Citrus Sinensis ID: 023963

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----
MSILPKSESIHIREVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGIVLRSIGNFKSSSEYNYQNLKVNVDLLKLIQLGLTFTDENGNLPKCGTDKYCLWQFNFREFSPDEDVYAYDSIKLLSRSGIDFKKNKEKGVDAMRFSELLMSSGIVLNDSVHWVTFHSGYDFGYLLKLLTCKDLPETQACFFDLIKMYFPTLYDIKHLMKFCNSLHGGLNKLAELLEVERIGICHQAGSDSLLTCCTFMKMKDNFFKGSPEKYAGVLYGLGVENGQISQ
ccccccccccEEEEEccccHHHHHHHHHHHHHcccEEEEEEEEccEEEcccccccccHHHHHHHHHHHHHHHHHHHHHcEEEcccccccccccccEEEEEEEcccccccccccHHHHHHHHHHccccHHHHHHHccHHHHHHHHHHHHccccccccEEEEEEcccHHHHHHHHHccccccccHHHHHHHHHHHcccEEEEHHHHHHHccccccHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHccccccccccEEEEcccccccccc
ccccccccccEHHHHHHHHHHHHHHHHHHHHHHccEEEEccccccEEEEEcccccccccHHHEEEHHHHHHHHHHHHcEEEEccccccccccccccEEEEEEccccccHHHcccHHHHHHHHHccccHHHHHHccccHHHHHHHHHHccEEEcccEEEEEEcccHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHHccHHHHHHHHccccEcccccccccHHHHHHHHHHHHHHHHHcccHHHHccEEEEEccccccccc
msilpksesiHIREVWNDNLEHEFSLIRDivddypyiamdtefPGIVLRSignfkssseynyqNLKVNVDLLKLIQLGltftdengnlpkcgtdkyclwqfnfrefspdedvyayDSIKLLSrsgidfkknkekgvDAMRFSELLMSSGIVLNDSVHWVTFHSGYDFGYLLKLltckdlpetQACFFDLIKMYFPTLYDIKHLMKFCNSLHGGLNKLAELLEVERIGichqagsdslltCCTFMkmkdnffkgspekYAGVLYGlgvengqisq
msilpksesiHIREVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGIVLRSIGNFKSSSEYNYQNLKVNVDLLKLIQLGLTFTDENGNLPKCGTDKYCLWQFNFREFSPDEDVYAYDSIKLlsrsgidfkknkeKGVDAMRFSELLMSSGIVLNDSVHWVTFHSGYDFGYLLKLLTCKDLPETQACFFDLIKMYFPTLYDIKHLMKFCNSLHGGLNKLAELLEVERIGICHQAGSDSLLTCCTFMKMKDNFFKGSPEKYAGVLYGLGvengqisq
MSILPKSESIHIREVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGIVLRSIGNFKSSSEYNYQNLKVNVDLLKLIQLGLTFTDENGNLPKCGTDKYCLWQFNFREFSPDEDVYAYDSIKLLSRSGIDFKKNKEKGVDAMRFSELLMSSGIVLNDSVHWVTFHSGYDFGYLLKLLTCKDLPETQACFFDLIKMYFPTLYDIKHLMKFCNSLHGGLNKLAELLEVERIGICHQAGSDSLLTCCTFMKMKDNFFKGSPEKYAGVLYGLGVENGQISQ
*********IHIREVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGIVLRSIGNFKSSSEYNYQNLKVNVDLLKLIQLGLTFTDENGNLPKCGTDKYCLWQFNFREFSPDEDVYAYDSIKLLSRSGIDFKKNKEKGVDAMRFSELLMSSGIVLNDSVHWVTFHSGYDFGYLLKLLTCKDLPETQACFFDLIKMYFPTLYDIKHLMKFCNSLHGGLNKLAELLEVERIGICHQAGSDSLLTCCTFMKMKDNFFKGSPEKYAGVLYGLGV*******
**********HIREVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGIVLRSIGNFKSSSEYNYQNLKVNVDLLKLIQLGLTFTDENGNLPKCGTDKYCLWQFNFREFSPDEDVYAYDSIKLLSRSGIDFKKNKEKGVDAMRFSELLMSSGIVLNDSVHWVTFHSGYDFGYLLKLLTCKDLPETQACFFDLIKMYFPTLYDIKHLMKFCNSLHGGLNKLAELLEVERIGICHQAGSDSLLTCCTFMKMKDNFFKGSPEKYAGVLYGL**E******
MSILPKSESIHIREVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGIVLRSIGNFKSSSEYNYQNLKVNVDLLKLIQLGLTFTDENGNLPKCGTDKYCLWQFNFREFSPDEDVYAYDSIKLLSRSGIDFKKNKEKGVDAMRFSELLMSSGIVLNDSVHWVTFHSGYDFGYLLKLLTCKDLPETQACFFDLIKMYFPTLYDIKHLMKFCNSLHGGLNKLAELLEVERIGICHQAGSDSLLTCCTFMKMKDNFFKGSPEKYAGVLYGLGVENGQISQ
******SESIHIREVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGIVLRSIGNFKSSSEYNYQNLKVNVDLLKLIQLGLTFTDENGNLPKCGTDKYCLWQFNFREFSPDEDVYAYDSIKLLSRSGIDFKKNKEKGVDAMRFSELLMSSGIVLNDSVHWVTFHSGYDFGYLLKLLTCKDLPETQACFFDLIKMYFPTLYDIKHLMKFCNSLHGGLNKLAELLEVERIGICHQAGSDSLLTCCTFMKMKDNFFKGSPEKYAGVLYGLGVE******
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MSILPKSESIHIREVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGIVLRSIGNFKSSSEYNYQNLKVNVDLLKLIQLGLTFTDENGNLPKCGTDKYCLWQFNFREFSPDEDVYAYDSIKLLSRSGIDFKKNKEKGVDAMRFSELLMSSGIVLNDSVHWVTFHSGYDFGYLLKLLTCKDLPETQACFFDLIKMYFPTLYDIKHLMKFCNSLHGGLNKLAELLEVERIGICHQAGSDSLLTCCTFMKMKDNFFKGSPEKYAGVLYGLGVENGQISQ
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 0.992 0.989 0.739 1e-122
Q9SAI2274 Probable CCR4-associated no no 0.996 0.996 0.728 1e-122
Q9LEU4277 Probable CCR4-associated no no 0.996 0.985 0.681 1e-110
Q9S9P2286 Probable CCR4-associated no no 0.967 0.926 0.610 2e-93
Q9UFF9292 CCR4-NOT transcription co yes no 0.930 0.873 0.557 8e-78
Q9D8X5292 CCR4-NOT transcription co yes no 0.930 0.873 0.557 1e-77
Q60809285 CCR4-NOT transcription co no no 0.937 0.901 0.546 2e-77
Q3ZC01285 CCR4-NOT transcription co no no 0.937 0.901 0.546 2e-77
Q9UIV1285 CCR4-NOT transcription co no no 0.937 0.901 0.546 2e-77
Q5ZJV9285 CCR4-NOT transcription co no no 0.937 0.901 0.546 2e-77
>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 =  437 bits (1124), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 202/273 (73%), Positives = 242/273 (88%), Gaps = 1/273 (0%)

Query: 1   MSILPKSESIHIREVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGIVLRSIGNFKSSSEY 60
           MS+  K +SI IREVWNDNLE E +LIR++VDD+P++AMDTEFPGIV R +G FK+++EY
Sbjct: 1   MSLFLKDDSIQIREVWNDNLESEMALIREVVDDFPFVAMDTEFPGIVCRPVGTFKTNTEY 60

Query: 61  NYQNLKVNVDLLKLIQLGLTFTDENGNLPKCGTD-KYCLWQFNFREFSPDEDVYAYDSIK 119
           +Y+ LK NV++LK+IQLGLTF+DE GNLP CGTD KYC+WQFNFREF  + D+YA DSI+
Sbjct: 61  HYETLKTNVNILKMIQLGLTFSDEKGNLPTCGTDNKYCIWQFNFREFDLESDIYATDSIE 120

Query: 120 LLSRSGIDFKKNKEKGVDAMRFSELLMSSGIVLNDSVHWVTFHSGYDFGYLLKLLTCKDL 179
           LL +SGIDF KN E G+D+ RF+ELLMSSGIVLN++VHWVTFHSGYDFGYLLKLLTC++L
Sbjct: 121 LLRQSGIDFVKNNEFGIDSKRFAELLMSSGIVLNENVHWVTFHSGYDFGYLLKLLTCQNL 180

Query: 180 PETQACFFDLIKMYFPTLYDIKHLMKFCNSLHGGLNKLAELLEVERIGICHQAGSDSLLT 239
           PETQ  FF++I +YFP +YDIKHLMKFCNSLHGGLNKLAELL+VER+GICHQAGSDSLLT
Sbjct: 181 PETQTGFFEMISVYFPRVYDIKHLMKFCNSLHGGLNKLAELLDVERVGICHQAGSDSLLT 240

Query: 240 CCTFMKMKDNFFKGSPEKYAGVLYGLGVENGQI 272
            CTF K+++NFF GS EKY+GVLYGLGVENGQI
Sbjct: 241 SCTFRKLQENFFIGSMEKYSGVLYGLGVENGQI 273
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|Q9UFF9|CNOT8_HUMAN CCR4-NOT transcription complex subunit 8 OS=Homo sapiens GN=CNOT8 PE=1 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
>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

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 0.989 0.989 0.826 1e-131
224072707274 predicted protein [Populus trichocarpa] 1.0 1.0 0.810 1e-130
225465508274 PREDICTED: probable CCR4-associated fact 0.989 0.989 0.811 1e-129
224057551274 predicted protein [Populus trichocarpa] 0.989 0.989 0.811 1e-128
255548772274 ccr4-associated factor, putative [Ricinu 0.989 0.989 0.793 1e-128
356515030273 PREDICTED: probable CCR4-associated fact 0.996 1.0 0.783 1e-127
356507355273 PREDICTED: probable CCR4-associated fact 0.996 1.0 0.776 1e-126
356523338277 PREDICTED: probable CCR4-associated fact 0.992 0.981 0.795 1e-125
225445879270 PREDICTED: probable CCR4-associated fact 0.985 1.0 0.788 1e-125
255648347277 unknown [Glycine max] 0.992 0.981 0.791 1e-125
>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 =  473 bits (1216), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 224/271 (82%), Positives = 249/271 (91%)

Query: 1   MSILPKSESIHIREVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGIVLRSIGNFKSSSEY 60
           MS+L K +SI IREVWNDNLE EFSLIR+IVD+Y YIAMDTEFPGIVLR +GNFK+S+EY
Sbjct: 1   MSLLLKGDSIQIREVWNDNLEEEFSLIREIVDEYSYIAMDTEFPGIVLRPVGNFKNSNEY 60

Query: 61  NYQNLKVNVDLLKLIQLGLTFTDENGNLPKCGTDKYCLWQFNFREFSPDEDVYAYDSIKL 120
           +YQ LK NVD+LKLIQLGLTF+DE GNLP CGTDKYC+WQFNFREF+ +EDV+A DSI+L
Sbjct: 61  HYQTLKDNVDMLKLIQLGLTFSDEQGNLPTCGTDKYCIWQFNFREFNVNEDVFANDSIEL 120

Query: 121 LSRSGIDFKKNKEKGVDAMRFSELLMSSGIVLNDSVHWVTFHSGYDFGYLLKLLTCKDLP 180
           L +SGIDFKKN E+G+DAMRF ELLMSSGIVLNDSVHWVTFHSGYDFGYLLKLLTC++LP
Sbjct: 121 LRQSGIDFKKNNERGIDAMRFGELLMSSGIVLNDSVHWVTFHSGYDFGYLLKLLTCQNLP 180

Query: 181 ETQACFFDLIKMYFPTLYDIKHLMKFCNSLHGGLNKLAELLEVERIGICHQAGSDSLLTC 240
           +TQ  FF+LI MYFPTLYDIKHLMKFCNSLHGGLNKLAELLEVER+GICHQAGSDSLLT 
Sbjct: 181 DTQLGFFNLINMYFPTLYDIKHLMKFCNSLHGGLNKLAELLEVERVGICHQAGSDSLLTA 240

Query: 241 CTFMKMKDNFFKGSPEKYAGVLYGLGVENGQ 271
           CTF K+K+NFF GS EKYAGVLYGLGVENGQ
Sbjct: 241 CTFRKLKENFFSGSLEKYAGVLYGLGVENGQ 271

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>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|224057551|ref|XP_002299263.1| predicted protein [Populus trichocarpa] gi|222846521|gb|EEE84068.1| predicted protein [Populus trichocarpa] 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
>gi|356515030|ref|XP_003526204.1| PREDICTED: probable CCR4-associated factor 1 homolog 7-like [Glycine max] Back     alignment and taxonomy information
>gi|356507355|ref|XP_003522433.1| PREDICTED: probable CCR4-associated factor 1 homolog 7-like [Glycine max] 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|225445879|ref|XP_002279241.1| PREDICTED: probable CCR4-associated factor 1 homolog 7 [Vitis vinifera] Back     alignment and taxonomy information
>gi|255648347|gb|ACU24625.1| unknown [Glycine max] 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 0.992 0.989 0.739 5.8e-114
TAIR|locus:2183765277 AT5G10960 [Arabidopsis thalian 0.967 0.956 0.698 1.3e-102
TAIR|locus:2200532286 AT1G15920 [Arabidopsis thalian 0.948 0.909 0.620 8.6e-88
DICTYBASE|DDB_G0284217367 DDB_G0284217 "CAF1 family prot 0.908 0.678 0.601 2e-79
UNIPROTKB|F1NYH4291 CNOT8 "Uncharacterized protein 0.912 0.859 0.564 3.1e-74
UNIPROTKB|Q5ZJV9285 CNOT7 "CCR4-NOT transcription 0.937 0.901 0.546 8.4e-74
UNIPROTKB|E1BJH0292 CNOT8 "Uncharacterized protein 0.912 0.856 0.564 8.4e-74
UNIPROTKB|Q3ZC01285 CNOT7 "CCR4-NOT transcription 0.937 0.901 0.546 8.4e-74
UNIPROTKB|E2RID4292 CNOT8 "Uncharacterized protein 0.912 0.856 0.564 8.4e-74
UNIPROTKB|E2RMU2285 CNOT7 "Uncharacterized protein 0.937 0.901 0.546 8.4e-74
TAIR|locus:2045512 AT2G32070 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1124 (400.7 bits), Expect = 5.8e-114, P = 5.8e-114
 Identities = 202/273 (73%), Positives = 242/273 (88%)

Query:     1 MSILPKSESIHIREVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGIVLRSIGNFKSSSEY 60
             MS+  K +SI IREVWNDNLE E +LIR++VDD+P++AMDTEFPGIV R +G FK+++EY
Sbjct:     1 MSLFLKDDSIQIREVWNDNLESEMALIREVVDDFPFVAMDTEFPGIVCRPVGTFKTNTEY 60

Query:    61 NYQNLKVNVDLLKLIQLGLTFTDENGNLPKCGTD-KYCLWQFNFREFSPDEDVYAYDSIK 119
             +Y+ LK NV++LK+IQLGLTF+DE GNLP CGTD KYC+WQFNFREF  + D+YA DSI+
Sbjct:    61 HYETLKTNVNILKMIQLGLTFSDEKGNLPTCGTDNKYCIWQFNFREFDLESDIYATDSIE 120

Query:   120 LLSRSGIDFKKNKEKGVDAMRFSELLMSSGIVLNDSVHWVTFHSGYDFGYLLKLLTCKDL 179
             LL +SGIDF KN E G+D+ RF+ELLMSSGIVLN++VHWVTFHSGYDFGYLLKLLTC++L
Sbjct:   121 LLRQSGIDFVKNNEFGIDSKRFAELLMSSGIVLNENVHWVTFHSGYDFGYLLKLLTCQNL 180

Query:   180 PETQACFFDLIKMYFPTLYDIKHLMKFCNSLHGGLNKLAELLEVERIGICHQAGSDSLLT 239
             PETQ  FF++I +YFP +YDIKHLMKFCNSLHGGLNKLAELL+VER+GICHQAGSDSLLT
Sbjct:   181 PETQTGFFEMISVYFPRVYDIKHLMKFCNSLHGGLNKLAELLDVERVGICHQAGSDSLLT 240

Query:   240 CCTFMKMKDNFFKGSPEKYAGVLYGLGVENGQI 272
              CTF K+++NFF GS EKY+GVLYGLGVENGQI
Sbjct:   241 SCTFRKLQENFFIGSMEKYSGVLYGLGVENGQI 273
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|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|E1BJH0 CNOT8 "Uncharacterized protein" [Bos taurus (taxid:9913)] 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|E2RID4 CNOT8 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|E2RMU2 CNOT7 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] 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) ?
Q9SAI2CAF1F_ARATH3, ., 1, ., 1, 3, ., 40.72890.99630.9963nono
Q3KQ85CNOT7_XENLANo assigned EC number0.53900.93790.9017N/Ano
Q17345CNOT7_CAEELNo assigned EC number0.44900.91970.8129yesno
Q08BM8CNOT7_DANRENo assigned EC number0.54640.93790.8986yesno
Q9D8X5CNOT8_MOUSENo assigned EC number0.55720.93060.8732yesno
Q9UFF9CNOT8_HUMANNo assigned EC number0.55720.93060.8732yesno
A4II96CNOT7_XENTRNo assigned EC number0.53530.93790.9017yesno
Q9SKZ2CAF1G_ARATH3, ., 1, ., 1, 3, ., 40.73990.99270.9890yesno

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-111
COG5228299 COG5228, POP2, mRNA deadenylase subunit [RNA proce 9e-94
>gnl|CDD|147159 pfam04857, CAF1, CAF1 family ribonuclease Back     alignment and domain information 
 Score =  319 bits (821), Expect = e-111
 Identities = 132/239 (55%), Positives = 162/239 (67%), Gaps = 10/239 (4%)

Query: 13  REVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGIVLRSIGNFKSSSEYNYQNLKVNVDLL 72
           REVW  N   EF  IR  +D Y +IA+DTEFPG+V R IG+F+S+S+Y YQ L+ NVD L
Sbjct: 1   REVWRSNFHEEFKEIRQAIDSYDFIAIDTEFPGVVARPIGSFRSTSDYRYQALRKNVDRL 60

Query: 73  KLIQLGLTFTDENGNLPKCGTDKYCLWQFNFREFSPDEDVYAYDSIKLLSRSGIDFKKNK 132
           K+IQLGLT  DE GNLP      Y  WQFNF  F+ +ED YA  SI+ L++ G DF K++
Sbjct: 61  KIIQLGLTLFDEKGNLPDS----YYTWQFNFSLFNLEEDFYAPSSIEFLAKQGFDFNKHR 116

Query: 133 EKGVDAMRFSELLMSSGIVLND-SVHWVTFHSGYDFGYLLKLLTCKDLPETQACFFDLIK 191
            +G+  +RF+ELL SSG+ LN  SV WVTFH  YDFGYLLKLLT   LPET   F +L++
Sbjct: 117 REGIPYLRFAELLGSSGLFLNISSVTWVTFHGLYDFGYLLKLLTGGPLPETLDDFLELLR 176

Query: 192 MYFPTLYDIKHLMKFCNSLHG----GLNKLAELLEVER-IGICHQAGSDSLLTCCTFMK 245
             FP +YD K+L KFC  L G    GL +LA+LL V R +G  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 99.06
PRK07942232 DNA polymerase III subunit epsilon; Provisional 98.95
smart00479169 EXOIII exonuclease domain in DNA-polymerase alpha 98.94
cd06133176 ERI-1_3'hExo_like DEDDh 3'-5' exonuclease domain o 98.76
PRK09145202 DNA polymerase III subunit epsilon; Validated 98.7
cd06131167 DNA_pol_III_epsilon_Ecoli_like DEDDh 3'-5' exonucl 98.61
PRK07748207 sporulation inhibitor KapD; Provisional 98.57
PRK05168211 ribonuclease T; Provisional 98.57
cd06134189 RNaseT DEDDh 3'-5' exonuclease domain of RNase T. 98.56
cd06130156 DNA_pol_III_epsilon_like an uncharacterized bacter 98.52
PRK05711240 DNA polymerase III subunit epsilon; Provisional 98.44
PRK07740244 hypothetical protein; Provisional 98.38
PRK06807 313 DNA polymerase III subunit epsilon; Validated 98.37
PRK06310250 DNA polymerase III subunit epsilon; Validated 98.32
PRK06063 313 DNA polymerase III subunit epsilon; Provisional 98.3
TIGR00573217 dnaq exonuclease, DNA polymerase III, epsilon subu 98.28
PRK07247195 DNA polymerase III subunit epsilon; Validated 98.28
TIGR01406225 dnaQ_proteo DNA polymerase III, epsilon subunit, P 98.27
cd06127159 DEDDh DEDDh 3'-5' exonuclease domain family. DEDDh 98.24
PRK06195 309 DNA polymerase III subunit epsilon; Validated 98.22
PRK09146239 DNA polymerase III subunit epsilon; Validated 98.21
TIGR01298200 RNaseT ribonuclease T. in gamma-subdivision Proteo 98.18
cd06136177 TREX1_2 DEDDh 3'-5' exonuclease domain of three pr 98.1
PRK06722281 exonuclease; Provisional 98.09
PRK08517257 DNA polymerase III subunit epsilon; Provisional 98.07
PRK07883 557 hypothetical protein; Validated 98.05
PRK07246 820 bifunctional ATP-dependent DNA helicase/DNA polyme 97.99
TIGR01405 1213 polC_Gram_pos DNA polymerase III, alpha chain, Gra 97.98
TIGR01407 850 dinG_rel DnaQ family exonuclease/DinG family helic 97.95
PRK08074 928 bifunctional ATP-dependent DNA helicase/DNA polyme 97.94
PTZ00315 582 2'-phosphotransferase; Provisional 97.9
cd06138183 ExoI_N N-terminal DEDDh 3'-5' exonuclease domain o 97.83
cd06144152 REX4_like DEDDh 3'-5' exonuclease domain of RNA ex 97.8
PRK07983219 exodeoxyribonuclease X; Provisional 97.76
PF00929164 RNase_T: Exonuclease; InterPro: IPR013520 This ent 97.73
PRK06309232 DNA polymerase III subunit epsilon; Validated 97.7
PRK09182294 DNA polymerase III subunit epsilon; Validated 97.69
PRK11779 476 sbcB exonuclease I; Provisional 97.68
PRK00448 1437 polC DNA polymerase III PolC; Validated 97.51
COG0847243 DnaQ DNA polymerase III, epsilon subunit and relat 97.43
PRK05601 377 DNA polymerase III subunit epsilon; Validated 97.43
cd06145150 REX1_like DEDDh 3'-5' exonuclease domain of RNA ex 97.43
cd06137161 DEDDh_RNase DEDDh 3'-5' exonuclease domain of the 97.1
cd06149157 ISG20 DEDDh 3'-5' exonuclease domain of Interferon 96.79
PRK05359181 oligoribonuclease; Provisional 96.38
PF01612176 DNA_pol_A_exo1: 3'-5' exonuclease; InterPro: IPR00 95.22
PRK05755 880 DNA polymerase I; Provisional 95.15
COG0349 361 Rnd Ribonuclease D [Translation, ribosomal structu 94.89
cd06135173 Orn DEDDh 3'-5' exonuclease domain of oligoribonuc 94.39
cd06141170 WRN_exo DEDDy 3'-5' exonuclease domain of WRN and 94.33
TIGR01388 367 rnd ribonuclease D. This model describes ribonucle 93.51
cd06146193 mut-7_like_exo DEDDy 3'-5' exonuclease domain of C 93.26
PRK10829 373 ribonuclease D; Provisional 92.43
cd06129161 RNaseD_like DEDDy 3'-5' exonuclease domain of RNas 91.64
cd06148197 Egl_like_exo DEDDy 3'-5' exonuclease domain of Dro 89.62
PF10108209 DNA_pol_B_exo2: Predicted 3'-5' exonuclease relate 84.74
KOG2249280 consensus 3'-5' exonuclease [Replication, recombin 80.72
>KOG0304 consensus mRNA deadenylase subunit [RNA processing and modification] Back     alignment and domain information 
Probab=100.00  E-value=1.9e-91  Score=607.95  Aligned_cols=237  Identities=64%  Similarity=1.133  Sum_probs=231.1

Q ss_pred             eEEEcCcccHHHHHHHHHHHhhcCCeeEEeecccccccccCCCCCCChHHHHHHHHhcccccceeeeeeeeecCCCCCCC
Q 023963           11 HIREVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGIVLRSIGNFKSSSEYNYQNLKVNVDLLKLIQLGLTFTDENGNLPK   90 (274)
Q Consensus        11 ~i~~Vw~~N~~~el~~I~~~i~~~~fIAiDtEFpGv~~~p~~~~~~t~e~rY~~lr~nvd~~~iiQlGit~~~~~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            47999999999999999999999999999999999999999999999999999999999999999999999999999997


Q ss_pred             CCCCCeeeEEEeeeecCCCCCccchhhHHHHHHcCCCccchhhCCCChHHHHHHHHHcCcccCCCceeEEeecchhHHHH
Q 023963           91 CGTDKYCLWQFNFREFSPDEDVYAYDSIKLLSRSGIDFKKNKEKGVDAMRFSELLMSSGIVLNDSVHWVTFHSGYDFGYL  170 (274)
Q Consensus        91 ~g~~~~~~wqFNF~~F~~~~d~~~~~Si~fL~~~G~DF~k~~~~GI~~~~f~e~l~~sgLv~~~~v~Wvtfhg~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            75   569999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCCCCCCHHHHHHHHHhhCCCcccHHHHHHHhhh--ccccHHHHHHHcCCccCCCccccchhhHHHHHHHHHHHH
Q 023963          171 LKLLTCKDLPETQACFFDLIKMYFPTLYDIKHLMKFCNS--LHGGLNKLAELLEVERIGICHQAGSDSLLTCCTFMKMKD  248 (274)
Q Consensus       171 ~k~l~~~~LP~~~~~F~~~l~~~FP~iyD~K~la~~~~~--l~~~L~~la~~L~v~r~g~~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 023963          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
>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
>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
>PRK07748 sporulation inhibitor KapD; Provisional Back     alignment and domain information
>PRK05168 ribonuclease T; Provisional Back     alignment and domain information
>cd06134 RNaseT DEDDh 3'-5' exonuclease domain of RNase T 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
>PRK05711 DNA polymerase III subunit epsilon; Provisional Back     alignment and domain information
>PRK07740 hypothetical protein; Provisional Back     alignment and domain information
>PRK06807 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK06310 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK06063 DNA polymerase III subunit epsilon; Provisional Back     alignment and domain information
>TIGR00573 dnaq exonuclease, DNA polymerase III, epsilon subunit family Back     alignment and domain information
>PRK07247 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>TIGR01406 dnaQ_proteo DNA polymerase III, epsilon subunit, Proteobacterial Back     alignment and domain information
>cd06127 DEDDh DEDDh 3'-5' exonuclease domain family Back     alignment and domain information
>PRK06195 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK09146 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>TIGR01298 RNaseT ribonuclease T 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
>PRK06722 exonuclease; Provisional Back     alignment and domain information
>PRK08517 DNA polymerase III subunit epsilon; Provisional Back     alignment and domain information
>PRK07883 hypothetical protein; Validated Back     alignment and domain information
>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
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative Back     alignment and domain information
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PTZ00315 2'-phosphotransferase; Provisional 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
>PRK07983 exodeoxyribonuclease X; 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
>PRK06309 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>PRK09182 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
>PRK05601 DNA polymerase III subunit epsilon; Validated Back     alignment and domain information
>cd06145 REX1_like DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins Back     alignment and domain information
>cd06137 DEDDh_RNase DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonucleases PAN2, RNA exonuclease (REX)-1,-3, and -4, ISG20, and similar proteins Back     alignment and domain information
>cd06149 ISG20 DEDDh 3'-5' exonuclease domain of Interferon Stimulated Gene product of 20 kDa, and similar proteins Back     alignment and domain information
>PRK05359 oligoribonuclease; Provisional 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
>cd06135 Orn DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins Back     alignment and domain information
>cd06141 WRN_exo DEDDy 3'-5' exonuclease domain of WRN and similar proteins Back     alignment and domain information
>TIGR01388 rnd ribonuclease D 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
>PRK10829 ribonuclease D; Provisional 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
>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
>KOG2249 consensus 3'-5' exonuclease [Replication, recombination and repair] 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-78
2d5r_A252 Crystal Structure Of A Tob-Hcaf1 Complex Length = 2 3e-77
2p51_A333 Crystal Structure Of The S. Pombe Pop2p Deadenylati 4e-69
4b8a_B286 Structure Of Yeast Not1 Mif4g Domain Co-Crystallize 8e-50
1uoc_A289 X-Ray Structure Of The Rnase Domain Of The Yeast Po 9e-50
4b8c_A288 Nuclease Module Of The Yeast Ccr4-Not Complex Lengt 9e-50
>pdb|4GMJ|B Chain B, Structure Of Human Not1 Mif4g Domain Co-Crystallized With Caf1 Length = 285 Back     alignment and structure 
Iteration: 1

 Score =  289 bits (739), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 147/269 (54%), Positives = 197/269 (73%), Gaps = 12/269 (4%)
Query: 9   SIHIREVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGIVLRSIGNFKSSSEYNYQNLKVN 68
           S  I EVW  NL+ E   IR ++  Y Y+AMDTEFPG+V R IG F+S+++Y YQ L+ N
Sbjct: 9   SQRICEVWACNLDEEMKKIRQVIRKYNYVAMDTEFPGVVARPIGEFRSNADYQYQLLRCN 68
Query: 69  VDLLKLIQLGLTFTDENGNLPKCGTDKYCLWQFNFREFSPDEDVYAYDSIKLLSRSGIDF 128
           VDLLK+IQLGLTF +E G  P  GT     WQFNF+ F+  ED+YA DSI+LL+ SGI F
Sbjct: 69  VDLLKIIQLGLTFMNEQGEYPP-GTST---WQFNFK-FNLTEDMYAQDSIELLTTSGIQF 123
Query: 129 KKNKEKGVDAMRFSELLMSSGIVLNDSVHWVTFHSGYDFGYLLKLLTCKDLPETQACFFD 188
           KK++E+G++   F+ELLM+SG+VL + V W++FHSGYDFGYL+K+LT  +LPE +  FF+
Sbjct: 124 KKHEEEGIETQYFAELLMTSGVVLCEGVKWLSFHSGYDFGYLIKILTNSNLPEEELDFFE 183
Query: 189 LIKMYFPTLYDIKHLMKFCNSLHGGLNKLAELLEVERIGICHQAGSDSLLTCCTFMKMKD 248
           +++++FP +YD+K+LMK C +L GGL ++AE LE+ERIG  HQAGSDSLLT   F KM++
Sbjct: 184 ILRLFFPVIYDVKYLMKSCKNLKGGLQEVAEQLELERIGPQHQAGSDSLLTGMAFFKMRE 243
Query: 249 NFFKGSPE--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|1UOC|A Chain A, X-Ray Structure Of The Rnase Domain Of The Yeast Pop2 Protein Length = 289 Back     alignment and structure
>pdb|4B8C|A Chain A, Nuclease Module Of The Yeast Ccr4-Not Complex Length = 288 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-127
1uoc_A289 POP2; hydrolase, DEDD nuclease, mRNA degradation, 1e-122
2d5r_A252 CCR4-NOT transcription complex subunit 7; poly(A) 1e-115
2a1r_A 430 Poly(A)-specific ribonuclease PARN; DEDD, nuclease 3e-29
2a1r_A430 Poly(A)-specific ribonuclease PARN; DEDD, nuclease 1e-15
3d45_A 507 Poly(A)-specific ribonuclease PARN; CAP analogue, 1e-27
3d45_A507 Poly(A)-specific ribonuclease PARN; CAP analogue, 7e-13
>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 =  362 bits (931), Expect = e-127
 Identities = 127/271 (46%), Positives = 181/271 (66%), Gaps = 6/271 (2%)

Query: 5   PKSESIHIREVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGIVLRSIGNFKSSSEYNYQN 64
             S+   IR+VW+ NL+ E +LI  +++ YP ++MDTEFPG+V R +G FKSS +Y+YQ 
Sbjct: 16  ISSQISPIRDVWSTNLQQEMNLIMSLIERYPVVSMDTEFPGVVARPLGVFKSSDDYHYQT 75

Query: 65  LKVNVDLLKLIQLGLTFTDENGNLPKCGTDKYCLWQFNFREFSPDEDVYAYDSIKLLSRS 124
           L+ NVD LK+IQ+GL  +DE GN P     + C WQFNF  F+  +D+YA +SI+LL++S
Sbjct: 76  LRANVDSLKIIQIGLALSDEEGNAP----VEACTWQFNFT-FNLQDDMYAPESIELLTKS 130

Query: 125 GIDFKKNKEKGVDAMRFSELLMSSGIVLNDSVHWVTFHSGYDFGYLLKLLTCKDLPETQA 184
           GIDFKK++E G++   F+ELL+ SG+VL + V W+TFHSGYDF YLLK +T   LP    
Sbjct: 131 GIDFKKHQEVGIEPADFAELLIGSGLVLQEEVTWITFHSGYDFAYLLKAMTQIPLPAEYE 190

Query: 185 CFFDLIKMYFPTLYDIKHLMKFCNSLHGGLNKLAELLEVERIGICHQAGSDSLLTCCTFM 244
            F+ ++ +YFP  YDIK++MK   +   GL  +A+ L++ RIG  HQAGSD+LLT   F 
Sbjct: 191 EFYKILCIYFPKNYDIKYIMKSVLNNSKGLQDIADDLQIHRIGPQHQAGSDALLTARIFF 250

Query: 245 KMKDNFFKGS-PEKYAGVLYGLGVENGQISQ 274
           +++  +F GS   +    LYGLG     +  
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 98.77
2f96_A224 Ribonuclease T; RNAse, RNT, RNAse T, tRNA hydrolas 98.76
3cg7_A308 CRN-4, cell death-related nuclease 4; hydrolase, a 98.65
2gui_A194 DNA polymerase III epsilon subunit; DNA polymerase 98.61
2xri_A224 ERI1 exoribonuclease 3; hydrolase, metal binding; 98.61
2p1j_A186 POLIII, DNA polymerase III POLC-type; structural g 98.6
1zbh_A299 3'-5' exonuclease ERI1; histone mRNA 3'-END-specif 98.57
3mxm_B242 Three prime repair exonuclease 1; RNAse H-like fol 98.52
1zbu_A349 ERI-1 homolog, 3'-5' exonuclease ERI1; hydrolase; 98.4
2qxf_A 482 Exodeoxyribonuclease I; alpha-beta domain, DNAQ su 98.38
1y97_A238 Three prime repair exonuclease 2; TREX2, hydrolase 98.35
3u3y_B314 Three prime repair exonuclease 1; RNAse H fold, 3' 98.23
1wlj_A189 Interferon stimulated gene 20KDA; exoribonuclease, 98.2
2igi_A180 Oligoribonuclease; RNAse, exoribonuclease, exonucl 97.99
2gbz_A194 Oligoribonuclease; ORN, deddh, structural genomics 97.52
3tr8_A186 Oligoribonuclease; transcription, hydrolase; 2.50A 97.25
2kfn_A 605 Klenow fragment of DNA polymerase I; complex (poly 96.54
>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=8.2e-94  Score=657.45  Aligned_cols=263  Identities=54%  Similarity=0.988  Sum_probs=247.7

Q ss_pred             CCCCCCCCCceEEEcCcccHHHHHHHHHHHhhcCCeeEEeecccccccccCCCCCCChHHHHHHHHhcccccceeeeeee
Q 023963            1 MSILPKSESIHIREVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGIVLRSIGNFKSSSEYNYQNLKVNVDLLKLIQLGLT   80 (274)
Q Consensus         1 ~~~~~~~~~~~i~~Vw~~N~~~el~~I~~~i~~~~fIAiDtEFpGv~~~p~~~~~~t~e~rY~~lr~nvd~~~iiQlGit   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            89998888999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eecCCCCCCCCCCCCeeeEEEeeeecCCCCCccchhhHHHHHHcCCCccchhhCCCChHHHHHHHHHcCcccCCCceeEE
Q 023963           81 FTDENGNLPKCGTDKYCLWQFNFREFSPDEDVYAYDSIKLLSRSGIDFKKNKEKGVDAMRFSELLMSSGIVLNDSVHWVT  160 (274)
Q Consensus        81 ~~~~~g~~p~~g~~~~~~wqFNF~~F~~~~d~~~~~Si~fL~~~G~DF~k~~~~GI~~~~f~e~l~~sgLv~~~~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            9999999985    5899999999 9999999999999999999999999999999999999999999999999999999


Q ss_pred             eecchhHHHHHHHhcCCCCCCCHHHHHHHHHhhCCCcccHHHHHHHhhhccccHHHHHHHcCCccCCCccccchhhHHHH
Q 023963          161 FHSGYDFGYLLKLLTCKDLPETQACFFDLIKMYFPTLYDIKHLMKFCNSLHGGLNKLAELLEVERIGICHQAGSDSLLTC  240 (274)
Q Consensus       161 fhg~yD~~yl~k~l~~~~LP~~~~~F~~~l~~~FP~iyD~K~la~~~~~l~~~L~~la~~L~v~r~g~~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--ccccccEEeecCCC
Q 023963          241 CTFMKMKDNFFKGS--PEKYAGVLYGLGVE  268 (274)
Q Consensus       241 ~~F~~l~~~~~~~~--~~~~~~~i~Gl~~~  268 (274)
                      +||++|++.||++.  .++|+|+|||||..
T Consensus       236 ~~F~kl~~~~f~~~~~~~~~~g~l~Glg~~  265 (285)
T 4gmj_B          236 MAFFKMREMFFEDHIDDAKYCGHLYGLGSG  265 (285)
T ss_dssp             HHHHHHHHHHHTTCCCHHHHTTCCTTSSTT
T ss_pred             HHHHHHHHHHhcCCcchHHhCCEEeccCCC
Confidence            99999999999765  55899999999965
>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
>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
>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
>2xri_A ERI1 exoribonuclease 3; hydrolase, metal binding; 2.15A {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
>1zbh_A 3'-5' exonuclease ERI1; histone mRNA 3'-END-specific recognition, structures of 3'- exonuclease and ITS RNA complex, hydrolase/RNA complex; HET: AMP; 3.00A {Homo sapiens} Back     alignment and structure
>3mxm_B Three prime repair exonuclease 1; RNAse H-like fold, polyproline type II helix, hydrolase-DNA; HET: DNA; 1.75A {Mus musculus} SCOP: c.55.3.5 PDB: 3mxj_B 2ioc_B 3mxi_B* 3b6o_A* 2o4g_A* 3b6p_A* 2o4i_A 2oa8_A Back     alignment and structure
>1zbu_A ERI-1 homolog, 3'-5' exonuclease ERI1; hydrolase; HET: AMP; 3.00A {Homo sapiens} Back     alignment and structure
>2qxf_A Exodeoxyribonuclease I; alpha-beta domain, DNAQ superfamily, SH3-like domain, produc structure, DNA damage, DNA repair, exonuclease; HET: TMP; 1.50A {Escherichia coli} SCOP: c.55.3.5 PDB: 1fxx_A* 3c94_A 3c95_A 3hl8_A* 3hp9_A* Back     alignment and structure
>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
>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 (877), Expect = e-119
 Identities = 101/286 (35%), Positives = 157/286 (54%), Gaps = 24/286 (8%)

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

Query: 63  QNLKVNVDLLKLIQLGLTFTDENGNLPKCGTDKYCLWQFNFREFSPDEDVYAYDSIKLLS 122
           Q ++ NVD L  IQLGL+ +D NGN P  G      WQFNF  F P +++ + +S++LL 
Sbjct: 64  QTMRANVDFLNPIQLGLSLSDANGNKPDNG---PSTWQFNFE-FDPKKEIMSTESLELLR 119

Query: 123 RSGIDFKKNKEKGVDAMRFSELLMSSGIVLNDSVHWVTFHSGYDFGYLLKLLTCKDLPET 182
           +SGI+F+K++  G+D   FS+LLM SG++++DSV W+T+H+ YD G+L+ +L    +P  
Sbjct: 120 KSGINFEKHENLGIDVFEFSQLLMDSGLMMDDSVTWITYHAAYDLGFLINILMNDSMPNN 179

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

Query: 228 ICHQAGSDSLLTCCTFMKMKD----NFFKGS-PEKYAGVLYGLGVE 268
           I    G  SLL   +F ++       F  G+   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 98.75
d1w0ha_200 Exonuclease ERI1 {Human (Homo sapiens) [TaxId: 960 98.65
d2f96a1202 Ribonuclease T {Pseudomonas aeruginosa [TaxId: 287 98.48
d1y97a1228 Three prime repair exonuclease 2, TREX2 {Human (Ho 98.45
d3b6oa1226 Three prime repair exonuclease 1, TREX1 {Mouse (Mu 98.19
d2qxfa1 467 Exonuclease I {Escherichia coli K12 (Escherichia c 98.15
d1wlja_173 Interferon-stimulated gene 20 kDa protein, ISG20 { 97.94
d1yt3a3193 Ribonuclease D, catalytic domain {Escherichia coli 97.24
d2hbka2292 Exosome complex exonuclease RRP6 {Baker's yeast (S 96.49
d1kfsa1195 Exonuclease domain of prokaryotic DNA polymerase { 95.57
d2igia1180 Oligoribonuclease {Escherichia coli [TaxId: 562]} 84.95
>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=9.2e-88  Score=616.14  Aligned_cols=260  Identities=38%  Similarity=0.775  Sum_probs=237.7

Q ss_pred             CCCCCceEEEcCcccHHHHHHHHHHHhhcCCeeEEeecccccccccCCCCCCChHHHHHHHHhcccccceeeeeeeeecC
Q 023963            5 PKSESIHIREVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGIVLRSIGNFKSSSEYNYQNLKVNVDLLKLIQLGLTFTDE   84 (274)
Q Consensus         5 ~~~~~~~i~~Vw~~N~~~el~~I~~~i~~~~fIAiDtEFpGv~~~p~~~~~~t~e~rY~~lr~nvd~~~iiQlGit~~~~   84 (274)
                      |+++.+.|||||++||++||+.|+++|++|+||||||||||++++|.+.+++++++||+++|+|||.+++||+|||+|++
T Consensus         6 p~~~~~~i~dVw~~N~~~e~~~i~~~i~~~~fvaiD~EF~Gi~~~~~~~~~~t~d~~Y~~lr~nvd~~~iiQlGlt~f~~   85 (286)
T d1uoca_           6 PPPNYLFVRDVWKSNLYSEFAVIRQLVSQYNHVSISTEFVGTLARPIGTFRSKVDYHYQTMRANVDFLNPIQLGLSLSDA   85 (286)
T ss_dssp             CCGGGGCCEEECTTTHHHHHHHHHHHTTTSCEEEEEEEEEC----------CHHHHHHHHHHHHHTTCEEEEEEEEEECT
T ss_pred             CCCCeEEEEEchhhhHHHHHHHHHHHHhcCCEEEEeeeecCcccCCCCCCCCCHHHHHHHHHHhHhhcceeEEeeeeecc
Confidence            78888999999999999999999999999999999999999999998888899999999999999999999999999999


Q ss_pred             CCCCCCCCCCCeeeEEEeeeecCCCCCccchhhHHHHHHcCCCccchhhCCCChHHHHHHHHHcCcccCCCceeEEeecc
Q 023963           85 NGNLPKCGTDKYCLWQFNFREFSPDEDVYAYDSIKLLSRSGIDFKKNKEKGVDAMRFSELLMSSGIVLNDSVHWVTFHSG  164 (274)
Q Consensus        85 ~g~~p~~g~~~~~~wqFNF~~F~~~~d~~~~~Si~fL~~~G~DF~k~~~~GI~~~~f~e~l~~sgLv~~~~v~Wvtfhg~  164 (274)
                      +|+.|..   ++++|||||+ |+..+|+|+++||+||+++||||||++++||++.+|+|+|++||++++++++||+|||+
T Consensus        86 ~g~~~~~---~~~~w~FNF~-f~~~~d~~~~~Si~fL~~~G~DF~k~~~~GI~~~~F~~ll~~s~l~~~~~~~wi~fhg~  161 (286)
T d1uoca_          86 NGNKPDN---GPSTWQFNFE-FDPKKEIMSTESLELLRKSGINFEKHENLGIDVFEFSQLLMDSGLMMDDSVTWITYHAA  161 (286)
T ss_dssp             TCCCCSS---SCSEEEEEBC-CCTTCCCCCHHHHHHHHHTTCCHHHHHHHCBCHHHHHHHHHTSSCSSCTTSEEEESSTT
T ss_pred             cCCCCCC---CceEEEEEEE-ecCccccccHHHHHHHHHcCCChHHHHHcCCCHHHHHHHHHhccccccCCcceEEecch
Confidence            9998853   4899999999 99999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHhcCCCCCCCHHHHHHHHHhhCCCcccHHHHHHHhhhc---------------cccHHHHHHHcCCccCCCc
Q 023963          165 YDFGYLLKLLTCKDLPETQACFFDLIKMYFPTLYDIKHLMKFCNSL---------------HGGLNKLAELLEVERIGIC  229 (274)
Q Consensus       165 yD~~yl~k~l~~~~LP~~~~~F~~~l~~~FP~iyD~K~la~~~~~l---------------~~~L~~la~~L~v~r~g~~  229 (274)
                      ||||||+|+|+|+|||+++++|+++++.+||++||||||++.+.++               +.||++||+.|+++|+|++
T Consensus       162 yD~~yl~k~l~~~~LP~~~~eF~~~v~~~FP~iyDtK~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~ia~~l~v~~~g~~  241 (286)
T d1uoca_         162 YDLGFLINILMNDSMPNNKEDFEWWVHQYMPNFYDLNLVYKIIQEFKNPQLQQSSQQQQQQQYSLTTLADELGLPRFSIF  241 (286)
T ss_dssp             HHHHHHHHHHTTSCCCSSHHHHHHHHHHHCSSEEEHHHHHHHHTTTCC-------------CCSHHHHHHHTTCCCCGGG
T ss_pred             HHHHHHHHHHhCCCCCCCHHHHHHHHHHHCCcceeHHHHHHHhhccccccccchhhhhccccCCHHHHHHhcCCCccCCC
Confidence            9999999999999999999999999999999999999999988644               3499999999999999999


Q ss_pred             cccchhhHHHHHHHHHHHHhhc----CC-CccccccEEeecCCC
Q 023963          230 HQAGSDSLLTCCTFMKMKDNFF----KG-SPEKYAGVLYGLGVE  268 (274)
Q Consensus       230 HqAGsDS~lT~~~F~~l~~~~~----~~-~~~~~~~~i~Gl~~~  268 (274)
                      ||||||||||++||++|++.+.    ++ +.+++.|+|||||.+
T Consensus       242 HeAG~DSllT~~~F~~l~~~~~~~f~~~~~~~~~~g~l~Gl~~~  285 (286)
T d1uoca_         242 TTTGGQSLLMLLSFCQLSKLSMHKFPNGTDFAKYQGVIYGIDGD  285 (286)
T ss_dssp             GSHHHHHHHHHHHHHHHHHHTTTBCTTSCBGGGGTTCSSCCTTC
T ss_pred             cchHHHHHHHHHHHHHHHHHHHhhccCCccHHHhCCEEeCCCCC
Confidence            9999999999999999998654    22 278999999999975
>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