Citrus Sinensis ID: 023991

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----
MSLLPKGDSIQIREVWSDNLELEFDLIRKIVDDYPYVAMDTEFPGIALRPVGSFKSSYEYHYQTLKSNVDMLKLIQLGLTFSDENGNLPTCGTDKYCVWQFNFREFDVNEDIFANDSIELLKQSGINFTKNNEIGIDAMRFGEFMMSSGIVLSDSMHWVTFHSGYDFGYLLKLLTCQNLPDTQVEFFNLIRIYFPTVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTASTFRKLKENFFSSSLEKYAGVLYGLGVENGQNTH
ccccccccccEEEEcccccHHHHHHHHHHHHHcccEEEEEcccccccccccccccccHHHHHHHHHHHHHHHccEEEEEEEEccccccccccccccEEEEEEccccccccccccHHHHHHHHHccccccccccccccccHHHHHHHHHcccccccccEEEEEcccHHHHHHHHHHcccccccHHHHHHHHHHHcccEEEEHHHHHHHccccccHHHHHHHcccEEccccccccHHHHHHHHHHHHHHHHHccccccccccEEEEcccccccccc
ccccccccccEHHHHHHHHHHHHHHHHHHHHHHccEEEEccccccEEEEEcccccccccHHEEEEEHHHHHHHHHHHcEEEEccccccccccccccEEEEEEccccccHHHcccHHHHHHHHHccccHHHHHHccccHHHHHHHHHHccEEEcccEEEEEEcccHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHHccHHHHHHHHccccEcccccccccHHHHHHHHHHHHHHHHHcccHHHHccEEEEEccccccccc
msllpkgdsiqiREVWSDNLELEFDLIRKIvddypyvamdtefpgialrpvgsfksSYEYHYQTLKSNVDMLKLIQLGltfsdengnlptcgtdkycvwqfnfrefdvnedifanDSIELLKQsginftknneigidamrfgefmmssgivlsdsmhwvtfhsgyDFGYLLKLLtcqnlpdtQVEFFNLIRIYFPTVYDIKHLMKFCNSLHGGLNKLAELLEVERVGichqagsdsllTASTFRKLKENFFSSSLEKYAGVLYGlgvengqnth
msllpkgdsiqireVWSDNLELEFDLIRKIVDDYPYVAMDTEFPGIALRPVGSFKSSYEYHYQTLKSNVDMLKLIQLGLTFSDENGNLPTCGTDKYCVWQFNFREFDVNEDIFANDSIELLKqsginftknNEIGIDAMRFGEFMMSSGIVLSDSMHWVTFHSGYDFGYLLKLLTCQNLPDTQVEFFNLIRIYFPTVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTASTFRKLKENFFSSSLEKYAGVLYGLgvengqnth
MSLLPKGDSIQIREVWSDNLELEFDLIRKIVDDYPYVAMDTEFPGIALRPVGSFKSSYEYHYQTLKSNVDMLKLIQLGLTFSDENGNLPTCGTDKYCVWQFNFREFDVNEDIFANDSIELLKQSGINFTKNNEIGIDAMRFGEFMMSSGIVLSDSMHWVTFHSGYDFGYLLKLLTCQNLPDTQVEFFNLIRIYFPTVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTASTFRKLKENFFSSSLEKYAGVLYGLGVENGQNTH
*********IQIREVWSDNLELEFDLIRKIVDDYPYVAMDTEFPGIALRPVGSFKSSYEYHYQTLKSNVDMLKLIQLGLTFSDENGNLPTCGTDKYCVWQFNFREFDVNEDIFANDSIELLKQSGINFTKNNEIGIDAMRFGEFMMSSGIVLSDSMHWVTFHSGYDFGYLLKLLTCQNLPDTQVEFFNLIRIYFPTVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTASTFRKLKENFFSSSLEKYAGVLYGLGV*******
************REVWSDNLELEFDLIRKIVDDYPYVAMDTEFPGIALRPVGSFKSSYEYHYQTLKSNVDMLKLIQLGLTFSDENGNLPTCGTDKYCVWQFNFREFDVNEDIFANDSIELLKQSGINFTKNNEIGIDAMRFGEFMMSSGIVLSDSMHWVTFHSGYDFGYLLKLLTCQNLPDTQVEFFNLIRIYFPTVYDIKHLMKFCNS*******LAELLEVERVGICHQAGSDSLLTASTFRKLKENFFSSSLEKYAGVLYG***E******
MSLLPKGDSIQIREVWSDNLELEFDLIRKIVDDYPYVAMDTEFPGIALRPVGSFKSSYEYHYQTLKSNVDMLKLIQLGLTFSDENGNLPTCGTDKYCVWQFNFREFDVNEDIFANDSIELLKQSGINFTKNNEIGIDAMRFGEFMMSSGIVLSDSMHWVTFHSGYDFGYLLKLLTCQNLPDTQVEFFNLIRIYFPTVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTASTFRKLKENFFSSSLEKYAGVLYGLGVENGQNTH
*******DSIQIREVWSDNLELEFDLIRKIVDDYPYVAMDTEFPGIALRPVGSFKSSYEYHYQTLKSNVDMLKLIQLGLTFSDENGNLPTCGTDKYCVWQFNFREFDVNEDIFANDSIELLKQSGINFTKNNEIGIDAMRFGEFMMSSGIVLSDSMHWVTFHSGYDFGYLLKLLTCQNLPDTQVEFFNLIRIYFPTVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTASTFRKLKENFFSSSLEKYAGVLYGLGVE******
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MSLLPKGDSIQIREVWSDNLELEFDLIRKIVDDYPYVAMDTEFPGIALRPVGSFKSSYEYHYQTLKSNVDMLKLIQLGLTFSDENGNLPTCGTDKYCVWQFNFREFDVNEDIFANDSIELLKQSGINFTKNNEIGIDAMRFGEFMMSSGIVLSDSMHWVTFHSGYDFGYLLKLLTCQNLPDTQVEFFNLIRIYFPTVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTASTFRKLKENFFSSSLEKYAGVLYGLGVENGQNTH
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]
Q9SAI2274 Probable CCR4-associated yes no 0.989 0.989 0.793 1e-129
Q9SKZ2275 Probable CCR4-associated no no 1.0 0.996 0.778 1e-128
Q9LEU4277 Probable CCR4-associated no no 0.996 0.985 0.699 1e-113
Q9S9P2286 Probable CCR4-associated no no 0.941 0.902 0.632 6e-95
Q08BM8286 CCR4-NOT transcription co yes no 0.937 0.898 0.531 1e-78
Q60809285 CCR4-NOT transcription co yes no 0.937 0.901 0.531 1e-78
Q3ZC01285 CCR4-NOT transcription co yes no 0.937 0.901 0.531 1e-78
Q9UIV1285 CCR4-NOT transcription co yes no 0.937 0.901 0.531 2e-78
Q5ZJV9285 CCR4-NOT transcription co no no 0.937 0.901 0.531 2e-78
Q9D8X5292 CCR4-NOT transcription co no no 0.941 0.883 0.520 6e-78
>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 desciption
 Score =  460 bits (1184), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 215/271 (79%), Positives = 244/271 (90%)

Query: 1   MSLLPKGDSIQIREVWSDNLELEFDLIRKIVDDYPYVAMDTEFPGIALRPVGSFKSSYEY 60
           MSL  K DSIQIREVW+DNL+ E DLIR +VDD+PYVAMDTEFPGI +RPVG+FKS+ +Y
Sbjct: 1   MSLFLKDDSIQIREVWNDNLQEEMDLIRDVVDDFPYVAMDTEFPGIVVRPVGTFKSNADY 60

Query: 61  HYQTLKSNVDMLKLIQLGLTFSDENGNLPTCGTDKYCVWQFNFREFDVNEDIFANDSIEL 120
           HY+TLK+NV++LK+IQLGLTFS+E GNLPTCGTDKYC+WQFNFREFD++ DIFA DSIEL
Sbjct: 61  HYETLKTNVNILKMIQLGLTFSNEQGNLPTCGTDKYCIWQFNFREFDLDSDIFALDSIEL 120

Query: 121 LKQSGINFTKNNEIGIDAMRFGEFMMSSGIVLSDSMHWVTFHSGYDFGYLLKLLTCQNLP 180
           LKQSGI+  KN   GID+ RF E +MSSGIVL++++HWVTFHSGYDFGYLLKLLTCQNLP
Sbjct: 121 LKQSGIDLAKNTLDGIDSKRFAELLMSSGIVLNENVHWVTFHSGYDFGYLLKLLTCQNLP 180

Query: 181 DTQVEFFNLIRIYFPTVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTA 240
           D+Q +FF LI +YFPTVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLT+
Sbjct: 181 DSQTDFFKLINVYFPTVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTS 240

Query: 241 STFRKLKENFFSSSLEKYAGVLYGLGVENGQ 271
            TFRKLKENFF   L KY+GVLYGLGVENGQ
Sbjct: 241 CTFRKLKENFFVGPLHKYSGVLYGLGVENGQ 271
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|Q9SKZ2|CAF1G_ARATH Probable CCR4-associated factor 1 homolog 7 OS=Arabidopsis thaliana GN=CAF1-7 PE=2 SV=2 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|Q08BM8|CNOT7_DANRE CCR4-NOT transcription complex subunit 7 OS=Danio rerio GN=cnot7 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|Q9D8X5|CNOT8_MOUSE CCR4-NOT transcription complex subunit 8 OS=Mus musculus GN=Cnot8 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
255572747274 ccr4-associated factor, putative [Ricinu 1.0 1.0 0.879 1e-141
224057551274 predicted protein [Populus trichocarpa] 1.0 1.0 0.864 1e-138
224072707274 predicted protein [Populus trichocarpa] 1.0 1.0 0.857 1e-138
225465508274 PREDICTED: probable CCR4-associated fact 1.0 1.0 0.850 1e-138
357467883277 Ribonuclease CAF1 [Medicago truncatula] 0.992 0.981 0.839 1e-134
356523338277 PREDICTED: probable CCR4-associated fact 0.992 0.981 0.839 1e-134
255648347277 unknown [Glycine max] 0.992 0.981 0.835 1e-133
356526256281 PREDICTED: probable CCR4-associated fact 0.992 0.967 0.820 1e-131
255641330281 unknown [Glycine max] 0.992 0.967 0.816 1e-131
255548772274 ccr4-associated factor, putative [Ricinu 0.996 0.996 0.813 1e-130
>gi|255572747|ref|XP_002527306.1| ccr4-associated factor, putative [Ricinus communis] gi|223533306|gb|EEF35058.1| ccr4-associated factor, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  506 bits (1304), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 241/274 (87%), Positives = 259/274 (94%)

Query: 1   MSLLPKGDSIQIREVWSDNLELEFDLIRKIVDDYPYVAMDTEFPGIALRPVGSFKSSYEY 60
           MSLL KGDSIQIREVW+DNLE EF LIR+IVD+Y Y+AMDTEFPGI LRPVG+FK+S EY
Sbjct: 1   MSLLLKGDSIQIREVWNDNLEEEFSLIREIVDEYSYIAMDTEFPGIVLRPVGNFKNSNEY 60

Query: 61  HYQTLKSNVDMLKLIQLGLTFSDENGNLPTCGTDKYCVWQFNFREFDVNEDIFANDSIEL 120
           HYQTLK NVDMLKLIQLGLTFSDE GNLPTCGTDKYC+WQFNFREF+VNED+FANDSIEL
Sbjct: 61  HYQTLKDNVDMLKLIQLGLTFSDEQGNLPTCGTDKYCIWQFNFREFNVNEDVFANDSIEL 120

Query: 121 LKQSGINFTKNNEIGIDAMRFGEFMMSSGIVLSDSMHWVTFHSGYDFGYLLKLLTCQNLP 180
           L+QSGI+F KNNE GIDAMRFGE +MSSGIVL+DS+HWVTFHSGYDFGYLLKLLTCQNLP
Sbjct: 121 LRQSGIDFKKNNERGIDAMRFGELLMSSGIVLNDSVHWVTFHSGYDFGYLLKLLTCQNLP 180

Query: 181 DTQVEFFNLIRIYFPTVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTA 240
           DTQ+ FFNLI +YFPT+YDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTA
Sbjct: 181 DTQLGFFNLINMYFPTLYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTA 240

Query: 241 STFRKLKENFFSSSLEKYAGVLYGLGVENGQNTH 274
            TFRKLKENFFS SLEKYAGVLYGLGVENGQ+TH
Sbjct: 241 CTFRKLKENFFSGSLEKYAGVLYGLGVENGQSTH 274

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224057551|ref|XP_002299263.1| predicted protein [Populus trichocarpa] gi|222846521|gb|EEE84068.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224072707|ref|XP_002303842.1| predicted protein [Populus trichocarpa] gi|222841274|gb|EEE78821.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|225465508|ref|XP_002272165.1| PREDICTED: probable CCR4-associated factor 1 homolog 7 isoform 1 [Vitis vinifera] Back     alignment and taxonomy information
>gi|357467883|ref|XP_003604226.1| Ribonuclease CAF1 [Medicago truncatula] gi|355505281|gb|AES86423.1| Ribonuclease CAF1 [Medicago truncatula] Back     alignment and taxonomy information
>gi|356523338|ref|XP_003530297.1| PREDICTED: probable CCR4-associated factor 1 homolog 7-like isoform 1 [Glycine max] gi|356523340|ref|XP_003530298.1| PREDICTED: probable CCR4-associated factor 1 homolog 7-like isoform 2 [Glycine max] Back     alignment and taxonomy information
>gi|255648347|gb|ACU24625.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|356526256|ref|XP_003531734.1| PREDICTED: probable CCR4-associated factor 1 homolog 7-like [Glycine max] Back     alignment and taxonomy information
>gi|255641330|gb|ACU20942.1| unknown [Glycine max] Back     alignment and taxonomy information
>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

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 1.0 0.996 0.778 3.7e-119
TAIR|locus:2183765277 AT5G10960 [Arabidopsis thalian 0.978 0.967 0.708 1.2e-104
TAIR|locus:2200532286 AT1G15920 [Arabidopsis thalian 0.941 0.902 0.632 3.2e-88
DICTYBASE|DDB_G0284217367 DDB_G0284217 "CAF1 family prot 0.905 0.675 0.579 1.1e-78
DICTYBASE|DDB_G0285269309 DDB_G0285269 "CAF1 family prot 0.937 0.831 0.548 9.3e-75
UNIPROTKB|F1NYH4291 CNOT8 "Uncharacterized protein 0.934 0.879 0.532 9.3e-75
UNIPROTKB|Q5ZJV9285 CNOT7 "CCR4-NOT transcription 0.937 0.901 0.531 3.1e-74
UNIPROTKB|Q3ZC01285 CNOT7 "CCR4-NOT transcription 0.937 0.901 0.531 3.1e-74
UNIPROTKB|E2RMU2285 CNOT7 "Uncharacterized protein 0.937 0.901 0.531 3.1e-74
UNIPROTKB|Q9UIV1285 CNOT7 "CCR4-NOT transcription 0.937 0.901 0.531 3.1e-74
TAIR|locus:2045512 AT2G32070 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1173 (418.0 bits), Expect = 3.7e-119, P = 3.7e-119
 Identities = 214/275 (77%), Positives = 246/275 (89%)

Query:     1 MSLLPKGDSIQIREVWSDNLELEFDLIRKIVDDYPYVAMDTEFPGIALRPVGSFKSSYEY 60
             MSL  K DSIQIREVW+DNLE E  LIR++VDD+P+VAMDTEFPGI  RPVG+FK++ EY
Sbjct:     1 MSLFLKDDSIQIREVWNDNLESEMALIREVVDDFPFVAMDTEFPGIVCRPVGTFKTNTEY 60

Query:    61 HYQTLKSNVDMLKLIQLGLTFSDENGNLPTCGTD-KYCVWQFNFREFDVNEDIFANDSIE 119
             HY+TLK+NV++LK+IQLGLTFSDE GNLPTCGTD KYC+WQFNFREFD+  DI+A DSIE
Sbjct:    61 HYETLKTNVNILKMIQLGLTFSDEKGNLPTCGTDNKYCIWQFNFREFDLESDIYATDSIE 120

Query:   120 LLKQSGINFTKNNEIGIDAMRFGEFMMSSGIVLSDSMHWVTFHSGYDFGYLLKLLTCQNL 179
             LL+QSGI+F KNNE GID+ RF E +MSSGIVL++++HWVTFHSGYDFGYLLKLLTCQNL
Sbjct:   121 LLRQSGIDFVKNNEFGIDSKRFAELLMSSGIVLNENVHWVTFHSGYDFGYLLKLLTCQNL 180

Query:   180 PDTQVEFFNLIRIYFPTVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLT 239
             P+TQ  FF +I +YFP VYDIKHLMKFCNSLHGGLNKLAELL+VERVGICHQAGSDSLLT
Sbjct:   181 PETQTGFFEMISVYFPRVYDIKHLMKFCNSLHGGLNKLAELLDVERVGICHQAGSDSLLT 240

Query:   240 ASTFRKLKENFFSSSLEKYAGVLYGLGVENGQNTH 274
             + TFRKL+ENFF  S+EKY+GVLYGLGVENGQ  H
Sbjct:   241 SCTFRKLQENFFIGSMEKYSGVLYGLGVENGQIVH 275
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
DICTYBASE|DDB_G0285269 DDB_G0285269 "CAF1 family protein" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
UNIPROTKB|F1NYH4 CNOT8 "Uncharacterized protein" [Gallus gallus (taxid:9031)] 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

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 number0.53150.93790.9017yesno
Q9SAI2CAF1F_ARATH3, ., 1, ., 1, 3, ., 40.79330.98900.9890yesno
Q3KQ85CNOT7_XENLANo assigned EC number0.52780.93790.9017N/Ano
Q17345CNOT7_CAEELNo assigned EC number0.46030.91970.8129yesno
Q3ZC01CNOT7_BOVINNo assigned EC number0.53150.93790.9017yesno
Q08BM8CNOT7_DANRENo assigned EC number0.53150.93790.8986yesno
A4II96CNOT7_XENTRNo assigned EC number0.52410.93790.9017yesno
Q9SKZ2CAF1G_ARATH3, ., 1, ., 1, 3, ., 40.77811.00.9963nono
Q9UIV1CNOT7_HUMANNo assigned EC number0.53150.93790.9017yesno

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:
eugene3.00031504
hypothetical protein (274 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 3e-96
>gnl|CDD|147159 pfam04857, CAF1, CAF1 family ribonuclease Back     alignment and domain information 
 Score =  326 bits (839), Expect = e-114
 Identities = 129/239 (53%), Positives = 158/239 (66%), Gaps = 10/239 (4%)

Query: 13  REVWSDNLELEFDLIRKIVDDYPYVAMDTEFPGIALRPVGSFKSSYEYHYQTLKSNVDML 72
           REVW  N   EF  IR+ +D Y ++A+DTEFPG+  RP+GSF+S+ +Y YQ L+ NVD L
Sbjct: 1   REVWRSNFHEEFKEIRQAIDSYDFIAIDTEFPGVVARPIGSFRSTSDYRYQALRKNVDRL 60

Query: 73  KLIQLGLTFSDENGNLPTCGTDKYCVWQFNFREFDVNEDIFANDSIELLKQSGINFTKNN 132
           K+IQLGLT  DE GNLP      Y  WQFNF  F++ ED +A  SIE L + G +F K+ 
Sbjct: 61  KIIQLGLTLFDEKGNLPDS----YYTWQFNFSLFNLEEDFYAPSSIEFLAKQGFDFNKHR 116

Query: 133 EIGIDAMRFGEFMMSSGIVLSD-SMHWVTFHSGYDFGYLLKLLTCQNLPDTQVEFFNLIR 191
             GI  +RF E + SSG+ L+  S+ WVTFH  YDFGYLLKLLT   LP+T  +F  L+R
Sbjct: 117 REGIPYLRFAELLGSSGLFLNISSVTWVTFHGLYDFGYLLKLLTGGPLPETLDDFLELLR 176

Query: 192 IYFPTVYDIKHLMKFCNSLHG----GLNKLAELLEVER-VGICHQAGSDSLLTASTFRK 245
             FP VYD K+L KFC  L G    GL +LA+LL V R VG  HQAGSDSLLTA  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 99.26
PRK07942232 DNA polymerase III subunit epsilon; Provisional 99.02
smart00479169 EXOIII exonuclease domain in DNA-polymerase alpha 98.97
cd06134189 RNaseT DEDDh 3'-5' exonuclease domain of RNase T. 98.77
cd06133176 ERI-1_3'hExo_like DEDDh 3'-5' exonuclease domain o 98.72
PRK05168211 ribonuclease T; Provisional 98.72
PRK09145202 DNA polymerase III subunit epsilon; Validated 98.68
cd06130156 DNA_pol_III_epsilon_like an uncharacterized bacter 98.68
cd06131167 DNA_pol_III_epsilon_Ecoli_like DEDDh 3'-5' exonucl 98.67
PRK05711240 DNA polymerase III subunit epsilon; Provisional 98.62
PRK07748207 sporulation inhibitor KapD; Provisional 98.57
PRK06195 309 DNA polymerase III subunit epsilon; Validated 98.5
PRK06807 313 DNA polymerase III subunit epsilon; Validated 98.48
TIGR00573217 dnaq exonuclease, DNA polymerase III, epsilon subu 98.47
PRK06310250 DNA polymerase III subunit epsilon; Validated 98.46
PRK07740244 hypothetical protein; Provisional 98.44
TIGR01406225 dnaQ_proteo DNA polymerase III, epsilon subunit, P 98.43
PRK07247195 DNA polymerase III subunit epsilon; Validated 98.41
PRK06063 313 DNA polymerase III subunit epsilon; Provisional 98.4
TIGR01298200 RNaseT ribonuclease T. in gamma-subdivision Proteo 98.36
PRK09146239 DNA polymerase III subunit epsilon; Validated 98.35
cd06136177 TREX1_2 DEDDh 3'-5' exonuclease domain of three pr 98.3
cd06127159 DEDDh DEDDh 3'-5' exonuclease domain family. DEDDh 98.25
PRK06722281 exonuclease; Provisional 98.24
PRK08517257 DNA polymerase III subunit epsilon; Provisional 98.22
PF00929164 RNase_T: Exonuclease; InterPro: IPR013520 This ent 98.17
PRK07246 820 bifunctional ATP-dependent DNA helicase/DNA polyme 98.14
PRK07883 557 hypothetical protein; Validated 98.14
PRK08074 928 bifunctional ATP-dependent DNA helicase/DNA polyme 98.1
TIGR01405 1213 polC_Gram_pos DNA polymerase III, alpha chain, Gra 98.07
PRK07983219 exodeoxyribonuclease X; Provisional 98.02
TIGR01407 850 dinG_rel DnaQ family exonuclease/DinG family helic 98.01
cd06138183 ExoI_N N-terminal DEDDh 3'-5' exonuclease domain o 97.96
PTZ00315 582 2'-phosphotransferase; Provisional 97.95
PRK06309232 DNA polymerase III subunit epsilon; Validated 97.85
PRK09182294 DNA polymerase III subunit epsilon; Validated 97.78
cd06144152 REX4_like DEDDh 3'-5' exonuclease domain of RNA ex 97.77
PRK11779 476 sbcB exonuclease I; Provisional 97.77
PRK05601 377 DNA polymerase III subunit epsilon; Validated 97.65
COG0847243 DnaQ DNA polymerase III, epsilon subunit and relat 97.65
PRK00448 1437 polC DNA polymerase III PolC; Validated 97.5
cd06145150 REX1_like DEDDh 3'-5' exonuclease domain of RNA ex 97.43
cd06137161 DEDDh_RNase DEDDh 3'-5' exonuclease domain of the 97.41
PRK05359181 oligoribonuclease; Provisional 97.28
cd06149157 ISG20 DEDDh 3'-5' exonuclease domain of Interferon 96.95
PF01612176 DNA_pol_A_exo1: 3'-5' exonuclease; InterPro: IPR00 95.5
PRK05755 880 DNA polymerase I; Provisional 95.14
COG0349 361 Rnd Ribonuclease D [Translation, ribosomal structu 94.8
cd06141170 WRN_exo DEDDy 3'-5' exonuclease domain of WRN and 94.78
cd06135173 Orn DEDDh 3'-5' exonuclease domain of oligoribonuc 94.66
cd06146193 mut-7_like_exo DEDDy 3'-5' exonuclease domain of C 94.19
COG2176 1444 PolC DNA polymerase III, alpha subunit (gram-posit 93.15
PRK10829 373 ribonuclease D; Provisional 92.17
cd06148197 Egl_like_exo DEDDy 3'-5' exonuclease domain of Dro 88.54
PF10108209 DNA_pol_B_exo2: Predicted 3'-5' exonuclease relate 81.15
>KOG0304 consensus mRNA deadenylase subunit [RNA processing and modification] Back     alignment and domain information 
Probab=100.00  E-value=8.4e-89  Score=589.11  Aligned_cols=237  Identities=65%  Similarity=1.124  Sum_probs=230.5

Q ss_pred             eEEEcCcccHHHHHHHHHHHhhcCCeeeEecccccccccCCCCCCCCHHHHHHHHHhcccccceeeeeeeeeecCCCCCC
Q 023991           11 QIREVWSDNLELEFDLIRKIVDDYPYVAMDTEFPGIALRPVGSFKSSYEYHYQTLKSNVDMLKLIQLGLTFSDENGNLPT   90 (274)
Q Consensus        11 ~v~eVw~~Nf~~e~~~I~~~i~~~~fIAiDtEf~Gl~~~~~~~~~~t~~~rY~~lr~nv~~~~iiQlGlt~~~~~g~~p~   90 (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            37999999999999999999999999999999999999999999899999999999999999999999999999999997


Q ss_pred             CCCCCeeEEEeeecccCCCCCCCchhHHHHHHHcCCCccchhhcCCchhHHHHHHHHhcccccCCcceEEeccchhHHHH
Q 023991           91 CGTDKYCVWQFNFREFDVNEDIFANDSIELLKQSGINFTKNNEIGIDAMRFGEFMMSSGIVLSDSMHWVTFHSGYDFGYL  170 (274)
Q Consensus        91 ~~~~~~~~w~FNF~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sgl~~~~~v~wvtf~g~yD~~yL  170 (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             HHHhCCCCCCCChHHHHHHHHhhCCccccchhhhHhhhc--ccCcHHHHHHHcCCccCCCCccchhhHHHHHHHHHHHHH
Q 023991          171 LKLLTCQNLPDTQVEFFNLIRIYFPTVYDIKHLMKFCNS--LHGGLNKLAELLEVERVGICHQAGSDSLLTASTFRKLKE  248 (274)
Q Consensus       171 ~k~l~~~~LP~~~~~F~~~l~~~FP~iyDtK~la~~~~~--l~~~L~~la~~L~~~r~~~~HqAGsDs~lT~~~F~~l~~  248 (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            999999999999999999999999999999999999965  899999999999999999999999999999999999998


Q ss_pred             Hh
Q 023991          249 NF  250 (274)
Q Consensus       249 ~~  250 (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
>cd06134 RNaseT DEDDh 3'-5' exonuclease domain of RNase T 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
>PRK05168 ribonuclease T; Provisional Back     alignment and domain information
>PRK09145 DNA polymerase III subunit epsilon; Validated 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
>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
>PRK05711 DNA polymerase III subunit epsilon; Provisional Back     alignment and domain information
>PRK07748 sporulation inhibitor KapD; Provisional 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
>TIGR00573 dnaq exonuclease, DNA polymerase III, epsilon subunit family 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
>TIGR01406 dnaQ_proteo DNA polymerase III, epsilon subunit, Proteobacterial Back     alignment and domain information
>PRK07247 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK06063 DNA polymerase III subunit epsilon; Provisional 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
>cd06136 TREX1_2 DEDDh 3'-5' exonuclease domain of three prime repair exonuclease (TREX)1, TREX2, and similar proteins Back     alignment and domain information
>cd06127 DEDDh DEDDh 3'-5' exonuclease domain family Back     alignment and domain information
>PRK06722 exonuclease; Provisional 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
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK07883 hypothetical protein; Validated Back     alignment and domain information
>PRK08074 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
>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
>PTZ00315 2'-phosphotransferase; Provisional Back     alignment and domain information
>PRK06309 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK09182 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
>PRK11779 sbcB exonuclease I; Provisional Back     alignment and domain information
>PRK05601 DNA polymerase III subunit epsilon; 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
>PRK00448 polC DNA polymerase III PolC; 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
>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
>COG0349 Rnd Ribonuclease D [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>cd06141 WRN_exo DEDDy 3'-5' exonuclease domain of WRN and similar proteins Back     alignment and domain information
>cd06135 Orn DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins Back     alignment and domain information
>cd06146 mut-7_like_exo DEDDy 3'-5' exonuclease domain of Caenorhabditis elegans mut-7 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
>PRK10829 ribonuclease D; Provisional Back     alignment and domain information
>cd06148 Egl_like_exo DEDDy 3'-5' exonuclease domain of Drosophila Egalitarian (Egl) and similar proteins Back     alignment and domain information
>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

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 1e-79
2d5r_A252 Crystal Structure Of A Tob-Hcaf1 Complex Length = 2 3e-78
2p51_A333 Crystal Structure Of The S. Pombe Pop2p Deadenylati 8e-72
4b8a_B286 Structure Of Yeast Not1 Mif4g Domain Co-Crystallize 7e-52
4b8c_A288 Nuclease Module Of The Yeast Ccr4-Not Complex Lengt 8e-52
1uoc_A289 X-Ray Structure Of The Rnase Domain Of The Yeast Po 8e-52
>pdb|4GMJ|B Chain B, Structure Of Human Not1 Mif4g Domain Co-Crystallized With Caf1 Length = 285 Back     alignment and structure 
Iteration: 1

 Score =  292 bits (748), Expect = 1e-79,   Method: Compositional matrix adjust.
 Identities = 143/269 (53%), Positives = 195/269 (72%), Gaps = 12/269 (4%)
Query: 9   SIQIREVWSDNLELEFDLIRKIVDDYPYVAMDTEFPGIALRPVGSFKSSYEYHYQTLKSN 68
           S +I EVW+ NL+ E   IR+++  Y YVAMDTEFPG+  RP+G F+S+ +Y YQ L+ N
Sbjct: 9   SQRICEVWACNLDEEMKKIRQVIRKYNYVAMDTEFPGVVARPIGEFRSNADYQYQLLRCN 68
Query: 69  VDMLKLIQLGLTFSDENGNLPTCGTDKYCVWQFNFREFDVNEDIFANDSIELLKQSGINF 128
           VD+LK+IQLGLTF +E G  P  GT     WQFNF+ F++ ED++A DSIELL  SGI F
Sbjct: 69  VDLLKIIQLGLTFMNEQGEYPP-GTS---TWQFNFK-FNLTEDMYAQDSIELLTTSGIQF 123
Query: 129 TKNNEIGIDAMRFGEFMMSSGIVLSDSMHWVTFHSGYDFGYLLKLLTCQNLPDTQVEFFN 188
            K+ E GI+   F E +M+SG+VL + + W++FHSGYDFGYL+K+LT  NLP+ +++FF 
Sbjct: 124 KKHEEEGIETQYFAELLMTSGVVLCEGVKWLSFHSGYDFGYLIKILTNSNLPEEELDFFE 183
Query: 189 LIRIYFPTVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTASTFRKLKE 248
           ++R++FP +YD+K+LMK C +L GGL ++AE LE+ER+G  HQAGSDSLLT   F K++E
Sbjct: 184 ILRLFFPVIYDVKYLMKSCKNLKGGLQEVAEQLELERIGPQHQAGSDSLLTGMAFFKMRE 243
Query: 249 NFFSSSLE--KYAGVLYGLG-----VENG 270
            FF   ++  KY G LYGLG     V+NG
Sbjct: 244 MFFEDHIDDAKYCGHLYGLGSGSSYVQNG 272
>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|4B8A|B Chain B, Structure Of Yeast Not1 Mif4g Domain Co-Crystallized With Caf1 Length = 286 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

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-125
1uoc_A289 POP2; hydrolase, DEDD nuclease, mRNA degradation, 1e-121
2d5r_A252 CCR4-NOT transcription complex subunit 7; poly(A) 1e-115
2a1r_A 430 Poly(A)-specific ribonuclease PARN; DEDD, nuclease 2e-29
2a1r_A430 Poly(A)-specific ribonuclease PARN; DEDD, nuclease 1e-15
3d45_A 507 Poly(A)-specific ribonuclease PARN; CAP analogue, 5e-28
3d45_A507 Poly(A)-specific ribonuclease PARN; CAP analogue, 6e-11
>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 =  357 bits (918), Expect = e-125
 Identities = 129/271 (47%), Positives = 180/271 (66%), Gaps = 6/271 (2%)

Query: 5   PKGDSIQIREVWSDNLELEFDLIRKIVDDYPYVAMDTEFPGIALRPVGSFKSSYEYHYQT 64
                  IR+VWS NL+ E +LI  +++ YP V+MDTEFPG+  RP+G FKSS +YHYQT
Sbjct: 16  ISSQISPIRDVWSTNLQQEMNLIMSLIERYPVVSMDTEFPGVVARPLGVFKSSDDYHYQT 75

Query: 65  LKSNVDMLKLIQLGLTFSDENGNLPTCGTDKYCVWQFNFREFDVNEDIFANDSIELLKQS 124
           L++NVD LK+IQ+GL  SDE GN P     + C WQFNF  F++ +D++A +SIELL +S
Sbjct: 76  LRANVDSLKIIQIGLALSDEEGNAP----VEACTWQFNFT-FNLQDDMYAPESIELLTKS 130

Query: 125 GINFTKNNEIGIDAMRFGEFMMSSGIVLSDSMHWVTFHSGYDFGYLLKLLTCQNLPDTQV 184
           GI+F K+ E+GI+   F E ++ SG+VL + + W+TFHSGYDF YLLK +T   LP    
Sbjct: 131 GIDFKKHQEVGIEPADFAELLIGSGLVLQEEVTWITFHSGYDFAYLLKAMTQIPLPAEYE 190

Query: 185 EFFNLIRIYFPTVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTASTFR 244
           EF+ ++ IYFP  YDIK++MK   +   GL  +A+ L++ R+G  HQAGSD+LLTA  F 
Sbjct: 191 EFYKILCIYFPKNYDIKYIMKSVLNNSKGLQDIADDLQIHRIGPQHQAGSDALLTARIFF 250

Query: 245 KLKENFFSSSL-EKYAGVLYGLGVENGQNTH 274
           +++  +F  S+  +    LYGLG       H
Sbjct: 251 EIRSRYFDGSIDSRMLNQLYGLGSTGSVLWH 281
>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
1uoc_A289 POP2; hydrolase, DEDD nuclease, mRNA degradation, 100.0
2p51_A333 SPCC18.06C protein; DEDD nuclease fold, hydrolase, 100.0
2d5r_A252 CCR4-NOT transcription complex subunit 7; poly(A) 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 98.9
1w0h_A204 3'-5' exonuclease ERI1; nuclease domain, hydrolase 98.83
2f96_A224 Ribonuclease T; RNAse, RNT, RNAse T, tRNA hydrolas 98.78
2gui_A194 DNA polymerase III epsilon subunit; DNA polymerase 98.7
2p1j_A186 POLIII, DNA polymerase III POLC-type; structural g 98.7
1zbh_A299 3'-5' exonuclease ERI1; histone mRNA 3'-END-specif 98.65
2xri_A224 ERI1 exoribonuclease 3; hydrolase, metal binding; 98.6
3cg7_A308 CRN-4, cell death-related nuclease 4; hydrolase, a 98.54
3mxm_B242 Three prime repair exonuclease 1; RNAse H-like fol 98.52
1zbu_A349 ERI-1 homolog, 3'-5' exonuclease ERI1; hydrolase; 98.48
1y97_A238 Three prime repair exonuclease 2; TREX2, hydrolase 98.46
3u3y_B314 Three prime repair exonuclease 1; RNAse H fold, 3' 98.35
1wlj_A189 Interferon stimulated gene 20KDA; exoribonuclease, 98.3
2qxf_A 482 Exodeoxyribonuclease I; alpha-beta domain, DNAQ su 98.2
2igi_A180 Oligoribonuclease; RNAse, exoribonuclease, exonucl 98.04
2gbz_A194 Oligoribonuclease; ORN, deddh, structural genomics 97.8
3tr8_A186 Oligoribonuclease; transcription, hydrolase; 2.50A 97.44
2kfn_A 605 Klenow fragment of DNA polymerase I; complex (poly 96.17
>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=641.80  Aligned_cols=264  Identities=53%  Similarity=0.985  Sum_probs=247.7

Q ss_pred             CCCCCCCCcceEEEcCcccHHHHHHHHHHHhhcCCeeeEecccccccccCCCCCCCCHHHHHHHHHhcccccceeeeeee
Q 023991            1 MSLLPKGDSIQIREVWSDNLELEFDLIRKIVDDYPYVAMDTEFPGIALRPVGSFKSSYEYHYQTLKSNVDMLKLIQLGLT   80 (274)
Q Consensus         1 ~~~~~~~~~~~v~eVw~~Nf~~e~~~I~~~i~~~~fIAiDtEf~Gl~~~~~~~~~~t~~~rY~~lr~nv~~~~iiQlGlt   80 (274)
                      ||+.+...+..|||||++||++||+.|+++|++|+||||||||||++++|.+.+++++++||+++|+|||.++|||+|||
T Consensus         1 ~p~~~~~~~~~IreVw~~Nl~ee~~~I~~~i~~~~fVAiDtEFpGvv~rp~~~~~~t~d~~Y~~lr~nvd~l~iIQlGLt   80 (285)
T 4gmj_B            1 MPAATVDHSQRICEVWACNLDEEMKKIRQVIRKYNYVAMDTEFPGVVARPIGEFRSNADYQYQLLRCNVDLLKIIQLGLT   80 (285)
T ss_dssp             ---------CCEEEECHHHHHHHHHHHHHHHHHCCEEEEEEECCCCCCCCTTCCTTSTTHHHHHHHHHHTTSCCCEEEEE
T ss_pred             CCCCcCCCCCeEEEechhHHHHHHHHHHHHHhcCCEEEEEEEecCccCCCCCccCCCHHHHHHHHHHHHHhhcceeEEEE
Confidence            77888888889999999999999999999999999999999999999999888999999999999999999999999999


Q ss_pred             eeecCCCCCCCCCCCeeEEEeeecccCCCCCCCchhHHHHHHHcCCCccchhhcCCchhHHHHHHHHhcccccCCcceEE
Q 023991           81 FSDENGNLPTCGTDKYCVWQFNFREFDVNEDIFANDSIELLKQSGINFTKNNEIGIDAMRFGEFMMSSGIVLSDSMHWVT  160 (274)
Q Consensus        81 ~~~~~g~~p~~~~~~~~~w~FNF~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sgl~~~~~v~wvt  160 (274)
                      +|+++|+.|.    .+++|||||+ |+..+|+|+++||+||+++||||||+.++||++.+|+|++++||++++++++||+
T Consensus        81 ~f~~~g~~p~----~~~~wqFNF~-f~~~~d~~~~~SI~fL~~~G~DF~k~~~~GI~~~~f~ell~~sglvl~~~v~Wvt  155 (285)
T 4gmj_B           81 FMNEQGEYPP----GTSTWQFNFK-FNLTEDMYAQDSIELLTTSGIQFKKHEEEGIETQYFAELLMTSGVVLCEGVKWLS  155 (285)
T ss_dssp             EECTTSCCCS----SCCEEEEEBC-CCTTTSCCCHHHHHHHHHHTCCHHHHHHHCBCHHHHHHHHHTSSSSSCTTCEEEE
T ss_pred             eeccCCCcCC----CeeEEEEEEE-eccccccccHHHHHHHHHcCCCHHHHHHcCCCHHHHHHHHHHhHHHhcCCCceEE
Confidence            9999999884    5899999999 9999999999999999999999999999999999999999999999999999999


Q ss_pred             eccchhHHHHHHHhCCCCCCCChHHHHHHHHhhCCccccchhhhHhhhcccCcHHHHHHHcCCccCCCCccchhhHHHHH
Q 023991          161 FHSGYDFGYLLKLLTCQNLPDTQVEFFNLIRIYFPTVYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTA  240 (274)
Q Consensus       161 f~g~yD~~yL~k~l~~~~LP~~~~~F~~~l~~~FP~iyDtK~la~~~~~l~~~L~~la~~L~~~r~~~~HqAGsDs~lT~  240 (274)
                      |||+|||+||+|+|++++||+++++|+++++.+||.|||||||++.|+++++||++||+.|+++|+|++||||||||||+
T Consensus       156 fH~~yDf~yL~k~lt~~~LP~~~~eF~~~l~~~FP~vYD~K~l~~~~~~l~ggL~~lA~~L~v~r~g~~HqAGsDSllT~  235 (285)
T 4gmj_B          156 FHSGYDFGYLIKILTNSNLPEEELDFFEILRLFFPVIYDVKYLMKSCKNLKGGLQEVAEQLELERIGPQHQAGSDSLLTG  235 (285)
T ss_dssp             SSCHHHHHHHHHHHHTSCCCSSHHHHHHHHHHHCSCEEEHHHHGGGSTTCCSCHHHHHHHTTCCCCSCTTSHHHHHHHHH
T ss_pred             ecchhhHHHHHHHHhCCCCCCCHHHHHHHHHHHCchhhhHHHHHHhccccCChHHHHHHhCCCCCCCCCCcchhHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCC--ccccccEEeecCCCC
Q 023991          241 STFRKLKENFFSSS--LEKYAGVLYGLGVEN  269 (274)
Q Consensus       241 ~~F~~l~~~~~~~~--~~~~~g~i~Gl~~~~  269 (274)
                      +||+||++.++++.  .++|+|+|||||+..
T Consensus       236 ~~F~kl~~~~f~~~~~~~~~~g~l~Glg~~~  266 (285)
T 4gmj_B          236 MAFFKMREMFFEDHIDDAKYCGHLYGLGSGS  266 (285)
T ss_dssp             HHHHHHHHHHHTTCCCHHHHTTCCTTSSTTC
T ss_pred             HHHHHHHHHHhcCCcchHHhCCEEeccCCCC
Confidence            99999999999753  468999999999753
>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
>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
>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
>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
>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
>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
>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
>1wlj_A Interferon stimulated gene 20KDA; exoribonuclease, hydrolase; HET: U5P; 1.90A {Homo sapiens} SCOP: c.55.3.5 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-119
d2d5ra1252 c.55.3.9 (A:11-262) CCR4-NOT transcription complex 1e-118
>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 =  341 bits (875), Expect = e-119
 Identities = 104/286 (36%), Positives = 160/286 (55%), Gaps = 24/286 (8%)

Query: 3   LLPKGDSIQIREVWSDNLELEFDLIRKIVDDYPYVAMDTEFPGIALRPVGSFKSSYEYHY 62
            LP  + + +R+VW  NL  EF +IR++V  Y +V++ TEF G   RP+G+F+S  +YHY
Sbjct: 4   FLPPPNYLFVRDVWKSNLYSEFAVIRQLVSQYNHVSISTEFVGTLARPIGTFRSKVDYHY 63

Query: 63  QTLKSNVDMLKLIQLGLTFSDENGNLPTCGTDKYCVWQFNFREFDVNEDIFANDSIELLK 122
           QT+++NVD L  IQLGL+ SD NGN P  G      WQFNF  FD  ++I + +S+ELL+
Sbjct: 64  QTMRANVDFLNPIQLGLSLSDANGNKPDNG---PSTWQFNFE-FDPKKEIMSTESLELLR 119

Query: 123 QSGINFTKNNEIGIDAMRFGEFMMSSGIVLSDSMHWVTFHSGYDFGYLLKLLTCQNLPDT 182
           +SGINF K+  +GID   F + +M SG+++ DS+ W+T+H+ YD G+L+ +L   ++P+ 
Sbjct: 120 KSGINFEKHENLGIDVFEFSQLLMDSGLMMDDSVTWITYHAAYDLGFLINILMNDSMPNN 179

Query: 183 QVEFFNLIRIYFPTVYDIKHLMKFCNSLHG---------------GLNKLAELLEVERVG 227
           + +F   +  Y P  YD+  + K                       L  LA+ L + R  
Sbjct: 180 KEDFEWWVHQYMPNFYDLNLVYKIIQEFKNPQLQQSSQQQQQQQYSLTTLADELGLPRFS 239

Query: 228 ICHQAGSDSLLTASTFRKLKENFF-----SSSLEKYAGVLYGLGVE 268
           I    G  SLL   +F +L +         +   KY GV+YG+  +
Sbjct: 240 IFTTTGGQSLLMLLSFCQLSKLSMHKFPNGTDFAKYQGVIYGIDGD 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
d1uoca_286 Pop2 RNase D domain {Baker's yeast (Saccharomyces 100.0
d2d5ra1252 CCR4-NOT transcription complex subunit 7, CAF1 {Hu 100.0
d2guia1174 N-terminal exonuclease domain of the epsilon subun 98.79
d1w0ha_200 Exonuclease ERI1 {Human (Homo sapiens) [TaxId: 960 98.68
d2f96a1202 Ribonuclease T {Pseudomonas aeruginosa [TaxId: 287 98.54
d1y97a1228 Three prime repair exonuclease 2, TREX2 {Human (Ho 98.52
d3b6oa1226 Three prime repair exonuclease 1, TREX1 {Mouse (Mu 98.35
d2qxfa1 467 Exonuclease I {Escherichia coli K12 (Escherichia c 98.32
d1wlja_173 Interferon-stimulated gene 20 kDa protein, ISG20 { 98.02
d1yt3a3193 Ribonuclease D, catalytic domain {Escherichia coli 97.38
d2hbka2292 Exosome complex exonuclease RRP6 {Baker's yeast (S 96.29
d1kfsa1195 Exonuclease domain of prokaryotic DNA polymerase { 95.61
d2igia1180 Oligoribonuclease {Escherichia coli [TaxId: 562]} 93.62
>d1uoca_ c.55.3.9 (A:) Pop2 RNase D domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Ribonuclease H-like
family: CAF1-like ribonuclease
domain: Pop2 RNase D domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.6e-86  Score=606.52  Aligned_cols=262  Identities=39%  Similarity=0.790  Sum_probs=238.6

Q ss_pred             CCCCCcceEEEcCcccHHHHHHHHHHHhhcCCeeeEecccccccccCCCCCCCCHHHHHHHHHhcccccceeeeeeeeee
Q 023991            4 LPKGDSIQIREVWSDNLELEFDLIRKIVDDYPYVAMDTEFPGIALRPVGSFKSSYEYHYQTLKSNVDMLKLIQLGLTFSD   83 (274)
Q Consensus         4 ~~~~~~~~v~eVw~~Nf~~e~~~I~~~i~~~~fIAiDtEf~Gl~~~~~~~~~~t~~~rY~~lr~nv~~~~iiQlGlt~~~   83 (274)
                      +|++..+.|||||++||++||+.|+++|++|+||||||||||++++|.+.+++++++||+++|+|||.+++||+|||+|+
T Consensus         5 ~p~~~~~~i~dVw~~N~~~e~~~i~~~i~~~~fvaiD~EF~Gi~~~~~~~~~~t~d~~Y~~lr~nvd~~~iiQlGlt~f~   84 (286)
T d1uoca_           5 LPPPNYLFVRDVWKSNLYSEFAVIRQLVSQYNHVSISTEFVGTLARPIGTFRSKVDYHYQTMRANVDFLNPIQLGLSLSD   84 (286)
T ss_dssp             CCCGGGGCCEEECTTTHHHHHHHHHHHTTTSCEEEEEEEEEC----------CHHHHHHHHHHHHHTTCEEEEEEEEEEC
T ss_pred             CCCCCeEEEEEchhhhHHHHHHHHHHHHhcCCEEEEeeeecCcccCCCCCCCCCHHHHHHHHHHhHhhcceeEEeeeeec
Confidence            47788899999999999999999999999999999999999999998888889999999999999999999999999999


Q ss_pred             cCCCCCCCCCCCeeEEEeeecccCCCCCCCchhHHHHHHHcCCCccchhhcCCchhHHHHHHHHhcccccCCcceEEecc
Q 023991           84 ENGNLPTCGTDKYCVWQFNFREFDVNEDIFANDSIELLKQSGINFTKNNEIGIDAMRFGEFMMSSGIVLSDSMHWVTFHS  163 (274)
Q Consensus        84 ~~g~~p~~~~~~~~~w~FNF~~F~~~~d~~~~~Si~fL~~~GfDFnk~~~~GI~~~~f~e~l~~Sgl~~~~~v~wvtf~g  163 (274)
                      ++|+.|..   ++++|||||+ |+..+|+|+++||+||+++||||||+.++||++.+|+|++++||++++++++||+|||
T Consensus        85 ~~g~~~~~---~~~~w~FNF~-f~~~~d~~~~~Si~fL~~~G~DF~k~~~~GI~~~~F~~ll~~s~l~~~~~~~wi~fhg  160 (286)
T d1uoca_          85 ANGNKPDN---GPSTWQFNFE-FDPKKEIMSTESLELLRKSGINFEKHENLGIDVFEFSQLLMDSGLMMDDSVTWITYHA  160 (286)
T ss_dssp             TTCCCCSS---SCSEEEEEBC-CCTTCCCCCHHHHHHHHHTTCCHHHHHHHCBCHHHHHHHHHTSSCSSCTTSEEEESST
T ss_pred             ccCCCCCC---CceEEEEEEE-ecCccccccHHHHHHHHHcCCChHHHHHcCCCHHHHHHHHHhccccccCCcceEEecc
Confidence            99998753   5799999999 9999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhHHHHHHHhCCCCCCCChHHHHHHHHhhCCccccchhhhHhhhcc---------------cCcHHHHHHHcCCccCCC
Q 023991          164 GYDFGYLLKLLTCQNLPDTQVEFFNLIRIYFPTVYDIKHLMKFCNSL---------------HGGLNKLAELLEVERVGI  228 (274)
Q Consensus       164 ~yD~~yL~k~l~~~~LP~~~~~F~~~l~~~FP~iyDtK~la~~~~~l---------------~~~L~~la~~L~~~r~~~  228 (274)
                      +|||+||+|+|+++|||+++++|+++++.+||++||||||++.+..+               ++||++||+.|+++|+|+
T Consensus       161 ~yD~~yl~k~l~~~~LP~~~~eF~~~v~~~FP~iyDtK~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~ia~~l~v~~~g~  240 (286)
T d1uoca_         161 AYDLGFLINILMNDSMPNNKEDFEWWVHQYMPNFYDLNLVYKIIQEFKNPQLQQSSQQQQQQQYSLTTLADELGLPRFSI  240 (286)
T ss_dssp             THHHHHHHHHHTTSCCCSSHHHHHHHHHHHCSSEEEHHHHHHHHTTTCC-------------CCSHHHHHHHTTCCCCGG
T ss_pred             hHHHHHHHHHHhCCCCCCCHHHHHHHHHHHCCcceeHHHHHHHhhccccccccchhhhhccccCCHHHHHHhcCCCccCC
Confidence            99999999999999999999999999999999999999999988644               349999999999999999


Q ss_pred             CccchhhHHHHHHHHHHHHHHhcC---C--CccccccEEeecCCCC
Q 023991          229 CHQAGSDSLLTASTFRKLKENFFS---S--SLEKYAGVLYGLGVEN  269 (274)
Q Consensus       229 ~HqAGsDs~lT~~~F~~l~~~~~~---~--~~~~~~g~i~Gl~~~~  269 (274)
                      +||||||||||++||++|++.+..   +  +.+++.|+|||||.++
T Consensus       241 ~HeAG~DSllT~~~F~~l~~~~~~~f~~~~~~~~~~g~l~Gl~~~~  286 (286)
T d1uoca_         241 FTTTGGQSLLMLLSFCQLSKLSMHKFPNGTDFAKYQGVIYGIDGDQ  286 (286)
T ss_dssp             GGSHHHHHHHHHHHHHHHHHHTTTBCTTSCBGGGGTTCSSCCTTCC
T ss_pred             CcchHHHHHHHHHHHHHHHHHHHhhccCCccHHHhCCEEeCCCCCC
Confidence            999999999999999999987643   2  4689999999999764
>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
>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