Citrus Sinensis ID: 023967

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----
MSVLPKGGDEIQIREVWNDNLEEEFALIREIVDKYNYIAMDTEFPGVVLRPVGAFKNINDYNYQTLKDNVDMLKLIQLGLTFSDENGNLPTCGTDKFCIWQFNFREFNLIDDIFASDSVELLHQCGIDFKKNNEKGIDVNRFGELLMSSGIVLNDVVRWVTFHSGYDFGYLLKLLTCRSLPDTQAGFFELINMYFPVVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTSCTFRKLRENFFNGCTEKYAGVLYGLGVENDKTN
cccccccccccEEEEcccccHHHHHHHHHHHHHHccEEEEEEEEccEEEccccccccccHHHHHHHHHHHcccccEEEEEEEEccccccccccccccEEEEEEEcccccccccccHHHHHHHHHccccccHHHHccccHHHHHHHHHHHccccccccEEEEEEccHHHHHHHHHHHcccccccHHHHHHHHHHHcccEEEEHHHHHHcccccccHHHHHHHcccEEccccccccHHHHHHHHHHHHHHHHHccccccccccEEEEccccccccc
cccccccccccEHHHHHHHHHHHHHHHHHHHHHHccEEEEccccccEEEEccccccccccHHHEEEHHHHHHHHHHHHcEEEEccccccccccccccEEEEEEccccccHHHcccHHHHHHHHHccccHHHHHHccccHHHHHHHHHHccEEEcccEEEEEEcccHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHHccHHHHHHHHccccEcccccccccHHHHHHHHHHHHHHHHHcccHHHHccEEEEEcccccccc
msvlpkggdeiqIREVWNDNLEEEFALIREIVDKYNyiamdtefpgvvlrpvgafknindynyqtLKDNVDMLKLIQLGltfsdengnlptcgtdkfciwqfnfrefnliddifasDSVELLHQCGidfkknnekgidvnRFGELLMSSGIVLNDVVRWVTFHSGYDFGYLLKLLtcrslpdtqaGFFELINMYFPVVYDIKHLMKFCNSLHGGLNKLAELLEVERVgichqagsdslltSCTFRKLRENFFNGCTEKYAGVLYGLgvendktn
msvlpkggdeiqireVWNDNLEEEFALIREIVDKYNYIAMDTEFPGVVLRPVGAFKNINDYNYQTLKDNVDMLKLIQLGLTFSDENGNLPTCGTDKFCIWQFNFREFNLIDDIFASDSVELLHQCGIdfkknnekgIDVNRFGELLMSSGIVLNDVVRWVTFHSGYDFGYLLKLLTCRSLPDTQAGFFELINMYFPVVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTSCTFRKLRENFFNGCTEKYAGVLYGLGVENDKTN
MSVLPKGGDEIQIREVWNDNLEEEFALIREIVDKYNYIAMDTEFPGVVLRPVGAFKNINDYNYQTLKDNVDMLKLIQLGLTFSDENGNLPTCGTDKFCIWQFNFREFNLIDDIFASDSVELLHQCGIDFKKNNEKGIDVNRFGELLMSSGIVLNDVVRWVTFHSGYDFGYLLKLLTCRSLPDTQAGFFELINMYFPVVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTSCTFRKLRENFFNGCTEKYAGVLYGLGVENDKTN
**********IQIREVWNDNLEEEFALIREIVDKYNYIAMDTEFPGVVLRPVGAFKNINDYNYQTLKDNVDMLKLIQLGLTFSDENGNLPTCGTDKFCIWQFNFREFNLIDDIFASDSVELLHQCGIDFKKNNEKGIDVNRFGELLMSSGIVLNDVVRWVTFHSGYDFGYLLKLLTCRSLPDTQAGFFELINMYFPVVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTSCTFRKLRENFFNGCTEKYAGVLYGLGV******
*************REVWNDNLEEEFALIREIVDKYNYIAMDTEFPGVVLRPVGAFKNINDYNYQTLKDNVDMLKLIQLGLTFSDENGNLPTCGTDKFCIWQFNFREFNLIDDIFASDSVELLHQCGIDFKKNNEKGIDVNRFGELLMSSGIVLNDVVRWVTFHSGYDFGYLLKLLTCRSLPDTQAGFFELINMYFPVVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTSCTFRKLRENFFNGCTEKYAGVLY***V******
MSVLPKGGDEIQIREVWNDNLEEEFALIREIVDKYNYIAMDTEFPGVVLRPVGAFKNINDYNYQTLKDNVDMLKLIQLGLTFSDENGNLPTCGTDKFCIWQFNFREFNLIDDIFASDSVELLHQCGIDFKKNNEKGIDVNRFGELLMSSGIVLNDVVRWVTFHSGYDFGYLLKLLTCRSLPDTQAGFFELINMYFPVVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTSCTFRKLRENFFNGCTEKYAGVLYGLGVENDKTN
*******GDEIQIREVWNDNLEEEFALIREIVDKYNYIAMDTEFPGVVLRPVGAFKNINDYNYQTLKDNVDMLKLIQLGLTFSDENGNLPTCGTDKFCIWQFNFREFNLIDDIFASDSVELLHQCGIDFKKNNEKGIDVNRFGELLMSSGIVLNDVVRWVTFHSGYDFGYLLKLLTCRSLPDTQAGFFELINMYFPVVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTSCTFRKLRENFFNGCTEKYAGVLYGLGVE*****
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MSVLPKGGDEIQIREVWNDNLEEEFALIREIVDKYNYIAMDTEFPGVVLRPVGAFKNINDYNYQTLKDNVDMLKLIQLGLTFSDENGNLPTCGTDKFCIWQFNFREFNLIDDIFASDSVELLHQCGIDFKKNNEKGIDVNRFGELLMSSGIVLNDVVRWVTFHSGYDFGYLLKLLTCRSLPDTQAGFFELINMYFPVVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTSCTFRKLRENFFNGCTEKYAGVLYGLGVENDKTN
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 ?
Query274 2.2.26 [Sep-21-2011]
Q9SKZ2275 Probable CCR4-associated yes no 0.963 0.96 0.784 1e-121
Q9SAI2274 Probable CCR4-associated no no 0.956 0.956 0.782 1e-120
Q9LEU4277 Probable CCR4-associated no no 0.970 0.960 0.770 1e-119
Q9S9P2286 Probable CCR4-associated no no 0.941 0.902 0.640 3e-94
Q60809285 CCR4-NOT transcription co yes no 0.916 0.880 0.569 3e-80
Q3ZC01285 CCR4-NOT transcription co yes no 0.916 0.880 0.569 3e-80
Q9UIV1285 CCR4-NOT transcription co yes no 0.916 0.880 0.569 3e-80
Q5ZJV9285 CCR4-NOT transcription co yes no 0.916 0.880 0.569 3e-80
Q08BM8286 CCR4-NOT transcription co yes no 0.916 0.877 0.569 4e-80
Q3KQ85285 CCR4-NOT transcription co N/A no 0.916 0.880 0.558 2e-79
>sp|Q9SKZ2|CAF1G_ARATH Probable CCR4-associated factor 1 homolog 7 OS=Arabidopsis thaliana GN=CAF1-7 PE=2 SV=2 Back     alignment and function desciption
 Score =  435 bits (1118), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 208/265 (78%), Positives = 235/265 (88%), Gaps = 1/265 (0%)

Query: 9   DEIQIREVWNDNLEEEFALIREIVDKYNYIAMDTEFPGVVLRPVGAFKNINDYNYQTLKD 68
           D IQIREVWNDNLE E ALIRE+VD + ++AMDTEFPG+V RPVG FK   +Y+Y+TLK 
Sbjct: 8   DSIQIREVWNDNLESEMALIREVVDDFPFVAMDTEFPGIVCRPVGTFKTNTEYHYETLKT 67

Query: 69  NVDMLKLIQLGLTFSDENGNLPTCGTD-KFCIWQFNFREFNLIDDIFASDSVELLHQCGI 127
           NV++LK+IQLGLTFSDE GNLPTCGTD K+CIWQFNFREF+L  DI+A+DS+ELL Q GI
Sbjct: 68  NVNILKMIQLGLTFSDEKGNLPTCGTDNKYCIWQFNFREFDLESDIYATDSIELLRQSGI 127

Query: 128 DFKKNNEKGIDVNRFGELLMSSGIVLNDVVRWVTFHSGYDFGYLLKLLTCRSLPDTQAGF 187
           DF KNNE GID  RF ELLMSSGIVLN+ V WVTFHSGYDFGYLLKLLTC++LP+TQ GF
Sbjct: 128 DFVKNNEFGIDSKRFAELLMSSGIVLNENVHWVTFHSGYDFGYLLKLLTCQNLPETQTGF 187

Query: 188 FELINMYFPVVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTSCTFRKL 247
           FE+I++YFP VYDIKHLMKFCNSLHGGLNKLAELL+VERVGICHQAGSDSLLTSCTFRKL
Sbjct: 188 FEMISVYFPRVYDIKHLMKFCNSLHGGLNKLAELLDVERVGICHQAGSDSLLTSCTFRKL 247

Query: 248 RENFFNGCTEKYAGVLYGLGVENDK 272
           +ENFF G  EKY+GVLYGLGVEN +
Sbjct: 248 QENFFIGSMEKYSGVLYGLGVENGQ 272
Ubiquitous transcription factor required for a diverse set of processes. It is a component of the CCR4 complex involved in the control of gene expression.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 1EC: .EC: 1EC: 3EC: .EC: 4
>sp|Q9SAI2|CAF1F_ARATH Probable CCR4-associated factor 1 homolog 6 OS=Arabidopsis thaliana GN=CAF1-6 PE=2 SV=1 Back     alignment and function description
>sp|Q9LEU4|CAF1J_ARATH Probable CCR4-associated factor 1 homolog 10 OS=Arabidopsis thaliana GN=CAF1-10 PE=2 SV=1 Back     alignment and function description
>sp|Q9S9P2|CAF1B_ARATH Probable CCR4-associated factor 1 homolog 2 OS=Arabidopsis thaliana GN=CAF1-2 PE=2 SV=1 Back     alignment and function description
>sp|Q60809|CNOT7_MOUSE CCR4-NOT transcription complex subunit 7 OS=Mus musculus GN=Cnot7 PE=1 SV=1 Back     alignment and function description
>sp|Q3ZC01|CNOT7_BOVIN CCR4-NOT transcription complex subunit 7 OS=Bos taurus GN=CNOT7 PE=2 SV=1 Back     alignment and function description
>sp|Q9UIV1|CNOT7_HUMAN CCR4-NOT transcription complex subunit 7 OS=Homo sapiens GN=CNOT7 PE=1 SV=3 Back     alignment and function description
>sp|Q5ZJV9|CNOT7_CHICK CCR4-NOT transcription complex subunit 7 OS=Gallus gallus GN=CNOT7 PE=2 SV=1 Back     alignment and function description
>sp|Q08BM8|CNOT7_DANRE CCR4-NOT transcription complex subunit 7 OS=Danio rerio GN=cnot7 PE=2 SV=1 Back     alignment and function description
>sp|Q3KQ85|CNOT7_XENLA CCR4-NOT transcription complex subunit 7 OS=Xenopus laevis GN=cnot7 PE=2 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query274
255548772274 ccr4-associated factor, putative [Ricinu 0.989 0.989 0.908 1e-143
356507355273 PREDICTED: probable CCR4-associated fact 0.996 1.0 0.894 1e-142
356515030273 PREDICTED: probable CCR4-associated fact 0.996 1.0 0.890 1e-142
224092572277 predicted protein [Populus trichocarpa] 0.992 0.981 0.889 1e-141
224143289275 predicted protein [Populus trichocarpa] 0.992 0.989 0.875 1e-140
449441868274 PREDICTED: probable CCR4-associated fact 0.996 0.996 0.861 1e-137
357466049275 Ribonuclease CAF1 [Medicago truncatula] 0.981 0.978 0.871 1e-136
359475841273 PREDICTED: probable CCR4-associated fact 0.996 1.0 0.857 1e-136
147864589270 hypothetical protein VITISV_031504 [Viti 0.985 1.0 0.859 1e-135
217073063275 unknown [Medicago truncatula] 0.981 0.978 0.863 1e-134
>gi|255548772|ref|XP_002515442.1| ccr4-associated factor, putative [Ricinus communis] gi|223545386|gb|EEF46891.1| ccr4-associated factor, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  512 bits (1319), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 247/272 (90%), Positives = 260/272 (95%), Gaps = 1/272 (0%)

Query: 1   MSVLPKGGDEIQIREVWNDNLEEEFALIREIVDKYNYIAMDTEFPGVVLRPVGAFKNIND 60
           MS++PKG D I IREVWNDNLEEEF LIREIVD++NY+AMDTEFPGVVLRPVG FKNIND
Sbjct: 1   MSIIPKG-DSIHIREVWNDNLEEEFTLIREIVDQFNYVAMDTEFPGVVLRPVGNFKNIND 59

Query: 61  YNYQTLKDNVDMLKLIQLGLTFSDENGNLPTCGTDKFCIWQFNFREFNLIDDIFASDSVE 120
           YNYQTLKDNVDMLKLIQLGLTFSDENGNLPTCGTDKFCIWQFNFREFN+ +DIFASDS+E
Sbjct: 60  YNYQTLKDNVDMLKLIQLGLTFSDENGNLPTCGTDKFCIWQFNFREFNISEDIFASDSIE 119

Query: 121 LLHQCGIDFKKNNEKGIDVNRFGELLMSSGIVLNDVVRWVTFHSGYDFGYLLKLLTCRSL 180
           LL QCGIDFKKNNEKGIDVNRFGEL+MSSGIVLND V WVTFHSGYDFGYLLKLLTCRSL
Sbjct: 120 LLRQCGIDFKKNNEKGIDVNRFGELMMSSGIVLNDGVHWVTFHSGYDFGYLLKLLTCRSL 179

Query: 181 PDTQAGFFELINMYFPVVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLT 240
           PDTQAGFF+LIN YFP+VYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLT
Sbjct: 180 PDTQAGFFDLINTYFPMVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLT 239

Query: 241 SCTFRKLRENFFNGCTEKYAGVLYGLGVENDK 272
           SCTFRKLR+NFFNG TEKYAGVLYGLGVEN +
Sbjct: 240 SCTFRKLRDNFFNGSTEKYAGVLYGLGVENGQ 271

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|356507355|ref|XP_003522433.1| PREDICTED: probable CCR4-associated factor 1 homolog 7-like [Glycine max] Back     alignment and taxonomy information
>gi|356515030|ref|XP_003526204.1| PREDICTED: probable CCR4-associated factor 1 homolog 7-like [Glycine max] Back     alignment and taxonomy information
>gi|224092572|ref|XP_002309667.1| predicted protein [Populus trichocarpa] gi|222855643|gb|EEE93190.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224143289|ref|XP_002324905.1| predicted protein [Populus trichocarpa] gi|222866339|gb|EEF03470.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|449441868|ref|XP_004138704.1| PREDICTED: probable CCR4-associated factor 1 homolog 7-like isoform 1 [Cucumis sativus] gi|449499228|ref|XP_004160759.1| PREDICTED: probable CCR4-associated factor 1 homolog 7-like isoform 1 [Cucumis sativus] Back     alignment and taxonomy information
>gi|357466049|ref|XP_003603309.1| Ribonuclease CAF1 [Medicago truncatula] gi|217072774|gb|ACJ84747.1| unknown [Medicago truncatula] gi|355492357|gb|AES73560.1| Ribonuclease CAF1 [Medicago truncatula] gi|388517835|gb|AFK46979.1| unknown [Medicago truncatula] Back     alignment and taxonomy information
>gi|359475841|ref|XP_003631762.1| PREDICTED: probable CCR4-associated factor 1 homolog 7-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|147864589|emb|CAN79806.1| hypothetical protein VITISV_031504 [Vitis vinifera] Back     alignment and taxonomy information
>gi|217073063|gb|ACJ84891.1| unknown [Medicago truncatula] 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 ?
Query274
TAIR|locus:2045512275 AT2G32070 [Arabidopsis thalian 0.981 0.978 0.778 4.5e-114
TAIR|locus:2183765277 AT5G10960 [Arabidopsis thalian 0.967 0.956 0.773 1.6e-111
TAIR|locus:2200532286 AT1G15920 [Arabidopsis thalian 0.941 0.902 0.640 1.6e-88
DICTYBASE|DDB_G0284217367 DDB_G0284217 "CAF1 family prot 0.934 0.697 0.577 8.7e-79
UNIPROTKB|Q5ZJV9285 CNOT7 "CCR4-NOT transcription 0.916 0.880 0.569 3.1e-76
UNIPROTKB|Q3ZC01285 CNOT7 "CCR4-NOT transcription 0.916 0.880 0.569 3.1e-76
UNIPROTKB|E2RMU2285 CNOT7 "Uncharacterized protein 0.916 0.880 0.569 3.1e-76
UNIPROTKB|Q9UIV1285 CNOT7 "CCR4-NOT transcription 0.916 0.880 0.569 3.1e-76
MGI|MGI:1298230285 Cnot7 "CCR4-NOT transcription 0.916 0.880 0.569 3.1e-76
DICTYBASE|DDB_G0285269309 DDB_G0285269 "CAF1 family prot 0.930 0.825 0.561 3.9e-76
TAIR|locus:2045512 AT2G32070 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1125 (401.1 bits), Expect = 4.5e-114, P = 4.5e-114
 Identities = 211/271 (77%), Positives = 238/271 (87%)

Query:     1 MSVLPKGGDEIQIREVWNDNLEEEFALIREIVDKYNYIAMDTEFPGVVLRPVGAFKNIND 60
             MS+  K  D IQIREVWNDNLE E ALIRE+VD + ++AMDTEFPG+V RPVG FK   +
Sbjct:     1 MSLFLKD-DSIQIREVWNDNLESEMALIREVVDDFPFVAMDTEFPGIVCRPVGTFKTNTE 59

Query:    61 YNYQTLKDNVDMLKLIQLGLTFSDENGNLPTCGTD-KFCIWQFNFREFNLIDDIFASDSV 119
             Y+Y+TLK NV++LK+IQLGLTFSDE GNLPTCGTD K+CIWQFNFREF+L  DI+A+DS+
Sbjct:    60 YHYETLKTNVNILKMIQLGLTFSDEKGNLPTCGTDNKYCIWQFNFREFDLESDIYATDSI 119

Query:   120 ELLHQCGIDFKKNNEKGIDVNRFGELLMSSGIVLNDVVRWVTFHSGYDFGYLLKLLTCRS 179
             ELL Q GIDF KNNE GID  RF ELLMSSGIVLN+ V WVTFHSGYDFGYLLKLLTC++
Sbjct:   120 ELLRQSGIDFVKNNEFGIDSKRFAELLMSSGIVLNENVHWVTFHSGYDFGYLLKLLTCQN 179

Query:   180 LPDTQAGFFELINMYFPVVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLL 239
             LP+TQ GFFE+I++YFP VYDIKHLMKFCNSLHGGLNKLAELL+VERVGICHQAGSDSLL
Sbjct:   180 LPETQTGFFEMISVYFPRVYDIKHLMKFCNSLHGGLNKLAELLDVERVGICHQAGSDSLL 239

Query:   240 TSCTFRKLRENFFNGCTEKYAGVLYGLGVEN 270
             TSCTFRKL+ENFF G  EKY+GVLYGLGVEN
Sbjct:   240 TSCTFRKLQENFFIGSMEKYSGVLYGLGVEN 270
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:0006499 "N-terminal protein myristoylation" evidence=RCA
TAIR|locus:2183765 AT5G10960 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2200532 AT1G15920 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0284217 DDB_G0284217 "CAF1 family protein" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
UNIPROTKB|Q5ZJV9 CNOT7 "CCR4-NOT transcription complex subunit 7" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|Q3ZC01 CNOT7 "CCR4-NOT transcription complex subunit 7" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|E2RMU2 CNOT7 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|Q9UIV1 CNOT7 "CCR4-NOT transcription complex subunit 7" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
MGI|MGI:1298230 Cnot7 "CCR4-NOT transcription complex, subunit 7" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0285269 DDB_G0285269 "CAF1 family protein" [Dictyostelium discoideum (taxid:44689)] 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) ?
Q60809CNOT7_MOUSENo assigned EC number0.56970.91600.8807yesno
Q9SAI2CAF1F_ARATH3, ., 1, ., 1, 3, ., 40.78240.95620.9562nono
Q3KQ85CNOT7_XENLANo assigned EC number0.55810.91600.8807N/Ano
Q17345CNOT7_CAEELNo assigned EC number0.46240.92330.8161yesno
Q9LEU4CAF1J_ARATH3, ., 1, ., 1, 3, ., 40.77060.97080.9602nono
Q5ZJV9CNOT7_CHICKNo assigned EC number0.56970.91600.8807yesno
Q3ZC01CNOT7_BOVINNo assigned EC number0.56970.91600.8807yesno
Q08BM8CNOT7_DANRENo assigned EC number0.56970.91600.8776yesno
O74856CAF1_SCHPO3, ., 1, ., 1, 3, ., 40.50390.91240.7462yesno
A4II96CNOT7_XENTRNo assigned EC number0.55420.91600.8807yesno
Q9SKZ2CAF1G_ARATH3, ., 1, ., 1, 3, ., 40.78490.96350.96yesno
Q9UIV1CNOT7_HUMANNo assigned EC number0.56970.91600.8807yesno

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

Your Input:
grail3.0013046101
hypothetical protein (277 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 ?
Query274
pfam04857235 pfam04857, CAF1, CAF1 family ribonuclease 1e-114
COG5228299 COG5228, POP2, mRNA deadenylase subunit [RNA proce 4e-99
>gnl|CDD|147159 pfam04857, CAF1, CAF1 family ribonuclease Back     alignment and domain information 
 Score =  326 bits (838), Expect = e-114
 Identities = 134/239 (56%), Positives = 160/239 (66%), Gaps = 10/239 (4%)

Query: 14  REVWNDNLEEEFALIREIVDKYNYIAMDTEFPGVVLRPVGAFKNINDYNYQTLKDNVDML 73
           REVW  N  EEF  IR+ +D Y++IA+DTEFPGVV RP+G+F++ +DY YQ L+ NVD L
Sbjct: 1   REVWRSNFHEEFKEIRQAIDSYDFIAIDTEFPGVVARPIGSFRSTSDYRYQALRKNVDRL 60

Query: 74  KLIQLGLTFSDENGNLPTCGTDKFCIWQFNFREFNLIDDIFASDSVELLHQCGIDFKKNN 133
           K+IQLGLT  DE GNLP      +  WQFNF  FNL +D +A  S+E L + G DF K+ 
Sbjct: 61  KIIQLGLTLFDEKGNLPDS----YYTWQFNFSLFNLEEDFYAPSSIEFLAKQGFDFNKHR 116

Query: 134 EKGIDVNRFGELLMSSGIVLNDV-VRWVTFHSGYDFGYLLKLLTCRSLPDTQAGFFELIN 192
            +GI   RF ELL SSG+ LN   V WVTFH  YDFGYLLKLLT   LP+T   F EL+ 
Sbjct: 117 REGIPYLRFAELLGSSGLFLNISSVTWVTFHGLYDFGYLLKLLTGGPLPETLDDFLELLR 176

Query: 193 MYFPVVYDIKHLMKFCNSLHG----GLNKLAELLEVER-VGICHQAGSDSLLTSCTFRK 246
             FP VYD K+L KFC  L G    GL +LA+LL V R VG  HQAGSDSLLT+  F K
Sbjct: 177 ELFPRVYDTKYLAKFCFELDGGSNGGLQELADLLGVNRRVGRLHQAGSDSLLTALVFFK 235

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|227553 COG5228, POP2, mRNA deadenylase subunit [RNA processing and modification] Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 274
KOG0304239 consensus mRNA deadenylase subunit [RNA processing 100.0
COG5228299 POP2 mRNA deadenylase subunit [RNA processing and 100.0
PF04857262 CAF1: CAF1 family ribonuclease; InterPro: IPR00694 100.0
KOG1990 564 consensus Poly(A)-specific exoribonuclease PARN [R 99.28
PRK07942232 DNA polymerase III subunit epsilon; Provisional 99.0
smart00479169 EXOIII exonuclease domain in DNA-polymerase alpha 98.96
PRK05168211 ribonuclease T; Provisional 98.71
cd06131167 DNA_pol_III_epsilon_Ecoli_like DEDDh 3'-5' exonucl 98.69
cd06133176 ERI-1_3'hExo_like DEDDh 3'-5' exonuclease domain o 98.69
PRK09145202 DNA polymerase III subunit epsilon; Validated 98.68
cd06134189 RNaseT DEDDh 3'-5' exonuclease domain of RNase T. 98.65
PRK05711240 DNA polymerase III subunit epsilon; Provisional 98.57
PRK07748207 sporulation inhibitor KapD; Provisional 98.55
cd06130156 DNA_pol_III_epsilon_like an uncharacterized bacter 98.53
PRK06195 309 DNA polymerase III subunit epsilon; Validated 98.44
PRK06807 313 DNA polymerase III subunit epsilon; Validated 98.43
PRK06063 313 DNA polymerase III subunit epsilon; Provisional 98.4
PRK07247195 DNA polymerase III subunit epsilon; Validated 98.39
PRK06310250 DNA polymerase III subunit epsilon; Validated 98.37
PRK07740244 hypothetical protein; Provisional 98.35
TIGR00573217 dnaq exonuclease, DNA polymerase III, epsilon subu 98.34
TIGR01406225 dnaQ_proteo DNA polymerase III, epsilon subunit, P 98.32
PRK09146239 DNA polymerase III subunit epsilon; Validated 98.29
TIGR01298200 RNaseT ribonuclease T. in gamma-subdivision Proteo 98.26
cd06127159 DEDDh DEDDh 3'-5' exonuclease domain family. DEDDh 98.22
cd06136177 TREX1_2 DEDDh 3'-5' exonuclease domain of three pr 98.21
PRK08517257 DNA polymerase III subunit epsilon; Provisional 98.2
PF00929164 RNase_T: Exonuclease; InterPro: IPR013520 This ent 98.19
PRK08074 928 bifunctional ATP-dependent DNA helicase/DNA polyme 98.16
PRK06722281 exonuclease; Provisional 98.14
PRK07246 820 bifunctional ATP-dependent DNA helicase/DNA polyme 98.12
TIGR01405 1213 polC_Gram_pos DNA polymerase III, alpha chain, Gra 98.11
PRK07883 557 hypothetical protein; Validated 98.02
PRK07983219 exodeoxyribonuclease X; Provisional 97.99
TIGR01407 850 dinG_rel DnaQ family exonuclease/DinG family helic 97.85
cd06138183 ExoI_N N-terminal DEDDh 3'-5' exonuclease domain o 97.84
cd06144152 REX4_like DEDDh 3'-5' exonuclease domain of RNA ex 97.75
PTZ00315 582 2'-phosphotransferase; Provisional 97.73
PRK09182294 DNA polymerase III subunit epsilon; Validated 97.66
PRK06309232 DNA polymerase III subunit epsilon; Validated 97.65
PRK05601 377 DNA polymerase III subunit epsilon; Validated 97.6
PRK11779 476 sbcB exonuclease I; Provisional 97.59
PRK00448 1437 polC DNA polymerase III PolC; Validated 97.58
COG0847243 DnaQ DNA polymerase III, epsilon subunit and relat 97.56
cd06145150 REX1_like DEDDh 3'-5' exonuclease domain of RNA ex 97.25
cd06137161 DEDDh_RNase DEDDh 3'-5' exonuclease domain of the 97.22
PRK05359181 oligoribonuclease; Provisional 96.92
cd06149157 ISG20 DEDDh 3'-5' exonuclease domain of Interferon 96.85
PF01612176 DNA_pol_A_exo1: 3'-5' exonuclease; InterPro: IPR00 95.67
PRK05755 880 DNA polymerase I; Provisional 95.42
cd06141170 WRN_exo DEDDy 3'-5' exonuclease domain of WRN and 95.03
cd06146193 mut-7_like_exo DEDDy 3'-5' exonuclease domain of C 94.91
COG0349 361 Rnd Ribonuclease D [Translation, ribosomal structu 94.65
PRK10829 373 ribonuclease D; Provisional 93.56
cd06135173 Orn DEDDh 3'-5' exonuclease domain of oligoribonuc 93.47
cd06129161 RNaseD_like DEDDy 3'-5' exonuclease domain of RNas 92.79
COG2176 1444 PolC DNA polymerase III, alpha subunit (gram-posit 82.57
PF10108209 DNA_pol_B_exo2: Predicted 3'-5' exonuclease relate 81.26
cd06139193 DNA_polA_I_Ecoli_like_exo DEDDy 3'-5' exonuclease 80.59
>KOG0304 consensus mRNA deadenylase subunit [RNA processing and modification] Back     alignment and domain information 
Probab=100.00  E-value=9.6e-89  Score=589.24  Aligned_cols=237  Identities=66%  Similarity=1.132  Sum_probs=230.7

Q ss_pred             eEEEcCcccHHHHHHHHHHHhhhCCeeEEeccccccccCCCCCCCCChhHHHHHHHhcccccceeeeeeeeecCCCCCCC
Q 023967           12 QIREVWNDNLEEEFALIREIVDKYNYIAMDTEFPGVVLRPVGAFKNINDYNYQTLKDNVDMLKLIQLGLTFSDENGNLPT   91 (274)
Q Consensus        12 ~i~dVw~~Nf~~el~~I~~~i~~~~fIAiDtEf~G~~~~~~~~~~~t~e~~Y~~lr~nv~~~~iiQlGlt~~~~~g~~p~   91 (274)
                      .|||||++|+++||..||++|++||||||||||||++.+|.+.++++.+++||.||+|||.+++||+|||+++++|++|.
T Consensus         1 ~ireVW~~Nl~~Em~~Ir~~v~~y~~IamDTEFPGvv~rp~~~f~s~~d~~Y~~lk~NVd~lklIQlGlTlsd~~Gn~p~   80 (239)
T KOG0304|consen    1 FIREVWRSNLEEEMALIRECVKDYPYIAMDTEFPGVVARPIGTFRSSDDYHYQTLKCNVDNLKLIQLGLTLSDEKGNLPD   80 (239)
T ss_pred             ChhHHHHHhHHHHHHHHHHHHHhCCeeEecCcCCceeeecCccccCChHHHHHHHHhchhhhhhhheeeeeeccCCCCCC
Confidence            37999999999999999999999999999999999999999999999999999999999999999999999999999997


Q ss_pred             CCCCCeeeEEEeeeccCCCCccchhhhHHHHHHcCCCccchhhcCCChhHHHHHHHHhcccccCceeEEeeccchhHHHH
Q 023967           92 CGTDKFCIWQFNFREFNLIDDIFASDSVELLHQCGIDFKKNNEKGIDVNRFGELLMSSGIVLNDVVRWVTFHSGYDFGYL  171 (274)
Q Consensus        92 ~~~~~~~~~~FNF~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wi~f~g~yD~~yL  171 (274)
                      .|   .++|||||.+|+..+|+++++||+||+++|+||.|+.+.||+..+|+|+|++||++++++|+||||||+||||||
T Consensus        81 ~g---~~tWqfNF~dF~~~~D~~a~~SIElLr~~Gidf~K~~e~GI~~~~F~ellm~sg~v~~~~V~WvTFhs~YDfgYL  157 (239)
T KOG0304|consen   81 CG---TDTWQFNFSDFNLEKDMYAQDSIELLRRSGIDFEKHREEGIDIEEFAELLMTSGLVLDENVTWVTFHSGYDFGYL  157 (239)
T ss_pred             CC---CceeEEecccCCchhhccchhhHHHHHHcCcCHHHHHHcCCCHHHHHHHHHHhhhhccCceEEEEeeccchHHHH
Confidence            65   469999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhCCCCCCCChHHHHHHHHccCCccccchhhhHhhcc--ccccHHHHHHHcCCccCCCCcccchhHHHHHHHHHHHHH
Q 023967          172 LKLLTCRSLPDTQAGFFELINMYFPVVYDIKHLMKFCNS--LHGGLNKLAELLEVERVGICHQAGSDSLLTSCTFRKLRE  249 (274)
Q Consensus       172 lk~l~~~~LP~~~~~F~~~l~~~FP~iyDtK~l~~~~~~--l~~~L~~la~~L~v~r~g~~HqAGsDs~lT~~~F~~l~~  249 (274)
                      +|+||+++||++.++|.+.++++||.+||+|||++.|.+  +++||++||+.|+++|+|++|||||||+||+.+|+||++
T Consensus       158 lK~Lt~~~LP~~~~eF~~~v~~~fp~vYDiK~l~~~c~~~~l~~GL~~lA~~L~~~RvG~~HqAGSDSlLT~~~F~kl~~  237 (239)
T KOG0304|consen  158 LKILTGKPLPETEEEFFEIVRQLFPFVYDVKYLMKFCEGLSLKGGLQRLADLLGLKRVGIAHQAGSDSLLTARVFFKLKE  237 (239)
T ss_pred             HHHHcCCCCcchHHHHHHHHHHHcchhhhHHHHHHhhhhhhhhcCHHHHHHHhCCCeeecccccCcHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999955  899999999999999999999999999999999999998


Q ss_pred             Hh
Q 023967          250 NF  251 (274)
Q Consensus       250 ~~  251 (274)
                      .|
T Consensus       238 ~f  239 (239)
T KOG0304|consen  238 LF  239 (239)
T ss_pred             cC
Confidence            64

>COG5228 POP2 mRNA deadenylase subunit [RNA processing and modification] Back     alignment and domain information
>PF04857 CAF1: CAF1 family ribonuclease; InterPro: IPR006941 CAF1 is an RNase of the DEDD superfamily, and a subunit of the Ccr4-Not complex that mediates 3' to 5' mRNA deadenylation Back     alignment and domain information
>KOG1990 consensus Poly(A)-specific exoribonuclease PARN [Replication, recombination and repair] Back     alignment and domain information
>PRK07942 DNA polymerase III subunit epsilon; Provisional 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
>PRK05168 ribonuclease T; 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
>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
>PRK09145 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>cd06134 RNaseT DEDDh 3'-5' exonuclease domain of RNase T Back     alignment and domain information
>PRK05711 DNA polymerase III subunit epsilon; Provisional Back     alignment and domain information
>PRK07748 sporulation inhibitor KapD; Provisional Back     alignment and domain information
>cd06130 DNA_pol_III_epsilon_like an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III Back     alignment and domain information
>PRK06195 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK06807 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK06063 DNA polymerase III subunit epsilon; Provisional 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
>PRK07740 hypothetical protein; Provisional Back     alignment and domain information
>TIGR00573 dnaq exonuclease, DNA polymerase III, epsilon subunit family Back     alignment and domain information
>TIGR01406 dnaQ_proteo DNA polymerase III, epsilon subunit, Proteobacterial Back     alignment and domain information
>PRK09146 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>TIGR01298 RNaseT ribonuclease T Back     alignment and domain information
>cd06127 DEDDh DEDDh 3'-5' exonuclease domain family 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
>PRK08517 DNA polymerase III subunit epsilon; 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
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK06722 exonuclease; Provisional Back     alignment and domain information
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>TIGR01405 polC_Gram_pos DNA polymerase III, alpha chain, Gram-positive type Back     alignment and domain information
>PRK07883 hypothetical protein; Validated Back     alignment and domain information
>PRK07983 exodeoxyribonuclease X; Provisional Back     alignment and domain information
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative 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
>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
>PTZ00315 2'-phosphotransferase; Provisional Back     alignment and domain information
>PRK09182 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK06309 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK05601 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK11779 sbcB exonuclease I; Provisional Back     alignment and domain information
>PRK00448 polC DNA polymerase III PolC; Validated Back     alignment and domain information
>COG0847 DnaQ DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair] Back     alignment and domain information
>cd06145 REX1_like DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins Back     alignment and domain information
>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
>PRK05359 oligoribonuclease; 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
>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
>PRK05755 DNA polymerase I; Provisional Back     alignment and domain information
>cd06141 WRN_exo DEDDy 3'-5' exonuclease domain of WRN and similar proteins Back     alignment and domain information
>cd06146 mut-7_like_exo DEDDy 3'-5' exonuclease domain of Caenorhabditis elegans mut-7 and similar proteins Back     alignment and domain information
>COG0349 Rnd Ribonuclease D [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PRK10829 ribonuclease D; Provisional Back     alignment and domain information
>cd06135 Orn DEDDh 3'-5' exonuclease domain of oligoribonuclease 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
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair] Back     alignment and domain information
>PF10108 DNA_pol_B_exo2: Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; InterPro: IPR019288 This entry represents various prokaryotic 3'-5' exonucleases and hypothetical proteins Back     alignment and domain information
>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

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query274
4gmj_B285 Structure Of Human Not1 Mif4g Domain Co-Crystallize 2e-81
2d5r_A252 Crystal Structure Of A Tob-Hcaf1 Complex Length = 2 3e-80
2p51_A333 Crystal Structure Of The S. Pombe Pop2p Deadenylati 1e-71
4b8c_A288 Nuclease Module Of The Yeast Ccr4-Not Complex Lengt 2e-51
1uoc_A289 X-Ray Structure Of The Rnase Domain Of The Yeast Po 2e-51
4b8a_B286 Structure Of Yeast Not1 Mif4g Domain Co-Crystallize 2e-51
>pdb|4GMJ|B Chain B, Structure Of Human Not1 Mif4g Domain Co-Crystallized With Caf1 Length = 285 Back     alignment and structure 
Iteration: 1

 Score =  298 bits (762), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 147/258 (56%), Positives = 193/258 (74%), Gaps = 7/258 (2%)
Query: 12  QIREVWNDNLEEEFALIREIVDKYNYIAMDTEFPGVVLRPVGAFKNINDYNYQTLKDNVD 71
           +I EVW  NL+EE   IR+++ KYNY+AMDTEFPGVV RP+G F++  DY YQ L+ NVD
Sbjct: 11  RICEVWACNLDEEMKKIRQVIRKYNYVAMDTEFPGVVARPIGEFRSNADYQYQLLRCNVD 70
Query: 72  MLKLIQLGLTFSDENGNLPTCGTDKFCIWQFNFREFNLIDDIFASDSVELLHQCGIDFKK 131
           +LK+IQLGLTF +E G  P  GT     WQFNF+ FNL +D++A DS+ELL   GI FKK
Sbjct: 71  LLKIIQLGLTFMNEQGEYPP-GTS---TWQFNFK-FNLTEDMYAQDSIELLTTSGIQFKK 125
Query: 132 NNEKGIDVNRFGELLMSSGIVLNDVVRWVTFHSGYDFGYLLKLLTCRSLPDTQAGFFELI 191
           + E+GI+   F ELLM+SG+VL + V+W++FHSGYDFGYL+K+LT  +LP+ +  FFE++
Sbjct: 126 HEEEGIETQYFAELLMTSGVVLCEGVKWLSFHSGYDFGYLIKILTNSNLPEEELDFFEIL 185
Query: 192 NMYFPVVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTSCTFRKLRENF 251
            ++FPV+YD+K+LMK C +L GGL ++AE LE+ER+G  HQAGSDSLLT   F K+RE F
Sbjct: 186 RLFFPVIYDVKYLMKSCKNLKGGLQEVAEQLELERIGPQHQAGSDSLLTGMAFFKMREMF 245
Query: 252 FNGCTE--KYAGVLYGLG 267
           F    +  KY G LYGLG
Sbjct: 246 FEDHIDDAKYCGHLYGLG 263
>pdb|2D5R|A Chain A, Crystal Structure Of A Tob-Hcaf1 Complex Length = 252 Back     alignment and structure
>pdb|2P51|A Chain A, Crystal Structure Of The S. Pombe Pop2p Deadenylation Subunit Length = 333 Back     alignment and structure
>pdb|4B8C|A Chain A, Nuclease Module Of The Yeast Ccr4-Not Complex Length = 288 Back     alignment and structure
>pdb|1UOC|A Chain A, X-Ray Structure Of The Rnase Domain Of The Yeast Pop2 Protein Length = 289 Back     alignment and structure
>pdb|4B8A|B Chain B, Structure Of Yeast Not1 Mif4g Domain Co-Crystallized With Caf1 Length = 286 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 ?
Query274
2p51_A333 SPCC18.06C protein; DEDD nuclease fold, hydrolase, 1e-128
1uoc_A289 POP2; hydrolase, DEDD nuclease, mRNA degradation, 1e-122
2d5r_A252 CCR4-NOT transcription complex subunit 7; poly(A) 1e-117
2a1r_A 430 Poly(A)-specific ribonuclease PARN; DEDD, nuclease 3e-29
2a1r_A430 Poly(A)-specific ribonuclease PARN; DEDD, nuclease 3e-17
3d45_A 507 Poly(A)-specific ribonuclease PARN; CAP analogue, 8e-29
3d45_A507 Poly(A)-specific ribonuclease PARN; CAP analogue, 5e-14
>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
 Score =  366 bits (940), Expect = e-128
 Identities = 130/271 (47%), Positives = 180/271 (66%), Gaps = 6/271 (2%)

Query: 1   MSVLPKGGDEIQIREVWNDNLEEEFALIREIVDKYNYIAMDTEFPGVVLRPVGAFKNIND 60
           + V         IR+VW+ NL++E  LI  ++++Y  ++MDTEFPGVV RP+G FK+ +D
Sbjct: 11  LGVDGISSQISPIRDVWSTNLQQEMNLIMSLIERYPVVSMDTEFPGVVARPLGVFKSSDD 70

Query: 61  YNYQTLKDNVDMLKLIQLGLTFSDENGNLPTCGTDKFCIWQFNFREFNLIDDIFASDSVE 120
           Y+YQTL+ NVD LK+IQ+GL  SDE GN P       C WQFNF  FNL DD++A +S+E
Sbjct: 71  YHYQTLRANVDSLKIIQIGLALSDEEGNAPVEA----CTWQFNFT-FNLQDDMYAPESIE 125

Query: 121 LLHQCGIDFKKNNEKGIDVNRFGELLMSSGIVLNDVVRWVTFHSGYDFGYLLKLLTCRSL 180
           LL + GIDFKK+ E GI+   F ELL+ SG+VL + V W+TFHSGYDF YLLK +T   L
Sbjct: 126 LLTKSGIDFKKHQEVGIEPADFAELLIGSGLVLQEEVTWITFHSGYDFAYLLKAMTQIPL 185

Query: 181 PDTQAGFFELINMYFPVVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLT 240
           P     F++++ +YFP  YDIK++MK   +   GL  +A+ L++ R+G  HQAGSD+LLT
Sbjct: 186 PAEYEEFYKILCIYFPKNYDIKYIMKSVLNNSKGLQDIADDLQIHRIGPQHQAGSDALLT 245

Query: 241 SCTFRKLRENFFNGCT-EKYAGVLYGLGVEN 270
           +  F ++R  +F+G    +    LYGLG   
Sbjct: 246 ARIFFEIRSRYFDGSIDSRMLNQLYGLGSTG 276
>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
>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
>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
>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
>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
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query274
4gmj_B285 CCR4-NOT transcription complex subunit 7; mRNA dec 100.0
2d5r_A252 CCR4-NOT transcription complex subunit 7; poly(A) 100.0
1uoc_A289 POP2; hydrolase, DEDD nuclease, mRNA degradation, 100.0
2p51_A333 SPCC18.06C protein; DEDD nuclease fold, hydrolase, 100.0
3d45_A507 Poly(A)-specific ribonuclease PARN; CAP analogue, 100.0
2a1r_A430 Poly(A)-specific ribonuclease PARN; DEDD, nuclease 100.0
3v9w_A235 Ribonuclease T; DEDD nucleases family, EXO-nucleas 98.88
1w0h_A204 3'-5' exonuclease ERI1; nuclease domain, hydrolase 98.8
2f96_A224 Ribonuclease T; RNAse, RNT, RNAse T, tRNA hydrolas 98.76
2gui_A194 DNA polymerase III epsilon subunit; DNA polymerase 98.68
1zbh_A299 3'-5' exonuclease ERI1; histone mRNA 3'-END-specif 98.65
2p1j_A186 POLIII, DNA polymerase III POLC-type; structural g 98.61
2xri_A224 ERI1 exoribonuclease 3; hydrolase, metal binding; 98.58
3cg7_A308 CRN-4, cell death-related nuclease 4; hydrolase, a 98.56
3mxm_B242 Three prime repair exonuclease 1; RNAse H-like fol 98.48
1zbu_A349 ERI-1 homolog, 3'-5' exonuclease ERI1; hydrolase; 98.46
1y97_A238 Three prime repair exonuclease 2; TREX2, hydrolase 98.43
1wlj_A189 Interferon stimulated gene 20KDA; exoribonuclease, 98.31
3u3y_B314 Three prime repair exonuclease 1; RNAse H fold, 3' 98.28
2qxf_A 482 Exodeoxyribonuclease I; alpha-beta domain, DNAQ su 98.25
2igi_A180 Oligoribonuclease; RNAse, exoribonuclease, exonucl 98.04
2gbz_A194 Oligoribonuclease; ORN, deddh, structural genomics 97.65
3tr8_A186 Oligoribonuclease; transcription, hydrolase; 2.50A 97.12
2kfn_A 605 Klenow fragment of DNA polymerase I; complex (poly 96.15
>4gmj_B CCR4-NOT transcription complex subunit 7; mRNA decay, deadenylase, RNA bindin; HET: GOL; 2.70A {Homo sapiens} Back     alignment and structure
Probab=100.00  E-value=1.1e-91  Score=642.05  Aligned_cols=264  Identities=55%  Similarity=1.004  Sum_probs=247.6

Q ss_pred             CCCCCCCCCcceEEEcCcccHHHHHHHHHHHhhhCCeeEEeccccccccCCCCCCCCChhHHHHHHHhcccccceeeeee
Q 023967            1 MSVLPKGGDEIQIREVWNDNLEEEFALIREIVDKYNYIAMDTEFPGVVLRPVGAFKNINDYNYQTLKDNVDMLKLIQLGL   80 (274)
Q Consensus         1 ~~~~~~~~~~~~i~dVw~~Nf~~el~~I~~~i~~~~fIAiDtEf~G~~~~~~~~~~~t~e~~Y~~lr~nv~~~~iiQlGl   80 (274)
                      ||+++. ....+|||||++||++||+.|+++|++|+||||||||||++.+|.+.+++++|+||+++|+|||.+++||+||
T Consensus         1 ~p~~~~-~~~~~IreVw~~Nl~ee~~~I~~~i~~~~fVAiDtEFpGvv~rp~~~~~~t~d~~Y~~lr~nvd~l~iIQlGL   79 (285)
T 4gmj_B            1 MPAATV-DHSQRICEVWACNLDEEMKKIRQVIRKYNYVAMDTEFPGVVARPIGEFRSNADYQYQLLRCNVDLLKIIQLGL   79 (285)
T ss_dssp             ----------CCEEEECHHHHHHHHHHHHHHHHHCCEEEEEEECCCCCCCCTTCCTTSTTHHHHHHHHHHTTSCCCEEEE
T ss_pred             CCCCcC-CCCCeEEEechhHHHHHHHHHHHHHhcCCEEEEEEEecCccCCCCCccCCCHHHHHHHHHHHHHhhcceeEEE
Confidence            888886 4577899999999999999999999999999999999999999998899999999999999999999999999


Q ss_pred             eeecCCCCCCCCCCCCeeeEEEeeeccCCCCccchhhhHHHHHHcCCCccchhhcCCChhHHHHHHHHhcccccCceeEE
Q 023967           81 TFSDENGNLPTCGTDKFCIWQFNFREFNLIDDIFASDSVELLHQCGIDFKKNNEKGIDVNRFGELLMSSGIVLNDVVRWV  160 (274)
Q Consensus        81 t~~~~~g~~p~~~~~~~~~~~FNF~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wi  160 (274)
                      |+++++|+.|.    .+++|||||+ |+..+|+|+++||+||++|||||||++++||++.+|+|++++||++++++++||
T Consensus        80 t~f~~~g~~p~----~~~~wqFNF~-f~~~~d~~~~~SI~fL~~~G~DF~k~~~~GI~~~~f~ell~~sglvl~~~v~Wv  154 (285)
T 4gmj_B           80 TFMNEQGEYPP----GTSTWQFNFK-FNLTEDMYAQDSIELLTTSGIQFKKHEEEGIETQYFAELLMTSGVVLCEGVKWL  154 (285)
T ss_dssp             EEECTTSCCCS----SCCEEEEEBC-CCTTTSCCCHHHHHHHHHHTCCHHHHHHHCBCHHHHHHHHHTSSSSSCTTCEEE
T ss_pred             EeeccCCCcCC----CeeEEEEEEE-eccccccccHHHHHHHHHcCCCHHHHHHcCCCHHHHHHHHHHhHHHhcCCCceE
Confidence            99999999885    5899999999 999999999999999999999999999999999999999999999999999999


Q ss_pred             eeccchhHHHHHHHhCCCCCCCChHHHHHHHHccCCccccchhhhHhhccccccHHHHHHHcCCccCCCCcccchhHHHH
Q 023967          161 TFHSGYDFGYLLKLLTCRSLPDTQAGFFELINMYFPVVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLT  240 (274)
Q Consensus       161 ~f~g~yD~~yLlk~l~~~~LP~~~~~F~~~l~~~FP~iyDtK~l~~~~~~l~~~L~~la~~L~v~r~g~~HqAGsDs~lT  240 (274)
                      +|||+|||+||+|+|++++||+++.+|+++++.+||.|||||||++.|.++++||++||+.|+|+|+|++||||||||||
T Consensus       155 tfH~~yDf~yL~k~lt~~~LP~~~~eF~~~l~~~FP~vYD~K~l~~~~~~l~ggL~~lA~~L~v~r~g~~HqAGsDSllT  234 (285)
T 4gmj_B          155 SFHSGYDFGYLIKILTNSNLPEEELDFFEILRLFFPVIYDVKYLMKSCKNLKGGLQEVAEQLELERIGPQHQAGSDSLLT  234 (285)
T ss_dssp             ESSCHHHHHHHHHHHHTSCCCSSHHHHHHHHHHHCSCEEEHHHHGGGSTTCCSCHHHHHHHTTCCCCSCTTSHHHHHHHH
T ss_pred             EecchhhHHHHHHHHhCCCCCCCHHHHHHHHHHHCchhhhHHHHHHhccccCChHHHHHHhCCCCCCCCCCcchhHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCC--ccccccEEEecCCCC
Q 023967          241 SCTFRKLRENFFNGC--TEKYAGVLYGLGVEN  270 (274)
Q Consensus       241 ~~~F~~l~~~~~~~~--~~~~~g~i~Gl~~~~  270 (274)
                      ++||+||+++|+++.  ..+|+|+|||||...
T Consensus       235 ~~~F~kl~~~~f~~~~~~~~~~g~l~Glg~~~  266 (285)
T 4gmj_B          235 GMAFFKMREMFFEDHIDDAKYCGHLYGLGSGS  266 (285)
T ss_dssp             HHHHHHHHHHHHTTCCCHHHHTTCCTTSSTTC
T ss_pred             HHHHHHHHHHHhcCCcchHHhCCEEeccCCCC
Confidence            999999999999764  468999999999753
>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
>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
>2p51_A SPCC18.06C protein; DEDD nuclease fold, hydrolase, gene regulation; 1.40A {Schizosaccharomyces pombe} PDB: 3g0z_A 3g10_A Back     alignment and structure
>3d45_A Poly(A)-specific ribonuclease PARN; CAP analogue, exonuclease, hydrolase, magnesium, metal nonsense-mediated mRNA decay, nucleus; HET: 7MG GDP; 3.00A {Mus musculus} Back     alignment and structure
>2a1r_A Poly(A)-specific ribonuclease PARN; DEDD, nuclease domain, hydrolase-RNA complex; 2.60A {Homo sapiens} PDB: 2a1s_A Back     alignment and structure
>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
>1w0h_A 3'-5' exonuclease ERI1; nuclease domain, hydrolase; HET: AMP; 1.59A {Homo sapiens} SCOP: c.55.3.5 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
>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
>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
>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
>2xri_A ERI1 exoribonuclease 3; hydrolase, metal binding; 2.15A {Homo sapiens} Back     alignment and structure
>3cg7_A CRN-4, cell death-related nuclease 4; hydrolase, apoptosis, 3'-5' exonuclease, deddh; 2.50A {Caenorhabditis elegans} PDB: 3cm5_A 3cm6_A Back     alignment and structure
>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
>1zbu_A ERI-1 homolog, 3'-5' exonuclease ERI1; hydrolase; HET: AMP; 3.00A {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
>1wlj_A Interferon stimulated gene 20KDA; exoribonuclease, hydrolase; HET: U5P; 1.90A {Homo sapiens} SCOP: c.55.3.5 Back     alignment and structure
>3u3y_B Three prime repair exonuclease 1; RNAse H fold, 3' exonuclease, homodimer, hydrolase-DNA compl; HET: BU1; 2.28A {Mus musculus} PDB: 3u6f_B* Back     alignment and structure
>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
>2igi_A Oligoribonuclease; RNAse, exoribonuclease, exonuclease, hydrolase, mRNA decay; 1.70A {Escherichia coli} SCOP: c.55.3.5 PDB: 1yta_A 1j9a_A Back     alignment and structure
>2gbz_A Oligoribonuclease; ORN, deddh, structural genomics, hydrolase; 2.30A {Xanthomonas campestris PV} Back     alignment and structure
>3tr8_A Oligoribonuclease; transcription, hydrolase; 2.50A {Coxiella burnetii} 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

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 274
d1uoca_286 c.55.3.9 (A:) Pop2 RNase D domain {Baker's yeast ( 1e-120
d2d5ra1252 c.55.3.9 (A:11-262) CCR4-NOT transcription complex 1e-119
>d1uoca_ c.55.3.9 (A:) Pop2 RNase D domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 286 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: Pop2 RNase D domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  343 bits (882), Expect = e-120
 Identities = 108/287 (37%), Positives = 164/287 (57%), Gaps = 25/287 (8%)

Query: 3   VLPKGGDEIQIREVWNDNLEEEFALIREIVDKYNYIAMDTEFPGVVLRPVGAFKNINDYN 62
            LP   + + +R+VW  NL  EFA+IR++V +YN++++ TEF G + RP+G F++  DY+
Sbjct: 4   FLPPP-NYLFVRDVWKSNLYSEFAVIRQLVSQYNHVSISTEFVGTLARPIGTFRSKVDYH 62

Query: 63  YQTLKDNVDMLKLIQLGLTFSDENGNLPTCGTDKFCIWQFNFREFNLIDDIFASDSVELL 122
           YQT++ NVD L  IQLGL+ SD NGN P  G      WQFNF  F+   +I +++S+ELL
Sbjct: 63  YQTMRANVDFLNPIQLGLSLSDANGNKPDNG---PSTWQFNFE-FDPKKEIMSTESLELL 118

Query: 123 HQCGIDFKKNNEKGIDVNRFGELLMSSGIVLNDVVRWVTFHSGYDFGYLLKLLTCRSLPD 182
            + GI+F+K+   GIDV  F +LLM SG++++D V W+T+H+ YD G+L+ +L   S+P+
Sbjct: 119 RKSGINFEKHENLGIDVFEFSQLLMDSGLMMDDSVTWITYHAAYDLGFLINILMNDSMPN 178

Query: 183 TQAGFFELINMYFPVVYDIKHLMKFCNSLHG---------------GLNKLAELLEVERV 227
            +  F   ++ Y P  YD+  + K                       L  LA+ L + R 
Sbjct: 179 NKEDFEWWVHQYMPNFYDLNLVYKIIQEFKNPQLQQSSQQQQQQQYSLTTLADELGLPRF 238

Query: 228 GICHQAGSDSLLTSCTFRKLRE----NFFNGCT-EKYAGVLYGLGVE 269
            I    G  SLL   +F +L +     F NG    KY GV+YG+  +
Sbjct: 239 SIFTTTGGQSLLMLLSFCQLSKLSMHKFPNGTDFAKYQGVIYGIDGD 285
>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

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query274
d2d5ra1252 CCR4-NOT transcription complex subunit 7, CAF1 {Hu 100.0
d1uoca_286 Pop2 RNase D domain {Baker's yeast (Saccharomyces 100.0
d2guia1174 N-terminal exonuclease domain of the epsilon subun 98.79
d1w0ha_200 Exonuclease ERI1 {Human (Homo sapiens) [TaxId: 960 98.66
d2f96a1202 Ribonuclease T {Pseudomonas aeruginosa [TaxId: 287 98.63
d1y97a1228 Three prime repair exonuclease 2, TREX2 {Human (Ho 98.52
d3b6oa1226 Three prime repair exonuclease 1, TREX1 {Mouse (Mu 98.39
d2qxfa1 467 Exonuclease I {Escherichia coli K12 (Escherichia c 98.3
d1wlja_173 Interferon-stimulated gene 20 kDa protein, ISG20 { 98.05
d1yt3a3193 Ribonuclease D, catalytic domain {Escherichia coli 97.53
d2hbka2292 Exosome complex exonuclease RRP6 {Baker's yeast (S 96.48
d1kfsa1195 Exonuclease domain of prokaryotic DNA polymerase { 95.09
d2igia1180 Oligoribonuclease {Escherichia coli [TaxId: 562]} 92.62
>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=1.9e-86  Score=596.79  Aligned_cols=250  Identities=58%  Similarity=1.048  Sum_probs=242.6

Q ss_pred             eEEEcCcccHHHHHHHHHHHhhhCCeeEEeccccccccCCCCCCCCChhHHHHHHHhcccccceeeeeeeeecCCCCCCC
Q 023967           12 QIREVWNDNLEEEFALIREIVDKYNYIAMDTEFPGVVLRPVGAFKNINDYNYQTLKDNVDMLKLIQLGLTFSDENGNLPT   91 (274)
Q Consensus        12 ~i~dVw~~Nf~~el~~I~~~i~~~~fIAiDtEf~G~~~~~~~~~~~t~e~~Y~~lr~nv~~~~iiQlGlt~~~~~g~~p~   91 (274)
                      +|+|||++||++||+.|+++|++|+||||||||||++.+|.+.+++++|+||+++|+||+.+++||+|||+++++|+.|.
T Consensus         1 ~i~eV~~~Nf~e~~~~i~~~i~~~~fVAiD~EF~G~~~~~~~~~~~t~~~~Y~~lr~nv~~~~iiQ~Glt~~~~~g~~~~   80 (252)
T d2d5ra1           1 RICEVWACNLDEEMKKIRQVIRKYNYVAMDTEFPGVVARPIGEFRSNADYQYQLLRCNVDLLKIIQLGLTFMNEQGEYPP   80 (252)
T ss_dssp             CEEEECGGGHHHHHHHHHHHHHHCCEEEEEEECCCCCCCCCSCCSSHHHHHHHHHHHHHTTCCCCEEEEEEECTTSCCCS
T ss_pred             CeEEehhhhHHHHHHHHHHHHhcCCEEEEeeeccCcccCCCCccCCCHHHHHHHHHHHHhhcceeEEEEEeecccCCCCC
Confidence            49999999999999999999999999999999999999998888899999999999999999999999999999999885


Q ss_pred             CCCCCeeeEEEeeeccCCCCccchhhhHHHHHHcCCCccchhhcCCChhHHHHHHHHhcccccCceeEEeeccchhHHHH
Q 023967           92 CGTDKFCIWQFNFREFNLIDDIFASDSVELLHQCGIDFKKNNEKGIDVNRFGELLMSSGIVLNDVVRWVTFHSGYDFGYL  171 (274)
Q Consensus        92 ~~~~~~~~~~FNF~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sglv~~~~~~wi~f~g~yD~~yL  171 (274)
                          ++++|||||+ |+..+++|+++||+||++|||||||++++||+|..|+++++.||++++++++||+|||+|||+||
T Consensus        81 ----~~~~w~FNf~-~~~~~~~~~~~Si~fL~~~G~DF~k~~~~GI~~~~f~~~l~~s~~~~~~~~~wv~f~g~yD~~yl  155 (252)
T d2d5ra1          81 ----GTSTWQFNFK-FNLTEDMYAQDSIELLTTSGIQFKKHEEEGIETQYFAELLMTSGVVLCEGVKWLSFHSGYDFGYL  155 (252)
T ss_dssp             ----SCCEEEEEBC-CCTTTSCCCHHHHHHHHHHTCCHHHHHHHCBCHHHHHHHHHTTTSSSSSSCEEEESSCHHHHHHH
T ss_pred             ----CceeEEEEEE-eCCcccccCHHHHHHHHHcCCChHHHHHcCCCHHHHHHHHHhhhhhhcCCCcEEEecchhHHHHH
Confidence                5899999999 99999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhCCCCCCCChHHHHHHHHccCCccccchhhhHhhccccccHHHHHHHcCCccCCCCcccchhHHHHHHHHHHHHHHh
Q 023967          172 LKLLTCRSLPDTQAGFFELINMYFPVVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTSCTFRKLRENF  251 (274)
Q Consensus       172 lk~l~~~~LP~~~~~F~~~l~~~FP~iyDtK~l~~~~~~l~~~L~~la~~L~v~r~g~~HqAGsDs~lT~~~F~~l~~~~  251 (274)
                      +|+|+|+|||+++++|+++++.+||.+||||||++.|.++++||++||+.|+++|+|++||||||||||++||++|++++
T Consensus       156 ~k~l~~~~LP~~~~eF~~~v~~~FP~vyDtK~l~~~~~~~~~~L~~la~~L~v~~~g~~H~AG~DsllT~~~F~~l~~~~  235 (252)
T d2d5ra1         156 IKILTNSNLPEEELDFFEILRLFFPVIYDVKYLMKSCKNLKGGLQEVAEQLELERIGPQHQAGSDSLLTGMAFFKMREMF  235 (252)
T ss_dssp             HHHHHTSCCCSSHHHHHHHHHHHCSCEEEHHHHGGGCTTCCSSHHHHHHHHTCCCCSSTTSHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHcCCCCCCCHHHHHHHHHHHCchHhhHHHHHhhccCCCchHHHHHHHcCCCCCCCCcchhHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCC--CccccccEEEec
Q 023967          252 FNG--CTEKYAGVLYGL  266 (274)
Q Consensus       252 ~~~--~~~~~~g~i~Gl  266 (274)
                      +++  +..+++|+||||
T Consensus       236 ~~~~~~~~~~~g~i~Gl  252 (252)
T d2d5ra1         236 FEDHIDDAKYCGHLYGL  252 (252)
T ss_dssp             SCSSCCHHHHTTBCTTC
T ss_pred             hcCCCcHHHhCCcccCC
Confidence            975  457899999997
>d1uoca_ c.55.3.9 (A:) Pop2 RNase D domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} 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
>d1w0ha_ c.55.3.5 (A:) Exonuclease ERI1 {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
>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
>d2qxfa1 c.55.3.5 (A:8-474) Exonuclease I {Escherichia coli K12 (Escherichia coli K-12) [TaxId: 83333]} 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
>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
>d2igia1 c.55.3.5 (A:1-180) Oligoribonuclease {Escherichia coli [TaxId: 562]} Back     information, alignment and structure