Citrus Sinensis ID: 039658

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-------20
MCIYELEIKDVKFKVSVIDDADVIDKKISELSGMLFKMRRVVGFDVKFNSQTRIAEMLILSAANLCLAIQLCRLSRIPESVTNFLADRTICFVGFGVDKKTASIHGKTGYPRNCDTGIDLGHLAARVLKKPKLIGLTGIAELAKEVGIDHNSLSNKEIEAVTPPNWNAWVFTDKQVLHAVEEARGCYIVADKLLSLLN
cEEEEEEEccEEEEEEEEccHHHHHHHHHHHHHcccccccEEEEEEEEccccccccEEEEEEccEEEEEEccccccccHHHHHHHcccccEEEEEEEHHHHHHHHHccccccccccEEEHHHHHHHHcccccccccccHHHHHHHHHHHHccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHcccc
ccEEEEEEcccEEEEEEcccHHHHHHHHHHHHHHHcccccEEEEEEEEcccccHHHEEEEEccccEEEEEEEEcccccHHHHHHHccccEEEEEEccHHHHHHHHcccccccccccHccHHHHHHHHcccccHHcHHHHHHHHHHccccccccccccccEEEccccccHcccHHHHHHHHHHHHHHHHHHHHHHHHcc
mciyeleikdvkfkvsviddadvIDKKISELSGMLFKMRRVvgfdvkfnSQTRIAEMLILSAANLCLAIQLCrlsripesvtnfladrticfvgfgvdkktasihgktgyprncdtgidLGHLAARvlkkpkligLTGIAELAKEvgidhnslsnkeieavtppnwnawvfTDKQVLHAVEEARGCYIVADKLLSLLN
mciyeleikdvkfkvsviddadviDKKISELSGMLFKMRRVVGFDVKFNSQTRIAEMLILSAANLCLAIQLCRLSRIPESVTNFLADRTICFVGFGVDKKTasihgktgyprncDTGIDLGHLAARVLKKPKLIGLTGIAELAKEVGIDHNSLSNKEIEAVTPPNWNAWVFTDKQVLHAVEEARGCYIVADKLLSLLN
MCIYELEIKDVKFkvsviddadvidkkisELSGMLFKMRRVVGFDVKFNSQTRIAEMLILSAANLCLAIQLCRLSRIPESVTNFLADRTICFVGFGVDKKTASIHGKTGYPRNCDTGIDLGHLAARVLKKPKLIGLTGIAELAKEVGIDHNSLSNKEIEAVTPPNWNAWVFTDKQVLHAVEEARGCYIVADKLLSLLN
*CIYELEIKDVKFKVSVIDDADVIDKKISELSGMLFKMRRVVGFDVKFNSQTRIAEMLILSAANLCLAIQLCRLSRIPESVTNFLADRTICFVGFGVDKKTASIHGKTGYPRNCDTGIDLGHLAARVLKKPKLIGLTGIAELAKEVGIDHNSLSNKEIEAVTPPNWNAWVFTDKQVLHAVEEARGCYIVADKLLS***
*CIYELEIKDVKFKVSVIDDADVIDKKISELSGMLFKMRRVVGFDVKFNSQTRIAEMLILSAANLCLAIQLCRLSRIPESVTNFLADRTICFVGFGVDKKTASIHGKTGYPRNCDTGIDLGHLAARVLKKPKLIGLTGIAELAKEVGIDHNSLSN*****VTPPNWNAWVFTDKQVLHAVEEARGCYIVADKLLSLL*
MCIYELEIKDVKFKVSVIDDADVIDKKISELSGMLFKMRRVVGFDVKFNSQTRIAEMLILSAANLCLAIQLCRLSRIPESVTNFLADRTICFVGFGVDKKTASIHGKTGYPRNCDTGIDLGHLAARVLKKPKLIGLTGIAELAKEVGIDHNSLSNKEIEAVTPPNWNAWVFTDKQVLHAVEEARGCYIVADKLLSLLN
MCIYELEIKDVKFKVSVIDDADVIDKKISELSGMLFKMRRVVGFDVKFNSQTRIAEMLILSAANLCLAIQLCRLSRIPESVTNFLADRTICFVGFGVDKKTASIHGKTGYPRNCDTGIDLGHLAARVLKKPKLIGLTGIAELAKEVGIDHNSLSNKEIEAVTPPNWNAWVFTDKQVLHAVEEARGCYIVADKLLSLLN
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
MCIYELEIKDVKFKVSVIDDADVIDKKISELSGMLFKMRRVVGFDVKFNSQTRIAEMLILSAANLCLAIQLCRLSRIPESVTNFLADRTICFVGFGVDKKTASIHGKTGYPRNCDTGIDLGHLAARVLKKPKLIGLTGIAELAKEVGIDHNSLSNKEIEAVTPPNWNAWVFTDKQVLHAVEEARGCYIVADKLLSLLN
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

No hits with e-value below 0.001 by BLAST

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 ?
Query198
351727341208 uncharacterized protein LOC100527339 [Gl 0.924 0.879 0.277 6e-10
225450557210 PREDICTED: Werner Syndrome-like exonucle 0.873 0.823 0.284 9e-10
116793719204 unknown [Picea sitchensis] 0.919 0.892 0.276 3e-09
225450559208 PREDICTED: Werner Syndrome-like exonucle 0.919 0.875 0.279 3e-08
147818277219 hypothetical protein VITISV_026723 [Viti 0.919 0.831 0.279 4e-08
125527632208 hypothetical protein OsI_03659 [Oryza sa 0.909 0.865 0.255 1e-07
168037523188 predicted protein [Physcomitrella patens 0.767 0.808 0.304 1e-07
357442197179 Werner syndrome ATP-dependent helicase [ 0.686 0.759 0.317 2e-07
297597576208 Os01g0737600 [Oryza sativa Japonica Grou 0.909 0.865 0.26 2e-07
242054353208 hypothetical protein SORBIDRAFT_03g03397 0.737 0.701 0.279 8e-07
>gi|351727341|ref|NP_001238437.1| uncharacterized protein LOC100527339 [Glycine max] gi|255632121|gb|ACU16413.1| unknown [Glycine max] Back     alignment and taxonomy information
 Score = 69.7 bits (169), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 55/198 (27%), Positives = 95/198 (47%), Gaps = 15/198 (7%)

Query: 3   IYELEIKDVKFKVSVIDDADVIDKKISELSGMLFKMRRVVGFDVKFNS----QTRIAEML 58
           +Y +    +  + ++ D + ++DK I  +S      +R+VG D ++ +    + ++A +L
Sbjct: 19  MYLVSCDGLTIETTITDKSGIVDKWIQVVSSTYAGKQRIVGLDTEWTTAKKPKMKVA-IL 77

Query: 59  ILSAANLCLAIQLCRLSRIPESVTNFLADRTICFVGFGVDKKTASIHGKTGYPRNCDTGI 118
            L   N CL IQL  +  IP+S+ +FL D    FVG GV      +  K  Y   C+ GI
Sbjct: 78  QLCIENKCLIIQLFHMDNIPQSLRSFLMDSNFEFVGVGVINDLRML--KNDYGLECNKGI 135

Query: 119 DLGHLAARVLKKPKLIGLTGIAELAKE-VGIDHNSLSNKEIEAVTPPNWNAWVFTDKQVL 177
           D+  LA    K P  I    +  LAKE VG++      ++ +AV    W +   T  Q+ 
Sbjct: 136 DVSLLAKE--KWPHRISSGALKYLAKELVGLEM-----EKSKAVCTSEWQSKELTQTQIE 188

Query: 178 HAVEEARGCYIVADKLLS 195
           +A  +A   + +   +L+
Sbjct: 189 YACIDAYASFKIGKMILN 206

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|225450557|ref|XP_002277523.1| PREDICTED: Werner Syndrome-like exonuclease-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|116793719|gb|ABK26855.1| unknown [Picea sitchensis] Back     alignment and taxonomy information
>gi|225450559|ref|XP_002277541.1| PREDICTED: Werner Syndrome-like exonuclease-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|147818277|emb|CAN64722.1| hypothetical protein VITISV_026723 [Vitis vinifera] Back     alignment and taxonomy information
>gi|125527632|gb|EAY75746.1| hypothetical protein OsI_03659 [Oryza sativa Indica Group] Back     alignment and taxonomy information
>gi|168037523|ref|XP_001771253.1| predicted protein [Physcomitrella patens subsp. patens] gi|162677494|gb|EDQ63964.1| predicted protein [Physcomitrella patens subsp. patens] Back     alignment and taxonomy information
>gi|357442197|ref|XP_003591376.1| Werner syndrome ATP-dependent helicase [Medicago truncatula] gi|355480424|gb|AES61627.1| Werner syndrome ATP-dependent helicase [Medicago truncatula] Back     alignment and taxonomy information
>gi|297597576|ref|NP_001044181.2| Os01g0737600 [Oryza sativa Japonica Group] gi|57900569|dbj|BAD87021.1| hypothetical protein [Oryza sativa Japonica Group] gi|125571949|gb|EAZ13464.1| hypothetical protein OsJ_03381 [Oryza sativa Japonica Group] gi|255673665|dbj|BAF06095.2| Os01g0737600 [Oryza sativa Japonica Group] Back     alignment and taxonomy information
>gi|242054353|ref|XP_002456322.1| hypothetical protein SORBIDRAFT_03g033970 [Sorghum bicolor] gi|241928297|gb|EES01442.1| hypothetical protein SORBIDRAFT_03g033970 [Sorghum bicolor] 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)

No hits with e-value below 0.001 by BLAST

Prediction of Enzyme Commission (EC) Number

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

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

No confident hit detected by STRING

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 ?
Query198
cd06141170 cd06141, WRN_exo, DEDDy 3'-5' exonuclease domain o 3e-18
>gnl|CDD|176653 cd06141, WRN_exo, DEDDy 3'-5' exonuclease domain of WRN and similar proteins Back     alignment and domain information 
 Score = 77.6 bits (192), Expect = 3e-18
 Identities = 53/188 (28%), Positives = 78/188 (41%), Gaps = 30/188 (15%)

Query: 18  IDDADVIDKKISELSGMLFKMRRVVGFDV----KFNSQTRIAEMLI-LSAANLCLAIQLC 72
            D A   ++ + EL G      +VVGFD      F    R    L+ L+  + CL  QL 
Sbjct: 1   TDSAQDAEEAVKELLGK----EKVVGFDTEWRPSFRKGKRNKVALLQLATESRCLLFQLA 56

Query: 73  RLSRIPESVTNFLADRTICFVGFGVD---KKTASIHGKTGYPRNCDTGIDLGHLAARVLK 129
            + ++P S+   L D +I  VG G+    +K A   G     R     +DL HLA RV  
Sbjct: 57  HMDKLPPSLKQLLEDPSILKVGVGIKGDARKLARDFG--IEVRGV---VDLSHLAKRVGP 111

Query: 130 KPKLIGLTGIAE--LAKEVGID-HNSLSNKEIEAVTPPNWNAWVFTDKQVLHAVEEARGC 186
           + KL+ L  + E  L   +        S          NW A   + +Q+L+A  +A   
Sbjct: 112 RRKLVSLARLVEEVLGLPLSKPKKVRCS----------NWEARPLSKEQILYAATDAYAS 161

Query: 187 YIVADKLL 194
             +  KLL
Sbjct: 162 LELYRKLL 169

WRN is a unique RecQ DNA helicase exhibiting an exonuclease activity. It 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. 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. Mutations in the WRN gene cause Werner syndrome, an autosomal recessive disorder associated with premature aging and increased susceptibility to cancer and type II diabetes. WRN interacts with key proteins involved in DNA replication, recombination, and repair. It is believed to maintain genomic stability and life span by participating in DNA processes. WRN is stimulated by Ku70/80, an important regulator of genomic stability. Length = 170

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 198
cd06146193 mut-7_like_exo DEDDy 3'-5' exonuclease domain of C 100.0
cd06141170 WRN_exo DEDDy 3'-5' exonuclease domain of WRN and 100.0
cd06129161 RNaseD_like DEDDy 3'-5' exonuclease domain of RNas 100.0
PRK10829 373 ribonuclease D; Provisional 100.0
cd06148197 Egl_like_exo DEDDy 3'-5' exonuclease domain of Dro 99.98
COG0349 361 Rnd Ribonuclease D [Translation, ribosomal structu 99.97
PF01612176 DNA_pol_A_exo1: 3'-5' exonuclease; InterPro: IPR00 99.97
TIGR01388 367 rnd ribonuclease D. This model describes ribonucle 99.96
KOG4373319 consensus Predicted 3'-5' exonuclease [General fun 99.93
KOG2207617 consensus Predicted 3'-5' exonuclease [Replication 99.89
cd06142178 RNaseD_exo DEDDy 3'-5' exonuclease domain of Ribon 99.87
smart00474172 35EXOc 3'-5' exonuclease. 3\' -5' exonuclease proo 99.87
KOG2206 687 consensus Exosome 3'-5' exoribonuclease complex, s 99.79
cd00007155 35EXOc 3'-5' exonuclease. The 35EXOc domain is res 99.75
cd09018150 DEDDy_polA_RNaseD_like_exo DEDDy 3'-5' exonuclease 99.75
cd06147192 Rrp6p_like_exo DEDDy 3'-5' exonuclease domain of y 99.73
PRK05755 880 DNA polymerase I; Provisional 99.54
PRK14975 553 bifunctional 3'-5' exonuclease/DNA polymerase; Pro 99.46
cd06140178 DNA_polA_I_Bacillus_like_exo inactive DEDDy 3'-5' 99.22
cd06139193 DNA_polA_I_Ecoli_like_exo DEDDy 3'-5' exonuclease 99.17
TIGR00593 887 pola DNA polymerase I. This family is based on the 98.16
COG0749 593 PolA DNA polymerase I - 3'-5' exonuclease and poly 97.97
PRK07740244 hypothetical protein; Provisional 97.09
cd06149157 ISG20 DEDDh 3'-5' exonuclease domain of Interferon 97.05
cd06128151 DNA_polA_exo DEDDy 3'-5' exonuclease domain of fam 97.04
smart00479169 EXOIII exonuclease domain in DNA-polymerase alpha 97.02
cd06137161 DEDDh_RNase DEDDh 3'-5' exonuclease domain of the 97.01
cd06145150 REX1_like DEDDh 3'-5' exonuclease domain of RNA ex 96.99
KOG2249280 consensus 3'-5' exonuclease [Replication, recombin 96.9
cd05780195 DNA_polB_Kod1_like_exo DEDDy 3'-5' exonuclease dom 96.89
PRK06807 313 DNA polymerase III subunit epsilon; Validated 96.85
cd0612596 DnaQ_like_exo DnaQ-like (or DEDD) 3'-5' exonucleas 96.84
cd06133176 ERI-1_3'hExo_like DEDDh 3'-5' exonuclease domain o 96.76
PRK06310250 DNA polymerase III subunit epsilon; Validated 96.63
cd05160199 DEDDy_DNA_polB_exo DEDDy 3'-5' exonuclease domain 96.58
cd06143174 PAN2_exo DEDDh 3'-5' exonuclease domain of the euk 96.56
PRK08517257 DNA polymerase III subunit epsilon; Provisional 96.55
PRK07883 557 hypothetical protein; Validated 96.45
PRK05711240 DNA polymerase III subunit epsilon; Provisional 96.4
PRK06063 313 DNA polymerase III subunit epsilon; Provisional 96.25
cd06144152 REX4_like DEDDh 3'-5' exonuclease domain of RNA ex 96.24
PRK06309232 DNA polymerase III subunit epsilon; Validated 96.22
TIGR01407 850 dinG_rel DnaQ family exonuclease/DinG family helic 96.11
PRK07246 820 bifunctional ATP-dependent DNA helicase/DNA polyme 95.82
PRK07942232 DNA polymerase III subunit epsilon; Provisional 95.78
PRK07247195 DNA polymerase III subunit epsilon; Validated 95.75
PRK09145202 DNA polymerase III subunit epsilon; Validated 95.63
PRK08074 928 bifunctional ATP-dependent DNA helicase/DNA polyme 95.55
PRK07983219 exodeoxyribonuclease X; Provisional 95.5
TIGR01405 1213 polC_Gram_pos DNA polymerase III, alpha chain, Gra 95.01
KOG12751118 consensus PAB-dependent poly(A) ribonuclease, subu 94.98
TIGR00573217 dnaq exonuclease, DNA polymerase III, epsilon subu 94.94
cd06131167 DNA_pol_III_epsilon_Ecoli_like DEDDh 3'-5' exonucl 94.7
cd05781188 DNA_polB_B3_exo DEDDy 3'-5' exonuclease domain of 94.66
cd05784193 DNA_polB_II_exo DEDDy 3'-5' exonuclease domain of 94.24
TIGR01298200 RNaseT ribonuclease T. in gamma-subdivision Proteo 94.22
KOG2248380 consensus 3'-5' exonuclease [Replication, recombin 94.2
cd06134189 RNaseT DEDDh 3'-5' exonuclease domain of RNase T. 94.17
KOG3657 1075 consensus Mitochondrial DNA polymerase gamma, cata 94.04
TIGR01406225 dnaQ_proteo DNA polymerase III, epsilon subunit, P 93.46
PRK05168211 ribonuclease T; Provisional 93.31
PRK09146239 DNA polymerase III subunit epsilon; Validated 93.14
cd05782208 DNA_polB_like1_exo Uncharacterized bacterial subgr 92.83
cd05785207 DNA_polB_like2_exo Uncharacterized bacterial subgr 92.48
cd06130156 DNA_pol_III_epsilon_like an uncharacterized bacter 92.17
PRK07748207 sporulation inhibitor KapD; Provisional 92.11
cd06127159 DEDDh DEDDh 3'-5' exonuclease domain family. DEDDh 91.98
PRK06195 309 DNA polymerase III subunit epsilon; Validated 91.34
KOG2405458 consensus Predicted 3'-5' exonuclease [Replication 89.75
PRK00448 1437 polC DNA polymerase III PolC; Validated 88.61
cd05779204 DNA_polB_epsilon_exo DEDDy 3'-5' exonuclease domai 88.27
PRK05601 377 DNA polymerase III subunit epsilon; Validated 88.22
PF13482164 RNase_H_2: RNase_H superfamily; PDB: 1TKD_A 1TK5_A 88.04
PHA02528 881 43 DNA polymerase; Provisional 83.8
cd05777230 DNA_polB_delta_exo DEDDy 3'-5' exonuclease domain 82.33
PRK05762 786 DNA polymerase II; Reviewed 81.62
>cd06146 mut-7_like_exo DEDDy 3'-5' exonuclease domain of Caenorhabditis elegans mut-7 and similar proteins Back     alignment and domain information 
Probab=100.00  E-value=3.2e-41  Score=272.05  Aligned_cols=167  Identities=23%  Similarity=0.382  Sum_probs=146.1

Q ss_pred             EEEeCCHHHHHHHHHH--HHhhhccCCeEEEEeeeeccCC-----CceeEEEeeeCCeEEEEEccccC-----CchHHHH
Q 039658           15 VSVIDDADVIDKKISE--LSGMLFKMRRVVGFDVKFNSQT-----RIAEMLILSAANLCLAIQLCRLS-----RIPESVT   82 (198)
Q Consensus        15 v~v~~~~~~~~~~i~~--l~~~~~~~~~vvg~D~Ew~~~~-----~~~aliQla~~~~~~l~~l~~~~-----~~p~~L~   82 (198)
                      ++++++++++++++.+  +..     ..+||||+||.+.+     +++|||||||++.|+|||+..++     .+|+.|+
T Consensus         1 ~~~i~~~~el~~~~~~~~l~~-----~~vig~D~Ew~~~~~~~~~~~v~LiQiat~~~~~lid~~~~~~~~~~~~~~~L~   75 (193)
T cd06146           1 IHIVDSEEELEALLLALSLEA-----GRVVGIDSEWKPSFLGDSDPRVAILQLATEDEVFLLDLLALENLESEDWDRLLK   75 (193)
T ss_pred             CeEecCHHHHHHHHHHHhhcc-----CCEEEEECccCCCccCCCCCCceEEEEecCCCEEEEEchhccccchHHHHHHHH
Confidence            4689999999999999  554     89999999998765     67999999999999999998765     4788999


Q ss_pred             hhccCCCeEEEEeeecchHhhchhcCCCCC------ccCceeehHHHHHHHhCCCC-------CCCCccHHHHHHHh-CC
Q 039658           83 NFLADRTICFVGFGVDKKTASIHGKTGYPR------NCDTGIDLGHLAARVLKKPK-------LIGLTGIAELAKEV-GI  148 (198)
Q Consensus        83 ~~l~~~~i~kvG~~i~~D~~~L~~~~~~~~------~~~~~~Dl~~la~~~~g~~~-------l~~~~sL~~l~~~~-g~  148 (198)
                      ++|+||+|+||||++++|+++|  .+.||+      .++|++|++.+++...+...       ...+.||+.||+.+ |.
T Consensus        76 ~ll~d~~i~KVg~~~~~D~~~L--~~~~~~~~~~~~~~~~v~Dl~~~a~~l~~~~~~~~~~~~~~~~~sL~~l~~~~lg~  153 (193)
T cd06146          76 RLFEDPDVLKLGFGFKQDLKAL--SASYPALKCMFERVQNVLDLQNLAKELQKSDMGRLKGNLPSKTKGLADLVQEVLGK  153 (193)
T ss_pred             HHhCCCCeeEEEechHHHHHHH--HHhcCccccccccCCceEEHHHHHHHHhhccccccccccCcccCCHHHHHHHHhCC
Confidence            9999999999999999999999  888887      47899999988875432210       01468999999999 99


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHhHHHHHHHHHHHHh
Q 039658          149 DHNSLSNKEIEAVTPPNWNAWVFTDKQVLHAVEEARGCYIVADKLLS  195 (198)
Q Consensus       149 ~~~~~~l~K~~~~~~SdW~~~pLt~~Qi~YAA~Da~~~~~i~~~L~~  195 (198)
                           .++|+  .|+|||++||||++|+.|||.|||+++.||++|.+
T Consensus       154 -----~l~K~--~q~SdW~~rpLs~~Qi~YAA~Da~~l~~l~~~L~~  193 (193)
T cd06146         154 -----PLDKS--EQCSNWERRPLREEQILYAALDAYCLLEVFDKLLE  193 (193)
T ss_pred             -----CcCcc--cccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhC
Confidence                 99885  59999999999999999999999999999999864

The mut-7 subfamily is composed of Caenorhabditis elegans mut-7 and similar proteins found in plants and metazoans. Mut-7 is implicated in posttranscriptional gene silencing. It 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. 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.
>cd06141 WRN_exo DEDDy 3'-5' exonuclease domain of WRN 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
>PRK10829 ribonuclease D; Provisional 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
>COG0349 Rnd Ribonuclease D [Translation, ribosomal structure and biogenesis] 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
>TIGR01388 rnd ribonuclease D Back     alignment and domain information
>KOG4373 consensus Predicted 3'-5' exonuclease [General function prediction only] Back     alignment and domain information
>KOG2207 consensus Predicted 3'-5' exonuclease [Replication, recombination and repair] 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
>KOG2206 consensus Exosome 3'-5' exoribonuclease complex, subunit PM/SCL-100 (Rrp6) [Translation, ribosomal structure and biogenesis] 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
>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
>PRK05755 DNA polymerase I; Provisional Back     alignment and domain information
>PRK14975 bifunctional 3'-5' exonuclease/DNA polymerase; Provisional 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
>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
>TIGR00593 pola DNA polymerase I 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
>PRK07740 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
>cd06128 DNA_polA_exo DEDDy 3'-5' exonuclease domain of family-A DNA polymerases 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
>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
>cd06145 REX1_like DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins Back     alignment and domain information
>KOG2249 consensus 3'-5' exonuclease [Replication, recombination and repair] 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
>PRK06807 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>cd06125 DnaQ_like_exo DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily 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
>PRK06310 DNA polymerase III subunit epsilon; Validated 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
>cd06143 PAN2_exo DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonuclease PAN2 Back     alignment and domain information
>PRK08517 DNA polymerase III subunit epsilon; Provisional Back     alignment and domain information
>PRK07883 hypothetical protein; Validated Back     alignment and domain information
>PRK05711 DNA polymerase III subunit epsilon; Provisional Back     alignment and domain information
>PRK06063 DNA polymerase III subunit epsilon; Provisional 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
>PRK06309 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative Back     alignment and domain information
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK07942 DNA polymerase III subunit epsilon; Provisional Back     alignment and domain information
>PRK07247 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK09145 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
>PRK07983 exodeoxyribonuclease X; Provisional Back     alignment and domain information
>TIGR01405 polC_Gram_pos DNA polymerase III, alpha chain, Gram-positive type Back     alignment and domain information
>KOG1275 consensus PAB-dependent poly(A) ribonuclease, subunit PAN2 [Replication, recombination and repair] Back     alignment and domain information
>TIGR00573 dnaq exonuclease, DNA polymerase III, epsilon subunit family 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
>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
>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
>TIGR01298 RNaseT ribonuclease T Back     alignment and domain information
>KOG2248 consensus 3'-5' exonuclease [Replication, recombination and repair] Back     alignment and domain information
>cd06134 RNaseT DEDDh 3'-5' exonuclease domain of RNase T Back     alignment and domain information
>KOG3657 consensus Mitochondrial DNA polymerase gamma, catalytic subunit [Replication, recombination and repair] Back     alignment and domain information
>TIGR01406 dnaQ_proteo DNA polymerase III, epsilon subunit, Proteobacterial Back     alignment and domain information
>PRK05168 ribonuclease T; Provisional Back     alignment and domain information
>PRK09146 DNA polymerase III subunit epsilon; Validated 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
>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
>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
>PRK07748 sporulation inhibitor KapD; Provisional Back     alignment and domain information
>cd06127 DEDDh DEDDh 3'-5' exonuclease domain family Back     alignment and domain information
>PRK06195 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>KOG2405 consensus Predicted 3'-5' exonuclease [Replication, recombination and repair] Back     alignment and domain information
>PRK00448 polC DNA polymerase III PolC; Validated 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
>PRK05601 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
>PHA02528 43 DNA polymerase; Provisional 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
>PRK05762 DNA polymerase II; Reviewed Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query198
1vk0_A206 Hypothetical protein; homohexamer, AT5G06450, stru 6e-16
2e6m_A208 Werner syndrome ATP-dependent helicase homolog; AP 7e-13
>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
 Score = 71.9 bits (176), Expect = 6e-16
 Identities = 48/202 (23%), Positives = 74/202 (36%), Gaps = 30/202 (14%)

Query: 10  DVKFKVSVIDDADVIDKKISEL-SGMLFKMRRVVGFDV------------KFNSQTRIAE 56
            V+ K   +  +  I   +S +    +    R V FDV               S   ++ 
Sbjct: 16  YVQTKTIDVGSSTDISPYLSLIREDSILNGNRAVIFDVYWDVGFPETETKTKTSGWSLS- 74

Query: 57  MLILSAANLCLAIQLCR-LSRIPESVTNFLADRTICFVGFGVD---KKTASIHGKTGYPR 112
            + LS  NLCL ++L +      + +  F A + + FVG  ++         HG     R
Sbjct: 75  SVKLSTRNLCLFLRLPKPFHDNLKDLYRFFASKFVTFVGVQIEEDLDLLRENHGLV--IR 132

Query: 113 NCDTGIDLGHLAARVLKKPKLIGLTGIAELAKEVGIDHNSLSNKEIEAVTPPNWNAWVFT 172
           N    I++G LAA       L  L G  ELA  V +  +      IEA     W      
Sbjct: 133 NA---INVGKLAAEARGTLVLEFL-GTRELAHRV-LWSDLGQLDSIEA----KWEK-AGP 182

Query: 173 DKQVLHAVEEARGCYIVADKLL 194
           ++Q+  A  E      V D+L 
Sbjct: 183 EEQLEAAAIEGWLIVNVWDQLS 204
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query198
1vk0_A206 Hypothetical protein; homohexamer, AT5G06450, stru 100.0
2e6m_A208 Werner syndrome ATP-dependent helicase homolog; AP 100.0
3saf_A 428 Exosome component 10; exoribonuclease, RNA exosome 99.97
2hbj_A 410 Exosome complex exonuclease RRP6; RNA metabolism, 99.96
1yt3_A 375 Ribonuclease D, RNAse D; exoribonuclease, exonucle 99.95
3cym_A 440 Uncharacterized protein BAD_0989; structural genom 99.9
2kfn_A 605 Klenow fragment of DNA polymerase I; complex (poly 99.66
3pv8_A 592 DNA polymerase I; DNA polymerase I, protein-DNA co 99.37
1x9m_A 698 DNA polymerase; DNA ploymerase, N-2-acetylaminoflu 99.26
4dfk_A 540 DNA polymerase I, thermostable; DNA polymerase, tr 98.36
3v9w_A235 Ribonuclease T; DEDD nucleases family, EXO-nucleas 97.97
1wlj_A189 Interferon stimulated gene 20KDA; exoribonuclease, 97.49
2p1j_A186 POLIII, DNA polymerase III POLC-type; structural g 97.31
2f96_A224 Ribonuclease T; RNAse, RNT, RNAse T, tRNA hydrolas 96.71
3mxm_B242 Three prime repair exonuclease 1; RNAse H-like fol 96.66
2gui_A194 DNA polymerase III epsilon subunit; DNA polymerase 96.65
1bgx_T 832 TAQ DNA polymerase; DNA polymerase, FAB, PCR, inhi 95.8
2qxf_A 482 Exodeoxyribonuclease I; alpha-beta domain, DNAQ su 95.15
4gmj_B285 CCR4-NOT transcription complex subunit 7; mRNA dec 93.66
1w0h_A204 3'-5' exonuclease ERI1; nuclease domain, hydrolase 93.55
1y97_A238 Three prime repair exonuclease 2; TREX2, hydrolase 93.27
1qht_A 775 Protein (DNA polymerase); archaea, hyperthermostab 93.02
2xri_A224 ERI1 exoribonuclease 3; hydrolase, metal binding; 92.9
1zbh_A299 3'-5' exonuclease ERI1; histone mRNA 3'-END-specif 91.77
1zbu_A349 ERI-1 homolog, 3'-5' exonuclease ERI1; hydrolase; 90.98
3u3y_B314 Three prime repair exonuclease 1; RNAse H fold, 3' 90.76
3ikm_A 1172 DNA polymerase subunit gamma-1; human mitochondria 85.15
>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
Probab=100.00  E-value=1.5e-42  Score=281.25  Aligned_cols=167  Identities=22%  Similarity=0.252  Sum_probs=143.2

Q ss_pred             EeCCHHHHHHHHHHHHhh-hccCCeEEEEeeeeccCC-----------CceeEEEeeeCCeEEEEEccccCCchHH---H
Q 039658           17 VIDDADVIDKKISELSGM-LFKMRRVVGFDVKFNSQT-----------RIAEMLILSAANLCLAIQLCRLSRIPES---V   81 (198)
Q Consensus        17 v~~~~~~~~~~i~~l~~~-~~~~~~vvg~D~Ew~~~~-----------~~~aliQla~~~~~~l~~l~~~~~~p~~---L   81 (198)
                      .+.+.+++..++..+... ......+||||+||.|.+           +++||||||+++.|+|||++  +.+|+.   |
T Consensus        23 ~v~~~~~l~~~~~~~~~~~~~~~~~vvg~DtEw~p~~~~~~~~~~~~~~~~~LiQla~~~~~~l~~l~--~~~~~~L~~L  100 (206)
T 1vk0_A           23 DVGSSTDISPYLSLIREDSILNGNRAVIFDVYWDVGFPETETKTKTSGWSLSSVKLSTRNLCLFLRLP--KPFHDNLKDL  100 (206)
T ss_dssp             ECCSSCCCHHHHHHHHHHHHHHSTTEEEEEEEEECCC------CGGGGCEEEEEEEECSSEEEEEECC--SSCCGGGHHH
T ss_pred             EEecHHHHHHHHHHHHHhhhhcCCCEEEEEeeccCCCcccccccCCCCCceEEEEEecCCCeEEEecc--ccCCccHHHH
Confidence            344555566666665322 112268999999999742           38999999999999999993  567777   8


Q ss_pred             HhhccCCCeEEEEeeecchHhhchhcCCCCCccCceeehHHHHHHHhCCCCCCCCccHHHHHHHh-CCCCCCCCCCCCCC
Q 039658           82 TNFLADRTICFVGFGVDKKTASIHGKTGYPRNCDTGIDLGHLAARVLKKPKLIGLTGIAELAKEV-GIDHNSLSNKEIEA  160 (198)
Q Consensus        82 ~~~l~~~~i~kvG~~i~~D~~~L~~~~~~~~~~~~~~Dl~~la~~~~g~~~l~~~~sL~~l~~~~-g~~~~~~~l~K~~~  160 (198)
                      ++||+||+|+||||++++|+++|  .+.||+.+.++||++.+|+..+|.+.. .+.||+.|++++ |.     .+ |+|+
T Consensus       101 ~~lL~d~~i~Kvg~~~~~D~~~L--~~~~g~~~~~~~Dl~~la~~~lg~~~~-~~~gL~~Lv~~~lg~-----~l-K~k~  171 (206)
T 1vk0_A          101 YRFFASKFVTFVGVQIEEDLDLL--RENHGLVIRNAINVGKLAAEARGTLVL-EFLGTRELAHRVLWS-----DL-GQLD  171 (206)
T ss_dssp             HHHHTCSSSEEEESSCHHHHHHH--HHHHCCCCSSEEEHHHHHHHHHTCGGG-GGCCHHHHHHHHHCC-----CC-HHHH
T ss_pred             HHHhcCCCceEEEeccHHHHHHH--HHhcCCCcCCeeeHHHHHHHHcCCCCC-CCccHHHHHHHHhCC-----cC-CCCC
Confidence            89999999999999999999999  899999999999999999888897532 578999999999 99     99 8778


Q ss_pred             CCCCCCCCCCCCHHHHHHHHHhHHHHHHHHHHHHh
Q 039658          161 VTPPNWNAWVFTDKQVLHAVEEARGCYIVADKLLS  195 (198)
Q Consensus       161 ~~~SdW~~~pLt~~Qi~YAA~Da~~~~~i~~~L~~  195 (198)
                      +|+|||++ |||++|+.|||.|||+++.||++|.+
T Consensus       172 ~~~SdW~~-pLs~~Qi~YAA~Da~~l~~l~~~L~~  205 (206)
T 1vk0_A          172 SIEAKWEK-AGPEEQLEAAAIEGWLIVNVWDQLSD  205 (206)
T ss_dssp             HHHHTGGG-SCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccCCCCC-cCCHHHHHHHHHHHHHHHHHHHHHHc
Confidence            89999999 99999999999999999999999976
>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
>3saf_A Exosome component 10; exoribonuclease, RNA exosome, hydrolase; 2.50A {Homo sapiens} PDB: 3sag_A 3sah_A 2cpr_A Back     alignment and structure
>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
>3cym_A Uncharacterized protein BAD_0989; structural genomics, unknown function; 2.10A {Bifidobacterium adolescentis atcc 1570ORGANISM_TAXID} 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
>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
>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
>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
>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
>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
>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
>4gmj_B CCR4-NOT transcription complex subunit 7; mRNA decay, deadenylase, RNA bindin; HET: GOL; 2.70A {Homo sapiens} Back     alignment and structure
>1w0h_A 3'-5' exonuclease ERI1; nuclease domain, hydrolase; HET: AMP; 1.59A {Homo sapiens} SCOP: c.55.3.5 Back     alignment and structure
>1y97_A Three prime repair exonuclease 2; TREX2, hydrolase; 2.50A {Homo sapiens} SCOP: c.55.3.5 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
>2xri_A ERI1 exoribonuclease 3; hydrolase, metal binding; 2.15A {Homo sapiens} 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
>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
>3ikm_A DNA polymerase subunit gamma-1; human mitochondrial DNA polymerase, disease mutation, DNA replication, DNA-binding, DNA-directed DNA polymerase; HET: DNA; 3.24A {Homo sapiens} 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 198
d1vk0a_206 c.55.3.5 (A:) Hypothetical protein AT5G06450 {Thal 3e-08
>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 = 49.6 bits (118), Expect = 3e-08
 Identities = 45/199 (22%), Positives = 74/199 (37%), Gaps = 24/199 (12%)

Query: 9   KDVKFKVSVIDDADVIDKKISEL-SGMLFKMRRVVGFDVKFNSQTRIAEM---------- 57
             V+ K   +  +  I   +S +    +    R V FDV ++      E           
Sbjct: 15  SYVQTKTIDVGSSTDISPYLSLIREDSILNGNRAVIFDVYWDVGFPETETKTKTSGWSLS 74

Query: 58  -LILSAANLCLAIQLCRLSR-IPESVTNFLADRTICFVGFGVDKKTASIHGKTG-YPRNC 114
            + LS  NLCL ++L +      + +  F A + + FVG  +++    +    G   RN 
Sbjct: 75  SVKLSTRNLCLFLRLPKPFHDNLKDLYRFFASKFVTFVGVQIEEDLDLLRENHGLVIRNA 134

Query: 115 DTGIDLGHLAARVLKKPKLIGLTGIAELAKEVGIDHNSLSNKEIEAVTPPNWNAWVFTDK 174
              I++G LAA        +   G  ELA  V +  +      IEA     W      ++
Sbjct: 135 ---INVGKLAAEARGTLV-LEFLGTRELAHRV-LWSDLGQLDSIEA----KWEK-AGPEE 184

Query: 175 QVLHAVEEARGCYIVADKL 193
           Q+  A  E      V D+L
Sbjct: 185 QLEAAAIEGWLIVNVWDQL 203

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query198
d1vk0a_206 Hypothetical protein AT5G06450 {Thale-cress (Arabi 100.0
d1yt3a3193 Ribonuclease D, catalytic domain {Escherichia coli 100.0
d2hbka2292 Exosome complex exonuclease RRP6 {Baker's yeast (S 100.0
d1kfsa1195 Exonuclease domain of prokaryotic DNA polymerase { 99.85
d2hhva1171 Exonuclease domain of prokaryotic DNA polymerase { 99.61
d1wlja_173 Interferon-stimulated gene 20 kDa protein, ISG20 { 97.59
d1x9ma1204 Exonuclease domain of T7 DNA polymerase {Bacteriop 96.67
d1tgoa1347 Exonuclease domain of family B DNA polymerases {Ar 96.08
d2d5ra1252 CCR4-NOT transcription complex subunit 7, CAF1 {Hu 95.45
d3b6oa1226 Three prime repair exonuclease 1, TREX1 {Mouse (Mu 95.06
d1w0ha_200 Exonuclease ERI1 {Human (Homo sapiens) [TaxId: 960 94.23
d1s5ja1410 Exonuclease domain of family B DNA polymerases {Su 93.97
d2guia1174 N-terminal exonuclease domain of the epsilon subun 84.66
d1q8ia1388 Exonuclease domain of family B DNA polymerases {Es 82.24
>d1vk0a_ c.55.3.5 (A:) Hypothetical protein AT5G06450 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]} 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]

Probab=100.00  E-value=8.2e-41  Score=269.12  Aligned_cols=180  Identities=21%  Similarity=0.219  Sum_probs=154.2

Q ss_pred             EECCeEEEEEE--eCCHHHHHHHHHHHHhhh-ccCCeEEEEeeeeccCC-----------CceeEEEeeeCCeEEEEEcc
Q 039658            7 EIKDVKFKVSV--IDDADVIDKKISELSGML-FKMRRVVGFDVKFNSQT-----------RIAEMLILSAANLCLAIQLC   72 (198)
Q Consensus         7 ~~~~~~i~v~v--~~~~~~~~~~i~~l~~~~-~~~~~vvg~D~Ew~~~~-----------~~~aliQla~~~~~~l~~l~   72 (198)
                      .++|..+.+.+  +++.+++..|+..++... -++..+||||+||.+.+           .++|+|||||++.|++||+.
T Consensus        11 ~~d~~~~~t~~i~~~~~~~~~~~~~~i~~~~~~~~~~~v~~D~Ew~~~~~~~~~~~~~~~~~vallQl~t~~~~~l~~l~   90 (206)
T d1vk0a_          11 MTDGSYVQTKTIDVGSSTDISPYLSLIREDSILNGNRAVIFDVYWDVGFPETETKTKTSGWSLSSVKLSTRNLCLFLRLP   90 (206)
T ss_dssp             CTTSCEEEEEEEECCSSCCCHHHHHHHHHHHHHHSTTEEEEEEEEECCC------CGGGGCEEEEEEEECSSEEEEEECC
T ss_pred             ccCcchhceeeEecCCHHHHHHHHHHHHHHHhhcCCCEEEEEeecCCCCCcccccccccCceeEEEEEEeCCCEEEEECC
Confidence            34666666654  567777888998887642 12268999999998865           46999999999999999998


Q ss_pred             ccC-CchHHHHhhccCCCeEEEEeeecchHhhchhcCCCCCccCceeehHHHHHHHhCCCCCCCCccHHHHHHHh-CCCC
Q 039658           73 RLS-RIPESVTNFLADRTICFVGFGVDKKTASIHGKTGYPRNCDTGIDLGHLAARVLKKPKLIGLTGIAELAKEV-GIDH  150 (198)
Q Consensus        73 ~~~-~~p~~L~~~l~~~~i~kvG~~i~~D~~~L~~~~~~~~~~~~~~Dl~~la~~~~g~~~l~~~~sL~~l~~~~-g~~~  150 (198)
                      +.. ..|+.|++||+||+|+||||++++|+++|  .++||+.+.|.+|++.+|+..++.+.. .+.||+.|++.+ |.  
T Consensus        91 ~~~~~~~~~L~~~L~~~~i~kVG~~i~~D~~~L--~~~~gi~~~~~~Dl~~la~~~~~~~~~-~~~gL~~L~~~~Lg~--  165 (206)
T d1vk0a_          91 KPFHDNLKDLYRFFASKFVTFVGVQIEEDLDLL--RENHGLVIRNAINVGKLAAEARGTLVL-EFLGTRELAHRVLWS--  165 (206)
T ss_dssp             SSCCGGGHHHHHHHTCSSSEEEESSCHHHHHHH--HHHHCCCCSSEEEHHHHHHHHHTCGGG-GGCCHHHHHHHHHCC--
T ss_pred             ccccccHHHHHHHhcCCCceEEEEeEHHHHHHH--HHhcCCcccceEEchHHHHHhhcCCcc-ccchHHHHHHHHhcc--
Confidence            764 46889999999999999999999999999  899999999999999999888877643 568999999999 99  


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHhHHHHHHHHHHHHhh
Q 039658          151 NSLSNKEIEAVTPPNWNAWVFTDKQVLHAVEEARGCYIVADKLLSL  196 (198)
Q Consensus       151 ~~~~l~K~~~~~~SdW~~~pLt~~Qi~YAA~Da~~~~~i~~~L~~~  196 (198)
                         .++|++ .++|||+ +|||++||.|||.|||+++.||++|.+.
T Consensus       166 ---~l~K~~-~~~SnW~-~pLs~~Qi~YAA~DA~~~~~i~~~L~~e  206 (206)
T d1vk0a_         166 ---DLGQLD-SIEAKWE-KAGPEEQLEAAAIEGWLIVNVWDQLSDE  206 (206)
T ss_dssp             ---CCHHHH-HHHHTGG-GSCHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             ---cCCCcc-eeecCCC-CcCCHHHHHHHHHHHHHHHHHHHHHhcC
Confidence               999864 5679997 6999999999999999999999999763
>d1yt3a3 c.55.3.5 (A:1-193) Ribonuclease D, catalytic domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2hbka2 c.55.3.5 (A:129-420) Exosome complex exonuclease RRP6 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} 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
>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
>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
>d3b6oa1 c.55.3.5 (A:9-234) Three prime repair exonuclease 1, TREX1 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1w0ha_ c.55.3.5 (A:) Exonuclease ERI1 {Human (Homo sapiens) [TaxId: 9606]} 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
>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
>d1q8ia1 c.55.3.5 (A:2-389) Exonuclease domain of family B DNA polymerases {Escherichia coli [TaxId: 562]} Back     information, alignment and structure