Psyllid ID: psy396

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-------24
MSISGGDWSARNKLKAYEGVYCLAIRQYCRAAELFVDVVPTFESYELAEFGTIIRYTVLACMIALPRYNLRKKLMHHGVMAQALHSQYRDLREYFVSLYDGHYFEFLKCLAAVEQDMKRDPLLNPHYRHYVQEMRLRAYKQILQAYRSLSLKYMAQCFGVSVEFIEKEVARFAAAGRLQCKIDSVAGNVVTTSHISEKGDCRSEAPEASLDRGILYQTTVKRGDIFLNRLKKLARVIDF
cccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHcccccHHHHHHHHcHHHHHHHHHHcHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHcHHHHccHHHHHHHHcccHHHHHHHHHHHHHcccccEEEEccccEEEEccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
cccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHccHHHHHHHHcccHHHHHHHHHccHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHcccHHHHHHHHHHHHHccccEEEEEccccEEEEccccccccccHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
MSISGGDWSARNKLKAYEGVYCLAIRQYCRAAELFvdvvptfesyelaefgTIIRYTVLACMIALPRYNLRKKLMHHGVMAQALHSQYRDLREYFVSLYDGHYFEFLKCLAAVEqdmkrdpllnphyrHYVQEMRLRAYKQILQAYRSLSLKYMAQCFGVSVEFIEKEVARFAAAGRLQckidsvagnvvttshisekgdcrseapeasldrgilyqtTVKRGDIFLNRLKKLARVIDF
msisggdwsarnkLKAYEGVYCLAIRQYCRAAELFVDVVPTFESYELAEFGTIIRYTVLACMIALPRYNLRKKLMHHGVMAQALHSQYRDLREYFVSLYDGHYFEFLKCLAAVEQDMKRDPLLNPHYRHYVQEMRLRAYKQILQAYRSLSLKYMAQCFGVSVEFIEKEVARFAAAGRLQCKIDSVAGNVVTtshisekgdcrseapeasldrgilyqttvkrgdiflnrlkklarvidf
MSISGGDWSARNKLKAYEGVYCLAIRQYCRAAELFVDVVPTFESYELAEFGTIIRYTVLACMIALPRYNLRKKLMHHGVMAQALHSQYRDLREYFVSLYDGHYFEFLKCLAAVEQDMKRDPLLNPHYRHYVQEMRLRAYKQILQAYRSLSLKYMAQCFGVSVEFIEKEVARFAAAGRLQCKIDSVAGNVVTTSHISEKGDCRSEAPEASLDRGILYQTTVKRGDIFLNRLKKLARVIDF
**********RNKLKAYEGVYCLAIRQYCRAAELFVDVVPTFESYELAEFGTIIRYTVLACMIALPRYNLRKKLMHHGVMAQALHSQYRDLREYFVSLYDGHYFEFLKCLAAVEQDMKRDPLLNPHYRHYVQEMRLRAYKQILQAYRSLSLKYMAQCFGVSVEFIEKEVARFAAAGRLQCKIDSVAGNVVTTSHI**************LDRGILYQTTVKRGDIFLNRLKKLARVI**
***SGGDWSARNKLKAYEGVYCLAIRQYCRAAELFVDVVPTFESYELAEFGTIIRYTVLACMIALPRYNLRKKLMHHGVMAQALHSQYRDLREYFVSLYDGHYFEFLKCLAAVEQDMKRDPLLNPHYRHYVQEMRLRAYKQILQAYRSLSLKYMAQCFGVSVEFIEKEVARFAAAGRLQCKIDSVAGNVVTTSHISEKGDCRSEAPEASLDRGILYQTTVKRGDIFLNRLKKLARVIDF
MSISGGDWSARNKLKAYEGVYCLAIRQYCRAAELFVDVVPTFESYELAEFGTIIRYTVLACMIALPRYNLRKKLMHHGVMAQALHSQYRDLREYFVSLYDGHYFEFLKCLAAVEQDMKRDPLLNPHYRHYVQEMRLRAYKQILQAYRSLSLKYMAQCFGVSVEFIEKEVARFAAAGRLQCKIDSVAGNVVTTSH************EASLDRGILYQTTVKRGDIFLNRLKKLARVIDF
*****GDWSARNKLKAYEGVYCLAIRQYCRAAELFVDVVPTFESYELAEFGTIIRYTVLACMIALPRYNLRKKLMHHGVMAQALHSQYRDLREYFVSLYDGHYFEFLKCLAAVEQDMKRDPLLNPHYRHYVQEMRLRAYKQILQAYRSLSLKYMAQCFGVSVEFIEKEVARFAAAGRLQCKIDSVAGNVVTTSHISEKGDCRSEAPEASLDRGILYQTTVKRGDIFLNRLKKLARVIDF
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
ooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
ooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
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MSISGGDWSARNKLKAYEGVYCLAIRQYCRAAELFVDVVPTFESYELAEFGTIIRYTVLACMIALPRYNLRKKLMHHGVMAQALHSQYRDLREYFVSLYDGHYFEFLKCLAAVEQDMKRDPLLNPHYRHYVQEMRLRAYKQILQAYRSLSLKYMAQCFGVSVEFIEKEVARFAAAGRLQCKIDSVAGNVVTTSHISEKGDCRSEAPEASLDRGILYQTTVKRGDIFLNRLKKLARVIDF
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 ?
Query239 2.2.26 [Sep-21-2011]
Q15008389 26S proteasome non-ATPase yes N/A 0.920 0.565 0.495 1e-60
Q99JI4389 26S proteasome non-ATPase yes N/A 0.920 0.565 0.491 3e-60
Q3T0B2389 26S proteasome non-ATPase yes N/A 0.920 0.565 0.495 9e-60
Q9V3G7389 26S proteasome non-ATPase yes N/A 0.920 0.565 0.461 5e-57
Q93Y35387 Probable 26S proteasome n yes N/A 0.916 0.565 0.417 9e-49
Q8W425389 26S proteasome non-ATPase yes N/A 0.899 0.552 0.410 4e-48
Q20585410 26S proteasome non-ATPase yes N/A 0.916 0.534 0.404 3e-44
Q55C75382 26S proteasome non-ATPase yes N/A 0.912 0.570 0.380 2e-43
Q10335409 Probable 26S proteasome r yes N/A 0.891 0.520 0.393 6e-39
Q06103429 26S proteasome regulatory yes N/A 0.891 0.496 0.324 1e-28
>sp|Q15008|PSMD6_HUMAN 26S proteasome non-ATPase regulatory subunit 6 OS=Homo sapiens GN=PSMD6 PE=1 SV=1 Back     alignment and function desciption
 Score =  233 bits (593), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 117/236 (49%), Positives = 163/236 (69%), Gaps = 16/236 (6%)

Query: 4   SGGDWSARNKLKAYEGVYCLAIRQYCRAAELFVDVVPTFESYELAEFGTIIRYTVLACMI 63
            GGDW  RN+LK Y+G+YC+AIR + +AAELF+D V TF SYEL ++ T + YTV   MI
Sbjct: 170 EGGDWDRRNRLKVYQGLYCVAIRDFKQAAELFLDTVSTFTSYELMDYKTFVTYTVYVSMI 229

Query: 64  ALPRYNLRKKLMHHGVMAQALHSQYRDLREYFVSLYDGHYFEFLKCLAAVEQDMKRDPLL 123
           AL R +LR+K++    + + LHS    +R+Y  SLY+  Y  F + LA VEQ+MK+D L 
Sbjct: 230 ALERPDLREKVIKGAEILEVLHS-LPAVRQYLFSLYECRYSVFFQSLAVVEQEMKKDWLF 288

Query: 124 NPHYRHYVQEMRLRAYKQILQAYRSLSLKYMAQCFGVSVEFIEKEVARFAAAGRLQCKID 183
            PHYR+YV+EMR+ AY Q+L++YRSL+L YMA+ FGV VEFI++E++RF AAGRL CKID
Sbjct: 289 APHYRYYVREMRIHAYSQLLESYRSLTLGYMAEAFGVGVEFIDQELSRFIAAGRLHCKID 348

Query: 184 SVAGNVVTTSHISEKGDCRSEAPEASLDRGILYQTTVKRGDIFLNRLKKLARVIDF 239
            V   +V T+            P++   +   YQ T+K+GD+ LNR++KL+RVI+ 
Sbjct: 349 KV-NEIVETNR-----------PDS---KNWQYQETIKKGDLLLNRVQKLSRVINM 389
Acts as a regulatory subunit of the 26S proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins.
Homo sapiens (taxid: 9606)
>sp|Q99JI4|PSMD6_MOUSE 26S proteasome non-ATPase regulatory subunit 6 OS=Mus musculus GN=Psmd6 PE=1 SV=1 Back     alignment and function description
>sp|Q3T0B2|PSMD6_BOVIN 26S proteasome non-ATPase regulatory subunit 6 OS=Bos taurus GN=PSMD6 PE=2 SV=1 Back     alignment and function description
>sp|Q9V3G7|PSMD6_DROME 26S proteasome non-ATPase regulatory subunit 6 OS=Drosophila melanogaster GN=Rpn7 PE=2 SV=1 Back     alignment and function description
>sp|Q93Y35|PSMD6_ARATH Probable 26S proteasome non-ATPase regulatory subunit 6 OS=Arabidopsis thaliana GN=At4g24820 PE=2 SV=1 Back     alignment and function description
>sp|Q8W425|PSMD6_ORYSJ 26S proteasome non-ATPase regulatory subunit 6 OS=Oryza sativa subsp. japonica GN=RPN7 PE=2 SV=1 Back     alignment and function description
>sp|Q20585|PSMD6_CAEEL 26S proteasome non-ATPase regulatory subunit 6 OS=Caenorhabditis elegans GN=rpn-7 PE=3 SV=1 Back     alignment and function description
>sp|Q55C75|PSMD6_DICDI 26S proteasome non-ATPase regulatory subunit 6 OS=Dictyostelium discoideum GN=psmD6 PE=1 SV=1 Back     alignment and function description
>sp|Q10335|RPN7_SCHPO Probable 26S proteasome regulatory subunit rpn7 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rpn7 PE=2 SV=1 Back     alignment and function description
>sp|Q06103|RPN7_YEAST 26S proteasome regulatory subunit RPN7 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RPN7 PE=1 SV=3 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 ?
Query239
389608903 382 26S proteasome non-ATPase regulatory sub 0.937 0.586 0.561 3e-67
242006070 387 26S proteasome non-ATPase regulatory sub 0.916 0.565 0.576 3e-67
357610675 382 hypothetical protein KGM_03040 [Danaus p 0.937 0.586 0.553 6e-67
389614706299 26S proteasome non-ATPase regulatory sub 0.937 0.749 0.548 8e-66
383849952 609 PREDICTED: 26S proteasome non-ATPase reg 0.949 0.372 0.486 4e-62
380016051 400 PREDICTED: 26S proteasome non-ATPase reg 0.970 0.58 0.506 5e-62
308322353 389 26S proteasome non-ATPase regulatory sub 0.920 0.565 0.508 3e-61
209734766 389 26S proteasome non-ATPase regulatory sub 0.920 0.565 0.504 4e-61
348510397 389 PREDICTED: 26S proteasome non-ATPase reg 0.916 0.562 0.502 6e-61
318064858 389 26S proteasome non-ATPase regulatory sub 0.920 0.565 0.504 9e-61
>gi|389608903|dbj|BAM18063.1| 26S proteasome non-ATPase regulatory subunit rpn7 [Papilio xuthus] Back     alignment and taxonomy information
 Score =  260 bits (665), Expect = 3e-67,   Method: Compositional matrix adjust.
 Identities = 132/235 (56%), Positives = 168/235 (71%), Gaps = 11/235 (4%)

Query: 5   GGDWSARNKLKAYEGVYCLAIRQYCRAAELFVDVVPTFESYELAEFGTIIRYTVLACMIA 64
           GGDW +RNKLKAYE +YCLA+R Y RAAELF+D V TFESYEL +FGTII+Y VLAC +A
Sbjct: 159 GGDWRSRNKLKAYEAIYCLAVRDYSRAAELFIDCVSTFESYELVDFGTIIQYCVLACALA 218

Query: 65  LPRYNLRKKLMHHGVMAQALHSQYRDLREYFVSLYDGHYFEFLKCLAAVEQDMKRDPLLN 124
           L R+ L+  L   G   QAL S++ +LRE   SL++  Y +FLK LA VE  +  DP+  
Sbjct: 219 LERHALQAALRRQGAAVQALRSRFPELRELVESLHECRYADFLKSLAWVETQICVDPVFR 278

Query: 125 PHYRHYVQEMRLRAYKQILQAYRSLSLKYMAQCFGVSVEFIEKEVARFAAAGRLQCKIDS 184
           PHY+HYV+E R++AY Q+L+AYRSLSL  +A  FGV+ EF+E+E++ F AAGRLQC+ID+
Sbjct: 279 PHYQHYVREARIKAYVQLLRAYRSLSLDNIADTFGVTREFVEEEISTFTAAGRLQCRIDA 338

Query: 185 VAGNVVTTSHISEKGDCRSEAPEASLDRGILYQTTVKRGDIFLNRLKKLARVIDF 239
           VAG VVT       G  R     A  DR  LYQ T++ GD+ LNR+KKLA VI+F
Sbjct: 339 VAGCVVT-------GAGRG----ADADRSHLYQATIREGDLLLNRVKKLASVINF 382

Source: Papilio xuthus

Species: Papilio xuthus

Genus: Papilio

Family: Papilionidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota
>gi|242006070|ref|XP_002423879.1| 26S proteasome non-ATPase regulatory subunit, putative [Pediculus humanus corporis] gi|212507125|gb|EEB11141.1| 26S proteasome non-ATPase regulatory subunit, putative [Pediculus humanus corporis] Back     alignment and taxonomy information
>gi|357610675|gb|EHJ67089.1| hypothetical protein KGM_03040 [Danaus plexippus] Back     alignment and taxonomy information
>gi|389614706|dbj|BAM20379.1| 26S proteasome non-ATPase regulatory subunit rpn7, partial [Papilio polytes] Back     alignment and taxonomy information
>gi|383849952|ref|XP_003700597.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 6-like [Megachile rotundata] Back     alignment and taxonomy information
>gi|380016051|ref|XP_003692006.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 6-like [Apis florea] Back     alignment and taxonomy information
>gi|308322353|gb|ADO28314.1| 26S proteasome non-ATPase regulatory subunit 6 [Ictalurus furcatus] Back     alignment and taxonomy information
>gi|209734766|gb|ACI68252.1| 26S proteasome non-ATPase regulatory subunit 6 [Salmo salar] Back     alignment and taxonomy information
>gi|348510397|ref|XP_003442732.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 6-like [Oreochromis niloticus] Back     alignment and taxonomy information
>gi|318064858|ref|NP_001188194.1| 26S proteasome non-ATPase regulatory subunit 6 [Ictalurus punctatus] gi|308323987|gb|ADO29129.1| 26S proteasome non-ATPase regulatory subunit 6 [Ictalurus punctatus] 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 ?
Query239
ZFIN|ZDB-GENE-040426-1038386 psmd6 "proteasome (prosome, ma 0.912 0.564 0.504 2.5e-56
UNIPROTKB|F1N903398 PSMD6 "Uncharacterized protein 0.912 0.547 0.504 4.2e-56
UNIPROTKB|F1MXE4389 PSMD6 "26S proteasome non-ATPa 0.912 0.560 0.504 1.1e-55
UNIPROTKB|C9IZE4442 PSMD6 "Proteasome (Prosome, ma 0.912 0.493 0.5 1.1e-55
UNIPROTKB|Q15008389 PSMD6 "26S proteasome non-ATPa 0.912 0.560 0.5 1.1e-55
UNIPROTKB|Q6UV22351 PSMD6 "KIAA0107 isoform" [Homo 0.912 0.621 0.5 1.1e-55
RGD|735127389 Psmd6 "proteasome (prosome, ma 0.912 0.560 0.5 1.1e-55
UNIPROTKB|E2RN00516 PSMD6 "Uncharacterized protein 0.912 0.422 0.5 1.4e-55
MGI|MGI:1913663389 Psmd6 "proteasome (prosome, ma 0.912 0.560 0.495 2.9e-55
UNIPROTKB|Q3T0B2389 PSMD6 "26S proteasome non-ATPa 0.912 0.560 0.5 6.1e-55
ZFIN|ZDB-GENE-040426-1038 psmd6 "proteasome (prosome, macropain) 26S subunit, non-ATPase, 6" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
 Score = 580 (209.2 bits), Expect = 2.5e-56, P = 2.5e-56
 Identities = 118/234 (50%), Positives = 164/234 (70%)

Query:     5 GGDWSARNKLKAYEGVYCLAIRQYCRAAELFVDVVPTFESYELAEFGTIIRYTVLACMIA 64
             GGDW  RN+LK Y+G+YC+AIR + +AAELF+D V TF SYEL ++ T + YTV  CMIA
Sbjct:   168 GGDWDRRNRLKVYQGLYCVAIRDFKQAAELFLDTVSTFTSYELMDYKTFVTYTVYVCMIA 227

Query:    65 LPRYNLRKKLMHHGVMAQALHSQYRDLREYFVSLYDGHYFEFLKCLAAVEQDMKRDPLLN 124
             L R +LR+K++    + + LHS    +R+Y  SLY+  Y  F + LA VEQ+MK+D L  
Sbjct:   228 LKRPDLREKVIKGAEILEVLHS-LPAVRQYLFSLYECRYSVFFQSLARVEQEMKQDWLFA 286

Query:   125 PHYRHYVQEMRLRAYKQILQAYRSLSLKYMAQCFGVSVEFIEKEVARFAAAGRLQCKIDS 184
             PHYR+YV+EMR+ AY Q+L++YRSL+L YMA+ FGVS EFI++E++RF AAGRL CKID 
Sbjct:   287 PHYRYYVREMRILAYSQLLESYRSLTLGYMAEAFGVSTEFIDQELSRFIAAGRLHCKIDK 346

Query:   185 VAGNVVTTSHISEKGDCRSEAPEASLDRGILYQTTVKRGDIFLNRLKKLARVID 238
             V   +V T+            P++   +   YQ T+K+GD+ LNR++KL+RVI+
Sbjct:   347 V-NEIVETNR-----------PDS---KNWQYQETIKKGDLLLNRVQKLSRVIN 385
GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=IMP
GO:0070306 "lens fiber cell differentiation" evidence=IMP
GO:0000502 "proteasome complex" evidence=IEA
UNIPROTKB|F1N903 PSMD6 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|F1MXE4 PSMD6 "26S proteasome non-ATPase regulatory subunit 6" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|C9IZE4 PSMD6 "Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 6, isoform CRA_b" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|Q15008 PSMD6 "26S proteasome non-ATPase regulatory subunit 6" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|Q6UV22 PSMD6 "KIAA0107 isoform" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
RGD|735127 Psmd6 "proteasome (prosome, macropain) 26S subunit, non-ATPase, 6" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|E2RN00 PSMD6 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
MGI|MGI:1913663 Psmd6 "proteasome (prosome, macropain) 26S subunit, non-ATPase, 6" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|Q3T0B2 PSMD6 "26S proteasome non-ATPase regulatory subunit 6" [Bos taurus (taxid:9913)] 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 EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query239
COG5187412 COG5187, RPN7, 26S proteasome regulatory complex c 2e-49
pfam10602174 pfam10602, RPN7, 26S proteasome subunit RPN7 2e-22
pfam01399100 pfam01399, PCI, PCI domain 8e-18
smart0075388 smart00753, PAM, PCI/PINT associated module 1e-15
smart0008888 smart00088, PINT, motif in proteasome subunits, In 1e-15
>gnl|CDD|227514 COG5187, RPN7, 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information 
 Score =  167 bits (423), Expect = 2e-49
 Identities = 77/231 (33%), Positives = 120/231 (51%), Gaps = 18/231 (7%)

Query: 5   GGDWSARNKLKAYEGVYCLAIRQYCRAAELFVDVVPTFESYELAEFGTIIRYTVLACMIA 64
           GGDW  RN+ K Y+G++ +  R +  AA L  D++PTFES EL  +   +RY +   ++ 
Sbjct: 185 GGDWERRNRYKVYKGIFKMMRRNFKEAAILLSDILPTFESSELISYSRAVRYAIFCGLLR 244

Query: 65  LPRYNLRKKLMHHGVMAQALHS--QYRDLREYFVSLYDGHYFEFLKCLAAVE-QDMKRDP 121
           L R +++ K++    +   + S  +   L +   SLY+  Y      L  +    ++ D 
Sbjct: 245 LERRDIKTKILDSPEVLDVIGSSEKLGSLVQLATSLYECDYGGDFMNLLYLFCNSLQDDV 304

Query: 122 LLNPHYRHYVQEMRLRAYKQILQAYRSLSLKYMAQCFGVSVEFIEKEVARFAAAGRLQCK 181
            L  H   +V+EMR R Y Q+L++YR LSL+ MAQ FGVSVE++++++  F   GRL C 
Sbjct: 305 FLGRHVDLFVREMRRRVYAQLLESYRLLSLESMAQTFGVSVEYVDRDLGEFIPEGRLNCV 364

Query: 182 IDSVAGNVVTTSHISEKGDCRSEAPEASLDRGILYQTTVKRGDIFLNRLKK 232
           ID V G V T     +                  Y + VK+GD  L +L+K
Sbjct: 365 IDRVNGVVETNRPDEKNQQ---------------YSSVVKQGDDLLRKLQK 400

Length = 412
>gnl|CDD|220821 pfam10602, RPN7, 26S proteasome subunit RPN7 Back     alignment and domain information
>gnl|CDD|216479 pfam01399, PCI, PCI domain Back     alignment and domain information
>gnl|CDD|214803 smart00753, PAM, PCI/PINT associated module Back     alignment and domain information
>gnl|CDD|214509 smart00088, PINT, motif in proteasome subunits, Int-6, Nip-1 and TRIP-15 Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 239
KOG0687|consensus393 100.0
COG5187412 RPN7 26S proteasome regulatory complex component, 100.0
KOG0686|consensus466 100.0
KOG1463|consensus411 100.0
COG5159421 RPN6 26S proteasome regulatory complex component [ 99.96
KOG1464|consensus440 99.94
PF10602177 RPN7: 26S proteasome subunit RPN7; InterPro: IPR01 99.82
KOG2758|consensus432 99.81
PF01399105 PCI: PCI domain; InterPro: IPR000717 A homology do 99.81
smart0008888 PINT motif in proteasome subunits, Int-6, Nip-1 an 99.52
smart0075388 PAM PCI/PINT associated module. 99.52
KOG2581|consensus493 99.06
KOG2908|consensus380 98.95
KOG1498|consensus439 98.76
KOG2582|consensus422 98.22
COG5071439 RPN5 26S proteasome regulatory complex component [ 98.21
KOG1497|consensus399 98.12
KOG2753|consensus378 98.02
KOG1076|consensus843 97.83
PF10075143 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro 97.52
KOG2688|consensus394 97.1
PF09756188 DDRGK: DDRGK domain; InterPro: IPR019153 This is a 96.79
PF03399204 SAC3_GANP: SAC3/GANP/Nin1/mts3/eIF-3 p25 family; I 96.41
COG5600413 Transcription-associated recombination protein [DN 96.36
PF10255404 Paf67: RNA polymerase I-associated factor PAF67; I 96.28
PF0901269 FeoC: FeoC like transcriptional regulator; InterPr 96.22
PF0822057 HTH_DeoR: DeoR-like helix-turn-helix domain; Inter 95.59
PF14938282 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1 94.98
KOG3054|consensus299 94.74
smart0034560 HTH_GNTR helix_turn_helix gluconate operon transcr 93.26
PRK1543178 ferrous iron transport protein FeoC; Provisional 93.13
PF0827955 HTH_11: HTH domain; InterPro: IPR013196 Winged hel 92.75
KOG1861|consensus540 92.67
KOG2072|consensus 988 92.36
smart0042053 HTH_DEOR helix_turn_helix, Deoxyribose operon repr 92.22
PF1341248 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 91.75
PF0039264 GntR: Bacterial regulatory proteins, gntR family; 90.2
PF09743272 DUF2042: Uncharacterized conserved protein (DUF204 90.1
PRK10434 256 srlR DNA-bindng transcriptional repressor SrlR; Pr 90.07
smart0055068 Zalpha Z-DNA-binding domain in adenosine deaminase 89.15
PF08784102 RPA_C: Replication protein A C terminal; InterPro: 88.84
PRK10411 240 DNA-binding transcriptional activator FucR; Provis 88.68
PRK04424185 fatty acid biosynthesis transcriptional regulator; 88.13
COG1349 253 GlpR Transcriptional regulators of sugar metabolis 87.16
PRK10906 252 DNA-binding transcriptional repressor GlpR; Provis 86.99
PF0470362 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A. 86.68
PRK13509 251 transcriptional repressor UlaR; Provisional 86.67
PRK09802 269 DNA-binding transcriptional regulator AgaR; Provis 86.51
PRK10681 252 DNA-binding transcriptional repressor DeoR; Provis 86.38
PF0104759 MarR: MarR family; InterPro: IPR000835 The MarR-ty 86.31
smart00344108 HTH_ASNC helix_turn_helix ASNC type. AsnC: an auto 85.36
PF1280262 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP 85.14
PF01984107 dsDNA_bind: Double-stranded DNA-binding domain; In 84.83
PF0102247 HTH_5: Bacterial regulatory protein, arsR family; 84.05
cd0737766 WHTH_GntR Winged helix-turn-helix (WHTH) DNA-bindi 82.6
KOG3431|consensus129 82.37
TIGR0284480 spore_III_D sporulation transcriptional regulator 82.22
PF1066860 Phage_terminase: Phage terminase small subunit; In 81.54
PF1351852 HTH_28: Helix-turn-helix domain 81.31
KOG4414|consensus197 81.31
PF1340442 HTH_AsnC-type: AsnC-type helix-turn-helix domain; 81.28
PRK11014141 transcriptional repressor NsrR; Provisional 81.05
PRK04239110 hypothetical protein; Provisional 80.87
smart0034691 HTH_ICLR helix_turn_helix isocitrate lyase regulat 80.41
KOG2235|consensus 776 80.41
PF0172665 LexA_DNA_bind: LexA DNA binding domain; InterPro: 80.34
>KOG0687|consensus Back     alignment and domain information 
Probab=100.00  E-value=1.1e-61  Score=428.42  Aligned_cols=223  Identities=48%  Similarity=0.894  Sum_probs=218.4

Q ss_pred             CcccCCchhhhhhhHHHHHHHHchhcCHHHHHHHHhccCCCCCCccccCHhHHHHHHHHHHHHcCChhHHHHccccchhH
Q psy396            1 MSISGGDWSARNKLKAYEGVYCLAIRQYCRAAELFVDVVPTFESYELAEFGTIIRYTVLACMIALPRYNLRKKLMHHGVM   80 (239)
Q Consensus         1 ~~~~~~dw~~~~kl~~~~Gl~~l~~~~y~~Aa~~F~~~~~~f~~~e~~s~~di~~Y~~Lc~Las~~R~elk~~ll~s~~~   80 (239)
                      |||+|||||||||+|+|.|+++|+.|||++||.+|+++.+||+++|++++++++.|+++|++.+++|.+||++|+++|++
T Consensus       170 liE~GgDWeRrNRlKvY~Gly~msvR~Fk~Aa~Lfld~vsTFtS~El~~Y~~~v~Ytv~~g~i~leR~dlktKVi~~~Ev  249 (393)
T KOG0687|consen  170 LIEEGGDWERRNRLKVYQGLYCMSVRNFKEAADLFLDSVSTFTSYELMSYETFVRYTVITGLIALERVDLKTKVIKCPEV  249 (393)
T ss_pred             HHHhCCChhhhhhHHHHHHHHHHHHHhHHHHHHHHHHHcccccceecccHHHHHHHHHHHhhheeccchHHhhhcCcHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhhhhhHHHHHHHHHHhchHHHHHHHHHHH-HhhhccCcchhHhHHHHHHHHHHHHHHHHhhhhhcccHHHHHHHhC
Q psy396           81 AQALHSQYRDLREYFVSLYDGHYFEFLKCLAAV-EQDMKRDPLLNPHYRHYVQEMRLRAYKQILQAYRSLSLKYMAQCFG  159 (239)
Q Consensus        81 ~~~~e~~~p~l~~li~af~~~~y~~~~~~L~~~-~~~l~~D~~L~~h~~~l~~~ir~~~l~qyl~pYs~v~l~~mA~~fg  159 (239)
                      ...++. .|.+++++.++++|+|..|+..|... ...+..|.||+||.+.+.++||.+++.|+++||++++|+.||++||
T Consensus       250 l~vl~~-l~~~~q~l~SLY~C~Y~~Ff~~L~~~~~~~lk~D~~l~~h~~yyvREMR~rvY~QlLESYrsl~l~~MA~aFg  328 (393)
T KOG0687|consen  250 LEVLHK-LPSVSQLLNSLYECDYSDFFNDLAAVEAKQLKDDRYLGPHYRYYVREMRRRVYAQLLESYRSLTLESMAKAFG  328 (393)
T ss_pred             HHHhhc-CchHHHHHHHHHhccHHHHHHHHHHHHHHhhccchhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            999998 99999999999999999999999655 7899999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHcCccceeecccCCEEEEeccccccCCCCCCCccchhhhhHHHHHHHHhhHHHHHHHHHhhhhhcC
Q psy396          160 VSVEFIEKEVARFAAAGRLQCKIDSVAGNVVTTSHISEKGDCRSEAPEASLDRGILYQTTVKRGDIFLNRLKKLARVIDF  239 (239)
Q Consensus       160 ~s~~~lE~~L~~lI~~g~l~arID~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~r~~~l~~~~~~  239 (239)
                      +|+++|+++|.++|.+|+|+|+||.+||+|++ ++           ||   +++.+||.+||.|+.++|||||++|+|+.
T Consensus       329 VSVefiDreL~rFI~~grL~ckIDrVnGVVEt-Nr-----------pD---~KN~qyq~vikqGd~LLnriQK~~rvi~~  393 (393)
T KOG0687|consen  329 VSVEFIDRELGRFIAAGRLHCKIDRVNGVVET-NR-----------PD---EKNAQYQAVIKQGDLLLNRIQKLSRVINL  393 (393)
T ss_pred             chHHHHHhHHHHhhccCceeeeeecccceeec-CC-----------cc---ccchHHHHHHhhhHHHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999 99           99   99999999999999999999999999974

>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>KOG0686|consensus Back     alignment and domain information
>KOG1463|consensus Back     alignment and domain information
>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>KOG1464|consensus Back     alignment and domain information
>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome Back     alignment and domain information
>KOG2758|consensus Back     alignment and domain information
>PF01399 PCI: PCI domain; InterPro: IPR000717 A homology domain of unclear function, occurs in the C-terminal region of several regulatory components of the 26S proteasome as well as in other proteins Back     alignment and domain information
>smart00088 PINT motif in proteasome subunits, Int-6, Nip-1 and TRIP-15 Back     alignment and domain information
>smart00753 PAM PCI/PINT associated module Back     alignment and domain information
>KOG2581|consensus Back     alignment and domain information
>KOG2908|consensus Back     alignment and domain information
>KOG1498|consensus Back     alignment and domain information
>KOG2582|consensus Back     alignment and domain information
>COG5071 RPN5 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>KOG1497|consensus Back     alignment and domain information
>KOG2753|consensus Back     alignment and domain information
>KOG1076|consensus Back     alignment and domain information
>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8 Back     alignment and domain information
>KOG2688|consensus Back     alignment and domain information
>PF09756 DDRGK: DDRGK domain; InterPro: IPR019153 This is a family of proteins of approximately 300 residues Back     alignment and domain information
>PF03399 SAC3_GANP: SAC3/GANP/Nin1/mts3/eIF-3 p25 family; InterPro: IPR005062 This large family includes diverse proteins involved in large complexes [, , ] Back     alignment and domain information
>COG5600 Transcription-associated recombination protein [DNA replication, recombination, and repair] Back     alignment and domain information
>PF10255 Paf67: RNA polymerase I-associated factor PAF67; InterPro: IPR019382 RNA polymerase I is a multi-subunit enzyme and its transcription competence is dependent on the presence of PAF67 [] Back     alignment and domain information
>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif Back     alignment and domain information
>PF08220 HTH_DeoR: DeoR-like helix-turn-helix domain; InterPro: IPR001034 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism Back     alignment and domain information
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A Back     alignment and domain information
>KOG3054|consensus Back     alignment and domain information
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor Back     alignment and domain information
>PRK15431 ferrous iron transport protein FeoC; Provisional Back     alignment and domain information
>PF08279 HTH_11: HTH domain; InterPro: IPR013196 Winged helix DNA-binding proteins share a related winged helix-turn-helix DNA-binding motif, where the "wings", or loops, are small beta-sheets Back     alignment and domain information
>KOG1861|consensus Back     alignment and domain information
>KOG2072|consensus Back     alignment and domain information
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor Back     alignment and domain information
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A Back     alignment and domain information
>PF00392 GntR: Bacterial regulatory proteins, gntR family; InterPro: IPR000524 Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities Back     alignment and domain information
>PF09743 DUF2042: Uncharacterized conserved protein (DUF2042); InterPro: IPR018611 The ubiquitin fold modifier 1 (Ufm1) is the most recently discovered ubiquitin-like modifier whose conjugation (ufmylation) system is conserved in multicellular organisms Back     alignment and domain information
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional Back     alignment and domain information
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases Back     alignment and domain information
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A) Back     alignment and domain information
>PRK10411 DNA-binding transcriptional activator FucR; Provisional Back     alignment and domain information
>PRK04424 fatty acid biosynthesis transcriptional regulator; Provisional Back     alignment and domain information
>COG1349 GlpR Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism] Back     alignment and domain information
>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional Back     alignment and domain information
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A Back     alignment and domain information
>PRK13509 transcriptional repressor UlaR; Provisional Back     alignment and domain information
>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional Back     alignment and domain information
>PRK10681 DNA-binding transcriptional repressor DeoR; Provisional Back     alignment and domain information
>PF01047 MarR: MarR family; InterPro: IPR000835 The MarR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 135 amino acids present in transcription regulators of the MarR/SlyA family, involved in the development of antibiotic resistance Back     alignment and domain information
>smart00344 HTH_ASNC helix_turn_helix ASNC type Back     alignment and domain information
>PF12802 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP4_B 3KP2_A 3KP5_A 3KP3_B 3KP7_A 3NQO_B 3K0L_B Back     alignment and domain information
>PF01984 dsDNA_bind: Double-stranded DNA-binding domain; InterPro: IPR002836 This protein family is found in archaea and eukaryota Back     alignment and domain information
>PF01022 HTH_5: Bacterial regulatory protein, arsR family; InterPro: IPR001845 Bacterial transcription regulatory proteins that bind DNA via a helix-turn-helix (HTH) motif can be grouped into families on the basis of sequence similarities Back     alignment and domain information
>cd07377 WHTH_GntR Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators Back     alignment and domain information
>KOG3431|consensus Back     alignment and domain information
>TIGR02844 spore_III_D sporulation transcriptional regulator SpoIIID Back     alignment and domain information
>PF10668 Phage_terminase: Phage terminase small subunit; InterPro: IPR018925 This entry describes the terminase small subunit from Enterococcus phage phiFL1A, related proteins in other bacteriophage, and prophage regions of bacterial genomes Back     alignment and domain information
>PF13518 HTH_28: Helix-turn-helix domain Back     alignment and domain information
>KOG4414|consensus Back     alignment and domain information
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B Back     alignment and domain information
>PRK11014 transcriptional repressor NsrR; Provisional Back     alignment and domain information
>PRK04239 hypothetical protein; Provisional Back     alignment and domain information
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation Back     alignment and domain information
>KOG2235|consensus Back     alignment and domain information
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria 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 ?
Query239
4b4t_R429 Near-Atomic Resolution Structural Model Of The Yeas 1e-29
>pdb|4B4T|R Chain R, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 429 Back     alignment and structure 
Iteration: 1

 Score =  126 bits (316), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 75/231 (32%), Positives = 119/231 (51%), Gaps = 18/231 (7%)
Query: 5   GGDWSARNKLKAYEGVYCLAIRQYCRAAELFVDVVPTFESYELAEFGTIIRYTVLACMIA 64
           GGDW  RN+ K Y G++CLA+R +  AA+L VD + TF S EL  + +I  Y  +  +  
Sbjct: 201 GGDWERRNRYKTYYGIHCLAVRNFKEAAKLLVDSLATFTSIELTSYESIATYASVTGLFT 260
Query: 65  LPRYNLRKKLMHHGVMAQALHSQ--YRDLREYFVSLYDGHYFEFLKCLAAVEQDMKRD-P 121
           L R +L+ K++    +   + +    + +    +SLY   Y  +   L     ++     
Sbjct: 261 LERTDLKSKVIDSPELLSLISTTAALQSISSLTISLYASDYASYFPYLLETYANVLIPCK 320
Query: 122 LLNPHYRHYVQEMRLRAYKQILQAYRSLSLKYMAQCFGVSVEFIEKEVARFAAAGRLQCK 181
            LN H   +V+EMR + Y Q+L++Y++LSLK MA  FGVSV F++ ++ +F    +L C 
Sbjct: 321 YLNRHADFFVREMRRKVYAQLLESYKTLSLKSMASAFGVSVAFLDNDLGKFIPNKQLNCV 380
Query: 182 IDSVAGNVVTTSHISEKGDCRSEAPEASLDRGILYQTTVKRGDIFLNRLKK 232
           ID V G V T              P+   ++   Y   VK+GD  L +L+K
Sbjct: 381 IDRVNGIVETNR------------PD---NKNAQYHLLVKQGDGLLTKLQK 416

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query239
3txn_A394 26S proteasome regulatory complex subunit P42B; PC 3e-31
1ufm_A84 COP9 complex subunit 4; helix-turn-helix, structur 9e-05
>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A Length = 394 Back     alignment and structure
 Score =  117 bits (294), Expect = 3e-31
 Identities = 27/219 (12%), Positives = 80/219 (36%), Gaps = 9/219 (4%)

Query: 16  AYEGVYCLAIRQYCRAAELFVDVVPTFESYELAEFGTIIRYTVLACMIALPRYNLRKKLM 75
               ++    R +  A   F +    F+S +  +  T ++Y +L  ++     ++ + + 
Sbjct: 185 QSGILHAADERDFKTAFSYFYEAFEGFDSVDSVKALTSLKYMLLCKIMLGQSDDVNQLVS 244

Query: 76  HHGVMAQALHSQYRDLREYFVSLYDGHYFEFLKCLAAVEQDMKRDPLLNPHYRHYVQEMR 135
               +  +       ++    + +     +F   L   ++++  D ++  H       M 
Sbjct: 245 GKLAITYSGR-DIDAMKSVAEASHKRSLADFQAALKEYKKELAEDVIVQAHLGTLYDTML 303

Query: 136 LRAYKQILQAYRSLSLKYMAQCFGVSVEFIEKEVARFAAAGRLQCKIDSVAGNVVTTSHI 195
            +   +I++ Y  + + ++A+   + +  +EK++++     +    +D   G ++     
Sbjct: 304 EQNLCRIIEPYSRVQVAHVAESIQLPMPQVEKKLSQMILDKKFSGILDQGEGVLIVFEE- 362

Query: 196 SEKGDCRSEAPEASLDRGILYQTTVKRGDIFLNRLKKLA 234
                   +  E  L+        V   D    + KKL+
Sbjct: 363 ----TPVDKTYERVLETIQSMGKVV---DTLYQKAKKLS 394
>1ufm_A COP9 complex subunit 4; helix-turn-helix, structural genomics, riken structural genomics/proteomics initiative, RSGI, signaling protein; NMR {Mus musculus} SCOP: a.4.5.47 Length = 84 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query239
4b4t_R429 RPN7, 26S proteasome regulatory subunit RPN7; hydr 100.0
3txn_A394 26S proteasome regulatory complex subunit P42B; PC 100.0
4b4t_Q434 26S proteasome regulatory subunit RPN6; hydrolase, 99.92
4b4t_P445 26S proteasome regulatory subunit RPN5; hydrolase, 99.91
4b4t_O393 26S proteasome regulatory subunit RPN9; hydrolase, 99.75
3t5x_A203 PCI domain-containing protein 2; PCI, mRNA nuclear 99.62
1ufm_A84 COP9 complex subunit 4; helix-turn-helix, structur 99.51
4b4t_S523 RPN3, 26S proteasome regulatory subunit RPN3; hydr 99.39
3t5v_B455 Nuclear mRNA export protein THP1; PCI, mRNA nuclea 99.28
3chm_A169 COP9 signalosome complex subunit 7; heat/ARM repea 98.79
4b0z_A229 RPN12, 26S proteasome regulatory subunit RPN12; pr 97.47
1wi9_A72 Protein C20ORF116 homolog; helix-turn-helix motif, 97.46
1rz4_A226 Eukaryotic translation initiation factor 3 subuni; 95.94
1xn7_A78 Hypothetical protein YHGG; alpha+beta, GFT structu 95.6
2k02_A87 Ferrous iron transport protein C; FEOC, iron-sulfu 95.33
2jt1_A77 PEFI protein; solution structure, winged helix-tur 95.13
4b4t_T274 26S proteasome regulatory subunit RPN12; hydrolase 93.16
1qbj_A81 Protein (double-stranded RNA specific adenosine D 92.14
1qgp_A77 Protein (double stranded RNA adenosine deaminase); 91.23
2heo_A67 Z-DNA binding protein 1; protein DLM1-Z-DNA comple 90.52
3tqn_A113 Transcriptional regulator, GNTR family; regulatory 89.59
2b0l_A102 GTP-sensing transcriptional pleiotropic repressor; 89.3
1ub9_A100 Hypothetical protein PH1061; helix-turn-helix moti 89.14
2htj_A81 P fimbrial regulatory protein KS71A; winged helix- 89.01
3by6_A126 Predicted transcriptional regulator; structural ge 88.21
3t5v_A316 Nuclear mRNA export protein SAC3; PCI, mRNA nuclea 88.14
4ham_A134 LMO2241 protein; structural genomics, PSI-biology, 87.9
1sfx_A109 Conserved hypothetical protein AF2008; structural 87.53
3neu_A125 LIN1836 protein; structural genomics, PSI-2, prote 87.36
2dbb_A151 Putative HTH-type transcriptional regulator PH006; 85.69
2p5v_A162 Transcriptional regulator, LRP/ASNC family; NMB057 85.57
2ek5_A129 Predicted transcriptional regulators; helix-turn-h 85.43
2oqg_A114 Possible transcriptional regulator, ARSR family P; 85.28
2cfx_A144 HTH-type transcriptional regulator LRPC; transcrip 85.22
1xmk_A79 Double-stranded RNA-specific adenosine deaminase; 85.07
2cg4_A152 Regulatory protein ASNC; DNA binding, FFRP, LRP fa 84.91
3cuo_A99 Uncharacterized HTH-type transcriptional regulato; 84.86
1q1h_A110 TFE, transcription factor E, TFE; TFIIE, transcrip 84.57
3c7j_A237 Transcriptional regulator, GNTR family; structural 84.43
1v4r_A102 Transcriptional repressor; helix-turn-helix, winge 84.09
2v79_A135 DNA replication protein DNAD; primosome, DNA-bindi 82.56
2cru_A118 Programmed cell death protein 5; three helix bundl 82.32
2e1c_A171 Putative HTH-type transcriptional regulator PH151; 82.26
2fbi_A142 Probable transcriptional regulator; MARR, APC5816, 81.96
4a0z_A190 Transcription factor FAPR; lipid homeostasis; HET: 81.55
2ia0_A171 Putative HTH-type transcriptional regulator PF086; 81.0
3i4p_A162 Transcriptional regulator, ASNC family; PSI, struc 80.88
3f6o_A118 Probable transcriptional regulator, ARSR family pr 80.66
1tbx_A99 ORF F-93, hypothetical 11.0 kDa protein; sulfolobu 80.55
1oyi_A82 Double-stranded RNA-binding protein; (alpha+beta) 80.3
2cyy_A151 Putative HTH-type transcriptional regulator PH151; 80.3
1i1g_A141 Transcriptional regulator LRPA; helix-turn-helix, 80.21
>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae} Back     alignment and structure
Probab=100.00  E-value=7.5e-50  Score=372.55  Aligned_cols=222  Identities=34%  Similarity=0.631  Sum_probs=181.8

Q ss_pred             cccCCchhhhhhhHHHHHHHHchhcCHHHHHHHHhccCCCCCCccccCHhHHHHHHHHHHHHcCChhHHHHccccchhHH
Q psy396            2 SISGGDWSARNKLKAYEGVYCLAIRQYCRAAELFVDVVPTFESYELAEFGTIIRYTVLACMIALPRYNLRKKLMHHGVMA   81 (239)
Q Consensus         2 ~~~~~dw~~~~kl~~~~Gl~~l~~~~y~~Aa~~F~~~~~~f~~~e~~s~~di~~Y~~Lc~Las~~R~elk~~ll~s~~~~   81 (239)
                      ++.||||++++|++++.|++++..|+|++|+++|++++++|+..+.+++.++++|++||++++++|.+++.+|+++++++
T Consensus       198 ~~~~~d~~~~~~lk~~~gl~~l~~r~f~~Aa~~f~e~~~t~~~~e~~~~~~~~~y~~l~al~~~~r~~l~~~v~~~~~~~  277 (429)
T 4b4t_R          198 IEKGGDWERRNRYKTYYGIHCLAVRNFKEAAKLLVDSLATFTSIELTSYESIATYASVTGLFTLERTDLKSKVIDSPELL  277 (429)
T ss_dssp             HTTCCCTHHHHHHHHHHHHGGGGTSCHHHHHHHHHHHHHHSCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHSSSSSHHHH
T ss_pred             hhcCCCHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHhccCCccchhhHHHHHHHHHHHHHhcCCHHHHHHHHhcCHHHH
Confidence            46899999999999999999999999999999999999999988999999999999999999999999999999999999


Q ss_pred             HHhhhhhhH---HHHHHHHHHhchHHHHHHHHH-HHHhhhccCcchhHhHHHHHHHHHHHHHHHHhhhhhcccHHHHHHH
Q psy396           82 QALHSQYRD---LREYFVSLYDGHYFEFLKCLA-AVEQDMKRDPLLNPHYRHYVQEMRLRAYKQILQAYRSLSLKYMAQC  157 (239)
Q Consensus        82 ~~~e~~~p~---l~~li~af~~~~y~~~~~~L~-~~~~~l~~D~~L~~h~~~l~~~ir~~~l~qyl~pYs~v~l~~mA~~  157 (239)
                      .+++. .|.   +.+++.+|+.++|..|++.+. .+...+..|+|+++|++.|+++||.+++.||++||++|+|++||+.
T Consensus       278 ~~l~~-~p~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~d~~l~~h~~~l~~~ir~~~l~q~~~~Ys~I~l~~mA~~  356 (429)
T 4b4t_R          278 SLIST-TAALQSISSLTISLYASDYASYFPYLLETYANVLIPCKYLNRHADFFVREMRRKVYAQLLESYKTLSLKSMASA  356 (429)
T ss_dssp             HGGGS-HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHSTTTTTCTTSTTTHHHHHHHHHHHHHHHHHHTCSEEEHHHHHHH
T ss_pred             hhccC-ChhHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhccCHHHHHHHHHHHHHHHHHHHHHHhHHhceeeHHHHHHH
Confidence            99987 675   456799999999999988654 5566799999999999999999999999999999999999999999


Q ss_pred             hCCCHHHHHHHHHHHHHcCccceeecccCCEEEEeccccccCCCCCCCccchhhhhHHHHHHHHhhHHHHHHHHHhhhhh
Q psy396          158 FGVSVEFIEKEVARFAAAGRLQCKIDSVAGNVVTTSHISEKGDCRSEAPEASLDRGILYQTTVKRGDIFLNRLKKLARVI  237 (239)
Q Consensus       158 fg~s~~~lE~~L~~lI~~g~l~arID~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~r~~~l~~~~  237 (239)
                      ||+|++++|++|++||.+|+|+||||+++|+|++ ++           ||   ++++.|++++++|+.|+||+|||+++|
T Consensus       357 l~~s~~~~E~~L~~lI~~g~l~akID~~~giv~~-~~-----------~d---~~~~~y~~~i~~gd~Ll~riqkl~~~i  421 (429)
T 4b4t_R          357 FGVSVAFLDNDLGKFIPNKQLNCVIDRVNGIVET-NR-----------PD---NKNAQYHLLVKQGDGLLTKLQKYGAAV  421 (429)
T ss_dssp             HTSCHHHHHHHHHHHHHHTSSCEEEETTTTEEEE-CC-------------------------------------------
T ss_pred             hCcCHHHHHHHHHHHHHcCCeEEEEcCCCCEEEE-CC-----------CC---chhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999 99           99   999999999999999999999999999


Q ss_pred             cC
Q psy396          238 DF  239 (239)
Q Consensus       238 ~~  239 (239)
                      |+
T Consensus       422 ~l  423 (429)
T 4b4t_R          422 RL  423 (429)
T ss_dssp             --
T ss_pred             hh
Confidence            84
>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A Back     alignment and structure
>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae} Back     alignment and structure
>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae} Back     alignment and structure
>4b4t_O 26S proteasome regulatory subunit RPN9; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae} Back     alignment and structure
>3t5x_A PCI domain-containing protein 2; PCI, mRNA nuclear export, transcription; 2.12A {Homo sapiens} Back     alignment and structure
>1ufm_A COP9 complex subunit 4; helix-turn-helix, structural genomics, riken structural genomics/proteomics initiative, RSGI, signaling protein; NMR {Mus musculus} SCOP: a.4.5.47 Back     alignment and structure
>4b4t_S RPN3, 26S proteasome regulatory subunit RPN3; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae} Back     alignment and structure
>3t5v_B Nuclear mRNA export protein THP1; PCI, mRNA nuclear export, mRNA, nuclear, transcription; 2.90A {Saccharomyces cerevisiae} Back     alignment and structure
>3chm_A COP9 signalosome complex subunit 7; heat/ARM repeats, winged helix motif, developmental protein, phosphoprotein; 1.50A {Arabidopsis thaliana} Back     alignment and structure
>4b0z_A RPN12, 26S proteasome regulatory subunit RPN12; protein binding, proteasome ubitquitin; HET: SGM GOL; 1.58A {Schizosaccharomyces pombe} Back     alignment and structure
>1wi9_A Protein C20ORF116 homolog; helix-turn-helix motif, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: a.4.5.47 Back     alignment and structure
>1rz4_A Eukaryotic translation initiation factor 3 subuni; heat analogous motif, winged-helix, biosynthetic protein; 2.10A {Homo sapiens} SCOP: a.4.5.53 a.118.1.18 Back     alignment and structure
>1xn7_A Hypothetical protein YHGG; alpha+beta, GFT structural genomics, protein structure initiative, PSI, NESG; NMR {Escherichia coli} SCOP: a.4.5.62 Back     alignment and structure
>2k02_A Ferrous iron transport protein C; FEOC, iron-sulfur, metal-binding, metal binding protein; NMR {Klebsiella pneumoniae subsp} Back     alignment and structure
>2jt1_A PEFI protein; solution structure, winged helix-turn-helix, transcripti regulatory protein, structural genomics, PSI-2; NMR {Salmonella typhimurium LT2} Back     alignment and structure
>4b4t_T 26S proteasome regulatory subunit RPN12; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae} Back     alignment and structure
>1qbj_A Protein (double-stranded RNA specific adenosine D (ADAR1)); protein-Z-DNA complex, hydrolase-DNA complex; HET: DNA; 2.10A {Homo sapiens} SCOP: a.4.5.19 PDB: 3f21_A* 3f22_A* 3f23_A* 3irr_A* 3irq_D* 2gxb_A 2acj_A 2l54_A Back     alignment and structure
>1qgp_A Protein (double stranded RNA adenosine deaminase); Z-alpha-Z-DNA binding domain, RNA-editing, Z-DNA recognition, ADAR1, helix- turn-helix; NMR {Homo sapiens} SCOP: a.4.5.19 Back     alignment and structure
>2heo_A Z-DNA binding protein 1; protein DLM1-Z-DNA complex, immune system-DNA complex; 1.70A {Mus musculus} PDB: 1j75_A Back     alignment and structure
>3tqn_A Transcriptional regulator, GNTR family; regulatory functions; 2.80A {Coxiella burnetii} Back     alignment and structure
>2b0l_A GTP-sensing transcriptional pleiotropic repressor; CODY, DNA-binding, nucleotide-binding, transcript regulation, winged HTH motif.; 2.90A {Bacillus subtilis} SCOP: a.4.5.66 Back     alignment and structure
>1ub9_A Hypothetical protein PH1061; helix-turn-helix motif, winged helix motif, structural genom transcription; 2.05A {Pyrococcus horikoshii} SCOP: a.4.5.28 Back     alignment and structure
>2htj_A P fimbrial regulatory protein KS71A; winged helix-turn-helix, PAP PILI, transcription activator; NMR {Escherichia coli} SCOP: a.4.5.73 Back     alignment and structure
>3by6_A Predicted transcriptional regulator; structural genomics, PSI-2, MCSG, structure initiative, midwest center for structural genomic binding; 2.20A {Oenococcus oeni} Back     alignment and structure
>3t5v_A Nuclear mRNA export protein SAC3; PCI, mRNA nuclear export, mRNA, nuclear, transcription; 2.90A {Saccharomyces cerevisiae} Back     alignment and structure
>4ham_A LMO2241 protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, winged helix-turn-helix, four helix bundle; 1.91A {Listeria monocytogenes} Back     alignment and structure
>1sfx_A Conserved hypothetical protein AF2008; structural genomics, HTH MOT protein structure initiative, midwest center for structural genomics; 1.55A {Archaeoglobus fulgidus} SCOP: a.4.5.50 Back     alignment and structure
>3neu_A LIN1836 protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG, unknown function; 1.58A {Listeria innocua} Back     alignment and structure
>2dbb_A Putative HTH-type transcriptional regulator PH006; ASNC family, helix-turn-helix (HTH) domain, structural genom NPPSFA; 2.00A {Pyrococcus horikoshii} Back     alignment and structure
>2p5v_A Transcriptional regulator, LRP/ASNC family; NMB0573, structu genomics; 1.99A {Neisseria meningitidis} PDB: 2p6s_A 2p6t_A Back     alignment and structure
>2ek5_A Predicted transcriptional regulators; helix-turn-helix, interwined alpha helices; 2.20A {Corynebacterium glutamicum atcc 13032} PDB: 2du9_A Back     alignment and structure
>2oqg_A Possible transcriptional regulator, ARSR family P; winged-helix-turn-helix, structural genomics, PSI-2, protein structure initiative; 1.54A {Rhodococcus SP} Back     alignment and structure
>2cfx_A HTH-type transcriptional regulator LRPC; transcriptional regulation, DNA binding, FFRP; 2.4A {Bacillus subtilis} SCOP: a.4.5.32 d.58.4.2 Back     alignment and structure
>1xmk_A Double-stranded RNA-specific adenosine deaminase; winged helix-turn-helix, RNA editing, interferon, ADAR1, hydrolase; 0.97A {Homo sapiens} SCOP: a.4.5.19 Back     alignment and structure
>2cg4_A Regulatory protein ASNC; DNA binding, FFRP, LRP family, transcription, DNA- binding, transcription regulation; 2.4A {Escherichia coli} SCOP: a.4.5.32 d.58.4.2 Back     alignment and structure
>3cuo_A Uncharacterized HTH-type transcriptional regulato; DNA-binding transcriptional regulator, structural genomics, MCSG; 2.00A {Escherichia coli K12} Back     alignment and structure
>1q1h_A TFE, transcription factor E, TFE; TFIIE, transcription initiation, preinitiation complex, RNA polymerase II, transcription bubble; 2.90A {Sulfolobus solfataricus} SCOP: a.4.5.41 Back     alignment and structure
>3c7j_A Transcriptional regulator, GNTR family; structural genomics, PSI-2, protein structure initiative, midwest center for STR genomics; HET: MSE; 2.10A {Pseudomonas syringae PV} Back     alignment and structure
>1v4r_A Transcriptional repressor; helix-turn-helix, winged-helix, gene regulation; NMR {Streptomyces} SCOP: a.4.5.6 Back     alignment and structure
>2v79_A DNA replication protein DNAD; primosome, DNA-binding protein; HET: DNA; 2.00A {Bacillus subtilis} Back     alignment and structure
>2cru_A Programmed cell death protein 5; three helix bundle, apoptosis, DNA binding, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.6.1 PDB: 2k6b_A Back     alignment and structure
>2fbi_A Probable transcriptional regulator; MARR, APC5816, structural genomic protein structure initiative; 2.10A {Pseudomonas aeruginosa} SCOP: a.4.5.28 Back     alignment and structure
>4a0z_A Transcription factor FAPR; lipid homeostasis; HET: MLC; 1.90A {Staphylococcus aureus} PDB: 4a0y_A 4a0x_A* 4a12_A Back     alignment and structure
>2ia0_A Putative HTH-type transcriptional regulator PF086; ASNC, PSI, structural genomics, southeast collaboratory for structural genomics; 2.37A {Pyrococcus furiosus} Back     alignment and structure
>3i4p_A Transcriptional regulator, ASNC family; PSI, structural genom protein structure initiative, midwest center for structural genomics; 2.30A {Agrobacterium tumefaciens str} Back     alignment and structure
>3f6o_A Probable transcriptional regulator, ARSR family protein; transcriptional regulator,RHA00566,MCSG, structural genomics, PSI-2; 1.90A {Rhodococcus SP} Back     alignment and structure
>1tbx_A ORF F-93, hypothetical 11.0 kDa protein; sulfolobus spindle virus, winged helix, fusellovirus; 2.70A {Sulfolobus virus 1} SCOP: a.4.5.48 Back     alignment and structure
>1oyi_A Double-stranded RNA-binding protein; (alpha+beta) helix-turn-helix, viral protein; NMR {Vaccinia virus} SCOP: a.4.5.19 Back     alignment and structure
>2cyy_A Putative HTH-type transcriptional regulator PH151; structural genomics, pyrococcus horikosii OT3, NPPSFA; HET: MSE GLN; 1.80A {Pyrococcus horikoshii} SCOP: a.4.5.32 d.58.4.2 Back     alignment and structure
>1i1g_A Transcriptional regulator LRPA; helix-turn-helix, LRP/ASNC family; 2.90A {Pyrococcus furiosus} SCOP: a.4.5.32 d.58.4.2 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 239
d1ufma_84 a.4.5.47 (A:) COP9 signalosome complex subunit 4, 1e-12
>d1ufma_ a.4.5.47 (A:) COP9 signalosome complex subunit 4, GSN4 {Mouse (Mus musculus) [TaxId: 10090]} Length = 84 Back     information, alignment and structure

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: PCI domain (PINT motif)
domain: COP9 signalosome complex subunit 4, GSN4
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 59.8 bits (145), Expect = 1e-12
 Identities = 12/66 (18%), Positives = 25/66 (37%), Gaps = 3/66 (4%)

Query: 128 RHYVQEMRLRAYKQILQAYRSLSLKYMAQCFGVSVEFIEKEVARFAAAGRLQCKIDSVAG 187
              V E  L +     + Y +++ + +     +     EK  ++    GR+   ID + G
Sbjct: 13  DRAVIEHNLLS---ASKLYNNITFEELGALLEIPAAKAEKIASQMITEGRMNGFIDQIDG 69

Query: 188 NVVTTS 193
            V   +
Sbjct: 70  IVHFET 75

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query239
d1ufma_84 COP9 signalosome complex subunit 4, GSN4 {Mouse (M 99.48
d1wi9a_72 Hypothetical protein C20orf116 homolog {Mouse (Mus 97.16
d2cfxa163 Transcriptional regulator LrpC {Bacillus subtilis 93.56
d2hs5a169 Putative transcriptional regulator RHA1_ro03477 {R 93.1
d2cg4a163 Regulatory protein AsnC {Escherichia coli [TaxId: 93.09
d1qqea_290 Vesicular transport protein sec17 {Baker's yeast ( 92.41
d3bwga178 Transcriptional regulator YydK {Bacillus subtilis 92.25
d1i1ga160 LprA {Archaeon Pyrococcus furiosus [TaxId: 2261]} 91.98
d2cyya160 Putative transcriptional regulator PH1519 {Archaeo 91.34
d1ub9a_100 Hypothetical protein PH1061 {Archaeon Pyrococcus h 91.12
d1z05a171 Transcriptional regulator VC2007 N-terminal domain 90.73
d1hw1a174 Fatty acid responsive transcription factor FadR, N 90.01
d1j5ya165 Putative transcriptional regulator TM1602, N-termi 88.97
d1jhfa171 LexA repressor, N-terminal DNA-binding domain {Esc 88.76
d1z6ra170 Mlc protein N-terminal domain {Escherichia coli [T 88.12
d1dpua_69 C-terminal domain of RPA32 {Human (Homo sapiens) [ 86.29
d1sfxa_109 Hypothetical protein AF2008 {Archaeoglobus fulgidu 84.81
d1biaa163 Biotin repressor, N-terminal domain {Escherichia c 81.66
d1k78a163 Pax-5 {Human (Homo sapiens) [TaxId: 9606]} 81.29
d2crua1105 Programmed cell death protein 5 {Human (Homo sapie 80.65
d1lvaa364 C-terminal fragment of elongation factor SelB {Moo 80.64
>d1ufma_ a.4.5.47 (A:) COP9 signalosome complex subunit 4, GSN4 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: PCI domain (PINT motif)
domain: COP9 signalosome complex subunit 4, GSN4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.48  E-value=2.3e-14  Score=103.12  Aligned_cols=64  Identities=14%  Similarity=0.206  Sum_probs=61.2

Q ss_pred             HHHHHHHHHHHHHhhhhhcccHHHHHHHhCCCHHHHHHHHHHHHHcCccceeecccCCEEEEecc
Q psy396          130 YVQEMRLRAYKQILQAYRSLSLKYMAQCFGVSVEFIEKEVARFAAAGRLQCKIDSVAGNVVTTSH  194 (239)
Q Consensus       130 l~~~ir~~~l~qyl~pYs~v~l~~mA~~fg~s~~~lE~~L~~lI~~g~l~arID~~~~~l~~~~~  194 (239)
                      |.+.+++.++..+-+||++|+|++||+.||+|++++|.+|++||.+|+|+|+||+++|+|+. ..
T Consensus        12 L~~~i~Ehni~~is~~Y~~Isl~~la~~l~l~~~evE~~l~~mI~~~~i~akIDq~~g~V~F-~~   75 (84)
T d1ufma_          12 LDRAVIEHNLLSASKLYNNITFEELGALLEIPAAKAEKIASQMITEGRMNGFIDQIDGIVHF-ET   75 (84)
T ss_dssp             CCHHHHHHHHHHHHHSCSEEEHHHHHHHTTSCHHHHHHHHHHHHHTTSSCEEEETTTTEEEE-CC
T ss_pred             HHHHHHHHHHHHHHHhhceeeHHHHHHHHCCCHHHHHHHHHHHHhcCeEEEEEeCCCCEEEE-CC
Confidence            56789999999999999999999999999999999999999999999999999999999998 55
>d1wi9a_ a.4.5.47 (A:) Hypothetical protein C20orf116 homolog {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2cfxa1 a.4.5.32 (A:1-63) Transcriptional regulator LrpC {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure
>d2hs5a1 a.4.5.6 (A:25-93) Putative transcriptional regulator RHA1_ro03477 {Rhodococcus sp. RHA1 [TaxId: 101510]} Back     information, alignment and structure
>d2cg4a1 a.4.5.32 (A:4-66) Regulatory protein AsnC {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d3bwga1 a.4.5.6 (A:5-82) Transcriptional regulator YydK {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure
>d1i1ga1 a.4.5.32 (A:2-61) LprA {Archaeon Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure
>d2cyya1 a.4.5.32 (A:5-64) Putative transcriptional regulator PH1519 {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Back     information, alignment and structure
>d1ub9a_ a.4.5.28 (A:) Hypothetical protein PH1061 {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Back     information, alignment and structure
>d1z05a1 a.4.5.63 (A:10-80) Transcriptional regulator VC2007 N-terminal domain {Vibrio cholerae [TaxId: 666]} Back     information, alignment and structure
>d1hw1a1 a.4.5.6 (A:5-78) Fatty acid responsive transcription factor FadR, N-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1j5ya1 a.4.5.1 (A:3-67) Putative transcriptional regulator TM1602, N-terminal domain {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d1jhfa1 a.4.5.2 (A:2-72) LexA repressor, N-terminal DNA-binding domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1z6ra1 a.4.5.63 (A:12-81) Mlc protein N-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1dpua_ a.4.5.16 (A:) C-terminal domain of RPA32 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1sfxa_ a.4.5.50 (A:) Hypothetical protein AF2008 {Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d1biaa1 a.4.5.1 (A:1-63) Biotin repressor, N-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1k78a1 a.4.1.5 (A:19-81) Pax-5 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2crua1 a.5.6.1 (A:8-112) Programmed cell death protein 5 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1lvaa3 a.4.5.35 (A:511-574) C-terminal fragment of elongation factor SelB {Moorella thermoacetica [TaxId: 1525]} Back     information, alignment and structure