Citrus Sinensis ID: 047989

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---
VYVRSALYPHSPSACLKWKNRSDAVLTVLKSFGADFLCLQELDNEDFYKGNMETEGYSSLYIQRSGQKRDGCGIFYKISCAELLVEDRIYYNELVNSIKDGSSCGDDQNNTLAGGNNDSDLKSGSWSKKDSRDHGDLNDPYVRLKRDCVGIMAAFRLKGPFDHVVIVATTHLYWDPELADVKLAQAKYLSSRLAEFRTQVSDRYDCVPSVIVAGDFNSVPGDK
cccccccccccccccccHHHHHHHHHHHHHHccccEEEEccccHHHHHHHHHHHccccEEEEccccccccEEEEEEEcccEEEEEEEEEEEcHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEEccccccEEEEEEEEEcccccccHHHHHHHHHHHHHHHHHHHHHcccccccccEEEEcccccccccc
ccccHHHccccccHHHcHHHHHHHHHHHHHcccccEEEEEEcccHHcHHHHHHHccccEEEEcccccccccEEEEEEcccEEEEEEcEEEHHHHHHHcccccccHHHHHcccccccccccEEEEEcccccccccccccccccccccccEEEEEEEccccccccEEEEEEEEEEccccccHHHHHHHHHHHHHHHHHHHHHcccccccccEEEEEccccccccc
vyvrsalyphspsaclkwknrSDAVLTVLKSFGadflclqeldnedfykgnmetegysslyiqrsgqkrdgcgifYKISCAELLVEDRIYYNELVNSikdgsscgddqnntlaggnndsdlksgswskkdsrdhgdlndpyvrlKRDCVGIMAAFRLKGPFDHVVIVATThlywdpelaDVKLAQAKYLSSRLAEFRtqvsdrydcvpsvivagdfnsvpgdk
vyvrsalyphspsaclkwknRSDAVLTVLKSFGADFLCLQELDNEDFYKGNMETEGYSSLYIQRSGQKRDGCGIFYKISCAELLVEDRIYYNELVNSIKDGSSCGDDQNNTlaggnndsdlksgswskkdsrdhgdlndpyvRLKRDCVGIMAAFRLKGPFDHVVIVATTHLYWDPELADVKLAQAKYLSSRLAEfrtqvsdrydcvpsvivagdfnsvpgdk
VYVRSALYPHSPSACLKWKNRSDAVLTVLKSFGADFLCLQELDNEDFYKGNMETEGYSSLYIQRSGQKRDGCGIFYKISCAELLVEDRIYYNELVNSIKDGSSCGDDQNNTLAGGNNDSDLKSGSWSKKDSRDHGDLNDPYVRLKRDCVGIMAAFRLKGPFDHVVIVATTHLYWDPELADVKLAQAKYLSSRLAEFRTQVSDRYDCVPSVIVAGDFNSVPGDK
***********PSACLKWKNRSDAVLTVLKSFGADFLCLQELDNEDFYKGNMETEGYSSLYIQRSGQKRDGCGIFYKISCAELLVEDRIYYNELVNSI****************************************DPYVRLKRDCVGIMAAFRLKGPFDHVVIVATTHLYWDPELADVKLAQAKYLSSRLAEFRTQVSDRYDCVPSVIVAGDF*******
VYVRSALYPHSPSACLKWKNRSDAVLTVLKSFGADFLCLQELDNEDFYKGNMETEGYSSLYIQRSGQKRDGCGIFYKISCAELLVEDRIYYNELVNSIKDGSSCGDDQNNTLAGGNNDSDLKSGSWSKKDSRDHGDLNDPYVRLKRDCVGIMAAFRLKGPFDHVVIVATTHLYWDPELADVKLAQAKYLSSRLAEFRTQVSDRYDCVPSVIVAGDFNSVP***
VYVRSALYPHSPSACLKWKNRSDAVLTVLKSFGADFLCLQELDNEDFYKGNMETEGYSSLYIQRSGQKRDGCGIFYKISCAELLVEDRIYYNELVNSIKDGSSCGDDQNNTLAGGNND****************GDLNDPYVRLKRDCVGIMAAFRLKGPFDHVVIVATTHLYWDPELADVKLAQAKYLSSRLAEFRTQVSDRYDCVPSVIVAGDFNSVPGDK
VYVRSALYPHSPSACLKWKNRSDAVLTVLKSFGADFLCLQELDNEDFYKGNMETEGYSSLYIQRSGQKRDGCGIFYKISCAELLVEDRIYYNELVNSIKDGSSCGDDQNNTLAGGNNDSDLKSGSWSKKDSRDHGDLNDPYVRLKRDCVGIMAAFRLKGPFDHVVIVATTHLYWDPELADVKLAQAKYLSSRLAEFRTQVSDRYDCVPSVIVAGDFN******
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
iiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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VYVRSALYPHSPSACLKWKNRSDAVLTVLKSFGADFLCLQELDNEDFYKGNMETEGYSSLYIQRSGQKRDGCGIFYKISCAELLVEDRIYYNELVNSIKDGSSCGDDQNNTLAGGNNDSDLKSGSWSKKDSRDHGDLNDPYVRLKRDCVGIMAAFRLKGPFDHVVIVATTHLYWDPELADVKLAQAKYLSSRLAEFRTQVSDRYDCVPSVIVAGDFNSVPGDK
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 ?
Query223 2.2.26 [Sep-21-2011]
A8MS41 417 Carbon catabolite repress no no 0.941 0.503 0.644 9e-79
O74874 690 Glucose-repressible alcoh yes no 0.843 0.272 0.244 1e-14
Q5VTE6 544 Protein angel homolog 2 O yes no 0.753 0.308 0.291 3e-14
A6H7I3 544 Protein angel homolog 2 O yes no 0.753 0.308 0.300 3e-14
Q9ULM6 557 CCR4-NOT transcription co no no 0.883 0.353 0.251 9e-14
Q5RGT6 569 Protein angel homolog 2 O no no 0.730 0.286 0.283 1e-13
Q8K1C0 544 Protein angel homolog 2 O yes no 0.753 0.308 0.291 2e-13
Q4P9T3 670 Glucose-repressible alcoh N/A no 0.825 0.274 0.24 2e-13
Q5BJ41 552 CCR4-NOT transcription co N/A no 0.883 0.356 0.251 4e-13
Q6AXU9 557 CCR4-NOT transcription co yes no 0.883 0.353 0.251 4e-13
>sp|A8MS41|CCR4D_ARATH Carbon catabolite repressor protein 4 homolog 4 OS=Arabidopsis thaliana GN=CCR4-4 PE=2 SV=1 Back     alignment and function desciption
 Score =  293 bits (749), Expect = 9e-79,   Method: Compositional matrix adjust.
 Identities = 145/225 (64%), Positives = 175/225 (77%), Gaps = 15/225 (6%)

Query: 1   VYVRSALYPHSPSACLKWKNRSDAVLTVLKSFGADFLCLQELDNED-FYKGNMETEGYSS 59
           VYV+SAL PHSP ACLKWK RS A+L+VLK+  ADF CLQE+D  D FY+ NM++ GYS 
Sbjct: 103 VYVKSALLPHSPPACLKWKARSHAILSVLKNLQADFFCLQEVDEYDSFYRNNMDSLGYSG 162

Query: 60  LYIQRSGQ-KRDGCGIFYKISCAELLVEDRIYYNELVNSIK-DGSSCGDDQNNTLAGGNN 117
           +YIQR+GQ KRDGC IFYK SCAEL+ ++RI YN+LV+SIK D  SC + +  T   G +
Sbjct: 163 IYIQRTGQRKRDGCAIFYKPSCAELVTKERIEYNDLVDSIKADSVSCSEQKIETSNEGKD 222

Query: 118 DSDLKSGSWSKKDSRDHGDLNDPYVRLKRDCVGIMAAFRLKGPFDHVVIVATTHLYWDPE 177
                    S+KDSRD   LNDP VRLKRDCVGIMAAFR+  PF H+VIVA THLYWDPE
Sbjct: 223 ---------SRKDSRD---LNDPLVRLKRDCVGIMAAFRINKPFQHIVIVANTHLYWDPE 270

Query: 178 LADVKLAQAKYLSSRLAEFRTQVSDRYDCVPSVIVAGDFNSVPGD 222
           LADVKLAQAKYL SRLA+F+T +SD ++C PS+++AGDFNS+PGD
Sbjct: 271 LADVKLAQAKYLLSRLAQFKTLISDEFECTPSLLLAGDFNSIPGD 315
Acts as catalytic component of the CCR4-NOT core complex, which in the nucleus seems to be a general transcription factor, and in the cytoplasm the major mRNA deadenylase involved in mRNA turnover.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 1EC: .EC: 1EC: 3EC: .EC: 4
>sp|O74874|CCR4_SCHPO Glucose-repressible alcohol dehydrogenase transcriptional effector OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=ccr4 PE=3 SV=1 Back     alignment and function description
>sp|Q5VTE6|ANGE2_HUMAN Protein angel homolog 2 OS=Homo sapiens GN=ANGEL2 PE=2 SV=1 Back     alignment and function description
>sp|A6H7I3|ANGE2_BOVIN Protein angel homolog 2 OS=Bos taurus GN=ANGEL2 PE=2 SV=1 Back     alignment and function description
>sp|Q9ULM6|CNOT6_HUMAN CCR4-NOT transcription complex subunit 6 OS=Homo sapiens GN=CNOT6 PE=1 SV=2 Back     alignment and function description
>sp|Q5RGT6|ANGE2_DANRE Protein angel homolog 2 OS=Danio rerio GN=angel2 PE=2 SV=1 Back     alignment and function description
>sp|Q8K1C0|ANGE2_MOUSE Protein angel homolog 2 OS=Mus musculus GN=Angel2 PE=2 SV=1 Back     alignment and function description
>sp|Q4P9T3|CCR4_USTMA Glucose-repressible alcohol dehydrogenase transcriptional effector OS=Ustilago maydis (strain 521 / FGSC 9021) GN=CCR4 PE=3 SV=1 Back     alignment and function description
>sp|Q5BJ41|CNOT6_XENLA CCR4-NOT transcription complex subunit 6 OS=Xenopus laevis GN=cnot6 PE=2 SV=1 Back     alignment and function description
>sp|Q6AXU9|CNOT6_RAT CCR4-NOT transcription complex subunit 6 OS=Rattus norvegicus GN=Cnot6 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 ?
Query223
359474766 393 PREDICTED: carbon catabolite repressor p 1.0 0.567 0.665 6e-83
296085488 393 unnamed protein product [Vitis vinifera] 1.0 0.567 0.665 1e-82
255557747 443 RNA exonuclease NGL1, putative [Ricinus 1.0 0.503 0.648 3e-80
356531533 390 PREDICTED: carbon catabolite repressor p 0.991 0.566 0.633 1e-77
42562445 388 carbon catabolite repressor protein 4-li 0.941 0.541 0.644 4e-77
145324102 417 carbon catabolite repressor protein 4-li 0.941 0.503 0.644 5e-77
42571707283 carbon catabolite repressor protein 4-li 0.941 0.742 0.644 6e-77
79605875 358 carbon catabolite repressor protein 4-li 0.941 0.586 0.644 7e-77
297846518 419 endonuclease/exonuclease/phosphatase fam 0.941 0.501 0.644 2e-76
224074603 356 predicted protein [Populus trichocarpa] 0.941 0.589 0.648 9e-76
>gi|359474766|ref|XP_002270851.2| PREDICTED: carbon catabolite repressor protein 4 homolog 4-like [Vitis vinifera] Back     alignment and taxonomy information
 Score =  312 bits (800), Expect = 6e-83,   Method: Compositional matrix adjust.
 Identities = 149/224 (66%), Positives = 181/224 (80%), Gaps = 1/224 (0%)

Query: 1   VYVRSALYPHSPSACLKWKNRSDAVLTVLKSFGADFLCLQELDNED-FYKGNMETEGYSS 59
           VYV+S+L+PHSPS CLKWK RS A+LTVL++ GADFLCLQE+D  D FYKGNM++ GYSS
Sbjct: 69  VYVKSSLFPHSPSPCLKWKARSQAILTVLRNLGADFLCLQEVDEYDSFYKGNMDSNGYSS 128

Query: 60  LYIQRSGQKRDGCGIFYKISCAELLVEDRIYYNELVNSIKDGSSCGDDQNNTLAGGNNDS 119
           +Y+QRSGQK DGCGIFYK + AEL++E++I YN+LV+   DGS   D   +T A  N+D+
Sbjct: 129 IYVQRSGQKHDGCGIFYKHNSAELVLEEKIEYNDLVDLNDDGSYSNDRHCDTPASANSDA 188

Query: 120 DLKSGSWSKKDSRDHGDLNDPYVRLKRDCVGIMAAFRLKGPFDHVVIVATTHLYWDPELA 179
           + K GS  +  + + GD NDP VRLKRDCVGIMAAFRLK P  H+VIVA THLYWDPE A
Sbjct: 189 EPKKGSSPQNTTEERGDPNDPRVRLKRDCVGIMAAFRLKDPSHHLVIVANTHLYWDPEWA 248

Query: 180 DVKLAQAKYLSSRLAEFRTQVSDRYDCVPSVIVAGDFNSVPGDK 223
           DVKLAQAKYL SRLA+F+T VSD+++C PSV+VAGDFNS PGDK
Sbjct: 249 DVKLAQAKYLLSRLAQFKTVVSDKFECTPSVLVAGDFNSTPGDK 292

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|296085488|emb|CBI29220.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|255557747|ref|XP_002519903.1| RNA exonuclease NGL1, putative [Ricinus communis] gi|223540949|gb|EEF42507.1| RNA exonuclease NGL1, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|356531533|ref|XP_003534332.1| PREDICTED: carbon catabolite repressor protein 4 homolog 4-like [Glycine max] Back     alignment and taxonomy information
>gi|42562445|ref|NP_174435.2| carbon catabolite repressor protein 4-like 4 [Arabidopsis thaliana] gi|332193241|gb|AEE31362.1| carbon catabolite repressor protein 4-like 4 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|145324102|ref|NP_001077640.1| carbon catabolite repressor protein 4-like 4 [Arabidopsis thaliana] gi|215275244|sp|A8MS41.1|CCR4D_ARATH RecName: Full=Carbon catabolite repressor protein 4 homolog 4; Short=CCR4 homolog 4 gi|332193244|gb|AEE31365.1| carbon catabolite repressor protein 4-like 4 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|42571707|ref|NP_973944.1| carbon catabolite repressor protein 4-like 4 [Arabidopsis thaliana] gi|332193242|gb|AEE31363.1| carbon catabolite repressor protein 4-like 4 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|79605875|ref|NP_973943.2| carbon catabolite repressor protein 4-like 4 [Arabidopsis thaliana] gi|332193243|gb|AEE31364.1| carbon catabolite repressor protein 4-like 4 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|297846518|ref|XP_002891140.1| endonuclease/exonuclease/phosphatase family protein [Arabidopsis lyrata subsp. lyrata] gi|297336982|gb|EFH67399.1| endonuclease/exonuclease/phosphatase family protein [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|224074603|ref|XP_002304397.1| predicted protein [Populus trichocarpa] gi|222841829|gb|EEE79376.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query223
TAIR|locus:2028611 417 AT1G31500 [Arabidopsis thalian 0.941 0.503 0.648 5.9e-73
TAIR|locus:2028696283 AT1G31530 "AT1G31530" [Arabido 0.313 0.247 0.5 1.8e-26
ZFIN|ZDB-GENE-030131-6498 569 angel2 "angel homolog 2 (Droso 0.313 0.123 0.373 6.1e-15
MGI|MGI:1196310 544 Angel2 "angel homolog 2 (Droso 0.354 0.145 0.404 8.7e-15
FB|FBgn0011725 567 twin "twin" [Drosophila melano 0.452 0.178 0.283 1.9e-14
WB|WBGene00000376 677 ccr-4 [Caenorhabditis elegans 0.878 0.289 0.266 2e-14
TAIR|locus:2832132 754 AT5G11350 "AT5G11350" [Arabido 0.399 0.118 0.348 3.9e-13
POMBASE|SPCC31H12.08c 690 ccr4 "CCR4-Not complex subunit 0.412 0.133 0.326 5e-12
UNIPROTKB|Q9ULM6 557 CNOT6 "CCR4-NOT transcription 0.883 0.353 0.251 7e-12
UNIPROTKB|E1C678 557 CNOT6 "Uncharacterized protein 0.883 0.353 0.251 1.9e-11
TAIR|locus:2028611 AT1G31500 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 737 (264.5 bits), Expect = 5.9e-73, P = 5.9e-73
 Identities = 146/225 (64%), Positives = 177/225 (78%)

Query:     1 VYVRSALYPHSPSACLKWKNRSDAVLTVLKSFGADFLCLQELDNED-FYKGNMETEGYSS 59
             VYV+SAL PHSP ACLKWK RS A+L+VLK+  ADF CLQE+D  D FY+ NM++ GYS 
Sbjct:   103 VYVKSALLPHSPPACLKWKARSHAILSVLKNLQADFFCLQEVDEYDSFYRNNMDSLGYSG 162

Query:    60 LYIQRSGQ-KRDGCGIFYKISCAELLVEDRIYYNELVNSIK-DGSSCGDDQNNTLAGGNN 117
             +YIQR+GQ KRDGC IFYK SCAEL+ ++RI YN+LV+SIK D  SC + +  T    +N
Sbjct:   163 IYIQRTGQRKRDGCAIFYKPSCAELVTKERIEYNDLVDSIKADSVSCSEQKIET----SN 218

Query:   118 DSDLKSGSWSKKDSRDHGDLNDPYVRLKRDCVGIMAAFRLKGPFDHVVIVATTHLYWDPE 177
             +     G  S+KDSRD   LNDP VRLKRDCVGIMAAFR+  PF H+VIVA THLYWDPE
Sbjct:   219 E-----GKDSRKDSRD---LNDPLVRLKRDCVGIMAAFRINKPFQHIVIVANTHLYWDPE 270

Query:   178 LADVKLAQAKYLSSRLAEFRTQVSDRYDCVPSVIVAGDFNSVPGD 222
             LADVKLAQAKYL SRLA+F+T +SD ++C PS+++AGDFNS+PGD
Sbjct:   271 LADVKLAQAKYLLSRLAQFKTLISDEFECTPSLLLAGDFNSIPGD 315
GO:0005634 "nucleus" evidence=ISM
GO:0008150 "biological_process" evidence=ND
GO:0009507 "chloroplast" evidence=ISM
GO:0016787 "hydrolase activity" evidence=ISS
TAIR|locus:2028696 AT1G31530 "AT1G31530" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-030131-6498 angel2 "angel homolog 2 (Drosophila)" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
MGI|MGI:1196310 Angel2 "angel homolog 2 (Drosophila)" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
FB|FBgn0011725 twin "twin" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
WB|WBGene00000376 ccr-4 [Caenorhabditis elegans (taxid:6239)] Back     alignment and assigned GO terms
TAIR|locus:2832132 AT5G11350 "AT5G11350" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
POMBASE|SPCC31H12.08c ccr4 "CCR4-Not complex subunit Ccr4 (predicted)" [Schizosaccharomyces pombe (taxid:4896)] Back     alignment and assigned GO terms
UNIPROTKB|Q9ULM6 CNOT6 "CCR4-NOT transcription complex subunit 6" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|E1C678 CNOT6 "Uncharacterized protein" [Gallus gallus (taxid:9031)] 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

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

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

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 ?
Query223
cd09097 329 cd09097, Deadenylase_CCR4, C-terminal deadenylase 5e-31
COG5239 378 COG5239, CCR4, mRNA deadenylase, exonuclease subun 1e-21
PLN03144 606 PLN03144, PLN03144, Carbon catabolite repressor pr 6e-17
cd10313 350 cd10313, Deadenylase_CCR4a, C-terminal deadenylase 2e-16
cd10312 348 cd10312, Deadenylase_CCR4b, C-terminal deadenylase 6e-15
cd09096280 cd09096, Deadenylase_nocturnin, C-terminal deadeny 4e-07
cd09083252 cd09083, EEP-1, Exonuclease-Endonuclease-Phosphata 6e-06
cd09082 348 cd09082, Deadenylase, C-terminal deadenylase domai 2e-04
>gnl|CDD|197331 cd09097, Deadenylase_CCR4, C-terminal deadenylase domain of CCR4 and related domains Back     alignment and domain information 
 Score =  115 bits (291), Expect = 5e-31
 Identities = 66/241 (27%), Positives = 101/241 (41%), Gaps = 54/241 (22%)

Query: 2   YVRSALYPHSPSACLKWKNRSDAVLTVLKSFGADFLCLQELDN---EDFYKGNMETEGYS 58
           Y     Y + PS  L W  R   +L  + S+ AD LCLQE++    EDF+   ++  GY 
Sbjct: 11  YATRQQYGYCPSWALNWDYRKQNILKEILSYNADILCLQEVETDQYEDFFLPELKQHGYD 70

Query: 59  SLYIQRS------GQKR---DGCGIFYKISCAELLVEDRIYYNELVNSIKDGSSCGDDQN 109
            ++  +S        +R   DGC IF+K S  +L+ +  I +N+L               
Sbjct: 71  GVFKPKSRAKTMSEAERKHVDGCAIFFKTSKFKLVEKHLIEFNQLA------------MA 118

Query: 110 NTLAGGNNDSDLKSGSWSKKDSRDHGDLNDPYVRL-KRDCVGIMAAFRLKGPFDHV---- 164
           N  A G+ D                  LN    R+  +D + ++     +          
Sbjct: 119 NADAEGSEDM-----------------LN----RVMTKDNIALIVVLEARETSYEGNKGQ 157

Query: 165 -VIVATTHLYWDPELADVKLAQAKYLSSRLAEFRTQVSDRYDCV---PSVIVAGDFNSVP 220
            +IVA TH++WDPE +DVKL Q   L   L +   + S           ++V GDFNS+P
Sbjct: 158 LLIVANTHIHWDPEFSDVKLVQTMMLLEELEKIAEKFSRYPYEDSADIPLVVCGDFNSLP 217

Query: 221 G 221
            
Sbjct: 218 D 218

This subfamily contains the C-terminal catalytic domain of the deadenylases, Saccharomyces cerevisiae Ccr4p and two vertebrate homologs (CCR4a and CCR4b), and related domains. CCR4 belongs to the large EEP (exonuclease/endonuclease/phosphatase) superfamily that contains functionally diverse enzymes that share a common catalytic mechanism of cleaving phosphodiester bonds. CCR4 is the major deadenylase subunit of the CCR4-NOT transcription complex, which contains two deadenylase subunits and several noncatalytic subunits. The other deadenylase subunit, Caf1 (called Pop2 in yeast), is a DEDD-type protein and does not belong in this superfamily. Saccharomyces cerevisiae CCR4 (or Ccr4p) is a 3'-5' poly(A) RNA and ssDNA exonuclease. It is the catalytic subunit of the yeast mRNA deadenylase (Ccr4p/Pop2p/Not complex). This complex participates in various ways in mRNA metabolism, including transcription initiation and elongation, and mRNA degradation. Ccr4p degrades both poly(A) and single-stranded DNA. There are two vertebrate homologs of Ccr4p, CCR4a (also called CCR4-NOT transcription complex subunit 6 or CNOT6) and CCR4b (also called CNOT6-like or CNOT6L), which independently associate with other components to form distinct CCR4-NOT multisubunit complexes. The nuclease domain of CNOT6 and CNOT6L exhibits Mg2+-dependent deadenylase activity, with specificity for poly (A) RNA as substrate. CCR4a is a component of P-bodies and is necessary for foci formation. CCR4b regulates p27/Kip1 mRNA levels, thereby influencing cell cycle progression. They both contribute to the prevention of cell death by regulating insulin-like growth factor-binding protein 5. Length = 329
>gnl|CDD|227564 COG5239, CCR4, mRNA deadenylase, exonuclease subunit and related nucleases [RNA processing and modification] Back     alignment and domain information
>gnl|CDD|178689 PLN03144, PLN03144, Carbon catabolite repressor protein 4 homolog; Provisional Back     alignment and domain information
>gnl|CDD|197340 cd10313, Deadenylase_CCR4a, C-terminal deadenylase domain of CCR4a, also known as CCR4-NOT transcription complex subunit 6 Back     alignment and domain information
>gnl|CDD|197339 cd10312, Deadenylase_CCR4b, C-terminal deadenylase domain of CCR4b, also known as CCR4-NOT transcription complex subunit 6-like Back     alignment and domain information
>gnl|CDD|197330 cd09096, Deadenylase_nocturnin, C-terminal deadenylase domain of nocturnin and related domains Back     alignment and domain information
>gnl|CDD|197317 cd09083, EEP-1, Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1 Back     alignment and domain information
>gnl|CDD|197316 cd09082, Deadenylase, C-terminal deadenylase domain of CCR4, nocturnin, and related domains Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 223
PLN03144 606 Carbon catabolite repressor protein 4 homolog; Pro 100.0
KOG2338 495 consensus Transcriptional effector CCR4-related pr 99.97
COG5239 378 CCR4 mRNA deadenylase, exonuclease subunit and rel 99.91
KOG0620 361 consensus Glucose-repressible alcohol dehydrogenas 99.87
TIGR03395283 sphingomy sphingomyelin phosphodiesterase. Members 99.79
PRK11756 268 exonuclease III; Provisional 99.72
PRK05421263 hypothetical protein; Provisional 99.72
COG3568259 ElsH Metal-dependent hydrolase [General function p 99.71
smart00476276 DNaseIc deoxyribonuclease I. Deoxyribonuclease I c 99.66
PF03372249 Exo_endo_phos: Endonuclease/Exonuclease/phosphatas 99.58
TIGR00195254 exoDNase_III exodeoxyribonuclease III. The model b 99.54
PTZ00297 1452 pantothenate kinase; Provisional 99.52
TIGR00633255 xth exodeoxyribonuclease III (xth). This family is 99.48
COG0708261 XthA Exonuclease III [DNA replication, recombinati 99.47
KOG2756349 consensus Predicted Mg2+-dependent phosphodiestera 99.43
KOG3873 422 consensus Sphingomyelinase family protein [Signal 99.42
PRK13911250 exodeoxyribonuclease III; Provisional 99.34
PRK15251271 cytolethal distending toxin subunit CdtB; Provisio 99.24
COG3021309 Uncharacterized protein conserved in bacteria [Fun 98.76
smart00128 310 IPPc Inositol polyphosphate phosphatase, catalytic 98.26
COG2374 798 Predicted extracellular nuclease [General function 98.25
COG5239 378 CCR4 mRNA deadenylase, exonuclease subunit and rel 97.18
KOG0566 1080 consensus Inositol-1,4,5-triphosphate 5-phosphatas 96.86
PTZ00312 356 inositol-1,4,5-triphosphate 5-phosphatase; Provisi 96.2
KOG1976 391 consensus Inositol polyphosphate 5-phosphatase, ty 95.23
PLN03191 621 Type I inositol-1,4,5-trisphosphate 5-phosphatase 94.23
PF14529119 Exo_endo_phos_2: Endonuclease-reverse transcriptas 93.96
KOG1387 465 consensus Glycosyltransferase [Cell wall/membrane/ 80.71
COG5411 460 Phosphatidylinositol 5-phosphate phosphatase [Sign 80.62
>PLN03144 Carbon catabolite repressor protein 4 homolog; Provisional Back     alignment and domain information 
Probab=100.00  E-value=2.1e-37  Score=283.31  Aligned_cols=188  Identities=29%  Similarity=0.524  Sum_probs=151.3

Q ss_pred             CcccccCCCCCCCcCcChHHHHHHHHHHHhcCCCcEEEEeeecCCc---CcccccccCCCcEEEEccCCC-------Cee
Q 047989            1 VYVRSALYPHSPSACLKWKNRSDAVLTVLKSFGADFLCLQELDNED---FYKGNMETEGYSSLYIQRSGQ-------KRD   70 (223)
Q Consensus         1 ~~~~~~~~~~~~~~~~~w~~R~~~i~~~I~~~~pDIi~LQEv~~~~---~l~~~L~~~gY~~~~~~~~~~-------~~~   70 (223)
                      +||++++|+|||++.++|++|+++|+++|..++|||||||||+..+   ++.+.|...||..++..+.+.       ..+
T Consensus       266 ~ya~~dly~ycp~~aL~W~yRk~lIl~EI~~~~aDIICLQEV~~~~~~d~~~p~L~~~GY~Gv~~~Kt~~~~~~~~~~~D  345 (606)
T PLN03144        266 LYATSDMYSYCPPWALSWTYRRQNLLREIVGYRADILCLQEVQSDHFEEFFAPELDKHGYQALYKKKTTEVYTGNTYVID  345 (606)
T ss_pred             cccCcccccCCCccccCHHHHHHHHHHHHHhcCCCEEEEeecCHHHHHHHHHhhhhhcCceEEEeCCCCccccccccCCc
Confidence            4899999999999999999999999999999999999999997643   567889888999998866432       578


Q ss_pred             eEEEEEecCCceeeeEeEEecccccccccCCCCCCCCCCccccCCCCCCCCcCCCCCCCCCCCCCCCCCccccccCCcEE
Q 047989           71 GCGIFYKISCAELLVEDRIYYNELVNSIKDGSSCGDDQNNTLAGGNNDSDLKSGSWSKKDSRDHGDLNDPYVRLKRDCVG  150 (223)
Q Consensus        71 G~ai~~~~sr~~i~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~r~~~~  150 (223)
                      |||||||++||++++...+.|+....+..+.                  .+++..|..        .   ..++.|+++|
T Consensus       346 GcAIFyr~drFeLv~~~~ief~~~~lslt~~------------------~~~s~~~~~--------~---l~Rl~kdNVA  396 (606)
T PLN03144        346 GCATFFRRDRFSLVKKYEVEFNKAAQSLTEA------------------LIPSAQKKA--------A---LNRLLKDNVA  396 (606)
T ss_pred             eeEEEEECcceEEEEeeeeeccchhhccCcc------------------ccccccchh--------h---hhhhccCcEE
Confidence            9999999999999999999998755433220                  011111211        0   1134467899


Q ss_pred             EEEEEeecCC--------CCcEEEEEeeeeecCCCCCchhHHHHHHHHHHHHHHHHHhccCCCCCCcEEEeccCCCCCCC
Q 047989          151 IMAAFRLKGP--------FDHVVIVATTHLYWDPELADVKLAQAKYLSSRLAEFRTQVSDRYDCVPSVIVAGDFNSVPGD  222 (223)
Q Consensus       151 ~~~~l~~~~~--------~~~~~~V~ntHL~~~~~~~~~R~~Q~~~l~~~l~~~~~~~~~~~~~~~pvIl~GDFN~~p~s  222 (223)
                      ++++|+++.+        .++.|+|+||||+|+|...++|+.|++.|++.|+++.+.      .+.|+|||||||+.|+|
T Consensus       397 liv~Le~k~~~~~~~~~~~~~~l~VaNTHL~~~p~~~dvRl~Q~~~Ll~~l~~~~~~------~~~PvIlcGDFNS~P~S  470 (606)
T PLN03144        397 LIVVLEAKFGNQGADNGGKRQLLCVANTHIHANQELKDVKLWQVHTLLKGLEKIAAS------ADIPMLVCGDFNSVPGS  470 (606)
T ss_pred             EEEEEEEecccccccCCCCccEEEEEEeeeccCCccchhHHHHHHHHHHHHHHHhhc------CCCceEEeccCCCCCCC
Confidence            9999999721        235689999999999999999999999999999988542      36899999999999998


Q ss_pred             C
Q 047989          223 K  223 (223)
Q Consensus       223 ~  223 (223)
                      +
T Consensus       471 ~  471 (606)
T PLN03144        471 A  471 (606)
T ss_pred             h
Confidence            4

>KOG2338 consensus Transcriptional effector CCR4-related protein [Transcription] Back     alignment and domain information
>COG5239 CCR4 mRNA deadenylase, exonuclease subunit and related nucleases [RNA processing and modification] Back     alignment and domain information
>KOG0620 consensus Glucose-repressible alcohol dehydrogenase transcriptional effector CCR4 and related proteins [Transcription] Back     alignment and domain information
>TIGR03395 sphingomy sphingomyelin phosphodiesterase Back     alignment and domain information
>PRK11756 exonuclease III; Provisional Back     alignment and domain information
>PRK05421 hypothetical protein; Provisional Back     alignment and domain information
>COG3568 ElsH Metal-dependent hydrolase [General function prediction only] Back     alignment and domain information
>smart00476 DNaseIc deoxyribonuclease I Back     alignment and domain information
>PF03372 Exo_endo_phos: Endonuclease/Exonuclease/phosphatase family Subset of Pfam family Subset of Pfam family; InterPro: IPR005135 This domain is found in a large number of proteins including magnesium dependent endonucleases and phosphatases involved in intracellular signalling [] Back     alignment and domain information
>TIGR00195 exoDNase_III exodeoxyribonuclease III Back     alignment and domain information
>PTZ00297 pantothenate kinase; Provisional Back     alignment and domain information
>TIGR00633 xth exodeoxyribonuclease III (xth) Back     alignment and domain information
>COG0708 XthA Exonuclease III [DNA replication, recombination, and repair] Back     alignment and domain information
>KOG2756 consensus Predicted Mg2+-dependent phosphodiesterase TTRAP [Signal transduction mechanisms] Back     alignment and domain information
>KOG3873 consensus Sphingomyelinase family protein [Signal transduction mechanisms] Back     alignment and domain information
>PRK13911 exodeoxyribonuclease III; Provisional Back     alignment and domain information
>PRK15251 cytolethal distending toxin subunit CdtB; Provisional Back     alignment and domain information
>COG3021 Uncharacterized protein conserved in bacteria [Function unknown] Back     alignment and domain information
>smart00128 IPPc Inositol polyphosphate phosphatase, catalytic domain homologues Back     alignment and domain information
>COG2374 Predicted extracellular nuclease [General function prediction only] Back     alignment and domain information
>COG5239 CCR4 mRNA deadenylase, exonuclease subunit and related nucleases [RNA processing and modification] Back     alignment and domain information
>KOG0566 consensus Inositol-1,4,5-triphosphate 5-phosphatase (synaptojanin), INP51/INP52/INP53 family [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PTZ00312 inositol-1,4,5-triphosphate 5-phosphatase; Provisional Back     alignment and domain information
>KOG1976 consensus Inositol polyphosphate 5-phosphatase, type I [Lipid transport and metabolism] Back     alignment and domain information
>PLN03191 Type I inositol-1,4,5-trisphosphate 5-phosphatase 2; Provisional Back     alignment and domain information
>PF14529 Exo_endo_phos_2: Endonuclease-reverse transcriptase ; PDB: 2EI9_A 1WDU_B Back     alignment and domain information
>KOG1387 consensus Glycosyltransferase [Cell wall/membrane/envelope biogenesis] Back     alignment and domain information
>COG5411 Phosphatidylinositol 5-phosphate phosphatase [Signal transduction mechanisms] 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 ?
Query223
4b8c_D 727 Nuclease Module Of The Yeast Ccr4-Not Complex Lengt 1e-11
3ngq_A 398 Crystal Structure Of The Human Cnot6l Nuclease Doma 1e-11
3ngn_A 398 Crystal Structure Of The Human Cnot6l Nuclease Doma 1e-11
>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex Length = 727 Back     alignment and structure 
Iteration: 1

 Score = 66.6 bits (161), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 59/235 (25%), Positives = 98/235 (41%), Gaps = 53/235 (22%)
Query: 2   YVRSALYPHSPSACLKWKNRSDAVLTVLKSFGADFLCLQELDN---EDFYKGNMETEGYS 58
           Y    +Y ++PS  L W  R + +   + S+ +D LCLQE+++   E+++   ++  GY+
Sbjct: 407 YATPKMYRYTPSWALSWDYRRNKLKEQILSYDSDLLCLQEVESKTFEEYWVPLLDKHGYT 466
Query: 59  SLYIQRS---------GQKRDGCGIFYKISCAELLVEDRIYYNELVNSIKDGSSCGDDQN 109
            ++  ++          +K DGC IF+K    +L+ +D + +                  
Sbjct: 467 GIFHAKARAKTMHSKDSKKVDGCCIFFKRDQFKLITKDAMDF------------------ 508
Query: 110 NTLAGGNNDSDLKSGSW--SKKDSRDHGDLNDPYVRLKRDCVGIMAAFRLKGPFDHVVIV 167
                        SG+W   KK  R    LN     + +D V +    +   P    +  
Sbjct: 509 -------------SGAWMKHKKFQRTEDYLNR---AMNKDNVALFLKLQ-HIPSGDTIWA 551
Query: 168 ATTHLYWDPELADVKLAQAKYLSSRLAEF---RTQVSDRYDCVP-SVIVAGDFNS 218
            TTHL+WDP+  DVK  Q   L   L       T  + R D     V++ GDFNS
Sbjct: 552 VTTHLHWDPKFNDVKTFQVGVLLDHLETLLKEETSHNFRQDIKKFPVLICGDFNS 606
>pdb|3NGQ|A Chain A, Crystal Structure Of The Human Cnot6l Nuclease Domain Length = 398 Back     alignment and structure
>pdb|3NGN|A Chain A, Crystal Structure Of The Human Cnot6l Nuclease Domain In Complex With Amp Length = 398 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 ?
Query223
3ngq_A 398 CCR4-NOT transcription complex subunit 6-like; alp 5e-31
3mpr_A 298 Putative endonuclease/exonuclease/phosphatase FAM 7e-16
3g6s_A267 Putative endonuclease/exonuclease/phosphatase fami 1e-15
3l1w_A257 Uncharacterized protein; APC29019.2, conserved pro 6e-12
>3ngq_A CCR4-NOT transcription complex subunit 6-like; alpha/beta sandwich fold, hydrolase; HET: 1PS; 1.80A {Homo sapiens} PDB: 3ngo_A 3ngn_A Length = 398 Back     alignment and structure
 Score =  116 bits (291), Expect = 5e-31
 Identities = 49/238 (20%), Positives = 91/238 (38%), Gaps = 40/238 (16%)

Query: 2   YVRSALYPHSPSACLKWKNRSDAVLTVLKSFGADFLCLQELDN---EDFYKGNMETEGYS 58
           Y    LY + PS  L W+ R   ++  + +  AD + LQE++       +   ++  GY 
Sbjct: 44  YATRQLYGYCPSWALNWEYRKKGIMEEIVNCDADIISLQEVETEQYFTLFLPALKERGYD 103

Query: 59  SLYIQRSGQK---------RDGCGIFYKISCAELLVEDRIYYNELVNSIKDGSSCGDDQN 109
             +  +S  K          DGC IF+K     L+ +  + +N++               
Sbjct: 104 GFFSPKSRAKIMSEQERKHVDGCAIFFKTEKFTLVQKHTVEFNQV--------------- 148

Query: 110 NTLAGGNNDSDLKSGSWSKKDSRDHGDLNDPYVRLKRDCVGIMAAFRLKGPFDHVVIVAT 169
                   +SD      ++  ++D+  +    V      +       +      ++IVA 
Sbjct: 149 -----AMANSDGSEAMLNRVMTKDNIGVA--VVLEVHKELFGAGMKPIHAADKQLLIVAN 201

Query: 170 THLYWDPELADVKLAQAKYLSSRLAEFRTQVSDRYDCVPS------VIVAGDFNSVPG 221
            H++WDPE +DVKL Q     S +     + S R     +      +++  D NS+P 
Sbjct: 202 AHMHWDPEYSDVKLIQTMMFVSEVKNILEKASSRPGSPTADPNSIPLVLCADLNSLPD 259
>3mpr_A Putative endonuclease/exonuclease/phosphatase FAM protein; structural genomics, PSI-2, protein structure initiative; HET: MSE PEG; 1.90A {Bacteroides thetaiotaomicron} Length = 298 Back     alignment and structure
>3g6s_A Putative endonuclease/exonuclease/phosphatase family protein; alpha-beta protein, structural genomics, PSI-2; 2.50A {Bacteroides vulgatus atcc 8482} Length = 267 Back     alignment and structure
>3l1w_A Uncharacterized protein; APC29019.2, conserved protein, enterococcus faecalis V583, PSI-2, MCSG, structural genomics; 1.60A {Enterococcus faecalis} Length = 257 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query223
3ngq_A 398 CCR4-NOT transcription complex subunit 6-like; alp 100.0
4b8c_D 727 Glucose-repressible alcohol dehydrogenase transcr 99.96
3l1w_A257 Uncharacterized protein; APC29019.2, conserved pro 99.91
3mpr_A 298 Putative endonuclease/exonuclease/phosphatase FAM 99.91
3g6s_A267 Putative endonuclease/exonuclease/phosphatase fami 99.91
4fva_A256 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosy 99.83
4gew_A362 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosy 99.83
4gz1_A256 Tyrosyl-DNA phosphodiesterase 2; protein-DNA compl 99.83
4f1h_A250 Tyrosyl-DNA phosphodiesterase 2; hydrolase-DNA com 99.83
3teb_A266 Endonuclease/exonuclease/phosphatase; PSI-biology, 99.82
1zwx_A301 SMCL, sphingomyelinase-C; dnase1-like fold, beta-h 99.79
3i41_A317 Beta-hemolysin; beta toxin, sphingomyelinase, toxi 99.79
1ako_A 268 Exonuclease III; AP-endonuclease, DNA repair; 1.70 99.76
2ddr_A 306 Sphingomyelin phosphodiesterase; DNAse I like fold 99.74
2jc4_A 256 Exodeoxyribonuclease III; hydrolase, repair phosph 99.72
2a40_B260 Deoxyribonuclease-1; WAVE, WH2, WAsp, actin, DNAse 99.68
2jc5_A 259 Exodeoxyribonuclease; hydrolase, repair phosphodie 99.66
1vyb_A238 ORF2 contains A reverse transcriptase domain; endo 99.65
2o3h_A285 DNA-(apurinic or apyrimidinic site) lyase; APE, en 99.59
3g91_A265 MTH0212, exodeoxyribonuclease; double-strand speci 99.58
2voa_A257 AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP 99.57
1hd7_A318 DNA-(apurinic or apyrimidinic site) lyase; DNA rep 99.55
1wdu_A245 TRAS1 ORF2P; four-layered alpha/beta sandwich, RNA 99.54
2j63_A467 AP-endonuclease; base excision repair, lyase; 2.48 99.44
2f1n_A262 CDT B, cytolethal distending toxin subunit B; E.co 99.4
1sr4_B261 CDT B, cytolethal distending toxin protein B; bact 99.31
2imq_X 282 Salivary nitrophorin; ferrous heme, beta-sandwich, 99.29
2ei9_A240 Non-LTR retrotransposon R1BMKS ORF2 protein; four 99.11
1i9z_A 347 Synaptojanin, phosphatidylinositol phosphate phosp 98.91
2xsw_A 357 72 kDa inositol polyphosphate 5-phosphatase; inosi 98.74
3mtc_A 313 Type II inositol-1,4,5-trisphosphate 5-phosphatas; 98.01
4a9c_A 316 Phosphatidylinositol-3,4,5-trisphosphate 5-phosph; 97.99
>3ngq_A CCR4-NOT transcription complex subunit 6-like; alpha/beta sandwich fold, hydrolase; HET: 1PS; 1.80A {Homo sapiens} PDB: 3ngo_A 3ngn_A Back     alignment and structure
Probab=100.00  E-value=8.3e-36  Score=263.28  Aligned_cols=189  Identities=25%  Similarity=0.492  Sum_probs=146.6

Q ss_pred             CcccccCCCCCCCcCcChHHHHHHHHHHHhcCCCcEEEEeeecCCc---CcccccccCCCcEEEEccCC---------CC
Q 047989            1 VYVRSALYPHSPSACLKWKNRSDAVLTVLKSFGADFLCLQELDNED---FYKGNMETEGYSSLYIQRSG---------QK   68 (223)
Q Consensus         1 ~~~~~~~~~~~~~~~~~w~~R~~~i~~~I~~~~pDIi~LQEv~~~~---~l~~~L~~~gY~~~~~~~~~---------~~   68 (223)
                      +|+++.+|+|||.+.+.|.+|++.|+++|..++|||||||||...+   ++...|...||.+++..+..         ++
T Consensus        43 ~~~~~~~~~~~p~~~~~W~~R~~~i~~~i~~~~pDIi~lQEv~~~q~~~~l~~~L~~~gY~~v~~~k~r~~~~~~~~~~~  122 (398)
T 3ngq_A           43 KYATRQLYGYCPSWALNWEYRKKGIMEEIVNCDADIISLQEVETEQYFTLFLPALKERGYDGFFSPKSRAKIMSEQERKH  122 (398)
T ss_dssp             GGCCTTTCTTSCHHHHSHHHHHHHHHHHHHHHCCSEEEEEEEEHHHHHHTHHHHHHHTTEEEEEEESCTTSCCCHHHHHT
T ss_pred             cCCccccccCCChhhcCHHHHHHHHHHHHHhcCCCEEEEecccHHHHHHHHHHHHHhCCceEEEecCCCccccccccccC
Confidence            4888999999999999999999999999999999999999998633   56777887899998875421         35


Q ss_pred             eeeEEEEEecCCceeeeEeEEecccccccccCCCCCCCCCCccccCCCCCCCCcCCCCCCCCCCCCCCCCCccccccCCc
Q 047989           69 RDGCGIFYKISCAELLVEDRIYYNELVNSIKDGSSCGDDQNNTLAGGNNDSDLKSGSWSKKDSRDHGDLNDPYVRLKRDC  148 (223)
Q Consensus        69 ~~G~ai~~~~sr~~i~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~r~~  148 (223)
                      .+|||||||+++|++++++.++|++.....                        +..|...          ......+++
T Consensus       123 ~eG~AIfyr~~~f~ll~~~~i~ls~~~~~~------------------------s~~~~~~----------~~Ri~t~~n  168 (398)
T 3ngq_A          123 VDGCAIFFKTEKFTLVQKHTVEFNQVAMAN------------------------SDGSEAM----------LNRVMTKDN  168 (398)
T ss_dssp             CEEEEEEEETTTEEEEEEEEEEHHHHHHHT------------------------CTTCHHH----------HHTTTTCCC
T ss_pred             cceeEEEEECCcceEEeeeEEecCCCcccc------------------------cccchhh----------hcceeeccc
Confidence            799999999999999999999998753210                        1122210          000134578


Q ss_pred             EEEEEEEeecCC------------CCcEEEEEeeeeecCCCCCchhHHHHHHHHHHHHHHHHHhccCC------CCCCcE
Q 047989          149 VGIMAAFRLKGP------------FDHVVIVATTHLYWDPELADVKLAQAKYLSSRLAEFRTQVSDRY------DCVPSV  210 (223)
Q Consensus       149 ~~~~~~l~~~~~------------~~~~~~V~ntHL~~~~~~~~~R~~Q~~~l~~~l~~~~~~~~~~~------~~~~pv  210 (223)
                      +++++.|+.+.+            .++.|+|+||||.|+|.+.++|+.|+++|++.|+++.+......      ....|+
T Consensus       169 val~~~L~~~~~~~~~~~~~~~~~~~~~l~V~nTHL~~~p~~~~vRl~Q~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~Pv  248 (398)
T 3ngq_A          169 IGVAVVLEVHKELFGAGMKPIHAADKQLLIVANAHMHWDPEYSDVKLIQTMMFVSEVKNILEKASSRPGSPTADPNSIPL  248 (398)
T ss_dssp             EEEEEEEEECGGGC-----------CCEEEEEEEECCCCTTCHHHHHHHHHHHHHHHHHHHCC-------------CCCE
T ss_pred             eeEEEEEEEcccccccccccccCCCCcEEEEEEeCcCCCCCCHHHHHHHHHHHHHHHHHHHHHhhcccccccccCCCCce
Confidence            999999998741            23568999999999998899999999999999999854322111      135799


Q ss_pred             EEeccCCCCCCCC
Q 047989          211 IVAGDFNSVPGDK  223 (223)
Q Consensus       211 Il~GDFN~~p~s~  223 (223)
                      |||||||++|+|+
T Consensus       249 Il~GDFNs~P~s~  261 (398)
T 3ngq_A          249 VLCADLNSLPDSG  261 (398)
T ss_dssp             EEEEECSCCTTSH
T ss_pred             EEEeeCCCCCCCH
Confidence            9999999999973
>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C} Back     alignment and structure
>3l1w_A Uncharacterized protein; APC29019.2, conserved protein, enterococcus faecalis V583, PSI-2, MCSG, structural genomics; 1.60A {Enterococcus faecalis} Back     alignment and structure
>3mpr_A Putative endonuclease/exonuclease/phosphatase FAM protein; structural genomics, PSI-2, protein structure initiative; HET: MSE PEG; 1.90A {Bacteroides thetaiotaomicron} Back     alignment and structure
>3g6s_A Putative endonuclease/exonuclease/phosphatase family protein; alpha-beta protein, structural genomics, PSI-2; 2.50A {Bacteroides vulgatus atcc 8482} Back     alignment and structure
>4fva_A 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosyl-DNA diesterase, hydrolase; HET: EDO; 2.07A {Caenorhabditis elegans} Back     alignment and structure
>4gew_A 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosyl-DNA diesterase, hydrolase; 2.35A {Caenorhabditis elegans} PDB: 4f1i_A Back     alignment and structure
>4gz1_A Tyrosyl-DNA phosphodiesterase 2; protein-DNA complex, DNA repair, 5'-DNA END processing, endonuclease/exonuclease/phosphatase domain; HET: DNA EPE; 1.50A {Mus musculus} PDB: 4gyz_A* 4gz0_A* 4gz2_A* Back     alignment and structure
>4f1h_A Tyrosyl-DNA phosphodiesterase 2; hydrolase-DNA complex; HET: DNA; 1.66A {Danio rerio} PDB: 4fpv_A* 4f1h_B* Back     alignment and structure
>3teb_A Endonuclease/exonuclease/phosphatase; PSI-biology, MCSG, midwest center for structural genomics; 2.99A {Leptotrichia buccalis c-1013-b} Back     alignment and structure
>1zwx_A SMCL, sphingomyelinase-C; dnase1-like fold, beta-hairpin, hydrolase; 1.90A {Listeria ivanovii} SCOP: d.151.1.3 Back     alignment and structure
>3i41_A Beta-hemolysin; beta toxin, sphingomyelinase, toxin; 1.75A {Staphylococcus aureus} PDB: 3i46_A 3i48_A 3i5v_A* 3k55_A Back     alignment and structure
>1ako_A Exonuclease III; AP-endonuclease, DNA repair; 1.70A {Escherichia coli} SCOP: d.151.1.1 Back     alignment and structure
>2ddr_A Sphingomyelin phosphodiesterase; DNAse I like folding, riken structural genomics/proteomics initiative, RSGI, structural genomics, hydrolase; 1.40A {Bacillus cereus} SCOP: d.151.1.3 PDB: 2dds_A 2ddt_A* 2uyr_X Back     alignment and structure
>2jc4_A Exodeoxyribonuclease III; hydrolase, repair phosphodiesterase, DNA repair, exonuclease, endonuclease; HET: 1PE; 1.90A {Neisseria meningitidis} Back     alignment and structure
>2a40_B Deoxyribonuclease-1; WAVE, WH2, WAsp, actin, DNAse I, ARP2/3, structural protein; HET: HIC NAG ATP; 1.80A {Bos taurus} SCOP: d.151.1.1 PDB: 1dnk_A* 2a3z_B* 2a41_B* 2a42_B* 2d1k_B* 2dnj_A* 3cjc_D* 3dni_A* 1atn_D* Back     alignment and structure
>2jc5_A Exodeoxyribonuclease; hydrolase, repair phosphodiesterase, DNA repair, exonuclease, endonuclease; HET: BCN DIO GOL; 1.50A {Neisseria meningitidis} Back     alignment and structure
>1vyb_A ORF2 contains A reverse transcriptase domain; endonuclease, APE-1 type, retrotransposition, retrotransposon, transferase; 1.8A {Homo sapiens} SCOP: d.151.1.1 PDB: 2v0s_A 2v0r_A Back     alignment and structure
>2o3h_A DNA-(apurinic or apyrimidinic site) lyase; APE, endonuclease; 1.90A {Homo sapiens} PDB: 1bix_A 1dew_A* 1de8_B* 1de9_A* 2o3c_A Back     alignment and structure
>3g91_A MTH0212, exodeoxyribonuclease; double-strand specific 3'-5' exonuclease, AP endonuclease; HET: PG4; 1.23A {Methanothermobacter thermautotrophicusorganism_taxid} PDB: 3fzi_A 3g0a_A 3g1k_A 3g2c_A 3g3c_A* 3g3y_A* 3g4t_A* 3g00_A 3g0r_A* 3g2d_A* 3g38_A 3g8v_A* 3ga6_A Back     alignment and structure
>2voa_A AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP endonuclease, lyase; 1.7A {Archaeoglobus fulgidus} Back     alignment and structure
>1hd7_A DNA-(apurinic or apyrimidinic site) lyase; DNA repair, endonuclease, APE1, HAP1, REF-1; 1.95A {Homo sapiens} SCOP: d.151.1.1 PDB: 1e9n_A 3u8u_A 2isi_A Back     alignment and structure
>1wdu_A TRAS1 ORF2P; four-layered alpha/beta sandwich, RNA binding protein; 2.40A {Bombyx mori} SCOP: d.151.1.1 Back     alignment and structure
>2j63_A AP-endonuclease; base excision repair, lyase; 2.48A {Leishmania major} Back     alignment and structure
>2f1n_A CDT B, cytolethal distending toxin subunit B; E.coli, DNAse I, microbatch; 1.73A {Escherichia coli} SCOP: d.151.1.1 Back     alignment and structure
>1sr4_B CDT B, cytolethal distending toxin protein B; bacterial, virulence, DNA damage, genotoxin, cytotoxins, cell cycle, apoptosis, lectin; 2.00A {Haemophilus ducreyi} SCOP: d.151.1.1 PDB: 2f2f_B Back     alignment and structure
>2imq_X Salivary nitrophorin; ferrous heme, beta-sandwich, transport protein; HET: HEM; 1.30A {Cimex lectularius} SCOP: d.151.1.2 PDB: 1ntf_A* 1y21_A* 1yjh_A* 1si6_X* Back     alignment and structure
>2ei9_A Non-LTR retrotransposon R1BMKS ORF2 protein; four layered alpha beta sandwich, gene regulation; 2.00A {Bombyx mori} Back     alignment and structure
>1i9z_A Synaptojanin, phosphatidylinositol phosphate phosphatase; spsynaptojanin, IPP5C, IP3, IP2,, hydrolase; HET: 2IP; 1.80A {Schizosaccharomyces pombe} SCOP: d.151.1.2 PDB: 1i9y_A* Back     alignment and structure
>2xsw_A 72 kDa inositol polyphosphate 5-phosphatase; inositol signalling, SGC stockholm, structural genomics CONS hydrolase; 1.90A {Homo sapiens} Back     alignment and structure
>3mtc_A Type II inositol-1,4,5-trisphosphate 5-phosphatas; INPP5BA,phosphoinositide 5-phosphatase, inositol signalling, phosphatase, magnesium; HET: PIF; 2.40A {Homo sapiens} PDB: 3n9v_A Back     alignment and structure
>4a9c_A Phosphatidylinositol-3,4,5-trisphosphate 5-phosph; SGC, signalling, structural genomics consortium stockholm, magnesium binding, hydrolase; HET: B5F; 2.10A {Homo sapiens} PDB: 3nr8_B* 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 223
d1zwxa1293 d.151.1.3 (A:41-333) Sphingomyelin phosphodiestera 5e-05
d2ddra1 299 d.151.1.3 (A:7-305) Sphingomyelin phosphodiesteras 6e-04
>d1zwxa1 d.151.1.3 (A:41-333) Sphingomyelin phosphodiesterase C {Listeria ivanovii [TaxId: 1638]} Length = 293 Back     information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: DNase I-like
superfamily: DNase I-like
family: Sphingomyelin phosphodiesterase-like
domain: Sphingomyelin phosphodiesterase C
species: Listeria ivanovii [TaxId: 1638]

 Score = 40.7 bits (93), Expect = 5e-05
 Identities = 22/220 (10%), Positives = 38/220 (17%), Gaps = 37/220 (16%)

Query: 6   ALYPHSPSACLKWKNRSDAVLTVLKSFGADFLCLQELDNEDFYKGNMET--EGYSSLYIQ 63
            L+  +        +R+D +         D + L E  +       +    E Y      
Sbjct: 13  YLFSRNIYPNWGQMHRADLIAQADYMKNNDVVILNEAFDTSASHRLLNNLREMYPHQTPV 72

Query: 64  RSGQKRDGCGIFYKISCAELLVEDRIYYNELVNSIKDGSSCGDDQNNTLAGGNNDSDLKS 123
               K          S   L                                        
Sbjct: 73  IGRSKHGWDKTEGNYSNFALEDGGVAV--------------------------------- 99

Query: 124 GSWSKKDSRDHGDLNDPYVRLKRDCVGIMAAFRLKGPFDHVVIVATTHLYWDPELADVKL 183
              S+    +                    A+           +  TH   D  L     
Sbjct: 100 --VSQWPIVEKSQHIFQRGGGADRLSNKGFAYVKIMKNGKPYHIIGTHTQADDSLISKDT 157

Query: 184 AQAKYLSSRLAEFRTQVSDRYDCVPSVIVAGDFNSVPGDK 223
           ++A                       + + GD N   G  
Sbjct: 158 SRAIRAEQMQEIQTFIAKKNIPKDEIIFIGGDLNVNYGTD 197
>d2ddra1 d.151.1.3 (A:7-305) Sphingomyelin phosphodiesterase C {Bacillus cereus [TaxId: 1396]} Length = 299 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 ?
Query223
d1zwxa1293 Sphingomyelin phosphodiesterase C {Listeria ivanov 99.73
d2ddra1 299 Sphingomyelin phosphodiesterase C {Bacillus cereus 99.71
d2a40b1260 Deoxyribonuclease I {Cow (Bos taurus) [TaxId: 9913 99.49
d1vyba_236 Endonuclease domain of LINE-1 reverse transcriptas 99.43
d2f1na1250 Cytolethal distending toxin subunit B {Escherichia 99.35
d1wdua_228 Endonuclease domain of TRAS1 retrotransposon (ORF2 99.25
d1sr4b_261 Cytolethal distending toxin subunit B {Haemophilus 99.21
d2imqx1280 Salivary nitrophorin {Bedbug (Cimex lectularius) [ 98.91
d1i9za_ 345 Synaptojanin, IPP5C domain {Fission yeast (Schizos 98.63
d1hd7a_275 DNA repair endonuclease Hap1 {Human (Homo sapiens) 98.52
d1akoa_268 DNA-repair enzyme exonuclease III {Escherichia col 98.14
>d1zwxa1 d.151.1.3 (A:41-333) Sphingomyelin phosphodiesterase C {Listeria ivanovii [TaxId: 1638]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: DNase I-like
superfamily: DNase I-like
family: Sphingomyelin phosphodiesterase-like
domain: Sphingomyelin phosphodiesterase C
species: Listeria ivanovii [TaxId: 1638]

Probab=99.73  E-value=4.4e-17  Score=132.89  Aligned_cols=149  Identities=13%  Similarity=0.056  Sum_probs=92.3

Q ss_pred             ChHHHHHHHHHHHhcCCCcEEEEeeecCCc---Cccccccc-------------CCCcEEEEc--cCCCCeeeEEEEEec
Q 047989           17 KWKNRSDAVLTVLKSFGADFLCLQELDNED---FYKGNMET-------------EGYSSLYIQ--RSGQKRDGCGIFYKI   78 (223)
Q Consensus        17 ~w~~R~~~i~~~I~~~~pDIi~LQEv~~~~---~l~~~L~~-------------~gY~~~~~~--~~~~~~~G~ai~~~~   78 (223)
                      .+..|.+.|+++|...+|||||||||....   .+...+..             .++......  .......|++|+   
T Consensus        24 ~~~~r~~~i~~~i~~~~~DVi~LQEv~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~il---  100 (293)
T d1zwxa1          24 GQMHRADLIAQADYMKNNDVVILNEAFDTSASHRLLNNLREMYPHQTPVIGRSKHGWDKTEGNYSNFALEDGGVAVV---  100 (293)
T ss_dssp             CHHHHHHHHHTSGGGSSCSEEEEEEECSHHHHHHHHHHTTTTCCEECCCTTSCSTTCSEEEC-----CCBCCCCEEE---
T ss_pred             CHHHHHHHHHHHHHhcCCCEEEEEccCCcchHHHHHHHHhhhccceehhcccccccccccccccccccccccceEEE---
Confidence            457788999999999999999999997632   22222221             112222111  111244689999   


Q ss_pred             CCceeeeEeEEecccccccccCCCCCCCCCCccccCCCCCCCCcCCCCCCCCCCCCCCCCCccccccCCcEEEEEEEeec
Q 047989           79 SCAELLVEDRIYYNELVNSIKDGSSCGDDQNNTLAGGNNDSDLKSGSWSKKDSRDHGDLNDPYVRLKRDCVGIMAAFRLK  158 (223)
Q Consensus        79 sr~~i~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~r~~~~~~~~l~~~  158 (223)
                      ||+++.....+.+.....                             +              .....|  .++.+.+...
T Consensus       101 sr~pi~~~~~~~~~~~~~-----------------------------~--------------~~~~~~--~~~~~~~~~~  135 (293)
T d1zwxa1         101 SQWPIVEKSQHIFQRGGG-----------------------------A--------------DRLSNK--GFAYVKIMKN  135 (293)
T ss_dssp             ESSCEEEEEEEECSCCCG-----------------------------G--------------GGGBCC--EEEEEEEEET
T ss_pred             eccCcccceeeeeecccc-----------------------------c--------------cccccc--eEEEEEEecC
Confidence            678988877665432110                             0              001123  2345555543


Q ss_pred             CCCCcEEEEEeeeeecCCCC------CchhHHHHHHHHHHHHHHHHHhccCCCCCCcEEEeccCCCCCCC
Q 047989          159 GPFDHVVIVATTHLYWDPEL------ADVKLAQAKYLSSRLAEFRTQVSDRYDCVPSVIVAGDFNSVPGD  222 (223)
Q Consensus       159 ~~~~~~~~V~ntHL~~~~~~------~~~R~~Q~~~l~~~l~~~~~~~~~~~~~~~pvIl~GDFN~~p~s  222 (223)
                        + ..++|+||||.+....      ...|..|++.+.+.+.+.      ....+.|+|||||||..|.+
T Consensus       136 --~-~~~~v~~~Hl~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~------~~~~~~~vil~GDfN~~~~~  196 (293)
T d1zwxa1         136 --G-KPYHIIGTHTQADDSLISKDTSRAIRAEQMQEIQTFIAKK------NIPKDEIIFIGGDLNVNYGT  196 (293)
T ss_dssp             --T-EEEEEEEEECCCCCTTSCHHHHHHHHHHHHHHHHHHHHHH------TCCTTSEEEEEEECCCCTTS
T ss_pred             --C-ceEEEEEeeeeccCCccchhHHHHHHHHHHHHhhhhhhhh------ccCCCCcEEEEeecCCCCCc
Confidence              3 6689999999875322      135778888777777654      12346799999999999875
>d2ddra1 d.151.1.3 (A:7-305) Sphingomyelin phosphodiesterase C {Bacillus cereus [TaxId: 1396]} Back     information, alignment and structure
>d2a40b1 d.151.1.1 (B:1-260) Deoxyribonuclease I {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure
>d1vyba_ d.151.1.1 (A:) Endonuclease domain of LINE-1 reverse transcriptase homolog {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2f1na1 d.151.1.1 (A:1-250) Cytolethal distending toxin subunit B {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1wdua_ d.151.1.1 (A:) Endonuclease domain of TRAS1 retrotransposon (ORF2) {Silkworm (Bombyx mori) [TaxId: 7091]} Back     information, alignment and structure
>d1sr4b_ d.151.1.1 (B:) Cytolethal distending toxin subunit B {Haemophilus ducreyi [TaxId: 730]} Back     information, alignment and structure
>d2imqx1 d.151.1.2 (X:3-282) Salivary nitrophorin {Bedbug (Cimex lectularius) [TaxId: 79782]} Back     information, alignment and structure
>d1i9za_ d.151.1.2 (A:) Synaptojanin, IPP5C domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]} Back     information, alignment and structure
>d1hd7a_ d.151.1.1 (A:) DNA repair endonuclease Hap1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1akoa_ d.151.1.1 (A:) DNA-repair enzyme exonuclease III {Escherichia coli [TaxId: 562]} Back     information, alignment and structure