Citrus Sinensis ID: 012812

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450------
MLSVLRVHLPSDIPIVGCELTPYVLLRRPDNAVTTEDVPESAPIDGHFLRYKWYRIQSDRKVAVCSVHPSEQATLQCLGCVKAKIPVAKSYHCSPKCFSDAWQHHRVLHDRAASAVNENGNEEEELFGRFNSTGSGVINASLSGSASNSSLTNGSTPLYPAAVTRSGGETWFEVGRSKTYTPSADDIGHVLKFECVVVDAETKLPVGHPNTLLTSRVIPAPSPSPRRLFPVNGSDMNMMGHIDSDGRISSTGTFSVLSYNILSDVYATSESYSYCPSWALSWAYRRQNLLREIIGYRADIVCLQEVQNDHFEEFFAPELDKHGYQALYKRKTNEVYNGNPHTIDGCATFFRRDRFSHVKKYEVEFNKAAQSLTDAILPSAQKKNALNRLVKDNVALIVVLEAKFSNQGADTPGKRQLLCVANTHVNVHQELKDVKLWQVLIILLSSIFNYIFVSII
cccEEEEEccccccEEccEEEEEEEEEcccccccccccccccccccccEEEEEEEEccccccEEEccccccccccccccHHcccccccccccccHHHHHHHHHHHHHHcccHHHHccccccccHHcccccccccccccccccccccccccccccccccccccccccccccEEEEcccccccccccccccEEEEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEccccccccccccccccccccccHHHHHHHHHHHHHcccccEEEEcHHcHHHHHHHHHHHHHHcccEEEEEcccccccccccccccEEEEEEEcccEEEEEEEEEEEHHHHHccccccccHHHHHHHHHHHccccHHHHHHHHcccccccccccccccEEEEEEccccccccccccHHHHHHHHHHHHHHHHHccccc
ccEEEEEEccccccEEEEEEEEEEEEEccccccccccccccccccccEEEEEEEEEcccccEEEEcccccccEEEEEEEEEEccccccccccccHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHccccccccccccccccccccccccccccccccccccccccccccEEEEcccEEEcccHHHccEEEEEEEEccccccccccHHHHHcccccccccccccccccEEEccccccccccccccccccccccEEEEEHHHHHHHHccHHHccccccHHHcHHHHHHHHHHHHHcccccEEEEEEccHHHHHHHHHHHHHHccccEEEEccccEccccccccccEEEEEEccccEEEEEccEEEHHHHHHHccccccccHccHHHHHHHHHHcEEEEEEEEEccccccccccccccEEEEEEEEEEccccccHHHHHHHHHHHHHHHHHHcccccc
MLSVLRvhlpsdipivgceltpyvllrrpdnavttedvpesapidghflRYKWYRiqsdrkvavcsvhpseqatLQCLGcvkakipvaksyhcspkcfsdawQHHRVLHDRAASavnengneeeELFGRfnstgsgvinaslsgsasnssltngstplypaavtrsggetwfevgrsktytpsaddigHVLKFECVVvdaetklpvghpntlltsrvipapspsprrlfpvngsdmnmmghidsdgrisstgTFSVLSYNILSDVyatsesysycpswaLSWAYRRQNLLREIIGYRADIVCLQEvqndhfeeffapeldkhgyqALYKrktnevyngnphtidgcatffrrdrfshvkKYEVEFNKAAQSLTDAILPSAQKKNALNRLVKDNVALIVVLEAkfsnqgadtpgkrQLLCVANTHVNVHQELKDVKLWQVLIILLSSIFNYIFVSII
MLSVLRVHlpsdipivgceLTPYVLLRRPDNavttedvpesapidghfLRYKWYRIQSDRKVAVCSVHPSEQATLQCLGCVKAKIPVAKSYHCSPKCFSDAWQHHRVLHDRAASAVNENGNEEEELFGRFNSTGSGVINASLSGSASNSSLTNGSTPLYPAAVTRSGGETWFEVGRSKTytpsaddigHVLKFECVVVDAEtklpvghpntlltsrvipapspspRRLFPVNGSDMNMMGHIDSDGRISSTGTFSVLSYNILSDVYATSESYSYCPSWALSWAYRRQNLLREIIGYRADIVCLQEVQNDHFEEFFAPELDKHGYQALYKRktnevyngnphTIDGCATFFRRDRFSHVKKYEVEFNKAAQSLTDAILPSAQKKNALNRLVKDNVALIVVLEAKfsnqgadtpGKRQLLCVANTHVNVHQELKDVKLWQVLIILLSSIFNYIFVSII
MLSVLRVHLPSDIPIVGCELTPYVLLRRPDNAVTTEDVPESAPIDGHFLRYKWYRIQSDRKVAVCSVHPSEQATLQCLGCVKAKIPVAKSYHCSPKCFSDAWQHHRVLHDRAASAVnengneeeeLFGRFNSTGSGVINaslsgsasnssltngstPLYPAAVTRSGGETWFEVGRSKTYTPSADDIGHVLKFECVVVDAETKLPVGHPNTLLTSRVIPAPSPSPRRLFPVNGSDMNMMGHIDSDGRISSTGTFSVLSYNILSDVYATSESYSYCPSWALSWAYRRQNLLREIIGYRADIVCLQEVQNDHFEEFFAPELDKHGYQALYKRKTNEVYNGNPHTIDGCATFFRRDRFSHVKKYEVEFNKAAQSLTDAILPSAQKKNALNRLVKDNVALIVVLEAKFSNQGADTPGKRQLLCVANTHVNVHQELKDVKLWQVLIILLSSIFNYIFVSII
***VLRVHLPSDIPIVGCELTPYVLLRRPDNAVTTEDVPESAPIDGHFLRYKWYRIQSDRKVAVCSVHPSEQATLQCLGCVKAKIPVAKSYHCSPKCFSDAWQHHRVLHDR*************************************************AAVTRSGGETWFEVGRSKTYTPSADDIGHVLKFECVVVDAETKLPVGHPNTLLTS********************************ISSTGTFSVLSYNILSDVYATSESYSYCPSWALSWAYRRQNLLREIIGYRADIVCLQEVQNDHFEEFFAPELDKHGYQALYKRKTNEVYNGNPHTIDGCATFFRRDRFSHVKKYEVEFNKAAQSLTDAILPSAQKKNALNRLVKDNVALIVVLEAKFSNQGADTPGKRQLLCVANTHVNVHQELKDVKLWQVLIILLSSIFNYIFVSI*
**SVLRVHLPSDIPIVGCELTPYVLLRRPDNA*********APIDGHFLRYKWYRIQSDRKVAVCSVHPSEQATLQCLGCVKAKIPVAKSYHCSPKCFSDAWQHHRV*****************ELFGRFNSTGSGV*************************VTRSGGETWFEVGRSKTYTPSADDIGHVLKFECVVVDAET*LPV****TLLTSRVIPAPSPSPRRLFPVNGSDM************SSTGTFSVLSYNILSDVYATSESYSYCPSWALSWAYRRQNLLREIIGYRADIVCLQEVQNDHFEEFFAPELDKHGYQALYKRKTNEVYNGNPHTIDGCATFFRRDRFSHVKKYEVEFNKAAQSLTDAILPSAQKKNALNRLVKDNVALIVVLEAKFSNQGADTPGKRQLLCVANTHVNVHQELKDVKLWQVLIILLSSIFNYIFVSII
MLSVLRVHLPSDIPIVGCELTPYVLLRRPDNAVTTEDVPESAPIDGHFLRYKWYRIQSDRKVAVCSVHPSEQATLQCLGCVKAKIPVAKSYHCSPKCFSDAWQHHRVLHDRAASAVNENGNEEEELFGRFNSTGSGVINASLS*********NGSTPLYPAAVTRSGGETWFEVGRSKTYTPSADDIGHVLKFECVVVDAETKLPVGHPNTLLTSRVIPAPSPSPRRLFPVNGSDMNMMGHIDSDGRISSTGTFSVLSYNILSDVYATSESYSYCPSWALSWAYRRQNLLREIIGYRADIVCLQEVQNDHFEEFFAPELDKHGYQALYKRKTNEVYNGNPHTIDGCATFFRRDRFSHVKKYEVEFNKAAQSLTDAILPSAQKKNALNRLVKDNVALIVVLEAKFSNQGADTPGKRQLLCVANTHVNVHQELKDVKLWQVLIILLSSIFNYIFVSII
MLSVLRVHLPSDIPIVGCELTPYVLLRRPDNAVTTEDVPESAPIDGHFLRYKWYRIQSDRKVAVCSVHPSEQATLQCLGCVKAKIPVAKSYHCSPKCFSDAWQHHRVLHDRAASAVN**************************************T***P*******GETWFEVGRSKTYTPSADDIGHVLKFECVVVDAETKLPVGHPNTLLTSRVIPAPSPSPRRLFPVNGS**************SSTGTFSVLSYNILSDVYATSESYSYCPSWALSWAYRRQNLLREIIGYRADIVCLQEVQNDHFEEFFAPELDKHGYQALYKRKTNEVYNGNPHTIDGCATFFRRDRFSHVKKYEVEFNKAAQSLTDAILPSAQKKNALNRLVKDNVALIVVLEAKFSNQGADTPGKRQLLCVANTHVNVHQELKDVKLWQVLIILLSSIFNYIFVSII
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MLSVLRVHLPSDIPIVGCELTPYVLLRRPDNAVTTEDVPESAPIDGHFLRYKWYRIQSDRKVAVCSVHPSEQATLQCLGCVKAKIPVAKSYHCSPKCFSDAWQHHRVLHDRAASAVNENGNEEEELFGRFNSTGSGVINASLSGSASNSSLTNGSTPLYPAAVTRSGGETWFEVGRSKTYTPSADDIGHVLKFECVVVDAETKLPVGHPNTLLTSRVIPAPSPSPRRLFPVNGSDMNMMGHIDSDGRISSTGTFSVLSYNILSDVYATSESYSYCPSWALSWAYRRQNLLREIIGYRADIVCLQEVQNDHFEEFFAPELDKHGYQALYKRKTNEVYNGNPHTIDGCATFFRRDRFSHVKKYEVEFNKAAQSLTDAILPSAQKKNALNRLVKDNVALIVVLEAKFSNQGADTPGKRQLLCVANTHVNVHQELKDVKLWQVLIILLSSIFNYIFVSII
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 ?
Query456 2.2.26 [Sep-21-2011]
Q8W0Z9 602 Carbon catabolite repress yes no 0.951 0.720 0.753 0.0
Q9M2F8 603 Carbon catabolite repress no no 0.960 0.726 0.732 0.0
A2BHJ4 559 CCR4-NOT transcription co no no 0.418 0.341 0.376 2e-34
Q9ULM6 557 CCR4-NOT transcription co yes no 0.478 0.391 0.346 3e-34
Q5BJ41 552 CCR4-NOT transcription co N/A no 0.491 0.405 0.344 3e-34
Q6IR85 550 CCR4-NOT transcription co N/A no 0.418 0.347 0.377 3e-34
Q6AXU9 557 CCR4-NOT transcription co yes no 0.482 0.394 0.345 3e-34
Q8K3P5 557 CCR4-NOT transcription co yes no 0.482 0.394 0.345 3e-34
Q96LI5 555 CCR4-NOT transcription co no no 0.418 0.344 0.372 8e-34
Q8VEG6 555 CCR4-NOT transcription co no no 0.418 0.344 0.367 9e-34
>sp|Q8W0Z9|CCR4A_ARATH Carbon catabolite repressor protein 4 homolog 1 OS=Arabidopsis thaliana GN=CCR4-1 PE=2 SV=1 Back     alignment and function desciption
 Score =  693 bits (1788), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 336/446 (75%), Positives = 386/446 (86%), Gaps = 12/446 (2%)

Query: 1   MLSVLRVHLPSDIPIVGCELTPYVLLRRPDNAVTTEDVPESAPIDGHFLRYKWYRIQSDR 60
           MLSV+RVHLPS+IPIVGCELTPYVLLRRPD   +T+DVPESAP++GHFL+Y+W+R+QSD+
Sbjct: 1   MLSVIRVHLPSEIPIVGCELTPYVLLRRPDKTPSTDDVPESAPLEGHFLKYRWFRVQSDK 60

Query: 61  KVAVCSVHPSEQATLQCLGCVKAKIPVAKSYHCSPKCFSDAWQHHRVLHDRAASAVNENG 120
           KVA+CSVHPSE ATLQCLGC+K+K+PVAKSYHCS KCFSDAWQHHRVLH+RAASA  E G
Sbjct: 61  KVAICSVHPSETATLQCLGCLKSKVPVAKSYHCSTKCFSDAWQHHRVLHERAASAATE-G 119

Query: 121 NEEEELFGRFNSTGSGVINASLSGSASNSSLTNGSTPLYPAAVTR---SGGETWFEVGRS 177
           N+EEEL  R NS+      +     +++ SLTNGS+ +YP+A+T+   +GGET  EVGRS
Sbjct: 120 NDEEEL-PRLNSS-----GSGSGVLSTSVSLTNGSSSVYPSAITQKTGAGGETLVEVGRS 173

Query: 178 KTYTPSADDIGHVLKFECVVVDAETKLPVGHPNTLLTSRVIPAPSPSPRRLFPVNGSDMN 237
           KTYTP ADDI HVLKFECVVV+AETK  VG   T+LTSRVIPAPSPSPRRL  ++G+D+ 
Sbjct: 174 KTYTPMADDICHVLKFECVVVNAETKQNVGLSCTILTSRVIPAPSPSPRRLISISGTDVT 233

Query: 238 MMGHIDSDGRISSTGTFSVLSYNILSDVYATSESYSYCPSWALSWAYRRQNLLREIIGYR 297
             GH+DS+GR  S GTF+VLSYNILSD YA+S+ YSYCP+WAL+W YRRQNLLREI+ YR
Sbjct: 234 --GHLDSNGRPLSMGTFTVLSYNILSDTYASSDIYSYCPTWALAWTYRRQNLLREIVKYR 291

Query: 298 ADIVCLQEVQNDHFEEFFAPELDKHGYQALYKRKTNEVYNGNPHTIDGCATFFRRDRFSH 357
           ADIVCLQEVQNDHFEEFF PELDKHGYQ L+KRKTNEV+ GN +TIDGCATFFRRDRFSH
Sbjct: 292 ADIVCLQEVQNDHFEEFFLPELDKHGYQGLFKRKTNEVFIGNTNTIDGCATFFRRDRFSH 351

Query: 358 VKKYEVEFNKAAQSLTDAILPSAQKKNALNRLVKDNVALIVVLEAKFSNQGADTPGKRQL 417
           VKKYEVEFNKAAQSLT+AI+P +QKKNALNRLVKDNVALIVVLEAKF +Q AD PGKRQL
Sbjct: 352 VKKYEVEFNKAAQSLTEAIIPVSQKKNALNRLVKDNVALIVVLEAKFGSQAADNPGKRQL 411

Query: 418 LCVANTHVNVHQELKDVKLWQVLIIL 443
           LCVANTHVNV  ELKDVKLWQV  +L
Sbjct: 412 LCVANTHVNVPHELKDVKLWQVHTLL 437
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|Q9M2F8|CCR4B_ARATH Carbon catabolite repressor protein 4 homolog 2 OS=Arabidopsis thaliana GN=CCR4-2 PE=2 SV=2 Back     alignment and function description
>sp|A2BHJ4|CNO6L_DANRE CCR4-NOT transcription complex subunit 6-like OS=Danio rerio GN=cnot6l 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|Q5BJ41|CNOT6_XENLA CCR4-NOT transcription complex subunit 6 OS=Xenopus laevis GN=cnot6 PE=2 SV=1 Back     alignment and function description
>sp|Q6IR85|CN6LA_XENLA CCR4-NOT transcription complex subunit 6-like-A OS=Xenopus laevis GN=cnot6l-a 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
>sp|Q8K3P5|CNOT6_MOUSE CCR4-NOT transcription complex subunit 6 OS=Mus musculus GN=Cnot6 PE=1 SV=2 Back     alignment and function description
>sp|Q96LI5|CNO6L_HUMAN CCR4-NOT transcription complex subunit 6-like OS=Homo sapiens GN=CNOT6L PE=1 SV=2 Back     alignment and function description
>sp|Q8VEG6|CNO6L_MOUSE CCR4-NOT transcription complex subunit 6-like OS=Mus musculus GN=Cnot6l PE=1 SV=2 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query456
255580696 603 carbon catabolite repressor protein, put 0.967 0.731 0.896 0.0
224139930 603 predicted protein [Populus trichocarpa] 0.967 0.731 0.891 0.0
224088166 602 predicted protein [Populus trichocarpa] 0.967 0.732 0.887 0.0
225441541 603 PREDICTED: carbon catabolite repressor p 0.967 0.731 0.885 0.0
147789110 603 hypothetical protein VITISV_044263 [Viti 0.967 0.731 0.882 0.0
449480842 603 PREDICTED: carbon catabolite repressor p 0.967 0.731 0.819 0.0
356505479 602 PREDICTED: carbon catabolite repressor p 0.960 0.727 0.834 0.0
356572657 600 PREDICTED: carbon catabolite repressor p 0.960 0.73 0.828 0.0
356530679 600 PREDICTED: carbon catabolite repressor p 0.960 0.73 0.813 0.0
115481988 605 Os10g0412100 [Oryza sativa Japonica Grou 0.962 0.725 0.744 0.0
>gi|255580696|ref|XP_002531170.1| carbon catabolite repressor protein, putative [Ricinus communis] gi|223529240|gb|EEF31213.1| carbon catabolite repressor protein, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  822 bits (2123), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 398/444 (89%), Positives = 425/444 (95%), Gaps = 3/444 (0%)

Query: 1   MLSVLRVHLPSDIPIVGCELTPYVLLRRPDNAVTTEDVPESAPIDGHFLRYKWYRIQSDR 60
           MLSV+RVHLPSDIPIVGCELTPYVLLRRPD AVTT+DVPESAP+DGHFLRYKWYRIQSDR
Sbjct: 1   MLSVIRVHLPSDIPIVGCELTPYVLLRRPDKAVTTDDVPESAPLDGHFLRYKWYRIQSDR 60

Query: 61  KVAVCSVHPSEQATLQCLGCVKAKIPVAKSYHCSPKCFSDAWQHHRVLHDRAASAVNENG 120
           KVAVCSVHPSEQATLQCLGCVKAKIPVAKSYHCS KCFSDAWQHHRVLHDRAASAV+ENG
Sbjct: 61  KVAVCSVHPSEQATLQCLGCVKAKIPVAKSYHCSTKCFSDAWQHHRVLHDRAASAVSENG 120

Query: 121 NEEEELFGRFNSTGSGVINASLSGSASNSSLTNGSTPLYPAAVT-RSGGETWFEVGRSKT 179
           N+EEE+FGRFNSTGSGV+N SLS SAS +SLTNGS PLYPAAV  RSGGETWFEVGRSKT
Sbjct: 121 NDEEEVFGRFNSTGSGVLNTSLSSSASTASLTNGSAPLYPAAVAQRSGGETWFEVGRSKT 180

Query: 180 YTPSADDIGHVLKFECVVVDAETKLPVGHPNTLLTSRVIPAPSPSPRRLFPVNGSDMNMM 239
           YTPSADDIGHVLKFECVVVDAE+KLPVGHPNT+LTSRVIPAPSP+PRRL PV+G D+  M
Sbjct: 181 YTPSADDIGHVLKFECVVVDAESKLPVGHPNTILTSRVIPAPSPTPRRLIPVSGIDV--M 238

Query: 240 GHIDSDGRISSTGTFSVLSYNILSDVYATSESYSYCPSWALSWAYRRQNLLREIIGYRAD 299
           GH+DSDGRISS+GTF+VLSYNILSDVYATSE+YSYCPSWALSW YRRQNLLREI+GYRAD
Sbjct: 239 GHLDSDGRISSSGTFTVLSYNILSDVYATSETYSYCPSWALSWPYRRQNLLREIVGYRAD 298

Query: 300 IVCLQEVQNDHFEEFFAPELDKHGYQALYKRKTNEVYNGNPHTIDGCATFFRRDRFSHVK 359
           IVCLQEVQNDH+EEFFAPELDKHGYQALYKRKTNEVY+GN  TIDGCATFFRRDRFSHVK
Sbjct: 299 IVCLQEVQNDHYEEFFAPELDKHGYQALYKRKTNEVYSGNSPTIDGCATFFRRDRFSHVK 358

Query: 360 KYEVEFNKAAQSLTDAILPSAQKKNALNRLVKDNVALIVVLEAKFSNQGADTPGKRQLLC 419
           KYEVEFNKAAQSLT+A++PSAQ+K ALNRLVKDNVALIVVLEAKFSNQGAD PGKRQLLC
Sbjct: 359 KYEVEFNKAAQSLTEAVVPSAQRKTALNRLVKDNVALIVVLEAKFSNQGADNPGKRQLLC 418

Query: 420 VANTHVNVHQELKDVKLWQVLIIL 443
           VANTHVN+H +LKDVKLWQVL +L
Sbjct: 419 VANTHVNIHHDLKDVKLWQVLTLL 442

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224139930|ref|XP_002323345.1| predicted protein [Populus trichocarpa] gi|118486421|gb|ABK95050.1| unknown [Populus trichocarpa] gi|222867975|gb|EEF05106.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224088166|ref|XP_002308351.1| predicted protein [Populus trichocarpa] gi|222854327|gb|EEE91874.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|225441541|ref|XP_002280990.1| PREDICTED: carbon catabolite repressor protein 4 homolog 1 [Vitis vinifera] gi|297739794|emb|CBI29976.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|147789110|emb|CAN73496.1| hypothetical protein VITISV_044263 [Vitis vinifera] Back     alignment and taxonomy information
>gi|449480842|ref|XP_004156011.1| PREDICTED: carbon catabolite repressor protein 4 homolog 1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|356505479|ref|XP_003521518.1| PREDICTED: carbon catabolite repressor protein 4 homolog 2-like [Glycine max] Back     alignment and taxonomy information
>gi|356572657|ref|XP_003554483.1| PREDICTED: carbon catabolite repressor protein 4 homolog 2-like [Glycine max] Back     alignment and taxonomy information
>gi|356530679|ref|XP_003533908.1| PREDICTED: carbon catabolite repressor protein 4 homolog 2-like [Glycine max] Back     alignment and taxonomy information
>gi|115481988|ref|NP_001064587.1| Os10g0412100 [Oryza sativa Japonica Group] gi|78708623|gb|ABB47598.1| endonuclease/exonuclease/phosphatase family protein, putative, expressed [Oryza sativa Japonica Group] gi|78708624|gb|ABB47599.1| endonuclease/exonuclease/phosphatase family protein, putative, expressed [Oryza sativa Japonica Group] gi|113639196|dbj|BAF26501.1| Os10g0412100 [Oryza sativa Japonica Group] 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 ?
Query456
TAIR|locus:2076426 602 AT3G58560 "AT3G58560" [Arabido 0.951 0.720 0.730 1.2e-175
TAIR|locus:2076446 603 AT3G58580 "AT3G58580" [Arabido 0.960 0.726 0.701 3.1e-170
UNIPROTKB|Q9ULM6 557 CNOT6 "CCR4-NOT transcription 0.429 0.351 0.381 3.7e-33
ZFIN|ZDB-GENE-071004-97 558 zgc:171797 "zgc:171797" [Danio 0.434 0.354 0.370 4.9e-33
UNIPROTKB|Q5BJ41 552 cnot6 "CCR4-NOT transcription 0.434 0.358 0.375 5.9e-33
UNIPROTKB|A6QR51 557 CNOT6 "CNOT6 protein" [Bos tau 0.434 0.355 0.375 6.4e-33
UNIPROTKB|E2QS92 557 CNOT6 "Uncharacterized protein 0.434 0.355 0.375 6.4e-33
MGI|MGI:2144529 557 Cnot6 "CCR4-NOT transcription 0.434 0.355 0.375 6.4e-33
RGD|1310783 557 Cnot6 "CCR4-NOT transcription 0.434 0.355 0.375 6.4e-33
ZFIN|ZDB-GENE-050522-302 559 cnot6l "CCR4-NOT transcription 0.416 0.339 0.390 6.6e-33
TAIR|locus:2076426 AT3G58560 "AT3G58560" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1706 (605.6 bits), Expect = 1.2e-175, P = 1.2e-175
 Identities = 326/446 (73%), Positives = 370/446 (82%)

Query:     1 MLSVLRVHLPSDIPIVGCELTPYVLLRRPDNAVTTEDVPESAPIDGHFLRYKWYRIQSDR 60
             MLSV+RVHLPS+IPIVGCELTPYVLLRRPD   +T+DVPESAP++GHFL+Y+W+R+QSD+
Sbjct:     1 MLSVIRVHLPSEIPIVGCELTPYVLLRRPDKTPSTDDVPESAPLEGHFLKYRWFRVQSDK 60

Query:    61 KVAVCSVHPSEQATLQCLGCVKAKIPVAKSYHCSPKCFSDAWQHHRVLHDRAASAVXXXX 120
             KVA+CSVHPSE ATLQCLGC+K+K+PVAKSYHCS KCFSDAWQHHRVLH+RAASA     
Sbjct:    61 KVAICSVHPSETATLQCLGCLKSKVPVAKSYHCSTKCFSDAWQHHRVLHERAASAATEGN 120

Query:   121 XXXXXLFGRFNSTGSGVINXXXXXXXXXXXXXXXXXPLYPAAVTR---SGGETWFEVGRS 177
                     R NS+GSG                     +YP+A+T+   +GGET  EVGRS
Sbjct:   121 DEEE--LPRLNSSGSG-----SGVLSTSVSLTNGSSSVYPSAITQKTGAGGETLVEVGRS 173

Query:   178 KTYTPSADDIGHVLKFECVVVDAETKLPVGHPNTLLTSRVIPAPSPSPRRLFPVNGSDMN 237
             KTYTP ADDI HVLKFECVVV+AETK  VG   T+LTSRVIPAPSPSPRRL  ++G+D+ 
Sbjct:   174 KTYTPMADDICHVLKFECVVVNAETKQNVGLSCTILTSRVIPAPSPSPRRLISISGTDVT 233

Query:   238 MMGHIDSDGRISSTGTFSVLSYNILSDVYATSESYSYCPSWALSWAYRRQNLLREIIGYR 297
               GH+DS+GR  S GTF+VLSYNILSD YA+S+ YSYCP+WAL+W YRRQNLLREI+ YR
Sbjct:   234 --GHLDSNGRPLSMGTFTVLSYNILSDTYASSDIYSYCPTWALAWTYRRQNLLREIVKYR 291

Query:   298 ADIVCLQEVQNDHFEEFFAPELDKHGYQALYKRKTNEVYNGNPHTIDGCATFFRRDRFSH 357
             ADIVCLQEVQNDHFEEFF PELDKHGYQ L+KRKTNEV+ GN +TIDGCATFFRRDRFSH
Sbjct:   292 ADIVCLQEVQNDHFEEFFLPELDKHGYQGLFKRKTNEVFIGNTNTIDGCATFFRRDRFSH 351

Query:   358 VKKYEVEFNKAAQSLTDAILPSAQKKNALNRLVKDNVALIVVLEAKFSNQGADTPGKRQL 417
             VKKYEVEFNKAAQSLT+AI+P +QKKNALNRLVKDNVALIVVLEAKF +Q AD PGKRQL
Sbjct:   352 VKKYEVEFNKAAQSLTEAIIPVSQKKNALNRLVKDNVALIVVLEAKFGSQAADNPGKRQL 411

Query:   418 LCVANTHVNVHQELKDVKLWQVLIIL 443
             LCVANTHVNV  ELKDVKLWQV  +L
Sbjct:   412 LCVANTHVNVPHELKDVKLWQVHTLL 437
GO:0008150 "biological_process" evidence=ND
GO:0016787 "hydrolase activity" evidence=ISS
GO:0005829 "cytosol" evidence=IDA
GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=RCA
TAIR|locus:2076446 AT3G58580 "AT3G58580" [Arabidopsis thaliana (taxid:3702)] 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
ZFIN|ZDB-GENE-071004-97 zgc:171797 "zgc:171797" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|Q5BJ41 cnot6 "CCR4-NOT transcription complex subunit 6" [Xenopus laevis (taxid:8355)] Back     alignment and assigned GO terms
UNIPROTKB|A6QR51 CNOT6 "CNOT6 protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|E2QS92 CNOT6 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
MGI|MGI:2144529 Cnot6 "CCR4-NOT transcription complex, subunit 6" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
RGD|1310783 Cnot6 "CCR4-NOT transcription complex, subunit 6" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-050522-302 cnot6l "CCR4-NOT transcription complex, subunit 6-like" [Danio rerio (taxid:7955)] 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) ?
Q8W0Z9CCR4A_ARATH3, ., 1, ., 1, 3, ., 40.75330.95170.7209yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer3.1.13.40.946
3rd Layer3.1.130.963

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
estExt_fgenesh4_pg.C_LG_XVI0485
SubName- Full=Putative uncharacterized protein; (603 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 ?
Query456
PLN03144 606 PLN03144, PLN03144, Carbon catabolite repressor pr 0.0
cd09097 329 cd09097, Deadenylase_CCR4, C-terminal deadenylase 2e-92
cd10312 348 cd10312, Deadenylase_CCR4b, C-terminal deadenylase 1e-40
cd10313 350 cd10313, Deadenylase_CCR4a, C-terminal deadenylase 9e-40
COG5239 378 COG5239, CCR4, mRNA deadenylase, exonuclease subun 4e-33
cd09096 280 cd09096, Deadenylase_nocturnin, C-terminal deadeny 1e-19
cd09082 348 cd09082, Deadenylase, C-terminal deadenylase domai 9e-18
PLN03158396 PLN03158, PLN03158, methionine aminopeptidase; Pro 2e-04
cd08372241 cd08372, EEP, Exonuclease-Endonuclease-Phosphatase 3e-04
cd09083252 cd09083, EEP-1, Exonuclease-Endonuclease-Phosphata 3e-04
>gnl|CDD|178689 PLN03144, PLN03144, Carbon catabolite repressor protein 4 homolog; Provisional Back     alignment and domain information 
 Score =  884 bits (2287), Expect = 0.0
 Identities = 365/446 (81%), Positives = 407/446 (91%), Gaps = 5/446 (1%)

Query: 1   MLSVLRVHLPSDIPIVGCELTPYVLLRRPDNAVTTEDVPESAPIDGHFLRYKWYRIQSDR 60
           MLSV+RVHLPSDIPIVGCELTPYVLLRRPD  +TT+DVPESAP+DG+FLRY+WYRIQSDR
Sbjct: 1   MLSVVRVHLPSDIPIVGCELTPYVLLRRPDGTLTTDDVPESAPLDGYFLRYRWYRIQSDR 60

Query: 61  KVAVCSVHPSEQATLQCLGCVKAKIPVAKSYHCSPKCFSDAWQHHRVLHDRAASAVNENG 120
           KVAVCSVHPSE ATLQC+GCVKAK+PV+KSYHCSPKCFSDAW+HHRVLH+RAASAV ENG
Sbjct: 61  KVAVCSVHPSEPATLQCVGCVKAKLPVSKSYHCSPKCFSDAWRHHRVLHERAASAVRENG 120

Query: 121 NEEEELFGRFNSTGSGVINASLSGSASNSSLTNGSTPLYPAAV---TRSGGETWFEVGRS 177
           NEE+ELFGRFNS+GSGV++ S SGSAS++SLTNGS PLYP+ +   T+ GGETW EVGRS
Sbjct: 121 NEEDELFGRFNSSGSGVLSTSDSGSASSASLTNGSVPLYPSGIEQKTQVGGETWIEVGRS 180

Query: 178 KTYTPSADDIGHVLKFECVVVDAETKLPVGHPNTLLTSRVIPAPSPSPRRLFPVNGSDMN 237
           KTYTP+ADD+GHVLKFECVVVDAET LPVGHP ++LTSRVIPAPSP+PRRL  VNG D  
Sbjct: 181 KTYTPTADDVGHVLKFECVVVDAETGLPVGHPQSILTSRVIPAPSPTPRRLIQVNGLDG- 239

Query: 238 MMGHIDSDGRISSTGTFSVLSYNILSDVYATSESYSYCPSWALSWAYRRQNLLREIIGYR 297
            MGH+D DGR SS GTF+VLSYNILSD+YATS+ YSYCP WALSW YRRQNLLREI+GYR
Sbjct: 240 -MGHLDLDGRTSSAGTFTVLSYNILSDLYATSDMYSYCPPWALSWTYRRQNLLREIVGYR 298

Query: 298 ADIVCLQEVQNDHFEEFFAPELDKHGYQALYKRKTNEVYNGNPHTIDGCATFFRRDRFSH 357
           ADI+CLQEVQ+DHFEEFFAPELDKHGYQALYK+KT EVY GN + IDGCATFFRRDRFS 
Sbjct: 299 ADILCLQEVQSDHFEEFFAPELDKHGYQALYKKKTTEVYTGNTYVIDGCATFFRRDRFSL 358

Query: 358 VKKYEVEFNKAAQSLTDAILPSAQKKNALNRLVKDNVALIVVLEAKFSNQGADTPGKRQL 417
           VKKYEVEFNKAAQSLT+A++PSAQKK ALNRL+KDNVALIVVLEAKF NQGAD  GKRQL
Sbjct: 359 VKKYEVEFNKAAQSLTEALIPSAQKKAALNRLLKDNVALIVVLEAKFGNQGADNGGKRQL 418

Query: 418 LCVANTHVNVHQELKDVKLWQVLIIL 443
           LCVANTH++ +QELKDVKLWQV  +L
Sbjct: 419 LCVANTHIHANQELKDVKLWQVHTLL 444

Length = 606
>gnl|CDD|197331 cd09097, Deadenylase_CCR4, C-terminal deadenylase domain of CCR4 and related domains 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|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|227564 COG5239, CCR4, mRNA deadenylase, exonuclease subunit and related nucleases [RNA processing and modification] 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|197316 cd09082, Deadenylase, C-terminal deadenylase domain of CCR4, nocturnin, and related domains Back     alignment and domain information
>gnl|CDD|215607 PLN03158, PLN03158, methionine aminopeptidase; Provisional Back     alignment and domain information
>gnl|CDD|197306 cd08372, EEP, Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily Back     alignment and domain information
>gnl|CDD|197317 cd09083, EEP-1, Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1 Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 456
PLN03144 606 Carbon catabolite repressor protein 4 homolog; Pro 100.0
COG5239 378 CCR4 mRNA deadenylase, exonuclease subunit and rel 100.0
KOG2338 495 consensus Transcriptional effector CCR4-related pr 100.0
KOG0620 361 consensus Glucose-repressible alcohol dehydrogenas 99.97
PLN03158396 methionine aminopeptidase; Provisional 99.69
TIGR03395 283 sphingomy sphingomyelin phosphodiesterase. Members 99.48
KOG2738369 consensus Putative methionine aminopeptidase [Post 99.33
smart00476276 DNaseIc deoxyribonuclease I. Deoxyribonuclease I c 99.23
PRK05421263 hypothetical protein; Provisional 99.23
PF03372249 Exo_endo_phos: Endonuclease/Exonuclease/phosphatas 99.1
PRK11756 268 exonuclease III; Provisional 99.1
COG3568259 ElsH Metal-dependent hydrolase [General function p 99.0
PTZ00297 1452 pantothenate kinase; Provisional 98.9
KOG2756 349 consensus Predicted Mg2+-dependent phosphodiestera 98.85
TIGR00195254 exoDNase_III exodeoxyribonuclease III. The model b 98.68
TIGR00633255 xth exodeoxyribonuclease III (xth). This family is 98.62
COG0708261 XthA Exonuclease III [DNA replication, recombinati 98.04
PRK13911250 exodeoxyribonuclease III; Provisional 97.68
KOG3873 422 consensus Sphingomyelinase family protein [Signal 97.61
PRK15251271 cytolethal distending toxin subunit CdtB; Provisio 97.27
smart00128 310 IPPc Inositol polyphosphate phosphatase, catalytic 96.82
PF0175337 zf-MYND: MYND finger; InterPro: IPR002893 Zinc fin 96.78
COG2374 798 Predicted extracellular nuclease [General function 90.14
KOG1710396 consensus MYND Zn-finger and ankyrin repeat protei 88.08
>PLN03144 Carbon catabolite repressor protein 4 homolog; Provisional Back     alignment and domain information 
Probab=100.00  E-value=3.3e-119  Score=965.95  Aligned_cols=445  Identities=81%  Similarity=1.321  Sum_probs=411.0

Q ss_pred             CccEEEEeccCCCceeceeeeeEEEEecCCCCCCCCCCCCCCCCCCceeEEEEeeecCCCccccccCCCCCCcceecchh
Q 012812            1 MLSVLRVHLPSDIPIVGCELTPYVLLRRPDNAVTTEDVPESAPIDGHFLRYKWYRIQSDRKVAVCSVHPSEQATLQCLGC   80 (456)
Q Consensus         1 ~~~~~~~~l~~~~p~~g~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~r~~~~~~~~~C~~~c~~~a~l~Cp~C   80 (456)
                      ||+|||||||+|||||||||+|||++||+||+++++||||++|++|+||||||||+|+++++++|++|++++|+||||+|
T Consensus         1 ~~~~~~~~l~~~~pi~g~~~~p~v~~~~~~~~~~~~d~~~~~~~~~~~~~~~w~r~~~~~~~~~c~~h~~~~a~lqCp~C   80 (606)
T PLN03144          1 MLSVVRVHLPSDIPIVGCELTPYVLLRRPDGTLTTDDVPESAPLDGYFLRYRWYRIQSDRKVAVCSVHPSEPATLQCVGC   80 (606)
T ss_pred             CeeEEEEEcCCCCCeeeeeeEEEEEEEcCCCCcCcccCcccCCCCcceEEEEEEecCCCccceeEeecCCCcccccCccc
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hccCCCCCceeecChHHhHHhHHHHHHHHHhhhhhcccCCCchhhcccCCCCCCCccccccCCCCCCCCCccCCCccccc
Q 012812           81 VKAKIPVAKSYHCSPKCFSDAWQHHRVLHDRAASAVNENGNEEEELFGRFNSTGSGVINASLSGSASNSSLTNGSTPLYP  160 (456)
Q Consensus        81 ~k~~~~~~~s~fCsq~CFk~~W~~Hk~~H~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (456)
                      +|+|+++..||||||+|||++|++||.+|+.|+++.++||+|++++|++++++|+|.....++|+.++.+++|||+++||
T Consensus        81 ~k~~~~~~~s~fCsq~CFk~~w~~Hk~~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (606)
T PLN03144         81 VKAKLPVSKSYHCSPKCFSDAWRHHRVLHERAASAVRENGNEEDELFGRFNSSGSGVLSTSDSGSASSASLTNGSVPLYP  160 (606)
T ss_pred             hhcCCCcCcceeeCHHHHHHHHHHHHHHHHHhhhhhcccCccccccccccCCCccccccccccccccccccccCcccccc
Confidence            99999878899999999999999999999999999999999999999999999999999888888888889999999999


Q ss_pred             cccccCC---CCceEEEccceeecCCccCCCceEEEEEEEecCCCCCCCCCcceeeeccccCCCCCCCCCeeeeCCCCcc
Q 012812          161 AAVTRSG---GETWFEVGRSKTYTPSADDIGHVLKFECVVVDAETKLPVGHPNTLLTSRVIPAPSPSPRRLFPVNGSDMN  237 (456)
Q Consensus       161 ~~~~~~~---~~~W~~vg~~~~YtPt~~DiG~~lkle~~~~~~~~~~~~g~~~~i~s~~v~p~p~p~~R~~i~~~~~~~~  237 (456)
                      .+..+..   +++|++||++++|||+++|||+.|||||+|+++.++.+.|...++++.+|+|+|.|++|+|++++.  .+
T Consensus       161 ~~~~~~~~~~~~~w~~vg~~~~y~p~~~d~g~~lk~~~~~~~~~~~~~~~~~~~~~t~~v~~~p~p~~R~~~~~~~--~~  238 (606)
T PLN03144        161 SGIEQKTQVGGETWIEVGRSKTYTPTADDVGHVLKFECVVVDAETGLPVGHPQSILTSRVIPAPSPTPRRLIQVNG--LD  238 (606)
T ss_pred             cccccccCCCCCceEEeCCCccccCChhhCCceEEEEEEEcccccCCCCccceeecccceecCCCCCCcceEEecc--cc
Confidence            9977666   899999999999999999999999999999999877778888899999999999999999999875  34


Q ss_pred             ccccccCCCCCCCCCcEEEEecccccCccCCCCCCCCCCCcccChHHHHHHHHHHhhcCCCcEEEeccccchhHHhhhHH
Q 012812          238 MMGHIDSDGRISSTGTFSVLSYNILSDVYATSESYSYCPSWALSWAYRRQNLLREIIGYRADIVCLQEVQNDHFEEFFAP  317 (456)
Q Consensus       238 ~~~~~~~~~~~~~~~~frVmSYNILad~Ya~~~~y~ycp~~~L~W~yRk~~Il~eI~~~~aDIICLQEVd~~~~~d~~~~  317 (456)
                      .++|++++++..+.++|||||||||||.|+++++|+|||+++|+|+||+++|++||..|+|||||||||+.++|+++|.+
T Consensus       239 ~~~~~~~~~~~~~~~~frVmSYNILAd~ya~~dly~ycp~~aL~W~yRk~lIl~EI~~~~aDIICLQEV~~~~~~d~~~p  318 (606)
T PLN03144        239 GMGHLDLDGRTSSAGTFTVLSYNILSDLYATSDMYSYCPPWALSWTYRRQNLLREIVGYRADILCLQEVQSDHFEEFFAP  318 (606)
T ss_pred             cccccccccccCCCCCEEEEEeeeccccccCcccccCCCccccCHHHHHHHHHHHHHhcCCCEEEEeecCHHHHHHHHHh
Confidence            56778887787888999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHhhcCCeeEEeeccCcccCCCCCCcceeEEeEecCceeEeEeEEEEccccccccccccCCchhhhhhhhhcccCcEEEE
Q 012812          318 ELDKHGYQALYKRKTNEVYNGNPHTIDGCATFFRRDRFSHVKKYEVEFNKAAQSLTDAILPSAQKKNALNRLVKDNVALI  397 (456)
Q Consensus       318 ~L~~~GY~g~~~~K~~~~~~~~~~~~dG~AIFyr~srF~ll~~~~i~f~~~~~~~~d~~~~~~~~~~~~~R~~~dnVali  397 (456)
                      .|.++||.|+|.+|++.+++++..+.||||||||++||++++++.|+|++.++++++...+..+++++++|++++|||++
T Consensus       319 ~L~~~GY~Gv~~~Kt~~~~~~~~~~~DGcAIFyr~drFeLv~~~~ief~~~~lslt~~~~~s~~~~~~l~Rl~kdNVAli  398 (606)
T PLN03144        319 ELDKHGYQALYKKKTTEVYTGNTYVIDGCATFFRRDRFSLVKKYEVEFNKAAQSLTEALIPSAQKKAALNRLLKDNVALI  398 (606)
T ss_pred             hhhhcCceEEEeCCCCccccccccCCceeEEEEECcceEEEEeeeeeccchhhccCccccccccchhhhhhhccCcEEEE
Confidence            99999999999999876555666678999999999999999999999999888777666555567889999999999999


Q ss_pred             EEeeecccCCCCCCCCCCceEEEEEeccCCCCCChhhHHHHHHHHHHHhh
Q 012812          398 VVLEAKFSNQGADTPGKRQLLCVANTHVNVHQELKDVKLWQVLIILLSSI  447 (456)
Q Consensus       398 v~Le~~~~~~~~~~~~~~~~l~VaNTHL~~~P~~~dVRL~Q~~~Ll~~~~  447 (456)
                      ++||++.+.......++++.|+||||||+|+|+++|||++|++.|++++-
T Consensus       399 v~Le~k~~~~~~~~~~~~~~l~VaNTHL~~~p~~~dvRl~Q~~~Ll~~l~  448 (606)
T PLN03144        399 VVLEAKFGNQGADNGGKRQLLCVANTHIHANQELKDVKLWQVHTLLKGLE  448 (606)
T ss_pred             EEEEEecccccccCCCCccEEEEEEeeeccCCccchhHHHHHHHHHHHHH
Confidence            99999754322222344678999999999999999999999999998743

>COG5239 CCR4 mRNA deadenylase, exonuclease subunit and related nucleases [RNA processing and modification] Back     alignment and domain information
>KOG2338 consensus Transcriptional effector CCR4-related protein [Transcription] Back     alignment and domain information
>KOG0620 consensus Glucose-repressible alcohol dehydrogenase transcriptional effector CCR4 and related proteins [Transcription] Back     alignment and domain information
>PLN03158 methionine aminopeptidase; Provisional Back     alignment and domain information
>TIGR03395 sphingomy sphingomyelin phosphodiesterase Back     alignment and domain information
>KOG2738 consensus Putative methionine aminopeptidase [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>smart00476 DNaseIc deoxyribonuclease I Back     alignment and domain information
>PRK05421 hypothetical protein; Provisional 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
>PRK11756 exonuclease III; Provisional Back     alignment and domain information
>COG3568 ElsH Metal-dependent hydrolase [General function prediction only] Back     alignment and domain information
>PTZ00297 pantothenate kinase; Provisional Back     alignment and domain information
>KOG2756 consensus Predicted Mg2+-dependent phosphodiesterase TTRAP [Signal transduction mechanisms] Back     alignment and domain information
>TIGR00195 exoDNase_III exodeoxyribonuclease III 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
>PRK13911 exodeoxyribonuclease III; Provisional Back     alignment and domain information
>KOG3873 consensus Sphingomyelinase family protein [Signal transduction mechanisms] Back     alignment and domain information
>PRK15251 cytolethal distending toxin subunit CdtB; Provisional Back     alignment and domain information
>smart00128 IPPc Inositol polyphosphate phosphatase, catalytic domain homologues Back     alignment and domain information
>PF01753 zf-MYND: MYND finger; InterPro: IPR002893 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule Back     alignment and domain information
>COG2374 Predicted extracellular nuclease [General function prediction only] Back     alignment and domain information
>KOG1710 consensus MYND Zn-finger and ankyrin repeat protein [General function prediction only] 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 ?
Query456
3ngn_A 398 Crystal Structure Of The Human Cnot6l Nuclease Doma 9e-35
3ngq_A 398 Crystal Structure Of The Human Cnot6l Nuclease Doma 1e-34
4b8c_D 727 Nuclease Module Of The Yeast Ccr4-Not Complex Lengt 6e-31
>pdb|3NGN|A Chain A, Crystal Structure Of The Human Cnot6l Nuclease Domain In Complex With Amp Length = 398 Back     alignment and structure 
Iteration: 1

 Score =  144 bits (363), Expect = 9e-35,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 117/204 (57%), Gaps = 13/204 (6%)
Query: 247 RISSTGTFSVLSYNILSDVYATSESYSYCPSWALSWAYRRQNLLREIIGYRADIVCLQEV 306
           +I  + +F+V+ YN+L D YAT + Y YCPSWAL+W YR++ ++ EI+   ADI+ LQEV
Sbjct: 25  QILPSASFTVMCYNVLCDKYATRQLYGYCPSWALNWEYRKKGIMEEIVNCDADIISLQEV 84
Query: 307 QNDHFEEFFAPELDKHGYQALY--KRKTNEVYNGNPHTIDGCATFFRRDRFSHVKKYEVE 364
           + + +   F P L + GY   +  K +   +       +DGCA FF+ ++F+ V+K+ VE
Sbjct: 85  ETEQYFTLFLPALKERGYDGFFSPKSRAKIMSEQERKHVDGCAIFFKTEKFTLVQKHTVE 144
Query: 365 FNKAAQSLTDAILPSAQKKNALNR-LVKDNVALIVVLEAKFSNQGADT----PGKRQLLC 419
           FN+ A + +D        +  LNR + KDN+ + VVLE      GA         +QLL 
Sbjct: 145 FNQVAMANSDG------SEAMLNRVMTKDNIGVAVVLEVHKELFGAGMKPIHAADKQLLI 198
Query: 420 VANTHVNVHQELKDVKLWQVLIIL 443
           VAN H++   E  DVKL Q ++ +
Sbjct: 199 VANAHMHWDPEYSDVKLIQTMMFV 222
>pdb|3NGQ|A Chain A, Crystal Structure Of The Human Cnot6l Nuclease Domain Length = 398 Back     alignment and structure
>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex Length = 727 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 ?
Query456
3ngq_A 398 CCR4-NOT transcription complex subunit 6-like; alp 4e-52
3mpr_A 298 Putative endonuclease/exonuclease/phosphatase FAM 1e-21
3g6s_A267 Putative endonuclease/exonuclease/phosphatase fami 4e-17
3l1w_A257 Uncharacterized protein; APC29019.2, conserved pro 5e-13
2ddr_A 306 Sphingomyelin phosphodiesterase; DNAse I like fold 2e-06
1zwx_A301 SMCL, sphingomyelinase-C; dnase1-like fold, beta-h 2e-06
3i41_A317 Beta-hemolysin; beta toxin, sphingomyelinase, toxi 6e-06
3teb_A266 Endonuclease/exonuclease/phosphatase; PSI-biology, 7e-04
>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 =  179 bits (455), Expect = 4e-52
 Identities = 79/239 (33%), Positives = 124/239 (51%), Gaps = 24/239 (10%)

Query: 212 LLTSRVIPAPSPSPRRLFPVNGSDMNMMGHIDSDGRISSTGTFSVLSYNILSDVYATSES 271
           +L +  +      PR               +    +I  + +F+V+ YN+L D YAT + 
Sbjct: 1   MLDNLAVHPEQLPPRPWIT-----------LKERDQILPSASFTVMCYNVLCDKYATRQL 49

Query: 272 YSYCPSWALSWAYRRQNLLREIIGYRADIVCLQEVQNDHFEEFFAPELDKHGYQALYKRK 331
           Y YCPSWAL+W YR++ ++ EI+   ADI+ LQEV+ + +   F P L + GY   +  K
Sbjct: 50  YGYCPSWALNWEYRKKGIMEEIVNCDADIISLQEVETEQYFTLFLPALKERGYDGFFSPK 109

Query: 332 TNE--VYNGNPHTIDGCATFFRRDRFSHVKKYEVEFNKAAQSLTDAILPSAQKKNALNRL 389
           +    +       +DGCA FF+ ++F+ V+K+ VEFN+ A +       S   +  LNR+
Sbjct: 110 SRAKIMSEQERKHVDGCAIFFKTEKFTLVQKHTVEFNQVAMA------NSDGSEAMLNRV 163

Query: 390 V-KDNVALIVVLEAKFSNQGADT----PGKRQLLCVANTHVNVHQELKDVKLWQVLIIL 443
           + KDN+ + VVLE      GA         +QLL VAN H++   E  DVKL Q ++ +
Sbjct: 164 MTKDNIGVAVVLEVHKELFGAGMKPIHAADKQLLIVANAHMHWDPEYSDVKLIQTMMFV 222
>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
>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 Length = 306 Back     alignment and structure
>1zwx_A SMCL, sphingomyelinase-C; dnase1-like fold, beta-hairpin, hydrolase; 1.90A {Listeria ivanovii} SCOP: d.151.1.3 Length = 301 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 Length = 317 Back     alignment and structure
>3teb_A Endonuclease/exonuclease/phosphatase; PSI-biology, MCSG, midwest center for structural genomics; 2.99A {Leptotrichia buccalis c-1013-b} Length = 266 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query456
3ngq_A 398 CCR4-NOT transcription complex subunit 6-like; alp 100.0
4b8c_D 727 Glucose-repressible alcohol dehydrogenase transcr 99.95
3l1w_A257 Uncharacterized protein; APC29019.2, conserved pro 99.81
3g6s_A267 Putative endonuclease/exonuclease/phosphatase fami 99.79
3mpr_A 298 Putative endonuclease/exonuclease/phosphatase FAM 99.79
4f1h_A 250 Tyrosyl-DNA phosphodiesterase 2; hydrolase-DNA com 99.7
4gz1_A 256 Tyrosyl-DNA phosphodiesterase 2; protein-DNA compl 99.7
3teb_A266 Endonuclease/exonuclease/phosphatase; PSI-biology, 99.64
4fva_A256 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosy 99.62
1zwx_A 301 SMCL, sphingomyelinase-C; dnase1-like fold, beta-h 99.59
4gew_A362 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosy 99.59
3i41_A 317 Beta-hemolysin; beta toxin, sphingomyelinase, toxi 99.55
2ddr_A 306 Sphingomyelin phosphodiesterase; DNAse I like fold 99.45
1ako_A 268 Exonuclease III; AP-endonuclease, DNA repair; 1.70 99.31
2jc4_A256 Exodeoxyribonuclease III; hydrolase, repair phosph 99.22
2a40_B260 Deoxyribonuclease-1; WAVE, WH2, WAsp, actin, DNAse 99.18
1vyb_A238 ORF2 contains A reverse transcriptase domain; endo 99.09
2jc5_A259 Exodeoxyribonuclease; hydrolase, repair phosphodie 99.04
2o3h_A285 DNA-(apurinic or apyrimidinic site) lyase; APE, en 99.0
1wdu_A245 TRAS1 ORF2P; four-layered alpha/beta sandwich, RNA 98.89
1hd7_A318 DNA-(apurinic or apyrimidinic site) lyase; DNA rep 98.87
2voa_A257 AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP 98.85
3g91_A265 MTH0212, exodeoxyribonuclease; double-strand speci 98.79
2j63_A 467 AP-endonuclease; base excision repair, lyase; 2.48 98.74
2imq_X 282 Salivary nitrophorin; ferrous heme, beta-sandwich, 98.74
2f1n_A262 CDT B, cytolethal distending toxin subunit B; E.co 98.24
1sr4_B261 CDT B, cytolethal distending toxin protein B; bact 98.14
2xsw_A 357 72 kDa inositol polyphosphate 5-phosphatase; inosi 97.98
1i9z_A 347 Synaptojanin, phosphatidylinositol phosphate phosp 97.94
2ei9_A240 Non-LTR retrotransposon R1BMKS ORF2 protein; four 97.52
3mtc_A 313 Type II inositol-1,4,5-trisphosphate 5-phosphatas; 96.8
4a9c_A 316 Phosphatidylinositol-3,4,5-trisphosphate 5-phosph; 96.75
2dj8_A60 Protein CBFA2T1; zinc finger MYND domain, protein 94.85
2od1_A60 Protein CBFA2T1; zinc finger, cross-braced topolog 94.77
2odd_A64 Protein CBFA2T1; MYND zinc finger, cross-braced to 94.55
2d8q_A70 BLU protein, zinc finger MYND domain containing pr 94.46
2jw6_A52 Deformed epidermal autoregulatory factor 1 homolo; 94.42
3qwp_A429 SET and MYND domain-containing protein 3; SMYD3,SE 89.73
3qww_A433 SET and MYND domain-containing protein 2; methyltr 89.31
3n71_A490 Histone lysine methyltransferase SMYD1; heart deve 87.44
>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=7.6e-41  Score=346.66  Aligned_cols=211  Identities=37%  Similarity=0.687  Sum_probs=169.8

Q ss_pred             CCCCCCCCCeeeeCCCCccccccccCCCCCCCCCcEEEEecccccCccCCCCCCCCCCCcccChHHHHHHHHHHhhcCCC
Q 012812          219 PAPSPSPRRLFPVNGSDMNMMGHIDSDGRISSTGTFSVLSYNILSDVYATSESYSYCPSWALSWAYRRQNLLREIIGYRA  298 (456)
Q Consensus       219 p~p~p~~R~~i~~~~~~~~~~~~~~~~~~~~~~~~frVmSYNILad~Ya~~~~y~ycp~~~L~W~yRk~~Il~eI~~~~a  298 (456)
                      +.|+|++|.|+.+...           .+..+...|||||||||+|.|+++++|+|||+++++|.+|++.|+++|..++|
T Consensus         8 ~~~~p~~R~wi~~~~~-----------~~~~~~~~~~V~syNIl~d~~~~~~~~~~~p~~~~~W~~R~~~i~~~i~~~~p   76 (398)
T 3ngq_A            8 HPEQLPPRPWITLKER-----------DQILPSASFTVMCYNVLCDKYATRQLYGYCPSWALNWEYRKKGIMEEIVNCDA   76 (398)
T ss_dssp             ----CCCCCEEECSCC-----------C--CCCEEEEEEEEECCCGGGCCTTTCTTSCHHHHSHHHHHHHHHHHHHHHCC
T ss_pred             CCCCCCCCcceECCCC-----------CCCCCCCCEEEEEEccCcCcCCccccccCCChhhcCHHHHHHHHHHHHHhcCC
Confidence            4566789999998641           12234568999999999999999999999999999999999999999999999


Q ss_pred             cEEEeccccchhHHhhhHHhHhhcCCeeEEeeccCcccC--CCCCCcceeEEeEecCceeEeEeEEEEcccccccccccc
Q 012812          299 DIVCLQEVQNDHFEEFFAPELDKHGYQALYKRKTNEVYN--GNPHTIDGCATFFRRDRFSHVKKYEVEFNKAAQSLTDAI  376 (456)
Q Consensus       299 DIICLQEVd~~~~~d~~~~~L~~~GY~g~~~~K~~~~~~--~~~~~~dG~AIFyr~srF~ll~~~~i~f~~~~~~~~d~~  376 (456)
                      ||||||||+..+|.+++.+.|...||.++|..|++...+  ++.++.+|||||||++||+++++..|+|++.+..     
T Consensus        77 DIi~lQEv~~~q~~~~l~~~L~~~gY~~v~~~k~r~~~~~~~~~~~~eG~AIfyr~~~f~ll~~~~i~ls~~~~~-----  151 (398)
T 3ngq_A           77 DIISLQEVETEQYFTLFLPALKERGYDGFFSPKSRAKIMSEQERKHVDGCAIFFKTEKFTLVQKHTVEFNQVAMA-----  151 (398)
T ss_dssp             SEEEEEEEEHHHHHHTHHHHHHHTTEEEEEEESCTTSCCCHHHHHTCEEEEEEEETTTEEEEEEEEEEHHHHHHH-----
T ss_pred             CEEEEecccHHHHHHHHHHHHHhCCceEEEecCCCccccccccccCcceeEEEEECCcceEEeeeEEecCCCccc-----
Confidence            999999999888888889999999999999877543110  1123579999999999999999999999987642     


Q ss_pred             CCchhhhhhhhhcc-cCcEEEEEEeeecccCCCC----CCCCCCceEEEEEeccCCCCCChhhHHHHHHHHHHHh
Q 012812          377 LPSAQKKNALNRLV-KDNVALIVVLEAKFSNQGA----DTPGKRQLLCVANTHVNVHQELKDVKLWQVLIILLSS  446 (456)
Q Consensus       377 ~~~~~~~~~~~R~~-~dnValiv~Le~~~~~~~~----~~~~~~~~l~VaNTHL~~~P~~~dVRL~Q~~~Ll~~~  446 (456)
                       ++..++++++|++ ++|||++++|+.+.+....    ....+++.|+|+||||+|+|.+.++|+.|+++||+++
T Consensus       152 -~s~~~~~~~~Ri~t~~nval~~~L~~~~~~~~~~~~~~~~~~~~~l~V~nTHL~~~p~~~~vRl~Q~~~Ll~~l  225 (398)
T 3ngq_A          152 -NSDGSEAMLNRVMTKDNIGVAVVLEVHKELFGAGMKPIHAADKQLLIVANAHMHWDPEYSDVKLIQTMMFVSEV  225 (398)
T ss_dssp             -TCTTCHHHHHTTTTCCCEEEEEEEEECGGGC-----------CCEEEEEEEECCCCTTCHHHHHHHHHHHHHHH
T ss_pred             -ccccchhhhcceeeccceeEEEEEEEcccccccccccccCCCCcEEEEEEeCcCCCCCCHHHHHHHHHHHHHHH
Confidence             2234678999998 6999999999987421000    0012467899999999999999999999999999874
>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
>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
>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
>4f1h_A Tyrosyl-DNA phosphodiesterase 2; hydrolase-DNA complex; HET: DNA; 1.66A {Danio rerio} PDB: 4fpv_A* 4f1h_B* 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
>3teb_A Endonuclease/exonuclease/phosphatase; PSI-biology, MCSG, midwest center for structural genomics; 2.99A {Leptotrichia buccalis c-1013-b} 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
>1zwx_A SMCL, sphingomyelinase-C; dnase1-like fold, beta-hairpin, hydrolase; 1.90A {Listeria ivanovii} SCOP: d.151.1.3 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
>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
>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
>1ako_A Exonuclease III; AP-endonuclease, DNA repair; 1.70A {Escherichia coli} SCOP: d.151.1.1 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
>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
>2jc5_A Exodeoxyribonuclease; hydrolase, repair phosphodiesterase, DNA repair, exonuclease, endonuclease; HET: BCN DIO GOL; 1.50A {Neisseria meningitidis} 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
>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
>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
>2voa_A AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP endonuclease, lyase; 1.7A {Archaeoglobus fulgidus} 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
>2j63_A AP-endonuclease; base excision repair, lyase; 2.48A {Leishmania major} 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
>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
>2xsw_A 72 kDa inositol polyphosphate 5-phosphatase; inositol signalling, SGC stockholm, structural genomics CONS hydrolase; 1.90A {Homo sapiens} 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
>2ei9_A Non-LTR retrotransposon R1BMKS ORF2 protein; four layered alpha beta sandwich, gene regulation; 2.00A {Bombyx mori} 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
>2dj8_A Protein CBFA2T1; zinc finger MYND domain, protein MTG8, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.85.1.1 Back     alignment and structure
>2od1_A Protein CBFA2T1; zinc finger, cross-braced topology, metal binding protein; NMR {Homo sapiens} Back     alignment and structure
>2odd_A Protein CBFA2T1; MYND zinc finger, cross-braced topology, poly-proline, proline-tryptophan interaction, metal binding protein; NMR {Homo sapiens} Back     alignment and structure
>2d8q_A BLU protein, zinc finger MYND domain containing protein 10; zmynd10, ZF-MYND, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.85.1.1 PDB: 2dan_A Back     alignment and structure
>2jw6_A Deformed epidermal autoregulatory factor 1 homolo; zinc binding domain, transcription, alternative splicing, DI mutation, DNA-binding; NMR {Homo sapiens} SCOP: g.85.1.1 Back     alignment and structure
>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A* Back     alignment and structure
>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A* Back     alignment and structure
>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus} 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 456
d2ddra1 299 d.151.1.3 (A:7-305) Sphingomyelin phosphodiesteras 3e-08
d1zwxa1293 d.151.1.3 (A:41-333) Sphingomyelin phosphodiestera 1e-07
d1sr4b_261 d.151.1.1 (B:) Cytolethal distending toxin subunit 8e-04
d2a40b1260 d.151.1.1 (B:1-260) Deoxyribonuclease I {Cow (Bos 0.001
>d2ddra1 d.151.1.3 (A:7-305) Sphingomyelin phosphodiesterase C {Bacillus cereus [TaxId: 1396]} Length = 299 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: Bacillus cereus [TaxId: 1396]

 Score = 52.7 bits (124), Expect = 3e-08
 Identities = 14/115 (12%), Positives = 28/115 (24%), Gaps = 15/115 (13%)

Query: 253 TFSVLSYNILSDVYATSESYSYCPSWALSWAYRRQNLLREIIGYRADIVCLQEVQNDHFE 312
           T  V+++N+         ++            R   +         D+V L EV ++   
Sbjct: 3   TLKVMTHNVYMLSTNLYPNWG--------QTERADLIGAADYIKNQDVVILNEVFDNSAS 54

Query: 313 EFFAPELDKHGYQALYKRKTNEVYNGNPHTIDGCATFFRRDRFSHVKKYEVEFNK 367
           +     L K                G     +   T       +         +K
Sbjct: 55  DRLLGNLKKEYPNQTA-------VLGRSSGSEWDKTLGNYSSSTPEDGGVAIVSK 102
>d1zwxa1 d.151.1.3 (A:41-333) Sphingomyelin phosphodiesterase C {Listeria ivanovii [TaxId: 1638]} Length = 293 Back     information, alignment and structure
>d1sr4b_ d.151.1.1 (B:) Cytolethal distending toxin subunit B {Haemophilus ducreyi [TaxId: 730]} Length = 261 Back     information, alignment and structure
>d2a40b1 d.151.1.1 (B:1-260) Deoxyribonuclease I {Cow (Bos taurus) [TaxId: 9913]} Length = 260 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 ?
Query456
d1zwxa1 293 Sphingomyelin phosphodiesterase C {Listeria ivanov 99.49
d2ddra1 299 Sphingomyelin phosphodiesterase C {Bacillus cereus 99.48
d2a40b1260 Deoxyribonuclease I {Cow (Bos taurus) [TaxId: 9913 98.92
d1vyba_236 Endonuclease domain of LINE-1 reverse transcriptas 98.88
d1sr4b_261 Cytolethal distending toxin subunit B {Haemophilus 98.81
d2f1na1250 Cytolethal distending toxin subunit B {Escherichia 98.54
d1akoa_268 DNA-repair enzyme exonuclease III {Escherichia col 98.43
d2imqx1280 Salivary nitrophorin {Bedbug (Cimex lectularius) [ 98.37
d1wdua_228 Endonuclease domain of TRAS1 retrotransposon (ORF2 98.3
d1hd7a_275 DNA repair endonuclease Hap1 {Human (Homo sapiens) 98.26
d1i9za_ 345 Synaptojanin, IPP5C domain {Fission yeast (Schizos 97.47
d2dj8a147 Zinc finger MYND domain-containing protein 2, MTG8 96.94
d2dana147 Zinc finger MYND domain-containing protein 10, ZMY 96.91
d2jw6a138 Zinc finger MYND domain-containing protein 2, MTG8 96.72
>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=99.49  E-value=1.4e-13  Score=128.06  Aligned_cols=156  Identities=16%  Similarity=0.150  Sum_probs=93.3

Q ss_pred             CCcEEEEecccccCccCCCCCCCCCCCcccChHHHHHHHHHHhhcCCCcEEEeccccchhHHhhhHHhHhhcCCeeEEee
Q 012812          251 TGTFSVLSYNILSDVYATSESYSYCPSWALSWAYRRQNLLREIIGYRADIVCLQEVQNDHFEEFFAPELDKHGYQALYKR  330 (456)
Q Consensus       251 ~~~frVmSYNILad~Ya~~~~y~ycp~~~L~W~yRk~~Il~eI~~~~aDIICLQEVd~~~~~d~~~~~L~~~GY~g~~~~  330 (456)
                      ++.||||||||..-   ....++     .-.+..|.++|.++|..++|||||||||......+.+...+.. .|...+..
T Consensus         2 ~~~lki~s~Nv~~~---~~~~~~-----~~~~~~r~~~i~~~i~~~~~DVi~LQEv~~~~~~~~l~~~~~~-~~~~~~~~   72 (293)
T d1zwxa1           2 PGNFKITSHNVYLF---SRNIYP-----NWGQMHRADLIAQADYMKNNDVVILNEAFDTSASHRLLNNLRE-MYPHQTPV   72 (293)
T ss_dssp             CCSCEEEEEEEEEC---CTTTST-----TSCHHHHHHHHHTSGGGSSCSEEEEEEECSHHHHHHHHHHTTT-TCCEECCC
T ss_pred             CCCCEEEEEecCcC---ccccCC-----CcCHHHHHHHHHHHHHhcCCCEEEEEccCCcchHHHHHHHHhh-hccceehh
Confidence            46799999999531   112221     2246788999999999999999999999877665555555532 33332221


Q ss_pred             ccCcc---------cCCCCCCcceeEEeEecCceeEeEeEEEEccccccccccccCCchhhhhhhhhcccCcEEEEEEee
Q 012812          331 KTNEV---------YNGNPHTIDGCATFFRRDRFSHVKKYEVEFNKAAQSLTDAILPSAQKKNALNRLVKDNVALIVVLE  401 (456)
Q Consensus       331 K~~~~---------~~~~~~~~dG~AIFyr~srF~ll~~~~i~f~~~~~~~~d~~~~~~~~~~~~~R~~~dnValiv~Le  401 (456)
                      .....         .........|++||   +||++.....+.+......           .    +.. ..-++.+.+.
T Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~~g~~il---sr~pi~~~~~~~~~~~~~~-----------~----~~~-~~~~~~~~~~  133 (293)
T d1zwxa1          73 IGRSKHGWDKTEGNYSNFALEDGGVAVV---SQWPIVEKSQHIFQRGGGA-----------D----RLS-NKGFAYVKIM  133 (293)
T ss_dssp             TTSCSTTCSEEEC-----CCBCCCCEEE---ESSCEEEEEEEECSCCCGG-----------G----GGB-CCEEEEEEEE
T ss_pred             cccccccccccccccccccccccceEEE---eccCcccceeeeeeccccc-----------c----ccc-cceEEEEEEe
Confidence            11100         00111234689999   8899888776655443210           0    101 1123333333


Q ss_pred             ecccCCCCCCCCCCceEEEEEeccCCCCC------ChhhHHHHHHHHHHH
Q 012812          402 AKFSNQGADTPGKRQLLCVANTHVNVHQE------LKDVKLWQVLIILLS  445 (456)
Q Consensus       402 ~~~~~~~~~~~~~~~~l~VaNTHL~~~P~------~~dVRL~Q~~~Ll~~  445 (456)
                      .           .++.++|+||||.+...      ...+|+.|+..+++.
T Consensus       134 ~-----------~~~~~~v~~~Hl~~~~~~~~~~~~~~~r~~~~~~~~~~  172 (293)
T d1zwxa1         134 K-----------NGKPYHIIGTHTQADDSLISKDTSRAIRAEQMQEIQTF  172 (293)
T ss_dssp             E-----------TTEEEEEEEEECCCCCTTSCHHHHHHHHHHHHHHHHHH
T ss_pred             c-----------CCceEEEEEeeeeccCCccchhHHHHHHHHHHHHhhhh
Confidence            3           25679999999987422      345688888777654
>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
>d1sr4b_ d.151.1.1 (B:) Cytolethal distending toxin subunit B {Haemophilus ducreyi [TaxId: 730]} 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
>d1akoa_ d.151.1.1 (A:) DNA-repair enzyme exonuclease III {Escherichia coli [TaxId: 562]} 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
>d1wdua_ d.151.1.1 (A:) Endonuclease domain of TRAS1 retrotransposon (ORF2) {Silkworm (Bombyx mori) [TaxId: 7091]} 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
>d1i9za_ d.151.1.2 (A:) Synaptojanin, IPP5C domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]} Back     information, alignment and structure
>d2dj8a1 g.85.1.1 (A:8-54) Zinc finger MYND domain-containing protein 2, MTG8 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2dana1 g.85.1.1 (A:8-54) Zinc finger MYND domain-containing protein 10, ZMYND10 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2jw6a1 g.85.1.1 (A:503-540) Zinc finger MYND domain-containing protein 2, MTG8 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure