYHNMMKKLNQQSLWYLAVRGALYCRCF--CINENDYVDWPPLPPVPGVRFIYVDYLI  263 (329)
Q Consensus       186 ~~RPLs~~ql~YAA~Da~~Ll~L~~~L~~~L~~~g~~~~~~~~~~~~r~~--~~~~~~~~~w~~~~~~~~~~~~~~~~l~  263 (329)
                      +.||||++|+.|||.||++|+.||+.|.++|.+.|.+.|+.+++......  ...++ ...|+++.+..   .+++++|+
T Consensus       140 ~~RPLs~~ql~YAa~Dv~~L~~l~~~L~~~L~~~g~~~w~~ee~~~l~~~~~~~~~~-~~~~~~ik~~~---~L~~~~la  215 (373)
T PRK10829        140 LARPLSERQCEYAAADVFYLLPIAAKLMAETEAAGWLPAALDECRLLCQRRQEVLAP-EEAYRDITNAW---QLRTRQLA  215 (373)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHhccccCCCh-HHHHHHhcccc---CCCHHHHH
Confidence            99999999999999999999999999999999999999999887532111  11111 13488865443   34678999


Q ss_pred             eccC--CCcccceecccCCCCCc--------------------------ceeecccCceeeeeecccc
Q 020198          264 VEGD--VPEEEILSILDVPPGKM--------------------------GRIIGRRGSSILAIKESCN  303 (329)
Q Consensus       264 ~~~~--~~~~~~~~~~~~~~~~~--------------------------~~~~~~~~~~~~~~~~~~~  303 (329)
                      +.++  .-||++|+..|+||+++                          +..++++|..|+++++.+.
T Consensus       216 vl~~L~~WRe~~Ar~~d~p~~~Vl~d~~L~~lA~~~P~~~~~L~~~~~~~~~~r~~g~~ll~~i~~a~  283 (373)
T PRK10829        216 CLQLLADWRLRKARERDLAVNFVVREEHLWQVARYMPGSLGELDSLGLSGSEIRFHGKTLLALVAKAQ  283 (373)
T ss_pred             HHHHHHHHHHHHHHHhCCCcceecChHHHHHHHHhCCCCHHHHHhccCChHhHHhhHHHHHHHHHHHh
Confidence            9998  88999999999999872                          1345567777766666554

>COG0349 Rnd Ribonuclease D [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>TIGR01388 rnd ribonuclease D Back     alignment and domain information
>cd06148 Egl_like_exo DEDDy 3'-5' exonuclease domain of Drosophila Egalitarian (Egl) and similar proteins Back     alignment and domain information
>cd06146 mut-7_like_exo DEDDy 3'-5' exonuclease domain of Caenorhabditis elegans mut-7 and similar proteins Back     alignment and domain information
>cd06129 RNaseD_like DEDDy 3'-5' exonuclease domain of RNase D, WRN, and similar proteins Back     alignment and domain information
>cd06141 WRN_exo DEDDy 3'-5' exonuclease domain of WRN and similar proteins Back     alignment and domain information
>PF01612 DNA_pol_A_exo1: 3'-5' exonuclease; InterPro: IPR002562 This domain is responsible for the 3'-5' exonuclease proofreading activity of Escherichia coli DNA polymerase I (polI) and other enzymes, it catalyses the hydrolysis of unpaired or mismatched nucleotides Back     alignment and domain information
>KOG2206 consensus Exosome 3'-5' exoribonuclease complex, subunit PM/SCL-100 (Rrp6) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>cd06142 RNaseD_exo DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins Back     alignment and domain information
>smart00474 35EXOc 3'-5' exonuclease Back     alignment and domain information
>cd06147 Rrp6p_like_exo DEDDy 3'-5' exonuclease domain of yeast Rrp6p, human polymyositis/scleroderma autoantigen 100kDa, and similar proteins Back     alignment and domain information
>cd00007 35EXOc 3'-5' exonuclease Back     alignment and domain information
>cd09018 DEDDy_polA_RNaseD_like_exo DEDDy 3'-5' exonuclease domain of family-A DNA polymerases, RNase D, WRN, and similar proteins Back     alignment and domain information
>cd06140 DNA_polA_I_Bacillus_like_exo inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases Back     alignment and domain information
>PRK05755 DNA polymerase I; Provisional 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
>PRK14975 bifunctional 3'-5' exonuclease/DNA polymerase; Provisional Back     alignment and domain information
>KOG2207 consensus Predicted 3'-5' exonuclease [Replication, recombination and repair] Back     alignment and domain information
>KOG2405 consensus Predicted 3'-5' exonuclease [Replication, recombination and repair] Back     alignment and domain information
>COG0749 PolA DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair] Back     alignment and domain information
>TIGR00593 pola DNA polymerase I Back     alignment and domain information
>cd06128 DNA_polA_exo DEDDy 3'-5' exonuclease domain of family-A DNA polymerases Back     alignment and domain information
>KOG2405 consensus Predicted 3'-5' exonuclease [Replication, recombination and repair] Back     alignment and domain information
>KOG4373 consensus Predicted 3'-5' exonuclease [General function prediction only] Back     alignment and domain information
>cd06125 DnaQ_like_exo DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily Back     alignment and domain information
>PRK07740 hypothetical protein; Provisional Back     alignment and domain information
>PRK06063 DNA polymerase III subunit epsilon; Provisional Back     alignment and domain information
>cd02396 PCBP_like_KH K homology RNA-binding domain, PCBP_like Back     alignment and domain information
>cd02394 vigilin_like_KH K homology RNA-binding domain_vigilin_like Back     alignment and domain information
>TIGR00573 dnaq exonuclease, DNA polymerase III, epsilon subunit family Back     alignment and domain information
>PRK07942 DNA polymerase III subunit epsilon; Provisional Back     alignment and domain information
>COG1837 Predicted RNA-binding protein (contains KH domain) [General function prediction only] Back     alignment and domain information
>KOG2249 consensus 3'-5' exonuclease [Replication, recombination and repair] 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
>PRK07883 hypothetical protein; Validated Back     alignment and domain information
>cd02393 PNPase_KH Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH) Back     alignment and domain information
>PF13014 KH_3: KH domain 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
>cd00105 KH-I K homology RNA-binding domain, type I 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
>PRK07246 bifunctional ATP-dependent DNA helicase/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
>PRK00468 hypothetical protein; Provisional 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
>PRK05711 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
>TIGR01298 RNaseT ribonuclease T 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
>TIGR01405 polC_Gram_pos DNA polymerase III, alpha chain, Gram-positive type Back     alignment and domain information
>PRK06310 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>smart00322 KH K homology RNA-binding domain Back     alignment and domain information
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK02821 hypothetical protein; Provisional Back     alignment and domain information
>PRK06807 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK09146 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK08517 DNA polymerase III subunit epsilon; Provisional Back     alignment and domain information
>PRK05601 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PF00013 KH_1: KH domain syndrome, contains KH motifs 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
>PRK06309 DNA polymerase III subunit epsilon; Validated 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
>cd05160 DEDDy_DNA_polB_exo DEDDy 3'-5' exonuclease domain of family-B DNA polymerases 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
>PRK01064 hypothetical protein; Provisional Back     alignment and domain information
>cd06143 PAN2_exo DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonuclease PAN2 Back     alignment and domain information
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative 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
>PRK07247 DNA polymerase III subunit epsilon; Validated 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
>cd02134 NusA_KH NusA_K homology RNA-binding domain (KH) Back     alignment and domain information
>PRK00448 polC DNA polymerase III PolC; Validated 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
>PRK06195 DNA polymerase III subunit epsilon; Validated 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 ?
Query329
3sah_A428 Crystal Structure Of The Human Rrp6 Catalytic Domai 2e-06
2hbj_A410 Structure Of The Yeast Nuclear Exosome Component, R 2e-05
3saf_A428 Crystal Structure Of The Human Rrp6 Catalytic Domai 2e-05
>pdb|3SAH|A Chain A, Crystal Structure Of The Human Rrp6 Catalytic Domain With Y436a Mutation In The Catalytic Site Length = 428 Back     alignment and structure 
Iteration: 1

 Score = 50.1 bits (118), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 45/161 (27%), Positives = 67/161 (41%), Gaps = 26/161 (16%)
Query: 58  GVDLCRH------GSLCIMQLAFPDAIYLVDAIQGGETVVKACKPALESSYITKVIHDCK 111
            VDL  H      G  C+MQ++     +++D ++    +      +L    I KV H   
Sbjct: 133 AVDLEHHSYRSFLGLTCLMQISTRTEDFIIDTLELRSDMY-ILNESLTDPAIVKVFHGAD 191
Query: 112 RDSEALYFQFGIKLHNVVDTQIAYSLIEEQEGRKRSPDDYISFVGLLADPRYCGISYQEK 171
            D E L   FG+ + N+ DT  A  L+    GR  S D  +          YC +   ++
Sbjct: 192 SDIEWLQKDFGLYVVNMFDTHQAARLL--NLGR-HSLDHLLKL--------YCNVDSNKQ 240
Query: 172 EEVRVLLRQDPQFWTYRPLTELMVRAAADDVRFLPYIYHNM 212
            ++          W  RPL E M+ AA DD  +L YIY  M
Sbjct: 241 YQLAD--------WRIRPLPEEMLSAARDDTHYLLYIYDKM 273
>pdb|2HBJ|A Chain A, Structure Of The Yeast Nuclear Exosome Component, Rrp6p, Reveals An Interplay Between The Active Site And The Hrdc Domain Length = 410 Back     alignment and structure
>pdb|3SAF|A Chain A, Crystal Structure Of The Human Rrp6 Catalytic Domain With D313n Mutation In The Active Site Length = 428 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 ?
Query329
3saf_A428 Exosome component 10; exoribonuclease, RNA exosome 1e-25
2hbj_A410 Exosome complex exonuclease RRP6; RNA metabolism, 2e-24
1yt3_A375 Ribonuclease D, RNAse D; exoribonuclease, exonucle 3e-24
2e6m_A208 Werner syndrome ATP-dependent helicase homolog; AP 3e-22
3cym_A 440 Uncharacterized protein BAD_0989; structural genom 4e-21
1vk0_A206 Hypothetical protein; homohexamer, AT5G06450, stru 2e-06
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 6e-06
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 4e-05
3krm_A163 Insulin-like growth factor 2 mRNA-binding protein 2e-05
3krm_A 163 Insulin-like growth factor 2 mRNA-binding protein 2e-04
1x4m_A94 FAR upstream element binding protein 1; KH domain, 1e-04
2jzx_A160 Poly(RC)-binding protein 2; PCBP2, KH domains, RNA 2e-04
1we8_A104 Tudor and KH domain containing protein; structural 2e-04
2opv_A85 KHSRP protein; KH domain, RNA binding protein, KSR 2e-04
2hh2_A107 KH-type splicing regulatory protein; KH-RNA bindin 2e-04
2anr_A178 Neuro-oncological ventral antigen 1; protein-RNA c 2e-04
1x4n_A92 FAR upstream element binding protein 1; KH domain, 6e-04
2kfn_A 605 Klenow fragment of DNA polymerase I; complex (poly 6e-04
2jvz_A 164 KH type-splicing, FAR upstream element-binding pro 7e-04
1j4w_A 174 FUSE binding protein; single-stranded DNA binding 9e-04
>3saf_A Exosome component 10; exoribonuclease, RNA exosome, hydrolase; 2.50A {Homo sapiens} PDB: 3sag_A 3sah_A 2cpr_A Length = 428 Back     alignment and structure
 Score =  104 bits (262), Expect = 1e-25
 Identities = 50/240 (20%), Positives = 84/240 (35%), Gaps = 26/240 (10%)

Query: 14  SSDPDGKPIDSVVPIHIVTNASQLPAEFLEPSSERQLVIGFDCEGVDLCR-HGSLCIMQL 72
                 +PI+   P H +++  +L  E  E           + E        G  C+MQ+
Sbjct: 97  PQPQLYRPIEET-PCHFISSLDEL-VELNE-KLLNCQEFAVNLEHHSYRSFLGLTCLMQI 153

Query: 73  AFPDAIYLVDAIQGGETVVKACKPALESSYITKVIHDCKRDSEALYFQFGIKLHNVVDTQ 132
           +     +++D ++    +      +L    I KV H    D E L   FG+ + N+ DT 
Sbjct: 154 STRTEDFIIDTLELRSDM-YILNESLTDPAIVKVFHGADSDIEWLQKDFGLYVVNMFDTH 212

Query: 133 IAYSLIEEQEGRKRSPDDYISFVGLLADPRYCGISYQEKEEVRVLLRQDPQFWTYRPLTE 192
            A  L+              S   LL    YC +   ++ +       D   W  RPL E
Sbjct: 213 QAARLLNLGR---------HSLDHLLK--LYCNVDSNKQYQ-----LAD---WRIRPLPE 253

Query: 193 LMVRAAADDVRFLPYIYHNMMKKLNQQSL--WYLAVRGALYCRCFCINENDYVDWPPLPP 250
            M+  A DD  +L YIY  M  ++ ++               R  C+ +     +     
Sbjct: 254 EMLSYARDDTHYLLYIYDKMRLEMWERGNGQPVQLQVVWQRSRDICLKKFIKPIFTDESY 313
>2hbj_A Exosome complex exonuclease RRP6; RNA metabolism, RNA surveillance, RNA processing, hydrolase, gene regulation; 2.10A {Saccharomyces cerevisiae} SCOP: a.60.8.4 c.55.3.5 PDB: 2hbk_A 2hbl_A* 2hbm_A* Length = 410 Back     alignment and structure
>1yt3_A Ribonuclease D, RNAse D; exoribonuclease, exonuclease, hydrolase, tRNA processing, hydrolase,translation; 1.60A {Escherichia coli} SCOP: a.60.8.3 a.60.8.3 c.55.3.5 Length = 375 Back     alignment and structure
>2e6m_A Werner syndrome ATP-dependent helicase homolog; APO form, hydrolase; 2.00A {Mus musculus} PDB: 2e6l_A 2fby_A 2fbv_A 2fbx_A 2fbt_A 2fc0_A* Length = 208 Back     alignment and structure
>3cym_A Uncharacterized protein BAD_0989; structural genomics, unknown function; 2.10A {Bifidobacterium adolescentis atcc 1570ORGANISM_TAXID} Length = 440 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 Length = 206 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>3krm_A Insulin-like growth factor 2 mRNA-binding protein 1; KH domain, cell projection, cytoplasm, nucleus, phosphoprotein, translation regulation; 2.75A {Homo sapiens} Length = 163 Back     alignment and structure
>3krm_A Insulin-like growth factor 2 mRNA-binding protein 1; KH domain, cell projection, cytoplasm, nucleus, phosphoprotein, translation regulation; 2.75A {Homo sapiens} Length = 163 Back     alignment and structure
>1x4m_A FAR upstream element binding protein 1; KH domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.51.1.1 Length = 94 Back     alignment and structure
>2jzx_A Poly(RC)-binding protein 2; PCBP2, KH domains, RNA binding, DNA-binding, nucleus, phosph ribonucleoprotein, RNA-binding, RNA binding protein; NMR {Homo sapiens} Length = 160 Back     alignment and structure
>1we8_A Tudor and KH domain containing protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Mus musculus} SCOP: d.51.1.1 Length = 104 Back     alignment and structure
>2opv_A KHSRP protein; KH domain, RNA binding protein, KSRP; NMR {Homo sapiens} Length = 85 Back     alignment and structure
>2hh2_A KH-type splicing regulatory protein; KH-RNA binding domain, RNA binding protein; NMR {Homo sapiens} Length = 107 Back     alignment and structure
>2anr_A Neuro-oncological ventral antigen 1; protein-RNA complex, KH domain, hairpin, RNA-binding protein complex; HET: 5BU; 1.94A {Homo sapiens} PDB: 2ann_A* Length = 178 Back     alignment and structure
>1x4n_A FAR upstream element binding protein 1; KH domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.51.1.1 PDB: 2opu_A Length = 92 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* Length = 605 Back     alignment and structure
>2jvz_A KH type-splicing, FAR upstream element-binding protein 2; RNA binding protein, KH domain, KSRP, posttranscriptional regulation, mRNA decay; NMR {Homo sapiens} Length = 164 Back     alignment and structure
>1j4w_A FUSE binding protein; single-stranded DNA binding protein; HET: DNA; NMR {Homo sapiens} SCOP: d.51.1.1 d.51.1.1 Length = 174 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query329
3saf_A428 Exosome component 10; exoribonuclease, RNA exosome 99.97
2hbj_A410 Exosome complex exonuclease RRP6; RNA metabolism, 99.96
1yt3_A375 Ribonuclease D, RNAse D; exoribonuclease, exonucle 99.94
2e6m_A208 Werner syndrome ATP-dependent helicase homolog; AP 99.92
1vk0_A206 Hypothetical protein; homohexamer, AT5G06450, stru 99.91
3cym_A 440 Uncharacterized protein BAD_0989; structural genom 99.9
3pv8_A 592 DNA polymerase I; DNA polymerase I, protein-DNA co 99.7
2kfn_A 605 Klenow fragment of DNA polymerase I; complex (poly 99.67
1x9m_A 698 DNA polymerase; DNA ploymerase, N-2-acetylaminoflu 99.51
4dfk_A 540 DNA polymerase I, thermostable; DNA polymerase, tr 99.19
3v9w_A235 Ribonuclease T; DEDD nucleases family, EXO-nucleas 98.24
1bgx_T 832 TAQ DNA polymerase; DNA polymerase, FAB, PCR, inhi 98.22
1wlj_A189 Interferon stimulated gene 20KDA; exoribonuclease, 96.14
2p1j_A186 POLIII, DNA polymerase III POLC-type; structural g 95.85
2f96_A224 Ribonuclease T; RNAse, RNT, RNAse T, tRNA hydrolas 95.59
3mxm_B242 Three prime repair exonuclease 1; RNAse H-like fol 94.63
1dtj_A76 RNA-binding neurooncological ventral antigen 2; KH 94.4
2ctm_A95 Vigilin; K homology type I domain, RNA-binding, ce 94.23
2opv_A85 KHSRP protein; KH domain, RNA binding protein, KSR 94.0
1vig_A71 Vigilin; RNA-binding protein, ribonucleoprotein; N 93.94
1we8_A104 Tudor and KH domain containing protein; structural 93.93
1zzk_A82 Heterogeneous nuclear ribonucleoprotein K; KH domi 93.89
2axy_A73 Poly(RC)-binding protein 2; protein-DNA complex, D 93.71
2ctl_A97 Vigilin; K homology type I domain, RNA-binding, ce 93.41
1x4m_A94 FAR upstream element binding protein 1; KH domain, 93.4
1wvn_A82 Poly(RC)-binding protein 1; KH domain, RNA binding 93.31
2p2r_A76 Poly(RC)-binding protein 2; protein-DNA complex, R 92.91
2ctk_A104 Vigilin; K homology type I domain, RNA-binding, ce 92.76
3u3y_B314 Three prime repair exonuclease 1; RNAse H fold, 3' 92.61
1ec6_A87 RNA-binding protein NOVA-2; KH domain, alpha-beta 92.56
2hh2_A107 KH-type splicing regulatory protein; KH-RNA bindin 92.32
1x4n_A92 FAR upstream element binding protein 1; KH domain, 91.71
2gui_A194 DNA polymerase III epsilon subunit; DNA polymerase 91.58
2cte_A94 Vigilin; K homology type I domain, RNA-binding, ce 91.15
2jvz_A 164 KH type-splicing, FAR upstream element-binding pro 91.08
1j5k_A89 Heterogeneous nuclear ribonucleoprotein K; single- 90.99
2dgr_A83 Ring finger and KH domain-containing protein 1; st 90.84
2hh3_A106 KH-type splicing regulatory protein; KH-RNA bindin 90.01
2ctj_A95 Vigilin; K homology type I domain, RNA-binding, ce 88.66
3krm_A 163 Insulin-like growth factor 2 mRNA-binding protein 88.08
2jzx_A160 Poly(RC)-binding protein 2; PCBP2, KH domains, RNA 87.02
2cpq_A91 FragIle X mental retardation syndrome related prot 86.92
1y97_A238 Three prime repair exonuclease 2; TREX2, hydrolase 86.55
2anr_A 178 Neuro-oncological ventral antigen 1; protein-RNA c 86.14
2jvz_A164 KH type-splicing, FAR upstream element-binding pro 85.61
1j4w_A 174 FUSE binding protein; single-stranded DNA binding 84.24
3krm_A163 Insulin-like growth factor 2 mRNA-binding protein 84.21
2qxf_A 482 Exodeoxyribonuclease I; alpha-beta domain, DNAQ su 82.88
1j4w_A174 FUSE binding protein; single-stranded DNA binding 82.67
>3saf_A Exosome component 10; exoribonuclease, RNA exosome, hydrolase; 2.50A {Homo sapiens} PDB: 3sag_A 3sah_A 2cpr_A Back     alignment and structure
Probab=99.97  E-value=4.4e-34  Score=280.52  Aligned_cols=266  Identities=19%  Similarity=0.223  Sum_probs=203.9

Q ss_pred             cccCCCCCCCCCCCCcccEEEEeCCCCCCccccCCCcccceEEeeecCccccc-cCCceeEEEeecCCeeEEEecccchH
Q 020198           10 HIPLSSDPDGKPIDSVVPIHIVTNASQLPAEFLEPSSERQLVIGFDCEGVDLC-RHGSLCIMQLAFPDAIYLVDAIQGGE   88 (329)
Q Consensus        10 ~~~~~~~~~~~~~~~~~~i~vV~t~~~L~~~~l~~~~~~~~~Ia~D~E~~~~~-~~g~l~llQLa~~~~~~liD~~~l~~   88 (329)
                      ..|+++.|.+..     +|.+|+|.+++.+ +++. +...+.+|||+|+.+.. +++++|+|||++++++|+||+..++.
T Consensus        97 ~~~~~~~p~~~~-----~y~~I~t~e~L~~-~l~~-L~~~~~vavDtE~~~~~~~~~~l~lIQLa~~~~~~lidpl~l~~  169 (428)
T 3saf_A           97 PQPQLYRPIEET-----PCHFISSLDELVE-LNEK-LLNCQEFAVNLEHHSYRSFLGLTCLMQISTRTEDFIIDTLELRS  169 (428)
T ss_dssp             CCCCCCCCGGGS-----CEEEECSHHHHHH-HHHH-HTTCSEEEEEEEEECTTCSSCEEEEEEEECSSCEEEEETTTTGG
T ss_pred             CCCCCCCCCCCC-----CcEEECCHHHHHH-HHHH-HhcCCeEEEEEEecCCCCCCCeEEEEEEEeCCcEEEEEeccchh
Confidence            345566666555     8999999999997 8876 56678999999998875 78899999999988999999988753


Q ss_pred             HHHHhccccccccceeeeeccccCccchhheecceeecccchhHHHHHHHHhHhcCCCCCCCeeeeeecccCCcccCCcc
Q 020198           89 TVVKACKPALESSYITKVIHDCKRDSEALYFQFGIKLHNVVDTQIAYSLIEEQEGRKRSPDDYISFVGLLADPRYCGISY  168 (329)
Q Consensus        89 ~~~~~L~~lLed~~i~KV~hd~k~Dl~~L~~~~Gi~l~~vfDt~lA~~LL~~~~~~~~l~~~~~sL~~L~~~~~~Lg~~l  168 (329)
                       .+..|+++|+|+++.||+||+|+|+.+|++.+|+.+.++||||+|+|+++++         ..||+.|++  +|||+++
T Consensus       170 -~l~~L~~lL~dp~i~KV~H~~k~Dl~~L~~~~Gi~~~~~fDT~lAa~lL~~~---------~~gL~~Lv~--~~Lg~~l  237 (428)
T 3saf_A          170 -DMYILNESLTDPAIVKVFHGADSDIEWLQKDFGLYVVNMFDTHQAARLLNLG---------RHSLDHLLK--LYCNVDS  237 (428)
T ss_dssp             -GGGGGHHHHTCTTSEEEESSCHHHHHHHHHHHCCCCSSEEEHHHHHHHTTCS---------CCSHHHHHH--HHHCCCC
T ss_pred             -hHHHHHHHHcCCCceEEEeehHHHHHHHHHHcCCCcCceeechhHHHHhCCC---------CCCHHHHHH--HHcCCCC
Confidence             3578999999999999999999999999768999999999999999999864         257999999  9999999


Q ss_pred             chhHHHHHHHhcCCCCccccchHHHHHHhhcccceehHHHHHHHHHHhhhhcch-----heeecce--eeeeeeeecCCC
Q 020198          169 QEKEEVRVLLRQDPQFWTYRPLTELMVRAAADDVRFLPYIYHNMMKKLNQQSLW-----YLAVRGA--LYCRCFCINEND  241 (329)
Q Consensus       169 ~~k~~~~~l~~~~~~~W~~RPLs~~ql~YAA~Da~~Ll~L~~~L~~~L~~~g~~-----~~~~~~~--~~~r~~~~~~~~  241 (329)
                      ++ .+       ..++|+.|||+++|+.|||.||+++++||+.|..+|.+.|.+     .+...++  ...+.+..+...
T Consensus       238 ~K-~~-------~~sdW~~rpLs~~q~~YAA~DA~~ll~L~~~L~~~L~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~  309 (428)
T 3saf_A          238 NK-QY-------QLADWRIRPLPEEMLSYARDDTHYLLYIYDKMRLEMWERGNGQPVQLQVVWQRSRDICLKKFIKPIFT  309 (428)
T ss_dssp             CC-TT-------TTSCTTCSSCCHHHHHHHHHHHHTHHHHHHHHHHHHHHHTTSCSHHHHHHHHHHHHHTTCCCCCCCCC
T ss_pred             Cc-cc-------cccccccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHHHHHHHHHHHHhhcCCCCC
Confidence            74 22       236999999999999999999999999999999999998872     1122121  112222111112


Q ss_pred             CCCCCCCCC-CCccccccccceeeccC--CCcccceecccCCCCC---------------------------cceeeccc
Q 020198          242 YVDWPPLPP-VPGVRFIYVDYLIVEGD--VPEEEILSILDVPPGK---------------------------MGRIIGRR  291 (329)
Q Consensus       242 ~~~w~~~~~-~~~~~~~~~~~l~~~~~--~~~~~~~~~~~~~~~~---------------------------~~~~~~~~  291 (329)
                      ...|..+-. ..+  .++++++++.+.  .-|+++|+..|+||+.                           .+..++++
T Consensus       310 ~~~~~~~~~~~~~--~l~~~~l~l~~~L~~wR~~~Ar~~d~p~~~V~~d~~L~~iA~~~P~~~~~L~~i~g~~~~~~r~~  387 (428)
T 3saf_A          310 DESYLELYRKQKK--HLNTQQLTAFQLLFAWRDKTARREDESYGYVLPNHMMLKIAEELPKEPQGIIACCNPVPPLVRQQ  387 (428)
T ss_dssp             TTGGGHHHHTTCC--CCCHHHHHHHHHHHHHHHHHHHHHTCCHHHHCCHHHHHHHHHHCCSSHHHHHTTCSSCCHHHHHT
T ss_pred             cccHHHHHHHhcc--CCChHHHHHHHHHHHHHHHHHHHcCCCcCEEECHHHHHHHHHHCCCCHHHHHhccCCCHHHHHHH
Confidence            223432110 111  235678887776  7799999999999955                           23345678


Q ss_pred             Cceeeeeecccce
Q 020198          292 GSSILAIKESCNA  304 (329)
Q Consensus       292 ~~~~~~~~~~~~~  304 (329)
                      |..|+++++.+.+
T Consensus       388 g~~~l~~I~~a~~  400 (428)
T 3saf_A          388 INEMHLLIQQARE  400 (428)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHh
Confidence            8888877766543
>2hbj_A Exosome complex exonuclease RRP6; RNA metabolism, RNA surveillance, RNA processing, hydrolase, gene regulation; 2.10A {Saccharomyces cerevisiae} SCOP: a.60.8.4 c.55.3.5 PDB: 2hbk_A 2hbl_A* 2hbm_A* Back     alignment and structure
>1yt3_A Ribonuclease D, RNAse D; exoribonuclease, exonuclease, hydrolase, tRNA processing, hydrolase,translation; 1.60A {Escherichia coli} SCOP: a.60.8.3 a.60.8.3 c.55.3.5 Back     alignment and structure
>2e6m_A Werner syndrome ATP-dependent helicase homolog; APO form, hydrolase; 2.00A {Mus musculus} PDB: 2e6l_A 2fby_A 2fbv_A 2fbx_A 2fbt_A 2fc0_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
>3cym_A Uncharacterized protein BAD_0989; structural genomics, unknown function; 2.10A {Bifidobacterium adolescentis atcc 1570ORGANISM_TAXID} Back     alignment and structure
>3pv8_A DNA polymerase I; DNA polymerase I, protein-DNA complex, thymine-adenine, CLOS conformation; HET: DNA 2DT D3T; 1.52A {Geobacillus kaustophilus} PDB: 3px0_A* 3px4_A* 3px6_A* 3thv_A* 3ti0_A* 4dse_A* 4dsf_A* 4ds4_A* 4dqp_A* 4dqi_A* 4ds5_A* 4e0d_A* 4dqr_A* 4dqq_A* 3tan_A* 3tap_A* 3taq_A* 3tar_A* 4dqs_A* 3hp6_A* ... 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
>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
>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
>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
>1bgx_T TAQ DNA polymerase; DNA polymerase, FAB, PCR, inhibition, helix-coil dynamics, inhibitor design, complex (polymerase/inhibitor); 2.30A {Thermus aquaticus} SCOP: a.60.7.1 c.120.1.2 c.55.3.5 e.8.1.1 PDB: 1cmw_A 1tau_A* 1taq_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
>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
>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
>1dtj_A RNA-binding neurooncological ventral antigen 2; KH domain, alpha-beta fold RNA-binding motif, immune system; 2.00A {Homo sapiens} SCOP: d.51.1.1 PDB: 1dt4_A Back     alignment and structure
>2ctm_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1 Back     alignment and structure
>2opv_A KHSRP protein; KH domain, RNA binding protein, KSRP; NMR {Homo sapiens} Back     alignment and structure
>1vig_A Vigilin; RNA-binding protein, ribonucleoprotein; NMR {Homo sapiens} SCOP: d.51.1.1 PDB: 1vih_A Back     alignment and structure
>1we8_A Tudor and KH domain containing protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Mus musculus} SCOP: d.51.1.1 Back     alignment and structure
>1zzk_A Heterogeneous nuclear ribonucleoprotein K; KH domian, alpha-beta fold, DNA binding protein; 0.95A {Homo sapiens} SCOP: d.51.1.1 PDB: 1zzj_A 1zzi_A Back     alignment and structure
>2axy_A Poly(RC)-binding protein 2; protein-DNA complex, DNA binding protein-DNA complex; 1.70A {Homo sapiens} SCOP: d.51.1.1 PDB: 2pqu_A 2py9_A 1ztg_A 3vke_A* Back     alignment and structure
>2ctl_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1 Back     alignment and structure
>1x4m_A FAR upstream element binding protein 1; KH domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.51.1.1 Back     alignment and structure
>1wvn_A Poly(RC)-binding protein 1; KH domain, RNA binding domain, RNA binding protein; 2.10A {Homo sapiens} SCOP: d.51.1.1 Back     alignment and structure
>2p2r_A Poly(RC)-binding protein 2; protein-DNA complex, RNA and DNA binding protein/DNA complex; 1.60A {Homo sapiens} Back     alignment and structure
>2ctk_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1 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
>1ec6_A RNA-binding protein NOVA-2; KH domain, alpha-beta fold, RNA-binding motif, protein/RNA structure, RNA binding protein/RNA complex; 2.40A {Homo sapiens} SCOP: d.51.1.1 Back     alignment and structure
>2hh2_A KH-type splicing regulatory protein; KH-RNA binding domain, RNA binding protein; NMR {Homo sapiens} Back     alignment and structure
>1x4n_A FAR upstream element binding protein 1; KH domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.51.1.1 PDB: 2opu_A 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
>2cte_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1 Back     alignment and structure
>2jvz_A KH type-splicing, FAR upstream element-binding protein 2; RNA binding protein, KH domain, KSRP, posttranscriptional regulation, mRNA decay; NMR {Homo sapiens} Back     alignment and structure
>1j5k_A Heterogeneous nuclear ribonucleoprotein K; single-stranded DNA binding protein, transcription factor, hnRNP K, CT element, C-MYC oncogene; NMR {Homo sapiens} SCOP: d.51.1.1 PDB: 1khm_A Back     alignment and structure
>2dgr_A Ring finger and KH domain-containing protein 1; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2hh3_A KH-type splicing regulatory protein; KH-RNA binding domain, RNA binding protein; NMR {Homo sapiens} Back     alignment and structure
>2ctj_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1 Back     alignment and structure
>3krm_A Insulin-like growth factor 2 mRNA-binding protein 1; KH domain, cell projection, cytoplasm, nucleus, phosphoprotein, translation regulation; 2.75A {Homo sapiens} Back     alignment and structure
>2jzx_A Poly(RC)-binding protein 2; PCBP2, KH domains, RNA binding, DNA-binding, nucleus, phosph ribonucleoprotein, RNA-binding, RNA binding protein; NMR {Homo sapiens} Back     alignment and structure
>2cpq_A FragIle X mental retardation syndrome related protein 1, isoform B'; KH domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1 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
>2anr_A Neuro-oncological ventral antigen 1; protein-RNA complex, KH domain, hairpin, RNA-binding protein complex; HET: 5BU; 1.94A {Homo sapiens} PDB: 2ann_A* Back     alignment and structure
>2jvz_A KH type-splicing, FAR upstream element-binding protein 2; RNA binding protein, KH domain, KSRP, posttranscriptional regulation, mRNA decay; NMR {Homo sapiens} Back     alignment and structure
>1j4w_A FUSE binding protein; single-stranded DNA binding protein; HET: DNA; NMR {Homo sapiens} SCOP: d.51.1.1 d.51.1.1 Back     alignment and structure
>3krm_A Insulin-like growth factor 2 mRNA-binding protein 1; KH domain, cell projection, cytoplasm, nucleus, phosphoprotein, translation regulation; 2.75A {Homo sapiens} 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
>1j4w_A FUSE binding protein; single-stranded DNA binding protein; HET: DNA; NMR {Homo sapiens} SCOP: d.51.1.1 d.51.1.1 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 329
d1vk0a_206 c.55.3.5 (A:) Hypothetical protein AT5G06450 {Thal 2e-19
d2hbka2292 c.55.3.5 (A:129-420) Exosome complex exonuclease R 1e-15
d1yt3a3193 c.55.3.5 (A:1-193) Ribonuclease D, catalytic domai 2e-08
d2hhva1171 c.55.3.5 (A:298-468) Exonuclease domain of prokary 5e-07
d2je6i369 d.51.1.1 (I:153-221) Exosome complex RNA-binding p 6e-06
d1kfsa1195 c.55.3.5 (A:324-518) Exonuclease domain of prokary 7e-06
d2z0sa287 d.51.1.1 (A:148-234) Exosome complex RNA-binding p 1e-05
d2ba0a384 d.51.1.1 (A:136-219) Exosome complex RNA-binding p 8e-05
d1dtja_74 d.51.1.1 (A:) Neuro-oncological ventral antigen 2, 1e-04
d1x4ma181 d.51.1.1 (A:8-88) Far upstream binding element, FB 1e-04
d2ctla184 d.51.1.1 (A:8-91) Vigilin {Human (Homo sapiens) [T 2e-04
d2ctka191 d.51.1.1 (A:8-98) Vigilin {Human (Homo sapiens) [T 3e-04
d2ctea181 d.51.1.1 (A:8-88) Vigilin {Human (Homo sapiens) [T 4e-04
d1viga_71 d.51.1.1 (A:) Vigilin {Human (Homo sapiens) [TaxId 6e-04
d1wvna170 d.51.1.1 (A:5-74) Poly(RC)-binding protein 1 {Huma 7e-04
d2axya171 d.51.1.1 (A:11-81) Poly(RC)-binding protein 2 {Hum 0.001
d2ctma181 d.51.1.1 (A:8-88) Vigilin {Human (Homo sapiens) [T 0.002
d1tuaa184 d.51.1.1 (A:1-84) Hypothetical protein APE0754 {Ae 0.003
d1zzka175 d.51.1.1 (A:11-85) HnRNP K, KH3 {Human (Homo sapie 0.003
d1x4na179 d.51.1.1 (A:8-86) Far upstream binding element, FB 0.003
>d1vk0a_ c.55.3.5 (A:) Hypothetical protein AT5G06450 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 206 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: Hypothetical protein AT5G06450
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 82.7 bits (204), Expect = 2e-19
 Identities = 20/176 (11%), Positives = 51/176 (28%), Gaps = 24/176 (13%)

Query: 49  QLVIGFDCE---------GVDLCRHGSLCIMQLAFPDAIYLVDAIQGGETVVKACKPALE 99
              + FD                   SL  ++L+  +    +   +     +K       
Sbjct: 46  NRAVIFDVYWDVGFPETETKTKTSGWSLSSVKLSTRNLCLFLRLPKPFHDNLKDLYRFFA 105

Query: 100 SSYITKVIHDCKRDSEALYFQFGIKLHNVVDTQIAYSLIEEQEGRKRSPDDYISFVGLLA 159
           S ++T V    + D + L    G+ + N ++     +        +     ++    L  
Sbjct: 106 SKFVTFVGVQIEEDLDLLRENHGLVIRNAINVGKLAAEARGTLVLE-----FLGTRELAH 160

Query: 160 DPRYCGISYQEKEEVRVLLRQDPQFWTYRPLTELMVRAAADDVRFLPYIYHNMMKK 215
             R       + + +          W  +   E  + AAA +   +  ++  +  +
Sbjct: 161 --RVLWSDLGQLDSIE-------AKWE-KAGPEEQLEAAAIEGWLIVNVWDQLSDE 206
>d2hbka2 c.55.3.5 (A:129-420) Exosome complex exonuclease RRP6 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 292 Back     information, alignment and structure
>d1yt3a3 c.55.3.5 (A:1-193) Ribonuclease D, catalytic domain {Escherichia coli [TaxId: 562]} Length = 193 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]} Length = 171 Back     information, alignment and structure
>d2je6i3 d.51.1.1 (I:153-221) Exosome complex RNA-binding protein 1, ECR1 {Sulfolobus solfataricus [TaxId: 2287]} Length = 69 Back     information, alignment and structure
>d1kfsa1 c.55.3.5 (A:324-518) Exonuclease domain of prokaryotic DNA polymerase {Escherichia coli [TaxId: 562]} Length = 195 Back     information, alignment and structure
>d2z0sa2 d.51.1.1 (A:148-234) Exosome complex RNA-binding protein 1, ECR1 {Aeropyrum pernix [TaxId: 56636]} Length = 87 Back     information, alignment and structure
>d2ba0a3 d.51.1.1 (A:136-219) Exosome complex RNA-binding protein 1, ECR1 {Archaeoglobus fulgidus [TaxId: 2234]} Length = 84 Back     information, alignment and structure
>d1dtja_ d.51.1.1 (A:) Neuro-oncological ventral antigen 2, nova-2, KH3 {Human (Homo sapiens) [TaxId: 9606]} Length = 74 Back     information, alignment and structure
>d1x4ma1 d.51.1.1 (A:8-88) Far upstream binding element, FBP {Mouse (Mus musculus) [TaxId: 10090]} Length = 81 Back     information, alignment and structure
>d2ctla1 d.51.1.1 (A:8-91) Vigilin {Human (Homo sapiens) [TaxId: 9606]} Length = 84 Back     information, alignment and structure
>d2ctka1 d.51.1.1 (A:8-98) Vigilin {Human (Homo sapiens) [TaxId: 9606]} Length = 91 Back     information, alignment and structure
>d2ctea1 d.51.1.1 (A:8-88) Vigilin {Human (Homo sapiens) [TaxId: 9606]} Length = 81 Back     information, alignment and structure
>d1viga_ d.51.1.1 (A:) Vigilin {Human (Homo sapiens) [TaxId: 9606]} Length = 71 Back     information, alignment and structure
>d1wvna1 d.51.1.1 (A:5-74) Poly(RC)-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 70 Back     information, alignment and structure
>d2axya1 d.51.1.1 (A:11-81) Poly(RC)-binding protein 2 {Human (Homo sapiens) [TaxId: 9606]} Length = 71 Back     information, alignment and structure
>d2ctma1 d.51.1.1 (A:8-88) Vigilin {Human (Homo sapiens) [TaxId: 9606]} Length = 81 Back     information, alignment and structure
>d1tuaa1 d.51.1.1 (A:1-84) Hypothetical protein APE0754 {Aeropyrum pernix [TaxId: 56636]} Length = 84 Back     information, alignment and structure
>d1zzka1 d.51.1.1 (A:11-85) HnRNP K, KH3 {Human (Homo sapiens) [TaxId: 9606]} Length = 75 Back     information, alignment and structure
>d1x4na1 d.51.1.1 (A:8-86) Far upstream binding element, FBP {Mouse (Mus musculus) [TaxId: 10090]} Length = 79 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query329
d2hbka2292 Exosome complex exonuclease RRP6 {Baker's yeast (S 100.0
d1yt3a3193 Ribonuclease D, catalytic domain {Escherichia coli 99.97
d1vk0a_206 Hypothetical protein AT5G06450 {Thale-cress (Arabi 99.9
d1kfsa1195 Exonuclease domain of prokaryotic DNA polymerase { 99.84
d2hhva1171 Exonuclease domain of prokaryotic DNA polymerase { 99.82
d1wlja_173 Interferon-stimulated gene 20 kDa protein, ISG20 { 97.23
d1x9ma1204 Exonuclease domain of T7 DNA polymerase {Bacteriop 97.1
d2je6i369 Exosome complex RNA-binding protein 1, ECR1 {Sulfo 95.82
d1wvna170 Poly(RC)-binding protein 1 {Human (Homo sapiens) [ 95.49
d2axya171 Poly(RC)-binding protein 2 {Human (Homo sapiens) [ 95.23
d2ba0a384 Exosome complex RNA-binding protein 1, ECR1 {Archa 94.83
d2ctma181 Vigilin {Human (Homo sapiens) [TaxId: 9606]} 94.39
d2cpqa178 Fragile X mental retardation syndrome related prot 94.28
d1zzka175 HnRNP K, KH3 {Human (Homo sapiens) [TaxId: 9606]} 94.22
d2z0sa287 Exosome complex RNA-binding protein 1, ECR1 {Aerop 94.21
d1x4ma181 Far upstream binding element, FBP {Mouse (Mus musc 94.13
d1j4wa271 Far upstream binding element, FBP {Human (Homo sap 94.1
d1viga_71 Vigilin {Human (Homo sapiens) [TaxId: 9606]} 94.09
d1we8a_104 Tudor and KH domain containing protein, Tdrkh {Mou 93.99
d2ctla184 Vigilin {Human (Homo sapiens) [TaxId: 9606]} 93.67
d2ctka191 Vigilin {Human (Homo sapiens) [TaxId: 9606]} 93.58
d2ctea181 Vigilin {Human (Homo sapiens) [TaxId: 9606]} 93.24
d1dtja_74 Neuro-oncological ventral antigen 2, nova-2, KH3 { 92.79
d1e3ha454 Polynucleotide phosphorylase/guanosine pentaphosph 92.77
d1j4wa174 Far upstream binding element, FBP {Human (Homo sap 92.36
d1tuaa184 Hypothetical protein APE0754 {Aeropyrum pernix [Ta 92.3
d1x4na179 Far upstream binding element, FBP {Mouse (Mus musc 87.87
d2ctja182 Vigilin {Human (Homo sapiens) [TaxId: 9606]} 86.59
d1tgoa1347 Exonuclease domain of family B DNA polymerases {Ar 84.02
>d2hbka2 c.55.3.5 (A:129-420) Exosome complex exonuclease RRP6 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} 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: Exosome complex exonuclease RRP6
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=9.3e-36  Score=276.37  Aligned_cols=213  Identities=25%  Similarity=0.304  Sum_probs=181.6

Q ss_pred             ccccCCCCCCCCCCCCcccEEEEeCCCCCCccccCCCcccceEEeeecCccccc-cCCceeEEEeecCCeeEEEecccch
Q 020198            9 THIPLSSDPDGKPIDSVVPIHIVTNASQLPAEFLEPSSERQLVIGFDCEGVDLC-RHGSLCIMQLAFPDAIYLVDAIQGG   87 (329)
Q Consensus         9 ~~~~~~~~~~~~~~~~~~~i~vV~t~~~L~~~~l~~~~~~~~~Ia~D~E~~~~~-~~g~l~llQLa~~~~~~liD~~~l~   87 (329)
                      ...|.|+.+++.+     ++.+|+|.++|.+ +++. +.....||||+|+.+.. +.|.+|+|||++++++|+||+..++
T Consensus        71 ~~~~~~~~~~~~t-----~~~~Vdt~e~L~~-li~~-L~~~~~iavDtE~~~~~s~~g~l~LiQiat~~~~~iiD~~~l~  143 (292)
T d2hbka2          71 IREEIPSKSWDDS-----VPIWVDTSTELES-MLED-LKNTKEIAVDLEHHDYRSYYGIVCLMQISTRERDYLVDTLKLR  143 (292)
T ss_dssp             CCCCCCCCCGGGC-----CCEEECSHHHHHH-HHHH-HTTCSEEEEEEEEECSSSSSCEEEEEEEECSSCEEEEETTTTT
T ss_pred             cCCCCCCCCCCCC-----CcEEeCCHHHHHH-HHHH-HhcCCcEEEEEEeCcCcccCCeEEEEEEEeCCccEEEEecccc
Confidence            4455565555544     7889999999997 8877 67889999999998876 7899999999999999999999886


Q ss_pred             HHHHHhccccccccceeeeeccccCccchhheecceeecccchhHHHHHHHHhHhcCCCCCCCeeeeeecccCCcccCCc
Q 020198           88 ETVVKACKPALESSYITKVIHDCKRDSEALYFQFGIKLHNVVDTQIAYSLIEEQEGRKRSPDDYISFVGLLADPRYCGIS  167 (329)
Q Consensus        88 ~~~~~~L~~lLed~~i~KV~hd~k~Dl~~L~~~~Gi~l~~vfDt~lA~~LL~~~~~~~~l~~~~~sL~~L~~~~~~Lg~~  167 (329)
                      .. +..|+++|+|++|.||+||+++|+.+|++.+|+.+.++|||++|+++++..         ..||+.|++  +|||++
T Consensus       144 ~~-l~~L~~ll~d~~I~KV~H~~~~Di~~L~~~~g~~~~n~fDT~~aa~~l~~~---------~~sL~~L~~--~yl~~~  211 (292)
T d2hbka2         144 EN-LHILNEVFTNPSIVKVFHGAFMDIIWLQRDLGLYVVGLFDTYHASKAIGLP---------RHSLAYLLE--NFANFK  211 (292)
T ss_dssp             TT-GGGGHHHHTCTTSEEEESSCHHHHHHHHHHHCCCCSSEEEHHHHHHHHTCS---------CCSHHHHHH--HHHCCC
T ss_pred             cc-hHHHHHHHhccCeEEEeechHhhhhhhhhcccccccchHHHHHHHHHhCcc---------ccchHHHHH--Hhhhhc
Confidence            43 578999999999999999999999999999999999999999999999743         258999999  999999


Q ss_pred             cchhHHHHHHHhcCCCCccccchHHHHHHhhcccceehHHHHHHHHHHhhhhcchheeeccee--eeeeeeecCCCCCCC
Q 020198          168 YQEKEEVRVLLRQDPQFWTYRPLTELMVRAAADDVRFLPYIYHNMMKKLNQQSLWYLAVRGAL--YCRCFCINENDYVDW  245 (329)
Q Consensus       168 l~~k~~~~~l~~~~~~~W~~RPLs~~ql~YAA~Da~~Ll~L~~~L~~~L~~~g~~~~~~~~~~--~~r~~~~~~~~~~~w  245 (329)
                      ++|+.+        .+||..|||+++|+.|||.||++|+.||+.|+.+|.+.|++.+..+++.  ..++|     ++..|
T Consensus       212 ldK~~q--------~SdW~~RPLs~~qi~YAa~Da~~Ll~ly~~L~~~L~~~~~l~~v~~e~~~~~~~~~-----e~~~~  278 (292)
T d2hbka2         212 TSKKYQ--------LADWRIRPLSKPMTAAARADTHFLLNIYDQLRNKLIESNKLAGVLYESRNVAKRRF-----EYSKY  278 (292)
T ss_dssp             CCCTTT--------TSCTTCSSCCHHHHHHHHHHHHTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCEE-----CCGGG
T ss_pred             cccccc--------ccccccCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHh-----ccCCC
Confidence            985432        3699999999999999999999999999999999999999888876653  34444     45678


Q ss_pred             CCCCCCCc
Q 020198          246 PPLPPVPG  253 (329)
Q Consensus       246 ~~~~~~~~  253 (329)
                      +++.+...
T Consensus       279 ~~~~~~~~  286 (292)
T d2hbka2         279 RPLTPSSE  286 (292)
T ss_dssp             CCSSCCTT
T ss_pred             CCCCCHHh
Confidence            88766553
>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
>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
>d1wlja_ c.55.3.5 (A:) Interferon-stimulated gene 20 kDa protein, ISG20 {Human (Homo sapiens) [TaxId: 9606]} 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
>d2je6i3 d.51.1.1 (I:153-221) Exosome complex RNA-binding protein 1, ECR1 {Sulfolobus solfataricus [TaxId: 2287]} Back     information, alignment and structure
>d1wvna1 d.51.1.1 (A:5-74) Poly(RC)-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2axya1 d.51.1.1 (A:11-81) Poly(RC)-binding protein 2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ba0a3 d.51.1.1 (A:136-219) Exosome complex RNA-binding protein 1, ECR1 {Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d2ctma1 d.51.1.1 (A:8-88) Vigilin {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cpqa1 d.51.1.1 (A:212-289) Fragile X mental retardation syndrome related protein 1, FXR1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1zzka1 d.51.1.1 (A:11-85) HnRNP K, KH3 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2z0sa2 d.51.1.1 (A:148-234) Exosome complex RNA-binding protein 1, ECR1 {Aeropyrum pernix [TaxId: 56636]} Back     information, alignment and structure
>d1x4ma1 d.51.1.1 (A:8-88) Far upstream binding element, FBP {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1j4wa2 d.51.1.1 (A:104-174) Far upstream binding element, FBP {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1viga_ d.51.1.1 (A:) Vigilin {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1we8a_ d.51.1.1 (A:) Tudor and KH domain containing protein, Tdrkh {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2ctla1 d.51.1.1 (A:8-91) Vigilin {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ctka1 d.51.1.1 (A:8-98) Vigilin {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ctea1 d.51.1.1 (A:8-88) Vigilin {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1dtja_ d.51.1.1 (A:) Neuro-oncological ventral antigen 2, nova-2, KH3 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1e3ha4 d.52.3.1 (A:579-632) Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 6 {Streptomyces antibioticus [TaxId: 1890]} Back     information, alignment and structure
>d1j4wa1 d.51.1.1 (A:1-74) Far upstream binding element, FBP {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1tuaa1 d.51.1.1 (A:1-84) Hypothetical protein APE0754 {Aeropyrum pernix [TaxId: 56636]} Back     information, alignment and structure
>d1x4na1 d.51.1.1 (A:8-86) Far upstream binding element, FBP {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2ctja1 d.51.1.1 (A:8-89) Vigilin {Human (Homo sapiens) [TaxId: 9606]} 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