Citrus Sinensis ID: 007029

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-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-
MVPKFKPSPLRIRSFCTKTVQQNPHHWPIKQITKTNFNESLSEIKNHISSSDFIAVSLQNTGSFSSPWHRVSTFDTPETAYLKAKFAAERFQILQFAICPFKLQASKVIAYPYNFHLFPRDELKMGMPSYSFTCQTSYLTAMAKEGFDFNTCIYDGISYLSEAQESTVKVRMGNPMAVDHATKSSSSPALSVADTVFIERVRSRVKHWKNACTDSDIKTEALVTSLRKIVLGGEQFGSRPSMTIDVCSERQVQLVLKMLEDFSDVLVPLIIPAKGGGTQAVRAVLTSSDEDKDLLKRELQTFEFEQNKRVRGFREVIDLISASQKPLVAHNSLNDFTFIHSKFLAPLPPNMNEFICSLRLAFPQVIDVNYLLKDIGPVKKMTNISATIAYLKNRFFAPIEMEIPNQANENEGKIHGHNVVKICQLFGKLCSILKITPDAIESSDDFLASAINRYANIFYSLPGSSQEPTNEEIRGWTNDKRKVSCEDVVFLWGFRERISAGILKNMLQGSHEVFAEAFNVRMVDRSCAIVVFGKPGLSNTFKNVMNSKAVSGPLREMVSDGLKAAGYETYQRVCSSGLWESALADALDKTLASHNCLSEAAYETKQSEIYLSNELINLAEL
ccccccccHHHHccccccccccccccccEEEEccccHHHHHHHHHHHcccccEEEEEcccccccccccccccccccHHHHHHHHHHccccccEEEEEEccccccccccccccEEEEcccccccccccccccEEEcHHHHHHHHHcccccHHHHHcccccccHHHHHHHHHHHccccccccccccccccccccHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHHcccccccEEEEccccccEEEEEEEEccHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHccccEEEccHHHHHHHHHHHHcccccccHHHHHHHHHHHcccEEEHHHHHHHHccccccccHHHHHHHHHcccccccEEccccccccccccccHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHccccccccccccccccccccccccccccccEEEEEcccccccHHHHHHHHHHHcccccccEEEEEEcccEEEEEEcccccHHHHHHHHHHcccccHHHHHHHccccccccHHHHHHHHccccccHHHHHHHHHHHccccccccHHccccccHHccccccccccc
ccccccccHHHHHHHHccccccccccccHHHHcHHHHHHHHHHHHHHHHcccEEEEEEEEccccccccccccccccHHHHHHHHHHHHHHcEEEEEEEEEEEEccccEEEEEEEEEEcccccccccccccEEEEcHHHHHHHHHccccHHHHHHcccccccHHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHHHHHHccccccccccccccHHHHcccccccccccccccccccHHHHHHHHHHHHHHccccccccEEEccccccEEEEEEEcccHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHccccEEccHHHHHHHHHHHHHcccccccHHHHHHHHHHHccHEEcHHHHHHHcccccccccHHHHHHHHcccccccccccccccccccHHHHcHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHcccccccccccccccccccccccEEccccEEEEEcccccccHHHHHHHHHHHcccccEEEEEEEEcccEEEEEEccccHHHHHHHHcccccccccHHHHHHccccccccHHHHHHHcccccHHHHHHHHHHHHcccccccccccccccccEEcccccEccccc
mvpkfkpsplrirSFCTKTvqqnphhwpikqitkTNFNESLSEIKNHISSSDFIAVSLqntgsfsspwhrvstfdtpetAYLKAKFAAERFQILQFAICpfklqaskviaypynfhlfprdelkmgmpsysftcQTSYLTAMAKegfdfntciyDGISYLSEAQESTVKvrmgnpmavdhatksssspalsvadTVFIERVRSRVKHWknactdsdikTEALVTSLRKIVlggeqfgsrpsmtidvCSERQVQLVLKMLEDFSDVLvpliipakgggtQAVRAVLTSSDEDKDLLKRELQTFEFEQNKRVRGFREVIDLISAsqkplvahnslndftfihskflaplppnmNEFICSLRLAFPQVIDVnyllkdigpvkkmtNISATIAYLKNrffapiemeipnqanenegkihgHNVVKICQLFGKLCSilkitpdaiesSDDFLASAINRYANIfyslpgssqeptneeirgwtndkrkvscEDVVFLWGFRERISAGILKNMLQGSHEVFAEAFNVRMVDRSCAIvvfgkpglsntfknvmnskavsgplrEMVSDGLKAAGYETYQRVCSSGLWESALADALDKTLAshnclseaayETKQSEIYLSNELINLAEL
mvpkfkpsplrirSFCTKtvqqnphhwpikqiTKTNFNESLSEIKNHISSSDFIAVSLQNTGSFSSPWHRVSTFDTPETAYLKAKFAAERFQILQFAICPFKLQASKVIAYPYNFHLFPRDELKMGMPSYSFTCQTSYLTAMAKEGFDFNTCIYDGISYLSEAQESTVKVRMGNPMAVDhatksssspalsvADTVFIERVRSRVkhwknactdsdikteaLVTSLRKIVLGgeqfgsrpsmtidVCSERQVQLVLKMLEDFSDVLVPLIipakgggtqAVRAVLtssdedkdLLKRELqtfefeqnkrvrgFREVIDLISASQKPLVAHNSLNDFTFIHSKFLAPLPPNMNEFICSLRLAFPQVIDVNYLLkdigpvkkMTNISATIAYLKNRFFAPIEMEIPNQANENEGKIHGHNVVKICQLFGKLCSILKITPDAIESSDDFLASAINRYANIFYslpgssqeptneeirgwtndkrkvsCEDVVFLWGFRERISAGILKNMLQGSHEVFAEAFNVRMVDRSCAIVVFgkpglsntfkNVMNSKAVSGPLREMVSDGLKAAGYETYQRVCSSGLWESALADALDKTLASHNCLSEaayetkqseiylsnelinlael
MVPKFKPSPLRIRSFCTKTVQQNPHHWPIKQITKTNFNESLSEIKNHISSSDFIAVSLQNTGSFSSPWHRVSTFDTPETAYLKAKFAAERFQILQFAICPFKLQASKVIAYPYNFHLFPRDELKMGMPSYSFTCQTSYLTAMAKEGFDFNTCIYDGISYLSEAQESTVKVRMGNPMAVDHATKSSSSPALSVADTVFIERVRSRVKHWKNACTDSDIKTEALVTSLRKIVLGGEQFGSRPSMTIDVCSERQVQLVLKMLEDFSDVLVPLIIPAKGGGTQAVRAVLTSSDEDKDLLKRELQTFEFEQNKRVRGFREVIDLISASQKPLVAHNSLNDFTFIHSKFLAPLPPNMNEFICSLRLAFPQVIDVNYLLKDIGPVKKMTNISATIAYLKNRFFAPIEMEIPNQANENEGKIHGHNVVKICQLFGKLCSILKITPDAIESSDDFLASAINRYANIFYSLPGSSQEPTNEEIRGWTNDKRKVSCEDVVFLWGFRERISAGILKNMLQGSHEVFAEAFNVRMVDRSCAIVVFGKPGLSNTFKNVMNSKAVSGPLREMVSDGLKAAGYETYQRVCSSGLWESALADALDKTLASHNCLSEAAYETKQSEIYLSNELINLAEL
***********IRSFCTKTVQQNPHHWPIKQITKTNFNESLSEIKNHISSSDFIAVSLQNTGSFSSPWHRVSTFDTPETAYLKAKFAAERFQILQFAICPFKLQASKVIAYPYNFHLFPRDELKMGMPSYSFTCQTSYLTAMAKEGFDFNTCIYDGISYLSE****************************SVADTVFIERVRSRVKHWKNACTDSDIKTEALVTSLRKIVLGGEQFGSRPSMTIDVCSERQVQLVLKMLEDFSDVLVPLIIPAKGGGTQAVRAVLT********LKRELQTFEFEQNKRVRGFREVIDLISASQKPLVAHNSLNDFTFIHSKFLAPLPPNMNEFICSLRLAFPQVIDVNYLLKDIGPVKKMTNISATIAYLKNRFFAPIEMEIPNQANENEGKIHGHNVVKICQLFGKLCSILKITPDAIESSDDFLASAINRYANIFYSL***********IRGWTNDKRKVSCEDVVFLWGFRERISAGILKNMLQGSHEVFAEAFNVRMVDRSCAIVVFGKPGLSNTFKNVMNSKAVSGPLREMVSDGLKAAGYETYQRVCSSGLWESALADALDKTLASHNCLSEAAYETKQSEIYLSNELI*****
****************************IKQITKTNFNESLSEIKNHISSSDFIAVSLQNTGSFSSPWHR**TFDTPETAYLKAKFAAERFQILQFAICPFKLQASKVIAYPYNFHLFPRDELKMGMPSYSFTCQTSYLTAMAKEGFDFNTCIYDGISYLSEAQESTVKVRMG******************VADTVFIERVRSRVKHWKNACTDSDIKTEALVTSLRKIVLGGEQFGSRPSMTIDVCSERQVQLVLKMLEDFSDVLVPLIIPAKGGGTQAVRAVLTSSDE****************NKRVRGFREVIDLISASQKPLVAHNSLNDFTFIHSKFLAPLPPNMNEFICSLRLAFPQVIDVNYLLKDIGP*****N***TIAYLKNRFFAPIEMEIP****ENEGKIHGHNVVKICQLFGKLCSILK*****************NRYANIFYSLP********************VSCEDVVFLWGFRERISAGILKNMLQGSHEVFAEAFNVRMVDRSCAIVVFGKPGLSNTFKNVMN*********EMVSDGLKAAGYETYQRVCSSGLWESALAD*************************LSNELINLAEL
********PLRIRSFCTKTVQQNPHHWPIKQITKTNFNESLSEIKNHISSSDFIAVSLQNTGSFSSPWHRVSTFDTPETAYLKAKFAAERFQILQFAICPFKLQASKVIAYPYNFHLFPRDELKMGMPSYSFTCQTSYLTAMAKEGFDFNTCIYDGISYLSEAQESTVKVRMGNPMAV************SVADTVFIERVRSRVKHWKNACTDSDIKTEALVTSLRKIVLGGEQFGSRPSMTIDVCSERQVQLVLKMLEDFSDVLVPLIIPAKGGGTQAVRAVLTSSDEDKDLLKRELQTFEFEQNKRVRGFREVIDLISASQKPLVAHNSLNDFTFIHSKFLAPLPPNMNEFICSLRLAFPQVIDVNYLLKDIGPVKKMTNISATIAYLKNRFFAPIEMEIPNQANENEGKIHGHNVVKICQLFGKLCSILKITPDAIESSDDFLASAINRYANIFYSLPG*********IRGWTNDKRKVSCEDVVFLWGFRERISAGILKNMLQGSHEVFAEAFNVRMVDRSCAIVVFGKPGLSNTFKNVMNSKAVSGPLREMVSDGLKAAGYETYQRVCSSGLWESALADALDKTLASHNCLSEAAYETKQSEIYLSNELINLAEL
****FKPSPLRIRSFCTKTVQQNPHHWPIKQITKTNFNESLSEIKNHISSSDFIAVSLQNTGSFSSPWHRVSTFDTPETAYLKAKFAAERFQILQFAICPFKLQASKVIAYPYNFHLFPRDELKMGMPSYSFTCQTSYLTAMAKEGFDFNTCIYDGISYLSEAQESTVKVRMGNPM*************LSVADTVFIERVRSRVKHWKNACTDSDIKTEALVTSLRKIVLGGEQFGSRPSMTIDVCSERQVQLVLKMLEDFSDVLVPLIIPAKGGGTQAVRAVLTSSDEDKDLLKRELQTFEFEQNKRVRGFREVIDLISASQKPLVAHNSLNDFTFIHSKFLAPLPPNMNEFICSLRLAFPQVIDVNYLLKDIGPVKKMTNISATIAYLKNRFFAPIEMEIPNQANENEGKIHGHNVVKICQLFGKLCSILKITPDAIESSDDFLASAINRYANIFYSLPGSS***TNEEIRGWTNDKRKVSCEDVVFLWGFRERISAGILKNMLQGSHEVFAEAFNVRMVDRSCAIVVFGKPGLSNTFKNVMNSKAVSGPLREMVSDGLKAAGYETYQRVCSSGLWESALADALDKTLAS************QSEIYLSNELINL**L
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MVPKFKPSPLRIRSFCTKTVQQNPHHWPIKQITKTNFNESLSEIKNHISSSDFIAVSLQNTGSFSSPWHRVSTFDTPETAYLKAKFAAERFQILQFAICPFKLQASKVIAYPYNFHLFPRDELKMGMPSYSFTCQTSYLTAMAKEGFDFNTCIYDGISYLSEAQESTVKVRMGNPMAVDHATKSSSSPALSVADTVFIERVRSRVKHWKNACTDSDIKTEALVTSLRKIVLGGEQFGSRPSMTIDVCSERQVQLVLKMLEDFSDVLVPLIIPAKGGGTQAVRAVLTSSDEDKDLLKRELQTFEFEQNKRVRGFREVIDLISASQKPLVAHNSLNDFTFIHSKFLAPLPPNMNEFICSLRLAFPQVIDVNYLLKDIGPVKKMTNISATIAYLKNRFFAPIEMEIPNQANENEGKIHGHNVVKICQLFGKLCSILKITPDAIESSDDFLASAINRYANIFYSLPGSSQEPTNEEIRGWTNDKRKVSCEDVVFLWGFRERISAGILKNMLQGSHEVFAEAFNVRMVDRSCAIVVFGKPGLSNTFKNVMNSKAVSGPLREMVSDGLKAAGYETYQRVCSSGLWESALADALDKTLASHNCLSEAAYETKQSEIYLSNELINLAEL
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 ?
Query621 2.2.26 [Sep-21-2011]
Q8W4C3618 Poly(A)-specific ribonucl yes no 0.958 0.962 0.557 0.0
Q9LG26689 Poly(A)-specific ribonucl no no 0.922 0.831 0.266 1e-59
Q90ZA1631 Poly(A)-specific ribonucl N/A no 0.531 0.522 0.263 1e-26
P69341638 Poly(A)-specific ribonucl yes no 0.549 0.534 0.242 2e-24
O95453639 Poly(A)-specific ribonucl yes no 0.558 0.543 0.257 4e-23
Q5RC51639 Poly(A)-specific ribonucl yes no 0.549 0.533 0.237 5e-23
Q8VDG3624 Poly(A)-specific ribonucl no no 0.547 0.544 0.257 2e-21
Q8NA58520 Poly(A)-specific ribonucl no no 0.428 0.511 0.260 4e-19
Q5R6R6520 Poly(A)-specific ribonucl no no 0.428 0.511 0.260 4e-19
Q7ZU92660 Poly(A)-specific ribonucl yes no 0.222 0.209 0.328 1e-15
>sp|Q8W4C3|PARNL_ARATH Poly(A)-specific ribonuclease PARN-like OS=Arabidopsis thaliana GN=At3g25430 PE=2 SV=1 Back     alignment and function desciption
 Score =  680 bits (1755), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 342/613 (55%), Positives = 452/613 (73%), Gaps = 18/613 (2%)

Query: 17  TKTVQQNPHHWPIKQITKTNFNESLSEIKNHISSSDFIAVSLQNTGSFSSPWHRVSTFDT 76
           TKT+ Q    W +KQ+ K+NF+ +L EI+  I SSDFIA+SLQNTGS+++ WHRVS  DT
Sbjct: 16  TKTLNQG--RWSVKQVKKSNFHVTLDEIRTSIDSSDFIALSLQNTGSYAAAWHRVSAIDT 73

Query: 77  PETAYLKAKFAAERFQILQFAICPFKLQASKVIAYPYNFHLFPRDELKMGMPSYSFTCQT 136
           P+T+YLKAK+AAER+QILQFA+CPF LQ SK+  +PYNFHLFPRDELK GMPSYSF+CQ 
Sbjct: 74  PQTSYLKAKYAAERYQILQFALCPFSLQGSKLTVHPYNFHLFPRDELKCGMPSYSFSCQA 133

Query: 137 SYLTAMAKEGFDFNTCIYDGISYLSEAQESTVKVRMGNPMAVDHATKSSSSPALSVADTV 196
           S LTAMA+EGFDFN CIY+GISYLS AQES  K    NP+  D  T  SSSPA +VADTV
Sbjct: 134 SRLTAMAREGFDFNICIYEGISYLSRAQESASKFLSENPILADSVT-VSSSPA-TVADTV 191

Query: 197 FIERVRSRVKHWKNACTDSDIKT--EALVTSLRKIVLGGEQFGSRPSMTIDVCSERQVQL 254
           F+ R+RSRVK+W+ +C DS  KT  + LV+SLR++VLG EQ+GSR  +TIDVCSERQVQL
Sbjct: 192 FVGRIRSRVKNWRQSCIDSGSKTGDDDLVSSLRRLVLGSEQYGSRLCLTIDVCSERQVQL 251

Query: 255 VLKMLEDFSDVLVPLIIPAKGGGTQAVRAVLTSSDEDKDLLKRELQTFEFEQNKRVRGFR 314
           +L+ML +FSD +VPL++ +K  GTQAVR V  SS EDKDL KREL+  E E+N+RVRGFR
Sbjct: 252 ILEMLTEFSDDVVPLLVASKSRGTQAVRTVFMSSKEDKDLFKRELKDLEKEENRRVRGFR 311

Query: 315 EVIDLISASQKPLVAHNSLNDFTFIHSKFLAPLPPNMNEFICSLRLAFPQVIDVNYLLKD 374
           EV+D IS+SQKP+V+ N L+DFT IH+KFL PLP N+++F  SL  AFP V+D++  +K+
Sbjct: 312 EVVDFISSSQKPVVSQNYLSDFTSIHAKFLGPLPSNVDDFSSSLSSAFPNVVDLSQFMKE 371

Query: 375 IGPVKKMTNISATIAYLKNRFFAPIEMEIPNQA---NENEG-KIHGHNVVKICQLFGKLC 430
           I P+  ++N+ A ++ L NRFFAP+++E+ NQ      +EG + HG N V I QLF KLC
Sbjct: 372 ISPLSNISNLPAAMSSL-NRFFAPVDVEVANQGCPVKLDEGHQSHGQNAVMISQLFAKLC 430

Query: 431 SILKITPDAIESSDDFLASAINRYANIFYSLPGSSQEPTNEEIRGWTNDKRKVSCEDVVF 490
           +I K     I+S++DF A A + +AN   S+   S+   +E ++ W+ + R+VS E++VF
Sbjct: 431 TIQKSDLSTIQSNEDFQALASDEHAN---SVTSCSKNAGDENVKVWSKNSRRVSSENLVF 487

Query: 491 LWGFRERISAGILKNMLQGSHEVFAEAFNVRMVDRSCAIVVFGKPGLSNTF-KNVMNSKA 549
           +WG  ++++A  LKN+LQ SH VFA  F+V+ +DRS AI+VF + G S TF   V N + 
Sbjct: 488 IWGLGKKMTAAKLKNVLQKSHPVFAREFDVKYIDRSSAILVFWESGPSETFLSAVNNEEQ 547

Query: 550 VSGPLREMVSDGLKAAGYETYQRVCSSGLWESALADALDKTLASHNCLSEAAYETKQSEI 609
           + G LREMV++GL+ AGYETY+R C  G WE+ LA++LDK L S +  ++   +TK SEI
Sbjct: 548 LDGSLREMVAEGLRGAGYETYKRACRLGFWEADLAESLDKALESSD--TDPDSDTKPSEI 605

Query: 610 YLSNEL-INLAEL 621
             SNEL IN  EL
Sbjct: 606 DWSNELAINFDEL 618
3'-exoribonuclease that has a preference for poly(A) tails of mRNAs, thereby efficiently degrading poly(A) tails. Exonucleolytic degradation of the poly(A) tail is often the first step in the decay of eukaryotic mRNAs.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 1EC: .EC: 1EC: 3EC: .EC: 4
>sp|Q9LG26|PARN_ARATH Poly(A)-specific ribonuclease PARN OS=Arabidopsis thaliana GN=PARN PE=1 SV=2 Back     alignment and function description
>sp|Q90ZA1|PARN_XENLA Poly(A)-specific ribonuclease PARN OS=Xenopus laevis GN=parn PE=1 SV=1 Back     alignment and function description
>sp|P69341|PARN_BOVIN Poly(A)-specific ribonuclease PARN OS=Bos taurus GN=PARN PE=1 SV=2 Back     alignment and function description
>sp|O95453|PARN_HUMAN Poly(A)-specific ribonuclease PARN OS=Homo sapiens GN=PARN PE=1 SV=1 Back     alignment and function description
>sp|Q5RC51|PARN_PONAB Poly(A)-specific ribonuclease PARN OS=Pongo abelii GN=PARN PE=2 SV=1 Back     alignment and function description
>sp|Q8VDG3|PARN_MOUSE Poly(A)-specific ribonuclease PARN OS=Mus musculus GN=Parn PE=1 SV=1 Back     alignment and function description
>sp|Q8NA58|PNDC1_HUMAN Poly(A)-specific ribonuclease PARN-like domain-containing protein 1 OS=Homo sapiens GN=PNLDC1 PE=2 SV=2 Back     alignment and function description
>sp|Q5R6R6|PNDC1_PONAB Poly(A)-specific ribonuclease PARN-like domain-containing protein 1 OS=Pongo abelii GN=PNLDC1 PE=2 SV=1 Back     alignment and function description
>sp|Q7ZU92|PARN_DANRE Poly(A)-specific ribonuclease PARN OS=Danio rerio GN=parn PE=1 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 ?
Query621
255572662624 ribonuclease, putative [Ricinus communis 0.983 0.979 0.643 0.0
224136934626 predicted protein [Populus trichocarpa] 0.982 0.974 0.623 0.0
224132034628 predicted protein [Populus trichocarpa] 0.982 0.971 0.592 0.0
15230837618 Poly(A)-specific ribonuclease PARN-like 0.958 0.962 0.557 0.0
356527283619 PREDICTED: poly(A)-specific ribonuclease 0.954 0.957 0.549 0.0
9279724 1115 unnamed protein product [Arabidopsis tha 0.938 0.522 0.556 0.0
449502106610 PREDICTED: LOW QUALITY PROTEIN: poly(A)- 0.967 0.985 0.533 0.0
449462471610 PREDICTED: poly(A)-specific ribonuclease 0.967 0.985 0.531 0.0
297831446 1055 predicted protein [Arabidopsis lyrata su 0.922 0.543 0.555 0.0
224129918544 predicted protein [Populus trichocarpa] 0.842 0.961 0.548 0.0
>gi|255572662|ref|XP_002527264.1| ribonuclease, putative [Ricinus communis] gi|223533357|gb|EEF35108.1| ribonuclease, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  824 bits (2129), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 399/620 (64%), Positives = 486/620 (78%), Gaps = 9/620 (1%)

Query: 9   PLRI--RSFCTKTVQQNPH---HWPIKQITKTNFNESLSEIKNHISSSDFIAVSLQNTGS 63
           PLR+  R FCTK      H    W +KQITK+NF +SL EI +HI  SDFI++SL+ TGS
Sbjct: 7   PLRLQRRLFCTKIHHHRAHTHNQWNVKQITKSNFADSLPEINSHIMCSDFISISLKTTGS 66

Query: 64  FSSPWHRVSTFDTPETAYLKAKFAAERFQILQFAICPFKLQASKVIAYPYNFHLFPRDEL 123
           FSSPWHRVS FDTP+ AYLK+K AAE+FQILQ A+CPF + ASKV AYPYNFHLFPRDEL
Sbjct: 67  FSSPWHRVSPFDTPDVAYLKSKHAAEKFQILQLAVCPFTVSASKVTAYPYNFHLFPRDEL 126

Query: 124 KMGMPSYSFTCQTSYLTAMAKEGFDFNTCIYDGISYLSEAQESTVKVRMGNPMAVDHATK 183
             GMPSYSF+C TSYLT M +EGFDFN C+ DGISYLS AQES  +VRM NP       +
Sbjct: 127 NSGMPSYSFSCHTSYLTKMVQEGFDFNACVNDGISYLSRAQESAARVRMKNPFLAKDIVE 186

Query: 184 SSSSPALSVADTVFIERVRSRVKHWKNACTDSDIKTEALVTSLRKIVLGGEQFGSRPSMT 243
           S+S+P   VAD+VF++R RSRVK+WKNACTD+    EALV SLRK+VLG E++ SRP + 
Sbjct: 187 STSTPG--VADSVFVQRTRSRVKNWKNACTDTSSTDEALVKSLRKLVLGLEEYNSRPCIN 244

Query: 244 IDVCSERQVQLVLKMLEDFSDVLVPLIIPAKGGGTQAVRAVLTSSDEDKDLLKRELQTFE 303
           IDVCSERQV LV++ML++F+D LVPLI+PAKGGGTQAVR VLTSS ED+DLL+ ELQ  E
Sbjct: 245 IDVCSERQVHLVIEMLQEFADDLVPLIVPAKGGGTQAVRVVLTSSKEDRDLLQMELQNLE 304

Query: 304 FEQNKRVRGFREVIDLISASQKPLVAHNSLNDFTFIHSKFLAPLPPNMNEFICSLRLAFP 363
            EQNK++RGFREVIDLIS S+KP+V+HNSLND  FIHSKFLAPLPP+M EF CSLRL FP
Sbjct: 305 DEQNKKIRGFREVIDLISGSEKPVVSHNSLNDLAFIHSKFLAPLPPSMEEFTCSLRLVFP 364

Query: 364 QVIDVNYLLKDIGPVKKMTNISATIAYLKNRFFAPIEMEIPNQANENEGKIHGHNVVKIC 423
           QVIDVN+L+K+I P+KK+TNI    +YLKN FFAP++MEIP  A  NEGKIHGHNV++IC
Sbjct: 365 QVIDVNHLMKEISPLKKVTNIPMATSYLKNWFFAPVDMEIPFPAMVNEGKIHGHNVMRIC 424

Query: 424 QLFGKLCSILKITPDAIESSDDFLASAINRYANIFYSLPGSSQEPTNEEIRGWTNDKRKV 483
           QLF KLC ILK+ P++I+S++  LASAI  Y NIF       QEPT+E++R WTN+ RKV
Sbjct: 425 QLFAKLCYILKLAPNSIQSNEKNLASAIEAYVNIFSPYFPGPQEPTDEDVRIWTNNTRKV 484

Query: 484 SCEDVVFLWGFRERISAGILKNMLQGSHEVFAEAFNVRMVDRSCAIVVFGKPGLSNTFKN 543
           SC+D+VFLWGFR R+SAG+LK++LQ SH+VF+E F+VR VD+SCAIVVF +PGLSNT  +
Sbjct: 485 SCQDLVFLWGFRYRMSAGMLKSLLQQSHKVFSEEFDVRFVDKSCAIVVFWEPGLSNTLLD 544

Query: 544 VM-NSKAVSGPLREMVSDGLKAAGYETYQRVCSSGLWESALADALDKTLASHNCLSEAAY 602
           V+  S  + GPLREMVS+G++AA Y+TY RVC  GLW   LAD+LDK LA  +  S++  
Sbjct: 545 VLKGSSEIVGPLREMVSEGVRAASYDTYNRVCRLGLWHENLADSLDKALADTDHPSDSDS 604

Query: 603 ETKQSEIYLSNE-LINLAEL 621
            T  S  Y  +E +INL EL
Sbjct: 605 VTSSSNTYWCHEWMINLDEL 624

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224136934|ref|XP_002326981.1| predicted protein [Populus trichocarpa] gi|222835296|gb|EEE73731.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224132034|ref|XP_002321239.1| predicted protein [Populus trichocarpa] gi|222862012|gb|EEE99554.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|15230837|ref|NP_189170.1| Poly(A)-specific ribonuclease PARN-like protein [Arabidopsis thaliana] gi|75162449|sp|Q8W4C3.1|PARNL_ARATH RecName: Full=Poly(A)-specific ribonuclease PARN-like; AltName: Full=Polyadenylate-specific ribonuclease-like protein gi|17065176|gb|AAL32742.1| Unknown protein [Arabidopsis thaliana] gi|30725444|gb|AAP37744.1| At3g25430 [Arabidopsis thaliana] gi|332643489|gb|AEE77010.1| Poly(A)-specific ribonuclease PARN-like protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|356527283|ref|XP_003532241.1| PREDICTED: poly(A)-specific ribonuclease PARN-like [Glycine max] Back     alignment and taxonomy information
>gi|9279724|dbj|BAB01314.1| unnamed protein product [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|449502106|ref|XP_004161545.1| PREDICTED: LOW QUALITY PROTEIN: poly(A)-specific ribonuclease PARN-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|449462471|ref|XP_004148964.1| PREDICTED: poly(A)-specific ribonuclease PARN-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|297831446|ref|XP_002883605.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297329445|gb|EFH59864.1| predicted protein [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|224129918|ref|XP_002320703.1| predicted protein [Populus trichocarpa] gi|222861476|gb|EEE99018.1| predicted protein [Populus trichocarpa] 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 ?
Query621
TAIR|locus:2094533618 AT3G25430 [Arabidopsis thalian 0.958 0.962 0.556 4.1e-175
TAIR|locus:2012100689 AHG2 "ABA-HYPERSENSITIVE GERMI 0.589 0.531 0.299 2e-61
UNIPROTKB|F6XU41638 PARN "Uncharacterized protein" 0.320 0.311 0.262 6e-23
ZFIN|ZDB-GENE-040426-880660 parn "poly(A)-specific ribonuc 0.317 0.298 0.300 6.4e-23
UNIPROTKB|F1NEI8631 F1NEI8 "Uncharacterized protei 0.222 0.218 0.328 1.1e-22
UNIPROTKB|P69341638 PARN "Poly(A)-specific ribonuc 0.320 0.311 0.267 1.1e-22
UNIPROTKB|E2QZA0496 PARN "Uncharacterized protein" 0.320 0.401 0.260 1.7e-22
MGI|MGI:1921358624 Parn "poly(A)-specific ribonuc 0.320 0.318 0.266 4.9e-22
RGD|1565449624 Parn "poly(A)-specific ribonuc 0.281 0.280 0.291 6.6e-22
UNIPROTKB|O95453639 PARN "Poly(A)-specific ribonuc 0.222 0.215 0.335 1.1e-21
TAIR|locus:2094533 AT3G25430 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1701 (603.8 bits), Expect = 4.1e-175, P = 4.1e-175
 Identities = 341/613 (55%), Positives = 454/613 (74%)

Query:    17 TKTVQQNPHHWPIKQITKTNFNESLSEIKNHISSSDFIAVSLQNTGSFSSPWHRVSTFDT 76
             TKT+ Q    W +KQ+ K+NF+ +L EI+  I SSDFIA+SLQNTGS+++ WHRVS  DT
Sbjct:    16 TKTLNQG--RWSVKQVKKSNFHVTLDEIRTSIDSSDFIALSLQNTGSYAAAWHRVSAIDT 73

Query:    77 PETAYLKAKFAAERFQILQFAICPFKLQASKVIAYPYNFHLFPRDELKMGMPSYSFTCQT 136
             P+T+YLKAK+AAER+QILQFA+CPF LQ SK+  +PYNFHLFPRDELK GMPSYSF+CQ 
Sbjct:    74 PQTSYLKAKYAAERYQILQFALCPFSLQGSKLTVHPYNFHLFPRDELKCGMPSYSFSCQA 133

Query:   137 SYLTAMAKEGFDFNTCIYDGISYLSEAQESTVKVRMGNPMAVDHATKSSSSPALSVADTV 196
             S LTAMA+EGFDFN CIY+GISYLS AQES  K    NP+  D  T SSS PA +VADTV
Sbjct:   134 SRLTAMAREGFDFNICIYEGISYLSRAQESASKFLSENPILADSVTVSSS-PA-TVADTV 191

Query:   197 FIERVRSRVKHWKNACTDSDIKT--EALVTSLRKIVLGGEQFGSRPSMTIDVCSERQVQL 254
             F+ R+RSRVK+W+ +C DS  KT  + LV+SLR++VLG EQ+GSR  +TIDVCSERQVQL
Sbjct:   192 FVGRIRSRVKNWRQSCIDSGSKTGDDDLVSSLRRLVLGSEQYGSRLCLTIDVCSERQVQL 251

Query:   255 VLKMLEDFSDVLVPLIIPAKGGGTQAVRAVLTSSDEDKDLLKRELQTFEFEQNKRVRGFR 314
             +L+ML +FSD +VPL++ +K  GTQAVR V  SS EDKDL KREL+  E E+N+RVRGFR
Sbjct:   252 ILEMLTEFSDDVVPLLVASKSRGTQAVRTVFMSSKEDKDLFKRELKDLEKEENRRVRGFR 311

Query:   315 EVIDLISASQKPLVAHNSLNDFTFIHSKFLAPLPPNMNEFICSLRLAFPQVIDVNYLLKD 374
             EV+D IS+SQKP+V+ N L+DFT IH+KFL PLP N+++F  SL  AFP V+D++  +K+
Sbjct:   312 EVVDFISSSQKPVVSQNYLSDFTSIHAKFLGPLPSNVDDFSSSLSSAFPNVVDLSQFMKE 371

Query:   375 IGPVKKMTNISATIAYLKNRFFAPIEMEIPNQA---NENEG-KIHGHNVVKICQLFGKLC 430
             I P+  ++N+ A ++ L NRFFAP+++E+ NQ      +EG + HG N V I QLF KLC
Sbjct:   372 ISPLSNISNLPAAMSSL-NRFFAPVDVEVANQGCPVKLDEGHQSHGQNAVMISQLFAKLC 430

Query:   431 SILKITPDAIESSDDFLASAINRYANIFYSLPGSSQEPTNEEIRGWTNDKRKVSCEDVVF 490
             +I K     I+S++DF A A + +AN   S+   S+   +E ++ W+ + R+VS E++VF
Sbjct:   431 TIQKSDLSTIQSNEDFQALASDEHAN---SVTSCSKNAGDENVKVWSKNSRRVSSENLVF 487

Query:   491 LWGFRERISAGILKNMLQGSHEVFAEAFNVRMVDRSCAIVVFGKPGLSNTFKNVMNSKA- 549
             +WG  ++++A  LKN+LQ SH VFA  F+V+ +DRS AI+VF + G S TF + +N++  
Sbjct:   488 IWGLGKKMTAAKLKNVLQKSHPVFAREFDVKYIDRSSAILVFWESGPSETFLSAVNNEEQ 547

Query:   550 VSGPLREMVSDGLKAAGYETYQRVCSSGLWESALADALDKTLASHNCLSEAAYETKQSEI 609
             + G LREMV++GL+ AGYETY+R C  G WE+ LA++LDK L S +  ++   +TK SEI
Sbjct:   548 LDGSLREMVAEGLRGAGYETYKRACRLGFWEADLAESLDKALESSD--TDPDSDTKPSEI 605

Query:   610 YLSNEL-INLAEL 621
               SNEL IN  EL
Sbjct:   606 DWSNELAINFDEL 618
GO:0003676 "nucleic acid binding" evidence=IEA
GO:0004540 "ribonuclease activity" evidence=ISS
GO:0005634 "nucleus" evidence=IEA
GO:0009451 "RNA modification" evidence=ISS
GO:0009507 "chloroplast" evidence=ISM
TAIR|locus:2012100 AHG2 "ABA-HYPERSENSITIVE GERMINATION 2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|F6XU41 PARN "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-040426-880 parn "poly(A)-specific ribonuclease (deadenylation nuclease)" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|F1NEI8 F1NEI8 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|P69341 PARN "Poly(A)-specific ribonuclease PARN" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|E2QZA0 PARN "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
MGI|MGI:1921358 Parn "poly(A)-specific ribonuclease (deadenylation nuclease)" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
RGD|1565449 Parn "poly(A)-specific ribonuclease" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|O95453 PARN "Poly(A)-specific ribonuclease PARN" [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

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q8W4C3PARNL_ARATH3, ., 1, ., 1, 3, ., 40.55790.95810.9627yesno

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 Layer3.1.13.40.946
3rd Layer3.1.130.963

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
estExt_fgenesh4_pg.C_400377
SubName- Full=Putative uncharacterized protein; (626 aa)
(Populus trichocarpa)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

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 ?
Query621
pfam04857235 pfam04857, CAF1, CAF1 family ribonuclease 3e-26
pfam04857235 pfam04857, CAF1, CAF1 family ribonuclease 5e-12
>gnl|CDD|147159 pfam04857, CAF1, CAF1 family ribonuclease Back     alignment and domain information 
 Score =  107 bits (269), Expect = 3e-26
 Identities = 38/138 (27%), Positives = 62/138 (44%), Gaps = 14/138 (10%)

Query: 30  KQITKTNFNESLSEIKNHISSSDFIAVSLQNTGSFSSPWHRVSTFDTPETAYLKAKFAAE 89
           +++ ++NF+E   EI+  I S DFIA+  +  G  + P    S   T +  Y   +   +
Sbjct: 1   REVWRSNFHEEFKEIRQAIDSYDFIAIDTEFPGVVARPIG--SFRSTSDYRYQALRKNVD 58

Query: 90  RFQILQFAICPFKL---QASKVIAYPYNFHLFPRDELKMGMPSYSFTCQTSYLTAMAKEG 146
           R +I+Q  +  F            + +NF LF  +E              S +  +AK+G
Sbjct: 59  RLKIIQLGLTLFDEKGNLPDSYYTWQFNFSLFNLEE---------DFYAPSSIEFLAKQG 109

Query: 147 FDFNTCIYDGISYLSEAQ 164
           FDFN    +GI YL  A+
Sbjct: 110 FDFNKHRREGIPYLRFAE 127

The major pathways of mRNA turnover in eukaryotes initiate with shortening of the polyA tail. CAF1 encodes a critical component of the major cytoplasmic deadenylase in yeast. Both Caf1p is required for normal mRNA deadenylation in vivo and localises to the cytoplasm. Caf1p copurifies with a Ccr4p-dependent polyA-specific exonuclease activity. Some members of this family include and inserted RNA binding domain pfam01424. This family of proteins is related to other exonucleases pfam00929 (Bateman A pers. obs.). The crystal structure of Saccharomyces cerevisiae Pop2 has been resolved at 2.3 Angstrom#resolution. Length = 235
>gnl|CDD|147159 pfam04857, CAF1, CAF1 family ribonuclease Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 621
PF04857262 CAF1: CAF1 family ribonuclease; InterPro: IPR00694 100.0
KOG0304239 consensus mRNA deadenylase subunit [RNA processing 99.97
KOG1990564 consensus Poly(A)-specific exoribonuclease PARN [R 99.96
COG5228299 POP2 mRNA deadenylase subunit [RNA processing and 99.85
PF0867587 RNA_bind: RNA binding domain; InterPro: IPR014789 99.58
cd0263765 R3H_PARN R3H domain of Poly(A)-specific ribonuclea 97.17
PRK07740244 hypothetical protein; Provisional 97.17
cd06131167 DNA_pol_III_epsilon_Ecoli_like DEDDh 3'-5' exonucl 97.04
PRK06195309 DNA polymerase III subunit epsilon; Validated 96.97
TIGR01406225 dnaQ_proteo DNA polymerase III, epsilon subunit, P 96.94
cd06134189 RNaseT DEDDh 3'-5' exonuclease domain of RNase T. 96.86
PF1030962 DUF2414: Protein of unknown function (DUF2414); In 96.84
PRK05711240 DNA polymerase III subunit epsilon; Provisional 96.83
TIGR00573217 dnaq exonuclease, DNA polymerase III, epsilon subu 96.79
PRK07942232 DNA polymerase III subunit epsilon; Provisional 96.78
PRK06063313 DNA polymerase III subunit epsilon; Provisional 96.7
cd06130156 DNA_pol_III_epsilon_like an uncharacterized bacter 96.62
PRK06807313 DNA polymerase III subunit epsilon; Validated 96.57
PRK05168211 ribonuclease T; Provisional 96.56
PRK09145202 DNA polymerase III subunit epsilon; Validated 96.52
TIGR01298200 RNaseT ribonuclease T. in gamma-subdivision Proteo 96.48
PRK09146239 DNA polymerase III subunit epsilon; Validated 96.44
cd06145150 REX1_like DEDDh 3'-5' exonuclease domain of RNA ex 96.37
cd06137161 DEDDh_RNase DEDDh 3'-5' exonuclease domain of the 96.25
PRK07983219 exodeoxyribonuclease X; Provisional 96.25
cd06127159 DEDDh DEDDh 3'-5' exonuclease domain family. DEDDh 95.71
PRK06309232 DNA polymerase III subunit epsilon; Validated 95.69
smart00479169 EXOIII exonuclease domain in DNA-polymerase alpha 95.69
PRK07883 557 hypothetical protein; Validated 95.56
PRK07246 820 bifunctional ATP-dependent DNA helicase/DNA polyme 95.51
cd06144152 REX4_like DEDDh 3'-5' exonuclease domain of RNA ex 95.33
PRK06722281 exonuclease; Provisional 95.3
TIGR01405 1213 polC_Gram_pos DNA polymerase III, alpha chain, Gra 95.29
PRK07247195 DNA polymerase III subunit epsilon; Validated 95.14
PRK06310250 DNA polymerase III subunit epsilon; Validated 94.96
KOG4483528 consensus Uncharacterized conserved protein [Funct 94.91
PRK07748207 sporulation inhibitor KapD; Provisional 94.86
cd06149157 ISG20 DEDDh 3'-5' exonuclease domain of Interferon 94.83
PRK05601377 DNA polymerase III subunit epsilon; Validated 94.79
TIGR01407 850 dinG_rel DnaQ family exonuclease/DinG family helic 94.76
PRK08074 928 bifunctional ATP-dependent DNA helicase/DNA polyme 94.54
PRK08517257 DNA polymerase III subunit epsilon; Provisional 94.27
PRK00448 1437 polC DNA polymerase III PolC; Validated 94.04
PF00929164 RNase_T: Exonuclease; InterPro: IPR013520 This ent 91.83
cd06133176 ERI-1_3'hExo_like DEDDh 3'-5' exonuclease domain o 90.95
cd06133176 ERI-1_3'hExo_like DEDDh 3'-5' exonuclease domain o 90.16
cd06136177 TREX1_2 DEDDh 3'-5' exonuclease domain of three pr 89.71
cd06138183 ExoI_N N-terminal DEDDh 3'-5' exonuclease domain o 88.93
COG0847243 DnaQ DNA polymerase III, epsilon subunit and relat 88.45
PF01612176 DNA_pol_A_exo1: 3'-5' exonuclease; InterPro: IPR00 88.02
PRK09145202 DNA polymerase III subunit epsilon; Validated 87.39
PRK05168211 ribonuclease T; Provisional 86.98
PRK09182294 DNA polymerase III subunit epsilon; Validated 86.74
PF0007670 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or 86.12
smart00479169 EXOIII exonuclease domain in DNA-polymerase alpha 85.77
PTZ00315 582 2'-phosphotransferase; Provisional 84.8
PF1160890 Limkain-b1: Limkain b1; InterPro: IPR024582 This e 82.75
PF08777105 RRM_3: RNA binding motif; InterPro: IPR014886 This 82.22
PRK11779476 sbcB exonuclease I; Provisional 81.89
PF00929164 RNase_T: Exonuclease; InterPro: IPR013520 This ent 80.27
>PF04857 CAF1: CAF1 family ribonuclease; InterPro: IPR006941 CAF1 is an RNase of the DEDD superfamily, and a subunit of the Ccr4-Not complex that mediates 3' to 5' mRNA deadenylation Back     alignment and domain information 
Probab=100.00  E-value=1.1e-63  Score=513.95  Aligned_cols=246  Identities=38%  Similarity=0.600  Sum_probs=197.7

Q ss_pred             EEeCcccHHHHHHHHHHhhcCCCeEEEecCCCCccCCCCCCCCCCCCHHHHHHHHHhhhccccceeEEeeee-ecCC---
Q 007029           30 KQITKTNFNESLSEIKNHISSSDFIAVSLQNTGSFSSPWHRVSTFDTPETAYLKAKFAAERFQILQFAICPF-KLQA---  105 (621)
Q Consensus        30 ~eVt~~NF~~~lp~i~~~I~~a~FVAiD~EftGi~~~~~~~~~~~dt~eerY~~~k~~a~~f~iiQ~Gl~~f-~~~~---  105 (621)
                      ||||++||+++||.|+++|++|+|||||+||||+...+.+.  ..+|+++||+++|++|++|+|+|+|||+| +.++   
T Consensus         1 m~Vt~~Nf~~~l~~i~~~i~~~~fvaiD~EftGl~~~~~~~--~~~t~~~rY~~~r~~v~~~~iiQ~Glt~f~~~~~~~~   78 (262)
T PF04857_consen    1 MEVTRSNFEEELPEILQAISKADFVAIDTEFTGLVSKPPRS--RFDTPEERYEKLRANVETFQIIQFGLTLFHDEDGNIP   78 (262)
T ss_dssp             EEE-CCCHHHHHHHHHHHHHHSSEEEEEEEES-S-SSS-SH--CSSHHHHHHHHHHHHHTTBEEEEEEEEEETTTTSEEE
T ss_pred             CcccHHHHHHHHHHHHHHHhhCCEEEEEeeccccccCCCcc--ccccHHHHHHHHHHhhcccccceeeEEEeecccccCC
Confidence            89999999999999999999999999999999997654322  89999999999999999999999999999 4444   


Q ss_pred             CceeeEeEEEeecCccccccCCCCCceeechhHHHHHHHcCCCccchhhcccccCCHHHHHHHHHHhCCCccccccccCC
Q 007029          106 SKVIAYPYNFHLFPRDELKMGMPSYSFTCQTSYLTAMAKEGFDFNTCIYDGISYLSEAQESTVKVRMGNPMAVDHATKSS  185 (621)
Q Consensus       106 ~~y~~~~fNF~lfp~~~~~~~~~d~~f~~q~sSl~FL~~~gFDFnk~~~~GI~YLs~~eE~~~r~~~~~~~~~~~~~~~~  185 (621)
                      .+|.+|||||++||..        +.|+ |++||+||++||||||+|+++||||+++.||+.++                
T Consensus        79 ~~~~~~~~nf~~f~~~--------~~~~-~~~sl~FL~~~gfDFn~~~~~GI~y~~~~ee~~~~----------------  133 (262)
T PF04857_consen   79 SSYNVWPFNFYLFPLD--------RDFS-QASSLQFLRKNGFDFNKWFRDGIPYLSFAEEEKAR----------------  133 (262)
T ss_dssp             CCEEEEEEEBSTTSTT--------TCEE-EHHHHHHHHHTT--HHHHHHH-B-HHHHHHHHHHH----------------
T ss_pred             ceeEEEEeeeeccccc--------ccee-cchhHHHHHHcccCHHHHHHhCCCcccccccchhh----------------
Confidence            4789999999999974        4677 99999999999999999999999999998875421                


Q ss_pred             CCCCCCcccHHHHHHHHHHHHHHHhhcCCCCchhHHHHHHHHHHHhcCcccCCCCCccccccchHHHHHHHHHHHhhcCC
Q 007029          186 SSPALSVADTVFIERVRSRVKHWKNACTDSDIKTEALVTSLRKIVLGGEQFGSRPSMTIDVCSERQVQLVLKMLEDFSDV  265 (621)
Q Consensus       186 ~~~~~~~~d~~fi~~v~~~I~~Wl~~~~~~~~~~e~l~~~l~~~~~~~e~~~~~p~l~l~~~~~~q~~Li~q~l~~~~~~  265 (621)
                                                                                                      
T Consensus       134 --------------------------------------------------------------------------------  133 (262)
T PF04857_consen  134 --------------------------------------------------------------------------------  133 (262)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             --------------------------------------------------------------------------------
Confidence                                                                                            


Q ss_pred             cceeeeccCCCCceeEEEEEccChHHHHHHHHHhhHHHHhhhhhcccHHHHHHHHHhCCCCEEeehhHHHHHHHHHhccC
Q 007029          266 LVPLIIPAKGGGTQAVRAVLTSSDEDKDLLKRELQTFEFEQNKRVRGFREVIDLISASQKPLVAHNSLNDFTFIHSKFLA  345 (621)
Q Consensus       266 l~~~~~~~k~g~~~~~rvi~~~~~eek~~l~~e~~~~e~e~~~~~~GFr~Vi~~L~~skKpIVGHN~llDL~~iy~~F~g  345 (621)
                                                                 +.+|||.|++++.+++||||||||++||+|||++|+|
T Consensus       134 -------------------------------------------~~~g~~~v~~~~~~~~~p~Vghn~~~Dl~~l~~~f~~  170 (262)
T PF04857_consen  134 -------------------------------------------ELLGFSGVIDALKSSKKPIVGHNGLYDLMYLYKKFIG  170 (262)
T ss_dssp             -------------------------------------------HHHHTCCCSSHCHCC-SEEEESSTHHHHHHHHHHHTT
T ss_pred             -------------------------------------------hhHHHHHHHHHhhccCCcEEEeChHhHHHHHHHHhcC
Confidence                                                       1237888899999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHccCCCccchhhHHhhhCcccccCchHHHHHHHHhcCCCCceeecCCC----C-------CCCC-cc
Q 007029          346 PLPPNMNEFICSLRLAFPQVIDVNYLLKDIGPVKKMTNISATIAYLKNRFFAPIEMEIPNQ----A-------NENE-GK  413 (621)
Q Consensus       346 pLP~t~~eFk~~i~~lFP~I~DTKyLa~~~~~~~~~~~L~~~~~~l~~~~~~~~~vei~~~----~-------~~~~-~h  413 (621)
                      |||++++||++.++++||.|||||||++...  ...++|+.+.+.+.... .++.+..+..    .       ..+. .|
T Consensus       171 ~LP~t~~eF~~~~~~~FP~i~DtK~la~~~~--~~~~~L~~l~~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~H  247 (262)
T PF04857_consen  171 PLPETLEEFKELLRELFPRIYDTKYLAEECP--GKSTSLQELAEELGIRR-NPSSISSPEGFPSYDEEKNNFPMFGEKAH  247 (262)
T ss_dssp             S--SSHHHHHHHHHHHSSSEEEHHHHHTSTT--TS-SSHHHHHHHTTSTT-----EEE-TTS-------------SS-TT
T ss_pred             CCCCCHHHHHHHHHHHCcccccHHHHHHhcc--ccccCHHHHHHHhCCCc-cccccccccccccccccccccccCCCCCC
Confidence            9999999999999999999999999998765  24667888888876443 2222222210    1       1233 79


Q ss_pred             cchhhHHHHHHHHHH
Q 007029          414 IHGHNVVKICQLFGK  428 (621)
Q Consensus       414 eAGyDA~mTG~vFik  428 (621)
                      +|||||||||+||++
T Consensus       248 eAGyDA~mTg~~F~~  262 (262)
T PF04857_consen  248 EAGYDAYMTGCVFIK  262 (262)
T ss_dssp             SHHHHHHHHHHHHHH
T ss_pred             CcchHHHHHHHHHcC
Confidence            999999999999986

The major pathways of mRNA turnover in eukaryotes initiate with shortening of the poly(A) tail. CAF1 P39008 from SWISSPROT encodes a critical component of the major cytoplasmic deadenylase in yeast. Caf1p is required for normal mRNA deadenylation in vivo and localises to the cytoplasm. Caf1p copurifies with a Ccr4p-dependent poly(A)-specific exonuclease activity. Some members of this family contain a single-stranded nucleic acid binding domain, R3H.; GO: 0005634 nucleus; PDB: 3D45_B 1UG8_A 2D5R_A 2A1S_C 2A1R_A 2FC6_A 1UOC_A 3G10_A 2P51_A 3G0Z_A.
>KOG0304 consensus mRNA deadenylase subunit [RNA processing and modification] Back     alignment and domain information
>KOG1990 consensus Poly(A)-specific exoribonuclease PARN [Replication, recombination and repair] Back     alignment and domain information
>COG5228 POP2 mRNA deadenylase subunit [RNA processing and modification] Back     alignment and domain information
>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN) Back     alignment and domain information
>cd02637 R3H_PARN R3H domain of Poly(A)-specific ribonuclease (PARN) Back     alignment and domain information
>PRK07740 hypothetical protein; Provisional Back     alignment and domain information
>cd06131 DNA_pol_III_epsilon_Ecoli_like DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins Back     alignment and domain information
>PRK06195 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>TIGR01406 dnaQ_proteo DNA polymerase III, epsilon subunit, Proteobacterial Back     alignment and domain information
>cd06134 RNaseT DEDDh 3'-5' exonuclease domain of RNase T Back     alignment and domain information
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function Back     alignment and domain information
>PRK05711 DNA polymerase III subunit epsilon; Provisional 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
>PRK06063 DNA polymerase III subunit epsilon; Provisional Back     alignment and domain information
>cd06130 DNA_pol_III_epsilon_like an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III Back     alignment and domain information
>PRK06807 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK05168 ribonuclease T; Provisional Back     alignment and domain information
>PRK09145 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>TIGR01298 RNaseT ribonuclease T Back     alignment and domain information
>PRK09146 DNA polymerase III subunit epsilon; Validated 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
>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
>PRK07983 exodeoxyribonuclease X; Provisional Back     alignment and domain information
>cd06127 DEDDh DEDDh 3'-5' exonuclease domain family Back     alignment and domain information
>PRK06309 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>smart00479 EXOIII exonuclease domain in DNA-polymerase alpha and epsilon chain, ribonuclease T and other exonucleases Back     alignment and domain information
>PRK07883 hypothetical protein; Validated Back     alignment and domain information
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated 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
>PRK06722 exonuclease; Provisional Back     alignment and domain information
>TIGR01405 polC_Gram_pos DNA polymerase III, alpha chain, Gram-positive type Back     alignment and domain information
>PRK07247 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK06310 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>KOG4483 consensus Uncharacterized conserved protein [Function unknown] Back     alignment and domain information
>PRK07748 sporulation inhibitor KapD; 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
>PRK05601 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
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK08517 DNA polymerase III subunit epsilon; Provisional Back     alignment and domain information
>PRK00448 polC DNA polymerase III PolC; Validated Back     alignment and domain information
>PF00929 RNase_T: Exonuclease; InterPro: IPR013520 This entry includes a variety of exonuclease proteins, such as ribonuclease T [] and the epsilon subunit of DNA polymerase III Back     alignment and domain information
>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
>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
>cd06136 TREX1_2 DEDDh 3'-5' exonuclease domain of three prime repair exonuclease (TREX)1, TREX2, and similar proteins Back     alignment and domain information
>cd06138 ExoI_N N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins Back     alignment and domain information
>COG0847 DnaQ DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair] 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
>PRK09145 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK05168 ribonuclease T; Provisional Back     alignment and domain information
>PRK09182 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PF00076 RRM_1: RNA recognition motif 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
>PTZ00315 2'-phosphotransferase; Provisional Back     alignment and domain information
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes Back     alignment and domain information
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation Back     alignment and domain information
>PRK11779 sbcB exonuclease I; Provisional Back     alignment and domain information
>PF00929 RNase_T: Exonuclease; InterPro: IPR013520 This entry includes a variety of exonuclease proteins, such as ribonuclease T [] and the epsilon subunit of DNA polymerase III Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query621
2a1r_A430 Crystal Structure Of Parn Nuclease Domain Length = 3e-24
3d45_A507 Crystal Structure Of Mouse Parn In Complex With M7g 2e-22
>pdb|2A1R|A Chain A, Crystal Structure Of Parn Nuclease Domain Length = 430 Back     alignment and structure 
Iteration: 1

 Score =  110 bits (274), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 93/391 (23%), Positives = 173/391 (44%), Gaps = 50/391 (12%)
Query: 31  QITKTNFNESLSEIKNHISSSDFIAVSLQNTGSFSSPWHRVST--FDTPETAYLKAKFAA 88
           +I ++NF  +L ++   I  +DF A+  + +G    P     T  FDTPE  Y K K  +
Sbjct: 2   EIIRSNFKSNLHKVYQAIEEADFFAIDGEFSGISDGPSVSALTNGFDTPEERYQKLKKHS 61
Query: 89  ERFQILQFAICPFKLQA--SKVIAYPYNFHLFPRDELKMGMPSYSFTCQTSYLTAMAKEG 146
             F + QF +C FK     SK I   +NF++FP+       P   F CQ+S +  +A +G
Sbjct: 62  MDFLLFQFGLCTFKYDYTDSKYITKSFNFYVFPK-PFNRSSPDVKFVCQSSSIDFLASQG 120
Query: 147 FDFNTCIYDGISYLSEAQESTVKVRMGNPM-------AVDHATKSSSSPALSVAD--TVF 197
           FDFN    +GI YL++ +E  ++ +            A+ + + ++S   +++ +    F
Sbjct: 121 FDFNKVFRNGIPYLNQEEERQLREQYDEKRSQANGAGALSYVSPNTSKCPVTIPEDQKKF 180
Query: 198 IERVRSRVKHWKNACTDSDIKTEALVTSLRKIVLGGEQFGSRPSMTIDVCSERQVQLVLK 257
           I++V  +++    +  + ++  E      RK++     +     + ++     + +    
Sbjct: 181 IDQVVEKIEDLLQSEENKNLDLEPCTGFQRKLIYQTLSWKYPKGIHVETLETEKKE---- 236
Query: 258 MLEDFSDVLVPLIIPAKGGGTQAVRAVLTSSDEDKDLLKRELQTFEFEQNK--RVRGFRE 315
                                   R ++ S  ++++  +RE Q    EQ +     GF  
Sbjct: 237 ------------------------RYIVISKVDEEERKRREQQKHAKEQEELNDAVGFSR 272
Query: 316 VIDLISASQKPLVAHNSLNDFTFIHSKFLAPLPPNMNEFICSLRLAFPQVIDVNYLLKDI 375
           VI  I+ S K ++ HN L D      +F  PLP +++EF       FP+++D   L+   
Sbjct: 273 VIHAIANSGKLVIGHNMLLDVMHTVHQFYCPLPADLSEFKEMTTCVFPRLLDTK-LMAST 331
Query: 376 GPVKKMTNISATIAYLKNRF----FAPIEME 402
            P K + N + ++A L+ R     F P ++E
Sbjct: 332 QPFKDIIN-NTSLAELEKRLKETPFNPPKVE 361
>pdb|3D45|A Chain A, Crystal Structure Of Mouse Parn In Complex With M7gpppg Length = 507 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 ?
Query621
3d45_A507 Poly(A)-specific ribonuclease PARN; CAP analogue, 3e-77
2a1r_A430 Poly(A)-specific ribonuclease PARN; DEDD, nuclease 1e-73
1uoc_A289 POP2; hydrolase, DEDD nuclease, mRNA degradation, 1e-14
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 6e-14
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 5e-08
2d5r_A252 CCR4-NOT transcription complex subunit 7; poly(A) 6e-14
2p51_A333 SPCC18.06C protein; DEDD nuclease fold, hydrolase, 5e-12
2p51_A333 SPCC18.06C protein; DEDD nuclease fold, hydrolase, 5e-04
>3d45_A Poly(A)-specific ribonuclease PARN; CAP analogue, exonuclease, hydrolase, magnesium, metal nonsense-mediated mRNA decay, nucleus; HET: 7MG GDP; 3.00A {Mus musculus} Length = 507 Back     alignment and structure
 Score =  253 bits (647), Expect = 3e-77
 Identities = 106/553 (19%), Positives = 200/553 (36%), Gaps = 62/553 (11%)

Query: 31  QITKTNFNESLSEIKNHISSSDFIAVSLQNTGSFSSP--WHRVSTFDTPETAYLKAKFAA 88
           +I ++NF  +L ++   I  +DF A+  + +G    P      S FDTPE  Y K K  +
Sbjct: 4   EIIRSNFKINLHKVYQAIEEADFFAIDGEFSGISDGPSVTALTSGFDTPEERYQKLKKHS 63

Query: 89  ERFQILQFAICPFKLQ--ASKVIAYPYNFHLFPRDELKMGMPSYSFTCQTSYLTAMAKEG 146
             F + QF +C FK     SK +   +NF++FP+       P   F CQ+S +  +A +G
Sbjct: 64  MDFLLFQFGLCAFKYDHTDSKHVTKSFNFYVFPK-PFSRSSPDVKFVCQSSSIDFLASQG 122

Query: 147 FDFNTCIYDGISYLSEAQESTVKVRMGNPMAVDHATKSSSSPALSVA--DTVFIERVRSR 204
           FDFN     GI YL++ +E  ++ +     +  +   + +   +++      FI++V  +
Sbjct: 123 FDFNKVFCSGIPYLNQEEERQLREQFDEKRSQANGAGALAKCPVTIPEDQKKFIDQVIEK 182

Query: 205 VKHWKNACTDSDIKTEALVTSLRKIVLGGEQFGSRPSMTIDVCSERQVQLVLKMLEDFSD 264
           ++ +  +                           + S+ +D C+  Q +L+ + L     
Sbjct: 183 IEDFLQS-------------------------EEKRSLELDPCTGFQRKLIYQTLSWKYP 217

Query: 265 VLVPLIIPAKGGGTQAVRAVLTSSDEDKDLLKRELQTFEFEQNKRVRGFREVIDLISASQ 324
             + +         + +       +E++   ++E  T E E+     GF  VI  I+ S 
Sbjct: 218 KGIHVETLETDKKERHIVIS-KVDEEERKRREQEKYTKEQEELNDAVGFSRVIHAIANSG 276

Query: 325 KPLVAHNSLNDFTFIHSKFLAPLPPNMNEFICSLRLAFPQVIDVNYLLK--DIGPVKKMT 382
           K +V HN L D      +F  PLP ++NEF       FP+++D   +        +   T
Sbjct: 277 KLVVGHNMLLDVMHTIHQFYCPLPADLNEFKEMAICVFPRLLDTKLMASTQPFKDIINNT 336

Query: 383 NISATIAYLKNRFFAPIEMEIPNQ-----ANENEGKIHGHNVVKICQLFGKLCSILKITP 437
           +++     LK   F P ++E             +    G++       F  + + L    
Sbjct: 337 SLAELEKRLKETPFDPPKVESAEGFPSYDTASEQLHEAGYDAYITGLCFISMANYLGSLL 396

Query: 438 DAIESSDDFLASAINRYANIFYSLPGSSQEPTNEEIRGWTNDKRKVSCEDVVFLWGFRER 497
              +      +  I  + N  + +        N                D V    F + 
Sbjct: 397 SPPKMCVSARSKLIEPFFNKLFLMRVMDIPYLN------LEGPDLQPKRDHVLHVTFPKE 450

Query: 498 ISAGILKNMLQGSHEVFAEAFNVRMVDRSCAIVVFGKPGLSNTFKNVMNSKAVSGPLREM 557
                L  +      +      +  +D + A V   +P       N              
Sbjct: 451 WKTSDLYQLFSAFGNI-----QISWIDDTSAFVSLSQPEQVQIAVNTSKY---------- 495

Query: 558 VSDGLKAAGYETY 570
            ++  +   Y  Y
Sbjct: 496 -AESYRIQTYAEY 507
>2a1r_A Poly(A)-specific ribonuclease PARN; DEDD, nuclease domain, hydrolase-RNA complex; 2.60A {Homo sapiens} PDB: 2a1s_A Length = 430 Back     alignment and structure
>1uoc_A POP2; hydrolase, DEDD nuclease, mRNA degradation, poly(A) tail, transcription regulation, repressor, phosphorylation.; 2.3A {Saccharomyces cerevisiae} SCOP: c.55.3.9 Length = 289 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
>2d5r_A CCR4-NOT transcription complex subunit 7; poly(A) deadenylase, antiproliferative protein, transcription; 2.50A {Homo sapiens} SCOP: c.55.3.9 Length = 252 Back     alignment and structure
>2p51_A SPCC18.06C protein; DEDD nuclease fold, hydrolase, gene regulation; 1.40A {Schizosaccharomyces pombe} PDB: 3g0z_A 3g10_A Length = 333 Back     alignment and structure
>2p51_A SPCC18.06C protein; DEDD nuclease fold, hydrolase, gene regulation; 1.40A {Schizosaccharomyces pombe} PDB: 3g0z_A 3g10_A Length = 333 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query621
3d45_A507 Poly(A)-specific ribonuclease PARN; CAP analogue, 100.0
2a1r_A430 Poly(A)-specific ribonuclease PARN; DEDD, nuclease 100.0
4gmj_B285 CCR4-NOT transcription complex subunit 7; mRNA dec 100.0
2d5r_A252 CCR4-NOT transcription complex subunit 7; poly(A) 100.0
2p51_A333 SPCC18.06C protein; DEDD nuclease fold, hydrolase, 100.0
1uoc_A289 POP2; hydrolase, DEDD nuclease, mRNA degradation, 100.0
1whv_A100 Poly(A)-specific ribonuclease; RNA recognition mot 99.46
3ctr_A101 Poly(A)-specific ribonuclease PARN; protein-RNA-co 99.23
1ug8_A87 Poly(A)-specific ribonuclease; R3H domain, poly(A) 98.79
2gui_A194 DNA polymerase III epsilon subunit; DNA polymerase 96.52
1wlj_A189 Interferon stimulated gene 20KDA; exoribonuclease, 96.44
2p1j_A186 POLIII, DNA polymerase III POLC-type; structural g 96.09
1w0h_A204 3'-5' exonuclease ERI1; nuclease domain, hydrolase 95.94
1zbh_A299 3'-5' exonuclease ERI1; histone mRNA 3'-END-specif 95.77
3mxm_B242 Three prime repair exonuclease 1; RNAse H-like fol 95.55
3v9w_A235 Ribonuclease T; DEDD nucleases family, EXO-nucleas 95.14
2f96_A224 Ribonuclease T; RNAse, RNT, RNAse T, tRNA hydrolas 94.95
3u3y_B314 Three prime repair exonuclease 1; RNAse H fold, 3' 94.59
1zbu_A349 ERI-1 homolog, 3'-5' exonuclease ERI1; hydrolase; 94.31
2xri_A224 ERI1 exoribonuclease 3; hydrolase, metal binding; 94.01
1y97_A238 Three prime repair exonuclease 2; TREX2, hydrolase 93.57
3cg7_A308 CRN-4, cell death-related nuclease 4; hydrolase, a 92.53
2igi_A180 Oligoribonuclease; RNAse, exoribonuclease, exonucl 91.98
2diu_A96 KIAA0430 protein; structural genomics, RRM domain, 91.7
2gbz_A194 Oligoribonuclease; ORN, deddh, structural genomics 90.3
2dnp_A90 RNA-binding protein 14; RRM domain, RBD, structura 89.41
1x4c_A108 Splicing factor, arginine/serine-rich 1; structura 89.35
3v9w_A235 Ribonuclease T; DEDD nucleases family, EXO-nucleas 88.81
2f96_A224 Ribonuclease T; RNAse, RNT, RNAse T, tRNA hydrolas 87.77
1x5s_A102 Cold-inducible RNA-binding protein; structure geno 86.96
1nu4_A97 U1A RNA binding domain; RNA recognition motif, U1 86.44
2fc8_A102 NCL protein; structure genomics, RRM_1 domain, str 86.31
2dgx_A96 KIAA0430 protein; RRM domain, structural genomics, 85.8
2fc9_A101 NCL protein; structure genomics, RRM_1 domain, str 85.02
2cq0_A103 Eukaryotic translation initiation factor 3 subunit 84.73
2cpi_A111 CCR4-NOT transcription complex subunit 4; RNA reco 84.5
2cqc_A95 Arginine/serine-rich splicing factor 10; RNA recog 84.34
2dgt_A92 RNA-binding protein 30; RRM domain, structural gen 84.25
2dgo_A115 Cytotoxic granule-associated RNA binding protein 1 84.17
2dnm_A103 SRP46 splicing factor; RRM domain, RBD, structural 84.13
2cq3_A103 RNA-binding protein 9; RRM domain, structural geno 84.08
1x5u_A105 Splicing factor 3B subunit 4 (spliceosome associat 83.91
2a3j_A127 U1 small nuclear ribonucleoprotein A; computationa 83.73
2p1j_A186 POLIII, DNA polymerase III POLC-type; structural g 83.38
3beg_B115 Splicing factor, arginine/serine-rich 1; kinase, S 82.9
2igi_A180 Oligoribonuclease; RNAse, exoribonuclease, exonucl 82.39
2dgp_A106 Bruno-like 4, RNA binding protein; RRM domain, str 82.17
1wex_A104 Hypothetical protein (riken cDNA 2810036L13); stru 81.57
2ytc_A85 PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s 81.48
2dnz_A95 Probable RNA-binding protein 23; RNA recognition m 81.32
2e5h_A94 Zinc finger CCHC-type and RNA-binding motif- conta 81.24
2dhg_A104 TRNA selenocysteine associated protein (SECP43); R 81.23
2dgu_A103 Heterogeneous nuclear ribonucleoprotein Q; RRM dom 81.08
3bs9_A87 Nucleolysin TIA-1 isoform P40; RNA recognition mot 80.98
2dnh_A105 Bruno-like 5, RNA binding protein; RRM domain, RBD 80.9
2dnq_A90 RNA-binding protein 4B; RRM domain,RBD, structural 80.34
>3d45_A Poly(A)-specific ribonuclease PARN; CAP analogue, exonuclease, hydrolase, magnesium, metal nonsense-mediated mRNA decay, nucleus; HET: 7MG GDP; 3.00A {Mus musculus} Back     alignment and structure
Probab=100.00  E-value=3.3e-103  Score=872.17  Aligned_cols=479  Identities=22%  Similarity=0.339  Sum_probs=332.5

Q ss_pred             eEEeCcccHHHHHHHHHHhhcCCCeEEEecCCCCccCCCCCC--CCCCCCHHHHHHHHHhhhccccceeEEeeeeecCC-
Q 007029           29 IKQITKTNFNESLSEIKNHISSSDFIAVSLQNTGSFSSPWHR--VSTFDTPETAYLKAKFAAERFQILQFAICPFKLQA-  105 (621)
Q Consensus        29 i~eVt~~NF~~~lp~i~~~I~~a~FVAiD~EftGi~~~~~~~--~~~~dt~eerY~~~k~~a~~f~iiQ~Gl~~f~~~~-  105 (621)
                      |||||++||+++||.|+++|++|+|||||+|||||...+...  .+.++|+++||+++|.+|+.|+|||+|||+|++++ 
T Consensus         2 ~m~V~~~Nf~~~l~~i~~~i~~~~fvaiD~Ef~Gi~~~~~~~~~~~~~~t~~~~Y~~~r~~v~~~~iiQlGlt~f~~~~~   81 (507)
T 3d45_A            2 PMEIIRSNFKINLHKVYQAIEEADFFAIDGEFSGISDGPSVTALTSGFDTPEERYQKLKKHSMDFLLFQFGLCAFKYDHT   81 (507)
T ss_dssp             CEEECHHHHHHHHHHHHHHHHHCSEEEEEEEESCSCC--------CBSCCHHHHHHHHHHHHTTBCEEEEEEEEEEECSS
T ss_pred             CeEEeHHhHHHHHHHHHHHHhcCCEEEEeeeccCcCCCCCccccccccCCHHHHHHHHHHHHHhcccceEEEEEEecCCC
Confidence            699999999999999999999999999999999996543211  24589999999999999999999999999999987 


Q ss_pred             -CceeeEeEEEeecCccccccCCCCCceeechhHHHHHHHcCCCccchhhcccccCCHHHHHHHHHHhCCCccccccc--
Q 007029          106 -SKVIAYPYNFHLFPRDELKMGMPSYSFTCQTSYLTAMAKEGFDFNTCIYDGISYLSEAQESTVKVRMGNPMAVDHAT--  182 (621)
Q Consensus       106 -~~y~~~~fNF~lfp~~~~~~~~~d~~f~~q~sSl~FL~~~gFDFnk~~~~GI~YLs~~eE~~~r~~~~~~~~~~~~~--  182 (621)
                       ++|.+||||||+||+.. +.+.+|++|+||++||+||++||||||+|+++|||||+++||+.+++++.++....+..  
T Consensus        82 ~~~~~~~~fNf~~fp~~~-~~~~~d~~~~~~~~Si~fL~~~GfDFnk~~~~GI~yl~~~ee~~~~~~~~~~~~~~~~~~~  160 (507)
T 3d45_A           82 DSKHVTKSFNFYVFPKPF-SRSSPDVKFVCQSSSIDFLASQGFDFNKVFCSGIPYLNQEEERQLREQFDEKRSQANGAGA  160 (507)
T ss_dssp             SSCEEEEEEEEEBCCCCC-SSSSCCCEEEEEHHHHHHHHTTTCCHHHHHTTCBCBCCHHHHHHHHHHSCC----------
T ss_pred             CCceeEEeEEEEecCccc-cccCcccceeecHHHHHHHHHcCCChhhHHhcCCCCCChHHHHHHHHHHHhhhhhhhcccc
Confidence             68999999999999852 23467899999999999999999999999999999999999999999998765533110  


Q ss_pred             cCCCCCCCCcccHHHHHHHHHHHHHHHhhcCCCCchhHHHHHHHHHHHhcCcccCCCCCccccccchHHHHHHHHHHHhh
Q 007029          183 KSSSSPALSVADTVFIERVRSRVKHWKNACTDSDIKTEALVTSLRKIVLGGEQFGSRPSMTIDVCSERQVQLVLKMLEDF  262 (621)
Q Consensus       183 ~~~~~~~~~~~d~~fi~~v~~~I~~Wl~~~~~~~~~~e~l~~~l~~~~~~~e~~~~~p~l~l~~~~~~q~~Li~q~l~~~  262 (621)
                      .......+++++++|+++++++|++|+++...                         +++++++||++||+||||+|+++
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~I~~wl~~~~~-------------------------~~l~i~~~n~~~r~Lv~q~l~~~  215 (507)
T 3d45_A          161 LAKCPVTIPEDQKKFIDQVIEKIEDFLQSEEK-------------------------RSLELDPCTGFQRKLIYQTLSWK  215 (507)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccCCcccCCHHHHHHHHHHHHHHHHHHhcCCC-------------------------CccccCCCcHHHHHHHHHHHHHh
Confidence            01111125678899999999999999976321                         23778899999999999999999


Q ss_pred             cCCcceeeeccCCCCceeEEEEEccChHHHHHHHHHhhHHHHhhhhhcccHHHHHHHHHhCCCCEEeehhHHHHHHHHHh
Q 007029          263 SDVLVPLIIPAKGGGTQAVRAVLTSSDEDKDLLKRELQTFEFEQNKRVRGFREVIDLISASQKPLVAHNSLNDFTFIHSK  342 (621)
Q Consensus       263 ~~~l~~~~~~~k~g~~~~~rvi~~~~~eek~~l~~e~~~~e~e~~~~~~GFr~Vi~~L~~skKpIVGHN~llDL~~iy~~  342 (621)
                      ||+++.+......+....+.| .+.+++++..++++.+..+++.+.+++|||+||++|++++|||||||||+||||||++
T Consensus       216 fp~~v~~~~~~~~~~~~~i~v-~~~~~e~~~~~~~~~~~~~~~~~~~~~Gfr~v~~~L~~~~kpiVgHN~l~Dl~~l~~~  294 (507)
T 3d45_A          216 YPKGIHVETLETDKKERHIVI-SKVDEEERKRREQEKYTKEQEELNDAVGFSRVIHAIANSGKLVVGHNMLLDVMHTIHQ  294 (507)
T ss_dssp             -------------------------------------CCSTHHHHHHHSBTHHHHHHHHHHCCEEEESSCHHHHHHHHHH
T ss_pred             CCCceEeeeccCCCcceeEEE-EeCCHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhCCCeEEEechHHHHHHHHHH
Confidence            999875422111222233433 3344555555555555566788999999999999999999999999999999999999


Q ss_pred             ccCCCCCCHHHHHHHHHccCCCccchhhHHhhhCccc---ccCchHHHHHHHHhcCCCCceeecCCCC-C----CCCccc
Q 007029          343 FLAPLPPNMNEFICSLRLAFPQVIDVNYLLKDIGPVK---KMTNISATIAYLKNRFFAPIEMEIPNQA-N----ENEGKI  414 (621)
Q Consensus       343 F~gpLP~t~~eFk~~i~~lFP~I~DTKyLa~~~~~~~---~~~~L~~~~~~l~~~~~~~~~vei~~~~-~----~~~~he  414 (621)
                      |+||||++++|||+.+|++||.|||||||++.. ++.   ..++|+++++.|.+.++.+|+|+++... +    .+..|+
T Consensus       295 F~~pLP~~~~eFk~~i~~lFP~i~DTK~la~~~-~~~~~~~~~~L~~l~~~l~~~~~~~p~i~~~~~~~~y~~~~~~~He  373 (507)
T 3d45_A          295 FYCPLPADLNEFKEMAICVFPRLLDTKLMASTQ-PFKDIINNTSLAELEKRLKETPFDPPKVESAEGFPSYDTASEQLHE  373 (507)
T ss_dssp             HTCSCCSSHHHHHHHHHHHCSCEEEHHHHTTST-THHHHCCCCCHHHHHHHTTSTTCCCCCEEECTTSCCCC----CCCC
T ss_pred             hcCCCCCCHHHHHHHHHHhCCceeEhHhhhhcC-ccccccCCCCHHHHHHHHhccCCCCCeEEecccccccccCCCCccc
Confidence            999999999999999999999999999998763 333   4789999999999888889999887542 2    345799


Q ss_pred             chhhHHHHHHHHHHHHHHhcc---CCCCCCCCcHHHHhhhhhhhccccCCCCCCCCCCCccccCCCCCCCCCCcCCEEEE
Q 007029          415 HGHNVVKICQLFGKLCSILKI---TPDAIESSDDFLASAINRYANIFYSLPGSSQEPTNEEIRGWTNDKRKVSCEDVVFL  491 (621)
Q Consensus       415 AGyDA~mTG~vFikL~~~L~~---~~~~~~s~~~~~~~~l~~~~N~l~~~~~~~~~~~d~~~~~l~g~~~~~~~~~vv~~  491 (621)
                      |||||||||+||++||++||.   ..+...   ...+.+|++|+|+|++  ++   +.|++|+||+|+|+.++|++|++ 
T Consensus       374 AGyDA~mTg~~F~kl~~~l~~~~~~~~~~~---~~~~~~l~~~~N~l~l--~~---~~d~~~i~l~g~d~~~~R~~vl~-  444 (507)
T 3d45_A          374 AGYDAYITGLCFISMANYLGSLLSPPKMCV---SARSKLIEPFFNKLFL--MR---VMDIPYLNLEGPDLQPKRDHVLH-  444 (507)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCC------------CCSCSSSGGGTTEECC--CS---BSSCCSEESSSCCCCCCGGGEEE-
T ss_pred             HHHHHHHHHHHHHHHHHHHhhccCCccccc---ccchhHHHhhheeeee--ec---cCCCceeeCCCCCCCCCcCcEEE-
Confidence            999999999999999999985   111100   1235689999999999  55   56899999999999999999666 


Q ss_pred             eccccccchhHHHHhhhhhhhccccceEEEEecCceEEEEecCCCchhHHHHHhhhcc
Q 007029          492 WGFRERISAGILKNMLQGSHEVFAEAFNVRMVDRSCAIVVFGKPGLSNTFKNVMNSKA  549 (621)
Q Consensus       492 ~~f~~~~~~~~i~~~l~~~~~~F~~~~~V~~id~t~a~V~~~~~~~~~~~l~~~~~~~  549 (621)
                      |+||++|+..+|.++++    .|| .++|+|||+|||||+|+++++|+++|++++++.
T Consensus       445 v~f~~~~~~~~i~~~fs----~fg-~v~V~widdt~a~V~~~~~~~a~~~l~~~~~~~  497 (507)
T 3d45_A          445 VTFPKEWKTSDLYQLFS----AFG-NIQISWIDDTSAFVSLSQPEQVQIAVNTSKYAE  497 (507)
T ss_dssp             EECCTTCCHHHHHHHGG----GGC-CCEEEECSSSEEEEECSCHHHHHHHHHHHTTCS
T ss_pred             EeCCCCCCHHHHHHHHH----hcC-CEEEEEEcCCeEEEEECCHHHHHHHHHHHHhCC
Confidence            89999999999888775    566 389999999999999999999999999998764
>2a1r_A Poly(A)-specific ribonuclease PARN; DEDD, nuclease domain, hydrolase-RNA complex; 2.60A {Homo sapiens} PDB: 2a1s_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
>2d5r_A CCR4-NOT transcription complex subunit 7; poly(A) deadenylase, antiproliferative protein, transcription; 2.50A {Homo sapiens} SCOP: c.55.3.9 Back     alignment and structure
>2p51_A SPCC18.06C protein; DEDD nuclease fold, hydrolase, gene regulation; 1.40A {Schizosaccharomyces pombe} PDB: 3g0z_A 3g10_A Back     alignment and structure
>1uoc_A POP2; hydrolase, DEDD nuclease, mRNA degradation, poly(A) tail, transcription regulation, repressor, phosphorylation.; 2.3A {Saccharomyces cerevisiae} SCOP: c.55.3.9 Back     alignment and structure
>1whv_A Poly(A)-specific ribonuclease; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, PARN, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2rok_A* Back     alignment and structure
>3ctr_A Poly(A)-specific ribonuclease PARN; protein-RNA-complex, M7G-CAP, M7GTP, RNA recognition motif, RRM, cytoplasm, exonuclease, hydrolase, magnesium; HET: MGP; 2.10A {Homo sapiens} Back     alignment and structure
>1ug8_A Poly(A)-specific ribonuclease; R3H domain, poly(A)-specific 3'-exoribonuclease, PARN, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.68.7.1 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
>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
>1w0h_A 3'-5' exonuclease ERI1; nuclease domain, hydrolase; HET: AMP; 1.59A {Homo sapiens} SCOP: c.55.3.5 Back     alignment and structure
>1zbh_A 3'-5' exonuclease ERI1; histone mRNA 3'-END-specific recognition, structures of 3'- exonuclease and ITS RNA complex, hydrolase/RNA complex; HET: AMP; 3.00A {Homo sapiens} Back     alignment and structure
>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
>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
>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
>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
>1zbu_A ERI-1 homolog, 3'-5' exonuclease ERI1; hydrolase; HET: AMP; 3.00A {Homo sapiens} Back     alignment and structure
>2xri_A ERI1 exoribonuclease 3; hydrolase, metal binding; 2.15A {Homo sapiens} 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
>3cg7_A CRN-4, cell death-related nuclease 4; hydrolase, apoptosis, 3'-5' exonuclease, deddh; 2.50A {Caenorhabditis elegans} PDB: 3cm5_A 3cm6_A Back     alignment and structure
>2igi_A Oligoribonuclease; RNAse, exoribonuclease, exonuclease, hydrolase, mRNA decay; 1.70A {Escherichia coli} SCOP: c.55.3.5 PDB: 1yta_A 1j9a_A Back     alignment and structure
>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2gbz_A Oligoribonuclease; ORN, deddh, structural genomics, hydrolase; 2.30A {Xanthomonas campestris PV} Back     alignment and structure
>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 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
>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
>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear ribonucleoprotein, R binding domain, RNA binding protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1 PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A* 3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P* 3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A* ... Back     alignment and structure
>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2dgx_A KIAA0430 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A Back     alignment and structure
>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens} Back     alignment and structure
>2p1j_A POLIII, DNA polymerase III POLC-type; structural genomics, exonuclease, PSI-2, protein structure initiative; HET: DNA; 2.50A {Thermotoga maritima MSB8} Back     alignment and structure
>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase, SR protein, PRE-mRNA splicing, at binding, chromosome partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP: d.58.7.1 PDB: 2o3d_A 1wg4_A Back     alignment and structure
>2igi_A Oligoribonuclease; RNAse, exoribonuclease, exonuclease, hydrolase, mRNA decay; 1.70A {Escherichia coli} SCOP: c.55.3.5 PDB: 1yta_A 1j9a_A Back     alignment and structure
>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dgq_A Back     alignment and structure
>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2dgu_A Heterogeneous nuclear ribonucleoprotein Q; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dk2_A Back     alignment and structure
>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens} Back     alignment and structure
>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A 2dno_A Back     alignment and structure
>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {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 621
d2d5ra1252 c.55.3.9 (A:11-262) CCR4-NOT transcription complex 4e-21
d2d5ra1252 c.55.3.9 (A:11-262) CCR4-NOT transcription complex 1e-04
d1uoca_286 c.55.3.9 (A:) Pop2 RNase D domain {Baker's yeast ( 2e-18
d1uoca_286 c.55.3.9 (A:) Pop2 RNase D domain {Baker's yeast ( 6e-05
>d2d5ra1 c.55.3.9 (A:11-262) CCR4-NOT transcription complex subunit 7, CAF1 {Human (Homo sapiens) [TaxId: 9606]} Length = 252 Back     information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Ribonuclease H-like
family: CAF1-like ribonuclease
domain: CCR4-NOT transcription complex subunit 7, CAF1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 91.1 bits (226), Expect = 4e-21
 Identities = 19/150 (12%), Positives = 45/150 (30%), Gaps = 15/150 (10%)

Query: 29  IKQITKTNFNESLSEIKNHISSSDFIAVSLQNTGSFSSPWHRVSTFDTPETAYLKAKFAA 88
           I ++   N +E + +I+  I   +++A+  +  G  + P          +  Y   +   
Sbjct: 2   ICEVWACNLDEEMKKIRQVIRKYNYVAMDTEFPGVVARPIG--EFRSNADYQYQLLRCNV 59

Query: 89  ERFQILQFAICPFKLQ---ASKVIAYPYNFHLFPRDELKMGMPSYSFTCQTSYLTAMAKE 145
           +  +I+Q  +     Q         + +NF     +                 +  +   
Sbjct: 60  DLLKIIQLGLTFMNEQGEYPPGTSTWQFNFKFNLTE----------DMYAQDSIELLTTS 109

Query: 146 GFDFNTCIYDGISYLSEAQESTVKVRMGNP 175
           G  F     +GI     A+       +   
Sbjct: 110 GIQFKKHEEEGIETQYFAELLMTSGVVLCE 139
>d2d5ra1 c.55.3.9 (A:11-262) CCR4-NOT transcription complex subunit 7, CAF1 {Human (Homo sapiens) [TaxId: 9606]} Length = 252 Back     information, alignment and structure
>d1uoca_ c.55.3.9 (A:) Pop2 RNase D domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 286 Back     information, alignment and structure
>d1uoca_ c.55.3.9 (A:) Pop2 RNase D domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 286 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 ?
Query621
d2d5ra1252 CCR4-NOT transcription complex subunit 7, CAF1 {Hu 100.0
d1uoca_286 Pop2 RNase D domain {Baker's yeast (Saccharomyces 100.0
d1whva_100 Poly(A)-specific ribonuclease PARN {Mouse (Mus mus 99.48
d1ug8a_87 Poly(A)-specific ribonuclease PARN {Mouse (Mus mus 98.7
d1wlja_173 Interferon-stimulated gene 20 kDa protein, ISG20 { 96.76
d2guia1174 N-terminal exonuclease domain of the epsilon subun 95.82
d1y97a1228 Three prime repair exonuclease 2, TREX2 {Human (Ho 94.43
d3b6oa1226 Three prime repair exonuclease 1, TREX1 {Mouse (Mu 94.07
d1x5ua193 Splicing factor 3B subunit 4 {Human (Homo sapiens) 89.8
d2cqca183 Arginine/serine-rich splicing factor 10 {Human (Ho 89.77
d1wg4a_98 Splicing factor, arginine/serine-rich 9 (SFRS9) {M 89.45
d3begb187 Splicing factor, arginine/serine-rich 1, SFRS1 {Hu 89.39
d1x4da189 Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]} 88.95
d2b0ga183 Splicesomal U1A protein {Drosophila melanogaster [ 88.88
d2cqpa186 RNA-binding protein 12 {Mouse (Mus musculus) [TaxI 87.97
d1wexa_104 Heterogeneous nuclear ribonucleoprotein L-like {Mo 87.8
d2cq3a193 RNA-binding protein 9 {Human (Homo sapiens) [TaxId 86.78
d2f96a1202 Ribonuclease T {Pseudomonas aeruginosa [TaxId: 287 86.33
d1yt3a3193 Ribonuclease D, catalytic domain {Escherichia coli 85.83
d1nu4a_91 Splicesomal U1A protein {Human (Homo sapiens) [Tax 85.27
d2guia1174 N-terminal exonuclease domain of the epsilon subun 85.18
d2f96a1202 Ribonuclease T {Pseudomonas aeruginosa [TaxId: 287 84.64
d2cpja186 Non-POU domain-containing octamer-binding protein, 84.62
d1x4ga196 Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960 84.59
d2cq0a190 Eukaryotic translation initiation factor 3 subunit 84.33
d2cqia190 Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960 83.89
d1x4fa199 Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]} 83.28
d1w0ha_200 Exonuclease ERI1 {Human (Homo sapiens) [TaxId: 960 83.17
d2cpza1102 CUG triplet repeat RNA-binding protein 1 {Human (H 82.91
d2cq1a188 Polypyrimidine tract-binding protein 2, PTBP2 {Hum 82.77
d1fxla285 Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9 80.98
d2f9da1114 Pre-mRNA branch site protein p14 {Human (Homo sapi 80.77
d1x4aa195 Splicing factor, arginine/serine-rich 1, SFRS1 {Hu 80.23
d2cpda186 APOBEC1 stimulating protein {Human (Homo sapiens) 80.08
>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
class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Ribonuclease H-like
family: CAF1-like ribonuclease
domain: CCR4-NOT transcription complex subunit 7, CAF1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=3.2e-53  Score=428.83  Aligned_cols=232  Identities=18%  Similarity=0.262  Sum_probs=195.5

Q ss_pred             ceEEeCcccHHHHHHHHHHhhcCCCeEEEecCCCCccCCCCCCCCCCCCHHHHHHHHHhhhccccceeEEeeeeecCC--
Q 007029           28 PIKQITKTNFNESLSEIKNHISSSDFIAVSLQNTGSFSSPWHRVSTFDTPETAYLKAKFAAERFQILQFAICPFKLQA--  105 (621)
Q Consensus        28 ~i~eVt~~NF~~~lp~i~~~I~~a~FVAiD~EftGi~~~~~~~~~~~dt~eerY~~~k~~a~~f~iiQ~Gl~~f~~~~--  105 (621)
                      .|+|||++||+++++.|+++|++|+|||||+||||+..++  ..+..+|+++||+++|.+|+.|.+||+|||+|++++  
T Consensus         1 ~i~eV~~~Nf~e~~~~i~~~i~~~~fVAiD~EF~G~~~~~--~~~~~~t~~~~Y~~lr~nv~~~~iiQ~Glt~~~~~g~~   78 (252)
T d2d5ra1           1 RICEVWACNLDEEMKKIRQVIRKYNYVAMDTEFPGVVARP--IGEFRSNADYQYQLLRCNVDLLKIIQLGLTFMNEQGEY   78 (252)
T ss_dssp             CEEEECGGGHHHHHHHHHHHHHHCCEEEEEEECCCCCCCC--CSCCSSHHHHHHHHHHHHHTTCCCCEEEEEEECTTSCC
T ss_pred             CeEEehhhhHHHHHHHHHHHHhcCCEEEEeeeccCcccCC--CCccCCCHHHHHHHHHHHHhhcceeEEEEEeecccCCC
Confidence            4899999999999999999999999999999999996543  356678999999999999999999999999999987  


Q ss_pred             -CceeeEeEEEeecCccccccCCCCCceeechhHHHHHHHcCCCccchhhcccccCCHHHHHHHHHHhCCCccccccccC
Q 007029          106 -SKVIAYPYNFHLFPRDELKMGMPSYSFTCQTSYLTAMAKEGFDFNTCIYDGISYLSEAQESTVKVRMGNPMAVDHATKS  184 (621)
Q Consensus       106 -~~y~~~~fNF~lfp~~~~~~~~~d~~f~~q~sSl~FL~~~gFDFnk~~~~GI~YLs~~eE~~~r~~~~~~~~~~~~~~~  184 (621)
                       ..+.+|+|||+++|+          +++|+++||+||++|||||||++++||||....|.-                  
T Consensus        79 ~~~~~~w~FNf~~~~~----------~~~~~~~Si~fL~~~G~DF~k~~~~GI~~~~f~~~l------------------  130 (252)
T d2d5ra1          79 PPGTSTWQFNFKFNLT----------EDMYAQDSIELLTTSGIQFKKHEEEGIETQYFAELL------------------  130 (252)
T ss_dssp             CSSCCEEEEEBCCCTT----------TSCCCHHHHHHHHHHTCCHHHHHHHCBCHHHHHHHH------------------
T ss_pred             CCCceeEEEEEEeCCc----------ccccCHHHHHHHHHcCCChHHHHHcCCCHHHHHHHH------------------
Confidence             468999999998775          468999999999999999999999999995322110                  


Q ss_pred             CCCCCCCcccHHHHHHHHHHHHHHHhhcCCCCchhHHHHHHHHHHHhcCcccCCCCCccccccchHHHHHHHHHHHhhcC
Q 007029          185 SSSPALSVADTVFIERVRSRVKHWKNACTDSDIKTEALVTSLRKIVLGGEQFGSRPSMTIDVCSERQVQLVLKMLEDFSD  264 (621)
Q Consensus       185 ~~~~~~~~~d~~fi~~v~~~I~~Wl~~~~~~~~~~e~l~~~l~~~~~~~e~~~~~p~l~l~~~~~~q~~Li~q~l~~~~~  264 (621)
                                               .                                                      
T Consensus       131 -------------------------~------------------------------------------------------  131 (252)
T d2d5ra1         131 -------------------------M------------------------------------------------------  131 (252)
T ss_dssp             -------------------------H------------------------------------------------------
T ss_pred             -------------------------H------------------------------------------------------
Confidence                                     0                                                      


Q ss_pred             CcceeeeccCCCCceeEEEEEccChHHHHHHHHHhhHHHHhhhhhcccHHHHHHHHHhCCCCEEeehhHHHHHHHHHhcc
Q 007029          265 VLVPLIIPAKGGGTQAVRAVLTSSDEDKDLLKRELQTFEFEQNKRVRGFREVIDLISASQKPLVAHNSLNDFTFIHSKFL  344 (621)
Q Consensus       265 ~l~~~~~~~k~g~~~~~rvi~~~~~eek~~l~~e~~~~e~e~~~~~~GFr~Vi~~L~~skKpIVGHN~llDL~~iy~~F~  344 (621)
                               ..|                                          .+...++++||||+++|++|++++|+
T Consensus       132 ---------~s~------------------------------------------~~~~~~~~wv~f~g~yD~~yl~k~l~  160 (252)
T d2d5ra1         132 ---------TSG------------------------------------------VVLCEGVKWLSFHSGYDFGYLIKILT  160 (252)
T ss_dssp             ---------TTT------------------------------------------SSSSSSCEEEESSCHHHHHHHHHHHH
T ss_pred             ---------hhh------------------------------------------hhhcCCCcEEEecchhHHHHHHHHHc
Confidence                     000                                          00112467999999999999999999


Q ss_pred             C-CCCCCHHHHHHHHHccCCCccchhhHHhhhCcccccCchHHHHHHHHhcCCCCceeecCCCCCCCCcccchhhHHHHH
Q 007029          345 A-PLPPNMNEFICSLRLAFPQVIDVNYLLKDIGPVKKMTNISATIAYLKNRFFAPIEMEIPNQANENEGKIHGHNVVKIC  423 (621)
Q Consensus       345 g-pLP~t~~eFk~~i~~lFP~I~DTKyLa~~~~~~~~~~~L~~~~~~l~~~~~~~~~vei~~~~~~~~~heAGyDA~mTG  423 (621)
                      | |||++++||++.+|.+||.|||||||++...+++  .+|.++.+.|.-    +         ..+..|+|||||||||
T Consensus       161 ~~~LP~~~~eF~~~v~~~FP~vyDtK~l~~~~~~~~--~~L~~la~~L~v----~---------~~g~~H~AG~DsllT~  225 (252)
T d2d5ra1         161 NSNLPEEELDFFEILRLFFPVIYDVKYLMKSCKNLK--GGLQEVAEQLEL----E---------RIGPQHQAGSDSLLTG  225 (252)
T ss_dssp             TSCCCSSHHHHHHHHHHHCSCEEEHHHHGGGCTTCC--SSHHHHHHHHTC----C---------CCSSTTSHHHHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHCchHhhHHHHHhhccCCC--chHHHHHHHcCC----C---------CCCCCcchhHHHHHHH
Confidence            6 9999999999999999999999999999876654  357776666621    1         1246799999999999


Q ss_pred             HHHHHHHHHhc
Q 007029          424 QLFGKLCSILK  434 (621)
Q Consensus       424 ~vFikL~~~L~  434 (621)
                      .||++|++.+.
T Consensus       226 ~~F~~l~~~~~  236 (252)
T d2d5ra1         226 MAFFKMREMFF  236 (252)
T ss_dssp             HHHHHHHHHTS
T ss_pred             HHHHHHHHHHh
Confidence            99999999883
>d1uoca_ c.55.3.9 (A:) Pop2 RNase D domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1whva_ d.58.7.1 (A:) Poly(A)-specific ribonuclease PARN {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1ug8a_ d.68.7.1 (A:) Poly(A)-specific ribonuclease PARN {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1wlja_ c.55.3.5 (A:) Interferon-stimulated gene 20 kDa protein, ISG20 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>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
>d1y97a1 c.55.3.5 (A:1-228) Three prime repair exonuclease 2, TREX2 {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
>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d3begb1 d.58.7.1 (B:121-207) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1x4da1 d.58.7.1 (A:8-96) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2b0ga1 d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosophila melanogaster [TaxId: 7227]} Back     information, alignment and structure
>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2f96a1 c.55.3.5 (A:19-220) Ribonuclease T {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d1yt3a3 c.55.3.5 (A:1-193) Ribonuclease D, catalytic domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]} 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
>d2f96a1 c.55.3.5 (A:19-220) Ribonuclease T {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1x4fa1 d.58.7.1 (A:8-106) Matrin 3 {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
>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cq1a1 d.58.7.1 (A:51-138) Polypyrimidine tract-binding protein 2, PTBP2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure